BLASTP 2.2.22 [Sep-27-2009]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.


Reference for composition-based statistics:
Schaffer, Alejandro A., L. Aravind, Thomas L. Madden,
Sergei Shavirin, John L. Spouge, Yuri I. Wolf,  
Eugene V. Koonin, and Stephen F. Altschul (2001), 
"Improving the accuracy of PSI-BLAST protein database searches with 
composition-based statistics and other refinements",  Nucleic Acids Res. 29:2994-3005.

Query= gi|254780837|ref|YP_003065250.1| putative restriction
endonuclease S subunit [Candidatus Liberibacter asiaticus str. psy62]
         (426 letters)

Database: nr 
           14,124,377 sequences; 4,842,793,630 total letters

Searching..................................................done



>gi|254780837|ref|YP_003065250.1| putative restriction endonuclease S subunit [Candidatus
           Liberibacter asiaticus str. psy62]
 gi|254040514|gb|ACT57310.1| putative restriction endonuclease S subunit [Candidatus
           Liberibacter asiaticus str. psy62]
          Length = 426

 Score =  341 bits (874), Expect = 2e-91,   Method: Composition-based stats.
 Identities = 426/426 (100%), Positives = 426/426 (100%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT 60
           MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT
Sbjct: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT 60

Query: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL 120
           GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL
Sbjct: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL 120

Query: 121 PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
           PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR
Sbjct: 121 PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180

Query: 181 IDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFAL 240
           IDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFAL
Sbjct: 181 IDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFAL 240

Query: 241 VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQN 300
           VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQN
Sbjct: 241 VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQN 300

Query: 301 DKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFE 360
           DKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFE
Sbjct: 301 DKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFE 360

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQID 420
           DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQID
Sbjct: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQID 420

Query: 421 LRGESQ 426
           LRGESQ
Sbjct: 421 LRGESQ 426


>gi|152973654|ref|YP_001338694.1| putative restriction endonuclease S subunit [Klebsiella pneumoniae
           subsp. pneumoniae MGH 78578]
 gi|294496729|ref|YP_003560422.1| putative restriction endonuclease S subunit [Klebsiella pneumoniae]
 gi|150958436|gb|ABR80464.1| putative restriction endonuclease S subunit [Klebsiella pneumoniae
           subsp. pneumoniae MGH 78578]
 gi|293339438|gb|ADE43992.1| putative restriction endonuclease S subunit [Klebsiella pneumoniae]
          Length = 438

 Score =  286 bits (731), Expect = 5e-75,   Method: Composition-based stats.
 Identities = 238/436 (54%), Positives = 283/436 (64%), Gaps = 13/436 (2%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKD----IIYIGLEDV 56
           M  YKAY  YKDSGV+WIG +P+HW+V  ++   + +     +   +    +      DV
Sbjct: 1   MSQYKAYTSYKDSGVEWIGQVPEHWEVKRLRHVGRYSNSGVDKKSYEDQQTVELCNYTDV 60

Query: 57  ESGTG--KYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAII-----ADFDGICST 109
                    +P    +  +         KG ++  K         I      D  G+   
Sbjct: 61  YYNEFISDDMPFMQATASAHEIEQFTLKKGDVIITKDSEDPSDIGIPAFVPHDMPGVVCG 120

Query: 110 QFLVLQPKDVLPELLQGWL--LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQ 167
             L +                 S            G T    +   IGN P+ +PP  EQ
Sbjct: 121 YHLTMIRALNDNYGSYIHRSIQSDHTRAHFFVESPGITRYGLNQNTIGNAPVALPPPEEQ 180

Query: 168 VLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGL 227
             I   +  ET RID L+ ++IRFIELLKEK+QAL+++ VTKGL+P+VKMKDSG+EW+G 
Sbjct: 181 ATIAATLDRETARIDALVEKKIRFIELLKEKRQALITHAVTKGLDPNVKMKDSGVEWIGQ 240

Query: 228 VPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVD 287
           VP+HWEVKPFFALV+ELNRKN  L E+NILSLSYGNIIQK ETRNMGL PESYETYQIV+
Sbjct: 241 VPEHWEVKPFFALVSELNRKNVGLAETNILSLSYGNIIQKPETRNMGLTPESYETYQIVE 300

Query: 288 PGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY 347
            GE+VFRF DLQNDKRSLRSAQV +RGIITSAYMAVKPH I STY AWLMRSYDLCKVFY
Sbjct: 301 SGEVVFRFTDLQNDKRSLRSAQVTQRGIITSAYMAVKPHSIGSTYFAWLMRSYDLCKVFY 360

Query: 348 AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
           AMG GLRQSLKFEDV+RLPVL+PP+ EQ +ITN IN  TARID LVEK EQSI LLKERR
Sbjct: 361 AMGGGLRQSLKFEDVRRLPVLIPPVGEQSEITNTINAGTARIDALVEKTEQSITLLKERR 420

Query: 408 SSFIAAAVTGQIDLRG 423
           ++FI AAVTGQIDLRG
Sbjct: 421 AAFITAAVTGQIDLRG 436


>gi|282901858|ref|ZP_06309764.1| Restriction modification system DNA specificity domain protein
           [Cylindrospermopsis raciborskii CS-505]
 gi|281193254|gb|EFA68245.1| Restriction modification system DNA specificity domain protein
           [Cylindrospermopsis raciborskii CS-505]
          Length = 445

 Score =  285 bits (730), Expect = 6e-75,   Method: Composition-based stats.
 Identities = 120/433 (27%), Positives = 202/433 (46%), Gaps = 15/433 (3%)

Query: 2   KHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFT-KLNTGRTSESG------KDIIYIGLE 54
           K +K YP YKDSGV+W+G IP+HW+V  +     K+ +G T  +        +I ++   
Sbjct: 14  KGWKRYPAYKDSGVEWLGKIPEHWEVRKVSHAFQKIGSGTTPSTNHYDYYEGNIPWVNTS 73

Query: 55  DVESGTGKYLPKDGNSRQS-DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLV 113
           ++             ++   D S ++++  G +L    G  + +  I       +     
Sbjct: 74  ELREKVITDTSAKLTNKALLDHSVLNLYPPGTLLIAMYGATIGRLGILGITACTNQACCA 133

Query: 114 LQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
           L     +      + L +     +  +  G    + + + I +I +P PPL EQ  I + 
Sbjct: 134 LANPISINAKFAFYWLWMR-RNELILLSSGGGQPNINQEKIRSIRIPAPPLTEQQAIAQF 192

Query: 174 IIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWE 233
           +  ET +IDTL+ ++ R IELLKEK+ AL+S+ VTKGLNPD  MKDSG+EW+G VP +W 
Sbjct: 193 LDRETAKIDTLVAKKERLIELLKEKRTALISHAVTKGLNPDAPMKDSGVEWLGEVPRNWP 252

Query: 234 VKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVF 293
           +     +    + K T+  ++           +               T    + G+++F
Sbjct: 253 MIRLKHVAPVSSAKLTQKPDNLPYIGLEHIESKTGRLLLDTPVENVESTVSCFEKGDVLF 312

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI-DSTYLAWLMRSYDLCKVFYAMGSG 352
             +     K  L   +    G+ T+  +A+KP    +  +L + + +        +   G
Sbjct: 313 GKLRPYLAKVLLAEFE----GVSTTELLALKPSQDVNGKFLFFQLIAEGFIDQVNSFTYG 368

Query: 353 L-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
                +  E +  L + +PP+ EQ  I   ++ ETA+ID LV K   SI  LKE R++ I
Sbjct: 369 TKMPRVGPEQITNLFIPLPPLPEQQAIAQFLDRETAKIDTLVAKTRTSIEKLKEYRTALI 428

Query: 412 AAAVTGQIDLRGE 424
           +AAVTG+ID+R E
Sbjct: 429 SAAVTGKIDVREE 441



 Score =  143 bits (359), Expect = 8e-32,   Method: Composition-based stats.
 Identities = 48/220 (21%), Positives = 86/220 (39%), Gaps = 14/220 (6%)

Query: 207 VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ 266
           + KG       KDSG+EW+G +P+HWEV+       ++    T               + 
Sbjct: 12  IVKGWKRYPAYKDSGVEWLGKIPEHWEVRKVSHAFQKIGSGTTPSTNHYDYYEGNIPWVN 71

Query: 267 KLETRNMGLKPE----------SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
             E R   +              +    +  PG ++         +  +    +      
Sbjct: 72  TSELREKVITDTSAKLTNKALLDHSVLNLYPPGTLLIAMYGATIGRLGI----LGITACT 127

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
             A  A+      +   A+        ++      G + ++  E ++ + +  PP+ EQ 
Sbjct: 128 NQACCALANPISINAKFAFYWLWMRRNELILLSSGGGQPNINQEKIRSIRIPAPPLTEQQ 187

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
            I   ++ ETA+ID LV K E+ I LLKE+R++ I+ AVT
Sbjct: 188 AIAQFLDRETAKIDTLVAKKERLIELLKEKRTALISHAVT 227


>gi|145629009|ref|ZP_01784808.1| putative type I site-specific restriction-modification system, S
           subunit [Haemophilus influenzae 22.1-21]
 gi|145639608|ref|ZP_01795212.1| putative type I site-specific restriction-modification system, S
           subunit [Haemophilus influenzae PittII]
 gi|144978512|gb|EDJ88235.1| putative type I site-specific restriction-modification system, S
           subunit [Haemophilus influenzae 22.1-21]
 gi|145271399|gb|EDK11312.1| putative type I site-specific restriction-modification system, S
           subunit [Haemophilus influenzae PittII]
 gi|162949226|gb|ABY21299.1| probable type I restriction-modification system specificity protein
           [Haemophilus influenzae]
 gi|309750476|gb|ADO80460.1| Probable type I restriction modification system, specificity
           component HsdS2 [Haemophilus influenzae R2866]
          Length = 433

 Score =  275 bits (702), Expect = 1e-71,   Method: Composition-based stats.
 Identities = 141/433 (32%), Positives = 225/433 (51%), Gaps = 17/433 (3%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSE-SGKDIIYIGLEDVESGTGKY 63
           + Y +YKDSGV+W+G IP HW+ VP++   K    + +     +I+ + + +  +     
Sbjct: 2   RRYERYKDSGVEWLGEIPTHWECVPLRSIFKFRNEKNNPIKTDNILSLSIANGVTEYSD- 60

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVL--QPKDVLP 121
             + GN R+ D S+  +     I+   +   +    ++ + G  S  +  L    +    
Sbjct: 61  ENRGGNKRKDDLSSYKLAYPNDIVLNSMNVIVGAVGVSKYFGAISPVYYALSLHNQRANL 120

Query: 122 ELLQGWLLSIDVTQRIEAICEG------------ATMSHADWKGIGNIPMPIPPLAEQVL 169
              +    + +  + +    +G                      +  +  PI PL EQ  
Sbjct: 121 SYYESIFKNENFQRGLLRFGKGILIKFGENGKMNTIRMKISQDDLKKLYFPISPLDEQQK 180

Query: 170 IREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVP 229
           I + +  +T +ID  +    + I LLKE KQ L+   VT+GLNPDV +KDSG+EW+G VP
Sbjct: 181 IAQFLDDKTAKIDRAVELAEKQIALLKEHKQILIQNAVTRGLNPDVPLKDSGVEWIGQVP 240

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG 289
           +HWE+     +  E  R N  + E+ +LSLSYG II K E +  GL PES+ETYQIV+P 
Sbjct: 241 EHWELTIGMNVFRENKRDNKGMKENTVLSLSYGKIIIKPEEKLFGLVPESFETYQIVEPN 300

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYM-AVKPHGIDSTYLAWLMRSYDLCKVFYA 348
           +I+ R  DLQND+ SLR+    ++GIITSAY+     +   + +L + + + D+ KV Y 
Sbjct: 301 DIIIRCTDLQNDQTSLRTGLAQDKGIITSAYLNLKVINNYSAKFLHYYLHALDITKVLYK 360

Query: 349 MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
            GSGLRQ+L F D KRLP++   + EQ  I + ++ +T++ID  +      I  LKE +S
Sbjct: 361 FGSGLRQNLSFLDFKRLPIIDISLAEQQQIADYLDKQTSKIDQAIALKTAHIEKLKEYKS 420

Query: 409 SFIAAAVTGQIDL 421
             I   VTG++ +
Sbjct: 421 VLINDVVTGKVRV 433


>gi|145631519|ref|ZP_01787287.1| putative type I site-specific restriction-modification system, S
           subunit [Haemophilus influenzae R3021]
 gi|144982864|gb|EDJ90381.1| putative type I site-specific restriction-modification system, S
           subunit [Haemophilus influenzae R3021]
          Length = 433

 Score =  273 bits (698), Expect = 3e-71,   Method: Composition-based stats.
 Identities = 142/433 (32%), Positives = 224/433 (51%), Gaps = 17/433 (3%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSE-SGKDIIYIGLEDVESGTGKY 63
           + Y +YKDSGV+W+G IP HW+ +PI+   K    +       +I+ + + +  +     
Sbjct: 2   RRYERYKDSGVEWLGEIPSHWECLPIRSIFKFRNEKNDPIKTDNILSLSIANGVTEYSD- 60

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVL--QPKDVLP 121
             + GN R+ D S+  +     I+   +   +    ++ + G  S  +  L    +    
Sbjct: 61  ENRGGNKRKDDLSSYKLAYPNDIVLNSMNVIVGAVGVSKYFGAISPVYYALSLHNQRANL 120

Query: 122 ELLQGWLLSIDVTQRIEAICEG------------ATMSHADWKGIGNIPMPIPPLAEQVL 169
              +    + +  + +    +G                      +  +  PI PL EQ  
Sbjct: 121 SYYESIFKNENFQRGLLRFGKGILIKFGENGKMNTIRMKISQDDLKKLYFPISPLDEQQK 180

Query: 170 IREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVP 229
           I + +  +T +ID  +    + I LLKE KQ L+   VT+GLNPDV +KDSG+EW+G VP
Sbjct: 181 IAQFLDDKTAKIDRAVELAEKQIALLKEHKQILIQNAVTRGLNPDVPLKDSGVEWIGQVP 240

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG 289
           +HWE+     +  E  R N  + E+ +LSLSYG II K E +  GL PES+ETYQIV+P 
Sbjct: 241 EHWELTIGMNVFRENKRDNKGMKENTVLSLSYGKIIIKPEEKLFGLVPESFETYQIVEPN 300

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYM-AVKPHGIDSTYLAWLMRSYDLCKVFYA 348
           +I+ R  DLQND+ SLR+    ++GIITSAY+     +   + +L + + + D+ KV Y 
Sbjct: 301 DIIIRCTDLQNDQTSLRTGLAQDKGIITSAYLNLKVINNYSAKFLHYYLHALDITKVLYK 360

Query: 349 MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
            GSGLRQ+L F D KRLP++   + EQ  I + ++ +TA+ID  +      I  LKE +S
Sbjct: 361 FGSGLRQNLSFLDFKRLPIIDISLAEQQKIADYLDTQTAKIDRAIALKTAHIEKLKEYKS 420

Query: 409 SFIAAAVTGQIDL 421
             I   VTG++ +
Sbjct: 421 VLINDVVTGKVRV 433


>gi|121997944|ref|YP_001002731.1| restriction modification system DNA specificity subunit
           [Halorhodospira halophila SL1]
 gi|121589349|gb|ABM61929.1| restriction modification system DNA specificity domain
           [Halorhodospira halophila SL1]
          Length = 429

 Score =  262 bits (669), Expect = 8e-68,   Method: Composition-based stats.
 Identities = 137/433 (31%), Positives = 199/433 (45%), Gaps = 28/433 (6%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT 60
           M  + AYP+YKDSGV+W+G +P+HW V  +KR  +L +G    S          D  S  
Sbjct: 1   MS-FPAYPEYKDSGVEWLGEVPEHWSVSALKRVARLESGDAISS----------DHISEE 49

Query: 61  GKYLPKDGNSRQSDTSTVSI--FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKD 118
           G+Y    GN  +  +S  +   F     L G+ G        A      S   +V+ P  
Sbjct: 50  GEYAVYGGNGIRGFSSGYTHDGFYP---LIGRQGALCGNVNYAKGRFWASEHAVVVWPGR 106

Query: 119 VLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
            +     G LL       +      A       + I N+ +P+PP  EQ  I E +  ET
Sbjct: 107 QIDGFWLGELLRS---MNLNQYATSAAQPGLSVETIENLYVPVPPDEEQQKIAELLDHET 163

Query: 179 VRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFF 238
            RID LI E+ R IELLKEK+QA++S+ VTKGL+PDV MKDSG+EW+G VP HW+V  F 
Sbjct: 164 ARIDALIEEQQRLIELLKEKRQAVISHAVTKGLDPDVPMKDSGVEWLGEVPAHWDVVKFV 223

Query: 239 ALVTELNRKNTKLIESNI-LSLSYGNIIQKLETRNMGLKPESY----ETYQIVDPGEIVF 293
                   +     E    + L   N I+    R M  +                G++++
Sbjct: 224 RCAKIAEGQVDPKQEPYRSMMLVAPNHIESGTGRLMARETAEEQGAESGKYYCYAGDVIY 283

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV-FYAMGSG 352
             I     K  +     +        Y      G+   YL W + S     + F      
Sbjct: 284 SKIRPSLRKACVAYEDCL---CSADMYPLRAQSGVYGDYLRWTILSESFSTLAFLESERV 340

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
               +  E ++ + + +PP +EQ  I+  +  ETARID L+E+ E  I LL+ERRS+ I+
Sbjct: 341 AMPKVNRESIEEIRIPMPPPEEQLQISRTLEKETARIDALMEEAESGIQLLQERRSALIS 400

Query: 413 AAVTGQIDLRGES 425
           AAVTG+ID+R  +
Sbjct: 401 AAVTGKIDVRDWA 413


>gi|255320275|ref|ZP_05361460.1| restriction endonuclease S subunit [Acinetobacter radioresistens
           SK82]
 gi|255302714|gb|EET81946.1| restriction endonuclease S subunit [Acinetobacter radioresistens
           SK82]
          Length = 461

 Score =  262 bits (669), Expect = 8e-68,   Method: Composition-based stats.
 Identities = 124/449 (27%), Positives = 208/449 (46%), Gaps = 25/449 (5%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESG----KDIIYIGLEDV 56
           M  Y+AY +YKDSGV+W+G +P HW +  +KR+  +  G    S          I + D+
Sbjct: 1   MAKYQAYAEYKDSGVEWLGVVPSHWIITTLKRYCYVKGGFAFSSDAFIDTGYPVIRIGDI 60

Query: 57  ESGTGKYLPKDGNSRQS--DTSTVSIFAKGQILYGKLGPYLRKAIIA--DFDGICSTQFL 112
           ++     L       +S    S   +  K Q+L    G  + KA +   +     + +  
Sbjct: 61  KTDGSINLENCKYIPESLAVNSRDYLVEKNQLLMAMTGATIGKAGLYTSNQPAFLNQRVG 120

Query: 113 VLQPKDVLPELLQGWLL--SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLI 170
             +           W +  +    + I+    G    +     + + P  IP   EQ  I
Sbjct: 121 KFELLAQNMNYRYLWYILKTDGYQEYIKLTAFGGAQPNISDTAMVDYPATIPSFDEQTQI 180

Query: 171 REKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPD 230
              +  ET +ID LI ++ R IELLKEK+QA++S+ VTKGLNP+V MKDSG+EW+G VP+
Sbjct: 181 ANFLDHETSKIDHLIEKQQRLIELLKEKRQAVISHAVTKGLNPNVPMKDSGVEWLGEVPE 240

Query: 231 HWEVKPFFALVTELNR--------KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET 282
           HW +       +   R         +    +   L LS  NI    +         S++ 
Sbjct: 241 HWRISRLKYNASIFGRIGFRGYTVDDIVDEDEGALVLSPSNISNANKLTLEKKTYLSWKK 300

Query: 283 YQ-----IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
           Y      IVD  +++         K ++   ++ E   I      +K   I+  +L +L 
Sbjct: 301 YFESPEIIVDENDLLLVKTGSTFGKSAIIVNKL-EPMTINPQMALIKKSKIEPRFLGYLF 359

Query: 338 RSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
            S  +  +     +G    ++  E++   P+ +P  +E   I+N ++ +T +ID L+EK 
Sbjct: 360 GSKLIKSIIENSNTGSGMPTMTQENINNFPIPLPSDEEAIIISNYLDNKTYKIDFLIEKS 419

Query: 397 EQSIVLLKERRSSFIAAAVTGQIDLRGES 425
           EQ+I+L++ERR++ I+AAVTG+ID+R   
Sbjct: 420 EQTILLMQERRTALISAAVTGKIDVRNWQ 448


>gi|113477871|ref|YP_723932.1| restriction modification system DNA specificity subunit
           [Trichodesmium erythraeum IMS101]
 gi|110168919|gb|ABG53459.1| restriction modification system DNA specificity domain
           [Trichodesmium erythraeum IMS101]
          Length = 415

 Score =  262 bits (668), Expect = 1e-67,   Method: Composition-based stats.
 Identities = 164/420 (39%), Positives = 242/420 (57%), Gaps = 15/420 (3%)

Query: 3   HYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGK 62
           +++ YP YK SGV+W+G IP+HW++  +K  + L  G +         +G E+ E G   
Sbjct: 5   NWQKYPVYKSSGVEWLGEIPEHWEMKRLKFISHLVYGDS---------LGSENREDGNIN 55

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPE 122
               +G       +         I+ G+ G + +            T +L+ Q K     
Sbjct: 56  VYGSNGMIGLHSKANTL---SPVIIVGRKGSFGKIQYSLFPCFCIDTAYLIDQRKTKQNL 112

Query: 123 LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
               + L I     ++ I +   +     +      +P+ PL+EQ  I   +  +  +ID
Sbjct: 113 KWLCYALQIL---ELDKISQDTGVPGLSREKAYQKLVPVSPLSEQQAIANFLDEKLAQID 169

Query: 183 TLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVT 242
             I ++ R IELLKE+K  +++  VTKG+NPDV MK SGIEW+G VP+HWEV P FA+  
Sbjct: 170 EYIAKKQRIIELLKEQKTVIINQAVTKGINPDVSMKYSGIEWLGEVPEHWEVLPAFAVFK 229

Query: 243 ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK 302
           E    N  L+E N+LSLSYG II+K  T N GL PES+ETYQIV PG I+ R  DLQNDK
Sbjct: 230 EQCVINRDLVEKNLLSLSYGKIIRKSFTNNFGLLPESFETYQIVTPGNIILRLTDLQNDK 289

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDV 362
           RSLR   V E+GIITSAY+ + P  +   Y+  L+  YD+ K+FY+MGSG+RQ++KF+D+
Sbjct: 290 RSLRVGLVKEKGIITSAYLCLNPQNVIPEYVYTLLHIYDILKIFYSMGSGVRQNMKFKDL 349

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
           KRLP+  PP+ EQ +I + I  +  +I+  +  IE+ I L++E R++ I+  VTG+ID+R
Sbjct: 350 KRLPITFPPVSEQKEIVSFIEKKLEKIERSLTVIEKEIKLIQEYRTTLISETVTGKIDVR 409



 Score = 95.2 bits (235), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 44/211 (20%), Positives = 80/211 (37%), Gaps = 16/211 (7%)

Query: 206 IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII 265
           +V          K SG+EW+G +P+HWE+K    +   +   +                 
Sbjct: 1   MVNFNWQKYPVYKSSGVEWLGEIPEHWEMKRLKFISHLVYGDSLGSENRED--------- 51

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
             +           +     + P  IV R       + SL     ++        +  + 
Sbjct: 52  GNINVYGSNGMIGLHSKANTLSPVIIVGRKGSFGKIQYSLFPCFCIDTAY----LIDQRK 107

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
              +  +L + ++  +L K+    G      L  E   +  V V P+ EQ  I N ++ +
Sbjct: 108 TKQNLKWLCYALQILELDKISQDTG---VPGLSREKAYQKLVPVSPLSEQQAIANFLDEK 164

Query: 386 TARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
            A+ID  + K ++ I LLKE+++  I  AVT
Sbjct: 165 LAQIDEYIAKKQRIIELLKEQKTVIINQAVT 195


>gi|114778243|ref|ZP_01453115.1| HsdS protein [Mariprofundus ferrooxydans PV-1]
 gi|114551490|gb|EAU54045.1| HsdS protein [Mariprofundus ferrooxydans PV-1]
          Length = 462

 Score =  258 bits (660), Expect = 8e-67,   Method: Composition-based stats.
 Identities = 123/441 (27%), Positives = 208/441 (47%), Gaps = 22/441 (4%)

Query: 3   HYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGR-TSESGKDIIYIGLEDVESGTG 61
            Y  YP+YKDSGV+W+G IP HW +   K  ++L   +      K+  +I +E +++ + 
Sbjct: 4   KYPPYPEYKDSGVEWLGEIPAHWVLTRTKYISELTPKKPKISRDKECSFIPMEKLKTDSI 63

Query: 62  KYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAII------ADFDGICSTQFLVLQ 115
                   +        + FA   +L  K+ P      I       +  G  S++  V++
Sbjct: 64  VLDEVR--TIDDVYDGYTYFADSDVLMAKVTPCFENKNIAIAQDLVNGVGFGSSEIYVIR 121

Query: 116 PKDVLPELLQGWLLSID-VTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREK 173
               +      + L  D   +   A   GA  +       + N    +P   EQ+ I   
Sbjct: 122 ANQRVSNRFLFYRLQEDSFMEIAIAAMTGAGGLKRVPSDVLNNYIAAVPQHDEQMEIANF 181

Query: 174 IIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWE 233
           +  ET +IDTLI ++ + I+LLKEK+QA++S+ VTKGLNPD  M++SGIEW+G VP HWE
Sbjct: 182 LDRETAKIDTLIEKQQQLIKLLKEKRQAVISHAVTKGLNPDAPMRNSGIEWLGEVPAHWE 241

Query: 234 VKPFFALVTELNR------KNTKLIESNILSLSYGNIIQ-KLETRNMGLKPE---SYETY 283
           +       +   R      K  + ++   + L+  NI   K++  N+    +        
Sbjct: 242 ISSLGFECSVKARLGWKGLKAEEYVDEGYIFLATPNIKGEKIDFENVNYITKARYDESPE 301

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC 343
            +++ G+++           ++         + +S  +      IDS+YL +   S  + 
Sbjct: 302 IMLNEGDVLVTKDGSTTGTTNIVRELPSPATVNSSIAVLRSVGRIDSSYLYYFFVSTYVQ 361

Query: 344 KVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
            V   +  G     L   D+++  VL+PP KEQ +I   I++   + D L+ K E SI+L
Sbjct: 362 NVIKRIQGGMGVPHLFQADLRKFNVLMPPFKEQKEIAAEIDMRLPKFDDLIAKAEYSILL 421

Query: 403 LKERRSSFIAAAVTGQIDLRG 423
           +KERR++ I+AAVTG+ID+R 
Sbjct: 422 MKERRTALISAAVTGKIDVRH 442


>gi|294054710|ref|YP_003548368.1| restriction modification system DNA specificity domain protein
           [Coraliomargarita akajimensis DSM 45221]
 gi|293614043|gb|ADE54198.1| restriction modification system DNA specificity domain protein
           [Coraliomargarita akajimensis DSM 45221]
          Length = 447

 Score =  257 bits (656), Expect = 3e-66,   Method: Composition-based stats.
 Identities = 111/438 (25%), Positives = 192/438 (43%), Gaps = 16/438 (3%)

Query: 3   HYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGK 62
            YKAYP+Y+DSG  W+G +P  W V   K      + R+    + ++ +         G 
Sbjct: 4   RYKAYPEYRDSGFSWMGEVPSGWSVQRGKYVFSEFSERSESGNETLLSVSEYYGVKPRGD 63

Query: 63  YL-PKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP-KDVL 120
            +   +  SR              ++   +  + R   +  +DGI S  + V +  +   
Sbjct: 64  VIADGEFLSRAESLVGYKFCKANDLVMNIMLAWKRGLGVTKYDGIVSPAYSVFRFGEYAD 123

Query: 121 PELLQGWLLSIDVTQRIEAICEG--ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
           P+ +   L +   T   +    G   +      +  G+  + +P L EQ  I   +  ET
Sbjct: 124 PDYMHYLLRTDLYTGHFKTRSTGVIDSRLRLYPESFGDTSILLPSLPEQKQIARFLDHET 183

Query: 179 VRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFF 238
            +ID LI ++   I LLKEK+QA++S+ VTKGLNPD KMKDSG+EW+G VP+HWEV    
Sbjct: 184 AKIDRLIAKQQELIALLKEKRQAVISHAVTKGLNPDAKMKDSGVEWLGQVPEHWEVTYLT 243

Query: 239 ALVTELNRKNT------KLIESNILSLSYGNIIQK----LETRNMGLKPESYETYQIVDP 288
            +V    R           +++ +  +  G++                 ES      +  
Sbjct: 244 HIVDPSRRIMYGIVLPGPNVDNGVPIVKGGDVKPGRLRLDSLCKTTYVIESNYERSRLKT 303

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA 348
           G+IV+       D   +   ++    +   A         D+ +L + M+S  +      
Sbjct: 304 GDIVYSIRGTIGDVE-IVPEEINGANLTQDAARIAPKVPSDNRWLMYTMKSTSVFSQLEV 362

Query: 349 MG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
                  + +   D+K+  +  PP  E+ DI   ++++  ++D L    ++ I LL+ERR
Sbjct: 363 GSLGAAVRGINIRDLKKAIIPYPPQSERNDIEAFLDIQLGKLDRLSVDCKRQIELLQERR 422

Query: 408 SSFIAAAVTGQIDLRGES 425
           ++ I+AAVTG+ID+R   
Sbjct: 423 TALISAAVTGKIDVRDWE 440


>gi|292490880|ref|YP_003526319.1| restriction modification system DNA specificity domain protein
           [Nitrosococcus halophilus Nc4]
 gi|291579475|gb|ADE13932.1| restriction modification system DNA specificity domain protein
           [Nitrosococcus halophilus Nc4]
          Length = 441

 Score =  257 bits (656), Expect = 3e-66,   Method: Composition-based stats.
 Identities = 124/432 (28%), Positives = 203/432 (46%), Gaps = 17/432 (3%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYL 64
            +Y  YKDSGV+W+G IP HW+VVP+K    L + +      ++ YIG+E+VES TG+++
Sbjct: 2   PSYESYKDSGVEWLGEIPSHWQVVPLKYALSLASEKVITRQSNLKYIGMENVESFTGRFI 61

Query: 65  PKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELL 124
                         + F  G IL+GKL PYL K  + + +G+CST+FLV + +    +  
Sbjct: 62  ETASEVEGM----ANRFLAGDILFGKLRPYLSKVALTEVEGLCSTEFLVYRARQGSSKYF 117

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
           +  + S      + A   G+ M  A    IG   +PIP   EQ  I   +  +T +I+  
Sbjct: 118 RYLMTSSSFIDLVNASTYGSKMPRASADFIGIQRIPIPTKQEQTAIAAFLDRKTAQIEQA 177

Query: 185 ITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTEL 244
           +  + R I LLKE+KQ L+   VT+GLN D  M+DSG+EW+G VP HW+       +  L
Sbjct: 178 VNIKERQITLLKERKQILIQNAVTRGLNSDAPMRDSGVEWIGHVPKHWKFAKLKHHIDML 237

Query: 245 ---------NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRF 295
                       N++ I+               E      K  +  +   +  G++V   
Sbjct: 238 PGFAFKSSLYSSNSEDIKLLRGVNVNPGNTDWGEVVYWPKKEAADYSKYNLAKGDLVMAM 297

Query: 296 IDLQ---NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
                    + SL   + +   ++          G+ + Y++  + S      F  M +G
Sbjct: 298 DRPWISSGIRLSLIDEEDLPCLLLQRVVRIRGKSGVCTKYVSNTLSSNIFLSYFEPMLTG 357

Query: 353 L-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
           +    +  + +      VPP  EQ +I + I  E+A++D  +  +EQ I  LKE +++ I
Sbjct: 358 ISVPHISTDQIGNFSCPVPPYDEQLEILDYIETESAKLDKGITLLEQQITKLKEYKATLI 417

Query: 412 AAAVTGQIDLRG 423
            +AVTG+I + G
Sbjct: 418 NSAVTGKIKVPG 429


>gi|226940441|ref|YP_002795515.1| Type I restriction-modification system, S subunit [Laribacter
           hongkongensis HLHK9]
 gi|226715368|gb|ACO74506.1| Type I restriction-modification system, S subunit [Laribacter
           hongkongensis HLHK9]
          Length = 453

 Score =  257 bits (655), Expect = 3e-66,   Method: Composition-based stats.
 Identities = 111/444 (25%), Positives = 176/444 (39%), Gaps = 25/444 (5%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT 60
           M     YP YKDSGV+W+ +IP HW+VV +K   ++      E G  ++ I    ++   
Sbjct: 1   MS-LPKYPAYKDSGVEWLRSIPSHWEVVRLKNIFEIRKRIAGELGHSVLSITQRGIKVKD 59

Query: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVL---QPK 117
                 +      D S   I   G      +        I+   G+ S  + V       
Sbjct: 60  I---ESNDGQISMDYSKYQIVLPGDFAMNHMDLLTGYVDISSTHGVTSPDYRVFAMLDNA 116

Query: 118 DVLPELLQGWLLSIDVTQRIEAICEG---ATMSHADWKGIGNIPMPIPPLAEQVLIREKI 174
             +P        +    +   A  +G               N  +P PP  EQ  I   +
Sbjct: 117 HCVPRYFLHLFQNGYRQKIFYAFGQGASEFGRWRFPTDQFNNFRLPCPPDDEQAAIATFL 176

Query: 175 IAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEV 234
             ET +ID LI E+ + I LL EK+QA +S+ VT+GL+P V MKDSG+EW+G VP HW +
Sbjct: 177 DRETAKIDALIAEQEKLIALLAEKRQATISHAVTRGLDPAVPMKDSGVEWLGQVPAHWVI 236

Query: 235 KPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYE---------TYQI 285
                 +  + +  +    S         +++         +PE  +            +
Sbjct: 237 CSVRRKLKRIEQGWSPECFSRPAEAGEWGVLKAGCVNGGIFRPEENKALPDTLAPDENIL 296

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERG---IITSAYMAVKPHGIDSTYLAWLMRSYDL 342
           +  G+++              +          +    +      G    ++A    +  L
Sbjct: 297 IKDGDLLMSRASGSPALVGSVAYLSAPPAHLMLSDKIFRLHLEQGTLPQFVAIAFGARYL 356

Query: 343 CKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
                   SG      +L    +K   + +PP  EQ +I      ETA++D L    E +
Sbjct: 357 RHQIEQAISGAEGLANNLPQTSLKGFTIAIPPEVEQQEIVVFTQQETAKLDALKIAAEHA 416

Query: 400 IVLLKERRSSFIAAAVTGQIDLRG 423
           + LLKERR++ IAAAVTGQID+RG
Sbjct: 417 VSLLKERRAALIAAAVTGQIDVRG 440


>gi|298674425|ref|YP_003726175.1| restriction modification system DNA specificity domain-containing
           protein [Methanohalobium evestigatum Z-7303]
 gi|298287413|gb|ADI73379.1| restriction modification system DNA specificity domain protein
           [Methanohalobium evestigatum Z-7303]
          Length = 461

 Score =  257 bits (655), Expect = 3e-66,   Method: Composition-based stats.
 Identities = 122/448 (27%), Positives = 207/448 (46%), Gaps = 26/448 (5%)

Query: 2   KHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTK-LNTGRT----SESGKDIIYIGLEDV 56
             +K YP+YKDSG++W+G IP+HW V  ++R  K L  G T         +     +E +
Sbjct: 16  SGFKPYPEYKDSGIEWLGEIPEHWDVKQLRRVIKSLKNGTTAPQLDSGTTNYPVTRIETI 75

Query: 57  ESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGP---YLRKAIIADFDGICST-QFL 112
            +G   Y    G  +++D     I  K  IL   +         AI  D + +      L
Sbjct: 76  SNGYINY-NNVGYLKENDVDKRYILNKDDILISHINSLEYIGNCAIYKDNETLVHGMNLL 134

Query: 113 VLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPP---LAEQVL 169
            L P D +      + L     +    I     ++ A         +         EQ  
Sbjct: 135 RLIPDDNIIPDFLIYYLKSKNFKYSARIHAKPAINQASVSSTVLKSLKFSYPSNFNEQKS 194

Query: 170 IREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVP 229
           I   +  ET +ID LI ++ R +ELL+EK+ AL+++ V KGL+PDV+MKDSGIEW+G +P
Sbjct: 195 IANFLDKETHKIDKLIEKKQRLVELLEEKRSALINHTVAKGLDPDVEMKDSGIEWLGEIP 254

Query: 230 DHWEVKPFFA----LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY-- 283
           +HW+V          VT+   ++   +++ I  LS  + IQ  + +    +   YE +  
Sbjct: 255 EHWDVVKLKYLLRSKVTDGPHESPAFVDNGIPFLS-ADSIQNGKLKFENCRYVPYEDHIR 313

Query: 284 ----QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
                  +  +++         K +L             A +      ++S  L +++RS
Sbjct: 314 YIRKCKPEKYDLLLGKAASVG-KVALVDVDFEFSIWSPLALIKPDTRELNSKLLYYVLRS 372

Query: 340 YDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
             + K    +     + +L  ++++ L +++P + EQ  I + ++  T++ID L+ KI  
Sbjct: 373 RYVQKQIDMLNHTNTQDNLGMKEIENLKIILPSVSEQKQIADYLDQRTSKIDELINKINH 432

Query: 399 SIVLLKERRSSFIAAAVTGQIDLRGESQ 426
            I  LKE R++ I+AAVTG+ID+RGE Q
Sbjct: 433 QIEYLKEYRTALISAAVTGKIDVRGEEQ 460


>gi|288986940|ref|YP_003456903.1| restriction modification system DNA specificity domain protein
           [Allochromatium vinosum DSM 180]
 gi|288898319|gb|ADC64153.1| restriction modification system DNA specificity domain protein
           [Allochromatium vinosum DSM 180]
          Length = 453

 Score =  256 bits (654), Expect = 4e-66,   Method: Composition-based stats.
 Identities = 120/450 (26%), Positives = 202/450 (44%), Gaps = 27/450 (6%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTK--LNT--GRTSESGKDIIYIGLEDV 56
           M  +  Y +YKDSGV+W+G +P+HW +  +K   +  +N   G        I  I + D 
Sbjct: 1   MS-FPRYERYKDSGVEWLGEVPEHWILDRLKWSVEGCINGLWGDDPNGEDVIPCIRVADF 59

Query: 57  ESGTGKYLPKDGNSRQSDTSTV--SIFAKGQILYGKLG-----PYLRKAII-ADFDGICS 108
           +    +   +D   R              G +L  K G     P     +   + + +CS
Sbjct: 60  DRAKNRVRAEDLTYRSISEEKRLNRSLKNGDLLIEKSGGGDNQPVGVVVLFDHNLNAVCS 119

Query: 109 TQFLVLQPKDVLPELLQGWLLSIDV--TQRIEAICEGATMSHADWKGIGNIPMPIPPLAE 166
                +  +         +L S+        ++I +   + + D     +    IP + E
Sbjct: 120 NFVARMPVRSNFSPRFLCYLHSVLYALRLNTKSIKQNTGIQNLDSASYLDERFGIPTVYE 179

Query: 167 QVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVG 226
           Q LI + +  ET +ID LI E+ R +ELLKEK+QA++S+ VTKGLNPD  MKDSGIEW+G
Sbjct: 180 QGLIADFLDRETAKIDALIAEQQRLVELLKEKRQAVISHAVTKGLNPDAPMKDSGIEWLG 239

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYE----- 281
            VP+HW + P   L          ++       +   I++  + R   L+ E        
Sbjct: 240 EVPEHWVIVPLKHLTAPGRDIMYGIVLPGPNVDNGVPIVKGGDVRPHRLRLELLNRTTEA 299

Query: 282 -----TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWL 336
                    + P +IV+       D   L   ++++  I            ++S +L ++
Sbjct: 300 IEAPYARARLRPSDIVYSIRGSIGDAE-LVPDELLDANITQDVARISPDQTVNSLWLLFV 358

Query: 337 MRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
           M+S  +             + +   D+KR  +  P I+EQ  I   ++ ET ++D L  +
Sbjct: 359 MKSVRVFVQLEQRSLGAAVRGINIFDLKRARIPFPDIQEQKTIATFLDRETTKLDALTAE 418

Query: 396 IEQSIVLLKERRSSFIAAAVTGQIDLRGES 425
            + +I LL+ERR++ I+AAVTG+ID+RG +
Sbjct: 419 AQTAITLLQERRTALISAAVTGKIDVRGFA 448


>gi|308171852|ref|YP_003915182.1| type I restriction-modification system specificity subunit
           [Arthrobacter arilaitensis Re117]
 gi|307743224|emb|CBQ74047.1| type I restriction-modification system specificity subunit
           [Arthrobacter arilaitensis Re117]
          Length = 449

 Score =  256 bits (653), Expect = 5e-66,   Method: Composition-based stats.
 Identities = 110/438 (25%), Positives = 190/438 (43%), Gaps = 21/438 (4%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT 60
           M   K YP+YKDSGV+W+G IP  W   P+    K      +   + +       V   +
Sbjct: 1   MSQ-KPYPKYKDSGVEWLGEIPIDWSTFPLWNLFKRTKRLGNGKEELLSVYRDYGVVPKS 59

Query: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV- 119
            +    + N    D S   I   G ++  K+  +     +++ +GI S  + V +     
Sbjct: 60  SR--NDNFNKASEDLSKYQIVEIGDLVINKMKAWQGSVAVSEHNGIVSPAYFVFRALGKA 117

Query: 120 LPELLQGWLLSIDVTQRIEAICEG--ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
               +   + S    Q   +I  G        D      +P+  P L+EQ  I   +  E
Sbjct: 118 DSRFIHFLMRSTPYFQHYASISAGVRPNQWDLDPVRHRKMPVLFPSLSEQRYIAAYLDRE 177

Query: 178 TVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPF 237
           T  ID  I ++   I LL E++ A ++  VTKGL+P  +MKDS +  +GL+P  W V   
Sbjct: 178 TAEIDAFIADQEELIALLSERRTATITQAVTKGLDPKSRMKDSNVSNLGLIPAPWAVTGL 237

Query: 238 FAL---VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK--PESYE----TYQIVDP 288
                 +T+    + +        +S  ++          LK  PE+YE    T      
Sbjct: 238 KHFTLKITDGAHISPETDGGIYDFVSTRDVSDSGINFEGSLKTSPETYEYMVRTGCRPQN 297

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH--GIDSTYLAWLMRSYDLCKVF 346
           G+++F           ++        ++ S+ + ++P    +D  +L +L RS  + +  
Sbjct: 298 GDVLFSKDGTVGRTVVVQGN---HDFVVASSLIIIRPDLSKLDPNFLNYLCRSAFVQEQV 354

Query: 347 YAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
            +   G     L   ++ R+  + PP+ EQ +I + ++ ET  ID  +    ++I L KE
Sbjct: 355 RSFVKGAGLPRLSIANLLRVTGVFPPLNEQQEIVDYLDRETTEIDAAIADAREAIALSKE 414

Query: 406 RRSSFIAAAVTGQIDLRG 423
           RR++ I+AAVTG+ID+RG
Sbjct: 415 RRAAVISAAVTGKIDVRG 432


>gi|268325013|emb|CBH38601.1| putative type I restriction enzyme, DNA specificity subunit
           [uncultured archaeon]
          Length = 445

 Score =  255 bits (652), Expect = 7e-66,   Method: Composition-based stats.
 Identities = 108/438 (24%), Positives = 187/438 (42%), Gaps = 23/438 (5%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGR--TSESGKDI---IYIGLEDVESG 59
           K Y +YKDSG++WIG IP+HW+  PIK    +  G+  T +  +      Y+  +++   
Sbjct: 3   KPYLKYKDSGIEWIGEIPEHWEAKPIKYVGDIVLGKMLTPDDKEGYFRKPYLRAQNITWE 62

Query: 60  TGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADF--DGICSTQFLVLQPK 117
                            +     +  +L  + G   R AI  +   +         +  K
Sbjct: 63  KVDTEDIKEMWFSEKELSQYRLKENDLLVSEGGEVGRTAIWQNELNECYIQNSVHKITIK 122

Query: 118 DVLPELLQGWLLSIDVTQ-RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIA 176
                    +   I       ++I    +++H   + +  I    P   EQ  I   +  
Sbjct: 123 SKNNPHYYLYHFQIYGKTGYFDSIVNRVSIAHLTREKLKEIMFLSPTFHEQQTIANYLDR 182

Query: 177 ETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKP 236
           +T +IDT I  + + I+LLKE++ A+++  VTKGLNP+VK+KDSGIEW+G +P+HWE++ 
Sbjct: 183 KTHQIDTFIENKQKLIDLLKEQRAAIINQAVTKGLNPNVKLKDSGIEWLGEIPEHWELRK 242

Query: 237 FFALVTELNRKNT-------KLIESNILSLSYGNIIQKLETRNMGLKPE----SYETYQI 285
                  +    T             I  +  G++   +  +      E     Y T +I
Sbjct: 243 VGRSFNLIGSGTTPKSENIGYYENGTINWVITGDLNDGILDKTSKKITEKALDEYSTLKI 302

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV 345
              G ++         K SL + +    G +  A  A+      S   ++     +   +
Sbjct: 303 YPVGTLLIAMYGATIGKISLMNFE----GCVNQACCALSNSPYLSNEFSFYWFLANKQNI 358

Query: 346 FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
                 G + ++  E V+ L +  PP  EQ  I   ++ +T RID L+E+  + I  LKE
Sbjct: 359 INMSFGGGQPNISQEVVRSLKIPTPPSSEQQAIIYHLDEQTTRIDKLMERQGRQIEHLKE 418

Query: 406 RRSSFIAAAVTGQIDLRG 423
            R++ I+  VTG+ID+R 
Sbjct: 419 YRTTLISEVVTGKIDVRD 436


>gi|78356903|ref|YP_388352.1| type I restriction enzyme, S subunit [Desulfovibrio desulfuricans
           subsp. desulfuricans str. G20]
 gi|78219308|gb|ABB38657.1| type I restriction enzyme, S subunit [Desulfovibrio desulfuricans
           subsp. desulfuricans str. G20]
          Length = 474

 Score =  255 bits (652), Expect = 8e-66,   Method: Composition-based stats.
 Identities = 93/441 (21%), Positives = 174/441 (39%), Gaps = 20/441 (4%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT 60
           M     YP+YKD+GV W+G+IP HW     K + K    R+    +++  + +  +   T
Sbjct: 1   MMKLAPYPEYKDAGVSWVGSIPAHWPEKRAKYYFKEIDDRSQTGDEEM--LSVSHITGVT 58

Query: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL 120
            +        +            G ++   +  ++    +++  GI S  + V +P+   
Sbjct: 59  PRSQKNVTMFKAESNVGQKRCQPGDLIINTMWAWMSALGVSNHAGIVSPAYGVYRPRSNQ 118

Query: 121 PELLQGW-----LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKII 175
                       +          +    ++          ++P+  PP  EQ  I   + 
Sbjct: 119 DYDYYYLDSLLRIEGYRSEYICRSTGIRSSRLRLYPDKFLSMPVVCPPQEEQQTIARFLK 178

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVK 235
           A+       I  + RFIELLKE+KQ +++  VT+GL+P V+ K SG+EW+G +P+HW+ +
Sbjct: 179 AQDRLFRKFIRNKRRFIELLKEQKQNVINQAVTRGLDPKVQFKPSGVEWIGDIPEHWDAR 238

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE--------SYETYQIVD 287
               L         K    + + +   N +   +   +    +               + 
Sbjct: 239 RLRTLAAVRASGVDKNTNEDEVPVMLCNYVDVYKNDRITAAIDFMKATATPEEIRAFELK 298

Query: 288 PGEIVFRFIDLQNDKRSLRSA----QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC 343
            G+++        D  ++ +               A +      I+  +L     S  + 
Sbjct: 299 AGDVIITKDSESWDDIAIPTFVPETIPGVVCAYHLALIRPFSGEIEGEFLFRAFSSDPVA 358

Query: 344 KVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
             F    +G  R  L    +K     +PP++EQ  I   IN + A I   + + E+ I L
Sbjct: 359 DQFRIAATGVTRFGLAQGAIKGAFFPLPPLEEQRAIIAHINEKCAEISQAISRAEREIEL 418

Query: 403 LKERRSSFIAAAVTGQIDLRG 423
           ++E R+  I+  VTGQ+D+RG
Sbjct: 419 MREYRTRLISDVVTGQVDVRG 439


>gi|218248669|ref|YP_002374040.1| restriction modification system DNA specificity domain-containing
           protein [Cyanothece sp. PCC 8801]
 gi|218169147|gb|ACK67884.1| restriction modification system DNA specificity domain protein
           [Cyanothece sp. PCC 8801]
          Length = 453

 Score =  255 bits (652), Expect = 8e-66,   Method: Composition-based stats.
 Identities = 126/443 (28%), Positives = 206/443 (46%), Gaps = 21/443 (4%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFT-KLNTGRTSE------SGKDIIYIGL 53
           +K +K YP YK SGV ++G IP  W+V  +K    K+ +G+T +      S   II++  
Sbjct: 6   LKQWKPYPHYKPSGVDFLGDIPDGWEVKRLKWIVSKIGSGKTPKGGAEIYSDSGIIFLRS 65

Query: 54  EDVESGTGKYLPKDGNSRQSDTS-TVSIFAKGQILYGKLGPYLRKAIIADFDG---ICST 109
           +++     +       ++  D + + S      IL    G  L + +I   D      + 
Sbjct: 66  QNIHFDGLRLDDVVYINKDIDKAMSSSRVKPLDILLNITGASLGRCMIIPKDFPSSNVNQ 125

Query: 110 QFLVLQP--KDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQ 167
              +L+P    + P  L   + S  +  +I +   G +     +   GN+    P L EQ
Sbjct: 126 HVCILRPIVTRINPYFLNRVMSSNAIQNQIFSSEVGVSREGLTFAQAGNLISVFPSLPEQ 185

Query: 168 VLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGL 227
             I + +  ET +ID LIT + R IELLKEK+ AL+S+ VTKGLNPDV MKDSG+EW+G 
Sbjct: 186 EKIAQFLDEETAKIDKLITHKQRLIELLKEKRTALISHAVTKGLNPDVPMKDSGVEWLGF 245

Query: 228 VPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI----IQKLETRNMGLKPESYETY 283
           +P+HWEVK    L       + + I+  I     G      I  +   N  L     +  
Sbjct: 246 IPEHWEVKKIKRLSLVKRGASPRPIDDPIYFDDNGEYVWVRISDVTASNKYLLEAEQKLS 305

Query: 284 QIVDPGEIVF--RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD 341
           +I     +      + L       +      +  I   ++       +  YL ++    +
Sbjct: 306 EIGKRKSVPLQPNELFLSICASVGKPIITKIKCCIHDGFVYFPELKENREYLYYIFLGGE 365

Query: 342 LCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
           L K    M  G + +L  E +  + + +PP+ EQ  I   ++ +T +ID +++K  +SI 
Sbjct: 366 LYKGLGKM--GTQLNLNTEIIGDVKLPIPPVSEQQKIAEYLDEKTEQIDPIIKKTRESIE 423

Query: 402 LLKERRSSFIAAAVTGQIDLRGE 424
            LKE R++ I+AAVTG+ID+R  
Sbjct: 424 YLKEYRTALISAAVTGKIDVRQW 446


>gi|307720089|ref|YP_003891229.1| Restriction endonuclease S subunit [Sulfurimonas autotrophica DSM
           16294]
 gi|306978182|gb|ADN08217.1| Restriction endonuclease S subunit [Sulfurimonas autotrophica DSM
           16294]
          Length = 442

 Score =  254 bits (649), Expect = 2e-65,   Method: Composition-based stats.
 Identities = 128/446 (28%), Positives = 197/446 (44%), Gaps = 32/446 (7%)

Query: 2   KHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGR-TSESGKDIIYIGLEDVESGT 60
             YK YP YKDSG+ W+G +P  W V  +K   +    + +    KDI+ +    +  G 
Sbjct: 3   SKYKPYPSYKDSGIAWLGEVPIGWDVRRLKTILQERREKNSPVKTKDILSL---CMYRGV 59

Query: 61  GKYLPK--DGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKD 118
             Y  K   GN  + D +   +     I+   +        ++ + G  S  + +L P+ 
Sbjct: 60  IPYSEKGNSGNKAKDDLTAYKLAYPNDIVLNSMNVVAGSVGLSKYFGAVSPVYYMLYPRK 119

Query: 119 VLPELLQG--WLLSIDVTQRIEAICEG-------------ATMSHADWKGIGNIPMPIPP 163
              ++        S    + +  +  G                       + ++ MPIPP
Sbjct: 120 STDDISYFNAIFQSESFQKSLIGLGNGILVKQSEKTGKLNTIRMKISMDSLNDVLMPIPP 179

Query: 164 LAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIE 223
             EQ  I   +   T +IDTLI ++ + I LLKEK+QA++S  VT+GL+  V MKDSG+E
Sbjct: 180 FQEQQTIANYLDNATAKIDTLIEKQTKLIALLKEKRQAVISTAVTRGLDSSVPMKDSGVE 239

Query: 224 WVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY 283
           W+G +P+HWEVK F  L     R + KL   +ILS++   I  K      G     Y  Y
Sbjct: 240 WLGEIPEHWEVKKFKYLFEIRKRISGKL-GYDILSITQKGIKVKDIESGKGQLSSDYSKY 298

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV--KPHGIDSTYLAWLMRSYD 341
           Q V  G+     +DL      L        G+ +  Y          D+ Y  +L++   
Sbjct: 299 QHVYKGDYAMNHMDLLTGFVDLSKYD----GVTSPDYRVFSIIEKNADANYYLFLLQMGY 354

Query: 342 LCKVFYAMGSG----LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
           + K+FY +G G     R  L  +  K      PP +EQ  I   I+    +   L  K  
Sbjct: 355 INKIFYPLGQGSSQFGRWRLPSDAFKEFQAPFPPQEEQKKIAKYIDDSLTKFTKLTTKAT 414

Query: 398 QSIVLLKERRSSFIAAAVTGQIDLRG 423
           ++I LLKERR++ I+A VTG+ID+R 
Sbjct: 415 KAIELLKERRTALISAIVTGKIDVRE 440


>gi|299531531|ref|ZP_07044937.1| type I restriction-modification system, S subunit [Comamonas
           testosteroni S44]
 gi|298720494|gb|EFI61445.1| type I restriction-modification system, S subunit [Comamonas
           testosteroni S44]
          Length = 460

 Score =  253 bits (647), Expect = 3e-65,   Method: Composition-based stats.
 Identities = 115/444 (25%), Positives = 195/444 (43%), Gaps = 19/444 (4%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGR------TSESGKDIIYIGLE 54
           M  +  YP YKDSGV+W+G +P HW V P+KR   +  G+      +    + + Y+   
Sbjct: 1   MS-FPRYPAYKDSGVEWLGEVPAHWIVAPLKRGFSVTLGKMLQSDSSGPEDELLPYLRAA 59

Query: 55  DVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVL 114
           +++                          G +L  + G   R  + AD    CS Q  V 
Sbjct: 60  NIQWTGIDASDIKQMWLSPRDRVQLALQLGDLLVSEGGDVGRSCLWADEIANCSFQNSVN 119

Query: 115 QPKDVL---PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIR 171
           + +         L  W+ +I     ++ +C  +T++H   + +  +P+P P   EQ  I 
Sbjct: 120 RVRATHGGSTRFLYYWMSTIKDKGYVDVLCNKSTIAHFTAEKVAAVPVPFPLPPEQTAIV 179

Query: 172 EKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDH 231
             +  ET +ID L+ E+ + I LL+EK+QA++S+ VTKGLNP+  MKDSG+EW+  VP H
Sbjct: 180 RFLDHETAKIDALVAEQEKLIALLQEKRQAVISHAVTKGLNPNAPMKDSGVEWLREVPVH 239

Query: 232 WEVKPFFALVT--ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVD-- 287
           WEV       T  +      + +E  I   S   +  +        +   +    +++  
Sbjct: 240 WEVTALKRHWTATDCKHVTAEFVEDGIPLASIREVQSRWVELGEAKRTTEHFYQLLIEGG 299

Query: 288 ----PGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC 343
               PG+++F       +   +               +          +L   +RS  + 
Sbjct: 300 RDPRPGDLIFSRNATVGEVAQVHQDHQPFAMGQDVVLLRRITEATSPDFLQLAIRSSVVM 359

Query: 344 KVFYA-MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
                 M     + +  E+++ L +  PP  EQ  I N +  +    D L+ +   +I L
Sbjct: 360 LQLSLCMVGSTFKRINVEEIRSLVLAFPPPDEQIKIANHLLAQAESFDSLMTEARTAIAL 419

Query: 403 LKERRSSFIAAAVTGQIDLRGESQ 426
           L+ERR++ I+AAVTGQID+RG +Q
Sbjct: 420 LQERRTALISAAVTGQIDVRGWAQ 443


>gi|73668548|ref|YP_304563.1| hypothetical protein Mbar_A1015 [Methanosarcina barkeri str.
           Fusaro]
 gi|72395710|gb|AAZ69983.1| hypothetical protein Mbar_A1015 [Methanosarcina barkeri str.
           Fusaro]
          Length = 477

 Score =  253 bits (646), Expect = 3e-65,   Method: Composition-based stats.
 Identities = 118/449 (26%), Positives = 201/449 (44%), Gaps = 25/449 (5%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTG------RTSESGKDIIYI-GL 53
           ++ +K YP+YKDSGV+WIG IPK W+V  IK  T +         ++ E   +  ++   
Sbjct: 27  IREWKRYPEYKDSGVEWIGEIPKEWEVKKIKHTTYVKGRIGWQGLKSDEFIDEGPFLVTG 86

Query: 54  EDVESGTGKYLPKDG-NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIA--DFDGICSTQ 110
            D  +G+  +      N  + +        +  +L  K G   + A++         ++ 
Sbjct: 87  TDFINGSVNWGSCYHVNEERYNEDPYIQLKEKDLLITKDGTIGKVALVTRLKTKATLNSG 146

Query: 111 FLVLQP--KDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQV 168
             + +P   +     +   L S         I  G+T+ H           P+P L+EQ 
Sbjct: 147 IFLTRPLTGEYYTNFMYWLLNSEVFETFFNYISNGSTIQHLYQNVFVIFSFPLPSLSEQQ 206

Query: 169 LIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLV 228
            I   +  ET +I+TLI ++ R IELL+EK+ AL+S+ VTKGL+P  K K+SG+EWVG +
Sbjct: 207 SIVSFLDRETSKIETLIEKKQRLIELLEEKRSALISHAVTKGLDPYAKKKNSGVEWVGEI 266

Query: 229 PDHWEVKPFFA------LVTELNRKNTKLIESNILSLSYGN-IIQKLETRNMGLKPESYE 281
           P+ W +                   +    +S IL L   N     L   ++    ES +
Sbjct: 267 PEGWFLSKLKYLTSKIGSGKTPRGGSEIYCDSGILFLRSQNVHFDGLRLDDVVYIDESID 326

Query: 282 TYQ---IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK-PHGIDSTYLAWLM 337
           +      V P +++         + S+      +  +     +       IDS  L + +
Sbjct: 327 SEMSSTRVLPDDVLLNITGASIGRSSIVPKDFPQANVNQHVCIIRPLKKKIDSRLLHYEL 386

Query: 338 RSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPP-IKEQFDITNVINVETARIDVLVEK 395
            S  +  + ++  +G  R+ L F  +    + +P  + EQ  I N ++ +T +ID  + K
Sbjct: 387 SSNGVQALIFSNENGTSREGLTFSQISNFVIAIPNNLDEQRHIANFLDHKTEKIDTFINK 446

Query: 396 IEQSIVLLKERRSSFIAAAVTGQIDLRGE 424
           I   I  LKE R++ I+AAVTG+ID+R E
Sbjct: 447 ISAQIEKLKEYRTALISAAVTGKIDVREE 475


>gi|284041088|ref|YP_003391018.1| restriction modification system DNA specificity domain protein
           [Spirosoma linguale DSM 74]
 gi|283820381|gb|ADB42219.1| restriction modification system DNA specificity domain protein
           [Spirosoma linguale DSM 74]
          Length = 441

 Score =  253 bits (645), Expect = 5e-65,   Method: Composition-based stats.
 Identities = 124/433 (28%), Positives = 211/433 (48%), Gaps = 21/433 (4%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSE---SGKDIIYIGLEDVESGTGK 62
            YPQYKDSG++WIG IP HW+V  IK   K+N     E       I Y+ +  V    G 
Sbjct: 13  RYPQYKDSGLEWIGEIPAHWEVGRIKYVCKINQRSLPESTAKSFPIHYVDIGSVTLEEGI 72

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFD---GICSTQFLVLQPKDV 119
              ++   + + +    I   G  +   +  YL+     D      I ST F VL P  +
Sbjct: 73  VQTEEFEFKNAPSRARRIANAGDTIISTVRTYLKAIAFVDEQQSQFIYSTGFAVLNPLPL 132

Query: 120 L-PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
           + P+ L   + S   T+++ A  +G +    +   +G + +  PPL+EQ  I E +  +T
Sbjct: 133 IMPKFLAMAVKSDSFTEQVSANSKGMSYPAINSTELGCLAICFPPLSEQTRIAEFLDRKT 192

Query: 179 VRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIE-----WVGLVPDHWE 233
            +ID  I ++ + IELL E++Q ++   VT+GLNP+  MKDSGI+     W+G +P HWE
Sbjct: 193 AQIDQAIAQKEQLIELLNERRQVMIHRAVTRGLNPNAPMKDSGIDRGDARWIGEIPAHWE 252

Query: 234 VKPFFALVTELNRKNTKLIESNILSLSYGNIIQK-LETRNMGLKPESYETYQIVDPGEIV 292
           V     L TE +      +   I+S++ G  ++   +T       E +  Y+    G+I 
Sbjct: 253 VSRINWLFTEKDETGYPDLPLLIVSINSGVTVRDMDDTEIRKQVAEDFNVYKRALAGDIA 312

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI-DSTYLAWLMRSYDLCKVFYAMGS 351
           F  + +      +      + G+++  Y+  +P+   +S Y  +L ++ +    F     
Sbjct: 313 FNKMRMWQGAVGVVP----QDGLVSPDYVVARPNNFVNSAYYGFLFKTREYLAEFVKHSH 368

Query: 352 GL---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
           G+   R  L +ED K +  +VPP++EQ  I + +N +   +     KI++ I  L+E +S
Sbjct: 369 GIAWDRNRLYWEDFKSIFAMVPPLEEQNQIVDFLNAQNEEMSFASTKIQKQIQKLQELKS 428

Query: 409 SFIAAAVTGQIDL 421
           + I +AVTG+I +
Sbjct: 429 TLINSAVTGKIKV 441



 Score =  111 bits (276), Expect = 3e-22,   Method: Composition-based stats.
 Identities = 50/211 (23%), Positives = 87/211 (41%), Gaps = 6/211 (2%)

Query: 212 NPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR--KNTKLIESNILSLSYGNIIQK-- 267
           N   + KDSG+EW+G +P HWEV     +     R    +      I  +  G++  +  
Sbjct: 12  NRYPQYKDSGLEWIGEIPAHWEVGRIKYVCKINQRSLPESTAKSFPIHYVDIGSVTLEEG 71

Query: 268 -LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
            ++T     K       +I + G+ +   +       +    Q  +    T   +     
Sbjct: 72  IVQTEEFEFKNAPSRARRIANAGDTIISTVRTYLKAIAFVDEQQSQFIYSTGFAVLNPLP 131

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
            I   +LA  ++S    +   A   G+   ++   ++  L +  PP+ EQ  I   ++ +
Sbjct: 132 LIMPKFLAMAVKSDSFTEQVSANSKGMSYPAINSTELGCLAICFPPLSEQTRIAEFLDRK 191

Query: 386 TARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           TA+ID  + + EQ I LL ERR   I  AVT
Sbjct: 192 TAQIDQAIAQKEQLIELLNERRQVMIHRAVT 222


>gi|290512141|ref|ZP_06551508.1| restriction modification system DNA specificity domain-containing
           protein [Klebsiella sp. 1_1_55]
 gi|289775136|gb|EFD83137.1| restriction modification system DNA specificity domain-containing
           protein [Klebsiella sp. 1_1_55]
          Length = 431

 Score =  250 bits (638), Expect = 3e-64,   Method: Composition-based stats.
 Identities = 110/436 (25%), Positives = 184/436 (42%), Gaps = 33/436 (7%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT 60
           M  YKAYP+YKDSGV+W+G +P+ W V  +K    +  G+  +S           V++  
Sbjct: 1   MAKYKAYPEYKDSGVEWLGLVPESWTVCRLKNLATIKNGQDYKS-----------VQTDD 49

Query: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL 120
           G   P  G+  Q   ++  ++ K  +L G+ G   +   I +      T +     +   
Sbjct: 50  G--YPVMGSGGQFTFASKFMYDKPSVLLGRKGTIDKPLYINEPFWTVDTMYYTELNEGFD 107

Query: 121 PELLQGWLLSIDV-TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
            + L    L+I              T  H                +E+  I E +  ET 
Sbjct: 108 AKYLHYLALTIQFSRYSTNTALPSMTQEHLSNYKF----SVPKAESERKKITEFLDLETA 163

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFA 239
           +ID LI ++ + IELLKEK+QA++S+ VTKGLNPDV MKDSG+EW+G VP+HWEV  F  
Sbjct: 164 KIDNLIEKQQQLIELLKEKRQAVISHAVTKGLNPDVPMKDSGVEWLGEVPEHWEVSKFGY 223

Query: 240 LVTELNRKNTK-----------LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDP 288
           +   +   + +                 ++    +    L++ +  L  +  E  ++   
Sbjct: 224 ISLVVRGGSPRPAGDPTLFNGDYSPWVTVAEITKDNEIYLDSTDTFLTKKGSEQCRVFKA 283

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA 348
           G ++            + S             +  +   ID  Y  + + +         
Sbjct: 284 GTLLLSNSGATLGVPKILSID----ANANDGVVGFELLNIDHEYAYFYLSTLTTNLRESI 339

Query: 349 MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
                + +L  E VK + + +PP  E   I + I         +     + + LL+ERR+
Sbjct: 340 KQGSGQPNLNTEIVKSIAIPIPPENEIQRIVSFIKETIKLYSSIESGAMEQVKLLQERRT 399

Query: 409 SFIAAAVTGQIDLRGE 424
           + I+AAVTG+ID+R  
Sbjct: 400 ALISAAVTGKIDVRDW 415


>gi|332800154|ref|YP_004461653.1| restriction modification system DNA specificity domain-containing
           protein [Tepidanaerobacter sp. Re1]
 gi|332697889|gb|AEE92346.1| restriction modification system DNA specificity domain protein
           [Tepidanaerobacter sp. Re1]
          Length = 431

 Score =  250 bits (637), Expect = 4e-64,   Method: Composition-based stats.
 Identities = 110/431 (25%), Positives = 183/431 (42%), Gaps = 9/431 (2%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT 60
           M ++K Y +YKDSG++WIG IP+ WK+  +K    +  G++ +S +  +  G      G 
Sbjct: 1   MSNFKRYDKYKDSGIEWIGEIPEGWKITKLKYICSITMGQSPKSEEYSLEEGGLPFLQGN 60

Query: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL 120
            ++       +    +         IL     P  +  I     GI      +   K  L
Sbjct: 61  AEFTELYPQPKIYCDTANKFSKANDILLSVRAPVGKMNISDRVYGIGRGLCAITAQKVHL 120

Query: 121 PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
                 W       + +    +G+T        + N+   +PP  EQ+ I   +  +T  
Sbjct: 121 ---KYLWYSMNVSLEELSINSQGSTFEAVTVADVDNLSAIVPPADEQISIANFLDQKTAE 177

Query: 181 IDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFAL 240
           ID LI ++ + IELL+EK+QA+++  VTKGLNP+VKMKDSGIEW+G +P+ W V      
Sbjct: 178 IDDLIADKEKLIELLQEKRQAVITEAVTKGLNPNVKMKDSGIEWIGEIPEGWRVSKIKYE 237

Query: 241 VTELNRK--NTKLIESNILSLSYGNIIQKLETRNM---GLKPESYETYQIVDPGEIVFRF 295
                +        +  I  +  G++    E   +     K       ++V  G  +   
Sbjct: 238 ALINKKTLSENTDDDFEIDYIDIGSVTSVGEINGIQSLSFKDAPSRARRVVSEGNTIVST 297

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR- 354
           +       +            T   +      I   YL +LMRS            G+  
Sbjct: 298 VRTYLKAIAFIENVHSNLVCSTGFAVLTPLSNIVPKYLFYLMRSEKYVNEIVRRSVGVSY 357

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAA 414
            ++   D+  L  ++P ++EQ +I   ++  + RI+ L  +IE  I  L+E R S I  A
Sbjct: 358 PAVNASDIGVLECVLPSVREQINIVEYLDKCSKRINQLTNEIELQIQKLREYRQSLIFEA 417

Query: 415 VTGQIDLRGES 425
           VTG+ID+R  +
Sbjct: 418 VTGKIDVRDYA 428


>gi|327396330|dbj|BAK13752.1| type I site-specific restriction-modificationsystem, S subunit and
           related helicases [defense mechanisms] hypothetical
           protein [Pantoea ananatis AJ13355]
          Length = 451

 Score =  249 bits (636), Expect = 5e-64,   Method: Composition-based stats.
 Identities = 120/440 (27%), Positives = 201/440 (45%), Gaps = 21/440 (4%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT 60
           M  YKAYP+YKDSGV+ +  IPK W +  +K   ++      + G D++ +  + ++   
Sbjct: 1   MAKYKAYPEYKDSGVESLDTIPKMWSIKKLKYIFEIKKRIAGKIGFDVLSVTQKGIK--- 57

Query: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL 120
            K +         D S       G+     +        I+++DG+ S  + V   +D  
Sbjct: 58  IKDIESGEGQLSMDYSKYQRVYPGEFAMNHMDLLTGYVDISNYDGVTSPDYRVFAVRDKH 117

Query: 121 PELLQGWLLSIDVTQRIEAICE------GATMSHADWKGIGNIPMPIPPLAEQVLIREKI 174
               + +L  +    +                     +    I  P P L EQ+ I   +
Sbjct: 118 SFYSRYYLYLLQDGYKQRRFFHLGQGSAHLGRWRLPTEAFNEIVYPCPSLTEQIHIASFL 177

Query: 175 IAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWE- 233
             ET +ID LI ++ + IELLKEK+QA++S+ VTKGLNPDV MKDSG+EW+G VP+HW  
Sbjct: 178 DHETAKIDNLIEKQRQLIELLKEKRQAVISHAVTKGLNPDVPMKDSGVEWLGEVPEHWIV 237

Query: 234 --VKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK------PESYETYQI 285
              K + + + +   K     +  IL ++  NI + +    +  +       +      +
Sbjct: 238 SGFKKYLSSIVDYRGKTPNKTDEGILLVTARNIKKGVLDYTLSQEFIAPSDYKEVMGRGL 297

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV 345
            D G+++F       +  ++    +     I           +D+ Y  + + S    + 
Sbjct: 298 PDIGDVLFTTEAPLGEVANVDRVDIALAQRI--IKFKGMASRLDNYYFKYFIMSSAFQQS 355

Query: 346 FYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLK 404
                SG   Q +K E    L  L+PPI EQ +I   ++ E  +ID+LVE+    + LL+
Sbjct: 356 LNLYSSGSTAQGIKAERFVYLRKLLPPINEQMEIVGFLDKEITKIDILVEQQFVMLSLLQ 415

Query: 405 ERRSSFIAAAVTGQIDLRGE 424
           ERR++ I+AAVTG+ID+R  
Sbjct: 416 ERRTALISAAVTGKIDVRDW 435


>gi|291287374|ref|YP_003504190.1| restriction modification system DNA specificity domain protein
           [Denitrovibrio acetiphilus DSM 12809]
 gi|291287883|ref|YP_003504699.1| restriction modification system DNA specificity domain protein
           [Denitrovibrio acetiphilus DSM 12809]
 gi|290884534|gb|ADD68234.1| restriction modification system DNA specificity domain protein
           [Denitrovibrio acetiphilus DSM 12809]
 gi|290885043|gb|ADD68743.1| restriction modification system DNA specificity domain protein
           [Denitrovibrio acetiphilus DSM 12809]
          Length = 441

 Score =  248 bits (634), Expect = 8e-64,   Method: Composition-based stats.
 Identities = 135/444 (30%), Positives = 212/444 (47%), Gaps = 27/444 (6%)

Query: 4   YKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTK-----LNTGRTSE-------SGKDIIYI 51
           YKAYP YKDSG++W+G IP+HW +   K   +     L  G           S + I   
Sbjct: 3   YKAYPSYKDSGIEWLGEIPEHWAIERFKFQLRAGFEGLKIGPFGSQIKAELLSDEGIKVY 62

Query: 52  GLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD--FDGICST 109
           G E++         +  +        V     G IL   +G   R  +  +    GI  +
Sbjct: 63  GQENIIKNNFDLGHRFVSEELFCELEVYETLPGDILVTMMGTAGRCQVTPEKINQGIIDS 122

Query: 110 QFLVLQPKDVLPELLQGWLLSI--DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQ 167
             + L+    L      +L++    +  +I  + +G+ M   +   I N+   +PPL EQ
Sbjct: 123 HLIRLRVNKCLLSRFCKYLINDSAYIEHQIRLMGKGSIMHGLNSTIIKNLIFILPPLKEQ 182

Query: 168 VLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGL 227
            +I + +  +T +ID LI ++ + IE L EK+ AL+++ VTKG+NPDVKMKDSG+EW+G 
Sbjct: 183 SIILKYLDKKTAQIDELIDKKKKLIEKLDEKRTALITHAVTKGMNPDVKMKDSGVEWLGE 242

Query: 228 VPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVD 287
           VP+HW++      +  + ++    +  ++LS++   I  K      G     Y  YQIV 
Sbjct: 243 VPEHWDIVK-AKYLFTIEKRIAGFLGHDVLSITQTGIKVKDIESGEGQLSMDYTKYQIVK 301

Query: 288 PGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY--MAVKPHGIDSTYLAWLMRSYDLCKV 345
            G+     +DL      +        G+ +  Y    +     +  Y  + M+     K+
Sbjct: 302 VGDFAMNHMDLLTGYVDISQFD----GVTSPDYRVFRLSAQNCNPQYYLYHMQRGYKEKI 357

Query: 346 FYAMGSG----LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
           F+  G G     R  L  ++ K L   VPP +EQ  I   I+ ET  ID L+ K E+SI 
Sbjct: 358 FFNYGHGSAQLGRWRLPTDEFKELSFPVPPYEEQQAIAEYISSETILIDSLISKTEESIS 417

Query: 402 LLKERRSSFIAAAVTGQIDLRGES 425
           LLKE+RS+ I AAVTG+ID+R E+
Sbjct: 418 LLKEKRSALITAAVTGKIDVREEA 441


>gi|16124874|ref|NP_419438.1| type I restriction-modification system, S subunit [Caulobacter
           crescentus CB15]
 gi|221233594|ref|YP_002516030.1| type I restriction-modification system specificity subunit
           [Caulobacter crescentus NA1000]
 gi|13421830|gb|AAK22606.1| type I restriction-modification system, S subunit [Caulobacter
           crescentus CB15]
 gi|220962766|gb|ACL94122.1| type I restriction-modification system specificity subunit
           [Caulobacter crescentus NA1000]
          Length = 450

 Score =  248 bits (633), Expect = 1e-63,   Method: Composition-based stats.
 Identities = 115/445 (25%), Positives = 182/445 (40%), Gaps = 25/445 (5%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLE 54
           M  + AY  YK+SGV+W+G +P HW   P+K    + +G T         G +I +   +
Sbjct: 1   MS-FPAYESYKESGVEWLGRVPSHWNFRPLKHLVIMRSGGTPSKEREDYWGGEIPWASAK 59

Query: 55  DVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY---GKLGPYLRKAIIADFDGICSTQF 111
           D++  T         +   D     +     ++    G +                +   
Sbjct: 60  DLKVDTLTDTQDHLTAEALDEGAAQLLPANAVVVLVRGMMLARTFPVCRLSRPMTINQDL 119

Query: 112 L-VLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLI 170
             ++  + V P  L   L + +V         G             + +P P LAEQ  I
Sbjct: 120 KGLIANRGVDPNYLAWSLRASEVETLCRLDEAGHGTKALRMDAWSTMELPAPSLAEQQAI 179

Query: 171 REKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPD 230
              +  ET +ID L+  + R I LLKEK+QA++S+ VTKGL+P  +MKDSG+EW+G +P 
Sbjct: 180 AAFLDRETAKIDALVEAQERLIALLKEKRQAVISHAVTKGLDPSAQMKDSGVEWLGQMPA 239

Query: 231 HWEVKP-------FFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES---Y 280
           HWEV P         A              +         +I                  
Sbjct: 240 HWEVVPAKNLADSIKAGPFGSALTKDMYSSAGYRVYGQEQVIPGDFRIGDYYVTSDRYNE 299

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI-DSTYLAWLMRS 339
            +   V+ G+++   +               E GII    +  +P+   D TYL  L+RS
Sbjct: 300 LSQYRVEVGDLLVSCVGTFGKIAIFPQGA--EPGIINPRLIRFRPNNQVDPTYLCVLLRS 357

Query: 340 YDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
               + F  +   G    +    +  + V VPP++EQ  I   +     + D L    E 
Sbjct: 358 AVSFEQFSYLSRGGTMDVINIGILGEIVVPVPPMQEQISIAGYLAEVQEQFDSLSAASEA 417

Query: 399 SIVLLKERRSSFIAAAVTGQIDLRG 423
           +I LL+ERR++ I+AAVTG+ID+RG
Sbjct: 418 AITLLQERRAALISAAVTGKIDVRG 442


>gi|149175698|ref|ZP_01854317.1| type I restriction-modification system, S subunit [Planctomyces
           maris DSM 8797]
 gi|148845417|gb|EDL59761.1| type I restriction-modification system, S subunit [Planctomyces
           maris DSM 8797]
          Length = 450

 Score =  247 bits (631), Expect = 2e-63,   Method: Composition-based stats.
 Identities = 111/449 (24%), Positives = 198/449 (44%), Gaps = 28/449 (6%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT 60
           M  +  Y +YK+SG++W+G +P+HW V  +                D+  + +      +
Sbjct: 1   MS-FPKYAEYKESGIEWLGKVPEHWDVFRMGILFAEVAE---SGNDDLPVLQVSIHHGVS 56

Query: 61  GKYLPKDGN----SRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP 116
            + L +  +    +R  D S         ++Y  +  +         +G+ S  ++V +P
Sbjct: 57  DRELSESESDRKITRIDDKSKYKRVVPNDLVYNMMRAWQGGFGTVKVEGMVSPAYVVARP 116

Query: 117 KDVLPELLQ-GWLLSIDVTQRIEAICEGAT--MSHADWKGIGNIPMPIPPLAEQVLIREK 173
           K             +    +++     G T       W    N+ + +P  +EQ  I + 
Sbjct: 117 KIDFQTQFIEHLFRTPQAIEQMRRYSHGVTDFRLRLYWDKFKNVRVALPDKSEQQEICDY 176

Query: 174 IIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWE 233
           I  ET +ID L+ E+ R IELLKEK+QA++S+ VTKGLNP+  MKDSGIEW+G VP+HWE
Sbjct: 177 IDVETSKIDALVAEQRRLIELLKEKRQAVISHAVTKGLNPNAPMKDSGIEWLGDVPEHWE 236

Query: 234 VKPFFAL--VTELNRKNTKLIESNILSLSY---------GNIIQKLETRNMGLKPESYET 282
           V          + +R +    E+++ S            G  +   E++ +  +      
Sbjct: 237 VCSLRRYAFFVDGDRGSEYPNENDLTSDGILFLSSKNIVGGKLDLKESKFISHEKFDALN 296

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMER-----GIITSAYMAVKPHGIDSTYLAWLM 337
                 G+++ +          +    V         I     +    + +   YL+ + 
Sbjct: 297 RGKAQDGDLIVKVRGSTGRIGEMALFDVGAYSFETAFINAQMMIIRTGNKLTPKYLSKVS 356

Query: 338 RSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
           +S    +       G  +Q L  +    L V +PP+ EQ +I + I+++    D L  + 
Sbjct: 357 QSIYWMEQLSVGAYGTAQQQLSNKVFSDLFVTMPPVTEQAEIADFIDLKVGEFDSLETEA 416

Query: 397 EQSIVLLKERRSSFIAAAVTGQIDLRGES 425
           EQ+I LL+ERR++ I+AAVTG+I++R  +
Sbjct: 417 EQAIELLQERRTALISAAVTGKINVRDYA 445


>gi|78357910|ref|YP_389359.1| type I restriction-modification system, S subunit [Desulfovibrio
           desulfuricans subsp. desulfuricans str. G20]
 gi|78220315|gb|ABB39664.1| type I restriction-modification system, S subunit [Desulfovibrio
           desulfuricans subsp. desulfuricans str. G20]
          Length = 448

 Score =  247 bits (631), Expect = 2e-63,   Method: Composition-based stats.
 Identities = 132/448 (29%), Positives = 213/448 (47%), Gaps = 23/448 (5%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGR------TSESGKDIIYIGLE 54
           M  YKAYP YKDSGV+WIG +P+HWK+ P+K       G+       S+   ++ Y   +
Sbjct: 1   MSQYKAYPAYKDSGVEWIGQVPEHWKIAPVKYHYDARLGKMIQPAAVSDRDIEVPYHRAQ 60

Query: 55  DVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAII---ADFDGICSTQF 111
            V+                        ++G +L  + G   R AI+    + + I     
Sbjct: 61  TVQWERIVESDIKEMWASPRDIEQFSVSEGDLLICEGGDVCRAAIVKQPPEKNMIFQKSI 120

Query: 112 LVLQPKDVL-PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLI 170
             ++ K       +   +  +  ++ I+ +C   T+ H     +G++  P+PP  EQ  I
Sbjct: 121 HRIRSKGEYGVGWVMRLMQHLRSSEWIDVLCNKNTIVHFTSDKLGSLECPLPPPDEQASI 180

Query: 171 REKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPD 230
              +  ET RID LI ++ RFIELLKEK+QAL+++ VTKGL+P+VKMKDSG+EW+G VP+
Sbjct: 181 AAALDRETARIDALIQKKTRFIELLKEKRQALITHAVTKGLDPNVKMKDSGVEWLGEVPE 240

Query: 231 HWEVKPFFAL--------VTELNRKNTKLIESNILSLSYGNI----IQKLETRNMGLKPE 278
           HW   P   +        +     ++  +    I  ++ GN+     ++  +  +  +  
Sbjct: 241 HWSSVPIKYMALERNSLFLDGDWIESKDISTDGIRYITTGNVGEGVYKEQGSGFISEETF 300

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
                  V  G+++   ++    +  +     +         +       +  ++ +L  
Sbjct: 301 HALGCTEVYGGDVLVSRLNNPIGRACMVPDLGVRVVTSVDNVIFRPDSKFNKKFIVYLFS 360

Query: 339 SYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
           S +  K    +  G   Q +    +  + V  P I+EQ  I   ++ ETARID L+ K E
Sbjct: 361 SEEYFKHTSNLARGATMQRISRGLLGNIRVATPSIEEQTQIARFLDHETARIDALIGKAE 420

Query: 398 QSIVLLKERRSSFIAAAVTGQIDLRGES 425
           QSI LLKERR++FI AAVTGQIDLRGE 
Sbjct: 421 QSITLLKERRAAFITAAVTGQIDLRGEQ 448


>gi|237709675|ref|ZP_04540156.1| conserved hypothetical protein [Bacteroides sp. 9_1_42FAA]
 gi|229456311|gb|EEO62032.1| conserved hypothetical protein [Bacteroides sp. 9_1_42FAA]
          Length = 428

 Score =  247 bits (630), Expect = 3e-63,   Method: Composition-based stats.
 Identities = 103/435 (23%), Positives = 176/435 (40%), Gaps = 27/435 (6%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSE----SGKDIIYIGLEDVESGT 60
           K Y  YKDSGV+WIG IP HW+VVP+KR      G T        K  I +   ++++  
Sbjct: 2   KKYDAYKDSGVKWIGEIPNHWEVVPLKRTGSFENGLTYSPNDIRDKGYIVLRSSNIQNSK 61

Query: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGP----YLRKAIIADFDGICSTQFLVLQP 116
             Y                +  KG I+            + A            F++   
Sbjct: 62  MNYED---TVYVESVPNDLLVKKGDIIICSRNGSASLVGKCAKFDGKIAATFGAFMMRYS 118

Query: 117 KDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIA 176
             +  E    +     + +  + +   +T++      I  +  P+PPL+EQ  I   + A
Sbjct: 119 PSINNE--YAFFSFQILMRNYKGLFTTSTINQLTKNVIAQMVCPLPPLSEQQAIASYLDA 176

Query: 177 ETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKP 236
           +T +ID +I +  + IE L E KQ+L++  VT+GLNP+  +KDSG++W+G VP+HWE   
Sbjct: 177 KTEKIDKMIAKAEKKIEYLGELKQSLITRAVTRGLNPNASLKDSGVKWIGKVPEHWETIK 236

Query: 237 FFALVTELNRKN-------TKLIESNILSLSYGNIIQKLET---RNMGLKPESYETYQIV 286
              + + +               E     L  G++   L T   + +  K       +  
Sbjct: 237 LSRVYSYIGSGTTPLSSQEDYYSEEGYNWLQTGDLNNGLITQTSKKITKKAIDECRMKFY 296

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF 346
               +V         K  L   +         A   + P    +    +        ++ 
Sbjct: 297 PKHSVVIAMYGATIGKVGLLDLEST----TNQACCVISPTQKMNPLFTFYSFMAAKKELL 352

Query: 347 YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
            A   G + ++  + +K+L V VPP++EQ  I   +  E   ID ++   ++ I  L+E 
Sbjct: 353 LASFGGGQPNISQDIIKKLRVPVPPLEEQNAIILSLKKECDTIDHIIATQKKKIAYLQEL 412

Query: 407 RSSFIAAAVTGQIDL 421
           + S I   VTG+I +
Sbjct: 413 KQSLITNVVTGKIKV 427


>gi|300113140|ref|YP_003759715.1| restriction modification system DNA specificity domain-containing
           protein [Nitrosococcus watsonii C-113]
 gi|299539077|gb|ADJ27394.1| restriction modification system DNA specificity domain protein
           [Nitrosococcus watsonii C-113]
          Length = 482

 Score =  247 bits (630), Expect = 3e-63,   Method: Composition-based stats.
 Identities = 125/444 (28%), Positives = 193/444 (43%), Gaps = 22/444 (4%)

Query: 2   KHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRT---SESGKDIIYIGLEDVES 58
             +  YP YKDSGV+W+G +P+HW    +K F +LN  ++    + G+   +I +E +++
Sbjct: 26  SKFPRYPAYKDSGVEWLGEVPEHWTTTSLKYFAELNPKKSDYRGDQGQLCSFIPMEKLKT 85

Query: 59  GTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAII------ADFDGICSTQFL 112
           G  +       +     +  + F  G +L  K+ P      I       +  G  S++  
Sbjct: 86  GAIQLDEVR--TIADVITGYTYFEDGDVLQAKVTPCFENGNIAIADGLTNGVGFGSSEIN 143

Query: 113 VLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIR 171
           V++P  +    L   L          A   GA  +     + I    + IP   EQ  I 
Sbjct: 144 VIRPFKIDVGFLYYRLQEGVFMSICTASMIGAGGLKRVPGEVIDGFTVAIPDRNEQTQIA 203

Query: 172 EKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDH 231
             +  ET RID LI E+ R IELLKEK+QA++S+ VTKGL+P V MKDSG+EW+G VP H
Sbjct: 204 RFLDHETARIDALIAEQQRLIELLKEKRQAVISHAVTKGLDPTVPMKDSGVEWLGEVPAH 263

Query: 232 WEVKPFFALVTELNR---KNTKLIESNILSLSYGNI-IQKLETRNMGLKPESYETYQ--- 284
           WEVK        +     K+T   +   L +   N+     E  +    PES+       
Sbjct: 264 WEVKKIKHYGRVIGGFAFKSTDFSDEGHLVIKISNVGHLGFEWNDASYLPESFTVRHSEF 323

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVME--RGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
           I   G ++F             +    +    I              S YL    +S   
Sbjct: 324 IAPKGSLIFAMTRPVISGGIKIARLEKDLRPLINQRVGFISINDEALSRYLLVSSQSESF 383

Query: 343 CKVFYAM-GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
              F        + ++  E ++ + + +PP +E   I   I     + D L+      I 
Sbjct: 384 LSQFKNNLTITNQPNIASEGIESISIPIPPAEELRRILEYIETLIDKFDCLMLDACSGIR 443

Query: 402 LLKERRSSFIAAAVTGQIDLRGES 425
           LL+ERRS+ I+AAVTG+ID+RG  
Sbjct: 444 LLQERRSALISAAVTGKIDVRGWQ 467


>gi|289523861|ref|ZP_06440715.1| type I restriction enzyme, S subunit [Anaerobaculum
           hydrogeniformans ATCC BAA-1850]
 gi|289502517|gb|EFD23681.1| type I restriction enzyme, S subunit [Anaerobaculum
           hydrogeniformans ATCC BAA-1850]
          Length = 489

 Score =  247 bits (629), Expect = 4e-63,   Method: Composition-based stats.
 Identities = 102/447 (22%), Positives = 179/447 (40%), Gaps = 27/447 (6%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT 60
           + + K YP YKDSGV W+G +P+HW+V   K   +    R+    ++++ +  E      
Sbjct: 2   ITNLKPYPAYKDSGVPWLGHVPEHWEVRRGKTLFRCIDVRSQTGQEELLTVSSE--RGVV 59

Query: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPK--- 117
            +        +        +     ++   L  + R   ++ + GI S+ + V + +   
Sbjct: 60  PRRSANVTMFKAESYVGYKLCWPDDLVINSLWAWARGLGVSPYHGIVSSAYGVYRLRNRQ 119

Query: 118 DVLPELLQGWLLSIDVTQRIEAICEGAT--MSHADWKGIGNIPMPIPPLAEQVLIREKII 175
              P  +   + S      +    +G                  P+PP  EQ  I   + 
Sbjct: 120 QDNPRFIHQLVRSTPFQWELLVRSKGIWVSRLQLTDDAFLGASFPMPPSNEQTAIVRFLD 179

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLN-----PDVKMKDSGIEWVGLVPD 230
               RI   I  + + I+LL+E KQAL+   VT  ++     P    KDSG+EW+G VP+
Sbjct: 180 YIDRRIWRYIRAKQKLIKLLEEYKQALIHQAVTGQIDVRTGKPYPAYKDSGVEWLGEVPE 239

Query: 231 HWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETR--------NMGLKPESYET 282
           HWE++   + V            +    L    +     +R         M     S   
Sbjct: 240 HWEIRRLGSSVRGCVNGVWGSEPNGKDDLPCVRVADFDRSRLRVHLDKPTMRAISSSDRV 299

Query: 283 YQIVDPGEIVFRF-IDLQNDKRSLRSAQVMERGIITSAYMAVKP--HGIDSTYLAWL--- 336
            ++++PG+++                        +TS ++A  P  +G DS YL +L   
Sbjct: 300 RRLLEPGDLLLEKSGGGDLQPVGRVVLYDHPTVAVTSNFIARMPVENGYDSIYLTYLHAA 359

Query: 337 MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
           + S +L        +G++ +L         V  PP+ EQ  I   ++ +TA+ID  +   
Sbjct: 360 LYSIELNVRSIKQTTGIQ-NLDSRTYLSELVAFPPLPEQTAIVEYLDTQTAKIDAAISAA 418

Query: 397 EQSIVLLKERRSSFIAAAVTGQIDLRG 423
              I LL+E R+  IA  VTG++D+R 
Sbjct: 419 RSEIELLREYRTRLIADVVTGKVDVRE 445


>gi|71064986|ref|YP_263713.1| type I restriction-modification system S subunit [Psychrobacter
           arcticus 273-4]
 gi|71037971|gb|AAZ18279.1| possible type I restriction-modification system, S subunit
           [Psychrobacter arcticus 273-4]
          Length = 457

 Score =  247 bits (629), Expect = 4e-63,   Method: Composition-based stats.
 Identities = 105/448 (23%), Positives = 199/448 (44%), Gaps = 27/448 (6%)

Query: 3   HYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVES 58
            Y+ Y +YKDSGV+W+G IP HW++  ++       G T          +  +   +V S
Sbjct: 7   KYQRYAEYKDSGVEWLGKIPSHWELSKLRYMFSFGRGLTITKADLLDTGVPCVNYGEVHS 66

Query: 59  GTG-KYLPKDGNSRQSDT-----STVSIFAKGQILYGKL-----GPYLRKAIIADFDGIC 107
             G +  PK    +  D      S  ++  +G +++        G      +++D     
Sbjct: 67  KYGFEVDPKRHYLKCVDEGYLQSSPYALLTQGDLVFADTSEDIEGSGNFTQLVSDDLIFA 126

Query: 108 STQFLVLQPKDVLPELLQGWLLS-IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAE 166
               ++ +P D        +L+   ++  ++  + +G  +       +  + + +P L E
Sbjct: 127 GYHTVIARPFDRQCSRFYAYLMDSKEIRTQVRHMVKGVKVFSITQSILKGVRIWLPSLDE 186

Query: 167 QVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVG 226
           +  I   +  ET +IDTLI ++   I+LLKEK+QA++S+ VTKGLNPD  +KDSG+EW+G
Sbjct: 187 RETIANFLDFETAQIDTLIDKQKTLIQLLKEKRQAVISHAVTKGLNPDAPLKDSGVEWLG 246

Query: 227 LVPDHWEVKPFFALV-----TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK--PES 279
            VP+HW V     L+        N     + ++    +   +++     ++   +  P+ 
Sbjct: 247 EVPEHWGVSKLKYLISEPLQYGANEAAEDVDKTQPRFVRITDVLPNGNLKDDTFRSLPQE 306

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
                ++  G+++         K  +       +       +  K     +    + + +
Sbjct: 307 IAEPYMLMDGDVLLARSGGTVGKSFIYR-DSWGKCCFAGYLIKAKIDEEITPAEWFYLNT 365

Query: 340 ---YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
              +    +         Q++  +      + VPP++E + I + IN      D LV K 
Sbjct: 366 LTDFYWKWIESIQIQATIQNVSADKYNSFVIAVPPLEESYKIISYINYNLEVFDTLVMKA 425

Query: 397 EQSIVLLKERRSSFIAAAVTGQIDLRGE 424
           EQ+I L++ERR++ I+AAVTG+ID+RG 
Sbjct: 426 EQAIQLMQERRTALISAAVTGKIDVRGW 453


>gi|149373160|ref|ZP_01892029.1| type I restriction-modification system, S subunit [unidentified
           eubacterium SCB49]
 gi|149354262|gb|EDM42832.1| type I restriction-modification system, S subunit [unidentified
           eubacterium SCB49]
          Length = 438

 Score =  246 bits (627), Expect = 6e-63,   Method: Composition-based stats.
 Identities = 108/436 (24%), Positives = 185/436 (42%), Gaps = 20/436 (4%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVE 57
           K Y  YKDSG++WIG IP+HW  V +K  +K+ +G T    K        I ++    V 
Sbjct: 2   KTYETYKDSGIEWIGEIPEHWSSVSLKWISKIYSGGTPSKNKPEYWSDGTIPWLNSGTVN 61

Query: 58  SGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGP--YLRKAIIADFDGICSTQFLVLQ 115
            G      +         S+     +  IL    G            F+  C+    ++ 
Sbjct: 62  QGDITEPSEYITEEALANSSAKWIPEKAILIALAGQGKTKGMVAQTQFEATCNQSLGIIV 121

Query: 116 PKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKII 175
           P          + L  +       +  G      + + IG+IP P+P   EQ  I   + 
Sbjct: 122 PSYPELNRYLLFWLRKNYQNI-RNLGGGDKRDGINLEMIGSIPTPLPTKKEQTAITNYLD 180

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVK 235
            +T  ID LI+E+   ++L +E+K AL++  VTKG+ PD K+K+SGIEW+G +P+ W   
Sbjct: 181 KKTTEIDQLISEKEELVQLYQEEKTALINQAVTKGIKPDAKLKNSGIEWLGEIPEDWNSL 240

Query: 236 PFFA---LVTELNRKNTKLIESNILSLSYGNI----IQKLETRNMGLKPESYETYQIVDP 288
                   +   + K+T    S +  L   NI    I   +   +  +    ++   V  
Sbjct: 241 RLKYLGNFINGYSFKSTDFKSSGVRVLKISNIQHMAIDWSDESFIDEEFYDTKSGFRVLQ 300

Query: 289 GEIVFRFIDLQN-DKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY 347
            ++VF            +      E+ ++       +P    + ++ +++ S    + F 
Sbjct: 301 NDLVFALTRPIISTGIKVALMNFDEKILLNQRNSIFRPKTKMTKWIYFILLSSRFVQEFD 360

Query: 348 AM--GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
                +G + ++   D+  + + VP  +EQ  I   I  ETA+ID  + K E+ I LL E
Sbjct: 361 KRIDKTGQQPNISSNDIGEISIPVPTKEEQTKIVEHIEKETAKIDTKIAKAEKYINLLTE 420

Query: 406 RRSSFIAAAVTGQIDL 421
            R+S I+  VTG+I +
Sbjct: 421 YRTSLISEVVTGKIKV 436


>gi|148827247|ref|YP_001292000.1| type I restriction modification DNA specificity domain-containing
           protein [Haemophilus influenzae PittGG]
 gi|148718489|gb|ABQ99616.1| type I restriction modification DNA specificity domain protein
           [Haemophilus influenzae PittGG]
          Length = 424

 Score =  244 bits (623), Expect = 2e-62,   Method: Composition-based stats.
 Identities = 96/425 (22%), Positives = 187/425 (44%), Gaps = 12/425 (2%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYL 64
           + Y  YKDSGV+W+G +P HW ++P K   KL      +   +   + L  ++    + +
Sbjct: 2   RRYESYKDSGVEWLGEVPSHWNLIPNKYIFKLRKNVVGKRSSEYDLLSLS-LKGVIKRDM 60

Query: 65  PKDGNSRQSDTSTVSIFAKGQILYGKLG--PYLRKAIIADFDGICSTQFLVLQPKDVLPE 122
                   ++  T     +G  ++         R   ++ + G+ +  + + +  +V  +
Sbjct: 61  ENPEGKFPAEFDTYQEVKEGDFIFCLFDVEETPRTVGLSSYHGMITGAYTIFETNNVDKK 120

Query: 123 LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
            +  + L++D  +R++ + +G   +    +   +    IPPL+EQ  I + +  +T +ID
Sbjct: 121 FIYYFYLNLDSDKRLKPLYKGL-RNTISKETFFSFNTFIPPLSEQQKIAQFLDDKTAKID 179

Query: 183 TLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVT 242
             +    + I LLKE KQ L+   VT+GLNPDV +KDSG+EW+G VP+HWE+     L  
Sbjct: 180 QAVDLAEKQIALLKEHKQILIQNSVTRGLNPDVPLKDSGVEWIGQVPEHWEILSIKRLSQ 239

Query: 243 ELNRKNTKLIESNILSLSYGNI----IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDL 298
                + + I++     + G      I  +   NM L   + +   +     +      L
Sbjct: 240 VKRGASPRPIDNPKYFDNDGEYAWVRISDVTASNMYLLETTQKLSNLGKSYSVPLMPGSL 299

Query: 299 QNDKRS--LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS 356
                    +      +  I   ++    +  ++ +L ++  S            G + +
Sbjct: 300 FLSIAGSVGKPIITKIKVCIHDGFVYFPENKQNTKFLYYIFYSE--QPYIGLGKMGTQLN 357

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           L  + V  + + +PP+ EQ  I + ++ +TA+ID  +      I  LKE +S  I   VT
Sbjct: 358 LNTDTVGAIKIPIPPLCEQQKIADYLDTQTAKIDQAIALKTAHIEKLKEYKSVLINDVVT 417

Query: 417 GQIDL 421
           G++ +
Sbjct: 418 GKVRV 422


>gi|169634728|ref|YP_001708464.1| putative type I restriction-modification system specificity
           determinant for hsdM and hsdR (HsdS) [Acinetobacter
           baumannii SDF]
 gi|169153520|emb|CAP02682.1| putative type I restriction-modification system specificity
           determinant for hsdM and hsdR (HsdS) [Acinetobacter
           baumannii]
          Length = 433

 Score =  244 bits (622), Expect = 2e-62,   Method: Composition-based stats.
 Identities = 106/433 (24%), Positives = 183/433 (42%), Gaps = 13/433 (3%)

Query: 2   KHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTG 61
             +K YP YK+SGV+W+G +P+HW++V  K           E   D I     D +    
Sbjct: 1   MQFKQYPSYKNSGVEWLGDVPEHWQIVRTKDIFNHRKEEALE--DDEIVTAFRDGQVTLR 58

Query: 62  KYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP 121
           K    DG +             G ++  ++  +     ++D  G  +  + V   K+   
Sbjct: 59  KNRRTDGFTNSIKEHGYQHINSGDLVIHEMDAFAGAIGVSDSSGKSTPVYTVCYAKNENI 118

Query: 122 ELLQ--GWLLSIDVTQRIEAICEGATMS--HADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
                  +  ++  T  I ++ +G  +      W    N+ +  PP A+Q  I   +  E
Sbjct: 119 NHHFYSHFFRTMAKTGFINSLAKGIRVRSTEFRWNESRNVYLVEPPKADQEKIVSFLDTE 178

Query: 178 TVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPF 237
           T RID LI+++ + IELL+E++++++S+ VTKGLNP+  MKDSG+EW+G VP+HW++   
Sbjct: 179 TARIDNLISKQEKLIELLEEQRKSIISHAVTKGLNPNAPMKDSGVEWLGDVPEHWDITRL 238

Query: 238 FALVTELNRKNTKLIESN------ILSLSYGNIIQK-LETRNMGLKPESYETYQIVDPGE 290
             +   +        E         L L   N+    L   +      S      +   +
Sbjct: 239 KNIGKSIIGLTYSPNEICDADDDSYLVLRSSNVQNGQLSFLDNVYVKSSVSEKLKIKKND 298

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG 350
           I+    +   D               T            + Y+ W++ SY       +  
Sbjct: 299 ILICSRNGSRDLIGKNIIIKNPPKNSTFGAFMTVYRSEYADYVYWILNSYIFKAQAGSYL 358

Query: 351 SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
           +     L   ++  + V   PI EQ +I   ++ E  + + L+ K +  I  LKE R+S 
Sbjct: 359 TTTVNQLTINNLNNMTVPFAPISEQDEIVEFLSTENLKFNNLISKQKALIEKLKEYRASI 418

Query: 411 IAAAVTGQIDLRG 423
           I+ AVTG+ID+R 
Sbjct: 419 ISHAVTGKIDVRE 431


>gi|300112915|ref|YP_003759490.1| type I restriction enzyme, S subunit [Nitrosococcus watsonii C-113]
 gi|299538852|gb|ADJ27169.1| type I restriction enzyme, S subunit [Nitrosococcus watsonii C-113]
          Length = 471

 Score =  244 bits (622), Expect = 3e-62,   Method: Composition-based stats.
 Identities = 107/438 (24%), Positives = 195/438 (44%), Gaps = 18/438 (4%)

Query: 2   KHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTG 61
               +YP+YKDSGV W+  IP+ W+    K        R+    ++++ +        T 
Sbjct: 1   MKLVSYPEYKDSGVPWLEKIPRRWRFFRAKNVFYPIDLRSKTGAEELLSVSERHGV--TS 58

Query: 62  KYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV-- 119
           +        + +      +   G ++   L  +++    + + GI ST + V +P+    
Sbjct: 59  RKSVNVTMFQAASYQGYKLCWPGDLVINSLWAWMQGLGFSKYHGIISTAYGVYRPRVRRV 118

Query: 120 LPELLQGWLLSIDVTQRI---EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIA 176
                  +LL     +      +     +           +P+ +P   EQ  I   +  
Sbjct: 119 SDFRYFDYLLRSAAYKWELRVRSKGIWRSRYQLKDDDFLKMPILLPEAEEQTQIARFLDW 178

Query: 177 ETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKP 236
           +T +I+  I  + R IELLKE+KQ +++  VT+GL+P+V++K SG+EW+G +P HWE   
Sbjct: 179 KTAQINQFIRNKRRLIELLKEQKQNVINQAVTRGLDPNVRLKPSGVEWIGDIPAHWETTK 238

Query: 237 FFALVTELNRKNTKL----IESNILSLSYGNIIQKLETRNMGLKP--ESYETYQIVDPGE 290
              +V+    K+        E  ++ L   NI    +      +P  E +  +     G+
Sbjct: 239 LKRVVSFNPSKSETRANSADEEKVVFLPMENISVNGDIDCSEKRPLSEVWSGFTYFRRGD 298

Query: 291 IVFRFIDLQ--NDKRSLRSAQVMERGIITSAYMAVKP-HGIDSTYLAWLMRSYDLC--KV 345
           +V   I     N K +         G  T+  + ++P   ID  +L +LM +        
Sbjct: 299 VVMAKITPCFENGKGAYLQGLETGFGFGTTELIVLRPLKAIDGAFLRFLMWTKQFLLLGE 358

Query: 346 FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
            Y  G+  +Q +  + VK  P+ +PPI+EQ +I   I  ++A ID  + + ++ I L++E
Sbjct: 359 QYMTGAAGQQRIPLDFVKNYPIGLPPIEEQREILAHIQEKSAEIDQALTRAQREIELIRE 418

Query: 406 RRSSFIAAAVTGQIDLRG 423
            R+  I+  VTGQ+D+RG
Sbjct: 419 YRTRLISDVVTGQVDVRG 436


>gi|158520294|ref|YP_001528164.1| restriction modification system DNA specificity subunit
           [Desulfococcus oleovorans Hxd3]
 gi|158509120|gb|ABW66087.1| restriction modification system DNA specificity domain
           [Desulfococcus oleovorans Hxd3]
          Length = 413

 Score =  244 bits (622), Expect = 3e-62,   Method: Composition-based stats.
 Identities = 134/422 (31%), Positives = 204/422 (48%), Gaps = 15/422 (3%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYL 64
           K YP+YKDSGV+WIG +P+ W+V  +K   K    +T+   +D IYI LE+VES TG+  
Sbjct: 2   KRYPKYKDSGVEWIGEVPEQWEVKRLKFLAKNVNEQTNTKKQDEIYIALENVESWTGRIS 61

Query: 65  PKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP--KDVLPE 122
           P+D  +  +  S    F    IL+GKL PYL K    +  G+C  +FLVL+    +VLPE
Sbjct: 62  PQD--NEITFESQAKCFCSNDILFGKLRPYLAKVARPNKSGVCVGEFLVLRVLDNEVLPE 119

Query: 123 LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
            L+  L S    + + +   GA M  ADW  I N+ +  P   EQ  I   +  +T  ID
Sbjct: 120 FLEQKLRSQWFIELVNSSTFGAKMPRADWTFISNVKLTYPSPKEQNHIASYLDHKTRLID 179

Query: 183 TLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVT 242
           TLI ++ + +ELL+E++ AL+S+ VTKGLNP  KMKD+GIEW+G VP+HW        + 
Sbjct: 180 TLIEKKQKLVELLQEQRTALISHAVTKGLNPKTKMKDTGIEWLGKVPEHWATASLRWYLR 239

Query: 243 ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK 302
             + +     +    +    NI        MG   ++      +  G +           
Sbjct: 240 IGSGEFLSNNDFLTEASDQKNIPVIGGNGVMGYTSKTNIQEPTIAIGRV--------GAL 291

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDV 362
                       I  +A            YL+  +   DL ++        +  +    +
Sbjct: 292 CGNVHLVNPPAWITDNALRLSNIKDFLIDYLSLFLGVLDLNRLANQNA---QPLITGSMI 348

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
           K   V +PPI EQ DI    +  +  ID  +  + + I +L+E R++ I+  VTG+ID+R
Sbjct: 349 KSQKVPIPPIPEQKDILQYCSKFSQTIDHGINTLHKQIAVLQEYRTTLISDVVTGKIDVR 408

Query: 423 GE 424
            E
Sbjct: 409 DE 410


>gi|322420420|ref|YP_004199643.1| restriction modification system DNA specificity domain-containing
           protein [Geobacter sp. M18]
 gi|320126807|gb|ADW14367.1| restriction modification system DNA specificity domain protein
           [Geobacter sp. M18]
          Length = 459

 Score =  243 bits (619), Expect = 5e-62,   Method: Composition-based stats.
 Identities = 97/431 (22%), Positives = 180/431 (41%), Gaps = 15/431 (3%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT 60
           M     YP Y+D+GV W+G+IP HW     K + K    R+    +++  + +  +   T
Sbjct: 1   MMKLAPYPDYRDAGVSWVGSIPAHWPEKRAKYYFKEIDERSQTGDEEM--LSVSHITGVT 58

Query: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKD-- 118
            +        +            G ++   +  ++    +++  GI S  + V +P+   
Sbjct: 59  PRSQKNVTMFKAESNVGQKRCQPGDLVINTMWAWMSALGVSNHAGIVSPAYGVYRPRSNQ 118

Query: 119 -VLPELLQGWLLSIDVTQRIEAICEG--ATMSHADWKGIGNIPMPIPPLAEQVLIREKII 175
                 L   L              G  ++          ++P+  PP  EQ  I   + 
Sbjct: 119 AYDNYYLDHLLRIEGYRSEYICRSTGIRSSRLRLYPDKFLSMPVVCPPQEEQQTIARFLK 178

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVK 235
           A+       I  + R IELLKE+KQ +++  VT+GL+P VK K SG+EW+G +P+HWEV+
Sbjct: 179 AQDRLFRKFIRNKRRLIELLKEQKQNVINQAVTRGLDPKVKFKPSGVEWIGDIPEHWEVR 238

Query: 236 PFFALVTELNRKNTKLI--ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVF 293
               L   LN + ++    E+ I      +   ++   +  +  +S        PG+++F
Sbjct: 239 RLKFLCHNLNEQTSEKQPGETYIALEHVESWTGRISLPDDEISFDSQVKR--FKPGDVLF 296

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL 353
             +     K +           +    +      + + +L   +RS  +  +  +   G 
Sbjct: 297 GKLRPYLAKVT---RPQTAGVCVGEFLVLRATGNVSANFLEQKLRSKRVIDLINSSTFGA 353

Query: 354 -RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
                 +  +  L    PP  EQ +I   I  ++A ID  + + ++ I L++E R+  I+
Sbjct: 354 KMPRADWTFIGNLKFTYPPADEQQEILEHIQEKSAEIDQAISRAQREIELMREYRTRLIS 413

Query: 413 AAVTGQIDLRG 423
             VTGQ+D+RG
Sbjct: 414 DVVTGQVDVRG 424


>gi|294789183|ref|ZP_06754422.1| restriction modification system DNA specificity domain protein
           [Simonsiella muelleri ATCC 29453]
 gi|294482924|gb|EFG30612.1| restriction modification system DNA specificity domain protein
           [Simonsiella muelleri ATCC 29453]
          Length = 436

 Score =  243 bits (619), Expect = 5e-62,   Method: Composition-based stats.
 Identities = 115/437 (26%), Positives = 199/437 (45%), Gaps = 21/437 (4%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNT---GRTSESGKDIIYIGLEDVESGTGK 62
            Y +YKDSG+ W+G +P+HW +  +K     N    G  +++  +I+Y+ +  V    G 
Sbjct: 3   RYEKYKDSGIAWLGEVPEHWSICRLKDEVTFNDEVLGDKTDTDYEILYVDISSVSLIEGI 62

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIA---DFDGICSTQFLVLQPKDV 119
              +      S +    I   G ++   +  YL+        + + I ST F VL+PK+ 
Sbjct: 63  IQKELMTFENSPSRARRIVKNGDVIVSTVRTYLKAITQIQDAEDNLIVSTGFAVLRPKEN 122

Query: 120 L-PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
           L P  L  W+ S ++   I +   G +    +   +  +P+   PL EQ  I   +  + 
Sbjct: 123 LFPRFLGYWVQSENMIGAIVSNSVGVSYPAINATDLVRLPIVKLPLKEQTAIAHYLDTKL 182

Query: 179 VRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPF- 237
             ID LI ++   +E L E++ A++++ VTKGLNP   MK+SG+EW+G VP HW+V PF 
Sbjct: 183 GEIDALIDKQQTLLEKLAERRTAVITHAVTKGLNPAAPMKNSGVEWLGDVPAHWDVSPFK 242

Query: 238 --FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIV------DPG 289
                + +   K  +   S +  ++  NI   +    +  +    + Y+ V        G
Sbjct: 243 LVMNSIIDYRGKTPEKTNSGVFLITARNIKNGIIDYTLSQEFIDEDNYEEVMRRGLPKLG 302

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI-DSTYLAWLMRSYDLCKVFYA 348
           +++        +   +      +  +              D+ +L + + S       Y 
Sbjct: 303 QVLMTTEAPLGEVAQI---DRTDVALAQRVLKFDGKKDKLDNRFLKYFILSKAFQASLYK 359

Query: 349 MGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
             +G     +K E +  L  L+PP+ EQ  I N ++ ETA+ID L E + Q+I  LKE R
Sbjct: 360 FATGSTALGIKSERLSYLKSLLPPVTEQTAIANYLDQETAKIDRLCETVNQTIGRLKEYR 419

Query: 408 SSFIAAAVTGQIDLRGE 424
           ++ I  AVTG+I +  E
Sbjct: 420 TALITQAVTGKIKVTDE 436



 Score =  112 bits (279), Expect = 1e-22,   Method: Composition-based stats.
 Identities = 50/213 (23%), Positives = 100/213 (46%), Gaps = 8/213 (3%)

Query: 211 LNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR----KNTKLIESNILSLSYGNIIQ 266
           +N   K KDSGI W+G VP+HW +      VT  +     K     E   + +S  ++I+
Sbjct: 1   MNRYEKYKDSGIAWLGEVPEHWSICRLKDEVTFNDEVLGDKTDTDYEILYVDISSVSLIE 60

Query: 267 KLETRN-MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
            +  +  M  +       +IV  G+++   +     K   +     +  I+++ +  ++P
Sbjct: 61  GIIQKELMTFENSPSRARRIVKNGDVIVSTVRTYL-KAITQIQDAEDNLIVSTGFAVLRP 119

Query: 326 HGID-STYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
                  +L + ++S ++     +   G+   ++   D+ RLP++  P+KEQ  I + ++
Sbjct: 120 KENLFPRFLGYWVQSENMIGAIVSNSVGVSYPAINATDLVRLPIVKLPLKEQTAIAHYLD 179

Query: 384 VETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
            +   ID L++K +  +  L ERR++ I  AVT
Sbjct: 180 TKLGEIDALIDKQQTLLEKLAERRTAVITHAVT 212


>gi|91225110|ref|ZP_01260332.1| hypothetical type I restriction-modification system specificity
           determinant [Vibrio alginolyticus 12G01]
 gi|91190053|gb|EAS76324.1| hypothetical type I restriction-modification system specificity
           determinant [Vibrio alginolyticus 12G01]
          Length = 464

 Score =  242 bits (618), Expect = 6e-62,   Method: Composition-based stats.
 Identities = 108/446 (24%), Positives = 185/446 (41%), Gaps = 24/446 (5%)

Query: 2   KHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLED 55
             Y+AYP+YKDS V+W+  IPK W    +K   +      +          +  YI + D
Sbjct: 8   NRYQAYPEYKDSDVEWLDDIPKDWCTRRLKHMLESPMSYGANEAAERAVSTEPRYIRITD 67

Query: 56  VESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDG--ICSTQFLV 113
           + S  G        S   D ++  +     IL  + G  + K+ I   +    C   +L+
Sbjct: 68  MNSD-GTLKEDTFRSLPKDIASDYLLKDRDILLARSGATVGKSFIYRKEFGDCCFAGYLI 126

Query: 114 LQPKDV---LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIP-PLAEQVL 169
               D      +    +  S    Q I      AT+ +   +  G + + +P  + EQ  
Sbjct: 127 KVSCDSARLNSDYAFWFFQSSSYWQYISGSQIQATIQNVSAEKYGEMYISLPEHVEEQTQ 186

Query: 170 IREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVP 229
           I   +  ET +IDTLI ++ + I+LLKEK+QA++S+ VTKGLNP   MK+SG+EW+G VP
Sbjct: 187 IANFLDHETAKIDTLIEKQQQLIKLLKEKRQAVISHAVTKGLNPQAPMKNSGVEWLGEVP 246

Query: 230 DHWEVKPFFALVTEL----NRKNTKLIESNILSLSYGNIIQK-----LETRNMGLKPESY 280
           +HWE      +  ++    ++      +   L     N+                  E +
Sbjct: 247 EHWEQIKLKHITHQIVDAEHKTAPYFDDGEYLVCRTTNVRDGKLRLDGGKYTNHAIYEEW 306

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY 340
                 + G+I+F        +  + + +V            +    +   ++   + S 
Sbjct: 307 TKRGQPEVGDILFTREAPAG-EACVYTGEVPLCLGQRMVLFKLNQTRVLPEFVLHSIYSG 365

Query: 341 DLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
                   +  G         D++ +P+  PP  EQ  I + +    A+ D L       
Sbjct: 366 LADDFVKQLSQGSTVAHFNMSDIQNIPLFEPPKDEQAQIVDHLAKVLAKYDALTSSASLK 425

Query: 400 IVLLKERRSSFIAAAVTGQIDLRGES 425
           I L++ERR++ I+AAVTG+ID+R   
Sbjct: 426 IELMQERRTALISAAVTGKIDVRNWQ 451


>gi|152984823|ref|YP_001345472.1| type I restriction-modification system subunit S [Pseudomonas
           aeruginosa PA7]
 gi|150959981|gb|ABR82006.1| type I restriction-modification system, S subunit [Pseudomonas
           aeruginosa PA7]
          Length = 464

 Score =  242 bits (616), Expect = 1e-61,   Method: Composition-based stats.
 Identities = 119/447 (26%), Positives = 205/447 (45%), Gaps = 26/447 (5%)

Query: 4   YKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESG----KDIIYIGLEDVESG 59
           +  YP+Y+ SGV+W+  +P HW  VPIK           +      KDI   G+  + +G
Sbjct: 3   FPCYPKYRASGVEWLDQVPDHWSSVPIKYMALERNSLFLDGDWIESKDISSDGIRYITTG 62

Query: 60  T---GKYLPKDGNSRQSDT---STVSIFAKGQILYGKLGPYLRKAIIADFDG---ICSTQ 110
               G Y  +       +T      +   +G +L  +L   + +A +    G   + S  
Sbjct: 63  NVGEGAYKEQGAGFISEETFHALRCTEVYEGDVLVSRLNNPIGRACVVPNLGGRVVTSVD 122

Query: 111 FLVLQPKDVLPELLQGW-LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVL 169
            ++ +P     +    +   S +  +    +  GATM       +GNI +  P L EQ  
Sbjct: 123 NVIFRPDLKFYKKFIVYLFSSEEYFKHTSNLARGATMQRISRGLLGNIRVVTPSLEEQTQ 182

Query: 170 IREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVP 229
           I   +  ET RID LI E+ R IELLKEK+QA++S+ VTKGL+P V MKDSG+EW+G VP
Sbjct: 183 IARFLDHETARIDALIEEQQRLIELLKEKRQAVISHAVTKGLDPTVPMKDSGVEWLGEVP 242

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE----------S 279
            HWEV+   ++  ++           ++       +Q L  ++  +K E          +
Sbjct: 243 AHWEVRSISSISKKITNGYVGPTRDILVDEPGVRYLQSLHIKSNKIKFEVPYFVSEQWSA 302

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
                I+  G+++            +               ++     +   +++W++ S
Sbjct: 303 EHAKSILASGDVLIVQTGDIGQVAVVTEEHAGCN-CHALIIVSPVREVVLGEWVSWVLNS 361

Query: 340 YDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
                   ++ +G     L   +VK L + +PP++EQ  I + I      +D L+ + ++
Sbjct: 362 TYGYHSLLSIQTGAMHPHLNCGNVKFLNLPIPPLEEQARIVSFIESGELEMDSLMSETKR 421

Query: 399 SIVLLKERRSSFIAAAVTGQIDLRGES 425
           S++LL+ERR++ I+AAVTG+ID+RG  
Sbjct: 422 SLLLLQERRTALISAAVTGKIDVRGWQ 448


>gi|148263547|ref|YP_001230253.1| restriction endonuclease S subunits-like protein [Geobacter
           uraniireducens Rf4]
 gi|146397047|gb|ABQ25680.1| Restriction endonuclease S subunits-like protein [Geobacter
           uraniireducens Rf4]
          Length = 443

 Score =  242 bits (616), Expect = 1e-61,   Method: Composition-based stats.
 Identities = 107/442 (24%), Positives = 193/442 (43%), Gaps = 24/442 (5%)

Query: 3   HYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKD---------IIYIGL 53
            Y+AYP+YKDSG +W+G +P HW+V+ IK  + +  G +     D           +  +
Sbjct: 4   RYQAYPEYKDSGEEWLGDVPSHWEVIQIKHLSTVRRGASPRPIDDAKYFDDEGEYAWTRI 63

Query: 54  EDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLV 113
            DV +                +S       G +     G   +   I          F V
Sbjct: 64  ADVTASEMYLFNAPQRLSDLGSSLSVKLEPGALFLSIAGTVGKPC-ITGMKACIHDGF-V 121

Query: 114 LQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
             P+  +P     ++ + +  Q  + + +  T  + +   +G I +     ++   I + 
Sbjct: 122 YFPELKIPSKFLFYVFAGE--QAYKGLGKFGTQLNLNTDTVGGIKIGCTENSQLEKIVQF 179

Query: 174 IIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWE 233
           +  ET +IDTLI ++ + I+LLKEK+QA++S+ VTKGLNPD  MKDSG+EW+G VP+HW+
Sbjct: 180 LDHETAKIDTLIDKQQQLIKLLKEKRQAVISHAVTKGLNPDAPMKDSGVEWLGEVPEHWD 239

Query: 234 VK---PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVD--- 287
           V         +T+    +          +S  ++   L      L         +V+   
Sbjct: 240 VCLAKFKTHAITDGAHISPDTKNGEHYFVSIKDMCDGLINFEDALLTSKESYKYLVNTGC 299

Query: 288 ---PGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCK 344
              PG+I+F        K  +    V      +   +      +   +  +L +S  + +
Sbjct: 300 KPEPGDILFSKDGTIG-KTVVTPENVDFVVASSLIIIKPNLKKLSPQFFDYLCQSCVIQE 358

Query: 345 VFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
              +   G   + L  +++ ++  + PP+ EQ  I   I+ +  R   + +    +I L+
Sbjct: 359 QVNSFVKGAALKRLSIQNLLKVWGVFPPLDEQVVIAKHIDKKLIRYQQIEQTANNAIALM 418

Query: 404 KERRSSFIAAAVTGQIDLRGES 425
           +ERR++ I+AAVTG+ID+R   
Sbjct: 419 QERRTALISAAVTGKIDVRDWQ 440


>gi|297581971|ref|ZP_06943891.1| restriction endonuclease S subunit [Vibrio cholerae RC385]
 gi|297533838|gb|EFH72679.1| restriction endonuclease S subunit [Vibrio cholerae RC385]
          Length = 437

 Score =  242 bits (616), Expect = 1e-61,   Method: Composition-based stats.
 Identities = 128/435 (29%), Positives = 212/435 (48%), Gaps = 19/435 (4%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLP 65
            Y +YK+S V W+G IP HWK++P +        +      +     + ++  G  +Y  
Sbjct: 3   PYSEYKESRVPWLGKIPSHWKLLPCRAIVDNQVEKNDSGKIEEYLSLMANI--GVVRYEE 60

Query: 66  KD--GNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPEL 123
           K   GN +  D +   +  +G ++   +   +    ++ F+G+CS  ++VL+PK+ + E 
Sbjct: 61  KGDVGNKKPEDLTKCKLVKQGNLVINSMNYAIGSYGMSPFNGVCSPVYIVLEPKEQIVER 120

Query: 124 LQ--GWLLSIDVTQRIEAICEGATMSH--ADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
                   +  + + +  +  G         W  I    +P+PPL EQ  I   +  ET 
Sbjct: 121 RYALRLFENKPMQKHLAQLGNGILQHRAAIKWDDIKPQAVPVPPLEEQRAILYFLDRETQ 180

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFA 239
           RID+LI E++ FI+LLKEK+QAL+S+IVTKGLNP+V+M+DSGIEW+G VP HW +     
Sbjct: 181 RIDSLIAEKLTFIKLLKEKRQALISHIVTKGLNPNVEMQDSGIEWIGQVPKHWGISKVRY 240

Query: 240 LVTELNRKNT--KLIESNILSLSYGNIIQKLETRNMG----LKPESYETYQIVDPGEIVF 293
           L    N  N   +        +SYG++              L  E       V  G+++F
Sbjct: 241 LGQCQNGINIGGEFFGHGTPFVSYGDVYNNTSLPEKVQGLVLSTEKDRDNYSVIAGDVLF 300

Query: 294 RFIDLQNDKRSL--RSAQVMERGIITSAYMAVKPHGIDSTYLA--WLMRSYDLCKVFYAM 349
                  ++          +E+ +     +  +P   +       +  R+  L   F   
Sbjct: 301 TRTSETIEEIGFSAVCKSTIEQAVFAGFLIRFRPDEGNLEVGFSEYYFRNEKLRAFFAKE 360

Query: 350 GS-GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
            +   R SL  + +K++PVL+PPI EQ +I N +  E  +   +  + E++I+LLKERR+
Sbjct: 361 MNLVTRASLSQDLLKKMPVLLPPIDEQNEIANYLQAECNKFSEIFAETEKTILLLKERRT 420

Query: 409 SFIAAAVTGQIDLRG 423
           S I+AAVTG+ID+R 
Sbjct: 421 SLISAAVTGKIDVRE 435


>gi|315180942|gb|ADT87856.1| type I restriction-modification system specificity determinant
           [Vibrio furnissii NCTC 11218]
          Length = 449

 Score =  241 bits (615), Expect = 1e-61,   Method: Composition-based stats.
 Identities = 110/440 (25%), Positives = 193/440 (43%), Gaps = 19/440 (4%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT 60
           M  Y++YP+YKDSG++W+G IP  W  +P+ R             + +       V   +
Sbjct: 1   MGKYQSYPKYKDSGIEWMGDIPNEWVTIPVGRLYYRTKRSGHSEKELLSVYRDYGVIPKS 60

Query: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL 120
            +    + N    D +   +     ++  K+  +     +++++GI S  + V +P++ L
Sbjct: 61  SR--DDNNNKESDDLTPYQLVQPNDLVMNKMKAWQGSIAVSEYEGIVSPAYFVYEPREKL 118

Query: 121 -----PELLQGWLLSIDVTQRIEAICEGA--TMSHADWKGIGNIPMPIPPLAEQVLIREK 173
                P  +   L +     +  +  +G        D      I + +P   EQ  I E 
Sbjct: 119 FELAHPRYVHYLLRNPIYITQYMSRSKGIRVNQWDLDPDEFKTIELLLPSKDEQSKIFEF 178

Query: 174 IIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWE 233
           +  ET +ID+LI ++ + I+LLKEK+QA++S+ VTKGLNP   MKDS +EW+G VP+HW 
Sbjct: 179 LDHETAKIDSLIKKQQQLIKLLKEKRQAVISHAVTKGLNPQAPMKDSDVEWLGKVPEHWG 238

Query: 234 VKPFFA---LVTELNRKNTKLIESNILSLSYGNIIQKLETRN----MGLKPESYETYQIV 286
               F     + +         +        GN +             +  + Y+ + I 
Sbjct: 239 TPKLFHVSTRIGDGLHSTPLYEDGTGYFFVNGNNLTNGVITIGATAKEVPLKEYQNHYIP 298

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF 346
                V   I+      +L   + +  G   SA        I+  YL W + S      +
Sbjct: 299 LSNMSVLLSINGTIGNVALYREEKIILGK--SAAYINCKAEINPEYLRWFLTSDQAKLYY 356

Query: 347 YA-MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
              +      +L    ++++ VLVP ++EQ DI     +  ++ + L+      + LLKE
Sbjct: 357 DLEVTGTTIYNLSLNSIRKMKVLVPSVQEQTDIAKFCEMSHSKYEKLILSAITQMDLLKE 416

Query: 406 RRSSFIAAAVTGQIDLRGES 425
           RR++ I+AAVTG+ID+R   
Sbjct: 417 RRTALISAAVTGKIDVRNWQ 436


>gi|331666002|ref|ZP_08366896.1| type I restriction-modification system, S subunit [Escherichia coli
           TA143]
 gi|331057053|gb|EGI29047.1| type I restriction-modification system, S subunit [Escherichia coli
           TA143]
          Length = 467

 Score =  241 bits (614), Expect = 2e-61,   Method: Composition-based stats.
 Identities = 107/451 (23%), Positives = 191/451 (42%), Gaps = 27/451 (5%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESG-------KDIIYIGL 53
           +  Y+AYP+Y+DSG++W   +P +WK   ++  + +  G T             + +I  
Sbjct: 4   LNKYQAYPEYRDSGMEWCNELPLNWKKTKLRWLSNIFAGGTPSKNVIDYWENGTVPWISS 63

Query: 54  EDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGP--YLRKAIIADFDGICSTQF 111
             V  G         ++   + S+     KG ++    G             +  C+   
Sbjct: 64  GAVNQGYIVEPSTYISNAALENSSAKWIPKGALVVALAGQGKTKGMVAQLGINTTCNQSM 123

Query: 112 LVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIR 171
             +       +    +   I   Q I  +  G      + + +G+I  P P   E   I 
Sbjct: 124 AAIVLYKK-NQSRYIFWWLISNYQNIRNMAGGDLRDGLNLELLGDIQCPKPRNDESSKIA 182

Query: 172 EKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDH 231
             +  ET +ID LI ++ + IELLKEK+QA++S+ VTKGLNPDV MKDSG+  +G  P H
Sbjct: 183 LFLDHETAKIDDLIEKQQQLIELLKEKRQAVISHAVTKGLNPDVPMKDSGLTGLGEAPSH 242

Query: 232 WEVKPFFALVTELNRK-----------NTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
           W          E                ++L E  +  +   +I      R   +     
Sbjct: 243 WFKSKLANTGDETKGCFVNGPFGSDLLASELKEEGVPVVYIRDIKATGYNRKSTVYVTHQ 302

Query: 281 ETY----QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY-MAVKPHGIDSTYLAW 335
           +        +   +++F  +     +  +      +  I      + V     ++ ++A+
Sbjct: 303 KAQQLEICKLSSNDVIFSKVGDPPGEACVYPKNEPDAVITQDVMRVRVNKKTFNAHFIAY 362

Query: 336 LMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
           L+ S    +    +   G R+ +   D K    + PP+ E   I N +N + A+ID+++ 
Sbjct: 363 LLNSNFGRQTINNISIEGTRKRVSLGDFKTTKFIFPPLGEAQSIVNALNEKCAQIDLIIF 422

Query: 395 KIEQSIVLLKERRSSFIAAAVTGQIDLRGES 425
           K  Q+I+L++ERR++ I+AAVTG+IDLR  +
Sbjct: 423 KTNQAIMLIQERRTALISAAVTGKIDLRNWT 453


>gi|86130625|ref|ZP_01049225.1| type I site-specific deoxyribonuclease [Dokdonia donghaensis
           MED134]
 gi|85819300|gb|EAQ40459.1| type I site-specific deoxyribonuclease [Dokdonia donghaensis
           MED134]
          Length = 444

 Score =  241 bits (614), Expect = 2e-61,   Method: Composition-based stats.
 Identities = 103/438 (23%), Positives = 178/438 (40%), Gaps = 18/438 (4%)

Query: 2   KHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTG 61
              + Y  YKDSGV+W+G IP+HW++  +       + +   +   +     + V     
Sbjct: 6   NKVQRYDSYKDSGVEWLGEIPEHWQLGRLGSILNPVSSKNHPNETLLSITREKGVIVRDI 65

Query: 62  KYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVL-QPKDVL 120
           +    + N    D +   +  KGQ    K+  +     ++ + GI S  +      K++ 
Sbjct: 66  ENEDSNHNFIPDDLTGYKLLKKGQFGMNKMKAWQGSYGVSSYTGIVSPAYYTFEFTKEIE 125

Query: 121 PELLQGWLLSIDVTQRIEAICEG--ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
           P      + S           +G            +  IP+ +PPL EQ  I E +  +T
Sbjct: 126 PRFFHIAIRSKMYVSFFGKASDGVRIGQWDLSKDRMKRIPLAVPPLPEQTAIAEFLDDKT 185

Query: 179 VRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFF 238
            +ID  I  + + I LLKE+KQ L+   VT+GL+  V +KDSG+EW+G +P+HW+VK F 
Sbjct: 186 TKIDDAIGIKQQQINLLKERKQILIHKAVTRGLDDSVTLKDSGVEWIGEIPEHWKVKRFR 245

Query: 239 ALVTELNR---KNTKLIESNILSLSYGNIIQKLETRNMGLK---------PESYETYQIV 286
            +             L E  +  ++YG I  K                       T  ++
Sbjct: 246 YIFQLGKGLTITKENLKEEGVFCVNYGEIHSKYGFEVDTNIQQLKCVDDDYLESNTNALI 305

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA--VKPHGIDSTYLAWLMRSYDLCK 344
             G+ VF       +     +    +  I    +         I+S + A++  S     
Sbjct: 306 KEGDFVFADTSEDIEGSGNFTYLKSKDEIFAGYHTVVAKPKFKINSRFFAYVFESQSFRN 365

Query: 345 VFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
                  G+   S+    +K   V  P I+EQ +I + +++ T +I+  +   EQ I  L
Sbjct: 366 QIRTKVKGVKVYSVTQSILKEPNVWYPSIQEQREIVDFLDIGTRKIETAIGLKEQEIEKL 425

Query: 404 KERRSSFIAAAVTGQIDL 421
           KE + S I   VTG++ +
Sbjct: 426 KEYKGSLINGVVTGKVRV 443



 Score =  121 bits (304), Expect = 2e-25,   Method: Composition-based stats.
 Identities = 53/217 (24%), Positives = 97/217 (44%), Gaps = 10/217 (4%)

Query: 206 IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII 265
            +   +      KDSG+EW+G +P+HW++    +++  ++ KN        ++   G I+
Sbjct: 3   AIENKVQRYDSYKDSGVEWLGEIPEHWQLGRLGSILNPVSSKNHPNETLLSITREKGVIV 62

Query: 266 QKLETR--NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
           + +E    N    P+    Y+++  G+     +        + S      GI++ AY   
Sbjct: 63  RDIENEDSNHNFIPDDLTGYKLLKKGQFGMNKMKAWQGSYGVSSY----TGIVSPAYYTF 118

Query: 324 -KPHGIDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDIT 379
                I+  +    +RS      F     G+   +  L  + +KR+P+ VPP+ EQ  I 
Sbjct: 119 EFTKEIEPRFFHIAIRSKMYVSFFGKASDGVRIGQWDLSKDRMKRIPLAVPPLPEQTAIA 178

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
             ++ +T +ID  +   +Q I LLKER+   I  AVT
Sbjct: 179 EFLDDKTTKIDDAIGIKQQQINLLKERKQILIHKAVT 215


>gi|258513230|ref|YP_003189486.1| type I DNA specificity S subunit [Acetobacter pasteurianus IFO
           3283-01]
 gi|256635133|dbj|BAI01107.1| type I DNA specificity S subunit [Acetobacter pasteurianus IFO
           3283-01]
 gi|256638188|dbj|BAI04155.1| type I DNA specificity S subunit [Acetobacter pasteurianus IFO
           3283-03]
 gi|256641242|dbj|BAI07202.1| type I DNA specificity S subunit [Acetobacter pasteurianus IFO
           3283-07]
 gi|256644297|dbj|BAI10250.1| type I DNA specificity S subunit [Acetobacter pasteurianus IFO
           3283-22]
 gi|256647352|dbj|BAI13298.1| type I DNA specificity S subunit [Acetobacter pasteurianus IFO
           3283-26]
 gi|256650405|dbj|BAI16344.1| type I DNA specificity S subunit [Acetobacter pasteurianus IFO
           3283-32]
 gi|256653396|dbj|BAI19328.1| type I DNA specificity S subunit [Acetobacter pasteurianus IFO
           3283-01-42C]
 gi|256656449|dbj|BAI22374.1| type I DNA specificity S subunit [Acetobacter pasteurianus IFO
           3283-12]
          Length = 420

 Score =  240 bits (613), Expect = 2e-61,   Method: Composition-based stats.
 Identities = 112/428 (26%), Positives = 191/428 (44%), Gaps = 18/428 (4%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT 60
           +  Y  Y  Y+DSGVQW+G  P +W++  +    +    + S++  + + +         
Sbjct: 3   IAAYSKYDAYRDSGVQWVGQFPANWELARLGGLFEERRHKVSDTDFEPLSVT------KN 56

Query: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL 120
           G +      ++ +D     +   G  +          + I+  DG  S   +VL+PK +L
Sbjct: 57  GIFPQLANAAKTNDGENRKLVRAGDFVINSRSDRKGSSGISPLDGSVSLINIVLEPKRIL 116

Query: 121 PELLQGWLLSIDVTQRIEAICEGAT--MSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
           PE     L S    +    +  G    +    +  +  I + +P   EQ  I   +  + 
Sbjct: 117 PEFCHHLLKSYAFVEEYYRVGRGIVADLWTTRYDEMRTILIALPSPDEQRTIAAFLDGKC 176

Query: 179 VRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFF 238
             ID  +  + + I LL E++Q L+   VT+GLNPD  MKDSGI+W+G +P HWEVK   
Sbjct: 177 ALIDEAVRIKEKQIRLLVERRQILIQQAVTRGLNPDAPMKDSGIDWIGQIPAHWEVKRNK 236

Query: 239 ALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDL 298
            +  E+N ++ K  E + LS+S    +   +     L  ESY+  ++V  G++V   +  
Sbjct: 237 HMFVEINERSAKGEEQH-LSMSQKLGLVPADLVEKSLASESYQGAKLVRTGDLVLNRLKA 295

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKP--HGIDSTYLAWLMRSYDLCKVFYAMGSGLR-- 354
                SL   +    G+++  Y   +P   G  S Y   L ++      F     G+   
Sbjct: 296 HLAVFSLAPME----GLVSPDYSVFRPLVQGASSDYFEILFKTSKYLGEFRLRVRGIVEG 351

Query: 355 -QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
              L  +D    P+L+PP+ EQ  I   +   TA+   ++   E  I  L+E ++S I A
Sbjct: 352 FYRLYTDDFMDCPLLLPPLDEQLQIVEHVRATTAQFHNVIAIKESQITALREYKTSLINA 411

Query: 414 AVTGQIDL 421
           AVTG+I +
Sbjct: 412 AVTGKIKV 419


>gi|126462620|ref|YP_001043734.1| restriction modification system DNA specificity subunit
           [Rhodobacter sphaeroides ATCC 17029]
 gi|126104284|gb|ABN76962.1| restriction modification system DNA specificity domain [Rhodobacter
           sphaeroides ATCC 17029]
          Length = 456

 Score =  240 bits (613), Expect = 2e-61,   Method: Composition-based stats.
 Identities = 109/447 (24%), Positives = 198/447 (44%), Gaps = 33/447 (7%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFT-KLNTGRTSES-------GKDIIYIGLEDV 56
           + YP YKDSGV+W+G +P+ W+V  ++    +L TG               +  +   ++
Sbjct: 2   RRYPAYKDSGVEWLGEVPEGWEVKCLRMIADELQTGPFGSQLHTEDYVTAGVPIVNPSNI 61

Query: 57  ESGTGKYLPKDGNSRQSDTSTVSI-FAKGQILYGKLGPYLRKAIIADFDGI----CSTQF 111
             G      + G    +     +     G I+ G+ G   R A++ D          +  
Sbjct: 62  LDGQIVPDDEIGVDEATALRLANHALLPGDIILGRRGELGRCAVVPDGTMPLLCGTGSLR 121

Query: 112 LVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIR 171
           + L+    LP+ +   + +  V + +     G+TM + +   +G I + +P L EQ  I 
Sbjct: 122 IRLKSSQALPDFIAECIRTPRVREWLSLQSVGSTMDNLNTAIVGKIQIALPSLPEQRAIT 181

Query: 172 EKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDH 231
             +  ET +ID L+ E+ R I LL EK+QA++++ VT+GLNPD  +K SGI+W+G +P+ 
Sbjct: 182 AFLNRETAKIDALVEEQRRLIALLAEKRQAVLNHAVTRGLNPDALLKPSGIDWLGDIPEG 241

Query: 232 WEVK------PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY----- 280
           WEV          +  T    +    ++ +I   S  +I Q    R   +   +      
Sbjct: 242 WEVVPIRKVARLESGHTPSRSRPEWWVDCHIPWFSLADIWQVRPGRVEYVYETAEAVSEL 301

Query: 281 ----ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWL 336
                + +++  G ++            +  A    +         V    +   YL + 
Sbjct: 302 GLQNSSARLLPAGTVMLSRTASVGFSAVMGIAMATTQDFAN----WVCGCRLLPDYLLYC 357

Query: 337 MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
           +R          MGS    ++   D++ L + +PP++EQ  I + +      +D L++  
Sbjct: 358 LRGMPSEFERLKMGS-THNTIYMPDIRTLTIPLPPLEEQKAIVDHVRASVGALDELMDTA 416

Query: 397 EQSIVLLKERRSSFIAAAVTGQIDLRG 423
             +I LL+ERR++ I+AAVTG+ID+R 
Sbjct: 417 TTAITLLQERRAALISAAVTGKIDVRD 443


>gi|260581977|ref|ZP_05849772.1| restriction endonuclease S [Haemophilus influenzae NT127]
 gi|260094867|gb|EEW78760.1| restriction endonuclease S [Haemophilus influenzae NT127]
          Length = 416

 Score =  240 bits (612), Expect = 3e-61,   Method: Composition-based stats.
 Identities = 101/425 (23%), Positives = 191/425 (44%), Gaps = 18/425 (4%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYL 64
           + Y +YKDSGV+W+G +P HW++  +K+       +          + L       GK +
Sbjct: 2   RRYERYKDSGVEWLGEVPSHWELKRLKQLFVEKKHK--------QSLSLNCGAISFGKVI 53

Query: 65  PK-DGNSRQSDTSTVSIFAKGQILYGKLGPYLR----KAIIADFDGICSTQFLVLQPKDV 119
            K D    ++   +     KG+ L   L         +  +++ D + S  ++VL+ K +
Sbjct: 54  EKSDDKVTEATKRSYQEVLKGEFLINPLNLNYDLISLRIALSEIDVVVSAGYIVLKEKQI 113

Query: 120 LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
           + +    +LL       ++ +  G      ++  I +  + IPPL+EQ  I + +  +T 
Sbjct: 114 INKKYFSYLLHRYDVAYMKLLGSGV-RQTINYGHISDSILVIPPLSEQQKIAQFLDDKTA 172

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFA 239
           +ID  +    + I LLKE KQ L+   VT+GLNPDV +KDSG+EW+G VP+HW+V+    
Sbjct: 173 KIDQAVDLAEKQIALLKEHKQILIQNAVTRGLNPDVPLKDSGVEWIGQVPEHWDVQRSKF 232

Query: 240 LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQ 299
           +  ++ RK  +  +           ++                YQ +  G++V   +D  
Sbjct: 233 IFKKIERKVNEEDQIVTCFRDGQVTLRANRRTEGFTNALKEHGYQGIRKGDLVIHAMDAF 292

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS--- 356
                +  +      + +   +      ID  + A+ +R+  L     ++  G+R+    
Sbjct: 293 AGAIGISDSDGKATPVYS-VCLPHDKQKIDVYFYAYYLRNLALSGFISSLAKGIRERSTD 351

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
            ++ D   L + +PP  EQ  I + ++ +T++ID  +      I  LKE ++  I   VT
Sbjct: 352 FRYSDFAELLLPIPPYLEQQKIADYLDKQTSKIDRAIALKTAHIEKLKEYKNVLINDVVT 411

Query: 417 GQIDL 421
           G++ +
Sbjct: 412 GKVRV 416


>gi|281355061|ref|ZP_06241555.1| putative type I site-specific restriction-modification system, S
           subunit [Victivallis vadensis ATCC BAA-548]
 gi|281317941|gb|EFB01961.1| putative type I site-specific restriction-modification system, S
           subunit [Victivallis vadensis ATCC BAA-548]
          Length = 430

 Score =  240 bits (611), Expect = 4e-61,   Method: Composition-based stats.
 Identities = 104/424 (24%), Positives = 185/424 (43%), Gaps = 12/424 (2%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYL 64
           K Y +YKDSG+ WIG +P+ WK+ P        +  T +S ++++ + L+       +  
Sbjct: 2   KRYVKYKDSGIPWIGEVPEGWKICPFFAIFTPIS-ITGKSVEELLSVYLDVGVVRFSEKR 60

Query: 65  PKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELL 124
            K  N+  +D S       G  +      +     I+ + GI S  +LV++    +    
Sbjct: 61  EKRANATSADMSKYQYVDIGDFVLNNQQAWRGSVGISQYKGIVSPAYLVMKTSKQINSSF 120

Query: 125 QGW---LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
             +     +      + +   G+   +  W  +    M  PPL EQ  I E + +   +I
Sbjct: 121 ANYLVRSPACVYAYFLSSRGVGSIQRNIYWDELKRYKMVFPPLDEQREIVEYLDSVVAKI 180

Query: 182 DTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALV 241
           D  I E+   IE L   KQ+++++ VTKG+NP+ KMKDSGI W+G VP+HW       + 
Sbjct: 181 DGYIAEKEAEIEKLGLLKQSVIAHAVTKGINPNAKMKDSGIPWIGEVPEHWLQLRGKNIF 240

Query: 242 TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQND 301
           T + R      E           ++K    +   +      YQ + PG++V   +D    
Sbjct: 241 TRMARVVEADDEVITCFRDGQVTLRKNRRTDGFTESFKEIGYQGIRPGDLVIHQMDAFAG 300

Query: 302 KRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA-WLMRSYDLCKVFYAMGSGLRQS---L 357
              +  +    +G  T  Y+ ++P G  S +   +L+R         ++  G+R+     
Sbjct: 301 AIGVSDS----KGKGTPVYICLQPKGEQSNFYYAYLLREMARTGYIKSLYRGIRERSSDF 356

Query: 358 KFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
           ++E   +L + +PP  EQ  I   I+ +   ID  +  + + I  LK  +   I+  VTG
Sbjct: 357 RYETFGKLLLPIPPADEQRAIVEFIDRKVKEIDGFISAVREQIEKLKLYKQRLISDVVTG 416

Query: 418 QIDL 421
           +I +
Sbjct: 417 KIKV 420


>gi|257061739|ref|YP_003139627.1| restriction modification system DNA specificity domain protein
           [Cyanothece sp. PCC 8802]
 gi|256591905|gb|ACV02792.1| restriction modification system DNA specificity domain protein
           [Cyanothece sp. PCC 8802]
          Length = 456

 Score =  240 bits (611), Expect = 4e-61,   Method: Composition-based stats.
 Identities = 124/445 (27%), Positives = 199/445 (44%), Gaps = 22/445 (4%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTK-LNTG-------RTSESGKDIIYIG 52
           +K +K YP YK SGV W+G IP  W+V  ++  +K +  G       +   +       G
Sbjct: 6   LKQWKLYPNYKPSGVDWLGDIPDSWEVKRLRYLSKKITAGPFGSNLTKNIYTSTGYKIYG 65

Query: 53  LEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD--FDGICSTQ 110
            E V +          +  + D  +      G IL   +G + + A++      GI + +
Sbjct: 66  QEQVIASDFSIGDYYISKEKYDQMSQYKINSGDILISCVGTFGKVAVVPKNIEQGIINPR 125

Query: 111 FLVLQPKDVLPELLQGWLLSIDV--TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQV 168
            + L P       +    L   V   +++E +  G TM   +   + +I +PIPPL EQ 
Sbjct: 126 LIKLIPITEYINSVYLEKLLKSVVAFEQMEKLSRGGTMGVINIGLLSDILLPIPPLPEQE 185

Query: 169 LIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLV 228
            I + +  ET +ID LIT + R IELLKEK+ AL+S+ VTKGLNPDV MKDSG+EW+G +
Sbjct: 186 KIAQFLDKETAKIDKLITLKERLIELLKEKRTALISHAVTKGLNPDVPMKDSGVEWLGFI 245

Query: 229 PDHWEVKPFFALVTELN-----RKNTKLIESNILSLSYGNI----IQKLETRNMGLKPES 279
           P+HWEVK    +V  +            +ES I  L   NI    I       +  +   
Sbjct: 246 PEHWEVKRLKYIVPNITVGIVVTPAKYYVESGIPCLRSVNISSGKIDNSNLVFISSQSNE 305

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
                 +  G++V     +     ++ +        +    +      +      +L  S
Sbjct: 306 LHQKSKIYKGDLVLVRTGVTGT-AAIVTDNFDGANCVDLLIIRNSRLILTLYLYYYLNSS 364

Query: 340 YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
               +V       ++       +  L +  PP +EQ  I   ++ +T +ID ++ K  +S
Sbjct: 365 TTSYQVNNYSVGAIQAHYNTSTLSELIITFPPPQEQQKIAEYLDRKTEQIDQIINKTRES 424

Query: 400 IVLLKERRSSFIAAAVTGQIDLRGE 424
           I  LKE R+  I+AAVTG+ID+R  
Sbjct: 425 IEYLKEYRTVLISAAVTGKIDVRQW 449


>gi|145633684|ref|ZP_01789410.1| putative type I site-specific restriction-modification system, S
           subunit [Haemophilus influenzae 3655]
 gi|144985444|gb|EDJ92265.1| putative type I site-specific restriction-modification system, S
           subunit [Haemophilus influenzae 3655]
          Length = 418

 Score =  240 bits (611), Expect = 4e-61,   Method: Composition-based stats.
 Identities = 102/425 (24%), Positives = 192/425 (45%), Gaps = 18/425 (4%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYL 64
           + Y  YKDSGV+W+G +P HW++  +K+       + +        + L       GK +
Sbjct: 2   RRYESYKDSGVEWLGEVPSHWELKRLKQLFVEKKHKQN--------LSLNCGAISFGKVI 53

Query: 65  PK-DGNSRQSDTSTVSIFAKGQILYGKLGPYLR----KAIIADFDGICSTQFLVLQPKDV 119
            K D    ++   +     KG+ L   L         +  +++ D + S  ++VL+ K +
Sbjct: 54  EKADDKVTEATKRSYQEVLKGEFLINPLNLNYDLISLRIALSEIDVVVSAGYIVLKEKQI 113

Query: 120 LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
           + +    +LL       ++ +  G      ++  I +  + IPPL+EQ  I + +  +T 
Sbjct: 114 INKKYFSYLLHRYDVAYMKLLGSGV-RQTINYGHISDSILVIPPLSEQQKIAQFLDDKTA 172

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFA 239
           +ID  +    + I LLKE KQ L+   VT+GLNPDV +KDSG+EW+G VP+HW+V+    
Sbjct: 173 KIDRAVDLAEKQIALLKEHKQILIQNAVTRGLNPDVPLKDSGVEWIGQVPEHWDVQRSKF 232

Query: 240 LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQ 299
           +  ++ RK  +  +           ++                YQ +  G++V   +D  
Sbjct: 233 IFKKIERKVNEEDQIVTCFRDGQVTLRANRRTEGFTNALKEHGYQGIRKGDLVIHAMDAF 292

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS--- 356
                +  +      + +   +      ID  + A+ +R+  L     ++  G+R+    
Sbjct: 293 AGAIGISDSDGKATPVYS-VCLPHNKQKIDVYFYAYYLRNLALSGFISSLAKGIRERSTD 351

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
            ++ D   L + +PP  EQ  I + ++ +T++ID ++      I  LKE +S  I   VT
Sbjct: 352 FRYADFAELLLPIPPYLEQQKIADYLDKQTSKIDQVIALKTAHIEKLKEYKSVLINDVVT 411

Query: 417 GQIDL 421
           G++ +
Sbjct: 412 GKVRV 416


>gi|68248718|ref|YP_247830.1| putative type I site-specific restriction-modification system, S
           subunit [Haemophilus influenzae 86-028NP]
 gi|319896548|ref|YP_004134741.1| type i site-specific restriction-modification system, s subunit
           [Haemophilus influenzae F3031]
 gi|68056917|gb|AAX87170.1| putative type I site-specific restriction-modification system, S
           subunit [Haemophilus influenzae 86-028NP]
 gi|317432050|emb|CBY80399.1| putative type I site-specific restriction-modification system, S
           subunit [Haemophilus influenzae F3031]
          Length = 416

 Score =  239 bits (610), Expect = 6e-61,   Method: Composition-based stats.
 Identities = 102/425 (24%), Positives = 190/425 (44%), Gaps = 18/425 (4%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYL 64
           + Y +YKDSGV W+G +P HW++  +K+       +          + L       GK +
Sbjct: 2   RRYERYKDSGVDWLGEVPSHWELKRLKQLFVEKKHK--------QSLSLNCGAISFGKVI 53

Query: 65  PK-DGNSRQSDTSTVSIFAKGQILYGKLGPYLR----KAIIADFDGICSTQFLVLQPKDV 119
            K D    ++   +     KG+ L   L         +  +++ D + S  ++VL+ K +
Sbjct: 54  EKSDDKVTEATKRSYQEVLKGEFLINPLNLNYDLISLRIALSEIDVVVSAGYIVLKEKQI 113

Query: 120 LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
           + +    +LL       ++ +  G      ++  I +  + IPPL+EQ  I + +  +T 
Sbjct: 114 INKKYFSYLLHRYDVAYMKLLGSGV-RQTINYGHISDSILVIPPLSEQQKIAQFLDDKTA 172

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFA 239
           +ID  +    + I LLKE KQ L+   VT+GLNPDV +KDSG+EW+G VP+HW+V+    
Sbjct: 173 KIDQAVDLAEKQIALLKEHKQILIQNAVTRGLNPDVPLKDSGVEWIGQVPEHWDVQRSKF 232

Query: 240 LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQ 299
           +  ++ RK  +  +           ++                YQ +  G++V   +D  
Sbjct: 233 IFKKIERKVNEEDQIVTCFRDGQVTLRANRRTEGFTNALKEHGYQGIRKGDLVIHAMDAF 292

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS--- 356
                +  +      + +   +      ID  + A+ +R+  L     ++  G+R+    
Sbjct: 293 AGAIGISDSDGKATPVYS-VCLPHDKQKIDVYFYAYYLRNLALSGFISSLAKGIRERSTD 351

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
            ++ D   L + +PP  EQ  I + ++ +T++ID  +      I  LKE +S  I   VT
Sbjct: 352 FRYSDFAELLLPIPPYLEQQKIADYLDKQTSKIDRAIALKTAHIEKLKEYKSVLINDVVT 411

Query: 417 GQIDL 421
           G++ +
Sbjct: 412 GKVRV 416


>gi|144900420|emb|CAM77284.1| type I restriction-modification system, S subunit [Magnetospirillum
           gryphiswaldense MSR-1]
          Length = 431

 Score =  239 bits (610), Expect = 6e-61,   Method: Composition-based stats.
 Identities = 119/441 (26%), Positives = 188/441 (42%), Gaps = 27/441 (6%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIK-RFTKLNTGRTSE----SGKDIIYIGLED 55
           M  +  Y  YKDSGV+W+G +P HW V P+K     L +G        S    ++I + +
Sbjct: 1   MS-FPQYADYKDSGVEWLGEVPGHWDVFPLKRDLAFLTSGSRGWAEHYSDDGALFIRIGN 59

Query: 56  VESGTGKYLPKDGNSRQ---SDTSTVSIFAKGQILYGKLGPYLRKAIIADFD---GICST 109
           +          D    +         +    G +L+  +  YL    +A  +      S 
Sbjct: 60  LTRDGIHLDLSDIQRVEVPDGAEGERTRVVGGDVLFS-ITAYLGSVAVAPEELEVAYVSQ 118

Query: 110 Q--FLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQ 167
                 L  +  +P  +    LS      +     G T        + N+ M  PPL EQ
Sbjct: 119 HVALARLHQRRFIPAWVGYVTLSNIGETYLGTQGYGGTKVQLSLDDVANLIMTAPPLPEQ 178

Query: 168 VLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGL 227
             I   +  +T +ID L+ E+ R + LL EK+QA++S+ VTKGLNP   MKDSGIEW+G 
Sbjct: 179 SAIAAFLDRQTGKIDALVAEQERLLTLLAEKRQAVISHAVTKGLNPAAPMKDSGIEWLGE 238

Query: 228 VPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVD 287
           VP+HW+V P     T  +  +                        MG       T+ ++ 
Sbjct: 239 VPEHWKVIPLRWFCTCKSGDSISADGVEAECDEDRTAPVIGGNGVMGYTYAPNITHPVLV 298

Query: 288 PGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY 347
            G +        N       A V +  +I    + +     +  YL+ L+RS     +  
Sbjct: 299 IGRV---GALCGNVHSIKLPAWVTDNALI----LDIAEGVFNQEYLSHLLRS---RNLNE 348

Query: 348 AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
                 +  +    V+   + + P+ EQ  I   +N +TA+ID L  +  ++I LLKE R
Sbjct: 349 IASKTAQPLITGSQVRDQRIPLAPMDEQSAIVEFLNEQTAKIDTLTAEALRAIALLKEHR 408

Query: 408 SSFIAAAVTGQIDLRG--ESQ 426
           S+ I+AAVTG+ID+RG  E++
Sbjct: 409 SALISAAVTGKIDVRGLVEAE 429


>gi|332974851|gb|EGK11766.1| restriction modification system DNA specificity subunit
           [Psychrobacter sp. 1501(2011)]
          Length = 442

 Score =  238 bits (607), Expect = 1e-60,   Method: Composition-based stats.
 Identities = 119/438 (27%), Positives = 193/438 (44%), Gaps = 22/438 (5%)

Query: 3   HYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGK 62
            YKAYP+YKDSGV+WIG IP  W++  IK  +K   G               +V      
Sbjct: 11  RYKAYPEYKDSGVEWIGEIPSGWELTRIKYVSKCLDGARIPLNASERGEMSGNV------ 64

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGKLGP---YLRKAIIADFDGICSTQFLVLQPKDV 119
             P  G ++  D     +F +  +L G+ G       K +  +  G       V   + +
Sbjct: 65  --PYWGANKVVDHINDYLFDEELVLLGEDGAPFFDKNKDVAFNVSGKIWPNNHVHVLRPL 122

Query: 120 LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
           + ++   +L              G+T    +   +  I +  P L EQ  I   +  ET 
Sbjct: 123 MEKVEPRFLKHSLNCADFYLYISGSTRDKLNQSDMNEIFIRAPKLIEQKQIANFLDYETA 182

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFA 239
           +ID LI ++ R IELL EK+QA++S+ VTKGLNPD  MKDSG+EW+G VP+HW V     
Sbjct: 183 KIDNLIEKQQRLIELLTEKRQAVISHAVTKGLNPDAPMKDSGVEWLGDVPEHWIVTKLRQ 242

Query: 240 LVTELNR---KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY------QIVDPGE 290
           L         ++ +     I  +S  NI +         K  S+E Y        V+ G+
Sbjct: 243 LAFLQEGPGLRHWQFKAQGIKVISVTNITEAGIDFTRLEKFISHEEYLQSYQHFTVNKGD 302

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL-AWLMRSYDLCKVF-YA 348
           I+         K +            ++  +    H         + + S    +    A
Sbjct: 303 ILLSSSGNSWGKVATYEGDDKVILNTSTIRLNELKHRPLVQPFIKFFLLSEACREQLGLA 362

Query: 349 MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
           M    + +     +  +  +VPP+ EQ+ I+  I+ + ++I  L++  E +I L++ERR+
Sbjct: 363 MTGSCQPNFGPTHLNEVKTVVPPVDEQYAISKYIDEKVSKISELLQVCESTIQLMQERRT 422

Query: 409 SFIAAAVTGQIDLRGESQ 426
           + I+AAVTG+ID+R   +
Sbjct: 423 ALISAAVTGKIDVRDWVK 440


>gi|300724721|ref|YP_003714046.1| type I restriction-modification [Xenorhabdus nematophila ATCC
           19061]
 gi|297631263|emb|CBJ91958.1| Type I restriction-modification [Xenorhabdus nematophila ATCC
           19061]
          Length = 429

 Score =  238 bits (606), Expect = 1e-60,   Method: Composition-based stats.
 Identities = 119/430 (27%), Positives = 194/430 (45%), Gaps = 32/430 (7%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSE---SGKDIIYIGLEDVE 57
           M  Y+AYP+YKDSGV+W+G IPKHW V  +K    +  G+  +   S      IG     
Sbjct: 1   MGKYRAYPEYKDSGVEWLGKIPKHWNVCRLKHLIIIRNGQDYKMVQSDAGYPVIGSG--- 57

Query: 58  SGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPK 117
                         Q   ST  ++ K  +L G+ G   +   + +      T +      
Sbjct: 58  -------------GQFAFSTQYMYDKPSVLLGRKGTIDKPLYVNEPFWTVDTMYYTEMRD 104

Query: 118 DVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPI-PPLAEQVLIREKIIA 176
           DV  + L    ++I      +       +     + +GN    +   + E++LI   +  
Sbjct: 105 DVDAKYLYYLAVTIQF----DRYSTSTALPSMTQENLGNYFFAVSNEITERLLISTFLDH 160

Query: 177 ETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKP 236
           ET +ID LI ++ + I+LLKEK+QA++S+ VTKGLN DV MKDSG+EW+G +P  W++  
Sbjct: 161 ETAKIDILIEKQQQLIKLLKEKRQAVISHAVTKGLNLDVPMKDSGVEWLGYIPSEWDIVR 220

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFI 296
              +V     K  +  E     +   NI  K     M               G+++F  +
Sbjct: 221 LKYIVALTGDKAPQSTE---KYVGMENISSKSGKYIMTKNALPEGVSNSFKKGDVLFGKL 277

Query: 297 DLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQ 355
                K  L        GI +S ++ +    +   +L + M +        +   G    
Sbjct: 278 RPYLAKSWLAEFS----GICSSEFLVLHSLKVHPKFLNYYMLTDAFIDQVNSSTYGSKMP 333

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
              ++ +  LPV +   K    I N +  +T++ID+L+EK ++ I LL+ERR+S I+AAV
Sbjct: 334 RASWDFIGLLPVPITTYKSTEKIANFLGQKTSKIDMLLEKQQKVIKLLQERRTSLISAAV 393

Query: 416 TGQIDLRGES 425
           TG+ID+R   
Sbjct: 394 TGKIDIRNWQ 403


>gi|254410563|ref|ZP_05024342.1| hypothetical protein MC7420_3078 [Microcoleus chthonoplastes PCC
           7420]
 gi|196182769|gb|EDX77754.1| hypothetical protein MC7420_3078 [Microcoleus chthonoplastes PCC
           7420]
          Length = 430

 Score =  238 bits (606), Expect = 2e-60,   Method: Composition-based stats.
 Identities = 110/431 (25%), Positives = 180/431 (41%), Gaps = 16/431 (3%)

Query: 4   YKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKY 63
           +  Y +YKDSGV+W+G IP+HW+ +  K   +L T    ++  + +     D+     + 
Sbjct: 3   FPRYERYKDSGVEWLGQIPEHWETLRTKNIFRLITEAAPKNNDEELLSVYSDIGVKPRRE 62

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPEL 123
           L + GN     T    I  KG ++  KL  ++    I+D+DG+ S  + VL+    +   
Sbjct: 63  LEERGNKAS-TTDGYWIVKKGDVIVNKLLAWMGAIGISDYDGVTSPAYDVLRAYKPIDSK 121

Query: 124 LQGWLLSIDVTQRIEAICE---GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
              +L    +                    +   G I +P PP   Q  I E +  +   
Sbjct: 122 YYHYLFRSPICLSKLKQHSRGIMEMRLRLYFDEFGRIRLPYPPFEIQKRIVEFLDRKCGE 181

Query: 181 IDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFAL 240
           I+  I  + R IELL+E+K  L++  VTKGL+P+  MKDSGIEW+G +P HWEVK    +
Sbjct: 182 IEDAIAHKKRLIELLEEQKTILINQAVTKGLDPNAPMKDSGIEWIGEIPTHWEVKKLKRI 241

Query: 241 VTEL-----NRKNTKLIESNILSLSYGNIIQKLETRNMGLK----PESYETYQIVDPGEI 291
              +        +   +E  ++ L   NI          +        Y +   +  G+I
Sbjct: 242 SPCITVGIVITPSKYYVEEGVICLRSLNIKPNKILVKDSVYISERSNKYLSKSKIFAGDI 301

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
           V            +         I     +  KP      +++  M S      +    S
Sbjct: 302 VCVRTGQPGVSAVVDRRFDGANCI--DLIIIRKPKNDLPKFVSLAMNSEVCRSQYLTGAS 359

Query: 352 GL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
           G  +Q    E  + L + +PP+ EQ  I N I+        L+  I++ I L+ E +   
Sbjct: 360 GAIQQHFNIEMAQNLVIAIPPLPEQIKIYNHISKIQKNTMDLMNFIKREIDLMNELKQIL 419

Query: 411 IAAAVTGQIDL 421
           IA AVTG+I +
Sbjct: 420 IAEAVTGKIKI 430


>gi|265754307|ref|ZP_06089496.1| predicted protein [Bacteroides sp. 3_1_33FAA]
 gi|263235016|gb|EEZ20571.1| predicted protein [Bacteroides sp. 3_1_33FAA]
          Length = 423

 Score =  237 bits (605), Expect = 2e-60,   Method: Composition-based stats.
 Identities = 91/429 (21%), Positives = 173/429 (40%), Gaps = 21/429 (4%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSE--------SGKDIIYIGLEDV 56
           K Y  YKDSGV+WIG IP HW+ + I R   +    T+         S K + ++   D+
Sbjct: 3   KKYDAYKDSGVKWIGEIPNHWEAIKISRVHPIIGSGTTPLSSREDYYSEKGLNWLQTGDL 62

Query: 57  ESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP 116
            +G      K    +  D   +  +    ++    G  + K  + D +   +    ++ P
Sbjct: 63  NNGLITETSKKITPKAVDECKMKFYPIHSVVIAMYGATIGKVGLLDIETATNQACCIIVP 122

Query: 117 KDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIA 176
              +      +   I   + + +   G    +     I  + +P+PPL+EQ  I   +  
Sbjct: 123 SKRICPKYTFYSFIIAKEELLLSSFGG-GQPNISQDIIRKLKVPVPPLSEQQSIASYLDV 181

Query: 177 ETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKP 236
           +T +ID +I +  +  E L E KQ+L++  VT+GLNP+  +KDSG+ W+G +P HW++  
Sbjct: 182 KTEKIDKMIAKAEKKTEYLDELKQSLITRAVTRGLNPNTPLKDSGVNWIGNIPMHWDIAC 241

Query: 237 FFALVTELNRK----NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIV 292
               +  +N +    N  L       L  GN                 E  +  D  +++
Sbjct: 242 LRFFLRLINGRAYSQNELLPSGKYKVLRVGNFFTNDSWY---YSNMELEPDKYCDKDDLL 298

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
           + +                 + I       V+         ++ +      +    M   
Sbjct: 299 YAWSASVGPYI-----WNEAKTIYHYHIWKVQLATSMDKMYSYYLLRAVTNQKMSDMHGS 353

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
               +   D+ +  + +PP+ EQ  I   ++ + ++ID ++   ++ I  L+E + S I 
Sbjct: 354 TMMHITMGDMNKTKIPIPPLSEQQQIATYLDTKCSKIDHIIATQKKKIAYLQELKQSLIT 413

Query: 413 AAVTGQIDL 421
             VTG+I +
Sbjct: 414 NVVTGKIKV 422


>gi|229163473|ref|ZP_04291424.1| hypothetical protein bcere0009_42390 [Bacillus cereus R309803]
 gi|228620042|gb|EEK76917.1| hypothetical protein bcere0009_42390 [Bacillus cereus R309803]
          Length = 441

 Score =  237 bits (604), Expect = 2e-60,   Method: Composition-based stats.
 Identities = 97/434 (22%), Positives = 185/434 (42%), Gaps = 21/434 (4%)

Query: 4   YKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKY 63
           YK Y  YK S VQWIG +PKHW++  I    +    + S+   + + +         G  
Sbjct: 3   YKPYEHYKSSDVQWIGKVPKHWELKKISSIFEQRNEKVSDKDFEPLSVT------KMGIL 56

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPEL 123
              +  ++  +        K   +            ++ FDG  S    V++PK +   +
Sbjct: 57  KQLENVAKTDNNDNRKKVLKNDFVINSRSDRKGSCGVSKFDGSVSLICTVIKPKTINTYM 116

Query: 124 LQGWLLSIDVTQRIEAICEGATM----SHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
                L  +     E    G  +        W     I +PIPP  EQ  I   +     
Sbjct: 117 DYYHHLFRNKMFSEEFYRWGRGIVDDLWSTKWDEFKRILIPIPPHEEQKSIVSYLNHIYE 176

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFA 239
            I+ LIT + + IE +++ +++L++  VT GLNP  KMKDS +EW+G +P+HW  K    
Sbjct: 177 AIEELITHKQQQIETIQQYQRSLITEAVTSGLNPHAKMKDSSVEWIGEMPEHWITKRLDF 236

Query: 240 LVTELNR------KNTKLIESNILSLSYGNIIQ-KLETRNMGLKPES---YETYQIVDPG 289
           +     R        ++  E+  + L+  NI + +++  N+    E         ++  G
Sbjct: 237 VSVVKARLGWKGLTASEYQENGYIFLAIPNIKKFQIDFENVNYISEKRYKESPEIMLQVG 296

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
           +++         + ++         + +S  +      + S +L + ++S  + K+    
Sbjct: 297 DVLLAKDGSTLGEVNVVRYLPSPATVNSSIAVIRPKGDLHSVFLYYYLKSNYIQKIIQKK 356

Query: 350 GSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
             G     L  +D+ +  + VPP+ EQ  I   ++ + + I+ L+ + ++ I +L++ R 
Sbjct: 357 KDGMGVPHLFQKDINKFIIQVPPLDEQVKIAKYLDGKISEINNLIIETQEQIDILQQYRQ 416

Query: 409 SFIAAAVTGQIDLR 422
           S +   VTG+ID+R
Sbjct: 417 SLVYEVVTGKIDVR 430


>gi|237725172|ref|ZP_04555653.1| type I restriction-modification system [Bacteroides sp. D4]
 gi|229436438|gb|EEO46515.1| type I restriction-modification system [Bacteroides dorei
           5_1_36/D4]
          Length = 423

 Score =  236 bits (603), Expect = 4e-60,   Method: Composition-based stats.
 Identities = 92/429 (21%), Positives = 174/429 (40%), Gaps = 21/429 (4%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSE--------SGKDIIYIGLEDV 56
           K Y  YKDSGV+WIG IP HW+ + I R   +    T+         S K + ++   D+
Sbjct: 3   KKYDAYKDSGVKWIGEIPNHWEAIKISRVHPIIGSGTTPLSSREDYYSEKGLNWLQTGDL 62

Query: 57  ESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP 116
            +G      K    +  D   +  +    ++    G  + K  + D +   +    ++ P
Sbjct: 63  NNGLITETSKKITPKAVDECKMKFYPIHSVVIAMYGATIGKVGLLDIETATNQACCIIVP 122

Query: 117 KDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIA 176
              +      +   I   + + +   G    +     I  + +P+PPL+EQ  I   +  
Sbjct: 123 SKRICPKYTFYSFIIAKEELLLSSFGG-GQPNISQDIIRKLKVPVPPLSEQQSIASYLDV 181

Query: 177 ETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKP 236
           +T +ID +I +  + IE L E KQ+L++  VT+GLNP+  +KDSG+ W+G +P HW++  
Sbjct: 182 KTEKIDKMIAKAEKKIEYLGELKQSLITRAVTRGLNPNTPLKDSGVNWIGNIPMHWDIAC 241

Query: 237 FFALVTELNRK----NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIV 292
               +  +N +    N  L       L  GN                 E  +  D  +++
Sbjct: 242 LRFFLRLINGRAYSQNELLPSGKYKVLRVGNFFTNDSWY---YSNMELEPDKYCDKDDLL 298

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
           + +                 + I       V+         ++ +      +    M   
Sbjct: 299 YAWSASVGPYI-----WNEAKTIYHYHIWKVQLATSMDKMYSYYLLRAVTNQKMSDMHGS 353

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
               +   D+ +  + +PP+ EQ  I   ++ + ++ID ++   ++ I  L+E + S I 
Sbjct: 354 TMMHITMGDMNKTKIPIPPLSEQQQIATYLDTKCSKIDHIIATQKKKIAYLQELKQSLIT 413

Query: 413 AAVTGQIDL 421
             VTG+I +
Sbjct: 414 NVVTGKIKV 422


>gi|238918474|ref|YP_002931988.1| restriction modification system DNA specificity domain protein
           [Edwardsiella ictaluri 93-146]
 gi|238868042|gb|ACR67753.1| restriction modification system DNA specificity domain protein
           [Edwardsiella ictaluri 93-146]
          Length = 441

 Score =  236 bits (603), Expect = 4e-60,   Method: Composition-based stats.
 Identities = 110/442 (24%), Positives = 188/442 (42%), Gaps = 35/442 (7%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT 60
           M +YKAYP+YKDSGV+W+G +P+ W +  +K    +  G+  +S           V++  
Sbjct: 1   MANYKAYPEYKDSGVEWLGLVPESWTICRLKNLAAIKNGQDYKS-----------VQTDD 49

Query: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL 120
           G   P  G+  Q   ++  ++ K  +L G+ G   +   I +      T +     +   
Sbjct: 50  G--YPVMGSGGQFTFASKFMYDKPSVLLGRKGTIDKPLYINEPFWTVDTMYYTELNEGFD 107

Query: 121 PELLQGWLLSIDV-TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
              L    L+I              T  H                +E+  I + +  ET 
Sbjct: 108 ARYLYYLALTIQFSRYSTNTALPSMTQEHLSNYKF----SVPKAESERKKITKFLDHETA 163

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFA 239
           +ID LI ++ + IELLKEK+ A++S+ VTKGLNPDV MKDSG+EW+G VP+HW +     
Sbjct: 164 KIDNLIEKQQQLIELLKEKRHAVISHAVTKGLNPDVPMKDSGVEWLGEVPEHWTISTLKH 223

Query: 240 LVTELNRKNTKLIESNILSLSYG------NIIQKLETRNMGLKPESYETYQIVDPG---- 289
               ++        ++   +  G        I   E         S E +  ++ G    
Sbjct: 224 HAKFIDGDRGSEYPNDNDLVDDGVVFLSSKNISNWEINIDDANYISREKFNRLNRGKAIN 283

Query: 290 -EIVFRFIDLQNDKRSLRSAQVM-----ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC 343
            +++ +          L   +          I     +    +  ++ +L  + + +   
Sbjct: 284 GDVIVKVRGSTGRIGELAIFETERLNKSTAFINAQMMIIRLKNSFNNRFLCNVAQGHYWM 343

Query: 344 KVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
           +       G  +Q L       + ++VPPI EQ  I   + +E  R D L++     I L
Sbjct: 344 EQLNVGAYGTAQQQLNNAIFSGMIMVVPPIDEQLTINKFLELEIKRFDGLIKNTSNMIQL 403

Query: 403 LKERRSSFIAAAVTGQIDLRGE 424
           ++ERR++ I+AAVTG+ID+R  
Sbjct: 404 IQERRTALISAAVTGKIDVRDW 425


>gi|251791801|ref|YP_003006522.1| restriction modification system DNA specificity domain-containing
           protein [Dickeya zeae Ech1591]
 gi|247540422|gb|ACT09043.1| restriction modification system DNA specificity domain protein
           [Dickeya zeae Ech1591]
          Length = 462

 Score =  236 bits (602), Expect = 4e-60,   Method: Composition-based stats.
 Identities = 111/460 (24%), Positives = 185/460 (40%), Gaps = 38/460 (8%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGL 53
           M   + Y +YK+S V+W+G +P HW  V +K  ++  +G T +   D       I ++  
Sbjct: 1   MMKQQTYSEYKESDVKWLGQVPVHWNAVSLKWISQRYSGGTPDKSNDAYWENGDIPWLNS 60

Query: 54  EDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGP--YLRKAIIADFDGICSTQF 111
             V  G               +S+     K  ++    G                C+   
Sbjct: 61  GSVNDGYITEPSTYITREGFASSSAKWVPKNALVMALAGQGKTKGMVAQLGIRATCNQSM 120

Query: 112 LVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIR 171
             + PK+        +   +   Q I  +  G      +   +G+IP P+ P  EQ  I 
Sbjct: 121 AAIIPKEKF-TPRFLYWWLVSNYQNIRNMAGGEQRDGLNLDMLGSIPCPLLPRPEQTAIA 179

Query: 172 EKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV----------TKGLNPDVKMKDSG 221
           + +  ET RID+L+ ++ + I LLKEK+ AL+S+IV            GL P  + K+S 
Sbjct: 180 DFLDRETGRIDSLMAKKRQLIALLKEKRCALISHIVTRGLPEAAADEFGLKPHTRFKNSD 239

Query: 222 IEWVGLVPDHWEVKPFF------------ALVTELNRKNTKLIESNILSLSYGNIIQKLE 269
           IEW+G VP+ W VK  +                E + K    +   I  +   +I     
Sbjct: 240 IEWLGQVPEGWGVKKVWIERVSRNIELQDGNHGEQHPKAEDYVGEGIPFVMANHIDNGKI 299

Query: 270 TRNMGLKPESYETYQI----VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
             N     E  +   +     + G+++            ++ +      +          
Sbjct: 300 DFNKCNYIEKEQADSLRIGFSNEGDVLLTHKGTIGRVGIVQKSHFPYVMLTPQVTYYRCL 359

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGS--GLRQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
             I + +L WLM+S         +      R  +   D K L  L+P  KEQF I   ++
Sbjct: 360 REIQNRFLFWLMQSKFWQDQLKLLAGLGSTRAYIGLLDQKTLSFLIPSEKEQFAIATYLD 419

Query: 384 VETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
            ET+++D LVEK++  I  L+E R++ I AAVTG+ID+R 
Sbjct: 420 RETSKLDRLVEKVDAVIARLQEYRTALITAAVTGKIDVRE 459


>gi|327479499|gb|AEA82809.1| restriction modification system DNA specificity domain protein
           [Pseudomonas stutzeri DSM 4166]
          Length = 491

 Score =  236 bits (602), Expect = 5e-60,   Method: Composition-based stats.
 Identities = 117/448 (26%), Positives = 186/448 (41%), Gaps = 26/448 (5%)

Query: 2   KHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNT----GRTSESGKDIIYIGLEDVE 57
            ++  YP YKDSGV+W+G +P+HW +  +KR     T    G   +   D+  I + D +
Sbjct: 26  SNFPTYPAYKDSGVEWLGEVPEHWAIFSLKRSVDGCTNGLWGDEPDGENDLAVIRVADFD 85

Query: 58  SGTGKYLPKDGNSRQS--DTSTVSIFAKGQILYGKLG----PYLRKAII--ADFDGICST 109
             T +        R          +   G +L  K G      +   ++   DF+ I S 
Sbjct: 86  RATCRVGLDKLTYRSITQKERASRLLQSGDLLIEKSGGGEKTLVGCVVLFEHDFEAITSN 145

Query: 110 QFLVLQPKDVLPELLQGWLLSIDVTQRIE--AICEGATMSHADWKGIGNIPMPIPPLAEQ 167
               ++P          +        ++   AI +   + + D +         P LAEQ
Sbjct: 146 FVARMRPLHGFDSGFLCYSFDSLYQGKVNFPAIKQTTGIQNLDSESYLQERFCFPTLAEQ 205

Query: 168 VLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGL 227
             I   +  ET RID LI E+ R IELLKEK+QA++S+ VTKGL+P V MKDSG+EW+G 
Sbjct: 206 TQIARFLDHETARIDALIEEQQRLIELLKEKRQAVISHAVTKGLDPTVPMKDSGVEWLGE 265

Query: 228 VPDHWEVKPFFALVTEL--------NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
           VP HW V       T                ++   +   +  N    L         ES
Sbjct: 266 VPAHWNVGTLRWYATIQGGVAKGKDYEGRETVVMPYLRVANVQNGYVDLAEVKEIAVLES 325

Query: 280 YETYQIVDPGEIVFR-FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM- 337
                 +  G+++     D     R       ++  +  +   A++P+G+          
Sbjct: 326 EVERYRLRAGDVLMNEGGDNDKLGRGTVWQAQIDPCLHQNHVFAIRPNGLLRAEWLAAFT 385

Query: 338 --RSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
                       +  S    S+   +V  L + +P  KEQ +I   +  +  R + L   
Sbjct: 386 QAEQARTYFYLNSKQSTNLASISASNVMSLALPIPSEKEQLEILTYLEADRIRHEELTAV 445

Query: 396 IEQSIVLLKERRSSFIAAAVTGQIDLRG 423
              ++ LL+ERRS+ I+AAVTG+ID+RG
Sbjct: 446 AVSTVELLQERRSALISAAVTGKIDVRG 473


>gi|119491619|ref|ZP_01623491.1| hypothetical protein L8106_03529 [Lyngbya sp. PCC 8106]
 gi|119453348|gb|EAW34512.1| hypothetical protein L8106_03529 [Lyngbya sp. PCC 8106]
          Length = 433

 Score =  235 bits (598), Expect = 1e-59,   Method: Composition-based stats.
 Identities = 116/437 (26%), Positives = 186/437 (42%), Gaps = 19/437 (4%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLE-DVESG 59
           MK YK+Y   K SGV+W+G IP+HW++  +K    L  G++ +S  D  Y  +      G
Sbjct: 1   MKKYKSYSTDKPSGVEWLGNIPEHWELRKLKFIADLIMGQSPDS-TDYNYEEIGVPFLQG 59

Query: 60  TGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV 119
           T ++   + N R S  S      K  +L     P     +     GI       ++PK  
Sbjct: 60  TAEFGIINPNPRLSCESAKKYARKDDLLLSVRAPVGEINVADQVYGI-GRGLCAIRPKIN 118

Query: 120 LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
           +                + +   G+         + N+    PPL EQ LI   +  ET 
Sbjct: 119 VFNKTFTRYFLEIGKVELVSGATGSIYDAVTVNQVANLQCLTPPLKEQKLIATFLDRETT 178

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFA 239
           RIDTLIT++   I LL++K+ A+++  VTKGL P++ MKDSG+EW+G VP +WEVK    
Sbjct: 179 RIDTLITKKCELINLLEKKRTAIITNAVTKGLEPELPMKDSGVEWLGKVPRNWEVKKLKY 238

Query: 240 LVTELNRK-------NTKLIESNILSLSYGNII---QKLETRNMGLKPESYETYQIVDPG 289
           +   +  K       + +  + N   +  G+I    + + +    L        +    G
Sbjct: 239 IAQIVRGKFTHRPRNDPRFYDGNYPFIQTGDISAANKYITSYQQTLNELGLSVSKEFPKG 298

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
            +V        D   L             + +   P      +L + + +    ++    
Sbjct: 299 TLVMTIAANIGDLAIL-----DFPACFPDSIVGFLPRNYCLDFLYYNLTAMK-SEMVKTA 352

Query: 350 GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
               + +L  E +  L  + PPI  Q  I   ++    RID L++K   SI  L + R S
Sbjct: 353 TLNTQMNLNIERIGGLFSICPPIAIQKQIATYLDKVNIRIDELIDKTATSISELTKYRQS 412

Query: 410 FIAAAVTGQIDLRGESQ 426
            I AAVTG+ID+R E +
Sbjct: 413 LITAAVTGKIDVREEVE 429


>gi|212690633|ref|ZP_03298761.1| hypothetical protein BACDOR_00120 [Bacteroides dorei DSM 17855]
 gi|212666733|gb|EEB27305.1| hypothetical protein BACDOR_00120 [Bacteroides dorei DSM 17855]
          Length = 423

 Score =  235 bits (598), Expect = 1e-59,   Method: Composition-based stats.
 Identities = 92/429 (21%), Positives = 174/429 (40%), Gaps = 21/429 (4%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSE--------SGKDIIYIGLEDV 56
           K Y  YKDSGV+WIG IP HW+ + I R   +    T+         S K + ++   D+
Sbjct: 3   KKYDAYKDSGVKWIGEIPNHWEAIKISRVHPIIGSGTTPLSSREDYYSEKGLNWLQTGDL 62

Query: 57  ESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP 116
            +G      K    +  D   +  +    ++    G  + K  + D +   +    ++ P
Sbjct: 63  NNGLITETSKKITPKAVDECKMKFYPIHSVVIAMYGATIGKVGLLDIETATNQACCIIVP 122

Query: 117 KDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIA 176
              +      +   I   + + +   G    +     I  + +P+PPL+EQ  I   +  
Sbjct: 123 SKRICPKYTFYSFIIAKEELLLSSFGG-GQPNISQDIIRKLKVPVPPLSEQQSIASYVDV 181

Query: 177 ETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKP 236
           +T +ID +I +  + IE L E KQ+L++  VT+GLNP+  +KDSG+ W+G +P HW++  
Sbjct: 182 KTEKIDKMIAKAEKKIEYLGELKQSLITRAVTRGLNPNTPLKDSGVNWIGNIPMHWDIAC 241

Query: 237 FFALVTELNRK----NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIV 292
               +  +N +    N  L       L  GN                 E  +  D  +++
Sbjct: 242 LRFFLRLINGRAYSQNELLPSGKYKVLRVGNFFTNDSWY---YSNMELEPDKYCDKDDLL 298

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
           + +                 + I       V+         ++ +      +    M   
Sbjct: 299 YAWSASVGPYI-----WNEAKTIYHYHIWKVQLATSMDKMYSYYLLRAVTNQKMSDMHGS 353

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
               +   D+ +  + +PP+ EQ  I   ++ + ++ID ++   ++ I  L+E + S I 
Sbjct: 354 TMMHITMGDMNKTKIPIPPLSEQQQIATYLDTKCSKIDHIIATQKKKIAYLQELKQSLIT 413

Query: 413 AAVTGQIDL 421
             VTG+I +
Sbjct: 414 NVVTGKIKV 422


>gi|325981608|ref|YP_004294010.1| restriction modification system DNA specificity domain
           [Nitrosomonas sp. AL212]
 gi|325531127|gb|ADZ25848.1| restriction modification system DNA specificity domain
           [Nitrosomonas sp. AL212]
          Length = 467

 Score =  235 bits (598), Expect = 1e-59,   Method: Composition-based stats.
 Identities = 116/453 (25%), Positives = 199/453 (43%), Gaps = 30/453 (6%)

Query: 3   HYKAYPQYKDSGVQWIGAIPKHWKVVPIK--RFTKLNTGRTSESGKDI-----IYIGLED 55
            Y+AYP+YK+SGV+WIG  P +W +  +K   + K   G      +D        I   D
Sbjct: 11  KYQAYPEYKNSGVEWIGEYPLNWNLTRVKFESYVKARVGWHGLKSEDFTDEGPFLITGSD 70

Query: 56  VESGTGKYLPKDGNSRQ-SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDG--ICSTQFL 112
                  +           +         G +L  K G   + A+++   G    ++   
Sbjct: 71  FRGPVINWNECYHCDLARYEQDPYIQLKDGDLLITKDGTIGKVALVSGLAGKATLNSGVF 130

Query: 113 VLQP--KDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLI 170
           V++P   +         L +   T  ++    G+T+ H       N    IP   EQ+ I
Sbjct: 131 VVRPLTNNYTSRFYFWLLQASVFTGFVDFNKTGSTIVHLYQDTFVNFKYAIPSFNEQLTI 190

Query: 171 REKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPD 230
              +  ET +IDTLI ++ + I+LLKEK+QA++S+ VTKGLNP+ KM+DSG+EW+G VP+
Sbjct: 191 ANFLDHETAKIDTLIEKQQQLIKLLKEKRQAVISHAVTKGLNPNAKMRDSGVEWLGEVPE 250

Query: 231 HWEVKPFFALVTELNRKNT------------KLIESNILSLSYGNIIQKLETRNMGLKPE 278
           HW +K     V E +R +             +L +  +  +   ++ Q    R   +   
Sbjct: 251 HWSMKIKLVSVAEGSRGSFVNGPFGSDLLSLELQDVGVPVIYIRDLKQTGYMRKSAVCVT 310

Query: 279 SYETY----QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY-MAVKPHGIDSTYL 333
             +        V  G+++   +     +  +         I      + V    I+  YL
Sbjct: 311 EEKARQLEICKVVSGDVLIAKVGDPPGEACIYPENEPAAIITQDVIRIRVNRGVINPYYL 370

Query: 334 AWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
             L+ S     V   +     R+ +   D K++  ++P + EQ DI + + +   +ID L
Sbjct: 371 VMLLNSDLGKVVVDNISIESTRKRISLGDFKQVRFIIPSLSEQSDIVSFVELRCRKIDTL 430

Query: 393 VEKIEQSIVLLKERRSSFIAAAVTGQIDLRGES 425
           + K +  + L+ ERR++ I+AAVTG+ID+R   
Sbjct: 431 IAKAQSMVSLIIERRTALISAAVTGKIDVRDWQ 463


>gi|167917951|ref|ZP_02505042.1| probable type I restriction-modification system [Burkholderia
           pseudomallei BCC215]
          Length = 442

 Score =  233 bits (595), Expect = 3e-59,   Method: Composition-based stats.
 Identities = 111/439 (25%), Positives = 185/439 (42%), Gaps = 17/439 (3%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT 60
           M     YPQYKDSG  W+G +P  W VV  +R  +         G + +    +      
Sbjct: 1   MS-LPGYPQYKDSGASWLGRVPTSWAVVQARRLFEQRRDAALP-GDEQLSASQKYGVVPQ 58

Query: 61  GKYLPKDGNSRQSDTS---TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPK 117
             ++  +        S             +   L  +      + F G  S  + VL+  
Sbjct: 59  RLFMELEDQKVVLALSGLENFKHVEPNDFVIS-LRSFQGGIEHSAFGGCVSPAYTVLRAT 117

Query: 118 DVLPELLQGWLLSIDVTQRIEAICEGATMS--HADWKGIGNIPMPIPPLAEQVLIREKII 175
             +      +LL  D                 +  +   G + +P+P + EQ  I   + 
Sbjct: 118 SKIAPDFWAYLLKSDTYISALQTVTDGIRDGKNISYMQFGALCVPVPNIDEQSAIAAFLD 177

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVK 235
            ET +ID LI E+ + I LL EK+QA +SY VT+GLNPD  MKDSG+ W+G VP HW ++
Sbjct: 178 CETGKIDALIAEQEKLIALLAEKRQAALSYAVTRGLNPDAPMKDSGVAWLGEVPAHWVIR 237

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLET---------RNMGLKPESYETYQIV 286
              ++   +        E      S       L           + + ++ ++      +
Sbjct: 238 RVKSVSVFMTSGPRGWSERISDEGSIFVQSGDLNDFLGVEFEIAKRVSVEFDAEAERTRL 297

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF 346
             G++V      +  K ++ ++      +     +      +   +L   ++S      F
Sbjct: 298 ANGDVVVCITGAKTGKVAVCASVPEPAYVNQHLCLIRPSPDVLPLFLGNSLKSTIGQTQF 357

Query: 347 YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
                GL+Q L  ++V+   +++PP  EQ +I   I+ ETAR+D L  +  ++I LLKER
Sbjct: 358 ELSQYGLKQGLSLDNVREALIVLPPPGEQVEIVTFIDAETARLDELKAEAARAIELLKER 417

Query: 407 RSSFIAAAVTGQIDLRGES 425
           RS+ IAAAVTG+ID+R  +
Sbjct: 418 RSALIAAAVTGKIDVRNAA 436


>gi|120601537|ref|YP_965937.1| restriction modification system DNA specificity subunit
           [Desulfovibrio vulgaris DP4]
 gi|120561766|gb|ABM27510.1| restriction modification system DNA specificity domain
           [Desulfovibrio vulgaris DP4]
          Length = 438

 Score =  233 bits (594), Expect = 4e-59,   Method: Composition-based stats.
 Identities = 111/438 (25%), Positives = 185/438 (42%), Gaps = 24/438 (5%)

Query: 4   YKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSE-SGKDIIYIGLEDVESGTGK 62
           + AYP+YKDSGV+W+G IP HW V  +            +    +++ +    +     K
Sbjct: 3   FPAYPEYKDSGVEWLGKIPSHWSVTSLYSLASECDFPNKDMLESNLLSLSYGRI---IRK 59

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLR----KAIIADFDGICSTQFLVLQPKD 118
            +  +         T  I   G I+             ++ +    GI ++ +  ++P  
Sbjct: 60  DINSNDGLLPESFETYQIVDHGDIVLRLTDLQNDQRSLRSGLVKERGIITSAYTAIRPTA 119

Query: 119 VLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
                L   L + D  +   ++  G   S   +  +  +P+  P  +EQ  I   +  ET
Sbjct: 120 SHYSYLAYLLRAYDTLKIFYSMGGGLRQSM-KFSDLRRLPILKPAYSEQSAIAVFLDHET 178

Query: 179 VRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFF 238
            +ID LITE+ + IELLKEK+QA++S+ VTKGL P+V MKDSG+EW+G VP+HW+V    
Sbjct: 179 AKIDALITEQEKLIELLKEKRQAVISHAVTKGLAPNVPMKDSGVEWLGEVPEHWKVAKLR 238

Query: 239 ALVTELNRKN-----------TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVD 287
             V  +   +                        G I     ++ +  +       ++  
Sbjct: 239 RFVRAVQTGSTPSASPPNTDIEDGTYWFTPGDFSGPIRLGSSSKKVPPEAIKQGEVKVFP 298

Query: 288 PGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY 347
            G +    I     K             I +      P+            S    ++  
Sbjct: 299 AGAVFVVSIGATLGKIGYLLTLASANQQINAII----PNADVEGLFLAYSLSSKTSEMMN 354

Query: 348 AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
              +     +  E  K + + VPP+ EQ  IT  ++ +    D LV + +++I LLKERR
Sbjct: 355 LSNASTIGIMNQEKTKEIWLTVPPLCEQERITKFLDEDCVTSDALVNESQRAIDLLKERR 414

Query: 408 SSFIAAAVTGQIDLRGES 425
           S+ I+AAVTG+ID+RG +
Sbjct: 415 SALISAAVTGKIDVRGFA 432


>gi|261345477|ref|ZP_05973121.1| putative type I restriction-modification system specificity subunit
           [Providencia rustigianii DSM 4541]
 gi|282566524|gb|EFB72059.1| putative type I restriction-modification system specificity subunit
           [Providencia rustigianii DSM 4541]
          Length = 435

 Score =  233 bits (593), Expect = 5e-59,   Method: Composition-based stats.
 Identities = 110/429 (25%), Positives = 181/429 (42%), Gaps = 14/429 (3%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYL 64
             Y QY DSG +WIG IP HW +  +       + +       +     + V        
Sbjct: 8   PKYDQYIDSGYEWIGEIPLHWDLGKLGSCLFPVSVKNCPELPLLSITREQGVIERDVDDQ 67

Query: 65  PKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELL 124
             + N    D S      KGQ    K+  +     ++ F GI S  + V      +    
Sbjct: 68  ESNHNFIPDDLSGYKKLEKGQFGMNKMKAWQGSYGVSKFTGIVSPAYFVFDFTKAINPEF 127

Query: 125 QGWLLSIDVTQRIEAICEG---ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
             W +   +                       +  IP  +P   EQ LI   +  +T  I
Sbjct: 128 FNWAIRSKLYVSFFGSASDGVRIGQWDLSKTRMKVIPFVLPSEEEQSLIANFLDKKTALI 187

Query: 182 DTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALV 241
           D  I+ + + I LLKE+KQ ++   VT+GL+P+V MKDSG++W+G +P HWEVK     V
Sbjct: 188 DEAISIKEQQISLLKERKQIIIQQAVTQGLDPNVPMKDSGVDWIGKIPAHWEVKRL-KYV 246

Query: 242 TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQND 301
           T++ ++       ++LS++   I  K      G     Y  YQIV  G+     +DL   
Sbjct: 247 TKILKRIIGYEGPDVLSITQKGIKVKDIESGEGQLSMDYSKYQIVRVGDFAMNHMDLLTG 306

Query: 302 KRSLRSAQVMERGIITSAY--MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL----RQ 355
              +   +    G+++  Y       +G+   +L  + +     K+FY  G G+    R 
Sbjct: 307 YVDISQFE----GVVSPDYRVFINTYNGLRDDFLLSIFQLGYQQKIFYRYGQGVSLLGRW 362

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
               ++     + VPPI+EQ +I   +  E  ++D  +E +   I  LKE +++ I +AV
Sbjct: 363 RFPADNFNNFFIPVPPIEEQAEIVQSVQREWLKLDNAIELLISQIEKLKEYKTTLINSAV 422

Query: 416 TGQIDLRGE 424
           TG+I +  E
Sbjct: 423 TGKIKITPE 431


>gi|86153318|ref|ZP_01071522.1| type I restriction modification DNA specificity domain protein
           [Campylobacter jejuni subsp. jejuni HB93-13]
 gi|121613222|ref|YP_001000445.1| type I restriction modification DNA specificity domain-containing
           protein [Campylobacter jejuni subsp. jejuni 81-176]
 gi|167005388|ref|ZP_02271146.1| type I restriction modification DNA specificity domain protein
           [Campylobacter jejuni subsp. jejuni 81-176]
 gi|57790397|gb|AAW56129.1| Cj81-057 [Campylobacter jejuni subsp. jejuni 81-176]
 gi|85843044|gb|EAQ60255.1| type I restriction modification DNA specificity domain protein
           [Campylobacter jejuni subsp. jejuni HB93-13]
 gi|87249367|gb|EAQ72327.1| type I restriction modification DNA specificity domain protein
           [Campylobacter jejuni subsp. jejuni 81-176]
 gi|107770374|gb|ABF83711.1| putative type I restriction-modification system HsdS subunit
           [Campylobacter jejuni subsp. jejuni 81-176]
          Length = 422

 Score =  232 bits (592), Expect = 8e-59,   Method: Composition-based stats.
 Identities = 95/431 (22%), Positives = 195/431 (45%), Gaps = 24/431 (5%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT 60
           MK++      KDSG++W+G IP+HWK++  K F  L +    +       + L  +    
Sbjct: 1   MKNF------KDSGIEWLGEIPEHWKLIKCKNFFVLKSIPIGDLWNKTKLLSLT-LNGVI 53

Query: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYG--KLGPYLRKAIIADFDGICSTQFLVLQPKD 118
            + +        SD ST  I  +G +++    +    R   ++  +G+ ++ + + + K+
Sbjct: 54  ERDINNPEGKFPSDFSTYQIVKEGDLIFCLFDVAETPRTIGLSKLNGMITSAYTIFEIKN 113

Query: 119 VLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
                L+ + + +D  + ++ +  G   +    + + N+ +P+PPL EQ  I   +  + 
Sbjct: 114 QEKRFLEYFFIDLDNRKNLKFLYRGL-RNTISKEDLLNLKIPLPPLKEQEQIANFLDEKC 172

Query: 179 VRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFF 238
            +I   I ++ + I LLKE+KQA ++   TKGL+ +V  KDSGIE++G +P HW++    
Sbjct: 173 EQIKNFIEKKEKLITLLKEQKQAFINKATTKGLDKNVNFKDSGIEYLGEIPQHWKLVRLG 232

Query: 239 ALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKP----------ESYETYQIVDP 288
            ++   +                   I   +  +  LK           + Y   +I D 
Sbjct: 233 LILKTSSGTTPDSGNDKYYKGGQIVWINSGDLNDGFLKDSKRKITQDALDDYSVLKIFDK 292

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA 348
             ++         K ++          +  A   ++     +T+  + + +    ++   
Sbjct: 293 DSLIIAMYGATIGKTAILKV----NACVNQACCVLEKSAWYNTFYLFYLFNRYKKELISM 348

Query: 349 MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
              G + ++  + +K L + +PP+KEQ  I N ++ +  +ID+L+EK E+ I L+KE ++
Sbjct: 349 GSGGGQPNISQDIIKNLKIPLPPLKEQEQIANFLDEKCKKIDLLIEKTEKQIKLIKEYKT 408

Query: 409 SFIAAAVTGQI 419
           +    AV G+I
Sbjct: 409 TLTNQAVCGRI 419


>gi|326201377|ref|ZP_08191249.1| hypothetical protein Cpap_4212 [Clostridium papyrosolvens DSM 2782]
 gi|325988945|gb|EGD49769.1| hypothetical protein Cpap_4212 [Clostridium papyrosolvens DSM 2782]
          Length = 631

 Score =  232 bits (591), Expect = 9e-59,   Method: Composition-based stats.
 Identities = 153/412 (37%), Positives = 231/412 (56%), Gaps = 18/412 (4%)

Query: 28  VPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQS------DTST 77
           + +K   K   G +          I  +    V S  G  L    +          DTS+
Sbjct: 6   IKLKYLFKFGKGLSITKENLSETGIPCVSYGQVHSKYGVILDMSKHVLPFVSESYLDTSS 65

Query: 78  VSIFAKGQILYG-----KLGPYLRKAIIADFDGICSTQFLVLQP--KDVLPELLQGWLLS 130
            ++  KG  ++      K G      +++D         ++ +P  KDV  +       S
Sbjct: 66  QALIKKGDFVFADTSEDKGGSGNFTCLVSDSSIFAGYHTVIARPVSKDVFYKYFAYLFDS 125

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
            +   +I+    G  +       + N     P +  Q++I   +  +T +ID++I ++ +
Sbjct: 126 QNFRAQIQQAVSGIKVFTISQGTLKNTIASFPNIDAQIVIANYLDRKTTQIDSIIADKEK 185

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
            IELLKEK+QA++S  VT+GL+P V MKDSG++W+G +P+HWEVKP F +  E   KN+ 
Sbjct: 186 LIELLKEKRQAIISEAVTRGLDPSVPMKDSGVDWIGQIPEHWEVKPLFTVAFENKAKNSG 245

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
               N+LSLSYG I++K    N GL PES+ETYQIV+ G  + R  DLQNDKRSLRS  V
Sbjct: 246 NQCVNLLSLSYGKIVKKDIDTNFGLLPESFETYQIVEGGYTILRLTDLQNDKRSLRSGFV 305

Query: 311 MERGIITSAYMAVKP-HGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
            E+GIITSAY+ + P   +D  +L+ L+ +YDL K+FY++G+G+RQS+ ++D+KRLP+L+
Sbjct: 306 REKGIITSAYVGLIPSDEVDGLFLSDLLHAYDLMKIFYSLGNGVRQSMNYKDLKRLPILL 365

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           PP  EQ  I+N +  +TA ID L+   EQ + L KE R S I+ AVTG+I +
Sbjct: 366 PPKSEQKQISNYLRNKTAEIDDLISTTEQQVSLFKEYRQSIISEAVTGKIKV 417



 Score = 84.1 bits (206), Expect = 4e-14,   Method: Composition-based stats.
 Identities = 48/207 (23%), Positives = 85/207 (41%), Gaps = 8/207 (3%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGR-TSESGKDIIYIGLEDVESGTGK----YL 64
            KDSGV WIG IP+HW+V P+      N  + +     +++ +    +           L
Sbjct: 212 MKDSGVDWIGQIPEHWEVKPLFTVAFENKAKNSGNQCVNLLSLSYGKIVKKDIDTNFGLL 271

Query: 65  PKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELL 124
           P+   + Q      +I     +   K              GI ++ ++ L P D +  L 
Sbjct: 272 PESFETYQIVEGGYTILRLTDLQNDKRSLRSGFV---REKGIITSAYVGLIPSDEVDGLF 328

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
              LL      +I            ++K +  +P+ +PP +EQ  I   +  +T  ID L
Sbjct: 329 LSDLLHAYDLMKIFYSLGNGVRQSMNYKDLKRLPILLPPKSEQKQISNYLRNKTAEIDDL 388

Query: 185 ITERIRFIELLKEKKQALVSYIVTKGL 211
           I+   + + L KE +Q+++S  VT  +
Sbjct: 389 ISTTEQQVSLFKEYRQSIISEAVTGKI 415


>gi|145642021|ref|ZP_01797593.1| putative type I site-specific restriction-modification system, S
           subunit [Haemophilus influenzae R3021]
 gi|145273292|gb|EDK13166.1| putative type I site-specific restriction-modification system, S
           subunit [Haemophilus influenzae 22.4-21]
          Length = 411

 Score =  232 bits (591), Expect = 9e-59,   Method: Composition-based stats.
 Identities = 135/413 (32%), Positives = 208/413 (50%), Gaps = 8/413 (1%)

Query: 15  VQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           ++W+  IP HW +   K   K    +   + +D I     D +         +G +    
Sbjct: 1   MEWLRQIPSHWDMQRSKFIFKKVERKV--NEEDQIVTCFRDGQVTLRANRRTEGFTNALK 58

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP--KDVLPELLQGWLLSID 132
                   KG ++   +  +     I+D DG  +  + V  P  K  +      + L   
Sbjct: 59  EHGYQGIRKGDLVIHAMDAFTGAIGISDSDGKATPVYSVCLPHNKQKIDVYFYAYYLRNL 118

Query: 133 VTQRIEAICEGATMSH---ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
                 +              +     + +PIPP  EQ  I + +  +T +ID  +    
Sbjct: 119 ALSGFISSLAKGIRERSTDFRYADFAELLLPIPPYLEQQQIAQFLDDKTAKIDRAVDLAE 178

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNT 249
           + I LLKE KQ L+   VT+GLNPDV +KDSG+EW+G VP+HWE+     +  E  R N 
Sbjct: 179 KQIALLKEHKQILIQNAVTRGLNPDVPLKDSGVEWIGQVPEHWELTIGMNVFRENKRDNK 238

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
            + E+ +LSLSYG II K E +  GL PES+ETYQIV+P +I+ R  DLQND+ SLR+  
Sbjct: 239 GMKENTVLSLSYGKIIIKPEEKLFGLVPESFETYQIVEPNDIIIRCTDLQNDQTSLRTGL 298

Query: 310 VMERGIITSAYM-AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVL 368
             ++GIITSAY+     +   + +L + + + D+ KV Y  GSGLRQ+L F D KRLP++
Sbjct: 299 AQDKGIITSAYLNLKVINNYSAKFLHYYLHALDITKVLYKFGSGLRQNLSFLDFKRLPII 358

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
              + EQ  I + ++ +T++ID ++      I  LKE +S  I   VTG++ +
Sbjct: 359 DISLAEQQQIADYLDKQTSKIDQVIALKTAHIEKLKEYKSVLINDVVTGKVRV 411



 Score = 84.5 bits (207), Expect = 3e-14,   Method: Composition-based stats.
 Identities = 44/201 (21%), Positives = 79/201 (39%), Gaps = 6/201 (2%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNS 70
           KDSGV+WIG +P+HW++       + N  R ++  K+   + L   +    K   K    
Sbjct: 207 KDSGVEWIGQVPEHWELTIGMNVFRENK-RDNKGMKENTVLSLSYGKI-IIKPEEKLFGL 264

Query: 71  RQSDTSTVSIFAKGQILYGKLGP----YLRKAIIADFDGICSTQFLVLQPKDVLPELLQG 126
                 T  I     I+             +  +A   GI ++ +L L+  +        
Sbjct: 265 VPESFETYQIVEPNDIIIRCTDLQNDQTSLRTGLAQDKGIITSAYLNLKVINNYSAKFLH 324

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           + L      ++          +  +     +P+    LAEQ  I + +  +T +ID +I 
Sbjct: 325 YYLHALDITKVLYKFGSGLRQNLSFLDFKRLPIIDISLAEQQQIADYLDKQTSKIDQVIA 384

Query: 187 ERIRFIELLKEKKQALVSYIV 207
            +   IE LKE K  L++ +V
Sbjct: 385 LKTAHIEKLKEYKSVLINDVV 405


>gi|302345454|ref|YP_003813807.1| type I restriction modification DNA specificity domain protein
           [Prevotella melaninogenica ATCC 25845]
 gi|302149142|gb|ADK95404.1| type I restriction modification DNA specificity domain protein
           [Prevotella melaninogenica ATCC 25845]
          Length = 428

 Score =  231 bits (590), Expect = 1e-58,   Method: Composition-based stats.
 Identities = 115/437 (26%), Positives = 178/437 (40%), Gaps = 27/437 (6%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKR-FTKLNTGRTSESGK----DIIYIGLEDVESG 59
           K Y +YKDS VQW+G +P HW    IK       +G   +  K    D++   + D +  
Sbjct: 2   KRYGKYKDSAVQWLGKVPSHWNYSRIKFGLKSSFSGVWGDDEKGDDNDVVCYRVADFDYK 61

Query: 60  TGKYLPKDGNSRQSDTSTVSI--FAKGQILYGKLG-----PYLRKAIIA-DFDGICSTQF 111
            G    +    R  D  T          IL  K G     P  R  I   D    CS   
Sbjct: 62  NGGLSEEKITIRNIDEKTFKEREILPNDILIEKSGGGDVNPVGRAVIANLDHKATCSNFI 121

Query: 112 LVLQPKDVLPELLQGWLLSIDVTQRIEAI---CEGATMSHADWKGIGNIPMPIPPLAEQV 168
             ++  + +      +     +  +   +    +   + +          M +PPL+EQ 
Sbjct: 122 HCVRCNENVLNTRLLYYFFYSIYVQKVNLLFFNQTTGIQNLKVPEYLGQVMFLPPLSEQQ 181

Query: 169 LIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLV 228
            I   + A+T  ID +I +R + I LL+E K A++S  VTKGLNP+ KMKDSGIEW+G V
Sbjct: 182 SIASFLDAKTKPIDDIIAKREQQIALLEEMKSAIISRAVTKGLNPEAKMKDSGIEWIGEV 241

Query: 229 PDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDP 288
           P++W +  F  L       +              +     E       P+   + +    
Sbjct: 242 PENWNLLRFRLLCRISTGDSD-----------TQDAEPDGEYPFYVRSPQVERSSKFTCE 290

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA 348
           G+ +    D     R                        +DS YL   MR     ++   
Sbjct: 291 GDAILMAGDGAGAGRVFHHVDGKYAVHQRVYIFNQFNKVVDSNYLYQFMRIMFPQRMNMG 350

Query: 349 MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
                  S++   ++   V +P I EQ  IT+ ++ ETA+IDV ++K  + I LL+E + 
Sbjct: 351 SAQSTVPSVRLHMIQNFVVPIPSIDEQRTITSYLDTETAKIDVRIDKRRKQIALLQEYKQ 410

Query: 409 SFIAAAVTGQIDLRGES 425
           + I  AVTG+ID+RG S
Sbjct: 411 ALITDAVTGKIDVRGFS 427


>gi|283787023|ref|YP_003366888.1| Type I restriction-modification system, specificity (S) subunit
           [Citrobacter rodentium ICC168]
 gi|282950477|emb|CBG90140.1| putative Type I restriction-modification system, specificity (S)
           subunit [Citrobacter rodentium ICC168]
          Length = 446

 Score =  231 bits (590), Expect = 1e-58,   Method: Composition-based stats.
 Identities = 118/439 (26%), Positives = 196/439 (44%), Gaps = 24/439 (5%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLE 54
           M  YKAYP+YKDSGV+W+G IP HWK++  K       G+   +         + Y+ +E
Sbjct: 1   MAKYKAYPEYKDSGVEWLGEIPIHWKMLRHKYVAFFTKGKNPTNLLEQPLKNTLPYLSME 60

Query: 55  DVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVL 114
            + + T              ++ V +  +GQ L    G    +  +    GI S+     
Sbjct: 61  CLRNNTTD-------KYALISNDVRVALEGQPLVIWDGSNAGE-FLKGKSGILSSTMAAA 112

Query: 115 QPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKI 174
                L      +L  I +   +     G  + H +   + +I   IP + EQ  + + +
Sbjct: 113 TLIYPLHSQYYWYLC-ISIEPEMRKNAVGMGIPHVNGDELRSISFGIPSIYEQKQVADFL 171

Query: 175 IAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEV 234
             ET +ID LI ++ + IELLKEK+QA++S+ VTKGLNPDV MKDSG+EW+G VP+HW V
Sbjct: 172 DHETAKIDNLIEKQQQLIELLKEKRQAVISHAVTKGLNPDVPMKDSGVEWLGDVPEHWRV 231

Query: 235 KPFFALVTELNR------KNTKLIESNILSLSYGNII--QKLETRNMGLKPESYETYQIV 286
                     +       K    I  NI  +S  +    ++++         S       
Sbjct: 232 SRIKNYAKIESGHTPSRTKPEYWISCNIPWVSLNDSKQLKEIDYIEDTFYKISELGMANS 291

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF 346
               +  R +    D     SA   +   ++   +A             L+  Y + K F
Sbjct: 292 SAHLLPARAVVFTRDASIGLSAITTKSMAVSQHLIAWICDEKFIIPEFLLLVFYAMEKEF 351

Query: 347 YAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
                    +++  ++V+ L    PP++EQ ++ +    +  +I   + K+E  + LL+E
Sbjct: 352 ERYTFGATIKTIGMDNVRGLKSTFPPVEEQRNLIDWAFSKIEKIKSSINKVEDMLSLLQE 411

Query: 406 RRSSFIAAAVTGQIDLRGE 424
           RR++ I+AAVTG+ID+R  
Sbjct: 412 RRTALISAAVTGKIDVRDW 430


>gi|329115021|ref|ZP_08243776.1| Type-1 restriction enzyme StySJI specificity protein [Acetobacter
           pomorum DM001]
 gi|326695464|gb|EGE47150.1| Type-1 restriction enzyme StySJI specificity protein [Acetobacter
           pomorum DM001]
          Length = 434

 Score =  231 bits (589), Expect = 1e-58,   Method: Composition-based stats.
 Identities = 114/438 (26%), Positives = 185/438 (42%), Gaps = 28/438 (6%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT 60
           M  +  YP YK+SGV+WIG IP  W + P++       G+     K+       D+    
Sbjct: 1   MS-FPKYPAYKNSGVEWIGEIPVGWIISPLRYLAHCLDGKRIPLNKEERSYKKGDI---- 55

Query: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGP-----YLRKAIIADFDGICSTQFLVLQ 115
               P  G +   D     +F +  IL G+ G          +   +     +    VL+
Sbjct: 56  ----PYWGANCIVDFVDEFLFNQELILLGEDGAPFFDKTKEVSFYINEPIWPNNHVHVLK 111

Query: 116 PKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKII 175
             +        + L+        +  EG+T        +  I +PIPPL EQ  I   + 
Sbjct: 112 VFENFSPKFLVYSLNCV---EYSSYIEGSTRDKLTQNNMNRIVVPIPPLPEQQAIASFLD 168

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVK 235
            E  +ID LI E+ R I LL EK+QA++S+ VTKGLNP+  MK+SGI W+G+VP+ W+  
Sbjct: 169 RECGKIDALIAEQERLIALLAEKRQAVISHAVTKGLNPNAPMKESGIPWIGMVPEGWDCS 228

Query: 236 PFFALVTELNRKNTK-----LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGE 290
               +      K          E + L +        +         +    Y      +
Sbjct: 229 RLRFVAQFNPSKTEISYIPLNEEVSFLPMEAIRDDGTINLEQKRKISDVQNGYTYFRDMD 288

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITS----AYMAVKPHGIDSTYLAWLMRSYDLCK-- 344
           IVF  I    +       + + RGI             P  +   YL    +S    K  
Sbjct: 289 IVFAKITPCFENGKGAVVKKLLRGIGFGTTELIVARSVPSRVIPEYLFRFFQSDIFRKPA 348

Query: 345 VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLK 404
                G+G ++ +    V+   V +PP+ +Q  I + +++  ++ID L+ + +  + L K
Sbjct: 349 EASMYGAGGQKRVSERFVRDFSVYLPPLPDQQAIASFLDLTCSKIDTLIAEQKTMLTLCK 408

Query: 405 ERRSSFIAAAVTGQIDLR 422
           ERR++ I+AAVTG+ID+R
Sbjct: 409 ERRAALISAAVTGKIDVR 426



 Score = 94.9 bits (234), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 49/222 (22%), Positives = 94/222 (42%), Gaps = 14/222 (6%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRT----SESGKDIIYIGLEDVESGTGKYLP 65
            K+SG+ WIG +P+ W    ++   + N  +T        +++ ++ +E +    G    
Sbjct: 210 MKESGIPWIGMVPEGWDCSRLRFVAQFNPSKTEISYIPLNEEVSFLPMEAIR-DDGTINL 268

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAI------IADFDGICSTQFLVLQ--PK 117
           +         +  + F    I++ K+ P            +    G  +T+ +V +  P 
Sbjct: 269 EQKRKISDVQNGYTYFRDMDIVFAKITPCFENGKGAVVKKLLRGIGFGTTELIVARSVPS 328

Query: 118 DVLPELLQGWLLSIDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIA 176
            V+PE L  +  S    +  EA   GA        + + +  + +PPL +Q  I   +  
Sbjct: 329 RVIPEYLFRFFQSDIFRKPAEASMYGAGGQKRVSERFVRDFSVYLPPLPDQQAIASFLDL 388

Query: 177 ETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMK 218
              +IDTLI E+   + L KE++ AL+S  VT  ++   + K
Sbjct: 389 TCSKIDTLIAEQKTMLTLCKERRAALISAAVTGKIDVRAQNK 430


>gi|304315216|ref|YP_003850363.1| type I restriction-modification enzyme, subunit S
           [Methanothermobacter marburgensis str. Marburg]
 gi|302588675|gb|ADL59050.1| predicted type I restriction-modification enzyme, subunit S
           [Methanothermobacter marburgensis str. Marburg]
          Length = 435

 Score =  231 bits (589), Expect = 2e-58,   Method: Composition-based stats.
 Identities = 101/439 (23%), Positives = 188/439 (42%), Gaps = 30/439 (6%)

Query: 2   KHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSE------SGKDIIYIGLED 55
            + K YP+YKDSGV+WIG IP  W V   K   K   G+  +      SG  + Y+ ++ 
Sbjct: 1   MNLKPYPEYKDSGVEWIGEIPCGWNVHRFKIHFKYIKGKVPKDLRETPSGDSLPYLTMDY 60

Query: 56  VESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQ 115
           +     K    D +              G +L    G    + +      + ST   ++ 
Sbjct: 61  LRGRESKVFYCDSDG------GAVRVNDGDLLLLWDGSNAGEFLEGKDGYLSSTMVKLIV 114

Query: 116 PKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKII 175
            +  L        L       ++ +  G  + H     +  I +P P L EQ  I   + 
Sbjct: 115 SEMDL---GYSKYLCKAFEPLLKDLTTGMGIPHVKDNVLATIRIPYPSLEEQRKIASFLD 171

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVK 235
           ++  +ID  I +  R I+LL+EK+ AL++  VTKGLNP+VKMK SG++W+G +P +WE++
Sbjct: 172 SKISKIDLTIEKYTRLIDLLQEKRNALINQAVTKGLNPNVKMKYSGVKWIGEIPQNWELR 231

Query: 236 PFFALVTELNRKN-------TKLIESNILSLSYGNIIQKLETRNMGLKPE----SYETYQ 284
                   +           +      I  +  G++   +         +     Y   +
Sbjct: 232 KISRSFEIIGSGTTPKSQDGSYYNRGTIPWVITGDLNDSILNETSKRITKKALRDYSALK 291

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCK 344
           I     ++         K SL     ++  +  +  +    + +D  ++ +   S     
Sbjct: 292 IYKKNSLIVAMYGATIGKISL---LNIDACVNQACCVLSNSNILDIKFVFYWFFSNR-DN 347

Query: 345 VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLK 404
           +      G + ++    +K L + VPP+KEQ  I + ++  +++I++  +KI++++ LLK
Sbjct: 348 IISLSDGGGQPNISQHVIKNLRIQVPPLKEQKIIVSYLDQNSSKINLTTKKIQKNVDLLK 407

Query: 405 ERRSSFIAAAVTGQIDLRG 423
           E + S I   VTG++D++ 
Sbjct: 408 EYKKSLIYHLVTGKVDVKE 426


>gi|261211183|ref|ZP_05925472.1| possible type I restriction-modification system S subunit [Vibrio
           sp. RC341]
 gi|260839684|gb|EEX66295.1| possible type I restriction-modification system S subunit [Vibrio
           sp. RC341]
          Length = 469

 Score =  231 bits (589), Expect = 2e-58,   Method: Composition-based stats.
 Identities = 112/462 (24%), Positives = 197/462 (42%), Gaps = 43/462 (9%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDV 56
           M  Y+AYP+YKDS + W+  IP HW    ++       G T          I  +   +V
Sbjct: 1   MSKYQAYPEYKDSEIDWLETIPAHWLTSKLRYTFSFGKGLTITKENLRDTGIPCVSYGEV 60

Query: 57  ESGTGKYLP------KDGNSRQSDTSTVSIFAKGQILYGKL-----GPYLRKAIIADFDG 105
            S  G  +       K        TS  ++  KG I++        G      ++++   
Sbjct: 61  HSKYGFEIDPARHPLKCVGDDYLKTSPYALLKKGDIVFADTSEDIDGSGNFTQLVSNEQV 120

Query: 106 ICSTQFLVLQPKDVLPELLQGWL-LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPL 164
                 ++ +P +        +L  S ++  +I    +G  +       +  + + +PPL
Sbjct: 121 FAGYHTIIARPYNHECSRFYAYLLDSKELRTQIRHAVKGVKVFSITQAILRGVNIWLPPL 180

Query: 165 AEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEW 224
            E+  I   +  ET +IDTLI ++ + I+LLKEK+QA+VS+ VTKGLNP   MKDSG+EW
Sbjct: 181 KERNQIANFLDHETAKIDTLIEKQQQLIKLLKEKRQAVVSHAVTKGLNPQAPMKDSGVEW 240

Query: 225 VGLVPDHWEVKPFFALVTELNR---KNTKLIESNILSLSYGNIIQKLETRNMGLKPE--- 278
           +G VP+HW + P    V  +N     +    +  +  +  GNI  K   +     P+   
Sbjct: 241 LGEVPEHWSISPLKHHVNTVNGFGFSSNNFQDEGVPFIRAGNIKNKTIVKPDIHLPQAVV 300

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
                 I++ GE+V   +        ++++ V + G++  +     P+           +
Sbjct: 301 DKYQRVILNDGELVISMVGSD---PKIKASAVGQVGLVPPSLAGSVPNQNVVILRE---Q 354

Query: 339 SYDLCKVFYAMGSGLRQSLKFEDVKR---------------LPVLVPPIKEQFDITNVIN 383
           S  L K  + +  G       +                        P + EQ +I + ++
Sbjct: 355 SSLLKKFLFYVVCGTPYRHHLDVFSHKLANQSIISSSLIICAQFTFPELDEQKEIVDFLD 414

Query: 384 VETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGES 425
            +  + D L+EK  +SI  + ER+++ I+A VTG+ID+R   
Sbjct: 415 TQLRKYDWLMEKATRSIEFMNERKTALISATVTGKIDVRNWQ 456


>gi|56421440|ref|YP_148758.1| type I restriction-modification system specificity determinant
           [Geobacillus kaustophilus HTA426]
 gi|56381282|dbj|BAD77190.1| type I restriction-modification system specificity determinant
           [Geobacillus kaustophilus HTA426]
          Length = 438

 Score =  231 bits (589), Expect = 2e-58,   Method: Composition-based stats.
 Identities = 110/438 (25%), Positives = 191/438 (43%), Gaps = 19/438 (4%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTS---------ESGKDIIYI 51
           M + K YP+YKDSGV+W+  +P  W+V+ IKR T++  G +          +   +  ++
Sbjct: 1   MVNLKKYPKYKDSGVEWLREVPSEWQVLQIKRLTRVRRGASPRPIDDPIYFDDNGEYSWV 60

Query: 52  GLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQF 111
            + DV          +       +S       G+ L+  +   + K  I +        F
Sbjct: 61  RISDVTKSNMYLEETEQKLSNLGSSLSVKLEPGE-LFLSIAATVGKPCITNVKCCIYDGF 119

Query: 112 LVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIR 171
            V  P     +    ++      +    + +  T  + +   +G+I + +P + EQ +I 
Sbjct: 120 -VYFPDYRGDKRFLYYIFEAG--EAYRGLGKLGTQLNLNTDTVGSIYIAVPTIQEQKMIS 176

Query: 172 EKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDH 231
           + +  +   ID+LI ++ + IELL+EK+Q +++  VTKGLNP+VKMKDSG+EW+G +P+ 
Sbjct: 177 DFLDEKVHEIDSLIADKEKLIELLEEKRQVIITEAVTKGLNPNVKMKDSGVEWIGEMPES 236

Query: 232 WEVKPFFALVTELNR----KNTKLIESNILSLSYGNIIQKL-ETRNMGLKPESYETYQIV 286
           WEV                   + +E   + +S  N   ++        K       +I+
Sbjct: 237 WEVSKIKYQADINKYTLSENTDEDLEIKYIDISSVNSRGEVVNIEKYYFKDAPSRARRIL 296

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF 346
             G+ +   +       +            T   +      I   YL +LMRS       
Sbjct: 297 RKGDTIISTVRTYLKAITWFEEVEENLICSTGFAVLSPKETIYPKYLFYLMRSTKYIDEI 356

Query: 347 YAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
                G+   ++   ++  +  L+P I EQ  I   I+ E  +ID LV++I+  I  LKE
Sbjct: 357 VKRSIGVSYPAITSTEIGMMECLLPNINEQKMIVEYIDNELKKIDGLVDEIKLQIQKLKE 416

Query: 406 RRSSFIAAAVTGQIDLRG 423
            R S I  AVTG+ID+R 
Sbjct: 417 YRQSLIYEAVTGKIDVRD 434


>gi|77166146|ref|YP_344671.1| restriction endonuclease S subunits-like [Nitrosococcus oceani ATCC
           19707]
 gi|254435813|ref|ZP_05049320.1| hypothetical protein NOC27_2876 [Nitrosococcus oceani AFC27]
 gi|76884460|gb|ABA59141.1| Restriction endonuclease S subunits-like protein [Nitrosococcus
           oceani ATCC 19707]
 gi|207088924|gb|EDZ66196.1| hypothetical protein NOC27_2876 [Nitrosococcus oceani AFC27]
          Length = 487

 Score =  230 bits (587), Expect = 2e-58,   Method: Composition-based stats.
 Identities = 121/444 (27%), Positives = 199/444 (44%), Gaps = 23/444 (5%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRT----SESGKDIIYIGLED-VESG 59
             Y +YK+S V WIG +P  W+V P K     N G           D I +   D    G
Sbjct: 29  PKYREYKNSDVVWIGEVPSFWEVKPFKWLLTHNEGGVWGDDPAGEGDTIVLRSTDQTVDG 88

Query: 60  TGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLG--------PYLRKAIIADFDGICSTQF 111
                           +  ++   G ++  K            L    +A          
Sbjct: 89  NWNVTDPAVRHLTVKENASAVLEAGDLVVTKSSGSALHIGKTTLVNVDMAKLGYCYGNFM 148

Query: 112 LVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT--MSHADWKGIGNIPMPIPPLAEQVL 169
             L+        L  ++++ D+ +    +   +T  +++ +   IG I +P+PP+ EQ  
Sbjct: 149 QRLRLGQKYIPKLAWYVMNNDLVRLQLNLLSNSTTGLANLNATLIGEILLPVPPVEEQTQ 208

Query: 170 IREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVP 229
           I   +  ET RID LI E+ R IELLKEK+QA++S+ VTKGL+P V MKDSG+EW+G VP
Sbjct: 209 IARFLDHETARIDALIEEQQRLIELLKEKRQAIISHAVTKGLDPTVPMKDSGVEWLGEVP 268

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK---LETRNMGLKPESYETYQIV 286
            HW  KP   L     +K+    + + L         K   ++        +    Y   
Sbjct: 269 AHWITKPLKHLAELNPKKSGYHGDRDELCSFVPMEKLKTGVIQLDEERFIADVISGYTYF 328

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGI---ITSAYMAVKPHGIDSTYLAWLMRSYDLC 343
           + G+++   +    + R++  A  +  G+    +   +      +++++L + ++     
Sbjct: 329 EDGDVLQAKVTPCFENRNIAIADGLTNGVGFGSSEINVLRPFPDVNASFLYYRLQEDGYM 388

Query: 344 KVF--YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
            +     +G+G  + +  E +    V VP   EQ  I + ++ ETAR+D LVE+    I 
Sbjct: 389 GICTASMIGAGGLKRVPGEVINGFTVAVPERHEQTQIAHFLDHETARVDKLVEEANVGIE 448

Query: 402 LLKERRSSFIAAAVTGQIDLRGES 425
           LLKERRS+ I+AAVTG+ID+RG  
Sbjct: 449 LLKERRSALISAAVTGKIDVRGWQ 472


>gi|89900160|ref|YP_522631.1| putative type I site-specific restriction-modification system, S
           subunit [Rhodoferax ferrireducens T118]
 gi|89344897|gb|ABD69100.1| putative type I site-specific restriction-modification system, S
           subunit [Rhodoferax ferrireducens T118]
          Length = 422

 Score =  230 bits (585), Expect = 5e-58,   Method: Composition-based stats.
 Identities = 124/419 (29%), Positives = 200/419 (47%), Gaps = 13/419 (3%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGN 69
            KDSG  WIG IP+ W++  +K     N+       K ++ +    V     K + +   
Sbjct: 1   MKDSGAAWIGEIPQGWEIKRMKDCFISNSRAQP--NKTVLSLSYGKV---IVKDMEEKKG 55

Query: 70  SRQSDTSTVSIFAKGQILYGKLGPYLR----KAIIADFDGICSTQFLVLQPKDVLPELLQ 125
                  +      G ++             +   A   GI ++ +L +  + +      
Sbjct: 56  VTPESFDSYQGVHPGDVVLRLTDLQNDQKSLRVGRATTKGIITSAYLCVSSRSLNDRYSA 115

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
             L  +   Q++     G       +  +  +   +P  AEQ  I + +  +T  ID  +
Sbjct: 116 YLLHDVGDIQKLFYGLGGGVRQSMKFADLAELLFSLPTPAEQRAIADYLDRQTALIDQRL 175

Query: 186 TERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN 245
           T       +L E ++A +   VTKGLN +  MKDSG+ W+G +P  WE+K         +
Sbjct: 176 TTLAEKKAVLAELRKATIHEAVTKGLNKNAPMKDSGVAWIGEIPQGWEIKRMKDCFISNS 235

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
           R         +LSLSYG +I K      G+ PES+++YQ V PG++V R  DLQND++SL
Sbjct: 236 RAQPNKT---VLSLSYGKVIVKDMEEKKGVTPESFDSYQGVHPGDVVLRLTDLQNDQKSL 292

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR-SYDLCKVFYAMGSGLRQSLKFEDVKR 364
           R  +   +GIITSAY+ V    ++  Y A+L+    D+ K+FY +G G+RQS+KF D+  
Sbjct: 293 RVGRATTKGIITSAYLCVSSRSLNDRYSAYLLHDVGDIQKLFYGLGGGVRQSMKFADLAE 352

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
           L   +P   EQ  I + ++ +TA ID  +  +++   +LK  R + I  AVTG+IDL G
Sbjct: 353 LLFSLPTPAEQRAIADYLDRQTALIDTQLATLDEQAQVLKVLRKAIIHEAVTGKIDLSG 411


>gi|120553353|ref|YP_957704.1| restriction modification system DNA specificity subunit
           [Marinobacter aquaeolei VT8]
 gi|120323202|gb|ABM17517.1| restriction modification system DNA specificity domain
           [Marinobacter aquaeolei VT8]
          Length = 439

 Score =  229 bits (584), Expect = 5e-58,   Method: Composition-based stats.
 Identities = 109/430 (25%), Positives = 182/430 (42%), Gaps = 28/430 (6%)

Query: 7   YPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPK 66
           YP+YK SGVQW+G +P +WK+  +K   ++  G+  +S           VES      P 
Sbjct: 6   YPEYKGSGVQWLGEVPSNWKIGRLKHLLRIRGGQDYKS-----------VESYVPTDFPV 54

Query: 67  DGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQG 126
            G+  Q   +T  ++    +L G+ G   +   +        T F      +VLP     
Sbjct: 55  IGSGGQFTYATDYLYDGESVLLGRKGTIDKPLYVKGKFWTVDTMFYT----EVLPGTNGR 110

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           +   +  T   +       +       + N  +P+PP  EQ  I   +  ET +ID LI 
Sbjct: 111 YAYYLATTIPFDLYSTNTALPSMSQFDLANHGLPLPPKCEQTQIARFLDHETAKIDALIR 170

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
           E+ R IELL+EK+QA++S+ VTKGL+PDV MKDSG+EW+G VP HW V          + 
Sbjct: 171 EQERLIELLQEKRQAVISHAVTKGLDPDVPMKDSGVEWLGEVPAHWIVARIKNFARVESG 230

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
                 +           +   +++   LK   Y         ++       +    +  
Sbjct: 231 HTPDKKKEEYWVDCDIPWVSLNDSK--QLKKADYIADTSTKVNDLGIANSSARLLPAAAV 288

Query: 307 SA----------QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQ 355
                          +   ++   +A    G        L+  Y +   F         +
Sbjct: 289 VFTRDASIGLSAITTKPMAVSQHLIAWLCAGEKLVPEYLLLIFYAMESEFERYTFGATIK 348

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           ++  +DV+ L    PP++EQ  +      +   +   ++  E++I+LLKERRS+ I++AV
Sbjct: 349 TIGMDDVRSLTAAFPPMEEQKQLVTWAFRKKETLQAGLDAAEKTILLLKERRSALISSAV 408

Query: 416 TGQIDLRGES 425
           TG+ID+R   
Sbjct: 409 TGKIDVRNWQ 418


>gi|21229080|ref|NP_635002.1| type I restriction-modification system specificity subunit
           [Methanosarcina mazei Go1]
 gi|20907634|gb|AAM32674.1| type I restriction-modification system specificity subunit
           [Methanosarcina mazei Go1]
          Length = 460

 Score =  229 bits (583), Expect = 8e-58,   Method: Composition-based stats.
 Identities = 111/430 (25%), Positives = 192/430 (44%), Gaps = 17/430 (3%)

Query: 3   HYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGK 62
           + K YP YKDSGV W+G +P+HWK+   K   +  + +      D   +     +    K
Sbjct: 4   NLKPYPAYKDSGVPWLGEVPEHWKLKRTKTVLRERSQKGFP---DEPLLAATQTKGVVRK 60

Query: 63  YLPKDGNSRQ-SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP 121
            L ++       D   + +      +   L  +      A   GI S  + +L P +   
Sbjct: 61  ELYENRTVLALKDLHLLKLVRVNDFVIS-LRSFQGGIEFAHEQGIISPAYTILYPVEAQN 119

Query: 122 ELLQGWLLSIDVTQRIEAICEGATM--SHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
                WL          ++         + D+  +    +P+PP +EQ  I   +     
Sbjct: 120 HGFLAWLFKSKPYIENLSLFVTGIREGQNIDYVKLSRSELPLPPFSEQSSIVRYLDHIDR 179

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFA 239
           RI   I  + +FI+LL+E+KQA++   VT GL+P+VK+K SG+EW+G VP+HWEVKP   
Sbjct: 180 RIRRYIHAKQKFIKLLEEQKQAIIHQSVTHGLDPNVKLKPSGLEWLGDVPEHWEVKPAKW 239

Query: 240 LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQ 299
              E++ +++   E  +       +  + E        ESY  Y++    ++V   +   
Sbjct: 240 YYHEIDERSSTGSEELLSVSHITGVTPRSEKNITMFMAESYVGYKLCRENDLVINTMWAW 299

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHG---IDSTYLAWLMRSYDLCKVFYAMGSGL--- 353
                +      + GI++ +Y   +P       S Y+  L+R+      +    +G+   
Sbjct: 300 MAALGVA----QQTGIVSYSYGVYRPIHKEAFLSQYIDLLLRTKPYVAEYICRSTGIHSS 355

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           R  L  E   R+P++ PPI EQ  I + I+ +T+ ++  +    Q I LL+E R+  IA 
Sbjct: 356 RLRLYPEQFLRIPIIRPPIVEQQAILDEIHNKTSELEHAINTSNQEISLLREYRTRLIAD 415

Query: 414 AVTGQIDLRG 423
            VTG++D+R 
Sbjct: 416 VVTGKLDVRE 425



 Score =  100 bits (248), Expect = 6e-19,   Method: Composition-based stats.
 Identities = 51/213 (23%), Positives = 95/213 (44%), Gaps = 8/213 (3%)

Query: 207 VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ 266
           +   L P    KDSG+ W+G VP+HW++K    ++ E ++K          + + G + +
Sbjct: 1   MIHNLKPYPAYKDSGVPWLGEVPEHWKLKRTKTVLRERSQKGFPDEPLLAATQTKGVVRK 60

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP- 325
           +L      L  +     ++V   + V      Q            E+GII+ AY  + P 
Sbjct: 61  ELYENRTVLALKDLHLLKLVRVNDFVISLRSFQG-----GIEFAHEQGIISPAYTILYPV 115

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGLR--QSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
              +  +LAWL +S    +      +G+R  Q++ +  + R  + +PP  EQ  I   ++
Sbjct: 116 EAQNHGFLAWLFKSKPYIENLSLFVTGIREGQNIDYVKLSRSELPLPPFSEQSSIVRYLD 175

Query: 384 VETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
               RI   +   ++ I LL+E++ + I  +VT
Sbjct: 176 HIDRRIRRYIHAKQKFIKLLEEQKQAIIHQSVT 208


>gi|257064600|ref|YP_003144272.1| hypothetical protein Shel_19070 [Slackia heliotrinireducens DSM
           20476]
 gi|256792253|gb|ACV22923.1| hypothetical protein Shel_19070 [Slackia heliotrinireducens DSM
           20476]
          Length = 425

 Score =  228 bits (581), Expect = 1e-57,   Method: Composition-based stats.
 Identities = 105/428 (24%), Positives = 187/428 (43%), Gaps = 16/428 (3%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLP 65
            Y  YKDSGV+WIG IP  W +   K           +   +   + L  +     +   
Sbjct: 3   RYEAYKDSGVEWIGEIPSTWTLARTKAVFSSKKRVVGDKANEYQRLALT-MHGVLLRDKD 61

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKL---GPYLRKAIIADFDGICSTQFLVLQPKDVLPE 122
            +   +        I    ++++  +        +  ++ + GI S  ++ L   D    
Sbjct: 62  DNEGLQPEQFEGYQILEANELVFKLIDLENIKTSRVGLSPYTGIVSPAYITLTQTDSDNR 121

Query: 123 LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
               W  ++        +      S  +   + N+PM +P   EQ  I   + A T  ID
Sbjct: 122 YFYYWFFALYQQNVFNQLGGNGVRSALNKDDLLNLPMLLPKQDEQRAIANYLDARTAEID 181

Query: 183 TLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVT 242
            L+ +  R  ELL+E ++A++S  VTKGL+PD  MKDSG+EW+G +P+ W V+P   L  
Sbjct: 182 ALVADCEREAELLREYRKAVISEAVTKGLDPDAPMKDSGVEWIGEIPEGWLVRPSKTLFA 241

Query: 243 ELNRKNTKLIESNILSLSYGNIIQK----LETRNMGLKPESYETYQIVDPGEIVFRFIDL 298
           E         E    +  YG I Q     +E + M +  ++ + ++ V+PG+ V      
Sbjct: 242 EAKELRHSDDEQCAATQKYGIIPQARYIAIENQRMVVADKNLDAWKHVEPGDFVISLRSF 301

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHG-IDSTYLAWLMRSYDLCKVFYAMGSGLR--Q 355
           Q              G +T  Y+ +K +  +++ Y  +L ++    +      + +R  Q
Sbjct: 302 QG-----GLELSEITGCVTWHYIVLKGNDLVEAGYFKYLFKTTKYIESLQRTCTYIRDGQ 356

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            L++ +  ++P+ +P  +EQ  I   ++ +TA ID L+E  +     L+E R S I+ AV
Sbjct: 357 DLRYSNFVQVPLPLPSREEQVAIGVYLDAKTAEIDALIEAKQTMADKLREYRKSLISEAV 416

Query: 416 TGQIDLRG 423
           TG+  + G
Sbjct: 417 TGKFKVPG 424


>gi|330992551|ref|ZP_08316499.1| hypothetical protein SXCC_02458 [Gluconacetobacter sp. SXCC-1]
 gi|329760750|gb|EGG77246.1| hypothetical protein SXCC_02458 [Gluconacetobacter sp. SXCC-1]
          Length = 432

 Score =  228 bits (581), Expect = 1e-57,   Method: Composition-based stats.
 Identities = 120/435 (27%), Positives = 197/435 (45%), Gaps = 16/435 (3%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT 60
           M  +  YP YKDSGV+WIG IP  W    +K    ++ G++  S              G 
Sbjct: 1   MS-FPKYPAYKDSGVEWIGEIPVGWHSACLKHVAIVDAGQSPASTDCNTEGCGLPFLQGC 59

Query: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL 120
             +       +   T       K  IL     P  R   +AD           ++P    
Sbjct: 60  ADFGVCYPVPKNYCTIPPKSCCKEDILLSVRAPVGR-LNVADRQYGIGRGLCSIRPSSSH 118

Query: 121 PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
            +    + + + + +   +I  G+T      + I N  + +PPL EQ  I   +  E  +
Sbjct: 119 DKKYFLYTI-LFLEEYFHSISTGSTYEAISTEQIKNTILFLPPLPEQQAIASFLDRECGK 177

Query: 181 IDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFAL 240
           ID LI E+ R I LL EK+QA++S+ VTKGLNP+  MKDSGI W+G+V + WE+     +
Sbjct: 178 IDALIAEQERLIALLAEKRQAVISHAVTKGLNPNAPMKDSGIPWIGMVSEEWEIVRLGTI 237

Query: 241 VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK---PESYETYQIVDPGEIVFRFID 297
             E+N    + +    +S+  G   ++L    +  K    +    Y  V PG++ +  + 
Sbjct: 238 FEEVNESGNENLPILSVSIHTGVSDEELSDEKLDRKVTRSDDRSKYIAVRPGDLTYNMMR 297

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW---LMRSYDLCKVFYAMGSGL- 353
                           G+++ AY+  +P  I      +   L+R+ +          G+ 
Sbjct: 298 AWQGGFGTVQVM----GMVSPAYVVARPKNISRQKTDFIELLLRTPNAISEMKRYSRGVT 353

Query: 354 --RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
             R  L +E+ K++ + +P +KEQ +I N +  +T   D L      +I LLKERR++ I
Sbjct: 354 DFRLRLYWEEFKKICIPLPILKEQDEILNFLKEKTGHFDALATTARNAITLLKERRAALI 413

Query: 412 AAAVTGQIDLRGESQ 426
           +AAVTG+ID+R +S+
Sbjct: 414 SAAVTGKIDVRAQSK 428


>gi|110639314|ref|YP_679523.1| type I restriction-modification system [Cytophaga hutchinsonii ATCC
           33406]
 gi|110281995|gb|ABG60181.1| probable type I restriction-modification system [Cytophaga
           hutchinsonii ATCC 33406]
          Length = 432

 Score =  228 bits (580), Expect = 2e-57,   Method: Composition-based stats.
 Identities = 110/431 (25%), Positives = 190/431 (44%), Gaps = 15/431 (3%)

Query: 3   HYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGK 62
             + YP YKDSGV+W+G IPKHW+ + +K   +  + +  +  ++++ +           
Sbjct: 4   KLQKYPAYKDSGVEWLGEIPKHWECIRMKHLFRDYSEKN-KQNEELLSVTQNQGVVPRS- 61

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPE 122
           ++            +     KG      L  +         DGI S  + VL+ K  +  
Sbjct: 62  WVESRMVMPSGALESFKFIQKGDFAIS-LRSFEGGLEYCHHDGIISPAYTVLKTKRKIAN 120

Query: 123 LLQGWLLSI--DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
               +L      +++   +I       +  +  +    +PIP + EQ  I   +  +T +
Sbjct: 121 QYYKYLFKSSAFISELQTSIVGIREGKNISYPELSYSLLPIPKIDEQSCIATFLDDKTAK 180

Query: 181 IDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFAL 240
           ID  I+ + + IELLKE++Q L+   VT+GLNP VKMKDSG+EW+G VP+ WEVK    L
Sbjct: 181 IDQAISIKQKQIELLKERRQILIHKAVTRGLNPKVKMKDSGVEWIGEVPEGWEVKKLLGL 240

Query: 241 VTEL-----NRKNTKLIESNILSLSYGNIIQKLE---TRNMGLKPESYETYQIVDPGE-I 291
              +       K+  L +   ++L YG   +  E     N  +  E Y+  QIV+ G+ I
Sbjct: 241 CNFIRGNSSFGKDDLLNDGEYVALQYGKTYKVNEVNEEYNYFVNNEFYKASQIVNYGDTI 300

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
           +    +   +       +  + G+I    + + P+            S    K      +
Sbjct: 301 IIATSETIEELGHTAYYKRNDLGLIGGEQILLNPNNDKINSHYLYFTSRVFSKELRKYAT 360

Query: 352 GL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
           G+        D+K + + +PP+ EQ  I   I   TA+I   +   E  I  LKE +++ 
Sbjct: 361 GIKVFRFNINDLKTIYIAIPPLSEQQQIVEYIETTTAKIATAISLKENEIEKLKEYKANL 420

Query: 411 IAAAVTGQIDL 421
           + +AVTG+I +
Sbjct: 421 VNSAVTGKIKV 431


>gi|189499714|ref|YP_001959184.1| putative type I restriction-modification system [Chlorobium
           phaeobacteroides BS1]
 gi|189495155|gb|ACE03703.1| putative type I restriction-modification system [Chlorobium
           phaeobacteroides BS1]
          Length = 436

 Score =  228 bits (580), Expect = 2e-57,   Method: Composition-based stats.
 Identities = 114/434 (26%), Positives = 188/434 (43%), Gaps = 15/434 (3%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT 60
           M  +  YP+YK SGV+W+G +P+HW+++  +R        +  +    +    +      
Sbjct: 1   MS-FPRYPKYKASGVEWLGEVPEHWQMINSRRLFHQAKE-SPLTDDIQLSATQKYGVVPQ 58

Query: 61  GKYLPKDGNSRQ--SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKD 118
             ++  DG      S             +   L  +      + + G  S  + VL+P +
Sbjct: 59  SLFMESDGKVALALSGLGNFKHVEVDDFVIS-LRSFQGGIERSKYSGCVSPAYTVLRPAE 117

Query: 119 VLPELLQGWLLSIDVTQRIEAICEGATMS--HADWKGIGNIPMPIPPLAEQVLIREKIIA 176
            +     G+LL       I               ++  G IP+P PPLAEQ  I E +  
Sbjct: 118 PIDGSYWGFLLKSRRYVEILQTMNDGLRDGKSISYQQFGQIPLPSPPLAEQTAIAEFLDR 177

Query: 177 ETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKP 236
           ET +ID L+ E+ R +ELLKEK+QA++S+ VTKGLNP   MK SGIEW+G VP  W V  
Sbjct: 178 ETGKIDELVAEQRRLMELLKEKRQAVISHAVTKGLNPHAPMKPSGIEWLGDVPVGWSVLK 237

Query: 237 FFALVTELNR-----KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEI 291
              +                 ++ I     G+++   + R M     +       +    
Sbjct: 238 LGNISRFKGGAGFPDSYQGQTDNEIPFFKVGDMVNADDARVMRRANHTITEATARELRAF 297

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI---DSTYLAWLMRSYDLCKVFYA 348
           VF    +   K          R +   + +     G+   D + + +L+    L  +   
Sbjct: 298 VFPESTIVFAKVGAALLLKRYRLLGQRSCIDNNMMGMTVGDGSSVDYLLYVLPLLDLELI 357

Query: 349 MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
           +  G   S+    +    + +PPI EQ +I   +   TA+ D L  + +++I LL+ERR+
Sbjct: 358 VNPGAVPSINEGQISGQRIALPPIDEQREIVEFLTSVTAKFDTLTAEAQRTIDLLQERRT 417

Query: 409 SFIAAAVTGQIDLR 422
           + I+AAVTGQID+R
Sbjct: 418 ALISAAVTGQIDVR 431


>gi|119513480|ref|ZP_01632504.1| hypothetical protein N9414_06519 [Nodularia spumigena CCY9414]
 gi|119461860|gb|EAW42873.1| hypothetical protein N9414_06519 [Nodularia spumigena CCY9414]
          Length = 437

 Score =  227 bits (578), Expect = 3e-57,   Method: Composition-based stats.
 Identities = 111/434 (25%), Positives = 176/434 (40%), Gaps = 14/434 (3%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGR----TSESGKDIIYIGLEDVESGT 60
           K YP YKDSG+ W+G IP+HW++V    F     G            +  + + +++ G 
Sbjct: 2   KRYPHYKDSGIDWLGDIPEHWEIVRFSNFINFQEGPGIMAADFKDYGVPLLRIHNLKPGF 61

Query: 61  GKYLPKDGNSRQSDTSTVSIFA--KGQILYGKLGPYLRKAIIAD--FDGICSTQFLVLQP 116
                 +    Q    T   F   +  IL          +I+       I  T  + L+P
Sbjct: 62  VDLERCNYLEPQKVEKTWKHFKLNEDDILISCSASTGLVSIVDKKAEGSIAYTGIIRLKP 121

Query: 117 KDVLPELLQGWLLSID--VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKI 174
            +         ++        +IE +  G T+ H     +  I +  PPL EQ  I   +
Sbjct: 122 ANSNICREFIKIIVASELFFTQIELLKTGTTIQHYGPTHLRQIKITFPPLYEQKKIACFL 181

Query: 175 IAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEV 234
            ++   ID  I+ + R IELLKE+K A+++  VTKGLNP   MK SGIEW+G +P HWEV
Sbjct: 182 DSKLEEIDKFISNKQRLIELLKEQKTAIINRAVTKGLNPHAPMKPSGIEWLGDIPAHWEV 241

Query: 235 KP---FFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEI 291
                   +      K    +      ++  +I     +++      S           +
Sbjct: 242 TRAKHISYVFVPQRNKPNLNLNIGFPWITMEDITSPSISKSTFGYLVSEIDAMNAGSKLL 301

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
               +          S+    + II     A  P  I+  YL +L+          A   
Sbjct: 302 PEGSVIASCVGNFGLSSVNTLQVIINQQLQAYIPIKINPYYLRYLIGISKSYFEQIANA- 360

Query: 352 GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
                +       LP+++PP  EQ  I   I+ E   ID  +  IE+ I L+KE R++ I
Sbjct: 361 TTLAYVNQAGFAELPIILPPNDEQLAIVRNIDKELTTIDKAITTIEKEIELIKEYRTTLI 420

Query: 412 AAAVTGQIDLRGES 425
           + AVTG+ID+R  +
Sbjct: 421 SEAVTGKIDVRETA 434


>gi|119896299|ref|YP_931512.1| Type I site-specific deoxyribonuclease [Azoarcus sp. BH72]
 gi|119668712|emb|CAL92625.1| Type I site-specific deoxyribonuclease [Azoarcus sp. BH72]
          Length = 449

 Score =  226 bits (576), Expect = 5e-57,   Method: Composition-based stats.
 Identities = 114/448 (25%), Positives = 179/448 (39%), Gaps = 25/448 (5%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDII-------YIGL 53
           M     Y +YKDSGV  +  IP HW+  P+KR   L     S +  D          +  
Sbjct: 1   MS-LPRYAEYKDSGVALLATIPAHWEPSPLKRVVALVESGVSVNAVDEPAGPDAVGVLKT 59

Query: 54  EDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLG--PYLRKAIIADFDG---ICS 108
             V SG   +        +           G ++  ++     +  A + + +       
Sbjct: 60  SCVYSGNFSHGENKAVVAEELDRVACPVRAGTLIVSRMNTPALVGAAGLVEENADNLFLP 119

Query: 109 TQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT--MSHADWKGIGNIPMPIPPLAE 166
            +   +     +P+    W  S     +++  C G +  M +          MP+PP  E
Sbjct: 120 DRLWQVHFSGAVPKFAHYWTASPSYRAQVQMACAGTSASMQNLSQDEFLRFVMPLPPKDE 179

Query: 167 QVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVG 226
           Q  I   +  ET +ID LI ++ + I LL EK+QA +S+ VT+GLNPD  MKDSG+ W+G
Sbjct: 180 QTAIAAFLDRETAKIDALIAKQEKLIALLAEKRQATISHAVTRGLNPDAPMKDSGVAWLG 239

Query: 227 LVPDHWEVKPFF-----ALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE--- 278
            VP HW V               +R         I  L  G I             +   
Sbjct: 240 EVPAHWSVSALSYLASLETGATPDRGEPSYWNGTIPWLKTGEINWAPICEAEEFITDAGL 299

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
                +I  PG ++         +  +   ++        A  A+               
Sbjct: 300 ENSAAKIAKPGTLLMAMYGQGVTRGRVALLEI--EATYNQACAAINFRSRIIPEFGRYFF 357

Query: 339 SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
                 V  A     + +L    + ++ + VPP+ EQ  +   ++VETA++DVL  + E+
Sbjct: 358 MAAYDHVRDAGNETSQMNLSAGLISKIRLPVPPLDEQQAVVRFLDVETAKLDVLGAESER 417

Query: 399 SIVLLKERRSSFIAAAVTGQIDLRGESQ 426
            I LLKERRS+ IAAAVTGQID+R  ++
Sbjct: 418 GITLLKERRSALIAAAVTGQIDVRNTAE 445


>gi|299068119|emb|CBJ39334.1| putative type I restriction-modification methylase S subunit
           [Ralstonia solanacearum CMR15]
          Length = 445

 Score =  226 bits (575), Expect = 6e-57,   Method: Composition-based stats.
 Identities = 129/437 (29%), Positives = 194/437 (44%), Gaps = 20/437 (4%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT 60
           M HYK YP YKDSGV+W+G +P HW V  +    +    +   S KD   + +  +    
Sbjct: 1   MSHYKPYPAYKDSGVRWLGKVPAHWSVGRLANSFEERRAKV--SDKDFPALSVTKL---- 54

Query: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL 120
           G     +  ++  D     +  KG I           + +AD DG  S    VL PK  +
Sbjct: 55  GVVPQLENVAKTDDGDNRRMVLKGDIAINSRSDRKGASGLADRDGSVSLIITVLTPKPSV 114

Query: 121 P-ELLQGWLLSIDVTQRIEAICEGAT--MSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
             E     + S    +    +  G    +   ++  +  I +  PP+ EQ  I   +  E
Sbjct: 115 WGEYCHHLIRSEIFQEEYFRVGNGLVADLWTTNYSSMRTIFLARPPIEEQKAIASHLDRE 174

Query: 178 TVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPF 237
           T RID L+ ++ RFIELL EK+QAL+++ VTKGL P   MK SG+EW+G VP+HW +K  
Sbjct: 175 TARIDALVEKKTRFIELLGEKRQALITHAVTKGLGPGKPMKGSGVEWLGEVPEHWVIKRL 234

Query: 238 FALVTELNRKNT-----KLIESNILSLSYGNIIQKLETRNMGLKPESYE---TYQIVDPG 289
             +                    +  L   N+       +     E  +      ++  G
Sbjct: 235 KFIARVQTGVAKGKDLADKDTIEVPYLRVANVQDGFLDLDEVATIEIDKRDLERYLLQLG 294

Query: 290 EIVFR-FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF-- 346
           +++     D     R    +  +   I  +   AV+PHG+ S +L     S      F  
Sbjct: 295 DVLMNEGGDFDKLGRGHVWSGEISPCIHQNHVFAVRPHGVSSPWLNAFTSSAAAQFYFMG 354

Query: 347 YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
            +  S    S+   ++  LPV VPP  EQF+I   +     ++D +V K E+SI LL+E 
Sbjct: 355 KSKQSTNLASISSSNLMELPVPVPPEPEQFEILAEVQKNLEKLDNVVRKTERSIELLREH 414

Query: 407 RSSFIAAAVTGQIDLRG 423
           RS+ I AAVTGQIDLR 
Sbjct: 415 RSALITAAVTGQIDLRD 431


>gi|120553175|ref|YP_957526.1| restriction modification system DNA specificity subunit
           [Marinobacter aquaeolei VT8]
 gi|120323024|gb|ABM17339.1| restriction modification system DNA specificity domain
           [Marinobacter aquaeolei VT8]
          Length = 461

 Score =  225 bits (574), Expect = 9e-57,   Method: Composition-based stats.
 Identities = 114/447 (25%), Positives = 193/447 (43%), Gaps = 29/447 (6%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPI-KRFTKLNTGRTSESGKDIIYIGLEDVESG 59
           M  + AYP+YK++ + W+  IP  W+++P   RF +          ++++ +    +   
Sbjct: 1   MS-FPAYPEYKNTEIPWMQRIPSSWQLLPFFSRFFERKESNKGMKSENLLSLSFGRIVRK 59

Query: 60  TGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRK----AIIADFDGICSTQFLVLQ 115
               L        +   T  +   G I++        K    + I +  GI ++ +L + 
Sbjct: 60  DITTLE---GLLPASFETYQVVHPGNIVFRLTDLQNDKRSLRSAIVNEKGIITSAYLAVS 116

Query: 116 PKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKII 175
            KD  P        + D+ +   ++  G   S   +  +  +P+  P + EQ  I   + 
Sbjct: 117 AKDFNPTFSNYLFRAYDLMKVFYSMGGGLRQSM-KYDDMKWLPIVCPSINEQTQIARFLD 175

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVK 235
            ET +ID LI E+ R IELL+EK+QA++S+ VTKGL+PDV MKDSG+EW+G VP HW+  
Sbjct: 176 HETAKIDALIREQERLIELLQEKRQAVISHAVTKGLDPDVPMKDSGVEWLGEVPAHWDRT 235

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGN----IIQKLETRNMGLKPES----------YE 281
                    +  + +        +   +     I+    ++M +  E             
Sbjct: 236 LIKHCCYINDGNHGEEYPKGDDFVDDADIGVPFIRGGNLKDMTVTTEGMLYITAEKNRSM 295

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD 341
               +  G+I+F           + S+          AY+ V+   ID  YL   + S  
Sbjct: 296 RKGRLQVGDILFVNRGEIGKLAVIPSSMNGANLNSQIAYLRVENRIIDPHYLVHYLASDT 355

Query: 342 LCKVFYAMGSG---LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
           +     A   G    +  +   D+  + V VPP  EQ  I+  +  +    +VL  +   
Sbjct: 356 IKAEIKAAQEGSVLTQYPIS--DLAAIHVPVPPKDEQQKISTYLKEQLFSFNVLTSEASN 413

Query: 399 SIVLLKERRSSFIAAAVTGQIDLRGES 425
           SI LL ERRS+ I+AAVTG+ID+R   
Sbjct: 414 SINLLSERRSALISAAVTGKIDVRNWQ 440


>gi|56750493|ref|YP_171194.1| type I restriction-modification [Synechococcus elongatus PCC 6301]
 gi|56685452|dbj|BAD78674.1| type I restriction-modification [Synechococcus elongatus PCC 6301]
          Length = 453

 Score =  225 bits (574), Expect = 9e-57,   Method: Composition-based stats.
 Identities = 101/451 (22%), Positives = 190/451 (42%), Gaps = 26/451 (5%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFT-KLNTGRTSE-----SGKDIIY-IGL 53
           M  +  YP YKD G++W+  +P HW V+ ++R   ++ +G +         + I   +  
Sbjct: 1   MS-FPRYPAYKDCGIEWLEKLPSHWNVLQLRRLIPEIESGVSVNALDHAPDEGIPSVLKT 59

Query: 54  EDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPY-----LRKAIIADFDGICS 108
             V +G+ +   +    ++           G+++  ++           +++        
Sbjct: 60  SCVYTGSFRPEERKEIIQEDIDRAACPVKSGRLIVSRMNTPDLVGAAGLSLVDYDCVFLP 119

Query: 109 TQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT--MSHADWKGIGNIPMPIPPLAE 166
            +   ++  +V P     W  +     +++ +C G +  M +       +  +P+P   E
Sbjct: 120 DRLWQVRISNVYPNFAYYWTQTQIYRDQVKMVCSGTSSSMQNLSQDNFLSFILPVPSDEE 179

Query: 167 QVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVG 226
           Q+ I   +  ET +ID LI E+ R I LL+EK+QA++S+ VTKGLNPD  +KDSGIEW+G
Sbjct: 180 QIAIASFLDRETAKIDALIAEQQRLIALLQEKRQAVISHAVTKGLNPDAPLKDSGIEWLG 239

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILS---LSYGNIIQKLETRNMGLKPESYE-- 281
            VP HW+           +       E  +      S    ++  +  N  ++       
Sbjct: 240 QVPAHWKTGKIKHYFKTSSGGTPNTEEQALYYADSDSGIPWVRTTDIENQEVRSAEVSIT 299

Query: 282 ------TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
                 T   + P + V   +                  I  +    +  +     +   
Sbjct: 300 NQAIQDTACEILPVDTVLVALYGGGGTVGKNGILTFPAAINQALCALLPSYYAVPMFTFR 359

Query: 336 LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
            ++      +  A+ +    ++  E V+     +PP+ EQ  I   I+ +   I  L  +
Sbjct: 360 YIQFLRPFWMERAVSARKAGNISQELVRDTVFALPPLDEQILIVKHIHSQLEEITSLENE 419

Query: 396 IEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
             +S+ LL+ERRS+ I+AAVTGQID+RG ++
Sbjct: 420 STKSLSLLQERRSALISAAVTGQIDVRGLAE 450


>gi|283954324|ref|ZP_06371845.1| hypothetical protein C414_000210006 [Campylobacter jejuni subsp.
           jejuni 414]
 gi|283794123|gb|EFC32871.1| hypothetical protein C414_000210006 [Campylobacter jejuni subsp.
           jejuni 414]
          Length = 411

 Score =  225 bits (573), Expect = 1e-56,   Method: Composition-based stats.
 Identities = 114/426 (26%), Positives = 199/426 (46%), Gaps = 20/426 (4%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT 60
           MK++      KDSG++W+G IP+ W+VVPI+        R +++   ++ + + +     
Sbjct: 1   MKNF------KDSGIEWLGEIPQDWEVVPIRCCFGEFNIRCNDNDYPLLSVTIANGVVYQ 54

Query: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD-FDGICSTQFLVLQPKDV 119
                K  +    D S   I   G I Y K+  +     I     GI S  ++V  P   
Sbjct: 55  NDITDKK-DISNDDKSNYKIVPLGAIAYNKMRMWQGAVGINMLEKGIVSPAYVVAIPNKQ 113

Query: 120 LP-ELLQGWLLSIDVTQRIEAICEGAT--MSHADWKGIGNIPMPIPPLAEQVLIREKIIA 176
           +        L S ++    E    G    M++  ++   NI +P+PPL EQ  I   +  
Sbjct: 114 INISFSYYLLKSRNIIGEYEKNSYGLCSDMNNLRYEDFQNIKIPLPPLKEQEQIVNFLDE 173

Query: 177 ETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKP 236
           +  +I   I ++ + I LLKE+KQAL++  +TKGLN +V  KDSGIEW+G +P+HW++  
Sbjct: 174 KCEQIANFIEKKEKLISLLKEQKQALINETITKGLNKNVNFKDSGIEWLGEIPEHWKILK 233

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFI 296
              + +  N+K+  +       +   NI  K        +    E     + G+I+F  +
Sbjct: 234 LKHIASLRNQKSNNIDFR----IGLENIESKTGKFIPSSEIVFEEDGIGFEKGDILFGKL 289

Query: 297 DLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQ 355
                K           GI  S ++ +K     + ++ +LM S     +  +   G    
Sbjct: 290 RPYLAKV----FLTDRDGICVSEFLVLKIKSESNKFIKFLMLSSLFIDIVDSSTYGTKMP 345

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
              +E +  L + +PP+KEQ  I N ++ +  +ID+L+EK ++ I L+KE +++ I  AV
Sbjct: 346 RANWEFIGNLKIPLPPLKEQEQIANFLDKKCEKIDLLIEKTKKQIKLIKEYKTTLINQAV 405

Query: 416 TGQIDL 421
            G++DL
Sbjct: 406 CGRMDL 411


>gi|288928859|ref|ZP_06422705.1| probable type I restriction-modification system [Prevotella sp.
           oral taxon 317 str. F0108]
 gi|288329843|gb|EFC68428.1| probable type I restriction-modification system [Prevotella sp.
           oral taxon 317 str. F0108]
          Length = 428

 Score =  225 bits (572), Expect = 1e-56,   Method: Composition-based stats.
 Identities = 115/426 (26%), Positives = 204/426 (47%), Gaps = 11/426 (2%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT 60
           M+ +  Y  YKDSGV+W+G IP+HW+V  IK      + +     + I+    +      
Sbjct: 7   MEKF--Y-VYKDSGVKWLGNIPQHWEVRKIKYVFTERSQKGFPK-EPILCSTQKYGVIPQ 62

Query: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL 120
             Y              + +  KG  +   L  +      A + GI S  + +L   D  
Sbjct: 63  HMY-ENRVVVVNKGLEGLKLVRKGDFVIS-LRSFQGGIEYAYYQGIISAAYTILNLNDNC 120

Query: 121 PELLQGWLLSIDVTQRIEAICEGATM--SHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
                 +L+      ++   C        + ++  +    +P+PPLAEQ  I   +  + 
Sbjct: 121 YSNYIKYLMKSFDFIQLLQTCVTGIREGQNINYTLLRKSSLPLPPLAEQRAIVSYLDGKV 180

Query: 179 VRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFF 238
            +IDT + ++ + IELLKE KQA+++  VTKG++   K+K +GI W+G VP HWE     
Sbjct: 181 GQIDTYVAKQTQQIELLKELKQAVIANAVTKGIDNKAKLKQTGISWIGHVPQHWERCRCK 240

Query: 239 ALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDL 298
            ++TE+ +      E  +LSL+   +I +  +   G  P+ + TY++V P ++VF   D+
Sbjct: 241 DVLTEI-KLLVGNGEYALLSLTTNGVIVRDLSEGKGKFPKDFNTYKVVKPNDLVFCLFDV 299

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLK 358
               R++    V   G++T AY   +   +D+++L     + D  K    +  GLR+ + 
Sbjct: 300 DETPRTVG--LVHNHGMLTGAYNVFETKNVDTSFLYHYFIALDNRKALKPLYKGLRKVIP 357

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
                 +P+ +PP+ EQ  I + I  +TA I+ L++  EQ +  +KE +   I+ AVTG+
Sbjct: 358 LPAFMSMPLYIPPLSEQRAIVSYIEAKTASINKLIDAYEQQVERVKEYKQRLISDAVTGK 417

Query: 419 IDLRGE 424
           +++  E
Sbjct: 418 MNVTDE 423


>gi|331650479|ref|ZP_08351551.1| putative type I restriction-modification system, S subunit
           [Escherichia coli M605]
 gi|331040873|gb|EGI13031.1| putative type I restriction-modification system, S subunit
           [Escherichia coli M605]
          Length = 435

 Score =  224 bits (571), Expect = 2e-56,   Method: Composition-based stats.
 Identities = 107/434 (24%), Positives = 182/434 (41%), Gaps = 25/434 (5%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESG-------KDIIYIGL 53
           +  Y+AYP+Y+DSG++W   +P +WK   ++  + +  G T             + +I  
Sbjct: 4   LNKYQAYPEYRDSGMEWCNELPLNWKKTKLRWLSNIFAGGTPSKNVIDYWENGTVPWISS 63

Query: 54  EDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGP--YLRKAIIADFDGICSTQF 111
             V  G         ++   + S+     KG ++    G             +  C+   
Sbjct: 64  GAVNQGYIVEPSTYISNAALENSSAKWIPKGALVVALAGQGKTKGMVAQLGINTTCNQSM 123

Query: 112 LVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIR 171
             +       +    +   I   Q I  +  G      + + +G+I  P P   E   I 
Sbjct: 124 AAIVLYKK-NQSRYIFWWLISNYQNIRNMAGGDLRDGLNLELLGDIQCPKPRNDESSKIA 182

Query: 172 EKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDH 231
             +  ET +ID LI ++ + IELLKEK+QA++S+ VTKGLNPDV MKDSG+EW+G VP H
Sbjct: 183 LFLDHETAKIDNLIEKQQQLIELLKEKRQAVISHAVTKGLNPDVPMKDSGVEWLGEVPKH 242

Query: 232 WEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEI 291
           W +          +     +  ++I       +      R           Y ++     
Sbjct: 243 WHICKLKWFANLKSGD--FITSNSIEPEGNYPVYGGNGLRGYYSYFTHNGEYVLIGRQGA 300

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
           +   I+      ++      E  ++             + +L  L+R  +L +      S
Sbjct: 301 LCGNIN-----YAIGKFWASEHAVV-----VTPNERAVTIWLGELLRIMNLNQY---SVS 347

Query: 352 GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
             +  L  E +  L + +PP +EQ +I   I+   +    L+E    +I LLKERR++ I
Sbjct: 348 AAQPGLAVERITDLYIPIPPYQEQVNIGTYISKYISLDKKLIEHSTDNIELLKERRTALI 407

Query: 412 AAAVTGQIDLRGES 425
           +AAVTG+IDLR  +
Sbjct: 408 SAAVTGKIDLRNWT 421


>gi|189425259|ref|YP_001952436.1| type I restriction-modification system specificity subunit
           [Geobacter lovleyi SZ]
 gi|189421518|gb|ACD95916.1| type I restriction-modification system specificity subunit
           [Geobacter lovleyi SZ]
          Length = 461

 Score =  224 bits (571), Expect = 2e-56,   Method: Composition-based stats.
 Identities = 104/432 (24%), Positives = 193/432 (44%), Gaps = 18/432 (4%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGR-TSESGKDIIYIGLEDVESG 59
           +   K YP+Y++S + W+G +P HW   P     +    + T    K ++ +    +   
Sbjct: 2   IAELKPYPEYRESELAWLGDVPSHWHSGPGFSAFREKKVKNTGLQEKTVLSLSYGRI--- 58

Query: 60  TGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGP----YLRKAIIADFDGICSTQFLVLQ 115
             K   K          T  I   G I+             +  I    GI ++ ++ ++
Sbjct: 59  IVKPEDKLHGLVPESFETYQIVDPGDIIIRSTDLQNDKTSLRVGIVKNRGIITSAYMCMK 118

Query: 116 PKDVL-PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKI 174
             + L PE     L ++D+T+ +  +  G    + D+     +P+ IPP+ EQ  I   +
Sbjct: 119 VTETLMPEYGYQLLHTLDLTKILYGLGSGL-RQNLDYSDFKRLPLSIPPIDEQTSIVRFL 177

Query: 175 IAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEV 234
               +RI+  I  + + I LL E+KQ ++   VT+GL+P+V++K SGI W+G +P HWE 
Sbjct: 178 NHANLRIEKAIRAKRKVIALLNEQKQVIIHRAVTRGLDPNVQLKPSGIPWLGDIPGHWED 237

Query: 235 KPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFR 294
                +  E++ ++    E+++       +I   +     L  ESY   ++   G++V  
Sbjct: 238 LRSKYVFHEVDERSVTGTETHLSMSQKYGLIPNSQIEERRLVSESYVGAKLCRSGDLVLN 297

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKP-HGIDSTYLAWLMRSYDLCKVFYAMGSGL 353
            +       +L       +G+I+  Y   +P   + + Y   + R+            G+
Sbjct: 298 RLKAHLGVFALAP----GQGLISPDYTVFRPARPMVARYFEAMYRTPACRVELRKRAKGI 353

Query: 354 RQ---SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
            Q    L  +D   + V VPP+ EQ++I   ++ E   I+ ++   E+ I LL+E R+  
Sbjct: 354 VQGFWRLYTDDFYDIRVPVPPLDEQYEIMQYLDKELLVINTVIASTEREIDLLREYRTRL 413

Query: 411 IAAAVTGQIDLR 422
           IA  VTG++D+R
Sbjct: 414 IADVVTGKLDVR 425


>gi|81299873|ref|YP_400081.1| type I restriction-modification [Synechococcus elongatus PCC 7942]
 gi|81168754|gb|ABB57094.1| type I restriction-modification [Synechococcus elongatus PCC 7942]
          Length = 453

 Score =  224 bits (571), Expect = 2e-56,   Method: Composition-based stats.
 Identities = 101/451 (22%), Positives = 190/451 (42%), Gaps = 26/451 (5%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFT-KLNTGRTSE-----SGKDIIY-IGL 53
           M  +  YP YKD G++W+  +P HW V+ ++R   ++ +G +         + I   +  
Sbjct: 1   MS-FPRYPAYKDCGIEWLEKLPSHWNVLQLRRLIPEIESGVSVNALDHAPDEGIPSVLKT 59

Query: 54  EDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPY-----LRKAIIADFDGICS 108
             V +G+ +   +    ++           G+++  ++           +++        
Sbjct: 60  SCVYTGSFRPEERKEIIQEDIDRAACPVKSGRLIVSRMNTPDLVGAAGLSLVDYDYVFLP 119

Query: 109 TQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT--MSHADWKGIGNIPMPIPPLAE 166
            +   ++  +V P     W  +     +++ +C G +  M +       +  +P+P   E
Sbjct: 120 DRLWQVRISNVYPNFAYYWTQTQIYRDQVKMVCSGTSSSMQNLSQDNFLSFILPVPSDEE 179

Query: 167 QVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVG 226
           Q+ I   +  ET +ID LI E+ R I LL+EK+QA++S+ VTKGLNPD  +KDSGIEW+G
Sbjct: 180 QIAIASFLDRETAKIDALIAEQQRLIALLQEKRQAVISHAVTKGLNPDAPLKDSGIEWLG 239

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILS---LSYGNIIQKLETRNMGLKPESYE-- 281
            VP HW+           +       E  +      S    ++  +  N  ++       
Sbjct: 240 QVPAHWKTGKIKHYFKTSSGGTPNTEEQALYYADSDSGIPWVRTTDIENQEVRSAEVSIT 299

Query: 282 ------TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
                 T   + P + V   +                  I  +    +  +     +   
Sbjct: 300 NQAIQDTACEILPVDTVLVALYGGGGTVGKNGILTFPAAINQALCALLPSYYAVPMFTFR 359

Query: 336 LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
            ++      +  A+ +    ++  E V+     +PP+ EQ  I   I+ +   I  L  +
Sbjct: 360 YIQFLRPFWMERAVSARKAGNISQELVRDTVFALPPLDEQILIVKHIHSQLEEITSLENE 419

Query: 396 IEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
             +S+ LL+ERRS+ I+AAVTGQID+RG ++
Sbjct: 420 STKSLSLLQERRSALISAAVTGQIDVRGLAE 450


>gi|88811656|ref|ZP_01126910.1| type I restriction-modification system specificity subunit
           [Nitrococcus mobilis Nb-231]
 gi|88791047|gb|EAR22160.1| type I restriction-modification system specificity subunit
           [Nitrococcus mobilis Nb-231]
          Length = 710

 Score =  224 bits (570), Expect = 2e-56,   Method: Composition-based stats.
 Identities = 105/433 (24%), Positives = 185/433 (42%), Gaps = 16/433 (3%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFT-KLNTGRTSESGKDIIYIGLEDVESGTGKY 63
           K YP+YK +   W+G IP+HW V+P +    ++      +     + I    V       
Sbjct: 251 KPYPEYKPTAQAWLGEIPQHWSVLPNRALFNEVKDRGHPDEEMLSVTITKGIVRQKALLE 310

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL--P 121
                +S   D S   +     I Y K+  +      +   GI S  ++V++ ++    P
Sbjct: 311 GSSKKDSSNLDKSAYKLVQPRDIAYNKMRAWQGAIGASALRGIISPAYVVMRLRNGDDLP 370

Query: 122 ELLQGWLLSIDVTQRIEAICEGAT--MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
             +     +    +  E    G T  M     +    I  P PP AEQ  I   +     
Sbjct: 371 SYIHYLYRTPQFAKEAERWSYGITSDMWSLRPEHFKMIYTPEPPTAEQEAIVRFLDWANG 430

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFA 239
           R++     + + I LL E+KQA++   VT+GL+  V +K SGI W+G +P HWEVK    
Sbjct: 431 RLERATRAKRKVIALLNEQKQAIIHQAVTRGLDSSVPLKPSGIPWLGHIPRHWEVKRIKY 490

Query: 240 LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQ 299
           L+ E++ ++T   E  +    +  ++   E  +   +  +   ++IV PG+ V   +   
Sbjct: 491 LLREVDERSTTGSEPLLSMRMHHGLVLFAEHFSRPPQAATLVGFKIVHPGQFVVNRM--- 547

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHGI-DSTYLAWLMRSYDLCKVFYA------MGSG 352
               +         G+++  Y    P G  +  +L  L RS  +   F A       G+ 
Sbjct: 548 -QAGNGVIFASTLTGLVSPDYAVFDPIGDANVDFLGELFRSRKVRAKFRAESKGLGTGTS 606

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
               L  + +  + V +PP  EQ DI   +  E + ++  + ++E  I LL+E R+  +A
Sbjct: 607 GFLRLYNDRLGAIHVALPPRAEQGDIVAGLTRELSEVNTTISRLESEIELLREYRTRLVA 666

Query: 413 AAVTGQIDLRGES 425
             VTG++D+R  +
Sbjct: 667 DVVTGKLDVREAA 679



 Score =  100 bits (249), Expect = 4e-19,   Method: Composition-based stats.
 Identities = 52/214 (24%), Positives = 88/214 (41%), Gaps = 12/214 (5%)

Query: 211 LNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLET 270
           L P  + K +   W+G +P HW V P  AL  E+  +     E   ++++ G + QK   
Sbjct: 250 LKPYPEYKPTAQAWLGEIPQHWSVLPNRALFNEVKDRGHPDEEMLSVTITKGIVRQKALL 309

Query: 271 RNMGLKPE---SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
                K         Y++V P +I +  +          +     RGII+ AY+ ++   
Sbjct: 310 EGSSKKDSSNLDKSAYKLVQPRDIAYNKMRAWQGAIGASAL----RGIISPAYVVMRLRN 365

Query: 328 ID--STYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
            D   +Y+ +L R+    K       G+     SL+ E  K +    PP  EQ  I   +
Sbjct: 366 GDDLPSYIHYLYRTPQFAKEAERWSYGITSDMWSLRPEHFKMIYTPEPPTAEQEAIVRFL 425

Query: 383 NVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           +    R++       + I LL E++ + I  AVT
Sbjct: 426 DWANGRLERATRAKRKVIALLNEQKQAIIHQAVT 459


>gi|225076790|ref|ZP_03719989.1| hypothetical protein NEIFLAOT_01841 [Neisseria flavescens
           NRL30031/H210]
 gi|224951888|gb|EEG33097.1| hypothetical protein NEIFLAOT_01841 [Neisseria flavescens
           NRL30031/H210]
          Length = 430

 Score =  223 bits (569), Expect = 3e-56,   Method: Composition-based stats.
 Identities = 102/432 (23%), Positives = 171/432 (39%), Gaps = 18/432 (4%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYL 64
           + Y  YKDSGV+W+G IP  W++       + N  R ++  K+   + L   +    K  
Sbjct: 2   RRYESYKDSGVEWLGKIPSQWELTIGMNVFRENK-RDNKGMKEKTVLSLSYGQI-IIKPE 59

Query: 65  PKDGNSRQSDTSTVSIFAKGQILYGKLGP----YLRKAIIADFDGICSTQFLVLQPKDVL 120
            K          T  I     I+             +  +A   GI ++ +L L+  +  
Sbjct: 60  EKLVGLVPESFETYQIVEPNDIIIRCTDLQNDQTSLRTGLAKDKGIITSAYLNLKVINNH 119

Query: 121 PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
                 + L      ++          +  +     +P+   PL+EQ  I + +  +T +
Sbjct: 120 SAKFLHYYLHTLDITKVLYKFGSGLRQNLSFLDFKRLPIIDIPLSEQQKIAQFLDDKTAK 179

Query: 181 IDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFAL 240
           ID  +    + I LLKE KQ L+   VT+GLNPDV +KDSG+EW+G VP+HW VK    +
Sbjct: 180 IDQAVDLAEKQIALLKEHKQILIQNAVTRGLNPDVPLKDSGVEWIGQVPEHWSVKKIKHV 239

Query: 241 ------VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYE----TYQIVDPGE 290
                         +  I+  I  L   NI       N   +   +         V  G+
Sbjct: 240 TSKIGSGITPLGGGSNYIDGGIPLLRSQNIHFDRIDLNDVARISEFTHNSMKNSKVRKGD 299

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG 350
           ++          R        E  +     +      I++ +L  L+ S    K  +   
Sbjct: 300 VLLNITGGSL-GRCFYVDSNEEMNVNQHVCIIRPNKKINTIFLNMLLASEVGQKQIWFFQ 358

Query: 351 -SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
             G R+ L F+ +K   + +P +KEQ  I   ++ + A+ID  +      I  LKE +S 
Sbjct: 359 QGGGREGLNFQAIKNFYLPLPDLKEQQKIAIYLDKQVAKIDQAIALKTAHIEKLKEYKSV 418

Query: 410 FIAAAVTGQIDL 421
            I   VTG++ +
Sbjct: 419 LINDVVTGKVRV 430


>gi|52549656|gb|AAU83505.1| restriction endonuclease S subunits [uncultured archaeon
           GZfos29E12]
          Length = 438

 Score =  223 bits (569), Expect = 3e-56,   Method: Composition-based stats.
 Identities = 114/436 (26%), Positives = 190/436 (43%), Gaps = 17/436 (3%)

Query: 2   KHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNT-----GRTSE--SGKDIIYIGLE 54
              K YP+YKDS ++WIG IP+ W+V  IK  + +       G TSE  S +    +   
Sbjct: 1   MKLKPYPKYKDSEIEWIGEIPEGWEVNKIKNTSYVKGRIGWHGLTSEEYSDEGAYLVTGT 60

Query: 55  DVESGTGKYLPKDGNSRQ-SDTSTVSIFAKGQILYGKLGPYLRKAIIA--DFDGICSTQF 111
           D + G  ++                    +  +L  K G   + A+I         ++  
Sbjct: 61  DFKDGVIEWEDCHHVGWDRYKEDPYIHLKEDDLLITKDGTIGKVALIKFLPNKATLNSGI 120

Query: 112 LVLQP--KDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVL 169
            +++P  K   P+ +   L S    +  + I  GAT+SH   +       PIP   EQV 
Sbjct: 121 FLVRPLNKKYFPKFMYWMLNSTVFERFFDYIKTGATISHLYQETFERFFFPIPLKQEQVA 180

Query: 170 IREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVP 229
           I   +  +T +ID LI +  R IELLKEK+ AL+ + VTKGL+P+VKMKD GI W+G +P
Sbjct: 181 IASFLDKKTAKIDALIEKDKRLIELLKEKRTALIDHAVTKGLDPNVKMKDFGIVWIGKIP 240

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG 289
           +  ++ PF  +         +  E   LS         +  + +    +  + Y    P 
Sbjct: 241 EDAKIMPFRRVCYVNQG--LQFPEDKRLSEPDEKSKIYITIKYIHADEDGVKEYIPNPPR 298

Query: 290 EIVFRFIDLQNDKRSLR--SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY 347
            ++ +  D+   +           E     + +       ID  YL + ++   + KV  
Sbjct: 299 GVICKKEDVLLARTGATGEVITNQEGVFHNNFFKVNYNSKIDRDYLVYYLKMDSIKKVLL 358

Query: 348 AMGS-GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
                     L  +     P ++  I++Q  I   ++ +TA+ID  ++ IE+ I LL+E 
Sbjct: 359 LKAGVTTIPDLNHDAFLSTPFILYSIEKQKQIAEYLDKKTAKIDKNIKLIEKKIKLLEEY 418

Query: 407 RSSFIAAAVTGQIDLR 422
           + S I   VTG++D+R
Sbjct: 419 KKSLINHVVTGKVDVR 434


>gi|15839311|ref|NP_299999.1| type I restriction-modification system specificity determinant
           [Xylella fastidiosa 9a5c]
 gi|9187842|gb|AAF85758.1|AE004078_10 type I restriction-modification system specificity determinant
           [Xylella fastidiosa 9a5c]
          Length = 468

 Score =  223 bits (569), Expect = 3e-56,   Method: Composition-based stats.
 Identities = 90/431 (20%), Positives = 168/431 (38%), Gaps = 14/431 (3%)

Query: 7   YPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPK 66
           YP Y+   ++W+ A+P+HW     K F +    R+    +++  + +  +   T +    
Sbjct: 8   YPNYRQPKMRWLPAVPEHWNEQRAKTFFREVDERSKTGQEEL--LSVSHLTGVTSRSQKN 65

Query: 67  DGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQG 126
               + +      +   G I+   L  ++     +   GI S  + V +P          
Sbjct: 66  VTMFKAASYVGSKLCRPGDIVINTLWAWMAALGASRHVGIVSPAYGVYRPHHADSFNPAY 125

Query: 127 WLLSIDVTQRIEAICEGAT-----MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
               +     +      +T               +I +  PP  EQ  I   +  +   I
Sbjct: 126 LDYLLRTRAYVAEYIGRSTGIRSSRLRLYPNQFLDIALIQPPRPEQDQIVAYLRVQDAHI 185

Query: 182 DTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALV 241
              I  +   I+LL E+K+ ++ + VT+GL+  V +K SGIEW+G VP HW+VKP    V
Sbjct: 186 ARFIKVKRDLIKLLTEQKRRIIDHAVTRGLDASVALKPSGIEWLGDVPVHWDVKPLKRWV 245

Query: 242 TELNR----KNTKLIESNILSLSYGNIIQ-KLETRNMGLKPESYETYQIVDPGEIVFRFI 296
                    K     E   + +      +   E   +  +       +++  G+ +   +
Sbjct: 246 RLNASTLGEKTDPDFEFRYVDIGSVQTGRLAKELERIRFEVAPSRARRVLRRGDTIISTV 305

Query: 297 DLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-Q 355
                     S +  +    T   +    +  +  YL ++++S        A   G+   
Sbjct: 306 RTYLKAIWYVSEEADDLIASTGFAVLTPGNSAEPEYLGYVIQSSAFVNRVAANSIGIAYP 365

Query: 356 SLKFEDVKRLPVLVPP-IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAA 414
           ++    + R PV +PP + EQ  I   I  E+A +D  + + E+ I L++E R   I   
Sbjct: 366 AIAETVLGRFPVALPPTVDEQQAIVAHIKTESAPLDDAITRTEEEITLIREYRDRLITDV 425

Query: 415 VTGQIDLRGES 425
           VTGQ+D+RG  
Sbjct: 426 VTGQVDVRGWQ 436


>gi|300825349|ref|ZP_07105428.1| conserved hypothetical protein [Escherichia coli MS 119-7]
 gi|300522184|gb|EFK43253.1| conserved hypothetical protein [Escherichia coli MS 119-7]
          Length = 441

 Score =  223 bits (569), Expect = 3e-56,   Method: Composition-based stats.
 Identities = 88/435 (20%), Positives = 180/435 (41%), Gaps = 12/435 (2%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT 60
           +     Y  YKDSGV+W+G IP  W ++  K   +L   +  +   +   + L  +    
Sbjct: 4   ISEMPKYEVYKDSGVEWLGDIPASWSLLANKHIFRLKKKQVGKRSSEYDLLSLT-LRGVI 62

Query: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLG--PYLRKAIIADFDGICSTQFLVLQPKD 118
            + +        ++  T      G  ++         R   ++ F+G+ +  + V +  D
Sbjct: 63  KRDMENPEGKFPAEFDTYQEVQCGDFIFCLFDVEETPRTVGLSPFNGMITGAYTVFELND 122

Query: 119 VLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
                   +       +++         +        +    +PP  +Q  I   +  + 
Sbjct: 123 NFDNRFLYYFYMNLDAKKMLKPLYRGLRNTIPKDSFLSFKTFVPPHEQQTRIANFLDKKI 182

Query: 179 VRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFF 238
             ID  I+ + + I LLKE KQ ++   VT+GL+P+V MKDSG++W+G +P+HWEV P  
Sbjct: 183 ALIDEAISIKEKQINLLKEHKQIIIQQAVTQGLDPNVPMKDSGVDWIGDIPEHWEVVPLK 242

Query: 239 A--LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKP--ESYETYQIVDPGEIVFR 294
              +++   + + +  +  +  L+   +          L P  +  + + + + G+++  
Sbjct: 243 RLAVLSPSVKVSNRKSKELVTFLAMEKVSTDGFIDQDTLMPICDVSQGFTVFNRGDVIVA 302

Query: 295 FIDLQ--NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM-RSYDLCK--VFYAM 349
            I     N K +  +    E G  ++ +  ++          +L+  S            
Sbjct: 303 KITPCFENGKSAWLNNLQTEFGYGSTEFHVLRCGQRIIGSFLYLIVSSPLFLNAGEAMMT 362

Query: 350 GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
           GS  ++ +    ++  P  +P + EQ  I + +    ++IDV+V      I  LKE +++
Sbjct: 363 GSAGQKRVPSSFIQNFPTAIPGVAEQEKIVSKVKELFSQIDVVVASTVNQIEKLKEYKTT 422

Query: 410 FIAAAVTGQIDLRGE 424
            I +AVTG+I +  E
Sbjct: 423 LINSAVTGKIKITPE 437


>gi|126664066|ref|ZP_01735060.1| type I restriction-modification system, S subunit [Flavobacteria
           bacterium BAL38]
 gi|126624015|gb|EAZ94709.1| type I restriction-modification system, S subunit [Flavobacteria
           bacterium BAL38]
          Length = 450

 Score =  223 bits (567), Expect = 5e-56,   Method: Composition-based stats.
 Identities = 103/444 (23%), Positives = 178/444 (40%), Gaps = 23/444 (5%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVE 57
           K+YP+YK S + W   IP++W    +K       G T  +         DI ++    ++
Sbjct: 2   KSYPKYKPSKIVWYPEIPENWDYCKVKHIANTYAGGTPSTVVDSFWHNGDIPWLPSGKLQ 61

Query: 58  SGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPK 117
           +       K   +     S+        +L    G          F    +   + +   
Sbjct: 62  NCEIISAEKFITNEGLIGSSTKWIKPNTVLVALTGATCANIGYLTFQACANQSVIAVDEN 121

Query: 118 DVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
                    + + +++  +I     G   +  +   + N+ +  P L EQ+ I + +  +
Sbjct: 122 PEKANSRFLYYMFLNMRSQILTHQTGGAQAGINDSDVKNLYLLNPSLEEQIKIADYLDYK 181

Query: 178 TVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPF 237
           T  ID  I ++ R IELLKEK+QA+++  VTKGLNP+  MKDSG+EW+G +P++WEVK  
Sbjct: 182 TNLIDATIEKKKRLIELLKEKRQAVINEAVTKGLNPNAPMKDSGLEWLGEIPENWEVKKV 241

Query: 238 FALVTELNR----------KNTKLIESNILSLSYGNIIQKLETRNMGLKP----ESYETY 283
             L++  N           K   L ++ I     GN+I+   T           E     
Sbjct: 242 KYLLSSENGIKIGPFGSALKLDTLTDNGIKIYGQGNVIKDDFTLGHRYIDPERFEKDFKQ 301

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD-- 341
             +  G+I+   +      +   S+            +       D    + L+   D  
Sbjct: 302 YEILDGDILITMMGTTGKSKVFNSSYEKGILDSHLLRLRFNEDLFDGRLFSILLEQSDYV 361

Query: 342 LCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
             ++       +   L    VK L ++ P ++ Q +I N I+     ID++  KI   I 
Sbjct: 362 FQQLALNSVGSIMAGLNSSIVKELIIITPKLEIQKEILNYIDENCKIIDIISSKILSQIE 421

Query: 402 LLKERRSSFIAAAVTGQIDLRGES 425
            L+  R S I+ AVTG+ID+R   
Sbjct: 422 KLQTYRQSLISEAVTGKIDVREWQ 445


>gi|309776566|ref|ZP_07671546.1| type I restriction-modification system specificity determinant
           [Erysipelotrichaceae bacterium 3_1_53]
 gi|308915667|gb|EFP61427.1| type I restriction-modification system specificity determinant
           [Erysipelotrichaceae bacterium 3_1_53]
          Length = 457

 Score =  223 bits (567), Expect = 6e-56,   Method: Composition-based stats.
 Identities = 101/434 (23%), Positives = 180/434 (41%), Gaps = 19/434 (4%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFT-KLNTGRTSESGKD------IIYIGLEDVE 57
           K Y  YK   ++W   IP  W VVP+KR    + +G T +S  +      + +I   D+ 
Sbjct: 2   KTYSDYKKCKIKWCPTIPSSWDVVPLKRIFSNIGSGATPKSNNNNYYGGNVSWIQSGDLH 61

Query: 58  SGTGKYLPKDGNSRQS-DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP 116
           +       K        D S + I+    I     G  +    I+  D   +     +  
Sbjct: 62  NHFLSSTKKRITDSALRDVSALKIYKTPFISIAMYGASIGNLSISKIDSCTNQACCNMSG 121

Query: 117 KDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIA 176
                E    + L       + ++  G T  +     I N+ +P+P + EQ  I   +  
Sbjct: 122 SAGNIE--YFYYLLSSCKDYMISLSAGGTQPNISQLIIKNLILPLPSVNEQDQIVRFLDW 179

Query: 177 ETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKP 236
           +   I+ LI  + + I  ++E K+ +++  VT GLN +V MK SG+EW+G +P+HW++  
Sbjct: 180 KVSEINKLINVKEKEIVQIQELKKTVINDAVTHGLNRNVPMKYSGVEWLGDIPEHWKIIK 239

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNIIQKLETR--NMGLKPESYETYQIVDPGEIVFR 294
              ++   + KN   +    +    G I++ ++ +  N    P+    Y++V  G+    
Sbjct: 240 LRKILHPFSEKNHPELPLLSVVREKGVIVRDVDDKESNHNFIPDDLSGYKMVKKGQFAMN 299

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL- 353
            +        +        GI++ AY        +  Y  + +RS      F     G+ 
Sbjct: 300 KMKAWQGSYGVSDY----TGIVSPAYFIFDVDFENLEYFHYAIRSKVYVNFFAQASDGIR 355

Query: 354 --RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
             +  L    +K +P +VPP +EQ +I N I     R    +  +E  I  L E ++  I
Sbjct: 356 VGQWDLSMNKMKEIPFIVPPEEEQKEIVNYIPKALERYTNAINTLESQIEALHELKNKLI 415

Query: 412 AAAVTGQIDLRGES 425
           + AVTG+ID+R   
Sbjct: 416 SDAVTGKIDVRNAE 429


>gi|54308077|ref|YP_129097.1| type I restriction-modification system specificity determinant
           [Photobacterium profundum SS9]
 gi|46912503|emb|CAG19295.1| hypothetical type I restriction-modification system specificity
           determinant [Photobacterium profundum SS9]
          Length = 437

 Score =  222 bits (565), Expect = 9e-56,   Method: Composition-based stats.
 Identities = 92/434 (21%), Positives = 178/434 (41%), Gaps = 22/434 (5%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYL 64
             Y  Y +SGV+WIG IP+HW +   K        R+    +++  + +  +   T +  
Sbjct: 8   PKYEAYNESGVEWIGNIPEHWNITKAKYLFNEVDERSVTGHEEL--LSVSHITGVTPRSE 65

Query: 65  PKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELL 124
                    D S         I++  +  ++    +++  GI S  + V + K       
Sbjct: 66  KNVSMFMAEDYSGSKTCQADDIVFNTMWAWMGALGVSERSGIVSPSYGVFRQKFTNTFNA 125

Query: 125 QGWLLSIDVTQRIEAICE-----GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
           +     +   + IE   +      ++          ++ M  P + EQ  I + +  +T 
Sbjct: 126 KYLEYLLKTPKYIEHYNKVSTGLHSSRLRFYGHMFFDMKMGYPHIDEQNGIIKFLDNKTN 185

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFA 239
           +ID     + + I LLKE+KQ ++   VT+GLNPDV M+DSG++W+G +PDHW  +P   
Sbjct: 186 KIDEAAAIKEKQISLLKERKQIIIQQAVTRGLNPDVPMRDSGVDWIGEIPDHWCSEPIKY 245

Query: 240 L---VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKP------ESYETYQIVDPGE 290
               + +   K    ++     +   + +++ +      K       + + +  +  PG+
Sbjct: 246 SLKGIIDCEHKTAPFVDKKEFFVVRTSNVKQGKLVIEDAKYTNEYGYKEWTSRGVPFPGD 305

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI--DSTYLAWLMRSYDLCKVF-Y 347
           I+        +   +       +  +    + +K         +   L+ S  +     +
Sbjct: 306 ILLTREAPAGEACLVP---DDRKLCLGQRMVWLKVDRTRLLPEFALSLIYSSVVRTYIDF 362

Query: 348 AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
                        D+K +PV++PPI EQ  +   I   + +ID  +E  +Q I  LKE +
Sbjct: 363 LSAGSTVLHFNMADIKNIPVILPPINEQAILVTHIKKHSDKIDKAIELEQQQISKLKEYK 422

Query: 408 SSFIAAAVTGQIDL 421
           S  I +AVTG+I +
Sbjct: 423 SILINSAVTGKIKV 436


>gi|38505781|ref|NP_942400.1| type I restriction-modification system S subunit [Synechocystis sp.
           PCC 6803]
 gi|38423805|dbj|BAD02014.1| type I restriction-modification system S subunit [Synechocystis sp.
           PCC 6803]
          Length = 464

 Score =  222 bits (565), Expect = 9e-56,   Method: Composition-based stats.
 Identities = 96/438 (21%), Positives = 172/438 (39%), Gaps = 21/438 (4%)

Query: 2   KHYKAYPQYKDSGVQWIGAIPKHWKVVP-IKRFTKLNTGRTSESGKDIIYIGLEDVESGT 60
              K YP+YKDSGV W+G IP HW + P     ++     T      ++ +    +    
Sbjct: 1   MKLKPYPEYKDSGVSWLGQIPAHWDIKPGFAFLSERKEKNTGMKESTVLSLSYGQIVV-- 58

Query: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLR------KAIIADFDGICSTQFLVL 114
            K   K          T  I   G I+    G  L+      +       GI ++ +L L
Sbjct: 59  -KPPEKLHGLVPESFETYQIAEPGNIII--RGTDLQNDKVSLRVGKVRNRGIITSAYLCL 115

Query: 115 QPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKI 174
           + K+         LL      +I          +  +     +P+  PP +EQ  I + +
Sbjct: 116 ETKEKFNPDYAHLLLHGYDLMKIYYGMGSGLRQNLSFSDFKRLPLLAPPESEQSKINKYL 175

Query: 175 IAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEV 234
            +  V+I+  I  + R IELLKE+KQ +++  VT+GL+P+VK+K SG++W+G +P++W  
Sbjct: 176 QSIQVQINKFIRNKRRLIELLKEQKQNIINQAVTRGLDPNVKLKPSGVKWIGDIPEYWSF 235

Query: 235 KPFFALVTELNR---KNTKLIESNILSLSYGNIIQKLETRNMG-----LKPESYETYQIV 286
                +         K+       I  +  G++                   ++ +   +
Sbjct: 236 LKLKRIACVKTGYAFKSDHYKSVGIPLIRIGDLKHSGLVDIKQAVKLQESDLTHFSCFKI 295

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF 346
             G+++         K +    Q                      YL +++ S    K  
Sbjct: 296 QYGDLLMAMTGATIGKVAKYQHQTEALLNQRVCSFRSFESKCFQDYLLFILSSEVYLKQV 355

Query: 347 YAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
                 G + ++    +    + VPPI EQ  I + +  +T   D  V + E+ I L++E
Sbjct: 356 TIFCYGGAQPNISDSTLMSFKIPVPPISEQQAILSYVQEQTKTTDSAVSRAEREIELIQE 415

Query: 406 RRSSFIAAAVTGQIDLRG 423
             +  ++  VTGQ+D+R 
Sbjct: 416 YYTRLMSDVVTGQVDVRD 433


>gi|325297666|ref|YP_004257583.1| restriction modification system DNA specificity domain [Bacteroides
           salanitronis DSM 18170]
 gi|324317219|gb|ADY35110.1| restriction modification system DNA specificity domain [Bacteroides
           salanitronis DSM 18170]
          Length = 429

 Score =  222 bits (565), Expect = 9e-56,   Method: Composition-based stats.
 Identities = 100/431 (23%), Positives = 177/431 (41%), Gaps = 21/431 (4%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLP 65
            Y +YKDSGVQW+G IP HW+V  +         + S+   D + +         G Y  
Sbjct: 4   RYSEYKDSGVQWLGKIPSHWEVKRLASCFTERKVKVSDKEFDPLSVT------KNGIYPQ 57

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP-KDVLPELL 124
            +  ++ +D     +   G  +          + +A  DG  S   +VL+P K++ P+  
Sbjct: 58  LENVAKTNDGDNRKLVLSGDFVINSRSDRKGSSGVAKQDGSVSLINIVLKPRKNIYPDFC 117

Query: 125 QGWLLSIDVTQRIEAICEGAT--MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
              L      +       G    +    +  +  I + +P L EQ  I   +   T +ID
Sbjct: 118 NYLLKCYSFIEEYYRNGRGIVADLWTTRYDEMKTIKISVPLLNEQKAIVRYLNKVTSKID 177

Query: 183 TLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVT 242
             I ++ + I+LL E+KQ +++  VTKGLNPDV MK+SG+EW+G +P HW          
Sbjct: 178 EAIAQQQKMIDLLNERKQIIINNAVTKGLNPDVPMKNSGVEWIGKIPKHWTTIRLGYCAW 237

Query: 243 ELNR------KNTKLIESNILSLSYGNIIQKLETRN----MGLKPESYETYQIVDPGEIV 292
              R      K+ + +++    LS  NI+      N    +            +  G+I+
Sbjct: 238 IRARLGWKGLKSDEYVDNGYPFLSAFNIVNNKLDWNKLNYINKFRYEESPEIKLRIGDIL 297

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAY-MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
                    K +   +  +       +         +   +L + + S    K    + +
Sbjct: 298 LVKDGAGIGKCARVDSLPLGEATANGSLAFITANERVYYKFLHYYIISNSFNKYKDLLIT 357

Query: 352 G-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
           G     L   ++K + + +PP+ EQ+ I   ++     ID ++E   Q I  L+ER+   
Sbjct: 358 GMGVPHLTQGEIKNMMLPIPPLNEQYIIVQRLDKNINVIDNILEHYLQQITFLQERKRII 417

Query: 411 IAAAVTGQIDL 421
           I   VTG++ +
Sbjct: 418 INDVVTGKVKV 428


>gi|332666806|ref|YP_004449594.1| restriction modification system DNA specificity domain-containing
           protein [Haliscomenobacter hydrossis DSM 1100]
 gi|332335620|gb|AEE52721.1| restriction modification system DNA specificity domain protein
           [Haliscomenobacter hydrossis DSM 1100]
          Length = 428

 Score =  222 bits (565), Expect = 1e-55,   Method: Composition-based stats.
 Identities = 107/434 (24%), Positives = 190/434 (43%), Gaps = 24/434 (5%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT 60
           M + + YP YK+SGV+WI  +P HW+VV +KR        T+        + L       
Sbjct: 1   MMNVQKYPAYKNSGVEWIETVPSHWEVVKLKRLFCEKKKITN--------VDLPCGSISF 52

Query: 61  GKYLPKDGNSRQS-DTSTVSIFAKGQILYGKLGPYLR----KAIIADFDGICSTQFLVLQ 115
           GK + KD          +    +KG+ L   L         +  ++D D + S+ ++VL 
Sbjct: 53  GKVVYKDEEKIPEATKKSYQAVSKGEYLLNPLNLNYDLISLRIALSDKDVVVSSGYIVLN 112

Query: 116 PKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKII 175
               L +    WLL       ++ +  G      ++  IG+  +  PPL EQ  I + + 
Sbjct: 113 SIVKLDKTYFKWLLHRYDVAFMKTLGSGV-RQTINFSDIGDSELIFPPLPEQTAIAQFLD 171

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVK 235
            +T  ID  I  + + IELLKE++Q L+   VT+GLNP+VKMK SG+EW+G VP+ WEV 
Sbjct: 172 RKTALIDQAIDIKQKQIELLKERRQILIHQAVTRGLNPEVKMKASGVEWIGEVPEGWEVV 231

Query: 236 PFFALVTELNR--KNTKLIESNILSLSYGNIIQKLETRN----MGLKPESYETYQIVDPG 289
               L        +  K  E  +  +   N+ +          +  +   +E   ++   
Sbjct: 232 RLKTLGKIKYGLGQPPKTKEDGLPLIRATNVERGRIVEKDLIFVDPEDIPWERDPMLKEN 291

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD--LCKVFY 347
           +I+           ++        G I    M + P  I+  +L++ + +      +++ 
Sbjct: 292 DIIVVRSGAYTGDSAIIPK--HYAGSIAGYDMVLTPTSINPRFLSYTLLAKYVLYDQLYL 349

Query: 348 AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
                 +  L  E++ +  ++ PP  EQ  I   +   + +I   +   +Q I  L+E +
Sbjct: 350 LRMRAAQPHLNAEELGQTIIVCPPKLEQQQIFEYLENISKKIATAITLKQQEIAKLQEYK 409

Query: 408 SSFIAAAVTGQIDL 421
           ++ I +AVTG+I +
Sbjct: 410 ATLINSAVTGKIKV 423


>gi|229198631|ref|ZP_04325333.1| hypothetical protein bcere0001_41580 [Bacillus cereus m1293]
 gi|228584913|gb|EEK43029.1| hypothetical protein bcere0001_41580 [Bacillus cereus m1293]
          Length = 440

 Score =  222 bits (565), Expect = 1e-55,   Method: Composition-based stats.
 Identities = 104/439 (23%), Positives = 183/439 (41%), Gaps = 24/439 (5%)

Query: 4   YKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKY 63
           YK Y Q+KDS V+WIG IP+HW++  +    +  + + S+   + + +         G  
Sbjct: 3   YKQYKQHKDSSVEWIGEIPQHWEIKKVSAIFEQRSEKVSDKDFEPLSVT------KMGIL 56

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPEL 123
              +  ++  +        K   +            ++ FDG  S    V++PK     +
Sbjct: 57  KQLENVAKTDNNDNRKKVLKNDFVINSRSDRKGSCGVSQFDGSVSLICTVIKPKTKNTYM 116

Query: 124 LQGWLLSIDVTQRIEAICEGATM----SHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
                L  +     E    G  +        W     I +P PP  EQ  I   +     
Sbjct: 117 DYYHHLFRNKMFSEEFYRWGRGIVDDLWSTRWDEFKRILIPSPPYEEQKSIANYLNYIYE 176

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKP--- 236
            I+ LI  + + +  L++ +Q+L++  VT GLNP  KMKDSG+EW+G +P HWE+K    
Sbjct: 177 TIENLINNKKQQMATLQQYRQSLITETVTCGLNPYAKMKDSGLEWIGQIPSHWEIKKNKM 236

Query: 237 ----FFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN----MGLKPESYETYQIVDP 288
                   +     K     E  I  L   N+ +          +  +     +   +  
Sbjct: 237 ITNSITVGIVITPSKYYIEGEGGIPCLRSLNVKEGEIINTDLVYISNESNELLSKSKIYE 296

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA 348
           G++V            +         I     +  K   I+S +L +L+ S    + +  
Sbjct: 297 GDLVSIRTGDTGVTSVVPKEYDGANCI--DLIIIRKSTKINSAFLCYLLNSNVAKQQYRN 354

Query: 349 MGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
           +  G  +Q    E  K   +  PP +EQ +I N ++++T  ID +++KI++ I+LL++ R
Sbjct: 355 LSGGAIQQHFNIEMAKNTYITYPPFEEQLEIVNYLDLKTTEIDSVIKKIKEQIILLEKYR 414

Query: 408 SSFIAAAVTGQIDLRGESQ 426
            S I  AVTG+ID+R  ++
Sbjct: 415 QSLIYEAVTGKIDVRSYTE 433


>gi|254228173|ref|ZP_04921602.1| Restriction endonuclease S subunits [Vibrio sp. Ex25]
 gi|262394006|ref|YP_003285860.1| type I restriction-modification system specificity subunit S
           [Vibrio sp. Ex25]
 gi|151939246|gb|EDN58075.1| Restriction endonuclease S subunits [Vibrio sp. Ex25]
 gi|262337600|gb|ACY51395.1| type I restriction-modification system specificity subunit S
           [Vibrio sp. Ex25]
          Length = 437

 Score =  222 bits (565), Expect = 1e-55,   Method: Composition-based stats.
 Identities = 96/434 (22%), Positives = 179/434 (41%), Gaps = 21/434 (4%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYL 64
             + +Y D+G+ W+G+IP HW+  P+   +KL   ++  +      + +  ++ G  ++ 
Sbjct: 8   PKHNEYTDTGISWLGSIPSHWEAAPLCSVSKL---KSITNHVGEPLLSV-YLDKGVIRFD 63

Query: 65  P---KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP 121
               K  N    D S   +   G  +      +     I+   GI S  +LVLQ    + 
Sbjct: 64  EVEAKRTNVTSLDLSKYQLVEPGDFVLNNQQAWRGSVGISAHRGIVSPAYLVLQLSSKIY 123

Query: 122 ELLQGWLLSIDVT---QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
                +L           + +   G    +  W  +    +  P L EQ+ I   +  +T
Sbjct: 124 PRFGNYLFRDGSMVANYLVNSKGVGTIQRNLYWPQLKRALVFFPGLDEQIAIANYLDEKT 183

Query: 179 VRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFF 238
            +ID  I  + + IELLKE+KQ ++   VT+GLNPDV MKDSG++W+G +P+HW V    
Sbjct: 184 SQIDEAIAIKQKQIELLKERKQIIIQQAVTQGLNPDVPMKDSGVDWIGKIPEHWTVSKIG 243

Query: 239 ALVTELNRKNT------KLIESNILSLSYGNIIQKLETRNMGLKPES---YETYQIVDPG 289
                 N             E  I  +S G +   + +    L   +     + +I   G
Sbjct: 244 HYARVYNGSTPSRDVKRYWDEGTIPWMSSGKVNDYIISTPSELITTAALRECSLRIFPKG 303

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
            ++   +     + +  SA +    +I      + P     +            +V    
Sbjct: 304 TVLIGIVGQGKTRGT--SAMLAIDAVINQNVAGIIPSEKILSEFLHQYLIQAYDEVRNQG 361

Query: 350 GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
               +++L  + +    +  P I EQ +I + I +++ ++D  ++     I  LKE +++
Sbjct: 362 QGSNQEALNCQILSSFKIAFPSIIEQKEIVHFIAIQSQKLDQSIDIQFNQIEKLKEYKTT 421

Query: 410 FIAAAVTGQIDLRG 423
            I +AVTG+I +  
Sbjct: 422 LINSAVTGKIKVTE 435


>gi|259156142|gb|ACV96090.1| type I restriction-modification protein [Providencia alcalifaciens
           Ban1]
          Length = 436

 Score =  221 bits (564), Expect = 1e-55,   Method: Composition-based stats.
 Identities = 97/425 (22%), Positives = 174/425 (40%), Gaps = 13/425 (3%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDG 68
           QY DSG +WIG IP+HW +V +       + +       +     + V          + 
Sbjct: 12  QYIDSGYEWIGEIPQHWDLVKLGSCLSSVSVKNCPELPLLSITREQGVIERDVDDQELNH 71

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL 128
           N    D S      KGQ    K+  +     ++ F GI S  + V      +      W 
Sbjct: 72  NFIPDDLSGYKKLEKGQFGMNKMKAWQGSYGVSKFTGIVSPAYFVFDFTKAIDPEFFNWA 131

Query: 129 LSIDVTQRIEAICEG---ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
           +   +                       +  IP  +P   +Q LI   +  +T +I+  I
Sbjct: 132 IRSKLYVSFFGSASDGVRIGQWDLSKTRMKVIPFVLPSEEDQSLIANFLAKKTTQINDAI 191

Query: 186 TERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKP----FFALV 241
             + + I LLKE+KQ ++   VT+GL+P+V MKDSG+ W+G +P HWEV+     F    
Sbjct: 192 AIKEQQINLLKERKQIIIQQAVTQGLDPNVPMKDSGVNWIGKIPAHWEVRRSKFVFTQRK 251

Query: 242 TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQND 301
               + + +L  +    +   +  ++L  + +       +  + V+  + V      Q  
Sbjct: 252 ERAWKDDVQLSATQAYGVIPQDQYEELTGKRVVKIQLHLDKRKHVEKDDFVISMRSFQ-- 309

Query: 302 KRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR--QSLKF 359
                     +  I +S  +      ID ++  +L++            S +R  Q L F
Sbjct: 310 --GGLERAWSQGCIRSSYVVLRALEEIDPSFYGYLLKLPSYIAALQQTASFIRDGQDLNF 367

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
           ++  ++ + +PPI+EQ +I N ++      D  +E +   I  LKE +++ I +AVTG+I
Sbjct: 368 DNFSKVDLFIPPIEEQKEIANYVSAFMKSSDEGIELLLAQIEKLKEYKTTLINSAVTGKI 427

Query: 420 DLRGE 424
            +  E
Sbjct: 428 KITPE 432



 Score =  107 bits (268), Expect = 2e-21,   Method: Composition-based stats.
 Identities = 49/210 (23%), Positives = 92/210 (43%), Gaps = 10/210 (4%)

Query: 213 PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETR- 271
              +  DSG EW+G +P HW++    + ++ ++ KN   +    ++   G I + ++ + 
Sbjct: 9   KHGQYIDSGYEWIGEIPQHWDLVKLGSCLSSVSVKNCPELPLLSITREQGVIERDVDDQE 68

Query: 272 -NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP-HGID 329
            N    P+    Y+ ++ G+     +        +        GI++ AY        ID
Sbjct: 69  LNHNFIPDDLSGYKKLEKGQFGMNKMKAWQGSYGVSKF----TGIVSPAYFVFDFTKAID 124

Query: 330 STYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
             +  W +RS      F +   G+   +  L    +K +P ++P  ++Q  I N +  +T
Sbjct: 125 PEFFNWAIRSKLYVSFFGSASDGVRIGQWDLSKTRMKVIPFVLPSEEDQSLIANFLAKKT 184

Query: 387 ARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
            +I+  +   EQ I LLKER+   I  AVT
Sbjct: 185 TQINDAIAIKEQQINLLKERKQIIIQQAVT 214


>gi|220933784|ref|YP_002512683.1| type I restriction-modification system, S subunit [Thioalkalivibrio
           sp. HL-EbGR7]
 gi|219995094|gb|ACL71696.1| type I restriction-modification system, S subunit [Thioalkalivibrio
           sp. HL-EbGR7]
          Length = 458

 Score =  221 bits (563), Expect = 2e-55,   Method: Composition-based stats.
 Identities = 104/444 (23%), Positives = 190/444 (42%), Gaps = 18/444 (4%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGR------TSESGKDIIYIGLE 54
           M  Y+AYP+Y+++    +  IP HW    IK    +  G+       + + + + Y+   
Sbjct: 1   MGKYQAYPEYRETRHDLLPPIPVHWMTGQIKNAHDVVLGKMLQSDAKTPADRLLPYLRAA 60

Query: 55  DVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADF--DGICSTQFL 112
           +V  G                        G ++  + G   R A+      +        
Sbjct: 61  NVNWGGVDLSTVKEMWFSPAERKALRLMVGDVVISEGGDVGRSAVWQGELPECYFQNAIN 120

Query: 113 VLQPKDVLPELLQGWLL-SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIR 171
             +PK         + +  I     I+ IC  +T+ H   + +   P   PP  EQ  I 
Sbjct: 121 RARPKGEHSSRYLYYWMSFIKSAGYIDIICNKSTIPHYTAEKVQGTPFLFPPAGEQAGIA 180

Query: 172 EKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDH 231
             +  ET +ID LI ++ R IELLKEK+QA++S+ VTKGLNPD  MKDSG+EW+G VP H
Sbjct: 181 AFLDHETAKIDRLIAKQQRLIELLKEKRQAVISHAVTKGLNPDAPMKDSGVEWLGEVPAH 240

Query: 232 WEVKPFFALVTELNRK-----NTKLIESNILSLSYGNIIQK---LETRNMGLKPESYETY 283
           W ++                 + +    +I  +S  ++  +        + ++  +  + 
Sbjct: 241 WRLEKLKYTAIFKGGGTPSKDSPEYWGGDIPWVSPKDMKSRYVADSQDKITVEAIAASST 300

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR-SYDL 342
            ++ PG+++         +    +  ++E  +              S + ++ +    D 
Sbjct: 301 SLIGPGQVLVVVRSGILQRTIPVAVNLVEVTLNQDMKAIDFRDETRSEFFSYFVEGHEDN 360

Query: 343 CKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
             + +       +S++ E +    V +PP  E  +I   +N +  +  +L EK  ++I L
Sbjct: 361 LLLEWRKQGATVESIEQEYLGNTMVPMPPPSEMMEILQFLNGQLEKYRLLTEKATRAIEL 420

Query: 403 LKERRSSFIAAAVTGQIDLRGESQ 426
           L+E R++ I+AAVTG+ID+RG  +
Sbjct: 421 LREHRTALISAAVTGKIDVRGWQK 444


>gi|121585820|ref|ZP_01675614.1| conserved hypothetical protein [Vibrio cholerae 2740-80]
 gi|121727684|ref|ZP_01680779.1| conserved hypothetical protein [Vibrio cholerae V52]
 gi|147674628|ref|YP_001217309.1| hypothetical protein VC0395_A1366 [Vibrio cholerae O395]
 gi|153817792|ref|ZP_01970459.1| conserved hypothetical protein [Vibrio cholerae NCTC 8457]
 gi|227081913|ref|YP_002810464.1| hypothetical protein VCM66_1706 [Vibrio cholerae M66-2]
 gi|298498162|ref|ZP_07007969.1| conserved hypothetical protein [Vibrio cholerae MAK 757]
 gi|121549958|gb|EAX59976.1| conserved hypothetical protein [Vibrio cholerae 2740-80]
 gi|121629981|gb|EAX62389.1| conserved hypothetical protein [Vibrio cholerae V52]
 gi|126511612|gb|EAZ74206.1| conserved hypothetical protein [Vibrio cholerae NCTC 8457]
 gi|146316511|gb|ABQ21050.1| conserved hypothetical protein [Vibrio cholerae O395]
 gi|227009801|gb|ACP06013.1| conserved hypothetical protein [Vibrio cholerae M66-2]
 gi|227013668|gb|ACP09878.1| conserved hypothetical protein [Vibrio cholerae O395]
 gi|297542495|gb|EFH78545.1| conserved hypothetical protein [Vibrio cholerae MAK 757]
          Length = 462

 Score =  221 bits (563), Expect = 2e-55,   Method: Composition-based stats.
 Identities = 102/443 (23%), Positives = 185/443 (41%), Gaps = 24/443 (5%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNT----GRTSESGKDIIYIGLEDV 56
           +K    Y  YKDS  QWIG IP HW+V  +K      +    G       +I+ + + D 
Sbjct: 22  IKKMPKYESYKDSCEQWIGDIPAHWEVYRLKSAVYECSNGIWGSDPNGRDEIVVLRVADF 81

Query: 57  ESGTGKYLPKDGNSRQS--DTSTVSIFAKGQILYGKLG----PYLRKAIIAD--FDGICS 108
           +    K   +    R          +   G +L  K G      + + ++ D  +  + S
Sbjct: 82  DDHKLKISDEKLTYRSIPAKERQGRLLKNGDLLIEKSGGGDKTLVGRVVLFDKQYPAVTS 141

Query: 109 TQFLVLQPKDVLPELLQGWLLSIDVTQ--RIEAICEGATMSHADWKGIGNIPMPIPPLAE 166
                + PK+ +      ++ S          +I +   + + D     N    IP   E
Sbjct: 142 NFVAKMTPKEWVISGFLKYVFSALYNNGVNYLSIKQTTGIQNLDASSYLNEKFCIPQKEE 201

Query: 167 QVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVG 226
           Q  I + +  +T +I+  I  + + IELLKE+KQ ++   VT+GLNPD  MK SG++W+G
Sbjct: 202 QYEIAKFLDNKTTQINEAIAIKQKQIELLKERKQIIIQQAVTQGLNPDATMKYSGVDWIG 261

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIV 286
            +P HW VK    L+ E+N ++   +E  +       +  + E        E Y   ++ 
Sbjct: 262 AIPGHWIVKRAKYLLDEINERSETGLEELLSVSHMTGVTPRSEKNVTMFMAEDYTGSKLC 321

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG---IDSTYLAWLMRSYDLC 343
             G++V   +        +        GI++ +Y   +          YL  L++S    
Sbjct: 322 HSGDLVINIMWAWMGALGVS----DRTGIVSPSYGVFREQREGTFVPKYLEMLLKSTKYV 377

Query: 344 KVFYAMGSG---LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
           + +  + +G    R       +  + +  PP +EQ  I   I+ E +++D  +    + +
Sbjct: 378 EYYNKVSTGLHSSRLRFYGHMLFDMALGFPPYEEQTQIVEYISRECSKVDEAITVQAEQV 437

Query: 401 VLLKERRSSFIAAAVTGQIDLRG 423
             LKE +++ I +AVTG+I +  
Sbjct: 438 SKLKEYKTTLINSAVTGKIKVTE 460



 Score =  106 bits (265), Expect = 6e-21,   Method: Composition-based stats.
 Identities = 39/236 (16%), Positives = 83/236 (35%), Gaps = 13/236 (5%)

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
           L    +  L+S  + K +      KDS  +W+G +P HWEV    + V E +        
Sbjct: 8   LWLRFRGKLMSNTMIKKMPKYESYKDSCEQWIGDIPAHWEVYRLKSAVYECSNGIWGSDP 67

Query: 254 SNILSLSYGNIIQKLETR--------NMGLKPESYETYQIVDPGEIVFRFIDLQ--NDKR 303
           +    +    +    + +             P      +++  G+++             
Sbjct: 68  NGRDEIVVLRVADFDDHKLKISDEKLTYRSIPAKERQGRLLKNGDLLIEKSGGGDKTLVG 127

Query: 304 SLRSAQVMERGIITSAYMAVKPHGI-DSTYLAWLMRSYDLC--KVFYAMGSGLRQSLKFE 360
            +         + ++    + P     S +L ++  +             +   Q+L   
Sbjct: 128 RVVLFDKQYPAVTSNFVAKMTPKEWVISGFLKYVFSALYNNGVNYLSIKQTTGIQNLDAS 187

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
                   +P  +EQ++I   ++ +T +I+  +   ++ I LLKER+   I  AVT
Sbjct: 188 SYLNEKFCIPQKEEQYEIAKFLDNKTTQINEAIAIKQKQIELLKERKQIIIQQAVT 243


>gi|21243626|ref|NP_643208.1| type I restriction-modification system specificity determinant
           [Xanthomonas axonopodis pv. citri str. 306]
 gi|21109201|gb|AAM37744.1| type I restriction-modification system specificity determinant
           [Xanthomonas axonopodis pv. citri str. 306]
          Length = 426

 Score =  221 bits (563), Expect = 2e-55,   Method: Composition-based stats.
 Identities = 120/422 (28%), Positives = 192/422 (45%), Gaps = 9/422 (2%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDG 68
            +K SG  W+G +P HW V P+    +            +       V   + +    + 
Sbjct: 9   AFKSSGAPWLGNVPTHWVVKPLWSMYRQKKITGYPEETLLSVYRDHGVIEKSSR--DDNK 66

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP-KDVLPELLQGW 127
           N    D S   +   G ++  K+  +     ++   GI S  + V     D     L   
Sbjct: 67  NRASEDLSGYQLVVDGDLVTNKMKTWQGSIAVSSLRGIVSPAYYVYTKLHDGNNAYLHHL 126

Query: 128 LLSIDVTQRIEAICEGA--TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
           L S+      ++I +G        +       P+ IPP  EQ  I   +   T RID L+
Sbjct: 127 LRSVPYITGYQSISKGIRVGQWDLEADKFRLFPVLIPPRPEQDAIVAHLDRATTRIDALV 186

Query: 186 TERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN 245
            ++  FIELL+EK+QA++++ VTKGL+    MKDSG+EW+G VP  W+  P  + +    
Sbjct: 187 AKKTHFIELLREKRQAMITHAVTKGLDRGAPMKDSGVEWLGEVPVTWDTAPLKSFLQLRR 246

Query: 246 RK-NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
               T    + +LSL+   +I++      G  P S++ YQ +  GE+VF   D+    R+
Sbjct: 247 DIVGTASANTRLLSLTLQGVIERDLENPTGKMPASFDGYQRISAGEMVFCLFDMDETPRT 306

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDS-TYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVK 363
           +  A   + G++T AY   +P       YL +     D  K       GLR++++     
Sbjct: 307 VGVA--QQDGMLTGAYTVFRPQSDLWARYLYYFFLHVDEYKRLKPFYKGLRKTIRPGPFL 364

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
            + V  P   E   I   ++  T+RID L+ K E+SI LL+E R++ I AAVTG+IDLR 
Sbjct: 365 SIQVPRPRDGEAEAIVAHLDRATSRIDTLIAKTERSIELLREHRTALITAAVTGKIDLRP 424

Query: 424 ES 425
            +
Sbjct: 425 AA 426



 Score =  117 bits (293), Expect = 3e-24,   Method: Composition-based stats.
 Identities = 59/207 (28%), Positives = 92/207 (44%), Gaps = 8/207 (3%)

Query: 214 DVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNM 273
               K SG  W+G VP HW VKP +++  +             +   +G I +     N 
Sbjct: 7   HKAFKSSGAPWLGNVPTHWVVKPLWSMYRQKKITGYPEETLLSVYRDHGVIEKSSRDDNK 66

Query: 274 GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP-HGIDSTY 332
               E    YQ+V  G++V   +       ++ S     RGI++ AY      H  ++ Y
Sbjct: 67  NRASEDLSGYQLVVDGDLVTNKMKTWQGSIAVSSL----RGIVSPAYYVYTKLHDGNNAY 122

Query: 333 LAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
           L  L+RS      + ++  G+   +  L+ +  +  PVL+PP  EQ  I   ++  T RI
Sbjct: 123 LHHLLRSVPYITGYQSISKGIRVGQWDLEADKFRLFPVLIPPRPEQDAIVAHLDRATTRI 182

Query: 390 DVLVEKIEQSIVLLKERRSSFIAAAVT 416
           D LV K    I LL+E+R + I  AVT
Sbjct: 183 DALVAKKTHFIELLREKRQAMITHAVT 209


>gi|153817790|ref|ZP_01970457.1| restriction modification system DNA specificity domain [Vibrio
           cholerae NCTC 8457]
 gi|262169768|ref|ZP_06037459.1| type I restriction-modification system specificity determinant
           [Vibrio cholerae RC27]
 gi|126511610|gb|EAZ74204.1| restriction modification system DNA specificity domain [Vibrio
           cholerae NCTC 8457]
 gi|262022002|gb|EEY40712.1| type I restriction-modification system specificity determinant
           [Vibrio cholerae RC27]
          Length = 442

 Score =  221 bits (562), Expect = 2e-55,   Method: Composition-based stats.
 Identities = 102/443 (23%), Positives = 185/443 (41%), Gaps = 24/443 (5%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNT----GRTSESGKDIIYIGLEDV 56
           +K    Y  YKDS  QWIG IP HW+V  +K      +    G       +I+ + + D 
Sbjct: 2   IKKMPKYESYKDSCEQWIGDIPAHWEVYRLKSAVYECSNGIWGSDPNGRDEIVVLRVADF 61

Query: 57  ESGTGKYLPKDGNSRQS--DTSTVSIFAKGQILYGKLG----PYLRKAIIAD--FDGICS 108
           +    K   +    R          +   G +L  K G      + + ++ D  +  + S
Sbjct: 62  DDHKLKISDEKLTYRSIPAKERQGRLLKNGDLLIEKSGGGDKTLVGRVVLFDKQYPAVTS 121

Query: 109 TQFLVLQPKDVLPELLQGWLLSIDVTQ--RIEAICEGATMSHADWKGIGNIPMPIPPLAE 166
                + PK+ +      ++ S          +I +   + + D     N    IP   E
Sbjct: 122 NFVAKMTPKEWVISGFLKYVFSALYNNGVNYLSIKQTTGIQNLDASSYLNEKFCIPQKEE 181

Query: 167 QVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVG 226
           Q  I + +  +T +I+  I  + + IELLKE+KQ ++   VT+GLNPD  MK SG++W+G
Sbjct: 182 QYEIAKFLDNKTTQINEAIAIKQKQIELLKERKQIIIQQAVTQGLNPDATMKYSGVDWIG 241

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIV 286
            +P HW VK    L+ E+N ++   +E  +       +  + E        E Y   ++ 
Sbjct: 242 AIPGHWIVKRAKYLLDEINERSETGLEELLSVSHMTGVTPRSEKNVTMFMAEDYTGSKLC 301

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG---IDSTYLAWLMRSYDLC 343
             G++V   +        +        GI++ +Y   +          YL  L++S    
Sbjct: 302 HSGDLVINIMWAWMGALGVS----DRTGIVSPSYGVFREQREGTFVPKYLEMLLKSTKYV 357

Query: 344 KVFYAMGSG---LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
           + +  + +G    R       +  + +  PP +EQ  I   I+ E +++D  +    + +
Sbjct: 358 EYYNKVSTGLHSSRLRFYGHMLFDMALGFPPYEEQTQIVEYISRECSKVDEAITVQAEQV 417

Query: 401 VLLKERRSSFIAAAVTGQIDLRG 423
             LKE +++ I +AVTG+I +  
Sbjct: 418 SKLKEYKTTLINSAVTGKIKVTE 440


>gi|303229059|ref|ZP_07315865.1| type I restriction modification DNA specificity domain protein
           [Veillonella atypica ACS-134-V-Col7a]
 gi|302516270|gb|EFL58206.1| type I restriction modification DNA specificity domain protein
           [Veillonella atypica ACS-134-V-Col7a]
          Length = 435

 Score =  221 bits (562), Expect = 2e-55,   Method: Composition-based stats.
 Identities = 92/432 (21%), Positives = 169/432 (39%), Gaps = 18/432 (4%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES-----GKDIIYIGLEDVESGTGKY 63
           + KDSGV WIG IP +WK + +K  +KL  G   +S           + + D+ +     
Sbjct: 4   EMKDSGVPWIGKIPVNWKTIRLKYISKLINGFAFKSQDLKADGHYKVVRIGDLNNNKINL 63

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPEL 123
               G     +     I+  G +L    G  + K   AD +  C     V   + +   L
Sbjct: 64  EDCLGVDSVDNYRDYKIYM-GDVLVALSGATVGKVAFADNNIECYINQRVGIIRSLWGRL 122

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           +          + +++    +   +   + IG I +PI        I   +  +  +IDT
Sbjct: 123 IFHIFSLDKFIENLKSCLNDSAQPNLSIEDIGRISIPIYDKNTIKRIVRYLDIKCAQIDT 182

Query: 184 LITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTE 243
           +I +    IE L+E K+A+++  V KGL+  V+M D GIEW+  +P+HW++         
Sbjct: 183 IIAKEQSVIEKLQEYKRAIITNAVVKGLDLTVEMADRGIEWIDSIPNHWKINRLIFSAYI 242

Query: 244 LNR------KNTKLIESNILSLSYGNIIQK----LETRNMGLKPESYETYQIVDPGEIVF 293
             R      K  +        LS  NI        +   +            ++ G+++ 
Sbjct: 243 RARLGWKGLKADEYTSEGHPFLSAVNIQNDKLVWEDLNFINDNRYDESPEIKLELGDLLL 302

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI-DSTYLAWLMRSYDLCKVFYAMGSG 352
                   K ++            S+   + P+   +S YL +   S         + +G
Sbjct: 303 VKDGAGIGKCAIVDQLPYGTATTNSSLGVITPYSELNSMYLYYFFESAIFQNYISRIKNG 362

Query: 353 -LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
                L   ++K + V++PP  EQ  I   ++ + + +D ++ K +  I  L E + S I
Sbjct: 363 MGVPHLTQGNLKNIMVVIPPYCEQEAIVAYLDDKCSNLDSIILKKQSLIDKLIEYKKSLI 422

Query: 412 AAAVTGQIDLRG 423
              VTG+ ++  
Sbjct: 423 YEVVTGKKEVPH 434


>gi|15641771|ref|NP_231403.1| hypothetical protein VC1768 [Vibrio cholerae O1 biovar El Tor str.
           N16961]
 gi|153821172|ref|ZP_01973839.1| conserved hypothetical protein [Vibrio cholerae B33]
 gi|9656290|gb|AAF94917.1| conserved hypothetical protein [Vibrio cholerae O1 biovar El Tor
           str. N16961]
 gi|126521368|gb|EAZ78591.1| conserved hypothetical protein [Vibrio cholerae B33]
          Length = 462

 Score =  221 bits (562), Expect = 2e-55,   Method: Composition-based stats.
 Identities = 102/443 (23%), Positives = 185/443 (41%), Gaps = 24/443 (5%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNT----GRTSESGKDIIYIGLEDV 56
           +K    Y  YKDS  QWIG IP HW+V  +K      +    G       +I+ + + D 
Sbjct: 22  IKKMPKYESYKDSCEQWIGDIPAHWEVYRLKSAVYECSNGIWGSDPNGRDEIVVLRVADF 81

Query: 57  ESGTGKYLPKDGNSRQS--DTSTVSIFAKGQILYGKLG----PYLRKAIIAD--FDGICS 108
           +    K   +    R          +   G +L  K G      + + ++ D  +  + S
Sbjct: 82  DDHKLKISDEKLTYRSIPAKEHQGRLLKNGDLLIEKSGGGDKTLVGRVVLFDKQYPAVTS 141

Query: 109 TQFLVLQPKDVLPELLQGWLLSIDVTQ--RIEAICEGATMSHADWKGIGNIPMPIPPLAE 166
                + PK+ +      ++ S          +I +   + + D     N    IP   E
Sbjct: 142 NFVAKMTPKEWVISGFLKYVFSALYNNGVNYLSIKQTTGIQNLDASSYLNEKFCIPQKEE 201

Query: 167 QVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVG 226
           Q  I + +  +T +I+  I  + + IELLKE+KQ ++   VT+GLNPD  MK SG++W+G
Sbjct: 202 QYEIAKFLDNKTTQINEAIAIKQKQIELLKERKQIIIQQAVTQGLNPDATMKYSGVDWIG 261

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIV 286
            +P HW VK    L+ E+N ++   +E  +       +  + E        E Y   ++ 
Sbjct: 262 AIPGHWIVKRAKYLLDEINERSETGLEELLSVSHMTGVTPRSEKNVTMFMAEDYTGSKLC 321

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG---IDSTYLAWLMRSYDLC 343
             G++V   +        +        GI++ +Y   +          YL  L++S    
Sbjct: 322 HSGDLVINIMWAWMGALGVS----DRTGIVSPSYGVFREQREGTFVPKYLEMLLKSTKYV 377

Query: 344 KVFYAMGSG---LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
           + +  + +G    R       +  + +  PP +EQ  I   I+ E +++D  +    + +
Sbjct: 378 EYYNKVSTGLHSSRLRFYGHMLFDMALGFPPYEEQTQIVEYISRECSKVDEAITVQAEQV 437

Query: 401 VLLKERRSSFIAAAVTGQIDLRG 423
             LKE +++ I +AVTG+I +  
Sbjct: 438 SKLKEYKTTLINSAVTGKIKVTE 460



 Score =  106 bits (265), Expect = 6e-21,   Method: Composition-based stats.
 Identities = 39/236 (16%), Positives = 83/236 (35%), Gaps = 13/236 (5%)

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
           L    +  L+S  + K +      KDS  +W+G +P HWEV    + V E +        
Sbjct: 8   LWLRFRGKLMSNTMIKKMPKYESYKDSCEQWIGDIPAHWEVYRLKSAVYECSNGIWGSDP 67

Query: 254 SNILSLSYGNIIQKLETR--------NMGLKPESYETYQIVDPGEIVFRFIDLQ--NDKR 303
           +    +    +    + +             P      +++  G+++             
Sbjct: 68  NGRDEIVVLRVADFDDHKLKISDEKLTYRSIPAKEHQGRLLKNGDLLIEKSGGGDKTLVG 127

Query: 304 SLRSAQVMERGIITSAYMAVKPHGI-DSTYLAWLMRSYDLC--KVFYAMGSGLRQSLKFE 360
            +         + ++    + P     S +L ++  +             +   Q+L   
Sbjct: 128 RVVLFDKQYPAVTSNFVAKMTPKEWVISGFLKYVFSALYNNGVNYLSIKQTTGIQNLDAS 187

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
                   +P  +EQ++I   ++ +T +I+  +   ++ I LLKER+   I  AVT
Sbjct: 188 SYLNEKFCIPQKEEQYEIAKFLDNKTTQINEAIAIKQKQIELLKERKQIIIQQAVT 243


>gi|255744817|ref|ZP_05418767.1| hypothetical protein VCH_001143 [Vibrio cholera CIRS 101]
 gi|262161900|ref|ZP_06030918.1| hypothetical protein VIG_003073 [Vibrio cholerae INDRE 91/1]
 gi|255737288|gb|EET92683.1| hypothetical protein VCH_001143 [Vibrio cholera CIRS 101]
 gi|262028632|gb|EEY47287.1| hypothetical protein VIG_003073 [Vibrio cholerae INDRE 91/1]
          Length = 442

 Score =  220 bits (561), Expect = 2e-55,   Method: Composition-based stats.
 Identities = 102/443 (23%), Positives = 185/443 (41%), Gaps = 24/443 (5%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNT----GRTSESGKDIIYIGLEDV 56
           +K    Y  YKDS  QWIG IP HW+V  +K      +    G       +I+ + + D 
Sbjct: 2   IKKMPKYESYKDSCEQWIGDIPAHWEVYRLKSAVYECSNGIWGSDPNGRDEIVVLRVADF 61

Query: 57  ESGTGKYLPKDGNSRQS--DTSTVSIFAKGQILYGKLG----PYLRKAIIAD--FDGICS 108
           +    K   +    R          +   G +L  K G      + + ++ D  +  + S
Sbjct: 62  DDHKLKISDEKLTYRSIPAKEHQGRLLKNGDLLIEKSGGGDKTLVGRVVLFDKQYPAVTS 121

Query: 109 TQFLVLQPKDVLPELLQGWLLSIDVTQ--RIEAICEGATMSHADWKGIGNIPMPIPPLAE 166
                + PK+ +      ++ S          +I +   + + D     N    IP   E
Sbjct: 122 NFVAKMTPKEWVISGFLKYVFSALYNNGVNYLSIKQTTGIQNLDASSYLNEKFCIPQKEE 181

Query: 167 QVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVG 226
           Q  I + +  +T +I+  I  + + IELLKE+KQ ++   VT+GLNPD  MK SG++W+G
Sbjct: 182 QYEIAKFLDNKTTQINEAIAIKQKQIELLKERKQIIIQQAVTQGLNPDATMKYSGVDWIG 241

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIV 286
            +P HW VK    L+ E+N ++   +E  +       +  + E        E Y   ++ 
Sbjct: 242 AIPGHWIVKRAKYLLDEINERSETGLEELLSVSHMTGVTPRSEKNVTMFMAEDYTGSKLC 301

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG---IDSTYLAWLMRSYDLC 343
             G++V   +        +        GI++ +Y   +          YL  L++S    
Sbjct: 302 HSGDLVINIMWAWMGALGVS----DRTGIVSPSYGVFREQREGTFVPKYLEMLLKSTKYV 357

Query: 344 KVFYAMGSG---LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
           + +  + +G    R       +  + +  PP +EQ  I   I+ E +++D  +    + +
Sbjct: 358 EYYNKVSTGLHSSRLRFYGHMLFDMALGFPPYEEQTQIVEYISRECSKVDEAITVQAEQV 417

Query: 401 VLLKERRSSFIAAAVTGQIDLRG 423
             LKE +++ I +AVTG+I +  
Sbjct: 418 SKLKEYKTTLINSAVTGKIKVTE 440


>gi|53718590|ref|YP_107576.1| putative type I restriction enzyme specificity protein
           [Burkholderia pseudomallei K96243]
 gi|52209004|emb|CAH34943.1| putative type I restriction enzyme specificity protein
           [Burkholderia pseudomallei K96243]
          Length = 429

 Score =  220 bits (561), Expect = 3e-55,   Method: Composition-based stats.
 Identities = 112/440 (25%), Positives = 182/440 (41%), Gaps = 36/440 (8%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKR-FTKLNTG------RTSESGKDIIYIGL 53
           M     Y +YKDSGV W+G +P HW V  +K     + +G       T     +   +  
Sbjct: 1   MS-LPQYAKYKDSGVPWLGQVPTHWLVQRLKEVIAFIESGVSVNAIDTPAGEGEPGVLKT 59

Query: 54  EDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPY-----LRKAIIADFDGICS 108
             V SG            +           G ++  ++                 +    
Sbjct: 60  SCVYSGEFTPSENKLVVPEELGRVACPVKAGTVIVSRMNTPDLVGASGVVRQNYANLYLP 119

Query: 109 TQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT--MSHADWKGIGNIPMPIPPLAE 166
            +   +  K+  PE +  W  +     ++E+ C G +  M +       +  +P+PP +E
Sbjct: 120 DRLWQVHFKNACPEFVHYWSQTHSYRAQVESACAGTSSSMKNLSQDEFRSFILPLPPPSE 179

Query: 167 QVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVG 226
           Q  I   +  ET +I+ LI E+ + + LL EK+QA +S  VT+GLNPD   KDSG+ W+ 
Sbjct: 180 QSAIATFLKHETRKINALIAEQEKLLTLLAEKRQATISRAVTRGLNPDAPTKDSGVAWLR 239

Query: 227 LVPDHWEVKPFFALVTELNR---KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY 283
            VP HW +KP    V         +   +E NI  +S G I               +   
Sbjct: 240 EVPAHWNLKPMKRAVVFQRGHDLPSEDRVEGNIPVVSSGGISG-------------WHNA 286

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC 343
                  IV        +   L      +   + +A   V+ H     YL ++++S    
Sbjct: 287 AATKGPTIVTGRYGTIGEFVLL----EEDCWPLNTALYTVQMHDNVPKYLWYMLQSLKHI 342

Query: 344 KVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
            +  ++ S     +   D+    V +PP +EQ  I   ++ E +++D L    E++I LL
Sbjct: 343 FILNSLKS-AVPGVDRNDIHPAIVCLPPAEEQPAIVAFLDAEISKLDALRADAERAIDLL 401

Query: 404 KERRSSFIAAAVTGQIDLRG 423
           KERRS+ IAAAVTG+ID+R 
Sbjct: 402 KERRSALIAAAVTGKIDVRN 421



 Score = 78.7 bits (192), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 46/207 (22%), Positives = 78/207 (37%), Gaps = 14/207 (6%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNS 70
           KDSGV W+  +P HW + P+KR      G           +  ED   G    +   G S
Sbjct: 231 KDSGVAWLREVPAHWNLKPMKRAVVFQRGHD---------LPSEDRVEGNIPVVSSGGIS 281

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
              + +         I+ G+ G      ++ +     +T    +Q           W + 
Sbjct: 282 GWHNAAATK---GPTIVTGRYGTIGEFVLLEEDCWPLNTALYTVQ--MHDNVPKYLWYML 336

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
             +          + +   D   I    + +PP  EQ  I   + AE  ++D L  +  R
Sbjct: 337 QSLKHIFILNSLKSAVPGVDRNDIHPAIVCLPPAEEQPAIVAFLDAEISKLDALRADAER 396

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKM 217
            I+LLKE++ AL++  VT  ++    M
Sbjct: 397 AIDLLKERRSALIAAAVTGKIDVRNVM 423


>gi|86152085|ref|ZP_01070297.1| putative type I restriction enzyme specificity protein
           [Campylobacter jejuni subsp. jejuni 260.94]
 gi|85840870|gb|EAQ58120.1| putative type I restriction enzyme specificity protein
           [Campylobacter jejuni subsp. jejuni 260.94]
          Length = 433

 Score =  220 bits (560), Expect = 3e-55,   Method: Composition-based stats.
 Identities = 114/441 (25%), Positives = 198/441 (44%), Gaps = 32/441 (7%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK-----DIIYIGLED 55
           MK++      K+SG++W+G IP+HW+VV I +      G   E+       +I  I + D
Sbjct: 1   MKNF------KESGIEWLGEIPEHWEVVKINKIVTFVNGYAFENFDFNPIFEIPVIRIGD 54

Query: 56  VESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD--FDGICSTQFLV 113
           ++     Y      +++ +     + +   IL    G    K    D       + +  +
Sbjct: 55  MQKEKILY-DNCLKTKEKEKLKQFLISNNDILIALSGATTGKIAFCDTDNKAYINQRVAI 113

Query: 114 LQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
           ++ K  L   ++ + L+   +  IE  C G+   +   K IG   +P+PPL EQ  I   
Sbjct: 114 VRSKLKL---VKYYFLTRGFSLLIELACNGSAQPNISTKEIGEFKIPLPPLKEQEQIANF 170

Query: 174 IIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWE 233
           +  +  +I   I ++ + I LLKE+KQA ++  +TKGL+ ++  KDSGIEW+G +P HWE
Sbjct: 171 LDEKCEQIANFIEKKEKLISLLKEQKQAFINETITKGLDKNINFKDSGIEWLGEIPQHWE 230

Query: 234 VKP---FFALVTELNRKNTKLIESNILSLSYGNIIQKL---------ETRNMGLKPESYE 281
           VK     F L   LN      +   I  +SYG I  K              +     + +
Sbjct: 231 VKKFKMLFTLGNGLNITKADFVSYGIPCVSYGEIHSKYPCRLNTTIHTLPFVSKTYLADK 290

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA--YMAVKPHGIDSTYLAWLMRS 339
              ++  G+ VF       +     ++   +  I       +      I+S Y ++L  S
Sbjct: 291 PQSLLQKGDFVFADTSEDIEGSGNFTSIQSDTPIFAGYHTIILKYKGKINSLYFSFLFDS 350

Query: 340 YDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
                       G+   S+    +K +  L+PP+KEQ  I N ++ +  +ID+L+EK ++
Sbjct: 351 IFTRNQIRKEVCGVKVFSITKSILKEVQCLIPPLKEQEQIANFLDEKCEKIDLLIEKTKK 410

Query: 399 SIVLLKERRSSFIAAAVTGQI 419
            I L+KE +++ I  AV G+I
Sbjct: 411 QIKLIKEYKTTLINQAVCGRI 431


>gi|218960560|ref|YP_001740335.1| putative Type I restriction-modification system specificity subunit
           [Candidatus Cloacamonas acidaminovorans]
 gi|167729217|emb|CAO80128.1| putative Type I restriction-modification system specificity subunit
           [Candidatus Cloacamonas acidaminovorans]
          Length = 440

 Score =  220 bits (559), Expect = 5e-55,   Method: Composition-based stats.
 Identities = 125/442 (28%), Positives = 196/442 (44%), Gaps = 27/442 (6%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRF-TKLNTGRTSE--SGKDIIYIGLEDV- 56
           M  YK+Y  YK++G+ W+  +PKHW+++        +      +    + + +  +  V 
Sbjct: 1   MIKYKSYEDYKETGITWLTMVPKHWEILRTDSVTVYIRNQINPDEIKSEFVFHYSIPAVQ 60

Query: 57  ESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAII---ADFDGICSTQFLV 113
           E+GTG+Y     +  +   S   +  K  +L  KL P      I    D   ICS++F+ 
Sbjct: 61  ETGTGQY-----DLTEEVGSAKQLITKKSVLISKLNPRKATICIAEPKDEITICSSEFIA 115

Query: 114 LQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSH--ADWKGIGNIPMPIPPLAEQVLIR 171
           ++ K    + L   + S    QR++A  +  T SH       I      +P   EQ  I 
Sbjct: 116 MEAKKCDLKYLFYLMNSEMNRQRLDAKVQSVTRSHQRVYPSDIYRFWTALPSTTEQQAIA 175

Query: 172 EKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDH 231
             +  ET RID LI ++ R IELLKEK+ AL++  VTKGL+P+V MKDSGIEW+G VP+H
Sbjct: 176 SFLDRETARIDALIQKKERMIELLKEKRIALITQAVTKGLDPNVPMKDSGIEWLGEVPEH 235

Query: 232 WEVKPFFALVTELNRKNTKLIES-----NILSLSYGNIIQKLETRNMGLKPESYETYQIV 286
           W V  F  + +          E       I      ++        M     S      +
Sbjct: 236 WTVLKFKNIGSFQGGAGFPDDEQGLEDEEIPFYKVSDMNLPGNETYMCQHNNSVSRETAL 295

Query: 287 DPGEIVFRFIDLQNDKRSLR-----SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD 341
                + R   +   K            + +   I +  M       D  +  + +   D
Sbjct: 296 KLRASILRKNTIVFAKVGAALLLNRRRIITKDSCIDNNMMGFSTTHCDVMWCYFFLFQLD 355

Query: 342 LCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
           L K+      G   S+    +  +PV VPP +EQ  I + +  ET +I+ +++K+  SI+
Sbjct: 356 LGKLVNP---GAVPSVNESQMSNIPVCVPPTQEQKQIGDYLVTETTKINKMIDKVNASII 412

Query: 402 LLKERRSSFIAAAVTGQIDLRG 423
            L E R+S I  AVTG+IDLRG
Sbjct: 413 QLSEYRASLIHHAVTGKIDLRG 434


>gi|330941784|gb|EGH44533.1| hypothetical protein PSYPI_19973 [Pseudomonas syringae pv. pisi
           str. 1704B]
          Length = 472

 Score =  218 bits (556), Expect = 1e-54,   Method: Composition-based stats.
 Identities = 90/438 (20%), Positives = 167/438 (38%), Gaps = 20/438 (4%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLP 65
           AYP Y+   ++W+  +PKHW     K F +    R+    +++  + +  +   T +   
Sbjct: 6   AYPSYRQPKMRWLSTVPKHWNEQRAKTFFREVNERSKTGLEEL--LSVSHLTGITPRSQK 63

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ 125
                + +      +   G I+   L  ++     +  +GI S  + V +P         
Sbjct: 64  NVTMFKAASYVGSKLCRPGDIVINTLWAWMAALGTSRHEGIVSPAYGVYRPHQADSFSPA 123

Query: 126 GWLLSIDVTQRIEAICEGAT-----MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
                +     +      +T               +I +  PP  EQ  I   + A+   
Sbjct: 124 YLDYLLRTRFYVAEYIGRSTGIRASRLRLYPNQFLDIQLIQPPRPEQDQIVAYLRAQDAH 183

Query: 181 IDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFAL 240
           I   I  +   I+L+ E+K  ++ + VT GL+  V +K S +EW+G VP HWEV     +
Sbjct: 184 IARFIKTKRDLIKLITEQKLHIIDHAVTGGLDASVALKPSDVEWLGEVPKHWEVAFIKHI 243

Query: 241 VTELNRKNTKLIESNILSLSYGNI----IQKLETRNMGLKPESYETYQI----VDPGEIV 292
                    K    +   +   N          T +M L   +    +I    +  G+++
Sbjct: 244 ANVHFSGVDKHSHDDETPVRLCNYTDVYKNDRITDDMNLMRATATAAEIARLTLKAGDVI 303

Query: 293 FRFIDLQNDKRSLRSAQVME----RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA 348
                   D   + +    +            +   P  +   +L   + S    + F+ 
Sbjct: 304 LTKDSETPDDIGVPAWVPEDLPGVVCAYHLGLLRPVPDRVLGEFLFRAIGSARTAQQFHI 363

Query: 349 MGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
           + +G  R +L   DVK   + +PP++EQ  I   I  E   ++ ++ + E  I L++E R
Sbjct: 364 LATGVTRFALGKHDVKNAVIALPPVEEQQAICRWITDECRPLNDVIARTEDEIKLIREYR 423

Query: 408 SSFIAAAVTGQIDLRGES 425
              IA  VTGQ+D+RG  
Sbjct: 424 DRLIADVVTGQVDVRGWQ 441


>gi|315638759|ref|ZP_07893932.1| restriction endonuclease S subunit [Campylobacter upsaliensis JV21]
 gi|315481168|gb|EFU71799.1| restriction endonuclease S subunit [Campylobacter upsaliensis JV21]
          Length = 438

 Score =  217 bits (553), Expect = 3e-54,   Method: Composition-based stats.
 Identities = 107/442 (24%), Positives = 204/442 (46%), Gaps = 26/442 (5%)

Query: 1   MKHY--KAYPQ----YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK-----DII 49
           MK +    Y      YK SG++W+G IPKHW++  + + +    G   ES        I 
Sbjct: 1   MKKHTQSPYESSEISYKPSGIKWLGEIPKHWEICKLNKVSYFINGYAFESSHFDYSFSIP 60

Query: 50  YIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD--FDGIC 107
            I + D+++    Y        Q +     I+  G I+    G    K  + +       
Sbjct: 61  VIRIGDIQNDKIIYHTCLMTKEQENLKNFMIYR-GDIVIALSGATTGKFAVCNSNKKAYI 119

Query: 108 STQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQ 167
           + +  +++    + +    +L +      I+ +C G+   +   K +GN  +P+PPL EQ
Sbjct: 120 NQRVAIIRSDIKILKY---YLSTFGFVNYIDMLCNGSAQPNISTKEVGNFKIPLPPLQEQ 176

Query: 168 VLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGL 227
             I E +  +  +I   I ++ + I LL+EKKQAL++ +VTKGLNP+++ K+SGI ++GL
Sbjct: 177 KEIAEFLDKKCEKIQNYIDKKQKLITLLQEKKQALINEVVTKGLNPNIEFKNSGIAYLGL 236

Query: 228 VPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK-------PESY 280
           +P HWE+K    +   +  K          S  Y    + L+  N+ +         E  
Sbjct: 237 IPHHWEIKKLKYVGKVVLGKMLCNEHQKGYSHCYYLKSKNLQWLNVEVSQIEKMWFSEYE 296

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY 340
           ++   +   +++         K  + + ++ E  I  S +        ++ +  +L  +Y
Sbjct: 297 KSLYRIKKDDLLVSEGGEVG-KTCIWNNELAECYIQNSVHKITLNKFNNAKFFLYLFFTY 355

Query: 341 DLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
               VF ++ S +    L  E +  + ++VPP++EQ  I N ++ +  +I+  +EK ++ 
Sbjct: 356 GKLGVFDSVVSRVSIAHLVLEKLVNVDMVVPPLQEQKQIANFLDEKCEKINSAIEKTKRQ 415

Query: 400 IVLLKERRSSFIAAAVTGQIDL 421
           I L+KE +++ I  AV G+I +
Sbjct: 416 IELIKEYKNTLINEAVCGRIRV 437


>gi|254491851|ref|ZP_05105030.1| Type I restriction modification DNA specificity domain protein
           [Methylophaga thiooxidans DMS010]
 gi|224463329|gb|EEF79599.1| Type I restriction modification DNA specificity domain protein
           [Methylophaga thiooxydans DMS010]
          Length = 454

 Score =  217 bits (552), Expect = 3e-54,   Method: Composition-based stats.
 Identities = 105/441 (23%), Positives = 184/441 (41%), Gaps = 25/441 (5%)

Query: 3   HYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGK 62
            Y  Y QY+   + W    PK W +  +K  + +N G++  S              G  +
Sbjct: 7   KYAPYSQYETVALPWFDTKPKEWMLTRLKFTSSINMGQSPNSDDCNDEGHGRPFLQGNAE 66

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPE 122
           +  +   ++    +     ++G +L     P     I     GI      +        +
Sbjct: 67  FGMRTPKAKLFCEAAKKTCSEGDVLLSVRAPVGELNIANQEYGIGRGLCAITAQSV---K 123

Query: 123 LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
               W L      ++ A+  G+T      + + N+   +P  +EQ  I   +  ET +ID
Sbjct: 124 ADFMWWLLQASVSQLRAVATGSTFQAVSAEQVSNLTCLLPAQSEQTQIATFLDRETAKID 183

Query: 183 TLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVT 242
            LI ++ R I+LL+EK+QA++S+ VTKGLNPDV MKDSG+EW+G +P  W +      + 
Sbjct: 184 RLIEKQQRLIKLLEEKRQAVISHAVTKGLNPDVPMKDSGVEWLGEIPSMWSIVQLRRGID 243

Query: 243 --------------------ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET 282
                               + + K    + +  L      ++     R+   K  SY +
Sbjct: 244 FLTDFEANGSFAEVKKNVSLDTDNKYAWYVRATDLEHRRFGLVDG--NRSCNEKSYSYLS 301

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
              +D GE++            +               + +  +        W + SY  
Sbjct: 302 KTTLDGGELLVAKRGEIGKVYLMPEIDCRATLAPNLYLIRLNDNFFPQFTYYWFISSYGK 361

Query: 343 CKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
            ++  A  S    +L  +DV+   + +PP++EQ  I   I+  T +I  L+ K+++SI L
Sbjct: 362 SELVNADKSTTIGALYKDDVRACIIPMPPVQEQILIVKHISERTDKIQRLITKVQKSIAL 421

Query: 403 LKERRSSFIAAAVTGQIDLRG 423
             ERR++ I+AAVTG+ID+R 
Sbjct: 422 STERRAALISAAVTGKIDVRD 442


>gi|146280647|ref|YP_001170800.1| type I restriction-modification system, S subunit [Pseudomonas
           stutzeri A1501]
 gi|145568852|gb|ABP77958.1| type I restriction-modification system, S subunit [Pseudomonas
           stutzeri A1501]
          Length = 421

 Score =  217 bits (552), Expect = 3e-54,   Method: Composition-based stats.
 Identities = 115/439 (26%), Positives = 189/439 (43%), Gaps = 36/439 (8%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES---GKDIIYIGLEDVE 57
           M HYK YP YKDSGV+W+G +P+HW + P K   ++  G   +          IG     
Sbjct: 1   MSHYKPYPAYKDSGVEWLGRVPEHWTIGPYKATIQIENGSDYKEVEADDGYPVIGSG--- 57

Query: 58  SGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPK 117
                             S+  ++    +L G+ G   +   +        T +      
Sbjct: 58  -------------GPFAYSSKLMYDGESVLLGRKGTIDKPLYVNGAFWAVDTMYW----S 100

Query: 118 DVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
            + P     +      T   +       +       +G+  +  P   EQ  I   +  E
Sbjct: 101 IIKPGAHGRFAYYTATTIPFDMYSTNTALPSMTKSVLGSHVVAFPGFEEQQAIAGHLDRE 160

Query: 178 TVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPF 237
           T RID L+ ++IRFIELL+EK+QAL+++ VTKGL+P VKMKDSG+EW+G VP+HW +K F
Sbjct: 161 TARIDALVEKKIRFIELLREKRQALITHAVTKGLDPSVKMKDSGVEWLGAVPEHWVIKRF 220

Query: 238 FALVTELNR-------KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYE----TYQIV 286
             +   ++         N   I   I  ++  +II +  + +  +   +      ++  +
Sbjct: 221 RDICISISTGPFGTALGNEDYITGGIPVINPSHIIDEQCSPDPDITVSTETALRLSFWAM 280

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF 346
             G++V            +   Q        S  +   P    + YL  +++S    +  
Sbjct: 281 RAGDLVTARRGELGRAAIIFGEQDGWICGTGSLRVRPNPSQALTEYLHTVLQSRYAREWL 340

Query: 347 Y-AMGSGLRQSLKFEDVKRLPVLVPPI-KEQFDITNVINVETARIDVLVEKIEQSIVLLK 404
             A       +L    +  LP+ +PP   EQ  + + +  ++ R+  + +K   S+ LLK
Sbjct: 341 NLASVGATMANLNEGILGSLPLALPPSTAEQEKLLSSLAAQSERLIKIEQKAALSVALLK 400

Query: 405 ERRSSFIAAAVTGQIDLRG 423
           E RS+ I AAVTGQIDLR 
Sbjct: 401 ECRSALITAAVTGQIDLRE 419


>gi|186685410|ref|YP_001868606.1| type I restriction enzyme, S subunit [Nostoc punctiforme PCC 73102]
 gi|186467862|gb|ACC83663.1| type I restriction enzyme, S subunit [Nostoc punctiforme PCC 73102]
          Length = 440

 Score =  216 bits (549), Expect = 7e-54,   Method: Composition-based stats.
 Identities = 95/434 (21%), Positives = 168/434 (38%), Gaps = 20/434 (4%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLP 65
            Y  YK   ++W+  IP+HWK+   K   +  +   S   K I      D +    +   
Sbjct: 5   RYQAYKKCDIEWLLEIPEHWKIDRAKSLFREMSRPVSPRDKIITVFR--DGQVTLRENRR 62

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ 125
             G +   +        KG +++  +  +     ++D DG  + ++LV    D     + 
Sbjct: 63  VTGFTNAIEEYGYQGIRKGDLVFHAMDAFAGAIGVSDSDGKATPEYLVYTTIDKNKIYVP 122

Query: 126 GW-----LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
            +      +++                         + +PIPP  EQ  I   +  +T +
Sbjct: 123 FFGFLLRQMALSGFVLALGKSVRERSPRFKHTKFVTLDLPIPPFTEQETIAHYLDTKTAQ 182

Query: 181 IDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFAL 240
           ID  I    +   L    KQ+L++  VT GL+  V M+DSGIEW+G VP+HW++K    L
Sbjct: 183 IDRKIDLLTQKATLYGNLKQSLINETVTCGLDKSVPMRDSGIEWIGEVPEHWDIKRLKDL 242

Query: 241 VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK--------PESYETYQIVDPGEIV 292
               N    K    + + +   N +   +   +            +S      +  G++ 
Sbjct: 243 SDIQNSNVDKKSHDDEIPIKLCNYVDVYKNEFINTSLDFMDATANKSEIKQFTIKEGDVF 302

Query: 293 FRFIDLQNDKRSLRS-AQVMERGIITSAYM---AVKPHGIDSTYLAWLMRSYDLCKVFYA 348
                   D  ++ + A    +G+I   ++     K      +YL  L +S      F  
Sbjct: 303 ITKDSETCDDIAIPALAAESIKGVIYGYHLARLRTKEKVFLGSYLFRLFQSKSYGFRFVI 362

Query: 349 MGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
              G  R  L    +      VP + EQ  I + ++ +TA+ID +++ I   I  LKE R
Sbjct: 363 SAKGITRVGLGQSAIADSLTPVPLLSEQKAIADYLDTKTAQIDQIIQTINTQIEKLKELR 422

Query: 408 SSFIAAAVTGQIDL 421
            + I   VTG+I +
Sbjct: 423 KTLINDVVTGKIRV 436



 Score = 92.9 bits (229), Expect = 9e-17,   Method: Composition-based stats.
 Identities = 41/211 (19%), Positives = 80/211 (37%), Gaps = 4/211 (1%)

Query: 209 KGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKL 268
             +      K   IEW+  +P+HW++    +L  E++R  +   +   +       +++ 
Sbjct: 1   MKIERYQAYKKCDIEWLLEIPEHWKIDRAKSLFREMSRPVSPRDKIITVFRDGQVTLREN 60

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
                         YQ +  G++VF  +D       +  +           Y  +  + I
Sbjct: 61  RRVTGFTNAIEEYGYQGIRKGDLVFHAMDAFAGAIGVSDSDGKATPEY-LVYTTIDKNKI 119

Query: 329 DSTYLAWLMRSYDLCKVFYAMGSGLR---QSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
              +  +L+R   L     A+G  +R      K      L + +PP  EQ  I + ++ +
Sbjct: 120 YVPFFGFLLRQMALSGFVLALGKSVRERSPRFKHTKFVTLDLPIPPFTEQETIAHYLDTK 179

Query: 386 TARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           TA+ID  ++ + Q   L    + S I   VT
Sbjct: 180 TAQIDRKIDLLTQKATLYGNLKQSLINETVT 210


>gi|227540803|ref|ZP_03970852.1| type I restriction-modification system S subunit [Corynebacterium
           glucuronolyticum ATCC 51866]
 gi|227183432|gb|EEI64404.1| type I restriction-modification system S subunit [Corynebacterium
           glucuronolyticum ATCC 51866]
          Length = 442

 Score =  215 bits (548), Expect = 8e-54,   Method: Composition-based stats.
 Identities = 112/437 (25%), Positives = 190/437 (43%), Gaps = 19/437 (4%)

Query: 7   YPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGK 62
           Y  YKDSGV WI  IP+ W V       K + G   +        I  +    + +    
Sbjct: 4   YEHYKDSGVPWIDKIPQLWTVDRFSMSFKFSRGLDIKKRDLEAAGIPVLSYGQIHAKHNP 63

Query: 63  YLPKD--------GNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADF-----DGICST 109
            +            +         +   +G +++      +  A                
Sbjct: 64  VVTISPDLVRFIPADKIGGGNLEDARLREGDLVFADTSEDVHGAGNFSRSDGSQMIHAGY 123

Query: 110 QFLVLQPKDVLPELLQGWLLSID-VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQV 168
             L+ +P++        +L S +    +I    +G  +         +  +  PP+  Q 
Sbjct: 124 HTLLARPRETYEHKYFAYLFSSEAWRHQIRRAVQGVKVYSITQGVFKHAQLLRPPVETQD 183

Query: 169 LIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLV 228
            I   + A+T  ID ++ +  R   LL+  K+ L+++ VTKGLNP+  MKDS  E++G  
Sbjct: 184 AIVAFLDAKTAEIDVVVEKLRRQRALLERYKRELIAHTVTKGLNPESPMKDSEYEFIGTY 243

Query: 229 PDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDP 288
           P  W+ +P F +  ++   N++L     L    G+II K +  +     +    Y +V P
Sbjct: 244 PADWQNRPLFDICDQVKLDNSELQTIVALQFKNGSIIAKPDWDDSPQSLDILSGYTLVSP 303

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID-STYLAWLMRSYDLCKVFY 347
           G IV   ++L  D ++ R   V   G ITSAY+ + PH    S YL +L +S D  K  +
Sbjct: 304 GMIVINGLNLNYDFKTKRIGLVKNNGAITSAYIVISPHRDIESRYLNYLFKSIDAQKALH 363

Query: 348 AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
            M  G+R+ L ++D++RL + +P   +Q  I N ++ +TA ID L+  I++ I LL   R
Sbjct: 364 GMTEGVRKILNWKDIRRLTLPMPNSSQQIAIANYLDTKTAEIDSLIANIDRQIALLGAYR 423

Query: 408 SSFIAAAVTGQIDLRGE 424
              I   VTG++ +  E
Sbjct: 424 KQVINDVVTGKVRVSEE 440


>gi|257095818|ref|YP_003169459.1| type I restriction-modification system specificity subunit
           [Candidatus Accumulibacter phosphatis clade IIA str.
           UW-1]
 gi|257048342|gb|ACV37530.1| type I restriction-modification system specificity subunit
           [Candidatus Accumulibacter phosphatis clade IIA str.
           UW-1]
          Length = 475

 Score =  215 bits (547), Expect = 1e-53,   Method: Composition-based stats.
 Identities = 89/444 (20%), Positives = 179/444 (40%), Gaps = 22/444 (4%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDV 56
           +   K Y +YK+SG+ W+G +P HW V   +    L  G            +  +   ++
Sbjct: 2   IADLKPYAEYKESGLLWLGQVPGHWDVRKPRHIGSLLKGVGGTKEDALPAGVPCVRYGEL 61

Query: 57  ESGTGKYLPKDGNSRQSDTST-VSIFAKGQILYGKLGPYLR-----KAIIADFDGICSTQ 110
            +    ++ +      +D +   +    G +L+   G  L         + D   +C   
Sbjct: 62  YTTHAYFVRRPKTFIHADRAADYTPLHYGDVLFAASGETLEDIGKSAVNLIDGTAVCGGD 121

Query: 111 FLVLQPKDVLPELLQGWLL-SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVL 169
            ++L+P   +     G+++    +  +   +  G T+ H     + ++  P+PP+ EQ  
Sbjct: 122 VIILRPSVPVHAPFLGYVMDCRPLANQKATMGRGTTVKHVYPDELKHLVFPLPPVPEQAA 181

Query: 170 IREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVP 229
           I   +     R++  I  + + I LL E+KQA+V   VT+GL+P V +K SGI W+G +P
Sbjct: 182 IVRFLNWANGRLERAIRAKRKVIALLNEQKQAIVHRAVTRGLDPSVPLKPSGIPWLGDIP 241

Query: 230 DHWEVKPFFA---LVTELNRKNTKLIESNIL------SLSYGNIIQKLETRNMGLKPESY 280
            HW V         + +      +  ++          +  G ++     +        +
Sbjct: 242 RHWRVWRLKFVALNIVDCLHATPRYSDAGTHPAIRTADIVAGVVLVDQAKKVSSRDYARW 301

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY 340
            T      G+I++     +    +   A   +  I     +        S ++ WL+ S 
Sbjct: 302 TTRLQPQEGDILYSREGERFGIAACVPA-ATQLCISQRMMVFRIATQHCSKFVMWLLNSR 360

Query: 341 DLCKV-FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
                    +       +    ++   + +P  +EQ  +   I  ET  I+V ++++++ 
Sbjct: 361 STYGQALQDVMGATAPHVNISTIRNYYLALPLKREQEAVVERIGAETHPIEVAIDRLKRE 420

Query: 400 IVLLKERRSSFIAAAVTGQIDLRG 423
           I LL+E R+  IA  VTG++D+R 
Sbjct: 421 IELLREYRTRLIADVVTGKVDVRE 444


>gi|53802449|ref|YP_112811.1| hypothetical protein MCA0277 [Methylococcus capsulatus str. Bath]
 gi|53756210|gb|AAU90501.1| conserved hypothetical protein [Methylococcus capsulatus str. Bath]
          Length = 474

 Score =  215 bits (547), Expect = 1e-53,   Method: Composition-based stats.
 Identities = 86/437 (19%), Positives = 171/437 (39%), Gaps = 21/437 (4%)

Query: 7   YPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPK 66
           YP Y+ +  +W+  +P+HW ++  K F +    R+    + ++ + ++           K
Sbjct: 7   YPNYQPTRSRWVPRVPEHWSLLRAKNFLREIDDRSKTGEETLLSMRMQRGLVPHNDVSVK 66

Query: 67  DGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP----- 121
                  +          +++  ++         +   G+ S  + V +           
Sbjct: 67  RIA--PENLIGYKKVQPNELVLNRMQAGNAMFFRSRQSGLVSPDYAVFRLLRDDNPEYLG 124

Query: 122 ELLQGWLLSIDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
            L + W +        + +  G +           ++ +P+PP  EQ  I   + A+   
Sbjct: 125 HLFRSWPMRGLFRSESKGLGTGTSGFLRLYSDRFASLEIPLPPRPEQDQIVAYLRAQDAH 184

Query: 181 IDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFAL 240
           I   I  +   I+LL E+K  ++ + VT+GL+P+V++K SGI+W+G VP+HWEV     +
Sbjct: 185 IARYILAKRELIKLLTEQKLTIIDHAVTRGLDPNVRLKPSGIQWLGEVPEHWEVASIKHI 244

Query: 241 VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE--------SYETYQIVDPGEIV 292
                    K    +   +   N     +   +    +        +      +  G+++
Sbjct: 245 ADVRFSGVDKHSNDDETPVRLCNYTDVYKNERITADMDLMRATATAAEIARLTLKAGDVI 304

Query: 293 FRFIDLQNDKRSLRSAQVME----RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA 348
                   D   + +    +            +   P  +   +L   + S    + F+ 
Sbjct: 305 LTKDSETPDDIGVPAWVPEDLPGVVCAYHLGLLRPVPQRVLGEFLFRSIGSTRTAQQFHV 364

Query: 349 MGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
           + +G  R +L   DVK   + +PP++EQ  I   I  E   +D  + + E+ I L++E R
Sbjct: 365 LATGVTRFALGKHDVKNAIIALPPVEEQQAICRWIVEECQPLDEAIARAEEEIQLIREYR 424

Query: 408 SSFIAAAVTGQIDLRGE 424
              IA  VTGQID+RG 
Sbjct: 425 DRLIADVVTGQIDVRGW 441


>gi|126664813|ref|ZP_01735797.1| type I restriction-modification [Marinobacter sp. ELB17]
 gi|126631139|gb|EBA01753.1| type I restriction-modification [Marinobacter sp. ELB17]
          Length = 444

 Score =  215 bits (547), Expect = 1e-53,   Method: Composition-based stats.
 Identities = 113/436 (25%), Positives = 186/436 (42%), Gaps = 24/436 (5%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT 60
           M  +  Y +YKD+ + WI  IP  W++  + +   +  G    +    ++      +   
Sbjct: 1   MS-FPRYSEYKDTEINWIAQIPTGWQIASLSKLFSIKAGGDVNTD---VFSETRTHDRPF 56

Query: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL 120
             Y   +  +     ++ + +    I     G Y+  A   D       + LVL PK  L
Sbjct: 57  PIYTNANNPNIVYGYTSKAKYGPNCITVSGRG-YVGFAAFRDHIFDAIIRLLVLTPKKDL 115

Query: 121 PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
                 +     + + ++   E + +       I    +  P   EQ  I   +  ET +
Sbjct: 116 NCKFFEYF----INEVVDFREESSAIGQLSTNQIAPYKVAFPDCREQSKITHFLDHETAK 171

Query: 181 IDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFAL 240
           IDTLI E+ R IELLKEK+QA++S+ VTKGL+PDV +KDSG+EW+G VP HW V      
Sbjct: 172 IDTLIHEQKRLIELLKEKRQAVISHAVTKGLDPDVPIKDSGVEWLGDVPAHWGVATIRRF 231

Query: 241 VTELNRKNTKLIESNILSLSYG-NIIQKLETRNMGLKPESYETYQI----------VDPG 289
              +    T  +E     ++ G N     +     +  ES +  +I             G
Sbjct: 232 AKAVRTGGTPSLEMPNSEIADGINWFTPGDFNGSLMLHESEKQLRISSISSGDAKLFPGG 291

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
            ++   I     K +           I    + V    I+  +L + + +      F + 
Sbjct: 292 SVLVVGIGATLGKVAKVDDDFSANQQIN---VIVPGKRINGHFLVYSLSAQKSQMRFVSN 348

Query: 350 GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
            S     +  E  K + +++PP++EQ  IT  ++     +D LV K    I+LLKERRS+
Sbjct: 349 AS-TIGIMNQEKTKDIVLVLPPVEEQTQITESLDRGVQNLDQLVIKAASGILLLKERRSA 407

Query: 410 FIAAAVTGQIDLRGES 425
            I+AAVTG+ID+R   
Sbjct: 408 LISAAVTGKIDVRDWQ 423


>gi|258545847|ref|ZP_05706081.1| type I restriction-modification system specificity determinant
           [Cardiobacterium hominis ATCC 15826]
 gi|258518863|gb|EEV87722.1| type I restriction-modification system specificity determinant
           [Cardiobacterium hominis ATCC 15826]
          Length = 465

 Score =  215 bits (547), Expect = 1e-53,   Method: Composition-based stats.
 Identities = 94/434 (21%), Positives = 178/434 (41%), Gaps = 14/434 (3%)

Query: 4   YKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKY 63
           +  YP Y+ + ++W   +P+ W ++  K+  +L   +   + +  +      +     K 
Sbjct: 2   FGPYPDYRRTDLKWFEYLPESWGILRAKQMFRLVIEKAPANNQMELLSVYTHIGVRPRKS 61

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPEL 123
           L + GN     T    +  +G I+  KL  ++     + + G+ S  + +L+P       
Sbjct: 62  LEQRGNKAS-TTDGYWVVKEGDIICNKLLAWMGAIGASHYQGVTSPAYDILRPVKPCNTD 120

Query: 124 LQGWLLSIDVTQRIEAICE---GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
              +L       +   I             +   G IP+P+P  +EQ  I   + A+   
Sbjct: 121 YYHFLFRTKKYLQQFKIRSRGIMDMRLRLYFDQFGQIPIPVPSRSEQDQIVAYLRAQDAY 180

Query: 181 IDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFAL 240
           I   I  +   I+LL E+K  ++ + VT+GL+  V ++ SGIEW+G VP+HWEV+    +
Sbjct: 181 IARFIKAKRDLIKLLTEQKLRIIDHAVTRGLDSSVALRPSGIEWLGEVPEHWEVQRLKNV 240

Query: 241 VTELNRK--------NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIV 292
              +  K             +  + S +   I   +         ++      +  G+++
Sbjct: 241 ANMVLGKMLTTEAKAGDGDFKPYLRSTNVQWIKPDVRDVKEMWVAKAEMAQLRIRKGDLL 300

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
                    +  + + ++ E  I  S +       +   +L     +Y     F A+ + 
Sbjct: 301 VSEGGEVG-RACMWNDELPECYIQNSVHRVAAKPMMLPEFLFHQFFTYGKRGRFNAIVNR 359

Query: 353 L-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
           +    L  E +  +P  VPPI+EQ  I   I  E   +D  + + E+ I L++E R   I
Sbjct: 360 VSIAHLTREKLVTVPFTVPPIEEQKAICRWITEECQPLDDAIARAEEEIKLIREYRDRLI 419

Query: 412 AAAVTGQIDLRGES 425
           A  VTGQ+D+RG  
Sbjct: 420 ADVVTGQVDVRGWQ 433


>gi|238920394|ref|YP_002933909.1| restriction modification system DNA specificity domain protein
           [Edwardsiella ictaluri 93-146]
 gi|238869963|gb|ACR69674.1| restriction modification system DNA specificity domain protein
           [Edwardsiella ictaluri 93-146]
          Length = 435

 Score =  215 bits (547), Expect = 1e-53,   Method: Composition-based stats.
 Identities = 102/433 (23%), Positives = 178/433 (41%), Gaps = 21/433 (4%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRT----------SESGKDIIYIGLE 54
             Y  YK+SGV+WI  +P+ W +V IK +  +  G +          SE      YI  +
Sbjct: 7   PKYDTYKNSGVEWIEQVPEGWGLVKIKNYADVFNGDSLNDKQKAKYESEDQSHRSYISSK 66

Query: 55  DVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLG-PYLRKAIIADFDGICSTQFLV 113
           D++    K   ++G       S+  +      L    G    +K    + +     +   
Sbjct: 67  DIDVNYSKINYQNGLRIP-KGSSYKVCPSNSTLMCIEGGSAGKKIAYTNQEVCFVNKLAC 125

Query: 114 LQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
                 +      + LS    +          +       I N  + +P   EQV I   
Sbjct: 126 FLASKRIDSHFLYYYLSSVTFKSQFFNSMTGLIGGVSISAIKNFWLVLPSPTEQVAIASF 185

Query: 174 IIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWE 233
           +  +  +ID  IT + + I LLKE+KQ L+    T+GL+P V MKDSG++W+G +P+HW+
Sbjct: 186 LSKKLSQIDEAITTKEQQISLLKERKQILIQQAATQGLDPCVPMKDSGVDWIGKIPEHWQ 245

Query: 234 VKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVF 293
           V  F  L ++      K              ++     +   +      YQ +  G++V 
Sbjct: 246 VIRFKNLFSQSRIPVRKEDGVVTSYRDGQVTLRSNRRLDGYTEAIIEGGYQGIRKGQLVL 305

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA--WLMRSYDLCKVFYAMGS 351
             +D       +  +     G  T  Y+   P   D +     +L+R   L K    + +
Sbjct: 306 NSMDAFEGAIGVSESD----GKCTPEYVICDPVRADVSQYYFAYLLREMALAKYIQVICN 361

Query: 352 GLRQ---SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
            +RQ    ++F ++    +++PP  EQ  I   I  E  +I+  VE ++  I  LKE ++
Sbjct: 362 AVRQRAVRIRFNNLASRFMVLPPSDEQEKIVEFIESEKGKINKGVEHLKGQIEKLKEYKT 421

Query: 409 SFIAAAVTGQIDL 421
           + I +AVTG+I +
Sbjct: 422 TLINSAVTGKIKV 434


>gi|77361017|ref|YP_340592.1| type I restriction-modification system, S subunit
           [Pseudoalteromonas haloplanktis TAC125]
 gi|76875928|emb|CAI87149.1| putative type I restriction-modification system, S subunit
           [Pseudoalteromonas haloplanktis TAC125]
          Length = 442

 Score =  215 bits (546), Expect = 2e-53,   Method: Composition-based stats.
 Identities = 108/442 (24%), Positives = 188/442 (42%), Gaps = 32/442 (7%)

Query: 2   KHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVE 57
           + YKAYP+Y++S + W+  IP +W+ +P++       G   +S       I  +   D++
Sbjct: 9   RKYKAYPEYQNSDIDWLRKIPNYWQTIPLRLILDTRKGVAFKSNDFTSSGIRVVKASDIK 68

Query: 58  SGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPY----------LRKAIIADFDGIC 107
             T         +        +I  KG I+   +G            +          + 
Sbjct: 69  KLTINSSEVYLPTNYISIYPKAILRKGDIILSTVGSNPDVKNSAVGQIGVVPEHLDGALL 128

Query: 108 STQFLVLQPKDVLPELLQGW---LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPL 164
           +   +V +PK+        +    ++             A  S      + N  +PIPP 
Sbjct: 129 NQNTVVFEPKEDKIHREFLFKVIQMNGYRDHLDLNAHGTANQSSLSISDMLNFYIPIPPK 188

Query: 165 AEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEW 224
            EQ  I   +  ET +IDTLI ++ + IELLKEK+QA++S+ VTKGLNP+  M+DSG+EW
Sbjct: 189 NEQQKIASFLDHETAKIDTLIAKQEKLIELLKEKRQAVISHAVTKGLNPNAPMRDSGVEW 248

Query: 225 VGLVPDHWEVKPFFALVTELNRK--NTKLIESNILSLSYGNIIQKLETRNMGLKPESYET 282
           +G VP+HW +      V+  + +  ++ L+E N   L    +I             +++T
Sbjct: 249 LGEVPEHWLIGSLRWKVSISSGEGLSSNLVEKNKTELKKIPVIGGNGVMGFSESSNTHKT 308

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
              +     +   + L N    +    +                  D     +L+     
Sbjct: 309 AIAIGRVGALCGNVHLINYISWITDNALK-------------ISSWDGFDENYLISLLKA 355

Query: 343 CKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
             +     +  +  +  E +K L V++PP+KEQ  I   +       D L ++ +  I L
Sbjct: 356 ANLNNLASTTAQPLITGEQIKSLIVVIPPLKEQIKINLKLTKIVNLFDKLEKRSKDGINL 415

Query: 403 LKERRSSFIAAAVTGQIDLRGE 424
           LKER+++ I+AAVTG+ID+R  
Sbjct: 416 LKERKTALISAAVTGKIDVRNW 437


>gi|194288966|ref|YP_002004873.1| type I restriction-modification methylase s subunit [Cupriavidus
           taiwanensis LMG 19424]
 gi|193222801|emb|CAQ68804.1| type I restriction-modification methylase S subunit [Cupriavidus
           taiwanensis LMG 19424]
          Length = 458

 Score =  215 bits (546), Expect = 2e-53,   Method: Composition-based stats.
 Identities = 102/452 (22%), Positives = 194/452 (42%), Gaps = 31/452 (6%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRT----SESGKDIIYIGLEDV 56
           M   + Y  Y+DSG+ W+G +P HW+V  ++   + N  ++     +    + ++ ++ +
Sbjct: 1   MS-LQRYAAYRDSGIDWLGDMPAHWQVRRLRFAAEFNPSKSEVSHLDRDTLVSFLPMDAI 59

Query: 57  ESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKA------IIADFDGICSTQ 110
               G  + +         +  + F +G + + K+ P            +    G  +T+
Sbjct: 60  -GEEGSLVLEQVRQVSQVETGYTYFHEGDVAFAKITPCFENGKGAVMRGLLGGVGFGTTE 118

Query: 111 FLVLQPKDV--LPELLQGWLLSIDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQ 167
            +V +P+      E L     SI   +  E    GA            +  +  PPL+EQ
Sbjct: 119 LIVARPRSDVTCSEYLHWLFCSIPFRKLGEGAMYGAGGQKRVPEDFARDFAIAFPPLSEQ 178

Query: 168 VLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGL 227
             I   + +ET +IDTLI+E+ + + LL EK+QA +S IVT+GL P V++K  G +W+G 
Sbjct: 179 NAIVTFLYSETSKIDTLISEQDKLLVLLAEKRQATISRIVTRGLEPKVQIKSVGADWLGE 238

Query: 228 VPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY---- 283
           +P HW+ K    L + + +  +   E+          + K+   N G+   +        
Sbjct: 239 IPIHWQAKRVKWLTSSIEQGWSPQCENYPAEGENEWGVLKVGCVNGGVFDAAENKKLPPE 298

Query: 284 ------QIVDPGEIVFRFIDLQNDKR-SLRSAQVMERGIITSAYMAVKPHG--IDSTYLA 334
                   +  G+++    + +     +    +   R ++      ++         +LA
Sbjct: 299 LEPFPEYSLRKGDLLISRANTRELVGSAAVVPKDFHRLLLCDKLYRLRLDQAKCTPEFLA 358

Query: 335 WLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
             + + +         +G      ++    +  L V +PP +EQ  I + +N E  R++ 
Sbjct: 359 AYLATGEARGQIELGATGASSSMLNIGQSVIMDLLVPLPPAEEQAAIMDFLNAELDRLER 418

Query: 392 LVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
           L     +SI LLK RR++ I AAVTG+ID+R 
Sbjct: 419 LSLAANKSIDLLKARRTALITAAVTGKIDVRN 450


>gi|289166196|ref|YP_003456334.1| type I restriction-modification system (methylase_S) [Legionella
           longbeachae NSW150]
 gi|288859369|emb|CBJ13305.1| putative type I restriction-modification system (methylase_S)
           [Legionella longbeachae NSW150]
          Length = 466

 Score =  214 bits (545), Expect = 2e-53,   Method: Composition-based stats.
 Identities = 100/434 (23%), Positives = 193/434 (44%), Gaps = 19/434 (4%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYL 64
           K Y  YK+S  +W+  IP+HW     K   K+   R+ +  +++  + + + +    +  
Sbjct: 2   KPYSSYKNSSEKWLNKIPEHWNFKRAKSVFKIIDIRSQDGSEEL--LSVSEKQGVALRKN 59

Query: 65  PKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV--LPE 122
                 + ++ +   +     ++   L  ++     +++ GI ST + V +  D      
Sbjct: 60  TNVTMFQAANYAGYKLCWPQDLVINSLWAWMTGLGFSEYHGIISTAYSVFRIWDQEKFNY 119

Query: 123 LLQGWLLSIDVTQRI---EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
               +LL   +        +     +          ++P+ +PPL+EQ  I   +  +T 
Sbjct: 120 KYGNYLLRSKIYNWEFRVRSKGIWRSRYQLSDDSFLSMPLLLPPLSEQQQIAIYLDWKTT 179

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFA 239
           +I+  I  + + I LLKE+KQ +++  VTKG+NPDV MKDSG++W+G +P+HWE++    
Sbjct: 180 KINKFIKAKKKLIALLKEQKQNIINEAVTKGINPDVNMKDSGVDWLGEIPEHWEIRKLKY 239

Query: 240 LVTEL------NRKNTKLIESNILSLSYGN-IIQKLETRNMGLKPESYETYQ---IVDPG 289
           + T+           T   +S I  L   N   + ++  N+               V P 
Sbjct: 240 VATKFGSGVTPKGGATVYQDSGIPFLRSQNIHFEGIKLENVAYISNDVHKRMSSSHVKPN 299

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITS-AYMAVKPHGIDSTYLAWLMRSYDLCKVFYA 348
           +++         +     + + +  +      +      + S YLA+ +    + +    
Sbjct: 300 DVLLNITGASIGRTCYVPSNLEQANVNQHVCIIRPIQKKVSSQYLAFYLSIPLIQRKILE 359

Query: 349 MGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
             +G  R+ L    +KRL V++P   EQ DI N I+ ET+ I+  ++K E  I L++E R
Sbjct: 360 EQNGASREGLTLSSIKRLNVILPTFNEQMDILNYISTETSVINKTIKKAELEIELIQEFR 419

Query: 408 SSFIAAAVTGQIDL 421
           +  I+  VTG+ID+
Sbjct: 420 TRLISDVVTGKIDV 433


>gi|299141338|ref|ZP_07034475.1| type I restriction-modification system specificity determinant
           [Prevotella oris C735]
 gi|298577298|gb|EFI49167.1| type I restriction-modification system specificity determinant
           [Prevotella oris C735]
          Length = 407

 Score =  214 bits (545), Expect = 2e-53,   Method: Composition-based stats.
 Identities = 94/421 (22%), Positives = 180/421 (42%), Gaps = 19/421 (4%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYL 64
           + Y  YKDSG QW+G IP HW++   K   K    R+ +  + ++ +   D         
Sbjct: 2   QTYDSYKDSGEQWLGRIPSHWEIRRSKFLWKETDRRSQKGTEQLLSVSQYDG------VR 55

Query: 65  PKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELL 124
             +  SR           K + +   +  +L    +++F+G+ S  + V   KD      
Sbjct: 56  EANAESRSESLVGYKYVHKDEFVINIMLAWLGGLGVSNFEGVVSPAYCVYHLKDKQNPRF 115

Query: 125 QGWLLSIDVTQRIEAICEG---ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
             +L          A        +         G++   +PP+ EQ  + + +  +T +I
Sbjct: 116 LHYLYRTPQYLAEFARHSTGIVPSRWRMYTDDFGDVLTILPPIEEQNRMVQYLDEQTSQI 175

Query: 182 DTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALV 241
           D +I ++ + I+LL E+KQ +++  VTKGL+P+V MKDSGI+W+G +P+HWE+K +  L 
Sbjct: 176 DEVIAQQQKMIDLLNERKQIIINNAVTKGLDPNVSMKDSGIDWIGKMPNHWELKQYKYLF 235

Query: 242 TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQND 301
              +     +        +              +       Y  +D   ++         
Sbjct: 236 YNFDNLRKPITADQRSRDNPMYDYYGASGVIDKID------YYNIDDKVLLIGEDGANLL 289

Query: 302 KRSLR-SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFE 360
            R+L    +   +  + +    +KP   +  ++A +M + D            +  L   
Sbjct: 290 MRNLPLVYKAKGKFWVNNHAHILKPIKDNYDFMALVMEAADYTLFI---TGSAQPKLSQA 346

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQID 420
           ++  + + +PPI+EQ  I N +N     +D  ++K ++ + LL+ER+   I   VTG+I+
Sbjct: 347 NLNSVKLPIPPIEEQEKIVNFVNENAGILDFPLKKAKKQVELLQERKQIIINEVVTGKIN 406

Query: 421 L 421
           +
Sbjct: 407 V 407


>gi|282849443|ref|ZP_06258828.1| type I restriction modification DNA specificity domain protein
           [Veillonella parvula ATCC 17745]
 gi|282581147|gb|EFB86545.1| type I restriction modification DNA specificity domain protein
           [Veillonella parvula ATCC 17745]
          Length = 427

 Score =  214 bits (545), Expect = 2e-53,   Method: Composition-based stats.
 Identities = 95/429 (22%), Positives = 175/429 (40%), Gaps = 23/429 (5%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSE-SGKDIIYIGLEDVESGTGKYLPKD 67
           + KDSGV+W+G IPK W    + +   L + R+++ S KD   + +       G     +
Sbjct: 3   EMKDSGVRWLGMIPKSWD---LDKIVSLYSERSTKVSDKDYPALSVT----KQGIVPQLE 55

Query: 68  GNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW 127
             ++  +     +  K   +            I++++G CS   +VL PK+ +      +
Sbjct: 56  SAAKTDNGDNRKLIKKNDFVINSRSDRRGSCGISEYEGSCSLINIVLAPKNNMVNRYYNY 115

Query: 128 LLSIDVTQRIEAICEGATMSHAD---WKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
           L   ++            +       W  + NI +P P L EQ  I E +  +  +IDT+
Sbjct: 116 LFKTELFADEFYKWGNGIVDDLWSTKWSNMKNIMVPFPSLEEQQAIAEHLDTKCAQIDTI 175

Query: 185 ITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTEL 244
           I +    IE L+E K+A+++Y V KGL+   +  DSGIEW+  +P HW++K         
Sbjct: 176 IAKEQSVIEKLQEYKRAIITYAVVKGLDITAETADSGIEWIDSIPSHWKIKRLIFSAYIR 235

Query: 245 NR------KNTKLIESNILSLSYGNIIQK----LETRNMGLKPESYETYQIVDPGEIVFR 294
            R      K  +        LS  NI        +   +            ++ G+++  
Sbjct: 236 ARLGWKGLKADEYTSEGHPFLSAVNIQNDKLVWEDLNFINDDRYDESPEIKLEIGDLLLV 295

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI-DSTYLAWLMRSYDLCKVFYAMGSG- 352
                  K ++            S+   + P+   +S YL +   S         + +G 
Sbjct: 296 KDGAGIGKCAVVDQLPYGTATTNSSLGVITPYPELNSMYLYYFFESAIFQNYISRIKNGM 355

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
               L   ++K + V++PP  EQ  I   ++ + A +D ++ + +  I  L E + S I 
Sbjct: 356 GVPHLTQGNLKNIMVIIPPYCEQEAIVTYLDEKCANLDSVILRKQSRIDKLTEYKKSLIY 415

Query: 413 AAVTGQIDL 421
             VTG+ ++
Sbjct: 416 EVVTGKKEV 424



 Score =  108 bits (270), Expect = 1e-21,   Method: Composition-based stats.
 Identities = 43/205 (20%), Positives = 89/205 (43%), Gaps = 10/205 (4%)

Query: 214 DVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNM 273
             +MKDSG+ W+G++P  W++    +L +E + K +      +     G + Q       
Sbjct: 1   MREMKDSGVRWLGMIPKSWDLDKIVSLYSERSTKVSDKDYPALSVTKQGIVPQ----LES 56

Query: 274 GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL 333
             K ++ +  +++   + V        D+R        E        +    + + + Y 
Sbjct: 57  AAKTDNGDNRKLIKKNDFVINSRS---DRRGSCGISEYEGSCSLINIVLAPKNNMVNRYY 113

Query: 334 AWLMRSYDLCKVFYAMGSGLRQSL---KFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
            +L ++      FY  G+G+   L   K+ ++K + V  P ++EQ  I   ++ + A+ID
Sbjct: 114 NYLFKTELFADEFYKWGNGIVDDLWSTKWSNMKNIMVPFPSLEEQQAIAEHLDTKCAQID 173

Query: 391 VLVEKIEQSIVLLKERRSSFIAAAV 415
            ++ K +  I  L+E + + I  AV
Sbjct: 174 TIIAKEQSVIEKLQEYKRAIITYAV 198


>gi|134045681|ref|YP_001097167.1| restriction modification system DNA specificity subunit
           [Methanococcus maripaludis C5]
 gi|132663306|gb|ABO34952.1| restriction modification system DNA specificity domain
           [Methanococcus maripaludis C5]
          Length = 447

 Score =  214 bits (544), Expect = 3e-53,   Method: Composition-based stats.
 Identities = 108/444 (24%), Positives = 192/444 (43%), Gaps = 30/444 (6%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKYL 64
             KDSG++WIG IP  W V  +K    LNTG +          +  +   D+ S     +
Sbjct: 4   AMKDSGIEWIGDIPADWGVKKLKYILGLNTGLSITKAELVENGVDCVNYGDIHSKYTFDI 63

Query: 65  PKDGNSRQS------DTSTVSIFAKGQILYGKLGPYLRKAIIA-------DFDGICSTQF 111
               ++         DT+  +I ++G  ++      +  +          +      +  
Sbjct: 64  VSSRDNLPKVPVEFIDTNPSAIASEGDFIFCDTSEDIEGSGNCLFIRESNNKPIFAGSHT 123

Query: 112 LVLQPKDVLPELLQGWL-LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLI 170
           ++ +P   +     G+L  S D+  +I+    G  +     K + +I + +PP+ EQ  I
Sbjct: 124 ILGRPLINVNSTYLGYLLKSPDIKSQIQKRVVGIKVYSITQKILKSISLILPPVDEQQEI 183

Query: 171 REKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPD 230
            + +  +  +ID++I +    I+  K  KQ++++  VTKGL+P V MKDSGIEW+G +P+
Sbjct: 184 AQYLDDKVGQIDSIIEKTKSSIDEYKSYKQSIITETVTKGLDPTVTMKDSGIEWIGDIPE 243

Query: 231 HWEVKPFFA--LVTELNRKNTKLIESNILSLSYGNIIQKLE----TRNMGLKPESYETYQ 284
           HW++        +     K++    S    +SYG++ +  E       +    E  ++  
Sbjct: 244 HWDIIKIRYLGTLQNGISKSSSYFGSGYPFVSYGDVYKNYELPKSVEGLVESNEFDKSNY 303

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSA--QVMERGIITSAYMAVKP---HGIDSTYLAWLMRS 339
            V+ G++ F       D+    +     M   +     +  +P     ++  Y  +  RS
Sbjct: 304 SVEYGDVFFTRTSETIDEIGFTATCMHTMNDAVFAGFLIRFRPFDSKLLNPLYSKYYFRS 363

Query: 340 YDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
               + F    +   R SL  E +K+LPVLVPP  EQ  I   I      ID L+ K +Q
Sbjct: 364 DMHRRFFVKEMNLVTRASLSQELLKKLPVLVPPHNEQIAIGKFIEETCQTIDQLITKKQQ 423

Query: 399 SIVLLKERRSSFIAAAVTGQIDLR 422
            I  LK  + S I   VTG+ +++
Sbjct: 424 LITELKAYKKSLIYEVVTGKKEVK 447


>gi|163788850|ref|ZP_02183295.1| hypothetical protein FBALC1_11452 [Flavobacteriales bacterium
           ALC-1]
 gi|159876087|gb|EDP70146.1| hypothetical protein FBALC1_11452 [Flavobacteriales bacterium
           ALC-1]
          Length = 440

 Score =  213 bits (543), Expect = 3e-53,   Method: Composition-based stats.
 Identities = 101/416 (24%), Positives = 174/416 (41%), Gaps = 11/416 (2%)

Query: 13  SGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           S + W+  IP HWK V +         +   S KD   + +       G     +  ++ 
Sbjct: 11  SKIDWLNKIPNHWKEVRLGSVFNERKEKV--SDKDFPPLSVT----KNGIVPQLENAAKS 64

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
           +D     +   G             + ++ +DG  S   +VL+P D++P   Q  L S  
Sbjct: 65  NDGDNRKLVLSGDFAINSRSDRKGSSGLSIYDGSVSLINIVLKPIDIIPVFSQYLLKSYF 124

Query: 133 VTQRIEAICEGAT--MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
             +       G    +    +  + N+ +P+PP  EQ  I   +  +T +I+  IT++ +
Sbjct: 125 FKEEYYRYGRGIVEDLWTTRYSEMKNMIIPLPPKQEQTTIANFLDYKTEKINRFITKKKQ 184

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
            IELL E+K A+++  V KG+NP+V MKDSGIEW+G +P+HWEV+     V         
Sbjct: 185 LIELLNEQKAAIINQAVIKGINPNVPMKDSGIEWLGEIPEHWEVRKLKYSVRLNMHTEFN 244

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
             ES    ++  NI  K        +        I   G+++F  +     K  + S   
Sbjct: 245 NKESIKNKIALENIEGKTGRILALNENSFEGVGTIFKKGDVLFGKLRPYLAK--VVSPNF 302

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLV 369
               +     +    +  +  YL + M + D   +      G       +  +  L +  
Sbjct: 303 EGSCVNELLVLTPNRNDWNPKYLKYRMLASDFISIVDNSTYGAKMPRASWNFIGTLKISK 362

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGES 425
           P   EQ +I   I  ET  +   +  I + I L++E +++ IA AVTG+ID+R  +
Sbjct: 363 PNKTEQSEIVRFIEKETELVSKTIITIAKEISLVEEYKTALIADAVTGKIDVRDFT 418



 Score =  102 bits (255), Expect = 9e-20,   Method: Composition-based stats.
 Identities = 70/206 (33%), Positives = 107/206 (51%), Gaps = 6/206 (2%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIY-IGLEDVESGTGKYLPKDG 68
            KDSG++W+G IP+HW+V  +K   +LN      + + I   I LE++E  TG+ L  + 
Sbjct: 211 MKDSGIEWLGEIPEHWEVRKLKYSVRLNMHTEFNNKESIKNKIALENIEGKTGRILALNE 270

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKD--VLPELLQG 126
           NS +      +IF KG +L+GKL PYL K +  +F+G C  + LVL P      P+ L+ 
Sbjct: 271 NSFEGVG---TIFKKGDVLFGKLRPYLAKVVSPNFEGSCVNELLVLTPNRNDWNPKYLKY 327

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
            +L+ D    ++    GA M  A W  IG + +  P   EQ  I   I  ET  +   I 
Sbjct: 328 RMLASDFISIVDNSTYGAKMPRASWNFIGTLKISKPNKTEQSEIVRFIEKETELVSKTII 387

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLN 212
              + I L++E K AL++  VT  ++
Sbjct: 388 TIAKEISLVEEYKTALIADAVTGKID 413



 Score = 97.6 bits (241), Expect = 4e-18,   Method: Composition-based stats.
 Identities = 44/207 (21%), Positives = 89/207 (42%), Gaps = 11/207 (5%)

Query: 212 NPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETR 271
           N    +  S I+W+  +P+HW+     ++  E   K +      +     G + Q     
Sbjct: 3   NNHSYLNTSKIDWLNKIPNHWKEVRLGSVFNERKEKVSDKDFPPLSVTKNGIVPQ----L 58

Query: 272 NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST 331
               K    +  ++V  G+        +     L        G ++   + +KP  I   
Sbjct: 59  ENAAKSNDGDNRKLVLSGDFAINSRSDRKGSSGLSIYD----GSVSLINIVLKPIDIIPV 114

Query: 332 YLAWLMRSYDLCKVFYAMGSGLRQSLKF---EDVKRLPVLVPPIKEQFDITNVINVETAR 388
           +  +L++SY   + +Y  G G+ + L      ++K + + +PP +EQ  I N ++ +T +
Sbjct: 115 FSQYLLKSYFFKEEYYRYGRGIVEDLWTTRYSEMKNMIIPLPPKQEQTTIANFLDYKTEK 174

Query: 389 IDVLVEKIEQSIVLLKERRSSFIAAAV 415
           I+  + K +Q I LL E++++ I  AV
Sbjct: 175 INRFITKKKQLIELLNEQKAAIINQAV 201


>gi|114047283|ref|YP_737833.1| restriction modification system DNA specificity subunit [Shewanella
           sp. MR-7]
 gi|113888725|gb|ABI42776.1| restriction modification system DNA specificity domain [Shewanella
           sp. MR-7]
          Length = 448

 Score =  213 bits (543), Expect = 3e-53,   Method: Composition-based stats.
 Identities = 99/428 (23%), Positives = 181/428 (42%), Gaps = 24/428 (5%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYL 64
             Y  YKDSGV+W+G IP++WKV+  K    + TG  +   K           +GTGKY 
Sbjct: 33  PKYEAYKDSGVEWLGDIPQNWKVMRFKFLASITTGGKNTEDK-----------TGTGKYP 81

Query: 65  PKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAI-IADFDGICSTQFLVLQPKDVLPEL 123
               +       + S +    IL    G  + K     +       +       + +   
Sbjct: 82  FFVRSQIPEKIDSYS-YDGEAILTAGDGAGVGKVYHYINGKFDFHQRVYKFSDFNEVIGQ 140

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRID 182
                L ++           +T+       I +  +  P    +Q LI   I  +  +ID
Sbjct: 141 YLFHYLYVNFFNVAVLGTAKSTVDSLRLPLIQDFQVCYPSDNWQQQLIVSYINKKAAQID 200

Query: 183 TLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVT 242
             I  + + I LLKE+KQ ++   VT+GL+P+V MKDSG++W+G +P HWEV+    +  
Sbjct: 201 DAIAIKEQQISLLKERKQIIIQQAVTQGLDPNVPMKDSGVDWIGKIPAHWEVRRAKYIFD 260

Query: 243 ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK 302
           E++ ++    E  +       +  + E        E Y   ++    ++V   +      
Sbjct: 261 EIDERSKNGDEELLSVSHMTGVTPRSEKNVSMFMAEDYTGSKLCIENDLVINIMWAWMGA 320

Query: 303 RSLRSAQVMERGIITSAYMAVK---PHGIDSTYLAWLMRSYDLCKVFYAMGSG---LRQS 356
             +        GI++ +Y   +    +  + TYL +L++S    + +  + +G    R  
Sbjct: 321 LGVSDRV----GIVSPSYGVFRQKLKNTFNPTYLEYLLKSVKYVEYYNKVSTGLHSSRLR 376

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
                +  + +  P  +EQ +I   ++ +T RID+ ++     I  LKE +++ I +AVT
Sbjct: 377 FYGHMLFAMKMGYPSYEEQNEIMAYLHEQTKRIDLAIDSQLAQIEKLKEYKTTLINSAVT 436

Query: 417 GQIDLRGE 424
           G+I +  E
Sbjct: 437 GKIKITPE 444


>gi|239828721|ref|YP_002951344.1| restriction modification system DNA specificity domain protein
           [Geobacillus sp. WCH70]
 gi|239809014|gb|ACS26078.1| restriction modification system DNA specificity domain protein
           [Geobacillus sp. WCH70]
          Length = 445

 Score =  213 bits (543), Expect = 3e-53,   Method: Composition-based stats.
 Identities = 110/444 (24%), Positives = 185/444 (41%), Gaps = 34/444 (7%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSE-SGKDIIYIGLEDVESGTGKYLPKD 67
           + KDSGV+WIG IP  WK++ +K   K    + S     +I+ +    +E G   Y  K 
Sbjct: 4   KMKDSGVEWIGEIPSDWKILRLKNVLKERNEKNSPIKTNEILSLT---IEKGVIPYKEKK 60

Query: 68  --GNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKD--VLPEL 123
             GN  + D S   +     I+   +   +    I+ + G  S  + VL   D       
Sbjct: 61  SGGNKAKEDLSNYKLAYPNDIVLNSMNVIVGAVGISKYYGCVSPVYYVLYSDDVEQNIRF 120

Query: 124 LQGWLLSIDVTQRIEAICEGATMSH------------ADWKGIGNIPMPIPPLAEQVLIR 171
                 S    + +  +  G  M                   + N+ +P+PP++ Q  I 
Sbjct: 121 YNYLFQSSAFQKSLIGLGNGIMMKQSSTGKLNTIRLRIPLDRLKNVYLPVPPVSVQQKIV 180

Query: 172 EKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDH 231
             +  +   IDT+I +  + IE LK+ KQ+L++  VTKGL+P+V+MKDSGIEWVG +P H
Sbjct: 181 NFLDEKVSHIDTIIEKNKQSIEELKKYKQSLIAETVTKGLDPNVEMKDSGIEWVGEIPKH 240

Query: 232 WEVKPFFALVTELNR---KNTKLIESNILSLSYGNIIQKLETRNMG------LKPESYET 282
           WE++    +         K+ +  E  +  + Y N+  K E +            E+   
Sbjct: 241 WEIRRLRDISIITRGTVDKSKEKNEIPVYLVQYTNVYYKREQKINDDDYLPITVSENEYK 300

Query: 283 YQIVDPGEIVFRFIDLQNDKRS--LRSAQVMERGIITSAYMAV--KPHGIDSTYLAWLMR 338
              V  G+I+        D         + +   +  S  + +      +D  Y  + M 
Sbjct: 301 KYKVRKGDILLTASSETKDDIGHSTVIVEDLPNHVFGSDIIRIRIPNKIVDLNYKKYFME 360

Query: 339 SYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
           +Y     F  +  G  R     +  K L  ++PPI+EQ  I   ++  T  I+ L+   E
Sbjct: 361 NYYYLAKFDKLSRGITRFRFGMDQFKSLKYVIPPIEEQVKIAKYLDNITNHINQLICNKE 420

Query: 398 QSIVLLKERRSSFIAAAVTGQIDL 421
           + I  L+  + S I   VTG+ ++
Sbjct: 421 KLINELESYKKSLIYEYVTGKKEV 444


>gi|325289015|ref|YP_004265196.1| restriction modification system DNA specificity domain protein
           [Syntrophobotulus glycolicus DSM 8271]
 gi|324964416|gb|ADY55195.1| restriction modification system DNA specificity domain protein
           [Syntrophobotulus glycolicus DSM 8271]
          Length = 443

 Score =  213 bits (543), Expect = 4e-53,   Method: Composition-based stats.
 Identities = 103/441 (23%), Positives = 180/441 (40%), Gaps = 25/441 (5%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGR---------TSESGKDIIYIGLED 55
           K Y  YKDSG++WIG IP HW+V      + +              + + +D   I   +
Sbjct: 2   KKYNSYKDSGIEWIGEIPGHWEVKKFGYISYMKGRIGWQGLKQAEFTSNPEDPFLITGMN 61

Query: 56  VESGTGKYLPKDGNSRQ-SDTSTVSIFAKGQILYGKLGPYLRKAII----ADFDGICSTQ 110
              G  ++        +  + +      +  +L+ K G   +   +           ++ 
Sbjct: 62  FHDGKIRWDEVYHILEERYNEAPEIQLKESDVLFTKDGTIGKLLYVDSIPYPHKASLNSH 121

Query: 111 FLVLQP--KDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQV 168
            LVL+P      P  +   L  +     +E    G T      + +G     +P L EQ 
Sbjct: 122 LLVLRPLNNFYNPRFIYYQLKGLPFKHHVELTKTGTTFYGITQEAMGQYKALLPSLPEQT 181

Query: 169 LIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLV 228
            I   +  +T  ID LI ++ R +EL +E+K A+++  VTKG+NPD  MKDSGIEW+G +
Sbjct: 182 AIANYLDRKTAEIDELIADKKRLLELYEEEKTAIINQAVTKGINPDAPMKDSGIEWLGEI 241

Query: 229 PDHWEVKPFFALVTELNRK-------NTKLIESNILSLSYGNIIQKLETRNMGLKPESYE 281
           P+HWEVK    +   +  K           ++  + + +   +   ++        E   
Sbjct: 242 PEHWEVKRLKYVANIVLGKMLTTEDKGEYYLKPYLRAANLNWLSVNVDDVKEMWFSEREL 301

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD 341
               ++  +++         +  +   ++ E  I  S +        DS Y   L   Y 
Sbjct: 302 NKYRLNRNDLLVSEGGEVG-RTCIWKEELEECYIQNSVHKVTLNDNSDSNYFLQLFYLYG 360

Query: 342 LCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
               F  + + +    L  E +K +  + PP +EQ  I + I  E A ID    + E+ I
Sbjct: 361 KKGAFDLIVNKISIAHLTVEKLKEIKFITPPFEEQQSIVHHIKTECASIDAKKFRNEKLI 420

Query: 401 VLLKERRSSFIAAAVTGQIDL 421
             L E R++ I+  VTG+I +
Sbjct: 421 EFLTEYRTALISEVVTGKIKV 441


>gi|307244176|ref|ZP_07526291.1| type I restriction modification DNA specificity domain protein
           [Peptostreptococcus stomatis DSM 17678]
 gi|306492326|gb|EFM64364.1| type I restriction modification DNA specificity domain protein
           [Peptostreptococcus stomatis DSM 17678]
          Length = 433

 Score =  213 bits (542), Expect = 4e-53,   Method: Composition-based stats.
 Identities = 121/433 (27%), Positives = 195/433 (45%), Gaps = 23/433 (5%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDI---------IYIGLEDV 56
            Y +YKDSG+ WIG IP+HW V+  K F  L TG +    +            YI  +DV
Sbjct: 2   KYEKYKDSGIDWIGEIPEHWGVIKFKYFADLFTGNSIPDEEKYMYEFKENGHPYIATKDV 61

Query: 57  ESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAI-IADFDGICSTQFLVLQ 115
               G+    +G     +     I      L    G          + D     +     
Sbjct: 62  YMD-GRINYDNGMIIPYEHKKFKIAPVNSTLMCIEGGSAGVKKSFLEEDVCFGNKLCCFN 120

Query: 116 PKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKII 175
            K+   +    + LS    +R  A+     +   + + + N    IP + EQ  I   + 
Sbjct: 121 VKEGFNKKYIFYFLSSPDYERYFAMNLNGLIGGVNIQRLKNFEAIIPSIVEQEKIAAYLD 180

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVK 235
            +T +ID++I E     E L+  K+ L++++VTKGLN +V MKDSG++W+G VP+HW+V+
Sbjct: 181 EKTEKIDSIIKELEDQREKLELYKRKLIAHVVTKGLNENVPMKDSGVDWIGAVPEHWKVE 240

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRF 295
                   + R++ +  E  +LS++   I  K   +N G   ESYE YQ+V+PG+     
Sbjct: 241 KIKWNFEIVKRQDGR-EERPVLSITQQGIKIKDIEKNDGQMAESYEKYQLVEPGDYAMNS 299

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHG---IDSTYLAWLMRSYDLCKVFYAMGSG 352
           +DL          +    G+ +  Y   +       D+ Y  +L +     ++FY +G G
Sbjct: 300 MDLLTGWIDCSKYE----GVTSPDYRVFRLKNSELNDNQYFNYLFQMCYTRRIFYRIGQG 355

Query: 353 L----RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
           +    R  L+ E    + + VPP  EQ +I N+I  +  +I  +  KI+  I  L E R 
Sbjct: 356 VSNLGRWRLQREPFLNMEIPVPPTDEQKEIANLIKEKDLQIRKVDRKIKLQIEKLNEYRK 415

Query: 409 SFIAAAVTGQIDL 421
           S I  AVTG+I +
Sbjct: 416 SIIHDAVTGKIKI 428


>gi|302037229|ref|YP_003797551.1| putative type I restriction system, specificity protein HsdS
           [Candidatus Nitrospira defluvii]
 gi|300605293|emb|CBK41626.1| putative Type I restriction system, specificity protein HsdS
           [Candidatus Nitrospira defluvii]
          Length = 452

 Score =  213 bits (542), Expect = 5e-53,   Method: Composition-based stats.
 Identities = 109/429 (25%), Positives = 172/429 (40%), Gaps = 32/429 (7%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTG---- 61
            YP YKDSGV W+G +P  W +        +       +     ++ + +V   TG    
Sbjct: 7   PYPAYKDSGVPWLGEVPLTWSISRNGGLF-IQR-----NETGFAHLPILEVSLKTGVRVR 60

Query: 62  KYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP-KDVL 120
                      SD        K  + Y  +  +     IA  DG+ S  ++V +P K V 
Sbjct: 61  NLDGSGRKQIMSDRDKYKRARKDDLAYNMMRMWQGAIGIAPTDGLVSPAYVVARPLKGVE 120

Query: 121 PELLQGWLLSIDVTQRIEAICEGAT--MSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
           P        +      ++    G     +   W+G   +P P+PP  EQ  I   I    
Sbjct: 121 PRFFLNLFRTDAYMGEVDKFSHGIVKDRNRLYWEGFKQMPSPVPPPDEQAAIVRFIDHAD 180

Query: 179 VRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFF 238
            RI   I  + + I+LL+E+KQA++   VT+GL+P+V++K SG+EW+G VP+HWE++   
Sbjct: 181 RRIKCYIRAKQKLIKLLEEQKQAIIHRAVTRGLDPNVRLKPSGVEWLGDVPEHWEMRRLK 240

Query: 239 ALVTELNRK--NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFI 296
            L    +        IE       YG    +  T N                G+ V    
Sbjct: 241 TLCRMRSGDGITAMAIEPVGDYPVYGGNGVRGYTSNFT------------HDGDFV---- 284

Query: 297 DLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS 356
            L   + +L     + RG   ++  AV         L W      +  +     +  +  
Sbjct: 285 -LIGRQGALCGNVHLARGRFWASEHAVVASLSSGYILEWFAAILMVMNLNQYSIAAAQPG 343

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           L  E V  L + VPP  +Q  I   I  ET+ I+ +V +  + I  L E R+  IA  VT
Sbjct: 344 LAVERVLNLWLPVPPADDQKRIATQIEDETSDINQVVGRARREIEFLIEYRTRLIADVVT 403

Query: 417 GQIDLRGES 425
           G+ D+R  +
Sbjct: 404 GKRDVREAA 412



 Score =  115 bits (287), Expect = 2e-23,   Method: Composition-based stats.
 Identities = 48/210 (22%), Positives = 86/210 (40%), Gaps = 8/210 (3%)

Query: 211 LNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLET 270
           L P    KDSG+ W+G VP  W +     L  + N      +    +SL  G  ++ L+ 
Sbjct: 5   LTPYPAYKDSGVPWLGEVPLTWSISRNGGLFIQRNETGFAHLPILEVSLKTGVRVRNLDG 64

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP-HGID 329
                     + Y+     ++ +  + +      +        G+++ AY+  +P  G++
Sbjct: 65  SGRKQIMSDRDKYKRARKDDLAYNMMRMWQGAIGIAPTD----GLVSPAYVVARPLKGVE 120

Query: 330 STYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
             +   L R+            G+   R  L +E  K++P  VPP  EQ  I   I+   
Sbjct: 121 PRFFLNLFRTDAYMGEVDKFSHGIVKDRNRLYWEGFKQMPSPVPPPDEQAAIVRFIDHAD 180

Query: 387 ARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
            RI   +   ++ I LL+E++ + I  AVT
Sbjct: 181 RRIKCYIRAKQKLIKLLEEQKQAIIHRAVT 210


>gi|114563773|ref|YP_751286.1| restriction modification system DNA specificity subunit [Shewanella
           frigidimarina NCIMB 400]
 gi|114335066|gb|ABI72448.1| restriction modification system DNA specificity domain [Shewanella
           frigidimarina NCIMB 400]
          Length = 462

 Score =  213 bits (541), Expect = 5e-53,   Method: Composition-based stats.
 Identities = 109/457 (23%), Positives = 192/457 (42%), Gaps = 34/457 (7%)

Query: 3   HYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTK-----LNTGRTSES-------GKDIIY 50
            YKAY +YKDSGV+W+  +P  W+V+ +K   K     +  G    +        K I  
Sbjct: 4   RYKAYSEYKDSGVEWLKLLPSTWQVLKVKFLLKNGSEGIKIGPFGSALKLEDMVEKGIRV 63

Query: 51  IGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFD--GICS 108
            G E++         +  +  +     V     G IL   +G   +  ++ +    GI  
Sbjct: 64  YGQENIIKRDFTLGKRFISQTKYKDMKVYTAEAGDILITMMGTSGKCQVVPENADLGIID 123

Query: 109 TQFLVLQPKDVLPELLQGWLLSI--DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAE 166
           +  L L+    +   L   L+    ++  +I    +G+ M   +   +  +  P+P + E
Sbjct: 124 SHLLKLRTNSKILPELFRLLVDEAQEIKDQISKQGKGSIMLGLNSSIVKELEFPLPSIEE 183

Query: 167 QVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVG 226
           Q  I   +  ET +ID LI ++ + IELLKEK+QA++S+ VTKGLNPD  MK+SG+ W+G
Sbjct: 184 QTQILCFLDHETAKIDDLIAKQEKLIELLKEKRQAVISHAVTKGLNPDSPMKNSGVVWLG 243

Query: 227 LVPDHWEVKPFFALVTELNR-----------KNTKLIESNILSLSYGNIIQKLETRNMGL 275
            VP+HW V     +  +              K+   ++   + +   N           L
Sbjct: 244 EVPEHWVVCCLKHIKGKEKGSFVDGPFGSNLKSEHFVDDGDVYVIESNFATTGMLDTSKL 303

Query: 276 KPESYETYQIV-----DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
           K  S   ++ +       G I+   I  +    S+      +  +  +            
Sbjct: 304 KTISVAHFETISRSETKEGAIILAKIGARYGMNSILPCLPHKAVVSGNCLSLKINEKTMD 363

Query: 331 TYLAWLMRSYDLCK--VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
                 + ++   +  +   +    + +L    +  LP L PP KEQ +I + I      
Sbjct: 364 VLYCHQLLTHLKQEGAMDDGVNVTAQPALSLGQLNNLPFLSPPQKEQSEIASFIQQRDES 423

Query: 389 IDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGES 425
             +L+ K  + I L KER+++ I+A +TG+ID+   S
Sbjct: 424 FSILINKAIKLIELSKERKTALISAVLTGKIDVLDWS 460


>gi|52426224|ref|YP_089361.1| HsdS protein [Mannheimia succiniciproducens MBEL55E]
 gi|52308276|gb|AAU38776.1| HsdS protein [Mannheimia succiniciproducens MBEL55E]
          Length = 449

 Score =  212 bits (539), Expect = 8e-53,   Method: Composition-based stats.
 Identities = 101/461 (21%), Positives = 178/461 (38%), Gaps = 57/461 (12%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRT--SESGKDIIYIGLEDVESGTGK 62
           + Y +YK SGV+W+G +P+ W+V  IK   +L   ++  +E  K+  ++ +E ++ G   
Sbjct: 2   QKYDKYKPSGVEWLGDVPEGWEVTKIKYIAELTPKKSELTELDKECSFVPMEKLKLGNLV 61

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIA------DFDGICSTQFLVLQP 116
                  +     +  + F    +L  K+ P              +  G  S++  VL+ 
Sbjct: 62  LDETR--TISDVYNGYTYFEDNDLLIAKVTPCFENKNFVIAEKLVNGIGFGSSEIYVLRV 119

Query: 117 KDVLPELLQGWLLSIDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKII 175
           K+ L   L   L              GA  +     + + N  + +PPL EQ  I   + 
Sbjct: 120 KNCLNRYLFYRLQENTFMDLAIGSMTGAGGLKRIPSEFLNNYSIALPPLEEQTAIAHYLD 179

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLN----------------------- 212
            +T  ID LI  +   +E L EK+ AL++  V   L                        
Sbjct: 180 QKTAYIDRLIDRQQTLLEKLSEKRTALITEAVCGRLPIAPYSASLKRGTGFDEENGSPNT 239

Query: 213 ------------PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
                        ++ +KDSGI+W+G VP+ WEV      +  +   N    ++    + 
Sbjct: 240 AQTAPLFSKEGLGEICLKDSGIQWLGKVPEGWEVIRL-RFLCNIQTGNMDTQDNEPDGIY 298

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
              +   +  R+     E  E         ++     +      +      + G     Y
Sbjct: 299 PFYVRSPIIERSNNYTFEDDEA--------VLMAGDGVG--AGKVFHYVQGKYGCHQRVY 348

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
              +   I   +L + +R +   K+          S++   +K  P  VPP+ EQ  IT+
Sbjct: 349 SLNQFQNITGRFLFYYLREFFSRKIEEGGAKSTVDSVRLPMLKDFPTCVPPLSEQTTITH 408

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            ++ ETA+ID L  +IE  I  LKE R + I   VTG++ +
Sbjct: 409 YLDQETAKIDRLRTQIETVIERLKEYRMALITQVVTGKVKV 449


>gi|332975485|gb|EGK12375.1| type I restriction-modification system specificity determinant
           [Desmospora sp. 8437]
          Length = 461

 Score =  212 bits (539), Expect = 1e-52,   Method: Composition-based stats.
 Identities = 114/445 (25%), Positives = 198/445 (44%), Gaps = 31/445 (6%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES----------------GKDI 48
           + Y  YK+S + WIG +P HW V+P+KR  K N                          +
Sbjct: 14  RKYGSYKESNIAWIGKVPVHWDVLPMKRLDKNNMEMAQTGPFGSHLHASDYMDSDLKNGV 73

Query: 49  IYIGLEDVESGTGK--YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAII--ADFD 104
             I ++ V         +P+   S+  + S   +  K  I++ ++G   R A +   +  
Sbjct: 74  PLILIKHVNDFKIIDHNMPRVSKSKAEELSVYKL-KKNDIVFSRVGTMGRVAPVTKKEEG 132

Query: 105 GICSTQFLV--LQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIP 162
            + S Q L   ++ KD+  + L   L S   T+ ++ +  G+T    +   + N+ +  P
Sbjct: 133 WLISGQMLRLRIKSKDIDNQFLLYLLSSDISTKYLQLVSVGSTRDSINTDILRNMVIVRP 192

Query: 163 PLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGI 222
            L EQ  I   +  ET ++D L+ ++ R IELL+EK+QAL++  VTKGLNP+V MKDSGI
Sbjct: 193 SLPEQQAIANFLDRETGKLDRLVEKKQRLIELLREKRQALITQAVTKGLNPNVPMKDSGI 252

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI------IQKLETRNMGLK 276
           EW+G VP+HW+V     L       + + IE  I   + G                +   
Sbjct: 253 EWLGEVPEHWKVLKIKWLSKVKRGASPRPIEDPIYFDNNGEYAWVRIADVTSSNMYLKKT 312

Query: 277 PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWL 336
            ++          ++    + L       +      +  I   ++       +  +  ++
Sbjct: 313 SQTLSELGASLSVKLPPGKLFLSIAGSVGKPCISGIKCCIHDGFVYFPDLQENEKFFYYV 372

Query: 337 MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
             S         +  G + +L  + V  +   VP IKEQ +I   ++ +T++ID L+ K+
Sbjct: 373 FASGAPYGGLGKL--GTQLNLNTDIVGDIYTGVPEIKEQLEIVKYLDNQTSKIDTLISKL 430

Query: 397 EQSIVLLKERRSSFIAAAVTGQIDL 421
           +  I  +KE R + I+AAVTG+ID+
Sbjct: 431 QTQITKIKEYRQALISAAVTGKIDV 455


>gi|28199931|ref|NP_780245.1| type I restriction-modification system specificity determinant
           [Xylella fastidiosa Temecula1]
 gi|182682685|ref|YP_001830845.1| restriction modification system DNA specificity subunit [Xylella
           fastidiosa M23]
 gi|28058062|gb|AAO29894.1| type I restriction-modification system specificity determinant
           [Xylella fastidiosa Temecula1]
 gi|182632795|gb|ACB93571.1| restriction modification system DNA specificity domain [Xylella
           fastidiosa M23]
 gi|307578969|gb|ADN62938.1| restriction modification system DNA specificity subunit [Xylella
           fastidiosa subsp. fastidiosa GB514]
          Length = 444

 Score =  212 bits (539), Expect = 1e-52,   Method: Composition-based stats.
 Identities = 86/424 (20%), Positives = 164/424 (38%), Gaps = 23/424 (5%)

Query: 7   YPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPK 66
           YP Y+   ++W+ A+P+HW     K F +    R+    +++  + +  +   T +    
Sbjct: 7   YPNYRQPKMRWLPAVPEHWNEQRAKTFFREVDERSKTGQEEL--LSVSHLTGVTSRSQKN 64

Query: 67  DGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQG 126
               + +      +   G I+   L  ++     +   GI S  + V +P          
Sbjct: 65  VTMFKAASYVGSKLCRPGDIVINTLWAWMAALGASRHVGIVSPAYGVYRPHHADSFNPAY 124

Query: 127 WLLSIDVTQRIEAICEGAT-----MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
               +     +      +T               +I +  PP  EQ  I   + A+   I
Sbjct: 125 LDYLLRTRAYVAEYIGRSTGIRSSRLRLYPNQFLDIALIQPPRPEQDQIVAYLRAQDAHI 184

Query: 182 DTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALV 241
              I  +   I+LL E+K  ++ + VT+GL+  V +K SGIEW+G VP H  ++    + 
Sbjct: 185 ARFIKAKRDLIKLLTEQKLRIIDHAVTRGLDASVALKPSGIEWLGDVPVHCRIERLKWVC 244

Query: 242 TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQND 301
                 +             GN+        +G+    ++   +V P  ++ R       
Sbjct: 245 RFTYGDSLSDANR-----RQGNVPVYGSNGPVGM----HDVANVVGPCIVIGRKGSF--- 292

Query: 302 KRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFED 361
              +  ++     I T+ ++  K    +  +L +++    L ++           L   D
Sbjct: 293 -GKVNYSESDLFAIDTTYFVDKKCTKANIRWLYYVLIWCRLDRISKD---SAVPGLDRTD 348

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
                V VP   EQ  I   +++ETA ++  + K+E+ I L++E R   I   VTGQ+D+
Sbjct: 349 ALNTLVPVPDGAEQEQIAKQLDIETAEVNDAITKVEEEITLIREYRDRLITDVVTGQVDV 408

Query: 422 RGES 425
           RG  
Sbjct: 409 RGWQ 412


>gi|189485041|ref|YP_001955982.1| type I restriction-modification system substrate-binding subunit
           [uncultured Termite group 1 bacterium phylotype Rs-D17]
 gi|170287000|dbj|BAG13521.1| type I restriction-modification system substrate-binding subunit
           [uncultured Termite group 1 bacterium phylotype Rs-D17]
          Length = 434

 Score =  211 bits (538), Expect = 1e-52,   Method: Composition-based stats.
 Identities = 111/430 (25%), Positives = 194/430 (45%), Gaps = 20/430 (4%)

Query: 7   YPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPK 66
           Y +YK SG++WIG IPK+W  V  +        R  +  K+  Y+ L     G   Y  K
Sbjct: 4   YSKYKPSGIEWIGDIPKNWNFVSCRLIVSERNERN-KGMKNNNYLSLMA-NIGVIPYEEK 61

Query: 67  D--GNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQ--PKDVLPE 122
              GN +  +     I  +G ++   +  ++    I+ +DGICS  ++VL    K + P 
Sbjct: 62  GDIGNKKPENLEKCKIVYEGDLIINSMNYFIGSYGISKYDGICSPVYIVLYANTKVIEPR 121

Query: 123 LLQGWLLSIDVTQRIEAICEG--ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
                  +       ++   G        +W  + NI +P+P L EQ  I   +  +T +
Sbjct: 122 FAFRVFENPKFQGVAQSFGNGILEHRRAINWDILKNIKIPVPLLEEQRNILSFLDKKTEK 181

Query: 181 IDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFAL 240
           ID LI+++ + I+LL+E +Q+++S  VTKGL+  V+MK SGIEW+G +P  W+V  F  +
Sbjct: 182 IDALISDKEKLIKLLREYRQSIISETVTKGLDKKVQMKHSGIEWIGDIPYDWKVNKFNRI 241

Query: 241 VTE-----LNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIV------DPG 289
           +         R N KL + +   ++  N  +     +      + E   I+         
Sbjct: 242 IIRVSTGLNPRNNFKLGDGDCYYVTIKNFKKGKLFLDEKCDRMTKEALNIINERSDLKID 301

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
           +I+F  I  + +   +           +   + V    +   +  +L+ +          
Sbjct: 302 DILFSSIGEEAEAYLISEHPTNWNINESVFTIRVNKDLVLPNFFYYLIANKSFFNDLLKD 361

Query: 350 GSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
            +G   +S+K   +    V VP +K Q +I N+++ +T +ID L+E I + I  L+E R 
Sbjct: 362 ATGSTFKSIKINSLIEKKVPVPSLKTQKEIANLLDDKTEKIDNLIENITKQIKKLQEYRK 421

Query: 409 SFIAAAVTGQ 418
           S I  AVTG+
Sbjct: 422 SIIGEAVTGK 431


>gi|319775047|ref|YP_004137535.1| putative type I site-specific restriction-modification system, S
           subunit [Haemophilus influenzae F3047]
 gi|317449638|emb|CBY85844.1| Putative type I site-specific restriction-modification system, S
           subunit [Haemophilus influenzae F3047]
          Length = 419

 Score =  211 bits (537), Expect = 2e-52,   Method: Composition-based stats.
 Identities = 109/432 (25%), Positives = 187/432 (43%), Gaps = 29/432 (6%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYL 64
           + Y  YKDSGV W+G +P HW++  +K+       +          + L       GK +
Sbjct: 2   RRYESYKDSGVDWLGEVPSHWELKRLKQLFVEKKHK--------QSLSLNCGAISFGKVI 53

Query: 65  PK-DGNSRQSDTSTVSIFAKGQILYGKLGPYLR----KAIIADFDGICSTQFLVLQPKDV 119
            K D    ++   +     KG+ L   L         +  +++ D + S  ++VL+ K +
Sbjct: 54  EKSDDKVTEATKRSYQEVLKGEFLINPLNLNYDLISLRIALSEIDVVVSAGYIVLKEKQI 113

Query: 120 LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
           + +    +LL       ++ +  G      ++  I +  + IPPL+EQ  I + +  +T 
Sbjct: 114 INKKYFSYLLHRYDVAYMKLLGSGV-RQTINYGHISDSILVIPPLSEQQKIAQFLDDKTA 172

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFA 239
           +ID  +    + I LLKE KQ L+   VT+GLNPDV +KDSG+EW+G VP+HWEV     
Sbjct: 173 KIDQAVDLAEKQIALLKEHKQILIQNAVTRGLNPDVPLKDSGVEWIGQVPEHWEVVSMKR 232

Query: 240 LVTELNRKNTKL----IESNILSLSYGNIIQKLETRNMGL------KPESYETYQIVDPG 289
           +V E +     +       NI  L   N  +  +            K    + + IV   
Sbjct: 233 VVKEHSGNGFPIDLQGNNGNIPFLKVSNFSENQDKYIFKWNNSVTNKVIKQKKWNIVPKN 292

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
            IV   I     K   +   +    II +  + ++    D  +  +L  + D        
Sbjct: 293 SIVTAKIGEALRKNHRKILSI--DSIIDNNCLGIEIKKADVLFGYYLHCALDFD---LFT 347

Query: 350 GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
             G   SL  +  +   +++PP +EQ +I + +  +TA+ID  +      I  LKE +S 
Sbjct: 348 NPGTIPSLAMDKYRNQKIVLPPFQEQQEIADYLEQQTAKIDQAIALKTAHIEKLKEYKSV 407

Query: 410 FIAAAVTGQIDL 421
            I   VTG++ +
Sbjct: 408 LINDVVTGKVQV 419


>gi|229847074|ref|ZP_04467180.1| type I restriction-modification system S subunit [Haemophilus
           influenzae 7P49H1]
 gi|229810158|gb|EEP45878.1| type I restriction-modification system S subunit [Haemophilus
           influenzae 7P49H1]
          Length = 434

 Score =  211 bits (537), Expect = 2e-52,   Method: Composition-based stats.
 Identities = 104/435 (23%), Positives = 182/435 (41%), Gaps = 20/435 (4%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYL 64
           + Y  YKDSGV+W+G IP +W +       + N  R ++  K+   + L   +    K  
Sbjct: 2   RRYESYKDSGVEWLGKIPSYWDLTIGMNVFRENK-RDNKGMKEKTVLSLSYGQI-IIKPE 59

Query: 65  PKDGNSRQSDTSTVSIFAKGQILYGKLGP----YLRKAIIADFDGICSTQFLVLQPKDVL 120
            K          T  I     I+             +  +A   GI ++ +L L+  +  
Sbjct: 60  EKLVGLVPESFETYQIVKPNDIIIRCTDLQNDQTSLRTGLAKDKGIITSAYLNLKVINNH 119

Query: 121 PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
                 + L      ++          +  +     +P+   PL+EQ  I + +  +T +
Sbjct: 120 SAKFLHYYLHTLDITKVLYKFGSGLRQNLSFLDFKRLPIIDIPLSEQQKIAQFLNDKTAK 179

Query: 181 IDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFAL 240
           ID  +    + I LLKE KQ L+   VT+GLNPDV +KDSG+EW+G VP+HW VK    +
Sbjct: 180 IDQAVDLAEKQIVLLKEHKQILIQNAVTRGLNPDVPLKDSGVEWIGQVPEHWNVKKLKYM 239

Query: 241 VTELNRKNTKLIESN-----------ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG 289
               +    K  +             +   +  N  Q  E     +K  + E   IV   
Sbjct: 240 GYLYSGLTGKSADDFSKEVKEGFREFVPFTTICNFSQIKENVFQYVKVMNLENQNIVKKH 299

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA--VKPHGIDSTYLAWLMRSYDLCKVFY 347
           +++F       +  +  S  ++++    +++           S ++ +L+ S +    F 
Sbjct: 300 DLLFLMSSETLEDIAKSSVYLLDQESFLNSFCKGFRFIEKHSSIFINYLINSNNYRAYFN 359

Query: 348 AMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
            +G G  R ++K E V  + VL+PP  EQ  I + ++ +T +ID  +      I  LKE 
Sbjct: 360 LVGRGFTRINIKQEFVNSVYVLLPPFSEQQKIADYLDKQTTKIDQAIALKTAHIEKLKEY 419

Query: 407 RSSFIAAAVTGQIDL 421
           +S  I   VTG++ +
Sbjct: 420 KSVLINNVVTGKVQV 434


>gi|229520259|ref|ZP_04409685.1| type I restriction-modification system specificity subunit S
           [Vibrio cholerae TM 11079-80]
 gi|167832523|gb|ACA01833.1| type I site-specific restriction-modification system S subunit
           [Vibrio cholerae]
 gi|229342625|gb|EEO07617.1| type I restriction-modification system specificity subunit S
           [Vibrio cholerae TM 11079-80]
          Length = 458

 Score =  211 bits (537), Expect = 2e-52,   Method: Composition-based stats.
 Identities = 99/440 (22%), Positives = 187/440 (42%), Gaps = 22/440 (5%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESG----------KDIIY 50
           +K    Y  YK+SG++W+  +P+ W+   +K    + TG +                  Y
Sbjct: 22  IKQMPKYESYKESGIEWLDEVPQTWQTSKLKYLASIFTGDSISPTLKDTYVSTELSGRAY 81

Query: 51  IGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLG-PYLRKAIIADFDGICST 109
           I  +D++  T +   ++G     D     +  +   L    G    +K      D     
Sbjct: 82  IASKDIDVQTSRIDYENGVRIPFDRRHFKVAPEQSTLLCIEGGSAGKKIAYTAQDVCFVN 141

Query: 110 QFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVL 169
           +   +  + VL + L   L S     + +    G  +       I N  + +PP  EQ+ 
Sbjct: 142 KLACIASEKVLNKYLYYSLFSEPFQSQFKLSMSGL-IGGVSVSSINNFIVVVPPEKEQIR 200

Query: 170 IREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVP 229
           I   +  +  +++  I  + + IE L+E+K  ++   VT+GL  +V M+DSG++W+G +P
Sbjct: 201 IVSYLDKKVSQLNEAIYIKQQQIERLRERKHVIIQQAVTQGLETNVPMQDSGVDWIGEIP 260

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG 289
            HW +  F  L T+      K              ++         +      YQ +  G
Sbjct: 261 KHWGIVRFKNLFTQSRLPVRKGDGVVTSYRDGQVTLRSNRRVGGYTEAILEGGYQGIRKG 320

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG---IDSTYLAWLMRSYDLCKVF 346
           ++V   +D       +  +     G  T  Y+   P     +   Y A+L+R   L K  
Sbjct: 321 QLVLNSMDAFEGAIGVSDSD----GKCTPEYVICDPINSVNVSQYYFAYLLREMALAKYI 376

Query: 347 YAMGSGLRQS---LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
             + + +RQ    +++ ++  L ++VPP+KEQ DI + I  E+A++D  ++ + + I  L
Sbjct: 377 QVICNAVRQRAVRIRYNNLAPLFMVVPPVKEQEDIVSFIEKESAKLDAGIKHLNEQISKL 436

Query: 404 KERRSSFIAAAVTGQIDLRG 423
           KE +++ I +AVTG+I +  
Sbjct: 437 KEYKTTLINSAVTGKIKVTE 456



 Score =  106 bits (264), Expect = 7e-21,   Method: Composition-based stats.
 Identities = 43/232 (18%), Positives = 85/232 (36%), Gaps = 9/232 (3%)

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN--TKL 251
           L    K   +   + K +      K+SGIEW+  VP  W+      L +     +    L
Sbjct: 8   LWLRFKGKRMIDTMIKQMPKYESYKESGIEWLDEVPQTWQTSKLKYLASIFTGDSISPTL 67

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVF-------RFIDLQNDKRS 304
            ++ + +   G      +  ++      YE    +      F         + ++     
Sbjct: 68  KDTYVSTELSGRAYIASKDIDVQTSRIDYENGVRIPFDRRHFKVAPEQSTLLCIEGGSAG 127

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKR 364
            + A   +     +    +    + + YL + + S      F    SGL   +    +  
Sbjct: 128 KKIAYTAQDVCFVNKLACIASEKVLNKYLYYSLFSEPFQSQFKLSMSGLIGGVSVSSINN 187

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
             V+VPP KEQ  I + ++ + ++++  +   +Q I  L+ER+   I  AVT
Sbjct: 188 FIVVVPPEKEQIRIVSYLDKKVSQLNEAIYIKQQQIERLRERKHVIIQQAVT 239


>gi|126434812|ref|YP_001070503.1| restriction modification system DNA specificity subunit
           [Mycobacterium sp. JLS]
 gi|126234612|gb|ABN98012.1| restriction modification system DNA specificity domain
           [Mycobacterium sp. JLS]
          Length = 451

 Score =  210 bits (535), Expect = 3e-52,   Method: Composition-based stats.
 Identities = 94/449 (20%), Positives = 175/449 (38%), Gaps = 27/449 (6%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKL----NTGRTSESGKDIIYIGLEDV 56
           M  + +YP+Y DSGV+W+G +P  W V P+K    +        + ++   +      DV
Sbjct: 1   MS-WPSYPRYNDSGVEWLGRVPSGWAVSPLKNVATVFPSSVDKHSHDNEIPVQLCNYTDV 59

Query: 57  ESGTGKYLPKDGNSRQS--DTSTVSIFAKGQILYGKLGPYLRKAIIADF------DGICS 108
                     D     +  +        +G  +  K         I+ +      D +C 
Sbjct: 60  YKNERISGALDFMKATATPEEIKKFTLKQGDTIITKDSETADDIGISAYVEETLPDVLCG 119

Query: 109 TQFLVLQPKDVLP-ELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQ 167
               V++P   L    ++    S  +   +E    G T        I N+ +P+PP  EQ
Sbjct: 120 YHLSVVRPLPGLDGRFVKRLFDSHYLKASMEVSANGLTRVGLGQYAIDNLNIPLPPPDEQ 179

Query: 168 VLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGL 227
           + I + + AET +ID LI ++   I  L+E + A +++ VTKGL+P V M       +  
Sbjct: 180 LQIADFLEAETAKIDALIAKQEHLIATLREDRTATITHAVTKGLDPTVDMVQPHNSELPA 239

Query: 228 VPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYE------ 281
            P HW +      + E+    T     +         ++    +  G+  +  +      
Sbjct: 240 CPKHWTLLISLKRLAEVQTGLTLGKSVDPAEAVDVPYLRVANVQTSGVNLDEVKTVAVHR 299

Query: 282 ---TYQIVDPGEIVFR-FIDLQNDKRSLRSAQVMERGIITSA-YMAVKPHGIDSTYLAWL 336
                 ++  G+++     D+    R    +  +   I  +  +       +   +L +L
Sbjct: 300 SELKRYLLRDGDVLMTEGGDIDKLGRGCVWSGEIAPCIHQNHVFAVRCSDALSGDFLVYL 359

Query: 337 MRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
           + +      F+     +    S     +      +PP  EQ +I + +N   A +D L+ 
Sbjct: 360 LDTAVARNYFFMTAKKTTNLASTNSTTLGAFTFSLPPRAEQDEIVDHLNERCAGLDALIA 419

Query: 395 KIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
           K    I +L+E R++ I  AVTG+ID+RG
Sbjct: 420 KANAVITVLREYRAALITDAVTGKIDVRG 448


>gi|293115630|ref|ZP_05792396.2| putative type I restriction-modification system [Butyrivibrio
           crossotus DSM 2876]
 gi|292809171|gb|EFF68376.1| putative type I restriction-modification system [Butyrivibrio
           crossotus DSM 2876]
          Length = 441

 Score =  210 bits (534), Expect = 4e-52,   Method: Composition-based stats.
 Identities = 98/427 (22%), Positives = 181/427 (42%), Gaps = 14/427 (3%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDG 68
           + KDSG++W+G IP++WKV+  K   +L+         +   + L            + G
Sbjct: 16  EMKDSGIEWVGKIPENWKVLKNKYNFELSKEIIGTKWVETQLLSLTKYGVKAINDGEQTG 75

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKA--IIADFDGICSTQFLVLQPKDVLPELLQG 126
                  ST     K  I+              I++FDG+ S  +  ++ K  L      
Sbjct: 76  KV-PESLSTYQKVNKDDIVMCLFDLDCSAVFSGISNFDGMISPAYKCIRCKPHLCPQYVD 134

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           +        R                   N+P+ +PP+  Q  I E +  +   IDTL +
Sbjct: 135 YYFRTVFVDRKYKRYSKNVRFSISSDEFMNLPIIVPPIDIQKKIAEFLNFKCFEIDTLHS 194

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFA--LVTEL 244
           +  + I+ L+E K+++++  VTKGL+PDV+MKDSGI ++G +P HW+V            
Sbjct: 195 DIEKQIKTLEEYKKSIITEAVTKGLDPDVEMKDSGISYIGNIPKHWKVTNLKYLGKCQNG 254

Query: 245 NRKNTKLIESNILSLSYGNIIQKL----ETRNMGLKPESYETYQIVDPGEIVFRFIDLQN 300
             K  +   +    +SYG++ +          + +  ++ +    V  G++ F       
Sbjct: 255 ISKGGEYFGNGFPFVSYGDVYKNYSIPQNVDGLIMSTKTEQNIYSVKYGDVFFTRTSETI 314

Query: 301 DKRSLRSA--QVMERGIITSAYMAVKPHGID--STYLAWLMRSYDLCKVFYAMGS-GLRQ 355
           ++    S   + ++  +     +  +P   D    +  +  RS    K F    +   R 
Sbjct: 315 EEIGFASTCLKSIDNSVFAGFLIRFRPTSSDLIPEFSKFYFRSNIHRKFFVKEMNLVTRA 374

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           SL    + RLPVL+PP+ EQ  I   +  + A ID  +E+ ++ +  L++ + S I   V
Sbjct: 375 SLSQNLLGRLPVLLPPLCEQQMIAKNLEKKCAEIDGAIEEKKEQLETLEQYKKSLIYEYV 434

Query: 416 TGQIDLR 422
           TG+ +++
Sbjct: 435 TGKKEVK 441


>gi|50086399|ref|YP_047909.1| putative type I restriction-modification system specificity
           determinant for hsdM and hsdR (HsdS) [Acinetobacter sp.
           ADP1]
 gi|49532375|emb|CAG70087.1| putative type I restriction-modification system specificity
           determinant for hsdM and hsdR (HsdS) [Acinetobacter sp.
           ADP1]
          Length = 448

 Score =  210 bits (533), Expect = 5e-52,   Method: Composition-based stats.
 Identities = 95/443 (21%), Positives = 187/443 (42%), Gaps = 23/443 (5%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLN-----TGRTSESGKDII-YIGLE 54
           M     Y  YK+SGVQW+G IP HW+V  +K                   KD   YI + 
Sbjct: 1   MSQLPCYESYKNSGVQWLGEIPSHWEVKRMKFLLSEKLKYGANESAESEDKDQPRYIRIT 60

Query: 55  DVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGI---CSTQF 111
           D+ + +G        S + + +   +     IL  + G  + K+ +   D +   C   +
Sbjct: 61  DI-NDSGTLREDTFKSLEIEKAQEYLLNDLDILLARSGATVGKSYLHKKDKVNVACYAGY 119

Query: 112 LV---LQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQV 168
           L+      ++  P+ +  +L S      IE++   AT+ +   +   ++ + IP LAEQ 
Sbjct: 120 LIRARFNKENYDPQFINLFLQSKAYWSWIESVNIQATIQNVSAEKYNDLALSIPSLAEQK 179

Query: 169 LIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLV 228
           +I + +     ++D LI ++   +E L E++ AL+S+ VTKGLNPDV+MK+S +  +G +
Sbjct: 180 IIADFLDKRLAQVDALIAKQETLLEKLAEQRVALISHAVTKGLNPDVEMKESDVVLLGNI 239

Query: 229 PDHWEVKPFF-------ALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYE 281
           P+ W +K                + ++        + ++  +    L+            
Sbjct: 240 PNTWNIKRLKFLLSEKLKYGANESAESEDKENPRYIRITDIDDSGNLKDETFKSLESEKA 299

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK--PHGIDSTYLAWLMRS 339
              ++D  +I+         K  L  A+ +         +  +      +  ++ + ++S
Sbjct: 300 QEYLLDDLDILLARSGATVGKSYLYKAESVGIACYAGYLIRARLDQENYNPEFVNYFLQS 359

Query: 340 YDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
                   ++      Q++  E    L + +P ++EQ  +   +  E  + +  + K ++
Sbjct: 360 KQYWDWISSINIQATIQNVSAEKYNDLTLAIPSLEEQKQLIEYLKNEDEKFNRAISKGKK 419

Query: 399 SIVLLKERRSSFIAAAVTGQIDL 421
            + LL E RS+ I   VTG+ID+
Sbjct: 420 LVHLLNEYRSTLITQVVTGKIDV 442


>gi|124485664|ref|YP_001030280.1| hypothetical protein Mlab_0842 [Methanocorpusculum labreanum Z]
 gi|124363205|gb|ABN07013.1| restriction modification system DNA specificity domain
           [Methanocorpusculum labreanum Z]
          Length = 446

 Score =  210 bits (533), Expect = 5e-52,   Method: Composition-based stats.
 Identities = 89/422 (21%), Positives = 159/422 (37%), Gaps = 15/422 (3%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYL 64
           K Y +Y D+G  WI  +PK W+  PI   T L+  R  +     +     +         
Sbjct: 3   KGYEEYMDTGYDWIPQVPKTWEQRPIHSITTLSNERNGKRKDLELLSVYREFGVIKKSSR 62

Query: 65  PKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELL 124
             + N    D S       G ++  K+  +     I+ ++GI S  ++V +    +    
Sbjct: 63  DDNHNVESQDLSNYKYVNSGYLVMNKMKMWQGSLGISQYEGIVSPAYIVCKVDQDIIGKY 122

Query: 125 QGW---LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
             +        +     +           +  + N+ + +P   EQ  I   + A+  +I
Sbjct: 123 LHYLLRSSHFKIFYNRISYGVRVGQWDLRYNDLKNLKIYLPTSDEQNQIVRYLNAKVAKI 182

Query: 182 DTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALV 241
           + LI+ + + I LLKE KQA+++  VTKG+   V MK+SG+EW+G +P+ WE +    L 
Sbjct: 183 NRLISAKKKEIALLKEYKQAIITRAVTKGICAGVPMKESGVEWIGEIPEGWEERKLKYLC 242

Query: 242 TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQND 301
           +                    N             P+          GE V    D    
Sbjct: 243 SINTGDKD-----------TINRNDDGLYPFYVRSPKIEHIDTYSFDGEAVLMAGDGVG- 290

Query: 302 KRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFED 361
              +      +       Y       +   Y+ + ++     K+  A       S++   
Sbjct: 291 AGKVFHYVSGKFDYHQRVYNLHYFKDVCGKYIYYYLKENFWRKIEEASAKSTVDSVRLPM 350

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           +   PV+   I EQ  I + ++ + + ID  ++K E +I  L     S I   VTG++D+
Sbjct: 351 LLEFPVVFGQIGEQQQIVSYLDAKCSAIDATIQKRELAIEKLTAYNQSLIYECVTGKVDV 410

Query: 422 RG 423
           RG
Sbjct: 411 RG 412


>gi|264677663|ref|YP_003277569.1| hypothetical protein CtCNB1_1527 [Comamonas testosteroni CNB-2]
 gi|262208175|gb|ACY32273.1| hypothetical protein CtCNB1_1527 [Comamonas testosteroni CNB-2]
          Length = 429

 Score =  209 bits (532), Expect = 6e-52,   Method: Composition-based stats.
 Identities = 92/430 (21%), Positives = 161/430 (37%), Gaps = 19/430 (4%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTG--K 62
           + Y  YK S   W+G +P HW V P++  T L + +      D+  + +   E G     
Sbjct: 2   QRYESYKPSEATWLGNVPSHWDVQPLRAVTSLKSDKNRP---DLPVLSV-YREYGVILKD 57

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPE 122
               + N+   DTST  +   G ++  K+  +     ++   GI S  ++    K     
Sbjct: 58  SRDDNHNATSLDTSTYKVVKPGDLVVNKMKAWQGSMGVSSHHGIVSPAYITCTTKADRAR 117

Query: 123 LLQGWL----LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
                       +       +           ++    IP+P+PP  EQ  I   +  +T
Sbjct: 118 PAYLHYLLRSSPLIGVYNSLSYGVRVGQWDMHYEDFKQIPIPLPPNDEQDRIVAFLDQKT 177

Query: 179 VRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFF 238
             ID  I ++ R   LLKE++  L++  VTKGL+P+  M      W+   P HW++    
Sbjct: 178 AEIDAAIEKKERLASLLKEQQFKLINLAVTKGLDPNAAMTCGRSPWIESYPAHWQLMRIK 237

Query: 239 AL---VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRF 295
            +   + +   K   + E     +   + ++  E      K     TY+      I    
Sbjct: 238 HVLRAIVDTEHKTPPMYEEGPALMVRTSNVKNGELVFKNAKYTDELTYRRWTRRAIPVAG 297

Query: 296 IDLQNDKRSLRSAQVMERGIITSA-----YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG 350
             L   +     A V+  GI  +         V P  +D  +    + S         + 
Sbjct: 298 DILFTREAPAGEACVLPDGIKAAIGQRMVLFKVDPERLDPHFAVHSIYSGAAKAFIELLS 357

Query: 351 -SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
                      D+  +P+L+PP++EQ  I   I     +   L++     I  L+E + +
Sbjct: 358 VGSTVAHFNMSDIGNIPLLLPPLQEQQKIAVGIKSIQRQFQPLIDSAANGIEQLQELKRT 417

Query: 410 FIAAAVTGQI 419
            IA+AV GQI
Sbjct: 418 LIASAVLGQI 427


>gi|188535437|ref|YP_001909234.1| type I restriction-modification system, specifity subunit [Erwinia
           tasmaniensis Et1/99]
 gi|188030479|emb|CAO98373.1| type I restriction-modification system, specifity subunit [Erwinia
           tasmaniensis Et1/99]
          Length = 435

 Score =  208 bits (530), Expect = 1e-51,   Method: Composition-based stats.
 Identities = 97/435 (22%), Positives = 178/435 (40%), Gaps = 17/435 (3%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT 60
           M     Y  YK+S + WI  IP  W++   K        R+    + ++ +   +     
Sbjct: 4   MAELPKYEAYKESCLNWIDTIPYDWELKRFKYILDEINLRSKTGKETLLSLSKYNGVLPK 63

Query: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV- 119
                + G                 ++  K+        ++  +GI S  + V + K+  
Sbjct: 64  DSLEERSGC--AETLVGYKRVGIKDLVINKMQAVNGLLAVSRIEGITSPDYSVYRSKNNL 121

Query: 120 --LPELLQGWLLSIDVTQRIEAICEGAT--MSHADWKGIGNIPMPIPPLAEQVLIREKII 175
               + L   LL  +     +    G          + + +I   +P +  Q +I + + 
Sbjct: 122 ILNIDFLGYLLLQPEYIGEFKKRVTGVMEGFIRLYTEDLYSIHAILPDVKTQFIIVKYLD 181

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVK 235
            ++ +ID  I  + + I LLKE+KQ ++   VT+GL+P+V+MKDSG++W+G +P HWE++
Sbjct: 182 KKSAQIDEAIKIKQQQITLLKERKQIIIQKAVTQGLDPNVQMKDSGVDWIGKIPVHWEIR 241

Query: 236 PFFALVTELNRKNTKLIESNILSLSYG----NIIQKLETRNMGLKPESYETYQIVDPGEI 291
               L T+   K          + +YG       + L  + +       +  + V+  + 
Sbjct: 242 RSKFLFTQRKEKALNDDVQLSATQAYGVIPQEKYEALTGKRVVKIQFHLDKRKHVEKDDF 301

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
           V      Q     L  A      I +S  +      ID  +  +L++            S
Sbjct: 302 VISMRSFQG---GLERAWSCG-CIRSSYVVLKALQNIDPLFYGYLLKLPSYIAALQQTAS 357

Query: 352 GLR--QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
            +R  Q L F++  R+ + +PP++EQ  I N +       D  +  IEQ I  LKE +++
Sbjct: 358 FIRDGQDLNFDNFSRVDLFIPPLEEQTAIANYVESFLTSSDEAMNLIEQQIEKLKEYKTT 417

Query: 410 FIAAAVTGQIDLRGE 424
            I +AVTG+I +  E
Sbjct: 418 LINSAVTGKIKITPE 432


>gi|309780966|ref|ZP_07675705.1| type I restriction enzyme, S subunit [Ralstonia sp. 5_7_47FAA]
 gi|330824638|ref|YP_004387941.1| hypothetical protein Alide2_2050 [Alicycliphilus denitrificans
           K601]
 gi|308920269|gb|EFP65927.1| type I restriction enzyme, S subunit [Ralstonia sp. 5_7_47FAA]
 gi|329310010|gb|AEB84425.1| hypothetical protein Alide2_2050 [Alicycliphilus denitrificans
           K601]
          Length = 474

 Score =  208 bits (530), Expect = 1e-51,   Method: Composition-based stats.
 Identities = 87/439 (19%), Positives = 165/439 (37%), Gaps = 21/439 (4%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLP 65
            YP Y+    +W+  +P+HW ++  K F +    R+    + ++ + ++           
Sbjct: 6   PYPNYQPLRSRWVPRVPEHWSLLRAKNFLREIDDRSKAGEETLLSMRMQRGLVPHNDVSV 65

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP---- 121
           K       +          +++  ++             G+ S  + V +          
Sbjct: 66  KRIA--PENLIGYKKAQPDELVLNRMQAGNAMFFRNRQPGLVSPDYAVFRLLRDDNPEYL 123

Query: 122 -ELLQGWLLSIDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
             L + W +        + +  G +            + +P+PP  EQ  I   + A+  
Sbjct: 124 GHLFRSWPMRGLFRSESKGLGTGTSGFLRLYSDRFTALEIPLPPRPEQDQIVAYLRAQDA 183

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFA 239
            I   I  +   I+LL E+K  ++ + VT GL+  V +K SGIEW+G VP+HWEV     
Sbjct: 184 HIARFIQVKRDLIKLLTEQKLRIIDHAVTHGLDASVTLKPSGIEWLGEVPEHWEVAFIKH 243

Query: 240 LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMG--------LKPESYETYQIVDPGEI 291
           +         K    +   +   N     +   +            E+      +  G++
Sbjct: 244 IADVRFSGVDKHSHDHETPVRLCNYTDVYKNDRITGDMDLMRATATEAEIARLTLKAGDV 303

Query: 292 VFRFIDLQNDKRSLRSAQVME----RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY 347
           +        D   + +    +            +   P+ +   +L   + S    + F+
Sbjct: 304 ILTKDSETPDDIGVPAWVPEDLPGVVCAYHLGLLRPVPNRVLGEFLFRAIGSARTAQQFH 363

Query: 348 AMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
            + +G  R +L   DVK   V +PP++EQ  I   I  E   +D  + + E+ I L++E 
Sbjct: 364 VLATGVTRFALGKHDVKNAVVALPPVEEQQSICRWITNECQPLDDAIARTEEEIKLIREY 423

Query: 407 RSSFIAAAVTGQIDLRGES 425
           R   IA  VTGQ+D+RG  
Sbjct: 424 RDRLIADVVTGQVDVRGWQ 442


>gi|188585426|ref|YP_001916971.1| restriction modification system DNA specificity domain
           [Natranaerobius thermophilus JW/NM-WN-LF]
 gi|179350113|gb|ACB84383.1| restriction modification system DNA specificity domain
           [Natranaerobius thermophilus JW/NM-WN-LF]
          Length = 441

 Score =  208 bits (529), Expect = 1e-51,   Method: Composition-based stats.
 Identities = 118/438 (26%), Positives = 206/438 (47%), Gaps = 18/438 (4%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNT---GRTSESGKDIIYIGLEDVE 57
           M+ +K Y +YKDSG++W+G +P HW +  +  +TK       R +  GK + Y  +  +E
Sbjct: 1   MEKFKQYKKYKDSGIEWLGKVPSHWDINRMDAYTKYYKKSIEREALRGKTVFYYSIPAIE 60

Query: 58  SGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADF---DGICSTQFLVL 114
                 + +  N   +                KL P   + I         ICS++F+ L
Sbjct: 61  ETGDGVVEEGSNIDSNKLLLKGEELL----VSKLNPRKGRIIPTKEKEMPIICSSEFVPL 116

Query: 115 QPKDVLPELLQGWLLSIDVTQRIEAICEGAT--MSHADWKGIGNIPMPIPPLAEQVLIRE 172
            P++   E ++    S  V Q++ +  + AT      + + I  I    P  +EQ  I +
Sbjct: 117 VPRNCSREFIRYIYQSELVKQKLSSAVQSATNSHQRVNPRDISKIYFAFPSKSEQDNIVK 176

Query: 173 KIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHW 232
            + ++T +ID+LI ++   IE L+E KQ+L+++ VTKGL+P+VKMKDSG+EW+G VP+HW
Sbjct: 177 YLNSKTSQIDSLINKKQNLIEKLQEYKQSLITHTVTKGLDPNVKMKDSGVEWIGEVPEHW 236

Query: 233 EVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIV 292
           E+     L+   N    + +  +         +  L T N  L  +  +        E +
Sbjct: 237 EILKGKYLLDIYNGYPPEELSLSANGQVKYIQVDDLNTENDELVIKDSKLKLKNKKTEAL 296

Query: 293 FRFIDLQNDKRSLR----SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA 348
              I L   + +         ++++G+I S  M +KP    +  + +L+      KV   
Sbjct: 297 DHPIILIPKRGAAIFTNKVKILVDKGLIDSNIMGLKPKK--NCNIHYLVYMIKARKVDDI 354

Query: 349 MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
             +     +  + +  LP+ +PPI+EQ  I   ++ +   I+  +  I+ +I  LKE R 
Sbjct: 355 ADTSTIPQINNKHINPLPLTIPPIEEQNKIAEYLDEKVDNINNCILNIKVAIQKLKEYRQ 414

Query: 409 SFIAAAVTGQIDLRGESQ 426
           S I  AVTG+ID+R  + 
Sbjct: 415 SLITHAVTGKIDVRDWAD 432


>gi|167039866|ref|YP_001662851.1| restriction modification system DNA specificity subunit
           [Thermoanaerobacter sp. X514]
 gi|300915378|ref|ZP_07132692.1| restriction modification system DNA specificity domain protein
           [Thermoanaerobacter sp. X561]
 gi|307724809|ref|YP_003904560.1| restriction modification system DNA specificity domain-containing
           protein [Thermoanaerobacter sp. X513]
 gi|166854106|gb|ABY92515.1| restriction modification system DNA specificity domain
           [Thermoanaerobacter sp. X514]
 gi|300888654|gb|EFK83802.1| restriction modification system DNA specificity domain protein
           [Thermoanaerobacter sp. X561]
 gi|307581870|gb|ADN55269.1| restriction modification system DNA specificity domain protein
           [Thermoanaerobacter sp. X513]
          Length = 463

 Score =  208 bits (528), Expect = 2e-51,   Method: Composition-based stats.
 Identities = 83/433 (19%), Positives = 173/433 (39%), Gaps = 20/433 (4%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYL 64
           K YP+YK++   W+ +IP HW+   I+      + + S+     + +         G   
Sbjct: 3   KPYPKYKETPALWLNSIPNHWESHKIRELFVERSEKVSDKDYSPLSVS------KAGVVP 56

Query: 65  PKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP-EL 123
                ++ ++     +  KG  +          + I+++DG  S   +VL+P+  +    
Sbjct: 57  QIATVAKTNNGDNRKLVIKGDFVINSRSDRRGSSGISNYDGSVSLINIVLKPRSFVNGRY 116

Query: 124 LQGWLLSIDVTQRIEAICEGAT--MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
           +   L S    +       G    +    +  + +I +P+P + EQ  I   +  +  +I
Sbjct: 117 MHYLLKSHYFIEEFYRNGRGIVADLWTTRYTEMKSIYLPVPSIEEQDQIVRFLDWKLAKI 176

Query: 182 DTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALV 241
           + LI  + + I LL E ++A +  ++  G+NP    K+SG+ W+G +P HW V     + 
Sbjct: 177 NKLIQAKKKQIALLTEYRKATIDNVIMYGINPHANRKESGVIWLGEIPSHWSVMKLKRIC 236

Query: 242 TELNRKNTKLI----ESNILSLSYGNIIQKLETR--NMGLKPESYETYQIVDPGEIVFRF 295
                  ++L     E  ++ L   NI    +          +    +      +++   
Sbjct: 237 RINASITSQLEKYSLEDYVVFLPMENISSDGKIDCCEKRKLKDVRNGFSSFAKNDVIVAK 296

Query: 296 IDLQ--NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWL---MRSYDLCKVFYAMG 350
           I     N K +         G  T+  + ++ +        ++   ++ + +       G
Sbjct: 297 ITPCFENGKGACLDTLETNIGFGTTELIVLRANEKVLPRYLYMITQLQQFRIEGANVMTG 356

Query: 351 SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
           S  ++ +    +    + +P I EQ +I   ++   A+ D L E + + I LL E R   
Sbjct: 357 SAGQKRVPSSFISNFELGIPSIAEQSEILEYLDNRLAKFDKLYETLNREIELLTEYRIRL 416

Query: 411 IAAAVTGQIDLRG 423
           I+  VTG++D+R 
Sbjct: 417 ISDVVTGKVDVRD 429



 Score = 99.5 bits (246), Expect = 1e-18,   Method: Composition-based stats.
 Identities = 45/204 (22%), Positives = 87/204 (42%), Gaps = 10/204 (4%)

Query: 211 LNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLET 270
           L P  K K++   W+  +P+HWE      L  E + K +    S +     G + Q    
Sbjct: 2   LKPYPKYKETPALWLNSIPNHWESHKIRELFVERSEKVSDKDYSPLSVSKAGVVPQ---- 57

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
                K  + +  ++V  G+ V        D+R        +  +     +      ++ 
Sbjct: 58  IATVAKTNNGDNRKLVIKGDFVINSRS---DRRGSSGISNYDGSVSLINIVLKPRSFVNG 114

Query: 331 TYLAWLMRSYDLCKVFYAMGSGLRQSLKF---EDVKRLPVLVPPIKEQFDITNVINVETA 387
            Y+ +L++S+   + FY  G G+   L      ++K + + VP I+EQ  I   ++ + A
Sbjct: 115 RYMHYLLKSHYFIEEFYRNGRGIVADLWTTRYTEMKSIYLPVPSIEEQDQIVRFLDWKLA 174

Query: 388 RIDVLVEKIEQSIVLLKERRSSFI 411
           +I+ L++  ++ I LL E R + I
Sbjct: 175 KINKLIQAKKKQIALLTEYRKATI 198


>gi|307826306|ref|ZP_07656513.1| restriction modification system DNA specificity domain protein
           [Methylobacter tundripaludum SV96]
 gi|307732662|gb|EFO03532.1| restriction modification system DNA specificity domain protein
           [Methylobacter tundripaludum SV96]
          Length = 435

 Score =  208 bits (528), Expect = 2e-51,   Method: Composition-based stats.
 Identities = 107/435 (24%), Positives = 186/435 (42%), Gaps = 27/435 (6%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVES 58
             Y  YKDSGV+W+G IP+HW++  +K     ++G      +      ++ +  + D+  
Sbjct: 9   PKYEIYKDSGVEWLGEIPEHWEIKRLKFIIAEHSGNGFPVEEQGKHTGELPFYKVSDI-G 67

Query: 59  GTGKYLPKDGNSRQSDTSTV---SIFAKGQILYGKLGPYLRKAI--IADFDGICSTQFLV 113
           G   Y+    N     T+     ++   G ++  K+G  LRK    I+    I     + 
Sbjct: 68  GDSMYISHASNYVNFKTAKKLKWNLIPSGSLITAKIGEALRKNHRKISTSSSIIDNNCIA 127

Query: 114 LQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
            +   +           ID             +         +  +P+P   EQ  I   
Sbjct: 128 FEAVSIGVVFNYYLHKVIDFDW----FTNPGAVPCISVPKYKSFHIPLPAFTEQTAIAAF 183

Query: 174 IIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWE 233
           +  +T ++D  +  + + I L KE KQ L+   VT+ LNPD  M+DSG+EW+G +P HW 
Sbjct: 184 LDRKTAQLDQAVAIKEKQITLFKEHKQILIQNAVTRSLNPDAPMRDSGVEWLGKIPAHWA 243

Query: 234 ---VKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGE 290
               +  F    E       L+  +I +      I + E     +K E    Y +V  G+
Sbjct: 244 ILANRVIFRERVEPGEDGLPLLSVSIHTAVSSEEISEDENIRGRIKIEDKTKYSLVQIGD 303

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID-STYLAWLMRSYDLCKVFYAM 349
           I F  +                +G+++ AY+   P+    S+Y  +  R  +  +     
Sbjct: 304 IAFNMMRAWQGAIGAVKI----KGMVSPAYIVAVPNEKIVSSYFEYQYRCPEFIQQMDRY 359

Query: 350 GSGL---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
             G+   R+ L + + K+L  +VPP++EQ  I   I  E+A+ID  +   +Q I  LKE 
Sbjct: 360 SKGITDFRKRLYWNEFKQLVTVVPPVEEQTAIVTHIETESAKIDQAISIQQQQIDKLKEY 419

Query: 407 RSSFIAAAVTGQIDL 421
           +++ I +AVTG+I +
Sbjct: 420 KATLINSAVTGKIKV 434


>gi|56459752|ref|YP_155033.1| restriction endonuclease S subunit [Idiomarina loihiensis L2TR]
 gi|56178762|gb|AAV81484.1| Restriction endonuclease S subunit [Idiomarina loihiensis L2TR]
          Length = 448

 Score =  206 bits (524), Expect = 5e-51,   Method: Composition-based stats.
 Identities = 112/416 (26%), Positives = 177/416 (42%), Gaps = 19/416 (4%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESG----KDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           +P+ WK++ +K    + TG    S          I + D+++                 S
Sbjct: 20  LPERWKLIKLKLVCNIETGFAFPSEVFGETGTPVIRITDIKNREINLSEIKRVDDLLLKS 79

Query: 77  TVSI--FAKGQILYGKLGPYLRKAIIA--DFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
                   KG I+    G  + K      D     + +     P  +    L   L S  
Sbjct: 80  KPKRPSVNKGDIIMAMTGATIGKVGYYNSDKPSYLNQRVCRFIPASIDRGYLWHTLNSEI 139

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLA-EQVLIREKIIAETVRIDTLITERIRF 191
             + IE    G   ++     + N P P+P L  EQ  I + +  ET +ID LI E+ R 
Sbjct: 140 YKKYIELEAFGGAQANISDSQLLNFPAPLPELEAEQQKIAQFLDYETAKIDALIDEQKRL 199

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           IELLKEK+QA++S+ VTKGLNPD  MKDSGIEW+G VP+HWE+K        L+ K    
Sbjct: 200 IELLKEKRQAVISHAVTKGLNPDAPMKDSGIEWLGEVPEHWEIKKLKFCSRMLSDKGKDN 259

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
             +  L       I+      +  +    +   + +P +I+F  +     K  L      
Sbjct: 260 TNAISLE-----NIENGTGAFIKTESNFDQEGVLFEPLDILFGKLRPYLAKVYLAR---E 311

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVP 370
               +    +      I   +L + + S +  +       G        E +K L + VP
Sbjct: 312 HGSALGDILVFRANKDISPEFLFFRLISQEFIRQVDQSSYGSKMPRANPELIKSLQIAVP 371

Query: 371 PIKEQFDITNVI-NVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGES 425
           PI+EQ  +++ + N++  +I   V      + LL+ERRS+ I+AAVTG+ID+R   
Sbjct: 372 PIEEQVKVSDYLANLQFNKIMPSVINASSLVKLLEERRSALISAAVTGKIDVRDWQ 427



 Score =  101 bits (251), Expect = 3e-19,   Method: Composition-based stats.
 Identities = 56/205 (27%), Positives = 109/205 (53%), Gaps = 9/205 (4%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGN 69
            KDSG++W+G +P+HW++  +K  +++ + +      +   I LE++E+GTG ++  + N
Sbjct: 225 MKDSGIEWLGEVPEHWEIKKLKFCSRMLSDK---GKDNTNAISLENIENGTGAFIKTESN 281

Query: 70  SRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL-PELLQGWL 128
             Q       +F    IL+GKL PYL K  +A   G      LV +    + PE L   L
Sbjct: 282 FDQEGV----LFEPLDILFGKLRPYLAKVYLAREHGSALGDILVFRANKDISPEFLFFRL 337

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKI-IAETVRIDTLITE 187
           +S +  ++++    G+ M  A+ + I ++ + +PP+ EQV + + +   +  +I   +  
Sbjct: 338 ISQEFIRQVDQSSYGSKMPRANPELIKSLQIAVPPIEEQVKVSDYLANLQFNKIMPSVIN 397

Query: 188 RIRFIELLKEKKQALVSYIVTKGLN 212
               ++LL+E++ AL+S  VT  ++
Sbjct: 398 ASSLVKLLEERRSALISAAVTGKID 422


>gi|71276008|ref|ZP_00652290.1| putative type I restriction enzyme, S subunit [Xylella fastidiosa
           Dixon]
 gi|71899046|ref|ZP_00681211.1| putative type I restriction enzyme, S subunit [Xylella fastidiosa
           Ann-1]
 gi|71163241|gb|EAO12961.1| putative type I restriction enzyme, S subunit [Xylella fastidiosa
           Dixon]
 gi|71731159|gb|EAO33225.1| putative type I restriction enzyme, S subunit [Xylella fastidiosa
           Ann-1]
          Length = 457

 Score =  206 bits (524), Expect = 5e-51,   Method: Composition-based stats.
 Identities = 95/429 (22%), Positives = 166/429 (38%), Gaps = 20/429 (4%)

Query: 7   YPQYKDSGVQWIGAIPKHWKVVPIKRFT--KLNTGRTSESGKDIIYIGLEDVESGTG--- 61
           YP Y +SG+ WI  +P+ W+V+        ++  G           + + +V   TG   
Sbjct: 7   YPTYCNSGLAWIPKLPEGWQVLRNGCLFGHRVEMG--------FPDLPILEVSLRTGVRV 58

Query: 62  -KYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL 120
                       S         KG I Y  +  +     +A  DG+ S  ++V++P    
Sbjct: 59  RDMENLKRKQVISQKEKYKRATKGDIAYNMMRMWQGAVGLAPVDGLVSPAYVVVKPYAEA 118

Query: 121 PELLQGW-LLSIDVTQRIEAICEGAT--MSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
                 +   +    Q +     G     +   W+    +P  +PPL EQ  I   + A+
Sbjct: 119 NSTYYSYLFRTAAYMQEVNKYSRGIVADRNRLYWESFKQMPSLVPPLPEQKQIVTYLRAQ 178

Query: 178 TVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPF 237
              I   I  +   I+LL E+K  ++ + VT+GL+  V +K SGIEW+G VP HWEV+  
Sbjct: 179 DAHIARFIKAKRDLIKLLTEQKLRIIDHAVTRGLDASVALKPSGIEWLGDVPVHWEVRRL 238

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID 297
             L +    + T      I              R +  + E   T +     +++F  + 
Sbjct: 239 KFLASNTTSQTTTKARDEIYLAMEHVQSWTGVARPLEGEVEFASTVKRFVVDDVLFGKLR 298

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQS 356
               K  +  A+     +     +  +   I   YL  ++R   +  +  +  +G     
Sbjct: 299 PYLAK--VTRAKCNGVCVSEFLVLRSRKEFILPAYLEQMLRCKRVIDLINSSTAGAKMPR 356

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
             +  +  + + VP    Q  I + I  ET  +   + + E  I L++E R   I   VT
Sbjct: 357 ADWIFIGNVRLPVPCKDVQEAILSHIESETKDLGEAITRTEDEIKLIREYRDRLITDVVT 416

Query: 417 GQIDLRGES 425
           GQ+D+RG  
Sbjct: 417 GQVDVRGWQ 425


>gi|260557402|ref|ZP_05829617.1| restriction endonuclease S subunit [Acinetobacter baumannii ATCC
           19606]
 gi|260409028|gb|EEX02331.1| restriction endonuclease S subunit [Acinetobacter baumannii ATCC
           19606]
          Length = 451

 Score =  206 bits (524), Expect = 6e-51,   Method: Composition-based stats.
 Identities = 101/436 (23%), Positives = 181/436 (41%), Gaps = 30/436 (6%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSESG----KDIIYIGLEDVESGTGKYLPKDGNSRQS- 73
           G +P HW +  +KR+  +  G    S          I + D+++     L       +S 
Sbjct: 2   GVVPSHWIITTLKRYCYVKGGFAFSSDAFIDTGYPVIRIGDIKTDGSINLENCKYIPESL 61

Query: 74  -DTSTVSIFAKGQILYGKLGPYLRKAIIA--DFDGICSTQFLVLQPKDVLPELLQGWLL- 129
              S   +  K Q+L    G  + KA +   +     + +    +           W + 
Sbjct: 62  AVNSRDYLVEKNQLLMAMTGATIGKAGLYTSNQPAFLNQRVGKFELLAQNMNYRYLWYIL 121

Query: 130 -SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
            +    + I+    G    +     + + P  IP   EQ  I   +  ET +ID LI ++
Sbjct: 122 KTDGYQEYIKLTAFGGAQPNISDTAMVDYPATIPSFDEQTQIANFLDHETSKIDHLIEKQ 181

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVT------ 242
            + IELLKEK+QA++S+ VTKGL+P+V MKDSG+ W+G VP+HW++ P   L+       
Sbjct: 182 QKLIELLKEKRQAVISHAVTKGLDPNVPMKDSGVAWLGEVPEHWDITPIRNLIRSGNLIL 241

Query: 243 ------ELNRKNTKLIESNILSLSYGNIIQKL----ETRNMGLKPESYETYQIVDPGEIV 292
                 EL+      +E+ I  L   NI        + + +               G+++
Sbjct: 242 QDGNHGELHPTANDYVETGIPFLMANNIRNGNLFMEDVKRIPKHLADTLRIGFAKAGDML 301

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSA--YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG 350
                   +   +      +  ++T    Y   +     + Y  +  +S  +      +G
Sbjct: 302 LTHKGTVGEVALVPQDIKEDYWMLTPQVTYYRWQGKKFLNKYFYYQFQSSSIQTQLEIIG 361

Query: 351 --SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
                R  +       L V +PP  EQ +I++ I  +     +++ K + +I L++ERR+
Sbjct: 362 AKQSTRAYVGLIAQGDLIVAIPPSHEQLEISSYILEKDQSYQLMIAKAQTAIQLMQERRT 421

Query: 409 SFIAAAVTGQIDLRGE 424
           + I+AAVTG+ID+R  
Sbjct: 422 ALISAAVTGKIDVRHW 437



 Score = 75.2 bits (183), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 49/224 (21%), Positives = 93/224 (41%), Gaps = 21/224 (9%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTK-----LNTGRTSES--------GKDIIYIGLEDV 56
            KDSGV W+G +P+HW + PI+   +     L  G   E            I ++   ++
Sbjct: 210 MKDSGVAWLGEVPEHWDITPIRNLIRSGNLILQDGNHGELHPTANDYVETGIPFLMANNI 269

Query: 57  ESGTGKYLPKDGNSRQ-SDTSTVSIFAKGQILYGKLGPYLRKAI----IADFDGICSTQ- 110
            +G           +  +DT  +     G +L    G     A+    I +   + + Q 
Sbjct: 270 RNGNLFMEDVKRIPKHLADTLRIGFAKAGDMLLTHKGTVGEVALVPQDIKEDYWMLTPQV 329

Query: 111 -FLVLQPKDVLPELLQGWLLSIDVTQRIEAI-CEGATMSHADWKGIGNIPMPIPPLAEQV 168
            +   Q K  L +       S  +  ++E I  + +T ++      G++ + IPP  EQ+
Sbjct: 330 TYYRWQGKKFLNKYFYYQFQSSSIQTQLEIIGAKQSTRAYVGLIAQGDLIVAIPPSHEQL 389

Query: 169 LIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLN 212
            I   I+ +      +I +    I+L++E++ AL+S  VT  ++
Sbjct: 390 EISSYILEKDQSYQLMIAKAQTAIQLMQERRTALISAAVTGKID 433


>gi|206975754|ref|ZP_03236666.1| type I restriction-modification system specificity determinant
           [Bacillus cereus H3081.97]
 gi|206746216|gb|EDZ57611.1| type I restriction-modification system specificity determinant
           [Bacillus cereus H3081.97]
          Length = 434

 Score =  205 bits (520), Expect = 2e-50,   Method: Composition-based stats.
 Identities = 109/435 (25%), Positives = 190/435 (43%), Gaps = 22/435 (5%)

Query: 7   YPQYKDSGVQWIGAIPKHWK----VVPIKRFTKLNTGRTSES-GKDIIYIGLEDVESGTG 61
           YPQYK + ++W+  IP  W+       +        G+T E   + I  +  ++++ G  
Sbjct: 3   YPQYKKTNLEWLENIPSEWEYGGLTKYLDSIVDY-RGKTPEKVEEGIFLVTAKNIKHGQI 61

Query: 62  KYLPKDGNSRQSDTSTVS---IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQ--P 116
            Y       +  +   V    +   G +L+    P    A +   D   + + +  +   
Sbjct: 62  DYSLSQEFVKIEEYEEVMRRGLPEIGDVLFTTEAPLGEVANVDRIDIALAQRIIKFRGIE 121

Query: 117 KDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIA 176
             +    L+ W+ S      +     G+T +      + ++ + +P  +EQ  I   +  
Sbjct: 122 NVLDNYYLKYWIQSHGFQSNLRTFATGSTAAGIKASKLSSLQVLLPSYSEQKQIVLFLDN 181

Query: 177 ETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKP 236
           +   ID LIT++ + I LL+EK+Q+++   VTKGLNP+VKMKDS +EW+G +P+ W +K 
Sbjct: 182 KVHEIDGLITQKEQMISLLEEKRQSMIIEAVTKGLNPNVKMKDSSVEWIGEIPESWNIKK 241

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFI 296
                              +LSL+   +  K      G   ESYE YQ V+  + V   +
Sbjct: 242 IKYKFDIRKVIQPT-EAPTVLSLTQKGLKVKDLNDFSGQHAESYEKYQRVEIDDYVMNGM 300

Query: 297 DLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW--LMRSYDLCKVFYAMGSGL- 353
           DL          +    G+ +  Y   +    +  +  +    +     K+FY  G G+ 
Sbjct: 301 DLLTGYVDCAKFE----GVTSPDYRVFRLRYPEECHDYYLRYFQMCYFAKIFYGHGQGVS 356

Query: 354 ---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
              R  L+ +  K  P+  PPI EQF I+  ++V+   I+  ++ I+  I  LK+ R S 
Sbjct: 357 HLGRWRLQTDVFKGFPIPEPPIDEQFAISKYLSVKEIEINEAIDMIKVQIQNLKDYRQSL 416

Query: 411 IAAAVTGQIDLRGES 425
           I  AVTG+ID+R   
Sbjct: 417 IYEAVTGKIDVRDFE 431


>gi|149180787|ref|ZP_01859290.1| putative type I restriction enzyme specificity protein [Bacillus
           sp. SG-1]
 gi|148851577|gb|EDL65724.1| putative type I restriction enzyme specificity protein [Bacillus
           sp. SG-1]
          Length = 454

 Score =  204 bits (519), Expect = 2e-50,   Method: Composition-based stats.
 Identities = 98/441 (22%), Positives = 168/441 (38%), Gaps = 28/441 (6%)

Query: 14  GVQWIGAIPKHWKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKYLPKDGN 69
            + W   +P+ W    +K   +   G   +S     K +  I   D+++G  +      +
Sbjct: 11  DINWYERVPEDWSEKKLKYLVETIKGYAFKSQLFGDKGVPIIKTTDIKNGKIQDSDIFID 70

Query: 70  SRQSDTSTVSIFAKGQILYGKLGPY----------LRKAIIADFDGICSTQ--FLVLQPK 117
            R           K  IL   +G            + K        + +     L  + K
Sbjct: 71  ERFEHEYKNVRVKKNDILMSTVGSKVEVTNSAVGQIGKVQKKYEGALLNQNAVILRCKSK 130

Query: 118 DVLPELLQGWLLSIDVTQRIEAICEGA-TMSHADWKGIGNIPMPIPPLAEQVLIREKIIA 176
           D+    L  +L S    + ++    G    +    K I +  MP+P    Q  I E +  
Sbjct: 131 DITNNFLFYFLNSHSYRKYLDLFAHGTANQASLSLKDILDFKMPLPSRKIQHQISEFLDH 190

Query: 177 ETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKP 236
           +T  ++TLI ++ + IELL+EK+QA+V+  VT+GLNPDVKMKDSG++W+G +P+HW++  
Sbjct: 191 KTSDVETLIADKQKLIELLEEKRQAIVTEAVTRGLNPDVKMKDSGVKWIGDIPEHWDISK 250

Query: 237 FFALVT-----ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY-----QIV 286
                            +         L  G   +            S E Y       +
Sbjct: 251 IKYSTYVKGRIGWQGLRSDEFIDEGPYLVTGTDFKDGIIHWDTCYHISEERYSEAPPIQL 310

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF 346
              +++            +++                +     + ++ W++ S       
Sbjct: 311 KENDLLITKDGTIGKVAIVKNKPGKAILNSGIFVTRCQDKEYLTKFMYWILTSEVFKNYI 370

Query: 347 YAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
             M +G   + L  E        +P I+EQ  I   +  +   ID + ++I   I LLKE
Sbjct: 371 KYMETGSTIKHLYQETFVNFSYPLPNIEEQKAIEYFLETKVREIDSVKKEISDQIELLKE 430

Query: 406 RRSSFIAAAVTGQIDLRGESQ 426
            R S I  AVTG+IDLR   +
Sbjct: 431 YRQSLIYEAVTGKIDLRDYQE 451


>gi|120597918|ref|YP_962492.1| putative type I site-specific restriction-modification system, S
           subunit [Shewanella sp. W3-18-1]
 gi|120558011|gb|ABM23938.1| putative type I site-specific restriction-modification system, S
           subunit [Shewanella sp. W3-18-1]
          Length = 429

 Score =  204 bits (519), Expect = 2e-50,   Method: Composition-based stats.
 Identities = 101/434 (23%), Positives = 187/434 (43%), Gaps = 22/434 (5%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT 60
           +     Y  YKDS   WIG +P+HW +  +K           +  +  + +    +  G 
Sbjct: 4   IAEMPKYQTYKDSTEGWIGDVPEHWDIRKLKHLFYE------KKHRPNMSLNSGAISFGK 57

Query: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLR----KAIIADFDGICSTQFLVLQP 116
                 D     S  ++      G+ L   L         +  +++ D + S  ++V++ 
Sbjct: 58  V-VTKDDEKILLSTKASYQEVLSGEFLINPLNLNYDLISLRIALSEIDVVVSAGYIVIKE 116

Query: 117 KDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIA 176
           K+ L +    +LL       ++ +  G       +  I N  +  PPL EQ LI   +  
Sbjct: 117 KEELQKQYFKYLLHRYDVAYMKLLGSGV-RQTISFNHIANSLLVFPPLEEQSLIANYLEK 175

Query: 177 ETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKP 236
           +T ++D  I  + + I LLKE+KQ ++   VT+GL+P+V MKDSG++W+G VP HWEV+ 
Sbjct: 176 KTAQVDEAIAIKEQQISLLKERKQIIIQQAVTQGLDPNVPMKDSGVDWIGKVPAHWEVRR 235

Query: 237 ----FFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIV 292
               F        + + +L  +    +   +  ++L  + +       +  + V+  + V
Sbjct: 236 SKFVFTQRKERAWKDDVQLSATQAYGVIPQDQYEELTGKRVVKIQFHLDKRKHVEKDDFV 295

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
                 Q            +  I +S  +      ID ++  +L++            S 
Sbjct: 296 ISMRSFQ----GGLERAWSQGCIRSSYVVLRALDEIDPSFYGYLLKLPSYIAALQQTASF 351

Query: 353 LR--QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
           +R  Q L F++  ++ + +PPI+EQ +I N ++      D  +E +   I  LKE ++S 
Sbjct: 352 IRDGQDLNFDNFSKVDLFIPPIEEQKEIANYVSAFMKSSDEGIELLFAQIEKLKEYKTSL 411

Query: 411 IAAAVTGQIDLRGE 424
           I +AVTG+I +  E
Sbjct: 412 INSAVTGKIKITPE 425


>gi|255308175|ref|ZP_05352346.1| putative type I site-specific restriction-modification system, S
           subunit [Clostridium difficile ATCC 43255]
          Length = 455

 Score =  203 bits (517), Expect = 3e-50,   Method: Composition-based stats.
 Identities = 95/453 (20%), Positives = 183/453 (40%), Gaps = 37/453 (8%)

Query: 3   HYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGK 62
            Y+   + KDSGV+WIG IPK W+V  IK   +L   ++ E    ++ +  + ++    +
Sbjct: 4   RYRDDEEMKDSGVEWIGKIPKDWEVKRIKHLFELKKDKSDEENPTVLSLTQKGLK---IR 60

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPE 122
            +  +     S     +   K   +   +         A+ +G+ S  +   + K+ +  
Sbjct: 61  DVSNNEGQLASTYVGYTKIEKNDFILNPMDLISGYTDKAEIEGVISPAYTTFRSKNKVNI 120

Query: 123 LLQGWLLSIDVTQRIEAICEG------ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIA 176
               +     +      +                 +   N+P+    L EQ  I   +  
Sbjct: 121 NHDYYKRYFQMHYHHNFLFPWGEGVSFEHRWTLKNEVFLNLPVITNRLEEQEKIANFLDE 180

Query: 177 ETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDV-------------KMKDSGIE 223
           +T + + +I+++   I+ L+E K++L+S +VT  +                 +MKDSGIE
Sbjct: 181 KTSQFEFIISKKEELIKKLEEAKKSLISEVVTGKVKVVKTDDGYKLVKRSSEEMKDSGIE 240

Query: 224 WVGLVPDHWEVKPFFALVTELNR---KNTKLIESNILSLSYGNIIQKL---------ETR 271
           W+G +P  WEVK F  + T           L ES I  ++YG I  K          + +
Sbjct: 241 WLGEIPKDWEVKNFKYMFTLNKGLSITKADLKESGIPCVNYGEIHSKYRFELKPSKHKLK 300

Query: 272 NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA--YMAVKPHGID 329
            +        +  ++  G+ VF       +     +       +       +A     ++
Sbjct: 301 YVDESYLKSNSISLLKYGDFVFCDTSEDIEGCGNFTYLNENNKVFAGYHTIIARTLEQVN 360

Query: 330 STYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
             Y+++L  S D         SG+   S+    +K   V++P + EQ +I   ++ +   
Sbjct: 361 YRYMSYLFDSNDWRIQIRTKVSGVKVFSITQSILKGTKVILPDLLEQRNIAQYLDSKCKG 420

Query: 389 IDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           ID +++K +  I  LKE + S I+ AVTG+I++
Sbjct: 421 IDSIIDKTKLQIDKLKEAKQSLISEAVTGKIEI 453


>gi|57506069|ref|ZP_00371992.1| type I restriction-modification system specificity subunit,
           putative [Campylobacter upsaliensis RM3195]
 gi|57015677|gb|EAL52468.1| type I restriction-modification system specificity subunit,
           putative [Campylobacter upsaliensis RM3195]
          Length = 427

 Score =  203 bits (516), Expect = 5e-50,   Method: Composition-based stats.
 Identities = 86/423 (20%), Positives = 182/423 (43%), Gaps = 21/423 (4%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           G IP HW+V  +K    ++   + +   +++ +    +     + +  +      +    
Sbjct: 6   GKIPAHWEVRRLKYLFYISKEESRDEFPNVLSLTQNGIIE---RDITTNKGQLAQNYIGY 62

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT---- 134
           +I  +G I+   +         + F+G+ S  ++ ++P + L                  
Sbjct: 63  NIVKRGDIILNPMDLSSGYVAKSTFEGVISQAYIKIRPLETLNLSYYENFFQNLYHYKIL 122

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             +                  NI +P+PPL EQ  I E +  +  +I   I ++ + I L
Sbjct: 123 WHLGKGISYDHRWTLGNDVFLNIKIPLPPLQEQKEIAEFLDKKCEKIQNYINKKQKLITL 182

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR-------- 246
           L+EKKQAL++  +TKGLNP+++ K+SGIEW+G +P HWE+K    +              
Sbjct: 183 LQEKKQALINEAITKGLNPNIEFKNSGIEWLGEIPKHWEIKKLKYIGEIFGGVIGKTIKD 242

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKP---ESYETYQIVDPGEIVFRFIDLQNDKR 303
            + +   +    +++ N+          ++    +  E    V   +I+F       +  
Sbjct: 243 FSKEYKPNFKPYITFTNVCNNAIINPNSMEYVFIDFDEKQNKVLKNDILFLQSSETFEDV 302

Query: 304 SLRSAQVMERGIITSAYMA--VKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFE 360
              +  + +  +  + +             YL +L+ S    + F ++ SG  R +L+ E
Sbjct: 303 GKSAIYLNDDEVYLNTFCKGFRIEREAYPMYLNYLLSSLSYKRYFMSVCSGFTRINLRQE 362

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQID 420
               +P+++PP++EQ +I   ++ +  +I+  +EK ++ I  ++E +++ I  AV G+I 
Sbjct: 363 HFLDIPLILPPLQEQKEIAEFLDEKCKKINSAIEKTKKQIEFVREYKNTLINEAVCGRIK 422

Query: 421 LRG 423
           L+ 
Sbjct: 423 LKE 425



 Score = 93.3 bits (230), Expect = 7e-17,   Method: Composition-based stats.
 Identities = 46/215 (21%), Positives = 89/215 (41%), Gaps = 15/215 (6%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDI---------IYIGLEDVESG 59
           ++K+SG++W+G IPKHW++  +K   ++  G   ++ KD           YI   +V + 
Sbjct: 204 EFKNSGIEWLGEIPKHWEIKKLKYIGEIFGGVIGKTIKDFSKEYKPNFKPYITFTNVCNN 263

Query: 60  TGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAI-----IADFDGICSTQFL-V 113
                              +   K  IL+ +              + D +   +T     
Sbjct: 264 AIINPNSMEYVFIDFDEKQNKVLKNDILFLQSSETFEDVGKSAIYLNDDEVYLNTFCKGF 323

Query: 114 LQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
              ++  P  L   L S+   +   ++C G T  +   +   +IP+ +PPL EQ  I E 
Sbjct: 324 RIEREAYPMYLNYLLSSLSYKRYFMSVCSGFTRINLRQEHFLDIPLILPPLQEQKEIAEF 383

Query: 174 IIAETVRIDTLITERIRFIELLKEKKQALVSYIVT 208
           +  +  +I++ I +  + IE ++E K  L++  V 
Sbjct: 384 LDEKCKKINSAIEKTKKQIEFVREYKNTLINEAVC 418


>gi|150005916|ref|YP_001300660.1| type I restriction-modification system S subunit [Bacteroides
           vulgatus ATCC 8482]
 gi|149934340|gb|ABR41038.1| type I restriction-modification system S subunit [Bacteroides
           vulgatus ATCC 8482]
          Length = 430

 Score =  203 bits (515), Expect = 6e-50,   Method: Composition-based stats.
 Identities = 92/430 (21%), Positives = 170/430 (39%), Gaps = 17/430 (3%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSE-SGKDIIYIGLEDVESGTGKYL 64
            Y  YKDSG+QW+G IP HW++   +     N    S  +  + +      +E    + +
Sbjct: 3   KYNSYKDSGIQWLGKIPSHWEIKRSRLIFDENVETNSTCNNTNQLQFRFGTIEPKKSQEM 62

Query: 65  PKDGNSRQSDTSTVSIFAKGQILYG----KLGPYLRKAIIADFDGICSTQFLVLQPKDVL 120
             D        S  +I   G I+            ++       GI ++ ++ L+PK+ +
Sbjct: 63  DSDLKKI---ISKYTIVQNGDIMINGLNLNYDFVSQRVAQVKEKGIITSAYIALRPKENI 119

Query: 121 PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
                 +LL     +++             +K   N  +PIPPL EQ  +   +   T  
Sbjct: 120 CSDYFTYLLKGMDARKVFHGMGCGVRLTLSFKEFRNELLPIPPLEEQQSMATYLDKATAE 179

Query: 181 IDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFAL 240
           ID  I ++ R I+LL E+KQ ++   VTKGL+ +V+MK+SG+ W+G +P HWE  P   +
Sbjct: 180 IDKAIAQQQRMIDLLNERKQIIIQRAVTKGLDGNVEMKNSGLNWLGQIPSHWESLPLTYV 239

Query: 241 VTELNRKNTKLIESNILSLSYGNIIQKLETRNMG---------LKPESYETYQIVDPGEI 291
               N       +    +       +  + R  G         +  ++         G  
Sbjct: 240 FEMRNGYTPSKNDPTYWTNGSIPWYRMEDIRKSGRFLREAMQYVTTKAINGKGTFKAGSY 299

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
           +         + ++  A  +      +  +             +               S
Sbjct: 300 IMAICTASIGEHAMLIADSLANQRFANFKIRKSLIESFYPLFLFYYMYVVGDFCRENSNS 359

Query: 352 GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
              Q +    +KR P+  P ++EQ +I + +     +I+  +E+I++ I LL+ER+   I
Sbjct: 360 TCFQYVDMGALKRFPIPKPSMEEQKNIVSSLTQNLQQINTALERIQKQITLLQERKQIII 419

Query: 412 AAAVTGQIDL 421
           +  VTG+I +
Sbjct: 420 SEVVTGKIKV 429


>gi|311694470|gb|ADP97343.1| type I site-specific restriction-modification system, S subunit
           [marine bacterium HP15]
          Length = 427

 Score =  202 bits (514), Expect = 7e-50,   Method: Composition-based stats.
 Identities = 106/430 (24%), Positives = 186/430 (43%), Gaps = 28/430 (6%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESG 59
            Y  YKDSG  W+G IP +W     K   ++  G+  +            Y+ +E +   
Sbjct: 9   KYEAYKDSGADWLGMIPINWTSKKFKYLARVKKGKVPKRIVSENRSGLPPYLSMEYLRGA 68

Query: 60  TGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV 119
                 +D ++         + + G IL    G    + ++     + ST   +      
Sbjct: 69  EANQFVEDRDAI--------VVSDGSILLLWDGSNAGEFVVGRGGVVSSTLAAIDFFSVD 120

Query: 120 LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
                  W         + +   G  + H D + + N  + IP L EQ LI + +  +T 
Sbjct: 121 ---RKFAWYACQVTEIELRSTTVGMGIPHVDGEQLKNSFLAIPSLDEQSLIAKFLDKKTT 177

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFA 239
           +ID  I  + + I LLKE+KQ ++   VT+GL+P V MK SG++W+G +P HWEV  F  
Sbjct: 178 QIDEAIAIKEQQIVLLKERKQIIIQKAVTQGLDPTVPMKLSGVDWIGEIPKHWEVVRFKN 237

Query: 240 LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET-YQIVDPGEIVFRFIDL 298
            +   +R   ++ +  + S   G +  +   R  G      E  YQ +  G++V   +D 
Sbjct: 238 -LFSQSRLPVRIGDGVVTSYRDGQVTLRTNRRLEGYTEAIIEGGYQGIRKGQLVLNSMDA 296

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHG--IDSTYLAWLMRSYDLCKVFYAMGSGLRQS 356
                 +  +     G  T  Y+   P+   I   Y A+L+R   L K    + + +RQ 
Sbjct: 297 FEGAIGVSDSD----GKCTPEYVICDPNRGGISQYYFAYLLREMALGKYIQVICNAVRQR 352

Query: 357 ---LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
              +++ ++    ++VPP  EQ +I   I  E  +I   ++ ++  I  LKE +++ I +
Sbjct: 353 AVRIRYNNLAPRFMVVPPESEQEEIVKFIESEKVKIGDGIDHLQSQIEKLKEYKTTLINS 412

Query: 414 AVTGQIDLRG 423
           AVTG+I +  
Sbjct: 413 AVTGKIKITP 422



 Score = 94.9 bits (234), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 49/208 (23%), Positives = 84/208 (40%), Gaps = 6/208 (2%)

Query: 209 KGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKL 268
             L+     KDSG +W+G++P +W  K F  L      K  K I S   S     +  + 
Sbjct: 5   HQLHKYEAYKDSGADWLGMIPINWTSKKFKYLARVKKGKVPKRIVSENRSGLPPYLSMEY 64

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
                  +        +V  G I+  +              V   G+++S   A+    +
Sbjct: 65  LRGAEANQFVEDRDAIVVSDGSILLLWDGSN-----AGEFVVGRGGVVSSTLAAIDFFSV 119

Query: 329 DSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
           D  +  +  +  ++      +G G+   +  E +K   + +P + EQ  I   ++ +T +
Sbjct: 120 DRKFAWYACQVTEIELRSTTVGMGI-PHVDGEQLKNSFLAIPSLDEQSLIAKFLDKKTTQ 178

Query: 389 IDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           ID  +   EQ IVLLKER+   I  AVT
Sbjct: 179 IDEAIAIKEQQIVLLKERKQIIIQKAVT 206


>gi|148653129|ref|YP_001280222.1| restriction modification system DNA specificity subunit
           [Psychrobacter sp. PRwf-1]
 gi|148572213|gb|ABQ94272.1| restriction modification system DNA specificity domain
           [Psychrobacter sp. PRwf-1]
          Length = 431

 Score =  202 bits (514), Expect = 9e-50,   Method: Composition-based stats.
 Identities = 116/431 (26%), Positives = 194/431 (45%), Gaps = 19/431 (4%)

Query: 3   HYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTK-LNTGRTSESGKDIIYIGLEDVESGTG 61
            YKAYP+YK SGV+W+G IP+HW ++  K   K L     +    D + + +  V   + 
Sbjct: 11  RYKAYPEYKGSGVEWLGEIPRHWGLLRGKWRFKSLKEVNRNLQCMDRLALTMRGVIERSI 70

Query: 62  KYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRK---AIIADFDGICSTQFLVLQP-K 117
                D   + S  +   IF K  +++  +     K     +    GI S  ++ L+P K
Sbjct: 71  D---SDDGLQPSAFTGYQIFEKDDLVFKLIDLENYKTSRVGLVFKKGIMSPAYIRLKPNK 127

Query: 118 DVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
            +L +    +   + +      I      S  +   +  I + +P   EQ  I + +  E
Sbjct: 128 GMLSKFFYYFYFDLYLRGIYNQIGGQGVRSALNASDLLEIEICVPSREEQAEIADFLDYE 187

Query: 178 TVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPF 237
           T +IDTLI ++ R IELL EK+QA +S+ VTKGLNPDV MKDSG+EW+G VP HWEVK  
Sbjct: 188 TAKIDTLIKKQQRLIELLTEKRQATISHAVTKGLNPDVPMKDSGVEWLGEVPAHWEVKDI 247

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID 297
              +  LN +   +   +                        Y    I D   ++     
Sbjct: 248 KFQLKSLNSRRIPINSQDRGDREGIYRYYGASGVI------DYIDDYIFDEPTVLVGEDG 301

Query: 298 LQNDKRSLR-SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS 356
                RS   +     +  + +    ++     + + A ++   D+  +        +  
Sbjct: 302 ANLLSRSTPLAFSAHGKYWVNNHAHILEAKDGLADFWAEVIDIIDVTPLV---TGSAQPK 358

Query: 357 LKFEDVKRLPVLVPP-IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           L  E +  L +  PP IKE+ +I + I+    +   L+   +++I L++ERR++ I+AAV
Sbjct: 359 LTAEALSNLKIAFPPTIKERKEIESFIHSSKYKYGELIGYAKKAIQLMQERRTALISAAV 418

Query: 416 TGQIDLRGESQ 426
           TG+ID+R   +
Sbjct: 419 TGKIDVRDWVK 429


>gi|209523387|ref|ZP_03271942.1| restriction modification system DNA specificity domain [Arthrospira
           maxima CS-328]
 gi|209496129|gb|EDZ96429.1| restriction modification system DNA specificity domain [Arthrospira
           maxima CS-328]
          Length = 415

 Score =  200 bits (508), Expect = 4e-49,   Method: Composition-based stats.
 Identities = 108/408 (26%), Positives = 187/408 (45%), Gaps = 18/408 (4%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           P  WK   +K       G   +           + ++++ +    +     N  + + S 
Sbjct: 17  PLGWKKSYVKYLGNYINGYPFKPDNWSFQGKPILRIQNLSNPNADF-----NRYEGEISE 71

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
             +  KG IL       L        D   +     ++    L        L+    + +
Sbjct: 72  AYLVHKGDILISWS-ASLGVYKWLGEDAWLNQHIFKVEINTKLVFEEYFVWLASWFIKEL 130

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           E    G+TM H  W   GN P+ +PP+ EQ  I   +  ET +ID LI  + R +ELL E
Sbjct: 131 EHKAHGSTMQHLTWNAFGNFPVLLPPMPEQKAIAHYLDKETAKIDQLIEAKKRLLELLDE 190

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
           K++AL+++ VT+GLNPDV M+DSG+EW+G +P HW+V+    L  E++ ++T   E  + 
Sbjct: 191 KRRALITHAVTRGLNPDVPMRDSGVEWIGEIPKHWKVEFAKWLFKEIDDRSTTGQEELLT 250

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
                 I  + E      K ES E Y++   G+++   +        +      + GI++
Sbjct: 251 VSHITGITPRSEKDVNMFKAESMEGYKVCQSGDLIINTLWAWMGAMGVS----FQPGIVS 306

Query: 318 SAYMAVKPH-GIDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIK 373
            +Y   +P       YL +L+R     +       G+   R  L  E+  ++ + VPP++
Sbjct: 307 PSYHVYRPQGEYHPVYLDYLVRIPIFAEEAIRYSKGVWISRLRLYPEEFFQILLPVPPLE 366

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           EQ+ I   +  +T ++D L    ++++ LL+ERR+S I AAVTGQ+ +
Sbjct: 367 EQYKIGKYLMEKTKKLDNLSIATKKTMDLLQERRTSLITAAVTGQLKI 414



 Score = 96.4 bits (238), Expect = 9e-18,   Method: Composition-based stats.
 Identities = 45/205 (21%), Positives = 91/205 (44%), Gaps = 5/205 (2%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGN 69
            +DSGV+WIG IPKHWKV   K   K    R++   +++  + +  +   T +       
Sbjct: 210 MRDSGVEWIGEIPKHWKVEFAKWLFKEIDDRSTTGQEEL--LTVSHITGITPRSEKDVNM 267

Query: 70  SRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
            +        +   G ++   L  ++    ++   GI S  + V +P+     +   +L+
Sbjct: 268 FKAESMEGYKVCQSGDLIINTLWAWMGAMGVSFQPGIVSPSYHVYRPQGEYHPVYLDYLV 327

Query: 130 SIDVT---QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
            I +        +     +      +    I +P+PPL EQ  I + ++ +T ++D L  
Sbjct: 328 RIPIFAEEAIRYSKGVWISRLRLYPEEFFQILLPVPPLEEQYKIGKYLMEKTKKLDNLSI 387

Query: 187 ERIRFIELLKEKKQALVSYIVTKGL 211
              + ++LL+E++ +L++  VT  L
Sbjct: 388 ATKKTMDLLQERRTSLITAAVTGQL 412


>gi|298529187|ref|ZP_07016590.1| putative type I restriction enzyme, S subunit [Desulfonatronospira
           thiodismutans ASO3-1]
 gi|298510623|gb|EFI34526.1| putative type I restriction enzyme, S subunit [Desulfonatronospira
           thiodismutans ASO3-1]
          Length = 460

 Score =  198 bits (503), Expect = 2e-48,   Method: Composition-based stats.
 Identities = 88/432 (20%), Positives = 171/432 (39%), Gaps = 15/432 (3%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT 60
           +   K Y +YKDSG+ W   IP HWKV   K   +    R+    ++ + +  E      
Sbjct: 2   IDELKPYAEYKDSGLPWASKIPTHWKVRRAKNLFRCIDVRSKTGTEERLTVSAE--RGVV 59

Query: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL 120
            +   K                   ++   L  + R   +A   G+ S+ + V + +   
Sbjct: 60  PRSSMKVTMFEAKSYIGHKRCWPDDLVINSLWAWGRGLGVARHHGLVSSAYGVYRLRPEF 119

Query: 121 PELLQGWLLSIDVTQRIEAICEGATMSHADWKG-----IGNIPMPIPPLAEQVLIREKII 175
            E        +        +   +                  P+ +P + E   I   I 
Sbjct: 120 DEYAPFIHHLVRSKVYHWELRTRSKGVWISRLQLTDDAFLRAPILVPSVEEGKAITRFIR 179

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVK 235
               +++  I  R R I++L E+KQA+++  VT+GL+P+V +K SG++W+G +P HWE  
Sbjct: 180 DIDRKVNAFIRNRRRLIKVLNEQKQAIINRAVTRGLDPNVPLKPSGVDWLGNIPKHWEKN 239

Query: 236 PFFALVTELNRKNT--KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVF 293
               LV  +N + +  +  E  +          ++   +  ++  S      V  G+++F
Sbjct: 240 RLKFLVRNVNEQTSTRQPDEVYVALEHVEGWTGRITLPSEDIEFGSQVKRFHV--GDVLF 297

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL 353
             +     K  +    V    +     +  K   +   +L   +RS     +  +   G 
Sbjct: 298 GKLRPYLAK--VTRPSVKGVCVGEFLVLRRKNEALLPEFLEQELRSKLFIDIINSATFGA 355

Query: 354 -RQSLKFEDVKRLPVLVPP-IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
                 ++ +  L ++ PP   EQ +I +    +TA +   ++K  + + L++E R+  I
Sbjct: 356 KMPRADWDFIGNLLIVYPPTHAEQLEILSDTGKQTASLQAAIDKANREVSLIQEYRTRLI 415

Query: 412 AAAVTGQIDLRG 423
           A  VTG++D+R 
Sbjct: 416 ADVVTGKVDVRN 427


>gi|332664152|ref|YP_004446940.1| restriction modification system DNA specificity domain-containing
           protein [Haliscomenobacter hydrossis DSM 1100]
 gi|332332966|gb|AEE50067.1| restriction modification system DNA specificity domain protein
           [Haliscomenobacter hydrossis DSM 1100]
          Length = 417

 Score =  197 bits (501), Expect = 2e-48,   Method: Composition-based stats.
 Identities = 115/412 (27%), Positives = 192/412 (46%), Gaps = 17/412 (4%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYL-------PKDGNSRQSDTSTVSI 80
           + +K    L   R         YIGLE +ES +G+ L              ++  S  ++
Sbjct: 7   IKLKHSVSLRKERVEGLENSRPYIGLEHIESSSGRLLISPLENGDLPDEMAEAGESLCNL 66

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
           F  G +L+GKL PYL KA +A+F G C+T+ +VL PK + P  L+   L  ++   I   
Sbjct: 67  FEPGDVLFGKLRPYLAKAWVANFSGRCTTELIVLIPKLIDPYYLKYNFLEKELLDAITGS 126

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
             G+ M  ADW  IG+  +  PP+  Q  I   +  ET RID LI+ + R I LL EK+Q
Sbjct: 127 SFGSKMPRADWGFIGDQYIFFPPIDIQRRIASYLDRETTRIDGLISAKERLITLLAEKRQ 186

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR--KNTKLIESNILS 258
           AL++  VT+G + ++KMK +G+EW+G VPD W       L        +        +  
Sbjct: 187 ALITQAVTRGFDQEIKMKHAGVEWIGEVPDGWMEIRVKYLGDIFYGLSQPPGYHADGLPL 246

Query: 259 LSYGNIIQKLETR----NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
           +   N+ +    +     +           I+  G+I+           +L + +  E  
Sbjct: 247 VRATNVYRGEIRKEGLVFVNEDDLPESKKVILKTGDIIIVRSGAYTADSALVT-EEWEGA 305

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLC--KVFYAMGSGLRQSLKFEDVKRLPVLVPP- 371
           +     +      ++  +LA+++ S  +   ++        +  L  E++    V++PP 
Sbjct: 306 VAGFDMVFKPNKRVNPNFLAYVLLSPYVLESQLIPMSVRAAQPHLNAEELGSTIVVLPPS 365

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
           + EQF I   +  + +++D L     +SI LLKERR + I+AAVTGQI++  
Sbjct: 366 VDEQFAIIQCLEKKISKLDALRVANTKSIELLKERRKALISAAVTGQIEITD 417



 Score = 82.1 bits (201), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 44/212 (20%), Positives = 89/212 (41%), Gaps = 9/212 (4%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESG---KDIIYIGLEDVESGTGKYLP 65
           + K +GV+WIG +P  W  + +K    +  G +   G     +  +   +V  G  +   
Sbjct: 202 KMKHAGVEWIGEVPDGWMEIRVKYLGDIFYGLSQPPGYHADGLPLVRATNVYRGEIRKEG 261

Query: 66  KDGNSRQS-DTSTVSIFAKGQILYGKLGPYLRKAII--ADFDGICSTQFLVLQPKDVLPE 122
               +      S   I   G I+  + G Y   + +   +++G  +   +V +P   +  
Sbjct: 262 LVFVNEDDLPESKKVILKTGDIIIVRSGAYTADSALVTEEWEGAVAGFDMVFKPNKRVNP 321

Query: 123 LLQGWLLSIDVTQRIEAICEGA--TMSHADWKGIGNIPMPIPP-LAEQVLIREKIIAETV 179
               ++L        + I         H + + +G+  + +PP + EQ  I + +  +  
Sbjct: 322 NFLAYVLLSPYVLESQLIPMSVRAAQPHLNAEELGSTIVVLPPSVDEQFAIIQCLEKKIS 381

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVTKGL 211
           ++D L     + IELLKE+++AL+S  VT  +
Sbjct: 382 KLDALRVANTKSIELLKERRKALISAAVTGQI 413


>gi|217979675|ref|YP_002363822.1| hypothetical protein Msil_3571 [Methylocella silvestris BL2]
 gi|217505051|gb|ACK52460.1| conserved hypothetical protein [Methylocella silvestris BL2]
          Length = 458

 Score =  197 bits (500), Expect = 3e-48,   Method: Composition-based stats.
 Identities = 88/426 (20%), Positives = 170/426 (39%), Gaps = 19/426 (4%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYL 64
           + Y     +G+ W+G +P HW V  IK   +    R+    + ++ + +     G   ++
Sbjct: 6   RPYADTNPTGLPWLGDVPAHWNVRRIKTLLREVDSRSKTGEERLLSLRMR---QGLVDHI 62

Query: 65  PKDGNSRQ-SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPEL 123
              G            I   GQ++  ++        +A+  G+ S  + V +P       
Sbjct: 63  DAGGKLIPPESLVNFKIVEPGQVVMNRMRAAAGLFGVANVRGLVSPDYAVFEPLPEAFNP 122

Query: 124 LQGWLLSID-----VTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
                  +           + +  G +          G IP+P PPL EQ LI   +   
Sbjct: 123 YLLQAFRLPSLSAVFRAESKGLGTGESGFLRLYTDRFGPIPVPYPPLDEQRLIVRFLDWH 182

Query: 178 TVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPF 237
             +   LI  + + I LL E+KQA++   VT+GL+P+V++K SGI W+G +P+ WEV   
Sbjct: 183 GAQTAKLIRAKKKIIALLNEQKQAIIHRAVTRGLDPNVRLKPSGIPWLGDIPEDWEVSRV 242

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID 297
                 LN +   L  +    ++         +  +    E      + D   ++     
Sbjct: 243 KTEFQCLNYRRVPLSGTERGRMTVRQYDYYGASGVIDKVDE-----FLFDDKLLLIAEDG 297

Query: 298 LQNDKRSLRSAQVME-RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS 356
                R+L  A + E +  + +    +KP   D  +LA ++   +            +  
Sbjct: 298 ANLVLRNLPLAIIAEGKFWVNNHAHILKPRRGDIRFLAAILEGLNFLPWI---SGAAQPK 354

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           L  + +  + + VPP  +Q +I    + E + +   +    + ++ ++E R+  IA  VT
Sbjct: 355 LTQDRLMGIAIAVPPGHKQLEIIQSCDEEVSELVRAINVASKELIFIQEFRTRLIADVVT 414

Query: 417 GQIDLR 422
           G++D+R
Sbjct: 415 GKLDVR 420



 Score =  102 bits (253), Expect = 1e-19,   Method: Composition-based stats.
 Identities = 52/217 (23%), Positives = 93/217 (42%), Gaps = 11/217 (5%)

Query: 207 VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ 266
           +  GL P      +G+ W+G VP HW V+    L+ E++ ++    E  +       ++ 
Sbjct: 1   MIDGLRPYADTNPTGLPWLGDVPAHWNVRRIKTLLREVDSRSKTGEERLLSLRMRQGLVD 60

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
            ++     + PES   ++IV+PG++V   +        + +     RG+++  Y   +P 
Sbjct: 61  HIDAGGKLIPPESLVNFKIVEPGQVVMNRMRAAAGLFGVANV----RGLVSPDYAVFEPL 116

Query: 327 GI-DSTYLAWLMRSYDLCKVFYAMGSG------LRQSLKFEDVKRLPVLVPPIKEQFDIT 379
               + YL    R   L  VF A   G          L  +    +PV  PP+ EQ  I 
Sbjct: 117 PEAFNPYLLQAFRLPSLSAVFRAESKGLGTGESGFLRLYTDRFGPIPVPYPPLDEQRLIV 176

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
             ++   A+   L+   ++ I LL E++ + I  AVT
Sbjct: 177 RFLDWHGAQTAKLIRAKKKIIALLNEQKQAIIHRAVT 213


>gi|237809016|ref|YP_002893456.1| restriction modification system DNA specificity domain-containing
           protein [Tolumonas auensis DSM 9187]
 gi|237501277|gb|ACQ93870.1| restriction modification system DNA specificity domain protein
           [Tolumonas auensis DSM 9187]
          Length = 421

 Score =  196 bits (499), Expect = 4e-48,   Method: Composition-based stats.
 Identities = 102/426 (23%), Positives = 176/426 (41%), Gaps = 22/426 (5%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYL 64
             Y  YKDSGV W+G IP+ W    +K   ++  GR     +        D       Y 
Sbjct: 8   PKYEAYKDSGVDWLGEIPEEWSTRKVKYLFRIGRGRVISQQEL-------DDNGCYPVYS 60

Query: 65  PKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELL 124
            +  N       +   F   QI +   G       +      C+     LQP +     L
Sbjct: 61  SQTQNDGILGYISTFDFDCEQITWTTDGANAGTVFLRKGKHNCTNVCGTLQPINKQKISL 120

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
           +    ++ +  +     +    +      +  I +  PPL  Q  I   +  +T +ID  
Sbjct: 121 EFLKNALSIAAQFYKRPDTNG-AKIMNGEMAEIFVTFPPLEAQTAIANFLDEKTAKIDEA 179

Query: 185 ITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTEL 244
           I  + + IELLKE+KQ ++   VT+GL+P V MKDSG+EW+G +P HWEV+    +  + 
Sbjct: 180 IAIKEKQIELLKERKQIIIQQAVTQGLDPTVPMKDSGVEWIGKIPAHWEVRRSRFVFCQR 239

Query: 245 NRKNTKLIESNILSLSYGNIIQKLET----RNMGLKPESYETYQIVDPGEIVFRFIDLQN 300
             +          + +YG I Q+       R +       +  + V+  + V      Q 
Sbjct: 240 KERARSNDVQLSATQAYGVIPQEQYEEMVGRKVVKISFHLDKRKHVEINDFVISMRSFQG 299

Query: 301 DKRSLRSAQVMERGIITSAYMAVKP---HGIDSTYLAWLMRSYDLCKVFYAMGSGLR--Q 355
                   +    G I S+Y+ ++P     ID+ + ++L++            S +R  Q
Sbjct: 300 -----GLERAWASGCIRSSYVVLRPVNSEEIDAGFFSYLLKLPSYINALQMTASFIRDGQ 354

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            L F++  ++ + +PPI EQ  I + I  +   I+   E     I   +E +++ I +AV
Sbjct: 355 DLNFDNFSQVDLFIPPIDEQRAIFSAIQSKVDEINKATEIFIGQITKYQEYKTTLINSAV 414

Query: 416 TGQIDL 421
           TG+I +
Sbjct: 415 TGKIKV 420


>gi|150399018|ref|YP_001322785.1| restriction modification system DNA specificity subunit
           [Methanococcus vannielii SB]
 gi|150011721|gb|ABR54173.1| restriction modification system DNA specificity domain
           [Methanococcus vannielii SB]
          Length = 407

 Score =  196 bits (498), Expect = 6e-48,   Method: Composition-based stats.
 Identities = 92/419 (21%), Positives = 172/419 (41%), Gaps = 22/419 (5%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDG 68
             KDSG++WIG IP  W V+  K    ++TG                +    G   P   
Sbjct: 4   AMKDSGIEWIGDIPADWNVIKTKHLCDISTGNQDT------------INRVDGGDYPFFI 51

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL 128
            S+  +      F    +L    G   +     D       +         +      + 
Sbjct: 52  RSKNVERINTYSFDGEAVLTAGDGDVGKIFHYIDGKFDYHQRVYKFSDFRSVIGRYFYYY 111

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
           +S ++ + +       T+       +   P+ +  + EQ  I + +  +  +ID++I + 
Sbjct: 112 ISSNLIRELGKYNAKTTVESLRLPWLKEFPVIVSKIEEQQQIAQYLDDKVGQIDSIIEKT 171

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN 248
              IE  K+ KQ++++  VTKGL+P V MKDSG+EW+G +P+HW++    +L+ E+N +N
Sbjct: 172 KSSIEEYKKYKQSIMTETVTKGLDPTVMMKDSGVEWIGDIPEHWDMVKIKSLLYEINERN 231

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
                  +   +   +  + E    G K  +   Y+IV  G+++   +       +    
Sbjct: 232 VDENAVLLSLFTALGVAPRSEMEEKGNKAVTVINYKIVKRGDLIVNKLLAWMGAIAFSDY 291

Query: 309 QVMERGIITSAYMAVKPHGI---DSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDV 362
           +    G+ +  Y   + H      + +  W  R        Y  G G+   R        
Sbjct: 292 E----GVTSPDYDVYRFHENAEALTEFYEWYFRFTKFKDDCYKFGRGIMMMRWRTYPAQF 347

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           K + V+ PP++EQ  I + +  + A ID L++K ++ I  L+  + S I   VTG+ ++
Sbjct: 348 KNIYVVNPPLEEQKQIIDYLKQKIADIDQLIDKKQRLITELESYKKSLIYEVVTGKKEI 406


>gi|226949372|ref|YP_002804463.1| restriction modification system DNA specificity domain protein
           [Clostridium botulinum A2 str. Kyoto]
 gi|226840941|gb|ACO83607.1| restriction modification system DNA specificity domain protein
           [Clostridium botulinum A2 str. Kyoto]
          Length = 450

 Score =  196 bits (497), Expect = 6e-48,   Method: Composition-based stats.
 Identities = 101/447 (22%), Positives = 186/447 (41%), Gaps = 35/447 (7%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES-GKDIIYIGLEDVESGTGKYLPKD 67
           + KDSGV+WIG +   WK +P+K   K    + S    K+ + + +    +   +    +
Sbjct: 4   KMKDSGVEWIGYMNTCWKTMPLKFILKERRQKNSPIITKERLSLSIGVGVTLYSEKT-TN 62

Query: 68  GNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW 127
            +  + D +   +     ++   +   +    I+++ G  S  + V+   +    + + +
Sbjct: 63  LDRFKDDVTQYKVAYPNDLVINSMNVIVGAEGISNYLGCVSPAYYVMCSSNPQKFITKYY 122

Query: 128 LLSIDVTQRIEAICE---------------GATMSHADWKGIGNIPMPIPPLAEQVLIRE 172
                 +   +A+                            +G +  P+P + EQ  I E
Sbjct: 123 DYCFKTSTIQKALFYLGKGIMAIDRGEGRVNTCRLKVSSYDLGRLEFPVPSVNEQHRIVE 182

Query: 173 KIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHW 232
            +     +ID  I +  + IE LKE KQ++++  VTKGLNPDVKMKDSG+EW+G +P HW
Sbjct: 183 FLDNRCNKIDQTIQKEKQVIEKLKEYKQSVITEAVTKGLNPDVKMKDSGVEWIGEIPKHW 242

Query: 233 EVKPFFALVTELNR---KNTKLIESNILSLSYGN---------IIQKLETRNMGLKPESY 280
           +V+    + +           L+E  I  +SYG           I     R +G +    
Sbjct: 243 KVEKLKHIFSFKKGLSITKDNLVEEGIKVISYGQIHSKSNIGVCINDSLIRYVGEEYLET 302

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID-----STYLAW 335
               +V   + +F       +             I    +  +     D       Y A+
Sbjct: 303 GKQSLVLRNDFIFADTSEDLEGAGNYVYVGKNEEIFAGYHTIILTPIKDDIMSEWKYFAY 362

Query: 336 LMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
           L ++        +  SG++  S+  + +K+  V+VP IKEQ +IT+ ++ + + ID L+ 
Sbjct: 363 LYKTDCWRSQIRSRVSGIKLFSITQKILKQTEVIVPDIKEQKEITDYLDKKCSSIDKLIS 422

Query: 395 KIEQSIVLLKERRSSFIAAAVTGQIDL 421
             E+ I  L E + S I   VTG+ ++
Sbjct: 423 DKEKVIKKLTEYKKSLIYECVTGKKEV 449


>gi|120612012|ref|YP_971690.1| restriction modification system DNA specificity subunit [Acidovorax
           citrulli AAC00-1]
 gi|120590476|gb|ABM33916.1| restriction modification system DNA specificity domain protein
           [Acidovorax citrulli AAC00-1]
          Length = 429

 Score =  196 bits (497), Expect = 7e-48,   Method: Composition-based stats.
 Identities = 128/413 (30%), Positives = 205/413 (49%), Gaps = 15/413 (3%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST---- 77
           P+ W++  +K    L   R S       Y+GLE++ES TG+ +  +              
Sbjct: 10  PEVWRLARLKFVAPLRNERMSAGSDHPGYLGLENIESWTGRIIEVESKRDDEPADQSAGL 69

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL-PELLQGWLLSIDVTQR 136
            +IF +G +L+ KL PYL KA  A  DG+ ST+ LV++P ++L P  L   +L+ D    
Sbjct: 70  ANIFREGDVLFCKLRPYLAKACHAPRDGVGSTELLVMRPSELLEPRFLLYSILTPDFVGA 129

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           ++A   GA M  A+W  IG++ + +PPL EQ LI   +  ET  ID LI E+ R + LL+
Sbjct: 130 VDASTFGAKMPRANWDFIGSLEVKVPPLEEQRLIANYLDRETAGIDGLIAEKERMLALLE 189

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVT-------ELNRKNT 249
           EK+ AL+S +VT+GL+P+  +K SG EW+G +P HW ++    L                
Sbjct: 190 EKRAALISRVVTRGLDPNAPLKPSGQEWLGEIPVHWGLQRLKQLAEVRGGLTLGKQYSGE 249

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFR-FIDLQNDKRSLRSA 308
            L    +   +  +   KL+       P S     ++  G+++     D+    R     
Sbjct: 250 LLEYPYLRVANVQDGYLKLDDVLTVEVPASEAASNLLVYGDVLMNEGGDIDKLGRGCVWR 309

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLP 366
             +   +  +   AV+PH +DS +LA    +    + F +    S    S+   ++K LP
Sbjct: 310 DEISPCLHQNHVFAVRPHSVDSDWLALWTSTIQAKRYFESRAKRSTNLASISGSNIKELP 369

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
           V +PP+ EQ  I N + V  +R++ L  ++  S+ LL ERR++ I A VTGQI
Sbjct: 370 VPLPPVSEQLAIQNFLAVRHSRLETLRGELRDSLRLLIERRAALITAGVTGQI 422



 Score = 86.0 bits (211), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 44/212 (20%), Positives = 82/212 (38%), Gaps = 11/212 (5%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK-----DIIYIGLEDVESGTGKYLP 65
           K SG +W+G IP HW +  +K+  ++  G T          +  Y+ + +V+ G  K   
Sbjct: 211 KPSGQEWLGEIPVHWGLQRLKQLAEVRGGLTLGKQYSGELLEYPYLRVANVQDGYLKLDD 270

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPY---LRKAIIADFDGIC---STQFLVLQPKDV 119
                  +  +  ++   G +L  + G      R  +  D    C   +  F V      
Sbjct: 271 VLTVEVPASEAASNLLVYGDVLMNEGGDIDKLGRGCVWRDEISPCLHQNHVFAVRPHSVD 330

Query: 120 LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
              L                      ++      I  +P+P+PP++EQ+ I+  +     
Sbjct: 331 SDWLALWTSTIQAKRYFESRAKRSTNLASISGSNIKELPVPLPPVSEQLAIQNFLAVRHS 390

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVTKGL 211
           R++TL  E    + LL E++ AL++  VT  +
Sbjct: 391 RLETLRGELRDSLRLLIERRAALITAGVTGQI 422


>gi|91215847|ref|ZP_01252816.1| putative type I restriction enzyme (specificity subunit)
           [Psychroflexus torquis ATCC 700755]
 gi|91185824|gb|EAS72198.1| putative type I restriction enzyme (specificity subunit)
           [Psychroflexus torquis ATCC 700755]
          Length = 426

 Score =  196 bits (497), Expect = 8e-48,   Method: Composition-based stats.
 Identities = 86/431 (19%), Positives = 159/431 (36%), Gaps = 23/431 (5%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSE---------SGKDIIYIGLEDV 56
            Y  YKDSG++W+G IP HW+V  +K    L  G+ +          +     ++   DV
Sbjct: 3   KYDTYKDSGIEWLGEIPVHWEVKRVKEIFNLVRGKFTHRPRNDQRMYNNGTFPFLQTGDV 62

Query: 57  ESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP 116
              +   L       ++       F KG ++   +   +    +  FD       +    
Sbjct: 63  AKSSKYVLQYKQVLNENGIKVSRQFKKGTLVMT-IAANIGDVALLGFDAYFPDSLVAFNT 121

Query: 117 KDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIA 176
           K  +      + L       ++ +    T  + + + + ++    PPL+EQ +I   +  
Sbjct: 122 KHNIN---FYYYLLSVTKSELDTVKITNTQDNLNLERLNSLLKICPPLSEQTIIANYLDK 178

Query: 177 ETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKP 236
           +T  ID  I    +  +  KE +++L++  VT GL+ +   K   ++ +G +      K 
Sbjct: 179 KTTAIDQKINLLTKKTDKYKELRKSLINQTVTDGLDKNTIWKTYRLKDIGQIYSGLSGKN 238

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFI 296
                 E +  N       I   +  N           +     E    V   ++ F   
Sbjct: 239 GDDFKKEKDPNNRGF----IPFTNIANNTYLDVEHLSKVIISPTENQNKVQKNDLFFLMS 294

Query: 297 DLQNDKRSLRSA--QVMERGIITSAYMAVKPHGIDSTYLA--WLMRSYDLCKVFYAMGSG 352
               +     +   + +    + S     +    +       +L+ S D        G G
Sbjct: 295 SEGYEDIGKSAVLKEDIPETYLNSFCKGFRITNTNVDAFFINYLLLSDDNRNKMVIQGKG 354

Query: 353 -LRQSLKFEDVKRLPVLVPP-IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
             R +LK E V    + +P    EQ  I N ++ +T+ ID +V  IE+ I  LKE R + 
Sbjct: 355 FTRINLKIEKVNNFSITIPSTKAEQTAIANYLDEKTSTIDAIVSNIERQINHLKELRKTV 414

Query: 411 IAAAVTGQIDL 421
           I   VTG+I +
Sbjct: 415 INDVVTGKIKV 425


>gi|297619043|ref|YP_003707148.1| restriction modification system DNA specificity subunit
           [Methanococcus voltae A3]
 gi|297378020|gb|ADI36175.1| restriction modification system DNA specificity subunit
           [Methanococcus voltae A3]
          Length = 440

 Score =  194 bits (493), Expect = 2e-47,   Method: Composition-based stats.
 Identities = 88/437 (20%), Positives = 175/437 (40%), Gaps = 22/437 (5%)

Query: 3   HYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGK 62
            Y+   + KDSGV+WIG IPK W ++  K              K+++ + L  V     +
Sbjct: 5   KYRKAEELKDSGVEWIGQIPKDWDIIKGKNIFYNKKVNNRGILKNVLSLTLNGVID---R 61

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGKL---GPYLRKAIIADFDGICSTQFLVLQPKDV 119
               +   +  D      F K  +++  +        +  I    G+ S  ++ +  K  
Sbjct: 62  DPMSNEGLQPKDFKGYQEFEKNNLVFKLIDLENINTSRVGITHKSGLMSPAYIRIINKYQ 121

Query: 120 LP-ELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
           +  +       S  + +    +      S  +   + N+ +      EQ  I   +  +T
Sbjct: 122 ICVKYYYYTYYSYYLKKIYNNLGNSGVRSAMNSCDLLNLEVLQTFEKEQEKIANFLDIKT 181

Query: 179 VRIDTLITERIRFIELLKEKKQALVSYIVTKGLN---------PDVKMKDSGIEWVGLVP 229
             I+ +I+++ + I  L+E K++L+S +VT                ++KDSG+EW+G +P
Sbjct: 182 EEIENIISKKEKLINKLEEAKKSLISEVVTGKFKIIDVKLIKREKEELKDSGVEWIGQIP 241

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG 289
           + W+VK     V+  + K         + L +         +N                 
Sbjct: 242 NDWDVKKLKYEVSLRSIKGEYTKNLKYIGLEHIESSTGKYIKNSEELNIE-GICNKFKKN 300

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
           +I+F  +     K  + +      G+ +S  + +    I++ +L +++ +        + 
Sbjct: 301 DILFGKLRPYLAKCIIANFD----GVCSSELLVLNTQRINNIFLKYVILNSKFINYINSS 356

Query: 350 GSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
             G       ++ V  + +  P ++EQ  I+N ++ +T  ID L+   +  I  LKE + 
Sbjct: 357 TYGAKMPRTNWDFVGNIKIPHPNMQEQETISNFLDTKTEEIDNLINNTKLQIEKLKEAKQ 416

Query: 409 SFIAAAVTGQIDLRGES 425
           S I+ AVTG+IDLR   
Sbjct: 417 SLISEAVTGKIDLREWE 433


>gi|229520170|ref|ZP_04409597.1| restriction modification system DNA specificity domain [Vibrio
           cholerae TM 11079-80]
 gi|229342764|gb|EEO07755.1| restriction modification system DNA specificity domain [Vibrio
           cholerae TM 11079-80]
          Length = 434

 Score =  194 bits (492), Expect = 3e-47,   Method: Composition-based stats.
 Identities = 104/421 (24%), Positives = 184/421 (43%), Gaps = 26/421 (6%)

Query: 25  WKVVPIKRFTKLNTGRT-SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           W +VP KR    +          + + + ++ V + +   L      + SD S   IF K
Sbjct: 16  WNLVPAKRLFTSSKEINQGMKESNRLALTMKGVINRSLDDLQ---GLQSSDYSVYQIFEK 72

Query: 84  GQILYGKL---GPYLRKAIIADFDGICSTQFLVL--QPKDVLPELLQGWLLSIDVTQRIE 138
             +++  +        +  I    GI S  ++ +      + P     +  ++ +T    
Sbjct: 73  DDLVFKLIDLENIKTSRVGIVHERGIMSPAYIRVSACSNSIYPRFYYWYFFALYLTNIYN 132

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
            +  G    +     +  IP+P+  ++ Q  +   +  ET RID+LI E+  FI LLKEK
Sbjct: 133 KL-GGGVRQNLTAGDLLEIPVPLIDISLQKQVSAFLDRETQRIDSLIEEKQTFITLLKEK 191

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
           +QAL+S++VTKGLNP+V+M+DSGIEW+G VP HW VK     V  + +  +   ES  + 
Sbjct: 192 RQALISHVVTKGLNPNVEMQDSGIEWIGQVPKHWVVKKIKYDVLGIEQGWSPQCESTPVP 251

Query: 259 LSYGNIIQKLETRNMGLKPESYETY----------QIVDPGEIVFRFIDLQNDKRSLRSA 308
             +   + K+   N G+                    +  G+++    + +    S    
Sbjct: 252 DDHTWGVVKVGCVNRGIFNPEQNKKLPEELEPRKEYAIKKGDLLVSRANAKEWVGSAAVP 311

Query: 309 QVMERGIITSAYMAVKP---HGIDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDV 362
                 ++    +          D  + A+ + S    +      +G      ++    +
Sbjct: 312 DRDYDNLLLCDKIYRIKLDLEKADPEFFAYYLASDQAREQIEIDATGTSSSMLNIGQGTI 371

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
             +P+  P + EQ  I   I  +T++ID L+ ++  SI LLKE R+S I+AAVTG+ID+R
Sbjct: 372 LNMPIPAPELPEQQSIVRGIKNKTSQIDRLMLEVLDSIELLKEHRTSLISAAVTGKIDVR 431

Query: 423 G 423
            
Sbjct: 432 E 432



 Score = 76.0 bits (185), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 56/221 (25%), Positives = 91/221 (41%), Gaps = 17/221 (7%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIK-RFTKLNTGRTS-------ESGKDIIYIGLEDVESGT 60
           + +DSG++WIG +PKHW V  IK     +  G +                + +  V  G 
Sbjct: 209 EMQDSGIEWIGQVPKHWVVKKIKYDVLGIEQGWSPQCESTPVPDDHTWGVVKVGCVNRGI 268

Query: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGP--YLRKAIIADFDG----ICSTQF-LV 113
                      + +        KG +L  +     ++  A + D D     +C   + + 
Sbjct: 269 FNPEQNKKLPEELEPRKEYAIKKGDLLVSRANAKEWVGSAAVPDRDYDNLLLCDKIYRIK 328

Query: 114 LQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPI--PPLAEQVLIR 171
           L  +   PE    +L S    ++IE    G + S  +      + MPI  P L EQ  I 
Sbjct: 329 LDLEKADPEFFAYYLASDQAREQIEIDATGTSSSMLNIGQGTILNMPIPAPELPEQQSIV 388

Query: 172 EKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLN 212
             I  +T +ID L+ E +  IELLKE + +L+S  VT  ++
Sbjct: 389 RGIKNKTSQIDRLMLEVLDSIELLKEHRTSLISAAVTGKID 429


>gi|260578144|ref|ZP_05846064.1| restriction modification system DNA specificity domain protein
           [Corynebacterium jeikeium ATCC 43734]
 gi|258603683|gb|EEW16940.1| restriction modification system DNA specificity domain protein
           [Corynebacterium jeikeium ATCC 43734]
          Length = 383

 Score =  193 bits (490), Expect = 4e-47,   Method: Composition-based stats.
 Identities = 104/382 (27%), Positives = 180/382 (47%), Gaps = 11/382 (2%)

Query: 48  IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGIC 107
           I+ I    ++        ++      +     +  +G      +         + FDG+ 
Sbjct: 1   ILSITQSGIKPKNI---LQNEGQMARNYDGYQVVNQGDFAMNSMDLLTGWVDQSPFDGLT 57

Query: 108 STQFLVLQPKD--VLPELLQGWLLSIDVTQRIEAIC----EGATMSHADWKGIGNIPMPI 161
           S  + V + ++   +      ++  +  ++ I                      N P+P+
Sbjct: 58  SPDYRVFRARNLEFINGRYFLYVFQLLYSRHIYYKFGQGVSNMGRWRLPADVFLNFPLPV 117

Query: 162 PPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSG 221
           PP  EQ  I   +  +T  ID LI +     ELL+  ++ L++  VT+GL+PD  M+DSG
Sbjct: 118 PPRLEQAEISNYLDEKTAEIDGLIGKLGHQAELLERYRRELIARTVTRGLDPDAPMRDSG 177

Query: 222 IEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK-PESY 280
           I+W G +P  W  +PF AL +   + N+ L   N L    G I+ K        K  E+ 
Sbjct: 178 IDWAGDMPKTWRTQPFVALFSVEKKINSDLRIRNALQFRNGEIVVKPGWYPEDRKLDETL 237

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA-WLMRS 339
            TY++V PG IV   ++L  D R+ R   V + G+ITSAY+ +  +       A +L++S
Sbjct: 238 ATYKVVTPGMIVINGLNLNYDFRTKRIGLVTQNGVITSAYITLSANLGIDERFASYLLKS 297

Query: 340 YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
            D   +F+ M  G+R+ L + D++R  + VPP++EQ +I + +  ++A ID  +E I++ 
Sbjct: 298 MDSRLLFHGMAEGVRKILSWADIRREKIPVPPLREQTEIADFLEEKSAEIDTTIEGIKRQ 357

Query: 400 IVLLKERRSSFIAAAVTGQIDL 421
           I LL + R   I  AVTG+I +
Sbjct: 358 IELLGKYRKQVINDAVTGKIRV 379



 Score = 68.7 bits (166), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 41/207 (19%), Positives = 82/207 (39%), Gaps = 7/207 (3%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSE-SGKDIIYIGLEDVESGTGKYLPKDG 68
            +DSG+ W G +PK W+  P      +     S+   ++ +     ++    G Y     
Sbjct: 173 MRDSGIDWAGDMPKTWRTQPFVALFSVEKKINSDLRIRNALQFRNGEIVVKPGWYPEDR- 231

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPY----LRKAIIADFDGICSTQFLVLQPKDVLPELL 124
                  +T  +   G I+   L        ++  +   +G+ ++ ++ L     + E  
Sbjct: 232 -KLDETLATYKVVTPGMIVINGLNLNYDFRTKRIGLVTQNGVITSAYITLSANLGIDERF 290

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
             +LL    ++ +             W  I    +P+PPL EQ  I + +  ++  IDT 
Sbjct: 291 ASYLLKSMDSRLLFHGMAEGVRKILSWADIRREKIPVPPLREQTEIADFLEEKSAEIDTT 350

Query: 185 ITERIRFIELLKEKKQALVSYIVTKGL 211
           I    R IELL + ++ +++  VT  +
Sbjct: 351 IEGIKRQIELLGKYRKQVINDAVTGKI 377


>gi|154508213|ref|ZP_02043855.1| hypothetical protein ACTODO_00707 [Actinomyces odontolyticus ATCC
           17982]
 gi|153797847|gb|EDN80267.1| hypothetical protein ACTODO_00707 [Actinomyces odontolyticus ATCC
           17982]
          Length = 385

 Score =  193 bits (489), Expect = 6e-47,   Method: Composition-based stats.
 Identities = 123/379 (32%), Positives = 192/379 (50%), Gaps = 8/379 (2%)

Query: 51  IGLEDVESGTGKYLPKDGN---SRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGIC 107
           +  +       +Y+ K G+     + D + +     G  +   +  +     +++  G  
Sbjct: 6   VSQQYGVIPQSEYVKKTGSHVVVVEKDFTILKAVYPGDFVI-HMRSFQGGLELSEVKGCT 64

Query: 108 STQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSH---ADWKGIGNIPMPIPPL 164
           S+ +++L P   +        +        E       +       W     +P+P PP 
Sbjct: 65  SSAYVMLIPGPQIHSARYYRWVFKCDGYINELRSTSNLVRDGQAMRWANFIQVPIPFPPP 124

Query: 165 AEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEW 224
             Q  I + +  ET RI+ L       I+ L   K++++   VTKGL+P+  M DS I+W
Sbjct: 125 EVQDSIAKYLDRETERIEELKDSIRAQIDALDSYKRSVILDAVTKGLDPNRDMVDSKIDW 184

Query: 225 VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ 284
           +  +P +W V P      E   KN    E+N+LSLSYG II+K      GL P ++  Y 
Sbjct: 185 IDRLPRNWNVAPLRHFFHEHKAKNLFRQETNLLSLSYGRIIRKDIGTVDGLLPSNFNGYN 244

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI-DSTYLAWLMRSYDLC 343
           IV PG+IV R  DLQND++SLR+  V ERGI+TSAY+A++ H   DSTY  +L  +YD+C
Sbjct: 245 IVGPGDIVLRLTDLQNDQKSLRTGLVNERGIVTSAYIALRKHRELDSTYFHYLFHTYDIC 304

Query: 344 KVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
           +VFY MGSG+RQ L F ++ RLP++ PP+ EQ  I   +N E  +ID +  K  + + LL
Sbjct: 305 RVFYNMGSGVRQGLTFSELSRLPLVAPPLDEQRRIGRFLNEEITKIDEVQRKKRKQLDLL 364

Query: 404 KERRSSFIAAAVTGQIDLR 422
              + S I   VTG+ ++ 
Sbjct: 365 DAYKKSLIYEVVTGKREVP 383



 Score = 71.4 bits (173), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 34/201 (16%), Positives = 78/201 (38%), Gaps = 8/201 (3%)

Query: 12  DSGVQWIGAIPKHWKVVPIKRFTKLNTGRT-SESGKDIIYIGLEDVESGTGKYLPKDGNS 70
           DS + WI  +P++W V P++ F   +  +       +++ +    +       +      
Sbjct: 179 DSKIDWIDRLPRNWNVAPLRHFFHEHKAKNLFRQETNLLSLSYGRIIRKDIGTVD---GL 235

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLR----KAIIADFDGICSTQFLVLQPKDVLPELLQG 126
             S+ +  +I   G I+             +  + +  GI ++ ++ L+    L      
Sbjct: 236 LPSNFNGYNIVGPGDIVLRLTDLQNDQKSLRTGLVNERGIVTSAYIALRKHRELDSTYFH 295

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           +L       R+             +  +  +P+  PPL EQ  I   +  E  +ID +  
Sbjct: 296 YLFHTYDICRVFYNMGSGVRQGLTFSELSRLPLVAPPLDEQRRIGRFLNEEITKIDEVQR 355

Query: 187 ERIRFIELLKEKKQALVSYIV 207
           ++ + ++LL   K++L+  +V
Sbjct: 356 KKRKQLDLLDAYKKSLIYEVV 376


>gi|332885123|gb|EGK05375.1| hypothetical protein HMPREF9456_02874 [Dysgonomonas mossii DSM
           22836]
          Length = 452

 Score =  192 bits (487), Expect = 1e-46,   Method: Composition-based stats.
 Identities = 105/451 (23%), Positives = 187/451 (41%), Gaps = 32/451 (7%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDII---------YIGLED 55
           K Y  YK S + ++  IP HW+ + ++    L  G T +S  D           +I   +
Sbjct: 2   KKYDSYKLSHIDFLDHIPSHWQEIRMRFLGYLYGGLTGKSADDFNQIGNIENKAFIPFTN 61

Query: 56  VESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGP----YLRKAIIAD--FDGICST 109
           + + +   + K      +D    +   KG + +           + A++ D   D   ++
Sbjct: 62  IANNSKIDISKLQEVIITDGEKQNKAQKGDLFFLMSSENYEDVGKSAVLCDDVEDMYLNS 121

Query: 110 QF--LVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQ 167
                 +  K++  E L   L S ++   +     G T  +     + ++ + IP   EQ
Sbjct: 122 FCKGFRVVAKNINSEFLNYQLSSSEIRHNLLTEANGFTRINLKIDKVNDLIVAIPTEHEQ 181

Query: 168 VLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGL 227
             I   +  +T  ID LI ++ R IEL +E+K A+++  VTKG++ +VKM+DSGIEW+G 
Sbjct: 182 TAIASFLDRKTAEIDQLIADKKRLIELYEEEKAAIINQAVTKGIDSNVKMQDSGIEWLGE 241

Query: 228 VPDHWEVKPFFALVTELNR---KNTKLIESNILSLSYGNIIQKLET---------RNMGL 275
           +P HWEV+ F +L +           L +  I  +SYG I  K            + +  
Sbjct: 242 IPGHWEVRRFNSLFSFSRGLTITKENLQDEGIPCISYGEIHSKYSFEVNPEKDILKCVDK 301

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA- 334
                    +++ G+ VF             +    E       +  +     +  +   
Sbjct: 302 NYLISSEKSLLNHGDFVFADTSEDIKGSGNFTYLNSETRAFAGYHTIIANPIENFMHRYV 361

Query: 335 -WLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            +   S           +G    S+    +K   +L+PPI EQ  I   I+ E +RI+  
Sbjct: 362 AYFFDSLSFRNQIRCKVTGTKVYSITQSILKCTFILLPPIHEQNSIVQYIDAECSRINSK 421

Query: 393 VEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
           +EK ++ I LL E R++ I+  VTG+I +  
Sbjct: 422 IEKTKKLIDLLTEYRTTLISEIVTGKIKVTD 452


>gi|293401124|ref|ZP_06645268.1| type I restriction-modification system specificity determinant
           [Erysipelotrichaceae bacterium 5_2_54FAA]
 gi|291305250|gb|EFE46495.1| type I restriction-modification system specificity determinant
           [Erysipelotrichaceae bacterium 5_2_54FAA]
          Length = 464

 Score =  191 bits (485), Expect = 2e-46,   Method: Composition-based stats.
 Identities = 88/434 (20%), Positives = 168/434 (38%), Gaps = 20/434 (4%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLP 65
            Y +YK   + W+  IP HW V   K+          ++  + I + L  +     + + 
Sbjct: 3   RYEEYKKIDLPWLNEIPAHWDVYRNKQIFTEMKDEVGKNSSNYILLSLT-LNGVIPRDVK 61

Query: 66  KDGNSRQSDTSTVSIFAKGQILYG--KLGPYLRKAIIADFDGICSTQFLVLQPKDVLPEL 123
                  +      I  K  + +    +    R   +A   G+ +  + +++  ++ P  
Sbjct: 62  SGKGKFPASFDKYKIVEKDNLAFCLFDMDETPRTVGLAKCSGMLTGAYTIMKVSNINPRY 121

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
              + LS+D  + +  +  G      +      I MP+P   EQ  I   +  +  RI++
Sbjct: 122 AYYYYLSLDNVKGMRPLYTGL-RKTINVGTFLGIKMPVPTEEEQEQIVRFLDWQLSRINS 180

Query: 184 LITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPF---FAL 240
           +I  + + IELL+EK+Q ++   V    +     + +   W   +P+ W++  F   F+ 
Sbjct: 181 IIKIKRKEIELLQEKRQQIIDAKVLTS-SRTKVTRAAEGGWNVNIPEGWDILKFNGVFSF 239

Query: 241 VTELNRKNTKLIESNILSLSYGNIIQKLE---------TRNMGLKPESYETYQIVDPGEI 291
              LN     L E  I  +SYG +  K            R +           +V PG+ 
Sbjct: 240 GKGLNITKANLEEEGIPVISYGQVHSKNNPGTKIDDSLIRFVNESYLETSPNSLVYPGDF 299

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAY--MAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
           +F       +          E  +    +  +A    G  + YL++L +S          
Sbjct: 300 IFADTSEDFEGVGNCVFVDREGPLFAGYHTVIARPKDGNGNRYLSYLFKSSTWRYQLRKN 359

Query: 350 GSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
            +G+   S+  + +K   V +PP+ EQ +I   ++     ID L+  I + I LLK    
Sbjct: 360 VNGVKVFSITQKVLKNAYVFLPPLDEQREIVEFLDEHCEGIDSLITDIAKEIDLLKAYEM 419

Query: 409 SFIAAAVTGQIDLR 422
             I+   TG++D+R
Sbjct: 420 RLISDVSTGKVDVR 433


>gi|313892700|ref|ZP_07826281.1| conserved hypothetical protein [Veillonella sp. oral taxon 158 str.
           F0412]
 gi|313442631|gb|EFR61042.1| conserved hypothetical protein [Veillonella sp. oral taxon 158 str.
           F0412]
          Length = 470

 Score =  191 bits (485), Expect = 2e-46,   Method: Composition-based stats.
 Identities = 83/441 (18%), Positives = 168/441 (38%), Gaps = 27/441 (6%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKD-IIYIGLEDVESGTGKY 63
           K Y  YK    +W+G IP HW  + IKR  +    R +    D I+ +  +       + 
Sbjct: 2   KKYESYKPMKEKWLGDIPSHWDALRIKRIFQERKERNNPVTTDFILSLTAKQGVVPVAEK 61

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPEL 123
               GN  + D S  +I  +  +L   +      A ++ + G  S  +  L P+D     
Sbjct: 62  EGVGGNKPKDDLSKYNICRENDLLVNCMNVVSGSAGVSKWVGAISPVYYALYPRDEEACN 121

Query: 124 LQGWLLSIDVTQRIEAICE---------------GATMSHADWKGIGNIPMPIPPLAEQV 168
           +  +     +     ++                            + N+ +P+PP  EQ 
Sbjct: 122 IWYYHQIFRLITFQRSLLGLGKGILMHESSTGKLNTVRMRISMDYLNNVVLPLPPRDEQD 181

Query: 169 LIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLV 228
            I   +  +  +I+ +I+ + + I  + E     V+  VT G+  + ++K+SGI W+G +
Sbjct: 182 QIVRYLDWQISKINKMISNKRKQISRINEHLVFAVNEAVTHGI-RNEQLKESGIFWMGKI 240

Query: 229 PDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDP 288
           P +W       L  E N +N +     +       +I   +  +          Y++V P
Sbjct: 241 PVNWNPIKIKWLFDETNERNIECEAELLTFSRKRGLIPFSDASDKEPSASDLSNYRLVSP 300

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH---GIDSTYLAWLMRSYDLCKV 345
           G+++   +   +      + +    G ++  Y    P     ++  +  ++ R+    + 
Sbjct: 301 GQLLENRMQAWSGMFICVTRE----GCVSPDYSVFNPSKDRYVNVKFYEYVFRNPLQVEQ 356

Query: 346 FYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
           F     G+      L       +  + PP +EQ  I   ++    +     + IE  I +
Sbjct: 357 FANASRGVGSGFNRLYTPSFGAIYTVYPPKEEQDAIVEYLDGLKDKYKSATDVIESEIEV 416

Query: 403 LKERRSSFIAAAVTGQIDLRG 423
           L E +   ++ AV+G+ID+R 
Sbjct: 417 LHEIKDRLVSDAVSGKIDVRN 437


>gi|303242151|ref|ZP_07328641.1| restriction modification system DNA specificity domain protein
           [Acetivibrio cellulolyticus CD2]
 gi|302590338|gb|EFL60096.1| restriction modification system DNA specificity domain protein
           [Acetivibrio cellulolyticus CD2]
          Length = 638

 Score =  191 bits (485), Expect = 2e-46,   Method: Composition-based stats.
 Identities = 98/433 (22%), Positives = 176/433 (40%), Gaps = 24/433 (5%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTS---------ESGKDIIYIGLEDVESG 59
             KDSG++WIG IP+ W+ + IK  + +  G +              + ++  + DV   
Sbjct: 4   AMKDSGIEWIGEIPQEWETIKIKYLSPVLRGASPRPIDNPIYFNENGEYVWTRIADVSKC 63

Query: 60  TGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV 119
              +           TS         ++        +  I      I             
Sbjct: 64  NRYFEKYYEYMSDLGTSKSIKIEPNSLIVSICATVGKPIITKVKCCIHDGFVYFPLLDPK 123

Query: 120 LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
             + L     +         + +  T  + + + +G+I +PI   +E   I + +  +  
Sbjct: 124 YNDFLYYIFNNG---SCFAGLGKLGTQLNLNTETVGSISIPIIDDSELKSIIKYLDEKCS 180

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFA 239
            ID ++      I+  K+ KQ++++  VTKGLNP V+MKDSGIEW   +P HW+V     
Sbjct: 181 EIDNIVENTKASIDEYKKYKQSVITEAVTKGLNPSVEMKDSGIEWNRHIPLHWKVVNGRR 240

Query: 240 LVTELNRKNTKLIESNILSLSYGNIIQK----LETRNMGLKPESYETYQIVDPGEIVFRF 295
           L      K          S  YG + Q     LE + +    + ++  + V+P + V   
Sbjct: 241 LFELRKDKAMPEDRQLTASQKYGIMYQDEFMQLENQRVVTVQKDFDILKHVEPNDFVISM 300

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI-DSTYLAWLMRSYDLCKVFYAMGSGLR 354
              Q             RG I+SAY+ + P+      Y  WL +S        +  + +R
Sbjct: 301 RSFQG-----GLEYSQLRGCISSAYVMLIPNEKVYCPYFRWLFKSVKYINALQSTSNLVR 355

Query: 355 --QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
             Q+++F +  ++P+ + PI EQ  I + +N + A ID ++ K +Q +  L+  + S I 
Sbjct: 356 DGQAMRFSNFVQIPLFLIPIDEQKRIADYLNAKCAEIDNIISKKQQIVTELENYKKSLIY 415

Query: 413 AAVTGQIDLRGES 425
             VTG+  ++ E 
Sbjct: 416 ECVTGKRSVQTEE 428


>gi|149927743|ref|ZP_01915995.1| hypothetical protein LMED105_16098 [Limnobacter sp. MED105]
 gi|149823569|gb|EDM82799.1| hypothetical protein LMED105_16098 [Limnobacter sp. MED105]
          Length = 428

 Score =  191 bits (484), Expect = 2e-46,   Method: Composition-based stats.
 Identities = 106/433 (24%), Positives = 169/433 (39%), Gaps = 29/433 (6%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKL-NTGRTSE----SGKDIIYIGLEDVESGT 60
            YP+YK SG    G IP HW+   ++   +    G   +       DI  I + D +  +
Sbjct: 3   RYPEYKSSGSPVFGDIPSHWEKKRLRDCIECCVNGIWGDEPDGGEDDIPVIRVADFDRPS 62

Query: 61  GKYLPKDGNSRQSDTSTV-SIFAKGQILYGKLG-----PYLRKAIIADFDG-ICSTQFLV 113
            K    +   +   T  V      G +L  K G     P          +G +CS     
Sbjct: 63  RKVEKFETVRKVEKTQRVGRALYNGDMLIEKSGGGEQQPVGMVVSYQGPEGAVCSNFVAK 122

Query: 114 LQPKDVLPELLQGWLLSIDVTQ--RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIR 171
           + PK+ +      +L S          +I +   + + D     +  + +P L EQV I 
Sbjct: 123 MTPKENIASRFLVYLHSHLYASGVTNISIKQTTGIQNLDSTAYLSESIYVPSLGEQVAIA 182

Query: 172 EKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWV-GLVPD 230
           + +  ET RIDTLI E+   I LL E KQ++   ++TKGL+ ++  K S +EW+ G    
Sbjct: 183 QYLDIETARIDTLIYEKEALIGLLDEWKQSVTEQVLTKGLSANIDFKTSDVEWLQGAEIP 242

Query: 231 HWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGE 290
              V      +  +    T   E+   S  Y              K    E   I   G 
Sbjct: 243 SQWVTKSIKHIAHMRSGETITSENIDDSGKYPVYGGNGLRGFTTEKTHDGEYLLIGRQGA 302

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG 350
           +                    E      A +      IDS +  +++R  DL +   A  
Sbjct: 303 LCGN-----------VHHVKGEFWATEHAVVVTLNTDIDSRWAFYMLRFMDLGQYSLA-- 349

Query: 351 SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
              +  L  E +  L + VP   EQ  I++ ++ E AR++ L+    + I LL+E R++ 
Sbjct: 350 -AAQPGLSVEKIVGLKLPVPSCHEQKAISDHLDKEMARLEDLINHTTKEIELLRELRAAT 408

Query: 411 IAAAVTGQIDLRG 423
           IA AV G+ID+R 
Sbjct: 409 IADAVLGRIDVRD 421


>gi|310826741|ref|YP_003959098.1| hypothetical protein ELI_1147 [Eubacterium limosum KIST612]
 gi|308738475|gb|ADO36135.1| hypothetical protein ELI_1147 [Eubacterium limosum KIST612]
          Length = 415

 Score =  190 bits (483), Expect = 3e-46,   Method: Composition-based stats.
 Identities = 89/426 (20%), Positives = 169/426 (39%), Gaps = 22/426 (5%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSE-SGKDIIYIGLEDVESG 59
           M     Y + KDSG++WIG++P HW+V  + +       +      K+++ +    ++  
Sbjct: 6   MSEITTYEKTKDSGIEWIGSVPSHWRVHTLYQLVTQVKEKNGNLQEKNLLSLSYGKIKRK 65

Query: 60  TGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGP----YLRKAIIADFDGICSTQFLVLQ 115
                        +     +I   G I+             +  +A   GI ++ +  L+
Sbjct: 66  DIDSPD---GLLPASFDGYNIIEDGDIVLRLTDLQNDHTSLRVGLATERGIITSAYTTLR 122

Query: 116 PKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKII 175
           P D        +LL     ++             ++  +  + + +P   E+  I + + 
Sbjct: 123 PIDTSNSKYLFYLLHAFDLKKGFYGMGSGVRQGLNYAEVKELRIVLPRQDEKDTIVQFLD 182

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVK 235
            +  +IDTLI E    +   K+ + ++V   VTKGLNP  +MKDS I+W+G +P HW + 
Sbjct: 183 EQCAQIDTLIEEAKLSVAEYKKWRASIVFEAVTKGLNPLAEMKDSHIDWIGQMPTHWGIL 242

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRF 295
               L +    KN  L+   I       +      R    K      Y +V     +   
Sbjct: 243 SLKYLCSMQAGKN--LVSDQIDEAGEYPVYGGNGIRGYYSKYNYEGEYLLVGRQGALCG- 299

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ 355
               N  +        E  ++T         G++ ++L +L+   +L +   A  S  + 
Sbjct: 300 ----NVHKIKGCFWATEHAVVTKNV-----EGVELSFLYYLLNGMNLNRY--ASNSAAQP 348

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            L    ++ +  + PPI+EQ +I+  +N     ID ++E  +  I  L+  + S I   V
Sbjct: 349 GLSVNTIQNIKTVFPPIEEQIEISTYLNDICHSIDSIIENKQSLIFELESYKKSLIFETV 408

Query: 416 TGQIDL 421
           TG+  +
Sbjct: 409 TGKRKV 414


>gi|86738913|ref|YP_479313.1| type I restriction-modification system specificity determinant
           [Frankia sp. CcI3]
 gi|86565775|gb|ABD09584.1| type I restriction-modification system specificity determinant
           [Frankia sp. CcI3]
          Length = 416

 Score =  190 bits (483), Expect = 3e-46,   Method: Composition-based stats.
 Identities = 91/419 (21%), Positives = 163/419 (38%), Gaps = 21/419 (5%)

Query: 12  DSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSR 71
           DSGV W+G +P HW   P+    +          + +       V +   +    + N  
Sbjct: 10  DSGVSWLGKVPPHWTTKPLWSMFERIKDVDHPEEQMLSVFREYGVVAKDSR---DNINKT 66

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
             + S   +   G ++  ++  +     I+   GI S  ++   P+         WLL  
Sbjct: 67  AENRSIYQLVHPGWLVANRMKAWQGSVGISSLRGIVSGHYICFAPRHSEDARYLNWLLRS 126

Query: 132 DVTQRIEAICEG---ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
                  A+         +  D      +P+ +PPL EQ  I + +  ET RIDTLI E+
Sbjct: 127 TTYTNGYALLSRGVRIGQAEIDNDEFRLMPILLPPLGEQRAIADYLDRETARIDTLIEEQ 186

Query: 189 IRFIELLKEKKQALVSYIVTKGLNP---DVKMKDSGIEWVGLVPDHWEVKPFFALVTELN 245
            R IE+L+E+++A+  + + + ++      K+  S     G  P       +        
Sbjct: 187 QRLIEMLRERRRAVALHAIDQQIHAGATTDKLGRSTRIGNGSTPRRETASYWRDGEFPWL 246

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
             +         +            + +           +V PG ++         +   
Sbjct: 247 NSSAVNESRVTHA-----------DQFVTDIALYECHLPVVAPGSVLVGLTGQGKTRGMA 295

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR-SYDLCKVFYAMGSGLRQSLKFEDVKR 364
              ++        AY+A         YL W +R SYD  +         +  L  + +K+
Sbjct: 296 TLLEIEATVNQHVAYIAPDRGTWLPEYLLWSLRASYDDLRRLSEENGSTKGGLTCQALKQ 355

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
             + VPP+ EQ  +   ++ +TA+ID L+ + E+ I L +ERR + I AAVTGQ+D+RG
Sbjct: 356 YRLAVPPLDEQRRVAAYLDEQTAKIDSLIGETERFIELARERRVALITAAVTGQVDVRG 414



 Score =  119 bits (297), Expect = 1e-24,   Method: Composition-based stats.
 Identities = 56/198 (28%), Positives = 99/198 (50%), Gaps = 9/198 (4%)

Query: 216 KMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL 275
            + DSG+ W+G VP HW  KP +++  E  +      E  +       ++ K    N+  
Sbjct: 7   DLVDSGVSWLGKVPPHWTTKPLWSMF-ERIKDVDHPEEQMLSVFREYGVVAKDSRDNINK 65

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG-IDSTYLA 334
             E+   YQ+V PG +V   +        + S     RGI++  Y+   P    D+ YL 
Sbjct: 66  TAENRSIYQLVHPGWLVANRMKAWQGSVGISSL----RGIVSGHYICFAPRHSEDARYLN 121

Query: 335 WLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
           WL+RS      +  +  G+   +  +  ++ + +P+L+PP+ EQ  I + ++ ETARID 
Sbjct: 122 WLLRSTTYTNGYALLSRGVRIGQAEIDNDEFRLMPILLPPLGEQRAIADYLDRETARIDT 181

Query: 392 LVEKIEQSIVLLKERRSS 409
           L+E+ ++ I +L+ERR +
Sbjct: 182 LIEEQQRLIEMLRERRRA 199


>gi|269123432|ref|YP_003306009.1| restriction modification system DNA specificity domain-containing
           protein [Streptobacillus moniliformis DSM 12112]
 gi|268314758|gb|ACZ01132.1| restriction modification system DNA specificity domain protein
           [Streptobacillus moniliformis DSM 12112]
          Length = 473

 Score =  190 bits (481), Expect = 5e-46,   Method: Composition-based stats.
 Identities = 91/444 (20%), Positives = 167/444 (37%), Gaps = 28/444 (6%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSE-SGKDIIYIGLEDVESGTGKYL 64
            Y +Y +S + W  AIP+HW V  I R   +   + S    K+I+ +  +   S      
Sbjct: 3   RYEKYSNSELTWSEAIPEHWGVKRIARVFDIRKEKNSPIKTKEILSLSAKHGVSLYSDKK 62

Query: 65  PKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELL 124
            K GN  + D ++ ++   G IL   +        I+++ G  S  +  L   +      
Sbjct: 63  EKGGNKPKEDLTSYNLCYLGDILINCMNVVAGSVGISNYFGAVSPVYYPLVNMNQDENGT 122

Query: 125 QGWLLSIDVTQRIEAICE---------------GATMSHADWKGIGNIPMPIPPLAEQVL 169
           +             ++                         W  +    +PIPP+ EQ  
Sbjct: 123 RYMEYVFRNYNFQRSLVGLGKGIQMSEADDGRLYTVRMRISWDILKTQLLPIPPINEQEQ 182

Query: 170 IREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVP 229
           I   +  +   ID LI      I+ LK     +++  V KG+N  +  K S I+W+  +P
Sbjct: 183 IANYLDWKINEIDRLIQIEKEKIKELKRLTLNIIAEFVLKGIN-TLNYKKSNIKWIDNIP 241

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK--------LETRNMGLKPESYE 281
            HW        V  +   ++   +       Y  +               N  +  + Y+
Sbjct: 242 SHWNEISIRGCVNIIRGNSSFTKDDLKNQGEYVGLQYGKVYKTEIIDSEFNFYVNDKFYK 301

Query: 282 TYQIVDPGEIVFRFID-LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY 340
           T Q+V   +I+         D          + G+I    + +KP    ++   + + S 
Sbjct: 302 TSQVVTRNDIIIVSTSETVEDLGHTSFYDRHDIGLIGGEQILLKPLNNINSKFLFYL-SK 360

Query: 341 DLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
                     +G+     K  D+K+L + +PPI+EQ +I + I ++  ++D  V+     
Sbjct: 361 IFRTQLQLCATGIKVYRFKISDLKQLYIPLPPIEEQENIVSNIELKLKQLDERVKNNYNL 420

Query: 400 IVLLKERRSSFIAAAVTGQIDLRG 423
           I  L+  + S I+  VTG+ID+R 
Sbjct: 421 IKELELLKQSLISEVVTGKIDVRN 444


>gi|170731314|ref|YP_001776747.1| putative type I restriction enzyme, S subunit [Xylella fastidiosa
           M12]
 gi|167966107|gb|ACA13117.1| putative type I restriction enzyme, S subunit [Xylella fastidiosa
           M12]
          Length = 457

 Score =  190 bits (481), Expect = 6e-46,   Method: Composition-based stats.
 Identities = 88/425 (20%), Positives = 160/425 (37%), Gaps = 12/425 (2%)

Query: 7   YPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPK 66
           Y  Y+    +W+  +P+HW ++  K F +    R+    + ++ +              K
Sbjct: 7   YSTYQPLRSRWVPRVPEHWSLLRAKNFLQEIDDRSKTGEETLLSMRKHCGLVPHNDVSIK 66

Query: 67  DGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQG 126
             N +             +++  ++             G+ S  + V +          G
Sbjct: 67  RTNPKN--LIGYKKVQPDELVLNRMQAGNAMFFHNYLSGLVSPDYAVFRLLRDDNPEYLG 124

Query: 127 W---LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           +      I    R E+   G       W     + +P+PPL EQ  I   + A+ V I  
Sbjct: 125 YLFRSWPICGLFRSESKGIGTGFLRLYWDRFAALEIPLPPLPEQDQIVAYLRAQDVHIAR 184

Query: 184 LITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTE 243
            I  +   I LL E+K  ++ + VT+GL+  V +K SGIEW+G VP +WEV+    L + 
Sbjct: 185 FIKAKRDLISLLIEQKLRIIDHAVTRGLDASVALKPSGIEWLGDVPVNWEVRRLKFLASN 244

Query: 244 LNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKR 303
              + T      I              R +  + E   T +     +++F  +     K 
Sbjct: 245 TTSQTTTKARDEIYLAMEHVQSWTGVARPLEGEVEFASTVKRFVVDDVLFGKLRPYLAKV 304

Query: 304 SLRSAQVMERGIITSAYM--AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFE 360
           +         G+  S ++    +   I   YL  ++R   +  +  +  +G       + 
Sbjct: 305 TRAKC----NGVCVSEFLVLRSRKEFILPAYLEQMLRCKRVIDLINSSTAGAKMPRADWI 360

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQID 420
            +  + + VP    Q  I + I  ET  +   + + E  I L++E R   I   VTGQ+D
Sbjct: 361 FIGNVRLPVPCKDVQEAILSHIESETKDLGEAITRTEDEIKLIREYRDRLITDVVTGQVD 420

Query: 421 LRGES 425
           +RG  
Sbjct: 421 VRGWQ 425


>gi|283796106|ref|ZP_06345259.1| putative type I restriction enzyme specificity protein [Clostridium
           sp. M62/1]
 gi|291076320|gb|EFE13684.1| putative type I restriction enzyme specificity protein [Clostridium
           sp. M62/1]
          Length = 435

 Score =  189 bits (480), Expect = 6e-46,   Method: Composition-based stats.
 Identities = 95/423 (22%), Positives = 181/423 (42%), Gaps = 30/423 (7%)

Query: 26  KVVPIKRFTK--LNTGRTSES---GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS---T 77
           K   +K      +  G         + I ++  E V++G   +  K G    SD      
Sbjct: 16  KKKKLKYIVSTPITDGPHETPELLDEGIPFLSAESVKNGILDFNYKRGYISLSDHKLFCK 75

Query: 78  VSIFAKGQILYGKLGPYLRKAII---ADFDGICST-QFLVLQPKDVLPELLQGWLLSIDV 133
                K  I   K G       I    +   I S    +      VL + +  + L    
Sbjct: 76  KVRPQKNDIFIVKSGATTGNCGIVTTDEEFSIWSPLALIRCDNISVLQKFIYYYSLCYSF 135

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
           T ++E      T  +     +GN+ + +P   EQ  I + +  E  +ID++  +  + I 
Sbjct: 136 THQVEQSWSYGTQQNIGMGVLGNLYVTLPSSNEQQSIVDYLDKECAQIDSIAADLEKQIA 195

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK------ 247
           LL++ K++L++  VTKGL+  V MKDSG+EW+G +P+HW+V+P    VT  N        
Sbjct: 196 LLQQYKKSLITETVTKGLDKSVPMKDSGVEWIGKIPEHWDVEPIKYRVTFHNGDRGENYP 255

Query: 248 -NTKLIESNILSLSYGN-IIQKLETRNMGLKPESYETYQ---IVDPGEIVFRFIDLQNDK 302
             ++L    I  ++ G+     L   NM    E          + PG+I++         
Sbjct: 256 SKSELQSEGIPFINAGHLEGDGLNMDNMDYISEEKYRIMGGVKLRPGDILYCLRGSVGKN 315

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY--DLCKVFYAMGSGLRQSLKFE 360
             +     M +G + S+ +A++   I + YL + + S+  ++ +  +  G   + +L  +
Sbjct: 316 AIV----DMNQGTVASSLVAIRSVRILAEYLYYCLNSHIEEVQRYLWDNG-TAQPNLSAD 370

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQID 420
           ++ +    +PP++EQ  I   +N   ++ID LV   ++ +  +++ + S I   VTG+  
Sbjct: 371 NLGKYKFCIPPVEEQKAIVKYLNNICSQIDNLVIGKKKQLSTIQQHKKSLIYEYVTGKKR 430

Query: 421 LRG 423
           ++ 
Sbjct: 431 VKE 433



 Score = 96.0 bits (237), Expect = 1e-17,   Method: Composition-based stats.
 Identities = 47/207 (22%), Positives = 82/207 (39%), Gaps = 9/207 (4%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTG--------RTSESGKDIIYIGLEDVESGTG 61
            KDSGV+WIG IP+HW V PIK     + G        ++    + I +I    +E    
Sbjct: 219 MKDSGVEWIGKIPEHWDVEPIKYRVTFHNGDRGENYPSKSELQSEGIPFINAGHLEGDGL 278

Query: 62  KYLP-KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL 120
                   +  +           G ILY   G   + AI+    G  ++  + ++   +L
Sbjct: 279 NMDNMDYISEEKYRIMGGVKLRPGDILYCLRGSVGKNAIVDMNQGTVASSLVAIRSVRIL 338

Query: 121 PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
            E L   L S     +      G    +     +G     IPP+ EQ  I + +     +
Sbjct: 339 AEYLYYCLNSHIEEVQRYLWDNGTAQPNLSADNLGKYKFCIPPVEEQKAIVKYLNNICSQ 398

Query: 181 IDTLITERIRFIELLKEKKQALVSYIV 207
           ID L+  + + +  +++ K++L+   V
Sbjct: 399 IDNLVIGKKKQLSTIQQHKKSLIYEYV 425


>gi|323351172|ref|ZP_08086828.1| hypothetical protein HMPREF9398_0876 [Streptococcus sanguinis
           VMC66]
 gi|322122396|gb|EFX94107.1| hypothetical protein HMPREF9398_0876 [Streptococcus sanguinis
           VMC66]
          Length = 433

 Score =  188 bits (478), Expect = 1e-45,   Method: Composition-based stats.
 Identities = 85/433 (19%), Positives = 181/433 (41%), Gaps = 24/433 (5%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES--------GKDIIYIGLEDVESGTG 61
            K+SG+ WIG IP+ W+V+ +K F     GR             +    +   D ++G  
Sbjct: 4   MKESGIDWIGQIPEEWEVIKVK-FFTYMKGRIGWQGLKADEFIDEGPYLVTGTDFKNGRV 62

Query: 62  KYLPKD-GNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFD--GICSTQFLVLQP-- 116
            +      + ++ + +      +G +L  K G   + A+I +       ++  LVL+P  
Sbjct: 63  NWDTAYHISQKRYEQAPEIQLKQGDLLVTKDGTVGKLALIDELPDSASLNSHLLVLRPLF 122

Query: 117 KDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIA 176
                  L   L S++     + +  G+TM     + +G     +P + EQ  I   +  
Sbjct: 123 NRYENHFLYYVLSSLEFKNYFQKVSIGSTMDSLSQEKMGEFIFALPNINEQNSISRYLDK 182

Query: 177 ETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKP 236
           +T ++D + +     I+ LK+ + +L+   VTKGL+  V +KDSGI+W+G VP+ W VK 
Sbjct: 183 KTAQLDKVKSLLEEQIQKLKDYRSSLIYETVTKGLDKTVPLKDSGIDWIGHVPEGWGVKA 242

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNIIQKLETR--------NMGLKPESYETYQIVDP 288
              +  E+   +T   ++ I      N IQ  +          +  +  + +++   +  
Sbjct: 243 IKYIFDEIGSGSTPKSDNEIFYDGDINWIQSGDLYQTDTVTSVSKTISYQGFKSTSALKI 302

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA 348
            +  F  + +        +   ++  +  +    +      S     +  S     + ++
Sbjct: 303 YQQPFVALAMYGASVGNVAVSYIDACVNQAVVAMLGSSEKVSFGKYAIEASKS--NLIFS 360

Query: 349 MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
              G + ++    +K   +  P  +EQ  + + ++ +T +ID L++   + I  + ++R 
Sbjct: 361 AQGGTQPNISQNLIKNWSIPQPKNEEQEQVVDFLDKKTVQIDKLIQIKNEQIKNINKQRQ 420

Query: 409 SFIAAAVTGQIDL 421
           + I   VTG+  +
Sbjct: 421 TLIYDYVTGKRRV 433



 Score =  105 bits (261), Expect = 2e-20,   Method: Composition-based stats.
 Identities = 38/214 (17%), Positives = 83/214 (38%), Gaps = 11/214 (5%)

Query: 214 DVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNM 273
             +MK+SGI+W+G +P+ WEV           R   + ++++        ++   + +N 
Sbjct: 1   MTRMKESGIDWIGQIPEEWEVIKVKFFTYMKGRIGWQGLKADEFIDEGPYLVTGTDFKNG 60

Query: 274 GLKPESYET----------YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
            +  ++                +  G+++            +               +  
Sbjct: 61  RVNWDTAYHISQKRYEQAPEIQLKQGDLLVTKDGTVGKLALIDELPDSASLNSHLLVLRP 120

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
             +  ++ +L +++ S +    F  +       SL  E +      +P I EQ  I+  +
Sbjct: 121 LFNRYENHFLYYVLSSLEFKNYFQKVSIGSTMDSLSQEKMGEFIFALPNINEQNSISRYL 180

Query: 383 NVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           + +TA++D +   +E+ I  LK+ RSS I   VT
Sbjct: 181 DKKTAQLDKVKSLLEEQIQKLKDYRSSLIYETVT 214


>gi|259502615|ref|ZP_05745517.1| conserved hypothetical protein [Lactobacillus antri DSM 16041]
 gi|259169430|gb|EEW53925.1| conserved hypothetical protein [Lactobacillus antri DSM 16041]
          Length = 422

 Score =  188 bits (477), Expect = 1e-45,   Method: Composition-based stats.
 Identities = 91/419 (21%), Positives = 181/419 (43%), Gaps = 12/419 (2%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNS 70
           KDSG++W+G IP +W  VPI   ++    + +   + +              +  ++ +S
Sbjct: 7   KDSGIKWVGEIPDNWDSVPIYYVSQEVRKKNNNISQKVALKFTYGTIVRKKNFSIEEDSS 66

Query: 71  RQSDTSTVSIFAKGQILYG----KLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQG 126
            +       +     I+            ++     F G  ++ ++V++ K+ + E    
Sbjct: 67  LRKTIENYKVVKPKDIVINGLNLNFDFVTQRVGFVTFPGAITSAYIVIRAKNNINEKYLL 126

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           +LL    + +      G      ++  +  I +P PP+ EQ  I + +  +  +ID L++
Sbjct: 127 YLLKSYDSVKAFHNMGGGVRKILNFSILSKIKIPFPPMKEQKRITDFLDKKCGKIDKLLS 186

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
           +    I+ LK+ + +L+  +VTKGL+ +V  KDSGIEW+G +P+ W V     ++T L+R
Sbjct: 187 QINDEIDTLKKYQHSLIIRVVTKGLDSNVPTKDSGIEWIGTMPEKWNVVKGKFILTLLDR 246

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
              K  E           ++K    +          YQ VD G++V   +D       + 
Sbjct: 247 PTKKDDEVITCFRDGQVTLRKKRRTDGFTISTKEIGYQGVDVGDLVVHAMDGFAGAIGIS 306

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSL---KFEDVK 363
            ++     ++      V     +  YL + +R      VF A+  G+R      ++  + 
Sbjct: 307 DSRGKASPVLN-----VMDSSENKNYLKYYLRCCAYLGVFNALAKGIRVRTADTRWSTLA 361

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
            L   +P   EQ DI++ ++ + A I  L+ +  + + LL + ++S I   VTG+  + 
Sbjct: 362 NLKFPLPTKNEQKDISDYLDQKCAEIRALINEKNRQLDLLTKYKNSLIFEYVTGKKQVP 420



 Score =  122 bits (307), Expect = 8e-26,   Method: Composition-based stats.
 Identities = 69/206 (33%), Positives = 115/206 (55%), Gaps = 3/206 (1%)

Query: 214 DVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNM 273
               KDSGI+WVG +PD+W+  P + +  E+ +KN  + +   L  +YG I++K      
Sbjct: 3   MQVNKDSGIKWVGEIPDNWDSVPIYYVSQEVRKKNNNISQKVALKFTYGTIVRKKNFSIE 62

Query: 274 GLKP--ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK-PHGIDS 330
                 ++ E Y++V P +IV   ++L  D  + R   V   G ITSAY+ ++  + I+ 
Sbjct: 63  EDSSLRKTIENYKVVKPKDIVINGLNLNFDFVTQRVGFVTFPGAITSAYIVIRAKNNINE 122

Query: 331 TYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
            YL +L++SYD  K F+ MG G+R+ L F  + ++ +  PP+KEQ  IT+ ++ +  +ID
Sbjct: 123 KYLLYLLKSYDSVKAFHNMGGGVRKILNFSILSKIKIPFPPMKEQKRITDFLDKKCGKID 182

Query: 391 VLVEKIEQSIVLLKERRSSFIAAAVT 416
            L+ +I   I  LK+ + S I   VT
Sbjct: 183 KLLSQINDEIDTLKKYQHSLIIRVVT 208


>gi|302380080|ref|ZP_07268555.1| type I restriction modification DNA specificity domain protein
           [Finegoldia magna ACS-171-V-Col3]
 gi|302312100|gb|EFK94106.1| type I restriction modification DNA specificity domain protein
           [Finegoldia magna ACS-171-V-Col3]
          Length = 422

 Score =  188 bits (477), Expect = 2e-45,   Method: Composition-based stats.
 Identities = 78/421 (18%), Positives = 168/421 (39%), Gaps = 6/421 (1%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDG 68
           + KDSG++WIG IP+ W++   KR++K   G T            E +   +        
Sbjct: 4   KMKDSGIEWIGEIPEDWEISKFKRYSKSAMGNTILKTDLEENNNKETIPVYSATQEDVVF 63

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL 128
                +  TV I  K  ++    G  +    +  +     TQ  +    + + E    + 
Sbjct: 64  GYIDENNVTV-ILKKNNLVIPARGNSIGFTKLVPYAKATCTQTTIFSRLNNINEKFVYYC 122

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
                    E   +   +     + + N  +PI  + EQ  I   +  +   +  +    
Sbjct: 123 SIAFKDSWFE--FDQTAIPQITVQQVENNNIPICSIEEQCKITNFLSNKLENVKNIKIII 180

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN 248
              IE L+  K+++++  VTKGL+ +V+MKDSGIEW+G +P HW++     +   +++  
Sbjct: 181 TNQIENLENYKKSVITEAVTKGLDKNVEMKDSGIEWIGEIPKHWDLIKLKFIAHSISKGI 240

Query: 249 TKLI--ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
           +     E+    ++     +     N+    E      ++   +++          ++  
Sbjct: 241 SPHYVEETLTPVVNQATFSKGFFDSNLKYCSEKPIGEGLLKMNDVLLATTGGGVLGKTYY 300

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMR-SYDLCKVFYAMGSGLRQSLKFEDVKRL 365
             +  +    T            S ++ +++  +YDL    +A GS  +  L+ + +  +
Sbjct: 301 FEEKGKYLASTDVAYIRNKDKYISKFIYYILSVNYDLLNGIFAKGSTNQTHLQMDLLSNM 360

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGES 425
            + +P   E   I + ++V    ID  +   ++ +  L+E + S I   VTG+ +++   
Sbjct: 361 HIPLPNQNELSKIISKLDVVNTNIDDSIAIKQKQLDTLEEYKKSLIYEYVTGKKEVKDGE 420

Query: 426 Q 426
           +
Sbjct: 421 E 421


>gi|257791267|ref|YP_003181873.1| restriction modification system DNA specificity subunit
           [Eggerthella lenta DSM 2243]
 gi|257475164|gb|ACV55484.1| restriction modification system DNA specificity subunit
           [Eggerthella lenta DSM 2243]
          Length = 395

 Score =  188 bits (476), Expect = 2e-45,   Method: Composition-based stats.
 Identities = 99/415 (23%), Positives = 167/415 (40%), Gaps = 29/415 (6%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDG 68
           + KDSGV WIG +P +W++VPIK    +  G    +  DI   G        G+     G
Sbjct: 3   ETKDSGVDWIGEVPVNWEIVPIKADVSIGHGSDPTTPGDIPVWGSG------GEPFKTCG 56

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL 128
             +              +L G+ G      ++        T F        L      + 
Sbjct: 57  EHKNGPA----------VLLGRKGTLDCPQLVTGLYWNVDTAFDAKITSKKLSLKFFYYA 106

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
            +    +                    N  +P PPLAEQ  I   +      ID  + +R
Sbjct: 107 ATCVDIKP---YMTNTAKPSMTQFDWDNSRIPRPPLAEQRRIISYLDERCAAIDEDVAKR 163

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN 248
              I  LKE K++L+++ VTKGL+P+ +MKDSG++W+G VP +W +     +    N K 
Sbjct: 164 RDVIGKLKEYKKSLIAHAVTKGLDPNTEMKDSGVDWIGEVPANWRLTKIGQVYDLRNTKV 223

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
           +      +     G + Q     +   K ++++  ++V  G+ V      +     +   
Sbjct: 224 SDCDYEPLSVTMQGIVPQ----LDSAAKTDAHDDRKLVMEGDFVINSRSDRRGSCGIARQ 279

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSL---KFEDVKRL 365
                 +I +  +      ++  +  WL  +      FY  G G+   L   K+ ++K +
Sbjct: 280 D-GSVSLINTVLI--PREHMEPRFYDWLFHTTLFADEFYKNGHGIVDDLWTTKWAEMKGI 336

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQID 420
            ++ PP + Q  + N ++   A ID  + + EQ I  L E R S I  AVTG+ID
Sbjct: 337 TIVEPPFETQITVANYLDERCAAIDEAIARQEQLIEKLGEYRKSVIHHAVTGKID 391


>gi|303235367|ref|ZP_07321984.1| type I restriction modification DNA specificity domain protein
           [Finegoldia magna BVS033A4]
 gi|302493488|gb|EFL53277.1| type I restriction modification DNA specificity domain protein
           [Finegoldia magna BVS033A4]
          Length = 426

 Score =  187 bits (475), Expect = 3e-45,   Method: Composition-based stats.
 Identities = 87/425 (20%), Positives = 168/425 (39%), Gaps = 10/425 (2%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDG 68
           + KDSG++WIG IP+ W++   KR++K   G T            E +   +        
Sbjct: 4   KMKDSGIEWIGEIPEDWEISKFKRYSKSAMGNTILKTDLEENNNKETIPVYSATQEDVVF 63

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL 128
                +  TV I  K  ++    G  +    +  +     TQ  +    + + E    + 
Sbjct: 64  GYIDENNVTV-ILKKNNLVIPARGNSIGFTKLVPYAKATCTQTTIFSRLNNINEKFVYYC 122

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
                    E   +   +     + + N  +PI  + EQ  I   +  +   +  +    
Sbjct: 123 SIAFKDSWFE--FDQTAIPQITVQQVENNNIPICSIEEQCKITNFLSNKLENVKNIKIII 180

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN 248
              IE L+  K+++++  VTKGL+ +V+MKDSGIEW+G +P HWE+K    L  +  R  
Sbjct: 181 TNQIENLENYKKSVITEAVTKGLDKNVEMKDSGIEWIGKIPKHWEIKNIKNLTLKSERGT 240

Query: 249 TKLIESNILSLSYGNIIQK-----LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKR 303
           +     +       N          ++     K  +  +  ++  G+++          +
Sbjct: 241 SPSYIEDDTKSKVVNQATFSQGFFDKSNIKYSKIPTNNSRGLLKKGDVLIASTGGGVLGK 300

Query: 304 SLRSAQVMERGIITSA-YMAVKPHGIDSTYLAWLMR-SYDLCKVFYAMGSGLRQSLKFED 361
           +    +  E         +       +S  L ++   +Y+L     A GS  +  L+ E 
Sbjct: 301 THFFIEDGEYVADGHITILRTDSLEQNSKILYYIFSVNYELINGILAKGSTNQTELQSEW 360

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           +K   V   PI+EQ  I N ++ +   ID  +   ++ +  L+E + S I   VTG+ ++
Sbjct: 361 LKSFKVPYAPIEEQIRIVNYLDEKCKLIDDSISLKKKQLETLEEYKKSLIYEYVTGKKEV 420

Query: 422 RGESQ 426
           +   +
Sbjct: 421 KDGEE 425


>gi|329123045|ref|ZP_08251616.1| type I site-specific restriction-modification system, S subunit
           [Haemophilus aegyptius ATCC 11116]
 gi|327471976|gb|EGF17416.1| type I site-specific restriction-modification system, S subunit
           [Haemophilus aegyptius ATCC 11116]
          Length = 408

 Score =  187 bits (474), Expect = 3e-45,   Method: Composition-based stats.
 Identities = 102/422 (24%), Positives = 182/422 (43%), Gaps = 29/422 (6%)

Query: 15  VQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPK-DGNSRQS 73
           + W+G +P HW++  +K+       +          + L       GK + K D    ++
Sbjct: 1   MDWLGEVPSHWELKRLKQLFVEKKHK--------QSLSLNCGAISFGKVIEKSDDKVTEA 52

Query: 74  DTSTVSIFAKGQILYGKLGPYLR----KAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
              +     KG+ L   L         +  +++ D + S  ++VL+ K ++ +    +LL
Sbjct: 53  TKRSYQEVLKGEFLINPLNLNYDLISLRIALSEIDVVVSAGYIVLKEKQIINKKYFSYLL 112

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
                  ++ +  G      ++  I +  + IPPL+EQ  I + +  +T +ID  +    
Sbjct: 113 HRYDVAYMKLLGSGV-RQTINYGHISDSILVIPPLSEQQKIAQFLDDKTAKIDQAVDLAE 171

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR--- 246
           + I LLKE KQ L+   VT+GLNPDV +KDSG+EW+G VP+HWEV     +V E +    
Sbjct: 172 KQIALLKEHKQILIQNAVTRGLNPDVPLKDSGVEWIGQVPEHWEVVSMKRVVKEHSGNGF 231

Query: 247 -----KNTKLIESNILSLSYGNIIQKLETRNMGLKPE--SYETYQIVDPGEIVFRFIDLQ 299
                 N   I    +S    N  + +   N  +  +    + + IV    IV   I   
Sbjct: 232 PIDLQGNNGNIPFLKVSDFSENQDKYIFKWNNSVTNKVIKQKKWNIVPKNSIVTAKIGEA 291

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKF 359
             K   +   +    II +  + ++    D  +  +L  + D          G   SL  
Sbjct: 292 LRKNHRKILSI--DSIIDNNCLGIEIKKADVLFGYYLHCALDFD---LFTNPGAIPSLAM 346

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
           +  +   +++PP +EQ +I + +  +TA+ID  +      I  LKE +S  I   VTG++
Sbjct: 347 DKYRNQKIVLPPFQEQQEIADYLEQQTAKIDQAIALKTAHIEKLKEYKSVLINDVVTGKL 406

Query: 420 DL 421
            +
Sbjct: 407 QV 408



 Score = 90.2 bits (222), Expect = 5e-16,   Method: Composition-based stats.
 Identities = 58/211 (27%), Positives = 90/211 (42%), Gaps = 14/211 (6%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSE-----SGKDIIYIGLEDVESGTGKYLP 65
           KDSGV+WIG +P+HW+VV +KR  K ++G         +  +I ++ + D      KY+ 
Sbjct: 200 KDSGVEWIGQVPEHWEVVSMKRVVKEHSGNGFPIDLQGNNGNIPFLKVSDFSENQDKYIF 259

Query: 66  KDGNSRQSDTSTVS---IFAKGQILYGKLGPYLRKAI--IADFDGICSTQFLVLQPKDVL 120
           K  NS  +         I  K  I+  K+G  LRK    I   D I     L ++ K   
Sbjct: 260 KWNNSVTNKVIKQKKWNIVPKNSIVTAKIGEALRKNHRKILSIDSIIDNNCLGIEIKKAD 319

Query: 121 PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
                    ++D     +       +         N  + +PP  EQ  I + +  +T +
Sbjct: 320 VLFGYYLHCALDF----DLFTNPGAIPSLAMDKYRNQKIVLPPFQEQQEIADYLEQQTAK 375

Query: 181 IDTLITERIRFIELLKEKKQALVSYIVTKGL 211
           ID  I  +   IE LKE K  L++ +VT  L
Sbjct: 376 IDQAIALKTAHIEKLKEYKSVLINDVVTGKL 406


>gi|288553769|ref|YP_003425704.1| Type 1 restriction-modification system (S) endonuclease subunit
           [Bacillus pseudofirmus OF4]
 gi|288544929|gb|ADC48812.1| Type 1 restriction-modification system (S) endonuclease subunit
           [Bacillus pseudofirmus OF4]
          Length = 443

 Score =  187 bits (474), Expect = 3e-45,   Method: Composition-based stats.
 Identities = 102/425 (24%), Positives = 179/425 (42%), Gaps = 25/425 (5%)

Query: 24  HWKVVPIKRFTKL--NTGRTSESG---KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
            W+V+ IKR   +    G           + ++  E V++G   +  K G   Q D    
Sbjct: 15  DWQVMKIKRVLDIPITDGPHETPELLEDGVPFLSAESVKNGNLNFDLKRGYISQEDHEKY 74

Query: 79  -SIFAK--GQILYGKLGPYLRKAIIADFDGICST----QFLVLQPKDVLPELLQGWLLSI 131
                     I   K G       + D D   S       +  + + V+P+ L  ++ S+
Sbjct: 75  IKKCKPQRDDIFMVKSGATTGNIAMVDTDEEFSIWSPLALIRAKKEIVIPKYLYYFVGSL 134

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
              +++E      T  +   K I N+ + IP L  Q  I   I  +   ID LI ++ +F
Sbjct: 135 AFREQVEVSWSYGTQQNIGMKVIENLFISIPSLEIQKRIVRYIEYKVKDIDILIKQKGKF 194

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN--- 248
           I+LL++++Q++++  VTKGLNP++ MKDSG++W+G +P+HWEVK        +       
Sbjct: 195 IKLLEQQRQSILTEAVTKGLNPNMNMKDSGVKWIGEIPEHWEVKKVKHFAIHVGSGKTPS 254

Query: 249 ---TKLIESNILSLSYGN-IIQKLETRNMGLKPESYETYQI---VDPGEIVFRFIDLQND 301
                 ++  I  L   N     +  +++    E          V P +I+         
Sbjct: 255 GGAEIYLDEGIPFLRSLNVHFDGIHLKDLAFISEEINEEMKTSQVQPLDILLNITGASIG 314

Query: 302 KRSLRSAQVMERGIITSAYMAV-KPHGIDSTYLAWLMRSYDLCKVF-YAMGSGLRQSLKF 359
           + ++         +     +     + +   Y   LM S  + +   +A     R+ L F
Sbjct: 315 RTTIVPKDFGRANVNQHVCIIRLNQNKVYPYYFNMLMASDVINQQIWFAQNGSSREGLNF 374

Query: 360 EDVKRLPVLVPP-IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
             V+ L   +PP ++EQ +I   I  +  +I  L+  +++ I  LKE R S I  AVTG+
Sbjct: 375 AQVRELIFAIPPTLEEQREINEWIYNKQMKIFNLINLVKEQIEKLKEYRQSLIYEAVTGK 434

Query: 419 IDLRG 423
           ID+R 
Sbjct: 435 IDVRE 439



 Score = 87.5 bits (215), Expect = 4e-15,   Method: Composition-based stats.
 Identities = 50/217 (23%), Positives = 87/217 (40%), Gaps = 14/217 (6%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFT-KLNTGRTSES------GKDIIYIGLEDVESGTGK 62
            KDSGV+WIG IP+HW+V  +K F   + +G+T          + I ++   +V      
Sbjct: 220 MKDSGVKWIGEIPEHWEVKKVKHFAIHVGSGKTPSGGAEIYLDEGIPFLRSLNVHFDGIH 279

Query: 63  YLPK-DGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADF---DGICSTQFLVLQPKD 118
                  +   ++    S      IL    G  + +  I          +    +++   
Sbjct: 280 LKDLAFISEEINEEMKTSQVQPLDILLNITGASIGRTTIVPKDFGRANVNQHVCIIRLNQ 339

Query: 119 V--LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPP-LAEQVLIREKII 175
               P      + S  + Q+I     G++    ++  +  +   IPP L EQ  I E I 
Sbjct: 340 NKVYPYYFNMLMASDVINQQIWFAQNGSSREGLNFAQVRELIFAIPPTLEEQREINEWIY 399

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLN 212
            + ++I  LI      IE LKE +Q+L+   VT  ++
Sbjct: 400 NKQMKIFNLINLVKEQIEKLKEYRQSLIYEAVTGKID 436


>gi|170680371|ref|YP_001746681.1| type I restriction modification DNA specificity domain-containing
           protein [Escherichia coli SMS-3-5]
 gi|170518089|gb|ACB16267.1| type I restriction modification DNA specificity domain protein
           [Escherichia coli SMS-3-5]
 gi|323160768|gb|EFZ46703.1| type I restriction modification DNA specificity domain protein
           [Escherichia coli E128010]
 gi|330908618|gb|EGH37137.1| type 1 restriction-modification system, specificity subunit S
           [Escherichia coli AA86]
          Length = 428

 Score =  187 bits (474), Expect = 3e-45,   Method: Composition-based stats.
 Identities = 111/414 (26%), Positives = 185/414 (44%), Gaps = 18/414 (4%)

Query: 25  WKVVPIKRFTKLNTGRT-SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           W  VP KR    +          + + + ++ V + +   L      + SD S   IF K
Sbjct: 16  WNSVPAKRLFTSSKEINQGMKESNRLALTMKGVINRSLDDLQ---GLQSSDYSVYQIFEK 72

Query: 84  GQILYGKL---GPYLRKAIIADFDGICSTQFL-VLQPKDVLPELLQGWLLSIDVTQRIEA 139
             +++  +        +  I    GI S  ++ V    + +      W         I  
Sbjct: 73  DDLVFKLIDLENIKTSRVGIVHERGIMSPAYIRVSASSNSIYPRFYYWYFFALYLTNIYN 132

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
              G    +     +  IP+P+  ++ Q  +   +  ET RID+LI E+  FI+LLKEK+
Sbjct: 133 KLGGGVRQNLTAGDLLEIPVPLIDISLQKQVSTFLDRETQRIDSLIEEKQTFIKLLKEKR 192

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI---ESNI 256
           QAL+S++VTKGL P+V+M+DSGIEW+G VP HWEVK    + +      ++     +   
Sbjct: 193 QALISHVVTKGLYPNVEMQDSGIEWIGQVPKHWEVKKIKHICSNFMYGTSQDCNQSDVGY 252

Query: 257 LSLSYGN----IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
             L   N     +   + +   +      TY +     +V R     N            
Sbjct: 253 PVLRIPNIKSTNVDFEDLKYANISDVDALTYLLSRGDILVIRTNGNPNLVGQSALFDSNG 312

Query: 313 RGIITSAYMAVKPHG-IDSTYLAWLMRSYDLCKV--FYAMGSGLRQSLKFEDVKRLPVLV 369
           + +  S  + + P   +D+++L   M S  + +   F +  S    +L    +    + +
Sbjct: 313 QYLFASYLIKLTPKQGVDTSFLVEAMNSLSVRQALTFQSRTSVGNYNLSIPSLANTSIAI 372

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
           PPI EQ  ITN ++  T  ID+L+++ ++SI LLKE R+S I AAVTG+ID+R 
Sbjct: 373 PPIDEQKTITNYLSAATINIDLLIQETDKSIDLLKEHRTSLINAAVTGKIDVRE 426



 Score = 90.6 bits (223), Expect = 5e-16,   Method: Composition-based stats.
 Identities = 46/219 (21%), Positives = 89/219 (40%), Gaps = 13/219 (5%)

Query: 7   YP--QYKDSGVQWIGAIPKHWKVVPIKRFT-KLNTGRTSE---SGKDIIYIGLEDVESGT 60
           YP  + +DSG++WIG +PKHW+V  IK        G + +   S      + + +++S  
Sbjct: 205 YPNVEMQDSGIEWIGQVPKHWEVKKIKHICSNFMYGTSQDCNQSDVGYPVLRIPNIKSTN 264

Query: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAII-----ADFDGICSTQFLVLQ 115
             +      +     +   + ++G IL  +               ++   + ++  + L 
Sbjct: 265 VDFEDLKYANISDVDALTYLLSRGDILVIRTNGNPNLVGQSALFDSNGQYLFASYLIKLT 324

Query: 116 PKDVLPELLQGWLLSIDV--TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
           PK  +        ++                   +     + N  + IPP+ EQ  I   
Sbjct: 325 PKQGVDTSFLVEAMNSLSVRQALTFQSRTSVGNYNLSIPSLANTSIAIPPIDEQKTITNY 384

Query: 174 IIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLN 212
           + A T+ ID LI E  + I+LLKE + +L++  VT  ++
Sbjct: 385 LSAATINIDLLIQETDKSIDLLKEHRTSLINAAVTGKID 423


>gi|228930124|ref|ZP_04093134.1| hypothetical protein bthur0010_48060 [Bacillus thuringiensis
           serovar pondicheriensis BGSC 4BA1]
 gi|228829623|gb|EEM75250.1| hypothetical protein bthur0010_48060 [Bacillus thuringiensis
           serovar pondicheriensis BGSC 4BA1]
          Length = 418

 Score =  186 bits (473), Expect = 4e-45,   Method: Composition-based stats.
 Identities = 99/425 (23%), Positives = 182/425 (42%), Gaps = 20/425 (4%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGN 69
            KDS ++WIGAIP +WKVVP       N+ +  E   + +    +       +++  +  
Sbjct: 1   MKDSKIEWIGAIPNYWKVVP-SNLFFYNSSKKVEGNVEQLTASQKYGVISQSRFMKLESQ 59

Query: 70  --SRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW 127
              ++ D S +    KG  +   L  +     IA   G  +  + VL+ K          
Sbjct: 60  MPVQKRDLSDLKQVDKGDFVIS-LRSFQGGLEIAQESGGITPAYTVLKEKTKQTYAGYYK 118

Query: 128 LLSIDVTQRIEA----ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
                           +          +     +P+ +PPL EQ  I E +  +T  I+ 
Sbjct: 119 YFFKSEMYIQALRGTVLDTIRDGKAIRFSNFSMVPIVLPPLNEQKKIVEVLDEKTKTINN 178

Query: 184 LITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTE 243
           +I++  + I+ LK+ KQ+L++  VTKGLN +V +KDS IEW+G +P  W +     L   
Sbjct: 179 IISDTQQSIKELKKYKQSLITEAVTKGLNRNVGIKDSEIEWIGEMPKEWNLVKVNRLFAI 238

Query: 244 LNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKR 303
             +        ++LS++   +  K  TRN G     Y  YQIV P + V   +DL     
Sbjct: 239 K-KNIANQNGYDVLSVTQSGLKVKDITRNEGQMAADYSKYQIVKPKDFVMNHMDLLTGWI 297

Query: 304 SLRSAQVMERGIITSAYMAVKPHGI---DSTYLAWLMRSYDLCKVFYAMGSGL----RQS 356
            + +    + G+ +  Y            + +  ++ +     ++FY +G G+    R  
Sbjct: 298 DIAA----QEGVTSPDYRVFYTKDTELVSNEFYLYVFQICYTNRIFYGLGQGVSNLGRWR 353

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           L+ +      + +PP+ EQ  I   +N +   I+ ++E+ +  +  L++ + S I   VT
Sbjct: 354 LQTDKFLNFYLPLPPVNEQQAIVKFLNGKLVEINSMIEQKKDLLGELEQYKKSLIYECVT 413

Query: 417 GQIDL 421
           G+ ++
Sbjct: 414 GKKEV 418


>gi|257091992|ref|YP_003165633.1| restriction modification system DNA specificity protein-containing
           protein [Candidatus Accumulibacter phosphatis clade IIA
           str. UW-1]
 gi|257044516|gb|ACV33704.1| restriction modification system DNA specificity domain protein
           [Candidatus Accumulibacter phosphatis clade IIA str.
           UW-1]
          Length = 417

 Score =  186 bits (473), Expect = 4e-45,   Method: Composition-based stats.
 Identities = 94/405 (23%), Positives = 167/405 (41%), Gaps = 16/405 (3%)

Query: 28  VPIKRFTKLNTGR---TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
             +K    +N      ++++  ++ YI + +V+S    +   +     + +    I   G
Sbjct: 9   RRLKYAATINDETLSESTDADFELAYIDIGNVDSQGRFHDIVNHRFDDAPSRARRIVRDG 68

Query: 85  QILYGKLGPYLRKAIIADF---DGICSTQFLVLQPKDVLPELLQGWL-LSIDVTQRIEAI 140
            ++   +  YL+     +    + I ST F V++P + L      +   +      +E+ 
Sbjct: 69  DVIVSTVRTYLQAIASVENPPDNLIVSTGFAVVRPSNELDHRFCKYALRASSFLWGVESR 128

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
             G +    +   +G+I + +P L  Q LI   +  ET RID LI E+ R + LL+EK+ 
Sbjct: 129 STGVSYPAINASDLGDINVSLPELGAQRLIASYLDRETARIDGLIAEKERMLALLEEKRA 188

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
           AL+S +VT+GL+P+  +K SG EW+G +P HW    F   V     +     +  +  + 
Sbjct: 189 ALISRVVTRGLDPNSPLKPSGQEWLGEIPAHWPTTKFSWDVFISEGQVDPEDDRFLEMIL 248

Query: 261 YGNIIQKLETRNMGLKPES-----YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
                 +  T  +     S              G++++  I     K  L     +    
Sbjct: 249 VAPNHIESRTGEVTHTETSADQGAMSGKYFCKQGDVLYSKIRPALRKVVLAEDDCL---C 305

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA-MGSGLRQSLKFEDVKRLPVLVPPIKE 374
               Y       +   YL + + S D                +  E    + + VPP++E
Sbjct: 306 SADMYALRPSKRLMPEYLQYFLLSEDFSVWAELESARVAMPKINRETFSAIRIPVPPLEE 365

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
           Q  I   I     RID+  + +  S+ LLKERR++ I AAV+GQI
Sbjct: 366 QERIVLEIRDGAKRIDLQRKAVRGSVELLKERRAALITAAVSGQI 410



 Score = 93.7 bits (231), Expect = 6e-17,   Method: Composition-based stats.
 Identities = 62/205 (30%), Positives = 99/205 (48%), Gaps = 4/205 (1%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK---DIIYIGLEDVESGTGKYLPKD 67
           K SG +W+G IP HW          ++ G+         ++I +    +ES TG+    +
Sbjct: 206 KPSGQEWLGEIPAHWPTTKFSWDVFISEGQVDPEDDRFLEMILVAPNHIESRTGEVTHTE 265

Query: 68  GNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP-KDVLPELLQG 126
            ++ Q   S      +G +LY K+ P LRK ++A+ D +CS     L+P K ++PE LQ 
Sbjct: 266 TSADQGAMSGKYFCKQGDVLYSKIRPALRKVVLAEDDCLCSADMYALRPSKRLMPEYLQY 325

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           +LLS D +   E       M   + +    I +P+PPL EQ  I  +I     RID    
Sbjct: 326 FLLSEDFSVWAELESARVAMPKINRETFSAIRIPVPPLEEQERIVLEIRDGAKRIDLQRK 385

Query: 187 ERIRFIELLKEKKQALVSYIVTKGL 211
                +ELLKE++ AL++  V+  +
Sbjct: 386 AVRGSVELLKERRAALITAAVSGQI 410


>gi|317132749|ref|YP_004092063.1| restriction modification system DNA specificity subunit
           [Ethanoligenens harbinense YUAN-3]
 gi|315470728|gb|ADU27332.1| restriction modification system DNA specificity subunit
           [Ethanoligenens harbinense YUAN-3]
          Length = 462

 Score =  186 bits (472), Expect = 6e-45,   Method: Composition-based stats.
 Identities = 79/434 (18%), Positives = 159/434 (36%), Gaps = 26/434 (5%)

Query: 9   QYKD---SGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLP 65
           +Y D   +   W+  IP HW++  I         +T  S KD   + +       G    
Sbjct: 3   EYTDVINTDAAWLPQIPAHWQLQKIDALFTER--KTKVSDKDYAPLSVT----KKGILPQ 56

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ 125
            +  ++ +D+    +   G  +            ++  DG  S   LVL P+  L     
Sbjct: 57  LEHAAKSNDSDNRKLVKAGDFVINSRSDRKGSCGVSKLDGSVSLINLVLTPRSKLNNDYV 116

Query: 126 GWLLSID-VTQRIEAICEGAT--MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
            +LL     ++       G    +    +  +  I +P+PP AEQ  I   +  +   I+
Sbjct: 117 HYLLRNYRFSEEYYRNGRGIVADLWTTRYSEMRTILLPVPPRAEQDQIVRFLDWKVSEIN 176

Query: 183 TLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKP----FF 238
            LI  R + I+   + K  +++  VT GL    ++  +   +  ++P  W +        
Sbjct: 177 KLIGIRRKEIQEFNQLKNTVITKTVTTGL-KREELCGTDNSYYRMIPKGWRITKTLRVLS 235

Query: 239 ALVTELNRKNTKLIESNILSLS-----YGNIIQKLETRNMGLKPESYETYQ---IVDPGE 290
             +T+      +L E  I  +S      GN           +  + YE      +    +
Sbjct: 236 QPLTDGPHTTPQLYEEGIPFVSAEAVSCGNGKIDFNHIRGFISQDFYEECCKKYVPKIDD 295

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY-AM 349
           I          + S+     +       A        +   +L + +++    +      
Sbjct: 296 IYMIKSGATTGRVSIVDTDRIFTIWSPLAVFRCNQEVMLPRFLFYALQALPYQQQVQDGW 355

Query: 350 GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
             G +Q++    +++L +  P + EQ  I   ++ +   +D  ++  E  I  L+E +S+
Sbjct: 356 SYGTQQNIGMRVLEQLKLAYPDVTEQEKIACYLDDKCDMLDKAIQLAESKIKALQELKST 415

Query: 410 FIAAAVTGQIDLRG 423
            I+  VTG+ID+R 
Sbjct: 416 IISDVVTGKIDVRN 429


>gi|167771153|ref|ZP_02443206.1| hypothetical protein ANACOL_02508 [Anaerotruncus colihominis DSM
           17241]
 gi|167666823|gb|EDS10953.1| hypothetical protein ANACOL_02508 [Anaerotruncus colihominis DSM
           17241]
          Length = 444

 Score =  186 bits (471), Expect = 8e-45,   Method: Composition-based stats.
 Identities = 96/429 (22%), Positives = 179/429 (41%), Gaps = 17/429 (3%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT 60
           M     Y  YK     W+  IP  W+ + IK      + +      + + +  +++    
Sbjct: 1   MSK---YESYKPIEELWLTQIPDSWEDIKIKFLFSERSEKGYP--DEPLLVASQNMGVVP 55

Query: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL 120
                        D   + +   G  +   L  +      A + GI S  + ++ PK  +
Sbjct: 56  KGVYGNRTVQATKDLHLLKLVRVGDFVIS-LRSFQGGIEYAYYQGIISPAYTIMVPKQKI 114

Query: 121 PELLQGWLLSIDVTQRIEAICEGATM--SHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
                 +L    +   +  +C        + D+  + N  +P+PP  EQ  I   +  +T
Sbjct: 115 VPGYFRYLAKSRLFIELLQLCVTGIREGQNIDYGKLKNHLIPVPPSEEQDQIVRYLDWQT 174

Query: 179 VRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFF 238
            +++ LI  + R I LL+E++QA ++Y+VT+GL+ + ++ DSGI+++G VP HW+V    
Sbjct: 175 SKVNRLINAKKRIISLLEEQQQATIAYVVTRGLDQNAELMDSGIDYIGKVPAHWKVL-LN 233

Query: 239 ALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDL 298
             + +   +     E+ +       ++     +   L   SYE +++V P ++V      
Sbjct: 234 HRIYKEKSRKFGEEETVLSLSQKDGLLPYENMKERSLHTASYENWKLVFPNDLVLNRFKA 293

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR-SYDLCKVFYAMGSGLR--- 354
                         RGI+T  Y   +P    S+     +  + +  +VF +  +G+    
Sbjct: 294 HL----GVFFSSNYRGIVTFHYGVYEPVMKISSKYYEALYHTPEFRRVFASKSNGMTVGL 349

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAA 414
           Q+L   +   +  + PP +EQ  I   I     +   L+ KI Q I  L E R+  I+  
Sbjct: 350 QNLSNTNFYSVYTVYPPHEEQCQIVCKIKEIEEKYRDLIAKINQEIDCLHEYRTRLISDV 409

Query: 415 VTGQIDLRG 423
           VTGQID+R 
Sbjct: 410 VTGQIDVRN 418


>gi|228964022|ref|ZP_04125152.1| hypothetical protein bthur0004_8820 [Bacillus thuringiensis serovar
           sotto str. T04001]
 gi|228795674|gb|EEM43151.1| hypothetical protein bthur0004_8820 [Bacillus thuringiensis serovar
           sotto str. T04001]
          Length = 409

 Score =  185 bits (469), Expect = 1e-44,   Method: Composition-based stats.
 Identities = 92/403 (22%), Positives = 172/403 (42%), Gaps = 17/403 (4%)

Query: 38  TGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQS--DTSTVSIFAKGQILYGKLGPYL 95
             + ++   DI +I +ED                +       + +F  G +L       +
Sbjct: 6   RDKPTKFDGDIPWIRIEDFNGKYISDSKSRQYVSKELVKGMNLKVFPIGTVLCTCSCS-M 64

Query: 96  RKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIG 155
               I +   I +  F+ + P + L      +L+     +R++   +GA   +       
Sbjct: 65  GATAIVEQPLISNQTFIGIVPGENLDSEYLFYLMQASA-ERLQLFAQGAIQQYLSKHNFE 123

Query: 156 NIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDV 215
           ++ +P+P L  Q  +   +  +   +D LI  + + I+LL+EK+Q L++  VT+GLNP+V
Sbjct: 124 HLKIPLPSLKIQKRLLVFLNRKLKDLDELIENKKQLIDLLEEKRQTLITEAVTRGLNPNV 183

Query: 216 KMKDSGIEWVGLVPDHWEVKPFFAL------VTELNRKNTKLIESNILSLSYGNIIQKL- 268
           KMKDSG+EW+G +P+HW +K    +             +    ES +L L   N+     
Sbjct: 184 KMKDSGVEWIGEIPEHWTIKKIKHISNLVGSGKTPKGGSEIYPESGVLFLRSMNVHYDGI 243

Query: 269 ---ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV-K 324
              +  ++  + +       V   +++         +  +    + +  +     +    
Sbjct: 244 RLKDIVHITPEIDEDMRSTRVKSKDVLLNITGASIGRSCIVPESLGKANVNQHVCIIRSN 303

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVP-PIKEQFDITNVI 382
              +    L+ +M S  + +      +G  R+ L F  VK L   +   ++EQ +I N I
Sbjct: 304 TKVVVPELLSKIMASNFIMQQILMSQNGSSREGLNFTQVKNLEFPLTRDLQEQIEIANHI 363

Query: 383 NVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGES 425
           +VET +I+ L+  IE+ I  LKE R S I   VTG+ID+R   
Sbjct: 364 SVETNKINSLIGMIEEQIQKLKEYRQSLIYEVVTGKIDVRDFE 406



 Score = 98.7 bits (244), Expect = 2e-18,   Method: Composition-based stats.
 Identities = 54/218 (24%), Positives = 99/218 (45%), Gaps = 14/218 (6%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLN-TGRTSESGKDI------IYIGLEDVESGTG 61
           + KDSGV+WIG IP+HW +  IK  + L  +G+T + G +I      +++   +V     
Sbjct: 184 KMKDSGVEWIGEIPEHWTIKKIKHISNLVGSGKTPKGGSEIYPESGVLFLRSMNVHYDGI 243

Query: 62  KYLPKDGNSRQSDTS-TVSIFAKGQILYGKLGPYLRKAIIADF---DGICSTQ--FLVLQ 115
           +       + + D     +      +L    G  + ++ I          +     +   
Sbjct: 244 RLKDIVHITPEIDEDMRSTRVKSKDVLLNITGASIGRSCIVPESLGKANVNQHVCIIRSN 303

Query: 116 PKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPI-PPLAEQVLIREKI 174
            K V+PELL   + S  + Q+I     G++    ++  + N+  P+   L EQ+ I   I
Sbjct: 304 TKVVVPELLSKIMASNFIMQQILMSQNGSSREGLNFTQVKNLEFPLTRDLQEQIEIANHI 363

Query: 175 IAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLN 212
             ET +I++LI      I+ LKE +Q+L+  +VT  ++
Sbjct: 364 SVETNKINSLIGMIEEQIQKLKEYRQSLIYEVVTGKID 401



 Score = 92.2 bits (227), Expect = 1e-16,   Method: Composition-based stats.
 Identities = 29/173 (16%), Positives = 66/173 (38%)

Query: 244 LNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKR 303
             R      + +I  +   +   K  + +   +  S E  + ++        +       
Sbjct: 4   PMRDKPTKFDGDIPWIRIEDFNGKYISDSKSRQYVSKELVKGMNLKVFPIGTVLCTCSCS 63

Query: 304 SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVK 363
              +A V +  I    ++ + P     +   + +      ++       ++Q L   + +
Sbjct: 64  MGATAIVEQPLISNQTFIGIVPGENLDSEYLFYLMQASAERLQLFAQGAIQQYLSKHNFE 123

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
            L + +P +K Q  +   +N +   +D L+E  +Q I LL+E+R + I  AVT
Sbjct: 124 HLKIPLPSLKIQKRLLVFLNRKLKDLDELIENKKQLIDLLEEKRQTLITEAVT 176


>gi|49484938|ref|YP_042159.1| putative type I restriction enzyme specificity protein
           [Staphylococcus aureus subsp. aureus MSSA476]
 gi|49243381|emb|CAG41798.1| putative type I restriction enzyme specificity protein
           [Staphylococcus aureus subsp. aureus MSSA476]
          Length = 436

 Score =  184 bits (468), Expect = 2e-44,   Method: Composition-based stats.
 Identities = 79/434 (18%), Positives = 165/434 (38%), Gaps = 22/434 (5%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGK 62
           + K SG++WIG IPK+W +  +K      +G   +S        +   I ++   +    
Sbjct: 4   EMKYSGIEWIGYIPKYWTITKLKNIIDFISGYAFKSELFTISDNNKKVITIKSFNTKEII 63

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGKLG-PYLRKAIIADFDGICSTQFLVLQPKDVLP 121
                 ++      T  +     IL+   G    +  +I   D +      V   +    
Sbjct: 64  LDNLSYSNESLKFPTKYLLKNNDILFAMSGGTTGKNLLIEQVDDLYYINQRVGIIRSSFS 123

Query: 122 ELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
           + +  ++ +   ++ I     G+   +     I N  + +P       I   I  +   I
Sbjct: 124 KFIYYYINTGLFSEYINLFSSGSAQPNISATDIQNFIIALPEKETIKKIEIYINYQLKII 183

Query: 182 DTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALV 241
             +I    + IE LK+ KQ+L++  VTKG++P+V+MK+SG +W+G +P +W V+      
Sbjct: 184 SNIIDTTYQSIEELKKYKQSLITEAVTKGIDPNVEMKESGNDWIGSIPSNWSVRKIKHDF 243

Query: 242 T-----ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY-----QIVDPGEI 291
                       +   ++    L  G   +K   R       S E +       +   ++
Sbjct: 244 NLKGRIGWQGLTSNEYQTVGPYLITGTDFKKGIIRWDSCVRISEERFEEAPDIHIKENDL 303

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP--HGIDSTYLAWLMRSYDLCKVFYAM 349
           +         K +L +    +  + +   +  +   + I+  ++ + + S      + + 
Sbjct: 304 LITKDGTIG-KVALATNVPKKVSLNSGVLLIREKLKNTINKKFMYYNLLSNMFWNWYNSN 362

Query: 350 GSG--LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
             G    + L           +P + EQ  I   ++ + + ID L+E   + I  L+  +
Sbjct: 363 NQGASTIKHLYQGQFYNYSYAIPLLHEQQQIVQYLDDKVSTIDRLIEDKTKVIKELENYK 422

Query: 408 SSFIAAAVTGQIDL 421
            S I   VTG+ ++
Sbjct: 423 KSLIYEYVTGKKEV 436


>gi|114320942|ref|YP_742625.1| restriction modification system DNA specificity subunit
           [Alkalilimnicola ehrlichii MLHE-1]
 gi|114227336|gb|ABI57135.1| restriction modification system DNA specificity domain protein
           [Alkalilimnicola ehrlichii MLHE-1]
          Length = 419

 Score =  184 bits (467), Expect = 2e-44,   Method: Composition-based stats.
 Identities = 93/413 (22%), Positives = 162/413 (39%), Gaps = 17/413 (4%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKD---IIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +P  W    +K     N     ES  +   I Y+ +  V    G    +     ++ +  
Sbjct: 6   LPATWSSKRLKYLATYNDEVLPESTDEEAEIDYVEISGVSLSRGVEQVERITFGKAPSRA 65

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDG---ICSTQFLVLQPKDVLPELLQ--GWLLSID 132
                 G IL   +  YLR     D      I ST F V++P     +         S  
Sbjct: 66  RRKVRSGDILISTVRTYLRAIAKVDEASPDLIASTGFCVVRPDREEVDSGYLGWAAKSEP 125

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
               + +   G +    +   +  I MP+PPL  Q  I + +  +T RID LI ++   +
Sbjct: 126 FVSEVVSRSVGVSYPAINASELVTIEMPLPPLETQRRIAQFLDEKTARIDGLIEKKRALL 185

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK-NTKL 251
           + L EK+QAL++  VTKGLNP+  MK SGI+W+G +P HW++ PF       + + + + 
Sbjct: 186 DRLAEKRQALITRAVTKGLNPEAPMKPSGIDWLGDIPAHWDLVPFKWRCQVQSGQVDPRE 245

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPES----YETYQIVDPGEIVFRFIDLQNDKRSLRS 307
            E   + L   + I+    R   +                 G +++  I     K +L  
Sbjct: 246 PEYTDMPLIAPDYIESGTGRLYDVPSAEEQGAISGKYFCSEGSVLYSKIRPALRKVALFD 305

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLP 366
           +  +        Y        +  YL + + +                  +  E +    
Sbjct: 306 SVCL---CSADMYAIDPGKYFERRYLFYFLLTDAFTAYAELESLRVAMPKVNREALGAFV 362

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
           + +P + EQ +I +  +          +++++S+  L+E RS+ I AAVTGQI
Sbjct: 363 LPIPFLDEQTEIADYCSRVDRENRFAADEVKRSVQKLEEYRSALITAAVTGQI 415



 Score =  100 bits (249), Expect = 4e-19,   Method: Composition-based stats.
 Identities = 57/206 (27%), Positives = 89/206 (43%), Gaps = 4/206 (1%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESG---KDIIYIGLEDVESGTGKYLPK 66
            K SG+ W+G IP HW +VP K   ++ +G+         D+  I  + +ESGTG+    
Sbjct: 210 MKPSGIDWLGDIPAHWDLVPFKWRCQVQSGQVDPREPEYTDMPLIAPDYIESGTGRLYDV 269

Query: 67  DGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP-KDVLPELLQ 125
                Q   S     ++G +LY K+ P LRK  + D   +CS     + P K      L 
Sbjct: 270 PSAEEQGAISGKYFCSEGSVLYSKIRPALRKVALFDSVCLCSADMYAIDPGKYFERRYLF 329

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
            +LL+   T   E       M   + + +G   +PIP L EQ  I +             
Sbjct: 330 YFLLTDAFTAYAELESLRVAMPKVNREALGAFVLPIPFLDEQTEIADYCSRVDRENRFAA 389

Query: 186 TERIRFIELLKEKKQALVSYIVTKGL 211
            E  R ++ L+E + AL++  VT  +
Sbjct: 390 DEVKRSVQKLEEYRSALITAAVTGQI 415


>gi|71735008|ref|YP_272417.1| type I restriction-modification system specificity subunit
           [Pseudomonas syringae pv. phaseolicola 1448A]
 gi|71555561|gb|AAZ34772.1| type I restriction-modification system specificity subunit
           [Pseudomonas syringae pv. phaseolicola 1448A]
          Length = 448

 Score =  183 bits (465), Expect = 4e-44,   Method: Composition-based stats.
 Identities = 105/416 (25%), Positives = 180/416 (43%), Gaps = 22/416 (5%)

Query: 25  WKVVPIKRFTKLNTGRTSES---GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           W++  +K    +N   +      G+   ++ +E V S  G+    +    ++  S  + F
Sbjct: 25  WRICRLKHVALINPYLSLSRVRWGEPASFLPMEAV-SADGQVDYSEPKDSKNLVSGFTNF 83

Query: 82  AKGQILYGKLGPYLRKAI------IADFDGICSTQFLV-LQPKDVLPELLQGWLLSIDVT 134
             G ++  K+ P            +    G  ST+F V    K  +P  +     S    
Sbjct: 84  EAGDVILAKITPCFENGKGAVLSDMPTRVGFGSTEFHVLRANKKAIPNFIYYITKSDLFM 143

Query: 135 QRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
           ++ EA+  G+          + N  + +P L EQ  I + +  +T  I   I+++   IE
Sbjct: 144 RQGEALMIGSAGQKRVSTSYVENFQLALPSLHEQRKIVDFLEEKTSLIAQAISKKEHQIE 203

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
           LL+E+KQ LV   VT+GL+P   M+++GIEW+G +P HWEV+       +      K   
Sbjct: 204 LLEERKQILVQQAVTRGLDPASPMRNAGIEWIGEIPKHWEVRRSKFTFAQRKELARKNDI 263

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESY----ETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
               + SYG I Q      +G K        E  + V+  + V      Q     L  A 
Sbjct: 264 QLSATQSYGVIPQDEYEEKVGRKVVKILFNLEKRKHVEVDDFVISMRSFQG---GLERAW 320

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR--QSLKFEDVKRLPV 367
                I +S  +     GID  Y ++L++S        A  + +R  Q L FE+   + +
Sbjct: 321 ASG-CIRSSYVILKPLPGIDPDYYSYLLKSKRYIAALQATANFIRDGQDLNFENFALVDL 379

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
            +PP+ EQ +I   +    ++ D  +  +EQ I  LKE +++ I +AVTG+I + G
Sbjct: 380 PIPPLDEQKEIARYLASWLSKADRSLYLLEQQITKLKEYKATLINSAVTGKIKVPG 435



 Score = 70.6 bits (171), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 39/208 (18%), Positives = 72/208 (34%), Gaps = 9/208 (4%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDI-IYIGLEDVESGTGKYLPKDG 68
            +++G++WIG IPKHW+V   K        +      DI +            +Y  K G
Sbjct: 227 MRNAGIEWIGEIPKHWEVRRSK--FTFAQRKELARKNDIQLSATQSYGVIPQDEYEEKVG 284

Query: 69  ---NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ 125
                   +            +   +  +      A   G   + +++L+P   +     
Sbjct: 285 RKVVKILFNLEKRKHVEVDDFVIS-MRSFQGGLERAWASGCIRSSYVILKPLPGIDPDYY 343

Query: 126 GWLLSIDVTQRIEAICEGATM--SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
            +LL                      +++    + +PIPPL EQ  I   + +   + D 
Sbjct: 344 SYLLKSKRYIAALQATANFIRDGQDLNFENFALVDLPIPPLDEQKEIARYLASWLSKADR 403

Query: 184 LITERIRFIELLKEKKQALVSYIVTKGL 211
            +    + I  LKE K  L++  VT  +
Sbjct: 404 SLYLLEQQITKLKEYKATLINSAVTGKI 431


>gi|323160944|gb|EFZ46868.1| type I restriction modification DNA specificity domain protein
           [Escherichia coli E128010]
          Length = 394

 Score =  183 bits (465), Expect = 4e-44,   Method: Composition-based stats.
 Identities = 104/366 (28%), Positives = 169/366 (46%), Gaps = 14/366 (3%)

Query: 72  QSDTSTVSIFAKGQILYGKL---GPYLRKAIIADFDGICSTQFL-VLQPKDVLPELLQGW 127
            SD S   IF K  +++  +        +  I    GI S  ++ V    + +      W
Sbjct: 27  SSDYSVYQIFEKDDLVFKLIDLENIKTSRVGIVHERGIMSPAYIRVSASSNSIYPRFYYW 86

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
                    I     G    +     +  IP+P+  ++ Q  +   +  ET RID+LI E
Sbjct: 87  YFFALYLTNIYNKLGGGVRQNLTAGDLLEIPVPLIDISLQKQVSTFLDRETQRIDSLIEE 146

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK 247
           +  FI+LLKEK+QAL+S++VTKGL P+V+M+DSGIEW+G VP HWEVK    + +     
Sbjct: 147 KQTFIKLLKEKRQALISHVVTKGLYPNVEMQDSGIEWIGQVPKHWEVKKIKHICSNFMYG 206

Query: 248 NTKLI---ESNILSLSYGN----IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQN 300
            ++     +     L   N     +   + +   +      TY +     +V R     N
Sbjct: 207 TSQDCNQSDVGYPVLRIPNIKSTNVDFEDLKYANISDVDALTYLLSRGDILVIRTNGNPN 266

Query: 301 DKRSLRSAQVMERGIITSAYMAVKPHG-IDSTYLAWLMRSYDLCKV--FYAMGSGLRQSL 357
                       + +  S  + + P   +D+++L   M S  + +   F +  S    +L
Sbjct: 267 LVGQSALFDSNGQYLFASYLIKLTPKQGVDTSFLVEAMNSLSVRQALTFQSRTSVGNYNL 326

Query: 358 KFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
               +    + +PPI EQ  ITN ++  T  ID+L+++ ++SI LLKE R+S I AAVTG
Sbjct: 327 SIPSLANTSIAIPPIDEQKTITNYLSAATINIDLLIQETDKSIDLLKEHRTSLINAAVTG 386

Query: 418 QIDLRG 423
           +ID+R 
Sbjct: 387 KIDVRE 392



 Score = 90.2 bits (222), Expect = 5e-16,   Method: Composition-based stats.
 Identities = 46/219 (21%), Positives = 89/219 (40%), Gaps = 13/219 (5%)

Query: 7   YP--QYKDSGVQWIGAIPKHWKVVPIKRFT-KLNTGRTSE---SGKDIIYIGLEDVESGT 60
           YP  + +DSG++WIG +PKHW+V  IK        G + +   S      + + +++S  
Sbjct: 171 YPNVEMQDSGIEWIGQVPKHWEVKKIKHICSNFMYGTSQDCNQSDVGYPVLRIPNIKSTN 230

Query: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAII-----ADFDGICSTQFLVLQ 115
             +      +     +   + ++G IL  +               ++   + ++  + L 
Sbjct: 231 VDFEDLKYANISDVDALTYLLSRGDILVIRTNGNPNLVGQSALFDSNGQYLFASYLIKLT 290

Query: 116 PKDVLPELLQGWLLSIDV--TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
           PK  +        ++                   +     + N  + IPP+ EQ  I   
Sbjct: 291 PKQGVDTSFLVEAMNSLSVRQALTFQSRTSVGNYNLSIPSLANTSIAIPPIDEQKTITNY 350

Query: 174 IIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLN 212
           + A T+ ID LI E  + I+LLKE + +L++  VT  ++
Sbjct: 351 LSAATINIDLLIQETDKSIDLLKEHRTSLINAAVTGKID 389


>gi|255657323|ref|ZP_05402732.1| type I restriction-modification system [Clostridium difficile
           QCD-23m63]
          Length = 453

 Score =  183 bits (464), Expect = 5e-44,   Method: Composition-based stats.
 Identities = 87/430 (20%), Positives = 167/430 (38%), Gaps = 20/430 (4%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLP 65
            Y +Y+D+G+ WI  +PK W +  I         + S+   + + +         G +  
Sbjct: 3   KYERYRDTGLIWINKVPKKWNLQKINAVFDERREKVSDKDYEALSVT------KNGIFKQ 56

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ 125
            D  ++  D            +          + ++ FDG  S    VL+ K   P  + 
Sbjct: 57  LDNVAKTIDGDNRKKVKINDFVINSRSDRKGSSGLSRFDGSVSLINTVLKIKKEYPRYMH 116

Query: 126 GWLLSIDVTQRIEAICEGAT--MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
             L S+   +      +G    +   +++ + +I +PIPP+ EQV I   +  +   I+ 
Sbjct: 117 YLLKSVPFQEEFYRNGKGIVADLWSTNFQSMKSIILPIPPIEEQVQIANYLDWKINEINR 176

Query: 184 LITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTE 243
           LI      I+ L+  +  ++S  V +G+      K S I W+  +P HW        V  
Sbjct: 177 LIQIEKEKIKELETLRFNVISEFVLRGIG-TQNYKKSSINWLDEIPSHWNEVSIRWCVNI 235

Query: 244 LNRKNTKLIESNILSLSYGNIIQK--------LETRNMGLKPESYETYQIVDPGEIVFRF 295
           +   +T   +       Y  +               +  +  + Y+  Q+V+  +I+   
Sbjct: 236 IRGNSTFTKDDLQNRGKYVGLQYGKVYKTEIIDSEFDFYVSDKFYKPAQVVNRNDIIIVS 295

Query: 296 ID-LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL- 353
                 D          + G+I    + +KP    ++   + + S           +G+ 
Sbjct: 296 TSETVEDLGHTSFYDRDDIGLIGGEQILLKPSNNINSKYLFYL-SKIFRMQLQLCATGIK 354

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
               K  D+K++ V +PP+KEQ  I + I ++  +ID  V+     I  L+  + S I+ 
Sbjct: 355 VYRFKISDLKQIYVPLPPMKEQEKIVSNIELKLEQIDERVKNNYAFIKELELLKQSLISE 414

Query: 414 AVTGQIDLRG 423
            VTG+ID+R 
Sbjct: 415 VVTGKIDVRN 424


>gi|269140413|ref|YP_003297114.1| type I restriction modification DNA specificity domain protein
           [Edwardsiella tarda EIB202]
 gi|267986074|gb|ACY85903.1| type I restriction modification DNA specificity domain protein
           [Edwardsiella tarda EIB202]
          Length = 441

 Score =  183 bits (464), Expect = 5e-44,   Method: Composition-based stats.
 Identities = 85/431 (19%), Positives = 160/431 (37%), Gaps = 30/431 (6%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIY---IGLEDVESGTGKYLPK 66
           +K + V   G IP+ W+VVP      + +G+ S   +       I  + +E+GTG+ + K
Sbjct: 18  FKLTEV---GVIPEDWEVVPFFDVVSIVSGQISPICEPYSSMTLIAPDHIETGTGRLISK 74

Query: 67  DGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL-PELLQ 125
                Q   S   +F  G  +Y K+ PYLRKAI A+FDG+CS     L+PK+ + P+ + 
Sbjct: 75  KSAKEQGAISGKYVFHAGDTIYSKIRPYLRKAIYANFDGLCSADMYPLRPKEGIEPKYIL 134

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAE-QVLIREKIIAETVRIDTL 184
             +L    ++  E++   + +   +   I +    IP   E Q  I   +      I  L
Sbjct: 135 PLVLGNRFSKYAESVSVRSGIPKINRTEIADFLFVIPRQREEQTAIANVLFDTEALIAAL 194

Query: 185 ITERIRFIELLKEKKQALVS------YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFF 238
                +   +     Q L++                   K S    +G +P+ W V    
Sbjct: 195 EQILAKKQAIKTAAMQQLLTGKTRLPQFAMWEDGTTKGYKKS---ELGEIPEDWVVTNIG 251

Query: 239 ALVTELNR-----KNTKLIESNILSLSYGNIIQKLETRNMGLKPES---YETYQIVDPGE 290
                        K +         +S G +  K          +      + + V    
Sbjct: 252 QFTDCCAGGTPGTKVSAYWGGTHPWMSSGELHLKQVHTVADYITDEGLANSSTKYVPKNS 311

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG 350
           ++      Q   R   +   +E     S           + +L + + +        + G
Sbjct: 312 VLVGLAG-QGKTRGTVAINRIELCTNQSIAAIFPGEHHSTEFLFYNLDNRYEELRSLSTG 370

Query: 351 SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
            G R  L    +++L +  PP +EQ  I  +++     ID  ++ ++Q +   ++ +   
Sbjct: 371 DGGRGGLNLTIIRKLHLAFPPKEEQTAIAAILSD----IDEDIQTLQQRLNKTRQLKQGM 426

Query: 411 IAAAVTGQIDL 421
           +   +TG+I L
Sbjct: 427 MQELLTGKIRL 437


>gi|255102540|ref|ZP_05331517.1| type I restriction-modification system [Clostridium difficile
           QCD-63q42]
          Length = 453

 Score =  181 bits (460), Expect = 1e-43,   Method: Composition-based stats.
 Identities = 87/430 (20%), Positives = 166/430 (38%), Gaps = 20/430 (4%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLP 65
            Y +Y+D+G+ WI  +PK W +  I         + S+   + + +         G +  
Sbjct: 3   KYERYRDTGLIWINKVPKKWNLQKINAVFDERREKVSDKDYEALSVT------KNGIFKQ 56

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ 125
            D  ++  D            +          + ++ FDG  S    VL+ K   P  + 
Sbjct: 57  LDNVAKTIDGDNRKKVKINDFVINSRSDRKGSSGLSRFDGSVSLINTVLKIKKEYPRYMH 116

Query: 126 GWLLSIDVTQRIEAICEGAT--MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
             L S+   +      +G    +   +++ + +I +PIPP+ EQV I   +  +   I+ 
Sbjct: 117 YLLKSVPFQEEFYRNGKGIVADLWSTNFQSMKSIILPIPPIEEQVQIANYLDWKINEINR 176

Query: 184 LITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTE 243
           LI      I+ L+  +   +S  V +G+      K S I W+  +P HW        V  
Sbjct: 177 LIQIEKEKIKELETLRFNAISEFVLRGIG-TQNYKKSSINWLDEIPSHWNEVSIRWCVNI 235

Query: 244 LNRKNTKLIESNILSLSYGNIIQK--------LETRNMGLKPESYETYQIVDPGEIVFRF 295
           +   +T   +       Y  +               +  +  + Y+  Q+V+  +I+   
Sbjct: 236 IRGNSTFTKDDLQNRGKYVGLQYGKVYKTEIIDSEFDFYVSDKFYKPAQVVNRNDIIIVS 295

Query: 296 ID-LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL- 353
                 D          + G+I    + +KP    ++   + + S           +G+ 
Sbjct: 296 TSETVEDLGHTSFYDRDDIGLIGGEQILLKPSNNINSKYLFYL-SKIFRMQLQLCATGIK 354

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
               K  D+K++ V +PP+KEQ  I + I ++  +ID  V+     I  L+  + S I+ 
Sbjct: 355 VYRFKISDLKQIYVPLPPMKEQEKIVSNIELKLEQIDERVKNNYAFIKELELLKQSLISE 414

Query: 414 AVTGQIDLRG 423
            VTG+ID+R 
Sbjct: 415 VVTGKIDVRN 424


>gi|291540900|emb|CBL14011.1| Restriction endonuclease S subunits [Roseburia intestinalis XB6B4]
          Length = 445

 Score =  181 bits (459), Expect = 2e-43,   Method: Composition-based stats.
 Identities = 88/441 (19%), Positives = 164/441 (37%), Gaps = 25/441 (5%)

Query: 8   PQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES--------GKDIIYIGLEDVESG 59
            Q K S + WIG +PK W V PIK       G  SE+         + I +I    +E  
Sbjct: 3   EQMKSSRIDWIGDVPKSWDVEPIKYRVSFYNGDRSENYPSKNEIQSEGIPFINAGHIEGN 62

Query: 60  TGKYLP-KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKD 118
                     +  +          +G ILY   G   +  I+    G  ++  + ++   
Sbjct: 63  CLNMNDMDYISEEKYRVMGGVKLQQGDILYCLRGSVGKNIIVNIDKGTVASSLVAIRSNG 122

Query: 119 VLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
           +L + L   L S     +      G    +     +G   + IPP  EQ  I + +  E 
Sbjct: 123 ILNKYLYYCLNSNVEEVQRCLWDNGTAQPNLSADSLGKFKICIPPDHEQQAIADFLDKEC 182

Query: 179 VRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFF 238
            +ID++  +  + I+LL++ K++L++  VTKGL+  V MKDSG+EW+G +P HW+ K   
Sbjct: 183 AQIDSIAADLEKQIDLLQQYKKSLITETVTKGLDKSVPMKDSGVEWIGKIPAHWDFKRLK 242

Query: 239 ALV-----------TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI-- 285
            ++                  +   +      +   ++    + N     E         
Sbjct: 243 FMLENSSDSMKVGPFGSALSGSDFTDEGKWVYNQRVVLDNNFSENTTFVSEEKFQEMRSF 302

Query: 286 -VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR-SYDLC 343
            V PG+I+            +                 V    I    L  +   S  + 
Sbjct: 303 AVYPGDILITTRGTIGKVAIVPEGANEGILHPCIIKFRVDKEMIIPELLQLIFNESDFVK 362

Query: 344 KVFYAMGS-GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
             F  M +    + +    +K + + V P  EQ  I   ++ +   ID ++ + ++++  
Sbjct: 363 DQFTLMSNATTIEVIYSYSLKDILLPVIPADEQTKIYGYLSKKCIVIDGIIAEKQKALAT 422

Query: 403 LKERRSSFIAAAVTGQIDLRG 423
           + + + S I   V G+  ++ 
Sbjct: 423 ITQHKKSLIYEYVAGKKRVKE 443


>gi|168362839|ref|ZP_02696013.1| probable type I restriction-modification system [Ureaplasma
           urealyticum serovar 13 str. ATCC 33698]
 gi|171903131|gb|EDT49420.1| probable type I restriction-modification system [Ureaplasma
           urealyticum serovar 13 str. ATCC 33698]
          Length = 453

 Score =  181 bits (459), Expect = 2e-43,   Method: Composition-based stats.
 Identities = 87/430 (20%), Positives = 166/430 (38%), Gaps = 20/430 (4%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLP 65
            Y +Y+D+G+ WI  +PK W +  I         + S+     + +         G +  
Sbjct: 3   KYERYRDTGLIWINKVPKKWNLQKINAVFDERREKVSDKDYVALSVT------KNGIFKQ 56

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ 125
            D  ++  D            +          + ++ FDG  S    VL+ K   P  + 
Sbjct: 57  LDNVAKTIDGDNRKKVKINDFVINSRSDRKGSSGLSRFDGSVSLINTVLKIKKEYPRYMH 116

Query: 126 GWLLSIDVTQRIEAICEGAT--MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
             L S+   +      +G    +   +++ + +I +PIPP+ EQV I   +  +   I+ 
Sbjct: 117 YLLKSVPFQEEFYRNGKGIVADLWSTNFQSMKSIILPIPPIEEQVQIANYLDWKINEINR 176

Query: 184 LITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTE 243
           LI      I+ L+  +  ++S  V +G+      K S I W+  +P HW        V  
Sbjct: 177 LIQIEKEKIKELETLRFNVISEFVLRGIG-TQNYKKSSINWLDEIPSHWNEVSIRWCVNI 235

Query: 244 LNRKNTKLIESNILSLSYGNIIQK--------LETRNMGLKPESYETYQIVDPGEIVFRF 295
           +   +T   +       Y  +               +  +  + Y+  Q+V+  +I+   
Sbjct: 236 IRGNSTFTKDDLQNRGKYVGLQYGKVYKTEIIDSEFDFYVSDKFYKPAQVVNRNDIIIVS 295

Query: 296 ID-LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL- 353
                 D          + G+I    + +KP    ++   + + S           +G+ 
Sbjct: 296 TSETVEDLGHTSFYDRDDIGLIGGEQILLKPSNNINSKYLFYL-SKIFRMQLQLCATGIK 354

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
               K  D+K++ V +PP+KEQ  I + I ++  +ID  V+     I  L+  + S I+ 
Sbjct: 355 VYRFKISDLKQIYVPLPPMKEQEKIVSNIELKLEQIDERVKNNYAFIKELELLKQSLISE 414

Query: 414 AVTGQIDLRG 423
            VTG+ID+R 
Sbjct: 415 VVTGKIDVRN 424


>gi|15597930|ref|NP_251424.1| hypothetical protein PA2734 [Pseudomonas aeruginosa PAO1]
 gi|9948811|gb|AAG06122.1|AE004701_5 hypothetical protein PA2734 [Pseudomonas aeruginosa PAO1]
          Length = 431

 Score =  180 bits (457), Expect = 3e-43,   Method: Composition-based stats.
 Identities = 83/355 (23%), Positives = 139/355 (39%), Gaps = 6/355 (1%)

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW-LLSIDV 133
                   KG I Y  +  +         DG+ S  ++V++P          +   +   
Sbjct: 47  KEKYKRAVKGDIAYNMMRMWQGAVGPVPEDGLVSPAYVVVKPYAEANSTYFSYLFRTAAY 106

Query: 134 TQRIEAICEGAT--MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            Q +     G     +   W+    +P  +PP  EQ  I   +  +   I   I  +   
Sbjct: 107 MQEVNKFSRGIVADRNRLYWESFKQMPSLVPPRPEQDQIVTYLRTQDAHIACFIRAKRDL 166

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           I LL E+K  ++ + VT+GL+  VK+K S IEW+G VP HWEVK    L   +  + T  
Sbjct: 167 IALLTEQKLRIIDHAVTRGLDASVKLKPSDIEWLGEVPAHWEVKRLKFLAGNITSQTTTK 226

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
            +  I              R +G + E   T +     +++F  +     K  +      
Sbjct: 227 ADDEIYLALEHVQSWTGVARPLGGEVEFASTVKRFVADDVLFGKLRPYLAK--VTRVVCA 284

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVP 370
              +     +  +   I   YL  L+R   +  +  +  +G       +  +  + + +P
Sbjct: 285 GVCVSEFLVLRSRQELILPAYLEQLLRCKRVIDLISSSTAGAKMPRADWNFIGNVRLPIP 344

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGES 425
              EQ  I + I  ET  +D  + + E  I L++E R   IA AVTGQ+DLRG  
Sbjct: 345 RKDEQEAILSHIGRETKDLDETIARAEDEIKLIREYRDRLIADAVTGQVDLRGWQ 399



 Score = 95.6 bits (236), Expect = 1e-17,   Method: Composition-based stats.
 Identities = 70/204 (34%), Positives = 103/204 (50%), Gaps = 4/204 (1%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNS 70
           K S ++W+G +P HW+V  +K      T +T+    D IY+ LE V+S TG  + +    
Sbjct: 193 KPSDIEWLGEVPAHWEVKRLKFLAGNITSQTTTKADDEIYLALEHVQSWTG--VARPLGG 250

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKD--VLPELLQGWL 128
                STV  F    +L+GKL PYL K       G+C ++FLVL+ +   +LP  L+  L
Sbjct: 251 EVEFASTVKRFVADDVLFGKLRPYLAKVTRVVCAGVCVSEFLVLRSRQELILPAYLEQLL 310

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
               V   I +   GA M  ADW  IGN+ +PIP   EQ  I   I  ET  +D  I   
Sbjct: 311 RCKRVIDLISSSTAGAKMPRADWNFIGNVRLPIPRKDEQEAILSHIGRETKDLDETIARA 370

Query: 189 IRFIELLKEKKQALVSYIVTKGLN 212
              I+L++E +  L++  VT  ++
Sbjct: 371 EDEIKLIREYRDRLIADAVTGQVD 394


>gi|145635506|ref|ZP_01791206.1| putative type I site-specific restriction-modification system, S
           subunit [Haemophilus influenzae PittAA]
 gi|145267271|gb|EDK07275.1| putative type I site-specific restriction-modification system, S
           subunit [Haemophilus influenzae PittAA]
          Length = 348

 Score =  180 bits (457), Expect = 3e-43,   Method: Composition-based stats.
 Identities = 84/346 (24%), Positives = 159/346 (45%), Gaps = 9/346 (2%)

Query: 83  KGQILYGKLGPYLR----KAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           KG+ L   L         +  +++ D + S  ++VL+ K ++ +    +LL       ++
Sbjct: 3   KGEFLINPLNLNYDLISLRIALSEIDVVVSAGYIVLKEKQIINKKYFSYLLHRYDVAYMK 62

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
            +  G      ++  I +  + IPPL+EQ  I + +  +T +ID  +    + I LLKE 
Sbjct: 63  LLGSGV-RQTINYGHISDSILVIPPLSEQQKIAQFLDDKTAKIDRAVDLAEKQIALLKEH 121

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
           KQ L+   VT+GLNPDV +KDSG+EW+G VP+HW+V+    +  ++ RK  +  +     
Sbjct: 122 KQILIQNAVTRGLNPDVPLKDSGVEWIGQVPEHWDVQRSKFIFKKIERKVNEEDQIVTCF 181

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
                 ++                YQ +  G++V   +D       +  +      + + 
Sbjct: 182 RDGQVTLRANRRTEGFTNALKEHGYQGIRKGDLVIHAMDAFAGAIGISDSDGKATPVYS- 240

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS---LKFEDVKRLPVLVPPIKEQ 375
             +      ID  + A+ +R+  L     ++  G+R+     ++ D   L + +PP  EQ
Sbjct: 241 VCLPHNKQKIDVYFYAYYLRNLALSGFISSLAKGIRERSTDFRYADFAELLLPIPPYLEQ 300

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
             I + ++ +T++ID ++      I  LKE +S  I   VTG++ +
Sbjct: 301 QKIADYLDKQTSKIDQVIALKTAHIEKLKEYKSVLINDVVTGKVRV 346



 Score = 88.3 bits (217), Expect = 2e-15,   Method: Composition-based stats.
 Identities = 47/202 (23%), Positives = 78/202 (38%), Gaps = 7/202 (3%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNS 70
           KDSGV+WIG +P+HW V   K   K    +   + +D I     D +         +G +
Sbjct: 141 KDSGVEWIGQVPEHWDVQRSKFIFKKIERKV--NEEDQIVTCFRDGQVTLRANRRTEGFT 198

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP--KDVLPELLQGWL 128
                       KG ++   +  +     I+D DG  +  + V  P  K  +      + 
Sbjct: 199 NALKEHGYQGIRKGDLVIHAMDAFAGAIGISDSDGKATPVYSVCLPHNKQKIDVYFYAYY 258

Query: 129 LSIDVTQRIEAICEGATMSH---ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
           L         +              +     + +PIPP  EQ  I + +  +T +ID +I
Sbjct: 259 LRNLALSGFISSLAKGIRERSTDFRYADFAELLLPIPPYLEQQKIADYLDKQTSKIDQVI 318

Query: 186 TERIRFIELLKEKKQALVSYIV 207
             +   IE LKE K  L++ +V
Sbjct: 319 ALKTAHIEKLKEYKSVLINDVV 340


>gi|296330135|ref|ZP_06872617.1| restriction modification system DNA specificity domain protein
           [Bacillus subtilis subsp. spizizenii ATCC 6633]
 gi|305673379|ref|YP_003865051.1| Type I restriction modification system DNA specificity domain
           protein (HsdS) [Bacillus subtilis subsp. spizizenii str.
           W23]
 gi|296152724|gb|EFG93591.1| restriction modification system DNA specificity domain protein
           [Bacillus subtilis subsp. spizizenii ATCC 6633]
 gi|305411623|gb|ADM36742.1| Type I restriction modification system DNA specificity domain
           protein (HsdS) [Bacillus subtilis subsp. spizizenii str.
           W23]
          Length = 433

 Score =  179 bits (455), Expect = 5e-43,   Method: Composition-based stats.
 Identities = 96/430 (22%), Positives = 179/430 (41%), Gaps = 26/430 (6%)

Query: 12  DSGVQWIGAIPKHWKVVPIKRFT-----KLNTGRTSES-------GKDIIYIGLEDVESG 59
           +S +Q +GAIP HW +  +K         +  G    +        +     G E++   
Sbjct: 5   ESNIQGVGAIPSHWNIKKLKHCLLPGSEGIKIGPFGSALKSEILITEGYKVYGQENLIKD 64

Query: 60  TGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD--FDGICSTQFLVLQPK 117
                 +  +  + +        +  +L   +G   +  ++      GI  +  + ++  
Sbjct: 65  DFTLGHRFISEEKFNELKSYEIIENDVLISMMGTVGKCKVVPSIIEKGIMDSHLIRIRFN 124

Query: 118 DVLP---ELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKI 174
           + +            SI +  +I+   +G+ MS  +   I N+ + +PP+ EQ +I + I
Sbjct: 125 ESIILPEFAAYLIQDSIYIKVQIDLNSKGSIMSGLNSSIIKNLKLILPPIEEQRIILKYI 184

Query: 175 IAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEV 234
             + +++  L   +   I LL E++Q++++  VTKGLNP+VKMK+SGIEW+G +P+HW++
Sbjct: 185 SRKNMQLYQLSNSKNILINLLNEQRQSIITEAVTKGLNPNVKMKNSGIEWIGEIPEHWDM 244

Query: 235 KPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFR 294
           K        L+ K   L          G + +K+              Y + D   I+  
Sbjct: 245 KKVKYTFNNLDYKRIPLSSE-----ERGKMTEKVYDYYGASGVIDKVDYYLFDETLILIG 299

Query: 295 FIDLQNDKRSLR-SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL 353
                   RS   +     +  + +    +KP   D  Y   L+ S D            
Sbjct: 300 EDGANLFSRSTPLAFLARGKYWVNNHAHILKPKNGDIDYFVNLLESIDYSIYI---SGSA 356

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           +  L  E +  + + +PPI+EQ +I  ++         ++  ++  I  LKE R S I  
Sbjct: 357 QPKLTQEALGNITLPLPPIEEQSEIGELVKNVLIEHKEIISTLKNQIEKLKEYRQSLIYE 416

Query: 414 AVTGQIDLRG 423
           AVTG+ID+R 
Sbjct: 417 AVTGKIDVRD 426



 Score = 72.5 bits (176), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 53/209 (25%), Positives = 88/209 (42%), Gaps = 16/209 (7%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDG 68
           + K+SG++WIG IP+HW +  +K        +          +  E+    T K     G
Sbjct: 226 KMKNSGIEWIGEIPEHWDMKKVKYTFNNLDYKRIP-------LSSEERGKMTEKVYDYYG 278

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRK-----AIIADFDGICSTQFLVLQPKDVLPEL 123
            S   D     +F +  IL G+ G  L       A +A      +    +L+PK+   + 
Sbjct: 279 ASGVIDKVDYYLFDETLILIGEDGANLFSRSTPLAFLARGKYWVNNHAHILKPKNGDIDY 338

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
               L SID +        G+       + +GNI +P+PP+ EQ  I E +    +    
Sbjct: 339 FVNLLESIDYSI----YISGSAQPKLTQEALGNITLPLPPIEEQSEIGELVKNVLIEHKE 394

Query: 184 LITERIRFIELLKEKKQALVSYIVTKGLN 212
           +I+     IE LKE +Q+L+   VT  ++
Sbjct: 395 IISTLKNQIEKLKEYRQSLIYEAVTGKID 423


>gi|124008338|ref|ZP_01693033.1| type I restriction-modification system specificity subunit
           [Microscilla marina ATCC 23134]
 gi|123986127|gb|EAY25963.1| type I restriction-modification system specificity subunit
           [Microscilla marina ATCC 23134]
          Length = 424

 Score =  179 bits (455), Expect = 5e-43,   Method: Composition-based stats.
 Identities = 65/433 (15%), Positives = 151/433 (34%), Gaps = 36/433 (8%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK--------DIIYIGLEDVESGTG 61
           YKDS    +G IP+ W+VV +    K++ G T    K         I ++   D+ +   
Sbjct: 6   YKDSP---LGEIPEDWEVVKLGDIAKVSAGGTPLRSKQEEYFTNGHIPWVKTLDLNNSII 62

Query: 62  KYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPY--LRKAIIADFDGICSTQFLVLQPKDV 119
           +   +   S     ++ ++  K  +L    G +  + +  +   +   +     L  K  
Sbjct: 63  EDTEEKITSLALKETSCNLLPKNTVLVAMYGGFNQIGRTGLLKIEATTNQAISALNIKSD 122

Query: 120 LPELLQGWLLSIDVTQRIEAIC-EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
                          +  +          +   K + + P+ IPPLAEQ  I + +    
Sbjct: 123 NIYPEFILAWLNAKVEVWKKFAASSRKDPNITKKDVEHFPIVIPPLAEQQEIADIL---- 178

Query: 179 VRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFF 238
             +D  I      +   ++ K+ L+  + T+GL      K S    +G +P+ WEV    
Sbjct: 179 STVDEKIATIDERLAHTQQLKKGLMQRLFTRGLG-HTSFKASP---LGEIPESWEVVKLG 234

Query: 239 ALVTELNRKN-------TKLIESNILSLSYGNIIQKLETRNMGLKPE---SYETYQIVDP 288
            +                     +I  +   ++   +                +  ++  
Sbjct: 235 DIAKVSAGGTPLRSKQEEYFTNGHIPWVKTLDLNNSIIEDTEEKITSLALKETSCNLLPK 294

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA 348
             ++       N        ++        + + +K   I   ++   + +       +A
Sbjct: 295 NTVLVAMYGGFNQIGRTGLLKIEATTNQAISALNIKSDNIYPEFILAWLNAKVEVWKKFA 354

Query: 349 MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
             S    ++  +DV+  P+++PP+ EQ +I +++     ++++L EK        +  + 
Sbjct: 355 ASSRKDPNITKKDVEHFPIVIPPLAEQQEIADILGGVDEKLELLAEKK----EAYQGLKK 410

Query: 409 SFIAAAVTGQIDL 421
             +   +TG++ +
Sbjct: 411 GLMQQLLTGKVRV 423


>gi|309390280|gb|ADO78160.1| restriction modification system DNA specificity domain protein
           [Halanaerobium praevalens DSM 2228]
          Length = 465

 Score =  179 bits (454), Expect = 7e-43,   Method: Composition-based stats.
 Identities = 97/459 (21%), Positives = 180/459 (39%), Gaps = 38/459 (8%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTK--LNTGRTSESG----KDIIYIGLE 54
           M+ YK Y +Y+DSG++WI  IPK+W +  IK   K  ++ G            + ++ ++
Sbjct: 2   MREYKRYEEYQDSGIEWIADIPKNWIISKIKYLVKEPVSDGPHETPDYVYDNGVPFLSVD 61

Query: 55  DVESGTGKYLP--KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIA--DFDGICSTQ 110
            +++G   +    +            S   K  IL GK     + A I       I S  
Sbjct: 62  SIQNGKLVFENCRQISVKDHKIYRNKSNPEKEDILLGKAASVGKVAKINVDFPFSIWSPL 121

Query: 111 FLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLI 170
            L+     +    L+  + S     + + +    T  +   K I +I +  P + EQ  I
Sbjct: 122 ALIKPNYKIESSYLEYSMKSSYFQIQTDLLSNSNTQKNLGMKDINDILVLKPSIEEQQKI 181

Query: 171 REKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKG------------LNPDVKMK 218
              +  +T  ID +  ++ + I+ L++ K+++++  VTKG            L  +V+MK
Sbjct: 182 ASFLDQKTAEIDEITNKKEKLIDQLEKYKKSVITDAVTKGKLGDKYLNEDGDLVDEVEMK 241

Query: 219 DSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS-------------LSYGNII 265
           DSGIEW+  VP  +++     +     R   +    + L              ++  N +
Sbjct: 242 DSGIEWIRDVPHFYDISKVKYIADIHGRIGYRGYTKDDLVDKGQGALTLGGKHINDRNQL 301

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
              +   +           +++   +V            +          I  + + V  
Sbjct: 302 DLSDPTYISWDKYYESPEIMIEYNNLVVVQRGSIGKVAIIDKNI--GEATINPSLILVNN 359

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAM-GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
             I + Y  + + S  + + F  +  S     +  E +  L +       Q  I N ++ 
Sbjct: 360 LEIKAKYFYYYLISNSVSEFFNLIVSSTAVPMISQEQLDNLYLPKIDKHSQNKIINYLDK 419

Query: 385 ETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
           +T  ID L++K + SI   KE + S I  AVTG+IDLR 
Sbjct: 420 KTELIDNLIQKTKTSIQKYKEYKKSLIFEAVTGKIDLRD 458


>gi|291566232|dbj|BAI88504.1| type I restriction-modification system S subunit [Arthrospira
           platensis NIES-39]
          Length = 396

 Score =  179 bits (454), Expect = 7e-43,   Method: Composition-based stats.
 Identities = 93/406 (22%), Positives = 160/406 (39%), Gaps = 27/406 (6%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W    +K       G      ++           G  K    +G       +        
Sbjct: 3   WLQAKLKYVAHFAYGDALPKDQE---------REGDFKVFGSNGAYDNYGRANTQ---AP 50

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            I+ G+ G Y +            T F +             +LL       ++   + A
Sbjct: 51  VIIVGRKGSYGKVNWSDHPCFASDTTFFIDATTTHHHLRWLFYLLQTL---NLDQGTDEA 107

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
            +            + IPPL EQ  I   +  ET +ID LI  + R ++LL EK++AL++
Sbjct: 108 AVPGLSRDDAYAKKVFIPPLGEQKAIAHYLDKETAKIDQLIEAKKRLLQLLDEKRRALIT 167

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
           + VT+GLNPDV M+DSG+EW+G +P HW+             K  +    ++  +    +
Sbjct: 168 HTVTRGLNPDVPMRDSGVEWIGKIPKHWKCSKIKHHYEITLGKMLQNEPHSLEDVEVPYL 227

Query: 265 IQKLETRNMGLKPESYETYQ---------IVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
             +    +  L                   V  G+++         + ++ S++  +  I
Sbjct: 228 KSQHVQSDRILMDNELPQMWANPWEIANLNVIKGDLLVCEGGEIG-RSAIISSKPPDNCI 286

Query: 316 ITSAYMAVKPHGI-DSTYLAWLMRSYDLCKVFYAM-GSGLRQSLKFEDVKRLPVLVPPIK 373
           I +A   V+P    D  +L +L+      +    +           E   ++ + +PP+ 
Sbjct: 287 IQNALHLVRPKPTGDVNFLKYLLNHAISQRWLDVLCNKATIAHFTVEKFSQMSIELPPLS 346

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
           EQ  I N ++ ETA+I+ L   +  +I LL+ERR+S I AAVTGQI
Sbjct: 347 EQKAIANYLDKETAKINQLRSAVRDTITLLQERRTSLITAAVTGQI 392



 Score = 91.4 bits (225), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 54/213 (25%), Positives = 99/213 (46%), Gaps = 11/213 (5%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGR------TSESGKDIIYIGLEDVESGTGKY 63
            +DSGV+WIG IPKHWK   IK   ++  G+       S    ++ Y+  + V+S     
Sbjct: 180 MRDSGVEWIGKIPKHWKCSKIKHHYEITLGKMLQNEPHSLEDVEVPYLKSQHVQSDRILM 239

Query: 64  LPKDGNSRQSDTSTVSI-FAKGQILYGKLGPYLRKAII---ADFDGICSTQFLVLQPKDV 119
             +      +     ++   KG +L  + G   R AII      + I      +++PK  
Sbjct: 240 DNELPQMWANPWEIANLNVIKGDLLVCEGGEIGRSAIISSKPPDNCIIQNALHLVRPKPT 299

Query: 120 LPELLQGWLLSIDV-TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
                  +LL+  +  + ++ +C  AT++H   +    + + +PPL+EQ  I   +  ET
Sbjct: 300 GDVNFLKYLLNHAISQRWLDVLCNKATIAHFTVEKFSQMSIELPPLSEQKAIANYLDKET 359

Query: 179 VRIDTLITERIRFIELLKEKKQALVSYIVTKGL 211
            +I+ L +     I LL+E++ +L++  VT  +
Sbjct: 360 AKINQLRSAVRDTITLLQERRTSLITAAVTGQI 392


>gi|331084240|ref|ZP_08333345.1| hypothetical protein HMPREF0992_02269 [Lachnospiraceae bacterium
           6_1_63FAA]
 gi|330401775|gb|EGG81352.1| hypothetical protein HMPREF0992_02269 [Lachnospiraceae bacterium
           6_1_63FAA]
          Length = 456

 Score =  177 bits (449), Expect = 3e-42,   Method: Composition-based stats.
 Identities = 97/433 (22%), Positives = 180/433 (41%), Gaps = 23/433 (5%)

Query: 5   KAYPQYKDSGVQWIGAI--PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGK 62
           K Y +YK+SG+ W   I  P  W  V  K   + N    +++ +    + L  ++     
Sbjct: 3   KGYEKYKESGIPW--EICEPTTWDCVRGKALFE-NPKYINKNNEYKNVLSLT-LKGVIRN 58

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGKL---GPYLRKAIIADFDGICSTQFL--VLQPK 117
            +            T  +F K  +++  +        +  I    GI S  ++  VL+ K
Sbjct: 59  NIENPNGLVPRSYDTYQLFEKDDLVFKLIDLENISTSRVGIVGEQGIMSPAYIRLVLRKK 118

Query: 118 DVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
           +        +       ++I              + +    + +PP  EQ  I + +  +
Sbjct: 119 EKQNIKYYYYQYFSLYQRQIFNSLGAGVRQTLSARELLEQKIMVPPKPEQDKIVQFLEWK 178

Query: 178 TVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPF 237
           T  I+  I ++ + I+LL+E K   ++ +VTKGL  +VK K S +EW+G +P+HW+V   
Sbjct: 179 TSEINRFIHQKKKQIKLLEELKLTRINNLVTKGLTHNVKYKQSNVEWLGEIPEHWDVDYI 238

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID 297
                   ++       ++LS++   I +K  + N G   +SY  YQ V  G+     +D
Sbjct: 239 KQHFKVK-KRIAGKEGYDVLSITQQGIKKKDISSNEGQMAQSYANYQFVYSGDFAMNHMD 297

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL---CKVFYAMGSGL- 353
           L      +      + G+ +  Y        +  +  + +R + +    K+FY  G G  
Sbjct: 298 LLTGYIDISK----QFGVTSPDYRVFNLSDSEHCFAPFYLRVFQIGYKRKIFYKFGKGAA 353

Query: 354 ---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
              R  L         + VPPI EQ +I    +    +I+ ++  I + I L++E R+  
Sbjct: 354 NQGRWRLPITAFYDYAIQVPPIDEQREIARQCDEVEKQINEMISGINKEITLVEELRTKL 413

Query: 411 IAAAVTGQIDLRG 423
           I+  VTGQ+D+  
Sbjct: 414 ISDVVTGQVDVSD 426



 Score = 98.7 bits (244), Expect = 2e-18,   Method: Composition-based stats.
 Identities = 63/209 (30%), Positives = 104/209 (49%), Gaps = 4/209 (1%)

Query: 211 LNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLET 270
           L    K K+SGI W    P  W+     AL       N      N+LSL+   +I+    
Sbjct: 2   LKGYEKYKESGIPWEICEPTTWDCVRGKALFENPKYINKNNEYKNVLSLTLKGVIRNNIE 61

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA---VKPHG 327
              GL P SY+TYQ+ +  ++VF+ IDL+N   S R   V E+GI++ AY+     K   
Sbjct: 62  NPNGLVPRSYDTYQLFEKDDLVFKLIDLENISTS-RVGIVGEQGIMSPAYIRLVLRKKEK 120

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
            +  Y  +   S    ++F ++G+G+RQ+L   ++    ++VPP  EQ  I   +  +T+
Sbjct: 121 QNIKYYYYQYFSLYQRQIFNSLGAGVRQTLSARELLEQKIMVPPKPEQDKIVQFLEWKTS 180

Query: 388 RIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
            I+  + + ++ I LL+E + + I   VT
Sbjct: 181 EINRFIHQKKKQIKLLEELKLTRINNLVT 209


>gi|111026979|ref|YP_708957.1| type I restriction-modification system specificity subunit
           [Rhodococcus jostii RHA1]
 gi|110825518|gb|ABH00799.1| type I restriction-modification system specificity subunit
           [Rhodococcus jostii RHA1]
          Length = 391

 Score =  176 bits (446), Expect = 5e-42,   Method: Composition-based stats.
 Identities = 88/415 (21%), Positives = 156/415 (37%), Gaps = 36/415 (8%)

Query: 16  QWIGAI-PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
            W+  I P  W V  ++R      G   +            VE   G Y P  G+  +  
Sbjct: 5   PWLPEILPSGWVVAQMRRIATFRNGADYKE-----------VEVTEGGY-PVYGSGGEFR 52

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
            ++  ++    +L+G+ G   +  +++       T F      ++ P  L  +  ++   
Sbjct: 53  RASQYLYDGESVLFGRKGTIDKPLLVSGRFWTVDTMFFTELTSNIEPRYLHYYATTMPF- 111

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
              +       +       +G   +P+PP+ EQ  I + +  ET RIDTLI E+ R IEL
Sbjct: 112 ---DYYSTSTALPSMTQGELGGHRIPLPPITEQGAIADFLDRETARIDTLIREQRRLIEL 168

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
           L+E++ A+    V             G+ W    P                 K+ +    
Sbjct: 169 LRERRIAVAEGPVV------------GLSW--STPLRSVTALIQTGPFGSQLKSDEYETG 214

Query: 255 NILSLSYGNIIQKLETRNMGL----KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
               ++  +++      +  +       S      +  G+++            +R+   
Sbjct: 215 GTPVINPSHLVMGRIEPDERVAVSASKASELGRHALRAGDVIAARRGELGRCAVVRAENT 274

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY-AMGSGLRQSLKFEDVKRLPVLV 369
                  SA + ++    D  +LA +  S         A       +L  + +  L + +
Sbjct: 275 GFLCGTGSALIRLRETVADPEFLALVFSSRRNRDSLSLASVGATMDNLNADIIATLRIPM 334

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGE 424
           PP+ EQ  I   +   T +ID L+ + E  I L KERRS+ I AAVTGQID+R E
Sbjct: 335 PPLPEQRRIVESVAEATTKIDTLITETESFIDLAKERRSALITAAVTGQIDVRDE 389


>gi|126666657|ref|ZP_01737635.1| type I restriction-modification system, S subunit [Marinobacter sp.
           ELB17]
 gi|126629045|gb|EAZ99664.1| type I restriction-modification system, S subunit [Marinobacter sp.
           ELB17]
          Length = 429

 Score =  176 bits (446), Expect = 5e-42,   Method: Composition-based stats.
 Identities = 101/422 (23%), Positives = 177/422 (41%), Gaps = 21/422 (4%)

Query: 21  IPKHWKVVPIKRFTKLNTGR------TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           +P HW    +  +  +  G+       S++ +   Y+   ++               +  
Sbjct: 7   VPSHWIKASVGNYCDVQLGKMLQSDPASQNDESKRYLRAINITKHGLDLSHDFSMWIKPQ 66

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAII-ADFDGICSTQFLVLQP---KDVLPELLQGWLLS 130
                   +G IL  + G   R A+   D +         ++P     +LPE +  W   
Sbjct: 67  EMEKFRLQRGDILVSEGGDAGRTAVFDCDEEFYFQNAINRIRPAGNSTILPEFIYYWFTF 126

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
           + V   +E +C  AT++H   + +   P+ +PPL  Q  I + +  +T RID LI ++  
Sbjct: 127 LKVAGYVEMVCNVATIAHFTAEKVKAAPLALPPLKTQHSIAQFLDEKTARIDGLIEKKCA 186

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN-- 248
            ++ L EK+QAL++  +TKGL+P+  MK SG EW+G +P +WEVK    +   +   +  
Sbjct: 187 LLDRLAEKRQALITRAITKGLDPNAIMKPSGTEWLGHIPANWEVKKLRRVRRYMTSGSRD 246

Query: 249 --TKLIESNILSLSYGNIIQKL------ETRNMGLKPESYETYQIVDPGEIVFRFIDLQN 300
                 +     L   N+  +       ETR + L   +  T   V  G+I+        
Sbjct: 247 WAAYYADEGDRFLRMTNVTGEGIELDLSETRYVNLDGATEGTRTSVREGDILITITAELG 306

Query: 301 DKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKF 359
               +R            A     P   +S +L   + +      F   G  G +Q L F
Sbjct: 307 AVAVIRKEIEGAYINQHLALFRPSPELCESGFLVNFLSTDMARAQFMLSGQGGTKQGLGF 366

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
           E V  + +  PP++EQ  I N  +    + + + + ++ SI  L E RS+ I AAVTGQ+
Sbjct: 367 EQVNNVIIGFPPLREQELIGNFCSEIRRQSESVEQPLKLSIDKLIEYRSAVITAAVTGQL 426

Query: 420 DL 421
           ++
Sbjct: 427 EI 428



 Score = 76.8 bits (187), Expect = 7e-12,   Method: Composition-based stats.
 Identities = 40/214 (18%), Positives = 82/214 (38%), Gaps = 12/214 (5%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSE-----SGKDIIYIGLEDVESGTGKYL 64
            K SG +W+G IP +W+V  ++R  +  T  + +     + +   ++ + +V     +  
Sbjct: 213 MKPSGTEWLGHIPANWEVKKLRRVRRYMTSGSRDWAAYYADEGDRFLRMTNVTGEGIELD 272

Query: 65  PKDGNSRQSDTS---TVSIFAKGQILYGKLGPYLRKAIIADFD--GICSTQFLVLQPKDV 119
             +      D +   T +   +G IL          A+I         +    + +P   
Sbjct: 273 LSETRYVNLDGATEGTRTSVREGDILITITAELGAVAVIRKEIEGAYINQHLALFRPSPE 332

Query: 120 LPELLQ--GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
           L E      +L +     +     +G T     ++ + N+ +  PPL EQ LI       
Sbjct: 333 LCESGFLVNFLSTDMARAQFMLSGQGGTKQGLGFEQVNNVIIGFPPLREQELIGNFCSEI 392

Query: 178 TVRIDTLITERIRFIELLKEKKQALVSYIVTKGL 211
             + +++       I+ L E + A+++  VT  L
Sbjct: 393 RRQSESVEQPLKLSIDKLIEYRSAVITAAVTGQL 426


>gi|322379476|ref|ZP_08053842.1| Restriction modification system DNA specificity domain
           [Helicobacter suis HS1]
 gi|322380457|ref|ZP_08054656.1| type I restriction-modification system specificity subunit
           [Helicobacter suis HS5]
 gi|321147102|gb|EFX41803.1| type I restriction-modification system specificity subunit
           [Helicobacter suis HS5]
 gi|321148083|gb|EFX42617.1| Restriction modification system DNA specificity domain
           [Helicobacter suis HS1]
          Length = 402

 Score =  175 bits (444), Expect = 1e-41,   Method: Composition-based stats.
 Identities = 99/402 (24%), Positives = 174/402 (43%), Gaps = 28/402 (6%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V +     L  G +    K I           TGKY P  G++         +     
Sbjct: 11  KWVRLGEILSLEYGDSLPEYKRI-----------TGKY-PIMGSNGVVGYHNTFLIRSPA 58

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           I+ G+ G   +   I        T + V    +   + +   L ++ +    E +  G  
Sbjct: 59  IIVGRKGSAGKVNYIDQDCYPIDTTYFVQLKTECSLKFIYYVLTNLQL----EHLKTGGG 114

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
           +   + + +  I +P+PPL EQ  I   +  +  +I   I ++ R + LLKE KQAL+S 
Sbjct: 115 VPGLNREHVYQILIPLPPLKEQHAIATFLDHKCAKIVACIAKKTRMLALLKEYKQALISK 174

Query: 206 IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS-LSYGNI 264
           I TKGLNP    K SG+ W+G +P HW + P   +    +  N     + ILS +    +
Sbjct: 175 ITTKGLNPQEHFKPSGVAWLGDIPGHWGLIPLGRIFKIRDEINKDRAITLILSLVKDIGV 234

Query: 265 IQKLETRNMGLKPE-SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
           +   E  N+G K +     YQ+V  G++V   ++       + +      G+++  Y+ +
Sbjct: 235 LPYSEKGNIGNKAKADLSQYQVVRSGDLVLNKMNAVIGSLGVSNYD----GLVSPIYLVL 290

Query: 324 KPHGIDSTYLAWL---MRSYDLCKVFYAMGSGLRQ---SLKFEDVKRLPVLVPPIKEQFD 377
                +   + +      S  L +       G+ +   S+ F   K++ + VPP+KEQ  
Sbjct: 291 FIQNKNLHLMQYYASLFASKALQQSLGQYAYGIMKIRESIDFMSFKQMLLPVPPLKEQHA 350

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
           I   ++   A++D L+ K++  I  LK+ +S+ I+ AV GQI
Sbjct: 351 IAAFLDHRLAKLDTLITKLQTQIQDLKDYKSALISEAVLGQI 392



 Score =  100 bits (249), Expect = 4e-19,   Method: Composition-based stats.
 Identities = 53/207 (25%), Positives = 96/207 (46%), Gaps = 9/207 (4%)

Query: 8   PQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKD 67
             +K SGV W+G IP HW ++P+ R  K+      +    +I   ++D+  G   Y  K 
Sbjct: 184 EHFKPSGVAWLGDIPGHWGLIPLGRIFKIRDEINKDRAITLILSLVKDI--GVLPYSEKG 241

Query: 68  --GNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ 125
             GN  ++D S   +   G ++  K+   +    ++++DG+ S  +LVL  ++    L+Q
Sbjct: 242 NIGNKAKADLSQYQVVRSGDLVLNKMNAVIGSLGVSNYDGLVSPIYLVLFIQNKNLHLMQ 301

Query: 126 GWLLSIDVTQRIEAICE-----GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
            +          +++ +            D+     + +P+PPL EQ  I   +     +
Sbjct: 302 YYASLFASKALQQSLGQYAYGIMKIRESIDFMSFKQMLLPVPPLKEQHAIAAFLDHRLAK 361

Query: 181 IDTLITERIRFIELLKEKKQALVSYIV 207
           +DTLIT+    I+ LK+ K AL+S  V
Sbjct: 362 LDTLITKLQTQIQDLKDYKSALISEAV 388



 Score = 90.6 bits (223), Expect = 4e-16,   Method: Composition-based stats.
 Identities = 30/169 (17%), Positives = 64/169 (37%), Gaps = 5/169 (2%)

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
           K   +    ILSL YG+ + + +                     ++     +   K S  
Sbjct: 9   KVKWVRLGEILSLEYGDSLPEYKRITGKYPIMGSNGVVGYHNTFLIRSPAIIVGRKGSAG 68

Query: 307 SAQVMERGI--ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKR 364
               +++    I + Y           ++ +++ +  L  +      G    L  E V +
Sbjct: 69  KVNYIDQDCYPIDTTYFVQLKTECSLKFIYYVLTNLQLEHL---KTGGGVPGLNREHVYQ 125

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           + + +PP+KEQ  I   ++ + A+I   + K  + + LLKE + + I+ 
Sbjct: 126 ILIPLPPLKEQHAIATFLDHKCAKIVACIAKKTRMLALLKEYKQALISK 174


>gi|237756452|ref|ZP_04584989.1| type I restriction-modification system specificity subunit
           [Sulfurihydrogenibium yellowstonense SS-5]
 gi|237691382|gb|EEP60453.1| type I restriction-modification system specificity subunit
           [Sulfurihydrogenibium yellowstonense SS-5]
          Length = 428

 Score =  175 bits (444), Expect = 1e-41,   Method: Composition-based stats.
 Identities = 69/434 (15%), Positives = 158/434 (36%), Gaps = 33/434 (7%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKD------IIYIGLEDVESGTGKY 63
           +K++    IG IP+ W+V  +    ++  G+   + ++        ++   +V       
Sbjct: 7   FKETE---IGLIPEDWEVARLGEVFEVKQGKQLSAKENRDGKVLKPFLRTSNVLWNKIDL 63

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQ---PKDVL 120
                              KG IL  + G   R A+        S Q  + +    KD +
Sbjct: 64  SELSYMPFSESEFKNLKLKKGDILVCEGGDVGRTAVWDGQIDEISYQNHLHRLRSVKDSI 123

Query: 121 PELLQGWLLSIDV--TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
                 + +   +             T+ +     +   P+P+PPL EQ  I + +    
Sbjct: 124 NNYFFAYWMEYAITIKNLYHQNANKTTIPNLSSSRLKAFPIPLPPLEEQKAIADIL---- 179

Query: 179 VRIDTLITERIRFIELLKEKKQALVSYIVTKG---LNPDVKMKDSGIEWVGLVPDHWEVK 235
             +   I +  + I   K+ K++++ ++ T G   ++   K+K    E +GL P+HWEV 
Sbjct: 180 STVQNAIEKTEKVINATKQLKKSMMKHLFTYGAVAVDEIDKVKLKESE-IGLTPEHWEVV 238

Query: 236 PFFALVTELN------RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG 289
               +V ++       R   +    +I  +   ++ +         +  + E  +  +  
Sbjct: 239 RLGEVVEKMKAGGTPKRSEKRFWGGSIPFILIEDLTKNNLYIEDAREYITEEGLENSNAW 298

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG-IDSTYLAWLMRSYDLCKVFYA 348
            +    + L       ++A  +       A + + P     +      +  +   ++   
Sbjct: 299 IVPENSLLLSMYATIGKTAVNLIPVATNQAILGIIPKRDRLNVEFGAYLLKFHSKRLLSQ 358

Query: 349 MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
                ++++    V+   + +PP+ EQ  I N++      ID  ++  E+  V L+    
Sbjct: 359 NIQTTQRNVNKGIVENFLIPLPPLDEQQKIANILTT----IDQKIQAEEKKKVALRSLFK 414

Query: 409 SFIAAAVTGQIDLR 422
           + +   +TG+I +R
Sbjct: 415 TLLHQLMTGKIRVR 428


>gi|284052081|ref|ZP_06382291.1| restriction modification system DNA specificity subunit
           [Arthrospira platensis str. Paraca]
 gi|78773866|gb|ABB51216.1| type I RM system S subunit [Arthrospira platensis]
          Length = 392

 Score =  175 bits (444), Expect = 1e-41,   Method: Composition-based stats.
 Identities = 95/405 (23%), Positives = 166/405 (40%), Gaps = 22/405 (5%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W    +K       G      ++           G  K    +G       +        
Sbjct: 3   WLQAKLKYVAHFAYGDALPKDQE---------REGDFKVFGSNGAYDNYGRANTQ---AP 50

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            I+ G+ G Y +            T F +             +LL       ++   + A
Sbjct: 51  VIIVGRKGSYGKVNWSDHPCFASDTTFFIDATTTHHHLRWLFYLLQTL---NLDQGTDEA 107

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
            +            + IPPL EQ  I   +  ET +ID LI  + R + LL EK++AL++
Sbjct: 108 AVPGLSRDDAYAKKVFIPPLGEQKAIAHYLDIETAKIDQLIKAKKRLLALLDEKRRALIT 167

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI--ESNILSLSYG 262
           + VT+GLNPDV M+DSG+EW+G +P HWE+ P   ++  ++   ++ +  E NI  L  G
Sbjct: 168 HAVTRGLNPDVPMRDSGVEWIGEIPKHWEILPLRRILQTMDYGISESVGSEGNIAVLRMG 227

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDL---QNDKRSLRSAQVMERGIITSA 319
           ++ +   + +     +  +   I+   +++F   +           R+  +      +  
Sbjct: 228 DVDEGEISYDNVGFVDDVDHDLILKANDLLFNRTNSLDKIGKVAIFRNNFLFPVSFASYL 287

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQFD 377
                   +   YL +L+ S  +     +    +  + +L       + + +PPI+EQ +
Sbjct: 288 VRMRCNDSVIPEYLNYLLNSLPVLTWAKSNALPAIGQVNLNPNRYSYIKIPIPPIEEQLN 347

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
           IT  I   T +I  L    E++I LL+ERR+S I AAVTGQI + 
Sbjct: 348 ITEYIQTNTKKIKKLCLSSEETIKLLQERRTSLITAAVTGQIKIT 392



 Score = 86.4 bits (212), Expect = 7e-15,   Method: Composition-based stats.
 Identities = 53/213 (24%), Positives = 89/213 (41%), Gaps = 14/213 (6%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFT---KLNTGRTSESGKDIIYIGLEDVESGTGKYLPK 66
            +DSGV+WIG IPKHW+++P++R           +  S  +I  + + DV+ G   Y   
Sbjct: 180 MRDSGVEWIGEIPKHWEILPLRRILQTMDYGISESVGSEGNIAVLRMGDVDEGEISYDNV 239

Query: 67  DGNSRQSDTSTVSIFAKGQILYGKLGP---YLRKAIIADFD----GICSTQFLVLQPKDV 119
                  D     I     +L+ +        + AI  +         S    +     V
Sbjct: 240 GFV---DDVDHDLILKANDLLFNRTNSLDKIGKVAIFRNNFLFPVSFASYLVRMRCNDSV 296

Query: 120 LPELLQGWLLSIDVTQRIEAIC-EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
           +PE L   L S+ V    ++         + +      I +PIPP+ EQ+ I E I   T
Sbjct: 297 IPEYLNYLLNSLPVLTWAKSNALPAIGQVNLNPNRYSYIKIPIPPIEEQLNITEYIQTNT 356

Query: 179 VRIDTLITERIRFIELLKEKKQALVSYIVTKGL 211
            +I  L       I+LL+E++ +L++  VT  +
Sbjct: 357 KKIKKLCLSSEETIKLLQERRTSLITAAVTGQI 389


>gi|225868036|ref|YP_002743984.1| type I restriction modification DNA specificity protein
           [Streptococcus equi subsp. zooepidemicus]
 gi|225701312|emb|CAW98328.1| type I restriction modification DNA specificity protein
           [Streptococcus equi subsp. zooepidemicus]
          Length = 415

 Score =  175 bits (444), Expect = 1e-41,   Method: Composition-based stats.
 Identities = 101/418 (24%), Positives = 178/418 (42%), Gaps = 15/418 (3%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGR-TSESGKDIIYIGLEDVESGTGKYLPKD 67
           + KDSG+ WIG +P +W+VVPIK F           +G++++ + +  V     + L   
Sbjct: 3   KMKDSGIDWIGEVPYNWRVVPIKSFLSKKKEILEKWTGENVLSLTMNGVV---IRNLENP 59

Query: 68  GNSRQSDTSTVSIFAKGQILYG--KLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ 125
                +         KG ++     +    R   IA  DG+ S  +   +  +   +   
Sbjct: 60  SGKMPTTFDGYQKIDKGSLILCLFDIDVTPRCVGIAYNDGVTSPAYSQYRIINGNLKFYY 119

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
             LL +D  + +         S    +  G + + IPPL+EQ  I + +  +   ID ++
Sbjct: 120 YLLLMMDNDKILLPYSR-TLRSTLTDEYFGAVKVVIPPLSEQEKIAQFLDKKIALIDDIV 178

Query: 186 TERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN 245
           T+    IE LK  KQ+L++ IVTKGL+P VK+  SGIEWVG VP+ WEV     +    N
Sbjct: 179 TDTKTSIEELKAYKQSLITEIVTKGLDPTVKLVSSGIEWVGNVPEGWEVVKIKNISQLRN 238

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
            K+        L+L      +      +      Y   Q+V   ++VF  +     K ++
Sbjct: 239 EKDIYETGQKFLALEKMLSYRPGYIDLLTEVEGGY--QQVVKIDDVVFSKLRPYLAKVAI 296

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKR 364
              +    G  T   +      I+     + + S  + +   +   G+    +  + +  
Sbjct: 297 SDFE----GFGTGELLVFHNIKINRKLFMYKLISEQILQPVRSSSYGVKMPRVNPDFIMN 352

Query: 365 LPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           L +  P  + EQ  I + ++ +TA+ID L+ + E  I   +  + S I   VTG+  +
Sbjct: 353 LLISFPKSLYEQHIIADHLDQKTAQIDTLIVEKENLIREYETYKKSMIYEYVTGKKQV 410



 Score =  114 bits (285), Expect = 3e-23,   Method: Composition-based stats.
 Identities = 56/203 (27%), Positives = 95/203 (46%), Gaps = 2/203 (0%)

Query: 214 DVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNM 273
             KMKDSGI+W+G VP +W V P  + +++      K    N+LSL+   ++ +      
Sbjct: 1   MRKMKDSGIDWIGEVPYNWRVVPIKSFLSKKKEILEKWTGENVLSLTMNGVVIRNLENPS 60

Query: 274 GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL 333
           G  P +++ YQ +D G ++    D+    R +  A     G+ + AY   +    +  + 
Sbjct: 61  GKMPTTFDGYQKIDKGSLILCLFDIDVTPRCVGIA--YNDGVTSPAYSQYRIINGNLKFY 118

Query: 334 AWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
            +L+   D  K+       LR +L  E    + V++PP+ EQ  I   ++ + A ID +V
Sbjct: 119 YYLLLMMDNDKILLPYSRTLRSTLTDEYFGAVKVVIPPLSEQEKIAQFLDKKIALIDDIV 178

Query: 394 EKIEQSIVLLKERRSSFIAAAVT 416
              + SI  LK  + S I   VT
Sbjct: 179 TDTKTSIEELKAYKQSLITEIVT 201


>gi|150017995|ref|YP_001310249.1| restriction modification system DNA specificity subunit
           [Clostridium beijerinckii NCIMB 8052]
 gi|149904460|gb|ABR35293.1| restriction modification system DNA specificity domain [Clostridium
           beijerinckii NCIMB 8052]
          Length = 469

 Score =  174 bits (442), Expect = 2e-41,   Method: Composition-based stats.
 Identities = 101/468 (21%), Positives = 180/468 (38%), Gaps = 44/468 (9%)

Query: 1   MK-HYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTK-----LNTGRTSESGKDIIYIGLE 54
           MK  Y++  + KDSGV+WIG IP+ W+V  IK            G    + K   +I   
Sbjct: 1   MKFRYRSEEEMKDSGVKWIGKIPRDWEVSKIKYIKSPDKNSFVDGPFGSNLKSEHFIENG 60

Query: 55  DVESGTGKY---------LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAII---AD 102
           +V      +           K  ++   +T   S   +  I+  K+G     + I    D
Sbjct: 61  EVYVIESNFATQGILKLDSLKKISTEHFETIKRSEVKENDIVIAKIGAQFGLSNILPRID 120

Query: 103 FDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI--EAICEGATMSHADWKGIGNIPMP 160
              + S   L L                + +      + I             + NI + 
Sbjct: 121 KKAVVSGNSLKLSVDKQKSNTQYIHYQLLHIKNNGTLDLIVSTTAQPAISLGDMNNINIV 180

Query: 161 IPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLN-------- 212
           +P +  Q  I + +  +T ++D++I+++   I++L+E K++L+S  VT  +         
Sbjct: 181 LPNVQRQDKIVKFLNEKTAQVDSIISKKEALIQILEEAKKSLISDAVTGKVKVVKTSDGY 240

Query: 213 -----PDVKMKDSGIEWVGLVPDHWEVKPFFA--LVTELNRKNTKLIESNILSLSYGNII 265
                   +MKDSG++W+G VP  W+VK       +     K+          +SYG++ 
Sbjct: 241 ELVERKKEEMKDSGVKWLGDVPKEWDVKRLRFLGNLQNGISKSGDEFGFGYPFVSYGDVY 300

Query: 266 QKLETRN--MGLKPESYETYQI--VDPGEIVFRFIDLQNDKRSLRSA--QVMERGIITSA 319
           + +       GL   S    +I  V  G++ F       D+    S     +        
Sbjct: 301 KNISIPKFVNGLVNSSLNDRRIYSVLEGDVFFTRTSETVDEIGFASTCLNTITDATFAGF 360

Query: 320 YMAVKP--HGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPPIKEQF 376
            +  +P    +   +  +  R     K F    +   R SL    +  L V +P  KEQ 
Sbjct: 361 LIRFRPFKDKLYKGFSKYYFRCDLNRKFFVKEMNLVTRASLSQNLLNNLAVALPLYKEQQ 420

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGE 424
           +I + +  +   I+  + K+   I  LKE + + I+ AVTG+I +  E
Sbjct: 421 EIYSALEFKVGGIECSINKLRCQIQKLKEAKQALISEAVTGKIKILDE 468


>gi|327184406|gb|AEA32851.1| type i site-specific restriction-modification system, s subunit
           [Lactobacillus amylovorus GRL 1118]
          Length = 425

 Score =  174 bits (440), Expect = 3e-41,   Method: Composition-based stats.
 Identities = 86/422 (20%), Positives = 174/422 (41%), Gaps = 14/422 (3%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNS 70
           KDS ++W+G IP +WKV P+           +  GK+   + L   +    K +   G  
Sbjct: 7   KDSNIEWLGKIPSNWKVKPL-YLFFFERKNKNNKGKEKNLLSLSYGKIIQ-KDINSTGGL 64

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKA----IIADFDGICSTQFLVLQPKDVLPELLQG 126
                +T ++   G I+         K       +   GI ++ ++ L P          
Sbjct: 65  LPQSYNTYNVIEAGDIIIRPTDLQNDKHSLRTAFSKEHGIITSAYIDLAPLKDTNSEYFH 124

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           ++L     +++            ++     + +PIP   EQ  I   +  +  +ID L  
Sbjct: 125 YVLHAYDIEKVFYNMGNGVRQGLNYSEFSKLKLPIPSSEEQKEIVNFLNNQVSQIDKLSK 184

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
           +  + I  L+E ++++++  VTKGLNP+V MKDSGI W+G +P +W++     L   L++
Sbjct: 185 KIQQEIIDLEEYRKSIITKAVTKGLNPNVPMKDSGIPWIGKIPQNWKIIKGKYLFRLLSK 244

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
              K  +           ++           +    YQ +D G++V   +D       + 
Sbjct: 245 PVKKDDQVITCFRDGQVTLRVKRRTTGFTMSDQEIGYQGIDKGDLVVHGMDGFAGAIGIS 304

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS---LKFEDVK 363
            ++     ++      V     D  Y+ + +R+     VF A+  G+R      ++  + 
Sbjct: 305 DSRGKGSPVLN-----VLDSNQDKKYMMYCLRATAQLGVFQALAKGIRVRSADTRWPTLA 359

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
            L   +PP  EQ ++ N ++  + +++ +++  +  +  L + + S I   VTG+  +  
Sbjct: 360 NLKYAIPPQSEQANVVNYLSNNSYKLNAIIQAKKDLVEKLNQYKQSIIYEYVTGKKQVPT 419

Query: 424 ES 425
           E 
Sbjct: 420 EE 421



 Score =  144 bits (363), Expect = 3e-32,   Method: Composition-based stats.
 Identities = 93/201 (46%), Positives = 132/201 (65%), Gaps = 1/201 (0%)

Query: 217 MKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK 276
           +KDS IEW+G +P +W+VKP +    E   KN K  E N+LSLSYG IIQK      GL 
Sbjct: 6   LKDSNIEWLGKIPSNWKVKPLYLFFFERKNKNNKGKEKNLLSLSYGKIIQKDINSTGGLL 65

Query: 277 PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP-HGIDSTYLAW 335
           P+SY TY +++ G+I+ R  DLQNDK SLR+A   E GIITSAY+ + P    +S Y  +
Sbjct: 66  PQSYNTYNVIEAGDIIIRPTDLQNDKHSLRTAFSKEHGIITSAYIDLAPLKDTNSEYFHY 125

Query: 336 LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
           ++ +YD+ KVFY MG+G+RQ L + +  +L + +P  +EQ +I N +N + ++ID L +K
Sbjct: 126 VLHAYDIEKVFYNMGNGVRQGLNYSEFSKLKLPIPSSEEQKEIVNFLNNQVSQIDKLSKK 185

Query: 396 IEQSIVLLKERRSSFIAAAVT 416
           I+Q I+ L+E R S I  AVT
Sbjct: 186 IQQEIIDLEEYRKSIITKAVT 206



 Score = 73.7 bits (179), Expect = 6e-11,   Method: Composition-based stats.
 Identities = 38/199 (19%), Positives = 73/199 (36%), Gaps = 3/199 (1%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGN 69
            KDSG+ WIG IP++WK++  K   +L +        D +     D +          G 
Sbjct: 215 MKDSGIPWIGKIPQNWKIIKGKYLFRLLSK--PVKKDDQVITCFRDGQVTLRVKRRTTGF 272

Query: 70  SRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
           +            KG ++   +  +     I+D  G  S    VL        ++     
Sbjct: 273 TMSDQEIGYQGIDKGDLVVHGMDGFAGAIGISDSRGKGSPVLNVLDSNQDKKYMMYCLRA 332

Query: 130 SIDVTQRIEAICEGATMS-HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
           +  +             S    W  + N+   IPP +EQ  +   +   + +++ +I  +
Sbjct: 333 TAQLGVFQALAKGIRVRSADTRWPTLANLKYAIPPQSEQANVVNYLSNNSYKLNAIIQAK 392

Query: 189 IRFIELLKEKKQALVSYIV 207
              +E L + KQ+++   V
Sbjct: 393 KDLVEKLNQYKQSIIYEYV 411


>gi|260552461|ref|ZP_05825837.1| type I restriction-modification system specificity determinant
           [Acinetobacter sp. RUH2624]
 gi|260405268|gb|EEW98764.1| type I restriction-modification system specificity determinant
           [Acinetobacter sp. RUH2624]
          Length = 461

 Score =  174 bits (440), Expect = 3e-41,   Method: Composition-based stats.
 Identities = 101/448 (22%), Positives = 177/448 (39%), Gaps = 34/448 (7%)

Query: 7   YPQYKDSGVQWIGAIPKHWKVVPIKRFT-----KLNTGRTSES-------GKDIIYIGLE 54
           Y ++K S   +   +P HW+   +   +         G             + I  I L 
Sbjct: 4   YSEFKYSDY-FKTELPSHWQEKRLGFLSMQTKNAFVDGPFGSDLKSDDYLDEGIPLIQLN 62

Query: 55  DVESGTGKYLPKDGNSRQSDTS-TVSIFAKGQILYGKLGPYLRKAI-----IADFDGICS 108
           ++  G          S+         +     I+  K+   + +A        ++  +  
Sbjct: 63  NIRDGKHILRNMKFISQNKKIDLIRHLALPQDIVIAKMAEPVARAAVVSDEYDEYVIVAD 122

Query: 109 TQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQV 168
              L    + V    L   + S  V +  E +  G T    +   +  + +P P L+EQV
Sbjct: 123 CVKLSPDLELVDLNFLIWAINSDCVRENAELVSTGTTRIRINLGELKKLKVPYPSLSEQV 182

Query: 169 LIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLV 228
            IR+ +  ET +IDTLI ++   I LLKEK+QA++S+ VTKGLNP+V MKDSG+EW+G V
Sbjct: 183 KIRQYLDHETAKIDTLIAKQEELIALLKEKRQAVISHAVTKGLNPNVPMKDSGVEWLGEV 242

Query: 229 PDHWEVKPFFALVTELNRKNTK-----------LIESNILSLSYGNIIQKLETRNMGLKP 277
           P+HW V  F  +   +   + +                 ++    +    L +    L  
Sbjct: 243 PEHWTVSKFGYISQVVRGGSPRPAGDPALFNGDYSPWVTVAEITKDDELYLTSTETFLTK 302

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
           +  E  ++   G ++            + S             +  +   ID  Y  + +
Sbjct: 303 KGSEQCRVFQSGTLLLSNSGATLGVPKILSI----NANANDGVVGFEDLKIDIEYAYFYL 358

Query: 338 RSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
                           + +L  + VK +P+ +PP  E   I   I  +      L+   E
Sbjct: 359 SILTNDLRERVKQGSGQPNLNTDIVKAIPIAIPPENEIKKIVVDIKKKIDHFSKLMGSAE 418

Query: 398 QSIVLLKERRSSFIAAAVTGQIDLRGES 425
           ++I L++ERR++ I+A VTG+ID+R   
Sbjct: 419 KAIQLMQERRTALISAVVTGKIDVRNWQ 446


>gi|296328649|ref|ZP_06871166.1| type I restriction-modification system specificity subunit
           [Fusobacterium nucleatum subsp. nucleatum ATCC 23726]
 gi|296154248|gb|EFG95049.1| type I restriction-modification system specificity subunit
           [Fusobacterium nucleatum subsp. nucleatum ATCC 23726]
          Length = 455

 Score =  173 bits (438), Expect = 5e-41,   Method: Composition-based stats.
 Identities = 73/440 (16%), Positives = 140/440 (31%), Gaps = 39/440 (8%)

Query: 7   YPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGR-TSESGKDIIYIGLEDVESGTGKYLP 65
           Y  YK++ + W+G IP HW+   I +   +   + +    K+++ +      S   +   
Sbjct: 4   YDSYKETDIPWLGEIPSHWETKKIGKIFDIRKEKNSPVKTKEVLSLSSMYGVSLYSERKE 63

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ 125
           K GN  + +    ++   G IL   +        I+++ G  S  +  LQ          
Sbjct: 64  KGGNKPKENLEAYNLCYPGDILVNSMNIVAGSVGISNYFGAISPVYYSLQNLSEKKYSKY 123

Query: 126 GWLLSIDVTQRIEAICE---------------GATMSHADWKGIGNIPMPIPPLAEQVLI 170
                        ++                         W  + +   P PP+ EQ+ I
Sbjct: 124 YLEYLFRNYNFQRSLVGLGKGIQMSETEDGRLFTVRMRISWDTLKSQEFPTPPIEEQIQI 183

Query: 171 REKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPD 230
              +  +   ID LI      I+ L+  KQ  +                  I       +
Sbjct: 184 ANYLDWKINEIDRLILIEKEQIKELENLKQKYIDE----------------IYQNIKTKN 227

Query: 231 HWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI----V 286
              +                L +S+  ++ YG+I  K          +  E        +
Sbjct: 228 FISLSKIGTFFKGGGFSRENLSDSDYGAILYGDIYTKYNYFFEECISKIDENAYFNSKCI 287

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGII--TSAYMAVKPHGIDSTYLAWLMRSYDLCK 344
           D   ++F       +      A V  + I                  ++A+   + ++  
Sbjct: 288 DGNVVLFTGSGETKEDIGKNVAYVGTKKIALGGDIIALKPNKNFSPKFIAYFSNTSNIKA 347

Query: 345 VFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
             +   +G +   +    +K + +    I+EQ DI   I+     +  L+  IE  I   
Sbjct: 348 FKHMKSTGDIIVHITLGAIKSIKIPFISIEEQKDIVKKIDEYILNLKNLIALIEDKIKYF 407

Query: 404 KERRSSFIAAAVTGQIDLRG 423
              + S IA  VTG+ID+R 
Sbjct: 408 LSLKQSLIAEVVTGKIDVRN 427



 Score = 91.4 bits (225), Expect = 3e-16,   Method: Composition-based stats.
 Identities = 46/217 (21%), Positives = 89/217 (41%), Gaps = 23/217 (10%)

Query: 211 LNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLET 270
           +N     K++ I W+G +P HWE K    +      KN+ +    +LSLS    +     
Sbjct: 1   MNNYDSYKETDIPWLGEIPSHWETKKIGKIFDIRKEKNSPVKTKEVLSLSSMYGVSLYSE 60

Query: 271 RNM---GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP-- 325
           R         E+ E Y +  PG+I+   +++      + +      G I+  Y +++   
Sbjct: 61  RKEKGGNKPKENLEAYNLCYPGDILVNSMNIVAGSVGISNY----FGAISPVYYSLQNLS 116

Query: 326 -HGIDSTYLAWLMRSYDLCKVFYAMGSGLR-------------QSLKFEDVKRLPVLVPP 371
                  YL +L R+Y+  +    +G G++               + ++ +K      PP
Sbjct: 117 EKKYSKYYLEYLFRNYNFQRSLVGLGKGIQMSETEDGRLFTVRMRISWDTLKSQEFPTPP 176

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
           I+EQ  I N ++ +   ID L+   ++ I  L+  + 
Sbjct: 177 IEEQIQIANYLDWKINEIDRLILIEKEQIKELENLKQ 213


>gi|259048036|ref|ZP_05738437.1| conserved hypothetical protein [Granulicatella adiacens ATCC 49175]
 gi|259035326|gb|EEW36581.1| conserved hypothetical protein [Granulicatella adiacens ATCC 49175]
          Length = 459

 Score =  172 bits (436), Expect = 8e-41,   Method: Composition-based stats.
 Identities = 77/438 (17%), Positives = 167/438 (38%), Gaps = 29/438 (6%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSE-SGKDIIYIGLEDVESGTGKYL 64
            Y +Y +S + W  +IP+HW V  I +  ++   + S    K+I+ +  +   S      
Sbjct: 3   RYEKYSNSEITWSESIPEHWDVKRIAKVFEIRKEKNSPIKTKEILSLSAKYGVSLYTDKK 62

Query: 65  PKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELL 124
            K GN  + D ++ ++   G IL   +        I+++ G  S  +  L          
Sbjct: 63  EKGGNKPKEDLTSYNLCYPGDILVNCMNIVAGSVGISNYLGAVSPVYYPLVNISQENNNT 122

Query: 125 QGWLLSIDVTQRIEAICE---------------GATMSHADWKGIGNIPMPIPPLAEQVL 169
           +             ++                         W  +    +PIPP+ EQ  
Sbjct: 123 RYMEYVFRNYNFQRSLVGLGKGIQMSETDAGRLNTVRMRISWDILKTQLLPIPPINEQKQ 182

Query: 170 IREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVP 229
           I   +  +   ID LI      I+ +++   +    ++ +  +     K+  ++      
Sbjct: 183 IANYLDWKINEIDRLIEINKEKIKCIRKYIISSHEKLILQNSD----FKEWIVKDNIYNF 238

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG 289
            +   K        +  +N  L +S+I+  S          + +GL  +    YQ V+ G
Sbjct: 239 KNKNFKIRKLKSILVKIENDALPDSDIIICSNSGKSFVRGDKKIGLYSDDINMYQNVNYG 298

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
           +I+   +D  +    +            S  + V     D  Y+ + +R     K++   
Sbjct: 299 QIMIHGMDTWHGAICISKYSGR-----CSRVVHVCETSEDKMYVYYYLRLLAFLKMYKPF 353

Query: 350 GSGLRQSLK----FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
            +G+RQ+      ++ + ++ +++P I++Q  I + +       + ++++I + I +L  
Sbjct: 354 SNGVRQNTSDFRSWDRLGQVNIILPAIEQQHKIADKLTKLINNSEKMIDEIMKEIDMLGN 413

Query: 406 RRSSFIAAAVTGQIDLRG 423
            + S I+  VTG+ID+R 
Sbjct: 414 LKQSLISEVVTGKIDVRN 431


>gi|110681177|ref|YP_684184.1| type I restriction-mod [Roseobacter denitrificans OCh 114]
 gi|109457293|gb|ABG33498.1| type I restriction-mod [Roseobacter denitrificans OCh 114]
          Length = 414

 Score =  172 bits (436), Expect = 1e-40,   Method: Composition-based stats.
 Identities = 94/411 (22%), Positives = 175/411 (42%), Gaps = 20/411 (4%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDG--NSRQSDTSTVSIFA 82
           WK  P     K  +   + +   +       ++ G   Y    G  +          +  
Sbjct: 10  WKEYPFWAVAKPKSVSNASAESLLSV----YLDRGVIPYSEGGGLVHKPAESLEKYQLVE 65

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV----TQRIE 138
            G ++      +     ++ + GI S  + + +    + +      L           + 
Sbjct: 66  PGDLVLNNQQAWRGSLGVSTYRGIVSPAYRIFELNGEVVDTRFSHYLFRSRPYVEKIMLA 125

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
           ++  G       W  +  + + +P ++ Q  I E +  ET RID LI ++ RFI LLKEK
Sbjct: 126 SLSVGDIQRQVKWPLLRVLLLRVPNISTQSKIAEYLDCETARIDGLIEKKTRFIALLKEK 185

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKP----FFALVTELNRKNTKLIES 254
           + A++++ VTKG++  V MK SG +W+  +P HW V P    F             L  +
Sbjct: 186 RIAVITHAVTKGIDAAVVMKPSGEDWLSDIPAHWTVVPPTALFTESKERAREGTQMLSAT 245

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
               +      ++LE R + +     +  + V+ G+ V     +      L  A+ +   
Sbjct: 246 QKYGVIPLAEFERLEQRQVTMALVHLDKRKHVEVGDFVISMRSMDG---GLERARAVGNV 302

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR--QSLKFEDVKRLPVLVPPI 372
             + + +   PH     +  +L++S    +      S +R  Q + F   +++ +   P+
Sbjct: 303 RSSYSVLKCGPHVE-GRFYGYLLKSGLYIQALRLTSSFIRDGQDMNFSHFRKVKLPKLPV 361

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
            EQ  I + I+ +TARID L+ K ++SI LL+E+R++ I AAVTG+ID+R 
Sbjct: 362 AEQAAIADHIDTQTARIDSLITKTDRSIALLREKRAALITAAVTGKIDMRH 412



 Score = 61.3 bits (147), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 48/215 (22%), Positives = 78/215 (36%), Gaps = 13/215 (6%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKY 63
            K SG  W+  IP HW VVP       +  R  E        +    I L + E    + 
Sbjct: 204 MKPSGEDWLSDIPAHWTVVPPTALFTESKERAREGTQMLSATQKYGVIPLAEFE----RL 259

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPEL 123
             +                 G  +             A   G   + + VL+    +   
Sbjct: 260 EQRQVTMALVHLDKRKHVEVGDFVISMRSMDGG-LERARAVGNVRSSYSVLKCGPHVEGR 318

Query: 124 LQGWLLSIDVTQRIEAICEGATM--SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
             G+LL   +  +   +           ++     + +P  P+AEQ  I + I  +T RI
Sbjct: 319 FYGYLLKSGLYIQALRLTSSFIRDGQDMNFSHFRKVKLPKLPVAEQAAIADHIDTQTARI 378

Query: 182 DTLITERIRFIELLKEKKQALVSYIVTKGLNPDVK 216
           D+LIT+  R I LL+EK+ AL++  VT  ++    
Sbjct: 379 DSLITKTDRSIALLREKRAALITAAVTGKIDMRHM 413


>gi|239995433|ref|ZP_04715957.1| restriction endonuclease S subunits-like protein [Alteromonas
           macleodii ATCC 27126]
          Length = 407

 Score =  172 bits (435), Expect = 1e-40,   Method: Composition-based stats.
 Identities = 82/399 (20%), Positives = 167/399 (41%), Gaps = 24/399 (6%)

Query: 45  GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFD 104
             +  ++ + DV +             +  +S        Q+     G   +  I  +  
Sbjct: 1   NGEYAWVRIADVTASNSYLHHTTQKMSKIGSSLSVKLEPNQLFLSIAGTVGKPCI--NKI 58

Query: 105 GICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPL 164
            +C     V  P   +P     ++ + +  Q  + + +  T  + +   +G+I + +P  
Sbjct: 59  KVCIHDGFVYFPDLSIPHKFLYYVFAGE--QAYKGLGKMGTQLNLNTDTVGSIKVALPKD 116

Query: 165 AEQVL-IREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIE 223
             ++  I + +  ET +IDTLI ++ + I+LLKEK+QA++S+ VTKGLNP   MKDSG+E
Sbjct: 117 EIEIQGIIDFLDHETAKIDTLIEKQQQLIKLLKEKRQAVISHAVTKGLNPYAPMKDSGVE 176

Query: 224 WVGLVPDHWEVK-----------PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
           W+G VP+HW                     + +            +    + I       
Sbjct: 177 WLGEVPEHWSPATPIKYLSSLKGRLGWQGLKADEYKDDGPHVVSSAHFNNHEINWGMCPR 236

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP------H 326
           +  +    ++   ++ G+I+         K +     +  +  + S  +  +P       
Sbjct: 237 VSEERYELDSNIQLESGDILLMKDGAAMGKLAYVD-DLPGKACLNSHLLLFRPLLRDDIK 295

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
              + ++ +LM++          G+G     +  + +    +++P  +EQ  I   ++ +
Sbjct: 296 TFHTKFMFYLMQTEHFQGFIRNNGTGATFLGISQQAIGNHRLILPDYEEQLSIAKFLDEQ 355

Query: 386 TARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGE 424
            +++  L  K  Q + LL ERR++ I+AAVTG+ID+R  
Sbjct: 356 VSKLSALENKKNQMMALLFERRAALISAAVTGKIDVRNW 394



 Score = 89.5 bits (220), Expect = 9e-16,   Method: Composition-based stats.
 Identities = 47/225 (20%), Positives = 87/225 (38%), Gaps = 18/225 (8%)

Query: 6   AYPQYKDSGVQWIGAIPKHWK-VVPIKRFTKLNTG------RTSESGKDII-YIGLEDVE 57
            Y   KDSGV+W+G +P+HW    PIK  + L         +  E   D    +      
Sbjct: 166 PYAPMKDSGVEWLGEVPEHWSPATPIKYLSSLKGRLGWQGLKADEYKDDGPHVVSSAHFN 225

Query: 58  SGTGKYLPK-DGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD---FDGICSTQFLV 113
           +    +      +  + +  +      G IL  K G  + K    D        ++  L+
Sbjct: 226 NHEINWGMCPRVSEERYELDSNIQLESGDILLMKDGAAMGKLAYVDDLPGKACLNSHLLL 285

Query: 114 LQP------KDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQ 167
            +P      K    + +   + +      I     GAT      + IGN  + +P   EQ
Sbjct: 286 FRPLLRDDIKTFHTKFMFYLMQTEHFQGFIRNNGTGATFLGISQQAIGNHRLILPDYEEQ 345

Query: 168 VLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLN 212
           + I + +  +  ++  L  ++ + + LL E++ AL+S  VT  ++
Sbjct: 346 LSIAKFLDEQVSKLSALENKKNQMMALLFERRAALISAAVTGKID 390


>gi|261419107|ref|YP_003252789.1| restriction modification system DNA specificity domain protein
           [Geobacillus sp. Y412MC61]
 gi|319765924|ref|YP_004131425.1| restriction modification system DNA specificity domain protein
           [Geobacillus sp. Y412MC52]
 gi|261375564|gb|ACX78307.1| restriction modification system DNA specificity domain protein
           [Geobacillus sp. Y412MC61]
 gi|317110790|gb|ADU93282.1| restriction modification system DNA specificity domain protein
           [Geobacillus sp. Y412MC52]
          Length = 477

 Score =  172 bits (435), Expect = 1e-40,   Method: Composition-based stats.
 Identities = 73/427 (17%), Positives = 133/427 (31%), Gaps = 29/427 (6%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
            +P +W  V      K  +G T         G DI +I   ++  G      +       
Sbjct: 26  EVPGNWVWVRSGHVAKWGSGGTPSRKRLEYYGGDIPWIKTGELNDGIITGSEETITEEGL 85

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
             S+  IF KG I+    G  + +  I   D   +    V QP + L      +      
Sbjct: 86  QKSSAKIFPKGSIVIAMYGATIGRLGILGIDAATNQACAVGQPYEFLDSK-YMFYYFFAR 144

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
              + A+ +G    +     I + P  +PPL EQ  I +KI     +ID          E
Sbjct: 145 RSDLVALGKGGAQPNISQTIIKDFPFALPPLNEQKRIADKIERLFAKIDEAKRLIEEVKE 204

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIE---------------WVGLVPDHWEVKPFF 238
            +++++  ++       L  +   + S +E               W   VP +W      
Sbjct: 205 SIEQRRAVMLEKAFKGQLGTNDPSEKSILETSDDLSEKDVIPKEQWPYEVPGNWTWIKLK 264

Query: 239 ALVTELNRKNTKLIESNILSLSY------GNIIQKLETRNMGLKPESYETYQIVDPGEIV 292
           + +  L    T    +      Y       N     ET       +       ++ G+IV
Sbjct: 265 SCLKRLQYGYTATSSTLTEGPKYLRITDIQNDNVDWETVPYCKIDDKLLEKYKLNKGDIV 324

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
                    K  L           +          ++  YL   ++S    K    +  G
Sbjct: 325 IARTGATTGKSFLIDDMPFCSVFASYLIRLTMNENLNPYYLWNYLKSSMYWKQITIVKKG 384

Query: 353 -LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
             +       +  L V +PP+ EQ  I   ++    +++   + +      L   + S +
Sbjct: 385 IAQPGANARIIGELIVPLPPVPEQKRIAEKLDNLLEKLENEKQLVLAVEEKLDLLKQSVL 444

Query: 412 AAAVTGQ 418
             A  G+
Sbjct: 445 QKAFRGE 451



 Score = 96.8 bits (239), Expect = 5e-18,   Method: Composition-based stats.
 Identities = 33/204 (16%), Positives = 66/204 (32%), Gaps = 12/204 (5%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNT-----KLIESNILSLSYGNIIQKLETRNMGLKP 277
           E    VP +W       +    +         +    +I  +  G +   + T +     
Sbjct: 22  EQPYEVPGNWVWVRSGHVAKWGSGGTPSRKRLEYYGGDIPWIKTGELNDGIITGSEETIT 81

Query: 278 ES---YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
           E      + +I   G IV         +  +    +        A    +P+    +   
Sbjct: 82  EEGLQKSSAKIFPKGSIVIAMYGATIGRLGI----LGIDAATNQACAVGQPYEFLDSKYM 137

Query: 335 WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
           +         +      G + ++    +K  P  +PP+ EQ  I + I    A+ID    
Sbjct: 138 FYYFFARRSDLVALGKGGAQPNISQTIIKDFPFALPPLNEQKRIADKIERLFAKIDEAKR 197

Query: 395 KIEQSIVLLKERRSSFIAAAVTGQ 418
            IE+    +++RR+  +  A  GQ
Sbjct: 198 LIEEVKESIEQRRAVMLEKAFKGQ 221



 Score = 82.5 bits (202), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 41/203 (20%), Positives = 80/203 (39%), Gaps = 8/203 (3%)

Query: 17  WIGAIPKHWKVVPIKRFTK-LNTGRTSESG---KDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           W   +P +W  + +K   K L  G T+ S    +   Y+ + D+++    +         
Sbjct: 250 WPYEVPGNWTWIKLKSCLKRLQYGYTATSSTLTEGPKYLRITDIQNDNVDWETVPYCKID 309

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGIC----STQFLVLQPKDVLPELLQGWL 128
                     KG I+  + G    K+ + D    C    S    +   +++ P  L  +L
Sbjct: 310 DKLLEKYKLNKGDIVIARTGATTGKSFLIDDMPFCSVFASYLIRLTMNENLNPYYLWNYL 369

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
            S    ++I  + +G     A+ + IG + +P+PP+ EQ  I EK+     +++      
Sbjct: 370 KSSMYWKQITIVKKGIAQPGANARIIGELIVPLPPVPEQKRIAEKLDNLLEKLENEKQLV 429

Query: 189 IRFIELLKEKKQALVSYIVTKGL 211
           +   E L   KQ+++       L
Sbjct: 430 LAVEEKLDLLKQSVLQKAFRGEL 452


>gi|148825619|ref|YP_001290372.1| putative type I site-specific restriction-modification system, S
           subunit [Haemophilus influenzae PittEE]
 gi|229845500|ref|ZP_04465629.1| putative type I site-specific restriction-modification system, S
           subunit [Haemophilus influenzae 6P18H1]
 gi|148715779|gb|ABQ97989.1| putative type I site-specific restriction-modification system, S
           subunit [Haemophilus influenzae PittEE]
 gi|229811603|gb|EEP47303.1| putative type I site-specific restriction-modification system, S
           subunit [Haemophilus influenzae 6P18H1]
          Length = 358

 Score =  172 bits (435), Expect = 1e-40,   Method: Composition-based stats.
 Identities = 87/357 (24%), Positives = 155/357 (43%), Gaps = 19/357 (5%)

Query: 83  KGQILYGKLGPYLR----KAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           KG+ L   L         +  +++ D + S  ++VL+ K ++ +    +LL       ++
Sbjct: 3   KGEFLINPLNLNYDLISLRIALSEIDVVVSAGYIVLKEKQIINKKYFSYLLHRYDVAYMK 62

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
            +  G      ++  I +  + IPPL+EQ  I + +  +T +ID  +    + I LLKE 
Sbjct: 63  LLGSGV-RQTINYGHISDSILVIPPLSEQQKIAQFLDDKTAKIDRAVDLAEKQIALLKEH 121

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKP---FFALVTELNRKNTKLIESN 255
           KQ L+   VT+GLNPDV +KDSG+EW+G VP+HW++K     F     L+     L +  
Sbjct: 122 KQILIQNAVTRGLNPDVPLKDSGVEWIGQVPEHWDIKRFRNLFDFGKGLSITKENLQDEG 181

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYE--------TYQIVDPGEIVFRFIDLQNDKRSLRS 307
           I  ++YG +  +     +  +                +++ G+ VF       +     +
Sbjct: 182 IPCVNYGEVHSRYGFEVIPERDALKCVDSKYLVFNNSMLNKGDFVFADTSEDIEGSGNFT 241

Query: 308 AQVMERGIITSAY--MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKR 364
                  I    +  +          Y+A+   S            G+   S+    +K 
Sbjct: 242 YLNSSTRIFAGYHTVITRLKITAIHRYIAYYFDSLSFRNQIRNKVKGVKVFSITQSILKG 301

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
             VL+P +KEQ  I + ++ +TA+ID  +      I  LKE +S  I   VTG++ +
Sbjct: 302 TFVLLPNLKEQQQIADYLDTQTAKIDQAIALKTAHIEKLKEYKSVLINDVVTGKVRV 358



 Score = 91.0 bits (224), Expect = 4e-16,   Method: Composition-based stats.
 Identities = 43/212 (20%), Positives = 83/212 (39%), Gaps = 15/212 (7%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTG-KYLP 65
           KDSGV+WIG +P+HW +   +       G +        + I  +   +V S  G + +P
Sbjct: 141 KDSGVEWIGQVPEHWDIKRFRNLFDFGKGLSITKENLQDEGIPCVNYGEVHSRYGFEVIP 200

Query: 66  KDGNSRQSDTS----TVSIFAKGQILYGKL-----GPYLRKAIIADFDGICSTQFLVLQP 116
           +    +  D+       S+  KG  ++        G      + +          ++ + 
Sbjct: 201 ERDALKCVDSKYLVFNNSMLNKGDFVFADTSEDIEGSGNFTYLNSSTRIFAGYHTVITRL 260

Query: 117 KDV-LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKII 175
           K   +   +  +  S+    +I    +G  +       +    + +P L EQ  I + + 
Sbjct: 261 KITAIHRYIAYYFDSLSFRNQIRNKVKGVKVFSITQSILKGTFVLLPNLKEQQQIADYLD 320

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVSYIV 207
            +T +ID  I  +   IE LKE K  L++ +V
Sbjct: 321 TQTAKIDQAIALKTAHIEKLKEYKSVLINDVV 352


>gi|237756251|ref|ZP_04584811.1| type I restriction enzyme MjaXIP specificity protein
           [Sulfurihydrogenibium yellowstonense SS-5]
 gi|237691588|gb|EEP60636.1| type I restriction enzyme MjaXIP specificity protein
           [Sulfurihydrogenibium yellowstonense SS-5]
          Length = 421

 Score =  170 bits (431), Expect = 3e-40,   Method: Composition-based stats.
 Identities = 73/427 (17%), Positives = 158/427 (37%), Gaps = 33/427 (7%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDG 68
           ++K++    IG IP+ W+V+ +    ++  G++        Y        G  ++     
Sbjct: 11  KFKETE---IGLIPEDWEVMRLGEVAEITMGQSPPGDTYNTYGKGIPFLQGKAEFGNISP 67

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL 128
              +  T  + I  KG +L     P      IA+ D         L  K+ + E    + 
Sbjct: 68  KHIKYTTKPLKIAKKGSVLISVRAPV-GDVNIANMDYCIGRGLASLNLKNGINE--FLFY 124

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
             +     IE    G+     + + +  + +P+PPL EQ  I + +      +     + 
Sbjct: 125 SLLFFKHLIEKESYGSVFKAINKENLARLKIPLPPLEEQKAITDIL----STVQNTTEKT 180

Query: 189 IRFIELLKEKKQALVSYIVTKG---LNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN 245
            + I   K+ K++++ ++ T G   ++   K+K    E +GL+P+ WEV     +V    
Sbjct: 181 EKVINATKQLKKSMMKHLFTYGAVAVDEIDKVKLKESE-IGLIPEDWEVVRLGDIVNFKI 239

Query: 246 RKNT------KLIESNILSLSYGNIIQKLETRNMGLKPE----SYETYQIVDPGEIVFRF 295
            +                 +S  ++          +  E         ++   G ++  F
Sbjct: 240 GRTPPRKNKDYWTNGKYYWVSISDMKNPYINNTSEMVSEKAHKEIFKEKLTPAGTLLMSF 299

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ 355
                    L         II+   +  K + +   +L + + + D   +      G   
Sbjct: 300 KLTIGRTAILNVDAYHNEAIIS---IYPKENKVLKEFLFYYLPAVDYSNLQDKAIKG--N 354

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           +L    + ++P+ +PP+ EQ  I N++      ID  ++  E+    L+    + +   +
Sbjct: 355 TLNTSKLNKIPIPLPPLDEQQKIANILTT----IDQKIQAEEKKKEALQNLFKTLLQQLM 410

Query: 416 TGQIDLR 422
           TG+I ++
Sbjct: 411 TGKIRVK 417


>gi|324991451|gb|EGC23384.1| restriction modification system DNA specificity subunit
           [Streptococcus sanguinis SK353]
          Length = 408

 Score =  170 bits (430), Expect = 4e-40,   Method: Composition-based stats.
 Identities = 83/418 (19%), Positives = 158/418 (37%), Gaps = 19/418 (4%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRT-SESGKDIIYIGLEDVESGTGKYLPKDG 68
            K+SG+ WIG IP+ W+V  +    + +  +      K+++ +    +   +        
Sbjct: 4   MKESGIDWIGQIPEEWEVAKVNHIFEEHKQKNRGNKEKNLLSLSYGRIIRKSID---SSF 60

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRK----AIIADFDGICSTQFLVLQPKDVLPELL 124
                   T +I  +G I+         K      +A  +GI ++ +L L+ K++     
Sbjct: 61  GLLPESFDTYNIIQRGDIVLRLTDLQNDKRSLRVGLARENGIITSAYLTLRLKNLESNDS 120

Query: 125 QGWLLSIDVTQRI-EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
             + L              G       W  I  + + IPP  EQ  I + +  +  ++D 
Sbjct: 121 YMYYLLHTYDICKVFYNFGGGVRQGGTWSDIYKMELLIPPCNEQQKIADYLDKKIAQLDR 180

Query: 184 LITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTE 243
                 + I+ LK+ + +L+   VTKGL+  V MKDSGI+W+G VP+ W V         
Sbjct: 181 AKRLLEKQIQKLKDYRASLIYETVTKGLDKTVPMKDSGIDWIGQVPEGWGVSRLKYFFDI 240

Query: 244 LNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKR 303
               +    E N +     N    + + ++  +     T      G+ V         K 
Sbjct: 241 YAGGDI--DERNTVDEYSENHPYPVISNSLENEGILGYTNNFRFQGDCVTVTGRGDVGKA 298

Query: 304 SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVK 363
             R+ +      +    +      +D  +  + + S  + K            L  + + 
Sbjct: 299 VYRNIKFYP---VVRLLVCTPKIQVDCRFATYWINSAIIEK-----NQTAVSQLTIQMLG 350

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            L     P  EQ  I + ++ +T +ID L++   Q I  + ++R + I   VTG+  +
Sbjct: 351 ELIFTNVPYVEQKKIADFLDKKTVQIDKLIQIKNQQIKNINKQRQTLIYDYVTGKRRV 408



 Score =  136 bits (343), Expect = 6e-30,   Method: Composition-based stats.
 Identities = 86/205 (41%), Positives = 128/205 (62%), Gaps = 2/205 (0%)

Query: 214 DVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNM 273
             +MK+SGI+W+G +P+ WEV     +  E  +KN    E N+LSLSYG II+K    + 
Sbjct: 1   MTRMKESGIDWIGQIPEEWEVAKVNHIFEEHKQKNRGNKEKNLLSLSYGRIIRKSIDSSF 60

Query: 274 GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG--IDST 331
           GL PES++TY I+  G+IV R  DLQNDKRSLR     E GIITSAY+ ++      + +
Sbjct: 61  GLLPESFDTYNIIQRGDIVLRLTDLQNDKRSLRVGLARENGIITSAYLTLRLKNLESNDS 120

Query: 332 YLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
           Y+ +L+ +YD+CKVFY  G G+RQ   + D+ ++ +L+PP  EQ  I + ++ + A++D 
Sbjct: 121 YMYYLLHTYDICKVFYNFGGGVRQGGTWSDIYKMELLIPPCNEQQKIADYLDKKIAQLDR 180

Query: 392 LVEKIEQSIVLLKERRSSFIAAAVT 416
               +E+ I  LK+ R+S I   VT
Sbjct: 181 AKRLLEKQIQKLKDYRASLIYETVT 205


>gi|34762432|ref|ZP_00143432.1| TYPE I RESTRICTION-MODIFICATION SYSTEM SPECIFICITY SUBUNIT
           [Fusobacterium nucleatum subsp. vincentii ATCC 49256]
 gi|27887900|gb|EAA24968.1| TYPE I RESTRICTION-MODIFICATION SYSTEM SPECIFICITY SUBUNIT
           [Fusobacterium nucleatum subsp. vincentii ATCC 49256]
          Length = 447

 Score =  169 bits (429), Expect = 5e-40,   Method: Composition-based stats.
 Identities = 70/426 (16%), Positives = 155/426 (36%), Gaps = 19/426 (4%)

Query: 7   YPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPK 66
           Y  YK + + W+G IP HW++  +KRF  +    + +    ++ +  + V+    + +  
Sbjct: 4   YEAYKKTDIPWLGKIPSHWEIKRVKRFFYIFKDISYKKNPVVLSLARDKVK---IRDIES 60

Query: 67  DGNSRQSDTSTVSIFAKGQILYGKLGPYLR-KAIIADFDGICSTQFLVLQPKDVLPELLQ 125
           +      + +  +   KG +L   +  Y      I+++DG+ S  ++ L+    +     
Sbjct: 61  NKGQLAENYNNYNSVKKGDLLLNPMDLYSGANCNISNYDGVISPAYINLRSNKDISVNFF 120

Query: 126 GWLLSIDVTQRIEAIC----EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
            ++  +  T                     + + N  +PIPP++EQ+ I   +  +   I
Sbjct: 121 DYIFKLQYTSLAFQSVGKGVSKYNRWTLSNETLLNYQLPIPPISEQIQIANYLDWKINEI 180

Query: 182 DTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALV 241
           D LI      I+ L+  KQ  +  +++   +    +K       GL             +
Sbjct: 181 DKLILIEKEQIKELENLKQKYIDKLISSISSEFKPLKSIFEFGKGLS-------ITKENL 233

Query: 242 TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQND 301
            E   +     E +   +   +            +  +   +  +   + +F        
Sbjct: 234 GENGVRCISYGEIHNKFIFSFSSTNPNLKGLEKTEGITISKFAELKKNDFIFADTSEDLK 293

Query: 302 KRSLRSAQVMERGIITSAYMAVKPHG---IDSTYLAWLMRSYDLCKVFYAMGSGL-RQSL 357
                +    +   + + Y  V        +  Y+A+ + S    K       G+   S+
Sbjct: 294 GCGNFTFLEDDVKRVYAGYHTVVAKPILTFNPRYVAYYLESNKWRKQIRMEVKGIKVYSI 353

Query: 358 KFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
               +K   + +P I  Q  ++  I+      + L+  +++ I  L+  + S IA  VTG
Sbjct: 354 TQAILKSSRLQLPEIDIQESVSKKIDAFVQYKNALISIMDEKISNLQALKQSLIAEVVTG 413

Query: 418 QIDLRG 423
           +ID+R 
Sbjct: 414 KIDVRN 419



 Score = 97.9 bits (242), Expect = 3e-18,   Method: Composition-based stats.
 Identities = 46/211 (21%), Positives = 90/211 (42%), Gaps = 9/211 (4%)

Query: 211 LNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLET 270
           +N     K + I W+G +P HWE+K          +  +      +LSL+   +  +   
Sbjct: 1   MNNYEAYKKTDIPWLGKIPSHWEIKRVKRFFYIF-KDISYKKNPVVLSLARDKVKIRDIE 59

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
            N G   E+Y  Y  V  G+++   +DL +             G+I+ AY+ ++ +   S
Sbjct: 60  SNKGQLAENYNNYNSVKKGDLLLNPMDLYS---GANCNISNYDGVISPAYINLRSNKDIS 116

Query: 331 TYLA-WLMRSYDLCKVFYAMGSGL----RQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
                ++ +       F ++G G+    R +L  E +    + +PPI EQ  I N ++ +
Sbjct: 117 VNFFDYIFKLQYTSLAFQSVGKGVSKYNRWTLSNETLLNYQLPIPPISEQIQIANYLDWK 176

Query: 386 TARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
              ID L+   ++ I  L+  +  +I   ++
Sbjct: 177 INEIDKLILIEKEQIKELENLKQKYIDKLIS 207


>gi|237741778|ref|ZP_04572259.1| type I restriction-modification system specificity subunit
           [Fusobacterium sp. 4_1_13]
 gi|256845106|ref|ZP_05550564.1| type I restriction-modification system specificity subunit
           [Fusobacterium sp. 3_1_36A2]
 gi|294785606|ref|ZP_06750894.1| conserved hypothetical protein [Fusobacterium sp. 3_1_27]
 gi|229429426|gb|EEO39638.1| type I restriction-modification system specificity subunit
           [Fusobacterium sp. 4_1_13]
 gi|256718665|gb|EEU32220.1| type I restriction-modification system specificity subunit
           [Fusobacterium sp. 3_1_36A2]
 gi|294487320|gb|EFG34682.1| conserved hypothetical protein [Fusobacterium sp. 3_1_27]
          Length = 447

 Score =  169 bits (428), Expect = 7e-40,   Method: Composition-based stats.
 Identities = 70/426 (16%), Positives = 155/426 (36%), Gaps = 19/426 (4%)

Query: 7   YPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPK 66
           Y  YK + + W+G IP HW++  +KRF  +    + +    ++ +  + V+    + +  
Sbjct: 4   YEAYKKTDIPWLGKIPSHWEIKRVKRFFYIFKDISYKKNPVVLSLARDKVK---IRDIES 60

Query: 67  DGNSRQSDTSTVSIFAKGQILYGKLGPYLR-KAIIADFDGICSTQFLVLQPKDVLPELLQ 125
           +      + +  +   KG +L   +  Y      I+++DG+ S  ++ L+    +     
Sbjct: 61  NKGQLAENYNNYNSVKKGDLLLNPMDLYSGANCNISNYDGVISPAYINLRSNKDISVNFF 120

Query: 126 GWLLSIDVTQRIEAIC----EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
            ++  +  T                     + + N  +PIPP++EQ+ I   +  +   I
Sbjct: 121 DYIFKLQYTSLAFQSVGKGVSKYNRWTLSNETLLNYQLPIPPISEQIQIANYLDWKINEI 180

Query: 182 DTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALV 241
           D LI      I+ L+  KQ  +  +++   +    +K       GL             +
Sbjct: 181 DKLILIEKEQIKELENLKQKYIDKLISSISSEFKPLKSIFEFGKGLS-------ITKENL 233

Query: 242 TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQND 301
            E   +     E +   +   +            +  +   +  +   + +F        
Sbjct: 234 GENGVRCISYGEIHNKFIFSFSSTNLNLKGLEKTEGITISKFAELKKNDFIFADTSEDLK 293

Query: 302 KRSLRSAQVMERGIITSAYMAVKPHG---IDSTYLAWLMRSYDLCKVFYAMGSGL-RQSL 357
                +    +   + + Y  V        +  Y+A+ + S    K       G+   S+
Sbjct: 294 GCGNFTFLEDDVKRVYAGYHTVVAKPILTFNPRYVAYYLESNKWRKQIRMEVKGIKVYSI 353

Query: 358 KFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
               +K   + +P I  Q  ++  I+      + L+  +++ I  L+  + S IA  VTG
Sbjct: 354 TQAILKSSRLQLPEIDIQESVSKKIDAFVQYKNALISIMDEKISNLQALKQSLIAEVVTG 413

Query: 418 QIDLRG 423
           +ID+R 
Sbjct: 414 KIDVRN 419



 Score = 97.9 bits (242), Expect = 3e-18,   Method: Composition-based stats.
 Identities = 46/211 (21%), Positives = 90/211 (42%), Gaps = 9/211 (4%)

Query: 211 LNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLET 270
           +N     K + I W+G +P HWE+K          +  +      +LSL+   +  +   
Sbjct: 1   MNNYEAYKKTDIPWLGKIPSHWEIKRVKRFFYIF-KDISYKKNPVVLSLARDKVKIRDIE 59

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
            N G   E+Y  Y  V  G+++   +DL +             G+I+ AY+ ++ +   S
Sbjct: 60  SNKGQLAENYNNYNSVKKGDLLLNPMDLYS---GANCNISNYDGVISPAYINLRSNKDIS 116

Query: 331 TYLA-WLMRSYDLCKVFYAMGSGL----RQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
                ++ +       F ++G G+    R +L  E +    + +PPI EQ  I N ++ +
Sbjct: 117 VNFFDYIFKLQYTSLAFQSVGKGVSKYNRWTLSNETLLNYQLPIPPISEQIQIANYLDWK 176

Query: 386 TARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
              ID L+   ++ I  L+  +  +I   ++
Sbjct: 177 INEIDKLILIEKEQIKELENLKQKYIDKLIS 207


>gi|310658568|ref|YP_003936289.1| restriction modification system DNA specificity domain [Clostridium
           sticklandii DSM 519]
 gi|308825346|emb|CBH21384.1| Restriction modification system DNA specificity domain [Clostridium
           sticklandii]
          Length = 405

 Score =  169 bits (428), Expect = 7e-40,   Method: Composition-based stats.
 Identities = 99/422 (23%), Positives = 179/422 (42%), Gaps = 29/422 (6%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESG--TGKYLPK 66
           + KDS + W+G   + W +VP+K    + TG+             +DV  G   G+Y   
Sbjct: 3   EMKDSELLWLGEYNETWDLVPLKHLVNITTGK-------------KDVNQGHPDGEYPFF 49

Query: 67  DGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQG 126
             +     +S  S F    +L    G                  +++   K++ P  L+ 
Sbjct: 50  TCSMTPYRSSNYS-FDSEALLVAGNGMVGFTQYYNGKFEAYQRTYVLSDFKEIHPLYLKH 108

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           ++  +      +    G+ +       + +  +  P + +Q  I   +  +   ID ++ 
Sbjct: 109 YITELLPKYLTDKSV-GSVIDFIKLGDLKSFGIVRPSITDQKKISSYLEQKVALIDNILE 167

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
           +  + IE  K+ KQ+L++  VTKGLNPDVKMKD GIEW+G +P+ W+V      + E+++
Sbjct: 168 KTKQSIEEYKKYKQSLITETVTKGLNPDVKMKDIGIEWIGEIPEQWKVLKL-KCIFEISK 226

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
           + +  +  ++LS++   +  K  T N G     Y  YQ V   + V   +DL      L 
Sbjct: 227 RISGELGHSVLSVTQNGLKIKDLTSNEGQLSSDYSKYQYVYKTDFVMNHMDLLTGWVDLS 286

Query: 307 SAQVMERGIITSAYMAVKPHG---IDSTYLAWLMRSYDLCKVFYAMGSGL----RQSLKF 359
                  G+ +  Y   K          Y  ++ +   L ++FY +G G+    R  L+ 
Sbjct: 287 PYD----GVTSPDYRVFKMKDGLKYSKEYYLYIFQVCYLNQIFYGLGQGISNLGRWRLQT 342

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
           +      + VPPI EQ  I   +  +   I+  V+  E  +  L+  + S I   VTG+ 
Sbjct: 343 DKFINFSLPVPPIDEQKKIAKFLQNKLGEIEKFVKTKESLLKELEAYKKSLIYEVVTGKK 402

Query: 420 DL 421
           ++
Sbjct: 403 EI 404


>gi|237755834|ref|ZP_04584432.1| restriction modification system DNA specificity domain protein
           [Sulfurihydrogenibium yellowstonense SS-5]
 gi|237691999|gb|EEP61009.1| restriction modification system DNA specificity domain protein
           [Sulfurihydrogenibium yellowstonense SS-5]
          Length = 424

 Score =  168 bits (426), Expect = 1e-39,   Method: Composition-based stats.
 Identities = 83/433 (19%), Positives = 174/433 (40%), Gaps = 32/433 (7%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGN 69
           +K++    IG IP+ W+VV +    ++  G++        Y        G  ++      
Sbjct: 7   FKETE---IGLIPEDWEVVRLGEVAEITMGQSPPGDTYNTYGKGIPFLQGKAEFGNISPK 63

Query: 70  SRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
             +  T  + I  KG +L     P      IAD D         L  K+ + E    +  
Sbjct: 64  HIKYTTKPLKIAKKGSVLISVRAPV-GDVNIADMDYCIGRGLASLNLKNGINE--FLFYS 120

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
            +     IE    G+  +  + + +  + +P+PPL EQ  I + +      +   I +  
Sbjct: 121 LLFFKHLIEKESYGSVFNAINKENLARLKIPLPPLEEQKAIADIL----STVQNAIEKAE 176

Query: 190 RFIELLKEKKQALVSYIVTKG---LNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
           + I   K+ K++++ ++ T G   ++   K+K    E +GL+P+HWEV     +V     
Sbjct: 177 KVINATKQLKKSMMKHLFTYGAVVVDEIDKVKLKESE-IGLIPEHWEVVRLGEVVDLDRG 235

Query: 247 KNTKLIES--------NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVF--RFI 296
            + +  E          I   +  +      ++      +     + +   +I+F     
Sbjct: 236 ISWRKFEEGNKDNGHLIISIPNIKDGYIDFNSKYNHYLIKHIPKNKQIQLNDILFVGSSG 295

Query: 297 DLQNDKRSLRSAQVMERGIITSAYM---AVKPHGIDSTYLAWLMRSYDL-CKVFYAMGSG 352
            ++N  R++    +   GI  ++++    VK + +   +L ++  SY    K +    S 
Sbjct: 296 SIENVGRNVFIENLPFEGIGFASFVFRARVKVNTVIPKFLYFMANSYWFNYKDYVRRSSD 355

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
            + + +  + K + + +PP+ EQ  I N++      ID  ++  E+  V L+    + + 
Sbjct: 356 GKYNFQLTEFKSIKIPLPPLDEQQKIANILTT----IDQKIQAEEKKKVALRSLFKTLLH 411

Query: 413 AAVTGQIDLRGES 425
             +TG+I +R  S
Sbjct: 412 QLMTGKIRVRHPS 424


>gi|310778850|ref|YP_003967183.1| restriction modification system DNA specificity domain protein
           [Ilyobacter polytropus DSM 2926]
 gi|309748173|gb|ADO82835.1| restriction modification system DNA specificity domain protein
           [Ilyobacter polytropus DSM 2926]
          Length = 433

 Score =  168 bits (426), Expect = 1e-39,   Method: Composition-based stats.
 Identities = 88/435 (20%), Positives = 170/435 (39%), Gaps = 18/435 (4%)

Query: 1   MKHYKAYPQYKDSGVQW---IGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVE 57
           +K  K+Y  YK+  + W   +  IP+ W ++P          +   + ++++ + +    
Sbjct: 2   IKEKKSYLNYKN--IPWYEYVKEIPQDWNILPNIALFDERIKK-KNNNEELLSVTISKGI 58

Query: 58  SGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPK 117
                   K  +    D S   +   G I Y K+  +      + + GI S  ++VL+ K
Sbjct: 59  IKQSDIENKK-DISNEDKSNYKLVKIGDIAYNKMRMWQGSVGYSQYRGIVSPAYIVLKSK 117

Query: 118 DVLPELLQGWLLSIDVTQRIEAICEG---ATMSHADWKGIGNIPMPIPPLAEQVLIREKI 174
             +      +L   +                  +  +     +   +P +  Q  I E +
Sbjct: 118 LKINSKYFHYLYRTEYYSNYARRYSYGLCDDQLNLRYVDFKRMYSIVPHIEIQDKIVEYL 177

Query: 175 IAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEV 234
             +  + +  I ++ + IELLKE+K+ +++ +VTKGLN  VKM+DSG+EW+G VP HWE+
Sbjct: 178 ETKEKQSNKFIEKQQKMIELLKEQKKTIINEVVTKGLNTLVKMQDSGVEWLGKVPKHWEI 237

Query: 235 KPFFALVTELNRKNTKLIESNILS------LSYGNIIQKLETRNMGLKPESYETYQIVDP 288
           K    +   +NR  T                       +   R         E  ++   
Sbjct: 238 KKLKEMSDFVNRGTTPNYTEKSDYKVVNQATFSKGYFDESSIRFHKTYKIEKEKGKLKYK 297

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV--F 346
             ++         K ++ + +       +   +             +     +   +  +
Sbjct: 298 DILLASTGGGVLGKVAIFTEKEGVYLADSHVTIIRDSKKRFIPEYLYYFYYVNYNLIDGY 357

Query: 347 YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
           +  GS  +  L+ E ++++ +  P +KEQ  I N I  +  +ID  + K E+ I L K+ 
Sbjct: 358 FGQGSTNQTELQREWLRQMYLPYPDLKEQKQIVNYIEKQNTKIDTTILKTEKEIELAKDY 417

Query: 407 RSSFIAAAVTGQIDL 421
             S I   VTGQI +
Sbjct: 418 MESLIYNVVTGQICV 432


>gi|260428510|ref|ZP_05782489.1| type I restriction-modification system, S subunit [Citreicella sp.
           SE45]
 gi|260423002|gb|EEX16253.1| type I restriction-modification system, S subunit [Citreicella sp.
           SE45]
          Length = 426

 Score =  168 bits (425), Expect = 2e-39,   Method: Composition-based stats.
 Identities = 103/421 (24%), Positives = 159/421 (37%), Gaps = 23/421 (5%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSE---------SGKDIIYIGLEDVESGTGKYLPKDGNSR 71
           +P H+  +PI    K N G   +         S     Y+   +V +G  K       S 
Sbjct: 7   VPSHYIKLPIIAVAKKNGGIFIDGDWIESKDLSDSGFRYLTTGNVGAGEFKDQGTGYISD 66

Query: 72  QSDTS-TVSIFAKGQILYGKLGPYLRKAIIADFDG----ICSTQFLVLQPKDVLPELLQG 126
            +      +    G IL  +L   + +A I    G          ++    +     L  
Sbjct: 67  STFHRLRCTEVMPGDILVSRLNLPIGRACIVPDVGERMVTAVDNVIIRPSDEFDRRFLVF 126

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
              +   ++ +  +  G TM       +G   + +PP  EQ  I   +  ET R+D LI 
Sbjct: 127 LFSAQHHSEMMANLARGTTMQRVSRSALGRARVYLPPFEEQTAIANYLDLETARLDGLIE 186

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
           ++ RFIELLKEK  A     VT   +    M+ SGI+W   +P  W V+    L  E+ R
Sbjct: 187 KKGRFIELLKEKALAYSDRCVTGQTDSARDMRTSGIQWSPQLPAEWGVRRGKDLFREMAR 246

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
                 E           ++           E    YQ +  G++V   +D       + 
Sbjct: 247 PVRSDDEIITAFRDGQVCLRSRRRTEGYTFAEKEVGYQRILKGDLVIHTMDAFAGAIGIS 306

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAW--LMRSYDLCKVFYAMGSGLR---QSLKFED 361
                + G  T  Y    P   D     +  ++R        + +   +R      +F  
Sbjct: 307 E----DNGKATGEYAVCTPKSPDIIPEYYALILRCMARRNYIFVLCPSVRERAPRFRFVR 362

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
              + + VPP  EQ  I   I   T R   L+ K E+SI LLKE+RS+ I AAVTG+ID+
Sbjct: 363 FAPVMLPVPPRAEQEQIVASIEEHTRRAKALIAKTERSIELLKEKRSALITAAVTGKIDV 422

Query: 422 R 422
           R
Sbjct: 423 R 423



 Score = 69.8 bits (169), Expect = 8e-10,   Method: Composition-based stats.
 Identities = 48/207 (23%), Positives = 78/207 (37%), Gaps = 6/207 (2%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGN 69
            + SG+QW   +P  W V   K   +           D I     D +         +G 
Sbjct: 217 MRTSGIQWSPQLPAEWGVRRGKDLFREM--ARPVRSDDEIITAFRDGQVCLRSRRRTEGY 274

Query: 70  SRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV--LPELLQGW 127
           +            KG ++   +  +     I++ +G  + ++ V  PK    +PE     
Sbjct: 275 TFAEKEVGYQRILKGDLVIHTMDAFAGAIGISEDNGKATGEYAVCTPKSPDIIPEYYALI 334

Query: 128 LLSIDVTQRIEAICEGATM--SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
           L  +     I  +C           +     + +P+PP AEQ  I   I   T R   LI
Sbjct: 335 LRCMARRNYIFVLCPSVRERAPRFRFVRFAPVMLPVPPRAEQEQIVASIEEHTRRAKALI 394

Query: 186 TERIRFIELLKEKKQALVSYIVTKGLN 212
            +  R IELLKEK+ AL++  VT  ++
Sbjct: 395 AKTERSIELLKEKRSALITAAVTGKID 421


>gi|89075001|ref|ZP_01161446.1| Restriction modification system DNA specificity domain protein
           [Photobacterium sp. SKA34]
 gi|89049240|gb|EAR54804.1| Restriction modification system DNA specificity domain protein
           [Photobacterium sp. SKA34]
          Length = 402

 Score =  168 bits (425), Expect = 2e-39,   Method: Composition-based stats.
 Identities = 84/410 (20%), Positives = 167/410 (40%), Gaps = 24/410 (5%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIY---IGLEDVESGTGKYLPKDGNSRQSDTST 77
           +P  W      + TK+  G+     +       IG E+V S TG+       S     S 
Sbjct: 2   VPNGWVKTTFGKITKIGNGQVDPKVEPYSSMTHIGPENVVSNTGQITKLKSCSALGLISG 61

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP-ELLQGWLLSIDVTQR 136
              F +  I+Y K+ P L K    DF G+CS     +  +D L    L  ++L     + 
Sbjct: 62  KYEFDENSIVYSKIRPNLNKVCRPDFKGVCSADMYPIWSEDNLDINYLYHYMLGPYFNRI 121

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
             A+     M   +   + ++ + +PPL EQ  I + +       D  I    + I+  K
Sbjct: 122 AIAMSMRTGMPKINRSDLNSLSIVLPPLPEQRKIAKIL----STWDRGIASTEKLIDASK 177

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
           ++K+AL+  ++T       K +    E      ++WE     +L+ E   +N     + +
Sbjct: 178 QQKKALMQQLLTG------KKRLVDPETGKAFEENWERTHLKSLLIEEKSRNKDNKITRV 231

Query: 257 LSL-SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
           LS+ ++   +   +  +  +  E+   Y+IV  G+  +    L     S         G+
Sbjct: 232 LSVTNHSGFVLPEDQFSKRVASENISNYKIVKQGQFGYNPSRLN--VGSFACLNQFSEGV 289

Query: 316 ITSAYMAVKPHGI--DSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPI 372
           ++  Y+    +       YL++ M S++  +       G +R+S+ F+ +   P ++P +
Sbjct: 290 LSPMYVVFSTNDSKLQRDYLSYWMDSHEAKQRIKNSTQGSVRESVGFDALCNFPFILPAL 349

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
            EQ  I +V+          +E +E  +  LK+ + + +   +TG+  ++
Sbjct: 350 NEQQKIASVLTAADKE----IELLEAKLAHLKQEKKALMQQLLTGKRRVK 395


>gi|310639248|ref|YP_003944007.1| restriction endonuclease S subunit [Ketogulonicigenium vulgare Y25]
 gi|308752824|gb|ADO43968.1| putative restriction endonuclease S subunit [Ketogulonicigenium
           vulgare Y25]
          Length = 376

 Score =  168 bits (425), Expect = 2e-39,   Method: Composition-based stats.
 Identities = 96/375 (25%), Positives = 155/375 (41%), Gaps = 14/375 (3%)

Query: 56  VESGTGKYLPKDGNSRQSDTSTV--SIFAKGQI-LYGKLGPYLRKAIIADFDGICSTQFL 112
           + S   +          +           +G   L G+ G        A      S   +
Sbjct: 7   ITSDEIREADDYPVFGGNGLRGYTDRFNREGDFVLIGRQGALCGNINYAAGKFWASEHAI 66

Query: 113 VLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIRE 172
           V   +         WL  +     +    + A       + I N+ +P+PP + Q  I  
Sbjct: 67  VADTQG---NAEVRWLGELLSFMNLNQYSQSAAQPGIAVEVIANLSIPVPPSSTQHAIAL 123

Query: 173 KIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHW 232
            +  ET  IDTLI  +   ++L+ EK++A+V+  V +GL+P V ++ SGIEW+G +P HW
Sbjct: 124 FLNRETADIDTLIAAKQSLLDLMAEKRRAIVAETVMRGLDPSVPLRPSGIEWLGDIPAHW 183

Query: 233 EVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIV 292
           E++    L TE ++++    E  +       +  + E      + ES   Y++   G++ 
Sbjct: 184 EIERSRWLFTERDQRSQTGKEEMLTVSHLTGVTPRSEKDVNMFEAESTAGYKLCLAGDLA 243

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID-STYLAWLMRSYDLCKVFYAMGS 351
              +                 GI++ AY    P       Y+  L+R +   +       
Sbjct: 244 INTLWAWMGAMGTARVD----GIVSPAYNVYTPGPRLLPDYVDALVRIHVFAQEVTRYSK 299

Query: 352 GL---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
           G+   R  L  E        VPP+ EQ  I   I+ ET +ID L    E SI LLKERR+
Sbjct: 300 GVWSSRLRLYPEGFFETWWPVPPLDEQQQIVEHISAETTKIDRLRAATENSIALLKERRA 359

Query: 409 SFIAAAVTGQIDLRG 423
           + IAAAVTGQI++  
Sbjct: 360 ALIAAAVTGQIEIPE 374



 Score = 93.3 bits (230), Expect = 7e-17,   Method: Composition-based stats.
 Identities = 49/204 (24%), Positives = 83/204 (40%), Gaps = 5/204 (2%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNS 70
           + SG++W+G IP HW++   +        R+    +++  + +  +   T +        
Sbjct: 169 RPSGIEWLGDIPAHWEIERSRWLFTERDQRSQTGKEEM--LTVSHLTGVTPRSEKDVNMF 226

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV-LPELLQGWLL 129
               T+   +   G +    L  ++     A  DGI S  + V  P    LP+ +   + 
Sbjct: 227 EAESTAGYKLCLAGDLAINTLWAWMGAMGTARVDGIVSPAYNVYTPGPRLLPDYVDALVR 286

Query: 130 SIDVTQRIEAICEGAT--MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
                Q +    +G          +G      P+PPL EQ  I E I AET +ID L   
Sbjct: 287 IHVFAQEVTRYSKGVWSSRLRLYPEGFFETWWPVPPLDEQQQIVEHISAETTKIDRLRAA 346

Query: 188 RIRFIELLKEKKQALVSYIVTKGL 211
               I LLKE++ AL++  VT  +
Sbjct: 347 TENSIALLKERRAALIAAAVTGQI 370


>gi|229829856|ref|ZP_04455925.1| hypothetical protein GCWU000342_01962 [Shuttleworthia satelles DSM
           14600]
 gi|229791154|gb|EEP27268.1| hypothetical protein GCWU000342_01962 [Shuttleworthia satelles DSM
           14600]
          Length = 407

 Score =  167 bits (423), Expect = 3e-39,   Method: Composition-based stats.
 Identities = 75/426 (17%), Positives = 145/426 (34%), Gaps = 25/426 (5%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK-DIIYIGLEDVESG 59
           M     Y   KDSG++WIG +P  W V  + +       + S+  + +++ +    ++  
Sbjct: 1   MSETVRYTDMKDSGIKWIGEVPASWNVRTLYQLATRVNNKNSDLAEQNLLSLSYGKIKRK 60

Query: 60  TGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGP----YLRKAIIADFDGICSTQFLVLQ 115
                        +     +I   G I+             +   A   GI ++ +  LQ
Sbjct: 61  DI---NTKDGLLPASFDGYNIIEAGDIVLRLTDLQNDHTSLRVGQATERGIITSAYTTLQ 117

Query: 116 PKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKII 175
           P +        +LL     ++             ++  +  +   +P   EQ  I   + 
Sbjct: 118 PINPSNARYLYYLLHAFDLKKGFYGMGSGVRQGLNYDEVKELRSVLPSQIEQDAIVSYLD 177

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVK 235
               +ID +I E    IE  K  + + +  + T G++ DV+M D+ I W   +P +W + 
Sbjct: 178 DVCQQIDLIIEEAKSSIEGYKGWRLSTIKEVTTHGISKDVEMVDTEISWAKSIPSNWNIG 237

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRF 295
                 +  + +      +      YG+     +T N     E+           ++F  
Sbjct: 238 KGHYFASTYSGRAIPGDGTTGSIPVYGSGGSFKKTENPLYAGEA-----------VLFGR 286

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ 355
                    +         + T  Y       +   YL +++  +D              
Sbjct: 287 KGTLGKPIYV---NRPFWAVDTIYYAVCNEKWMLPKYLYYMLTIFDWESFI---THTALP 340

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           S+   +V     + PPI EQ  I   ++      D  +E  E  I  L+  + S I  AV
Sbjct: 341 SIVANEVFSSVFICPPISEQLQIIKKLDCVCDNADTAIEATEHLIEELELYKRSLIYEAV 400

Query: 416 TGQIDL 421
           TG+  +
Sbjct: 401 TGKRKV 406


>gi|74318700|ref|YP_316440.1| putative restriction endonuclease S subunit [Thiobacillus
           denitrificans ATCC 25259]
 gi|74058195|gb|AAZ98635.1| putative restriction endonuclease S subunit [Thiobacillus
           denitrificans ATCC 25259]
          Length = 400

 Score =  167 bits (422), Expect = 4e-39,   Method: Composition-based stats.
 Identities = 103/405 (25%), Positives = 177/405 (43%), Gaps = 24/405 (5%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           P  W+ + +K    L +G                    TG Y    GN  +  T++ +  
Sbjct: 9   PISWRRMKLKYLVALKSGEAIPGES----------IKETGDYPVYGGNGFRGYTNSFT-- 56

Query: 82  AKGQ-ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
            +G+ IL G+ G        A+     +   +V  PK         WL        +   
Sbjct: 57  HEGERILIGRQGALCGNINYAEGKFWATEHAIVATPKT---NFETAWLGETLRVMNLNQY 113

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
            + A       + + N+ + +PP  EQ  I + +   +  ID LI E+ + + LL EK++
Sbjct: 114 SQSAAQPGIAVEVVENLVIAVPPEGEQRRIADSLHQLSAPIDKLILEKQKLLTLLTEKRR 173

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
            +++  + KGLN D   +DS I W+G +P HW+V+    L TE + ++    E  +    
Sbjct: 174 TVIADFLIKGLNKDTPRRDSDIPWLGEIPAHWKVERAKWLFTERDDRSDSGDEELLTVSH 233

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
              +  + E        ES E Y+  + G++V   +        +      + GI++ AY
Sbjct: 234 LTGVTSRAEKDVNMFMAESLEGYKRCEAGDLVINTLWAWMGAMGIAR----QPGIVSPAY 289

Query: 321 MAVKP-HGIDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQF 376
              +P   +D  Y+  L+R+    +       G+   R  L  E +    + VPP+ EQ 
Sbjct: 290 NVYQPVAQLDPEYIDLLVRTPRFVEEITRYSKGVWSSRLRLYPEGLYEAWLPVPPLDEQR 349

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           DI   +  ET ++D L E  E+++ +L+ERRS+ I+AAVTGQ+DL
Sbjct: 350 DIVARVQAETRKLDALAEATERTVTVLQERRSALISAAVTGQLDL 394



 Score = 97.9 bits (242), Expect = 2e-18,   Method: Composition-based stats.
 Identities = 48/205 (23%), Positives = 83/205 (40%), Gaps = 5/205 (2%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNS 70
           +DS + W+G IP HWKV   K        R+    +++  + +  +   T +        
Sbjct: 191 RDSDIPWLGEIPAHWKVERAKWLFTERDDRSDSGDEEL--LTVSHLTGVTSRAEKDVNMF 248

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQG-WLL 129
                        G ++   L  ++    IA   GI S  + V QP   L        + 
Sbjct: 249 MAESLEGYKRCEAGDLVINTLWAWMGAMGIARQPGIVSPAYNVYQPVAQLDPEYIDLLVR 308

Query: 130 SIDVTQRIEAICEGAT--MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
           +    + I    +G          +G+    +P+PPL EQ  I  ++ AET ++D L   
Sbjct: 309 TPRFVEEITRYSKGVWSSRLRLYPEGLYEAWLPVPPLDEQRDIVARVQAETRKLDALAEA 368

Query: 188 RIRFIELLKEKKQALVSYIVTKGLN 212
             R + +L+E++ AL+S  VT  L+
Sbjct: 369 TERTVTVLQERRSALISAAVTGQLD 393


>gi|259156571|gb|ACV96514.1| restriction modification system DNA specificity domain [Vibrio
           fluvialis Ind1]
          Length = 389

 Score =  166 bits (419), Expect = 8e-39,   Method: Composition-based stats.
 Identities = 85/386 (22%), Positives = 170/386 (44%), Gaps = 27/386 (6%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGR-TSESGKDIIYIGLEDVESGTGKY 63
             Y  YK+SG  WIG IP  W++VPI+   K    + +    ++I+ + + +  +     
Sbjct: 8   PKYEVYKNSGEDWIGDIPSGWELVPIRSIFKFRNEKNSPVKTEEILSLSIANGVTKYSD- 66

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPEL 123
             + GN R+ D S   I     I+   +   +    ++ + G  S  +  L  +     +
Sbjct: 67  KGRGGNKRKDDISAYKIAHPKDIVLNSMNVIVGAVGMSKYHGAISPVYYALYTESEDVLV 126

Query: 124 LQGWLLSID--VTQRIEAICEG------------ATMSHADWKGIGNIPMPIPPLAEQVL 169
                + ++    + +    +G                      + ++  P PP+AEQ L
Sbjct: 127 EYYEKIFLNEGFQRGLLKFGKGILIKLSGTGKLNTIRMKVSTDDLKSLYFPKPPIAEQNL 186

Query: 170 IREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVP 229
           I   +  +T +ID  I+ + + I LLKE+ Q ++   VT+GLN +V MKD+GI+W+G +P
Sbjct: 187 IFSFLDKKTAQIDEAISIKEQQINLLKERNQIIIHKAVTQGLNSNVLMKDTGIDWIGKIP 246

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG 289
           +HW++     ++ +LNR   K  ++ I   S     + L   N GL   +   YQ VD G
Sbjct: 247 EHWDISLAKHILKKLNRPRKKNGDTVI--CSNHGCSKLLGEVNQGLVSLTQHDYQGVDEG 304

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
           +++   +D  +   ++            ++ + V     +  Y+A+ ++   +  V+  +
Sbjct: 305 DLLVHGMDAWHGAIAISEHTGD-----CTSVVHVCDSHFNKVYIAYFLKMLAIMNVYKVI 359

Query: 350 GSGLRQSL----KFEDVKRLPVLVPP 371
            +G+R +      +     + +++PP
Sbjct: 360 SNGVRGNTSDFRSWSKFGEIQIILPP 385



 Score =  105 bits (261), Expect = 2e-20,   Method: Composition-based stats.
 Identities = 58/221 (26%), Positives = 93/221 (42%), Gaps = 21/221 (9%)

Query: 213 PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
                K+SG +W+G +P  WE+ P  ++    N KN+ +    ILSLS  N + K   + 
Sbjct: 9   KYEVYKNSGEDWIGDIPSGWELVPIRSIFKFRNEKNSPVKTEEILSLSIANGVTKYSDKG 68

Query: 273 MG--LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
            G   + +    Y+I  P +IV   +++      +        G I+  Y A+     D 
Sbjct: 69  RGGNKRKDDISAYKIAHPKDIVLNSMNVIVGAVGMSKY----HGAISPVYYALYTESEDV 124

Query: 331 TYLAW--LMRSYDLCKVFYAMGSGL-------------RQSLKFEDVKRLPVLVPPIKEQ 375
               +  +  +    +     G G+             R  +  +D+K L    PPI EQ
Sbjct: 125 LVEYYEKIFLNEGFQRGLLKFGKGILIKLSGTGKLNTIRMKVSTDDLKSLYFPKPPIAEQ 184

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
             I + ++ +TA+ID  +   EQ I LLKER    I  AVT
Sbjct: 185 NLIFSFLDKKTAQIDEAISIKEQQINLLKERNQIIIHKAVT 225


>gi|315124281|ref|YP_004066285.1| putative type I restriction enzyme specificity protein
           [Campylobacter jejuni subsp. jejuni ICDCCJ07001]
 gi|315018003|gb|ADT66096.1| putative type I restriction enzyme specificity protein
           [Campylobacter jejuni subsp. jejuni ICDCCJ07001]
          Length = 393

 Score =  165 bits (418), Expect = 9e-39,   Method: Composition-based stats.
 Identities = 98/399 (24%), Positives = 169/399 (42%), Gaps = 32/399 (8%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK-----DIIYIGLED 55
           MK++      K+SG++W+G IP+HW+VV I +      G   E+       +I  I + D
Sbjct: 1   MKNF------KESGIEWLGEIPEHWEVVKINKIVTFVNGYAFENFDFNPIFEIPVIRIGD 54

Query: 56  VESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD--FDGICSTQFLV 113
           ++     Y      +++ +     + +   IL    G    K    D       + +  +
Sbjct: 55  MQKEKILY-DNCLKTKEKEKLKQFLISNNDILIALSGATTGKIAFCDTDNKAYINQRVAI 113

Query: 114 LQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
           ++ K  L   ++ + L+   +  IE  C G+   +   K IG   +P+PPL EQ  I   
Sbjct: 114 VRSKLKL---VKYYFLTRGFSLLIELACNGSAQPNISTKEIGEFKIPLPPLKEQEQIANF 170

Query: 174 IIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWE 233
           +  +  +I   I ++ + I LLKE+KQA ++  +TKGL+ ++  KDSGIEW+G +P HWE
Sbjct: 171 LDEKCEQIANFIEKKEKLISLLKEQKQAFINETITKGLDKNINFKDSGIEWLGEIPQHWE 230

Query: 234 VKP---FFALVTELNRKNTKLIESNILSLSYGNIIQKL---------ETRNMGLKPESYE 281
           VK     F L   LN      +   I  +SYG I  K              +     + +
Sbjct: 231 VKKFKMLFTLGNGLNITKADFVSYGIPCVSYGEIHSKYPCRLNTTIHTLPFVSKTYLADK 290

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA--YMAVKPHGIDSTYLAWLMRS 339
              ++  G+ VF       +     ++   +  I       +      I+S Y ++L  S
Sbjct: 291 PQSLLQKGDFVFADTSEDIEGSGNFTSIQSDTPIFAGYHTIILKYKGKINSLYFSFLFDS 350

Query: 340 YDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFD 377
                       G+   S+    +K +  L+PP+KEQ  
Sbjct: 351 IFTRNQIRKEVCGVKVFSITKSILKEVQCLIPPLKEQNK 389



 Score =  110 bits (275), Expect = 4e-22,   Method: Composition-based stats.
 Identities = 43/209 (20%), Positives = 87/209 (41%), Gaps = 10/209 (4%)

Query: 214 DVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN----ILSLSYGNIIQKLE 269
               K+SGIEW+G +P+HWEV     +VT +N    +  + N    I  +  G++ ++  
Sbjct: 1   MKNFKESGIEWLGEIPEHWEVVKINKIVTFVNGYAFENFDFNPIFEIPVIRIGDMQKEKI 60

Query: 270 TRNM--GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
             +     K +      ++   +I+         K +        +  I      V+   
Sbjct: 61  LYDNCLKTKEKEKLKQFLISNNDILIALSGATTGKIAFC--DTDNKAYINQRVAIVRSKL 118

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
                  + +       +  A     + ++  +++    + +PP+KEQ  I N ++ +  
Sbjct: 119 KLVK--YYFLTRGFSLLIELACNGSAQPNISTKEIGEFKIPLPPLKEQEQIANFLDEKCE 176

Query: 388 RIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           +I   +EK E+ I LLKE++ +FI   +T
Sbjct: 177 QIANFIEKKEKLISLLKEQKQAFINETIT 205


>gi|302874007|ref|YP_003842640.1| restriction modification system DNA specificity domain [Clostridium
           cellulovorans 743B]
 gi|307689744|ref|ZP_07632190.1| restriction modification system DNA specificity domain [Clostridium
           cellulovorans 743B]
 gi|302576864|gb|ADL50876.1| restriction modification system DNA specificity domain [Clostridium
           cellulovorans 743B]
          Length = 457

 Score =  165 bits (418), Expect = 1e-38,   Method: Composition-based stats.
 Identities = 71/416 (17%), Positives = 150/416 (36%), Gaps = 20/416 (4%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD------IIYIGLEDVESGTGKYLPKDGNSRQS 73
            +P++W    +K    L TG T     +      I +I   D+  G              
Sbjct: 23  EVPENWVWSNLKSIADLVTGNTPSKNNEEFYGGKIPFIKPTDLNQGRI-LNSSTETLSNI 81

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
             +   I  KG      +G  + K    + +G  + Q   + PK +    +  + LS   
Sbjct: 82  GATKARILPKGSTAVCCIGATIGKVAYLNVEGATNQQINSIIPKKIYNLYVYYYTLSSYF 141

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
              +       T+   +   +G + +P+PPL EQ  I  +I     ++D          E
Sbjct: 142 HDTLIENSSSTTLPIINKSRMGELLIPLPPLKEQQRIVNRIENLFEKLDKAKELIEEARE 201

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGI-EWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
             +++K A+ S      LN     K + I E    +P +W+      +  ++        
Sbjct: 202 GFEKRKAAITSKAFRGILNYRKGEKVNPINEGFYKLPYNWKWTKLEDICEKITDGTHNSP 261

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESY---------ETYQIVDPGEIVFRFIDLQNDKR 303
           +S           + ++   + L   +Y              V  G+I++          
Sbjct: 262 KSYEYGDYKYVTAKNIKEWGIDLSSITYVTKKEHIPIYKRCDVKYGDILYIKDGATT-GI 320

Query: 304 SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDV 362
           +  +    E  +++S  +      ID+ YL +++ S+++ K       G     L  + +
Sbjct: 321 ATINELTEEFSLLSSVALIRVGKCIDNKYLYYILNSFEIKKRILESVKGVAITRLTLKKI 380

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
             + + +PP++EQ +I  +++      +  ++++ Q    +   + S +A A  GQ
Sbjct: 381 NDIIIPLPPLEEQKEIVKILDKLLEE-ESKIKELTQLEDQINLIKKSILAKAFRGQ 435


>gi|91213998|ref|YP_543984.1| EcoKI restriction-modification system protein HsdS [Escherichia
           coli UTI89]
 gi|117626660|ref|YP_859983.1| specificity determinant for hsdM and hsdR [Escherichia coli APEC
           O1]
 gi|91075572|gb|ABE10453.1| HsdS, type I site-specific deoxyribonuclease [Escherichia coli
           UTI89]
 gi|115515784|gb|ABJ03859.1| HsdS, type I site-specific deoxyribonuclease [Escherichia coli APEC
           O1]
 gi|294493695|gb|ADE92451.1| type I restriction modification DNA specificity protein
           [Escherichia coli IHE3034]
 gi|307629515|gb|ADN73819.1| EcoKI restriction-modification system protein HsdS [Escherichia
           coli UM146]
 gi|323950568|gb|EGB46446.1| type I restriction modification DNA specificity domain-containing
           protein [Escherichia coli H252]
          Length = 455

 Score =  165 bits (418), Expect = 1e-38,   Method: Composition-based stats.
 Identities = 73/417 (17%), Positives = 155/417 (37%), Gaps = 25/417 (5%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSESG---------KDIIYIGLEDVESGTGKYLP---K 66
           G +P+ W+ + I     + +G T +SG         + + ++   D+     KY+    +
Sbjct: 4   GKLPEGWEQIEIGDIADVISGGTPKSGVAENFAPSGEGVAWLTPADLSGYKEKYISHGAR 63

Query: 67  DGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQG 126
           D  +    + +  +  KG IL+    P    AI A+   I + Q                
Sbjct: 64  DLTTLGYSSCSAKLMPKGTILFSSRAPIGYVAIAANE--IATNQGFKSFAFPSDIFPDYA 121

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           +    ++    E +  G T           +P  + P AEQ +I EK+     ++D+   
Sbjct: 122 YYFLRNIRHIAEEMGTGTTFKEISGSSAKTLPFVLVPFAEQKIIAEKLDTLLAQVDSTKA 181

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
              +  ++LK  +QA++   V   L  D +   S   W     +    +         + 
Sbjct: 182 RLEQIPQILKRFRQAVLGAAVRGKLTEDWRDNSSLSGWR----EGKLGEFIKKPSYGTSS 237

Query: 247 KNTKLIESNILSLSYGN-IIQKLETRNMGLKPESYE-TYQIVDPGEIVFRFIDLQNDKRS 304
           K+    E  I  L  GN    KL+  ++    ++ E     ++  +++F   +       
Sbjct: 238 KS--NKEGLIPVLRMGNLQGGKLDWTDLVYTSDTIEIEKYKLEYNDVLFNRTNSPELVGK 295

Query: 305 LRSAQVMERGIITSAYMAVKPHGI-DSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFED 361
               +  +  I     + V+     +  YL + + S    +  Y++ S    + ++  + 
Sbjct: 296 TAIYKSEQPAIYAGYLIRVQCLPDLNPDYLNYHLNSILGRQYCYSVKSDGVSQSNINAQK 355

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           +   P+ VPP+ EQ +I   +    A  D + +++  ++  +     S +A A  G+
Sbjct: 356 LIAYPITVPPLPEQAEIVRRVEQLFAYADTIEKQVNNALARVNNLTQSILAKAFRGE 412


>gi|227500130|ref|ZP_03930201.1| restriction endonuclease S subunits [Anaerococcus tetradius ATCC
           35098]
 gi|227217772|gb|EEI83072.1| restriction endonuclease S subunits [Anaerococcus tetradius ATCC
           35098]
          Length = 424

 Score =  165 bits (417), Expect = 1e-38,   Method: Composition-based stats.
 Identities = 92/423 (21%), Positives = 159/423 (37%), Gaps = 22/423 (5%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKRFTKLNT-----GRTSES--GKDIIYIGLEDVESGTGKY 63
           KDSG+ WIG +P  WKV  IK   +LN      G TS     +    I   D + G   +
Sbjct: 5   KDSGINWIGTMPNDWKVKKIKYIGELNGRIGWQGLTSNEYIDEGPFLITGTDFKDGRIDW 64

Query: 64  LPKDGNSRQSDTSTVSI-FAKGQILYGKLGPYLRKAIIADFDGICS---TQFLVLQPKDV 119
                           I    G +L  K G   + AI+ + +G+ S       +   +  
Sbjct: 65  DTCVHIDHSRWEEAKKIQIKNGDLLITKDGTVGKVAIVENLEGLASLNSGVLKIDLKEGY 124

Query: 120 LPELLQGWLLSIDVTQRIEAICEGA-TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
           L + L   L S            G  T+ H   K   N    IP   EQ +I   + +  
Sbjct: 125 LAKFLFYVLQSDVFWTWFNYTSSGNSTILHLYEKDFNNFTFSIPDKDEQEVIINFLDSNV 184

Query: 179 VRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFF 238
             I+  I++  + I++LKE  ++LVS  +TKGL  +V+ KD+ I+W+G +P +W +K   
Sbjct: 185 GSINLKISKIEKQIKILKEYIKSLVSETITKGLEKNVEYKDTSIDWIGKIPANWSIKRLK 244

Query: 239 ALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDL 298
            L       +    +                +         Y +    +   I      L
Sbjct: 245 HLFYIYAGGDIDYSDYAEAENEIQKYPILSNSLEHDGV-IGYTSKFRFEGDTITVTGRGL 303

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLK 358
                 +   +  +   +    +       D  Y ++ + S ++              L 
Sbjct: 304 ----VGVAVPRNFKFYPVVRLLVGEPKDRDDVRYFSYCINSANVIGD-----QTAMAQLT 354

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            E +  + V  P  K Q +I N ++ E ++I+ ++E  EQ I  L + ++S +   VTG+
Sbjct: 355 REKLGDIKVPYPLKKIQIEIANFLDTEVSKINHVIETKEQQITKLIDYKNSLVYEYVTGK 414

Query: 419 IDL 421
             +
Sbjct: 415 KRV 417



 Score = 88.3 bits (217), Expect = 2e-15,   Method: Composition-based stats.
 Identities = 40/215 (18%), Positives = 80/215 (37%), Gaps = 13/215 (6%)

Query: 214 DVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNM 273
              +KDSGI W+G +P+ W+VK    +     R   + + SN        +I   + ++ 
Sbjct: 1   MSNLKDSGINWIGTMPNDWKVKKIKYIGELNGRIGWQGLTSNEYIDEGPFLITGTDFKDG 60

Query: 274 GLKPE----------SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
            +  +                 +  G+++         K ++         + +      
Sbjct: 61  RIDWDTCVHIDHSRWEEAKKIQIKNGDLLITKDGTVG-KVAIVENLEGLASLNSGVLKID 119

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYAMGSG--LRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
              G  + +L ++++S      F    SG      L  +D       +P   EQ  I N 
Sbjct: 120 LKEGYLAKFLFYVLQSDVFWTWFNYTSSGNSTILHLYEKDFNNFTFSIPDKDEQEVIINF 179

Query: 382 INVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           ++     I++ + KIE+ I +LKE   S ++  +T
Sbjct: 180 LDSNVGSINLKISKIEKQIKILKEYIKSLVSETIT 214



 Score = 70.2 bits (170), Expect = 6e-10,   Method: Composition-based stats.
 Identities = 42/201 (20%), Positives = 75/201 (37%), Gaps = 13/201 (6%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDG 68
           +YKD+ + WIG IP +W +  +K    +  G       DI Y    + E+   KY     
Sbjct: 222 EYKDTSIDWIGKIPANWSIKRLKHLFYIYAGG------DIDYSDYAEAENEIQKYPILSN 275

Query: 69  NSRQSDTSTV--SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQG 126
           +               +G  +       +  A+  +F      + LV +PKD        
Sbjct: 276 SLEHDGVIGYTSKFRFEGDTITVTGRGLVGVAVPRNFKFYPVVRLLVGEPKDRDDVRYFS 335

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           +            I +   M+    + +G+I +P P    Q+ I   +  E  +I+ +I 
Sbjct: 336 YC-----INSANVIGDQTAMAQLTREKLGDIKVPYPLKKIQIEIANFLDTEVSKINHVIE 390

Query: 187 ERIRFIELLKEKKQALVSYIV 207
            + + I  L + K +LV   V
Sbjct: 391 TKEQQITKLIDYKNSLVYEYV 411


>gi|330879482|gb|EGH13631.1| restriction modification system DNA specificity domain protein
           [Pseudomonas syringae pv. morsprunorum str. M302280PT]
          Length = 293

 Score =  165 bits (417), Expect = 1e-38,   Method: Composition-based stats.
 Identities = 95/277 (34%), Positives = 150/277 (54%), Gaps = 11/277 (3%)

Query: 156 NIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDV 215
           N+ +P+PP++EQ  I   +  ET RID LI E+ R IELLKEK+QA++S+ VTKGL+P V
Sbjct: 6   NLRIPLPPISEQNQIARFLDHETARIDALIEEQQRLIELLKEKRQAVISHAVTKGLDPTV 65

Query: 216 KMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL 275
            MKDSG EW+G VP HWE     A+ +E   K    +    +S+ +G   ++L       
Sbjct: 66  PMKDSGAEWLGEVPAHWETLRIGAVYSEAADKGLAELPVLRVSIHHGVSDKELSEEESDR 125

Query: 276 KP---ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID-ST 331
           K    +  E Y+ V PG++V+  +                 G+++ AY+  +P   D S 
Sbjct: 126 KITRIDDREKYKRVRPGDLVYNMMRAWQGGFGAVLV----NGLVSPAYVVARPKNEDISR 181

Query: 332 YLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
           Y+  L+R+    +       G+   R  L ++  K + +++PP  E+  I   I+     
Sbjct: 182 YVEQLLRTGCAVEEMRKNSYGITDFRLRLYWDQFKNIVIVIPPEVERLQIMERIDSLINE 241

Query: 389 IDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGES 425
            + L  + ++ IV+L+ERRS+ I+AAVTG+ID+RG  
Sbjct: 242 SEALKSEADRLIVILQERRSALISAAVTGKIDVRGWQ 278



 Score = 92.9 bits (229), Expect = 1e-16,   Method: Composition-based stats.
 Identities = 45/210 (21%), Positives = 91/210 (43%), Gaps = 10/210 (4%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGN 69
            KDSG +W+G +P HW+ + I       +    +   ++  + +      + K L ++ +
Sbjct: 67  MKDSGAEWLGEVPAHWETLRIGAV---YSEAADKGLAELPVLRVSIHHGVSDKELSEEES 123

Query: 70  ----SRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKD-VLPELL 124
               +R  D         G ++Y  +  +         +G+ S  ++V +PK+  +   +
Sbjct: 124 DRKITRIDDREKYKRVRPGDLVYNMMRAWQGGFGAVLVNGLVSPAYVVARPKNEDISRYV 183

Query: 125 QGWLLSIDVTQRIEAICEGAT--MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
           +  L +    + +     G T       W    NI + IPP  E++ I E+I +     +
Sbjct: 184 EQLLRTGCAVEEMRKNSYGITDFRLRLYWDQFKNIVIVIPPEVERLQIMERIDSLINESE 243

Query: 183 TLITERIRFIELLKEKKQALVSYIVTKGLN 212
            L +E  R I +L+E++ AL+S  VT  ++
Sbjct: 244 ALKSEADRLIVILQERRSALISAAVTGKID 273



 Score = 88.7 bits (218), Expect = 2e-15,   Method: Composition-based stats.
 Identities = 25/58 (43%), Positives = 38/58 (65%)

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
              ++ L + +PPI EQ  I   ++ ETARID L+E+ ++ I LLKE+R + I+ AVT
Sbjct: 1   MSVIENLRIPLPPISEQNQIARFLDHETARIDALIEEQQRLIELLKEKRQAVISHAVT 58


>gi|332184238|gb|AEE26492.1| Type I restriction-modification system specificity subunit
           [Francisella cf. novicida 3523]
          Length = 390

 Score =  164 bits (414), Expect = 3e-38,   Method: Composition-based stats.
 Identities = 54/406 (13%), Positives = 126/406 (31%), Gaps = 25/406 (6%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSE----SGKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
           +  +P  W+   +    +   G   +    S      I ++++          D N    
Sbjct: 4   LYKLPAGWEWKKLGDLAEYVNGMAFKPKDWSNDGFPIIRIQNLNGSD------DFNYFSG 57

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
           +         G IL       L        + I +           + +    +      
Sbjct: 58  EAKEKYYVKNGDILISWS-ASLDVYKWQGGNAILNQHIFNTIINYDVVDYDFFYHTIKYS 116

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
              +     G  M H       NI +P+PPL EQ  I  K+ +   +ID  I    + I 
Sbjct: 117 LSEVMNNLHGVGMKHITKGKFENIQIPLPPLPEQKRIVAKLDSLFEKIDKAIELHQQNIT 176

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
                  + +     K        K   ++++     +               + T + +
Sbjct: 177 NANTLMASTLDKTFKKLEGEYNSKK---LDYLSENIRYGYTDKAKEKGNARFIRITDIND 233

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
                        K E+  + +K    + Y+++  G+I+         K +L +   +  
Sbjct: 234 QGKF---------KDESVYVDIKNTDLDRYKLL-VGDILVARSGATAGKVALFTLDELSV 283

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPI 372
                  + ++       ++ +   S         +   G + ++   ++K + + +PP+
Sbjct: 284 FASYLIRIRLQIDKALPLFIFYFCYSSKYWNQLDQIKIGGAQPNVNATNLKNIKIPLPPL 343

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
             Q      ++    ++D + +  EQ +  LK  ++S +  A  G+
Sbjct: 344 PIQQQTVEYLDSIATKVDKIKQLNEQKLEKLKALKASILDKAFRGE 389


>gi|162448114|ref|YP_001621246.1| type I restriction enzyme, S subunit [Acholeplasma laidlawii PG-8A]
 gi|161986221|gb|ABX81870.1| type I restriction enzyme, S subunit [Acholeplasma laidlawii PG-8A]
          Length = 437

 Score =  163 bits (413), Expect = 4e-38,   Method: Composition-based stats.
 Identities = 98/429 (22%), Positives = 176/429 (41%), Gaps = 27/429 (6%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSESGKDIIY-------IGLEDV-ESGTGKYLPKDGNS 70
           G +P +WK + IK F +L +G T  S  D  Y       + + D+  +       K    
Sbjct: 9   GVVPDNWKKMKIKHFYELYSGGTPLSSVDSNYAEEGVCFVNISDMTNTEYITDTTKKLTD 68

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
           +      + I   G ILY  +   L            S   L L PK  +          
Sbjct: 69  KGIKNKNLKILKSGTILYS-IYASLGSVSELKTKATISQAILALIPKMGISIDKNYLKFL 127

Query: 131 IDV-TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
           + +  + I     G T S+ +   + N+P+ IP L  Q+ I   +  +T+ I+ LI  + 
Sbjct: 128 LMIAKENIFYFSNGTTQSNLNADIVNNLPLIIPELNNQIRISLYVGNKTLIINKLIDNQK 187

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFAL--------- 240
           + IE LKE KQ+L+S +VTKGLNP+V+ KDS ++W+GL+P +++V               
Sbjct: 188 QQIEKLKEYKQSLISEVVTKGLNPNVEFKDSNVKWIGLIPKNYDVSLISRHTFVTKLAGF 247

Query: 241 -VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET---YQIVDPGEIVFRFI 296
             TE+  KN    +   +  +      K      G              +D   I+  FI
Sbjct: 248 EFTEILSKNINEFDDIPIVRAQNIKNDKFIKDFTGYINNDTARKLVRSNLDKPCILMTFI 307

Query: 297 DLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS----TYLAWLMRSYDLCKVFYAMGSG 352
                + ++ + + + +     A + +     D       L +LM +    +    + + 
Sbjct: 308 GAGVGEVAIFNEEKLHQLAPNVAKIEILKSHEDRISLRYLLYYLMSNAANFEKDQYLKAT 367

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
            + ++    ++ L  ++PPI +Q  I   ++ +  R+D L+E   + I  L   + S I 
Sbjct: 368 AQPNISMTIIRGLRFVLPPIDDQNKIIKYLDNKVLRLDELIELKNKKIDELYNYKKSLIY 427

Query: 413 AAVTGQIDL 421
             VTG+ ++
Sbjct: 428 EYVTGKKEV 436



 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 39/217 (17%), Positives = 81/217 (37%), Gaps = 18/217 (8%)

Query: 9   QYKDSGVQWIGAIPKHWK---------VVPI-KRFTKLNTGRTSESGKDIIYIGLEDVES 58
           ++KDS V+WIG IPK++          V  +          +      DI  +  +++++
Sbjct: 214 EFKDSNVKWIGLIPKNYDVSLISRHTFVTKLAGFEFTEILSKNINEFDDIPIVRAQNIKN 273

Query: 59  GT-GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADF-------DGICSTQ 110
               K      N+  +     S   K  IL   +G  + +  I +          +   +
Sbjct: 274 DKFIKDFTGYINNDTARKLVRSNLDKPCILMTFIGAGVGEVAIFNEEKLHQLAPNVAKIE 333

Query: 111 FLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLI 170
            L      +    L  +L+S       +   +     +     I  +   +PP+ +Q  I
Sbjct: 334 ILKSHEDRISLRYLLYYLMSNAANFEKDQYLKATAQPNISMTIIRGLRFVLPPIDDQNKI 393

Query: 171 REKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
            + +  + +R+D LI  + + I+ L   K++L+   V
Sbjct: 394 IKYLDNKVLRLDELIELKNKKIDELYNYKKSLIYEYV 430


>gi|201067913|ref|ZP_03217796.1| putative type I restriction-modification [Campylobacter jejuni
           subsp. jejuni BH-01-0142]
 gi|200004510|gb|EDZ04991.1| putative type I restriction-modification [Campylobacter jejuni
           subsp. jejuni BH-01-0142]
          Length = 269

 Score =  163 bits (413), Expect = 4e-38,   Method: Composition-based stats.
 Identities = 62/269 (23%), Positives = 120/269 (44%), Gaps = 14/269 (5%)

Query: 161 IPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDS 220
            PPL EQ  I   +  +  +I   I ++ + + LLKE+KQA ++   TKGL+ +V  KDS
Sbjct: 3   FPPLKEQEQIANFLDEKCKKIANFIEKKEKLMTLLKEQKQAFINKATTKGLDKNVNFKDS 62

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKP--- 277
           GIE++G +P HW++     ++   +                   I   +  +  LK    
Sbjct: 63  GIEYLGEIPQHWKLVRLGLILKTSSGTTPDSGNDKYYKGGQIVWINSGDLNDGFLKDSKR 122

Query: 278 -------ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
                  + Y   +I D   ++         K ++          +  A   ++     +
Sbjct: 123 KITQDALDDYSVLKIFDKDSLIVAMYGATIGKTAILKV----NACVNQACCVLEKSAWYN 178

Query: 331 TYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
           T+  + + +    ++      G + ++  + +K + + +PP+KEQ  I N ++ +  +ID
Sbjct: 179 TFYLFYLFNRYKKELISMGSGGGQPNISQDIIKNIKIPLPPLKEQEQIANFLDEKCKKID 238

Query: 391 VLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
           +L+EK E+ I L+KE + +    AV G+I
Sbjct: 239 LLIEKTEKQIKLIKEYKITLTNQAVCGRI 267



 Score =  109 bits (273), Expect = 7e-22,   Method: Composition-based stats.
 Identities = 56/211 (26%), Positives = 95/211 (45%), Gaps = 9/211 (4%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGK 62
           +KDSG++++G IP+HWK+V +    K ++G T +SG D       I++I   D+  G  K
Sbjct: 59  FKDSGIEYLGEIPQHWKLVRLGLILKTSSGTTPDSGNDKYYKGGQIVWINSGDLNDGFLK 118

Query: 63  YLPKDGNSRQ-SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP 121
              +        D S + IF K  ++    G  + K  I   +   +    VL+      
Sbjct: 119 DSKRKITQDALDDYSVLKIFDKDSLIVAMYGATIGKTAILKVNACVNQACCVLEKSAWYN 178

Query: 122 ELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
                +L      + + ++  G    +     I NI +P+PPL EQ  I   +  +  +I
Sbjct: 179 TFYLFYL-FNRYKKELISMGSGGGQPNISQDIIKNIKIPLPPLKEQEQIANFLDEKCKKI 237

Query: 182 DTLITERIRFIELLKEKKQALVSYIVTKGLN 212
           D LI +  + I+L+KE K  L +  V   +N
Sbjct: 238 DLLIEKTEKQIKLIKEYKITLTNQAVCGRIN 268


>gi|188996333|ref|YP_001930584.1| restriction modification system DNA specificity domain
           [Sulfurihydrogenibium sp. YO3AOP1]
 gi|188931400|gb|ACD66030.1| restriction modification system DNA specificity domain
           [Sulfurihydrogenibium sp. YO3AOP1]
          Length = 435

 Score =  163 bits (413), Expect = 4e-38,   Method: Composition-based stats.
 Identities = 75/441 (17%), Positives = 169/441 (38%), Gaps = 40/441 (9%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKD------IIYIGLEDVESGTGKY 63
           +K++    IG IP+ W+V  +    ++  G+   + ++        ++   +V       
Sbjct: 7   FKETE---IGLIPEDWEVARLGEVFEVKQGKQLSAKENRDGKVLKPFLRTSNVLWNKIDL 63

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQ---PKDVL 120
                              KG IL  + G   R A+        S Q  + +    KD +
Sbjct: 64  SELSYMPFSESEFKNLKLKKGDILVCEGGDVGRTAVWDGQIDEISYQNHLHRLRSVKDNI 123

Query: 121 PELLQGWLLSIDV--TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
                 + +   +             T+ +     +   P+P+PPL EQ  I + +    
Sbjct: 124 NNYFFAYWMEYAITIKNLYHQNANKTTIPNLSSSRLKAFPIPLPPLEEQRAIADIL---- 179

Query: 179 VRIDTLITERIRFIELLKEKKQALVSYIVTKG---LNPDVKMKDSGIEWVGLVPDHWEVK 235
             +   I +  + I   K+ K++++ ++ T G   ++   ++K    E +GL+P+HWEV 
Sbjct: 180 STVQNAIEKTEKVINATKQLKKSMMKHLFTYGAVAVDEIDRIKLKESE-IGLIPEHWEVV 238

Query: 236 PFFALVTELNRKNTKLIES--------NILSLSYGNIIQKLETRNMGLKPESYETYQIVD 287
               +V      + +  E          I   +  +      ++      +     + + 
Sbjct: 239 RLGEVVDLDRGISWRKFEEGSKDNGHLIISIPNIKDGYIDFNSKYNHYLIKHIPKNKQIQ 298

Query: 288 PGEIVF--RFIDLQNDKRSLRSAQVMERGIITSAYM---AVKPHGIDSTYLAWLMRSYDL 342
             +I+F      ++N  R++    +   GI  ++++    VK + +   +L ++  S+  
Sbjct: 299 LNDILFVGSSGSIENVGRNVFIENLSFEGIGFASFVFRARVKVNTVIPKFLYFMANSHWF 358

Query: 343 C-KVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
             K +    S  + + +  + K + + +PP+ EQ  I N++      ID  ++  E+  V
Sbjct: 359 NYKDYVRRSSDGKYNFQLTEFKTIKIPLPPLDEQQKIANILTT----IDQKIQAEEKKKV 414

Query: 402 LLKERRSSFIAAAVTGQIDLR 422
            L+    + +   +TG+I +R
Sbjct: 415 ALRSLFKTLLHQLMTGKIRVR 435



 Score = 87.2 bits (214), Expect = 4e-15,   Method: Composition-based stats.
 Identities = 36/209 (17%), Positives = 68/209 (32%), Gaps = 14/209 (6%)

Query: 218 KDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN-----ILSLSYGNI-IQKLETR 271
           K      +GL+P+ WEV     +      K     E+         L   N+   K++  
Sbjct: 5   KGFKETEIGLIPEDWEVARLGEVFEVKQGKQLSAKENRDGKVLKPFLRTSNVLWNKIDLS 64

Query: 272 NMGLKP--ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID 329
            +   P  ES      +  G+I+                            +      I+
Sbjct: 65  ELSYMPFSESEFKNLKLKKGDILVCEGGDVGRTAVWDGQIDEISYQNHLHRLRSVKDNIN 124

Query: 330 STYLAWLMRSYDLCK--VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           + + A+ M      K             +L    +K  P+ +PP++EQ  I ++++    
Sbjct: 125 NYFFAYWMEYAITIKNLYHQNANKTTIPNLSSSRLKAFPIPLPPLEEQRAIADILSTV-- 182

Query: 388 RIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
                +EK E+ I   K+ + S +    T
Sbjct: 183 --QNAIEKTEKVINATKQLKKSMMKHLFT 209


>gi|254172634|ref|ZP_04879309.1| type I restriction modification system, subunit S [Thermococcus sp.
           AM4]
 gi|214033563|gb|EEB74390.1| type I restriction modification system, subunit S [Thermococcus sp.
           AM4]
          Length = 428

 Score =  163 bits (413), Expect = 4e-38,   Method: Composition-based stats.
 Identities = 70/425 (16%), Positives = 159/425 (37%), Gaps = 31/425 (7%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVESGTGKYL----PK 66
           IG IP+ WKVV ++    + TG T  +         ++ +I   D+    G        +
Sbjct: 12  IGEIPRDWKVVRVREIFDVKTGTTPSTKQTDYWENGEMNWITPTDLSKLNGNIYMGDSER 71

Query: 67  DGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQG 126
               +  +   +S+  KG ++     P    A++ +     +     L PKD    + + 
Sbjct: 72  KITKKALEDYNLSLLPKGSLILSTRAPVGYIAVLTEE-ATFNQGCKGLVPKDQNKIIPEF 130

Query: 127 WLLSIDVTQRI-EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
           +       ++  E++  G+T        +    +P+PP  EQ  I E +      +D  I
Sbjct: 131 YAYYFKFKRQHLESLSGGSTFKELAKAMLERFLVPLPPRLEQKKIAEIL----RTVDEAI 186

Query: 186 TERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN 245
            +    IE  +  K+ L+  ++TKG+    + K + I  +        ++     +    
Sbjct: 187 EKTDLAIEKTERLKKGLMLRLLTKGI-KHERFKKTEIGEIPEEWRVVRLEEITRRIKRGP 245

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET-----YQIVDPGEIVFRFIDLQN 300
            K T   E+ ++ ++   I           K  S E        +++ G+++   ++   
Sbjct: 246 SKKTDDNETGVVYVTSDYIDDHGNLNFDNPKYLSLEKIDRLDKYLLEEGDLIINCVNSLE 305

Query: 301 DKRSLRSAQVMERGII--TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ--S 356
               +   +   +  I   + +       ++  Y+ +   SY    +  ++     Q  S
Sbjct: 306 KIGKVAVFEGYSKKAIVGFNNFALTLVSTVNPYYVKYFFLSYKGKALIKSISKAAVQQVS 365

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
              +D+ RL + +PP+ EQ  I  +++    ++    E + +    L+  +   +   +T
Sbjct: 366 FSSKDLLRLKIPLPPLPEQKQIAEILSTVDKKL----ELLRKRREKLELVKRGLMKGLLT 421

Query: 417 GQIDL 421
           G+  +
Sbjct: 422 GRRRV 426


>gi|91776956|ref|YP_546712.1| restriction modification system DNA specificity subunit
           [Methylobacillus flagellatus KT]
 gi|91710943|gb|ABE50871.1| restriction modification system DNA specificity domain
           [Methylobacillus flagellatus KT]
          Length = 429

 Score =  163 bits (412), Expect = 5e-38,   Method: Composition-based stats.
 Identities = 94/420 (22%), Positives = 166/420 (39%), Gaps = 25/420 (5%)

Query: 21  IPKHWKVVPIKRFTKLNTGRT---SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +P  W    ++   + N  ++        ++ ++ ++ V    G  L +         + 
Sbjct: 9   LPAGWSRRRLRFDVRTNPVKSELELPGDAEVSFVPMDAVGELGGLRLDQ-TRELADVYAG 67

Query: 78  VSIFAKGQILYGKLGPYLRKA------IIADFDGICSTQFLVLQPKDVLPELLQGWLLS- 130
            + FA G +   K+ P            + +     +T+  VL+P   L      +L   
Sbjct: 68  YTYFADGDVCIAKITPCFENGKGAIAEGLKNGVAFGTTELHVLRPLPTLDARFLFYLTIA 127

Query: 131 IDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
            D     E+   GA          + +   P+P +  Q  I   +  +T +ID LI ++ 
Sbjct: 128 HDFRSHGESEMLGAGGQKRVPEGFLKDWTPPLPCIQVQQRIARFLDEKTAQIDGLIEKKR 187

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVT--ELNRK 247
             ++ L EK+QAL++  VTKG+NPD  MK SGI+W+G +P HWEV+      T  +    
Sbjct: 188 ALLDRLAEKRQALITRAVTKGMNPDAPMKPSGIDWLGDIPAHWEVRGLTKCTTRVDYRGA 247

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ------IVDPGEIVFRFIDLQND 301
             +   S +  ++  NI        +  +    + Y+      +   GE++F       +
Sbjct: 248 TPEKSSSGVFLVTAKNIKNGRIDYQISQEYIPEDIYEQAMRRGLPKLGEVLFTTEAPLGE 307

Query: 302 KRSLRSAQVMERGIITSAYMAVKPHGID-STYLAWLMRSYDLCKVFYAMGSG-LRQSLKF 359
              +      +  +               + YLA+ M S        +  +G     LK 
Sbjct: 308 ---IAQVDREDIALAQRIIKFTTSTPELENDYLAYWMMSMPFQAQIQSRATGSTAVGLKA 364

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
             +  LP L+PP  EQ DI + +     +ID +   I  S+    E R++ I AAVTGQI
Sbjct: 365 SKIVDLPCLLPPKDEQKDIISQVRQSLMKIDEIETAISDSLEFKIEYRAALITAAVTGQI 424



 Score = 79.1 bits (193), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 44/210 (20%), Positives = 87/210 (41%), Gaps = 8/210 (3%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLN--TGRTS-ESGKDIIYIGLEDVESGTGKY--L 64
            K SG+ W+G IP HW+V  + + T      G T  +S   +  +  +++++G   Y   
Sbjct: 215 MKPSGIDWLGDIPAHWEVRGLTKCTTRVDYRGATPEKSSSGVFLVTAKNIKNGRIDYQIS 274

Query: 65  PKDGNSRQSDTSTVSIFAK-GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPEL 123
            +       + +      K G++L+    P    A +   D   + + +         E 
Sbjct: 275 QEYIPEDIYEQAMRRGLPKLGEVLFTTEAPLGEIAQVDREDIALAQRIIKFTTSTPELEN 334

Query: 124 LQ--GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
                W++S+    +I++   G+T        I ++P  +PP  EQ  I  ++    ++I
Sbjct: 335 DYLAYWMMSMPFQAQIQSRATGSTAVGLKASKIVDLPCLLPPKDEQKDIISQVRQSLMKI 394

Query: 182 DTLITERIRFIELLKEKKQALVSYIVTKGL 211
           D + T     +E   E + AL++  VT  +
Sbjct: 395 DEIETAISDSLEFKIEYRAALITAAVTGQI 424


>gi|225026441|ref|ZP_03715633.1| hypothetical protein EUBHAL_00690 [Eubacterium hallii DSM 3353]
 gi|224956233|gb|EEG37442.1| hypothetical protein EUBHAL_00690 [Eubacterium hallii DSM 3353]
          Length = 408

 Score =  163 bits (412), Expect = 6e-38,   Method: Composition-based stats.
 Identities = 85/419 (20%), Positives = 163/419 (38%), Gaps = 27/419 (6%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDG 68
           + KDSG++WIG IP  W + P          + ++      +   +  E    K +    
Sbjct: 10  EMKDSGIEWIGDIPSSWTIFPANGVFSEVKEKNTDLKFTNAF-SFKYGEIVDKKQVGDVD 68

Query: 69  NSRQSDTSTVSIFAKGQILYG----KLGPYLRKAIIADFDGICSTQFLVLQP--KDVLPE 122
           N+ +   S+ +I  K  I+            ++  I +  GI ++ +L +QP    + P 
Sbjct: 69  NNLKETLSSYTIVRKNTIMINGLNLNYDFVSQRVAIVNESGIITSAYLAIQPDENKINPR 128

Query: 123 LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
            +   L S D  Q    +  G       ++    I +  P L+EQ +I + +     +ID
Sbjct: 129 FVLYLLKSYDYQQVFHGLGSG-IRKTLKYQDFKKIMIVAPTLSEQQVIADYLDKTCSQID 187

Query: 183 TLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVT 242
            +I E    I   KE KQ+++   VTKGL+ +V+MKDSG+ W+G +P  WE+     ++ 
Sbjct: 188 EIIAEAKASIYEYKELKQSVIFEAVTKGLDKNVEMKDSGVYWIGKIPLDWEIIKTKYVIK 247

Query: 243 ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK 302
             N  N    E  I     G               +S++T      G  V   +  +   
Sbjct: 248 IENGSNPS-TEGKIPVYGSG--------------AKSFKTCGEYKEGPTVL--LGRKGAT 290

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDV 362
             +      +   + +A+  +  +  +   L +             +       +   + 
Sbjct: 291 LHIPHYIEGKYWNVDTAFNTIPIN--NKIELKYFYYVASCFDYNKYISQTTLPGMTQTNY 348

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           + + +  P I  Q ++   ++ +   +D L+ + E  I  L+  + S I   VTG+  +
Sbjct: 349 RNIYMPYPSITIQEELVKWLDNKIFELDSLISEKESLINDLEAYKKSLIYEVVTGKRKV 407



 Score =  120 bits (300), Expect = 5e-25,   Method: Composition-based stats.
 Identities = 75/207 (36%), Positives = 126/207 (60%), Gaps = 3/207 (1%)

Query: 213 PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
           P+ +MKDSGIEW+G +P  W + P   + +E+  KNT L  +N  S  YG I+ K +  +
Sbjct: 7   PETEMKDSGIEWIGDIPSSWTIFPANGVFSEVKEKNTDLKFTNAFSFKYGEIVDKKQVGD 66

Query: 273 MGLK-PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP--HGID 329
           +     E+  +Y IV    I+   ++L  D  S R A V E GIITSAY+A++P  + I+
Sbjct: 67  VDNNLKETLSSYTIVRKNTIMINGLNLNYDFVSQRVAIVNESGIITSAYLAIQPDENKIN 126

Query: 330 STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
             ++ +L++SYD  +VF+ +GSG+R++LK++D K++ ++ P + EQ  I + ++   ++I
Sbjct: 127 PRFVLYLLKSYDYQQVFHGLGSGIRKTLKYQDFKKIMIVAPTLSEQQVIADYLDKTCSQI 186

Query: 390 DVLVEKIEQSIVLLKERRSSFIAAAVT 416
           D ++ + + SI   KE + S I  AVT
Sbjct: 187 DEIIAEAKASIYEYKELKQSVIFEAVT 213


>gi|260891564|ref|ZP_05902827.1| hypothetical protein GCWU000323_02779 [Leptotrichia hofstadii
           F0254]
 gi|260858672|gb|EEX73172.1| hypothetical protein GCWU000323_02779 [Leptotrichia hofstadii
           F0254]
          Length = 461

 Score =  161 bits (407), Expect = 2e-37,   Method: Composition-based stats.
 Identities = 75/438 (17%), Positives = 168/438 (38%), Gaps = 28/438 (6%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGR-TSESGKDIIYIGLEDVESGTGKYL 64
            Y +YK + + W   +P +W +  I     +   + +    K+I+ +  +   S      
Sbjct: 3   KYERYKSTELSWSKHLPYYWNIKRIASIFDIRKEKNSPVRTKEILSLSAKYGVSLYSDKK 62

Query: 65  PKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELL 124
            K GN  + D ++  +   G IL   +        I+++ G  S  +  L   +      
Sbjct: 63  EKGGNKPKEDLTSYYLCYSGDILVNCMNIVAGSVGISNYFGAVSPVYYPLLNMNADENCT 122

Query: 125 QGWLLSIDVTQRIEAICE---------------GATMSHADWKGIGNIPMPIPPLAEQVL 169
           +             ++                         W  +    +P+PP+ EQV 
Sbjct: 123 RYMEYVFRNYNFQRSLVGLGKGIQMSESEDGKLFTVRMRISWDILKTQLLPVPPIEEQVQ 182

Query: 170 IREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVP 229
           I   +  +   I+ LI         +KE ++ ++S      LN D ++K   IE      
Sbjct: 183 IANYLDWKINEINKLIEINKEK---IKEIRKYIISEHERLILNNDSEVKKLIIENNIYDY 239

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG 289
              ++K           +    ++S+I+  S          + +GL  ++ + YQ ++ G
Sbjct: 240 SDKKIKIKRLKSVLKKIEKEASLDSDIIICSNNGKSFVRGDKKIGLYSDNIKMYQNINKG 299

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
           +++   +D  +    +            +  + V     D  Y+ + +R     +++   
Sbjct: 300 QLMIHGMDTWHGAICISDYNGR-----CTKVVHVCETNEDKMYIYYYLRLLAFLEMYKPF 354

Query: 350 GSGLRQSLK----FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
            +G+RQ+      ++ + ++ +++P I++Q++I+N +       + L+ +I     +L +
Sbjct: 355 SNGVRQNTSDFRSWDKLGQINIIIPLIEKQYEISNTLTEIINNSEKLILEIINESEMLNK 414

Query: 406 RRSSFIAAAVTGQIDLRG 423
            + S I+  VTGQID+R 
Sbjct: 415 LKQSLISEVVTGQIDVRD 432


>gi|320352395|ref|YP_004193734.1| restriction modification system DNA specificity domain-containing
           protein [Desulfobulbus propionicus DSM 2032]
 gi|320120897|gb|ADW16443.1| restriction modification system DNA specificity domain protein
           [Desulfobulbus propionicus DSM 2032]
          Length = 357

 Score =  160 bits (405), Expect = 3e-37,   Method: Composition-based stats.
 Identities = 89/333 (26%), Positives = 134/333 (40%), Gaps = 19/333 (5%)

Query: 110 QFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVL 169
             +   P       +  +L S +    +E      T  +     I N+ +P+  + EQ  
Sbjct: 15  AAIRCNPSRADKRFIYFYLQSKEFQTGVELSWSFGTQQNIGMGVIQNLAVPLGTIPEQTA 74

Query: 170 IREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV----------TKGLNPDVKMKD 219
           I + +  ET RIDTL+T++ R I LL EK+ AL+S  V            GL P  + KD
Sbjct: 75  IADFLDRETGRIDTLVTKKRRLIALLGEKRTALISRTVTRGLPAEAAREFGLKPHTRFKD 134

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII-----QKLETRNMG 274
           SGIEW+G VP+ WEV  F   V     +     E     +  G         +L +    
Sbjct: 135 SGIEWLGEVPEGWEVVKFSREVKIAEGQVDPEREPYSTMVLIGPEHVEAGTGRLVSEATA 194

Query: 275 LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
               +         GE+++  I     K        +        Y       + + Y+ 
Sbjct: 195 EDQAAISGKYYCHKGEVIYSKIRPALRKVVKAKNDCL---CSADMYPLGGRDKLLNDYIY 251

Query: 335 WLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
           WL  S                  +    +  L + VP   EQ  I   +N ETA+ID L 
Sbjct: 252 WLFLSDQFAAWSVLEADRVAMPKINRNTLNELRLPVPVGSEQAAIATYLNRETAKIDQLF 311

Query: 394 EKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
            K+E +IV L E R++ I AAVTG+ID+RG++ 
Sbjct: 312 TKVEAAIVRLLEYRTALITAAVTGKIDVRGKAD 344



 Score =  114 bits (284), Expect = 4e-23,   Method: Composition-based stats.
 Identities = 60/212 (28%), Positives = 101/212 (47%), Gaps = 4/212 (1%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDII---YIGLEDVESGTG 61
           K + ++KDSG++W+G +P+ W+VV   R  K+  G+     +       IG E VE+GTG
Sbjct: 127 KPHTRFKDSGIEWLGEVPEGWEVVKFSREVKIAEGQVDPEREPYSTMVLIGPEHVEAGTG 186

Query: 62  KYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV-L 120
           + + +     Q+  S      KG+++Y K+ P LRK + A  D +CS     L  +D  L
Sbjct: 187 RLVSEATAEDQAAISGKYYCHKGEVIYSKIRPALRKVVKAKNDCLCSADMYPLGGRDKLL 246

Query: 121 PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
            + +    LS           +   M   +   +  + +P+P  +EQ  I   +  ET +
Sbjct: 247 NDYIYWLFLSDQFAAWSVLEADRVAMPKINRNTLNELRLPVPVGSEQAAIATYLNRETAK 306

Query: 181 IDTLITERIRFIELLKEKKQALVSYIVTKGLN 212
           ID L T+    I  L E + AL++  VT  ++
Sbjct: 307 IDQLFTKVEAAIVRLLEYRTALITAAVTGKID 338


>gi|171915570|ref|ZP_02931040.1| putative restriction endonuclease S subunit [Verrucomicrobium
           spinosum DSM 4136]
          Length = 299

 Score =  160 bits (404), Expect = 4e-37,   Method: Composition-based stats.
 Identities = 87/281 (30%), Positives = 144/281 (51%), Gaps = 8/281 (2%)

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           G TM +   + +  +P+  P    Q  I   +  ET RID L++ + R +EL+ EK++AL
Sbjct: 16  GTTMDNLGAETVAELPIQAPSPPRQHSIATYLDRETKRIDELVSVKERLLELVAEKRRAL 75

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
           ++  VT+GLNP   ++DSGI W+G +P+HW+V+    L TE + +++   E  +      
Sbjct: 76  ITRAVTRGLNPKAALRDSGIPWLGAIPEHWQVERSKWLFTERDERSSTGEEEMLTVSHLT 135

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
            +  + E      + E+ E Y++  P ++V   +           A     G+++ AY  
Sbjct: 136 GVTPRAEKDVNMFEAETTEGYKLCQPNDLVINTLWAWMGAMGTARA----PGMVSPAYHV 191

Query: 323 VKP-HGIDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDI 378
             P   +DS Y+  L+R     +       G+   R  L  E +  +   VPP++EQ  I
Sbjct: 192 YTPGDRLDSDYVDALVRIPIFAQEAIRFSKGVWSSRLRLYPEGLYEIWFPVPPLEEQRAI 251

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
              I  ETA++D L    E++I LLKERR++ I+AAVTG+I
Sbjct: 252 VTHIARETAKLDALRASAERTIALLKERRAALISAAVTGKI 292



 Score = 97.9 bits (242), Expect = 3e-18,   Method: Composition-based stats.
 Identities = 51/204 (25%), Positives = 82/204 (40%), Gaps = 5/204 (2%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNS 70
           +DSG+ W+GAIP+HW+V   K        R+S   +++  + +  +   T +        
Sbjct: 91  RDSGIPWLGAIPEHWQVERSKWLFTERDERSSTGEEEM--LTVSHLTGVTPRAEKDVNMF 148

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQG-WLL 129
               T    +     ++   L  ++     A   G+ S  + V  P D L        + 
Sbjct: 149 EAETTEGYKLCQPNDLVINTLWAWMGAMGTARAPGMVSPAYHVYTPGDRLDSDYVDALVR 208

Query: 130 SIDVTQRIEAICEGAT--MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
                Q      +G          +G+  I  P+PPL EQ  I   I  ET ++D L   
Sbjct: 209 IPIFAQEAIRFSKGVWSSRLRLYPEGLYEIWFPVPPLEEQRAIVTHIARETAKLDALRAS 268

Query: 188 RIRFIELLKEKKQALVSYIVTKGL 211
             R I LLKE++ AL+S  VT  +
Sbjct: 269 AERTIALLKERRAALISAAVTGKI 292



 Score = 64.0 bits (154), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 23/68 (33%), Positives = 32/68 (47%)

Query: 349 MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
                  +L  E V  LP+  P    Q  I   ++ ET RID LV   E+ + L+ E+R 
Sbjct: 14  SVGTTMDNLGAETVAELPIQAPSPPRQHSIATYLDRETKRIDELVSVKERLLELVAEKRR 73

Query: 409 SFIAAAVT 416
           + I  AVT
Sbjct: 74  ALITRAVT 81


>gi|229819988|ref|YP_002881514.1| restriction modification system DNA specificity domain protein
           [Beutenbergia cavernae DSM 12333]
 gi|229565901|gb|ACQ79752.1| restriction modification system DNA specificity domain protein
           [Beutenbergia cavernae DSM 12333]
          Length = 427

 Score =  160 bits (404), Expect = 4e-37,   Method: Composition-based stats.
 Identities = 104/412 (25%), Positives = 166/412 (40%), Gaps = 31/412 (7%)

Query: 34  TKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV---SIFAKGQILYGK 90
                 +  +   DI  + L DV  G GK+  K       +T      S    G IL  +
Sbjct: 19  GDWVESKDQDPDGDIRLLQLADV--GDGKFKDKSDRWINEETFRRLRCSWVHPGDILIAR 76

Query: 91  L-GPYLRKAIIADFDG----ICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           +  P  R  ++ +  G    +     L   P       L   + S      +E   +GAT
Sbjct: 77  MPDPLGRACVVPEGLGKTITVVDVAVLRPDPDQADAGYLTYAINSAKTRSEVERQQDGAT 136

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
                 K +G + +P+PPL EQ  I + + AET +ID LI E+ R I LLKE++ + +  
Sbjct: 137 RQRIPRKRLGRVSIPLPPLEEQRRIADFLDAETTQIDALIAEQERLIGLLKERRASGILQ 196

Query: 206 IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFAL------VTELNRKNTKLIESNILSL 259
            VT+GL  DV +K S + WV  VP HW V             T         ++++I   
Sbjct: 197 AVTRGL-RDVDLKPSTLTWVDAVPLHWTVANIRRFAAMKTGHTPSRSNPEYWVDTHIPWF 255

Query: 260 SYGNIIQKLETRNMGLKPESY---------ETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
           +  ++ Q  + R   L                 +++  G +V            +     
Sbjct: 256 TLADVWQVRDGRRTHLGETENTISDLGLANSAAELLPAGTVVLSRTASVGFSGVMPRPM- 314

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP 370
                    +  V    +   YL +L R+         +GS   +++       + V VP
Sbjct: 315 ---ATSQDFWNWVCGPELVPEYLMYLFRAMRGEFNALMIGS-THKTIYQPVAAAIRVPVP 370

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
           P++EQ +I   I+  T + D L+ + E +I L KERR++ I AAVTGQID+ 
Sbjct: 371 PLEEQHEIVARIDERTRKTDALINEAEHNIALSKERRAALITAAVTGQIDVT 422



 Score = 69.4 bits (168), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 52/215 (24%), Positives = 82/215 (38%), Gaps = 15/215 (6%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLED---VESGT 60
           K S + W+ A+P HW V  I+RF  + TG T             I +  L D   V  G 
Sbjct: 208 KPSTLTWVDAVPLHWTVANIRRFAAMKTGHTPSRSNPEYWVDTHIPWFTLADVWQVRDGR 267

Query: 61  GKYLPKDGNSRQS---DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPK 117
             +L +  N+        S   +   G ++  +    +  + +       S  F      
Sbjct: 268 RTHLGETENTISDLGLANSAAELLPAGTVVLSRT-ASVGFSGVMPRPMATSQDFWNWVCG 326

Query: 118 DVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
             L      +L    +     A+  G+T           I +P+PPL EQ  I  +I   
Sbjct: 327 PELVPEYLMYLFR-AMRGEFNALMIGSTHKTIYQPVAAAIRVPVPPLEEQHEIVARIDER 385

Query: 178 TVRIDTLITERIRFIELLKEKKQALVSYIVTKGLN 212
           T + D LI E    I L KE++ AL++  VT  ++
Sbjct: 386 TRKTDALINEAEHNIALSKERRAALITAAVTGQID 420


>gi|330469019|ref|YP_004406762.1| restriction modification system DNA specificity subunit
           [Verrucosispora maris AB-18-032]
 gi|328811990|gb|AEB46162.1| restriction modification system DNA specificity subunit
           [Verrucosispora maris AB-18-032]
          Length = 428

 Score =  160 bits (404), Expect = 4e-37,   Method: Composition-based stats.
 Identities = 86/428 (20%), Positives = 158/428 (36%), Gaps = 34/428 (7%)

Query: 24  HWKVVPIKRFTK-LNTGRTSES----GKDIIYIGLEDVESGT-GKYLPKDGNSRQSDTST 77
            W  + +K   + + TG           DI+ + + D +    G    +   S       
Sbjct: 5   SWPRMRLKSLVEPVQTGVWGAEPAGDNDDILCVRVADFDRQRLGLKSVETVRSVSEADRA 64

Query: 78  VSIFAKGQILYGKLG-----PYLRKAIIADFDGICSTQFL--VLQPKDVLPELL-QGWLL 129
             +   G IL  K G     P     +        S+ F+  V       P         
Sbjct: 65  TRLLRAGDILLEKSGGTEAKPVGFTVMFDGGYPAVSSNFIGRVRMRDGQHPRFWLYALAA 124

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
           S    +  + + +   + + D     N    +P L EQ  I + +  ET RIDTLI E+ 
Sbjct: 125 SYLTRRTQKCVRQTTGIQNLDQGAFFNEVFAVPTLGEQRAIADYLDRETTRIDTLIEEQQ 184

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNT 249
             IE+L+E++ AL  ++   G    V   +S + W   +P  W V P  ++    +    
Sbjct: 185 HLIEMLRERRNALRVHVALHG-TRQVAEVESPLPWASKIPASWRVVPLTSVAQLESGHTP 243

Query: 250 ------KLIESNILSLSY-------GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFI 296
                    +  I  +S        G        + +     +  + +++    +V    
Sbjct: 244 SRSREDWWTDCYIPWVSLHDVGAMRGTKYLHDTEQRISDAGIANSSARLLPARTVVLSRD 303

Query: 297 DLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQ 355
                   +           +  + A     +      W++ +  +   F +  +G   +
Sbjct: 304 ATVGRTAIMAV-----PMATSQHFAAWVCGPLLDPEYLWVLFADAMQPFFDSFQNGSTIR 358

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           ++   D+K   + +PP+ EQ  I   ++ ET +ID L+ + E+ I L +ERR++ I AAV
Sbjct: 359 TIGMGDLKAFRIPLPPLDEQRRIVEYLDEETPKIDTLIVETERFIELARERRAALITAAV 418

Query: 416 TGQIDLRG 423
           TGQID+R 
Sbjct: 419 TGQIDVRE 426



 Score = 87.9 bits (216), Expect = 3e-15,   Method: Composition-based stats.
 Identities = 49/212 (23%), Positives = 88/212 (41%), Gaps = 12/212 (5%)

Query: 12  DSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDV----ESGT 60
           +S + W   IP  W+VVP+    +L +G T    ++       I ++ L DV     +  
Sbjct: 213 ESPLPWASKIPASWRVVPLTSVAQLESGHTPSRSREDWWTDCYIPWVSLHDVGAMRGTKY 272

Query: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL 120
                +  +      S+  +     ++  +    + +  I       S  F       +L
Sbjct: 273 LHDTEQRISDAGIANSSARLLPARTVVLSR-DATVGRTAIMAVPMATSQHFAAWVCGPLL 331

Query: 121 PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
                  L +  +    ++   G+T+       +    +P+PPL EQ  I E +  ET +
Sbjct: 332 DPEYLWVLFADAMQPFFDSFQNGSTIRTIGMGDLKAFRIPLPPLDEQRRIVEYLDEETPK 391

Query: 181 IDTLITERIRFIELLKEKKQALVSYIVTKGLN 212
           IDTLI E  RFIEL +E++ AL++  VT  ++
Sbjct: 392 IDTLIVETERFIELARERRAALITAAVTGQID 423


>gi|218550389|ref|YP_002384180.1| Specificity determinant for hsdM and hsdR [Escherichia fergusonii
           ATCC 35469]
 gi|218357930|emb|CAQ90574.1| Specificity determinant for hsdM and hsdR (modular protein)
           [Escherichia fergusonii ATCC 35469]
          Length = 502

 Score =  159 bits (403), Expect = 5e-37,   Method: Composition-based stats.
 Identities = 69/456 (15%), Positives = 145/456 (31%), Gaps = 56/456 (12%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSESGKD------IIYIGLEDVESGTGKYLPKDGNSRQ 72
           G +P+ W    ++      +G T     D      I +I   D+         +      
Sbjct: 4   GKLPEGWVETNLQNVASWGSGGTPSRNHDEYYNGNIPWIKTGDLGPKIITNASEYITDAG 63

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
              S+   F KG +     G  + K  I   D   +    V  P + +   L  +   ++
Sbjct: 64  VQNSSAKFFPKGSVAIAMYGATIGKTSILGIDATTNQACAVGTPLEGITSTLFLYYFLLN 123

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
                    +G    +     I    + +PPLAEQ +I EK+     ++D+      +  
Sbjct: 124 EKNAFIKKGKGGAQPNISQTVIKEHIIYLPPLAEQKIITEKLDTLLAQVDSTKARLEQIP 183

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMK----DSGIEWVGLV-------------------- 228
           ++LK  +QA++   V   L    +       S  E +  +                    
Sbjct: 184 QILKRFRQAVLERAVNGKLTECWRDCVGELTSAEEIITEIKKYRKASLSTEGSSASTESK 243

Query: 229 ------------------PDHWEVKPF---FALVTELNRKNTKLIESNILSLSYGNIIQK 267
                             P  W    F      V + + K    ++  I  +   +I   
Sbjct: 244 RQIAKIEKHCFKVPKINLPKGWVWTTFLQSMEKVVDCHNKTAPYVDQGIHLIRTPDIRNG 303

Query: 268 LETRNMGLKPES-----YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
           + + +     ++     +        G+I+F       +   +    ++  G        
Sbjct: 304 VISLDNTKYIDNDTYLYWSKRCPPRSGDIIFTREAPMGEAGIVPENTIICMGQRMMLLRP 363

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
           +  +  +   L  ++ S    ++         + L+  DV+ L   +PPI+EQ +I   +
Sbjct: 364 IPEYIHNKYVLLNILSSSFQTRMISQAIGTGVKHLRVADVESLTYPLPPIEEQHEIVRRV 423

Query: 383 NVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
               A  D + +++  ++  +     S +A A  G+
Sbjct: 424 EQLFAYADTIEKQVNNALARVNNLTQSILAKAFRGE 459



 Score = 61.3 bits (147), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 30/205 (14%), Positives = 67/205 (32%), Gaps = 9/205 (4%)

Query: 21  IPKHWKVVPI----KRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           +PK W         ++    +        + I  I   D+ +G             +   
Sbjct: 261 LPKGWVWTTFLQSMEKVVDCHNKTAPYVDQGIHLIRTPDIRNGVISLDNTKYIDNDTYLY 320

Query: 77  TVSIFAK--GQILYGKLGPYLRKAIIADFDGIC---STQFLVLQPKDVLPELLQGWLLSI 131
                    G I++ +  P     I+ +   IC       L   P+ +  + +   +LS 
Sbjct: 321 WSKRCPPRSGDIIFTREAPMGEAGIVPENTIICMGQRMMLLRPIPEYIHNKYVLLNILSS 380

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
               R+ +   G  + H     + ++  P+PP+ EQ  I  ++       DT+  +    
Sbjct: 381 SFQTRMISQAIGTGVKHLRVADVESLTYPLPPIEEQHEIVRRVEQLFAYADTIEKQVNNA 440

Query: 192 IELLKEKKQALVSYIVTKGLNPDVK 216
           +  +    Q++++      L    +
Sbjct: 441 LARVNNLTQSILAKAFRGELTAQWR 465


>gi|313634897|gb|EFS01303.1| putative type-1 restriction enzyme MjaXIP specificity protein
           [Listeria seeligeri FSL N1-067]
          Length = 439

 Score =  159 bits (403), Expect = 5e-37,   Method: Composition-based stats.
 Identities = 79/414 (19%), Positives = 154/414 (37%), Gaps = 26/414 (6%)

Query: 26  KVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           +V  +K  + + TG T     +       I ++   ++     + L              
Sbjct: 15  EVSKLKYVSDIITGNTPSKLNESFYENGIIDWVKPNNITDDY-RLLKSKDKLSIKGVRKA 73

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
            +  +   L   +G   + A+  +          V+  K          +         +
Sbjct: 74  RVVPRNSTLVCAIGTIGKLALSEEEVTTNQQINSVIFTKINKKYGFYILVCME---NEFK 130

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
                  +S  +   + N+ +  P    Q  I   + ++   ID LI+ + + I+LL+E+
Sbjct: 131 KYSNKVVVSILNKTSMENLKIISPSPIRQERICLFLDSKLSEIDFLISSKEKQIKLLEEQ 190

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVT-----ELNRKNTKLIE 253
           +QA+++  VTKGLN  V+MKDSG+EW+G +P HWE+                   +    
Sbjct: 191 RQAMITEAVTKGLNSSVRMKDSGVEWIGEIPKHWEIAKIKYTTYVKGRIGWQGLRSDEFI 250

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQI-----VDPGEIVFRFIDLQNDKRSLRSA 308
            +   L  G   +            S + Y       +   +++            ++  
Sbjct: 251 DDGPYLVTGTNFKNGIVDWQDCYHISEDRYNEAVPIQLKEDDLLITKDGTIGKLALVK-- 308

Query: 309 QVMERGIITSAYMAVKP--HGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRL 365
           ++  + I+ S     +P  +   + YL W + S    +    M +G   + L  E     
Sbjct: 309 EMPGKTILNSGIFVTRPLANKYINNYLYWNLNSASFSQYIRTMETGSTIKHLYQETFVNY 368

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
              +P ++EQ  I+  +N +  ++  +++ I   I  LKE R S I  AVTG+I
Sbjct: 369 SYALPSLEEQESISCYLNNKNQKLGNVIQNITIQISKLKEYRHSLIHEAVTGKI 422



 Score = 89.9 bits (221), Expect = 8e-16,   Method: Composition-based stats.
 Identities = 54/214 (25%), Positives = 89/214 (41%), Gaps = 12/214 (5%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTG------RTSESGKDIIYI-GLEDVESGTGK 62
            KDSGV+WIG IPKHW++  IK  T +         R+ E   D  Y+    + ++G   
Sbjct: 209 MKDSGVEWIGEIPKHWEIAKIKYTTYVKGRIGWQGLRSDEFIDDGPYLVTGTNFKNGIVD 268

Query: 63  YLPKDGNSRQSDTSTVSI-FAKGQILYGKLGPYLRKAIIADFDG--ICSTQFLVLQP--K 117
           +      S       V I   +  +L  K G   + A++ +  G  I ++   V +P   
Sbjct: 269 WQDCYHISEDRYNEAVPIQLKEDDLLITKDGTIGKLALVKEMPGKTILNSGIFVTRPLAN 328

Query: 118 DVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
             +   L   L S   +Q I  +  G+T+ H   +   N    +P L EQ  I   +  +
Sbjct: 329 KYINNYLYWNLNSASFSQYIRTMETGSTIKHLYQETFVNYSYALPSLEEQESISCYLNNK 388

Query: 178 TVRIDTLITERIRFIELLKEKKQALVSYIVTKGL 211
             ++  +I      I  LKE + +L+   VT  +
Sbjct: 389 NQKLGNVIQNITIQISKLKEYRHSLIHEAVTGKI 422



 Score = 74.8 bits (182), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 29/195 (14%), Positives = 66/195 (33%), Gaps = 2/195 (1%)

Query: 224 WVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMG--LKPESYE 281
           W       +EV     +   +       +  +       + ++     +    LK +   
Sbjct: 6   WYDKCMPDFEVSKLKYVSDIITGNTPSKLNESFYENGIIDWVKPNNITDDYRLLKSKDKL 65

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD 341
           + + V    +V R   L     ++    + E  + T+  +        +    + +    
Sbjct: 66  SIKGVRKARVVPRNSTLVCAIGTIGKLALSEEEVTTNQQINSVIFTKINKKYGFYILVCM 125

Query: 342 LCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
             +        +   L    ++ L ++ P    Q  I   ++ + + ID L+   E+ I 
Sbjct: 126 ENEFKKYSNKVVVSILNKTSMENLKIISPSPIRQERICLFLDSKLSEIDFLISSKEKQIK 185

Query: 402 LLKERRSSFIAAAVT 416
           LL+E+R + I  AVT
Sbjct: 186 LLEEQRQAMITEAVT 200


>gi|331007189|ref|ZP_08330402.1| Type I restriction-modification system, specificity subunit S
           [gamma proteobacterium IMCC1989]
 gi|330419021|gb|EGG93474.1| Type I restriction-modification system, specificity subunit S
           [gamma proteobacterium IMCC1989]
          Length = 288

 Score =  159 bits (403), Expect = 6e-37,   Method: Composition-based stats.
 Identities = 78/289 (26%), Positives = 134/289 (46%), Gaps = 7/289 (2%)

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
             +          +  I N  + +PP  EQV I   +  +T +ID  I  + + I LLKE
Sbjct: 1   MKLLGSGVRQTISFNHIANSLLILPPETEQVAIANFLDQKTAQIDEAIAIKEKQIALLKE 60

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
           +KQ ++   VT+GLNPDV MKDSG++W+G +PDHW VK    ++ E N ++    E   +
Sbjct: 61  RKQIIIQKAVTQGLNPDVPMKDSGVDWIGQIPDHWGVKRLKYVLDERNERSKTGEEPLFM 120

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
                 ++ + +  +      S    ++V   ++VF  +           + +   G+++
Sbjct: 121 VSQVHGLVVRADYHDKAEVAASNIDNKVVYKNDLVFNKLKA--HLGVFFKSNIEFEGLVS 178

Query: 318 SAYMAVKPHGI--DSTYLAWLMRSYDLCKVFYAMGSGLRQ---SLKFEDVKRLPVLVPPI 372
             Y   K      D  YL  L R     + F    +G+ +    L   D+  +PV + P 
Sbjct: 179 PDYAVYKCKAHIADVKYLELLFRHSSYIEQFIIRATGIVEGLIRLYTGDLFDIPVPIAPE 238

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            EQ +I   I  ++   D  V+  ++ I  LKE +++ I +AVTG+I +
Sbjct: 239 NEQLEILAYIEKQSKTFDRAVDLQQRQIQKLKEYKTTLINSAVTGKIKV 287



 Score = 84.8 bits (208), Expect = 2e-14,   Method: Composition-based stats.
 Identities = 46/208 (22%), Positives = 80/208 (38%), Gaps = 8/208 (3%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGN 69
            KDSGV WIG IP HW V  +K        R+    + +  +           Y  K   
Sbjct: 80  MKDSGVDWIGQIPDHWGVKRLKYVLDERNERSKTGEEPLFMVSQVHGLVVRADYHDK--A 137

Query: 70  SRQSDTSTVSIFAKGQILYGKLGPYLRKAI--IADFDGICSTQFLVLQPKDVLPELLQ-- 125
              +      +  K  +++ KL  +L        +F+G+ S  + V + K  + ++    
Sbjct: 138 EVAASNIDNKVVYKNDLVFNKLKAHLGVFFKSNIEFEGLVSPDYAVYKCKAHIADVKYLE 197

Query: 126 GWLLSIDVTQRIEAICEG--ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
                    ++      G    +       + +IP+PI P  EQ+ I   I  ++   D 
Sbjct: 198 LLFRHSSYIEQFIIRATGIVEGLIRLYTGDLFDIPVPIAPENEQLEILAYIEKQSKTFDR 257

Query: 184 LITERIRFIELLKEKKQALVSYIVTKGL 211
            +  + R I+ LKE K  L++  VT  +
Sbjct: 258 AVDLQQRQIQKLKEYKTTLINSAVTGKI 285


>gi|147920296|ref|YP_685933.1| type I restriction modification system, specificity subunit
           [uncultured methanogenic archaeon RC-I]
 gi|110621329|emb|CAJ36607.1| type I restriction modification system, specificity subunit
           [uncultured methanogenic archaeon RC-I]
          Length = 484

 Score =  159 bits (402), Expect = 7e-37,   Method: Composition-based stats.
 Identities = 83/436 (19%), Positives = 154/436 (35%), Gaps = 39/436 (8%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRT-SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
            +P  W    +      +  +      + I YIGLE +E  TGK L    ++    TST 
Sbjct: 6   ELPTGWCSTDLGDIISPSKEKIEPVKTESIPYIGLEHIEKDTGKLLSFGNST--EVTSTK 63

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL-SIDVTQRI 137
           ++F KG +LYGKL PYL K  + + DGICST  LV   +  L   L  + +   D  +  
Sbjct: 64  TVFHKGDLLYGKLRPYLNKVCVTEIDGICSTDILVFNEQRFLSNKLLKYRMLCPDFVRYA 123

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
                G      D+K I +  + +PPLAEQ  I  KI     ++D  +    +  E +K+
Sbjct: 124 NQNATGVNHPRVDFKKIASFEIALPPLAEQHRIVAKIEELFTQLDAGVEALKKAKEQIKQ 183

Query: 198 KKQALVSYIVTKGLNPDVKM--------------------------KDSGIEWVGLVPDH 231
            +QA++       L    ++                              +E    +P+ 
Sbjct: 184 YRQAVLESAFNGKLTEKWRLSSKEYIAPISEFISNVQKTRSTDGKTVCDQLESTLEMPNG 243

Query: 232 WEVKPFFALVTELNR------KNTKLIESNILSLSYGNIIQKLETRNMGLKPE---SYET 282
           W     + +                     I  ++   +  +  T+      E       
Sbjct: 244 WLGVLLYQIADIGTGATPLRSNKNYYENGTIPWITSSAVNSQYITKADEFITELAIKETN 303

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
            +I     ++         +  +    +        A +      +       L    + 
Sbjct: 304 AKIFPKNSLIIALYGEGKTRGKVSELLIEAATNQACAAIIFNDQTVVLKPFIKLYFQKNY 363

Query: 343 CKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
             +      G++ +L    +K   + +PP+ EQ  I   I  +   ++ + + I+QS+  
Sbjct: 364 EDLRKLASGGVQPNLNLGIIKSTLIPLPPLAEQEIIVGEIEKKFPIMEDIEKTIDQSLSY 423

Query: 403 LKERRSSFIAAAVTGQ 418
            +  R S ++ A +G+
Sbjct: 424 SETLRQSILSQAFSGK 439


>gi|124515150|gb|EAY56661.1| probable restriction endonuclease, S subunit [Leptospirillum
           rubarum]
          Length = 232

 Score =  159 bits (402), Expect = 8e-37,   Method: Composition-based stats.
 Identities = 93/239 (38%), Positives = 139/239 (58%), Gaps = 10/239 (4%)

Query: 1   MKH--YKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVES 58
           M    +  YP+YKDSGV+W+G +P+HW+V  +K    L+T +          + LE++ES
Sbjct: 1   MNQSPWPPYPKYKDSGVEWLGELPEHWEVKKLKYCLLLSTRKIEPQKSQ---VALENIES 57

Query: 59  GTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKD 118
            TG+++  +        +    F +G IL+GKL PYL K  +A F G     F V++P  
Sbjct: 58  WTGRFIETETKFEGDGIA----FEEGDILFGKLRPYLAKVFLAQFSGEAVGDFFVMRPFP 113

Query: 119 VLPELLQGWLLSID-VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
                   + +        I++   GA M   DW+ +GN+ + +P L+EQ+ I   +  E
Sbjct: 114 TTDGRFIQYQILNKTFISIIDSSTFGAKMPRVDWEFMGNMELTLPSLSEQLAIASFLDRE 173

Query: 178 TVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKP 236
           T RIDTLI+E+ R I LL+E +QAL+S+ VTKGL+P VKMKDSG+EW+G VP+HWE+  
Sbjct: 174 TSRIDTLISEKERLISLLQEYRQALISHAVTKGLDPKVKMKDSGVEWLGEVPEHWEIYK 232



 Score =  118 bits (295), Expect = 2e-24,   Method: Composition-based stats.
 Identities = 48/205 (23%), Positives = 88/205 (42%), Gaps = 9/205 (4%)

Query: 213 PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
           P  K KDSG+EW+G +P+HWEVK     +    RK         L       I+    R 
Sbjct: 8   PYPKYKDSGVEWLGELPEHWEVKKLKYCLLLSTRKIEPQKSQVALE-----NIESWTGRF 62

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
           +  + +        + G+I+F  +     K  L          +   ++       D  +
Sbjct: 63  IETETKFEGDGIAFEEGDILFGKLRPYLAKVFLAQFSGE---AVGDFFVMRPFPTTDGRF 119

Query: 333 LAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
           + + + +     +  +   G     + +E +  + + +P + EQ  I + ++ ET+RID 
Sbjct: 120 IQYQILNKTFISIIDSSTFGAKMPRVDWEFMGNMELTLPSLSEQLAIASFLDRETSRIDT 179

Query: 392 LVEKIEQSIVLLKERRSSFIAAAVT 416
           L+ + E+ I LL+E R + I+ AVT
Sbjct: 180 LISEKERLISLLQEYRQALISHAVT 204


>gi|256375104|ref|YP_003098764.1| restriction modification system DNA specificity domain protein
           [Actinosynnema mirum DSM 43827]
 gi|255919407|gb|ACU34918.1| restriction modification system DNA specificity domain protein
           [Actinosynnema mirum DSM 43827]
          Length = 442

 Score =  159 bits (401), Expect = 9e-37,   Method: Composition-based stats.
 Identities = 85/435 (19%), Positives = 155/435 (35%), Gaps = 38/435 (8%)

Query: 18  IGAIP--KHWKVVPIKRFTKL-NTGRTSESGKDIIY--IGLEDVESGTGKYLPKDGNSRQ 72
           +G IP    W   P+KR T + N G   E   +     I     + G   +     ++  
Sbjct: 5   LG-IPISDTWTTSPLKRITSVLNRGSAPEYVDESPVRVISQAANQYGGLDWSRTRFHNFN 63

Query: 73  SDTSTVS-IFAKGQILYGKLGP-YLRKAIIADFD-----GICSTQFLVLQPKDV--LPEL 123
            D + +     +  I+    G   L +             +      V++ K     P  
Sbjct: 64  GDPTKLKGHLQENDIIINSTGTGTLGRVGYFTEPLNGIPCMADGHVTVVRVKKHKVNPRF 123

Query: 124 LQGWLLSIDVTQRIEAI--CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
           +  WL S    + I +            +   + +  +P PP++EQ  I + + AET  I
Sbjct: 124 VYYWLTSKPFQEYIHSSLAIGATNQIELNRDRLSDTHIPNPPISEQQRIVDFLEAETAHI 183

Query: 182 DTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFF--- 238
           D LI  + R +E L E++ A ++  V+         + S + W+  +P  W+        
Sbjct: 184 DRLIETQNRVLEKLAERRMAGITQAVSG--TDQTGTRPSSLTWLEKIPSTWKEVRLSLIA 241

Query: 239 ---ALVTELNRKNTKLIESNILSLSYG--NIIQKLETRNMGLKPESYETYQIV------- 286
              +  T         ++  I  ++ G    ++     ++    E      +        
Sbjct: 242 RMGSGHTPSRSHPEWWVDCTIPWITTGEVRQVRNDRLEDLHETREKISELGLANSAAELR 301

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF 346
             G +V            +      +               ++  YL W +R+     + 
Sbjct: 302 PAGTVVLCRTASAGYSAVMG----TDMATSQDFVTWTCGPRLNPYYLLWCLRAMRPDLLG 357

Query: 347 YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
                   +++   D++ L + +PPI EQ  I   I  + ARID L + +   + LL ER
Sbjct: 358 RLAMGSTHKTIYVPDLQMLRIPLPPIGEQQKIVQQIREQNARIDRLADAVRLQVALLAER 417

Query: 407 RSSFIAAAVTGQIDL 421
           R + I AAVTGQID+
Sbjct: 418 RQALITAAVTGQIDV 432



 Score = 76.0 bits (185), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 42/215 (19%), Positives = 78/215 (36%), Gaps = 14/215 (6%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKY 63
           + S + W+  IP  WK V +    ++ +G T             I +I   +V       
Sbjct: 218 RPSSLTWLEKIPSTWKEVRLSLIARMGSGHTPSRSHPEWWVDCTIPWITTGEVRQVRNDR 277

Query: 64  LP------KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPK 117
           L       +  +      S   +   G ++  +       + +   D   S  F+     
Sbjct: 278 LEDLHETREKISELGLANSAAELRPAGTVVLCRT-ASAGYSAVMGTDMATSQDFVTWTCG 336

Query: 118 DVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
             L      W L       +  +  G+T        +  + +P+PP+ EQ  I ++I  +
Sbjct: 337 PRLNPYYLLWCLRAMRPDLLGRLAMGSTHKTIYVPDLQMLRIPLPPIGEQQKIVQQIREQ 396

Query: 178 TVRIDTLITERIRFIELLKEKKQALVSYIVTKGLN 212
             RID L       + LL E++QAL++  VT  ++
Sbjct: 397 NARIDRLADAVRLQVALLAERRQALITAAVTGQID 431


>gi|256023434|ref|ZP_05437299.1| predicted type I restriction-modification enzyme, S subunit
           [Escherichia sp. 4_1_40B]
          Length = 446

 Score =  159 bits (401), Expect = 9e-37,   Method: Composition-based stats.
 Identities = 76/433 (17%), Positives = 139/433 (32%), Gaps = 30/433 (6%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKD-IIYIGLEDVESGTGKYLPKDG 68
           YK + V   G IP+ W  VP     K NT +   S  + + +IG++DV     +      
Sbjct: 22  YKLTEV---GVIPEDWDCVPFGNLFKTNTKKKKVSDYELVSFIGMQDVSED-AQLKNNTQ 77

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPY------LRKAIIADFDGICSTQFLVLQPKDVLP- 121
              +   S  + F KG +L  K+ P          A +    G  ST+F VL+  +    
Sbjct: 78  LPFKEVKSGFTYFEKGDVLLAKITPCFENGKGCHTADLPTNVGFGSTEFHVLRENEDSDS 137

Query: 122 ELLQGWLLSIDVTQRIEAICEGATMSHADWKGIG--NIPMPIPPLAEQVLIREKIIAETV 179
             +  W         +E+   G+              +    P L EQ  I + +     
Sbjct: 138 RFIYFWTTDKKFRASLESEMVGSAGHRRVPLVAIEKYLIPCPPNLQEQSAIADSLSDINN 197

Query: 180 RIDTLITERIRFIELLKEKKQALVS---YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKP 236
            I  L    ++   +     Q L++    +    L  D   K      +G +P+ W V  
Sbjct: 198 FILALEKLIVKKQAIKTATMQRLLTGKTRLPQFALRKDGSAKGYKKSELGEIPEDWVVTS 257

Query: 237 FFALVTELNRKNTK-----LIESNILSLSYGNIIQKLETRNMGLKPES---YETYQIVDP 288
                                      +S G +  K          +      + + V  
Sbjct: 258 IGQFTDCCAGGTPSTKISAYWGGTHPWMSSGELHLKQVYAVADYITDEGLVNSSTKYVPK 317

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA 348
             ++      Q   R   +   +E     S           + +L + + S        +
Sbjct: 318 NSVLVGLAG-QGKTRGTVAINRIELCTNQSIAAIFPSKHHSTEFLFYNLDSRYEELRSLS 376

Query: 349 MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
            G G R  L    +++L +  PP +EQ  I  +++     I  L    +Q +   ++ + 
Sbjct: 377 TGDGGRGGLNLTIIRKLHLAFPPKEEQTAIATILSDMDKEIQTL----QQRLDKTRQLKQ 432

Query: 409 SFIAAAVTGQIDL 421
             +   +TG+  L
Sbjct: 433 GMMQELLTGKTRL 445


>gi|208779809|ref|ZP_03247153.1| conserved hypothetical protein [Francisella novicida FTG]
 gi|208744264|gb|EDZ90564.1| conserved hypothetical protein [Francisella novicida FTG]
          Length = 414

 Score =  159 bits (401), Expect = 1e-36,   Method: Composition-based stats.
 Identities = 63/409 (15%), Positives = 142/409 (34%), Gaps = 22/409 (5%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGK---DIIYIGLEDVESGTGKYLPKDGNSRQS- 73
           +  +P  W+   +     +  G              +  +++++ +         S    
Sbjct: 19  LYKLPAGWEWKKLGEVFDVKDGTHDSPKYKEIGYPLVTSKNLKNNSLDLTSCKFISNDDF 78

Query: 74  -DTSTVSIFAKGQILYGKLGPYLRKAII-ADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
              +  S   KG +L+  +G      I+  + D       L       L ELL+ WL S 
Sbjct: 79  IKINQRSKVDKGDLLFAMIGTIGSPTIVDFEPDFAIKNVALFKPSNTYLIELLKYWLSSH 138

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
             TQ++    +GAT        + N P P+PPLAEQ  I  K+ +   +ID  I    + 
Sbjct: 139 LTTQKMLEEAKGATQKFVGLTYLRNFPAPLPPLAEQKRIVAKLDSLFEKIDKAIELHQQN 198

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           I        + +     K L  +   K                     +      K  + 
Sbjct: 199 ITNANTLMASALDKTFKK-LEREYSFKILD-------------CLSENIRYGYTDKAKEK 244

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYE-TYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
             +  + ++  N   K +  ++ +  ++ +     +  G+I+         K +L +   
Sbjct: 245 GNARFIRITDINDQGKFKDESVYVDIKNTDLDRYKLLVGDILVARSGATAGKVALFTLDE 304

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLV 369
                     + ++   +  +++ +   S +       +   G + ++   ++K + + +
Sbjct: 305 FSVFASYLIRIRLQIDKVLPSFIFYFCYSSNYWNQLDQIKIGGAQPNVNATNLKNIKIPL 364

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           PP+  Q      ++    ++D + +  EQ +  LK  ++S +  A  G+
Sbjct: 365 PPLPIQQQTVEYLDSIATKVDKIKQLNEQKLENLKALKASILDKAFRGE 413


>gi|23452777|gb|AAN33159.1| putative type I specificity subunit HsdS [Campylobacter jejuni]
 gi|23452791|gb|AAN33167.1| putative type I specificity subunit HsdS [Campylobacter jejuni]
          Length = 403

 Score =  158 bits (400), Expect = 1e-36,   Method: Composition-based stats.
 Identities = 69/409 (16%), Positives = 145/409 (35%), Gaps = 21/409 (5%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           +P+ W+V  +    ++ TG T         GKD  +    D E G         N  +  
Sbjct: 4   LPQGWEVKKLGEIGEIVTGSTPSKSNLDFYGKDYPFFKPSDFEQGYF-LENAGDNLSKLG 62

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP-KDVLPELLQGWLLSIDV 133
                      IL   +G  L K  +    G C+ Q   + P K+++ E +  + +S   
Sbjct: 63  FDKARQLPPKTILVVCIGS-LGKVALTKVIGSCNQQINAIIPHKNIISEYIYYYCISSKF 121

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRIDTLITERIRFI 192
              + +     T++  +      + +  P  + EQ  I   +     +ID  I +    +
Sbjct: 122 QSILFSKAPQTTLAILNKTEFSKLEIIYPKDIKEQERIVGILDFAFSKIDENIKKAKENL 181

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLV-PDHWEVKPFFALVTELNRKNTKL 251
             + E  Q+ +        +   +       W      D         +     + N  +
Sbjct: 182 ANIDELMQSALQKAFNPLNDNTKENYQLPQSWEWKSLGDTSNYGKTSQVKPSQLKGNDWI 241

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
           +E   +    G ++QK+  ++   K    +     + G+I+F  +     K  +      
Sbjct: 242 LELEDIEKESGVLLQKVLFQDRQSKSNKIK----FNKGDILFGTLRPYLKKVIIA----D 293

Query: 312 ERGIITSAYMAVKP-HGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLV 369
           + G  +S  M     + I + ++ + + +  L     ++  G R   L  +D K L + +
Sbjct: 294 DNGACSSEIMPFSTGNSITNHFIYYYLFANFLHDRISSLTYGARMPRLGTKDGKSLQIPL 353

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           PP++EQ  I   ++    +   L E   + +   +E + S +  A  G+
Sbjct: 354 PPLQEQEQIAEHLDFVFEKAKALKELYTKELKDYEELKQSLLDKAFKGE 402



 Score = 78.3 bits (191), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 54/198 (27%), Positives = 89/198 (44%), Gaps = 8/198 (4%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRT----SESGKDIIYI-GLEDVESGTGKYLPKDGNSRQSD 74
            +P+ W+   +      N G+T        K   +I  LED+E  +G  L K     +  
Sbjct: 208 QLPQSWEWKSLGD--TSNYGKTSQVKPSQLKGNDWILELEDIEKESGVLLQKVLFQDRQS 265

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL-PELLQGWLLSIDV 133
            S    F KG IL+G L PYL+K IIAD +G CS++ +     + +    +  +L +  +
Sbjct: 266 KSNKIKFNKGDILFGTLRPYLKKVIIADDNGACSSEIMPFSTGNSITNHFIYYYLFANFL 325

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
             RI ++  GA M     K   ++ +P+PPL EQ  I E +     +   L     + ++
Sbjct: 326 HDRISSLTYGARMPRLGTKDGKSLQIPLPPLQEQEQIAEHLDFVFEKAKALKELYTKELK 385

Query: 194 LLKEKKQALVSYIVTKGL 211
             +E KQ+L+       L
Sbjct: 386 DYEELKQSLLDKAFKGEL 403


>gi|315231355|ref|YP_004071791.1| Type I restriction-modification system specificity subunit S
           [Thermococcus barophilus MP]
 gi|315184383|gb|ADT84568.1| Type I restriction-modification system specificity subunit S
           [Thermococcus barophilus MP]
          Length = 408

 Score =  158 bits (400), Expect = 1e-36,   Method: Composition-based stats.
 Identities = 72/418 (17%), Positives = 155/418 (37%), Gaps = 33/418 (7%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSE------SGKDIIYIGLEDVESGTGKYLPKDGNSR 71
           IG IP+ W+VV + +      G+  +          + Y+  E + +       K   + 
Sbjct: 10  IGEIPEDWQVVKLGKIIGYTKGKKPKMVAKEPKDGWLPYLSTEYLRNNNPTQFVKITGNE 69

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
                   I   G IL    G    +  +A    + ST   +   K V   L   +LL  
Sbjct: 70  I-------IVEDGDILLLWDGSNAGEFFLAKKGVLSSTMVKIFLKKHVYDSLFLFYLLKH 122

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
                ++   +G  + H D   +  + +P+PPL EQ  I E +      +D  I +    
Sbjct: 123 R-EPFLKGQTKGTGIPHVDKNVLNALLLPLPPLEEQKQIAEIL----RTVDEAIEKTDLA 177

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK-NTK 250
           IE  +  K+ L+  ++TKG+      K      +G +P+ W V     +        + K
Sbjct: 178 IEKTERLKKGLMQRLLTKGIKHKRFKKT----EIGEIPEEWRVVRIGEVTGLFQYGLSIK 233

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKP----ESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
           + +     +   + I   E + + +K     E       ++ G+I+    +         
Sbjct: 234 MHDKGKYPIIKMDSIINGEVKPVNIKYVDLDEDTFKKYRLEKGDILINRTNSYELVGRTG 293

Query: 307 SAQVMERGIITSAYMAVKP--HGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKR 364
              +    +  S  + ++P    ID  +L + +   +      A  +  + ++   ++K+
Sbjct: 294 VFMLDGDYVFASYLIRIRPDKKQIDPRFLTFYLIFANDKLRQLATRAVSQANINASNLKK 353

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
             + +PP++EQ  I  ++     ++    E + +    L+  +   +   +TG+  ++
Sbjct: 354 FKIPLPPLEEQKQIAEILMTVDKKL----ELLRKRKEKLERIKRGLMKDLLTGRRRVK 407


>gi|83590507|ref|YP_430516.1| restriction modification system DNA specificity subunit [Moorella
           thermoacetica ATCC 39073]
 gi|83573421|gb|ABC19973.1| Restriction modification system DNA specificity domain [Moorella
           thermoacetica ATCC 39073]
          Length = 442

 Score =  158 bits (400), Expect = 1e-36,   Method: Composition-based stats.
 Identities = 73/435 (16%), Positives = 160/435 (36%), Gaps = 31/435 (7%)

Query: 8   PQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKD 67
             YK++    IG +P+ W+VV + +  +    R + + K+   + +  +    G     +
Sbjct: 10  EGYKETE---IGVLPEDWEVVRLGKVFEEVDRRVN-NVKNAASLPVLSLTKNNGIIPQTE 65

Query: 68  GNSR---QSDTSTVSIFAKGQILYGKLGPYLRKAIIAD--FDGICSTQFLV--LQPKDVL 120
              +     D S   +  K +++Y     +     I +    G+ S  + V  +  K   
Sbjct: 66  RFKKRIATDDLSNYKVVYKKELVYNPYVIWEGAIHILNRLEAGLVSPVYPVLSVNKKVAD 125

Query: 121 PELLQGWLLSIDVTQRIEAICEG--ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
                 WL +    +       G              NI  P+PPL EQ  I   +    
Sbjct: 126 AYFFDFWLRTPSAIKAYSRYASGAVNRRRAIRKTDFKNIDAPLPPLHEQRKIAYVL---- 181

Query: 179 VRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEW--VGLVPDHWEVKP 236
             I   I  + + I   +E K++L+ ++ T G  P  ++    ++   +G+VP+HWEV  
Sbjct: 182 STIQRAIQLQDKVIAATRELKKSLMRHLFTYGPVPVDQIDRVPLKETEIGMVPEHWEVVR 241

Query: 237 FFALVTELNRKNTKLIESNILSLSY--GNIIQKLETRNMGLKPESYETYQIVDPGEIVFR 294
              +     +        NI  +      I +    + +        +    + G+++  
Sbjct: 242 LREVADFTKKPRGLNYSGNIPFIPMELIPIGRVNIQKYIIKPSSEISSGVYCEQGDLLLA 301

Query: 295 FI--DLQNDKRSLRSAQVMERGIITSAY--MAVKPHGIDSTYLAWLMRSYDLCKVF--YA 348
            I    +N K+ + S         T+    +  +   ++  YL + +    + +      
Sbjct: 302 KITPSFENYKQGIISQIPKPFAFATTEVYPIKARKDFLEILYLFYYLLIPQVRQDIAGKM 361

Query: 349 MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
            G+  RQ +    ++   + +PP+ EQ  I   +     +I+   E+  +S   L+    
Sbjct: 362 EGTTGRQRISKSVIQNYLIPIPPLSEQRQIARFLITVDKKIEA--EEYRKS--TLQSLFQ 417

Query: 409 SFIAAAVTGQIDLRG 423
           + +   +TG++ ++ 
Sbjct: 418 TMLHLLMTGKVRVKD 432


>gi|289706815|ref|ZP_06503158.1| type I restriction modification DNA specificity domain protein
           [Micrococcus luteus SK58]
 gi|289556500|gb|EFD49848.1| type I restriction modification DNA specificity domain protein
           [Micrococcus luteus SK58]
          Length = 410

 Score =  158 bits (399), Expect = 2e-36,   Method: Composition-based stats.
 Identities = 90/407 (22%), Positives = 165/407 (40%), Gaps = 15/407 (3%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
                   L +    E  +    +  E +   TG+ +       +   ++   F  G +L
Sbjct: 8   RKFGWCVGLVSDTAPEESE--FRVAAESMVGHTGRLVTDHEIDSEGRGTS---FRAGDLL 62

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT-QRIEAICEGATM 146
           + KL PYL K+ +A+ DG       V +P D +     G+L+      +++ A   G  M
Sbjct: 63  FSKLRPYLAKSWVANRDGEALGDIHVYRPVDEMCSRYLGYLVLSSFFLEQVNASTYGTRM 122

Query: 147 SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYI 206
             A+W  I  I +  P    Q  I + +  ET  ID LI ++   + LL +++ ++  ++
Sbjct: 123 PRANWDFIKTIEVWAPDFDTQRRIADYLDRETATIDALIEKQRALLTLLIDRRASVRKHL 182

Query: 207 VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ 266
             +G      M  +  EW G +P HW   P  ++    +          + + +    I 
Sbjct: 183 ALRGPESRTSMVQAPEEWAGQIPSHWRFVPLLSVARLGSGHTPSKSRPELWTDTTIPWIS 242

Query: 267 KLETRNMGLKPESYETYQIVDP--------GEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
             +  +M      YET+  +            +    + L  D    R+A +      + 
Sbjct: 243 LRDVGSMRATTYLYETHTSISELGLASSSARILPAGTVVLSRDATIGRTAIMGRDMATSQ 302

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFD 377
            + A             L+ +  +     ++      +++   D++ L V +PP+ EQ  
Sbjct: 303 HFAAWTCGPQLLPQYLHLVLADAMQDHLESLTDGSTLRTVGMGDIRALRVPLPPVHEQRR 362

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGE 424
           I +    ETA+ID L+ K E+ I L +ERR++ I AAVTGQI++  E
Sbjct: 363 IIDESETETAKIDALIAKAERFIELAQERRAALITAAVTGQIEIPSE 409



 Score = 89.1 bits (219), Expect = 1e-15,   Method: Composition-based stats.
 Identities = 55/207 (26%), Positives = 92/207 (44%), Gaps = 12/207 (5%)

Query: 16  QWIGAIPKHWKVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVES-GTGKYLPKD 67
           +W G IP HW+ VP+    +L +G T             I +I L DV S     YL + 
Sbjct: 199 EWAGQIPSHWRFVPLLSVARLGSGHTPSKSRPELWTDTTIPWISLRDVGSMRATTYLYET 258

Query: 68  GNSRQS---DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELL 124
             S       +S+  I   G ++  +    + +  I   D   S  F        L    
Sbjct: 259 HTSISELGLASSSARILPAGTVVLSR-DATIGRTAIMGRDMATSQHFAAWTCGPQLLPQY 317

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
              +L+  +   +E++ +G+T+       I  + +P+PP+ EQ  I ++   ET +ID L
Sbjct: 318 LHLVLADAMQDHLESLTDGSTLRTVGMGDIRALRVPLPPVHEQRRIIDESETETAKIDAL 377

Query: 185 ITERIRFIELLKEKKQALVSYIVTKGL 211
           I +  RFIEL +E++ AL++  VT  +
Sbjct: 378 IAKAERFIELAQERRAALITAAVTGQI 404


>gi|326387108|ref|ZP_08208718.1| type I restriction-modification methylase S subunit
           [Novosphingobium nitrogenifigens DSM 19370]
 gi|326208289|gb|EGD59096.1| type I restriction-modification methylase S subunit
           [Novosphingobium nitrogenifigens DSM 19370]
          Length = 318

 Score =  158 bits (398), Expect = 2e-36,   Method: Composition-based stats.
 Identities = 79/303 (26%), Positives = 138/303 (45%), Gaps = 16/303 (5%)

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
           + E+   GAT    + + + N    +PP AEQ  I   +  E  +ID L  E+ R I LL
Sbjct: 3   QWESSIGGATFRALNLEPLANTLGCLPPFAEQEAIAGFLDREVGKIDRLAAEQERLIALL 62

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
           KEK+QA++S+ VTKGLNP+  +KDSGIEW+  +P HWEV     +V  + +  +   ++ 
Sbjct: 63  KEKRQAVISHAVTKGLNPNAPLKDSGIEWLCQIPAHWEVVRIKHVVVTIEQGWSPQCDAT 122

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYET----------YQIVDPGEIVFRFIDLQNDKRSL 305
                    + K+   N      S                +  G+++    + +    S 
Sbjct: 123 PADGPEQWGVLKVGCVNGDRFNASENKALPDDLEPLPELSLRAGDLLISRANTRELVGSA 182

Query: 306 RSAQVMERGIITSA---YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKF 359
              +     ++       + ++       +L   +RS  +        SG      ++  
Sbjct: 183 ALVEQDHDHLLLCDKLYRLRLQTSVASPEFLTLFLRSSMVRGQIEIAASGASSSMLNIGQ 242

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
             +  + + +PP+ EQ +I   I     +I+ L+   + +I LL+ERR++ I+AAVTG+I
Sbjct: 243 SVILEMALPLPPLGEQGEIATWILKCREQIEALINDAQSAITLLQERRAALISAAVTGKI 302

Query: 420 DLR 422
           D+R
Sbjct: 303 DVR 305



 Score = 66.4 bits (160), Expect = 8e-09,   Method: Composition-based stats.
 Identities = 56/231 (24%), Positives = 92/231 (39%), Gaps = 17/231 (7%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKR-FTKLNTGRTS-------ESGKDIIYIGLEDVESGTGK 62
           KDSG++W+  IP HW+VV IK     +  G +        +  +    + +  V      
Sbjct: 85  KDSGIEWLCQIPAHWEVVRIKHVVVTIEQGWSPQCDATPADGPEQWGVLKVGCVNGDRFN 144

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGK--LGPYLRKAII----ADFDGICSTQF-LVLQ 115
                      +         G +L  +      +  A +     D   +C   + L LQ
Sbjct: 145 ASENKALPDDLEPLPELSLRAGDLLISRANTRELVGSAALVEQDHDHLLLCDKLYRLRLQ 204

Query: 116 PKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPM--PIPPLAEQVLIREK 173
                PE L  +L S  V  +IE    GA+ S  +      + M  P+PPL EQ  I   
Sbjct: 205 TSVASPEFLTLFLRSSMVRGQIEIAASGASSSMLNIGQSVILEMALPLPPLGEQGEIATW 264

Query: 174 IIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEW 224
           I+    +I+ LI +    I LL+E++ AL+S  VT  ++      ++ +E 
Sbjct: 265 ILKCREQIEALINDAQSAITLLQERRAALISAAVTGKIDVRAAAANTTVEM 315


>gi|302037816|ref|YP_003798138.1| putative type I restriction-modification system, specificity
           protein [Candidatus Nitrospira defluvii]
 gi|300605880|emb|CBK42213.1| putative Type I restriction-modification system, specificity
           protein [Candidatus Nitrospira defluvii]
          Length = 444

 Score =  158 bits (398), Expect = 2e-36,   Method: Composition-based stats.
 Identities = 72/420 (17%), Positives = 135/420 (32%), Gaps = 21/420 (5%)

Query: 25  WKVVPIKR-FTKLNTGRTSE------SGKDIIYIGLEDVESGTGKYLPK-DGNSRQSDTS 76
           W +  IK   +K+ +G T        S   I  +  ++V     +       +       
Sbjct: 16  WPLDRIKDNVSKIGSGVTPTGGATSYSDSGIPLLRSQNVHFEGIRLDDVAFIDEEIHAEM 75

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIAD---FDGICSTQFLVLQPKDVLPELLQGWL-LSID 132
             +   +  +L    G  + +         +G  +    +++P   L      +   +  
Sbjct: 76  RGTQLKEKDVLLNITGASIGRCTFVPDGFGEGNVNQHVCIIRPSSRLDHRFLTYCLAAPW 135

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
              +I A   GA+      + +G I +P+P    Q  +   + A    ID  +  + R I
Sbjct: 136 GQDQIFAGFTGASRQGLGQRDLGEIQIPLPDRTTQEKVIAYLDASCAAIDAAVAAKRRQI 195

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN---- 248
           E L+  +++ ++  + +GLNP V++K SG  W+G +P HW       L+ E         
Sbjct: 196 EALERTRKSTITRAMVRGLNPAVQLKTSGQHWLGNIPTHWTAPSLKRLLIEPLTYGLNEA 255

Query: 249 ---TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
                      L ++  +    L        P        +   +++F        K  L
Sbjct: 256 AELEDRELPRYLRITDFDESGALRDDTFRSLPREVAREAPLVTNDVLFARSGATVGKTFL 315

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR--SYDLCKVFYAMGSGLRQSLKFEDVK 363
                 +         A       +    +L    +               Q++      
Sbjct: 316 FRDYQGDACFAGYLIRARTAPWKINPLFLYLFTKTTAYETWKNLTFTQATIQNISAAKYN 375

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
            L + +PP+ EQ  I   +    A    L   I + I  L   R S I   VTGQ  +  
Sbjct: 376 YLVIPLPPLSEQHSICGFVEQCNADFARLTASINRQITTLTAYRKSLIHECVTGQRRITE 435



 Score = 56.3 bits (134), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 37/208 (17%), Positives = 71/208 (34%), Gaps = 12/208 (5%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKRFTKL-----NTGRTSESGKDII-YIGLEDVESGTGKYL 64
           K SG  W+G IP HW    +KR                  +++  Y+ + D +  +G   
Sbjct: 221 KTSGQHWLGNIPTHWTAPSLKRLLIEPLTYGLNEAAELEDRELPRYLRITDFDE-SGALR 279

Query: 65  PKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAII---ADFDGICSTQFLVLQ--PKDV 119
                S   + +  +      +L+ + G  + K  +      D   +   +  +  P  +
Sbjct: 280 DDTFRSLPREVAREAPLVTNDVLFARSGATVGKTFLFRDYQGDACFAGYLIRARTAPWKI 339

Query: 120 LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
            P  L  +  +             AT+ +        + +P+PPL+EQ  I   +     
Sbjct: 340 NPLFLYLFTKTTAYETWKNLTFTQATIQNISAAKYNYLVIPLPPLSEQHSICGFVEQCNA 399

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIV 207
               L     R I  L   +++L+   V
Sbjct: 400 DFARLTASINRQITTLTAYRKSLIHECV 427


>gi|294637839|ref|ZP_06716110.1| restriction endonuclease S subunit [Edwardsiella tarda ATCC 23685]
 gi|291089013|gb|EFE21574.1| restriction endonuclease S subunit [Edwardsiella tarda ATCC 23685]
          Length = 284

 Score =  157 bits (397), Expect = 3e-36,   Method: Composition-based stats.
 Identities = 75/265 (28%), Positives = 125/265 (47%), Gaps = 15/265 (5%)

Query: 170 IREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVP 229
           I   +  ET +ID LI ++ + IELLKEK+QA++S+ VTKGLNPDV MKDSG+EW+G VP
Sbjct: 9   IVSFLEHETAKIDNLIEKQQQLIELLKEKRQAVISHAVTKGLNPDVPMKDSGVEWLGEVP 68

Query: 230 DHWEVKPFFALVTELNRK-------NTKLIESNILSLSYGNI---IQKLETRNMGLKPES 279
           +HW +K +         K       +  L + +   +  G++    + +ET +  L  + 
Sbjct: 69  EHWSIKSYRYACLIYRGKFGHRPRNDPSLYDGDYPFIQTGDVARASKFIETYSQTLNEKG 128

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
               Q+   G ++        D   L         ++         +          M +
Sbjct: 129 KAVSQLFPSGTLMMAIAANIGDTAILGFEAYAPDSVVG---FKPYQNLHLEFLRYSFMAA 185

Query: 340 YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
               +         + +L  + +  +  + PP++EQ DI N ++        + E   Q+
Sbjct: 186 LPALEQ--TSTQSTQANLNIDRIGAVKAVFPPLEEQLDIINYLDDMLYLYYSIEENTNQA 243

Query: 400 IVLLKERRSSFIAAAVTGQIDLRGE 424
           I LL+ERR++ I+AAVTG+ID+R  
Sbjct: 244 IQLLQERRAALISAAVTGKIDVRDW 268



 Score = 87.2 bits (214), Expect = 5e-15,   Method: Composition-based stats.
 Identities = 40/211 (18%), Positives = 80/211 (37%), Gaps = 10/211 (4%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES--------GKDIIYIGLEDVESGTG 61
            KDSGV+W+G +P+HW +   +    +  G+              D  +I   DV   + 
Sbjct: 56  MKDSGVEWLGEVPEHWSIKSYRYACLIYRGKFGHRPRNDPSLYDGDYPFIQTGDVARASK 115

Query: 62  KYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP 121
                     +   +   +F  G ++   +   +    I  F+       +  +P   L 
Sbjct: 116 FIETYSQTLNEKGKAVSQLFPSGTLMMA-IAANIGDTAILGFEAYAPDSVVGFKPYQNLH 174

Query: 122 ELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
                +     +   +E     +T ++ +   IG +    PPL EQ+ I   +       
Sbjct: 175 LEFLRYSFMAAL-PALEQTSTQSTQANLNIDRIGAVKAVFPPLEEQLDIINYLDDMLYLY 233

Query: 182 DTLITERIRFIELLKEKKQALVSYIVTKGLN 212
            ++     + I+LL+E++ AL+S  VT  ++
Sbjct: 234 YSIEENTNQAIQLLQERRAALISAAVTGKID 264


>gi|188997268|ref|YP_001931519.1| restriction modification system DNA specificity domain
           [Sulfurihydrogenibium sp. YO3AOP1]
 gi|188932335|gb|ACD66965.1| restriction modification system DNA specificity domain
           [Sulfurihydrogenibium sp. YO3AOP1]
          Length = 425

 Score =  157 bits (397), Expect = 3e-36,   Method: Composition-based stats.
 Identities = 72/433 (16%), Positives = 156/433 (36%), Gaps = 37/433 (8%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESG-KDIIYIGLEDVESGTGKYLPKDG 68
           +K++    IG IP+ W+VV +    +    +      K+I+ + +   +    +      
Sbjct: 7   FKETE---IGLIPEDWEVVRLGEILEEKNEKVKNYDFKNIVVLSITSKDGLIEQNRKFKH 63

Query: 69  NSRQSDTSTVSIFAKGQILYG-KLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW 127
                + S   +  KG+++YG  +   +   +     G  S  +   + K          
Sbjct: 64  RVASQNISDYKLVRKGELVYGFPINEGVIAFLWRYEMGAVSPAYYTWKLKYPEKTYYIFL 123

Query: 128 -----LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
                   I    +                    IP+P+PPL EQ  I + +      + 
Sbjct: 124 DYLLRSPIILNLFKPFISNTVHRRKIIKPHDFKQIPIPLPPLEEQKAIADIL----STVQ 179

Query: 183 TLITERIRFIELLKEKKQALVSYIVTKG---LNPDVKMKDSGIEWVGLVPDHWEVKPFFA 239
             I +  + I   K+ K++++ ++ T G   ++   K+K    E +GL+P+HWEV  F  
Sbjct: 180 NAIEKTEKVINATKQLKKSMMKHLFTYGAVVVDEIDKVKLKESE-IGLIPEHWEVVRFGD 238

Query: 240 LVTELNRKNT------KLIESNILSLSYGNIIQKLETRNMGLKPE----SYETYQIVDPG 289
           +V     + +               +S  ++  +       +  E         ++   G
Sbjct: 239 IVNFKIGRTSPRKNKDYWTNGKYYWVSISDMKNRYINNTSEMVSEKAHKEIFKEKLTPAG 298

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
            ++  F         L         II+   +  K + +   +L + + + D   +    
Sbjct: 299 TLLMSFKLTIGRTAILNVDAYHNEAIIS---IYPKENKVLKEFLFYYLPAVDYSNLQDKA 355

Query: 350 GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
             G   +L    + ++P+ +P + EQ  I N++      ID  ++  E+    L+    +
Sbjct: 356 IKG--NTLNTSKLNKIPIPLPLLDEQQKIANILTT----IDQKIQAEEKKKEALQNLFKT 409

Query: 410 FIAAAVTGQIDLR 422
            +   +TG+I +R
Sbjct: 410 LLQQLMTGKIRVR 422


>gi|237807949|ref|YP_002892389.1| restriction modification system DNA specificity domain-containing
           protein [Tolumonas auensis DSM 9187]
 gi|237500210|gb|ACQ92803.1| restriction modification system DNA specificity domain protein
           [Tolumonas auensis DSM 9187]
          Length = 445

 Score =  157 bits (396), Expect = 3e-36,   Method: Composition-based stats.
 Identities = 71/438 (16%), Positives = 140/438 (31%), Gaps = 28/438 (6%)

Query: 8   PQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTG-------RTSESGKDIIYIGLEDVESGT 60
             YK + V   G IP+ W +  +       TG       ++      I  +    +  G 
Sbjct: 10  EGYKQTEV---GVIPEDWDIQRLGVHATFKTGPFGSALHKSDYVDGGIPVVNPMQIIDGK 66

Query: 61  GKYLPK-DGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAII--ADFDGICSTQ-FLVLQP 116
            K       +   +   +      G I+ G+ G   R A+I   +   +C T   +V   
Sbjct: 67  VKPTSSMAISDEAAKKLSEYRLIAGDIVIGRRGDMGRCAVISEIENGWLCGTGSMIVRVK 126

Query: 117 KDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPP-LAEQVLIREKII 175
           ++     LQ  L +      IE+   G TM + +   +  + + IP    EQ  I   + 
Sbjct: 127 ENADAAFLQRVLSNPQTITAIESASVGTTMINLNQGTLRALLILIPRDKQEQTAIANALS 186

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVS---YIVTKGLNPDVKMKDSGIEWVGLVPDHW 232
                I+ L     +   +     Q L++    +    L  D   K      +G +P+ W
Sbjct: 187 DVDALINELEKLIAKKQAIKTATMQQLLTGKTRLPQFALREDGTPKGYKASELGEIPEDW 246

Query: 233 EVKPFFALVTELNRKNTKLI---ESNILSLSYGNIIQK-LETRNMGLKPESYETYQIVDP 288
           EV     +   +           E   L L   N+    L   N            IV  
Sbjct: 247 EVVSLAEIGQTIIGLTYSPNDVAEHGTLVLRSSNVQNNVLAYDNNVYVNMDLPERVIVKK 306

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA 348
           G+I+    +         +                        ++ +  +S  +      
Sbjct: 307 GDILICVRNGSRQLIGKCALIDKNADGAAFGAFMSIFRTKSFGFVFYQFQSDIIQNQINE 366

Query: 349 MGSGLRQSLKFEDVKRLPVLVPPI-KEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
           +       +  +D+    + +P + KEQ  IT++++     I  L    +Q +   ++ +
Sbjct: 367 IMGATINQITNKDMAGFRIPLPTLQKEQVAITSILSDMDTEIQSL----QQRLTKTRQIK 422

Query: 408 SSFIAAAVTGQID-LRGE 424
              +   +TG+   ++ E
Sbjct: 423 QGMMQELLTGKTRLVKPE 440


>gi|78777142|ref|YP_393457.1| restriction modification system DNA specificity subunit
           [Sulfurimonas denitrificans DSM 1251]
 gi|78497682|gb|ABB44222.1| Restriction modification system DNA specificity domain
           [Sulfurimonas denitrificans DSM 1251]
          Length = 420

 Score =  157 bits (396), Expect = 3e-36,   Method: Composition-based stats.
 Identities = 71/428 (16%), Positives = 156/428 (36%), Gaps = 31/428 (7%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLN--TGRTS-ESGKDIIYIGLEDVESGTGKYLPK 66
           YK + V   G IP+ W+VV IK  T      G+T  ++GK I  +  ++++ G   Y   
Sbjct: 8   YKQTKV---GIIPEDWEVVKIKEATSYVDYRGKTPIKTGKGIFLVTAKNIKQGFIDYEAS 64

Query: 67  DGNSRQSDTS---TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL-PE 122
                + +        +   G IL     P    A I   +   + + +  + K  +  +
Sbjct: 65  SEFVSEVEYHEIMKRGMPKIGDILITTEAPLGNVAQIDKENIALAQRVIKFRSKKNVKND 124

Query: 123 LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
            L+ + LS      +  +  G T+     K + N+ + +PPL EQ  I + +      I 
Sbjct: 125 FLKHYFLSNRFQSYLYRMAIGTTVLGIQGKELHNMSIVLPPLKEQEKIAQILTTWDEAIT 184

Query: 183 TLITERIRFIELLKEKKQALVSYIVTK--GLNPDVKMKDSGIEWVGLVPDHWEVKPFFAL 240
                      L K   Q L+S  V      +   + +   + +    P          +
Sbjct: 185 KQTELLEAKELLKKALMQKLLSGEVRFSGFSDEWEEARLDKLVFFQEGP---------GV 235

Query: 241 VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQN 300
                RK+   + +     +    +   ET     +      + ++D G+++     + +
Sbjct: 236 RNTQYRKSGVKLLNVGNLNNNTLNLSSTETYISEEEAYGAYKHFLIDEGDLLISCSGINS 295

Query: 301 DKRSLRSAQVMERGI-----ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA-MGSGLR 354
           +    + A   +  +      ++       + +   YL +  ++    K  +  +    +
Sbjct: 296 ESFKKKIAFAKKEDLPLCMNTSTMRFKNLKNKLLLEYLYFFFQTLFFEKQVFGVLTGSAQ 355

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAA 414
            +     +K   + +P + EQ  I  V++V    I+ L    +  +  LK ++ + +   
Sbjct: 356 FNFGPTHIKWFKIKLPTLPEQQKIAEVLSVADDEINQL----KSELEELKLQKKALMQQL 411

Query: 415 VTGQIDLR 422
           +TGQ+ ++
Sbjct: 412 LTGQVRVK 419


>gi|89098144|ref|ZP_01171029.1| type I restriction modification system, subunit S [Bacillus sp.
           NRRL B-14911]
 gi|89087001|gb|EAR66117.1| type I restriction modification system, subunit S [Bacillus sp.
           NRRL B-14911]
          Length = 435

 Score =  157 bits (396), Expect = 4e-36,   Method: Composition-based stats.
 Identities = 73/434 (16%), Positives = 137/434 (31%), Gaps = 29/434 (6%)

Query: 8   PQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVESGT 60
            +YK +    +G IP  W+V  IK    + +G T             I++    D+    
Sbjct: 11  ERYKMTE---LGEIPVEWEVRLIKEVADVISGGTPSKAVTEYWNEGTILWATPTDITRNN 67

Query: 61  GKYLPK---DGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPK 117
            KY+ +            S+ ++   G IL         ++ IA      +  F      
Sbjct: 68  SKYIYETELSITELGLKKSSANLLPAGSILMTSRATIGERS-IATAPISTNQGFKSFVCH 126

Query: 118 DVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
           D L      +     + Q       G+T      + I N  M IPP  EQ  I E +   
Sbjct: 127 DGLSNE-YMYYYLEILKQYFLLNASGSTFLEVSKQVIENQVMAIPPHKEQQKIVEVLSTV 185

Query: 178 TVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEW----VGLVPDHWE 233
             +I+       +  EL K   Q L++  +        ++ +  +EW    +  +     
Sbjct: 186 DEQIENTEQLIEKTKELKKGLMQQLLTKGIGHTEFKVTEIGEIPVEWEAKKLEDLISDKV 245

Query: 234 VKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG---- 289
           V                            N I          K  S E       G    
Sbjct: 246 VISHIDGNHGSLYPRASEFVDRGTPYISANSIVSGSIDFSKAKYLSEERGNKFKKGVAKN 305

Query: 290 -EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA 348
            +++F           L+++        +        + +  +YL++ + S      +  
Sbjct: 306 EDVLFAHNATVGPVAILKTSAPKVILSTSLTLYRCDNNFLLPSYLSYYLDSPMFKIQYQK 365

Query: 349 -MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
            M    R  +     ++   L+P I+EQ  I N + +   RI+   ++ E+      E +
Sbjct: 366 VMSQTTRNQVPITAQRKFLFLIPTIQEQEIIANTLGLVDERINYFTQEKER----YTELK 421

Query: 408 SSFIAAAVTGQIDL 421
              +   +TG+I +
Sbjct: 422 KGLMQQLLTGKIRV 435


>gi|224369051|ref|YP_002603215.1| HsdS2 [Desulfobacterium autotrophicum HRM2]
 gi|223691768|gb|ACN15051.1| HsdS2 [Desulfobacterium autotrophicum HRM2]
          Length = 426

 Score =  157 bits (396), Expect = 4e-36,   Method: Composition-based stats.
 Identities = 74/437 (16%), Positives = 157/437 (35%), Gaps = 38/437 (8%)

Query: 8   PQYKDSGVQWIGAIPKHWKVVPIKRFT-KLNTGRTSES------GKDIIYIGLEDVESGT 60
             YK + + W   IP+ W  V +     K+ +G T          K + +   +++  GT
Sbjct: 5   EGYKKTKIGW---IPEDWDCVKLGGIVNKVGSGITPRGGSKVYCDKGVPFFRSQNILHGT 61

Query: 61  GKYLPKDGNSRQSDTS-TVSIFAKGQILYGKLGPYLRKAIIADFD---GICSTQFLVLQP 116
                    S         +      +L    G  + +  +   +   G  +    +++P
Sbjct: 62  VSVKDIVYISENLHQKMKNTHLQPADVLLNITGASIGRCCVFPNNFKKGNVNQHVCIIRP 121

Query: 117 KDVLPELLQG-WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKII 175
              +        L S    ++I     G      +++ I +  +P+PPL EQ  I + + 
Sbjct: 122 DGTIKSQYLCSLLNSPIGQKQIWNFQAGGNREGLNFQQIRSFILPLPPLPEQQKIADVL- 180

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVK 235
                +D  I+   + I+  ++ K+ L+  ++T+G+    + KD+ I   G +P  W+V 
Sbjct: 181 ---STVDDKISSIDQQIQQTEQLKKGLMEKLLTEGIG-HTEFKDTEI---GQIPASWDVV 233

Query: 236 PFFALVTELN-----RKNTKLIESNILSLSYGNI----IQKLETRNMGLKPESYETYQIV 286
               +   +        +       I  +   NI    I   +   +          + +
Sbjct: 234 KLKTICHRIFVGIATSTSEHYTNDGIPIIRNQNIKENSISGDDLLKITNDFNEKNHSKKL 293

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV- 345
             G+I+            +   +       T+         I   YL+  + S    K+ 
Sbjct: 294 MVGDIITARTGYPGM-SCVIPKKFEGAQTFTTLVSRPNKERIFPHYLSRYINSDIGKKIV 352

Query: 346 FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
                 G +Q+L    +K +P+++PP++EQ  I  +++    +IDVL  K          
Sbjct: 353 LSNQAGGAQQNLNAGRLKEIPIILPPLEEQKQIATILSSVDDKIDVLRSKKTS----YTT 408

Query: 406 RRSSFIAAAVTGQIDLR 422
            +   +   +TGQ+ ++
Sbjct: 409 LKKGLMGQLLTGQMRVK 425


>gi|305432343|ref|ZP_07401506.1| iron-sulfur cluster assembly accessory protein [Campylobacter coli
           JV20]
 gi|304444691|gb|EFM37341.1| iron-sulfur cluster assembly accessory protein [Campylobacter coli
           JV20]
          Length = 404

 Score =  156 bits (394), Expect = 6e-36,   Method: Composition-based stats.
 Identities = 62/412 (15%), Positives = 136/412 (33%), Gaps = 28/412 (6%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           +P+ W+V  +    ++  G+T           + I++ + D++S       +  ++    
Sbjct: 4   LPQGWEVKKLGDIAEIQIGKTPSRNNIDFFQGENIWLSIRDLKSKFVSSSSEKISNEAIS 63

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
            + + +  KG +L       L K   A+ D   +     +  K+            +  T
Sbjct: 64  KTNMKVVPKGTLLMS-FKLTLGKTAFAECDLYTNEAIAAIFIKNK-NINKYFLDYVLKFT 121

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRIDTLITERIRFIE 193
              + +         + + +  I + +P  + EQ  I   +     +ID  I    + + 
Sbjct: 122 DLEKYVDNAVKGKTLNKQKLKQIEILLPKNIKEQERIVGILDESFAKIDESIKILEQDLL 181

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
            L E  Q+ +        +         ++    +P  WE K    +   +         
Sbjct: 182 NLDELMQSALQKAFNPLKD--------NVKENYKLPQSWEWKSLGEIGEIITGTTPSKNN 233

Query: 254 SNILSLSYGNIIQKLETRNMGLKPES-------YETYQIVDPGEIVFRFIDLQNDKRSLR 306
            N     Y          ++ +K  S       ++  + +    I+   I     K  L 
Sbjct: 234 PNFYGNEYPLFKPSDLNGDIIIKYASDNLSKLGFDNARNLPKDTILVVCIGASIGKVGLS 293

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRL 365
                    I +           S YL ++  S     +     S      +   +  +L
Sbjct: 294 GVNGSCNQQINAII---PNSAFTSKYLFFVCLSNYFQTILKKNASQTTLPIINKTEFSKL 350

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
            + +PPIKEQ  IT+ ++  ++ +  L +  +  I  L+E ++S +  A  G
Sbjct: 351 QIPLPPIKEQEQITSHLDELSSHVKNLKQNYQAQIKDLQELKNSLLDKAFKG 402



 Score = 82.1 bits (201), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 32/199 (16%), Positives = 66/199 (33%), Gaps = 8/199 (4%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESG------KDIIYIGLEDVESGTGKYLPKDGNSRQS 73
            +P+ W+   +    ++ TG T           +       D+ +G         N  + 
Sbjct: 207 KLPQSWEWKSLGEIGEIITGTTPSKNNPNFYGNEYPLFKPSDL-NGDIIIKYASDNLSKL 265

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL-SID 132
                    K  IL   +G  + K  ++  +G C+ Q   + P          ++  S  
Sbjct: 266 GFDNARNLPKDTILVVCIGASIGKVGLSGVNGSCNQQINAIIPNSAFTSKYLFFVCLSNY 325

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
               ++      T+   +      + +P+PP+ EQ  I   +   +  +  L       I
Sbjct: 326 FQTILKKNASQTTLPIINKTEFSKLQIPLPPIKEQEQITSHLDELSSHVKNLKQNYQAQI 385

Query: 193 ELLKEKKQALVSYIVTKGL 211
           + L+E K +L+       L
Sbjct: 386 KDLQELKNSLLDKAFKGNL 404


>gi|149280202|ref|ZP_01886325.1| putative type I restriction-modification system, S subunit
           [Pedobacter sp. BAL39]
 gi|149229039|gb|EDM34435.1| putative type I restriction-modification system, S subunit
           [Pedobacter sp. BAL39]
          Length = 394

 Score =  156 bits (394), Expect = 7e-36,   Method: Composition-based stats.
 Identities = 97/405 (23%), Positives = 174/405 (42%), Gaps = 30/405 (7%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG- 84
             + +K    + +G T ESG+   + G  D    T   L K GN    D S   I  +G 
Sbjct: 2   NQISVKYIFNIFSGSTPESGQAFFWDG--DHNWFTPDDLGKIGNKIYVDESNRKITDEGV 59

Query: 85  -----------QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
                       I+  K  P      I      C+    +L+ K+    +   +   +  
Sbjct: 60  ENANLKFGVANSIIITKRAPI-GNLAITTLPSSCNQGCFILEQKNSDINVKYYYYYFLIQ 118

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
             ++  +  G+T    +   + +   P+P L++Q  I + +  E  +ID LI ++ + + 
Sbjct: 119 KDKLNNLGRGSTFLELNADEMKSYKAPLPSLSQQNKIVDYLDNEVAKIDALIEKKTQLVT 178

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
           +L+EKK+A+++  VTKGL+P+V MKDSGI+W+G +P HWE+     +    +        
Sbjct: 179 ILEEKKKAVINQTVTKGLDPNVSMKDSGIQWLGYIPKHWELVKLKYVSNLKSGD------ 232

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
                L   NI ++ + +  G              G+++     L   + +L        
Sbjct: 233 ----FLPAENIKEEGDFKVFGGNGARGYFDNYNHEGDLI-----LIGRQGALCGNINFAN 283

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
               +   A+  + I      WL +  +L  +     +  +  L  + +K L ++ PPI 
Sbjct: 284 EKFWATEHAIVCNPIALFDYYWLGKQLELMNLNQYSLAAAQPGLSVDVIKNLFIVFPPIN 343

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           EQ  I+N +     +  + V+KI  SI LLKE+R++ I+AAV G+
Sbjct: 344 EQRSISNYLLELDKKNGLAVKKIRDSIDLLKEKRTAVISAAVNGE 388



 Score = 85.2 bits (209), Expect = 2e-14,   Method: Composition-based stats.
 Identities = 49/206 (23%), Positives = 83/206 (40%), Gaps = 16/206 (7%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDG 68
             KDSG+QW+G IPKHW++V +K  + L +G          ++  E+++   G +    G
Sbjct: 201 SMKDSGIQWLGYIPKHWELVKLKYVSNLKSG---------DFLPAENIKE-EGDFKVFGG 250

Query: 69  NSRQSDTSTVSIFAKGQ-ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW 127
           N  +      +   +G  IL G+ G        A+     +   +V  P  +       W
Sbjct: 251 NGARGYFDNYN--HEGDLILIGRQGALCGNINFANEKFWATEHAIVCNPIALFD---YYW 305

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
           L        +      A         I N+ +  PP+ EQ  I   ++    +    + +
Sbjct: 306 LGKQLELMNLNQYSLAAAQPGLSVDVIKNLFIVFPPINEQRSISNYLLELDKKNGLAVKK 365

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNP 213
               I+LLKEK+ A++S  V   LN 
Sbjct: 366 IRDSIDLLKEKRTAVISAAVNGELNA 391


>gi|23452718|gb|AAN33132.1| putative type I specificity subunit HsdS [Campylobacter jejuni]
          Length = 403

 Score =  156 bits (394), Expect = 7e-36,   Method: Composition-based stats.
 Identities = 69/409 (16%), Positives = 145/409 (35%), Gaps = 21/409 (5%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           +P+ W+V  +    ++ TG T         GKD  +    D E G         N  +  
Sbjct: 4   LPQGWEVKTLSEIGEIVTGSTPSKSNLDFYGKDYPFFKPSDFEQGYF-LENAGDNLSKLG 62

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP-KDVLPELLQGWLLSIDV 133
                      IL   +G  L K  +    G C+ Q   + P K+++ E +  + +S   
Sbjct: 63  FDKARQLPPKTILVVCIGS-LGKVALTKVIGSCNQQINAIIPHKNIISEYIYYYCISSKF 121

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRIDTLITERIRFI 192
              + +     T++  +      + +  P  + EQ  I   +     +ID  I +    +
Sbjct: 122 QSILFSKAPQTTLAILNKTEFSKLEIIYPKDIKEQERIVGILDFAFSKIDENIKKAKENL 181

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLV-PDHWEVKPFFALVTELNRKNTKL 251
             + E  Q+ +        +   +       W      D         +     + N  +
Sbjct: 182 ANIDELMQSALQKAFNPLNDNTKENYQLPQSWEWKSLGDTSNYGKTSQVKPSQLKGNDWI 241

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
           +E   +    G ++QK+  ++   K    +     + G+I+F  +     K  +      
Sbjct: 242 LELEDIEKESGVLLQKVLFQDRQSKSNKIK----FNKGDILFGTLRPYLKKVIIA----D 293

Query: 312 ERGIITSAYMAVKP-HGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLV 369
           + G  +S  M     + I + ++ + + +  L     ++  G R   L  +D K L + +
Sbjct: 294 DNGACSSEIMPFSTGNSITNHFIYYYLFANFLHDRISSLTYGARMPRLGTKDGKSLQIPL 353

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           PP++EQ  I   ++    +   L E   + +   +E + S +  A  G+
Sbjct: 354 PPLQEQEQIAEHLDFVFEKAKALKELYTKELKDYEELKQSLLDKAFKGE 402



 Score = 78.3 bits (191), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 54/198 (27%), Positives = 89/198 (44%), Gaps = 8/198 (4%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRT----SESGKDIIYI-GLEDVESGTGKYLPKDGNSRQSD 74
            +P+ W+   +      N G+T        K   +I  LED+E  +G  L K     +  
Sbjct: 208 QLPQSWEWKSLGD--TSNYGKTSQVKPSQLKGNDWILELEDIEKESGVLLQKVLFQDRQS 265

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL-PELLQGWLLSIDV 133
            S    F KG IL+G L PYL+K IIAD +G CS++ +     + +    +  +L +  +
Sbjct: 266 KSNKIKFNKGDILFGTLRPYLKKVIIADDNGACSSEIMPFSTGNSITNHFIYYYLFANFL 325

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
             RI ++  GA M     K   ++ +P+PPL EQ  I E +     +   L     + ++
Sbjct: 326 HDRISSLTYGARMPRLGTKDGKSLQIPLPPLQEQEQIAEHLDFVFEKAKALKELYTKELK 385

Query: 194 LLKEKKQALVSYIVTKGL 211
             +E KQ+L+       L
Sbjct: 386 DYEELKQSLLDKAFKGEL 403


>gi|19881267|gb|AAM00872.1|AF486555_3 HsdS [Campylobacter jejuni]
          Length = 411

 Score =  156 bits (393), Expect = 8e-36,   Method: Composition-based stats.
 Identities = 60/412 (14%), Positives = 136/412 (33%), Gaps = 19/412 (4%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           +P+ W+V  +    ++ TG T         GKD  +    D E G         N  +  
Sbjct: 4   LPQGWEVKKLGEIGEIVTGSTPSKSNLDFYGKDYPFFKPSDFEQGYF-LENAGDNLSKLG 62

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
                      IL   +G   + A+             ++  K+++ E +  + +S    
Sbjct: 63  FDKARQLPPKTILVVCIGSLGKVALTRVIGSCNQQINAIIPHKNIIAEYIYYYCISSKFQ 122

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRIDTLITERIRFIE 193
             + +     T++  +      + +  P  + EQ  I   +     +ID  I    + + 
Sbjct: 123 SILFSKAPQTTLAIFNKTEFSKLEIIYPKDIKEQERIVGILDESFAKIDESIKILEQDLL 182

Query: 194 LLKEKKQALVSYIVTKGLN--PDVKMKDSGIEW--VGLVPDHWEVKPFFALVTELNRKNT 249
            L E  Q+ +        +   +      G EW  +G + +  +     +   E+     
Sbjct: 183 NLDELMQSALQKAFNPLKDNAKENYKLPQGWEWKSLGEISNLIQNGFAASKNNEIPSGYV 242

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
            L   NI +    N    ++ +   +K    E    ++  +I+F   +            
Sbjct: 243 HLRTHNISTDGNLNFDTLIKIKREFIK----EKQSFIEKNDILFNNTNSTELVGKTALVT 298

Query: 310 VMERGIITSAY-MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG--LRQSLKFEDVKRLP 366
                  ++        +  +S  + +        K F  +      +  +  + +K++ 
Sbjct: 299 QNYNYAFSNHLTKIKLKNQYNSKLVVFYFVLLLKNKYFEKICHQWIGQSGINIDKLKKIQ 358

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           + +PP+KEQ  I   ++    +   L E   + +   +E + S +  A  G+
Sbjct: 359 IPLPPLKEQEQIAEHLDFVFEKAKALKELYTKELKDYEELKQSLLNKAFKGE 410



 Score = 67.5 bits (163), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 29/204 (14%), Positives = 70/204 (34%), Gaps = 12/204 (5%)

Query: 20  AIPKHWKVVPIKRFTK-LNTGRTSESGKDIIY----IGLEDVES-GTGKYLPKDGNSRQS 73
            +P+ W+   +   +  +  G  +    +I      +   ++ + G   +       R+ 
Sbjct: 208 KLPQGWEWKSLGEISNLIQNGFAASKNNEIPSGYVHLRTHNISTDGNLNFDTLIKIKREF 267

Query: 74  DTSTVSIFAKGQILYGKLGPY----LRKAIIADFDGICSTQFLVLQPKDVLPEL--LQGW 127
                S   K  IL+              +  +++   S     ++ K+       +  +
Sbjct: 268 IKEKQSFIEKNDILFNNTNSTELVGKTALVTQNYNYAFSNHLTKIKLKNQYNSKLVVFYF 327

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
           +L +      +   +    S  +   +  I +P+PPL EQ  I E +     +   L   
Sbjct: 328 VLLLKNKYFEKICHQWIGQSGINIDKLKKIQIPLPPLKEQEQIAEHLDFVFEKAKALKEL 387

Query: 188 RIRFIELLKEKKQALVSYIVTKGL 211
             + ++  +E KQ+L++      L
Sbjct: 388 YTKELKDYEELKQSLLNKAFKGEL 411


>gi|15678961|ref|NP_276078.1| type I restriction modification system, subunit S
           [Methanothermobacter thermautotrophicus str. Delta H]
 gi|2622039|gb|AAB85439.1| type I restriction modification system, subunit S
           [Methanothermobacter thermautotrophicus str. Delta H]
          Length = 407

 Score =  156 bits (393), Expect = 9e-36,   Method: Composition-based stats.
 Identities = 71/424 (16%), Positives = 161/424 (37%), Gaps = 34/424 (8%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVESGTG 61
           ++KDS V   G IP  W V  +     + TG T  +         D++++   D+ +  G
Sbjct: 5   EFKDSPV---GRIPVDWGVSRVSEVFDVFTGTTPSTKIDEFWDDGDVVWVTPADMSNLNG 61

Query: 62  KYL---PKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKD 118
             +    +    +    + +++  K  IL     P      +   + + +     L PK 
Sbjct: 62  IMIADSERKVTVKALKRTNLNLIPKLSILISTRAPV-GYVALNTVECVFNQGCKALVPKS 120

Query: 119 VLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
            +      + L I+  +  + +  G+T    + K +  I +P+PPL EQ  I E +    
Sbjct: 121 HVDTRYFAYYLLINKKRLQD-LSGGSTFKELNKKTLEKIYLPVPPLEEQKRISEILQDVD 179

Query: 179 VRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFF 238
                 I +  + I + ++ K+ L+  ++ +G+N   + KDS +   G +P  W+V    
Sbjct: 180 GA----IEKVNKEIGVTEKLKRGLMQRLLMEGIN-HTEFKDSHV---GRIPVDWDVVNLE 231

Query: 239 ALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDL 298
            +V   + K   L E   + +                    Y    I +   ++      
Sbjct: 232 DVVEIHDNKRIPLSEKERIKMKGDYPYCGANGII------DYINDYIFNGEFVLLAEDGG 285

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLK 358
                   +  +  +  + +    ++          +L+       + + +    R+ L 
Sbjct: 286 DYSSFGSSAYIMNGKFWVNNHAHVIEA-LPSKITNRFLLHILIYLDLTHYVVGSTRKKLN 344

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
              ++++ + +PP++EQ  I+ ++     R+++L E+     V L+  +   +   +TG+
Sbjct: 345 QGIMRKIKIPLPPLEEQKRISEILQDVDRRLELLTERK----VKLENIKRGLMNDLLTGK 400

Query: 419 IDLR 422
             +R
Sbjct: 401 RRVR 404


>gi|148925704|ref|ZP_01809392.1| putative type I specificity subunit HsdS [Campylobacter jejuni
           subsp. jejuni CG8486]
 gi|157415770|ref|YP_001483026.1| hypothetical protein C8J_1451 [Campylobacter jejuni subsp. jejuni
           81116]
 gi|19881216|gb|AAM00830.1|AF486546_4 HsdS [Campylobacter jejuni]
 gi|19881256|gb|AAM00863.1|AF486553_4 HsdS [Campylobacter jejuni]
 gi|19881280|gb|AAM00883.1|AF486557_4 HsdS [Campylobacter jejuni]
 gi|19881299|gb|AAM00895.1|AF486564_1 HsdS [Campylobacter jejuni]
 gi|23452712|gb|AAN33130.1| putative type I specificity subunit HsdS [Campylobacter jejuni]
 gi|23452721|gb|AAN33133.1| putative type I specificity subunit HsdS [Campylobacter jejuni]
 gi|23452731|gb|AAN33137.1| putative type I specificity subunit HsdS [Campylobacter jejuni]
 gi|23452734|gb|AAN33138.1| putative type I specificity subunit HsdS [Campylobacter jejuni]
 gi|23452736|gb|AAN33139.1| putative type I specificity subunit HsdS [Campylobacter jejuni]
 gi|23452751|gb|AAN33145.1| putative type I specificity subunit HsdS [Campylobacter jejuni]
 gi|23452754|gb|AAN33146.1| putative type I specificity subunit HsdS [Campylobacter jejuni]
 gi|23452759|gb|AAN33148.1| putative type I specificity subunit HsdS [Campylobacter jejuni]
 gi|23452761|gb|AAN33149.1| putative type I specificity subunit HsdS [Campylobacter jejuni]
 gi|145845714|gb|EDK22805.1| putative type I specificity subunit HsdS [Campylobacter jejuni
           subsp. jejuni CG8486]
 gi|157386734|gb|ABV53049.1| hypothetical protein C8J_1451 [Campylobacter jejuni subsp. jejuni
           81116]
 gi|307748412|gb|ADN91682.1| Putative type I specificity subunit HsdS [Campylobacter jejuni
           subsp. jejuni M1]
 gi|315931058|gb|EFV10033.1| type I restriction modification DNA specificity domain protein
           [Campylobacter jejuni subsp. jejuni 327]
          Length = 403

 Score =  155 bits (392), Expect = 1e-35,   Method: Composition-based stats.
 Identities = 69/409 (16%), Positives = 145/409 (35%), Gaps = 21/409 (5%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           +P+ W+V  +    ++ TG T         GKD  +    D E G         N  +  
Sbjct: 4   LPQGWEVKTLSEIGEIVTGSTPSKSNLDFYGKDYPFFKPSDFEQGYF-LENAGDNLSKLG 62

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP-KDVLPELLQGWLLSIDV 133
                      IL   +G  L K  +    G C+ Q   + P K+++ E +  + +S   
Sbjct: 63  FGKARQLPPKTILVVCIGS-LGKVALTKVIGSCNQQINAIIPHKNIISEYIYYYCISSKF 121

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRIDTLITERIRFI 192
              + +     T++  +      + +  P  + EQ  I   +     +ID  I +    +
Sbjct: 122 QSILFSKAPQTTLAILNKTEFSKLEIIYPKDIKEQERIVGILDFAFSKIDENIKKAKENL 181

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLV-PDHWEVKPFFALVTELNRKNTKL 251
             + E  Q+ +        +   +       W      D         +     + N  +
Sbjct: 182 ANIDELMQSALQKAFNPLNDNTKENYQLPQSWEWKSLGDTSNYGKTSQVKPSQLKGNDWI 241

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
           +E   +    G ++QK+  ++   K    +     + G+I+F  +     K  +      
Sbjct: 242 LELEDIEKESGVLLQKVLFQDRQSKSNKIK----FNKGDILFGTLRPYLKKVIIA----D 293

Query: 312 ERGIITSAYMAVKP-HGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLV 369
           + G  +S  M     + I + ++ + + +  L     ++  G R   L  +D K L + +
Sbjct: 294 DNGACSSEIMPFSTGNSITNHFIYYYLFANFLHDRISSLTYGARMPRLGTKDGKSLQIPL 353

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           PP++EQ  I   ++    +   L E   + +   +E + S +  A  G+
Sbjct: 354 PPLQEQEQIAEHLDFVFEKAKALKELYTKELKDYEELKQSLLDKAFKGE 402



 Score = 78.3 bits (191), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 54/198 (27%), Positives = 89/198 (44%), Gaps = 8/198 (4%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRT----SESGKDIIYI-GLEDVESGTGKYLPKDGNSRQSD 74
            +P+ W+   +      N G+T        K   +I  LED+E  +G  L K     +  
Sbjct: 208 QLPQSWEWKSLGD--TSNYGKTSQVKPSQLKGNDWILELEDIEKESGVLLQKVLFQDRQS 265

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL-PELLQGWLLSIDV 133
            S    F KG IL+G L PYL+K IIAD +G CS++ +     + +    +  +L +  +
Sbjct: 266 KSNKIKFNKGDILFGTLRPYLKKVIIADDNGACSSEIMPFSTGNSITNHFIYYYLFANFL 325

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
             RI ++  GA M     K   ++ +P+PPL EQ  I E +     +   L     + ++
Sbjct: 326 HDRISSLTYGARMPRLGTKDGKSLQIPLPPLQEQEQIAEHLDFVFEKAKALKELYTKELK 385

Query: 194 LLKEKKQALVSYIVTKGL 211
             +E KQ+L+       L
Sbjct: 386 DYEELKQSLLDKAFKGEL 403


>gi|23452738|gb|AAN33140.1| putative type I specificity subunit HsdS [Campylobacter jejuni]
          Length = 411

 Score =  155 bits (392), Expect = 1e-35,   Method: Composition-based stats.
 Identities = 60/412 (14%), Positives = 136/412 (33%), Gaps = 19/412 (4%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           +P+ W+V  +    ++ TG T         GKD  +    D E G         N  +  
Sbjct: 4   LPQGWEVKKLGEIGEIVTGSTPSKSNLDFYGKDYPFFKPSDFEQGYF-LENAGDNLSKLG 62

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
                      IL   +G   + A+             ++  K+++ E +  + +S    
Sbjct: 63  FDKARQLPPKTILVVCIGSLGKVALTRVIGSCNQQINAIIPHKNIISEYIYYYCISSKFQ 122

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRIDTLITERIRFIE 193
             + +     T++  +      + +  P  + EQ  I   +     +ID  I    + + 
Sbjct: 123 SILFSKAPQTTLAIFNKTEFSKLEIIYPKDIKEQERIVGILDESFAKIDESIKILEQDLL 182

Query: 194 LLKEKKQALVSYIVTKGLN--PDVKMKDSGIEW--VGLVPDHWEVKPFFALVTELNRKNT 249
            L E  Q+ +        +   +      G EW  +G + +  +     +   E+     
Sbjct: 183 NLDELMQSALQKAFNPLKDNAKENYKLPQGWEWKSLGEISNLIQNGFAASKNNEIPSGYV 242

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
            L   NI +    N    ++ +   +K    E    ++  +I+F   +            
Sbjct: 243 HLRTHNISTDGNLNFDTLIKIKREFIK----EKQSFIEKNDILFNNTNSTELVGKTALVT 298

Query: 310 VMERGIITSAY-MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG--LRQSLKFEDVKRLP 366
                  ++        +  +S  + +        K F  +      +  +  + +K++ 
Sbjct: 299 QNYNYAFSNHLTKIKLKNQYNSKLVVFYFVLLLKNKYFEKICHQWIGQSGINIDKLKKIQ 358

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           + +PP+KEQ  I   ++    +   L E   + +   +E + S +  A  G+
Sbjct: 359 IPLPPLKEQEQIAKHLDFVFEKTKALKELYTKELKDYEELKQSLLNKAFKGE 410



 Score = 67.5 bits (163), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 28/204 (13%), Positives = 70/204 (34%), Gaps = 12/204 (5%)

Query: 20  AIPKHWKVVPIKRFTK-LNTGRTSESGKDIIY----IGLEDVES-GTGKYLPKDGNSRQS 73
            +P+ W+   +   +  +  G  +    +I      +   ++ + G   +       R+ 
Sbjct: 208 KLPQGWEWKSLGEISNLIQNGFAASKNNEIPSGYVHLRTHNISTDGNLNFDTLIKIKREF 267

Query: 74  DTSTVSIFAKGQILYGKLGPY----LRKAIIADFDGICSTQFLVLQPKDVLPEL--LQGW 127
                S   K  IL+              +  +++   S     ++ K+       +  +
Sbjct: 268 IKEKQSFIEKNDILFNNTNSTELVGKTALVTQNYNYAFSNHLTKIKLKNQYNSKLVVFYF 327

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
           +L +      +   +    S  +   +  I +P+PPL EQ  I + +     +   L   
Sbjct: 328 VLLLKNKYFEKICHQWIGQSGINIDKLKKIQIPLPPLKEQEQIAKHLDFVFEKTKALKEL 387

Query: 188 RIRFIELLKEKKQALVSYIVTKGL 211
             + ++  +E KQ+L++      L
Sbjct: 388 YTKELKDYEELKQSLLNKAFKGEL 411


>gi|330874481|gb|EGH08630.1| type I restriction-modification system specificity subunit
           [Pseudomonas syringae pv. morsprunorum str. M302280PT]
          Length = 421

 Score =  155 bits (391), Expect = 2e-35,   Method: Composition-based stats.
 Identities = 99/417 (23%), Positives = 175/417 (41%), Gaps = 32/417 (7%)

Query: 20  AIPKH----------WKVVPIKRFTKLNTGRTSES---GKDIIYIGLEDVESGTGKYLPK 66
            +P+           W++  +K    +N   +      G+   ++ +E V +  G+    
Sbjct: 10  QVPEGTCSSSDTAKKWRICRLKHVALINPYLSLSRVRWGEPATFLPMEAVSTD-GQVDYS 68

Query: 67  DGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAI------IADFDGICSTQFLV-LQPKDV 119
           +    ++  S  + F  G ++  K+ P            +    G  ST+F V    K  
Sbjct: 69  EPEDSKNLVSGFTNFEAGDVILAKITPCFENGKGAVLSDMPTRVGFGSTEFHVLRVNKKA 128

Query: 120 LPELLQGWLLSIDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
           +P  +     S    ++ EA+  G+          + N  + +P L EQ  I + +  +T
Sbjct: 129 IPNFIYYITKSDLFMRQGEALMIGSAGQKRVSTSYVENFQLALPSLHEQRKIVDFLEEKT 188

Query: 179 VRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFF 238
             I   I+++   IELL+E+KQ LV   VT+GL+P   M+++GIEW+G +P HWEV+   
Sbjct: 189 SLIAEAISKKEYQIELLEERKQILVQQAVTRGLDPAAPMRNAGIEWIGEIPKHWEVRRSK 248

Query: 239 ALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY----ETYQIVDPGEIVFR 294
               +      K       + SYG I Q      +G K        E  + V+ G+ V  
Sbjct: 249 FTFNQRKELARKNDIQLSATQSYGVIPQDEYEEKVGRKVVKILFNLEKRKHVEVGDFVIS 308

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR 354
               Q     L  A      I +S  +     GID  Y ++L++S        A  + +R
Sbjct: 309 MRSFQG---GLERAWASG-CIRSSYVILKPLPGIDPGYYSYLLKSKRYIAALQATANFIR 364

Query: 355 --QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
             Q L FE+   + + +PP+ EQ +I   +    ++ D  +  +EQ I+ LKE +++
Sbjct: 365 DGQDLNFENFALVDLPIPPLDEQKEIARYLASWLSKADRGLYLLEQQIIKLKEYKAT 421



 Score = 94.5 bits (233), Expect = 3e-17,   Method: Composition-based stats.
 Identities = 26/141 (18%), Positives = 58/141 (41%), Gaps = 5/141 (3%)

Query: 281 ETYQIVDPGEIVFRFIDLQ--NDKRSLRSAQVMERGIITSAYMA-VKPHGIDSTYLAWLM 337
             +   + G+++   I     N K ++ S      G  ++ +            ++ ++ 
Sbjct: 78  SGFTNFEAGDVILAKITPCFENGKGAVLSDMPTRVGFGSTEFHVLRVNKKAIPNFIYYIT 137

Query: 338 RSYDLCKV--FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
           +S    +      +GS  ++ +    V+   + +P + EQ  I + +  +T+ I   + K
Sbjct: 138 KSDLFMRQGEALMIGSAGQKRVSTSYVENFQLALPSLHEQRKIVDFLEEKTSLIAEAISK 197

Query: 396 IEQSIVLLKERRSSFIAAAVT 416
            E  I LL+ER+   +  AVT
Sbjct: 198 KEYQIELLEERKQILVQQAVT 218



 Score = 67.1 bits (162), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 32/177 (18%), Positives = 60/177 (33%), Gaps = 9/177 (5%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDI-IYIGLEDVESGTGKYLPKDG 68
            +++G++WIG IPKHW+V   K     N  +      DI +            +Y  K G
Sbjct: 227 MRNAGIEWIGEIPKHWEVRRSK--FTFNQRKELARKNDIQLSATQSYGVIPQDEYEEKVG 284

Query: 69  ---NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ 125
                   +         G  +   +  +      A   G   + +++L+P   +     
Sbjct: 285 RKVVKILFNLEKRKHVEVGDFVIS-MRSFQGGLERAWASGCIRSSYVILKPLPGIDPGYY 343

Query: 126 GWLLSIDVTQRIEAICEGATM--SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
            +LL                      +++    + +PIPPL EQ  I   + +   +
Sbjct: 344 SYLLKSKRYIAALQATANFIRDGQDLNFENFALVDLPIPPLDEQKEIARYLASWLSK 400


>gi|325662102|ref|ZP_08150720.1| hypothetical protein HMPREF0490_01458 [Lachnospiraceae bacterium
           4_1_37FAA]
 gi|325471551|gb|EGC74771.1| hypothetical protein HMPREF0490_01458 [Lachnospiraceae bacterium
           4_1_37FAA]
          Length = 435

 Score =  154 bits (390), Expect = 2e-35,   Method: Composition-based stats.
 Identities = 87/433 (20%), Positives = 186/433 (42%), Gaps = 28/433 (6%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESG-----KDIIYIGLED--VESGTGKY 63
           KDSG++W+G IP  WK + ++      T  T+        +++IY   ED  +   T   
Sbjct: 6   KDSGIKWVGEIPSDWKALKLRYICDKITDYTASGSFASLAENVIYRDYEDYAMLVRTADL 65

Query: 64  LPKDGNSRQS-DTSTVSIFAK-----GQILYGKLGPYLRKAIIADFD--GICSTQFLVLQ 115
             K   S+   D    +  +      G+++   +G      +          +   +++Q
Sbjct: 66  SNKRETSKVYVDEHAYNYLSNSNLFGGEVILPNIGSVGEVYLYQPIYERATLAPNAIMIQ 125

Query: 116 PKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKII 175
             + + + L  +  +      ++ +    T    +   + N+ + IPP  + + I   + 
Sbjct: 126 APEEVEKFLYYYFSTYGAFDDLKNLGNATTQIKFNKTQLRNLKVVIPPKEKMLKINCFLD 185

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVK 235
               +I++ +T   + I+ L+E K+++V   V+KG+    ++KD+  +    +P  W++ 
Sbjct: 186 RRCEKIESFVTVVQQQIDTLEELKRSVVYEAVSKGIKKA-ELKDTDSDVWAKIPKDWQLV 244

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRF 295
                + E+ ++       +ILS++   +  K  + N G   ++Y  YQIV P + V   
Sbjct: 245 DV-KYLFEIVKRIAGKEGIDILSVTQQGLKVKDISSNEGQIADNYSGYQIVYPTDYVMNH 303

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWL---MRSYDLCKVFYAMGSG 352
           +DL        +      G+ +  Y   +     +  L +    M+   +C++FY++G G
Sbjct: 304 MDLLTGWVDCSTM----FGVTSPDYRVFRLMDKANNSLRYYKYVMQCCYMCRIFYSLGQG 359

Query: 353 L----RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
           +    R  L+        V  PP+KEQ  I + I  + + I+ L+    +   +L++ + 
Sbjct: 360 VSTLGRWRLQTSSFLNFKVPAPPLKEQEIIADYIEEKVSGIERLINLKIEQQRVLEDYKK 419

Query: 409 SFIAAAVTGQIDL 421
           + IA  VTG+ ++
Sbjct: 420 TLIADYVTGKKEV 432



 Score = 80.6 bits (197), Expect = 5e-13,   Method: Composition-based stats.
 Identities = 37/219 (16%), Positives = 84/219 (38%), Gaps = 18/219 (8%)

Query: 214 DVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN-------------TKLIESNILSLS 260
               KDSGI+WVG +P  W+      +  ++                  +  E   + + 
Sbjct: 2   MQIKKDSGIKWVGEIPSDWKALKLRYICDKITDYTASGSFASLAENVIYRDYEDYAMLVR 61

Query: 261 YGNIIQKLETRNMGLKPESYE--TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
             ++  K ET  + +   +Y   +   +  GE++   I    +    +   + ER  +  
Sbjct: 62  TADLSNKRETSKVYVDEHAYNYLSNSNLFGGEVILPNIGSVGEVYLYQP--IYERATLAP 119

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPPIKEQFD 377
             + ++       +L +   +Y        +G+   +       ++ L V++PP ++   
Sbjct: 120 NAIMIQAPEEVEKFLYYYFSTYGAFDDLKNLGNATTQIKFNKTQLRNLKVVIPPKEKMLK 179

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           I   ++    +I+  V  ++Q I  L+E + S +  AV+
Sbjct: 180 INCFLDRRCEKIESFVTVVQQQIDTLEELKRSVVYEAVS 218


>gi|19881249|gb|AAM00857.1|AF486552_3 HsdS [Campylobacter jejuni]
 gi|19881273|gb|AAM00877.1|AF486556_3 HsdS [Campylobacter jejuni]
          Length = 417

 Score =  154 bits (390), Expect = 2e-35,   Method: Composition-based stats.
 Identities = 60/412 (14%), Positives = 136/412 (33%), Gaps = 19/412 (4%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           +P+ W+V  +    ++ TG T         GKD  +    D E G         N  +  
Sbjct: 10  LPQGWEVKKLGEIGEIVTGSTPSKSNLDFYGKDYPFFKPSDFEQGYF-LENAGDNLSKLG 68

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
                      IL   +G   + A+             ++  K+++ E +  + +S    
Sbjct: 69  FDKARQLPPKTILVVCIGSLGKVALTRVIGSCNQQINAIIPHKNIISEYIYYYCISSKFQ 128

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRIDTLITERIRFIE 193
             + +     T++  +      + +  P  + EQ  I   +     +ID  I    + + 
Sbjct: 129 SILFSKAPQTTLAIFNKTEFSKLEIIYPKDIKEQERIVGILDESFAKIDESIKILEQDLL 188

Query: 194 LLKEKKQALVSYIVTKGLN--PDVKMKDSGIEW--VGLVPDHWEVKPFFALVTELNRKNT 249
            L E  Q+ +        +   +      G EW  +G + +  +     +   E+     
Sbjct: 189 NLDELMQSALQKAFNPLKDNAKENYKLPQGWEWKSLGEISNLIQNGFAASKNNEIPSGYV 248

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
            L   NI +    N    ++ +   +K    E    ++  +I+F   +            
Sbjct: 249 HLRTHNISTDGNLNFDTLIKIKREFIK----EKQSFIEKNDILFNNTNSTELVGKTALVT 304

Query: 310 VMERGIITSAY-MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG--LRQSLKFEDVKRLP 366
                  ++        +  +S  + +        K F  +      +  +  + +K++ 
Sbjct: 305 QNYNYAFSNHLTKIKLKNQYNSKLVVFYFVLLLKNKYFEKICHQWIGQSGINIDKLKKIQ 364

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           + +PP+KEQ  I   ++    +   L E   + +   +E + S +  A  G+
Sbjct: 365 IPLPPLKEQEQIAKHLDFVFEKTKALKELYTKELKDYEELKQSLLNKAFKGE 416



 Score = 67.1 bits (162), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 28/204 (13%), Positives = 70/204 (34%), Gaps = 12/204 (5%)

Query: 20  AIPKHWKVVPIKRFTK-LNTGRTSESGKDIIY----IGLEDVES-GTGKYLPKDGNSRQS 73
            +P+ W+   +   +  +  G  +    +I      +   ++ + G   +       R+ 
Sbjct: 214 KLPQGWEWKSLGEISNLIQNGFAASKNNEIPSGYVHLRTHNISTDGNLNFDTLIKIKREF 273

Query: 74  DTSTVSIFAKGQILYGKLGPY----LRKAIIADFDGICSTQFLVLQPKDVLPEL--LQGW 127
                S   K  IL+              +  +++   S     ++ K+       +  +
Sbjct: 274 IKEKQSFIEKNDILFNNTNSTELVGKTALVTQNYNYAFSNHLTKIKLKNQYNSKLVVFYF 333

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
           +L +      +   +    S  +   +  I +P+PPL EQ  I + +     +   L   
Sbjct: 334 VLLLKNKYFEKICHQWIGQSGINIDKLKKIQIPLPPLKEQEQIAKHLDFVFEKTKALKEL 393

Query: 188 RIRFIELLKEKKQALVSYIVTKGL 211
             + ++  +E KQ+L++      L
Sbjct: 394 YTKELKDYEELKQSLLNKAFKGEL 417


>gi|118474615|ref|YP_892156.1| type I restriction-modification system, S subunit [Campylobacter
           fetus subsp. fetus 82-40]
 gi|118413841|gb|ABK82261.1| type I restriction-modification system, S subunit [Campylobacter
           fetus subsp. fetus 82-40]
          Length = 401

 Score =  154 bits (390), Expect = 2e-35,   Method: Composition-based stats.
 Identities = 78/426 (18%), Positives = 161/426 (37%), Gaps = 41/426 (9%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDG 68
            YK + V   G IPK W+VV +    +  T + + +  +++ I  ++       +  K  
Sbjct: 4   SYKQTAV---GRIPKEWEVVRLGDVFQRVTRKNTVNSDNVLTISAQNGLIKQENFFTK-- 58

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD-----FDGICSTQFLVLQPKDVLPEL 123
           +    D S   +  KG+  Y K                   G+ S  ++  + K+   + 
Sbjct: 59  SVASKDLSNYILLEKGEFAYNKSYSSGYPMGATKRLNFYNYGVLSNLYIYFKIKNGNSDF 118

Query: 124 LQGWLLSIDVTQRIEAICEGATMSH----ADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
            + +  +  + + I  I +    +H           NI + +PPL EQ  I E +     
Sbjct: 119 YEQYFEAGLLNKEIHQIAQEGARNHGLLNISVVDFFNILIVLPPLKEQEKIAEIL----S 174

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFA 239
             D +I+     I+     K AL+  +    L+  ++ K+    W             F 
Sbjct: 175 TCDKVISNLDELIKAKTNLKTALMQNL----LSAKIRFKEFTDPW-----QEKFGDKLFK 225

Query: 240 LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQ 299
            +TE+N+     +    +S  +G I + L    + +  +S   Y++V  G  +      Q
Sbjct: 226 TITEINQ--NYDLPILAISQEFGAIPRNLIDYKVIVSYKSISNYKVVRKGNFIISLRSFQ 283

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHGID-STYLAWLMRSYDLCKVFYAMGSGLRQS-- 356
                         GI + AY+ +KP       +  +  +S+D  +   +   G+R    
Sbjct: 284 G-----GIEYSKYDGICSPAYIILKPIQQIFDNFFKYYFKSHDYIQKLNSKLEGIRDGKM 338

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           + F+    + + +P + EQ  I  V++      D  +  ++  +  LK ++   +   +T
Sbjct: 339 VSFKQFSEIKIPLPNLAEQQKIAEVLSA----CDDEINLLKDKLSNLKLQKQGLMQNLLT 394

Query: 417 GQIDLR 422
           G++ +R
Sbjct: 395 GKVRVR 400



 Score = 89.9 bits (221), Expect = 7e-16,   Method: Composition-based stats.
 Identities = 33/207 (15%), Positives = 81/207 (39%), Gaps = 10/207 (4%)

Query: 226 GLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI 285
           G +P  WEV     +   + RKNT   ++ +   +   +I++       +  +    Y +
Sbjct: 11  GRIPKEWEVVRLGDVFQRVTRKNTVNSDNVLTISAQNGLIKQENFFTKSVASKDLSNYIL 70

Query: 286 VDPGEIVFRFIDLQND-KRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCK 344
           ++ GE  +           + +       G++++ Y+  K    +S +      +  L K
Sbjct: 71  LEKGEFAYNKSYSSGYPMGATKRLNFYNYGVLSNLYIYFKIKNGNSDFYEQYFEAGLLNK 130

Query: 345 VFYAMGS-GLRQ----SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
             + +   G R     ++   D   + +++PP+KEQ  I  +++     I  L E I+  
Sbjct: 131 EIHQIAQEGARNHGLLNISVVDFFNILIVLPPLKEQEKIAEILSTCDKVISNLDELIKAK 190

Query: 400 IVLLKERRSSFIAAAVTGQIDLRGESQ 426
                  +++ +   ++ +I  +  + 
Sbjct: 191 ----TNLKTALMQNLLSAKIRFKEFTD 213


>gi|120597149|ref|YP_961723.1| restriction modification system DNA specificity subunit [Shewanella
           sp. W3-18-1]
 gi|120557242|gb|ABM23169.1| restriction modification system DNA specificity domain [Shewanella
           sp. W3-18-1]
          Length = 417

 Score =  154 bits (390), Expect = 2e-35,   Method: Composition-based stats.
 Identities = 61/414 (14%), Positives = 144/414 (34%), Gaps = 17/414 (4%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
           +P  W +  ++  +KL+ G T  +          I ++   +V       +     +   
Sbjct: 5   VPDGWMLKIVRDTSKLSAGGTPSTQVTEYWENGTIPWMSSGEVHKKRVHSVDNCITTLGL 64

Query: 74  DTSTVSIFAKGQILYGKLGP--YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
           + S+  +F    IL    G         I++ +   +     +  KD        +    
Sbjct: 65  ENSSAKMFPSKSILVALAGQGKTRGTVAISEIELTTNQSIAAIIVKDKSVYPDFLYHNLD 124

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
              + +  +  G+  +  +   +G++ + +PPL EQ  I + + +    I+    +  + 
Sbjct: 125 SRYEELRGVSGGSGRAGLNLAILGDLDVLLPPLPEQQKIAKILTSVDQVIEKTQAQIDKL 184

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
            +L     Q L++  V     P  + KDS + W+    D   +  F   ++         
Sbjct: 185 KDLKTGMMQELLTQGVGVDGKPHTEFKDSPVGWIPKTWDLEPLANFTTFISYGFTNPMPE 244

Query: 252 IESNILSLSYGNIIQ-KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
            E     ++  ++   K++        +      +          I L  D    R A V
Sbjct: 245 AEVGPYMITAKDVNDLKVQYSTSRKTTQEAFDNLLTRKSRPQVNDILLTKDGTLGRVALV 304

Query: 311 ME-RGIITSAYMAVKPHGI-DSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPV 367
            +    I  +   + P+      +L +L+ S    +       G   + +    V ++ V
Sbjct: 305 TDSNCCINQSVAVLTPNERVIPKFLLYLLASPRYQQEMLENAGGSTIKHIYITVVDKMLV 364

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            VP + EQ  + ++ +    ++    E  E  +  L + + + +   +TG++ +
Sbjct: 365 GVPSVTEQQKLVDIFDSVFRKL----ELTENKLSKLNDTKKALMQDLLTGKVRV 414



 Score = 72.1 bits (175), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 46/216 (21%), Positives = 84/216 (38%), Gaps = 11/216 (5%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNT-GRT---SESGKDIIYIGLEDVESGT 60
           K + ++KDS V W   IPK W + P+  FT   + G T    E+      I  +DV    
Sbjct: 205 KPHTEFKDSPVGW---IPKTWDLEPLANFTTFISYGFTNPMPEAEVGPYMITAKDVNDLK 261

Query: 61  GKY-LPKDGNSRQSDTSTVSIFAK--GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPK 117
            +Y   +       D             IL  K G   R A++ D +   +    VL P 
Sbjct: 262 VQYSTSRKTTQEAFDNLLTRKSRPQVNDILLTKDGTLGRVALVTDSNCCINQSVAVLTPN 321

Query: 118 DV-LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIA 176
           +  +P+ L   L S    Q +     G+T+ H     +  + + +P + EQ  + +   +
Sbjct: 322 ERVIPKFLLYLLASPRYQQEMLENAGGSTIKHIYITVVDKMLVGVPSVTEQQKLVDIFDS 381

Query: 177 ETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLN 212
              +++    +  +  +  K   Q L++  V   ++
Sbjct: 382 VFRKLELTENKLSKLNDTKKALMQDLLTGKVRVNID 417


>gi|152998552|ref|YP_001355473.1| restriction modification system DNA specificity subunit [Shewanella
           baltica OS185]
 gi|151367566|gb|ABS10565.1| restriction modification system DNA specificity domain [Shewanella
           baltica OS185]
          Length = 388

 Score =  154 bits (389), Expect = 2e-35,   Method: Composition-based stats.
 Identities = 98/428 (22%), Positives = 167/428 (39%), Gaps = 46/428 (10%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT 60
           M HYK Y +YK + + W+ ++P HWK+   KR   +N G   +            +ES  
Sbjct: 1   MSHYKPYLEYKGTDLAWLKSVPSHWKIAQFKRLISINNGSDHKQ-----------IESDD 49

Query: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL 120
           G   P  G+      +   I     +L G+ G   +   +        T +       +L
Sbjct: 50  G--YPVYGSGGVFAYAKDYIHDGESVLLGRKGTIDKPLYVKGKFWTVDTMYW----SKIL 103

Query: 121 PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
           P     +   I  T           +       +G+  +  P   EQ  I   +  ET R
Sbjct: 104 PTANGKFCYYIATTIPFGLYSTNTALPSMTQTDLGSHVVAFPDYNEQTEITRVLDCETTR 163

Query: 181 IDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFAL 240
           ID LI ++ RF+EL+KEK  ALV      G     ++K                     +
Sbjct: 164 IDALIRKKSRFLELIKEKILALVMNEQINGNGKFDRLK--------------------RM 203

Query: 241 VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL-KPESYETYQIVDPGEIVFRFIDLQ 299
              ++R  T +     ++L   N  + L  + + L K     ++  V+ G+++       
Sbjct: 204 TNVVSRPATIVDSDEYVALGLYNRGRGLFHKPVTLGKDMGDSSFFYVEEGDLILSGQFAW 263

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS--- 356
               ++ + +     +++  Y  ++   I + YL  L  +     +      G       
Sbjct: 264 EGAVTMATEKETG-CVVSHRYPVIRGKSIATEYLFALFMTNFGDFLLNESSRGAAGRNRP 322

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           L    +    + +P  + Q +    +    A+ DV   K+++SI LLKERRS+FI AAVT
Sbjct: 323 LNINLLLNEKIRIPSPEVQRE-VKRLMYLKAQADV---KVKKSIALLKERRSAFITAAVT 378

Query: 417 GQIDLRGE 424
           G+IDLRGE
Sbjct: 379 GKIDLRGE 386


>gi|147920567|ref|YP_685636.1| type I restriction modification system, specificity subunit
           [uncultured methanogenic archaeon RC-I]
 gi|110621032|emb|CAJ36310.1| type I restriction modification system, specificity subunit
           [uncultured methanogenic archaeon RC-I]
          Length = 449

 Score =  154 bits (389), Expect = 2e-35,   Method: Composition-based stats.
 Identities = 70/440 (15%), Positives = 158/440 (35%), Gaps = 34/440 (7%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES--GKDIIYIGLEDVESGTGK 62
           K    YK++ +   G IP+ W +V IK   +       +    K   YI +  V + + K
Sbjct: 18  KTDDGYKETPM---GRIPEEWSIVSIKNIVEKTEQIDPQKQPDKYFKYIDVSSVSNESLK 74

Query: 63  YLP-KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDG---ICSTQFLV--LQP 116
            +   +     + +    I     I++  + P L++  I   D    +CST F V     
Sbjct: 75  VVSVNEFKGINAPSRARRIVRTDDIIFATIRPNLKRVAIICDDLEGQLCSTAFCVLRCMK 134

Query: 117 KDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIA 176
               P  +   + +     ++  +  G+         + +  + +PP++EQ  I   +  
Sbjct: 135 NIAEPYFVFQTVTTDRFIGKLCDLQCGSGYPAVTDNDLLDQQILLPPISEQRKIAAILGT 194

Query: 177 ETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKP 236
               I+       R +    + K+ L+   +T+G    +   +     +G++P HW+  P
Sbjct: 195 LDSLIEE----TDRVVARTGQLKKGLIQEFLTEG----MGNVELEDTALGMIPKHWKCVP 246

Query: 237 FFA---LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL---KPESYETYQIVDPGE 290
           F            K+ K   S    +   NI                ++      +  G+
Sbjct: 247 FATLSLTYKNGIYKHDKYYGSGYPCIRMYNIADGTVNTINSPLLNVTDAELKEYELAEGD 306

Query: 291 IVFRFI---DLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY 347
           ++   +   DL      + +          +  + +    I   ++   ++S        
Sbjct: 307 LLINRVNSRDLVGKAGIVPAGLGHVTFESKNIRVRLNRSMILPEFMGLFIQSSMYRNQVN 366

Query: 348 AMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
                   + ++  +D+  + V +PP  EQ  I +VI    ++I   + +  + I L+  
Sbjct: 367 KFVKSAIAQSTINQDDLDNILVPLPPKDEQEKIASVIREINSKITWEI-RYRERIELV-- 423

Query: 406 RRSSFIAAAVTGQIDLRGES 425
            + + +   +TG+I ++ ++
Sbjct: 424 -KKALMQDLLTGRIRVKPDT 442


>gi|324115278|gb|EGC09242.1| type I restriction modification DNA specificity domain-containing
           protein [Escherichia fergusonii B253]
          Length = 449

 Score =  154 bits (389), Expect = 2e-35,   Method: Composition-based stats.
 Identities = 76/411 (18%), Positives = 161/411 (39%), Gaps = 19/411 (4%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQ 72
           G +P+ W    +     + TG+T  + +      +I +I   D++ G G  +       +
Sbjct: 4   GKLPEGWVECELSELGNIVTGKTPSTKEPSNFGGNIPFIKPGDLDLG-GYIMNTADTLTE 62

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
              S V       ++   +G  L K  I       + Q   L P + L  +   +   + 
Sbjct: 63  KGLSLVPTLPANSVVVTCIG-NLGKVGITVKKSASNQQINALIPSEKLN-VKFVYYQILT 120

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           +   +E+     T++  +       P   PPLAEQ +I EK+     ++++      +  
Sbjct: 121 LKPWLESQSAATTIAIVNKSKFSQAPFKFPPLAEQKIIAEKLDTLLAQVESTKARLEQIP 180

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL- 251
           ++LK  +QA+++  V   L  + + + S +  +       E+       +    K+    
Sbjct: 181 QILKRFRQAVLAIAVNGQLTKEWR-ELSELSAIWPSLTLGELVTIERGSSPRPIKDYITA 239

Query: 252 IESNILSLSYGNII---QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
            ES +  +  G+     + + +    + PE  +  + V PG+ +            +   
Sbjct: 240 SESGVNWIKIGDAREGEKYIHSTKEKITPEGAKKSRKVTPGDFILSNSMSLGRAYIV--- 296

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPV 367
             +E  +    ++   P  ID  Y  +L+ S  L + F  +   G+ Q+++ E VK+  V
Sbjct: 297 -DIEGYVHDGWFILRLPQHIDKNYFYYLLSSSQLQEQFSNLAVGGVVQNIRSELVKQAIV 355

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            +P  KEQ +I   +    A  D + +++  ++  +     S +A A  G+
Sbjct: 356 NIPSEKEQHEIVRRVEQLFAYADTIEKQVNNALARVNNLTQSILAKAFRGE 406



 Score = 70.6 bits (171), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 25/200 (12%), Positives = 58/200 (29%), Gaps = 8/200 (4%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDII--------YIGLEDVESGTGKYLPKDGNSRQSDTS 76
           W  + +     +  G +    KD I        +I + D   G                 
Sbjct: 213 WPSLTLGELVTIERGSSPRPIKDYITASESGVNWIKIGDAREGEKYIHSTKEKITPEGAK 272

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
                  G  +        R  I+     +    F++  P+ +        L S  + ++
Sbjct: 273 KSRKVTPGDFILSNSMSLGRAYIVDIEGYVHDGWFILRLPQHIDKNYFYYLLSSSQLQEQ 332

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
              +  G  + +   + +    + IP   EQ  I  ++       DT+  +    +  + 
Sbjct: 333 FSNLAVGGVVQNIRSELVKQAIVNIPSEKEQHEIVRRVEQLFAYADTIEKQVNNALARVN 392

Query: 197 EKKQALVSYIVTKGLNPDVK 216
              Q++++      L    +
Sbjct: 393 NLTQSILAKAFRGELTAQWR 412


>gi|14520513|ref|NP_125988.1| type I restriction-modification enzyme, S subunit [Pyrococcus
           abyssi GE5]
 gi|5457728|emb|CAB49219.1| hsdS type I restriction-modification enzyme, S subunit [Pyrococcus
           abyssi GE5]
          Length = 427

 Score =  154 bits (389), Expect = 2e-35,   Method: Composition-based stats.
 Identities = 69/415 (16%), Positives = 153/415 (36%), Gaps = 26/415 (6%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           IP+ W+VV +    ++   ++     ++  I +E V      +   +  + +   S+   
Sbjct: 26  IPEEWEVVELGEVARIRKKKSVRDIAEVAVIPMEKVPQDNELFAEFEIKAIEDVKSSTY- 84

Query: 81  FAKGQILYGKLGPYLR-------KAIIADFDGICSTQFLVLQPKDVLPELLQGWL-LSID 132
              G +L  K+ P             + +   + +T+   + P + L      ++     
Sbjct: 85  CEAGDLLLAKITPSFENGKQGIVPFNVPNGFALATTEVYPIVPSENLDVFFLFYILKDKR 144

Query: 133 VTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
             + +E    G T         +  + +P+PPL EQ  I E + +    I  +     R 
Sbjct: 145 FRKILEVRMTGTTGRQRVQKTDLLKLQIPLPPLEEQKKIAEILRSIDEAIQAVDESIARL 204

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
             L K   + L++  +       V++    +E    +P+ W+V     +    N      
Sbjct: 205 ERLKKGTMERLLTRGINHTRFKTVELNGRKVE----IPEEWDVVELGEVAERRNESVNPA 260

Query: 252 IESNILSLSYGNI-IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
              NI  +   +I    +     G   E   +     PG+I++  +    DK  +   + 
Sbjct: 261 NMGNIPFVGLEHIEPGNIRLSQWGNSSEVKSSKSKFYPGDILYGKLRPYLDKAVIADFE- 319

Query: 311 MERGIITSAYMAVKPHGI--DSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPV 367
              GI ++  + +K         YL W++ S +  +       G+      ++ +K+  +
Sbjct: 320 ---GICSTDIIVIKAKEDKTIPEYLIWVIHSKEFIEYAKKTMKGVNHPRTSWKSIKQFQI 376

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
            +PP++EQ  I  ++      ID  +E        L+  + + +   +TG++ +R
Sbjct: 377 PLPPLEEQKKIAEILRT----IDEAIEAKRAKKEKLERMKKAVMEKLLTGEVRVR 427



 Score = 87.9 bits (216), Expect = 3e-15,   Method: Composition-based stats.
 Identities = 57/192 (29%), Positives = 92/192 (47%), Gaps = 5/192 (2%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESG-KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
            IP+ W VV +    +      + +   +I ++GLE +E G  +       +     S+ 
Sbjct: 236 EIPEEWDVVELGEVAERRNESVNPANMGNIPFVGLEHIEPGNIRLSQ--WGNSSEVKSSK 293

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV--LPELLQGWLLSIDVTQR 136
           S F  G ILYGKL PYL KA+IADF+GICST  +V++ K+   +PE L   + S +  + 
Sbjct: 294 SKFYPGDILYGKLRPYLDKAVIADFEGICSTDIIVIKAKEDKTIPEYLIWVIHSKEFIEY 353

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
            +   +G       WK I    +P+PPL EQ  I E +      I+    ++ +   + K
Sbjct: 354 AKKTMKGVNHPRTSWKSIKQFQIPLPPLEEQKKIAEILRTIDEAIEAKRAKKEKLERMKK 413

Query: 197 EKKQALVSYIVT 208
              + L++  V 
Sbjct: 414 AVMEKLLTGEVR 425


>gi|23452704|gb|AAN33127.1| putative type I specificity subunit HsdS [Campylobacter jejuni]
          Length = 411

 Score =  154 bits (389), Expect = 2e-35,   Method: Composition-based stats.
 Identities = 60/412 (14%), Positives = 136/412 (33%), Gaps = 19/412 (4%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           +P+ W+V  +    ++ TG T         GKD  +    D E G         N  +  
Sbjct: 4   LPQGWEVKKLGEIGEIVTGSTPSKSNLDFYGKDYPFFKPSDFEQGYF-LENAGDNLSKLG 62

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
                      IL   +G   + A+             ++  K+++ E +  + +S    
Sbjct: 63  FDKARQLPPKTILVVCIGSLGKVALTRVIGSCNQQINAIIPHKNIISEYIYYYCISSKFQ 122

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRIDTLITERIRFIE 193
             + +     T++  +      + +  P  + EQ  I   +     +ID  I    + + 
Sbjct: 123 SILFSKAPQTTLAIFNKTEFSKLEIIYPKDIKEQERIVGILNESFAKIDESIKILEQDLL 182

Query: 194 LLKEKKQALVSYIVTKGLN--PDVKMKDSGIEW--VGLVPDHWEVKPFFALVTELNRKNT 249
            L E  Q+ +        +   +      G EW  +G + +  +     +   E+     
Sbjct: 183 NLDELMQSALQKAFNPLKDNAKENYKLPQGWEWKSLGEISNLIQNGFAASKNNEIPSGYV 242

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
            L   NI +    N    ++ +   +K    E    ++  +I+F   +            
Sbjct: 243 HLRTHNISTDGNLNFDTLIKIKREFIK----EKQSFIEKNDILFNNTNSTELVGKTALVT 298

Query: 310 VMERGIITSAY-MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG--LRQSLKFEDVKRLP 366
                  ++        +  +S  + +        K F  +      +  +  + +K++ 
Sbjct: 299 QNYNYAFSNHLTKIKLKNQYNSKLVVFYFVLLLKNKYFEKICHQWIGQSGINIDKLKKIQ 358

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           + +PP+KEQ  I   ++    +   L E   + +   +E + S +  A  G+
Sbjct: 359 IPLPPLKEQEQIAKHLDFVFEKTKALKELYTKELKDYEELKQSLLNKAFKGE 410



 Score = 67.5 bits (163), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 28/204 (13%), Positives = 70/204 (34%), Gaps = 12/204 (5%)

Query: 20  AIPKHWKVVPIKRFTK-LNTGRTSESGKDIIY----IGLEDVES-GTGKYLPKDGNSRQS 73
            +P+ W+   +   +  +  G  +    +I      +   ++ + G   +       R+ 
Sbjct: 208 KLPQGWEWKSLGEISNLIQNGFAASKNNEIPSGYVHLRTHNISTDGNLNFDTLIKIKREF 267

Query: 74  DTSTVSIFAKGQILYGKLGPY----LRKAIIADFDGICSTQFLVLQPKDVLPEL--LQGW 127
                S   K  IL+              +  +++   S     ++ K+       +  +
Sbjct: 268 IKEKQSFIEKNDILFNNTNSTELVGKTALVTQNYNYAFSNHLTKIKLKNQYNSKLVVFYF 327

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
           +L +      +   +    S  +   +  I +P+PPL EQ  I + +     +   L   
Sbjct: 328 VLLLKNKYFEKICHQWIGQSGINIDKLKKIQIPLPPLKEQEQIAKHLDFVFEKTKALKEL 387

Query: 188 RIRFIELLKEKKQALVSYIVTKGL 211
             + ++  +E KQ+L++      L
Sbjct: 388 YTKELKDYEELKQSLLNKAFKGEL 411


>gi|293374802|ref|ZP_06621106.1| type I restriction modification DNA specificity domain protein
           [Turicibacter sanguinis PC909]
 gi|292646560|gb|EFF64566.1| type I restriction modification DNA specificity domain protein
           [Turicibacter sanguinis PC909]
          Length = 397

 Score =  153 bits (387), Expect = 4e-35,   Method: Composition-based stats.
 Identities = 67/414 (16%), Positives = 163/414 (39%), Gaps = 36/414 (8%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
            +W+++ ++   +L+ GR  +  +     +  I ++++         +D N    +  + 
Sbjct: 2   SNWEIIKVQDIGQLHNGRAFKPNEWSNQGLPIIRIQNLNG------SQDFNYFDGNFESK 55

Query: 79  SIFAKGQILY---GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
                  +L+   G  G      I      + +     +  K+ + ++   ++L    +Q
Sbjct: 56  HEVNYEDLLFAWSGSRGTSFGPYIWKGDRSLLNQHIFKVDLKEGIDKVFIYYMLKRLTSQ 115

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
                   A + H   K +    + +PPL EQ  I E + +        I +  + I   
Sbjct: 116 IEYNAHGSAGLVHITKKELEKFELHLPPLKEQQKIAEILSSVDAA----IEKTEQVIAKT 171

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTEL-----NRKNTK 250
           +E K+ L+  ++TKG+    + K + I   G +P  WEVK    + + +     NRK ++
Sbjct: 172 EEVKKGLMQQLLTKGIG-HTEFKQTEI---GEIPVSWEVKKISQVASTMSGGTPNRKKSE 227

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPE---SYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
               +I  +  G +I K    +     E   +  + +++  G ++         K ++  
Sbjct: 228 YYNGDIPWVKTGELIHKYLNNSEEKITELGLNNSSAKLMPVGTVLIAMYGATVGKSTILG 287

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
                        +      +++ YL + ++ Y   K+        + ++  + +K L +
Sbjct: 288 ISASTNQACCG--IIPNKDYLNNEYLYYRLQ-YWKDKLISMATGAAQPNISQQLIKELLI 344

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            +P + EQ  I +++N++  +    +   + ++  LKE +   +   +TGQ+ +
Sbjct: 345 PLPNLSEQEKIVDILNIQDEK----IANEKANLDSLKEIKQGLMQRLLTGQVRV 394



 Score = 91.4 bits (225), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 34/210 (16%), Positives = 74/210 (35%), Gaps = 9/210 (4%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGK 62
           ++K +    IG IP  W+V  I +     +G T    K      DI ++   ++      
Sbjct: 191 EFKQTE---IGEIPVSWEVKKISQVASTMSGGTPNRKKSEYYNGDIPWVKTGELIHKYLN 247

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPE 122
              +       + S+  +   G +L    G  + K+ I       +     + P      
Sbjct: 248 NSEEKITELGLNNSSAKLMPVGTVLIAMYGATVGKSTILGISASTNQACCGIIPNKDYLN 307

Query: 123 LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
               +        ++ ++  GA   +   + I  + +P+P L+EQ  I + +  +  +I 
Sbjct: 308 NEYLYYRLQYWKDKLISMATGAAQPNISQQLIKELLIPLPNLSEQEKIVDILNIQDEKIA 367

Query: 183 TLITERIRFIELLKEKKQALVSYIVTKGLN 212
                     E+ +   Q L++  V   ++
Sbjct: 368 NEKANLDSLKEIKQGLMQRLLTGQVRVQID 397


>gi|57168615|ref|ZP_00367747.1| HsdS [Campylobacter coli RM2228]
 gi|57019896|gb|EAL56576.1| HsdS [Campylobacter coli RM2228]
          Length = 408

 Score =  153 bits (387), Expect = 4e-35,   Method: Composition-based stats.
 Identities = 62/412 (15%), Positives = 128/412 (31%), Gaps = 28/412 (6%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESG---KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           + WK   +     +  G           I ++ ++++  G          S +     + 
Sbjct: 6   QGWKWKSLGEICFITDGTHKTPNYIETGIPFLSVKNISKGFFDLSDVKYISLEEHNKLIK 65

Query: 80  IFAKG--QILYGKLGPYLRKAII---ADFDGICSTQFLVLQPKDVLPELLQGWL-LSIDV 133
                   IL  ++G   +   I    +F    S   L  + K +   L+       I+ 
Sbjct: 66  RAKPEFEDILICRIGTLGKAIKISLEFEFSIFVSLGLLKPKVKIISDYLVYFLNSCFIEE 125

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
                 +  G   +  +   +   P+ +PPL EQ  I   +     +ID  I    + + 
Sbjct: 126 WINDNKVGGGTHTAKLNLNILEKCPIALPPLKEQERIVGILDENFAKIDENIKILEQDLL 185

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
            L E  Q+ +        +          +    +P  WE K    +   +         
Sbjct: 186 NLDELMQSALQKAFNPLKD--------NAKENYKLPQGWEWKSLGEIGEIITGTTPSKNN 237

Query: 254 SNILSLSYGNIIQKLETRNMGLKPES-------YETYQIVDPGEIVFRFIDLQNDKRSLR 306
            N     Y          ++ +K  S       ++  + +    I+   I     K  L 
Sbjct: 238 PNFYGNEYPLFKPSDLNGDIIIKYASDNLSKLGFDNARNLPKDTILVVCIGASIGKVGLS 297

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRL 365
                    I +           S YL ++  S     +     S      +   +  +L
Sbjct: 298 GVNGSCNQQINAII---PNSAFTSKYLFFVCLSNYFQTILKKNASQTTLPIINKTEFSKL 354

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
            + +PP+KEQ  I + ++  ++ +  L +  +  I  L+E ++S +  A  G
Sbjct: 355 QIPLPPLKEQEQIASHLDELSSHVKNLKQNYQAQIKNLQELKNSLLDKAFKG 406



 Score = 84.8 bits (208), Expect = 3e-14,   Method: Composition-based stats.
 Identities = 33/199 (16%), Positives = 66/199 (33%), Gaps = 8/199 (4%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESG------KDIIYIGLEDVESGTGKYLPKDGNSRQS 73
            +P+ W+   +    ++ TG T           +       D+ +G         N  + 
Sbjct: 211 KLPQGWEWKSLGEIGEIITGTTPSKNNPNFYGNEYPLFKPSDL-NGDIIIKYASDNLSKL 269

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL-SID 132
                    K  IL   +G  + K  ++  +G C+ Q   + P          ++  S  
Sbjct: 270 GFDNARNLPKDTILVVCIGASIGKVGLSGVNGSCNQQINAIIPNSAFTSKYLFFVCLSNY 329

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
               ++      T+   +      + +P+PPL EQ  I   +   +  +  L       I
Sbjct: 330 FQTILKKNASQTTLPIINKTEFSKLQIPLPPLKEQEQIASHLDELSSHVKNLKQNYQAQI 389

Query: 193 ELLKEKKQALVSYIVTKGL 211
           + L+E K +L+       L
Sbjct: 390 KNLQELKNSLLDKAFKGNL 408


>gi|295135948|ref|YP_003586624.1| type I restriction-modification system specificity determinant
           [Zunongwangia profunda SM-A87]
 gi|294983963|gb|ADF54428.1| type I restriction-modification system specificity determinant
           [Zunongwangia profunda SM-A87]
          Length = 350

 Score =  153 bits (386), Expect = 5e-35,   Method: Composition-based stats.
 Identities = 83/348 (23%), Positives = 148/348 (42%), Gaps = 8/348 (2%)

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
             G  +          + +++ DG  S   +V++P D+       +L S    +    I 
Sbjct: 2   KAGDFVINSRSDRKGSSGVSESDGSVSLINIVMEPNDIFGSFCNYFLKSKAFVEENYRIG 61

Query: 142 EGAT--MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
            G    +    +  + NI M  PP  EQ  I   +     ++DT++ ++ + I LLKE+K
Sbjct: 62  HGIVADLWTTRYDEMKNIIMAFPPKPEQQAIANFLDETCEKLDTVVAQKEKMIALLKERK 121

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNT----KLIESN 255
           QAL+   VT+GLN +V MKDSG++W+G +P +WEVK    +             K  E N
Sbjct: 122 QALIQNAVTRGLNKNVPMKDSGVDWIGEIPKNWEVKRLKFICVLNKESLPENLNKKQEIN 181

Query: 256 ILSLSYGNIIQKLETRNMGLK-PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
            + +        + +    L         ++   G+ +   +               +  
Sbjct: 182 YVDIGSVTFEDGILSTEYYLFQNAPSRARKVAKNGDTIVSTVRTYLKAIDFIDENKSKYV 241

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIK 373
             T   +      I + YL   +R+    +       G+   ++   D+ R+ V VP  +
Sbjct: 242 YSTGFAILSPNKNILNKYLYNQVRADAFTEQVSYNSKGMSYPAINSTDLGRIWVCVPSKQ 301

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           EQ  I N I+ ++ ++D  V + EQ+IV LKE ++S I + V G+I +
Sbjct: 302 EQEKIVNYIDAQSRKLDQAVTQQEQAIVKLKEYKASLIDSCVLGKIKV 349



 Score =  100 bits (249), Expect = 4e-19,   Method: Composition-based stats.
 Identities = 50/205 (24%), Positives = 91/205 (44%), Gaps = 7/205 (3%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSE---SGKDIIYIGLEDVESGTGKYLPK 66
            KDSGV WIG IPK+W+V  +K    LN     E     ++I Y+ +  V    G    +
Sbjct: 139 MKDSGVDWIGEIPKNWEVKRLKFICVLNKESLPENLNKKQEINYVDIGSVTFEDGILSTE 198

Query: 67  DGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFD---GICSTQFLVLQPKDVL-PE 122
               + + +    +   G  +   +  YL+     D +    + ST F +L P   +  +
Sbjct: 199 YYLFQNAPSRARKVAKNGDTIVSTVRTYLKAIDFIDENKSKYVYSTGFAILSPNKNILNK 258

Query: 123 LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
            L   + +   T+++    +G +    +   +G I + +P   EQ  I   I A++ ++D
Sbjct: 259 YLYNQVRADAFTEQVSYNSKGMSYPAINSTDLGRIWVCVPSKQEQEKIVNYIDAQSRKLD 318

Query: 183 TLITERIRFIELLKEKKQALVSYIV 207
             +T++ + I  LKE K +L+   V
Sbjct: 319 QAVTQQEQAIVKLKEYKASLIDSCV 343


>gi|23452748|gb|AAN33144.1| putative type I specificity subunit HsdS [Campylobacter jejuni]
          Length = 378

 Score =  153 bits (386), Expect = 6e-35,   Method: Composition-based stats.
 Identities = 62/395 (15%), Positives = 126/395 (31%), Gaps = 25/395 (6%)

Query: 31  KRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
               ++++G T    K        I ++ ++D++        +         S+  +F K
Sbjct: 1   GDIAEISSGGTPSRNKKEYWENGIIPWVKIKDIKENFISTTEEFITEDGLKNSSAKLFKK 60

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
           G +LY  +   L +  I D D   +     +  K+     L        +  +I +   G
Sbjct: 61  GTLLYS-IFATLGEVAILDIDATTNQAIAGINIKENNINSLYLMYFLKSIKDKICSKGRG 119

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
              ++ +   +  I +P+PPL EQ  I   +     +ID  I    + +  L E  Q+ +
Sbjct: 120 VAQNNLNLTILKQIQIPLPPLKEQERIVGILDESFAKIDESIKILEQNLLNLDELMQSAL 179

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
                   +          +    +P  WE K    +   ++    K         +   
Sbjct: 180 QKAFNPLKD--------NAKENYKLPQSWEWKSLEEISENISAGGDKPKNCTESKTAKNQ 231

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
           I       N        +   I+ P       I  +     +   +     I+   Y+  
Sbjct: 232 IPVYANGVNNNGLVGYTDKATIIKPSL----TISARGTIGFVCIRKEPYFPIVRLIYLIP 287

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
             + +   YL + +                   L     K L + +PP+KEQ  I   ++
Sbjct: 288 CENILCLHYLYFCLN-----FFIAKGEGSSIPQLTIPKFKSLQIPLPPLKEQEQIAEHLD 342

Query: 384 VETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
               +   L E   + +   +E + S +  A  G+
Sbjct: 343 FVFEKAKALKELYTKELKDYEELKQSLLDKAFKGE 377



 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 27/193 (13%), Positives = 65/193 (33%), Gaps = 10/193 (5%)

Query: 20  AIPKHWKVVPIKRFTK-LNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
            +P+ W+   ++  ++ ++ G              +  ++    Y     N+     +  
Sbjct: 195 KLPQSWEWKSLEEISENISAGGDKPKN----CTESKTAKNQIPVYANGVNNNGLVGYTDK 250

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           +   K  +     G      I  +       + + L P + +  L   +        + E
Sbjct: 251 ATIIKPSLTISARGTIGFVCIRKEPYFPI-VRLIYLIPCENILCLHYLYFCLNFFIAKGE 309

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
               G+++         ++ +P+PPL EQ  I E +     +   L     + ++  +E 
Sbjct: 310 ----GSSIPQLTIPKFKSLQIPLPPLKEQEQIAEHLDFVFEKAKALKELYTKELKDYEEL 365

Query: 199 KQALVSYIVTKGL 211
           KQ+L+       L
Sbjct: 366 KQSLLDKAFKGEL 378


>gi|33240157|ref|NP_875099.1| restriction endonuclease S subunit [Prochlorococcus marinus subsp.
           marinus str. CCMP1375]
 gi|33237684|gb|AAP99751.1| Restriction endonuclease S subunit [Prochlorococcus marinus subsp.
           marinus str. CCMP1375]
          Length = 425

 Score =  153 bits (385), Expect = 6e-35,   Method: Composition-based stats.
 Identities = 87/403 (21%), Positives = 160/403 (39%), Gaps = 11/403 (2%)

Query: 28  VPIKRFTKLN-TGRTSESGK-------DIIYIGLEDVESGTGKYLPKDGNSRQSDTS-TV 78
             I    K+  +G T +          +I +I   D+  G  +           D + ++
Sbjct: 24  KKISHLCKIIGSGTTPDKNDARNFTKGNIPWILSGDLNDGIIEKPNSYVTQYALDNNPSL 83

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
            I+ +  I+    G  + +  I  F    +    VL P +   EL   +   I +   + 
Sbjct: 84  KIYPRNSIIIAMYGATIGRVSIPKFSFTVNQACCVLSPFNK-CELKYLFYCLIGLRHVLF 142

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
           ++  G    + + + I ++ + +P   EQ  I + +  E ++I+  I  +   I LL EK
Sbjct: 143 SMAIGGAQPNINQELIKSLKILLPSNYEQKKIYKFLDQEIIKINLAIQNQYNLITLLDEK 202

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
           KQALV   +TKGL+ +V MK+S +  +G +P+HW+ K    L      KN++ +     S
Sbjct: 203 KQALVLDAITKGLDKEVSMKNSKLFLLGKIPNHWQSKKLSQLFKTSKGKNSQKLTKEYCS 262

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
            + G+               +Y      D GE           K            +  +
Sbjct: 263 KNEGDYPVYSGQTQSDGI-MAYINTFEFDAGEKGVILTTTVGAKAMSVKLIKGRFNLSQN 321

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
             +         T       S         +   ++ S + ED +++ + +PPIKEQ  I
Sbjct: 322 CMVISAKDNSCHTAYFEYCFSSIFKIEKNKIPIHMQPSFRKEDFQKIRIPIPPIKEQIQI 381

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           +N ++ E  +I  + E  +  I  L ++R + I+ A + QIDL
Sbjct: 382 SNFLHKEVEKIKQMNESSKLLISKLIDKRFALISFATSNQIDL 424



 Score = 70.2 bits (170), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 39/210 (18%), Positives = 72/210 (34%), Gaps = 12/210 (5%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDG 68
             K+S +  +G IP HW+   + +  K + G+ S+       +  E      G Y    G
Sbjct: 220 SMKNSKLFLLGKIPNHWQSKKLSQLFKTSKGKNSQK------LTKEYCSKNEGDYPVYSG 273

Query: 69  NSRQSDTSTVSIF------AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPE 122
            ++                 KG IL   +G       +       S   +V+  KD    
Sbjct: 274 QTQSDGIMAYINTFEFDAGEKGVILTTTVGAKAMSVKLIKGRFNLSQNCMVISAKDNSCH 333

Query: 123 LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
                     + +  +             +    I +PIPP+ EQ+ I   +  E  +I 
Sbjct: 334 TAYFEYCFSSIFKIEKNKIPIHMQPSFRKEDFQKIRIPIPPIKEQIQISNFLHKEVEKIK 393

Query: 183 TLITERIRFIELLKEKKQALVSYIVTKGLN 212
            +       I  L +K+ AL+S+  +  ++
Sbjct: 394 QMNESSKLLISKLIDKRFALISFATSNQID 423


>gi|295402727|ref|ZP_06812668.1| restriction modification system DNA specificity domain protein
           [Geobacillus thermoglucosidasius C56-YS93]
 gi|294975226|gb|EFG50863.1| restriction modification system DNA specificity domain protein
           [Geobacillus thermoglucosidasius C56-YS93]
          Length = 472

 Score =  152 bits (384), Expect = 1e-34,   Method: Composition-based stats.
 Identities = 96/433 (22%), Positives = 176/433 (40%), Gaps = 30/433 (6%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD---IIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            IP +W    +      +        ++   ++Y+G+EDVE+ TG     +  S     S
Sbjct: 22  EIPPNWIWTRLDNVCYEDRQTVKPDSEEAKRLLYLGMEDVEANTGII---NKISEDVGKS 78

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQG-WLLSIDVTQ 135
               F    ILYGKL PYL K  + DF+G C+T+F+ L+P+  +       +L +  V  
Sbjct: 79  NTYKFDSTHILYGKLRPYLNKVALPDFEGRCTTEFIPLKPEGGISREYLALFLRTQKVID 138

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            + A  +G+ M  AD K + +I  P+PP++EQ  I +K+ +    ID +  E  +  ELL
Sbjct: 139 TVMAKSKGSRMPRADMKVLMSIEFPLPPVSEQRRIIKKVKSYFKIIDKIEKELAKAKELL 198

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVG-------------LVPDHWEVKPFFALVT 242
           K++ ++L+       L    +   S  + +               +P++W          
Sbjct: 199 KKRHESLLQKAFRGELVKREENDKSTFDLLNIKVSSSTDENDPYDIPENWVWLELGDCGV 258

Query: 243 ELNR-----KNTKLIESNILSLSYGNIIQKLETRNMGLKPE---SYETYQIVDPGEIVFR 294
                    K       NIL +S  ++ +           E      + +++    ++F 
Sbjct: 259 ITGGGTPSKKVPSFWNGNILWVSPKDMKRDKINDTEDKITELAIEKSSAKLIPKNSVLFV 318

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGL 353
                       +   +E  +            I+ +YL +  + ++   +  A      
Sbjct: 319 VRSGILRHSLPVAINDVELTVNQDIKAITPHEFINVSYLFYAFKCFEKSWLQEASKIGAT 378

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            +SL  E VK+L V VPP+ EQ  I   +  E  +   +V+ IE++   L++ R S +  
Sbjct: 379 VESLDMEKVKKLKVPVPPLSEQLKIIERLEKEFEKEQAIVQSIERAEEKLQKMRQSLLQK 438

Query: 414 AVTGQ-IDLRGES 425
           A  G+ ++ R E 
Sbjct: 439 AFRGELVEQRPEE 451


>gi|168232879|ref|ZP_02657937.1| type I restriction enzyme EcoKI specificity protein [Salmonella
           enterica subsp. enterica serovar Kentucky str. CDC 191]
 gi|194472515|ref|ZP_03078499.1| type I restriction enzyme EcoKI specificity protein [Salmonella
           enterica subsp. enterica serovar Kentucky str. CVM29188]
 gi|194458879|gb|EDX47718.1| type I restriction enzyme EcoKI specificity protein [Salmonella
           enterica subsp. enterica serovar Kentucky str. CVM29188]
 gi|205332898|gb|EDZ19662.1| type I restriction enzyme EcoKI specificity protein [Salmonella
           enterica subsp. enterica serovar Kentucky str. CDC 191]
          Length = 486

 Score =  152 bits (383), Expect = 1e-34,   Method: Composition-based stats.
 Identities = 90/443 (20%), Positives = 170/443 (38%), Gaps = 46/443 (10%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSES-----GKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
           G +P+ W    +        G+ ++        D   + LED+E  + K L     S + 
Sbjct: 4   GKLPEGWVDTQLGNIVDY--GKATKRVLSDVNDDTWVLELEDIEKESSKLLSTIRASERP 61

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKD-VLPELLQGWLLSID 132
             ST + F +G +LYGKL PYL K IIA  DG+C+T+ + L  +     + +  WL S  
Sbjct: 62  FKSTKNSFKRGDVLYGKLRPYLNKIIIAKEDGVCTTEIIPLCAEPSCCNKYIFYWLKSST 121

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
               +  +  G  M           P+ + PLAEQ +I EK+     +ID+      +  
Sbjct: 122 FQGYVNDVSYGVNMPRLGTADGLKAPLRLAPLAEQKIIAEKLDTLLAQIDSTKARLEQIP 181

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKM----------------------------KDSGIEW 224
           ++LK  +QA+++  V+  L  + +M                              S ++ 
Sbjct: 182 QILKRFRQAVLAAAVSGNLTAEWRMNNNSNIVEEEIEKVKNKLIAKKIIKKDLIYSKLDR 241

Query: 225 VGLVPDHWEVKPFFAL---VTELNRKNTKLIESNILSLSYGNIIQKLE-----TRNMGLK 276
              +P  W      ++   +T+   K  K   +  L +S  NI                +
Sbjct: 242 KYPIPSDWLYVKLQSIATKITDGEHKTPKREPAGQLLISARNIQDGYLKLSDVDYVGDAE 301

Query: 277 PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWL 336
            +        D G+++         +  L         + + A + +    + + Y+ +L
Sbjct: 302 FQKLRNRCDPDSGDVLISCSGSIG-RVCLVDENSKYVMVRSVALIKLMQDFVINKYMMYL 360

Query: 337 MRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
           ++S  L K       S  + +L    +K L + +PP+ EQ +I   +    A  D + ++
Sbjct: 361 LQSPLLQKEIEENSKSTAQANLFLGPIKNLGIPLPPVPEQAEIVRRVEQLFAYADTIEKQ 420

Query: 396 IEQSIVLLKERRSSFIAAAVTGQ 418
           +  ++  +     S +A A  G+
Sbjct: 421 VNSALTRVNSLTQSILAKAFRGE 443


>gi|307720726|ref|YP_003891866.1| restriction modification system DNA specificity domain-containing
           protein [Sulfurimonas autotrophica DSM 16294]
 gi|306978819|gb|ADN08854.1| restriction modification system DNA specificity domain protein
           [Sulfurimonas autotrophica DSM 16294]
          Length = 409

 Score =  152 bits (383), Expect = 1e-34,   Method: Composition-based stats.
 Identities = 52/418 (12%), Positives = 140/418 (33%), Gaps = 30/418 (7%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVESGTGKYLPKDGNS 70
           +  +P  W+   ++  T+L T  T+ +        + I ++ +E++ SG       +   
Sbjct: 4   LYELPDGWEWKKLEEITELITKGTTPTTNGYKFLNEGINFLKIENIVSGEIDLSTIEMFI 63

Query: 71  RQSDTSTVSI--FAKGQILYGKLGPYLRKAIIADFD--GICSTQFLVLQPKDVLPELLQG 126
            +            +  +L+   G     AI+         +    +++PK+ L      
Sbjct: 64  SKEAHQAQRRSQLKENDVLFSIAGTIGDTAIVKKEHLPMNINQAIALIRPKESLNSKFLK 123

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           + L   V+Q  +    G  + +     + N   P+PPL EQ  I  K+ +   +ID ++ 
Sbjct: 124 YSLLSIVSQNTKDKQRGGAIKNISLGDMKNTNYPLPPLQEQKRIVGKLDSLFEKIDRVVA 183

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
              + ++       ++++ +  K  N  +         +G                    
Sbjct: 184 LHQKNMDEADAFMGSVLNDVFGKFSNKKIVALKGITSKIG-------------SGATPRG 230

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI----VDPGEIVFRFIDLQNDK 302
                    I  +   NI             +  +  ++    ++  +++         +
Sbjct: 231 GQKSYKTEGISFIRSMNIYDTGFREKGLAFIDDEQAQKLNNVTIEENDVLINITGASVAR 290

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV--FYAMGSGLRQSLKFE 360
             +   + +   +     +      I  ++L + + S  +     F + G   R+++   
Sbjct: 291 CCIVDKKYLPARVNQHVSILRLKDRIIPSFLHYYLISPFIKSELLFNSSGGATREAITKT 350

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            ++   V +  +  Q      ++  +  +  + E  ++ +  LK  ++S +  A  G+
Sbjct: 351 MLEEFQVPLISLSLQQKTVTYLDKISLYLKRIKEVQKEKMENLKALKASILDEAFRGK 408



 Score = 81.0 bits (198), Expect = 4e-13,   Method: Composition-based stats.
 Identities = 32/206 (15%), Positives = 73/206 (35%), Gaps = 13/206 (6%)

Query: 224 WVGLVPDHWEVKPFFALVTELNRKNTK------LIESNILSLSYGNIIQKLETRNMGLKP 277
            +  +PD WE K    +   + +  T        +   I  L   NI+      +     
Sbjct: 3   ELYELPDGWEWKKLEEITELITKGTTPTTNGYKFLNEGINFLKIENIVSGEIDLSTIEMF 62

Query: 278 ESYETYQI-----VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
            S E +Q      +   +++F       D  ++   + +   I  +  +      ++S +
Sbjct: 63  ISKEAHQAQRRSQLKENDVLFSIAGTIGD-TAIVKKEHLPMNINQAIALIRPKESLNSKF 121

Query: 333 LAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
           L + + S            G  +++   D+K     +PP++EQ  I   ++    +ID +
Sbjct: 122 LKYSLLSIVSQNTKDKQRGGAIKNISLGDMKNTNYPLPPLQEQKRIVGKLDSLFEKIDRV 181

Query: 393 VEKIEQSIVLLKERRSSFIAAAVTGQ 418
           V   ++++        S +     G+
Sbjct: 182 VALHQKNMDEADAFMGSVLNDVF-GK 206


>gi|148926926|ref|ZP_01810603.1| putative type I restriction enzyme specificity S protein
           [Campylobacter jejuni subsp. jejuni CG8486]
 gi|145845010|gb|EDK22107.1| putative type I restriction enzyme specificity S protein
           [Campylobacter jejuni subsp. jejuni CG8486]
          Length = 375

 Score =  151 bits (382), Expect = 1e-34,   Method: Composition-based stats.
 Identities = 84/385 (21%), Positives = 158/385 (41%), Gaps = 28/385 (7%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK-----DIIYIGLED 55
           MK++      K+SG++W+G IP+HW+VV I +      G   E+       +I  I + D
Sbjct: 1   MKNF------KESGIEWLGEIPEHWEVVKINKIVTFVNGYAFENFDFNPIFEIPVIRIGD 54

Query: 56  VESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD--FDGICSTQFLV 113
           ++     Y      +++ +     + +   IL    G    K    D       + +  +
Sbjct: 55  MQKEKILY-DNCLKTKEKEKLKQFLISNNDILIALSGATTGKIAFCDTDNKAYINQRVAI 113

Query: 114 LQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
           ++ K  L   ++ + L+   +  IE  C G+   +   K IG   +P+PPL EQ  I   
Sbjct: 114 VRSKLKL---VKYYFLTRGFSLLIELACNGSAQPNISTKEIGEFKIPLPPLKEQEQIANF 170

Query: 174 IIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWE 233
           +  +  +I   I ++ + I LLKE+KQAL++  +TKGL+ ++  KDSGIEW+G +P HW 
Sbjct: 171 LDEKCKKIANFIEKKEKLITLLKEQKQALINETITKGLDKNINFKDSGIEWLGEIPQHWR 230

Query: 234 VKPFFALVTELNR------KNTKLIESNILSLSYGNIIQKLETR--NMGLKPESYETYQI 285
           +     +               +  +     L   NI          + +K +     QI
Sbjct: 231 IVKLKYVAFTNIGLVYTPDDIIENPDEGYPVLRANNIQNGKIDYQDLIYIKSKQIGKKQI 290

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV 345
           +  G+++    +   +   L     ++ G  +            + Y  W+ ++  L K 
Sbjct: 291 ISSGDLLMCVRNGSENL--LGKTAKIQDGYFSFGAFTAIIKSQFNDYFYWIFQTNMLRKS 348

Query: 346 FYA-MGSGLRQSLKFEDVKRLPVLV 369
             +   S     +  +D+K   +  
Sbjct: 349 IASFSASNGIGQISQDDIKNFIISF 373



 Score =  111 bits (278), Expect = 2e-22,   Method: Composition-based stats.
 Identities = 42/209 (20%), Positives = 86/209 (41%), Gaps = 10/209 (4%)

Query: 214 DVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN----ILSLSYGNIIQKLE 269
               K+SGIEW+G +P+HWEV     +VT +N    +  + N    I  +  G++ ++  
Sbjct: 1   MKNFKESGIEWLGEIPEHWEVVKINKIVTFVNGYAFENFDFNPIFEIPVIRIGDMQKEKI 60

Query: 270 TRNM--GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
             +     K +      ++   +I+         K +        +  I      V+   
Sbjct: 61  LYDNCLKTKEKEKLKQFLISNNDILIALSGATTGKIAFC--DTDNKAYINQRVAIVRSKL 118

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
                  + +       +  A     + ++  +++    + +PP+KEQ  I N ++ +  
Sbjct: 119 KLVK--YYFLTRGFSLLIELACNGSAQPNISTKEIGEFKIPLPPLKEQEQIANFLDEKCK 176

Query: 388 RIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           +I   +EK E+ I LLKE++ + I   +T
Sbjct: 177 KIANFIEKKEKLITLLKEQKQALINETIT 205


>gi|262196003|ref|YP_003267212.1| restriction modification system DNA specificity domain protein
           [Haliangium ochraceum DSM 14365]
 gi|262079350|gb|ACY15319.1| restriction modification system DNA specificity domain protein
           [Haliangium ochraceum DSM 14365]
          Length = 423

 Score =  151 bits (382), Expect = 1e-34,   Method: Composition-based stats.
 Identities = 90/425 (21%), Positives = 181/425 (42%), Gaps = 28/425 (6%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDI---IYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            +P  W+ V +     L +G+             +    +ES TG+ L  +    Q+  S
Sbjct: 6   QVPTRWRRVRLLDHVDLPSGQVDPRDPQYRSQPLVAPNHIESQTGRLLALESAESQNAIS 65

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL-PELLQGWLLSIDVTQ 135
               F+ G ++Y K+ PYLRKAI+A FDG+CS     L+ K  + P  L   LL  + + 
Sbjct: 66  GKYTFSAGDVVYSKIRPYLRKAILASFDGLCSADMYPLRAKTSVEPGFLLALLLGEEFSS 125

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
             E++     +   + K +G+    +PPL EQ  I   +      +D  I      IE +
Sbjct: 126 FAESVSMRTGIPKLNRKELGSYHARLPPLGEQRKIAAIL----GAVDEAIARTQAVIEQV 181

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
           +  K+ L+  ++T+GL P    +    E +G +P+ W       ++  ++   +    ++
Sbjct: 182 QVVKKGLMQDLLTRGL-PGRHTRFKQTE-IGQIPESWSAVRLGDVLDGIDAGWSPKCANH 239

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQ---------IVDPGEIVFRFIDLQNDKRSLR 306
                   +++     +   KPE  +             V PG+++        D   + 
Sbjct: 240 PAGNGEWGVLKVSSVSSGIYKPEENKMLPDDLIPKPELEVRPGDVIIARASGVLDLVGVC 299

Query: 307 --SAQVMERGIITSAYMAVKPHGI--DSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFED 361
               +   R +++   + V+P+    DS YLA  ++S  +  +     +G   +++  + 
Sbjct: 300 SFVYKTRPRLMLSDKTLRVRPNRTLLDSFYLALTLQSPVVRSLVLEKATGSHMRNISQKA 359

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           +  + V +P + EQ  +++ I    ARID       +S+  L E +S+ ++  +TG++ +
Sbjct: 360 IGSVTVALPSLDEQVKVSSGIMAMDARIDN----DTRSVESLTELKSALMSVLLTGEVRV 415

Query: 422 RGESQ 426
             + +
Sbjct: 416 TPDEE 420



 Score = 50.2 bits (118), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 43/216 (19%), Positives = 76/216 (35%), Gaps = 22/216 (10%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTK-LNTGRTSE------SGKDIIYIGLEDVESGTGK 62
           +K +    IG IP+ W  V +      ++ G + +         +   + +  V SG   
Sbjct: 204 FKQTE---IGQIPESWSAVRLGDVLDGIDAGWSPKCANHPAGNGEWGVLKVSSVSSGI-- 258

Query: 63  YLPKDGNSRQSDTSTV--SIFAKGQILYGKLGPYLRKAIIADFDG------ICSTQFLVL 114
           Y P++      D           G ++  +    L    +  F        + S + L +
Sbjct: 259 YKPEENKMLPDDLIPKPELEVRPGDVIIARASGVLDLVGVCSFVYKTRPRLMLSDKTLRV 318

Query: 115 QPKDVLPELLQ--GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIRE 172
           +P   L +       L S  V   +     G+ M +   K IG++ + +P L EQV +  
Sbjct: 319 RPNRTLLDSFYLALTLQSPVVRSLVLEKATGSHMRNISQKAIGSVTVALPSLDEQVKVSS 378

Query: 173 KIIAETVRIDTLITERIRFIELLKEKKQALVSYIVT 208
            I+A   RID          EL       L++  V 
Sbjct: 379 GIMAMDARIDNDTRSVESLTELKSALMSVLLTGEVR 414


>gi|2129238|pir||B64316 restriction modification system S chain homolog - Methanococcus
           jannaschii
          Length = 425

 Score =  151 bits (382), Expect = 1e-34,   Method: Composition-based stats.
 Identities = 74/440 (16%), Positives = 146/440 (33%), Gaps = 46/440 (10%)

Query: 8   PQYKDSGVQWIGAIPKHWKVVPIKRFTK-LNTGRTSE-------SGKDIIYIGLEDVESG 59
             +K +    IG IP+ W++V +K   K +  G T +           I ++ +ED+ + 
Sbjct: 6   ENFKKTE---IGEIPEDWEIVELKDVCKKIKAGGTPKTSVEEYYKNGTIPFVKIEDITNS 62

Query: 60  TGKYLPKDGNSRQS--DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPK 117
                       +   + S   I  K  +L+   G     A I   +   +   L + PK
Sbjct: 63  NKYLTNTKIKITEEGLNNSNAWIVPKNSVLFAMYGSIGETA-INKIEVATNQAILGIIPK 121

Query: 118 DVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
           D + E    + +          +    T  + + + + +  +P+PPL EQ  I + +   
Sbjct: 122 DNILESEFLYYILAKNKNYYSKLGMQTTQKNLNAQIVKSFKIPLPPLEEQKQIAKIL--- 178

Query: 178 TVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPF 237
             +ID  I    + I  L+  K+ L+  ++TKG+      K      +G +P+ WEV   
Sbjct: 179 -TKIDEGIEIIEKSINKLERIKKGLMHKLLTKGIGHSRFKKS----EIGEIPEDWEVFEI 233

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQ-------------KLETRNMGLKPESYETYQ 284
             +            +S        N I                  R +           
Sbjct: 234 KDIFEVKTGTTPSTKKSEYWENGEINWITPLDLSRLNEKIYIGSSERKVTKIALEKCNLN 293

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCK 344
           ++  G I+            L                 + P   DS    +        K
Sbjct: 294 LIPKGSIIISTRAPVGYVAVLTV-----ESTFNQGCKGLVPKNNDSVNTEFYAYYLKFKK 348

Query: 345 VF--YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
                  G    + L    ++   + +PP++EQ  I  +++      D  +E  +Q    
Sbjct: 349 NLLENLSGGSTFKELSKSMLENFKIPLPPLEEQKQIAKILSSV----DKSIELKKQKKEK 404

Query: 403 LKERRSSFIAAAVTGQIDLR 422
           L+  +   +   +TG++ ++
Sbjct: 405 LQRMKKKIMELLLTGKVRVK 424


>gi|303244598|ref|ZP_07330931.1| restriction modification system DNA specificity domain protein
           [Methanothermococcus okinawensis IH1]
 gi|302485024|gb|EFL47955.1| restriction modification system DNA specificity domain protein
           [Methanothermococcus okinawensis IH1]
          Length = 421

 Score =  151 bits (382), Expect = 2e-34,   Method: Composition-based stats.
 Identities = 74/423 (17%), Positives = 149/423 (35%), Gaps = 27/423 (6%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYL---PKDGNSR 71
           +P  W+V  +     +  G T  + K      DI +I  +D+ +   KY+    ++ +  
Sbjct: 6   LPDGWEVRKLGEVANVIGGGTPSTKKSEYWNGDIPWITPKDLSNYIFKYICKGERNISRE 65

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
               S+  +   G IL     P      IA  +   +  F      +        +    
Sbjct: 66  GLKNSSAKLLPPGTILLSSRAPI-GYVAIAKNELTTNQGFRSFITNEDKLNYEFLYYWLK 124

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
              + +E++  G+T        I N+ + +PPL EQ  I E + +   +I+  I      
Sbjct: 125 TKKKVLESLAGGSTFKEISGTTIKNLEILLPPLKEQQKIAEILSSLDDKIELNIKMNKTL 184

Query: 192 IELLKEKKQALVSYIVTKGLNPD---VKMKDSGIE----WVGLVPDHWEVKPFFALVTEL 244
                E  + +          P+      K SG E     +G +P  W +KP   ++  +
Sbjct: 185 E----EMAKTIFKRWFIDFEFPNEEGKPYKSSGGEFINSELGEIPKGWSIKPIKNILNFI 240

Query: 245 NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
                         +   N I+ +  R++    E     + +   +I+     + +   S
Sbjct: 241 RGIEPG--SKYYTLIKKENHIRFIRIRDLNSNSEKVYIPKEMAKNKILNSEDIIISLDGS 298

Query: 305 LRSAQVMERGIITSAYMAVKPHGID---STYLAWLMRSYDLCKVFYAMGSGLRQSLKFED 361
           L   +    G  +S    V P       + Y+  L++S ++        SG       + 
Sbjct: 299 LGVVKFGYNGAYSSGIRKVCPISEYDIPNMYIYCLLKSDNIQNTIKNYASGTTILHAGKS 358

Query: 362 VKRLPVLVPP-IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQID 420
           V+ + + +P  I E   I  +    T  I   +   ++ I  L + R + +   +TG+I 
Sbjct: 359 VEHMKITLPKKIDEMKRILKLFGDLTKPIFNQILNNQKEIQTLTKIRDTLLPKLITGKIR 418

Query: 421 LRG 423
           ++ 
Sbjct: 419 VKP 421



 Score = 63.3 bits (152), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 39/217 (17%), Positives = 71/217 (32%), Gaps = 23/217 (10%)

Query: 10  YKDSGVQW----IGAIPKHWKVVPIKRFTKLNTGRTS--------ESGKDIIYIGLEDVE 57
           YK SG ++    +G IPK W + PIK       G           +    I +I + D+ 
Sbjct: 209 YKSSGGEFINSELGEIPKGWSIKPIKNILNFIRGIEPGSKYYTLIKKENHIRFIRIRDLN 268

Query: 58  SGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPK 117
           S        +      + +   I     I+    G      +   ++G  S+    + P 
Sbjct: 269 SN------SEKVYIPKEMAKNKILNSEDIIISLDGSLG--VVKFGYNGAYSSGIRKVCPI 320

Query: 118 DVL---PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKI 174
                    +   L S ++   I+    G T+ HA              + E   I +  
Sbjct: 321 SEYDIPNMYIYCLLKSDNIQNTIKNYASGTTILHAGKSVEHMKITLPKKIDEMKRILKLF 380

Query: 175 IAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGL 211
              T  I   I    + I+ L + +  L+  ++T  +
Sbjct: 381 GDLTKPIFNQILNNQKEIQTLTKIRDTLLPKLITGKI 417


>gi|115502461|sp|Q57594|T1S1_METJA RecName: Full=Type-1 restriction enzyme MjaXIP specificity protein;
           Short=S.MjaXIP; AltName: Full=Type I restriction enzyme
           MjaXIP specificity protein; Short=S protein
 gi|61680619|pdb|1YF2|A Chain A, Three-Dimensional Structure Of Dna Sequence Specificity
           (S) Subunit Of A Type I Restriction-Modification Enzyme
           And Its Functional Implications
 gi|61680620|pdb|1YF2|B Chain B, Three-Dimensional Structure Of Dna Sequence Specificity
           (S) Subunit Of A Type I Restriction-Modification Enzyme
           And Its Functional Implications
          Length = 425

 Score =  151 bits (381), Expect = 2e-34,   Method: Composition-based stats.
 Identities = 72/438 (16%), Positives = 151/438 (34%), Gaps = 42/438 (9%)

Query: 8   PQYKDSGVQWIGAIPKHWKVVPIKRFTK-LNTGRTSE-------SGKDIIYIGLEDVESG 59
             +K +    IG IP+ W++V +K   K +  G T +           I ++ +ED+ + 
Sbjct: 6   ENFKKTE---IGEIPEDWEIVELKDVCKKIKAGGTPKTSVEEYYKNGTIPFVKIEDITNS 62

Query: 60  TGKYLPKDGNSRQS--DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPK 117
                       +   + S   I  K  +L+   G     A I   +   +   L + PK
Sbjct: 63  NKYLTNTKIKITEEGLNNSNAWIVPKNSVLFAMYGSIGETA-INKIEVATNQAILGIIPK 121

Query: 118 DVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
           D + E    + +          +    T  + + + + +  +P+PPL EQ  I + +   
Sbjct: 122 DNILESEFLYYILAKNKNYYSKLGMQTTQKNLNAQIVKSFKIPLPPLEEQKQIAKIL--- 178

Query: 178 TVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPF 237
             +ID  I    + I  L+  K+ L+  ++TKG+      K      +G +P+ WEV   
Sbjct: 179 -TKIDEGIEIIEKSINKLERIKKGLMHKLLTKGIGHSRFKKS----EIGEIPEDWEVFEI 233

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQ-------------KLETRNMGLKPESYETYQ 284
             +            +S        N I                  R +           
Sbjct: 234 KDIFEVKTGTTPSTKKSEYWENGEINWITPLDLSRLNEKIYIGSSERKVTKIALEKCNLN 293

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCK 344
           ++  G I+            L       +G             +++ + A+ ++      
Sbjct: 294 LIPKGSIIISTRAPVGYVAVLTVESTFNQGC--KGLFQKNNDSVNTEFYAYYLKFKKNLL 351

Query: 345 VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLK 404
              + G    + L    ++   + +PP++EQ  I  +++      D  +E  +Q    L+
Sbjct: 352 ENLS-GGSTFKELSKSMLENFKIPLPPLEEQKQIAKILSSV----DKSIELKKQKKEKLQ 406

Query: 405 ERRSSFIAAAVTGQIDLR 422
             +   +   +TG++ ++
Sbjct: 407 RMKKKIMELLLTGKVRVK 424


>gi|310830282|ref|YP_003965382.1| type I restriction enzyme, S subunit [Ketogulonicigenium vulgare
           Y25]
 gi|308753188|gb|ADO44331.1| type I restriction enzyme, S subunit [Ketogulonicigenium vulgare
           Y25]
          Length = 300

 Score =  151 bits (380), Expect = 3e-34,   Method: Composition-based stats.
 Identities = 96/301 (31%), Positives = 154/301 (51%), Gaps = 10/301 (3%)

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
                R+     GA M  A+W  +G+I +P PPL EQ  I   +  ET RID LI ++ R
Sbjct: 4   PGFIDRVNGSTTGAKMPRAEWGFVGSIKVPTPPLEEQTAIAIFLDRETARIDGLIKKKGR 63

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKP----FFALVTELNR 246
           FIELLKEK+ AL+++ VTKG++  V MKDSG +W+G +P+HW+  P    F       + 
Sbjct: 64  FIELLKEKRAALITHAVTKGIDAGVPMKDSGQDWLGQIPEHWDTVPPTALFTESKERAHE 123

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
            +  L  +    +      + LE R + +   + +  +  + G+ V     +      L 
Sbjct: 124 GDQMLSATQKYGVIPLEEFEALEQRQVTMAVTNLDKRKHTEIGDFVISMRSMDG---GLE 180

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR--QSLKFEDVKR 364
            A+ +     + + +   P      +  +L++S    +      S +R  Q + F   ++
Sbjct: 181 RARAVGSVRSSYSVLRCGPEVE-GRFFGYLLKSSLYIQALRLTTSFIRDGQDMNFSHFRK 239

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGE 424
           + +   P+ EQ  I + I+ ETARID LV K ++SI LLKE+RS+ I AAVTG+ID+R  
Sbjct: 240 VKLPRVPVDEQIRIADHIDRETARIDGLVAKTDRSIELLKEKRSTLITAAVTGKIDVRNA 299

Query: 425 S 425
           +
Sbjct: 300 A 300



 Score = 64.8 bits (156), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 49/211 (23%), Positives = 81/211 (38%), Gaps = 13/211 (6%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESG------KDIIYIGLEDVESGTGKY 63
            KDSG  W+G IP+HW  VP       +  R  E        +    I LE+ E+     
Sbjct: 90  MKDSGQDWLGQIPEHWDTVPPTALFTESKERAHEGDQMLSATQKYGVIPLEEFEA----L 145

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPEL 123
             +      ++         G  +             A   G   + + VL+    +   
Sbjct: 146 EQRQVTMAVTNLDKRKHTEIGDFVISMRSMDGG-LERARAVGSVRSSYSVLRCGPEVEGR 204

Query: 124 LQGWLLSIDVTQRIEAICEGATM--SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
             G+LL   +  +   +           ++     + +P  P+ EQ+ I + I  ET RI
Sbjct: 205 FFGYLLKSSLYIQALRLTTSFIRDGQDMNFSHFRKVKLPRVPVDEQIRIADHIDRETARI 264

Query: 182 DTLITERIRFIELLKEKKQALVSYIVTKGLN 212
           D L+ +  R IELLKEK+  L++  VT  ++
Sbjct: 265 DGLVAKTDRSIELLKEKRSTLITAAVTGKID 295


>gi|77166355|ref|YP_344880.1| restriction modification system DNA specificity subunit
           [Nitrosococcus oceani ATCC 19707]
 gi|76884669|gb|ABA59350.1| Restriction modification system DNA specificity domain
           [Nitrosococcus oceani ATCC 19707]
          Length = 425

 Score =  151 bits (380), Expect = 3e-34,   Method: Composition-based stats.
 Identities = 77/429 (17%), Positives = 150/429 (34%), Gaps = 36/429 (8%)

Query: 21  IPKHWKVVPIKRFTKLNT----GRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD-- 74
           +P+ W+V P+ +   + +     +T  S   +      DV          D  +  +   
Sbjct: 5   VPEGWEVKPLGKLVDVRSSNIDKKTETSEIPVRLCNYTDVYYNNRITSAIDFMAASAKQR 64

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDG------ICSTQFLVLQPKDVLPELLQ--G 126
                   KG ++  K         +  +        +C     +L+P     +      
Sbjct: 65  EIDRFSLEKGDVIITKDSETPDDIAVPSYVSDDLSGVVCGYHLTLLKPDQDESDGEFLSH 124

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
                 V      +  G T        I   P+  PPL EQ  I   +      +D +I 
Sbjct: 125 LFQLPSVQHYFYILANGITRFGLTADAINEAPLLTPPLPEQQKIAAIL----SSVDDVIE 180

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFA-----LV 241
           +    I  LK+ K A++  ++TKG+    + KDS +   G +P  W +          +V
Sbjct: 181 KTRAQIHKLKDLKTAMMQELLTKGIG-HTEFKDSPV---GRIPVGWSICSAGEVAVAIMV 236

Query: 242 TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFR---FIDL 298
             + +     +ES + +L   N+ +   T +  LK  S ++ +I+    ++      +  
Sbjct: 237 GVVVKPAQYYVESGVPALRSANVRENGLTMD-NLKYFSEDSNEILKKSRLIKGDLLTVRT 295

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSL 357
                +       E        +      IDS +    + S            G  +Q  
Sbjct: 296 GYPGTTAVVTDEFEGCNCIDVVITRPSSRIDSDFFCLWVNSDHGKGQVLKAQGGLAQQHF 355

Query: 358 KFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
              D+K L V+VP + EQ  I N +N  T +    +   E+ + LL + + + +   +TG
Sbjct: 356 NVSDMKNLTVVVPSLTEQKAIFNAVNSVTKK----IALTEKRLTLLLDTKKALMQDLLTG 411

Query: 418 QIDLRGESQ 426
           ++ +  E +
Sbjct: 412 KVRVNVEQE 420



 Score = 62.5 bits (150), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 34/209 (16%), Positives = 68/209 (32%), Gaps = 12/209 (5%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGK 62
           ++KDS V   G IP  W +                          +  +   +V      
Sbjct: 209 EFKDSPV---GRIPVGWSICSAGEVAVAIMVGVVVKPAQYYVESGVPALRSANVRENGLT 265

Query: 63  YLP-KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICS-TQFLVLQPKDVL 120
               K  +   ++    S   KG +L  + G     A++ D    C+    ++ +P   +
Sbjct: 266 MDNLKYFSEDSNEILKKSRLIKGDLLTVRTGYPGTTAVVTDEFEGCNCIDVVITRPSSRI 325

Query: 121 PELLQGWLLSIDV-TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
                   ++ D    ++     G    H +   + N+ + +P L EQ  I   + + T 
Sbjct: 326 DSDFFCLWVNSDHGKGQVLKAQGGLAQQHFNVSDMKNLTVVVPSLTEQKAIFNAVNSVTK 385

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVT 208
           +I          ++  K   Q L++  V 
Sbjct: 386 KIALTEKRLTLLLDTKKALMQDLLTGKVR 414


>gi|23452768|gb|AAN33154.1| putative type I specificity subunit HsdS [Campylobacter jejuni]
 gi|23452773|gb|AAN33157.1| putative type I specificity subunit HsdS [Campylobacter jejuni]
 gi|23452787|gb|AAN33165.1| putative type I specificity subunit HsdS [Campylobacter jejuni]
          Length = 403

 Score =  150 bits (379), Expect = 4e-34,   Method: Composition-based stats.
 Identities = 72/415 (17%), Positives = 143/415 (34%), Gaps = 33/415 (7%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTS------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           +P+ W+V  ++   ++  G++       +  K+   I   +   G   +  K  +     
Sbjct: 4   LPQGWEVKRLEEVCEVVMGQSPNGNCIFDKDKNKDLI---EFHQGKIAFSDKYIDESNFV 60

Query: 75  TST-VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
           TS    I  K  ++     P     I      I      +   K         +   + +
Sbjct: 61  TSDVKKIAKKNSVVLCVRAPVGEVNITTKDIAIGRGLCSLNGVKINNN---FLFFYLLTL 117

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            +       G+T    + + I    +P+PPL EQ  I   +     +ID  I +    + 
Sbjct: 118 KKYFNDNSTGSTFKAINVRVIKETKIPLPPLKEQERIVGILDFAFSKIDENIKKAKENLA 177

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN--RKNTKL 251
            + E  Q+ +        +          +    +P  W+ K    +    +   K    
Sbjct: 178 NIDELMQSALQKAFNPLND--------NTKENYQLPQSWKWKGLGEICFITDGTHKTPNY 229

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDP-----GEIVFRFIDLQNDKRSLR 306
           IE+ I  LS  NI +     +        E  +++       G+I+   I       +++
Sbjct: 230 IETGIPFLSVKNISKGFFDLSDVKYISLEEHNKLIKRAKPEFGDILICRIGTLGK--AIK 287

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY--AMGSGLR-QSLKFEDVK 363
            +   E  I  S  +      I S YL + + SY +        +G G     L    ++
Sbjct: 288 ISLEFEFSIFVSLGLLKPKVKIISDYLVYFLNSYFIEGWINNNKVGGGTHTAKLNLNILE 347

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           + PV +PP+KEQ  I + ++    +   L E   + +   +E + S +  A  G+
Sbjct: 348 KCPVALPPLKEQEQIASHLDSVFEKTKALKELYTKELKDYEELKQSLLDKAFKGE 402



 Score = 71.4 bits (173), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 31/201 (15%), Positives = 70/201 (34%), Gaps = 9/201 (4%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESG---KDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            +P+ WK   +     +  G           I ++ ++++  G          S +    
Sbjct: 203 QLPQSWKWKGLGEICFITDGTHKTPNYIETGIPFLSVKNISKGFFDLSDVKYISLEEHNK 262

Query: 77  TVSIFAK--GQILYGKLGPYLRKAIIA-DFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
            +       G IL  ++G   +   I+ +F+        +L+PK  +      + L+   
Sbjct: 263 LIKRAKPEFGDILICRIGTLGKAIKISLEFEFSIFVSLGLLKPKVKIISDYLVYFLNSYF 322

Query: 134 TQRIEAICE---GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
            +      +   G   +  +   +   P+ +PPL EQ  I   + +   +   L     +
Sbjct: 323 IEGWINNNKVGGGTHTAKLNLNILEKCPVALPPLKEQEQIASHLDSVFEKTKALKELYTK 382

Query: 191 FIELLKEKKQALVSYIVTKGL 211
            ++  +E KQ+L+       L
Sbjct: 383 ELKDYEELKQSLLDKAFKGEL 403


>gi|220931290|ref|YP_002508198.1| restriction modification system DNA specificity domain protein
           [Halothermothrix orenii H 168]
 gi|219992600|gb|ACL69203.1| restriction modification system DNA specificity domain protein
           [Halothermothrix orenii H 168]
          Length = 422

 Score =  150 bits (379), Expect = 4e-34,   Method: Composition-based stats.
 Identities = 75/418 (17%), Positives = 166/418 (39%), Gaps = 27/418 (6%)

Query: 21  IPKHWKVVPIKRFTK-LNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQS 73
           IPK W+       +K +  G T ++ K      +I+++ +ED+ +  GKY+    ++   
Sbjct: 18  IPKEWEFRNFGLISKYIKAGGTPKADKKEYYGGEILFVKIEDM-TKNGKYIYNTKSTITE 76

Query: 74  D---TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
           D    S+  I  K  +L    G Y  K  I   +   +   L + P + +      +   
Sbjct: 77  DGLKNSSAWIVPKKSLLLSMYGSY-GKVSINKVELATNQAILGIIPSEEVNLDYLYYFSL 135

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
             +    +++ +  T ++   + + N P+  PPL EQ  I   +      +D  I +   
Sbjct: 136 GCLKPYFKSLVKATTQANLTKQIVNNTPVLSPPLPEQKKIAAIL----STVDKAIEKTDE 191

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
            IE  KE K+ L+  ++TKG+      +         +P  W +  F  +  + N K   
Sbjct: 192 IIEKSKELKKGLMQQLLTKGIGHSEFKEVRIGTKKIKIPVVWTLIKFGEVFKKRNEKANV 251

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
             E   + L +     ++          +  + ++   G+I++  +     K ++     
Sbjct: 252 EKEYKYVGLEHLG-TGEINLLGYDRNGNNKSSKRLFKSGDILYGKLRPYLKKAAITDFD- 309

Query: 311 MERGIITSAYM-AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVL 368
              GI ++  +         + YL +L+ S        +   G       +  +K L + 
Sbjct: 310 ---GICSTDIIPIYATKKSVNNYLIYLVHSKMFVDFAVSTMEGTNLPRTSWRVIKNLIIP 366

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
           +PP++EQ  I ++++    +    ++K ++    L+E +   +   +TG++ ++ E +
Sbjct: 367 LPPLQEQKKIASILSSVDEK----IQKEQEYREKLEELKKGLMQKLLTGEVRVKVEDE 420



 Score = 78.3 bits (191), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 59/190 (31%), Positives = 86/190 (45%), Gaps = 4/190 (2%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            IP  W ++      K    + +   K+  Y+GLE + +G    L  D N      S+  
Sbjct: 228 KIPVVWTLIKFGEVFKKRNEKANV-EKEYKYVGLEHLGTGEINLLGYDRNGNN--KSSKR 284

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFL-VLQPKDVLPELLQGWLLSIDVTQRIE 138
           +F  G ILYGKL PYL+KA I DFDGICST  + +   K  +   L   + S        
Sbjct: 285 LFKSGDILYGKLRPYLKKAAITDFDGICSTDIIPIYATKKSVNNYLIYLVHSKMFVDFAV 344

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
           +  EG  +    W+ I N+ +P+PPL EQ  I   + +   +I      R +  EL K  
Sbjct: 345 STMEGTNLPRTSWRVIKNLIIPLPPLQEQKKIASILSSVDEKIQKEQEYREKLEELKKGL 404

Query: 199 KQALVSYIVT 208
            Q L++  V 
Sbjct: 405 MQKLLTGEVR 414


>gi|332678457|gb|AEE87586.1| Type I restriction-modification system, specificity subunit S
           [Francisella cf. novicida Fx1]
          Length = 409

 Score =  150 bits (378), Expect = 4e-34,   Method: Composition-based stats.
 Identities = 57/404 (14%), Positives = 116/404 (28%), Gaps = 16/404 (3%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +  +P  W+   +    +   G   +  KD   IGL  +          D N    +   
Sbjct: 18  LYKLPAGWEWKKLGELAEYVNGMAFKP-KDWSNIGLPIIRIQNLN-GSDDFNYFSGEAKE 75

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
                 G IL       L        + I +           + +    +         +
Sbjct: 76  KYYVKSGDILISWS-ASLDVYKWQGGNAILNQHIFNTIINYDVVDYDFFYHTIKYSLSEV 134

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
                G  M H       NI +P+PPLAEQ  I  K+ +   +ID  I    + I     
Sbjct: 135 MNNLHGVGMKHITKGKFENIQIPLPPLAEQKRIVAKLDSLFEKIDKAIELHQQNITNANT 194

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
              + +              K    E+     ++               +          
Sbjct: 195 LMASTLDKTF----------KKLEREYSLEKVENIASTIQSGFPVNKKNEEPNGYVHLRT 244

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
                N     +T          E    ++ G+I+F   +           +       +
Sbjct: 245 HNISINGELNFDTVIKVKPSMIKEKLSYIEKGDILFNNTNSTELVGKTAIVREDYNYAFS 304

Query: 318 SAY-MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG--LRQSLKFEDVKRLPVLVPPIKE 374
           +          I   +  +   +    K+F  + +    +  +    +K + ++VPP+  
Sbjct: 305 NHLTKIKVADSILPNFFVYAFLNLFNKKLFEKICNKWIGQSGVNTTMLKNIEIIVPPLPI 364

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           Q      ++    ++D + +  EQ +  LK  ++S +  A  G+
Sbjct: 365 QQQTVEYLDSIATKVDKIKQLNEQKLENLKALKASILDKAFRGE 408



 Score = 87.9 bits (216), Expect = 3e-15,   Method: Composition-based stats.
 Identities = 28/196 (14%), Positives = 63/196 (32%), Gaps = 6/196 (3%)

Query: 212 NPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETR 271
             + + K + +  +  +P  WE K    L   +N    K  + + + L    I     + 
Sbjct: 5   YKNEQNKKNKMSELYKLPAGWEWKKLGELAEYVNGMAFKPKDWSNIGLPIIRIQNLNGSD 64

Query: 272 NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST 331
           +        +    V  G+I+  +    +              I+         +     
Sbjct: 65  DFNYFSGEAKEKYYVKSGDILISWSASLD-----VYKWQGGNAILNQHIFNTIINYDVVD 119

Query: 332 Y-LAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
           Y   +    Y L +V   +     + +     + + + +PP+ EQ  I   ++    +ID
Sbjct: 120 YDFFYHTIKYSLSEVMNNLHGVGMKHITKGKFENIQIPLPPLAEQKRIVAKLDSLFEKID 179

Query: 391 VLVEKIEQSIVLLKER 406
             +E  +Q+I      
Sbjct: 180 KAIELHQQNITNANTL 195


>gi|296116346|ref|ZP_06834962.1| type I restriction-modification system specificity subunit
           [Gluconacetobacter hansenii ATCC 23769]
 gi|295977165|gb|EFG83927.1| type I restriction-modification system specificity subunit
           [Gluconacetobacter hansenii ATCC 23769]
          Length = 322

 Score =  149 bits (377), Expect = 5e-34,   Method: Composition-based stats.
 Identities = 88/318 (27%), Positives = 147/318 (46%), Gaps = 15/318 (4%)

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           ++  L S      I+    G+T++H       N   P+P   EQ  I   +  E  +ID 
Sbjct: 1   MKWVLESNIFKIFIDLHSHGSTINHLYQNVFENFSFPLPAFPEQQAIASFLDRECGKIDA 60

Query: 184 LITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTE 243
           LI E+ R I LL EK+QA++S+ VTKGLNP+  MKDSGI W+G+VP+ WEV     LV  
Sbjct: 61  LIAEQERLIALLAEKRQAVISHAVTKGLNPNAPMKDSGIPWIGMVPEGWEVSRLKYLVQC 120

Query: 244 LNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE-------------SYETYQIVDPGE 290
            +          +L ++      K+  +   +  +             +      ++ G+
Sbjct: 121 YDGIQMGPFGGMLLDINSEPTGYKVYGQENTISGDFGLGHRWISTDRYNDLRRYSLNGGD 180

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCK-VFYAM 349
           +V        + R +            +  + V    +   +LA L+   +  +    A 
Sbjct: 181 LVLTRKGSLGNARLVSKLPYPGIADSDTIRIRVDKSKVYPEFLATLLHEANYIESQINAS 240

Query: 350 GSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
             G     L  +++  L V+ PPI EQ +I N + + +   D  +++   +I LLKERR+
Sbjct: 241 KRGAILSGLNTKNISDLIVIYPPIYEQNNILNYLKISSEEFDCSIQQSAIAITLLKERRA 300

Query: 409 SFIAAAVTGQIDLRGESQ 426
           + I+AAVTG+ID+R +S+
Sbjct: 301 ALISAAVTGKIDVRAQSK 318



 Score = 78.7 bits (192), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 47/219 (21%), Positives = 87/219 (39%), Gaps = 16/219 (7%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTG-----------RTSESGKDIIYIGLEDVES 58
            KDSG+ WIG +P+ W+V  +K   +   G             +         G E+  S
Sbjct: 94  MKDSGIPWIGMVPEGWEVSRLKYLVQCYDGIQMGPFGGMLLDINSEPTGYKVYGQENTIS 153

Query: 59  GTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD--FDGICSTQFL---V 113
           G      +  ++ + +         G ++  + G      +++   + GI  +  +   V
Sbjct: 154 GDFGLGHRWISTDRYNDLRRYSLNGGDLVLTRKGSLGNARLVSKLPYPGIADSDTIRIRV 213

Query: 114 LQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
            + K     L      +  +  +I A   GA +S  + K I ++ +  PP+ EQ  I   
Sbjct: 214 DKSKVYPEFLATLLHEANYIESQINASKRGAILSGLNTKNISDLIVIYPPIYEQNNILNY 273

Query: 174 IIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLN 212
           +   +   D  I +    I LLKE++ AL+S  VT  ++
Sbjct: 274 LKISSEEFDCSIQQSAIAITLLKERRAALISAAVTGKID 312


>gi|163784191|ref|ZP_02179124.1| type I restriction-modification enzyme, S subunit [Hydrogenivirga
           sp. 128-5-R1-1]
 gi|159880541|gb|EDP74112.1| type I restriction-modification enzyme, S subunit [Hydrogenivirga
           sp. 128-5-R1-1]
          Length = 475

 Score =  149 bits (377), Expect = 5e-34,   Method: Composition-based stats.
 Identities = 81/434 (18%), Positives = 154/434 (35%), Gaps = 41/434 (9%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESG-----KDIIYIGLEDVESGTGK--YLPKDGNSRQS 73
           IP+ W+VV +    ++  G+T +       K    I ++D E+      Y   + +  + 
Sbjct: 2   IPEDWEVVRLGDIAEIQQGKTPKRDLYDDRKGYRIIKVKDFENEKFVKHYPNGERSFVKV 61

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQ------PKDVLPELLQGW 127
           D        +G IL    G   +           ++   V         +          
Sbjct: 62  DLGNRYTLEQGDILILSAGHSSKVVGQKIGFYNVNSNNKVFFVSELLRIRANNKTNPLFL 121

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
             SI   +  + I E     H   + + N+ +P+PPL EQ  I   +     +I   I +
Sbjct: 122 FFSIISQKSRKQIKEEIKGGHLYPRDLVNLKIPLPPLPEQKAIATVLD----KIRQAIEQ 177

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNP--DVKMKDSGIEWVGLVPDHWEVKPFFALVTELN 245
               I+  KE K++L+ +  T G+ P  +          +GL+P+HWE+K     V  + 
Sbjct: 178 TEEVIQANKELKKSLMKHFFTYGVVPPEETDKVKLKETEIGLIPEHWEIKTLKDSVDSIE 237

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET---------YQIVDPGEIVFRFI 296
              +  I +N        I     T+   L                  I+  G+++F + 
Sbjct: 238 YGYSVSIPANEDQKGIPIISTADITKEGKLLYNKIRKIKPPKRLTEKLILKDGDVLFNWR 297

Query: 297 DLQNDKRSLRSAQV-----MERGIITSAYMAVKPHGIDSTYLA--WLMRSYDLCKVFYAM 349
           +           +       +  I  S  + ++    +S      +L+  Y     F  +
Sbjct: 298 NSPELIGKTTVFEAEKVSKDDFYIYASFILRIRSKESESNNFYLKYLLNYYREIGTFIKL 357

Query: 350 GSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
                 + +    ++  L + +PPI EQ  I  ++N    +ID  +E  E     L++  
Sbjct: 358 ARRAVNQANYNRNEIYNLKIPLPPIDEQKQIAKILN----KIDNKIEAEENKKEALEKLF 413

Query: 408 SSFIAAAVTGQIDL 421
            S +   +TG+I L
Sbjct: 414 KSLLNNLMTGKIRL 427



 Score = 54.4 bits (129), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 35/206 (16%), Positives = 69/206 (33%), Gaps = 19/206 (9%)

Query: 18  IGAIPKHWKVVPIKR-FTKLNTGRT-----SESGKDIIYIGLEDV-ESGTGKYLPKDGNS 70
           IG IP+HW++  +K     +  G +     +E  K I  I   D+ + G   Y       
Sbjct: 217 IGLIPEHWEIKTLKDSVDSIEYGYSVSIPANEDQKGIPIISTADITKEGKLLYNKIRKIK 276

Query: 71  RQSDTSTVSIFAKGQILYGKLGPY----------LRKAIIADFDGICSTQFLVLQPKDVL 120
                +   I   G +L+                  K    DF    S    +   +   
Sbjct: 277 PPKRLTEKLILKDGDVLFNWRNSPELIGKTTVFEAEKVSKDDFYIYASFILRIRSKESES 336

Query: 121 PELLQGW--LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
                 +      ++   I+        ++ +   I N+ +P+PP+ EQ  I + +    
Sbjct: 337 NNFYLKYLLNYYREIGTFIKLARRAVNQANYNRNEIYNLKIPLPPIDEQKQIAKILNKID 396

Query: 179 VRIDTLITERIRFIELLKEKKQALVS 204
            +I+    ++    +L K     L++
Sbjct: 397 NKIEAEENKKEALEKLFKSLLNNLMT 422


>gi|117922225|ref|YP_871417.1| restriction modification system DNA specificity subunit [Shewanella
           sp. ANA-3]
 gi|117614557|gb|ABK50011.1| restriction modification system DNA specificity domain [Shewanella
           sp. ANA-3]
          Length = 425

 Score =  149 bits (377), Expect = 6e-34,   Method: Composition-based stats.
 Identities = 70/423 (16%), Positives = 146/423 (34%), Gaps = 27/423 (6%)

Query: 21  IPKHWKVVPIKRFTKLN---TGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSR 71
           +P +W V+P+    K      GRT +       G +I  +   +V+ G   +  +   + 
Sbjct: 5   VPDNWNVLPLGSVIKQVIDFRGRTPKKLGMEWGGGNIRALSANNVQMGRVDFNKECYLAS 64

Query: 72  QSDTST---VSIFAKGQILYGKLGPYLRKAII-ADFDGICSTQFL--VLQPKDVLPELLQ 125
                          G IL+    P    A++  D   I S + +           + L 
Sbjct: 65  DELYDKWMTKGTTEVGDILFTMEAPLGNIALVPNDDRYILSQRVILLKNDKSKASSDFLF 124

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
             L S      +     G T      K +  + + +PPL EQ  I + + +    I+   
Sbjct: 125 QQLRSDSFQDTLRENATGTTAQGIQQKRLVTLDVVLPPLPEQQKIAKILTSVDEVIEKTQ 184

Query: 186 TERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN 245
            +  +  +L     Q L++  V     P  + KDS +  +    +   +K     +T+  
Sbjct: 185 AQIDKLKDLKTGMMQELLTQGVGIDGKPHTEFKDSPVGRIPKAWNCVTLKNLSKRITDGT 244

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG------EIVFRFIDLQ 299
            +  K      +   Y + ++            + E Y++   G      +I++  +   
Sbjct: 245 HQTVKTSPDGTIPFLYVSCVRDGNIDWEKASFLTEEMYELASKGRKPENGDILYTAVGSY 304

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLK 358
               ++ S           A++      IDS +L   + S    K       G  + ++ 
Sbjct: 305 GH-AAIVSGDNRFSFQRHIAFIQPNHEKIDSEFLVSFLNSPLGKKQADLYAIGNAQLTVT 363

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
             D+ +  V +P I EQ  I  +       ID  +  +++ +  L   + + +   +TG+
Sbjct: 364 LGDLGKFKVALPDIAEQQRIAKI----FNGIDNRIIVVQRKLTSLGNTKKALMQDLLTGK 419

Query: 419 IDL 421
           + +
Sbjct: 420 VRV 422



 Score = 71.4 bits (173), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 47/218 (21%), Positives = 78/218 (35%), Gaps = 13/218 (5%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTS-----ESGKDIIYIGLEDVESG 59
           K + ++KDS V   G IPK W  V +K  +K  T  T           I ++ +  V  G
Sbjct: 211 KPHTEFKDSPV---GRIPKAWNCVTLKNLSKRITDGTHQTVKTSPDGTIPFLYVSCVRDG 267

Query: 60  TGKYLPKDGNSRQSDT--STVSIFAKGQILYGKLGPYLRKAIIA-DFDGICSTQFLVLQP 116
              +      + +     S       G ILY  +G Y   AI++ D           +QP
Sbjct: 268 NIDWEKASFLTEEMYELASKGRKPENGDILYTAVGSYGHAAIVSGDNRFSFQRHIAFIQP 327

Query: 117 KD--VLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKI 174
               +  E L  +L S    ++ +    G          +G   + +P +AEQ  I +  
Sbjct: 328 NHEKIDSEFLVSFLNSPLGKKQADLYAIGNAQLTVTLGDLGKFKVALPDIAEQQRIAKIF 387

Query: 175 IAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLN 212
                RI  +  +        K   Q L++  V   ++
Sbjct: 388 NGIDNRIIVVQRKLTSLGNTKKALMQDLLTGKVRVAID 425


>gi|300118614|ref|ZP_07056352.1| Type I restriction-modification enzyme, S subunit [Bacillus cereus
           SJ1]
 gi|298724003|gb|EFI64707.1| Type I restriction-modification enzyme, S subunit [Bacillus cereus
           SJ1]
          Length = 415

 Score =  149 bits (375), Expect = 1e-33,   Method: Composition-based stats.
 Identities = 62/419 (14%), Positives = 164/419 (39%), Gaps = 28/419 (6%)

Query: 26  KVVPIKRFT-KLNTGRTSESGKD------IIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           +   +K    K+  G T    KD      I ++ ++D+ + +     +    +    S  
Sbjct: 3   EWQKLKDVVVKIVGGGTPSRKKDEYYHGDIPWVTVKDLIATSISDAQEKITPQAIQESAA 62

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           ++  K  ++       L KA I + D   +     L P              +   ++IE
Sbjct: 63  NLIPKSNVIIATRMA-LGKAFINEVDVAINQDLKALIPNKEKVIPKYLLYTYLSNKEKIE 121

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
            +  G T+     + I  + + +P L EQ  I   +      +D +I +    IE  ++ 
Sbjct: 122 ILGSGTTVKGIRLEQINGLEIFVPSLEEQKKITFIL----SSVDQIIEKTKAIIEQTEKV 177

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK---LIESN 255
           K+ L+  ++T+G+    K K++ I  +    +    +    L+T+     T      ++ 
Sbjct: 178 KKGLMQQLLTEGIG-HTKFKETDIGNIPEEWEVLTFEEISDLITKGTTPTTYGFSYEDTG 236

Query: 256 ILSLSYGNI-----IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
           +  +   NI     + K   + + L         I+   +I+F    +   + ++    +
Sbjct: 237 VNFIRTENIDEQGKVVKDYMKKISLAAHQKLKRSILKEKDILFSIAGVGLGQCTIVKEDL 296

Query: 311 MERGIITSAYMAVKPHGIDSTYLAW-LMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVL 368
           +      +  +    + +   +  + L+ S+ + K   A+ + G + ++  + +    + 
Sbjct: 297 LPANTNQALAIIRISNPLFDHHFVYTLLLSHYITKQIKAVSTIGAQPNISLKQIGDFKIP 356

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR-GESQ 426
            P ++EQ  I ++++    +    +++ +  +  L+  ++  + + +TG+I ++  E++
Sbjct: 357 KPTLREQKRIVDILSSVGEK----IQREKVKLDTLQTIKTGLMQSLLTGEIRVKADEAE 411



 Score = 62.9 bits (151), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 39/210 (18%), Positives = 83/210 (39%), Gaps = 17/210 (8%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVES--G 59
           ++K++    IG IP+ W+V+  +  + L T  T+ +          + +I  E+++    
Sbjct: 194 KFKETD---IGNIPEEWEVLTFEEISDLITKGTTPTTYGFSYEDTGVNFIRTENIDEQGK 250

Query: 60  TGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADF---DGICSTQFLVLQP 116
             K   K  +         SI  +  IL+   G  L +  I          +    +++ 
Sbjct: 251 VVKDYMKKISLAAHQKLKRSILKEKDILFSIAGVGLGQCTIVKEDLLPANTNQALAIIRI 310

Query: 117 KDVLPELLQGWL--LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKI 174
            + L +    +   LS  +T++I+A+       +   K IG+  +P P L EQ  I + +
Sbjct: 311 SNPLFDHHFVYTLLLSHYITKQIKAVSTIGAQPNISLKQIGDFKIPKPTLREQKRIVDIL 370

Query: 175 IAETVRIDTLITERIRFIELLKEKKQALVS 204
            +   +I     +      +     Q+L++
Sbjct: 371 SSVGEKIQREKVKLDTLQTIKTGLMQSLLT 400


>gi|23452743|gb|AAN33142.1| putative type I specificity subunit HsdS [Campylobacter jejuni]
          Length = 414

 Score =  148 bits (374), Expect = 1e-33,   Method: Composition-based stats.
 Identities = 57/419 (13%), Positives = 122/419 (29%), Gaps = 30/419 (7%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           +P+ W+V  +    ++ TG T         GKD  +    D E G         N  +  
Sbjct: 4   LPQGWEVKKLGEIGEIVTGSTPSKSNLDFYGKDYPFFKPSDFEQGYF-LENAGDNLSKLG 62

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
                      IL   +G   + A+             ++  K+++ E +  + +S    
Sbjct: 63  FDKARQLPPKTILVVCIGSLGKVALTRVIGSCNQQINAIIPHKNIIAEYIYYYCISSKFQ 122

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRIDTLITERIRFIE 193
             + +     T++  +      + +  P  + EQ  I   +     +ID  I    + + 
Sbjct: 123 SILFSKAPQTTLAILNKTEFSKLEIIYPKDIKEQERIVGILDESFAKIDESIKILEQNLL 182

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
            L E  Q+ +        +          +    +P  W+ K    +   L         
Sbjct: 183 NLDELMQSALQKAFNPLKD--------NAKENYKLPQGWKWKSLGEICEILGGGTPDTKN 234

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIV-------------FRFIDLQN 300
                 S  + +Q  ++       ++ + Y      +I                 +   +
Sbjct: 235 PIFWYSSQADEVQFEKSYYWATLVDTKQKYLYGTKRKITQKGLDCSNAILLPINSVIFSS 294

Query: 301 DKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKF 359
                  +           Y           Y           K    +  G   + +  
Sbjct: 295 RASIGEISIAKVETATNQGYKNFICDESILYYEFLYFALKHFTKEIELLAQGTTYKEVSK 354

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
             +K   + +PP+KEQ  IT  ++    +   L E   + +   +E + S +  A  G+
Sbjct: 355 AKIKDFKIPLPPLKEQEQITKHLDFIFEKAKALKELYTKELKDYEELKQSLLDKAFKGE 413



 Score = 76.0 bits (185), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 30/208 (14%), Positives = 69/208 (33%), Gaps = 17/208 (8%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLE----------------DVESGTGKY 63
            +P+ WK   +    ++  G T ++   I +   +                D +      
Sbjct: 208 KLPQGWKWKSLGEICEILGGGTPDTKNPIFWYSSQADEVQFEKSYYWATLVDTKQKYLYG 267

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPEL 123
             +    +  D S   +     +++      + +  IA  +   +  +      + +   
Sbjct: 268 TKRKITQKGLDCSNAILLPINSVIFSS-RASIGEISIAKVETATNQGYKNFICDESILYY 326

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
              +      T+ IE + +G T        I +  +P+PPL EQ  I + +     +   
Sbjct: 327 EFLYFALKHFTKEIELLAQGTTYKEVSKAKIKDFKIPLPPLKEQEQITKHLDFIFEKAKA 386

Query: 184 LITERIRFIELLKEKKQALVSYIVTKGL 211
           L     + ++  +E KQ+L+       L
Sbjct: 387 LKELYTKELKDYEELKQSLLDKAFKGEL 414


>gi|323699617|ref|ZP_08111529.1| restriction modification system DNA specificity domain
           [Desulfovibrio sp. ND132]
 gi|323459549|gb|EGB15414.1| restriction modification system DNA specificity domain
           [Desulfovibrio desulfuricans ND132]
          Length = 405

 Score =  148 bits (373), Expect = 2e-33,   Method: Composition-based stats.
 Identities = 68/422 (16%), Positives = 131/422 (31%), Gaps = 39/422 (9%)

Query: 21  IPKHWKVVPIKRFT-KLNTGRTSE------SGKDIIYIGLEDVESGTGKYL-PKDGNSRQ 72
           IP+ W+         K+  G + +          I+++  E+V  G      PK      
Sbjct: 2   IPEGWQKAKGVEIADKITKGASPKWQGFEYQENGILFVTSENVRDGFLDISRPKFLPDEF 61

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGI---CSTQFLVLQPKDVLPELLQG-WL 128
            +    S  A G IL   +G  + ++ I + +G+    +    +L+ K          +L
Sbjct: 62  GEKMKNSRLADGDILINIVGASIGRSCIYENNGVPANINQAVCLLRLKKGYNVRFFSLYL 121

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
                 + +  I   +   +     I N     P   EQ  I   +      I+      
Sbjct: 122 QLPSTVRMLLGIQSDSARPNLSLADIRNCLFVFPKEQEQKAIATILSTWDRAIEKAEALI 181

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN 248
                      Q L++  V  G            E+ G       +   F  V +     
Sbjct: 182 KAKERRKTGLMQRLLTGKVRFG------------EFAGEAWKEVPLGTLFEPVADTVGDK 229

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
                      +    + + E     +    Y  Y  +  GE  +   + +  +      
Sbjct: 230 DI---PPYSISAGIGFVSQREKWGKDIAGRQYANYTHLRKGEFAYNKGNSKKYQCGCAYL 286

Query: 309 QVMERGIITSAYMAVKPHGIDS----TYLAWLMRSYDLCKVFYAMGSGLRQ----SLKFE 360
              +  I             D      Y  + +  Y   ++   + SG R     +L  +
Sbjct: 287 LRDQDEISVPNVFISFRPKSDQVSADFYEHFFIADYHARELKRYITSGARSDGLLNLNKK 346

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQID 420
           D  ++ V  PP +EQ  I  V+N   A ID    +    +  LKE++   +   +TG++ 
Sbjct: 347 DFFKINVPCPPPREQEAIAKVLNAAVAEID----EHRNQLAALKEQKKGLMQQLLTGKVR 402

Query: 421 LR 422
           ++
Sbjct: 403 VK 404


>gi|313673806|ref|YP_004051917.1| restriction modification system DNA specificity domain
           [Calditerrivibrio nitroreducens DSM 19672]
 gi|312940562|gb|ADR19754.1| restriction modification system DNA specificity domain
           [Calditerrivibrio nitroreducens DSM 19672]
          Length = 451

 Score =  148 bits (373), Expect = 2e-33,   Method: Composition-based stats.
 Identities = 66/411 (16%), Positives = 150/411 (36%), Gaps = 15/411 (3%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           P+HW +  +     L  G + +S     + I  + + D++ G    L            +
Sbjct: 6   PEHWVLTELGNILYLKNGYSFKSTDYCEEGIPLVRISDIQDGRIN-LDTTVKVPNRLLKS 64

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV---LPELLQGWLLSIDVT 134
             I   G +L    G    K  I   +        V   K     L        L   + 
Sbjct: 65  DFIIENGDLLIAMSGATTGKFGIYIGNETILQNQRVGNLKLYSKSLVSTKYRDYLIASLR 124

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             I+    G    +   + I  + +P+PPL EQ  I  K+ A   ++ +      +   +
Sbjct: 125 DIIQKSAYGGAQPNISPEKIHKLIIPLPPLNEQKRIVAKLDAILPKVKSARDRLEKIPAI 184

Query: 195 LKEKKQALVSYIVTKGLNPDVK--MKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           LK+ +Q++++   +  L  D +        + +    +    +    +     +      
Sbjct: 185 LKKFRQSVLAAACSGRLTEDWREEYAQHTGKELPEWEEKKIFELTEKVENLNVKNINLHD 244

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETY--QIVDPGEIVFRFIDLQNDKRSLRSAQV 310
           +   + +S  N I+     +         +   QI+  G+++F  + +     ++    V
Sbjct: 245 KFLYIDISSINNIKNTIETHKEYSYYEAPSRAKQIIKHGDVLFSNVRVYLKNIAIVDNPV 304

Query: 311 MERGIITSAY--MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPV 367
               I ++ +  +  + + + + YL + +   D  K    +  G    ++K +D+    +
Sbjct: 305 YNDQICSTGFTVLRAQKNKLLNKYLFYSLIRDDFIKEVSELQVGSSYPAIKKDDLISRFI 364

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            +PP++EQ +I   +    A  D + EK +++   L++   + +A A  G+
Sbjct: 365 PLPPLEEQHEIVRRVEKLFALADSIEEKYKKAHERLEKLEQAILAKAFRGE 415


>gi|261212598|ref|ZP_05926882.1| type I restriction-modification system specificity subunit S
           [Vibrio sp. RC341]
 gi|260837663|gb|EEX64340.1| type I restriction-modification system specificity subunit S
           [Vibrio sp. RC341]
          Length = 248

 Score =  148 bits (373), Expect = 2e-33,   Method: Composition-based stats.
 Identities = 64/235 (27%), Positives = 106/235 (45%), Gaps = 6/235 (2%)

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL--- 251
           +KEK+QA++S+ VTKGLN +  MKDSG+EW+G VP+HW++K    +    N         
Sbjct: 1   MKEKRQAVISHAVTKGLNSNAPMKDSGVEWLGEVPEHWDMKRLKYIGEARNGLTYSPDDV 60

Query: 252 --IESNILSLSYGNIIQ-KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
              E  IL L   NI   +L   +         T       +++    +         + 
Sbjct: 61  VTQEEGILVLRSSNIQDARLSFSDNVYVNMDIPTRIRTKENDLLICSRNGSRQLIGKNAL 120

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVL 368
              E   +      V      + YL W++ S        +  +     L   +++ + + 
Sbjct: 121 ITKEAADMAFGAFMVVFRSKINPYLYWVLNSPLFDYQSGSFLTSTINQLTIGNLENMEIP 180

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
           +PP  EQ +I N +  ++   D L  K    + LLKER+++ I+AAVTG+ID+R 
Sbjct: 181 LPPECEQEEIKNYLIKKSDYFDDLTSKALHKVNLLKERKTALISAAVTGKIDVRH 235



 Score = 94.9 bits (234), Expect = 3e-17,   Method: Composition-based stats.
 Identities = 44/213 (20%), Positives = 87/213 (40%), Gaps = 13/213 (6%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESG------KDIIYIGLEDVESGTGKY 63
            KDSGV+W+G +P+HW +  +K   +   G T          + I+ +   +++    + 
Sbjct: 23  MKDSGVEWLGEVPEHWDMKRLKYIGEARNGLTYSPDDVVTQEEGILVLRSSNIQ--DARL 80

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGP----YLRKAIIADFDGICSTQFLVLQPKDV 119
              D      D  T     +  +L            + A+I       +    ++  +  
Sbjct: 81  SFSDNVYVNMDIPTRIRTKENDLLICSRNGSRQLIGKNALITKEAADMAFGAFMVVFRSK 140

Query: 120 LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
           +   L   L S     +  +     T++      + N+ +P+PP  EQ  I+  +I ++ 
Sbjct: 141 INPYLYWVLNSPLFDYQSGSFLTS-TINQLTIGNLENMEIPLPPECEQEEIKNYLIKKSD 199

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVTKGLN 212
             D L ++ +  + LLKE+K AL+S  VT  ++
Sbjct: 200 YFDDLTSKALHKVNLLKERKTALISAAVTGKID 232


>gi|237721641|ref|ZP_04552122.1| conserved hypothetical protein [Bacteroides sp. 2_2_4]
 gi|229449437|gb|EEO55228.1| conserved hypothetical protein [Bacteroides sp. 2_2_4]
          Length = 407

 Score =  148 bits (372), Expect = 2e-33,   Method: Composition-based stats.
 Identities = 56/406 (13%), Positives = 119/406 (29%), Gaps = 31/406 (7%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQS 73
            IP +W    +       +G T           +I ++   D+  G    +P+       
Sbjct: 4   EIPDNWVWTTLGEVGTWQSGGTPSRSNKSYYGGNIPWLKTGDLNDGLISDIPESITEEAV 63

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
            +S+  I   G +L    G  + K  I  F    +         + +   L  +   +  
Sbjct: 64  ASSSAKINPTGSVLIAMYGATIGKLGILTFPATTNQACCACIEFNAI-TQLYLFYFLLSQ 122

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
                +   G    +   + I N  +P+PPL+EQ  I  +I      ID +   R     
Sbjct: 123 RSTFISKGGGGAQPNISKEIIVNTFIPLPPLSEQQRIIMEIEKWFALIDQIEQGRADLQT 182

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWV-------------------GLVPDHWEV 234
            +K+ K  ++   +   L P     +  IE +                     +P  W  
Sbjct: 183 TIKQTKNKILDLAIHGKLVPQDMNDEPAIEQLKRINPDFIPCDNRHSGKLPYKIPKTWVW 242

Query: 235 KPFFALVTELNRK---NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEI 291
               +++          +        +      I+      + +        +    G+I
Sbjct: 243 CSHNSILDISGGSQPAKSYFETIPKPNCIRLYQIRDYGESPVPVYIPINLASKQTKKGDI 302

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
           +         K  +  A+     +  +  +    + I   +  +   S         +  
Sbjct: 303 LLARYGGSLGK--VFYAEQGAYNVAMAKVIFKFENLIYKEFAYYYYLSDLYQGKLKEISR 360

Query: 352 GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
             +      D   +   +PPI EQ  I   +    + +D + + +E
Sbjct: 361 TAQTGFNITDFNDMYFPLPPINEQQRIVQKMEKLFSSLDDIQKNLE 406



 Score = 81.0 bits (198), Expect = 3e-13,   Method: Composition-based stats.
 Identities = 31/200 (15%), Positives = 62/200 (31%), Gaps = 12/200 (6%)

Query: 227 LVPDHWEVKPFFALVTELNRK-----NTKLIESNILSLSYGNIIQKLETRNMGLKPES-- 279
            +PD+W       + T  +       N      NI  L  G++   L +       E   
Sbjct: 4   EIPDNWVWTTLGEVGTWQSGGTPSRSNKSYYGGNIPWLKTGDLNDGLISDIPESITEEAV 63

Query: 280 -YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
              + +I   G ++         K  + +           A  A       +    +   
Sbjct: 64  ASSSAKINPTGSVLIAMYGATIGKLGILTF----PATTNQACCACIEFNAITQLYLFYFL 119

Query: 339 SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
                      G G + ++  E +    + +PP+ EQ  I   I    A ID + +    
Sbjct: 120 LSQRSTFISKGGGGAQPNISKEIIVNTFIPLPPLSEQQRIIMEIEKWFALIDQIEQGRAD 179

Query: 399 SIVLLKERRSSFIAAAVTGQ 418
               +K+ ++  +  A+ G+
Sbjct: 180 LQTTIKQTKNKILDLAIHGK 199


>gi|304315081|ref|YP_003850228.1| type I restriction-modification enzyme, subunit S
           [Methanothermobacter marburgensis str. Marburg]
 gi|302588540|gb|ADL58915.1| predicted type I restriction-modification enzyme, subunit S
           [Methanothermobacter marburgensis str. Marburg]
          Length = 368

 Score =  148 bits (372), Expect = 2e-33,   Method: Composition-based stats.
 Identities = 90/394 (22%), Positives = 162/394 (41%), Gaps = 32/394 (8%)

Query: 31  KRFTKLNTGRTSESGKD-IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYG 89
                        +G+    ++GLE + SG  K      +      ST   F  G ILYG
Sbjct: 2   GEVVDQRRESIQPAGEGKNNFVGLEHIRSGETKLCEYVSDEGI--RSTKYRFYTGDILYG 59

Query: 90  KLGPYLRKAIIADFDGICSTQFLVLQPKDVL-PELLQGWLLSIDVTQRIEAICEGATMSH 148
           KL PYL KA++AD +GICST  +VL P D + PE L  ++ +    QR  +   G     
Sbjct: 60  KLRPYLDKAVLADINGICSTDLIVLTPSDRIIPEFLIYFIHTNQFIQRAVSTTSGTNHPR 119

Query: 149 ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVT 208
             WK I    M +PPL EQ  I E +          I +  + I + ++ K+ L+  ++ 
Sbjct: 120 TSWKAISKFRMALPPLEEQKRISEILQDVDGA----IEKVNKEIGVTEKLKRGLMQRLLM 175

Query: 209 KGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKL 268
           +G+N   + KDS +   G +P  W+V     L T  N K   ++    + +   N    L
Sbjct: 176 EGIN-HTEFKDSPV---GRIPVDWDVVKLGDLFTFKNGKRPPVLNEGEIPIYGANGKMGL 231

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
            +  +  K ++    ++   GE+                  V +  I T +Y       +
Sbjct: 232 TSNYLKTKDKALIFGRVGSSGEVHLSKG----------CVWVSDNAIYTESY---DSKRV 278

Query: 329 DSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
           +  ++ +L++      +           +    +    V +PP++EQ  I+ ++     R
Sbjct: 279 NVHFMFYLIK---FKDLKRFATKTTHPIITQTFINNFKVPLPPLEEQKRISEILQDVDRR 335

Query: 389 IDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
           +++L    E+ +  L+  +   +   +TG+  +R
Sbjct: 336 LELL---TERKV-KLENIKRGLMNDLLTGKRRVR 365



 Score = 62.1 bits (149), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 28/166 (16%), Positives = 51/166 (30%), Gaps = 18/166 (10%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDG 68
           ++KDS V   G IP  W VV +        G+                    G+      
Sbjct: 182 EFKDSPV---GRIPVDWDVVKLGDLFTFKNGKRPP-------------VLNEGEIPIYGA 225

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL 128
           N +   TS         +++G++G      +      +                +   ++
Sbjct: 226 NGKMGLTSNYLKTKDKALIFGRVGSSGEVHLSKGCVWVSDNAIYTE--SYDSKRVNVHFM 283

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKI 174
             +   + ++      T        I N  +P+PPL EQ  I E +
Sbjct: 284 FYLIKFKDLKRFATKTTHPIITQTFINNFKVPLPPLEEQKRISEIL 329


>gi|194436488|ref|ZP_03068589.1| type I restriction-modification enzyme S subunit [Escherichia coli
           101-1]
 gi|194424520|gb|EDX40506.1| type I restriction-modification enzyme S subunit [Escherichia coli
           101-1]
          Length = 414

 Score =  147 bits (371), Expect = 3e-33,   Method: Composition-based stats.
 Identities = 77/425 (18%), Positives = 159/425 (37%), Gaps = 35/425 (8%)

Query: 20  AIPKHWKVVPIKRFT-KLNTGRTSESGK-------DIIYIGLEDVESGTGKYLP-KDGNS 70
            +P+ W    +     K+  G               + +    ++  G  ++   +    
Sbjct: 2   KLPEGWHNKLLGDLFTKIVVGYVGNVNDHYCDAAIGVPFYRTLNIRDGYFRHDDIRYVTP 61

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQ-----FLVLQPKDVLPELLQ 125
             +D +  S      IL  ++G  L     A      S             K+  P+   
Sbjct: 62  EFNDKNKKSQIENDDILIARVGANLGMVCKATGLNRTSNMANAIIIKSKSAKNADPDFYT 121

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
            +LLS     +I A   G      + K    I +P+PPLAEQ  I + +       D  I
Sbjct: 122 YFLLSTYGKSQIYAGAAGGAQGVFNTKLTQEIAVPVPPLAEQKKIAQIL----SAWDKAI 177

Query: 186 TERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN 245
           +   + +   +++K+AL+  +++        + ++G+ + G     WEV     L+ E  
Sbjct: 178 SVTEKLLTNSQQQKKALMQQLLS---GKKRLLDENGVMFSGE----WEVVRLKQLIHEEK 230

Query: 246 RKNTKLIESNILSL-SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
           ++N       +LS+ ++   +   E  +  +  E   TY+IV   +  +    L     S
Sbjct: 231 KRNRDNHIQRVLSVTNHSGFVLPEEQFSKRVASEDVSTYKIVKKNQYGYNPSRLN--VGS 288

Query: 305 LRSAQVMERGIITSAYMAVKPHGI--DSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFED 361
                  + G+++  Y+    +    +S Y    M S +  +       G +R S+ F+ 
Sbjct: 289 FARLDNYDEGVLSPMYVVFSINHERLNSDYFLNWMSSNEAKQRIAGSTQGSVRDSVGFDA 348

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           +      +P + EQ  I  V++   A     +  +E+ +  LKE + + +   +TG+  +
Sbjct: 349 LCSFSFSLPTLMEQQKIAAVLSAADAE----ITTLEKKLACLKEEKKALMQQLLTGKRRV 404

Query: 422 RGESQ 426
           + E +
Sbjct: 405 KVEVE 409


>gi|91217916|ref|ZP_01254869.1| type I restriction-modification enzyme 1, S subunit [Psychroflexus
           torquis ATCC 700755]
 gi|91183893|gb|EAS70283.1| type I restriction-modification enzyme 1, S subunit [Psychroflexus
           torquis ATCC 700755]
          Length = 441

 Score =  147 bits (371), Expect = 3e-33,   Method: Composition-based stats.
 Identities = 69/456 (15%), Positives = 150/456 (32%), Gaps = 48/456 (10%)

Query: 1   MKHYKAYP----------------QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES 44
           M  +K Y                  YK +    +G IP+ W V  + +  + + G+    
Sbjct: 1   MSKHKQYDVATSTLLSTGLEGKRVGYKKTK---LGWIPEDWNVKSLDQLGEFSKGKGITK 57

Query: 45  GK-------DIIYIGLEDVESGTGKYLPK-DGNSRQSDTSTVSIFAKGQILYGKLGPYLR 96
                     +  +   ++ +              Q   +  +    G IL+   G  L 
Sbjct: 58  KDILEDEVGGLPCVRYAEIYTIYHYNTTVLKSKINQESAANSNPINCGDILFAGSGETLE 117

Query: 97  -----KAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADW 151
                 A +            +L+  +  P+ L     +  V  ++  I +G ++ H   
Sbjct: 118 DIGKSIAYLNKETAYAGGDICILKHHNQDPQFLGYLFNNDVVRSQLYKIGQGHSVVHIYS 177

Query: 152 KGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGL 211
            G+  + +PIPPL EQ  I   +      I        +         QAL + ++ + L
Sbjct: 178 SGLKKVSVPIPPLPEQQKIASILNTWDKAIAAQEKLIAQK--------QALKNGLMQQLL 229

Query: 212 NPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETR 271
               +      EW     +              N+    +    I ++  G +     T 
Sbjct: 230 TGKKRFAGFVEEWEEKSLNDIVKYLGGEAFKSTNQVENGVRWLKIANVGIGVVKWGDSTT 289

Query: 272 NMGLKPESYETYQIVDPGEIVFRFIDLQND---KRSLRSAQVMERGIITSAYMAVKPHGI 328
            +           ++  G+ V        +   K ++ + +     +       +  +  
Sbjct: 290 FLPTSFIDENPKYVLKAGDAVMALTRPILNDKLKIAVFNKEDGIALLNQRVAKLISKNKN 349

Query: 329 DSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           D  ++ ++ ++        AM +G    ++  +D+ +  V +P  +EQ  I +VI     
Sbjct: 350 DLKFIYYIHQTPYFIYTMNAMMAGTDPPNISIKDLAKKKVFIPGYEEQKKIVSVIESFDN 409

Query: 388 RIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
            ID L+ K +     LK+++   +   +TG+  ++G
Sbjct: 410 EIDNLINKGK----HLKKQKQGLMQQLLTGEKRVKG 441


>gi|326201156|ref|ZP_08191028.1| restriction modification system DNA specificity domain [Clostridium
           papyrosolvens DSM 2782]
 gi|325988724|gb|EGD49548.1| restriction modification system DNA specificity domain [Clostridium
           papyrosolvens DSM 2782]
          Length = 397

 Score =  147 bits (371), Expect = 3e-33,   Method: Composition-based stats.
 Identities = 73/423 (17%), Positives = 144/423 (34%), Gaps = 41/423 (9%)

Query: 8   PQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGT 60
             YK +    +G IP+ W+V  I+    + TG T   GK       ++ ++   D+    
Sbjct: 4   EGYKMTE---LGEIPQEWEVRKIEDLYSVLTGATPLRGKQEYYLNGNVAWVKTLDLNDRY 60

Query: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPY--LRKAIIADFDGICSTQFLVLQPKD 118
                +         ++  +  +G +L    G +  + +  I       +     L   +
Sbjct: 61  IYDTQEKITDLALKETSCKVQDEGTVLIAMYGGFNQIGRTGILKTKAATNQAICSLPLIE 120

Query: 119 VLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
            +      + L  +               +     +    + +PPL+EQ  I + +    
Sbjct: 121 EIYPEYLNYFLIKNRNVWRNVAASTRKDPNITKGDVEKFNIIVPPLSEQYKIADIL---- 176

Query: 179 VRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFF 238
             ID  I +    IE  +E K+ L+  ++ KG+             +G +P  WEVK   
Sbjct: 177 STIDEQIDKTDALIEKTRELKKGLMQKLLIKGIGHTEFRDT----EIGRIPKGWEVKKLE 232

Query: 239 ALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDL 298
            +V     KN K +E              +   N            + D   ++      
Sbjct: 233 EIVQICYGKNQKEVEIEGGIYKILGTGGVIGNTND----------YLWDKPSVLIGRKGT 282

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLK 358
            +    +          + + +      G  + +L + +   DL K   A G     SL 
Sbjct: 283 IDKPMYI----EEPFWTVDTLFYTKVDEGYVAKWLYYYLNKIDLKKYNEATG---VPSLS 335

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
              +  + +LVPP KEQ  I+ +++   + ID      E     L+  + + +   +TG+
Sbjct: 336 VAVLNTILILVPPFKEQQKISKILSAVDSDID----VYESKKNKLENAKKALMNHLLTGK 391

Query: 419 IDL 421
           I +
Sbjct: 392 IRV 394


>gi|295394613|ref|ZP_06804832.1| type I restriction-mod [Brevibacterium mcbrellneri ATCC 49030]
 gi|294972506|gb|EFG48362.1| type I restriction-mod [Brevibacterium mcbrellneri ATCC 49030]
          Length = 388

 Score =  147 bits (371), Expect = 3e-33,   Method: Composition-based stats.
 Identities = 70/409 (17%), Positives = 142/409 (34%), Gaps = 36/409 (8%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGN-SRQSDTSTVSIFAK 83
           W+ VP     +    RT    ++++ +     E G  +   +D N +R  + +   +   
Sbjct: 4   WQSVPFHTLFRRVPKRTGFPAEELLSV---YREYGVIRKSDRDDNFNRPGNLNDYQLVKT 60

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
           G ++  K+  +     I+   GI S  + V  P     E    + L         A    
Sbjct: 61  GDLVLNKMKAWQGSLGISPHTGIVSPAYFVYTPVSDNDESFLHYALRCRDAVDYYAAHST 120

Query: 144 ---ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
                      + +  +P+P+P LA Q  I + +  E   ++ LI E  R  +L+  ++ 
Sbjct: 121 GIRVNQWDVSPEWLDAMPVPVPDLATQRRIVDYLDKEISEMNALIEEVQRLTKLVIARRD 180

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
           A                  +    +  +P        F  V +        +E     L 
Sbjct: 181 A------------------TAGSLLADLP--VAPVSMFWRVIDCLHITAPFVEVGTNFLV 220

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVD-------PGEIVFRFIDLQNDKRSLRSAQVMER 313
               +               ET+ I+        PG+++    +    K S+        
Sbjct: 221 SIEQLGHRNLDLTRANRTDDETFSILRVGDRKPAPGDVIMSR-NASVGKCSIVRETDPPI 279

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPI 372
            +     +  K    DS  L   + S  + +           + +    +K+LP  V  +
Sbjct: 280 ALGQDVVIFKKNDKHDSRLLLHFLGSDVIKRTIEMSTVGSTLKRINVGTIKKLPYPVATL 339

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           ++Q +I + ++ E  R+D L+E+  + I  LK  +++ I   VTG+ ++
Sbjct: 340 EKQREIADELDREFMRMDSLIEESTRLIENLKAHKTALITEVVTGRKEV 388


>gi|312973901|ref|ZP_07788072.1| type I restriction modification DNA specificity domain protein
           [Escherichia coli 1827-70]
 gi|310331435|gb|EFP98691.1| type I restriction modification DNA specificity domain protein
           [Escherichia coli 1827-70]
          Length = 426

 Score =  147 bits (370), Expect = 3e-33,   Method: Composition-based stats.
 Identities = 76/431 (17%), Positives = 163/431 (37%), Gaps = 35/431 (8%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESG----KDIIYIGLEDVESGTG--KYLPKDGNSRQSD 74
           +PK W    +        G    S     + I  + + D    +                
Sbjct: 2   VPKGWSESYLGEVVTYKKGYAFNSSLYAEEGIRIVRISDTTRDSIHSDNPVFIAGGNVEG 61

Query: 75  TSTVSIFAKGQILYGKLGPYLR----------KAIIADFDGICSTQFLVLQPKD--VLPE 122
               S+F    I+   +G              K   +  + + +   + L PK   +  E
Sbjct: 62  LEQYSLFE-NDIILSTVGSRPHLLDSMVGKAVKVPRSAHNSLLNQNLVKLIPKKTKITNE 120

Query: 123 LLQGWLLSIDVTQRIEAICEGA-TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
            L   L + +  Q I  +  G           +      +P L EQ  I + +      I
Sbjct: 121 YLFSMLKTKEFIQFISNLVRGNANQVSITLADLFKYKFILPSLPEQKKIAQILSTWDKAI 180

Query: 182 DTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALV 241
                      +  K   Q L++     GL       +  I   G +P  W+      + 
Sbjct: 181 SVTEKLLTNSQQQKKALMQQLLTGKKRLGLPAGSY--EFKITRYGSIPKDWDYPAIKEIC 238

Query: 242 TELNRKNTKLIESNILSLSYGN-IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQN 300
           T+++ KN+  ++  +LS S  +  +  L+  N  +  +    Y+++  G   F F     
Sbjct: 239 TQVSEKNSAAVDHPVLSCSKHDGFVDSLKYFNKKVYSDDLSGYRLIHRG--CFGFPSNHI 296

Query: 301 DKRSLRSAQVMERGIITSAYMAVK--PHGIDSTYLAWLMRSYDLCKVFYAMGSGL---RQ 355
           ++ S+    + + GI++  Y+  +  P  +D++YL  ++++    ++F A  +     R 
Sbjct: 297 EEGSIGLQNLYDTGIVSPIYVVFRASPTKVDNSYLYAVLKTDHYKQIFGAATNASVDRRG 356

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           SL++++  ++ V +PP+KEQ  I+ V++   A     +  +E+ +  LK+ + + +   +
Sbjct: 357 SLRWKEFNQIHVPLPPLKEQQKISAVLSAADAE----ITTLEKKLACLKDEKKALMQQLL 412

Query: 416 TGQIDLR-GES 425
           TG+  ++  E+
Sbjct: 413 TGKRRVKVDEA 423



 Score = 50.9 bits (120), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 38/192 (19%), Positives = 61/192 (31%), Gaps = 7/192 (3%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           G+IPK W    IK      + +   +  D   +     +         +      D S  
Sbjct: 223 GSIPKDWDYPAIKEICTQVSEKN-SAAVDHPVLSCSKHDGFVDSLKYFNKKVYSDDLSGY 281

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFD--GICSTQFLVLQ--PKDVLPELLQGWLLSIDVT 134
            +  +G   +           + +    GI S  ++V +  P  V    L   L +    
Sbjct: 282 RLIHRGCFGFPSNHIEEGSIGLQNLYDTGIVSPIYVVFRASPTKVDNSYLYAVLKTDHYK 341

Query: 135 QRIEAICEG--ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           Q   A             WK    I +P+PPL EQ  I   + A    I TL  +     
Sbjct: 342 QIFGAATNASVDRRGSLRWKEFNQIHVPLPPLKEQQKISAVLSAADAEITTLEKKLACLK 401

Query: 193 ELLKEKKQALVS 204
           +  K   Q L++
Sbjct: 402 DEKKALMQQLLT 413


>gi|213580643|ref|ZP_03362469.1| EcoKI restriction-modification system protein HsdS [Salmonella
           enterica subsp. enterica serovar Typhi str. E98-0664]
          Length = 468

 Score =  147 bits (370), Expect = 4e-33,   Method: Composition-based stats.
 Identities = 66/417 (15%), Positives = 148/417 (35%), Gaps = 18/417 (4%)

Query: 19  GAIPKHWKVVPIKRFTKL-NTGRTSESGK--DIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           G +P+ W    +         G T++S    D+ ++   D+  G   +          + 
Sbjct: 10  GKLPEGWVTTHLSEICSKPQYGYTTKSSSMGDVKFLRTTDITKGAVDWSSVPYCMDAPED 69

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDG---ICSTQFLVLQPKDVLPELLQGWLLSID 132
            +        I+  + G      ++ +        S               L+ +L S D
Sbjct: 70  VSKYQLQDRDIVISRAGSVGFSFLVQNPPSQVVFASYLIRFKPVNYFSEYYLKRFLESSD 129

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
              ++  +  G  + + + + +  + +PIPP+AEQ +I EK+     ++D+      +  
Sbjct: 130 YWNQLSLMSAGNAVQNVNAQKLSTLTVPIPPIAEQKIIAEKLDTLLAQVDSTKARLEQIP 189

Query: 193 ELLKEKKQALVSYIVTKGL----NPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN 248
           ++LK  +QA+++  V+  L      +     S  +W   +P  W V  +  LV     K 
Sbjct: 190 QILKRFRQAVLAAAVSGLLIGSNKRNHHPLCSEWQW-PDLPSTWSVHKYSELVDSRLGKM 248

Query: 249 TKLIESNILSLSYGNIIQ------KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK 302
               ++   +  Y   I        LE     L  +       +  G+++          
Sbjct: 249 LDKAKNFGSATKYLGNINVRWFSFDLENLQDILISDIERRELSLKLGDVLICEGGEPGRC 308

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY-DLCKVFYAMGSGLRQSLKFED 361
                 Q +      + + A     I   +L + +++  +   +         + L  + 
Sbjct: 309 AIWSEPQDIPVIFQKALHRARVKDKIIPEWLVYNLKNDSNNISLSQLFTGTTIKHLTGKA 368

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           +   P+ VPP++EQ +I   +    A  D + +++  ++  +     S +A A  G+
Sbjct: 369 LANYPIRVPPLEEQHEIVRRVEQLFAWADTIEKQVNNALNRVNSLTQSILAKAFRGE 425


>gi|268316651|ref|YP_003290370.1| restriction modification system DNA specificity domain-containing
           protein [Rhodothermus marinus DSM 4252]
 gi|262334185|gb|ACY47982.1| restriction modification system DNA specificity domain protein
           [Rhodothermus marinus DSM 4252]
          Length = 444

 Score =  147 bits (370), Expect = 4e-33,   Method: Composition-based stats.
 Identities = 78/436 (17%), Positives = 161/436 (36%), Gaps = 30/436 (6%)

Query: 8   PQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES--GKDIIYIGLEDVESGTGKYLP 65
           P Y+ +    +G +P+ W+VV +         +  E+    D +Y  L       G  L 
Sbjct: 10  PGYRMTE---LGPLPEEWRVVRLGEVLTPVYKKLRETLVEDDKVYRLLTVRLYAKGITLR 66

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD---FDGICSTQFLVLQPKDV--L 120
            +    +  T  +     G  ++ K+                G+ S  F +L  +     
Sbjct: 67  SEEKGNRIKTKKLYCTKSGDFVFSKIDARNGAWGFVTDELEGGLVSGDFPILTLERHKAD 126

Query: 121 PELLQGWLLSIDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
              ++  L    V + +  I  G T         +  + + +PPLAEQ  I   +     
Sbjct: 127 QSFIELQLAQPTVWEPLRNIAVGTTNRRRLHTFQLLQVAVALPPLAEQRAIAHVL----R 182

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEW--VGLVPDHWEVKPF 237
            +        R I  LKE K++L+ ++ T G  P  + +   ++   +G +P HW V   
Sbjct: 183 TVQEAKEATERVIAALKELKRSLMRHLFTYGPVPLDQTEAVELQETEIGPLPTHWRVVRL 242

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK--PESYETYQIVDPGEIVFRF 295
             +    +R   +L +  +  +    I +     +   K  P+   +  +V  G+++   
Sbjct: 243 EEVANIGHRGQKRLFQVQVPFIPMALIPEDGLYLDKWEKRAPQDVRSGVLVKNGDLLLAK 302

Query: 296 IDLQ--NDKRSLRSAQVMERGIITSAYMAVKPHGI---DSTYLAWLMRSYDLCKVFYAM- 349
           I     N K+ +        G  T+    + P         +LA+ ++  ++ +   +  
Sbjct: 303 ITPCFENGKQGIVRNLPDGWGYATTEVFPIYPKDHQRLLLEFLAYYLKVENVRQALASKM 362

Query: 350 -GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
            G+  RQ L    +    + +PP+ EQ +I  ++    AR    +E  E+    L+    
Sbjct: 363 EGTTGRQRLPKAVLIECKIPLPPLPEQQEIARMLQAVDAR----IEAEEKKKAALEALFK 418

Query: 409 SFIAAAVTGQIDLRGE 424
           + +   +T ++ +  E
Sbjct: 419 TLLHHLMTAKVRVPEE 434


>gi|167627752|ref|YP_001678252.1| type I restriction-modification system subunit S [Francisella
           philomiragia subsp. philomiragia ATCC 25017]
 gi|167597753|gb|ABZ87751.1| type I restriction-modification system, subunit S [Francisella
           philomiragia subsp. philomiragia ATCC 25017]
          Length = 407

 Score =  146 bits (369), Expect = 5e-33,   Method: Composition-based stats.
 Identities = 58/414 (14%), Positives = 135/414 (32%), Gaps = 24/414 (5%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSES--------GKDIIYIGLEDVESGTGKYLPKD-G 68
           +  +P  W+   +        G   ++         K I  +   ++   +      +  
Sbjct: 4   LYKLPAGWEWKKLGEECLFENGDRGKNYPSKSAFVSKGIPVVSATNLTGWSIDRSKLNFI 63

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFD--GICSTQFLVLQPKDVLPELLQG 126
              + +        K  IL+   G   + A++ D +   I S+  ++   +++    L  
Sbjct: 64  TEERYNLIGGGKIKKNDILFCLRGSLGKCALVTDIERGVIASSLVIIRTCENLSNIFLMY 123

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           +L S  +   I     GA   +   K +    +P+PPLAEQ  I  K+ +   +ID  I 
Sbjct: 124 YLNSHLIQDFINKYNNGAAQPNLSAKNLSLFNIPLPPLAEQKRIVAKLDSLFEKIDKAIE 183

Query: 187 ERIRFIELLKEKKQALVSYIVTK--GLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTEL 244
              + I        + +     K  G    + +        G  P     + +       
Sbjct: 184 LHQQNITNANTLMASTLDKTFKKLEGEYSLIPLHKITTAVGGGTPKRNIKEYWGNGEIVW 243

Query: 245 NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
                      IL++       +     +     S  + +++  G +++           
Sbjct: 244 LSPTDLGAIGEILNI-------RESRDKITELGLSKSSARLLPVGTVLYSSRATIGKIAI 296

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKR 364
                   +G             I + +LA+ + +    ++     S   + +    +K+
Sbjct: 297 NEIEVCTNQGFTN---FICDKDKIYNYFLAYSL-AKYTEEITSLSNSTTFKEVSKTSIKK 352

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
             + +PP+  Q      ++    ++D + +  EQ +  LK  ++S +  A  G+
Sbjct: 353 FEIPLPPLPIQQQTVEYLDSIATKVDKIKQLNEQKLENLKALKASILDKAFRGE 406



 Score = 94.9 bits (234), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 28/195 (14%), Positives = 65/195 (33%), Gaps = 14/195 (7%)

Query: 224 WVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS-----------YGNIIQKLETRN 272
            +  +P  WE K         N    K   S    +S            G  I + +   
Sbjct: 3   ELYKLPAGWEWKKLGEECLFENGDRGKNYPSKSAFVSKGIPVVSATNLTGWSIDRSKLNF 62

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
           +  +  +      +   +I+F           +   +     I +S  +      + + +
Sbjct: 63  ITEERYNLIGGGKIKKNDILFCLRGSLGKCALVTDIERG--VIASSLVIIRTCENLSNIF 120

Query: 333 LAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
           L + + S+ +        +G  + +L  +++    + +PP+ EQ  I   ++    +ID 
Sbjct: 121 LMYYLNSHLIQDFINKYNNGAAQPNLSAKNLSLFNIPLPPLAEQKRIVAKLDSLFEKIDK 180

Query: 392 LVEKIEQSIVLLKER 406
            +E  +Q+I      
Sbjct: 181 AIELHQQNITNANTL 195


>gi|19881261|gb|AAM00867.1|AF486554_3 HsdS [Campylobacter jejuni]
          Length = 397

 Score =  146 bits (369), Expect = 5e-33,   Method: Composition-based stats.
 Identities = 65/406 (16%), Positives = 126/406 (31%), Gaps = 27/406 (6%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           +P+ WKV  +   +++ TG T         GKD  +    D E G         N  +  
Sbjct: 10  LPQGWKVKTLSEISEIVTGSTPSKSNLDFYGKDYPFFKPSDFEQGYF-LENAGDNLSKLG 68

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP-KDVLPELLQGWLLSIDV 133
                      IL   +G  L K  +    G C+ Q   + P K+++ E +  + +S   
Sbjct: 69  FDKARQLPPKTILVVCIGS-LGKVALTRVIGSCNQQINAIIPHKNIIAEYIYYYCISSKF 127

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRIDTLITERIRFI 192
              + +     T++  +      + +  P  + EQ  I   +      ID  I    + +
Sbjct: 128 QSILFSKAPQTTLAILNKTEFSKLEIIYPKDIKEQERIVRILDESFANIDESIKILEQDL 187

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
             L E  Q+ +        +          +    +P  WE K    +   ++    K  
Sbjct: 188 LNLDELMQSALQKAFNPLKD--------NAKENYKLPQGWEWKSLEEISENISAGGDKPK 239

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
                  +   I       N        +   I+ P       I  +     +   +   
Sbjct: 240 NCTESKTAKNQIPVYANGVNNNGLVGYTDKATIIKPS----LTISARGTIGFVCIRKEPY 295

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI 372
             I+    +    + +   YL + +                   L     K L + +PP+
Sbjct: 296 FPIVRLISLIPCENILCLHYLYFCLN-----FFIAKGEGSSIPQLTIPKFKSLQIPLPPL 350

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           KEQ  I   ++    +   L E   + +   +E + S +  A  G+
Sbjct: 351 KEQEQIAKHLDFVFEKTKALKELYTKELKDYEELKQSLLNKAFKGE 396



 Score = 53.6 bits (127), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 26/193 (13%), Positives = 66/193 (34%), Gaps = 10/193 (5%)

Query: 20  AIPKHWKVVPIKRFTK-LNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
            +P+ W+   ++  ++ ++ G              +  ++    Y     N+     +  
Sbjct: 214 KLPQGWEWKSLEEISENISAGGDKPKN----CTESKTAKNQIPVYANGVNNNGLVGYTDK 269

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           +   K  +     G      I  +       + + L P + +  L   +        + E
Sbjct: 270 ATIIKPSLTISARGTIGFVCIRKEPYFPI-VRLISLIPCENILCLHYLYFCLNFFIAKGE 328

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
               G+++         ++ +P+PPL EQ  I + +     +   L     + ++  +E 
Sbjct: 329 ----GSSIPQLTIPKFKSLQIPLPPLKEQEQIAKHLDFVFEKTKALKELYTKELKDYEEL 384

Query: 199 KQALVSYIVTKGL 211
           KQ+L++      L
Sbjct: 385 KQSLLNKAFKGEL 397


>gi|19881224|gb|AAM00836.1|AF486548_3 HsdS [Campylobacter jejuni]
          Length = 395

 Score =  146 bits (368), Expect = 6e-33,   Method: Composition-based stats.
 Identities = 62/406 (15%), Positives = 125/406 (30%), Gaps = 27/406 (6%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESG------KDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           +P+ W+V  +    ++ TG T          KD  +    D E G         N  +  
Sbjct: 8   LPQGWEVKTLSEIGEIITGSTPSKSNVEFYRKDYPFFKPSDFEQGYF-LENAGDNLSKLG 66

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP-KDVLPELLQGWLLSIDV 133
                      IL   +G  L K  +    G C+ Q   + P K+++ E +  + +S   
Sbjct: 67  FGKARQLPPKTILVVCIGS-LGKVALTRVIGSCNQQINAIIPHKNIISEYIYYYCISSKF 125

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRIDTLITERIRFI 192
              + +     T++  +      + +  P  + EQ  I   +     +ID  I +    +
Sbjct: 126 QSILFSKAPQTTLAIFNKTEFSKLEIIYPKDIKEQERIVGILDFAFSKIDENIKKAKENL 185

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
             + E  Q+ +        +          +    +P  WE K    +   ++    K  
Sbjct: 186 ANIDELMQSALQKAFNPLKD--------NAKENYKLPQSWEWKSLEEISENISAGGDKPK 237

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
                  +   I       N        +   I+ P       I  +     +   +   
Sbjct: 238 NCTESKTAKNQIPVYANGVNNNGLVGYTDKATIIKPS----LTISARGTIGFVCIRKEPY 293

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI 372
             I+    +    + +   YL + +                   L     K L + +PP+
Sbjct: 294 FPIVRLISLIPCENILCLHYLYFCLN-----FFIAKGEGSSIPQLTIPKFKSLQIPLPPL 348

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           KEQ  I   ++    +   L E   + +   +E + S +  A  G+
Sbjct: 349 KEQEQIAEHLDFVFEKAKALKELYTKELKDYEELKQSLLNKAFKGE 394



 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 27/193 (13%), Positives = 66/193 (34%), Gaps = 10/193 (5%)

Query: 20  AIPKHWKVVPIKRFTK-LNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
            +P+ W+   ++  ++ ++ G              +  ++    Y     N+     +  
Sbjct: 212 KLPQSWEWKSLEEISENISAGGDKPKN----CTESKTAKNQIPVYANGVNNNGLVGYTDK 267

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           +   K  +     G      I  +       + + L P + +  L   +        + E
Sbjct: 268 ATIIKPSLTISARGTIGFVCIRKEPYFPI-VRLISLIPCENILCLHYLYFCLNFFIAKGE 326

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
               G+++         ++ +P+PPL EQ  I E +     +   L     + ++  +E 
Sbjct: 327 ----GSSIPQLTIPKFKSLQIPLPPLKEQEQIAEHLDFVFEKAKALKELYTKELKDYEEL 382

Query: 199 KQALVSYIVTKGL 211
           KQ+L++      L
Sbjct: 383 KQSLLNKAFKGEL 395


>gi|168821023|ref|ZP_02833023.1| subunit S of type I restriction-modification system [Salmonella
           enterica subsp. enterica serovar Weltevreden str.
           HI_N05-537]
 gi|205342187|gb|EDZ28951.1| subunit S of type I restriction-modification system [Salmonella
           enterica subsp. enterica serovar Weltevreden str.
           HI_N05-537]
 gi|320088959|emb|CBY98715.1| subunit S of type I restriction-modification system [Salmonella
           enterica subsp. enterica serovar Weltevreden str.
           2007-60-3289-1]
          Length = 462

 Score =  146 bits (368), Expect = 6e-33,   Method: Composition-based stats.
 Identities = 66/417 (15%), Positives = 148/417 (35%), Gaps = 18/417 (4%)

Query: 19  GAIPKHWKVVPIKRFTKL-NTGRTSESGK--DIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           G +P+ W    +         G T++S    D+ ++   D+  G   +          + 
Sbjct: 4   GKLPEGWVTTHLSEICSKPQYGYTTKSSSMGDVKFLRTTDITKGAVDWSSVPYCMDAPED 63

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDG---ICSTQFLVLQPKDVLPELLQGWLLSID 132
            +        I+  + G      ++ +        S               L+ +L S D
Sbjct: 64  VSKYQLQDRDIVISRAGSVGFSFLVQNPPSQVVFASYLIRFKPVNYFSEYYLKRFLESSD 123

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
              ++  +  G  + + + + +  + +PIPP+AEQ +I EK+     ++D+      +  
Sbjct: 124 YWNQLSLMSAGNAVQNVNAQKLSTLTVPIPPIAEQKIIAEKLDTLLAQVDSTKARLEQIP 183

Query: 193 ELLKEKKQALVSYIVTKGL----NPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN 248
           ++LK  +QA+++  V+  L      +     S  +W   +P  W V  +  LV     K 
Sbjct: 184 QILKRFRQAVLAAAVSGLLIGSNKRNHHPLCSEWQW-PDLPSTWSVHKYSELVDSRLGKM 242

Query: 249 TKLIESNILSLSYGNIIQ------KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK 302
               ++   +  Y   I        LE     L  +       +  G+++          
Sbjct: 243 LDKAKNFGSATKYLGNINVRWFSFDLENLQDILISDIERRELSLKLGDVLICEGGEPGRC 302

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY-DLCKVFYAMGSGLRQSLKFED 361
                 Q +      + + A     I   +L + +++  +   +         + L  + 
Sbjct: 303 AIWSEPQDIPVIFQKALHRARVKDKIIPEWLVYNLKNDSNNISLSQLFTGTTIKHLTGKA 362

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           +   P+ VPP++EQ +I   +    A  D + +++  ++  +     S +A A  G+
Sbjct: 363 LANYPIRVPPLEEQHEIVRRVEQLFAWADTIEKQVNNALTRVNSLTQSILAKAFRGE 419


>gi|257440746|ref|ZP_05616501.1| type I restriction-modification [Faecalibacterium prausnitzii
           A2-165]
 gi|257196807|gb|EEU95091.1| type I restriction-modification [Faecalibacterium prausnitzii
           A2-165]
          Length = 275

 Score =  146 bits (368), Expect = 6e-33,   Method: Composition-based stats.
 Identities = 63/273 (23%), Positives = 122/273 (44%), Gaps = 14/273 (5%)

Query: 161 IPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDS 220
           +PP   Q+   + + A+   IDT++++    IE  K+ KQA+++  VTKG+  + +MKD 
Sbjct: 5   LPPKEIQIRSAQYLNAKCTEIDTMLSKTRSSIEEYKKLKQAVITQAVTKGVRGEREMKDC 64

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNR-------KNTKLIESNILSLSYGNIIQKLETRNM 273
           G+EW GLVP HW V    ++    +        +++   ++ I  +   ++       + 
Sbjct: 65  GVEWAGLVPHHWGVAKIGSIGQTSSGATPLRSKESSFFDDATIRWVRTLDLNDGFVYDSS 124

Query: 274 GLKPE---SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
               E   +     I+  G +                  +M       A  ++  +    
Sbjct: 125 EKITELALASSACSIMPKGTVCVAMYGGAGTIGKCG--LLMSDCATNQAVCSIVCNRKIV 182

Query: 331 TYLAWLMRSYDLCKVFYAMGSGLR--QSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
           + +  LM+   L   +     G R   ++  + V R+ +L+PP+ EQ +IT+ ++ + A 
Sbjct: 183 SPIFLLMQLLALKPYWMKYAVGTRKDPNISQDIVARMKILIPPLDEQKEITDYLDAKCAE 242

Query: 389 IDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           ID L+ K EQ +  L+  + S I   VTG+ ++
Sbjct: 243 IDKLIAKKEQLVKELESYKKSLIYEVVTGKREV 275



 Score = 91.0 bits (224), Expect = 3e-16,   Method: Composition-based stats.
 Identities = 42/210 (20%), Positives = 81/210 (38%), Gaps = 11/210 (5%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKD--------IIYIGLEDVESGT 60
           + KD GV+W G +P HW V  I    + ++G T    K+        I ++   D+  G 
Sbjct: 60  EMKDCGVEWAGLVPHHWGVAKIGSIGQTSSGATPLRSKESSFFDDATIRWVRTLDLNDGF 119

Query: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLG--PYLRKAIIADFDGICSTQFLVLQPKD 118
                +        +S  SI  KG +     G    + K  +   D   +     +    
Sbjct: 120 VYDSSEKITELALASSACSIMPKGTVCVAMYGGAGTIGKCGLLMSDCATNQAVCSIVCNR 179

Query: 119 VLPELLQGWLLSIDVTQRIEAICEG-ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
            +   +   +  + +         G     +     +  + + IPPL EQ  I + + A+
Sbjct: 180 KIVSPIFLLMQLLALKPYWMKYAVGTRKDPNISQDIVARMKILIPPLDEQKEITDYLDAK 239

Query: 178 TVRIDTLITERIRFIELLKEKKQALVSYIV 207
              ID LI ++ + ++ L+  K++L+  +V
Sbjct: 240 CAEIDKLIAKKEQLVKELESYKKSLIYEVV 269



 Score = 61.0 bits (146), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 18/63 (28%), Positives = 31/63 (49%), Gaps = 4/63 (6%)

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT-GQIDLRG 423
           + + +PP + Q      +N +   ID ++ K   SI   K+ + + I  AVT G   +RG
Sbjct: 1   MLLALPPKEIQIRSAQYLNAKCTEIDTMLSKTRSSIEEYKKLKQAVITQAVTKG---VRG 57

Query: 424 ESQ 426
           E +
Sbjct: 58  ERE 60


>gi|21229244|ref|NP_635166.1| type I restriction-modification system specificity subunit
           [Methanosarcina mazei Go1]
 gi|20907818|gb|AAM32838.1| type I restriction-modification system specificity subunit
           [Methanosarcina mazei Go1]
          Length = 398

 Score =  146 bits (368), Expect = 6e-33,   Method: Composition-based stats.
 Identities = 59/415 (14%), Positives = 141/415 (33%), Gaps = 39/415 (9%)

Query: 20  AIPKHWKVVPIKRFTKLN---TGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            +P+ W+   +    ++N     ++     ++ ++ ++ +E  TG        S +  + 
Sbjct: 4   KLPEGWEWKKLGEIAEINPKFDKKSVSESTEVTFLPMKCIEELTGNVDTSITKSLEEVSK 63

Query: 77  TVSIFAKGQILYGKLGPYLRKA------IIADFDGICSTQFLVLQPKDV-LPELLQGWLL 129
             +   +  ++Y K+ P +          + +  G  ST+F V++ K     +    +L+
Sbjct: 64  GYTPLIENDLIYAKITPCMENGKAAIATGLKNNLGFASTEFHVIRFKKNAYNKFFFFYLI 123

Query: 130 SIDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
              + +       G+          + N+ +P+PPL  Q  I   +              
Sbjct: 124 QKRIREHAAMNMTGSAGQKRVPATFLKNLLVPLPPLETQQKIVSILEKAEET-------- 175

Query: 189 IRFIELLKEKKQALVSY-IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK 247
            +      E  Q L+    +    +P    ++  +  +G + +       +      +R 
Sbjct: 176 RKLRAQADELTQKLLQSVFLEMFGDPVKNSREWKLHKLGEIGN-------WTSGGTPSRS 228

Query: 248 NTKLIESNILSLSYG---NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
             +     I   + G   +         +  +  +  + ++   G ++    D    K  
Sbjct: 229 MPEYFHGEIPWFTAGELNDSYVYGSKEKITKEALNSSSAKLFPAGTMLIGMYDTAAFKMG 288

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVK 363
           +    +        A  A  P       L  L    ++   F +   G+ +++L    +K
Sbjct: 289 I----LKNPASSNQACAAFSPKVEVINTLFALYLFKEMKDSFLSQRRGIRQKNLSQSIIK 344

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           +  V VPPI+ Q    +       +ID + E  +QS +       + +  A TG+
Sbjct: 345 KFEVPVPPIELQKQFAD----MVQKIDQIKESQKQSSLETNNLFDALMQKAFTGK 395



 Score = 71.4 bits (173), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 28/194 (14%), Positives = 56/194 (28%), Gaps = 10/194 (5%)

Query: 24  HWKVVPIKRFTKLNTGRTSESG------KDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
            WK+  +       +G T           +I +    ++         +       ++S+
Sbjct: 207 EWKLHKLGEIGNWTSGGTPSRSMPEYFHGEIPWFTAGELNDSYVYGSKEKITKEALNSSS 266

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
             +F  G +L G       K  I       +       PK  +   L    L  ++    
Sbjct: 267 AKLFPAGTMLIGMYDTAAFKMGILKNPASSNQACAAFSPKVEVINTLFALYLFKEMKDSF 326

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
            +   G    +     I    +P+PP+  Q    +       +ID +   + +       
Sbjct: 327 LSQRRGIRQKNLSQSIIKKFEVPVPPIELQKQFAD----MVQKIDQIKESQKQSSLETNN 382

Query: 198 KKQALVSYIVTKGL 211
              AL+    T  L
Sbjct: 383 LFDALMQKAFTGKL 396



 Score = 69.1 bits (167), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 27/200 (13%), Positives = 70/200 (35%), Gaps = 18/200 (9%)

Query: 226 GLVPDHWEVKPFFALVTELNR--KNTKLIESNILSLSYGNI---IQKLETRNMGLKPESY 280
             +P+ WE K    +     +  K +    + +  L    I      ++T       E  
Sbjct: 3   NKLPEGWEWKKLGEIAEINPKFDKKSVSESTEVTFLPMKCIEELTGNVDTSITKSLEEVS 62

Query: 281 ETYQIVDPGEIVFRFID--LQNDKRSLRSAQVMERGIITS--AYMAVKPHGIDSTYLAWL 336
           + Y  +   ++++  I   ++N K ++ +      G  ++    +  K +  +  +  +L
Sbjct: 63  KGYTPLIENDLIYAKITPCMENGKAAIATGLKNNLGFASTEFHVIRFKKNAYNKFFFFYL 122

Query: 337 M-RSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
           + +           GS  ++ +    +K L V +PP++ Q  I +++           E+
Sbjct: 123 IQKRIREHAAMNMTGSAGQKRVPATFLKNLLVPLPPLETQQKIVSILEKA--------EE 174

Query: 396 IEQSIVLLKERRSSFIAAAV 415
             +      E     + +  
Sbjct: 175 TRKLRAQADELTQKLLQSVF 194


>gi|16763331|ref|NP_458948.1| EcoKI restriction-modification system protein HsdS [Salmonella
           enterica subsp. enterica serovar Typhi str. CT18]
 gi|29144809|ref|NP_808151.1| EcoKI restriction-modification system protein HsdS [Salmonella
           enterica subsp. enterica serovar Typhi str. Ty2]
 gi|56416308|ref|YP_153383.1| EcoKI restriction-modification system protein HsdS [Salmonella
           enterica subsp. enterica serovar Paratyphi A str. ATCC
           9150]
 gi|197365231|ref|YP_002144868.1| EcoKI restriction-modification system protein HsdS [Salmonella
           enterica subsp. enterica serovar Paratyphi A str.
           AKU_12601]
 gi|213052555|ref|ZP_03345433.1| EcoKI restriction-modification system protein HsdS [Salmonella
           enterica subsp. enterica serovar Typhi str. E00-7866]
 gi|213864869|ref|ZP_03386988.1| EcoKI restriction-modification system protein HsdS [Salmonella
           enterica subsp. enterica serovar Typhi str. M223]
 gi|289825441|ref|ZP_06544672.1| EcoKI restriction-modification system protein HsdS [Salmonella
           enterica subsp. enterica serovar Typhi str. E98-3139]
 gi|25289196|pir||AB1069 chain S of type I restriction-modification system [imported] -
           Salmonella enterica subsp. enterica serovar Typhi
           (strain CT18)
 gi|16505640|emb|CAD03369.1| subunit S of type I restriction-modification system [Salmonella
           enterica subsp. enterica serovar Typhi]
 gi|29140448|gb|AAO72011.1| subunit S of type I restriction-modification system [Salmonella
           enterica subsp. enterica serovar Typhi str. Ty2]
 gi|56130565|gb|AAV80071.1| subunit S of type I restriction-modification system [Salmonella
           enterica subsp. enterica serovar Paratyphi A str. ATCC
           9150]
 gi|197096708|emb|CAR62331.1| subunit S of type I restriction-modification system [Salmonella
           enterica subsp. enterica serovar Paratyphi A str.
           AKU_12601]
          Length = 462

 Score =  146 bits (368), Expect = 6e-33,   Method: Composition-based stats.
 Identities = 66/417 (15%), Positives = 148/417 (35%), Gaps = 18/417 (4%)

Query: 19  GAIPKHWKVVPIKRFTKL-NTGRTSESGK--DIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           G +P+ W    +         G T++S    D+ ++   D+  G   +          + 
Sbjct: 4   GKLPEGWVTTHLSEICSKPQYGYTTKSSSMGDVKFLRTTDITKGAVDWSSVPYCMDAPED 63

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDG---ICSTQFLVLQPKDVLPELLQGWLLSID 132
            +        I+  + G      ++ +        S               L+ +L S D
Sbjct: 64  VSKYQLQDRDIVISRAGSVGFSFLVQNPPSQVVFASYLIRFKPVNYFSEYYLKRFLESSD 123

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
              ++  +  G  + + + + +  + +PIPP+AEQ +I EK+     ++D+      +  
Sbjct: 124 YWNQLSLMSAGNAVQNVNAQKLSTLTVPIPPIAEQKIIAEKLDTLLAQVDSTKARLEQIP 183

Query: 193 ELLKEKKQALVSYIVTKGL----NPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN 248
           ++LK  +QA+++  V+  L      +     S  +W   +P  W V  +  LV     K 
Sbjct: 184 QILKRFRQAVLAAAVSGLLIGSNKRNHHPLCSEWQW-PDLPSTWSVHKYSELVDSRLGKM 242

Query: 249 TKLIESNILSLSYGNIIQ------KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK 302
               ++   +  Y   I        LE     L  +       +  G+++          
Sbjct: 243 LDKAKNFGSATKYLGNINVRWFSFDLENLQDILISDIERRELSLKLGDVLICEGGEPGRC 302

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY-DLCKVFYAMGSGLRQSLKFED 361
                 Q +      + + A     I   +L + +++  +   +         + L  + 
Sbjct: 303 AIWSEPQDIPVIFQKALHRARVKDKIIPEWLVYNLKNDSNNISLSQLFTGTTIKHLTGKA 362

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           +   P+ VPP++EQ +I   +    A  D + +++  ++  +     S +A A  G+
Sbjct: 363 LANYPIRVPPLEEQHEIVRRVEQLFAWADTIEKQVNNALNRVNSLTQSILAKAFRGE 419


>gi|313896063|ref|ZP_07829617.1| conserved hypothetical protein [Selenomonas sp. oral taxon 137 str.
           F0430]
 gi|320529368|ref|ZP_08030456.1| conserved domain protein [Selenomonas artemidis F0399]
 gi|312975488|gb|EFR40949.1| conserved hypothetical protein [Selenomonas sp. oral taxon 137 str.
           F0430]
 gi|320138334|gb|EFW30228.1| conserved domain protein [Selenomonas artemidis F0399]
          Length = 223

 Score =  146 bits (368), Expect = 7e-33,   Method: Composition-based stats.
 Identities = 70/213 (32%), Positives = 112/213 (52%), Gaps = 2/213 (0%)

Query: 214 DVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNM 273
               K +   W+  VP HW       L      KN    E NILSL+   +++    + +
Sbjct: 4   YKTYKTTDQSWLTNVPKHWGYVKCKTLFATQTEKNKNNEEGNILSLTLQGVVRNNREKPI 63

Query: 274 GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI-DSTY 332
           GL P  Y TYQI +  ++VF+ IDL+N   S R   V ERGI++SAY+ +      ++ Y
Sbjct: 64  GLSPSDYRTYQIFEKDDLVFKLIDLENISTS-RVGLVPERGIMSSAYIRLSAKCDINTRY 122

Query: 333 LAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
             +      L ++F  +G+G+RQ+L   D+  + ++VPP  EQ  I   ++ + + ID  
Sbjct: 123 FYFQYYDLWLRQIFNGLGAGVRQTLSANDLLNIKIVVPPRDEQDQIVRYLDSKISAIDAG 182

Query: 393 VEKIEQSIVLLKERRSSFIAAAVTGQIDLRGES 425
           + K+E+ I  LKE +S+ I+  VTG+ID+R   
Sbjct: 183 ISKLEEQIKCLKELKSTLISDVVTGKIDVRDAE 215



 Score = 85.2 bits (209), Expect = 2e-14,   Method: Composition-based stats.
 Identities = 47/212 (22%), Positives = 83/212 (39%), Gaps = 7/212 (3%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK-DIIYIGLEDVESGTGKY 63
           K Y  YK +   W+  +PKHW  V  K      T +   + + +I+ + L+ V       
Sbjct: 2   KRYKTYKTTDQSWLTNVPKHWGYVKCKTLFATQTEKNKNNEEGNILSLTLQGVVRNNR-- 59

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKL---GPYLRKAIIADFDGICSTQFLVLQPKDVL 120
             K      SD  T  IF K  +++  +        +  +    GI S+ ++ L  K  +
Sbjct: 60  -EKPIGLSPSDYRTYQIFEKDDLVFKLIDLENISTSRVGLVPERGIMSSAYIRLSAKCDI 118

Query: 121 PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
                 +       ++I                + NI + +PP  EQ  I   + ++   
Sbjct: 119 NTRYFYFQYYDLWLRQIFNGLGAGVRQTLSANDLLNIKIVVPPRDEQDQIVRYLDSKISA 178

Query: 181 IDTLITERIRFIELLKEKKQALVSYIVTKGLN 212
           ID  I++    I+ LKE K  L+S +VT  ++
Sbjct: 179 IDAGISKLEEQIKCLKELKSTLISDVVTGKID 210


>gi|213418182|ref|ZP_03351248.1| EcoKI restriction-modification system protein HsdS [Salmonella
           enterica subsp. enterica serovar Typhi str. E01-6750]
          Length = 471

 Score =  146 bits (367), Expect = 7e-33,   Method: Composition-based stats.
 Identities = 66/417 (15%), Positives = 148/417 (35%), Gaps = 18/417 (4%)

Query: 19  GAIPKHWKVVPIKRFTKL-NTGRTSESGK--DIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           G +P+ W    +         G T++S    D+ ++   D+  G   +          + 
Sbjct: 13  GKLPEGWVTTHLSEICSKPQYGYTTKSSSMGDVKFLRTTDITKGAVDWSSVPYCMDAPED 72

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDG---ICSTQFLVLQPKDVLPELLQGWLLSID 132
            +        I+  + G      ++ +        S               L+ +L S D
Sbjct: 73  VSKYQLQDRDIVISRAGSVGFSFLVQNPPSQVVFASYLIRFKPVNYFSEYYLKRFLESSD 132

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
              ++  +  G  + + + + +  + +PIPP+AEQ +I EK+     ++D+      +  
Sbjct: 133 YWNQLSLMSAGNAVQNVNAQKLSTLTVPIPPIAEQKIIAEKLDTLLAQVDSTKARLEQIP 192

Query: 193 ELLKEKKQALVSYIVTKGL----NPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN 248
           ++LK  +QA+++  V+  L      +     S  +W   +P  W V  +  LV     K 
Sbjct: 193 QILKRFRQAVLAAAVSGLLIGSNKRNHHPLCSEWQW-PDLPSTWSVHKYSELVDSRLGKM 251

Query: 249 TKLIESNILSLSYGNIIQ------KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK 302
               ++   +  Y   I        LE     L  +       +  G+++          
Sbjct: 252 LDKAKNFGSATKYLGNINVRWFSFDLENLQDILISDIERRELSLKLGDVLICEGGEPGRC 311

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY-DLCKVFYAMGSGLRQSLKFED 361
                 Q +      + + A     I   +L + +++  +   +         + L  + 
Sbjct: 312 AIWSEPQDIPVIFQKALHRARVKDKIIPEWLVYNLKNDSNNISLSQLFTGTTIKHLTGKA 371

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           +   P+ VPP++EQ +I   +    A  D + +++  ++  +     S +A A  G+
Sbjct: 372 LANYPIRVPPLEEQHEIVRRVEQLFAWADTIEKQVNNALNRVNSLTQSILAKAFRGE 428


>gi|315446766|ref|YP_004079645.1| restriction endonuclease S subunit [Mycobacterium sp. Spyr1]
 gi|315265069|gb|ADU01811.1| restriction endonuclease S subunit [Mycobacterium sp. Spyr1]
          Length = 411

 Score =  146 bits (367), Expect = 8e-33,   Method: Composition-based stats.
 Identities = 89/413 (21%), Positives = 176/413 (42%), Gaps = 25/413 (6%)

Query: 25  WKVVPIKRFTKLNTGR---TSESGKDII--YIGLEDVE-SGTGKYLPKDGNSRQSDTSTV 78
           W+   +K    +  G+   + ++G D+   Y+   +V+  G  +  PK    + S+   +
Sbjct: 9   WRRGQVKNVADVKLGKMLQSDDTGDDVQADYMRAANVQPDGALRLQPKQMWFKPSELEGL 68

Query: 79  SIFAKGQILYGKLGPYLRKAIIA----DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
           S+     ++         +A       D  G  ++   +          L  +L+++  +
Sbjct: 69  SLKRGDVVVVEGGVGGFGRAAYLPNDLDGWGFQNSINRIRPTAATDGRFLAYYLIALRAS 128

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             IE  C   +M H   + +  +P+P+P  ++Q  I + +  ET RIDTLI E+  F+ L
Sbjct: 129 GFIERYCNIVSMPHLTAEKLAALPVPVPDRSDQCAIADFLDRETARIDTLIAEQQLFVGL 188

Query: 195 LKEKKQALVSYIVTK-GLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
           L+E++QA++   V+     P    +   +   G            +        +  +  
Sbjct: 189 LRERRQAVIDSTVSVVKAEPVQLRRVIELVTSG------------SRGWGDYYSDAGVRF 236

Query: 254 SNILSLSYGNIIQKLETRNMGLKPE-SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
             I +L   ++  + E + + L P+ +      +  G+++F           +  A    
Sbjct: 237 LRIGNLPRTDLAIRGEVQLVDLPPDVTEGERTRLVVGDVLFSITAYLGSVAVVDDAWEGG 296

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA-MGSGLRQSLKFEDVKRLPVLVPP 371
                 A   + P   +S ++ W+M + D           G +Q L  +D++ L V +P 
Sbjct: 297 YVSQHVALCRLDPLRANSRFVGWVMLTTDGQDQLRQGAAGGTKQQLGLDDIRELRVPLPL 356

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGE 424
           + EQ  I   ++ +T++ID L+ + +  I L +ERR++ I AAVTGQID+R E
Sbjct: 357 LDEQHRIVAFLDEQTSKIDTLIAETKVFIELSRERRTALITAAVTGQIDVRNE 409


>gi|300721108|ref|YP_003710376.1| type I restriction-modification enzyme subunit S [Xenorhabdus
           nematophila ATCC 19061]
 gi|297627593|emb|CBJ88112.1| Type I restriction-modification enzyme subunit S [Xenorhabdus
           nematophila ATCC 19061]
          Length = 452

 Score =  146 bits (367), Expect = 8e-33,   Method: Composition-based stats.
 Identities = 73/431 (16%), Positives = 142/431 (32%), Gaps = 27/431 (6%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLN-TGRTSESGKDIIYIGLEDVESGTGKYLPKDG 68
           YK + V   G IP+ W  V      +     +  +S  D+I+IG++D+     + L +  
Sbjct: 29  YKKTEV---GVIPEDWDAVFFGDLFEDKLPRKALKSNDDVIFIGMQDLSE-NAQLLSQHK 84

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD------FDGICSTQFLV-LQPKDVLP 121
               S    ++ F KG +L  K+ P                 GI ST+F V    K    
Sbjct: 85  VKYGSLKGGLTYFEKGDVLVAKITPCFENGKGCHTKNLLTEIGIGSTEFHVLRATKHTNA 144

Query: 122 ELLQGWLLSIDVTQRIEAICEGATMSHADWKG--IGNIPMPIPPLAEQVLIREKIIAETV 179
           + +  W       + +E+   G+              +        EQ+ I   +    V
Sbjct: 145 DFIYFWTTKKYFRKTLESEMVGSAGHKRVPLQAIQNFLLPCPRNNIEQIAIANTLSDIDV 204

Query: 180 RIDTLITERIRFIELLKEKKQALVS---YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKP 236
            I  L T   +   +     Q L++    +    L  +   K      +G +P+ WE+  
Sbjct: 205 LISELETLLAKKQAIKTATMQQLLTGRTRLPQFALCENGSKKGYKQSELGEIPEDWEIIC 264

Query: 237 FFALVTELN----RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIV 292
              +            +   + + +SL   +    L T             +++  G+++
Sbjct: 265 IKDVGFVDPENLGSTTSLDYKFDYISLEQIDAGVLLGTVKCTFNTAPLRARRVLQQGDVL 324

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSA-YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
              +             V +    T    +      +   YL     S  +      + S
Sbjct: 325 ISTVRPNLMSHYFVREDVRDLVCSTGFSVVRCLKDKLRPGYLYQHFFSAVINNQIDMLIS 384

Query: 352 GLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
           G    ++   DVK L + +  + EQ  I  +++     I  L    EQ +   ++ +   
Sbjct: 385 GSNYPAINSSDVKNLKIQLGSVNEQTAIATILSDMDTEIQAL----EQKLDKTRQIKQGM 440

Query: 411 IAAAVTGQIDL 421
           +   +TG+  L
Sbjct: 441 MQELLTGKTRL 451


>gi|66769483|ref|YP_244245.1| putative restriction endonuclease S subunits [Xanthomonas
           campestris pv. campestris str. 8004]
 gi|188992673|ref|YP_001904683.1| Type I site-specific deoxyribonuclease (specificity subunit)
           [Xanthomonas campestris pv. campestris str. B100]
 gi|66574815|gb|AAY50225.1| putative restriction endonuclease S subunits [Xanthomonas
           campestris pv. campestris str. 8004]
 gi|167734433|emb|CAP52643.1| Type I site-specific deoxyribonuclease (specificity subunit)
           [Xanthomonas campestris pv. campestris]
          Length = 438

 Score =  145 bits (366), Expect = 1e-32,   Method: Composition-based stats.
 Identities = 82/425 (19%), Positives = 156/425 (36%), Gaps = 28/425 (6%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTS---ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +P+ W    ++     N  ++        ++ ++ ++ V    G  L +         + 
Sbjct: 9   LPQGWTRRRLRFDCLSNPVKSKLDIPDDTEVSFVPMDAVGELGGLRLDQ-TRELADVYNG 67

Query: 78  VSIFAKGQILYGKLGPYLRKA------IIADFDGICSTQFLVLQPKDVLPELLQGWLLS- 130
            + FA G +   K+ P            + +     +T+  VL+P   L      +L   
Sbjct: 68  YTYFADGDVCIAKITPCFENGKGAIAEGLVNGVAFGTTELHVLRPSATLDTRFLFYLTIA 127

Query: 131 IDVTQRIEAICEG-ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
            D     EA   G +       + + +    +P +  Q  I   +  +T RID LI ++ 
Sbjct: 128 HDFRSHGEAEMLGASGQKRVPEEFLKDWTPSLPRMDVQQRIARFLDDKTARIDALIEKKQ 187

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNT 249
             +E L+EK+QAL++  VTKGLNPD+ MK SG++W+G VP HWEVK     V  + +  +
Sbjct: 188 ELLERLEEKRQALITRAVTKGLNPDLPMKPSGVDWLGYVPRHWEVKTLRRHVQRIEQGWS 247

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ---------IVDPGEIVFRFIDLQN 300
              E  +       +++              +             V   +++        
Sbjct: 248 PQTERRMAEPDEWGVLKSGCVNLGIYDENEQKALPGTLDPKPELEVRANDVLMCRASGSM 307

Query: 301 DKRSLR--SAQVMERGIITSAYMAVKPHGIDSTYLAW--LMRSYDLCKVFYAMGSGL--- 353
                     +   + + +     +     ++    +  +M +  L +      SG    
Sbjct: 308 QYIGSVALVERTRTKLMFSDKTYRISLSSANTDREYFVRMMSAKHLREQIRLSVSGAEGL 367

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
             ++   +V       PP+ EQ  I + +      +D    KI  S    +  R + + A
Sbjct: 368 ANNIPQSNVLEYLHAFPPLLEQVQIADFLRESIGDLDEAEGKIRASSESWRAYRLALVTA 427

Query: 414 AVTGQ 418
           AVTGQ
Sbjct: 428 AVTGQ 432



 Score = 60.2 bits (144), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 33/219 (15%), Positives = 66/219 (30%), Gaps = 17/219 (7%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFT-KLNTGRTSESG------KDIIYIGLEDVESGTGK 62
            K SGV W+G +P+HW+V  ++R   ++  G + ++        +   +    V  G   
Sbjct: 215 MKPSGVDWLGYVPRHWEVKTLRRHVQRIEQGWSPQTERRMAEPDEWGVLKSGCVNLGIYD 274

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGK-------LGPYLRKAIIADFDGICSTQFLVLQ 115
              +       D           +L  +       +G                  + +  
Sbjct: 275 ENEQKALPGTLDPKPELEVRANDVLMCRASGSMQYIGSVALVERTRTKLMFSDKTYRISL 334

Query: 116 PKDVLPELLQGWLLSIDVTQRIEAICEGATM---SHADWKGIGNIPMPIPPLAEQVLIRE 172
                       ++S    +    +         ++     +       PPL EQV I +
Sbjct: 335 SSANTDREYFVRMMSAKHLREQIRLSVSGAEGLANNIPQSNVLEYLHAFPPLLEQVQIAD 394

Query: 173 KIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGL 211
            +      +D    +     E  +  + ALV+  VT  L
Sbjct: 395 FLRESIGDLDEAEGKIRASSESWRAYRLALVTAAVTGQL 433


>gi|23466327|ref|NP_696930.1| HsdS specificity protein of type I restriction-modification system
           [Bifidobacterium longum NCC2705]
 gi|23327082|gb|AAN25566.1| HsdS specificity protein of type I restriction-modification system
           [Bifidobacterium longum NCC2705]
          Length = 406

 Score =  145 bits (366), Expect = 1e-32,   Method: Composition-based stats.
 Identities = 62/397 (15%), Positives = 134/397 (33%), Gaps = 20/397 (5%)

Query: 25  WKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           W+   +       +G T  +G       +I +I   +++                + S+ 
Sbjct: 19  WEQRKLGELALTYSGGTPSAGNSAYYGGEIPFIRSAEID---CDSTELSLTVAGLNNSSA 75

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
            +  KG +LY   G    +  I+   G  +   L +   D+       + L        E
Sbjct: 76  KLVDKGMVLYAMYGATSGEVAISKIKGAINQAILAMDASDMAANRFIAYWLRRQKKSITE 135

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
              +G    +     I  + +P P L EQ  I          +D LIT   R  + L   
Sbjct: 136 TFLQG-GQGNLSGAIIKELGIPQPSLDEQRQIGSF----FSNLDDLITLHQRKYDKLVIF 190

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
           K++++  +  K      +++ +G            +  F    T      +  ++  IL 
Sbjct: 191 KKSMLEKMFPKDGESVPEIRFAGFTDPWEQRKLENLASFGGGHTPSMADASNYVDGKILW 250

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
           ++  ++ Q        +  E       + P + +         + ++  A++ +   +  
Sbjct: 251 VTSQDVKQHYIENTTTMISEKGAATLTLYPSDSIVIVARSGILRHTIPVAKLRKPATVNQ 310

Query: 319 AY--MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
               +        S  L + + S       Y       +S+ F  +K   ++VP I+EQ 
Sbjct: 311 DIKVIQTVDSCDSSWLLQYFIASNKTLLREYGKTGTTVESIDFAKMKSTALMVPYIEEQQ 370

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            I +      +R+D L+   ++ + LL+  + S +  
Sbjct: 371 AIGSF----FSRLDNLITLHQRKLELLQNIKKSLLDK 403


>gi|303242499|ref|ZP_07328979.1| restriction modification system DNA specificity domain protein
           [Acetivibrio cellulolyticus CD2]
 gi|302589967|gb|EFL59735.1| restriction modification system DNA specificity domain protein
           [Acetivibrio cellulolyticus CD2]
          Length = 415

 Score =  145 bits (366), Expect = 1e-32,   Method: Composition-based stats.
 Identities = 76/415 (18%), Positives = 155/415 (37%), Gaps = 31/415 (7%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIG----LEDVESGTGKYLPKDGNSRQS 73
           IG IPK W V  IK   ++ TG T  +     Y      +   + G+ KY+ K       
Sbjct: 19  IGRIPKEWNVAQIKNVGEIITGNTPSTKHPEYYGDTYMFVAPGDIGSSKYVRKTEKYLSG 78

Query: 74  D-TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
                     +  I+   +G  + K  IA      + Q   + P ++       + L+  
Sbjct: 79  KGFEISRKVPQNSIMMICIGSTIGKIAIASEMLTTNQQINSIIPNEIYNNEYVYYALNYY 138

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
             +  E+  E   +          I +P     EQ  I + +       D  I  + + I
Sbjct: 139 FNKIKESKIEKQAVPIISKSKFSEICIPHIEKQEQRKIADIL----SAWDKAIELKEKLI 194

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           E  KE+K+ L++ ++T  L      K SG        + W +K    +   + RKN    
Sbjct: 195 EQKKEQKRGLMNKLLTGKL------KLSG------FNNEWTLKRLKEICIRIIRKNNGQD 242

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDL-QNDKRSLRSAQVM 311
              +   S    + + E  +  +  ++ E Y ++  GE  +   +        +   +  
Sbjct: 243 VPVLTISSLSGFLDQSERFSKVIAGKNVEKYTLLKHGEFSYNKGNSKTYPYGCIFRLEDY 302

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS-----LKFEDVKRLP 366
           E  ++ + Y++   +G+DS +  +   +  +     A+ +   ++     L  ++   + 
Sbjct: 303 EEALVPNVYISFSMNGVDSNFYKYYFEAGLMNDQLAAIINTGVRNDGLLNLNADEFFDIT 362

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           + VP   EQ  I  +++V T  I+      +Q +  LK ++   +   +TG + +
Sbjct: 363 LPVPSEYEQKQIGEILDVATKEIN----LHQQELEALKLQKKGLMQLLLTGIVRV 413



 Score = 82.1 bits (201), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 29/207 (14%), Positives = 65/207 (31%), Gaps = 14/207 (6%)

Query: 224 WVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG-------NIIQKLETRNMGLK 276
            +G +P  W V     +   +               +Y           + +      L 
Sbjct: 18  EIGRIPKEWNVAQIKNVGEIITGNTPSTKHPEYYGDTYMFVAPGDIGSSKYVRKTEKYLS 77

Query: 277 PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWL 336
            + +E  + V    I+   I     K ++ S  +     I S          ++ Y+ + 
Sbjct: 78  GKGFEISRKVPQNSIMMICIGSTIGKIAIASEMLTTNQQINSII---PNEIYNNEYVYYA 134

Query: 337 MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
           +  Y        +       +       + +     +EQ  I ++++      D  +E  
Sbjct: 135 LNYYFNKIKESKIEKQAVPIISKSKFSEICIPHIEKQEQRKIADILSAW----DKAIELK 190

Query: 397 EQSIVLLKERRSSFIAAAVTGQIDLRG 423
           E+ I   KE++   +   +TG++ L G
Sbjct: 191 EKLIEQKKEQKRGLMNKLLTGKLKLSG 217


>gi|73670718|ref|YP_306733.1| type I restriction-modification system specificity subunit
           [Methanosarcina barkeri str. Fusaro]
 gi|72397880|gb|AAZ72153.1| type I restriction-modification system specificity subunit
           [Methanosarcina barkeri str. Fusaro]
          Length = 492

 Score =  145 bits (366), Expect = 1e-32,   Method: Composition-based stats.
 Identities = 67/460 (14%), Positives = 156/460 (33%), Gaps = 57/460 (12%)

Query: 21  IPKHWKVVPIKRFTK-LNTGRTSESGKDII---YIGLEDVESGTGKYLPKDGNSRQSDTS 76
           +P  W+   +      +  G T  S  + I   ++ + D+++    +         +   
Sbjct: 18  LPNDWQWTRLGEIADNIQYGYTESSSDEPIGPKFLRITDIQNNEVNWKSVPYCEIDNTKK 77

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDG----ICSTQFLVLQPKDVLPELLQGWLLSID 132
              +   G +++ + G  + K+ +   D       S    V   +++    +  +  S+ 
Sbjct: 78  QNYLLKDGDLVFARTGATVGKSYLLKGDFPESVFASYLIRVRLLEEISESFVYNFFQSLT 137

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
             ++I     G    + +   +  + +P+ PL EQ  I  KI      +D  I+      
Sbjct: 138 YWKQITEGQVGIGQPNVNGTKLSLLIVPVAPLLEQRAIVSKIEQLFSELDNGISNLKLAQ 197

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEW---------------------------- 224
           E LK  +QA++       L    + ++  +E                             
Sbjct: 198 EQLKVYRQAVLKKAFEGKLTKKWREENPDVEDSKYVLNKIKNQISTQKKTKEIQDIQYGE 257

Query: 225 -VGLVPDHWEVKPFFAL---VTELNRKNTKLIESNILSLSYGNIIQKLETRNMG-----L 275
               +P  W       +   +T+ + +     +S +  +   NI       +        
Sbjct: 258 VPYELPFKWNWVSLSDVSISITDGDHQAPPKADSGVPFIVISNISSGKLDMSETMYVPEK 317

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG-IDSTYLA 334
             E+    +   P +I++           +       R         ++PH  I S YL 
Sbjct: 318 YYENLAAKRKPQPRDILYSVTGSYGIPILISEN---YRFCFQRHIALIRPHMEISSKYLY 374

Query: 335 WLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
           ++++S  + K    + +G  + ++    ++ + V +PPI EQ  I   I    +  + + 
Sbjct: 375 YILKSPFVYKQATKVATGTAQLTVPLSGLRTIKVPIPPIAEQQAIVQEIETRLSVCEKIE 434

Query: 394 EKIEQSIVLLKERRSSFIAAAVTGQI-------DLRGESQ 426
           + I+ ++   +  R S +  A  G++       ++RG   
Sbjct: 435 QDIKDNLERAEALRQSILKKAFEGKLLNEKELAEVRGAED 474



 Score = 86.4 bits (212), Expect = 8e-15,   Method: Composition-based stats.
 Identities = 32/215 (14%), Positives = 70/215 (32%), Gaps = 10/215 (4%)

Query: 214 DVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNM 273
             K+K    E +   P+      +  L    +       ES+         ++  + +N 
Sbjct: 1   MKKIKPIIEEEIAEYPNLPNDWQWTRLGEIADNIQYGYTESSSDEPIGPKFLRITDIQNN 60

Query: 274 GL---------KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
            +            + +   ++  G++VF        K  L      E    +       
Sbjct: 61  EVNWKSVPYCEIDNTKKQNYLLKDGDLVFARTGATVGKSYLLKGDFPESVFASYLIRVRL 120

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
              I  +++    +S    K       G+ + ++    +  L V V P+ EQ  I + I 
Sbjct: 121 LEEISESFVYNFFQSLTYWKQITEGQVGIGQPNVNGTKLSLLIVPVAPLLEQRAIVSKIE 180

Query: 384 VETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
              + +D  +  ++ +   LK  R + +  A  G+
Sbjct: 181 QLFSELDNGISNLKLAQEQLKVYRQAVLKKAFEGK 215



 Score = 61.7 bits (148), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 32/205 (15%), Positives = 70/205 (34%), Gaps = 12/205 (5%)

Query: 19  GAIPKH----WKVVPIKRF-TKLNTGRT---SESGKDIIYIGLEDVESGTGKYLP--KDG 68
           G +P      W  V +      +  G      ++   + +I + ++ SG           
Sbjct: 256 GEVPYELPFKWNWVSLSDVSISITDGDHQAPPKADSGVPFIVISNISSGKLDMSETMYVP 315

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICST-QFLVLQPKDVLPELLQGW 127
                + +         ILY   G Y    +I++    C      +++P   +      +
Sbjct: 316 EKYYENLAAKRKPQPRDILYSVTGSYGIPILISENYRFCFQRHIALIRPHMEISSKYLYY 375

Query: 128 LLSIDV-TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           +L      ++   +  G         G+  I +PIPP+AEQ  I ++I       + +  
Sbjct: 376 ILKSPFVYKQATKVATGTAQLTVPLSGLRTIKVPIPPIAEQQAIVQEIETRLSVCEKIEQ 435

Query: 187 ERIRFIELLKEKKQALVSYIVTKGL 211
           +    +E  +  +Q+++       L
Sbjct: 436 DIKDNLERAEALRQSILKKAFEGKL 460


>gi|312128027|ref|YP_003992901.1| restriction modification system DNA specificity domain-containing
           protein [Caldicellulosiruptor hydrothermalis 108]
 gi|311778046|gb|ADQ07532.1| restriction modification system DNA specificity domain protein
           [Caldicellulosiruptor hydrothermalis 108]
          Length = 433

 Score =  145 bits (366), Expect = 1e-32,   Method: Composition-based stats.
 Identities = 77/441 (17%), Positives = 167/441 (37%), Gaps = 47/441 (10%)

Query: 2   KHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTG 61
           K+YK    +KDS    +G IP+ W+VV +    K+ TG ++               + TG
Sbjct: 7   KNYK----FKDSP---LGRIPEEWEVVRLGDIAKIKTGNSNVQD-----------AAETG 48

Query: 62  KYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP 121
            YL  D +      S   +F K  ++    G             +    + +     VL 
Sbjct: 49  DYLFFDRSGE-IKRSNRYLFDKEAVIVPGEGTEFLPKYYCGKFDLHQRAYAIFDFSSVLS 107

Query: 122 ELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
                + +     + +     G T+         N+ + +PPL EQ  I E +      I
Sbjct: 108 GEYLFYAMH-KFNRILANWAVGTTVKSLRLPMFENLLLLLPPLPEQRKIAEILETIDNAI 166

Query: 182 DTLITERIRFIELLKEKKQALVSYIVT---KGLNPDVKMKDSGIEW-----VGLVPDHWE 233
           +       ++  + +   Q L++  V    +G +   +++D  I+      +G +P+ W+
Sbjct: 167 EKTDAIIEKYKRIKQGLMQDLLTKGVVSEGEGESERWRLRDENIDKFKDSPLGRIPEEWK 226

Query: 234 VKPFFA-----LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES-------YE 281
           +          ++T+ +  + + +E++   +     I   +      K  S         
Sbjct: 227 ICKLDHREITIMITDGSHYSPQPVENSEYYIVNIENIINGKIEFETCKKISPKDYKKLVS 286

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD 341
                  G+++F          +L  +      +++S  +    + +DS YL + + +  
Sbjct: 287 NKCNPKYGDVLFTKDGTVG--ITLVFSGERNVVLLSSIAIIRPSNCLDSYYLKYSLETEQ 344

Query: 342 LCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
           + K    +  G   + +  +D+K L + +PPI EQ  I +++    ++ID  +EK     
Sbjct: 345 IKKQIDILIGGSVLKRIVLKDIKSLVIFIPPIPEQQRIASIL----SQIDEAIEKERAYK 400

Query: 401 VLLKERRSSFIAAAVTGQIDL 421
             L+  +   +   +TG++ +
Sbjct: 401 EKLERIKKGLMEDLLTGKVRV 421


>gi|23452795|gb|AAN33170.1| putative type I specificity subunit HsdS [Campylobacter jejuni]
          Length = 420

 Score =  145 bits (366), Expect = 1e-32,   Method: Composition-based stats.
 Identities = 58/424 (13%), Positives = 131/424 (30%), Gaps = 34/424 (8%)

Query: 21  IPKHWKVVPIKRFTK-----LNTGRTSES-------GKDIIYIGLEDVESGTGKYLPKDG 68
           +P+ WK+  +          +  G    +        K I      +  +    +     
Sbjct: 4   LPQGWKMETLGEILSSDKYSIKRGPFGSTLKKSFFVEKGIRIFEQYNPINNDPHWKRYFI 63

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD--FDGICSTQF--LVLQPKDVLPELL 124
           +  +          +G +L    G   +   +      GI +     + L    +L    
Sbjct: 64  SHEKFQELEAFKATEGDLLISCSGTLGKIVELPKDTEMGIINQSLLKIRLNNIKILNSYF 123

Query: 125 QGWLLSIDVTQRIEAICEGATMSHA-DWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
             +  S  + ++I     G+ + +    K +  I +P+PPL +Q  I   +    V+ID 
Sbjct: 124 IYYFNSPIMQEKILESTLGSAIKNIASVKILKQIEIPLPPLKKQERIVGILDESFVKIDE 183

Query: 184 LITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTE 243
            I    + +  L E  Q+ +        +          +    +P  WE K    +   
Sbjct: 184 SIKILEQNLLNLDELMQSALQKAFNPLKD--------NAKENYKLPQGWEWKSLGEIGNT 235

Query: 244 LNR------KNTKLIESNILSLSYG---NIIQKLETRNMGLKPESYETYQIVDPGEIVFR 294
            +       K       +I  L  G   +        N+  +     + +I   G ++  
Sbjct: 236 SSGGTPLRNKKEYWENGSIKWLKSGELNDGYIDFIEENITEEAIENSSAKIFQKGTLLIA 295

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR 354
                  +  + +        + +       +        +    +   K+      G +
Sbjct: 296 MYGATAGRLGILNLDSATNQAVCAFLHKDNKNIKFLEKFLFYFLFFIRDKIIKDSFGGAQ 355

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAA 414
            ++    +K L + +PP+KEQ  I   ++    +   L E   + +   +E + S +  A
Sbjct: 356 PNISQTYIKNLQIPLPPLKEQEQIAKHLDFVFEKTKALKELYTKELKDYEELKQSLLNKA 415

Query: 415 VTGQ 418
             G+
Sbjct: 416 FKGE 419



 Score = 90.2 bits (222), Expect = 6e-16,   Method: Composition-based stats.
 Identities = 35/202 (17%), Positives = 72/202 (35%), Gaps = 10/202 (4%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPKDGNSRQ 72
            +P+ W+   +      ++G T    K        I ++   ++  G   ++ ++     
Sbjct: 219 KLPQGWEWKSLGEIGNTSSGGTPLRNKKEYWENGSIKWLKSGELNDGYIDFIEENITEEA 278

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELL---QGWLL 129
            + S+  IF KG +L    G    +  I + D   +        KD           +  
Sbjct: 279 IENSSAKIFQKGTLLIAMYGATAGRLGILNLDSATNQAVCAFLHKDNKNIKFLEKFLFYF 338

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
              +  +I     G    +     I N+ +P+PPL EQ  I + +     +   L     
Sbjct: 339 LFFIRDKIIKDSFGGAQPNISQTYIKNLQIPLPPLKEQEQIAKHLDFVFEKTKALKELYT 398

Query: 190 RFIELLKEKKQALVSYIVTKGL 211
           + ++  +E KQ+L++      L
Sbjct: 399 KELKDYEELKQSLLNKAFKGEL 420


>gi|253576958|ref|ZP_04854282.1| conserved hypothetical protein [Paenibacillus sp. oral taxon 786
           str. D14]
 gi|251843689|gb|EES71713.1| conserved hypothetical protein [Paenibacillus sp. oral taxon 786
           str. D14]
          Length = 403

 Score =  145 bits (365), Expect = 1e-32,   Method: Composition-based stats.
 Identities = 53/411 (12%), Positives = 121/411 (29%), Gaps = 30/411 (7%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           +P  W V P+     L  G T          ++ +   +++ G          +   D  
Sbjct: 3   VPNGWAVKPLLECCDLLQGLTYSPSNIQSYGLLVLRSSNIQDGKLVLDDCVYVNCSIDEI 62

Query: 77  TVSIFAKGQILYGKLGP----YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
                    IL            +  +I          F  +             + + D
Sbjct: 63  KY--VKPNDILICVRNGSSALIGKSCVIDRPYNATFGAF--MSVLRGDTTGYLAHMFASD 118

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPP-LAEQVLIREKIIAETVRIDTLITERIRF 191
           V Q+       AT++    +   +I +PIP    EQ  I   +      I  L     + 
Sbjct: 119 VVQQQIRNRSSATINQITKRDFEDIKIPIPFDEEEQRAIAAALSDADAYITALEKLITKK 178

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
                   +A+    + + L    ++     EW+                +         
Sbjct: 179 --------RAVKQGAMQELLTGKRRLPGFKGEWIEKKIHEIGDTSSGGTPSRSVPTYFNG 230

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
               + +    +   +     +  +  +  + ++   G ++         K  +      
Sbjct: 231 NIPWVTTSELNDNYIRSTAEKITSEALNNSSAKLFPKGTVLMAMYGATIGKLGILDVD-- 288

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
                  A  A+  +    +   + +  Y   ++        + ++    ++ L   +PP
Sbjct: 289 --ATTNQACCALFFNKDIDSVFMYFLLLYHRTEIIELGSGAGQPNISQMIIRNLTFTIPP 346

Query: 372 -IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            + EQ  I  V++   A ID L  K+E++    +  +   ++  +TG+I L
Sbjct: 347 TLAEQTAIAAVLSDMDAEIDALTAKLEKA----RRIKQGMMSELLTGRIRL 393



 Score = 85.6 bits (210), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 35/200 (17%), Positives = 63/200 (31%), Gaps = 10/200 (5%)

Query: 229 PDHWEVKPFFALVTELNRKNTKLIESNILSL----SYGNIIQKLETRNMGLKPESYETYQ 284
           P+ W VKP       L              L    S      KL   +      S +  +
Sbjct: 4   PNGWAVKPLLECCDLLQGLTYSPSNIQSYGLLVLRSSNIQDGKLVLDDCVYVNCSIDEIK 63

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCK 344
            V P +I+    +  +                  A+M+V        YLA +  S  + +
Sbjct: 64  YVKPNDILICVRNGSSALIGKSCVIDRPYNATFGAFMSVLRGDTTG-YLAHMFASDVVQQ 122

Query: 345 VFYAMGSGLRQSLKFEDVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
                 S     +   D + + + +P   +EQ  I   ++   A I  L + I +     
Sbjct: 123 QIRNRSSATINQITKRDFEDIKIPIPFDEEEQRAIAAALSDADAYITALEKLITKK---- 178

Query: 404 KERRSSFIAAAVTGQIDLRG 423
           +  +   +   +TG+  L G
Sbjct: 179 RAVKQGAMQELLTGKRRLPG 198


>gi|300173282|ref|YP_003772448.1| type I R/M system specificity subunit [Leuconostoc gasicomitatum
           LMG 18811]
 gi|299887661|emb|CBL91629.1| type I R/M system specificity subunit [Leuconostoc gasicomitatum
           LMG 18811]
          Length = 417

 Score =  145 bits (365), Expect = 2e-32,   Method: Composition-based stats.
 Identities = 62/407 (15%), Positives = 140/407 (34%), Gaps = 26/407 (6%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDV----ESGTGKYLPKDGNSRQS---DTS 76
            W+   +   + +  G T  +     + G  D     E G   Y+ K   +        S
Sbjct: 16  DWEERKLGELSNIVGGGTPSTSNPEYWDGDIDWYAPAEIGEQSYVSKSKKTITELGLKKS 75

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
           +  I   G +L+         AI+A      +  F  + P     +    +  + ++ + 
Sbjct: 76  SARILPVGTVLFTSRAGIGNTAILAKE-ATTNQGFQSIVPDQNKLDSYFIFSRTNELKRY 134

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
            E    G+T      K +  + + +P L+EQ  I         ++D  I    R ++LLK
Sbjct: 135 GEVTGAGSTFVEVSGKQMSKMSIMVPELSEQQKIGSF----FKQLDDTIALHQRKLDLLK 190

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGI--EWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
           E+K+  +  +  K      +++ SG   +W     +                 +      
Sbjct: 191 EQKKGFLQKMFPKNGAKVPELRFSGFADDWEERKLEDAAEIIDGDRGKNYPSGDDFKNSG 250

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQI----VDPGEIVFRFIDLQNDKRSL---RS 307
           + L LS  N+ ++             ++  +    V+  +I+                 +
Sbjct: 251 HTLFLSATNVTKQGFVFKENQYITKLKSELLGNGKVNLNDIILTSRGSIGHIGLYDERIN 310

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLP 366
             +    I +   +         +++A  +++    K    +     +  L  +D+K+  
Sbjct: 311 ENIPHARINSGMLILRTDKFNSPSFIAQFLKAPLGIKQIKLISFGSAQPQLTKKDIKKFK 370

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           + +P I+EQ  I   +     ++D  +   ++ + LLKE++  F+  
Sbjct: 371 ITLPKIEEQIKIGAFL----KQLDHTIALHQRKLNLLKEQKKGFLQK 413


>gi|150388684|ref|YP_001318733.1| restriction modification system DNA specificity subunit
           [Alkaliphilus metalliredigens QYMF]
 gi|149948546|gb|ABR47074.1| restriction modification system DNA specificity domain
           [Alkaliphilus metalliredigens QYMF]
          Length = 467

 Score =  145 bits (365), Expect = 2e-32,   Method: Composition-based stats.
 Identities = 66/422 (15%), Positives = 149/422 (35%), Gaps = 33/422 (7%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVESGTGKYLP---KDGNS 70
           +P++W    +   T +  G T  S          I +I   D+   T  Y+    K+   
Sbjct: 28  VPENWVWTRLGNVTTIIGGGTPPSRVIEYYENGSIPWISPVDLSGYTDIYISHGKKNITE 87

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
                S+  +  +  +L     P      IAD +   +  F    P          +   
Sbjct: 88  LGLKKSSARLLPENTVLLSSRAPI-GYVAIADNELCTNQGFKSFLPSPCYL-PKYLYFYL 145

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
               + +EA   G T      +    +  P+PPLAEQ  I ++I +   +++        
Sbjct: 146 KSSKKLLEAYASGTTFLELSGRKAAIVEFPLPPLAEQQRIVDRIESLFEKLNQAKALIQD 205

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR---K 247
            ++  + +K A++    +  L    +      E  G+    W+ K    +V         
Sbjct: 206 ALDSFENRKAAILHKAFSGELTEKWR------EENGVGMGSWKKKSIKEVVKFRAGYAFD 259

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMG-------LKPESYETYQIVDPGEIVFRFIDLQN 300
           +     +    +  GN+   +             L   S      ++ G+I+      + 
Sbjct: 260 SKNFSSTGHQVIRMGNLYNGVLDLTRNPVYISPDLIDNSIIKRFSINEGDILLTLTGTKY 319

Query: 301 DK--RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL--RQS 356
            +        +  E  ++    +++ P  I++ YL + ++S     VF++  +G   + +
Sbjct: 320 KRDYGYAVLIKESENLLLNQRILSLTPESIETNYLLYYLQSDFFRDVFFSNETGGVNQGN 379

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           +  + V+++ + +    EQ +I  +++    + D    ++   I  +   + S +A A  
Sbjct: 380 VSSKFVEKIEIPIFSSLEQKEIVRILDYIFEK-DKNANQLCDLIDNIDLMKKSILARAFR 438

Query: 417 GQ 418
           G+
Sbjct: 439 GE 440



 Score = 89.5 bits (220), Expect = 9e-16,   Method: Composition-based stats.
 Identities = 30/205 (14%), Positives = 65/205 (31%), Gaps = 11/205 (5%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET 282
           E   +VP++W       + T +                    I  ++         S+  
Sbjct: 23  EKSNVVPENWVWTRLGNVTTIIGGGTPPSRVIEYYENGSIPWISPVDLSGYTDIYISHGK 82

Query: 283 YQIVDPGE-------IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH-GIDSTYLA 334
             I + G        +    + L +       A           + +  P       YL 
Sbjct: 83  KNITELGLKKSSARLLPENTVLLSSRAPIGYVAIADNELCTNQGFKSFLPSPCYLPKYLY 142

Query: 335 WLMRSYDLCKVFYAMGSGLRQ-SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
           + ++S    K+  A  SG     L       +   +PP+ EQ  I + I     +++   
Sbjct: 143 FYLKSS--KKLLEAYASGTTFLELSGRKAAIVEFPLPPLAEQQRIVDRIESLFEKLNQAK 200

Query: 394 EKIEQSIVLLKERRSSFIAAAVTGQ 418
             I+ ++   + R+++ +  A +G+
Sbjct: 201 ALIQDALDSFENRKAAILHKAFSGE 225


>gi|35381319|gb|AAQ84547.1| type I restriction-modification enzyme subunit S [Klebsiella
           pneumoniae]
          Length = 448

 Score =  144 bits (364), Expect = 2e-32,   Method: Composition-based stats.
 Identities = 73/438 (16%), Positives = 150/438 (34%), Gaps = 28/438 (6%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGK 62
           YK +     G IP+ W V  I    ++  G +     D       I  + +EDV      
Sbjct: 17  YKLTEA---GVIPEDWDVRKIGDIAEVIRGASPRPKGDKRFYGGNIPRLMVEDVTRDGKY 73

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPE 122
             P   +  ++         KG +     G     +I+A    I      + + K  +  
Sbjct: 74  VTPSVDSLTEAGAKLSRPCDKGTLTLVCSGTVGIPSILAVNACIHDGFLGLTKVKKSVSI 133

Query: 123 LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRI 181
                  +    +   +   G   ++    G+    + +P    EQ+ I   +      I
Sbjct: 134 DYLYHFFTTQQEKFNNSATHGGVFTNLTTDGVKEFLLALPRNKNEQIAIANFLSDTDTFI 193

Query: 182 DTLITERIRFIELLKEKKQALV---SYIVTKGLNPDVKMKDSGIEWVGLVPDHWE---VK 235
             L    I+   +     Q L+   + +      PD  +K      +G +P+ W+   V 
Sbjct: 194 TELEQLIIKKQSIKTATMQQLLTGRTRLPQFAKYPDGTIKSYKASELGSIPEDWKVLSVG 253

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYE-----TYQIVDPGE 290
               L+T     ++K   S I  L   N+ + +   + G+     E         +  G+
Sbjct: 254 QVCDLLTGFPFSSSKYSNSGIRLLRGSNVKRGITDWSDGITQYWPEISADIKQYELCAGD 313

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG 350
           IV         +   + +      ++      V+ + +   +L   + S    +   A+ 
Sbjct: 314 IVISMDGSLVGRSFAQLSDSDLPAVLLQRVARVRTNFVVQGFLKEWICSQFFTEHCDAVK 373

Query: 351 S-GLRQSLKFEDVKRLPVLVPP-IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
           +      +  +D++    L+PP   EQ  I N+++   A +      +EQ +  +++ + 
Sbjct: 374 TVTAIPHISPQDIRSFKFLMPPTNDEQKTIANILSDMNAEL----TALEQKLAKVRDIKQ 429

Query: 409 SFIAAAVTGQIDLRGESQ 426
             +   +TG+I L  E Q
Sbjct: 430 GMMQQLLTGRIRLPLEQQ 447


>gi|16767768|ref|NP_463383.1| type I restriction enzyme specificity protein [Salmonella enterica
           subsp. enterica serovar Typhimurium str. LT2]
 gi|167991322|ref|ZP_02572421.1| type I restriction enzyme StySJI specificity protein [Salmonella
           enterica subsp. enterica serovar 4,[5],12:i:- str.
           CVM23701]
 gi|168243978|ref|ZP_02668910.1| type I restriction enzyme StySJI specificity protein [Salmonella
           enterica subsp. enterica serovar Heidelberg str. SL486]
 gi|194449649|ref|YP_002048547.1| type I restriction enzyme StySJI specificity protein [Salmonella
           enterica subsp. enterica serovar Heidelberg str. SL476]
 gi|197262037|ref|ZP_03162111.1| type I restriction enzyme StySJI specificity protein [Salmonella
           enterica subsp. enterica serovar Saintpaul str. SARA23]
 gi|135211|sp|P06187|T1S_SALTY RecName: Full=Type-1 restriction enzyme StySJI specificity protein;
           Short=S.StySJI; AltName: Full=Type I restriction enzyme
           StySJI specificity protein; Short=S protein
 gi|47739|emb|CAA68580.1| S polypeptide [Salmonella enterica subsp. enterica serovar
           Typhimurium]
 gi|16423091|gb|AAL23342.1| specificity determinant for hsdM and hsdR [Salmonella enterica
           subsp. enterica serovar Typhimurium str. LT2]
 gi|194407953|gb|ACF68172.1| type I restriction enzyme StySJI specificity protein [Salmonella
           enterica subsp. enterica serovar Heidelberg str. SL476]
 gi|197240292|gb|EDY22912.1| type I restriction enzyme StySJI specificity protein [Salmonella
           enterica subsp. enterica serovar Saintpaul str. SARA23]
 gi|205330268|gb|EDZ17032.1| type I restriction enzyme StySJI specificity protein [Salmonella
           enterica subsp. enterica serovar 4,[5],12:i:- str.
           CVM23701]
 gi|205337035|gb|EDZ23799.1| type I restriction enzyme StySJI specificity protein [Salmonella
           enterica subsp. enterica serovar Heidelberg str. SL486]
 gi|261249609|emb|CBG27479.1| type I restriction enzyme [Salmonella enterica subsp. enterica
           serovar Typhimurium str. D23580]
 gi|267996882|gb|ACY91767.1| type I restriction enzyme specificity protein [Salmonella enterica
           subsp. enterica serovar Typhimurium str. 14028S]
 gi|301161007|emb|CBW20544.1| type I restriction enzyme [Salmonella enterica subsp. enterica
           serovar Typhimurium str. SL1344]
 gi|312915621|dbj|BAJ39595.1| type I restriction enzyme StySJI specificity protein [Salmonella
           enterica subsp. enterica serovar Typhimurium str.
           T000240]
 gi|323132866|gb|ADX20296.1| type I restriction enzyme specificity protein [Salmonella enterica
           subsp. enterica serovar Typhimurium str. 4/74]
 gi|332991333|gb|AEF10316.1| type I restriction enzyme specificity protein [Salmonella enterica
           subsp. enterica serovar Typhimurium str. UK-1]
          Length = 469

 Score =  144 bits (364), Expect = 2e-32,   Method: Composition-based stats.
 Identities = 72/423 (17%), Positives = 154/423 (36%), Gaps = 23/423 (5%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           G +P+ W    I     LN     +   D+ ++ +  V +        +           
Sbjct: 4   GKLPEGWATSTINEMCNLNPKLKLDDDLDVGFMPMAGVPTTYLGKCNFETKKWSEVKKGF 63

Query: 79  SIFAKGQILYGKLGPYLRKAI------IADFDGICSTQFLVLQPKDVLPELLQGW---LL 129
           + F    +++ K+ P              +  G  ST++ VL+  + L      +     
Sbjct: 64  TQFQNDDVIFAKITPCFENGKAVVIKEFPNGYGAGSTEYYVLRSINGLINPHWLFALVKT 123

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
              +T     +           + + N  +P+PPLAEQ +I EK+     ++D+      
Sbjct: 124 KDFLTNGALNMSGSVGHKRVTKEFLENYGVPVPPLAEQKVIAEKLDTLLAQVDSTKARLE 183

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSG--IEWVGLVPDHWEVKPFFALVTELNRK 247
           +  ++LK  +Q+++   V   L  ++  K+     E    +P  W++            K
Sbjct: 184 QIPQILKRFRQSVIVAAVNGQLTKELHKKNKFKLTELNISIPSLWKISEIGQFADVKGGK 243

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPE----------SYETYQIVDPGEIVFRFID 297
                ES I   +    I+  + +N  + PE             +   V  G++    + 
Sbjct: 244 RLPKGESLIAENTGFPYIRAGQLKNGTVLPEGQLYLEEYIQKSISRYTVSSGDLYITIVG 303

Query: 298 LQNDKRSLRSAQVMERGII-TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA-MGSGLRQ 355
                  +         +   +A +      I + +L+  +RS  L  +  + + SG + 
Sbjct: 304 ACIGDAGIIPDVYNNANLTENAAKICNLNENIFNRFLSLWLRSSYLQDIINSEIKSGAQG 363

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            L    +K LP+++PP++EQ +I   +    A  D + +++  ++  +     S +A A 
Sbjct: 364 KLALARIKSLPLILPPLQEQHEIVRRVEQLFAYADTIEKQVNNALTRVNSLTQSILAKAF 423

Query: 416 TGQ 418
            G+
Sbjct: 424 RGE 426


>gi|86145621|ref|ZP_01063951.1| type I restriction-modification system, S subunit [Vibrio sp.
           MED222]
 gi|85836592|gb|EAQ54718.1| type I restriction-modification system, S subunit [Vibrio sp.
           MED222]
          Length = 424

 Score =  144 bits (364), Expect = 2e-32,   Method: Composition-based stats.
 Identities = 70/419 (16%), Positives = 146/419 (34%), Gaps = 29/419 (6%)

Query: 23  KHWKVVPIKRFTKLNT----GRTSESGKDIIYIGLEDVE-SGTGKYLPKDGNSRQSDTST 77
           + W V  +   +        G    +   I  +  ++V  SG  K+   D    ++D S 
Sbjct: 13  EDWNVSNLSECSLFIKDGTHGTHKRTPTGIPLLSAKNVTASGKIKWDVNDSLVSEADYSK 72

Query: 78  ---VSIFAKGQILYGKLGPYLRKAIIADFDGIC---STQFLVLQPKDVLPELLQGWLLSI 131
                   K  +L   +G   R+A++          S   +      V P  +  +  S 
Sbjct: 73  IHSKYELEKDDLLLTVVGTLGRRALVDGSAKFTIQRSVGVIRPDKNKVTPNFIFHFCGSD 132

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
               ++E        +      +  +P+P PPL EQ  I   + +    I+    +  + 
Sbjct: 133 FFQNQLELRANATAQAGVYLGELAKVPVPSPPLPEQKKIAAILTSVDEVIEKTQAKIDKL 192

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFA--LVTELNRKNT 249
            +L     Q L++  V     P  + KDS +   G VP  WEV        V +      
Sbjct: 193 KDLKTGMMQELLTCGVGVDGKPHTEFKDSPV---GRVPKGWEVVELDRAAKVIDCKHATP 249

Query: 250 KLIESNILSLSYGNIIQKLE-----TRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
           K   +    +  GNI +        +       ++         G+I++           
Sbjct: 250 KYFSNGFPVVKPGNIREGFLELRGCSLTDKAGFDNLNENHTPTIGDIIYSRNQTYGVGAY 309

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVK 363
           +  +       I      + P   +S +L +++ S  + +    + +G   + +    ++
Sbjct: 310 VNRSM---EFCIGQDVCVISPKKCNSIFLFYMINSPLVKEQVELLAAGSTFKRINLGSIR 366

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
           +L + +P I+EQ  I          ID  V  +E+ ++  K+ + + +   +TG+  ++
Sbjct: 367 KLKIALPCIEEQQAIG----AVFESIDNKVSLLEKKLIKKKDTKKALMQDLLTGKKRVK 421



 Score = 71.0 bits (172), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 37/206 (17%), Positives = 77/206 (37%), Gaps = 9/206 (4%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESG---KDIIYIGLEDVESGTG 61
           K + ++KDS V   G +PK W+VV + R  K+   + +           +   ++  G  
Sbjct: 213 KPHTEFKDSPV---GRVPKGWEVVELDRAAKVIDCKHATPKYFSNGFPVVKPGNIREGFL 269

Query: 62  KYLPKDGNSRQ--SDTSTVSIFAKGQILYGKLGPYL-RKAIIADFDGICSTQFLVLQPKD 118
           +        +    + +       G I+Y +   Y     +    +        V+ PK 
Sbjct: 270 ELRGCSLTDKAGFDNLNENHTPTIGDIIYSRNQTYGVGAYVNRSMEFCIGQDVCVISPKK 329

Query: 119 VLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
                L   + S  V +++E +  G+T    +   I  + + +P + EQ  I     +  
Sbjct: 330 CNSIFLFYMINSPLVKEQVELLAAGSTFKRINLGSIRKLKIALPCIEEQQAIGAVFESID 389

Query: 179 VRIDTLITERIRFIELLKEKKQALVS 204
            ++  L  + I+  +  K   Q L++
Sbjct: 390 NKVSLLEKKLIKKKDTKKALMQDLLT 415


>gi|253569703|ref|ZP_04847112.1| type I restriction-modification system [Bacteroides sp. 1_1_6]
 gi|251840084|gb|EES68166.1| type I restriction-modification system [Bacteroides sp. 1_1_6]
          Length = 478

 Score =  144 bits (364), Expect = 2e-32,   Method: Composition-based stats.
 Identities = 62/409 (15%), Positives = 133/409 (32%), Gaps = 32/409 (7%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQS 73
            +P +W  + +       +G T           +I ++   D+  G    +P+       
Sbjct: 70  EVPDNWVWMTLGEVGTWQSGGTPSRSNKTYYGGNIPWLKTGDLNDGLISDIPESITEEAV 129

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
             S+  I   G +L    G  + K  I  F    +         + +   L  +   +  
Sbjct: 130 ANSSAKINPAGSVLIAMYGATIGKLGILTFPATTNQACCACIEFNAI-TQLYLFYFLLSQ 188

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
                A   G    +   + I N  +P+PPL+EQ  I  +I      ID +   +     
Sbjct: 189 RNGFIAKGGGGAQPNISKEIIVNTFIPLPPLSEQQRIVMEIEKWFALIDQVEQGKADLQN 248

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWV---------------GLVPDHWEV---K 235
            +K+ K  ++   +   L P     +  I+ +                 +P  W      
Sbjct: 249 TIKQTKSKILDLAIHGKLVPQDPNDEPAIKLLKRINPDFTPCDNGHSRKLPQGWYSVTAN 308

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQK--LETRNMGLKPESYETYQI-VDPGEIV 292
              +++  ++     + ++ I  L  GNI     ++  +      SY+     V  G+I+
Sbjct: 309 DVCSIIGGVSYNKADIQDTGIRVLRGGNIQNGKVIDCFDDVFISLSYQNNDNQVQRGDII 368

Query: 293 FRFIDLQ---NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
                       K       + +  I     +        S Y+  + ++         +
Sbjct: 369 VVASTGSQTLIGKTGFADRDIPKTQIGAFLRIVRPKQKTLSPYIRLIFQTDAYKDYIRNV 428

Query: 350 GSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
             G    ++K   ++   + +PP++EQ  I   I    + +D ++  +E
Sbjct: 429 AKGSNINNVKNAHLQNFQICLPPLEEQQRIVQKIEELFSSLDDILTALE 477



 Score = 88.3 bits (217), Expect = 2e-15,   Method: Composition-based stats.
 Identities = 33/200 (16%), Positives = 62/200 (31%), Gaps = 12/200 (6%)

Query: 227 LVPDHWEVKPFFALVTELNRK-----NTKLIESNILSLSYGNIIQKLETRNMGLKPES-- 279
            VPD+W       + T  +       N      NI  L  G++   L +       E   
Sbjct: 70  EVPDNWVWMTLGEVGTWQSGGTPSRSNKTYYGGNIPWLKTGDLNDGLISDIPESITEEAV 129

Query: 280 -YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
              + +I   G ++         K  + +           A  A       +    +   
Sbjct: 130 ANSSAKINPAGSVLIAMYGATIGKLGILTF----PATTNQACCACIEFNAITQLYLFYFL 185

Query: 339 SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
                      G G + ++  E +    + +PP+ EQ  I   I    A ID + +    
Sbjct: 186 LSQRNGFIAKGGGGAQPNISKEIIVNTFIPLPPLSEQQRIVMEIEKWFALIDQVEQGKAD 245

Query: 399 SIVLLKERRSSFIAAAVTGQ 418
               +K+ +S  +  A+ G+
Sbjct: 246 LQNTIKQTKSKILDLAIHGK 265


>gi|300087441|ref|YP_003757963.1| restriction modification system DNA specificity domain-containing
           protein [Dehalogenimonas lykanthroporepellens BL-DC-9]
 gi|299527174|gb|ADJ25642.1| restriction modification system DNA specificity domain protein
           [Dehalogenimonas lykanthroporepellens BL-DC-9]
          Length = 385

 Score =  144 bits (363), Expect = 2e-32,   Method: Composition-based stats.
 Identities = 57/404 (14%), Positives = 134/404 (33%), Gaps = 30/404 (7%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESG------KDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
             W+V  +    ++  G T           +I +  + D+ +                 S
Sbjct: 3   NGWQVKALGDICQVIGGGTPSKSIAEYYVGNIPWATVRDMRTDLITETEHKITHVAVKNS 62

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
              I + G ++        +  ++     I      ++     +  +   +     V   
Sbjct: 63  ATKIISNGNVVIATRVGLGKVCLLGQDTAINQDLRGIVPKDSNILFVRYLFWWLKSVVDT 122

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           I A   GAT+       I ++ +P+PPL EQ  I   +      I T   +  + ++  +
Sbjct: 123 IVAEGTGATVQGVKLPFIKSLQIPLPPLPEQQRIVTILDEAFEGIATAKAKAEKNLQNAR 182

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
              ++ ++ + ++     V+ + S I                 +     +KN  L     
Sbjct: 183 ALFESHLNSVFSRRGEGWVERRLSDI--------------CVFINGRAYKKNEMLSAGKY 228

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
             L  GN     +           E  +  D G++++ +      +          + + 
Sbjct: 229 PLLRVGNFFTNNDWY---YTDLDLEPAKYCDTGDLLYAWSASFGPRI-----WEGGKVVY 280

Query: 317 TSAYMAVKPHGID-STYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKE 374
                 V P+    +      + S+D+ ++    G+G     +    +++  V VPP+++
Sbjct: 281 HYHIWKVIPNINLTNKRFLLYLLSWDVEQIKQLHGTGTTMMHVSKGSIEKRIVPVPPLEQ 340

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           Q  I N ++        L    ++ +  L+E + S +  A +G+
Sbjct: 341 QKYIVNNLDKLKTETQHLQSIYQKKLAALEELKKSLLHQAFSGE 384



 Score = 71.4 bits (173), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 33/189 (17%), Positives = 62/189 (32%), Gaps = 1/189 (0%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + W    +        GR  +  + +       +  G   +   D      D        
Sbjct: 198 EGWVERRLSDICVFINGRAYKKNEMLSAGKYPLLRVGNF-FTNNDWYYTDLDLEPAKYCD 256

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
            G +LY     +  +             + V+   ++  +    +LLS DV Q  +    
Sbjct: 257 TGDLLYAWSASFGPRIWEGGKVVYHYHIWKVIPNINLTNKRFLLYLLSWDVEQIKQLHGT 316

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           G TM H     I    +P+PPL +Q  I   +         L +   + +  L+E K++L
Sbjct: 317 GTTMMHVSKGSIEKRIVPVPPLEQQKYIVNNLDKLKTETQHLQSIYQKKLAALEELKKSL 376

Query: 203 VSYIVTKGL 211
           +    +  L
Sbjct: 377 LHQAFSGEL 385


>gi|149177179|ref|ZP_01855785.1| type I restriction enzyme specificity protein [Planctomyces maris
           DSM 8797]
 gi|148843893|gb|EDL58250.1| type I restriction enzyme specificity protein [Planctomyces maris
           DSM 8797]
          Length = 398

 Score =  144 bits (362), Expect = 3e-32,   Method: Composition-based stats.
 Identities = 50/393 (12%), Positives = 114/393 (29%), Gaps = 12/393 (3%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           +   +     L  GR  +  + +       +  G   +  +       +        +G 
Sbjct: 6   QKCRLGEICTLLNGRAYKKKELLDSGKYPVLRVGNF-FTNRSWYYSDLELDDNKYCEEGD 64

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           +LY     +  +             + V   +  + +    +    D  +       G T
Sbjct: 65  LLYAWSASFGPRIWSGPKVIYHYHIWKVQLDESKVNKNFLCYWFGWDSEKIRSEQGTGTT 124

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
           M H     + +  + +PPL+EQ  I   +      I        R +   +E   + ++ 
Sbjct: 125 MIHVTKGSMEDRELCLPPLSEQKRIVAILDEAFGAIARAKENAARNLANARELFDSYLNR 184

Query: 206 IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII 265
           + T+      + K S I                  +              I +    N  
Sbjct: 185 VFTEKGEGWEEKKLSEIAKTFGRGKSRHRPRNDKSLYGGEY-------PFIQTGEIRNAN 237

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
             +         +     ++   G +         +   L     +   +I    +   P
Sbjct: 238 HYITKFTQTYNEKGLAQSKLWPVGTLCITIAANIAETAILTFDACIPDSVIG---LVCDP 294

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
              +  ++ +L++++         GS  + ++     +R+    P + EQ  I   +N  
Sbjct: 295 EKANVDFVEYLLQNFKSGLQAEGKGS-AQDNINMGTFERMLFPFPSVSEQEKIVCELNAI 353

Query: 386 TARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
               + L    +Q +  L E + S +  A TGQ
Sbjct: 354 AESCNNLSPIYQQKLTALDELKQSLLQKAFTGQ 386



 Score = 62.5 bits (150), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 27/199 (13%), Positives = 65/199 (32%), Gaps = 10/199 (5%)

Query: 23  KHWKVVPIKRFTK-LNTGRT---SESGK-----DIIYIGLEDVESGTGKYLPKDGNSRQS 73
           + W+   +    K    G++     + K     +  +I   ++ +             + 
Sbjct: 191 EGWEEKKLSEIAKTFGRGKSRHRPRNDKSLYGGEYPFIQTGEIRNANHYITKFTQTYNEK 250

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
             +   ++  G +    +   + +  I  FD       + L        +     L  + 
Sbjct: 251 GLAQSKLWPVGTLCIT-IAANIAETAILTFDACIPDSVIGLVCDPEKANVDFVEYLLQNF 309

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
              ++A  +G+   + +      +  P P ++EQ  I  ++ A     + L     + + 
Sbjct: 310 KSGLQAEGKGSAQDNINMGTFERMLFPFPSVSEQEKIVCELNAIAESCNNLSPIYQQKLT 369

Query: 194 LLKEKKQALVSYIVTKGLN 212
            L E KQ+L+    T  L 
Sbjct: 370 ALDELKQSLLQKAFTGQLT 388


>gi|146297668|ref|YP_001181439.1| restriction modification system DNA specificity subunit
           [Caldicellulosiruptor saccharolyticus DSM 8903]
 gi|145411244|gb|ABP68248.1| restriction modification system DNA specificity domain
           [Caldicellulosiruptor saccharolyticus DSM 8903]
          Length = 455

 Score =  144 bits (362), Expect = 3e-32,   Method: Composition-based stats.
 Identities = 68/432 (15%), Positives = 146/432 (33%), Gaps = 37/432 (8%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSE---SGKDIIYIGLEDVE-SGTGKYLPKDGNSRQSDT 75
             PK W +V ++R   L +G   +   S + I  +G E +   G   +   +        
Sbjct: 22  EFPKEWTIVSLERDCVLISGLRPKGGASDEGIPSLGGEHITLDGRINFSDVNAKYIPEKF 81

Query: 76  ST---VSIFAKGQILYGKLGPYLRKAIIADFDGI----CSTQFLVLQPKDVLPELLQGWL 128
                     +  IL  K G    K  +           +    +++ K +  +    + 
Sbjct: 82  FKIMTKGKTEENDILINKDGANTGKVAMLKKKFYKDIAINEHLFIIRSKKLFVQQYLFYW 141

Query: 129 LSIDV-TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
           L      ++I     G+         I N  +P PPL EQ  I E +      I+     
Sbjct: 142 LFSRFGQKQITDRITGSAQPGLSSTFIKNFLVPRPPLPEQRKIAEILETIDSAIEKTDAI 201

Query: 188 RIRFIELLKEKKQALVSYIVT---KGLNPDVKMKDSGIEW-----VGLVPDHWEVKPFFA 239
             ++  + +   Q L++  V    +G +   +++D  I+      +G +P+ WEV   + 
Sbjct: 202 IEKYKRIKQGLMQDLLTKGVVSEGEGESERWRLRDENIDKFKDSPLGRIPEEWEVVDVYG 261

Query: 240 LVTELNRKNT-------KLIESNILSLSYGNIIQKLETRNMGLKPE---SYETYQIVDPG 289
            V  +N                  LS+   NI ++    +     E        +++  G
Sbjct: 262 RVNLINGGTPSTARPEFWNGSIPWLSVEDFNIGKRWVFSSSKYITELGLKQSATKLLKKG 321

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
            ++            L +     +       +  K     S    +      +       
Sbjct: 322 MLIISARGTVGVLAQLGADMAFNQSCYG---LDAKDKMKLSNDFLYYALKNFITSFLSLA 378

Query: 350 GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
              +  ++  E  K + + +PP+ EQ  I +++    ++ID ++EK +     L+  +  
Sbjct: 379 YGNVFNTITRETFKEILIPLPPLPEQQRIASIL----SQIDEVIEKEQAYKEKLERIKKG 434

Query: 410 FIAAAVTGQIDL 421
            +   +TG++ +
Sbjct: 435 LMEDLLTGKVRV 446



 Score = 71.7 bits (174), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 35/212 (16%), Positives = 68/212 (32%), Gaps = 17/212 (8%)

Query: 8   PQYKDSGVQWIGAIPKHWKVVPIKRF---TKLNTGRTSES------GKDIIYIGLEDVES 58
            ++KDS    +G IP+ W+VV          L  G T  +         I ++ +ED   
Sbjct: 240 DKFKDSP---LGRIPEEWEVV---DVYGRVNLINGGTPSTARPEFWNGSIPWLSVEDFNI 293

Query: 59  GTGKYL--PKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP 116
           G        K         S   +  KG ++    G     A +        + + +   
Sbjct: 294 GKRWVFSSSKYITELGLKQSATKLLKKGMLIISARGTVGVLAQLGADMAFNQSCYGLDAK 353

Query: 117 KDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIA 176
             +       +    +      ++  G   +    +    I +P+PPL EQ  I   +  
Sbjct: 354 DKMKLSNDFLYYALKNFITSFLSLAYGNVFNTITRETFKEILIPLPPLPEQQRIASILSQ 413

Query: 177 ETVRIDTLITERIRFIELLKEKKQALVSYIVT 208
               I+     + +   + K   + L++  V 
Sbjct: 414 IDEVIEKEQAYKEKLERIKKGLMEDLLTGKVR 445


>gi|300114985|ref|YP_003761560.1| restriction modification system DNA specificity domain-containing
           protein [Nitrosococcus watsonii C-113]
 gi|299540922|gb|ADJ29239.1| restriction modification system DNA specificity domain protein
           [Nitrosococcus watsonii C-113]
          Length = 393

 Score =  144 bits (362), Expect = 4e-32,   Method: Composition-based stats.
 Identities = 57/407 (14%), Positives = 131/407 (32%), Gaps = 42/407 (10%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDI------IYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           + WK++ +     ++ G ++   K++      +++   DV       +    +       
Sbjct: 3   EGWKIISLGEIATVSAGSSAPQNKELFEGGTHLFVRTSDVGKIRVGLINNSADKLNEKGI 62

Query: 77  TV-SIFAKGQILYGKLGP--YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
               +F  G IL+ K G   +L   +I   +   S+    ++ K               V
Sbjct: 63  KKLKLFPSGTILFPKSGASTFLNHRVILTCNAYVSSHLAAIKAKTQSALDRYLLHYLTTV 122

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
             +   + +           I  I +P+P + EQ  I   +      I   +    + + 
Sbjct: 123 KAQD--LIQDHKYPSLKVSDIQGIEIPLPSIPEQKRIVAILDEAFEGIGRAVANAEKNLA 180

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
              E  ++ ++ + T+     V+ K      +G V  + + K      ++    N     
Sbjct: 181 NACELFESYLNSVFTQKGEGWVERK------LGDVCKNLDSKRIPITKSKRKSGNIPYYG 234

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS--LRSAQVM 311
           ++ +                      Y    I D   ++          R+  +  +   
Sbjct: 235 ASGIV--------------------DYVADFIFDEDLLLVSEDGANLLARTYPIAFSISG 274

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
           +  +   A++          ++ + + S  L      M    +  L  + +  +PV +PP
Sbjct: 275 KTWVNNHAHVLRFDEISSQRFIEYYLNSISLVPYVSGMA---QPKLNQKALNSIPVSLPP 331

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
             EQ  I   ++  +A         +Q +  L E + S +  A TG+
Sbjct: 332 ADEQRKIVTQLDKLSAETHRFEAIYQQKLTALAELKQSLLHKAFTGE 378


>gi|325919356|ref|ZP_08181389.1| restriction endonuclease S subunit [Xanthomonas gardneri ATCC
           19865]
 gi|325550169|gb|EGD20990.1| restriction endonuclease S subunit [Xanthomonas gardneri ATCC
           19865]
          Length = 408

 Score =  143 bits (361), Expect = 4e-32,   Method: Composition-based stats.
 Identities = 55/416 (13%), Positives = 142/416 (34%), Gaps = 38/416 (9%)

Query: 24  HWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
            W   P+    K+ +G T +       G +I +I   +V+  T     +         S+
Sbjct: 5   GWSQHPLGDIAKVTSGGTPDRSTPSYWGGNIPWITTGEVQFNTITDSAEKITELGLKNSS 64

Query: 78  VSIFAKGQILYGKLGP--YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
             +F  G +L    G      +      +   +     +            +       +
Sbjct: 65  AKLFPIGTLLVAMYGQGKTRGQIAKLGIEAATNQACAAILFDARND-PDFHFQYLASQYE 123

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            +  +    T  + +   +  I +P+PP+ EQ  I   +       D  I    R +   
Sbjct: 124 ELRELGNAGTQKNLNGGILKRILVPVPPIQEQRRIAHIL----STWDQAIATTERLLANA 179

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
             +++ L + +   G +  +                W+      +   + R+NT    + 
Sbjct: 180 CTQRKTLTNALFVHGRHSSM------------TTHGWKFADLDEVFERVTRRNTTANSNV 227

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRF-IDLQNDKRSLRSAQVMERG 314
           +       ++ + +  N  +  E+   Y +++ GE  +           +++     ++G
Sbjct: 228 LTISGTRGLVSQRDYFNKSVASENLSGYTLIERGEFAYNKSYSAGYPMGAIKPLTRYDQG 287

Query: 315 IITSAYMAVKPHGI---DSTYLAWLMRSYDLCKVFYAMGS-GLRQ----SLKFEDVKRLP 366
           +++S Y+  +       D+ +         L +    +   G R     ++   D  +L 
Sbjct: 288 VVSSLYICFRLRDGVEADADFFRHYFEVGMLNEGLSGIAQEGARNHGLLNVGVGDFFKLR 347

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
           + +P + EQ  +  ++N+   +     + I   +  L++ + + ++  +TG+  +R
Sbjct: 348 LHIPDVTEQRRVAAILNMAEQK----EQLITAQLDKLRDEKKALMSQLLTGKRRVR 399


>gi|17230179|ref|NP_486727.1| type I restriction-modification enzyme S subunit [Nostoc sp. PCC
           7120]
 gi|17131780|dbj|BAB74386.1| type I restriction-modification enzyme S subunit [Nostoc sp. PCC
           7120]
          Length = 427

 Score =  143 bits (361), Expect = 4e-32,   Method: Composition-based stats.
 Identities = 63/430 (14%), Positives = 134/430 (31%), Gaps = 31/430 (7%)

Query: 8   PQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKY 63
             Y+ +     G +P  WK+  +       T  T ++ K     I ++    V+ G   +
Sbjct: 9   ESYQKTE---FGIVPNDWKIRKLVECCNKITDGTHDTPKPLAQGIPFLTAIHVKEGFIDF 65

Query: 64  LPKDGNSRQSDTSTVSIF--AKGQILYGKLGPYLRKAIIADFDGICS--TQFLVLQPKDV 119
                  +    S        K  +L   +G  +    + D +   S     L+   K+ 
Sbjct: 66  NNCYYLPQSIHESIYKRCNPEKNDVLMVNIGAGVATTALIDVEYEFSLKNVALLKPDKNN 125

Query: 120 LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPP-LAEQVLIREKIIAET 178
           L      + LS++  +    +  G        K IG I +PIPP + EQ  I + +    
Sbjct: 126 LIGSYLNYCLSLNKFRITNQLLSGGAQPFLSLKQIGEISIPIPPTIEEQEAIAQSLSDVD 185

Query: 179 VRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFF 238
             I        +     +   Q L        L  + ++     EW     +        
Sbjct: 186 ALITECDRIIAKKHNTKQGTMQQL--------LTGEKRLPGFSGEWEVEEFEQVLKVVDG 237

Query: 239 ALVTELNRKNTKLIESNILSLSYGNIIQKL----ETRNMGLKPESYETYQIVDPGEIVFR 294
                    +        L LS  N+ +      +   +  + ++      +   ++V  
Sbjct: 238 DRGDNYPSNDELFDNGYCLFLSAKNVTKGGFKFSDCTFITKEKDNLLGNGKLCKKDVVLT 297

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKP--HGIDSTYLAWLMRSYDLCKVFYAMG-S 351
                 +      +   E   I S  + ++     +D++YL   ++S+            
Sbjct: 298 TRGTVGNIAFFDYSVPFENIRINSGMVILRSEDKNLDNSYLYSFLKSHLFQTQIDRAVFG 357

Query: 352 GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
             +  L  + + +  + V  + EQ  I  +++         +  +EQ     K  +   +
Sbjct: 358 SAQPQLTVKGISKFKIPVSSLPEQKAIAQILSDMDTE----IAALEQKRDKYKAIKQGMM 413

Query: 412 AAAVTGQIDL 421
              +TG+  L
Sbjct: 414 QELLTGKTRL 423



 Score = 92.2 bits (227), Expect = 1e-16,   Method: Composition-based stats.
 Identities = 32/211 (15%), Positives = 74/211 (35%), Gaps = 14/211 (6%)

Query: 224 WVGLVPDHWEVKPFFALVT---ELNRKNTKLIESNILSLSYGNIIQKLETRNMGL----- 275
             G+VP+ W+++          +      K +   I  L+  ++ +     N        
Sbjct: 15  EFGIVPNDWKIRKLVECCNKITDGTHDTPKPLAQGIPFLTAIHVKEGFIDFNNCYYLPQS 74

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
             ES       +  +++   I       +L   +  E  +   A +    + +  +YL +
Sbjct: 75  IHESIYKRCNPEKNDVLMVNIGAGVATTALIDVE-YEFSLKNVALLKPDKNNLIGSYLNY 133

Query: 336 LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP-IKEQFDITNVINVETARIDVLVE 394
            +           +  G +  L  + +  + + +PP I+EQ  I   ++      D L+ 
Sbjct: 134 CLSLNKFRITNQLLSGGAQPFLSLKQIGEISIPIPPTIEEQEAIAQSLSDV----DALIT 189

Query: 395 KIEQSIVLLKERRSSFIAAAVTGQIDLRGES 425
           + ++ I      +   +   +TG+  L G S
Sbjct: 190 ECDRIIAKKHNTKQGTMQQLLTGEKRLPGFS 220


>gi|118497744|ref|YP_898794.1| type I restriction-modification system, subunit S [Francisella
           tularensis subsp. novicida U112]
 gi|194323716|ref|ZP_03057492.1| type I restriction modification DNA specificity domain protein
           [Francisella tularensis subsp. novicida FTE]
 gi|118423650|gb|ABK90040.1| type I restriction-modification system, subunit S [Francisella
           novicida U112]
 gi|194322080|gb|EDX19562.1| type I restriction modification DNA specificity domain protein
           [Francisella tularensis subsp. novicida FTE]
          Length = 407

 Score =  143 bits (361), Expect = 4e-32,   Method: Composition-based stats.
 Identities = 66/414 (15%), Positives = 138/414 (33%), Gaps = 24/414 (5%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
           +  +P  W+   +    K+ + +         K I +    ++          +      
Sbjct: 4   LYKLPAGWEWKKLGDLFKITSSKRVHKKDWLDKGIPFYRAREIVKLAQNGYVDNELFISE 63

Query: 74  DT-----STVSIFAKGQILYGKLGPYLRKAII--ADFDGICSTQFLVLQPKDVLPELLQG 126
           D      S   +  +  IL   +G      ++   D         + L+ ++        
Sbjct: 64  DMYNSFASKYGLPKENDILVTGVGTLGIPFVVKKNDKFYFKDGNIIWLKNENGTNPKYIE 123

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           +  S    +       G+T++        N  +P+PPLAEQ  I  K+ +   +ID  I 
Sbjct: 124 YCFSSQDVRNQINSNNGSTVATYTITNANNTIIPLPPLAEQKRIVAKLDSLFEKIDKAIE 183

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
              + I        + +     K              ++G                 ++ 
Sbjct: 184 LHQQNITNANTLMASTLDKTFKKLEGEYGMNDILDGIYIG--------CRKGYKPEIIDG 235

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
           K   +   +I   +  N    LE      K ++      V  G+I       QN+K S+ 
Sbjct: 236 KVPFIGMQDIDQYNGINTNYVLEDYEKVSKGKTKFEKNAVLVGKITPC---TQNNKTSIV 292

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM--GSGLRQSLKFEDVKR 364
            + +      T  Y     + ++  YL + +RS D+     +   G+  RQ +  + +  
Sbjct: 293 PSNINGGFATTEVYALHSKNNMNPFYLNYFVRSKDINDYLVSTMIGATGRQRVPSDAITS 352

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           L + +PP+  Q      ++    ++D + +  EQ +  LK  ++S +  A  G+
Sbjct: 353 LKIPLPPLPIQQQTVEYLDSIATKVDKIKQLNEQKLENLKALKASILDKAFRGE 406



 Score = 89.9 bits (221), Expect = 7e-16,   Method: Composition-based stats.
 Identities = 24/194 (12%), Positives = 56/194 (28%), Gaps = 12/194 (6%)

Query: 224 WVGLVPDHWEVKPFFALVTELNRKNTKLIES-----------NILSLSYGNIIQKLETRN 272
            +  +P  WE K    L    + K     +             I+ L+    +      +
Sbjct: 3   ELYKLPAGWEWKKLGDLFKITSSKRVHKKDWLDKGIPFYRAREIVKLAQNGYVDNELFIS 62

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
             +       Y +    +I+   +        ++                   +G +  Y
Sbjct: 63  EDMYNSFASKYGLPKENDILVTGVGTLGIPFVVKKNDKFYFKDGN-IIWLKNENGTNPKY 121

Query: 333 LAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
           + +   S D+     +       +    +     + +PP+ EQ  I   ++    +ID  
Sbjct: 122 IEYCFSSQDVRNQINSNNGSTVATYTITNANNTIIPLPPLAEQKRIVAKLDSLFEKIDKA 181

Query: 393 VEKIEQSIVLLKER 406
           +E  +Q+I      
Sbjct: 182 IELHQQNITNANTL 195


>gi|194335173|ref|YP_002019739.1| restriction modification system DNA specificity domain
           [Prosthecochloris aestuarii DSM 271]
 gi|194312991|gb|ACF47385.1| restriction modification system DNA specificity domain
           [Prosthecochloris aestuarii DSM 271]
          Length = 417

 Score =  143 bits (360), Expect = 5e-32,   Method: Composition-based stats.
 Identities = 65/405 (16%), Positives = 132/405 (32%), Gaps = 34/405 (8%)

Query: 24  HWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKY--LPKDGNSRQSDT 75
            W V  +    +   G T           +I +I   DV   +     + +   +     
Sbjct: 26  EWGVACLGDLGEFAGGGTPSKTISEYWDGNIPWISSSDVSDESITDVSISRFITNEAIKC 85

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
           S   +   G IL        + AII D     S  F    P       L  +L S     
Sbjct: 86  SATKLIPSGSILLVSRVGVGKLAII-DSPVCTSQDFTNFTPSKDNALFLGYYLKSNG--H 142

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            +E +C+G  +       +  I + +P L EQ  I + + +    I     +        
Sbjct: 143 ALENLCQGMAIKGFTKNDVSKIVLALPDLTEQQKIADCLFSLNALIAAHAEKIEALKT-- 200

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
              K+ L+  +  +      +++       G          F   V +         +  
Sbjct: 201 --HKKGLMQQLFPREGETVPRLRFPEFRDAGE-----WESAFGDNVFDQVSNKEHNSDLP 253

Query: 256 ILSLS--YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
           +L+++  +G I + +   ++ +  +S E Y++VD G+ +      Q             +
Sbjct: 254 VLAITQEHGAIPRDMIDYHVSVTDKSIEGYKVVDVGDFIISLRSFQG-----GIEYSRFK 308

Query: 314 GIITSAY-MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS--LKFEDVKRLPVLVP 370
           GI + AY +     G  + Y    +++            GLR    + ++    L + +P
Sbjct: 309 GICSPAYVILRLRKGYSAGYFRQYLKTDRFISQLTKNLEGLRDGKMISYKQFSELSLPIP 368

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
              EQ  I + +    + +D L+    + +  LK  +   +    
Sbjct: 369 SQNEQQKIADCL----SSLDALIAAHAEKLDALKTHKKGLMQQLF 409


>gi|160903326|ref|YP_001568907.1| restriction modification system DNA specificity subunit [Petrotoga
           mobilis SJ95]
 gi|160360970|gb|ABX32584.1| restriction modification system DNA specificity domain [Petrotoga
           mobilis SJ95]
          Length = 433

 Score =  143 bits (360), Expect = 6e-32,   Method: Composition-based stats.
 Identities = 86/438 (19%), Positives = 173/438 (39%), Gaps = 39/438 (8%)

Query: 4   YKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKY 63
           Y+   +YK++    +G +PK W+VV +   ++L  G+T +      Y G   ++    + 
Sbjct: 6   YQK-EEYKETE---LGLLPKDWEVVRLGEVSELQQGKTPKRDDYEDYKGYRIIKVKDYEN 61

Query: 64  LPKDGNSRQSDTSTVS-------IFAKGQILY-------GKLGPYLRKA--IIADFDGIC 107
             K  N  + D S V           +G  L          +G  +     I +      
Sbjct: 62  ENKISNIIKGDRSFVKTDFGERCRIKEGDSLILSAAHSSNIVGQKIGYVKEIPSQKTFFV 121

Query: 108 STQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQ 167
           +    V   K+++P      L+ +    +I    +G    H   K +G I +P+PPL+EQ
Sbjct: 122 AELIRVRPKKNIIPYFCFLSLILMSSRNQIREEVKGG---HLYPKNLGKIRIPLPPLSEQ 178

Query: 168 VLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLN--PDVKMKDSGIEWV 225
             I   +      +     +    I+  KE K+++++++ T G     +V+        +
Sbjct: 179 KKIAYVL----SSVQEAKEKTEDVIKATKELKKSMMNHLFTYGPVSLEEVEKVPLKETEI 234

Query: 226 GLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI 285
           GLVP+ WEVK F  +V            + I           ++ R  GL          
Sbjct: 235 GLVPEEWEVKNFGEIVEIRKEIIDPSNGNYIYVGLEHIESGNIKLRKTGLSKGVKSAKYK 294

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK-PHGIDSTYLAWLMRSYDLCK 344
           + P +I++  +    DK  L      + GI ++  +  K    + ++++A+L  +    +
Sbjct: 295 IYPNDILYAKLRPYLDKGILVE----QEGICSTDLLVFKAKENVYASFIAYLEHTNYFRE 350

Query: 345 VFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
                 +G+      +  + +L + +PP+ EQ  I ++++     ID  +E  E     L
Sbjct: 351 YAIKTMTGVNHPRTSWRALSQLTIPLPPLSEQKKIASILSA----IDQKIEAEESKKKAL 406

Query: 404 KERRSSFIAAAVTGQIDL 421
           ++   S +   +T +I +
Sbjct: 407 EDLFKSLLHNLMTAKIRV 424


>gi|297618847|ref|YP_003706952.1| restriction modification system DNA specificity domain-containing
           protein [Methanococcus voltae A3]
 gi|297377824|gb|ADI35979.1| restriction modification system DNA specificity domain protein
           [Methanococcus voltae A3]
          Length = 412

 Score =  143 bits (360), Expect = 6e-32,   Method: Composition-based stats.
 Identities = 62/426 (14%), Positives = 150/426 (35%), Gaps = 29/426 (6%)

Query: 8   PQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKD-----IIYIGLEDVESGTGK 62
             YK++    IG IP  W+V  +             + K        +I   ++++GT  
Sbjct: 4   EGYKETK---IGLIPNDWEVKKLGDVCSFIGDGIHSTPKYCTNGKYYFINGNNLKNGTIV 60

Query: 63  YLPKDGNSRQSDTSTVS-IFAKGQILYGKLGPYLRKAIIADFDGICS-TQFLVLQPKDVL 120
           +          + + +    A+  +L    G     +   +   +   +   +      +
Sbjct: 61  HTNDTKLISFEEFNKLKQKIAEDALLLSINGTIGNCSYYNNEKILLGKSVAYINLKNKNI 120

Query: 121 PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
              +   + S     +  +   G+T+ +   K + N+ +P+PPL EQ  I E +     +
Sbjct: 121 KNFIYYVIQSPRTVSQFYSELTGSTIKNLSLKSLRNLCIPLPPLKEQQKIAEIL----TK 176

Query: 181 IDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFAL 240
            D  I      I   +E K+ L+  ++T  +      ++     +G +    +       
Sbjct: 177 WDNHIETLENLISKKEEYKKGLMQNLLTGKVRFPGFNEEWKEVKLGEICKFLKGNGLSKE 236

Query: 241 VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVF-RFIDLQ 299
               N K   ++   +            E     L    ++     + G+I+        
Sbjct: 237 KLNKNGKFKCILYGELY-------TTYSEVIKEVLSKTDFKEKIHSEKGDILIPASTTTT 289

Query: 300 NDKRSLRSAQVMERGIITSAYMA---VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS 356
               +  +A   E  I+            +  ++ +LA+ +      ++           
Sbjct: 290 GIDLANATAINEENVILGGDINILRKKYENKYNNEFLAYYLTYGKKYELAKYAQGTTIVH 349

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           L  +D+K + + +P ++EQ  I  V++++       +E +++ + LLK ++   +   +T
Sbjct: 350 LYGKDIKNMKIQLPTLEEQEQIAEVLSLQDKE----IEILKEKLELLKMQKKGLMQKLLT 405

Query: 417 GQIDLR 422
           G+I ++
Sbjct: 406 GEIRVK 411



 Score = 93.3 bits (230), Expect = 6e-17,   Method: Composition-based stats.
 Identities = 33/208 (15%), Positives = 78/208 (37%), Gaps = 10/208 (4%)

Query: 225 VGLVPDHWEVKPFFALV----TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
           +GL+P+ WEVK    +       ++             ++  N+           K  S+
Sbjct: 11  IGLIPNDWEVKKLGDVCSFIGDGIHSTPKYCTNGKYYFINGNNLKNGTIVHTNDTKLISF 70

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT-SAYMAVKPHGIDSTYLAWLMRS 339
           E +  +         +   N      S    E+ ++  S       +     ++ ++++S
Sbjct: 71  EEFNKLKQKIAEDALLLSINGTIGNCSYYNNEKILLGKSVAYINLKNKNIKNFIYYVIQS 130

Query: 340 YDLCKVFYA-MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
                 FY+ +     ++L  + ++ L + +PP+KEQ  I  ++      I+ L   I +
Sbjct: 131 PRTVSQFYSELTGSTIKNLSLKSLRNLCIPLPPLKEQQKIAEILTKWDNHIETLENLISK 190

Query: 399 SIVLLKERRSSFIAAAVTGQIDLRGESQ 426
                +E +   +   +TG++   G ++
Sbjct: 191 K----EEYKKGLMQNLLTGKVRFPGFNE 214


>gi|325283709|ref|YP_004256250.1| restriction modification system DNA specificity domain-containing
           protein [Deinococcus proteolyticus MRP]
 gi|324315518|gb|ADY26633.1| restriction modification system DNA specificity domain protein
           [Deinococcus proteolyticus MRP]
          Length = 396

 Score =  143 bits (360), Expect = 6e-32,   Method: Composition-based stats.
 Identities = 56/408 (13%), Positives = 127/408 (31%), Gaps = 42/408 (10%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           +P+ W+ V +    +  +G T    K      DI +I   ++ SG      +        
Sbjct: 18  VPEGWRGVKLGEMVECFSGGTPSRTKPEYYGGDIPWIKSGELNSGNIYATEETITEAGLQ 77

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
            S+  +   G +L+   G           D   +   L ++P + L      + LS  V 
Sbjct: 78  NSSAKVAKAGTLLFALYGATAGVIGRTRIDAAINQAILAIEPSEELLSEFLEYFLSSSVG 137

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             +     G    + +   +   P+ +PPL EQ  I   +      +  L        + 
Sbjct: 138 NLLHLTQGG--QPNFNAGIVKGFPLLLPPLPEQRKIAAILSTWDDSLANLTDLLAAKRQQ 195

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
            +   +AL        L    ++     EW     +  ++     +   +   +  L  S
Sbjct: 196 KRGLAEAL--------LTGQKRLPGFEGEW-----EEKKLGDIAKVYQPVTITSADLKAS 242

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
                     I              Y+ Y       +V               ++  +  
Sbjct: 243 GYPVYGANGKIGY------------YDKYNHEQWQTLVTCRGSSSG-----AVSRSEDYA 285

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKE 374
            IT   M +    +      ++ +          +    +  +  + ++   + +PP+ E
Sbjct: 286 WITGNAMVINVDNVLKVDKQFIYQMMLSKDFSSLVSGSGQPQITKKPLEDFAISLPPLPE 345

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
           Q  I +V++   + I  L          ++E++   +   +TG++ ++
Sbjct: 346 QQAIASVLSTLDSEIASLEALK----AKVQEQKRGLMDELLTGRVRVK 389



 Score = 67.9 bits (164), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 29/210 (13%), Positives = 68/210 (32%), Gaps = 21/210 (10%)

Query: 229 PDHWEVKPFFALVTELNRK-----NTKLIESNILSLSYGNIIQKLETRNMGLKPES---Y 280
           P+ W       +V   +         +    +I  +  G +             E+    
Sbjct: 19  PEGWRGVKLGEMVECFSGGTPSRTKPEYYGGDIPWIKSGELNSGNIYATEETITEAGLQN 78

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY 340
            + ++   G ++F           +     ++  I  +         + S +L + + S 
Sbjct: 79  SSAKVAKAGTLLFALYGAT---AGVIGRTRIDAAINQAILAIEPSEELLSEFLEYFLSSS 135

Query: 341 DLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
                   +  G + +     VK  P+L+PP+ EQ  I  +++     +  L + +    
Sbjct: 136 VGN--LLHLTQGGQPNFNAGIVKGFPLLLPPLPEQRKIAAILSTWDDSLANLTDLLAAK- 192

Query: 401 VLLKERRSSFIAAAVTGQIDLRG----ESQ 426
              ++++     A +TGQ  L G      +
Sbjct: 193 ---RQQKRGLAEALLTGQKRLPGFEGEWEE 219


>gi|199581429|gb|ACH89416.1| FclIS [Flavobacterium columnare]
          Length = 393

 Score =  143 bits (359), Expect = 7e-32,   Method: Composition-based stats.
 Identities = 65/418 (15%), Positives = 148/418 (35%), Gaps = 38/418 (9%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDG 68
           Q+K++    IG IP+ W+V  +     L  GR     + +       +  G   +     
Sbjct: 5   QFKNTD---IGLIPEDWEVKQLGEVITLINGRAYSQNELLFNGKYRVLRVGNF-FSSDKW 60

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL 128
                + ++     KG ++Y             +   I       ++  + L +    ++
Sbjct: 61  YWSNLELASKFYVNKGDLMYAWS-ASFGPKFWKNEKTIYHYHIWKIELSEYLDKFYLFYV 119

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
           L  D  + I    +G TM H   + +    +PIP L EQ  I E +      I++L    
Sbjct: 120 LEKD-KENILNQSQGGTMFHITKESMEKRKIPIPSLKEQQAIAEVLSDTDAWIESLEKLI 178

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN 248
            +   + +   Q L++             +D  ++ +G + +          V +   + 
Sbjct: 179 TKKRLVKQGAMQQLLT-----------PKEDWEVKKLGEIAE----------VRDGTHQT 217

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYE---TYQIVDPGEIVFRFIDLQNDKRSL 305
              +ES I   S  ++ +        +  + ++       ++ G+I+   I    D + +
Sbjct: 218 PTYVESGIPFYSVESVTKNDFKNTKYISEQEHKILTKSFRIEKGDILMTRIGSIGDCKLI 277

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF--YAMGSGLRQSLKFEDVK 363
                +      S  +        + YL    ++ +  K     ++ S + + +    + 
Sbjct: 278 --DWDVNASFYVSLALLKVKPIFSANYLCHYSKTENFKKEIDINSLQSAIPKKINLGPIS 335

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            + +  P + EQ  I  +++   A I+ L    E+ +   K+ +   +   +TG+I L
Sbjct: 336 NVKIEFPSLDEQQRIATILSDMDAEIEHL----EKKLNKAKQLKQGIMQQLLTGKIRL 389


>gi|327401773|ref|YP_004342612.1| restriction modification system DNA specificity domain-containing
           protein [Archaeoglobus veneficus SNP6]
 gi|327317281|gb|AEA47897.1| restriction modification system DNA specificity domain protein
           [Archaeoglobus veneficus SNP6]
          Length = 420

 Score =  143 bits (359), Expect = 7e-32,   Method: Composition-based stats.
 Identities = 77/423 (18%), Positives = 162/423 (38%), Gaps = 31/423 (7%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSE----SGKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
           IG IP+ W+VV +   TK+N    +       ++  YI ++ +++   K   K    + +
Sbjct: 10  IGKIPEDWEVVRLGDVTKVNPESINPAKEAPDEEFYYIEIDSIQNSKIK-SVKKIIGKNA 68

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDG---ICSTQFLVLQPKDVLPELLQGWL-- 128
            +    +  +  ++   + PYL+  +I        ICST F VL+ K+ L E        
Sbjct: 69  PSRARRVVRENDVIMSTVRPYLKAFVIVPKKYDGQICSTGFAVLRCKNELIEPKYLLYNL 128

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
                 ++   +  G      +   +  + +P+PPL EQ  I E +      +D  I + 
Sbjct: 129 FMDRTIEQCNRLMVGGQYPALNQSHVEQLKIPLPPLPEQRKIAEIL----STVDEAIQKV 184

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR-- 246
              I   +  K+ L+  ++TKG+    + KD+ I   G +P  WEV     +  E     
Sbjct: 185 DEAIVKTERLKKGLMQELLTKGIG-HTEFKDTEI---GRIPKEWEVVRLGDVAYEFISGG 240

Query: 247 ----KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK 302
               K  K    +I  +   +I +         +  + E  +      I    + +    
Sbjct: 241 TPSTKVAKYWNGDIPWIRSVHITKFYIDERSIGQYITKEGLENSAAKIIPKNNLIIATRV 300

Query: 303 RSLRSAQVMERGIITSAY--MAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKF 359
              +SA  +    I      + +     +  +L W + S  +  +  +       + +  
Sbjct: 301 GIGKSAVNLIDVAINQDLTGIMLNKSKAEPFFLVWYLNSPKIVSLLESFSRGTTIKGIPQ 360

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
           + +K+L + +PP+ EQ  I  +++    ++    E   +    L+  +   +   +TG+ 
Sbjct: 361 DYIKKLLIPLPPLPEQQKIAEILSTVDKKL----ELERKRKEKLERIKKGLMNDLLTGRR 416

Query: 420 DLR 422
            ++
Sbjct: 417 RVK 419


>gi|323141886|ref|ZP_08076747.1| type I restriction modification DNA specificity domain protein
           [Phascolarctobacterium sp. YIT 12067]
 gi|322413633|gb|EFY04491.1| type I restriction modification DNA specificity domain protein
           [Phascolarctobacterium sp. YIT 12067]
          Length = 464

 Score =  143 bits (359), Expect = 8e-32,   Method: Composition-based stats.
 Identities = 67/410 (16%), Positives = 158/410 (38%), Gaps = 14/410 (3%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
            +P++W  V +    ++ TG T         G +  +    D++ G   Y   +  S + 
Sbjct: 36  EVPENWVWVRLGAIAEIVTGGTPSKKHPEYYGGNFPFYKPSDLDQGRLTYDASEYLSEEG 95

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
              +  I  K       +G   +   +    G  + Q     PK +    L  +L + + 
Sbjct: 96  KNVS-RIIPKNSTAVCCIGSIGKCGYLMCE-GTTNQQINSAIPK-INSLCLYYYLCTENF 152

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            Q + ++    T++  +   + +   P+PPL+EQ  I E+I     ++D           
Sbjct: 153 VQDLLSMASATTIAIVNKSKMESCAFPLPPLSEQQRIVERIEELFAKLDEAKERLQEGAY 212

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
               +K A++    T  L    + ++   +         +V        +    +  L  
Sbjct: 213 SFAVRKAAILHKAFTGELTKQWRRENGVSDESWEDKLLGDVCTVNPKKIDAKNLDDNLEV 272

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID--LQNDKRSLRSAQVM 311
           S +   +  +++ ++    +    +    +     G+++F  I   ++N K ++    V 
Sbjct: 273 SFVPMAAVSDVLGEIVNHEVKNLQDVRTGFTNFSKGDVIFAKITPCMENGKSAIVGPLVN 332

Query: 312 ERGIITS-AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVL 368
           + G  ++  Y+      +++ YL  ++R+        A+ +G+  +Q +    ++   +L
Sbjct: 333 DIGYGSTEFYVLRCKEELNNKYLYHMVRNTTFRAEAKAVMTGVVGQQRVPKTFLQEYQLL 392

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           +P + EQ +I  +I+   AR     +  EQ++  +   + S +A A  G+
Sbjct: 393 LPTLSEQHEIVRLIDDLLARERAAQQAAEQALASIDLMKKSILARAFRGE 442



 Score = 94.9 bits (234), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 30/203 (14%), Positives = 62/203 (30%), Gaps = 12/203 (5%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNR-----KNTKLIESNILSLSYGNIIQKLETRN--MGL 275
           E    VP++W      A+   +       K+ +    N       ++ Q   T +    L
Sbjct: 32  EQPYEVPENWVWVRLGAIAEIVTGGTPSKKHPEYYGGNFPFYKPSDLDQGRLTYDASEYL 91

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
             E     +I+         I        L        G       +  P         +
Sbjct: 92  SEEGKNVSRIIPKNSTAVCCIGSIGKCGYLMC-----EGTTNQQINSAIPKINSLCLYYY 146

Query: 336 LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
           L     +  +     +     +    ++     +PP+ EQ  I   I    A++D   E+
Sbjct: 147 LCTENFVQDLLSMASATTIAIVNKSKMESCAFPLPPLSEQQRIVERIEELFAKLDEAKER 206

Query: 396 IEQSIVLLKERRSSFIAAAVTGQ 418
           +++       R+++ +  A TG+
Sbjct: 207 LQEGAYSFAVRKAAILHKAFTGE 229


>gi|257076850|ref|ZP_05571211.1| type I restriction-modification enzyme, S subunit, putative
           [Ferroplasma acidarmanus fer1]
          Length = 420

 Score =  143 bits (359), Expect = 8e-32,   Method: Composition-based stats.
 Identities = 58/423 (13%), Positives = 131/423 (30%), Gaps = 25/423 (5%)

Query: 18  IGAIPKHWKVVPIKRFTK-LNTGRTSESGK---DIIYIGLEDVESGTGKYLPK-DGNSRQ 72
           IG IP+ W  V +      +  G T +  K         +E +             ++ +
Sbjct: 4   IGEIPQEWGFVKLGDVLSLIKNGVTYKQNKKDSGYPVTRIETISEEKIDTAKVGYIDNIK 63

Query: 73  SDTSTVSIFAKGQILYGKLGP---YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
           ++        +G IL+  +       + AI      +      +L  +    ++   +L+
Sbjct: 64  TENINDYRLIEGDILFSHINSLEHIGKTAIYEGEPELLLHGMNLLLLRSDKSKIEPSYLV 123

Query: 130 SIDVTQRIEAICEGA-----TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
                 R + + +         +  +   +  I +P+PPL EQ  I E +      I  +
Sbjct: 124 YSLKFYRAKELFKSMAKRAVNQASINQTELKRIKIPLPPLPEQQKIAEILSTADDEIQKM 183

Query: 185 ITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEW----VGLVPDHWEVKPFFAL 240
             +     +L K   Q L++  +        ++ +   EW    +G +            
Sbjct: 184 DEQIALAEQLKKGLMQKLLTRGIGHTRFKTTEIGEIPEEWDTFGLGEIFKTITGTTPSTK 243

Query: 241 VTELNRKNTKLIESNILSLSYGNIIQ-KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQ 299
           V +     T    +        N I      R +  K        I+    I+       
Sbjct: 244 VKDYWHGGTIEWLTPKDLNKLNNTITLPPSERKVTEKALKENNLNILPENSILISTRAPV 303

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKF 359
                  +     +G      + +        + A+ ++S     +         + L  
Sbjct: 304 GYVGINNTKITFNQGC--KGLVPLNRDVSFPFFYAYYLKS-KTTFLNSLSTGSTFKELSK 360

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
           E +  + V +PP+ EQ  I  +++    ++    E +      L   +   +    TG++
Sbjct: 361 EGLDDVVVPLPPLPEQQKIGEILSTVDNKL----ELLGNKREKLNVLKKGLMNDLFTGKV 416

Query: 420 DLR 422
            ++
Sbjct: 417 RVK 419



 Score = 91.4 bits (225), Expect = 3e-16,   Method: Composition-based stats.
 Identities = 33/206 (16%), Positives = 86/206 (41%), Gaps = 18/206 (8%)

Query: 224 WVGLVPDHWEVKPFFALV--------TELNRKNTKLIESNILSLSYGNIIQKLETRNMGL 275
            +G +P  W       ++         + N+K++    + I ++S   I          +
Sbjct: 3   EIGEIPQEWGFVKLGDVLSLIKNGVTYKQNKKDSGYPVTRIETISEEKIDTAKVGYIDNI 62

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM---AVKPHGIDSTY 332
           K E+   Y++++ G+I+F  I+           +     ++    +         I+ +Y
Sbjct: 63  KTENINDYRLIE-GDILFSHINSLEHIGKTAIYEGEPELLLHGMNLLLLRSDKSKIEPSY 121

Query: 333 LAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
           L + ++ Y   ++F +M      + S+   ++KR+ + +PP+ EQ  I  +++       
Sbjct: 122 LVYSLKFYRAKELFKSMAKRAVNQASINQTELKRIKIPLPPLPEQQKIAEILSTADDE-- 179

Query: 391 VLVEKIEQSIVLLKERRSSFIAAAVT 416
             ++K+++ I L ++ +   +   +T
Sbjct: 180 --IQKMDEQIALAEQLKKGLMQKLLT 203


>gi|266619618|ref|ZP_06112553.1| restriction modification system DNA specificity domain protein
           [Clostridium hathewayi DSM 13479]
 gi|288868820|gb|EFD01119.1| restriction modification system DNA specificity domain protein
           [Clostridium hathewayi DSM 13479]
          Length = 456

 Score =  142 bits (358), Expect = 8e-32,   Method: Composition-based stats.
 Identities = 71/418 (16%), Positives = 146/418 (34%), Gaps = 17/418 (4%)

Query: 14  GVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKD------IIYIGLEDVESGTGKYLPKD 67
             +W   +P +W  V +K    + TG T    K         +    D++ G       +
Sbjct: 24  EEEWPYEVPGNWCWVRLKDVAFVITGGTPSKNKPEYYGGTFPFFKPADLDYGRNMVAASE 83

Query: 68  GNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW 127
             S +    +  I AK       +G    K      DG  + Q     PK      L  +
Sbjct: 84  FLSEEGKAVSRCIPAK-STAVCCIGSI-GKCGYLCVDGTTNQQINSAIPKV-NSLFLYYY 140

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
             +I  T+++       T+S  +   +     P+PPL EQ  I   I     ++D +  +
Sbjct: 141 CNTILFTKQLRLKASATTISIVNKSKMEQCLFPLPPLREQQRIANHIEEMFYKLDEIKEK 200

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK 247
               +E  +++K A++    +  L    + K  G+ + G +                 ++
Sbjct: 201 TQLVLESSEDRKAAILYKAFSGALTAKWR-KHKGVSFEGWITKPLSEVATLQTGLMKGKR 259

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYET--YQIVDPGEIVFR-FIDLQNDKRS 304
           N +                 L+ + +              +  G+++F    D     RS
Sbjct: 260 NNQKTVLLPYLRVANVQDGYLDLKEIKNIEVDVLKIERYRLKKGDVLFTEGGDFDKLGRS 319

Query: 305 LRSAQVMERGIITSAYM--AVKPHGIDSTYLAWLMRSYDLCKVFY--AMGSGLRQSLKFE 360
               + +   I  +       +   +D  +L+    S      F   +  +    S+   
Sbjct: 320 SVWNEEIPDCIHQNHIFVVRTQTDTLDPYFLSLQAGSRYGKTYFIGCSKQTTNLASINST 379

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            +K  PVL+P I+EQ +I N++N    + + + +   + +  ++E + S ++ A  G+
Sbjct: 380 QLKNFPVLIPTIEEQREIVNILNFFLGKEEQIKQNCLKLLEKIEEIKKSILSRAFRGE 437



 Score = 92.2 bits (227), Expect = 1e-16,   Method: Composition-based stats.
 Identities = 29/206 (14%), Positives = 61/206 (29%), Gaps = 14/206 (6%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMG----- 274
              EW   VP +W       +   +        +      ++                  
Sbjct: 23  PEEEWPYEVPGNWCWVRLKDVAFVITGGTPSKNKPEYYGGTFPFFKPADLDYGRNMVAAS 82

Query: 275 --LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
             L  E     + +         I        L        G       +  P   +S +
Sbjct: 83  EFLSEEGKAVSRCIPAKSTAVCCIGSIGKCGYLCV-----DGTTNQQINSAIPKV-NSLF 136

Query: 333 LAWLMRSYDLCKVFYAMGSGLRQSL-KFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
           L +   +    K      S    S+     +++    +PP++EQ  I N I     ++D 
Sbjct: 137 LYYYCNTILFTKQLRLKASATTISIVNKSKMEQCLFPLPPLREQQRIANHIEEMFYKLDE 196

Query: 392 LVEKIEQSIVLLKERRSSFIAAAVTG 417
           + EK +  +   ++R+++ +  A +G
Sbjct: 197 IKEKTQLVLESSEDRKAAILYKAFSG 222


>gi|170079468|ref|YP_001736104.1| type 1 restriction-modification system specificity subunit
           [Synechococcus sp. PCC 7002]
 gi|169887137|gb|ACB00849.1| type 1 restriction-modification system specificity subunit
           [Synechococcus sp. PCC 7002]
          Length = 398

 Score =  142 bits (358), Expect = 9e-32,   Method: Composition-based stats.
 Identities = 58/410 (14%), Positives = 135/410 (32%), Gaps = 33/410 (8%)

Query: 25  WKVVPIKRFTKLNTGRTSESGK--------DIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           W+V  +     +  G +    K         I +I + D  + +          +     
Sbjct: 3   WEVKTLDDLCDIARGGSPRPIKSYLTNEPDGINWIKIGDASASSKYIYETQEKIKPEGIK 62

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELL-QGWLLSIDVTQ 135
                  G  L      + R  I+     I     ++     +  +     +L S    +
Sbjct: 63  KSRFVEPGDFLLSNSMSFGRPYIMRTSGCIHDGWLVLKDKSGLFDQDYLYYFLGSQAAYK 122

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
           + + +  G+T+ + +   +  + +P+PP+AEQ  I E +      I+       + +   
Sbjct: 123 QFDKLAAGSTVRNLNTTLVKKVLVPVPPIAEQKRIVEILDESFSGIERAEAIARQNLTNA 182

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
           +E   + ++ I    +                  +   +     L+ +   K     E+ 
Sbjct: 183 RELFDSYLNKIFLDFV---------------ERKNTQTLNCITDLIVDCEHKTAPTQETG 227

Query: 256 ILSLSYGNIIQK-LETRNMGLKPESYETYQ----IVDPGEIVFRFIDLQNDKRSLRSAQV 310
             S+   NI +  L   N+    E              G+++        +   +   + 
Sbjct: 228 FPSIRTPNIGKGHLILDNVYRVSEETYKQWTRRAKPQSGDLILAREAPAGNVGVIPEGER 287

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPV-L 368
           +   +     +      I+  YLA+ +    + +   +  SG   Q +  +D++ L +  
Sbjct: 288 V--CLGQRTVLIRPKENINPQYLAFFLLHPKMQERLLSKSSGATVQHVNMKDIRALKMGD 345

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           +PPI+ Q  +   +     +   L E  ++ I  L + + S +  A +GQ
Sbjct: 346 LPPIEIQDRLIESLLDVQEKSKKLEEVYQRKIEALGKLKQSILQKAFSGQ 395


>gi|297530924|ref|YP_003672199.1| restriction modification system DNA specificity domain protein
           [Geobacillus sp. C56-T3]
 gi|297254176|gb|ADI27622.1| restriction modification system DNA specificity domain protein
           [Geobacillus sp. C56-T3]
          Length = 485

 Score =  142 bits (358), Expect = 1e-31,   Method: Composition-based stats.
 Identities = 75/439 (17%), Positives = 149/439 (33%), Gaps = 45/439 (10%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD---IIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            +P +W  V + R  K+N  +   +  D     ++ +  V+   GK    +    +S   
Sbjct: 26  EVPGNWVWVRLGRIVKINPPKPKLAYGDDHICSFLPMSAVDPVEGKIAYLEERPFRSVKK 85

Query: 77  TVSIFAKGQILYGKLGPYLRKA------IIADFDGICSTQFLVLQ-PKDVLPELLQGWLL 129
             + F +  IL+ K+ P +          + +  G  ST+F V++ PK V    +   + 
Sbjct: 86  GYTYFEENDILFAKITPCMENGNSVITEGLLNGFGFGSTEFYVIRTPKTVDNRYIYYLVR 145

Query: 130 SIDVTQRIEAICEG-ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
           S    ++ + +  G           +   P+ +PPL EQ  I +KI     +ID      
Sbjct: 146 SERFRKQAKNVMAGAVGQQRVPKFFLEAYPIALPPLNEQKRIADKIERLFAKIDEAKRLI 205

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIE---------------WVGLVPDHWE 233
               E +++++  ++       L  +   + S +E               W   VP +W 
Sbjct: 206 GEVKESIEQRRAVMLEKAFKGQLGTNDPSEKSILETSDDLSEKDVIPKEQWPYEVPGNWV 265

Query: 234 VKPFFALVTELNR-----KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVD- 287
                 LV   +      +     +  I     GN+        +  +  +      V  
Sbjct: 266 WVRLKHLVDFFSGSAFPNQYQGYNDLEIPFYKVGNLKDTDSNYYIYSEENTISEEIRVKL 325

Query: 288 ------PGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI--DSTYLAWLMRS 339
                    I+F  I      R  R   V +   I +  M  K +    D+  L +    
Sbjct: 326 KAKKVPKDTILFAKIG--EAIRLNRRGLVPKPACIDNNLMGFKSNENILDNKLLLYWSLK 383

Query: 340 YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
            D  K   A       S++   ++ +   +PP+ EQ  I   ++    +++   + +   
Sbjct: 384 EDFYKYSQA---TAVPSIRKSTLEAIAFPLPPLNEQKRIAEKLDNLLEKLENEKQLVLAV 440

Query: 400 IVLLKERRSSFIAAAVTGQ 418
              L   + S +  A  G+
Sbjct: 441 EEKLDLLKQSVLQKAFRGE 459



 Score = 76.4 bits (186), Expect = 8e-12,   Method: Composition-based stats.
 Identities = 34/207 (16%), Positives = 71/207 (34%), Gaps = 14/207 (6%)

Query: 17  WIGAIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVE-SGTGKYLPKDGN 69
           W   +P +W  V +K      +G    +        +I +  + +++ + +  Y+  + N
Sbjct: 256 WPYEVPGNWVWVRLKHLVDFFSGSAFPNQYQGYNDLEIPFYKVGNLKDTDSNYYIYSEEN 315

Query: 70  SRQSDTS---TVSIFAKGQILYGKLGPYLR--KAIIADFDGICSTQFLVLQPKDVLPELL 124
           +   +           K  IL+ K+G  +R  +  +             +  K     L 
Sbjct: 316 TISEEIRVKLKAKKVPKDTILFAKIGEAIRLNRRGLVPKPACIDNNL--MGFKSNENILD 373

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
              LL   + +      +   +       +  I  P+PPL EQ  I EK+     +++  
Sbjct: 374 NKLLLYWSLKEDFYKYSQATAVPSIRKSTLEAIAFPLPPLNEQKRIAEKLDNLLEKLENE 433

Query: 185 ITERIRFIELLKEKKQALVSYIVTKGL 211
               +   E L   KQ+++       L
Sbjct: 434 KQLVLAVEEKLDLLKQSVLQKAFRGEL 460


>gi|330506918|ref|YP_004383346.1| type I restriction-modification enzyme, S subunit [Methanosaeta
           concilii GP-6]
 gi|328927726|gb|AEB67528.1| type I restriction-modification enzyme, S subunit [Methanosaeta
           concilii GP-6]
          Length = 418

 Score =  142 bits (358), Expect = 1e-31,   Method: Composition-based stats.
 Identities = 90/405 (22%), Positives = 160/405 (39%), Gaps = 20/405 (4%)

Query: 22  PKHWKVVPIKRFTKLNTG-RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           P  WK++ +    +L           D+ Y+GLE ++S     + K   S     S+ S 
Sbjct: 7   PSSWKMISLDEVCELRKEAIHPNKYPDLPYVGLEHIDSSNS--ILKRSGSSFEVNSSKSK 64

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL-PELLQGWLLSIDVTQRIEA 139
           F  G ILYGKL PYL K+++ DFDG+CST  LVL+ K+ + P+ L   + +         
Sbjct: 65  FHSGDILYGKLRPYLDKSVLVDFDGMCSTDILVLKTKESIVPQFLVNIIHTSQFINYAVN 124

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
             +G       W  I      +PPL EQ  I          +      R+R I L +E+K
Sbjct: 125 SSKGLNHPRTSWSSISAFKFLLPPLPEQRAIAR----AMRAVQAAREARLREIALERERK 180

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
            AL+ ++ T G       K + I  +       +++     + +          + +L +
Sbjct: 181 AALMEHLFTHG-TRGEPTKMTEIGEMPESWSMIQLEEACIKIVDCPHSTPHFSPAGVLVV 239

Query: 260 SYGNIIQK-LETRNMGLKPESYE----TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
              NI    L+ +      E              G+++F        +  L    V    
Sbjct: 240 RNFNIRNGRLDLKFPSYTTEEEYSERVKRCEPTEGDVLFSREAPVG-EACLVPPDVRLCL 298

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIK 373
                 + V    ++  +L  +  S  +  +  A+ SG   + L   DVKRL +    ++
Sbjct: 299 GQRMMLLRVDTSKLNRFFLVQVFYSNAIRSIMMAISSGVTAKHLNVADVKRLRIPFSSME 358

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           EQ  I+++++   ++I  L  + E S+    E   + +   + G+
Sbjct: 359 EQKQISDILSACDSKITAL--EHEASLH--DELFRAMLEELMNGR 399



 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 33/203 (16%), Positives = 72/203 (35%), Gaps = 13/203 (6%)

Query: 18  IGAIPKHWKVVPIKRFT-KLNTGRTSE---SGKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
           IG +P+ W ++ ++    K+     S    S   ++ +   ++ +G          + + 
Sbjct: 202 IGEMPESWSMIQLEEACIKIVDCPHSTPHFSPAGVLVVRNFNIRNGRLDLKFPSYTTEEE 261

Query: 74  DTSTVSIFAK--GQILYGKLGPYLRKAIIADFDGICSTQ---FLVLQPKDVLPELLQGWL 128
            +  V       G +L+ +  P     ++     +C  Q    L +    +    L    
Sbjct: 262 YSERVKRCEPTEGDVLFSREAPVGEACLVPPDVRLCLGQRMMLLRVDTSKLNRFFLVQVF 321

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
            S  +   + AI  G T  H +   +  + +P   + EQ  I + +       D+ IT  
Sbjct: 322 YSNAIRSIMMAISSGVTAKHLNVADVKRLRIPFSSMEEQKQISDIL----SACDSKITAL 377

Query: 189 IRFIELLKEKKQALVSYIVTKGL 211
                L  E  +A++  ++   L
Sbjct: 378 EHEASLHDELFRAMLEELMNGRL 400


>gi|254448290|ref|ZP_05061752.1| restriction modification system DNA specificity domain [gamma
           proteobacterium HTCC5015]
 gi|198262157|gb|EDY86440.1| restriction modification system DNA specificity domain [gamma
           proteobacterium HTCC5015]
          Length = 416

 Score =  142 bits (357), Expect = 1e-31,   Method: Composition-based stats.
 Identities = 68/421 (16%), Positives = 133/421 (31%), Gaps = 34/421 (8%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           IPK WK VP+   ++    R S    +++ I           +  K       + S    
Sbjct: 5   IPKDWKRVPLSSVSERMKRRNSAGNTNVLTISAVHGLVNQKDFFNK--IVASDNLSNYFH 62

Query: 81  FAKGQILYGKLGPYLRKAII-----ADFDGICSTQFLVLQPKDV--LPELLQGWLLSIDV 133
             KG   Y K   +     +        +G+ S  ++    K      +    +  S   
Sbjct: 63  LKKGDFAYNKSYSHGYPVGVVRRLEMYDEGVLSPLYICFSMKGEGVDDKFAAYFFDSHWF 122

Query: 134 TQRIEAICEGATMSH----ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
            + I  I +    +H           ++   +PPL EQ  I   + +    I+    +  
Sbjct: 123 IEEINEIAKEGARNHGLLNVGVGDFFDLDFVLPPLPEQQKIAAILSSVDEVIEKTRAQID 182

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK-- 247
           +  +L     Q L++  +          KDS +   G +P+ W+V     L         
Sbjct: 183 KLKDLKTGMMQELLTKGIGH-----AAFKDSPV---GRIPEGWDVVALGDLGKWKGGGTP 234

Query: 248 ---NTKLIESNILSLSYGNIIQKLETRNMGLKPES--YETYQIVDPGEIVFRFIDLQNDK 302
              N      NI  +S  ++  +  T+      E    E+   +   + V   +     K
Sbjct: 235 SKSNKDYWNGNIPWVSPKDMKSEFITQTSDQITEEAISESSTNLVSRDSVLVVVRSGILK 294

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM--GSGLRQSLKFE 360
            +L  A       +     A+  +   S    +     +  KV  A        +S+ F+
Sbjct: 295 HTLPVALASCDLALNQDMRALSVNSDHSERFVFQYLQANNHKVLRATLKAGNTVESIDFK 354

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQID 420
                 +  PP++EQ  I   +     RI          +      + + +   +TG++ 
Sbjct: 355 VFSDYLIPCPPLEEQEKIALAVEAVGNRIRA----KAAQLDAYVIMKQALMQDLLTGKVR 410

Query: 421 L 421
           +
Sbjct: 411 V 411



 Score = 72.9 bits (177), Expect = 8e-11,   Method: Composition-based stats.
 Identities = 41/209 (19%), Positives = 75/209 (35%), Gaps = 17/209 (8%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGK 62
            +KDS V   G IP+ W VV +    K   G T           +I ++  +D++S    
Sbjct: 204 AFKDSPV---GRIPEGWDVVALGDLGKWKGGGTPSKSNKDYWNGNIPWVSPKDMKSEFIT 260

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLR---KAIIADFDGICSTQFLVLQPKDV 119
                        S+ ++ ++  +L       L+      +A  D   +     L     
Sbjct: 261 QTSDQITEEAISESSTNLVSRDSVLVVVRSGILKHTLPVALASCDLALNQDMRALSVNSD 320

Query: 120 LP-ELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
                +  +L + +       +  G T+   D+K   +  +P PPL EQ    EKI    
Sbjct: 321 HSERFVFQYLQANNHKVLRATLKAGNTVESIDFKVFSDYLIPCPPLEEQ----EKIALAV 376

Query: 179 VRIDTLITERIRFIELLKEKKQALVSYIV 207
             +   I  +   ++     KQAL+  ++
Sbjct: 377 EAVGNRIRAKAAQLDAYVIMKQALMQDLL 405


>gi|332662759|ref|YP_004445547.1| restriction modification system DNA specificity domain-containing
           protein [Haliscomenobacter hydrossis DSM 1100]
 gi|332331573|gb|AEE48674.1| restriction modification system DNA specificity domain protein
           [Haliscomenobacter hydrossis DSM 1100]
          Length = 404

 Score =  142 bits (357), Expect = 1e-31,   Method: Composition-based stats.
 Identities = 61/409 (14%), Positives = 130/409 (31%), Gaps = 25/409 (6%)

Query: 23  KHWKVVPIKRFTKLNTGRTS--------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           + W++  +     +  G +          S   I +I + D  +             +  
Sbjct: 3   EGWEMKKLGEVVSIERGGSPRPIEKYITNSPDGINWIKISDATASEKYIYETKEKITRDG 62

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLV---LQPKDVLPELLQGWLLSI 131
                +  +G  +      + R   I    G     +LV      K    E L   L S 
Sbjct: 63  LHKTRVVNEGDFILSNSMSFGRP-YIMKTRGCIHDGWLVLKQKDNKIFETEFLYYLLSSP 121

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            V Q+  +   G+T+ + +   + ++ +P PPL EQ  I   +      I        + 
Sbjct: 122 FVFQQFNSKAAGSTVRNLNIALVSSVDVPTPPLPEQHRIVAILDEAFAAIAKAKANAEQN 181

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           ++  KE  ++ +  +  +  +          + +G +  H   K           KN   
Sbjct: 182 LKNAKELFESYLQGVFEQRGDGW------EEKTLGEIAKHSLGKMLDKN------KNKGT 229

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
           ++  + + S       L         E+ +       G+++         + ++      
Sbjct: 230 LQKYLRNQSVRWFSFNLNDLTEMPFLENEKEKYTAIKGDVMVCEGGYPG-RAAIWEEDYP 288

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
                    +       +  +L +L  S    K+         Q    E + +  V VPP
Sbjct: 289 IYFQKAIHRVRFHKIEYNKLFLYYLFISDKSGKLKTHFSGTGIQHFTGEALHKFVVPVPP 348

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQID 420
           + E   I   ++  +A+   L    +Q I  L+E + S +  A +G++ 
Sbjct: 349 VNEAKSIVQKLDALSAQTKKLEAIYQQKINDLEELKKSILQKAFSGELK 397


>gi|229526955|ref|ZP_04416352.1| type I restriction-modification system specificity subunit S
           [Vibrio cholerae 12129(1)]
 gi|229335567|gb|EEO01047.1| type I restriction-modification system specificity subunit S
           [Vibrio cholerae 12129(1)]
          Length = 413

 Score =  141 bits (356), Expect = 1e-31,   Method: Composition-based stats.
 Identities = 71/426 (16%), Positives = 150/426 (35%), Gaps = 41/426 (9%)

Query: 21  IPKHWKVVPIKRFT-KLNTGR---TSESGKD-----IIYIGLEDVESGTGKYLPKDGNSR 71
           +PK W  + +K    K+  G          +     I ++  + +  G G       +  
Sbjct: 2   VPKGWDALNLKNVAQKIQDGNYGADYPKADELVASGIPFLTSKVI-GGNGTVNQDKFDYI 60

Query: 72  QSDTS---TVSIFAKGQILYGKLGPYLRKAIIADFD---GICSTQFLVLQPKDVLPELL- 124
             +       +    G IL+   G  +    I       G    Q  +++  + + +   
Sbjct: 61  SEEKHQKLKKAQITSGDILFTNRGANVGTIAITPDYLSDGNIGPQLTLIRCNEKIEKDFL 120

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
             +L      +++     G+ M+    K      + +PPL EQ  I + +       D  
Sbjct: 121 FQFLRGSFFQKQVCQQDSGSAMNFFGIKDTERFKILVPPLPEQKKIAKIL----STWDKA 176

Query: 185 ITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTEL 244
           IT   + +   +++K+AL+  ++T        +  +G+ + G     W V     L   +
Sbjct: 177 ITTTEQLLANSQQQKKALMQQLLT---GRKRLLDKNGVRFSGE----WRVSKLSKLFERV 229

Query: 245 NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQND-KR 303
             KN     + +       +I++ E     +  E+ + Y ++  G+  +           
Sbjct: 230 TTKNNGQSTNVVTISGQHGLIRQEEFFKKAVASETLDGYFLLRQGQFAYNKSYSNGYPMG 289

Query: 304 SLRSAQVMERGIITSAYMAV---KPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQ---- 355
           +++       G++T+ Y+          DS +      S  L K    +   G R     
Sbjct: 290 AIKRLNRYPDGVVTTLYICFELSDSGRADSDFWEHYFESGLLNKGLSQIAHEGGRAHGLL 349

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           ++K  D   L V  P  +EQ  I  V++     I  L    +Q +  LK+ + + +   +
Sbjct: 350 NVKPSDFFSLKVSTPSFEEQQKIAAVLSTADQEISAL----QQKLDALKQEKKALMQQLL 405

Query: 416 TGQIDL 421
           TG+  +
Sbjct: 406 TGKRRV 411


>gi|16132169|ref|NP_418768.1| specificity determinant for hsdM and hsdR [Escherichia coli str.
           K-12 substr. MG1655]
 gi|89111057|ref|AP_004837.1| specificity determinant for hsdM and hsdR [Escherichia coli str.
           K-12 substr. W3110]
 gi|238903436|ref|YP_002929232.1| specificity determinant for hsdM and hsdR [Escherichia coli BW2952]
 gi|331650829|ref|ZP_08351857.1| type I restriction enzyme EcoKI specificity protein (S
           protein)(S.EcoKI) [Escherichia coli M718]
 gi|135209|sp|P05719|T1SK_ECOLI RecName: Full=Type-1 restriction enzyme EcoKI specificity protein;
           Short=S.EcoKI; AltName: Full=Type I restriction enzyme
           EcoKI specificity protein; Short=S protein
 gi|322812244|pdb|2Y7C|A Chain A, Atomic Model Of The Ocr-Bound Methylase Complex From The
           Type I Restriction-Modification Enzyme Ecoki (M2s1).
           Based On Fitting Into Em Map 1534.
 gi|322812249|pdb|2Y7H|A Chain A, Atomic Model Of The Dna-Bound Methylase Complex From The
           Type I Restriction-Modification Enzyme Ecoki (M2s1).
           Based On Fitting Into Em Map 1534.
 gi|41746|emb|CAA23554.1| hsdS [Escherichia coli]
 gi|537190|gb|AAA97245.1| CG Site No. 619; alternate gene name hss [Escherichia coli str.
           K-12 substr. MG1655]
 gi|1790807|gb|AAC77304.1| specificity determinant for hsdM and hsdR [Escherichia coli str.
           K-12 substr. MG1655]
 gi|85677088|dbj|BAE78338.1| specificity determinant for hsdM and hsdR [Escherichia coli str.
           K12 substr. W3110]
 gi|238863570|gb|ACR65568.1| specificity determinant for hsdM and hsdR [Escherichia coli BW2952]
 gi|260450839|gb|ACX41261.1| restriction modification system DNA specificity domain protein
           [Escherichia coli DH1]
 gi|315138903|dbj|BAJ46062.1| EcoKI restriction-modification system protein HsdS [Escherichia
           coli DH1]
 gi|331051283|gb|EGI23332.1| type I restriction enzyme EcoKI specificity protein (S
           protein)(S.EcoKI) [Escherichia coli M718]
          Length = 464

 Score =  141 bits (355), Expect = 2e-31,   Method: Composition-based stats.
 Identities = 63/420 (15%), Positives = 144/420 (34%), Gaps = 22/420 (5%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSES--------GKDIIYIGLEDVESGTGKYLPKDGNS 70
           G +P+ W + P+   T L  G T +            +  I   ++++G           
Sbjct: 4   GKLPEGWVIAPVSTVTTLIRGVTYKKEQAINYLKDDYLPLIRANNIQNGKFDTTDLVFVP 63

Query: 71  RQSDTSTVSIFAKGQILYGKLG---PYLRKAIIADFDGICSTQFLV---LQPKDVLPELL 124
           +     +  I  +  I+          + K+        CS           K +    +
Sbjct: 64  KNLVKESQKISPE-DIVIAMSSGSKSVVGKSAHQHLPFECSFGAFCGVLRPEKLIFSGFI 122

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
             +  S     +I ++  GA +++        I +PIPPLAEQ +I EK+     ++D+ 
Sbjct: 123 AHFTKSSLYRNKISSLSAGANINNIKPASFDLINIPIPPLAEQKIIAEKLDTLLAQVDST 182

Query: 185 ITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTEL 244
                +  ++LK  +QA++   V   L    +  +        +     +      ++  
Sbjct: 183 KARFEQIPQILKRFRQAVLGGAVNGKLTEKWRNFEPQHSVFKKLNFESILTELRNGLSSK 242

Query: 245 NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
             ++        +S      + + + R +    ES      +  G+++F   +   +   
Sbjct: 243 PNESGVGHPILRISSVRAGHVDQNDIRFLEC-SESELNRHKLQDGDLLFTRYNGSLEFVG 301

Query: 305 LR---SAQVMERGIITSAYMAVK-PHGIDSTYLAWLMRSYDLCKVFYA--MGSGLRQSLK 358
           +         +  +     +  +        Y+     S             +  ++ + 
Sbjct: 302 VCGLLKKLQHQNLLYPDKLIRARLTKDALPEYIEIFFSSPSARNAMMNCVKTTSGQKGIS 361

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            +D+K   VL+PP+KEQ +I   +    A  D + +++  ++  +     S +A A  G+
Sbjct: 362 GKDIKSQVVLLPPVKEQAEIVRRVEQLFAYADTIEKQVNNALARVNNLTQSILAKAFRGE 421


>gi|21232335|ref|NP_638252.1| type I restriction enzyme specificity chain-like protein
           [Xanthomonas campestris pv. campestris str. ATCC 33913]
 gi|66767532|ref|YP_242294.1| type I restriction enzyme specificity chain-like protein
           [Xanthomonas campestris pv. campestris str. 8004]
 gi|188990645|ref|YP_001902655.1| type I site-specific DNA methyltransferase specificity subunit
           [Xanthomonas campestris pv. campestris str. B100]
 gi|21114106|gb|AAM42176.1| type I restriction enzyme (specificity chain) homolog [Xanthomonas
           campestris pv. campestris str. ATCC 33913]
 gi|66572864|gb|AAY48274.1| type I restriction enzyme (specificity chain) homolog [Xanthomonas
           campestris pv. campestris str. 8004]
 gi|167732405|emb|CAP50599.1| type I site-specific DNA methyltransferase specificity subunit
           [Xanthomonas campestris pv. campestris]
          Length = 415

 Score =  141 bits (355), Expect = 2e-31,   Method: Composition-based stats.
 Identities = 51/422 (12%), Positives = 124/422 (29%), Gaps = 37/422 (8%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSES--------GKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           +P  W+   +     + +G T                ++   D+ +       +      
Sbjct: 2   LPDGWRRTTLGNIGSVKSGSTPARSQHDRYFVDGKWPWVKTMDLTNSEILTTDEVITDAA 61

Query: 73  SDTSTVSIFAKGQILYGKLGPY--LRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
              S+  +F  G +L    G +  + +  +       +     +  +    +        
Sbjct: 62  LAESSCRLFPAGTVLVAMYGGFKQIGRTGLLREKSAINQAISAIDIERNQADPEFVLHWL 121

Query: 131 IDVTQRIEAIC-EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
               +  +          +   + + + P+ +P L EQ  I   +      I T      
Sbjct: 122 NGSVETWKNYAASSRKDPNITRENVCDFPVILPTLGEQRRIAHILSTWDQAIATTERLLK 181

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNT 249
              + +    + L          P    K +  E                  + L+ K  
Sbjct: 182 NSQKQMDILLRDLTLGTQRTTSTPSPWAKFTLGE-------------LGRTYSGLSGKKG 228

Query: 250 KLIESNILSLSYGNIIQKLETRNMGL---KPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
           +        + Y N+ +            K    E    V  G+I+F       ++  + 
Sbjct: 229 EDFGFGAKFIPYTNVFKNNRIDIEDFSLVKISENENQTRVKSGDIIFTISSETPNEVGMA 288

Query: 307 SAQVMERG-----IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFE 360
           S  + +            Y       +   Y  +++R+  +  +   +  G  R ++   
Sbjct: 289 SVLLDDVNELYLNSFCFGYRLNDFKTLLPEYAGFVLRAPHIRALMTQIAQGSTRFNISKA 348

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQID 420
           +V R+ + +P I EQ  I +++    + +  L       +  LK  +   ++  +TG+  
Sbjct: 349 NVMRMELALPSIAEQKRIASILGGAHSTVKNL----RDQLARLKAEKVILMSQLLTGKRR 404

Query: 421 LR 422
           +R
Sbjct: 405 VR 406


>gi|242399587|ref|YP_002995012.1| putative type I specificity subunit HsdS [Thermococcus sibiricus MM
           739]
 gi|242265981|gb|ACS90663.1| putative type I specificity subunit HsdS [Thermococcus sibiricus MM
           739]
          Length = 434

 Score =  141 bits (355), Expect = 2e-31,   Method: Composition-based stats.
 Identities = 53/415 (12%), Positives = 135/415 (32%), Gaps = 25/415 (6%)

Query: 16  QWIGAIPKHWKVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDV-ESGTGKYLPKD 67
            W   +P+ W+ V +    +L  G T             I ++ + D+ +SG  +   + 
Sbjct: 32  PW--ELPEGWRWVRLGDIAELKAGGTPSRRVKEYWENGTIPWVKISDIPDSGLVEKTEEK 89

Query: 68  GNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW 127
                   S+  + + G IL+  +   + K  I       +   + + PK  +      +
Sbjct: 90  ITELGLKNSSAKLLSPGTILFS-IFATISKVGILKIPAATNQAIVGIIPKISIDRGYLFY 148

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
            L     + +     G    + + + +  + +P+PP+ EQ  I  K+     R++     
Sbjct: 149 SLKYFGQELVYQ-GRGGVQDNINMRILSKLKIPLPPIEEQKRIVAKLDEVHRRLEEAKRL 207

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK 247
                E  +    + +  + +K      +    G     + P     K            
Sbjct: 208 AREAREEAERLMASALHEVFSKAEEKGWEWTTIGKVSREMKPGFARNKK---------HI 258

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
           +   +     +      +   +   + L  +       +  G+++F   +          
Sbjct: 259 SRDGVPHLRPNNVDVGRLNLKKIVKVTLDDKINIEEYYLKKGDVLFNNTNSFELVGRAAI 318

Query: 308 AQVMERGIITSAY--MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS--GLRQSLKFEDVK 363
                +   ++    + VK   I   +L   +    +   F  + +    +  +    + 
Sbjct: 319 VPEDLKYGYSNHITRIRVKKEVILPEWLTLAINYLWMQGYFREVCTRWVGQAGVNMNTLA 378

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           +  + +P ++EQ  I + ++    R   LV+  E+    L++   + +  A  G+
Sbjct: 379 KTRIPLPSLEEQKRIVSYLDSIQERAQKLVKLYEEREKELEKLFPAILDKAFRGE 433


>gi|218708015|ref|YP_002415534.1| EcoKI restriction-modification system protein HsdS [Escherichia
           coli UMN026]
 gi|293403006|ref|ZP_06647103.1| type-1 restriction enzyme EcoKI specificity protein [Escherichia
           coli FVEC1412]
 gi|298378533|ref|ZP_06988417.1| type-1 restriction enzyme EcoKI specificity protein [Escherichia
           coli FVEC1302]
 gi|300899292|ref|ZP_07117558.1| type I restriction modification DNA specificity domain protein
           [Escherichia coli MS 198-1]
 gi|301646864|ref|ZP_07246710.1| type I restriction modification DNA specificity domain protein
           [Escherichia coli MS 146-1]
 gi|218435112|emb|CAR16068.1| specificity determinant for hsdM and hsdR [Escherichia coli UMN026]
 gi|291429921|gb|EFF02935.1| type-1 restriction enzyme EcoKI specificity protein [Escherichia
           coli FVEC1412]
 gi|298280867|gb|EFI22368.1| type-1 restriction enzyme EcoKI specificity protein [Escherichia
           coli FVEC1302]
 gi|300357071|gb|EFJ72941.1| type I restriction modification DNA specificity domain protein
           [Escherichia coli MS 198-1]
 gi|301074917|gb|EFK89723.1| type I restriction modification DNA specificity domain protein
           [Escherichia coli MS 146-1]
          Length = 464

 Score =  141 bits (355), Expect = 2e-31,   Method: Composition-based stats.
 Identities = 63/420 (15%), Positives = 143/420 (34%), Gaps = 22/420 (5%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSES--------GKDIIYIGLEDVESGTGKYLPKDGNS 70
           G +P+ W + P+   T L  G T +            +  I   ++++G           
Sbjct: 4   GKLPEGWVIAPVSTVTTLIRGVTYKKEQAINYLKDDYLPLIRANNIQNGKFDTTDLVFVP 63

Query: 71  RQSDTSTVSIFAKGQILYGKLG---PYLRKAIIADFDGICSTQFLV---LQPKDVLPELL 124
           +        I  +  I+          + K+        CS           K +    +
Sbjct: 64  KNLVKENQKISPE-DIVIAMSSGSKSVVGKSAHQHLPFECSFGAFCGVLRPEKLIFSGFI 122

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
             +  S     +I ++  GA +++        I +PIPPLAEQ +I EK+     ++D+ 
Sbjct: 123 AHFTKSSLYRNKISSLSAGANINNIKPASFDLINIPIPPLAEQKIIAEKLDTLLAQVDST 182

Query: 185 ITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTEL 244
                +  ++LK  +QA++   V   L    +  +        +     +      ++  
Sbjct: 183 KARFEQIPQILKRFRQAVLGGAVNGKLTEKWRNFEPQHSVFKKLNFESILTELRNGLSSK 242

Query: 245 NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
             ++        +S      + + + R +    ES      +  G+++F   +   +   
Sbjct: 243 PNESGVGHPILRISSVRAGHVDQNDIRFLEC-SESELNRHKLQDGDLLFTRYNGSLEFVG 301

Query: 305 LR---SAQVMERGIITSAYMAVK-PHGIDSTYLAWLMRSYDLCKVFYA--MGSGLRQSLK 358
           +         +  +     +  +        Y+     S             +  ++ + 
Sbjct: 302 VCGLLKKLQHQNLLYPDKLIRARLTKDALPEYIEIFFSSPSARNAMMNCVKTTSGQKGIS 361

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            +D+K   VL+PP+KEQ +I   +    A  D + +++  ++  +     S +A A  G+
Sbjct: 362 GKDIKSQVVLLPPVKEQAEIVRRVEQLFAYADTIEKQVNNALARVNNLTQSILAKAFRGE 421


>gi|119357296|ref|YP_911940.1| restriction modification system DNA specificity subunit [Chlorobium
           phaeobacteroides DSM 266]
 gi|119354645|gb|ABL65516.1| restriction modification system DNA specificity domain [Chlorobium
           phaeobacteroides DSM 266]
          Length = 479

 Score =  141 bits (355), Expect = 2e-31,   Method: Composition-based stats.
 Identities = 65/437 (14%), Positives = 135/437 (30%), Gaps = 55/437 (12%)

Query: 30  IKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           +    +   GR  +      + +  I ++++     K+     N          +  KG 
Sbjct: 11  LGDVAEYINGRAFKPSEWGKEGLPIIRIKNLNDENSKF-----NYSNEVFEKRYLVKKGD 65

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           +L+      L   I    +   +    +++P   + +L   +     +TQ + +   G+ 
Sbjct: 66  LLFAWS-ASLGAYIWKKDEAWLNQHIFLVKPSPFIAKL-YLYYFLDKITQELYSAAHGSG 123

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
           M H   K      + +PPL+EQ  I  KI      +D  I    +  E LK  +QA++  
Sbjct: 124 MVHVTKKKFEETKIGLPPLSEQRSIVSKIEQLFSELDNGIACLKKAQEQLKVYRQAVLKQ 183

Query: 206 IVTKGLNPDV------------------------------------KMKDSGIEWVGLVP 229
                L                                         +    ++ +  +P
Sbjct: 184 AFEGELTKSWREQQANLPSAQDLLDTIKTEREQAAKNQGKKLKPVTPLAKVELDELTELP 243

Query: 230 DHWEVKPFFALVTELNRKNTK--LIESNILSLSYGNIIQKLETRNMGLKPESY--ETYQI 285
           D W       L   +    +   L +  +  +  GNI Q     N     +     +   
Sbjct: 244 DGWCWIKLGELTIGVEYGTSTKSLEKGEVPVIRMGNIQQGRIDWNDLAFTDDKADISKYR 303

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA--VKPHGIDSTYLAWLMRSYDLC 343
           +  G+++F   +                 I     +        +   YL + + S+   
Sbjct: 304 LLKGDVLFNRTNSPELVGKAAIYNGEMPAIFAGYLIRVNQIKELLHCKYLNFFLNSHPAK 363

Query: 344 KVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
               ++ +    + ++  E +K  P+     KEQ  I   I    +  D +   I +S+ 
Sbjct: 364 VYGNSVKTDGVNQSNINGEKLKSYPLPYCSPKEQEQIVQEIEARLSVCDNMEATIRESLE 423

Query: 402 LLKERRSSFIAAAVTGQ 418
             +  R S +  A  G+
Sbjct: 424 KAEALRQSILKKAFEGK 440



 Score = 95.6 bits (236), Expect = 1e-17,   Method: Composition-based stats.
 Identities = 28/190 (14%), Positives = 63/190 (33%), Gaps = 6/190 (3%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ-KLETRNMGLKPESYETYQIVDP 288
           +H  +     +   +N +  K  E     L    I     E        E +E   +V  
Sbjct: 4   NHHVIAILGDVAEYINGRAFKPSEWGKEGLPIIRIKNLNDENSKFNYSNEVFEKRYLVKK 63

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA 348
           G+++F +                +   +      VKP    +    +        +++ A
Sbjct: 64  GDLLFAWSASLG-----AYIWKKDEAWLNQHIFLVKPSPFIAKLYLYYFLDKITQELYSA 118

Query: 349 MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
                   +  +  +   + +PP+ EQ  I + I    + +D  +  ++++   LK  R 
Sbjct: 119 AHGSGMVHVTKKKFEETKIGLPPLSEQRSIVSKIEQLFSELDNGIACLKKAQEQLKVYRQ 178

Query: 409 SFIAAAVTGQ 418
           + +  A  G+
Sbjct: 179 AVLKQAFEGE 188



 Score = 70.2 bits (170), Expect = 6e-10,   Method: Composition-based stats.
 Identities = 28/204 (13%), Positives = 66/204 (32%), Gaps = 11/204 (5%)

Query: 18  IGAIPKHWKVVPIKRF---TKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           +  +P  W  + +       +  T   S    ++  I + +++ G   +        ++D
Sbjct: 239 LTELPDGWCWIKLGELTIGVEYGTSTKSLEKGEVPVIRMGNIQQGRIDWNDLAFTDDKAD 298

Query: 75  TSTVSIFAKGQILYGKLGP---YLRKAIIADFDGICSTQFLVLQPKD----VLPELLQGW 127
            S   +  KG +L+ +        + AI           +L+   +         L    
Sbjct: 299 ISKYRLL-KGDVLFNRTNSPELVGKAAIYNGEMPAIFAGYLIRVNQIKELLHCKYLNFFL 357

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
                         +G   S+ + + + + P+P     EQ  I ++I A     D +   
Sbjct: 358 NSHPAKVYGNSVKTDGVNQSNINGEKLKSYPLPYCSPKEQEQIVQEIEARLSVCDNMEAT 417

Query: 188 RIRFIELLKEKKQALVSYIVTKGL 211
               +E  +  +Q+++       L
Sbjct: 418 IRESLEKAEALRQSILKKAFEGKL 441


>gi|215486217|ref|YP_002328648.1| predicted type I restriction-modification enzyme, S subunit
           [Escherichia coli O127:H6 str. E2348/69]
 gi|215264289|emb|CAS08642.1| predicted type I restriction-modification enzyme, S subunit
           [Escherichia coli O127:H6 str. E2348/69]
          Length = 449

 Score =  141 bits (355), Expect = 2e-31,   Method: Composition-based stats.
 Identities = 77/439 (17%), Positives = 138/439 (31%), Gaps = 35/439 (7%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLN---TGRTSES------GKDIIYIGLEDVESGT 60
           YK + ++    IP+ W V  I   T       GRT +         DI+ +   +V+ G 
Sbjct: 18  YKLTEME---MIPEDWVVSTILNLTTNIIDYRGRTPKKLGMDWGDGDIVALSAANVKKGY 74

Query: 61  GKYLPKDGNSRQSDTS---TVSIFAKGQILYGKLGPYLRKAIIADFD-GICSTQFLVLQP 116
                +     +       T     KG I +    P    A I D    I S + ++LQ 
Sbjct: 75  IDLSTECYFGSEELYKRWMTSGHPQKGDIAFTMEAPLGNAASIPDNKKYILSQRTILLQI 134

Query: 117 KDVL--PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIP-PLAEQVLIREK 173
                 P L+   LLS      I     G+T        +  + + IP  + EQ  I   
Sbjct: 135 DRENFSPSLILQILLSERFQSYISESATGSTAQGIKRSVLEKLCISIPKNIVEQKAIANV 194

Query: 174 IIAETVRIDTLITERIRFIELLKEKKQALVS---YIVTKGLNPDVKMKDSGIEWVGLVPD 230
           +      I +L     +   +     Q L++    +    L  D   K      +G +P+
Sbjct: 195 LTNVDSLILSLEKLLSKKQSIKTATMQQLLTGKTRLPQFALRKDGSAKGYKKSELGAIPE 254

Query: 231 HWEVKPFFALVTELNRKNTK-----LIESNILSLSYGNIIQKLETRNMGLKPES---YET 282
            W V                             +S G +  K          +      +
Sbjct: 255 DWVVTSIGQFTDCCAGGTPSTKISAYWGGTHPWMSSGELHLKQVYAVADYITDEGLVNSS 314

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
            + V    ++      Q   R   +   +E     S           + +L + + S   
Sbjct: 315 TKYVPKNSVLVGLAG-QGKTRGTVAINRIELCTNQSIAAIFPSKHHSTEFLFYNLDSRYE 373

Query: 343 CKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
                + G G R  L    +++L +  PP +EQ  I  +++     I  L    +Q +  
Sbjct: 374 ELRSLSTGDGGRGGLNLTIIRKLHLAFPPKEEQTAIATILSDMDKEIQTL----QQRLDK 429

Query: 403 LKERRSSFIAAAVTGQIDL 421
            ++ +   +   +TG+  L
Sbjct: 430 TRQLKQGMMQELLTGKTRL 448


>gi|187779696|ref|ZP_02996169.1| hypothetical protein CLOSPO_03292 [Clostridium sporogenes ATCC
           15579]
 gi|187773321|gb|EDU37123.1| hypothetical protein CLOSPO_03292 [Clostridium sporogenes ATCC
           15579]
          Length = 459

 Score =  141 bits (355), Expect = 2e-31,   Method: Composition-based stats.
 Identities = 80/433 (18%), Positives = 165/433 (38%), Gaps = 28/433 (6%)

Query: 2   KHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTG 61
              + Y  YK + + W+  IPKHW ++  K   K+       +      + L        
Sbjct: 10  NELRPYEDYKKTELLWLDYIPKHWNMIRNKNVMKVEKEIVGRNHSKYTLLSLTK-RGIIP 68

Query: 62  KYLPKDGNSRQSDTSTVSIFAKGQILYG--KLGPYLRKAIIADFDGICSTQFLVLQPKDV 119
           + L         D     +     I++    +    R   ++   G+ +  + V + +++
Sbjct: 69  RDLENAKGKFPKDFEAYQVVNPNNIVFCLFDMDETPRTVGLSSMKGMITGSYNVFKIENI 128

Query: 120 LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
             + L  + LS+D ++++ ++  G        +      MP PP+ EQ  I + +  +  
Sbjct: 129 NEKYLYYYYLSLDNSKKLRSLYTGL-RKVIHIETFLRTKMPNPPMEEQKQIVKYLDCKLS 187

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDV---------KMKDSGIEWVGLVPD 230
           +I   I E+ + I+LLK++K+  ++  +   +  +          +MK SGI+WV  +P+
Sbjct: 188 KIRKFIKEKKKIIDLLKQQKKVFINEAIIGKIKIENGECKVRYKSEMKPSGIQWVEEIPN 247

Query: 231 HWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGE 290
           HW       L    +  +     S I       +      R    K      Y ++    
Sbjct: 248 HWIKCKLKHLGKFKSGDSI--TSSQIDMKGKYPVYGGNGLRGYFDKYTHDGNYLLIGRQG 305

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG 350
            +   + L   +                A +      ++  +  +L+ + +L +      
Sbjct: 306 ALCGNVHLVKGRFWASE----------HAVVVTTNSNVNVDWAKYLIETMNLNQY---SQ 352

Query: 351 SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
           S  +  L  E +  +  ++PPI+EQ  I + I   T +ID  +  I + I L+ E     
Sbjct: 353 SAAQPGLAIERIINIYTMLPPIEEQKKIVDYIIRITDKIDKSILHINKEISLITEYGIRL 412

Query: 411 IAAAVTGQIDLRG 423
           I+  V G++D+R 
Sbjct: 413 ISDIVIGKVDVRN 425



 Score = 78.3 bits (191), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 55/216 (25%), Positives = 104/216 (48%), Gaps = 3/216 (1%)

Query: 207 VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL-SLSYGNII 265
           +   L P    K + + W+  +P HW +     ++        +      L SL+   II
Sbjct: 8   IHNELRPYEDYKKTELLWLDYIPKHWNMIRNKNVMKVEKEIVGRNHSKYTLLSLTKRGII 67

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
            +      G  P+ +E YQ+V+P  IVF   D+    R++  + +  +G+IT +Y   K 
Sbjct: 68  PRDLENAKGKFPKDFEAYQVVNPNNIVFCLFDMDETPRTVGLSSM--KGMITGSYNVFKI 125

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
             I+  YL +   S D  K   ++ +GLR+ +  E   R  +  PP++EQ  I   ++ +
Sbjct: 126 ENINEKYLYYYYLSLDNSKKLRSLYTGLRKVIHIETFLRTKMPNPPMEEQKQIVKYLDCK 185

Query: 386 TARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            ++I   +++ ++ I LLK+++  FI  A+ G+I +
Sbjct: 186 LSKIRKFIKEKKKIIDLLKQQKKVFINEAIIGKIKI 221


>gi|188496427|ref|ZP_03003697.1| type I restriction-modification system specificity subunit
           [Escherichia coli 53638]
 gi|188491626|gb|EDU66729.1| type I restriction-modification system specificity subunit
           [Escherichia coli 53638]
 gi|322616181|gb|EFY13097.1| restriction modification system DNA specificity domain protein
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. 315996572]
 gi|322620878|gb|EFY17737.1| restriction modification system DNA specificity domain protein
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. 495297-1]
 gi|322623031|gb|EFY19873.1| restriction modification system DNA specificity domain protein
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. 495297-3]
 gi|322634726|gb|EFY31457.1| restriction modification system DNA specificity domain protein
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. 515920-1]
 gi|322638707|gb|EFY35402.1| restriction modification system DNA specificity domain protein
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. 515920-2]
 gi|322646507|gb|EFY43016.1| restriction modification system DNA specificity domain protein
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. NC_MB110209-0054]
 gi|322654496|gb|EFY50818.1| restriction modification system DNA specificity domain protein
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. CASC_09SCPH15965]
 gi|322660785|gb|EFY57018.1| restriction modification system DNA specificity domain protein
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. 19N]
 gi|322665113|gb|EFY61301.1| restriction modification system DNA specificity domain protein
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. 81038-01]
 gi|322667857|gb|EFY64017.1| restriction modification system DNA specificity domain protein
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. MD_MDA09249507]
 gi|322671731|gb|EFY67852.1| restriction modification system DNA specificity domain protein
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. 414877]
 gi|322677223|gb|EFY73287.1| restriction modification system DNA specificity domain protein
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. 366867]
 gi|322680114|gb|EFY76153.1| restriction modification system DNA specificity domain protein
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. 413180]
 gi|322685457|gb|EFY81453.1| restriction modification system DNA specificity domain protein
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. 446600]
 gi|323193666|gb|EFZ78870.1| restriction modification system DNA specificity domain protein
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. 609458-1]
 gi|323199973|gb|EFZ85061.1| restriction modification system DNA specificity domain protein
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. 556150-1]
 gi|323204704|gb|EFZ89701.1| restriction modification system DNA specificity domain protein
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. 609460]
 gi|323205730|gb|EFZ90693.1| restriction modification system DNA specificity domain protein
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. 507440-20]
 gi|323213700|gb|EFZ98483.1| restriction modification system DNA specificity domain protein
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. 556152]
 gi|323216765|gb|EGA01489.1| restriction modification system DNA specificity domain protein
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. MB101509-0077]
 gi|323231919|gb|EGA16026.1| restriction modification system DNA specificity domain protein
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. MB111609-0052]
 gi|323234446|gb|EGA18533.1| restriction modification system DNA specificity domain protein
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. 2009083312]
 gi|323237897|gb|EGA21956.1| restriction modification system DNA specificity domain protein
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. 2009085258]
 gi|323243502|gb|EGA27521.1| restriction modification system DNA specificity domain protein
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. 315731156]
 gi|323249499|gb|EGA33413.1| restriction modification system DNA specificity domain protein
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. IA_2009159199]
 gi|323254257|gb|EGA38075.1| restriction modification system DNA specificity domain protein
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. IA_2010008282]
 gi|323255082|gb|EGA38868.1| restriction modification system DNA specificity domain protein
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. IA_2010008283]
 gi|323261256|gb|EGA44844.1| restriction modification system DNA specificity domain protein
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. IA_2010008284]
 gi|323266621|gb|EGA50108.1| restriction modification system DNA specificity domain protein
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. IA_2010008285]
 gi|323271347|gb|EGA54773.1| restriction modification system DNA specificity domain protein
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. IA_2010008287]
          Length = 394

 Score =  141 bits (354), Expect = 3e-31,   Method: Composition-based stats.
 Identities = 72/416 (17%), Positives = 146/416 (35%), Gaps = 37/416 (8%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           +PK W ++ +    KL  G + +      K +  I ++++ +G+G Y    G  +     
Sbjct: 2   VPKGWMLLQVSDICKLQNGNSFKPHEWDTKGLPIIRIQNL-NGSGNYNYFSGVPQD---- 56

Query: 77  TVSIFAKGQILYGKLGPYL---RKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
              +   GQ+L+   G         I     G+ +     +   + + E      L    
Sbjct: 57  -KWLVEPGQLLFSWAGTKGVSFGPFIWNGPKGVLNQHIYKVFANENVHEHWLYLALLHIT 115

Query: 134 TQRIEAICEGA-TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
            +          T+ H   K I N  +  PP+AEQ  I + +       +  I+   + +
Sbjct: 116 QKIEAQAHGFKSTLLHVQKKDIDNQFVLTPPVAEQKKISQIL----STWNKAISVTEKLL 171

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
              +++K+AL+  ++T        + ++G+ + G     W       +   +   + K  
Sbjct: 172 ANSQQQKKALIQQLLT---GKKRLLDENGVRFSGE----WCTCTLSEVAHIIMGSSPKSE 224

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQ--IVDPGEIVFRFIDLQNDKRSLRSAQV 310
             N   L    I    + +     P  Y +       PG+I+                  
Sbjct: 225 AYNDNGLGLPLIQGNADIKCRVSCPRVYTSDITKECTPGDILLSVRAPVGTVA-----LS 279

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP 370
             +  I     A+K     S    +    +   K  Y       +S+  +D+K L + VP
Sbjct: 280 QHKACIGRGISAIKSKRKMSQSFLYQWFLWFEPKWCYLSQGSTFESINSDDIKTLKLSVP 339

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR-GES 425
             +EQ  I  V++     I  L    E+ +  LK  + + +   +TG+  ++  E+
Sbjct: 340 NFEEQQKIAAVLSAADTEISTL----EKKLACLKNEKKALMQQLLTGKRRVKVDEA 391


>gi|320450634|ref|YP_004202730.1| restriction modification system DNA specificity domain-containing
           protein [Thermus scotoductus SA-01]
 gi|320150803|gb|ADW22181.1| restriction modification system DNA specificity domain protein
           [Thermus scotoductus SA-01]
          Length = 450

 Score =  140 bits (353), Expect = 3e-31,   Method: Composition-based stats.
 Identities = 70/445 (15%), Positives = 162/445 (36%), Gaps = 43/445 (9%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFT---------KLNTGRTSESGKDIIYIGLEDV-ESG 59
           +KD+    +G +P+ W+VV +                 G  +++G  + ++   ++ ++G
Sbjct: 11  FKDTE---LGPLPEEWQVVRLGDLLLKGALWMKNGFPQGEHNQAGLGVPHLRPFNITDTG 67

Query: 60  TGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGP--YLRKAIIADFDG--ICSTQF--LV 113
                        ++ S   +   G +++        + K    +  G  + S     + 
Sbjct: 68  DITLSQIKYVPPPAEDSPYWVL-PGDVIFNNTNSEELVGKTAYFNLKGKFVISNHMTLIR 126

Query: 114 LQPKDVLPELLQGWLLSIDVTQRIEAICEGA-TMSHADWKGIGNIPMPIPPLAEQVLIRE 172
           +    +    +  +L  +   +  + +C      +    + +  + +P+P L+EQ  I  
Sbjct: 127 VSSDQLDAYWISKYLHWLWSQRVFQGLCRRHVNQASVSIERLKQVAIPLPSLSEQRAIAH 186

Query: 173 KIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGI--EWVGLVPD 230
            +      +        R I  L+E K++L+ ++ T G  P  + +   +    +G +P+
Sbjct: 187 VL----RTVQEAKQATERVIAALRELKKSLMRHLFTYGPVPLDQAESVPLRDTEIGPIPE 242

Query: 231 HWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMG------LKPESYETYQ 284
           HW+V     +V       T       +   +  I    + + +          +S     
Sbjct: 243 HWQVVRLGEVVERPQYGYTASASDAPVGPKFLRITDIQDGKVVWPSVPFCEIAQSQVENY 302

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA---VKPHGIDSTYLAWLMRSYD 341
           ++ PG+I+   I     K  L +       I  S  +        G+ S YL +   +  
Sbjct: 303 LLKPGDILVARIGATTGKTFLVAECPP--AIFASYLIRLRVAPDKGLLSDYLWYFTDTEA 360

Query: 342 LCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
                 +   G L+Q +    ++ L + +PP+ EQ +I  V+     RI    E   +++
Sbjct: 361 YWAQINSNKGGRLKQGINIPILENLVIPLPPLPEQREIARVLQAVDRRI-QAEEAYARAL 419

Query: 401 VLLKERRSSFIAAAVTGQIDLRGES 425
             L     S +   +TG++ +   +
Sbjct: 420 DDL---FKSLLHELMTGRLRVAPWT 441


>gi|135210|sp|P07990|T1S_SALPO RecName: Full=Type-1 restriction enzyme StySPI specificity protein;
           Short=S.StySPI; AltName: Full=Type I restriction enzyme
           StySPI specificity protein; Short=S protein
 gi|79033|pir||A26652 type I site-specific deoxyribonuclease (EC 3.1.21.3) - Salmonella
           sp
 gi|154135|gb|AAA27145.1| hsdS specificity protein [Salmonella enterica subsp. enterica
           serovar Potsdam]
          Length = 463

 Score =  140 bits (353), Expect = 4e-31,   Method: Composition-based stats.
 Identities = 71/423 (16%), Positives = 147/423 (34%), Gaps = 29/423 (6%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSES--------GKDIIYIGLEDVESGTGKYLPKDGNS 70
           G +P+ W   P+   T L  G T +            +  I   ++++G           
Sbjct: 4   GKLPEGWATAPVSTVTTLIRGVTYKKEQALNYLQDDYLPIIRANNIQNGKFDTTDLVFVP 63

Query: 71  RQSDTSTVSIFAKGQILYGKLG---PYLRKAIIADFDGICSTQFLV---LQPKDVLPELL 124
           +     +  I  +  I+          + K+        CS           K + P  +
Sbjct: 64  KNLVKESQKISPE-DIVIAMSSGSKSVVGKSAHQRLPFECSFGAFCGALRPEKFISPNYI 122

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
             +  S     +I ++  GA +++        I +PIP LAEQ +I EK+     ++D+ 
Sbjct: 123 AHFTKSSFYRNKISSLSAGANINNIKPASFDLINIPIPSLAEQKIIAEKLDTLLAQVDST 182

Query: 185 ITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTEL 244
                +  ++LK  +QA+++  V+  L   ++   S I W         +          
Sbjct: 183 KARLEQIPQILKRFRQAVLAAAVSGTLTTALRNSHSLIGW-----HSTNLGALIVDSCNG 237

Query: 245 NRKNTKLIESNILSLSYGNIIQK----LETRNMGLKPESYETYQIVDPGEIVFR-FIDLQ 299
             K   L  + I  L   +           R + L  +    Y + +   +V R      
Sbjct: 238 LAKRQGLNGNEITILRLADFKDAQRIIGNERKIKLDSKEENKYSLENDDILVIRVNGSAD 297

Query: 300 NDKRSLRSAQVMERGIITSAYMAVK--PHGIDSTYLAWLMRSYDLCKVFYAM--GSGLRQ 355
              R +      +       ++ ++   + I S +L ++    +           S  + 
Sbjct: 298 LAGRFIEYKSNGDIEGFCDHFIRLRLDSNKIMSRFLTYIANEGEGRFYLRNSLSTSAGQN 357

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           ++    +K L  L+PP+KEQ +I   +    A  D + +++  ++  +     S +A A 
Sbjct: 358 TINQTSIKGLSFLLPPLKEQAEIVRRVEQLFAYADTIEKQVNNALTRVNSLTQSILAKAF 417

Query: 416 TGQ 418
            G+
Sbjct: 418 RGE 420


>gi|15669726|ref|NP_248539.1| type I restriction-modification enzyme subunit S
           [Methanocaldococcus jannaschii DSM 2661]
 gi|2496187|sp|Q58926|Y1531_METJA RecName: Full=Uncharacterized protein MJ1531
 gi|1592162|gb|AAB99552.1| type I restriction-modification enzyme, S subunit, putative
           [Methanocaldococcus jannaschii DSM 2661]
          Length = 425

 Score =  140 bits (352), Expect = 4e-31,   Method: Composition-based stats.
 Identities = 79/438 (18%), Positives = 167/438 (38%), Gaps = 37/438 (8%)

Query: 3   HYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTK-LNTGRTSESGKD---IIYIGLEDVES 58
            +     +K +    IG IP+ W+V  +K   + +  G T++  KD        +E +  
Sbjct: 6   QFYKEENFKKTE---IGEIPEDWEVRELKDILEVIRNGLTAKQNKDKIGYPITRIETISD 62

Query: 59  GTGKYLP--KDGNSRQSDTSTVSIFAKGQILYGKLGP---YLRKAIIADFDGICSTQFLV 113
                       + +Q D +   +   G IL+  +       + AI             +
Sbjct: 63  SKIDITKLGYVEDIKQEDIAKYRLII-GDILFSHINSEEHIGKVAIYEGKPEFLLHGMNL 121

Query: 114 LQPKDVLPELLQGWLLSIDVTQRIEAICEGA-----TMSHADWKGIGNIPMPIPPLAEQV 168
           L  +    ++   +LL +    + + I +         S  +   + ++ +P+PPL EQ 
Sbjct: 122 LLLRPNKNKIEPYYLLYLLRHFKQKNIFKYIAKRAVNQSSINQTQLKHLKIPLPPLEEQK 181

Query: 169 LIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLV 228
            I + +          I    + IE+L + K+ ++  + TKG+      K S I   G +
Sbjct: 182 QIAKILSDFDNL----IGTINKQIEVLNKAKKGMMKKLFTKGVFEHKSFKKSEI---GEI 234

Query: 229 PDHWEVKPFFA--LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI- 285
           P+ WEV           +  ++      N        +  K E  N+   P  Y    + 
Sbjct: 235 PEDWEVVELGNEKYFKIIMGQSPPSSSYNKEGEGVPFLQGKAEFGNIYPNPVLYTNKPLK 294

Query: 286 -VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCK 344
            VD  +I+        D         + RG+     +      +D+ ++ + + SY   K
Sbjct: 295 VVDDEDILISVRAPVGDVNIAPFKLCIGRGLAG---IKSNKEKVDNFFVFYYL-SYIKPK 350

Query: 345 VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLK 404
           + Y  G  + +++  +D++ + + +PP++EQ  I   +      ID L+E   +    ++
Sbjct: 351 IEYLGGGAVFKAITKKDLESIKIPLPPLEEQKAIAKRLKA----IDDLIEIKRKEKEQIE 406

Query: 405 ERRSSFIAAAVTGQIDLR 422
           + +   +   +TG+I ++
Sbjct: 407 KAKKKIMNLLLTGKIRVK 424


>gi|289208800|ref|YP_003460866.1| restriction modification system DNA specificity domain protein
           [Thioalkalivibrio sp. K90mix]
 gi|288944431|gb|ADC72130.1| restriction modification system DNA specificity domain protein
           [Thioalkalivibrio sp. K90mix]
          Length = 419

 Score =  140 bits (352), Expect = 5e-31,   Method: Composition-based stats.
 Identities = 54/411 (13%), Positives = 129/411 (31%), Gaps = 27/411 (6%)

Query: 23  KHWKVVPIKRFTKLNTGRTS----------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           + WK   +     +  G+T           E     +++ + D+       +        
Sbjct: 3   EGWKTAKLSELCDIQLGKTPARANSSYWDQERSTGNVWLSIADLLKSEANNVSDSKEYLS 62

Query: 73  SDTSTV-SIFAKGQILYGKLGPYLRKAIIADFDGICSTQF--LVLQPKDVLPELLQGWLL 129
              + +  I  KG +L       L +   A  D   +     L +  + ++      + L
Sbjct: 63  DKGAKLCKIVKKGTLLVS-FKLTLGRVAFAGKDLYTNEAIAALTIHDEQIINRDYLFYFL 121

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
                 +             +   +  I + +PPL EQ  I   +      IDT +    
Sbjct: 122 HFFDWVKAAQDDVKLKGMTLNKAKLKEILVVVPPLPEQKRIVAILDEAFASIDTAVANTE 181

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNT 249
           + +   +E  ++ ++ +V            S +       DH       + V  +  KN 
Sbjct: 182 KNLANARELFESYLNAVVDTAFRKSTVTVLSDLAEEITDGDHMPPPKAPSGVPFITIKNI 241

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
                 +   +   + +           E  +  +    G++++           +    
Sbjct: 242 DKRTRKVDFENTFRVPRSY--------FEGLKPNKRPRKGDVLYTVTGSFGIPVVVG--- 290

Query: 310 VMERGIITSAYMAVKPHG-IDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPV 367
                        ++P    DS++L +L+ S  +        +G  ++++  + ++   V
Sbjct: 291 QKTEFCFQRHIGLIRPKSGTDSSWLYYLLMSPQIFAQATDGATGTAQKTVSLKVLRSFRV 350

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
              P+ +Q D    ++   A ++ L     Q +  L E + S +  A +G+
Sbjct: 351 PTIPLDQQVDNVQQLDNLLADVEGLESIYRQQLRNLGELKQSLLQKAFSGE 401


>gi|257900170|ref|ZP_05679823.1| predicted protein [Enterococcus faecium Com15]
 gi|257838082|gb|EEV63156.1| predicted protein [Enterococcus faecium Com15]
          Length = 424

 Score =  139 bits (351), Expect = 6e-31,   Method: Composition-based stats.
 Identities = 63/404 (15%), Positives = 137/404 (33%), Gaps = 24/404 (5%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           + W+   +   T+  +G T  +GK      DI +I   ++ S   +           + S
Sbjct: 29  EDWEQRKLGDITESFSGGTPTAGKSEYYGGDIPFIRSGEISS---ELTELFITENGLNNS 85

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
           +  +   G ILY   G    +  I+  +G  +   L ++P       L    L       
Sbjct: 86  SAKMVKAGDILYALYGATSGEVSISRINGAINQAILAIRPTKNDNSYLIVQWLRKQKDTI 145

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           I    +G    +     + ++ + +P   E+     KI A   ++D  I    R ++LLK
Sbjct: 146 ISTYLQG-GQGNLSGSIVKDLVITLPQDKEEQ---NKIGAFFKQLDDTIALHQRKLDLLK 201

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
           E K+  +  +  K      +++  G           +         +   K     E   
Sbjct: 202 ETKKGFLQKMFPKNGAKVPEVRFPGFTEDWEQRKLNDFISGDISDGDWIEKEHIKDEGKY 261

Query: 257 LSLSYGNIIQK-LETRNMGLKPESYETYQIVD-----PGEIVFRFIDLQNDKRSLRSAQV 310
             +  GNI       +    K     ++ I+      PG+++   +     +  +     
Sbjct: 262 RIIQTGNIGNGVYIDKEKSAKYMDQNSFDILKANEIFPGDLLVSRLAEPAGRTVILPNIE 321

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLV 369
                     +  +    D+ +L   M +  +        SG   + +  ++++++ +  
Sbjct: 322 DRMVTAVDVAILRQNENFDAYFLLSQMNTSKILNKVSKNVSGTSHKRISRKNLEKVTIDS 381

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
             I+EQ  I         ++D  +   ++ + LLKE +  F+  
Sbjct: 382 TSIEEQNKIGAF----FKQLDDTIALHQRKLDLLKETKKGFLQK 421


>gi|160902532|ref|YP_001568113.1| restriction modification system DNA specificity subunit [Petrotoga
           mobilis SJ95]
 gi|160360176|gb|ABX31790.1| restriction modification system DNA specificity domain [Petrotoga
           mobilis SJ95]
          Length = 429

 Score =  139 bits (351), Expect = 6e-31,   Method: Composition-based stats.
 Identities = 63/430 (14%), Positives = 148/430 (34%), Gaps = 38/430 (8%)

Query: 14  GVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
            V+ +  +P+ WK+  +K       GR     +      +++ E     +  +  N  + 
Sbjct: 3   EVKEMEKLPEGWKISSVKDLFIDGRGRVISEEE------IKNKEGIYPVFSSQTKNKGEL 56

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
                  F    I +   G         +    C+     L+ ++          L  +V
Sbjct: 57  GKINTYDFEGEYITWTTDGANAGTVFYRNGRFNCTNVCGTLEARNKEVCSKYFAYLLSNV 116

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            ++  +      + +        +             + KI      +D  I +  + IE
Sbjct: 117 LKKYVSYIGNPKLMN------NVVRGIKLVHPANYFAQCKIAEIIKTVDNAIEKTDKIIE 170

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEW-----VGLVPDHWEVKPFFALVTELNR-- 246
             K  KQ L+  ++TKG++ + +++  G        +G +P+ WEV      +       
Sbjct: 171 KYKRIKQGLMQDLLTKGIDENGQIRSEGTHRFKDSPLGRIPEEWEVVELIKGLGNNPSLI 230

Query: 247 ---------KNTKLIESNILSLSYGNII-QKLETRNMGLKPESYET---YQIVDPGEIVF 293
                    K     E  I  L   N+   K   +++    E       Y   + G+IV 
Sbjct: 231 VAGPFGSSLKVEDYKEIGIPILRLQNVDENKFIDKDIKFITEKKAKALSYHSFEEGDIVL 290

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAY-MAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-S 351
             + +   K  +   +     ++     + V P   +  ++++++      K   A    
Sbjct: 291 AKLGMPVGKACIVPEKYKYGIVVADVVRIRVSPKFANKEFISYILNYSICRKQLNAYIIG 350

Query: 352 GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
             R  +    ++ + + +P + EQ  I +++    ++ID  +EK ++    L+  +   +
Sbjct: 351 TTRPRVNLTQIRNILIPLPSLPEQHRIASIL----SQIDETIEKEQRYKEKLERIKQGLM 406

Query: 412 AAAVTGQIDL 421
              +TG++ +
Sbjct: 407 EDLLTGKVRV 416


>gi|253732461|ref|ZP_04866626.1| possible type I site-specific deoxyribonuclease specificity subunit
           [Staphylococcus aureus subsp. aureus USA300_TCH959]
 gi|253723851|gb|EES92580.1| possible type I site-specific deoxyribonuclease specificity subunit
           [Staphylococcus aureus subsp. aureus USA300_TCH959]
          Length = 409

 Score =  139 bits (349), Expect = 9e-31,   Method: Composition-based stats.
 Identities = 46/400 (11%), Positives = 123/400 (30%), Gaps = 25/400 (6%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
            W+   +       +G T    K      DI +I   D+ +   + +      +  + S+
Sbjct: 20  EWEEKQLGEVGTFTSGGTPLKSKSEYWNGDIPWITTGDIHNIKRENITNFITEKGLNESS 79

Query: 78  VSIFAKGQILYGKLGP--YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
             +     IL    G       + I +F+   +    + Q    +      +     + +
Sbjct: 80  AKLITNEAILIAMYGQGKTRGMSAILNFEATTNQACAIYQTNQNIN---FVFQYFQKLYK 136

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            + ++    +  +     +  I +  P   EQ  I         +I+    +     +  
Sbjct: 137 FLRSLSNEGSQKNLSLSLLKEITLNYPNEQEQKKIGVFFSKLDRQIELEEQKLELLQQQK 196

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
           K   Q + S  +           D   + +G + +        ++            ++ 
Sbjct: 197 KGYMQKIFSQELRFKDENGEDYPDWKEKKLGDITE-------QSMYGIGASATRFDSKNI 249

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL-RSAQVMERG 314
            + ++  +   +         P+       +   +I+F        K  + +  + +   
Sbjct: 250 YIRITDIDEKSRKLNYQNLTTPDEVNNKYKLKRNDILFARTGASTGKSYIHKEEKDIYNY 309

Query: 315 IITSAYMAVKPHGIDSTYLAWLMR--SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI 372
                 +  + +  +S    +     S     V        +  +  E+  +LP+++P  
Sbjct: 310 YFAGFLIKFEINEQNSPLFIYQFTLTSKFNKWVKVMSVRSGQPGINSEEYAKLPLVLPNK 369

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
            EQ  I   ++    R D  +E  +Q I +L++++   + 
Sbjct: 370 LEQQKIAEFLD----RFDQQIELEKQKIEILQQQKKGLLQ 405



 Score = 64.0 bits (154), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 25/190 (13%), Positives = 66/190 (34%), Gaps = 11/190 (5%)

Query: 24  HWKVVPIKRFTKLNT---GRTSES-GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            WK   +   T+ +    G ++       IYI + D++  + K   ++  +     +   
Sbjct: 220 DWKEKKLGDITEQSMYGIGASATRFDSKNIYIRITDIDEKSRKLNYQNLTTPDEVNNKYK 279

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFL------VLQPKDVLPELLQGWLLSIDV 133
           +  +  IL+ + G    K+ I   +      +           +   P  +  + L+   
Sbjct: 280 L-KRNDILFARTGASTGKSYIHKEEKDIYNYYFAGFLIKFEINEQNSPLFIYQFTLTSKF 338

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            + ++ +   +     + +    +P+ +P   EQ  I E +     +I+    +     +
Sbjct: 339 NKWVKVMSVRSGQPGINSEEYAKLPLVLPNKLEQQKIAEFLDRFDQQIELEKQKIEILQQ 398

Query: 194 LLKEKKQALV 203
             K   Q++ 
Sbjct: 399 QKKGLLQSMF 408


>gi|161617829|ref|YP_001591794.1| EcoKI restriction-modification system protein HsdS [Salmonella
           enterica subsp. enterica serovar Paratyphi B str. SPB7]
 gi|161367193|gb|ABX70961.1| hypothetical protein SPAB_05693 [Salmonella enterica subsp.
           enterica serovar Paratyphi B str. SPB7]
          Length = 467

 Score =  139 bits (349), Expect = 1e-30,   Method: Composition-based stats.
 Identities = 67/422 (15%), Positives = 143/422 (33%), Gaps = 23/422 (5%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYLP-KDGNS 70
           G +P+ W    I    ++  G+    GK       +  YI + D E+G+      K  +S
Sbjct: 4   GKLPEEWVKTTIGVICEVKGGKRLPKGKALLNTATEHPYIRVTDFENGSVNLSTIKYLDS 63

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICS---TQFLVLQPKDVLPELLQGW 127
                 +    +K  +     G       I +     +       +        + L+  
Sbjct: 64  DTYSAISNYTISKNDLYISIAGTIGLIGEIPEQLDNANLTENAAKLCFILGTDKKYLKHV 123

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
           L S    ++ +     +         I +   P  P+ EQ +I EK+     ++D+    
Sbjct: 124 LSSNKTIEQFDDKTTSSGQPKLALFRIRDCEFPYAPINEQKIIAEKLDTLLAQVDSTKAR 183

Query: 188 RIRFIELLKEKKQALVSYIVTKGL----NPDVKMKDSGIEWVGLVPDHWEVKPFFALVTE 243
             +  ++LK  +QA+++  V+  L      +     S  +W   +P  W V  +  LV  
Sbjct: 184 LEQIPQILKRFRQAVLAAAVSGLLIGSNKRNHHPLCSEWQW-PDLPSTWSVHKYSELVDS 242

Query: 244 LNRKNTKLIESNILSLSYGNIIQ------KLETRNMGLKPESYETYQIVDPGEIVFRFID 297
              K     ++   +  Y   I        LE     L  +       +  G+++     
Sbjct: 243 RLGKMLDKAKNFGSATKYLGNINVRWFSFDLENLQDILISDIERRELSLKLGDVLICEGG 302

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY-DLCKVFYAMGSGLRQS 356
                      Q +      + + A     I   +L + +++  +   +         + 
Sbjct: 303 EPGRCAIWSEPQDIPVIFQKALHRARVKDKIIPEWLVYNLKNDSNNISLSQLFTGTTIKH 362

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           L  + +   P+ VPP++EQ +I   +    A  D + +++  ++  +     S +A A  
Sbjct: 363 LTGKALANYPIRVPPLEEQHEIVRRVEQLFAYADTIEKQVNNALTRVNSLTQSILAKAFR 422

Query: 417 GQ 418
           G+
Sbjct: 423 GE 424


>gi|319954803|ref|YP_004166070.1| restriction modification system DNA specificity domain protein
           [Cellulophaga algicola DSM 14237]
 gi|319423463|gb|ADV50572.1| restriction modification system DNA specificity domain protein
           [Cellulophaga algicola DSM 14237]
          Length = 391

 Score =  138 bits (348), Expect = 1e-30,   Method: Composition-based stats.
 Identities = 66/417 (15%), Positives = 135/417 (32%), Gaps = 38/417 (9%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSE----SGKDIIYIGLEDVESGTGKYLP 65
           YK++    IG IP  W+V   K   +   GR         K I  + L+++    G +  
Sbjct: 7   YKNTE---IGIIPDEWEVKKQKEIVRYINGRAYSLHEWEKKGIPVVRLQNLTKKGGNFYY 63

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ 125
            + N             KG +++          I      I       L+ K        
Sbjct: 64  SNLNLPD-----YQYMNKGDLIF-MWSASFGPYIWWGNKAIFHYHIWKLECKKGKAVKDF 117

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
            +   +++T+ ++    G+TM H     + N  + +PPL EQ  I   +      + TL 
Sbjct: 118 YYFKLLEITEELKKGTSGSTMLHLTKGFMENYLISVPPLPEQTAIANVLSDTDNLLQTLE 177

Query: 186 TERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN 245
            +  +   + +   Q L+     +G       K + I      P                
Sbjct: 178 KKIAKKRLIKQGAMQELLKP--KEGWVVKSLGKVADIATGTTPPTRDLE----------- 224

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
                  +   +S +     + +      L  + +   +I     I+   I     K  +
Sbjct: 225 ---NYGNQFCFVSPADLGKEKYITKTVKNLSKKGFSVSRIFPKNSIMVTCIGSTIGKIGI 281

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRL 365
            S  +     I + +    P+    +   +   S +  K+           +   +   +
Sbjct: 282 ASKVLTSNQQINAIF----PNENFDSEFVYYHLSLNAKKIRLMASEQAVPMINKSEFSEV 337

Query: 366 PVLVPPIK-EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            + +P +K EQ  I  +++     I+ L    E+ +   K+ +   +   +TG+I L
Sbjct: 338 KINIPLLKSEQTKIATILSDMDTEIESL----EKQLSKYKQVKQGLMQNLLTGKIRL 390


>gi|300837085|ref|YP_003754139.1| putative type I restriction-modification system specificity
           determinant [Klebsiella pneumoniae]
 gi|299474889|gb|ADJ18713.1| putative type I restriction-modification system specificity
           determinant [Klebsiella pneumoniae]
          Length = 424

 Score =  138 bits (348), Expect = 1e-30,   Method: Composition-based stats.
 Identities = 60/420 (14%), Positives = 138/420 (32%), Gaps = 28/420 (6%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +G +P  W+ + +++   +   +          + +    S  G    +    +     +
Sbjct: 18  LGMLPTGWQKLSLEKCLNIEARKAYIQDNQEYDL-VTVKRSRGGVIRREHLKGKDISVKS 76

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFD---GICSTQFLVLQPKD-VLPELLQGWLLSIDV 133
                +G  L  K         +   +    I S ++ VL  K       ++    S+  
Sbjct: 77  QFYIKEGDFLISKRQIVHGACGLVPKELSGSIVSNEYCVLTGKSGFYLPYMEFLSESLYF 136

Query: 134 TQRIEAICEGATM--SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            Q       G  +             P  IPPL+EQ  I + +       D  I+   + 
Sbjct: 137 QQTCFHSSIGVHIEKMIFKLDSWFKWPFNIPPLSEQKRIVKIL----STWDKAISVTEKL 192

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN--- 248
           +   +++K+AL+  +VT        + ++G+ + G     W+     A+    +      
Sbjct: 193 LANSQQQKKALMQQLVT---GKKRLLDENGVRFSGE----WKRVKLGAIADINSGGTPKS 245

Query: 249 --TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
              +    NI  +S  ++    +      K  +                +          
Sbjct: 246 TVEEYYGGNIPWVSISDMTSNGKWIATTEKYLTELGLNSSSARIYPKNSVLYAMYASIGE 305

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLP 366
            +        + A + ++P    +    +   +    K+      G + +L    VK   
Sbjct: 306 CSIAAVNLTSSQAILGIRPKDCLNYEFLYFYLTSLKEKIKLQGQQGTQSNLNAGMVKEFE 365

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR-GES 425
           + +P I+EQ  I  V++   A I  L    E+ +  L++ + + +   +TG+  ++  E+
Sbjct: 366 LDLPSIREQQKIAAVLSAADAEISTL----EKKLACLRDEKKALMQQLLTGKRRVKVDEA 421


>gi|288817339|ref|YP_003431686.1| restriction endonuclease S subunit [Hydrogenobacter thermophilus
           TK-6]
 gi|288786738|dbj|BAI68485.1| restriction endonuclease S subunit [Hydrogenobacter thermophilus
           TK-6]
 gi|308750946|gb|ADO44429.1| restriction modification system DNA specificity domain protein
           [Hydrogenobacter thermophilus TK-6]
          Length = 426

 Score =  138 bits (348), Expect = 1e-30,   Method: Composition-based stats.
 Identities = 68/426 (15%), Positives = 145/426 (34%), Gaps = 39/426 (9%)

Query: 20  AIPKHWKVVPIKRFTK-LNTGRTSE----SGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
            +P+ WK V +    + L  G          + +    +E +  G          + +  
Sbjct: 6   KLPEGWKKVKLGEVIEKLRNGYVYSFSEIRKEGLPITRIETISEGKIDKSKLGYITEELR 65

Query: 75  TS-TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQ------PKDVLPELLQGW 127
                    +G IL+  +         A +DG   T    +        K +L       
Sbjct: 66  YKVNKYQMQRGDILFSHINSIEHIGKCAIYDGSIPTLIHGMNLLLLRTKKHILDPFFLIN 125

Query: 128 LLSIDVTQRIEAICEGA--TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
            L  +  +       G            +    +P+PPL EQ  I E +      +D  I
Sbjct: 126 FLKKEDIRSRLRNLSGQAVNQVSIKPSELAKFAIPLPPLPEQQKIAEIL----ETVDRAI 181

Query: 186 TERIRFIELLKEKKQALVSYIVTKGLN--------PDVKMKDSGIEWVGLVPDHWEVKPF 237
            +  + IE  K  KQ L+  ++TKG++           K KDS I   G +P+ WEV   
Sbjct: 182 EKTDKIIEKYKRIKQGLMQDLLTKGIDENGKIRSEKTHKFKDSPI---GRIPEEWEVVRL 238

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ--IVDPGEIVFRF 295
             +   +  ++   +  N        +    E  +    P ++      I     I+   
Sbjct: 239 GEVCFIIMGQSPSSVLINKKEKGIPFLQGNAEFTSKYPNPINWIEKPLKIAKKESILLSV 298

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ 355
                          + RG+ +   +        + ++ + ++ + +  +         +
Sbjct: 299 RAPVGALNIANREYCIGRGLCS---IVTNKSITHNLFIWYYLQ-FSINNLINLSQGSTFE 354

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           ++   ++K   + +PP+ EQ  I  ++    ++ID ++EK +     L+  +   +   +
Sbjct: 355 AISSRELKNYSIPLPPLTEQQRIAEIL----SQIDNVIEKEQAYRQKLERIKKGLMEDLL 410

Query: 416 TGQIDL 421
           TG++ +
Sbjct: 411 TGKVRV 416



 Score = 75.6 bits (184), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 41/206 (19%), Positives = 74/206 (35%), Gaps = 16/206 (7%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTS------ESGKDIIYIGLEDVESGTGK 62
           ++KDS    IG IP+ W+VV +     +  G++       +  K I ++       G  +
Sbjct: 220 KFKDSP---IGRIPEEWEVVRLGEVCFIIMGQSPSSVLINKKEKGIPFL------QGNAE 270

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPE 122
           +  K  N        + I  K  IL     P      IA+ +         +     +  
Sbjct: 271 FTSKYPNPINWIEKPLKIAKKESILLSVRAPV-GALNIANREYCIGRGLCSIVTNKSITH 329

Query: 123 LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
            L  W         +  + +G+T      + + N  +P+PPL EQ  I E +      I+
Sbjct: 330 NLFIWYYLQFSINNLINLSQGSTFEAISSRELKNYSIPLPPLTEQQRIAEILSQIDNVIE 389

Query: 183 TLITERIRFIELLKEKKQALVSYIVT 208
                R +   + K   + L++  V 
Sbjct: 390 KEQAYRQKLERIKKGLMEDLLTGKVR 415


>gi|255523605|ref|ZP_05390572.1| restriction modification system DNA specificity domain protein
           [Clostridium carboxidivorans P7]
 gi|255512660|gb|EET88933.1| restriction modification system DNA specificity domain protein
           [Clostridium carboxidivorans P7]
          Length = 447

 Score =  138 bits (347), Expect = 2e-30,   Method: Composition-based stats.
 Identities = 55/409 (13%), Positives = 129/409 (31%), Gaps = 17/409 (4%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESG-------KDIIYIGLEDVESGTGKYLPK---DGN 69
            +P++W  + I R  ++ +G T +S         D+ +I   D+   +  Y+ +   +  
Sbjct: 23  EVPENWVWIEIGRVIEVVSGGTPKSNVSDYYENGDVAWITPADLSGYSNIYISRGKRNIT 82

Query: 70  SRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
               + S+  +  K  +L     P      IA  +   +  F    P  V       +  
Sbjct: 83  KLGLEKSSAKLMPKNSVLMSSRAPI-GYVAIAKNEISTNQGFKNFLPSPVYL-PKYLYFY 140

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
                  IE    G T           +P PI PL EQ  I ++I +   ++D       
Sbjct: 141 LKYSKDLIETYASGTTFLEISGAKAKLLPFPIAPLKEQQRIVDRIESLFEKLDKAKELIE 200

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNT 249
              E  +++K A++       L    +       +     +           ++ N++  
Sbjct: 201 EAREEFEKRKSAILEKAFRGELTEKWRDDTKINSFKDTKFEELFAFIGGGTPSKANKEYW 260

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
               +        N         +  +     +  +   GEI+                 
Sbjct: 261 NGEINWASVKDIKNNYLYDTIDKITEEGVKNSSTNVAKNGEIILVTRISPGKVTI----A 316

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
             +  I     +             + +  Y    +         + +   ++ ++ + +
Sbjct: 317 QKDIAINQDLKIVRPKIEEIDYKYMYYLFLYKEKDLISKSQGTTVKGITINELNKIQISL 376

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           P ++EQ +I  +++      +  +E++ Q    ++  + S +A A  G+
Sbjct: 377 PVLEEQKEIVRILDKLLEE-ESKIEELTQLEDQIELVKKSILAKAFRGE 424


>gi|311747175|ref|ZP_07720960.1| ribosomal protein L10 [Algoriphagus sp. PR1]
 gi|126578884|gb|EAZ83048.1| ribosomal protein L10 [Algoriphagus sp. PR1]
          Length = 384

 Score =  138 bits (347), Expect = 2e-30,   Method: Composition-based stats.
 Identities = 61/400 (15%), Positives = 134/400 (33%), Gaps = 34/400 (8%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           K W   P+K+   L  G    S               +GKY     N    +     +  
Sbjct: 17  KDWVEKPLKQIAPLQRGFDLPST-----------HLASGKYPVVYSNGI-GNYHNKYMVK 64

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
              I+ G+ G   +   +       +T   V        + +    L I +    E    
Sbjct: 65  APGIVTGRSGTIGKVMYLGKDFWPHNTSLWVTNFHGNDTKFIYYLYLFIGL----ERFST 120

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           G+ +   +   + +  + +PP  EQ  I + +      I  L  +  +   + K   QAL
Sbjct: 121 GSGVPTLNRNDVHDFRVSLPPFHEQQGIAQVLSDTDKLIKFLEKKIEKKKLIKKGVMQAL 180

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
           ++             +   ++ +G + +  ++  F       + K+   +     +    
Sbjct: 181 LT-----------PKEGWEVKKLGEIANITKLAGFEYSNYFNSYKDRGEVIVLRGTNITA 229

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
           N +   + + +  K   +     +  G++VF ++        ++       G  TS    
Sbjct: 230 NKLDLSDIKTIPRKTSDFLKRSKLYCGDLVFAYVGTIGPVYLVKENNRFHLGPNTS--KI 287

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
              + ++S +L     S+ +        S G + SL    ++   + +P ++EQ +I  V
Sbjct: 288 SASNLLNSEFLFHYFTSWYIQDEIVEHTSIGAQPSLSMSKIRSFNINLPNLEEQVEIARV 347

Query: 382 INVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           +      I  L + +++        R   +   +TG+I L
Sbjct: 348 LTAFDNEIKDLTKLLQK----YGHLRQGMMQQLLTGKIRL 383


>gi|309702142|emb|CBJ01457.1| putative restriction-modification DNA specificity domain protein
           [Escherichia coli ETEC H10407]
          Length = 413

 Score =  138 bits (347), Expect = 2e-30,   Method: Composition-based stats.
 Identities = 70/424 (16%), Positives = 149/424 (35%), Gaps = 35/424 (8%)

Query: 22  PKHWKVVPIKRFTK--LNTGRTSESGK---DIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           PK W    +    +  ++ G           I  + + D+     +       S +++ +
Sbjct: 2   PKGWNSWILSDICRKQISYGIVQTGDNLPNGIPCLRVVDLTRDVMRLEDMIKTSEETNKA 61

Query: 77  -TVSIFAKGQILYGKLGPYLRKAIIADFDGICST----QFLVLQPKDVLPELLQGWLLSI 131
              +I  K +I+    G      +I D     +       +  + K VLPE L   L S 
Sbjct: 62  YRKTILEKDEIVMALRGEIGLARLIDDNLVGANITRGLARISPETKVVLPEFLLWELRSP 121

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
                +     G+ +       +  +   +PPL EQ  I + +       D  I+   + 
Sbjct: 122 QFRADLIRRVGGSALQEISLTELRKVRTLLPPLLEQKKIAQIL----STWDKAISVTEKL 177

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           +   + +K+AL+  ++T         K    E      + W++     L   +  KN   
Sbjct: 178 LTNSQRQKKALMQQLLT-------GKKRLLDENGTRFSETWKLYALSKLFQRVTTKNNGK 230

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQND-KRSLRSAQV 310
             + +       +I++ +     +  ++ + Y ++  G+  +           +++    
Sbjct: 231 SNNVVTISGQHGLIKQEDFFKKTVASDTLDGYFLLKKGQFAYNKSYSNGYPMGAIKRLNR 290

Query: 311 MERGIITSAYMAV---KPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQ----SLKFEDV 362
              G++T+ Y+      P      Y      S  L      +   G R     ++K  D 
Sbjct: 291 YPEGVVTTLYICFELTTPKKSCGDYWEHYFESGLLNNSLSQIAHEGGRAHGLLNVKPSDF 350

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
             L V VP  +EQ  I +V++     I  L    E+ +  LK+ + + +   +TG+  ++
Sbjct: 351 FSLKVAVPGFEEQQKIASVLSAADTEISTL----EKKLACLKDEKKALMQQLLTGKRRVK 406

Query: 423 -GES 425
             E+
Sbjct: 407 VDEA 410


>gi|153808175|ref|ZP_01960843.1| hypothetical protein BACCAC_02461 [Bacteroides caccae ATCC 43185]
 gi|149129078|gb|EDM20294.1| hypothetical protein BACCAC_02461 [Bacteroides caccae ATCC 43185]
          Length = 473

 Score =  138 bits (347), Expect = 2e-30,   Method: Composition-based stats.
 Identities = 70/408 (17%), Positives = 127/408 (31%), Gaps = 35/408 (8%)

Query: 20  AIPKHWKVVPIKRFTKL---NTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            +P  W    +   +     N     +   D   + LED+E  T   +       ++   
Sbjct: 70  EVPDSWTWTTLGEISNYGDCNNVSIIDIATDEWILELEDLEKDTASIIQMLSKKERNIKG 129

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL-LSIDVTQ 135
               F KG +LY KL  YL K ++A   G C+T+ +       +       +  S     
Sbjct: 130 VRHKFDKGDVLYSKLRTYLNKVLVAPKTGYCTTEIIPFNSYCGISNFYLCHVLRSAYFLD 189

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
             +    G  M            +P+PP+AEQ  I  +I      ID +  +++     +
Sbjct: 190 YTQQCGYGVKMPRLSTNDACKGMIPLPPIAEQQRIVVEIEKWFALIDQVEQDKVDLQTTI 249

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWV-------------------GLVPDHWEVKP 236
           K+ K  ++   +   L P        IE +                     +P  W    
Sbjct: 250 KQTKSKILDLAIHGKLVPQDPNDKPAIELLKRINPDFTPCDNGHYPNFPFDIPKKWNWVT 309

Query: 237 FFALVTELNRK-----NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVD---P 288
              +    +       N      +I  L  G++     T       E       V     
Sbjct: 310 LGEIGKWQSGSTPSRLNKDYYNGDIPWLKTGDLNDGYITHIPEYITEKALNETSVKLNPT 369

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA 348
           G I+         K  +    +        A  A + +        +             
Sbjct: 370 GSILMAMYGATIGKLGI----LTYPATTNQACCACEIYTGIEKEFLFYFLLSHRADFIKL 425

Query: 349 MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
            G G + ++  E +    + +PP +EQ  I N +N   A++DV++E +
Sbjct: 426 GGGGAQPNISKEKIINTYIPLPPSEEQKRIVNAVNDVFAQLDVIMESL 473



 Score = 62.1 bits (149), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 28/138 (20%), Positives = 54/138 (39%), Gaps = 6/138 (4%)

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG-IDSTYLAWLMRSYD 341
               D G++++  +    +K  +      + G  T+  +    +  I + YL  ++RS  
Sbjct: 131 RHKFDKGDVLYSKLRTYLNKVLVAP----KTGYCTTEIIPFNSYCGISNFYLCHVLRSAY 186

Query: 342 LCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
                   G G+    L   D  +  + +PPI EQ  I   I    A ID + +      
Sbjct: 187 FLDYTQQCGYGVKMPRLSTNDACKGMIPLPPIAEQQRIVVEIEKWFALIDQVEQDKVDLQ 246

Query: 401 VLLKERRSSFIAAAVTGQ 418
             +K+ +S  +  A+ G+
Sbjct: 247 TTIKQTKSKILDLAIHGK 264


>gi|15669403|ref|NP_248213.1| type I restriction-modification enzyme 1 subunit S
           [Methanocaldococcus jannaschii DSM 2661]
 gi|2496161|sp|Q58615|Y1218_METJA RecName: Full=Uncharacterized protein MJ1218
 gi|1591847|gb|AAB99219.1| type I restriction-modification enzyme 1, S subunit
           [Methanocaldococcus jannaschii DSM 2661]
          Length = 425

 Score =  138 bits (347), Expect = 2e-30,   Method: Composition-based stats.
 Identities = 84/421 (19%), Positives = 157/421 (37%), Gaps = 37/421 (8%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTS------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           +P+ W+VV I  F K   G+        E      Y+  E +  G      K  N     
Sbjct: 21  VPEDWEVVRIGDFIKYIKGKKPAVMVDEELEGYYPYLSTEYLRDGIASKFVKITNKEI-- 78

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
                I  +  IL    G    +  +    GI S+  + L+ K+ + + L  +       
Sbjct: 79  -----IVNENDILLLWDGSNAGEIFLGKK-GILSSTMVKLEQKNKIMDDLYLFYSLKLKE 132

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             +++  +G  + H D K   NI +P+PPL EQ  I + +          I    + IE+
Sbjct: 133 SFLKSQTKGTGIPHVDKKIFENIKIPLPPLEEQKQIAKILSDFDNL----IGTINKQIEV 188

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
           L + K+ ++  + TKG+      K S I   G +P+ WEV     +V   + K  K  E 
Sbjct: 189 LNKAKKGMMKKLFTKGVFEHKSFKKSEI---GEIPEDWEVVKLKEVVDIQSGKYFKYSEF 245

Query: 255 NILSLS----YGNIIQKLETRNMGLKPESYETYQ---IVDPGEIVF--RFIDLQNDKRSL 305
               +           K+    +   PE Y       ++  G+IV       +    +  
Sbjct: 246 CENGVKCLKIDNVGFGKIFWETVSFLPEDYLNKYPQLVLKSGDIVLALNRPIIGGKIKIG 305

Query: 306 RSAQVMERGIITSAY--MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDV 362
               + E  I+         K   ID  +L +L+ S    K    +  G  +  ++   +
Sbjct: 306 ILKDIDEPAILYQRVGRFIFKSEKIDKQFLFYLLMSEYFKKELSKLLIGTDQPYIRTPVL 365

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
             + + +P ++EQ  +   +      ID L+E   +    +++ +   +   +TG+I ++
Sbjct: 366 LNIKIPLPHLEEQKAMAERL----KSIDNLIEIKRKEKEQIEKAKKKIMNLLLTGKIRVK 421

Query: 423 G 423
            
Sbjct: 422 N 422



 Score = 63.7 bits (153), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 38/211 (18%), Positives = 82/211 (38%), Gaps = 20/211 (9%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYL 64
            +K S    IG IP+ W+VV +K    + +G+  +  +     +  + +++V  G GK  
Sbjct: 210 SFKKSE---IGEIPEDWEVVKLKEVVDIQSGKYFKYSEFCENGVKCLKIDNV--GFGKIF 264

Query: 65  PKDGNSRQSDTSTVS---IFAKGQILYGKLGPYLRKAIIA------DFDGICSTQF--LV 113
            +  +    D        +   G I+     P +   I        D   I   +    +
Sbjct: 265 WETVSFLPEDYLNKYPQLVLKSGDIVLALNRPIIGGKIKIGILKDIDEPAILYQRVGRFI 324

Query: 114 LQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
            + + +  + L   L+S    + +  +  G    +     + NI +P+P L EQ  + E+
Sbjct: 325 FKSEKIDKQFLFYLLMSEYFKKELSKLLIGTDQPYIRTPVLLNIKIPLPHLEEQKAMAER 384

Query: 174 IIAETVRIDTLITERIRFIELLKEKKQALVS 204
           + +    I+    E+ +  +  K+    L++
Sbjct: 385 LKSIDNLIEIKRKEKEQIEKAKKKIMNLLLT 415


>gi|259910155|ref|YP_002650511.1| putative type I restriction-modification system specificity subunit
           [Erwinia pyrifoliae Ep1/96]
 gi|224965777|emb|CAX57309.1| putative type I restriction-modification system specificity subunit
           [Erwinia pyrifoliae Ep1/96]
 gi|283480261|emb|CAY76177.1| type I restriction-modification system specificity subunit [Erwinia
           pyrifoliae DSM 12163]
          Length = 300

 Score =  138 bits (346), Expect = 2e-30,   Method: Composition-based stats.
 Identities = 72/277 (25%), Positives = 121/277 (43%), Gaps = 10/277 (3%)

Query: 154 IGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNP 213
                     + EQ  I   +  +T  ID  I  + + I LLKE+KQ ++   VT+GL+ 
Sbjct: 25  QDFQICYPADIKEQERIIYFLEKKTSEIDEAIAIKEKQISLLKERKQIIIQKAVTQGLDA 84

Query: 214 DVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG----NIIQKLE 269
           +V  KDSG+ W+G +P+HWE++    L T+   K          + +YG       + L 
Sbjct: 85  NVPRKDSGVSWIGKIPEHWEIRRSKFLFTQRKEKALNDDVQLSATQAYGVIPQEKYEALT 144

Query: 270 TRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID 329
            + +       +  + V+  + V      Q     L  A      I +S  +      ID
Sbjct: 145 GKRVVKIQFHLDKRKHVEKDDFVISMRSFQG---GLERAWSCG-CIRSSYVVLKALQTID 200

Query: 330 STYLAWLMRSYDLCKVFYAMGSGLR--QSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
             +  +L++            S +R  Q L F++  R+ + +PP++EQ  I N +     
Sbjct: 201 PLFYGYLLKLPSYIAALQQTASFIRDGQDLNFDNFSRVDLFIPPLEEQTAIANYVESFLT 260

Query: 388 RIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGE 424
             D  +  IEQ I  LKE +++ I +AVTG+I +  E
Sbjct: 261 SSDEAMNLIEQQIEKLKEYKTTLINSAVTGKIKITPE 297



 Score = 76.4 bits (186), Expect = 8e-12,   Method: Composition-based stats.
 Identities = 43/211 (20%), Positives = 71/211 (33%), Gaps = 5/211 (2%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDV--ESGTGKYLPKDG 68
           KDSGV WIG IP+HW++   K        +       +       V  +        K  
Sbjct: 89  KDSGVSWIGKIPEHWEIRRSKFLFTQRKEKALNDDVQLSATQAYGVIPQEKYEALTGKRV 148

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL 128
              Q          K   +   +  +      A   G   + ++VL+    +  L  G+L
Sbjct: 149 VKIQFHLDKRKHVEKDDFVIS-MRSFQGGLERAWSCGCIRSSYVVLKALQTIDPLFYGYL 207

Query: 129 LSIDVTQRIEAICEGATM--SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           L +                    ++     + + IPPL EQ  I   + +     D  + 
Sbjct: 208 LKLPSYIAALQQTASFIRDGQDLNFDNFSRVDLFIPPLEEQTAIANYVESFLTSSDEAMN 267

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKM 217
              + IE LKE K  L++  VT  +    +M
Sbjct: 268 LIEQQIEKLKEYKTTLINSAVTGKIKITPEM 298


>gi|323937173|gb|EGB33453.1| type I restriction modification DNA specificity domain-containing
           protein [Escherichia coli E1520]
          Length = 417

 Score =  138 bits (346), Expect = 2e-30,   Method: Composition-based stats.
 Identities = 68/430 (15%), Positives = 149/430 (34%), Gaps = 42/430 (9%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS- 79
           +PK W    +        G       +   + +  V  G  K L +  ++   +  +V+ 
Sbjct: 2   VPKGWSSSQLGEIMSFKNGLNFTKTDNGDSVKI--VGVGDFKDLSELSSTEHLELISVAG 59

Query: 80  ------IFAKGQILYGKLGPYLRKAIIADFD------GICSTQFLV--LQPKDVLPELLQ 125
                 +   G +L+ +            F          S   +   +  +  LP  + 
Sbjct: 60  RIRDEELLNNGDLLFVRSNGNKDLIGRCMFFPEVRERLSFSGFTIRGRVINESTLPAYMA 119

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
               S     +I     G  +S+   + + +I + +PPL EQ  I E +       D  I
Sbjct: 120 IVARSSQFQMQISKASGGTNISNLSQQILNDINLLLPPLIEQKKIAEIL----STWDKAI 175

Query: 186 TERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN 245
           +   + +   + +K+AL+  ++T         K    E      + W++     L   + 
Sbjct: 176 SVTEKLLTNSQLQKKALMQQLLT-------GKKRLLDENGTRFSETWKLYALSKLFQRVT 228

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQND-KRS 304
            KN     + +       +I++ +     +  ++ + Y ++  G+  +           +
Sbjct: 229 TKNNGKSNNVVTISGQHGLIKQEDFFKKTVASDTLDGYFLLKKGQFAYNKSYSNGYPMGA 288

Query: 305 LRSAQVMERGIITSAYMAV---KPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQ----S 356
           ++       G++T+ Y+      P      Y      S  L      +   G R     +
Sbjct: 289 IKRLNRYPEGVVTTLYICFELTTPKKSCGDYWEHYFESGLLNNSLSQIAHEGGRAHGLLN 348

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           +K  D   L V VP  +EQ  I +V++     I  L    E+ +  L++ + + +   +T
Sbjct: 349 VKPSDFFSLKVAVPGFEEQQKIASVLSAADTEISTL----EKKLACLRDEKKALMQQLLT 404

Query: 417 GQIDLR-GES 425
           G+  ++  E+
Sbjct: 405 GKRRVKVDEA 414


>gi|20807979|ref|NP_623150.1| restriction endonuclease S subunits [Thermoanaerobacter
           tengcongensis MB4]
 gi|20516553|gb|AAM24754.1| Restriction endonuclease S subunits [Thermoanaerobacter
           tengcongensis MB4]
          Length = 398

 Score =  138 bits (346), Expect = 3e-30,   Method: Composition-based stats.
 Identities = 59/409 (14%), Positives = 134/409 (32%), Gaps = 30/409 (7%)

Query: 20  AIPKHWKVVPIKRFT--KLNTGRTSESGKDIIYIGLEDVESGTGKYL-PKDGNSRQSDTS 76
            +P  W+ V +            T       +Y+ +  ++S  GK + PK+   + + + 
Sbjct: 7   KLPPGWRWVRLGEVCLPTERRDPTKNPSTYFVYVDISAIDSTVGKIVSPKEILGQHAPSR 66

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDG---ICSTQFLVLQPKDVLPELLQGWLLSIDV 133
              +   G +++    PYL+   +   D    ICST F V++      E    + L    
Sbjct: 67  ARKVIRSGDVIFATTRPYLKNIALVPPDLDGQICSTGFCVIRANREFAEPEFLFHLCRSD 126

Query: 134 TQRIE---AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
               +   +   G +        + N  +P+PPL EQ  I  K+ A   R+  +   R  
Sbjct: 127 FITNQLTASKMRGTSYPAVTDNDVYNTLIPLPPLEEQRRIVAKVEALMERVREVRRLRAE 186

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
             +  +   Q  ++ +                     +P  W       +   +  ++  
Sbjct: 187 AQKDTELLMQTALAEVFPHP--------------GADLPPGWRWVRLGEVCDIIMGQSPP 232

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYET--YQIVDPGEIVFRFIDLQNDKRSLRSA 308
               N           K +  ++   P  + +   ++  PG+++              + 
Sbjct: 233 SSTYNFEGNGLPFFQGKADFGDLHPTPRIWCSAPQKVARPGDVLISVRAPVG-----STN 287

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVL 368
                  I     A++P      +       Y   ++          ++  +D++ + + 
Sbjct: 288 VANLACCIGRGLAALRPRDSLERFWLLYYLHYLEPELSKMGAGSTFNAITKKDLQNVFIP 347

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
           +PP++EQ  I   ++    ++  L     ++   LK    + +  A  G
Sbjct: 348 LPPLEEQRRIVAYLDQIQQQVAALKRAQAETEAELKRLEQAILDKAFRG 396



 Score = 79.5 bits (194), Expect = 9e-13,   Method: Composition-based stats.
 Identities = 33/192 (17%), Positives = 65/192 (33%), Gaps = 2/192 (1%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +P  W+ V +     +  G++  S              G   +       R   ++   
Sbjct: 209 DLPPGWRWVRLGEVCDIIMGQSPPSSTYNFEGNGLPFFQGKADFGDLHPTPRIWCSAPQK 268

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           +   G +L     P      +A+           L+P+D L      + L   +   +  
Sbjct: 269 VARPGDVLISVRAPV-GSTNVANLACCIGRGLAALRPRDSLERFWLLYYLH-YLEPELSK 326

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
           +  G+T +    K + N+ +P+PPL EQ  I   +     ++  L   +      LK  +
Sbjct: 327 MGAGSTFNAITKKDLQNVFIPLPPLEEQRRIVAYLDQIQQQVAALKRAQAETEAELKRLE 386

Query: 200 QALVSYIVTKGL 211
           QA++       L
Sbjct: 387 QAILDKAFRGDL 398


>gi|313157426|gb|EFR56848.1| type I restriction modification DNA specificity domain protein
           [Alistipes sp. HGB5]
          Length = 426

 Score =  137 bits (345), Expect = 3e-30,   Method: Composition-based stats.
 Identities = 62/415 (14%), Positives = 147/415 (35%), Gaps = 22/415 (5%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTS-----ESGKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           +G IP+ W+V+ +     + +G +      ++     Y+ +ED+ +          +SR+
Sbjct: 23  LGIIPQEWEVMRLGDIVSITSGESPSLYHLKAEGKYPYVKVEDLNNCE----KYQESSRE 78

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
                 +    G I++ K G  +    +            ++        +   +L    
Sbjct: 79  YSDDNNTTIKAGSIIFPKRGASILNNKVRIAAKDIQMDSNMMAITPHTTIVDTEFLYIRI 138

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           + +R+  I + +++   + K I    + +PPLAEQ  I E +       D  I ++ R I
Sbjct: 139 LHERLYRIADTSSIPQINNKHIIPYKIAVPPLAEQRKIAEVL----GVWDEAIEKQARLI 194

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           E L  +K+AL+  +++  L      +      +G +                   N K I
Sbjct: 195 EKLALRKRALMQRLLSAKLRLPGFSEPWEKVKLGDIGHFLSSNTLSRDCLNEQIGNIKNI 254

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
               + +    I+         +  +       +  G+I+F                 ++
Sbjct: 255 HYGDILIKLPTIVDASFIHIPYVNDDVIVKSDYLKNGDIIFADTAEDYTVGKAIEIINIQ 314

Query: 313 RGIITSAYMAVKPHGID----STYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPV 367
              +TS    +          + +L + + S D  +    +  G+   S+    + +  +
Sbjct: 315 AIPVTSGLHTIPFRPKSGIFVNRFLGYYVNSTDYRRQLQPLIQGIKVYSISKTALCKTTL 374

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
            +P + EQ  I  V+          +E  ++ +  L+ ++   +   +TG+  ++
Sbjct: 375 KIPTLSEQTAIAEVLTAADRE----IELAKEKLERLRRQKRGLMQQLLTGKRRIK 425



 Score = 81.8 bits (200), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 34/205 (16%), Positives = 73/205 (35%), Gaps = 10/205 (4%)

Query: 225 VGLVPDHWEVKPFFALVTELNRKNTKLIE---SNILSLSYGNIIQKLETRNMGLKPESYE 281
           +G++P  WEV     +V+  + ++  L                +   E      +  S +
Sbjct: 23  LGIIPQEWEVMRLGDIVSITSGESPSLYHLKAEGKYPYVKVEDLNNCEKYQESSREYSDD 82

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD 341
               +  G I+F           +R A    +       +      +D+ +L   +    
Sbjct: 83  NNTTIKAGSIIFPKRGASILNNKVRIAAKDIQMDSNMMAITPHTTIVDTEFLYIRILHER 142

Query: 342 LCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
           L ++     +     +  + +    + VPP+ EQ  I  V+ V     D  +EK  + I 
Sbjct: 143 LYRIAD---TSSIPQINNKHIIPYKIAVPPLAEQRKIAEVLGVW----DEAIEKQARLIE 195

Query: 402 LLKERRSSFIAAAVTGQIDLRGESQ 426
            L  R+ + +   ++ ++ L G S+
Sbjct: 196 KLALRKRALMQRLLSAKLRLPGFSE 220


>gi|313205415|ref|YP_004044072.1| restriction modification system DNA specificity domain
           [Paludibacter propionicigenes WB4]
 gi|312444731|gb|ADQ81087.1| restriction modification system DNA specificity domain
           [Paludibacter propionicigenes WB4]
          Length = 624

 Score =  137 bits (345), Expect = 3e-30,   Method: Composition-based stats.
 Identities = 67/433 (15%), Positives = 140/433 (32%), Gaps = 37/433 (8%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSES--------GKDIIYIGLEDVESGTGKYLPKD-G 68
           +  IPKHW+V  +    K+  G   ++           + ++   ++E         +  
Sbjct: 4   LNNIPKHWQVKRLFEIGKVINGDRGKNYPSRAHYVEYGVPFVSAGNIEEYYINSNNLNFI 63

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP-ELLQGW 127
           +  + +           I+Y   G   + AI    +G  S+   +L+    +    +  +
Sbjct: 64  SKDKFEALNNGKLQNRDIIYCLRGSLGKCAISNLNEGAISSSLCILRLDQTIEERYVYYY 123

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
           L S      I     G    +   K   N  +PIPPL EQ+ I  KI      ++    +
Sbjct: 124 LCSPFGRAEILKHDNGTAQPNLSAKNFSNYIIPIPPLHEQLSIVSKIEELLSDLENGKQQ 183

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR- 246
            +   + LK  +Q+L+       L              G +P+ W+      L       
Sbjct: 184 LLTAQQQLKVYRQSLLKAAFEGRLTNKEVKD-------GELPEGWKWVTITDLAENNKHA 236

Query: 247 ----------KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYE---TYQIVDPGEIVF 293
                     K    +E+         +I            E          + P +I+ 
Sbjct: 237 LKAGPFGSALKKEFYVETGYKIYGQEQVIIDNPNFGDYYVNEEKYQELKSCRIKPFDILI 296

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG--IDSTYLAWLMRSYDLCKVFYAMGS 351
             +        L    +   GII    + +  +       +  +   S  +   + +   
Sbjct: 297 SLVGTVGKVLILPENCM--DGIINPRLIKISLNRQKYLPKFFKYYFESSSVKAHYKSQAQ 354

Query: 352 GL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
           G     L    +K++P  +  ++EQ  + + +  +    D + E I QS+   +  + S 
Sbjct: 355 GTTMDVLNLGIIKKVPFPLTTLEEQQRVIDELESKLTVCDKIEETINQSLQQAETLKQSI 414

Query: 411 IAAAVTGQIDLRG 423
           +  A  G++ ++ 
Sbjct: 415 LKKAFEGRL-VKP 426



 Score = 82.5 bits (202), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 39/205 (19%), Positives = 81/205 (39%), Gaps = 11/205 (5%)

Query: 224 WVGLVPDHWEVKPFFALVTELNRKN-------TKLIESNILSLSYGNIIQKLETRNMGLK 276
            +  +P HW+VK  F +   +N             +E  +  +S GNI +     N  L 
Sbjct: 3   ELNNIPKHWQVKRLFEIGKVINGDRGKNYPSRAHYVEYGVPFVSAGNIEEYYINSN-NLN 61

Query: 277 PESYETYQIVDPGEIVFRFID--LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
             S + ++ ++ G++  R I   L+        + + E  I +S  +      I+  Y+ 
Sbjct: 62  FISKDKFEALNNGKLQNRDIIYCLRGSLGKCAISNLNEGAISSSLCILRLDQTIEERYVY 121

Query: 335 WLMRSYDLCKVFYAM-GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
           + + S               + +L  ++     + +PP+ EQ  I + I    + ++   
Sbjct: 122 YYLCSPFGRAEILKHDNGTAQPNLSAKNFSNYIIPIPPLHEQLSIVSKIEELLSDLENGK 181

Query: 394 EKIEQSIVLLKERRSSFIAAAVTGQ 418
           +++  +   LK  R S + AA  G+
Sbjct: 182 QQLLTAQQQLKVYRQSLLKAAFEGR 206


>gi|269976583|ref|ZP_06183568.1| restriction modification system DNA specificity subunit [Mobiluncus
           mulieris 28-1]
 gi|269935384|gb|EEZ91933.1| restriction modification system DNA specificity subunit [Mobiluncus
           mulieris 28-1]
          Length = 445

 Score =  137 bits (345), Expect = 3e-30,   Method: Composition-based stats.
 Identities = 62/419 (14%), Positives = 154/419 (36%), Gaps = 16/419 (3%)

Query: 14  GVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
             +W   IPKHWK V ++   ++  G+T    ++  +   +        +  +   +   
Sbjct: 24  EEEWPYPIPKHWKWVRLESVVEMRIGKTPARAEEKYWDSYDYPWVKISDFTDEGVIAGSQ 83

Query: 74  DTSTV---------SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELL 124
           +  +           +   G +L       + K  I D   + +   + + P+  +    
Sbjct: 84  EQISSVAFREVFKGRLVPAGTLLMS-FKLTIGKCAILDIAAVHNEAIISIFPQCSIVNRD 142

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
             +     +TQ           S  +   +  +P+P+PPL EQ  I   +  +  +ID++
Sbjct: 143 YLFHCLPTITQFGIQR-SAVKGSTLNSNSLNALPLPLPPLTEQKQIVAYLDEKLGKIDSV 201

Query: 185 ITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTEL 244
             +   F++   ++K  L+   +T  L    + + S            ++  +    T  
Sbjct: 202 REKLQDFLDHADKRKDNLIQAAITGHLTHQWRDQHSVSMASWKQVQLGKLGKWGGGGTPS 261

Query: 245 NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES--YETYQIVDPGEIVFRFIDLQNDK 302
             K++      I  ++  ++        +         E+   +     +   +     +
Sbjct: 262 KSKSSFWDGGTIRWITSKDMKTSEILDTLDHITAKAVEESTANLYQEPAICVVMRSGILR 321

Query: 303 RSLRSAQVMERGIITSAYMAVKP--HGIDSTYLAW-LMRSYDLCKVFYAMGSGLRQSLKF 359
           R+L  A+V     +      +     G++  ++   L+   D      +      +S++F
Sbjct: 322 RTLPIAKVNGEFTVNQDLKVLHAFADGVEPDFIYLALLGHSDRILDVCSKSGTTVESIEF 381

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
             +K   + +P + EQ +I  +++ + ARID    K+++++  L   +   ++AA+ G+
Sbjct: 382 SKLKDYEIELPVLPEQEEIARILDEQLARIDAADSKVQEALDQLNLLKEQLVSAALAGR 440



 Score = 79.5 bits (194), Expect = 9e-13,   Method: Composition-based stats.
 Identities = 38/204 (18%), Positives = 78/204 (38%), Gaps = 6/204 (2%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
              EW   +P HW+     ++V     K     E           ++  +  + G+   S
Sbjct: 23  PEEEWPYPIPKHWKWVRLESVVEMRIGKTPARAEEKYWDSYDYPWVKISDFTDEGVIAGS 82

Query: 280 YET-----YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
            E      ++ V  G +V     L + K ++    +++   + +  +             
Sbjct: 83  QEQISSVAFREVFKGRLVPAGTLLMSFKLTIGKCAILDIAAVHNEAIISIFPQCSIVNRD 142

Query: 335 WLMRSYDLCKVFYAMGSGLRQS-LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
           +L         F    S ++ S L    +  LP+ +PP+ EQ  I   ++ +  +ID + 
Sbjct: 143 YLFHCLPTITQFGIQRSAVKGSTLNSNSLNALPLPLPPLTEQKQIVAYLDEKLGKIDSVR 202

Query: 394 EKIEQSIVLLKERRSSFIAAAVTG 417
           EK++  +    +R+ + I AA+TG
Sbjct: 203 EKLQDFLDHADKRKDNLIQAAITG 226


>gi|161528115|ref|YP_001581941.1| restriction modification system DNA specificity subunit
           [Nitrosopumilus maritimus SCM1]
 gi|160339416|gb|ABX12503.1| restriction modification system DNA specificity domain
           [Nitrosopumilus maritimus SCM1]
          Length = 438

 Score =  137 bits (344), Expect = 4e-30,   Method: Composition-based stats.
 Identities = 66/424 (15%), Positives = 141/424 (33%), Gaps = 25/424 (5%)

Query: 20  AIPKHWKVVPIKRF-TKLNTGRTSES--------GKDIIYIGLEDVESGTGK-YLPKDGN 69
            IP+ WK+  +    TK+  G   ES           I +I   ++          K  +
Sbjct: 18  EIPETWKICNLGDLLTKIQDGNYGESYPKESEFLDSGIPFIRGTEITKNFIDGKKVKYIS 77

Query: 70  SRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADF---DGICSTQF--LVLQPKDVLPELL 124
             + D    +    G +L+   G   R   I      D     Q   L    K +  + L
Sbjct: 78  KTKHDELQKAHIETGDVLFLNRGGITRTVAIVPPKYDDANIGPQLTLLRCNTKIIHNKYL 137

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
             ++   +  +++ +   G  +     +      + +P + EQ  I   + +    + + 
Sbjct: 138 YYFIQGENFKKQVISSDAGTALQFFGIEKTKKFKITLPEIREQQKIVSVLNSIDNLLSSY 197

Query: 185 ITERIRFIELLKEKKQALVSYIVTKGLN---PDVKMKDSGIEWVGLVPDHWEVKPFFALV 241
                   +L K   Q L++  +        P +  K+  I     +    ++    +  
Sbjct: 198 DKTIQTTQKLKKGLMQKLLTKGIDHKKFKKVPWLFGKEIEIPEEWEIKKIEDLFKLKSGS 257

Query: 242 TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE--SYETYQIVDPGEIVFRFIDLQ 299
           T   +       +     S      K+ +    + PE       +++  G  +     L+
Sbjct: 258 TPSRKIPEYFAGNIPWITSTDLNRSKITSTLEKITPEAVKQTNLKLLPKGTFLIATYGLE 317

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLK 358
                 +            A MA  P    ++   +    Y   K+ +++  G  +Q+L 
Sbjct: 318 AAGTRGKCGITKMESTCNQACMAFLPSSEITSEFLFYFYLYFGEKIIFSIAQGTKQQNLY 377

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            + +K++ + VPP KEQ  I N ++   + +  L  K       L + +   I   +T +
Sbjct: 378 SDTLKKVSMFVPPQKEQKRIVNFLDQIDSHLFELESKK----TGLDKIKKGLIQKLLTSK 433

Query: 419 IDLR 422
           I ++
Sbjct: 434 IRVK 437


>gi|11499300|ref|NP_070538.1| type I restriction-modification enzyme, S subunit [Archaeoglobus
           fulgidus DSM 4304]
 gi|2648839|gb|AAB89535.1| type I restriction-modification enzyme, S subunit [Archaeoglobus
           fulgidus DSM 4304]
          Length = 341

 Score =  137 bits (344), Expect = 4e-30,   Method: Composition-based stats.
 Identities = 54/348 (15%), Positives = 122/348 (35%), Gaps = 20/348 (5%)

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            KG I+     P      I D D   +     L PK             + + +++E + 
Sbjct: 2   PKGSIIVSTRAPV-GYVAIVDEDTTFNQGCKGLIPKSSEINTEFYCYYLLLIKRKLEQLS 60

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            G+T      K +  + +P+ PL EQ  I E +      +D  I +    I   +  K+ 
Sbjct: 61  GGSTFKELPKKSLEELLIPLLPLPEQQKIAEIL----STVDKAIEKVDEAIAKTERLKKG 116

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK--NTKLIESNILSL 259
           L+  ++TKG+      K+     +G +P  WEV     ++             +     +
Sbjct: 117 LMQELLTKGIGH----KEFKDTEIGRIPKEWEVVRLGDVLELCQYGLSVPLKDKGKYPVI 172

Query: 260 SYGNIIQKLETRNMGLK---PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
               I+      ++       E       ++ G+++F   +            +    + 
Sbjct: 173 RMDEIVNGYVVTDIAKYADLDEETFKNFKLEKGDVLFNRTNSLELVGRTGIFLLDGYYVF 232

Query: 317 TSAYMAVKPHGI--DSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKE 374
            S  + ++P        +L + +          A  +  + ++   ++K+  + +PP+ E
Sbjct: 233 ASYLIRLRPKHEILHPHFLTFYLIFSQSRLKQLATVAVHQANINATNLKKFKIPLPPLPE 292

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
           Q  I  +++    ++    E   +    L+  +   +   +TG+  +R
Sbjct: 293 QQKIAEILSTVDKKL----ELERKRKEKLERIKKGLMNDLLTGRRRVR 336



 Score = 71.0 bits (172), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 35/204 (17%), Positives = 76/204 (37%), Gaps = 11/204 (5%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKL-NTGRT-SESGKD-IIYIGLEDVESGTGKYLP 65
           ++KD+    IG IPK W+VV +    +L   G +     K     I ++++ +G      
Sbjct: 130 EFKDTE---IGRIPKEWEVVRLGDVLELCQYGLSVPLKDKGKYPVIRMDEIVNGYVVTDI 186

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPY----LRKAIIADFDGICSTQFLVLQPKDVLP 121
                   +T       KG +L+ +             + D   + ++  + L+PK  + 
Sbjct: 187 AKYADLDEETFKNFKLEKGDVLFNRTNSLELVGRTGIFLLDGYYVFASYLIRLRPKHEIL 246

Query: 122 ELLQGWLLSIDVTQRIEAICE-GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
                    I    R++ +       ++ +   +    +P+PPL EQ  I E +     +
Sbjct: 247 HPHFLTFYLIFSQSRLKQLATVAVHQANINATNLKKFKIPLPPLPEQQKIAEILSTVDKK 306

Query: 181 IDTLITERIRFIELLKEKKQALVS 204
           ++     + +   + K     L++
Sbjct: 307 LELERKRKEKLERIKKGLMNDLLT 330


>gi|315059000|gb|ADT73329.1| Type I restriction-modification system, specificity subunit S
           [Campylobacter jejuni subsp. jejuni S3]
          Length = 398

 Score =  136 bits (343), Expect = 5e-30,   Method: Composition-based stats.
 Identities = 61/411 (14%), Positives = 127/411 (30%), Gaps = 30/411 (7%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDII-------YIGLEDVESGTGKYLPKDGNSRQS 73
           +P+ W+V  ++    +  G+    GK+++       YI + D +      L       ++
Sbjct: 4   LPQGWEVKKLEEIANIKGGKRLPKGKNLLDNNTKFAYIRVADFQDNGTINLQNIKFINEN 63

Query: 74  DTS--TVSIFAKGQILYGKLGPYLRKAIIADF-DGICSTQFLV---LQPKDVLPELLQGW 127
             +           +     G   +  II    +G   T+  V       ++  + +  +
Sbjct: 64  TYNVLKNYKIYDDNLYISIAGTIGKSGIIPKELNGAILTENAVKLEYIQNNISNKFMYFF 123

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
            LS     +I+   +           +  I +P+PPL EQ  I   +     +ID  I  
Sbjct: 124 TLSNIFKTQIQTSTKIVAQPKLAITRLKQIQIPLPPLKEQERIVGILDESFAKIDESIKI 183

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK 247
             + +  L E  Q+ +        +          +    +P  WE K    +   ++  
Sbjct: 184 LEQDLLNLDELMQSALQKAFNPLKD--------NAKENYKLPQSWEWKSLEEISENISAG 235

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
             K         +   I       N        +   I+ P       I  +     +  
Sbjct: 236 GDKPKNCTESKTAKNQIPVYANGVNNNGLVGYTDKATIIKPS----LTISARGTIGFVCI 291

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
            +     I+    +    + +   YL + +                   L     K L +
Sbjct: 292 RKEPYFPIVRLISLIPCENILCLHYLYFCLN-----FFIAKGEGSSIPQLTIPKFKSLQI 346

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            +PP+KEQ  I   ++    +   L E   + +   +E + S +  A  G+
Sbjct: 347 PLPPLKEQEQIAEHLDFVFEKAKALKELYTKELKDYEELKQSLLNKAFKGE 397



 Score = 50.6 bits (119), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 27/193 (13%), Positives = 66/193 (34%), Gaps = 10/193 (5%)

Query: 20  AIPKHWKVVPIKRFTK-LNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
            +P+ W+   ++  ++ ++ G              +  ++    Y     N+     +  
Sbjct: 215 KLPQSWEWKSLEEISENISAGGDKPKN----CTESKTAKNQIPVYANGVNNNGLVGYTDK 270

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           +   K  +     G      I  +       + + L P + +  L   +        + E
Sbjct: 271 ATIIKPSLTISARGTIGFVCIRKEPYFPI-VRLISLIPCENILCLHYLYFCLNFFIAKGE 329

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
               G+++         ++ +P+PPL EQ  I E +     +   L     + ++  +E 
Sbjct: 330 ----GSSIPQLTIPKFKSLQIPLPPLKEQEQIAEHLDFVFEKAKALKELYTKELKDYEEL 385

Query: 199 KQALVSYIVTKGL 211
           KQ+L++      L
Sbjct: 386 KQSLLNKAFKGEL 398


>gi|24371978|ref|NP_716020.1| type I restriction-modification system, S subunit [Shewanella
           oneidensis MR-1]
 gi|24345830|gb|AAN53465.1|AE015486_6 type I restriction-modification system, S subunit [Shewanella
           oneidensis MR-1]
          Length = 439

 Score =  136 bits (343), Expect = 5e-30,   Method: Composition-based stats.
 Identities = 65/428 (15%), Positives = 146/428 (34%), Gaps = 29/428 (6%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSESG------KDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           G IP  W+   I    +  TG   +S       +    +   ++  G+ ++         
Sbjct: 10  GKIPNDWEYQIIIDNVEFLTGPAFDSSLFNTESRGARLVRGINLTQGSTRWGEDKTKYWD 69

Query: 73  SDTSTVSIFA--KGQILYGKLGPYLRKAIIA----DFDGICSTQFLVLQPKDVLPELLQG 126
            + + +  +      IL G  G  + K        D   +   +   L+ K  L      
Sbjct: 70  VELNNLKKYQLAINDILIGMDGSLVGKNYAYLKQSDLPALLVQRVARLRAKSNLHSKYLY 129

Query: 127 WLLSIDVT-QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
           ++ + D     +E +   + + H     I N   P PPL EQ  I   + +    I+   
Sbjct: 130 YMYATDFWLDYVEVVKTNSGIPHISNGDIKNFRFPFPPLPEQQKIAAILTSVDEVIEKTQ 189

Query: 186 TERIRFIELLKEKKQALVSYIVTKGLN----PDVKMKDSGIEWVGLVPDHWEVKPFFALV 241
            +  +  +L     Q L++  V         P ++ KDS +  +    +   +      +
Sbjct: 190 AQIDKLKDLKSGMMQELLTKGVGIKQGDKYVPHIEFKDSPVGKIPKSWEVKPLNSVVLKI 249

Query: 242 TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKP------ESYETYQIVDPGEIVFRF 295
            +   K    ++ +   +   + ++  E     +K         +    I   G+++F  
Sbjct: 250 IDCEHKTAPYVDKSEYLVVRTSNVRHGELVLDDMKYTHADGYAEWTNRAIPSLGDVLFTR 309

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL-CKVFYAMGSGLR 354
                 +  L               +    + I S + +  + S    C ++        
Sbjct: 310 EAPAG-ESCLVPENTKVCMGQRMVLLRPDANVIFSNFFSLFLTSEAASCAIYERSIGTTV 368

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAA 414
             +  ED+KR+P +VPP+ EQ +I    +     +   +   ++ +  LK  + + +   
Sbjct: 369 SRINIEDIKRIPCIVPPLSEQQEI----SKAIQSVQNSILNKQEKLQSLKNLKKALMQDL 424

Query: 415 VTGQIDLR 422
           +TG++ ++
Sbjct: 425 LTGKVRVK 432


>gi|205356617|ref|ZP_03223379.1| putative Type I RM HdsS [Campylobacter jejuni subsp. jejuni CG8421]
 gi|205345474|gb|EDZ32115.1| putative Type I RM HdsS [Campylobacter jejuni subsp. jejuni CG8421]
          Length = 404

 Score =  136 bits (343), Expect = 5e-30,   Method: Composition-based stats.
 Identities = 61/411 (14%), Positives = 127/411 (30%), Gaps = 30/411 (7%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDII-------YIGLEDVESGTGKYLPKDGNSRQS 73
           +P+ W+V  ++    +  G+    GK+++       YI + D +      L       ++
Sbjct: 10  LPQGWEVKKLEEIANIKGGKRLPKGKNLLDNNTKFAYIRVADFQDNGTINLQNIKFINEN 69

Query: 74  DTS--TVSIFAKGQILYGKLGPYLRKAIIADF-DGICSTQFLV---LQPKDVLPELLQGW 127
             +           +     G   +  II    +G   T+  V       ++  + +  +
Sbjct: 70  TYNVLKNYKIYDDNLYISIAGTIGKSGIIPKELNGAILTENAVKLEYIQNNISNKFMYFF 129

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
            LS     +I+   +           +  I +P+PPL EQ  I   +     +ID  I  
Sbjct: 130 TLSNIFKTQIQTSTKIVAQPKLAITRLKQIQIPLPPLKEQERIVGILDESFAKIDESIKI 189

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK 247
             + +  L E  Q+ +        +          +    +P  WE K    +   ++  
Sbjct: 190 LEQDLLNLDELMQSALQKAFNPLKD--------NAKENYKLPQSWEWKSLEEISENISAG 241

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
             K         +   I       N        +   I+ P       I  +     +  
Sbjct: 242 GDKPKNCTESKTAKNQIPVYANGVNNNGLVGYTDKATIIKPSL----TISARGTIGFVCI 297

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
            +     I+    +    + +   YL + +                   L     K L +
Sbjct: 298 RKEPYFPIVRLISLIPCENILCLHYLYFCLN-----FFIAKGEGSSIPQLTIPKFKSLQI 352

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            +PP+KEQ  I   ++    +   L E   + +   +E + S +  A  G+
Sbjct: 353 PLPPLKEQEQIAEHLDFVFEKAKALKELYTKELKDYEELKQSLLNKAFKGE 403



 Score = 50.6 bits (119), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 27/193 (13%), Positives = 66/193 (34%), Gaps = 10/193 (5%)

Query: 20  AIPKHWKVVPIKRFTK-LNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
            +P+ W+   ++  ++ ++ G              +  ++    Y     N+     +  
Sbjct: 221 KLPQSWEWKSLEEISENISAGGDKPKN----CTESKTAKNQIPVYANGVNNNGLVGYTDK 276

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           +   K  +     G      I  +       + + L P + +  L   +        + E
Sbjct: 277 ATIIKPSLTISARGTIGFVCIRKEPYFPI-VRLISLIPCENILCLHYLYFCLNFFIAKGE 335

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
               G+++         ++ +P+PPL EQ  I E +     +   L     + ++  +E 
Sbjct: 336 ----GSSIPQLTIPKFKSLQIPLPPLKEQEQIAEHLDFVFEKAKALKELYTKELKDYEEL 391

Query: 199 KQALVSYIVTKGL 211
           KQ+L++      L
Sbjct: 392 KQSLLNKAFKGEL 404


>gi|325104608|ref|YP_004274262.1| restriction modification system DNA specificity domain protein
           [Pedobacter saltans DSM 12145]
 gi|324973456|gb|ADY52440.1| restriction modification system DNA specificity domain protein
           [Pedobacter saltans DSM 12145]
          Length = 424

 Score =  136 bits (343), Expect = 6e-30,   Method: Composition-based stats.
 Identities = 71/414 (17%), Positives = 149/414 (35%), Gaps = 22/414 (5%)

Query: 20  AIPKHWKVVPIKRFTKLNT--GRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQS 73
            +P++W++  +K         G    + K     + ++   D++   G          + 
Sbjct: 14  DLPENWRMQRLKNLCTEKNTYGVNIPNSKYEESGVRFLRTTDIDE-NGNIGEGGIFIAKK 72

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP--ELLQGWLLSI 131
           +        KG +L+ + G   R     + +      FLV      +   + L  +  S 
Sbjct: 73  NVPEGYFLNKGDVLFSRSGTIGRCYFHKNEEEYTYAGFLVKFKPKNIDISKWLYYFSFSK 132

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPP-LAEQVLIREKIIAETVRIDTLITERIR 190
               ++      +T+ + +      + + IP  +     I   +  +  +I+  I ++ +
Sbjct: 133 YFKYQLSTEAIESTIFNFNGNKYSVLKVAIPNEIETVRKINNFLDKKCEQINQFIADKKQ 192

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
            I LLKE++Q++++  V K  + D       I WV     H     F  +    ++   K
Sbjct: 193 LINLLKEQRQSVINSHVNKSEDEDS------INWVTHKLKHISDIKFSNVDKLTHKGEVK 246

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA-- 308
           +   N + +   + I       +            V  G+I+        +   + +   
Sbjct: 247 VKLCNYVDVYKNDYITNNIEFMLATATLEEIEKFKVFKGDIIITKDSESANDIGIPAFVS 306

Query: 309 QVMERGIITSA--YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRL 365
           + ++  +       +      I   +L   + S ++   F    +G  R  L   D+  +
Sbjct: 307 ENIDNLVCAYHLAMIRANQEIILDEFLFRKIESKEVNSQFEVNATGVTRVGLSIADISNV 366

Query: 366 PVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            +  P  I  Q DI   I  ET  ID  + K E+ + L+ E + + I+ AVTGQ
Sbjct: 367 LISYPKDINIQKDIIAKIKSETKTIDETIFKTEEELRLVAEYKEALISNAVTGQ 420


>gi|124008028|ref|ZP_01692727.1| type I restriction enzyme StySJI specificity protein [Microscilla
           marina ATCC 23134]
 gi|123986442|gb|EAY26248.1| type I restriction enzyme StySJI specificity protein [Microscilla
           marina ATCC 23134]
          Length = 436

 Score =  136 bits (343), Expect = 6e-30,   Method: Composition-based stats.
 Identities = 62/428 (14%), Positives = 140/428 (32%), Gaps = 34/428 (7%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDI-------IYIGLEDVESGTGKYLP-KDGNSRQSD 74
            +W+   I+ F ++  G+   +GK+         Y+ + D+ +G+      +  +     
Sbjct: 2   SNWEEKKIQDFAEVKGGKRLPAGKEFSLTPTKHPYLRVTDMVNGSIDTSNLQYVDEEIEK 61

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGIC----STQFLVLQPKDVLPELLQGWLLS 130
                  +   +     G       I +         +   +    K ++ +    + LS
Sbjct: 62  VIRNYRISADDLYITIAGTIGSVGNIPELLHNALLTENAAKITNIDKSIIDKNYLQYYLS 121

Query: 131 IDVTQRIEA--ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
            + T+      I  G  +       I N+ +  PPL  Q  I + +      ID      
Sbjct: 122 SEETKSQINKEIGIGGGVPKLALYRILNLVVQYPPLTYQRKIAQILSTVDRVIDGTQRAI 181

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIE-----WVGLVPDHWEVKPFFA---L 240
            ++  L +   Q L S  +          +    E      +G +P  +           
Sbjct: 182 EKYQTLKEGLMQDLFSRGIDVSTGKLRPPRQVAPELYQKTELGWIPKDYSFVRLEDLTLK 241

Query: 241 VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYE-----TYQIVDPGEIVFRF 295
           + +      K  ES I  L   ++  K    +        E          + G+++   
Sbjct: 242 IIDGTHHTPKYTESGIPFLRVTDVQTKDINFDKLKFVSLEEHQILTKRCNPEKGDLLLSK 301

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLR 354
                  + +          ++ A +      I+  YL + ++S  +          G  
Sbjct: 302 NGTIGIPKVVDWDWEFS-IFVSLALIKPNHRLINVEYLLYFLKSELIKNQIIRQAKQGTV 360

Query: 355 QSLKFEDVKRLPVLVPP-IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            +L  E+++   +  PP I+EQ +I   +N     ++  +E  ++S   LK  + + +  
Sbjct: 361 TNLHLEEIREFKIAQPPSIQEQNNIVEKLN----NLEKQIESEQKSFQKLKTLKQALMQD 416

Query: 414 AVTGQIDL 421
            +TG++ +
Sbjct: 417 LLTGKVSV 424



 Score = 59.8 bits (143), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 37/200 (18%), Positives = 74/200 (37%), Gaps = 10/200 (5%)

Query: 18  IGAIPKHWKVVPIKRFT-KLNTGRTSESG---KDIIYIGLEDVESGTGKYLPKDGNSRQS 73
           +G IPK +  V ++  T K+  G           I ++ + DV++    +      S + 
Sbjct: 223 LGWIPKDYSFVRLEDLTLKIIDGTHHTPKYTESGIPFLRVTDVQTKDINFDKLKFVSLEE 282

Query: 74  DTSTVSIF--AKGQILYGKLGPYLRKAII---ADFDGICSTQFLVLQPKDVLPELLQGWL 128
                      KG +L  K G      ++    +F    S   +    + +  E L  +L
Sbjct: 283 HQILTKRCNPEKGDLLLSKNGTIGIPKVVDWDWEFSIFVSLALIKPNHRLINVEYLLYFL 342

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPM-PIPPLAEQVLIREKIIAETVRIDTLITE 187
            S  +  +I    +  T+++   + I    +   P + EQ  I EK+     +I++    
Sbjct: 343 KSELIKNQIIRQAKQGTVTNLHLEEIREFKIAQPPSIQEQNNIVEKLNNLEKQIESEQKS 402

Query: 188 RIRFIELLKEKKQALVSYIV 207
             +   L +   Q L++  V
Sbjct: 403 FQKLKTLKQALMQDLLTGKV 422


>gi|256810222|ref|YP_003127591.1| restriction modification system DNA specificity domain protein
           [Methanocaldococcus fervens AG86]
 gi|256793422|gb|ACV24091.1| restriction modification system DNA specificity domain protein
           [Methanocaldococcus fervens AG86]
          Length = 402

 Score =  136 bits (342), Expect = 7e-30,   Method: Composition-based stats.
 Identities = 82/421 (19%), Positives = 144/421 (34%), Gaps = 45/421 (10%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
            +P+ WK V +K   K   G+  ++         + Y+  +   +G  K           
Sbjct: 3   ELPEGWKWVKLKEIIKTEKGKKPKNLIKEKNNNALPYLTADYFRTGILK-------QYSE 55

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
           +   + I   G ++    G       I+D +GI ++  + L  K+        + +    
Sbjct: 56  ENEKLRIVKPGDLVLIWDGSKAGDIFISDIEGILASTMVKLIIKNKEVHPKFIYFVIKHY 115

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPP------LAEQVLIREKIIAETVRIDTLITE 187
              +     GA + H   +   N+ +PIP       L +Q  I EKI      ID  I  
Sbjct: 116 FPILNKNTTGAGIPHVSKEVFNNLLIPIPFKDGKPDLEKQKQIVEKIEKIFNEIDKAIKL 175

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK 247
           R + I   KE   A+++ I           K++             +  F    T    +
Sbjct: 176 REKAINETKELFNAVLNKIF----------KEAEEGERWKWVKFENIVDFKMGKTPKRSE 225

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPES----YETYQIVDPGEIVFRFIDLQNDKR 303
                      +S G++  K          E         +IV  G ++  F        
Sbjct: 226 KRYWENGVYHWVSIGDMQDKYINTTKEKISEEAFREVFKGKIVPKGTLLMSFKLTIGRTA 285

Query: 304 SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVK 363
            L    V    II+          I   YL W+++S D  K       G   +L  E +K
Sbjct: 286 ILNIDAVHNEAIIS----IYPKEEILRDYLYWVLQSIDYKKYINPAIKG--HTLNKEILK 339

Query: 364 RLPVLVP------PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
            L + +P       I++Q  I N ++  + +I  L +  E+ + L KE + S +  A  G
Sbjct: 340 NLLIPIPYKDNKPDIEKQKQIANYLDNLSEKIKQLEQLQEKQLNLFKELKESILNKAFEG 399

Query: 418 Q 418
           +
Sbjct: 400 E 400


>gi|302871463|ref|YP_003840099.1| restriction modification system DNA specificity domain
           [Caldicellulosiruptor obsidiansis OB47]
 gi|302574322|gb|ADL42113.1| restriction modification system DNA specificity domain
           [Caldicellulosiruptor obsidiansis OB47]
          Length = 457

 Score =  136 bits (342), Expect = 8e-30,   Method: Composition-based stats.
 Identities = 78/431 (18%), Positives = 157/431 (36%), Gaps = 37/431 (8%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSE---SGKDIIYIGLEDVE-SGTGKYLPKDGNSRQSDT 75
             PK W +V ++R   L +G   +   S + I  +G E +   G   +   +        
Sbjct: 22  EFPKEWTIVSLERDCVLISGLRPKGGASDEGIPSLGGEHITLDGRINFSDVNAKYIPEKF 81

Query: 76  ST---VSIFAKGQILYGKLGPYLRKAIIADFDGI----CSTQFLVLQPKDVLPELLQGWL 128
                     +  IL  K G    K  I           +    +L+ K +  +    + 
Sbjct: 82  FKIMTKGKAEENDILINKDGANTGKVAILKKKFYKDIAINEHLFILRSKKLFVQQYLFYW 141

Query: 129 LSIDV-TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
           L      ++I     G+         I N  +P PPL+EQ  I E +      ID  I +
Sbjct: 142 LFSRFGQKQITDRITGSAQPGLSSTFIKNFLVPRPPLSEQRKIAEIL----ETIDNAIEK 197

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEW-----VGLVPDHWEVKPFFALVT 242
               IE  K  KQ L+  ++TKG++ + ++++          +G +P+ W+V     +  
Sbjct: 198 TDAIIEKYKRIKQGLMQDLLTKGIDENWQIRNEKTHKFKDSLLGRIPEEWKVVKLKDVAD 257

Query: 243 ELNRKNTKLIE--------SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFR 294
                  K  +         N L +   + I K           +      +  G+++  
Sbjct: 258 IRLSNVDKKTDLKGKIIQLCNYLEVYQNDYIIKGMNFMHASATNNEIKKFKISKGDVIIT 317

Query: 295 FIDLQNDKRSLRSA--QVMERGIITSAYMAVKP-HGIDSTYLAWLMRSYDLCKVFYAMGS 351
               + +  +  +     +E  I       +KP + I+  +L+ ++   ++   F    +
Sbjct: 318 KDSEEYNDIAKPAYVRDEIENLICGYHLALIKPLNNINGLFLSKVLSFRNVNIYFQQRAN 377

Query: 352 G-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
           G  R  L  E +    + +P I EQ  I  ++    ++ID ++EK +     L+  +   
Sbjct: 378 GITRFGLTKETITGAIIPLPLIPEQERIATIL----SQIDEVIEKEQAYKEKLERIKKGL 433

Query: 411 IAAAVTGQIDL 421
           +   +TG++ +
Sbjct: 434 MEDLLTGKVRV 444



 Score = 58.3 bits (139), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 35/213 (16%), Positives = 68/213 (31%), Gaps = 16/213 (7%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKL----NTGRTSESGKDIIYIGLEDVESGTGKYL 64
           ++KDS    +G IP+ WKVV +K    +       +T   GK I      +V        
Sbjct: 234 KFKDS---LLGRIPEEWKVVKLKDVADIRLSNVDKKTDLKGKIIQLCNYLEVYQNDYIIK 290

Query: 65  PKDGNSRQSDTSTVSIFA--KGQILYGK----LGPYLRKAIIADFDGICSTQFLVLQPKD 118
             +     +  + +  F   KG ++  K         + A + D        + +   K 
Sbjct: 291 GMNFMHASATNNEIKKFKISKGDVIITKDSEEYNDIAKPAYVRDEIENLICGYHLALIKP 350

Query: 119 VLPELLQGWLLSIDVTQ---RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKII 175
           +           +         +    G T      + I    +P+P + EQ  I   + 
Sbjct: 351 LNNINGLFLSKVLSFRNVNIYFQQRANGITRFGLTKETITGAIIPLPLIPEQERIATILS 410

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVSYIVT 208
                I+     + +   + K   + L++  V 
Sbjct: 411 QIDEVIEKEQAYKEKLERIKKGLMEDLLTGKVR 443


>gi|193212616|ref|YP_001998569.1| restriction modification system DNA specificity domain
           [Chlorobaculum parvum NCIB 8327]
 gi|193086093|gb|ACF11369.1| restriction modification system DNA specificity domain
           [Chlorobaculum parvum NCIB 8327]
          Length = 578

 Score =  135 bits (340), Expect = 1e-29,   Method: Composition-based stats.
 Identities = 95/489 (19%), Positives = 163/489 (33%), Gaps = 97/489 (19%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGK---DIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            +P  W+ V +   T  N  +     +   D   + LED+E  T + L +   S +   S
Sbjct: 93  ELPDGWEWVRLGEITAYNGRKNISGDQIDPDTWVLDLEDIEKDTSRILYRAKFSERQSKS 152

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELL-QGWLLSIDVTQ 135
           T S F KG +LYGKL PYL K ++AD DG+C+T+ + +     L     +  L       
Sbjct: 153 TKSTFLKGDVLYGKLRPYLDKIVVADRDGVCTTEIVPIVSFVGLHSDFLKWLLKRPAFLS 212

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR--------------- 180
            + ++  G  M             P+PPL EQ  I  +I                     
Sbjct: 213 YVNSLMYGVKMPRLGTDNAVASIHPLPPLPEQHRIVARIDELMAHCDELEKLRAEREQKR 272

Query: 181 --------------------------IDTLITERIRFIELLKEKKQALVSYIVTKGLNPD 214
                                     I     E     E + E ++A++   V   L P 
Sbjct: 273 VKVHAAAVRQLLDTTEPESSANAWQFISRNFRELYSDKENVAELRKAILQLAVMGKLVPQ 332

Query: 215 VKMKDSGIEWVGLV-------------------------------PDHWEVKPFFALVTE 243
                   E +  +                               PD WE      +++ 
Sbjct: 333 DPNDPPACELLKEIEAEKQRLVKEGKIKKPKAVSPIKPDEVPYPLPDSWEWVRLGDVISY 392

Query: 244 LNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI---------VDPGEIVFR 294
           ++   +   E+   S S   +++    + +   P   +T  I         V+  +I+  
Sbjct: 393 MDAGWSPKCETGPASDSEWGVLKTTAVQKLEFLPHENKTLPIKLTPRPEYQVEEKDILIT 452

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID---STYLAWLMRSYDLCKVFYAMGS 351
               +N       A  +   ++ S  +       D     Y A  + +    +      S
Sbjct: 453 RAGPKNRVGICCVATSIRPKLMLSDKIIRFKIYGDLISPDYCALSLNTGYCSEQIEMFKS 512

Query: 352 GL---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
           G+   + ++  + VKRL +L+PP+ EQ  I   I+   A  D L    EQ I     R+ 
Sbjct: 513 GMAESQMNISQDKVKRLLMLIPPLPEQHRIVARIDQLMALCDTL----EQQIDDAT-RKQ 567

Query: 409 S-FIAAAVT 416
           +  + A +T
Sbjct: 568 TELLNAVMT 576



 Score = 59.8 bits (143), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 29/201 (14%), Positives = 53/201 (26%), Gaps = 16/201 (7%)

Query: 21  IPKHWKVVPIKRFTKLNT-GRTSE------SGKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
           +P  W+ V +         G + +      S  +   +    V+              + 
Sbjct: 377 LPDSWEWVRLGDVISYMDAGWSPKCETGPASDSEWGVLKTTAVQKLEFLPHENKTLPIKL 436

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGI-----CSTQFLVLQPKDVLPELLQG-- 126
                    +  IL  + GP  R  I      I      S + +  +    L        
Sbjct: 437 TPRPEYQVEEKDILITRAGPKNRVGICCVATSIRPKLMLSDKIIRFKIYGDLISPDYCAL 496

Query: 127 --WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
                       +       +  +     +  + M IPPL EQ  I  +I       DTL
Sbjct: 497 SLNTGYCSEQIEMFKSGMAESQMNISQDKVKRLLMLIPPLPEQHRIVARIDQLMALCDTL 556

Query: 185 ITERIRFIELLKEKKQALVSY 205
             +         E   A+++ 
Sbjct: 557 EQQIDDATRKQTELLNAVMTQ 577


>gi|164687375|ref|ZP_02211403.1| hypothetical protein CLOBAR_01016 [Clostridium bartlettii DSM
           16795]
 gi|164603799|gb|EDQ97264.1| hypothetical protein CLOBAR_01016 [Clostridium bartlettii DSM
           16795]
          Length = 380

 Score =  135 bits (340), Expect = 1e-29,   Method: Composition-based stats.
 Identities = 64/403 (15%), Positives = 130/403 (32%), Gaps = 36/403 (8%)

Query: 26  KVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           ++  +    K+ +G T    K       DI +I   D++S       +         S+ 
Sbjct: 2   ELKKLGDIFKITSGGTPSKKKEEYYLDGDIPWIKTGDLKSKNIYKSSQYITELGVKNSSA 61

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
            +F K  +L    G  +    I   +   +       P   +      +       ++I 
Sbjct: 62  KLFPKDTVLIAMYGATIGATSILKIEAATNQACAAFLPTKDV-MPEYLYYFFKYNKEKII 120

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
           +   G    +     + +  +P+  L EQ  I   +       +    +     EL    
Sbjct: 121 SKGIGGAQPNISATILKDFKIPLLCLDEQEKIVNILNKAQNTTNKRKEQINLLDEL---- 176

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
              + S  +    +P   +K    + +  V          A V        +     +  
Sbjct: 177 ---VKSRFIEMFGDPIRNIKCWQTKRMDEV----------APVINYKGNFKQNEIWLLNL 223

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
               +   K+   N     E   +    D   +++  +    +K  +      E G  TS
Sbjct: 224 DMVESNTGKIIAYNYVTASEVGSSTCTFDTTNVLYSKLRPYLNKVVIPK----EIGYATS 279

Query: 319 AYMAVKPHGI--DSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQ 375
             M ++P     D  YLA+++R+           SG     +   D +   V +PPI+ Q
Sbjct: 280 EMMPLQPVKGILDRYYLAYMLRNKVFVDYISEKVSGAKMPRVTMNDFRDFKVPIPPIELQ 339

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
               N +      +D L  ++E+S+  L++  +S +  A  G+
Sbjct: 340 NQFANFV----IEVDKLKFEMEKSLKELEDNFNSLMQRAFKGE 378



 Score = 59.4 bits (142), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 39/190 (20%), Positives = 68/190 (35%), Gaps = 6/190 (3%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+   +     +   + +    +I  + L+ VES TGK +  +  +     S+   F   
Sbjct: 195 WQTKRMDEVAPVINYKGNFKQNEIWLLNLDMVESNTGKIIAYNYVTASEVGSSTCTFDTT 254

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQP-KDVLPELLQGWLLSID-VTQRIEAICE 142
            +LY KL PYL K +I    G  +++ + LQP K +L      ++L        I     
Sbjct: 255 NVLYSKLRPYLNKVVIPKEIGYATSEMMPLQPVKGILDRYYLAYMLRNKVFVDYISEKVS 314

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           GA M         +  +PIPP+  Q      +I        +        +       +L
Sbjct: 315 GAKMPRVTMNDFRDFKVPIPPIELQNQFANFVIEVDKLKFEMEKSLKELEDNFN----SL 370

Query: 203 VSYIVTKGLN 212
           +       L 
Sbjct: 371 MQRAFKGELF 380


>gi|332289275|ref|YP_004420127.1| EcoKI restriction-modification system protein HsdS [Gallibacterium
           anatis UMN179]
 gi|330432171|gb|AEC17230.1| EcoKI restriction-modification system protein HsdS [Gallibacterium
           anatis UMN179]
          Length = 414

 Score =  135 bits (340), Expect = 1e-29,   Method: Composition-based stats.
 Identities = 62/415 (14%), Positives = 139/415 (33%), Gaps = 25/415 (6%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSE-------SGKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
            +P  W+   +  +  L  G   +       S   +  I + D+   T         + +
Sbjct: 5   KLPVGWEEKKLGEYLYLKNGYAFKRSAYIEKSNNSVPIIRISDINGNTASDELAIHTTEK 64

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELL-QGWLLSI 131
            +        KG +L    G    K  I   +        V   K            L  
Sbjct: 65  VEG---FELQKGDLLIAMSGATTGKLGIYIGNTPAYQNQRVGNLKLKNEGCEEFRNHLMF 121

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            +   +  +  G    +   K + ++ + +PPL EQ  + +K       +D +  +  R 
Sbjct: 122 YLQDEVRKLGYGNAQPNISGKMLEDLDIVLPPLPEQQKLAQKFTELLSMVDHMKQKLERI 181

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
             LLK  +QA++   V+  L+   +      E   +    W+      + T   +K+   
Sbjct: 182 PLLLKTYRQAVLVKAVSGELSSKWR------EENKISRTSWKNTKVEDISTVTPKKDKIS 235

Query: 252 IESNILSLSYGNIIQKLE---TRNMGLKPESYETYQIVDPGEIVFRFIDLQ--NDKRSLR 306
            +  +   S   + + +         L  E  + +     G+++   I     N K ++ 
Sbjct: 236 DDLTVSFSSMHLMSENINQHLNFEKKLWNEVKKGFSFFKNGDVLLAKITPCFENGKSAVA 295

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWL-MRSYDLCKV--FYAMGSGLRQSLKFEDVK 363
              +   G  ++ +M  +P+    +   +L   +    +       GS   + +  E V 
Sbjct: 296 RNLINGIGTGSTEFMVFRPNSELLSDFLYLHFNTDKFRQEGSMNMTGSVGHRRVPKEFVL 355

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
              + +PP +EQ  I   +       + L ++ +Q++  +   + + +A    G+
Sbjct: 356 NWEIELPPREEQKFIVQQVEELLNFAEKLEQQAQQALAKVNLLKQAILAKGFRGE 410


>gi|50914976|ref|YP_060948.1| Type I restriction-modification system specificity subunit
           [Streptococcus pyogenes MGAS10394]
 gi|50904050|gb|AAT87765.1| Type I restriction-modification system specificity subunit
           [Streptococcus pyogenes MGAS10394]
          Length = 402

 Score =  135 bits (340), Expect = 1e-29,   Method: Composition-based stats.
 Identities = 58/401 (14%), Positives = 126/401 (31%), Gaps = 25/401 (6%)

Query: 24  HWKVVPIKRFTKLNTGRTS---------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
            W+   +   + +  G +          +S  DI ++ + DV    G+         +  
Sbjct: 17  EWEEKKLGEISNIVRGASPRPIQDPKWFDSKSDIGWLRISDVTEQEGRITYLQQRISELG 76

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
                +     +L        +  I     G+     + L PK         +       
Sbjct: 77  QEKTRVLKDPHLLLSIAATVGKPVINYVKTGVHDGFLVFLDPKF---NREFMFQWLDMFR 133

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
                  +  +  + + + + N  + +P L EQ  I E        +D L+  + + +  
Sbjct: 134 PYWNKYGQPGSQVNLNSEIVRNQVINLPSLPEQEAIGE----LFQTVDQLLQLQDQKLAT 189

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
           LKE+KQ  +  +         +++  G +         E+   F+  T           +
Sbjct: 190 LKEQKQTFLRKMFPAQGQKVPEIRLQGFDGEWEEKKLGEISRMFSGGTPNVGIPEYYNGN 249

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
            I  +    I       ++  K  S  + ++V+   +++      + +  L        G
Sbjct: 250 -IPFIRSAEINSDQTELSITDKGLSNSSAKLVEKNTLLYALYGATSGEVGLSRIS----G 304

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKE 374
            I  A +A+ P    S+             +      G + +L    VK L +  P + E
Sbjct: 305 AINQAILAIIPEKKYSSLFIKNWLYKQKSSIIEKYLQGGQGNLSGSIVKELTIHFPSLSE 364

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           Q  I N        +D  + + E+ +  LK  + + +    
Sbjct: 365 QEAIGNF----FQTLDQQIAQSEEKLTELKALKQTLLNRLF 401


>gi|23452707|gb|AAN33128.1| putative type I specificity subunit HsdS [Campylobacter jejuni]
 gi|23452715|gb|AAN33131.1| putative type I specificity subunit HsdS [Campylobacter jejuni]
 gi|23452757|gb|AAN33147.1| putative type I specificity subunit HsdS [Campylobacter jejuni]
          Length = 398

 Score =  135 bits (340), Expect = 1e-29,   Method: Composition-based stats.
 Identities = 60/411 (14%), Positives = 127/411 (30%), Gaps = 30/411 (7%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDII-------YIGLEDVESGTGKYLPKDGNSRQS 73
           +P+ W+V  ++    +  G+    G++++       YI + D +      L       ++
Sbjct: 4   LPQGWEVKKLEEIANIKGGKRLPKGENLLDNNTKFAYIRVADFQDNGTINLQNIKFINEN 63

Query: 74  DTS--TVSIFAKGQILYGKLGPYLRKAIIADF-DGICSTQFLV---LQPKDVLPELLQGW 127
             +           +     G   +  II    +G   T+  V       ++  + +  +
Sbjct: 64  TYNVLKNYKIYDDNLYISIAGTIGKSGIIPKELNGAILTENAVKLEYIQNNISNKFMYFF 123

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
            LS     +I+   +           +  I +P+PPL EQ  I   +     +ID  I  
Sbjct: 124 TLSNIFKTQIQTSTKIVAQPKLAITRLKQIQIPLPPLKEQERIVGILDESFAKIDESIKI 183

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK 247
             + +  L E  Q+ +        +          +    +P  WE K    +   ++  
Sbjct: 184 LEQNLLNLDELMQSALQKAFNPLKD--------NAKENYKLPQSWEWKSLEEISENISAG 235

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
             K         +   I       N        +   I+ P       I  +     +  
Sbjct: 236 GDKPKNCTESKTAKNQIPVYANGVNNNGLVGYTDKATIIKPS----LTISARGTIGFVCI 291

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
            +     I+    +    + +   YL + +                   L     K L +
Sbjct: 292 RKEPYFPIVRLISLIPCENILCLHYLYFCLN-----FFIAKGEGSSIPQLTIPKFKSLQI 346

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            +PP+KEQ  I   ++    +   L E   + +   +E + S +  A  G+
Sbjct: 347 PLPPLKEQEQIAEHLDFVFEKAKALKELYTKELKDYEELKQSLLDKAFKGE 397



 Score = 50.2 bits (118), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 27/193 (13%), Positives = 65/193 (33%), Gaps = 10/193 (5%)

Query: 20  AIPKHWKVVPIKRFTK-LNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
            +P+ W+   ++  ++ ++ G              +  ++    Y     N+     +  
Sbjct: 215 KLPQSWEWKSLEEISENISAGGDKPKN----CTESKTAKNQIPVYANGVNNNGLVGYTDK 270

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           +   K  +     G      I  +       + + L P + +  L   +        + E
Sbjct: 271 ATIIKPSLTISARGTIGFVCIRKEPYFPI-VRLISLIPCENILCLHYLYFCLNFFIAKGE 329

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
               G+++         ++ +P+PPL EQ  I E +     +   L     + ++  +E 
Sbjct: 330 ----GSSIPQLTIPKFKSLQIPLPPLKEQEQIAEHLDFVFEKAKALKELYTKELKDYEEL 385

Query: 199 KQALVSYIVTKGL 211
           KQ+L+       L
Sbjct: 386 KQSLLDKAFKGEL 398


>gi|86152966|ref|ZP_01071171.1| HsdS [Campylobacter jejuni subsp. jejuni HB93-13]
 gi|23452710|gb|AAN33129.1| putative type I specificity subunit HsdS [Campylobacter jejuni]
 gi|23452723|gb|AAN33134.1| putative type I specificity subunit HsdS [Campylobacter jejuni]
 gi|23452725|gb|AAN33135.1| putative type I specificity subunit HsdS [Campylobacter jejuni]
 gi|23452728|gb|AAN33136.1| putative type I specificity subunit HsdS [Campylobacter jejuni]
 gi|23452741|gb|AAN33141.1| putative type I specificity subunit HsdS [Campylobacter jejuni]
 gi|23452803|gb|AAN33175.1| putative type I specificity subunit HsdS [Campylobacter jejuni]
 gi|23452806|gb|AAN33177.1| putative type I specificity subunit HsdS [Campylobacter jejuni]
 gi|85843851|gb|EAQ61061.1| HsdS [Campylobacter jejuni subsp. jejuni HB93-13]
          Length = 398

 Score =  135 bits (340), Expect = 1e-29,   Method: Composition-based stats.
 Identities = 60/411 (14%), Positives = 127/411 (30%), Gaps = 30/411 (7%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDII-------YIGLEDVESGTGKYLPKDGNSRQS 73
           +P+ W+V  ++    +  G+    G++++       YI + D +      L       ++
Sbjct: 4   LPQGWEVKKLEEIANIKGGKRLPKGENLLDNNTKFAYIRVADFQDNGTINLQNIKFINEN 63

Query: 74  DTS--TVSIFAKGQILYGKLGPYLRKAIIADF-DGICSTQFLV---LQPKDVLPELLQGW 127
             +           +     G   +  II    +G   T+  V       ++  + +  +
Sbjct: 64  TYNVLKNYKIYDDNLYISIAGTIGKSGIIPKELNGAILTENAVKLEYIQNNISNKFMYFF 123

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
            LS     +I+   +           +  I +P+PPL EQ  I   +     +ID  I  
Sbjct: 124 TLSNIFKTQIQTSTKIVAQPKLAITRLKQIQIPLPPLKEQERIVGILDESFAKIDESIKI 183

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK 247
             + +  L E  Q+ +        +          +    +P  WE K    +   ++  
Sbjct: 184 LEQDLLNLDELMQSALQKAFNPLKD--------NAKENYKLPQSWEWKSLEEISENISAG 235

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
             K         +   I       N        +   I+ P       I  +     +  
Sbjct: 236 GDKPKNCTESKTAKNQIPVYANGVNNNGLVGYTDKATIIKPS----LTISARGTIGFVCI 291

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
            +     I+    +    + +   YL + +                   L     K L +
Sbjct: 292 RKEPYFPIVRLISLIPCENILCLHYLYFCLN-----FFIAKGEGSSIPQLTIPKFKSLQI 346

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            +PP+KEQ  I   ++    +   L E   + +   +E + S +  A  G+
Sbjct: 347 PLPPLKEQEQIAEHLDFVFEKAKALKELYTKELKDYEELKQSLLDKAFKGE 397



 Score = 50.6 bits (119), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 27/193 (13%), Positives = 65/193 (33%), Gaps = 10/193 (5%)

Query: 20  AIPKHWKVVPIKRFTK-LNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
            +P+ W+   ++  ++ ++ G              +  ++    Y     N+     +  
Sbjct: 215 KLPQSWEWKSLEEISENISAGGDKPKN----CTESKTAKNQIPVYANGVNNNGLVGYTDK 270

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           +   K  +     G      I  +       + + L P + +  L   +        + E
Sbjct: 271 ATIIKPSLTISARGTIGFVCIRKEPYFPI-VRLISLIPCENILCLHYLYFCLNFFIAKGE 329

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
               G+++         ++ +P+PPL EQ  I E +     +   L     + ++  +E 
Sbjct: 330 ----GSSIPQLTIPKFKSLQIPLPPLKEQEQIAEHLDFVFEKAKALKELYTKELKDYEEL 385

Query: 199 KQALVSYIVTKGL 211
           KQ+L+       L
Sbjct: 386 KQSLLDKAFKGEL 398


>gi|332535595|ref|ZP_08411363.1| type I restriction-modification system, specificity subunit S
           [Pseudoalteromonas haloplanktis ANT/505]
 gi|332034979|gb|EGI71500.1| type I restriction-modification system, specificity subunit S
           [Pseudoalteromonas haloplanktis ANT/505]
          Length = 877

 Score =  135 bits (339), Expect = 1e-29,   Method: Composition-based stats.
 Identities = 57/418 (13%), Positives = 133/418 (31%), Gaps = 32/418 (7%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLED---VESGTGKYLPKDGNS 70
            IP  W    + R T+  +G T            I +I L D   +++G      K+ + 
Sbjct: 9   QIPDSWTYDLLDRLTERVSGHTPSKSYPEYWNGGIKWISLADTFRLDNGYVYETDKEISQ 68

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
              + S+  +     ++  +     +  ++A+   +           +        +   
Sbjct: 69  EGLNNSSAQLHPAETVVLSRDAGIGKSGVMAEPMAVSQHFIAWKCDNEKKMNSWFLYNWL 128

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
                  E    G+T+          + +  PP  EQ  I + +       D  I+   R
Sbjct: 129 QFHKSEFERQAVGSTIKTIGLPFFKKLKIAAPPYKEQRKIAQIL----STWDKAISTTER 184

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGL-VPDHWEVKPFFALVTELNRKNT 249
            I+  K +K+AL+  ++T        + DSG  + G             +     +    
Sbjct: 185 LIDNSKYQKKALMQQLLT---GKKRLLDDSGKRFDGEWDEKRISELGEISSGGTPSTSKP 241

Query: 250 KLIESNILSLSYGNIIQKLETRNMG------LKPESYETYQIVDPGEIVFRFIDLQNDKR 303
           +  + NI  ++  +I ++             L      + +++  G ++        +  
Sbjct: 242 EYWDGNITWVTPTDITKQDNIYIESSVRQVSLDGVKNSSAKLLPKGTLLVCTRATIGEMA 301

Query: 304 SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVK 363
                           +  + P+   +    + + ++   K+           L     +
Sbjct: 302 V-----SSHEMSTNQGFKNIVPNENTNIEFVYYLLNFYKHKLISKASGSTFLELSKSAFE 356

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           ++   +P  +EQ  I  V+      ID+L     Q +  LK  + + +   +TG+  +
Sbjct: 357 QMEFHIPEYQEQHKIATVLLKADHEIDIL----RQQLADLKHEKKALMQQLLTGKRRV 410



 Score = 84.1 bits (206), Expect = 4e-14,   Method: Composition-based stats.
 Identities = 31/209 (14%), Positives = 74/209 (35%), Gaps = 11/209 (5%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNTK--LIESNILSLSYGNIIQKLETRNMGLKPESY 280
           E +     +  +      V+      +        I  +S  +  +           E  
Sbjct: 8   EQIPDSWTYDLLDRLTERVSGHTPSKSYPEYWNGGIKWISLADTFRLDNGYVYETDKEIS 67

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM-ERGIITSAYMAVKP---HGIDSTYLAWL 336
           +        ++      + +    +  + VM E   ++  ++A K      ++S +L   
Sbjct: 68  QEGLNNSSAQLHPAETVVLSRDAGIGKSGVMAEPMAVSQHFIAWKCDNEKKMNSWFLYNW 127

Query: 337 MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
           ++ +       A+GS   +++     K+L +  PP KEQ  I  +++      D  +   
Sbjct: 128 LQFHKSEFERQAVGS-TIKTIGLPFFKKLKIAAPPYKEQRKIAQILSTW----DKAISTT 182

Query: 397 EQSIVLLKERRSSFIAAAVTGQIDLRGES 425
           E+ I   K ++ + +   +TG+  L  +S
Sbjct: 183 ERLIDNSKYQKKALMQQLLTGKKRLLDDS 211


>gi|254225986|ref|ZP_04919587.1| type I restriction modification DNA specificity domain protein
           [Vibrio cholerae V51]
 gi|125621520|gb|EAZ49853.1| type I restriction modification DNA specificity domain protein
           [Vibrio cholerae V51]
          Length = 466

 Score =  135 bits (339), Expect = 1e-29,   Method: Composition-based stats.
 Identities = 75/439 (17%), Positives = 156/439 (35%), Gaps = 42/439 (9%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDI----IYIGLEDVESGTGKYLPKDGNSRQSDT 75
            +PK W    I +  +L  G   +S          I + +V+ G          + +   
Sbjct: 3   QLPKGWVCTSISQCFELKNGYAFKSSDYTEDGDFVIRIGNVQDGHIILSNPAYVAAEKLG 62

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFD--GICSTQFL-VLQPKDVLPELLQGWLLSID 132
           +      +G IL    G   R  +++      + + +   +     V    L   L +  
Sbjct: 63  ADSFKLNEGDILISLTGNVGRIGMVSKEHLPAVLNQRVAKICVVNSVEIRWLFYLLRTRL 122

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
             Q + ++ +GA   +   K I +    +PPLAEQ  I EK+     ++DT+        
Sbjct: 123 FQQHVLSLAKGAAQLNISTKDIQSFDFALPPLAEQTRIVEKLDEVLAQVDTIKARLDGIP 182

Query: 193 ELLKEKKQALVSYIVTKGLNPDVK--------------------MKDSGIEWVGLVPDHW 232
            +LK  +Q++++  V+  L  + +                    + DS  + +  +P  W
Sbjct: 183 AILKRFRQSVLAAAVSGKLTEEWRQLNPNQPSHPKVGKVKYKTDLFDSASKSLPELPPEW 242

Query: 233 EVKP----FFALVTELNRKNTKLIESNILSLSYGNIIQK------LETRNMGLKPESYET 282
            V P       + +           S  L L   N+          + + + L       
Sbjct: 243 LVIPAAHLLEYVTSGSRGWANYYASSGALFLRMSNVRYDTTKLDLSDLQYVNLPENVEGK 302

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP-HGIDSTYLAWLMRSYD 341
             +V   ++V             R    +E   +       +P   ID+ +LA  + S +
Sbjct: 303 RSLVKENDLVISITADVGRVA--RVDSEIEEAYVNQHLALARPASHIDAEFLAKCIASVN 360

Query: 342 L-CKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
           +  K   A+  G  +  L  +D++ + +  P + EQ +I  +++   A  D +   ++++
Sbjct: 361 IGIKQVQALKRGATKAGLGLDDIRSMAIPFPHLAEQKEIVRLVDQYFAFADTIEALVKKA 420

Query: 400 IVLLKERRSSFIAAAVTGQ 418
              + +   S +A A  G+
Sbjct: 421 QARVDKLTQSILAKAFRGE 439



 Score = 62.9 bits (151), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 34/224 (15%), Positives = 76/224 (33%), Gaps = 16/224 (7%)

Query: 9   QYK----DSGVQWIGAIPKHWKVVPIKRFTKLNTGRT-----SESGKDIIYIGLEDVESG 59
           +YK    DS  + +  +P  W V+P     +  T  +       +    +++ + +V   
Sbjct: 222 KYKTDLFDSASKSLPELPPEWLVIPAAHLLEYVTSGSRGWANYYASSGALFLRMSNVRYD 281

Query: 60  TGKYLPKDGNSRQSDTS---TVSIFAKGQILYGKLGPYLRKAIIADFD--GICSTQFLVL 114
           T K    D        +     S+  +  ++        R A +         +    + 
Sbjct: 282 TTKLDLSDLQYVNLPENVEGKRSLVKENDLVISITADVGRVARVDSEIEEAYVNQHLALA 341

Query: 115 QPKDVLPELL--QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIRE 172
           +P   +      +         ++++A+  GAT +      I ++ +P P LAEQ  I  
Sbjct: 342 RPASHIDAEFLAKCIASVNIGIKQVQALKRGATKAGLGLDDIRSMAIPFPHLAEQKEIVR 401

Query: 173 KIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVK 216
            +       DT+     +    + +  Q++++      L P   
Sbjct: 402 LVDQYFAFADTIEALVKKAQARVDKLTQSILAKAFRGELVPQDP 445


>gi|288457861|ref|YP_003422729.1| restriction modification system DNA specificity domain protein
           [Zymomonas mobilis subsp. mobilis ZM4]
 gi|285026836|gb|ADC33926.1| restriction modification system DNA specificity domain protein
           [Zymomonas mobilis subsp. mobilis ZM4]
          Length = 424

 Score =  135 bits (339), Expect = 1e-29,   Method: Composition-based stats.
 Identities = 55/408 (13%), Positives = 127/408 (31%), Gaps = 32/408 (7%)

Query: 27  VVPIKRFTKLNTGRTS--------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
            +P+     +  G +              + +I + D    +                  
Sbjct: 18  WMPLGEIASVQRGSSPRPISKFITSDKNGVPWIKIGDTTPKSKYVTKTAEKITPDGAKKS 77

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELL-QGWLLSIDVTQRI 137
            + +KG  +      + R  I+     I      V + K  L       +L S  V    
Sbjct: 78  RLLSKGDFIISNSMSFGRPYILGIDGAIHDGWASVSEFKSKLNSDFLYHYLSSHSVQNYW 137

Query: 138 EAICEGATMSHADWKGIGNIPMPIPP-------LAEQVLIREKIIAETVRIDTLITERIR 190
                  ++S+ + K I ++ +PIP        LA Q  I   +   T     L  E   
Sbjct: 138 LTKINSGSVSNLNSKLIQSLLIPIPCPDDPAKSLAIQEEIVRILDTFTELTAELTAELTA 197

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
            +   K++       ++T   +        G+E++ +  +      F        +    
Sbjct: 198 ELTQRKKQYNHYREQLLTFDED--------GVEYLPMGDERVG--KFIRGGGLQKKDFIS 247

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESY-ETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
                I              R      E +    ++  PG +V       +D      A 
Sbjct: 248 SGVGCIHYGQIYTHYGTHTGRTKSYVSEDFARKARMAKPGNLVIATTSENDDDVCKAVAW 307

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVL 368
           + +R I  S+      H ++  ++++  ++           +G   + +  +++ ++ + 
Sbjct: 308 LGDRDIAVSSDACFYAHKLNPKFVSYFFQTEQFQVQKRPYITGTKVRRVNADNLAKILIP 367

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           +P ++EQ  I  +++        L E + + I L ++     R   ++
Sbjct: 368 IPSLEEQARIAAILDKFDTLTSSLTEGLPREIALREKQYAYYRDQLLS 415


>gi|312115544|ref|YP_004013140.1| restriction modification system DNA specificity domain protein
           [Rhodomicrobium vannielii ATCC 17100]
 gi|311220673|gb|ADP72041.1| restriction modification system DNA specificity domain protein
           [Rhodomicrobium vannielii ATCC 17100]
          Length = 418

 Score =  134 bits (338), Expect = 2e-29,   Method: Composition-based stats.
 Identities = 77/426 (18%), Positives = 139/426 (32%), Gaps = 25/426 (5%)

Query: 8   PQYKDSGVQWIGAIPKHWKVVPIKRFTKLN---TGRTSE--SGKDIIYIGLEDVESGTGK 62
           P YK + V   G IP  W+V       +L      RT    + +    +   +V  G   
Sbjct: 5   PGYKQTEV---GIIPNEWQVTTAANICELVVDCKNRTPPLCNDESFAVVRTPNVRDGQFV 61

Query: 63  YLPKDGNSRQ--SDTSTVSIFAKGQILYGKLGPYLRKAIIA-DFDGICSTQFLVLQPKDV 119
                          +  +    G I   +  P     +   D       + ++ +P  V
Sbjct: 62  REDLRYTDLSSFIKWTERATPRTGDIFITREAPLGEVCMAPSDLKVCLGQRMMMYRPDTV 121

Query: 120 L--PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
                 L   LLS  V + +     G+T+ HA    I  + +P+P + EQ  I   +   
Sbjct: 122 NVTSSFLLYALLSEQVRKNLLEKVGGSTVGHAKVDDIRFLTVPLPSMEEQRAIAAALSDA 181

Query: 178 TVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPF 237
                  I    R I   ++ KQA +  ++T             I  +  V         
Sbjct: 182 D----EWIARLDRLIAKKRDIKQAAMQQLLTGKTRLPGFKGAWTIATLRDVCGFENGDRG 237

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID 297
               ++ +         N   +  G I ++        K +S    +   PG+I+F    
Sbjct: 238 GNYPSKADFTEGGYAFINAGHVRDGKIDKRSLDFITKEKYDSLGGGKFF-PGDILFCLRG 296

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQS 356
               K  +         I +S  +      +   +L    +S    K+      G  + +
Sbjct: 297 SLG-KFGVVDGDSGAGAIASSLIIVRPRANVSPRFLVSYFKSDLCKKMIEKWAGGAAQPN 355

Query: 357 LKFEDVKRLPVLVPP-IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           L  +D+ R  + +PP  +EQ  I + I+   A ID L    E      +  +   +   +
Sbjct: 356 LGGQDLARFQIYLPPTFEEQDAIGSAISDTDAEIDQL----EAKRDKARSIKQGMMQELL 411

Query: 416 TGQIDL 421
           TG++ L
Sbjct: 412 TGRVRL 417



 Score = 82.5 bits (202), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 32/219 (14%), Positives = 77/219 (35%), Gaps = 22/219 (10%)

Query: 217 MKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK 276
            K + +  +              LV +   +   L      ++     ++  +     L+
Sbjct: 7   YKQTEVGIIPNEWQVTTAANICELVVDCKNRTPPLCNDESFAVVRTPNVRDGQFVREDLR 66

Query: 277 PESYETYQI------VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID- 329
                ++           G+I         +   +  A    +  +    M  +P  ++ 
Sbjct: 67  YTDLSSFIKWTERATPRTGDIFITREAPLGE---VCMAPSDLKVCLGQRMMMYRPDTVNV 123

Query: 330 -STYLAWLMRSYDLCK-VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI---NV 384
            S++L + + S  + K +   +G       K +D++ L V +P ++EQ  I   +   + 
Sbjct: 124 TSSFLLYALLSEQVRKNLLEKVGGSTVGHAKVDDIRFLTVPLPSMEEQRAIAAALSDADE 183

Query: 385 ETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
             AR+D L+ K        ++ + + +   +TG+  L G
Sbjct: 184 WIARLDRLIAKK-------RDIKQAAMQQLLTGKTRLPG 215


>gi|289664155|ref|ZP_06485736.1| specificity determinant for hsdM and hsdR [Xanthomonas campestris
           pv. vasculorum NCPPB702]
          Length = 450

 Score =  134 bits (338), Expect = 2e-29,   Method: Composition-based stats.
 Identities = 81/420 (19%), Positives = 154/420 (36%), Gaps = 30/420 (7%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYL-PKDGNSRQSDTSTV 78
            +P  W    I         R  E+ + + YI +  V+ G    + P+     ++ +   
Sbjct: 3   ELPAGWVSASIGEICSQGEQRIPEADEQLTYIDIASVDRGRKTVMGPQLLRGYEAPSRAR 62

Query: 79  SIFAKGQILYGKLGPYLRKAII---ADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
            + A G ++     P L    +        I ST F VL+P +V P  +   + S    +
Sbjct: 63  KVVATGDVIVSMTRPNLNAVALIGQRHDSAIASTGFDVLRPIEVDPRWIFAAVKSAHFVK 122

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            + A  +GA         I    +P+PPLAEQ  I +K+ A   ++DTL         LL
Sbjct: 123 AMSAKVQGALYPAIKADDIRKHEIPLPPLAEQKRIAQKLDALLAQVDTLKARIDAIPALL 182

Query: 196 KEKKQALVSYIVTKGLNPD---VKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK-- 250
           K  ++++V   V   L+ D      K    E +G + + W      +L      K+    
Sbjct: 183 KRFRKSVVHSAVIGRLSADLRVPIEKPEEQEQLGPL-ELWREVALASLGELSRGKSKHRP 241

Query: 251 -----LIESNILSLSYGNIIQK---LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK 302
                L  S    +  G++      L +  +       +  ++   G +         D 
Sbjct: 242 RNDSRLYGSAYPFIQTGDVANSRGTLTSSKVFYSEFGLKQSRLFPSGTLCITIAANIADT 301

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFED 361
             L         ++             + ++ +++   D  +   A+  +  ++++  + 
Sbjct: 302 AMLAIDACFPDSVVG---FIPNKDDCVAQFIKYVI--DDNKESLEALAPATAQKNINLKV 356

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEK---IEQSIVLLKERRSSFIAAAVTGQ 418
           + ++ + +PPIKEQ +I   +    A  D L  K    +Q I  L     S +A A  G+
Sbjct: 357 LSQVKLRIPPIKEQTEIVRRVEQLFAYADQLEAKVAAAQQRIDALT---QSLLAKAFRGE 413



 Score = 85.2 bits (209), Expect = 2e-14,   Method: Composition-based stats.
 Identities = 32/152 (21%), Positives = 71/152 (46%), Gaps = 9/152 (5%)

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
            ++V  G+++        +  +L   Q  +  I ++ +  ++P  +D  ++   ++S   
Sbjct: 62  RKVVATGDVIVSMTRPNLNAVAL-IGQRHDSAIASTGFDVLRPIEVDPRWIFAAVKSAHF 120

Query: 343 CKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
            K   A   G    ++K +D+++  + +PP+ EQ  I   ++   A++D L  +I+    
Sbjct: 121 VKAMSAKVQGALYPAIKADDIRKHEIPLPPLAEQKRIAQKLDALLAQVDTLKARIDAIPA 180

Query: 402 LLKERRSSFIAAAVTGQ----IDL---RGESQ 426
           LLK  R S + +AV G+    + +   + E Q
Sbjct: 181 LLKRFRKSVVHSAVIGRLSADLRVPIEKPEEQ 212


>gi|254470121|ref|ZP_05083525.1| restriction modification system DNA specificity domain protein
           [Pseudovibrio sp. JE062]
 gi|211960432|gb|EEA95628.1| restriction modification system DNA specificity domain protein
           [Pseudovibrio sp. JE062]
          Length = 492

 Score =  134 bits (338), Expect = 2e-29,   Method: Composition-based stats.
 Identities = 68/451 (15%), Positives = 146/451 (32%), Gaps = 54/451 (11%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSES--------GKDIIYIGLEDVESGTGKYLPKDGNSR 71
            +P+ W    I+   ++  G +              + +I + D  SG  +    +    
Sbjct: 3   ELPEGWVETEIENIYEVARGGSPRPIKSYLTADDDGLNWIKISDATSGGYRIESTEQKIT 62

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLV---LQPKDVLPELLQGWL 128
                   +   G +L      + +   I+  +G     +LV      K V    +   L
Sbjct: 63  SEGLHKTRLIYPGDLLLSNSMSFGKP-YISAIEGCIHDGWLVLGGFGKKCVDTRYMHLAL 121

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
            S  V ++ +    G+T+ + +   + ++ +P+ PLAEQ  I  KI + T +        
Sbjct: 122 SSEGVQKQFDEKASGSTVRNLNTGIVNSVRVPLAPLAEQKRIVAKIESLTAKSRIARENL 181

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDS--------------GIEWVGL------- 227
            R   L K  KQA++    +  L  D + K S               + W          
Sbjct: 182 ARIDTLTKRYKQAILKKAFSGELTADWREKSSKDCLIDLNDVLKEHEVIWQNNIAKKGKY 241

Query: 228 -VPDHWEVKPFFALV------------TELNRKNTKLIESNILSLSYGNIIQKLETRNMG 274
             P+        +                 + +        I  +  G++    +    G
Sbjct: 242 ARPNVKPADDLRSWHELSLEGLAYVVDPHPSHRTPPKEIGGIPYVGVGDVKLDGKLDFAG 301

Query: 275 LKP------ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
            +       + +     +  G+  +  I        L  AQ           +  +    
Sbjct: 302 ARKVSPKVLKDHLKRYSLKRGDFAYGKIGTIGQPFLLPEAQEY-ALSANVILIQPRSKFA 360

Query: 329 DSTYLAWLMRSYDL-CKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
            + +L +   S  +  K+  A  +  + +   + ++ +   +P + EQ +I   I    A
Sbjct: 361 TAEFLYYFFLSPVVTQKILGASVATSQAAFGIKKMREVLTPLPSLSEQNEIVTRIEKAFA 420

Query: 388 RIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           +ID L E+ ++++  +       +A A  G+
Sbjct: 421 KIDKLAEEAKRALHSVDRLDEKILAKAFRGE 451



 Score = 45.6 bits (106), Expect = 0.017,   Method: Composition-based stats.
 Identities = 40/204 (19%), Positives = 74/204 (36%), Gaps = 11/204 (5%)

Query: 24  HWKVVPIKRFTKLN----TGRTSESG-KDIIYIGLEDVE-SGTGKYL--PKDGNSRQSDT 75
            W  + ++    +     + RT       I Y+G+ DV+  G   +    K       D 
Sbjct: 254 SWHELSLEGLAYVVDPHPSHRTPPKEIGGIPYVGVGDVKLDGKLDFAGARKVSPKVLKDH 313

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGI---CSTQFLVLQPKDVLPELLQGWLLSID 132
                  +G   YGK+G   +  ++ +        +   +  + K    E L  + LS  
Sbjct: 314 LKRYSLKRGDFAYGKIGTIGQPFLLPEAQEYALSANVILIQPRSKFATAEFLYYFFLSPV 373

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           VTQ+I       + +    K +  +  P+P L+EQ  I  +I     +ID L  E  R +
Sbjct: 374 VTQKILGASVATSQAAFGIKKMREVLTPLPSLSEQNEIVTRIEKAFAKIDKLAEEAKRAL 433

Query: 193 ELLKEKKQALVSYIVTKGLNPDVK 216
             +    + +++      L P   
Sbjct: 434 HSVDRLDEKILAKAFRGELVPQDP 457


>gi|212639882|ref|YP_002316402.1| Restriction endonuclease S subunit [Anoxybacillus flavithermus WK1]
 gi|212561362|gb|ACJ34417.1| Restriction endonuclease S subunit [Anoxybacillus flavithermus WK1]
          Length = 416

 Score =  134 bits (338), Expect = 2e-29,   Method: Composition-based stats.
 Identities = 68/418 (16%), Positives = 134/418 (32%), Gaps = 33/418 (7%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPKDGNSRQS-- 73
             W    +    ++  G T    K        I +I  +D+     +Y+ +  N+     
Sbjct: 2   SEWINCTLGDIAEVIGGGTPSKSKPEYYEGGTIPWITPKDLSGYPYRYIERGENNITELG 61

Query: 74  -DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
              S+  +  KG +L+    P      IA      +  F      +     L  +     
Sbjct: 62  LAKSSARMLPKGAVLFSSRAPI-GYVAIAKNPLCTNQGFKSFICDEKKVNNLFLYYFLKS 120

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
               IE +  G+T           IP+ +PPL  Q  I   I +   +I+  +       
Sbjct: 121 NLPMIENMANGSTFKEISGSVAKTIPISLPPLNIQEKIVSIIGSLDDKIELNLKMNETLG 180

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTEL------NR 246
           E+     +    + V  G   D +  +S    +G++P  W+ K    L           R
Sbjct: 181 EMAMTLYK---HWFVDFGPFQDGEFVES---ELGMIPKGWKAKKLGDLYDTSSGGTPSRR 234

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPE---SYETYQIVDPGEIVFRFIDLQNDKR 303
           K     +  I  L    +             E      + ++     ++         K 
Sbjct: 235 KTEYYQDGTINWLKTKELNDNFIFETEEKITELGLENSSAKVFPKNTVIIAMYGATVGKL 294

Query: 304 SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVK 363
            + S               ++ +   S  LA+L   ++  K+      G +Q++  + ++
Sbjct: 295 GILSEPSSTNQAC---CAVIEKNQSFSYVLAYLYLLFNRTKIVGLANGGAQQNINQQIIR 351

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            L ++VP         N+I  +   +  L+   EQ    L   R   +   ++G+ID+
Sbjct: 352 DLLIVVPT----EKALNIIQPKLLVLFELIRTNEQENRYLINLRDYLLPRLLSGEIDV 405



 Score = 81.0 bits (198), Expect = 3e-13,   Method: Composition-based stats.
 Identities = 30/194 (15%), Positives = 66/194 (34%), Gaps = 7/194 (3%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVESGTGKYLPKDGNS 70
           +G IPK WK   +      ++G T             I ++  +++         +    
Sbjct: 207 LGMIPKGWKAKKLGDLYDTSSGGTPSRRKTEYYQDGTINWLKTKELNDNFIFETEEKITE 266

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
              + S+  +F K  ++    G  + K  I       +     +  K+     +  +L  
Sbjct: 267 LGLENSSAKVFPKNTVIIAMYGATVGKLGILSEPSSTNQACCAVIEKNQSFSYVLAYLYL 326

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
           +    +I  +  G    + + + I ++ + +P      +I+ K++     I T   E   
Sbjct: 327 LFNRTKIVGLANGGAQQNINQQIIRDLLIVVPTEKALNIIQPKLLVLFELIRTNEQENRY 386

Query: 191 FIELLKEKKQALVS 204
            I L       L+S
Sbjct: 387 LINLRDYLLPRLLS 400


>gi|161503349|ref|YP_001570461.1| hypothetical protein SARI_01422 [Salmonella enterica subsp.
           arizonae serovar 62:z4,z23:-- str. RSK2980]
 gi|160864696|gb|ABX21319.1| hypothetical protein SARI_01422 [Salmonella enterica subsp.
           arizonae serovar 62:z4,z23:--]
          Length = 412

 Score =  134 bits (337), Expect = 2e-29,   Method: Composition-based stats.
 Identities = 71/422 (16%), Positives = 159/422 (37%), Gaps = 36/422 (8%)

Query: 23  KHWKVVPIKRFTK--LNTGRTS---ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           K WK V +K      +  G +    +S      +GL  +    G    +       +   
Sbjct: 4   KDWKSVTLKELLDGPIKNGYSPNATDSETGYWVLGLGAL-GDEGINSSEIKPVLPEERVL 62

Query: 78  VSIFAKGQILYGKLGP---YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
            +I      L  +        R     +    CS   L+++ +    +  + ++     +
Sbjct: 63  QNILRTDDFLVSRSNTPDKVGRSIRFRNEIENCSYPDLMMRFRIDENKADKAFIEHQLKS 122

Query: 135 QRIEAICE------GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
             +    +       +TM   +   +   P+ +PP+ EQ  I + +       D  I+  
Sbjct: 123 AAVRTYFKNCAAGSSSTMVKINKGILEKTPLVVPPVKEQKKIAQIL----STWDKAISVT 178

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN 248
            + +   +++K+AL+  +++        + ++G+ + G     WEV     L+ E  ++N
Sbjct: 179 EKLLTNSQQQKKALMQQLLS---GKKRLLDENGVMFSGE----WEVVRLKQLIHEEKKRN 231

Query: 249 TKLIESNILSL-SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
                  +LS+ ++   +   E  +  +  E   TY+IV   +  +    L     S   
Sbjct: 232 RDNHIQRVLSVTNHSGFVLPEEQFSKRVASEDVSTYKIVKKNQYGYNPSRLN--VGSFAR 289

Query: 308 AQVMERGIITSAYMAVKPHGI--DSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKR 364
               + G+++  Y+    +    +S Y    M S +  +       G +R S+ F+ +  
Sbjct: 290 LDNYDEGVLSPMYVVFSINHERLNSDYFLNWMSSNEAKQRIAGSTQGSVRDSVGFDALCS 349

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGE 424
               +P + EQ  I  V++   A     +  +E+ +  LKE + + +   +TG+  ++ E
Sbjct: 350 FSFSLPTLMEQQKIAAVLSAADAE----MSMLEKKLACLKEEKKALMQQLLTGKRRVKVE 405

Query: 425 SQ 426
           S+
Sbjct: 406 SE 407


>gi|292491161|ref|YP_003526600.1| restriction modification system DNA specificity domain protein
           [Nitrosococcus halophilus Nc4]
 gi|291579756|gb|ADE14213.1| restriction modification system DNA specificity domain protein
           [Nitrosococcus halophilus Nc4]
          Length = 406

 Score =  134 bits (337), Expect = 2e-29,   Method: Composition-based stats.
 Identities = 66/423 (15%), Positives = 130/423 (30%), Gaps = 47/423 (11%)

Query: 8   PQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES--------GKDIIYIGLEDVESG 59
           P YK +    IG IP+ W V  +     L  G+ S          G DI +I   DV + 
Sbjct: 21  PGYKRTE---IGVIPEDWAVRYLGDIALLERGKFSARPRNDPKFFGGDIPFIQTGDVTNS 77

Query: 60  TGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV 119
            G  +               +F +  + +  +   +    +A F+  C    + + PK  
Sbjct: 78  NGSIISYSQTLNDEGLRVSKLFPRNTLFFT-IAANIGDVGVASFETACPDSLIAIFPKPN 136

Query: 120 LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
           + +    +       ++ E +       + + + +    + +PPL EQ  I   +     
Sbjct: 137 VEKRWL-FNALRSQKKKFEGLATQNAQLNINLEKLNPYLLALPPLPEQRAIAAALSDLDA 195

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFA 239
            I  L     +   +     Q L+                +G + +      WEVK    
Sbjct: 196 LIAALDKLIAKKRAIKTAAMQQLL----------------TGKQRLPGFEGEWEVKRLGD 239

Query: 240 LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQ 299
           +      K     ++      +    Q +E  N      S++   I+ PGE         
Sbjct: 240 VSVVKTGKKNNEDKAEDGKYPFFVRSQTVERINTY----SFDGEAILVPGE--------- 286

Query: 300 NDKRSLRSAQVMERGIITSAY-MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLK 358
               S+      +       Y ++      +  ++ + +      +           SL+
Sbjct: 287 GGIGSIFHYVNGKFDYHQRVYKISNFAADTNGKFIYYCLLQTFNKQAMRNSVKATVDSLR 346

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
                    L P   EQ  I  +++   A I  L  +        +  +   +   +TG+
Sbjct: 347 LPTFIEFEFLAPCFDEQQAIATILSDMDAEITTLEARR----DKTQAIKQGMMQELLTGR 402

Query: 419 IDL 421
           I L
Sbjct: 403 IRL 405



 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 31/212 (14%), Positives = 74/212 (34%), Gaps = 19/212 (8%)

Query: 224 WVGLVPDHWEVKPFFALVTELNRK-------NTKLIESNILSLSYGNIIQK---LETRNM 273
            +G++P+ W V+    +      K       + K    +I  +  G++      + + + 
Sbjct: 27  EIGVIPEDWAVRYLGDIALLERGKFSARPRNDPKFFGGDIPFIQTGDVTNSNGSIISYSQ 86

Query: 274 GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL 333
            L  E     ++     + F       D          E     S         ++  +L
Sbjct: 87  TLNDEGLRVSKLFPRNTLFFTIAANIGDVGVAS----FETACPDSLIAIFPKPNVEKRWL 142

Query: 334 AWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
              +RS        A  +  + ++  E +    + +PP+ EQ  I   ++     +D L+
Sbjct: 143 FNALRSQKKKFEGLATQN-AQLNINLEKLNPYLLALPPLPEQRAIAAALSD----LDALI 197

Query: 394 EKIEQSIVLLKERRSSFIAAAVTGQIDLRGES 425
             +++ I   +  +++ +   +TG+  L G  
Sbjct: 198 AALDKLIAKKRAIKTAAMQQLLTGKQRLPGFE 229


>gi|189499314|ref|YP_001958784.1| restriction modification system DNA specificity domain [Chlorobium
           phaeobacteroides BS1]
 gi|189494755|gb|ACE03303.1| restriction modification system DNA specificity domain [Chlorobium
           phaeobacteroides BS1]
          Length = 430

 Score =  134 bits (337), Expect = 3e-29,   Method: Composition-based stats.
 Identities = 84/416 (20%), Positives = 160/416 (38%), Gaps = 32/416 (7%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTK-LNTGRTSESGKDIIYIGLEDVESGTGKYLPKDG 68
            +DS +  I ++P  WK          +        G +  YIGLE +  G   ++ +  
Sbjct: 35  MRDSNLL-IESLPDRWKNHKFGDLCDRVKNSYQPVDGGEKPYIGLEHLAQGFPAFIGRG- 92

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL 128
                  S+ ++F  G IL+GKL PYLRK   ADFDGICST  LV + K +       ++
Sbjct: 93  -KECEVKSSKTVFKSGDILFGKLRPYLRKGAQADFDGICSTDILVFRAKPICESNFLRFV 151

Query: 129 LS-IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
           +   +     +    G       W  +    + +PPL EQ  I   +      +   I  
Sbjct: 152 IHSEEFVAHAKTTTSGVRHPRTSWPLLREFYISLPPLPEQKKIAHIL----STVQRAIEA 207

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK 247
           + R I+   E K+AL+  + T+GL  + + +      +GLVP+ WEV     +    + K
Sbjct: 208 QDRIIQTTTELKKALMHKLFTEGLRNEPQKEA----EIGLVPESWEVVEIGDVFKFTSGK 263

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL-- 305
                 +   S+     +              Y    +++   ++   +        L  
Sbjct: 264 TKPKDTAPEPSVERTVPVYGGNGV------LGYSAQSLLNEDVLILGRVGEYCGCAHLTK 317

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRL 365
             + V +  +    Y   +   ++ +Y        +L +    MG   +  +    + R+
Sbjct: 318 PVSWVTDNAL----YAKEEKRSVNRSYARTHFAHLNLNQYSNKMG---QPLITQGIINRV 370

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
              +P  +EQ ++ N        +D  +E+I      L++   + +   +T +I++
Sbjct: 371 KFGLPSREEQDELAN----AFETLDTRIEQINAKKKSLQDLFHTLLHELMTAKINV 422


>gi|253687261|ref|YP_003016451.1| restriction modification system DNA specificity domain protein
           [Pectobacterium carotovorum subsp. carotovorum PC1]
 gi|251753839|gb|ACT11915.1| restriction modification system DNA specificity domain protein
           [Pectobacterium carotovorum subsp. carotovorum PC1]
          Length = 413

 Score =  134 bits (337), Expect = 3e-29,   Method: Composition-based stats.
 Identities = 60/415 (14%), Positives = 123/415 (29%), Gaps = 34/415 (8%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           +P  W    +     L  G             L       G       +      +   +
Sbjct: 18  VPAGWLQCKLGDVLTLQRG-----------FDLPQRLRKEGNIPIISSSGESGWHNNAIV 66

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
              G I+ G+ G       I       +T   V + K + P      L ++D        
Sbjct: 67  SPPG-IVTGRYGTIGEVFFIDKPFWPLNTTLYVREFKGITPSYAYFLLKTVDFQSHSGKS 125

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
                +   +   +    + +PP+ EQ+ I   +      I  L     +   +     Q
Sbjct: 126 ----GVPGVNRNDVHQENILLPPIKEQIAITTTLSNIDELISALERLLSKKQAIKTATMQ 181

Query: 201 ALVS---YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL------ 251
            L++    +    L  D   K      +G +P+ W V     ++   +   T        
Sbjct: 182 QLLTGKTRLPQFALREDGAAKGYQKSELGEIPEDWTVTLLNDVIDSCSSGATPYRGISEY 241

Query: 252 ---IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
                  I S      +       +      Y   +I   G  +     L+         
Sbjct: 242 YKGNNRWITSGELNYCVINDTIEKISDSAIKYTNLKIHPAGTFLMAITGLEAAGTRGACG 301

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ-SLKFEDVKRLPV 367
            V +      + MA+ P+    +   +    Y+   + +    G +Q S     ++++P+
Sbjct: 302 IVGKPSATNQSCMAIYPNNKLDSNYLYHWYVYNGDTLAFKYCQGTKQLSYTAGLIRKIPL 361

Query: 368 LVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            +P   KEQ  I  +++     I  L    +Q +   ++ +   +   +TG+  L
Sbjct: 362 FLPTDKKEQTAIAAILSDMDKDIQTL----QQRLEKTRQLKQGMMQELLTGKTRL 412



 Score = 67.9 bits (164), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 33/207 (15%), Positives = 61/207 (29%), Gaps = 15/207 (7%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTK-LNTGRTSESG------KDIIYIGLEDVESGTGK 62
           Y+ S    +G IP+ W V  +       ++G T   G       +  +I   ++      
Sbjct: 204 YQKSE---LGEIPEDWTVTLLNDVIDSCSSGATPYRGISEYYKGNNRWITSGELNYCVIN 260

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGKLG----PYLRKAIIADFDGICSTQFLVLQPKD 118
              +  +      + + I   G  L    G           I       +   + + P +
Sbjct: 261 DTIEKISDSAIKYTNLKIHPAGTFLMAITGLEAAGTRGACGIVGKPSATNQSCMAIYPNN 320

Query: 119 VLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAE 177
            L           +        C+G          I  IP+ +P    EQ  I   +   
Sbjct: 321 KLDSNYLYHWYVYNGDTLAFKYCQGTKQLSYTAGLIRKIPLFLPTDKKEQTAIAAILSDM 380

Query: 178 TVRIDTLITERIRFIELLKEKKQALVS 204
              I TL     +  +L +   Q L++
Sbjct: 381 DKDIQTLQQRLEKTRQLKQGMMQELLT 407


>gi|223940843|ref|ZP_03632673.1| restriction modification system DNA specificity domain protein
           [bacterium Ellin514]
 gi|223890493|gb|EEF57024.1| restriction modification system DNA specificity domain protein
           [bacterium Ellin514]
          Length = 405

 Score =  134 bits (336), Expect = 3e-29,   Method: Composition-based stats.
 Identities = 59/418 (14%), Positives = 136/418 (32%), Gaps = 34/418 (8%)

Query: 20  AIPKHWKVVPIKRFTKL-NTGRTSESGKD--IIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            +P  W+V+P     +    G ++ +  D  I  +G++++  G       D  S      
Sbjct: 2   KLPTEWRVLPFGEVVEHSQYGISTPTSPDGTIPILGMKNINDGQVVVGNPDRVSITEAVL 61

Query: 77  TVSIFAKGQILYGKLGP---YLRKAIIADFDGICSTQFLVLQPKDVL----PELLQGWLL 129
                  G +L+ +        +  +  +        +LV             +   +  
Sbjct: 62  AKQRLKDGDLLFNRTNSLDLVGKTGLFRESGDFVCASYLVRFRLRRNLVDPRYVCYLFNT 121

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGN-IPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
           S       +   +    ++ +   +     +P+PP  EQV I + +       D  I   
Sbjct: 122 SHSQRIMRQLATKAVAQANINPTSLQRKFLLPLPPRQEQVAIADLLEF----WDDDICRT 177

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN 248
              +    E K+ L+  ++T G     + K             W       +V    R  
Sbjct: 178 ESRLGKKLEFKRGLMQQLLT-GQTQFKEFKG----------KPWRKLHLGDIVNFEPRVV 226

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
            K   + + +    +       R+   +  + +   ++   ++V           ++  +
Sbjct: 227 PKPKGAFLAAGIRSHGKGVFLKRDFEAEDIALDELFVLRADDLVVNITFGWEGAAAIVPS 286

Query: 309 QVMERGIITSA-YMAVKPHGIDSTYLAWLMRSYDLCKV--FYAMGSGLRQS-LKFEDVKR 364
           +     +         KP      Y   +++           + G   R   L   +  R
Sbjct: 287 EADGALVSHRFPTFTFKPAVSFPGYFRHVIKQKRFVHAMGLASPGGAGRNRVLSKTEFMR 346

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
           +P+ +P + EQ  I  V+N      D  +E +++ +  LKE++   +   +TG+I ++
Sbjct: 347 IPIDLPSMAEQERIATVLND----CDREIELLQKQLDALKEQKRGLMQKLLTGEIRVK 400


>gi|294502094|ref|YP_003566159.1| Type I restriction-modification system, S subunit [Salinibacter
           ruber M8]
 gi|294342078|emb|CBH22743.1| Type I restriction-modification system, S subunit [Salinibacter
           ruber M8]
          Length = 494

 Score =  134 bits (336), Expect = 3e-29,   Method: Composition-based stats.
 Identities = 58/416 (13%), Positives = 126/416 (30%), Gaps = 27/416 (6%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +G +P  WK+  + +   +  G +  S              G   +           +  
Sbjct: 77  LGRVPDDWKIRSLPKVAVIEMGSSPPSATYNEEGEGLPFYQGNADFGHMKPKVSTWCSDP 136

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
           V    +  +L     P      IAD           L+P  V    L  +      ++ +
Sbjct: 137 VKTADRDDVLISIRAPV-GDLNIADEHCCIGRGLAALRPNGVN--GLYLYYGLAQRSRWL 193

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
             +  G+T        +  + +P+PPL EQ  I   +      +D  I +    IE  + 
Sbjct: 194 ARLASGSTFKSVSSADLEKVDLPVPPLPEQRKIASVL----YAVDQAIQKTEAIIEQAQR 249

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
             + L+  +   G+    + K   +    L  +        +                  
Sbjct: 250 VSRGLIEKLTMWGIG-HSEFKKIDVTPKFLDVEVPRKWEKVSYAEVTENITYGFTNPMPE 308

Query: 258 SLSYGNIIQKLETRNMGLKPESYET------------YQIVDPGEIVFRFIDLQNDKRSL 305
           S      I   + R   +  +                    + G ++            +
Sbjct: 309 SDYGRWRITAKDIREGKIHYDEAGKTTEEAYRERLTGKSRPEVGNVLVTKDGTLGRVGVV 368

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKR 364
               +     + S  +  K   I S YLA  ++S  + K+  +         +K  ++  
Sbjct: 369 DRQGICINQSVAS--IRPKKEKITSEYLALTIKSPLVKKLIKSHNPQTTIGHIKISELAE 426

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQID 420
               +PP++EQ +I  +++    +I     K ++    L+  +   +   +TG++ 
Sbjct: 427 WEFPLPPVEEQNEIVRIVDSVREKIQNERNKKQR----LQRLKKGLMQDLLTGEVR 478



 Score = 72.1 bits (175), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 34/213 (15%), Positives = 75/213 (35%), Gaps = 20/213 (9%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
            +  +G VPD W+++    +       +      N             +  +M  K  ++
Sbjct: 73  EVFGLGRVPDDWKIRSLPKVAVIEMGSSPPSATYNEEGEGLPFYQGNADFGHMKPKVSTW 132

Query: 281 ETYQIV--DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
            +  +   D  +++        D          E   I     A++P+G++  YL + + 
Sbjct: 133 CSDPVKTADRDDVLISIRAPVGDL-----NIADEHCCIGRGLAALRPNGVNGLYLYYGL- 186

Query: 339 SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
           +     +         +S+   D++++ + VPP+ EQ  I +V+       D  ++K E 
Sbjct: 187 AQRSRWLARLASGSTFKSVSSADLEKVDLPVPPLPEQRKIASVLYAV----DQAIQKTEA 242

Query: 399 SIVLLKERRSSFIAAA-VTG-------QIDLRG 423
            I   +      I    + G       +ID+  
Sbjct: 243 IIEQAQRVSRGLIEKLTMWGIGHSEFKKIDVTP 275


>gi|166711005|ref|ZP_02242212.1| type I restriction enzyme specificity protein [Xanthomonas oryzae
           pv. oryzicola BLS256]
          Length = 451

 Score =  134 bits (336), Expect = 3e-29,   Method: Composition-based stats.
 Identities = 69/419 (16%), Positives = 139/419 (33%), Gaps = 28/419 (6%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +P  W    I     +      +   +I ++ +    +     L  +           +
Sbjct: 4   ELPGGWVETTIGEICAMGPKSAWDDDMEIGFVPMSHAPTNFRGPLNYEARRWHEVKKAYT 63

Query: 80  IFAKGQILYGKLGPYLR------KAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI-- 131
            F    +++ K+ P          A + +  G  S++F VL+ +D          +    
Sbjct: 64  HFENDDVIFAKVTPCFENGKAALVAGLPNGAGAGSSEFHVLRRRDAGISPSYLLAVIKSA 123

Query: 132 -DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
             + +  E +     +       + N P+ +PP AEQ  I +K+ A   ++DT       
Sbjct: 124 QFLREGEENMTGAIGLRRVPRAFVENFPVRLPPEAEQKRIAQKLDALLAQVDTFKARIDA 183

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
              LLK  +Q+++++ V+  L  D         W      +   +     V         
Sbjct: 184 IPALLKRFRQSVINHGVSGSLALDQHASFDTTTW-----RNMRAEDVCTKVQSGGTPKEG 238

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQ------IVDPGEIVFRFIDLQNDKRS 304
                I  L   NI+  +       +  + + +Q      I  PG+++   +     K +
Sbjct: 239 FTTEGIPFLKVYNIVDGIIEFEYRPQYIAADIHQGSCRKSITIPGDVLMNIVGPPLGKIA 298

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA--MGSGLRQSLKFEDV 362
           +    V E  I  +  +      I S ++  ++      +       GS  + ++     
Sbjct: 299 VVPQGVDEWNINQAITLFRPSESISSAWIHLVLLEGTNIRRVSQETKGSAGQVNISLSQC 358

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEK---IEQSIVLLKERRSSFIAAAVTGQ 418
           +     VPP + Q +I   +    A  D L  K    +Q I  L     S +A A  G+
Sbjct: 359 RDFVFPVPPTQIQDEIVRRVEQLFAYADQLEAKVAAAQQRIDALT---QSLLAKAFRGE 414


>gi|312963117|ref|ZP_07777602.1| restriction modification system DNA specificity domain [Pseudomonas
           fluorescens WH6]
 gi|311282628|gb|EFQ61224.1| restriction modification system DNA specificity domain [Pseudomonas
           fluorescens WH6]
          Length = 406

 Score =  134 bits (336), Expect = 3e-29,   Method: Composition-based stats.
 Identities = 67/420 (15%), Positives = 146/420 (34%), Gaps = 41/420 (9%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDI------IYIGLEDVESGTGKYLPKDGNSRQSDT 75
           P  W+V+ +    K  +G T     +        +I  +D++           +      
Sbjct: 2   PDGWRVLELGELAKFTSGGTPSKSNESYWGGNHPWISGKDLKQHY--LSTSIDSLTDEGF 59

Query: 76  STVSIFAKGQILYGKLGPYL---RKAIIADFDGICSTQFLVLQPKDVLPELLQGWL-LSI 131
           S+ +    G  L    G  L        A      +     L P+  +  L   +L    
Sbjct: 60  SSANKAPAGSTLVLVRGMTLLKDFPVGFATKPLAFNQDLKALIPEKNVDGLFLSFLLAGN 119

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
               R      G      D + +   P+  P   EQ  I + +       D  IT   + 
Sbjct: 120 KEKIRQLVSTAGHGTGRLDTESLKAFPVLTPKPLEQKKIAKIL----STWDQAITTTEQI 175

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           ++  +++K+AL+  ++             G   +      W +     L + +  KNT++
Sbjct: 176 LKSSQQQKKALMQQLL------------IGKRRLSGYQRPWTMFKLEQLFSRVTTKNTEI 223

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQND-KRSLRSAQV 310
             + +   +   +I++ +  N  +  E  + Y ++  G+  +           +++    
Sbjct: 224 NTNVVTISAQHGLIRQEDFFNKTIASEILDNYFLLKKGQFAYNKSYSNGYPMGAIKRLNK 283

Query: 311 MERGIITSAYMAVKPHG---IDSTYLAWLMRSYDLCKVFYAMGS-GLRQ----SLKFEDV 362
            E+G++T+ Y+  +       +  +      S  L      + + G R     ++K  + 
Sbjct: 284 YEKGVVTTLYICFEASNEAKCNPEFFEHYFESGRLNNGLSKIANEGGRAHGLLNVKPSEF 343

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
             L V VP + EQ  I  V+N     I  L    +  +  L++++ S +   +TG+  ++
Sbjct: 344 FGLTVFVPEVAEQKAIATVLNTADQEIQTL----QIKLSSLRDQKKSLMQQLLTGKRRVK 399



 Score = 74.4 bits (181), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 29/186 (15%), Positives = 62/186 (33%), Gaps = 10/186 (5%)

Query: 246 RKNTKLIESNILSLSYGNIIQ-KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
           + N      N   +S  ++ Q  L T    L  E + +      G  +     +   K  
Sbjct: 24  KSNESYWGGNHPWISGKDLKQHYLSTSIDSLTDEGFSSANKAPAGSTLVLVRGMTLLKDF 83

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR-SYDLCKVFYAMGSGLRQSLKFEDVK 363
                             +    +D  +L++L+  + +  +   +        L  E +K
Sbjct: 84  PVGFATKPLAFNQDLKALIPEKNVDGLFLSFLLAGNKEKIRQLVSTAGHGTGRLDTESLK 143

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL-- 421
             PVL P   EQ  I  +++      D  +   EQ +   ++++ + +   + G+  L  
Sbjct: 144 AFPVLTPKPLEQKKIAKILSTW----DQAITTTEQILKSSQQQKKALMQQLLIGKRRLSG 199

Query: 422 --RGES 425
             R  +
Sbjct: 200 YQRPWT 205


>gi|10954528|ref|NP_044167.1| type I restriction enzyme subunit S [Methanocaldococcus jannaschii
           DSM 2661]
 gi|12229988|sp|Q60296|T1SH_METJA RecName: Full=Putative type-1 restriction enzyme MjaXP specificity
           protein; Short=S.MjaXP; AltName: Full=Type I restriction
           enzyme MjaXP specificity protein; Short=S protein
 gi|1522674|gb|AAC37110.1| hypothetical protein MJ_ECL41 [Methanocaldococcus jannaschii DSM
           2661]
          Length = 432

 Score =  134 bits (336), Expect = 4e-29,   Method: Composition-based stats.
 Identities = 69/439 (15%), Positives = 155/439 (35%), Gaps = 31/439 (7%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLE 54
           M  ++   ++K++    IG IPK W V  IK   ++  G T  +      G DI +I  +
Sbjct: 4   MVKFRWETEFKETD---IGKIPKDWDVKKIKDIGEVAGGSTPSTKIKEYWGGDIPWITPK 60

Query: 55  DVESGTGKYL---PKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQF 111
           D+ +    Y+    ++   +     ++ IF KG IL     P      IA      +  F
Sbjct: 61  DLANYEYIYISRGERNITEKAVKECSLRIFPKGTILLTSRAPI-GYVAIAKNPLTTNQGF 119

Query: 112 LVLQPKDVLPELLQGWLLSIDVTQRIEA-ICEGATMSHADWKGIGNIPMPIPPLAEQVLI 170
             + PKD +      +L            I  G+T        +  + +P P   EQ  I
Sbjct: 120 RNIIPKDGVVSEYLYYLFKTKTMSEYLKDISGGSTFPELKGSTLKEVEIPYPSPEEQQKI 179

Query: 171 REKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPD 230
              +      I+    +     ++  E  +   ++ +      + +   +  E    +P 
Sbjct: 180 ATVLSYFDDLIENKKKQNEILEKIALELFK---NWFIDFEPFKNEEFVYND-ELDKEIPK 235

Query: 231 HWEVKPFFALVTELNRKN-----TKLIESNILSLSYGNIIQKLETRNMGLKPE---SYET 282
            WEVK    ++   +  N          + I  +   ++++ +   +     E       
Sbjct: 236 GWEVKRLGDILKVESGSNAPQREIYFENAKIPFVRVKHLVKGVCIESSDFINELALKDYK 295

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
            ++ +   I+F+       +  +          +    +       +  Y  + +  + L
Sbjct: 296 MKLYNEKSIIFQKSGESLKEARVNIVPFKFTA-VNHLAVIDSSMLNEKHYFIYCLLRFLL 354

Query: 343 CKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
            ++ Y++       LK  D++   +++PP      I    +     +   +   ++ I++
Sbjct: 355 KEIVYSVKGTTLPYLKISDIENKYIIIPP----QPILQKFHSLVQPLFEKIINNQKQIMV 410

Query: 403 LKERRSSFIAAAVTGQIDL 421
           LK+ R + +   V G++ +
Sbjct: 411 LKKIRDALLPKLVFGELRV 429


>gi|260549264|ref|ZP_05823484.1| predicted protein [Acinetobacter sp. RUH2624]
 gi|260407670|gb|EEX01143.1| predicted protein [Acinetobacter sp. RUH2624]
          Length = 396

 Score =  133 bits (335), Expect = 4e-29,   Method: Composition-based stats.
 Identities = 59/416 (14%), Positives = 137/416 (32%), Gaps = 40/416 (9%)

Query: 18  IGAIPKHWKVVPIKRFT-KLNTGRTSESGK---DIIYIGLEDV-----ESGTGKYLPKDG 68
           +  +P  W    +     K+  G  +   +    +  +   +V          + +P+D 
Sbjct: 5   LYKLPDGWDWKTLGDVCFKVTDGSHNPPKEVEVGLPMLSSRNVMDNGLVWDNFRLIPEDA 64

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFD--GICSTQFLVLQPKDVLPELLQG 126
                     +  ++G +L   +G   R  ++ + D          VL  ++++PE L  
Sbjct: 65  F---ESEHKRTRVSEGDVLLTIVGTIGRSCVVRNLDRLFTLQRSVAVLSSEELIPEFLSY 121

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
              +  + +   +  +G+       K +    +  PP+ EQ  I EK+ A   RID  I 
Sbjct: 122 QFRAPFIQEHFISNAKGSAQKGIYLKQLKATYLVCPPIEEQNRIVEKLDALFTRIDIAIE 181

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
                ++L K+   +++           V +        G  P                 
Sbjct: 182 HLQSKLDLSKQLFDSVLDEFFKLPDCDSVPLTQVVEFIGGSQP----------------- 224

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
             ++  +           I+  ++ N  +  +S  T +     +++            + 
Sbjct: 225 PKSQFSDVQKEGYVRLIQIRDYKSDNHIVYVDSASTKKFCTKDDVMIGRYGPP-----VF 279

Query: 307 SAQVMERGIITSAYMAVKPHGID--STYLAWLMRSYDLCKVFYAMGS--GLRQSLKFEDV 362
                  G    A M   P+       YL W ++S  +      +      +  +  + +
Sbjct: 280 QILRGLDGAYNVALMKAVPNEDLLMKDYLFWFLQSPSIQNYVIGISQRAAGQSGVNKKAL 339

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           ++  + VP    Q DI + +    ++   L  ++   I  L + ++S + +A  G+
Sbjct: 340 EKYLIPVPSKAIQNDIVDKVGQLVSKSRHLEAEVTAEIAFLSQLKASILDSAFKGE 395


>gi|158337894|ref|YP_001519070.1| restriction modification system DNA specificity subunit
           [Acaryochloris marina MBIC11017]
 gi|158308135|gb|ABW29752.1| restriction modification system DNA specificity domain
           [Acaryochloris marina MBIC11017]
          Length = 295

 Score =  133 bits (335), Expect = 4e-29,   Method: Composition-based stats.
 Identities = 68/292 (23%), Positives = 123/292 (42%), Gaps = 15/292 (5%)

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
                  + D+     +P+ IPP+ EQ  I E +  +TV +D  I  + R IELL+E+K 
Sbjct: 8   MGSGLRQNLDYTDFKYLPLTIPPIDEQRRIVEFLDRKTVELDDAIATKQRLIELLQEQKA 67

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK-------LIE 253
            L++  VTKGL+P+V M D GI  +  VP+HW++     L   L  K +           
Sbjct: 68  ILINQAVTKGLDPNVPMCDRGIHGLEKVPNHWKLCSVKRLTQILRGKFSHRPRNDARFYG 127

Query: 254 SNILSLSYGNIIQ---KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
                +  G+I Q   ++   +  L    Y   +    G +V      +  + S+    +
Sbjct: 128 GQYPFIQTGDISQAGRRITKYSQTLNARGYAVSKEFPAGTVVMVITGAKTGEVSI----L 183

Query: 311 MERGIITSAYMAVKPHGID-STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
                   + +   P+  + S    + M      ++        +++L  + +  L    
Sbjct: 184 GFNACFPDSAVGFFPNPGEVSADFLYYMFGVLKTRLDEVSIVSTQENLNVDRIGALYTAC 243

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           PP++EQ  I + ++      +    + E+ I  L+E R   I+ AVTG+I +
Sbjct: 244 PPVEEQNQIVDFLDNRLLGFETAQVRAEEQINKLQEFREILISHAVTGKIKV 295



 Score = 92.5 bits (228), Expect = 1e-16,   Method: Composition-based stats.
 Identities = 31/75 (41%), Positives = 48/75 (64%)

Query: 342 LCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
           + KV+Y MGSGLRQ+L + D K LP+ +PPI EQ  I   ++ +T  +D  +   ++ I 
Sbjct: 1   MLKVYYGMGSGLRQNLDYTDFKYLPLTIPPIDEQRRIVEFLDRKTVELDDAIATKQRLIE 60

Query: 402 LLKERRSSFIAAAVT 416
           LL+E+++  I  AVT
Sbjct: 61  LLQEQKAILINQAVT 75



 Score = 75.6 bits (184), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 36/208 (17%), Positives = 76/208 (36%), Gaps = 8/208 (3%)

Query: 12  DSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKD--------IIYIGLEDVESGTGKY 63
           D G+  +  +P HWK+  +KR T++  G+ S   ++          +I   D+     + 
Sbjct: 86  DRGIHGLEKVPNHWKLCSVKRLTQILRGKFSHRPRNDARFYGGQYPFIQTGDISQAGRRI 145

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPEL 123
                       +    F  G ++    G    +  I  F+       +   P       
Sbjct: 146 TKYSQTLNARGYAVSKEFPAGTVVMVITGAKTGEVSILGFNACFPDSAVGFFPNPGEVSA 205

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
              + +   +  R++ +   +T  + +   IG +    PP+ EQ  I + +    +  +T
Sbjct: 206 DFLYYMFGVLKTRLDEVSIVSTQENLNVDRIGALYTACPPVEEQNQIVDFLDNRLLGFET 265

Query: 184 LITERIRFIELLKEKKQALVSYIVTKGL 211
                   I  L+E ++ L+S+ VT  +
Sbjct: 266 AQVRAEEQINKLQEFREILISHAVTGKI 293


>gi|84387346|ref|ZP_00990366.1| type I site-specific deoxyribonuclease [Vibrio splendidus 12B01]
 gi|84377795|gb|EAP94658.1| type I site-specific deoxyribonuclease [Vibrio splendidus 12B01]
          Length = 413

 Score =  133 bits (335), Expect = 4e-29,   Method: Composition-based stats.
 Identities = 57/417 (13%), Positives = 135/417 (32%), Gaps = 27/417 (6%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSES--------GKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           +P  W +  ++    +  G+ S          G +I ++   D+ S        +    +
Sbjct: 2   VPNGWSIKTLESLATVERGKFSARPRNDPKYYGGEIPFVQTGDIASAKTYLSSFNQTLNE 61

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
                  +F +  IL   +   +    I  F+  C    + +QPK  +            
Sbjct: 62  DGLKVSRLFPENSILIT-IAANIGDTAITTFEVACPDSLVGIQPKQDIDCFWLN-SFLET 119

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
               ++         + + + +  + +  PP  EQ  I + +       D  IT   + I
Sbjct: 120 CKDELDGKATQNAQKNINLQVLKPLEILTPPYKEQQKIAKIL----STWDKAITTTEKLI 175

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTE-LNRKNTKL 251
              K++K+AL+  ++T      +   D+G  + G   +         +     +   +  
Sbjct: 176 ATSKQQKKALMQQLLTGK--KRLVNPDTGKTFEGEWEEVKLGDVCSKVTDGAHHSPKSVE 233

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYE----TYQIVDPGEIVFRFIDLQNDKRSLRS 307
               +LS+      +  E     +  E YE         +  +I+            +  
Sbjct: 234 CGYPMLSVKDMRATKFSENTARHISKEDYEALVKQNCKPELNDILIAKDGSILKYCFVVR 293

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA--MGSGLRQSLKFEDVKRL 365
            ++    + + A +  K   I   ++A       +                +  +D K +
Sbjct: 294 EEIEGVILSSIALLRPKLSIISPNFIAQYFSQESVRFFVGKALTSGSGVPRIILKDFKGI 353

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
            + +P + EQ  I +V+          +E  E  +   K+ + + +   +TG+  ++
Sbjct: 354 HLRIPSLLEQQKIASVLTAADKE----IEVFEAKLAHFKQEKKALMQQLLTGKRRVK 406


>gi|296106107|ref|YP_003617807.1| hypothetical protein lpa_00830 [Legionella pneumophila 2300/99
           Alcoy]
 gi|295648008|gb|ADG23855.1| hypothetical protein lpa_00830 [Legionella pneumophila 2300/99
           Alcoy]
          Length = 448

 Score =  133 bits (335), Expect = 5e-29,   Method: Composition-based stats.
 Identities = 77/416 (18%), Positives = 144/416 (34%), Gaps = 16/416 (3%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + W +   K   K           D +     D           DG +            
Sbjct: 16  EDWHIKRFKYLFKKLN--RPVMDDDGVITAFRDGLVTLRSNRRMDGFTFADKEIGYQGVE 73

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQF---LVLQPKDVLPELLQGWLLSIDVTQRIEA 139
              ++   +  +     ++D  G CS  +   + + P    P+    +L ++     IE+
Sbjct: 74  PNDLVIHAMDSFAGAIGVSDSRGKCSPVYSIAIPINPNAAYPKFWGYYLRNLATAGFIES 133

Query: 140 ICEGATMS--HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           + +G         WK I N+ +  P    Q  I + +  ET RID LI +++  I +LKE
Sbjct: 134 LAKGIRERSTDFRWKDISNLLVNFPNYEIQKGIADFLDHETDRIDQLIEKKVGLISVLKE 193

Query: 198 KKQALVSYIVTKGL----NPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR---KNTK 250
           K  ALV+  V +G           K +  +       +  ++P      E      K   
Sbjct: 194 KSTALVTENVLQGHRVYPEKTSAEKYTHPDKFWPDGLNGLLQPLKFFCEETASLSDKTDP 253

Query: 251 LIESNILSLSYGNIIQKLETRNMG-LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
            +E + + +   +    L+       K       Q++   +++   +       +     
Sbjct: 254 NMEIHYIDIGNVSFADGLKGSAKYLFKDAPSRARQVLRMHDVIISTVRTYLKACAYIDKD 313

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVL 368
           +      T   +      I   YL   ++S            G+   ++  + +K L + 
Sbjct: 314 LPNLIASTGFCVLRPNDKIHPKYLYRAIQSDPFISGVVVRSEGVSYPAVNDKMIKALKIP 373

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGE 424
           VP +  Q  I++ I  E   +      IE+SI LL   +SS I  AVTG++D+   
Sbjct: 374 VPDLGLQKSISDKIEQEIHSVTQTTRLIEKSIDLLSSFKSSLITEAVTGKLDINSW 429


>gi|227820721|ref|YP_002824691.1| putative restriction endonuclease type I, S subunit [Sinorhizobium
           fredii NGR234]
 gi|227339720|gb|ACP23938.1| putative restriction endonuclease type I, S subunit [Sinorhizobium
           fredii NGR234]
          Length = 496

 Score =  133 bits (334), Expect = 5e-29,   Method: Composition-based stats.
 Identities = 75/457 (16%), Positives = 143/457 (31%), Gaps = 58/457 (12%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYLPKDGNSRQ 72
            +P+ W V  I+    + TG T + G         I +I    V      Y  +      
Sbjct: 3   ELPRGWCVTTIQEIADVGTGATPKRGTRAFYESGTIPWITSGAVSQRQITYADEFITEAA 62

Query: 73  SDTSTVSIFAKGQILYGKLGP--YLRKAIIADFDGICSTQFL-VLQPKDVLPELLQGWLL 129
             ++   +F  G IL    G             D   +     ++ P D +         
Sbjct: 63  IRSTNCKVFPTGTILVAMYGEGKTRGSVARLAIDAATNQALAAIVLPNDDIVSSEFLMNF 122

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
                 ++  +  G    + + + I +   P+PPLAEQ  I  K+ A + +     TE  
Sbjct: 123 LTSQYSQLRGLAAGGVQPNLNLQLIRSTSFPLPPLAEQKRIVAKLDALSAKSARARTELA 182

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDS---------------GIE----------- 223
           R   L+   KQA++    +  L  D ++                  G+E           
Sbjct: 183 RIETLVYRYKQAVLGKAFSGELTVDFRLSRRHLQSEAKAGSIHGEEGVERKLKVRGTTDV 242

Query: 224 ----WVGLVPDHWEVKP-----------FFALVTELNRKNTKLIESNILSLSYGNIIQKL 268
                +  +P+ W                 A       K     +  I  +   ++    
Sbjct: 243 MKGIQLSPLPESWNWVKNHRLAQNRANAICAGPFGTIFKAKDFRDKGIPIIFLRHVAAGE 302

Query: 269 ETRNM-----GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY-MA 322
              +          +       V  GE++   +        +  A V    +      M+
Sbjct: 303 YRTHKPGFMDKKVWQELHQPYSVFGGELLVTKLGDPPGVACIFPAGVGTAMVTPDVMKMS 362

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
           V  +     +L +   S     + + +  G  R  +     K  PV  P ++EQ +I   
Sbjct: 363 VDENASVPKFLMFYFNSPIAKNIIHQLAFGLTRLRVDLAMFKTFPVPHPSLEEQLEIVRR 422

Query: 382 INVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           I    A+ID L  + ++++ L+ +   + +A A  G+
Sbjct: 423 IESAFAKIDRLAAEAKRALDLVGKLDEAILAKAFRGE 459



 Score = 81.4 bits (199), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 26/205 (12%), Positives = 67/205 (32%), Gaps = 11/205 (5%)

Query: 227 LVPDHWEVKPFFALVTELNRKNT------KLIESNILSLSYGNIIQKLETRNMGLKPES- 279
            +P  W V     +                     I  ++ G + Q+  T       E+ 
Sbjct: 3   ELPRGWCVTTIQEIADVGTGATPKRGTRAFYESGTIPWITSGAVSQRQITYADEFITEAA 62

Query: 280 --YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
                 ++   G I+         + S+    +        A + +    I S+      
Sbjct: 63  IRSTNCKVFPTGTILVAMYGEGKTRGSVARLAIDAATNQALAAIVLPNDDIVSSEFLMNF 122

Query: 338 RSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
            +    ++      G++ +L  + ++     +PP+ EQ  I   ++  +A+      ++ 
Sbjct: 123 LTSQYSQLRGLAAGGVQPNLNLQLIRSTSFPLPPLAEQKRIVAKLDALSAKSARARTELA 182

Query: 398 QSIVLL-KERRSSFIAAAVTGQIDL 421
           + I  L    + + +  A +G++ +
Sbjct: 183 R-IETLVYRYKQAVLGKAFSGELTV 206



 Score = 45.2 bits (105), Expect = 0.023,   Method: Composition-based stats.
 Identities = 48/214 (22%), Positives = 76/214 (35%), Gaps = 21/214 (9%)

Query: 21  IPKHWKVVPIKRFTK-----LNTGRTSE-------SGKDIIYIGLEDV---ESGTGKYLP 65
           +P+ W  V   R  +     +  G             K I  I L  V   E  T K   
Sbjct: 251 LPESWNWVKNHRLAQNRANAICAGPFGTIFKAKDFRDKGIPIIFLRHVAAGEYRTHKPGF 310

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD---FDGICSTQFLVL--QPKDVL 120
            D    Q      S+F  G++L  KLG     A I        + +   + +       +
Sbjct: 311 MDKKVWQELHQPYSVF-GGELLVTKLGDPPGVACIFPAGVGTAMVTPDVMKMSVDENASV 369

Query: 121 PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
           P+ L  +  S      I  +  G T    D       P+P P L EQ+ I  +I +   +
Sbjct: 370 PKFLMFYFNSPIAKNIIHQLAFGLTRLRVDLAMFKTFPVPHPSLEEQLEIVRRIESAFAK 429

Query: 181 IDTLITERIRFIELLKEKKQALVSYIVTKGLNPD 214
           ID L  E  R ++L+ +  +A+++      L P 
Sbjct: 430 IDRLAAEAKRALDLVGKLDEAILAKAFRGELVPQ 463


>gi|116250869|ref|YP_766707.1| type I restriction enzyme specificity subunit [Rhizobium
           leguminosarum bv. viciae 3841]
 gi|115255517|emb|CAK06594.1| putative type I restriction enzyme specificity subunit [Rhizobium
           leguminosarum bv. viciae 3841]
          Length = 456

 Score =  133 bits (334), Expect = 6e-29,   Method: Composition-based stats.
 Identities = 77/417 (18%), Positives = 153/417 (36%), Gaps = 19/417 (4%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGK--DIIYIGLEDVESGTGKYLPKDGNSRQSDT-ST 77
           +PK W    ++   + N     +  +   + ++ +  V+  TG  + K      S+    
Sbjct: 4   LPKGWVEATLEELCQFNPKHDPDVDQSLGVNFVPMPAVDDETGAIIDKSVVRPLSEIWKG 63

Query: 78  VSIFAKGQILYGKLGPYLRKAIIA------DFDGICSTQFLVLQPKDVL-PELLQGWLLS 130
            + FA   +++ K+ P +    IA      +     ST+F VL+ K  + P+ L  +L  
Sbjct: 64  YTHFADRDVIFAKITPCMENGKIAVARDLANGMACGSTEFHVLRSKGAVEPDFLWRFLRR 123

Query: 131 IDVTQRIEAICEG-ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
            +  Q  E    G         + +    +P+PPL EQ  I  K+     +     TE  
Sbjct: 124 KNYRQVAEHSMTGAVGQRRVPRQFLETTSLPLPPLNEQKRIVAKLDTLNAKSARARTELA 183

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTEL--NRK 247
           R   L+   KQA++S   +  L  D +   + +     +P    V    +       + K
Sbjct: 184 RIEILVSRFKQAVLSKAFSGELTKDWRSGQTTLAPWENLPLSQLVSHGPSNGWSPKADGK 243

Query: 248 NTKLIESNILSLSYGN-IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
            + L    + + S G   + +   + +         + ++    ++ R   L+    ++ 
Sbjct: 244 VSGLKSLKLSATSSGRLRLDESTIKYLDQTLPEDSKFWLLSDDIVIQRANSLELLGTTVL 303

Query: 307 SAQVMERGIITSAY--MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFED 361
                   I       + V     +  YLA  + S      F A  +G       +    
Sbjct: 304 FDGPPGEFIFPDLMMRIRVNDKKTNPRYLATYLNSDSARSYFRANATGSAGNMPKINGST 363

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           V+   V  PP++EQ +I + I    A  D L  +  +++ L+ +   + +A A  G+
Sbjct: 364 VRETRVPTPPLEEQQEIVHRIESAFAMTDRLAAEAMRALDLVGKLGEAILAKAFRGE 420


>gi|51598166|ref|YP_072357.1| restriction modification enzyme [Yersinia pseudotuberculosis IP
           32953]
 gi|186897390|ref|YP_001874502.1| restriction modification system DNA specificity subunit [Yersinia
           pseudotuberculosis PB1/+]
 gi|51591448|emb|CAH23119.1| possible restriction modification enzyme [Yersinia
           pseudotuberculosis IP 32953]
 gi|186700416|gb|ACC91045.1| restriction modification system DNA specificity domain protein
           [Yersinia pseudotuberculosis PB1/+]
          Length = 409

 Score =  133 bits (334), Expect = 6e-29,   Method: Composition-based stats.
 Identities = 60/427 (14%), Positives = 145/427 (33%), Gaps = 42/427 (9%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESG------KDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           +P+ WK+          TG   +S       +DI  +  +++E    ++        Q  
Sbjct: 2   VPEGWKLSTFGNHVDCLTGFAFKSKSYSNNPEDIRLLRGDNIEPSRLRWRDAKFWPAQEY 61

Query: 75  TS-TVSIFAKGQILYGKLGPYLRK------AIIADFDGICSTQFLVLQPKDVL-PELLQG 126
                    KG  +      ++            D   +   +   ++ +  L   LL+ 
Sbjct: 62  EKLEKFQLRKGDFVIAMDRTWVSSGLKVAEVQHTDIPCLLVQRVARIRARSTLEQSLLRQ 121

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           +       Q ++++     + H     I +    +PP+ EQ  I   +       D  I 
Sbjct: 122 YFSDNKFEQYVKSVQTATAVPHISPNDIKDFTFLLPPINEQKKIARIL----STWDKAIA 177

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
              + +   + +K+AL+  ++            +G +      + W       L      
Sbjct: 178 TTEQLLANSQLQKKALMQQLL------------TGKKRFPGFSEEWTEVHLSDLCFINPS 225

Query: 247 KNTKLIESNILSLSYGNIIQ--KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
           ++ K     +  +S   + +  KL         +  + +      +++   I    +   
Sbjct: 226 RSEKPENGVVSFISMDGVSEDAKLIKTEDRYYSDVSKGFTSFKDDDVLVAKITPCFENGK 285

Query: 305 LRSAQVMERGI---ITSAYMAVKPHGIDSTYLAWL--MRSYDLCKVFYAMGSGLRQSLKF 359
                 +  GI    T  ++     G+++ Y+ +L  M  + +       GS  ++ +  
Sbjct: 286 GAYVINLTNGIGFGSTEFHVLRAKEGVNAKYIYYLTVMTEFRVRGEMNMQGSAGQKRVTT 345

Query: 360 EDVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           + +K L + VP    EQ  I  V+ V        +  ++Q +  LK+ + + +   +TG+
Sbjct: 346 DYLKSLKLTVPISFTEQNKIATVLTVSDQE----IATLKQKLNHLKQEKKALMQQLLTGK 401

Query: 419 IDLRGES 425
             ++ ++
Sbjct: 402 RRVKVDA 408



 Score = 89.9 bits (221), Expect = 7e-16,   Method: Composition-based stats.
 Identities = 20/152 (13%), Positives = 49/152 (32%), Gaps = 8/152 (5%)

Query: 279 SYETYQIVDPGEIVFRFIDLQ---NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
                  +  G+ V            K +      +   ++           ++ + L  
Sbjct: 62  EKLEKFQLRKGDFVIAMDRTWVSSGLKVAEVQHTDIPCLLVQRVARIRARSTLEQSLLRQ 121

Query: 336 LMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
                   +   ++ +      +   D+K    L+PPI EQ  I  +++      D  + 
Sbjct: 122 YFSDNKFEQYVKSVQTATAVPHISPNDIKDFTFLLPPINEQKKIARILSTW----DKAIA 177

Query: 395 KIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
             EQ +   + ++ + +   +TG+    G S+
Sbjct: 178 TTEQLLANSQLQKKALMQQLLTGKKRFPGFSE 209


>gi|290473110|ref|YP_003465971.1| Type I restriction-modification enzyme subunit S [Xenorhabdus
           bovienii SS-2004]
 gi|289172404|emb|CBJ79171.1| Type I restriction-modification enzyme subunit S [Xenorhabdus
           bovienii SS-2004]
          Length = 452

 Score =  133 bits (334), Expect = 6e-29,   Method: Composition-based stats.
 Identities = 56/435 (12%), Positives = 121/435 (27%), Gaps = 30/435 (6%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGK 62
           YK +     G IP+ W V  I     +  G +     D       I  + +EDV      
Sbjct: 24  YKQTEA---GVIPEAWVVKSIGELANVIRGASPRPKGDKRYYDGKIPRLMVEDVTRDGKF 80

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPE 122
             P   +  ++         +G +     G     +I+A    I      + +    +  
Sbjct: 81  VTPIVDSLTEAGAKLSRPCLRGTLTLVCSGNVGIPSILAIDACIHDGFLALTKVSKNISI 140

Query: 123 LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAE-QVLIREKIIAETVRI 181
                  S    +   +   G   ++   +G+    + +P   E Q  I   +      I
Sbjct: 141 DYLYHFFSTQREKFNNSATHGGVFTNLTTEGVREFLVALPFCYEEQTTIANILSDVDGLI 200

Query: 182 DTLITERIRFIELLKEKKQALVS------YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVK 235
             L     +   +     Q L++          +        K S +  +    +   + 
Sbjct: 201 SELEKLLAKKQAIKIATMQQLLTGRTRLPQFAFREDGSKKGYKRSELREIPEDWNPISIG 260

Query: 236 P---FFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY-----QIVD 287
                 A +        + +E+    L  G        +       S   Y       + 
Sbjct: 261 KDAVLKARIGWQALTTKEYLETGEYYLVTGTNFDAGTVKWEDCWYVSEWRYKQDSNIQLK 320

Query: 288 PGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY 347
             +++            +   ++          +  K +     YL +++ S    +   
Sbjct: 321 EDDVLITKDGTIGKVGYVEFLRLPSTLNSGVFVIRPKNNAFHPRYLFYILTSKIFNEFMK 380

Query: 348 A-MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
                     L  +D      + P I+EQ  I  ++      I  L    +Q +   ++ 
Sbjct: 381 GITAGSTITHLYQKDFVNFNFIAPNIEEQTTIATILLDMDTEIQAL----KQRLGKTRQI 436

Query: 407 RSSFIAAAVTGQIDL 421
           +   +   +TG+  L
Sbjct: 437 KQGMMQELLTGKTRL 451


>gi|153000716|ref|YP_001366397.1| restriction modification system DNA specificity subunit [Shewanella
           baltica OS185]
 gi|151365334|gb|ABS08334.1| restriction modification system DNA specificity domain protein
           [Shewanella baltica OS185]
          Length = 427

 Score =  133 bits (334), Expect = 6e-29,   Method: Composition-based stats.
 Identities = 69/437 (15%), Positives = 140/437 (32%), Gaps = 46/437 (10%)

Query: 8   PQYKDSGVQWIGAIPKHWKVVPIKRFT-------KLNTGRTSESGKDIIYIGLEDVESGT 60
             YK + V   G IP+ W+V  +K  +        +N      +   I  +    V    
Sbjct: 11  EGYKQTEV---GVIPEDWEVKKLKEISPSQSVGLVINPSSYYSNSGTIPMLVGSHVFENK 67

Query: 61  GKYLP-KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADF--DGICSTQFLVLQPK 117
            K+       +  +     S    G ++  ++G     A++        C++  ++ Q  
Sbjct: 68  IKWSKANKITAESNLRLPASRLKTGDLVTVRVGEPGITAVVPPELNQSNCASMMIIRQGP 127

Query: 118 DVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
                 L   + S     RIE +  G      +     +   P P   EQ  I   +   
Sbjct: 128 KFDSHWLCFLMNSKIGKSRIEGVQYGTAQKQFNIIDAVDFLFPFPTKEEQTAIANALSDM 187

Query: 178 TVRIDTLITERIRFIELLKEKKQALV-------SYIVTKGLNPDV-----KMKDSGIEWV 225
              +  L     +   +     Q L+        +     +N        K K +    +
Sbjct: 188 DALLSELEKLIAKKQAIKTATMQQLLTGKNRLPQFAFYSDINSIEGAVEGKRKGTKPSEL 247

Query: 226 GLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI 285
           G +PD WEVK F  ++   + K+ K I+ +           ++ + N            +
Sbjct: 248 GEIPDDWEVKKFGQVMHIRHGKDQKSIQVSGGLYPIFGTGGQMGSTNT----------PL 297

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV 345
            D   ++       N  R            + + + +   +     ++ +     D  + 
Sbjct: 298 YDKPSVLIGRKGTINKPR----FTDYPFWTVDTLFYSEVANTESVKFIYYKFCMIDWMQY 353

Query: 346 FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
             A G     SL    ++ +    P IKEQ  I  +++     ID  ++  EQ +   ++
Sbjct: 354 NEASG---VPSLNASTIENVLASFPDIKEQTAIVTILSD----IDNEIQAFEQRLSKTRQ 406

Query: 406 RRSSFIAAAVTGQIDLR 422
            +   +   +TG+  L 
Sbjct: 407 IKQGMMQELLTGKTRLP 423


>gi|325832692|ref|ZP_08165455.1| type I restriction modification DNA specificity domain protein
           [Eggerthella sp. HGA1]
 gi|325485831|gb|EGC88292.1| type I restriction modification DNA specificity domain protein
           [Eggerthella sp. HGA1]
          Length = 393

 Score =  133 bits (334), Expect = 6e-29,   Method: Composition-based stats.
 Identities = 55/399 (13%), Positives = 125/399 (31%), Gaps = 35/399 (8%)

Query: 24  HWKVVPIKRFTK-LNTGRT---SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           +W+   +    + L+ G     ++   +  YI + D++  T  +L  D  S   +     
Sbjct: 18  NWEEKTLGELCEPLSYGMNAAATKFDGENRYIRITDIDDETHAFLSNDVVSPSGELDDKY 77

Query: 80  IFAKGQILYGKLGPYLRKAIIADFD----GICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
           +  KG IL  + G    K+ +                           +    L+    +
Sbjct: 78  LVKKGDILLARTGASTGKSYLYHPKDGKLFYAGFLIKAHVLPSSDDYFIYSQTLTDRYGK 137

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            ++     +     +     +    +P L EQ  I + + A    I    TE   + +  
Sbjct: 138 WVKTTSMRSGQPGINANEYASYSFSVPSLPEQRKIADLLSAVDDVIAAQKTEVAAWEKRK 197

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
           K   Q L S  V    +      D   + +G +      +   +         + L +  
Sbjct: 198 KGVMQKLFSQEVRFKADDGSDFPDWEEKTLGDI---CMYERQRSEGANFIGTESMLKDFG 254

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
            ++                   +   +  +  PG+ +   I     K  L       +G 
Sbjct: 255 GVAFD---------------NSKDDGSGTLYHPGDTLMSNIRPYLKKAWLA----DRKGT 295

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKE 374
            ++  +   P  ++  YL WL+ S    +   +   G        + +  +P+L+P   E
Sbjct: 296 CSTDVLVFHPTSVEPGYLYWLIASDAFVRYVMSAAKGSKMPRGDKKHIMEMPLLLPNKDE 355

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           Q  I    +   + ++ ++ K +  +   +E +   +  
Sbjct: 356 QRKI----DDCLSSLNDVIIKAKNELAKWQELKKGLLQQ 390



 Score = 70.6 bits (171), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 18/189 (9%), Positives = 54/189 (28%), Gaps = 14/189 (7%)

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPE-SYETYQIVDPGEIVFRFIDLQNDKRSLR 306
                E+  + ++  +        N  + P    +   +V  G+I+         K  L 
Sbjct: 40  TKFDGENRYIRITDIDDETHAFLSNDVVSPSGELDDKYLVKKGDILLARTGASTGKSYLY 99

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRL 365
             +  +         A      D  ++     +    K          +  +   +    
Sbjct: 100 HPKDGKLFYAGFLIKAHVLPSSDDYFIYSQTLTDRYGKWVKTTSMRSGQPGINANEYASY 159

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR--- 422
              VP + EQ  I ++++      D ++   +  +   ++R+   +    + ++  +   
Sbjct: 160 SFSVPSLPEQRKIADLLSAV----DDVIAAQKTEVAAWEKRKKGVMQKLFSQEVRFKADD 215

Query: 423 -----GESQ 426
                   +
Sbjct: 216 GSDFPDWEE 224



 Score = 68.7 bits (166), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 41/184 (22%), Positives = 74/184 (40%), Gaps = 12/184 (6%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W+   +         R+    +   +IG E +    G            D  + +++  
Sbjct: 221 DWEEKTLGDICMYERQRS----EGANFIGTESMLKDFGGV----AFDNSKDDGSGTLYHP 272

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
           G  L   + PYL+KA +AD  G CST  LV  P  V P  L   + S    + + +  +G
Sbjct: 273 GDTLMSNIRPYLKKAWLADRKGTCSTDVLVFHPTSVEPGYLYWLIASDAFVRYVMSAAKG 332

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           + M   D K I  +P+ +P   EQ  I + +      ++ +I +    +   +E K+ L+
Sbjct: 333 SKMPRGDKKHIMEMPLLLPNKDEQRKIDDCL----SSLNDVIIKAKNELAKWQELKKGLL 388

Query: 204 SYIV 207
             + 
Sbjct: 389 QQMF 392


>gi|23217024|ref|NP_690631.2| type I R/M system specificity subunit [Lactococcus lactis subsp.
           lactis bv. diacetylactis]
 gi|23200589|dbj|BAC11874.2| type I R/M system specificity subunit [Lactococcus lactis subsp.
           lactis bv. diacetylactis]
          Length = 414

 Score =  132 bits (333), Expect = 7e-29,   Method: Composition-based stats.
 Identities = 68/414 (16%), Positives = 152/414 (36%), Gaps = 37/414 (8%)

Query: 20  AIPK--------HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDV----ESGTGKYLPKD 67
            +P+         W+   +   + +  G T  +     + G  D     E G  +Y+ K 
Sbjct: 15  KVPELRFKGFTDDWEERKLGELSNIVGGGTPSTSNSEYWDGDIDWYAPAEIGEQRYVSKS 74

Query: 68  GNSRQS---DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELL 124
             +        S+  I   G +L+         AI+       +  F  + P     +  
Sbjct: 75  KKTITELGLKKSSARILPVGTVLFTSRAGIGNTAILGKE-ATTNQGFQSIVPNPNKLDSY 133

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
             +  + ++ +  E    G+T      K +  + + +P L+EQ  I         ++D  
Sbjct: 134 FIYSRTNELKRYGEVTGAGSTFVEISGKQMSKMSIMVPELSEQKKIGSF----FEQLDNT 189

Query: 185 ITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTEL 244
           I    R ++LLKE+K+  +  +  K      +++ +G        D WE +   ++    
Sbjct: 190 IALHQRKLDLLKEQKKGYLQKMFPKNGAKVPELRFAG------FADDWEERKLSSMTNYK 243

Query: 245 NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY-ETYQIVDPGEIVF--RFIDLQND 301
           N K+ +  +S    L   N+     +  +    +   E    +   ++V     +   + 
Sbjct: 244 NGKSHEDKQSTSGKLELINLNSISISGGLKHSGKFIDEADDTLQKDDLVMILSDVGHGDL 303

Query: 302 KRSLRSAQVMERGIITSAYMAVKPHGI-DSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKF 359
              +      +R ++      ++P+   D  +L   + ++     F A G+G+ + ++  
Sbjct: 304 LGRVALIPEDDRFVLNQRVALLRPNTTADPQFLFSYINAHQY--YFKAQGAGMSQLNISK 361

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
             V+     VP I+EQ  I +       ++D  +   ++ + LLKE++  F+  
Sbjct: 362 GSVENFISFVPIIEEQKKIGSF----FKQLDETIALHQRKLDLLKEQKKGFLQK 411


>gi|323340760|ref|ZP_08081012.1| type I restriction-modification system specificity subunit
           [Lactobacillus ruminis ATCC 25644]
 gi|323091883|gb|EFZ34503.1| type I restriction-modification system specificity subunit
           [Lactobacillus ruminis ATCC 25644]
          Length = 419

 Score =  132 bits (333), Expect = 7e-29,   Method: Composition-based stats.
 Identities = 59/425 (13%), Positives = 147/425 (34%), Gaps = 35/425 (8%)

Query: 11  KDSGVQWIGAIPK--------HWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDV 56
           KDS V     +P          W+   +   +++  G T  +        DI +    ++
Sbjct: 5   KDSKV-----VPNVRFKGFTDDWEQRKLGDVSEIIGGGTPSTNHPEYWDGDIDWYSPAEI 59

Query: 57  ESG-TGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQ 115
                 K   +       D S+  +   G +L+       + AI++      +  F  + 
Sbjct: 60  SDQIYVKRSRRRITQLGYDNSSAKLLPPGTVLFTSRAGIGKTAILSQKS-CTNQGFQSIV 118

Query: 116 PKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKII 175
           P +   +    +  +  + +  E +  G+T +    K +  + + +P   ++    + I 
Sbjct: 119 PHENELDTYFIFSRTNVLKRYGELVGAGSTFAEVSGKQMSAMNLMLPTTIQEQ---QLIG 175

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPD-HWEV 234
               ++D LIT   + I  L + K+A++  +  K  +   +++ +G              
Sbjct: 176 QFFKKLDCLITLHQQKITRLIKLKKAMLEKMFPKKGSVIPEIRFNGFANAWEQCKLGDIA 235

Query: 235 KPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN----MGLKPESYETYQIVDPGE 290
                +  +  R +  L   + + ++  + I      +    +  +    + +  +  G 
Sbjct: 236 TMHARIGWQNLRTSEFLNSGDYMLITGTDFIDGTINFDTCHYVKRERYEQDKHIQISNGS 295

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAYM-AVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
           I+            ++   +          +     + +D+ YL   +++  L    Y  
Sbjct: 296 ILITKDGTLGKVAYIQGLTMPATLNAGVFNVEIKDENKVDNRYLFQYLKAPFLMNYVYKK 355

Query: 350 G-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
              G  + L    +   PV++P   EQ  I          +D L+   ++ I +LK+ +S
Sbjct: 356 ATGGTIKHLNQNILVNFPVVLPQKTEQKVIGE----LFTNLDHLITLHQRKIDMLKKLKS 411

Query: 409 SFIAA 413
           + ++ 
Sbjct: 412 ACLSE 416


>gi|260776597|ref|ZP_05885492.1| hsdS type I site-specific deoxyribonuclease [Vibrio coralliilyticus
           ATCC BAA-450]
 gi|260607820|gb|EEX34085.1| hsdS type I site-specific deoxyribonuclease [Vibrio coralliilyticus
           ATCC BAA-450]
          Length = 563

 Score =  132 bits (333), Expect = 7e-29,   Method: Composition-based stats.
 Identities = 65/418 (15%), Positives = 149/418 (35%), Gaps = 30/418 (7%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD---------IIYIGLEDV---ESGTGKYLPKD 67
            +P +W    I     + +G T ++G +         I ++   D+   +        +D
Sbjct: 3   KLPFNWVETEIGNLALVVSGGTPKAGDELNFAEPGAGIAWVTPADLSGYKQKEIANGRRD 62

Query: 68  GNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW 127
            + +  D+S+  +  KG +L+    P      IA+ +   +  F      D +      +
Sbjct: 63  LSPKGLDSSSAKLMPKGTLLFSSRAPI-GYVAIAENEISTNQGFKSFIFTDHVNST-YAY 120

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
                +    E+   G T           +P  + PL EQ+ I +K+ +   ++D     
Sbjct: 121 YYLKSIKDLAESWGSGTTFKELSGAVAKKLPFRLAPLNEQIRIADKLDSILAKVDHAQER 180

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK 247
             +  ++LK  +Q++++   +  L           EW       W      ++    N  
Sbjct: 181 LDKIPDILKRFRQSVLAAATSGELTR---------EWREGKEHQWPRVQLKSVGRGFNYG 231

Query: 248 NT--KLIESNILSLSYGNIIQK-LETRNMGLKPESYE-TYQIVDPGEIVFRFIDLQNDKR 303
           ++     E  +  L  GN+    L   N+    +  E    +++ G+++F   +      
Sbjct: 232 SSAKSKPEGEVPVLRMGNLQGGQLHWDNLVYTSDKEEIDKYLLEKGDVLFNRTNSPELVG 291

Query: 304 SLRSAQVMERGIITSAYMAVK-PHGIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFE 360
                +  ++ I     + +K    +D+ +L   + S       + + +    + ++  +
Sbjct: 292 KTSIYRGEQKAIYAGYLIRIKGSEHLDTEFLNIQLNSPHARDYCWQVKTDGVSQSNINAK 351

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            ++     +P I EQ +I   ++   +R D+   +   S   L     S +  A  GQ
Sbjct: 352 KLQAYEFDLPEIDEQLEIVRRVSELFSRADLFEYQYLASKKYLNRLTQSILVKAFNGQ 409



 Score = 72.1 bits (175), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 32/157 (20%), Positives = 71/157 (45%), Gaps = 8/157 (5%)

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
           R++  K     + +++  G ++F             +     +G  +  +       ++S
Sbjct: 61  RDLSPKGLDSSSAKLMPKGTLLFSSRAPIGYVAIAENEISTNQGFKSFIFT----DHVNS 116

Query: 331 TYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
           TY  + ++S  +  +  + GSG   + L     K+LP  + P+ EQ  I + ++   A++
Sbjct: 117 TYAYYYLKS--IKDLAESWGSGTTFKELSGAVAKKLPFRLAPLNEQIRIADKLDSILAKV 174

Query: 390 DVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
           D   E++++   +LK  R S +AAA +G++  R   +
Sbjct: 175 DHAQERLDKIPDILKRFRQSVLAAATSGELT-REWRE 210


>gi|291167081|gb|EFE29127.1| type I restriction enzyme StySJI specificity protein [Filifactor
           alocis ATCC 35896]
          Length = 465

 Score =  132 bits (333), Expect = 7e-29,   Method: Composition-based stats.
 Identities = 63/424 (14%), Positives = 139/424 (32%), Gaps = 32/424 (7%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESG--------KDIIYIGLEDVESGTGKYLPKDGNSR 71
            IP++W    +   ++   G T  S           I  I   +V+           +  
Sbjct: 27  QIPENWVWTRLGYVSEFERGITFPSSAKKRTLDENMIPCIRTANVQEELMINDLIYVDKS 86

Query: 72  QSDTSTVSIFAKGQILYGK------LGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ 125
            +  +      K  I+         +G       +            +   K     L  
Sbjct: 87  YTKNNKSKCLKKNDIIMSSANSKELVGKTCFVYQVPFPMTFGGFVLTIRAKKVSSEFLFY 146

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
              L       I    +   +++ + K +     P+PPL EQ  I E+I +   ++D   
Sbjct: 147 MLRLEFLSGNFIRESTQTTNIANINTKMLSKYSFPLPPLLEQQRIVERIESLFSKLDEAK 206

Query: 186 TERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN 245
            +    ++  + +K A++    +  L    +      E  G+  D WE +          
Sbjct: 207 EKIQMALDSFETRKSAILYQAFSGELTKKWR------EENGIRLDDWEKEELRERCHINP 260

Query: 246 RK------NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQ 299
           +K      +  +  + I   S  +++ ++    +    E  + Y   + G+++F  I   
Sbjct: 261 KKIATKELSDSIDITFIPMASVSDVLGQVSMPMIKKLGEYKKGYTNFNQGDVLFAKITPC 320

Query: 300 NDKRSLRSAQVMERGI---ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL--R 354
            +   +     +E  I    T  Y+        + ++  L+R     +    + SG   +
Sbjct: 321 MENGKIAIVGELENNIGFGSTEFYVFRCKENTYNRFIYHLLRWKKFREEARNVMSGAVGQ 380

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAA 414
           Q +    ++   +  P ++EQ +I  ++     +     E I   I  +   + S +A A
Sbjct: 381 QRVPKSFLEEYKLCFPSLEEQKEIVRILYTIFEKEQDTQELI-DLIEKIDLMKKSILARA 439

Query: 415 VTGQ 418
             G+
Sbjct: 440 FRGE 443



 Score = 93.7 bits (231), Expect = 5e-17,   Method: Composition-based stats.
 Identities = 34/227 (14%), Positives = 83/227 (36%), Gaps = 23/227 (10%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNR-------KNTKLIESNILSLSYGNIIQKLETRNMGL 275
           E    +P++W       +             K   L E+ I  +   N+ ++L   ++  
Sbjct: 23  EQPYQIPENWVWTRLGYVSEFERGITFPSSAKKRTLDENMIPCIRTANVQEELMINDLIY 82

Query: 276 KPESYETYQI---VDPGEIVFRFIDLQNDKR-SLRSAQVMERGIITSAYMAVKPHGIDST 331
             +SY        +   +I+    + +     +    QV          + ++   + S 
Sbjct: 83  VDKSYTKNNKSKCLKKNDIIMSSANSKELVGKTCFVYQVPFPMTFGGFVLTIRAKKVSSE 142

Query: 332 YLAWLMRSYDL--CKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
           +L +++R   L    +  +  +    ++  + + +    +PP+ EQ  I   I    +++
Sbjct: 143 FLFYMLRLEFLSGNFIRESTQTTNIANINTKMLSKYSFPLPPLLEQQRIVERIESLFSKL 202

Query: 390 DVLVEKIEQSIVLLKERRSSFIAAAVTGQ----------IDLRGESQ 426
           D   EKI+ ++   + R+S+ +  A +G+          I L    +
Sbjct: 203 DEAKEKIQMALDSFETRKSAILYQAFSGELTKKWREENGIRLDDWEK 249


>gi|197119930|ref|YP_002140357.1| type I restriction-modification system DNA specificity subunit
           [Geobacter bemidjiensis Bem]
 gi|197089290|gb|ACH40561.1| type I restriction-modification system DNA specificity subunit
           [Geobacter bemidjiensis Bem]
          Length = 395

 Score =  132 bits (333), Expect = 8e-29,   Method: Composition-based stats.
 Identities = 53/406 (13%), Positives = 127/406 (31%), Gaps = 26/406 (6%)

Query: 24  HWKVVPIKRFTKLNTGRTS--------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            W    +     +  G +         ++   I +I + D ++ +      +   R    
Sbjct: 4   GWVTKKLGEICDIERGGSPRPIDSFLTDAPDGINWIKIGDTKTISKYIFTTEQKIRPEGA 63

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL--SIDV 133
               +  +G  +      + R   I    G     +LVL+ K+        + +  S  V
Sbjct: 64  KRSRMVFEGDFILSNSMSFGRP-YIMKTTGCIHDGWLVLREKEPNVNQDYLYHVLSSDLV 122

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            ++ + +  G+T+ + +   +  + +PIP ++EQ  I   +     RI T      + ++
Sbjct: 123 YRQFDRLAAGSTVRNLNIGLVKGVEVPIPSISEQQRIVGILDEAFDRIATAKANAEKNLQ 182

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
             +   ++ +    T+            ++ +G + +H   K           KN   ++
Sbjct: 183 NARALFESHLQSTFTQRCAGWT------VKTIGDLAEHSLGKMLDKA------KNKGELQ 230

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
             + +++       L          +         G+++                  +  
Sbjct: 231 PYLRNINVRWFTFNLSDLLEMPFRTTEVGKYTAVKGDVLICEGGYPGRAAIWTEDYPVYF 290

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPI 372
                     +P    + +  + + + D         SG   Q    E + R  + + P+
Sbjct: 291 QKALHRVRFHEPEH--NKWFLYYLYAQDKSGELKKHFSGTGIQHFTGEALSRFKLPLAPL 348

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            E         V       L    ++ +  L+E + S +  A TGQ
Sbjct: 349 PELRRNVARFEVLLEETQRLESICQRKLTALEELKKSLLDRAFTGQ 394


>gi|288947723|ref|YP_003445106.1| restriction modification system DNA specificity domain protein
           [Allochromatium vinosum DSM 180]
 gi|288898239|gb|ADC64074.1| restriction modification system DNA specificity domain protein
           [Allochromatium vinosum DSM 180]
          Length = 448

 Score =  132 bits (333), Expect = 8e-29,   Method: Composition-based stats.
 Identities = 70/404 (17%), Positives = 139/404 (34%), Gaps = 23/404 (5%)

Query: 25  WKVVPIKRFTKLNTG-----RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           W+ VP+     +  G     +   + +    I + DV SG  K           D     
Sbjct: 25  WERVPLGDVCDILNGFPFKSQHFNNSEGAPVIRIRDVTSGFCK------TFYSGDIPVGY 78

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
                 ++ G  G +  + + +    + + +   L P +   +      +     + I  
Sbjct: 79  WVEPFDMVVGMDGDFNCR-LWSSERSLLNQRVCKLTPHEDFLDKKFLSYVLPAYLRLIND 137

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
                T+ H   K I  IP P+PPLAEQ  I  K+     R      E      L++  K
Sbjct: 138 HTHSITVKHLSSKTIAKIPFPLPPLAEQRRIVAKLDRLFERTRRAREELSHIPRLIENYK 197

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
           +A++       L  D + K  G+     V      K      +  + K+      ++  L
Sbjct: 198 KAILVAAFRGDLTKDWREKR-GLPMPKEVKLGEVAKKLSYGTSAKSSKS-----GDVPVL 251

Query: 260 SYGNIIQ-KLETRNMGLKPESYE-TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
             GNI   +++ +++    +  E     ++ G+++F   +           +     I  
Sbjct: 252 RMGNIQNMRIDWKDLVYTSDVEEIEKYSLNAGDVLFNRTNSPELVGKTAIYKGERPAIYA 311

Query: 318 SAYM-AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKE 374
              +     + +   YL + + S       + + S    + ++  + +     L+P   E
Sbjct: 312 GYLIKIKCGNRLVPEYLNYCLNSPLGRSYCWRVKSDGVSQSNINAKKLADFSFLLPTHDE 371

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           Q +I   I      +D LV +  Q+  LL     + +A A  G+
Sbjct: 372 QKEIVFRIEKTLDWLDSLVIEERQASHLLDHLDQANLAKAFRGE 415



 Score = 72.9 bits (177), Expect = 9e-11,   Method: Composition-based stats.
 Identities = 27/202 (13%), Positives = 67/202 (33%), Gaps = 15/202 (7%)

Query: 229 PDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDP 288
            +   +     ++     K+     S    +     +     +              V+P
Sbjct: 25  WERVPLGDVCDILNGFPFKSQHFNNSEGAPVIRIRDVTSGFCK--TFYSGDIPVGYWVEP 82

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI--DSTYLAWLMRSYDLCKVF 346
            ++V       N +         ER ++      + PH    D  +L++++      ++ 
Sbjct: 83  FDMVVGMDGDFNCR-----LWSSERSLLNQRVCKLTPHEDFLDKKFLSYVL--PAYLRLI 135

Query: 347 YAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
                    + L  + + ++P  +PP+ EQ  I   ++    R     E++     L++ 
Sbjct: 136 NDHTHSITVKHLSSKTIAKIPFPLPPLAEQRRIVAKLDRLFERTRRAREELSHIPRLIEN 195

Query: 406 RRSSFIAAAVTGQIDL-RGESQ 426
            + + + AA  G  DL +   +
Sbjct: 196 YKKAILVAAFRG--DLTKDWRE 215


>gi|307274412|ref|ZP_07555596.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX2134]
 gi|306508922|gb|EFM78008.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX2134]
          Length = 413

 Score =  132 bits (332), Expect = 9e-29,   Method: Composition-based stats.
 Identities = 52/407 (12%), Positives = 137/407 (33%), Gaps = 32/407 (7%)

Query: 23  KHWKVVPIKRFTKLNTGRTS---------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
           + W++  +    ++  G +          ++  D+ ++ + DV    G+    +    ++
Sbjct: 18  EDWELCKLGTLAEIVRGASPRPIQDSKWFDNTSDVGWLRISDVTEQNGRIYKLEQKLSKA 77

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
                 +  K  +L        +  +     G+     + L P   L +    +      
Sbjct: 78  GQEKTRVLRKPHLLLSIAATVGKPVVNYVNTGVHDGFLIFLNP---LFDREFMFQWLEMF 134

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
           T + +   +  +  + + + + N  + +P   EQ    EKI      +D  IT   R ++
Sbjct: 135 TPKWQKYGQPGSQLNLNSELVRNQELRMPSTNEQ----EKIGMLFKYLDDTITLHQRKLD 190

Query: 194 LLKEKKQALVSYIV---TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
            LK+ K+A +  +        N   K++ +  E    +    +V  +          N +
Sbjct: 191 QLKKLKKAYLHAMFVSMNTKKNKVPKLRFTDFEGDWELCKLGQVANYRRGSFPQPYGNKE 250

Query: 251 LIE-----SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
             +       +  +  G+ ++ +E     +   +      V  G++V             
Sbjct: 251 WYDGENSMPFVQVVDVGDNLRLVEDTKQKISELAQPKSVFVKEGKVVVTLQGSIGRVAIT 310

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRL 365
           +    ++R ++           +D  Y A++++             G  +++  E +   
Sbjct: 311 QYPAYVDRTLL---IFESYKAEMDEYYFAYVIQQL-FEYEKTRAPGGTIKTVTKEALSDF 366

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
            +  P I+EQ      +     ++D  +   +  +  L E + S++ 
Sbjct: 367 TISFPSIEEQKK----LGKFFEQLDDTITLHQNKLEQLNELKKSYLQ 409


>gi|329119169|ref|ZP_08247859.1| type I site-specific deoxyribonuclease [Neisseria bacilliformis
           ATCC BAA-1200]
 gi|327464728|gb|EGF11023.1| type I site-specific deoxyribonuclease [Neisseria bacilliformis
           ATCC BAA-1200]
          Length = 487

 Score =  132 bits (332), Expect = 1e-28,   Method: Composition-based stats.
 Identities = 68/433 (15%), Positives = 138/433 (31%), Gaps = 70/433 (16%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSES--------GKDIIYIGLEDVESGTGKYLPKDGNSR 71
            IP++W  V +    ++  G   ++         +   +I    + +G    L K G + 
Sbjct: 68  DIPENWVWVRLGDLAQVLNGDRGKNYPGKEFWVSEGKPFINAGSLNNG---ILDKSGFNY 124

Query: 72  QSDTSTVSIFA-----KGQILYGKLGPYLRKAIIADFD--GICSTQFLVLQPKDVLPELL 124
            SD    S+       K   LY   G   + ++  DFD   I S+  ++   +  L    
Sbjct: 125 ISD-DRYSLLRSGFIQKNDFLYCLRGSLGKFSLNKDFDEGVIGSSLCIIRTHQSSLIPFF 183

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
             +L +    + I+ +  G    +   + + N  +P+PPLAEQ  I EK+      ID L
Sbjct: 184 FYYLQTDLAQEDIKKVSNGTAQPNLSAENVRNFLIPLPPLAEQQAIAEKLTRLLAEIDRL 243

Query: 185 ITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGI---------------------- 222
             E      L K   Q L + ++   +  ++  + S                        
Sbjct: 244 KAEEQSLASLQKAYPQTLRASVLAAAIKGELTERSSENARDLLLRIQNEKQALQAKGSLK 303

Query: 223 -----------EWVGLVPDHWEVKPFFALVTELNRKN------TKLIESNILSLSYGNII 265
                      E    +P++W       ++ +                 +I   S  ++ 
Sbjct: 304 KTKAPAPVTADEVSFDIPENWVWVRLGDVILQNIGGGTPSKQEPSYWNGDIPWASVKDLN 363

Query: 266 QKLETRNMGLKPE---SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
             + T+ +           +  ++  G ++              +   ++  I       
Sbjct: 364 CDVLTKTIDSITAEGLENSSSNLIPKGTLIICTR----MGLGKIALAEIDVAINQDLRAI 419

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
             P  ++  Y     R+  +            + +  E++   P  +PP+ EQ  I   +
Sbjct: 420 FLPECLNKHYFYHFYRTLKMEGK-----GATVKGITVEELHNTPFPLPPLAEQQAIVEKL 474

Query: 383 NVETARIDVLVEK 395
           +   A ID L   
Sbjct: 475 SALLAEIDALENA 487



 Score =  101 bits (252), Expect = 2e-19,   Method: Composition-based stats.
 Identities = 41/211 (19%), Positives = 78/211 (36%), Gaps = 16/211 (7%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII------QKLETRNMGLK 276
           E    +P++W       L   LN    K        +S G                 G  
Sbjct: 64  EAPFDIPENWVWVRLGDLAQVLNGDRGKNYPGKEFWVSEGKPFINAGSLNNGILDKSGFN 123

Query: 277 PESYETYQIVDPGEIVFRF--IDLQNDKRSLRSAQVMERGII-TSAYMAVKPHGIDSTYL 333
             S + Y ++  G I        L+         +  + G+I +S  +          + 
Sbjct: 124 YISDDRYSLLRSGFIQKNDFLYCLRGSLGKFSLNKDFDEGVIGSSLCIIRTHQSSLIPFF 183

Query: 334 AWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            + +++    +    + +G  + +L  E+V+   + +PP+ EQ  I   +    A ID L
Sbjct: 184 FYYLQTDLAQEDIKKVSNGTAQPNLSAENVRNFLIPLPPLAEQQAIAEKLTRLLAEIDRL 243

Query: 393 VEKIEQSIVLLKE-----RRSSFIAAAVTGQ 418
             + EQS+  L++      R+S +AAA+ G+
Sbjct: 244 KAE-EQSLASLQKAYPQTLRASVLAAAIKGE 273


>gi|169634835|ref|YP_001708571.1| specificity determinant for hsdM and hsdR [Acinetobacter baumannii
           SDF]
 gi|169153627|emb|CAP02819.1| specificity determinant for hsdM and hsdR [Acinetobacter baumannii]
          Length = 386

 Score =  132 bits (332), Expect = 1e-28,   Method: Composition-based stats.
 Identities = 62/392 (15%), Positives = 147/392 (37%), Gaps = 31/392 (7%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           P  W +  I     L  GR  +S +     +  I ++++ +        + N    D   
Sbjct: 8   PPSWCIASIGEVCNLINGRAFKSTEWTDRGLPIIRIQNLNN-----PDANFNFFNGDLDN 62

Query: 78  VSIFAKGQILYGKLGPYL---RKAIIADFDGICSTQFL-VLQPKDVLPELLQGWLLSIDV 133
                KG +L+   G         I     G  +     ++    ++ +    + ++  +
Sbjct: 63  KHRVEKGDLLFAWSGTPGTSFGAHIWDGDIGALNQHIFKIVFNDSLIDKRFIRYAINQTL 122

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            + +     G  + H          +  PPL EQ +I +K+     ++ T      R + 
Sbjct: 123 DELVSGARGGVGLKHVTKGMFETTKIIFPPLYEQKIIADKLDTLLAQVATTKVRLERILN 182

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
           +LK  +Q+++S  V+  L  + + K+  + W+     +         V++ + +     +
Sbjct: 183 ILKTFRQSILSSAVSGKLTEEWR-KNKKLNWIKSTLAN-----ICRSVSDGDHQAPPRAD 236

Query: 254 SNILSLSYGNIIQKLETRNMG------LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
             I  L   NI +     +           ES +  +  +  +I++          +++S
Sbjct: 237 FGIPFLVISNISKGEIDFSSVNRWVPESYYESLKDIRKPEINDILYTVTGSFGIPVTVKS 296

Query: 308 AQVMERGIITSAYMAVKPHG--IDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKR 364
                          +KP+   +D  YL + + S ++ K   ++ +G  ++++    ++ 
Sbjct: 297 ---TTPFCFQRHIAIIKPNHSSVDYKYLFYYLASPEVFKHATSIATGTAQKTVSLSHLRN 353

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
             +L+PPI+EQ +I + +    A  D + +K+
Sbjct: 354 FNILLPPIEEQTEIVHRVEELLAFADGIEKKL 385



 Score = 82.5 bits (202), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 28/183 (15%), Positives = 70/183 (38%), Gaps = 5/183 (2%)

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID 297
             L+     K+T+  +  +  +   N+       N        +    V+ G+++F +  
Sbjct: 20  CNLINGRAFKSTEWTDRGLPIIRIQNLNNPDANFN--FFNGDLDNKHRVEKGDLLFAWSG 77

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKPHG--IDSTYLAWLMRSYDLCKVFYAMGSGLRQ 355
                         + G +      +  +   ID  ++ + +       V  A G    +
Sbjct: 78  TPGTSFG-AHIWDGDIGALNQHIFKIVFNDSLIDKRFIRYAINQTLDELVSGARGGVGLK 136

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            +     +   ++ PP+ EQ  I + ++   A++     ++E+ + +LK  R S +++AV
Sbjct: 137 HVTKGMFETTKIIFPPLYEQKIIADKLDTLLAQVATTKVRLERILNILKTFRQSILSSAV 196

Query: 416 TGQ 418
           +G+
Sbjct: 197 SGK 199


>gi|257060103|ref|YP_003137991.1| restriction modification system DNA specificity domain protein
           [Cyanothece sp. PCC 8802]
 gi|256590269|gb|ACV01156.1| restriction modification system DNA specificity domain protein
           [Cyanothece sp. PCC 8802]
          Length = 433

 Score =  132 bits (331), Expect = 1e-28,   Method: Composition-based stats.
 Identities = 57/417 (13%), Positives = 140/417 (33%), Gaps = 29/417 (6%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDI-----IYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           W  V +    ++  G+       +      ++  +++          D    +       
Sbjct: 12  WSFVRVDEIFEIQQGKQVSQKNRVGDNQKPFLRTKNILWNRLDLTDLDTMHFKPTDERRL 71

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ-----GWLLSIDVT 134
               G +L  + G   R AI  +    C  Q  + + + +  +         +  + + +
Sbjct: 72  KLKSGDLLLCEGGSVGRTAIWQEDIEECYYQNHLHRLRVINNKCSYQFALYWFWYAFEYS 131

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
                     T+ +     +  +P+P+PP+ EQ  I   +      I   I E+   I L
Sbjct: 132 SFYSGRKNITTIPNLSRSRLAELPIPLPPIEEQRKIASVL----TLIQETIQEQENAIAL 187

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
             E K+AL+  + T+G+N +   K + I  +    +   ++  F +      K       
Sbjct: 188 TTELKKALMQKLFTEGIN-NEPQKMTEIGLIPESWEVLPLRKMFKIKHGYAFKGEYFTSE 246

Query: 255 NILSLSYGNIIQ-----KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
               L            + +               ++   +++    + ++      +  
Sbjct: 247 GKFILMTPGHFNEDGGFRDQQDKTKYYIGEVPNDYLLKKDDLLVAMTEQKSGLLGSSAFV 306

Query: 310 VMERGIITSAYMAVKPH----GIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKR 364
                 + +  + +        +D  +L  L     + K      +G   +    + +  
Sbjct: 307 PESNKYLHNQRLGLIEELDESYLDKKFLFHLFNYEYVRKEISQTATGSKVKHTSPDKILN 366

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           + V +P + EQ DI  +++    +I+++V K +Q    L++  S+ +   +T QI +
Sbjct: 367 VMVGLPNLNEQKDIIFLLDEFDIKINIIVLKKQQ----LQDLFSTLLHQLMTAQIRV 419



 Score = 53.6 bits (127), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 34/201 (16%), Positives = 72/201 (35%), Gaps = 14/201 (6%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESG---KDIIYIGLEDV---ESGTGKYLPKDGNSR 71
           IG IP+ W+V+P+++  K+  G   +      +  +I +      E G  +         
Sbjct: 214 IGLIPESWEVLPLRKMFKIKHGYAFKGEYFTSEGKFILMTPGHFNEDGGFRDQQDKTKYY 273

Query: 72  QSDTSTVSIFAKGQILYG----KLGPYLRKAIIADFDGICSTQ----FLVLQPKDVLPEL 123
             +     +  K  +L      K G     A + + +     Q       L    +  + 
Sbjct: 274 IGEVPNDYLLKKDDLLVAMTEQKSGLLGSSAFVPESNKYLHNQRLGLIEELDESYLDKKF 333

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           L        V + I     G+ + H     I N+ + +P L EQ  I   +    ++I+ 
Sbjct: 334 LFHLFNYEYVRKEISQTATGSKVKHTSPDKILNVMVGLPNLNEQKDIIFLLDEFDIKINI 393

Query: 184 LITERIRFIELLKEKKQALVS 204
           ++ ++ +  +L       L++
Sbjct: 394 IVLKKQQLQDLFSTLLHQLMT 414


>gi|52082594|ref|YP_081385.1| hypothetical protein BL02387 [Bacillus licheniformis ATCC 14580]
 gi|52787992|ref|YP_093821.1| hypothetical protein BLi04316 [Bacillus licheniformis ATCC 14580]
 gi|52005805|gb|AAU25747.1| HsdS [Bacillus licheniformis ATCC 14580]
 gi|52350494|gb|AAU43128.1| putative protein [Bacillus licheniformis ATCC 14580]
          Length = 387

 Score =  132 bits (331), Expect = 1e-28,   Method: Composition-based stats.
 Identities = 53/399 (13%), Positives = 133/399 (33%), Gaps = 22/399 (5%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+   +     +  G++              + +G  ++  K    +Q  +    +   G
Sbjct: 9   WENGNLSDIADITMGQSPPGNSYNDIKDGIGLINGPTEFTNKYPVVKQWTSKPTKLCKAG 68

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            IL    G    +  IAD +         ++ K    E    +        ++     G+
Sbjct: 69  DILLCVRGSSTGRMNIADDEYCIGRGVASIRAKKDKAETSFIYYTLNYKVNQLLQKTAGS 128

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
           T  +     I ++ + IP  AEQ  I   +      I+       +  E  K   Q L++
Sbjct: 129 TFPNLSSNEIKDMIVGIPLFAEQQKIASILSTWDKAIELKEKLIEQKKEQKKGLMQKLLT 188

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
             V      D   K    E +                 ++  KN +L +   + L+   +
Sbjct: 189 GKVRLPGFSDKWEKKKIGELLEES--------------KVIAKNPQLDKRITVRLNLKGV 234

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
            ++       ++ E   T  I   G+ ++   +L      L   ++      +       
Sbjct: 235 CKR---EISTVEKEGATTQYIRKEGQFIYGKQNLHKGAFGLIPKELDGFQSSSDIPCFDF 291

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
             G+D  +  +             + SG   + ++ +++ +L + +P ++EQ   + ++ 
Sbjct: 292 KEGVDGLWFYYYFSRESFYTNLENISSGTGSKRIQPKELYKLTIKLPSLREQQRQSKILE 351

Query: 384 VETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
                    +  +E+ +   ++++   +   +TG++ ++
Sbjct: 352 CSDKE----IYLLEKELETYRKQKQGLMQLLLTGKVRVK 386



 Score = 93.3 bits (230), Expect = 6e-17,   Method: Composition-based stats.
 Identities = 26/168 (15%), Positives = 61/168 (36%), Gaps = 7/168 (4%)

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
           +   N   +   +   +K  + +  ++   G+I+         + ++      E  I   
Sbjct: 38  IGLINGPTEFTNKYPVVKQWTSKPTKLCKAGDILLCVRGSSTGRMNIA---DDEYCIGRG 94

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
                       T   +   +Y + ++          +L   ++K + V +P   EQ  I
Sbjct: 95  VASIRAKKDKAETSFIYYTLNYKVNQLLQKTAGSTFPNLSSNEIKDMIVGIPLFAEQQKI 154

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
            ++++      D  +E  E+ I   KE++   +   +TG++ L G S 
Sbjct: 155 ASILSTW----DKAIELKEKLIEQKKEQKKGLMQKLLTGKVRLPGFSD 198


>gi|317486937|ref|ZP_07945747.1| type I restriction modification DNA specificity domain-containing
           protein [Bilophila wadsworthia 3_1_6]
 gi|316921812|gb|EFV43088.1| type I restriction modification DNA specificity domain-containing
           protein [Bilophila wadsworthia 3_1_6]
          Length = 450

 Score =  132 bits (331), Expect = 1e-28,   Method: Composition-based stats.
 Identities = 62/428 (14%), Positives = 148/428 (34%), Gaps = 27/428 (6%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYL 64
           + YP            +P+ WK V + +  ++N    ++      ++ +E +E G     
Sbjct: 29  QPYP------------LPEGWKWVRLGKLYQINPRIIADDNTMSSFVPMEKIEPGMKGTF 76

Query: 65  PKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKA------IIADFDGICSTQFLVLQPKD 118
             +           + FA G + + K+ P            + +  G  +T+ ++L+   
Sbjct: 77  TFEILPWGKAKKGHTQFADGDVAFAKISPCFENGKSMLVRGLKNGIGAGTTELIILRQPS 136

Query: 119 VLPELLQGWLLSIDVTQRIEAICEGA-TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
           VL +     + S D  Q+      G           + N P+P+PP+  Q  I + I + 
Sbjct: 137 VLQKYTFYIICSSDFIQKGTHTYSGTVGQQRISMDFVRNYPVPLPPVDVQQRIVDCIESL 196

Query: 178 TVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKM--KDSGIEWVGLVPDHWEVK 235
             ++D    +     +  + +K A++    T  L    +     S   W          +
Sbjct: 197 FAKLDEAREKAEAVFDGFESRKAAILHKAFTGELTEKWRKEKNISLESWDSCRLISVLKE 256

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRF 295
                 +    +    ++S  LS +     +    + +  +     ++  +  G+I+ + 
Sbjct: 257 KPRNGYSPKPVECKTNVKSMTLSATTSGFFRPEFFKYID-EEIPENSHLWLSQGDILIQR 315

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMA--VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL 353
            +      +       +   I    +            Y+A+++ +      F +  +G 
Sbjct: 316 ANSLEKVGTSAIYTGGDHEFIYPDLIMKLQVRAPHSYKYIAYILSTQPTLSYFRSKATGT 375

Query: 354 ---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
                 +  + V   P++VP  +EQ +I  +++   A+     +  E  +  +   + S 
Sbjct: 376 AGNMPKINQQIVSNTPIVVPSCEEQNEIVRILDGLLAKDQQARDAAESVLERIDLMKKSI 435

Query: 411 IAAAVTGQ 418
           +A A  G+
Sbjct: 436 LAKAFRGE 443



 Score = 87.9 bits (216), Expect = 3e-15,   Method: Composition-based stats.
 Identities = 38/220 (17%), Positives = 81/220 (36%), Gaps = 6/220 (2%)

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES--NILSLSYG 262
                 L PD  ++    E    +P+ W+      L     R           +      
Sbjct: 10  KAQGTLLTPDEVVEIPVEEQPYPLPEGWKWVRLGKLYQINPRIIADDNTMSSFVPMEKIE 69

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII--TSAY 320
             ++   T  +    ++ + +     G++ F  I    +       + ++ GI   T+  
Sbjct: 70  PGMKGTFTFEILPWGKAKKGHTQFADGDVAFAKISPCFENGKSMLVRGLKNGIGAGTTEL 129

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDI 378
           + ++   +   Y  +++ S D  +      SG   +Q +  + V+  PV +PP+  Q  I
Sbjct: 130 IILRQPSVLQKYTFYIICSSDFIQKGTHTYSGTVGQQRISMDFVRNYPVPLPPVDVQQRI 189

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            + I    A++D   EK E      + R+++ +  A TG+
Sbjct: 190 VDCIESLFAKLDEAREKAEAVFDGFESRKAAILHKAFTGE 229


>gi|330999089|ref|ZP_08322812.1| type I restriction modification DNA specificity domain protein
           [Parasutterella excrementihominis YIT 11859]
 gi|329575610|gb|EGG57144.1| type I restriction modification DNA specificity domain protein
           [Parasutterella excrementihominis YIT 11859]
          Length = 429

 Score =  131 bits (330), Expect = 2e-28,   Method: Composition-based stats.
 Identities = 89/407 (21%), Positives = 151/407 (37%), Gaps = 33/407 (8%)

Query: 14  GVQWIG--------AIPKHWKVVPIKRFTKLNTGRTSES---GKDIIYIGLEDVESGTGK 62
            V+ IG         IPK WK V +            E+    +D   + LED+E  TG+
Sbjct: 29  EVEQIGKAPKENPFEIPKKWKWVRLDDIAPYGKCERIEACSFDRDTWLLNLEDIEKDTGR 88

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPE 122
            L K+   +        +F KG +LY +L PYL K ++AD DG+C+T+ + L+PK+    
Sbjct: 89  LLQKNKIIKNQG--AKYLFNKGDVLYSRLRPYLNKVLVADEDGVCTTEIIPLKPKENTLS 146

Query: 123 LLQ--GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
                 +L S    Q   +   G  M         N  + +PPL EQ  I EK+ +   +
Sbjct: 147 GSYLSFFLKSQYFVQYAVSQSYGVKMPRVGTATAKNALVALPPLDEQKRIVEKLESLFAK 206

Query: 181 IDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVG--------LVPDHW 232
           IDT+        +L    ++ L+   ++  L P +  ++  +E +G         +P+ W
Sbjct: 207 IDTIQKSIDEVSQLGASLEKQLLQSSISGKLVPQLD-EELEVEQIGDAPEEVPFEIPEKW 265

Query: 233 EVKPFFALVTELNRKNTKLIE------SNILSLSYGNIIQKLETRNMGLKPESYETYQIV 286
           +     +L T  + K  K  E           +S  N  +  +              +I 
Sbjct: 266 KWVRLESLGTLFSGKTPKADELTSSGNIPYFKISDMNSSENQKYMRHTEHYLKTTPKKIF 325

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF 346
             G I+F            R         + +       + +D +Y   L+ S D  ++ 
Sbjct: 326 KAGSIIFPKNGGAVFTNKRRFLVRDSIVDLNTGGFYPNKNYLDESYAFLLLSSIDFREI- 384

Query: 347 YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
                    ++    +K   V +PP+ EQ  I          I  L 
Sbjct: 385 --SKGTALPTIDSSKLKSYLVPLPPLGEQRRIVEKFEKLMLEIQKLK 429



 Score = 76.0 bits (185), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 31/231 (13%), Positives = 80/231 (34%), Gaps = 19/231 (8%)

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
           L+   +   L P +   ++ +E +G  P     +                 +   +    
Sbjct: 11  LLDLAIRGKLVPQID-GENEVEQIGKAPKENPFEIPKKWKWVRLDDIAPYGKCERIEACS 69

Query: 262 GNIIQKLETRN-----------MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
            +    L                    ++     + + G++++  +    +K  +     
Sbjct: 70  FDRDTWLLNLEDIEKDTGRLLQKNKIIKNQGAKYLFNKGDVLYSRLRPYLNKVLVA---- 125

Query: 311 MERGIITSAYMAVKPHGI--DSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPV 367
            E G+ T+  + +KP       +YL++ ++S    +   +   G+    +     K   V
Sbjct: 126 DEDGVCTTEIIPLKPKENTLSGSYLSFFLKSQYFVQYAVSQSYGVKMPRVGTATAKNALV 185

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            +PP+ EQ  I   +    A+ID + + I++   L        + ++++G+
Sbjct: 186 ALPPLDEQKRIVEKLESLFAKIDTIQKSIDEVSQLGASLEKQLLQSSISGK 236


>gi|209523412|ref|ZP_03271967.1| restriction modification system DNA specificity domain [Arthrospira
           maxima CS-328]
 gi|209496154|gb|EDZ96454.1| restriction modification system DNA specificity domain [Arthrospira
           maxima CS-328]
          Length = 407

 Score =  131 bits (330), Expect = 2e-28,   Method: Composition-based stats.
 Identities = 53/411 (12%), Positives = 126/411 (30%), Gaps = 31/411 (7%)

Query: 23  KHWKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVE---SGTGKYLPKDGNSRQSDT 75
           K W +V ++   K+ + +           I +   ++++   +G         +    + 
Sbjct: 2   KGWDIVALEDLGKITSSKRIFKKDYVDSGIPFYRTKEIKELANGKEVSTELFISRDSFNE 61

Query: 76  STVSIFAK--GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
                     G +L   +G      ++   D       ++        E        I  
Sbjct: 62  IKAKFGTPSVGDLLITAIGTVGEIYVVDRTDFYFKDGNVLWLRDFKAIEPNFLKYALIAF 121

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
              I ++  G+T      + +    +  P ++EQ  I   +      ID  I    + + 
Sbjct: 122 VDEINSLSHGSTYKALPIEKLKKHKIYKPSISEQKRIVAILDEAFEGIDAAIANTQKNLA 181

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
             +E  ++ ++ I T+  +  V+ K   I                    E    +    E
Sbjct: 182 NARELFESYLNGIFTRKGDGWVEKKLGEI----------------CHKVEYGSSSKSQPE 225

Query: 254 SNILSLSYGNIIQKLETRN--MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
            +I  +  GNI   +      +           ++   +++F   +  +        +  
Sbjct: 226 GDIPVIRMGNIQNNMIDWTDLVYTSNPDEINRYLLQYNDVLFNRTNSADHVGKSAIYKGE 285

Query: 312 ERGIITSAYMAVKPHGI--DSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPV 367
           +  I     + V       D  +L + +  Y   +   ++ S    + ++    +K  P+
Sbjct: 286 KPAIFAGYLIRVHYKKDVIDPDFLNFYLNCYKTREYGKSVMSRSVNQVNINGTKLKNYPI 345

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
             P +  Q  I   +         L     + +  L+E + S +  A TG+
Sbjct: 346 YHPDLYTQKQIIKKLYFLFRETQRLETIYRRKLEALQELKQSILQKAFTGE 396


>gi|48477149|ref|YP_022855.1| type I restriction-modification system specificity subunit
           [Picrophilus torridus DSM 9790]
 gi|48429797|gb|AAT42662.1| type I restriction-modification system specificity subunit
           [Picrophilus torridus DSM 9790]
          Length = 441

 Score =  131 bits (330), Expect = 2e-28,   Method: Composition-based stats.
 Identities = 54/438 (12%), Positives = 130/438 (29%), Gaps = 36/438 (8%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK--------DIIYIGLEDVESGTG 61
           +KD+    IG IP+ W++  +   ++L  G +    +          I++ L  ++   G
Sbjct: 11  FKDTA---IGRIPREWEIKRLNEISELQRGLSYSGKEKSINKIQDGYIFLTLNSIKEDGG 67

Query: 62  KYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKA-------------IIADFDGICS 108
                    +           +G I+       +++                     + S
Sbjct: 68  LKSDGWSWIKSDRLKERHFVREGDIVIANTDIGMQRGHILGVPAIVRFPEWYKKEKAVYS 127

Query: 109 TQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGI-GNIPMPIPPLAEQ 167
                L  K    ++   +       Q       G  + H +      ++ +P+PPL EQ
Sbjct: 128 MDLSKLNLKISSCDITFLFYYLSFTQQLARKYHTGTGVWHLNLDSWAKDLFLPLPPLEEQ 187

Query: 168 VLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGL 227
             I + +     +I+ +  E     +L       L +  +      D ++     EW   
Sbjct: 188 KKIADILSTADEKINLIDKEIQLTEKLKNGIMHKLFTEGIGHTEFKDTEIGRIPKEWEIK 247

Query: 228 VPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE---SYETYQ 284
                 +K         N  +      +   +       K       L  +         
Sbjct: 248 KLKDVVIKAKSGGTPRRNVADYWNGSISFAKIEDITKSNKYLHVTKELISKKGLENSNAW 307

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCK 344
           I+    ++             +      + I+      +    I      +    Y    
Sbjct: 308 IIPSNSLLLAIYGSLGLVAINKIDVATNQAIVG----IIVDDKIIYKEFLYYWYLYYKPY 363

Query: 345 VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLK 404
               +  G + +L    +    + +PP  EQ  I ++++    ++++L  K +     L+
Sbjct: 364 WSRFIKKGTQPNLTLGIILDSIIPLPPFDEQKRIADILSTADEKLELLNLKKQN----LE 419

Query: 405 ERRSSFIAAAVTGQIDLR 422
             +   +   +TG++ ++
Sbjct: 420 NLKKGLMDDLLTGRVRVK 437


>gi|257465994|ref|ZP_05630305.1| restriction modification system DNA specificity domain protein
           [Fusobacterium gonidiaformans ATCC 25563]
 gi|315917150|ref|ZP_07913390.1| type I restriction-modification system specificity subunit
           [Fusobacterium gonidiaformans ATCC 25563]
 gi|313691025|gb|EFS27860.1| type I restriction-modification system specificity subunit
           [Fusobacterium gonidiaformans ATCC 25563]
          Length = 495

 Score =  131 bits (330), Expect = 2e-28,   Method: Composition-based stats.
 Identities = 67/455 (14%), Positives = 145/455 (31%), Gaps = 64/455 (14%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            IP  W  V +    ++N G++   GK++ +     +  G      +  + ++       
Sbjct: 26  EIPDSWVWVRLGSICEINMGQSPL-GKNVNFEKGIGLIGGPSDMGEQYPDIKRYTIQATK 84

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           +     I+   +   L KAI +D           ++ K + P LL+ + +   +T  +  
Sbjct: 85  LSTLDDIIVS-IRATLGKAIFSDGKYCLGRGVCAIKSKSINPVLLKYYFM--YITDYLYQ 141

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
           I  G T +    + + N+      L+ Q  I +K+     +            E ++ +K
Sbjct: 142 IATGTTFAQISKEDVYNLKFAFSSLSAQQRIVKKLDFLFEKTKKAKKLLQEVKEEIEMRK 201

Query: 200 QALVSYIVTKGLNPDVK------------------------------------------- 216
            ++++      L  + +                                           
Sbjct: 202 ISILNKAFRGELTKNWREENKTGSVLDLLQEIQNEKMKKWEEECREAEKNGSKKPKKIKL 261

Query: 217 -----MKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL-----IESNILSLSYGNIIQ 266
                M     E    +PD W+      +        T           +      N   
Sbjct: 262 SKIEEMIVPKEEEPYKIPDTWKWVRLREVTENNQYGYTSKSTLEGKIKYLRITDIQNENV 321

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
             +T    ++  +  +   +   +IV         K   R  ++ +  +  S  + ++  
Sbjct: 322 DWDTVPYIVEENNNISQFFLRKNDIVIARTGSTTGKSY-RIDKIEDVAVFASYLIRIRVI 380

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
            I+S YL     S         + SG  +  +  + ++ L   +PP++EQ +I  V+   
Sbjct: 381 KINSEYLLRFTHSNVYWNQIIELSSGIAQPGVNAQKLENLYFPLPPLEEQQEIVRVLEEV 440

Query: 386 TARIDVLVEKI--EQSIVLLKERRSSFIAAAVTGQ 418
             +   + E I  E+ I LL+    S +  A  G+
Sbjct: 441 LEKEKKVKELIDLEEQIELLE---KSILDKAFRGK 472



 Score = 67.9 bits (164), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 24/201 (11%), Positives = 61/201 (30%), Gaps = 9/201 (4%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI-LSLSYGNIIQKLETRNMGLKPE 278
           S  E    +PD W      ++      ++      N    +        +  +   +K  
Sbjct: 19  SKEEQPYEIPDSWVWVRLGSICEINMGQSPLGKNVNFEKGIGLIGGPSDMGEQYPDIKRY 78

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
           + +  ++    +I+                    +  +     A+K   I+   L +   
Sbjct: 79  TIQATKLSTLDDIIVSIRATLGKAIF-----SDGKYCLGRGVCAIKSKSINPVLLKYYF- 132

Query: 339 SYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
              +    Y + +G     +  EDV  L      +  Q  I   ++    +     + ++
Sbjct: 133 -MYITDYLYQIATGTTFAQISKEDVYNLKFAFSSLSAQQRIVKKLDFLFEKTKKAKKLLQ 191

Query: 398 QSIVLLKERRSSFIAAAVTGQ 418
           +    ++ R+ S +  A  G+
Sbjct: 192 EVKEEIEMRKISILNKAFRGE 212


>gi|237731956|ref|ZP_04562437.1| predicted protein [Citrobacter sp. 30_2]
 gi|226907495|gb|EEH93413.1| predicted protein [Citrobacter sp. 30_2]
          Length = 394

 Score =  131 bits (330), Expect = 2e-28,   Method: Composition-based stats.
 Identities = 60/420 (14%), Positives = 135/420 (32%), Gaps = 45/420 (10%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           +PK W +  +        G    S       I  + + ++   +            S   
Sbjct: 2   VPKGWTLGTLNDLADTIMGYAFRSEDFVPTGIPLLRMGNLYQNSLDLNRNPVYLPDSFKV 61

Query: 77  TVS--IFAKGQILYGKLGPYLRKAIIADFDGICSTQFL--------VLQPKDVLPELLQG 126
                +   G ++    G   ++      +   +TQ+         ++   +     +  
Sbjct: 62  DYKRFLVKPGDLVMSMTGTMGKRDYGFTVEIPSNTQYSLLNQRVLKIVPKNNSSSGYILN 121

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
            L S  +   + +   G   ++   K +  +P+ IPPLAEQ  I E +       D  I+
Sbjct: 122 LLRSELILSVLYSFPGGTKQANLSAKQVQELPVFIPPLAEQKKIGEIL----SIWDKAIS 177

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
                +   +++K+AL+  ++T             ++  G+  +    K   + V ++ +
Sbjct: 178 VTENLLTNSQQQKKALMQQLLTGN--------KRLLDENGVRFNGKWEKKHLSDVADVYQ 229

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
             T        S         +         E+          +I               
Sbjct: 230 PKTISQSMMSDSGYPVYGANGVIGFYQEFNHETE---------QIAVTCRGST----CGI 276

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLP 366
                 +  IT   M +           +L  + +   + Y +    +  +   ++K   
Sbjct: 277 VNWTQAKSWITGNAMVINTDNYSYVSKKFLFYTLNGSDLKYLISGSGQPQIT-GNIKTHI 335

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR-GES 425
           + +P I+EQ  I  V++   A I  L    E+ I  LK+ + + +   +TG+  ++  E+
Sbjct: 336 INLPCIEEQQKIATVLSAADAEISTL----EKKIACLKDEKKALMQQLLTGKRRVKVDEA 391


>gi|323439266|gb|EGA96992.1| hypothetical protein SAO11_1944 [Staphylococcus aureus O11]
 gi|323442204|gb|EGA99836.1| hypothetical protein SAO46_1906 [Staphylococcus aureus O46]
          Length = 417

 Score =  131 bits (330), Expect = 2e-28,   Method: Composition-based stats.
 Identities = 53/404 (13%), Positives = 126/404 (31%), Gaps = 23/404 (5%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            W+   +    ++ +G T            +I ++   D+ +    +  +       ++ 
Sbjct: 20  EWEEKKLGEIFQIISGSTPLKSNKKFYENGNINWVKTTDLNNSKVTHSKEKITEYAMNSL 79

Query: 77  TVSIFAKGQILYGKLGPY--LRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
            + +  K  +L    G +  + +  +   D   +     L              L+  V 
Sbjct: 80  KLKLVPKNSVLIAMYGGFNQIGRTGLLKIDATINQAISALLMNHETNPEFIQAYLNYQVK 139

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
                        +   K I    +P   + EQ  I E       +I+    +     + 
Sbjct: 140 GWKRYAASSRKDPNITKKDIEQFKVPYVSINEQQKIGEFFSKLDRQIELEEQKLELLQQQ 199

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
            K   Q + S  +           +   + +G +   +      A       K     + 
Sbjct: 200 KKGYMQKIFSQELRFKDENGEDYPEWEEKQLGELGVTYAGLSGKAKEDFGFGK-----DV 254

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM--E 312
            +  ++              +  +  E    V  G+I+F        +  + S  +   +
Sbjct: 255 YVSYVNVFKNNIATLEMVENVSIKPGEKQNNVKFGDILFTTSSEVPHEVGMSSVWLYEKD 314

Query: 313 RGIITSAYM--AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLV 369
              + S           I+  +LA  +RS+++ K+   +  G  R ++  +++ +L V +
Sbjct: 315 NVYLNSFCFGFRTTVSFINPIFLARYLRSFEMRKLITILAQGSTRFNISKKELMKLIVKI 374

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           P + EQ  I N      + +D  +E     +  LK+R+   +  
Sbjct: 375 PRLDEQNRIIN----LFSILDGGIELQSMKVRKLKKRKQGLLQK 414


>gi|323526111|ref|YP_004228264.1| restriction modification system DNA specificity domain-containing
           protein [Burkholderia sp. CCGE1001]
 gi|323383113|gb|ADX55204.1| restriction modification system DNA specificity domain protein
           [Burkholderia sp. CCGE1001]
          Length = 443

 Score =  131 bits (330), Expect = 2e-28,   Method: Composition-based stats.
 Identities = 82/411 (19%), Positives = 155/411 (37%), Gaps = 25/411 (6%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGK---DIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +PK W    +       T   +E  +   D   + LED+E    + + +   + +   ST
Sbjct: 4   LPKGWLETTLGEVVDYGTTLKAEPDEISDDEWVLELEDIEKDKSRIVSRLTFADRKSKST 63

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFL-VLQPKDVLPELLQGWLLSIDVTQR 136
            + F+KG +LYGKL PYL K ++AD +G+C+T+ + + Q   V    +  WL        
Sbjct: 64  KNRFSKGDVLYGKLRPYLNKVVLADSNGLCTTEIIPIKQTAAVDNRYVFHWLRGPRFLSY 123

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
              +  G  M         + P  +PPLAEQ  I +K+ +   R++       R   +L 
Sbjct: 124 AIGVSHGLNMPRLGTDAGRSAPFILPPLAEQKRIADKLDSVLSRVEAACARMGRVPTILT 183

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
             ++A    +V   L  D   K +     G              +        +  ++  
Sbjct: 184 RLRRA---ALVATLLGQDGDAKPTPRIAFG---------SLINSIRGGTTAVPQSDKTAY 231

Query: 257 LSLSYGNIIQKLETRNMGLKPESY---ETYQIVDPGEIVFRF----IDLQNDKRSLRSAQ 309
             L   ++ Q            S    E    +   +++F      ++   +   + S  
Sbjct: 232 PILRSSSVRQGRIDFEDVRYLTSEQSGEEKNFIRENDVLFTRLNGNVNYVGNCAVVPSVS 291

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF--YAMGSGLRQSLKFEDVKRLPV 367
           + +       Y A     I   Y A+     D+ K     A  S   + +  +D+K + +
Sbjct: 292 LNKYQYPDRLYCARLKETIVPKYCAYAFALPDIRKEIERRAKSSAGHKRISIQDIKEMEI 351

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            +PP+ EQ  + N I    A  D L + ++++ ++      + +A A  G+
Sbjct: 352 PLPPVAEQLRMVNQIERIFATCDRLEKTLDEAKIVADHLTPALLAKAFRGE 402


>gi|228288745|ref|YP_002841997.1| restriction modification system DNA specificity domain protein
           [Sulfolobus islandicus Y.N.15.51]
 gi|228014315|gb|ACP50075.1| restriction modification system DNA specificity domain protein
           [Sulfolobus islandicus Y.N.15.51]
          Length = 576

 Score =  131 bits (329), Expect = 2e-28,   Method: Composition-based stats.
 Identities = 67/423 (15%), Positives = 139/423 (32%), Gaps = 27/423 (6%)

Query: 18  IGAIPKHWKVVPIKR-FTKLNTGRTSESG------KDIIYIGLEDV--ESGTGKYLPKDG 68
           IG  PK W V  +K    K  +G T           +I +  ++D+           +  
Sbjct: 11  IGEFPKDWDVRKLKDVIIKAKSGGTPRRNVPEYWNGNIPFAKIQDITKSGKYLYNTEEFI 70

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL 128
             +  + S   I  K  +L    G  L    I       +   + + P   + +    + 
Sbjct: 71  TEKGLENSNAWIVPKDSLLLTIYGS-LGFVAINKIPVATNQAIIGIIPNKNIIDTEFLYY 129

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
             +          +  T  +   + + N  +PI PL EQ  I E +   T    TL    
Sbjct: 130 WYLYFKPYWSKFIKKGTQPNLTLEIVLNSSVPILPLEEQKKIVELLQKATDIYYTLKDYI 189

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN 248
           I+     +   + +   ++TKG+     +       +G  P  WEV+    +    +  +
Sbjct: 190 IQIRNSTETITKVIRKELLTKGIGHRDYV----ETDIGEFPKDWEVRRLNEIAIIRSGFS 245

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGL-------KPESYETYQIVDPGEIVFRFIDLQND 301
            +  + N   +         ET  +         +    E Y +     ++       + 
Sbjct: 246 ERKRDENSKVIHLRPDNIDNETDRIVFHRIVYIPESPKIERYLLRHLDIVLVNTNGSIDH 305

Query: 302 KRSLRSAQVMERGIITSA----YMAVKPHGIDSTYLAWLMRSYDLCKVFYA--MGSGLRQ 355
              L    +     IT +     + +    ++  Y+ +L+  Y L   F         + 
Sbjct: 306 IGKLGIIDMPLNQKITFSNHLTAIRIVSKDVEPYYIYYLLSWYHLNGSFKKVVKNQAGKW 365

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           +L  + ++ L + +PP++EQ  I  ++      I    + ++           S +  A+
Sbjct: 366 NLNLDTIRNLLIPLPPLEEQKKIVELLQKVDELIIRFNDFLQNLEDEANTLYKSILRLAL 425

Query: 416 TGQ 418
           TG+
Sbjct: 426 TGK 428


>gi|93005779|ref|YP_580216.1| restriction modification system DNA specificity subunit
           [Psychrobacter cryohalolentis K5]
 gi|92393457|gb|ABE74732.1| restriction modification system DNA specificity domain
           [Psychrobacter cryohalolentis K5]
          Length = 419

 Score =  131 bits (329), Expect = 2e-28,   Method: Composition-based stats.
 Identities = 79/441 (17%), Positives = 153/441 (34%), Gaps = 43/441 (9%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT 60
           M   K    YK +    IG IP+ W+V  I     +  G+  +            VES  
Sbjct: 1   MNEVKMPEGYKQTE---IGVIPEDWEVKDIGEALTIRHGKDQKQ-----------VESTR 46

Query: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL 120
           G+Y P  G   Q   ++  ++ K  +L G+ G   +   I        T F         
Sbjct: 47  GQY-PIFGTGGQMGWASDFLYDKPSVLIGRKGSINKPRYINVPFWTVDTLFYSQVHNGYD 105

Query: 121 PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
            + +      ID     EA      +   +   I N+ + +P   EQ  I   +      
Sbjct: 106 EKFMFYKFCLIDWMNYNEAS----GVPSLNASTISNVKISVPKKPEQTAIATALSDIDNL 161

Query: 181 IDTLITERIRFIELLKEKKQALVS---YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPF 237
           I +L     +   +     Q +++    +       D   K+     +G +P+ WEV  F
Sbjct: 162 IQSLEKLIAKKEAIKTGTMQQILTGKTRLPEFATRDDGSAKELKQTELGQIPEDWEVIEF 221

Query: 238 FALVTELNRKNTKLIESNILS-----------LSYGNIIQKLETRNMGLKPESYETYQIV 286
             L+ E     +   +  I +           L+        E +        +     V
Sbjct: 222 GKLLKEFRNGYSFSAKDYIKNGTPIITMSQIGLNGSFQYNPNEVKKWDASQFEHLKDFWV 281

Query: 287 DPGEIVFRFIDLQNDKRSLR---SAQVMERGIITS--AYMAVKPHGIDSTYLAWLMRSYD 341
             G+++    D+  DK  +     A++    ++      + +      S YL +L     
Sbjct: 282 KDGDLLIAMTDVTPDKNLIGQMTIAELTHTALLNQRVGLLRLNKDLAQSNYLRYLSSLPL 341

Query: 342 LCKVFYAMGS-GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
                  + S G++ ++  +++K+  V +P ++EQ  I  +++   A I  L    E  +
Sbjct: 342 WRTYCKGVASLGVQANIGTKEIKQASVTLPLVEEQTAIATILSDMDAEIQAL----EGRL 397

Query: 401 VLLKERRSSFIAAAVTGQIDL 421
              K+ +   +   +TG++ L
Sbjct: 398 EKTKDIKQGMMQQLLTGKVRL 418



 Score = 76.4 bits (186), Expect = 9e-12,   Method: Composition-based stats.
 Identities = 34/202 (16%), Positives = 73/202 (36%), Gaps = 21/202 (10%)

Query: 224 WVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY 283
            +G++P+ WEVK     +T  + K+ K +ES            ++   +  L        
Sbjct: 14  EIGVIPEDWEVKDIGEALTIRHGKDQKQVESTRGQYPIFGTGGQMGWASDFLYD------ 67

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC 343
               P  ++ R   +   +        ++    +  +     +G D  ++ +     D  
Sbjct: 68  ---KPSVLIGRKGSINKPRYINVPFWTVDTLFYSQVH-----NGYDEKFMFYKFCLIDWM 119

Query: 344 KVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
               A G     SL    +  + + VP   EQ  I   ++     ID L++ +E+ I   
Sbjct: 120 NYNEASG---VPSLNASTISNVKISVPKKPEQTAIATALSD----IDNLIQSLEKLIAKK 172

Query: 404 KERRSSFIAAAVTGQIDLRGES 425
           +  ++  +   +TG+  L   +
Sbjct: 173 EAIKTGTMQQILTGKTRLPEFA 194


>gi|301166116|emb|CBW25691.1| putative type I restriction enzyme specificity protein
           [Bacteriovorax marinus SJ]
          Length = 412

 Score =  131 bits (329), Expect = 2e-28,   Method: Composition-based stats.
 Identities = 69/413 (16%), Positives = 134/413 (32%), Gaps = 23/413 (5%)

Query: 28  VPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           V +    K   G T   G         I ++   +V       + +         S+   
Sbjct: 4   VKLGNHIKSYAGGTPSRGNMDYYRNGTIPWVKSGEVCRKYITSVEEKITEEAVQGSSAKW 63

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
           F +  +L    G    +  I    G  +   L +   D        +LL+    + +   
Sbjct: 64  FPENSVLVALYGATAGQVSITKIKGTSNQAVLSVNGLDDFDNEYLYYLLTHSTPELLVK- 122

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
            +G+   +   K I  + + +  LAEQ  I E + +    I+    E  +   L K   Q
Sbjct: 123 VQGSGQPNLSKKIIDELQVELKELAEQKKIAEILTSVDKVIELTEIEIEKLKNLKKGMMQ 182

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN-----TKLIESN 255
            L++  +      D  +      W            F   V + N        +   E  
Sbjct: 183 DLLTKGIRHTKFKDTPIGKIPESWECSQIKDLIKNGFIEKVQDGNHGGAYPRVSDFTEKG 242

Query: 256 ILSLSYGNIIQKLETRNMGL--KPESYETYQIV---DPGEIVFRFIDLQNDKRSLRSAQV 310
           I  +S  N+ +    +       PESY     +    PG+++F           + ++  
Sbjct: 243 IPFVSAKNLHEHGYVKFNECPKLPESYLPKLRIGFGKPGDVIFAHNATVGPTAYVPNSGQ 302

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA-MGSGLRQSLKFEDVKRLPVLV 369
                 ++         +D+ YL   + S          MG   R  +     K + + V
Sbjct: 303 DFIVSTSTTLYRSNSEKLDNYYLYASLLSPLFQTQISKVMGQTTRNQVPITAQKEMYLTV 362

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
           PP+ EQ +I N +      +  L+ K E+ +  L   +   +   +TG++ ++
Sbjct: 363 PPLNEQNEINNAVKAI---LGTLISK-EEKLQKLVSLKKGLMQDLLTGKVRVK 411



 Score = 54.4 bits (129), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 40/220 (18%), Positives = 74/220 (33%), Gaps = 23/220 (10%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKL---------NTGRTSE-----SGKDIIYIGLE 54
           ++KD+    IG IP+ W+   IK   K          N G         + K I ++  +
Sbjct: 193 KFKDTP---IGKIPESWECSQIKDLIKNGFIEKVQDGNHGGAYPRVSDFTEKGIPFVSAK 249

Query: 55  DVESGTGKYLPKDGNSRQSDTSTVSI--FAKGQILYGKLGPYLRKAII----ADFDGICS 108
           ++         +     +S    + I     G +++         A +     DF    S
Sbjct: 250 NLHEHGYVKFNECPKLPESYLPKLRIGFGKPGDVIFAHNATVGPTAYVPNSGQDFIVSTS 309

Query: 109 TQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQV 168
           T       + +    L   LLS     +I  +    T +         + + +PPL EQ 
Sbjct: 310 TTLYRSNSEKLDNYYLYASLLSPLFQTQISKVMGQTTRNQVPITAQKEMYLTVPPLNEQN 369

Query: 169 LIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVT 208
            I   + A    + +   +  + + L K   Q L++  V 
Sbjct: 370 EINNAVKAILGTLISKEEKLQKLVSLKKGLMQDLLTGKVR 409


>gi|85711391|ref|ZP_01042450.1| putative type IC restriction-modification system specificity
           subunit [Idiomarina baltica OS145]
 gi|85694892|gb|EAQ32831.1| putative type IC restriction-modification system specificity
           subunit [Idiomarina baltica OS145]
          Length = 419

 Score =  131 bits (329), Expect = 2e-28,   Method: Composition-based stats.
 Identities = 59/419 (14%), Positives = 149/419 (35%), Gaps = 24/419 (5%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLED---VESGTGKYLPKDGNSR 71
           +PK W+   + +     +G T            I ++ L D   ++ G      K+ ++ 
Sbjct: 10  VPKRWRYELLDKMATRCSGHTPSKSYPEYWNGGIKWVSLTDSYRLDQGYIYETDKEISAE 69

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
               S+  +     ++  +     + A++A+   +       +            +    
Sbjct: 70  GIKNSSAQLHPAETVILSRDAGIGKSAVLAEPMAVSQHFIAWICDNKETLHSWFLYNWLQ 129

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
                 E    G+T+          + +  PP +EQ  I + +       D  IT   + 
Sbjct: 130 LNKPEFERQAVGSTIKTIGLPYFKKLKVLAPPFSEQQKIAQIL----STWDKAITTTEQL 185

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           +   +++K+AL+  ++T        + ++G+ + G          F     +   K+   
Sbjct: 186 LANSQQQKKALMQQLLT---GKKRLLDENGVRFGGEWECFTLNDLFTFKRGKGLSKSDIS 242

Query: 252 IESNILSLSYGNIIQKLETRNMGLKP-ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
                  + YG +  +       +         ++ + G+I+       +      +  +
Sbjct: 243 TTGKNRCVLYGELYTRYAEVIDNVNSRTDKNEAELSESGDILIPSSTTTSGIDLANATAI 302

Query: 311 MERGII-TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVL 368
           +E G++       ++P    S+     + ++       ++  G     L   D+K+L V 
Sbjct: 303 LENGVLLGGDINILRPRSKLSSQFMAHVLTHIKRYEIASLAQGITIIHLYGSDLKKLKVW 362

Query: 369 VP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
           +P  + EQ  I+ V++     ID    K++  + +LK+ + S +   +TG+  ++ + +
Sbjct: 363 IPRKLDEQIKISQVLSA----IDKASLKLQIKLDILKQEKKSLMQQLLTGKRRVKVDEE 417


>gi|58038319|ref|YP_190288.1| Type I restriction-modification enzyme S subunit [Gluconobacter
           oxydans 621H]
 gi|58000733|gb|AAW59632.1| Type I restriction-modification enzyme S subunit [Gluconobacter
           oxydans 621H]
          Length = 402

 Score =  131 bits (329), Expect = 2e-28,   Method: Composition-based stats.
 Identities = 64/422 (15%), Positives = 139/422 (32%), Gaps = 45/422 (10%)

Query: 21  IPKHWKVVPIKRFTKLN----TGRTSESGKDI------IYIGLEDVESGTGKY-LPKDGN 69
           +P+ W    I            G+      +       +++  ++V      + L +   
Sbjct: 4   LPEGWDCKNINEIGIQVIDGDRGKNYPKDNEFQATGSCLFLSAKNVTKAGFDFSLGQFIT 63

Query: 70  SRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGIC-----STQFLVLQPKDVLPELL 124
           S +           G I+    G     A                  L      + P+ L
Sbjct: 64  SEKHKILNKGAVELGDIVITTRGSIGHFAYYNQKKYQTIRINSGMAILRSNVNYINPDFL 123

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
                S  +  +IE    G+         I    +P+PPL+EQ  I   +       D  
Sbjct: 124 YEVCRSQIIKTQIEKASFGSAQPQLTIAIIKKFRIPLPPLSEQKKIAAIL----STWDRA 179

Query: 185 ITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTEL 244
           I    + +   +++K+AL+  ++            +G + +      W  K    +   +
Sbjct: 180 IEGTEKLLANSQQQKKALMQQLL------------TGKKRLPGFSGKWLWKRSKEIFKSI 227

Query: 245 NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE-SYETYQIVDPGEIVFRFIDLQNDKR 303
           + KN  +    +       ++ +       + P+ S + Y++V+PG  +      Q    
Sbjct: 228 SIKNNPMDCELLSVTQDQGVVLRSLLERRVVMPDGSVQGYKLVNPGNFIISLRSFQG--- 284

Query: 304 SLRSAQVMERGIITSAYMAVKPHGIDSTYLA-WLMRSYDLCKVFYAMGSGLR--QSLKFE 360
                    RG+++ AY  +            +  +SY+          G+R  + + ++
Sbjct: 285 --GLEYSYYRGLVSPAYTVLDNKIEIENDFYKFYFKSYNFIGHLAVATIGIRDGKQISYQ 342

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQID 420
           D   + +  PP+ EQ  I  V+          +  IE  +V L++ + + +   +TG+  
Sbjct: 343 DFSFIKLPYPPLPEQQAIAAVLTTADEE----ITAIESDLVRLRQEKKALMQQLLTGKRR 398

Query: 421 LR 422
           + 
Sbjct: 399 VT 400



 Score = 97.6 bits (241), Expect = 4e-18,   Method: Composition-based stats.
 Identities = 32/193 (16%), Positives = 70/193 (36%), Gaps = 10/193 (5%)

Query: 239 ALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI----VDPGEIVFR 294
                  + N      + L LS  N+ +     ++G    S +   +    V+ G+IV  
Sbjct: 24  DRGKNYPKDNEFQATGSCLFLSAKNVTKAGFDFSLGQFITSEKHKILNKGAVELGDIVIT 83

Query: 295 FIDLQNDKRSLRSAQVMERGIITS-AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SG 352
                         +     I +  A +    + I+  +L  + RS  +           
Sbjct: 84  TRGSIGHFAYYNQKKYQTIRINSGMAILRSNVNYINPDFLYEVCRSQIIKTQIEKASFGS 143

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
            +  L    +K+  + +PP+ EQ  I  +++      D  +E  E+ +   ++++ + + 
Sbjct: 144 AQPQLTIAIIKKFRIPLPPLSEQKKIAAILSTW----DRAIEGTEKLLANSQQQKKALMQ 199

Query: 413 AAVTGQIDLRGES 425
             +TG+  L G S
Sbjct: 200 QLLTGKKRLPGFS 212


>gi|282850459|ref|ZP_06259838.1| type I restriction modification DNA specificity domain protein
           [Veillonella parvula ATCC 17745]
 gi|282579952|gb|EFB85356.1| type I restriction modification DNA specificity domain protein
           [Veillonella parvula ATCC 17745]
          Length = 422

 Score =  131 bits (329), Expect = 2e-28,   Method: Composition-based stats.
 Identities = 64/413 (15%), Positives = 132/413 (31%), Gaps = 29/413 (7%)

Query: 23  KHWKVVPIKRFTKLNTGRTSES-----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS- 76
           + W+   +     ++TG   +S       + + I   +++  T   L   GN    D S 
Sbjct: 18  EDWEQRKLGECIDISTGYPFDSQDFNENGEYLVITNGNIQENTPFVLNNVGNRIDLDDSL 77

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
              I     +L    G   R AI+ +   + + +  V + K   P  +   L   +  Q 
Sbjct: 78  KKYILDIDDLLITMDGTVGRVAIVVNNKLVLAQR--VCRIKSNEPYYIYQLLSKNNFIQS 135

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           +  I  G T+ H     I       P   ++ +   KI       D LIT   R +  LK
Sbjct: 136 MNKIGHGGTIKHISLSEISEYQDFYPKSQKERI---KISTVLTNCDKLITLHQRKLNNLK 192

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIE------WVGLVPDHWEVKPFFA---LVTELNRK 247
            K++AL+  +  K      +++  G         +G + ++ +              N K
Sbjct: 193 LKRKALLQKLFPKNGEGYPELRFPGFTDAWEQRKLGEIFEYLQNNTLSRDSLNYKIPNIK 252

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
           N    +  +      +   K           S  +  ++  G+++F      +       
Sbjct: 253 NIHYGDILVKFNEILDGSNKDIPYINPDLDLSKFSKSLLRDGDVIFSDTAEDDTVGKAIE 312

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAW---LMRSYDLCKVFYAMGSGL-RQSLKFEDVK 363
            Q +    I S    +    +      +      S         +  G+   S+    +K
Sbjct: 313 LQNVNAPFILSGLHTIPCRPLIPFGKGYLGNFFNSNSYRLQIRPLVQGIKVSSISKSALK 372

Query: 364 RLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
              +  P  + EQ  I +        I  ++   ++ +  L+ ++ S +    
Sbjct: 373 DTMIKYPKNLDEQEKIGS----LFQSITKMITLHQRKLKHLQIQKKSLLQKLF 421


>gi|206579118|ref|YP_002240752.1| type I restriction modification DNA specificity domain protein
           [Klebsiella pneumoniae 342]
 gi|206568176|gb|ACI09952.1| type I restriction modification DNA specificity domain protein
           [Klebsiella pneumoniae 342]
          Length = 455

 Score =  131 bits (329), Expect = 2e-28,   Method: Composition-based stats.
 Identities = 69/438 (15%), Positives = 149/438 (34%), Gaps = 33/438 (7%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTK----LNTGRTSESG---KDIIYIGLEDVESGTGK 62
           +K + V   G IP+ W +  +   T+    ++ G           I  I + D+ +G  +
Sbjct: 24  FKLTEV---GVIPEDWTIEALSAITEPSRPISYGIVQTGPAVINGIPCIRVVDISNGKIQ 80

Query: 63  YLPKDGNSRQSDTS-TVSIFAKGQILYGKLGPYLRKAIIADFDGICS---TQFLVLQPKD 118
                  S +   S   +I  +G I+    G     AI+       +      L+    +
Sbjct: 81  TGNLITTSGKISESYRRTILQEGDIVIPLRGKVGEIAIVDRNIRGANLTRGVALIALKDE 140

Query: 119 VLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPP-LAEQVLIREKIIAE 177
             P+ ++ +L S +   R+ A   G+ +       +   P+ +P  + EQ+ I   +   
Sbjct: 141 YYPQYVKQYLSSRESADRLLASMNGSALQEITIATLRRFPLAVPRSIKEQIAIACVLSDT 200

Query: 178 TVRIDTLITERIRFIELLKEKKQALVS---YIVTKGLNPDVKMKDSGIEWVGLVPDHWEV 234
              I+TL     +   +     Q L++    +    L  D  +K      +G +P+ W +
Sbjct: 201 DKLINTLEQFITKKQAIKTATMQKLLTGKTRLPQFTLRADGMVKGYKKSELGEIPEDWTI 260

Query: 235 KPFFALVTELNRKNTKL---------IESNILSLSYGNIIQKLETRNMGLKPESYETYQI 285
                ++   +   T               I S      +       +          +I
Sbjct: 261 TLLNDVIDSCSSGATPYRGISEYYKGNNRWITSGELNYCVINDTIEKISDSAIKDTNLKI 320

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV 345
              G  +     L+          V +      + MA+ P+    +   +    Y+   +
Sbjct: 321 HPAGTFLMAITGLEAAGTRGACGIVGKPSATNQSCMAIYPNNKLDSNYLYHWYVYNGDTL 380

Query: 346 FYAMGSGLRQ-SLKFEDVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
            +    G +Q S     ++++P+ +P   KEQ  I  +++     I  L    +Q +   
Sbjct: 381 AFKYCQGTKQLSYTAGLIRKIPLFLPTDKKEQTAIAAILSDMDKDIQTL----QQRLDKT 436

Query: 404 KERRSSFIAAAVTGQIDL 421
           ++ +   +   +TG+  L
Sbjct: 437 RQLKQGMMQELLTGKTRL 454


>gi|220934948|ref|YP_002513847.1| type I restriction-modification system specificity subunit
           [Thioalkalivibrio sp. HL-EbGR7]
 gi|219996258|gb|ACL72860.1| type I restriction-modification system specificity subunit
           [Thioalkalivibrio sp. HL-EbGR7]
          Length = 419

 Score =  131 bits (328), Expect = 3e-28,   Method: Composition-based stats.
 Identities = 61/423 (14%), Positives = 126/423 (29%), Gaps = 37/423 (8%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDI-------IYIGLEDVESGTGK 62
           YK + V   G +P  W+V+ + +F  + +G+    G+ +        YI + D+  G   
Sbjct: 22  YKQTEV---GLVPLDWEVISLDKFADVTSGKRLPLGRSLTEHETPHPYIRVSDMRPGYVC 78

Query: 63  YLPKDGNSRQ-SDTSTVSIFAKGQILYGKLGPYLRKAIIAD--FDGICSTQFLVLQPKDV 119
                                   I     G       I         +     +     
Sbjct: 79  VDEIRYVPVDVFPKIKRYRIYTDDIFISVAGTLGIVGKIPKRLNGANLTENADRITNIKC 138

Query: 120 LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPP-LAEQVLIREKIIAET 178
               L   L+S  +  +IE+I             I    +P+PP   EQ  I   +    
Sbjct: 139 SQNYLLHVLMSPLIQSKIESIQTVGAQPKLALTRIRKFEIPLPPTDREQQAIASALSDAD 198

Query: 179 VRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFF 238
                 I    + +   ++ KQ  +  ++T          +  ++ +G V       PF 
Sbjct: 199 AL----IESLSQLLAKKRQIKQGAMQELLTGKRRLPGFSGEWDVKRLGSVLKFQVGFPF- 253

Query: 239 ALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDL 298
                    ++         +          +  +      Y    +V  G+++      
Sbjct: 254 ---------SSIYFNDEFQGIRLIKNRDLKASDQIISYTGDYRHEFLVKDGDLLIGMDGD 304

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLK 358
                 +         ++      V P        A+      L K+  +  S   + L 
Sbjct: 305 -----FIPCLWGEGVALLNQRVGRVIPLSGLDAKFAYYYLIAPLKKIEDSTSSTTVKHLS 359

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
             DV+ +   +P ++EQ  I   ++   A     +  +E  +   ++ +   + A +TG+
Sbjct: 360 HGDVEGIEEPLPEVEEQIAIATTLSDMDAE----IATLEAKLAKARQLKQGMMQALLTGR 415

Query: 419 IDL 421
           I L
Sbjct: 416 IRL 418



 Score = 88.3 bits (217), Expect = 2e-15,   Method: Composition-based stats.
 Identities = 32/214 (14%), Positives = 70/214 (32%), Gaps = 18/214 (8%)

Query: 224 WVGLVPDHWEVKPFFALVTELNRKNTKL------IESNILSLSYGNIIQK----LETRNM 273
            VGLVP  WEV          + K   L       E+    +   ++        E R +
Sbjct: 26  EVGLVPLDWEVISLDKFADVTSGKRLPLGRSLTEHETPHPYIRVSDMRPGYVCVDEIRYV 85

Query: 274 GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL 333
            +          +   +I             +            +  +       +  YL
Sbjct: 86  PVDVFPKIKRYRIYTDDIFISVAGTLGIVGKIPKRLNGANLTENADRITNIKCSQN--YL 143

Query: 334 AWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPPIK-EQFDITNVINVETARIDV 391
             ++ S  +     ++ + G +  L    +++  + +PP   EQ  I + ++   A I+ 
Sbjct: 144 LHVLMSPLIQSKIESIQTVGAQPKLALTRIRKFEIPLPPTDREQQAIASALSDADALIES 203

Query: 392 LVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGES 425
           L + + +     ++ +   +   +TG+  L G S
Sbjct: 204 LSQLLAKK----RQIKQGAMQELLTGKRRLPGFS 233


>gi|271498974|ref|YP_003331999.1| restriction modification system DNA specificity domain-containing
           protein [Dickeya dadantii Ech586]
 gi|270342529|gb|ACZ75294.1| restriction modification system DNA specificity domain protein
           [Dickeya dadantii Ech586]
          Length = 396

 Score =  131 bits (328), Expect = 3e-28,   Method: Composition-based stats.
 Identities = 64/417 (15%), Positives = 130/417 (31%), Gaps = 35/417 (8%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTS--------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           +PK W +V      +  +            +    I      +V  G          S++
Sbjct: 2   VPKGWSLVEANEVCESISVGVVIKPAQYYVDESVGIKAFRSANVREGFINDSGWVYFSQK 61

Query: 73  SDTSTVS-IFAKGQILYGKLGPYLRKAII---ADFDGICSTQFLVLQPKDVLPELLQGWL 128
              +  +     G +L  + G      ++    +            Q   VLPE L  + 
Sbjct: 62  GHLANKNSQLKSGDVLIVRTGYPGTACVVTPEFEGANAIDIVIARPQKDKVLPEYLCAYT 121

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
            S     ++  +  G    H +      + + +PPL EQ  I + +      I T     
Sbjct: 122 NSSVGKSQVLNLQGGMAQKHLNVSAYQTLKIKLPPLLEQKKIAKILSTWDKAIATTEQLL 181

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN 248
               +  K   Q L+                +G + +      WE      +   +   +
Sbjct: 182 TNSQQQKKVLMQELL----------------TGKKRLPGFSGKWEYYTLSDIAVIVMGSS 225

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
            K    N   +    I    + +N    P  + +       E +   I L         A
Sbjct: 226 PKSDAYNENGVGLPLIQGNADIKNRRSVPRIFTSEI---TKECLPDDILLSVRAPVGTIA 282

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVL 368
                  I      ++     +    +    +   K +        +S+  +D+K+L + 
Sbjct: 283 ISNHNACIGRGIATIRAKMDFNQAFIYQWLLWFEPKWYSLSQGSTFESINSDDIKQLKIR 342

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGES 425
           VP I+EQ  I  ++ V    I+ L    +Q +  LK+ + + +   +TG+  ++ E+
Sbjct: 343 VPSIEEQKSIAKILAVADGEIETL----KQKLHHLKQEKKALMQQLLTGKRRVKTEA 395


>gi|218680840|ref|ZP_03528737.1| type I restriction-modification system specificity determinant
           [Rhizobium etli CIAT 894]
          Length = 482

 Score =  131 bits (328), Expect = 3e-28,   Method: Composition-based stats.
 Identities = 71/268 (26%), Positives = 131/268 (48%), Gaps = 8/268 (2%)

Query: 160 PIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKD 219
           P+P L  Q  I   +  ET RID LI  + R +E+L+E+K A+    +  GL+   +   
Sbjct: 6   PVPDLDAQRAIAAFLDRETTRIDKLIETKERQVEVLREQKSAITKEYIHSGLHAGRERVA 65

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
           +   W  L+P  W+ +    L     R+    ++   +   +G I++     N+   PE 
Sbjct: 66  TQNSWFPLIPQGWQPRRMRFLFRAAKRQGMPDLDVLSVYRDFGVILKSSRDDNINKTPED 125

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP-HGIDSTYLAWLMR 338
             +YQ+V+PG++V   +        +       RGI +  Y+  +P   ++  Y+ +L+R
Sbjct: 126 LSSYQLVEPGDLVVNKMKAWQGSLGISEL----RGITSPDYLVYRPVAPMNGRYMHYLLR 181

Query: 339 SYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
           +  +  +F  + +G+   +  L+      +   +P + EQ +I   I+  T+RI+ +V+ 
Sbjct: 182 TRPMPSLFLTISNGIRIDQWRLEHAKFMDVVAWLPSLDEQAEIAAAIDARTSRIERIVKS 241

Query: 396 IEQSIVLLKERRSSFIAAAVTGQIDLRG 423
           +  SI LL+E R++ I AAV G ID+R 
Sbjct: 242 VSDSIELLREHRAALITAAVAGHIDIRE 269



 Score = 82.1 bits (201), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 37/203 (18%), Positives = 75/203 (36%), Gaps = 13/203 (6%)

Query: 17  WIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYL----PKDGNSRQ 72
           W   IP+ W+   ++   +      +   + +  + +  V    G  L      + N   
Sbjct: 70  WFPLIPQGWQPRRMRFLFR------AAKRQGMPDLDVLSVYRDFGVILKSSRDDNINKTP 123

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW---LL 129
            D S+  +   G ++  K+  +     I++  GI S  +LV +P   +      +     
Sbjct: 124 EDLSSYQLVEPGDLVVNKMKAWQGSLGISELRGITSPDYLVYRPVAPMNGRYMHYLLRTR 183

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
            +       +          +     ++   +P L EQ  I   I A T RI+ ++    
Sbjct: 184 PMPSLFLTISNGIRIDQWRLEHAKFMDVVAWLPSLDEQAEIAAAIDARTSRIERIVKSVS 243

Query: 190 RFIELLKEKKQALVSYIVTKGLN 212
             IELL+E + AL++  V   ++
Sbjct: 244 DSIELLREHRAALITAAVAGHID 266



 Score = 62.5 bits (150), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 15/47 (31%), Positives = 28/47 (59%)

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
            + + VP +  Q  I   ++ ET RID L+E  E+ + +L+E++S+ 
Sbjct: 2   SVNIPVPDLDAQRAIAAFLDRETTRIDKLIETKERQVEVLREQKSAI 48


>gi|186684994|ref|YP_001868190.1| restriction modification system DNA specificity subunit [Nostoc
           punctiforme PCC 73102]
 gi|186467446|gb|ACC83247.1| restriction modification system DNA specificity domain protein
           [Nostoc punctiforme PCC 73102]
          Length = 530

 Score =  131 bits (328), Expect = 3e-28,   Method: Composition-based stats.
 Identities = 65/473 (13%), Positives = 136/473 (28%), Gaps = 72/473 (15%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSR 71
           +  +P+ W+   +    ++  G T            I ++   +V         +     
Sbjct: 5   LTELPEGWQWKNLGEVFEIFVGATPSRKIPEYWDGSIPWVSSGEVAFCEIYETRETITEL 64

Query: 72  QSDTSTVSIFAKGQILYGKLGP--YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
               ++  +   G +L G +G      +A I       +     ++  ++       +  
Sbjct: 65  GLKNTSTELHPPGTVLLGMIGEGKTRGQAAILKIYATHNQNSAAIRVSEIGLPPEYVYYF 124

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
                +R   I  G      +   +  +  P+PPL EQ  I   I     R         
Sbjct: 125 LKLEYERTRQIGSGNNQQALNKSRVQLMSFPVPPLNEQKRIVANIEELNDRTQRAKEALD 184

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIE-------------------------- 223
              +L    +Q++++      L  D + ++  +E                          
Sbjct: 185 SIPQLCDRFRQSVLAAAFRGDLTADWRDQNPDVEPASVLLERIRRDRRCRWEELEVAKMQ 244

Query: 224 ------------------------WVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL-- 257
                                    +  +P+ W    +  +    N +     E      
Sbjct: 245 SKGKVVEECKWKEKYQEPDPLSNFDLPELPNGWVWTKWEQVGFCQNGRAFPSKEYQTNGV 304

Query: 258 ------SLSYGNIIQKLETRNMGLKPESYETY--QIVDPGEIVFRFI---DLQNDKRSLR 306
                 +L     I+  ++    L  +  E Y   ++   E+V               + 
Sbjct: 305 KLLRPGNLHVSGEIEWNDSNTRYLSEDWAEQYPDYLISTNELVINLTAQSLADEFLGRIC 364

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRL 365
                ER ++      + P  I   +L WL +S         + +G   Q +    + + 
Sbjct: 365 LTGEDERCLLNQRIARLVPIIISPRFLFWLFKSKLFRSYVDDLNTGSLIQHIFTPQINKF 424

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
              +PP+KEQ  I N+I  +   I+ +  K  Q          S +A A  G+
Sbjct: 425 HFPLPPLKEQQMIVNLIETQINSIENIGLKAGQMQNAFPHLNQSILAKAFRGE 477



 Score = 73.3 bits (178), Expect = 7e-11,   Method: Composition-based stats.
 Identities = 37/203 (18%), Positives = 71/203 (34%), Gaps = 9/203 (4%)

Query: 223 EWVGLVPDHWEVKPFFALVTELN-----RKNTKLIESNILSLSYGNIIQKLETRNMGLKP 277
           + +  +P+ W+ K    +          RK  +  + +I  +S G +             
Sbjct: 3   DELTELPEGWQWKNLGEVFEIFVGATPSRKIPEYWDGSIPWVSSGEVAFCEIYETRETIT 62

Query: 278 E---SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
           E      + ++  PG ++   I     +      ++       SA + V   G+   Y+ 
Sbjct: 63  ELGLKNTSTELHPPGTVLLGMIGEGKTRGQAAILKIYATHNQNSAAIRVSEIGLPPEYVY 122

Query: 335 WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
           + ++           G+  +Q+L    V+ +   VPP+ EQ  I   I     R     E
Sbjct: 123 YFLKLEYERTRQIGSGN-NQQALNKSRVQLMSFPVPPLNEQKRIVANIEELNDRTQRAKE 181

Query: 395 KIEQSIVLLKERRSSFIAAAVTG 417
            ++    L    R S +AAA  G
Sbjct: 182 ALDSIPQLCDRFRQSVLAAAFRG 204



 Score = 67.1 bits (162), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 30/212 (14%), Positives = 71/212 (33%), Gaps = 15/212 (7%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVE-SGTGKYLPKDGNSRQ 72
           +  +P  W     ++      GR   S +     +  +   ++  SG  ++   +     
Sbjct: 270 LPELPNGWVWTKWEQVGFCQNGRAFPSKEYQTNGVKLLRPGNLHVSGEIEWNDSNTRYLS 329

Query: 73  SDTST---VSIFAKGQILYGKL-----GPYLRKAIIA--DFDGICSTQFLVLQPKDVLPE 122
            D +      + +  +++           +L +  +   D   + + +   L P  + P 
Sbjct: 330 EDWAEQYPDYLISTNELVINLTAQSLADEFLGRICLTGEDERCLLNQRIARLVPIIISPR 389

Query: 123 LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
            L     S      ++ +  G+ + H     I     P+PPL EQ +I   I  +   I+
Sbjct: 390 FLFWLFKSKLFRSYVDDLNTGSLIQHIFTPQINKFHFPLPPLKEQQMIVNLIETQINSIE 449

Query: 183 TLITERIRFIELLKEKKQALVSYIVTKGLNPD 214
            +  +  +         Q++++      L P 
Sbjct: 450 NIGLKAGQMQNAFPHLNQSILAKAFRGELVPQ 481


>gi|291277578|ref|YP_003517350.1| putative type I restriction-modification system S protein
           [Helicobacter mustelae 12198]
 gi|290964772|emb|CBG40628.1| putative type I restriction-modification system S protein
           [Helicobacter mustelae 12198]
          Length = 441

 Score =  130 bits (327), Expect = 4e-28,   Method: Composition-based stats.
 Identities = 56/421 (13%), Positives = 127/421 (30%), Gaps = 31/421 (7%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           P   +   ++    +  G T            +I +  +ED+            +     
Sbjct: 13  PHGVEFKTLEEVFTIGNGYTPSKKNPEFWENGNIPWFRMEDIRQNGRILEDSIQHITPKA 72

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP---ELLQGWLLSI 131
                +F KG I+          A++   D + + +F  L  K       +    +    
Sbjct: 73  LKGGKLFPKGSIIISTTATIGEHALLI-VDSLANQRFTFLSKKVNCDIALDEKYFFYHCF 131

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            + +        +  +  D         P+PPL  Q  I + +   T     L TE    
Sbjct: 132 VLGEWCRKNINVSGFASVDMAAFRKYKFPLPPLEVQREIVKILDTFTELNTELNTELKLR 191

Query: 192 IELLKEKKQALVS--------YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTE 243
            +  +  +  L+S            + L      K      + L P   E +    +   
Sbjct: 192 KKQYEYYRNWLLSFGDVDASKEGAEQRLRDKSYPKALKALLLSLCPHGVEFRKLGEVGRF 251

Query: 244 LNRK---NTKLIESNILSLSYGNIIQKL----ETRNMGLKPESYETYQIVDPGEIVFRFI 296
                   + L       + YG I  +     E     +    +   +   P +I+    
Sbjct: 252 TRGNGLLKSNLQTHGKPVVHYGQIYTRYGLATEKTISYVSETLFAKLKKAKPKDILIAVT 311

Query: 297 DLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ- 355
                     +  + +  +  S  M       +  ++A+  ++    K    + +G +  
Sbjct: 312 SENVKDVGKSTVWLGDEEVAFSGEMYSYSTDQNPKFIAYYFQTSKFQKEKEKIVTGTKVI 371

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFI 411
            +  +D+K++ + +PP++ Q +I  +++  +   + L   I   I   K+     R   +
Sbjct: 372 RIHEDDLKQIKIPLPPLEVQREIVKILDDFSTLTEDLSSGIPAEIAARKKQYEYYRDKLL 431

Query: 412 A 412
            
Sbjct: 432 T 432


>gi|2921239|gb|AAC64909.1| putative type I S-subunit protein [Streptococcus thermophilus]
          Length = 412

 Score =  130 bits (327), Expect = 4e-28,   Method: Composition-based stats.
 Identities = 63/410 (15%), Positives = 139/410 (33%), Gaps = 27/410 (6%)

Query: 20  AIPK--------HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDV----ESGTGKYLPKD 67
            +P+         W+   +     +  G T  +     + G  D     E G   Y+ K 
Sbjct: 11  EVPELRFKGFTDDWEERKLGELANIVGGGTPSTSNPEYWDGDIDWYAPAEIGEQSYVSKS 70

Query: 68  GNSRQS---DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELL 124
             +        S+  I   G +L+         AI+A      +  F  + P     +  
Sbjct: 71  KKTITELGLKNSSARILPVGTVLFTSRAGIGNTAILAKE-ATTNQGFQSIVPDQNKLDSY 129

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
             +  + ++ +  E    G+T      K +  + + +P L+EQ  I         ++D  
Sbjct: 130 FIFSRTNELKRYGEVTGAGSTFVEVSGKQMSKMSIMVPELSEQQKIGSF----FKQLDET 185

Query: 185 ITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTEL 244
           IT   R ++LLKE+K+  +  +  K      +++  G           E+       T  
Sbjct: 186 ITLHQRKLDLLKEQKKGFLQKMFPKNGAKVPELRLKGFTDDWEERKLGELANLVGGGTPR 245

Query: 245 NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
              N +  + +I   +    I +    +   K  +    +      +    +   +    
Sbjct: 246 TS-NPEYWDGDIDWYAPA-EIGEQSYVSKSKKTITELGLKNSSARILPVGTVLFTSRAGI 303

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVK 363
             +A + +       Y+++ P            R+ +L +     G+G     +  + + 
Sbjct: 304 GNTAILAKEATTNQGYLSIVPDQNKLDSYFIFSRTNELKRYGEVTGAGSTFVEVSGKQMS 363

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           ++ ++VP + EQ  I          +D  +   ++ + LLKE++  F+  
Sbjct: 364 KMSIMVPELSEQQKIGLF----FKHLDDTITFHQRKLDLLKEQKKGFLQK 409


>gi|156976838|ref|YP_001447744.1| type I restriction-modification system S subunit [Vibrio harveyi
           ATCC BAA-1116]
 gi|156528432|gb|ABU73517.1| hypothetical protein VIBHAR_05614 [Vibrio harveyi ATCC BAA-1116]
          Length = 432

 Score =  130 bits (327), Expect = 4e-28,   Method: Composition-based stats.
 Identities = 64/432 (14%), Positives = 148/432 (34%), Gaps = 49/432 (11%)

Query: 29  PIKRFTKLNTGRTSES--------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
            +      N G + +          K ++++   +++SGT  +           + +  I
Sbjct: 11  RLGELASGNRGVSYKPENLKAAIDDKSVVFLRSNNIQSGTLNFENVQIVPDSLVSDS-QI 69

Query: 81  FAKGQI----------LYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
             KG I          L GK G    +       G   + F      +   E ++    S
Sbjct: 70  LKKGDIAVCMSNGSRQLVGKSGMLQHEVEYPLTVGAFCSVF--RCQNEDDSEYVRYLFQS 127

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
                 I+    G+ +++     +  I +P  P A +  I E +      ID  I     
Sbjct: 128 QAYQHGIDVTLAGSAINNLKNSDVEAIEVPTAPKALRKKIAEIL----STIDNQIDATQA 183

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEW---------VGLVPDHWEVKPFFALV 241
            I+     KQ +++ + ++G++P+ K     +E          +G++P  W+VK    + 
Sbjct: 184 LIDKYTAIKQGMMADLFSRGIDPETKALRPTLEEAPELYHKTPLGMLPKGWDVKTLGDIS 243

Query: 242 TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI----------VDPGEI 291
            ++   +    +           I  L   ++  + +S +   I          + PG+I
Sbjct: 244 EKITSGSRDWAKFYSPEGDLFVRISNLTREHVNFRWDSVKHVNIGGGSEGERTQLQPGDI 303

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG- 350
           +            +            +A + +  +G ++ ++   + S    + F     
Sbjct: 304 LVSITADLGIVGVVPENMGRAYINQHTALIRLSTYGENARFIGNYLSSRCGQEQFEKNND 363

Query: 351 SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
           SG +  +    +  L   +P  KEQ  I + I+     +D ++  +++        +   
Sbjct: 364 SGAKAGINLPTIASLRCPIPEEKEQLLIASKIDA----LDEVIADLKREKSKSLSLKQGL 419

Query: 411 IAAAVTGQIDLR 422
           +   +TG++ + 
Sbjct: 420 MQDLLTGKVSVP 431



 Score = 65.6 bits (158), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 35/202 (17%), Positives = 72/202 (35%), Gaps = 12/202 (5%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSE-----SGKDIIYIGLEDVESGTGKY---LPKDGN 69
           +G +PK W V  +   ++  T  + +     S +  +++ + ++      +     K  N
Sbjct: 227 LGMLPKGWDVKTLGDISEKITSGSRDWAKFYSPEGDLFVRISNLTREHVNFRWDSVKHVN 286

Query: 70  SRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDG--ICSTQ--FLVLQPKDVLPELLQ 125
                    +    G IL           ++ +  G    +     + L         + 
Sbjct: 287 IGGGSEGERTQLQPGDILVSITADLGIVGVVPENMGRAYINQHTALIRLSTYGENARFIG 346

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
            +L S    ++ E   +    +  +   I ++  PIP   EQ+LI  KI A    I  L 
Sbjct: 347 NYLSSRCGQEQFEKNNDSGAKAGINLPTIASLRCPIPEEKEQLLIASKIDALDEVIADLK 406

Query: 186 TERIRFIELLKEKKQALVSYIV 207
            E+ + + L +   Q L++  V
Sbjct: 407 REKSKSLSLKQGLMQDLLTGKV 428


>gi|154245043|ref|YP_001416001.1| restriction modification system DNA specificity subunit
           [Xanthobacter autotrophicus Py2]
 gi|154159128|gb|ABS66344.1| restriction modification system DNA specificity domain
           [Xanthobacter autotrophicus Py2]
          Length = 450

 Score =  129 bits (325), Expect = 6e-28,   Method: Composition-based stats.
 Identities = 67/420 (15%), Positives = 135/420 (32%), Gaps = 23/420 (5%)

Query: 13  SGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLP 65
           S  +W   +P  W          +  G T  +G +       + ++   D+      Y+ 
Sbjct: 2   SEARW--QVPHSWLWASFGEVADIVGGGTPPTGDEANFTKQGVPWLTPADLTGYRETYIS 59

Query: 66  KDGNSRQSD---TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPE 122
           +            S   +  KG +L+    P      IA  +   +  F     K  +  
Sbjct: 60  RGRRDLSEKGYRESAARLLPKGTVLFSSRAPV-GYCAIASENVSTNQGFKSFILKGDI-S 117

Query: 123 LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
                   +  T+  E+   G T           + +P+PPL EQ  I  KI + T +  
Sbjct: 118 PEYVRHYLLGSTEYAESKASGTTFKELSGSRATELALPLPPLPEQRRIVAKIDSLTAKSR 177

Query: 183 TLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVT 242
                      L+++ KQA+++      L       D     +G + +       +    
Sbjct: 178 RARDHLEHIPRLVEKYKQAILAAAFDGRLTELSP-HDIVHPELGELIEFGPQNGLYLPKD 236

Query: 243 ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK 302
                   L   N       N I +    +     ++      +  G+++   ++  +  
Sbjct: 237 RYGEGTPILRIQNYGF----NFIDEPTNWHRVTVSDAIAAQFAMSDGDLIINRVNSPSHL 292

Query: 303 R-SLRSAQVMERGIITSAYMAVKPHG-IDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLK 358
             S+   + M   I  S  M ++ +   +  ++   + S                + S+ 
Sbjct: 293 GKSMVVTKAMAGAIFESNMMRIRLNALAEPKFVQLYLSSSQGRGSLTKDAKWAVNQASIN 352

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
             DV R PV +P + +Q  + + I    A ID L  +   +  L+     + +A A  G+
Sbjct: 353 QGDVSRTPVPLPGLSDQIAVLDRIETAFAWIDRLAAEATSARTLIDRLDQAVLAKAFRGE 412


>gi|10956224|ref|NP_053442.1| specificity subunit Lla33I [Lactococcus lactis]
 gi|22855174|ref|NP_690625.1| type I R/M system specificity subunit [Lactococcus lactis subsp.
           lactis bv. diacetylactis]
 gi|6573270|gb|AAF17614.1|AF207855_3 specificity subunit Lla33I [Lactococcus lactis]
 gi|22775344|dbj|BAC11868.1| type I R/M system specificity subunit [Lactococcus lactis subsp.
           lactis bv. diacetylactis]
          Length = 414

 Score =  129 bits (325), Expect = 6e-28,   Method: Composition-based stats.
 Identities = 61/416 (14%), Positives = 148/416 (35%), Gaps = 41/416 (9%)

Query: 20  AIPK--------HWKVVPIKRFTKLNTGRTS---------ESGKDIIYIGLEDVESGTGK 62
            +P+         W+   +   T +  G +          +   DI ++ + DV    G+
Sbjct: 15  KVPELRFPGFTDDWEERKLGSLTTVVRGASPRPIQDPKWFDKESDIGWLRIADVTEQNGR 74

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPE 122
               + +  +       +  +  +L        +  +     G+     + L P     E
Sbjct: 75  IYHLEQHISKLGQEKTRVLTEPHLLLSIAATVGKPVVNYVKTGVHDGFLIFLNPTF---E 131

Query: 123 LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
               +        + +   +  +  + + + + N  + +P   EQ  I         ++D
Sbjct: 132 REFMFQWLEMFRPKWQKYGQPGSQVNLNSELVRNQEIVLPNYKEQQKIGSF----FKQLD 187

Query: 183 TLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVT 242
             IT   R ++LLKE+K+  +  +  K      +++ +G        D WE +   ++  
Sbjct: 188 NTITLHQRKLDLLKEQKKGYLQKMFPKNGAKVPELRFAG------FADDWEERKLSSMTN 241

Query: 243 ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY-ETYQIVDPGEIVF--RFIDLQ 299
             N K+ +  +S    L   N+     +  +    +   E    +   ++V     +   
Sbjct: 242 YKNGKSHEDKQSTSGKLELINLNSISISGGLKHSGKFIDEADDTLQKDDLVMILSDVGHG 301

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHGI-DSTYLAWLMRSYDLCKVFYAMGSGL-RQSL 357
           +    +      +R ++      ++P+   D  +L   + ++     F A G+G+ + ++
Sbjct: 302 DLLGRVALIPEDDRFVLNQRVALLRPNTTADPQFLFSYINAHQY--YFKAQGAGMSQLNI 359

Query: 358 KFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
               V+     VP I+EQ  I +       ++D  +   ++ + LLKE++  F+  
Sbjct: 360 SKGSVENFISFVPIIEEQKKIGSF----FKQLDETIALHQRKLDLLKEQKKGFLQK 411


>gi|10956235|ref|NP_062461.1| hypothetical protein pCI305_p3 [Lactococcus lactis subsp. lactis]
 gi|9294803|gb|AAF86681.1| HsdS [Lactococcus lactis subsp. lactis]
          Length = 402

 Score =  129 bits (325), Expect = 6e-28,   Method: Composition-based stats.
 Identities = 54/412 (13%), Positives = 134/412 (32%), Gaps = 41/412 (9%)

Query: 20  AIPK--------HWKVVPIKRFTKLNTGRTS---------ESGKDIIYIGLEDVESGTGK 62
            +P+         W+   +   T +  G +          +   DI ++ + DV    G+
Sbjct: 11  KVPELRFPGFTDDWEERKLGSLTTVVRGASPRPIQDPKWFDKESDIGWLRIADVTEQNGR 70

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPE 122
               + +  +       +  +  +L        +  +     G+     + L P     E
Sbjct: 71  IYHLEQHISKLGQEKTRVLTEPHLLLSIAATVGKPVVNYVKTGVHDGFLIFLNPTF---E 127

Query: 123 LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
               +        + +   +  +  + + + + N  + +P   EQ  I         ++D
Sbjct: 128 REFMFQWLEMFRPKWQKYGQPGSQVNLNSELVRNQEIVLPNYKEQQKIGSF----FKQLD 183

Query: 183 TLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVT 242
             IT   R ++LLKE+K+  +  +  K      +++ +G             +   + + 
Sbjct: 184 NTITLHQRKLDLLKEQKKGYLQKMFPKNGAKVPELRFAG-------FADDWEERKLSDIV 236

Query: 243 ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK 302
               K++   E   +        +    +++  K +      +     I++  +      
Sbjct: 237 SRLSKSSNNSELPRVEFEDIVSGEGRLNKDVSHKFDD-RKGILFSSQNILYGKLRPYLKN 295

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDV 362
             L       +GI    +   K    D  ++  L++S    KV             ++ V
Sbjct: 296 WLLADF----KGIALGDFWVFKSINSDPKFVYSLIQSNHYQKVANDTSGTKMPRSDWKKV 351

Query: 363 KRLPVLVPP-IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
                 +P  ++EQ  I +       ++D  +   ++ + LLKE++  F+  
Sbjct: 352 SSTEFQIPSSLEEQKKIGSF----FKKLDDTIALHQRKLDLLKEQKKGFLQK 399


>gi|322369761|ref|ZP_08044324.1| restriction modification system DNA specificity domain protein
           [Haladaptatus paucihalophilus DX253]
 gi|320550679|gb|EFW92330.1| restriction modification system DNA specificity domain protein
           [Haladaptatus paucihalophilus DX253]
          Length = 437

 Score =  129 bits (325), Expect = 6e-28,   Method: Composition-based stats.
 Identities = 72/422 (17%), Positives = 143/422 (33%), Gaps = 35/422 (8%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           IP+ W  VP +   +LN            Y+ ++ V+        +    R+ D  T + 
Sbjct: 26  IPEEWDAVPFEEAIELNPRYDKPDNGPFNYLPMDAVDEDKQTI--EYWTEREKDDCTTTW 83

Query: 81  FAKGQILYGKLGPYLRKAII------ADFDGICSTQFLVLQPKDVLPELLQGWL--LSID 132
           F  G  +Y K+ P      I          G  ST+FLV  P+  + +    +      +
Sbjct: 84  FKNGDTVYAKITPCTENGKIAFINGLETEVGSGSTEFLVFHPRKGVTDEQFVYYLSNLPE 143

Query: 133 VTQRIEAICEGAT--MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
                 ++ EG+T           G + +P+P L EQ  I + +      +D  I +   
Sbjct: 144 FRSVTISLMEGSTGRQRVPSDVFKGGLQIPLPSLPEQRRIADIL----STVDERIQQTDV 199

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
            IE   E    +   + T G       ++ G   +   P  W++ P     T+       
Sbjct: 200 IIEKTNELLSGVQKDLFTTG---YSDDREVGTRRLIEAPLDWDIAPLSEFTTDSAYGPRF 256

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPE---------SYETYQIVDPGEIVFRFIDLQND 301
             +    + +   +       + G+  E         S     ++  G+ +         
Sbjct: 257 SSDEYDENGALATLRTTDLNDDGGINHETMPLADLDPSDFEDHLLKKGDFIISRTGAY-C 315

Query: 302 KRSLRSAQVMERGIITSAYMAVK-PHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKF 359
                        +  +  +  +   G++  +L   + S    K    +  G  +++L  
Sbjct: 316 GICTIWDDYEIPTVPGAYMIRFRLDDGLNPLFLREYVNSSVGSKKVDVLARGSSQKNLAG 375

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
            D+  +P+ VP   EQ  I  VI     RI    E  ++    L++ +   +   +TG++
Sbjct: 376 SDLLSMPIPVPSRTEQDRIVEVIQAVKKRIQNEREYKQK----LQDLKRGLMQDLLTGKV 431

Query: 420 DL 421
            +
Sbjct: 432 RV 433


>gi|304320735|ref|YP_003854378.1| type I restriction-modification system specificity subunit
           [Parvularcula bermudensis HTCC2503]
 gi|303299637|gb|ADM09236.1| type I restriction-modification system specificity subunit
           [Parvularcula bermudensis HTCC2503]
          Length = 399

 Score =  129 bits (325), Expect = 7e-28,   Method: Composition-based stats.
 Identities = 58/416 (13%), Positives = 145/416 (34%), Gaps = 31/416 (7%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           +P+ WK+  +  + +    ++ E  +  +     +      +Y  +       D     +
Sbjct: 2   VPEGWKMESLGNWIEAYREKSVEKDQYPVLTSSREGLIPQSEYYGE-SRITSRDNVGFHV 60

Query: 81  FAKGQILY---GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
                  Y      G +          GI S  + V                     +R 
Sbjct: 61  IPPQFFTYRSRSDDGLFFFNRNDTGQTGIISHFYPVFDFPKGNS--DFFLAALNFWRKRF 118

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
                G++        + ++ +PIPP   Q  I + +       D  I    + I   + 
Sbjct: 119 AGYAVGSSQVVLSLNALKSVKLPIPPKHVQDEIADIL----TSWDRAIKTTEKLIANSQA 174

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
           +K++L+  ++T         + S +          ++      +        +++E+ + 
Sbjct: 175 QKKSLMQQLLT---GKKRLPRFSDV------WREVQLGELGDFIKGKGIPRDEVVETGLP 225

Query: 258 SLSYGNIIQK----LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM-E 312
           ++ YG I       +ET    +  E+      ++ G+I+F       D+     A +  +
Sbjct: 226 AIRYGEIYTTHHFIVETFASFISEEAAAQSVPLNNGDILFTCSGETADEIGKCVAYLGND 285

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPP 371
           R       +  + HG  + +L + + S ++ +     G G     +   ++ ++ +++P 
Sbjct: 286 RSFAGGDIILFREHGQCAHFLGYALNSSEVVRQKTRFGQGNSVVHINARNLSQITLMLPS 345

Query: 372 IKEQFDITNVINVETARIDVL-VEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
           ++EQ  I ++++     I  L +E     I      R++ +   +TG+  ++ E +
Sbjct: 346 LEEQEAIADILDTARRDIRQLEIELQNLQIE-----RAALMQQLLTGKRRVKVEKE 396


>gi|307264084|ref|ZP_07545681.1| Type I restriction-modification system, S subunit [Actinobacillus
           pleuropneumoniae serovar 13 str. N273]
 gi|306870562|gb|EFN02309.1| Type I restriction-modification system, S subunit [Actinobacillus
           pleuropneumoniae serovar 13 str. N273]
          Length = 510

 Score =  129 bits (324), Expect = 7e-28,   Method: Composition-based stats.
 Identities = 68/441 (15%), Positives = 132/441 (29%), Gaps = 71/441 (16%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPK---DGN 69
            IPK W  V +    ++  G T ++ +D       I +I   D++  +GKY+ K   +  
Sbjct: 70  EIPKSWVWVRLDFLGEIIGGGTPKTNEDDNWNKGSIPWITPADMKYISGKYISKGNRNIT 129

Query: 70  SRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
                +S+  + +K  I+Y    P      I + +   +  F  +   +    +   +  
Sbjct: 130 ENGLRSSSTRLLSKNSIVYSSRAPI-GYIAITETELCTNQGFKSIDLYNKE-IVDYLYYS 187

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
            I  T  I++   G T         GN  +P+PPL EQ  I  KI      I+    +  
Sbjct: 188 LIYFTPEIQSRASGTTFKEISGTAFGNTIIPLPPLNEQKRIVAKIEELLPYIEQYAEKEE 247

Query: 190 RFIELLKEKK----QALVSYIVTKGLNPDVKM---------------------------- 217
           +   L ++      ++++   +   L                                  
Sbjct: 248 KLTALHQQFPEQLKKSILQAAIQGKLTKQDPNDEPALVLIERIKAEKLRLIAEKKLKKPK 307

Query: 218 --------------------KDSGIEWVGLVPDHWEVKPFFALVTE------LNRKNTKL 251
                               +    E    +P++W       +            +    
Sbjct: 308 VVSEIILRDNLPYEIINGEERCIADEVPFEIPENWCWVRLGEIGNWGAGATPNRHEPKYY 367

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
               I  L  G++   + T       E       V    +    I +            +
Sbjct: 368 ENGTIPWLKTGDLNDGIITEIPEYITELAIEKTSVKLNPVGSVLIAMYGATIGKLGILNI 427

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
           E     +    +   GI + YL + + S        + GSG + ++  E +      +PP
Sbjct: 428 EATTNQACCACIPYTGIYNKYLFYYLMSQKTELQKRSEGSG-QPNISKEKIVNYLFPLPP 486

Query: 372 IKEQFDITNVINVETARIDVL 392
           + EQ  I   I    + +  L
Sbjct: 487 LNEQKCIVEKIETLFSTLQNL 507



 Score = 80.6 bits (197), Expect = 4e-13,   Method: Composition-based stats.
 Identities = 27/211 (12%), Positives = 62/211 (29%), Gaps = 13/211 (6%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
           S  ++   +P  W       L   +     K  E +  +      I   + + +  K  S
Sbjct: 63  SQQDFSFEIPKSWVWVRLDFLGEIIGGGTPKTNEDDNWNKGSIPWITPADMKYISGKYIS 122

Query: 280 YETYQIVDPGE-------IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
                I + G        +    I   +       A           + ++  +  +   
Sbjct: 123 KGNRNITENGLRSSSTRLLSKNSIVYSSRAPIGYIAITETELCTNQGFKSIDLYNKEIVD 182

Query: 333 LAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
             +    Y   ++         + +         + +PP+ EQ  I   I      I+  
Sbjct: 183 YLYYSLIYFTPEIQSRASGTTFKEISGTAFGNTIIPLPPLNEQKRIVAKIEELLPYIEQY 242

Query: 393 VEKIEQSIVLL-----KERRSSFIAAAVTGQ 418
             + E+ +  L     ++ + S + AA+ G+
Sbjct: 243 -AEKEEKLTALHQQFPEQLKKSILQAAIQGK 272


>gi|256958288|ref|ZP_05562459.1| type I R/M system specificity subunit [Enterococcus faecalis DS5]
 gi|256948784|gb|EEU65416.1| type I R/M system specificity subunit [Enterococcus faecalis DS5]
          Length = 406

 Score =  129 bits (324), Expect = 8e-28,   Method: Composition-based stats.
 Identities = 52/405 (12%), Positives = 136/405 (33%), Gaps = 32/405 (7%)

Query: 25  WKVVPIKRFTKLNTGRTS---------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           W++  +    ++  G +          ++  D+ ++ + DV    G+    +    ++  
Sbjct: 13  WELCKLGTLAEIVRGASPRPIQDSKWFDNTSDVGWLRISDVTEQNGRIYKLEQKLSKAGQ 72

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
               +  K  +L        +  +     G+     + L P   L +    +      T 
Sbjct: 73  EKTRVLRKPHLLLSIAATVGKPVVNYVNTGVHDGFLIFLNP---LFDREFMFQWLEMFTP 129

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
           + +   +  +  + + + + N  + +P   EQ    EKI      +D  IT   R ++ L
Sbjct: 130 KWQKYGQPGSQLNLNSELVRNQELRMPSTNEQ----EKIGMLFKYLDDTITLHQRKLDQL 185

Query: 196 KEKKQALVSYIV---TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           K+ K+A +  +        N   K++ +  E    +    +V  +          N +  
Sbjct: 186 KKLKKAYLHAMFVSMNTKKNKVPKLRFTDFEGDWELCKLGQVANYRRGSFPQPYGNKEWY 245

Query: 253 E-----SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
           +       +  +  G+ ++ +E     +   +      V  G++V             + 
Sbjct: 246 DGENSMPFVQVVDVGDNLRLVEDTKQKISELAQPKSVFVKEGKVVVTLQGSIGRVAITQY 305

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
              ++R ++           +D  Y A++++             G  +++  E +    +
Sbjct: 306 PAYVDRTLL---IFESYKAEMDEYYFAYVIQQL-FEYEKTRAPGGTIKTVTKEALSDFTI 361

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
             P I+EQ      +     ++D  +   +  +  L E + S++ 
Sbjct: 362 SFPSIEEQKK----LGKFFEQLDDTITLHQNKLEQLNELKKSYLQ 402



 Score = 54.8 bits (130), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 22/193 (11%), Positives = 59/193 (30%), Gaps = 14/193 (7%)

Query: 24  HWKVVPIKRFTKLNTGRTS---------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
            W++  + +      G            +    + ++ + DV               +  
Sbjct: 218 DWELCKLGQVANYRRGSFPQPYGNKEWYDGENSMPFVQVVDVGDNLRLVEDTKQKISELA 277

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
                   +G+++    G   R   I  +        L+ +      +      +   + 
Sbjct: 278 QPKSVFVKEGKVVVTLQGSIGR-VAITQYPAYVDRTLLIFESYKAEMDEYYFAYVIQQLF 336

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           +  +    G T+     + + +  +  P + EQ    +K+     ++D  IT     +E 
Sbjct: 337 EYEKTRAPGGTIKTVTKEALSDFTISFPSIEEQ----KKLGKFFEQLDDTITLHQNKLEQ 392

Query: 195 LKEKKQALVSYIV 207
           L E K++ +  + 
Sbjct: 393 LNELKKSYLQNMF 405


>gi|10956231|ref|NP_053053.1| specificity determinant HsdS [Lactococcus lactis]
 gi|5453329|gb|AAD43536.1| specificity determinant HsdS [Lactococcus lactis]
          Length = 410

 Score =  129 bits (324), Expect = 8e-28,   Method: Composition-based stats.
 Identities = 61/416 (14%), Positives = 148/416 (35%), Gaps = 41/416 (9%)

Query: 20  AIPK--------HWKVVPIKRFTKLNTGRTS---------ESGKDIIYIGLEDVESGTGK 62
            +P+         W+   +   T +  G +          +   DI ++ + DV    G+
Sbjct: 11  KVPELRFPGFTDDWEERKLGSLTTVVRGASPRPIQDPKWFDKESDIGWLRIADVTEQNGR 70

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPE 122
               + +  +       +  +  +L        +  +     G+     + L P     E
Sbjct: 71  IYHLEQHISKLGQEKTRVLTEPHLLLSIAATVGKPVVNYVKTGVHDGFLIFLNPTF---E 127

Query: 123 LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
               +        + +   +  +  + + + + N  + +P   EQ  I         ++D
Sbjct: 128 REFMFQWLEMFRPKWQKYGQPGSQVNLNSELVRNQEIVLPNYKEQQKIGSF----FKQLD 183

Query: 183 TLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVT 242
             IT   R ++LLKE+K+  +  +  K      +++ +G        D WE +   ++  
Sbjct: 184 NTITLHQRKLDLLKEQKKGYLQKMFPKNGAKVPELRFAG------FADDWEERKLSSMTN 237

Query: 243 ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY-ETYQIVDPGEIVF--RFIDLQ 299
             N K+ +  +S    L   N+     +  +    +   E    +   ++V     +   
Sbjct: 238 YKNGKSHEDKQSTSGKLELINLNSISISGGLKHSGKFIDEADDTLQKDDLVMILSDVGHG 297

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHGI-DSTYLAWLMRSYDLCKVFYAMGSGL-RQSL 357
           +    +      +R ++      ++P+   D  +L   + ++     F A G+G+ + ++
Sbjct: 298 DLLGRVALIPEDDRFVLNQRVALLRPNTTADPQFLFSYINAHQY--YFKAQGAGMSQLNI 355

Query: 358 KFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
               V+     VP I+EQ  I +       ++D  +   ++ + LLKE++  F+  
Sbjct: 356 SKGSVENFISFVPIIEEQKKIGSF----FKQLDETIALHQRKLDLLKEQKKGFLQK 407


>gi|88809186|ref|ZP_01124695.1| type I restriction-modification system, S subunit [Synechococcus
           sp. WH 7805]
 gi|88787128|gb|EAR18286.1| type I restriction-modification system, S subunit [Synechococcus
           sp. WH 7805]
          Length = 405

 Score =  129 bits (324), Expect = 8e-28,   Method: Composition-based stats.
 Identities = 66/417 (15%), Positives = 144/417 (34%), Gaps = 34/417 (8%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           + W  + +  F  L+ G T ++         DI ++   +V     +        R    
Sbjct: 3   ESWSKLRVGDFCNLSAGGTPDTNNPDYWEGGDIPWMSSGEVHDQRIRRTRSHITERGLQD 62

Query: 76  STVSIFAKGQILYGKLGP--YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
           S+   F  G +L    G      K  I++ +   +     +     + E    +      
Sbjct: 63  SSAKFFPIGSVLVALAGQGKTRGKVAISEIELTTNQSIAAIIADKGVCEPDFLFYNLDSR 122

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            + +  +  G+  +  +   + ++ + +PPL EQ  I E +     +I  L  +  + I 
Sbjct: 123 YEELRTLSGGSGRAGLNLSILSDVEISLPPLPEQKKIAEILSGVDKQIYALENKISKLIS 182

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
              E  + L S     G N  V  K+S  +          ++     V +   +     E
Sbjct: 183 TKTEIFRDLFSCFDELGGN-GVCKKESDTKI-------MPLESVCEAVIDCKNRTPPYTE 234

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQI------VDPGEIVFRFIDLQNDKRSLRS 307
           S    +   N+      RN  LK     +Y+I        P +++F       +   +  
Sbjct: 235 SGHPVVRTPNVRNGKLVRN-DLKYTDISSYEIWTARSVPRPMDVLFTREAPLGEVCLVPE 293

Query: 308 AQVMERGIITSAYMAVKPHG--IDSTYLAWLMRSYDLCKVF-YAMGSGLRQSLKFEDVKR 364
                +  +    M  +     ID  YL + + S  +      + G       +  DV+ 
Sbjct: 294 NF---KCCLGQRMMLFRADKSLIDPRYLLFSLMSPFVQDQLLKSKGGTTVGHARVADVRD 350

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           L + + P ++Q  I +      + I+  +E + +    L+ ++S+  +  ++G+  +
Sbjct: 351 LLIPIVPKEKQLRIAS----VFSSIETFLEGVTRKKEKLEIQKSALASDLLSGRKRV 403


>gi|323344379|ref|ZP_08084604.1| type I site-specific deoxyribonuclease [Prevotella oralis ATCC
           33269]
 gi|323094506|gb|EFZ37082.1| type I site-specific deoxyribonuclease [Prevotella oralis ATCC
           33269]
          Length = 418

 Score =  129 bits (324), Expect = 8e-28,   Method: Composition-based stats.
 Identities = 64/433 (14%), Positives = 131/433 (30%), Gaps = 36/433 (8%)

Query: 1   MKHYK-----AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLED 55
           MK  K      +P++K SG          WK   +K        + +E+  +++ I  + 
Sbjct: 1   MKELKHIPNIRFPEFKKSG---------EWKPKCLKSLFDRVKTKNNENNSNVLTISAQY 51

Query: 56  VESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD-----FDGICSTQ 110
                 ++  K  +++  D S   + +KG   Y K         +         G+ ST 
Sbjct: 52  GLVNQIEFFSKSVSAK--DISGYYLLSKGDFAYNKSRSIGYPFGVVRRLKKYEKGVVSTL 109

Query: 111 FLVLQPKDVLPELLQGWLLSIDVTQRIEAIC-----EGATMSHADWKGIGNIPMPIPPLA 165
           ++  + KD        +  + D+ Q+              + +   +    +    P   
Sbjct: 110 YMCFRAKDHRNTEFYEYYFNTDIFQKRVGKIAQEGARSHGLLNISTESFLQLEFLFPSSI 169

Query: 166 EQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWV 225
           EQ  I E + +    I+    +        K   Q L+  +    + P  ++   G    
Sbjct: 170 EQKKIAECLSSLDDYINATQEKIDLLQAHKKGLMQQLLPAL--GKIMPQKRLPKFGKSKK 227

Query: 226 GLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKL---ETRNMGLKPESYET 282
                  E+       T             I      +I +           +  E+ + 
Sbjct: 228 WSPYSMEEMFKIRNGYTPSKSNPKFWENGTIPWFRMEDIREHGHILSDSIQHITKEAVKG 287

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
             +     I+        +   +    +  +            + ID  Y  + M   D 
Sbjct: 288 KGLFPANSIIVATTATIGEHALIIVDSLANQRFTFLTKRKSFDNQIDMKYFYYYMYIID- 346

Query: 343 CKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
                   +G   S+     KRL V +P  +EQ +I          ID L++  +Q +V+
Sbjct: 347 EWCKQHTNAGGFASVDMNGFKRLSVSLPSPEEQKEIAE----CFTSIDDLIDSTKQKLVM 402

Query: 403 LKERRSSFIAAAV 415
           L+  +   +    
Sbjct: 403 LQNHKRGLMQQLF 415


>gi|225850846|ref|YP_002731080.1| type I restriction-modification system specificty subunit
           [Persephonella marina EX-H1]
 gi|225645153|gb|ACO03339.1| type I restriction-modification system specificty subunit
           [Persephonella marina EX-H1]
          Length = 448

 Score =  129 bits (324), Expect = 9e-28,   Method: Composition-based stats.
 Identities = 75/432 (17%), Positives = 158/432 (36%), Gaps = 38/432 (8%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNT--GRTSESGKDI--IY---IGLEDVESGTGK 62
           YK +    IG IP+ W+V  +   +K+    G    + KDI   +   I L  +    GK
Sbjct: 9   YKKTE---IGIIPEDWEVKRLGEVSKIVGRIGFRGYTKKDIVKPWRGAISLSPINIVDGK 65

Query: 63  YLPKD----GNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDG----ICSTQFLVL 114
              K      +  + + S       G I++ K G  L K  I +       I     ++ 
Sbjct: 66  LNLKSNLTFVSWNKYEESPEIKIKTGDIIFVKTGSTLGKVAIIEKVVFPTTINPQLVIIK 125

Query: 115 QPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKI 174
             K    + +  +L S      +  + +G  +       + N+ +P+PPL EQ  I + +
Sbjct: 126 VFKRTNNKFINFYLNSFTFKNLLNKVLDGQAIPTLSQYQLSNLLLPLPPLPEQKDIAKVL 185

Query: 175 IAETVRIDTLITERIRFIELLKEKKQALVS--YIVTKGLNPDVKMKDSGIEWVGLVPDHW 232
                 I++L     +   + K   Q L++    +       VKMK   +  +       
Sbjct: 186 SDIDNLIESLDKLIEKKKLIKKGAMQELLTGKKRLQGFKGKWVKMKLGEVFDIKRGASPR 245

Query: 233 EVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIV 292
            ++                  + I         + L    + +  E  +   +V+  +++
Sbjct: 246 PIEK--------YITKKSNGINWIKISDVKPEDKYLVKTEIKITQEGAKQSVVVNYNDLI 297

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
                  +          ++  I     +  +    +  +  +L+ SY + K F  + +G
Sbjct: 298 LS----NSMSYGRPYISKIKGCIHDGWLLLKRKGKQNIEFFYYLLSSYKVQKSFDLLAAG 353

Query: 353 -LRQSLKFEDVKRLPVLVPP-IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
               +LK + VK L + +PP ++EQ  I  +++   A I+ L    ++     ++ +   
Sbjct: 354 SGVNNLKIDSVKELSIYIPPTLEEQQAIAKILSDMDAEIEAL----KKKKEKYEQIKKGA 409

Query: 411 IAAAVTGQIDLR 422
           +   +TG++ L+
Sbjct: 410 MELLLTGKVRLK 421



 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 29/168 (17%), Positives = 65/168 (38%), Gaps = 5/168 (2%)

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
           +++  G +  K     +            +  G+I+F        K ++    V    I 
Sbjct: 59  INIVDGKLNLKSNLTFVSWNKYEESPEIKIKTGDIIFVKTGSTLGKVAIIEKVVFPTTIN 118

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQ 375
               +       ++ ++ + + S+    +   +  G    +L    +  L + +PP+ EQ
Sbjct: 119 PQLVIIKVFKRTNNKFINFYLNSFTFKNLLNKVLDGQAIPTLSQYQLSNLLLPLPPLPEQ 178

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
            DI  V++     ID L+E +++ I   K  +   +   +TG+  L+G
Sbjct: 179 KDIAKVLSD----IDNLIESLDKLIEKKKLIKKGAMQELLTGKKRLQG 222



 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 32/208 (15%), Positives = 73/208 (35%), Gaps = 9/208 (4%)

Query: 25  WKVVPIKRFTKLNTGRTS--------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           W  + +     +  G +         +    I +I + DV+      +  +    Q    
Sbjct: 227 WVKMKLGEVFDIKRGASPRPIEKYITKKSNGINWIKISDVKPEDKYLVKTEIKITQEGAK 286

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
              +     ++      Y R  I      I     L+ +      E     L S  V + 
Sbjct: 287 QSVVVNYNDLILSNSMSYGRPYISKIKGCIHDGWLLLKRKGKQNIEFFYYLLSSYKVQKS 346

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPP-LAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            + +  G+ +++     +  + + IPP L EQ  I + +      I+ L  ++ ++ ++ 
Sbjct: 347 FDLLAAGSGVNNLKIDSVKELSIYIPPTLEEQQAIAKILSDMDAEIEALKKKKEKYEQIK 406

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIE 223
           K   + L++  V      + + K++ IE
Sbjct: 407 KGAMELLLTGKVRLKTINNGEGKNNDIE 434


>gi|13249034|gb|AAK16650.1|AF142640_3 type I R/M system specificity subunit [Lactococcus lactis subsp.
           cremoris]
          Length = 410

 Score =  129 bits (324), Expect = 9e-28,   Method: Composition-based stats.
 Identities = 54/413 (13%), Positives = 144/413 (34%), Gaps = 35/413 (8%)

Query: 20  AIPK--------HWKVVPIKRFTKLNTGRTS---------ESGKDIIYIGLEDVESGTGK 62
            +P+         W+   +   T +  G +          +   DI ++ + DV    G+
Sbjct: 11  KVPELRFPGFTDDWEERKLGSLTTVVRGASPRPIQDPKWFDKESDIGWLRIADVTEQNGR 70

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPE 122
               + +  +       +  +  +L        +  +     G+     + L P     E
Sbjct: 71  IYHLEQHISKLGQEKTRVLTEPHLLLSIAATVGKPVVNYVKTGVHDGFLIFLNPTF---E 127

Query: 123 LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
               +        + +   +  +  + + + + N  + +P   EQ  I         ++D
Sbjct: 128 REFMFQWLEMFRPKWQKYGQPGSQVNLNSELVRNQEIVLPNYKEQQKIGSF----FKQLD 183

Query: 183 TLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVT 242
             IT   R ++LLKE+K+  +  +  K      +++ +G        +  ++        
Sbjct: 184 NTITLHQRKLDLLKEQKKGYLQKMFPKNGAKVPELRFAG---FADDWEERKLSSMTNYKN 240

Query: 243 ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK 302
             + ++ +     +  ++   I      ++ G   +  +     D   ++   +   +  
Sbjct: 241 GKSHEDKQSTSGKLELINLNAISISGGLKHSGKFIDEADDTLQKDDLVMILSDVGHGDLL 300

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGI-DSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFE 360
             +      +R ++      ++P+   D  +L   + ++     F A G+G+ + ++   
Sbjct: 301 GRVALIPEDDRFVLNQRVALLRPNTTADPQFLFSYINAHQY--YFKAQGAGMSQLNISKG 358

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            V+     VP I+EQ  I +       ++D  +   ++ + LLKE++  F+  
Sbjct: 359 SVENFISFVPIIEEQKKIGSF----FKQLDETIALHQRKLDLLKEQKKGFLQK 407


>gi|134046197|ref|YP_001097682.1| restriction modification system DNA specificity subunit
           [Methanococcus maripaludis C5]
 gi|132663822|gb|ABO35468.1| restriction modification system DNA specificity domain
           [Methanococcus maripaludis C5]
          Length = 402

 Score =  129 bits (323), Expect = 1e-27,   Method: Composition-based stats.
 Identities = 54/414 (13%), Positives = 130/414 (31%), Gaps = 29/414 (7%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPKDGNS 70
           I  +P  W+V  +     ++ G T    K        I ++ + D++    K   +    
Sbjct: 2   IDNLPDGWEVKKLGDIGNISAGGTPSRSKPEYWNNGSIPWVKIADMKEKHVKNTSEFITE 61

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
              + S+  IF KG IL   +   L    I D D   +     +            +   
Sbjct: 62  EGLNKSSAKIFKKGTILIS-IFASLGTVGILDIDASTNQAIAGINVNSKKVIPEYLYYYL 120

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
             +         G   ++ +   + +  + +PPL  Q  I E +     +I+  I  R +
Sbjct: 121 KSLKNYFMGAGRGVAQNNINLSILKDTEIFVPPLETQQKIVEIL----EKIEYGINLREK 176

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
            I   +   +A+    +    +P        ++ +G     +            + +  K
Sbjct: 177 AILETENLVKAV---FLDMFGDPVSNPMGWDVKKIG----TFVNDIISGWSVGGDERPKK 229

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
             E  +L +S     +   + +  +  E  +       G+++F   + +    ++     
Sbjct: 230 ADELAVLKISSVTSGKFKSSEHKVVNSEITKKLVHPLKGDLLFSRANTRELVAAVCIVDN 289

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWL---MRSYDLCKVFYAMGSGL---RQSLKFEDVKR 364
               +     +       +     +    ++            +G      ++    +  
Sbjct: 290 DYMDLFLPDKLWKIILNKNIVSSYYFRQVLQDPTYRANLTKKATGTSGSMLNISKSKLIE 349

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
               +PPI  Q     +I     +++ + EK E S   +++  +  +  A  G+
Sbjct: 350 NEFPIPPIGLQNKFAKIIE----KLEEIKEKQENSKKEMEDLFNLSLQKAFKGE 399


>gi|262369031|ref|ZP_06062360.1| type I restriction-modification system protein [Acinetobacter
           johnsonii SH046]
 gi|262316709|gb|EEY97747.1| type I restriction-modification system protein [Acinetobacter
           johnsonii SH046]
          Length = 412

 Score =  129 bits (323), Expect = 1e-27,   Method: Composition-based stats.
 Identities = 58/402 (14%), Positives = 120/402 (29%), Gaps = 18/402 (4%)

Query: 24  HWKVVPIKRFTKLNTGRT----SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            W    I   T+     T      +  +  YI  +++ +           S+        
Sbjct: 14  DWSRYKIAEVTEYLVDGTHFSPKTTEGEFKYITSKNIRNDGLDLTNISYISKDEHEKIYK 73

Query: 80  --IFAKGQILYGKLGPYLRKAIIA----DFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
                 G IL  K G       +     +F  + S   L  +        +   L S   
Sbjct: 74  RCKVQLGDILLTKDGANTGNCCLNTLDEEFSLLSSVAVLRGKKDSFNNNFILQILQSDLG 133

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
              I +   G  ++      + +     P L EQ  I   + A   +I  L  +     +
Sbjct: 134 QDTIISSMSGQAITRITLAKLKDYSFFFPELTEQTQITSFLSAVDEKISQLTQKHELLSQ 193

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
             +   Q L S  +    +   +  + G   VG + +     PF +   E+      +  
Sbjct: 194 YKQGMMQKLFSQQIRFKADDGSEFGEWGKAKVGNITETIFGYPFDSK--EMVEDTNGIPL 251

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDL-QNDKRSLRSAQVME 312
              +++   +I    E     LK  S      V   +IV            +  + +   
Sbjct: 252 MRGINIGECHIRHSFELDRFFLKDTSKLEKYFVRVNDIVLSMDGSKVGRNSAFVTEKDAG 311

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF-YAMGSGLRQSLKFEDVKRLPVLVPP 371
             ++    +  +    +  Y+   + S +  +       S     +  + ++   +  P 
Sbjct: 312 SLLVQRVCILREKANTNIQYVYQWIISKEFHRYVDQVKTSSGIPHISGKQIQDYEISYPC 371

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           ++EQ  I N ++     ID  +E + Q I   K  +   +  
Sbjct: 372 LEEQTKIANFLSA----IDQKIEVVAQQIEQAKTWKKGLLQQ 409



 Score = 83.3 bits (204), Expect = 7e-14,   Method: Composition-based stats.
 Identities = 25/209 (11%), Positives = 62/209 (29%), Gaps = 5/209 (2%)

Query: 213 PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
           P ++ K+   +W                         +       ++    +     +  
Sbjct: 4   PKLRFKEFDGDWSRYKIAEVTEYLVDGTHFSPKTTEGEFKYITSKNIRNDGLDLTNISYI 63

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
              + E       V  G+I+            L +       + + A +  K    ++ +
Sbjct: 64  SKDEHEKIYKRCKVQLGDILLTKDGANTGNCCLNTLDEEFSLLSSVAVLRGKKDSFNNNF 123

Query: 333 LAWLMRSYDLCK-VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
           +  +++S      +  +M       +    +K      P + EQ  IT+ ++    +I  
Sbjct: 124 ILQILQSDLGQDTIISSMSGQAITRITLAKLKDYSFFFPELTEQTQITSFLSAVDEKISQ 183

Query: 392 LVEKIEQSIVLLKERRSSFIAAAVTGQID 420
           L +K      LL + +   +    + QI 
Sbjct: 184 LTQKH----ELLSQYKQGMMQKLFSQQIR 208


>gi|209526228|ref|ZP_03274758.1| restriction modification system DNA specificity domain [Arthrospira
           maxima CS-328]
 gi|209493325|gb|EDZ93650.1| restriction modification system DNA specificity domain [Arthrospira
           maxima CS-328]
          Length = 493

 Score =  129 bits (323), Expect = 1e-27,   Method: Composition-based stats.
 Identities = 69/457 (15%), Positives = 148/457 (32%), Gaps = 63/457 (13%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +PK W    +   ++L  G++              +  G   ++ +     +  ++   
Sbjct: 3   ELPKGWAETKLGEISQLEMGQSPPGTATNSDAKGIPLIGGASDFVGEQIKPNRFTSAPTK 62

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           I     ++   +   + K  +A+           ++P++V  + L+  L+       ++A
Sbjct: 63  ICQPNDLILC-VRATIGKLAVAESAYCLGRGVAGIRPRNVNQDWLRYRLIGDA--SALDA 119

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
              G+T    D + + +  + +PPL EQ  I  K+     R      E  R   L++  K
Sbjct: 120 AGTGSTFRQIDKQTLVSWNINLPPLNEQRRIVAKLDRLFARSRCAREELGRVSRLVQRYK 179

Query: 200 QALVSYIVTKGLNPDVKMKDSGI-------------------EWVGLV------------ 228
           QA+++      L  D + ++  +                   E                 
Sbjct: 180 QAVLAAAFRGDLTADWRAENPDVEPASELLRQILIRRKQRYNEKYNESKLKNKKKPRKDF 239

Query: 229 ---------------PDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII-------- 265
                          P  W V     L         +  +    +   G  I        
Sbjct: 240 VDQIPSIQSEVEISLPKTWAVTNIDYLAHVTKLAGFEYTKHFKTNDVAGIPIIRAQNVQM 299

Query: 266 QKLETRNMGLKPESYETY---QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
            K    N+    E    Y     +   E++  FI        L   +   R  +      
Sbjct: 300 GKFIETNIKYISEDVSNYLERSQLHGREVLMVFIGAGTGNVCLAPQER--RWHLAPNVAK 357

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYA-MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
           +    I S YL   ++S        + + S  + SL  E ++++ V + P++EQ +I   
Sbjct: 358 IDVDEISSNYLCLYLQSSIGQNYVDSWIKSTAQPSLSMETIRKIIVFLSPLEEQKEIVRR 417

Query: 382 INVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           +      ID++ ++ +++  LL     + ++ A  G+
Sbjct: 418 VEKLFKAIDLIEQEHQKASKLLDRLEKATLSKAFRGE 454



 Score = 56.7 bits (135), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 37/218 (16%), Positives = 75/218 (34%), Gaps = 17/218 (7%)

Query: 12  DSGVQWIGAIPKHWKVVPIKRFTKLNT--G----RTSESGK--DIIYIGLEDVESGTGKY 63
            S V+   ++PK W V  I     +    G    +  ++     I  I  ++V+ G  K+
Sbjct: 247 QSEVEI--SLPKTWAVTNIDYLAHVTKLAGFEYTKHFKTNDVAGIPIIRAQNVQMG--KF 302

Query: 64  LPKDGNSRQSDTSTV---SIFAKGQILYGKLGPYLRKAII--ADFDGICSTQFLVLQPKD 118
           +  +      D S     S     ++L   +G       +   +     +     +   +
Sbjct: 303 IETNIKYISEDVSNYLERSQLHGREVLMVFIGAGTGNVCLAPQERRWHLAPNVAKIDVDE 362

Query: 119 VLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
           +    L  +L S      +++  +         + I  I + + PL EQ  I  ++    
Sbjct: 363 ISSNYLCLYLQSSIGQNYVDSWIKSTAQPSLSMETIRKIIVFLSPLEEQKEIVRRVEKLF 422

Query: 179 VRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVK 216
             ID +  E  +  +LL   ++A +S      L P   
Sbjct: 423 KAIDLIEQEHQKASKLLDRLEKATLSKAFRGELVPQDP 460


>gi|283853811|ref|ZP_06371033.1| restriction modification system DNA specificity domain protein
           [Desulfovibrio sp. FW1012B]
 gi|283570798|gb|EFC18836.1| restriction modification system DNA specificity domain protein
           [Desulfovibrio sp. FW1012B]
          Length = 543

 Score =  129 bits (323), Expect = 1e-27,   Method: Composition-based stats.
 Identities = 62/409 (15%), Positives = 134/409 (32%), Gaps = 25/409 (6%)

Query: 25  WKVVPIKRFTKLNTGR--TSES-GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           W    I     +  G   T ++     I++G+  +  G          +     +     
Sbjct: 133 WNTKGIGEVADIFDGPHATPKTVDTGPIFLGIGALNDGMINLRETRHVTENDFKTWTRRV 192

Query: 82  AK--GQILYGKLGPYLRKAIIADFDGICST---QFLVLQPKDVLPELLQGWLLSIDVTQR 136
               G +++       + AII D    C       +  +  +V+P+      +S      
Sbjct: 193 RPQAGDVVFSYETRLGQAAIIPDNIDCCLGRRMGLVRFKTNEVIPKFFLYQYISPSYRNF 252

Query: 137 IEAI-CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
           +++    GAT+     K     P+ IP + EQ  I   +      IDT I    + I   
Sbjct: 253 LDSKTIRGATVDRISIKEFPFFPIAIPSIEEQKRIVSILDDAFECIDTAIANTEKNIANA 312

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
           +E  ++ +  +  +  +   +     I  +   P +    P           + +     
Sbjct: 313 RELFESYLDRVFAEKGDGWEEKNLEDI--LSFQPRNGWSPPASHH-------SDRGTPVL 363

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
            LS   G   +K   +    +      Y  V+ G+++    +       +     +    
Sbjct: 364 TLSSVTGFQFKKEALKYTSAQVNPKAHYW-VENGDLLMTRSNTPELVGHVAVCDGVSANT 422

Query: 316 ITSAYMAVKP---HGIDSTYLAWLMRSYDLCKVFYAMGSG---LRQSLKFEDVKRLPVLV 369
           I    +       H   + ++ + +RS  L  +     +G     + +K   V+ LP+ +
Sbjct: 423 IYPDLIMKMKVDKHIALTEFVYFQLRSSKLRNIIKDGATGANPTMKKVKKSTVQNLPLAM 482

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           P +  Q  I + +        +LV+K    +  L   + S +  A +G+
Sbjct: 483 PALPVQQAIVDNLRNLNETSRLLVKKCVSKVKALTRLKQSLLQKAFSGE 531



 Score = 81.4 bits (199), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 19/155 (12%), Positives = 51/155 (32%), Gaps = 9/155 (5%)

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS--AYMAVKPHGIDSTYL 333
             +++        G++VF +         +          +      +  K + +   + 
Sbjct: 184 DFKTWTRRVRPQAGDVVFSYETRLGQAAIIPDNI---DCCLGRRMGLVRFKTNEVIPKFF 240

Query: 334 AWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
            +   S        +          +  ++    P+ +P I+EQ  I ++++     ID 
Sbjct: 241 LYQYISPSYRNFLDSKTIRGATVDRISIKEFPFFPIAIPSIEEQKRIVSILDDAFECIDT 300

Query: 392 LVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
            +   E++I   +E   S++      + D  G  +
Sbjct: 301 AIANTEKNIANARELFESYLDRVFAEKGD--GWEE 333


>gi|154150575|ref|YP_001404193.1| restriction modification system DNA specificity subunit [Candidatus
           Methanoregula boonei 6A8]
 gi|153999127|gb|ABS55550.1| restriction modification system DNA specificity domain
           [Methanoregula boonei 6A8]
          Length = 457

 Score =  129 bits (323), Expect = 1e-27,   Method: Composition-based stats.
 Identities = 74/442 (16%), Positives = 145/442 (32%), Gaps = 54/442 (12%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSES-----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           I   W+ VP+ +  K+  G   +S      K    I + D+ +       K         
Sbjct: 21  IDPSWERVPLGKIAKVLNGFAFKSELFNDKKGTPLIRIRDIGNN------KTECYYDGVF 74

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
               +   G +L G  G +           + + +   ++             +     +
Sbjct: 75  DEAYVIHPGDLLVGMDGDFNCST-WRGPKALLNQRVCKIEVNIEQYNRKFLEYVLPGYLK 133

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            I       T+ H   + I  I +P PPL EQ  I  ++ A    ++       R   ++
Sbjct: 134 AINENTSSQTVKHLSSRSISEILLPNPPLTEQQRIVARVEALLSHVNAARERLSRVPLIM 193

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEW---------------------------VGLV 228
           K+ +QA+++   + GL    + ++  IE                            +  +
Sbjct: 194 KKFRQAVLAAACSGGLTEGWRKENPDIEEANKLVKRLESIRKQFKIREISSIDNLELSDL 253

Query: 229 PDHWEVKPFFAL--VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIV 286
           PD W       +  V + + K  K  +  I+ +S  +  +  +      K  S E +  +
Sbjct: 254 PDSWTWIRLANIAIVMDPDHKMPKSSDGGIIFISPKDFKENYQIDMTKTKRISDEEFLRL 313

Query: 287 DPG------EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY 340
                    +I++  I     K       +      + A +       +S YL WL+ S 
Sbjct: 314 SKKFVPRPLDILYSRIGADLGKARKAPQDIKFHISYSLAVIRQLGEMENSDYLFWLLNSM 373

Query: 341 DLCKV-FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR---IDVLVEKI 396
            +    F  + S     L   D+    + +PP+ EQ++I   + +   R   ID  VE  
Sbjct: 374 FIRNQAFENVRSIGVPDLGLRDIDNFIIPLPPLAEQYEIVRRVGLLFERADAIDREVEAA 433

Query: 397 EQSIVLLKERRSSFIAAAVTGQ 418
            +    L     + +  A  G+
Sbjct: 434 TRRCERLT---QAVLGKAFRGE 452



 Score = 60.2 bits (144), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 37/206 (17%), Positives = 66/206 (32%), Gaps = 12/206 (5%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRT----SESGKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
           +  +P  W  + +     +           S   II+I  +D +      + K       
Sbjct: 250 LSDLPDSWTWIRLANIA-IVMDPDHKMPKSSDGGIIFISPKDFKENYQIDMTKTKRISDE 308

Query: 74  DT---STVSIFAKGQILYGKLGPYLRKA----IIADFDGICSTQFLVLQPKDVLPELLQG 126
           +    S   +     ILY ++G  L KA        F    S   +    +    + L  
Sbjct: 309 EFLRLSKKFVPRPLDILYSRIGADLGKARKAPQDIKFHISYSLAVIRQLGEMENSDYLFW 368

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
            L S+ +  +         +     + I N  +P+PPLAEQ  I  ++     R D +  
Sbjct: 369 LLNSMFIRNQAFENVRSIGVPDLGLRDIDNFIIPLPPLAEQYEIVRRVGLLFERADAIDR 428

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLN 212
           E        +   QA++       L 
Sbjct: 429 EVEAATRRCERLTQAVLGKAFRGELT 454


>gi|135207|sp|P06991|T1SD_ECOLX RecName: Full=Type-1 restriction enzyme EcoDI specificity protein;
           Short=S.EcoDI; AltName: Full=Type I restriction enzyme
           EcoDI specificity protein; Short=S protein
 gi|41744|emb|CAA23553.1| hsdS [Escherichia coli]
          Length = 444

 Score =  129 bits (323), Expect = 1e-27,   Method: Composition-based stats.
 Identities = 67/422 (15%), Positives = 152/422 (36%), Gaps = 46/422 (10%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGR----TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           G +P  WK V +    KL+TG+     +++     +    +             NS   D
Sbjct: 4   GKLPVDWKTVELGELIKLSTGKLDANAADNDGQYPFFTCAE--------SVSQINSWAFD 55

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
           TS V +   G               I  + G  +        + +L +    + L     
Sbjct: 56  TSAVLLAGNGSF------------SIKKYTGKFNAYQRTYVIEPILIKTEFLYWLLRGNI 103

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           ++I     G+T+ +     I +I + +P  +EQ LI EK+     ++++      +  ++
Sbjct: 104 KKITENGRGSTIPYIRKGDITDISVALPSPSEQTLIAEKLDTLLAQVESTKARLEQIPQI 163

Query: 195 LKEKKQALVSYIVTKGLNPDVK---------------MKDSGIEWVGLVPDHWEVKPFFA 239
           LK  +QA++++ +   L  + +               +K    + +  +P++W    F  
Sbjct: 164 LKRFRQAVLTFAMNGELTKEWRSQNNNPAFFPAEKNSLKQFRNKELPSIPNNWSWMRFDQ 223

Query: 240 LVTELNRKNTKLIESNILSLSYGN---IIQKLETRNMGLKPESYETYQIVDPGEIVFRFI 296
           +    ++  + L   N + L+  +      K       L+            G+I++  I
Sbjct: 224 VADIASKLKSPLDYPNTIHLAPNHIESWTGKASGYQTILEDGVTSAKHEFYTGQIIYSKI 283

Query: 297 DLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS 356
                K ++ +      G+ ++    +           W++ +        A    +   
Sbjct: 284 RPYLCKVTIATFD----GMCSADMYPINSKIDTHFLFRWMLTNTFTDWASNAESRTVLPK 339

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           +  +D+  +PV  PP+ EQ +I   +    A  D + +++  ++  +     S +A A  
Sbjct: 340 INQKDLSEIPVPTPPLPEQHEIVRRVEQLFAYADTIEKQVNNALARVNNLTQSILAKAFR 399

Query: 417 GQ 418
           G+
Sbjct: 400 GE 401



 Score = 77.1 bits (188), Expect = 5e-12,   Method: Composition-based stats.
 Identities = 47/200 (23%), Positives = 82/200 (41%), Gaps = 2/200 (1%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTG-RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           + +IP +W  +   +   + +  ++     + I++    +ES TGK            TS
Sbjct: 209 LPSIPNNWSWMRFDQVADIASKLKSPLDYPNTIHLAPNHIESWTGKASGYQTILEDGVTS 268

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
               F  GQI+Y K+ PYL K  IA FDG+CS     +  K +    L  W+L+   T  
Sbjct: 269 AKHEFYTGQIIYSKIRPYLCKVTIATFDGMCSADMYPINSK-IDTHFLFRWMLTNTFTDW 327

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
                    +   + K +  IP+P PPL EQ  I  ++       DT+  +    +  + 
Sbjct: 328 ASNAESRTVLPKINQKDLSEIPVPTPPLPEQHEIVRRVEQLFAYADTIEKQVNNALARVN 387

Query: 197 EKKQALVSYIVTKGLNPDVK 216
              Q++++      L    +
Sbjct: 388 NLTQSILAKAFRGELTAQWR 407


>gi|308183634|ref|YP_003927761.1| putative type I restriction enzyme (specificity subunit)
           [Helicobacter pylori PeCan4]
 gi|308065819|gb|ADO07711.1| putative type I restriction enzyme (specificity subunit)
           [Helicobacter pylori PeCan4]
          Length = 399

 Score =  129 bits (323), Expect = 1e-27,   Method: Composition-based stats.
 Identities = 73/409 (17%), Positives = 144/409 (35%), Gaps = 26/409 (6%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           +P +W+ V +    ++N   T  +     YI LE+VE G      +     ++ +    +
Sbjct: 6   LPLNWQRVRLGDIAEINPPTTIPNV--FYYIDLENVEKGQL-LNKQLMTKNKAPSRARRL 62

Query: 81  FAKGQILYGKLGPYLRKAIIADFDG--ICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
            +K  ILY  + PY R       +G  + ST +  ++     P  L   L S      + 
Sbjct: 63  LSKNDILYQLVRPYQRNNYFFTLNGNYVASTGYAQIRT-LQNPSFLYFALHSNYFVNAVL 121

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
             CEG +        +    + IPPL EQ+ I   +      +  L    ++   + K  
Sbjct: 122 DRCEGTSYPAISSNELKKCEVIIPPLNEQIAIANILSGLDRYLCALDALILKKEGVKKAL 181

Query: 199 KQALVSYIVT-KGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
              L+S     KG N   +    G   +G+       K     +    +         I 
Sbjct: 182 SFELLSQRKRLKGFNQAWQRVRLGD--IGITISGLVGKTKQDFINGNAK--------YIT 231

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA--QVMERGI 315
            L+  N +    +    +K    E        ++ F        +  + +     +++  
Sbjct: 232 FLNVLNNVIIDTSILENVKIYPNEKQNSFKKYDLFFNTSSETPKEVGMCAVLLDDIDQVF 291

Query: 316 ITSAYM--AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPI 372
           + S      +    +D  +L++L+ S    K F  +  G  R +L       + + +PP+
Sbjct: 292 LNSFCFGFRIFDKAVDGLFLSYLINSEIGRKAFENLAQGSTRYNLSRSGFNNVCLFLPPL 351

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            EQ  I N+++     I  L  K  Q     +  + +     ++ +I +
Sbjct: 352 NEQIAIANILSALDNEITSLKNKKRQ----FENIKKALNHDLMSAKIRV 396


>gi|163790647|ref|ZP_02185075.1| HsdS specificity protein of type I restriction-modification system
           [Carnobacterium sp. AT7]
 gi|159874095|gb|EDP68171.1| HsdS specificity protein of type I restriction-modification system
           [Carnobacterium sp. AT7]
          Length = 412

 Score =  129 bits (323), Expect = 1e-27,   Method: Composition-based stats.
 Identities = 51/401 (12%), Positives = 130/401 (32%), Gaps = 18/401 (4%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            +W    +   + +++G T   G+      DI +    +V+        +       + S
Sbjct: 17  NNWVKCELGEVSDISSGGTPSRGESSYWNGDIPWATTAEVKYSEITDTKEKITIDGLNNS 76

Query: 77  TVSIFAKGQILYGKLGP--YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
           +  +   G IL    G      +  I   +   +     +Q    +      + L     
Sbjct: 77  SAKLMPVGTILLAMYGQGKTRGQLGILSIEAATNQANANIQVHRYIYNYFVYYQLVKKY- 135

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             +  +      ++     + ++ + +    ++ L   KI     ++D +IT + + +  
Sbjct: 136 NLLRNLANEGGQANLSLGIVKSVNIVVTNNLDEQL---KIGEFFKQLDNIITLQQQLLND 192

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
            K+ K+A++  +  +      K++ +G            +    A        N      
Sbjct: 193 HKQLKKAMLQKMFPQKGESIPKIRFAGFTQKWENLKLSSLYVKGASGGTPKSTNKSYYIG 252

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
           NI  L   +I           K  S E         +    I L       + A +    
Sbjct: 253 NIPFLGISDISASNGYIYDTKKRISQEGLDSSSAWLVPKEAISLAMYASVGKVAILKTDV 312

Query: 315 IITSAYMAVKPHGI--DSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI 372
             + A+  +    I   +    +L++          + +G + +L  + ++ L ++VP +
Sbjct: 313 ATSQAFYNMIFKDIATRNFIFQYLLKKESTNGWNKLISTGTQANLNAKKIQDLQIMVPSL 372

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           +EQ  I +       ++D  +   E+ +   +  + + +  
Sbjct: 373 EEQEKIGD----LFGKLDKTITLHEKKLETYQNLKKAMLQK 409


>gi|302343958|ref|YP_003808487.1| restriction modification system DNA specificity domain protein
           [Desulfarculus baarsii DSM 2075]
 gi|301640571|gb|ADK85893.1| restriction modification system DNA specificity domain protein
           [Desulfarculus baarsii DSM 2075]
          Length = 411

 Score =  129 bits (323), Expect = 1e-27,   Method: Composition-based stats.
 Identities = 82/407 (20%), Positives = 149/407 (36%), Gaps = 30/407 (7%)

Query: 24  HWKVVPIKRFTKLNT--GRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
            WK+V      K      R  E+      +GLE ++        +  NS    TS    F
Sbjct: 9   GWKMVKFGEVVKNANLVEREPEANGVEKIVGLEHIDPENLHI--RRWNSVVDGTSFTRKF 66

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV---LPELLQGWLLSIDVTQRIE 138
             GQ L+GK   Y RK   A+F+GICS   L  +PK+    LPELL     S        
Sbjct: 67  VPGQTLFGKRRAYQRKVAYAEFEGICSGDILTFEPKNRKVLLPELLPFICQSNAFFDHAL 126

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
               G+      W  + +    +PPL EQ  I E + A     +                
Sbjct: 127 GTSAGSLSPRTSWTALQDFEFQLPPLDEQKRIAEILWAADEAFNQHQQSNDNL----MSV 182

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK-NTKLIESNIL 257
           K+ L+S +  +G+      + +    +G +P HW +     + +      +  L ES   
Sbjct: 183 KRTLLSRLTVRGIG----QQATQHTRLGEIPVHWRLATVEDVTSICQYGLSIPLNESGQY 238

Query: 258 SLSYGNIIQKLETRNMGLKPESYE----TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
            +               LK    +        V  G+I+F   +  +    +    +   
Sbjct: 239 PILRMMNYDDGRIIANDLKYVDLDDSDFNSFKVHKGDILFNRTNSADLVGKVGIFDLEGD 298

Query: 314 GIITSAYMA--VKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GL-RQSLKFEDVKRLPVLV 369
            +  S  +        I   +L + + S    +   A  + G+ + ++   ++K++ V +
Sbjct: 299 YVFASYLVRLRADEDQILPDFLNYYLNSGLGQRRLLAYATPGVSQTNISAGNLKKVLVPL 358

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQS-IVLLKERRSSFIAAAV 415
           PP++EQ  I  V+N        L + ++++ +   ++  ++ I   V
Sbjct: 359 PPMEEQKQIVEVLNNL-----ELRKHLQRNHVAEAQKCLAALINNLV 400



 Score = 58.3 bits (139), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 38/170 (22%), Positives = 68/170 (40%), Gaps = 10/170 (5%)

Query: 18  IGAIPKHWKVVPIKRFTKL-NTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           +G IP HW++  ++  T +   G +    +   Y  L  +    G+ +  D      D S
Sbjct: 205 LGEIPVHWRLATVEDVTSICQYGLSIPLNESGQYPILRMMNYDDGRIIANDLKYVDLDDS 264

Query: 77  --TVSIFAKGQILYGKLGP--YLRKAIIADFDG-ICSTQFLVL---QPKDVLPELLQGWL 128
                   KG IL+ +      + K  I D +G      +LV        +LP+ L  +L
Sbjct: 265 DFNSFKVHKGDILFNRTNSADLVGKVGIFDLEGDYVFASYLVRLRADEDQILPDFLNYYL 324

Query: 129 LSIDVTQRIEAICE-GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
            S    +R+ A    G + ++     +  + +P+PP+ EQ  I E +   
Sbjct: 325 NSGLGQRRLLAYATPGVSQTNISAGNLKKVLVPLPPMEEQKQIVEVLNNL 374


>gi|183597751|ref|ZP_02959244.1| hypothetical protein PROSTU_01052 [Providencia stuartii ATCC 25827]
 gi|188023031|gb|EDU61071.1| hypothetical protein PROSTU_01052 [Providencia stuartii ATCC 25827]
          Length = 376

 Score =  129 bits (323), Expect = 1e-27,   Method: Composition-based stats.
 Identities = 68/404 (16%), Positives = 146/404 (36%), Gaps = 38/404 (9%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           +P  WK   + +   +  G+  +            +E G+       G        +  +
Sbjct: 2   VPNGWKQTTLDKVLTIGGGKDYK-----------HLEEGSIPVYGSGGYMLSV---SDYL 47

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
           +    +  G+ G   +   +        T F     KD  P  +  +  ++        +
Sbjct: 48  YDGESVCIGRKGTIDKPIFLKGKFWTVDTLFYTHSFKDSEPYYIYQFFQTV----PWRRL 103

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
            E + +       I  + + +PPL EQ  I + +       D  I    + I+  +++K+
Sbjct: 104 NEASGVPSLAKSIINKVKINLPPLPEQRKIAKIL----STWDKAIATTEKLIDASQQQKK 159

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
           AL+  ++T      +   ++G  + G     WE  P    + E   K++   +  + + S
Sbjct: 160 ALMQQLLTGK--KRLVNPETGKAFEGE----WEEVPLSNWLVEFKEKSSAQDQHRVYTSS 213

Query: 261 YGNIIQKLETR-NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
              ++ + E   N  +       + I+ PG + +R         +    +  E GII+  
Sbjct: 214 RSGLVPQDEYFGNSRISDRKNIGFHILPPGHMTYRSRSDDGY-FTFNLFKGNENGIISHY 272

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDI 378
           Y      G +  ++A L        VF     G  ++ L F  +K +   VP   EQ  I
Sbjct: 273 YPVFTSKGSNDFFIALL---EQYRNVFGKHSVGTSQKVLSFNALKAIRFFVPSTYEQQKI 329

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
            +V+          +E ++  +  LK+ + + +   +TG+  ++
Sbjct: 330 ASVLIAADKE----IELLQAKLAHLKDEKKALMQQLLTGKRRVK 369


>gi|197334792|ref|YP_002156836.1| restriction modification system DNA specificity domain protein
           [Vibrio fischeri MJ11]
 gi|197316282|gb|ACH65729.1| restriction modification system DNA specificity domain protein
           [Vibrio fischeri MJ11]
          Length = 376

 Score =  128 bits (322), Expect = 1e-27,   Method: Composition-based stats.
 Identities = 53/404 (13%), Positives = 123/404 (30%), Gaps = 42/404 (10%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W    +    KL  G+  +            +    GKY     N  ++ +       +
Sbjct: 2   SWVEKSLDEVLKLEYGKPLDKS----------LRKEGGKYPAYGANGIKAWSDEYFH-DE 50

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
             I+ G+ G      +           + V   K+        +LL       +    + 
Sbjct: 51  ETIVVGRKGSAGELTLTDGKFWPLDVTYFVKTNKNDYDIKFLYYLLLSLDLPSLATGVK- 109

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
                 +   +  I    P  + Q  +  ++      I+   T   + ++  +E   + +
Sbjct: 110 ---PGINRNNVYKIQAKFPSYSTQKQVAGQLDKAFDGIEQARTNTEKNLQNARELFDSYL 166

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL--IESNILSLSY 261
             + +                     + W+      L T+     +     E  +  +  
Sbjct: 167 QQVFS------------------ECGEGWKKTTLNELCTKFEYGTSSKSSQEGEVPVIRM 208

Query: 262 GNIIQKLETRNMGLKP--ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
           GNI       +  +    E       ++  +++F   +           +  ER I    
Sbjct: 209 GNIQDGRIVMDKLVYSLNEEDNQKYRLNFNDVLFNRTNSAELVGKTAIYKSEERAIFAGY 268

Query: 320 YMAVKPHGI--DSTYLAWLMRSYDLCKV--FYAMGSGLRQSLKFEDVKRLPVLVP-PIKE 374
            + +  +    ++ YL + + S    K        S  + ++    +K  P+ +P  ++E
Sbjct: 269 LIRIHRNEKLLNADYLNFYLNSPIARKYGEQVMSQSTNQANISGTKLKTYPISIPVSLEE 328

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           Q  I + I+    +++ L    +  +  L E + S +  A TGQ
Sbjct: 329 QQSIVDKISTLKEKVEELEATHKSKLTALDELKQSLLQQAFTGQ 372



 Score = 57.1 bits (136), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 33/201 (16%), Positives = 70/201 (34%), Gaps = 12/201 (5%)

Query: 23  KHWKVVPIKRFT-KLNTGRTSESGK--DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           + WK   +     K   G +S+S +  ++  I + +++ G         +  + D     
Sbjct: 175 EGWKKTTLNELCTKFEYGTSSKSSQEGEVPVIRMGNIQDGRIVMDKLVYSLNEEDNQKYR 234

Query: 80  IFAKGQILYGKLGP---YLRKAIIA-DFDGICSTQFLVLQPKDVL---PELLQGWLLSID 132
           +     +L+ +        + AI   +   I +   + +   + L     L       I 
Sbjct: 235 L-NFNDVLFNRTNSAELVGKTAIYKSEERAIFAGYLIRIHRNEKLLNADYLNFYLNSPIA 293

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRIDTLITERIRF 191
                + + +    ++     +   P+ IP  L EQ  I +KI     +++ L       
Sbjct: 294 RKYGEQVMSQSTNQANISGTKLKTYPISIPVSLEEQQSIVDKISTLKEKVEELEATHKSK 353

Query: 192 IELLKEKKQALVSYIVTKGLN 212
           +  L E KQ+L+    T  L 
Sbjct: 354 LTALDELKQSLLQQAFTGQLT 374


>gi|217977716|ref|YP_002361863.1| type I restriction enzyme [Methylocella silvestris BL2]
 gi|217503092|gb|ACK50501.1| type I restriction enzyme [Methylocella silvestris BL2]
          Length = 439

 Score =  128 bits (322), Expect = 1e-27,   Method: Composition-based stats.
 Identities = 77/412 (18%), Positives = 156/412 (37%), Gaps = 17/412 (4%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYIG-LEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
             K   +     +    + ++ +     V+     +  ++  SR           +G  +
Sbjct: 5   RFKNVMRERVDLSETGEETLLSVSEYYGVKPRAEAFQGEEYESRAESLEGYRQVQRGDFV 64

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQP--KDVLPELLQGWLLSIDVTQRIEAICEG-- 143
              +  +     I+++DGI S  + V Q     +  + L     S  +     +  +G  
Sbjct: 65  MNYMLAWKGAYGISEYDGIVSPAYAVFQIDKSKIDLKYLHHRTRSNPMRALFRSRSKGII 124

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
            +        +    + +P LA Q +I + +  ET RID LI ++ RF  L  E+ +A +
Sbjct: 125 DSRLRLYPDALLATEIDLPGLAAQKVIADFLDRETARIDQLIEKKERFSALAAERWRATL 184

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
              +        +   SG  ++  VP  W + P   LV         ++       +   
Sbjct: 185 DAEILGRTTAGKRSLTSGQPYISDVPADWVLTPLKHLVDPRRPVMYGIVLPGPNVENGIM 244

Query: 264 IIQKLETRNMGLKPESYET----------YQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
           I++  + +   L P+                 +  G++V        D   +  A +   
Sbjct: 245 IVKGGDVKPNRLSPDRLCKTSREIEAGYVRSRLRGGDLVMAIRGGIGDVE-IVPADIEGA 303

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPI 372
            +   A      HG+ + +L + +++  +     A  +G   + +   DV R+ V VPP 
Sbjct: 304 NLTQDAARIAPRHGVLNRWLRYALQAPSVFAPLGAGANGAAVRGVNIFDVDRVLVPVPPT 363

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGE 424
            EQ  I + ++++  +I  + EKI     L++E R++ I AAV GQI++   
Sbjct: 364 AEQIVIADRLDIKEQQILRMREKIFDHAKLIQEFRAALITAAVAGQINVDTW 415



 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 37/213 (17%), Positives = 78/213 (36%), Gaps = 15/213 (7%)

Query: 13  SGVQWIGAIPKHWKVVPIKRFTKLNT----GRT---SESGKDIIYIGLEDVESGTGKYLP 65
           SG  +I  +P  W + P+K           G           I+ +   DV+    +  P
Sbjct: 201 SGQPYISDVPADWVLTPLKHLVDPRRPVMYGIVLPGPNVENGIMIVKGGDVKPN--RLSP 258

Query: 66  KDGNSRQSDTSTVSI---FAKGQILYGKLGPYLRKAIIA---DFDGICSTQFLVLQPKDV 119
                   +     +      G ++    G      I+    +   +      +     V
Sbjct: 259 DRLCKTSREIEAGYVRSRLRGGDLVMAIRGGIGDVEIVPADIEGANLTQDAARIAPRHGV 318

Query: 120 LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
           L   L+  L +  V   + A   GA +   +   +  + +P+PP AEQ++I +++  +  
Sbjct: 319 LNRWLRYALQAPSVFAPLGAGANGAAVRGVNIFDVDRVLVPVPPTAEQIVIADRLDIKEQ 378

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVTKGLN 212
           +I  +  +     +L++E + AL++  V   +N
Sbjct: 379 QILRMREKIFDHAKLIQEFRAALITAAVAGQIN 411


>gi|134097471|ref|YP_001103132.1| restriction modification system DNA specificity domain-containing
           protein [Saccharopolyspora erythraea NRRL 2338]
 gi|133910094|emb|CAM00207.1| putative restriction modification system DNA specificity domain
           [Saccharopolyspora erythraea NRRL 2338]
          Length = 411

 Score =  128 bits (322), Expect = 1e-27,   Method: Composition-based stats.
 Identities = 83/403 (20%), Positives = 141/403 (34%), Gaps = 12/403 (2%)

Query: 27  VVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQI 86
           VVP+K    +  G+   S +    I       G  ++       R    +   I   G +
Sbjct: 3   VVPLKYVAYIRPGQAPPSTEVSDLIDGLPFLQGNAEFQAAHPVPRLQCDTASKIAKCGDV 62

Query: 87  LYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATM 146
           L     P     I     GI      V             W       +R++A+  G T 
Sbjct: 63  LLSVRAPVGALNIADREYGIGRGLCSVSATGCD---ARFLWWWLHSAGERLDAVSTGTTY 119

Query: 147 SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYI 206
                + +G +P P   L EQ  I + + AET RID L   R R +++L+EK    V   
Sbjct: 120 RAVTGEDVGMLPFPRVSLEEQRRIADFLDAETTRIDKLSALRERQLDILEEKAMRRVYDT 179

Query: 207 VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ 266
           V  G       + SG+ W+G VP HW V            K      +    L     + 
Sbjct: 180 VR-GTGVVGARRPSGLSWLGSVPVHWRVAAVSHYFEVELGKMLNQERARGDHLRPYLRVA 238

Query: 267 KLETRNMGLK-------PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
            ++   +          P   +    + PG+++         + ++ S ++ E     + 
Sbjct: 239 NVQWGVVDTTELAMMDFPPEEQKRYRLQPGDLLVNEGGSWPGRAAVWSGEIEEIYYQKAL 298

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
           +         + +L + + + +  KVF   G S     L  E ++      P + EQ   
Sbjct: 299 HRIRPRGMESTWWLYFCLVAAERMKVFQVQGNSSTMTHLTREQLRPQRFPFPDLAEQEQA 358

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
              +    A+   +   + +    L ERR + I AAVTG+ D+
Sbjct: 359 VERLKDAEAKDRQIRRVLSRQQATLAERRQALITAAVTGEFDV 401



 Score = 77.9 bits (190), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 36/211 (17%), Positives = 80/211 (37%), Gaps = 9/211 (4%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKRFTKLNTGR-----TSESGKDIIYIGLEDVESGTGKYLP 65
           + SG+ W+G++P HW+V  +  + ++  G+      +       Y+ + +V+ G      
Sbjct: 190 RPSGLSWLGSVPVHWRVAAVSHYFEVELGKMLNQERARGDHLRPYLRVANVQWGVVDTTE 249

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD---FDGICSTQFLVLQPKDVLPE 122
                   +         G +L  + G +  +A +      +         ++P+ +   
Sbjct: 250 LAMMDFPPEEQKRYRLQPGDLLVNEGGSWPGRAAVWSGEIEEIYYQKALHRIRPRGMEST 309

Query: 123 LLQGWLLSIDVTQRIEAIC-EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
               + L      ++  +    +TM+H   + +     P P LAEQ    E++     + 
Sbjct: 310 WWLYFCLVAAERMKVFQVQGNSSTMTHLTREQLRPQRFPFPDLAEQEQAVERLKDAEAKD 369

Query: 182 DTLITERIRFIELLKEKKQALVSYIVTKGLN 212
             +     R    L E++QAL++  VT   +
Sbjct: 370 RQIRRVLSRQQATLAERRQALITAAVTGEFD 400


>gi|301022250|ref|ZP_07186148.1| type I restriction modification DNA specificity domain protein
           [Escherichia coli MS 196-1]
 gi|135206|sp|P06990|T1SB_ECOLX RecName: Full=Type-1 restriction enzyme EcoBI specificity protein;
           Short=S.EcoBI; AltName: Full=Type I restriction enzyme
           EcoBI specificity protein; Short=S protein
 gi|41742|emb|CAA23552.1| hsdS [Escherichia coli]
 gi|299881300|gb|EFI89511.1| type I restriction modification DNA specificity domain protein
           [Escherichia coli MS 196-1]
          Length = 474

 Score =  128 bits (322), Expect = 1e-27,   Method: Composition-based stats.
 Identities = 62/416 (14%), Positives = 140/416 (33%), Gaps = 29/416 (6%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
            W  + +     +  G   +S +       +  I + DV  G                  
Sbjct: 24  SWLRISMDSVANITNGFAFKSSEFNNRKDGVPLIRIRDVLKGN------TSTYYSGQIPE 77

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
                   ++ G  G +    I      + + +   ++ ++        +         I
Sbjct: 78  GYWVYPEDLIVGMDGDF-NATIWCSEPALLNQRVCKIEVQEDKYNKRFFYHALPGYLSAI 136

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
            A     T+ H   + + +  +P+PPLAEQ +I EK+     ++D+      +  ++LK 
Sbjct: 137 NANTSSVTVKHLSSRTLQDTLLPLPPLAEQKIIAEKLDTLLAQVDSTKARLEQIPQILKR 196

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLV----PDHW----------EVKPFFALVTE 243
            +QA+++  VT  L  + K   +    +       P+ W            +P    V +
Sbjct: 197 FRQAVLAAAVTGRLTKEDKDFITKKVELDNYKILIPEDWSETILNNIINTQRPLCYGVVQ 256

Query: 244 LNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKR 303
                   IE   +       +     R +  + +       V   +I+   +     + 
Sbjct: 257 PGDDIKDGIELIRVCDINDGEVDLNHLRKISKEIDLQYKRSKVRKNDILVTIVGAIG-RI 315

Query: 304 SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC-KVFYAMGSGLRQSLKFEDV 362
            +    +        A ++ +   I   +L   + S  +   +  +     R++L  +D+
Sbjct: 316 GIVREDINVNIARAVARISPEYKIIVPMFLHIWLSSPVMQTWLVQSSKEVARKTLNLKDL 375

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           K   V +P I+EQ +I   +    A  D + +++  ++  +     S +A A  G+
Sbjct: 376 KNAFVPLPSIEEQHEIVRRVEQLFAYADSIEKQVNNALARVNNLTQSILAKAFRGE 431



 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 33/207 (15%), Positives = 67/207 (32%), Gaps = 11/207 (5%)

Query: 21  IPKHWKVVPIKRFTKLNT----GRTSESG---KDIIYIGLEDVESGTGKYLPKDGNSRQS 73
           IP+ W    +            G           I  I + D+  G          S++ 
Sbjct: 231 IPEDWSETILNNIINTQRPLCYGVVQPGDDIKDGIELIRVCDINDGEVDLNHLRKISKEI 290

Query: 74  DTS-TVSIFAKGQILYGKLGPYLRKAIIADFDGI-CSTQFLVLQPKDVL--PELLQGWLL 129
           D     S   K  IL   +G   R  I+ +   +  +     + P+  +  P  L  WL 
Sbjct: 291 DLQYKRSKVRKNDILVTIVGAIGRIGIVREDINVNIARAVARISPEYKIIVPMFLHIWLS 350

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
           S  +   +    +       + K + N  +P+P + EQ  I  ++       D++  +  
Sbjct: 351 SPVMQTWLVQSSKEVARKTLNLKDLKNAFVPLPSIEEQHEIVRRVEQLFAYADSIEKQVN 410

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVK 216
             +  +    Q++++      L    +
Sbjct: 411 NALARVNNLTQSILAKAFRGELTAQWR 437


>gi|21228805|ref|NP_634727.1| type I restriction-modification system specificity subunit
           [Methanosarcina mazei Go1]
 gi|20907324|gb|AAM32399.1| type I restriction-modification system specificity subunit
           [Methanosarcina mazei Go1]
          Length = 440

 Score =  128 bits (322), Expect = 1e-27,   Method: Composition-based stats.
 Identities = 59/421 (14%), Positives = 135/421 (32%), Gaps = 40/421 (9%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +P+ W    IK    +N G+  +           D   G       +G          S
Sbjct: 6   ELPEGWAECQIKDIVVINYGKGLKK---------SDRVEGQFDVFGSNGIV---GKHNQS 53

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           +     ++ G+ G      + ++      T + +     +    L   L ++++      
Sbjct: 54  LTNGPTVIIGRKGSVGEINLSSEPCWPIDTTYYIDNFYGINRIFLYYLLKTLNL----AN 109

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
                 +   +   I +  +P+PPL+EQ  I   I A   R+D    +  R  E+LK+ +
Sbjct: 110 YDTSTAIPGINRNDIYSQLVPLPPLSEQHRIVSAIEALFARLDATNEKLDRVQEILKKFR 169

Query: 200 QALVSYIVTKGLNPDV---KMKDSGIEWVGLV----------PDHWEVKPF---FALVTE 243
           +++++      L  +     +  +    +             P  W         + V +
Sbjct: 170 ESVLAAACDGRLTEEWRKENLHCNEYFAIDEDQFNLVKQWRIPTVWSWSTLEDSCSHVVD 229

Query: 244 LNRKNTKLIESNILSLSYGNIIQK-LETRNMGLKPE----SYETYQIVDPGEIVFRFIDL 298
                 K  +  +  +    +    ++  N     E              G+I++     
Sbjct: 230 CPHSTPKWTDIGVYCVRTSELKCGHIDFSNAKYVSEATYLERIKRLKPQEGDILYSREGT 289

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSL 357
                 + S   +   +     +    + +  ++   ++ S  +                
Sbjct: 290 VGIASLVPSNVKI--CLGQRLMLFRTKNNLIPSFFVKVLNSPYIYDSVKKSTMGSTAPRF 347

Query: 358 KFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
              D+K+ P  +PP+ EQ +I   ++   A  D +  K+  +    ++ R S +A A +G
Sbjct: 348 NVADIKKFPTPLPPLPEQQEIVRRVDALFAFADSIETKVAAAREKTEKLRQSILAKAFSG 407

Query: 418 Q 418
           Q
Sbjct: 408 Q 408


>gi|158522104|ref|YP_001529974.1| restriction modification system DNA specificity subunit
           [Desulfococcus oleovorans Hxd3]
 gi|158510930|gb|ABW67897.1| restriction modification system DNA specificity domain
           [Desulfococcus oleovorans Hxd3]
          Length = 477

 Score =  128 bits (322), Expect = 1e-27,   Method: Composition-based stats.
 Identities = 65/442 (14%), Positives = 136/442 (30%), Gaps = 57/442 (12%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           +P+ W   P+++ +++  G+     K           +  G Y     NS      +  +
Sbjct: 5   LPEGWVAAPLQKISQIVYGKGLPKNK----------FNKQGLYPVFGANSIIGYYDS-FL 53

Query: 81  FAKGQILYGKLGPYLRKAII-ADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           +   Q+L    G       I      + S   +V  P  +       +          E 
Sbjct: 54  YEDPQVLISCRGANSGTINISPPKCFVTSNSLVVQLPNTLHQSFKYLYYALES--SDKEK 111

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
           I  G          + +  +P+PP  EQ  I  ++     RID L T   +   ++K  +
Sbjct: 112 IVTGTAQPQVTIDNLKSFCVPLPPFNEQKRIVARLDQIIPRIDKLKTRLDKIPTIIKRFR 171

Query: 200 QALVSYIVTKGLNPDVKMKDSGIE------------------------------------ 223
           Q++++  VT  L    +     +E                                    
Sbjct: 172 QSVLTAAVTGRLTEKWREDHPDVEGAEATVQSIYYRRLDESQTNQQKNKIEKLFAEVETE 231

Query: 224 WVGLVPDHWEVKPFFALVTELNRKNTKLIES--NILSLSYGNIIQK-LETRNMGLKPESY 280
             GL+P+ W+      +        +       +I  L  GN+    ++  N+       
Sbjct: 232 DNGLLPETWKYTFLNKICESFQYGTSSKSSKKGDIPVLRMGNLQNGAIDWSNLVYSSNKK 291

Query: 281 E-TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM-AVKPHGIDSTYLAWLMR 338
           E     ++   ++F   +                 I     +       +DS YL + + 
Sbjct: 292 EIEKYKLEKNTVLFNRTNSPELVGKTAIYLGERAAIFAGYLIRINNMDILDSHYLNYSLN 351

Query: 339 SYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
           +           +    + ++  + + R  +  PP++EQ +I   +    A  D L    
Sbjct: 352 TDYAKAFCNREKTDGVNQSNINAQKLGRFEIPFPPLEEQKEIVRQVERSFALADKLEAHY 411

Query: 397 EQSIVLLKERRSSFIAAAVTGQ 418
           + +   + +   S +A A  G+
Sbjct: 412 QNARARVDKLARSVLAKAFRGE 433



 Score = 71.0 bits (172), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 33/216 (15%), Positives = 79/216 (36%), Gaps = 10/216 (4%)

Query: 19  GAIPKHWKVVPIKRFTK-LNTGRTSESGK--DIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           G +P+ WK   + +  +    G +S+S K  DI  + + ++++G   +     +S + + 
Sbjct: 234 GLLPETWKYTFLNKICESFQYGTSSKSSKKGDIPVLRMGNLQNGAIDWSNLVYSSNKKEI 293

Query: 76  STVSIFAKGQILYGKLGP---YLRKAIIADFDGICSTQFLVLQPKDVL-PELLQGWLLSI 131
               +  K  +L+ +        + AI           +L+      +       + L+ 
Sbjct: 294 EKYKL-EKNTVLFNRTNSPELVGKTAIYLGERAAIFAGYLIRINNMDILDSHYLNYSLNT 352

Query: 132 DVTQ--RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
           D  +        +G   S+ + + +G   +P PPL EQ  I  ++       D L     
Sbjct: 353 DYAKAFCNREKTDGVNQSNINAQKLGRFEIPFPPLEEQKEIVRQVERSFALADKLEAHYQ 412

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWV 225
                + +  +++++      L P     +   + +
Sbjct: 413 NARARVDKLARSVLAKAFRGELTPQDPNDEPAEKLL 448


>gi|254415490|ref|ZP_05029250.1| Type I restriction modification DNA specificity domain protein
           [Microcoleus chthonoplastes PCC 7420]
 gi|196177671|gb|EDX72675.1| Type I restriction modification DNA specificity domain protein
           [Microcoleus chthonoplastes PCC 7420]
          Length = 424

 Score =  128 bits (322), Expect = 1e-27,   Method: Composition-based stats.
 Identities = 62/411 (15%), Positives = 131/411 (31%), Gaps = 20/411 (4%)

Query: 25  WKVVPIKRFTKLNTGRTSESG------KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           W+   +       +G T           +I +    +++        +         S  
Sbjct: 16  WQWKKLSELANTTSGGTPRRNHLEYFQGNINWFKSGELKDAEIFDSEEKITVEAIKESNA 75

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV----LPELLQGWLLSIDVT 134
            IF KG +L    G  + K  +   +   +     + PK      L      +     + 
Sbjct: 76  KIFPKGTLLIAMYGATVGKLGLLGVEAATNQAICAIFPKKQFGLPLLNNWFLFYYFKYIR 135

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
            ++     GA   +     I    +PIP   + +L  +       RI++L+ E     +L
Sbjct: 136 HQLINRSFGAAQPNISQTLIKETYIPIPFPKDIILSLDVQNRIVSRIESLLGELKGDHQL 195

Query: 195 --LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
                +  + V       L  ++  K      +G +     +K         + +N +  
Sbjct: 196 LDKMRRDTSRVMEATLTELINEIDKKYPDSPTIGELLSSKYIKILG--GGTPSTENEEYW 253

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPES---YETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
             +I   S  ++ +           ++    +   IV  G ++     +           
Sbjct: 254 GGSIPWTSPRDMKRWYIDTTQKYISQTALQDKKLNIVPEGSVLIVVRGMILAHTLPVGVT 313

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRS--YDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
             E  I       V    + S YL +++R+    + +       G R  LK + +K++ +
Sbjct: 314 KNEVTINQDMKALVPEKNLLSEYLGYILRARAPFILQQVETAAHGTR-RLKTDTLKKVVI 372

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            +  I EQ  I   +N    ++  +   ++Q   LL+    S +  A  GQ
Sbjct: 373 PIVSISEQRSIIEYLNFFQTKVHEMKNIMQQDAQLLERLEQSILEKAFQGQ 423


>gi|71900230|ref|ZP_00682368.1| similar to Restriction endonuclease S subunits [Xylella fastidiosa
           Ann-1]
 gi|71730003|gb|EAO32096.1| similar to Restriction endonuclease S subunits [Xylella fastidiosa
           Ann-1]
          Length = 307

 Score =  128 bits (322), Expect = 2e-27,   Method: Composition-based stats.
 Identities = 89/263 (33%), Positives = 136/263 (51%), Gaps = 4/263 (1%)

Query: 14  GVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
           G++W+  +P HW+V  +K   +  + +++   +D IY+ LE V+S TG   P  G     
Sbjct: 27  GIEWLQDVPGHWEVQRLKFIARNMSEQSTVKARDEIYLALEHVQSWTGVARPLKGTV--E 84

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKD--VLPELLQGWLLSI 131
             STV  F    IL+GKL PYL K   A+  G+C ++FLVL+P+   +LP  L+  L   
Sbjct: 85  FASTVKRFFADDILFGKLRPYLAKVTRANCVGVCVSEFLVLRPRKELILPSYLEHLLRCK 144

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            V   I +   GA M   DW  IGN+ +P+PPL EQ  I   + A+ V I   I  +   
Sbjct: 145 RVIDLINSATAGAKMPRVDWAFIGNVRLPLPPLPEQKQIAAYLRAQDVHIARFIKVKRDL 204

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           I+LL E+K  ++ + VT+GL+  V +K SGIEW+G VP HW+       V+ ++   T  
Sbjct: 205 IKLLTEQKLRIIDHAVTRGLDASVALKPSGIEWLGDVPVHWDTSRLKYCVSRIHAGGTPD 264

Query: 252 IESNILSLSYGNIIQKLETRNMG 274
              +       + I  L   ++ 
Sbjct: 265 TGVDGYWSDSSDGIPWLLIADVT 287



 Score = 94.5 bits (233), Expect = 3e-17,   Method: Composition-based stats.
 Identities = 44/223 (19%), Positives = 86/223 (38%), Gaps = 3/223 (1%)

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
           + +KK  + +  VT   +  V +   GIEW+  VP HWEV+    +   ++ ++T     
Sbjct: 1   MTQKKHTISTAAVTSRHDASVPLPTFGIEWLQDVPGHWEVQRLKFIARNMSEQSTVKARD 60

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
            I              R +    E   T +     +I+F  +     K  +  A  +   
Sbjct: 61  EIYLALEHVQSWTGVARPLKGTVEFASTVKRFFADDILFGKLRPYLAK--VTRANCVGVC 118

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIK 373
           +     +  +   I  +YL  L+R   +  +  +  +G     + +  +  + + +PP+ 
Sbjct: 119 VSEFLVLRPRKELILPSYLEHLLRCKRVIDLINSATAGAKMPRVDWAFIGNVRLPLPPLP 178

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           EQ  I   +  +   I   ++     I LL E++   I  AVT
Sbjct: 179 EQKQIAAYLRAQDVHIARFIKVKRDLIKLLTEQKLRIIDHAVT 221



 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/77 (22%), Positives = 33/77 (42%), Gaps = 10/77 (12%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKR-FTKLNTGRTSESG---------KDIIYIGLEDVESGT 60
           K SG++W+G +P HW    +K   ++++ G T ++G           I ++ + DV    
Sbjct: 231 KPSGIEWLGDVPVHWDTSRLKYCVSRIHAGGTPDTGVDGYWSDSSDGIPWLLIADVTRAD 290

Query: 61  GKYLPKDGNSRQSDTST 77
                K   ++    S 
Sbjct: 291 RVVGSKKRVTQAGLESK 307


>gi|294676511|ref|YP_003577126.1| type I restriction-modification system RcaSBIP subunit S
           [Rhodobacter capsulatus SB 1003]
 gi|294475331|gb|ADE84719.1| type I restriction-modification system RcaSBIP, S subunit
           [Rhodobacter capsulatus SB 1003]
          Length = 541

 Score =  128 bits (322), Expect = 2e-27,   Method: Composition-based stats.
 Identities = 66/415 (15%), Positives = 151/415 (36%), Gaps = 24/415 (5%)

Query: 20  AIPKHWKVVPIKRFT--KLNTGRTSESGKDIIYIGLEDVESGTGKYL-PKDGNSRQSDTS 76
            +P  W    + + T     T  T    +   YI +  +++ T     PK    R + + 
Sbjct: 3   ELPNGWAETTLGKVTLPFETTDPTRRPDETFQYIDIGSIDNQTQTITQPKSILGRDAPSR 62

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDG---ICSTQFLVLQPKDVLP-ELLQGWLLSID 132
              +  K  +L+  +  YL+   +        + ST   VL+P + L    L  W+ S +
Sbjct: 63  ARRVVKKDDVLFSTVRTYLKNIAVVPESLDSQLTSTGIAVLRPSEALDGRYLFNWVKSDE 122

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
               +    +G        K +    +P+PPL EQ  I  K+   T R      +  R  
Sbjct: 123 FISTMSKAQDGTLYPAVTDKDVSGGRIPLPPLHEQKRIVAKVDGLTARTARARADLDRIP 182

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
            L+   KQ+L++   +  L    +   +  ++     +  ++      VT+ + +     
Sbjct: 183 TLIARYKQSLLALAFSGELTAGWRKTKALNDF-----ETVKLHSLCLSVTDGDHQAPPRS 237

Query: 253 ESNILSLSYGNIIQKLETRNMGL------KPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
           +S I  ++   +       +           +  +  +    G+++F           + 
Sbjct: 238 DSGIPFITISAMNTGRIDLSKATRAVPRSYFDEIKESRRPAIGDVLFSVTGSIGIPALV- 296

Query: 307 SAQVMERGIITSAYMAVKPHGI--DSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVK 363
             +     +       +KP+       +L++L+ S  + +   A+ +G  + ++    ++
Sbjct: 297 --ETDLPFVFQRHIAIMKPNTERVSGRFLSYLLASPQIREQVDAIATGTAQLTVPLGGLR 354

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           +     P ++EQ +I  +I      +D +      +  LL +  ++ +A A  G+
Sbjct: 355 QFDFPCPTLEEQAEIVRLITSAFNWVDRMAADHAAAADLLPKLDAAILAKAFRGE 409


>gi|117921400|ref|YP_870592.1| restriction modification system DNA specificity subunit [Shewanella
           sp. ANA-3]
 gi|117613732|gb|ABK49186.1| restriction modification system DNA specificity domain [Shewanella
           sp. ANA-3]
          Length = 587

 Score =  128 bits (322), Expect = 2e-27,   Method: Composition-based stats.
 Identities = 85/460 (18%), Positives = 157/460 (34%), Gaps = 69/460 (15%)

Query: 21  IPKHWKVVPIKRFTKLNTG------RTSESGKDIIYIGLEDVES------GTGKYLPKDG 68
           +PK W V  I    ++++G         +S        + DV        G         
Sbjct: 6   LPKGWAVTTIGAVARVSSGVGFPIKYQGKSEGLYPVYKVGDVSKAVTSKHGNLAVAGHYV 65

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGP---YLRKAIIADFDGICSTQFLVLQPKDVLPELLQ 125
           +  ++      IF  G  L+ K+G      R+A +       +    V+  K      L 
Sbjct: 66  DKEEAAELKGEIFPVGATLFAKIGEAVKLNRRAFVRKPGLADNNVMAVIPDKSDCNRFLY 125

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
            +L +ID+T+   +     T+       I +I + +PPLAEQ++I +K+     +++T  
Sbjct: 126 QFLRAIDLTETSRS----TTVPSIRKGDIEDIELYLPPLAEQIVIADKLDTLLAQVETTK 181

Query: 186 TERIRFIELLKEKKQALVSYIVTKGL------------------------------NPDV 215
               R  E+LK  +Q+++S  V+  L                              NP +
Sbjct: 182 ARLERIPEILKSFRQSVLSAAVSGKLTQEWRESHGNGTGEEVVKADAINKSVLLNENPAL 241

Query: 216 KMKDSGIE------WVGLVPDHW---EVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ 266
           K K S IE      ++  +P+ W           +T    K     +S +  L+  ++  
Sbjct: 242 KKKKSTIESQIDTEYIFDLPESWGFTTWGKISEWITYGFTKPMPKSDSGVKLLTAKDVQY 301

Query: 267 KLETRNM-----GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
                N          +S         G+++            +R     E   I  +  
Sbjct: 302 FDVNINDAGLTTSSAFQSLSDKDRPIKGDLLITKDGSIGRAALVR---TDEPFCINQSVA 358

Query: 322 AVK--PHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDI 378
                   ++  YL +L  S    +       G   Q L   D  + P+ VP ++EQ +I
Sbjct: 359 VCWLRSTSMNKDYLEFLANSEFTQRFVKDKAQGMAIQHLSIIDYAKCPLPVPSLEEQTEI 418

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
              +    A  D + +K   ++  +     S +A A  G+
Sbjct: 419 VRRVEELFAFADSIEQKATAALARVNNLTQSILAKAFRGE 458



 Score = 65.6 bits (158), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 32/210 (15%), Positives = 71/210 (33%), Gaps = 9/210 (4%)

Query: 16  QWIGAIPKHWKVVPIKRFTK-LNTGRT---SESGKDIIYIGLEDVESGTGKYLPKDGNSR 71
           ++I  +P+ W      + ++ +  G T    +S   +  +  +DV+            + 
Sbjct: 255 EYIFDLPESWGFTTWGKISEWITYGFTKPMPKSDSGVKLLTAKDVQYFDVNINDAGLTTS 314

Query: 72  QS--DTSTVSIFAKGQILYGKLGPYLRKAIIA-DFDGICSTQFLVLQPKDVLPELLQ--G 126
            +    S      KG +L  K G   R A++  D     +    V   +           
Sbjct: 315 SAFQSLSDKDRPIKGDLLITKDGSIGRAALVRTDEPFCINQSVAVCWLRSTSMNKDYLEF 374

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
              S    + ++   +G  + H         P+P+P L EQ  I  ++       D++  
Sbjct: 375 LANSEFTQRFVKDKAQGMAIQHLSIIDYAKCPLPVPSLEEQTEIVRRVEELFAFADSIEQ 434

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVK 216
           +    +  +    Q++++      L  D +
Sbjct: 435 KATAALARVNNLTQSILAKAFRGELTADWR 464


>gi|42525031|ref|NP_970411.1| type I restriction-modification system, S subunit [Bdellovibrio
           bacteriovorus HD100]
 gi|39577242|emb|CAE81065.1| type I restriction-modification system, S subunit [Bdellovibrio
           bacteriovorus HD100]
          Length = 417

 Score =  128 bits (322), Expect = 2e-27,   Method: Composition-based stats.
 Identities = 56/416 (13%), Positives = 132/416 (31%), Gaps = 19/416 (4%)

Query: 22  PKHWKVVPIKRF----TKLNTGRTSESGK---DIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           P  W    +         +  G      +    + +I   D   G  +       S+   
Sbjct: 5   PADWDKHILDELLEDNFNITYGVVQPGDEAPNGVKFIRGGDFPKGKIEENKLRTISKDIS 64

Query: 75  TS-TVSIFAKGQILYGKLGPYLRKAIIAD---FDGICSTQFLVLQPKDVLPELLQGWLLS 130
            S   ++   G++L   +G     A++        I     L+      L   ++ +L S
Sbjct: 65  ESYKRTVLNGGELLVALVGYPGTVAVVPRSLRGANIARQTALIRLAPKYLNTYVKYFLES 124

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
                 I     G+     + K +  + +  P + EQ  I E + +    I+    E  +
Sbjct: 125 DFGQGEILRGSLGSAQQVINLKDLKLVQVYTPKIDEQKKIAEFLTSVDKVIELTEIEIEK 184

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHW--EVKPFFALVTELNRKN 248
              L K   Q L+S  +      +  +      W   V      + +     + +    +
Sbjct: 185 LQNLKKGMMQDLLSKGIGHSTTIESAVGPVPKSWSIEVLSDLVLKGRKITYGIVQPGSYD 244

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
            + +             +  E   + ++ E       ++ G++V           ++   
Sbjct: 245 ERGVLLVRGQDYISGWAEAGEVFKVSVEIEKKFERARLNVGDVVICIAGAGVGAVNVVPM 304

Query: 309 QVMERGIITS-AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLP 366
           +     I  + A ++     I   YL + ++     K       G  +  L   DV++  
Sbjct: 305 RFNGANITQTTARVSCDEKKILGKYLYYYLQEGTGLKQIQKYIKGSAQPGLNLNDVEKFL 364

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
           + VPP+ EQ  I   ++    +++         +   +  + + +   +TG++ ++
Sbjct: 365 IKVPPLAEQSSIVKALDSVELKVENTKVL----LAKYQSLKKALMQDLLTGRVRVK 416


>gi|227533322|ref|ZP_03963371.1| type I site-specific deoxyribonuclease specificity subunit
           [Lactobacillus paracasei subsp. paracasei ATCC 25302]
 gi|227189041|gb|EEI69108.1| type I site-specific deoxyribonuclease specificity subunit
           [Lactobacillus paracasei subsp. paracasei ATCC 25302]
          Length = 419

 Score =  128 bits (321), Expect = 2e-27,   Method: Composition-based stats.
 Identities = 61/405 (15%), Positives = 132/405 (32%), Gaps = 24/405 (5%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIY-IGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           W+   +   ++  T +   +   +   I  +D       +  K       D +   +   
Sbjct: 20  WEERKLSSISERVTRKNKNNESTLPLTISAQDGLVDQNDFFNK--QVASRDVTGYFLVKN 77

Query: 84  GQILYGKLGPYLRKAIIAD-----FDGICSTQFLVLQPKDVLPELLQGWLLS-IDVTQRI 137
           G+  Y K                   G+ ST ++V +P  +  + L  +  +     +  
Sbjct: 78  GEFAYNKSYSNGYPWGAIKRLDKYDMGVLSTLYIVFRPTKINSQFLVSYYDTTRWYREVS 137

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           +   EGA           +    +  + + V  ++KI +   ++D  IT   R +  LKE
Sbjct: 138 KNAAEGARNHGLLNIAPTDFFNTLLVVPKIVDEQQKIGSFFKQLDDTITLHQRKLAKLKE 197

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
            KQ  +  +  +  +   +++ +G           ++    A +   N + ++ +ES   
Sbjct: 198 LKQGYLQKLFPRNGSKFPQLRFAGFADAWEQRKLSDIATLNARIGWQNLRTSEFLESGDY 257

Query: 258 SLSYGNIIQKLETRNMGLKPESYETY-----QIVDPGEIVFRFIDLQNDKR---SLRSAQ 309
            L  G            +       Y       V+ G I+               L    
Sbjct: 258 MLITGTNFHDGTVDYSTVHYVEKNRYEQDTKIQVENGSILITKDGTLGKVALVQGLNMPA 317

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY-AMGSGLRQSLKFEDVKRLPVL 368
            +  G+         P  ID  Y+   + +  L K        G  + L    +   PVL
Sbjct: 318 TLNAGVFN--VKIKDPETIDVDYVYQYLAAPFLMKYANAKSTGGTIKHLNQNILIDFPVL 375

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           +P  +EQ  +  ++N     +D  +   ++ +  L+E +  ++  
Sbjct: 376 LPRKREQVKLAELLNG----LDNTITLHQRKLEKLQELKKGYLQK 416



 Score = 82.5 bits (202), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 31/192 (16%), Positives = 74/192 (38%), Gaps = 12/192 (6%)

Query: 232 WEVKPFFALVTELNRKNTKLIESNILSLSYGNI-IQKLETRNMGLKPESYETYQIVDPGE 290
           WE +   ++   + RKN     +  L++S  +  + + +  N  +       Y +V  GE
Sbjct: 20  WEERKLSSISERVTRKNKNNESTLPLTISAQDGLVDQNDFFNKQVASRDVTGYFLVKNGE 79

Query: 291 IVFRFIDLQNDK-RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
             +           +++     + G++++ Y+  +P  I+S +L     +    +     
Sbjct: 80  FAYNKSYSNGYPWGAIKRLDKYDMGVLSTLYIVFRPTKINSQFLVSYYDTTRWYREVSKN 139

Query: 350 GS-GLRQ----SLKFEDVKRLPVLVPPI-KEQFDITNVINVETARIDVLVEKIEQSIVLL 403
            + G R     ++   D     ++VP I  EQ  I +       ++D  +   ++ +  L
Sbjct: 140 AAEGARNHGLLNIAPTDFFNTLLVVPKIVDEQQKIGSF----FKQLDDTITLHQRKLAKL 195

Query: 404 KERRSSFIAAAV 415
           KE +  ++    
Sbjct: 196 KELKQGYLQKLF 207


>gi|222823384|ref|YP_002574958.1| type I restriction-modification system, S subunit [Campylobacter
           lari RM2100]
 gi|222538606|gb|ACM63707.1| type I restriction-modification system, S subunit [Campylobacter
           lari RM2100]
          Length = 390

 Score =  128 bits (321), Expect = 2e-27,   Method: Composition-based stats.
 Identities = 81/408 (19%), Positives = 144/408 (35%), Gaps = 36/408 (8%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           WK+  I    ++   +          I  +D  SG     P  G S   D     IF + 
Sbjct: 4   WKISIIDNTCEILNNKRVP-------ISQKDRISG---IYPYYGASGIVDYIDKYIFDEE 53

Query: 85  QILYG----KLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
            +L G    K G +   A IA      +    +L+P + +                +E  
Sbjct: 54  LVLIGEDGAKWGAFENSAFIASGKYWVNNHAHILKPNNEILINKFLVYFLNY--SNLEKY 111

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
             GAT+   + + +  I + +PPL EQ  I   +      ID  I    + +  L E  Q
Sbjct: 112 ITGATVKKLNQQKLKQIEILLPPLKEQERIVGILDESFANIDESIKILEQDLLNLDELMQ 171

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN--RKNTKLIESNILS 258
           + +        +          +    +P  WE K    +    +   K    IE+ I  
Sbjct: 172 SALQKTFNPLKD--------NAKENYQLPQDWEWKSLGEICFITDGTHKTPNYIETGIPF 223

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDP-----GEIVFRFIDLQNDKRSLRSAQVMER 313
           LS  NI +     +        E  +++       G+I+   I       +++ +   E 
Sbjct: 224 LSVKNISKGFFDLSDIKYISLEEHNKLIKRAKPEFGDILICRIGTLGK--AIKISLEFEF 281

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY--AMGSGLR-QSLKFEDVKRLPVLVP 370
            I  S  +      I S YL + + SY +        +G G     L    +++ P+ +P
Sbjct: 282 SIFVSLGLLKPKVKIISDYLVYFLNSYFIEGWINNNKVGGGTHTAKLNLNILEKCPIALP 341

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            +KEQ  I + ++  +  I  L +  +  I  L+E + S +  A  G+
Sbjct: 342 SLKEQEQIASYLDEFSLNIKDLKQNYQAQIKNLQELKKSLLDKAFKGK 389



 Score = 71.0 bits (172), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 31/201 (15%), Positives = 70/201 (34%), Gaps = 9/201 (4%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESG---KDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            +P+ W+   +     +  G           I ++ ++++  G          S +    
Sbjct: 190 QLPQDWEWKSLGEICFITDGTHKTPNYIETGIPFLSVKNISKGFFDLSDIKYISLEEHNK 249

Query: 77  TVSIFAK--GQILYGKLGPYLRKAIIA-DFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
            +       G IL  ++G   +   I+ +F+        +L+PK  +      + L+   
Sbjct: 250 LIKRAKPEFGDILICRIGTLGKAIKISLEFEFSIFVSLGLLKPKVKIISDYLVYFLNSYF 309

Query: 134 TQRIEAICE---GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
            +      +   G   +  +   +   P+ +P L EQ  I   +   ++ I  L      
Sbjct: 310 IEGWINNNKVGGGTHTAKLNLNILEKCPIALPSLKEQEQIASYLDEFSLNIKDLKQNYQA 369

Query: 191 FIELLKEKKQALVSYIVTKGL 211
            I+ L+E K++L+       L
Sbjct: 370 QIKNLQELKKSLLDKAFKGKL 390


>gi|294782550|ref|ZP_06747876.1| type I restriction-modification enzyme, S subunit [Fusobacterium
           sp. 1_1_41FAA]
 gi|294481191|gb|EFG28966.1| type I restriction-modification enzyme, S subunit [Fusobacterium
           sp. 1_1_41FAA]
          Length = 386

 Score =  128 bits (321), Expect = 2e-27,   Method: Composition-based stats.
 Identities = 71/397 (17%), Positives = 141/397 (35%), Gaps = 29/397 (7%)

Query: 28  VPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
             +       +G T    K+       I +I + D +    K+  +       ++S+  I
Sbjct: 8   KKLGEICDFISGGTPSKSKNEYWKNGNIPWIKISDFKEKYIKFSDEKITKIGLESSSAKI 67

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP-ELLQGWLLSIDVTQRIEA 139
             KG ILY  +   + K  I D +   +   + +  K+    +    +     +   I+ 
Sbjct: 68  LKKGTILYT-IFASVGKVAILDIEATTNQAVVGINLKEDNSIDKDFLYYFLCSIENNIKK 126

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
              G   ++ +   + NI +PI P++ Q  I + +      +D L  +++    L K   
Sbjct: 127 QARGVAQNNINISILKNINIPILPMSFQKNIVKTLNKLENILDNLKQKKLLINFLNKSLF 186

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
             +   I  K     +       +     P++      F L+T  N K  K+  S +  +
Sbjct: 187 TTMFGDIEKKSEYHKLSNICDVRDGTHDSPEYITTDKRFPLITSKNLKGDKIDFSEVNFI 246

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
           S  +                      VD G+I+   I    +   ++     +  I   A
Sbjct: 247 SEADF-------------NKINVRSKVDIGDILMPMIGTIGNPIIVK--IDKKFSIKNLA 291

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVF-YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
            +  K   I +T+L +L+ S     +       G ++ L   D++   + +PPI+ Q   
Sbjct: 292 LIKFKNSQIINTFLKFLLLSDYFNLIISQKNKGGTQKFLSLSDIRNFLIPIPPIELQNKF 351

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
              I     +I+ L  +IE+SI   +    S I+   
Sbjct: 352 AERIE----KIEKLKFEIEKSIETAQNLYDSLISKYF 384



 Score = 49.0 bits (115), Expect = 0.001,   Method: Composition-based stats.
 Identities = 29/189 (15%), Positives = 53/189 (28%), Gaps = 9/189 (4%)

Query: 26  KVVPIKRFTKLNTGRTSE-----SGKDIIYIGLEDVESGTGKYLPKDGNSRQ--SDTSTV 78
           +   +     +  G         + K    I  ++++     +   +  S    +  +  
Sbjct: 198 EYHKLSNICDVRDGTHDSPEYITTDKRFPLITSKNLKGDKIDFSEVNFISEADFNKINVR 257

Query: 79  SIFAKGQILYGKLGPYLRKAI--IADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
           S    G IL   +G      I  I     I +   +  +   ++   L+  LLS      
Sbjct: 258 SKVDIGDILMPMIGTIGNPIIVKIDKKFSIKNLALIKFKNSQIINTFLKFLLLSDYFNLI 317

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           I    +G T        I N  +PIPP+  Q    E+I         +         L  
Sbjct: 318 ISQKNKGGTQKFLSLSDIRNFLIPIPPIELQNKFAERIEKIEKLKFEIEKSIETAQNLYD 377

Query: 197 EKKQALVSY 205
                    
Sbjct: 378 SLISKYFDN 386


>gi|257051191|ref|YP_003129024.1| restriction modification system DNA specificity domain protein
           [Halorhabdus utahensis DSM 12940]
 gi|256689954|gb|ACV10291.1| restriction modification system DNA specificity domain protein
           [Halorhabdus utahensis DSM 12940]
          Length = 442

 Score =  128 bits (321), Expect = 2e-27,   Method: Composition-based stats.
 Identities = 61/413 (14%), Positives = 137/413 (33%), Gaps = 39/413 (9%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + W +V +     L  G    S             S     +P  G++ Q DT + +   
Sbjct: 38  ESWNLVRLGEILTLEYGDNLPSD------------SRESGTVPVFGSNGQVDTHSEAAVE 85

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           K  I+ G+ G                T + +   +         +LL      ++E +  
Sbjct: 86  KPGIILGRKGSIGEIDFSDRPFWPIDTTYYITSEETSQNLRFLYYLLQN---IQLERLNA 142

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
            + +   +      +   +PP  EQ  I   +      I        +   + +  +Q +
Sbjct: 143 ASAIPGLNRNDAYGLKALMPPAEEQRKIASVLYTVDQAIQKSEEIIEQTERVRRGTEQDV 202

Query: 203 VSYIVTK----GLNPDVKMKDSGIEWVGLVPDHWEVKPF-----FALVTELNRKNTKLIE 253
           +S  V +      + DV  + S   WVG +P  W+VK +      + V  + + +    +
Sbjct: 203 LSRGVREDGTLRPDDDVAYRSS---WVGDIPCDWDVKQYSKLISDSSVGIVVKPSQYYDD 259

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETY-----QIVDPGEIVFRFIDLQNDKRSLRSA 308
              + +     I +    +   +  S E+        +  G+++       +   S    
Sbjct: 260 DGTVPILRSKDISRDGIVDGDFEYMSEESNAENENSRLQEGDVITVRSG--DPGLSCVVD 317

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPV 367
              +        ++     +D  Y A  + S+   K      +G  ++      +++L V
Sbjct: 318 GEFDGANCADLLISTPGPKLDPHYAAMWINSFAGRKQIDRFQAGLAQKHFNLGALRKLRV 377

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQID 420
            VP + EQ  I   ++  +  ++   E   Q    L+  +   +   ++G++ 
Sbjct: 378 GVPSLDEQKRIVEKVSSISESLESQRESKRQ----LQRLKQGLMQDLLSGKVR 426



 Score = 60.2 bits (144), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 33/216 (15%), Positives = 78/216 (36%), Gaps = 21/216 (9%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTK-------LNTGRTSESGKDIIYIGLEDVE---- 57
            Y+ S   W+G IP  W V    +          +   +  +    +  +  +D+     
Sbjct: 220 AYRSS---WVGDIPCDWDVKQYSKLISDSSVGIVVKPSQYYDDDGTVPILRSKDISRDGI 276

Query: 58  -SGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFD--GICSTQFLVL 114
             G  +Y+ ++ N+   ++       +G ++  + G      ++        C+   +  
Sbjct: 277 VDGDFEYMSEESNAENENSR----LQEGDVITVRSGDPGLSCVVDGEFDGANCADLLIST 332

Query: 115 QPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKI 174
               + P     W+ S    ++I+    G    H +   +  + + +P L EQ  I EK+
Sbjct: 333 PGPKLDPHYAAMWINSFAGRKQIDRFQAGLAQKHFNLGALRKLRVGVPSLDEQKRIVEKV 392

Query: 175 IAETVRIDTLITERIRFIELLKEKKQALVSYIVTKG 210
            + +  +++    + +   L +   Q L+S  V   
Sbjct: 393 SSISESLESQRESKRQLQRLKQGLMQDLLSGKVRTH 428


>gi|332520738|ref|ZP_08397200.1| restriction modification system DNA specificity domain [Lacinutrix
           algicola 5H-3-7-4]
 gi|332044091|gb|EGI80286.1| restriction modification system DNA specificity domain [Lacinutrix
           algicola 5H-3-7-4]
          Length = 457

 Score =  128 bits (321), Expect = 2e-27,   Method: Composition-based stats.
 Identities = 60/416 (14%), Positives = 133/416 (31%), Gaps = 19/416 (4%)

Query: 20  AIPKHWKVVPIKR-FTKLNTGRTSESGKD-----IIYIGLEDVESGTGKYLPKDGNSRQS 73
            +PK+W    +     ++  G + +  ++     +    +E + + T             
Sbjct: 4   KLPKNWVETDLDTVILRMTNGSSLKQEEEPFQGSLPISRIETIWNETIDLDRVKYVDASE 63

Query: 74  DTSTVSIFAKGQILYGKLGP--YLRKAIIADFDGIC----STQFLVLQPKDVLPELLQGW 127
           D        KG +L+  +    +L K  + + D       +   L   P+     L    
Sbjct: 64  DDIEKYGLQKGDVLFSHINSDKHLGKTAVFNLDQTIIHGINLLLLRAMPQFDGDLLNYIL 123

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
                  + IE        S  + K + +  +P+PPLAEQ  I  K+      +D+L T 
Sbjct: 124 RHYRFSGKFIEVAQRSVNQSSINQKKLKSFLVPLPPLAEQQRIVAKLDELFGHLDSLKTR 183

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK 247
                E+LK  +QA+++  VT  L  +   +           +   +             
Sbjct: 184 LNHIPEILKNFRQAVLNQAVTGKLTEEW--RVGKALEEWEEVELETIAKVVDPQPSHRTP 241

Query: 248 NTKLIESNILSLSYGNIIQKLETRN----MGLKPESYETYQIVDPGEIVFRFIDLQNDKR 303
                    +S+   N   ++   N      +    +     +  G+  F  I       
Sbjct: 242 PIHEDGIPYVSIKDVNKKGEVILENARPVSKVVLAEHIKRYDLQEGDFGFGKIGTLGKPF 301

Query: 304 SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL-CKVFYAMGSGLRQSLKFEDV 362
            L      +  +  +  +       +  +L + + S  +  K+     S  + +   +  
Sbjct: 302 LLPMFPERKYTLSANIILIQPRSKGNPKFLYYYLNSSIIEQKLREGTNSTSQPAFGIKKA 361

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           ++ P   P  +EQ +I   +     + D +  + +     +     + +A A  G+
Sbjct: 362 RKFPTPNPSPEEQTEIVKRVEHLFDKADAIEAQYQSLKTKIDSLPQAILAKAFKGE 417


>gi|89891079|ref|ZP_01202587.1| putative type I site-speicific deoxyribonuclease specificity
           subunit [Flavobacteria bacterium BBFL7]
 gi|89516723|gb|EAS19382.1| putative type I site-speicific deoxyribonuclease specificity
           subunit [Flavobacteria bacterium BBFL7]
          Length = 468

 Score =  128 bits (321), Expect = 2e-27,   Method: Composition-based stats.
 Identities = 57/420 (13%), Positives = 137/420 (32%), Gaps = 35/420 (8%)

Query: 20  AIPKHWKVVPIKRFTK----LNTG-----RTSESGKDIIYIGLEDVESGTGKYLPKDG-N 69
            +PK W    I            G     +  +   ++  I L D+  G  +   +   N
Sbjct: 4   ELPKGWVETNISSLVDDTGLFKDGDWVESKDQDPNGNVRLIQLADIGLGNFRDKSQRFLN 63

Query: 70  SRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDG----ICSTQFLVLQPKDVLPELLQ 125
              ++    +   +  IL  ++   + ++ +    G    +     +    K +  + L 
Sbjct: 64  QETAERLNCNFLEQNDILVARMPDPIGRSCLFPLKGENVTVVDVAIIRPSKKHINYKWLS 123

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
            W+ S    + I  +  G+T      + +  IP P+PP AEQ  I  K+ A   +   + 
Sbjct: 124 HWINSPVFHKNISELASGSTRKRISRRNLDKIPFPLPPRAEQDRIVAKVDALMAQHAAIQ 183

Query: 186 TERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN 245
               R  +LLK+ +Q +++    + +                                  
Sbjct: 184 QAMERIPQLLKDFRQQVLNQSFERNIERVAL--------------EDCCHKIQDGAHHSP 229

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDP------GEIVFRFIDLQ 299
           +  + + E N+        I+    +   L   + + +  + P      G+++       
Sbjct: 230 KYVSPIREKNMFPYVTSKNIRNDYMKLDTLTYVNEDFHNTIYPRCSPEFGDVLLTKDGAS 289

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY-AMGSGLRQSLK 358
               +L         + +   +      +   YL + ++S      F   M     + + 
Sbjct: 290 TGNVTLNEFDEPISLLSSVCLIKTDKKKLIPAYLKYFIQSSIGFSEFTGKMTGTAIKRVV 349

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            + +K+  + +P + EQ +I   +     +   + ++ EQ  + +     + +  A  G+
Sbjct: 350 LKKIKKATIPLPSVPEQQEIVRRVESLFEKATAIEQRYEQLKLQIDSLPQAILHKAFKGE 409


>gi|158421619|ref|YP_001527846.1| restriction modification system DNA specificity subunit
           [Deinococcus geothermalis DSM 11300]
 gi|158342862|gb|ABW35148.1| restriction modification system DNA specificity domain [Deinococcus
           geothermalis DSM 11300]
          Length = 426

 Score =  127 bits (320), Expect = 2e-27,   Method: Composition-based stats.
 Identities = 65/421 (15%), Positives = 131/421 (31%), Gaps = 38/421 (9%)

Query: 24  HWKVVPIKRFTKLNTGRTSE-----SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           +W   P+    ++  G+T           + ++   +V          D  S        
Sbjct: 5   NWNWRPLGELFEIGAGKTMSAAARAGADKVPFLRTSNVLWDEIDLTQVDEMSISPTELVD 64

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKD---VLPELLQGWLLSIDVTQ 135
                G +L  + G   R A+      + S Q  + + +     +      + L    TQ
Sbjct: 65  KSLKAGDLLVCEGGEIGRAAVWDGRVPVMSFQNHLHRLRRKQDDVDAHFYVYFLQSAFTQ 124

Query: 136 --RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
               E      T+ +     +  + +P PP  EQ  + + +     ++   I    +   
Sbjct: 125 LGIFEGAGNKTTIPNLSRNRLAALDVPHPPKPEQQSVAQVL----AKVREAIAVHDQATS 180

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
              E K A+++ + T+GL  + +        +GLVP+ W       L   +        E
Sbjct: 181 TALELKHAVMNDLFTRGLRGEPQK----ETEIGLVPESWAEVSIADLGEIVTGTTPPTRE 236

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYET--------YQIVDPGEIVFRFIDLQNDKRSL 305
                      I   +  +      + +          + +  G      I     K   
Sbjct: 237 RAYYDDGNIPFISPGDIEHGTPIASTQKCITDSGLAVSRALPAGTTCVVCIGSTIGKVGR 296

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRL 365
            +A              V   G D  YL+ L+ +Y    V  A        L     ++L
Sbjct: 297 TTAAAS--ATNQQINAIVPGVGYDPNYLSHLL-TYQSNIVRNAASPSPVPILSKGAFEKL 353

Query: 366 PVLV---PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
            +     P   EQ +I  +++    +ID      ++   +++E   S +   +TG+I + 
Sbjct: 354 VLFTSTNP--DEQVEIATILDAVDRKID----LHQKKRKVVEELFESLLHKLMTGEIAVS 407

Query: 423 G 423
            
Sbjct: 408 D 408



 Score = 56.7 bits (135), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 33/202 (16%), Positives = 62/202 (30%), Gaps = 12/202 (5%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVESGTGKY 63
           K++    IG +P+ W  V I    ++ TG T  +         +I +I   D+E GT   
Sbjct: 204 KETE---IGLVPESWAEVSIADLGEIVTGTTPPTRERAYYDDGNIPFISPGDIEHGT-PI 259

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPEL 123
                    S  +       G      +G  + K          + Q +      V  + 
Sbjct: 260 ASTQKCITDSGLAVSRALPAGTTCVVCIGSTIGKVGRTTAAASATNQQINAIVPGVGYDP 319

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAE-QVLIREKIIAETVRID 182
                L    +  +      + +          + +      + QV I   + A   +ID
Sbjct: 320 NYLSHLLTYQSNIVRNAASPSPVPILSKGAFEKLVLFTSTNPDEQVEIATILDAVDRKID 379

Query: 183 TLITERIRFIELLKEKKQALVS 204
               +R    EL +     L++
Sbjct: 380 LHQKKRKVVEELFESLLHKLMT 401


>gi|254373735|ref|ZP_04989218.1| type I restriction-modification system [Francisella novicida
           GA99-3548]
 gi|151571456|gb|EDN37110.1| type I restriction-modification system [Francisella novicida
           GA99-3548]
          Length = 394

 Score =  127 bits (320), Expect = 2e-27,   Method: Composition-based stats.
 Identities = 55/416 (13%), Positives = 135/416 (32%), Gaps = 40/416 (9%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD---IIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            +PK WK + +   T       +    D   I  I  + +  G         ++     +
Sbjct: 5   ELPKGWKAIELGEITSYVNRGVAPKYTDEHGITVINQKCIREGNINLELARVHNPDKKYT 64

Query: 77  TVSIFAKGQILYGKLG-PYLRKAIIA--DFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
                  G IL    G     +  I     + I  T   +++           +      
Sbjct: 65  AEKQLHLGDILINSTGVGTAGRVGIFTDSINAIVDTHVSIVRLNKEYAYPKFVYYNLRFR 124

Query: 134 TQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
            + +E   EG+T         I ++ + +P L EQ  I + + +   +    I    +  
Sbjct: 125 EKELEETAEGSTGQIELKRDAIKSLNILLPQLTEQKAIADVLSSLDDK----IDLLHKQN 180

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           + L++  Q L                   IE      +   +    ++      K+   +
Sbjct: 181 QTLEDMAQTLFREWF--------------IEKADEGWEEMPLSEVCSVTAGYAFKSKDFV 226

Query: 253 ESNILSLSYGN----IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
           +  +  +   N     I   + + + +     E+   +   +IV         K  L S 
Sbjct: 227 DIGVPVVKIKNISNGHIDYNDLQFIDISESDVESKYRLYDNDIVMAMTGATIGKIGLVST 286

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPV 367
              +  ++      ++ +      L +++ S DL      + +G  + ++    + +  V
Sbjct: 287 FEHDYLLLNQRVAVLRSNHQ--ALLWFMLNSLDLENEILNLSNGAVQANISSTSIGQ--V 342

Query: 368 LVPPIKEQ--FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            +P +  Q      N ++    +    +++ ++ I  L++ R + +   ++GQ+ +
Sbjct: 343 PIPGMSNQMMQKFNNAVHPMFEK----IQQNKKQIKSLEQTRDTLLPKLMSGQVRV 394


>gi|297538977|ref|YP_003674746.1| restriction modification system DNA specificity domain-containing
           protein [Methylotenera sp. 301]
 gi|297258324|gb|ADI30169.1| restriction modification system DNA specificity domain protein
           [Methylotenera sp. 301]
          Length = 401

 Score =  127 bits (320), Expect = 2e-27,   Method: Composition-based stats.
 Identities = 45/411 (10%), Positives = 119/411 (28%), Gaps = 30/411 (7%)

Query: 24  HWKVVPIKRFTKL-NTGRTSE--SGKDIIYIGLEDVESGTGKYLP-KDGNSRQSDTSTVS 79
            W+   +     L N G + +      I  +  + +      Y   +  +  +   S   
Sbjct: 4   GWQTEKLGEVCALLNRGISPKYIESSGICVLNQKCIRDHRVSYDQARRHDLAEKSVSENR 63

Query: 80  IFAKGQILYGKLGP-YLRKAII----ADFDGICSTQFLVLQPK---DVLPELLQGWLLSI 131
               G +L    G   L +        +      +   +++PK             +L  
Sbjct: 64  FIQLGDVLVNSTGTGTLGRVAQVRETPEEPTTVDSHVTIVRPKEGKFYQDFFGYMLILIE 123

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
           +  +     C G T                  + +Q  I   +      I        + 
Sbjct: 124 EAIKESGEGCGGQTELARSVLAEKFSVSYPISIEQQQRIVAILDQAFEGIAKARANAEQN 183

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           ++  +   ++ +  + T+     +      +                 +    + K+ + 
Sbjct: 184 LQNARALFESHLQSVFTQHGEGWMVTTVGAV--------------CDKVEYGTSSKSKEQ 229

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
            +  +L +      +    + +    ++     ++   +++F   +           +  
Sbjct: 230 GKIPVLRMGNIQNRRFDWDKLVYTDDDNEIEKYLLKHNDVLFNRTNSPELVGKTAIYKSE 289

Query: 312 ERGIITSAYMAVKPHGI--DSTYLAWLMRSYDLCKVFY--AMGSGLRQSLKFEDVKRLPV 367
              I     + +       ++ YL + + S          A+ S  + ++  + +K  P+
Sbjct: 290 SPAIFAGYLIRIHRKEDLINADYLNYFLNSQIAMDYGKTVAISSVNQANINGKKLKGYPI 349

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            VP + EQ  I   ++        L    ++ I LL E + S +  A  G+
Sbjct: 350 PVPSLSEQESIVMKMDALKIETQRLEALYQRKIKLLDELKKSLLQQAFAGE 400



 Score = 59.4 bits (142), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 31/199 (15%), Positives = 65/199 (32%), Gaps = 11/199 (5%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKD---IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           + W V  +          TS   K+   I  + + ++++    +         ++     
Sbjct: 204 EGWMVTTVGAVCDKVEYGTSSKSKEQGKIPVLRMGNIQNRRFDWDKLVYTDDDNEIEKY- 262

Query: 80  IFAKGQILYGKLGP---YLRKAIIADFDGICSTQFLVLQPKDVL----PELLQGWLLSID 132
           +     +L+ +        + AI           +L+   +         L       I 
Sbjct: 263 LLKHNDVLFNRTNSPELVGKTAIYKSESPAIFAGYLIRIHRKEDLINADYLNYFLNSQIA 322

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           +             ++ + K +   P+P+P L+EQ  I  K+ A  +    L     R I
Sbjct: 323 MDYGKTVAISSVNQANINGKKLKGYPIPVPSLSEQESIVMKMDALKIETQRLEALYQRKI 382

Query: 193 ELLKEKKQALVSYIVTKGL 211
           +LL E K++L+       L
Sbjct: 383 KLLDELKKSLLQQAFAGEL 401


>gi|281421790|ref|ZP_06252789.1| type I restriction-modification enzyme S subunit [Prevotella copri
           DSM 18205]
 gi|281404148|gb|EFB34828.1| type I restriction-modification enzyme S subunit [Prevotella copri
           DSM 18205]
          Length = 450

 Score =  127 bits (320), Expect = 2e-27,   Method: Composition-based stats.
 Identities = 73/388 (18%), Positives = 142/388 (36%), Gaps = 15/388 (3%)

Query: 20  AIPKHWKVVPIKRFTKL---NTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            +PK W    +   T        +  +       + LED+E  T K +     + +    
Sbjct: 67  ELPKGWVWTTVGEITNYGDSVNVQVEDIDNSDWVLELEDIEKDTAKIIQHLNKNERKING 126

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL-LSIDVTQ 135
           T   F KGQILY KL  YL K ++A  DG C+T+ +      +L      ++  S+    
Sbjct: 127 TRHKFQKGQILYSKLRTYLNKVLVAPNDGFCTTEIMAFGSYGILSNNYICYVLRSLYFLD 186

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
                  G  M         N  +P+PPLAEQ  I  +I      ID +   +      +
Sbjct: 187 YTLQCGYGVKMPRLSTTDACNGLIPLPPLAEQERIVNEIQRLFSIIDIVENGKDGLQTAI 246

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
           ++ K  ++ + +   L P     +   E +  +    E+        +L +   +    N
Sbjct: 247 QQAKNKILDHAIHGKLVPQDPNDEPASELLKRINPKAEITCDNPQYGKLPKGWCETTLGN 306

Query: 256 ILSLSYGNIIQKLETRNMGLKP------ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
            + +  G+ I+  + R              Y     VD   I+   +          + +
Sbjct: 307 TIVIKSGDAIKVRDNRIGKYPIYGGNGITGYNESYNVDGINIIIGRVGFYCGSVHYVNNK 366

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
           +       +    +  +     +L +L++ YDL +      S  +  +  + V  + V++
Sbjct: 367 IWVTD--NAFVTKIMGNVYTPKFLYYLLQQYDLQQY---SNSTAQPVISGKTVYPINVML 421

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIE 397
           PP+ EQ+ I   I    +++D +   ++
Sbjct: 422 PPLSEQYRIVAKIEELFSQLDKIESSLQ 449



 Score = 61.0 bits (146), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 23/145 (15%), Positives = 48/145 (33%), Gaps = 14/145 (9%)

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
           K+       + +   T      G+I++  +    +K  +      +    T         
Sbjct: 112 KIIQHLNKNERKINGTRHKFQKGQILYSKLRTYLNKVLVAPN---DGFCTTEIMAFGSYG 168

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
            + + Y+ +++RS          G G+    L   D     + +PP+ EQ  I N I   
Sbjct: 169 ILSNNYICYVLRSLYFLDYTLQCGYGVKMPRLSTTDACNGLIPLPPLAEQERIVNEIQRL 228

Query: 386 TARID----------VLVEKIEQSI 400
            + ID            +++ +  I
Sbjct: 229 FSIIDIVENGKDGLQTAIQQAKNKI 253



 Score = 54.4 bits (129), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 24/165 (14%), Positives = 49/165 (29%), Gaps = 14/165 (8%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           G +PK W    +     + +G   +            V        P  G +  +  +  
Sbjct: 293 GKLPKGWCETTLGNTIVIKSGDAIK------------VRDNRIGKYPIYGGNGITGYNES 340

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
                  I+ G++G Y       +     +    V +    +      +   +     ++
Sbjct: 341 YNVDGINIIIGRVGFYCGSVHYVNNKIWVTDNAFVTKIMGNVYTPKFLYY--LLQQYDLQ 398

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
                        K +  I + +PPL+EQ  I  KI     ++D 
Sbjct: 399 QYSNSTAQPVISGKTVYPINVMLPPLSEQYRIVAKIEELFSQLDK 443


>gi|190890488|ref|YP_001977030.1| type I restriction-modification system protein, specificity subunit
           [Rhizobium etli CIAT 652]
 gi|190695767|gb|ACE89852.1| probable type I restriction-modification system protein,
           specificity subunit [Rhizobium etli CIAT 652]
          Length = 424

 Score =  127 bits (320), Expect = 2e-27,   Method: Composition-based stats.
 Identities = 60/419 (14%), Positives = 133/419 (31%), Gaps = 38/419 (9%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSD- 74
           P+ W +  +    +L +G T    +       I ++ L D ++  GK L     +  +  
Sbjct: 24  PEGWALERLCDIARLESGHTPSRNRPDYWDGGIPWLSLHDSKTIEGKVLQNTKMTISARG 83

Query: 75  --TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
              S+  +  +G +   +     + A++       S  F        L        L   
Sbjct: 84  LANSSARLLPEGTVALSRTATIGKVALLGREMA-TSQDFACYICGPRLLNK-YLAHLFRG 141

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           +    E +  G+T +        N+ + +PP+ EQ  I + +          I    R I
Sbjct: 142 MELEWERLMAGSTHNTIYMPTFENMQILVPPMEEQEAIADALSDADAL----IEGLERLI 197

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEW----VGLVPDHWEVKPFFALVTELNRKN 248
                 KQ  +  +    L    ++     EW    +G                      
Sbjct: 198 AKKWLIKQGTMQDL----LTAKRRLPGYSAEWTMAKLGDFLSFKNGLNKAKAFFGHGTPI 253

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
              ++     +  G  I +     +    E+ ++   +  G+++F       ++  L + 
Sbjct: 254 INYMD-----VFRGGAINEGSIDGLVEVTEAEQSAYGIRNGDVLFTRTSETPEEIGLAAV 308

Query: 309 QVM--ERGIITSAYMAVKPHGI--DSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVK 363
                +  + +   +  +P        +  +  RS  + +   +  +   R       + 
Sbjct: 309 ADGVLDGTVFSGFVLRGRPKSQALTIAFSKYCFRSGAVRRQIISRATYTTRALTNGRQLS 368

Query: 364 RLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            + + VP    EQ  I  V+N   A I  L  +    +   ++ +   +   +TG+I L
Sbjct: 369 AVDISVPRDADEQNAIAEVLNDMDAEIQALETR----LDKARQVKEGMMQNLLTGRIRL 423



 Score = 81.4 bits (199), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 31/210 (14%), Positives = 66/210 (31%), Gaps = 15/210 (7%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ------KLETRNM 273
             +E  G   +              +R      +  I  LS  +         +     +
Sbjct: 20  PDVEPEGWALERLCDIARLESGHTPSRNRPDYWDGGIPWLSLHDSKTIEGKVLQNTKMTI 79

Query: 274 GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL 333
             +  +  + +++  G +             L      E          +    + + YL
Sbjct: 80  SARGLANSSARLLPEGTVALSRTATIGKVALLGR----EMATSQDFACYICGPRLLNKYL 135

Query: 334 AWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
           A L R  +L      M      ++     + + +LVPP++EQ  I + ++      D L+
Sbjct: 136 AHLFRGMELEWE-RLMAGSTHNTIYMPTFENMQILVPPMEEQEAIADALSDA----DALI 190

Query: 394 EKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
           E +E+ I      +   +   +T +  L G
Sbjct: 191 EGLERLIAKKWLIKQGTMQDLLTAKRRLPG 220


>gi|254164265|ref|YP_003047375.1| specificity determinant for hsdM and hsdR [Escherichia coli B str.
           REL606]
 gi|253976168|gb|ACT41839.1| specificity determinant for hsdM and hsdR [Escherichia coli B str.
           REL606]
          Length = 474

 Score =  127 bits (319), Expect = 3e-27,   Method: Composition-based stats.
 Identities = 63/416 (15%), Positives = 141/416 (33%), Gaps = 29/416 (6%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
            W  + +     +  G   +S +       +  I + DV  G                  
Sbjct: 24  SWLRISMDSVANITNGFAFKSSEFNNRKDGVPLIRIRDVLKGN------TSTYYSGQIPE 77

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
                   ++ G  G +    I      + + +   ++ ++        +         I
Sbjct: 78  GYWVYPEDLIVGMDGDF-NATIWCSEPALLNQRVCKIEVQEDKYNKRFFYHALPGYLSAI 136

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
            A     T+ H   + + +  +P+PPLAEQ +I EK+     ++D+      +  ++LK 
Sbjct: 137 NANTSSVTVKHLSSRTLQDTLLPLPPLAEQKIIAEKLDTLLAQVDSTKARLEQIPQILKR 196

Query: 198 KKQALVSYIVTKGLNP----DVKMKDSGIEWVGLVPDHW----------EVKPFFALVTE 243
            +QA+++  VT  L       +  K     +  L+P+ W            +P    V +
Sbjct: 197 FRQAVLAAAVTGRLTKEDKDFIIKKVELDNYKILIPEDWSETILNNIINTQRPLCYGVVQ 256

Query: 244 LNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKR 303
                   IE   +       +     R +  + +       V   +I+   +     + 
Sbjct: 257 PGDDIKDGIELIRVCDINDGEVDLNHLRKISKEIDLQYKRSKVRKNDILVTIVGAIG-RI 315

Query: 304 SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC-KVFYAMGSGLRQSLKFEDV 362
            +    +        A ++ +   I   +L   + S  +   +  +     R++L  +D+
Sbjct: 316 GIVREDINVNIARAVARISPEYKIIVPMFLHIWLSSPVMQTWLVQSSKEVARKTLNLKDL 375

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           K   V +P I+EQ +I   +    A  D + +++  ++  +     S +A A  G+
Sbjct: 376 KNAFVPLPSIEEQHEIVRRVEQLFAYADSIEKQVNNALARVNNLTQSILAKAFRGE 431



 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 33/207 (15%), Positives = 67/207 (32%), Gaps = 11/207 (5%)

Query: 21  IPKHWKVVPIKRFTKLNT----GRTSESG---KDIIYIGLEDVESGTGKYLPKDGNSRQS 73
           IP+ W    +            G           I  I + D+  G          S++ 
Sbjct: 231 IPEDWSETILNNIINTQRPLCYGVVQPGDDIKDGIELIRVCDINDGEVDLNHLRKISKEI 290

Query: 74  DTS-TVSIFAKGQILYGKLGPYLRKAIIADFDGI-CSTQFLVLQPKDVL--PELLQGWLL 129
           D     S   K  IL   +G   R  I+ +   +  +     + P+  +  P  L  WL 
Sbjct: 291 DLQYKRSKVRKNDILVTIVGAIGRIGIVREDINVNIARAVARISPEYKIIVPMFLHIWLS 350

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
           S  +   +    +       + K + N  +P+P + EQ  I  ++       D++  +  
Sbjct: 351 SPVMQTWLVQSSKEVARKTLNLKDLKNAFVPLPSIEEQHEIVRRVEQLFAYADSIEKQVN 410

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVK 216
             +  +    Q++++      L    +
Sbjct: 411 NALARVNNLTQSILAKAFRGELTAQWR 437


>gi|307248454|ref|ZP_07530474.1| Type I restriction-modification system, S subunit [Actinobacillus
           pleuropneumoniae serovar 2 str. S1536]
 gi|306855022|gb|EFM87205.1| Type I restriction-modification system, S subunit [Actinobacillus
           pleuropneumoniae serovar 2 str. S1536]
          Length = 508

 Score =  127 bits (319), Expect = 3e-27,   Method: Composition-based stats.
 Identities = 58/441 (13%), Positives = 129/441 (29%), Gaps = 71/441 (16%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPK---DGN 69
            IPK W  V +    ++  G T ++ +D       I +I   D++  +GKY+ K   +  
Sbjct: 70  EIPKSWVWVRLDFLGEIIGGGTPKTNEDDNWNKGSIPWITPADMKYISGKYISKGNRNIT 129

Query: 70  SRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
                +S+  + +K  I+Y    P      I + +   +  F  +   +    +   +  
Sbjct: 130 ENGLRSSSTRLLSKNSIVYSSRAPI-GYIAITETELCTNQGFKSIDLYNKE-IVDYLYYS 187

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
            I  T  I++   G T         GN  +P+PPL EQ  I  KI      I+    +  
Sbjct: 188 LIYFTPEIQSRASGTTFKEISGTAFGNTIIPLPPLNEQKRIVAKIEELLPYIEQYAEKEE 247

Query: 190 RFIELLKEKK----QALVSYIVTKGLNPDVKM---------------------------- 217
           +   L ++      ++++   +   L                                  
Sbjct: 248 KLTALHQQFPEQLKKSILQAAIQGKLTKQDPNDEPALVLIERIKAEKLRLIAEKKLKKPK 307

Query: 218 --------------------KDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN-- 255
                               +    E    +P++W       +            +    
Sbjct: 308 VVSEIILRDNLPYEIINGEERCIADEVPFEIPENWCWVRLGEIGETNIGLTYAPNDVVLE 367

Query: 256 -ILSLSYGNIIQKLETRNMGL--KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
             + L  GNI       +  +     +    +     +++    +   +     +    +
Sbjct: 368 GTIVLRSGNIQNGKIDVSSDVVRVNLNIPENKKCYKNDLLICARNGSKNLVGKAAIVDKD 427

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI 372
                +     +       Y+ + + S      F  + +     +   ++    + +PP+
Sbjct: 428 GYSFGAFMAIFRSPFY--QYIYYYLSSPLFRNDFDGINTTTINQITQNNLNNRLIPLPPL 485

Query: 373 KEQFDITNVINVETARIDVLV 393
            EQ  I   I    + +  L 
Sbjct: 486 NEQKRIVEKIEKLFSTLQNLE 506



 Score = 81.4 bits (199), Expect = 3e-13,   Method: Composition-based stats.
 Identities = 27/211 (12%), Positives = 62/211 (29%), Gaps = 13/211 (6%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
           S  ++   +P  W       L   +     K  E +  +      I   + + +  K  S
Sbjct: 63  SQQDFPFEIPKSWVWVRLDFLGEIIGGGTPKTNEDDNWNKGSIPWITPADMKYISGKYIS 122

Query: 280 YETYQIVDPGE-------IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
                I + G        +    I   +       A           + ++  +  +   
Sbjct: 123 KGNRNITENGLRSSSTRLLSKNSIVYSSRAPIGYIAITETELCTNQGFKSIDLYNKEIVD 182

Query: 333 LAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
             +    Y   ++         + +         + +PP+ EQ  I   I      I+  
Sbjct: 183 YLYYSLIYFTPEIQSRASGTTFKEISGTAFGNTIIPLPPLNEQKRIVAKIEELLPYIEQY 242

Query: 393 VEKIEQSIVLL-----KERRSSFIAAAVTGQ 418
             + E+ +  L     ++ + S + AA+ G+
Sbjct: 243 -AEKEEKLTALHQQFPEQLKKSILQAAIQGK 272


>gi|110800744|ref|YP_696988.1| type I restriction-modification enzyme, S subunit [Clostridium
           perfringens ATCC 13124]
 gi|110675391|gb|ABG84378.1| type I restriction-modification enzyme, S subunit [Clostridium
           perfringens ATCC 13124]
          Length = 417

 Score =  127 bits (319), Expect = 3e-27,   Method: Composition-based stats.
 Identities = 76/426 (17%), Positives = 158/426 (37%), Gaps = 31/426 (7%)

Query: 8   PQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKD---IIYIGLEDVESGTGKYL 64
             YK +    +G IP  W+V  I    K+N+   +   +    + YI +E V +G    +
Sbjct: 7   EGYKMTE---LGEIPNEWEVCRIDDLCKVNSKSLNSKTEPNLVVNYIDIESVSTGKINNI 63

Query: 65  PKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD---FDGICSTQFLVLQPKDVLP 121
            +   S Q+ +    +  K  ++   + PYL+  +       + +CST F VL+  + + 
Sbjct: 64  KQMIFS-QAPSRARRVVKKNDVIMSTVRPYLKAFVKVKSSLNNLVCSTGFAVLEVNEGVN 122

Query: 122 ELL-QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
                  +LS    ++I+    G+     +   +    + +P + EQ  I E +      
Sbjct: 123 SEFVYQSILSNYFIEQIKNKMVGSNYPAVNSDDVKESKLILPSIQEQEKIAEIL----ST 178

Query: 181 IDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPF--- 237
           +D  I    + I+  +E K+ L+  ++TKG+      K      +G +P  W++      
Sbjct: 179 VDEQIENTEKLIQKNQELKKGLMQQLLTKGIGHTEFKKT----ELGYIPKEWKIMKLGEV 234

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID 297
                      ++ I            I    + N  L  +  + Y  +   +I      
Sbjct: 235 CDFKQGFQIPRSEQINEEKDGYIRYLYITDFFSNNNKLFIKGSDKYYYIKSDDITIANTG 294

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM-GSGLRQS 356
               K    +  ++   +     +      + + +L   + S    K       +  +  
Sbjct: 295 NTCGKAFKGAEGILSNNMF---KIFNNKEVLLNDFLWQYLNSNYYWKELNKYFNTAGQPH 351

Query: 357 LKFEDVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           +  +++  L + +P  + EQ +I  ++    + ID  +EK E     LKE +   +   +
Sbjct: 352 VGHKNMANLMIAIPESLNEQSEIALIL----SSIDKRIEKYENKKEKLKELKKGLMQQLL 407

Query: 416 TGQIDL 421
           TG I L
Sbjct: 408 TGYIRL 413


>gi|117923448|ref|YP_864065.1| restriction modification system DNA specificity subunit
           [Magnetococcus sp. MC-1]
 gi|117607204|gb|ABK42659.1| restriction modification system DNA specificity domain
           [Magnetococcus sp. MC-1]
          Length = 427

 Score =  127 bits (319), Expect = 3e-27,   Method: Composition-based stats.
 Identities = 51/425 (12%), Positives = 128/425 (30%), Gaps = 37/425 (8%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES-----GKDIIYIGLEDVESGT 60
            +P+++D+G          W+   I    K   G+++             +   ++ +  
Sbjct: 17  RFPEFRDAG---------EWEKTTIGEIGKFYYGKSAPKWSLEEDAPTPCVRYGELYTKF 67

Query: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGP---YLRKAIIADFDGICSTQFLVLQPK 117
           G  + +  +    D   +     G+IL  ++G       K       G  +   ++   +
Sbjct: 68  GPIITETYSRTNIDPGKLRFSKGGEILVPRVGEKTEDFGKCCCYLPLGDIAIGEMISVFE 127

Query: 118 DVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
                L   +       Q    + EG  + +  +  +  + +  PPL EQ  I + + + 
Sbjct: 128 TAQNPLFYTYYFRRLYRQF-SKVVEGQNVKNLYYVELEPLEIYRPPLTEQQKIADCLSSL 186

Query: 178 TVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPF 237
                  I  +   I+ LK  K+ L+  +  +      +++    +  G   +H      
Sbjct: 187 DAL----IAAQADKIDALKTHKKGLIQQLFPREGKTVPRLRFPEFQEAGEWTEHRLENMA 242

Query: 238 FA-LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE------SYETYQIVDPGE 290
                   N+K        I  +S  +  +  +      K E      +  +  +   G 
Sbjct: 243 KRGSGHTPNKKFPSYYNGGIKWVSLADSNKLDDGYIYDTKVEISDDGINNSSAVLYPAGT 302

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG 350
           ++            L S       +            + S +  + +             
Sbjct: 303 VILSRDAGVGKSAVLYSPM----AVSQHFMAWQCYENMLSNWFFYYLLQKLKATFESIAV 358

Query: 351 SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
               +++     K + +  P + EQ  I + +      +D ++    + +  LK  ++  
Sbjct: 359 GNAIKTIGAAYFKEMTITAPSLPEQQKIADCLVS----LDGMIAAHTEKLDSLKTHKNGL 414

Query: 411 IAAAV 415
           +    
Sbjct: 415 MQQLF 419


>gi|198282371|ref|YP_002218692.1| restriction modification system DNA specificity protein
           [Acidithiobacillus ferrooxidans ATCC 53993]
 gi|198246892|gb|ACH82485.1| restriction modification system DNA specificity domain
           [Acidithiobacillus ferrooxidans ATCC 53993]
          Length = 395

 Score =  127 bits (319), Expect = 3e-27,   Method: Composition-based stats.
 Identities = 63/409 (15%), Positives = 136/409 (33%), Gaps = 32/409 (7%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDV-ESGTGKYLPKDGNSRQSDT 75
           + W+V  +   + +  G  +   +       I +I   DV     G+         +   
Sbjct: 3   EGWEVKLLGEVSAIGAGNPAPQDRHYFEQGTIPFIRTSDVGRIHIGEIFGAADLVNELAA 62

Query: 76  STVSIFAKGQILYGKLGP--YLRKAIIADFDGICSTQF--LVLQPKDVLPELLQGWLLSI 131
             +++   G IL+ K G   ++   +I   + + S+    +  +P  +L + L  +LL+I
Sbjct: 63  RKLAMLPVGTILFPKSGASTFINHRVIMGIEAVASSHLATIKAKPHTLLDKFLFYYLLTI 122

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
           D     + +   +         I  I  P+PPL EQ  I   +      I T      + 
Sbjct: 123 D----AKTLVADSNYPSLRISDIATISTPLPPLPEQRRIVAILDEAFEGIATAKANAEKN 178

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           ++   E  ++ ++ + ++           G  WV        ++          R + KL
Sbjct: 179 LQNAHEIFESYLNAVFSQR----------GEGWVDRRLGDVAMEFGRGKSKHRPRNDPKL 228

Query: 252 IESNILSLSYGNIIQK---LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
              N   +  G++      + + +           ++   G +         +   L   
Sbjct: 229 YGGNFPFIQTGDVRNSSHLITSYDQTYNDAGLAQSKLWPKGTLCITIAANIAETGILDFD 288

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVL 368
                 II    +        + Y+ +L+ S+     F   GS  + ++     +     
Sbjct: 289 ACFPDSIIG---LVANEKISTNKYIEYLLTSFKSRLQFLGKGS-AQDNINLATFESQYFP 344

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
            PP+  Q +I ++ +        L    +Q +  L E + S +  A  G
Sbjct: 345 FPPLSNQKEIVSIFDDLHEETQHLKFIYQQKLAALDELKQSLLHQAFNG 393


>gi|315618354|gb|EFU98942.1| type I restriction modification DNA specificity domain protein
           [Escherichia coli 3431]
          Length = 384

 Score =  127 bits (319), Expect = 3e-27,   Method: Composition-based stats.
 Identities = 59/370 (15%), Positives = 113/370 (30%), Gaps = 25/370 (6%)

Query: 72  QSDTSTVSIFAKGQILYGKLGPY------LRKAIIADFDGICSTQFLVLQPKDVLP-ELL 124
           +   S  + F KG +L  K+ P          A +    G  ST+F VL+  +      +
Sbjct: 19  KEVKSGFTYFEKGDVLLAKITPCFENGKGCHTADLPTNVGFGSTEFHVLRENEDSDSRFI 78

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIG--NIPMPIPPLAEQVLIREKIIAETVRID 182
             W         +E+   G+              +    P L EQ  I + +      I 
Sbjct: 79  YFWTTDKKFRASLESEMVGSAGHRRVPLVAIEKYLIPCPPNLQEQSAIADSLSDINNFIL 138

Query: 183 TLITERIRFIELLKEKKQALVS---YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFA 239
            L    ++   +     Q L++    +    L  D   K      +G +P+ W V     
Sbjct: 139 ALEKLIVKKQAIKTATMQRLLTGKTRLPQFALRKDGSAKGYKKSELGEIPEDWVVTSIGQ 198

Query: 240 LVTELNRKNTK-----LIESNILSLSYGNIIQKLETRNMGLKPES---YETYQIVDPGEI 291
                                   +S G +  K          +      + + V    +
Sbjct: 199 FTDCCAGGTPSTKISAYWGGTHPWMSSGELHLKQVYAVADYITDEGLVNSSTKYVPKNSV 258

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
           +      Q   R   +   +E     S           + +L + + S        + G 
Sbjct: 259 LVGLAG-QGKTRGTVAINRIELCTNQSIAAIFPSKHHSTEFLFYNLDSRYEELRSLSTGD 317

Query: 352 GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
           G R  L    +++L +  PP +EQ  I  +++     I  L    +Q +   ++ +   +
Sbjct: 318 GGRGGLNLTIIRKLHLAFPPKEEQTAIATILSDMDKEIQTL----QQRLDKTRQLKQGMM 373

Query: 412 AAAVTGQIDL 421
              +TG+  L
Sbjct: 374 QELLTGKTRL 383



 Score = 77.5 bits (189), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 34/203 (16%), Positives = 59/203 (29%), Gaps = 11/203 (5%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKY 63
           YK S    +G IP+ W V  I +FT    G T  +      G    ++   ++       
Sbjct: 179 YKKSE---LGEIPEDWVVTSIGQFTDCCAGGTPSTKISAYWGGTHPWMSSGELHLKQVYA 235

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGP--YLRKAIIADFDGICSTQFLVLQPKDVLP 121
           +           S+     K  +L G  G         I   +   +     + P     
Sbjct: 236 VADYITDEGLVNSSTKYVPKNSVLVGLAGQGKTRGTVAINRIELCTNQSIAAIFPSKHHS 295

Query: 122 ELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
                + L     +              +   I  + +  PP  EQ  I   +      I
Sbjct: 296 TEFLFYNLDSRYEELRSLSTGDGGRGGLNLTIIRKLHLAFPPKEEQTAIATILSDMDKEI 355

Query: 182 DTLITERIRFIELLKEKKQALVS 204
            TL     +  +L +   Q L++
Sbjct: 356 QTLQQRLDKTRQLKQGMMQELLT 378


>gi|258593064|emb|CBE69375.1| putative Restriction modification system DNA specificity domain
           [NC10 bacterium 'Dutch sediment']
          Length = 450

 Score =  127 bits (319), Expect = 3e-27,   Method: Composition-based stats.
 Identities = 79/419 (18%), Positives = 152/419 (36%), Gaps = 35/419 (8%)

Query: 21  IPKHWKVVPIKRFT--KLNTGRTSESGKDIIYIGLEDVESGTGKYL-PKDGNSRQSDTST 77
           IP  W+ VP++        T  T        YI +  V +   K     +     + +  
Sbjct: 30  IPDGWRTVPLRSLCLATELTDPTKSPATSFQYIDVSAVSNDLWKITGSTEHLGTTAPSRA 89

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDG---ICSTQFLV--LQPKDVLPELLQGWLLSID 132
             +     +++  + P LR+  +        I ST F V    P       +   LL+ +
Sbjct: 90  RKLVGANDVIFATVRPMLRRIAMIPEYLDGQIVSTAFCVLRANPTQADSRFIYYTLLTDE 149

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
             +RI  +  GA+        I    + +PPLAEQ  I   +     +I   +  + + +
Sbjct: 150 FIERIGNLQRGASYPAVTDGDILGQEILVPPLAEQHAIAAVL----SKIQAAVEVQDKLV 205

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK-- 250
             LKE K A  + +  +GL     +K + I   G +P+ WEV     L +    K T   
Sbjct: 206 AALKELKAATTAKLFCEGL-RGEPLKQTEI---GEIPESWEVMRLCELASIERGKFTHRP 261

Query: 251 -----LIESNILSLSYGNIIQ---KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK 302
                     I  +  G++ +   ++ T +  L  E     ++   G IV        D 
Sbjct: 262 RNEPRFYGGAIPFIQTGDVAKSNGRIRTYSQTLNEEGLAISRLFPKGTIVLTIAANIADT 321

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDV 362
             L         ++           +D+ +L   +R+     + +    G ++++    +
Sbjct: 322 AILEFDSAFPDSLVG----ITPDGTMDAAFLECYLRTQKA-DMNHLAPKGTQKNININFL 376

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           K      P I+EQ +I + +     ++++   +       LK   SS +   +TGQ+ +
Sbjct: 377 KPWSTPRPSIEEQQEIAHSLRCLDNKLELAWARR----DTLKSLFSSMLHLLMTGQVRV 431



 Score = 71.0 bits (172), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 31/206 (15%), Positives = 66/206 (32%), Gaps = 13/206 (6%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKD--------IIYIGLEDVESGTGK 62
           K +    IG IP+ W+V+ +     +  G+ +   ++        I +I   DV    G+
Sbjct: 230 KQTE---IGEIPESWEVMRLCELASIERGKFTHRPRNEPRFYGGAIPFIQTGDVAKSNGR 286

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPE 122
                    +   +   +F KG I+          AI+        +   +     +   
Sbjct: 287 IRTYSQTLNEEGLAISRLFPKGTIVLTIAANIADTAILEFDSAFPDSLVGITPDGTMDAA 346

Query: 123 LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
            L+ +L +      +  +    T  + +   +     P P + EQ  I   +     +++
Sbjct: 347 FLECYLRTQ--KADMNHLAPKGTQKNININFLKPWSTPRPSIEEQQEIAHSLRCLDNKLE 404

Query: 183 TLITERIRFIELLKEKKQALVSYIVT 208
                R     L       L++  V 
Sbjct: 405 LAWARRDTLKSLFSSMLHLLMTGQVR 430


>gi|312952955|ref|ZP_07771811.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX0102]
 gi|310629096|gb|EFQ12379.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX0102]
          Length = 404

 Score =  127 bits (318), Expect = 4e-27,   Method: Composition-based stats.
 Identities = 64/402 (15%), Positives = 141/402 (35%), Gaps = 27/402 (6%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESG-KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           + W+   ++  +   T +   +   + +    E       ++  KD ++ ++  +   I 
Sbjct: 16  EDWEQRKLEDISDKVTEKNKNNEFTETLTNSAEFGIINQREFFDKDISNEKN-LNGYYIV 74

Query: 82  AKGQILYGKLGPYLRKAIIADFD-----GICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
            +   +Y               +     G+ S  + V +P D+  + L+ +  +    + 
Sbjct: 75  REDDFVYNPRISNYAPVGPIKRNKLGRTGVMSPLYYVFRPHDIDKKFLEYFFGTTIWHKF 134

Query: 137 IEAICEGATM---SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
           ++   +                 +P+P P + EQ  + +        ++  I    R ++
Sbjct: 135 MKLNGDSGARADRFAIKDSVFKTMPIPYPSIEEQKKVGKFFDD----LNDTIALHQRKLD 190

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
           LLKE K+  +  +      P    K   I + G     WE +     V +   K +   +
Sbjct: 191 LLKETKKGFLQKMF-----PKNGAKVPEIRFPGFT-KDWEQRKLGDFVVDYVEKTSVQNQ 244

Query: 254 SNILSLSYGNII--QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
             +L+ S    I  Q+    N  +  E+   Y ++  G   FR     ND        ++
Sbjct: 245 FPMLTSSQQKGIVLQEDYFANRQVTTENNIGYFVLPRGYFTFRSRS-DNDVFVFNRNDII 303

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
           +RGII+  Y        DS +    + +    ++        +  L  +  K +  + P 
Sbjct: 304 DRGIISYFYPVFTLKSADSDFFLRRINNGIQRQLSIQAEGTGQHVLSLKKFKNIVAMFPS 363

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            +EQ  I         ++D  +   ++ + LLKE +  F+  
Sbjct: 364 EEEQQKIGTF----FKQLDDTITLHQRKLDLLKETKKGFLQK 401


>gi|42779918|ref|NP_977165.1| type I restriction-modification enzyme, S subunit, putative
           [Bacillus cereus ATCC 10987]
 gi|42735836|gb|AAS39773.1| type I restriction-modification enzyme, S subunit, putative
           [Bacillus cereus ATCC 10987]
          Length = 476

 Score =  127 bits (318), Expect = 4e-27,   Method: Composition-based stats.
 Identities = 70/437 (16%), Positives = 157/437 (35%), Gaps = 44/437 (10%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSE-------SGKDIIYIGLEDVESGTGKYLPK---DGNS 70
           +P++W         ++ +G T +           I +I   D+      Y+ K   +   
Sbjct: 21  VPENWIWTWTGAIAEVISGGTPKSKVEEYYKDGTISWITPADLSGYQDMYISKGKRNITE 80

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
              + S+  +     +L     P      IA  D   +  F    P +        +   
Sbjct: 81  LGLNKSSAKMLPINTVLLSSRAPI-GYVAIAAKDLCTNQGFKSFAPSNAY-YPKYLYWYL 138

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
                 +E++  G+T           IP+P+PP+ EQ  + EK+     +++   T    
Sbjct: 139 KFSKYYMESMASGSTFKELSSNKSKEIPIPLPPINEQKRVSEKVERLLNKVEEAKTLIEE 198

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDS--------------GIEWVGLVPDHWEVKP 236
             E  + ++ A++    +  L    + ++S                E    +P  W+   
Sbjct: 199 AKETFELRRAAILDKAFSGDLTGKWRKENSFQQNEECISDNELRDSEVFYPIPKTWKWTK 258

Query: 237 FFALVTELNR---KNTKLIESNILSLSYGNIIQK--LETRNMGLKPESYETYQI----VD 287
              + T  N    K+   +E  I  +  GN+ +      RN    P  ++   I    V+
Sbjct: 259 LKDVATFKNGYAFKSKDFVEQGIQLIRMGNLYKNELRLDRNPVYIPLDFDEKIIEKYTVE 318

Query: 288 PGEIVFRFIDLQN---DKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCK 344
            G+I+      +       ++R     +  ++    +++KPH +D  Y+ + ++S     
Sbjct: 319 KGDILLSLTGTKYKRDYGYAVRVDGRDKNLLLNQRILSLKPHMMD-EYIYYYLQSSVFRN 377

Query: 345 VFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI-V 401
            F++  +G   + ++  + V+ + + +PP  E  +I   +       +     +  +I  
Sbjct: 378 AFFSFETGGVNQGNVGSKAVESILIPIPPADEAKEIEKKLARLLN--NEKEALVVLAIEE 435

Query: 402 LLKERRSSFIAAAVTGQ 418
            L+  + S ++ A  G+
Sbjct: 436 KLEVLKQSALSKAFRGE 452



 Score = 59.8 bits (143), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 41/231 (17%), Positives = 73/231 (31%), Gaps = 17/231 (7%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPK 66
           +DS V     IPK WK   +K       G   +S       I  I + ++     +    
Sbjct: 242 RDSEV--FYPIPKTWKWTKLKDVATFKNGYAFKSKDFVEQGIQLIRMGNLYKNELRLDRN 299

Query: 67  DGNS---RQSDTSTVSIFAKGQILYGKLGP-------YLRKAIIADFDGICSTQFLVLQP 116
                              KG IL    G        Y  +    D + + + + L L+P
Sbjct: 300 PVYIPLDFDEKIIEKYTVEKGDILLSLTGTKYKRDYGYAVRVDGRDKNLLLNQRILSLKP 359

Query: 117 KDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIA 176
             +   +      S+           G    +   K + +I +PIPP  E   I +K+  
Sbjct: 360 HMMDEYIYYYLQSSVFRNAFFSFETGGVNQGNVGSKAVESILIPIPPADEAKEIEKKLAR 419

Query: 177 ETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGL 227
                   +       +L +  KQ+ +S      L  +   +++ IE +  
Sbjct: 420 LLNNEKEALVVLAIEEKL-EVLKQSALSKAFRGELGTNDPTEENTIELLKE 469


>gi|146281027|ref|YP_001171180.1| type I restriction-modification system, S subunit [Pseudomonas
           stutzeri A1501]
 gi|145569232|gb|ABP78338.1| type I restriction-modification system, S subunit [Pseudomonas
           stutzeri A1501]
          Length = 472

 Score =  127 bits (318), Expect = 4e-27,   Method: Composition-based stats.
 Identities = 70/436 (16%), Positives = 147/436 (33%), Gaps = 39/436 (8%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYLPKDGNSRQ 72
            +P  W    +K    L+ G+T            D+ ++  +D++    +      +   
Sbjct: 3   ELPSGWTRFALKDLGGLSGGKTPSKANPEFWSTRDVPWVSPKDMKKNLLEDAEDRISQNA 62

Query: 73  SDTSTVSIFAKGQILYGKLGPYL---RKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
            D + ++++  G +L       L       +A  +   +    VL+P + +      ++L
Sbjct: 63  VDEAGMTLYPSGSVLMVTRSGILQHTFPVALAGVELTVNQDIKVLRPIEGIVPKFSFYML 122

Query: 130 SIDVTQRIEAICE-GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
                + + A  + G T+   D + +      +PPLAEQ  I +K+     ++DTL    
Sbjct: 123 KSFGAEILSACSKDGTTVQSIDSEKLETFLFSLPPLAEQTRIAQKLDELLAQVDTLKARI 182

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN 248
                LLK  +Q++++  V+  L  + +      E                 + +     
Sbjct: 183 DAIPALLKRFRQSVLAAAVSGRLTEEWRGSIPASESAEEYLSRVIQVRRQKPIVKFKEPV 242

Query: 249 TKLIESNILSLSYGNII------------------------QKLETRNMGLKPESYETYQ 284
              +E+  L +  G I+                         + +    G   E     +
Sbjct: 243 PPDLETRELEVPEGWIVASVSSFAECLDSMRVPVKKELRESGEGKYPYFGANGEVDRVDE 302

Query: 285 IVDPGEIVFRFIDLQNDKRS--LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
            +   ++V    D     R   +      +  +    +       +   YL +++  YD+
Sbjct: 303 YIFDDDLVLVTEDETFYGRVKPIAYKYSGKCWVNNHVHALRAHDAVARDYLCYVLMHYDV 362

Query: 343 CKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
                  G+  R  L    +  LP+ VPP  EQ +I   +    A  D L  ++  +   
Sbjct: 363 VPWL--TGTTGRAKLTQGALLSLPIQVPPATEQTEIVRRVEQLFAFADQLEARVNAAKAC 420

Query: 403 LKERRSSFIAAAVTGQ 418
           +     S +A A  G+
Sbjct: 421 IDRLTQSILAKAFRGE 436



 Score = 87.2 bits (214), Expect = 5e-15,   Method: Composition-based stats.
 Identities = 34/209 (16%), Positives = 63/209 (30%), Gaps = 14/209 (6%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN---------MGLKP 277
            +P  W       L      K          S      +   + +          +    
Sbjct: 3   ELPSGWTRFALKDLGGLSGGKTPSKANPEFWSTRDVPWVSPKDMKKNLLEDAEDRISQNA 62

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
                  +   G ++           +   A       +      ++P        ++ M
Sbjct: 63  VDEAGMTLYPSGSVLMVTRSGILQH-TFPVALAGVELTVNQDIKVLRPIEGIVPKFSFYM 121

Query: 338 RSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
                 ++  A        QS+  E ++     +PP+ EQ  I   ++   A++D L  +
Sbjct: 122 LKSFGAEILSACSKDGTTVQSIDSEKLETFLFSLPPLAEQTRIAQKLDELLAQVDTLKAR 181

Query: 396 IEQSIVLLKERRSSFIAAAVTGQIDLRGE 424
           I+    LLK  R S +AAAV+G   L  E
Sbjct: 182 IDAIPALLKRFRQSVLAAAVSG--RLTEE 208


>gi|332299057|ref|YP_004440979.1| protein of unknown function DUF45 [Treponema brennaborense DSM
           12168]
 gi|332182160|gb|AEE17848.1| protein of unknown function DUF45 [Treponema brennaborense DSM
           12168]
          Length = 646

 Score =  127 bits (318), Expect = 4e-27,   Method: Composition-based stats.
 Identities = 63/436 (14%), Positives = 123/436 (28%), Gaps = 68/436 (15%)

Query: 20  AIPKHWKVVPIKRFTKLNTG----RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            +P  WK++ +   + +  G    +   + +    + + ++  G+     K       + 
Sbjct: 68  ELPNSWKLMKLSDVSIIQEGAGIRKFQYTKEGTQLLSVTNILQGSIDLNKKQLFVSTEEY 127

Query: 76  STVSI---FAKGQILYGKLGPYLRKAIIADFDGIC----STQFLVLQPKDVLPELLQGWL 128
               +     KG IL    G    K  I D +       ST  L           L    
Sbjct: 128 KKKYLHLTPKKGDILTACSGGSWGKVAIYDKEDTVMLNTSTLRLRFFGDLADNNFLYYLC 187

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
            S    ++++    G    +  +     I +P+PP+ EQ  I EK+      ID    E 
Sbjct: 188 QSPLFKEQLKEQLAGM-QPNFGYAHYSRIILPLPPIEEQQRIVEKLNHILPLIDEYSKEE 246

Query: 189 IRFIELLK----EKKQALVSYIVTKGLNPDVKMKDS------------------------ 220
              I L +    E K++++   +   L   ++   S                        
Sbjct: 247 DELIALCQKFPEEMKKSVLQAAMQGKLTRQLETDSSVDELLKKIAEEKAKLIKEGKIRKD 306

Query: 221 ---------------GIEWVGLVPDHWEVKPFFALVTE------LNRKNTKLIESNILSL 259
                            E    +P++W       +            K+       I  +
Sbjct: 307 TTKAGASSRALAEITEDEIPFDIPENWRWTKLGLIGDWGAGATPDRGKSEYYKNGTIPWI 366

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIV---DPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
             G +   + T       E       +      +++         K ++    +      
Sbjct: 367 KTGELNDSIITSAEEYITEMAFEKCSLRMNKMNDVLIAMYGATIGKVAIAGFDLT----T 422

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
             A  A  P G    Y  +     +          G + ++    +   P  +PPI+EQ 
Sbjct: 423 NQACCACTPFGGIYNYYLFYFLKANKPDFVKQSAGGAQPNISRTKIVDTPFPLPPIEEQQ 482

Query: 377 DITNVINVETARIDVL 392
            I   +N     ID +
Sbjct: 483 RIVEKLNTILPIIDSM 498



 Score = 91.0 bits (224), Expect = 3e-16,   Method: Composition-based stats.
 Identities = 39/231 (16%), Positives = 89/231 (38%), Gaps = 16/231 (6%)

Query: 204 SYIVTKGLN---PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR---KNTKLIESNIL 257
              V++GL     + +   S  ++   +P+ W++     +         +  +  +    
Sbjct: 42  QEYVSEGLFYNKKETEPYYSDEDYPYELPNSWKLMKLSDVSIIQEGAGIRKFQYTKEGTQ 101

Query: 258 SLSYGNIIQKLETRNMG---LKPESYETYQI---VDPGEIVFRFIDLQNDKRSLRSAQVM 311
            LS  NI+Q     N     +  E Y+   +      G+I+         K ++   +  
Sbjct: 102 LLSVTNILQGSIDLNKKQLFVSTEEYKKKYLHLTPKKGDILTACSGGSWGKVAIYDKEDT 161

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
                ++  +       D+ +L +L +S    +      +G++ +  +    R+ + +PP
Sbjct: 162 VMLNTSTLRLRFFGDLADNNFLYYLCQSPLFKEQLKEQLAGMQPNFGYAHYSRIILPLPP 221

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLK----ERRSSFIAAAVTGQ 418
           I+EQ  I   +N     ID   ++ ++ I L +    E + S + AA+ G+
Sbjct: 222 IEEQQRIVEKLNHILPLIDEYSKEEDELIALCQKFPEEMKKSVLQAAMQGK 272



 Score = 80.6 bits (197), Expect = 4e-13,   Method: Composition-based stats.
 Identities = 33/190 (17%), Positives = 64/190 (33%), Gaps = 8/190 (4%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYLPKDGNSRQ 72
            IP++W+   +        G T + GK        I +I   ++         +      
Sbjct: 328 DIPENWRWTKLGLIGDWGAGATPDRGKSEYYKNGTIPWIKTGELNDSIITSAEEYITEMA 387

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
            +  ++ +     +L    G  + K  IA FD   +       P   +      + L  +
Sbjct: 388 FEKCSLRMNKMNDVLIAMYGATIGKVAIAGFDLTTNQACCACTPFGGIYNYYLFYFLKAN 447

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
                     G    +     I + P P+PP+ EQ  I EK+      ID++     +  
Sbjct: 448 -KPDFVKQSAGGAQPNISRTKIVDTPFPLPPIEEQQRIVEKLNTILPIIDSMAVYGTKKK 506

Query: 193 ELLKEKKQAL 202
               ++++AL
Sbjct: 507 AGRPKQEEAL 516


>gi|317011668|gb|ADU85415.1| restriction modification system DNA specificity domain protein
           [Helicobacter pylori SouthAfrica7]
          Length = 397

 Score =  127 bits (318), Expect = 4e-27,   Method: Composition-based stats.
 Identities = 57/406 (14%), Positives = 132/406 (32%), Gaps = 41/406 (10%)

Query: 23  KHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDV-ESGTGKYLPKDGNSRQSDT 75
            +W+ + +    ++  G T  +        +I +    ++  +       +         
Sbjct: 8   SNWEKIRLGDICEIVGGGTPSTQITSFWNGNINWFTPTEIGITKYVYKSQRTITPLGLKK 67

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
           S+V +   G IL       +    I       +  F  L P + +      + L++ +  
Sbjct: 68  SSVKLLPIGTILLTSR-ASIGDCAILKVVATTNQGFQSLIPLEKINNE-FLYYLTLTLKN 125

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
           ++  +  G+T        I N+ +P+PPL EQ+ I   +      +  L +  ++   + 
Sbjct: 126 KLLKLASGSTFLEVSPNKIKNLLIPLPPLNEQIAIANILSGVDRYLYALDSLILKKESVK 185

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
           K     L+S           ++K     W     +   +     +V         L    
Sbjct: 186 KALSFELLSQ--------RKRLKGFNQAW-----EKIRLGDICEIVKGQQINKINL---- 228

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
                  N   K    N G+    Y     V    I           R + S        
Sbjct: 229 -------NNTDKYPVINGGIDFLGYTNKFNVSKNTIAISEGGTCGYVRFMTSNFWSGGHN 281

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
            +   +    + +++  L  +++SY+   +         ++++ + +K   + +PP+ EQ
Sbjct: 282 YS---LQKISNRVNNLCLYHILKSYE-KDIMKLGVGSGLKNIQLKALKDFEIPLPPLNEQ 337

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
             I N+++     I  L  K  Q     +  + +     ++ +I +
Sbjct: 338 TAIANILSALDHEIISLKNKKRQ----FENIKKALNHDLMSAKIRV 379



 Score = 62.9 bits (151), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 28/219 (12%), Positives = 70/219 (31%), Gaps = 18/219 (8%)

Query: 211 LNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLET 270
           ++    + +     +G + +          +T     N        + ++      +   
Sbjct: 1   MDALTTLSNWEKIRLGDICEIVGGGTPSTQITSFWNGNINWFTPTEIGITKYVYKSQRTI 60

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
             +GLK  S +   ++  G I+        D   L+             + ++ P    +
Sbjct: 61  TPLGLKKSSVK---LLPIGTILLTSRASIGDCAILKVV-----ATTNQGFQSLIPLEKIN 112

Query: 331 TYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR-- 388
               + +      K+           +    +K L + +PP+ EQ  I N+++       
Sbjct: 113 NEFLYYLTLTLKNKLLKLASGSTFLEVSPNKIKNLLIPLPPLNEQIAIANILSGVDRYLY 172

Query: 389 -IDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
            +D L+ K E         + +     ++ +  L+G +Q
Sbjct: 173 ALDSLILKKESV-------KKALSFELLSQRKRLKGFNQ 204


>gi|53803791|ref|YP_114325.1| type I restriction-modification system, S subunit [Methylococcus
           capsulatus str. Bath]
 gi|53757552|gb|AAU91843.1| type I restriction-modification system, S subunit [Methylococcus
           capsulatus str. Bath]
          Length = 416

 Score =  127 bits (318), Expect = 4e-27,   Method: Composition-based stats.
 Identities = 71/418 (16%), Positives = 133/418 (31%), Gaps = 38/418 (9%)

Query: 23  KHWKVVPIKRFTK-----LNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           + W    I          L  G    S     Y        G  + + KD N+     S 
Sbjct: 3   EEWTEARIDELGNGRRPVLKAGPFGSSVTKATYKTSGYKVYGQQEVVAKDPNAEAYFVSE 62

Query: 78  VSI-------FAKGQILYGKLGPYLRKAIIAD--FDGICSTQFLV--LQPKDVLPELLQG 126
            +           G IL   +G   R   + +   +GI + + +        +L E  + 
Sbjct: 63  ATFTRHKSCAVKPGDILMTMMGTIGRVYRVPEGAPEGIINPRLVRLAFDTSRILSEYAEV 122

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
            L    + + ++    G TM   + + + +I + +PPL EQ  I E +       DT I 
Sbjct: 123 ALEQPSLQRLLDRRSHGGTMQGLNLEALASIRLLLPPLPEQRKIVEIL----RTWDTAIE 178

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
              R I   +      +S ++++G +P     DS  E               + +  + +
Sbjct: 179 TTERLIAAKERFYAHELSRLISRGQHPRRPNGDSASEASEPDRGSQWRTVSLSDIATVWK 238

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
                 E    S +Y          N G+ P         +   I               
Sbjct: 239 GQQLNKEHMEESGAYY-------VLNGGINPSGRTNDWNCEAKTITISSGGNS----CGF 287

Query: 307 SAQVMERGIITSAYM--AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKR 364
               +ER                +D  YL + ++S     +    GSG+   +   D++ 
Sbjct: 288 INLNLERFWCGGDCFALKQISPLVDVDYLFFYLKSRQHQMMALRTGSGI-PHIYRSDIES 346

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
            PV++P +  Q  I   +          +  + +S+  LK ++   +   +TGQ  + 
Sbjct: 347 FPVILPDLATQTAIARYLTALREE----ITLLSRSLGALKRQKRGLMQKLLTGQWRVP 400


>gi|270292634|ref|ZP_06198845.1| putative type I restriction-modification system, S subunit
           [Streptococcus sp. M143]
 gi|270278613|gb|EFA24459.1| putative type I restriction-modification system, S subunit
           [Streptococcus sp. M143]
          Length = 384

 Score =  127 bits (318), Expect = 4e-27,   Method: Composition-based stats.
 Identities = 51/402 (12%), Positives = 132/402 (32%), Gaps = 32/402 (7%)

Query: 26  KVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS-TVSI 80
           K V +    ++  G   +S     + I  I + +V+ G  +         +   S    I
Sbjct: 2   KKVKLGEVCEILNGFAFKSLLYVNEGIRIIRITNVQKGYIEDSDPKYYPIEYTNSIEKYI 61

Query: 81  FAKGQILYGKLGPYLRKAIIADFD--GICSTQFLVLQPKDVLPELLQGWLLSID--VTQR 136
             +  +L    G   R  +I+        + +   L+  D L      +         Q 
Sbjct: 62  LKENDLLMSLTGNVGRVGLISKTMLPAALNQRVACLRTIDSLISKEYVFQFLNSDLFEQS 121

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
                 G    +     +  + +  P + +Q LI   +      I+ LI  R    + L 
Sbjct: 122 AIRSSNGVAQKNLSTDWLKKVEITYPSVEQQELITSTLN----LIERLICCRKEQNKKLN 177

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
           E  ++  + +    +  +++ +              ++K             + +  S +
Sbjct: 178 ELVKSRFNEMFGDPVFNEMRWR------------RCKLKDISIEKLAYGSGASAIDFSGL 225

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
             +   +I +    +     P  Y+   +++ G+I+F        K  L S +     + 
Sbjct: 226 RYIRITDIDECGNLKLDKKSPSHYDEKYLLNTGDILFARSGATVGKTFLYSKEKYGPALY 285

Query: 317 TSAYMAVKPHG--IDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIK 373
               + + P+   ++  ++     +         + +   + ++  +    L  ++PP+ 
Sbjct: 286 AGYLIRLIPNLSLVNPVFVYHFTNTKFYNDFIAKVQNTVAQPNINAKQYSELDFILPPLS 345

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            Q +  + +    A++D     I++S+  L+  + S +    
Sbjct: 346 LQNEFADFV----AQVDKSQLAIQKSLEELETLKKSLMQEYF 383



 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 28/194 (14%), Positives = 65/194 (33%), Gaps = 19/194 (9%)

Query: 25  WKVVPIKRFTKLN----TGRTSESGKDIIYIGLEDVES-GTGKYLPKDGNSRQSDTSTVS 79
           W+   +K  +       +G ++     + YI + D++  G  K   K  +          
Sbjct: 198 WRRCKLKDISIEKLAYGSGASAIDFSGLRYIRITDIDECGNLKLDKKSPSHYDE----KY 253

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQF------LVLQPKDVLPELLQGWLLSIDV 133
           +   G IL+ + G  + K  +   +      +      L+     V P  +  +  +   
Sbjct: 254 LLNTGDILFARSGATVGKTFLYSKEKYGPALYAGYLIRLIPNLSLVNPVFVYHFTNTKFY 313

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
              I  +       + + K    +   +PPL+ Q    +       ++D       + +E
Sbjct: 314 NDFIAKVQNTVAQPNINAKQYSELDFILPPLSLQNEFADF----VAQVDKSQLAIQKSLE 369

Query: 194 LLKEKKQALVSYIV 207
            L+  K++L+    
Sbjct: 370 ELETLKKSLMQEYF 383


>gi|27380124|ref|NP_771653.1| hypothetical protein bll5013 [Bradyrhizobium japonicum USDA 110]
 gi|27353278|dbj|BAC50278.1| bll5013 [Bradyrhizobium japonicum USDA 110]
          Length = 433

 Score =  127 bits (318), Expect = 4e-27,   Method: Composition-based stats.
 Identities = 50/433 (11%), Positives = 137/433 (31%), Gaps = 42/433 (9%)

Query: 23  KHWKVVPIKRFTK-LNTGRTSESG-----KDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
             W    + +    L TG+    G     + +  IG E++++  GK    + N      +
Sbjct: 2   SDWIERSLAQLISPLETGKRPAGGVSADTEGVPSIGGENIDAA-GKMSYSNVNRISPAYA 60

Query: 77  ---TVSIFAKGQILYGKLGPYLRKAIIADFD---GICSTQFLVLQPKDVLPELLQGWLLS 130
                     G  L  K G    K    D        +    +++P     +    +   
Sbjct: 61  HLMKKGKLKSGDTLINKDGAQTGKVAQYDGQFADAWINEHVFIVRPDPGKIDAGYLFYSM 120

Query: 131 IDV--TQRIEAICEGATMSHADWKGIGNIPMPIPP-LAEQVLIREKIIAETVRIDTLITE 187
           +D     +I     G+     +      + + +P  +  Q  I + +      +D  I  
Sbjct: 121 LDGRAQNQIARRITGSAQPGLNSDFAKAVTLRLPRDIKLQAKIADIL----RLLDVQIEA 176

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIE-----------WVGLVPDHWEVKP 236
               I   +  +  L+  + T+G++   +++ S  E           W+ L  +   +  
Sbjct: 177 TEALITKQERVRAGLMQDLFTRGIDEHGQLRPSRDEAPQLYNRTDLGWLPLGWEAARLVN 236

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIV------DPGE 290
             + + +        +   +  ++  ++              +   + +         G+
Sbjct: 237 LTSRIVDGVHHTPTYVPHGVPFVTVKSLTAGRGIDTRQGNFITLSDHHVFQMRADPRAGD 296

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF-YAM 349
           ++          R +          ++ A +      ++  +L    R+        Y  
Sbjct: 297 VLVSKDGTLGVARYVDETVEEFSIFVSVAMLRPITSLLNPAFLCEFFRTRFYEAQMGYLS 356

Query: 350 GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
                + +  E  ++  +  P + EQ  I ++++      D  + ++E  +  L+ +++ 
Sbjct: 357 AGSGLKHIHLEHFRKFVLPRPDLSEQAKILSILDAA----DQSIVRLEDMLRKLRLQKAG 412

Query: 410 FIAAAVTGQIDLR 422
            +   +TG++ + 
Sbjct: 413 LLQDLLTGEVSVP 425



 Score = 52.9 bits (125), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 32/201 (15%), Positives = 64/201 (31%), Gaps = 11/201 (5%)

Query: 18  IGAIPKHWKVVPIKRFTK-LNTGRTSESGK---DIIYIGLEDVESGTGKYLPKDGNSRQS 73
           +G +P  W+   +   T  +  G           + ++ ++ + +G G    +      S
Sbjct: 222 LGWLPLGWEAARLVNLTSRIVDGVHHTPTYVPHGVPFVTVKSLTAGRGIDTRQGNFITLS 281

Query: 74  DTSTVSI---FAKGQILYGKLGPYLRKAIIA----DFDGICSTQFLVLQPKDVLPELLQG 126
           D     +      G +L  K G       +     +F    S   L      + P  L  
Sbjct: 282 DHHVFQMRADPRAGDVLVSKDGTLGVARYVDETVEEFSIFVSVAMLRPITSLLNPAFLCE 341

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           +  +     ++  +  G+ + H   +      +P P L+EQ  I   + A    I  L  
Sbjct: 342 FFRTRFYEAQMGYLSAGSGLKHIHLEHFRKFVLPRPDLSEQAKILSILDAADQSIVRLED 401

Query: 187 ERIRFIELLKEKKQALVSYIV 207
              +         Q L++  V
Sbjct: 402 MLRKLRLQKAGLLQDLLTGEV 422


>gi|311278007|ref|YP_003940238.1| restriction modification system DNA specificity domain-containing
           protein [Enterobacter cloacae SCF1]
 gi|308747202|gb|ADO46954.1| restriction modification system DNA specificity domain protein
           [Enterobacter cloacae SCF1]
          Length = 394

 Score =  127 bits (318), Expect = 5e-27,   Method: Composition-based stats.
 Identities = 56/400 (14%), Positives = 126/400 (31%), Gaps = 29/400 (7%)

Query: 23  KHWKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           + W +  + +     T  T ++     + + Y+    V+ G   Y       + + +   
Sbjct: 12  EEWTMTLLSKLATKITDGTHDTPDTTSEGVPYLTAIHVKDGYIDYKNCYYLDKLTHSFIY 71

Query: 79  SIF--AKGQILYGKLGPYLRKAIIADFDGICS--TQFLVLQPKDVLPELLQGWLLSIDVT 134
                 K  +L   +G       +   D   S     LV   K+ +       +   +  
Sbjct: 72  KRCNPEKNDLLIVNIGAGTGTCALNTVDYEFSLKNVALVKPNKNKIYPFYLLQVQRKNAK 131

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           +    +  G        K IG I +P+    EQ  I + + +   +I  L  +     + 
Sbjct: 132 KLFHELTSGGAQPFLSLKEIGKIKIPLCQYDEQTKIADFLSSVDDKITLLNQQYDLLCQY 191

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
            K   Q + +  +               +  G     W      +L +  ++K   L   
Sbjct: 192 KKGMMQKIFNQELRFK------------DENGEEFPEWNYDEISSLFSNKSKKYNPLSGI 239

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYET-YQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
           N   +    I Q+       L     ++   +   G+++F  +     K  L +      
Sbjct: 240 NYPCIEMDCISQRDGQLLTTLDSTQQQSIKNVFKKGDVLFGKLRPYLRKYILATFD---- 295

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
           G+ +S     K   I+++YL   +++     +             ++ +    V  P ++
Sbjct: 296 GVCSSEIWVFKGILINNSYLYQFIQTDFFINLANKSTGSKMPRADWDTISSTFVFYPCLE 355

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           EQ  I N ++     +D  +   +  +  LK  +   +  
Sbjct: 356 EQSKIANFLSA----LDDKIAVKKAELDKLKTWKQGLLQQ 391



 Score = 77.9 bits (190), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 20/203 (9%), Positives = 57/203 (28%), Gaps = 10/203 (4%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES-----YE 281
                  +      +T+            +  L+  ++             +        
Sbjct: 12  EEWTMTLLSKLATKITDGTHDTPDTTSEGVPYLTAIHVKDGYIDYKNCYYLDKLTHSFIY 71

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD 341
                +  +++   I       +L +    E  +   A +    + I   YL  + R   
Sbjct: 72  KRCNPEKNDLLIVNIGAGTGTCALNTVD-YEFSLKNVALVKPNKNKIYPFYLLQVQRKNA 130

Query: 342 LCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
                     G +  L  +++ ++ + +    EQ  I + ++      D  +  + Q   
Sbjct: 131 KKLFHELTSGGAQPFLSLKEIGKIKIPLCQYDEQTKIADFLSSV----DDKITLLNQQYD 186

Query: 402 LLKERRSSFIAAAVTGQIDLRGE 424
           LL + +   +      ++  + E
Sbjct: 187 LLCQYKKGMMQKIFNQELRFKDE 209


>gi|78043287|ref|YP_359684.1| putative type I restriction-modification system, S subunit
           [Carboxydothermus hydrogenoformans Z-2901]
 gi|77995402|gb|ABB14301.1| putative type I restriction-modification system, S subunit
           [Carboxydothermus hydrogenoformans Z-2901]
          Length = 403

 Score =  126 bits (317), Expect = 5e-27,   Method: Composition-based stats.
 Identities = 65/414 (15%), Positives = 132/414 (31%), Gaps = 32/414 (7%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            IP+ W+ V +    K       E     I    E  +S +   L    +     T    
Sbjct: 6   KIPEGWQWVKLGDILK------YEQPYKYIVKSTEYKDSNSIPVLTAGKSFILGYTDEKD 59

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
                  +            I     + S+       K+     +  ++       +   
Sbjct: 60  GIYTNLPVIIFDDFTTESKFIKFPFKVKSSAL--KFLKEKSDNFVLKFIFESMQLIKFNN 117

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
           +                  +P+PPL EQ  I E +      +D  I +    IE  K  K
Sbjct: 118 VGGEHKRRWIS--EFQLFKIPLPPLPEQRKIAEIL----ETVDNAIEKTDAIIEKYKRLK 171

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEW-----VGLVPDHWEVKPFFALVTELNRKNT----- 249
           Q L+  ++TKG++ + +++D          +G +P+ WEV         +          
Sbjct: 172 QGLMQDLLTKGIDENWQIRDEKTHKFKDSPLGRIPEEWEVIMLEKCGKIVTGSTPSTEIP 231

Query: 250 --KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
                E   +S       + +      L  + +   + + P  +    I     K +L S
Sbjct: 232 QYYGDEFQFISPEDIQDNKYILETKKMLSKQGFNLQRKLPPKSVCVVCIGSTIGKVALTS 291

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
                   I +  +  +P   +   L + +  Y    +    G      +      ++ +
Sbjct: 292 TFSSTNQQINT--IVPRPELWEPEALYYFVSFYIQNPLRMEAGMQAVPIVNKGKFSKILI 349

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            +PP+ EQ  I  V+    ++ID  +EK +     L+  +   +   +TG++ +
Sbjct: 350 PLPPLPEQQRIAAVL----SQIDEAIEKEQAYKEKLERIKKGLMEDLLTGRVRV 399



 Score = 68.3 bits (165), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 37/207 (17%), Positives = 75/207 (36%), Gaps = 11/207 (5%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGK 62
           ++KDS    +G IP+ W+V+ +++  K+ TG T  +      G +  +I  ED++     
Sbjct: 196 KFKDSP---LGRIPEEWEVIMLEKCGKIVTGSTPSTEIPQYYGDEFQFISPEDIQDNK-Y 251

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPE 122
            L       +   +         +    +G  + K  +       + Q   + P+  L E
Sbjct: 252 ILETKKMLSKQGFNLQRKLPPKSVCVVCIGSTIGKVALTSTFSSTNQQINTIVPRPELWE 311

Query: 123 LLQGWLLSIDVTQRIEAICEGA-TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
               +       Q    +  G   +   +      I +P+PPL EQ  I   +      I
Sbjct: 312 PEALYYFVSFYIQNPLRMEAGMQAVPIVNKGKFSKILIPLPPLPEQQRIAAVLSQIDEAI 371

Query: 182 DTLITERIRFIELLKEKKQALVSYIVT 208
           +     + +   + K   + L++  V 
Sbjct: 372 EKEQAYKEKLERIKKGLMEDLLTGRVR 398


>gi|303239471|ref|ZP_07325998.1| restriction modification system DNA specificity domain protein
           [Acetivibrio cellulolyticus CD2]
 gi|302593034|gb|EFL62755.1| restriction modification system DNA specificity domain protein
           [Acetivibrio cellulolyticus CD2]
          Length = 447

 Score =  126 bits (317), Expect = 6e-27,   Method: Composition-based stats.
 Identities = 68/414 (16%), Positives = 139/414 (33%), Gaps = 22/414 (5%)

Query: 18  IGAIPKHWKVVPIKRFTK-LNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNS 70
           I  +P+ W    +      +  G T  S       + I +I +E+V  G           
Sbjct: 4   IKDLPRGWVSEKMMEVATRITKGATPTSYGYNFLKEGINFIKVENVSFGRVDLYSISDYI 63

Query: 71  RQSDT--STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQ---FLVLQPKDVLPELLQ 125
            +        SI  +  IL+   G   +  I+       +T     ++   K +      
Sbjct: 64  SEEAHLCQKKSILEENDILFSIAGTIGKTCIVRKEYLPANTNQALAIIKGVKRITLPSFL 123

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
              L   V  + +++  G  M++   + + N+ + IPPL+EQ  I  KI      +D  +
Sbjct: 124 VLQLESFVASKTKSMARGGAMNNISLEDLKNLEIFIPPLSEQHRIVSKIEELFSELDKGV 183

Query: 186 TERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN 245
                  + LK  +QA++ +     +    +     I  +         + +     +  
Sbjct: 184 ESLKTAQQQLKVYRQAVLKWAFDGEMCIQNEKSVRSISSLITSGSRGWAQYYSDKGAKFI 243

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
           R               G  I   E + + L  ++      +  G+++   I        L
Sbjct: 244 RIGN--------LTRVGIDIDLSEVQYVRLPEKAEGLRSRLQEGDLLIS-ITADLGSIGL 294

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKR 364
             +   E  I     +        S ++AW ++S    +       G  ++ L  +D++ 
Sbjct: 295 VPSNFGEAYINQHIAVVRLNDSRYSKFVAWYLKSETGRRRLLEYQRGATKKGLGLDDIRD 354

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           + +  P +     I   I    +  D + E IE+S+   +  R S +  A  G+
Sbjct: 355 VLIPYPEVHVAQKIVQEIESRLSVCDKMEEAIEKSLAQAEALRQSILKKAFEGK 408


>gi|255527616|ref|ZP_05394478.1| restriction modification system DNA specificity domain protein
           [Clostridium carboxidivorans P7]
 gi|296187659|ref|ZP_06856053.1| type I restriction modification DNA specificity domain protein
           [Clostridium carboxidivorans P7]
 gi|255508688|gb|EET85066.1| restriction modification system DNA specificity domain protein
           [Clostridium carboxidivorans P7]
 gi|296047616|gb|EFG87056.1| type I restriction modification DNA specificity domain protein
           [Clostridium carboxidivorans P7]
          Length = 407

 Score =  126 bits (317), Expect = 6e-27,   Method: Composition-based stats.
 Identities = 61/418 (14%), Positives = 142/418 (33%), Gaps = 34/418 (8%)

Query: 20  AIPKHWKVVPIKR-FTKLNTGRTSES---GKDIIYIGLEDVESGTGKYLPKDGNSRQ--- 72
            +PK WK V +K     L +G+  +       +  +G E + +  G  +  D        
Sbjct: 2   KLPKEWKEVNLKEYILTLESGKRPKGGAIDNGVPSLGGEHINNTGGFNIQIDKLKYVPRE 61

Query: 73  -SDTSTVSIFAKGQILYGKLGPYLRKAIIADFD-----GICSTQ-FLVLQPKDVLPELLQ 125
                   +  K  IL  K G    K    D +        +   FL+   + +  + L 
Sbjct: 62  FFKKMKSGVVKKNDILIVKDGATTGKIAFVDNNFNLKEACINEHLFLIRTNERLNNKFLS 121

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
            +L S    ++I     GAT+         +  + +PPL  Q  I + +      ++   
Sbjct: 122 YYLRSNTGRKKILEDFRGATVGGISK-NFIDFNILLPPLETQKKIVKVLEKAEETLEKRK 180

Query: 186 TERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN 245
                  +L       + S  +    +P    K    + +G      +            
Sbjct: 181 ESINLLDKL-------VKSRFIGMFGDPSSNPKGWNKDTIG---SVVKSITAGWSANGEA 230

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
           R+  +  ++ +   +      K +   +       + Y   + G+++F   + +    + 
Sbjct: 231 REKREDEKAVLKVSAVTQGYFKADEYKVIGDDVEIKKYVFPEKGDLLFSRANTREMVGAT 290

Query: 306 RSAQVMERGIITSA--YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFE 360
                    ++     +       ++  Y+ +++    +   F A  +G      ++  +
Sbjct: 291 CIIHKDYPDLLLPDKLWKVSFVERVNVFYMKYILSEPSIRAEFSAKSTGTSGSMYNVSMD 350

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
             K + + +PPI+ Q    + +N    ++D L  ++E+S+  L++   S +  A  G+
Sbjct: 351 KFKSIEITIPPIELQNQFADFVN----QVDKLKFEMEKSLKELEDNFKSLMQKAFKGE 404


>gi|313114694|ref|ZP_07800196.1| type I restriction modification DNA specificity domain protein
           [Faecalibacterium cf. prausnitzii KLE1255]
 gi|310622919|gb|EFQ06372.1| type I restriction modification DNA specificity domain protein
           [Faecalibacterium cf. prausnitzii KLE1255]
          Length = 381

 Score =  126 bits (317), Expect = 6e-27,   Method: Composition-based stats.
 Identities = 57/396 (14%), Positives = 127/396 (32%), Gaps = 27/396 (6%)

Query: 29  PIKRFTKLNTGRTSE----SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
            +        G   +    S + I  I ++D+            N    + ++      G
Sbjct: 3   KLGDIATYINGYAFKPQDWSDEGIPIIRIQDLTGN-----SYQANRYNGEYASKYEVNDG 57

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            +L       L   I      + +     +                  + +   +   GA
Sbjct: 58  DVLISWS-ASLGVYIWHGEKAVLNQHIFKVVFDKERISKDFFVHQVGLILENAASDAHGA 116

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
           TM H        +P  +PP  +Q  I E +   T  I     +  +  EL       + +
Sbjct: 117 TMKHLTKPVFDALPFYLPPYEKQCEIAEVLDKVTSLISLRKQQLAKLDEL-------VKA 169

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
             V    +     K+     +  V   +     +   T+  + +T +    I +   G +
Sbjct: 170 RFVEMFGDSVANTKNFPSTTLETVMTVFPQNGLYKPQTDYVQDDTGIPILRIDAFYNGKV 229

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ-VMERGIITSAYMAV 323
                 + + +  E+     ++   +IV   ++             + E+ +  S  M  
Sbjct: 230 TNWNTLKRL-ICSETEIDRYLLKENDIVINRVNSIEYLGKCAHIVGLKEKTVFESNMMRF 288

Query: 324 KP--HGIDSTYLAWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
                 +++ Y+  ++ + D+ +        S  + S+  EDVK L +LVPP+  Q    
Sbjct: 289 HMDEKKVNAVYVTEVLCTEDIYRQILRRAKKSVNQASINQEDVKSLEILVPPLSLQNQFA 348

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
             +     R+D   + ++QS+  L+  + + +    
Sbjct: 349 AFVE----RVDQQKQTVQQSLEKLELMKKALMQEYF 380


>gi|304396445|ref|ZP_07378326.1| restriction modification system DNA specificity domain protein
           [Pantoea sp. aB]
 gi|304355954|gb|EFM20320.1| restriction modification system DNA specificity domain protein
           [Pantoea sp. aB]
          Length = 450

 Score =  126 bits (316), Expect = 6e-27,   Method: Composition-based stats.
 Identities = 58/406 (14%), Positives = 131/406 (32%), Gaps = 8/406 (1%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGN-SRQSDTST 77
           G +P+ W +        +  G      + I       +     +   K    +   +T  
Sbjct: 4   GKLPEGWVLSKFTDLMDVQGGTQPPKSEFIAEEKEGYIRLLQIRDFGKKPVPTYIPETKK 63

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
           +    K  +L G+ G  L +      +G  +     +     L      + L  ++ Q  
Sbjct: 64  LKTCRKEDLLIGRYGASLGRIC-TGHEGAYNVALAKVIYPQELERSYIRYYLESEIFQFP 122

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
             +   +  +  + + +      + P  EQ +I EK+    V++D+      +  ++LK 
Sbjct: 123 LKLLSRSAQNGFNKEDLSRFDFLLAPRDEQKIIAEKLDTLLVQVDSTKARLEQIPQILKR 182

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
            +QA+++  V+  L  D +       W         +     L          +    + 
Sbjct: 183 FRQAVLAAAVSGKLTEDYRENQVITSWDNTTLGTLIIDSCNGLAKRSGTDGEDITILRLA 242

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFR-FIDLQNDKRSLRSAQVMERGII 316
                  I   E R + L  +    Y +     +V R         R +   Q  E    
Sbjct: 243 DFKNAQRIHGNE-RKITLDSKEINKYSLKKSDILVIRVNGSADLAGRFIEYKQTYEIEGF 301

Query: 317 TSAYMAV--KPHGIDSTYLAWLMRSYDLCKVFYAM--GSGLRQSLKFEDVKRLPVLVPPI 372
              ++ +      I S +L ++    +           S  + ++    +K L + +P +
Sbjct: 302 CDHFIRLRLNSEKISSRFLTFIANEGEGRFYLRNSLSTSAGQNTINQTSIKGLALSLPTL 361

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            EQ +I   +    A  D + +++  ++  +     S +  A  G+
Sbjct: 362 PEQHEIVRRVEQLFAYADTIEKQVNNALTRVNNLTQSILVKAFRGE 407


>gi|229165872|ref|ZP_04293638.1| hypothetical protein bcere0007_8480 [Bacillus cereus AH621]
 gi|228617577|gb|EEK74636.1| hypothetical protein bcere0007_8480 [Bacillus cereus AH621]
          Length = 413

 Score =  126 bits (316), Expect = 7e-27,   Method: Composition-based stats.
 Identities = 64/404 (15%), Positives = 127/404 (31%), Gaps = 28/404 (6%)

Query: 25  WKVVPIKRFTKLNTGRTSE----SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           W+        ++  G T +        +  +   ++   T      D   +    +    
Sbjct: 20  WEQRKFSEIAEIRRGLTYKPADVRDVGVRVLRSSNINEDTFVLKSDDVFVKAEAANIDF- 78

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
                IL        R           +   +      +       ++ ++  +   +  
Sbjct: 79  VENEDILITSANGSSRLVGKHALISGINDNTVHGGFMLLARANRPQFVNALMSSNWYDKF 138

Query: 141 CE------GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
                      + +     + +  + +P   EQ  I E        ID LI    R +EL
Sbjct: 139 INVFVSGGNGAIGNLSKSDLESQTVFVPNDEEQKKIGEF----FASIDNLIPLHQRKLEL 194

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
           LKE K++L+  +  K      +++  G           E     +       KN    E+
Sbjct: 195 LKETKKSLLQKMFPKNGANIPEIRFEGFTDAWEQRKLGEF----SEKVTEKNKNNIYSET 250

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFR-FIDLQNDKRSLRSAQVMER 313
              S  YG I Q           ++ + Y +V P + V+   I        +   ++   
Sbjct: 251 LTNSAKYGIINQLDFFDKDISNEKNLDGYYVVRPDDFVYNPRISNLAPVGPINRNKLGRS 310

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL----RQSLKFEDVKRLPVLV 369
           G+++  Y   + H +D TYL     S          G       R ++K    + +P+ +
Sbjct: 311 GVMSPLYYVFRTHNVDKTYLEKYFSSNSWHIFMKLNGDSGARSDRFAIKDSVFREMPIPI 370

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           P I EQ  I N       ++D L+   ++ +  LK  + S +  
Sbjct: 371 PSINEQTQIGNF----FKQLDNLITLHQRELNSLKNLKKSLLQQ 410


>gi|78773894|gb|ABB51239.1| type I RM system S subunit [Arthrospira platensis]
          Length = 417

 Score =  126 bits (316), Expect = 7e-27,   Method: Composition-based stats.
 Identities = 59/429 (13%), Positives = 128/429 (29%), Gaps = 44/429 (10%)

Query: 8   PQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRT-----SESGKDIIYIGLEDVESGTGK 62
           P YK + V   G IP+ W+VV +       T  +       S     +I + ++   +  
Sbjct: 15  PGYKQTEV---GVIPEDWEVVRVGDLEPYVTSGSRGWAKYYSKYGASFIRITNLNKNSIY 71

Query: 63  YLPKDGNS----RQSDTSTVSIFAKGQILYGKLGPYLRKAIIA---DFDGICSTQF--LV 113
               +          +    +    G IL            I          +     + 
Sbjct: 72  LNLNELKFVALPNHVNEGKRTRLKNGDILISITADIGIIGYINSSVPQPAYINQHISLVR 131

Query: 114 LQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
              K+++ + +  +L+   V +      +    +  +   I ++ + IPPL EQ  I   
Sbjct: 132 FDLKNIVSKYIAYFLVCEKVQRFFRGSTDQGAKAGINLDKIRSLQLAIPPLPEQKAIASV 191

Query: 174 IIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWE 233
           +      I +L     +   +     Q L        L    ++   G EW     ++  
Sbjct: 192 LSDVDELISSLDKLIAKKRHIKTATMQQL--------LTGKTRLPGFGGEWETKSLEYLT 243

Query: 234 VKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVF 293
                  +     +  ++  +     + G                 Y    I+D   I+ 
Sbjct: 244 ECLDNLRIPLNEVQRARMKGNYPYCGANG--------------ILDYVNEYIIDDDIILL 289

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL 353
                  D+ + R      +G                 +  +L        V   + SG 
Sbjct: 290 AEDGGYFDEHTTRPIAYRMKGKCWVNNHVHILKAKPGYHQDFLFYCLVHKNVLPFLASGT 349

Query: 354 RQSLKFEDVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           R  L   ++ ++ + +P   +EQ  I +V++         +  +E+     +  +   + 
Sbjct: 350 RAKLNKSEMNKIEINLPKNSEEQKAIASVLSDMDKE----IAALEKRRAKTQAIKQGMMQ 405

Query: 413 AAVTGQIDL 421
             +TG+  L
Sbjct: 406 ELLTGRTRL 414



 Score = 86.4 bits (212), Expect = 9e-15,   Method: Composition-based stats.
 Identities = 32/218 (14%), Positives = 77/218 (35%), Gaps = 16/218 (7%)

Query: 217 MKDSGIEWVGLVPDHWEVKPFFALVTELNRKN-TKLIESNILSLSYGNIIQKLETRNMGL 275
            K + +  +    +   V      VT  +R       +     +   N+ +     N+  
Sbjct: 17  YKQTEVGVIPEDWEVVRVGDLEPYVTSGSRGWAKYYSKYGASFIRITNLNKNSIYLNLNE 76

Query: 276 -------KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY--MAVKPH 326
                     +      +  G+I+   I          ++ V +   I      +     
Sbjct: 77  LKFVALPNHVNEGKRTRLKNGDILIS-ITADIGIIGYINSSVPQPAYINQHISLVRFDLK 135

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
            I S Y+A+ +    + + F      G +  +  + ++ L + +PP+ EQ  I +V++  
Sbjct: 136 NIVSKYIAYFLVCEKVQRFFRGSTDQGAKAGINLDKIRSLQLAIPPLPEQKAIASVLSDV 195

Query: 386 TARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
               D L+  +++ I   +  +++ +   +TG+  L G
Sbjct: 196 ----DELISSLDKLIAKKRHIKTATMQQLLTGKTRLPG 229


>gi|237712397|ref|ZP_04542878.1| type I restriction enzyme EcoAI specificity protein [Bacteroides
           sp. 9_1_42FAA]
 gi|229453718|gb|EEO59439.1| type I restriction enzyme EcoAI specificity protein [Bacteroides
           sp. 9_1_42FAA]
          Length = 475

 Score =  126 bits (316), Expect = 7e-27,   Method: Composition-based stats.
 Identities = 65/408 (15%), Positives = 143/408 (35%), Gaps = 33/408 (8%)

Query: 20  AIPKHWKVVPIKRF-TKLNTGRTSESGK--DIIYIGLEDVES-GTGKYLPKDGNSRQSDT 75
            +P+ W    +     +L  G + +S     I  + + ++ + GT  Y     +S   D 
Sbjct: 70  EVPESWVWCRLDDIVCELKYGTSEKSSSVGKIAVLRMGNITNVGTIDYSNLVYSSNDEDI 129

Query: 76  STVSIFAKGQILYGKLGP---YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
              S+  K  +L+ +        + AI  +        +L+     ++       +++  
Sbjct: 130 EQYSL-EKNDLLFNRTNSSEWVGKTAIYKEEQPAIYAGYLIRIKPLLISPDYLNTVMNSG 188

Query: 133 VT--QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
                  +   +    S+ + + +  + +PIPPL EQ  I  ++      ID +   +  
Sbjct: 189 YYRDWCYDVKTDAVNQSNINAQKLSQLMIPIPPLKEQERIVAEMDKWISLIDIVKNGKGD 248

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVG---------------LVPDHWEVK 235
            + ++K+ K  ++   +   L P     +  IE +                 +PD W   
Sbjct: 249 LLTVIKQAKSKILDLAIHGQLVPQDPNDEPPIELLKRINPDFTPCDNGHYTQLPDGWCYA 308

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKP---ESYETYQIVDPGEIV 292
                V  +N KN    +  +  +   NI                +    +     G+I 
Sbjct: 309 TIKE-VFIINPKNKADDDVEVGFVPMANITDGYNNTFKYETKQWGKIKTGFTHFANGDIA 367

Query: 293 FRFIDLQ--NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG 350
              I     N K  +        G+ T+     +P  +D  Y  +  +S           
Sbjct: 368 VAKISPCLENRKSVVLKGLPNGIGVGTTELHVFRPLFLDVQYGLYFFKSDYFISQCVGSF 427

Query: 351 SGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
           +G+  +Q +    ++ + + +PPI EQ  I   ++   A++D+++E +
Sbjct: 428 NGVVGQQRVSKNIIENMIIAIPPINEQKRIACAVHKIFAKLDMIMESL 475



 Score = 78.7 bits (192), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 38/199 (19%), Positives = 77/199 (38%), Gaps = 7/199 (3%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIES--NILSLSYGNIIQKLETRNMGLKPESYET-- 282
            VP+ W       +V EL    ++   S   I  L  GNI          L   S +   
Sbjct: 70  EVPESWVWCRLDDIVCELKYGTSEKSSSVGKIAVLRMGNITNVGTIDYSNLVYSSNDEDI 129

Query: 283 -YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD 341
               ++  +++F   +           +  +  I     + +KP  I   YL  +M S  
Sbjct: 130 EQYSLEKNDLLFNRTNSSEWVGKTAIYKEEQPAIYAGYLIRIKPLLISPDYLNTVMNSGY 189

Query: 342 LCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
                Y + +    + ++  + + +L + +PP+KEQ  I   ++   + ID++       
Sbjct: 190 YRDWCYDVKTDAVNQSNINAQKLSQLMIPIPPLKEQERIVAEMDKWISLIDIVKNGKGDL 249

Query: 400 IVLLKERRSSFIAAAVTGQ 418
           + ++K+ +S  +  A+ GQ
Sbjct: 250 LTVIKQAKSKILDLAIHGQ 268


>gi|302668599|ref|YP_003833047.1| type I restriction modification system S subunit HsdS2
           [Butyrivibrio proteoclasticus B316]
 gi|302397563|gb|ADL36465.1| type I restriction modification system S subunit HsdS2
           [Butyrivibrio proteoclasticus B316]
          Length = 408

 Score =  126 bits (316), Expect = 8e-27,   Method: Composition-based stats.
 Identities = 66/413 (15%), Positives = 135/413 (32%), Gaps = 34/413 (8%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQ 72
           G     W+   +   + + TG T  +        D +++   D++ G            +
Sbjct: 10  GKFNDDWEQRKLIEISDIVTGTTPPTKDKDNYGGDRLFVSPADIQ-GNRYVDETITTLTE 68

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
              +       G  L+  +G  + K          + Q   + P   +      + +  +
Sbjct: 69  KGYALGRELRAGTTLFVSIGSTIGKVAQIKESATTNQQINAVIPNVEMD-DNFVFTMLEN 127

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
             ++I+ +     +   +    G   +  P   EQ  I E        I     +     
Sbjct: 128 EAEKIKKLAATQAVPIINKTTFGETEIQFPKKEEQTRIGEYFSNLDSLITLHQRKCDETK 187

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFA--LVTELNRKNTK 250
           EL K   Q +          P    +   I + G   D WE +       + +++ +   
Sbjct: 188 ELKKYMLQKMF---------PKNGERVPEIRFAGFT-DDWEQRKLGELAEIGDIDHRMPP 237

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIV------DPGEIVFRFIDLQNDKRS 304
            +E  I  L  G+     E    G+K  S E Y+ +      + G+I+F         R 
Sbjct: 238 TVEDGIPYLMTGDFCGINELNFEGVKHVSQEDYEQLSRKIKPEKGDIIFARYASVGAVRY 297

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA-MGSGLRQSLKFEDVK 363
           +      +  I  S  +  +   I+S YL   +      K     + S  + ++  + +K
Sbjct: 298 V--DFTRDFLISYSCAIIKQSKKINSKYLYHYLTGDPAQKQIKLEINSSSQANIGIDSMK 355

Query: 364 R-LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
             + VL+P   EQ  I+  ++     +D L+   ++    LKE +   +    
Sbjct: 356 NSITVLLPSADEQTKISEFLSG----LDNLITLHQRKSDELKELKKYMLKNLF 404


>gi|126179043|ref|YP_001047008.1| restriction modification system DNA specificity subunit
           [Methanoculleus marisnigri JR1]
 gi|125861837|gb|ABN57026.1| restriction modification system DNA specificity domain
           [Methanoculleus marisnigri JR1]
          Length = 394

 Score =  126 bits (316), Expect = 8e-27,   Method: Composition-based stats.
 Identities = 81/410 (19%), Positives = 153/410 (37%), Gaps = 34/410 (8%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSE---SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            +P+ W++V ++   K++    S     G+   YIGLE++ES TG+ +           S
Sbjct: 5   ELPEGWRLVKLEEVAKIDNKAVSPDEMRGELQNYIGLENIESNTGQLVSFSETLGDDIKS 64

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV--LPELLQGWLLSIDVT 134
               F +  ILYGKL PYL K  + DF G+CST  + ++P     + E L  +L + +  
Sbjct: 65  NKFGFTEEHILYGKLRPYLNKVYLPDFAGVCSTDIIPIKPDSDLLIREFLGYFLRTPEFV 124

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             I A   GA +   + K + ++ +P+PP+  Q  I   +               R    
Sbjct: 125 SMINAKSSGANLPRVNPKTLLDVYIPLPPIETQYKIVAILEKTEAT--------QRLRAE 176

Query: 195 LKEKKQALVSY-IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
                Q L+    +    +P    K   I  +                +   R   +   
Sbjct: 177 ADALTQKLMQNVFLEMFGDPATNPKGWDIVKL-----DAIAVLQRGKFSHRPRNEPRFYG 231

Query: 254 SNILSLSYGNIIQ---KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
            +   +  G+I +   +L T +  L  E  +  ++   G IV        D   L     
Sbjct: 232 GSYPFIQTGDISRSGGRLTTFSQTLNDEGLKISKLFKKGIIVIAIAANIGDTAILDFDSC 291

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP 370
               ++    ++  P   +  +   ++R Y    ++ +     ++++  + +  L V++P
Sbjct: 292 FPDSVVG---VSPMPDKANPIFTEMMLRHYKNI-LWDSAPETAQRNINLKILSDLNVILP 347

Query: 371 PIKEQFDITNVIN--VETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           P+  Q     +      T  I       + S  LL       ++ A TG+
Sbjct: 348 PLDLQNRFAKIAQSIQVTRDIQNKSAVEKSS--LLNN----LMSKAFTGE 391


>gi|126726006|ref|ZP_01741848.1| putative type I restriction-modification system, S subunit
           [Rhodobacterales bacterium HTCC2150]
 gi|126705210|gb|EBA04301.1| putative type I restriction-modification system, S subunit
           [Rhodobacterales bacterium HTCC2150]
          Length = 371

 Score =  126 bits (316), Expect = 8e-27,   Method: Composition-based stats.
 Identities = 62/403 (15%), Positives = 124/403 (30%), Gaps = 37/403 (9%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           +P+ W    +   T+   G                 +   G+             ST  +
Sbjct: 2   VPEGWGECRLGEVTEFQRGFDLPKS-----------QRQVGEIPIISSAGYSGWHSTAKV 50

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
              G I+ G+ G      ++ +     +T   V        +     L +ID  +  +  
Sbjct: 51  ERAG-IVTGRYGSIGDVFLVYEDHWPLNTTLWVKDFHGNHIQWAYHLLQTIDYAKFSDK- 108

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
                +   +   I  I + +PPL EQ  I E +       D  I      +   K +K+
Sbjct: 109 ---TGVPGINRNDIHRIKVRVPPLPEQRKIAEIL----GTWDRAIEVAEAQLAAAKTQKR 161

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
           +L+  ++T       K + S  E                  +  + KN       I  +S
Sbjct: 162 SLMQQLLTG------KRRFSEFEGQPWKEVRLGDVGQVITGSTPSTKNEHYYGGPIPFVS 215

Query: 261 YGNIIQKLETRN--MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
             ++  +    +    L  E     + V  G  +F  I                  +   
Sbjct: 216 PADLDGRTLIYSAQKTLTHEGMSVSRTVPKGATLFSCIGYIGKVGLAGV-----DLVTNQ 270

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
              AV P+    +   +   S    KV    G  +   +   +     + +PP++EQ  I
Sbjct: 271 QINAVVPNSSVDSEYLFYALSAIGPKVKLLAGHNVVPIVNKSEFSLQRITLPPLREQKKI 330

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
              +    A ++V +      I  L+  +++ +   +TG+  +
Sbjct: 331 AASLG--IADVEVAIFSTN--IENLRTEKNALMQQLLTGKRRV 369


>gi|19746826|ref|NP_607962.1| specificity determinant HsdS [Streptococcus pyogenes MGAS8232]
 gi|19749064|gb|AAL98461.1| putative specificity determinant HsdS [Streptococcus pyogenes
           MGAS8232]
          Length = 395

 Score =  126 bits (316), Expect = 8e-27,   Method: Composition-based stats.
 Identities = 60/404 (14%), Positives = 128/404 (31%), Gaps = 38/404 (9%)

Query: 24  HWKVVPIKRFTKLNTGRTS---------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
            W+   +   + +  G +          ++  DI ++ + DV    G+         +  
Sbjct: 17  EWEEKKLGEISNIVRGASPRPIQDPKWFDAKSDIGWLRISDVTEQEGRITYLQQRISELG 76

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
                +     +L        +  I     G+     + L PK         +       
Sbjct: 77  QEKTRVLKDPHLLLSIAATVGKPVINYVKTGVHDGFLVFLDPKF---NREFMFQWLDMFR 133

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
                  +  +  + + + I N  + +P L EQ  I E        +D LI  + + +  
Sbjct: 134 PYWNKYGQPGSQVNLNSEIIRNQVINLPSLPEQEAIGE----LFQTVDQLIQLQRQKLAT 189

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
           LKE+KQ  +  +      P    K   I   G   + WE K    +V     ++      
Sbjct: 190 LKEQKQTFLRKMF-----PAQGQKVPEIRLQGFDGE-WEEKELGDIVQITMGQSPSSQNY 243

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQ--IVDPGEIVFRFIDLQNDKRSLRSAQVME 312
                 Y  +    + +N  + P  + T      D G+I+        D        ++ 
Sbjct: 244 TTNPSDYILVQGNADIKNGYVFPRVWTTQITKQADKGDIILSVRAPVGDVGKTNYHVIIG 303

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPP 371
           RG+              + ++  +++       +  + +G    S+   D+K   + +P 
Sbjct: 304 RGVAA---------IKGNEFIFQILKYLKEIGYWKRISTGSTFDSISSSDIKYAKIQIPS 354

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           + EQ  I N        +D  + + E+ +  LK  + + +    
Sbjct: 355 LSEQEAIGNF----FQTLDQQIAQSEEKLTELKALKQTLLNRLF 394


>gi|296122896|ref|YP_003630674.1| Restriction endonuclease S subunits-like protein [Planctomyces
           limnophilus DSM 3776]
 gi|296015236|gb|ADG68475.1| Restriction endonuclease S subunits-like protein [Planctomyces
           limnophilus DSM 3776]
          Length = 413

 Score =  126 bits (315), Expect = 8e-27,   Method: Composition-based stats.
 Identities = 60/416 (14%), Positives = 127/416 (30%), Gaps = 28/416 (6%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVES------GTGKYLPKDGNSRQSDTST 77
            W    +    + N G     G+   ++ +  + +      GT           ++    
Sbjct: 4   GWIYKTLDDVCEFNNGL--WKGEKPPFVTVGVIRNTNFTKEGTLDDSDIAYIEVEAKKFE 61

Query: 78  VSIFAKGQILYGKLG-----PYLRKAIIADFDGICST-----QFLVLQPKDVLPELLQGW 127
                 G ++  K G     P  R A+     G  S         V  PK +    L  +
Sbjct: 62  KRRLVFGDLILEKSGGGPKQPVGRVALFDKRAGDFSFSNFTAAIRVKDPKTLDFRFLHKF 121

Query: 128 LLSIDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           L    ++   E +   +T + + +      I +P+PPL EQ  I   +      + T   
Sbjct: 122 LFWTHLSGVTETMQSHSTGIRNLNGDVYKCIEVPLPPLTEQRRIVGILDEAFEGLATAKA 181

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKM--KDSGIEWVGLVPDHWEVKPFFALVTEL 244
              + ++  +   ++ +  + T+  +  V+   KD      G +                
Sbjct: 182 NAEKNLQNARALFESHLQAVFTQRGDGWVEKTVKDVASPIKGSIRTGPFGSQLLHSEFVD 241

Query: 245 NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
                  I++ +      N  +  ++R +            V PG+++   +        
Sbjct: 242 EGIAVLGIDNAV-----ANEFRWGKSRFITKDKFGQLERYRVYPGDVLITIMGTCGRCAV 296

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLA-WLMRSYDLCKVFYAMGSGL-RQSLKFEDV 362
           +               + +       +YL  + + +            G     L    +
Sbjct: 297 VPDDIPTAINTKHICCITLDWKKCLPSYLHLYFLHAQQSQAFLAKHAKGAIMAGLNMGLI 356

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           + LPVL+PP + Q  I    N        L    ++ +  L E + S +  A +G+
Sbjct: 357 QELPVLLPPTQVQSAIVEAANDLREETQRLESLYQRKLAALDELKKSLLHRAFSGE 412


>gi|298253165|ref|ZP_06976957.1| restriction endonuclease S subunit [Gardnerella vaginalis 5-1]
 gi|297532560|gb|EFH71446.1| restriction endonuclease S subunit [Gardnerella vaginalis 5-1]
          Length = 420

 Score =  126 bits (315), Expect = 9e-27,   Method: Composition-based stats.
 Identities = 56/410 (13%), Positives = 126/410 (30%), Gaps = 26/410 (6%)

Query: 22  PKHWKVVPIKRFTKLNTGRT-----SESGKDIIYIGLEDVESGTGKYLPKDGNSRQS-DT 75
           P   +   I     ++ G        +    ++ +   D++ G  +    +         
Sbjct: 14  PNGVEYKKIGDIADVSIGLATSVTKYKRDSGVLLLHNSDIQQGRIELKNIEHIDDSFAKK 73

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
           ++  +  K  I+    G     A+I D     S  F  +  +      +  + L      
Sbjct: 74  NSSKLLRKNDIITIHTGDVGTSAVITDEYAG-SIGFTTITSRIKDFNQVYPYYLCTYFNS 132

Query: 136 RIEAI----CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
               I       +  S+ + K    I +P+PPL  Q  I   +   T     L  E    
Sbjct: 133 HKCKIDIRKMTISDRSNLNQKDFIKIQVPVPPLEVQREIVRILDNFTELTAELTAELTAR 192

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
            +  +  +  L++       + +  +      +     ++ ++    ++    + +    
Sbjct: 193 KKQYEYYRDTLLA------FDDNNPLHSLISRYCTNGVEYKKIGDIASVDRGGSLQKKDF 246

Query: 252 IESNILSLSYGNIIQKLETR----NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
            E  I  + YG I  K           +  E     +     +IV        +      
Sbjct: 247 CEHGIPCIHYGQIYTKYGLFASKSYTFIDSECASKQRFAHKNDIVMAVTSENIEDVCKCV 306

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ-SLKFEDVKRLP 366
           A   E     S + A+  H  ++ YL +   S         +  G +   +   D+  + 
Sbjct: 307 AWFGEEDAAVSGHSAIIRHNQNAKYLVYYFHSSMFFLQKKKLAHGTKVIEVTPSDLLDVK 366

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           + VPP++ Q  I  +++   A  + L + +   I   ++     R   + 
Sbjct: 367 IPVPPLEVQRQIVQILDRFDALCNDLTQGLPAEIEARRKQYEYYRDQLLT 416


>gi|160934946|ref|ZP_02082332.1| hypothetical protein CLOLEP_03821 [Clostridium leptum DSM 753]
 gi|156866399|gb|EDO59771.1| hypothetical protein CLOLEP_03821 [Clostridium leptum DSM 753]
          Length = 444

 Score =  126 bits (315), Expect = 9e-27,   Method: Composition-based stats.
 Identities = 59/402 (14%), Positives = 135/402 (33%), Gaps = 9/402 (2%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSE-SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
            +PK+W  V   +   L +GR ++ +  + + IG+  +  G            +   +  
Sbjct: 29  KVPKNWCWVRFSKIINLISGRDAKLTDCNSLGIGIPYIL-GASNLENNVFTIERWIENPQ 87

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
            I  K  +L    G   +  +  +     S Q + ++    L      + L  +++    
Sbjct: 88  VISLKNDVLLSVKGTIGKVYLQKEEKVNISRQIMAIRTSSTL-FPRFTYWLVNNISDSFR 146

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
               G  +     + I    +P PPL EQ  I ++I +   ++D    +    +   + +
Sbjct: 147 QAGNGL-IPGISREDILQKEVPFPPLPEQQRIVDRIESLFAKLDEAKQKTQEALNSYETR 205

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTE-LNRKNTKLIESNIL 257
           K A++    T  L    + +              ++        +     +         
Sbjct: 206 KAAILHKAFTGELTARWRKEHGLGMESWEKYKFNDILDVRDGTHDSPTYFDQGFPLITSK 265

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
           +L  G I  K          +       VD G+I+F  I    +   +   +   +  I 
Sbjct: 266 NLKDGKITDKDLKFISKEDYDKINERSKVDIGDILFAMIGTIGNPVVV---ETQPKFAIK 322

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQF 376
           +  +          ++ + + S  +         G  ++ +    ++   +L+P  KEQ 
Sbjct: 323 NVALFKNIGKASPYFVKYFLESKKVIDRMEKDAKGSTQKFVSLGYLRAFNILLPKSKEQT 382

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           +I  +++   A+     E  E  +  +   + S +A A  G+
Sbjct: 383 EIVRILDDLLAKEQQAKEAAEAVLDQIDLMKKSILARAFRGE 424



 Score = 94.1 bits (232), Expect = 4e-17,   Method: Composition-based stats.
 Identities = 38/201 (18%), Positives = 79/201 (39%), Gaps = 7/201 (3%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
              E    VP +W    F  ++  ++ ++ KL + N L +    I+      N     E 
Sbjct: 22  PDWEQPYKVPKNWCWVRFSKIINLISGRDAKLTDCNSLGIGIPYILGASNLENNVFTIER 81

Query: 280 YETYQ--IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
           +      I    +++                Q  E+  I+   MA++          + +
Sbjct: 82  WIENPQVISLKNDVLLSVKGTIGKVY----LQKEEKVNISRQIMAIRTSSTLFPRFTYWL 137

Query: 338 RSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
              ++   F   G+GL   +  ED+ +  V  PP+ EQ  I + I    A++D   +K +
Sbjct: 138 -VNNISDSFRQAGNGLIPGISREDILQKEVPFPPLPEQQRIVDRIESLFAKLDEAKQKTQ 196

Query: 398 QSIVLLKERRSSFIAAAVTGQ 418
           +++   + R+++ +  A TG+
Sbjct: 197 EALNSYETRKAAILHKAFTGE 217


>gi|119943936|ref|YP_941616.1| restriction modification system DNA specificity subunit
           [Psychromonas ingrahamii 37]
 gi|119862540|gb|ABM02017.1| restriction modification system DNA specificity domain
           [Psychromonas ingrahamii 37]
          Length = 400

 Score =  126 bits (315), Expect = 9e-27,   Method: Composition-based stats.
 Identities = 62/409 (15%), Positives = 127/409 (31%), Gaps = 30/409 (7%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKD---IIYIGLEDVESGTGKY-LPKDGNSRQSDTSTVS 79
            WK   +    ++     +    D   I  I  + +   T  Y L +  N      +   
Sbjct: 2   EWKTEKLGNVCEIIKRGIAPKYVDEGGICVINQKCIRDHTVNYSLARRHNLIIKSVNEER 61

Query: 80  IFAKGQILYGKLGP-YLRKAIIADFDGI----CSTQFLVLQPK---DVLPELLQGWLLSI 131
               G +L    G   L +        I      T   +++PK             +   
Sbjct: 62  YVQVGDVLINSTGTGTLGRVAQVRNMPIEPTTVDTHVTIVRPKNGLFHNDFFGYMLIKIE 121

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
           +          G T                  + EQ  I   +      ++   T+  + 
Sbjct: 122 EEITSAGEGASGQTELARTKLQNDFFVSYPDSIQEQKRIVVLLDTVFADLEQTRTKTEQN 181

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           ++  +E   + +  + +K     V+   S I  VG         P  + +          
Sbjct: 182 LKNARELFDSYLQQLFSKKSEGWVEKTLSEIAHVG-----TGGTPLKSTIGFWGGDIPWY 236

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
                      +         +     S    ++   G ++    D      +L+ + + 
Sbjct: 237 SSG-----ELNDTYTLASKNKITEVGLSGSNAKLFPKGSLLIGMYDT----AALKMSILD 287

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCK-VFYAMGSGL-RQSLKFEDVKRLPVLV 369
             G    A   VKP+   +  L +++ S ++ K     +  G+ +++L    +K +P+ +
Sbjct: 288 RDGTFNQAVAGVKPNPKIN--LEFILHSINVIKPELLKLRRGVRQKNLNQSKIKNIPIRL 345

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           P I EQ  I   IN    + ++LV    Q I  + E + S +  A +G+
Sbjct: 346 PTIAEQIKIVAEINDLEEKTNLLVNIYSQKITSIDELKKSILQKAFSGE 394



 Score = 76.8 bits (187), Expect = 7e-12,   Method: Composition-based stats.
 Identities = 36/195 (18%), Positives = 68/195 (34%), Gaps = 7/195 (3%)

Query: 23  KHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           + W    +     + TG T         G DI +    ++                   S
Sbjct: 202 EGWVEKTLSEIAHVGTGGTPLKSTIGFWGGDIPWYSSGELNDTYTLASKNKITEVGLSGS 261

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
              +F KG +L G       K  I D DG  +     ++P   +  L         +   
Sbjct: 262 NAKLFPKGSLLIGMYDTAALKMSILDRDGTFNQAVAGVKPNPKIN-LEFILHSINVIKPE 320

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           +  +  G    + +   I NIP+ +P +AEQ+ I  +I     + + L+    + I  + 
Sbjct: 321 LLKLRRGVRQKNLNQSKIKNIPIRLPTIAEQIKIVAEINDLEEKTNLLVNIYSQKITSID 380

Query: 197 EKKQALVSYIVTKGL 211
           E K++++    +  L
Sbjct: 381 ELKKSILQKAFSGEL 395


>gi|150401945|ref|YP_001329239.1| restriction modification system DNA specificity subunit
           [Methanococcus maripaludis C7]
 gi|150032975|gb|ABR65088.1| restriction modification system DNA specificity domain
           [Methanococcus maripaludis C7]
          Length = 432

 Score =  126 bits (315), Expect = 9e-27,   Method: Composition-based stats.
 Identities = 64/436 (14%), Positives = 142/436 (32%), Gaps = 29/436 (6%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTK-LNTGRTSESGK------DIIYIGLEDVESGTG 61
           ++KD+    IG IP  W+V+ +K+ T+ + +G T ++ K      DI ++   +  + + 
Sbjct: 4   EFKDTE---IGKIPVDWEVLELKQVTENIFSGGTPDTRKPEYWNGDIPWLSSGETRNNSI 60

Query: 62  KYLPKDGNSRQSDTSTVSIFAKGQILYGKLGP--YLRKAIIADFDGICSTQFLVLQPKDV 119
               K    +  + S+  +  K  I+    G      +A     D   +   + L+ K  
Sbjct: 61  TETEKKITYKGVENSSTRLAKKEDIVIASAGQGYTRGQASFCKIDTYINQSIVALRTKKE 120

Query: 120 L-PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
           L   L   + +++   +        ++      K +  + +PIPPL EQ  I + + A  
Sbjct: 121 LVNPLFLYYNITLRYNELRAISDSHSSRGSLTTKLLAPLKIPIPPLEEQQKIAQILSALD 180

Query: 179 VRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLV-----PDHWE 233
            +I+    +     E      +           +    +++ G            P+ W 
Sbjct: 181 DKIENNNQQNKILEETANSIFKEWFVDFNFLNEDGLSYLENDGEMEFNEELEIEIPEGWN 240

Query: 234 VKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGE--- 290
           VK    + T +     K                  +  +           +I + G    
Sbjct: 241 VKYLDEICTVMGGGTPKTNVPEYWQDGTILWATPTDMTSKKSPVIDTTEKKITELGLKES 300

Query: 291 ----IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF 346
               +    I + +      S+  M+       ++ +      S Y    +  +   K+ 
Sbjct: 301 SAKLVPKGSILMTSRATIGYSSIAMKEISTNQGFINIICDKKVSNYFILYLLEHIKDKII 360

Query: 347 YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
                     +   + K + V+VP  +       +I     +    + K  +    L   
Sbjct: 361 ALANGSTFLEISKTNFKNIRVIVPDYQTMEKYNEIIEELINK----IYKNSKENQNLSNL 416

Query: 407 RSSFIAAAVTGQIDLR 422
           R   +   ++G+I L+
Sbjct: 417 RDLLLPKLMSGEIRLK 432


>gi|153838491|ref|ZP_01991158.1| hypothetical Type I restriction enzyme EcoEIspecificity protein
           [Vibrio parahaemolyticus AQ3810]
 gi|149748114|gb|EDM58973.1| hypothetical Type I restriction enzyme EcoEIspecificity protein
           [Vibrio parahaemolyticus AQ3810]
          Length = 391

 Score =  126 bits (315), Expect = 1e-26,   Method: Composition-based stats.
 Identities = 72/406 (17%), Positives = 152/406 (37%), Gaps = 25/406 (6%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +  +P  W+   I+    + +G+                    G++    GN      + 
Sbjct: 5   LYKLPDGWEWKRIEDIFTITSGKNLTKKDMH----------DEGEFPVYGGNGIAGRYND 54

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFD-GICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
            ++     I+ G++G       + + D  +    F + + K  + +    +L  +  T  
Sbjct: 55  FNLSGSN-IIIGRVGALCGNVRLVNSDIWVTDNAFFIKEYKVDILKE---YLAKVLSTLN 110

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           + A    A      +KGI ++ +P PPL EQ  I EKI A   RIDT I      I L  
Sbjct: 111 LGATANKAAQPVISYKGIKDLVIPYPPLDEQKRIVEKIDALLTRIDTAIEHLQESITLAD 170

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
               + ++ +      P     +S  +  G V              +     +  +   I
Sbjct: 171 ALYASELNEVF-----PSDADIESLSDKAGWVSLSDICTFENGDRGKNYPSKSAFVAEGI 225

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQ--NDKRSLRSAQVMERG 314
             +S GN+ ++    + GL   + E Y ++  G I    I          +  ++ ++ G
Sbjct: 226 PVVSAGNLGERYI-DHKGLNYITPERYDLLRSGRIKIGDILFCLRGSLGKVAISKDIDEG 284

Query: 315 IITSAYMAVKPHGIDSTYLAW-LMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPI 372
           +I S+ + ++P    S    +  ++S    +      +G  + +L  + + +  + +P  
Sbjct: 285 VIASSLVIIRPKACVSAEYIYKYLKSSLCQQFISFYNNGAAQPNLSAKSLGKFMLPLPNA 344

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            EQ  I + ++ +      L++ +   I  LK  ++S + +A  G+
Sbjct: 345 DEQKIIIDGLDEKYQHNQKLLDALRDKIDSLKILKASILDSAFKGE 390


>gi|172040757|ref|YP_001800471.1| type I restriction-modification system, specificity subunit
           [Corynebacterium urealyticum DSM 7109]
 gi|171852061|emb|CAQ05037.1| type I restriction-modification system, specificity subunit
           [Corynebacterium urealyticum DSM 7109]
          Length = 397

 Score =  125 bits (314), Expect = 1e-26,   Method: Composition-based stats.
 Identities = 77/409 (18%), Positives = 143/409 (34%), Gaps = 20/409 (4%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           I  H+ + P    + L    ++  G+    + L+ +E  TG+ L   G       +    
Sbjct: 2   IDSHFPLAPFWALSSLVNEVSTPQGE---LVSLDRIEGKTGRLLQGGG----ESNANGRH 54

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL-SIDVTQRIEA 139
           F K  +L+GKL PYL K  +AD  G       V +P          +++ S   T     
Sbjct: 55  FRKDDVLFGKLRPYLAKYWLADRPGTAQGDIHVYRPTLRTDPRFLAYIVGSDYFTGLANT 114

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
              G+ M   +W  +    +P PP   Q  I + +  ET  ID +  +  +   LL E++
Sbjct: 115 SSTGSKMPRVEWPKVAQFRVPFPPRRTQRAIADYLDRETAEIDAMTADLDKMEALLTERR 174

Query: 200 QALVSYIVTKGLN-PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
             ++     + LN P   +      ++G +    +           +  N          
Sbjct: 175 AEILRSWFGEQLNNPRAPLATIAELYIGKMEQPRQKSADEIYAPFFHSAN---------- 224

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
           +  G +I    +            + ++  G++V            +  +        + 
Sbjct: 225 IRPGGMIDLECSVKHMWFRPDELDHMLLRKGDVVVVEGGAAGRPGYIAKSVDGWGIQKSV 284

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPPIKEQFD 377
                    +   YL + +        F    S         E   R  V V  + +Q  
Sbjct: 285 IRARPFEDKVIGKYLFYALTFAFEDGQFDLQASLATLAHFPAEKAARFRVPVRSLADQEL 344

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
           +   ++ + + +  ++  I     LL ERR++ IAAAVTGQID+    +
Sbjct: 345 VVARLDRDLSSLSDMLADITALRDLLAERRAALIAAAVTGQIDIPTAEE 393


>gi|237798535|ref|ZP_04586996.1| putative type I restriction-modification system restriction subunit
           [Pseudomonas syringae pv. oryzae str. 1_6]
 gi|331021388|gb|EGI01445.1| putative type I restriction-modification system restriction subunit
           [Pseudomonas syringae pv. oryzae str. 1_6]
          Length = 437

 Score =  125 bits (314), Expect = 1e-26,   Method: Composition-based stats.
 Identities = 57/429 (13%), Positives = 140/429 (32%), Gaps = 41/429 (9%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLP 65
            +P+++D+           WK V +++ +   T R  E     + I          +   
Sbjct: 23  RFPEFRDA---------SGWKPVTLRKASVPVTERVGERKLTPVSISAGVGFVPQAEKFG 73

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPY---LRKAIIADFDGICSTQFLVLQPKDVLPE 122
           +D + +Q      ++   G  ++ K            +    G  +   + +  +     
Sbjct: 74  RDISGKQYKL--YTLVRDGDFVFNKGNSLKFPQGCVYLLQGWGQVAAPNVFICFRLKDDY 131

Query: 123 LLQGWLLSIDVTQRIEAICEGAT-------MSHADWKGIGNIPMPIPPLAEQVLIREKII 175
               +    +  Q    + +  T       + +   +    + +P+P L EQ  I   + 
Sbjct: 132 SNGFFQNCFEQNQHGNQLKKHITSGARSNGLLNISKETFFGVEIPVPLLPEQQKIANCLS 191

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVK 235
           +           + R +  LK  K+ L+  I  +      +++    +  G    H    
Sbjct: 192 SLDELTAA----QTRKVYALKSHKKGLMQQIFPQEGETQPRLRFPEFKNAGEWNAHPFED 247

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKL----ETRNMGLKPESYETYQIVDPGEI 291
                    +   +         L  GN+            + L P+S+E++  ++ G+I
Sbjct: 248 FVAKSFYGTSSSTSP--TGQYPVLRMGNMSDGRLDFTNLVYIDLDPDSFESF-RLEEGDI 304

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK--PHGIDSTYLAWLMRSYDLCKVFYAM 349
           +    +       +   Q+    I  S  +  +   + ID ++  +++ +         +
Sbjct: 305 LLNRTNSPALVGKISLFQLKSECITASYIVTYRLKKNRIDPSFCNYMLNTPLYQARIKKL 364

Query: 350 G--SGLRQSLKFEDVKR-LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
              S  + ++     K+ L V VP + EQ  I + +      +D L+    Q +  L+  
Sbjct: 365 AKPSISQANINPTTFKKELIVSVPALLEQQRIADCLTA----LDDLIAAQTQRLDSLRTH 420

Query: 407 RSSFIAAAV 415
           + + +    
Sbjct: 421 KKALMQQLF 429


>gi|148976279|ref|ZP_01813003.1| type I restriction-modification enzyme, S subunit [Vibrionales
           bacterium SWAT-3]
 gi|145964373|gb|EDK29628.1| type I restriction-modification enzyme, S subunit [Vibrionales
           bacterium SWAT-3]
          Length = 411

 Score =  125 bits (314), Expect = 1e-26,   Method: Composition-based stats.
 Identities = 69/417 (16%), Positives = 144/417 (34%), Gaps = 21/417 (5%)

Query: 21  IPKHWKVVPIKRFTK--LNTGRTSESGK---DIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           +P  W+   +K   K  ++ G           +  + + D+   T   +     S +   
Sbjct: 2   VPNGWEEKSLKDICKKTISYGIVQTGENIENGVPCVRVVDLSKNTLNPVEMIKTSDKIHQ 61

Query: 76  S-TVSIFAKGQILYGKLGPYL--RKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
           S   +I  +G+++    G     +K          +     L P   +      W L  +
Sbjct: 62  SYKKTILCEGELMMALRGEIGLVKKVTPELVGANITRGLARLSPIKSVDSDYLLWTLRSN 121

Query: 133 VTQRIEAICEG-ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
             +   +   G + +       +  + +PIPPL EQ  I + +       D  I    + 
Sbjct: 122 KIKNELSRKSGGSALQEIALGSLRKVVLPIPPLPEQRKIAQIL----STWDRGIATTEKL 177

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           IE  K++K+AL+  ++T      +   ++G  + G    H      F     L +K    
Sbjct: 178 IETSKQQKKALMQQLLTGK--KRLVNPETGKAFEGEWERHSMSDLVFIDRKSLGKKTPDD 235

Query: 252 IESNILSLSYGNIIQ-KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
            E   +SLS   +     E              +++  G+I+   +       +  S + 
Sbjct: 236 FEFQYISLSDVAVGSISKELEVHKFASAPSRARRVIQEGDILLSTVRPNLKGFAKVSEKH 295

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLV 369
            +    T   +      +   Y+   + S  +     ++  G    ++   DV  L V  
Sbjct: 296 ADCIASTGFSVLTPKKRVSGDYIHQYIFSSHVTGQIDSLVVGSNYPAINSSDVAGLKVYC 355

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
           P  +EQ  I +V+      I+VL    E  +   K+ + + +   +TG   ++ + +
Sbjct: 356 PTYEEQQKIASVLTAADKEIEVL----EAKLAHFKQEKKALMQQLLTGNRRVKVDEE 408


>gi|71904273|ref|YP_281076.1| type I restriction-modification system specificity subunit
           [Streptococcus pyogenes MGAS6180]
 gi|71803368|gb|AAX72721.1| type I restriction-modification system specificity subunit
           [Streptococcus pyogenes MGAS6180]
          Length = 395

 Score =  125 bits (314), Expect = 1e-26,   Method: Composition-based stats.
 Identities = 60/404 (14%), Positives = 129/404 (31%), Gaps = 38/404 (9%)

Query: 24  HWKVVPIKRFTKLNTGRTS---------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
            W+   +   + +  G +          ++  DI ++ + DV    G+         +  
Sbjct: 17  EWEEKKLGEISNIVRGASPRPIQDPKWFDAKSDIGWLRISDVTEQEGRITYLQQRISELG 76

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
                +     +L        +  I     G+     + L PK         +       
Sbjct: 77  QEKTRVLKDPHLLLSIAATVGKPVINYVKTGVHDGFLVFLDPKF---NREFMFQWLDMFR 133

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
                  +  +  + + + I N  + +P L EQ  I E        +D LI  + + + +
Sbjct: 134 PYWNKYGQPGSQVNLNSEIIRNQVINLPSLPEQEAIGE----LFQTVDQLIQLQRQKLAI 189

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
           LKE+KQ  +  +      P    K   I   G   + WE K    +V     ++      
Sbjct: 190 LKEQKQTFLRKMF-----PAQGQKVPEIRLQGFDGE-WEEKELGDIVQITMGQSPSSQNY 243

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQ--IVDPGEIVFRFIDLQNDKRSLRSAQVME 312
                 Y  +    + +N  + P  + T      D G+I+        D        ++ 
Sbjct: 244 TTNPSDYILVQGNADIKNGYVFPRVWTTQITKQADKGDIILSVRAPVGDVGKTNYHVIIG 303

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPP 371
           RG+              + ++  +++       +  + +G    S+   D+K   + +P 
Sbjct: 304 RGVAA---------IKGNEFIFQILKYLKEIGYWKRISTGSTFDSISSSDIKYAKIQIPS 354

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           + EQ  I N        +D  + + E+ +  LK  + + +    
Sbjct: 355 LSEQEAIGNF----FQTLDQQIAQSEEKLTELKALKQTLLNRLF 394


>gi|254436045|ref|ZP_05049552.1| Type I restriction modification DNA specificity domain protein
           [Nitrosococcus oceani AFC27]
 gi|207089156|gb|EDZ66428.1| Type I restriction modification DNA specificity domain protein
           [Nitrosococcus oceani AFC27]
          Length = 369

 Score =  125 bits (314), Expect = 1e-26,   Method: Composition-based stats.
 Identities = 68/363 (18%), Positives = 130/363 (35%), Gaps = 30/363 (8%)

Query: 81  FAKGQILYGKLGPYLRKAIIADFDG------ICSTQFLVLQPKDVLPELLQ--GWLLSID 132
             KG ++  K         +  +        +C     +L+P     +            
Sbjct: 15  LEKGDVIITKDSETPDDIAVPSYVSDDLSGVVCGYHLTLLKPDQDESDGEFLSHLFQLPS 74

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           V      +  G T        I   P+  PPL EQ  I   +      +D +I +    I
Sbjct: 75  VQHYFYILANGITRFGLTADAINEAPLLTPPLPEQQKIAAIL----SSVDDVIEKTRAQI 130

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFA-----LVTELNRK 247
             LK+ K A++  ++TKG+    + KDS +   G +P  W +          +V  + + 
Sbjct: 131 HKLKDLKTAMMQELLTKGIG-HTEFKDSPV---GRIPVGWSICSAGEVAVAIMVGVVVKP 186

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFR---FIDLQNDKRS 304
               +ES + +L   N+ +   T +  LK  S ++ +I+    ++      +       +
Sbjct: 187 AQYYVESGVPALRSANVRENGLTMD-NLKYFSEDSNEILKKSRLIKGDLLTVRTGYPGTT 245

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVK 363
                  E        +      IDS +    + S            G  +Q     D+K
Sbjct: 246 AVVTDEFEGCNCIDVVITRPSSRIDSDFFCLWVNSDHGKGQVLKAQGGLAQQHFNVSDMK 305

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
            L V+VP + EQ  I N +N  T +    +   E+ + LL + + + +   +TG++ +  
Sbjct: 306 NLTVVVPSLTEQKAIFNAVNSVTKK----IALTEKRLTLLLDTKKALMQDLLTGKVRVNV 361

Query: 424 ESQ 426
           E +
Sbjct: 362 EQE 364



 Score = 62.9 bits (151), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 34/209 (16%), Positives = 68/209 (32%), Gaps = 12/209 (5%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGK 62
           ++KDS V   G IP  W +                          +  +   +V      
Sbjct: 153 EFKDSPV---GRIPVGWSICSAGEVAVAIMVGVVVKPAQYYVESGVPALRSANVRENGLT 209

Query: 63  YLP-KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICS-TQFLVLQPKDVL 120
               K  +   ++    S   KG +L  + G     A++ D    C+    ++ +P   +
Sbjct: 210 MDNLKYFSEDSNEILKKSRLIKGDLLTVRTGYPGTTAVVTDEFEGCNCIDVVITRPSSRI 269

Query: 121 PELLQGWLLSIDV-TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
                   ++ D    ++     G    H +   + N+ + +P L EQ  I   + + T 
Sbjct: 270 DSDFFCLWVNSDHGKGQVLKAQGGLAQQHFNVSDMKNLTVVVPSLTEQKAIFNAVNSVTK 329

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVT 208
           +I          ++  K   Q L++  V 
Sbjct: 330 KIALTEKRLTLLLDTKKALMQDLLTGKVR 358


>gi|261404908|ref|YP_003241149.1| restriction modification system DNA specificity domain-containing
           protein [Paenibacillus sp. Y412MC10]
 gi|261281371|gb|ACX63342.1| restriction modification system DNA specificity domain protein
           [Paenibacillus sp. Y412MC10]
          Length = 384

 Score =  125 bits (314), Expect = 1e-26,   Method: Composition-based stats.
 Identities = 56/402 (13%), Positives = 129/402 (32%), Gaps = 34/402 (8%)

Query: 25  WKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKY--LPKDGNSRQSDTS 76
           W+ V +    ++  G T ++        +I++I   ++   T       +    +     
Sbjct: 4   WEKVRLGDVCEVIGGSTPKTSVKEYWDGEILWITPAELNDTTIIIRDTQRKITDKAISEL 63

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
           ++     G +L     P   K  I   +  C+  F  L   + +      +       + 
Sbjct: 64  SLKKLPVGTVLLSSRAPI-GKVAITGKEMYCNQGFKNLVCSESV-FNKYLFWFLKGKGEF 121

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           + ++  GAT        + NI  P+PPL  Q  I   + A +  +     +     EL  
Sbjct: 122 LNSLGRGATFKEISKSIVENIVFPLPPLEVQKQIAATLDAASELLTMRKQQLSELDEL-- 179

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
                + S       +P    K       G +   +            +R N    + +I
Sbjct: 180 -----IKSVFYEMFGDPVTNEK-------GWILSTFGNIGVLNSGGTPSRSNNSYFKGSI 227

Query: 257 LSLSYGNIIQKL---ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
              S G + Q+        +        + +I   G ++    D    K  + +      
Sbjct: 228 NWFSAGELNQRYLLNSNEKITQLAIEQSSAKIFKAGSLLIGMYDTAAFKLGILAYDAASN 287

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
               +  + +    ++  +L    R      +    G   +++L    +K L + +PP+ 
Sbjct: 288 QACAN--IQINEQLVNIEWLYDCARIMRPHFLSNRRGVR-QKNLNLGMIKNLEIPLPPLD 344

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            Q    +++     +I+     ++Q+I   ++   S ++   
Sbjct: 345 LQIQFADIV----TKIEEQKTLVKQAIDETQQLFDSLMSQYF 382



 Score = 67.1 bits (162), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 31/192 (16%), Positives = 65/192 (33%), Gaps = 10/192 (5%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKD------IIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           K W +        LN+G T     +      I +    ++         +       + S
Sbjct: 196 KGWILSTFGNIGVLNSGGTPSRSNNSYFKGSINWFSAGELNQRYLLNSNEKITQLAIEQS 255

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
           +  IF  G +L G       K  I  +D   +     +Q  + L  +   +  +  +   
Sbjct: 256 SAKIFKAGSLLIGMYDTAAFKLGILAYDAASNQACANIQINEQLVNIEWLYDCARIMRPH 315

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
             +   G    + +   I N+ +P+PPL  Q+   +       +I+   T   + I+  +
Sbjct: 316 FLSNRRGVRQKNLNLGMIKNLEIPLPPLDLQIQFADI----VTKIEEQKTLVKQAIDETQ 371

Query: 197 EKKQALVSYIVT 208
           +   +L+S    
Sbjct: 372 QLFDSLMSQYFD 383


>gi|332992564|gb|AEF02619.1| restriction modification system DNA specificity domain protein
           [Alteromonas sp. SN2]
          Length = 512

 Score =  125 bits (314), Expect = 1e-26,   Method: Composition-based stats.
 Identities = 74/467 (15%), Positives = 158/467 (33%), Gaps = 71/467 (15%)

Query: 21  IPKHWKVVPIKRFT-KLNTGRTSESG------KDIIYIGLEDVESGTGKYLPKDGNSRQS 73
           IP  WK   +      +  G T           +I ++ ++D+     +      +    
Sbjct: 3   IPASWKQTELSEILLSIIGGGTPSKSIPSYYEGNIPWMSVKDMNKSILQDTVDHISEEAV 62

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
             S+ ++   G  +       L K ++A+FD   +     L P   +            +
Sbjct: 63  KNSSTNVIPSGTPIVAT-RMSLGKIVVANFDSAINQDLKALFPASGVN-HEYLIGWYRSI 120

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
           ++++E +  G T+     + + ++  P+PPL EQ +I +K+     +++       R  E
Sbjct: 121 SRKVEELGMGTTVKGIRLEVLKSLEFPLPPLGEQKVIADKLDTLLAQVEATKARLERIPE 180

Query: 194 LLKEKKQALVSYIVTKGL-------NPDVKMKDSGIEWVG-------------------- 226
           +LK  +Q++++  V+  L       N     K+  +E +                     
Sbjct: 181 ILKTFRQSVLADAVSGKLTEEWRAVNKSDFTKEERLEEIRKYKYETWIEEQEAKYEAKGK 240

Query: 227 -----------------------LVPDHWEVKPFFALVTELNRKNTKLIESN-------- 255
                                   +P+ W  +P   LV    R   K ++++        
Sbjct: 241 WPKTDSWKKKYKEAEIDPEFKSRELPESWVNQPLDGLVYISARIGWKGLKASEYTQSGPL 300

Query: 256 ---ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
              + SL+YG  ++  E  N+  +        ++   +I+         K  +       
Sbjct: 301 FLSVHSLNYGREVKLSEAFNISPERYDESPEIMLQNDDILLCKDGAGIGKIGIVKNLAEP 360

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY-AMGSGLRQSLKFEDVKRLPVLVPP 371
             I +S  +          +L + +    + ++    M       L   DVK   + +PP
Sbjct: 361 ASINSSLLLIRSGKYFVPEFLYFFLAGPTMQRLVQERMTGSAVPHLFQRDVKEFVLEIPP 420

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           I EQ +I   +    A  D + +K   ++  +     S +A A  G+
Sbjct: 421 ISEQREIVRRVEELLAFADGIEQKANAALQRVNNLTQSILAKAFRGE 467


>gi|291566632|dbj|BAI88904.1| type I restriction-modification enzyme S subunit [Arthrospira
           platensis NIES-39]
          Length = 417

 Score =  125 bits (314), Expect = 1e-26,   Method: Composition-based stats.
 Identities = 64/435 (14%), Positives = 128/435 (29%), Gaps = 56/435 (12%)

Query: 8   PQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKD 67
           P YK + V   G IP+ W+   +    +    +     ++          +      P  
Sbjct: 15  PGYKQTEV---GVIPEDWETNLLGDVVEFLDSKRKPVKEEQ--------RAKMRGIYPYY 63

Query: 68  GNSRQSDTSTVSIFAKGQILYGKLGPYL-----RKAIIADFDGICSTQFLVLQPKDVLPE 122
           G S   D     +F +  IL G+ G  +     R           +    VL+PK     
Sbjct: 64  GASGIVDYVNDYLFDEDLILMGEDGENILSRNIRLVWQVSGKIWVNNHAHVLRPKSNFNI 123

Query: 123 LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
                 L             G      + +   NI + +PPL EQ  I   +      I 
Sbjct: 124 GFLTEYLESL---DYSLYNSGTAQPKLNQQTCCNIVIALPPLPEQKAIASVLSDVDELIS 180

Query: 183 TLITERIRFIELLKEKKQALVS----------------YIVTKGLNPDVKMKDSGIEWVG 226
           +L     +   +     Q L++                     G     K        +G
Sbjct: 181 SLDKLIAKKRHIKTATMQQLLTGKTRLPGFGEGMGYQKSAKGMGYQKSAKGMGYQKSAIG 240

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIV 286
           L+P+ WEVK    ++   + K+                       N G+ P      +I 
Sbjct: 241 LIPEDWEVKQLGDVLKICHGKSQHH-----------------IISNNGIYPILGTGGEIG 283

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF 346
                ++    +   ++    A +       +         + +    ++   ++L   +
Sbjct: 284 KTNTFLYNRPSVLIGRKGTIDAPIYIDTPFWTIDTLFYSQILSNANAKFIFYKFNLIDWY 343

Query: 347 YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
               +    SL    ++ +    PP+ EQ  I +V++         +  +E+     +  
Sbjct: 344 SYNEASGVPSLNAATIEDINQSFPPLPEQKAIASVLSDMDKE----IAALEKRRAKTQAI 399

Query: 407 RSSFIAAAVTGQIDL 421
           +   +   +TG+  L
Sbjct: 400 KQGMMQELLTGRTRL 414



 Score = 81.0 bits (198), Expect = 4e-13,   Method: Composition-based stats.
 Identities = 31/204 (15%), Positives = 72/204 (35%), Gaps = 13/204 (6%)

Query: 224 WVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY 283
            VG++P+ WE      +V  L+ K   + E     +                    Y   
Sbjct: 21  EVGVIPEDWETNLLGDVVEFLDSKRKPVKEEQRAKMRGIYPYYGASG------IVDYVND 74

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQ-VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
            + D   I+          R++R    V  +  + +    ++P    +  + +L    + 
Sbjct: 75  YLFDEDLILMGEDGENILSRNIRLVWQVSGKIWVNNHAHVLRPK--SNFNIGFLTEYLES 132

Query: 343 CKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
                      +  L  +    + + +PP+ EQ  I +V++      D L+  +++ I  
Sbjct: 133 LDYSLYNSGTAQPKLNQQTCCNIVIALPPLPEQKAIASVLSDV----DELISSLDKLIAK 188

Query: 403 LKERRSSFIAAAVTGQIDLRGESQ 426
            +  +++ +   +TG+  L G  +
Sbjct: 189 KRHIKTATMQQLLTGKTRLPGFGE 212


>gi|306826651|ref|ZP_07459955.1| type I restriction-modification system specificity subunit
           [Streptococcus pyogenes ATCC 10782]
 gi|304431178|gb|EFM34183.1| type I restriction-modification system specificity subunit
           [Streptococcus pyogenes ATCC 10782]
          Length = 395

 Score =  125 bits (314), Expect = 1e-26,   Method: Composition-based stats.
 Identities = 60/404 (14%), Positives = 129/404 (31%), Gaps = 38/404 (9%)

Query: 24  HWKVVPIKRFTKLNTGRTS---------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
            W+   +   + +  G +          ++  DI ++ + DV    G+         +  
Sbjct: 17  EWEEKKLGEISNIVRGASPRPIQDPKWFDAKSDIGWLRISDVTEQEGRITYLQQRISELG 76

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
                +     +L        +  I     G+     + L PK         +       
Sbjct: 77  QEKTRVLKDPHLLLSIAATVGKPVINYVKTGVHDGFLVFLDPKF---NREFMFQWLDMFR 133

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
                  +  +  + + + I N  + +P L EQ  I E        +D LI  + + + +
Sbjct: 134 PYWNKYGQPGSQVNLNSEIIRNQVINLPSLPEQEAIGE----LFQTVDQLIQLQRQKLAI 189

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
           LKE+KQ  +  +      P    K   I   G   + WE K    +V     ++      
Sbjct: 190 LKEQKQTFLRKMF-----PAQGQKVPEIRLQGFDGE-WEEKELGDIVQITMGQSPSSQNY 243

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQ--IVDPGEIVFRFIDLQNDKRSLRSAQVME 312
                 Y  +    + +N  + P  + T      D G+I+        D        ++ 
Sbjct: 244 TTNPSDYILVQGNADIKNGYVFPRVWTTQITKQADKGDIILSVRAPVGDVGKTNYHVIIG 303

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPP 371
           RG+              + ++  +++       +  + +G    S+   D+K   + +P 
Sbjct: 304 RGVAA---------IKGNEFIFQILKYLKEIGYWKRISTGSTFDSISSSDIKYAKIQIPS 354

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           + EQ  I N        +D  + + E+ +  LK  + + +    
Sbjct: 355 LSEQEAIGNF----FQTLDQQIAQSEEKLTELKALKQTLLNRLF 394


>gi|312110993|ref|YP_003989309.1| restriction modification system DNA specificity domain protein
           [Geobacillus sp. Y4.1MC1]
 gi|311216094|gb|ADP74698.1| restriction modification system DNA specificity domain protein
           [Geobacillus sp. Y4.1MC1]
          Length = 409

 Score =  125 bits (314), Expect = 1e-26,   Method: Composition-based stats.
 Identities = 85/413 (20%), Positives = 154/413 (37%), Gaps = 30/413 (7%)

Query: 23  KHWKVVPIKRFTKLNTG-RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
            +W  V +    +L       +  + + YIGLE +  GT + +    +     TST S F
Sbjct: 2   SNWIKVKLGDIVELKRESYHPKPDEVLPYIGLEHIGQGTLRLISVGKS--NEVTSTKSYF 59

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLV---LQPKDVLPELLQGWLLSIDVTQRIE 138
           +KG IL+GKL PY RK +   F+G+CST  LV     P+      L   + S ++     
Sbjct: 60  SKGDILFGKLRPYFRKVVRPKFNGVCSTDILVLTSKNPRKFNQTFLFYLMASQEMIDLAT 119

Query: 139 AICEGATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           A   G  M  ADWK + N+ + IP  + EQ  I + +     +ID  I       E+   
Sbjct: 120 ASSSGTKMPRADWKVLQNLEISIPEDVNEQERIGKILETIDDKIDINIRMNKTLEEMAMT 179

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNT-----KLI 252
             +    + V  G   D +  +S    +G++P  W+V     L   +  K       +  
Sbjct: 180 LYK---HWFVDFGPFQDEEFVES---ELGMIPKGWKVIQVKDLGEVITGKTPSTKVKEYY 233

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESY----ETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
              I  +   ++   +                +  +++ P  +    I            
Sbjct: 234 GDKIPFIKIPDMHGNVYIVKTETMLSELGAQSQKNKMLPPNTVCVSCIATPGLVVLTSEM 293

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVL 368
               + I +     V   G+   ++    +S     V    G     +L   D  R+ +L
Sbjct: 294 SQTNQQINS----VVCKEGVSPYFVYLFFKSISDNIVTLGSGGTATLNLNKGDFSRIKLL 349

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           +P      ++    N +   I  L++    + + L+  R   +   ++G+ID+
Sbjct: 350 MPT----NEVMTGFNNKVESIFNLIKINSLNNIELENLRDYLLPRLLSGEIDV 398



 Score = 59.4 bits (142), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 26/194 (13%), Positives = 56/194 (28%), Gaps = 8/194 (4%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESG-TGKYLPKDGNS 70
           +G IPK WKV+ +K   ++ TG+T  +      G  I +I + D+             + 
Sbjct: 201 LGMIPKGWKVIQVKDLGEVITGKTPSTKVKEYYGDKIPFIKIPDMHGNVYIVKTETMLSE 260

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
             + +    +     +    +       ++       + Q   +  K+ +          
Sbjct: 261 LGAQSQKNKMLPPNTVCVSCI-ATPGLVVLTSEMSQTNQQINSVVCKEGVSPYFVYLFFK 319

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
                 +     G    + +      I + +P          K+ +    I       I 
Sbjct: 320 SISDNIVTLGSGGTATLNLNKGDFSRIKLLMPTNEVMTGFNNKVESIFNLIKINSLNNIE 379

Query: 191 FIELLKEKKQALVS 204
              L       L+S
Sbjct: 380 LENLRDYLLPRLLS 393


>gi|224826954|ref|ZP_03700052.1| restriction modification system DNA specificity domain protein
           [Lutiella nitroferrum 2002]
 gi|224600787|gb|EEG06972.1| restriction modification system DNA specificity domain protein
           [Lutiella nitroferrum 2002]
          Length = 421

 Score =  125 bits (314), Expect = 1e-26,   Method: Composition-based stats.
 Identities = 62/419 (14%), Positives = 125/419 (29%), Gaps = 28/419 (6%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSE-SGKDIIYIGLEDVESGTGKYL 64
            +P+++D         P  W   P+ +  + +T + ++     ++    E        + 
Sbjct: 14  RFPEFQD-------EKP--WSFQPLGKLARRSTRKNTDCEVTRVLTNSAEFGVIDQRDFF 64

Query: 65  PKDGNSRQSDTSTVSIFAKGQILYGK----LGPYLRKAIIADFDGICSTQFLVLQPKDVL 120
            KD  + Q +     I  +G  +Y      + P    +      G+ S  + V +  +  
Sbjct: 65  DKDI-ANQGNLEGYYIVEEGSYVYNPRISAMAPVGPISKNRVGLGVMSPLYTVFKFNNDQ 123

Query: 121 PELLQGWLLSIDVTQRIEAICEGATMSH---ADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
            +    +  S    Q +                      +P+P+    EQ  I + + + 
Sbjct: 124 DDFYAHYFKSTHWHQHMRQASSTGARHDRISITNDDFMGLPLPVSGRDEQEKITDCLSSL 183

Query: 178 TVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPF 237
                  IT   R +  LK  K+ L+  +  +      +++       G   +  E+   
Sbjct: 184 DEL----ITAETRKLNALKTHKKGLMQQLFPREGEAVPRLRFPEFRDAG-GWEEKELGQL 238

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQK-LETRNMGLKPESYETYQIVDPGEIVFRFI 296
             LV+ L      L    +L L   NI    +   +        +      P +I+    
Sbjct: 239 GELVSGLTYSPEDLRVDGLLVLRSSNIQNGRITLDDNVYVRSDIKGANPSRPDDILICVR 298

Query: 297 DLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS 356
           +         +    E    T            + +L  L R+    +   A       S
Sbjct: 299 NGSKSLIGKSALIPKEMPPCTHGAFMTIFRSESARFLIHLFRTDAYERQVSADLGATINS 358

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           +    +K+    VP   EQ  I + ++      D L+    Q I  L   R        
Sbjct: 359 INGNQLKKYKFFVPNPDEQQKIADFLSFA----DSLISDQAQKIEALNIHRKGLRQQLF 413


>gi|328947987|ref|YP_004365324.1| restriction modification system DNA specificity domain protein
           [Treponema succinifaciens DSM 2489]
 gi|328448311|gb|AEB14027.1| restriction modification system DNA specificity domain protein
           [Treponema succinifaciens DSM 2489]
          Length = 490

 Score =  125 bits (314), Expect = 1e-26,   Method: Composition-based stats.
 Identities = 60/397 (15%), Positives = 114/397 (28%), Gaps = 33/397 (8%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDI----IYIGLEDVESGTGKYLPKDGNSRQSDT 75
            +P  W    +       TG+  +   +      YI   ++      +          D 
Sbjct: 85  EVPDGWAWCRLGELFYHTTGKALKKSNNKGSLRKYITTSNLYWNKFDFTEVREMYFTDDE 144

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICST-QFLVLQPKDVLPELLQGWLLSIDVT 134
                  KG ++    G   R AI    + IC       L+PK           L +   
Sbjct: 145 LDKCTIKKGDLVLCNGGDVGRAAIWNYNEDICYQNHVSRLRPKIEGINNSLYLYLLMFYK 204

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           ++     +G  ++      + +   P+PPL EQ  I   I     +I+ L  E+     +
Sbjct: 205 EQGMLNGKGVGITSLSANDLLSAIFPLPPLNEQNSIVTSIENIFEQIEHLDQEKSDLQTI 264

Query: 195 LKEKKQALVSYIVTKGLNPD--------------------VKMKDSGIEWVGLVPDHWEV 234
           +K+ K  ++   +   L P                        K    E +  +P+ W  
Sbjct: 265 IKQTKSKILDLAIHGKLVPQDPNDEPAEELLKRIATSDNRPYKKIDEDEALFDIPESWSW 324

Query: 235 KPFFALVTELNRK------NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDP 288
                + T    K      N   +   I + +                 +       +  
Sbjct: 325 CTLGEIYTHTTGKALKKTNNKGTLRKYITTSNLYWNSFDFTEVREMYFTDDELEKCTIKK 384

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA 348
           G+++                  +      S     K   I++++  +++  Y    +   
Sbjct: 385 GDLILCNGGDVGRAAIWNYDYDICYQNHVSRL-RPKNKNINNSFFLYVIMIYKQQGILNG 443

Query: 349 MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
            G G+  SL   D+    V +PP  EQ  I   I   
Sbjct: 444 KGVGII-SLSASDLLSAVVPLPPYSEQNRIVEKIECL 479



 Score = 72.1 bits (175), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 38/269 (14%), Positives = 74/269 (27%), Gaps = 10/269 (3%)

Query: 157 IPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVK 216
           I   + P          ++ +         ++       K+    + S         D  
Sbjct: 15  IHGKLVPQNPNDESATVLLEKIRAEKAEKIKKGELKADKKDSFIFVGSDKRHYEQFADGT 74

Query: 217 MKDSGIEWVGLVPDHWEVKPFFALVTELNRK------NTKLIESNILSLSYGNIIQKLET 270
           +KD   E    VPD W       L      K      N   +   I + +          
Sbjct: 75  VKDIEDEIPFEVPDGWAWCRLGELFYHTTGKALKKSNNKGSLRKYITTSNLYWNKFDFTE 134

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
                  +       +  G++V                   E     +    ++P     
Sbjct: 135 VREMYFTDDELDKCTIKKGDLVLCNGGDVGRAAIW---NYNEDICYQNHVSRLRPKIEGI 191

Query: 331 TYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
               +L       +     G G+   SL   D+      +PP+ EQ  I   I     +I
Sbjct: 192 NNSLYLYLLMFYKEQGMLNGKGVGITSLSANDLLSAIFPLPPLNEQNSIVTSIENIFEQI 251

Query: 390 DVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           + L ++      ++K+ +S  +  A+ G+
Sbjct: 252 EHLDQEKSDLQTIIKQTKSKILDLAIHGK 280


>gi|25026605|ref|NP_736659.1| hypothetical protein CE0049 [Corynebacterium efficiens YS-314]
 gi|23491884|dbj|BAC16859.1| conserved hypothetical protein [Corynebacterium efficiens YS-314]
          Length = 417

 Score =  125 bits (313), Expect = 1e-26,   Method: Composition-based stats.
 Identities = 70/406 (17%), Positives = 143/406 (35%), Gaps = 25/406 (6%)

Query: 27  VVPIKRFTKLNTGRTSESGK-----DIIYIGLEDVES--GTGKYLPKDGNSRQSDTSTVS 79
           +VP++R  ++  G T    +     D+ +    D+    G      +   +     S  +
Sbjct: 7   IVPLRRIARVKNGGTPGPDESNWEGDVPWATPVDLGRVHGGCLQTTERSITAMGLQSGST 66

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           +   G +L     P    A IA  D   +     L P   +                ++A
Sbjct: 67  LAPAGSVLISSRAPI-GYAAIAGMDTAFNQGCKALIPLPGVSRPRFLKYAVESQMSTLQA 125

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
              G+T +      + ++P+P+  L +Q  I + +  ET  ID +  E  + ++L+ E+ 
Sbjct: 126 AGRGSTFTEVSASDVASLPIPVTSLDKQDWIADYLDRETAEIDAMAVELDQAMDLIDERF 185

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
            A V         P + ++                           +      E  +L+ 
Sbjct: 186 HAEVEQSFQSLDAPRMPLRS------------QIQSMTTGTSVTAAKFAPAAGEPGVLAT 233

Query: 260 SYGNIIQKLETRNMGLKPESYET-YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
           S     +  ET    + P  Y      +    ++   ++  N      +       +   
Sbjct: 234 SAVFGDELNETAVKSVDPHEYVRLTCPLRINTLLVSRMNTMNLVGKAVTVGRHLPDVYLP 293

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQ 375
             +          Y+ W  RS    +    +  G     ++L  +  + + + VPP+ +Q
Sbjct: 294 DRL-WAVEVDVPRYIYWWTRSQSYREQIRGLAVGASDSMKTLSQQAFRSITLPVPPVTQQ 352

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
             +   ++    R   L  +++++  LL+ERR+  I+AAVTGQID+
Sbjct: 353 IAVAAQLDEAAERFSALKAELQEAKGLLEERRAVLISAAVTGQIDV 398


>gi|257893690|ref|ZP_05673343.1| type I restriction-modification system specificity subunit
           [Enterococcus faecium 1,231,408]
 gi|257830069|gb|EEV56676.1| type I restriction-modification system specificity subunit
           [Enterococcus faecium 1,231,408]
          Length = 409

 Score =  125 bits (313), Expect = 2e-26,   Method: Composition-based stats.
 Identities = 76/405 (18%), Positives = 151/405 (37%), Gaps = 30/405 (7%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLED-------VESGTGKYLPKDGNSRQSDTS 76
            W+   +     +  G T  +     + G  D        +    K   K  +      S
Sbjct: 17  DWEQRKLGEVADIIGGGTPNTNNPEYWNGDIDWYAPAEIGKQIYVKNSQKKISQLGLQKS 76

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
           +  I   G +L+         AI+A   G  +  F  + P +   +    +  + ++ + 
Sbjct: 77  SAKILPIGTVLFTSRAGIGNTAILAKE-GTTNQGFQSIVPHENKLDSYFIFSRTHELKRY 135

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
            E    G+T +    K +  +P+ IP + EQ    +KI     ++D  IT   R ++LLK
Sbjct: 136 GEVTGAGSTFAEVSGKQMAKMPILIPYIDEQ----QKIGIFFKKLDDTITLHQRKLDLLK 191

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNT---KLIE 253
           E K+  +  +      P    K   I + G   + WE +     +    +KN        
Sbjct: 192 ETKKGFLQKMF-----PKNGAKVPEIRFPGFT-EDWEARKLIDYLDVSTQKNKDEIYDKG 245

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
             +       I+ ++E +       S   Y +V+ G+IV+    L+ +   +      + 
Sbjct: 246 DVLSVSGDCGIVNQIEFQGRSFAGVSVANYGVVETGDIVYTKSPLKANPYGIIKTNKGKT 305

Query: 314 GIITSAYMAVKPHGI-DSTYLAWLMRSYDLCKVFYA--MGSGLRQSLKFEDVKRLP--VL 368
           GI+++ Y   KP  I D  ++            +    +  G +  +K  D   L   V+
Sbjct: 306 GIVSTLYAVYKPKQITDPEFVQIYFEQDVRMNNYMRPLVNKGAKNDMKVSDENALKGEVM 365

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            P ++EQ  I++       +++ L+   ++ + LLKE +  F+  
Sbjct: 366 FPKLEEQRRISSY----FEQLNNLITLHQRELDLLKETKKGFLQK 406



 Score = 74.8 bits (182), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 29/189 (15%), Positives = 62/189 (32%), Gaps = 9/189 (4%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI----IQKLETRNMGLKPESYETYQI 285
           D WE +    +   +             +          I K        K  S    Q 
Sbjct: 16  DDWEQRKLGEVADIIGGGTPNTNNPEYWNGDIDWYAPAEIGKQIYVKNSQKKISQLGLQK 75

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV 345
                +    +   +      +A + + G     + ++ PH           R+++L + 
Sbjct: 76  SSAKILPIGTVLFTSRAGIGNTAILAKEGTTNQGFQSIVPHENKLDSYFIFSRTHELKRY 135

Query: 346 FYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLK 404
               G+G     +  + + ++P+L+P I EQ  I         ++D  +   ++ + LLK
Sbjct: 136 GEVTGAGSTFAEVSGKQMAKMPILIPYIDEQQKIGIF----FKKLDDTITLHQRKLDLLK 191

Query: 405 ERRSSFIAA 413
           E +  F+  
Sbjct: 192 ETKKGFLQK 200



 Score = 47.9 bits (112), Expect = 0.003,   Method: Composition-based stats.
 Identities = 32/196 (16%), Positives = 63/196 (32%), Gaps = 17/196 (8%)

Query: 23  KHWKVVPIKRFTKLNTGRTSES---GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           + W+   +  +  ++T +  +      D++ +  +       ++  +         +   
Sbjct: 219 EDWEARKLIDYLDVSTQKNKDEIYDKGDVLSVSGDCGIVNQIEFQGRSFAGVS--VANYG 276

Query: 80  IFAKGQILYGKL----GPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
           +   G I+Y K      PY          GI ST + V +PK +            DV  
Sbjct: 277 VVETGDIVYTKSPLKANPYGIIKTNKGKTGIVSTLYAVYKPKQITDPEFVQIYFEQDVRM 336

Query: 136 RIEA----ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
                               +      +  P L EQ  I         +++ LIT   R 
Sbjct: 337 NNYMRPLVNKGAKNDMKVSDENALKGEVMFPKLEEQRRISSY----FEQLNNLITLHQRE 392

Query: 192 IELLKEKKQALVSYIV 207
           ++LLKE K+  +  + 
Sbjct: 393 LDLLKETKKGFLQKMF 408


>gi|315636820|ref|ZP_07892045.1| restriction modification system DNA specificity subunit [Arcobacter
           butzleri JV22]
 gi|315478874|gb|EFU69582.1| restriction modification system DNA specificity subunit [Arcobacter
           butzleri JV22]
          Length = 432

 Score =  125 bits (313), Expect = 2e-26,   Method: Composition-based stats.
 Identities = 67/440 (15%), Positives = 148/440 (33%), Gaps = 38/440 (8%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTK---------LNTGRTSESGKDIIYIGLEDVESGT 60
           YK +    IG IP+ W ++  +  +          L     + +  +   I   + + G 
Sbjct: 6   YKQTD---IGLIPEDWSIIDFEDISTMNGRIGWQGLKQEEFTFTYDEPFLITGMNFKDGK 62

Query: 61  GKYLPKDGNSRQSDTSTVSI-FAKGQILYGKLGPYLRKAIIADFD----GICSTQFLVLQ 115
            ++      S +       I      IL  K G   +   + +         ++  LV +
Sbjct: 63  IRWDEVYHVSEERYKQAKQIQLKTNDILMTKDGTIGKLLYVDNIPFPKKASLNSHLLVFR 122

Query: 116 PKD--VLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
           PK+    P+ +   L      Q IE    G+T      + +G     +PP+ EQ  I   
Sbjct: 123 PKNNTYNPKFMFYQLHGKHFLQHIELTKSGSTFFGISQESMGKYKAILPPIEEQKAIANA 182

Query: 174 IIAETVRIDTLITERIRFIELLKEKKQALVS-YIVTKGLNPDVKMKDSGIEWVGLVPDHW 232
           +      I++L     +   + +   Q L++      G + D + K  G   V       
Sbjct: 183 LSDTDELINSLEKFISKKEAIKQGTMQQLLTGKKRLNGFSGDWEEKRLGDVIV------K 236

Query: 233 EVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIV 292
               F        +    +I    + L         +     L+         ++ G+++
Sbjct: 237 FQNGFAFNAKGYIKNGMPIITMAQIGLDGTFKFDTNKVNYWNLEESKNLKDFYLNNGDVI 296

Query: 293 FRFIDLQNDKRSLR---SAQVMERGIITS--AYMAVKPHGIDSTYLAWLMRSYDLCKVFY 347
               D+  +K  +            ++     ++ +    I+  +L  +           
Sbjct: 297 IAMTDVTPEKNLIGRMTIVNTSSTCLLNQRVGHLILDEKQINPLFLTTISNMKKWRAYSI 356

Query: 348 AMGS-GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
            + S G++ ++  +D+    + +P IKEQ  I  +++     I+ L    +  +   K  
Sbjct: 357 GIASLGVQANIGTKDILNGLIKLPSIKEQNAIAEILSDMDNEIETL----KSKLSKTKAI 412

Query: 407 RSSFIAAAVTGQID--LRGE 424
           +   ++  +TG+I   ++ E
Sbjct: 413 KDGIMSELLTGKIRLKVKDE 432



 Score = 83.7 bits (205), Expect = 5e-14,   Method: Composition-based stats.
 Identities = 33/216 (15%), Positives = 78/216 (36%), Gaps = 19/216 (8%)

Query: 225 VGLVPDHWEVKPFFAL-------VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKP 277
           +GL+P+ W +  F  +         +  ++       +   L  G   +  + R   +  
Sbjct: 11  IGLIPEDWSIIDFEDISTMNGRIGWQGLKQEEFTFTYDEPFLITGMNFKDGKIRWDEVYH 70

Query: 278 ESYETY-----QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP--HGIDS 330
            S E Y       +   +I+            + +    ++  + S  +  +P  +  + 
Sbjct: 71  VSEERYKQAKQIQLKTNDILMTKDGTIGKLLYVDNIPFPKKASLNSHLLVFRPKNNTYNP 130

Query: 331 TYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
            ++ + +      +      SG     +  E + +   ++PPI+EQ  I N ++      
Sbjct: 131 KFMFYQLHGKHFLQHIELTKSGSTFFGISQESMGKYKAILPPIEEQKAIANALSD----T 186

Query: 390 DVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGES 425
           D L+  +E+ I   +  +   +   +TG+  L G S
Sbjct: 187 DELINSLEKFISKKEAIKQGTMQQLLTGKKRLNGFS 222


>gi|257060919|ref|YP_003138807.1| restriction modification system DNA specificity domain protein
           [Cyanothece sp. PCC 8802]
 gi|256591085|gb|ACV01972.1| restriction modification system DNA specificity domain protein
           [Cyanothece sp. PCC 8802]
          Length = 424

 Score =  125 bits (313), Expect = 2e-26,   Method: Composition-based stats.
 Identities = 58/426 (13%), Positives = 132/426 (30%), Gaps = 36/426 (8%)

Query: 23  KHWKVVPIKRFTKL-NTGRTSES------GKDIIYIGLEDVE--SGTGKYLPKDGNSRQS 73
           + WK   +     +  +G T  +        DI ++ +ED+           K       
Sbjct: 4   EGWKDSSLISLLTILKSGGTPNTSRSDFYNGDIPFVAIEDMSASRKYLYSTVKSLTKEGL 63

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
             S   +  +  +LY  +   L    I       +   L +   D + +    +     +
Sbjct: 64  KNSNAWLVPENSLLYS-IYATLGLVRINKIPVATNQAILAMIVNDEVVDQDYLYYWLEYI 122

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRIDTLITERIRFI 192
              I  +    T S+     +    +  P    EQ  I   +      ID  I +    I
Sbjct: 123 RDSIVNLSAQTTQSNLSATTVKPFLVQHPKDKEEQTQIATIL----STIDRAIEQTETLI 178

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEW-----VGLVPDHWEVKPFFALVTELNRK 247
              +  K  L+  ++TKG++ +  ++           +G +P  WEVKP        +  
Sbjct: 179 AKQQRIKTGLMQDLLTKGIDENGNIRSEETHQFKDSVLGRIPVEWEVKPLGEKARVRSGS 238

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYE---------TYQIVDPGEIVFRFIDL 298
                          + ++  E     +     +         +  +   G ++      
Sbjct: 239 TPLRSNEKFWIGGTVSWVKTSEVCFSKITETEEKITEQALKLTSLNLEPIGSVLVAMYGQ 298

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSL 357
              +       +        A +  +   I+  YL + + S         +G G  + +L
Sbjct: 299 GGTRGRCAILGIEATTNQACAAILGQQGEINQDYLFYYLSSKY--NDLRTIGHGSNQTNL 356

Query: 358 KFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
               ++   + VP  KEQ  I +       ++  + +++   +  L   ++  +   +TG
Sbjct: 357 NGNLLRLFLIKVPSYKEQVKIAD----SFNKLKQMQDQLFSELSKLNSIKTGLMQDLLTG 412

Query: 418 QIDLRG 423
           ++ +  
Sbjct: 413 KVRVTE 418



 Score = 63.7 bits (153), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 32/209 (15%), Positives = 70/209 (33%), Gaps = 12/209 (5%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIG-------LEDVESGTG 61
           Q+KDS    +G IP  W+V P+    ++ +G T     +  +IG         +V     
Sbjct: 210 QFKDS---VLGRIPVEWEVKPLGEKARVRSGSTPLRSNEKFWIGGTVSWVKTSEVCFSKI 266

Query: 62  KYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYL--RKAIIADFDGICSTQFLVLQPKDV 119
               +    +    +++++   G +L    G      +  I   +   +     +  +  
Sbjct: 267 TETEEKITEQALKLTSLNLEPIGSVLVAMYGQGGTRGRCAILGIEATTNQACAAILGQQG 326

Query: 120 LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
                  +         +  I  G+  ++ +   +    + +P   EQV I +       
Sbjct: 327 EINQDYLFYYLSSKYNDLRTIGHGSNQTNLNGNLLRLFLIKVPSYKEQVKIADSFNKLKQ 386

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVT 208
             D L +E  +   +     Q L++  V 
Sbjct: 387 MQDQLFSELSKLNSIKTGLMQDLLTGKVR 415


>gi|139474405|ref|YP_001129121.1| type I restriction-modification system S protein [Streptococcus
           pyogenes str. Manfredo]
 gi|134272652|emb|CAM30919.1| type I restriction-modification system S protein [Streptococcus
           pyogenes str. Manfredo]
          Length = 391

 Score =  125 bits (313), Expect = 2e-26,   Method: Composition-based stats.
 Identities = 64/401 (15%), Positives = 134/401 (33%), Gaps = 36/401 (8%)

Query: 24  HWKVVPIKRFTKLNTGRTSE------SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
            W+   +   +++ +G T           +I +I   ++ S            +    S+
Sbjct: 17  EWEEKKLGEISRMFSGGTPNVGIPEYYNGNIPFIRSAEINSDQ---TELSITDKGLSNSS 73

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
             +  K  +LY   G    +  ++   G  +   L + P+     L     L    +  I
Sbjct: 74  AKLVEKNTLLYALYGATSGEVGLSRISGAINQAILAIIPEKKYSSLFIKNWLYKQKSSII 133

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           E   +G    +     +  + +  P L+EQ  I E        +D LI  + + +  LKE
Sbjct: 134 EKYLQG-GQGNLSGSIVKELTIQFPSLSEQEAIGE----LFQTVDQLIQLQRQKLATLKE 188

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
           +KQ  +  +      P    K   I   G   + WE K    +V     ++         
Sbjct: 189 QKQTFLRKMF-----PAQGQKVPEIRLQGFDGE-WEEKELGDIVQITMGQSPSSQNYTTN 242

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQ--IVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
              Y  +    + +N  + P  + T      D G+I+        D        ++ RG+
Sbjct: 243 PSDYILVQGNADIKNGYVFPRVWTTQITKQADKGDIILSVRAPVGDVGKTNYHVIIGRGV 302

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKE 374
                         + ++  +++       +  + +G    S+   D+K   + +P + E
Sbjct: 303 AA---------IKGNEFIFQILKYLKEIGYWKRISTGSTFDSISSSDIKYAKIQIPSLSE 353

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           Q  I N        +D  + + E+ +  LK  + + +    
Sbjct: 354 QEAIGNF----FQTLDQQIAQSEEKLTELKALKQTLLNRLF 390


>gi|241668318|ref|ZP_04755896.1| type I restriction-modification system, subunit S [Francisella
           philomiragia subsp. philomiragia ATCC 25015]
          Length = 385

 Score =  124 bits (312), Expect = 2e-26,   Method: Composition-based stats.
 Identities = 63/406 (15%), Positives = 140/406 (34%), Gaps = 30/406 (7%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +  +P  W+   +++       + S +      + L+ +E+  G+Y P  G        +
Sbjct: 4   LYKLPAGWEWEKLEKVCD----KASSN------LSLKKIENEDGEY-PIYGAKGFIKNIS 52

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
                +  I   K G  + +  + D           L PK+ +      +L  + +    
Sbjct: 53  FFHREEPYISIIKDGAGVGRVTMLDSKSSVIGTLQYLLPKNCID---IKYLYFLLLVIDF 109

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
                G T+ H  ++      +P+PPLAEQ  I  K+ +   +ID  I    + I     
Sbjct: 110 GKYVSGTTIPHIYYRDYKEHLVPLPPLAEQKRIVAKLDSLFEKIDKAIELHQQNITNANT 169

Query: 198 KKQALVSYIVTK--GLNPDVKMKDSGIEWV-GLVPDHWEVKPFFALVTELNRKNTKLIES 254
              + +     K  G      +KD  I+   G  P   +        + +   N   +  
Sbjct: 170 LMASTLDKTFKKLEGEYSYKNLKDITIKIGSGATPKGGQKAYKQKGTSLIRSMNVHDMGF 229

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
           +   L++ +  Q  + +N+           IV+  +++         +  +     +   
Sbjct: 230 SKKGLAFIDDSQADKLKNV-----------IVEKDDVLLNITGASVARCCVVCESALPAR 278

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKV--FYAMGSGLRQSLKFEDVKRLPVLVPPI 372
           +     +        S +L + + S        F + G   R+++    ++ L V    +
Sbjct: 279 VNQHVSIIRLNDSFISKFLHYYLISPMKKTELLFSSSGGATREAITKSMIENLQVPDISL 338

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
             Q      ++    ++D + +  EQ +  LK  ++S +  A  G+
Sbjct: 339 PIQQQTVEYLDSIATKVDKIKQLNEQKLENLKALKASILDKAFRGE 384



 Score = 77.5 bits (189), Expect = 4e-12,   Method: Composition-based stats.
 Identities = 32/183 (17%), Positives = 58/183 (31%), Gaps = 15/183 (8%)

Query: 224 WVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY 283
            +  +P  WE +     V +    N  L +       Y     K   +N+          
Sbjct: 3   ELYKLPAGWEWEKL-EKVCDKASSNLSLKKIENEDGEYPIYGAKGFIKNISFFHREEPYI 61

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC 343
            I+  G                 +    +  +I +    +  + ID  YL +L+   D  
Sbjct: 62  SIIKDG-----------AGVGRVTMLDSKSSVIGTLQYLLPKNCIDIKYLYFLLLVIDFG 110

Query: 344 KVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
           K            + + D K   V +PP+ EQ  I   ++    +ID  +E  +Q+I   
Sbjct: 111 KYV---SGTTIPHIYYRDYKEHLVPLPPLAEQKRIVAKLDSLFEKIDKAIELHQQNITNA 167

Query: 404 KER 406
              
Sbjct: 168 NTL 170


>gi|32266920|ref|NP_860952.1| hypothetical protein HH1421 [Helicobacter hepaticus ATCC 51449]
 gi|32262972|gb|AAP78018.1| hypothetical protein HH_1421 [Helicobacter hepaticus ATCC 51449]
          Length = 422

 Score =  124 bits (312), Expect = 2e-26,   Method: Composition-based stats.
 Identities = 63/433 (14%), Positives = 132/433 (30%), Gaps = 47/433 (10%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           I  IPK+W++  +                    I L  +E+ TGKY P  G      T  
Sbjct: 2   INNIPKNWEIKTLAEVCTSKNSN----------IVLSSIENNTGKY-PIYGAKGFLKTID 50

Query: 78  VSIFAKGQILYGKLGP-YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
                   +   K G    R  ++ +   +  T   +   +++  + L  +L +I+    
Sbjct: 51  FYTIENESLGIVKDGAGVGRIFLLPEKSSLIGTMAYIQANENLNLKYLYHFLHTINF--- 107

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
                 G+ + H  ++      +P+PPL  Q  I EK+      ID  +         + 
Sbjct: 108 -NQYISGSAIPHIYFRDYKKEKIPLPPLEVQKAIVEKLENAFAHIDEAVRHLKSVQTNIP 166

Query: 197 EKKQALVSYIVTKGLNPDV---------------------------KMKDSGIEWVGLVP 229
             K +L+    +  L                                 K         +P
Sbjct: 167 RLKSSLLHCAFSGKLTESQNSSHKVQTLKSVVGVEGEFEREEGATSPFKPLHPLIKEEIP 226

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ-KLETRNMGLKPESYETYQIVDP 288
             WE+K    +   +             S +   I    +E  N  + P+ +     +  
Sbjct: 227 QGWEIKTLGEVFKVIGGGTPSTANPKFWSGNIAWITSANIENENFTIIPKKFINQSAIQA 286

Query: 289 ---GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV 345
                +    I +       +          +    A+ P    +               
Sbjct: 287 SATNLVPKNTIIVVTRVGLGKVGITDVETCFSQDSQALLPLIDLNVKFMAFQIRNKAQNF 346

Query: 346 FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
             +        +  + +K++ + +PP+  Q  I  ++  + A ++ L + +  S+  L++
Sbjct: 347 IVSSRGTTINGITKDTLKKVALKIPPLATQNQIVQILESKFAHLEKLEQFVNASLENLQK 406

Query: 406 RRSSFIAAAVTGQ 418
            +SS +  A  G+
Sbjct: 407 LKSSLLNQAFKGE 419


>gi|190150797|ref|YP_001969322.1| type I restriction-modification system, S subunit [Actinobacillus
           pleuropneumoniae serovar 7 str. AP76]
 gi|189915928|gb|ACE62180.1| Type I restriction-modification system, S subunit [Actinobacillus
           pleuropneumoniae serovar 7 str. AP76]
          Length = 508

 Score =  124 bits (312), Expect = 2e-26,   Method: Composition-based stats.
 Identities = 60/443 (13%), Positives = 133/443 (30%), Gaps = 71/443 (16%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPK---DGN 69
            IPK W  V +    ++  G T ++ +D       I +I   D++  +GKY+ K   +  
Sbjct: 70  EIPKSWVWVRLDFLGEIIGGGTPKTNEDDNWNKGSIPWITPADMKYISGKYISKGNRNIT 129

Query: 70  SRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
                +S+  + +K  I+Y    P      I + +   +  F  +   +    +   +  
Sbjct: 130 ENGLRSSSTRLLSKNSIVYSSRAPI-GYIAITETELCTNQGFKSIDLYNKE-IVDYLYYS 187

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
            I  T  I++   G T         GN  +P+PPL EQ  I  KI      I+    +  
Sbjct: 188 LIYFTPEIQSRASGTTFKEISGTAFGNTIIPLPPLNEQKRIVAKIEELLPYIEQYAEKEE 247

Query: 190 RFIELLKEKK----QALVSYIVTKGLNPDVKM---------------------------- 217
           +   L ++      ++++   +   L                                  
Sbjct: 248 KLTALHQQFPEQLKKSILQAAIQGKLTKQDPNDEPALVLIERIKAEKLRLIAEKKLKKPK 307

Query: 218 --------------------KDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE---S 254
                               +    E    +P+ W       +            +    
Sbjct: 308 VVSEIILRDNLPYEIVNGKERCIADEVPFEIPESWVWVRLGEIGETNIGLTYNPSDVASD 367

Query: 255 NILSLSYGNIIQKLET--RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
             + L  GNI         ++          +     +++    +    K+ +  A +++
Sbjct: 368 GTIVLRSGNIQDGKIDVSSDIVKVNLDIPENKRCYKNDLLICARN--GSKKLVGKAAIID 425

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI 372
           +   +            + Y+ + + S      F  + +     +   ++    + +P +
Sbjct: 426 KDGYSFGAFMTIFRSPFNKYIYYYLSSPLFRNDFDGINTTTINQITQSNLNNRLIPLPSL 485

Query: 373 KEQFDITNVINVETARIDVLVEK 395
            EQ  I   I    + +  L +K
Sbjct: 486 NEQLRIVEKIETLFSTLQNLSQK 508



 Score = 81.0 bits (198), Expect = 3e-13,   Method: Composition-based stats.
 Identities = 27/211 (12%), Positives = 62/211 (29%), Gaps = 13/211 (6%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
           S  ++   +P  W       L   +     K  E +  +      I   + + +  K  S
Sbjct: 63  SQQDFSFEIPKSWVWVRLDFLGEIIGGGTPKTNEDDNWNKGSIPWITPADMKYISGKYIS 122

Query: 280 YETYQIVDPGE-------IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
                I + G        +    I   +       A           + ++  +  +   
Sbjct: 123 KGNRNITENGLRSSSTRLLSKNSIVYSSRAPIGYIAITETELCTNQGFKSIDLYNKEIVD 182

Query: 333 LAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
             +    Y   ++         + +         + +PP+ EQ  I   I      I+  
Sbjct: 183 YLYYSLIYFTPEIQSRASGTTFKEISGTAFGNTIIPLPPLNEQKRIVAKIEELLPYIEQY 242

Query: 393 VEKIEQSIVLL-----KERRSSFIAAAVTGQ 418
             + E+ +  L     ++ + S + AA+ G+
Sbjct: 243 -AEKEEKLTALHQQFPEQLKKSILQAAIQGK 272


>gi|300070274|gb|ADJ59674.1| specificity determinant HsdS [Lactococcus lactis subsp. cremoris
           NZ9000]
          Length = 415

 Score =  124 bits (312), Expect = 2e-26,   Method: Composition-based stats.
 Identities = 64/405 (15%), Positives = 147/405 (36%), Gaps = 23/405 (5%)

Query: 24  HWKVVPIKR--------FTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            W+   +              ++   S   + + +I  +D++         +  S++ D 
Sbjct: 16  DWEQRKLGELSQKISVGIATSSSKYFSSQDQGVPFIKNQDIKENRINTKNLEYISKEFDN 75

Query: 76  STV-SIFAKGQILYGKLGPYLRKAIIADFDG---ICSTQFLVLQPKDVLPELLQGWLLSI 131
                   +G I+  + G     A++          +T       + +L E +  ++ S 
Sbjct: 76  KNKNKRVKQGDIITARTGYPGLSAVVPKELEGAQTFTTLITRPISEMILSEYISIFINSP 135

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
              ++I  +  G    + +   + N+ +P+P L EQ  I   I+    ++D  I    R 
Sbjct: 136 YGMKQISGMEAGGAQKNVNAGIVQNLLIPLPSLDEQKKISNFIL----KLDDTIALNQRK 191

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           I+LLKE+K+  +  +  K      +++ +G           ++  F   +        K 
Sbjct: 192 IDLLKEQKKGYLQKMFPKNGAKVPELRFAGFVDDWEQRKLSDLMTFSNGINAPKENYGKG 251

Query: 252 IESN-ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
            +   ++ +     I+     N     +  E    V+ G+++F       ++     A  
Sbjct: 252 TKMISVMDILNPLPIKYDNILNSVSVDKKIEDKNKVENGDLIFVRSSEIVEEVGWAKAYK 311

Query: 311 MERGIITSAYMAVKPHG--IDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVL 368
             R  + S +          ++ ++   +   +  ++    G   R ++  E +  L VL
Sbjct: 312 EARYALYSGFAIRGKRISSYNAYFIELTLNYANRKEIKRRAGGSTRFNVSQEILNSLTVL 371

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            P I EQ  I    ++   +ID  +   ++ + LLKE++  F+  
Sbjct: 372 TPSISEQNQI----DLFFTKIDDTITLHQRKLDLLKEQKKGFLQK 412


>gi|125623519|ref|YP_001032002.1| specificity determinant HsdS [Lactococcus lactis subsp. cremoris
           MG1363]
 gi|124492327|emb|CAL97261.1| probable specificity determinant HsdS [Lactococcus lactis subsp.
           cremoris MG1363]
          Length = 416

 Score =  124 bits (312), Expect = 2e-26,   Method: Composition-based stats.
 Identities = 64/405 (15%), Positives = 147/405 (36%), Gaps = 23/405 (5%)

Query: 24  HWKVVPIKR--------FTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            W+   +              ++   S   + + +I  +D++         +  S++ D 
Sbjct: 17  DWEQRKLGELSQKISVGIATSSSKYFSSQDQGVPFIKNQDIKENRINTKNLEYISKEFDN 76

Query: 76  STV-SIFAKGQILYGKLGPYLRKAIIADFDG---ICSTQFLVLQPKDVLPELLQGWLLSI 131
                   +G I+  + G     A++          +T       + +L E +  ++ S 
Sbjct: 77  KNKNKRVKQGDIITARTGYPGLSAVVPKELEGAQTFTTLITRPISEMILSEYISIFINSP 136

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
              ++I  +  G    + +   + N+ +P+P L EQ  I   I+    ++D  I    R 
Sbjct: 137 YGMKQISGMEAGGAQKNVNAGIVQNLLIPLPSLDEQKKISNFIL----KLDDTIALNQRK 192

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           I+LLKE+K+  +  +  K      +++ +G           ++  F   +        K 
Sbjct: 193 IDLLKEQKKGYLQKMFPKNGAKVPELRFAGFVDDWEQRKLSDLMTFSNGINAPKENYGKG 252

Query: 252 IESN-ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
            +   ++ +     I+     N     +  E    V+ G+++F       ++     A  
Sbjct: 253 TKMISVMDILNPLPIKYDNILNSVSVDKKIEDKNKVENGDLIFVRSSEIVEEVGWAKAYK 312

Query: 311 MERGIITSAYMAVKPHG--IDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVL 368
             R  + S +          ++ ++   +   +  ++    G   R ++  E +  L VL
Sbjct: 313 EARYALYSGFAIRGKRISSYNAYFIELTLNYANRKEIKRRAGGSTRFNVSQEILNSLTVL 372

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            P I EQ  I    ++   +ID  +   ++ + LLKE++  F+  
Sbjct: 373 TPSISEQNQI----DLFFTKIDDTITLHQRKLDLLKEQKKGFLQK 413


>gi|126465662|ref|YP_001040771.1| restriction modification system DNA specificity subunit
           [Staphylothermus marinus F1]
 gi|126014485|gb|ABN69863.1| restriction modification system DNA specificity domain
           [Staphylothermus marinus F1]
          Length = 463

 Score =  124 bits (311), Expect = 3e-26,   Method: Composition-based stats.
 Identities = 76/436 (17%), Positives = 144/436 (33%), Gaps = 30/436 (6%)

Query: 10  YKDSGVQW--IGAIPKHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVE-SGTGK 62
           YK++  +   IG IP+ W ++ +    K+ TG+ ++ G     +I  IG E ++  G  +
Sbjct: 34  YKETDFKETPIGKIPRDWNIMRLDGLVKVETGKRAKGGGLYKGNIASIGGEHIDDEGNIR 93

Query: 63  YLPKDGNSRQSDTSTVS-IFAKGQILYGKLGPYLRKAII-----ADFDGICSTQFLVLQP 116
           +      +     S        G IL  K G    K  I          +    F++   
Sbjct: 94  WNNMKFITEDFYNSLRQGKINIGDILLVKDGATTGKVAIVRELKYKKVAVNEHVFVIRSI 153

Query: 117 KDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIA 176
              L      + L     Q          +       + +I +P+PP+ EQ  I E +  
Sbjct: 154 TKKLINEFLFYFLYSKFGQMQIKTRFHGMIGGITRNDLKSILIPLPPVLEQRRIVEVLSI 213

Query: 177 ETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEW----VGLVPDHW 232
               I        +   L K   Q L++  V   +            +    +G +P  W
Sbjct: 214 VDEAIQKTDDVIAKVERLKKALMQELLTGKVRIKVEDGKARFYKETNFKDTKIGKIPKDW 273

Query: 233 EVKPFFALVTELNRK--NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGE 290
           EV      V  L     ++K        +    I    + +       SY+   IV+ G+
Sbjct: 274 EVIRLVDHVYVLKGYAFSSKFFNEKERGIPIIRIRDLGKNKTEAYYSGSYDPKYIVEKGD 333

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG--IDSTYLAWLMRSYDLCKVFYA 348
           ++       N            +G++      +             +      L  +   
Sbjct: 334 LLISMDGEFN-----IFLWKGPKGLLNQRVCKIWTKDATKLDNMYLYYALKKPLKLIEAQ 388

Query: 349 MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
                 + L   D++R+ + +PP+ EQ  I  +++     ID  +    +    LK  + 
Sbjct: 389 TSQTTVKHLLDRDLERIKIPLPPLSEQQKIAEILST----IDKWISLEHRRKEKLKGLKK 444

Query: 409 SFIAAAVTGQIDLRGE 424
             +   +TG+I +R E
Sbjct: 445 GLMNLLLTGRIRVRVE 460



 Score = 98.7 bits (244), Expect = 2e-18,   Method: Composition-based stats.
 Identities = 38/225 (16%), Positives = 88/225 (39%), Gaps = 17/225 (7%)

Query: 210 GLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK---LIESNILSLSYGNIIQ 266
           G   +   K++ I   G +P  W +     LV     K  K   L + NI S+   +I  
Sbjct: 32  GFYKETDFKETPI---GKIPRDWNIMRLDGLVKVETGKRAKGGGLYKGNIASIGGEHIDD 88

Query: 267 KLETRNMGLKPESYETYQ-----IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY- 320
           +   R   +K  + + Y       ++ G+I+         K ++      ++  +     
Sbjct: 89  EGNIRWNNMKFITEDFYNSLRQGKINIGDILLVKDGATTGKVAIVRELKYKKVAVNEHVF 148

Query: 321 -MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
            +      + + +L + + S            G+   +   D+K + + +PP+ EQ  I 
Sbjct: 149 VIRSITKKLINEFLFYFLYSKFGQMQIKTRFHGMIGGITRNDLKSILIPLPPVLEQRRIV 208

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGE 424
            V+++     D  ++K +  I  ++  + + +   +TG++ ++ E
Sbjct: 209 EVLSIV----DEAIQKTDDVIAKVERLKKALMQELLTGKVRIKVE 249


>gi|308063426|gb|ADO05313.1| anti-codon nuclease masking agent (prrB) [Helicobacter pylori
           Sat464]
          Length = 448

 Score =  124 bits (311), Expect = 3e-26,   Method: Composition-based stats.
 Identities = 55/425 (12%), Positives = 133/425 (31%), Gaps = 35/425 (8%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPKDGNSRQSD 74
           PK  +   ++   ++  G T             I +  +ED+            +     
Sbjct: 13  PKGVEFKTLEEVFEIKNGYTPSKNNPEFWEKGTIPWFRMEDIRENGRILKDSIQHITPKA 72

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP---ELLQGWLLSI 131
                +F K  I+          A++   D + + +F  L  K       ++   +    
Sbjct: 73  LKGKKLFPKNSIIISTTATIGEHALLI-VDSLANQRFTFLSKKANCDIALDMKFFFYQCF 131

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            + +  +     +  +  D         PIPPL  Q  I + + A T     L TE    
Sbjct: 132 LLGEWCKKNTNVSGFASMDMTAFKKYKFPIPPLEIQQEIVKILDAFTELNTELNTELKAR 191

Query: 192 IELLKEKKQALV------SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN 245
            +  +  +  L+      S      ++     K        L P   E +    +    +
Sbjct: 192 KKQYQYYQNMLLDFKDIHSNHKDAKISAKTYPKRLKTLLQTLAPKGVEFRKLGDIGEFYS 251

Query: 246 R-------KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID- 297
                     ++  +  +  ++  N  Q        ++    E    +  G+++F     
Sbjct: 252 GLVGKSKKSFSQGNKFYVPYVNVFNNPQLDLNALESVQIGDKEKQNTIQLGDVLFTGSSE 311

Query: 298 -----LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
                  +   + +  + +        +     +  + ++L   +R Y+  K    + +G
Sbjct: 312 NLEDCAMSCVVTQKIEKDIYLNSFCFGFRFFDENLFNPSFLKHFLRDYNFRKNISKVANG 371

Query: 353 -LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RR 407
             R ++  + + ++ + +PP++ Q +I  +++   A    L+  I   I   K+     R
Sbjct: 372 VTRFNVSKQLLSKITIPIPPLEIQQEIVKILDQFLALTTDLLAGIPAEIEARKKQYEYYR 431

Query: 408 SSFIA 412
              + 
Sbjct: 432 EKLLT 436


>gi|120552974|ref|YP_957325.1| restriction modification system DNA specificity subunit
           [Marinobacter aquaeolei VT8]
 gi|120322823|gb|ABM17138.1| restriction modification system DNA specificity domain
           [Marinobacter aquaeolei VT8]
          Length = 435

 Score =  124 bits (311), Expect = 3e-26,   Method: Composition-based stats.
 Identities = 54/406 (13%), Positives = 145/406 (35%), Gaps = 30/406 (7%)

Query: 21  IPKHWKVVPIKRFT-KLNTGRTSESGKD---IIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           +P +W++  +   +  ++ G T+ +  +   +  + + D+++ T  +        + +  
Sbjct: 6   LPANWQLANLGEISSDISYGYTASATSEPTGVKLLRITDIQNNTVSWPNVPNCKIEPEKV 65

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIAD----FDGICSTQFLVLQPKDVLPELLQGWLLSID 132
                    +++ + G  + K+ +           S    V   + V  E L  +  S  
Sbjct: 66  GKYRLKPSDLVFARTGATVGKSYLLKGEIPESVYASYLIRVRCLEGVSIEFLANYFQSPY 125

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
             ++I     G    + +   + N+ +P+PPLAEQ +I +K+     +++       R  
Sbjct: 126 YWRQITDFSAGIGQPNVNGTKLKNLSVPVPPLAEQKVIADKLDTLLAQVENTKARLERIP 185

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           ++LK  +Q++++  V+  L        + +E +  + +          V+   RK  +  
Sbjct: 186 QILKRFRQSVLAAAVSGRLIDAQPESIAKLEELVDIENGAR-----KPVSATIRKTIQGT 240

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
                +    + +         L         +    ++ F                  +
Sbjct: 241 IPYYGATGIVDYLNDYTHEGRYLLVGEDGANLLSKSKDLAF--------------IVEGK 286

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI 372
             +   A++  +  G++  ++   + S DL           +  L  + +  LP+    +
Sbjct: 287 MWVNNHAHVLKERPGVNLDFVKIAINSLDLTPWI---TGSAQPKLTKKSLCGLPITNFTL 343

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            EQ +I   ++   +  D + ++   ++  +     S +A A  G+
Sbjct: 344 DEQTEIVRRVDQLFSHADRIEQQASSALARVNNLTQSILAKAFRGE 389



 Score =  102 bits (254), Expect = 1e-19,   Method: Composition-based stats.
 Identities = 40/167 (23%), Positives = 74/167 (44%), Gaps = 3/167 (1%)

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
             N +      N  ++PE    Y  + P ++VF        K  L   ++ E    +   
Sbjct: 46  QNNTVSWPNVPNCKIEPEKVGKY-RLKPSDLVFARTGATVGKSYLLKGEIPESVYASYLI 104

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDIT 379
                 G+   +LA   +S    +      +G+ + ++    +K L V VPP+ EQ  I 
Sbjct: 105 RVRCLEGVSIEFLANYFQSPYYWRQITDFSAGIGQPNVNGTKLKNLSVPVPPLAEQKVIA 164

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ-IDLRGES 425
           + ++   A+++    ++E+   +LK  R S +AAAV+G+ ID + ES
Sbjct: 165 DKLDTLLAQVENTKARLERIPQILKRFRQSVLAAAVSGRLIDAQPES 211


>gi|294495711|ref|YP_003542204.1| restriction modification system DNA specificity domain protein
           [Methanohalophilus mahii DSM 5219]
 gi|292666710|gb|ADE36559.1| restriction modification system DNA specificity domain protein
           [Methanohalophilus mahii DSM 5219]
          Length = 414

 Score =  124 bits (311), Expect = 3e-26,   Method: Composition-based stats.
 Identities = 69/416 (16%), Positives = 148/416 (35%), Gaps = 24/416 (5%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESG--KDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
            IP  W++V         + +  +        YIG E  + G  +    +      D   
Sbjct: 4   KIPNGWEIVKFGDVVGKVSDKFQDRSAWHFERYIGGEHFDEGAIRVTKSNPIKGNEDVIG 63

Query: 78  VS---IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV--LPELLQGWLLSID 132
            +    F  G +LY    P LRK  + DF+GICS    VLQ  +   L  LL   + +  
Sbjct: 64  SAFHMRFKPGHVLYVSRNPRLRKGGMVDFEGICSNTTYVLQADESKLLQSLLPFIIQTEA 123

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
             +       G+T    +WK I N  + +PP+ EQ  + E + +     +  I +  + I
Sbjct: 124 FVKHTTNSAHGSTNPFLNWKDIANYNLLLPPIEEQKKMAEILWSM----EDNIEKNEKLI 179

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK-- 250
           +  K+ K+ +++ ++TKG+      K      +G +P++W++     ++  +     K  
Sbjct: 180 KKNKQYKKIMINQLLTKGIGH----KKFKETELGRIPENWKLSKLSDIMNIIGGGTPKTS 235

Query: 251 ---LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
                  NI  +S  +        +   K  + E         +  + + +         
Sbjct: 236 VTSYWNGNIPWISVEDFDSNSRYISSTKKTITKEGLDNSSTKILPKKSLIISARGTVGLV 295

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
            Q+ +      +   +   G       +    +++ ++ +        S+   +   +  
Sbjct: 296 CQLNKEMAFNQSCYGLIGKGDVIDDFLYYSLLFNIEQLKHNAYGSTFNSITKNNFDIVDA 355

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
            +PPI EQ  I   +       + ++    + +      +       ++G+I +  
Sbjct: 356 AIPPIDEQKLIVEKLG----LFEKVLSDYNKQLEKTNTLKKKLTNEFLSGKIRIPE 407



 Score = 74.8 bits (182), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 35/204 (17%), Positives = 77/204 (37%), Gaps = 13/204 (6%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGK 62
           ++K++    +G IP++WK+  +     +  G T ++        +I +I +ED +S +  
Sbjct: 202 KFKETE---LGRIPENWKLSKLSDIMNIIGGGTPKTSVTSYWNGNIPWISVEDFDSNSRY 258

Query: 63  Y--LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL 120
                K       D S+  I  K  ++    G       +        + + ++   DV+
Sbjct: 259 ISSTKKTITKEGLDNSSTKILPKKSLIISARGTVGLVCQLNKEMAFNQSCYGLIGKGDVI 318

Query: 121 PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
                 +   +   ++++    G+T +         +   IPP+ EQ LI EK+      
Sbjct: 319 D--DFLYYSLLFNIEQLKHNAYGSTFNSITKNNFDIVDAAIPPIDEQKLIVEKLGLFEKV 376

Query: 181 IDTLITERIRFIELLKEKKQALVS 204
           +     +  +   L K+     +S
Sbjct: 377 LSDYNKQLEKTNTLKKKLTNEFLS 400


>gi|23452799|gb|AAN33173.1| putative type I specificity subunit HsdS [Campylobacter jejuni]
          Length = 402

 Score =  124 bits (310), Expect = 3e-26,   Method: Composition-based stats.
 Identities = 57/415 (13%), Positives = 123/415 (29%), Gaps = 34/415 (8%)

Query: 21  IPKHWKVVPIKRFTK-----LNTGRTSES-------GKDIIYIGLEDVESGTGKYLPKDG 68
           +P+ WK+  +          +  G    +        K I      +  +    +     
Sbjct: 4   LPQGWKMETLGEILSSDKYSIKRGPFGSTLKKSFFVEKGIRIFEQYNPINNDPHWKRYFI 63

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD--FDGICSTQF--LVLQPKDVLPELL 124
           +  +          +G +L    G   +   +      GI +     + L    +L    
Sbjct: 64  SHEKFQELEAFKATEGDLLISCSGTLGKIVELPKDTEMGIINQALLKIRLNNIKILNSYF 123

Query: 125 QGWLLSIDVTQRIEAICEGATMSHA-DWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
             +  S  + ++I     G+ + +    K +  I +P+PPL +Q  I   +     +ID 
Sbjct: 124 IYYFNSPIMQEKILESTLGSAIKNIASVKILKQIEIPLPPLKKQERIVGILDESFAKIDE 183

Query: 184 LITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTE 243
            I    + +  L E  Q+ +        +          +    +P  WE K    +   
Sbjct: 184 SIKILEQNLLNLDELMQSALQKAFNPLKD--------NAKENYKLPQGWEWKSLEEISEN 235

Query: 244 LNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKR 303
           ++    K         +   I       +        +   I+ P       I  +    
Sbjct: 236 ISAGGDKPKNCTESKTAKNQIPVYANGVSNNGLVGYTDKATIIKPS----LTISARGTIG 291

Query: 304 SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVK 363
            +   +     I+    +    + +   YL + +                   L     K
Sbjct: 292 FVCIRKEPYFPIVRLISLIPCENILCLHYLYFCLN-----FFIAKGEGSSIPQLTIPKFK 346

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            L + +PP+KEQ  I   ++    +   L E   + +   +E + S +  A  G+
Sbjct: 347 SLQIPLPPLKEQEQIAKHLDFVFEKTKALKELYTKELKDYEELKQSLLNKAFKGE 401



 Score = 53.3 bits (126), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 26/193 (13%), Positives = 66/193 (34%), Gaps = 10/193 (5%)

Query: 20  AIPKHWKVVPIKRFTK-LNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
            +P+ W+   ++  ++ ++ G              +  ++    Y     N+     +  
Sbjct: 219 KLPQGWEWKSLEEISENISAGGDKPKN----CTESKTAKNQIPVYANGVSNNGLVGYTDK 274

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           +   K  +     G      I  +       + + L P + +  L   +        + E
Sbjct: 275 ATIIKPSLTISARGTIGFVCIRKEPYFPI-VRLISLIPCENILCLHYLYFCLNFFIAKGE 333

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
               G+++         ++ +P+PPL EQ  I + +     +   L     + ++  +E 
Sbjct: 334 ----GSSIPQLTIPKFKSLQIPLPPLKEQEQIAKHLDFVFEKTKALKELYTKELKDYEEL 389

Query: 199 KQALVSYIVTKGL 211
           KQ+L++      L
Sbjct: 390 KQSLLNKAFKGEL 402


>gi|21228301|ref|NP_634223.1| type I restriction-modification system specificity subunit
           [Methanosarcina mazei Go1]
 gi|20906763|gb|AAM31895.1| type I restriction-modification system specificity subunit
           [Methanosarcina mazei Go1]
          Length = 384

 Score =  124 bits (310), Expect = 3e-26,   Method: Composition-based stats.
 Identities = 44/409 (10%), Positives = 110/409 (26%), Gaps = 37/409 (9%)

Query: 24  HWKVVPIKRFT-KLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            WK   ++    ++ +G T  +      G  I ++  +++     +           + S
Sbjct: 4   EWKECKLREIASEIKSGGTPSTKHQEYYGGIIPWLNTKEIHFNRIRDTDIKITEGGLNNS 63

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
           +     +  I+    G    K  I       +     + P     +    +         
Sbjct: 64  SAKWVKENSIIVAMYGATAGKIAINKIPLTTNQACCNITPDSEKADYNFVYYNLCHRYDE 123

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           +  +  GA   + +   I N+ + +PP+ EQ  I   + +   +ID L  +      +  
Sbjct: 124 LVNLSCGAAQQNLNVGLITNLDIILPPITEQCAIASVLSSLDDKIDLLHRQNKTLEAM-- 181

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
                            +   +   +E      +   +   F      +   T   +  +
Sbjct: 182 ----------------AETLFRQWFVEEADEDWEEGFLPDEFDFTMGQSPPGTSYNQEGV 225

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
               +                 +  T        ++                       I
Sbjct: 226 GKPMFQGNADFGFRFPEERVYTTEPTRLAYPHDTLI------SVRAPVGAQNMAKVECCI 279

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKE 374
                A +    +  Y     +   L            +  S+   D  ++ + +PP   
Sbjct: 280 GRGVSAFRYKANNDFYTYTYFKLRSLMDEIKKFNDEGTVFGSISKTDFLQMGIAIPPED- 338

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
              I     +    ++  V +    I LL+  R + +   ++G++ + G
Sbjct: 339 ---IIEKFEIHAKPLNDKVIENCIQIKLLEVMRDTLLPKLMSGEVRVEG 384



 Score = 36.7 bits (83), Expect = 7.6,   Method: Composition-based stats.
 Identities = 18/187 (9%), Positives = 41/187 (21%), Gaps = 2/187 (1%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + W+   +        G++            + +  G   +  +    R   T    +  
Sbjct: 196 EDWEEGFLPDEFDFTMGQSPPGTSYNQEGVGKPMFQGNADFGFRFPEERVYTTEPTRLAY 255

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC- 141
               L     P      +A  +          + K         +     +   I+    
Sbjct: 256 PHDTLISVRAPV-GAQNMAKVECCIGRGVSAFRYKANNDFYTYTYFKLRSLMDEIKKFND 314

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
           EG             + + IPP                ++     +      +       
Sbjct: 315 EGTVFGSISKTDFLQMGIAIPPEDIIEKFEIHAKPLNDKVIENCIQIKLLEVMRDTLLPK 374

Query: 202 LVSYIVT 208
           L+S  V 
Sbjct: 375 LMSGEVR 381


>gi|296273010|ref|YP_003655641.1| restriction modification system DNA specificity domain-containing
           protein [Arcobacter nitrofigilis DSM 7299]
 gi|296097184|gb|ADG93134.1| restriction modification system DNA specificity domain protein
           [Arcobacter nitrofigilis DSM 7299]
          Length = 383

 Score =  124 bits (310), Expect = 3e-26,   Method: Composition-based stats.
 Identities = 55/394 (13%), Positives = 123/394 (31%), Gaps = 24/394 (6%)

Query: 30  IKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV-SIFAKGQILY 88
           I     +  G++ E               G  ++  K      + T+ V     K  IL 
Sbjct: 6   IWEVCDVIAGQSPEGKFYNKEEEGIPFYQGKKEFTDKYIGKPTTWTTKVTKEAFKDDILM 65

Query: 89  GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSH 148
               P       +            ++ K+ + +    +   +   +      +GA  + 
Sbjct: 66  SVRAPV-GPVNFSTEHICIGRGLAAIRVKEEINKEYLFYY--LIYHENSIVGNKGAVFNS 122

Query: 149 ADWKGIGNIPMPIPP-LAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
            + K I N+ +P+P  L EQ  I E +      I+       + I+  KE  Q+ ++ I 
Sbjct: 123 INKKQIENLKVPLPNKLEEQKQIVEILDKAFESIEQAKANIEKNIQNSKELFQSRLNEIF 182

Query: 208 TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK 267
           ++  +                 +  +V    A  T L  +       +I  L  G + Q 
Sbjct: 183 SQKGDGW------------EENELGKVCKTGAGGTPLKSRKEYYENGDIPWLCSGEVKQG 230

Query: 268 LETRNMGLKPE---SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
               +     +      + ++     +V            +   +         A   + 
Sbjct: 231 NIYSSNKYITKKGLDNSSAKLFPKNTVVIAMYGATAGDVGILRFETS----TNQAVCGIL 286

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
           P+ +      +   SY   ++        + ++    +K   + +   KEQ  I   ++ 
Sbjct: 287 PNELFIPEFIYYSFSYRKNELIAQATGNAQPNISQIKIKNTLIPIITKKEQIKIVQELDS 346

Query: 385 ETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
              +   L +  +Q +  L+E + S +  A +G+
Sbjct: 347 LKEQTKQLEKHYQQKLDNLEELKKSILQKAFSGE 380



 Score = 79.5 bits (194), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 33/197 (16%), Positives = 68/197 (34%), Gaps = 8/197 (4%)

Query: 24  HWKVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            W+   + +  K   G T            DI ++   +V+ G      K    +  D S
Sbjct: 188 GWEENELGKVCKTGAGGTPLKSRKEYYENGDIPWLCSGEVKQGNIYSSNKYITKKGLDNS 247

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
           +  +F K  ++    G       I  F+   +     + P + L      +         
Sbjct: 248 SAKLFPKNTVVIAMYGATAGDVGILRFETSTNQAVCGILPNE-LFIPEFIYYSFSYRKNE 306

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           + A   G    +     I N  +PI    EQ+ I +++ +   +   L     + ++ L+
Sbjct: 307 LIAQATGNAQPNISQIKIKNTLIPIITKKEQIKIVQELDSLKEQTKQLEKHYQQKLDNLE 366

Query: 197 EKKQALVSYIVTKGLNP 213
           E K++++    +  L P
Sbjct: 367 ELKKSILQKAFSGELIP 383


>gi|225352838|ref|ZP_03743861.1| hypothetical protein BIFPSEUDO_04471 [Bifidobacterium
           pseudocatenulatum DSM 20438]
 gi|225156327|gb|EEG69896.1| hypothetical protein BIFPSEUDO_04471 [Bifidobacterium
           pseudocatenulatum DSM 20438]
          Length = 448

 Score =  124 bits (310), Expect = 4e-26,   Method: Composition-based stats.
 Identities = 52/394 (13%), Positives = 120/394 (30%), Gaps = 27/394 (6%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+   +    + +  R   S ++I+ + + +      +       +  +  +   I   G
Sbjct: 22  WEQRKLGELFEESDERA--SDREILSVSVANGIYPASE--SDRETNPGASLANYKIVHFG 77

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQG---WLLSIDVTQRIEAIC 141
            ++Y  +  +      + +DGI S  ++V +P   +             +    +  +  
Sbjct: 78  DVVYNSMRMWQGAVDASRYDGIVSPAYVVARPNSEVYARFFARLLRQPMLLKQYQQVSQG 137

Query: 142 EGATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
                    +    +I + +P    EQ  I              IT   R  + L   K+
Sbjct: 138 NSKDTQVLKFDDFASIGISMPASENEQRQIGGFFDRLDSL----ITLHQRKYDKLCVLKK 193

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
           +++  +  KG +   +++ +G           EV  F         +N  L       L 
Sbjct: 194 SMLDKMFPKGGSLYPEIRFAGFTDPWEQRKLGEVAHFIN--GRAYSQNELLSSGKYPVLR 251

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
            GN           L+ E          G++++ +                 + I     
Sbjct: 252 VGNFYTNDSWYYSNLELEDKN---YAYEGDLLYTWSATFGPHI-----WHGNKVIYHYHI 303

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-PIKEQFDIT 379
             V+         A+ +   D  ++           +    ++   VL+P  ++EQ  I 
Sbjct: 304 WKVQLEAALEKLFAFQLLERDKERILSDKNGSTMVHITKTGIENTSVLMPCSVEEQRRIG 363

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
              +    R+D L+   ++    L   + S +  
Sbjct: 364 AFFD----RLDSLITLHQRKYDKLCVLKKSMLDK 393


>gi|23452782|gb|AAN33162.1| putative type I specificity subunit HsdS [Campylobacter jejuni]
          Length = 402

 Score =  124 bits (310), Expect = 4e-26,   Method: Composition-based stats.
 Identities = 58/415 (13%), Positives = 124/415 (29%), Gaps = 34/415 (8%)

Query: 21  IPKHWKVVPIKRFTK-----LNTG-------RTSESGKDIIYIGLEDVESGTGKYLPKDG 68
           +P+ WK+  +          +  G       ++    K I      +  +    +     
Sbjct: 4   LPQGWKMETLGEILSSDKYSIKRGPFGSALKKSFFVEKGIRIFEQYNPINNDPHWKRYFI 63

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD--FDGICSTQF--LVLQPKDVLPELL 124
           +  +          +G +L    G   +   +      GI +     + L    +L    
Sbjct: 64  SHEKFQELEAFKATEGDLLISCSGTLGKIVELPKDTEMGIINQALLKIRLNNIKILNSYF 123

Query: 125 QGWLLSIDVTQRIEAICEGATMSHA-DWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
             +  S  + ++I     G+ + +    K +  I +P+PPL +Q  I   +     +ID 
Sbjct: 124 IYYFNSPIMQEKILESTLGSAIKNIASVKILKQIEIPLPPLKKQERIVGILDESFAKIDE 183

Query: 184 LITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTE 243
            I    + +  L E  Q+ +        +          +    +P  WE K    +   
Sbjct: 184 SIKILEQNLLNLDELMQSALQKAFNPLKD--------NAKENYKLPQSWEWKSLEEISEN 235

Query: 244 LNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKR 303
           ++    K         +   I       N        +   I+ P       I  +    
Sbjct: 236 ISAGGDKPKNCTESKTAKNQIPVYANGVNNNGLVGYTDKATIIKPS----LTISARGTIG 291

Query: 304 SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVK 363
            +   +     I+    +    + +   YL + +                   L     K
Sbjct: 292 FVCIRKEPYFPIVRLISLIPCENILCLHYLYFCLN-----FFIAKGEGSSIPQLTIPKFK 346

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            L + +PP+KEQ  I   ++    +   L E   + +   +E + S +  A  G+
Sbjct: 347 SLQIPLPPLKEQEQIAKHLDFIFEKTKALKELYTKELKDYEELKQSLLNKAFKGE 401



 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 26/193 (13%), Positives = 66/193 (34%), Gaps = 10/193 (5%)

Query: 20  AIPKHWKVVPIKRFTK-LNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
            +P+ W+   ++  ++ ++ G              +  ++    Y     N+     +  
Sbjct: 219 KLPQSWEWKSLEEISENISAGGDKPKN----CTESKTAKNQIPVYANGVNNNGLVGYTDK 274

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           +   K  +     G      I  +       + + L P + +  L   +        + E
Sbjct: 275 ATIIKPSLTISARGTIGFVCIRKEPYFPI-VRLISLIPCENILCLHYLYFCLNFFIAKGE 333

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
               G+++         ++ +P+PPL EQ  I + +     +   L     + ++  +E 
Sbjct: 334 ----GSSIPQLTIPKFKSLQIPLPPLKEQEQIAKHLDFIFEKTKALKELYTKELKDYEEL 389

Query: 199 KQALVSYIVTKGL 211
           KQ+L++      L
Sbjct: 390 KQSLLNKAFKGEL 402


>gi|78773881|gb|ABB51229.1| type I RM system S subunit [Arthrospira platensis]
          Length = 395

 Score =  124 bits (310), Expect = 4e-26,   Method: Composition-based stats.
 Identities = 70/411 (17%), Positives = 140/411 (34%), Gaps = 50/411 (12%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVE-------SGTGKYLPKDGNSRQSD- 74
           K WK+V +   ++L T  T+ +     +     V        +  GK+LP      + D 
Sbjct: 2   KDWKIVSLNEISELITKGTTPTSVGFKFFDTGKVNFVKVETITDNGKFLPSKLAHIEMDC 61

Query: 75  --TSTVSIFAKGQILYGKLGPYLRKAIIADF--DGICSTQFLVLQPKDVL---PELLQGW 127
             +   S    G IL+   G   R AI+         +    +++ K      PE +   
Sbjct: 62  HHSLKRSQLKSGDILFSIAGALGRTAIVTSDILPANTNQALAIIRLKSSNAIHPEFVFRS 121

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
           L S  + ++I+    G    +     I N  +P+PPL EQ  I   +      ID  I  
Sbjct: 122 LSSGMLIKQIKKSKGGVAQQNLSLTQIKNFKIPLPPLEEQKRIVAILDEAFEGIDAAIAN 181

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK 247
             + +   +E   + +  +  +       +     +            PFF    E+ R 
Sbjct: 182 TQKNLANARELFDSYLQSLDAEKRYLGEIVDIKTGKLNANAATEDGQYPFFTCSKEIYRI 241

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
           +    +   + L+  N +     ++   K  +Y+   ++                     
Sbjct: 242 SEYAFDCEAILLAGNNAVGDFNVKHYKGKFNAYQRTYVI--------------------- 280

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
                           +   +   YL + +          ++G+  +  LK + +K L +
Sbjct: 281 -------------AVSEASQVLYRYLYFQLLKSLKMLKIQSVGANTKF-LKLDMIKNLQI 326

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            +P I++Q  +  V+N   +    L    ++ +  LKE + S +  A TG+
Sbjct: 327 ALPDIEKQQKLVLVLNELESETQRLESIYQRKLEALKELKQSILQKAFTGE 377



 Score = 98.7 bits (244), Expect = 2e-18,   Method: Composition-based stats.
 Identities = 28/200 (14%), Positives = 69/200 (34%), Gaps = 2/200 (1%)

Query: 217 MKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK 276
           MKD  I  +  + +          V        K+    + +++        +  ++ + 
Sbjct: 1   MKDWKIVSLNEISELITKGTTPTSVGFKFFDTGKVNFVKVETITDNGKFLPSKLAHIEMD 60

Query: 277 PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA-VKPHGIDSTYLAW 335
                    +  G+I+F           + S  +        A +     + I   ++  
Sbjct: 61  CHHSLKRSQLKSGDILFSIAGALGRTAIVTSDILPANTNQALAIIRLKSSNAIHPEFVFR 120

Query: 336 LMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
            + S  L K       G  +Q+L    +K   + +PP++EQ  I  +++     ID  + 
Sbjct: 121 SLSSGMLIKQIKKSKGGVAQQNLSLTQIKNFKIPLPPLEEQKRIVAILDEAFEGIDAAIA 180

Query: 395 KIEQSIVLLKERRSSFIAAA 414
             ++++   +E   S++ + 
Sbjct: 181 NTQKNLANARELFDSYLQSL 200


>gi|237747136|ref|ZP_04577616.1| type I restriction-modification system specificity subunit
           [Oxalobacter formigenes HOxBLS]
 gi|229378487|gb|EEO28578.1| type I restriction-modification system specificity subunit
           [Oxalobacter formigenes HOxBLS]
          Length = 380

 Score =  123 bits (309), Expect = 4e-26,   Method: Composition-based stats.
 Identities = 52/395 (13%), Positives = 121/395 (30%), Gaps = 37/395 (9%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIG-LEDVESGTGK--YLPKDGNSRQSDTSTVSI 80
            W+   +       +G T        Y G +  ++SG     Y       +    S+  +
Sbjct: 19  GWEEKKLGDVCVTFSGGTPSVTNSTYYNGCIPFIKSGEINKSYTEAFLTEKGLKNSSAKL 78

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
             KG +LY   G    ++ I+  +G  +   L ++   +  + L+  L           +
Sbjct: 79  VKKGDLLYALYGATSGESGISKINGAINQAILCIKSDILDLKYLKNLLCFNKNRITGMYL 138

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
             G    +   + I ++    P   EQ  I   + A   +I  +  +     +  K   Q
Sbjct: 139 QGG--QGNLSAEIIKSLKFYFPSSPEQTKIANFLSAIDEKISHINKKLDLLKQYKKGMMQ 196

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
            + +  +               +  G     WE K F  + + +  K  ++  + I  + 
Sbjct: 197 KIFNQDIRFK------------DENGEEFPEWEEKEFNNVFSTIPSKKYQIFSTEINEVG 244

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
              ++ + +    G   +                 I +  D  ++         +     
Sbjct: 245 QFPVLDQSQALIAGYSDQ--------QDKVCHISPIIVFGDHTTVVKYFEKPFIVGADGT 296

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
             +  H   + +  +++    +    Y           F  ++      P I+EQ  I N
Sbjct: 297 KLLFCHNGITKFFLYVIEFDPVIPEGYKR--------HFSLLREKNFPFPCIEEQTKIAN 348

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            ++     ID  +  +E+ +   +E +   +    
Sbjct: 349 FLSA----IDEKIALVEKQLASTREYKKGLMQQLF 379



 Score = 94.5 bits (233), Expect = 3e-17,   Method: Composition-based stats.
 Identities = 36/204 (17%), Positives = 73/204 (35%), Gaps = 9/204 (4%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
           G E++G                  +  N+      I  +  G I +      +  K    
Sbjct: 14  GEEFLGWEEKKLGDVCVTFSGGTPSVTNSTYYNGCIPFIKSGEINKSYTEAFLTEKGLKN 73

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY 340
            + ++V  G++++      + +  +        G I  A + +K   +D  YL  L+  +
Sbjct: 74  SSAKLVKKGDLLYALYGATSGESGISKI----NGAINQAILCIKSDILDLKYLKNLL-CF 128

Query: 341 DLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
           +  ++      G + +L  E +K L    P   EQ  I N ++     ID  +  I + +
Sbjct: 129 NKNRITGMYLQGGQGNLSAEIIKSLKFYFPSSPEQTKIANFLSA----IDEKISHINKKL 184

Query: 401 VLLKERRSSFIAAAVTGQIDLRGE 424
            LLK+ +   +       I  + E
Sbjct: 185 DLLKQYKKGMMQKIFNQDIRFKDE 208


>gi|154487134|ref|ZP_02028541.1| hypothetical protein BIFADO_00974 [Bifidobacterium adolescentis
           L2-32]
 gi|154084997|gb|EDN84042.1| hypothetical protein BIFADO_00974 [Bifidobacterium adolescentis
           L2-32]
          Length = 405

 Score =  123 bits (309), Expect = 4e-26,   Method: Composition-based stats.
 Identities = 65/403 (16%), Positives = 131/403 (32%), Gaps = 36/403 (8%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+   +         + +   K+      E        Y   D  +  +     S+    
Sbjct: 22  WEQRKLGELASKRIEKNTNGIKETFTNSAEHGVVSQLDYFDHDITNDAN-IGNYSVVHPD 80

Query: 85  QILYGKL-------GPYLRKAIIADFDGICSTQFLVLQPKDVLPE----LLQGWLLSIDV 133
             +Y          GP  R  +  D +G+ S  + V    D + +               
Sbjct: 81  DFIYNPRISAVAPCGPINRNKL--DRNGVMSPLYTVFSVDDTIDKLYLEHYFKTSRWHQF 138

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
                     +            +P+  P L EQ LI              IT   R  +
Sbjct: 139 MFLEGNSGARSDRFSISDSIFFEMPIQCPVLEEQELIASFFGRLDSL----ITLHQRKYD 194

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
            L   K++++  +  KG +   +++ +G        D WE +    L  E + K+   + 
Sbjct: 195 KLCVLKKSMLDKMFPKGGSLYPEIRFAG------FTDPWEQRKLGELFEEHSEKDRDDLP 248

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
           +  +    G + +    RN+     S   Y++VD G+ +      +         +    
Sbjct: 249 ALTIIQGGGTVHRDESNRNLQFDRNSLSNYKVVDTGDFIVHLRSFEG-----GLEKATCC 303

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCK-VFYAMGSGLR--QSLKFEDVKRLPVLVP 370
           G+++ AY   +   +DS +     RS             G+R  +S+  E +K + +   
Sbjct: 304 GLVSPAYHIFRGKNVDSDFYYLYFRSKRFIDADLKPHVYGIRDGRSIDIEGMKTIFIPWT 363

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            + EQ  I    +    R+D L+   ++ + LL+  + S +  
Sbjct: 364 NLAEQRRIGAFFD----RLDSLITLHQRKLELLRNIKKSMLDK 402


>gi|148982143|ref|ZP_01816610.1| type I restriction-modification system, S subunit [Vibrionales
           bacterium SWAT-3]
 gi|145960648|gb|EDK25995.1| type I restriction-modification system, S subunit [Vibrionales
           bacterium SWAT-3]
          Length = 390

 Score =  123 bits (309), Expect = 4e-26,   Method: Composition-based stats.
 Identities = 64/415 (15%), Positives = 135/415 (32%), Gaps = 38/415 (9%)

Query: 21  IPKHWKVVPIKRFT--KLNTGRTSESGK---DIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           +P  W+   +K      ++ G           +  + + D+   T   +     S +   
Sbjct: 2   VPNGWEEKSLKDICQKTISYGIVQTGENIENGVPCVRVVDLSKNTLNPVEMIKTSDKIHQ 61

Query: 76  S-TVSIFAKGQILYGKLGPYL--RKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
           S   +I  +G+++    G     +K          +     L P   +      W L  +
Sbjct: 62  SYKKTILCEGELMMALRGEIGLVKKVTPELVGANITRGLARLSPIKSVDSDYLLWTLRSN 121

Query: 133 VTQRIEAICEG-ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
             +   +   G + +       +  + +PIPPL EQ  I + +       D  I    + 
Sbjct: 122 KIKNELSRKSGGSALQEIALGSLRKVVLPIPPLPEQRKIAQIL----STWDRGIATTEKL 177

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           I+  K++K+AL+  ++T       + +    E      + WE      +      K    
Sbjct: 178 IDASKQQKKALMQQLLT------CQKRLVDPETGKAFQEEWEDTHLSNITVIKKGKA--- 228

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
                  LS  N++        G K   Y          I            S    +  
Sbjct: 229 -------LSAKNLVAGSYPVIAGGKSSPYSHVDFTHENVITVSASGAYAGYVSYHPYK-- 279

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
              I  S    V     +     +     +  +++     G +  +  +D++ + + VP 
Sbjct: 280 ---IWASDCSVVTAKPANYLGFIFQWLQLNQIRIYSMQSGGAQPHIYPKDLEVMKLRVPK 336

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
           I+EQ  I +V+      I+VL    E  +   K+ + + +   + G+  +R + +
Sbjct: 337 IEEQQKIASVLTAADKEIEVL----EAKLAHFKQEKKALMQQLLMGKRRVRVDEE 387


>gi|15789430|ref|NP_279254.1| RmeS [Halobacterium sp. NRC-1]
 gi|169235142|ref|YP_001688342.1| type I site-specific deoxyribonuclease subunit rmeS [Halobacterium
           salinarum R1]
 gi|10579756|gb|AAG18734.1| type I restriction modification enzyme, S subunit [Halobacterium
           sp. NRC-1]
 gi|167726208|emb|CAP12988.1| type I site-specific deoxyribonuclease subunit rmeS [Halobacterium
           salinarum R1]
          Length = 475

 Score =  123 bits (309), Expect = 5e-26,   Method: Composition-based stats.
 Identities = 72/428 (16%), Positives = 137/428 (32%), Gaps = 40/428 (9%)

Query: 22  PKHWKVVPIKRFTK-LNTGRTSESGKD-IIYIGLEDVESG-----TGKYLPKDGNSRQSD 74
           P  W    +    + +  G+      D +  I  E +          +YL +D       
Sbjct: 43  PGEWTAKRLGDIKQLITRGKQPTYDDDGVPVINQECIYWDGWHFENLRYLEEDV---AEG 99

Query: 75  TSTVSIFAKGQILYGKLG--PYLRK-AIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
                    G ++    G     R      D      +   +L+  + L      +    
Sbjct: 100 WKEKYFPESGDVIVNSTGQGTLGRAQVYPGDQRRAIDSHVTLLRTDEQLCPHFHRYFFES 159

Query: 132 DVTQ---RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
            + Q       +             +  +P P+PPL EQ  I   +      +D  I + 
Sbjct: 160 HLGQALLYSMCVNGSTGQIELSKTRLDLLPTPLPPLEEQRKIASVLYN----VDQAIQKT 215

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLV--------PDHWEVKPFFAL 240
              IE ++  KQ L+  + TKGL+    ++ S  +  GL         P  W V+    L
Sbjct: 216 EAVIEKIERLKQGLLDDLFTKGLSESNSLRPSPEDHPGLYKKERRQTIPSEWNVESLQNL 275

Query: 241 VTELNR----KNTKLIESNILSLSYGNIIQKLETRN--MGLKPESYETYQIVDPG-EIVF 293
             E       +    +E  +  ++  ++              PE  E Y       E + 
Sbjct: 276 CVENITYGIVQPGPHVEDGVPYINTEDMTDGDIPTEGLSRTSPEIAEKYSRSQIHAEELV 335

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL 353
             I            ++    +       V    +D+T+L W +RS +      A   G 
Sbjct: 336 VTIRATIGAVDQVPPELEGANLTRGTARVVPGDKVDNTFLLWAIRSNNFQSELDARVKGT 395

Query: 354 -RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
               +  + + ++PV  P I EQ  I + ++     I+  +E  E  +  LK  +   + 
Sbjct: 396 TFDEINLDQLGKIPVPHPDIDEQDRIVDELST----IEERMENEESYLEQLKRLKQGLMQ 451

Query: 413 AAVTGQID 420
             ++G++ 
Sbjct: 452 DLLSGEVR 459



 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 32/197 (16%), Positives = 65/197 (32%), Gaps = 9/197 (4%)

Query: 21  IPKHWKVVPIKRFT--KLNTGRTSES---GKDIIYIGLEDVESGTGKYLP-KDGNSRQSD 74
           IP  W V  ++      +  G           + YI  ED+  G          +   ++
Sbjct: 263 IPSEWNVESLQNLCVENITYGIVQPGPHVEDGVPYINTEDMTDGDIPTEGLSRTSPEIAE 322

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICS---TQFLVLQPKDVLPELLQGWLLSI 131
             + S     +++            +       +       V+    V    L   + S 
Sbjct: 323 KYSRSQIHAEELVVTIRATIGAVDQVPPELEGANLTRGTARVVPGDKVDNTFLLWAIRSN 382

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
           +    ++A  +G T    +   +G IP+P P + EQ  I +++     R++   +   + 
Sbjct: 383 NFQSELDARVKGTTFDEINLDQLGKIPVPHPDIDEQDRIVDELSTIEERMENEESYLEQL 442

Query: 192 IELLKEKKQALVSYIVT 208
             L +   Q L+S  V 
Sbjct: 443 KRLKQGLMQDLLSGEVR 459


>gi|262374616|ref|ZP_06067889.1| predicted protein [Acinetobacter junii SH205]
 gi|262310406|gb|EEY91497.1| predicted protein [Acinetobacter junii SH205]
          Length = 398

 Score =  123 bits (308), Expect = 5e-26,   Method: Composition-based stats.
 Identities = 60/401 (14%), Positives = 122/401 (30%), Gaps = 30/401 (7%)

Query: 24  HWKVVPIKRFTK-LNTGRTSESGK---DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            W    I   T+ L  G          +  YI  +++ +           S+        
Sbjct: 14  DWSRYKIAEVTEYLVDGTHFSPKTTEGEFKYITSKNIRNDGLDLTNISYISKDEHEKIYK 73

Query: 80  --IFAKGQILYGKLGPYLRKAIIA----DFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
                 G IL  K G       +     +F  + S   L  +        +   L S   
Sbjct: 74  RCKVQLGDILLTKDGANTGNCCLNTLDEEFSLLSSVAVLRGKKDSFNNNFILQILQSDLG 133

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
              I +   G  ++      + +     P L EQ  I   + A   +I  L  +     +
Sbjct: 134 QDTIISSMSGQAITRITLAKLKDYSFFFPELTEQTQITSFLSAVDEKISQLTQKHALLSQ 193

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
             +   Q L S          ++ K       G     WE K    +     +       
Sbjct: 194 YKQGMMQKLFSQ--------QIRFKADDGSEFGE----WEEKELKEVAEINPKAKKLPAN 241

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
              + L      Q L  +N+ L+       +++  G+++F+ +             +   
Sbjct: 242 FIYIDLESVEKGQLLLQKNIELQDAPSRAQRLLAKGDVLFQMVRPYQQNNYY--FNLSGE 299

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPI 372
            + ++ Y  ++    DS ++ + +             +G    ++   D+  + + VP +
Sbjct: 300 YVASTGYAQIRTKL-DSKFIYYALHEKTFLDEVMNRCTGTSYPAINSSDLSSIEIFVPCL 358

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           +EQ  I N ++     ID  +E + Q I   K  +   +  
Sbjct: 359 EEQTKIANFLSA----IDQKIEVVAQQIEQAKTWKKGLLQQ 395



 Score = 83.7 bits (205), Expect = 5e-14,   Method: Composition-based stats.
 Identities = 25/209 (11%), Positives = 62/209 (29%), Gaps = 5/209 (2%)

Query: 213 PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
           P ++ K+   +W                         +       ++    +     +  
Sbjct: 4   PKLRFKEFDGDWSRYKIAEVTEYLVDGTHFSPKTTEGEFKYITSKNIRNDGLDLTNISYI 63

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
              + E       V  G+I+            L +       + + A +  K    ++ +
Sbjct: 64  SKDEHEKIYKRCKVQLGDILLTKDGANTGNCCLNTLDEEFSLLSSVAVLRGKKDSFNNNF 123

Query: 333 LAWLMRSYDLCK-VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
           +  +++S      +  +M       +    +K      P + EQ  IT+ ++    +I  
Sbjct: 124 ILQILQSDLGQDTIISSMSGQAITRITLAKLKDYSFFFPELTEQTQITSFLSAVDEKISQ 183

Query: 392 LVEKIEQSIVLLKERRSSFIAAAVTGQID 420
           L +K      LL + +   +    + QI 
Sbjct: 184 LTQKH----ALLSQYKQGMMQKLFSQQIR 208


>gi|288932536|ref|YP_003436596.1| restriction modification system DNA specificity domain protein
           [Ferroglobus placidus DSM 10642]
 gi|288894784|gb|ADC66321.1| restriction modification system DNA specificity domain protein
           [Ferroglobus placidus DSM 10642]
          Length = 421

 Score =  123 bits (308), Expect = 6e-26,   Method: Composition-based stats.
 Identities = 65/417 (15%), Positives = 143/417 (34%), Gaps = 35/417 (8%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            IP+ W VV + +  ++          D   I +++ +   G Y     N         +
Sbjct: 24  EIPEDWGVVKLGKVVEVW---------DKYRIPVKEQDRKPGPYPYCGANGIIDYVDGYT 74

Query: 80  IFAKGQILY-----GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
               G+ +      G  GP+ + A I       +    V   K +  ++   +L+     
Sbjct: 75  --HDGEFVLLAEDGGYFGPFEKSAYIMRGKFWANNH--VHILKAIANKMTSEFLMFYLNF 130

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             +     G+T        +  IP+P P L EQ  I E +      I+       +   L
Sbjct: 131 MDLRPFLTGSTRPKLTQTDMLRIPLPKPSLPEQKAIAEILSTVDRAIEKTDEIIAKVERL 190

Query: 195 LKEKKQALVSY----IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
            K   Q L++      V  G     +        +G VP+ WEV     +  +       
Sbjct: 191 KKGLMQELLAGRVRVKVENGKIRFYRETRFKDSEIGKVPEDWEVVKLGKVAEQRKEIVDP 250

Query: 251 LIESNILSLSYGNIIQKLETR--NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
                +        +   ET+  N G   E   +       +I++  +    DK  + + 
Sbjct: 251 TEVDPVTPYVGLEHVNSGETKLSNFGKAEEVVSSKYRFYIRDILYGKLRPYLDKAVISNI 310

Query: 309 QVMERGIITSAYMAVKPHGID--STYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRL 365
                G+ ++ ++ ++         +L +++ +        A  +G       +  + + 
Sbjct: 311 ----NGVCSTDFIVMRTKRDYTIPDFLIYVLHTKRFIDYSTAGMTGTNHPRTSWNWIAKF 366

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
              +PP++EQ  I  +++     +D  +E  ++    L+  +   +   +TG++ ++
Sbjct: 367 EFPLPPLQEQKAIAEILST----LDKKLELEKKEKERLERIKKGLMNVLLTGRVRVK 419



 Score = 91.4 bits (225), Expect = 3e-16,   Method: Composition-based stats.
 Identities = 54/173 (31%), Positives = 79/173 (45%), Gaps = 9/173 (5%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKD--IIYIGLEDVESGTGKYLPKD 67
           +KDS    IG +P+ W+VV + +  +        +  D    Y+GLE V SG  K    +
Sbjct: 220 FKDSE---IGKVPEDWEVVKLGKVAEQRKEIVDPTEVDPVTPYVGLEHVNSGETKL--SN 274

Query: 68  GNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPK--DVLPELLQ 125
               +   S+   F    ILYGKL PYL KA+I++ +G+CST F+V++ K    +P+ L 
Sbjct: 275 FGKAEEVVSSKYRFYIRDILYGKLRPYLDKAVISNINGVCSTDFIVMRTKRDYTIPDFLI 334

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
             L +        A   G       W  I     P+PPL EQ  I E +    
Sbjct: 335 YVLHTKRFIDYSTAGMTGTNHPRTSWNWIAKFEFPLPPLQEQKAIAEILSTLD 387



 Score = 89.5 bits (220), Expect = 9e-16,   Method: Composition-based stats.
 Identities = 28/202 (13%), Positives = 67/202 (33%), Gaps = 13/202 (6%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET 282
           E    +P+ W V     +V   ++    + E +     Y           +       E 
Sbjct: 20  ELGCEIPEDWGVVKLGKVVEVWDKYRIPVKEQDRKPGPYPYCGANGIIDYVDGYTHDGEF 79

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
             + + G     +         +   +      +    +    + + S +L + +   DL
Sbjct: 80  VLLAEDG----GYFGPFEKSAYIMRGKFWANNHV--HILKAIANKMTSEFLMFYLNFMDL 133

Query: 343 CKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
                      R  L   D+ R+P+  P + EQ  I  +++      D  +EK ++ I  
Sbjct: 134 RPFL---TGSTRPKLTQTDMLRIPLPKPSLPEQKAIAEILSTV----DRAIEKTDEIIAK 186

Query: 403 LKERRSSFIAAAVTGQIDLRGE 424
           ++  +   +   + G++ ++ E
Sbjct: 187 VERLKKGLMQELLAGRVRVKVE 208


>gi|261855231|ref|YP_003262514.1| restriction modification system DNA specificity domain protein
           [Halothiobacillus neapolitanus c2]
 gi|261835700|gb|ACX95467.1| restriction modification system DNA specificity domain protein
           [Halothiobacillus neapolitanus c2]
          Length = 401

 Score =  123 bits (308), Expect = 6e-26,   Method: Composition-based stats.
 Identities = 54/404 (13%), Positives = 120/404 (29%), Gaps = 20/404 (4%)

Query: 26  KVVPIKRFTKLNTGR----TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT-----S 76
           KVVP+K   ++ + +    +    + + +    +V          +             +
Sbjct: 4   KVVPLKDLFQIGSSKRVLKSQWKAEGVPFYRGREVTRLAMDGFVDNELFISEAHYAELAN 63

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
                    I+   +G      I+ D D        +L  K +     +     +  T  
Sbjct: 64  QYGAPRTDDIVITAIGTIGNSYIVQDGDRFYFKDASILWMKRISDVSSKFVNFWLKSTMF 123

Query: 137 IEAIC--EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           ++ +    GAT+     + + ++ + +PP+AEQ  I   +      I        +  + 
Sbjct: 124 LDQLDHGNGATVDTLTIQKLQSVQIWVPPIAEQHRIVSILDEAFEGIAKARAHAEQNRQN 183

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
            +         +    L      +  G     L             + +   +  K +  
Sbjct: 184 ARA--------LFESHLQSVFTQRGEGWAEKSLEEVVDAQCTLSYGIVQPGHEYAKGMPI 235

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
              +     +I     + +  K         +  GE++              S       
Sbjct: 236 VRPTDLTAKLITLNGLKRIDPKLADGYRRTTLRGGELLLCVRGSTGVLAVTSSELAGANV 295

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIK 373
                 +   P  +   +  +LM S  +         G     +   D++++ V  PP+K
Sbjct: 296 TRGIVPIMFDPSLLSQDFGYFLMTSEAVQSQIRIKTYGTALMQINIGDLRKIAVSFPPLK 355

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
           EQ  +T  +   +A    L    +Q +  L E + S +  A +G
Sbjct: 356 EQERMTAQLEELSAETQRLESIYQQKLAALDELKKSLLHQAFSG 399


>gi|298245052|ref|ZP_06968858.1| restriction modification system DNA specificity domain protein
           [Ktedonobacter racemifer DSM 44963]
 gi|297552533|gb|EFH86398.1| restriction modification system DNA specificity domain protein
           [Ktedonobacter racemifer DSM 44963]
          Length = 433

 Score =  123 bits (308), Expect = 6e-26,   Method: Composition-based stats.
 Identities = 59/436 (13%), Positives = 142/436 (32%), Gaps = 35/436 (8%)

Query: 8   PQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTG--------RTSESGKDIIYIGLEDVESG 59
           P Y+ +    IG IP+ WK+   +  +++N G            +    +YI ++ + S 
Sbjct: 12  PGYRLTE---IGIIPEDWKLKTFRDVSRVNQGLQIAIEKRSKKPTNNSKVYITIQYLNS- 67

Query: 60  TGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV 119
                         + ++     K  IL  + G         +     +   +      +
Sbjct: 68  ------SKEAEYIDNYTSAVCCGKDDILMTRTGNTGYIVSGVEGVFHNNFFKINYDKAIL 121

Query: 120 LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
               L  +L        I      +T+   +     +IP+P+P  +EQ+ I + +    V
Sbjct: 122 DKGFLFYYLHLNSTQNIILTRAGASTIPDLNHNDFYSIPIPVPTKSEQIAIAKALSDVDV 181

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFA 239
              +L     +  ++ +   Q L++  +       ++         G++P+ W VK    
Sbjct: 182 LTASLDKLIAKKRDIKQATTQQLLTGKIRLPGFVGIRNPVYKQTEAGMIPEDWTVKKLGE 241

Query: 240 LVTELNRKN--TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDP--------G 289
           +    N  +       +  L++                    ++ Y+ +           
Sbjct: 242 VCLYQNGTSLERYFNRNQGLNVISIGNYSIDGNYIDTNSYIDWKHYKEIKKFILNQDELC 301

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP-HGIDSTYLAWLMRSYDLCKVFYA 348
            ++     +      +   +   + +     M +KP   +   YL +++ S  +     +
Sbjct: 302 MVLNDKTSVGAIIGRVLLIKEDNKYVFNQRSMRIKPLDEVLPGYLYYIINSNLIHDKIVS 361

Query: 349 MGS-GLRQSLKFEDVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
           +   G +  +   D+  L +  P  ++EQ  I  +++   A        +EQ        
Sbjct: 362 LAKPGTQIYVNTGDITGLDIPFPQSLEEQQAIATILSDMDAEF----AALEQRREKTHAL 417

Query: 407 RSSFIAAAVTGQIDLR 422
           +   +   +TG+  L 
Sbjct: 418 KQGMLQELLTGKTRLT 433



 Score = 78.3 bits (191), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 31/207 (14%), Positives = 67/207 (32%), Gaps = 18/207 (8%)

Query: 224 WVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY 283
            +G++P+ W++K F  +          + + +    +   +   ++  N   + E  + Y
Sbjct: 18  EIGIIPEDWKLKTFRDVSRVNQGLQIAIEKRSKKPTNNSKVYITIQYLNSSKEAEYIDNY 77

Query: 284 Q---IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY 340
                    +I+           S                +      +D  +L + +   
Sbjct: 78  TSAVCCGKDDILMTRTGNTGYIVSGVEGVFHNNFF----KINYDKAILDKGFLFYYLHLN 133

Query: 341 DLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPPIKEQFDITNVI---NVETARIDVLVEKI 396
               +            L   D   +P+ VP   EQ  I   +   +V TA +D L+ K 
Sbjct: 134 STQNIILTRAGASTIPDLNHNDFYSIPIPVPTKSEQIAIAKALSDVDVLTASLDKLIAKK 193

Query: 397 EQSIVLLKERRSSFIAAAVTGQIDLRG 423
                  ++ + +     +TG+I L G
Sbjct: 194 -------RDIKQATTQQLLTGKIRLPG 213


>gi|182679588|ref|YP_001833734.1| restriction modification system DNA specificity subunit
           [Beijerinckia indica subsp. indica ATCC 9039]
 gi|182635471|gb|ACB96245.1| restriction modification system DNA specificity domain
           [Beijerinckia indica subsp. indica ATCC 9039]
          Length = 415

 Score =  123 bits (308), Expect = 6e-26,   Method: Composition-based stats.
 Identities = 66/425 (15%), Positives = 130/425 (30%), Gaps = 28/425 (6%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKD------IIYIGLEDVESG-TGK 62
           YK + V   G IP+ WK+  +  F K+ TG T  +           ++   D+ S     
Sbjct: 5   YKQTEV---GMIPEDWKIASVSSFGKVVTGGTPPTTNRSFWNGFYPWVTPTDISSDRDIY 61

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPE 122
              +         S         +L   +    + A++    G C+ Q   + P      
Sbjct: 62  LTERCITDAGMKVSGS--LPANSVLVTCIASIGKNAVL-KTFGSCNQQINAIIPNGRHDS 118

Query: 123 LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
           +   + L      R+ +       S        +I   +PP  E+        A     D
Sbjct: 119 I-FIYYLIEFNKNRLLSKAGITATSIISKSLFESIVFAVPPTLEEQRAIA---AALGDAD 174

Query: 183 TLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVT 242
            LI      I   ++ KQA +  ++T G           +E       ++      +   
Sbjct: 175 ALIASLEALIAKKRDIKQAAMQQLLT-GKTRLPGFSGKWVEHDFNEIFNFLRNGSNSRSD 233

Query: 243 ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK 302
                +   I    +  S    +   +   + +          V  G+++        + 
Sbjct: 234 LSENGDVGYIHYGDIHSSPSAFMDFSKGTFIRISNHKVSNLPRVHDGDLIIADASEDYNG 293

Query: 303 RS----LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS-YDLCKVFYAMGSGL-RQS 356
                 +R     E        +      + S      ++    L      + +G+    
Sbjct: 294 IGKSVEVRGISDTEVVAGLHTLLLRGKRELLSDGFKGYLQFVPALKSALIRIANGISVYG 353

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           +   +VK + VL+PPI EQ  I +V++   A     +  +E         +   +   +T
Sbjct: 354 ISKTNVKAISVLLPPIDEQSAIASVLSDMDAE----ITALETKRDKAHAVKQGMMQELLT 409

Query: 417 GQIDL 421
           G+I L
Sbjct: 410 GRIRL 414



 Score = 71.0 bits (172), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 28/205 (13%), Positives = 68/205 (33%), Gaps = 7/205 (3%)

Query: 224 WVGLVPDHWEVKPFFALVTELNRKNTK--LIESNILSLSYGNIIQKLETRNMGLKPESYE 281
            VG++P+ W++    +    +                  +         R++ L      
Sbjct: 9   EVGMIPEDWKIASVSSFGKVVTGGTPPTTNRSFWNGFYPWVTPTDISSDRDIYLTERCIT 68

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD 341
              +   G +    + +       ++A +   G       A+ P+G   +   + +  ++
Sbjct: 69  DAGMKVSGSLPANSVLVTCIASIGKNAVLKTFGSCNQQINAIIPNGRHDSIFIYYLIEFN 128

Query: 342 LCKVFYAMGSGLRQSLKFEDVKRLPVLVPP-IKEQFDITNVINVETARIDVLVEKIEQSI 400
             ++    G      +     + +   VPP ++EQ  I   +    A I  L   I +  
Sbjct: 129 KNRLLSKAGITATSIISKSLFESIVFAVPPTLEEQRAIAAALGDADALIASLEALIAKK- 187

Query: 401 VLLKERRSSFIAAAVTGQIDLRGES 425
              ++ + + +   +TG+  L G S
Sbjct: 188 ---RDIKQAAMQQLLTGKTRLPGFS 209


>gi|7658152|gb|AAF66082.1|AF097472_2 type IC HsdS subunit [Lactococcus lactis subsp. cremoris]
          Length = 422

 Score =  123 bits (308), Expect = 6e-26,   Method: Composition-based stats.
 Identities = 66/418 (15%), Positives = 149/418 (35%), Gaps = 37/418 (8%)

Query: 20  AIPK--------HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSR 71
            +P+         W+   +K  T+    R+++   D+  + +        +     G+  
Sbjct: 15  KVPELRFPGFTDDWEERKLKDVTE--RVRSNDGRMDLPTLTMSASSGWLDQKDRFSGDIS 72

Query: 72  QSDTSTVSIFAKGQILYG----KLGPYLRKAIIADFDGICSTQFLVLQPKDVL---PELL 124
             +    ++  KG++ Y     KL  Y     + +++     +               + 
Sbjct: 73  GKEKKNYTLLKKGELSYNHGNSKLAKYGVVFSLTNYEEALVPRVYHSFKALENTSADFIE 132

Query: 125 QGWLLSIDVTQRIEAICEGATMS---HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
             +   +   +  + I  GA M    + ++    NI + IP   EQ+L+         ++
Sbjct: 133 YMFSTKLPDRELGKLISSGARMDGLLNINYDDFMNIHISIPNYEEQILMSAF----FRKL 188

Query: 182 DTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALV 241
           D  I    R ++LLKE+K+  +  +  K      +++ +G        +  ++       
Sbjct: 189 DENIALHQRKLDLLKEQKKGYLQKMFPKNGEKVPELRFAG---FADDWEERKLGDIGDTF 245

Query: 242 TELNRK-NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI-VDPGEIVFRFIDLQ 299
           T L  K        +   ++Y N+ Q        L     +  Q  V  G++ F      
Sbjct: 246 TGLTGKTKEDFGHGSAKFVTYVNVFQNPIATLDQLDAVEIDEKQNQVQKGDVFFTTSSET 305

Query: 300 NDKRSLRSAQVME--RGIITSAYMAVKPHG-IDSTYLAWLMRSYDLCKVFYAMGSGL-RQ 355
            ++  + S    +     + S     +P    D  Y+A ++RS  + K    +  G+ R 
Sbjct: 306 PEEVGMSSVWTYDTKNVYLNSFTFGYRPRVSFDLNYMASMLRSPSIRKKITFLAQGISRY 365

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           ++    +  + +  P + EQ  I +        +D  +   ++ + LLKE++  F+  
Sbjct: 366 NISKTKMLEIEIPAPNLSEQKKIGSF----FKLLDDTIALHQRKLDLLKEQKKGFLQK 419


>gi|294790581|ref|ZP_06755739.1| type I site-specific deoxyribonuclease (specificity subunit)
           [Scardovia inopinata F0304]
 gi|294458478|gb|EFG26831.1| type I site-specific deoxyribonuclease (specificity subunit)
           [Scardovia inopinata F0304]
          Length = 403

 Score =  123 bits (308), Expect = 6e-26,   Method: Composition-based stats.
 Identities = 68/397 (17%), Positives = 126/397 (31%), Gaps = 32/397 (8%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+   +    +  + +    G       L+   +       +    +++  S   +  KG
Sbjct: 26  WEQRKLGDVFEEYSEKNH--GDLPPLTVLQGSGTIQRDESSRVLLYKKASLSNYKLVNKG 83

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
             +   L  +     I+   GI S  +     +    +    +  S +    +       
Sbjct: 84  DFIL-HLRSFEGGLEISKQRGIISPAYHTFHGEGANSKFYYLFFRSYNFINILLKPYIYG 142

Query: 145 TMS--HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
                + D  G+  I +P P + EQ  I E        I     ++    +  +   Q +
Sbjct: 143 IRDGKNIDIDGMKEIMIPYPVIEEQRKIGEFFKTLDDLIAATERKKELLQKKKQAYLQLI 202

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI--ESNILSLS 260
            S  +                        WE +    +  ++  KN      E+   S  
Sbjct: 203 FSQHLRFKG----------------FTKPWEQRKLNDIAYKVTEKNNNFSIRETFTNSAE 246

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFR-FIDLQNDKRSLRSAQVMERGIITSA 319
            G + Q           E+   Y IV   + V+   I        +    +   GII+  
Sbjct: 247 LGIVSQLDFFDRNLSNAENIVNYYIVRAKDFVYNPRISAAAPVGPINCNNLEREGIISPL 306

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL----RQSLKFEDVKRLPVLVPPIKEQ 375
           Y   + H ID+ YL W  +S D  K     G       R S+K      +P+  P I+EQ
Sbjct: 307 YTVFRTHCIDTNYLEWFFKSSDWHKFMRYYGDSGARSDRFSIKDSLFFEMPIPYPVIEEQ 366

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
             I          +D L+   ++ I LLK R+ +++ 
Sbjct: 367 RKIGEF----FKTLDDLIAATDKKINLLKRRKKAYLQ 399


>gi|304310052|ref|YP_003809650.1| Type I restriction-modification system specificity subunit [gamma
           proteobacterium HdN1]
 gi|301795785|emb|CBL43984.1| Type I restriction-modification system specificity subunit [gamma
           proteobacterium HdN1]
          Length = 399

 Score =  123 bits (308), Expect = 6e-26,   Method: Composition-based stats.
 Identities = 45/409 (11%), Positives = 119/409 (29%), Gaps = 22/409 (5%)

Query: 24  HWKVVPIKRFT-KLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            W   P+  F   + +G T  S      G +I ++  ++V                 + S
Sbjct: 2   SWISAPLSDFCIDVKSGGTPSSHVESYYGGEIPWLRTQEVVFKKILDTELKITDEGLNNS 61

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
           +     +  ++    G    ++ +       +     L   D   +    +       + 
Sbjct: 62  SAKWIPENSVIVAMYGNSAGRSAVNKIPLTTNQACCNLIIDDETSDYRYVFYALCKSYEE 121

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           ++++ +GA  ++ +   + +  +P PP   Q  I + + +    I+          E  +
Sbjct: 122 LKSLSKGAAQNNLNAAQVKSFNIPKPPKKVQEKIGDILSSYDDLIENNRRRIQLLEESAR 181

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
              Q    ++   G     ++K       G            +     +RK  +    +I
Sbjct: 182 LLYQEWFVHLRFPG---HEQVKIIDGVPEGWSSGVLSDFFETSSGGTPSRKIPEFYAGDI 238

Query: 257 LSLSYGNIIQKLETRNMGLKPES---YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
             +    +             E      + ++   G ++         +  + +      
Sbjct: 239 PWVKTQELNDSYIFNTSEKISEEAIIKSSAKLFPAGTVLIAMYGATIGETGVLAISAASN 298

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
                       +   +T    L        +        + ++  + ++  P ++P   
Sbjct: 299 QAC---CALFPKNKELTTEFTHLFAMNSKQGLINLSQGAAQNNISQQIIRNFPFVLPS-- 353

Query: 374 EQFDITNVINVETARIDVLVEKIEQS-IVLLKERRSSFIAAAVTGQIDL 421
               I    N   + I      +E+  I LLK  R   +   ++G++ +
Sbjct: 354 --ELILKEFNDVVSNIYNQKFNLERQNISLLKA-RDLLLPKLMSGELTV 399



 Score = 70.6 bits (171), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 27/190 (14%), Positives = 65/190 (34%), Gaps = 6/190 (3%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESG------KDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           +P+ W    +  F + ++G T           DI ++  +++         +  +     
Sbjct: 205 VPEGWSSGVLSDFFETSSGGTPSRKIPEFYAGDIPWVKTQELNDSYIFNTSEKISEEAII 264

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
            S+  +F  G +L    G  + +  +       +     L PK+         L +++  
Sbjct: 265 KSSAKLFPAGTVLIAMYGATIGETGVLAISAASNQACCALFPKNKELTTEFTHLFAMNSK 324

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           Q +  + +GA  ++   + I N P  +P         + +     +   L  + I  ++ 
Sbjct: 325 QGLINLSQGAAQNNISQQIIRNFPFVLPSELILKEFNDVVSNIYNQKFNLERQNISLLKA 384

Query: 195 LKEKKQALVS 204
                  L+S
Sbjct: 385 RDLLLPKLMS 394


>gi|182683807|ref|YP_001835554.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae CGSP14]
 gi|182629141|gb|ACB90089.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae CGSP14]
          Length = 372

 Score =  123 bits (308), Expect = 6e-26,   Method: Composition-based stats.
 Identities = 54/398 (13%), Positives = 111/398 (27%), Gaps = 36/398 (9%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V + +      G   +  +D    G E +         K  N          I   G 
Sbjct: 2   KKVKLGQVATFINGYAFKP-QDWSSEGKEIIRIQNLTKTSKGINYYSGTIDKKYIVEAGD 60

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           IL    G  L          + +     +    +  +      +     Q       G+T
Sbjct: 61  ILISWSGT-LGVFQWCGRSAVLNQHIFKVVFDKIDIDKSYFKYVVEKGLQDAVKHTHGST 119

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
           M H   K   NI +P   L EQ  I  ++   +  I     +      L+          
Sbjct: 120 MKHLTKKYFDNIIVPYTNLGEQQRIASELDLLSKLILRRQEQLEELNLLV---------- 169

Query: 206 IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII 265
                       K    E     PD   +  +   +        +    N +  +     
Sbjct: 170 ------------KSRFNEMFEEYPDSVFLDTYIKELRAGKSLAGEENNKNKVLKTGAVSY 217

Query: 266 QKLETRNMGLKPESYE--TYQIVDPGEIVFRFIDLQNDKR--SLRSAQVMERGIITSAYM 321
               +  +   P  Y       V+ G+++   ++            A   +   +     
Sbjct: 218 DYFNSSEVKNLPIDYIPLDEHKVEIGDVIISRMNTSELVGAAGYVWAINSDNIYLPDRLW 277

Query: 322 AVKPHGIDSTYLAWLM----RSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFD 377
            V  +   +    W +    ++    K   +  SG  +++    + ++ V  PP+  Q +
Sbjct: 278 KVILNDRVNPVFLWKLITNEKTKLKIKRISSGTSGSMKNISKSQLLQIRVPFPPLALQNE 337

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
             + +    A +D     I++S+  L+  + S +    
Sbjct: 338 FADFV----ALVDKSQLAIQKSLEELETLKKSLMQEYF 371


>gi|312876128|ref|ZP_07736116.1| restriction modification system DNA specificity domain
           [Caldicellulosiruptor lactoaceticus 6A]
 gi|311797114|gb|EFR13455.1| restriction modification system DNA specificity domain
           [Caldicellulosiruptor lactoaceticus 6A]
          Length = 445

 Score =  122 bits (307), Expect = 7e-26,   Method: Composition-based stats.
 Identities = 75/441 (17%), Positives = 153/441 (34%), Gaps = 47/441 (10%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSE---SGKDIIYIGLEDVE-SGTGKYLPKDGNSRQSDT 75
             PK W +V ++R   L +G   +   S + I  +G E +   G   +   +        
Sbjct: 6   EFPKEWTIVSLERDCVLISGLRPKGGASDEGIPSLGGEHITLDGRINFSDVNAKYVPEKF 65

Query: 76  ST---VSIFAKGQILYGKLGPYLRKAIIADFDGI----CSTQFLVLQPKDVLPELLQGWL 128
                     +  IL  K G    K  I           +    +L+ K +  +    + 
Sbjct: 66  FKIMTKGKAEENDILVNKDGANTGKVAILKKKFYKDIAINEHLFILRSKKLFVQQYLFYW 125

Query: 129 LSIDV-TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
                  ++I     G+         I N  +P PPL EQ  I E +      ID  I +
Sbjct: 126 FFSRFGQKQITDRITGSAQPGLSSTFIKNFLVPRPPLPEQRKIAEIL----ETIDNAIEK 181

Query: 188 RIRFIELLKEKKQALVSYIVTKG-----------------LNPDVKMKDSGIEWVGLVPD 230
               IE  K  KQ L+  ++TKG                  +   +++D  I+     P 
Sbjct: 182 TDAIIEKYKRIKQGLMQDLLTKGVVSEGEGESESKSESEGESEKWRLRDEKIDKFKDSPL 241

Query: 231 HW----EVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIV 286
                       + ++ +N K T     +   +         +        ++ E     
Sbjct: 242 GRIPEEWEVRHISDISLINPKTTVNPRESYPYIEMDATPIMGKRYKYITYRKASEAGVKF 301

Query: 287 DPGEIVFRFIDLQ-NDKRSLRSAQVMERGIITSAYMAVK-PHGIDSTYLAWLMRSYDLCK 344
             G+++   I     + ++L     +  GI ++ ++  +    +D+ YL +L+ S  +  
Sbjct: 302 KKGDVLIARITPCAENGKALLVPNDIHIGIGSTEFIVFRAKENVDNVYLFYLLISDLVRN 361

Query: 345 --VFYAMGSGLRQSLKFEDVKRL-PVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSI 400
             +    G+  RQ +       +  V +P    EQ  + +++    ++ID ++EK +   
Sbjct: 362 VSIGLMEGTSGRQRIPKYVYSDIIKVAIPKSKTEQQRVASIL----SQIDEVIEKEQAYK 417

Query: 401 VLLKERRSSFIAAAVTGQIDL 421
             L+  +   +   +TG++ +
Sbjct: 418 EKLERIKKGLMEDLLTGKVRV 438



 Score = 58.3 bits (139), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 37/205 (18%), Positives = 78/205 (38%), Gaps = 11/205 (5%)

Query: 8   PQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKD 67
            ++KDS    +G IP+ W+V  I   + +N   T    +   YI ++       +Y    
Sbjct: 234 DKFKDSP---LGRIPEEWEVRHISDISLINPKTTVNPRESYPYIEMDATPIMGKRYKYIT 290

Query: 68  GNSRQSDTSTVSIFAKGQILYGKLGPYLRK-----AIIADFDGICSTQFLVLQPKDVLPE 122
                        F KG +L  ++ P                GI ST+F+V + K+ +  
Sbjct: 291 YRKASEAGVK---FKKGDVLIARITPCAENGKALLVPNDIHIGIGSTEFIVFRAKENVDN 347

Query: 123 LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
           +   +LL  D+ + +       T             +    + +    ++++ +   +ID
Sbjct: 348 VYLFYLLISDLVRNVSIGLMEGTSGRQRIPKYVYSDIIKVAIPKSKTEQQRVASILSQID 407

Query: 183 TLITERIRFIELLKEKKQALVSYIV 207
            +I +   + E L+  K+ L+  ++
Sbjct: 408 EVIEKEQAYKEKLERIKKGLMEDLL 432


>gi|289450014|ref|YP_003475630.1| type I restriction modification DNA specificity domain-containing
           protein [Clostridiales genomosp. BVAB3 str. UPII9-5]
 gi|289184561|gb|ADC90986.1| type I restriction modification DNA specificity domain protein
           [Clostridiales genomosp. BVAB3 str. UPII9-5]
          Length = 433

 Score =  122 bits (307), Expect = 7e-26,   Method: Composition-based stats.
 Identities = 58/426 (13%), Positives = 113/426 (26%), Gaps = 54/426 (12%)

Query: 18  IGAI-----PKHWKVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYLP 65
           +G +     P   +   I     +  G T            DI +  +ED+     +   
Sbjct: 4   LGELIQELCPDGVEYKRIDEICVVQNGYTPSKKNNEFWEDGDIPWFRMEDIRQNGRELDD 63

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ 125
              +         S+F    +++         A+I            +    + +  +  
Sbjct: 64  AVQHITSLGVRG-SVFPANSLIFATTATVGEHALIKVPFVCNQQLTHIHINDEYIDAIEI 122

Query: 126 GWLLSIDVT---QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
            +L                 G+T+   D     +  +P+PPL  Q  I   +   T    
Sbjct: 123 RYLFHCAFIIDEMCKNNTKGGSTLPAVDLNKFKSFKIPVPPLEVQREIVRILDNFTELTA 182

Query: 183 TLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVT 242
            L  E    +   K++ +     ++T              +  G        +    +  
Sbjct: 183 ELTAELTAELTARKKQYEYYRDMLLTF-------------DARGEAISDVVWRTLGEVCN 229

Query: 243 ELNRK--NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQN 300
             + K  +  LI       +          R             IV            Q 
Sbjct: 230 LQSGKAISAYLISDTQTVENSIPCYGANGLRGYVSTSNESGDKPIV----------GRQG 279

Query: 301 DKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFE 360
                             A +       +S +L  L+ + DL +      +G +  L   
Sbjct: 280 ALCGNVCFATGSYYATEHAVVVTDKGFFNSRFLYHLLVNADLNQY---KTAGAQPGLSVA 336

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVL-------VEKIEQSIVLLKERRSSFIAA 413
            +  + V VP    Q  I NV++   A    L       +   ++        R + +  
Sbjct: 337 RLNEVKVPVPTRTVQDRIANVLDNFDAICSDLNIGLPAEIAARQKQYEY---YRDALLTY 393

Query: 414 AVTGQI 419
           A TG+I
Sbjct: 394 AATGKI 399



 Score = 74.1 bits (180), Expect = 4e-11,   Method: Composition-based stats.
 Identities = 27/213 (12%), Positives = 64/213 (30%), Gaps = 24/213 (11%)

Query: 228 VPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ--- 284
            PD  E K    +    N        +           +  + R  G + +    +    
Sbjct: 12  CPDGVEYKRIDEICVVQNGYTPSKKNNEFWEDGDIPWFRMEDIRQNGRELDDAVQHITSL 71

Query: 285 -----IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
                +     ++F       +   ++   V  + +    ++ +    ID+  + +L   
Sbjct: 72  GVRGSVFPANSLIFATTATVGEHALIKVPFVCNQQLT---HIHINDEYIDAIEIRYLFHC 128

Query: 340 YDLCKVF---YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
             +          G     ++     K   + VPP++ Q +I  +++  T     L  ++
Sbjct: 129 AFIIDEMCKNNTKGGSTLPAVDLNKFKSFKIPVPPLEVQREIVRILDNFTELTAELTAEL 188

Query: 397 EQSIVLLKE----RRSSFIAAAVTGQIDLRGES 425
              +   K+     R   +        D RGE+
Sbjct: 189 TAELTARKKQYEYYRDMLLT------FDARGEA 215


>gi|325983687|ref|YP_004296089.1| restriction modification system DNA specificity domain
           [Nitrosomonas sp. AL212]
 gi|325533206|gb|ADZ27927.1| restriction modification system DNA specificity domain
           [Nitrosomonas sp. AL212]
          Length = 420

 Score =  122 bits (307), Expect = 7e-26,   Method: Composition-based stats.
 Identities = 62/419 (14%), Positives = 120/419 (28%), Gaps = 45/419 (10%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESG 59
            +P+++++G          WK   +        G T   GK         +I   D+   
Sbjct: 15  RFPEFREAG---------EWKEAKLGLIGIFTGGGTPSKGKASYWAGTNPWISSSDISDD 65

Query: 60  TGKYL--PKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPK 117
             + +   +  +      +   I     IL       + K  I       S  F+   P 
Sbjct: 66  NIQDICISRFISDEAIQETATKIVPANSILLVSR-VGVGKLAITRKPLCTSQDFMNFTPA 124

Query: 118 DVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
               +L+        +     A  +G  +         N+ +P+P   EQ  I + +I+ 
Sbjct: 125 Q--DDLVFLAYCLKSLKDTFLAFNQGMAIKGFTKDDAFNLRIPLPTQDEQQKIADCLISL 182

Query: 178 TVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPF 237
                  IT  ++ ++ LK  K+ L+  +         K++       G           
Sbjct: 183 D----ERITLEVQKLDTLKTHKKGLMQQLFPAEGETLPKLRFPEFRDAGE-----WNLKL 233

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID 297
              V ++              +S  N                 +TY              
Sbjct: 234 LGAVCDMQAGK----FVAATEISEQNRNDLYSCFGGNGLRGYTKTYTHS-------GRYS 282

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSL 357
           L   + +L     +  G   +   AV        +  WL  +  L  +        +  L
Sbjct: 283 LIGRQGALCGNVNLVDGFFHATEHAVVTTPKAGIHTDWLFYTLTLLNLNRFATGQAQPGL 342

Query: 358 KFEDVKRLPVLVPPIK-EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
             + + ++   VP  + EQ  I N +      ID L+    Q +  LK  +   +    
Sbjct: 343 SVDVLNKIECAVPKDEQEQRKIANCL----TSIDDLITAQTQKLAALKTHKQGLMQQLF 397


>gi|217980299|ref|YP_002364275.1| restriction modification system DNA specificity domain protein
           [Shewanella baltica OS223]
 gi|217500936|gb|ACK48908.1| restriction modification system DNA specificity domain protein
           [Shewanella baltica OS223]
          Length = 406

 Score =  122 bits (307), Expect = 7e-26,   Method: Composition-based stats.
 Identities = 64/414 (15%), Positives = 133/414 (32%), Gaps = 32/414 (7%)

Query: 21  IPKHWKVVPIKRFT-KLNTGRTSESGK-------DIIYIGLEDV-ESGTGKYLPKDGNSR 71
           +P+ W +  I     KL TG+T  + K       ++ +    D   +       +  +S 
Sbjct: 8   LPEGWHLETIGEVASKLVTGKTPSTKKAEYYSSSEVDWFTPSDFGSTAVLNNSRRKLSSL 67

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
             +  T+    K  IL   +G  + K  +A+ +   + Q   +  K+ +      +    
Sbjct: 68  AIEDGTIKKMPKDSILLVAIGATIGKVGLAEDESCFNQQVTGIHFKEKIH-PKYAYYWLS 126

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            +   I      AT+   +  GI  +    P   EQ  I EK+ A   RIDT I      
Sbjct: 127 YIKPEIITKSSQATLPIINQTGIKGLSFLYPEKEEQKCIVEKLDALLTRIDTAIEHLQES 186

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           I L     Q+ +    +           + ++    +P                 +    
Sbjct: 187 ITLKNSLLQSALDGQFSAITERMTIESLAEVKGGKRLPK---------------GEKLSD 231

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYE-----TYQIVDPGEIVFRFIDLQNDKRSLR 306
            E+    +   +   K      G+K  S E        ++   ++             + 
Sbjct: 232 EETEHPYIRVADFTDKGTIDLSGIKYISKEIHEQIKRYVISKDDLYISIAGTIGKTGFVP 291

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMR--SYDLCKVFYAMGSGLRQSLKFEDVKR 364
           S          +A + +K          +L    S    +   A  +  +  L    + +
Sbjct: 292 SELDGANLTENAAKLVIKDKQQLDLSYLYLFTLTSDFSAQAGLATKTVAQPKLALTRLSK 351

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           + + +  ++EQ  + + I    ++I      +   I  LK  ++S + +A  G+
Sbjct: 352 IEIPICSLEEQKSLVSTIEALKSKIHDAEAVLLGKIEDLKSLKASILDSAFKGE 405


>gi|254876851|ref|ZP_05249561.1| predicted protein [Francisella philomiragia subsp. philomiragia
           ATCC 25015]
 gi|254842872|gb|EET21286.1| predicted protein [Francisella philomiragia subsp. philomiragia
           ATCC 25015]
          Length = 379

 Score =  122 bits (307), Expect = 7e-26,   Method: Composition-based stats.
 Identities = 63/402 (15%), Positives = 138/402 (34%), Gaps = 30/402 (7%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           P  W+   +++       + S +      + L+ +E+  G+Y P  G        +    
Sbjct: 2   PAGWEWEKLEKVCD----KASSN------LSLKKIENEDGEY-PIYGAKGFIKNISFFHR 50

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            +  I   K G  + +  + D           L PK+ +      +L  + +        
Sbjct: 51  EEPYISIIKDGAGVGRVTMLDSKSSVIGTLQYLLPKNCID---IKYLYFLLLVIDFGKYV 107

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            G T+ H  ++      +P+PPLAEQ  I  K+ +   +ID  I    + I        +
Sbjct: 108 SGTTIPHIYYRDYKEHLVPLPPLAEQKRIVAKLDSLFEKIDKAIELHQQNITNANTLMAS 167

Query: 202 LVSYIVTK--GLNPDVKMKDSGIEWV-GLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
            +     K  G      +KD  I+   G  P   +        + +   N   +  +   
Sbjct: 168 TLDKTFKKLEGEYSYKNLKDITIKIGSGATPKGGQKAYKQKGTSLIRSMNVHDMGFSKKG 227

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
           L++ +  Q  + +N+           IV+  +++         +  +     +   +   
Sbjct: 228 LAFIDDSQADKLKNV-----------IVEKDDVLLNITGASVARCCVVCESALPARVNQH 276

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKV--FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
             +        S +L + + S        F + G   R+++    ++ L V    +  Q 
Sbjct: 277 VSIIRLNDSFISKFLHYYLISPMKKTELLFSSSGGATREAITKSMIENLQVPDISLPIQQ 336

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
                ++    ++D + +  EQ +  LK  ++S +  A  G+
Sbjct: 337 QTVEYLDSIATKVDKIKQLNEQKLENLKALKASILDKAFRGE 378



 Score = 76.8 bits (187), Expect = 7e-12,   Method: Composition-based stats.
 Identities = 32/179 (17%), Positives = 57/179 (31%), Gaps = 15/179 (8%)

Query: 228 VPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVD 287
           +P  WE +     V +    N  L +       Y     K   +N+           I+ 
Sbjct: 1   MPAGWEWEKL-EKVCDKASSNLSLKKIENEDGEYPIYGAKGFIKNISFFHREEPYISIIK 59

Query: 288 PGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY 347
            G                 +    +  +I +    +  + ID  YL +L+   D  K   
Sbjct: 60  DG-----------AGVGRVTMLDSKSSVIGTLQYLLPKNCIDIKYLYFLLLVIDFGKYV- 107

Query: 348 AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
                    + + D K   V +PP+ EQ  I   ++    +ID  +E  +Q+I      
Sbjct: 108 --SGTTIPHIYYRDYKEHLVPLPPLAEQKRIVAKLDSLFEKIDKAIELHQQNITNANTL 164


>gi|22299772|ref|NP_683019.1| type I site-specific deoxyribonuclease specificity subunit
           [Thermosynechococcus elongatus BP-1]
 gi|22295956|dbj|BAC09781.1| type I site-specific deoxyribonuclease specificity subunit
           [Thermosynechococcus elongatus BP-1]
          Length = 410

 Score =  122 bits (307), Expect = 7e-26,   Method: Composition-based stats.
 Identities = 61/427 (14%), Positives = 141/427 (33%), Gaps = 42/427 (9%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK--DIIYIGLEDVESGTGKY 63
            +P+++++G       P  W+V  +     +  G   ++ +   +   GL     G G  
Sbjct: 15  RFPEFRNAG-------P--WEVKRLGDMCDMQAGSFIKASEIRLVPEAGLNPCYGGNG-- 63

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPEL 123
               G ++               L G+ G Y     +A      +   +V+ PK      
Sbjct: 64  --LRGYTKSFTHIGRFP------LIGRQGAYSGNVQLAQGRFHATEHAVVVTPKQSTNID 115

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
              +   + +   +  +  G          + ++ +P P L EQ  I + + +       
Sbjct: 116 FLFF---LLIRGELSRLATGQAQPGLSVASLNSVSIPFPALPEQQKIADCLSSLDEL--- 169

Query: 184 LITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTE 243
            I  + + +E LK  K+ L+  +  +      +++       G        +        
Sbjct: 170 -IELQAKKLEALKAHKKGLMQQLFPREGETTPRLRFPEFRDAGPWEVKRLGEVACEFSDG 228

Query: 244 LNRKNTKLIESNILSLSYGNI-IQKLETRNMGLKPESYETYQIVD-----PGEIVFRFID 297
              ++       I  +  GNI + K        +  S ET++ +      PG+++   + 
Sbjct: 229 DWIESKDQSPDGIRLIQTGNIGLGKFIDNTEKARFISEETFERLSCSEVFPGDLLISRL- 287

Query: 298 LQNDKRSLRSAQVMERGI--ITSAYMAVKPHGIDSTYLAWLMRSY-DLCKVFYAMGSGLR 354
                R      + +R I  +    +          +     ++     +V        R
Sbjct: 288 PDPAGRCCLIPNIGKRMITAVDCTIVRFDLKQAHPYFCLSYCQTDQYFKEVAARSAGSTR 347

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAA 414
             +  +++  + V +P + EQ  I + +    + +D L+E   + +  LK  +   +   
Sbjct: 348 TRISRQNLADVRVPLPTLPEQQKIADCL----SSLDELIELQAKKLEALKAHKKGLMQQL 403

Query: 415 VTGQIDL 421
              +IDL
Sbjct: 404 FPQEIDL 410


>gi|242279138|ref|YP_002991267.1| restriction modification system DNA specificity domain protein
           [Desulfovibrio salexigens DSM 2638]
 gi|242122032|gb|ACS79728.1| restriction modification system DNA specificity domain protein
           [Desulfovibrio salexigens DSM 2638]
          Length = 400

 Score =  122 bits (307), Expect = 7e-26,   Method: Composition-based stats.
 Identities = 68/415 (16%), Positives = 146/415 (35%), Gaps = 44/415 (10%)

Query: 30  IKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYG 89
           + +   ++ G++  S K          E  T   +   G +     S   +F     + G
Sbjct: 5   LTQLASIHYGKSPSSTKA---------EESTIPIIGTGGQTGWGKDS---LFEGPATVVG 52

Query: 90  KLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHA 149
           + G       +        T + VL  K++  + L   L   D+    E + E   +   
Sbjct: 53  RKGTLGNPLYVETPFWPIDTTYAVLPYKNIHAKWLYYSLADCDL----EKLNEATGVPSI 108

Query: 150 DWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTK 209
           +   +G I +      +Q  I + +      +D  I +    I   +  KQ ++  + T+
Sbjct: 109 NRDYLGRIKISFVEFPQQRKIAKIL----TTVDNQIEKTEELIAKYESVKQGMMQDLFTR 164

Query: 210 GLNPDVKMKDSGIE--------WVGLVPDHWEVKPFFALVTEL-----NRKNTKLIESNI 256
           G++ + K++    +         +G +P  WEV P   + TE+      R          
Sbjct: 165 GVDENGKLRPKREDAPELYKKTELGWIPREWEVLPCIDVCTEIVVGIVIRPTQYYTSYGT 224

Query: 257 LSLSYGNII----QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
             L   N+            M  +     +  +V  G++V           +       +
Sbjct: 225 PVLRSANVKEEGLDSSALIFMTEENNQKLSKSMVRAGDLVTVRTGYPG--TTCVIPSDFD 282

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPP 371
           +       ++   + I S +LA  + S            G  +Q     ++K L V++P 
Sbjct: 283 KANCVDIIISRPDNSISSIFLATWINSSFGKGQVLKRQGGLAQQHFNVGEMKDLLVVLPS 342

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
             EQ  IT  +N    +   L+ + ++ +  LK  +++ +   +TG+I++  + +
Sbjct: 343 QTEQDKITKRLNSLKKK---LITE-KKQLTKLKHLKTALMQDLLTGKIEVTPDPE 393



 Score = 55.2 bits (131), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 33/216 (15%), Positives = 78/216 (36%), Gaps = 12/216 (5%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFT-KLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDG 68
           YK +    +G IP+ W+V+P      ++  G      +     G   + S   K    D 
Sbjct: 183 YKKTE---LGWIPREWEVLPCIDVCTEIVVGIVIRPTQYYTSYGTPVLRSANVKEEGLDS 239

Query: 69  ------NSRQSDTSTVSIFAKGQILYGKLG-PYLRKAIIADFDGICSTQFLVLQPKDVLP 121
                     +   + S+   G ++  + G P     I +DFD       ++ +P + + 
Sbjct: 240 SALIFMTEENNQKLSKSMVRAGDLVTVRTGYPGTTCVIPSDFDKANCVDIIISRPDNSIS 299

Query: 122 ELLQGWLLSIDV-TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
            +     ++      ++     G    H +   + ++ + +P   EQ  I +++ +   +
Sbjct: 300 SIFLATWINSSFGKGQVLKRQGGLAQQHFNVGEMKDLLVVLPSQTEQDKITKRLNSLKKK 359

Query: 181 IDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVK 216
           + T   +  +   L     Q L++  +    +P+  
Sbjct: 360 LITEKKQLTKLKHLKTALMQDLLTGKIEVTPDPEDM 395


>gi|189440822|ref|YP_001955903.1| restriction endonuclease S subunit [Bifidobacterium longum DJO10A]
 gi|189429257|gb|ACD99405.1| Restriction endonuclease S subunit [Bifidobacterium longum DJO10A]
          Length = 413

 Score =  122 bits (307), Expect = 8e-26,   Method: Composition-based stats.
 Identities = 69/409 (16%), Positives = 143/409 (34%), Gaps = 37/409 (9%)

Query: 25  WKVVPIKRFTKLNTGRTSESG-KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           W+   +       T +  +    +++    E       ++      +++S+ +   + A 
Sbjct: 19  WEQRKLGEIADKVTEKNLDGNITEVLTNSAEYGVINQTEFFDH-AVAKESNIAGYYVIAP 77

Query: 84  GQILYGKL-------GPYLRKAIIADFDGICSTQFLVLQPKDVLP----ELLQGWLLSID 132
           G  +Y          GP  R  +     G+ S  + V +  D +                
Sbjct: 78  GDFVYNPRISATAPVGPIRRNTL--GIHGVMSPLYTVFRLTDAVDGTYLSHFFKTNGWHG 135

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
             +        +            +P+P+P  +EQ  I         R+D LIT   R  
Sbjct: 136 FMKLEGNSGARSDRFSIGDATFFEMPIPVPSSSEQYAIGSF----FSRLDDLITLHQRKY 191

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN--TK 250
           + L   K++++  +  K      +++ +G        D WE +    +  ++  KN    
Sbjct: 192 DKLVIFKKSMLEKMFPKDGESVPEIRFAG------FTDPWEQRKLGEIADKVTAKNLDGN 245

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFR-FIDLQNDKRSLRSAQ 309
           + E    S  YG I Q     +   K  +   Y ++ PG+ V+   I        +R   
Sbjct: 246 ITEVLTNSAEYGVINQTEFFDHAVAKESNIAGYYVIAPGDFVYNPRISATAPVGPIRRNT 305

Query: 310 VMERGIITSAYMAVK-PHGIDSTYLAWLMRSYDLCKVFYAMGSGL----RQSLKFEDVKR 364
           +   G+++  Y   +    +D TYL+   ++          G+      R S+       
Sbjct: 306 LGIHGVMSPLYTVFRLTDAVDGTYLSHFFKTNGWHGFMKLEGNSGARSDRFSIGDATFFE 365

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           +P+ VP   EQ  I +      +R+D L+   ++ + LL++ + S +  
Sbjct: 366 MPIPVPSSSEQHAIGSF----FSRLDNLITLHQRKLELLQDIKKSLLDK 410


>gi|312128927|ref|YP_003996267.1| restriction modification system DNA specificity domain
           [Leadbetterella byssophila DSM 17132]
 gi|311905473|gb|ADQ15914.1| restriction modification system DNA specificity domain
           [Leadbetterella byssophila DSM 17132]
          Length = 495

 Score =  122 bits (307), Expect = 9e-26,   Method: Composition-based stats.
 Identities = 63/474 (13%), Positives = 130/474 (27%), Gaps = 75/474 (15%)

Query: 23  KHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           +H+ V+ I       +G T           DI ++   +++ G      +         S
Sbjct: 26  EHYPVLKIADIADTTSGGTPNRGMPEYYNGDIPWVKSGELKDGVITTCDEYITEAGLKNS 85

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
           +  +F KG +L    G  + K  I DFD   +     + PK  +      W         
Sbjct: 86  SAKLFPKGTLLVAMYGANIGKTGILDFDATTNQAVCAIFPKVDISREFLSWYFKQQ-RID 144

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE------------------T 178
             A+ +G    +     I N  + +P    Q  I + +                      
Sbjct: 145 FIAVGKGGAQPNISQTIINNASIVVPDEKVQKAIVKFLERIEKGDGIDYDFFIPEVLKDV 204

Query: 179 VRIDTLITERIRFIELLKEK-------KQALVSYIVTKGLNPDVKMKDSGIEWV------ 225
             I       +   +  + +        QA++   V   L P     +   E +      
Sbjct: 205 ETIYKYKNSYVTLSDSFESQLTQLENLNQAILQEAVQGKLVPQDPNDEPASELLKRIKAE 264

Query: 226 --------------------------GLVPDHWEVKPFFALVTELNRKNTKLIES--NIL 257
                                       +P++W       +     R           I 
Sbjct: 265 KATLRQAQGKGKKEKPLPPIKPEEIPFEIPENWVWCRLGEICEVNPRNKVDDEIDAGFIP 324

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI-- 315
                 +     T  +       + +      ++V   I    +         +  GI  
Sbjct: 325 MPMVSQLFGVKPTYEVRKWGAIKKGFTHFANNDVVIAKITPCFENSKAGIISDLPNGIGA 384

Query: 316 -ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPI 372
             T   +      I   Y+   ++  D  K    +  G+  +Q +  +      + +PP+
Sbjct: 385 GTTELNVLRGNQYILPEYVYAFVKRIDFLKNGERIMKGVAGQQRVPTDYFYNTLIPLPPL 444

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
            EQ  I   I  + A+   L E I  +    ++   + +  A     +++   +
Sbjct: 445 AEQKRIVAEIEKQFAKTKQLKEHIIANQQATEQLLKALLHQAF----EVKEMEE 494



 Score = 71.0 bits (172), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 41/214 (19%), Positives = 79/214 (36%), Gaps = 10/214 (4%)

Query: 2   KHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTG 61
           K  K  P  K   + +   IP++W    +    ++N     +   D  +I +  V    G
Sbjct: 276 KKEKPLPPIKPEEIPF--EIPENWVWCRLGEICEVNPRNKVDDEIDAGFIPMPMVSQLFG 333

Query: 62  KYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAI------IADFDGICSTQFLVLQ 115
                +     +     + FA   ++  K+ P    +       + +  G  +T+  VL+
Sbjct: 334 VKPTYEVRKWGAIKKGFTHFANNDVVIAKITPCFENSKAGIISDLPNGIGAGTTELNVLR 393

Query: 116 PKDVL-PELLQGWLLSIDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREK 173
               + PE +  ++  ID  +  E I +G             N  +P+PPLAEQ  I  +
Sbjct: 394 GNQYILPEYVYAFVKRIDFLKNGERIMKGVAGQQRVPTDYFYNTLIPLPPLAEQKRIVAE 453

Query: 174 IIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
           I  +  +   L    I   +  ++  +AL+    
Sbjct: 454 IEKQFAKTKQLKEHIIANQQATEQLLKALLHQAF 487


>gi|78046749|ref|YP_362924.1| type I site-specific deoxyribonuclease (specificity subunit)
           [Xanthomonas campestris pv. vesicatoria str. 85-10]
 gi|78035179|emb|CAJ22824.1| type I site-specific deoxyribonuclease (specificity subunit)
           [Xanthomonas campestris pv. vesicatoria str. 85-10]
          Length = 439

 Score =  122 bits (306), Expect = 9e-26,   Method: Composition-based stats.
 Identities = 80/426 (18%), Positives = 155/426 (36%), Gaps = 29/426 (6%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTS---ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +P+ W    ++  ++ N  ++        ++ ++ ++ V    G  L +         + 
Sbjct: 9   LPQGWTRRRLRFDSRCNPVKSKLDLPDDTEVSFVPMDAVGELGGLRLDQ-TRELADVYNG 67

Query: 78  VSIFAKGQILYGKLGPYLRKA------IIADFDGICSTQFLVLQPKDVLPELLQGWLLS- 130
            + FA G +   K+ P            + +     +T+  VL+P   L      +L   
Sbjct: 68  YTYFADGDVCIAKITPCFENGKGAIAEGLVNGVAFGTTELHVLRPSATLDTKFLFYLTIA 127

Query: 131 IDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
            D     EA   GA        + + +    +P +  Q  I   +  +T RID LI ++ 
Sbjct: 128 RDFRSHGEAEMRGAGGQKRVPEEFLKDWTPSLPRMDVQQRIARFLDDKTARIDALIEKKQ 187

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDS----GIEWVGLVPDHWEVKPFFALVTELN 245
             +E L+EK++AL++  VT       + K+     G  W+   P  W+VK          
Sbjct: 188 ELLERLEEKRRALITSAVTGESRLRTQAKNKTQKFGSAWLEAAPSDWKVKRLRFAFESCK 247

Query: 246 RKNT------KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDP--GEIVFRFID 297
                     +     I +  +     +L   N  L+     +++ V    G+++     
Sbjct: 248 NGVWGAEPDDEDSIVCIRAADFDGQSGRLNNGNRTLRTIDNWSFEKVRLNFGDLILEKSG 307

Query: 298 LQND--KRSLRSAQVMERGIITSAYMAVKPHG-IDSTYLAWLMRSYDLCK--VFYAMGSG 352
             +                + ++     +P       +L +LM +  L +    +   S 
Sbjct: 308 GGDKQLVGRAVLFDGHTPSVCSNFLARCRPRIGFHHRFLNYLMLAIYLGRGTYPHIKQST 367

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
             Q++       + V +P    Q DI+N ++   A IDV+   + +SI  L   RS  I 
Sbjct: 368 GIQNIDTGSYFDMRVAIPEENIQIDISNFLDESVAAIDVIRSCVIRSIEKLNNFRSIVIT 427

Query: 413 AAVTGQ 418
            AVTGQ
Sbjct: 428 DAVTGQ 433



 Score = 96.8 bits (239), Expect = 6e-18,   Method: Composition-based stats.
 Identities = 41/207 (19%), Positives = 80/207 (38%), Gaps = 9/207 (4%)

Query: 229 PDHWEVKPFFALVTELNRKN----TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ 284
           P  W  +           K+        E + + +     +  L         + Y  Y 
Sbjct: 10  PQGWTRRRLRFDSRCNPVKSKLDLPDDTEVSFVPMDAVGELGGLRLDQTRELADVYNGYT 69

Query: 285 IVDPGEIVFRFIDLQ--NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM---RS 339
               G++    I     N K ++    V      T+    ++P     T   + +   R 
Sbjct: 70  YFADGDVCIAKITPCFENGKGAIAEGLVNGVAFGTTELHVLRPSATLDTKFLFYLTIARD 129

Query: 340 YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
           +         G+G ++ +  E +K     +P +  Q  I   ++ +TARID L+EK ++ 
Sbjct: 130 FRSHGEAEMRGAGGQKRVPEEFLKDWTPSLPRMDVQQRIARFLDDKTARIDALIEKKQEL 189

Query: 400 IVLLKERRSSFIAAAVTGQIDLRGESQ 426
           +  L+E+R + I +AVTG+  LR +++
Sbjct: 190 LERLEEKRRALITSAVTGESRLRTQAK 216



 Score = 61.3 bits (147), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 38/212 (17%), Positives = 71/212 (33%), Gaps = 14/212 (6%)

Query: 14  GVQWIGAIPKHWKVVPIKRFTKLNT----GRTSESGKDIIYIGLEDVESGTGKYLPKDGN 69
           G  W+ A P  WKV  ++   +       G   +    I+ I   D +  +G+    +  
Sbjct: 223 GSAWLEAAPSDWKVKRLRFAFESCKNGVWGAEPDDEDSIVCIRAADFDGQSGRLNNGNRT 282

Query: 70  SRQSDTST--VSIFAKGQILYGKLGP-----YLRKAIIADF-DGICSTQFLVLQPKDVLP 121
            R  D  +        G ++  K G        R  +       +CS      +P+    
Sbjct: 283 LRTIDNWSFEKVRLNFGDLILEKSGGGDKQLVGRAVLFDGHTPSVCSNFLARCRPRIGFH 342

Query: 122 ELLQGWLLSIDV--TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
                +L+            I +   + + D     ++ + IP    Q+ I   +     
Sbjct: 343 HRFLNYLMLAIYLGRGTYPHIKQSTGIQNIDTGSYFDMRVAIPEENIQIDISNFLDESVA 402

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVTKGL 211
            ID + +  IR IE L   +  +++  VT  L
Sbjct: 403 AIDVIRSCVIRSIEKLNNFRSIVITDAVTGQL 434


>gi|254478523|ref|ZP_05091898.1| Type I restriction modification DNA specificity domain protein
           [Carboxydibrachium pacificum DSM 12653]
 gi|214035531|gb|EEB76230.1| Type I restriction modification DNA specificity domain protein
           [Carboxydibrachium pacificum DSM 12653]
          Length = 386

 Score =  122 bits (306), Expect = 9e-26,   Method: Composition-based stats.
 Identities = 56/402 (13%), Positives = 129/402 (32%), Gaps = 32/402 (7%)

Query: 29  PIKRFTKLNTGR-TSESGKDII--YIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
            +    K+N  R     G      ++ +  V+   G  +              + F +G 
Sbjct: 2   RLGEVCKINPRRPRLIRGDGAPTSFVPMRAVDEFLGMIVEIQIRPFAEVRKGYTYFEEGD 61

Query: 86  ILYGKLGPYLRKA------IIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI-- 137
           +L+ K+ P +          + D  G  ST+F VL+P   +      + +  +V +    
Sbjct: 62  VLFAKITPCMENGKAAIAKGLIDGIGFGSTEFHVLRPSLEVIAEWVWYFVRQEVFRNKAK 121

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           E+   G          + +  +P+PPL EQ  I  K+ A   R+  +   R    +  + 
Sbjct: 122 ESFRGGVGQQRVPQDFLESYLLPLPPLEEQRRIVAKVEALMERVREVRRLRAEAQKDTEL 181

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
             Q  ++ +                     +P  W       +   +  ++      N  
Sbjct: 182 LMQTALAEVFPHP--------------GADLPPGWRWVRLGEVCDIIMGQSPPSSTYNFE 227

Query: 258 SLSYGNIIQKLETRNMGLKPESYET--YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
                    K +  ++   P  + +   ++  PG+++              +        
Sbjct: 228 GNGLPFFQGKADFGDLHPTPRIWCSAPQKVARPGDVLISVRAPVG-----STNVANLACC 282

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
           I     A++P      +       Y   ++          ++  +D++ + + +PP++EQ
Sbjct: 283 IGRGLAALRPRDSLERFWLLYYLHYLEPELSKMGAGSTFNAITKKDLQNVFIPLPPLEEQ 342

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
             I   ++    ++  L     ++   LK    + +  A  G
Sbjct: 343 RRIVAYLDQIQQQVAALKRAQAETEAELKRLEQAILDKAFRG 384



 Score = 79.5 bits (194), Expect = 9e-13,   Method: Composition-based stats.
 Identities = 33/192 (17%), Positives = 65/192 (33%), Gaps = 2/192 (1%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +P  W+ V +     +  G++  S              G   +       R   ++   
Sbjct: 197 DLPPGWRWVRLGEVCDIIMGQSPPSSTYNFEGNGLPFFQGKADFGDLHPTPRIWCSAPQK 256

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           +   G +L     P      +A+           L+P+D L      + L   +   +  
Sbjct: 257 VARPGDVLISVRAPV-GSTNVANLACCIGRGLAALRPRDSLERFWLLYYLH-YLEPELSK 314

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
           +  G+T +    K + N+ +P+PPL EQ  I   +     ++  L   +      LK  +
Sbjct: 315 MGAGSTFNAITKKDLQNVFIPLPPLEEQRRIVAYLDQIQQQVAALKRAQAETEAELKRLE 374

Query: 200 QALVSYIVTKGL 211
           QA++       L
Sbjct: 375 QAILDKAFRGDL 386


>gi|291514831|emb|CBK64041.1| Restriction endonuclease S subunits [Alistipes shahii WAL 8301]
          Length = 404

 Score =  122 bits (306), Expect = 1e-25,   Method: Composition-based stats.
 Identities = 58/416 (13%), Positives = 126/416 (30%), Gaps = 46/416 (11%)

Query: 18  IGAIPKHWKVVPIKRFTK-LNTGRTSESGK--DIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           +G IP+ W+V  +         G T +      I    +E + +G   Y        +S 
Sbjct: 23  LGVIPQKWEVKFLGDLLSRCTNGLTYDVSITCGIPVTRIETISTGEINYAKVGYIPNESG 82

Query: 75  TSTVSIFAKGQILYGKLGPY--LRKAIIA--DFDGICSTQFLVLQPKDVLPELLQGWLLS 130
             T  +  KG ILY  +     + K      D +       L+L+  + L +    + L 
Sbjct: 83  YETFRM-QKGDILYSHINSLSQIGKVAYYKGDKEIYHGMNLLLLRANESLDKQYLYYTLL 141

Query: 131 IDVTQRIEAICEGA--TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
            D  + +  +        +      +  + + +PPLAEQ  I E +      I+      
Sbjct: 142 TDHMRHMAQVIAKPAVNQASISTSDLKRVKIAVPPLAEQRKIAEVLGVWDEAIEKQARLI 201

Query: 189 IRFIELLKEKKQALVSYIV--TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
            +     +   Q L+S  +      +P  ++K + I  +       +   F         
Sbjct: 202 EKLALRKRGLMQRLLSAKLRLPGFSDPWKELKINKITIIRKGEQVNKDVLFSNA------ 255

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
                               K    N G+ P  Y          I               
Sbjct: 256 --------------------KYPVINGGITPSGYLDIYNTKANTITISEGGNS----CDY 291

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLP 366
              +            ++     +    + +   +   +          +++ +D+  L 
Sbjct: 292 VNFMTTPFWSGGHCYTIEAKDGINNLCIYQLLKNNEKYIMSLRVGSGLPNIQIKDLGNLK 351

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
            ++P  +EQ  I  V+          +E  ++ +  L+ ++   +   +TG+  ++
Sbjct: 352 FMIPTYQEQTAIAEVLTASDRE----IELAKEKLERLRRQKRGLMQQLLTGKKRVK 403



 Score = 80.2 bits (196), Expect = 5e-13,   Method: Composition-based stats.
 Identities = 38/209 (18%), Positives = 78/209 (37%), Gaps = 11/209 (5%)

Query: 225 VGLVPDHWEVKPFFALVTELNRK--NTKLIESNILSLSYGNIIQKLETRNMGLKPESYET 282
           +G++P  WEVK    L++           I   I       I              +   
Sbjct: 23  LGVIPQKWEVKFLGDLLSRCTNGLTYDVSITCGIPVTRIETISTGEINYAKVGYIPNESG 82

Query: 283 Y--QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI-DSTYLAWLMRS 339
           Y    +  G+I++  I+  +    +   +  +        + ++ +   D  YL + + +
Sbjct: 83  YETFRMQKGDILYSHINSLSQIGKVAYYKGDKEIYHGMNLLLLRANESLDKQYLYYTLLT 142

Query: 340 YDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
             +  +   +      + S+   D+KR+ + VPP+ EQ  I  V+ V     D  +EK  
Sbjct: 143 DHMRHMAQVIAKPAVNQASISTSDLKRVKIAVPPLAEQRKIAEVLGVW----DEAIEKQA 198

Query: 398 QSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
           + I  L  R+   +   ++ ++ L G S 
Sbjct: 199 RLIEKLALRKRGLMQRLLSAKLRLPGFSD 227


>gi|308185304|ref|YP_003929437.1| restriction modification system DNA specificity domain protein
           [Helicobacter pylori SJM180]
 gi|308061224|gb|ADO03120.1| restriction modification system DNA specificity domain protein
           [Helicobacter pylori SJM180]
          Length = 400

 Score =  122 bits (306), Expect = 1e-25,   Method: Composition-based stats.
 Identities = 59/408 (14%), Positives = 130/408 (31%), Gaps = 25/408 (6%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDV-ESGTGKYLPKDGNSRQSD 74
           P +W+ V +    ++  G T  +         I +    ++  +       +        
Sbjct: 7   PLNWQRVRLGDIAEIIGGGTPSTQVTSFWNGSINWFTPTEIGITKYVHKSQRTITPLGLK 66

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
            S+  +   G IL       +    I       +  F  L P + +      + L + + 
Sbjct: 67  KSSAKLLPIGTILLTSR-ASIGDCAILKVVATTNQGFQSLIPLEKINNE-FLYYLMLTLK 124

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
            ++  +  G+T        I N+ +P+PPL EQ+ I   +      + +L    ++   +
Sbjct: 125 NKLLKLASGSTFLEVSPNKIKNLLIPLPPLNEQIAIANILSDLDHYLYSLDALILKKESV 184

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
            K     L+S           ++K     W  +           A    +         S
Sbjct: 185 KKALSFELLSQ--------RKRLKGFNQAWQRVRLGDIAEIKRGASPRPIENPKWFCANS 236

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
           N+  +   +I +   +R +    +      I     I    + +       +        
Sbjct: 237 NVGWVRISDISKN--SRFLYKTAQELSKKGIEKSRFIKQNSLIMSMCATIGKPIITKIDT 294

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-PIK 373
            I   ++  +   ID  YL + +  Y   +   +   G + +L  + +K   V  P  + 
Sbjct: 295 CIHDGFVVFENPKIDLNYLYYFL-CYIEKEWLESGQQGSQVNLNVDLIKNKEVFCPKDLN 353

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           EQ  I N+++     I  L  K  Q     +  + +     ++ +I +
Sbjct: 354 EQIAIANILSDLDNEIISLKNKKRQ----FENIKKALNHDLMSAKIRV 397



 Score = 62.9 bits (151), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 24/204 (11%), Positives = 59/204 (28%), Gaps = 10/204 (4%)

Query: 228 VPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY---- 283
            P +W+      +   +        +         N     E        +S  T     
Sbjct: 6   TPLNWQRVRLGDIAEIIGGGTPS-TQVTSFWNGSINWFTPTEIGITKYVHKSQRTITPLG 64

Query: 284 -QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
            +      +    I L +       A +         + ++ P    +    + +     
Sbjct: 65  LKKSSAKLLPIGTILLTSRASIGDCAILKVVATTNQGFQSLIPLEKINNEFLYYLMLTLK 124

Query: 343 CKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
            K+           +    +K L + +PP+ EQ  I N+++     +  L   I +    
Sbjct: 125 NKLLKLASGSTFLEVSPNKIKNLLIPLPPLNEQIAIANILSDLDHYLYSLDALILKK--- 181

Query: 403 LKERRSSFIAAAVTGQIDLRGESQ 426
            +  + +     ++ +  L+G +Q
Sbjct: 182 -ESVKKALSFELLSQRKRLKGFNQ 204


>gi|325912594|ref|ZP_08174977.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus iners UPII 60-B]
 gi|325478015|gb|EGC81144.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus iners UPII 60-B]
          Length = 386

 Score =  122 bits (306), Expect = 1e-25,   Method: Composition-based stats.
 Identities = 64/408 (15%), Positives = 131/408 (32%), Gaps = 35/408 (8%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           PK W+   +     + TG  +   K         V  G   +  +     + +T +    
Sbjct: 5   PKDWEEKKLGNLAFIKTGNKNNEDK---------VSGGKYPFYVRSEKVERINTFSY--- 52

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQ-FLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
               IL    G         +       + + +    D L      W +  +      + 
Sbjct: 53  DTEAILVPGEGNIGSVFHYVNGKFDVHQRVYAITNFSDTLNAKYLYWFMIKNFGSYALSQ 112

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
              AT+         N  + IPP  EQ  I + + A    I+         +  L EKK+
Sbjct: 113 TSKATVDSLRLPAFKNFDVVIPPFPEQQAIADALTAFDTHINN--------LAKLIEKKK 164

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
            +    V   ++   ++     +W        +     A +     K  + ++S    L 
Sbjct: 165 MIRDGAVEDLVSGKRRLAGFSGKW--EEISFNDSVIPKARIGWQGLKKDEYLQSGYSYLI 222

Query: 261 YGNIIQKLETRNMGLKPESYETYQI-----VDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
            G    +       +   S + Y +     V  G+++         K ++         +
Sbjct: 223 SGTDFYRGTISFEEISYVSKDRYDMDSNIQVKSGDVLVTKDGTIG-KVAIVPNIDKRATL 281

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF-YAMGSGLRQSLKFEDVKRLPVLVP-PIK 373
            +  ++      I   +L W++RS                + L  +D+K+L  ++P  + 
Sbjct: 282 NSGVFVFRVIEKIKRKFLYWILRSSLFSNFIDELSAGSTIKHLYQKDLKKLKFVIPTSLS 341

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           EQ  I +++      I  L E+ E+ I      ++  +   +TG+I L
Sbjct: 342 EQQAIADILTSMDKEISDLEEEKEKYIA----LKAGAMDDLLTGKIRL 385



 Score = 64.8 bits (156), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 27/167 (16%), Positives = 52/167 (31%), Gaps = 5/167 (2%)

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
           +  N  +    +                  +     +  + +  S+      +  +    
Sbjct: 23  NKNNEDKVSGGKYPFYVRSEKVERINTFSYDTEAILVPGEGNIGSVFHYVNGKFDVHQRV 82

Query: 320 Y-MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
           Y +      +++ YL W M                  SL+    K   V++PP  EQ  I
Sbjct: 83  YAITNFSDTLNAKYLYWFMIKNFGSYALSQTSKATVDSLRLPAFKNFDVVIPPFPEQQAI 142

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGES 425
            + +      I+ L + IE+     K  R   +   V+G+  L G S
Sbjct: 143 ADALTAFDTHINNLAKLIEKK----KMIRDGAVEDLVSGKRRLAGFS 185


>gi|253577073|ref|ZP_04854395.1| conserved hypothetical protein [Paenibacillus sp. oral taxon 786
           str. D14]
 gi|251843567|gb|EES71593.1| conserved hypothetical protein [Paenibacillus sp. oral taxon 786
           str. D14]
          Length = 443

 Score =  122 bits (306), Expect = 1e-25,   Method: Composition-based stats.
 Identities = 69/431 (16%), Positives = 148/431 (34%), Gaps = 36/431 (8%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESG-------KDIIYIGLEDV---ESGTGKYLPKDGNSRQ 72
           + W  V +     + +G T ++        ++I +I  +DV   E+ T +   +  + + 
Sbjct: 4   ETWNNVMLGDVVDIISGGTPKTTITEYWEPEEIDWITAKDVSECENRTIRKTSRRISKKG 63

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
            + S+  I      +    G    K  ++      +     LQ K+   +L   +L+   
Sbjct: 64  LENSSARILEPLTTVLIARGATTGKVALSSEGMAMNQTCYGLQAKEGNDKLFIYYLMLSR 123

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
                 AI  G+        GI +I + IP    Q  I + +      +D  I       
Sbjct: 124 Y-NSFRAIANGSIFETVIGSGIKSIQLNIPTFPIQQSIGKIL----GALDDKIELNNAIN 178

Query: 193 ELLKEKKQALVSYIVTKGLNPDV---KMKDSGIE----WVGLVPDHWEVKPFFALVTELN 245
           + L+E  QAL          P+      K SG E     +GL+P  W+V          +
Sbjct: 179 KNLEEMAQALFKRWFVDFEFPNENGEPYKSSGGEFEESELGLIPKGWKVVTIGDYCKVRS 238

Query: 246 R---KNTKLIE----SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDL 298
               K++   +       +    GN I   +T  +  +     +  + +PG+I+      
Sbjct: 239 GFAFKSSWWQDEGIKVIKIKNIIGNTINLQDTDCVDEEKMLKASEFLANPGDILIAMTGA 298

Query: 299 QNDKRSLRS---AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ 355
              K +L       ++    +   ++   P   +      L +     ++        + 
Sbjct: 299 TVGKIALVPRTNEALLINQRVGKFFLGENPFKKNGFLYCLLTQKVVFDQIVSVASGSAQP 358

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           ++    ++ + +L+P  K         N  T  +   + +I     +L + R + +   +
Sbjct: 359 NISPTGIESIKILLPDPKT----LEYFNEITGSMLKNIVEINYGNKILTQIRDTLLPKLM 414

Query: 416 TGQIDLRGESQ 426
           +G+I +  E  
Sbjct: 415 SGEIRVPAEQD 425



 Score = 57.9 bits (138), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 39/210 (18%), Positives = 77/210 (36%), Gaps = 15/210 (7%)

Query: 10  YKDSGVQW----IGAIPKHWKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTG 61
           YK SG ++    +G IPK WKVV I  + K+ +G   +S     + I  I ++++   T 
Sbjct: 206 YKSSGGEFEESELGLIPKGWKVVTIGDYCKVRSGFAFKSSWWQDEGIKVIKIKNIIGNTI 265

Query: 62  KYLPKD-GNSRQSDTSTVSIFAKGQILYGKLGPYLRKAII---ADFDGICSTQ---FLVL 114
                D  +  +   ++  +   G IL    G  + K  +    +   + + +   F + 
Sbjct: 266 NLQDTDCVDEEKMLKASEFLANPGDILIAMTGATVGKIALVPRTNEALLINQRVGKFFLG 325

Query: 115 QPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKI 174
           +        L   L    V  +I ++  G+   +    GI +I + +P         E  
Sbjct: 326 ENPFKKNGFLYCLLTQKVVFDQIVSVASGSAQPNISPTGIESIKILLPDPKTLEYFNEIT 385

Query: 175 IAETVRIDTLITERIRFIELLKEKKQALVS 204
            +    I  +        ++       L+S
Sbjct: 386 GSMLKNIVEINYGNKILTQIRDTLLPKLMS 415


>gi|29349928|ref|NP_813431.1| putative type I restriction enzyme EcoAI protein [Bacteroides
           thetaiotaomicron VPI-5482]
 gi|29341839|gb|AAO79625.1| putative type I restriction enzyme S.BthVORF4518AP [Bacteroides
           thetaiotaomicron VPI-5482]
          Length = 474

 Score =  122 bits (306), Expect = 1e-25,   Method: Composition-based stats.
 Identities = 58/406 (14%), Positives = 119/406 (29%), Gaps = 30/406 (7%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRT----SESGKDIIYIGLEDVESGTGKYLPKDGN--SRQS 73
            +P  W    ++ + K  T        +S   I ++ + DV  G   +L           
Sbjct: 70  EVPSSWVWCKLEDYVKSVTDGDHQAPPKSDIGIPFLVISDVAKGKLNFLNTRFVPQEYYE 129

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
             S      KG +L+   G Y     +      C  + + L       E L   L S   
Sbjct: 130 KISFDRKPEKGDLLFTVTGSYGIVVPVNIDCKFCFQRHIGLIKTLNTSEYLLHLLKSSYF 189

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
             + +    G        + + +  +PIPP AEQ  I  +I      I+ +   +     
Sbjct: 190 KGQCDEFATGTAQKTVGLETLRSFLLPIPPFAEQQRIVIEIEKWFSLIELIEGGKDDLQT 249

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWV-------------------GLVPDHWEV 234
            +K+ K  ++   +   L P    ++  I+ +                     +P  W  
Sbjct: 250 TIKQAKSKILDLAIHGKLVPQDPNEEPAIKLLKRINPDFTPCDNGHSGKLPYKIPKTWAW 309

Query: 235 KPFFALVTELNRK---NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEI 291
               +++          +        +      I+      + +        +  + G+I
Sbjct: 310 CSHNSILDISGGSQPAKSYFETIPKPNYIRLYQIRDYGESPVPVYIPINLASKQTEKGDI 369

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
           +         K  +  A+     +     +    + I   Y  +   S         +  
Sbjct: 370 LLARYGGSLGK--VFHAKQGAYNVAMVKVIFKFENLIYKEYAYYYYLSDLYQGKLKEISR 427

Query: 352 GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
             +      D   +   +PPI EQ  I   I    + +D + + +E
Sbjct: 428 TAQTGFNITDFNDMYFPLPPINEQQRIVQKIEELFSSLDNIQKSLE 473



 Score = 69.8 bits (169), Expect = 7e-10,   Method: Composition-based stats.
 Identities = 27/201 (13%), Positives = 67/201 (33%), Gaps = 13/201 (6%)

Query: 227 LVPDHWEVKPFFALVT---ELNRKNTKLIESNILSLSYGNIIQKLETRNMGL-----KPE 278
            VP  W        V    + + +     +  I  L   ++ +                E
Sbjct: 70  EVPSSWVWCKLEDYVKSVTDGDHQAPPKSDIGIPFLVISDVAKGKLNFLNTRFVPQEYYE 129

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
                +  + G+++F           +     ++       ++ +      S YL  L++
Sbjct: 130 KISFDRKPEKGDLLFTVTGS----YGIVVPVNIDCKFCFQRHIGLIKTLNTSEYLLHLLK 185

Query: 339 SYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
           S           +G  ++++  E ++   + +PP  EQ  I   I    + I+++    +
Sbjct: 186 SSYFKGQCDEFATGTAQKTVGLETLRSFLLPIPPFAEQQRIVIEIEKWFSLIELIEGGKD 245

Query: 398 QSIVLLKERRSSFIAAAVTGQ 418
                +K+ +S  +  A+ G+
Sbjct: 246 DLQTTIKQAKSKILDLAIHGK 266


>gi|22416340|emb|CAC87151.1| restriction-modification enzyme type I S subunit [Streptococcus
           thermophilus]
          Length = 407

 Score =  122 bits (305), Expect = 1e-25,   Method: Composition-based stats.
 Identities = 61/404 (15%), Positives = 146/404 (36%), Gaps = 29/404 (7%)

Query: 24  HWKVVPIKR--------FTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            W+   +              ++   S     + +I  +D++         +  S++ D 
Sbjct: 16  DWEQRKLGELSQKISVGIATSSSKYFSSQDHGVPFIKNQDIKENRINTKNLEYISKEFDN 75

Query: 76  STV-SIFAKGQILYGKLGPYLRKAIIADFDG---ICSTQFLVLQPKDVLPELLQGWLLSI 131
                   +G I+  + G     A++          +T       + +L E +  ++ S 
Sbjct: 76  KNKNKRVKQGDIITARTGYPGLSAVVPKELEGAQTFTTLITRPISEMILSEYISIFINSP 135

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
              ++I  +  G    + +   + N+ +P+P L EQ  I   I+    ++D  I    R 
Sbjct: 136 YGMKQISGMEAGGAQKNVNAGIVQNLLIPLPSLDEQKKISNFIL----KLDDTIALHQRK 191

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           ++LLKE+K+  +  +  K      +++ +G      V    EV   +        +  K 
Sbjct: 192 LDLLKEQKKGYLQKMFPKNGAKVPELRFAGFADDWEVRKLNEVSDIYDGT----HQTPKY 247

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
            ++ ++ LS  NI      + +  +    E       G+++   I    D  +    +  
Sbjct: 248 QDNGVMFLSVENIKTLTSNKFISREAFEDEFKIRPQRGDVLMTRIG---DIGTANVVETD 304

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLV 369
           E      +    K   ++  +L   + +  +    +         + +   ++ ++P+ V
Sbjct: 305 EDLAYYVSLALFKSEELNPYFLQASIYAPFVQDQIWKRTLHIAFPKKINKNEIGQVPINV 364

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           P + EQ  I +       ++D  +   ++ + LLKE++  F+  
Sbjct: 365 PTLAEQTKIGSF----FKQLDKTIALHQRKLDLLKEQKKGFLQK 404



 Score = 49.8 bits (117), Expect = 0.001,   Method: Composition-based stats.
 Identities = 33/201 (16%), Positives = 75/201 (37%), Gaps = 20/201 (9%)

Query: 20  AIPK--------HWKVVPIKRFTKLNTG--RTSE-SGKDIIYIGLEDVESGTGKYLPKDG 68
            +P+         W+V  +   + +  G  +T +     ++++ +E++++ T     K  
Sbjct: 213 KVPELRFAGFADDWEVRKLNEVSDIYDGTHQTPKYQDNGVMFLSVENIKTLTS---NKFI 269

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL 128
           +    +        +G +L  ++G      ++   + +     L L   + L        
Sbjct: 270 SREAFEDEFKIRPQRGDVLMTRIGDIGTANVVETDEDLAYYVSLALFKSEELNPYFLQAS 329

Query: 129 LSIDVTQR--IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           +     Q    +     A     +   IG +P+ +P LAEQ  I         ++D  I 
Sbjct: 330 IYAPFVQDQIWKRTLHIAFPKKINKNEIGQVPINVPTLAEQTKIGSF----FKQLDKTIA 385

Query: 187 ERIRFIELLKEKKQALVSYIV 207
              R ++LLKE+K+  +  + 
Sbjct: 386 LHQRKLDLLKEQKKGFLQKMF 406


>gi|31983512|ref|NP_858124.1| putative type i restriction enzyme hsds subunit [Lactobacillus
           delbrueckii subsp. lactis]
 gi|18077746|emb|CAD13349.1| putative Type I restriction enzyme hsdS subunit [Lactobacillus
           delbrueckii subsp. lactis]
          Length = 396

 Score =  122 bits (305), Expect = 1e-25,   Method: Composition-based stats.
 Identities = 51/391 (13%), Positives = 127/391 (32%), Gaps = 19/391 (4%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+   +    K+  G++  S           +  G         + R   T    I  KG
Sbjct: 20  WEQCKLGDVAKITMGQSPNSKNYTDNPKDHILVQGNADMKDGQVHPRIWTTEITKIADKG 79

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            ++     P         +D +       ++  + +       L  +           G+
Sbjct: 80  DLILSVRAPV-GDIGKTSYDVVIGRGVAAIKGNEFI----FQLLKRMKTVGYWTKYSTGS 134

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
           T    +   I N  + +P   EQ  + + +      I     ++ +   L     Q + +
Sbjct: 135 TFESINSLEINNAVINLPKEHEQNKVGKILSYMDHAITLHEEKKRQLECLKSALLQKMFA 194

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
               K   P V+ +    EW     +  ++    ++ + +    T       L+      
Sbjct: 195 D---KSGYPVVRFEGFSDEW-----EERKLGDAVSISSGVTGDATLQDGEYRLTRIESIS 246

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
              L    +G   +  +   +++ G+I++  I+  +    +            +      
Sbjct: 247 QGTLNVARLGFTNKKPDQKYLLNLGDILYSNINSLSHIGKVALVDTTGIYHGINLLRFQM 306

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
            + +DS +L   + +  +     +  +    + S+   ++ + P+ +P I EQ  I +  
Sbjct: 307 RNDVDSEFLFQRLNTTPMKNWAVSHANPAVSQASINQTELSKQPISLPTITEQQKIGSF- 365

Query: 383 NVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
                ++D  +   ++ + LLKE++  F+  
Sbjct: 366 ---FKQLDKTIALHQRKLDLLKEQKKGFLQK 393


>gi|310659273|ref|YP_003936994.1| restriction modification system DNA specificity domain [Clostridium
           sticklandii DSM 519]
 gi|308826051|emb|CBH22089.1| Restriction modification system DNA specificity domain [Clostridium
           sticklandii]
          Length = 405

 Score =  122 bits (305), Expect = 1e-25,   Method: Composition-based stats.
 Identities = 50/399 (12%), Positives = 126/399 (31%), Gaps = 28/399 (7%)

Query: 26  KVVPIKRFT-KLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           +   +     K+++G T  +        +I ++  ++V+ G                S+ 
Sbjct: 17  EWKTLDEIALKISSGGTPRTGVSEYYNGNIPWLRTQEVDFGEIWDTEIKITDVGLKNSSA 76

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
            +     ++    G  + K  I       +     +Q  + + +    +       + I+
Sbjct: 77  KLIPANCVIIAMYGATVGKVGINKIPLSTNQACANIQLDEKIADYRYVFHYISSKYEHIK 136

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
           ++  G + ++ + + + N  +PIPPL  Q  I   +   T     L  E     +     
Sbjct: 137 SLGTG-SQTNINAQIVKNYIIPIPPLKVQEEIVRILDTFTELTAELTAELTARKKQYTYY 195

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
           +  L+S    +G     ++ +      G  P     + +        R         I  
Sbjct: 196 RDKLLS--FEEGEIEWKELGEIFNLKNGYTPSKANNEYWTNGTIPWFRMEDIRENGRI-- 251

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
                    L      +   + +  +I     I+        +   +    +  +     
Sbjct: 252 ---------LSKSIQYVNKSAVKGGKIFPANSIIISTSATIGEHALITVPYLSNQRFTNL 302

Query: 319 AYMAVKPHGIDSTYLA-WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFD 377
           +      +     +L  ++    D CK    +  G    +     K+  + +PP+ EQ  
Sbjct: 303 SLKDDYINKFVIKFLYHYVFLLDDWCK--NNITVGNFAGVDMNSFKKFKIPIPPLAEQER 360

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           I ++++   A    + E + + I L ++     R+  ++
Sbjct: 361 IVSILDKFDALTSSITEGLPREIELRQKQYEYYRNMLLS 399


>gi|90425137|ref|YP_533507.1| type I restriction enzyme StySPI specificity protein
           [Rhodopseudomonas palustris BisB18]
 gi|90107151|gb|ABD89188.1| type I restriction enzyme StySPI specificity protein
           [Rhodopseudomonas palustris BisB18]
          Length = 460

 Score =  122 bits (305), Expect = 1e-25,   Method: Composition-based stats.
 Identities = 63/423 (14%), Positives = 130/423 (30%), Gaps = 26/423 (6%)

Query: 19  GAIPKHWKVVPIKRF--TK---LNTGRTSESGKDIIYIGLED-----VESGTGKYLPKDG 68
           G +P  W   PI      +   +  G    S K   Y             G  ++L  D 
Sbjct: 3   GDLPSGWVAAPIDDLRALEPNAITDGPYGSSLKTSHYRSSGARVVRLGNIGFRRFLSADA 62

Query: 69  NSRQSDTST---VSIFAKGQILYGKLGPYLRKAIIADF---DGICSTQFLVLQPKDVLPE 122
                D            G +L   LG  + ++ IA       +       L+    L  
Sbjct: 63  VYISEDHFKALVKHHVRAGDVLIAALGDPVGRSCIAPSDISPALVKADCFRLRCSPHLSA 122

Query: 123 LLQGWLLSIDV-TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
                 L+ +   +   +   G      +        +P+PP  EQ  I  KI   + + 
Sbjct: 123 PFIMLWLNSECAREAFSSAAHGLGRVRINLSDFRTTVVPVPPATEQGRIVAKIDNLSAKS 182

Query: 182 DTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALV 241
                      +L+++ KQA+++      L  + ++ +   +W        ++       
Sbjct: 183 KRSRDHLDHIPQLVEKYKQAILAAAFRGELTHEWRVNNLDQKWPWPECSLSDIANIGTGA 242

Query: 242 TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES---YETYQIVDPGEIVFRFIDL 298
           T    +       NI  ++ G +   +         E+       ++   G I+      
Sbjct: 243 TPKRGEQRYYSNGNIPWITSGAVKHAVVQAADEYITEAAVRETNCKVFPAGTILMAMYGE 302

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHGIDS---TYLAWLMRSYDLCKVFYAMGSGLRQ 355
              +  +    +        A  A++          ++ W +RS    ++      G++ 
Sbjct: 303 GKTRGRVTV--LGINAATNQAVAAIQVRADSPAVRDFVVWHLRS-GYLELRERAAGGVQP 359

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           +L    V    + +P   EQ ++   +    A ID L  +   +  L+     + +A A 
Sbjct: 360 NLNLGIVNAWRIPLPSRDEQMEVVRRVQKAFAWIDRLTIETTSARKLIDRLDQAILAKAF 419

Query: 416 TGQ 418
            G+
Sbjct: 420 RGE 422


>gi|187736905|ref|YP_001816643.1| HsdS [Escherichia coli 1520]
 gi|172051487|emb|CAP07829.1| HsdS [Escherichia coli]
          Length = 427

 Score =  122 bits (305), Expect = 1e-25,   Method: Composition-based stats.
 Identities = 51/405 (12%), Positives = 134/405 (33%), Gaps = 37/405 (9%)

Query: 26  KVVPIKRF-TKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           +   ++    K+++G T ++        DI ++  ++V                   S+ 
Sbjct: 17  EWKTLEDISIKISSGGTPKTGVSEFYDGDIPWLRTQEVNFCDIWDTEVKITESGVKNSSA 76

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
               K  ++    G  + K  I       +     +Q  + +      +         I+
Sbjct: 77  KWIPKNCVIVAMYGATVGKIGINKIPMTTNQACANIQLNEEVAHYRYVFHFLCSQYTYIK 136

Query: 139 AICEGATMSHADWKGIGNIPMPIPP-------LAEQVLIREKIIAETVRIDTLITERIRF 191
           ++  G + ++ + + + NI +PIP        LA Q  I   +   T     L  E    
Sbjct: 137 SLGTG-SQTNINAQIVKNIKIPIPCPDNPEKSLAIQSEIVRILDKFTALTAELTAELTAE 195

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEW--VGLVPDHWEVKPFFALVTELNRKNT 249
           + + K++       ++          K+  +EW  +G + +    K F       +   +
Sbjct: 196 LNMRKKQHNYYRDQLL--------TFKEGEVEWKALGEIGEFIRGKRFTKADYVEDGGIS 247

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
            +    I    Y             ++ +   + +    G++V   +    +      A 
Sbjct: 248 VIHYGEI----YTRYGVYTTHSLSQVRADMAASLRYAKHGDVVITDVGETVEDVGKAVAW 303

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS-LKFEDVKRLPVL 368
           + +  I    +     H ++  ++++ M++           +  + + L      ++ + 
Sbjct: 304 LGDDDIAIHDHCYAFRHSLNPKFISYYMQTDSFISEKAKYVARTKVNTLLINGFSKIMIP 363

Query: 369 VP-------PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
           VP        +KEQ  I  +++      + + E + + I L +++
Sbjct: 364 VPYPKDHEKSLKEQARIVEILDKFDTLTNSITEGLPREIELRQKQ 408


>gi|126175911|ref|YP_001052060.1| restriction modification system DNA specificity subunit [Shewanella
           baltica OS155]
 gi|125999116|gb|ABN63191.1| restriction modification system DNA specificity domain [Shewanella
           baltica OS155]
          Length = 427

 Score =  122 bits (305), Expect = 1e-25,   Method: Composition-based stats.
 Identities = 58/412 (14%), Positives = 122/412 (29%), Gaps = 24/412 (5%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLP 65
            + ++KD+        P+ W             G+  +  + +       +  G   +  
Sbjct: 14  RFSEFKDA--------PE-WSPTTFGATATFINGKAYKQEELLENGKYRVLRVGNF-FTN 63

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ 125
           K+      +         G +LY          I      I       +  K  + +   
Sbjct: 64  KEWYFSDLELDENKYCDNGDLLYAWS-ASFGPRIWLGEKVIYHYHIWKVLEKKHIDKNFL 122

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPP-LAEQVLIREKIIAETVRIDTL 184
             LL  +  +   A   G  + H     I N    IP  + EQ  I   + +        
Sbjct: 123 FILLDYETERMKAATANGLGLMHITKSSIENWKCCIPSSIEEQKKIANSLSSLDEL---- 178

Query: 185 ITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTEL 244
           I+   +  + LK  K+ L+  +         K++    E+ G      ++K    LV+ L
Sbjct: 179 ISAHTQKFDTLKAYKKGLMQQLFPAEGETVPKLRFP--EFQGE-WRKTQLKKLGELVSGL 235

Query: 245 NRKNTKLIESNILSLSYGNIIQKLET-RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKR 303
                 + +S +L L   N+   + + ++      + +   +    +I+    +      
Sbjct: 236 TYSPADVRDSGLLVLRSSNVKNGIISLKDNVYVTPNVKGANLSKANDILICVRNGSKALI 295

Query: 304 SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVK 363
              +       + T            + ++  L ++    K   A       S+      
Sbjct: 296 GKNALIPEGMPVCTHGAFMTVFRSPSAKFVFQLFQTNAYQKQVDADLGATINSINGRHFI 355

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           +    VP   EQ  I + +    + ID L+      I  LK  +   +    
Sbjct: 356 KYEFYVPESFEQQKIADCL----SSIDELITAQSHKIDALKVHKQGLMQQLF 403


>gi|298384313|ref|ZP_06993873.1| type I restriction-modification enzyme [Bacteroides sp. 1_1_14]
 gi|298262592|gb|EFI05456.1| type I restriction-modification enzyme [Bacteroides sp. 1_1_14]
          Length = 411

 Score =  122 bits (305), Expect = 1e-25,   Method: Composition-based stats.
 Identities = 59/390 (15%), Positives = 130/390 (33%), Gaps = 20/390 (5%)

Query: 20  AIPKHWKVVPIKRFTKL---NTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            IP +W    ++  +          ++   +   + LED+E  T   + K     ++   
Sbjct: 29  EIPDNWVWTTLEEISNYGDCYNVSVTDIADNEWILELEDLEKDTASIIQKLSKKERNIKG 88

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL-LSIDVTQ 135
               F KG +LY KL  YL K ++A   G C+T+ +       +       +  S     
Sbjct: 89  VRHKFKKGDVLYSKLRTYLNKVLVAPKAGYCTTEIIPFNSYCDISTHYLCHVLRSAYFLD 148

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
             +    G  M            +P+PPL+EQ  I  +I      ID +   +      +
Sbjct: 149 YTQQCGYGVKMPRLSTNDACKGMVPLPPLSEQQRIVMEIDKWLALIDQIEQGKADLQNTI 208

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
           K+ K  ++   +   L P     +  I+ +  +   +            +   + +    
Sbjct: 209 KQTKSKILDLAIHGKLVPQDPNDEPAIKLLKRINPDFTPCDNGHYAQLPDS-WSAVPMQM 267

Query: 256 ILSLSYGNIIQKLETRNMGLKP-------ESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
           +  L+ G     +E  N  +K        ++  + + V    ++       + +      
Sbjct: 268 LCYLTDGEKQNGIERINHDVKYLRGERDAKTLTSGKYVAANSLLILVDGENSGEVFRTPI 327

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF--YAMGSGLRQSLKFEDVKRLP 366
              +        +    +        ++++  +L +     +        L  +  K + 
Sbjct: 328 DGYQGSTFKQLLINENMNE------EYVLQVINLHRKVLRESKVGSAIPHLNKKLFKAIE 381

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKI 396
           V +PP  EQ  I   IN     +++++E +
Sbjct: 382 VPIPPYNEQQRIVEAINKAFMSLNLIMESL 411



 Score = 66.0 bits (159), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 34/199 (17%), Positives = 68/199 (34%), Gaps = 11/199 (5%)

Query: 227 LVPDHWEVKPFFALV----TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET 282
            +PD+W       +                   IL L           + +  K  + + 
Sbjct: 29  EIPDNWVWTTLEEISNYGDCYNVSVTDIADNEWILELEDLEKDTASIIQKLSKKERNIKG 88

Query: 283 -YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY-LAWLMRSY 340
                  G++++  +    +K  +      + G  T+  +    +   ST+ L  ++RS 
Sbjct: 89  VRHKFKKGDVLYSKLRTYLNKVLVAP----KAGYCTTEIIPFNSYCDISTHYLCHVLRSA 144

Query: 341 DLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
                    G G+    L   D  +  V +PP+ EQ  I   I+   A ID + +     
Sbjct: 145 YFLDYTQQCGYGVKMPRLSTNDACKGMVPLPPLSEQQRIVMEIDKWLALIDQIEQGKADL 204

Query: 400 IVLLKERRSSFIAAAVTGQ 418
              +K+ +S  +  A+ G+
Sbjct: 205 QNTIKQTKSKILDLAIHGK 223


>gi|292656398|ref|YP_003536295.1| type I restriction-modification system specificity subunit
           [Haloferax volcanii DS2]
 gi|291371824|gb|ADE04051.1| type I restriction-modification system specificity subunit
           [Haloferax volcanii DS2]
          Length = 410

 Score =  122 bits (305), Expect = 1e-25,   Method: Composition-based stats.
 Identities = 60/404 (14%), Positives = 132/404 (32%), Gaps = 22/404 (5%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +PK W+   +    ++  G +                 G  ++     +S +  T    
Sbjct: 5   DLPKGWRQYELGEICEIIMGNSPPGESYNDEGEGVRFLQGQNEFGENTPDSDRFTTEPSR 64

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV--LPELLQGWLLSIDVTQRI 137
           +   G IL       L     AD +         L+PK        L  ++     ++  
Sbjct: 65  MSKNGDILVAIRATPLGIVNQADDEYCVGRGVAALRPKKKKLDGRYLYHYMKYCKESEYW 124

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
             +  G+T        + N+ +P+PPL+EQ  I +K+ +    +D           + + 
Sbjct: 125 RKVSTGSTYPSITKTNLQNLSVPLPPLSEQQKIADKLNSVIRGVDETREVSSDAKVIEEN 184

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
             ++ +S ++               E  G   +  ++     ++   +       E    
Sbjct: 185 LLRSCISGLMP--------------EKEGSTCETVKLDTVCEVILGNSPPGESYNEEGEG 230

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
                   +  E   +  +  +  +  +   G+I+            + +       +  
Sbjct: 231 MRFLQGQKEFGEKTPVSDRYTTDPSK-VGKEGDILIAIRATPL---GIINRSDDTYCLGR 286

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFD 377
                     +D  YL + M+         + GS    S+   +++ LP+ +P I +Q +
Sbjct: 287 GVAGLRPEKNLDGGYLYYYMKIQHGYWEKISKGS-TYPSITKTNLQNLPIPLPKISKQQE 345

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ-ID 420
           I   +    ARID + E  E+   ++     S ++ A  G+ ID
Sbjct: 346 IAERLEYIEARIDDIHEASERMSDIIDVLPESVLSKAFQGELID 389


>gi|323182015|gb|EFZ67426.1| type I restriction enzyme specificity protein [Escherichia coli
           1357]
          Length = 417

 Score =  122 bits (305), Expect = 1e-25,   Method: Composition-based stats.
 Identities = 47/399 (11%), Positives = 121/399 (30%), Gaps = 32/399 (8%)

Query: 26  KVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           + + + +   L  G T    K       DI +  ++D+                      
Sbjct: 14  EWLSLSKVFNLRNGYTPSKTKKEFWENGDIPWFRMDDIRENGRILGNSLQRISSCAVKGG 73

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELL---QGWLLSIDVTQ 135
            +F +  IL          A+I     + + +F  L  K+   +       +     + +
Sbjct: 74  KLFPENSILISTSATIGEHALITVPH-LANQRFTCLALKESYVDCFDIKFLFYYCFSLAE 132

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPP-------LAEQVLIREKIIAETVRIDTLITER 188
                   ++ +  D  G     +P+P        LA Q  I   +   T     L  E 
Sbjct: 133 WCRKNTTMSSFASVDMDGFKKFLIPLPCPDNPEKSLAIQSEIVRILDKFTALTAELTAEL 192

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN 248
               +     +  L+S        P + M   G + +G        +    +        
Sbjct: 193 NMRKKQYNYYRDQLLS--FDNEDVPHLPM---GQKDIGEFIRGGTFQKKDFM-------- 239

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
              +        Y       +     +     +  +    G ++       ++      A
Sbjct: 240 DAGVGCIHYGQIYTYYGTYAKKTKTHISATLAKKCKKAQKGNLIIATTSENDEDVCKAVA 299

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPV 367
            +    I  S+   +  H ++  Y+++  ++           +G   + +  +++ ++ +
Sbjct: 300 WLGSEDIAVSSDACIYKHNLNPKYVSYFFQTEQFQNQKRQYITGAKVRRVNADNLSKILI 359

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
            VP ++ Q  I ++++      + + E + + I L +++
Sbjct: 360 PVPSMEIQERIVSILDKFDTLTNSITEGLPREIALRQKQ 398



 Score = 54.8 bits (130), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 23/202 (11%), Positives = 54/202 (26%), Gaps = 15/202 (7%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES- 279
            +EW+       +V       T    K       +I      +I +        L+  S 
Sbjct: 12  EVEWL----SLSKVFNLRNGYTPSKTKKEFWENGDIPWFRMDDIRENGRILGNSLQRISS 67

Query: 280 --YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
              +  ++     I+        +   +    +  +     A         D  +L +  
Sbjct: 68  CAVKGGKLFPENSILISTSATIGEHALITVPHLANQRFTCLALKESYVDCFDIKFLFYYC 127

Query: 338 RSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-------PIKEQFDITNVINVETARID 390
            S                S+  +  K+  + +P        +  Q +I  +++  TA   
Sbjct: 128 FSLA-EWCRKNTTMSSFASVDMDGFKKFLIPLPCPDNPEKSLAIQSEIVRILDKFTALTA 186

Query: 391 VLVEKIEQSIVLLKERRSSFIA 412
            L  ++          R   ++
Sbjct: 187 ELTAELNMRKKQYNYYRDQLLS 208


>gi|238917452|ref|YP_002930969.1| type I restriction enzyme [Eubacterium eligens ATCC 27750]
 gi|238872812|gb|ACR72522.1| type I restriction enzyme [Eubacterium eligens ATCC 27750]
          Length = 416

 Score =  122 bits (305), Expect = 1e-25,   Method: Composition-based stats.
 Identities = 58/413 (14%), Positives = 146/413 (35%), Gaps = 19/413 (4%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTS--------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           IP  W V+ +  + ++  G +          S + + +I + DV          +     
Sbjct: 10  IPDDWSVITLGNYAQIFRGGSPRPIQAFLTTSDQGVNWIKIGDVGEEDKFIKSTEEKIVP 69

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
              S   +  +G ++      Y R  I+     I     ++ +   V       + LS  
Sbjct: 70  EGVSCSRMVFRGDLILSNSMSYGRPYIMNIEGCIHDGWLVIQKYDRVFDRDYLYYALSSG 129

Query: 133 VTQRIE-AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
           +T +   A+  G+++ + + + +  + +P P ++EQ  I E +      I  L     + 
Sbjct: 130 LTMKQYVAMAAGSSVQNLNKEKVSKVVLPCPRISEQKSIAEVLSDIDTLIIDLKKIIRKK 189

Query: 192 IELLKEKKQALVS-YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
            ++ +   Q LV+      G + +   + + ++ +  +        + A +        +
Sbjct: 190 KDIRQGTMQMLVTGKKRLSGFDGNW--RVTTLDRLCYIVTKQTGFDYSAEIKPSLVTTPQ 247

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
           +     +              +  +  +  E Y  +   E+    I +     ++     
Sbjct: 248 IGTIPFIQNKDFEAFDINYNTDFFIPYDVAEKYPRILLNEVCL-LISISGRIGNVAIFDN 306

Query: 311 MERGIITSAY-MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVL 368
            +      A  +A       +++    + S D  +  ++    G + +L   DV++L + 
Sbjct: 307 EQTSFAGGAVGIAKLYEPELASWCMLYLSSKDGQEQIFSNEKVGAQHNLTVADVRKLEIK 366

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           +P   E+  I  V+      I+VL    E+ +   ++ +   +   +TG++ L
Sbjct: 367 MPAKSEREAIIKVLTDMNDEIEVL----EEKLDKYQKIKQGMMDELLTGKVRL 415



 Score = 64.8 bits (156), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 32/171 (18%), Positives = 64/171 (37%), Gaps = 8/171 (4%)

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
           + I     G   + +++    + PE     ++V  G+++            +     +  
Sbjct: 46  NWIKIGDVGEEDKFIKSTEEKIVPEGVSCSRMVFRGDLILSNSMSYGRPYIMNIEGCIHD 105

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRS-YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI 372
           G +    +       D  YL + + S   + +          Q+L  E V ++ +  P I
Sbjct: 106 GWL---VIQKYDRVFDRDYLYYALSSGLTMKQYVAMAAGSSVQNLNKEKVSKVVLPCPRI 162

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
            EQ  I  V++     ID L+  +++ I   K+ R   +   VTG+  L G
Sbjct: 163 SEQKSIAEVLSD----IDTLIIDLKKIIRKKKDIRQGTMQMLVTGKKRLSG 209


>gi|320526801|ref|ZP_08027991.1| type I restriction modification DNA specificity domain protein
           [Solobacterium moorei F0204]
 gi|320132769|gb|EFW25309.1| type I restriction modification DNA specificity domain protein
           [Solobacterium moorei F0204]
          Length = 395

 Score =  121 bits (304), Expect = 2e-25,   Method: Composition-based stats.
 Identities = 50/403 (12%), Positives = 122/403 (30%), Gaps = 24/403 (5%)

Query: 28  VPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKY--LPKDGNSRQSDTSTVS 79
                  +L  G T ++ K      DI ++ ++D  +G        K       + S+  
Sbjct: 3   CKFSDVMELIGGGTPKTSKPEYWNGDIPWLSVKDFNNGFRYVYETEKSITQSGLENSSTK 62

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           +  +G ++    G   + A +  F    +     L+ ++ +      + L       ++ 
Sbjct: 63  LLQRGDVIVSARGTVGKIATVP-FPMAFNQSCYGLRARNGIVTSDYLYYLIKHNVSVLKK 121

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
              G+           NI + IP +  Q  I   +     +++            L+++ 
Sbjct: 122 NTHGSVFDTITRNTFENIEVEIPSIEIQEKIASILGDYDKKME----LNNAINNNLEQQV 177

Query: 200 QALV-SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
           QA+  S  V           D  I  +  +          +        +   I    + 
Sbjct: 178 QAIFKSRFVDFEPFDKTMPSDWTIGTIDDLAKEVVCGKTPSTKKTKYYGSD--IPFITIP 235

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
             +         R +       +  +I+    +    I        +       + I + 
Sbjct: 236 DMHKTFYTVTTERYLSKLGADSQAKKILPKNSVCVSCIGTAGLVTLVAEESQTNQQINS- 294

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
               +   G  S Y+  LM++                +L      ++PV++P +      
Sbjct: 295 ---IIPKDGFSSYYIYLLMQTLSDTINKLGQSGSTIVNLNKSQFGKIPVIIPTLSAMTKF 351

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
               +   + I   + + ++  + L   R + +   ++G+ID+
Sbjct: 352 ----DETASPIFEKILQNQKENLNLASLRDTLLPKLMSGEIDV 390



 Score = 54.8 bits (130), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 33/191 (17%), Positives = 64/191 (33%), Gaps = 9/191 (4%)

Query: 22  PKHWKVVPIKRFT-KLNTGRTSESGK------DIIYIGLEDV-ESGTGKYLPKDGNSRQS 73
           P  W +  I     ++  G+T  + K      DI +I + D+ ++       +  +   +
Sbjct: 196 PSDWTIGTIDDLAKEVVCGKTPSTKKTKYYGSDIPFITIPDMHKTFYTVTTERYLSKLGA 255

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
           D+    I  K  +    +G       +   +   + Q   + PKD         L+    
Sbjct: 256 DSQAKKILPKNSVCVSCIG-TAGLVTLVAEESQTNQQINSIIPKDGFSSYYIYLLMQTLS 314

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
               +    G+T+ + +    G IP+ IP L+      E       +I     E +    
Sbjct: 315 DTINKLGQSGSTIVNLNKSQFGKIPVIIPTLSAMTKFDETASPIFEKILQNQKENLNLAS 374

Query: 194 LLKEKKQALVS 204
           L       L+S
Sbjct: 375 LRDTLLPKLMS 385


>gi|166368439|ref|YP_001660712.1| restriction modification system DNA specificity subunit
           [Microcystis aeruginosa NIES-843]
 gi|166090812|dbj|BAG05520.1| restriction modification system DNA specificity domain [Microcystis
           aeruginosa NIES-843]
          Length = 395

 Score =  121 bits (304), Expect = 2e-25,   Method: Composition-based stats.
 Identities = 58/408 (14%), Positives = 131/408 (32%), Gaps = 27/408 (6%)

Query: 23  KHWKVVPIKRFTKLNTGRTS--------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           K W  V +    ++  G +         E    + ++ + D    +           ++ 
Sbjct: 2   KDWPSVALGDIFEIARGGSPRPIQNFLTEEPDGVNWVMIGDASDSSKYITHTKKRILKTG 61

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPE-LLQGWLLSIDV 133
                +   G  L      +    I+     I     ++   K V+ +      L S  +
Sbjct: 62  VKNSRMVYPGDFLLTNSMSFGHPYIMKTSGCIHDGWLVLSNKKGVIDQDYFYHLLGSDLI 121

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
                 +  G+T+ + + + +  I + +PPL EQ  I   +                  E
Sbjct: 122 YAEFSRLASGSTVKNLNIEIVKGIKVSLPPLEEQRRIAAILDKADGVRRKRKEAIRLTEE 181

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
           L       L S  +    +P    K   ++ +G +  +++           +      I 
Sbjct: 182 L-------LKSTFLEMFGDPVTNPKGWEVKRLGEICTNFQNGIGKNSEHYGHGSKVANIS 234

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
                  +      L    + + P+  E Y ++    +  R    +            E 
Sbjct: 235 DLYEWHRFIPEKYSL----LDVTPKEIEKYSLMRGDLLFVRSSVKREGVAVCSVYDSDEI 290

Query: 314 GIITSAYMAVKP--HGIDSTYLAWLMRSYDLCK-VFYAMGSGLRQSLKFEDVKRLPVLVP 370
            + +S  + V+P    I+  +L+ ++R+  +   +     +    ++    + ++ V+VP
Sbjct: 291 CLFSSFMIRVRPRTDLINPEFLSLMLRTPPMRNRLILGSNTSTITNISQPGLSKIEVVVP 350

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           PIK Q  I       T  I+  V    Q++   +   +S +  A  G+
Sbjct: 351 PIKTQNLI----TKVTKNIEESVRCHLQALEQSENLFNSLLQRAFRGE 394



 Score = 49.8 bits (117), Expect = 9e-04,   Method: Composition-based stats.
 Identities = 28/203 (13%), Positives = 69/203 (33%), Gaps = 18/203 (8%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIG----LEDVESGTGKYLPKDG--NSRQSDT 75
           PK W+V  +            ++ +   +      + D+         K    +    + 
Sbjct: 198 PKGWEVKRLGEICTNFQNGIGKNSEHYGHGSKVANISDLYEWHRFIPEKYSLLDVTPKEI 257

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIA-----DFDGICSTQFLVLQPKDVLPELLQ--GWL 128
              S+   G +L+ +         +      D   + S+  + ++P+  L         L
Sbjct: 258 EKYSLMR-GDLLFVRSSVKREGVAVCSVYDSDEICLFSSFMIRVRPRTDLINPEFLSLML 316

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
            +  +  R+      +T+++    G+  I + +PP+  Q LI +     T  I+  +   
Sbjct: 317 RTPPMRNRLILGSNTSTITNISQPGLSKIEVVVPPIKTQNLITKV----TKNIEESVRCH 372

Query: 189 IRFIELLKEKKQALVSYIVTKGL 211
           ++ +E  +    +L+       L
Sbjct: 373 LQALEQSENLFNSLLQRAFRGEL 395


>gi|91775569|ref|YP_545325.1| restriction modification system DNA specificity subunit
           [Methylobacillus flagellatus KT]
 gi|91709556|gb|ABE49484.1| restriction modification system DNA specificity domain
           [Methylobacillus flagellatus KT]
          Length = 427

 Score =  121 bits (304), Expect = 2e-25,   Method: Composition-based stats.
 Identities = 54/409 (13%), Positives = 120/409 (29%), Gaps = 31/409 (7%)

Query: 25  WKVVPIKRFTKLNTGRTSESG-KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           W   P+ +  + +T + ++     ++    E        +  KD  + Q +     I   
Sbjct: 24  WSFQPLGKLARRSTKKNADGDITRVLTNSAEYGVIDQRDFFDKDI-ANQGNLEGYYIVEM 82

Query: 84  GQILYGKL----GPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL---LSIDVTQR 136
           G  +Y        P    +      G+ S  + V +  D   +    +          ++
Sbjct: 83  GDYVYNPRVSVRAPVGPISKNRIGLGVMSPLYTVFRFGDKQNDFYAHYFKSTHWHHYMRQ 142

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
             +                 +P+P+    EQ  I + +      +D +I    + ++ LK
Sbjct: 143 ASSTGARHDRMSITNDDFMALPLPVSKPEEQQKIADCL----TSLDEVIAAENQKLDTLK 198

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
             K+ L+  +  +      +++       G     W  KP   +   L       +    
Sbjct: 199 TYKKGLMQQLFPREGETVPRLRFPEFRETGE----WCEKPLSKVCNVLQGYGFPEVLQGK 254

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
               Y        +R +  K    +        + + +       K +   A++ E   +
Sbjct: 255 SEGKYPFCKVSDISRAVAEKGGVLDEATNYVGDDELLKLKAKPVPKGATVFAKIGEALRL 314

Query: 317 TSAYMAVKPHGIDSTYLA----------WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLP 366
                  K   ID+              + +              G   S+    ++ + 
Sbjct: 315 NRRAYVQKACLIDNNATGLKAIDGIADDYFVYLLSQLIDLNRHCGGAVPSVNKTTLEEIE 374

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           V+VP + EQ  I   +    + +D L+    Q I  LK  +   +    
Sbjct: 375 VVVPGLDEQKRIAENL----SSLDDLITTQSQKIDALKNHKKGLMQQLF 419


>gi|213961929|ref|ZP_03390194.1| restriction modification system DNA specificity domain protein
           [Capnocytophaga sputigena Capno]
 gi|213955282|gb|EEB66599.1| restriction modification system DNA specificity domain protein
           [Capnocytophaga sputigena Capno]
          Length = 384

 Score =  121 bits (304), Expect = 2e-25,   Method: Composition-based stats.
 Identities = 62/409 (15%), Positives = 139/409 (33%), Gaps = 43/409 (10%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYLPKDGNSRQS 73
           IPKHWK+  +     +++G T            DI ++   D+ +       +  +    
Sbjct: 5   IPKHWKIKKLGEIANISSGTTPFRKNPLFYDNADIPWVKTTDLNNSYITTTEEKVSMYAL 64

Query: 74  DTSTVSIFAKGQILYGKLGPY--LRKAIIADFDGICSTQFLVLQPKDVL-PELLQGWLLS 130
           + +++ ++    +L    G +  + +      +   +     L  K+         + L+
Sbjct: 65  NNTSLRLYPTNTVLVAMYGGFNQIGRTGKLAMEATINQALSALVLKNDDVNSDYLLFWLN 124

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
            +V +            + + K +    + IPPL EQ  I E ++      D  I    +
Sbjct: 125 TNVEKWKRFAGSSRKDPNINGKDVAEFSILIPPLKEQEKIAEMLL----TCDKAIRLTTQ 180

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
            I  LK++ Q L   ++T                 G     W+      L+      N  
Sbjct: 181 IITQLKQRNQGLAQQLLTG-----------EKRVKGFENSVWKEVRLGELLDYEQPTNYL 229

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
           +  ++  +     ++   +T  +G   E       +     +  F D   D R +     
Sbjct: 230 VKNTDYSNEYKIPVLTAGKTFILGYTNEKEGICTNIP----LILFDDFTTDSRYI---DF 282

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP 370
             +   ++  +      ++   L ++  +  L K       G  +         L + VP
Sbjct: 283 PFKVKSSAVKLLKTKKNVN---LRFIFEAMKLIKY----AIGGHERHWISKYAFLTIFVP 335

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
             KEQ  I  +++     +    +  EQ + LL+ ++ + +   +TG++
Sbjct: 336 SFKEQNAIAQILDTAHQEL----KLYEQKLQLLQAQKKTLMQKLLTGEV 380



 Score = 87.2 bits (214), Expect = 4e-15,   Method: Composition-based stats.
 Identities = 30/206 (14%), Positives = 67/206 (32%), Gaps = 13/206 (6%)

Query: 229 PDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ---- 284
           P HW++K    +    +              +    ++  +  N  +     +       
Sbjct: 6   PKHWKIKKLGEIANISSGTTPFRKNPLFYDNADIPWVKTTDLNNSYITTTEEKVSMYALN 65

Query: 285 -----IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
                +     ++       N         +        + + +K   ++S YL + + +
Sbjct: 66  NTSLRLYPTNTVLVAMYGGFNQIGRTGKLAMEATINQALSALVLKNDDVNSDYLLFWLNT 125

Query: 340 YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
                  +A  S    ++  +DV    +L+PP+KEQ  I  ++       D  +    Q 
Sbjct: 126 NVEKWKRFAGSSRKDPNINGKDVAEFSILIPPLKEQEKIAEMLLT----CDKAIRLTTQI 181

Query: 400 IVLLKERRSSFIAAAVTGQIDLRGES 425
           I  LK+R        +TG+  ++G  
Sbjct: 182 ITQLKQRNQGLAQQLLTGEKRVKGFE 207


>gi|255658633|ref|ZP_05404042.1| putative phosphoribosylformylglycinamidine synthase [Mitsuokella
           multacida DSM 20544]
 gi|260849007|gb|EEX69014.1| putative phosphoribosylformylglycinamidine synthase [Mitsuokella
           multacida DSM 20544]
          Length = 489

 Score =  121 bits (304), Expect = 2e-25,   Method: Composition-based stats.
 Identities = 64/424 (15%), Positives = 122/424 (28%), Gaps = 55/424 (12%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSE----SGKDIIYIGLEDVESGTGKYLPKDGNSRQS-- 73
            IP++W    ++      T  T +      + I ++ ++++ +    +      S     
Sbjct: 66  DIPENWVWTRLEEILLSLTDGTHKTPVYKNEGIPFLSVKNISNHKIDFSNIKYISIDEHK 125

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIA--DFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
                    KG IL  K+G      II       I  +  L+     +  + L   L S 
Sbjct: 126 KLCERCYPKKGDILLSKVGTTGIPVIIDTEKEFSIFVSVALLKFSSSIDAKYLLFLLESP 185

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            V ++      G    +     I N  +P+PPLAEQ  I  KI      ID     + + 
Sbjct: 186 LVQEQCRTHTRGIGNKNWVLTDIANTIVPLPPLAEQHRIVAKIEELQPDIDAYDKAQTKL 245

Query: 192 IELLKE----KKQALVSYIVTKGLNPDVK------------------------------- 216
             + +      K++L+ Y +   L P  K                               
Sbjct: 246 QSIEQSFPDAMKKSLLQYAIEGKLVPQRKEEGTAKDLLAKIRAEKARLVKEKKIKKSKPL 305

Query: 217 MKDSGIEWVGLVPDHWEVKPFFALVTELN-----RKNTKLIESNILSLSYGNIIQKLETR 271
              +  E    +PD WE      L    +     R++ +     I  L  G++       
Sbjct: 306 PAITDDEKPFDIPDSWEWVRLGELGEWCSGATPSRQHPEYFGGKIPWLKTGDLNDGYIKE 365

Query: 272 NMGLKPES---YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
                 +      + +I   G ++         K  +             A  A +    
Sbjct: 366 VPEYITDDGFKNSSTKINPIGSVLIAMYGATIGKLGILKI----PATTNQACCACELVHE 421

Query: 329 DSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
                 +     +          G + ++    +    + +PP+ EQ+ I   +      
Sbjct: 422 MYNKYLFYFLFANRKYFIKKGAGGAQPNISKAKITNTVMPLPPLAEQYRIVAKLEELLPL 481

Query: 389 IDVL 392
              L
Sbjct: 482 CQQL 485



 Score = 84.5 bits (207), Expect = 3e-14,   Method: Composition-based stats.
 Identities = 38/213 (17%), Positives = 74/213 (34%), Gaps = 17/213 (7%)

Query: 220 SGIEWVGLVPDHWEVKPFFALV---TELNRKNTKLIESNILSLSYGNIIQ-KLETRNMGL 275
           S  +    +P++W       ++   T+   K        I  LS  NI   K++  N+  
Sbjct: 59  SMDDLPFDIPENWVWTRLEEILLSLTDGTHKTPVYKNEGIPFLSVKNISNHKIDFSNIKY 118

Query: 276 KPESYET----YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST 331
                            G+I+   +        +      E  I  S  +      ID+ 
Sbjct: 119 ISIDEHKKLCERCYPKKGDILLSKVGTTGIPVII--DTEKEFSIFVSVALLKFSSSIDAK 176

Query: 332 YLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
           YL +L+ S  + +       G+  ++    D+    V +PP+ EQ  I   I      ID
Sbjct: 177 YLLFLLESPLVQEQCRTHTRGIGNKNWVLTDIANTIVPLPPLAEQHRIVAKIEELQPDID 236

Query: 391 VLVEKIEQSIVLLKE-----RRSSFIAAAVTGQ 418
              +K +  +  +++      + S +  A+ G+
Sbjct: 237 AY-DKAQTKLQSIEQSFPDAMKKSLLQYAIEGK 268


>gi|84616898|emb|CAJ13792.1| type I restriction-modification system, S subunit [Desulfococcus
           multivorans]
          Length = 575

 Score =  121 bits (304), Expect = 2e-25,   Method: Composition-based stats.
 Identities = 74/510 (14%), Positives = 149/510 (29%), Gaps = 101/510 (19%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDII---YIGLEDVE 57
           +K  K  P  K   V +   +P+ W+ V +                D      +  + V 
Sbjct: 69  IKKPKPLPSIKPEEVPY--ELPQGWEWVRLGDICSYIQRGKGPKYVDFSTHRVVSQKCVR 126

Query: 58  SGTGKYLPKDGNSRQ--SDTSTVSIFAKGQILYGKLGP--YLRKAIIADF----DGICST 109
                  P              +     G +L+   G     R  ++       + +  +
Sbjct: 127 WYGLDLEPARYIDPASLEKYEPIRFLRVGDLLWNSTGTGTIGRACLVPQELEGVEVVADS 186

Query: 110 QFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQV 168
              V++P +V P  L  W+ S  V   IE    G T     +   + N  MP+PP +EQ 
Sbjct: 187 HVTVVRPIEVRPLFLWRWIQSPIVQNAIEGSASGTTNQIELNTSTVINHLMPLPPPSEQH 246

Query: 169 LIREKIIAETVR-------------------------------------IDTLITERIRF 191
            I  +I     R                                     I     E    
Sbjct: 247 RIVARIDQLMARCDELEKLRKEREEKRLAVHAAAIKQLLDAPNGSAWDFIQQNFGELYTV 306

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLV----------------------- 228
            E + E ++A++   V   L P      S  E +  +                       
Sbjct: 307 KENVAELRKAILQLAVMGRLVPQNPNDPSASELLKEIEAEKQRLVKSKQLKIGQKTEDTK 366

Query: 229 --------PDHWEVKPFFALVTEL------NRKNTKLIESNILSLSYGNIIQKLETRNMG 274
                   P+ WE      ++           K   L +   + +     +++       
Sbjct: 367 FICHDTAIPETWEWVKGLDILFITKLAGFEYTKYVNLQDEGEIPVIRAQNVRQFSIDTTN 426

Query: 275 LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG--------IITSAYMAVKPH 326
           LK    +T ++++   +    + +      +    + E+         +           
Sbjct: 427 LKYIDLKTSELLERCALTKPALLVTFIGAGIGDVALFEKNERWHLAPNVAKMEPFVGCES 486

Query: 327 GIDSTYLAWLMRSYDLCKVFYAM-GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
            ++  YL + + S    +  +    S  + S+    ++ +   +PP+ EQ  I + I+  
Sbjct: 487 KLNLRYLNYFLLSPLGRREIFKHLKSTAQPSISMGTIRDIDYPLPPLPEQHRIVDRIDHL 546

Query: 386 TARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            A  D L    +Q I    E++++ + A +
Sbjct: 547 MALCDTL----DQQIDSATEKQTALLNAVM 572



 Score = 50.9 bits (120), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 33/201 (16%), Positives = 64/201 (31%), Gaps = 16/201 (7%)

Query: 21  IPKHWKVVPIKRF--------TKLNTGRTSESGKDIIYIGLEDVESGTGKYLP-KDGNSR 71
           IP+ W+ V              +       +   +I  I  ++V   +      K  + +
Sbjct: 374 IPETWEWVKGLDILFITKLAGFEYTKYVNLQDEGEIPVIRAQNVRQFSIDTTNLKYIDLK 433

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFD-------GICSTQFLVLQPKDVLPELL 124
            S+        K  +L   +G  +    + + +        +   +  V     +    L
Sbjct: 434 TSELLERCALTKPALLVTFIGAGIGDVALFEKNERWHLAPNVAKMEPFVGCESKLNLRYL 493

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
             +LLS    + I    +           I +I  P+PPL EQ  I ++I       DTL
Sbjct: 494 NYFLLSPLGRREIFKHLKSTAQPSISMGTIRDIDYPLPPLPEQHRIVDRIDHLMALCDTL 553

Query: 185 ITERIRFIELLKEKKQALVSY 205
             +     E       A+++ 
Sbjct: 554 DQQIDSATEKQTALLNAVMAQ 574


>gi|154249203|ref|YP_001410028.1| restriction modification system DNA specificity subunit
           [Fervidobacterium nodosum Rt17-B1]
 gi|154153139|gb|ABS60371.1| restriction modification system DNA specificity domain
           [Fervidobacterium nodosum Rt17-B1]
          Length = 429

 Score =  121 bits (304), Expect = 2e-25,   Method: Composition-based stats.
 Identities = 57/423 (13%), Positives = 142/423 (33%), Gaps = 35/423 (8%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKY---LPKDGNSRQSDTSTVS 79
           + WK V +     ++        +      +       G +   + +   +R+ +++   
Sbjct: 9   EGWKRVKLGEVLSISR---IPDNEKDPNKRITVRLWNKGVFAREVREVELNREKESTIYY 65

Query: 80  IFAKGQILYGKLGPYLRK--AIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
               GQ +YGK          I  + DG CST  +         ++         + +  
Sbjct: 66  KRKAGQFIYGKQNLVRGAFGVIPPELDGYCSTSDVPSFDVSKNLDVYYLDYTLRTLYKAF 125

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
               +G        K   +  + +PP+ EQ  I E +      I+       ++  + + 
Sbjct: 126 SLYEKGTGSKRVHEKDFLSFEIFLPPIFEQQKIAEILKTVDRAIEKTGKIIEKYKRIKQG 185

Query: 198 KKQALVSYIVT---KGLNPDVKMKDSGIEW-----VGLVPDHWEVKPFFALVTELNRKNT 249
             Q L++  V    +G +   ++++  I+      +G +P+ WEV         ++    
Sbjct: 186 LMQDLLTKGVVSEGEGESEKWRLRNEKIDKFKDSPLGRIPEEWEVVRLGETGRIVSGATP 245

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYET----------YQIVDPGEIVFRFIDLQ 299
              +    +     +     ++       S              +I+    IV       
Sbjct: 246 DTSKPQFWNGDIVWVTPDDLSKQKKYIYTSQRKISKDGLNSCAAKIIPRDSIVLSSRAPI 305

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKF 359
                +++     +G  +   + +  +  D  +  + +  Y + K+           +  
Sbjct: 306 GYLSIVKTNYATNQGCKS---IILNKNYYDEDFFYYCLHRY-INKMISLGSGTTFNEISK 361

Query: 360 EDVKRLPVLVPPI-KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
             + +L V VP +  EQ  I +++    ++ID ++EK +     L+  +   +   +TG+
Sbjct: 362 SQLAKLEVKVPCLLSEQHRIASIL----SQIDEVIEKEQAYKEKLERVKKGLMEDLLTGK 417

Query: 419 IDL 421
           + +
Sbjct: 418 VRV 420



 Score = 76.4 bits (186), Expect = 8e-12,   Method: Composition-based stats.
 Identities = 34/211 (16%), Positives = 77/211 (36%), Gaps = 15/211 (7%)

Query: 8   PQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTG 61
            ++KDS    +G IP+ W+VV +    ++ +G T ++ K      DI+++  +D+ S   
Sbjct: 214 DKFKDSP---LGRIPEEWEVVRLGETGRIVSGATPDTSKPQFWNGDIVWVTPDDL-SKQK 269

Query: 62  KYLPKDGNSRQSDTST---VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKD 118
           KY+         D        I  +  I+     P    +I+       +     +    
Sbjct: 270 KYIYTSQRKISKDGLNSCAAKIIPRDSIVLSSRAPIGYLSIVKTNYA-TNQGCKSIILNK 328

Query: 119 VLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPP-LAEQVLIREKIIAE 177
              +    +        ++ ++  G T +      +  + + +P  L+EQ  I   +   
Sbjct: 329 NYYDEDFFYYCLHRYINKMISLGSGTTFNEISKSQLAKLEVKVPCLLSEQHRIASILSQI 388

Query: 178 TVRIDTLITERIRFIELLKEKKQALVSYIVT 208
              I+     + +   + K   + L++  V 
Sbjct: 389 DEVIEKEQAYKEKLERVKKGLMEDLLTGKVR 419


>gi|187779295|ref|ZP_02995768.1| hypothetical protein CLOSPO_02891 [Clostridium sporogenes ATCC
           15579]
 gi|187772920|gb|EDU36722.1| hypothetical protein CLOSPO_02891 [Clostridium sporogenes ATCC
           15579]
          Length = 408

 Score =  121 bits (303), Expect = 2e-25,   Method: Composition-based stats.
 Identities = 66/390 (16%), Positives = 140/390 (35%), Gaps = 27/390 (6%)

Query: 25  WKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           W+   +   TK  +G T   GK      DI +I   ++ S +        + +  ++S+ 
Sbjct: 20  WEQRKLGEVTKSYSGGTPSVGKSQYYDGDIPFIRSAEINSDS---TELYISEKGLNSSSA 76

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
                G ILY   G    +  I+  +G  +   L +QP+           L     +  +
Sbjct: 77  KKVKVGDILYALYGATSGEVGISRINGAINQAILAIQPEKGYNSQFIMQWLRGQKQKITD 136

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
              +G    +     + ++P+  P   EQ  I     +        IT   R +  L++K
Sbjct: 137 KYLQG-GQGNLSGSIVKDLPIEFPSYDEQYKIGTYFNSLDQL----ITLHQRKLNHLQDK 191

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
           K++L+  +  K      +++  G        +  ++       TE N       +  + +
Sbjct: 192 KKSLLQKMFPKNGEKFPELRFPG---FTDPWEQRKLGELLIPSTEKNNTGKYTQDDVLAA 248

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
                + +K     +    ES + Y+IV+ G++++    ++     +        GI+ S
Sbjct: 249 SLGTELTKKHIFFGLRSTEESIKNYRIVNKGDVIYTKSPIKGYPNGIIKTNKGIEGIVPS 308

Query: 319 AYMAVKPHGIDSTYLA--WLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLP--VLVP-PI 372
            Y         ++ +   +      L    Y + + G R ++   D+  L   + VP  I
Sbjct: 309 LYCVYNSVSDVNSRIIQSYFEDKSRLDSYLYPLVNVGARNNVNITDLGFLEGNICVPQDI 368

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVL 402
            EQ  I + I     ++  L+   ++ +  
Sbjct: 369 NEQNRIVDFIE----KLSNLITLHQRKLNH 394



 Score = 83.7 bits (205), Expect = 5e-14,   Method: Composition-based stats.
 Identities = 26/167 (15%), Positives = 61/167 (36%), Gaps = 8/167 (4%)

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
             ++  + +I  +    I        +  K  +  + + V  G+I++      + +  + 
Sbjct: 40  GKSQYYDGDIPFIRSAEINSDSTELYISEKGLNSSSAKKVKVGDILYALYGATSGEVGIS 99

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLP 366
                  G I  A +A++P    ++            K+      G + +L    VK LP
Sbjct: 100 RI----NGAINQAILAIQPEKGYNSQFIMQWLRGQKQKITDKYLQGGQGNLSGSIVKDLP 155

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           +  P   EQ+ I          +D L+   ++ +  L++++ S +  
Sbjct: 156 IEFPSYDEQYKIGTY----FNSLDQLITLHQRKLNHLQDKKKSLLQK 198


>gi|330971615|gb|EGH71681.1| restriction modification system DNA specificity domain-containing
           protein [Pseudomonas syringae pv. aceris str. M302273PT]
          Length = 233

 Score =  121 bits (303), Expect = 2e-25,   Method: Composition-based stats.
 Identities = 54/221 (24%), Positives = 89/221 (40%), Gaps = 15/221 (6%)

Query: 217 MKDSGIEWVGLVPDHWEVKPFFALVTELNRK----NTKLIESNILSLSYGNIIQKLETRN 272
           M++SG+EW+G VP HW+V       +    K          S +  L   ++       N
Sbjct: 1   MEESGVEWLGEVPAHWQVCKLSFRYSVELGKMLDEKKNTGTSPLPYLRNQDVQWGSININ 60

Query: 273 ----MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
               + ++   YE Y  V  G+++             R      R     A   ++P   
Sbjct: 61  GLPLIDIESSEYERYT-VRLGDLLVCEGGDVGRAAIWRIKNS--RIGYQKALHRLRPESP 117

Query: 329 DSTYLAWLMRSYDLCKVF----YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
                 +   S    K       +        L  E  ++     PPI++Q +I +V+  
Sbjct: 118 SRDTAEFFFYSLMAAKALGVLEESDTKATISHLPAEKFRQYRFAFPPIEDQQEIASVLGE 177

Query: 385 ETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGES 425
           +  R D ++   E  I+LL+ERRS+ I+AAVTG+ID+RG  
Sbjct: 178 KLKRSDEIISYAENMIMLLRERRSALISAAVTGKIDVRGWQ 218



 Score = 91.8 bits (226), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 45/213 (21%), Positives = 84/213 (39%), Gaps = 10/213 (4%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIK-----RFTKLNTGRTSESGKDIIYIGLEDVESGTGKYL 64
            ++SGV+W+G +P HW+V  +         K+   + +     + Y+  +DV+ G+    
Sbjct: 1   MEESGVEWLGEVPAHWQVCKLSFRYSVELGKMLDEKKNTGTSPLPYLRNQDVQWGSININ 60

Query: 65  PKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPE-- 122
                  +S          G +L  + G   R AI    +     Q  + + +   P   
Sbjct: 61  GLPLIDIESSEYERYTVRLGDLLVCEGGDVGRAAIWRIKNSRIGYQKALHRLRPESPSRD 120

Query: 123 ---LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
                   L++      +E     AT+SH   +         PP+ +Q  I   +  +  
Sbjct: 121 TAEFFFYSLMAAKALGVLEESDTKATISHLPAEKFRQYRFAFPPIEDQQEIASVLGEKLK 180

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVTKGLN 212
           R D +I+     I LL+E++ AL+S  VT  ++
Sbjct: 181 RSDEIISYAENMIMLLRERRSALISAAVTGKID 213


>gi|319788898|ref|YP_004090213.1| restriction modification system DNA specificity domain
           [Ruminococcus albus 7]
 gi|315450765|gb|ADU24327.1| restriction modification system DNA specificity domain
           [Ruminococcus albus 7]
          Length = 498

 Score =  121 bits (303), Expect = 3e-25,   Method: Composition-based stats.
 Identities = 53/443 (11%), Positives = 133/443 (30%), Gaps = 65/443 (14%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTS--------ESGKDIIYIGLEDVESGTGKYLPKDGNSR 71
            +P+ W+   +   + +  G +         +    I +I + D E             +
Sbjct: 56  ELPEGWRWDRLGNVSIIARGGSPRPIESYITDDENGINWIKIGDTEKDGKYIFKTKEKIK 115

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
               S       G  L      + R  I+     I     ++     V  +    + LS 
Sbjct: 116 PEGLSKSRYVESGDFLLTNSMSFGRPYILRTDGCIHDGWLVIGNIDTVFNQDFLYYALSS 175

Query: 132 DVTQRIEA-ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
           D   +  + +  G+T+ +     + ++  PIPP+ EQ  I EK+ +    +  + +++  
Sbjct: 176 DFMYQTLSLLAAGSTVKNLKSDTVKSVLFPIPPMREQKRIAEKLDSLISFVIKIESDKTD 235

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVK---------------------------------- 216
               ++  K  ++   +   L P                                     
Sbjct: 236 LQTTIQLTKSKILDLAIRGKLVPQNPDDEPASVLLERIRAEKEELIKQGKIKRDKKESVI 295

Query: 217 ---MKDSGIEWVG------------LVPDHWEVKPFFALVTELNRKNT-----KLIESNI 256
                +S  E +G             +PD W  +    + +    K       +   ++ 
Sbjct: 296 FRGDDNSYYETIGSETTNIDDKIPFDLPDGWSFERLCNIASFSGGKTPSTSKDEYWGNDY 355

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
             ++  ++  K    +     E       +   + +         + +L  A +  +  I
Sbjct: 356 FWITSKDMKSKYIDSSQISLSEKGAEIMQIIAPDTLLLVARSGILRHTLPVAILKRQATI 415

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA--MGSGLRQSLKFEDVKRLPVLVPPIKE 374
                A+  +        +         +           +++ F++ K + + +PP+ E
Sbjct: 416 NQDIKAISIYNTSLVEFIYTFLKGMENSILLRYTKSGTTVENINFDEFKSIVIPIPPLNE 475

Query: 375 QFDITNVINVETARIDVLVEKIE 397
           Q  I + ++   + +D + E + 
Sbjct: 476 QKRIADKVSQLFSLLDSIAENVN 498



 Score = 76.4 bits (186), Expect = 7e-12,   Method: Composition-based stats.
 Identities = 37/226 (16%), Positives = 82/226 (36%), Gaps = 20/226 (8%)

Query: 207 VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII- 265
           +     PD  +K    E    +P+ W       +       + + IES I     G    
Sbjct: 36  LHYEKFPDGSVKCIEDEIPFELPEGWRWDRLGNVSIIARGGSPRPIESYITDDENGINWI 95

Query: 266 ---------QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
                    + +      +KPE     + V+ G+ +            LR+   +  G +
Sbjct: 96  KIGDTEKDGKYIFKTKEKIKPEGLSKSRYVESGDFLLTNSMSFGRPYILRTDGCIHDGWL 155

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQ 375
               +       +  +L + + S  + +    + +G   ++LK + VK +   +PP++EQ
Sbjct: 156 ---VIGNIDTVFNQDFLYYALSSDFMYQTLSLLAAGSTVKNLKSDTVKSVLFPIPPMREQ 212

Query: 376 FDITNVINVETA---RIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
             I   ++   +   +I+     ++ +I L    +S  +  A+ G+
Sbjct: 213 KRIAEKLDSLISFVIKIESDKTDLQTTIQLT---KSKILDLAIRGK 255


>gi|242278888|ref|YP_002991017.1| restriction modification system DNA specificity domain protein
           [Desulfovibrio salexigens DSM 2638]
 gi|242121782|gb|ACS79478.1| restriction modification system DNA specificity domain protein
           [Desulfovibrio salexigens DSM 2638]
          Length = 387

 Score =  121 bits (302), Expect = 3e-25,   Method: Composition-based stats.
 Identities = 58/407 (14%), Positives = 126/407 (30%), Gaps = 32/407 (7%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           +PK W    +     L  G           + ++      G++     +      +   +
Sbjct: 3   LPKGWDKKTLGESCTLQRGFDLPKR-----LRVK------GEHPLISSSGCIDSHNEPKV 51

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
              G ++ G+ G       I D     +T   V       P  +   L  ID+       
Sbjct: 52  AGPG-VVTGRSGSIGSLFYIEDDFWPLNTTLYVKNYFGNDPRFIFYLLKHIDLK----RF 106

Query: 141 CEGATMSHADWKGIGNIPMPIPPLA-EQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
             GA +   +   + +  + IP  + EQ  I   +      ID  I    + +   +E  
Sbjct: 107 ASGAGVPTLNRNNVHSESILIPSDSSEQKRIVGILDKAFASIDKAIANTEKNLANARELF 166

Query: 200 QALVSYIVTKGLNPDVKMKDS------GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
           + LV    +  ++PD +  +S       ++  G +                       I+
Sbjct: 167 ERLV--ADSIFVDPDAQQWESKLVADLAVKEKGSMRTGPFGSQLLHKEFVDEGIAVLGID 224

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
           + + +       + +             +   V PG+++   +        +     +  
Sbjct: 225 NAVKNEFSWGKHRFITDEKY-----EQLSRYTVHPGDVIITIMGTCGRCAVIPDDIPLAI 279

Query: 314 GIITSAYMAVKPHGIDSTYLA-WLMRSYDLCKVFYAMGSGLRQS-LKFEDVKRLPVLVPP 371
                  + +        YL  + +          +   G   S L    +K+LPV +P 
Sbjct: 280 NTKHLCCITLDHDICLPEYLHAYFLYHPTAISFLTSKAKGAIMSGLNMGIIKKLPVRLPS 339

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           +KEQ DI   ++        + +  +Q +  L++ + S +  A  G+
Sbjct: 340 LKEQKDIVGKVSEAKQNYLKMTQLYQQKLTNLQDLKQSILQKAFAGE 386


>gi|312886109|ref|ZP_07745730.1| restriction modification system DNA specificity domain protein
           [Mucilaginibacter paludis DSM 18603]
 gi|311301408|gb|EFQ78456.1| restriction modification system DNA specificity domain protein
           [Mucilaginibacter paludis DSM 18603]
          Length = 417

 Score =  121 bits (302), Expect = 3e-25,   Method: Composition-based stats.
 Identities = 58/423 (13%), Positives = 138/423 (32%), Gaps = 41/423 (9%)

Query: 20  AIPKHWKVVPIKRFTKLNT-GRTSES---GKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            +P++W+V  +K   K    G   E+      I  I + +++ GT K        +    
Sbjct: 14  EVPENWQVKKLKTIMKEGRLGGNYENAEANTGIPVIKMGNLDRGTIKIDKVQYLPKGESY 73

Query: 76  STVSIFAKGQILYGKLGPY--LRKAIIADF---DGICSTQFLVLQPKDV----LPELLQG 126
           +   +   G +L+        + K  + +      + ++  L ++           +   
Sbjct: 74  NNKDVLTDGDLLFNTRNTLELVGKVAVWNNELPFAVYNSNLLRIKFDSTFVESNWFMNYA 133

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           +     + Q         +++    K + +I   +PPL EQ +I          +     
Sbjct: 134 FNSEYGLRQLKAIATGTTSVAAIYGKDLESIKFLLPPLPEQKVIASMFRIWDKAVRKTEQ 193

Query: 187 ERIRFIELLKEKKQALVS-YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN 245
             ++  +  K   Q L S     KG       K +  E +   P    + P    + +  
Sbjct: 194 LIVQKKQRKKWMMQQLFSGKKRLKGFGKANYKKVALDEIL--TPIRNPLIPEEKTLYQQI 251

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
              +         L  G             K    +    ++P  +V   +       ++
Sbjct: 252 GIRSHGKGIFHKELVSG-------------KDLGNKRVFWIEPNCLVINIVFAWEQ--AI 296

Query: 306 RSAQVMERGIITSAYMAVKPHGI---DSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKF 359
                +E G+I S    +        +  Y+ +  +S    ++      G     ++L  
Sbjct: 297 AKTTELEIGMIASHRFPMFKPTEGKLNLDYILYYFKSPRGKQLLVNASPGGAGRNKTLGQ 356

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
            +     + +P ++EQ  I+ V+          +  ++  +  L+E++   +   +TG++
Sbjct: 357 NEFINQFISLPTLEEQTAISQVLQAADKE----ISLLKAKVEKLREQKKGLMQQLLTGRV 412

Query: 420 DLR 422
            L+
Sbjct: 413 RLK 415



 Score = 83.7 bits (205), Expect = 5e-14,   Method: Composition-based stats.
 Identities = 39/209 (18%), Positives = 82/209 (39%), Gaps = 16/209 (7%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLI---ESNILSLSYGNIIQKLETRNMGL---KPESY 280
            VP++W+VK    ++ E             + I  +  GN+ +     +      K ESY
Sbjct: 14  EVPENWQVKKLKTIMKEGRLGGNYENAEANTGIPVIKMGNLDRGTIKIDKVQYLPKGESY 73

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSL-RSAQVMERGIITSAYMAVKPHGI---DSTYLAWL 336
               ++  G+++F   +       +      +   +  S  + +K        + ++ + 
Sbjct: 74  NNKDVLTDGDLLFNTRNTLELVGKVAVWNNELPFAVYNSNLLRIKFDSTFVESNWFMNYA 133

Query: 337 MRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
             S    +   A+ +G     ++  +D++ +  L+PP+ EQ  I +         D  V 
Sbjct: 134 FNSEYGLRQLKAIATGTTSVAAIYGKDLESIKFLLPPLPEQKVIAS----MFRIWDKAVR 189

Query: 395 KIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
           K EQ IV  K+R+   +    +G+  L+G
Sbjct: 190 KTEQLIVQKKQRKKWMMQQLFSGKKRLKG 218


>gi|158520266|ref|YP_001528136.1| restriction modification system DNA specificity subunit
           [Desulfococcus oleovorans Hxd3]
 gi|158509092|gb|ABW66059.1| restriction modification system DNA specificity domain
           [Desulfococcus oleovorans Hxd3]
          Length = 393

 Score =  121 bits (302), Expect = 3e-25,   Method: Composition-based stats.
 Identities = 70/424 (16%), Positives = 136/424 (32%), Gaps = 60/424 (14%)

Query: 8   PQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKD 67
           P YK + V   G IP+ W+V P+    K   G+  E           +      K++  +
Sbjct: 19  PGYKQTEV---GVIPEDWEVKPLAFVVKYTNGKAHEQS----ITDSGNFVVVNSKFISTE 71

Query: 68  GNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFD------GICSTQFLVLQPKDVLP 121
           G  R+          KG +L         +AI   F          + +  VL P  +  
Sbjct: 72  GIIRKFAQMRFCPAEKGDVLMVMSDVPNGRAIAKCFWVDCEDTYTVNQRICVLNPCGIDG 131

Query: 122 ELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPP-LAEQVLIREKIIAETVR 180
           +LL   L             +GA  ++   + + + P+ IP   AEQ  I   +      
Sbjct: 132 KLLYYKLDRNPF---YLTFDDGAKQTNLRKEDVLSCPLSIPNTEAEQRAIAAALSDVDAL 188

Query: 181 IDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFAL 240
           +D L     +  +L +   Q L++     G       K             WE+K    +
Sbjct: 189 LDGLDRLIAKKRDLKQAAMQQLLT-----GQTRLPGFKG-----------EWEIKRLGDV 232

Query: 241 VTELNRKNTKLI---ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID 297
           +   + K+ + I   +     L+ G  I +  T              I D   ++     
Sbjct: 233 LMVRHGKSQRGISVSDGKYPILASGGEIGRTNT-------------CIYDKPSVLIGRKG 279

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSL 357
             +               + + +        ++ ++              A G     SL
Sbjct: 280 TIDS----PQYVDSPFWTVDTLFFTEISTEANAKFIFSKFSIIPWRTYNEASG---VPSL 332

Query: 358 KFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
             + ++ + + +P   EQ  I  V++   A     +  +EQ     ++ + + +   +TG
Sbjct: 333 NAKTIENIEIFLPSPTEQTAIAQVLSDMDAE----IAALEQRRNKTRDIKQAMMQELLTG 388

Query: 418 QIDL 421
           +  L
Sbjct: 389 KTRL 392



 Score = 75.6 bits (184), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 41/203 (20%), Positives = 83/203 (40%), Gaps = 11/203 (5%)

Query: 224 WVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY 283
            VG++P+ WEVKP   +V   N K  +   ++  +    N   K  +    ++  +   +
Sbjct: 25  EVGVIPEDWEVKPLAFVVKYTNGKAHEQSITDSGNFVVVN--SKFISTEGIIRKFAQMRF 82

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVM--ERGIITSAYMAVKPHGIDSTYLAWLMRSYD 341
              + G+++    D+ N +   +   V   +   +      + P GID   L + +    
Sbjct: 83  CPAEKGDVLMVMSDVPNGRAIAKCFWVDCEDTYTVNQRICVLNPCGIDGKLLYYKLDRNP 142

Query: 342 LCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK-EQFDITNVINVETARIDVLVEKIEQSI 400
               F       + +L+ EDV   P+ +P  + EQ  I   ++   A +D L    ++ I
Sbjct: 143 FYLTFDDGAK--QTNLRKEDVLSCPLSIPNTEAEQRAIAAALSDVDALLDGL----DRLI 196

Query: 401 VLLKERRSSFIAAAVTGQIDLRG 423
              ++ + + +   +TGQ  L G
Sbjct: 197 AKKRDLKQAAMQQLLTGQTRLPG 219


>gi|308063357|gb|ADO05244.1| anti-codon nuclease masking agent (prrB) [Helicobacter pylori
           Sat464]
          Length = 422

 Score =  121 bits (302), Expect = 3e-25,   Method: Composition-based stats.
 Identities = 59/409 (14%), Positives = 131/409 (32%), Gaps = 25/409 (6%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPKDGNSRQSD 74
           PK  +   ++   ++  G T             I +  +ED+            +     
Sbjct: 13  PKGVEFKTLEEVFEIKNGYTPSKNNPEFWEKGTIPWFRMEDIRENGRILKDSIQHITPKA 72

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP---ELLQGWLLSI 131
                +F K  I+          A++   D + + QF  L  K       ++   +    
Sbjct: 73  LKGKKLFPKNSIIISTTATIGEHALLI-VDSLANQQFTFLSKKANCDIALDMKFFFYQCF 131

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            + +  +     +  +  D         PIPPL  Q  I + + A T     L TE    
Sbjct: 132 LLGEWCKKNTNVSGFASMDMTAFKKYKFPIPPLEIQQEIVKILDAFTELNTELNTELKAR 191

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGL----VPDHWEVKPFFALVTELNRK 247
            +  +  +  L+ +      + D K+K        L     P   E +    +    N+K
Sbjct: 192 KKQYQYYQNMLLDFKDIHSNHKDAKIKTYPKRLKTLLQTLAPKGVEFRKLGEVCESTNKK 251

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
             K+ E + +       +        G   +     +      I            +  +
Sbjct: 252 TLKISEVSEVKNKGMYPVINSGRDLYGYYHDFNNDGE-----NITIASRGEYAGFINYFN 306

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
            ++   G+    Y     + + + +L + +++ ++  +   +  G   +L   D++ L +
Sbjct: 307 EKIFAGGLCYP-YKVKDTNELLTKFLYFYLKTNEIQIMENLVSRGSIPALNKADIETLTI 365

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
            +PP++ Q +I  +++   A    L+  I   I   K+     R   + 
Sbjct: 366 PIPPLEIQQEIVKILDQFLALTTDLLAGIPAEIEARKKQYEYYREKLLT 414


>gi|260773572|ref|ZP_05882488.1| hsdS type I site-specific deoxyribonuclease [Vibrio metschnikovii
           CIP 69.14]
 gi|260612711|gb|EEX37914.1| hsdS type I site-specific deoxyribonuclease [Vibrio metschnikovii
           CIP 69.14]
          Length = 585

 Score =  121 bits (302), Expect = 3e-25,   Method: Composition-based stats.
 Identities = 70/451 (15%), Positives = 147/451 (32%), Gaps = 62/451 (13%)

Query: 24  HWKVVPIKRFTKLNTGRTSE---------SGKDIIYIGLEDVESGTGKYLP---KDGNSR 71
           +W  + I    ++  G T +          G  I ++   D+   T KY+    +D + +
Sbjct: 8   NWIELKIGEVAEVVAGGTPKAGNPDNFKTPGTGIAWLTPADLSGYTRKYISLGARDLSHQ 67

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
             ++S+  I  KG +L+    P      IA  D   +  F        +      +    
Sbjct: 68  GYNSSSAKILPKGSLLFSSRAPI-GYVAIAQNDISTNQGFKNFVFPCGVDSD-YAYYYLR 125

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            +    E++  G T           +P  +PPLAEQ  I +K+     ++ T      R 
Sbjct: 126 SIRDLAESLGTGTTFKEISGAVAKTLPFLLPPLAEQKAIADKLDLMLAQVATTKVRLERI 185

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEW-VGLVPDHWEVKPF------------- 237
             +LK  +Q++++  V+  L  + +       W V  +P++ + +               
Sbjct: 186 PNILKTFRQSILTAAVSGKLTGNWRASSLKSAWTVRELPENNKTRRGLPDSVALPDALKE 245

Query: 238 -------------------------FALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
                                           + K+ +  E  +  ++   +    +   
Sbjct: 246 SRFPESWSILSVASLLRKGVIIDLKDGNHGSNHPKSLEFTEKGLPFITAAQMSDNGKIDY 305

Query: 273 MGLKPESYETYQIVDPG-----EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
            G    S +  + +  G     ++++              A V+      + Y+ +    
Sbjct: 306 DGAPKVSGKPLEKLKVGFSEAEDVIYSHKGTIGKVGIADRASVLNP---QTTYIRLNQKY 362

Query: 328 IDSTYLAWLMRSYDLCKVFYA-MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
           + + Y A +++S        A      R  +       L  ++PPI EQ +I   +    
Sbjct: 363 VLNQYYALMLKSNAFTSQVDAIKSQTTRDFVPITAHYSLFAIIPPIDEQVEIVRRVEELF 422

Query: 387 ARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
           A  D + +K+  +  L+     S    A  G
Sbjct: 423 ACADNIEQKVNMATELVNNLPQSIFTKAFRG 453



 Score = 82.5 bits (202), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 32/139 (23%), Positives = 66/139 (47%), Gaps = 7/139 (5%)

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY 340
            + +I+  G ++F            ++     +G     +    P G+DS Y  + +RS 
Sbjct: 72  SSAKILPKGSLLFSSRAPIGYVAIAQNDISTNQGFKNFVF----PCGVDSDYAYYYLRS- 126

Query: 341 DLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
            +  +  ++G+G   + +     K LP L+PP+ EQ  I + +++  A++     ++E+ 
Sbjct: 127 -IRDLAESLGTGTTFKEISGAVAKTLPFLLPPLAEQKAIADKLDLMLAQVATTKVRLERI 185

Query: 400 IVLLKERRSSFIAAAVTGQ 418
             +LK  R S + AAV+G+
Sbjct: 186 PNILKTFRQSILTAAVSGK 204


>gi|85859882|ref|YP_462084.1| type I restriction-modification system specificity subunit
           [Syntrophus aciditrophicus SB]
 gi|85722973|gb|ABC77916.1| type I restriction-modification system specificity subunit
           [Syntrophus aciditrophicus SB]
          Length = 404

 Score =  121 bits (302), Expect = 3e-25,   Method: Composition-based stats.
 Identities = 63/413 (15%), Positives = 146/413 (35%), Gaps = 33/413 (7%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIY------IGLEDV--ESGTGKYLPKDGNSRQ 72
           IP  WK++ + +     TG+T        +      I   D+  +S   K + +  +   
Sbjct: 8   IPSDWKMMTLGQVGVTVTGKTPSKDNPEDWGDLLSFITPTDIISDSKHLKTVARKLSGSG 67

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
            +T    I   G ++   +G  + K +I  +D + + Q   ++  D   +    +LL   
Sbjct: 68  INTLKKMIIPAGSVVVTCIGSDMGKVVINSYDSVTNQQINSIKVNDNNNKDFVYYLLKNS 127

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
            +        G+TM   +     ++    P L EQ  I   + +   +I+ L T+     
Sbjct: 128 YSILRNHAIGGSTMPILNKSTFESLEFIFPSLTEQQAIAAALSSLDDKIELLRTQNKTLE 187

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEW----VGLVPDHWEVKPFFALVTELNRKN 248
            + +   +         G +     K SG +     +G +P++W +  +  +V  +  K 
Sbjct: 188 NITQTIFKHWFVDFEFPGKD-GNPYKSSGGKMIESALGKIPNNWRIGKYEDVVDVVTGKG 246

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
            K            N+      + +G   E  +T + +   +++            +   
Sbjct: 247 MKKD----------NLRSNGLYKVLGANGEIGKTDEYLFDEDLILTGRVGTLGTIFISRG 296

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVL 368
           +V     I+   +  KP   ++ Y A+         +        +  +   D+K + ++
Sbjct: 297 KV----WISDNVLISKPKSDENCYFAYF--QLRKLNLESLNRGSTQPLITQTDLKNVEII 350

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           +PP     +I    +   + +   +   +  I  L + R + +   + G+I +
Sbjct: 351 LPP----KEILFDWHCMASSLFTKIFNNDFQINTLSKIRDTLLPKLMKGEIRV 399



 Score = 47.9 bits (112), Expect = 0.003,   Method: Composition-based stats.
 Identities = 34/198 (17%), Positives = 66/198 (33%), Gaps = 19/198 (9%)

Query: 10  YKDSG---VQW-IGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLP 65
           YK SG   ++  +G IP +W++   +    + TG+  +                 G Y  
Sbjct: 211 YKSSGGKMIESALGKIPNNWRIGKYEDVVDVVTGKGMKKDN----------LRSNGLYKV 260

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ 125
              N     T    +F +  IL G++G  L    I+      S   L+ +PK        
Sbjct: 261 LGANGEIGKTDEY-LFDEDLILTGRVGT-LGTIFISRGKVWISDNVLISKPKSDENCYFA 318

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
            + L       +E++  G+T        + N+ + +PP            +   +I    
Sbjct: 319 YFQLR---KLNLESLNRGSTQPLITQTDLKNVEIILPPKEILFDWHCMASSLFTKIFNND 375

Query: 186 TERIRFIELLKEKKQALV 203
            +     ++       L+
Sbjct: 376 FQINTLSKIRDTLLPKLM 393


>gi|254470760|ref|ZP_05084163.1| restriction modification system DNA specificity domain protein
           [Pseudovibrio sp. JE062]
 gi|211959902|gb|EEA95099.1| restriction modification system DNA specificity domain protein
           [Pseudovibrio sp. JE062]
          Length = 400

 Score =  121 bits (302), Expect = 3e-25,   Method: Composition-based stats.
 Identities = 53/425 (12%), Positives = 128/425 (30%), Gaps = 48/425 (11%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDV-ESGTGKYLPKDGNSRQSDT 75
           +P+ W    +        G   +S          I + D    G G           +  
Sbjct: 2   VPEGWTETRLGEIVIHRKGYAFDSKDYDQAGRRIIRISDTTRDGIGNERVVCVPHEVAKD 61

Query: 76  STVSIFAKGQILYGKLGP--------YLRKAIIAD--FDGICSTQFLVLQPKDVLPELLQ 125
                   G +L   +G           +   + +     + +   + L P         
Sbjct: 62  LETYALDTGDVLLSTVGSRPHLLDSMVGKVVRVPEGVKGALLNQNLVRLDPISRDINREH 121

Query: 126 GWLLSID--VTQRIEAICEGA-TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
            + +  D      I  +  G           +      +PPL EQ  I E +       D
Sbjct: 122 LFAVLKDKRFIYYISTLVRGNANQVSITLAELFQYKFSLPPLPEQKKIAEIL----GTWD 177

Query: 183 TLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVT 242
             I    + ++  + +K+AL+ +++        ++K       G     W+      +  
Sbjct: 178 RAIEVAEKQLKNAEAQKRALMQHLLAG----THRLK-------GFEDSEWKTVKLGDVCE 226

Query: 243 ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIV--DPGEIVFRFIDLQN 300
            L+     +  ++  ++   N           +    ++   ++  + GE +        
Sbjct: 227 FLDGMRKPIKAADRATMQGQNPYYGATGIIDWVDAFIFDEPLLLLGEDGENILSRNLPHV 286

Query: 301 DKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFE 360
            +         +  +   A++      +   ++   + S D  K         +  L  +
Sbjct: 287 FRI------EGKSWVNNHAHVLRPKSEVSHAFVCEFLESLDYRKY---NSGSAQPKLNKK 337

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQID 420
             + +PVL+P  +EQ  I  ++ +     D  V   +  +  L+  + + +   +TG+  
Sbjct: 338 VCESIPVLLPCFEEQKAIGAILEIS----DQQVHNCKAKLNHLRTEKRALMQQLLTGKKR 393

Query: 421 LRGES 425
           ++ E 
Sbjct: 394 VKVEE 398


>gi|194335862|ref|YP_002017656.1| restriction modification system DNA specificity domain [Pelodictyon
           phaeoclathratiforme BU-1]
 gi|194308339|gb|ACF43039.1| restriction modification system DNA specificity domain [Pelodictyon
           phaeoclathratiforme BU-1]
          Length = 411

 Score =  121 bits (302), Expect = 3e-25,   Method: Composition-based stats.
 Identities = 63/419 (15%), Positives = 145/419 (34%), Gaps = 31/419 (7%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTS-ESGKDIIYIGLEDVESGTGKYL 64
            +P+++D+G +W   +        + + +     R   E      Y+   ++      Y 
Sbjct: 7   RFPEFRDAG-EWDRDV--------LGKVSVFVNERMPLEQLSLSNYVSTVNIL---PDYE 54

Query: 65  PKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL-PEL 123
                 +   + + + F    IL   + PYL+K   A  +G  S   +V++ K+ +    
Sbjct: 55  GMVTAPKLPPSGSATRFKINDILISNIRPYLKKVWFASKEGGASNDVIVIRAKEKVGDRY 114

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           L   L +    + +    +G  M   D   +   P+  P   EQ  I + +      ID 
Sbjct: 115 LSFMLKNDVFIEYVMKGAKGVKMPRGDIFLMQEYPLAYPSKPEQQKIADCL----SSIDD 170

Query: 184 LITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHW--EVKPFFALV 241
           LIT + + ++ LK  K+ L+ ++         K++    +  G   +    ++       
Sbjct: 171 LITAQTQKLDTLKTHKKGLMQHLFPAEGETLPKLRFPEFQDAGEWEEKHLGKICEIKGGK 230

Query: 242 TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI----VDPGEIVFRFID 297
                 +    +++   +   ++       +  L   S    QI    +   ++      
Sbjct: 231 RIPKGFSLTNEKTDYPYVRVSDMYMGGIDTSSVLYIPSEIEKQIRSYKISKNDLFITVAG 290

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQS 356
                  +   + ++   +T     +    I   YL   +      ++  +  +   +  
Sbjct: 291 TIGIVGEVP--EELDNANLTENANKIIVKSIAKKYLLHYLTGESAQQLISSSVTNNAQPK 348

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           L  E ++  P+ VP  +EQ  I + +    + ID L+    Q +  LK  + + +    
Sbjct: 349 LALERIRLFPIPVPSPEEQQKIADCL----SSIDDLIIAQTQKLATLKTHKKALMQQLF 403


>gi|317132744|ref|YP_004092058.1| N-6 DNA methylase [Ethanoligenens harbinense YUAN-3]
 gi|315470723|gb|ADU27327.1| N-6 DNA methylase [Ethanoligenens harbinense YUAN-3]
          Length = 689

 Score =  121 bits (302), Expect = 3e-25,   Method: Composition-based stats.
 Identities = 106/214 (49%), Positives = 138/214 (64%), Gaps = 2/214 (0%)

Query: 177 ETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKP 236
           +   ID LI++ ++  E+L+  K+ L+  I T GL+  +  K SGI+WVG +P  WEV P
Sbjct: 474 KDSNIDALISDFLQQAEMLETYKRQLIINITTHGLDTALSCKSSGIDWVGEIPCDWEVFP 533

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFI 296
             A+  E N KNT+++  N+LSLSYG IIQK    N GL P S+E YQIV+PG +V R  
Sbjct: 534 LRAIAHENNTKNTEMLSENLLSLSYGRIIQKDIETNTGLLPASFEGYQIVEPGYVVLRLT 593

Query: 297 DLQNDKRSLRSAQVMERGIITSAY--MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR 354
           DLQNDKRSLR+  V E GIITSAY  + V    I   Y A+L+ +YDL KVFY +G G+R
Sbjct: 594 DLQNDKRSLRTGYVKETGIITSAYLSLVVHDGRILPRYFAYLLHAYDLKKVFYTLGGGVR 653

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
           QSLK+ D K LP+LVPPI  Q  I   I  + +R
Sbjct: 654 QSLKYSDFKMLPILVPPIPTQEKIIAYIEDKISR 687



 Score = 66.0 bits (159), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 30/176 (17%), Positives = 62/176 (35%), Gaps = 11/176 (6%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSE-SGKDIIYIGLEDVESGTGKYLPKDGN 69
           K SG+ W+G IP  W+V P++     N  + +E   ++++ +    +          +  
Sbjct: 515 KSSGIDWVGEIPCDWEVFPLRAIAHENNTKNTEMLSENLLSLSYGRIIQKDI---ETNTG 571

Query: 70  SRQSDTSTVSIFAKGQILYGKLGPYLRK----AIIADFDGICSTQF--LVLQPKDVLPEL 123
              +      I   G ++         K           GI ++ +  LV+    +LP  
Sbjct: 572 LLPASFEGYQIVEPGYVVLRLTDLQNDKRSLRTGYVKETGIITSAYLSLVVHDGRILPRY 631

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
               L + D+ +    +  G       +     +P+ +PP+  Q  I   I  +  
Sbjct: 632 FAYLLHAYDLKKVFYTL-GGGVRQSLKYSDFKMLPILVPPIPTQEKIIAYIEDKIS 686


>gi|187927548|ref|YP_001898035.1| restriction modification system DNA specificity domain [Ralstonia
           pickettii 12J]
 gi|187724438|gb|ACD25603.1| restriction modification system DNA specificity domain [Ralstonia
           pickettii 12J]
          Length = 435

 Score =  121 bits (302), Expect = 3e-25,   Method: Composition-based stats.
 Identities = 61/423 (14%), Positives = 127/423 (30%), Gaps = 32/423 (7%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESG-KDIIYIGLEDVESGTGKYL 64
            +P+++D+G         +WK   +++  K    + SE   K ++    E        Y 
Sbjct: 24  RFPEFQDAG---------NWKTEALRKLAKRCAKKNSEGEHKRVLTNSAEYGVIDQRDYF 74

Query: 65  PKDGNSRQSDTSTVSIFAKGQILYGKL----GPYLRKAIIADFDGICSTQFLVLQPKDVL 120
            KD  + Q +     I  KG  +Y        P    +      G+ S  + V +     
Sbjct: 75  DKDI-ANQGNLEGYYIVEKGDYVYNPRISASAPVGPISKNNVGTGVMSPLYTVFRFISSE 133

Query: 121 PELLQGWLLSIDVTQRIEAICEG---ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
            +    +  S      +                     N+P+P+    EQ  I + + + 
Sbjct: 134 NDFFAHYFKSPHWHHYMRQASSTGARHDRMSITNDDFMNMPLPVSVPKEQQKIADSLSSL 193

Query: 178 TVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVG-LVPDHWEVKP 236
                  I    R +  LK  K  L+  +  +      +++  G       +        
Sbjct: 194 DEL----IMAENRKLGTLKVYKNGLMQQLFPREGETVPRLRLPGFRRDPQWISATLGDIA 249

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE---SYETYQIVDPGEIVF 293
                    R N      +I  ++   I      +      +      + +I   G ++ 
Sbjct: 250 NVQSGGTPARTNPAYWNGDIPWVTTSLIDSSTILKADEYITKAGLEESSAKIFPKGTLLM 309

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL 353
                Q   R   S   ++     +    +      ST   +   +    ++     SG 
Sbjct: 310 AMYG-QGRTRGRVSVLGIDAATNQACAAIILKRRGISTDFVFQNLASRYEEIRKISNSGG 368

Query: 354 RQSLKFEDVKRLPVLVPPIK-EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           +++L    ++ +    P  + EQ  I N +    + ID L+    Q I  L+  +   + 
Sbjct: 369 QENLSAGLIEGISFSFPDNESEQEYIANTL----SSIDGLITTQRQKIDALEIHKKGLMQ 424

Query: 413 AAV 415
              
Sbjct: 425 QLF 427


>gi|317178793|dbj|BAJ56581.1| anti-codon nuclease masking agent [Helicobacter pylori F30]
          Length = 431

 Score =  120 bits (301), Expect = 3e-25,   Method: Composition-based stats.
 Identities = 51/425 (12%), Positives = 134/425 (31%), Gaps = 39/425 (9%)

Query: 26  KVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           +   ++   ++  G T             I +  ++D+            +         
Sbjct: 2   EFKTLEEVFEIKNGYTPSKNNPEFWEKGTIPWFRMDDIRENGRILKDSIQHITPKALKGK 61

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP---ELLQGWLLSIDVTQ 135
            +F K  I+          A++   D + + +F  L  K       ++   +     + +
Sbjct: 62  KLFPKNSIIISTTATIGEHALLI-VDSLANQRFTFLSKKANCNIALDMKFFFYQCFLLGE 120

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
             +     +  +  D         PIPPL  Q  I + + A T     L TE    ++  
Sbjct: 121 WCKKNTNVSGFASVDMTAFKKYKFPIPPLEIQQEIVKILDAFTELNTELNTELNTELKAR 180

Query: 196 KEKKQALVSYIVTKG----------LNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN 245
           K++ Q   + ++             +      K        L P   E +    +    +
Sbjct: 181 KKQYQYYQNMLLDFKGIHSNHKDAKMGAKPYPKRLQTLLQTLAPKGVEFRKLGDIGEFYS 240

Query: 246 R-------KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID- 297
                     ++  +  +  ++  N  Q        ++    E    +  G+++F     
Sbjct: 241 GLVGKSKKSFSQGNKFYVPYVNVFNNPQLDLNALESVQIGDKEKQNTIQLGDVLFTGSSE 300

Query: 298 -----LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
                  +   + +  + +        +     +  + ++L   +R Y+  K    + +G
Sbjct: 301 NLEDCAMSCVVTQKIEKDIYLNSFCFGFRFFDENLFNPSFLKHFLRDYNFRKNISKVANG 360

Query: 353 -LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RR 407
             R ++  + + ++ + +PP++ Q +I  +++  +     L+  I   I   K+     R
Sbjct: 361 VTRFNVSKQLLSKITIPIPPLEIQQEIVKILDQFSTLTTDLLAGIPAEIEARKKQYEYYR 420

Query: 408 SSFIA 412
              ++
Sbjct: 421 EKLLS 425



 Score = 50.9 bits (120), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 27/174 (15%), Positives = 56/174 (32%), Gaps = 15/174 (8%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGK-----DIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           PK  +   +    +  +G   +S K     +  Y+   +V +     L    + +  D  
Sbjct: 224 PKGVEFRKLGDIGEFYSGLVGKSKKSFSQGNKFYVPYVNVFNNPQLDLNALESVQIGDKE 283

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIAD----------FDGICSTQFLVLQPKDVLPELLQG 126
             +    G +L+      L    ++           +       F         P  L+ 
Sbjct: 284 KQNTIQLGDVLFTGSSENLEDCAMSCVVTQKIEKDIYLNSFCFGFRFFDENLFNPSFLKH 343

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
           +L   +  + I  +  G T  +   + +  I +PIPPL  Q  I + +   +  
Sbjct: 344 FLRDYNFRKNISKVANGVTRFNVSKQLLSKITIPIPPLEIQQEIVKILDQFSTL 397


>gi|222444442|ref|ZP_03606957.1| hypothetical protein METSMIALI_00053 [Methanobrevibacter smithii
           DSM 2375]
 gi|222434007|gb|EEE41172.1| hypothetical protein METSMIALI_00053 [Methanobrevibacter smithii
           DSM 2375]
          Length = 245

 Score =  120 bits (301), Expect = 3e-25,   Method: Composition-based stats.
 Identities = 65/234 (27%), Positives = 104/234 (44%), Gaps = 3/234 (1%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDG 68
           ++KDS V++IG IPK WK++  K            +      + L        K + ++ 
Sbjct: 7   EFKDSKVEYIGKIPKSWKIIRNKHIFNKTKVIAGPNWDKYNILSLTK-NGVIIKDIERNE 65

Query: 69  NSRQSDTSTVSIFAKGQILYG--KLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQG 126
               SD S   I   G +L     +    R     + +GI S  +  L P   +      
Sbjct: 66  GKMPSDFSIYQIVNPGNLLMCLLDIDVTPRCVGYIENNGIVSAAYTELSPIADINMKYYY 125

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           W   +    +          +    +    + +  PPL EQ+ I   +  +T +ID  I 
Sbjct: 126 WWYLMLDIDKQLLHLSKNLRNSLSTEDFMALSVVKPPLDEQIQIANYLNKKTAKIDETIA 185

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFAL 240
           +    I+LL+EK+ AL++++VTKGL+PDV MKDSGIEW+G +P+HWE       
Sbjct: 186 KNKELIDLLEEKRIALINHVVTKGLDPDVPMKDSGIEWIGNIPEHWETIKLKNC 239



 Score =  103 bits (256), Expect = 6e-20,   Method: Composition-based stats.
 Identities = 64/205 (31%), Positives = 103/205 (50%), Gaps = 4/205 (1%)

Query: 214 DVKMKDSGIEWVGLVPDHWEVKPFFALVTELN-RKNTKLIESNILSLSYGNIIQKLETRN 272
           + + KDS +E++G +P  W++     +  +          + NILSL+   +I K   RN
Sbjct: 5   NNEFKDSKVEYIGKIPKSWKIIRNKHIFNKTKVIAGPNWDKYNILSLTKNGVIIKDIERN 64

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH-GIDST 331
            G  P  +  YQIV+PG ++   +D+    R +    +   GI+++AY  + P   I+  
Sbjct: 65  EGKMPSDFSIYQIVNPGNLLMCLLDIDVTPRCVG--YIENNGIVSAAYTELSPIADINMK 122

Query: 332 YLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
           Y  W     D+ K    +   LR SL  ED   L V+ PP+ EQ  I N +N +TA+ID 
Sbjct: 123 YYYWWYLMLDIDKQLLHLSKNLRNSLSTEDFMALSVVKPPLDEQIQIANYLNKKTAKIDE 182

Query: 392 LVEKIEQSIVLLKERRSSFIAAAVT 416
            + K ++ I LL+E+R + I   VT
Sbjct: 183 TIAKNKELIDLLEEKRIALINHVVT 207



 Score = 47.1 bits (110), Expect = 0.005,   Method: Composition-based stats.
 Identities = 13/26 (50%), Positives = 19/26 (73%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTK 35
            KDSG++WIG IP+HW+ + +K  T 
Sbjct: 216 MKDSGIEWIGNIPEHWETIKLKNCTT 241


>gi|320352779|ref|YP_004194118.1| restriction modification system DNA specificity domain-containing
           protein [Desulfobulbus propionicus DSM 2032]
 gi|320121281|gb|ADW16827.1| restriction modification system DNA specificity domain protein
           [Desulfobulbus propionicus DSM 2032]
          Length = 521

 Score =  120 bits (301), Expect = 4e-25,   Method: Composition-based stats.
 Identities = 62/438 (14%), Positives = 124/438 (28%), Gaps = 43/438 (9%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIY-IGLEDVESGTGKY------LPKDGNSRQS 73
           IP+HW    +       +G T   G   +Y  G+  ++SG            +  +    
Sbjct: 83  IPEHWAWTRLGEIGDWGSGSTPSRGNPELYDGGITWLKSGELNDNQSLAGSEETVSELAL 142

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
           +T +      G IL    G  + K  I     + +         D +      ++  +  
Sbjct: 143 NTCSFRRNEPGDILLAMYGATIGKVAILAESAVTNQAVCGCTVFDGVLN-RYLFIFLLSQ 201

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
             R  +  EG    +     I   P P+PPLAEQ  I  K+       D L  ++     
Sbjct: 202 RSRFHSASEGGAQPNISKVKIVGFPFPLPPLAEQKRIVAKVDELMALCDQLEAQQQERQA 261

Query: 194 LLKEKKQALVSYI--------VTKGLNPDVKMKDSG--------------IEWVGLVPDH 231
                 +A ++          +    +P   +  +               +         
Sbjct: 262 QHAVLVKASLARFTQAPTPDNLQFLFHPSYTVSPADLRKTILTLAVQGKLVPQESEPLLG 321

Query: 232 WEVKPFFALVTELNRKNTKLIESNILSLSYG------NIIQKLETRNMGLKPESYETYQI 285
                          K      S +  L         +     E       P +      
Sbjct: 322 SLESILAEASVNGVSKGPTADPSAVEVLRISAGTSREDFYVNEEDFKHVDLPANEVKKFQ 381

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS-----AYMAVKPHGIDSTYLAWLMRSY 340
           + PG+++    +         S    E   I           +        Y+ + M + 
Sbjct: 382 LAPGDLLACRFNGNLHFVGRFSLYRGESRRIQVNPDKLIRFRINTDLHSPRYVCYAMNAA 441

Query: 341 DLCKVFYAMGSGLRQSL--KFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
              +   AM +    ++      +K + + +PP+ EQ  I   ++   A +D L  ++  
Sbjct: 442 PTREAIEAMCATTAGNIGLSAGRLKTVEIPLPPLAEQRRIVAKVDELMALVDDLETQLAA 501

Query: 399 SIVLLKERRSSFIAAAVT 416
           S  +     ++ +    T
Sbjct: 502 SRTVAHNLLAALVRELTT 519



 Score = 82.5 bits (202), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 36/247 (14%), Positives = 77/247 (31%), Gaps = 46/247 (18%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTE-----LNRKNTKLIESNILSLSYGNIIQK----LETR 271
             E   L+P+HW       +         +R N +L +  I  L  G +           
Sbjct: 76  EEELPFLIPEHWAWTRLGEIGDWGSGSTPSRGNPELYDGGITWLKSGELNDNQSLAGSEE 135

Query: 272 NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST 331
            +     +  +++  +PG+I+         K ++    + E  +   A            
Sbjct: 136 TVSELALNTCSFRRNEPGDILLAMYGATIGKVAI----LAESAVTNQAVCGCTVFDGVLN 191

Query: 332 YLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
              ++       +   A   G + ++    +   P  +PP+ EQ  I   ++   A  D 
Sbjct: 192 RYLFIFLLSQRSRFHSASEGGAQPNISKVKIVGFPFPLPPLAEQKRIVAKVDELMALCDQ 251

Query: 392 LVE-----------KIEQSI---------VLLK------------ERRSSFIAAAVTGQI 419
           L              ++ S+           L+            + R + +  AV G++
Sbjct: 252 LEAQQQERQAQHAVLVKASLARFTQAPTPDNLQFLFHPSYTVSPADLRKTILTLAVQGKL 311

Query: 420 DLRGESQ 426
            +  ES+
Sbjct: 312 -VPQESE 317


>gi|295136493|ref|YP_003587169.1| restriction modification system DNA specificity subunit
           [Zunongwangia profunda SM-A87]
 gi|294984508|gb|ADF54973.1| restriction modification system DNA specificity subunit
           [Zunongwangia profunda SM-A87]
          Length = 405

 Score =  120 bits (301), Expect = 4e-25,   Method: Composition-based stats.
 Identities = 73/415 (17%), Positives = 141/415 (33%), Gaps = 38/415 (9%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKYLPK--DGNSR 71
           +  IP++W+VV  +   +L  G    +     K I    +  ++      +      +  
Sbjct: 5   LNRIPENWEVVDFRNVAELKHGYQFRNYDFTDKGIKIFKITQIKGDGIADISSCSYIDIN 64

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP-----KDVLPELLQG 126
           + D     I  KG IL    G  + K    +FD I    + V          +  E    
Sbjct: 65  RIDEFKRVILNKGDILIALTGATIGKVARFNFDEIVLQNYRVGNFIPLNENILNKEYFFQ 124

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           +L S     +I A    +   +   + I N+ + +PPL EQ  I   +      ID  I 
Sbjct: 125 FLKSDFFFNQILANQTQSAQQNIGKEDINNMSVVLPPLPEQKAIANIL----SAIDAKIE 180

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
             +   + L+E   AL          P    K    E +GL+P+ W V     L      
Sbjct: 181 NNLAINKTLEEMAMALYKEWFVD-FGPFQDGKFIESE-LGLIPEGWVVANLEDLFVLQRG 238

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
            +    +    ++       K           +Y     V+   +      +  +   + 
Sbjct: 239 FDLPKKKRIEGNVPIYAASGKS----------TYHNEYKVEAPGVTTGRSGVLGNVYFVS 288

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLP 366
                +   + ++    +       +  +++++ DL +           +L   DV R+ 
Sbjct: 289 E----DFWPLNTSLWIKEYRSSTPYHAFFVLKNIDLKEF---NSGSAVPTLNRNDVHRIK 341

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           V+ P       I N+ +V+ A+I   +E   Q    L + R + +   V+G++ L
Sbjct: 342 VVKPEKS----IINLFSVQIAKIFRKIEMNTQQKQTLTQLRDTLLPKLVSGEVRL 392


>gi|293379345|ref|ZP_06625490.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecium PC4.1]
 gi|292642037|gb|EFF60202.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecium PC4.1]
          Length = 424

 Score =  120 bits (301), Expect = 4e-25,   Method: Composition-based stats.
 Identities = 59/414 (14%), Positives = 133/414 (32%), Gaps = 33/414 (7%)

Query: 24  HWKVVPIKRFTKLNTGRTSES---------GKDIIYIGLEDVESGTGKYLP-KDGNSRQS 73
            W+   +    K+  G    +           D +++   +V     K+   K     + 
Sbjct: 17  DWEQRKLGDSIKVMDGDRGSNYPHESDFIENGDTLFLDTGNVTKTGFKFDSVKYITKEKD 76

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL--------PELLQ 125
           +        K  ++    G         +       +  +     +L           L 
Sbjct: 77  EQLRAGKLEKNDLVLTSRGTLGNIGFYDELIYKLHPKVRINSAMLILRNTDEQLSYSYLH 136

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
             L    ++  +     G+   H        + + +P   E+    +KI     ++D  I
Sbjct: 137 TLLKGRLISDFMRKNQVGSAQPHITKSEFLKLNLNVPYDIEEQ---KKIGTFFKQLDDTI 193

Query: 186 TERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN 245
               R ++LLKE K+  +  +  K      +++  G  + G   +               
Sbjct: 194 ALHQRKLDLLKETKKGFLQKMFPKNGAKVPEIRFPG--FTGDWEERKLGGIGKTYTGLTG 251

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI-VDPGEIVFRFIDLQNDKRS 304
           +        +   ++Y N+ Q  +     L+    +  Q  V  G++ F       ++  
Sbjct: 252 KSKEDFGHGDAKFVTYMNVFQNPKATLEQLENVEIDPRQNEVKKGDVFFTTSSETPEEVG 311

Query: 305 LRSAQVMERGII---TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFE 360
           + S    +   I   +  +        D  YLA+++RS  + K    +  G+ R ++   
Sbjct: 312 MSSVWTHDINNIYLNSFTFAYRPTIKFDLDYLAFMLRSQSVRKKIIYLAQGISRYNISKT 371

Query: 361 DVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            +  + V +P   +EQ  I         ++D  +   ++ + LLKE +  F+  
Sbjct: 372 KMMDISVPIPVNFEEQQKIGAF----FKQLDDTIALHQRKLDLLKETKKGFLQK 421


>gi|317494153|ref|ZP_07952569.1| type I restriction modification DNA specificity domain-containing
           protein [Enterobacteriaceae bacterium 9_2_54FAA]
 gi|316917926|gb|EFV39269.1| type I restriction modification DNA specificity domain-containing
           protein [Enterobacteriaceae bacterium 9_2_54FAA]
          Length = 396

 Score =  120 bits (301), Expect = 4e-25,   Method: Composition-based stats.
 Identities = 71/399 (17%), Positives = 147/399 (36%), Gaps = 28/399 (7%)

Query: 24  HWKVVPIKRFTKLNTGRTSES--GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
            W+     R     + + + S   KD+  + ++ +    G+ L      +Q        F
Sbjct: 14  EWENDLFGRIVTNKSSKYNPSTESKDLPCLEMDSISQEDGRILHIYSAKQQVSIKNK--F 71

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
           + G +L+GKL PYL+K I+A FDG CS++  VL    +    L  ++ +    +      
Sbjct: 72  SAGDVLFGKLRPYLKKYILAPFDGACSSEIWVLNGLTINNSFLFCYIQTKKFIEAANKS- 130

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            G+ M  ADW  I +  M  P   EQ  I E + +   +I  L  +     +  K   Q 
Sbjct: 131 SGSKMPRADWSVISSEMMFFPLKEEQNKIAEFLSSVDEKIMLLNKQYDLLCQYKKGMMQK 190

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
           + S  +    + +                 W +     +   + RKN +   + +     
Sbjct: 191 IFSQELRFKDDNENSFPQ------------WSILQLKDIAIRVTRKNKENNNTILTISGK 238

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQND-KRSLRSAQVMERGIITSAY 320
             ++ ++   N  +  ++   Y ++  GE  +     Q     +++     E+G++++ Y
Sbjct: 239 DGLVDQMTYFNKQIASKNVTGYFLIKKGEFAYNKSYSQGYPMGAIKMLSNYEKGVVSTLY 298

Query: 321 MAVKPHGIDSTYLA-WLMRSYDLCKVFYAMGS-GLRQ----SLKFEDVKRLPVLVPPIKE 374
           +  K +   S         S    +    +   G R     ++   D   + + VP + E
Sbjct: 299 ICFKLNDEQSCGFYQHYFESGLQNRAIEKVAQEGARNHGLLNIGVNDFFDIELQVPSLAE 358

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           Q  I + ++     I+  +      + +LK  +   +  
Sbjct: 359 QDKIAHFLSA----IEDKIAIKRAELDMLKNWKQGLLQQ 393



 Score = 70.6 bits (171), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 27/197 (13%), Positives = 67/197 (34%), Gaps = 10/197 (5%)

Query: 232 WEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES--YETYQIVDPG 289
           WE   F  +VT  + K     ES  L     + I + + R + +               G
Sbjct: 15  WENDLFGRIVTNKSSKYNPSTESKDLPCLEMDSISQEDGRILHIYSAKQQVSIKNKFSAG 74

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
           +++F  +     K  L        G  +S    +    I++++L   +++    +     
Sbjct: 75  DVLFGKLRPYLKKYILAPFD----GACSSEIWVLNGLTINNSFLFCYIQTKKFIEAANKS 130

Query: 350 GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
                    +  +    +  P  +EQ  I   ++    +I +L     +   LL + +  
Sbjct: 131 SGSKMPRADWSVISSEMMFFPLKEEQNKIAEFLSSVDEKIMLL----NKQYDLLCQYKKG 186

Query: 410 FIAAAVTGQIDLRGESQ 426
            +    + ++  + +++
Sbjct: 187 MMQKIFSQELRFKDDNE 203


>gi|256958290|ref|ZP_05562461.1| type I restriction-modification system specificity subunit
           [Enterococcus faecalis DS5]
 gi|256948786|gb|EEU65418.1| type I restriction-modification system specificity subunit
           [Enterococcus faecalis DS5]
          Length = 404

 Score =  120 bits (301), Expect = 4e-25,   Method: Composition-based stats.
 Identities = 64/403 (15%), Positives = 144/403 (35%), Gaps = 29/403 (7%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + W++  + R  +  T +  E    +  + +   E    + +  + +    D S   +  
Sbjct: 14  EDWELCKLGRVVERVTRKNKELKSTLP-LTISAQEGLIDQNVFFNKSVASRDVSGYYLIY 72

Query: 83  KGQILYGKLGPYLRKAIIAD-----FDGICSTQFLVLQPKDVLPELLQGWLLS-IDVTQR 136
            G+  Y K                   G+ ST +++ +PK++    L+ +  +     + 
Sbjct: 73  NGEFAYNKSYSNGYPWGAIKRLNRYDMGVLSTLYIIFKPKNIDSNFLEKYYDTSCWYHEV 132

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
            +   EGA           +       + + V  + KI     ++D  IT   R +E LK
Sbjct: 133 SKHAAEGARNHGLLNIAASDFLRTELTVPKSVEEQRKIGNFLKQLDDTITLHQRKLEQLK 192

Query: 197 EKKQALVSYIVT--KGLNPDVKMKDSGIEW----VGLVPDHWEVKPFFALVTELNRKNTK 250
           E K+A +  +        P V+      EW    +G + + +                ++
Sbjct: 193 ELKKAYLQVMFPAKDERVPKVRFAAFEGEWAHRKLGEITESFS-------GGTPTAGKSE 245

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
               +I  +  G I        +     +  + ++V  G+I++      + +  +     
Sbjct: 246 YYGGDIPFIRSGEISSDSTELFITENGLNSSSAKMVKVGDILYALYGATSGEVGISKI-- 303

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP 370
              G I  A +A++P   D++YL           +      G + +L    VK L +++P
Sbjct: 304 --TGAINQAILAIRPSKNDNSYLIIQWLRKQKNTIISTYLQGGQGNLSSSIVKNLIIMLP 361

Query: 371 -PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
              +EQ  +         R+D ++   +  +  LK+ ++S++ 
Sbjct: 362 QNKEEQEKVGIF----FKRLDDIITLHQNKLEQLKDLKTSYLQ 400



 Score = 66.7 bits (161), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 31/186 (16%), Positives = 57/186 (30%), Gaps = 9/186 (4%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
            W    +   T+  +G T  +GK      DI +I   ++ S + +           ++S+
Sbjct: 221 EWAHRKLGEITESFSGGTPTAGKSEYYGGDIPFIRSGEISSDSTELF---ITENGLNSSS 277

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
             +   G ILY   G    +  I+   G  +   L ++P       L    L       I
Sbjct: 278 AKMVKVGDILYALYGATSGEVGISKITGAINQAILAIRPSKNDNSYLIIQWLRKQKNTII 337

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
               +G   + +       I M      EQ  +          I     +  +  +L   
Sbjct: 338 STYLQGGQGNLSSSIVKNLIIMLPQNKEEQEKVGIFFKRLDDIITLHQNKLEQLKDLKTS 397

Query: 198 KKQALV 203
             Q + 
Sbjct: 398 YLQNMF 403


>gi|154174911|ref|YP_001408734.1| putative type I restriction-modification system, S subunit
           [Campylobacter curvus 525.92]
 gi|153793147|gb|EAT99394.2| putative type I restriction-modification system, S subunit
           [Campylobacter curvus 525.92]
          Length = 528

 Score =  120 bits (301), Expect = 4e-25,   Method: Composition-based stats.
 Identities = 59/448 (13%), Positives = 128/448 (28%), Gaps = 73/448 (16%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            IP+ W  V +   + L T  T ++       I ++ ++++  G   +      S++   
Sbjct: 84  EIPQSWSWVRLGEISSLITDGTHKTPTYVSNGIPFLTIQNISKGFFDFSTIKYISKEEHK 143

Query: 76  STVSIFAK--GQILYGKLGPYLRKAII---ADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
                       IL+ ++G            DF+   S   + L     +  +++    S
Sbjct: 144 CLCKRVRPQQNDILFCRIGTLGEAIKCTLNFDFNIFVSLGLIRLHDARFVDYVVKFINSS 203

Query: 131 IDVTQRIEAICEGATM-SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
           +      +    G T     +   + +IP+P+PPL+EQ  I +K+      I+    ++ 
Sbjct: 204 VMQKWIEQNKVGGGTHTFKINLGSMYSIPLPLPPLSEQKRIVDKLEEILQLIEKYKEDKE 263

Query: 190 RFIELLKEKK----QALVSYIVTKGLNPDV------------------------------ 215
           +  EL         ++++ Y V   L                                  
Sbjct: 264 KLDELNLSFPSKLKKSILDYAVKGKLVEQNLEDESVEILLQKIGQEKQRLVKDKKLKADK 323

Query: 216 --------------------KMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNT------ 249
                               + +    E    +P  W      ++               
Sbjct: 324 FPQSTIFIGEDNSPYEKIGKETRCIEDEIPFEIPSSWAWVRLGSMGVAQTGSTPSTQVRD 383

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
              +              ++  N  L  +  E  ++ + G I+   I     K       
Sbjct: 384 FYGDYMPFIKPADITNSGIDYNNEKLSKKGTEVGRVAEKGSILMVCIGGSLGKCYFNDRI 443

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
           V     I S                +L+ S+   ++           +     + + + +
Sbjct: 444 VSFNQQINS---LTPFFSSYKFIFYYLLSSHFFEQLQDRATGTATPIVNKTSWESILIPL 500

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIE 397
           PP+ EQ  I   I      +D+L   ++
Sbjct: 501 PPLPEQKRIVTKIEELLKFVDILQSSLK 528



 Score = 81.8 bits (200), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 40/262 (15%), Positives = 86/262 (32%), Gaps = 25/262 (9%)

Query: 179 VRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMK------DSGIEWVGLVPDHW 232
            ++   I +    +   K+ K +    ++ KG +     K          E    +P  W
Sbjct: 30  SKLVEQIRKEKDRLIKDKKIKPSKFDSVIFKGEDNLHYEKIGEETRCIEDEIPFEIPQSW 89

Query: 233 EVKPFFAL---VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDP- 288
                  +   +T+   K    + + I  L+  NI +     +        E   +    
Sbjct: 90  SWVRLGEISSLITDGTHKTPTYVSNGIPFLTIQNISKGFFDFSTIKYISKEEHKCLCKRV 149

Query: 289 ----GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCK 344
                +I+F  I    +  +++     +  I  S  +          Y+   + S  + K
Sbjct: 150 RPQQNDILFCRIGTLGE--AIKCTLNFDFNIFVSLGLIRLHDARFVDYVVKFINSSVMQK 207

Query: 345 VF--YAMGSGLRQ-SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
                 +G G     +    +  +P+ +PP+ EQ  I + +      I+   E  E+ + 
Sbjct: 208 WIEQNKVGGGTHTFKINLGSMYSIPLPLPPLSEQKRIVDKLEEILQLIEKYKEDKEK-LD 266

Query: 402 LLK-----ERRSSFIAAAVTGQ 418
            L      + + S +  AV G+
Sbjct: 267 ELNLSFPSKLKKSILDYAVKGK 288


>gi|168490597|ref|ZP_02714740.1| type I site-specific deoxyribonuclease chain S [Streptococcus
           pneumoniae CDC0288-04]
 gi|183574925|gb|EDT95453.1| type I site-specific deoxyribonuclease chain S [Streptococcus
           pneumoniae CDC0288-04]
          Length = 522

 Score =  120 bits (301), Expect = 4e-25,   Method: Composition-based stats.
 Identities = 73/440 (16%), Positives = 147/440 (33%), Gaps = 66/440 (15%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNSR 71
            IP  W+ V      ++  G +    KD        I +I + D E G           +
Sbjct: 83  DIPDTWEWVRFSTLVEIIRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINNVKEKIK 142

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
           +S  +      KG  L      + R  I+     I      +   ++ L +    ++LS 
Sbjct: 143 KSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYLFYILSS 202

Query: 132 DV-TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
           +V   +  ++  GA + + +   + +I +P+PPL+EQ  I E I +   ++D       R
Sbjct: 203 NVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLSEQQRIVEAIESALEKVDEYAESYNR 262

Query: 191 FIELLKEKK----QALVSYIVTKGLNPDVKMKDS-------------------------- 220
             +L KE      ++++ Y +   L       +S                          
Sbjct: 263 LEQLDKEFPDKLKKSILQYAMQGKLVEQDPNDESVEVLLEKIRAEKQKLFEEGKIKKKDL 322

Query: 221 -------------GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK 267
                          E    +P+ WE      + + + R  +    +  +         +
Sbjct: 323 DISIVSQGDDNSYYEEVPCEIPESWEWVRLNDITSYIQRGKSPKYSNIPIYPVIAQKCNQ 382

Query: 268 LETRNMGL-------KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA- 319
               ++ L          SY+  +++  G++++    L    R     +         A 
Sbjct: 383 WSGFSIDLARFIDPETVHSYQKERLLRDGDLMWNSTGLGTLGRLAIYHENKNPYAWAVAD 442

Query: 320 ----YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIK 373
                + V    I+  ++   + S  +  V     SG   ++ L  + +K   + +PP+ 
Sbjct: 443 SHVTVIRVLSGVINCHFIYNFLSSPIVQSVIEEKASGSTKQKELLTKTIKEYLIPLPPLP 502

Query: 374 EQFDITNVINVETARIDVLV 393
           EQ  I + I    A ID L+
Sbjct: 503 EQSRIVDKIEQFFAHIDALI 522



 Score = 81.4 bits (199), Expect = 3e-13,   Method: Composition-based stats.
 Identities = 43/210 (20%), Positives = 81/210 (38%), Gaps = 12/210 (5%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
            I+    +PD WE   F  LV  +   + + I+  + S   G    K+     G K  + 
Sbjct: 77  EIDVPYDIPDTWEWVRFSTLVEIIRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINN 136

Query: 281 ETYQIVDPG-----EIVFRFIDLQNDKRSLRSAQVMERGIITSAY--MAVKPHGIDSTYL 333
              +I   G      +      L N     R   +   G I   +  ++   + ++  YL
Sbjct: 137 VKEKIKKSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYL 196

Query: 334 AWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            +++ S  +   F ++ SG   ++L  + V  + + +PP+ EQ  I   I     ++D  
Sbjct: 197 FYILSSNVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLSEQQRIVEAIESALEKVDEY 256

Query: 393 VEKIEQSIVLLKE----RRSSFIAAAVTGQ 418
            E   +   L KE     + S +  A+ G+
Sbjct: 257 AESYNRLEQLDKEFPDKLKKSILQYAMQGK 286


>gi|260776278|ref|ZP_05885173.1| type I restriction-modification system specificity subunit S
           [Vibrio coralliilyticus ATCC BAA-450]
 gi|260607501|gb|EEX33766.1| type I restriction-modification system specificity subunit S
           [Vibrio coralliilyticus ATCC BAA-450]
          Length = 424

 Score =  120 bits (300), Expect = 4e-25,   Method: Composition-based stats.
 Identities = 64/416 (15%), Positives = 130/416 (31%), Gaps = 38/416 (9%)

Query: 24  HWKVVPIKRF-TKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            WK   +    +K+ +G T   G+       I +I  ++V                +  S
Sbjct: 18  SWKTTKLGALTSKVGSGATPRGGEKAYSTSGIPFIRSQNVNYNRLLLNDIRYIPENTHAS 77

Query: 77  -TVSIFAKGQILYGKLGPYLRKAIIADFD---GICSTQFLVLQPKDVLPELLQGWLLSID 132
              S      IL    G  + ++ +       G  +    +++ K+  P   Q  L S  
Sbjct: 78  MKRSQIQPKDILLNITGASIGRSCVVPDCFQDGNLNQHVCIIRLKNDDPYFTQSLLASYR 137

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
             + +     G      +++ I    M  P L EQ  I   +     ++D  I       
Sbjct: 138 GEKLVFQGMAGGGREGLNFESIKGFKMAFPTLPEQQKIASFL----SKVDEKIALLTEKK 193

Query: 193 ELLKEKKQALVSYIVT----------KGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVT 242
           + L E K+ ++  +              + P ++ K           +       FA + 
Sbjct: 194 DKLAEYKKGVMQQLFNGKWQEQDGQLTFIPPTLRFKADDGSEFPDWEEKALGD--FARIY 251

Query: 243 ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI---VDPGEIVFRFIDLQ 299
           +   +  K ++  +   S  ++      +   +  E Y        +  G+I+   I   
Sbjct: 252 DGTHQTPKYVDEGVPFYSVEHVTANQFEKTKYISEEVYAKECKRVTLKKGDILLTRIGSV 311

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR--QSL 357
            D R +     +      S  +      I   YLA  M+S +     +     +   + +
Sbjct: 312 GDVRLI--DWDVRASFYVSLALVKYNDEIVGQYLASFMQSPNFQSELWKRMIHVAFPKKI 369

Query: 358 KFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
              ++    V VP   EQ  I N ++     ID  ++     +   KE +   +  
Sbjct: 370 NLGEIGHCLVSVPSRDEQTKIANFLSA----IDQKIDLANSELEKAKEWKRGLLQQ 421



 Score = 97.6 bits (241), Expect = 3e-18,   Method: Composition-based stats.
 Identities = 32/178 (17%), Positives = 62/178 (34%), Gaps = 10/178 (5%)

Query: 246 RKNTKLIESNILSLSYGN-IIQKLETRNMGLKPESYETYQI---VDPGEIVFRFIDLQND 301
                   S I  +   N    +L   ++   PE+         + P +I+         
Sbjct: 39  GGEKAYSTSGIPFIRSQNVNYNRLLLNDIRYIPENTHASMKRSQIQPKDILLNITGASI- 97

Query: 302 KRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV-FYAMGSGLRQSLKFE 360
            RS       + G +      ++    D  +   L+ SY   K+ F  M  G R+ L FE
Sbjct: 98  GRSCVVPDCFQDGNLNQHVCIIRLKNDDPYFTQSLLASYRGEKLVFQGMAGGGREGLNFE 157

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            +K   +  P + EQ  I + +    +++D  +  + +    L E +   +     G+
Sbjct: 158 SIKGFKMAFPTLPEQQKIASFL----SKVDEKIALLTEKKDKLAEYKKGVMQQLFNGK 211



 Score = 62.5 bits (150), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 30/190 (15%), Positives = 61/190 (32%), Gaps = 10/190 (5%)

Query: 24  HWKVVPIKRFTKLNTG--RTSES-GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
            W+   +  F ++  G  +T +   + + +  +E V +   +          +       
Sbjct: 238 DWEEKALGDFARIYDGTHQTPKYVDEGVPFYSVEHVTANQFEKTKYISEEVYAKECKRVT 297

Query: 81  FAKGQILYGKLGPYLRKAIIADFD---GICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
             KG IL  ++G      +I          S   +    + V   L          ++  
Sbjct: 298 LKKGDILLTRIGSVGDVRLIDWDVRASFYVSLALVKYNDEIVGQYLASFMQSPNFQSELW 357

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           + +   A     +   IG+  + +P   EQ  I   +      ID  I      +E  KE
Sbjct: 358 KRMIHVAFPKKINLGEIGHCLVSVPSRDEQTKIANFL----SAIDQKIDLANSELEKAKE 413

Query: 198 KKQALVSYIV 207
            K+ L+  + 
Sbjct: 414 WKRGLLQQMF 423


>gi|218901963|ref|YP_002449797.1| restriction modification system DNA specificity domain protein
           [Bacillus cereus AH820]
 gi|218537816|gb|ACK90214.1| restriction modification system DNA specificity domain protein
           [Bacillus cereus AH820]
          Length = 495

 Score =  120 bits (300), Expect = 4e-25,   Method: Composition-based stats.
 Identities = 57/449 (12%), Positives = 131/449 (29%), Gaps = 52/449 (11%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRT----SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            +P +W    +   +KL    +     +  +    +   ++  G   +      S     
Sbjct: 25  EVPGNWIWGNLNSLSKLIVDGSHNPPPKKNEGFPMLSGRNILDGEINFETDRYVSEDDYQ 84

Query: 76  STVSI--FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS-ID 132
                       +L   +G   R  ++         Q  V   K ++      +  S   
Sbjct: 85  KEYKRTPIESNDVLLTIVGTIGRTTVVPKEFSPFVLQRSVALIKPMVNSNYLSYYFSSPY 144

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
               ++   +G        K + +  +P+PPL EQ  I EK+     R++          
Sbjct: 145 FQYYLQKNAKGTAQKGVYLKTLKSSRIPLPPLMEQKRITEKVEGLLGRVEEAKALIEEAK 204

Query: 193 ELLKEKKQALVSYIVTKGLNPDVK-----------------------------MKDSGI- 222
           +  + ++  ++       L+   +                             +K + + 
Sbjct: 205 KTFEVRRATILDKAFRGELSAKWREDNRIAEDASSLLERIQIQKRNSSIKSNTLKITSVI 264

Query: 223 --EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
             E    +P+ W       +   +   +    +      +     Q +   ++ L   +Y
Sbjct: 265 KEEEPFELPNGWTWVRLGEISYYVTSGSRDWSKYYSDEGAMFIRTQDINKNSLNLSDVAY 324

Query: 281 --------ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
                       +V+  +I+         K +L    + E  +  S  +        S Y
Sbjct: 325 VSLPEKVEGKRSLVEKADILTTITGANVGKCALVETNIKEAYVSQSVALTKLIEKSISKY 384

Query: 333 LAWLMRSY--DLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
           +   + S      ++        R  L  ED+K + + + P+ EQ  I  ++       +
Sbjct: 385 VHLSLLSPCGGGNELEERAYGIGRPVLSLEDIKNIKIPLAPMAEQQVIVKLVETLLE--N 442

Query: 391 VLVEKIEQSIVL-LKERRSSFIAAAVTGQ 418
                   SI   L+  + S +  A  G+
Sbjct: 443 EKESLNLASIEKHLETLKQSILNKAFRGE 471



 Score = 79.8 bits (195), Expect = 8e-13,   Method: Composition-based stats.
 Identities = 30/205 (14%), Positives = 73/205 (35%), Gaps = 12/205 (5%)

Query: 223 EWVGLVPDHWEVKPFFA--------LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMG 274
           E    VP +W      +              +KN      +  ++  G I  + +     
Sbjct: 21  EHPYEVPGNWIWGNLNSLSKLIVDGSHNPPPKKNEGFPMLSGRNILDGEINFETDRYVSE 80

Query: 275 LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
              +       ++  +++   +      R+    +     ++  +   +KP  ++S YL+
Sbjct: 81  DDYQKEYKRTPIESNDVLLTIVGTIG--RTTVVPKEFSPFVLQRSVALIKP-MVNSNYLS 137

Query: 335 WLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
           +   S            G  ++ +  + +K   + +PP+ EQ  IT  +     R++   
Sbjct: 138 YYFSSPYFQYYLQKNAKGTAQKGVYLKTLKSSRIPLPPLMEQKRITEKVEGLLGRVEEAK 197

Query: 394 EKIEQSIVLLKERRSSFIAAAVTGQ 418
             IE++    + RR++ +  A  G+
Sbjct: 198 ALIEEAKKTFEVRRATILDKAFRGE 222


>gi|134045656|ref|YP_001097142.1| restriction modification system DNA specificity subunit
           [Methanococcus maripaludis C5]
 gi|132663281|gb|ABO34927.1| restriction modification system DNA specificity domain
           [Methanococcus maripaludis C5]
          Length = 417

 Score =  120 bits (300), Expect = 4e-25,   Method: Composition-based stats.
 Identities = 70/435 (16%), Positives = 148/435 (34%), Gaps = 46/435 (10%)

Query: 8   PQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSE----SGKDIIYIGLEDVESGTGKY 63
             YK++    IG IP+ W+ V +     L  G          + + ++ + +V      +
Sbjct: 6   EGYKETK---IGVIPEDWQAVKLSESVNLFGGFAFSSEDSKSEGVKWLKIANVGIDKITW 62

Query: 64  LPKDG--NSRQSDTSTVSIFAKGQILYGKLGPYLR------KAIIADFDGICSTQFLVLQ 115
             +           S  ++ +K  I+     P L       K    D   + + +   L 
Sbjct: 63  ENESYLPFEYLEKYSNYAL-SKNDIVMALTRPILNSKLKISKITDLDIPCLLNQRVGKLD 121

Query: 116 PKDV-LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKI 174
           PK     + +            +     G    +  ++ +  I +P+PPL EQ  I E +
Sbjct: 122 PKQNTFGDYIYHSCKMPMFIHSMNVAMAGTDPPNIGFRDLSKIQIPLPPLPEQQKIAEIL 181

Query: 175 IAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEV 234
                  D  I      I    E K+ L+  ++            +G        D W+ 
Sbjct: 182 ----STWDNSIENLENLISKKIEIKKGLMQNLL------------TGNVRFPGFEDEWKE 225

Query: 235 KPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL-KPESYETYQIVDPGEIVF 293
               +L+ E+ RK           +S       +  R          +T Q +   + + 
Sbjct: 226 VKIGSLLNEVKRKIEWDDSKLYDLVSLKRRSGGIFYRESLYGHQILTKTLQPIKEDDFLI 285

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVK---PHGIDSTYLAWLMRSYDLCKVFYAMG 350
             +           ++  E   ++S+Y       P   +  +  WL ++  +    Y   
Sbjct: 286 SKM-QVLHGALGAVSKEFEDMYVSSSYAIFNSKTPEKFNIKFFDWLSKTPIMYHYAYISS 344

Query: 351 SGL---RQSLKFEDVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
            G+   + +   +   +  V+VP  I+EQ  I  V++ +       +E ++Q + L+K +
Sbjct: 345 YGVHIEKMTFNLKLYLKEKVMVPNSIEEQESIVRVLSTQDKE----IELLKQKLELVKTQ 400

Query: 407 RSSFIAAAVTGQIDL 421
           +   +   +TG++ +
Sbjct: 401 KKGLMQNLLTGKVRV 415



 Score = 81.0 bits (198), Expect = 4e-13,   Method: Composition-based stats.
 Identities = 26/213 (12%), Positives = 70/213 (32%), Gaps = 15/213 (7%)

Query: 225 VGLVPDHWEVKPFFALVTELNR-------KNTKLIESNILSLSYGNIIQKLETRNMGLKP 277
           +G++P+ W+       V              ++ ++   ++    + I       +  + 
Sbjct: 13  IGVIPEDWQAVKLSESVNLFGGFAFSSEDSKSEGVKWLKIANVGIDKITWENESYLPFEY 72

Query: 278 ESYETYQIVDPGEIVFRFI--DLQNDKRSLRSAQVMERGIITSAYMAVKPHGID-STYLA 334
               +   +   +IV       L +  +  +   +    ++      + P       Y+ 
Sbjct: 73  LEKYSNYALSKNDIVMALTRPILNSKLKISKITDLDIPCLLNQRVGKLDPKQNTFGDYIY 132

Query: 335 WLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
              +            +G    ++ F D+ ++ + +PP+ EQ  I  +++     I+ L 
Sbjct: 133 HSCKMPMFIHSMNVAMAGTDPPNIGFRDLSKIQIPLPPLPEQQKIAEILSTWDNSIENLE 192

Query: 394 EKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
             I + I    E +   +   +TG +   G   
Sbjct: 193 NLISKKI----EIKKGLMQNLLTGNVRFPGFED 221


>gi|149026393|ref|ZP_01836531.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae SP23-BS72]
 gi|147929276|gb|EDK80276.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae SP23-BS72]
          Length = 522

 Score =  120 bits (300), Expect = 4e-25,   Method: Composition-based stats.
 Identities = 73/440 (16%), Positives = 149/440 (33%), Gaps = 66/440 (15%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNSR 71
            IP  W+ V      ++  G +    KD        I +I + D E G           +
Sbjct: 83  DIPDTWEWVRFSTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINNVKEKIK 142

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
           +S  +      KG  L      + R  I+     I      +   ++ L +    ++LS 
Sbjct: 143 KSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYLFYILSS 202

Query: 132 D-VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
           + V  +  ++  GA + + +   + +I +P+PPL+EQ  I E I +   ++D       R
Sbjct: 203 NVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLSEQQRIVEAIESALEKVDEYAESYNR 262

Query: 191 FIELLKEKK----QALVSYIVTKGLNPDVKMKDS-------------------------- 220
             +L KE      ++++ Y +   L       +S                          
Sbjct: 263 LEQLDKEFPDKLKKSILQYAMQGKLVEQDPNDESVEVLLEKIRAEKQKLFEEDKIKKKDL 322

Query: 221 -------------GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK 267
                          E    +P+ WE      + + + R  +    +  +         +
Sbjct: 323 DISIVSQGDDNSYYEEVPCEIPESWEWVRLNDITSYIQRGKSPKYSNISIYPVIAQKCNQ 382

Query: 268 LETRNMGL-------KPESYETYQIVDPGEIVFRFIDLQNDKR-SLRSAQVMERGIITSA 319
               ++ L          SY+  +++  G++++    L    R ++        G   + 
Sbjct: 383 WSGFSIDLARFIDPETVHSYQKERLLRDGDLMWNSTGLGTLGRLAIYHENKNPYGWAVAD 442

Query: 320 ----YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIK 373
                + V    I+  ++   + S  +  V     SG   ++ L  + +K   + +PP+ 
Sbjct: 443 SHVTVIRVLSGVINCHFIYNFLSSPIVQSVIEEKASGSTKQKELLTKTIKEYLIPLPPLP 502

Query: 374 EQFDITNVINVETARIDVLV 393
           EQ  I + I    A ID L+
Sbjct: 503 EQSRIVDKIEQFFAHIDALI 522



 Score = 81.0 bits (198), Expect = 3e-13,   Method: Composition-based stats.
 Identities = 43/210 (20%), Positives = 81/210 (38%), Gaps = 12/210 (5%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
            I+    +PD WE   F  LV  +   + + I+  + S   G    K+     G K  + 
Sbjct: 77  EIDVPYDIPDTWEWVRFSTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINN 136

Query: 281 ETYQIVDPG-----EIVFRFIDLQNDKRSLRSAQVMERGIITSAY--MAVKPHGIDSTYL 333
              +I   G      +      L N     R   +   G I   +  ++   + ++  YL
Sbjct: 137 VKEKIKKSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYL 196

Query: 334 AWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            +++ S  +   F ++ SG   ++L  + V  + + +PP+ EQ  I   I     ++D  
Sbjct: 197 FYILSSNVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLSEQQRIVEAIESALEKVDEY 256

Query: 393 VEKIEQSIVLLKE----RRSSFIAAAVTGQ 418
            E   +   L KE     + S +  A+ G+
Sbjct: 257 AESYNRLEQLDKEFPDKLKKSILQYAMQGK 286


>gi|313672542|ref|YP_004050653.1| restriction modification system DNA specificity domain
           [Calditerrivibrio nitroreducens DSM 19672]
 gi|312939298|gb|ADR18490.1| restriction modification system DNA specificity domain
           [Calditerrivibrio nitroreducens DSM 19672]
          Length = 395

 Score =  120 bits (300), Expect = 4e-25,   Method: Composition-based stats.
 Identities = 58/412 (14%), Positives = 132/412 (32%), Gaps = 32/412 (7%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESG--TGKYLPKDGNSR 71
            IP+ WK V +    ++ TG T ++        DI ++ + D  +G        K    +
Sbjct: 4   KIPEGWKRVKLGEVIEIITGGTPKTSVPEYWNGDIPWLSITDFNNGRKYCYNAEKKITEK 63

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
               ST +I  KGQI+    G       +   D   +     +  K  L      + L  
Sbjct: 64  GLKESTTNILKKGQIIISARGTV-GVISMLGRDMAFNQSCYGINAKAGLTFNDFIYYLLK 122

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
                  +   GA       +    I + +PPL EQ  I   + +   +ID L  +    
Sbjct: 123 FNIPHFISNSYGAVFDTITKQTFEQIIIKLPPLPEQKAIASVLSSLDDKIDLLHRQNQTL 182

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
            ++                   +   +   IE      +   +          +  +   
Sbjct: 183 EKM------------------AETLFRKWFIEDAKDDWEEVSLGNSELSTIINSGIDKFE 224

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
            E   L+              +  +              + F                 +
Sbjct: 225 GEKIYLATGDVQDTNITGGIKITYENRPSRANMQPVKFSVWFAKKGGVRKLLMFDDYSDI 284

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVP 370
            + I+++ +  +K + +   Y+   + + +  ++  +  SG ++  +  E +K++ +L P
Sbjct: 285 NKYILSTGFSGLKTNELSHYYIWCFILTKEFQEIKDSFVSGSVQPDITNEGIKQITILRP 344

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
              +Q  I    N     +    ++ +  I  L+  R + +   ++G++ ++
Sbjct: 345 --DDQTLI--NFNKIMKPLFYKCQQNKLQIRTLENLRDTLLPKLMSGEVRVK 392


>gi|163754483|ref|ZP_02161605.1| type I restriction-modification system, S subunit [Kordia algicida
           OT-1]
 gi|161325424|gb|EDP96751.1| type I restriction-modification system, S subunit [Kordia algicida
           OT-1]
          Length = 430

 Score =  120 bits (300), Expect = 5e-25,   Method: Composition-based stats.
 Identities = 66/424 (15%), Positives = 150/424 (35%), Gaps = 24/424 (5%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLP 65
           AYP+YK    +++  IP+ W ++P     +    +     ++++ + +        +   
Sbjct: 3   AYPKYKTIAFEYVTQIPEDWDLLPNIAIFEERNEK-GHIHEELLSVTIGKGVIKQSELNK 61

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ 125
           KD +    D S   +   G I+Y  +      +  +++ G+ S    VL+PK  +     
Sbjct: 62  KDSS--NPDKSNYKLVEIGDIVYS-MRFRQGASGYSNYKGLVSNACTVLKPKMKINPKFF 118

Query: 126 GWLLSIDVTQRI---EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
            +   +   Q      +           W+    +   +PPL  Q  I   +  +  +I 
Sbjct: 119 HYQYRLPFYQNYAERYSYGIADGQKPLRWQDFKRMYAFVPPLETQNQIVTYLEEKEKQIK 178

Query: 183 TLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVT 242
             + ++ R ++L + +  +L       G N     K    +W  L    W+++    + +
Sbjct: 179 QFVKKKNRIVDLTENQLNSL-----VFGKNKYTDFK----DWKDLFNTSWKIEKAKWVFS 229

Query: 243 ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK 302
           E N KN    E  + S     ++ K E     +     +  ++V   + V      +   
Sbjct: 230 ERNIKN-HPSERLLASTQDRGLVFKDEIEENYVTATQTDGLKLVCKNDFVISLRSFEGGI 288

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLA-WLMRSYDLCKVFYAMGSGLR--QSLKF 359
                  +                  +  Y   +L +S     +   + SG+R  +++ F
Sbjct: 289 ELSEVQGITSPAYNIFYLKKEFNDIKNLKYYYKYLFKSNQFIGLLNTVVSGIREGKNISF 348

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
           +D + L + +P         + I     ++      I++   L K+  +S I   + G++
Sbjct: 349 KDFRELYIPIPD----KKTIDKIYKLHLKLIDSKALIKKENELSKKLLTSLIENIIIGKM 404

Query: 420 DLRG 423
            +  
Sbjct: 405 KVPN 408



 Score = 67.1 bits (162), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 39/211 (18%), Positives = 86/211 (40%), Gaps = 12/211 (5%)

Query: 211 LNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLET 270
           +N   K K    E+V  +P+ W++ P  A+  E N K     E   +++  G +I++ E 
Sbjct: 1   MNAYPKYKTIAFEYVTQIPEDWDLLPNIAIFEERNEKGHIHEELLSVTIGKG-VIKQSEL 59

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
                       Y++V+ G+IV+        ++        +  +  +  +      I+ 
Sbjct: 60  NKKDSSNPDKSNYKLVEIGDIVYSMR----FRQGASGYSNYKGLVSNACTVLKPKMKINP 115

Query: 331 TYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
            +  +  R             G+   ++ L+++D KR+   VPP++ Q  I   +  +  
Sbjct: 116 KFFHYQYRLPFYQNYAERYSYGIADGQKPLRWQDFKRMYAFVPPLETQNQIVTYLEEKEK 175

Query: 388 RIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           +I   V+K  + + L + +    + + V G+
Sbjct: 176 QIKQFVKKKNRIVDLTENQ----LNSLVFGK 202


>gi|326406201|gb|ADZ63272.1| type I restriction enzyme, S subunit [Lactococcus lactis subsp.
           lactis CV56]
          Length = 420

 Score =  120 bits (300), Expect = 5e-25,   Method: Composition-based stats.
 Identities = 50/409 (12%), Positives = 123/409 (30%), Gaps = 33/409 (8%)

Query: 25  WKVVPIKRFTKLNTGRTS---------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           W+   +    ++  G +              +I ++ + DV    G+    +    ++  
Sbjct: 22  WEQRELGDLAEIVRGASPRPIQNPKWFNQNSEIGWLRISDVTEQNGRIHFLEQRISEAGQ 81

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
               +     +L        +  I     G+     + L PK  L      +        
Sbjct: 82  GKTRVLHSSHLLLSIAATVGKPVINYVPTGVHDGFLIFLNPKFDL---EFMFQWLEMFRP 138

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
           + +   +  +  + +   + N  + IP L EQ  I          +D  I  + R  E +
Sbjct: 139 QWQKYGQPGSQVNLNSDLVKNQKIFIPSLGEQKEISSF----FTNLDQTIAFQQRKFEKM 194

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN--TKLIE 253
           K  K A +S +         K +  G        +                K       +
Sbjct: 195 KSMKLAYLSEMFPAEGERKPKRRFPGFTDDWEQRELLSTIKSIVDFRGRTPKKLGMDWSD 254

Query: 254 SNILSLSYGNIIQKLETRNMGLKP------ESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
           S  L+LS  N+       N  +        + + + + +  G+++F       +   ++ 
Sbjct: 255 SGYLALSALNVKNGYIDFNEDVHYGNQELYDKWMSGKELYKGQVLFTTEAPMGNV--VQV 312

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMR--SYDLCKVFYAMGSGLRQSLKFEDVKRL 365
                  +            + +    +++         +      G  + +  + +++L
Sbjct: 313 PDDKGYILSQRTIAFNINKDLLTDSFLYVLLGSLKVFKDLSALSSGGTAKGVSQKSLEQL 372

Query: 366 PVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            V +P  I EQ  I+         +D  +   +Q +  L+  + +++  
Sbjct: 373 KVCIPKDIDEQSKISEF----FINLDQTIAFQQQKLEKLQNIKKAYLNE 417


>gi|15612487|ref|NP_224140.1| putative type I restriction enzyme (specificity subunit)
           [Helicobacter pylori J99]
 gi|4156033|gb|AAD06991.1| putative TYPE I RESTRICTION ENZYME (SPECIFICITY SUBUNIT)
           [Helicobacter pylori J99]
          Length = 624

 Score =  120 bits (300), Expect = 5e-25,   Method: Composition-based stats.
 Identities = 67/418 (16%), Positives = 150/418 (35%), Gaps = 33/418 (7%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDII-----YIGLEDVESGTGKYLPKDGNSRQSDTST 77
           ++W+ V +       +G   ++ +D I     YI   +V +          N +      
Sbjct: 218 QNWQKVRLGDIGITISGLAGKTKQDFINGNAKYITFLNVLNNVIIDTSILENVKIYPNEK 277

Query: 78  VSIFAKGQILYGKLGPYLRKAIIA-------DFDGICSTQFLVLQPKDVLPELLQGWLLS 130
            + F K  + +       ++  +        D   + S  F        +  L   +L++
Sbjct: 278 QNSFKKYDLFFNTSSETPKEVGMCAVLLDDIDQVFLNSFCFGFRIFDKAVDSLFLSYLIN 337

Query: 131 IDV-TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
            ++  +  E + +G+T  +    G  N+ + +PPL EQ+ I   +      I +L  ++ 
Sbjct: 338 SEIGRKAFENLAQGSTRYNLSKSGFNNVCLILPPLNEQIAIANILSDVDSEIISLKNKKR 397

Query: 190 RFIELLKEKKQALVSYIVT-KGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN 248
           +F  + K     L+S     KG N + +    G   +G+       K     +    +  
Sbjct: 398 QFENVKKALSFELLSQRKRLKGFNQNWQKVRLGD--IGITISGLAGKTKQDFINGNAK-- 453

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
                  I  L+  N +    +    +K    E        ++ F        +  + + 
Sbjct: 454 ------YITFLNVLNNVIIDTSILENVKIYPNEKQNSFKKYDLFFNTSSETPKEVGMCAV 507

Query: 309 --QVMERGIITSAYM--AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVK 363
               +++  + S      +    +DS +L++L+ S    K F  +  G  R +L      
Sbjct: 508 LLDDIDQVFLNSFCFGFRIFDKAVDSLFLSYLINSEIGRKAFENLAQGSTRYNLSKSGFN 567

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            + +++PP+ EQ  I N+++   + I  L  K  Q     +  + +     ++ +I +
Sbjct: 568 NVCLILPPLNEQIAIANILSDVDSEIISLKNKKRQ----FENVKKALNHDLMSAKIRV 621



 Score =  110 bits (275), Expect = 4e-22,   Method: Composition-based stats.
 Identities = 67/426 (15%), Positives = 145/426 (34%), Gaps = 35/426 (8%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDI--------------IYIGLEDVESGTGKYLPKD 67
           P +W+ V +    +L T   +    +I              I I   + E+   K     
Sbjct: 11  PSNWQKVRLGDILELLTDYHANGSYEILKNNVTLLKNVDFAIMIRTTNFENNDFKNDLIY 70

Query: 68  GNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPK-DVLPELLQG 126
            + +  +  + S    G IL  K+        +   +   S    +   +       L  
Sbjct: 71  IDKKAYEFLSKSKVFAGDILVNKIANAGTAYFMPKLNQPVSLGMNLFLLRIKPSYNNLFI 130

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           +    +  + ++    G+         I N+ +P+PPL EQ+ I   +      + +L  
Sbjct: 131 FKQIANYERVLKTFANGSATKTITKNVIKNLLIPLPPLNEQIAIANILSDVDRYLCSLDA 190

Query: 187 ERIRFIELLKEKKQALVSYIVT-KGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN 245
             ++   + K     L+S     KG N + +    G   +G+       K     +    
Sbjct: 191 LILKKESVKKALSFELLSQRKRLKGFNQNWQKVRLGD--IGITISGLAGKTKQDFINGNA 248

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
           +         I  L+  N +    +    +K    E        ++ F        +  +
Sbjct: 249 K--------YITFLNVLNNVIIDTSILENVKIYPNEKQNSFKKYDLFFNTSSETPKEVGM 300

Query: 306 RSA--QVMERGIITSAYM--AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFE 360
            +     +++  + S      +    +DS +L++L+ S    K F  +  G  R +L   
Sbjct: 301 CAVLLDDIDQVFLNSFCFGFRIFDKAVDSLFLSYLINSEIGRKAFENLAQGSTRYNLSKS 360

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQID 420
               + +++PP+ EQ  I N+++   + I  L  K  Q     +  + +     ++ +  
Sbjct: 361 GFNNVCLILPPLNEQIAIANILSDVDSEIISLKNKKRQ----FENVKKALSFELLSQRKR 416

Query: 421 LRGESQ 426
           L+G +Q
Sbjct: 417 LKGFNQ 422


>gi|289435129|ref|YP_003465001.1| type I restriction-modification system, S subunit [Listeria
           seeligeri serovar 1/2b str. SLCC3954]
 gi|289171373|emb|CBH27915.1| type I restriction-modification system, S subunit [Listeria
           seeligeri serovar 1/2b str. SLCC3954]
          Length = 412

 Score =  120 bits (300), Expect = 5e-25,   Method: Composition-based stats.
 Identities = 64/389 (16%), Positives = 129/389 (33%), Gaps = 25/389 (6%)

Query: 44  SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADF 103
              +    G E+V      +  +  +  + +    S      I+   +G     AI+   
Sbjct: 37  KRGNYRVYGQENVYKNDFSFGDRYLSKEKFEGLKSSEICSNDIVISTMGTIGHCAIVPSN 96

Query: 104 --DGICSTQFLVLQ--PKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPM 159
              GI  +  + L+   K V    L+  L S  +  +I+ +  G  M       I  I +
Sbjct: 97  ILPGIMDSHLIRLRLDNKKVNHLFLKYILQSESIQNQIKKMSVGGIMDGLSTSIIKQIEI 156

Query: 160 PIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKD 219
             P + EQ  I E +      ID LI      I+  +  K A +  +VT       + K 
Sbjct: 157 SYPSINEQKNIAESL----SDIDQLINSLSELIKKKESIKNAFLENLVTG----ARRFKG 208

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
              EW     +        A +       ++ +ES    L  G   +K       +    
Sbjct: 209 FDGEW--ENINLGGTSLLKARIGWQGLTTSEYLESGFSYLITGTDFKKGTINWKDIHFVE 266

Query: 280 YETYQI-----VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
              Y       V   +++            +++             +    +   + Y+ 
Sbjct: 267 KHRYDQDKNIQVKDDDLLLTKDGTIGKVALVKNLNKPATLNSGVFVIRPIKNKYLTEYVY 326

Query: 335 WLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPP-IKEQFDITNVINVETARIDVL 392
           +++ S         + +G     L  +D+      +P  +KEQ  +  +++     ID  
Sbjct: 327 YVLTSSVFRTFLNKLAAGSTISHLYQKDLTNFEFFLPSSLKEQKAVATILSD----IDKE 382

Query: 393 VEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           + K+E+ +   K+ +   +   +TG+I L
Sbjct: 383 IFKLEEKLEKYKKIKQGMMEQLLTGKIRL 411



 Score = 79.8 bits (195), Expect = 8e-13,   Method: Composition-based stats.
 Identities = 28/164 (17%), Positives = 63/164 (38%), Gaps = 6/164 (3%)

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
           Y N     +      K E  ++ +I    +IV   +        + S  +          
Sbjct: 50  YKNDFSFGDRYLSKEKFEGLKSSEICS-NDIVISTMGTIGHCAIVPSNILPGIMDSHLIR 108

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
           + +    ++  +L ++++S  +      M   G+   L    +K++ +  P I EQ +I 
Sbjct: 109 LRLDNKKVNHLFLKYILQSESIQNQIKKMSVGGIMDGLSTSIIKQIEISYPSINEQKNIA 168

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
             ++     ID L+  + + I   +  +++F+   VTG    +G
Sbjct: 169 ESLSD----IDQLINSLSELIKKKESIKNAFLENLVTGARRFKG 208


>gi|58583087|ref|YP_202103.1| Type I restriction enzyme StySPI specificity protein [Xanthomonas
           oryzae pv. oryzae KACC10331]
 gi|58427681|gb|AAW76718.1| Type I restriction enzyme StySPI specificity protein [Xanthomonas
           oryzae pv. oryzae KACC10331]
          Length = 464

 Score =  120 bits (300), Expect = 5e-25,   Method: Composition-based stats.
 Identities = 70/436 (16%), Positives = 142/436 (32%), Gaps = 42/436 (9%)

Query: 15  VQW-IGAIPKHWKVVPIKRFTKLNTGRTSES--------GKDIIYIGLEDVESGTGKYLP 65
           V+W +  +P  W    +        G T              +  +   ++ SG   +  
Sbjct: 2   VRWTVSELPGGWCTSALSGLADTVRGVTYNKLQAQSTAEEGLLPILRANNINSGKLVFDD 61

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIA-----DFDGICSTQFLVLQPKDVL 120
                     S   +   G I+             +      + G       VL+    +
Sbjct: 62  LVFVPE-DCVSRTQVLLAGDIVVAMSSGSRSVVGKSAQVEAPWPGSFGAFCGVLRASQEI 120

Query: 121 P-ELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
               L  +  S     R+  +  G  +++        I +P+ PLAEQ  I +K+ A   
Sbjct: 121 DARYLYYFTQSRAYRDRVSELAAGVNINNLKPGHFEKISVPLAPLAEQKRIAQKLDALLA 180

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVTKGLNPD---VKMKDSGIEWVGLVPDHWEVKP 236
           ++DTL         LLK  ++++V   V   L+ D      K    E +G + + W    
Sbjct: 181 QVDTLKARIDAIPALLKRFRKSVVHSAVIGRLSADLRVPIEKSEEQEQLGPL-ESWREVT 239

Query: 237 FFALVTELNRKNTK-------LIESNILSLSYGNIIQKL---ETRNMGLKPESYETYQIV 286
             +L      K+         L  S    +  G++        +  +       +  ++ 
Sbjct: 240 LASLGELSRGKSKHRPRNDSRLYGSEYPFIQTGDVANSGGALTSSKVFYSEFGLKQSRLF 299

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF 346
             G +         D   L         ++             + ++ +++   D  +  
Sbjct: 300 PSGTLCITIAANIADTAMLAIDACFPDSVVG---FIPNKDDCVTQFIKYVI--DDNKESL 354

Query: 347 YAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK---IEQSIVL 402
            A+  +  ++++  + + ++ + +PPIKEQ +I   +    A  D L  K    +Q I  
Sbjct: 355 EALAPATAQKNINLKVLNQVKLRIPPIKEQTEIVRHVEQLFAYADQLEAKVAAAQQRIDA 414

Query: 403 LKERRSSFIAAAVTGQ 418
           L     S +A A  G+
Sbjct: 415 LT---QSLLAKAFRGE 427


>gi|84390143|ref|ZP_00991405.1| type I restriction enzyme specificity protein [Vibrio splendidus
           12B01]
 gi|84376797|gb|EAP93672.1| type I restriction enzyme specificity protein [Vibrio splendidus
           12B01]
          Length = 496

 Score =  120 bits (300), Expect = 5e-25,   Method: Composition-based stats.
 Identities = 77/449 (17%), Positives = 146/449 (32%), Gaps = 50/449 (11%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKY-LPKDGNSRQSDTSTV 78
            +PK W  + I            E+     YI +  V+        P +     + +   
Sbjct: 3   ELPKGWITIKIDSLCAKPKQLKPEASWKFNYIDISSVDREKKLICEPSEILGSDAPSRAR 62

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDG---ICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
            I   G +L     P L             + ST F VL+P  +  + L   + S     
Sbjct: 63  KIVNTGDVLVSMTRPNLNAVAKVPEKYNGQVASTGFDVLKPFLIESDWLFSVVRSQPFID 122

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            I     GA         I +  MP+PPLAEQ  I EK+     ++DT+        +LL
Sbjct: 123 SISGTTIGALYPACKTSDIRDYEMPLPPLAEQKRIVEKLDEVLAQVDTIKARLDGIPDLL 182

Query: 196 KEKKQALVSYIVTKGLNPDVKM-----------KDSGIEWVGLV---------------- 228
           K  +Q++++  V+  L  + ++           K + +   G +                
Sbjct: 183 KRFRQSVLASAVSGTLTKEWRLTNELTKAEEELKSNFLAKSGKLKLRGKQTNFSELSLIT 242

Query: 229 -PDHWEVKP-----------FFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNM--- 273
            PD W                 A       K     +  +  +   ++ +    +N    
Sbjct: 243 LPDSWTWAQNYKLAKDESNAICAGPFGTIFKAKDFRDEGVPIIFLRHVKEIGFNQNKPNY 302

Query: 274 --GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY-MAVKPHGIDS 330
             G   E       V  GE++   +     +  +    +    +      M V    +  
Sbjct: 303 MDGDVWEELHQEYSVHGGELLVTKLGDPPGECCIYPENMGTAMVTPDVLKMNVDEDIVLR 362

Query: 331 TYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
            YL     S    ++  A+     R  +     K  P+ +P ++EQ +I  +++   A  
Sbjct: 363 KYLRSYFNSPISTEIIEALAFGATRLRIDIAMFKGFPIPLPSMEEQKEIVRLVDQYFAFA 422

Query: 390 DVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           D +  +++++   +     S +A A  G+
Sbjct: 423 DTIEAQVKKAQAKVDNLTQSILAKAFRGE 451


>gi|52079177|ref|YP_077968.1| Type I RM system specificity subunit HsdIB [Bacillus licheniformis
           ATCC 14580]
 gi|52784544|ref|YP_090373.1| hypothetical protein BLi00745 [Bacillus licheniformis ATCC 14580]
 gi|52002388|gb|AAU22330.1| Type I RM system specificity subunit HsdIB [Bacillus licheniformis
           ATCC 14580]
 gi|52347046|gb|AAU39680.1| putative protein [Bacillus licheniformis ATCC 14580]
          Length = 397

 Score =  120 bits (300), Expect = 5e-25,   Method: Composition-based stats.
 Identities = 71/400 (17%), Positives = 138/400 (34%), Gaps = 32/400 (8%)

Query: 24  HWKVVPIKRFTKLNTGRTSE------SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
            W+   +    ++ +G T             IYI ++D+   T + L           + 
Sbjct: 17  DWEERKLGELVEIKSGWTPSDFVETQKCNGEIYIKVDDLNYSTRELLDSKMKVAI--HAK 74

Query: 78  VSIFAKGQILYGKLGP--YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
                KG  ++ K G      K  I   DG   T  + L+P+++  E L   +       
Sbjct: 75  YHTIKKGSTIFPKRGAAIMTNKVRILGTDGYMDTNMMALEPRNINGEFLYTLID----RT 130

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            +  I + +T+   + K +    + +P L EQ  I         ++D  I    + +  L
Sbjct: 131 GLFKIADTSTIPQINNKHVEPYKILLPNLYEQKNIGNF----FKQLDDTIALHQQELTTL 186

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
           K+ KQ  +  +  K      +++  G          WE +    +   ++ KN   +   
Sbjct: 187 KQTKQGFLQKMFPKEGESVPEVRFPG------FTGEWEQRKADEIFYSVSDKNHSNLPVL 240

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
             +   G + +     ++    +S + Y+ V PG+ V      Q          +     
Sbjct: 241 SATQEKGMVYRDETGLDINYDVKSTKNYKRVLPGQFVIHLRSFQGGFAFSNIEGITSPAY 300

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR--QSLKFEDVKRLPVLVPPIK 373
               +         S +   ++ S    K   A+  G+R  +S+ F D   L   VP   
Sbjct: 301 TVLDF--KNKEMYYSLFWRCVLASDTFIKRLEAVTYGIRDGKSISFSDFSTLKFRVPSHN 358

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           EQ  I N       ++D  +   +  +  LKE + +F+  
Sbjct: 359 EQLKIGNF----FKQLDDTIALHQCELDTLKETKKAFLQK 394


>gi|326314831|ref|YP_004232503.1| restriction modification system DNA specificity domain-containing
           protein [Acidovorax avenae subsp. avenae ATCC 19860]
 gi|323371667|gb|ADX43936.1| restriction modification system DNA specificity domain protein
           [Acidovorax avenae subsp. avenae ATCC 19860]
          Length = 438

 Score =  119 bits (299), Expect = 6e-25,   Method: Composition-based stats.
 Identities = 64/424 (15%), Positives = 149/424 (35%), Gaps = 23/424 (5%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKD--IIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           +P  W+   +    ++N  RT     +  + ++ + DV    G+   +   S        
Sbjct: 17  LPVGWRWSNMGELAQVNPPRTYPESDEAVVSFLAMGDVSED-GRIRTRQTRSYSDVAKGF 75

Query: 79  SIFAKGQILYGKLGPYL------RKAIIADFDGICSTQFLVLQPKDVL--PELLQGWLLS 130
           + F    +L  K+ P          A + +  G  ST+F V++ +  +  P  L     +
Sbjct: 76  TSFIDDDVLVAKITPCFENGKGAHVAGLLNGVGFGSTEFHVIRARQEIAFPAFLHLHTRT 135

Query: 131 IDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
                + E    G+        + +   P+ +PP+ EQ  I   + A   ++D +  +  
Sbjct: 136 EAFRTKGERNMVGSAGQKRVPAEFLRAYPIALPPVLEQKGIAAILTAADDKLDVIARQIE 195

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVG--LVPDHWEVKPFFALVTELNRK 247
               + +   Q L S  +          + +    VG    P  W +         + R+
Sbjct: 196 VTQTIKQGLIQTLFSKGIGSKSADGRWTRHTAFVKVGSAEYPKSWRMGRMGDFAPLVRRE 255

Query: 248 NTKLIESNILSLSYGNIIQKLETRN-MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
                  +   L   +  +    +  +  +    +   ++  G+++   +       ++ 
Sbjct: 256 VDVQPSKSYPELGLRSFGKGTFHKPALTGEQVGSKRLFLIKAGDLLLSNVFAWEGAVAVA 315

Query: 307 SAQVMERGIITSAY-MAVKPHGIDSTYLAWLMRSYDL---CKVFYAMGSGLRQSLKFEDV 362
           S +   R          V P   +  ++A  + +        +    G+G  ++L    +
Sbjct: 316 SPEDDGRYGSHRYITCKVDPEIANVHFVARYLVTPAGLASIGLASPGGAGRNKTLGLAAL 375

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
             + + +PP+ EQ  I  V+    A+I VL  K      L ++ +S  +   +TG+  ++
Sbjct: 376 ADMNIPLPPLAEQNAINEVLECVEAKIAVLQAKH----ELYRDLKSGLMQKLLTGEWRVK 431

Query: 423 GESQ 426
            ++ 
Sbjct: 432 VDAD 435



 Score = 41.3 bits (95), Expect = 0.29,   Method: Composition-based stats.
 Identities = 32/193 (16%), Positives = 66/193 (34%), Gaps = 10/193 (5%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTS-ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
             PK W++  +  F  L       +  K    +GL     G G +        Q  +  +
Sbjct: 235 EYPKSWRMGRMGDFAPLVRREVDVQPSKSYPELGLRSF--GKGTFHKPALTGEQVGSKRL 292

Query: 79  SIFAKGQILYGKLGPYLRKAII---ADFDGICSTQFLVLQPKDVLPELLQ---GWLLSID 132
            +   G +L   +  +     +    D     S +++  +    +  +       +    
Sbjct: 293 FLIKAGDLLLSNVFAWEGAVAVASPEDDGRYGSHRYITCKVDPEIANVHFVARYLVTPAG 352

Query: 133 VTQRIEAICEGATMSH-ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
           +     A   GA  +       + ++ +P+PPLAEQ  I E +     +I  L  +   +
Sbjct: 353 LASIGLASPGGAGRNKTLGLAALADMNIPLPPLAEQNAINEVLECVEAKIAVLQAKHELY 412

Query: 192 IELLKEKKQALVS 204
            +L     Q L++
Sbjct: 413 RDLKSGLMQKLLT 425


>gi|149199875|ref|ZP_01876904.1| restriction modification system DNA specificity domain
           [Lentisphaera araneosa HTCC2155]
 gi|149137046|gb|EDM25470.1| restriction modification system DNA specificity domain
           [Lentisphaera araneosa HTCC2155]
          Length = 404

 Score =  119 bits (299), Expect = 6e-25,   Method: Composition-based stats.
 Identities = 66/432 (15%), Positives = 139/432 (32%), Gaps = 35/432 (8%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKR-FTKLNTGRTSESGKDIIYIGLEDVESG 59
           M +  AYP     G+  +  +P+ W    +K    ++      E  K+   + ++   + 
Sbjct: 1   MANQSAYPPTVQPGIPKLKIVPEGWTQSSLKNYLIEVKDKVKLEDDKEYDLVTVK--RAR 58

Query: 60  TGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFD---GICSTQFLVLQP 116
            G    +    +     +  +  +G  L  K         I   +    I S ++ +L  
Sbjct: 59  GGLVRREHLLGKNISVKSQFLLKEGYFLISKRQIVHGACGIVPKELDGSIVSNEYSILDS 118

Query: 117 KDVLPELLQGWLLSIDVTQ---RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
              +      +       Q      +I                    +PPL EQ  I + 
Sbjct: 119 NGKICLEFLKYHSHSVFFQQTCFHSSIGVHIEKMIFKLDQWFKFKFNLPPLPEQKKIAKI 178

Query: 174 IIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWE 233
           +       D  I +  + I+  K  K+AL+  ++            +G + +    D W 
Sbjct: 179 L----GTWDKAIDKLDKLIDNSKTTKKALMQQLL------------TGKKRLPGFTDEWR 222

Query: 234 VKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVF 293
                      + +   L  S       G+I         G   +      IV   E   
Sbjct: 223 KIRLAECANSHDNRRIPLNSSE-REKRKGDIPYWGANGIQGYVDDFIFDETIVLLAEDGG 281

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL 353
            F +     R + +    +  +   A++ +      + ++ +   S     +   +  G 
Sbjct: 282 NFSEFST--RPIANISYGKSWVNNHAHILMAKENTTNEWIYY---SLVHKNILGYVNGGT 336

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           R  L   D+ ++P+ +P I EQ  +T +  V+   I+ L    E     L   + + +  
Sbjct: 337 RAKLNKGDMLKIPMFLPSITEQKKLTEIFVVQDKEINSL----ESQRNKLIIEKKALMQQ 392

Query: 414 AVTGQIDLRGES 425
            +TG+  ++ E+
Sbjct: 393 LLTGKKRVQEEA 404


>gi|307248456|ref|ZP_07530476.1| hypothetical protein appser2_14290 [Actinobacillus pleuropneumoniae
           serovar 2 str. S1536]
 gi|306855024|gb|EFM87207.1| hypothetical protein appser2_14290 [Actinobacillus pleuropneumoniae
           serovar 2 str. S1536]
          Length = 457

 Score =  119 bits (299), Expect = 6e-25,   Method: Composition-based stats.
 Identities = 71/436 (16%), Positives = 130/436 (29%), Gaps = 64/436 (14%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            IP+ W++  +         +T       I +GL + +      L       Q+ +    
Sbjct: 20  EIPESWEIEKLGNIIFNLGQKTPNERFFYIDVGLINNKIHKLNSLENILEPDQAPSRARK 79

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDG----ICSTQFLVLQ-PKDVLPELLQGWLLSIDVT 134
           I  K  ILY  + PYL+   I + D     I ST F+V+    +   + L  +LLS   T
Sbjct: 80  IVQKNSILYSTVRPYLQNICILEQDFQYEPIASTAFVVMNVFTNFYHKYLFYYLLSPVFT 139

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             +     G      +   + N+P+ IPPL EQ  I  KI      I+    +  +   L
Sbjct: 140 DFVNQEMVGVAYPAINDDKLYNLPIAIPPLNEQKRIVAKIEELLPYIEQYAEKEEKLTAL 199

Query: 195 LKEKK----QALVSYIVTKGLNPDVKM--------------------------------- 217
            ++      ++++   +   L                                       
Sbjct: 200 HQQFPEQLKKSILQAAIQGKLTKQDPNDEPALVLIERIKAEKLRLIAEKKLKKPKVVSEI 259

Query: 218 ---------------KDSGIEWVGLVPDHWEVKPFFALVTE------LNRKNTKLIESNI 256
                          +    E    +P++W       +            +        I
Sbjct: 260 ILRDNLPYEIINGEERCIADEVPFEIPENWCWVRLGEIGNWGAGATPNRHEPKYYENGTI 319

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
             L  G++   + T       E       V    +    I +            +E    
Sbjct: 320 PWLKTGDLNDGIITEIPEYITELAIEKTSVKLNPVGSVLIAMYGATIGKLGILNIEATTN 379

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
            +    +   GI + YL + + S        + GSG + ++  E +      +PP+ EQ 
Sbjct: 380 QACCACIPYTGIYNKYLFYYLMSQKTELQKRSEGSG-QPNISKEKIVNYLFPLPPLNEQK 438

Query: 377 DITNVINVETARIDVL 392
            I   I    + +  L
Sbjct: 439 CIVEKIETLFSTLQNL 454



 Score = 85.6 bits (210), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 36/201 (17%), Positives = 76/201 (37%), Gaps = 10/201 (4%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE--SYETYQ 284
            +P+ WE++    ++  L +K        I      N I KL +    L+P+       +
Sbjct: 20  EIPESWEIEKLGNIIFNLGQKTPNERFFYIDVGLINNKIHKLNSLENILEPDQAPSRARK 79

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK-PHGIDSTYLAWLMRSYDLC 343
           IV    I++  +        +         I ++A++ +         YL + + S    
Sbjct: 80  IVQKNSILYSTVRPYLQNICILEQDFQYEPIASTAFVVMNVFTNFYHKYLFYYLLSPVFT 139

Query: 344 KVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
                   G+   ++  + +  LP+ +PP+ EQ  I   I      I+    + E+ +  
Sbjct: 140 DFVNQEMVGVAYPAINDDKLYNLPIAIPPLNEQKRIVAKIEELLPYIEQY-AEKEEKLTA 198

Query: 403 L-----KERRSSFIAAAVTGQ 418
           L     ++ + S + AA+ G+
Sbjct: 199 LHQQFPEQLKKSILQAAIQGK 219


>gi|331655787|ref|ZP_08356776.1| type I restriction enzyme EcoR124II specificity protein (S
           protein)(S.EcoR124II) [Escherichia coli M718]
 gi|331046561|gb|EGI18650.1| type I restriction enzyme EcoR124II specificity protein (S
           protein)(S.EcoR124II) [Escherichia coli M718]
          Length = 422

 Score =  119 bits (299), Expect = 6e-25,   Method: Composition-based stats.
 Identities = 53/398 (13%), Positives = 122/398 (30%), Gaps = 28/398 (7%)

Query: 26  KVVPIKRFTKLNTGRTSE----SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS--TVS 79
           +  P+K       G   +        +  + + +++            S        +  
Sbjct: 17  EWKPLKDVCDFKNGFAFKSSLFKETGLPIVRITNIDGFNVDLDEVKYFSLNDYKEDLSSF 76

Query: 80  IFAKGQILYGKLGPYLRKAIIADF--DGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
             + G IL    G    K  I         + +     PK+ +      +   +  T+ I
Sbjct: 77  EVSMGNILIAMSGATTGKVGIYKKGTKCYLNQRVGKFIPKENILNNNYLYHFLLLNTETI 136

Query: 138 EAICEGATMSHADWKGIG--------NIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
             +  G    +     +             P   LA Q  I   +   T     L  E  
Sbjct: 137 YILAGGGAQPNLSSNALMSKLLIPIPCPDNPEKSLAIQSEIVRILDKFTALTAELTAELT 196

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNT 249
             + + K++       +++         K+  +EW  L       +              
Sbjct: 197 AELNMRKKQYNYYRDQLLS--------FKEGEVEWKALGEVAKIQRGASPRPIVNYLTEQ 248

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
                 I         + ++     +  E  +  +I++PG+ V            LR   
Sbjct: 249 GNGIPWIKIGDTIPGSKYIDKTLQKITAEGAQKSRILNPGDFVISNSMSFGRPYILRITG 308

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY-AMGSGLRQSLKFEDVKRLPVL 368
            +  G  +   ++     +++ YL   + S  +   +   + SG   +L  + +K LPV 
Sbjct: 309 AIHDGWAS---ISNFGEKLNADYLYHYLSSKKVKNYWESKINSGSVSNLNADIIKTLPVP 365

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
           +P  ++Q  I+ +++      + + E + + I L +++
Sbjct: 366 LPDKQKQERISALLDKFDTLTNSITEGLPREIELRQKQ 403


>gi|225854060|ref|YP_002735572.1| type I site-specific deoxyribonuclease chain S [Streptococcus
           pneumoniae JJA]
 gi|307126722|ref|YP_003878753.1| type I site-specific deoxyribonuclease chain S [Streptococcus
           pneumoniae 670-6B]
 gi|225722675|gb|ACO18528.1| type I site-specific deoxyribonuclease chain S [Streptococcus
           pneumoniae JJA]
 gi|306483784|gb|ADM90653.1| type I site-specific deoxyribonuclease chain S [Streptococcus
           pneumoniae 670-6B]
          Length = 522

 Score =  119 bits (299), Expect = 6e-25,   Method: Composition-based stats.
 Identities = 73/440 (16%), Positives = 149/440 (33%), Gaps = 66/440 (15%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNSR 71
            IP  W+ V      ++  G +    KD        I +I + D E G           +
Sbjct: 83  DIPDTWEWVRFSTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINNVKEKIK 142

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
           +S  +      KG  L      + R  I+     I      +   ++ L +    ++LS 
Sbjct: 143 KSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYLFYILSS 202

Query: 132 DV-TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
           +V   +  ++  GA + + +   + +I +P+PPL+EQ  I E I +   ++D       R
Sbjct: 203 NVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLSEQQRIIEAIESALEKVDEYAESYNR 262

Query: 191 FIELLKEKK----QALVSYIVTKGLNPDVKMKDS-------------------------- 220
             +L KE      ++++ Y +   L       +S                          
Sbjct: 263 LEQLDKEFPDKLKKSILQYAMQGKLVEQDPNDESVEVLLEKIRAEKQKLFEEGKIKKKDL 322

Query: 221 -------------GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK 267
                          E    +P+ WE      + + + R  +    +  +         +
Sbjct: 323 DISIVSQGDDNSYYEEVPCEIPESWEWVRLNDITSYIQRGKSPKYSNIPIYPVIAQKCNQ 382

Query: 268 LETRNMGL-------KPESYETYQIVDPGEIVFRFIDLQNDKR-SLRSAQVMERGIITSA 319
               ++ L          SY+  +++  G++++    L    R ++        G   + 
Sbjct: 383 WSGFSIDLARFIDPETVHSYQKERLLRDGDLMWNSTGLGTLGRLAIYHENKNPYGWAVAD 442

Query: 320 ----YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIK 373
                + V    I+  ++   + S  +  V     SG   ++ L  + +K   + +PP+ 
Sbjct: 443 SHVTVIRVLSGVINCHFIYNFLSSPIVQSVIEEKASGSTKQKELLTKTIKEYLIPLPPLP 502

Query: 374 EQFDITNVINVETARIDVLV 393
           EQ  I + I    A ID L+
Sbjct: 503 EQSRIVDKIEQFFAHIDALI 522



 Score = 79.5 bits (194), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 43/210 (20%), Positives = 81/210 (38%), Gaps = 12/210 (5%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
            I+    +PD WE   F  LV  +   + + I+  + S   G    K+     G K  + 
Sbjct: 77  EIDVPYDIPDTWEWVRFSTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINN 136

Query: 281 ETYQIVDPG-----EIVFRFIDLQNDKRSLRSAQVMERGIITSAY--MAVKPHGIDSTYL 333
              +I   G      +      L N     R   +   G I   +  ++   + ++  YL
Sbjct: 137 VKEKIKKSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYL 196

Query: 334 AWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            +++ S  +   F ++ SG   ++L  + V  + + +PP+ EQ  I   I     ++D  
Sbjct: 197 FYILSSNVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLSEQQRIIEAIESALEKVDEY 256

Query: 393 VEKIEQSIVLLKE----RRSSFIAAAVTGQ 418
            E   +   L KE     + S +  A+ G+
Sbjct: 257 AESYNRLEQLDKEFPDKLKKSILQYAMQGK 286


>gi|32477087|ref|NP_870081.1| restriction modification system S chain-like protein
           [Rhodopirellula baltica SH 1]
 gi|32447635|emb|CAD79236.1| restriction modification system S chain homolog [Rhodopirellula
           baltica SH 1]
          Length = 389

 Score =  119 bits (299), Expect = 6e-25,   Method: Composition-based stats.
 Identities = 50/400 (12%), Positives = 115/400 (28%), Gaps = 25/400 (6%)

Query: 27  VVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            V +       +G T    K        I ++   ++         +         S+  
Sbjct: 5   EVALSEICDTGSGGTPSRAKQEIYYDGSIPWVKSGELRESVITETGESITELGLKESSAK 64

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           +     +L    G  + +  +   +   +     L P D   E    +            
Sbjct: 65  LLPADTLLVALYGATVGRVGMLGIEAATNQAVCYLIPDDTRVERRYLYHALRSKVPYWLT 124

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
              G    +     I N  +P+PPL+EQ  I E +             R   + LL E  
Sbjct: 125 QRVGGGQPNISQGVIKNTKIPLPPLSEQKRIAEILDRAEALRAK----RRAALALLDELT 180

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
           Q++++ ++    +        G   +G +      +    +  ++  +N           
Sbjct: 181 QSILARLLDGSAD-------LGTTTLGNI-SRDMHQGINTVTEKIEYQNDGFPIIQSKHT 232

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
           + G +               Y+        +++   I     K  L   +          
Sbjct: 233 TQGYLDLSDARFVSKATYLKYKEKYRPARNDLLLCNIGTIG-KSLLMEQENDFLIAWNLF 291

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYA-MGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
            + +    +  ++             F   +  G  + +  + +   P+ +P +  Q + 
Sbjct: 292 LIKLDLDQVSPSFCKHYFDRLASQHYFDRFLTGGTVKFISKKTLNATPIPLPSMDRQREF 351

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
                 + A ++VL EK   ++  L +  +S    A  G+
Sbjct: 352 ----EEQIASVEVLKEKHRSAVAELDQLFASLQHRAFRGE 387


>gi|315030630|gb|EFT42562.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX4000]
          Length = 417

 Score =  119 bits (299), Expect = 6e-25,   Method: Composition-based stats.
 Identities = 66/405 (16%), Positives = 137/405 (33%), Gaps = 24/405 (5%)

Query: 23  KHWKVVPIKRFTKLN----TGRTSESGKDIIYIGLEDVESGTGKYLPKDGNS--RQSDTS 76
           + W++  +                E      Y+ + D++  + K++     S     + +
Sbjct: 18  EDWELCKLGDVADHFEYGLNASAIEYDGKNKYLRITDIDDSSRKFIQNKLTSPNINVEEA 77

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFD----GICSTQFLVLQPKDVLPELLQGWLLSID 132
           +  I   G IL+ + G  + K    D                       E +    L+  
Sbjct: 78  SNYILTVGDILFARTGASVGKTYRYDIKDGKVYFAGFLIRARIKDSFDSEFVYWTTLTDR 137

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
               I+ + + +     + K   +  + IP + EQ  I   +     +ID  I    R +
Sbjct: 138 YNTFIKIMSQRSGQPGINAKEYSSFNILIPNIKEQQKIGAFL----KKIDDTIALHQRKL 193

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           E LKE K+A +  +       + K+            +  ++      V E N K+ K  
Sbjct: 194 EQLKELKKAYLQLMFASTNTKNDKLPKLRFTGFKGYWELCKLSDISDKVKEKN-KHGKFT 252

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFR-FIDLQNDKRSLRSAQVM 311
           E+   S  YG I Q++          +  +Y +V   + V+   I        ++  ++ 
Sbjct: 253 ETLTNSAEYGIINQRVFFDKDISNVNNLNSYYVVQNDDFVYNPRISNFAPVGPIKRNRLG 312

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL----RQSLKFEDVKRLPV 367
             G+++  Y   + H ID+ YL     +          G       R ++K      +P+
Sbjct: 313 RTGVMSPLYYVFRTHSIDNNYLEKYFDTVYWHHFMELNGDTGARADRFAIKDSIFVEMPI 372

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
             P  +EQ  I         ++D  +   +  +  LK  + +++ 
Sbjct: 373 PYPSTEEQQKIGIF----FKKLDQSITLYKNKLNQLKALKKAYLQ 413



 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 21/189 (11%), Positives = 59/189 (31%), Gaps = 8/189 (4%)

Query: 25  WKVVPIKRFTKLNTGRTSESG-KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           W++  +   +     +       + +    E        +  KD ++  +  ++  +   
Sbjct: 230 WELCKLSDISDKVKEKNKHGKFTETLTNSAEYGIINQRVFFDKDISNVNN-LNSYYVVQN 288

Query: 84  GQILYGKLGPYLRKAIIADFD-----GICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
              +Y               +     G+ S  + V +   +    L+ +  ++     +E
Sbjct: 289 DDFVYNPRISNFAPVGPIKRNRLGRTGVMSPLYYVFRTHSIDNNYLEKYFDTVYWHHFME 348

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
              +    +        +I + +P        ++KI     ++D  IT     +  LK  
Sbjct: 349 LNGDTGARADRFAIK-DSIFVEMPIPYPSTEEQQKIGIFFKKLDQSITLYKNKLNQLKAL 407

Query: 199 KQALVSYIV 207
           K+A +  + 
Sbjct: 408 KKAYLQNMF 416


>gi|315586487|gb|ADU40868.1| type I site-specific deoxyribonuclease [Helicobacter pylori 35A]
 gi|315586546|gb|ADU40927.1| type I site-specific deoxyribonuclease [Helicobacter pylori 35A]
          Length = 429

 Score =  119 bits (299), Expect = 7e-25,   Method: Composition-based stats.
 Identities = 59/401 (14%), Positives = 131/401 (32%), Gaps = 23/401 (5%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPKDGNSRQSD 74
           PK  +   ++   ++  G T             I +  +ED+            +     
Sbjct: 13  PKGVEFKTLEEVFEIKNGYTPSKNNPEFWEKGTIPWFRMEDIRENGRILKDSIQHITPKA 72

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP---ELLQGWLLSI 131
                +F K  I+          A++   D + + +F  L  K       ++   +    
Sbjct: 73  LKGKKLFPKNSIIISTTATIGEHALLI-VDSLANQRFTFLSKKANCDLALDMKFFFYQCF 131

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            + +  +     +  +  D         PIPPL  Q  I + + A T     L TE    
Sbjct: 132 LLGEWCKKNTNVSGFASVDMTAFKKYKFPIPPLEIQQEIVKILDAFTELNTELNTELKAR 191

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKM------KDSGIEWVGLVPDHWEVKPFFALVTELN 245
            +  +  +  L+ +  T   + D KM      K        L P   E +    +    N
Sbjct: 192 KKQYQYYQNMLLDFKDTNQNHKDAKMSAKPYPKRLKTLLQTLAPKGVEFRKLGEVCESTN 251

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
           +K  K+ E + +       +        G   +        + GE +      +      
Sbjct: 252 KKTLKISEVSEVKNKGMYPVINSGRDLYGYYHDFN------NDGENITIASRGEYAGFIN 305

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRL 365
              +    G +   Y     + + + +L + +++ ++  +   +  G   +L   D++ L
Sbjct: 306 YFNEKFFAGGLCYPYKVKDTNELLTKFLYFYLKTNEIQIMENLVSRGSIPALNKADIETL 365

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
            + +PP++ Q +I  +++  +     L+  I   I   K++
Sbjct: 366 TIPIPPLEIQQEIVKILDQFSILTTDLLAGIPAEIEARKKQ 406



 Score = 57.1 bits (136), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 22/191 (11%), Positives = 55/191 (28%), Gaps = 21/191 (10%)

Query: 229 PDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMG---------LKPES 279
           P   E K    +    N                    +  + R  G         + P++
Sbjct: 13  PKGVEFKTLEEVFEIKNGYTPSKNNPEFWEKGTIPWFRMEDIRENGRILKDSIQHITPKA 72

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
            +  ++     I+        +   L    +  +      +++ K +   +  + +    
Sbjct: 73  LKGKKLFPKNSIIISTTATIGEHALLIVDSLANQRFT---FLSKKANCDLALDMKFFFYQ 129

Query: 340 YDLCKVFYAMGS--GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
             L   +    +      S+     K+    +PP++ Q +I  +++  T       E   
Sbjct: 130 CFLLGEWCKKNTNVSGFASVDMTAFKKYKFPIPPLEIQQEIVKILDAFT-------ELNT 182

Query: 398 QSIVLLKERRS 408
           +    LK R+ 
Sbjct: 183 ELNTELKARKK 193


>gi|303263138|ref|ZP_07349064.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae SP14-BS292]
 gi|302635725|gb|EFL66234.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae SP14-BS292]
          Length = 458

 Score =  119 bits (299), Expect = 7e-25,   Method: Composition-based stats.
 Identities = 74/440 (16%), Positives = 148/440 (33%), Gaps = 66/440 (15%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNSR 71
            IP  W+ V      ++  G +    KD        I +I + D E G           +
Sbjct: 19  DIPDTWEWVRFSTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINNVKEKIK 78

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
           +S  +      KG  L      + R  I+     I      +   ++ L +    ++LS 
Sbjct: 79  KSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYLFYILSS 138

Query: 132 DV-TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
           +V   +  ++  GA + + +   + +I +P+PPLAEQ  I E I +   ++D       R
Sbjct: 139 NVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLAEQQRIIEAIESALEKVDEYAESYNR 198

Query: 191 FIELLKEKK----QALVSYIVTKGLNPDVKMKDS-------------------------- 220
             +L KE      ++++ Y +   L       +S                          
Sbjct: 199 LEQLDKEFPDKLKKSILQYAMQGKLVEQDPNDESVEVLLEKIRAEKQKLFEEGKIKKKDL 258

Query: 221 -------------GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK 267
                          E    +P+ WE      + + + R  +    +  +         +
Sbjct: 259 DISIVSQGDDNSYYEEVPCEIPESWEWVRLNDITSYIQRGKSPKYSNIPIYPVIAQKCNQ 318

Query: 268 LETRNMGL-------KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA- 319
               ++ L          SY+  +++  G++++    L    R     +     +   A 
Sbjct: 319 WSGFSIDLARFIDPETVHSYQKERLLRDGDLMWNSTGLGTLGRLAIYHENKNPYVWAVAD 378

Query: 320 ----YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIK 373
                + V    I+  ++   + S  +  V     SG   ++ L  + +K   + +PP+ 
Sbjct: 379 SHVTVIRVLSGVINCHFIYNFLSSPIVQSVIEEKASGSTKQKELLTKTIKEYLIPLPPLP 438

Query: 374 EQFDITNVINVETARIDVLV 393
           EQ  I + I    A ID L+
Sbjct: 439 EQSRIVDKIEQFFAHIDALI 458



 Score = 79.1 bits (193), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 43/210 (20%), Positives = 81/210 (38%), Gaps = 12/210 (5%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
            I+    +PD WE   F  LV  +   + + I+  + S   G    K+     G K  + 
Sbjct: 13  EIDVPYDIPDTWEWVRFSTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINN 72

Query: 281 ETYQIVDPG-----EIVFRFIDLQNDKRSLRSAQVMERGIITSAY--MAVKPHGIDSTYL 333
              +I   G      +      L N     R   +   G I   +  ++   + ++  YL
Sbjct: 73  VKEKIKKSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYL 132

Query: 334 AWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            +++ S  +   F ++ SG   ++L  + V  + + +PP+ EQ  I   I     ++D  
Sbjct: 133 FYILSSNVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLAEQQRIIEAIESALEKVDEY 192

Query: 393 VEKIEQSIVLLKE----RRSSFIAAAVTGQ 418
            E   +   L KE     + S +  A+ G+
Sbjct: 193 AESYNRLEQLDKEFPDKLKKSILQYAMQGK 222


>gi|254181649|ref|ZP_04888246.1| type I site-specific deoxyribonuclease [Burkholderia pseudomallei
           1655]
 gi|184212187|gb|EDU09230.1| type I site-specific deoxyribonuclease [Burkholderia pseudomallei
           1655]
          Length = 424

 Score =  119 bits (299), Expect = 7e-25,   Method: Composition-based stats.
 Identities = 59/418 (14%), Positives = 129/418 (30%), Gaps = 33/418 (7%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESG-KDIIYIGLEDVESGTGKYL 64
            +P+++++G          W++  + +  K  T + SE   K ++    E        Y 
Sbjct: 24  RFPEFRETG---------EWRIEALGKLAKRCTKKNSEGEHKRVLTNSAEYGVIDQRDYF 74

Query: 65  PKDGNSRQSDTSTVSIFAKGQILYGKL----GPYLRKAIIADFDGICSTQFLVLQPKDVL 120
            KD  + Q +     I  KG  +Y        P    +      G+ S  + V +     
Sbjct: 75  DKDI-ANQGNLEGYYIVEKGDYVYNPRISASAPVGPISKNNLGTGVMSPLYTVFRFNGSA 133

Query: 121 PELLQGWLLSIDVTQRIE---AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
            E    +  S    Q +    +                N+P+P+    EQ  I + +   
Sbjct: 134 NEFFAHYFKSPHWHQYMREASSTGARHDRMSITNDDFMNMPLPVSTPKEQQKIADCL--- 190

Query: 178 TVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPF 237
              ID  +    R +  LK  K  L+  +         +++           +       
Sbjct: 191 -SSIDERMAAENRKLGTLKVYKNGLLQQLFPCEGETVPRLRFPEFRDAEAWKEVELSTRI 249

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID 297
             +       +      ++   +  +               S  +      G+I+     
Sbjct: 250 DLISGLHLAPDEYADAGDVPYFTGPSDYANDLALVGKWTSHSANSG---RAGDILIT--- 303

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSL 357
           ++           ++   +    MAV+P G+   ++   + +    ++       L   L
Sbjct: 304 VKGSGVGELLYLELDEVAMGRQLMAVRPRGVHGEFIFHFLATQR-QRLIALASGNLIPGL 362

Query: 358 KFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
              D+  L V VP  +EQ  I + +    + +D ++    Q I +L+  +   +    
Sbjct: 363 SRGDILSLTVSVPEREEQQAIADCL----SSLDDVIAVQSQKIDVLQAHKKGLMQQLF 416


>gi|313682026|ref|YP_004059764.1| restriction modification system DNA specificity domain
           [Sulfuricurvum kujiense DSM 16994]
 gi|313154886|gb|ADR33564.1| restriction modification system DNA specificity domain
           [Sulfuricurvum kujiense DSM 16994]
          Length = 406

 Score =  119 bits (299), Expect = 7e-25,   Method: Composition-based stats.
 Identities = 65/417 (15%), Positives = 146/417 (35%), Gaps = 31/417 (7%)

Query: 18  IGAIPKHWKVVPIKRF-TKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNS 70
           +  +P  W    +     +++ G  + + K          I   ++ SG   +      +
Sbjct: 4   LYELPNGWVYKQLDEIVFRMHQGVNTAADKVEFYSDGYPIIQSRNITSGELHFENIKYVN 63

Query: 71  RQSD--TSTVSIFAKGQILYGKLGPYLRKAIIADFDGI---CSTQFLVLQPKDVLPELLQ 125
            +               IL   +G   +  I+   D      +   +  Q + V  + L+
Sbjct: 64  EEDWNLYEKKYKPKINDILLSNIGTIGKSIIVNQNDNFLIHWNIFLIEPQTELVSAQFLK 123

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
            +L  +D     +   +GAT+     K + +  +P+PPL EQ  I  K+ +   +ID  I
Sbjct: 124 VFLDKLDNDSYYDQFLKGATVKFVSKKNLASTLIPLPPLQEQQRIVSKLDSLFEKIDKAI 183

Query: 186 TERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN 245
           +   + I+       ++++ +  +      K K                +   A  T L 
Sbjct: 184 SLHQKNIDEADVFMGSVLNEVFEEMDGQYKKEKL-----------EKFDRKMSAGGTPLR 232

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPES---YETYQIVDPGEIVFRFIDLQNDK 302
            KN    +  I   S G + Q+          +      + ++   G ++    D    K
Sbjct: 233 AKNEYWDDGTIEWFSSGELNQQFTLPAKERITDEGLKNSSAKLFSKGTLLIGMYDTAAMK 292

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFED 361
            S+        G    A + +KP+  +        +   L         G+ +Q+L    
Sbjct: 293 MSILHTD----GSCNQAIVGIKPNEDELNIFFLKYQLEYLKPKILEERQGVRQQNLNLSK 348

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           +K + + +PP+  Q  +   ++  + +++ +    ++ +  LK  ++S +  A  G+
Sbjct: 349 IKNVEIELPPLPIQQKVVVYLDSVSEKMEKVKTIQKEKMESLKALKASILDKAFRGE 405



 Score = 54.8 bits (130), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 27/167 (16%), Positives = 62/167 (37%)

Query: 45  GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFD 104
              I +    ++         +         S+  +F+KG +L G       K  I   D
Sbjct: 240 DGTIEWFSSGELNQQFTLPAKERITDEGLKNSSAKLFSKGTLLIGMYDTAAMKMSILHTD 299

Query: 105 GICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPL 164
           G C+   + ++P +    +         +  +I    +G    + +   I N+ + +PPL
Sbjct: 300 GSCNQAIVGIKPNEDELNIFFLKYQLEYLKPKILEERQGVRQQNLNLSKIKNVEIELPPL 359

Query: 165 AEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGL 211
             Q  +   + + + +++ + T +   +E LK  K +++       L
Sbjct: 360 PIQQKVVVYLDSVSEKMEKVKTIQKEKMESLKALKASILDKAFRGEL 406


>gi|15902492|ref|NP_358042.1| type I restriction-modification system S subunit [Streptococcus
           pneumoniae R6]
 gi|116515523|ref|YP_815961.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae D39]
 gi|15458016|gb|AAK99252.1| Type I site-specific deoxyribonuclease chain S [Streptococcus
           pneumoniae R6]
 gi|116076099|gb|ABJ53819.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae D39]
          Length = 522

 Score =  119 bits (299), Expect = 7e-25,   Method: Composition-based stats.
 Identities = 73/440 (16%), Positives = 147/440 (33%), Gaps = 66/440 (15%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNSR 71
            IP  W+ V      ++  G +    KD        I +I + D E G           +
Sbjct: 83  DIPDTWEWVRFSTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINNVKEKIK 142

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
           +S  +      KG  L      + R  I+     I      +   ++ L +    ++LS 
Sbjct: 143 KSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYLFYILSS 202

Query: 132 DV-TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
           +V   +  ++  GA + + +   + +I +P+PPL+EQ  I E I +   ++D       R
Sbjct: 203 NVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLSEQQRIIEAIESALEKVDEYAESYNR 262

Query: 191 FIELLKEKK----QALVSYIVTKGLNPDVKMKDS-------------------------- 220
             +L KE      ++++ Y +   L       +S                          
Sbjct: 263 LEQLDKEFPDKLKKSILQYAMQGKLVEQDPNDESVEVLLEKIRAEKQKLFEEGKIKKKDL 322

Query: 221 -------------GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK 267
                          E    +P+ WE      + + + R  +    +  +         +
Sbjct: 323 DISIVSQGDDNSYYEEVPCEIPESWEWVRLNDITSYIQRGKSPKYSNIPIYPVIAQKCNQ 382

Query: 268 LETRNMGL-------KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA- 319
               ++ L          SY+  +++  G++++    L    R     +         A 
Sbjct: 383 WSGFSIDLARFIDPETVHSYQKERLLRDGDLMWNSTGLGTLGRLAIYHENKNPYAWAVAD 442

Query: 320 ----YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIK 373
                + V    I+  ++   + S  +  V     SG   ++ L  + +K   + +PP+ 
Sbjct: 443 SHVTVIRVLSGVINCHFIYNFLSSPIVQSVIEEKASGSTKQKELLTKTIKEYLIPLPPLP 502

Query: 374 EQFDITNVINVETARIDVLV 393
           EQ  I + I    A ID L+
Sbjct: 503 EQSRIVDKIEQFFAHIDALI 522



 Score = 79.5 bits (194), Expect = 9e-13,   Method: Composition-based stats.
 Identities = 43/210 (20%), Positives = 81/210 (38%), Gaps = 12/210 (5%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
            I+    +PD WE   F  LV  +   + + I+  + S   G    K+     G K  + 
Sbjct: 77  EIDVPYDIPDTWEWVRFSTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINN 136

Query: 281 ETYQIVDPG-----EIVFRFIDLQNDKRSLRSAQVMERGIITSAY--MAVKPHGIDSTYL 333
              +I   G      +      L N     R   +   G I   +  ++   + ++  YL
Sbjct: 137 VKEKIKKSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYL 196

Query: 334 AWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            +++ S  +   F ++ SG   ++L  + V  + + +PP+ EQ  I   I     ++D  
Sbjct: 197 FYILSSNVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLSEQQRIIEAIESALEKVDEY 256

Query: 393 VEKIEQSIVLLKE----RRSSFIAAAVTGQ 418
            E   +   L KE     + S +  A+ G+
Sbjct: 257 AESYNRLEQLDKEFPDKLKKSILQYAMQGK 286


>gi|303260804|ref|ZP_07346757.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae SP-BS293]
 gi|302638053|gb|EFL68535.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae SP-BS293]
          Length = 458

 Score =  119 bits (299), Expect = 7e-25,   Method: Composition-based stats.
 Identities = 74/440 (16%), Positives = 148/440 (33%), Gaps = 66/440 (15%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNSR 71
            IP  W+ V      ++  G +    KD        I +I + D E G           +
Sbjct: 19  DIPDTWEWVRFSTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINNVKEKIK 78

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
           +S  +      KG  L      + R  I+     I      +   ++ L +    ++LS 
Sbjct: 79  KSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYLFYILSS 138

Query: 132 DV-TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
           +V   +  ++  GA + + +   + +I +P+PPLAEQ  I E I +   ++D       R
Sbjct: 139 NVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLAEQQRIIEAIESALEKVDEYAESYNR 198

Query: 191 FIELLKEKK----QALVSYIVTKGLNPDVKMKDS-------------------------- 220
             +L KE      ++++ Y +   L       +S                          
Sbjct: 199 LEQLDKEFPDKLKKSILQYAMQGKLVEQDPNDESVEVLLEKIRAEKQKLFEEGKIKKKDL 258

Query: 221 -------------GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK 267
                          E    +P+ WE      + + + R  +    +  +         +
Sbjct: 259 DISIVSQGDDNFYYEEVPCEIPESWEWVRLNDITSYIQRGKSPKYSNIPIYPVIAQKCNQ 318

Query: 268 LETRNMGL-------KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA- 319
               ++ L          SY+  +++  G++++    L    R     +     +   A 
Sbjct: 319 WSGFSIDLARFIDPETVHSYQKERLLRDGDLMWNSTGLGTLGRLAIYHENKNPYVWAVAD 378

Query: 320 ----YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIK 373
                + V    I+  ++   + S  +  V     SG   ++ L  + +K   + +PP+ 
Sbjct: 379 SHVTVIRVLSGVINCHFIYNFLSSPIVQSVIEEKASGSTKQKELLTKTIKEYLIPLPPLP 438

Query: 374 EQFDITNVINVETARIDVLV 393
           EQ  I + I    A ID L+
Sbjct: 439 EQSRIVDKIEQFFAHIDALI 458



 Score = 78.7 bits (192), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 43/210 (20%), Positives = 81/210 (38%), Gaps = 12/210 (5%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
            I+    +PD WE   F  LV  +   + + I+  + S   G    K+     G K  + 
Sbjct: 13  EIDVPYDIPDTWEWVRFSTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINN 72

Query: 281 ETYQIVDPG-----EIVFRFIDLQNDKRSLRSAQVMERGIITSAY--MAVKPHGIDSTYL 333
              +I   G      +      L N     R   +   G I   +  ++   + ++  YL
Sbjct: 73  VKEKIKKSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYL 132

Query: 334 AWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            +++ S  +   F ++ SG   ++L  + V  + + +PP+ EQ  I   I     ++D  
Sbjct: 133 FYILSSNVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLAEQQRIIEAIESALEKVDEY 192

Query: 393 VEKIEQSIVLLKE----RRSSFIAAAVTGQ 418
            E   +   L KE     + S +  A+ G+
Sbjct: 193 AESYNRLEQLDKEFPDKLKKSILQYAMQGK 222


>gi|219848706|ref|YP_002463139.1| restriction modification system DNA specificity domain-containing
           protein [Chloroflexus aggregans DSM 9485]
 gi|219542965|gb|ACL24703.1| restriction modification system DNA specificity domain protein
           [Chloroflexus aggregans DSM 9485]
          Length = 423

 Score =  119 bits (298), Expect = 8e-25,   Method: Composition-based stats.
 Identities = 56/417 (13%), Positives = 134/417 (32%), Gaps = 29/417 (6%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
           V +    +   G      + ++Y        G G  L  +            +      +
Sbjct: 2   VRLGEVARQRKG-FITVDETLVYKRPTIKLYGQGMVLRDNVIGASLKIKKQQVCKAYDFV 60

Query: 88  YGKLGPYLRKAIIADFD---GICSTQFLVLQP-KDVLPELLQGWLLSIDVTQRIEAICEG 143
             ++        +        I S+ + + +  K+ +      +++ + + QR       
Sbjct: 61  VAEIDAKCGGFAVVPPFLEGAILSSHYFIFELDKEKVDPNFMSYIVKLPLLQRQVEARGS 120

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
              +      +    +P+PPL EQ  I   +      +        R I  L+E K++L+
Sbjct: 121 TNYASVRPSQVITYLIPLPPLPEQRAIAHVL----RAVQRAQEASERVIAALRELKKSLM 176

Query: 204 SYIVTKGLNPDVKMKDSGI----------EWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
            ++ T G           +            +G +P HW+V     +  +  +       
Sbjct: 177 RHLFTYGPVAVSVGAQRAVGAQRAVPLQDTELGPLPAHWQVVRLGEVCQKSPQVVPTKAP 236

Query: 254 SNILSLSYGNIIQKLETRNMGL-----KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
                    + +       +       K       +++  G+++F  +     + ++   
Sbjct: 237 DWQFKYVDVSCVDNSSLNIVDYQVLTGKEAPSRARKLIKAGDVIFATVRPYLKRIAIVPP 296

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPV 367
            +  +   T+  +      +D +YL + + + +          G    ++   DVKR  +
Sbjct: 297 SLDGQVCSTAFCVLSPKPEVDGSYLFYAVSTDEFVSSVVEYQRGSSYPAITDNDVKRGFI 356

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGE 424
            +PP+ EQ +I  ++       D  +E  E S   L+    + +   +T +  L  E
Sbjct: 357 PLPPLAEQQEIARILQAV----DRRIEVEEVSARALETLFKTLLHELMTAKRRLPQE 409



 Score = 76.0 bits (185), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 37/194 (19%), Positives = 76/194 (39%), Gaps = 7/194 (3%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGKD--IIYIGLEDVESGTGKYLPK-DGNSRQSD 74
           +G +P HW+VV +    + +         D    Y+ +  V++ +   +       +++ 
Sbjct: 208 LGPLPAHWQVVRLGEVCQKSPQVVPTKAPDWQFKYVDVSCVDNSSLNIVDYQVLTGKEAP 267

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDG---ICSTQFLVLQPKDVLPELLQGW-LLS 130
           +    +   G +++  + PYL++  I        +CST F VL PK  +      + + +
Sbjct: 268 SRARKLIKAGDVIFATVRPYLKRIAIVPPSLDGQVCSTAFCVLSPKPEVDGSYLFYAVST 327

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
            +    +     G++        +    +P+PPLAEQ  I   + A   RI+        
Sbjct: 328 DEFVSSVVEYQRGSSYPAITDNDVKRGFIPLPPLAEQQEIARILQAVDRRIEVEEVSARA 387

Query: 191 FIELLKEKKQALVS 204
              L K     L++
Sbjct: 388 LETLFKTLLHELMT 401


>gi|38505922|ref|NP_942540.1| type I site-specific deoxyribonuclease [Synechocystis sp. PCC 6803]
 gi|38423946|dbj|BAD02154.1| type I site-specific deoxyribonuclease [Synechocystis sp. PCC 6803]
          Length = 394

 Score =  119 bits (298), Expect = 8e-25,   Method: Composition-based stats.
 Identities = 61/410 (14%), Positives = 125/410 (30%), Gaps = 32/410 (7%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            +W ++       L  G T               E+ +G   P  G++         +  
Sbjct: 3   NNWNILNFGNLIILEYGNTLTE------------ENRSGGDYPVYGSNGIIGFHKAYLLD 50

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
              I+ G+ G                T + V   +D     +   L S D+      +  
Sbjct: 51  SPNIIVGRKGSVGEVVWANKNCWAIDTTYYVTLKQDNSLRFIYWLLKSFDLR----KLDS 106

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
              +   +   +  I   +P L EQ  I E +      I        +  ++       L
Sbjct: 107 STGVPGLNRNDVYRIKCNLPSLPEQEKIAEILDTMDEAIAKTEECIAKLKKIKAGLVHDL 166

Query: 203 VSYIVTKG---LNPDVKMKDSGIEWVGLVPDHWEVKPFFA-------LVTELNRKNTKLI 252
           ++  + +     +P    +      +GL+P  W++K             T   R +    
Sbjct: 167 LTRGIDENGELRDPVRHPEQFKQSAIGLIPKEWDIKELSQLATVDRGKFTHRPRNDPNFY 226

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
                 +  G+I Q L            E    V   E     I +        +A +  
Sbjct: 227 GGQYPFIQTGDIAQNLGQVIRSYTQTLNENGAKVSR-EFPVGTIAVTIAANIADTAILGI 285

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-P 371
                 + + V      +  L  L   +   K+        ++++  ED++ L +  P  
Sbjct: 286 PMFFPDSIVGVTVFPQFNHRLVELCIRFAKHKLDAKATQSAQKNINLEDLRPLLIPFPRN 345

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            KEQ    + ++    + D  ++K E  +  LK  +   +   +TG++ +
Sbjct: 346 PKEQ----DRMSSVYEKFDERLKKEEAYLEKLKLHKKGLMHDLLTGKVRV 391



 Score = 42.9 bits (99), Expect = 0.10,   Method: Composition-based stats.
 Identities = 30/211 (14%), Positives = 64/211 (30%), Gaps = 15/211 (7%)

Query: 8   PQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKD--------IIYIGLEDVESG 59
            Q+K S    IG IPK W +  + +   ++ G+ +   ++          +I   D+   
Sbjct: 185 EQFKQSA---IGLIPKEWDIKELSQLATVDRGKFTHRPRNDPNFYGGQYPFIQTGDIAQN 241

Query: 60  TGKYLPKDGNSRQSDTSTV-SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKD 118
            G+ +     +   + + V   F  G I           AI+           +V     
Sbjct: 242 LGQVIRSYTQTLNENGAKVSREFPVGTIAVTIAANIADTAILGIPMFF--PDSIVGVTVF 299

Query: 119 VLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLA-EQVLIREKIIAE 177
                    L       +++A    +   + + + +  + +P P    EQ  +       
Sbjct: 300 PQFNHRLVELCIRFAKHKLDAKATQSAQKNINLEDLRPLLIPFPRNPKEQDRMSSVYEKF 359

Query: 178 TVRIDTLITERIRFIELLKEKKQALVSYIVT 208
             R+        +     K     L++  V 
Sbjct: 360 DERLKKEEAYLEKLKLHKKGLMHDLLTGKVR 390


>gi|311064526|ref|YP_003971251.1| restriction endonuclease S subunit [Bifidobacterium bifidum
           PRL2010]
 gi|310866845|gb|ADP36214.1| Restriction endonuclease S subunit [Bifidobacterium bifidum
           PRL2010]
          Length = 413

 Score =  119 bits (298), Expect = 9e-25,   Method: Composition-based stats.
 Identities = 64/408 (15%), Positives = 135/408 (33%), Gaps = 35/408 (8%)

Query: 25  WKVVPIKRFTKLNTGRTSE-------SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           W+   +        G T             ++++  +DV+S            + +    
Sbjct: 19  WEQRKLGEVATFGGGHTPPMADPDNYEDGYVLWVTSQDVKSNYLDRTTTQITEKGAKE-- 76

Query: 78  VSIFAKGQILYGKLGPYLR---KAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
           ++++  G ++       LR              +    V+ P+                 
Sbjct: 77  LTLYPAGSLVMVTRSGILRHTLPVAELRKPSTVNQDIRVILPQGECCGEWLLQFFISHNK 136

Query: 135 QRIEAI-CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
           + +      G T+   D+  I ++ + +P   EQ  I +       ++D+LIT   R  +
Sbjct: 137 ELLLEFGKTGTTVESVDFGKIKDMLLYMPSTVEQQQIGDF----FAKLDSLITLHQRKYD 192

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK--L 251
            L   K++++  +  K      +++ +G        D WE +       +   KN    L
Sbjct: 193 KLVIFKKSMLEKMFPKDGESVPEIRFAG------FTDPWEQRKLGEFSKKNTIKNANGAL 246

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFR-FIDLQNDKRSLRSAQV 310
            E+   S   G I Q     +      +   Y +V P + V+   I        +   ++
Sbjct: 247 SETFTNSAEQGVISQLDYFDHDITNDANISGYYVVQPDDFVYNPRISATAPCGPINRNRL 306

Query: 311 MERGIITSAYMAVKPH-GIDSTYLAWLMRSYDLCKVFYAMGSGL----RQSLKFEDVKRL 365
              G+++  Y        +D TYL    ++       +  G+      R S+       +
Sbjct: 307 NRAGVMSPLYTVFSVDASMDKTYLEHYFKTSRWHDFMFLEGNTGARSDRFSISDATFFEM 366

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           P+  P I EQ  I   +       D L+   ++ + LL+  + S +  
Sbjct: 367 PIWCPEISEQMAIAKQLET----TDTLITLHQRKLELLRNIKKSLLDK 410


>gi|21911179|ref|NP_665447.1| putative type I site-specific deoxyribonuclease hsdS subunit
           [Streptococcus pyogenes MGAS315]
 gi|28896555|ref|NP_802905.1| type I site-specific deoxyribonuclease [Streptococcus pyogenes
           SSI-1]
 gi|94995073|ref|YP_603171.1| Type I restriction-modification system specificity subunit
           [Streptococcus pyogenes MGAS10750]
 gi|21905391|gb|AAM80250.1| putative type I site-specific deoxyribonuclease hsdS subunit
           [Streptococcus pyogenes MGAS315]
 gi|28811809|dbj|BAC64738.1| putative type I site-specific deoxyribonuclease [Streptococcus
           pyogenes SSI-1]
 gi|94548581|gb|ABF38627.1| Type I restriction-modification system specificity subunit
           [Streptococcus pyogenes MGAS10750]
          Length = 391

 Score =  119 bits (298), Expect = 9e-25,   Method: Composition-based stats.
 Identities = 62/392 (15%), Positives = 122/392 (31%), Gaps = 18/392 (4%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W+   +    ++  G++  S           +  G           R   T       K
Sbjct: 17  EWEEKELGDIVQITMGQSPSSQNYTTNPSDYILVQGNADIKNGYVFPRVWTTQITKQADK 76

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
           G I+     P        ++  I       ++  + +       L  +      + I  G
Sbjct: 77  GDIILSVRAPV-GDVGKTNYHVIIGRGVAAIKGNEFI----FQILKYLKEIGYWKRISTG 131

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           +T        I    + IP L EQ  I E        +D LI  + + +  LKE+KQ  +
Sbjct: 132 STFDSISSSNIKYAKIQIPSLPEQEAIGE----LFQTVDQLIQLQDQKLATLKEQKQTFL 187

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
             +         +++  G +         E+   F+  T     +     + I  +    
Sbjct: 188 RKMFPAQGQKVPEIRLQGFDGEWEEKKLGEISRMFSGGTPSVGISEYYNGN-IPFIRSSE 246

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
           I        +  K  S  + +IV+   +++      + +  L        G I  A +A+
Sbjct: 247 INSDQTELFITNKGLSNSSAKIVEKNTLLYALYGATSGEVGLSRIS----GAINQAILAI 302

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
            P    S+             +      G + +L    VK L + +P + EQ  I +   
Sbjct: 303 IPEKKYSSLFIKNWLYKQKSSIIEKYLQGGQGNLSGSIVKGLELYLPSLPEQEAIGDF-- 360

Query: 384 VETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
                +D  + +IE  +  LK  + + +    
Sbjct: 361 --FQTLDQQMSQIEDKLTELKALKQTLLNRLF 390


>gi|2689700|gb|AAB91417.1| specificity subunit [Lactococcus lactis subsp. lactis bv.
           diacetylactis]
          Length = 409

 Score =  119 bits (298), Expect = 9e-25,   Method: Composition-based stats.
 Identities = 61/400 (15%), Positives = 138/400 (34%), Gaps = 19/400 (4%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQS-DTSTVSIFA 82
            W+   +K    + TG+ +  G+D     + +      +    DG+     D +      
Sbjct: 16  DWEKRKLKD-FTIKTGKKNSEGEDHPAYSVSNKLGLVSQTKQFDGSRLDFLDKTAYKFVN 74

Query: 83  KGQILYGKLGPYLRKAIIAD--FDGICSTQFLVLQPKDV-LPELLQGWLLSIDVTQRIEA 139
           +G+  Y      +      D     I S+ ++VL+  D    E +  ++ SI   + ++ 
Sbjct: 75  QGEFAYNPARINVGSIAFNDLGKTVIVSSLYVVLKISDKLDNEYILQFIKSIKFIEEVKR 134

Query: 140 ICEGATMSHADWKGIGNI-PMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
             EG+   +  +    NI    I  L EQ  I         ++D  IT   R ++LLKE+
Sbjct: 135 NTEGSVREYLFFDNFKNIKFPYIKNLEEQQKIGSF----FKQLDNTITLHQRKLDLLKEQ 190

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
           K+  +  +  K      +++ +G           E+         +N  +       + +
Sbjct: 191 KKGYLQKMFPKNGAKVPELRFAGFVDDWEQRKLGEMLVNLEAGVSVNSSDYDTGYFILKT 250

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
            +       L      +  E       +    I+   ++      +    +     I   
Sbjct: 251 SAIKMGNIDLLEVKSIVSEEVARAKTPLIKNSIIISRMNTPELVGASGLVRESIDNIFLP 310

Query: 319 AYMAVKPHGID--STYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIK 373
             +       +    +L   +      K    + +G     +++  + +  L + VP ++
Sbjct: 311 DRLWQGQVAGNFSPEWLIQSINIAANIKKIRDLATGTSGSMKNISKKSMLDLIINVPTLE 370

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           EQ  I +       ++D ++   ++ + LLKE++  F+  
Sbjct: 371 EQQKIGSF----FKQLDDVIALHQRKLDLLKEQKKGFLQK 406


>gi|153952538|ref|YP_001398844.1| hypothetical protein JJD26997_1911 [Campylobacter jejuni subsp.
           doylei 269.97]
 gi|152939984|gb|ABS44725.1| HsdS [Campylobacter jejuni subsp. doylei 269.97]
          Length = 453

 Score =  119 bits (298), Expect = 1e-24,   Method: Composition-based stats.
 Identities = 51/448 (11%), Positives = 120/448 (26%), Gaps = 51/448 (11%)

Query: 21  IPKHWKVVPIKRFTK-----LNTG-------RTSESGKDIIYIGLEDVESGTGKYLPKDG 68
           +P+ W+   +          +  G       ++      +      +  +    +     
Sbjct: 4   LPQGWEWKSLYEILSNDKYSIKRGPFGSALKKSFFVENGVRVFEQYNAINNDPHWKRYCI 63

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD--FDGICSTQF--LVLQPKDVLPELL 124
           +  +          +G +L    G   +   +      G+ +     + L    +L    
Sbjct: 64  SYDKFKELEAFKAMEGDLLISCSGTLGKIVELPKNTEIGVINQALLKIRLDNTKILNSYF 123

Query: 125 QGWLLSIDVTQRIEAICEGATMSHA-DWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
             +  S  +  +I     G+ + +    K +  I +P+PP+ EQ  I   +     +ID 
Sbjct: 124 IYYFNSPTMQDKILESTLGSAIKNIASVKILKQIEIPLPPIKEQERIVGILDFAFSKIDE 183

Query: 184 LITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEW----VGLVPDHWEVKPFFA 239
            I +    +  + E  Q+ +        +   +       W    +G + +         
Sbjct: 184 NIKKAKENLANIDELIQSALQKAFNPLNDNTKENYQLPQSWEWKSLGEICEILSGGTPDT 243

Query: 240 LVTELNRKNTKLIESNILSLSYG----------------------NIIQKLETRNMGLKP 277
                   N         S+  G                               +   K 
Sbjct: 244 KNPIFWYSNQTDETQFEKSVVGGLGDFKGDKGSDFAIKVPLSPLEKNYYWATLVDTKEKY 303

Query: 278 ESYETYQIVDPGE-------IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
                 +I   G        +    +   +       +           Y          
Sbjct: 304 LYKTKRKITQKGLDCSNATLLPINSVIFSSRASIGEISIAKVETATNQGYKNFICDASIL 363

Query: 331 TYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
            Y           K    +  G   + +    +K   + +PP+KEQ  I + ++  ++ +
Sbjct: 364 YYEFLYFALKHFTKEIELLAQGTTYKEVSKAKIKEFKIPLPPLKEQKQIASHLDELSSHV 423

Query: 390 DVLVEKIEQSIVLLKERRSSFIAAAVTG 417
             L +  +  I  L+E ++S +  A  G
Sbjct: 424 KNLKQNYQAQIKDLQELKNSLLDKAFKG 451



 Score = 64.8 bits (156), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 31/236 (13%), Positives = 69/236 (29%), Gaps = 45/236 (19%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESG---------------------------------- 45
            +P+ W+   +    ++ +G T ++                                   
Sbjct: 219 QLPQSWEWKSLGEICEILSGGTPDTKNPIFWYSNQTDETQFEKSVVGGLGDFKGDKGSDF 278

Query: 46  ----------KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYL 95
                     K+  +  L D +        +    +  D S  ++     +++      +
Sbjct: 279 AIKVPLSPLEKNYYWATLVDTKEKYLYKTKRKITQKGLDCSNATLLPINSVIFSS-RASI 337

Query: 96  RKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIG 155
            +  IA  +   +  +        +      +      T+ IE + +G T        I 
Sbjct: 338 GEISIAKVETATNQGYKNFICDASILYYEFLYFALKHFTKEIELLAQGTTYKEVSKAKIK 397

Query: 156 NIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGL 211
              +P+PPL EQ  I   +   +  +  L       I+ L+E K +L+       L
Sbjct: 398 EFKIPLPPLKEQKQIASHLDELSSHVKNLKQNYQAQIKDLQELKNSLLDKAFKGNL 453


>gi|91203222|emb|CAJ72861.1| similar to type I restriction modification enzyme S chain
           [Candidatus Kuenenia stuttgartiensis]
          Length = 386

 Score =  119 bits (298), Expect = 1e-24,   Method: Composition-based stats.
 Identities = 56/410 (13%), Positives = 132/410 (32%), Gaps = 47/410 (11%)

Query: 24  HWKVVPIKRFTKLNTGR-----TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           +W++  +    ++   +            + ++ +ED+   T  ++       +  + + 
Sbjct: 4   NWQIKKLGEVCEIKPPKKEARDRLNDDDIVSFVPMEDLGILTKNFIATKERPLKEVSGSY 63

Query: 79  SIFAKGQILYGKLGPYLRKAII------ADFDGICSTQFLVLQPK-DVLPELLQGWLLSI 131
           + F+   +L  K+ P      I       +  G  S+++++ + + +V+P+ L  +L   
Sbjct: 64  TYFSDNDVLLAKITPCFENGKIGIARNLKNGIGFGSSEYIIFRSRGEVIPDYLYYYLARD 123

Query: 132 DVTQRIEAICEGATMSHADWKGI--GNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
              Q  +    GA       K             L EQ  I   +      I T   +  
Sbjct: 124 QFRQDGKKAMTGAVGHKRVPKDFIENQKIPYPNSLPEQQRIVAILEEAFAAIATAKEKTE 183

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNT 249
           + ++  +E   + +  +     +          + +G            + +   N K  
Sbjct: 184 KNLQNARELFASYLQSVFANPGDGW------EEKTLGECFKLKSGDNITSKMMIENGKYP 237

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
               + I  +                    Y  + +     IV R   L  + R +  A 
Sbjct: 238 VYGGNGIAGM--------------------YNKFNLSGSNVIVGRVGALCGNVRHIEEAI 277

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
            +         +    +  D+ +LA+L+   +L           +  +    ++ + +  
Sbjct: 278 WLTD---NGFKITDCKYDFDNAFLAYLLNLKNLRNYAR---QAAQPVISNSSLEEVLLQF 331

Query: 370 P-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           P  +K+Q  I   ++  +A    L     Q +  L E + S +  A TGQ
Sbjct: 332 PKSLKDQKSIVTKLDALSAETKKLEAIYRQKLADLDELKKSVLQKAFTGQ 381


>gi|188577916|ref|YP_001914845.1| type I restriction-modification system, S subunit [Xanthomonas
           oryzae pv. oryzae PXO99A]
 gi|188522368|gb|ACD60313.1| type I restriction-modification system, S subunit [Xanthomonas
           oryzae pv. oryzae PXO99A]
          Length = 501

 Score =  119 bits (297), Expect = 1e-24,   Method: Composition-based stats.
 Identities = 74/466 (15%), Positives = 153/466 (32%), Gaps = 65/466 (13%)

Query: 15  VQW-IGAIPKHWKVVPIKRFTKLNTGRTSE------SGKDIIYIGLEDV------ESGTG 61
           V+W +  +P  W    +     + +G          +        + DV      + G  
Sbjct: 2   VRWMVSELPAGWAETTLGAIGSVQSGMGFPLEMQGQTEGVYPVYKVGDVSRGVLLDRGIL 61

Query: 62  KYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLR--KAIIADFDGICSTQFLVLQPKDV 119
           +      ++  +      IF +G IL+ K+G  LR  +  I   +G+     +  +    
Sbjct: 62  RRSTNYVDAEAAAILKGHIFPEGSILFAKIGEALRLNRRAIVFREGLADNNVMGFKADQG 121

Query: 120 LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
           + +    +L     TQ + ++    T+       + +I + +PPLAEQ  I +K+ A   
Sbjct: 122 IDDG---FLYHFLRTQDLASLSRSTTIPSIRKSDVEDITISLPPLAEQKRIVQKLDALLA 178

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDS------------------- 220
           ++DTL         LLK  ++A ++  ++  L  D +++ S                   
Sbjct: 179 QVDTLKARIDAMPALLKRFREATLTSAMSGTLTKDWRIESSQSTAPEAPRMCRQLLANER 238

Query: 221 ----------------------GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
                                     +  V     +      V +    + K     +  
Sbjct: 239 ERIWRGRGKYKPAVRSGEVDASEFSNLPEVWHRGTLDEITWSVKDGPHFSPKYATDGVRF 298

Query: 259 LSYGNIIQKLETRNMGLKP-----ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
           +S GNI       + G        E        +  ++++            R+      
Sbjct: 299 ISGGNIRPGRIDLSTGKYISQELHEELSARCKPEYLDVLYTKGGTTGFAAVNRTESEFNV 358

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPI 372
            +  +    + P  +D  ++ + + S +          G+  Q L    + ++ + VPPI
Sbjct: 359 WVHVAVLKMLPPSVVDPFFVEFALNSPECYAQSQRYTHGVGNQDLGLRRMIKIVLPVPPI 418

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            EQ +I   +    A  D L  K+  +   +     S +A A  G+
Sbjct: 419 GEQREIVRRVEQLFAYADQLEAKVATAKQRIDALTQSLLAKAFRGE 464


>gi|302345833|ref|YP_003814186.1| type I restriction modification DNA specificity domain protein
           [Prevotella melaninogenica ATCC 25845]
 gi|302149861|gb|ADK96123.1| type I restriction modification DNA specificity domain protein
           [Prevotella melaninogenica ATCC 25845]
          Length = 416

 Score =  119 bits (297), Expect = 1e-24,   Method: Composition-based stats.
 Identities = 62/421 (14%), Positives = 141/421 (33%), Gaps = 33/421 (7%)

Query: 23  KHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVES--GTGKYLPKDGNSRQSD 74
           + WK         +  G T ++        +I ++ ++D  S         K  +     
Sbjct: 2   EEWKEYKYTDLATIIGGGTPKTSVPEYWNGEIPWLSVKDFVSVAKYVYSSEKHISELGLL 61

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
            S+  +  K  I+    G     A+I       +     L+   ++ +    +L    + 
Sbjct: 62  NSSTKLLEKNDIIISARGTVGAVAMIPCPM-CFNQSCFGLRGNGIVDKNFLYYLTRTKID 120

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           +  ++   G+       +   N+   +PPL  Q  I + + +   +    I    R  + 
Sbjct: 121 ELKQSAH-GSVFDTITKETFDNLLCLVPPLQLQQKIGKFLSSLDSK----IEINQRINDN 175

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN--------- 245
           L+++ QAL             K         G +P  W +     L   +          
Sbjct: 176 LEQQAQALFKSWFVDFEPFLSKEFSKSDSLFGDIPVGWSIVSIKDLPIYITDYVANGSFA 235

Query: 246 --RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYE--TYQIVDPGEIVFRFIDLQND 301
             ++N +L +    +    N   K E+  + +   SYE  +  +++ GEI+   +     
Sbjct: 236 SLKENVRLYDKPNYAHFIRNTDLKAESYKIYVDKHSYEFLSKSVLEGGEIIISNVGDVGS 295

Query: 302 KRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFE 360
              L         +  +  +    +     YL  L +      +   +  G  ++     
Sbjct: 296 -VFLCPKLQKPMTLGNNIILLRPKNNYSMFYLYMLFKGNVGQHLIDGITGGSAQRKFNKT 354

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQID 420
           D K + +++PP+     I    +     I   +EK  + I  L+  R + +   ++G+++
Sbjct: 355 DFKSIKIMMPPVD----ILIKFDRIIKPIFSKIEKNREEISRLELVRDTLLPKLMSGEVE 410

Query: 421 L 421
           +
Sbjct: 411 I 411



 Score = 43.2 bits (100), Expect = 0.068,   Method: Composition-based stats.
 Identities = 31/206 (15%), Positives = 61/206 (29%), Gaps = 20/206 (9%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRT--------------SESGKDIIYIGLEDVESGTGKYL 64
           G IP  W +V IK      T                  +      +I   D+++ + K  
Sbjct: 207 GDIPVGWSIVSIKDLPIYITDYVANGSFASLKENVRLYDKPNYAHFIRNTDLKAESYKIY 266

Query: 65  PKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD--FDGICSTQFLVLQPKDVLPE 122
                    +  + S+   G+I+   +G      +              ++L+PK+    
Sbjct: 267 VDKH---SYEFLSKSVLEGGEIIISNVGDVGSVFLCPKLQKPMTLGNNIILLRPKNNYSM 323

Query: 123 LL-QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
                          I+ I  G+     +     +I + +PP+   +     I     +I
Sbjct: 324 FYLYMLFKGNVGQHLIDGITGGSAQRKFNKTDFKSIKIMMPPVDILIKFDRIIKPIFSKI 383

Query: 182 DTLITERIRFIELLKEKKQALVSYIV 207
           +    E  R   +       L+S  V
Sbjct: 384 EKNREEISRLELVRDTLLPKLMSGEV 409


>gi|32476611|ref|NP_869605.1| type I restriction enzyme EcoEI specificity protein [Rhodopirellula
           baltica SH 1]
 gi|32447157|emb|CAD76983.1| type I restriction enzyme EcoEI specificity protein [Rhodopirellula
           baltica SH 1]
          Length = 550

 Score =  119 bits (297), Expect = 1e-24,   Method: Composition-based stats.
 Identities = 72/485 (14%), Positives = 153/485 (31%), Gaps = 87/485 (17%)

Query: 19  GA-IPKHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQS 73
           G  +P+ W  VPI     L  GR  +  +     +  I ++++     KY     N    
Sbjct: 38  GEALPEGWADVPIGDLCDLVNGRAFKPKEWSETGLPIIRIQNLNKAEAKY-----NHFDG 92

Query: 74  DTSTVSIFAKGQILYGKLGPYL---RKAIIADFDGICSTQFL-VLQPKDVLPELLQGWLL 129
           + +   +   G++L+   G         I      + +     VL  +D L      + +
Sbjct: 93  EYADKHLVRPGELLFAWSGTPGTSFGAHIWNGPKALLNQHIFRVLIDEDDLNMTFFRFAI 152

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
           +  + + I     G  + H          +P+PPLAEQ  I   I +   R         
Sbjct: 153 NHKLEELIGKAHGGVGLRHVTKGKFEATQVPLPPLAEQSRIVSAIESLQERSSRARFLLS 212

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIE-------------------------- 223
               L+ + +Q+++    +  L  D +  +  +E                          
Sbjct: 213 EVGPLIGQLRQSVLRDAFSGKLTADWREANPNVEPAFKLLSRIRTERRERWEAEQLAKYE 272

Query: 224 -----------------------WVGLVPDHWEVKPFFALVTELNRKNTK--------LI 252
                                   +  +PD W       L+   +   +           
Sbjct: 273 AKGKQPPKNWQDKYKEPEPVDESELPELPDGWCWCQVGDLIESFDAGRSPTALSHPARDG 332

Query: 253 ESNILSLSYGNIIQKLETRNMGLKP-ESYETYQIVDPGEIVFRFIDLQNDKRSLR-SAQV 310
           E  +L +S     +     N  LK  +          G+++    +      ++      
Sbjct: 333 EYGVLKVSAVTWREFDPNANKALKDGDEIGDTPTPRKGDLLISRANTVELIGAVVLVKAD 392

Query: 311 MERGIITSAYMAVKP--HGIDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRL 365
               +++   + + P    +   YL + +RS  + K F    +G     ++L    +   
Sbjct: 393 YPNLMLSDKTLRMNPASKELVPEYLLYGLRSESVRKFFEDNATGTSNSMRNLSQGKILDA 452

Query: 366 PVLVPPIKEQFDITNVI---NVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI--- 419
           P+ + P+ EQ  + +++   +     +   +  +E S+  L     S ++ A  G++   
Sbjct: 453 PIALAPLAEQQAVADLLVTNDEACTSVASGLASMESSLTQLD---QSILSKAFRGELVPQ 509

Query: 420 DLRGE 424
           D R E
Sbjct: 510 DPRDE 514



 Score = 57.1 bits (136), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 39/246 (15%), Positives = 83/246 (33%), Gaps = 27/246 (10%)

Query: 2   KHYKAYPQYKD------SGVQWIGAIPKHWKVVPIKRFTKLNT-GRTSE------SGKDI 48
           K+++   +YK+      S    +  +P  W    +    +    GR+           + 
Sbjct: 280 KNWQ--DKYKEPEPVDESE---LPELPDGWCWCQVGDLIESFDAGRSPTALSHPARDGEY 334

Query: 49  IYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPY--LRKAIIADFDG- 105
             + +  V                 +        KG +L  +      +   ++   D  
Sbjct: 335 GVLKVSAVTWREFDPNANKALKDGDEIGDTPTPRKGDLLISRANTVELIGAVVLVKADYP 394

Query: 106 --ICSTQFLVLQP--KDVLPELLQGWLLSIDVTQRIEAICEG--ATMSHADWKGIGNIPM 159
             + S + L + P  K+++PE L   L S  V +  E    G   +M +     I + P+
Sbjct: 395 NLMLSDKTLRMNPASKELVPEYLLYGLRSESVRKFFEDNATGTSNSMRNLSQGKILDAPI 454

Query: 160 PIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKD 219
            + PLAEQ  + + ++       ++ +        L +  Q+++S      L P     +
Sbjct: 455 ALAPLAEQQAVADLLVTNDEACTSVASGLASMESSLTQLDQSILSKAFRGELVPQDPRDE 514

Query: 220 SGIEWV 225
              E +
Sbjct: 515 PASELL 520


>gi|291526087|emb|CBK91674.1| Restriction endonuclease S subunits [Eubacterium rectale DSM 17629]
          Length = 377

 Score =  118 bits (296), Expect = 1e-24,   Method: Composition-based stats.
 Identities = 49/405 (12%), Positives = 132/405 (32%), Gaps = 45/405 (11%)

Query: 26  KVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           +   I   T + TG T  + K       DI ++     ++       K       + S+ 
Sbjct: 2   EYKKINELTTVVTGGTPSTRKNEYWDNGDIPWLQSGCCQNCDVDSTEKYITKEGYNNSST 61

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
            + +   ++    G    K     F+   +     + P + L      +   +   ++I 
Sbjct: 62  HMMSADTVMIALTGATAGKVGYLKFEACGNQSITGILPCESLN-QRYLFFYLLSQREKIL 120

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
           A C G   +H     + N+ +PI  + EQ  I  ++                 +  +   
Sbjct: 121 ADCVGGAQAHISQSYVKNMTIPILAIKEQEQIVGEL---------------TKVSNIVSL 165

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
           +Q  +  +       D  +K   +E  G   +   +     ++T+   ++ K     I  
Sbjct: 166 RQEEIQQL-------DNLVKARFVEMFGDCTNMISLSELCLIITDGTHQSPKFQHDGIPF 218

Query: 259 LSYGNIIQKLETRNMGL-----KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
           +   N+ +   T +          +       ++ G+I+   +        +       +
Sbjct: 219 ILVSNLSKNTVTYDTDKFISAETYKELYKRTPIEIGDILLSTVGSYGHPAVVV---EDRK 275

Query: 314 GIITSAYMAVKPHGI--DSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVP 370
            +       +KP     +S Y+   + S    +       G  +++L   +++++ + VP
Sbjct: 276 FLFQRHIAYLKPKSDILNSYYMHGALLSPGCQRQIEEKVKGIAQKTLNLSEIRKIRIPVP 335

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            +  Q    + ++    +++     +++++   +    S +    
Sbjct: 336 SLDLQKQYADFVH----QVNKSKVAVQKALDETQILFDSLMQKYF 376


>gi|163761334|ref|ZP_02168409.1| HsdS, type I restriction-modification system, S subunit [Hoeflea
           phototrophica DFL-43]
 gi|162281491|gb|EDQ31787.1| HsdS, type I restriction-modification system, S subunit [Hoeflea
           phototrophica DFL-43]
          Length = 424

 Score =  118 bits (296), Expect = 1e-24,   Method: Composition-based stats.
 Identities = 65/424 (15%), Positives = 143/424 (33%), Gaps = 34/424 (8%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            + + W+           + R      +I  + +   +               +DT    
Sbjct: 4   EVAEGWRPTTFSDIASDVSARNRSRD-EIPVLSVTKYDGFVPSEEYFKKKVFSADTENYK 62

Query: 80  IFAKGQILYGKLGPYLRKAIIADFD--GICSTQFLVLQP--KDVLPELLQGWLLSIDVTQ 135
           I  +GQ  Y  +               G+ S  + V +   +   P+ +        +  
Sbjct: 63  IVRRGQFAYATIHLDEGSIDRLTRFDVGLISPMYTVFEIDERQADPDFILRLFKFYAMNG 122

Query: 136 RIEAICEG--ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
           + +A+  G         +  +G + +P+PPL EQ  I E +      +D  I      IE
Sbjct: 123 QFDALGNGGVNRRKSISFSTLGKLSIPLPPLHEQRRIAEIL----SSVDEAIAATRAVIE 178

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR------- 246
             ++ KQ ++  ++TKG+    + K +    +        ++   A +T   R       
Sbjct: 179 QTRKVKQGVMERLLTKGIG-HTRFKQTESGEIPEGWKVATLEELLADITNPMRSGPFGSA 237

Query: 247 -KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI----VDPGEIVFRFIDLQND 301
            K+ +L++S +  L   NI  +    N        +  Q+    V+P ++V   +     
Sbjct: 238 LKSEELVDSGVPFLGIDNIQVEQFVCNYKRFLSEDKFRQLRRFAVNPNDVVITIMGTVG- 296

Query: 302 KRSLRSAQVMERGIITSAYMAV--KPHGIDSTYLAWLMRSYDLC--KVFYAMGSGLRQSL 357
            R       +   + +    A+             W M        K   +   G+  ++
Sbjct: 297 -RCCVIPPDIGEAVSSKHIWAMSLHHEKYIPELACWQMNFAPWIVSKFTTSAQGGIMSAI 355

Query: 358 KFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
               +++L   VP ++EQ  I  V     + +    +  +  +  L+  +S  ++  +TG
Sbjct: 356 NSGILRKLVFPVPGLEEQRRILQVWQSFQSEL----QVEQAKLHNLESLKSDLMSDLLTG 411

Query: 418 QIDL 421
           +  +
Sbjct: 412 RKRV 415



 Score = 59.8 bits (143), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 26/204 (12%), Positives = 67/204 (32%), Gaps = 18/204 (8%)

Query: 19  GAIPKHWKVVPIKR-FTKLNT-------GRTSESGK----DIIYIGLEDVESGTGK-YLP 65
           G IP+ WKV  ++     +         G   +S +     + ++G+++++         
Sbjct: 207 GEIPEGWKVATLEELLADITNPMRSGPFGSALKSEELVDSGVPFLGIDNIQVEQFVCNYK 266

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDG-ICSTQFLVLQPKDVLPELL 124
           +  +  +             ++   +G   R  +I    G   S++ +          + 
Sbjct: 267 RFLSEDKFRQLRRFAVNPNDVVITIMGTVGRCCVIPPDIGEAVSSKHIWAMSLHHEKYIP 326

Query: 125 QGWLLSIDVTQRIEAIC----EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
           +     ++    I +      +G  MS  +   +  +  P+P L EQ  I +   +    
Sbjct: 327 ELACWQMNFAPWIVSKFTTSAQGGIMSAINSGILRKLVFPVPGLEEQRRILQVWQSFQSE 386

Query: 181 IDTLITERIRFIELLKEKKQALVS 204
           +     +      L  +    L++
Sbjct: 387 LQVEQAKLHNLESLKSDLMSDLLT 410


>gi|313673365|ref|YP_004051476.1| restriction modification system DNA specificity domain
           [Calditerrivibrio nitroreducens DSM 19672]
 gi|312940121|gb|ADR19313.1| restriction modification system DNA specificity domain
           [Calditerrivibrio nitroreducens DSM 19672]
          Length = 865

 Score =  118 bits (296), Expect = 1e-24,   Method: Composition-based stats.
 Identities = 67/405 (16%), Positives = 134/405 (33%), Gaps = 39/405 (9%)

Query: 25  WKVVPIKRFTKLNTGRTSESG-------KDIIYIGLEDVESGTGKYLPKD--GNSRQSDT 75
           W++V +    ++  G T             I +  +ED+                +  + 
Sbjct: 468 WQMVRLGEVCEIYNGSTPNRNIKEYWENGTIPWFTIEDLRRQGRIIYNTRQFITQKGYNE 527

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQF---LVLQPKDVLPELLQGWLLSID 132
           S+V +  K  +L       + +    + +   + QF   +V +           +  S  
Sbjct: 528 SSVKLLPKHSVLLCCT-ASIGEYAFTEIELTTNQQFNGLVVKESFRDKLFPKYLFYCSPK 586

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
               +E +   AT        + N+ +P+PPL  Q  I  +I         +I    + I
Sbjct: 587 FKTELERLSGKATFGFVSIATLKNLQIPLPPLEVQQEIVAEIEGY----QKIIDGCRQVI 642

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           +  K   +  +   +   L           E    +   W +     +       + + I
Sbjct: 643 DAWKPDVETYLDEELKTYLAEHP-------EKQEELSSGWPMVKLGEVCEIERGSSPRPI 695

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG-----EIVFRFIDLQNDKRSLRS 307
              + +   G    K+          +Y   +I   G     ++    + L N     + 
Sbjct: 696 NKFVTNDKNGINWIKIGDAFSSSIYINYTKEKITPEGAKMSRKVSVGDLILSNSMSFGKP 755

Query: 308 AQVMERGIITSAYM--AVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKR 364
             +   G I   ++     P  ID  YL +++ S  + K F  +   G+  +L  + VK 
Sbjct: 756 YILNIDGCIHDGWLALRNIPKDIDKLYLYYILSSEIISKEFQNLATGGVVSNLNTKLVKS 815

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVL-------VEKIEQSIVL 402
           + + +PP++ Q  I + I  E   ID L        EKI++ I  
Sbjct: 816 VEIPLPPLEVQSRIVDKIESERKVIDSLREMVKIYEEKIKRVIDR 860



 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 28/195 (14%), Positives = 71/195 (36%), Gaps = 13/195 (6%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTS--------ESGKDIIYIGLEDVESGTGKYLPKDGNSR 71
            +   W +V +    ++  G +              I +I + D  S +           
Sbjct: 670 ELSSGWPMVKLGEVCEIERGSSPRPINKFVTNDKNGINWIKIGDAFSSSIYINYTKEKIT 729

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
                     + G ++      + +  I+     I      +      + +L   ++LS 
Sbjct: 730 PEGAKMSRKVSVGDLILSNSMSFGKPYILNIDGCIHDGWLALRNIPKDIDKLYLYYILSS 789

Query: 132 DVT-QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
           ++  +  + +  G  +S+ + K + ++ +P+PPL  Q  I +KI +E      +I     
Sbjct: 790 EIISKEFQNLATGGVVSNLNTKLVKSVEIPLPPLEVQSRIVDKIESE----RKVIDSLRE 845

Query: 191 FIELLKEKKQALVSY 205
            +++ +EK + ++  
Sbjct: 846 MVKIYEEKIKRVIDR 860


>gi|242372372|ref|ZP_04817946.1| specificity determinant HsdS [Staphylococcus epidermidis M23864:W1]
 gi|242349891|gb|EES41492.1| specificity determinant HsdS [Staphylococcus epidermidis M23864:W1]
          Length = 417

 Score =  118 bits (296), Expect = 1e-24,   Method: Composition-based stats.
 Identities = 59/410 (14%), Positives = 128/410 (31%), Gaps = 31/410 (7%)

Query: 23  KHWKVVPIKRFTKLNTGRTS---------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
           + WK+  +     +  G +          +   DI ++ + DV    GK      +    
Sbjct: 17  EEWKLENLGNLADIVRGASPRPIKDSKWFDDNSDIGWLRISDVTQQNGKIKFLQQHLSNE 76

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
                 +  +  +L        +  I     G+     + ++PK  L      +    + 
Sbjct: 77  GQKKTRVLYEPHLLLSIAASVGKPVINYVKTGVHDGFLIFMRPKFNL---YFMFNWLENF 133

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
             +     +  +  + +   + +  + IP   E+    EK+     ++D  I    + + 
Sbjct: 134 QLKWNKYGQPGSQVNLNSDLVKSQNIYIPKSYEEQ---EKMGIFFNKLDQHIELEEQKLA 190

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
           L +++K+  +  I ++ L        S      L                   +     +
Sbjct: 191 LFEQQKKGYMQKIFSQEL--CFTKLSSSNTQKCLKIKDLFNIIDGDRGKNYPNEKDFYNQ 248

Query: 254 SNILSLSYGNIIQKL----ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
              L L  GN+ +K     + R +  + +       ++  + V        +        
Sbjct: 249 GYTLFLDTGNVTKKGFSFTKNRFINKEKDDLLRNGKLELNDFVITSRGTLGNIGFYSQDI 308

Query: 310 V--MERGIITSAYMAVKP--HGIDSTYLAWLMRSYDLCKVFYAM-GSGLRQSLKFEDVKR 364
                   I SA + ++P     D +YL +L+R   +            +  +  +D   
Sbjct: 309 HLQYSNMRINSAMLILRPIDKMFDYSYLYFLLRDDAINTFMKHYRVGSAQPHITKKDFGN 368

Query: 365 LPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           + + V   I EQ  I N +     RID LV      +  LK R+   +  
Sbjct: 369 MKINVTTDINEQKKIANFLE----RIDRLVINQGNKVETLKRRKQGLLQK 414



 Score = 53.3 bits (126), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 17/116 (14%), Positives = 43/116 (37%), Gaps = 9/116 (7%)

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFED 361
                   ++ G+     + ++P         WL    +    +   G  G + +L  + 
Sbjct: 97  VGKPVINYVKTGVHDGFLIFMRPKFNLYFMFNWL---ENFQLKWNKYGQPGSQVNLNSDL 153

Query: 362 VKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           VK   + +P   +EQ  +         ++D  +E  EQ + L ++++  ++    +
Sbjct: 154 VKSQNIYIPKSYEEQEKMGIF----FNKLDQHIELEEQKLALFEQQKKGYMQKIFS 205


>gi|86130655|ref|ZP_01049255.1| type I site-specific deoxyribonuclease [Dokdonia donghaensis
           MED134]
 gi|85819330|gb|EAQ40489.1| type I site-specific deoxyribonuclease [Dokdonia donghaensis
           MED134]
          Length = 395

 Score =  118 bits (296), Expect = 1e-24,   Method: Composition-based stats.
 Identities = 55/405 (13%), Positives = 121/405 (29%), Gaps = 27/405 (6%)

Query: 26  KVVPIKRFTKLNTGRTSESG----KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV--S 79
           K   +     +  G   +S     K I  + + +   G                 +    
Sbjct: 4   KTQTLTTVCAIKNGFAFKSKDYLTKGIPLLRISNFNDGEVYINDNQIYVDAKYLKSKNDF 63

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDG--ICSTQFLVLQPKDVLP-ELLQGWLLSIDVTQR 136
           I  KG +L    G    K  I +FD   + + +  +++  +         +     +   
Sbjct: 64  IVEKGDVLIALSGATTGKYGIYNFDFPSLLNQRIGLIKSGESDTLNSRYFYYYLNILKSE 123

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           I     GA   +   K IG   +P+PPL  Q  I + +               + ++   
Sbjct: 124 ILRNAGGAAQPNISTKKIGTFEIPLPPLETQKRIAQILDDAAAL----RDTTAQLLKEYD 179

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDH--WEVKPFFALVTELNRKNTKLIES 254
              Q++   +     +P +  K    EW+     +      P    + +   +    I  
Sbjct: 180 LLAQSIFLEMFG---DPVMNPK----EWIKTRFANLVSSNCPLTYGIVQPGDEYENGIPC 232

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
                     I     + +     +  +  I++ GEI+               +      
Sbjct: 233 VRPVDLTSQYISVDNLKKIDPAISNKFSRTILEGGEILLSVRGSVGVISIADDSLKGANV 292

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIK 373
                 +       +  Y  +L ++  +      +  G     +  +D++ L ++ PPI+
Sbjct: 293 TRGIVPIWFDKKISNRLYFYYLYKTKRIQNQIKRLSKGATLVQINLKDLRELKIIQPPIE 352

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            Q    N I    A I+      +Q +   ++  +  +  A  G+
Sbjct: 353 LQNQFANKI----ALIEQQKALAKQELQESEDLFNCLLQKAFKGE 393


>gi|295401704|ref|ZP_06811671.1| restriction modification system DNA specificity domain protein
           [Geobacillus thermoglucosidasius C56-YS93]
 gi|294976324|gb|EFG51935.1| restriction modification system DNA specificity domain protein
           [Geobacillus thermoglucosidasius C56-YS93]
          Length = 487

 Score =  118 bits (296), Expect = 2e-24,   Method: Composition-based stats.
 Identities = 73/442 (16%), Positives = 155/442 (35%), Gaps = 47/442 (10%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           +P++W  V +K   K                 L  V S        +    +   S   +
Sbjct: 27  VPENWVWVRLKSINKDKKRNIDPRDYSEEVFELYSVPSY--DLGEPEYIKGKEIGSNKQV 84

Query: 81  FAKGQILYGKLGPYLRKAIIA-----DFDGICSTQFLVL-QPKDVLPELLQGWLLSIDVT 134
             + +IL  K+ P + +  I       +  + ST+++V+ + K + P+ L   L +    
Sbjct: 85  VKENEILLCKINPRINRVWIVSNNRGKYRQLASTEWIVISENKKIYPKYLLFLLKAPYFR 144

Query: 135 QRIEAICEGA--TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           + I +   G   +++ A  K +   P+ +PP  EQ  I EK+     +ID          
Sbjct: 145 KLITSNVSGVGGSLTRAKPKEVETYPIALPPFNEQKRIAEKVERLFAKIDEAKRLIEEVK 204

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEW-------------------------VGL 227
              + + ++++       L    + K+S IE                             
Sbjct: 205 GSFEFRWESILDKAFRGELTKKWRSKNSMIENADDIFKEIQKVYKKSNKKDEHEINPPYQ 264

Query: 228 VPDHWEVKPFFALVTELNRKNT------KLIESNILSLSYGNIIQKLETRNMGLKPESYE 281
           +P +W       +V     K            + I   S  +   ++E   +    E  +
Sbjct: 265 IPQNWRWVRLGDIVDINPPKKKLADIEDDQSCTFIPMPSVSDKTGEIENPEIRKYAEVKK 324

Query: 282 TYQIVDPGEIVFRFID--LQNDKRSLRSAQVMERGIITSAYMAVKPHGI-DSTYLAWLMR 338
            Y      +I+F  I   ++N K ++    +   G  ++ +  ++ +   ++  + +L+R
Sbjct: 325 GYTFFLENDILFAKITPCMENGKTAIMQNLINGFGFGSTEFHVIRTNPYINTKLIYYLLR 384

Query: 339 SYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
           S           +G   +Q +    ++     +PP  EQ  I  +++    + +V + KI
Sbjct: 385 SKKFRMEAKKEMTGAVGQQRVPKSFLENYLFPLPPKAEQDKIVELLDKLYVK-EVEISKI 443

Query: 397 EQSIVLLKERRSSFIAAAVTGQ 418
           E     +   R S +  A  G+
Sbjct: 444 ETLEGEIDSLRQSILNKAFRGE 465



 Score = 73.7 bits (179), Expect = 5e-11,   Method: Composition-based stats.
 Identities = 41/204 (20%), Positives = 79/204 (38%), Gaps = 5/204 (2%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
              E    VP++W      ++  +  R       S  +   Y      L         E 
Sbjct: 19  PEEEQPYPVPENWVWVRLKSINKDKKRNIDPRDYSEEVFELYSVPSYDLGEPEYIKGKEI 78

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM-ERGIITSAYMAVKPHG-IDSTYLAWLM 337
               Q+V   EI+   I+ + ++  + S      R + ++ ++ +  +  I   YL +L+
Sbjct: 79  GSNKQVVKENEILLCKINPRINRVWIVSNNRGKYRQLASTEWIVISENKKIYPKYLLFLL 138

Query: 338 RSYDLCKVFYAMGSGLRQSLKF---EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
           ++    K+  +  SG+  SL     ++V+  P+ +PP  EQ  I   +    A+ID    
Sbjct: 139 KAPYFRKLITSNVSGVGGSLTRAKPKEVETYPIALPPFNEQKRIAEKVERLFAKIDEAKR 198

Query: 395 KIEQSIVLLKERRSSFIAAAVTGQ 418
            IE+     + R  S +  A  G+
Sbjct: 199 LIEEVKGSFEFRWESILDKAFRGE 222



 Score = 72.9 bits (177), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 39/220 (17%), Positives = 79/220 (35%), Gaps = 13/220 (5%)

Query: 20  AIPKHWKVVPIKRFTKLNTGR----TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            IP++W+ V +     +N  +      E  +   +I +  V   TG+    +        
Sbjct: 264 QIPQNWRWVRLGDIVDINPPKKKLADIEDDQSCTFIPMPSVSDKTGEIENPEIRKYAEVK 323

Query: 76  STVSIFAKGQILYGKLGPYLRKA------IIADFDGICSTQFLVLQPKDVLP-ELLQGWL 128
              + F +  IL+ K+ P +          + +  G  ST+F V++    +  +L+   L
Sbjct: 324 KGYTFFLENDILFAKITPCMENGKTAIMQNLINGFGFGSTEFHVIRTNPYINTKLIYYLL 383

Query: 129 LSIDVTQRIEAICEG-ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
            S       +    G           + N   P+PP AEQ  I E +    V+    I++
Sbjct: 384 RSKKFRMEAKKEMTGAVGQQRVPKSFLENYLFPLPPKAEQDKIVELLDKLYVKEVE-ISK 442

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGL 227
                  +   +Q++++      L  +    +  IE +  
Sbjct: 443 IETLEGEIDSLRQSILNKAFRGELGTNDPTDEHAIELLKE 482


>gi|326407944|gb|ADZ65013.1| Type I restriction-modification system specificity subunit
           [Lactococcus lactis subsp. lactis CV56]
          Length = 397

 Score =  118 bits (296), Expect = 2e-24,   Method: Composition-based stats.
 Identities = 66/399 (16%), Positives = 136/399 (34%), Gaps = 29/399 (7%)

Query: 24  HWKVVPIKRFTKLNTGRTS-----ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
            W+   +     +   R          +++ +  +    S    ++ ++    +      
Sbjct: 16  DWEERKLGELGSVAMNRRIFKDQTSENEEVPFFKIGTFGSKPDAFISRELF--EEYKLKY 73

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
                G IL    G   R  +    D       +V    D              V  +  
Sbjct: 74  PYPEIGDILISASGSIGRTVVYQGKDEYFQDSNIVWLKHDDRLNNKFLKQFYSIVKWQGL 133

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
              EG+T+     K I +  + IP   EQ     KI     ++D  I    R ++LLKE+
Sbjct: 134 ---EGSTIKRLYNKNILDTDISIPSTIEQ----NKIGMFFEQLDDTIALHQRKLDLLKEQ 186

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL- 257
           K+  +  +  K      +++ +G        D WE       + + + K  +  +  +  
Sbjct: 187 KKGYLQKMFPKNGEKVPELRFAG------FADDWEEHKLGDYIIQYSEKTKQNNQYPVFT 240

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
           S   G   QK   +   +  E    Y IV  G   +R +   +         + + GI++
Sbjct: 241 SSRNGLFFQKDYYKGNQIASEDNIGYNIVPRGYFTYRHMS-DDLVFKFNINDLADYGIVS 299

Query: 318 SAYMAVKPHGI-DSTYLAWLMR--SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKE 374
           + Y     +   +S YL + +   S            G R  +    ++ + + +P ++E
Sbjct: 300 TLYPVFTTNEQLNSKYLQYQLNEGSEFRRFSLLQKQGGSRTYMYLNKLQNMILNIPKLEE 359

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           Q  I +       ++D  +   ++ + LLKE++  F+  
Sbjct: 360 QQKIGSF----FQQLDETIALHQRKLDLLKEQKKGFLQK 394


>gi|315648621|ref|ZP_07901718.1| restriction modification system DNA specificity domain protein
           [Paenibacillus vortex V453]
 gi|315276000|gb|EFU39348.1| restriction modification system DNA specificity domain protein
           [Paenibacillus vortex V453]
          Length = 389

 Score =  118 bits (296), Expect = 2e-24,   Method: Composition-based stats.
 Identities = 55/394 (13%), Positives = 122/394 (30%), Gaps = 30/394 (7%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+   +     L  G       D+    +E      G Y     N   +  S     A G
Sbjct: 18  WEQRKVIDIAPLQRGF------DLPVSEMEA-----GSYPVIMSNGIGAYHSKYKAKAPG 66

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            ++ G+ G       +       +T   V   K    + +      +D+         G+
Sbjct: 67  -VVTGRSGTIGNLTFVEVDYWPHNTALWVTDFKRNDAKFIYYLYQKLDLK----RYGTGS 121

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
            +   +   +      IP +AEQ  I     +       +I+   R +   K+ K  L+ 
Sbjct: 122 GVPTLNRNDVHLTKASIPSVAEQKQISRIFDSLD----HIISLHQRKLNNAKKLKTGLLQ 177

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
            +  K  +   +++  G           ++             ++  +   I  L   N+
Sbjct: 178 KMFPKNGDNFPEIRFPGFTDAWEKRTLADITLKIGSGKTPKGGDSSYVLEGIPFLRSQNV 237

Query: 265 IQKL----ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
            +      +   +  + +       V   +++         + ++    V    +     
Sbjct: 238 YEDFVDLKDVAYITPQTDEEMKNSRVVKNDVLLNITGASIGRSAVYRYSVCAN-VNQHVC 296

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAM-GSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
           +     G +S ++   + S             G R+ L F+ + ++  L P I+EQ  I 
Sbjct: 297 IVRPAEGYNSDFVQLNLTSPKGQGQINNNQAGGGREGLNFQQIGKMSFLFPSIEEQDQIG 356

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           +        +D L    ++ +  LKE + +F+  
Sbjct: 357 SF----FRSLDQLTTLHQRELDALKETKKAFLQK 386


>gi|229496116|ref|ZP_04389838.1| conserved hypothetical protein [Porphyromonas endodontalis ATCC
           35406]
 gi|229317012|gb|EEN82923.1| conserved hypothetical protein [Porphyromonas endodontalis ATCC
           35406]
          Length = 420

 Score =  118 bits (296), Expect = 2e-24,   Method: Composition-based stats.
 Identities = 67/433 (15%), Positives = 134/433 (30%), Gaps = 40/433 (9%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFT-KLNTGRTSESG------KDIIYIGLEDVESGTGK 62
           +KD+    IG IP+ W            ++G T   G       +I +I   ++      
Sbjct: 6   FKDTE---IGQIPEEWIFSKFGDVLRTFSSGATPYRGIPGNFIGNIKWITSGELNYKPIN 62

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGKLG----PYLRKAIIADFDGICSTQFLVLQPKD 118
              +  +      + ++I   G  L    G        K          +   L +   +
Sbjct: 63  DTLEHISEEAVKNTNLTIHQAGTFLMAITGLEAVGTRGKCAFVGNPSTTNQSCLAINGTN 122

Query: 119 VLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAE 177
            +      W             C+G          + N+P+  P  + EQ  I   +   
Sbjct: 123 KMITSYLFWFYRKYSDLLAFKYCQGTKQQSYTASIVRNLPIFHPKDIKEQSRIASAL--- 179

Query: 178 TVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPF 237
              +D LI+   + IE  K  KQ  +  +    L    ++K     WV    +    +  
Sbjct: 180 -TSVDNLISSLDKLIEKKKNIKQGTMQQL----LTGKKRLKGFSDPWV----ERKMGRMG 230

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQKLETR---NMGLKPESYETYQIVDPGEIVFR 294
                   +        N   +++ N++     +      +     E       G++ F 
Sbjct: 231 STFSGLTGKTKEDFGIGNAKYITFLNVLSNPILKRELFEEVLVREGEKQNSCHKGDLFFN 290

Query: 295 FIDLQNDKRSLRSAQVME--RGIITSAYMAVKPHGI--DSTYLAWLMRSYDLCKVFYAMG 350
                 ++  + +    E     + S     + +       Y A+  RS +  K+   + 
Sbjct: 291 TTSETPEEVGICAMLDTEMESLYLNSFCFGYRLNDDRVVPEYFAYYFRSNEGRKLMTLLA 350

Query: 351 SG-LRQSLKFEDVKRLPVLVPP-IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
            G  R ++         +L+P  + EQ  I NV+      I+ L  K        ++ + 
Sbjct: 351 QGVTRYNMSKSAFINAKLLMPSTVLEQKAIVNVLKGFEKEIEALEVKK----AKFEQIKQ 406

Query: 409 SFIAAAVTGQIDL 421
             +   +TG+I L
Sbjct: 407 GMMQQLLTGKIRL 419



 Score = 81.8 bits (200), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 34/214 (15%), Positives = 67/214 (31%), Gaps = 15/214 (7%)

Query: 224 WVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ---------KLETRNMG 274
            +G +P+ W    F  ++   +   T         +     I               ++ 
Sbjct: 10  EIGQIPEEWIFSKFGDVLRTFSSGATPYRGIPGNFIGNIKWITSGELNYKPINDTLEHIS 69

Query: 275 LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
            +        I   G  +     L+      + A V        + +A+       T   
Sbjct: 70  EEAVKNTNLTIHQAGTFLMAITGLEAVGTRGKCAFVGNPSTTNQSCLAINGTNKMITSYL 129

Query: 335 WLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVP-PIKEQFDITNVINVETARIDVL 392
           +         + +    G  +QS     V+ LP+  P  IKEQ  I + +       D L
Sbjct: 130 FWFYRKYSDLLAFKYCQGTKQQSYTASIVRNLPIFHPKDIKEQSRIASALTSV----DNL 185

Query: 393 VEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
           +  +++ I   K  +   +   +TG+  L+G S 
Sbjct: 186 ISSLDKLIEKKKNIKQGTMQQLLTGKKRLKGFSD 219


>gi|312865273|ref|ZP_07725501.1| conserved hypothetical protein [Streptococcus downei F0415]
 gi|311099384|gb|EFQ57600.1| conserved hypothetical protein [Streptococcus downei F0415]
          Length = 408

 Score =  118 bits (295), Expect = 2e-24,   Method: Composition-based stats.
 Identities = 55/400 (13%), Positives = 135/400 (33%), Gaps = 27/400 (6%)

Query: 25  WKVVPIKRFTKLNTGRTSES---GKDIIYIGLEDVESGTGKYLPKDGNSRQSDT--STVS 79
           W+   +     +  G              +  ++V +G   Y      S +     +  S
Sbjct: 18  WEQHKLGEVADVRDGTHDSPKYINDGYPLLTSKNVGNGYINYDDTKCISEKDYIQINKRS 77

Query: 80  IFAKGQILYGKLGPYLRKAIIADFD-GICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
                 IL G +G     A+I            L+    +   + L   L +  +++ + 
Sbjct: 78  KVDVNDILMGMIGTIGNLALIRKEPDFAIKNVALIKHTINFDYQFLFQELQTNSISKELL 137

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
           +  +G T      K I ++ + +P   EQ  I     +        I    R +E LK  
Sbjct: 138 SGMDGGTQKFIPLKKIRDLSILLPTKNEQGHIGSFFQSLDSL----IALHQRKLEELKSF 193

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
           K  ++S +      P        I   G   + WE      +   +   + ++    +  
Sbjct: 194 KATMLSKVF-----PKHGQTVPEIRLAGFDGE-WEKTKLRDVSERVQGNDGRMDLPTLTI 247

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR-SAQVMERGIIT 317
            +    + + +  +  +  +  + Y ++  GE+ +   + +  K  +       E  ++ 
Sbjct: 248 SAAQGWLSQKDRFSQNIAGKEQKNYTLLKRGELSYNHGNSKLAKYGVVFELNNYEEALVP 307

Query: 318 SAYMAVKPHG-IDSTYLAWLMRSYDLCKVFYAM-GSGLRQ----SLKFEDVKRLPVLVPP 371
             Y + K +   +  ++  +  +    +    +  SG R     ++ ++D   + +++P 
Sbjct: 308 RVYHSFKVNELANPRFIETMFATKQPDRELRKLVSSGARMDGLLNINYDDFMGISIIIPT 367

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
           + EQ  I        + +D L+ + +  I  L+  +   +
Sbjct: 368 VHEQETIGEF----FSNLDNLISETQSKIEELETLKKKLL 403



 Score = 78.3 bits (191), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 25/180 (13%), Positives = 59/180 (32%), Gaps = 11/180 (6%)

Query: 241 VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL-----KPESYETYQIVDPGEIVFRF 295
           V +    + K I      L+  N+       +                  VD  +I+   
Sbjct: 29  VRDGTHDSPKYINDGYPLLTSKNVGNGYINYDDTKCISEKDYIQINKRSKVDVNDILMGM 88

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ 355
           I    +   +R     +  I   A +    +         L  +    ++   M  G ++
Sbjct: 89  IGTIGNLALIRK--EPDFAIKNVALIKHTINFDYQFLFQELQTNSISKELLSGMDGGTQK 146

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            +  + ++ L +L+P   EQ  I +        +D L+   ++ +  LK  +++ ++   
Sbjct: 147 FIPLKKIRDLSILLPTKNEQGHIGSF----FQSLDSLIALHQRKLEELKSFKATMLSKVF 202


>gi|99078523|ref|YP_611781.1| restriction modification system DNA specificity subunit [Ruegeria
           sp. TM1040]
 gi|99035661|gb|ABF62519.1| type I restriction-modification system specificity determinant
           [Ruegeria sp. TM1040]
          Length = 417

 Score =  118 bits (295), Expect = 2e-24,   Method: Composition-based stats.
 Identities = 64/424 (15%), Positives = 128/424 (30%), Gaps = 37/424 (8%)

Query: 14  GVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDG-NSRQ 72
           G+  +G  P+ W   P+ RF  L   R      D     L  V+   G  + +   + R+
Sbjct: 17  GIPKLGKTPEGWLRAPLSRF--LVEVRRPIKMADNEAYRLVTVKRARGGVVERGTLDGRE 74

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFD---GICSTQFLVLQPKDVLPELLQGWLL 129
               +  I   G  L  K         +   +    + S ++ VL     +      +L 
Sbjct: 75  ISVKSQFIVEGGDFLISKRQIVHGACGLVPQELAGSVVSNEYSVLNSNGNIDLQFLNYLA 134

Query: 130 SIDVTQ---RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
                Q      +I                    +PPL+EQ  I E +      I+    
Sbjct: 135 HTVFFQQTCFHSSIGVHVEKMIFKLDRWLKWEFDLPPLSEQRKIVEILSTWDRAIEVAEA 194

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTE--- 243
           +     +  +   Q+L++             K    E+ G       +    + +     
Sbjct: 195 QLANARKQKRALMQSLLTG------------KRRFPEFEGQEWREVWLADLVSAIRGGGT 242

Query: 244 LNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES---YETYQIVDPGEIVFRFIDLQN 300
            ++ NT      I  +S  ++   +  +      +S            G IV        
Sbjct: 243 PDKSNTAYWGGEIPWVSVKDLKSDVLQQTKDTITQSGLNSSAANYFPKGTIVVATRMAVG 302

Query: 301 DKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFE 360
                 + Q+ +   I     A+ P         +        K+         + +   
Sbjct: 303 -----AAVQLGKGMAINQDLKAIIPGPDVRNDYLFHFMQMVQPKLEALGTGSTVKGITLG 357

Query: 361 DVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
           D+ RL + +P  ++EQ  I  +++V    I  +       I  L+  + + +   +TG+ 
Sbjct: 358 DLHRLVIGLPATLEEQDKIVQMLDVARKDISSMCVN----IGKLRAEKKALMQQLLTGKR 413

Query: 420 DLRG 423
            + G
Sbjct: 414 RVTG 417



 Score = 86.4 bits (212), Expect = 8e-15,   Method: Composition-based stats.
 Identities = 30/206 (14%), Positives = 75/206 (36%), Gaps = 8/206 (3%)

Query: 219 DSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETR-NMGLKP 277
             GI  +G  P+ W   P    + E+ R            ++       +  R  +  + 
Sbjct: 15  QPGIPKLGKTPEGWLRAPLSRFLVEVRRPIKMADNEAYRLVTVKRARGGVVERGTLDGRE 74

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
            S ++  IV+ G+ +     + +    L   ++    +     +      ID  +L +L 
Sbjct: 75  ISVKSQFIVEGGDFLISKRQIVHGACGLVPQELAGSVVSNEYSVLNSNGNIDLQFLNYLA 134

Query: 338 RSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
            +    +  +    G+   +   K +   +    +PP+ EQ  I  +++      D  +E
Sbjct: 135 HTVFFQQTCFHSSIGVHVEKMIFKLDRWLKWEFDLPPLSEQRKIVEILSTW----DRAIE 190

Query: 395 KIEQSIVLLKERRSSFIAAAVTGQID 420
             E  +   ++++ + + + +TG+  
Sbjct: 191 VAEAQLANARKQKRALMQSLLTGKRR 216


>gi|218439052|ref|YP_002377381.1| restriction modification system DNA specificity domain protein
           [Cyanothece sp. PCC 7424]
 gi|218171780|gb|ACK70513.1| restriction modification system DNA specificity domain protein
           [Cyanothece sp. PCC 7424]
          Length = 417

 Score =  118 bits (295), Expect = 2e-24,   Method: Composition-based stats.
 Identities = 65/425 (15%), Positives = 134/425 (31%), Gaps = 32/425 (7%)

Query: 13  SG-VQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKD------IIYIGLEDVESGTGKYLP 65
           SG V  +  +P  W+   I       +G T            I +    ++         
Sbjct: 5   SGMVDNLWPLPDGWEWKKISDIATTTSGGTPSRKNSEYFTGHINWFKSGELGDSEIFNSE 64

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV----LP 121
           +         S+  IF K  +L    G  + K  I   D   +     + PK      + 
Sbjct: 65  EKITEEAIKKSSAKIFPKDTLLIAMYGATVGKLGILGIDAATNQAVCAIFPKKNLGIKIV 124

Query: 122 ELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
           E    +     +  ++     G    +     I N+ +PIP      L  +       RI
Sbjct: 125 EEKFLFYFFKFIRSQLIERSFGGAQPNISQTIINNVTIPIPYPNNPKLSLDIQQRIVARI 184

Query: 182 DT---LITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIE-WVGLVPDHWEVKPF 237
           ++    I      +E +++  + L+   + +          S +E W          K  
Sbjct: 185 ESLLGEIKHNRSLLEQMRQDTEQLLDSAIKE------CFALSRMETWKNHSCLGEIAKII 238

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID 297
              V     +   L    +  +       +LE      +        +   G I++  I 
Sbjct: 239 AKQVDPTLPQYQTLPHIGVDVIQANTC--QLEDYRTIEEDGVTSGKYLFTSGSILYSKIR 296

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QS 356
               K  L   + +    I    ++V    I+  +L W + S        +     R   
Sbjct: 297 PYLRKSVLVDFEGLCSADIYP--LSVISDEIEPKFLMWFLISPLFTDYAKSHSGRARIPK 354

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINV---ETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           +  + +    ++ P  +EQ  I + +++   E  +ID L+++ E++   L+    + +  
Sbjct: 355 INRDALFSFKLVYPNYEEQISIISYLDLIRFEVQKIDKLLKEDEKNFNYLE---QAILEK 411

Query: 414 AVTGQ 418
           A  G+
Sbjct: 412 AFRGE 416



 Score = 66.7 bits (161), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 36/187 (19%), Positives = 76/187 (40%), Gaps = 5/187 (2%)

Query: 30  IKRFTKLNTGR---TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQI 86
           +    K+   +   T    + + +IG++ +++ T +            TS   +F  G I
Sbjct: 231 LGEIAKIIAKQVDPTLPQYQTLPHIGVDVIQANTCQLEDYRTIEEDGVTSGKYLFTSGSI 290

Query: 87  LYGKLGPYLRKAIIADFDGICSTQFLV--LQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
           LY K+ PYLRK+++ DF+G+CS       +   ++ P+ L  +L+S   T   ++    A
Sbjct: 291 LYSKIRPYLRKSVLVDFEGLCSADIYPLSVISDEIEPKFLMWFLISPLFTDYAKSHSGRA 350

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
            +   +   + +  +  P   EQ+ I   +      +  +        +     +QA++ 
Sbjct: 351 RIPKINRDALFSFKLVYPNYEEQISIISYLDLIRFEVQKIDKLLKEDEKNFNYLEQAILE 410

Query: 205 YIVTKGL 211
                 L
Sbjct: 411 KAFRGEL 417


>gi|303253787|ref|ZP_07339922.1| hypothetical protein APP2_0973 [Actinobacillus pleuropneumoniae
           serovar 2 str. 4226]
 gi|302647371|gb|EFL77592.1| hypothetical protein APP2_0973 [Actinobacillus pleuropneumoniae
           serovar 2 str. 4226]
          Length = 455

 Score =  117 bits (294), Expect = 3e-24,   Method: Composition-based stats.
 Identities = 61/436 (13%), Positives = 127/436 (29%), Gaps = 64/436 (14%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            IP+ W++  +         +T       I +GL + +      L       Q+ +    
Sbjct: 20  EIPESWEIEKLGNIIFNLGQKTPNERFFYIDVGLINNKIHKLNSLENILEPDQAPSRARK 79

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDG----ICSTQFLVLQ-PKDVLPELLQGWLLSIDVT 134
           I  K  ILY  + PYL+   I + D     I ST F+V+    +   + L  +LLS   T
Sbjct: 80  IVQKNSILYSTVRPYLQNICILEQDFQYEPIASTAFVVMNVFTNFYHKYLFYYLLSPVFT 139

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             +     G      +   + N+P+ IPPL EQ  I  KI      I+    +  +   L
Sbjct: 140 DFVNQEMVGVAYPAINDDKLYNLPIAIPPLNEQKRIVAKIEELLPYIEQYAEKEEKLTAL 199

Query: 195 LKEKK----QALVSYIVTKGLNPDVKM--------------------------------- 217
            ++      ++++   +   L                                       
Sbjct: 200 HQQFPEQLKKSILQAAIQGKLTKQDPNDEPALVLIERIKAEKLRLIAEKKLKKPKVVSEI 259

Query: 218 ---------------KDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN---ILSL 259
                          +    E    +P++W       +            +      + L
Sbjct: 260 ILRDNLPYEIINGEERCIADEVPFEIPENWCWVRLGEIGETNIGLTYAPNDVVLEGTIVL 319

Query: 260 SYGNIIQKLETRNMGL--KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
             GNI       +  +     +    +     +++    +   +     +    +     
Sbjct: 320 RSGNIQNGKIDVSSDVVRVNLNIPENKKCYKNDLLICARNGSKNLVGKAAIVDKDGYSFG 379

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFD 377
           +     +       Y+ + + S      F  + +     +   ++    + +PP+ EQ  
Sbjct: 380 AFMAIFRSPFY--QYIYYYLSSPLFRNDFDGINTTTINQITQNNLNNRLIPLPPLNEQKR 437

Query: 378 ITNVINVETARIDVLV 393
           I   I    + +  L 
Sbjct: 438 IVEKIEKLFSTLQNLE 453



 Score = 86.4 bits (212), Expect = 9e-15,   Method: Composition-based stats.
 Identities = 36/201 (17%), Positives = 76/201 (37%), Gaps = 10/201 (4%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE--SYETYQ 284
            +P+ WE++    ++  L +K        I      N I KL +    L+P+       +
Sbjct: 20  EIPESWEIEKLGNIIFNLGQKTPNERFFYIDVGLINNKIHKLNSLENILEPDQAPSRARK 79

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK-PHGIDSTYLAWLMRSYDLC 343
           IV    I++  +        +         I ++A++ +         YL + + S    
Sbjct: 80  IVQKNSILYSTVRPYLQNICILEQDFQYEPIASTAFVVMNVFTNFYHKYLFYYLLSPVFT 139

Query: 344 KVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
                   G+   ++  + +  LP+ +PP+ EQ  I   I      I+    + E+ +  
Sbjct: 140 DFVNQEMVGVAYPAINDDKLYNLPIAIPPLNEQKRIVAKIEELLPYIEQY-AEKEEKLTA 198

Query: 403 L-----KERRSSFIAAAVTGQ 418
           L     ++ + S + AA+ G+
Sbjct: 199 LHQQFPEQLKKSILQAAIQGK 219


>gi|315172561|gb|EFU16578.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX1346]
          Length = 402

 Score =  117 bits (294), Expect = 3e-24,   Method: Composition-based stats.
 Identities = 58/400 (14%), Positives = 138/400 (34%), Gaps = 27/400 (6%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W+   +    K  + ++    +       + + S       ++G    +      I   
Sbjct: 17  DWEERKLGDLLKEFSIKSKIEDEH------KVLSSTNSGMEFREGRVSGTSNLGYKIIKN 70

Query: 84  GQILYGKLGPYLRKAIIADF-DGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           G ++      +L    I +   G+ S  +   +  ++    +   L +  + +  +    
Sbjct: 71  GDLVLSPQNLWLGNININNIGKGLVSPSYKTFEFINIDSSFINPQLRTQKMLEEYKNSST 130

Query: 143 GAT---MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
                   + +      I + +P ++EQ  I         +ID  I    R ++LLKE+K
Sbjct: 131 QGASVVRRNLEIDSFYQIKIFVPTISEQEKIGSF----FKQIDDTIDLHQRKLDLLKEQK 186

Query: 200 QALVSYIVTKGLNPDVKMKDSGI--EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
           +  +  +  K      +++ +G   +W                + +   K+       ++
Sbjct: 187 KGFLQKMFPKNGAKVPELRFAGFADDWEERKLSDVANHRGGTAIEKYFDKDGVYK---VI 243

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVF----RFIDLQNDKRSLRSAQVMER 313
           S+    +  +   +N+          ++V+ GE+      +  +     RSL   Q  E 
Sbjct: 244 SIGSYGLNSQYVDQNIRAISNEITDGRVVNSGELTMVLNDKTANGTIIGRSLLVEQDNEY 303

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
            I     +       DS +   ++      KV   +  G +  + +  V  L + +P I+
Sbjct: 304 VINQRTEIISPKETFDSNFAYTILNGSFREKVKRIVQGGTQIYVNYSAVSNLSLELPKIE 363

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           EQ  I +       ++D  +   ++ + LLKE++  F+  
Sbjct: 364 EQQKIGSF----FKQLDNTIALHQRKLDLLKEQKKGFLQK 399


>gi|229550756|ref|ZP_04439481.1| possible type IC specificity subunit protein [Lactobacillus
           rhamnosus LMS2-1]
 gi|229315867|gb|EEN81840.1| possible type IC specificity subunit protein [Lactobacillus
           rhamnosus LMS2-1]
          Length = 412

 Score =  117 bits (294), Expect = 3e-24,   Method: Composition-based stats.
 Identities = 45/402 (11%), Positives = 129/402 (32%), Gaps = 23/402 (5%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIG---LEDVESGTGKYLPKDGNSRQSDTSTVSI 80
            W+   + +     TG + ++ +D  +     +  +   +      +        S    
Sbjct: 19  SWEQRKLGKMGYTFTGLSGKTKEDFGHGNAKFVTYMNVFSSPVSNSEMVENVEVDSKQHQ 78

Query: 81  FAKGQILYGKLGPYLRKAIIADFD------GICSTQFLVLQPKDVLPELLQGWL-LSIDV 133
              G + +       ++  ++            ++      P          ++  S  +
Sbjct: 79  VEYGDVFFTTSSETPQEVGMSSVWLETAENIYLNSFCFGYHPMVEFDPYYLAFMLRSPVI 138

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            ++   + +G +  +     +  + +P+P + EQ  I         ++D  IT   R + 
Sbjct: 139 RKKFMLLAQGISRYNISKNKVMEMLVPVPEIVEQQKIGSF----FKQLDDTITLHQRKLA 194

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
            LKE KQ  +  +  +  +   +++ +G        +  ++      + +      K  E
Sbjct: 195 KLKELKQGYLQKLFPENGSKFPQLRFAG---FADAWEQRKLSDGTNKIGDGLHGTPKYSE 251

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV-ME 312
              +    GN +   +   M          Q  D   +    I +  +      A    E
Sbjct: 252 DGEVYFVNGNNLVNGQIVIMPETKTVTSNEQSKDDKALNESTILMSINGTIGNLAWYRGE 311

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV-FYAMGSGLRQSLKFEDVKRLPVLVPP 371
             ++  +   ++    D  ++   +++  +      ++     ++L  + ++   +  P 
Sbjct: 312 NLMLGKSAAYIEVSDFDKKFIYAYLQTRPVKDYYLNSLTGTTIKNLGLKAIRNTNICTPT 371

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           I EQ  I     V    +D  +   ++ +  L+E +  ++  
Sbjct: 372 IDEQAKIG----VLFQNLDKTITLHQRKLEKLQELKKGYLQK 409



 Score = 92.5 bits (228), Expect = 1e-16,   Method: Composition-based stats.
 Identities = 33/175 (18%), Positives = 67/175 (38%), Gaps = 9/175 (5%)

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKP-ESYETYQIVDPGEIVFRFIDLQNDKRS 304
           +        N   ++Y N+     + +  ++  E       V+ G++ F        +  
Sbjct: 38  KTKEDFGHGNAKFVTYMNVFSSPVSNSEMVENVEVDSKQHQVEYGDVFFTTSSETPQEVG 97

Query: 305 LRSAQVM--ERGIITSAYMAVKPH-GIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFE 360
           + S  +   E   + S      P    D  YLA+++RS  + K F  +  G+ R ++   
Sbjct: 98  MSSVWLETAENIYLNSFCFGYHPMVEFDPYYLAFMLRSPVIRKKFMLLAQGISRYNISKN 157

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            V  + V VP I EQ  I +       ++D  +   ++ +  LKE +  ++    
Sbjct: 158 KVMEMLVPVPEIVEQQKIGSF----FKQLDDTITLHQRKLAKLKELKQGYLQKLF 208


>gi|304383195|ref|ZP_07365668.1| type I restriction enzyme EcoAI specificity protein [Prevotella
           marshii DSM 16973]
 gi|304335666|gb|EFM01923.1| type I restriction enzyme EcoAI specificity protein [Prevotella
           marshii DSM 16973]
          Length = 420

 Score =  117 bits (294), Expect = 3e-24,   Method: Composition-based stats.
 Identities = 50/412 (12%), Positives = 120/412 (29%), Gaps = 37/412 (8%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSES----------GKDIIYIGLEDVESGTGKYLPKDGN 69
            +P+ W    +        G    S                   ++      K      +
Sbjct: 11  EVPQGWVWCKLDDLAFYKKGPFGSSLTKSMFVLKGDNTYKVYEQKNAIQKNEKLGTYYIS 70

Query: 70  SRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFD--GICSTQFLVLQPKDVLPELLQGW 127
             +             I+    G      ++      GI +   ++++  +   E     
Sbjct: 71  KEKYQELIAFAIQPFDIIVSCAGTIGETFVLPQEPMEGIINQALMLVRLYNRDIEKFYLL 130

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGI-GNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
                + +      +G  + +     +  N  +P+PP +EQ  I  +I      IDT+  
Sbjct: 131 YFDYILKEEAYKESKGTAIKNIPPFDVLKNFYIPLPPFSEQQRIVAEIERWFALIDTIEQ 190

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVG----------------LVPD 230
            ++     +K+ K  ++   +   L P     +  IE V                  +P 
Sbjct: 191 GKVELQTAIKQTKSKILDLAIHGKLVPQDPNDEPAIELVRRINPKAQITCDNGHSRKLPQ 250

Query: 231 HWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY--QIVDP 288
            W       +   +        +   + +   +  +++ +    +K  +  +   +    
Sbjct: 251 SWTWVKGKNIFAPMKSTKPTNEKFQYIDIDSIDNKRQIISEVKTIKTVNAPSRANRYTQK 310

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV--KPHGIDSTYLAWLMRSYDLCKVF 346
            ++VF  +       +  +    +  I ++ +      P  +   Y  +LM S ++    
Sbjct: 311 NDVVFSMVRPYLRNIAKVTN---DNCIASTGFYVCSSIPQILHPDYCYYLMISDNVVNGL 367

Query: 347 YAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
                G    S+    +      +PP+ EQ  I   I      +D +   +E
Sbjct: 368 NQFMKGDNSPSINKGHIDEWLFPLPPLAEQQRIVQKIEKMFFILDDIQNALE 419



 Score = 71.4 bits (173), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 43/216 (19%), Positives = 72/216 (33%), Gaps = 16/216 (7%)

Query: 217 MKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK 276
           M     +    VP  W       L           +  ++  L   N  +  E +N   K
Sbjct: 1   MHHYEQDVPFEVPQGWVWCKLDDLAFYKKGPFGSSLTKSMFVLKGDNTYKVYEQKNAIQK 60

Query: 277 PESYETYQIVDPG------------EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
            E   TY I                +I+        +  +    Q    GII  A M V+
Sbjct: 61  NEKLGTYYISKEKYQELIAFAIQPFDIIVSCAGTIGE--TFVLPQEPMEGIINQALMLVR 118

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLK-FEDVKRLPVLVPPIKEQFDITNVI 382
            +  D      L   Y L +  Y    G   +++  F+ +K   + +PP  EQ  I   I
Sbjct: 119 LYNRDIEKFYLLYFDYILKEEAYKESKGTAIKNIPPFDVLKNFYIPLPPFSEQQRIVAEI 178

Query: 383 NVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
               A ID + +   +    +K+ +S  +  A+ G+
Sbjct: 179 ERWFALIDTIEQGKVELQTAIKQTKSKILDLAIHGK 214


>gi|167461699|ref|ZP_02326788.1| putative type I restriction enzyme specificity subunit
           [Paenibacillus larvae subsp. larvae BRL-230010]
 gi|322384020|ref|ZP_08057748.1| hypothetical protein PL1_2076 [Paenibacillus larvae subsp. larvae
           B-3650]
 gi|321151387|gb|EFX44576.1| hypothetical protein PL1_2076 [Paenibacillus larvae subsp. larvae
           B-3650]
          Length = 410

 Score =  117 bits (294), Expect = 3e-24,   Method: Composition-based stats.
 Identities = 67/387 (17%), Positives = 151/387 (39%), Gaps = 26/387 (6%)

Query: 53  LEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKA------IIADFDGI 106
           +  ++  +G+            +   + F +  IL+ K+ P +          + +  G 
Sbjct: 1   MSSIDPVSGQITFIKEREFSKVSKGYTYFQENDILFAKITPCMENGNTVIAKGMLNKFGF 60

Query: 107 CSTQFLVLQPKDVLP-ELLQGWLLSIDVTQRIEAICEG-ATMSHADWKGIGNIPMPIPPL 164
            ST+F VL+P +++    +   L S    +  +A+  G         K + + P+ +PPL
Sbjct: 61  GSTEFYVLRPSNIVEGRFIYYLLRSEKFRKEAKAVMSGAVGQQRVPKKFLIDYPLCLPPL 120

Query: 165 AEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEW 224
            EQ  I +KI +   ++D          E  + ++ A++       L  + ++    I  
Sbjct: 121 NEQKRIADKIESLFAKMDIAKRLIDEAKESFELRRAAILDKAFRGELTKEWRLSQVEILP 180

Query: 225 VGLV--PDHWEVKPFFALVTELNRK------NTKLIESNILSLSYGNIIQKLETRNMGLK 276
                 P  W+      +V    R+      + +   + +   +   I   +E   +   
Sbjct: 181 NLETKIPYGWKHVILSDVVQVNPRRTKLQHISDEQECTFVPMGAVSEISGTIEEPEVKSF 240

Query: 277 PESYETYQIVDPGEIVFRFID--LQNDKRSLRSAQVMERGIITSAYMAVKPHGI-DSTYL 333
               + Y   +  +I+F  I   ++N K +L S  +   G  ++ +  ++     ++ Y+
Sbjct: 241 VIVKKGYTYFEENDIIFAKITPCMENGKTALASKLINGFGFGSTEFHVIRAKQHINNKYI 300

Query: 334 AWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
            +L+RS           +G   +Q +    ++     +PP++EQ  I +++     + D 
Sbjct: 301 YFLLRSSKFRYEAKMHMTGAVGQQRVPKSFLENYKFQLPPVEEQAKIVDLLEKIYDKEDK 360

Query: 392 L--VEKIEQSIVLLKERRSSFIAAAVT 416
              +E++E+SI LL   + S +  A  
Sbjct: 361 ALVIEQLEESIKLL---KQSIVQKAFR 384



 Score = 79.8 bits (195), Expect = 8e-13,   Method: Composition-based stats.
 Identities = 29/156 (18%), Positives = 71/156 (45%), Gaps = 5/156 (3%)

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFID--LQNDKRSLRSAQVMERGIITSAYMAVKP 325
           +         +  + Y      +I+F  I   ++N    +    + + G  ++ +  ++P
Sbjct: 11  ITFIKEREFSKVSKGYTYFQENDILFAKITPCMENGNTVIAKGMLNKFGFGSTEFYVLRP 70

Query: 326 -HGIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
            + ++  ++ +L+RS    K   A+ SG   +Q +  + +   P+ +PP+ EQ  I + I
Sbjct: 71  SNIVEGRFIYYLLRSEKFRKEAKAVMSGAVGQQRVPKKFLIDYPLCLPPLNEQKRIADKI 130

Query: 383 NVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
               A++D+    I+++    + RR++ +  A  G+
Sbjct: 131 ESLFAKMDIAKRLIDEAKESFELRRAAILDKAFRGE 166



 Score = 62.5 bits (150), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 39/221 (17%), Positives = 80/221 (36%), Gaps = 13/221 (5%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTS----ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            IP  WK V +    ++N  RT        ++  ++ +  V   +G     +  S     
Sbjct: 185 KIPYGWKHVILSDVVQVNPRRTKLQHISDEQECTFVPMGAVSEISGTIEEPEVKSFVIVK 244

Query: 76  STVSIFAKGQILYGKLGPYLRKA------IIADFDGICSTQFLVLQPKDVL-PELLQGWL 128
              + F +  I++ K+ P +          + +  G  ST+F V++ K  +  + +   L
Sbjct: 245 KGYTYFEENDIIFAKITPCMENGKTALASKLINGFGFGSTEFHVIRAKQHINNKYIYFLL 304

Query: 129 LSIDVTQRIEAICEG-ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
            S       +    G           + N    +PP+ EQ  I + +     + D     
Sbjct: 305 RSSKFRYEAKMHMTGAVGQQRVPKSFLENYKFQLPPVEEQAKIVDLLEKIYDKEDKA-LV 363

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLV 228
             +  E +K  KQ++V     + L  +   ++S I+ +   
Sbjct: 364 IEQLEESIKLLKQSIVQKAFRRELGTNDSTEESAIQLLKET 404


>gi|307155045|ref|YP_003890429.1| restriction modification system DNA specificity domain-containing
           protein [Cyanothece sp. PCC 7822]
 gi|306985273|gb|ADN17154.1| restriction modification system DNA specificity domain protein
           [Cyanothece sp. PCC 7822]
          Length = 397

 Score =  117 bits (294), Expect = 3e-24,   Method: Composition-based stats.
 Identities = 61/409 (14%), Positives = 128/409 (31%), Gaps = 28/409 (6%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           ++W +VP+     + +    +   +  Y  +     G G     +    +   S      
Sbjct: 3   QNWDLVPLGEIL-IKSNTWIQIEANKKYKQITVKYWGKGVVERNEVIGTEIAASQRLQVR 61

Query: 83  KGQILYGKLGPYLRKAIIADFD---GICSTQFLVLQ--PKDVLPELLQGWLLSIDVTQRI 137
            GQ +  ++        +        I +  F V       +LP  L     +    +  
Sbjct: 62  SGQFIVSRIDARHGSFGLIPDCLNGAIVTNDFPVFNLNINRILPHFLNWMSKTPTFIELC 121

Query: 138 EAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           +   EG T           ++ +P+P L EQ  I  KI     +I+     +   I   +
Sbjct: 122 KVASEGTTNRIRLKEDKFLSMKIPLPKLEEQQRIIAKIEELVAKIEEARGLKEAGIRECE 181

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
               A +  + T   N     K  G   +                     + T   +  I
Sbjct: 182 MLINAEIYNLFTICKNTHWANKKLGDIVIDD--------------CYGTSEKTHDYKVGI 227

Query: 257 LSLSYGNIIQKLETRNMGL---KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
             L  GNI   +   +        E  +   I+  G+I+    +            +   
Sbjct: 228 PILRMGNIQNGILDVSELKYLDIHEKNKDKLILQKGDILVNRTNSAELVGKCAVFNLKGE 287

Query: 314 GIITSAYMAVKPH--GIDSTYLAWLMRSYDLCKVF--YAMGSGLRQSLKFEDVKRLPVLV 369
               S  + ++      + T +A  + S                + ++  + +K LP+++
Sbjct: 288 YGFASYIIRLRLDKAQANPTLIAMYINSSLGRTYMFNERKQMTGQANINAKKLKALPIIL 347

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           PP+ EQ +I   ++    +ID +    ++S+  L     + +  A  G+
Sbjct: 348 PPLSEQQEIVTYLDNLQTQIDEMKRLRQESLKELNALLPAILDKAFKGE 396


>gi|254456858|ref|ZP_05070286.1| type I restriction-modification system, S subunit
           [Campylobacterales bacterium GD 1]
 gi|207085650|gb|EDZ62934.1| type I restriction-modification system, S subunit
           [Campylobacterales bacterium GD 1]
          Length = 365

 Score =  117 bits (294), Expect = 3e-24,   Method: Composition-based stats.
 Identities = 51/391 (13%), Positives = 110/391 (28%), Gaps = 31/391 (7%)

Query: 31  KRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGK 90
               +L   +T  S                G+Y     N         +   + Q+L   
Sbjct: 2   GELCELYQPKTISSKDMC----------EDGQYPVFGANGIIGKYDKYNH-EEPQLLITC 50

Query: 91  LGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHAD 150
            G       I++     +   +V++P D    +     L        + I   A      
Sbjct: 51  RGATCGSVNISEPQSWINGNAMVVRPIDDSLHIKFVEYLFRGGIDISKTITGAAQPQITR 110

Query: 151 WKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKG 210
                 +        EQ  I   +      I    T   + ++  KE  ++ +  +    
Sbjct: 111 QSLSPILISFPQSFPEQQRIVAILDEAFEAIAKAKTNAEQNLKNAKELFESYLQSVFENK 170

Query: 211 LNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLET 270
            +             G      E            +K+      ++ + +  +    L  
Sbjct: 171 GD-------------GWEEKTLEDVCKITSKLIDPKKSEFQNLVHVGAGNIESQKGTLID 217

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP--HGI 328
                +        + D   I++  I     K          +G+ ++    + P  + +
Sbjct: 218 LKTAKEENLISGKFLFDESMILYSKIRPYLMKV----VNCNFKGLCSADIYPLWPFDNKM 273

Query: 329 DSTYLAWLMRSYDLCKV-FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
              +L  L+ S +  +             +  E +      +PP+ EQ  I   +N  +A
Sbjct: 274 QKDFLYHLLLSKNFTEYAILGSQRAGMPKVNREHLFSYRFYLPPLSEQEQIVQKLNALSA 333

Query: 388 RIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
               L    +++I  L+E + S +  A  G+
Sbjct: 334 ETKRLETIYQKNIEDLEELKKSILQKAFNGE 364



 Score = 76.4 bits (186), Expect = 8e-12,   Method: Composition-based stats.
 Identities = 45/193 (23%), Positives = 85/193 (44%), Gaps = 5/193 (2%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDI---IYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
            W+   ++   K+ +        +    +++G  ++ES  G  +       ++  S   +
Sbjct: 173 GWEEKTLEDVCKITSKLIDPKKSEFQNLVHVGAGNIESQKGTLIDLKTAKEENLISGKFL 232

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP--KDVLPELLQGWLLSIDVTQRIE 138
           F +  ILY K+ PYL K +  +F G+CS     L P    +  + L   LLS + T+   
Sbjct: 233 FDESMILYSKIRPYLMKVVNCNFKGLCSADIYPLWPFDNKMQKDFLYHLLLSKNFTEYAI 292

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
              + A M   + + + +    +PPL+EQ  I +K+ A +     L T   + IE L+E 
Sbjct: 293 LGSQRAGMPKVNREHLFSYRFYLPPLSEQEQIVQKLNALSAETKRLETIYQKNIEDLEEL 352

Query: 199 KQALVSYIVTKGL 211
           K++++       L
Sbjct: 353 KKSILQKAFNGEL 365


>gi|158333868|ref|YP_001515040.1| type I restriction-modification enzyme S subunit [Acaryochloris
           marina MBIC11017]
 gi|158304109|gb|ABW25726.1| type I restriction-modification enzyme S subunit [Acaryochloris
           marina MBIC11017]
          Length = 382

 Score =  117 bits (293), Expect = 3e-24,   Method: Composition-based stats.
 Identities = 59/402 (14%), Positives = 122/402 (30%), Gaps = 34/402 (8%)

Query: 29  PIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            +K   +   G T    K      +I +I   D+                   S      
Sbjct: 2   KLKEVCRFLNGGTPSKKKPEYFEGEIPWITGADINGPIVNSARSYITEEAILNSATKRVP 61

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
              +L       + K  ++  +   S     L P     ++             ++    
Sbjct: 62  PNTVLLVT-RTSVGKVAVSGMELCYSQDITSLWPDLEKLDIYYLTHFLRSRETYLKGQSR 120

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           GAT+       + N+ + +PP+AEQ  I   + A                 LL    Q+ 
Sbjct: 121 GATIKGVTKGVLENLSLHLPPIAEQKRIAGILDAADALRVKRRDAISTLDALL----QST 176

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
              +    +   +    S +E                 +T+   K  K  ES I  LS  
Sbjct: 177 FLTLFGDPITNPMGWDASDLE------------AVSEKITDGTHKTPKYTESGIEFLSAK 224

Query: 263 NIIQKLETRNMGLKPESYETYQIV-----DPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
           +I       N G      E   ++     + G+++           ++           +
Sbjct: 225 DIKNGSIKWNTGKFISEDEHKSLITRCHPEIGDVLLAKSGSLGS-VAIIDRDHEFSLFES 283

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQF 376
              +      I++ +L  ++ S  +     +   G+  + L   D+++L +L+PP+ +Q 
Sbjct: 284 LCLIKHNRQKIEAQFLTAMLESPRMQMHLLSRNKGISIKHLHLTDIRKLKILLPPLDKQR 343

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
               ++    A I+    +    +  L    +S  + A  G+
Sbjct: 344 KFATIV----ASIEKQKAQQCAHLAELDTLFASLQSRAFNGE 381


>gi|83776722|gb|ABC46684.1| Sau1hsdS1 [Staphylococcus aureus]
          Length = 389

 Score =  117 bits (293), Expect = 3e-24,   Method: Composition-based stats.
 Identities = 52/398 (13%), Positives = 108/398 (27%), Gaps = 39/398 (9%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
            W+   +       +G T    K      DI +I   D+ +   + +      +  + S+
Sbjct: 20  EWEEKKLGEVGTFTSGGTPLKSKSEYWNGDIPWITTGDIHNIKRENITNFITEKGLNESS 79

Query: 78  VSIFAKGQILYGKLGP--YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
             +     IL    G       + I +F+   +    + Q    +      +     + +
Sbjct: 80  AKLITNEAILIAMYGQGKTRGMSAILNFEATTNQACAIYQTNQNIN---FVFQYFQKLYE 136

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            + ++    +  +     +  I +  P   EQ  I +       +I+    +     +  
Sbjct: 137 FLRSLSNEGSQKNLSLSLLKEITLNYPNEQEQKKIGDFFSKLDRQIELEEQKLELLQQQK 196

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
           K   Q + S  +               +  G     WE      +      K        
Sbjct: 197 KGYMQKIFSQELRFK------------DENGNDYPEWEETTIKEIAQINXGKKDTK---- 240

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
                  + I           P  Y+       GE +    D     +        +   
Sbjct: 241 -------DAITNGSYDFYVRSPIVYKINTFSYEGEAILTVGDGVGVGKVF-HYVNGKFDY 292

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
               Y            L +      L +           S++ + +  + V  P   EQ
Sbjct: 293 HQRVYKISDFKNYYGLLLFYYFSQNFLKETKKYSAKTSVDSVRKDMIANMKVPRPIYIEQ 352

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
             I   I     R+D   +  +Q I LLK+R+ + +  
Sbjct: 353 KKIGQFI----KRVDNKTKIQKQVIELLKQRKKALLQK 386


>gi|261837923|gb|ACX97689.1| specificity subunit S of type I restriction-modification system
           [Helicobacter pylori 51]
          Length = 422

 Score =  117 bits (293), Expect = 3e-24,   Method: Composition-based stats.
 Identities = 52/403 (12%), Positives = 132/403 (32%), Gaps = 29/403 (7%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPKDGNSRQSD 74
           PK  +   ++   ++  G T             I +  +ED+            +     
Sbjct: 13  PKGVEFKTLEEVFEIKNGYTPSKNNPEFWEKGTIPWFRMEDIRENGRILKDSIQHITPKA 72

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP---ELLQGWLLSI 131
                +F K  I+          A++   D + + +F  L  K       ++   +    
Sbjct: 73  LKGKKLFPKNSIIISTTATIGEHALLI-VDSLANQRFTFLSKKANCDLALDMKFFFYQCF 131

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            + +  +     +  +  D         PIPPL  Q  I + + A T     L TE    
Sbjct: 132 LLGEWCKKNTNVSGFASVDMTAFKRYKFPIPPLEIQQEIVKILDAFTELNTELNTELNTE 191

Query: 192 IELLKEKKQAL------VSYIVTKGLNPDVKMKDSGIEWVGLV--PDHWEVKPFFALVTE 243
           ++  K++ Q                 +  +  K   ++ +     P   E +    +   
Sbjct: 192 LKARKKQYQYYQNMLLDFKDANQNHKDATMSAKTYRLKSLLQTLAPKGVEFRKLGEVCEI 251

Query: 244 LNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKR 303
           L+ +   + ++      Y           +       +   + + G ++        D  
Sbjct: 252 LDNRRIPIAKNKRNPGIYPYYGANGIQDYIDSYIFDGDFVLVGEDGSVI------NKDNT 305

Query: 304 SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVK 363
            + +    +  +   A++    + +   +L + +++ D+        +G    +  E++K
Sbjct: 306 PVVNWASGKIWVNNHAHVLQTKNELKLKFLYFYLQTIDV----SYCVAGTPPKINQENLK 361

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
           ++ + +PP++ Q +I  +++  +A    L+  I   I   K++
Sbjct: 362 KITIPIPPLEIQQEIVKILDQFSALTTDLLAGIPAEIKARKKQ 404



 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 23/191 (12%), Positives = 56/191 (29%), Gaps = 17/191 (8%)

Query: 229 PDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMG---------LKPES 279
           P   E K    +    N                    +  + R  G         + P++
Sbjct: 13  PKGVEFKTLEEVFEIKNGYTPSKNNPEFWEKGTIPWFRMEDIRENGRILKDSIQHITPKA 72

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
            +  ++     I+        +   L    +  +      +++ K +   +  + +    
Sbjct: 73  LKGKKLFPKNSIIISTTATIGEHALLIVDSLANQRFT---FLSKKANCDLALDMKFFFYQ 129

Query: 340 YDLCKVFYAMGS--GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
             L   +    +      S+     KR    +PP++ Q +I  +++  T     L  ++ 
Sbjct: 130 CFLLGEWCKKNTNVSGFASVDMTAFKRYKFPIPPLEIQQEIVKILDAFTELNTELNTELN 189

Query: 398 QSIVLLKERRS 408
                LK R+ 
Sbjct: 190 TE---LKARKK 197


>gi|242372573|ref|ZP_04818147.1| type I site-specific deoxyribonuclease specificity subunit
           [Staphylococcus epidermidis M23864:W1]
 gi|242349790|gb|EES41391.1| type I site-specific deoxyribonuclease specificity subunit
           [Staphylococcus epidermidis M23864:W1]
          Length = 406

 Score =  117 bits (293), Expect = 3e-24,   Method: Composition-based stats.
 Identities = 62/403 (15%), Positives = 145/403 (35%), Gaps = 32/403 (7%)

Query: 25  WKVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           W+   IK   K+ +G T    K       +I ++   D+ +       ++      +++ 
Sbjct: 19  WESTKIKNIFKVVSGSTPLRSKTEYYNNGNIPWVKTTDLNNRLLSKTSENITELALNSNN 78

Query: 78  VSIFAKGQILYGKLGPY--LRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
           + +  K  +L    G +  + +  I + +   +     L   + +        L+ +V +
Sbjct: 79  LKLLPKQTLLIAMYGGFNQIGRTAILNMEATTNQAISALISNNNVNTKFLQSYLNFNVNK 138

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
                       +   K I N  +P   + EQ  I +       +I+    +     +  
Sbjct: 139 WKRYAASSRKDPNITKKDIENFIVPFTNIIEQNKIGDFFSKLDRQIELEEEKLGLLQQYK 198

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
           K+    L+S  +    N             G    +W  +    L+ E+N K     +  
Sbjct: 199 KKYTNKLLSQEIRFKNN------------NGYNYPNWNEEKLGNLIDEVNEKTILNNQYP 246

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
           +LS +   ++ + E     +  +  + Y+I+   ++V    +L     ++   Q  + GI
Sbjct: 247 LLSSTKNGLLTQEEYFKKQIGSKENKGYKILRLNQLVLSPQNLWL--GNINLNQRFDIGI 304

Query: 316 ITSAYMAVKPHGIDSTYL-AWLMRSYDLC----KVFYAMGSGLRQSLKFEDVKRLPVLVP 370
           ++ +Y     +   +      +++S        +      S +R++L  +    + V +P
Sbjct: 305 VSPSYRIYNLNQRFNINFAKTVLKSPRYIYAYAQASEQGASVVRRNLNLDLFYSIKVSLP 364

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            I+EQ  I+  ++      + L+EK    + LL  R+  F+  
Sbjct: 365 CIEEQNKISAFLDG----FENLIEKQYSKVDLLNHRKQGFLQK 403



 Score = 56.7 bits (135), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 26/209 (12%), Positives = 71/209 (33%), Gaps = 8/209 (3%)

Query: 215 VKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMG 274
            +++    E          +    +  T L  K       NI  +   ++  +L ++   
Sbjct: 8   PELRFPEFEDKWESTKIKNIFKVVSGSTPLRSKTEYYNNGNIPWVKTTDLNNRLLSKTSE 67

Query: 275 LKPE---SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST 331
              E   +    +++    ++       N         + E     +    +  + +++ 
Sbjct: 68  NITELALNSNNLKLLPKQTLLIAMYGGFNQIGRTAILNM-EATTNQAISALISNNNVNTK 126

Query: 332 YLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
           +L   +         YA  S    ++  +D++   V    I EQ  I +      +++D 
Sbjct: 127 FLQSYLNFNVNKWKRYAASSRKDPNITKKDIENFIVPFTNIIEQNKIGDF----FSKLDR 182

Query: 392 LVEKIEQSIVLLKERRSSFIAAAVTGQID 420
            +E  E+ + LL++ +  +    ++ +I 
Sbjct: 183 QIELEEEKLGLLQQYKKKYTNKLLSQEIR 211



 Score = 50.6 bits (119), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 18/186 (9%), Positives = 49/186 (26%), Gaps = 8/186 (4%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           +W    +         +T  + +  +    ++      +Y  K       +     I   
Sbjct: 222 NWNEEKLGNLIDEVNEKTILNNQYPLLSSTKNGLLTQEEYFKKQI--GSKENKGYKILRL 279

Query: 84  GQILYGKLGPYLRKAIIADFD--GICSTQFLVLQPKDVLP----ELLQGWLLSIDVTQRI 137
            Q++      +L    +      GI S  + +            + +      I    + 
Sbjct: 280 NQLVLSPQNLWLGNINLNQRFDIGIVSPSYRIYNLNQRFNINFAKTVLKSPRYIYAYAQA 339

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
                     + +     +I + +P + EQ  I   +      I+   ++        + 
Sbjct: 340 SEQGASVVRRNLNLDLFYSIKVSLPCIEEQNKISAFLDGFENLIEKQYSKVDLLNHRKQG 399

Query: 198 KKQALV 203
             Q + 
Sbjct: 400 FLQKMF 405


>gi|300087358|ref|YP_003757880.1| restriction modification system DNA specificity domain-containing
           protein [Dehalogenimonas lykanthroporepellens BL-DC-9]
 gi|299527091|gb|ADJ25559.1| restriction modification system DNA specificity domain protein
           [Dehalogenimonas lykanthroporepellens BL-DC-9]
          Length = 411

 Score =  117 bits (293), Expect = 4e-24,   Method: Composition-based stats.
 Identities = 49/407 (12%), Positives = 114/407 (28%), Gaps = 35/407 (8%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           P   +   +    ++  G T             + +  +ED+    G+ L          
Sbjct: 18  PDGVEYFELHDLFEIKNGYTPSKNSLEYWKNGTLPWFRMEDIR-KNGRILSDSIQHITEK 76

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP--ELLQGWLLSID 132
                ++    I+          A+I            + +  + L        +     
Sbjct: 77  AVKGKLYPAYSIIMATTATIGEHALIIADSLANQQFTFLTRKVNRLDCLNPKFVYYYCFL 136

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           + +        +  +  D         P+PPL  Q  I + +   T     L  E     
Sbjct: 137 LGEWCRNNTNISGFASVDMGKFKKYKFPVPPLPIQEEIVKILDTFTTLEAELEAELEARK 196

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEW--VGLVPDHWEVKPFFALVTELNRKNTK 250
           +  +  ++ L++                 +EW  +G V                      
Sbjct: 197 KQYEYYREELLT-------------FGDDVEWKTLGEVGTLIRGNGLQKKDFVEEGVGCI 243

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
                           K       + PE     + V+ G++V        D      A +
Sbjct: 244 HYGQVYTYYGTSTNATK-----SFVSPELANILKKVNKGDLVITSTSENIDDVCKAVAWL 298

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS-LKFEDVKRLPVLV 369
            E  I+T  +  +  H  +  YL++  ++    +       G +   +   D+ ++ + +
Sbjct: 299 GEDEIVTGGHATILKHHENPKYLSYYFQTTSFSEQKRKYAKGTKVIDVSGSDLAKIKIPI 358

Query: 370 PPIKEQFDITNVINVETARIDVLV----EKIEQSIVLLKERRSSFIA 412
           PP  EQ  I ++++   A ++ +      ++       +  R   + 
Sbjct: 359 PPSAEQERIVSILDKFDALVNDISVGLPAELNARRKQYEYYREKLLT 405



 Score = 54.8 bits (130), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/169 (10%), Positives = 43/169 (25%), Gaps = 11/169 (6%)

Query: 228 VPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK--------PES 279
            PD  E      L    N                    +  + R  G           E 
Sbjct: 17  CPDGVEYFELHDLFEIKNGYTPSKNSLEYWKNGTLPWFRMEDIRKNGRILSDSIQHITEK 76

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWL-MR 338
               ++     I+        +   + +  +  +          +   ++  ++ +    
Sbjct: 77  AVKGKLYPAYSIIMATTATIGEHALIIADSLANQQFTFLTRKVNRLDCLNPKFVYYYCFL 136

Query: 339 SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
             + C+           S+     K+    VPP+  Q +I  +++  T 
Sbjct: 137 LGEWCR--NNTNISGFASVDMGKFKKYKFPVPPLPIQEEIVKILDTFTT 183


>gi|15927381|ref|NP_374914.1| specificity determinant HsdS [Staphylococcus aureus subsp. aureus
           N315]
 gi|148268279|ref|YP_001247222.1| restriction modification system DNA specificity subunit
           [Staphylococcus aureus subsp. aureus JH9]
 gi|150394344|ref|YP_001317019.1| restriction modification system DNA specificity subunit
           [Staphylococcus aureus subsp. aureus JH1]
 gi|257794184|ref|ZP_05643163.1| specificity determinant HsdS [Staphylococcus aureus A9781]
 gi|258415888|ref|ZP_05682159.1| specificity determinant HsdS [Staphylococcus aureus A9763]
 gi|258420717|ref|ZP_05683656.1| specificity determinant HsdS [Staphylococcus aureus A9719]
 gi|258438382|ref|ZP_05689666.1| specificity determinant HsdS [Staphylococcus aureus A9299]
 gi|258443826|ref|ZP_05692165.1| specificity determinant HsdS [Staphylococcus aureus A8115]
 gi|258446037|ref|ZP_05694213.1| specificity determinant HsdS [Staphylococcus aureus A6300]
 gi|258448235|ref|ZP_05696362.1| specificity determinant HsdS [Staphylococcus aureus A6224]
 gi|258454236|ref|ZP_05702207.1| specificity determinant HsdS [Staphylococcus aureus A5937]
 gi|269203440|ref|YP_003282709.1| type I restriction-modification enzyme, S subunit [Staphylococcus
           aureus subsp. aureus ED98]
 gi|282893295|ref|ZP_06301529.1| type I restriction enzyme, S subunit [Staphylococcus aureus A8117]
 gi|282928536|ref|ZP_06336135.1| type I restriction enzyme, S subunit [Staphylococcus aureus A10102]
 gi|295406112|ref|ZP_06815920.1| type I restriction enzyme [Staphylococcus aureus A8819]
 gi|297244964|ref|ZP_06928841.1| type I restriction enzyme [Staphylococcus aureus A8796]
 gi|13701600|dbj|BAB42893.1| probable specificity determinant HsdS [Staphylococcus aureus subsp.
           aureus N315]
 gi|147741348|gb|ABQ49646.1| restriction modification system DNA specificity domain
           [Staphylococcus aureus subsp. aureus JH9]
 gi|149946796|gb|ABR52732.1| restriction modification system DNA specificity domain
           [Staphylococcus aureus subsp. aureus JH1]
 gi|257788156|gb|EEV26496.1| specificity determinant HsdS [Staphylococcus aureus A9781]
 gi|257839481|gb|EEV63954.1| specificity determinant HsdS [Staphylococcus aureus A9763]
 gi|257843321|gb|EEV67731.1| specificity determinant HsdS [Staphylococcus aureus A9719]
 gi|257848426|gb|EEV72417.1| specificity determinant HsdS [Staphylococcus aureus A9299]
 gi|257851232|gb|EEV75175.1| specificity determinant HsdS [Staphylococcus aureus A8115]
 gi|257855279|gb|EEV78218.1| specificity determinant HsdS [Staphylococcus aureus A6300]
 gi|257858474|gb|EEV81350.1| specificity determinant HsdS [Staphylococcus aureus A6224]
 gi|257863688|gb|EEV86445.1| specificity determinant HsdS [Staphylococcus aureus A5937]
 gi|262075730|gb|ACY11703.1| type I restriction-modification enzyme, S subunit [Staphylococcus
           aureus subsp. aureus ED98]
 gi|282589745|gb|EFB94830.1| type I restriction enzyme, S subunit [Staphylococcus aureus A10102]
 gi|282764613|gb|EFC04739.1| type I restriction enzyme, S subunit [Staphylococcus aureus A8117]
 gi|285817486|gb|ADC37973.1| Type I restriction-modification system, specificity subunit S
           [Staphylococcus aureus 04-02981]
 gi|294969109|gb|EFG45130.1| type I restriction enzyme [Staphylococcus aureus A8819]
 gi|297178044|gb|EFH37292.1| type I restriction enzyme [Staphylococcus aureus A8796]
 gi|312830178|emb|CBX35020.1| type I restriction modification DNA specificity domain protein
           [Staphylococcus aureus subsp. aureus ECT-R 2]
 gi|315130554|gb|EFT86540.1| restriction modification system DNA specificity domain
           [Staphylococcus aureus subsp. aureus CGS03]
 gi|329727355|gb|EGG63811.1| type I restriction modification DNA specificity domain protein
           [Staphylococcus aureus subsp. aureus 21172]
          Length = 409

 Score =  117 bits (293), Expect = 4e-24,   Method: Composition-based stats.
 Identities = 66/402 (16%), Positives = 142/402 (35%), Gaps = 27/402 (6%)

Query: 24  HWKVVPIKRFT-KLNTGRTSE------SGKDIIYIGLEDVESGTGKYLP-KDGNSRQSDT 75
            W+   +   T K+ +G+T +      + K I ++  +++ +G          +    D 
Sbjct: 20  EWEEKKLGNLTTKIGSGKTPKGGSENYTNKGIPFLRSQNIRNGKLNLNDLVYISKDIDDE 79

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIA---DFDGICSTQ-FLVLQPKDVLPELLQGWLLSI 131
              S    G +L    G  + +  I    +     +    ++   K+        +LLS 
Sbjct: 80  MKNSRTYYGDVLLNITGASIGRTAINSIVETHANLNQHVCIIRLKKEYYYNFFGQYLLSR 139

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
              ++I     G +    ++K I N+ +  P + E+    +KI     ++D  I    + 
Sbjct: 140 KGKRKIFLAQSGGSREGLNFKEIANLKIFTPTIFEEQ---QKIGQFFSKLDQQIELEEQK 196

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           +ELL+++K+  +  I ++ L           +  G     W  K    ++   N++    
Sbjct: 197 LELLQQQKKCYIQKIFSQEL--------RFKDEEGNYYKGWNKKQLKDVLEFSNKRTINE 248

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
            E  +L+ S   +I + +                + P   +       +         ++
Sbjct: 249 NEYPVLTSSRQGLILQSDYYKDRKTFAESNIGYFILPKNHITYRSRSDDGIFKFNLNLMI 308

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
           + GII+  Y   K    +  YL   +      +         +  L  +D++ +   +P 
Sbjct: 309 DVGIISKYYPVFKGIDANQYYLTLHLNYQLKKEYIKYATGTSQLVLSQKDLQNIKTKLPS 368

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            +EQ  I +      + ID LVEK    +  LK R+   +  
Sbjct: 369 YEEQQKIGDF----FSEIDRLVEKQSSKVGRLKVRKKELLQK 406



 Score = 59.0 bits (141), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 25/185 (13%), Positives = 50/185 (27%), Gaps = 14/185 (7%)

Query: 215 VKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK----LET 270
            +++  G E          +             +       I  L   NI        + 
Sbjct: 10  PELRFPGFEGEWEEKKLGNLTTKIGSGKTPKGGSENYTNKGIPFLRSQNIRNGKLNLNDL 69

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
             +    +          G+++         + ++ S       +     +         
Sbjct: 70  VYISKDIDDEMKNSRTYYGDVLLNITGASIGRTAINSIVETHANLNQHVCIIRLKK---- 125

Query: 331 TYLAWLMRSYDL-----CKVFYAMGSGLRQSLKFEDVKRLPVLVPPI-KEQFDITNVINV 384
            Y       Y L      K+F A   G R+ L F+++  L +  P I +EQ  I    + 
Sbjct: 126 EYYYNFFGQYLLSRKGKRKIFLAQSGGSREGLNFKEIANLKIFTPTIFEEQQKIGQFFSK 185

Query: 385 ETARI 389
              +I
Sbjct: 186 LDQQI 190



 Score = 50.6 bits (119), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 29/184 (15%), Positives = 53/184 (28%), Gaps = 5/184 (2%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           K W    +K   + +  RT    +  +             Y  KD  +         I  
Sbjct: 227 KGWNKKQLKDVLEFSNKRTINENEYPVLTSSRQGLILQSDY-YKDRKTFAESNIGYFILP 285

Query: 83  KGQILY---GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           K  I Y      G +     +    GI S ++  +       +      L+  + +    
Sbjct: 286 KNHITYRSRSDDGIFKFNLNLMIDVGIIS-KYYPVFKGIDANQYYLTLHLNYQLKKEYIK 344

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
              G +      K + NI   +P   EQ  I +        ++   ++  R     KE  
Sbjct: 345 YATGTSQLVLSQKDLQNIKTKLPSYEEQQKIGDFFSEIDRLVEKQSSKVGRLKVRKKELL 404

Query: 200 QALV 203
           Q + 
Sbjct: 405 QKMF 408


>gi|281358279|ref|ZP_06244762.1| restriction modification system DNA specificity domain protein
           [Victivallis vadensis ATCC BAA-548]
 gi|281315369|gb|EFA99399.1| restriction modification system DNA specificity domain protein
           [Victivallis vadensis ATCC BAA-548]
          Length = 414

 Score =  117 bits (292), Expect = 4e-24,   Method: Composition-based stats.
 Identities = 55/417 (13%), Positives = 120/417 (28%), Gaps = 30/417 (7%)

Query: 26  KVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKY--LPKDGNSRQSDTST 77
           K   +     +  G T ++      G DI ++ + D  +         K       + S+
Sbjct: 2   KEYKLSELADIIGGGTPKTSRSDYWGGDIPWLSVVDFNNDFRHVFTTEKTITEAGLNNSS 61

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
             I   G+I+    G     A +A      +     L+ K  +      + L     + I
Sbjct: 62  TRILYPGEIIISARGTVGALAQVAKEMA-FNQSCYGLRAKFGITCNDYLFYLLRHSIETI 120

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           +    G+           +I + +P L  Q  I   +       D  I    +    L+E
Sbjct: 121 KKNTHGSVFDTITRDTFESISVILPDLKTQQKIASIL----ASFDDKIELNTQINHNLEE 176

Query: 198 KKQALV-SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
           + +A+  S+ V      D    +             ++     ++    R     ++S I
Sbjct: 177 QAKAIFKSWFVDFEPFADDVFTNEDPVEHPASLSMVQIANIEHILETGKRPKGGAVKSGI 236

Query: 257 LSLSYGNI-----IQKLETRNMGLKPESYETYQIVDPGEIVFRFID-----LQNDKRSLR 306
            S+   N+           + +  +         ++  E++                   
Sbjct: 237 PSIGAENVKKLGVFDYSSGKFIPREFADSMKRGKINGYELLIYKDGGKPGTFIPHFSMFG 296

Query: 307 SAQVMERGIITSAYMA--VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKR 364
                E   I            G ++    +    Y    +    G      +  ED++ 
Sbjct: 297 EGYPYEECYINEHVFKLDFGNKGFNAFAYFYFQTDYPYSWLANNGGKAAIPGINQEDIRS 356

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           + +  P    Q       +   + I   + K       L + R + +   ++G+ID+
Sbjct: 357 IFIFDP----QHPKVKEFSAYVSPIFTTIMKNCLENKKLAQLRDALLPKLMSGEIDV 409


>gi|261838806|gb|ACX98572.1| type I R-M system specificity subunit [Helicobacter pylori 51]
          Length = 388

 Score =  117 bits (292), Expect = 4e-24,   Method: Composition-based stats.
 Identities = 48/403 (11%), Positives = 124/403 (30%), Gaps = 29/403 (7%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           +P +W+ V +    ++  G+                 + T KY   +G       +    
Sbjct: 10  LPLNWQRVRLGDICEIVKGQQINKIS----------LNNTDKYPVINGGIDFLGYTNKFN 59

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
            +K  I   + G       +          + + +  + +  L   + +     + I  +
Sbjct: 60  VSKNTITISEGGTCGYVRFMTSNFWSGGHNYSLQKISNKVNNLCL-YHILKSYEKDIMKL 118

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
             G+ + +   K + +  +P+PPL EQ+ I   +      +D  +      I   +  K+
Sbjct: 119 GVGSGLKNIQLKPLKDFEIPLPPLNEQIAIANIL----SALDRYLCALGALILKKEGVKK 174

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
           AL   ++++        +      +G      +  P      +    N       +    
Sbjct: 175 ALSFELLSQRKRLRGFNQAWQRVKLGTYKYRRDSFPQPYGNPQWYSDNGM---PFVQVYD 231

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
            G   +  +     +   +      V    ++             R A            
Sbjct: 232 VGENFKLTQKTKQKISKIAQPMSVFVPKNSVIITLQGTIG-----RVALTQYDCYCDRTI 286

Query: 321 MAVKPHGIDSTYLAWLMRSY--DLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
           +    + ++     + + S      +        + +++  + +K   +L+PP+ EQ  I
Sbjct: 287 LIFDNNTLNDVNKYFFVLSLFTKFEEEKRKADGSIIKTITKQTLKDFEILLPPLNEQIAI 346

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            N+++     I  L  K  Q     +  + +     ++ +I +
Sbjct: 347 ANILSDLDNEIISLKNKKRQ----FENIKKALNHDLMSAKIRV 385


>gi|285959362|gb|ADC39984.1| type I restriction-modification system large specifity subunit
           [Staphylococcus aureus]
          Length = 415

 Score =  117 bits (292), Expect = 4e-24,   Method: Composition-based stats.
 Identities = 61/402 (15%), Positives = 132/402 (32%), Gaps = 19/402 (4%)

Query: 24  HWKVVPIKRFTKLNTGRT-----SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
            W +  I        G++           I  I   ++ +     + +  +        +
Sbjct: 18  EWSLSTIGALGDFYYGKSAPKWSITKDVGIPCIRYGELYTKFNNVVNEIYSYTSMPKEKL 77

Query: 79  SIFAKGQILYGKLGP----YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
                G+IL  ++G     + +   +   D        V   K+    L   +  +  + 
Sbjct: 78  RFSKGGEILIPRVGEDPLDFAKCVYLPQKDIAIGEMISVYNTKE--NPLFLTYYFNTKMK 135

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
                  EGA++S+  +  + +I + IP + EQ  +         +I+    +     + 
Sbjct: 136 YEFAKRVEGASVSNLYYSYLEDIKLKIPDIREQQKLGVFFSKLDRQIELEEEKLELLEQQ 195

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDS--GIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
            +   Q + +  +    +    +K S   +E +            +    +++ KN  + 
Sbjct: 196 KRGYMQKIFTQELKFKNSQLENIKWSYKTLEELNSFFTDGNYGESYPKSEDMSDKNDGVA 255

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
                +L  G I  +        K     T  +    +IV            +    V  
Sbjct: 256 FLRGSNLKKGRITLEDANYISKKKHSELTTGHLFL-DDIVIAVRGSLGAVGYVNENMVGN 314

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPP 371
                 A +      +   YL + + S    K   +  +G   + L  + +K++ V VP 
Sbjct: 315 NINSQLAIIRTSSSLLYGKYLLYYLMSNQGKKELLSRVTGTALKQLPIKQIKQIKVPVPK 374

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           + EQ  I N +    + +D L++   + I LLKER+  F+  
Sbjct: 375 LYEQHKIANFL----SELDNLIDNQTEKIELLKERKKGFLQK 412


>gi|94989255|ref|YP_597356.1| type I restriction-modification system specificity subunit
           [Streptococcus pyogenes MGAS9429]
 gi|94542763|gb|ABF32812.1| type I restriction-modification system specificity subunit
           [Streptococcus pyogenes MGAS9429]
          Length = 399

 Score =  117 bits (292), Expect = 4e-24,   Method: Composition-based stats.
 Identities = 58/396 (14%), Positives = 124/396 (31%), Gaps = 18/396 (4%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W+   +    ++  G++  S           +  G           R   T       K
Sbjct: 17  EWEEKELGDIVQITMGQSPSSQNYTTNPSDYILVQGNADIKNGYIFPRVWTTQITKQADK 76

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
           G I+     P        ++  I       ++  + +       L  +      + I  G
Sbjct: 77  GDIILSVRAPV-GDVGKTNYHVIIGRGVAAIKGNEFI----FQILKYLKEIGYWKRISTG 131

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           +T        I    + IP L EQ  I E        +D LI  + + +  LKE+KQ  +
Sbjct: 132 STFDSISSSDIKYAKIQIPSLPEQEAIGE----LFQTVDQLIQLQDQKLATLKEQKQTFL 187

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
             +    +    +++  G +         EV    +        +++  E  ++S+    
Sbjct: 188 RKMFPPQIQKVPEIRLQGFKGEWEEKKLGEVSTHRSGTAIEKYFDSEG-EFKVISIGSYG 246

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR----SAQVMERGIITSA 319
                  +N+          ++V  GE+     D   +   +       +  +  +    
Sbjct: 247 TNNLYVDQNIRAVSNELTNSKLVASGELTMVLNDKTANGAIIGRCLLITENNKYVVNQRT 306

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
            +      I S YL   +       +      G +  + +  V++L + +P +KEQ  I 
Sbjct: 307 EIIRPDINISSYYLFHYLNGEFRNGIIKIAQGGTQIYVNYSSVEQLKINIPTLKEQEAIG 366

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           N        +D  + + E+ +  LK  + + +    
Sbjct: 367 NF----FQTLDQQIAQSEEKLTELKALKQTLLNRLF 398


>gi|284037969|ref|YP_003387899.1| restriction modification system DNA specificity domain protein
           [Spirosoma linguale DSM 74]
 gi|283817262|gb|ADB39100.1| restriction modification system DNA specificity domain protein
           [Spirosoma linguale DSM 74]
          Length = 520

 Score =  117 bits (292), Expect = 4e-24,   Method: Composition-based stats.
 Identities = 56/490 (11%), Positives = 129/490 (26%), Gaps = 103/490 (21%)

Query: 27  VVPIKRFTKLNTGRTSESGKD------IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           V  I    + ++G T   G        I ++   ++  G      +    +    S+  +
Sbjct: 30  VKRIGSIAETSSGGTPTRGNPEFYNGTIPWLKSGELNDGLITECEEYITEKGLKNSSAKL 89

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
           F +G +L    G    K  I  FD   +     + PK  + E    +            I
Sbjct: 90  FPEGTLLVAMYGATAGKVGILSFDASTNQAVCAVFPKADI-ERDFLFWYFRQQRFDFIEI 148

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIA------------ETVRIDTLITER 188
            +G    +     I N  +PIP +A Q  + + +                  +   I   
Sbjct: 149 SKGGAQPNISQTVINNAVIPIPEVAVQKQVVKFLNILETEQRIDNNLVLNEEVAQQIARY 208

Query: 189 IRFI--------------ELLKEKKQALVSYIVTKGLNPDVK-----MKDSGIEWVGLVP 229
            +                +LL + +Q+++   V   L    +      +   +  +G  P
Sbjct: 209 FKIRTEAAEVEDIYIEQKKLLTQLRQSILQEAVQGKLTKKFRETEKLAQQDHVRVLGSNP 268

Query: 230 DHWEVKP-----------------------------------------FFALVTELNRKN 248
                                                                      +
Sbjct: 269 SRTATPQLETGADLLARIRAEKAELIRQGKLRKEKPLPPITDAEKPFELPEGWVWCRLGD 328

Query: 249 TKLIESNILSLSYGNIIQKLE-----------------TRNMGLKPESYETYQIVDPGEI 291
                      S G+ I+                       M     S      V  G++
Sbjct: 329 VCESSFYGPRFSNGDYIKNGIPTIRTTDMTDDGRIVLKNTPMVKVSSSKLELYQVLDGDL 388

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP-HGIDSTYLAWLMRSYDLCKVF-YAM 349
           +            +   +     I ++  +  +    I   Y+  ++++    ++   + 
Sbjct: 389 LITRSGSIG---IMAVFRGSYTAIPSAYLIRFRFVSSIFPEYVFSVLKAPFWQRLMGLST 445

Query: 350 GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL-VEKIEQSIVLLKERRS 408
            S  + ++    +    + +P   EQ  I   +     ++  L +E  +Q + + +    
Sbjct: 446 TSTAQVNINASSINSFLIPLPSFTEQQAIVAQVKQLLNQVSALEIENKQQQVEVSQ-LMQ 504

Query: 409 SFIAAAVTGQ 418
             ++ A  G+
Sbjct: 505 VVLSEAFAGK 514



 Score = 73.7 bits (179), Expect = 5e-11,   Method: Composition-based stats.
 Identities = 27/196 (13%), Positives = 60/196 (30%), Gaps = 8/196 (4%)

Query: 20  AIPKHWKVVPIKRFTK-LNTGRTSESGK----DIIYIGLEDV-ESGTGKYLPKDGNSRQS 73
            +P+ W    +    +    G    +G      I  I   D+ + G             S
Sbjct: 316 ELPEGWVWCRLGDVCESSFYGPRFSNGDYIKNGIPTIRTTDMTDDGRIVLKNTPMVKVSS 375

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLV--LQPKDVLPELLQGWLLSI 131
               +     G +L  + G     A+         + +L+       + PE +   L + 
Sbjct: 376 SKLELYQVLDGDLLITRSGSIGIMAVFRGSYTAIPSAYLIRFRFVSSIFPEYVFSVLKAP 435

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
              + +          + +   I +  +P+P   EQ  I  ++     ++  L  E  + 
Sbjct: 436 FWQRLMGLSTTSTAQVNINASSINSFLIPLPSFTEQQAIVAQVKQLLNQVSALEIENKQQ 495

Query: 192 IELLKEKKQALVSYIV 207
              + +  Q ++S   
Sbjct: 496 QVEVSQLMQVVLSEAF 511


>gi|227878603|ref|ZP_03996526.1| restriction endonuclease S subunit [Lactobacillus crispatus JV-V01]
 gi|256850433|ref|ZP_05555861.1| restriction modification system DNA specificity subunit
           [Lactobacillus crispatus MV-1A-US]
 gi|262046416|ref|ZP_06019378.1| type I site-specific deoxyribonuclease chain S [Lactobacillus
           crispatus MV-3A-US]
 gi|227861809|gb|EEJ69405.1| restriction endonuclease S subunit [Lactobacillus crispatus JV-V01]
 gi|256712830|gb|EEU27823.1| restriction modification system DNA specificity subunit
           [Lactobacillus crispatus MV-1A-US]
 gi|260573287|gb|EEX29845.1| type I site-specific deoxyribonuclease chain S [Lactobacillus
           crispatus MV-3A-US]
          Length = 480

 Score =  117 bits (292), Expect = 4e-24,   Method: Composition-based stats.
 Identities = 63/416 (15%), Positives = 135/416 (32%), Gaps = 59/416 (14%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD-----IIYIGLEDVESGTGKYLPKDGNSRQSD 74
            IP  W+ V +     L  G+T +           Y  ++D+ +    Y+    N     
Sbjct: 73  DIPDSWEWVRLGDVGLLKNGKTPKKEDTSSDNIYPYFKVKDMNNNNL-YMENVKNWVGEK 131

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPK---DVLPELLQGWLLSI 131
            S   +  K  I++    P    AI+     I S   LV           +L   ++  +
Sbjct: 132 YS-RQVMPKNTIIF----PKNGGAILTAKKRILSQDSLVDLNTGGLIPYNDLNHKFIFYL 186

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            ++  I+   +G+ +   + K +    +P+PPL EQ  I  KI      +  + +   ++
Sbjct: 187 FLSLDIKDFVKGSAVPTINSKKLKETLVPLPPLEEQSRIAAKIAQLFALLRKVESSTQQY 246

Query: 192 IELLKEKKQALVSYIVTKGL---NPDVK----------------------------MKDS 220
            +L    K  ++   +   L   +P  +                               +
Sbjct: 247 AKLQTLLKSKVLDLAMRGKLVEQDPHDEPASVLLEKIKAEKRKMIKEKEIKKSKPLPPIT 306

Query: 221 GIEWVGLVPDHWEVKPFFA------LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMG 274
             E    +PD WE              T     N+   +  I +++           N  
Sbjct: 307 DEEKPFDIPDSWEWVRLGNIAKRITDGTHNPPPNSHEGKQVISAINIKKGKIDFSLSNRF 366

Query: 275 LKPE---SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST 331
           +  +     +    +  G+++   +    +   +      ++       +AV    I S 
Sbjct: 367 VSEDQFLKEDKRTNIRKGDVLLTIVGSLGNAAVV----DTDKLFTAQRSVAVISSNILSK 422

Query: 332 YLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
           +L +++ S       +A   G  ++ +    +  L + +PP+ EQ  I + I+   
Sbjct: 423 FLYYVLISAMFKTQIFANAKGTTQKGIYLSKLINLKLPLPPLAEQNRIVDKIDNLF 478



 Score = 77.1 bits (188), Expect = 5e-12,   Method: Composition-based stats.
 Identities = 30/204 (14%), Positives = 72/204 (35%), Gaps = 9/204 (4%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
           +  E    +PD WE      +    N K  K  +++  ++     ++ +   N+ ++   
Sbjct: 66  TDDEKPFDIPDSWEWVRLGDVGLLKNGKTPKKEDTSSDNIYPYFKVKDMNNNNLYMENVK 125

Query: 280 YE-----TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
                  + Q++    I+F            R         + +  +    + ++  ++ 
Sbjct: 126 NWVGEKYSRQVMPKNTIIFPKNGGAILTAKKRILSQDSLVDLNTGGLIPY-NDLNHKFIF 184

Query: 335 WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
           +L  S D+             ++  + +K   V +PP++EQ  I   I    A +  +  
Sbjct: 185 YLFLSLDIKDFVK---GSAVPTINSKKLKETLVPLPPLEEQSRIAAKIAQLFALLRKVES 241

Query: 395 KIEQSIVLLKERRSSFIAAAVTGQ 418
             +Q   L    +S  +  A+ G+
Sbjct: 242 STQQYAKLQTLLKSKVLDLAMRGK 265


>gi|146302129|ref|YP_001196720.1| restriction modification system DNA specificity subunit
           [Flavobacterium johnsoniae UW101]
 gi|146156547|gb|ABQ07401.1| restriction modification system DNA specificity domain protein
           [Flavobacterium johnsoniae UW101]
          Length = 414

 Score =  117 bits (292), Expect = 4e-24,   Method: Composition-based stats.
 Identities = 44/404 (10%), Positives = 114/404 (28%), Gaps = 27/404 (6%)

Query: 26  KVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           +   +     +  G T               +  +ED+    G+ L              
Sbjct: 14  EWKTVDDIFYIKNGYTPSKSSQEYWTNGTNPWFRMEDIR-KNGRVLSDSIQHVSDSAVKG 72

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV---TQ 135
            +  +  +L          A++                   + ++   +L          
Sbjct: 73  QLIPENSLLMSTTATIGEHALVLVPYLTNQQITNFSLKTSFIDKVSIKYLFYCFFDFGKW 132

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            IE   +   +S      +    + IP L  Q  I   + + T     L  E    +   
Sbjct: 133 CIENANKNGGLSIIGTNKLKEYTIAIPSLEIQQKIVAILDSFTELTAELTAELTAELTAR 192

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVG--LVPDHWEVKPFFALVTELNRKNTKLIE 253
           K +       + T   N    +     E +G       +      +    +         
Sbjct: 193 KMQYSYYREKLYTFDKNKVQHLPM-DDESIGVFQRGKRFVKTDLISEGVPVIHYGEMYTH 251

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
               +    + + +   +N  L+        + + G++V        +   + +A + + 
Sbjct: 252 YGTWADKTKSFLSEELVKNKNLR--------VANKGDVVIVAAGETIEDIGMGTAWLGDE 303

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM-GSGLRQSLKFEDVKRLPVLVPPI 372
           G++           ++  ++A+  R+            SG   ++    + +  + VP  
Sbjct: 304 GVVVHDACFSYKTTLNPKFVAYFTRTKQFHDQIKKHISSGKISAINANGLGKAIIPVPSK 363

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           +EQ  + ++++      + + E + + I L K+     R   + 
Sbjct: 364 EEQERVVSILDKFDVLTNSISEGLPKEIELRKKQYEYYRDLLLT 407



 Score = 62.5 bits (150), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 17/184 (9%), Positives = 57/184 (30%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
           G+E      D           ++ +++      +    +       ++ + ++    +S 
Sbjct: 10  GVEVEWKTVDDIFYIKNGYTPSKSSQEYWTNGTNPWFRMEDIRKNGRVLSDSIQHVSDSA 69

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY 340
              Q++    ++        +   +    +  + I   +        +   YL +    +
Sbjct: 70  VKGQLIPENSLLMSTTATIGEHALVLVPYLTNQQITNFSLKTSFIDKVSIKYLFYCFFDF 129

Query: 341 DLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
               +  A  +G    +    +K   + +P ++ Q  I  +++  T     L  ++   +
Sbjct: 130 GKWCIENANKNGGLSIIGTNKLKEYTIAIPSLEIQQKIVAILDSFTELTAELTAELTAEL 189

Query: 401 VLLK 404
              K
Sbjct: 190 TARK 193


>gi|303241303|ref|ZP_07327808.1| restriction modification system DNA specificity domain protein
           [Acetivibrio cellulolyticus CD2]
 gi|302591142|gb|EFL60885.1| restriction modification system DNA specificity domain protein
           [Acetivibrio cellulolyticus CD2]
          Length = 421

 Score =  117 bits (292), Expect = 4e-24,   Method: Composition-based stats.
 Identities = 62/433 (14%), Positives = 135/433 (31%), Gaps = 40/433 (9%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYL- 64
           YK + V   G IP+ W+VV      +   G   +SG      +  I + D    + K   
Sbjct: 7   YKMTEV---GVIPEDWEVVDFGDIVEYTKGFAFKSGDYCQDGVRIIRVSDTTYDSIKDDN 63

Query: 65  PKDGNSRQSDTSTVSIFAKGQILYGKLGP--------YLRKAIIADFDG--ICSTQFLVL 114
           P   +++        I  +  +++  +G           +  +I       + +   +++
Sbjct: 64  PIYIDTKNCTKYRKWILIEHDLIFSTVGSKPPMYDSLVGKVIMITKRYAGSLLNQNAVLI 123

Query: 115 QPKDVLPELLQ----GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLA-EQVL 169
           + K+    + +     +  +  +          A  +    K +   P+P+P    EQ  
Sbjct: 124 RSKEKNVFIQKLLLNHFRTNRYIRYIETIFRGNANQASITLKELFKFPIPLPINYSEQKA 183

Query: 170 IREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVP 229
           I   +      I +L     +   + +   Q L++             K    E VGL+P
Sbjct: 184 IATALSDTDELIQSLEKLIAKKRAIKQGVMQKLLTGKKRLQKFNQETEKYKNTE-VGLIP 242

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG 289
           + W +     +                 S +  + I   E                   G
Sbjct: 243 EDWNIVKIKNIALISTG-----------SRNTQDKIDSGEYPFFVRSQTVERINSYSYDG 291

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
           E V    D     +                 ++     ID  +     ++    ++    
Sbjct: 292 EAVLTAGDGVGTGKVFHYISGKFDFHQRVYKISDFKDNIDGYFFFLYFKNSFYNRIMQMT 351

Query: 350 GSGLRQSLKFEDVKRLPVLVPP-IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
                 S++ E +  + + +PP   EQ  I ++++   A     +  +E  +   K+ + 
Sbjct: 352 AKSSVDSVRMEMIAEMQIPIPPTQNEQKAIASILSDMDAE----ITALETKLEKYKKIKQ 407

Query: 409 SFIAAAVTGQIDL 421
             +   +TG+I L
Sbjct: 408 GMMQNLLTGKIRL 420



 Score = 55.2 bits (131), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 33/204 (16%), Positives = 69/204 (33%), Gaps = 16/204 (7%)

Query: 8   PQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKD 67
            +YK++ V   G IP+ W +V IK    ++TG  +   K         ++SG   +  + 
Sbjct: 231 EKYKNTEV---GLIPEDWNIVKIKNIALISTGSRNTQDK---------IDSGEYPFFVRS 278

Query: 68  GNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW 127
               + ++ +      G+ +           +     G       V +  D    +   +
Sbjct: 279 QTVERINSYSY----DGEAVLTAGDGVGTGKVFHYISGKFDFHQRVYKISDFKDNIDGYF 334

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
                       I +    S  D   +  I     P+      ++ I +    +D  IT 
Sbjct: 335 FFLYFKNSFYNRIMQMTAKSSVDSVRMEMIAEMQIPIPPTQNEQKAIASILSDMDAEITA 394

Query: 188 RIRFIELLKEKKQALVSYIVTKGL 211
               +E  K+ KQ ++  ++T  +
Sbjct: 395 LETKLEKYKKIKQGMMQNLLTGKI 418


>gi|269978366|gb|ACZ55917.1| putative type I restriction-modification system specificity subunit
           S [Helicobacter pylori]
          Length = 459

 Score =  117 bits (292), Expect = 4e-24,   Method: Composition-based stats.
 Identities = 54/435 (12%), Positives = 134/435 (30%), Gaps = 45/435 (10%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPKDGNSRQSD 74
           PK  +   ++   ++  G T             I +  +ED+            +     
Sbjct: 13  PKGVEFKTLEEVFEIKNGYTPSKNNPEFWKNGTIPWFRMEDIRENGRILKDSIQHITPKA 72

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP---ELLQGWLLSI 131
                +F K  I+          A++   D + + +F  L  K       ++   +    
Sbjct: 73  LKGKKLFPKNSIIISTTATIGEHALLI-VDSLANQRFTFLSKKANCDLALDMKFFFYQCF 131

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            + +  +     +  +  D         PIPPL  Q  I + + A T     L TE    
Sbjct: 132 LLGEWCKNNTNVSGFASVDMPAFKKYKFPIPPLEIQQEIVKILDAFTELNTELNTELNTE 191

Query: 192 IELLKEKKQALVSYIVTKGLNPD--VKMKDSGIEWVGLVPDHWEVKPFFAL--------- 240
           +      ++    Y     L+ +   +      E +   P    +K              
Sbjct: 192 LNTELNARKKQYQYYQNMLLDFNGINQNHKDAKERLAQKPYPKRLKTLLQTLAPKGVEFR 251

Query: 241 ------------VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDP 288
                       V +  +  ++  +  +  ++  N  Q        ++    E    +  
Sbjct: 252 KLGDIGEFYGGLVGKSKKSFSQGNKFYVPYINVFNNPQLDLNALESVQIGDKEKQNTIQL 311

Query: 289 GEIVFRFID------LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
           G+++F            +   + +  + +        +     +  + ++L   +R Y+ 
Sbjct: 312 GDVLFTGSSENLEDCAMSCVVTQKIEKDIYLNSFCFGFRFFDKNLFNPSFLKHFLRDYNF 371

Query: 343 CKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
            K    + +G  R ++  + + ++ + +PP++ Q +I  +++  +     L+  I   I 
Sbjct: 372 RKNISKVANGVTRFNVSKQLLSQITIPIPPLEIQQEIVKILDQFSILTTDLLAGIPAEIK 431

Query: 402 LLKE----RRSSFIA 412
             K+     R   + 
Sbjct: 432 ARKKQYEYYREKLLT 446


>gi|315036576|gb|EFT48508.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX0027]
          Length = 398

 Score =  117 bits (292), Expect = 4e-24,   Method: Composition-based stats.
 Identities = 64/401 (15%), Positives = 143/401 (35%), Gaps = 29/401 (7%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W++  + R  +  T +  E    +  + +   E    + +  + +    D S   +   G
Sbjct: 10  WELCKLGRVVERVTRKNKELKSTLP-LTISAQEGLIDQNVFFNKSVASRDVSGYYLIYNG 68

Query: 85  QILYGKLGPYLRKAIIAD-----FDGICSTQFLVLQPKDVLPELLQGWLLS-IDVTQRIE 138
           +  Y K                   G+ ST +++ +PK++    L+ +  +     +  +
Sbjct: 69  EFAYNKSYSNGYPWGAIKRLNRYDMGVLSTLYIIFKPKNIDSNFLEKYYDTSCWYHEVSK 128

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
              EGA           +       + + V  + KI     ++D  IT   R +E LKE 
Sbjct: 129 HAAEGARNHGLLNIAASDFLRTELTVPKSVEEQRKIGNFLKQLDDTITLHQRKLEQLKEL 188

Query: 199 KQALVSYIVT--KGLNPDVKMKDSGIEW----VGLVPDHWEVKPFFALVTELNRKNTKLI 252
           K+A +  +        P V+      EW    +G + + +                ++  
Sbjct: 189 KKAYLQVMFPAKDERVPKVRFAAFEGEWAHRKLGEITESFS-------GGTPTAGKSEYY 241

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
             +I  +  G I        +     +  + ++V  G+I++      + +  +       
Sbjct: 242 GGDIPFIRSGEISSDSTELFITENGLNSSSAKMVKVGDILYALYGATSGEVGISKI---- 297

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-P 371
            G I  A +A++P   D++YL           +      G + +L    VK L +++P  
Sbjct: 298 TGAINQAILAIRPSKNDNSYLIIQWLRKQKNTIISTYLQGGQGNLSSSIVKNLIIMLPQN 357

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
            +EQ  +         R+D ++   +  +  LK+ ++S++ 
Sbjct: 358 KEEQEKVGIF----FKRLDDIITLHQNKLEQLKDLKTSYLQ 394



 Score = 66.7 bits (161), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 31/186 (16%), Positives = 57/186 (30%), Gaps = 9/186 (4%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
            W    +   T+  +G T  +GK      DI +I   ++ S + +           ++S+
Sbjct: 215 EWAHRKLGEITESFSGGTPTAGKSEYYGGDIPFIRSGEISSDSTELF---ITENGLNSSS 271

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
             +   G ILY   G    +  I+   G  +   L ++P       L    L       I
Sbjct: 272 AKMVKVGDILYALYGATSGEVGISKITGAINQAILAIRPSKNDNSYLIIQWLRKQKNTII 331

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
               +G   + +       I M      EQ  +          I     +  +  +L   
Sbjct: 332 STYLQGGQGNLSSSIVKNLIIMLPQNKEEQEKVGIFFKRLDDIITLHQNKLEQLKDLKTS 391

Query: 198 KKQALV 203
             Q + 
Sbjct: 392 YLQNMF 397


>gi|146329709|ref|YP_001209147.1| type I restriction modification DNA specificity domain-containing
           protein [Dichelobacter nodosus VCS1703A]
 gi|146233179|gb|ABQ14157.1| type I restriction modification DNA specificity domain protein
           [Dichelobacter nodosus VCS1703A]
          Length = 412

 Score =  117 bits (292), Expect = 4e-24,   Method: Composition-based stats.
 Identities = 61/425 (14%), Positives = 139/425 (32%), Gaps = 29/425 (6%)

Query: 8   PQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGR---TSESGKDIIYIGLEDVESGTGKYL 64
           P YK + V   G IP+ W ++ +     ++      +++      YI LE V+ G     
Sbjct: 5   PGYKMTEV---GVIPEDWDLLLVSELANVDPENLSASTDPNFSFNYISLEQVDFGKL-IG 60

Query: 65  PKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDG---ICSTQFLV--LQPKDV 119
                 R + +    +     IL   + P L+  +         ICST F V   +P   
Sbjct: 61  TFREVFRTAPSRARRVVRHDDILMSTVRPNLKAHLHFRSQVSDTICSTGFAVLRAKPDAT 120

Query: 120 LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPP-LAEQVLIREKIIAET 178
            P  +   L +  + ++IE    G+     + + +  + +P+PP + EQ  I + +    
Sbjct: 121 DPAYIFAHLFASPLNKQIEKTLAGSNYPAINSRDVRELKIPVPPTIEEQRAIAQALSDVD 180

Query: 179 VRIDTLITERIRFIELLKEKKQALVS-YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPF 237
             +  L     +  +L +   Q L++      G + + ++K   +E +  +         
Sbjct: 181 ALLAALDKIIAKKRDLKQATMQQLLTGETRLPGFSGEWEVKR--LEELAEIRSGGTPSTG 238

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID 297
                +    +        ++   G+   +  +R +     +  + +++    +V     
Sbjct: 239 EPSFWD---GDIPWCTPTDITALNGHKYLRETSRLITPLGLNASSAEMIPAQSVVMTSRA 295

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSL 357
              +                  +    P         + +       +    G      +
Sbjct: 296 TIGECAINAVPLS-----TNQGFKNFIPFVKTDVDFLYYLLGTQKQGLIALCGGSTFLEI 350

Query: 358 KFEDVKRLPVLVPP-IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
               +    V +P    EQ  I  V++   + + VL    E      +  + + +   +T
Sbjct: 351 GKTQLAAYEVRLPSTKAEQTAIATVLSEMDSELSVL----ESRRDKTRNIKQAMMQELLT 406

Query: 417 GQIDL 421
           G+  L
Sbjct: 407 GKTRL 411



 Score = 82.9 bits (203), Expect = 8e-14,   Method: Composition-based stats.
 Identities = 35/181 (19%), Positives = 69/181 (38%), Gaps = 7/181 (3%)

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
                  N +SL   +  + + T     +       ++V   +I+   +           
Sbjct: 39  TDPNFSFNYISLEQVDFGKLIGTFREVFRTAPSRARRVVRHDDILMSTVRPNLKAHLHFR 98

Query: 308 AQVMERGIITS-AYMAVKPHGIDSTY-LAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRL 365
           +QV +    T  A +  KP   D  Y  A L  S    ++   +      ++   DV+ L
Sbjct: 99  SQVSDTICSTGFAVLRAKPDATDPAYIFAHLFASPLNKQIEKTLAGSNYPAINSRDVREL 158

Query: 366 PVLVPP-IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGE 424
            + VPP I+EQ  I   ++      D L+  +++ I   ++ + + +   +TG+  L G 
Sbjct: 159 KIPVPPTIEEQRAIAQALSDV----DALLAALDKIIAKKRDLKQATMQQLLTGETRLPGF 214

Query: 425 S 425
           S
Sbjct: 215 S 215


>gi|224419063|ref|ZP_03657069.1| hypothetical protein HcanM9_07270 [Helicobacter canadensis MIT
           98-5491]
 gi|313142571|ref|ZP_07804764.1| HsdS [Helicobacter canadensis MIT 98-5491]
 gi|313131602|gb|EFR49219.1| HsdS [Helicobacter canadensis MIT 98-5491]
          Length = 303

 Score =  117 bits (292), Expect = 5e-24,   Method: Composition-based stats.
 Identities = 45/296 (15%), Positives = 91/296 (30%), Gaps = 17/296 (5%)

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
                 G+ + H  ++      +P+PPL EQ+ I + + +   +ID  +      +  L 
Sbjct: 10  FSKYILGSAIPHIYFRDYKKEQIPLPPLEEQMRIVKILDSAFEKIDKSVELLKANLANLD 69

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLV------PDHWEVKPFFALVTELNRKNTK 250
           E  Q+++        +     + +              P HWE K    +   +      
Sbjct: 70  ELAQSVLDRAFNPLGDSIDSTESTQNPSTHDTQSPYPLPQHWEWKTLGEIGEIITGSTPS 129

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPES------YETYQIVDPGEIVFRFIDLQNDKRS 304
                     Y             +K         +E  + +    ++   I     K  
Sbjct: 130 KNNPKFYGNDYPLFKPSDLGSGNTIKASDNLSKLGFENARKLPKNTLLVVCIGASIGKIG 189

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVK 363
           L          I +         + S YL ++  S     +     S      +   +  
Sbjct: 190 LSGIIGSCNQQINAII---PSPNVLSKYLFFVCHSKYFQSILKKNASQTTLPIINKTEFS 246

Query: 364 RLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           +L + +P  IKEQ  I   ++    +I  L E     +   +E + S +  A +G+
Sbjct: 247 KLEIPLPKDIKEQEQIAMHLDSVFDKIQKLKELYNAQLQDYEELKQSLLNQAFSGK 302



 Score = 87.5 bits (215), Expect = 3e-15,   Method: Composition-based stats.
 Identities = 35/199 (17%), Positives = 71/199 (35%), Gaps = 10/199 (5%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESG------KDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           +P+HW+   +    ++ TG T           D       D+  G+G  +    N  +  
Sbjct: 107 LPQHWEWKTLGEIGEIITGSTPSKNNPKFYGNDYPLFKPSDL--GSGNTIKASDNLSKLG 164

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV-LPELLQGWLLSIDV 133
                   K  +L   +G  + K  ++   G C+ Q   + P    L + L     S   
Sbjct: 165 FENARKLPKNTLLVVCIGASIGKIGLSGIIGSCNQQINAIIPSPNVLSKYLFFVCHSKYF 224

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRIDTLITERIRFI 192
              ++      T+   +      + +P+P  + EQ  I   + +   +I  L       +
Sbjct: 225 QSILKKNASQTTLPIINKTEFSKLEIPLPKDIKEQEQIAMHLDSVFDKIQKLKELYNAQL 284

Query: 193 ELLKEKKQALVSYIVTKGL 211
           +  +E KQ+L++   +  L
Sbjct: 285 QDYEELKQSLLNQAFSGKL 303



 Score = 74.8 bits (182), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 18/83 (21%), Positives = 38/83 (45%), Gaps = 3/83 (3%)

Query: 333 LAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
           + + +++ D  K            + F D K+  + +PP++EQ  I  +++    +ID  
Sbjct: 1   MFYFLKNLDFSKYIL---GSAIPHIYFRDYKKEQIPLPPLEEQMRIVKILDSAFEKIDKS 57

Query: 393 VEKIEQSIVLLKERRSSFIAAAV 415
           VE ++ ++  L E   S +  A 
Sbjct: 58  VELLKANLANLDELAQSVLDRAF 80


>gi|188527366|ref|YP_001910053.1| anti-codon nuclease masking agent (prrB) [Helicobacter pylori
           Shi470]
 gi|188143606|gb|ACD48023.1| anti-codon nuclease masking agent (prrB) [Helicobacter pylori
           Shi470]
          Length = 424

 Score =  117 bits (292), Expect = 5e-24,   Method: Composition-based stats.
 Identities = 54/404 (13%), Positives = 130/404 (32%), Gaps = 27/404 (6%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPKDGNSRQS 73
           +PK  +   ++   ++  G T             I +  +ED+            +    
Sbjct: 12  VPKGVEFKTLEEVFEIKNGYTPSKNNPEFWEKGTIPWFRMEDIRENGRILKDSIQHITPK 71

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP---ELLQGWLLS 130
                 +F K  I+          A++   D + + QF  L  K       ++   +   
Sbjct: 72  ALKGKKLFPKNSIIISTTATIGEHALLI-VDSLANQQFTFLSKKANCDIALDMKFFFYQC 130

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
             + +  +     +  +  D         PIPPL  Q  I + + A T     L TE   
Sbjct: 131 FLLGEWCKKNTNVSGFASMDMTAFKKYKFPIPPLEIQQEIVKILDAFTELNTELNTELKA 190

Query: 191 FIELLKEKKQALV------SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTEL 244
             +  +  +  L+      S      ++     K        L P   E +    +   L
Sbjct: 191 RKKQYQYYQNMLLDFKDIHSNHKDAKISAKTYPKRLKTLLQTLAPKGVEFRKLGEVCEIL 250

Query: 245 NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
           + +   + ++      Y           +       +   + + G ++        D   
Sbjct: 251 DNRRIPIAKNKRNPGIYPYYGANGIQDYIDSYIFDGDFVLVGEDGSVI------NKDNTP 304

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKR 364
           + +    +  +   A++    + +   +L + +++ D+        +G    +  E++K+
Sbjct: 305 VVNWASGKIWVNNHAHVLQTKNELKLKFLYFYLQTIDV----SYCVAGTPPKINQENLKQ 360

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
           + + +PP++ Q +I  +++   A    L+  I   I   K++  
Sbjct: 361 ITIPIPPLEIQQEIVKILDQFLALTTDLLAGIPAEIEARKKQYQ 404


>gi|152997207|ref|YP_001342042.1| restriction modification system DNA specificity subunit
           [Marinomonas sp. MWYL1]
 gi|150838131|gb|ABR72107.1| restriction modification system DNA specificity domain [Marinomonas
           sp. MWYL1]
          Length = 400

 Score =  117 bits (292), Expect = 5e-24,   Method: Composition-based stats.
 Identities = 70/427 (16%), Positives = 131/427 (30%), Gaps = 51/427 (11%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESG---KDIIYIGLEDVESGTGKYLPK 66
           Y DS       +PK W +        +  G           I  +  + + +G   Y   
Sbjct: 6   YNDS-------LPKGWVLAKANDVMDVRDGTHDSPKAQATGIPLVTSKSLVNGKIDYSTC 58

Query: 67  DGNSRQ--SDTSTVSIFAKGQILYGKLGPYLRKAIIAD--FDGICSTQFLVLQPKDVLPE 122
              S Q     S  S    G ILY  +G      I+       I +         D+   
Sbjct: 59  TYISEQDHESISKRSAVDDGDILYAMIGTIGNPVIVKKDFDFSIKNVALFKFTKTDLSNR 118

Query: 123 LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
            +  +L S    ++ E    G T        I  + +P+PPL EQ  I   +        
Sbjct: 119 YIFHYLNSGLAKRQFENNSRGGTQKFVSLGNIRELMIPLPPLEEQKRIAAILDKADAIRR 178

Query: 183 TLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVT 242
                     E        L S  +    +P    K   I  +               VT
Sbjct: 179 KRQQAIDLADEF-------LRSVFLDMFGDPVTNPKGKRIVPLIE---------LCNKVT 222

Query: 243 ELNRKNTKLIESNILSLSYGNIIQKLETRNMGL-----KPESYETYQIVDPGEIVFRFID 297
           +   ++ K  ES I  L   NI+    + +          +       ++ G++++  + 
Sbjct: 223 DGTHQSPKWEESGIPFLFISNIVNGKISFDTNKFISKETLDELTRSTPIEKGDVLYTTVG 282

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKPHGI--DSTYLAWLMRSYDLCKVFYAMGSG-LR 354
              +   +                 +KP+    ++ +L  ++ S  + +   ++  G  +
Sbjct: 283 SYGN---VARVTDDTEFCFQRHIAHIKPNHEIVNAEFLTSMLASSVVRRQADSLVRGIAQ 339

Query: 355 QSLKFEDVKRLPVLVPPIKEQF---DITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
           ++L   ++K + V    ++ Q     I   I+      D  V        LL    +S I
Sbjct: 340 KTLNLRELKEILVFDVSLENQKSYLKIVEPIHKIKDNYDNSVN------ELLNN-FNSLI 392

Query: 412 AAAVTGQ 418
             A +G+
Sbjct: 393 QKAFSGE 399


>gi|167461217|ref|ZP_02326306.1| type I restriction-modification enzyme S subunit [Paenibacillus
           larvae subsp. larvae BRL-230010]
          Length = 386

 Score =  117 bits (292), Expect = 5e-24,   Method: Composition-based stats.
 Identities = 51/399 (12%), Positives = 115/399 (28%), Gaps = 27/399 (6%)

Query: 26  KVVPIKRFTKLNTGRTSES-----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
             V +     +++G   +S      + +  I + DV SG+             +     +
Sbjct: 7   DEVKLGGLVHIDSGYAFKSSYFNEKEGLPIIRIRDVTSGSI------STYYSGEYDEKYL 60

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
                IL    G +  +        +      +    + +      + +     ++IE  
Sbjct: 61  VENNDILISMDGTFSVRKWSTGKALLNQRVCRIKSLNEKILLDDYLYYILPKYLKKIEDK 120

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
               T+ H   K I  I + +P +  Q      +      I           +   E   
Sbjct: 121 TSFVTVKHLSVKDINEIFLLLPNIEAQRKTVLILDKAQELI--------NKRKKQIEACD 172

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
            L+  +        V      +E +G               +  N KN     +     S
Sbjct: 173 KLIKGLFYDMFGDPVLNNKFTLESLG---SVSLKITDGTHHSPENTKNGVPYITAKHLGS 229

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
                    T       +        + G++++           +         + +   
Sbjct: 230 GSLDFYNAPTFISLEDHKKIFARCNPEKGDVLYIKDGATTGIACINHYDFEFSMLSSLEL 289

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKV-FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
           +      + S YL   + +  + K     M  G  + L  + +  +P+L+PPI  Q    
Sbjct: 290 IKTDITKLSSIYLVSYLNNDQVKKKVLQDMAGGAIKRLTLKKINAIPILLPPIHLQNRFA 349

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
                +  +I+    +++QS+  L+    + +  A  G+
Sbjct: 350 E----QVEKIEQQKLRLQQSLTELENNFKALMQRAFKGE 384


>gi|307250674|ref|ZP_07532611.1| Type I restriction-modification system, S subunit [Actinobacillus
           pleuropneumoniae serovar 4 str. M62]
 gi|306857282|gb|EFM89401.1| Type I restriction-modification system, S subunit [Actinobacillus
           pleuropneumoniae serovar 4 str. M62]
          Length = 452

 Score =  116 bits (291), Expect = 5e-24,   Method: Composition-based stats.
 Identities = 61/436 (13%), Positives = 128/436 (29%), Gaps = 67/436 (15%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            IP+ W++  +         +T       I +GL + +      L       Q+ +    
Sbjct: 20  EIPESWEIEKLGNIIFNLGQKTPNERFFYIDVGLINNKIHKLNSLENILEPDQAPSRARK 79

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDG----ICSTQFLVLQ-PKDVLPELLQGWLLSIDVT 134
           I  K  ILY  + PYL+   I + D     I ST F+V+    +   + L  +LLS   T
Sbjct: 80  IVQKNSILYSTVRPYLQNICILEQDFQYEPIASTAFVVMNVFTNFYHKYLFYYLLSPVFT 139

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             +     G      +   + N+P+ IPPL EQ  I  KI      I+    +  +   L
Sbjct: 140 DFVNQEMVGVAYPAINDDKLYNLPIAIPPLNEQKRIVAKIEELLPYIEQYAEKEEKLTAL 199

Query: 195 LKEKK----QALVSYIVTKGLNPDVKM--------------------------------- 217
            ++      ++++   +   L                                       
Sbjct: 200 HQQFPEQLKKSILQAAIQGKLTKQDPNDEPALVLIERIKAEKLRLIAEKKLKKPKVVSEI 259

Query: 218 ---------------KDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN---ILSL 259
                          +    E    +P++W       +            +      + L
Sbjct: 260 ILRDNLPYEIINGEERCIADEVPFEIPENWCWVRLGEIGETNIGLTYAPNDVVLEGTIVL 319

Query: 260 SYGNIIQKLETRNMGL--KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
             GNI       +  +     +    +     +++    +   +     +    +     
Sbjct: 320 RSGNIQNGKIDVSSDVVRVNLNIPENKKCYKNDLLICARNGSKNLVGKAAIVDKDGYSFG 379

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFD 377
           +     +     + Y+ + + S      F  + +     +   ++    + +PP+ EQ  
Sbjct: 380 AFMAIFR-----NQYIYYYLSSPLFRNDFDGINTTTINQITQNNLNNRLIPLPPLNEQKR 434

Query: 378 ITNVINVETARIDVLV 393
           I   I    + +  L 
Sbjct: 435 IVEKIEKLFSTLQNLE 450



 Score = 86.0 bits (211), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 36/201 (17%), Positives = 76/201 (37%), Gaps = 10/201 (4%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE--SYETYQ 284
            +P+ WE++    ++  L +K        I      N I KL +    L+P+       +
Sbjct: 20  EIPESWEIEKLGNIIFNLGQKTPNERFFYIDVGLINNKIHKLNSLENILEPDQAPSRARK 79

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK-PHGIDSTYLAWLMRSYDLC 343
           IV    I++  +        +         I ++A++ +         YL + + S    
Sbjct: 80  IVQKNSILYSTVRPYLQNICILEQDFQYEPIASTAFVVMNVFTNFYHKYLFYYLLSPVFT 139

Query: 344 KVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
                   G+   ++  + +  LP+ +PP+ EQ  I   I      I+    + E+ +  
Sbjct: 140 DFVNQEMVGVAYPAINDDKLYNLPIAIPPLNEQKRIVAKIEELLPYIEQY-AEKEEKLTA 198

Query: 403 L-----KERRSSFIAAAVTGQ 418
           L     ++ + S + AA+ G+
Sbjct: 199 LHQQFPEQLKKSILQAAIQGK 219


>gi|322381543|ref|ZP_08055521.1| hypothetical protein PL1_2426 [Paenibacillus larvae subsp. larvae
           B-3650]
 gi|321154501|gb|EFX46799.1| hypothetical protein PL1_2426 [Paenibacillus larvae subsp. larvae
           B-3650]
          Length = 381

 Score =  116 bits (291), Expect = 5e-24,   Method: Composition-based stats.
 Identities = 51/399 (12%), Positives = 115/399 (28%), Gaps = 27/399 (6%)

Query: 26  KVVPIKRFTKLNTGRTSES-----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
             V +     +++G   +S      + +  I + DV SG+             +     +
Sbjct: 2   DEVKLGGLVHIDSGYAFKSSYFNEKEGLPIIRIRDVTSGSI------STYYSGEYDEKYL 55

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
                IL    G +  +        +      +    + +      + +     ++IE  
Sbjct: 56  VENNDILISMDGTFSVRKWSTGKALLNQRVCRIKSLNEKILLDDYLYYILPKYLKKIEDK 115

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
               T+ H   K I  I + +P +  Q      +      I           +   E   
Sbjct: 116 TSFVTVKHLSVKDINEIFLLLPNIEAQRKTVLILDKAQELI--------NKRKKQIEACD 167

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
            L+  +        V      +E +G               +  N KN     +     S
Sbjct: 168 KLIKGLFYDMFGDPVLNNKFTLESLG---SVSLKITDGTHHSPENTKNGVPYITAKHLGS 224

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
                    T       +        + G++++           +         + +   
Sbjct: 225 GSLDFYNAPTFISLEDHKKIFARCNPEKGDVLYIKDGATTGIACINHYDFEFSMLSSLEL 284

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKV-FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
           +      + S YL   + +  + K     M  G  + L  + +  +P+L+PPI  Q    
Sbjct: 285 IKTDITKLSSIYLVSYLNNDQVKKKVLQDMAGGAIKRLTLKKINAIPILLPPIHLQNRFA 344

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
                +  +I+    +++QS+  L+    + +  A  G+
Sbjct: 345 E----QVEKIEQQKLRLQQSLTELENNFKALMQRAFKGE 379


>gi|315637036|ref|ZP_07892259.1| restriction endonuclease S [Arcobacter butzleri JV22]
 gi|315478572|gb|EFU69282.1| restriction endonuclease S [Arcobacter butzleri JV22]
          Length = 405

 Score =  116 bits (291), Expect = 5e-24,   Method: Composition-based stats.
 Identities = 65/416 (15%), Positives = 143/416 (34%), Gaps = 36/416 (8%)

Query: 21  IPKHWKVVPIKRFTKLNTGRT-----SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           +P  W+  P+   T++ +         +S   I  I   ++  G  K            T
Sbjct: 7   LPDGWEWKPLISLTEVFSDGDWIESKDQSDDGIRLIQTGNIGIGIFKDREDKSRFISEST 66

Query: 76  ---STVSIFAKGQILYGKLGPYLRKAII---ADFDGICSTQF-LVLQPKDVLPELLQGWL 128
                 +   +   L  +L   + ++ +    D   I S    +V   + VLP+L   + 
Sbjct: 67  FERLNCTEIYENDCLISRLPEPVGRSCLIPKMDLKLITSVDCTIVRFKESVLPKLFVYYS 126

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
            S      I     GAT      K + NIP+P+PPL+EQ  I  K+     +ID  I   
Sbjct: 127 QSNYYFNMIMNNSTGATRLRISKKNLSNIPIPLPPLSEQQRIVAKLDNLFAKIDKAIALH 186

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN 248
            + I+       ++++ +                     + + + +     +V +   KN
Sbjct: 187 QKNIDEANVFMASVLNDVFV------------------ELEEKYGLIKINDVVVKTKNKN 228

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLK-----PESYETYQIVDPGEIVFRFIDLQNDKR 303
               +    +    + I     + +  K            + V  G+IV+          
Sbjct: 229 PLNEKDTPFTYIDISSIDNKSFKIVEPKQLIGSEAPSRAKKEVFQGDIVYSTTRPNLKNI 288

Query: 304 SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDV 362
           ++ S         T   +        ++YL + + +  L +       G +  +    D+
Sbjct: 289 AIVSENYNNPIASTGFCVLRTNEKTINSYLFYFLITEKLFEQIEPNIRGAQYPATSDNDL 348

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           K   +   P + Q  + + ++  + +++ + +  ++ +  LKE ++S +     G+
Sbjct: 349 KNCNIPNAPYETQQKVVSYLDEISNKMEKIKQIQKEKMQSLKELKASILDQGFKGE 404


>gi|253315009|ref|ZP_04838222.1| restriction modification system DNA specificity subunit
           [Staphylococcus aureus subsp. aureus str. CF-Marseille]
          Length = 403

 Score =  116 bits (291), Expect = 5e-24,   Method: Composition-based stats.
 Identities = 66/402 (16%), Positives = 142/402 (35%), Gaps = 27/402 (6%)

Query: 24  HWKVVPIKRFT-KLNTGRTSE------SGKDIIYIGLEDVESGTGKYLP-KDGNSRQSDT 75
            W+   +   T K+ +G+T +      + K I ++  +++ +G          +    D 
Sbjct: 14  EWEEKKLGNLTTKIGSGKTPKGGSENYTNKGIPFLRSQNIRNGKLNLNDLVYISKDIDDE 73

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIA---DFDGICSTQ-FLVLQPKDVLPELLQGWLLSI 131
              S    G +L    G  + +  I    +     +    ++   K+        +LLS 
Sbjct: 74  MKNSRTYYGDVLLNITGASIGRTAINSIVETHANLNQHVCIIRLKKEYYYNFFGQYLLSR 133

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
              ++I     G +    ++K I N+ +  P + E+    +KI     ++D  I    + 
Sbjct: 134 KGKRKIFLAQSGGSREGLNFKEIANLKIFTPTIFEEQ---QKIGQFFSKLDQQIELEEQK 190

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           +ELL+++K+  +  I ++ L           +  G     W  K    ++   N++    
Sbjct: 191 LELLQQQKKCYIQKIFSQEL--------RFKDEEGNYYKGWNKKQLKDVLEFSNKRTINE 242

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
            E  +L+ S   +I + +                + P   +       +         ++
Sbjct: 243 NEYPVLTSSRQGLILQSDYYKDRKTFAESNIGYFILPKNHITYRSRSDDGIFKFNLNLMI 302

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
           + GII+  Y   K    +  YL   +      +         +  L  +D++ +   +P 
Sbjct: 303 DVGIISKYYPVFKGIDANQYYLTLHLNYQLKKEYIKYATGTSQLVLSQKDLQNIKTKLPS 362

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            +EQ  I +      + ID LVEK    +  LK R+   +  
Sbjct: 363 YEEQQKIGDF----FSEIDRLVEKQSSKVGRLKVRKKELLQK 400



 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 25/185 (13%), Positives = 50/185 (27%), Gaps = 14/185 (7%)

Query: 215 VKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK----LET 270
            +++  G E          +             +       I  L   NI        + 
Sbjct: 4   PELRFPGFEGEWEEKKLGNLTTKIGSGKTPKGGSENYTNKGIPFLRSQNIRNGKLNLNDL 63

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
             +    +          G+++         + ++ S       +     +         
Sbjct: 64  VYISKDIDDEMKNSRTYYGDVLLNITGASIGRTAINSIVETHANLNQHVCIIRLKK---- 119

Query: 331 TYLAWLMRSYDL-----CKVFYAMGSGLRQSLKFEDVKRLPVLVPPI-KEQFDITNVINV 384
            Y       Y L      K+F A   G R+ L F+++  L +  P I +EQ  I    + 
Sbjct: 120 EYYYNFFGQYLLSRKGKRKIFLAQSGGSREGLNFKEIANLKIFTPTIFEEQQKIGQFFSK 179

Query: 385 ETARI 389
              +I
Sbjct: 180 LDQQI 184



 Score = 50.6 bits (119), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 29/184 (15%), Positives = 53/184 (28%), Gaps = 5/184 (2%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           K W    +K   + +  RT    +  +             Y  KD  +         I  
Sbjct: 221 KGWNKKQLKDVLEFSNKRTINENEYPVLTSSRQGLILQSDY-YKDRKTFAESNIGYFILP 279

Query: 83  KGQILY---GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           K  I Y      G +     +    GI S ++  +       +      L+  + +    
Sbjct: 280 KNHITYRSRSDDGIFKFNLNLMIDVGIIS-KYYPVFKGIDANQYYLTLHLNYQLKKEYIK 338

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
              G +      K + NI   +P   EQ  I +        ++   ++  R     KE  
Sbjct: 339 YATGTSQLVLSQKDLQNIKTKLPSYEEQQKIGDFFSEIDRLVEKQSSKVGRLKVRKKELL 398

Query: 200 QALV 203
           Q + 
Sbjct: 399 QKMF 402


>gi|154252791|ref|YP_001413615.1| restriction modification system DNA specificity subunit
           [Parvibaculum lavamentivorans DS-1]
 gi|154156741|gb|ABS63958.1| restriction modification system DNA specificity domain
           [Parvibaculum lavamentivorans DS-1]
          Length = 392

 Score =  116 bits (291), Expect = 5e-24,   Method: Composition-based stats.
 Identities = 68/407 (16%), Positives = 129/407 (31%), Gaps = 39/407 (9%)

Query: 29  PIKRFTKLNTGRTSES--------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           PI     +  G+ S          G DI ++   D+       +  D        +   +
Sbjct: 9   PISEIASVERGKFSARPRNDPRYFGGDIPFLQTGDIARAGRFIVGWDQTLNAQGLAVSRL 68

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
           F +G I    +   +    I+ FD  C    + + P++        + +       + ++
Sbjct: 69  FPRGTIFMS-IAANVGDVAISTFDAACPDSVVAVIPRNGADAEWL-FQILRHCKDGLSSL 126

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
                 ++   + I    +P+PPL EQ  I E +      I+ L   R    + L    Q
Sbjct: 127 ATQNAQANLSLEKITPFRVPVPPLPEQCKIAEILRTWDEAIEKLEALRAAKRDRLTGLTQ 186

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
            L+                      G  PD W+ +P  A+ T + R+N       +   +
Sbjct: 187 KLL-------------------GIGGAFPDRWKQRPLSAISTRVRRQNGGGDHPVMTISA 227

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
                 + E  +  +   S + Y ++  GE  +   +                 ++   Y
Sbjct: 228 KSGFRLQSEKFSRDMAGSSVDRYIVLHEGEFAYNKGNSLTAPYGCIFPLDRPTALVPFVY 287

Query: 321 MAVKPHGIDSTYLA-WLMRSYDLCKVFYA-MGSGLRQ----SLKFEDVKRLPVLVPPIKE 374
                    S      L  +  L       + SG+R     +L  ED     V VPP  E
Sbjct: 288 FCFALKADLSREFFAHLFAAGALNHQLSRLINSGVRNDGLLNLNPEDFFGCKVPVPPADE 347

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           Q  I + +          +  +E  I  L  ++   +   +TG+  +
Sbjct: 348 QSAIASTLTTAKQE----IGLLETEIETLTRQKRGLMQKLLTGEWRV 390



 Score = 38.2 bits (87), Expect = 2.7,   Method: Composition-based stats.
 Identities = 28/192 (14%), Positives = 57/192 (29%), Gaps = 11/192 (5%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           P  WK  P+   +     +       ++ I  +       +   +D      D     + 
Sbjct: 196 PDRWKQRPLSAISTRVRRQNGGGDHPVMTISAKSGFRLQSEKFSRDMAGSSVD--RYIVL 253

Query: 82  AKGQILYGK----LGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL-----SID 132
            +G+  Y K      PY     +     +    +     K  L       L      +  
Sbjct: 254 HEGEFAYNKGNSLTAPYGCIFPLDRPTALVPFVYFCFALKADLSREFFAHLFAAGALNHQ 313

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           +++ I +      + + + +      +P+PP  EQ  I   +      I  L TE     
Sbjct: 314 LSRLINSGVRNDGLLNLNPEDFFGCKVPVPPADEQSAIASTLTTAKQEIGLLETEIETLT 373

Query: 193 ELLKEKKQALVS 204
              +   Q L++
Sbjct: 374 RQKRGLMQKLLT 385


>gi|94993143|ref|YP_601242.1| Type I restriction-modification system specificity subunit
           [Streptococcus pyogenes MGAS2096]
 gi|94546651|gb|ABF36698.1| Type I restriction-modification system specificity subunit
           [Streptococcus pyogenes MGAS2096]
          Length = 399

 Score =  116 bits (291), Expect = 5e-24,   Method: Composition-based stats.
 Identities = 58/396 (14%), Positives = 124/396 (31%), Gaps = 18/396 (4%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W+   +    ++  G++  S           +  G           R   T       K
Sbjct: 17  EWEEKELGDIVQITMGQSPSSQNYTTNPSDYILVQGNADIKNGYVFPRVWTTQITKQADK 76

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
           G I+     P        ++  I       ++  + +       L  +      + I  G
Sbjct: 77  GDIILSVRAPV-GDVGKTNYHVIIGRGVAAIKGNEFI----FQILKYLKEIGYWKRISTG 131

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           +T        I    + IP L EQ  I E        +D LI  + + +  LKE+KQ  +
Sbjct: 132 STFDSISSSDIKYAKIQIPSLPEQEAIGE----LFQTVDQLIQLQDQKLATLKEQKQTFL 187

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
             +    +    +++  G +         EV    +        +++  E  ++S+    
Sbjct: 188 RKMFPPQIQKVPEIRLQGFKGEWEEKKLGEVSTHRSGTAIEKYFDSEG-EFKVISIGSYG 246

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR----SAQVMERGIITSA 319
                  +N+          ++V  GE+     D   +   +       +  +  +    
Sbjct: 247 TNNLYVDQNIRAVSNELTNSKLVASGELTMVLNDKTANGAIIGRCLLITENNKYVVNQRT 306

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
            +      I S YL   +       +      G +  + +  V++L + +P +KEQ  I 
Sbjct: 307 EIIRPDINISSYYLFHYLNGEFRNGIIKIAQGGTQIYVNYSSVEQLKINIPTLKEQEAIG 366

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           N        +D  + + E+ +  LK  + + +    
Sbjct: 367 NF----FQTLDQQIAQSEEKLTELKALKQTLLNRLF 398


>gi|15924797|ref|NP_372331.1| specificity determinant HsdS [Staphylococcus aureus subsp. aureus
           Mu50]
 gi|156980123|ref|YP_001442382.1| specificity determinant HsdS [Staphylococcus aureus subsp. aureus
           Mu3]
 gi|255006593|ref|ZP_05145194.2| specificity determinant HsdS [Staphylococcus aureus subsp. aureus
           Mu50-omega]
 gi|14247579|dbj|BAB57969.1| probable specificity determinant HsdS [Staphylococcus aureus subsp.
           aureus Mu50]
 gi|156722258|dbj|BAF78675.1| probable specificity determinant HsdS [Staphylococcus aureus subsp.
           aureus Mu3]
          Length = 409

 Score =  116 bits (291), Expect = 5e-24,   Method: Composition-based stats.
 Identities = 66/402 (16%), Positives = 141/402 (35%), Gaps = 27/402 (6%)

Query: 24  HWKVVPIKRFT-KLNTGRTSE------SGKDIIYIGLEDVESGTGKYLP-KDGNSRQSDT 75
            W+   +   T K+ +G+T +      + K I ++  +++ +G          +    D 
Sbjct: 20  EWEEKKLGNLTTKIGSGKTPKGGSENYTNKGIPFLRSQNIRNGKLNLNDLVYISKDIDDE 79

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIA---DFDGICSTQ-FLVLQPKDVLPELLQGWLLSI 131
              S    G +L    G  + +  I    +     +    ++   K+        +LLS 
Sbjct: 80  MKNSRTYYGDVLLNITGASIGRTAINSIVETHANLNQHVCIIRLKKEYYYNFFGQYLLSR 139

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
              ++I     G +    ++K I N+ +  P + E+    +KI     ++D  I    + 
Sbjct: 140 KGKRKIFLAQSGGSREGLNFKEIANLKIFTPTIFEEQ---QKIGQFFSKLDQQIELEEQK 196

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           +ELL+++K+  +  I ++ L           +  G     W  K    ++   N++    
Sbjct: 197 LELLQQQKKCYIQKIFSQEL--------RFKDEEGNYYKGWNKKQLKDVLEFSNKRTINE 248

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
            E  +L  S   +I + +                + P   +       +         ++
Sbjct: 249 NEYPVLISSRQGLILQSDYYKDRKTFAESNIGYFILPKNHITYRSRSDDGIFKFNLNLMI 308

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
           + GII+  Y   K    +  YL   +      +         +  L  +D++ +   +P 
Sbjct: 309 DVGIISKYYPVFKGIDANQYYLTLHLNYQLKKEYIKYATGTSQLVLSQKDLQNIKTKLPS 368

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            +EQ  I +      + ID LVEK    +  LK R+   +  
Sbjct: 369 YEEQQKIGDF----FSEIDRLVEKQSSKVGRLKVRKKELLQK 406



 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 25/185 (13%), Positives = 50/185 (27%), Gaps = 14/185 (7%)

Query: 215 VKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK----LET 270
            +++  G E          +             +       I  L   NI        + 
Sbjct: 10  PELRFPGFEGEWEEKKLGNLTTKIGSGKTPKGGSENYTNKGIPFLRSQNIRNGKLNLNDL 69

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
             +    +          G+++         + ++ S       +     +         
Sbjct: 70  VYISKDIDDEMKNSRTYYGDVLLNITGASIGRTAINSIVETHANLNQHVCIIRLKK---- 125

Query: 331 TYLAWLMRSYDL-----CKVFYAMGSGLRQSLKFEDVKRLPVLVPPI-KEQFDITNVINV 384
            Y       Y L      K+F A   G R+ L F+++  L +  P I +EQ  I    + 
Sbjct: 126 EYYYNFFGQYLLSRKGKRKIFLAQSGGSREGLNFKEIANLKIFTPTIFEEQQKIGQFFSK 185

Query: 385 ETARI 389
              +I
Sbjct: 186 LDQQI 190



 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 30/184 (16%), Positives = 54/184 (29%), Gaps = 5/184 (2%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           K W    +K   + +  RT    +  + I           Y  KD  +         I  
Sbjct: 227 KGWNKKQLKDVLEFSNKRTINENEYPVLISSRQGLILQSDY-YKDRKTFAESNIGYFILP 285

Query: 83  KGQILY---GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           K  I Y      G +     +    GI S ++  +       +      L+  + +    
Sbjct: 286 KNHITYRSRSDDGIFKFNLNLMIDVGIIS-KYYPVFKGIDANQYYLTLHLNYQLKKEYIK 344

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
              G +      K + NI   +P   EQ  I +        ++   ++  R     KE  
Sbjct: 345 YATGTSQLVLSQKDLQNIKTKLPSYEEQQKIGDFFSEIDRLVEKQSSKVGRLKVRKKELL 404

Query: 200 QALV 203
           Q + 
Sbjct: 405 QKMF 408


>gi|260768975|ref|ZP_05877909.1| type I restriction-modification enzyme S subunit [Vibrio furnissii
           CIP 102972]
 gi|260617005|gb|EEX42190.1| type I restriction-modification enzyme S subunit [Vibrio furnissii
           CIP 102972]
          Length = 415

 Score =  116 bits (291), Expect = 6e-24,   Method: Composition-based stats.
 Identities = 55/408 (13%), Positives = 110/408 (26%), Gaps = 33/408 (8%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDI----IYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           W+   I       T  T ++ K +     YI    V+ G+  +      + +   +    
Sbjct: 19  WEQKSITEVATKVTDGTHDTPKPVESGMPYITAIHVKDGSIDFDNCYYVTPEVHQAIYKR 78

Query: 81  F--AKGQILYGKLGPYLRKAIIADFDGICS--TQFLVLQPKDVLPELLQGWLLSIDVTQR 136
               KG +L   +G       I  +D   S     L+   ++++       +      + 
Sbjct: 79  CNPEKGDLLLVNIGAGTATCAINTYDAEFSMKNVALIKPDREIIDPYFLEQIQRKSTARL 138

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
              +  G        K I  +    P L EQ  I   +     ++D  IT        L 
Sbjct: 139 FHRLTSGGAQPFFSLKEIKKLIHNYPNLPEQQKIASFL----SKVDEKITLLTEKKAKLT 194

Query: 197 EKKQALVSYIVTKGLN----------PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
           E K+ ++  +     +          P ++ K                      + +   
Sbjct: 195 EYKKGVMQQLFNGKWDEQDGQLIFIPPTLRFKADDGSEFPDWTKSTLGDIGKVKMCKRIM 254

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDP-GEIVFRFIDLQNDKRSL 305
            N      +I     G   ++ +        + Y         G+I+             
Sbjct: 255 ANQTSENGDIPFFKIGTFGREPDAFISQELYDEYRHKFSFPNVGDILMSASGTLGRTV-- 312

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRL 365
                        + +    +    T   +L   Y + K       G  Q L    +   
Sbjct: 313 --VYDGSPAYFQDSNIVWIENDGSFTTNEFLFYVYQIVKY--QSEGGTIQRLYNNIIMSA 368

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
               P +KEQ  I   ++     ID  ++     +   KE +   +  
Sbjct: 369 VFDNPSLKEQKKIVKFLSA----IDQKIDLANSELEKAKEWKRGLLQQ 412



 Score = 82.5 bits (202), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 25/185 (13%), Positives = 63/185 (34%), Gaps = 10/185 (5%)

Query: 241 VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK-----PESYETYQIVDPGEIVFRF 295
           VT+      K +ES +  ++  ++       +          ++       + G+++   
Sbjct: 31  VTDGTHDTPKPVESGMPYITAIHVKDGSIDFDNCYYVTPEVHQAIYKRCNPEKGDLLLVN 90

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ 355
           I       ++ +    E  +   A +      ID  +L  + R             G + 
Sbjct: 91  IGAGTATCAINTYDA-EFSMKNVALIKPDREIIDPYFLEQIQRKSTARLFHRLTSGGAQP 149

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
               +++K+L    P + EQ  I + +    +++D  +  + +    L E +   +    
Sbjct: 150 FFSLKEIKKLIHNYPNLPEQQKIASFL----SKVDEKITLLTEKKAKLTEYKKGVMQQLF 205

Query: 416 TGQID 420
            G+ D
Sbjct: 206 NGKWD 210



 Score = 49.4 bits (116), Expect = 0.001,   Method: Composition-based stats.
 Identities = 30/189 (15%), Positives = 51/189 (26%), Gaps = 14/189 (7%)

Query: 24  HWKVVPIKRFTKLNTGRTS-----ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
            W    +    K+   +           DI +  +         ++ ++           
Sbjct: 235 DWTKSTLGDIGKVKMCKRIMANQTSENGDIPFFKIGTFGREPDAFISQEL--YDEYRHKF 292

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           S    G IL    G   R  +            +V                   V Q ++
Sbjct: 293 SFPNVGDILMSASGTLGRTVVYDGSPAYFQDSNIVWI---ENDGSFTTNEFLFYVYQIVK 349

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
              EG T+       I +     P L EQ  I + +      ID  I      +E  KE 
Sbjct: 350 YQSEGGTIQRLYNNIIMSAVFDNPSLKEQKKIVKFL----SAIDQKIDLANSELEKAKEW 405

Query: 199 KQALVSYIV 207
           K+ L+  + 
Sbjct: 406 KRGLLQQMF 414


>gi|315444137|ref|YP_004077016.1| restriction endonuclease S subunit [Mycobacterium sp. Spyr1]
 gi|315262440|gb|ADT99181.1| restriction endonuclease S subunit [Mycobacterium sp. Spyr1]
          Length = 422

 Score =  116 bits (291), Expect = 6e-24,   Method: Composition-based stats.
 Identities = 59/420 (14%), Positives = 133/420 (31%), Gaps = 23/420 (5%)

Query: 18  IGA--IPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGN 69
           IG   +P  WK   I    +   G T         G  + +   +DV++           
Sbjct: 4   IGKSPLPSGWKECRIGELFESWGGHTPSKSMPSYWGDGVPWASSKDVKAPRLASTTHTVT 63

Query: 70  SRQSDTSTVSIFAKGQILYGKLGPYLR---KAIIADFDGICSTQF-LVLQPKDVLPELLQ 125
            +  + + + +   G +L       L       + D     +         +  + E L 
Sbjct: 64  PQAVEETGLKVCPVGSVLVVMRSGILAHTLPVTVTDVPVAINQDLKAFHSSEPFMNEWLA 123

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
            +L          +  EG T+    +  +    +P+PP  E+  I   +     +  + +
Sbjct: 124 LFLRMSASALLASSRREGTTVQSIQYPLLKGTLIPVPPEDERAQIIGAVRMAVEKQASAL 183

Query: 186 TERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN 245
                    ++  +QA+++   +  L  D +    G+  VG             + +   
Sbjct: 184 PHVKTAARAIERFRQAVLTAACSGRLTEDWR----GVAGVGDWDFERAADVCDKVQSGGT 239

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIV------DPGEIVFRFIDLQ 299
            ++    E  +  L   NI+ +        +      +  V       PG+++   +   
Sbjct: 240 PRSGFTDEPGVPFLKVYNIVSQQVDFGHRPQYVPETVHHRVLKKSVAYPGDVIMNIVGPP 299

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCK-VFYAMGSGLRQSLK 358
             K ++      E  +  +  +      I   +L + +RS           GS  + ++ 
Sbjct: 300 LGKVAIIPDDFPEWNLNQAITIFRPGDRILREWLYYYLRSGLFMDADLITRGSAGQSNIS 359

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
               + L + VP I EQ  +   I       D L+ +++ +    +    + +  A  G+
Sbjct: 360 LTQCRDLQIPVPTIAEQQVLVQRIGELMDHADSLLARVDTAGRRTERISQAVLVKAFRGE 419


>gi|318042340|ref|ZP_07974296.1| restriction modification system DNA specificity domain protein
           [Synechococcus sp. CB0101]
          Length = 386

 Score =  116 bits (291), Expect = 6e-24,   Method: Composition-based stats.
 Identities = 52/398 (13%), Positives = 120/398 (30%), Gaps = 28/398 (7%)

Query: 38  TGRTSESGKD--IIYIGLEDVESGTGKY-LPKDGNSRQSDTSTVSIFAKGQILYGKLGP- 93
            G +    ++  I  +  + +   +  Y   +  N              G +L    G  
Sbjct: 1   RGISPSYAEEGGICVLNQKCIRDHSINYAHSRRHNLDSKKVPAERYIQIGDVLVNSTGTG 60

Query: 94  YLRKAII----ADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI---CEGATM 146
            L +               +   +++P   +        + + +   ++     C G T 
Sbjct: 61  TLGRVAQVREQPQEATTVDSHVTIVRPDRSIFYREFFGYMLVIIEDALKEAGEGCGGQTE 120

Query: 147 SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYI 206
                            L +Q  I + +      + T      + +       ++ +   
Sbjct: 121 LSRSALAEQFSVSYPASLTKQQRIVDILDEAFEALATAKANAEQNLRNALAVFESHLEAA 180

Query: 207 VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ 266
             +      + +      +    +        +  T          E +I+ L       
Sbjct: 181 FNQKEEGWTEKRLG---ELADFKNGLNFSRNSSGQTLRMVGVGDFQERSIVPLDKLQCTT 237

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQND--KRSLRSAQVMERGIITSAYMAVK 324
                             ++  G+I+    +   D   R +    V E    +   + ++
Sbjct: 238 IDGNVTEDY---------LIREGDILTVRSNGSKDLVGRCMLVPAVNEMISYSGFIIRIR 288

Query: 325 PHGI--DSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNV 381
           P G      +L + M+S        + G G    ++    +  LPVL+PP+K+Q +I N 
Sbjct: 289 PDGQTTSPRFLLYFMKSRTARSRLTSDGGGTSISNINQAKLATLPVLLPPLKKQEEIANH 348

Query: 382 INVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
           ++  +     L    E+ I  L+E ++S +  A +G+I
Sbjct: 349 LDAFSKESKRLTSIYERKIAALEELKTSLLHQAFSGKI 386



 Score = 60.2 bits (144), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 30/201 (14%), Positives = 67/201 (33%), Gaps = 12/201 (5%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGL---EDVESGTGKYLPKDG-NSRQSDTSTV 78
           + W    +        G           + +    D +  +   L K    +   + +  
Sbjct: 186 EGWTEKRLGELADFKNGLNFSRNSSGQTLRMVGVGDFQERSIVPLDKLQCTTIDGNVTED 245

Query: 79  SIFAKGQILYGKLGPYLRKAIIA------DFDGICSTQFLVLQPKDV--LPELLQGWLLS 130
            +  +G IL  +                 +     S   + ++P      P  L  ++ S
Sbjct: 246 YLIREGDILTVRSNGSKDLVGRCMLVPAVNEMISYSGFIIRIRPDGQTTSPRFLLYFMKS 305

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
                R+ +   G ++S+ +   +  +P+ +PPL +Q  I   + A +     L +   R
Sbjct: 306 RTARSRLTSDGGGTSISNINQAKLATLPVLLPPLKKQEEIANHLDAFSKESKRLTSIYER 365

Query: 191 FIELLKEKKQALVSYIVTKGL 211
            I  L+E K +L+    +  +
Sbjct: 366 KIAALEELKTSLLHQAFSGKI 386


>gi|15675718|ref|NP_269892.1| putative type I site-specific deoxyribonuclease [Streptococcus
           pyogenes M1 GAS]
 gi|71911435|ref|YP_282985.1| type I restriction-modification system specificity subunit
           [Streptococcus pyogenes MGAS5005]
 gi|13622936|gb|AAK34613.1| putative type I site-specific deoxyribonuclease [Streptococcus
           pyogenes M1 GAS]
 gi|71854217|gb|AAZ52240.1| type I restriction-modification system specificity subunit
           [Streptococcus pyogenes MGAS5005]
          Length = 399

 Score =  116 bits (291), Expect = 6e-24,   Method: Composition-based stats.
 Identities = 58/396 (14%), Positives = 123/396 (31%), Gaps = 18/396 (4%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W+   +    ++  G++  S           +  G           R   T       K
Sbjct: 17  EWEEKELGDIVQITMGQSPSSQNYTTNPSDYILVQGNADIKNGYVFPRVWTTQITKQADK 76

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
           G I+     P        ++  I       ++  + +       L  +      + I  G
Sbjct: 77  GDIILSVRAPV-GDVGKTNYHVIIGRGVAAIKGNEFI----FQILKYLKEIGYWKRISTG 131

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           +T        I    + IP L EQ  I E        +D LI  + + +  LKE+KQ  +
Sbjct: 132 STFDSISSSDIKYAKIQIPSLPEQEAIGE----LFQMVDQLIQLQDQKLATLKEQKQTFL 187

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
             +         +++  G +         EV    +        +++  E  ++S+    
Sbjct: 188 RKMFPAQGQKVPEIRLQGFKGEWEEKKLREVSTHRSGTAIEKYFDSEG-EFKVISIGSYG 246

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR----SAQVMERGIITSA 319
                  +N+          ++V  GE+     D   +   +       +  +  +    
Sbjct: 247 TNNLYVDQNIRAVSNELTNSKLVASGELTMVLNDKTANGAIIGRCLLITENNKYVVNQRT 306

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
            +      I S YL   +       +      G +  + +  V++L + +P +KEQ  I 
Sbjct: 307 EIIRPDINISSYYLFHYLNGEFRNGIIKIAQGGTQIYVNYSSVEQLKINIPTLKEQEAIG 366

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           N        +D  + + E+ +  LK  + + +    
Sbjct: 367 NF----FQTLDQQIAQSEEKLTELKALKQTLLNRLF 398


>gi|293556631|ref|ZP_06675197.1| type IC specificity subunit [Enterococcus faecium E1039]
 gi|291601217|gb|EFF31503.1| type IC specificity subunit [Enterococcus faecium E1039]
          Length = 418

 Score =  116 bits (291), Expect = 6e-24,   Method: Composition-based stats.
 Identities = 54/408 (13%), Positives = 137/408 (33%), Gaps = 25/408 (6%)

Query: 23  KHWKVVPIKRFTKLNTGR----TSESGKDIIYIGLEDV-----ESGTGKYLPKDGNSRQS 73
           + W+   +     + + +    +  +   I ++   D+           YL         
Sbjct: 16  EDWEERKLGDMMDVTSVKRIHQSDWTNSGIRFLRARDIVSAAKNEEPSDYLYISEEKYNE 75

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGIC--STQFLVLQPKDVLPELLQGWLLSI 131
            +      ++G +L   +G      +I D + I       +  + +  +      +    
Sbjct: 76  YSKISGKVSQGDLLVTGVGSIGVPLLITDDNPIYFKDGNIIWFKNEHKIDGNFFYYSFIN 135

Query: 132 DVTQRIEAICEGA-TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
           +  Q+      G  T+           P+ +P   EQ+ I         ++D  I    R
Sbjct: 136 NKIQKYIRDVAGIGTVGTYTIDSGKKTPISLPTYDEQIKIGSF----FKQLDNTIALHQR 191

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
            ++LLKE K+  +  +  K      +++  G           E+  F   +         
Sbjct: 192 KLDLLKETKKGFLQKMFPKNGAKVPEIRFPGFTEDWEQRKLGEIGNFKNGMNFDKSAMGH 251

Query: 251 LIESNIL-SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS--LRS 307
                 L ++   N+++ +E   +    E  +    +  G+++F    ++          
Sbjct: 252 GSPFINLQNIFGRNVLESIEGLGLAESSEKQKAEYNLLNGDVLFVRSSVKPSGVGETALV 311

Query: 308 AQVMERGIITSAYMAVKPHG-IDSTYLAWLMRSYDLCKVFY-AMGSGLRQSLKFEDVKRL 365
           ++       +   +  +P+   D+ +  ++  + D+         S    ++  E + ++
Sbjct: 312 SRDYPGTTYSGFIIRFRPNIEFDNNFKRYIFGTKDVRNQIMAKSTSSANTNINQESLAKI 371

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            + +P I+EQ  I        A++D  +   ++ + LLKE +  F+  
Sbjct: 372 NIRLPKIEEQEKIGKF----FAQLDQTITLHQRKLDLLKETKKGFLQK 415


>gi|307274410|ref|ZP_07555594.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX2134]
 gi|306508920|gb|EFM78006.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX2134]
          Length = 398

 Score =  116 bits (291), Expect = 6e-24,   Method: Composition-based stats.
 Identities = 63/401 (15%), Positives = 143/401 (35%), Gaps = 29/401 (7%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W++  + R  +  T +  E    +  + +   E    + +  + +    D S   +   G
Sbjct: 10  WELCKLGRVVERVTRKNKELKSTLP-LTISAQEGLIDQNVFFNKSVASRDVSGYYLIYNG 68

Query: 85  QILYGKLGPYLRKAIIAD-----FDGICSTQFLVLQPKDVLPELLQGWLLS-IDVTQRIE 138
           +  Y K                   G+ ST +++ +PK++    L+ +  +     +  +
Sbjct: 69  EFAYNKSYSNGYPWGAIKRLNRYDMGVLSTLYIIFKPKNIDSNFLEKYYDTSCWYHEVSK 128

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
              EGA           +       + + V  + K+     ++D  IT   R +E LKE 
Sbjct: 129 HAAEGARNHGLLNIAASDFLRTELTVPKSVEEQRKVGNFLKQLDDTITLHQRKLEQLKEL 188

Query: 199 KQALVSYIVT--KGLNPDVKMKDSGIEW----VGLVPDHWEVKPFFALVTELNRKNTKLI 252
           K+A +  +        P V+      EW    +G + + +                ++  
Sbjct: 189 KKAYLQVMFPAKDERVPKVRFAAFEGEWAHRKLGEITESFS-------GGTPTAGKSEYY 241

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
             +I  +  G I        +     +  + ++V  G+I++      + +  +       
Sbjct: 242 GGDIPFIRSGEISSDSTELFITENGLNSSSAKMVKVGDILYALYGATSGEVGISKI---- 297

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-P 371
            G I  A +A++P   D++YL           +      G + +L    VK L +++P  
Sbjct: 298 TGAINQAILAIRPSKNDNSYLIIQWLRKQKNTIISTYLQGGQGNLSSSIVKNLIIMLPQN 357

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
            +EQ  +         R+D ++   +  +  LK+ ++S++ 
Sbjct: 358 KEEQEKVGIF----FKRLDDIITLHQNKLEQLKDLKTSYLQ 394



 Score = 66.7 bits (161), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 31/186 (16%), Positives = 57/186 (30%), Gaps = 9/186 (4%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
            W    +   T+  +G T  +GK      DI +I   ++ S + +           ++S+
Sbjct: 215 EWAHRKLGEITESFSGGTPTAGKSEYYGGDIPFIRSGEISSDSTELF---ITENGLNSSS 271

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
             +   G ILY   G    +  I+   G  +   L ++P       L    L       I
Sbjct: 272 AKMVKVGDILYALYGATSGEVGISKITGAINQAILAIRPSKNDNSYLIIQWLRKQKNTII 331

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
               +G   + +       I M      EQ  +          I     +  +  +L   
Sbjct: 332 STYLQGGQGNLSSSIVKNLIIMLPQNKEEQEKVGIFFKRLDDIITLHQNKLEQLKDLKTS 391

Query: 198 KKQALV 203
             Q + 
Sbjct: 392 YLQNMF 397


>gi|30022539|ref|NP_834170.1| Type I restriction-modification system specificity subunit
           [Bacillus cereus ATCC 14579]
 gi|29898097|gb|AAP11371.1| Type I restriction-modification system specificity subunit
           [Bacillus cereus ATCC 14579]
          Length = 414

 Score =  116 bits (291), Expect = 6e-24,   Method: Composition-based stats.
 Identities = 49/417 (11%), Positives = 121/417 (29%), Gaps = 35/417 (8%)

Query: 21  IPK--------HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           IP+        +W   P+    +  T +  +    +  + +        +    +     
Sbjct: 6   IPEIRFAGFTGNWGKKPLTELVERVTRKNKKGESRLP-LTISAQYGLVDQETYFNKTVAS 64

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIAD-----FDGICSTQFLVLQPKDVLPELLQGW 127
           ++     +  KG+  Y K                   G+ S+ ++  +P +         
Sbjct: 65  TNLEGYYLLYKGEFAYNKSYSNGYPYGAIKRLEKHDKGVLSSLYICFRPLNYSVSSDFLT 124

Query: 128 LLSIDVTQRIEAIC------EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
                     E             + +            IP L EQ  I   +     ++
Sbjct: 125 HYFESAVWHKEVSMISVEGARNHGLLNISVSDFFETLHLIPNLVEQTQIGNFL----KQL 180

Query: 182 DTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALV 241
           D +I    + +  LK+ K+  +  +  K      +++  G            +       
Sbjct: 181 DDMIALHQQELTTLKQTKKGFLQKMFPKEGESVPEVRFPGFTGDWEQRKLESIYEKIRNA 240

Query: 242 TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY----ETYQIVDPGEIVFRFID 297
                     +E     L   N+      RN  +         +    +  G++V     
Sbjct: 241 FVGT-ATPYYVEDGHFYLESNNVKDGQINRNTEVFINDEFYEKQKNNWLHTGDLVMVQSG 299

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQS 356
                 ++   ++           +      D  +L +  +++   K    + +G   + 
Sbjct: 300 HVGH-TAVIPEELDNTAAHALIMFSNYREKADPYFLNYQFQTHKSKKKLNNITTGNTIKH 358

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           +   ++K+  V +P  +EQ  I N       ++D  +   ++ +  LKE + +F+  
Sbjct: 359 ILASEMKKFLVDIPKYEEQKMIGNF----FKQLDDAIALHQRELDALKETKKAFLQK 411


>gi|289422992|ref|ZP_06424812.1| restriction modification system DNA specificity domain protein
           [Peptostreptococcus anaerobius 653-L]
 gi|289156566|gb|EFD05211.1| restriction modification system DNA specificity domain protein
           [Peptostreptococcus anaerobius 653-L]
          Length = 439

 Score =  116 bits (290), Expect = 6e-24,   Method: Composition-based stats.
 Identities = 56/419 (13%), Positives = 133/419 (31%), Gaps = 36/419 (8%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGT--GKYLPKDGNSRQSDT 75
           P   +   +K   +   G + +S     +    + + +++  +  G+++    +  + + 
Sbjct: 13  PDGVEYKKLKEVCRFQNGFSFKSSKFTNEGKPILRITNIQDNSISGEFVCFSKDDYKENL 72

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIA--DFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
            +  + + G  +    G    K      D     + +  +  P +        +      
Sbjct: 73  ESY-LVSPGDTVVAMSGATTGKIGYNYSDKYYYLNQRVGLFVPNESWLMKRYLFHWLSSQ 131

Query: 134 TQRIEAICEGA-TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           TQ I  +  G+    +     +    +P+PPL  Q  I   + + T+    L  E    +
Sbjct: 132 TQNIYNVSSGSGAQPNLSSVKMMEFVIPVPPLEVQREIVRILDSFTLLTAELTAELTAEL 191

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
                 ++    Y   + L P   +           P     +   ++      K  ++ 
Sbjct: 192 TAELTARKKQYDYYRDELLKPKANI-----------PMVKLKEIATSIYRGAGIKRDQVT 240

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETY----QIVDPGEIVFRFIDLQNDKRSLRSA 308
           E  I  + YG I     T        + E Y    +  + G+I+F       +  +   A
Sbjct: 241 EEGIPCVRYGEIYTTYNTWFGECVSHTKEEYVPSPKYFEHGDILFAITGESVEDIAKSIA 300

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ-SLKFEDVKRLPV 367
            V     +    + V  H  +  YLA ++ +    +         +        ++++ +
Sbjct: 301 YVGHDKCLAGGDIVVMKHEQNPRYLAHVLNTSMAREQKSKGKVKSKVVHSNVPSIEQIEI 360

Query: 368 LVPPIKEQFDITNVINVETARIDVL-------VEKIEQSIVLLKERRSSFIAAAVTGQI 419
            +PP+  Q     V++      + L       +E  ++     +      +  A TG I
Sbjct: 361 PLPPLDVQKRYAEVLDNFEKICNDLNIGLPAEIEARQKQYEFYRNL---LLTFAETGNI 416



 Score = 81.4 bits (199), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 31/189 (16%), Positives = 56/189 (29%), Gaps = 8/189 (4%)

Query: 228 VPDHWEVKPFFALVTELNR---KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET-- 282
            PD  E K    +    N    K++K        L   NI     +       +      
Sbjct: 12  CPDGVEYKKLKEVCRFQNGFSFKSSKFTNEGKPILRITNIQDNSISGEFVCFSKDDYKEN 71

Query: 283 --YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY 340
               +V PG+ V         K     +                   +   YL   + S 
Sbjct: 72  LESYLVSPGDTVVAMSGATTGKIGYNYSDKYYYLNQRVGLFVPNESWLMKRYLFHWLSSQ 131

Query: 341 DLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
                  + GSG + +L    +    + VPP++ Q +I  +++  T     L  ++   +
Sbjct: 132 TQNIYNVSSGSGAQPNLSSVKMMEFVIPVPPLEVQREIVRILDSFTLLTAELTAELTAEL 191

Query: 401 V-LLKERRS 408
              L  R+ 
Sbjct: 192 TAELTARKK 200


>gi|330721464|gb|EGG99514.1| Type I restriction-modification system2C specificity subunit S
           [gamma proteobacterium IMCC2047]
          Length = 413

 Score =  116 bits (290), Expect = 7e-24,   Method: Composition-based stats.
 Identities = 55/414 (13%), Positives = 127/414 (30%), Gaps = 31/414 (7%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           IP  W  + +                   +  +   E  T  Y     N         + 
Sbjct: 18  IPNDWLFLKLTDICN-----------PKQWRTIASNEMSTSGYPVFGANGFVGFYHEYNH 66

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
                +     G               +   + L               ++     +++I
Sbjct: 67  -EDETVAITCRGNTCGTINRIPPKTYITGNSMALDDIKSDLVSQNYLFYALKYRGVVDSI 125

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
             G+        G+  I  P PPL EQ  I   + +    I+    +  +  +L    +Q
Sbjct: 126 -SGSAQPQITGAGLKFIEFPAPPLPEQQKIAAILSSVDEVIEKTRAQIDKLKDLKTGMRQ 184

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK---NTKLIESNIL 257
            L++  V        + KDS +  + +  D   ++        +           E  + 
Sbjct: 185 ELLTKGVGH-----TEFKDSPVGRIPVGWDVVPLEKLVKAGKNITYGIVQAGPHYEGGVP 239

Query: 258 SLSYGNIIQKLETRNMGL----KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
            +   ++  +  +RN  L    +         V  G+IV+    +    + +    +   
Sbjct: 240 YIRVSDMTGRSLSRNGMLLTSPEIAEKYERSAVSSGDIVYALRGVIGHVQ-IVPKDLDGA 298

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPI 372
            +            +D+ YL W M+S  +         G   + +    ++++ +  P +
Sbjct: 299 NLTQGTARVSPNELVDTRYLLWAMKSPYVEYQNDLEAKGSTFREVTLASLRKIQIATPEL 358

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
            EQ  I +++     +I      +E  +V L+  + + +   +TG++ +  E +
Sbjct: 359 NEQKRIASILGSVELKIFA----VEDKLVHLESIKKALMQDLLTGKVRVNVEQK 408



 Score = 61.3 bits (147), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 41/214 (19%), Positives = 78/214 (36%), Gaps = 20/214 (9%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTK----LNTGRT---SESGKDIIYIGLEDVESGTG 61
           ++KDS V   G IP  W VVP+++  K    +  G           + YI + D+   TG
Sbjct: 195 EFKDSPV---GRIPVGWDVVPLEKLVKAGKNITYGIVQAGPHYEGGVPYIRVSDM---TG 248

Query: 62  KYLPKDGNSRQSDTSTVSI----FAKGQILYGKLGPYLRKAIIAD--FDGICSTQFLVLQ 115
           + L ++G    S            + G I+Y   G      I+         +     + 
Sbjct: 249 RSLSRNGMLLTSPEIAEKYERSAVSSGDIVYALRGVIGHVQIVPKDLDGANLTQGTARVS 308

Query: 116 PKDVLPELLQGWLLSIDVTQRIEAIC-EGATMSHADWKGIGNIPMPIPPLAEQVLIREKI 174
           P +++      W +     +    +  +G+T        +  I +  P L EQ  I   +
Sbjct: 309 PNELVDTRYLLWAMKSPYVEYQNDLEAKGSTFREVTLASLRKIQIATPELNEQKRIASIL 368

Query: 175 IAETVRIDTLITERIRFIELLKEKKQALVSYIVT 208
            +  ++I  +  + +    + K   Q L++  V 
Sbjct: 369 GSVELKIFAVEDKLVHLESIKKALMQDLLTGKVR 402


>gi|189463334|ref|ZP_03012119.1| hypothetical protein BACCOP_04051 [Bacteroides coprocola DSM 17136]
 gi|189429953|gb|EDU98937.1| hypothetical protein BACCOP_04051 [Bacteroides coprocola DSM 17136]
          Length = 468

 Score =  116 bits (290), Expect = 7e-24,   Method: Composition-based stats.
 Identities = 54/399 (13%), Positives = 117/399 (29%), Gaps = 22/399 (5%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESG---KDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            +P+ W     +    +  G         +    I  +D ++G   +      S     +
Sbjct: 70  EVPESWVWCKFQDCMDVRDGTHDSPKYTQEGYPLITSKDFKNGQFDFSKTRYISEVDYKN 129

Query: 77  --TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQF----LVLQPKDVLPELLQGWLLS 130
               S    G ILY  +G  +   I    D           L    ++            
Sbjct: 130 IIKRSKVDIGDILYSMIGGNIGSMIYIQHDNYFDMAIKNVALFKPYQNSDISTKYIAYFL 189

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
               +  +AI  G            N  +P+PPLAEQ  I  +I      ID +   ++ 
Sbjct: 190 ESKIKEYQAIAIGGAQPFVGLDIFRNTLVPLPPLAEQHRIITEIEKWLALIDQIEQGKVD 249

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
              ++K+ K  ++   +   L P     +  I+ +  +   +                  
Sbjct: 250 LQTIIKQTKSKILDLAIHGKLVPQDPNDEPAIKLLKRINPDFTPCDNGHSRKLPQGWAYC 309

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKP----ESYETYQIVDPGEIVF--------RFIDL 298
            + + +      +          G++       +    +++ G              I L
Sbjct: 310 QLSNVLKITMGQSPKGDSLNNKRGIEFHQGKICFSDKFLLESGIFTNEPTKIAEPNSILL 369

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLK 358
                         +  I     A+ P   +  +  +L+++        + G    +++ 
Sbjct: 370 CVRAPVGVVNITKNQICIGRGLCALTPFEGNVDFYFYLLQTLQDSFDNQSTG-TTFKAIS 428

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
            E ++   +++PP+ EQ  I   I       D +   +E
Sbjct: 429 GEIIRNENIILPPLAEQQRIVQKIEELFHVFDNIQNALE 467



 Score = 77.9 bits (190), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 30/200 (15%), Positives = 65/200 (32%), Gaps = 8/200 (4%)

Query: 227 LVPDHWEVKPFFAL--VTELNRKNTKLIESNILSLSYGNIIQKLETRNMG-----LKPES 279
            VP+ W    F     V +    + K  +     ++  +        +       +  ++
Sbjct: 70  EVPESWVWCKFQDCMDVRDGTHDSPKYTQEGYPLITSKDFKNGQFDFSKTRYISEVDYKN 129

Query: 280 YETYQIVDPGEIVFRFIDL-QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
                 VD G+I++  I         ++     +  I   A      +   ST       
Sbjct: 130 IIKRSKVDIGDILYSMIGGNIGSMIYIQHDNYFDMAIKNVALFKPYQNSDISTKYIAYFL 189

Query: 339 SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
              + +       G +  +  +  +   V +PP+ EQ  I   I    A ID + +    
Sbjct: 190 ESKIKEYQAIAIGGAQPFVGLDIFRNTLVPLPPLAEQHRIITEIEKWLALIDQIEQGKVD 249

Query: 399 SIVLLKERRSSFIAAAVTGQ 418
              ++K+ +S  +  A+ G+
Sbjct: 250 LQTIIKQTKSKILDLAIHGK 269


>gi|218247027|ref|YP_002372398.1| restriction modification system DNA specificity domain-containing
           protein [Cyanothece sp. PCC 8801]
 gi|218167505|gb|ACK66242.1| restriction modification system DNA specificity domain protein
           [Cyanothece sp. PCC 8801]
          Length = 457

 Score =  116 bits (290), Expect = 7e-24,   Method: Composition-based stats.
 Identities = 67/421 (15%), Positives = 137/421 (32%), Gaps = 30/421 (7%)

Query: 22  PKHWKVVPIKR-FTKLNTGRT-----SESGKDIIYIGLEDV-ESGTGKYLPKDGNSRQSD 74
           P  W+++P+K   T ++ G +           I  +   D+ ++G   Y           
Sbjct: 32  PPEWQLIPLKNAVTYIDYGYSHSIPKIPPENGIKIVSTADISKTGELLYSQIRKVEAPLK 91

Query: 75  TSTVSIFAKGQILYGKLGP---YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
           T        G +L+          +  I  +          VL+ K    +    +   +
Sbjct: 92  TIQRLTLHDGDVLFNWRNSSYLIGKTTIFEEQSEPHIFASFVLRLKCDEIKSHNYFFKYL 151

Query: 132 DVTQRIEAICEGATMSHADWKGIG-----NIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
               R   I E       +          ++ +P+PP+ EQ  I   +      I   I 
Sbjct: 152 LNYYRYSGIFESLARRAVNQANFNKNEVSDLIIPLPPIEEQRKIASVL----TLIQEAIQ 207

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVK---PFFALVTE 243
           E+   I L  E K+AL+  + T+G+N +   K + I  +    +   +       +  T 
Sbjct: 208 EQENAIALTTELKKALMQKLFTEGIN-NEPQKMTEIGLIPESWEVVNLGNLAKLKSGGTP 266

Query: 244 LNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES---YETYQIVDPGEIVFRFIDLQN 300
             +K       +I  +    I   L T       +      + ++   G ++        
Sbjct: 267 SRKKIEYWENGSIPWVKTTEINYDLITTTEEYITKEGLVNSSAKMFSKGTLLMAMYGQGV 326

Query: 301 DKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFE 360
            +  +    +          +        ST   +   SY   K+        + +L   
Sbjct: 327 TRGRVGILDIDATTNQACVAIMPNSEDKLSTKFLYHYFSYHYEKLRNQGHGANQSNLSST 386

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQID 420
            +K  P+  P I+EQ  I N  +    +++       + I +L++  S+ +   +T QI 
Sbjct: 387 ILKMFPITFPKIQEQLIIINHFDTLNLKLEQ----SHKRITILQDLFSTLLHQLMTAQIR 442

Query: 421 L 421
           +
Sbjct: 443 V 443



 Score = 84.8 bits (208), Expect = 3e-14,   Method: Composition-based stats.
 Identities = 33/197 (16%), Positives = 67/197 (34%), Gaps = 10/197 (5%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYLPKDGNS 70
           IG IP+ W+VV +    KL +G T    K        I ++   ++         +    
Sbjct: 242 IGLIPESWEVVNLGNLAKLKSGGTPSRKKIEYWENGSIPWVKTTEINYDLITTTEEYITK 301

Query: 71  RQSDTSTVSIFAKGQILYGKLGP--YLRKAIIADFDGICSTQFLVLQPKDVLP-ELLQGW 127
                S+  +F+KG +L    G      +  I D D   +   + + P           +
Sbjct: 302 EGLVNSSAKMFSKGTLLMAMYGQGVTRGRVGILDIDATTNQACVAIMPNSEDKLSTKFLY 361

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
                  +++     GA  S+     +   P+  P + EQ++I        ++++     
Sbjct: 362 HYFSYHYEKLRNQGHGANQSNLSSTILKMFPITFPKIQEQLIIINHFDTLNLKLEQSHKR 421

Query: 188 RIRFIELLKEKKQALVS 204
                +L       L++
Sbjct: 422 ITILQDLFSTLLHQLMT 438


>gi|253583390|ref|ZP_04860588.1| predicted protein [Fusobacterium varium ATCC 27725]
 gi|251833962|gb|EES62525.1| predicted protein [Fusobacterium varium ATCC 27725]
          Length = 507

 Score =  116 bits (290), Expect = 7e-24,   Method: Composition-based stats.
 Identities = 70/466 (15%), Positives = 157/466 (33%), Gaps = 70/466 (15%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
            IP++W+ V + +   + TG T           K+I ++   D+          +    +
Sbjct: 26  EIPENWEWVKLGKVNNVITGSTPSKANEKYWENKNIFFVKPSDLYQK-RNLKSSEEYIDE 84

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL--LS 130
                V I  K   L   +G    K   ++ +   + Q   L PK  +   L  +    S
Sbjct: 85  RARDNVRILPKYSTLICCIGSI-GKVAYSEVEVSTNQQINSLVPKKEIIFSLYNYYVANS 143

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
                ++       T++  +     N+  P+PPL EQ  I EK+ +   +I+        
Sbjct: 144 NFFQSQMLNSAVATTIAILNKTNTENLRFPLPPLEEQKRIVEKLDSMFEKINRAKELIQE 203

Query: 191 FIELLKEKKQALVSYIVTKGLNPDV----------------------------------- 215
             E ++ +K+++++      L  +                                    
Sbjct: 204 AKENIENRKESILNKAFRGELTVEWRKNNQTEDAIELLKSINDEKIKNWEQECVEAEKNG 263

Query: 216 -------------KMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNT-KLIESNILSLSY 261
                         M  S  E    +P  W+      ++    +K    + E+  +S   
Sbjct: 264 KKKPSKPKIEDIQNMIISKEEEPYEIPSKWKWVKLEYIIEINPKKKMLNIDENEKISFLP 323

Query: 262 GNIIQKLETRNMGLKPESYET----YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI-- 315
              I  +      ++ ESY      Y      +I+F  I    +      A+ ++  I  
Sbjct: 324 MRSISDITGEISNIEYESYSKLKKGYTQFLENDILFAKITPCMENGKCVIAKNLKNEIGY 383

Query: 316 -ITSAYMAVKPHGIDSTYLAWLMRSYDLCKV--FYAMGSGLRQSLKFEDVKRLPVLVPPI 372
             T  ++    + +++ +L   +R     +   +   GS   + +  E +K     +PP+
Sbjct: 384 GTTEFHVLRTNYILNNKFLHNFLRQESFRQEAKYNMTGSVGFRRVPTEFLKEYMFPLPPL 443

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           +EQ +I  +++    + +  ++++ +    ++    S +  A  G+
Sbjct: 444 EEQKEIVRILDEILEK-ESKIKELVELEEAIELLEKSILDKAFRGK 488



 Score = 87.2 bits (214), Expect = 4e-15,   Method: Composition-based stats.
 Identities = 30/208 (14%), Positives = 71/208 (34%), Gaps = 12/208 (5%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNT------KLIESNILSLSYGNIIQKLETRNMGLK 276
           E    +P++WE      +   +                NI  +   ++ QK   ++    
Sbjct: 22  EQPYEIPENWEWVKLGKVNNVITGSTPSKANEKYWENKNIFFVKPSDLYQKRNLKSSEEY 81

Query: 277 PESY--ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
            +    +  +I+     +   I                + I +   +  K   I S Y  
Sbjct: 82  IDERARDNVRILPKYSTLICCIGSIGKVAYSEVEVSTNQQINS---LVPKKEIIFSLYNY 138

Query: 335 WLMRSYDLCKV-FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
           ++  S         +  +     L   + + L   +PP++EQ  I   ++    +I+   
Sbjct: 139 YVANSNFFQSQMLNSAVATTIAILNKTNTENLRFPLPPLEEQKRIVEKLDSMFEKINRAK 198

Query: 394 EKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           E I+++   ++ R+ S +  A  G++ +
Sbjct: 199 ELIQEAKENIENRKESILNKAFRGELTV 226


>gi|312977435|ref|ZP_07789183.1| phosphoribosylformylglycinamidine synthase [Lactobacillus crispatus
           CTV-05]
 gi|310895866|gb|EFQ44932.1| phosphoribosylformylglycinamidine synthase [Lactobacillus crispatus
           CTV-05]
          Length = 480

 Score =  116 bits (290), Expect = 8e-24,   Method: Composition-based stats.
 Identities = 63/416 (15%), Positives = 135/416 (32%), Gaps = 59/416 (14%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSES-----GKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
            IP  W+ V +     L  G+T +           Y  ++D+ +    Y+    N     
Sbjct: 73  DIPDSWEWVRLGDVGLLKNGKTPKKEDISSDNIYPYFKVKDMNNNNL-YMENVKNWVGEK 131

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPK---DVLPELLQGWLLSI 131
            S   +  K  I++    P    AI+     I S   LV           +L   ++  +
Sbjct: 132 YS-RQVMPKNTIIF----PKNGGAILTAKKRILSQDSLVDLNTGGLIPYNDLNHKFIFYL 186

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            ++  I+   +G+ +   + K +    +P+PPL EQ  I  KI      +  + +   ++
Sbjct: 187 FLSLDIKDFVKGSAVPTINSKKLKETLVPLPPLEEQSRIAAKIAQLFALLRKVESSTQQY 246

Query: 192 IELLKEKKQALVSYIVTKGL---NPDVK----------------------------MKDS 220
            +L    K  ++   +   L   +P  +                               +
Sbjct: 247 AKLQTLLKSKVLDLAMRGKLVEQDPHDEPASVLLEKIKAEKRKMIKEKEIKKSKPLPPIT 306

Query: 221 GIEWVGLVPDHWEVKPFFA------LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMG 274
             E    +PD WE              T     N+   +  I +++           N  
Sbjct: 307 DEEKPFDIPDSWEWVRLGNIAKRITDGTHNPPPNSHEGKQVISAINIKKGKIDFSLSNRF 366

Query: 275 LKPE---SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST 331
           +  +     +    +  G+++   +    +   +      ++       +AV    I S 
Sbjct: 367 VSEDQFLKEDKRTNIRKGDVLLTIVGSLGNAAVV----DTDKLFTAQRSVAVISSNILSK 422

Query: 332 YLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
           +L +++ S       +A   G  ++ +    +  L + +PP+ EQ  I + I+   
Sbjct: 423 FLYYVLISAMFKTQIFANAKGTTQKGIYLSKLINLKLPLPPLAEQNRIVDKIDNLF 478



 Score = 77.1 bits (188), Expect = 5e-12,   Method: Composition-based stats.
 Identities = 30/204 (14%), Positives = 71/204 (34%), Gaps = 9/204 (4%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
           +  E    +PD WE      +    N K  K  + +  ++     ++ +   N+ ++   
Sbjct: 66  TDDEKPFDIPDSWEWVRLGDVGLLKNGKTPKKEDISSDNIYPYFKVKDMNNNNLYMENVK 125

Query: 280 YE-----TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
                  + Q++    I+F            R         + +  +    + ++  ++ 
Sbjct: 126 NWVGEKYSRQVMPKNTIIFPKNGGAILTAKKRILSQDSLVDLNTGGLIPY-NDLNHKFIF 184

Query: 335 WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
           +L  S D+             ++  + +K   V +PP++EQ  I   I    A +  +  
Sbjct: 185 YLFLSLDIKDFVK---GSAVPTINSKKLKETLVPLPPLEEQSRIAAKIAQLFALLRKVES 241

Query: 395 KIEQSIVLLKERRSSFIAAAVTGQ 418
             +Q   L    +S  +  A+ G+
Sbjct: 242 STQQYAKLQTLLKSKVLDLAMRGK 265


>gi|297205945|ref|ZP_06923340.1| type Ic restriction-modification system [Lactobacillus jensenii
           JV-V16]
 gi|297149071|gb|EFH29369.1| type Ic restriction-modification system [Lactobacillus jensenii
           JV-V16]
          Length = 428

 Score =  116 bits (290), Expect = 8e-24,   Method: Composition-based stats.
 Identities = 65/405 (16%), Positives = 138/405 (34%), Gaps = 29/405 (7%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIG----LEDVESGTGKYLPKDGNSRQS---DTST 77
           WK V +    ++  G T  +     + G        E G   YL +            S+
Sbjct: 38  WKKVKLGDVAEIIGGGTPSTSNLEYWDGNINWFTPTEVGKTIYLHESQRKLSELGLKKSS 97

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
             +   G IL+          II +     +  F  +QP   + +    + LS  + +  
Sbjct: 98  ARLLNPGAILFTSRAGIGNTGIIINPSA-TNQGFQSIQPNKNIIDSYFIFCLSSRLKRYA 156

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
                G+T +      +    + I    EQ  I   I +    +     +     +L + 
Sbjct: 157 LKHSAGSTFTEISGSEMKKAKIRICAKNEQNKISTCIKSLDSLLSLQQRKLELENQLKQF 216

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
             Q L S    + L P V+ +     W        +       V  + RKN  L  +  L
Sbjct: 217 NLQNLFSD--EQRLYPKVRFRGFDEPW--------KKVKLGRNVKRIRRKNKNLETNIPL 266

Query: 258 SLS-YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS-LRSAQVMERGI 315
           ++S    ++ + +     +  E+   Y ++  GE  +     +      ++  +    G 
Sbjct: 267 TISAQFGLVDQRDFFGRVVASENLANYILLKRGEFAYNKSYSKEAPYGSIKRLEKYNEGA 326

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQ----SLKFEDVKRLPVLVP 370
           +++ Y+A  P  I+S +L     +         + + G R     ++  +D   + + +P
Sbjct: 327 LSTLYIAFTPENINSDFLKAFFDTTKWYSHIVQVSTEGARNHGLLNISPQDFFEMSITIP 386

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
              EQ +I+ + N+     + L+   +Q I   ++ +   +    
Sbjct: 387 KSDEQNNISRIYNLM----NSLLSLQQQDINTTQQLKQFLLQNLF 427



 Score = 57.1 bits (136), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 29/233 (12%), Positives = 74/233 (31%), Gaps = 21/233 (9%)

Query: 204 SYIVTKGLNPDVKMKDSGIEW----VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
           ++   + L P V+ +     W    +G V +            E    N        +  
Sbjct: 18  THADEQRLYPKVRFRGFDEPWKKVKLGDVAEIIGGGTPSTSNLEYWDGNINWFTPTEVGK 77

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
           +      + +   +GLK     + ++++PG I+F       +   + +     +G  +  
Sbjct: 78  TIYLHESQRKLSELGLK---KSSARLLNPGAILFTSRAGIGNTGIIINPSATNQGFQS-- 132

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
                   I  +Y  + + S                 +   ++K+  + +    EQ  I+
Sbjct: 133 --IQPNKNIIDSYFIFCLSSRLKRYALKHSAGSTFTEISGSEMKKAKIRICAKNEQNKIS 190

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG------QIDLRGESQ 426
             I      +D L+   ++ + L  + +   +    +       ++  RG  +
Sbjct: 191 TCI----KSLDSLLSLQQRKLELENQLKQFNLQNLFSDEQRLYPKVRFRGFDE 239


>gi|298736552|ref|YP_003729078.1| type I restriction enzyme subunit S [Helicobacter pylori B8]
 gi|298355742|emb|CBI66614.1| type I restriction enzyme, S subunit [Helicobacter pylori B8]
          Length = 442

 Score =  116 bits (289), Expect = 9e-24,   Method: Composition-based stats.
 Identities = 50/428 (11%), Positives = 129/428 (30%), Gaps = 43/428 (10%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           PK  +   ++   ++  G T             I +  +ED+            +     
Sbjct: 13  PKGVEFKTLEEVFEIKNGYTPSKNNLEFWKNGTIPWFRMEDLRENGRILKDSIQHITPKA 72

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP---ELLQGWLLSI 131
                +F K  I+          A++   D + + +F  L  K       ++   +    
Sbjct: 73  LKGKKLFPKNSIIISTTATIGEHALLI-VDSLANQRFTFLSKKANCNLALDMKFFFYQCF 131

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            + +  +     +  +  D         PIPPL  Q  I + + A T          ++ 
Sbjct: 132 LLGEWCKNNINVSGFASVDMTAFKKYKFPIPPLEVQQEIVKILDAFTELNTE-----LKA 186

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLV---------PDHWEVKPFFALVT 242
            +   E  Q ++        N     +    +              P   E +    +  
Sbjct: 187 RKKQYEYYQNMLLDFKDIKQNHKDAKEKLAQKTYPKRLKTLLQTLAPKGVEFRKLGDIGE 246

Query: 243 ELNR-------KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRF 295
                        ++  +  +  ++  N  Q        ++    E    +  G+++F  
Sbjct: 247 FYGGLVGKNKKSFSQGNKFYVPYINVFNNPQLDLNALESVQIGDKEKQNTIQLGDVLFTG 306

Query: 296 ID------LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
                     +   + +  + +        +     +  + ++L   +R Y+  K    +
Sbjct: 307 SSENLEDCAMSCVVTQKIEKDIYLNSFCFGFRFFDENLFNPSFLKHFLRDYNFRKNISKV 366

Query: 350 GSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE--- 405
            +G  R ++  + + ++ + +PP++ Q +I  +++  +     L+  I   I   K+   
Sbjct: 367 ANGVTRFNVSKQLLSKITIPIPPLEIQQEIVKILDQFSILTTDLLAGIPAEIKARKKQYE 426

Query: 406 -RRSSFIA 412
             R   + 
Sbjct: 427 YYREKLLT 434


>gi|199599710|ref|ZP_03213071.1| restriction modification system DNA specificity domain
           [Lactobacillus rhamnosus HN001]
 gi|199589396|gb|EDY97541.1| restriction modification system DNA specificity domain
           [Lactobacillus rhamnosus HN001]
          Length = 420

 Score =  116 bits (289), Expect = 9e-24,   Method: Composition-based stats.
 Identities = 66/405 (16%), Positives = 148/405 (36%), Gaps = 27/405 (6%)

Query: 25  WKVVPIKRFTK-LNTGRT---SESGKDIIYIGLEDVESGTGKYLPKDGNS--RQSDTSTV 78
           W    +   +   + G      E      Y+ + D++  +  +LP+   S     +  T 
Sbjct: 24  WVQRNLADLSDGFSYGLNAAAKEYDGVHGYLRITDIDEVSHSFLPEGLTSPDVPENQLTD 83

Query: 79  SIFAKGQILYGKLGPYLRKAIIA----DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
               +  I+Y + G    K  I                    K+   + +    L+    
Sbjct: 84  YRMDEQSIVYARTGASTGKTYIYRDSDGELYYAGFLIRQKVNKETSAQFVYQNTLTKAWE 143

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           + ++ + + +     + + +G   + IP  AEQ    +KI      +D LI    R ++L
Sbjct: 144 RYVQVMSQRSGQPGINAQEVGRFELTIPEKAEQ----DKIAHLFNSLDNLIAANQRKLDL 199

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK-NTKLIE 253
           LKE+K+  +  +  K  +   +++ +G        +  ++    +  T L  K       
Sbjct: 200 LKEQKKGYLQKMFPKNGSKFPQLRFAG---FADAWEQRKLGELGSTFTGLTGKTKEDFGH 256

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQI-VDPGEIVFRFIDLQNDKRSLRSAQ--V 310
            +   ++Y N+ Q        L     +  Q  V  G++ F       ++  + S     
Sbjct: 257 GDAKFVTYMNVFQNAVASLEQLDSVEIDPKQNEVKKGDVFFTTSSETPEEVGMSSVWKYN 316

Query: 311 MERGIITSAYMAVKPHG-IDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVL 368
            +   + S     +P+   D  YLA ++RS  + K    +  G+ R ++    +  + V 
Sbjct: 317 YDNVYLNSFTFGYRPNIEFDLDYLAAMLRSTTVRKKITFLAQGISRYNISKTKMMDIEVP 376

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           VP ++EQ  I   +    + ++  +   ++ +  L+E +  ++  
Sbjct: 377 VPSLEEQAKIGAFL----SNVEQTITLHQRKLEKLQELKKGYLQK 417


>gi|21674692|ref|NP_662757.1| type I restriction system specificity protein [Chlorobium tepidum
           TLS]
 gi|21647899|gb|AAM73099.1| type I restriction system specificity protein [Chlorobium tepidum
           TLS]
          Length = 474

 Score =  116 bits (289), Expect = 9e-24,   Method: Composition-based stats.
 Identities = 58/427 (13%), Positives = 132/427 (30%), Gaps = 56/427 (13%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           +   +    +L  GR              D+ S +G+Y   +G    S  +    +++ +
Sbjct: 17  EWKALGEIIQLEKGRQLNK----------DLLSSSGRYPAYNGGMSYSGFTDSYNYSENK 66

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
            +  + G               +    V+ P   + +    +       +R+ +   GA 
Sbjct: 67  TIISQGGASAGFVNFVTTKFYANAHCYVVLPDTEVVDNRYIYHFLKLNEERLTSCQHGAG 126

Query: 146 MSHADWKGIGNIPMPIPP-------LAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
           +       I ++ +PIP        LA Q  I   + A T     L  E     +     
Sbjct: 127 IPALRASEITSLKIPIPCPDNPKKSLAIQAEIVRILDAFTELTAELTAELTARKKQYAYY 186

Query: 199 KQALVSYIVTKGLNP-------------------DVKMKDSGIEWVGLVPDHWEVKPFFA 239
           +  L+++      +P                         S  E     P     +    
Sbjct: 187 RDRLLTFTTPPYGHPSKGGELFSLFGHPSEGGELFTPYGHSVEERELNSPSLKGWQAQPD 246

Query: 240 LVTELNRKNTKLIESNIL---------------SLSYG----NIIQKLETRNMGLKPESY 280
            V  +  K    +   I                 + YG    +           + PE  
Sbjct: 247 GVVPVEWKTLGEVGHFIRGSGIQKSDFKASGVGCIHYGQIHTHYGTWTTETKSFIDPEFA 306

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY 340
              +   PG++V       +D  +   A +    +  S    +  H  +  Y+++  ++ 
Sbjct: 307 NRLKKAKPGDLVIATTSEDDDAVAKAVAWIGTEDVAVSTDAYIFRHTANPKYMSYFFQTD 366

Query: 341 DLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
              +      +G   + +  +++ ++ + +PP+ EQ  I  +++   A  + L E + + 
Sbjct: 367 MFQEQKKPYITGTKVRRISGDNLAKILIPIPPLAEQERIVAILDQFDALTNSLTEGLPRE 426

Query: 400 IVLLKER 406
           I L +++
Sbjct: 427 IELRQKQ 433



 Score = 63.7 bits (153), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 28/201 (13%), Positives = 62/201 (30%), Gaps = 13/201 (6%)

Query: 19  GAIPKHWKVVPIKRFTKLNTG----RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           G +P  W    +        G    ++      +  I    + +  G +  +  +    +
Sbjct: 247 GVVPVEW--KTLGEVGHFIRGSGIQKSDFKASGVGCIHYGQIHTHYGTWTTETKSFIDPE 304

Query: 75  TSTV-SIFAKGQILYGKLGPYLRKA-----IIADFDGICSTQFLVLQPKDVLPELLQGWL 128
            +        G ++                 I   D   ST   + +     P+ +  + 
Sbjct: 305 FANRLKKAKPGDLVIATTSEDDDAVAKAVAWIGTEDVAVSTDAYIFR-HTANPKYMSYFF 363

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
            +    ++ +    G  +       +  I +PIPPLAEQ  I   +       ++L    
Sbjct: 364 QTDMFQEQKKPYITGTKVRRISGDNLAKILIPIPPLAEQERIVAILDQFDALTNSLTEGL 423

Query: 189 IRFIELLKEKKQALVSYIVTK 209
            R IEL +++       + + 
Sbjct: 424 PREIELRQKQYAYYRDLLFSF 444



 Score = 57.1 bits (136), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 14/149 (9%), Positives = 44/149 (29%), Gaps = 10/149 (6%)

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
            N G+    +         + +           +  + +           +      +D+
Sbjct: 47  YNGGMSYSGFTDSYNYSENKTIISQGGASAGFVNFVTTKFYANAHC--YVVLPDTEVVDN 104

Query: 331 TYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-------PIKEQFDITNVIN 383
            Y+   ++  +        G+G+  +L+  ++  L + +P        +  Q +I  +++
Sbjct: 105 RYIYHFLKLNEERLTSCQHGAGI-PALRASEITSLKIPIPCPDNPKKSLAIQAEIVRILD 163

Query: 384 VETARIDVLVEKIEQSIVLLKERRSSFIA 412
             T     L  ++          R   + 
Sbjct: 164 AFTELTAELTAELTARKKQYAYYRDRLLT 192


>gi|146281033|ref|YP_001171186.1| hypothetical protein PST_0638 [Pseudomonas stutzeri A1501]
 gi|145569238|gb|ABP78344.1| conserved hypothetical protein [Pseudomonas stutzeri A1501]
          Length = 215

 Score =  116 bits (289), Expect = 9e-24,   Method: Composition-based stats.
 Identities = 46/178 (25%), Positives = 83/178 (46%), Gaps = 9/178 (5%)

Query: 257 LSLSYGNIIQKL----ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
             +SYG++ +      E   +       +    ++ G++ F       D+    +  + E
Sbjct: 23  PFVSYGDVYKNDVLPAEVTGLVQSSPEDQQRYSIEYGDVFFTRTSETVDEIGFSATCLQE 82

Query: 313 --RGIITSAYMAVKP--HGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPV 367
               +     +  +P    +   +  +  R+  L   F    +   R SL  + +K LPV
Sbjct: 83  LPNAVFAGFLIRFRPTGKSLTPGFSKYYFRNQGLRIFFNKEMNLVTRASLSQDLLKLLPV 142

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGES 425
            +PP+ EQ  I++ ++  TA    L+E+  ++I LLKERRS+ I+AAVTG+ID+RG  
Sbjct: 143 TLPPVVEQIKISDFLDRVTAEFASLLEQGIKAIDLLKERRSALISAAVTGKIDVRGWQ 200



 Score = 44.0 bits (102), Expect = 0.048,   Method: Composition-based stats.
 Identities = 30/194 (15%), Positives = 69/194 (35%), Gaps = 12/194 (6%)

Query: 31  KRFTKLNTGRTSES---GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI-FAKGQI 86
           +   +   G        G    ++   DV           G  + S           G +
Sbjct: 2   RYLGECQNGINIGGEAFGSGSPFVSYGDVYKNDVLPAEVTGLVQSSPEDQQRYSIEYGDV 61

Query: 87  LYGKLGPYLRKAIIADFD------GICSTQFLVLQP--KDVLPELLQGWLLSIDVTQRIE 138
            + +    + +   +          + +   +  +P  K + P   + +  +  +     
Sbjct: 62  FFTRTSETVDEIGFSATCLQELPNAVFAGFLIRFRPTGKSLTPGFSKYYFRNQGLRIFFN 121

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
                 T +      +  +P+ +PP+ EQ+ I + +   T    +L+ + I+ I+LLKE+
Sbjct: 122 KEMNLVTRASLSQDLLKLLPVTLPPVVEQIKISDFLDRVTAEFASLLEQGIKAIDLLKER 181

Query: 199 KQALVSYIVTKGLN 212
           + AL+S  VT  ++
Sbjct: 182 RSALISAAVTGKID 195


>gi|227499338|ref|ZP_03929450.1| restriction modification system DNA specificity domain protein
           [Anaerococcus tetradius ATCC 35098]
 gi|227218591|gb|EEI83829.1| restriction modification system DNA specificity domain protein
           [Anaerococcus tetradius ATCC 35098]
          Length = 495

 Score =  116 bits (289), Expect = 9e-24,   Method: Composition-based stats.
 Identities = 68/451 (15%), Positives = 142/451 (31%), Gaps = 62/451 (13%)

Query: 2   KHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES---------GKDIIYIG 52
           K  K  P+  +  + +   IP+ WK V +    +   G   ++           DI +I 
Sbjct: 50  KKQKPLPEITEEEIPF--DIPESWKWVRLGDVFQFINGDRGKNYPAKSKLKENGDIPFIS 107

Query: 53  LEDVESGTGK---YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAII-ADFDGICS 108
             +++ GT      L  D N  +   S   +  K  I+    G   +  I   +   I S
Sbjct: 108 AINLKDGTVDENNLLYLDINQYERLGSGKLL--KNDIVLCIRGSLGKNCIYPFEKGAIAS 165

Query: 109 TQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQV 168
           +  ++   K +  E +  +L S       +    G    +   +    I +P+PPL EQ 
Sbjct: 166 SLVILRNYKKIKLEFVLNYLNSYLFYSETKKYDNGTAQPNLSAQNAKKILLPLPPLKEQE 225

Query: 169 LIREKIIAETVRIDTLITERIRFIELLKEKK----QALVSYIVTKGLNPDVKMKDSGIEW 224
            I EKI    + +D          +L K+      ++L+   +   L    K + +G E 
Sbjct: 226 RIVEKIEDLMLLVDKYGKNWQMLEDLNKKFPEDLKKSLLQEAIKGRLVEQRKEEGTGEEL 285

Query: 225 V-------------------------------GLVPDHWEVKPFFAL---VTELNRKNTK 250
                                             +P+ W+      +   +T+   K   
Sbjct: 286 FELIKEEKNKLIKEGKIKKQKPLPEITEEEIPFDIPESWKWVRLGEITLKLTDGAHKTPT 345

Query: 251 LIESNILSLSYGNIIQKLETR-----NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
                I  LS  +I                + +        + G+++   +        +
Sbjct: 346 YTNEGIPFLSVKDISSGKIDYSSCRFISKKEHDKLFERCNPERGDLLLTKVGTTGIPVVI 405

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKR 364
                     ++ A +      I+  +L  L+ S  +         G+  ++    D+  
Sbjct: 406 -DTDEEFSLFVSVALLKFPKKLINIYFLKHLINSPLVQVQVKENTRGVGNKNWVMRDIAN 464

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEK 395
             + +PP+ EQ  +   +       + +++ 
Sbjct: 465 TIIPLPPLAEQKRLVEKLEELLPLCEQVIKN 495



 Score = 72.1 bits (175), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 41/246 (16%), Positives = 87/246 (35%), Gaps = 20/246 (8%)

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR-- 246
               +L++E+K  L+     K   P  ++  +  E    +P+ W+      +   +N   
Sbjct: 30  EELYKLIQEEKNKLIKEGKVKKQKPLPEI--TEEEIPFDIPESWKWVRLGDVFQFINGDR 87

Query: 247 ------KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQN 300
                 K+      +I  +S  N+       N  L       Y+ +  G+++   I L  
Sbjct: 88  GKNYPAKSKLKENGDIPFISAINLKDGTVDEN-NLLYLDINQYERLGSGKLLKNDIVLCI 146

Query: 301 DKRSLRSAQVMER--GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM-GSGLRQSL 357
                ++         I +S  +      I   ++   + SY              + +L
Sbjct: 147 RGSLGKNCIYPFEKGAIASSLVILRNYKKIKLEFVLNYLNSYLFYSETKKYDNGTAQPNL 206

Query: 358 KFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL-----KERRSSFIA 412
             ++ K++ + +PP+KEQ  I   I      +D    K  Q +  L     ++ + S + 
Sbjct: 207 SAQNAKKILLPLPPLKEQERIVEKIEDLMLLVDKY-GKNWQMLEDLNKKFPEDLKKSLLQ 265

Query: 413 AAVTGQ 418
            A+ G+
Sbjct: 266 EAIKGR 271


>gi|331000344|ref|ZP_08324025.1| type I restriction modification DNA specificity domain protein
           [Parasutterella excrementihominis YIT 11859]
 gi|329572140|gb|EGG53805.1| type I restriction modification DNA specificity domain protein
           [Parasutterella excrementihominis YIT 11859]
          Length = 417

 Score =  116 bits (289), Expect = 1e-23,   Method: Composition-based stats.
 Identities = 68/407 (16%), Positives = 137/407 (33%), Gaps = 37/407 (9%)

Query: 25  WKVVPIKRFT-KLNTGRTSESGK------DIIYIGLEDVESGT--GKYLPKDGNSRQSDT 75
           W+   ++    K   G T  +        +I +I   D+E        + K  +      
Sbjct: 18  WEQRKLEELASKFTGGGTPNTSNPNYWNGEIPWIQSSDLEEDDVLSLTVKKHISQEGLKN 77

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
           S   I  K  ++        +  +        S  FL L         L   L S+    
Sbjct: 78  SAAKIIPKNSLVIVTRVGVGKLVVNTQEIA-TSQDFLSLSGIKGNSRFLAYSLYSLLKKI 136

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
                 +G ++            + +P L EQ  I   ++         IT   R +   
Sbjct: 137 TQR--VQGTSIKGITKTDFLKEAIFVPSLEEQEKISSCMVEVDKL----ITLHQRKLNRF 190

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
           ++ +   +  +  K       ++ +G          WE +        + RKN K   + 
Sbjct: 191 QKIRTTFLQKMFPKNGETKPAIRLTG------FNADWEQEKLQNFAVRITRKNIKKQNNR 244

Query: 256 ILSLS-YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRF-IDLQNDKRSLRSAQVMER 313
            L++S    ++ +    N  +  +    Y ++  GE  +           ++R     E 
Sbjct: 245 PLTISAQHGLVDQTVYFNNRVAAQDVSNYYLIKKGEFAYNRSTSKDAPVGAVRRLVDYEE 304

Query: 314 GIITSAYMAV---KPHGIDSTYLAWLMRSYDLC-KVFYAMGSGLRQ----SLKFEDVKRL 365
           G++++ Y+      P  +D  YL++   +      +      G R     ++  +D   L
Sbjct: 305 GVLSTLYLVFSITDPQHVDPNYLSYFFETTGWHSWILERAAEGARNHGLLNVSSQDFLSL 364

Query: 366 PVLVPP-IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
           PV++P  ++EQ  I         +ID  +  +E+   LLK+ +SS +
Sbjct: 365 PVMLPSSLEEQQKIGEF----FQKIDDCIILLERQADLLKQIKSSLL 407



 Score = 71.7 bits (174), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 29/202 (14%), Positives = 69/202 (34%), Gaps = 5/202 (2%)

Query: 212 NPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETR 271
           N  VK++  G           E+   F      N  N       I  +   ++ +     
Sbjct: 4   NKSVKIRFKGFTEAWEQRKLEELASKFTGGGTPNTSNPNYWNGEIPWIQSSDLEEDDVLS 63

Query: 272 NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST 331
               K  S E  +      I    + +       +     +    +  ++++     +S 
Sbjct: 64  LTVKKHISQEGLKNSAAKIIPKNSLVIVTRVGVGKLVVNTQEIATSQDFLSLSGIKGNSR 123

Query: 332 YLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
           +LA+ + S  L K+   +     + +   D  +  + VP ++EQ  I    +     +D 
Sbjct: 124 FLAYSLYSL-LKKITQRVQGTSIKGITKTDFLKEAIFVPSLEEQEKI----SSCMVEVDK 178

Query: 392 LVEKIEQSIVLLKERRSSFIAA 413
           L+   ++ +   ++ R++F+  
Sbjct: 179 LITLHQRKLNRFQKIRTTFLQK 200


>gi|256843209|ref|ZP_05548697.1| restriction modification system DNA specificity subunit
           [Lactobacillus crispatus 125-2-CHN]
 gi|293382104|ref|ZP_06628050.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus crispatus 214-1]
 gi|256614629|gb|EEU19830.1| restriction modification system DNA specificity subunit
           [Lactobacillus crispatus 125-2-CHN]
 gi|290921339|gb|EFD98395.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus crispatus 214-1]
          Length = 480

 Score =  116 bits (289), Expect = 1e-23,   Method: Composition-based stats.
 Identities = 63/416 (15%), Positives = 134/416 (32%), Gaps = 59/416 (14%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSES-----GKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
            IP  W+ V +     L  G+T +           Y  ++D+ +    Y+    N     
Sbjct: 73  DIPDSWEWVRLGDVGLLKNGKTPKKEDISSDNIYPYFKVKDMNNNNL-YMENVKNWVGEK 131

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPK---DVLPELLQGWLLSI 131
            S   +  K  I++    P    AI+     I S   LV           +L   ++  +
Sbjct: 132 YS-RQVMPKNTIIF----PKNGGAILTAKKRILSQDSLVDLNTGGLIPYNDLNHKFIFYL 186

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            ++  I+   +G+ +   + K +    +P+PPL EQ  I  KI      +  + +   ++
Sbjct: 187 FLSLDIKDFVKGSAVPTINSKKLKETLVPLPPLEEQSRIAAKIAQLFALLRKVESSTQQY 246

Query: 192 IELLKEKKQALVSYIVTKGL---NPDVK----------------------------MKDS 220
            +L    K  ++   +   L   +P  +                               +
Sbjct: 247 AKLQTLLKSKVLDLAMRGKLVEQDPHDEPASVLLEKIKAEKRKMIKEKEIKKSKPLPPIT 306

Query: 221 GIEWVGLVPDHWEVKPFFA------LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMG 274
             E    +PD WE              T     N+   +  I +++           N  
Sbjct: 307 DEEKPFDIPDSWEWVRLGNIAKRITDGTHNPPPNSHEGKQVISAINIKKGKIDFSLSNRF 366

Query: 275 LKPE---SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST 331
           +  +     +    +  G+++   +    +   +      ++       +AV    I S 
Sbjct: 367 VSEDQFLKEDKRTNIRKGDVLLTIVGSLGNAAVV----DTDKLFTAQRSVAVISSNILSK 422

Query: 332 YLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
           +L +++ S       +A   G  ++ +    +  L + +PP+ EQ  I   I+   
Sbjct: 423 FLYYVLISAMFKTQIFANAKGTTQKGIYLSKLINLKLPLPPLAEQNRIVAKIDNLF 478



 Score = 77.1 bits (188), Expect = 5e-12,   Method: Composition-based stats.
 Identities = 30/204 (14%), Positives = 71/204 (34%), Gaps = 9/204 (4%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
           +  E    +PD WE      +    N K  K  + +  ++     ++ +   N+ ++   
Sbjct: 66  TDDEKPFDIPDSWEWVRLGDVGLLKNGKTPKKEDISSDNIYPYFKVKDMNNNNLYMENVK 125

Query: 280 YE-----TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
                  + Q++    I+F            R         + +  +    + ++  ++ 
Sbjct: 126 NWVGEKYSRQVMPKNTIIFPKNGGAILTAKKRILSQDSLVDLNTGGLIPY-NDLNHKFIF 184

Query: 335 WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
           +L  S D+             ++  + +K   V +PP++EQ  I   I    A +  +  
Sbjct: 185 YLFLSLDIKDFVK---GSAVPTINSKKLKETLVPLPPLEEQSRIAAKIAQLFALLRKVES 241

Query: 395 KIEQSIVLLKERRSSFIAAAVTGQ 418
             +Q   L    +S  +  A+ G+
Sbjct: 242 STQQYAKLQTLLKSKVLDLAMRGK 265


>gi|260660505|ref|ZP_05861420.1| hypothetical protein HMPREF0974_00007 [Lactobacillus jensenii
           115-3-CHN]
 gi|260548227|gb|EEX24202.1| hypothetical protein HMPREF0974_00007 [Lactobacillus jensenii
           115-3-CHN]
          Length = 423

 Score =  116 bits (289), Expect = 1e-23,   Method: Composition-based stats.
 Identities = 65/405 (16%), Positives = 138/405 (34%), Gaps = 29/405 (7%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIG----LEDVESGTGKYLPKDGNSRQS---DTST 77
           WK V +    ++  G T  +     + G        E G   YL +            S+
Sbjct: 33  WKKVKLGDVAEIIGGGTPSTSNLEYWDGNINWFTPTEVGKTIYLHESQRKLSELGLKKSS 92

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
             +   G IL+          II +     +  F  +QP   + +    + LS  + +  
Sbjct: 93  ARLLNPGAILFTSRAGIGNTGIIINPSA-TNQGFQSIQPNKNIIDSYFIFCLSSRLKRYA 151

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
                G+T +      +    + I    EQ  I   I +    +     +     +L + 
Sbjct: 152 LKHSAGSTFTEISGSEMKKAKIRICAKNEQNKISTCIKSLDSLLSLQQRKLELENQLKQF 211

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
             Q L S    + L P V+ +     W        +       V  + RKN  L  +  L
Sbjct: 212 NLQNLFSD--EQRLYPKVRFRGFDEPW--------KKVKLGRNVKRIRRKNKNLETNIPL 261

Query: 258 SLS-YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS-LRSAQVMERGI 315
           ++S    ++ + +     +  E+   Y ++  GE  +     +      ++  +    G 
Sbjct: 262 TISAQFGLVDQRDFFGRVVASENLANYILLKRGEFAYNKSYSKEAPYGSIKRLEKYNEGA 321

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQ----SLKFEDVKRLPVLVP 370
           +++ Y+A  P  I+S +L     +         + + G R     ++  +D   + + +P
Sbjct: 322 LSTLYIAFTPENINSDFLKAFFDTTKWYSHIVQVSTEGARNHGLLNISPQDFFEMSITIP 381

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
              EQ +I+ + N+     + L+   +Q I   ++ +   +    
Sbjct: 382 KSDEQNNISRIYNLM----NSLLSLQQQDINTTQQLKQFLLQNLF 422



 Score = 57.1 bits (136), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 29/233 (12%), Positives = 74/233 (31%), Gaps = 21/233 (9%)

Query: 204 SYIVTKGLNPDVKMKDSGIEW----VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
           ++   + L P V+ +     W    +G V +            E    N        +  
Sbjct: 13  THADEQRLYPKVRFRGFDEPWKKVKLGDVAEIIGGGTPSTSNLEYWDGNINWFTPTEVGK 72

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
           +      + +   +GLK     + ++++PG I+F       +   + +     +G  +  
Sbjct: 73  TIYLHESQRKLSELGLK---KSSARLLNPGAILFTSRAGIGNTGIIINPSATNQGFQS-- 127

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
                   I  +Y  + + S                 +   ++K+  + +    EQ  I+
Sbjct: 128 --IQPNKNIIDSYFIFCLSSRLKRYALKHSAGSTFTEISGSEMKKAKIRICAKNEQNKIS 185

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG------QIDLRGESQ 426
             I      +D L+   ++ + L  + +   +    +       ++  RG  +
Sbjct: 186 TCI----KSLDSLLSLQQRKLELENQLKQFNLQNLFSDEQRLYPKVRFRGFDE 234


>gi|291278717|ref|YP_003495552.1| type I restriction-modification system, S subunit [Deferribacter
           desulfuricans SSM1]
 gi|290753419|dbj|BAI79796.1| type I restriction-modification system, S subunit [Deferribacter
           desulfuricans SSM1]
          Length = 388

 Score =  115 bits (288), Expect = 1e-23,   Method: Composition-based stats.
 Identities = 64/415 (15%), Positives = 135/415 (32%), Gaps = 43/415 (10%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +PK WK V +     +N     + G     + +E +      +  K         +   
Sbjct: 4   KVPKGWKRVKLGDVAVINPSEILKKGTLAKKVPMEALH----PFTKKISIYEIKPFNGGV 59

Query: 80  IFAKGQILYGKLGPYLRK-------AIIADFDGICSTQFLVLQPKDVLPELLQGWLL--S 130
            F  G  L  ++ P L          +  +  G  ST+F+VL+ K  L +    +    S
Sbjct: 60  KFRNGDTLVARITPSLENGKTAYVDILEENEIGFGSTEFIVLREKKGLSDSHFLYYFAIS 119

Query: 131 IDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
            +          G+T         + N     PPL+EQ  I   + +   +ID       
Sbjct: 120 PEFRDVAIKSMTGSTGRQRVQTDVVFNYKFLFPPLSEQKAIASVLSSLDDKID------- 172

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTE-LNRKN 248
               LL+ + Q L           +   +   IE      +   +      +     +K 
Sbjct: 173 ----LLQRQNQTLEQMA-------ETLFRKWFIEDAKEDWEEKPLDTIANFLNGLACQKY 221

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
                 + L +     ++   + N         +  IV  G+++F +         +   
Sbjct: 222 PPKNNFDKLPVLKIKELKNGFSENSDWATSDVPSEYIVVNGDVIFSWSGSL-----IVKI 276

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV-FYAMGSGLRQSLKFEDVKRLPV 367
              E+ ++      V        +  + ++ Y    +      +     +K +D+ +  V
Sbjct: 277 WDGEKCVLNQHLFKVTSEKYPKWFYYFWIKYYLQQFITIAESKATTMGHIKRDDLSKALV 336

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
           LVPP +E       ++ E +     +  I   I  L + R + +   ++G++ ++
Sbjct: 337 LVPPDEELLK----MDKEISPFIEKIIAINNQIRTLAKLRDTLLPKLMSGEVRVK 387


>gi|292493382|ref|YP_003528821.1| restriction modification system DNA specificity domain protein
           [Nitrosococcus halophilus Nc4]
 gi|291581977|gb|ADE16434.1| restriction modification system DNA specificity domain protein
           [Nitrosococcus halophilus Nc4]
          Length = 431

 Score =  115 bits (288), Expect = 1e-23,   Method: Composition-based stats.
 Identities = 51/423 (12%), Positives = 130/423 (30%), Gaps = 34/423 (8%)

Query: 24  HWKVVPIKRFTKLNTGRTS----------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
            W    + R   +  G T           E  +   ++ + D+         +   +   
Sbjct: 3   DWAEEQLGRLASIEIGGTPAREVAEYWAREEDEGHPWVSIADLGPRIVFDTKERITNAGI 62

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
             S      KG ++       + +  IA  D   +     + P D   +    +    D 
Sbjct: 63  LNSNAKRVPKGTLMMS-FKLTIGRVGIAGRDLYINEAIATIIPTDGRLDGRFLYYALPDT 121

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            +          ++    K  G +      L EQ  I E +      +D  I      I 
Sbjct: 122 ARSAITDTAVKGVTLNKQKLGGLLIRFPERLDEQQRIAEIL----STVDEAIEHTEALIA 177

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIE--------WVGLVPDHWEVKPFFAL----- 240
            +++ K  L+  + T+G+ PD +++    E         +G +P  W+ +    +     
Sbjct: 178 KMQQIKAGLMHDLFTRGVTPDGQLRPPREEAPRLYKKSPLGWIPREWDTELLDNIALRGS 237

Query: 241 VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQN 300
               ++ + +     I  +S  +  +      +    +  +         +    I + +
Sbjct: 238 GHTPSKNHPEYWNGEIKWISLADSWRLDRVHIVDTDHKITQAGIENSSAVVHPAGIVVLS 297

Query: 301 DKRSLRSAQVME-RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKF 359
               +  + V      ++  +M  +     + Y  +    Y   +           ++  
Sbjct: 298 RDAGVGKSAVTTCEMAVSQHFMCWRCGPRLNNYYLYYWLQYRKWEFENIATGSTIPTIGL 357

Query: 360 EDVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
              +   + +P  + EQ  I   +     ++  L + +      L++ R+  +   +TG+
Sbjct: 358 RFFRHYRINIPLEVSEQEHIAATLLAADEKVFSLEDDV----GKLRQLRAGLMHDLLTGR 413

Query: 419 IDL 421
           + +
Sbjct: 414 VPV 416



 Score = 70.6 bits (171), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 29/211 (13%), Positives = 61/211 (28%), Gaps = 16/211 (7%)

Query: 217 MKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK 276
           M D   E +G +            V E   +        +     G  I       +   
Sbjct: 1   MCDWAEEQLGRLASIEIGGTPAREVAEYWAREEDEGHPWVSIADLGPRIVFDTKERITNA 60

Query: 277 PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWL 336
                  + V  G ++  F               +   I T   +      +D  +L + 
Sbjct: 61  GILNSNAKRVPKGTLMMSFKLTIGRVGIAGRDLYINEAIAT---IIPTDGRLDGRFLYYA 117

Query: 337 MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP-IKEQFDITNVINVETARIDVLVEK 395
           +       +      G+  +L  + +  L +  P  + EQ  I  +++      D  +E 
Sbjct: 118 LPDTARSAITDTAVKGV--TLNKQKLGGLLIRFPERLDEQQRIAEILSTV----DEAIEH 171

Query: 396 IEQSIVLLKERRSSFIAAAVT------GQID 420
            E  I  +++ ++  +    T      GQ+ 
Sbjct: 172 TEALIAKMQQIKAGLMHDLFTRGVTPDGQLR 202



 Score = 61.3 bits (147), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 34/209 (16%), Positives = 70/209 (33%), Gaps = 15/209 (7%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLED---VESGT 60
           YK S    +G IP+ W    +       +G T           +I +I L D   ++   
Sbjct: 212 YKKSP---LGWIPREWDTELLDNIALRGSGHTPSKNHPEYWNGEIKWISLADSWRLDRVH 268

Query: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL 120
                        + S+  +   G I+       + K+ +   +   S  F+  +    L
Sbjct: 269 IVDTDHKITQAGIENSSAVVHPAG-IVVLSRDAGVGKSAVTTCEMAVSQHFMCWRCGPRL 327

Query: 121 PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETV 179
                 +          E I  G+T+     +   +  + IP  ++EQ  I   ++A   
Sbjct: 328 NN-YYLYYWLQYRKWEFENIATGSTIPTIGLRFFRHYRINIPLEVSEQEHIAATLLAADE 386

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVT 208
           ++ +L  +  +  +L       L++  V 
Sbjct: 387 KVFSLEDDVGKLRQLRAGLMHDLLTGRVP 415


>gi|208780346|ref|ZP_03247687.1| conserved hypothetical protein [Francisella novicida FTG]
 gi|208743714|gb|EDZ90017.1| conserved hypothetical protein [Francisella novicida FTG]
          Length = 396

 Score =  115 bits (288), Expect = 1e-23,   Method: Composition-based stats.
 Identities = 60/411 (14%), Positives = 132/411 (32%), Gaps = 28/411 (6%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD---IIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            +PK WK + +   T       +    D   I  I  + +  G         ++     +
Sbjct: 5   ELPKGWKAIELGEITSYVNRGVAPKYTDEHGITVINQKCIREGNINLELARVHNPDKKYT 64

Query: 77  TVSIFAKGQILYGKLG-PYLRKAIIA--DFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
                  G IL    G     +  I     + I  T   +++           +      
Sbjct: 65  AEKQLHLGDILINSTGVGTAGRVGIFTDSINAIVDTHVSIVRLNKEYAYPKFVYYNLRFR 124

Query: 134 TQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
            + +E   EG+T         I ++ + +PPLAEQ  I E +      +D  I    +  
Sbjct: 125 EKELEETAEGSTGQIELKRDAIKSLNILLPPLAEQKAIAEVL----SSLDDKIDLLHKQN 180

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           + L++  Q L      +  +           W  +                  ++     
Sbjct: 181 QTLEDMAQTLFREWFIERADEG---------WEEVPLSEVADIKIGRTPPRKEKQWFSND 231

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
             ++  +S  ++ Q+    N   +  + E  +      IV   + L       R     E
Sbjct: 232 PKDVKWISIKDMGQEGVFINGTSEYLTQEAVEKFKIPIIVKNTVILSFKMTLGRVKITGE 291

Query: 313 RGIITSAYMAVK--PHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP 370
             +   A          + + YL   +++Y    +     S +  S+    +K + +++P
Sbjct: 292 NMLSNEAIAHFNITNDKLYNEYLYLFLKTYPYQTL--GSTSSIVTSINSAMIKNILIILP 349

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
             K +     VI+    +    ++  ++ I  L++ R + +   ++GQ+ +
Sbjct: 350 DFKVKKSFKEVISPMFEK----IQNNQKQIKTLEQTRDTLLPKLMSGQVRV 396


>gi|237750145|ref|ZP_04580625.1| HsdS [Helicobacter bilis ATCC 43879]
 gi|229374332|gb|EEO24723.1| HsdS [Helicobacter bilis ATCC 43879]
          Length = 413

 Score =  115 bits (288), Expect = 1e-23,   Method: Composition-based stats.
 Identities = 55/409 (13%), Positives = 124/409 (30%), Gaps = 32/409 (7%)

Query: 23  KHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYL--PKDGNSRQSD 74
           + W+ V +    ++ +G T ++        +I ++ + D  +G    +   K        
Sbjct: 20  EQWQEVRLGEVAEIVSGGTPKTSIPEYWNGEIPWLSVADFNNGKKYVVASEKFITQLGLQ 79

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
            S+  +  +  I+    G     A+I        + + +             +      T
Sbjct: 80  ESSTKLLQRDDIIISARGTVGVIAMIPYPMAFNQSCYGLRICS--NAHSHFIYYCLKVFT 137

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           +       GA       K + +    +PPL  Q  I E + +   +ID L  +      L
Sbjct: 138 KYFIHQSYGAVFDTITTKILSDFTFLLPPLTIQQKIAEILSSFDDKIDLLHRQNKTLESL 197

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
                +     I     +   +   S I  +     +                   L   
Sbjct: 198 ALTLFRHYF--IDNPKRDEWEEKPLSEIAEI----QNGYAFKNSDYAERGMETYEVLKMG 251

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER- 313
           +I S        K       +K     T  +++  +IV    D+++    L    ++++ 
Sbjct: 252 HIESGGGLRYFPKAHY----VKINDKMTKWVLNEDDIVLAMTDMKDSLGILGYPAMVDKS 307

Query: 314 --GIITSAYMAVKPHGIDSTYLAWLM-----RSYDLCKVFYAMGSGLRQSLKFEDVKRLP 366
              ++      +     D     + +        ++ K+      G++ +L  E +K   
Sbjct: 308 NYYVLNQRVARIYLKSKDDFLHNYFLFLYLSLQENIQKLQSLANGGVQVNLSTEAIKNFT 367

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           + +PP++ Q       N     I    +   + I  L+  R   + A  
Sbjct: 368 ITIPPLEFQSQ----NNQAFINIIKKYKNNRKQIQNLQAMRDMLLKAIF 412


>gi|162280800|gb|ABX83062.1| hypothetical protein [Staphylococcus aureus]
 gi|163568097|gb|ABY27021.1| hypothetical protein [Staphylococcus aureus]
 gi|163568120|gb|ABY27028.1| hypothetical protein [Staphylococcus aureus]
 gi|163568152|gb|ABY27035.1| hypothetical protein [Staphylococcus aureus]
          Length = 399

 Score =  115 bits (288), Expect = 1e-23,   Method: Composition-based stats.
 Identities = 63/403 (15%), Positives = 142/403 (35%), Gaps = 37/403 (9%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            W++  IK    + +G T            +I ++   D+ +       +         +
Sbjct: 18  EWEMKIIKELFNVVSGSTPLRSNTSYYENGNIPWVKTTDLNNSLINDTSEKVTDIA--LN 75

Query: 77  TVSIFAKGQILYGKLGPY--LRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
            + +  K  +L    G +  + +  I +     +     L  K           L+ +V 
Sbjct: 76  NLKVLPKDTVLIAMYGGFNQIGRTGILNIKATTNQAISALIKKGNYNSKFLQSYLNFNVK 135

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           Q            +   + I    +P   L EQ    EKI     +ID  I    + ++L
Sbjct: 136 QWRRFAASSRKDPNITKRDIEKFKIPYTCLEEQ----EKIGGFFSKIDRQIELEEKKLDL 191

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
           L+++K+  +  I ++ L           +  G    +W+     +++ E  RK       
Sbjct: 192 LEQQKRGYMQKIFSQEL--------RFKDENGNKYPNWQTVKIGSILKE--RKERSGDGE 241

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
            +       I++  E        +    Y+ V   +I +  + +               G
Sbjct: 242 MLSVTINHGIVKFDEIDRKDNSSKDKSNYKKVYKNDIAYNSMRMWQGASGKAEFD----G 297

Query: 315 IITSAYMAVKP-HGIDSTYLAWLMRSYDLCKVFYAMGSGLR---QSLKFEDVKRLPVLVP 370
           I++ AY  V P   I+S ++A+  +++++   F     GL     +LK++ +K + + + 
Sbjct: 298 IVSPAYTVVTPIENINSNFIAYYFKTHNMIHKFRINSQGLTSDTWNLKYKQLKDIKISIC 357

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
             +EQ  I +++      +D  ++K    + +L   +   +  
Sbjct: 358 SKEEQDKIADLL----TILDTRIKKQNHKLEILNINKKGLLQK 396



 Score = 71.7 bits (174), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 22/179 (12%), Positives = 62/179 (34%), Gaps = 4/179 (2%)

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
              +     NI  +   ++   L         +       V P + V   +    ++   
Sbjct: 39  SNTSYYENGNIPWVKTTDLNNSLINDTSEKVTDIALNNLKVLPKDTVLIAMYGGFNQIGR 98

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRL 365
                ++     +    +K    +S +L   +         +A  S    ++   D+++ 
Sbjct: 99  TGILNIKATTNQAISALIKKGNYNSKFLQSYLNFNVKQWRRFAASSRKDPNITKRDIEKF 158

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGE 424
            +    ++EQ  I        ++ID  +E  E+ + LL++++  ++    + ++  + E
Sbjct: 159 KIPYTCLEEQEKIGGF----FSKIDRQIELEEKKLDLLEQQKRGYMQKIFSQELRFKDE 213



 Score = 63.3 bits (152), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 31/183 (16%), Positives = 60/183 (32%), Gaps = 7/183 (3%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           +W+ V I    K    R+     +++ + +        +   KD +    D S      K
Sbjct: 220 NWQTVKIGSILKERKERS--GDGEMLSVTINHGIVKFDEIDRKDNS--SKDKSNYKKVYK 275

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
             I Y  +  +   +  A+FDGI S  + V+ P + +      +            I   
Sbjct: 276 NDIAYNSMRMWQGASGKAEFDGIVSPAYTVVTPIENINSNFIAYYFKTHNMIHKFRINSQ 335

Query: 144 ---ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
              +   +  +K + +I + I    EQ  I + +     RI     +        K   Q
Sbjct: 336 GLTSDTWNLKYKQLKDIKISICSKEEQDKIADLLTILDTRIKKQNHKLEILNINKKGLLQ 395

Query: 201 ALV 203
            + 
Sbjct: 396 KMF 398


>gi|307250672|ref|ZP_07532609.1| Type I restriction-modification system, S subunit [Actinobacillus
           pleuropneumoniae serovar 4 str. M62]
 gi|306857280|gb|EFM89399.1| Type I restriction-modification system, S subunit [Actinobacillus
           pleuropneumoniae serovar 4 str. M62]
          Length = 435

 Score =  115 bits (288), Expect = 1e-23,   Method: Composition-based stats.
 Identities = 64/434 (14%), Positives = 128/434 (29%), Gaps = 71/434 (16%)

Query: 27  VVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPK---DGNSRQSDTS 76
            V +    ++  G T ++ +D       I +I   D++  +GKY+ K   +       +S
Sbjct: 2   WVRLDFLGEIIGGGTPKTNEDDNWNKGSIPWITPADMKYISGKYISKGNRNITENGLRSS 61

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
           +  + +K  I+Y    P      I + +   +  F  +   +    +   +   I  T  
Sbjct: 62  STRLLSKNSIVYSSRAPI-GYIAITETELCTNQGFKSIDLYNKE-IVDYLYYSLIYFTPE 119

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           I++   G T         GN  +P+PPL EQ  I  KI      I+    +  +   L +
Sbjct: 120 IQSRASGTTFKEISGTAFGNTIIPLPPLNEQKRIVVKIEELLPYIEQYAEKEEKLTALHQ 179

Query: 197 EKK----QALVSYIVTKGLNPDVKM----------------------------------- 217
           +      ++++   +   L                                         
Sbjct: 180 QFPEQLKKSILQAAIQGKLTKQDPNDEPALVLIERIKAEKLRLIAEKKLKKPKVVSEIIL 239

Query: 218 -------------KDSGIEWVGLVPDHWEVKPFFALVTE------LNRKNTKLIESNILS 258
                        +    E    +P++W       +            +        I  
Sbjct: 240 RDNLPYEIINGEERCIADEVPFEIPENWCWVRLGEIGNWGAGATPNRHEPKYYENGTIPW 299

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
           L  G++   + T       E       V    +    I +            +E     +
Sbjct: 300 LKTGDLNDGIITEIPEYITELAIEKTSVKLNPVGSVLIAMYGATIGKLGILNIEATTNQA 359

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
               +   GI + YL + + S        + GSG + ++  E +      +PP+ EQ  I
Sbjct: 360 CCACIPYTGIYNKYLFYYLMSQKTELQKRSEGSG-QPNISKEKIVNYLFPLPPLNEQKCI 418

Query: 379 TNVINVETARIDVL 392
              I    + +  L
Sbjct: 419 VEKIETLFSTLQNL 432



 Score = 86.0 bits (211), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 33/171 (19%), Positives = 60/171 (35%), Gaps = 8/171 (4%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPKDGNSRQ 72
            IP++W  V +        G T    +        I ++   D+  G    +P+      
Sbjct: 262 EIPENWCWVRLGEIGNWGAGATPNRHEPKYYENGTIPWLKTGDLNDGIITEIPEYITELA 321

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
            + ++V +   G +L    G  + K  I + +   +       P   +      + L   
Sbjct: 322 IEKTSVKLNPVGSVLIAMYGATIGKLGILNIEATTNQACCACIPYTGIYNKYLFYYLMSQ 381

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
            T+  +   EG+   +   + I N   P+PPL EQ  I EKI      +  
Sbjct: 382 KTELQKRS-EGSGQPNISKEKIVNYLFPLPPLNEQKCIVEKIETLFSTLQN 431



 Score = 73.7 bits (179), Expect = 5e-11,   Method: Composition-based stats.
 Identities = 24/198 (12%), Positives = 56/198 (28%), Gaps = 13/198 (6%)

Query: 233 EVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGE-- 290
                  L   +     K  E +  +      I   + + +  K  S     I + G   
Sbjct: 1   MWVRLDFLGEIIGGGTPKTNEDDNWNKGSIPWITPADMKYISGKYISKGNRNITENGLRS 60

Query: 291 -----IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV 345
                +    I   +       A           + ++  +  +     +    Y   ++
Sbjct: 61  SSTRLLSKNSIVYSSRAPIGYIAITETELCTNQGFKSIDLYNKEIVDYLYYSLIYFTPEI 120

Query: 346 FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL-- 403
                    + +         + +PP+ EQ  I   I      I+    + E+ +  L  
Sbjct: 121 QSRASGTTFKEISGTAFGNTIIPLPPLNEQKRIVVKIEELLPYIEQY-AEKEEKLTALHQ 179

Query: 404 ---KERRSSFIAAAVTGQ 418
              ++ + S + AA+ G+
Sbjct: 180 QFPEQLKKSILQAAIQGK 197


>gi|160914345|ref|ZP_02076564.1| hypothetical protein EUBDOL_00353 [Eubacterium dolichum DSM 3991]
 gi|160915331|ref|ZP_02077543.1| hypothetical protein EUBDOL_01339 [Eubacterium dolichum DSM 3991]
 gi|158432722|gb|EDP11011.1| hypothetical protein EUBDOL_01339 [Eubacterium dolichum DSM 3991]
 gi|158433818|gb|EDP12107.1| hypothetical protein EUBDOL_00353 [Eubacterium dolichum DSM 3991]
          Length = 517

 Score =  115 bits (288), Expect = 1e-23,   Method: Composition-based stats.
 Identities = 70/433 (16%), Positives = 132/433 (30%), Gaps = 71/433 (16%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDI----IYIGLEDVESGTGKYLPKDGNSRQSDT 75
            IP +W+ V I    +   G+T    KDI     Y+   +++S                 
Sbjct: 88  EIPDNWEWVHINDIAESYLGKTLNKTKDIGESVPYLCSINIQSDYIDMNTIKIAKFNEAE 147

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFL--VLQPKDVLPELLQGWLLSIDV 133
               +   G +L  + G   R A+      +     L  V   + + P   Q  L    V
Sbjct: 148 KQKYLLQDGDLLICEGGDAGRSAVWNKNKTMYYQNALHRVRFYEKLNPVFYQRVLSFYKV 207

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
           ++ ++   +G T+ H   K + +I  P+PPL EQ  I  K+      I+       +  E
Sbjct: 208 SKILDNYFKGVTIKHFVQKSLFSIYFPLPPLQEQHRIVAKLQELEPLIEKYRIAEEQLHE 267

Query: 194 LL----KEKKQALVSYIVTKGLNPDVKM-------------------------------- 217
           L      + K++++ Y +   L P                                    
Sbjct: 268 LNSNIKDQLKKSILQYAIEGKLVPQDPNDEPASVLLERIREEKQQLIKEGKIKKDKNESI 327

Query: 218 ----------KDSGIEWV------GLVPDHWEVKPFFALVTE------LNRKNTKLIESN 255
                     K +GIE+         +P+ W+      +             N       
Sbjct: 328 IFRRDNSYYEKINGIEYCIDNEIPFEIPNSWQWARLNNIGNWGAGATPSKSNNEYYSNGT 387

Query: 256 ILSLSYGNIIQKLETRNMGLKPE---SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
           I  L  G++     T       E      + ++   G ++         K  + +     
Sbjct: 388 IPWLLTGDLNDGYITNIPNHITELALEKTSVKLNPSGSVLIAMYGATIGKLGILTFPATT 447

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI 372
                +  +        S YL + + +            G + ++  E + +  + VPP+
Sbjct: 448 NQACCACLV---YKPFYSKYLFFYLLANK-RNFVKKGEGGAQPNISKEKIIKTLIAVPPL 503

Query: 373 KEQFDITNVINVE 385
           KEQ  I N++   
Sbjct: 504 KEQIRIVNLLGKV 516



 Score = 66.4 bits (160), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 30/213 (14%), Positives = 69/213 (32%), Gaps = 15/213 (7%)

Query: 218 KDSGIEWVGLVPDHWEVKPFFALVTELNRK---NTKLIESNILSLSYGNIIQKLETRNMG 274
           +    E    +PD+WE      +      K    TK I  ++  L   NI       N  
Sbjct: 79  RCIEDELPFEIPDNWEWVHINDIAESYLGKTLNKTKDIGESVPYLCSINIQSDYIDMNTI 138

Query: 275 LK---PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST 331
                 E+ +   ++  G+++                + M      + +       ++  
Sbjct: 139 KIAKFNEAEKQKYLLQDGDLLICEGGDAGRSAVWNKNKTMYYQ--NALHRVRFYEKLNPV 196

Query: 332 YLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
           +   ++  Y + K+      G   +    + +  +   +PP++EQ  I   +      I+
Sbjct: 197 FYQRVLSFYKVSKILDNYFKGVTIKHFVQKSLFSIYFPLPPLQEQHRIVAKLQELEPLIE 256

Query: 391 VLVEKIEQSIVLLK-----ERRSSFIAAAVTGQ 418
                 E+ +  L      + + S +  A+ G+
Sbjct: 257 KYR-IAEEQLHELNSNIKDQLKKSILQYAIEGK 288


>gi|254440097|ref|ZP_05053591.1| Type I restriction modification DNA specificity domain protein
           [Octadecabacter antarcticus 307]
 gi|198255543|gb|EDY79857.1| Type I restriction modification DNA specificity domain protein
           [Octadecabacter antarcticus 307]
          Length = 410

 Score =  115 bits (288), Expect = 1e-23,   Method: Composition-based stats.
 Identities = 62/427 (14%), Positives = 125/427 (29%), Gaps = 41/427 (9%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKL--NTGRTSE---SGKDIIYIGLEDVESGT-GKY 63
           Y+ S V   G IP  W+V  +    +     G   E    GK    I + D+  G+    
Sbjct: 9   YRLSEV---GVIPDDWEVSTLANLAEYPMQNGVFFEANRKGKGCPMINVGDLYGGSPIPV 65

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGI-------CSTQFLVLQP 116
              +      D         G + + +           +   I         +  +  +P
Sbjct: 66  GFLERFDASPDEQKRFQVNDGDLFFTRSSIVPSGIAQCNHVSIAEGDTVVFDSHVIRYRP 125

Query: 117 KDVLPELLQGWLLS--IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKI 174
              + + L  +      +  + + +  +  TM+  D + +   P+  PPL EQ  I E +
Sbjct: 126 NPKIIDALFLFRACTASNTRRYLISHAKTGTMTTIDQRVLSACPITFPPLPEQRAIAEAL 185

Query: 175 IAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEV 234
                 I  L     +  +L +   Q L++               SG EW        + 
Sbjct: 186 SDADALIAALEAMIAKKRDLKQAAMQQLLT-------GKTRLPGFSG-EW-----KVSQQ 232

Query: 235 KPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFR 294
           +     +        +   S        N+    E             Y +   G++++ 
Sbjct: 233 QDVITFINGRAYGRHEWETSGTPVCRLQNLTGSGEKFYYSKLVLPERQYML--EGDLIYM 290

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR 354
           +              +    I    +              +         +   MG    
Sbjct: 291 WSASFGPHIWTGPRAIFHYHI----WKLECDTEEVDRQFYYYKLVEITEALQATMGGSTM 346

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAA 414
             L    +++  V +PPI+EQ  I  V++      D  +  +E      +  +   +   
Sbjct: 347 LHLTKTGMEKFLVNLPPIEEQTAIAEVLSDM----DADLAALEARAAKARTVKQGMMQEL 402

Query: 415 VTGQIDL 421
           +TG++ L
Sbjct: 403 LTGKVRL 409



 Score = 83.7 bits (205), Expect = 5e-14,   Method: Composition-based stats.
 Identities = 31/198 (15%), Positives = 64/198 (32%), Gaps = 12/198 (6%)

Query: 235 KPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFR 294
            P    V     +  K      +   YG     +            +    V+ G++ F 
Sbjct: 32  YPMQNGVFFEANRKGKGCPMINVGDLYGGSPIPVGFLERFDASPDEQKRFQVNDGDLFFT 91

Query: 295 FIDLQNDKRS---LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR----SYDLCKVFY 347
              +     +     S    +  +  S  +  +P+      L +L R    S     +  
Sbjct: 92  RSSIVPSGIAQCNHVSIAEGDTVVFDSHVIRYRPNPKIIDAL-FLFRACTASNTRRYLIS 150

Query: 348 AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
              +G   ++    +   P+  PP+ EQ  I   ++      D L+  +E  I   ++ +
Sbjct: 151 HAKTGTMTTIDQRVLSACPITFPPLPEQRAIAEALSDA----DALIAALEAMIAKKRDLK 206

Query: 408 SSFIAAAVTGQIDLRGES 425
            + +   +TG+  L G S
Sbjct: 207 QAAMQQLLTGKTRLPGFS 224


>gi|198283099|ref|YP_002219420.1| restriction modification system DNA specificity protein
           [Acidithiobacillus ferrooxidans ATCC 53993]
 gi|198247620|gb|ACH83213.1| restriction modification system DNA specificity domain
           [Acidithiobacillus ferrooxidans ATCC 53993]
          Length = 426

 Score =  115 bits (288), Expect = 1e-23,   Method: Composition-based stats.
 Identities = 60/415 (14%), Positives = 130/415 (31%), Gaps = 29/415 (6%)

Query: 23  KHWKVVPIKRFTK-LNTGRTSESGK------DIIYIGLEDVESG-TGKYLPKDGNSRQSD 74
             W+   +        +G T  + +      +  +I  + +          K  +     
Sbjct: 18  SDWQKTTVGEIASGFLSGGTPSTSRADFWEGENPWITSKWLGDKLELTTGEKFVSEGAVK 77

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQF--LVLQPKDVLPELLQGWLLSID 132
            +   I  K  I++      + K  I   D   +     +++  +    + L   L    
Sbjct: 78  KTATKIVPKDSIIFAT-RVGVGKVGINRIDLAINQDLAGVLIDNERYDIKFLAYQLGIDS 136

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           + Q +     GAT+       +  I + +PPL EQ  I   +      +   I  + R I
Sbjct: 137 IQQYVAMNKRGATIKGITRDCLEQIRLNLPPLPEQKKIAHIL----STVQRAIEAQERII 192

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           +   E K+AL+  + T+GL  +   K + I  +    +  E+      +T    K     
Sbjct: 193 QTTTELKKALMHKLFTEGL-RNEPQKQTEIGPIPESWEVVEIGDLGKCITGSTPKTKVDS 251

Query: 253 ESNILSLSYG-----NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
             +  +  +         + +      + PE   T + +    ++   I     K  +  
Sbjct: 252 FYDPPTEDFIAPADLGARRYVYDSEKKISPEGMATIRPIPRNAVMCVCIGSSIGKVGMSY 311

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
               E         ++           + + SY           G    L       + V
Sbjct: 312 R---EESATNQQINSIICGEGRDPEFVYCLLSYRSDYWKSFATFGPVPILSKGRFSTIGV 368

Query: 368 LVPP-IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            +P  + EQ  I   +      ++  VE  E+ + +LK+   + +   +T +  +
Sbjct: 369 PIPSSLDEQQAIAKPLVA----LETKVEVAEKKVTVLKDLFRTLLHELMTAKTRV 419



 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 33/201 (16%), Positives = 72/201 (35%), Gaps = 10/201 (4%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIG-----LEDVESGTGKYLP 65
           K +    IG IP+ W+VV I    K  TG T ++  D  Y       +   + G  +Y+ 
Sbjct: 217 KQTE---IGPIPESWEVVEIGDLGKCITGSTPKTKVDSFYDPPTEDFIAPADLGARRYVY 273

Query: 66  KDGNSRQ-SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELL 124
                      +T+    +  ++   +G  + K  ++  +   + Q +         +  
Sbjct: 274 DSEKKISPEGMATIRPIPRNAVMCVCIGSSIGKVGMSYREESATNQQINSIICGEGRDPE 333

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRIDT 183
             + L    +   ++      +          I +PIP  L EQ  I + ++A   +++ 
Sbjct: 334 FVYCLLSYRSDYWKSFATFGPVPILSKGRFSTIGVPIPSSLDEQQAIAKPLVALETKVEV 393

Query: 184 LITERIRFIELLKEKKQALVS 204
              +     +L +     L++
Sbjct: 394 AEKKVTVLKDLFRTLLHELMT 414


>gi|296453351|ref|YP_003660494.1| type I restriction-modification system specificity determinant
           [Bifidobacterium longum subsp. longum JDM301]
 gi|296182782|gb|ADG99663.1| type I restriction-modification system specificity determinant
           [Bifidobacterium longum subsp. longum JDM301]
          Length = 409

 Score =  115 bits (288), Expect = 1e-23,   Method: Composition-based stats.
 Identities = 49/407 (12%), Positives = 123/407 (30%), Gaps = 32/407 (7%)

Query: 22  PKHWKVVPIKRFTKLNTG----RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           P   +  P+    KL  G    +   + K I  I    + +    +  +  +      + 
Sbjct: 13  PNGVERKPLGAIAKLYRGNGLQKKDFTDKGIGCIHYGQIYTRYDTFTSQTISFVDKKLAD 72

Query: 78  VSI-FAKGQILYGKLGP----YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
             +      ++            +         I +    ++       + L  +  ++D
Sbjct: 73  KLLKVHPNDLIVTATSENLEDVCKAVAWLGGSDIVTGGHSIVVRHHQNAKYLSYYFQTLD 132

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
             QR  A   G  +       +  I +P+PPL  Q  I   + + +     L  E    +
Sbjct: 133 FFQRKRAYVHGTKVMEIKKDDLAKIVVPVPPLPVQEEIVRILDSFSSLEAELEAELEAEL 192

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           E  +++     + ++T      +      I                      + K     
Sbjct: 193 EARRKQYAYYRNELLTFDRERVITACIQDI------------CTRICSGGTPSSKRHDYY 240

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPES---YETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
           + N+  L   +I   +  +      +        Q +    ++         K ++ S  
Sbjct: 241 DGNVPWLRTQDIDFNVINQTSATISDEGLKNSAAQWIPANCVIVAMYGATAAKVAVNSIP 300

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
           +       +  + +     D  Y+   + +    +   A+G G + ++  + V+  P+ +
Sbjct: 301 LTTNQACCN--LQIDESKADVRYVFHWLSNEY--EHLKALGEGSQSNINAKKVRLYPISL 356

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIV----LLKERRSSFIA 412
           PP +EQ  I ++++      + L   +   I       +  R   ++
Sbjct: 357 PPFEEQQRIVSILDRFDKLTNDLSSGLPAEIEARHKQYEYYRDRLLS 403


>gi|20090963|ref|NP_617038.1| type I site-specific deoxyribonuclease [Methanosarcina acetivorans
           C2A]
 gi|19916047|gb|AAM05518.1| type I site-specific deoxyribonuclease [Methanosarcina acetivorans
           C2A]
          Length = 487

 Score =  115 bits (288), Expect = 1e-23,   Method: Composition-based stats.
 Identities = 54/466 (11%), Positives = 126/466 (27%), Gaps = 60/466 (12%)

Query: 14  GVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
            +  +  +P+ W  + +    +L  G++    +           +G  ++        + 
Sbjct: 11  EISELPKLPEGWVWIRLDSAGELFCGQSPSIAEVNQEKRGVPYVTGPEQWDGSKIKETKW 70

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
                 +  +G I     G  + K                  P   +    +  L +I  
Sbjct: 71  TEFPKRLVPEGCIFITVKGAGVGKI-FPGVSCAIGRDIYAFLPSSKVD--FKYTLHAIKH 127

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
              +  +     +       I +  + +  L EQ  I  KI      +D  I       E
Sbjct: 128 QIDVLIMKAQGDIPGLSKNHILDHVIGLCSLEEQRAIVFKIEQLFSELDNGIANLKLAQE 187

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGL-------------------------- 227
            LK  +QA++       L    + +   +   G                           
Sbjct: 188 QLKVYRQAVLKKAFEGELTKKWREQQVDLPDAGELLERIRKEREEVAKDTGKKVKIIKPP 247

Query: 228 ----------VPDHWEVKPFFALVTELNRKNTK-------LIESNILSLSYGNII---QK 267
                     +P  W       L      K+         L       +  G +      
Sbjct: 248 TNAELVELPMIPKEWMWVKLDYLGDLGRGKSKHRPRNDKTLFGGKYPFIQTGEVKAANHT 307

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
           +++             ++   G +         +   L         I+    +      
Sbjct: 308 IKSFEKTYSDVGLAQSKLWPKGTLCITIAANIAETAFLGFEGCFPDSIVGFTAI---ESL 364

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           +   Y+ +  ++       +A     ++++    ++ L + +  + EQ DI   I    +
Sbjct: 365 VGKEYVYYFFKANQSKIESFAPA-TAQKNINLNILENLLIPLCSLPEQQDIVQEIETRLS 423

Query: 388 RIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI-------DLRGESQ 426
             D + + IE ++   +  R S +  A  G++       ++RG   
Sbjct: 424 VCDKIEQDIETNLEKAEALRQSILKKAFEGKLLNERELEEVRGAED 469


>gi|189463339|ref|ZP_03012124.1| hypothetical protein BACCOP_04056 [Bacteroides coprocola DSM 17136]
 gi|189429958|gb|EDU98942.1| hypothetical protein BACCOP_04056 [Bacteroides coprocola DSM 17136]
          Length = 389

 Score =  115 bits (288), Expect = 1e-23,   Method: Composition-based stats.
 Identities = 69/388 (17%), Positives = 126/388 (32%), Gaps = 18/388 (4%)

Query: 27  VVPIKRF---TKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
              +       + N         D   + LED+E  T K +     S++S       F K
Sbjct: 2   WTTLGEISNYGECNNVSVDSITDDDWVLELEDLEKDTAKIIQTLSRSKRSIKGVRHRFNK 61

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL-LSIDVTQRIEAICE 142
           G ILY KL  YL K ++A   G C+T+ +       +       +  S       +    
Sbjct: 62  GDILYSKLRTYLNKVLVAPQSGYCTTEIMPFNSYCNVSSYYLNHVLRSAYFLDYTQQCGY 121

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           G  M         N  +P+PPLAEQ  I ++I      ID + + +      +K+ K  +
Sbjct: 122 GVKMPRLSTTDACNGMIPLPPLAEQKRIVKEIEHWFSLIDVIESGKEDLQATIKQAKSKI 181

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
           +   +   L P     +   E +  +    E+        +L +       SN+L ++ G
Sbjct: 182 LDLAIHGKLVPQDPNDEPASELLKRINSKAEITCDNGHSRKLPQGWAYCQLSNVLKITMG 241

Query: 263 NIIQKLETRNMGLKPESYETYQIVDP-------------GEIVFRFIDLQNDKRSLRSAQ 309
              +     N              D                     I L           
Sbjct: 242 QSPKGDSLNNKRGIEFHQGKICFSDKFLLESGIFTNEPTKIAEPNSILLCVRAPVGVVNI 301

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
              +  I     A+ P   +  +  +L+++        + G    +++  E ++   +++
Sbjct: 302 TKNQICIGRGLCALTPFEGNVDFYFYLLQTLQDSFDNQSTG-TTFKAISGEIIRNENIIL 360

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIE 397
           PP+ EQ  I   I       D +   +E
Sbjct: 361 PPLAEQQRIVQKIEELFHVFDNIQNALE 388



 Score = 66.0 bits (159), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 29/153 (18%), Positives = 52/153 (33%), Gaps = 4/153 (2%)

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
           K+       K          + G+I++  +    +K  +           T         
Sbjct: 40  KIIQTLSRSKRSIKGVRHRFNKGDILYSKLRTYLNKVLVAPQSGY---CTTEIMPFNSYC 96

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
            + S YL  ++RS          G G+    L   D     + +PP+ EQ  I   I   
Sbjct: 97  NVSSYYLNHVLRSAYFLDYTQQCGYGVKMPRLSTTDACNGMIPLPPLAEQKRIVKEIEHW 156

Query: 386 TARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            + IDV+    E     +K+ +S  +  A+ G+
Sbjct: 157 FSLIDVIESGKEDLQATIKQAKSKILDLAIHGK 189



 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 29/164 (17%), Positives = 47/164 (28%), Gaps = 3/164 (1%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +P+ W    +    K+  G++ +        G+E  +            S         
Sbjct: 222 KLPQGWAYCQLSNVLKITMGQSPKGDSLNNKRGIEFHQGKICFSDKFLLESGIFTNEPTK 281

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           I     IL     P      I             L P +    +   + L   +    + 
Sbjct: 282 IAEPNSILLCVRAPV-GVVNITKNQICIGRGLCALTPFEGN--VDFYFYLLQTLQDSFDN 338

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
              G T      + I N  + +PPLAEQ  I +KI       D 
Sbjct: 339 QSTGTTFKAISGEIIRNENIILPPLAEQQRIVQKIEELFHVFDN 382


>gi|268611919|ref|ZP_06145646.1| type I restriction-modification system specificity subunit
           [Ruminococcus flavefaciens FD-1]
          Length = 406

 Score =  115 bits (288), Expect = 1e-23,   Method: Composition-based stats.
 Identities = 57/404 (14%), Positives = 135/404 (33%), Gaps = 31/404 (7%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKD-----GNSRQSDTSTVS 79
           W+            G   E  KD + +    + +  G     +     G  +  D +   
Sbjct: 16  WEQRKFSD-FTFAAG---ERNKDDLDLEPFAITNNQGFIAQSEAHDDFGYMKDVDRNMYI 71

Query: 80  IFAKGQILYGKLGPYLRKAIIAD--FDGICSTQFLVLQP-KDVLPELLQGWLLSIDVTQR 136
           +       Y      +      +   + I S+ + V Q  + V  + L+ W  +      
Sbjct: 72  VVKPNSFAYNPARINVGSLGYYEGAENVIVSSLYEVFQTAEYVDDKFLKHWFKTKAFQDW 131

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           IE + EG+   +  +  +    M +P + EQ  I   +     +ID LIT   R  + L+
Sbjct: 132 IERLQEGSVRLYFYYDKLCECIMNMPSVEEQRRIGAYLD----KIDNLITLHQRKCDALQ 187

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIE------WVGLVPDHWEVKPFFALVTELNRKNTK 250
           + K++++  +  +      +++ +G         +G +                  K   
Sbjct: 188 KFKKSMLQKMFPQNGESVPEIRFAGFTDAWEQRKLGEIYRDIGNAFVGTATPYYVDKGHF 247

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
            +ESN +     N   ++   +        +  + +  G++V           ++   ++
Sbjct: 248 YLESNNIKDGQINHNTEIFINDEFY---EKQKDKWLHTGDMVMVQSGHVGH-AAVIPEKL 303

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLV 369
                            I+  +L +  ++    K    + +G   + +   +++   V V
Sbjct: 304 NNSAAHALIMFRNPKMIINPYFLNYQYQTIKAKKKIENITTGNTIKHILASNMQSFVVDV 363

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           P I EQ  I        + +D L+   ++ +  L++ + S +  
Sbjct: 364 PNIDEQELIGAF----FSNLDSLITIHQRKLETLQKMKKSLLQK 403


>gi|300718522|ref|YP_003743325.1| type I restriction-modification system, S subunit [Erwinia
           billingiae Eb661]
 gi|299064358|emb|CAX61478.1| Type I restriction-modification system, S subunit [Erwinia
           billingiae Eb661]
          Length = 576

 Score =  115 bits (288), Expect = 1e-23,   Method: Composition-based stats.
 Identities = 76/477 (15%), Positives = 141/477 (29%), Gaps = 82/477 (17%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGK---DIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            +P+ W+ + +   T       +E      D   + LED+E  T K L +   S +   S
Sbjct: 100 ELPEGWEWMRLGFITNYGECDKAEPTDANADTWIVELEDIEKSTSKLLNRVKFSERPFKS 159

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFL-VLQPKDVLPELLQGWLLSIDVTQ 135
           + + F K  +LYGKL PYL K ++AD  G+C+T+ + +    ++LP+ ++  L S     
Sbjct: 160 SKNKFYKNDVLYGKLRPYLDKVLVADDSGVCTTEIIPIKGYGNILPDYIRLLLKSPRFIA 219

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR--------------- 180
                  G  +         +  + +  +AEQ  I  K+                     
Sbjct: 220 YANKSTHGMNLPRLGTDKAIHAVVELTSIAEQARIVNKVDELMSLCDQLEQQSLTSLEAH 279

Query: 181 --------------------------IDTLITERIRFIELLKEKKQALVSYIVTKGLNPD 214
                                     I             +   KQ ++   V   L P 
Sbjct: 280 QHLVGTLLATLTESQNAEELAENWARISQHFDTLFTTEASIDALKQTILQLAVMGKLVPQ 339

Query: 215 VK-------------------------MKDSGIEWVGLV---PDHWEVKPFFALVTELNR 246
                                       K   +E +G     P  W              
Sbjct: 340 DPNDEPASELLKRIEQEKAQLVKEGKIKKHPPVEPLGEPALLPRSWLNIVVQDFADIRLG 399

Query: 247 KNTK-----LIESNILSLSYG---NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDL 298
                        +I  +S G   N +       +  +     +  ++  G ++   I  
Sbjct: 400 STPDRTEKKYWNGDIPWVSSGEVANEVILDTKEKVTSEGFKNSSTNMIPAGSLLMAIIGQ 459

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLK 358
              +       +        A        +D  Y+ +  +S  L       G G + +L 
Sbjct: 460 GKTRGQTAILGIDACTNQNVAAFVFNRELVDPEYVWFWAKSKYLSHRGDGHG-GAQPALN 518

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            + V+     + PIKEQ  I + +       D L   ++ +    +    +   AA+
Sbjct: 519 GKKVRSFIFPLAPIKEQQRIVSEVKRFNDICDTLKSHLQSAQQTQQHLADALTDAAL 575



 Score = 64.0 bits (154), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 32/219 (14%), Positives = 69/219 (31%), Gaps = 19/219 (8%)

Query: 1   MKHYKAYPQYKDSGVQWIGA---IPKHWKVVPIKRFTKLNTGRTSESGK------DIIYI 51
           +K +          V+ +G    +P+ W  + ++ F  +  G T +  +      DI ++
Sbjct: 366 IKKHPP--------VEPLGEPALLPRSWLNIVVQDFADIRLGSTPDRTEKKYWNGDIPWV 417

Query: 52  GLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGP--YLRKAIIADFDGICST 109
              +V +       +   S     S+ ++   G +L   +G      +  I   D   + 
Sbjct: 418 SSGEVANEVILDTKEKVTSEGFKNSSTNMIPAGSLLMAIIGQGKTRGQTAILGIDACTNQ 477

Query: 110 QFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVL 169
                     L +    W  +            G      + K + +   P+ P+ EQ  
Sbjct: 478 NVAAFVFNRELVDPEYVWFWAKSKYLSHRGDGHGGAQPALNGKKVRSFIFPLAPIKEQQR 537

Query: 170 IREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVT 208
           I  ++       DTL +      +  +    AL    + 
Sbjct: 538 IVSEVKRFNDICDTLKSHLQSAQQTQQHLADALTDAALN 576



 Score = 57.1 bits (136), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 28/197 (14%), Positives = 62/197 (31%), Gaps = 14/197 (7%)

Query: 217 MKDSGIEWVGLVPDHWEVKPF----FALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
           ++ S  E    +P+ WE             +         ++ I+ L             
Sbjct: 90  LEISEEEKPFELPEGWEWMRLGFITNYGECDKAEPTDANADTWIVELEDIEKSTSKLLNR 149

Query: 273 MGLKPESYET-YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM-AVKPHGIDS 330
           +      +++        ++++  +    DK  +      + G+ T+  +       I  
Sbjct: 150 VKFSERPFKSSKNKFYKNDVLYGKLRPYLDKVLVA----DDSGVCTTEIIPIKGYGNILP 205

Query: 331 TYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
            Y+  L++S            G+    L  +      V +  I EQ  I N ++   +  
Sbjct: 206 DYIRLLLKSPRFIAYANKSTHGMNLPRLGTDKAIHAVVELTSIAEQARIVNKVDELMSLC 265

Query: 390 DVLVEKIEQSIVLLKER 406
           D L    +QS+  L+  
Sbjct: 266 DQLE---QQSLTSLEAH 279


>gi|254976625|ref|ZP_05273097.1| restriction modification system DNA specificity domain protein
           [Clostridium difficile QCD-66c26]
 gi|255094010|ref|ZP_05323488.1| restriction modification system DNA specificity domain protein
           [Clostridium difficile CIP 107932]
 gi|255315761|ref|ZP_05357344.1| restriction modification system DNA specificity domain protein
           [Clostridium difficile QCD-76w55]
 gi|255518422|ref|ZP_05386098.1| restriction modification system DNA specificity domain protein
           [Clostridium difficile QCD-97b34]
 gi|255651540|ref|ZP_05398442.1| restriction modification system DNA specificity domain protein
           [Clostridium difficile QCD-37x79]
 gi|260684595|ref|YP_003215880.1| restriction modification system dna specificity domain [Clostridium
           difficile CD196]
 gi|260688253|ref|YP_003219387.1| restriction modification system dna specificity domain [Clostridium
           difficile R20291]
 gi|306521355|ref|ZP_07407702.1| restriction modification system dna specificity domain [Clostridium
           difficile QCD-32g58]
 gi|260210758|emb|CBA65671.1| restriction modification system dna specificity domain [Clostridium
           difficile CD196]
 gi|260214270|emb|CBE06581.1| restriction modification system dna specificity domain [Clostridium
           difficile R20291]
          Length = 394

 Score =  115 bits (287), Expect = 1e-23,   Method: Composition-based stats.
 Identities = 66/399 (16%), Positives = 145/399 (36%), Gaps = 22/399 (5%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
            I     ++     +   +  Y+   +++      L          +        G++++
Sbjct: 6   KILDVVSISRENVKKFDGERSYLSTGNLDFNKISNLEI-VTYENKPSRANQTVNIGEVIF 64

Query: 89  GKLGPYLRKAIIA--DFDGICSTQFLVLQP-KDVLPELLQGWLLSIDVTQRIEAICEGAT 145
            K+    +  +I   + + I ST F VL+P K++LP+ L  +L S     +   + +GAT
Sbjct: 65  AKMKDTKKTLVINKTNKNIIVSTGFYVLKPSKEILPQYLYHYLNSSYFLNQKNRLSKGAT 124

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
            S  + +G+ NI + +  L  Q  +   +      ID    +     EL       + S 
Sbjct: 125 QSALNNEGLANIKIRMYNLKVQEKVVRVLDKAQELIDKRKEQIEVLDEL-------VKSR 177

Query: 206 IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII 265
            +     P    K+  I  +G   D            E  R N  L+++   +L      
Sbjct: 178 FIEMFGTPSKNEKNWEISEIGKYLDVLTDYH-SNGSYETLRDNVTLLDTKGYALMVRTTD 236

Query: 266 QKLETRNMGLKPESYETYQIVDP-----GEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
            +      G+K      Y  ++      GE++   I        +          +    
Sbjct: 237 LENNNFEKGVKYIDEHAYNYLEKSKVFGGEVIINKIGSAGKVYLMPFLNKPVSLAMNQFM 296

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDIT 379
           +      ++  +L  L+ +  +         G   +++  + V+++ ++VPPI+ Q    
Sbjct: 297 LRFNEDKVNHIFLYNLLLTSYMESKIKEKVRGAVTKTITKDAVRKINIIVPPIRLQNQFA 356

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           N +     +++ L  ++E S+  L++  +S +  A  G+
Sbjct: 357 NFV----KQVNSLKFEMETSLKELEDNFNSLMQKAFKGE 391



 Score = 44.8 bits (104), Expect = 0.026,   Method: Composition-based stats.
 Identities = 25/208 (12%), Positives = 66/208 (31%), Gaps = 22/208 (10%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIY--------------IGLEDVESGTGKYLPKDG 68
           K+W++  I ++  + T   S    + +               +   D+E+   +   K  
Sbjct: 190 KNWEISEIGKYLDVLTDYHSNGSYETLRDNVTLLDTKGYALMVRTTDLENNNFEKGVKYI 249

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL 128
           +    +    S    G+++  K+G   +  ++   +   S        +    ++   +L
Sbjct: 250 DEHAYNYLEKSKVFGGEVIINKIGSAGKVYLMPFLNKPVSLAMNQFMLRFNEDKVNHIFL 309

Query: 129 LSIDVTQRIEAICE----GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
            ++ +T  +E+  +    GA         +  I + +PP+  Q      +         +
Sbjct: 310 YNLLLTSYMESKIKEKVRGAVTKTITKDAVRKINIIVPPIRLQNQFANFVKQVNSLKFEM 369

Query: 185 ITERIRFIELLKEKKQALVSYIVTKGLN 212
            T      +       +L+       L 
Sbjct: 370 ETSLKELEDNFN----SLMQKAFKGELF 393


>gi|317010197|gb|ADU80777.1| restriction modification system DNA specificity domain protein
           [Helicobacter pylori India7]
          Length = 398

 Score =  115 bits (287), Expect = 1e-23,   Method: Composition-based stats.
 Identities = 48/412 (11%), Positives = 128/412 (31%), Gaps = 35/412 (8%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDII--------YIGLEDVESGTGKYLPKDGNSRQ 72
           +PK+W++   +  + +N G      + +         YI ++ + +       +      
Sbjct: 8   LPKNWEIKTFRDISTINQGLQIPISQRLKAPTEHAKFYITIQALNN-------RKEFEYI 60

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
              +   +  K  IL  + G      I        +  F +   + ++ +    + LS++
Sbjct: 61  KTYNESVVCHKDDILMTRTGNT-GMVITNIEGVFHNNFFKINFDRTLINKDFLVYFLSLE 119

Query: 133 -VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
              + I      +T+   +     ++ +P+PPL EQ+ I   +      + +        
Sbjct: 120 QTQKTILRKAGTSTIPDLNHNDFYSLSIPLPPLNEQIAIANILSDVDHYLYS----LDAL 175

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           I   +  K+AL   ++++        +      +G         P      +    N   
Sbjct: 176 ILKKESVKKALSFELLSQRKRLRGFNQAWQRVRLGTYKYRRGSFPQPYGNPQWYSDNGM- 234

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
               +     G   +  +     +   +      V    ++             R A   
Sbjct: 235 --PFVQVYDVGENFKLTQKTKQKISKIAQPMSVFVPKNSVIITLQGTIG-----RVALTQ 287

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSY--DLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
                    +    + ++     + + S      +        + +++  + +K   + +
Sbjct: 288 YDCYCDRTILIFDNNTLNDVNKYFFVLSLFTKFEEEKRKADGSIIKTITKQTLKDFEIPL 347

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           PP+ EQ  I N+++     I  L  K  Q     +  + +     ++ +I +
Sbjct: 348 PPLNEQIAIANILSALDNEIISLKNKKRQ----FENIKKALNHDLMSAKIRV 395


>gi|188527306|ref|YP_001909993.1| anti-codon nuclease masking agent (prrB) [Helicobacter pylori
           Shi470]
 gi|188143546|gb|ACD47963.1| anti-codon nuclease masking agent (prrB) [Helicobacter pylori
           Shi470]
          Length = 422

 Score =  115 bits (287), Expect = 2e-23,   Method: Composition-based stats.
 Identities = 52/407 (12%), Positives = 122/407 (29%), Gaps = 19/407 (4%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPKDGNSRQS 73
           +PK  +   ++   ++  G T             I +  +ED+            +    
Sbjct: 12  VPKGVEFKTLEEVFEIKNGYTPSKNNPEFWEKGTIPWFRMEDIRENGRILKDSIQHITPK 71

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP---ELLQGWLLS 130
                 +F K  I+          A++   D + + QF  L  K       ++   +   
Sbjct: 72  ALKGKKLFPKNSIIISTTATIGEHALLI-VDSLANQQFTFLSKKANCDIALDMKFFFYQC 130

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
             + +  +     +  +  D         PIPPL  Q  I + + A T     L TE   
Sbjct: 131 FLLGEWCKKNTNVSGFASMDMTAFKKYKFPIPPLEIQQEIVKILDAFTELNTELNTELNT 190

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
            ++  K++ Q   + ++      D+       +                L  +       
Sbjct: 191 ELKARKKQYQYYQNMLLDF---KDIHSNHKDAKISAKTYPKRLKTLLQTLAPKGVEFRKL 247

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
                I+        + L+     +          ++        I +     +      
Sbjct: 248 GEVCEIIRGKRVTKKEILDKGKYPVVSGGIGFMGYLNEYNREENTITIAQYGTAGFVNWQ 307

Query: 311 MERGIITSAYMAVKPHGID-STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
            ++        +V P     + YL +++ +        +  S +  S+   ++ ++ + +
Sbjct: 308 NQKFWANDVCFSVIPKETLINRYLYYVLTNMQNYLYSISNRSAIPYSISSNNIMQITIPI 367

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           PP++ Q +I  +++   A    L+  I   I   K+     R   + 
Sbjct: 368 PPLEIQQEIVKILDQFLALTTDLLAGIPAEIEARKKQYEYYREKLLT 414


>gi|308182946|ref|YP_003927073.1| HP0790-like protein [Helicobacter pylori PeCan4]
 gi|308065131|gb|ADO07023.1| HP0790-like protein [Helicobacter pylori PeCan4]
          Length = 424

 Score =  115 bits (287), Expect = 2e-23,   Method: Composition-based stats.
 Identities = 53/407 (13%), Positives = 118/407 (28%), Gaps = 24/407 (5%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPKDGNSRQSD 74
           PK  +   ++   ++  G T             I +  +ED+            +     
Sbjct: 13  PKGVEFKTLEEVFEIRNGYTPSKNNPEFWEKGTIPWFRMEDIRENGRILKDSIQHITSKA 72

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP---ELLQGWLLSI 131
                +F K  I+          A++   D + + +F  L  K       ++   +    
Sbjct: 73  LKGKKLFPKNSIIISTTATIGEHALLI-VDSLANQRFTFLSKKANCDIALDMKFFFYQCF 131

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            + +  +     +  +  D         PIPPL  Q  I + + A T     L TE    
Sbjct: 132 LLGEWCKNNTNVSGFASVDMTAFKKYKFPIPPLEIQQEIVKILDAFTELNTELNTELNTR 191

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
            +  +  +  L+        N   +      E +   P    +K     +        KL
Sbjct: 192 KKQYQYYQNMLLD------FNDINQSHKDAKEKLAQKPYPKRLKTLLQTLAPKGVGFRKL 245

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFI--DLQNDKRSLRSAQ 309
            E            + +    + +     +     +        I            S  
Sbjct: 246 GEVCDFQKGKSITKKAVTFGKVPVISGGRQPAYYHNEANRSGETIAISSSGVYAGYVSYW 305

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
            +   +  S  ++ K   +   YL   + +     +     +G    +  +D++   + +
Sbjct: 306 DIPVFLADSFSVSPKQKTLMPKYLFHYLTTQQ-DAIHATKSTGGIPHVYSKDLQNFLIPI 364

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           PP++ Q +I  +++  +     L+  I   I   K+     R   + 
Sbjct: 365 PPLEIQQEIVKILDQFSLLTTDLLAGIPAEIKARKKQYEYYREKLLT 411


>gi|209523719|ref|ZP_03272272.1| restriction modification system DNA specificity domain [Arthrospira
           maxima CS-328]
 gi|209495751|gb|EDZ96053.1| restriction modification system DNA specificity domain [Arthrospira
           maxima CS-328]
          Length = 406

 Score =  115 bits (287), Expect = 2e-23,   Method: Composition-based stats.
 Identities = 52/400 (13%), Positives = 120/400 (30%), Gaps = 26/400 (6%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           +  P+ +  +   G+  +  + +       +  G   +   +      +        +G 
Sbjct: 14  EWKPLGKVCRFINGKAYKQAELLEQGKYPVLRVGNF-FTNSNWYYSNLELEEDKYCDRGD 72

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           +LY     +  +    D        + V+     + +    +LL  D     E    G+T
Sbjct: 73  LLYAWSASFGPRIWDGDKVIYHYHIWKVVPDAKSIDKKYLYYLLDWDTKALKEEHGTGST 132

Query: 146 MSHADWKGIGNIPMPIPP-------LAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
           M H     I    +PIP        LA Q  I   +   T     L  E    +   +++
Sbjct: 133 MMHVSKGSIEKRLVPIPCPDNPDRSLAIQAEIVRILDTFTALTAELTAELSAELSDRQKQ 192

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEW--VGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
                  ++T         +    EW  +G +                       +    
Sbjct: 193 YNYYRDRLLT--------FEKGEAEWKTLGEIVTFRRGSFPQPYGNSGWYDGEGSMPFVQ 244

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
           ++         ++     +   +      V  G ++             +    ++R + 
Sbjct: 245 VADVSDFGFTLIKETKQRISKLAQPKSVFVKAGTVIVTLQGTIGRVAITQYDCYVDRTL- 303

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
             A        I+  Y A+ +++    +  YA GS   +++  E+     + +PP+ EQ 
Sbjct: 304 --AIFTGYKENINKKYFAYQLKNKFDIEKEYARGS-TLKTITKEEFSNFEIPIPPLAEQA 360

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
            I  +++        + E + + I L ++     R   + 
Sbjct: 361 RIVAILDKFDTLTTSIREGLPREIELRQQQYEYYRDLLLT 400


>gi|312880985|ref|ZP_07740785.1| restriction modification system DNA specificity domain [Aminomonas
           paucivorans DSM 12260]
 gi|310784276|gb|EFQ24674.1| restriction modification system DNA specificity domain [Aminomonas
           paucivorans DSM 12260]
          Length = 407

 Score =  115 bits (287), Expect = 2e-23,   Method: Composition-based stats.
 Identities = 50/412 (12%), Positives = 119/412 (28%), Gaps = 43/412 (10%)

Query: 22  PKHWKVVPIKRFTKLNTG----RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           P   +   I    +L  G    ++  +   +  I    + +  G +  +  +    + + 
Sbjct: 13  PDGVEYKAIGDLGELVRGNGMPKSDFADSGVGCIHYGQIYTYYGVWAKETRSFIPHEKAE 72

Query: 78  VSI-FAKGQILYGKLGP----YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
             I    G ++            +         I +     +   D  P+ L  +L +  
Sbjct: 73  RLIKVYPGDLVITNTSENVEDVCKAVAWLGDVQIVTGGHATVLKHDQDPKYLSYYLQTPR 132

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
                +A+  G  +     K +  I +P+PPL  Q  I + + A T     L  E     
Sbjct: 133 FFAEKKALATGTKVIEVTAKSLAKIKIPVPPLEVQREIVKVLDAFTQLEAELEAELEARR 192

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
              +  + AL    +         M + G                               
Sbjct: 193 RQYRHYRDALF--ALGNQDVSWTTMAEVG-----------------EFFRGRRFTKDDYA 233

Query: 253 ESNILSLSYGNIIQKL----ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
              +  + YG+I  +           ++ +     +    G++V   +    +      A
Sbjct: 234 PDGVECIHYGDIYTQYGVAATATVSHVRSDMMPILRFAKRGDVVIAGVGETVEDVGKAVA 293

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM-GSGLRQSLKFEDVKRLPV 367
            + +  +          H ++  ++++  ++                + L  E + +L +
Sbjct: 294 WLGDGEVAIHDDCFAFRHSLNPKFVSYYFQTTAFHAEKNKFVARAKVKRLSGESLGKLAI 353

Query: 368 LVPPIKEQFDITNVINVETARIDVL-------VEKIEQSIVLLKERRSSFIA 412
            VPP+ EQ  I  +++   A +  L       +    +        R   ++
Sbjct: 354 PVPPLAEQERIVAILDAFDALVSDLSCGLPAEIAARRRQYEH---YRDRLLS 402


>gi|254491609|ref|ZP_05104788.1| Type I restriction modification DNA specificity domain protein
           [Methylophaga thiooxidans DMS010]
 gi|224463087|gb|EEF79357.1| Type I restriction modification DNA specificity domain protein
           [Methylophaga thiooxydans DMS010]
          Length = 402

 Score =  115 bits (287), Expect = 2e-23,   Method: Composition-based stats.
 Identities = 53/408 (12%), Positives = 126/408 (30%), Gaps = 32/408 (7%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST-VSIFAK 83
           W    +  F ++  G++ E               G  ++  +   + Q  T+        
Sbjct: 3   WSSHKLGDFCEVIAGQSPEGKYYNDSGDGLPFYQGKKEFGERYIGAPQKWTTKITKKANS 62

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
           G IL     P      I+            ++  D L      + L     Q      EG
Sbjct: 63  GDILMSVRAPV-GPINISIEQICIGRGLAAIRASDKLDRDFLFYYLLS--KQDEIQGNEG 119

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           A  +  +   I  + +    L EQ  I   +      ID       + ++  +E  ++ +
Sbjct: 120 AVFASINKSQIEELSISYVDLKEQKRIVAILDQAFADIDKARALTEQNLKNARELFESYL 179

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL-SYG 262
             +  +               +G       +    +       K+   ++ + L L + G
Sbjct: 180 QQVFNQ---------------LGEEVVQTSLGNICSFKHGFAFKSEYFVDDSALVLLTPG 224

Query: 263 NIIQKLETRNMGLKPESYE----TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
           N  ++   R+ G K + Y+       ++  G+++    +         +    +   + +
Sbjct: 225 NFYEEGGYRDRGHKQKYYDGPFPQEFLLSKGDLLVAMTEQAEGLLGSPALIPEDEVFLHN 284

Query: 319 ------AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVP- 370
                    +     +D  +L  L  +           SGL  +    + ++ + V +P 
Sbjct: 285 QRLGLVDIKSEYSESVDLEFLYHLFNTKYFRAKVQETASGLKVRHTSPKKMEAIKVSIPT 344

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            + +Q  I   +     + + L          L++ ++S +  A +G+
Sbjct: 345 SLNQQKTIAKSLFNLKEKCNQLESIYLLKQAELEDLKNSLLQKAFSGE 392



 Score = 76.0 bits (185), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 24/189 (12%), Positives = 60/189 (31%), Gaps = 6/189 (3%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIV 286
           +     ++  F  ++   + +     +S      Y    +  E      +  + +  +  
Sbjct: 1   MPWSSHKLGDFCEVIAGQSPEGKYYNDSGDGLPFYQGKKEFGERYIGAPQKWTTKITKKA 60

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF 346
           + G+I+                  + RG+            +D  +L + + S       
Sbjct: 61  NSGDILMSVRAPVGPINISIEQICIGRGLA----AIRASDKLDRDFLFYYLLSK--QDEI 114

Query: 347 YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
                 +  S+    ++ L +    +KEQ  I  +++   A ID      EQ++   +E 
Sbjct: 115 QGNEGAVFASINKSQIEELSISYVDLKEQKRIVAILDQAFADIDKARALTEQNLKNAREL 174

Query: 407 RSSFIAAAV 415
             S++    
Sbjct: 175 FESYLQQVF 183


>gi|290969063|ref|ZP_06560598.1| type I restriction modification DNA specificity domain protein
           [Megasphaera genomosp. type_1 str. 28L]
 gi|290781019|gb|EFD93612.1| type I restriction modification DNA specificity domain protein
           [Megasphaera genomosp. type_1 str. 28L]
          Length = 625

 Score =  115 bits (287), Expect = 2e-23,   Method: Composition-based stats.
 Identities = 55/402 (13%), Positives = 123/402 (30%), Gaps = 34/402 (8%)

Query: 45  GKDIIYIGLEDVESGTGKYLPKDGNSRQS---DTSTVSIFAKGQILYGKLGPYLRKAIIA 101
              I ++  E V  G   +  K GN  +    +        +  +   K G    K    
Sbjct: 218 DDGIPFLSAEAVSDGKIHFDKKRGNITKEFDEECCKKYKPQRNDVFMVKSGSTTGKVGYV 277

Query: 102 D---FDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIP 158
           D      I S    +    +     L   L S  V   I++     +  +   + +    
Sbjct: 278 DTDERFNIWSPIAALRVNDNNSSRYLFHLLQSTSVQNMIKSKASHGSQPNLGMRVLEQFE 337

Query: 159 MPIPPLAEQVLIREKIIAETVRIDTLIT----ERIRFIELLKEKKQALVSYIVTKGLNPD 214
           +P+PPL  Q+ I E +         L      E     +  +  + AL++Y  T  + P 
Sbjct: 338 VPMPPLDVQIKIAEVLDNFDAICSDLNIGLPAEIEARQKQYEYYRDALLTYAATGKIIPR 397

Query: 215 VKMKDSGIEWVGLVPDHWEVKPFFALVTEL---------------NRKNTKLIESNILSL 259
              + +  +       H  +      V  +               N +     ++ +  +
Sbjct: 398 QTDRQTDRQTDRQTDRHNALIKLCQYVFGVVLVKLSDIAMITRGGNFQKKDFTDTGVPCI 457

Query: 260 SYGNIIQKLETR----NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
            YG +              +  +  +  ++    +IV        +     +A +    I
Sbjct: 458 HYGQMYTHFGIYATEPLKYISEDVAKKSKMAVKNDIVMAVTSENVEDVCKCTAWLGNENI 517

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ-SLKFEDVKRLPVLVPPIKE 374
             S + A+  H  ++ YL++   S         +  G +   +    +  + + +P + E
Sbjct: 518 AVSGHTAIIHHNQNAKYLSYYFHSAMFFAQKKRLAHGTKVIEVTPNTLNDIVIPLPSLAE 577

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           Q  I  +++   A    +   +   I   ++     R + + 
Sbjct: 578 QERIVGILDRFDALCHDISTGLPAEIEARQKQYEYYRDTLLN 619



 Score =  111 bits (278), Expect = 2e-22,   Method: Composition-based stats.
 Identities = 61/404 (15%), Positives = 119/404 (29%), Gaps = 44/404 (10%)

Query: 30  IKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYG 89
           +K  +++  G TS + K+     +  V  G       D N+R  +           I   
Sbjct: 21  LKNISEMQRG-TSLTKKNATSGNIPVVSGGREPAFYCDTNNRDGE----------TITVA 69

Query: 90  KLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHA 149
             G               S  F V   +         +         I +  +G  + H 
Sbjct: 70  GSGAGAGYVQYWIEPIFVSDAFSVKSNEKT--TTKYLYYCLEGKQDFIYSTQKGGGVPHV 127

Query: 150 DWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTK 209
               I N+ +P+PPL  Q  I   + +       LI +    +   K++ +     ++  
Sbjct: 128 HISSIENMKLPVPPLEVQREIVRILDSFMELTAELIAKLTAELTARKKQYEFYRDELLNN 187

Query: 210 GLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLE 269
             N +V+                 +      +T+       L++  I  LS   +     
Sbjct: 188 NQNVNVR-------------VGKLIDMLSQPITDGPHTTPVLVDDGIPFLSAEAVSDGKI 234

Query: 270 TRNMGL------KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
             +           E           ++          K            I +      
Sbjct: 235 HFDKKRGNITKEFDEECCKKYKPQRNDVFMVKSGSTTGKVGYVDTDERFN-IWSPIAALR 293

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
                 S YL  L++S  +  +  +  S G + +L    +++  V +PP+  Q  I  V+
Sbjct: 294 VNDNNSSRYLFHLLQSTSVQNMIKSKASHGSQPNLGMRVLEQFEVPMPPLDVQIKIAEVL 353

Query: 383 NVETARIDVL-------VEKIEQSIVLLKERRSSFIAAAVTGQI 419
           +   A    L       +E  ++        R + +  A TG+I
Sbjct: 354 DNFDAICSDLNIGLPAEIEARQKQYEY---YRDALLTYAATGKI 394



 Score = 55.6 bits (132), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 21/167 (12%), Positives = 49/167 (29%), Gaps = 11/167 (6%)

Query: 27  VVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV-SIF 81
           +V +     +  G   +        +  I    + +  G Y  +       D +    + 
Sbjct: 429 LVKLSDIAMITRGGNFQKKDFTDTGVPCIHYGQMYTHFGIYATEPLKYISEDVAKKSKMA 488

Query: 82  AKGQILYGKLGP-----YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
            K  I+               A + + +   S    ++   +   + L  +  S     +
Sbjct: 489 VKNDIVMAVTSENVEDVCKCTAWLGNENIAVSGHTAIIH-HNQNAKYLSYYFHSAMFFAQ 547

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
            + +  G  +       + +I +P+P LAEQ  I   +         
Sbjct: 548 KKRLAHGTKVIEVTPNTLNDIVIPLPSLAEQERIVGILDRFDALCHD 594


>gi|258513149|ref|YP_003189405.1| type I DNA specificity S subunit [Acetobacter pasteurianus IFO
           3283-01]
 gi|256635052|dbj|BAI01026.1| type I DNA specificity S subunit [Acetobacter pasteurianus IFO
           3283-01]
 gi|256638107|dbj|BAI04074.1| type I DNA specificity S subunit [Acetobacter pasteurianus IFO
           3283-03]
 gi|256641161|dbj|BAI07121.1| type I DNA specificity S subunit [Acetobacter pasteurianus IFO
           3283-07]
 gi|256644216|dbj|BAI10169.1| type I DNA specificity S subunit [Acetobacter pasteurianus IFO
           3283-22]
 gi|256647271|dbj|BAI13217.1| type I DNA specificity S subunit [Acetobacter pasteurianus IFO
           3283-26]
 gi|256650324|dbj|BAI16263.1| type I DNA specificity S subunit [Acetobacter pasteurianus IFO
           3283-32]
 gi|256653315|dbj|BAI19247.1| type I DNA specificity S subunit [Acetobacter pasteurianus IFO
           3283-01-42C]
 gi|256656368|dbj|BAI22293.1| type I DNA specificity S subunit [Acetobacter pasteurianus IFO
           3283-12]
          Length = 384

 Score =  115 bits (287), Expect = 2e-23,   Method: Composition-based stats.
 Identities = 61/421 (14%), Positives = 135/421 (32%), Gaps = 59/421 (14%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS- 79
           +P+ WK   ++++  +  G   +   +      + +    G +    G   Q D      
Sbjct: 2   LPEGWKETTLEKYIHVKHGYAFKG--EYFSNSGKYIVLTPGNFFETGGFKEQKDKIKYYS 59

Query: 80  -------IFAKGQILYGKL----GPYLRKAIIADFDGICSTQFL----VLQPKDVLPELL 124
                  I  KG  +        G     A I + D     Q +    +  P  V  + L
Sbjct: 60  GEIPKEYILKKGDCILAMTEQGAGLLGSAAFIPNDDKFLHNQRIGLIEITDPNSVSSDFL 119

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
                       I     G  + H   K + +I + +PPL+EQ  I   +       D  
Sbjct: 120 YWLYNDPKNRLIISNEAGGTKVKHTSPKKLVDISILLPPLSEQKKIAAIL----STWDRA 175

Query: 185 ITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTEL 244
           I E  + +   +++K+AL+  ++            +G + +      W+ K    +    
Sbjct: 176 IEETEKLLANSQQQKKALMQQLL------------TGKKRLPGFTGEWKTKYLGDIADIQ 223

Query: 245 NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
              + +         ++ +  + + T N  L                    I     +  
Sbjct: 224 TGSSNRQDSLTNGEYTFFDRSEDIRTSNRYLFDCE--------------AVIVPGEGQDF 269

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAW---LMRSYDLCKVFYAMGSGLRQSLKFED 361
           +    V +  +    Y        D  ++ +     RS+              +SL+   
Sbjct: 270 VPKYFVGKFDLHQRTYAISCFQACDGKFIFYTVGYHRSHF----LSQAVGSTVKSLRLPM 325

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            +++P+ +PP+ EQ  I  V+     ++      +E  +  L++ + + +   +TG+  +
Sbjct: 326 FQKMPLKLPPLSEQRAIAAVLTTADEKL----AALESDLSRLRQEKKALMQQLLTGKRRV 381

Query: 422 R 422
            
Sbjct: 382 T 382



 Score = 97.9 bits (242), Expect = 2e-18,   Method: Composition-based stats.
 Identities = 24/207 (11%), Positives = 66/207 (31%), Gaps = 9/207 (4%)

Query: 224 WVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY 283
           W     + +               N+           +     K +   +          
Sbjct: 6   WKETTLEKYIHVKHGYAFKGEYFSNSGKYIVLTPGNFFETGGFKEQKDKIKYYSGEIPKE 65

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM----AVKPHGIDSTYLAWLMRS 339
            I+  G+ +    +         +    +   + +  +       P+ + S +L WL   
Sbjct: 66  YILKKGDCILAMTEQGAGLLGSAAFIPNDDKFLHNQRIGLIEITDPNSVSSDFLYWLYND 125

Query: 340 YDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
                +      G   +    + +  + +L+PP+ EQ  I  +++      D  +E+ E+
Sbjct: 126 PKNRLIISNEAGGTKVKHTSPKKLVDISILLPPLSEQKKIAAILSTW----DRAIEETEK 181

Query: 399 SIVLLKERRSSFIAAAVTGQIDLRGES 425
            +   ++++ + +   +TG+  L G +
Sbjct: 182 LLANSQQQKKALMQQLLTGKKRLPGFT 208


>gi|296100301|ref|YP_003620471.1| type I restriction enzyme specificity protein [Leuconostoc kimchii
           IMSNU 11154]
 gi|295831618|gb|ADG39502.1| type I restriction enzyme specificity protein [Leuconostoc kimchii
           IMSNU 11154]
          Length = 389

 Score =  115 bits (287), Expect = 2e-23,   Method: Composition-based stats.
 Identities = 64/397 (16%), Positives = 156/397 (39%), Gaps = 35/397 (8%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+   +    K  + ++    +       + + S       ++G    +      I   G
Sbjct: 17  WEERKLGDLLKEFSIKSKIEDEH------KVLSSTNSGMEFREGRVSGTSNLGYKIIKNG 70

Query: 85  QILYGKLGPYLRKAIIADF-DGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE- 142
            ++      +L    I +   G+ S  +   +  ++    +   L +  + +  +     
Sbjct: 71  DLVLSPQNLWLGNININNIGKGLVSPSYKTFEFINIDSSFINPQLRTQKMLEEYKNSSTQ 130

Query: 143 --GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
                  + +      I + +P ++EQ  I         ++D  I    R ++LLKE+K+
Sbjct: 131 GASVVRRNLEIDSFYQIKIFVPTISEQEKIGSF----FKQLDNTIDLHQRKLDLLKEQKK 186

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
             +  +  K      +++ +G        D WE +    L+ E + K+    E  +LS +
Sbjct: 187 GFLQKMFPKNGEKVPELRFAG------FADDWEERKLGDLLKEFSIKSKIEDEHKVLSST 240

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
              +    E R   +   S   Y+I+  G++V    +L     ++     + +G+++ +Y
Sbjct: 241 NSGM----EFREGRVSGTSNLGYKIIKNGDLVLSPQNLWLGNINI---NNIGKGLVSPSY 293

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAM----GSGLRQSLKFEDVKRLPVLVPPIKEQF 376
              +   IDS+++   +R+  + + +        S +R++L+ +   ++ + VP I EQ 
Sbjct: 294 KTFEFINIDSSFINPQLRTQKMLEEYKNSSTQGASVVRRNLEIDSFYQIKIFVPTISEQE 353

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            I +       ++D  ++  ++ + LLKE++  F+  
Sbjct: 354 KIGSF----FKQLDNTIDLHQRKLDLLKEQKKGFLQK 386



 Score = 77.5 bits (189), Expect = 4e-12,   Method: Composition-based stats.
 Identities = 41/203 (20%), Positives = 92/203 (45%), Gaps = 16/203 (7%)

Query: 215 VKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMG 274
           +  K   I + G   D WE +    L+ E + K+    E  +LS +   +    E R   
Sbjct: 1   MSNKVPQIRFNGYS-DTWEERKLGDLLKEFSIKSKIEDEHKVLSSTNSGM----EFREGR 55

Query: 275 LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
           +   S   Y+I+  G++V    +L     ++     + +G+++ +Y   +   IDS+++ 
Sbjct: 56  VSGTSNLGYKIIKNGDLVLSPQNLWLGNINI---NNIGKGLVSPSYKTFEFINIDSSFIN 112

Query: 335 WLMRSYDLCKVFYAM----GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
             +R+  + + +        S +R++L+ +   ++ + VP I EQ  I +       ++D
Sbjct: 113 PQLRTQKMLEEYKNSSTQGASVVRRNLEIDSFYQIKIFVPTISEQEKIGSF----FKQLD 168

Query: 391 VLVEKIEQSIVLLKERRSSFIAA 413
             ++  ++ + LLKE++  F+  
Sbjct: 169 NTIDLHQRKLDLLKEQKKGFLQK 191



 Score = 49.4 bits (116), Expect = 0.001,   Method: Composition-based stats.
 Identities = 25/200 (12%), Positives = 66/200 (33%), Gaps = 22/200 (11%)

Query: 20  AIPK--------HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSR 71
            +P+         W+   +    K  + ++    +       + + S       ++G   
Sbjct: 199 KVPELRFAGFADDWEERKLGDLLKEFSIKSKIEDEH------KVLSSTNSGMEFREGRVS 252

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADF-DGICSTQFLVLQPKDVLPELLQGWLLS 130
            +      I   G ++      +L    I +   G+ S  +   +  ++    +   L +
Sbjct: 253 GTSNLGYKIIKNGDLVLSPQNLWLGNININNIGKGLVSPSYKTFEFINIDSSFINPQLRT 312

Query: 131 IDVTQRIEAICE---GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
             + +  +            + +      I + +P ++EQ  I         ++D  I  
Sbjct: 313 QKMLEEYKNSSTQGASVVRRNLEIDSFYQIKIFVPTISEQEKIGSF----FKQLDNTIDL 368

Query: 188 RIRFIELLKEKKQALVSYIV 207
             R ++LLKE+K+  +  + 
Sbjct: 369 HQRKLDLLKEQKKGFLQKMF 388


>gi|229512707|ref|ZP_04402175.1| type I restriction-modification system specificity subunit S
           [Vibrio cholerae TMA 21]
 gi|229350217|gb|EEO15169.1| type I restriction-modification system specificity subunit S
           [Vibrio cholerae TMA 21]
          Length = 379

 Score =  115 bits (287), Expect = 2e-23,   Method: Composition-based stats.
 Identities = 57/398 (14%), Positives = 125/398 (31%), Gaps = 43/398 (10%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
             W    +K    ++ G+  +   D IY              P  G+       +  ++ 
Sbjct: 15  NGWPRCTLKDTFTIHYGKDHKLLSDGIY--------------PLLGSGGVMRYVSSYLYD 60

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           K  +L G+ G   +   I+       T F      + +P  +        +  R +   E
Sbjct: 61  KPSVLIGRKGTIDKPQFISTPFWTVDTLFYTEIKNNFVPYFVYLL----SLRIRWKKYSE 116

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
              +   +   I  I + +P + EQ  I   +      +DT I +      LLKE K+ +
Sbjct: 117 ATGVPSLNVTSIYGIQINVPSVEEQQKIANFL----TTVDTKINQLTEKHRLLKEYKKGV 172

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
           +  + ++        K    +        W  +     +  ++   +   ++    +   
Sbjct: 173 MQQLFSQ--------KIRFKDEGHKAFPDWTQERLDYFIERISDPVSVDSQTEYREIGIR 224

Query: 263 NIIQKLETRNMGL-KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA-- 319
           +  + +  +          +    V P  +V   +      R++      E G I S   
Sbjct: 225 SHGKGIFHKESTTGDDIGNKRVFWVKPNALVLNIVFAWE--RAVAVTSNNENGFIASHRF 282

Query: 320 -YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQ 375
                K +  D  YL +   S     +      G     ++L   +  +L V +P  +EQ
Sbjct: 283 PMYIPKANRADVNYLLYFFLSPKGEALLNLASPGGAGRNKTLGQSEFMKLKVRLPSQQEQ 342

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
             I   +    ++    +  + + I   K+ +   +  
Sbjct: 343 QKIAQFLQALDSK----ITAVSEQIEQTKQFKKGLLQQ 376



 Score = 86.0 bits (211), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 25/127 (19%), Positives = 48/127 (37%), Gaps = 5/127 (3%)

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSL 357
           L   K ++   Q +     T   +       +       + S  +    Y+  +G+  SL
Sbjct: 65  LIGRKGTIDKPQFISTPFWTVDTLFYTEIKNNFVPYFVYLLSLRIRWKKYSEATGV-PSL 123

Query: 358 KFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
               +  + + VP ++EQ  I N +     +I+ L EK      LLKE +   +    + 
Sbjct: 124 NVTSIYGIQINVPSVEEQQKIANFLTTVDTKINQLTEKHR----LLKEYKKGVMQQLFSQ 179

Query: 418 QIDLRGE 424
           +I  + E
Sbjct: 180 KIRFKDE 186


>gi|220908458|ref|YP_002483769.1| restriction modification system DNA specificity domain-containing
           protein [Cyanothece sp. PCC 7425]
 gi|219865069|gb|ACL45408.1| restriction modification system DNA specificity domain protein
           [Cyanothece sp. PCC 7425]
          Length = 388

 Score =  114 bits (286), Expect = 2e-23,   Method: Composition-based stats.
 Identities = 62/412 (15%), Positives = 129/412 (31%), Gaps = 36/412 (8%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNS 70
           K + V   G IP++W  + +     L  G             L +     G       + 
Sbjct: 11  KQTEV---GLIPENWADLLLGEVITLQRG-----------FDLPNRSRRKGDIPIISSSG 56

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
                ++ S    G ++ G+ G       +       +T   V   K   P  +  +L +
Sbjct: 57  VTDTHNSASALGPG-VITGRYGTIGEVFFVEGDYWPLNTTLFVSNFKGNDPLFIYFFLKT 115

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
           ID           + +   +   +  I +  PPL EQ  I + +      I  L     +
Sbjct: 116 IDYK----TYSGKSGVPGVNRNDLHEIRIKCPPLPEQRSIAQALSDVDALIAALDKTIAK 171

Query: 191 FIELLKEKKQALVS-YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNT 249
              +     Q L++      G N   ++K   +  +  +      +P    +   N  + 
Sbjct: 172 KRAIKTATMQQLLTGKKRLPGFNGVWEVKQ--LRELAHIQRGASPRPIDNPIWFNNNSSV 229

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
             +  + ++ S       L      L P   +  + VD   ++             R   
Sbjct: 230 GWVRISDVTRSGM----YLSETEQKLSPLGVQHSRPVDKNSLIMS-----ICATVGRPII 280

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
                 I   ++       +  ++ ++++  +         +G + +L  E +    V V
Sbjct: 281 TEIDVCIHDGFVVFDSLQAEQRFMYYVLKWIEP-DWSKHGQTGSQMNLNTELINSTTVRV 339

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           PP  EQ  I  V++   A     +  +E   V  +  +   +   +TG+  L
Sbjct: 340 PPPPEQTAIATVLSDMDAE----IAALEARRVKTQAIKQGMMQELLTGRTRL 387



 Score = 82.5 bits (202), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 19/159 (11%), Positives = 58/159 (36%), Gaps = 12/159 (7%)

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
              +   +     +++ +   + PG ++        +   +      +   + +      
Sbjct: 46  KGDIPIISSSGVTDTHNSASALGPG-VITGRYGTIGEVFFV----EGDYWPLNTTLFVSN 100

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
             G D  ++ + +++ D        G      +   D+  + +  PP+ EQ  I   ++ 
Sbjct: 101 FKGNDPLFIYFFLKTIDYKTY---SGKSGVPGVNRNDLHEIRIKCPPLPEQRSIAQALSD 157

Query: 385 ETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
                D L+  ++++I   +  +++ +   +TG+  L G
Sbjct: 158 V----DALIAALDKTIAKKRAIKTATMQQLLTGKKRLPG 192


>gi|309704072|emb|CBJ03418.1| specificity determinant for hsdM and hsdR [Escherichia coli ETEC
           H10407]
          Length = 396

 Score =  114 bits (286), Expect = 2e-23,   Method: Composition-based stats.
 Identities = 47/400 (11%), Positives = 110/400 (27%), Gaps = 25/400 (6%)

Query: 29  PIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
            I+ F    +G T    K       DI +I   D++        +   +   + S+  I 
Sbjct: 7   KIEDFCSTGSGGTPSRAKPEYYEGGDIPWIKSGDLKDSKIYEANEYITAAGLENSSAKIV 66

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            K  IL    G  + +  I   +   +     ++P   + ++   +              
Sbjct: 67  EKDSILIAMYGATVGRLAILGINAATNQAICNIRPDTTIADMKYLYYFLKSKFSYFVENA 126

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            G    +     I ++ +P+P L EQ  I + +                  + L+     
Sbjct: 127 VGGAQPNISQGLIKSLEVPLPSLDEQKRIADILDKAAGVCQKREQAIKLADDFLRATFLE 186

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
           +    V             G+  +                     K+ +     I S++ 
Sbjct: 187 IFGDPVKNPKGWKKNKIKKGVLDITSGWSATGENIPC--------KSDEFGVLKISSVTS 238

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
           G    +           + +       G+++F   + +    ++         +     +
Sbjct: 239 GIFKPEENKMVDSETILASKKLIFPKKGDLLFSRANTRELVAAICMVHQDYDNLFLPDKL 298

Query: 322 AVKPHGID---STYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQ 375
                  D     +   L+++  +  +     +G      ++     +   ++ P I  Q
Sbjct: 299 WSIKLDHDLLLPEFFLVLIQNEKIRDLLTKQATGTSGSMLNISKNKFEETEIIFPEINVQ 358

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
                       +   L EK+ +S  L  E  +S      
Sbjct: 359 K----YFCNTFRKTINLKEKLIKSNELANESFNSLSQKVF 394


>gi|251791239|ref|YP_003005960.1| restriction modification system DNA specificity domain-containing
           protein [Dickeya zeae Ech1591]
 gi|247539860|gb|ACT08481.1| restriction modification system DNA specificity domain protein
           [Dickeya zeae Ech1591]
          Length = 459

 Score =  114 bits (286), Expect = 2e-23,   Method: Composition-based stats.
 Identities = 64/416 (15%), Positives = 146/416 (35%), Gaps = 25/416 (6%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +P+ W +  I    +LN     E   ++ ++ +  V +    +   +  +        +
Sbjct: 5   KLPQGWVLSAIGNVCELNPKDKLEDELEVGFMPMAGVPTNYLGHCKFEKKTWIQVKKGFT 64

Query: 80  IFAKGQILYGKLGPYLRKA------IIADFDGICSTQFLVLQPKDVLPELLQGW---LLS 130
            F  G  ++ K+ P    +         +  G  ST++ VL+P + + +    +      
Sbjct: 65  QFKNGDAIFAKITPCFENSKAAVINGFPNNYGAGSTEYYVLRPNNSVVDAHWLFALVKTK 124

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
             +T     +             +   P+P+PPL EQ +I EK+     ++D++     +
Sbjct: 125 EFLTIGAMNMSGSVGHKRVPKDFVLRYPLPLPPLIEQSIIIEKLDTLLAQVDSIKAHLEK 184

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
              ++K+ ++A++S ++   L+    +K   I  +  +      K            +  
Sbjct: 185 IPLIIKKFRRAMLSSVINSKLSNTSIIKKVKISDITNIISGIAFKKNQYS----ESGSKL 240

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFR----FIDLQNDKRSLR 306
           L  +NI               N+        +   ++  +IV        +       + 
Sbjct: 241 LQIANISYGETCWNNTSYIPFNL----ADDYSRCDLETNDIVLALNRPITNNSLKVALIN 296

Query: 307 SAQVMERGIITSAYMAVKPHGID---STYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDV 362
            A +        A + V    ID     +L  +M S +  K       G  +  L    +
Sbjct: 297 DADLPATLYQRVARIRVPSKFIDIIYPKFLFIIMLSDEFRKEVERNLQGSDQPYLNTSQL 356

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
               +  PP++EQ +I   +    A  D + ++++ ++  +     S +A A  G+
Sbjct: 357 YNFEIQYPPLEEQAEIVRRVGQLFAYADGVEKQVQSALERVNNLTQSILAKAFRGE 412


>gi|261820963|ref|YP_003259069.1| restriction modification system DNA specificity domain protein
           [Pectobacterium wasabiae WPP163]
 gi|261604976|gb|ACX87462.1| restriction modification system DNA specificity domain protein
           [Pectobacterium wasabiae WPP163]
          Length = 493

 Score =  114 bits (286), Expect = 2e-23,   Method: Composition-based stats.
 Identities = 70/463 (15%), Positives = 140/463 (30%), Gaps = 78/463 (16%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +G +P+ WK + +    +L  G++           L         Y     N      S 
Sbjct: 4   VGKLPEGWKNIHLGDVIELKYGKS-----------LAAQVRDGIGYPVFGSNGIVGKHSI 52

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
             I   G ++ G+ G Y       +      T + + +  +        +L  + +T   
Sbjct: 53  PLIKQSG-LIVGRKGSYGVVQKSVEPFFPIDTTYYIDELFNQPINFWFYYLSFLPLT--- 108

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
             +    T+   +     N+ + +PPL EQ +I EK+     ++D+      +  ++LK 
Sbjct: 109 -KLNRSTTIPGLNRDDAYNLSINLPPLVEQKIIAEKLDTLLAQVDSTKARLEQIPKILKR 167

Query: 198 KKQALVSYIVTKGLNPDVK----------------MKDSGIEWV----------GLVPDH 231
            +QA+++  +   L    +                 K     WV          G  P +
Sbjct: 168 FRQAVLASALRGELTKKWRIDNKTGQDISSFKASVKKYRFESWVKEQEQKFINKGKQPRN 227

Query: 232 WEVKPFFALVTELNRKNTKLIESNILS--------------------------------- 258
              K  +         + K I    L                                  
Sbjct: 228 DNWKKKYQEAIISQDISDKDIPDGWLFEPLDGLVYISARIGWKGLKASEYTVKGPLFLSV 287

Query: 259 --LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
             L+YG      +  ++            +   +I+         K S+         I 
Sbjct: 288 HSLNYGKEANLEQAYHISEHRYDESPEIKLQNNDILLCKDGAGIGKLSIVKNLNEPATIN 347

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY-AMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
           +S  +          YL + +   ++  +    M       L   DVK   + VPP+ EQ
Sbjct: 348 SSLLLIRGGDFFVPEYLFYFLSGPEMQNLVKERMTGSAVPHLFQRDVKEFVLEVPPLNEQ 407

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            +I   +    A  D + +++  ++  +     S +A A  G+
Sbjct: 408 HEIVRRVEQLFAYADTIEKQVNTALSRVNNLTQSILAKAFRGE 450


>gi|194426529|ref|ZP_03059083.1| type I restriction modification DNA specificity domain protein
           [Escherichia coli B171]
 gi|194415268|gb|EDX31536.1| type I restriction modification DNA specificity domain protein
           [Escherichia coli B171]
 gi|195183369|dbj|BAG66906.1| predicted type I restriction system specificity protein
           [Escherichia coli O111:H-]
          Length = 421

 Score =  114 bits (286), Expect = 2e-23,   Method: Composition-based stats.
 Identities = 59/406 (14%), Positives = 125/406 (30%), Gaps = 45/406 (11%)

Query: 26  KVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           + +P+ +   L  G T    K       DI +  ++D+                      
Sbjct: 17  EWLPLSKVFNLRNGYTPSKTKKEFWANGDIPWFRMDDIRENGRILGNSLQKISSCAVKGG 76

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELL---QGWLLSIDVTQ 135
            +F +  IL          A+I     + + +F  L  K+   +       +     + +
Sbjct: 77  KLFPENSILISTSATIGEHALITVPH-LANQRFTCLALKESYADCFDIKFLFYYCFSLAE 135

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPP-------LAEQVLIREKIIAETVRIDTLITER 188
                   ++ +  D  G     +P P        LA Q  I   +   T     L  E 
Sbjct: 136 WCRKNTTMSSFASVDMDGFKKFLIPRPCPDNPEKSLAIQSEIVRILDKFTALTAELTAEL 195

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN 248
              + + K++       +++          +S +EW  L+     V        +   K 
Sbjct: 196 TAELNMRKKQYNYYRDQLLS--------FDESSVEWKTLLEACDYV--------DYRGKT 239

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIV------DPGEIVFRFIDLQNDK 302
            K  +S I  ++  NI       +   +  S E Y IV        G+++          
Sbjct: 240 PKKTQSGIFLVTAKNIRMGYIDYHASQEFISEEDYAIVMRRGLPKKGDVLITTEAPCGFV 299

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYL--AWLMRSYDLCKVFYAMGSGLRQSLKFE 360
             +    +    +          +   S      +L+ S    K+  A      + +K  
Sbjct: 300 AQVNRENI---ALAQRVIKYRSKNTQLSNSFLKHYLLGSQFQDKLMQAATGSTVKGIKGS 356

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
            + +L + +P   EQ  I  +++      + + E + + I L +++
Sbjct: 357 RLHQLKIPIPSKVEQDRIVAILDKFDTLTNSITEGLPREIELRQKQ 402



 Score = 53.6 bits (127), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 24/210 (11%), Positives = 58/210 (27%), Gaps = 19/210 (9%)

Query: 217 MKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKL---ETRNM 273
           M    +EW+ L     +V       T    K       +I      +I +          
Sbjct: 11  MDGVEVEWLPLS----KVFNLRNGYTPSKTKKEFWANGDIPWFRMDDIRENGRILGNSLQ 66

Query: 274 GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL 333
            +   + +  ++     I+        +   +    +  +     A         D  +L
Sbjct: 67  KISSCAVKGGKLFPENSILISTSATIGEHALITVPHLANQRFTCLALKESYADCFDIKFL 126

Query: 334 AWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-------PIKEQFDITNVINVET 386
            +   S                S+  +  K+  +  P        +  Q +I  +++  T
Sbjct: 127 FYYCFSLA-EWCRKNTTMSSFASVDMDGFKKFLIPRPCPDNPEKSLAIQSEIVRILDKFT 185

Query: 387 ARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           A    L  ++   + + K+     R   ++
Sbjct: 186 ALTAELTAELTAELNMRKKQYNYYRDQLLS 215


>gi|110679503|ref|YP_682510.1| type I restriction enzyme specificity subunit, putative
           [Roseobacter denitrificans OCh 114]
 gi|109455619|gb|ABG31824.1| type I restriction enzyme specificity subunit, putative
           [Roseobacter denitrificans OCh 114]
          Length = 379

 Score =  114 bits (286), Expect = 2e-23,   Method: Composition-based stats.
 Identities = 50/400 (12%), Positives = 120/400 (30%), Gaps = 31/400 (7%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W+V P+    KL+ G+     +           +GT      +G    SD    ++   
Sbjct: 4   GWEVKPLGEVAKLHYGKALAESERSP--------NGTVPVYGANGVLGWSDH---TLTEG 52

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
             ++ G+ G       +          +      + L      + L       +    + 
Sbjct: 53  PSLIVGRKGSAGEVNRVDGPFWPSDVTYYTEHDPNRLDFDYFHYGLMTLNLPSLAKGVK- 111

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
                 +   +  + +PIPPL EQ  I   + A   R+D         ++  +E     +
Sbjct: 112 ---PGINRNDVYELGLPIPPLEEQKRIVAILDAAFERLDRAKENAEANLQNARELFDRTL 168

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
             +  + +     +K   +                   +   +  + +    +L ++  N
Sbjct: 169 ERVFAELVAVHATIKLEEV-----------TSKITKGSSPKWQGFSYVDSPGVLFVTSEN 217

Query: 264 IIQKLETRNMGLKPES----YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
           + +           E      +   I+ PG+++   +     + ++     +        
Sbjct: 218 VGKNELLLEKTKYVEEGFNQKDRKSILAPGDVLSNIVGASIGRTAVFDLDAVANINQAVC 277

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLC-KVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
            M   P  +   +L++L+ S     ++     +  R +L     +   V +P ++ Q  I
Sbjct: 278 LMRCLPERLSPKFLSFLLNSPYFKARLHEGESNMARANLSLAFFREFLVPLPELEAQERI 337

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
              I                 +  + + R S +  A  G+
Sbjct: 338 VQEIEELATHSAECETNYRTKLTDIADLRQSLLQKAFAGE 377


>gi|104774037|ref|YP_619017.1| Type I restriction-modification system, specificity subunit
           [Lactobacillus delbrueckii subsp. bulgaricus ATCC 11842]
 gi|103423118|emb|CAI97857.1| Type I restriction-modification system, specificity subunit
           [Lactobacillus delbrueckii subsp. bulgaricus ATCC 11842]
          Length = 387

 Score =  114 bits (286), Expect = 2e-23,   Method: Composition-based stats.
 Identities = 55/391 (14%), Positives = 124/391 (31%), Gaps = 27/391 (6%)

Query: 36  LNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYG 89
           L +G T    K      D  +I   D+ +G  K   +           + I  +  I+  
Sbjct: 8   LYSGNTPSRKKSANFGGDTPWIRTADLNNGLIKSATEFLTY--EGIKQLKILPENTIVLA 65

Query: 90  KLGPY--LRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMS 147
             G +  + +  I  F    +   + L P   + +      L+  +              
Sbjct: 66  MYGGFNQIGRTGILGFPATINQALVALTPHKNINQFFAQSYLNRHIIDWRRVAASSRKDP 125

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
           +   + +         L EQ  I + I      I     ++ +   L     Q + +   
Sbjct: 126 NITKEDVEKSEFSFGSLEEQNRISKLISRLDHTITLHEEKKRQLERLKSALLQKMFAD-- 183

Query: 208 TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK 267
            +   P V+ +    EW     +  ++     L      K++K   + +  +   NI+  
Sbjct: 184 -ESGYPVVRFEGFSDEW-----EERKLGDIAPLRGGFAFKSSKFRNTGVPIVRISNILSS 237

Query: 268 LET--RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
            E          +  +   I+     V         K ++ S    ++          +P
Sbjct: 238 GEVGGDFAYYDEQDKDDKYILPDKSAVLAMSGATTGKVAILSQTDYDKVYQNQRVGYFQP 297

Query: 326 -HGIDSTYLAWLMRSYDLCKVFYA-MGSGLRQSLKFEDVKRLPVLVPPI-KEQFDITNVI 382
              ID  +++ ++RS        + + SG + ++  E++     ++P + +EQ  I    
Sbjct: 298 VDYIDYGFISTIVRSELFMMQLESVLVSGAQPNVSSEEIDSFNFMIPILVQEQQKIGQF- 356

Query: 383 NVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
                ++D  +   +Q I  +   + S +  
Sbjct: 357 ---FKQLDDTIALHQQKINNINSVKKSLLQK 384



 Score = 53.3 bits (126), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 27/193 (13%), Positives = 63/193 (32%), Gaps = 13/193 (6%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            W+   +     L  G   +S K     +  + + ++ S +G+         + D     
Sbjct: 198 EWEERKLGDIAPLRGGFAFKSSKFRNTGVPIVRISNILS-SGEVGGDFAYYDEQDKDDKY 256

Query: 80  IFAKGQILYGKLGPYLRKAII----ADFDGICSTQFLVLQPKDVLPELLQGWLLSID-VT 134
           I      +    G    K  I           + +    QP D +       ++  +   
Sbjct: 257 ILPDKSAVLAMSGATTGKVAILSQTDYDKVYQNQRVGYFQPVDYIDYGFISTIVRSELFM 316

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
            ++E++       +   + I +    IP L ++    +KI     ++D  I    + I  
Sbjct: 317 MQLESVLVSGAQPNVSSEEIDSFNFMIPILVQEQ---QKIGQFFKQLDDTIALHQQKINN 373

Query: 195 LKEKKQALVSYIV 207
           +   K++L+  + 
Sbjct: 374 INSVKKSLLQKMF 386


>gi|320120588|gb|EFE29118.2| type I restriction/modification specificity protein [Filifactor
           alocis ATCC 35896]
          Length = 387

 Score =  114 bits (286), Expect = 2e-23,   Method: Composition-based stats.
 Identities = 58/404 (14%), Positives = 116/404 (28%), Gaps = 30/404 (7%)

Query: 28  VPIKRFTKLNTGRTSESG-KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQI 86
             ++      TG+T  +      YI  E++       +          T       KG +
Sbjct: 3   CKLEEICSFRTGKTDVANLTTERYISTENMLPNKSGIVNATSLPIVDLTQAY---EKGDV 59

Query: 87  LYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID-VTQRIEAICEGAT 145
           L   + PY +K   A  +G CS   LV   K+        ++L+ D       A  +G  
Sbjct: 60  LVSNIRPYFKKIWKAKINGGCSNDVLVFTAKENTDSDFLYYVLANDAFFAYAMATSKGTK 119

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
           M   D K I    +P   +  Q  I   +      ID  I         L+++ + L   
Sbjct: 120 MPRGDKKSIMQYEVPCYDIETQQKIASIL----KSIDEKIELNNAINNNLEQQAKTLFKS 175

Query: 206 IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFA------LVTELNRKNTKLIESNILSL 259
                             + G  PD W +                + K  +     I  +
Sbjct: 176 WFVDC-----------EPFNGKQPDDWILGTIDDLAKDVVCGKTPSTKKEEYYGGYIPFI 224

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
           +  ++   + + N      +            V            L +   +        
Sbjct: 225 TIPDMHNCVYSLNTARSLSTLGAESQSKKTLPVNSVCVSCIGTAGLVTLVPVPSQTNQQI 284

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
              +  + +   Y+  LM++                +L      ++ V++P  K   +  
Sbjct: 285 NSIIPKNTVSPYYVYLLMKTMSEIINKLGQSGSTIVNLNKAQFGKIEVIIPSTKVMLEF- 343

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
                    I  L+   ++    L   R + +   ++G++D+  
Sbjct: 344 ---TELVEPIFELILLNQKENNRLSNLRDTLLPKLMSGELDVSD 384



 Score = 47.9 bits (112), Expect = 0.003,   Method: Composition-based stats.
 Identities = 29/194 (14%), Positives = 62/194 (31%), Gaps = 9/194 (4%)

Query: 19  GAIPKHWKVVPIKRFTK-LNTGRTSESGKD------IIYIGLEDVESG-TGKYLPKDGNS 70
           G  P  W +  I    K +  G+T  + K+      I +I + D+ +        +  ++
Sbjct: 185 GKQPDDWILGTIDDLAKDVVCGKTPSTKKEEYYGGYIPFITIPDMHNCVYSLNTARSLST 244

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
             +++ +        +    +G       +       + Q   + PK+ +       L+ 
Sbjct: 245 LGAESQSKKTLPVNSVCVSCIG-TAGLVTLVPVPSQTNQQINSIIPKNTVSPYYVYLLMK 303

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
                  +    G+T+ + +    G I + IP     +   E +      I     E  R
Sbjct: 304 TMSEIINKLGQSGSTIVNLNKAQFGKIEVIIPSTKVMLEFTELVEPIFELILLNQKENNR 363

Query: 191 FIELLKEKKQALVS 204
              L       L+S
Sbjct: 364 LSNLRDTLLPKLMS 377


>gi|189485198|ref|YP_001956139.1| type I restriction-modification system substrate-binding subunit
           [uncultured Termite group 1 bacterium phylotype Rs-D17]
 gi|170287157|dbj|BAG13678.1| type I restriction-modification system substrate-binding subunit
           [uncultured Termite group 1 bacterium phylotype Rs-D17]
          Length = 415

 Score =  114 bits (286), Expect = 2e-23,   Method: Composition-based stats.
 Identities = 58/408 (14%), Positives = 136/408 (33%), Gaps = 25/408 (6%)

Query: 26  KVVPIKRFTKLNTGRTSESG------KDIIYIGLEDVESGTGKYLPKDGNSRQS---DTS 76
           +V  +    ++  G T ++          ++I   ++      ++ K            S
Sbjct: 8   EVKKLGEICEIVNGGTPKTNVREYWNGTNLWITPAEMGKREIPFVEKTVRQLSDSGLKNS 67

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
           +  +     ++     P     I        +     L P   L  L   + L   V   
Sbjct: 68  SAKLLPPYSVILSSRAPIGHLVINTKPMA-TNQGCKGLIPSGKLFYLFLYYYLYFSV-DY 125

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           ++ +  G T        +  + +P P L+EQ  I  K+   +  I  L     + I+ +K
Sbjct: 126 LDKLGTGTTFKELPTWKLKEVEIPFPLLSEQKRIVTKLDKFSENIKRLEDAARKNIQNVK 185

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
           +   ++++             +    +    V    E+  F   +     K    I   +
Sbjct: 186 DLFNSVLNETFKNKSAVVNDNRQVYKKAHWEVKKLGEICTFINGLW--AGKKCPFINVYV 243

Query: 257 LSLSYGNIIQKLETRNM---GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
           +  +      KL+  N+    L+ + YE  ++     I+ +                +++
Sbjct: 244 IRNTNFTKDGKLDLSNVVNLSLEKKQYEKKRLEYDDIILEKSGGGPKQPVGRVVLFDIKK 303

Query: 314 GIITSAYMAVKPHGIDSTYLA--------WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRL 365
           G  + +        I+  Y+         +      + +V  +  +G+R +L F++ K++
Sbjct: 304 GNFSFSNFTSVIRIINKRYVYPKYLYNYLFYCYISGMTEVMQSHSTGIR-NLNFDEYKKI 362

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            ++ P I EQ  I   ++  + +   L    ++ I  L E + S +  
Sbjct: 363 NIVFPSISEQKKIVARLDKLSTKTKKLEIVYQEKIDGLAELKKSVLKQ 410



 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 33/204 (16%), Positives = 71/204 (34%), Gaps = 19/204 (9%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVES----GTGKYLPKDGNSRQSDTSTV- 78
           HW+V  +        G    +GK   +I +  + +      GK    +  +   +     
Sbjct: 214 HWEVKKLGEICTFINGL--WAGKKCPFINVYVIRNTNFTKDGKLDLSNVVNLSLEKKQYE 271

Query: 79  -SIFAKGQILYGKLG-----PYLRKAIIADFDGICS-----TQFLVLQPKDVLPELLQGW 127
                   I+  K G     P  R  +     G  S     +   ++  + V P+ L  +
Sbjct: 272 KKRLEYDDIILEKSGGGPKQPVGRVVLFDIKKGNFSFSNFTSVIRIINKRYVYPKYLYNY 331

Query: 128 LLSIDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           L    ++   E +   +T + + ++     I +  P ++EQ  I  ++   + +   L  
Sbjct: 332 LFYCYISGMTEVMQSHSTGIRNLNFDEYKKINIVFPSISEQKKIVARLDKLSTKTKKLEI 391

Query: 187 ERIRFIELLKEKKQALVSYIVTKG 210
                I+ L E K++++      G
Sbjct: 392 VYQEKIDGLAELKKSVLKQTFDCG 415


>gi|299148889|ref|ZP_07041951.1| type I restriction enzyme EcoAI specificity protein [Bacteroides
           sp. 3_1_23]
 gi|298513650|gb|EFI37537.1| type I restriction enzyme EcoAI specificity protein [Bacteroides
           sp. 3_1_23]
          Length = 464

 Score =  114 bits (285), Expect = 3e-23,   Method: Composition-based stats.
 Identities = 60/399 (15%), Positives = 131/399 (32%), Gaps = 31/399 (7%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRT----SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            +PK W         K  T  +     +       I  +++++G   +  KD  + +   
Sbjct: 69  EVPKGWVWTTFGNVCKKLTDGSHNPPPKCSNGYTVISAQNIKNGKIVFTDKDRYTDELGF 128

Query: 76  ST----VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
                   I     IL    G     AI      + + + + +    V        L S 
Sbjct: 129 QKENPRTQITNGDIILGIIGGSIGNVAIYDLSVPVIAQRSISIIDTYVSNIYCFYLLQST 188

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
                      G   +      +  + +P+PPL+EQ  I  +I      I+ +  ++   
Sbjct: 189 IFQSLFLEKSIGNAQAGVYLGELDKLYIPLPPLSEQQRIVTEIKRWFALIEQIEFDKADL 248

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVG---------------LVPDHWEVKP 236
              +K+ K  ++   +   L P     +  IE +                 +P  W    
Sbjct: 249 QTTIKQTKSKILDLAIHGKLVPQDPNDEPAIELLKRINPDFTPCDNGHYTQLPKGWTTIK 308

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNIIQ-KLETRNMGLKPESYETYQIVDPGEIVFRF 295
              +    N +  K  +     L    I      + +    P++YE+  ++  G+++F +
Sbjct: 309 VGDVAIYTNGRAFKPEDWMHEGLPIIRIQNLNDNSASYNRTPKTYESKYLIHNGDLLFAW 368

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID-STYLAWLMRSYDLCKVFYAMGSGLR 354
                            +  +      V P+      YL  + ++        + GSG+ 
Sbjct: 369 AASLGTYI-----WNGGKAWLNQHIFKVDPYPFIEKQYLYHVFKAMITEFYTQSHGSGMV 423

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
             +  +  + + +L+PP++EQ  I   +   + ++DV++
Sbjct: 424 -HITKKQFENIKLLLPPLEEQKRIVQTLEQISTKLDVIM 461



 Score = 65.6 bits (158), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 29/199 (14%), Positives = 66/199 (33%), Gaps = 7/199 (3%)

Query: 227 LVPDHWEVKPF---FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY 283
            VP  W    F      +T+ +        +    +S  NI           +      +
Sbjct: 69  EVPKGWVWTTFGNVCKKLTDGSHNPPPKCSNGYTVISAQNIKNGKIVFTDKDRYTDELGF 128

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERG---IITSAYMAVKPHGIDSTYLAWLMRSY 340
           Q  +P   +     +            +      +I    +++    + + Y  +L++S 
Sbjct: 129 QKENPRTQITNGDIILGIIGGSIGNVAIYDLSVPVIAQRSISIIDTYVSNIYCFYLLQST 188

Query: 341 DLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
               +F     G  +  +   ++ +L + +PP+ EQ  I   I    A I+ +       
Sbjct: 189 IFQSLFLEKSIGNAQAGVYLGELDKLYIPLPPLSEQQRIVTEIKRWFALIEQIEFDKADL 248

Query: 400 IVLLKERRSSFIAAAVTGQ 418
              +K+ +S  +  A+ G+
Sbjct: 249 QTTIKQTKSKILDLAIHGK 267


>gi|255102189|ref|ZP_05331166.1| restriction modification system DNA specificity domain protein
           [Clostridium difficile QCD-63q42]
          Length = 394

 Score =  114 bits (285), Expect = 3e-23,   Method: Composition-based stats.
 Identities = 66/399 (16%), Positives = 145/399 (36%), Gaps = 22/399 (5%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
            I     ++     +   +  Y+   +++      L          +        G++++
Sbjct: 6   KILDVVSISGENVKKFDGERSYLSTGNLDFNKISNLEI-VTYENKPSRANQTVNIGEVIF 64

Query: 89  GKLGPYLRKAIIA--DFDGICSTQFLVLQP-KDVLPELLQGWLLSIDVTQRIEAICEGAT 145
            K+    +  +I   + + I ST F VL+P K++LP+ L  +L S     +   + +GAT
Sbjct: 65  AKMKDTKKTLVINKTNKNIIVSTGFYVLKPSKEILPQYLYHYLNSSYFLNQKNRLSKGAT 124

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
            S  + +G+ NI + +  L  Q  +   +      ID    +     EL       + S 
Sbjct: 125 QSALNNEGLANIKIRMYNLKVQEKVVRVLDKAQELIDKRKEQIEVLDEL-------VKSR 177

Query: 206 IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII 265
            +     P    K+  I  +G   D            E  R N  L+++   +L      
Sbjct: 178 FIEMFGTPSKNEKNWEISEIGKYLDVLTDYH-SNGSYETLRDNVTLLDTKGYALMVRTTD 236

Query: 266 QKLETRNMGLKPESYETYQIVDP-----GEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
            +      G+K      Y  ++      GE++   I        +          +    
Sbjct: 237 LENNNFEKGVKYIDEHAYNYLEKSKVFGGEVIINKIGSAGKVYLMPFLNKPVSLAMNQFM 296

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDIT 379
           +      ++  +L  L+ +  +         G   +++  + V+++ ++VPPI+ Q    
Sbjct: 297 LRFNEDKVNHIFLYNLLLTSYMESKIKEKVRGAVTKTITKDAVRKINIIVPPIRLQNQFA 356

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           N +     +++ L  ++E S+  L++  +S +  A  G+
Sbjct: 357 NFV----KQVNSLKFEMETSLKELEDNFNSLMQKAFKGE 391



 Score = 44.8 bits (104), Expect = 0.025,   Method: Composition-based stats.
 Identities = 25/208 (12%), Positives = 66/208 (31%), Gaps = 22/208 (10%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIY--------------IGLEDVESGTGKYLPKDG 68
           K+W++  I ++  + T   S    + +               +   D+E+   +   K  
Sbjct: 190 KNWEISEIGKYLDVLTDYHSNGSYETLRDNVTLLDTKGYALMVRTTDLENNNFEKGVKYI 249

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL 128
           +    +    S    G+++  K+G   +  ++   +   S        +    ++   +L
Sbjct: 250 DEHAYNYLEKSKVFGGEVIINKIGSAGKVYLMPFLNKPVSLAMNQFMLRFNEDKVNHIFL 309

Query: 129 LSIDVTQRIEAICE----GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
            ++ +T  +E+  +    GA         +  I + +PP+  Q      +         +
Sbjct: 310 YNLLLTSYMESKIKEKVRGAVTKTITKDAVRKINIIVPPIRLQNQFANFVKQVNSLKFEM 369

Query: 185 ITERIRFIELLKEKKQALVSYIVTKGLN 212
            T      +       +L+       L 
Sbjct: 370 ETSLKELEDNFN----SLMQKAFKGELF 393


>gi|225352844|ref|ZP_03743867.1| hypothetical protein BIFPSEUDO_04478 [Bifidobacterium
           pseudocatenulatum DSM 20438]
 gi|225156322|gb|EEG69891.1| hypothetical protein BIFPSEUDO_04478 [Bifidobacterium
           pseudocatenulatum DSM 20438]
          Length = 399

 Score =  114 bits (285), Expect = 3e-23,   Method: Composition-based stats.
 Identities = 80/396 (20%), Positives = 146/396 (36%), Gaps = 31/396 (7%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+   +        GR     + +       +  G   Y          +    +   +G
Sbjct: 25  WEQRKLGEVAHFINGRAYSQNELLSSGKYPVLRVGNF-YTNDSWYYSNLELEDKNYAYEG 83

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            +LY          I      I       +Q +  L E L  + L     +RI +   G+
Sbjct: 84  DLLYTWS-ATFGPHIWHGNKVIYHYHIWKVQLEAAL-EKLFAFQLLERDKERILSDKNGS 141

Query: 145 TMSHADWKGIGNIPMPIPP-LAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           TM H    GI N  + +P  + EQ  I              IT   R  + L   K++++
Sbjct: 142 TMVHITKTGIENTSVLMPCSVEEQRRIGAFFDRLDSL----ITLHQRKYDKLCVLKKSML 197

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
             +  KG +   +++ +G        D WE +    L  E + + +   +  ILS+S  N
Sbjct: 198 DKMFPKGGSLYPEIRFAG------FTDPWEQRKLGELFEESDERAS---DREILSVSVAN 248

Query: 264 IIQKLETRNMGLKP-ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
            I      +    P  S   Y+IV  G++V+  + +               GI++ AY+ 
Sbjct: 249 GIYPASESDRETNPGASLANYKIVHFGDVVYNSMRMWQGAVDASRYD----GIVSPAYVV 304

Query: 323 VKPH-GIDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVP-PIKEQFD 377
            +P+  + + + A L+R   L K +  +  G     Q LKF+D   + + +P    EQ  
Sbjct: 305 ARPNSEVYARFFARLLRQPMLLKQYQQVSQGNSKDTQVLKFDDFASIGISMPASENEQRQ 364

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           I    +    R+D L+   ++ + LL+  + S +  
Sbjct: 365 IGGFFD----RLDSLITLHQRKLELLRNIKKSMLDK 396



 Score = 59.4 bits (142), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 25/187 (13%), Positives = 63/187 (33%), Gaps = 12/187 (6%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+   +    + +  R   S ++I+ + + +      +       +  +  +   I   G
Sbjct: 220 WEQRKLGELFEESDERA--SDREILSVSVANGIYPASE--SDRETNPGASLANYKIVHFG 275

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQG---WLLSIDVTQRIEAIC 141
            ++Y  +  +      + +DGI S  ++V +P   +             +    +  +  
Sbjct: 276 DVVYNSMRMWQGAVDASRYDGIVSPAYVVARPNSEVYARFFARLLRQPMLLKQYQQVSQG 335

Query: 142 EGATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
                    +    +I + +P    EQ  I              IT   R +ELL+  K+
Sbjct: 336 NSKDTQVLKFDDFASIGISMPASENEQRQIGGFFDRLDSL----ITLHQRKLELLRNIKK 391

Query: 201 ALVSYIV 207
           +++  + 
Sbjct: 392 SMLDKMF 398


>gi|15611793|ref|NP_223444.1| putative type I restriction enzyme (specificity subunit)
           [Helicobacter pylori J99]
 gi|4155286|gb|AAD06303.1| putative TYPE I RESTRICTION ENZYME (SPECIFICITY SUBUNIT)
           [Helicobacter pylori J99]
          Length = 454

 Score =  114 bits (285), Expect = 3e-23,   Method: Composition-based stats.
 Identities = 63/430 (14%), Positives = 132/430 (30%), Gaps = 39/430 (9%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGK-----DIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           PK  +   +    +   G   +S K     +  Y+   +V +     L    + +  D  
Sbjct: 13  PKGVEFRKLGDIGEFYGGLVGKSKKSFSQGNKFYVPYINVFNNPQLDLNALESVQIGDKE 72

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIAD----------FDGICSTQFLVLQPKDVLPELLQG 126
             +    G +L+      L    ++           +       F         P  L+ 
Sbjct: 73  KQNTIQLGDVLFTGSSENLEDCAMSCVVTQKIEEDIYLNSFCFGFRFFDKNLFNPSFLKH 132

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           +L   +  + I  +  G T  +   + +  I +PIPPL  Q  I   + A T     L T
Sbjct: 133 FLRDYNFRKNISKVANGVTRFNVSKQLLLKITIPIPPLEIQQEIVTILDAFTELNTELNT 192

Query: 187 ERIRFIELLKEKKQALVSYIVTKG------------LNPDVKMKDSGIEWVGLVPDHWEV 234
           E    +   K++ Q   + ++               L      K        L P   E 
Sbjct: 193 ELNTELNARKKQYQYYQNMLLDFNDINQSRKDAKERLAQKPYPKRLKQLLHTLAPKGVEF 252

Query: 235 KPFFALVTELNRK---NTKLIESNILSLSYGNIIQK----LETRNMGLKPESYETYQIVD 287
           +    +           + L +     + YG I  +    ++     +    +   +   
Sbjct: 253 RKLGDIGEFTRGNGLLKSDLQDKGRPVVHYGQIHTQYNLSIDKTISYVNDALFHKLKKAK 312

Query: 288 PGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY 347
           P +I+               A +    +  S  M       +  ++ +  ++Y   K   
Sbjct: 313 PNDILIATTSENVKDVGKSIAWLGNEEVAFSGEMYSYSTNENPKFIIYYFQTYFFQKEKE 372

Query: 348 AMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE- 405
              +G     +   D+K++ + +PP++ Q +I  +++  +A    L   I   I   K+ 
Sbjct: 373 KKITGTKVMRIHENDLKQITIPIPPLEIQQEIVTILDQFSALTTDLQAGIPAEIKARKKQ 432

Query: 406 ---RRSSFIA 412
               R   + 
Sbjct: 433 YEYYREKLLT 442


>gi|75907381|ref|YP_321677.1| restriction modification system DNA specificity subunit [Anabaena
           variabilis ATCC 29413]
 gi|75701106|gb|ABA20782.1| Restriction modification system DNA specificity domain protein
           [Anabaena variabilis ATCC 29413]
          Length = 454

 Score =  114 bits (285), Expect = 3e-23,   Method: Composition-based stats.
 Identities = 59/439 (13%), Positives = 136/439 (30%), Gaps = 39/439 (8%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK-----DIIYIGLEDVESG 59
           K    YK+      G +P+ WK+V  +    +  G   +S       +   I + ++   
Sbjct: 21  KTDESYKNRD---FGFVPESWKIVKFENILSIFNGYAFKSTDAVDSSNTQLIRMGNLYQN 77

Query: 60  TGKYLPKDGNSRQSDTSTV--SIFAKGQILYGKLGPYLR-------KAIIADFDGICSTQ 110
                                 +  +G ++    G   +       K    D + + + +
Sbjct: 78  KLDLERSPVFYPDYYAQKYSKYLLKEGDLIISLTGTSEKEDYGFTVKINRTDKNLLLNQR 137

Query: 111 FLVLQPKDVLPELLQGWLLSID--VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQV 168
              +            +           +    +G   ++     I  + + IPPL EQ 
Sbjct: 138 VARIDVISADINHDYIFYFLRSRIFLTPLYLTAKGMKQANLSTNTIKTLNVLIPPLEEQ- 196

Query: 169 LIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLV 228
               KI      +   IT++ + I L  E K+ L+  + T+G   + +        +G +
Sbjct: 197 ---RKIAWILSLVQDAITQQEQIISLTTELKKVLMQKLFTEGTRGEPQKMT----EIGFI 249

Query: 229 PDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN-----MGLKPESYETY 283
           P  WEV  F   ++  + +     +     L  G+   +  +          +       
Sbjct: 250 PKSWEVIRFADAISVTSGQVNPKEKPYSEMLHVGSENIESNSGRLLCLQTNQELNISSGN 309

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC 343
              +  +I++  I    +K +L   +           +  K    +  +L   + S    
Sbjct: 310 YYFNNDDILYSKIRPYLNKVALPDFE--GTCSADMYPIRSKNGCFNRNFLFHFLLSDIFR 367

Query: 344 KVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
               +         +    +    ++ P + EQ +I+  ++      D  +    Q++  
Sbjct: 368 NQAISFQDRTGIPKINRAQLGSTLLIRPSLLEQNEISYALD----LCDKRINTAYQNLST 423

Query: 403 LKERRSSFIAAAVTGQIDL 421
            K+     +   +T QI +
Sbjct: 424 SKDLFRILLHQLMTAQIRV 442


>gi|255525762|ref|ZP_05392693.1| restriction modification system DNA specificity domain protein
           [Clostridium carboxidivorans P7]
 gi|296188046|ref|ZP_06856438.1| type I restriction modification DNA specificity domain protein
           [Clostridium carboxidivorans P7]
 gi|255510585|gb|EET86894.1| restriction modification system DNA specificity domain protein
           [Clostridium carboxidivorans P7]
 gi|296047172|gb|EFG86614.1| type I restriction modification DNA specificity domain protein
           [Clostridium carboxidivorans P7]
          Length = 402

 Score =  114 bits (285), Expect = 3e-23,   Method: Composition-based stats.
 Identities = 53/396 (13%), Positives = 132/396 (33%), Gaps = 22/396 (5%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+   +     +  G++ +            +  G           R   +        G
Sbjct: 19  WEQRKLGDVVPITMGQSPDGSTYSDTPSDYILVQGNADLKNGWVTPRVWTSQVTKKAEAG 78

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            ++     P   +     ++ +       ++  + +       L+ ++     + +  G+
Sbjct: 79  DLIMSVRAP-AGEIGKTAYNAVIGRGVAAIKGNEFI----FQSLVKMNGEGYWKKLSCGS 133

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
           T    +   I N  + IP L EQ  I          +D LIT   R +  L++KK++L+ 
Sbjct: 134 TFESLNSDNIKNAKIMIPNLDEQAQIGVF----FKNLDNLITLHQRKLIDLQDKKKSLLQ 189

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
            +  K      +++  G           ++          + +  ++    I  +  G++
Sbjct: 190 KMFPKNGEDFPELRFPGFTDPWEQRKLEDIADVIDP--HPSHRAPEVKTVGIPFIGIGDV 247

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS-----AQVMERGIITSA 319
            +         +    + Y        +           SL         + +  +  + 
Sbjct: 248 DEVGNINYGTARIVDEKIYDEHHKRYDLANTSIGIGRVASLGKVIRLRNDIGKYAVSPTM 307

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVP-PIKEQFD 377
            +      I+  Y+   M +    + F +  +G  RQS+  +D+++L + +P  I EQ  
Sbjct: 308 SIIQFHSDIEINYVYSCMNTPLFQQQFTSQSNGSTRQSVGIQDLRKLILNIPLDIGEQKL 367

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           I +       +ID L+   ++ +  L+E++ + +  
Sbjct: 368 IGD----LFWQIDHLITLHQRKLNHLQEQKKALLQQ 399


>gi|332285464|ref|YP_004417375.1| hypothetical protein PT7_2211 [Pusillimonas sp. T7-7]
 gi|330429417|gb|AEC20751.1| hypothetical protein PT7_2211 [Pusillimonas sp. T7-7]
          Length = 439

 Score =  114 bits (285), Expect = 3e-23,   Method: Composition-based stats.
 Identities = 65/438 (14%), Positives = 132/438 (30%), Gaps = 39/438 (8%)

Query: 23  KHWKVVPIKRFT-KLNTGRTSESGKD-------IIYIGLEDVES-GTGKYLPKDGNSRQS 73
             W    +     K+ +G T + GKD          I  ++V + G            Q+
Sbjct: 3   SEWVSKRLGDCCLKIGSGATPKGGKDAYLENGPFKLIRSQNVYNDGFSPNGLTYIGEEQA 62

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAII---ADFDGICSTQ--FLVLQPKDVLPELLQGWL 128
                   A G +L    G  + +             +     +   P       L+ +L
Sbjct: 63  RKLDGVAVAAGDVLLNITGDSVARVCQAPEQHMPARVNQHVAIIRPNPSLFDARYLRYFL 122

Query: 129 LSIDVTQRIEAICE-GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
            S      +  +   GAT +      I +  +P PPL+ Q  I   + +   RI  L   
Sbjct: 123 ASPSQQSLMLGLAAAGATRNALTKGMIEDFIVPCPPLSVQQEIANVLGSLDDRITLLRET 182

Query: 188 RIRFIELLKEKKQALVS-----YIVTKGLNPDVK-------MKDSGIE-WVGLVPDHWEV 234
                 + +   ++            +G  P+           DS  E  + L+P  W +
Sbjct: 183 NKTLESIAQAIFKSWFVNFDPVRAKMEGRQPEGMDEATAALFSDSFEESELSLIPRGWSL 242

Query: 235 KPFFALVTELNRKNTKLIES-----NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG 289
                L   +  K     +      ++  ++  ++           +  S +        
Sbjct: 243 GHISDLGGVICGKTPPTSDMSNYGNDVPFITIPDMH-GCLVITETARRLSTQGADNQKKK 301

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCK-VFYA 348
            +    + +         AQV E         +V PH    T  + L+            
Sbjct: 302 YLPVGSVSVSCIATPGLVAQVTEPSQTNQQINSVIPHEHWGTAFSLLLLRGVGNDVRIAG 361

Query: 349 MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
            G  +  +L   + +++ +L+P    Q  I    +   A     + + ++ +  L E R 
Sbjct: 362 SGGSVFHNLNKSNFEKIKILLP----QETIAQEFDRLIAPFIKQITENQRQVQTLIELRD 417

Query: 409 SFIAAAVTGQIDLRGESQ 426
             +   V+G++ L    +
Sbjct: 418 VLLPKLVSGRLRLPNGEE 435



 Score = 49.8 bits (117), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 30/198 (15%), Positives = 62/198 (31%), Gaps = 12/198 (6%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESG-TGKYLPKDGNSRQS 73
           IP+ W +  I     +  G+T  +      G D+ +I + D+          +  +++ +
Sbjct: 236 IPRGWSLGHISDLGGVICGKTPPTSDMSNYGNDVPFITIPDMHGCLVITETARRLSTQGA 295

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
           D         G +    +                + Q   + P +         LL    
Sbjct: 296 DNQKKKYLPVGSVSVSCI-ATPGLVAQVTEPSQTNQQINSVIPHEHWGTAFSLLLLRGVG 354

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
                A   G+   + +      I + +     Q  I ++           ITE  R ++
Sbjct: 355 NDVRIAGSGGSVFHNLNKSNFEKIKILL----PQETIAQEFDRLIAPFIKQITENQRQVQ 410

Query: 194 LLKEKKQALVSYIVTKGL 211
            L E +  L+  +V+  L
Sbjct: 411 TLIELRDVLLPKLVSGRL 428


>gi|225619381|ref|YP_002720607.1| restriction modification system DNA specificity domain-containing
           protein [Brachyspira hyodysenteriae WA1]
 gi|225214200|gb|ACN82934.1| restriction modification system DNA specificity domain protein
           [Brachyspira hyodysenteriae WA1]
          Length = 523

 Score =  114 bits (285), Expect = 3e-23,   Method: Composition-based stats.
 Identities = 62/423 (14%), Positives = 142/423 (33%), Gaps = 32/423 (7%)

Query: 23  KHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           ++W+ V +    ++N G +          K + ++ + D  S   +Y+            
Sbjct: 110 ENWQEVRLGDICQINRGASPRPIQKYIADKGMPWVKISDATSSNSRYIKTTKEFIDFSGV 169

Query: 77  TVSI-FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
           + S+    G ++    G       I   +      ++++   +        +   + +  
Sbjct: 170 SKSVKIDVGTLILSNSGTT-GIPKIMGIEACVHDGWIIISNINKNVLKEFLYYEFLYIRN 228

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            I  +  G  + +     +    + +PPL EQ  I   +      +D  I       ++L
Sbjct: 229 SISNLATGTVLQNLKTDIVKQFKINLPPLEEQKKIASIL----SSLDDKIELNNCMNKIL 284

Query: 196 KEKKQALVSYIVTKGLNPD---VKMKDSG----IEWVGLVPDHWEVKPFFALVTELNRKN 248
           +E  Q +          P+      K SG       +G +PD WEV     + T + +  
Sbjct: 285 EETAQTIFKEWFINFNFPNEEGKPYKKSGGKMIESELGEIPDGWEVTTLENISTIITKGT 344

Query: 249 TKLIE--SNILSLSYGNIIQKLETRNMGLKPESYETYQ------IVDPGEIVFRFIDLQN 300
           T        I  +   NI+         L     ET+       I+   +I+F       
Sbjct: 345 TPKKFTLQGINYIKVENILDNHSIDKSKLSFIDSETHNNLLKRSIIKEKDILFSIAGTLA 404

Query: 301 DKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV-FYAMGSGLRQSLKF 359
               + +  +        A + V  + I+  ++     +    +  F  +   ++ +L  
Sbjct: 405 KFAFVTNNILPANTNQAIAIIRVDSNIINPLFVFNFFLADLHKEHCFKNLQQSVQPNLSL 464

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
             ++ L ++ P  K      + I     +I   +E+ ++    L   R S +   ++G+I
Sbjct: 465 TTIRNLKLIFPESKILKKYEDSILHIFYKIYRNIEENQK----LAGIRDSILPKLMSGEI 520

Query: 420 DLR 422
            ++
Sbjct: 521 RIK 523



 Score = 63.7 bits (153), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 34/209 (16%), Positives = 72/209 (34%), Gaps = 14/209 (6%)

Query: 10  YKDSG---VQW-IGAIPKHWKVVPIKRFTKLNTGRTSESG---KDIIYIGLEDVESGTGK 62
           YK SG   ++  +G IP  W+V  ++  + + T  T+      + I YI +E++      
Sbjct: 309 YKKSGGKMIESELGEIPDGWEVTTLENISTIITKGTTPKKFTLQGINYIKVENILDNHSI 368

Query: 63  YLPKDGNSRQSDTS---TVSIFAKGQILYGKLGPYLRKAIIADFDGICST----QFLVLQ 115
              K         +     SI  +  IL+   G   + A + +     +T      + + 
Sbjct: 369 DKSKLSFIDSETHNNLLKRSIIKEKDILFSIAGTLAKFAFVTNNILPANTNQAIAIIRVD 428

Query: 116 PKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKII 175
              + P  +  + L+    +      + +   +     I N+ +  P         + I+
Sbjct: 429 SNIINPLFVFNFFLADLHKEHCFKNLQQSVQPNLSLTTIRNLKLIFPESKILKKYEDSIL 488

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVS 204
               +I   I E  +   +       L+S
Sbjct: 489 HIFYKIYRNIEENQKLAGIRDSILPKLMS 517



 Score = 63.3 bits (152), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 21/183 (11%), Positives = 62/183 (33%), Gaps = 5/183 (2%)

Query: 213 PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII----QKL 268
            ++     G + +    ++W+      +       + + I+  I       +        
Sbjct: 93  KEIIYNTEGAQEIIGNKENWQEVRLGDICQINRGASPRPIQKYIADKGMPWVKISDATSS 152

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
            +R +    E  +   +    +I    + L N   +     +     +   ++ +     
Sbjct: 153 NSRYIKTTKEFIDFSGVSKSVKIDVGTLILSNSGTTGIPKIMGIEACVHDGWIIISNINK 212

Query: 329 DSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           +            +      + +G   Q+LK + VK+  + +PP++EQ  I ++++    
Sbjct: 213 NVLKEFLYYEFLYIRNSISNLATGTVLQNLKTDIVKQFKINLPPLEEQKKIASILSSLDD 272

Query: 388 RID 390
           +I+
Sbjct: 273 KIE 275


>gi|238760354|ref|ZP_04621495.1| type I restriction enzyme, S subunit [Yersinia aldovae ATCC 35236]
 gi|238701414|gb|EEP93990.1| type I restriction enzyme, S subunit [Yersinia aldovae ATCC 35236]
          Length = 416

 Score =  114 bits (285), Expect = 3e-23,   Method: Composition-based stats.
 Identities = 58/418 (13%), Positives = 134/418 (32%), Gaps = 34/418 (8%)

Query: 20  AIPK--------HWKVVPIKRFTKLNT----GRTSESGKDIIYIGLEDVESGTGKYLPKD 67
            +P+         W    +     + +     +   +   + +    DV S         
Sbjct: 6   KVPEIRFKGFGGEWVENNLGELIDIRSAARVHKEQWTEAGVPFFRTSDVVSIYKGQENTK 65

Query: 68  GNSRQSDTSTVS----IFAKGQILYGKLGPYLRKAIIADF---DGICSTQFLVLQPKDVL 120
                   + +S       K  +L    G      ++ +        +    +   K   
Sbjct: 66  AYISHEVYNDLSEKIGKVTKDDLLITGGGSIGIPYLVPNDDPLYFKDADLLWLKNNKKFN 125

Query: 121 PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
              L  +  S    + I+ I    T++H   +     P+      EQ  I          
Sbjct: 126 GYFLYTFFFSAPFKKHIKGISHTGTIAHYTIEQAKATPINTCYDEEQTQIGNYFQKLDAL 185

Query: 181 IDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFAL 240
           I+       +  + L+  K++++  +  K      +++  G  + G   +    +     
Sbjct: 186 INQH----QQKHDKLRNIKKSMLEKMFPKQGETIPEIRFKG--FNGEWEEAKLGEIGDTF 239

Query: 241 VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI-VDPGEIVFRFIDLQ 299
                +            ++Y N+     +    ++P   +T Q  V  G++ F      
Sbjct: 240 TGLSGKTKDDFGHGQGRFVTYLNVFSNAISNENSVEPIEIDTNQNEVKKGDVFFTTSSET 299

Query: 300 NDKRSLRSAQVME--RGIITSAYMAVKPHG-IDSTYLAWLMRSYDLCKVFYAMGSGL-RQ 355
            ++  + S  + E     + S     +P    DS YLA+++RS    +    +  G+ R 
Sbjct: 300 PEEVGMSSIWMSEIKNVYLNSFCFGYRPKQQFDSYYLAYMLRSNSFREKIVFLAQGISRY 359

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           ++    V  + V +P + EQ  + N       ++D L+ + +Q I  L   + + ++ 
Sbjct: 360 NISKTKVMDIKVSIPCLSEQEKVGNY----FQKLDALINQHQQQITKLNNIKQACLSK 413


>gi|148266053|ref|YP_001232759.1| restriction modification system DNA specificity subunit [Geobacter
           uraniireducens Rf4]
 gi|146399553|gb|ABQ28186.1| restriction modification system DNA specificity domain [Geobacter
           uraniireducens Rf4]
          Length = 428

 Score =  114 bits (285), Expect = 3e-23,   Method: Composition-based stats.
 Identities = 59/430 (13%), Positives = 135/430 (31%), Gaps = 40/430 (9%)

Query: 23  KHWKVVPIKRFTK-LNTGRTSESG------KDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
             W  VP  +  K +  G T  +        +I +I   D          +  +      
Sbjct: 2   SEWSTVPFGQIAKKIVNGGTPSTDIDRYWNGNIPWITGADFTPSGIGEFRRFVSEEAVRQ 61

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
           S  ++  +GQ+L       + K  IA  D   S     +   D        +       +
Sbjct: 62  SATNVIQQGQLLLVTR-TGVGKIAIAPCDIAISQDITGVYVDDNQVATSFLFHRMRQGVE 120

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            ++ + +G +++      +    + +P L +Q  I E +      +D  I +    I  +
Sbjct: 121 DLKKLNQGTSINGIIRSDLVAYLVELPALPQQRRIAEIL----STLDETIEQTEVLIAKM 176

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIE--------WVGLVPDHWEVKPFFALVTELNR- 246
           ++ K  L+  + T+G+ PD  ++ +            +G +P  WEV+    ++ +    
Sbjct: 177 QQVKAGLMHDLFTRGVTPDGHLRPTREHAPGLYKESPLGWIPKEWEVERLGNILRKCGGY 236

Query: 247 ----------KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET----YQIVDPGEIV 292
                        +     +  +   +I   L       +             +  G++V
Sbjct: 237 LQTGPFGSQLHAHEYQAEGVPVVMPQDINNGLIGTENIARIHEARANDLARHRMSLGDMV 296

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-S 351
                  +   ++R ++           + +    + + + A + R   + +        
Sbjct: 297 IARRGDLSRAAAIRESEQGWVCGTGCFLLRLGQSALTADFAAQVYRQDFVQRQIVGRAVG 356

Query: 352 GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
               SL    ++ L      + EQ  I   +      I  L     QS+  L   +   +
Sbjct: 357 TTMPSLNNSVMEGLFFPFCDLDEQVRIVERLEWMEMNICAL--NESQSVNRL--IKRGLM 412

Query: 412 AAAVTGQIDL 421
              +TG + +
Sbjct: 413 HDLMTGNVQV 422



 Score = 58.3 bits (139), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 40/217 (18%), Positives = 78/217 (35%), Gaps = 22/217 (10%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTK-----LNTGRTSE-------SGKDIIYIGLEDVE 57
           YK+S    +G IPK W+V  +    +     L TG             + +  +  +D+ 
Sbjct: 209 YKESP---LGWIPKEWEVERLGNILRKCGGYLQTGPFGSQLHAHEYQAEGVPVVMPQDIN 265

Query: 58  SGTG--KYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFD--GICSTQFL- 112
           +G    + + +   +R +D       + G ++  + G   R A I + +   +C T    
Sbjct: 266 NGLIGTENIARIHEARANDL-ARHRMSLGDMVIARRGDLSRAAAIRESEQGWVCGTGCFL 324

Query: 113 -VLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIR 171
             L    +  +          V ++I     G TM   +   +  +  P   L EQV I 
Sbjct: 325 LRLGQSALTADFAAQVYRQDFVQRQIVGRAVGTTMPSLNNSVMEGLFFPFCDLDEQVRIV 384

Query: 172 EKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVT 208
           E++    + I  L   +     + +     L++  V 
Sbjct: 385 ERLEWMEMNICALNESQSVNRLIKRGLMHDLMTGNVQ 421


>gi|299148892|ref|ZP_07041954.1| type I restriction enzyme EcoAI specificity protein [Bacteroides
           sp. 3_1_23]
 gi|298513653|gb|EFI37540.1| type I restriction enzyme EcoAI specificity protein [Bacteroides
           sp. 3_1_23]
          Length = 418

 Score =  114 bits (284), Expect = 3e-23,   Method: Composition-based stats.
 Identities = 55/403 (13%), Positives = 115/403 (28%), Gaps = 28/403 (6%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +P+ W+ VP+     LN          + +I +  V  G       +    +       
Sbjct: 18  EVPEGWQSVPVSELFCLNPKSEITDATSVGFIPMACVNDGFSGNHQFEERIWKEVKKGYC 77

Query: 80  IFAKGQILYGKLGPYLRKA------IIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
            F  G I   K+ P            + +  G  +T+ ++L+P ++  +       S   
Sbjct: 78  HFQNGDIGIAKISPCFENLKSTIFQNLPNNYGAGTTELVILRPLNIHAKFYLYLFKSQWY 137

Query: 134 TQRIEAICEGA-TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
                   +G             ++ +P+PPLAEQ  I  +I      ID +   +    
Sbjct: 138 ISEGTKYFKGVVGQQRVHKGIFTDLQIPLPPLAEQYRIVAEIEKWFALIDQIEQGKTGLQ 197

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWV------------GLVPDHWEVKPFFAL 240
            ++ + K  ++   +   L P     +   E +            G  P  W       L
Sbjct: 198 TIVMQTKSKILDLAIHGKLVPQDPNDEPAFELLKRINPDFTPCDNGHYPIGWLETILGEL 257

Query: 241 VTELNRK------NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFR 294
                 K         +++  + + +                 E       V  G+++  
Sbjct: 258 FNHNTGKALNSSNKEGVMKDYLTTSNVYWNKFDFTVIKQMPFKEIELDKCTVTKGDLLVC 317

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR 354
                                I +    ++P         +   +Y              
Sbjct: 318 EGGDIGRSAIW---NYDYDICIQNHIHRLRPKIDLCVPFYYYTLAYLKENNLIGGKGIGL 374

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
             L    + ++ + +PP+ EQ  I   I    + +D +   +E
Sbjct: 375 LGLSSNALHKIEMPLPPLTEQQRIVQKIEELFSVLDNIQNALE 417



 Score = 59.8 bits (143), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 31/169 (18%), Positives = 54/169 (31%), Gaps = 4/169 (2%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGR----TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           G  P  W    +      NTG+    +++ G    Y+   +V      +        +  
Sbjct: 243 GHYPIGWLETILGELFNHNTGKALNSSNKEGVMKDYLTTSNVYWNKFDFTVIKQMPFKEI 302

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
                   KG +L  + G   R AI      IC    +      +   +   +     + 
Sbjct: 303 ELDKCTVTKGDLLVCEGGDIGRSAIWNYDYDICIQNHIHRLRPKIDLCVPFYYYTLAYLK 362

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           +      +G  +       +  I MP+PPL EQ  I +KI      +D 
Sbjct: 363 ENNLIGGKGIGLLGLSSNALHKIEMPLPPLTEQQRIVQKIEELFSVLDN 411


>gi|114778591|ref|ZP_01453418.1| type I restriction-modification system, S subunit [Mariprofundus
           ferrooxydans PV-1]
 gi|114551180|gb|EAU53740.1| type I restriction-modification system, S subunit [Mariprofundus
           ferrooxydans PV-1]
          Length = 312

 Score =  114 bits (284), Expect = 3e-23,   Method: Composition-based stats.
 Identities = 48/305 (15%), Positives = 113/305 (37%), Gaps = 16/305 (5%)

Query: 122 ELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
                + L + V   +E +  G+T        +  I + +PPL EQ  I   +      +
Sbjct: 17  YNEYLYQLILFVRPELEKMSAGSTFQEISSTNVKAIKLLLPPLPEQKKIASIL----TSV 72

Query: 182 DTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALV 241
           D +I ++   I  L++ K+A++  ++TKG+    + KDS +  +    +   +  +  L 
Sbjct: 73  DEVIEKQEAQISKLQDLKKAMMQELLTKGIG-HTEFKDSPVGMIPKGWEVVRLGKYVKLQ 131

Query: 242 TELNRKNTKLIESNILSLSYGNIIQKLETRNMGL---KPESYETYQIVDPGEIVFRFIDL 298
                K+    +  +  +   NI +  +            +      V   + +      
Sbjct: 132 GGYAFKSENFTDKGVPVVRISNISKSGDVDLSNAAFHDEINISEAFEVSHSDSLIAMSGA 191

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHGI--DSTYLAWLMRSYDLCKVFYAMGSGLRQS 356
              K         E+  +          G+   S     +  S    K+      G + +
Sbjct: 192 TTGKVG--RYNFREKAYLNQRVGKFVSKGMVEMSYIHHVVSSSSFTEKLLIDAIGGAQPN 249

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           +    ++ + +  PP+ EQ +I+++++     ID  V   +  ++ +K  + S +   +T
Sbjct: 250 ISGGQIEGVEIAFPPLDEQKNISSILDS----IDNAVGAKQLKLMHIKSLKKSLMQDLLT 305

Query: 417 GQIDL 421
           G++ +
Sbjct: 306 GKVRV 310



 Score = 80.6 bits (197), Expect = 4e-13,   Method: Composition-based stats.
 Identities = 17/103 (16%), Positives = 42/103 (40%), Gaps = 4/103 (3%)

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
                 + ++K          + +  +   ++         Q +   +VK + +L+PP+ 
Sbjct: 1   MTTNQGFQSLKCREKVYNEYLYQLILFVRPELEKMSAGSTFQEISSTNVKAIKLLLPPLP 60

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           EQ  I +++       D ++EK E  I  L++ + + +   +T
Sbjct: 61  EQKKIASILTSV----DEVIEKQEAQISKLQDLKKAMMQELLT 99



 Score = 75.2 bits (183), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 38/207 (18%), Positives = 73/207 (35%), Gaps = 10/207 (4%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKYL 64
           ++KDS V   G IPK W+VV + ++ KL  G   +S     K +  + + ++       L
Sbjct: 106 EFKDSPV---GMIPKGWEVVRLGKYVKLQGGYAFKSENFTDKGVPVVRISNISKSGDVDL 162

Query: 65  PKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFD--GICSTQFLVLQPKDVL-P 121
                  + + S     +    L    G    K    +F      + +      K ++  
Sbjct: 163 SNAAFHDEINISEAFEVSHSDSLIAMSGATTGKVGRYNFREKAYLNQRVGKFVSKGMVEM 222

Query: 122 ELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
             +   + S   T+++     G    +     I  + +  PPL EQ  I   + +    +
Sbjct: 223 SYIHHVVSSSSFTEKLLIDAIGGAQPNISGGQIEGVEIAFPPLDEQKNISSILDSIDNAV 282

Query: 182 DTLITERIRFIELLKEKKQALVSYIVT 208
                + +    L K   Q L++  V 
Sbjct: 283 GAKQLKLMHIKSLKKSLMQDLLTGKVR 309


>gi|325958865|ref|YP_004290331.1| restriction modification system DNA specificity domain-containing
           protein [Methanobacterium sp. AL-21]
 gi|325330297|gb|ADZ09359.1| restriction modification system DNA specificity domain protein
           [Methanobacterium sp. AL-21]
          Length = 403

 Score =  114 bits (284), Expect = 4e-23,   Method: Composition-based stats.
 Identities = 63/413 (15%), Positives = 137/413 (33%), Gaps = 30/413 (7%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSE---SGKDIIYIGLEDVESGTGKYLPKDGNSRQS-- 73
           G +PK WK+  +     +  G         +    +  ++V +G   +   +  S+    
Sbjct: 5   GDLPKVWKIKKLTEICDVRDGTHDSPKYKNEGYPLVTSKNVATGFIDFSDVNLISKDDYD 64

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIAD--FDGICSTQFLVLQPKDVLPELLQGWLLSI 131
           + +  S    G IL   +G      I+       I +   +     DV  + ++ +L SI
Sbjct: 65  NINKRSYVDDGDILMPMIGTIGNPIIVKKDRKFAIKNVALIKFTKTDVSNKYVKLFLESI 124

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
                I+ I  G T      K I N P+ +PP+ +Q  + + +       +  +      
Sbjct: 125 HFKHYIKKINRGGTQKFISLKDIRNFPVILPPIEKQNKLIKILEKAEKIKEWRVEADKLT 184

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
            E LK     + +            + +S             ++     ++   + +   
Sbjct: 185 DEYLKSVFLEIYNSASHHPDLKADYLSES-------------LRDVKNGLSRRRKISENK 231

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQND--KRSLRSAQ 309
            +  +           L   N     E  +    V+  +++F  ++   D   R     +
Sbjct: 232 GDIVLRLKDIRENKIDLTELNRIPLNELEKEKYGVERNDLLFIRVNGNKDYVGRCAVFRE 291

Query: 310 VMERGIITSAYMA--VKPHGIDSTYLAWLMRSYDLCKVFYAM--GSGLRQSLKFEDVKRL 365
             E        M   +  +  +  +LA+L+ S    K        S  + ++  + ++RL
Sbjct: 292 FNENIYFNDHIMRVKIDSNQFNPIFLAFLINSEYGKKQLKNHLRTSAGQYTINQKGLERL 351

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
               P I  Q    +       +I++L +    S + +KE   + +  A  G+
Sbjct: 352 KFYQPDISLQNSFVD----LFNKIEILKKDQFNSEIKIKELFDTLMQKAFKGE 400



 Score = 38.2 bits (87), Expect = 2.2,   Method: Composition-based stats.
 Identities = 24/185 (12%), Positives = 52/185 (28%), Gaps = 13/185 (7%)

Query: 36  LNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY----GKL 91
           L+  R     K  I + L+D+          +               +  +L+    G  
Sbjct: 221 LSRRRKISENKGDIVLRLKDIRENKIDLTELNRIPLNELEKEKYGVERNDLLFIRVNGNK 280

Query: 92  GPYLRKAIIADFDGICSTQFLVLQPKDVLPELL-----QGWLLSIDVTQRIEAICEGATM 146
               R A+  +F+        +++ K    +                 Q    +   A  
Sbjct: 281 DYVGRCAVFREFNENIYFNDHIMRVKIDSNQFNPIFLAFLINSEYGKKQLKNHLRTSAGQ 340

Query: 147 SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYI 206
              + KG+  +    P ++ Q    +       +I+ L  ++      +KE    L+   
Sbjct: 341 YTINQKGLERLKFYQPDISLQNSFVD----LFNKIEILKKDQFNSEIKIKELFDTLMQKA 396

Query: 207 VTKGL 211
               L
Sbjct: 397 FKGEL 401


>gi|319901496|ref|YP_004161224.1| restriction modification system DNA specificity domain protein
           [Bacteroides helcogenes P 36-108]
 gi|319416527|gb|ADV43638.1| restriction modification system DNA specificity domain protein
           [Bacteroides helcogenes P 36-108]
          Length = 409

 Score =  114 bits (284), Expect = 4e-23,   Method: Composition-based stats.
 Identities = 61/430 (14%), Positives = 132/430 (30%), Gaps = 40/430 (9%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLN-----TGRTSES---GKDIIYIGLEDVESGT 60
           ++K +    IG IP+ W+V  + +   +       G T+       +   I   D+  G+
Sbjct: 5   KFKQTE---IGLIPEDWEVFSVGKDCIVKARIGWQGLTTSEYLETGEYALITSTDIIDGS 61

Query: 61  GKYLPKDGNSRQSDTSTVSI-FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV 119
             +      S+      V I   +  IL  K G   +  I+ +     +    V   +  
Sbjct: 62  IDWKTCYFVSKFRYEQDVKIQVQENDILISKDGTIGKVGIVRNQPFPATLNSGVFVIRAK 121

Query: 120 LPELLQGW---LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIP-PLAEQVLIREKII 175
             +  +G+    +S    + I  +  G+T+ H   K I +   P+P    EQ  I   + 
Sbjct: 122 NDKKQKGFSLAFVSDYFREFINRLTAGSTIVHLYQKDIVHFKFPLPIDTYEQQRIATALS 181

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVS-YIVTKGLNPDVKMKDSGIEWVGLVPDHWEV 234
                I  L  +  +   + +   Q L++      G +     K      +G + +    
Sbjct: 182 DIDALISALNKKIEKKKLIKQGAMQQLLTGQKRLTGFSEPWVEKR-----LGEIGNLSMC 236

Query: 235 KPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFR 294
           K  F                ++     G   Q+ +      K E ++          +  
Sbjct: 237 KRIFQE--------ETSESGDVPFFKIGTFGQQADAYISSTKYEKFKQMYRFPVKGSILI 288

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR 354
                  +  +   +          ++A     I +  L  +    +         +   
Sbjct: 289 SAAGTIGRTVVYDGEPAYFQDSNIVWLAHDEETILNAVLYHVYHIVEW-----NTENTTI 343

Query: 355 QSLKFEDVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
             L  ++     + +P  + EQ  I  +++         + K E      +  +   +  
Sbjct: 344 ARLYNDNFNNTVINIPVSLSEQAAIAEILSDMDKE----IAKWEVKRTKCECIKQGMMQQ 399

Query: 414 AVTGQIDLRG 423
            +TG+I L  
Sbjct: 400 LLTGKIRLTD 409



 Score = 67.5 bits (163), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 23/166 (13%), Positives = 47/166 (28%), Gaps = 7/166 (4%)

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
             I       +       +    V   +I+         K  +   Q     + +  ++ 
Sbjct: 60  GSIDWKTCYFVSKFRYEQDVKIQVQENDILISKDGTIG-KVGIVRNQPFPATLNSGVFVI 118

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYA-MGSGLRQSLKFEDVKRLPVLVP-PIKEQFDITN 380
              +       +    S    +             L  +D+      +P    EQ  I  
Sbjct: 119 RAKNDKKQKGFSLAFVSDYFREFINRLTAGSTIVHLYQKDIVHFKFPLPIDTYEQQRIAT 178

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
            ++     ID L+  + + I   K  +   +   +TGQ  L G S+
Sbjct: 179 ALSD----IDALISALNKKIEKKKLIKQGAMQQLLTGQKRLTGFSE 220


>gi|15672634|ref|NP_266808.1| type I restriction enzyme specificity protein [Lactococcus lactis
           subsp. lactis Il1403]
 gi|12723557|gb|AAK04750.1|AE006298_3 type I restriction enzyme specificity protein [Lactococcus lactis
           subsp. lactis Il1403]
          Length = 407

 Score =  114 bits (284), Expect = 4e-23,   Method: Composition-based stats.
 Identities = 59/404 (14%), Positives = 124/404 (30%), Gaps = 31/404 (7%)

Query: 24  HWKVVPIKRFTKLN---TGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
            W+   +    +      G++          +  + +   +V++G      +        
Sbjct: 18  DWEERKLLDNVEKVLDYRGKSPAKFGMEWGTEGYLVLSALNVKNGYIDKSVEAKYGDHEL 77

Query: 75  TS---TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV--LPELLQGWLL 129
                  +   KG +++    P    A + D +G    Q  V                L 
Sbjct: 78  FDRWMGNNRLEKGDVVFTTEAPLGNVAQVPDNNGYILNQRAVAFKSLQETDDNFFAQLLR 137

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
           S  V   ++A   G T      K    +   +P   E+     KI     ++D  I    
Sbjct: 138 SPIVQNTLKASSSGGTAKGIGMKEFAKLNARVPETHEEQ---RKIGLFFKQLDDTIVLHQ 194

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNT 249
           R ++LLKE+K+  +  +  K  +   +++    E+     +    +    L     +++ 
Sbjct: 195 RKLDLLKEQKKGYLQKMFPKNGSKIPELR--FAEFADDWEERKLGEVATFLNGRAYKQDE 252

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
            L       L  GN                      VD G++V+ +              
Sbjct: 253 LLDSGKYKVLRVGNFYTNDSWY---YSNMELGDKYYVDKGDLVYTWSATFGPHI-----W 304

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
             E+ I       V+            +   D  ++  +        +   D++   V +
Sbjct: 305 SGEKVIYHYHIWKVELSKFLDRNFTLQLLEADKARLLSSTNGSTMIHVTKGDMESKIVSI 364

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           P I EQ  I +       ++D  +   ++ + LLKE++  F+  
Sbjct: 365 PNIDEQKQIGSF----FKQLDNTITLHQRKLDLLKEQKKGFLQK 404


>gi|282933737|ref|ZP_06339092.1| conserved hypothetical protein [Lactobacillus jensenii 208-1]
 gi|281302116|gb|EFA94363.1| conserved hypothetical protein [Lactobacillus jensenii 208-1]
          Length = 404

 Score =  113 bits (283), Expect = 4e-23,   Method: Composition-based stats.
 Identities = 61/404 (15%), Positives = 138/404 (34%), Gaps = 27/404 (6%)

Query: 25  WKVVPIKRFTKLNTGRTSESG----KDIIYIGLEDVESGTGKY--LPKDGNSRQSDTSTV 78
           WK V + +   +  G               I  +++E+GT  +  +         + +  
Sbjct: 14  WKKVKLGQIADVRDGTHESPKYVSQNGYPLITSKNLENGTINFDDISYISKKDYEEINKR 73

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           S+  K  IL+G +G     AI+           L+    ++    L   + S    +   
Sbjct: 74  SLVEKNDILFGMIGTIGNVAIVKKSGFAIKNVALIKSNSEIPSINLIQIIQSDIFKKYTN 133

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
            +  G +        I      +   +E +LI +        +     +     +L +  
Sbjct: 134 RLNSGNSQKFISLGDIRKFDFKMASKSENMLISKLFKKVDTLLSLQQRKLELENQLKQFN 193

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
            Q L S    + L P V+ +     W        +       V  + RKN  L  +  L+
Sbjct: 194 LQNLFSD--EQRLYPKVRFRGFDEPW--------KKVKLGRNVKRIRRKNKNLETNIPLT 243

Query: 259 LS-YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS-LRSAQVMERGII 316
           +S    ++ + +     +  E+   Y ++  GE  +     +      ++  +    G +
Sbjct: 244 ISAQFGLVDQRDFFGRVVASENLANYILLKRGEFAYNKSYSKEAPYGSIKRLEKYNEGAL 303

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQ----SLKFEDVKRLPVLVPP 371
           ++ Y+A  P  I+S +L     +         + + G R     ++  +D   + + +P 
Sbjct: 304 STLYIAFTPENINSDFLKAFFDTTKWYSHIVQVSTEGARNHGLLNISPQDFFEMSITIPK 363

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
             EQ +I+ + N+     + L+   +Q I   ++ +   +    
Sbjct: 364 SDEQNNISRIYNLM----NSLLSLQQQDINTTQQLKQFLLQNLF 403


>gi|224543617|ref|ZP_03684156.1| hypothetical protein CATMIT_02827 [Catenibacterium mitsuokai DSM
           15897]
 gi|224523443|gb|EEF92548.1| hypothetical protein CATMIT_02827 [Catenibacterium mitsuokai DSM
           15897]
          Length = 390

 Score =  113 bits (283), Expect = 4e-23,   Method: Composition-based stats.
 Identities = 59/393 (15%), Positives = 129/393 (32%), Gaps = 28/393 (7%)

Query: 26  KVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           + V ++    + +G T    K       +I +I ++D++S       +       + S+ 
Sbjct: 2   EYVKLEEICTIVSGGTPSRSKPNYWNNGNIPWIKIKDMKSKYIDSAEEFITEEGLNNSST 61

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPE-LLQGWLLSIDVTQRI 137
            +  +  ILY  +   L +  I   D   +     L  K+         +       + +
Sbjct: 62  KMLKRDTILYS-IFATLGEVGILKIDACTNQAIAGLSLKEDSNILKEYLYYYLKSKKKDV 120

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
             +  G   ++ +   +    +P+ PL +Q  I E +      + + I    R + LL E
Sbjct: 121 NNLGRGVAQNNINLSLLRKFKIPVIPLRQQKKIIEVLDN----VSSTINNYERELALLDE 176

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
             +A    +  +  +   +     I  +             A     + K    ++    
Sbjct: 177 LVKARFVEMFGRPTDKITRYPKVKIGNLIKEGK----ASIKAGPFGSSLKKEFYVKKGFK 232

Query: 258 SLSYGNIIQKLETRNMGLKPES---YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
                 +I+   T       E          V  G+I+   +      +++   +  E G
Sbjct: 233 IYGQEQVIKNDPTFGDYYINEDRFNSLKSCEVHAGDILISLVGT--CGKTMIMPENFEPG 290

Query: 315 IITSAY--MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPP 371
           II      +A     I   Y  +   S DL K+  +         +    +K + +++ P
Sbjct: 291 IINPRLLKIAFDAEFIIPIYFKYFFGSDDLQKILNSASGHSTMNVVNAGMLKNVELIMAP 350

Query: 372 IKEQFDITNVINVET-ARIDVLVEKIEQSIVLL 403
           I+ Q    + +     +R+  L+    + I LL
Sbjct: 351 IELQNQFASFVEEVDKSRLRELLAI--KQIKLL 381


>gi|121609380|ref|YP_997187.1| restriction modification system DNA specificity subunit
           [Verminephrobacter eiseniae EF01-2]
 gi|121554020|gb|ABM58169.1| restriction modification system DNA specificity domain
           [Verminephrobacter eiseniae EF01-2]
          Length = 426

 Score =  113 bits (283), Expect = 4e-23,   Method: Composition-based stats.
 Identities = 52/416 (12%), Positives = 123/416 (29%), Gaps = 32/416 (7%)

Query: 22  PKHWKVVPIKR-FTKLNTGRTSES------GKDIIYIGLEDVES--GTGKYLPKDGNSRQ 72
           P   +  P+    +K   G T           DI +  + D+       +          
Sbjct: 13  PNGVEFKPLGECISKNLGGGTPSRSVASYWDGDIPWASVGDLSIPGNFIRTTRSLITKDG 72

Query: 73  SDTSTVSIFAKGQILYG-KLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
              S  ++   G ++   K+ P   K    D     +     L   D +      +    
Sbjct: 73  LKNSPSNVIRAGDVIVAVKISPGKMKIAATDI--AINQDLRGLTLHDFIDSSFLVY---- 126

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
              Q    I  G  +       +  + +P+PPL  Q  I + +   T     L  E    
Sbjct: 127 -YFQTFSIIGNGTIVKGITTDTLERVKVPVPPLEVQREIVKVLDTFTELEAELEAELEAE 185

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFF------ALVTELN 245
           +E  + + +     + +         K +  +             +         +    
Sbjct: 186 LEARRRQYKYYRDALFSFDERMSGASKQASKQASKQASKQAISIRWMTLSEVGKFMRGRR 245

Query: 246 RKNTKLIESNILSLSYGNIIQKL----ETRNMGLKPESYETYQIVDPGEIVFRFIDLQND 301
                 +E  +  + YG I              ++PE     +   PG++V   +    +
Sbjct: 246 FTKADYVEDGVGCIHYGEIYTHYGTSANEVISHVRPEMKSGLRFAKPGDVVVADVGETVE 305

Query: 302 KRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS-LKFE 360
                 A +    +    +     H ++  ++++ M++           +  + + L  +
Sbjct: 306 DVGKAVAWMGTDDVAIHDHCYAFRHSMNPKFVSYCMQTTSFISEKAKYVARTKVNTLLID 365

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLV----EKIEQSIVLLKERRSSFIA 412
              ++ + VPP++EQ  I  +++   A +  +      +I+      +  R   + 
Sbjct: 366 GFSKIRIPVPPLEEQERIVAILDKFDALVSDISFGLPAEIKARRQQYEHYRDRLLT 421



 Score = 57.9 bits (138), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 23/167 (13%), Positives = 56/167 (33%), Gaps = 12/167 (7%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTK------LIESNILSLSYGNIIQKLETRNMGLKPESY 280
             P+  E KP    +++     T         + +I   S G++              + 
Sbjct: 11  HCPNGVEFKPLGECISKNLGGGTPSRSVASYWDGDIPWASVGDLSIPGNFIRTTRSLITK 70

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM-AVKPHGIDSTYLAWLMRS 339
           +  +      I    + +       +         I            IDS++L +  ++
Sbjct: 71  DGLKNSPSNVIRAGDVIVAVKISPGKMKIAATDIAINQDLRGLTLHDFIDSSFLVYYFQT 130

Query: 340 YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
           + +          + + +  + ++R+ V VPP++ Q +I  V++  T
Sbjct: 131 FSIIG-----NGTIVKGITTDTLERVKVPVPPLEVQREIVKVLDTFT 172


>gi|238787648|ref|ZP_04631446.1| Restriction modification system DNA specificity domain [Yersinia
           frederiksenii ATCC 33641]
 gi|238724435|gb|EEQ16077.1| Restriction modification system DNA specificity domain [Yersinia
           frederiksenii ATCC 33641]
          Length = 418

 Score =  113 bits (283), Expect = 5e-23,   Method: Composition-based stats.
 Identities = 66/405 (16%), Positives = 140/405 (34%), Gaps = 30/405 (7%)

Query: 27  VVPIKRFT-KLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS-TVSIFAKG 84
             PI   T + N  + S+S +   YI L  V   T K       +  +  S    +  K 
Sbjct: 15  WKPIGEVTLRTNNIKWSDSTRSYRYIDLASVSIETKKITETSVVAANNAPSRAQKLVEKD 74

Query: 85  QILYGKLGPYLRKAIIADFDG---ICSTQFLVLQPKDV--LPELLQGWLLSIDVTQRIEA 139
            +++    P   +  + D      + ST + VL+ K    LP+ +  WL S +  + +E 
Sbjct: 75  DVIFATTRPTQMRYCLIDEKYSGEVASTGYCVLRVKKDEVLPKWILHWLSSREFKKYLEE 134

Query: 140 ICEGATMSHADWKGIGNIPMPIPP-------LAEQVLIREKIIAETVRIDTLITERIRFI 192
              G+         +    +PIP        L  Q+ I   +   T     L  E    +
Sbjct: 135 NQSGSAYPAISDAKVKEFRIPIPYPDNPKKSLEIQMKIVRILDTFTELTAELTAELTAEL 194

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
              K++       +++         ++ G+EW  L       +            + +  
Sbjct: 195 TARKKQYNYYREQLLS--------FEEGGVEWKALGEVAIVQRGASPRPIAKYITDDENG 246

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
              I      +  + +      +  E  +  +I++ G+ +            L     + 
Sbjct: 247 VPWIKIGDTSHGSKYVNQTAQKITQEGAQKSRILNSGDFIISNSMSFGRPYILGIRGAIH 306

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY-AMGSGLRQSLKFEDVKRLPVLVPP 371
            G  +   ++     ++S +L   + S  +   +   + SG   +L  + +K LPV +P 
Sbjct: 307 DGWAS---ISGFNGTLNSDFLYHYLSSNGVQNYWAGKINSGSVSNLNADIIKALPVPIPA 363

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           +  Q +I ++++      + L E + + I   K+     R   ++
Sbjct: 364 LSVQKEIASILDNFDILTNSLSEGLPREINQRKKQYEYYRDLLLS 408



 Score = 56.7 bits (135), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 23/167 (13%), Positives = 48/167 (28%), Gaps = 9/167 (5%)

Query: 26  KVVPIKRFTKLNTGRTS--------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +   +     +  G +         +    + +I + D   G+           Q     
Sbjct: 217 EWKALGEVAIVQRGASPRPIAKYITDDENGVPWIKIGDTSHGSKYVNQTAQKITQEGAQK 276

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELL-QGWLLSIDVTQR 136
             I   G  +      + R  I+     I      +      L       +L S  V   
Sbjct: 277 SRILNSGDFIISNSMSFGRPYILGIRGAIHDGWASISGFNGTLNSDFLYHYLSSNGVQNY 336

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
                   ++S+ +   I  +P+PIP L+ Q  I   +    +  ++
Sbjct: 337 WAGKINSGSVSNLNADIIKALPVPIPALSVQKEIASILDNFDILTNS 383


>gi|192361516|ref|YP_001981157.1| type I restriction-modification system, S subunit [Cellvibrio
           japonicus Ueda107]
 gi|190687681|gb|ACE85359.1| type I restriction-modification system, S subunit [Cellvibrio
           japonicus Ueda107]
          Length = 795

 Score =  113 bits (283), Expect = 5e-23,   Method: Composition-based stats.
 Identities = 57/490 (11%), Positives = 116/490 (23%), Gaps = 104/490 (21%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESG--------KDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           +P+ W+ V +    ++  G T              +  +   +++               
Sbjct: 87  LPQGWEWVRLGELAEIIRGVTYSKSQSNEIRFHDSVELLRANNIQ--EIINFQGTVFVPS 144

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAII-----ADFDGICSTQFLVLQPKDVLPELLQG- 126
           S  S       G IL                  ++ +        V++P+  L       
Sbjct: 145 SLVSESQKIKNGDILIAMSSGSPHLVGKAAQFESNRECTFGAFCAVIRPRCTLLFEYFRV 204

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT--- 183
           +  +     +     +G  + + + + + N+ +  PPL EQ  I  KI     R D    
Sbjct: 205 FSQTPLYRSQTRQEGKGIGIQNLNKEALENLLVAAPPLNEQHRIIAKIDELMTRCDELEK 264

Query: 184 --------------------------------------LITERIRFIELLKEKKQALVSY 205
                                                    E     E + E ++A++  
Sbjct: 265 LRAAQQEKRRTVHAAAIKQLLNIADPEQHQHAQSFLAEHFGELYTVKENVAELRKAILQL 324

Query: 206 IVTKGLNPDVKMKDSGIEWVGLV-------------------------------PDHWEV 234
            V   L P         E +  +                               P  WE 
Sbjct: 325 AVMGKLVPQNPNDQPASELLKEIEAEKQRLVEEGKIKKPKPFPPVSDEEKPYALPQGWEW 384

Query: 235 KPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY--------ETYQIV 286
                +V             +               +    KPE+Y           +I 
Sbjct: 385 VRVIDIVDVGTGSTPATTNKDYYGGEIPWYTSSATNKLFTEKPETYITEKALKETNCKIF 444

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF 346
             G ++         +  +    +        A M        +             ++ 
Sbjct: 445 PSGSLIIALYGQGKTRGQISELSIAGATNQAIAAMVFYGSSSGTKKYLKYFFIKIYEEIR 504

Query: 347 YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE---TARIDVLVEKIE-QSIVL 402
                  + +L    +K   V +PP+ EQ  I   I+        +D  +     +   L
Sbjct: 505 KIAEGAAQPNLNVGKIKETLVPLPPLSEQNRIVTKIDELMVFCDTLDQQINIATSKQSEL 564

Query: 403 LKERRSSFIA 412
           L     + + 
Sbjct: 565 LN----ALMH 570



 Score = 67.5 bits (163), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 30/194 (15%), Positives = 60/194 (30%), Gaps = 11/194 (5%)

Query: 220 SGIEWVGLVPDHWEVKPFFA------LVTELNRKNTKLIESNILSLSYGNIIQKLETR-- 271
           +  E    +P  WE             VT    ++ ++   + + L   N IQ++     
Sbjct: 79  TDEEKPYALPQGWEWVRLGELAEIIRGVTYSKSQSNEIRFHDSVELLRANNIQEIINFQG 138

Query: 272 NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS-AQVMERGIITSAYMAVKPHGIDS 330
            + +        Q +  G+I+              +  +        +    ++P     
Sbjct: 139 TVFVPSSLVSESQKIKNGDILIAMSSGSPHLVGKAAQFESNRECTFGAFCAVIRPRCTLL 198

Query: 331 TYLAWLM-RSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
                +  ++          G G+  Q+L  E ++ L V  PP+ EQ  I   I+    R
Sbjct: 199 FEYFRVFSQTPLYRSQTRQEGKGIGIQNLNKEALENLLVAAPPLNEQHRIIAKIDELMTR 258

Query: 389 IDVLVEKIEQSIVL 402
            D L +        
Sbjct: 259 CDELEKLRAAQQEK 272


>gi|77164669|ref|YP_343194.1| restriction modification system DNA specificity subunit
           [Nitrosococcus oceani ATCC 19707]
 gi|254434340|ref|ZP_05047848.1| Type I restriction modification DNA specificity domain protein
           [Nitrosococcus oceani AFC27]
 gi|76882983|gb|ABA57664.1| Restriction modification system DNA specificity domain
           [Nitrosococcus oceani ATCC 19707]
 gi|207090673|gb|EDZ67944.1| Type I restriction modification DNA specificity domain protein
           [Nitrosococcus oceani AFC27]
          Length = 407

 Score =  113 bits (283), Expect = 5e-23,   Method: Composition-based stats.
 Identities = 61/416 (14%), Positives = 144/416 (34%), Gaps = 46/416 (11%)

Query: 21  IPKHWKVVPIKR-FTKLNTGRTSESGK--DIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +P+ WK++P+ +       G  + S    +   +G++D+++G          +       
Sbjct: 16  LPRGWKLLPVGKALIDSQYGTNAASVDAGNTPVVGMKDIQAGKVLTSNLVRANLSDKERA 75

Query: 78  VSIFAKGQILYGKLGPY--LRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
             +  KG IL  +   +  + K  I D D   +    +++ K  L +++  +L       
Sbjct: 76  KYLLEKGDILINRTNSFDLVGKVGIYDSDIEAAFASYLVRLKADLSQVMPEYLNYWLNGH 135

Query: 136 RIEAICEGATMSHADWKGIG------NIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
             +   +           +       +  +P+P + EQ      +       D +I +  
Sbjct: 136 VAQTTIKRIATKAISQANVNPTEFKKHCYIPLPSIGEQREAVSVL----KTNDRVIEKIE 191

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNT 249
           R I   +++ ++L+  +                  +    + W       L   ++ K  
Sbjct: 192 RLIAAKQKRFKSLIQQL------------------INKNCELWPHFKARDLFRNISIKGY 233

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
              +   ++   G + + +    +     S + Y++V PG  V      Q          
Sbjct: 234 GNEKLLSVTQDCGVLPRTMLEGRVMSPEGSTDNYKLVVPGNFVISLRSFQG-----GLEY 288

Query: 310 VMERGIITSAYMAVKPHGIDSTYLA-WLMRSYDLC-KVFYAMGSGLR--QSLKFEDVKRL 365
              +GI++ AY  + P             +SY    K       G+R  + +   D + +
Sbjct: 289 SKYKGIVSPAYTILFPKKEIHDDFYRHFFKSYIFIEKYLVIAVVGIRDGKQISSSDFESV 348

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            +  PP++EQ  I  ++N  T  I    +  ++     + ++   +   +TG+  +
Sbjct: 349 KIPYPPVQEQRYIAEILNTATEEIKKFKQLAKK----YRTQKRGLMQKLLTGKWQV 400


>gi|297587004|ref|ZP_06945649.1| phosphoribosylformylglycinamidine synthase [Finegoldia magna ATCC
           53516]
 gi|297574985|gb|EFH93704.1| phosphoribosylformylglycinamidine synthase [Finegoldia magna ATCC
           53516]
          Length = 485

 Score =  113 bits (283), Expect = 5e-23,   Method: Composition-based stats.
 Identities = 73/424 (17%), Positives = 133/424 (31%), Gaps = 51/424 (12%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            IP+ WK V +    + NTG+          ++ YI   ++     +         +   
Sbjct: 66  DIPETWKWVRVGTIFQHNTGKALNRANREGIELEYITTSNLYWDRFELDNLKKMYFKEIE 125

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
                  KG +L  + G   R AI      +     +              + L      
Sbjct: 126 LKKYGVMKGDLLVCEGGDVGRAAIWEYESSVMIQNHIHRLRAYYSICTRFFYYLFYLYKN 185

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
                 +G  +     + +G+I  P+PPLAEQ  I EKI      +D       +  EL 
Sbjct: 186 AGLIGGKGIGIKGLSTRALGSIVFPLPPLAEQKRIVEKIEELMPLVDKYEKNWQKLEELN 245

Query: 196 KE----KKQALVSYIVTKGLNPDVKMKDSGIEWVG------------------------- 226
           K+     K++L+   +   L    K + +G E                            
Sbjct: 246 KKFPEDMKKSLLQEAIKGKLVEQRKEEGTGAELFEKIQKEKKKLVEEGRIKKQKALPQIT 305

Query: 227 ------LVPDHWEVKPFFALV--TELNRKNTKLIESNILSLSYGN-IIQKLETRNMGLKP 277
                  +P++W+       +   +      K I      ++  N    K++  N     
Sbjct: 306 EEEIPFDIPENWKWTRLNECIDVRDGTHDTPKYIAKGYPLVTSKNLKHGKIDFSNCKFIS 365

Query: 278 ES----YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL 333
           +           VD  +I+F  I    +   +R     E  I   A      +  +  YL
Sbjct: 366 KEDHIKISKRSKVDVNDILFAMIGSIGNPVKVR--DDNEFSIKNMALFKPIKNNFNMDYL 423

Query: 334 AWLMRSYDLCKVFYAMGSGLRQS-LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            W +           +  G  QS +  + ++   + +PP+ EQ  I   ++   A  D L
Sbjct: 424 FWFLYIS--QDNMKKIAYGAVQSFVSLKFLREYLIPLPPLAEQKRIVEKLDEMLAYCDEL 481

Query: 393 VEKI 396
           ++ I
Sbjct: 482 LKII 485



 Score = 61.0 bits (146), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 26/209 (12%), Positives = 56/209 (26%), Gaps = 15/209 (7%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKL------ETRNMG 274
             E    +P+ W+      +      K         + L Y             +     
Sbjct: 60  EDEIPFDIPETWKWVRVGTIFQHNTGKALNRANREGIELEYITTSNLYWDRFELDNLKKM 119

Query: 275 LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
              E       V  G+++                +     +I +    ++ +    T   
Sbjct: 120 YFKEIELKKYGVMKGDLLVCEGGDVGRAAIW---EYESSVMIQNHIHRLRAYYSICTRFF 176

Query: 335 WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
           + +                 + L    +  +   +PP+ EQ  I   I      +D   E
Sbjct: 177 YYLFYLYKNAGLIGGKGIGIKGLSTRALGSIVFPLPPLAEQKRIVEKIEELMPLVDKY-E 235

Query: 395 KIEQSIVLL-----KERRSSFIAAAVTGQ 418
           K  Q +  L     ++ + S +  A+ G+
Sbjct: 236 KNWQKLEELNKKFPEDMKKSLLQEAIKGK 264


>gi|21228395|ref|NP_634317.1| type I restriction-modification system specificity subunit
           [Methanosarcina mazei Go1]
 gi|20906868|gb|AAM31989.1| type I restriction-modification system specificity subunit
           [Methanosarcina mazei Go1]
          Length = 406

 Score =  113 bits (283), Expect = 5e-23,   Method: Composition-based stats.
 Identities = 70/426 (16%), Positives = 134/426 (31%), Gaps = 44/426 (10%)

Query: 8   PQYKDSGVQWIGAIPKHWKVVPIKRFTK----LNTGRTSESGKDIIYIGLEDVESGTGKY 63
           P YK + V   G IP+ W    ++   K    +  G           I +  +++    Y
Sbjct: 12  PGYKQTEV---GVIPEDWNDPKLEDIVKEESPICYGIVQVGSYTANGIPVLAIKNLNSDY 68

Query: 64  LPKDGNSRQSDTSTV--SIFAKGQILYGKLGPYLRKAIIA-DFDGICSTQFLVLQPKDVL 120
                 +          S      +L    G   R  I+   F G  S     L  ++ +
Sbjct: 69  TTNIHRASVEVERPYLRSRVYPEDVLISVKGTTGRIGIVPLGFYGNISRDLARLHLREGI 128

Query: 121 -PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPP-LAEQVLIREKIIAET 178
            P+ +   L S  + Q +     G T        +  + +P PP  AEQ  I E +    
Sbjct: 129 VPKFIFQMLQSNLMQQHLGVAVVGTTRMELSISILKKVRIPFPPTKAEQESIAEALSYTD 188

Query: 179 VRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFF 238
             I++L     +  ++ +   Q L+                +G   +      WE KP  
Sbjct: 189 AFIESLEQLIAKKRQIKQGAMQELL----------------TGKRRLPGFSKEWETKPLG 232

Query: 239 ALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE--SYETYQIVDPGEIVFRFI 296
            +      ++      N        I    +  N        + E  +    G+I+    
Sbjct: 233 DVAEITMGQSPSSANYNSKGEGLPLIQGNADIFNRKTIKRVFTTEITRRGKCGDIIMSVR 292

Query: 297 DLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS 356
               +         + RG+    Y         + +L   + S +      + GS    S
Sbjct: 293 APVGEVSRAEFDICLGRGVCAIRY--------SNNFLYHTLISKESTWAKLSKGS-TFDS 343

Query: 357 LKFEDVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           +   DVK   + +P    EQ  I  +++   A     +  +E+ +   ++ +   +   +
Sbjct: 344 VNSADVKAFDIELPTDSAEQEAIATILSDMDAE----ITALEEKLAKARQIKQGMMQELL 399

Query: 416 TGQIDL 421
           TG+  L
Sbjct: 400 TGRTRL 405



 Score = 82.5 bits (202), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 34/214 (15%), Positives = 68/214 (31%), Gaps = 18/214 (8%)

Query: 224 WVGLVPDHWEVKPFFA------LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKP 277
            VG++P+ W              +     +      + I  L+  N+     T       
Sbjct: 18  EVGVIPEDWNDPKLEDIVKEESPICYGIVQVGSYTANGIPVLAIKNLNSDYTTNIHRASV 77

Query: 278 ESYETY--QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
           E    Y    V P +++            +    +   G I+     +           +
Sbjct: 78  EVERPYLRSRVYPEDVLISVKGTTGRIGIVP---LGFYGNISRDLARLHLREGIVPKFIF 134

Query: 336 LMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPP-IKEQFDITNVINVETARIDVL 392
            M   +L +    +      R  L    +K++ +  PP   EQ  I   +    +  D  
Sbjct: 135 QMLQSNLMQQHLGVAVVGTTRMELSISILKKVRIPFPPTKAEQESIAEAL----SYTDAF 190

Query: 393 VEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
           +E +EQ I   ++ +   +   +TG+  L G S+
Sbjct: 191 IESLEQLIAKKRQIKQGAMQELLTGKRRLPGFSK 224


>gi|119357207|ref|YP_911851.1| restriction modification system DNA specificity subunit [Chlorobium
           phaeobacteroides DSM 266]
 gi|119354556|gb|ABL65427.1| restriction modification system DNA specificity domain [Chlorobium
           phaeobacteroides DSM 266]
          Length = 557

 Score =  113 bits (283), Expect = 5e-23,   Method: Composition-based stats.
 Identities = 68/463 (14%), Positives = 126/463 (27%), Gaps = 87/463 (18%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDII----YIGLEDVESGTGKYLPKDGNSRQSDT 75
            IP  W  V      + N+G+T + G++      YI   ++  G  +         + D 
Sbjct: 86  DIPSSWIWVRFGDIARHNSGKTLDKGRNTGESRDYITTSNLYWGKFELENVRQMLIREDE 145

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLV--LQPKDVLPELLQGWLLSIDV 133
                  K  +L  + G   R A+      +C    +      KD+ P  +  +   +  
Sbjct: 146 LEKCTAKKDDLLICEGGEAGRAAMWPFDSEVCFQNHIHRARFYKDIDPYFVYRFFEKLSA 205

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR------------- 180
           T  I    +G  +S+   K + +I  P+PP +EQ  I  +I     R             
Sbjct: 206 TGEINQHRKGVGISNMSSKSLASIVFPLPPFSEQHRIVARIDQLMARCNELEKLRKEREE 265

Query: 181 ------------------------IDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVK 216
                                   I     E     E + E ++A++   V   L P  +
Sbjct: 266 KRLIVHAAAIKQLFDAPDGSAWGFIQQHFNELYSVKENVAELRKAILQLAVMGRLVPQDQ 325

Query: 217 MKDSGIEWVGL-------------------------------VPDHWEVKPFFALVTELN 245
                 E +                                 +P +W    F  +    +
Sbjct: 326 NDPPASELLKEIEKEKASHECTKSRRKGEKLPEIFNEEMPHKIPSNWAWVRFGDIAQHNS 385

Query: 246 RK---NTKLIESNILSLSYGNIIQK---LETRNMGLKPESYETYQIVDPGEIVFRFIDLQ 299
            K     +        ++  N+ +    LE     L  E           +++       
Sbjct: 386 GKTLDKGRNTGQPREYITTSNLYRGRFELENVRQMLIREDELEKCTAKKDDLLICEGGEA 445

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLK 358
              R+       E       + A     ID  +                   G+   ++ 
Sbjct: 446 G--RAAVWPFDSEVCFQNHIHRARFYKDIDPYFAYRFFEKLSATGEINQHRKGVGISNMS 503

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
            + +  +   +PP  EQ  I    +      D L    +Q I 
Sbjct: 504 SKALASIVFPLPPQPEQHRIVARTDQLMTLCDQL----DQQID 542



 Score = 76.4 bits (186), Expect = 9e-12,   Method: Composition-based stats.
 Identities = 37/190 (19%), Positives = 67/190 (35%), Gaps = 6/190 (3%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDII----YIGLEDVESGTGKYLPKDGNSRQSDT 75
            IP +W  V      + N+G+T + G++      YI   ++  G  +         + D 
Sbjct: 367 KIPSNWAWVRFGDIAQHNSGKTLDKGRNTGQPREYITTSNLYRGRFELENVRQMLIREDE 426

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLV--LQPKDVLPELLQGWLLSIDV 133
                  K  +L  + G   R A+      +C    +      KD+ P     +   +  
Sbjct: 427 LEKCTAKKDDLLICEGGEAGRAAVWPFDSEVCFQNHIHRARFYKDIDPYFAYRFFEKLSA 486

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
           T  I    +G  +S+   K + +I  P+PP  EQ  I  +        D L  +    + 
Sbjct: 487 TGEINQHRKGVGISNMSSKALASIVFPLPPQPEQHRIVARTDQLMTLCDQLDQQIDDAVG 546

Query: 194 LLKEKKQALV 203
              E   A++
Sbjct: 547 KQTEILNAVL 556



 Score = 69.1 bits (167), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 27/187 (14%), Positives = 52/187 (27%), Gaps = 9/187 (4%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNRK------NTKLIESNILSLSYGNIIQKLETRNMGLK 276
           E    +P  W    F  +    + K      NT      I + +      +LE     L 
Sbjct: 82  EIPYDIPSSWIWVRFGDIARHNSGKTLDKGRNTGESRDYITTSNLYWGKFELENVRQMLI 141

Query: 277 PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWL 336
            E           +++          R+       E       + A     ID  ++   
Sbjct: 142 REDELEKCTAKKDDLLICEGGEAG--RAAMWPFDSEVCFQNHIHRARFYKDIDPYFVYRF 199

Query: 337 MRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
                          G+   ++  + +  +   +PP  EQ  I   I+   AR + L + 
Sbjct: 200 FEKLSATGEINQHRKGVGISNMSSKSLASIVFPLPPFSEQHRIVARIDQLMARCNELEKL 259

Query: 396 IEQSIVL 402
            ++    
Sbjct: 260 RKEREEK 266


>gi|315453995|ref|YP_004074265.1| putative type I restriction-modification system [Helicobacter felis
           ATCC 49179]
 gi|315133047|emb|CBY83675.1| putative type I restriction-modification system [Helicobacter felis
           ATCC 49179]
          Length = 437

 Score =  113 bits (283), Expect = 5e-23,   Method: Composition-based stats.
 Identities = 54/418 (12%), Positives = 130/418 (31%), Gaps = 32/418 (7%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDI-----IYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           P+  + V +     L  G + +    +     + I + ++    G               
Sbjct: 15  PQGVEFVELGEVCSLLNGYSFKKSDYVEKSNTLLIRMGNIRPNGGFNPEHKPIYLPDSFL 74

Query: 77  TVSI---FAKGQILYGKLGPYLRKAIIADFDG----ICSTQFLVLQPKDVLPELLQGWL- 128
                   + G IL    G  +    +         + + +            +   +  
Sbjct: 75  EKYKNYALSDGDILIAMSGNNVGMTSLIKNIKGRKLLLNQRVAKPHNLSPNIHVPFLYYV 134

Query: 129 -LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
            ++  V + I+++ + A   +     I  + +P+PPL  Q  I   +   T         
Sbjct: 135 LITQRVKKYIQSLSDAAAQPNLSTASILALKIPLPPLIIQEKIVTILDCFTEL------- 187

Query: 188 RIRFIELLKEKKQALVSYIVTKG------LNPDVKMKDSG-IEW--VGLVPDHWEVKPFF 238
               +   K++    ++ ++  G      L     +K+S  +EW  +G + +        
Sbjct: 188 -SAELSARKKQYSYYLNALLDFGTPTSPRLGRHALLKESFKVEWVELGTIGEFVRGSGLT 246

Query: 239 ALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDL 298
                 +  N +L+ +      +             +  E  +  + V  G +V   +  
Sbjct: 247 KADLHPDNPNGELVGAIHYGEIHTFYNVHTSKTKSFITQELAKKLKPVYCGNLVIVGVSE 306

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSL 357
                    A + +  I          H  +  YLA+L ++            G     L
Sbjct: 307 NPADVCKAVAYLGQETIYIGGDTFALRHQQNPKYLAYLFQTQAFKDFKLKYTCGAKVSRL 366

Query: 358 KFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
             +D+K   + +PP+  Q  I  +++   A    L + +   I   +++ + ++ A +
Sbjct: 367 NLQDLKTFLIPLPPLALQEKIVEILDQFNALTTDLQQGLPAEIEAREKQYTHYLNALL 424


>gi|293393084|ref|ZP_06637399.1| type I restriction enzyme EcoKI specificity protein [Serratia
           odorifera DSM 4582]
 gi|291424230|gb|EFE97444.1| type I restriction enzyme EcoKI specificity protein [Serratia
           odorifera DSM 4582]
          Length = 433

 Score =  113 bits (283), Expect = 5e-23,   Method: Composition-based stats.
 Identities = 55/408 (13%), Positives = 140/408 (34%), Gaps = 39/408 (9%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +PK W    +    +L  G++           L         +     N      S   
Sbjct: 5   KLPKGWGCTLLGHVIELKYGKS-----------LSAQTRDGVGFHVYGSNGVVGKHSIPL 53

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           I   G ++ G+ G +       +      T + +    +   E    +L  + +T     
Sbjct: 54  INHSG-LIVGRKGSFGVVQKSTEPFFPIDTTYYIDDFYNQPLEYWFYYLSFLPLT----K 108

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
           +     +   +     N+ + +PP+ EQ +I EK+     + D       +  ++LK  +
Sbjct: 109 LNRSTAIPGLNRDDAYNLDIVLPPITEQKIIAEKLDTLLAQADRTKARLEQIPQILKRFR 168

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
           Q +++ IV   L+ + +               + +K     +++ + +     E+ I  L
Sbjct: 169 QVMLAAIVNGKLSTNTEQWKI-----------YSLKNLCVSISDGDHQAPPKSETGIPFL 217

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDP------GEIVFRFIDLQNDKRSLRSAQVMER 313
              ++ +         +      Y  +         +I++           +      + 
Sbjct: 218 VISDVNKGKIDLVNVSRWVPESYYLALKEIRKPSLNDILYTVTGSFGIPVVV---NTTKP 274

Query: 314 GIITSAYMAVKPHGI--DSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVP 370
                    +KP+    +  +L++ + S  + K    + +G  ++++    ++   + VP
Sbjct: 275 FCFQRHIAIIKPNSNLINYRFLSFYLESPQIFKHASDVATGTAQKTVSLSSLRNFELSVP 334

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            +KEQ  I + +    A  D + ++++ ++  +     S +A A  G+
Sbjct: 335 SLKEQAVIVHRVEQLFAYADTIEKQVKSALTRVNNLTQSILAKAFRGE 382


>gi|312622840|ref|YP_004024453.1| restriction modification system DNA specificity domain
           [Caldicellulosiruptor kronotskyensis 2002]
 gi|312203307|gb|ADQ46634.1| restriction modification system DNA specificity domain
           [Caldicellulosiruptor kronotskyensis 2002]
          Length = 417

 Score =  113 bits (282), Expect = 6e-23,   Method: Composition-based stats.
 Identities = 62/420 (14%), Positives = 132/420 (31%), Gaps = 36/420 (8%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +P+ WK V +               K I+     D   G     P              
Sbjct: 7   KLPEGWKWVKLGEVLAYEQ-----PNKYIVKDEQYDKRHGIPVLTPGKTFILGFTQEHQG 61

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           I+    ++         + I   F    S+   +L+ K     L   +            
Sbjct: 62  IYNNIPVIIFDDFTTESRYIAFPFKLK-SSAVKILKSKCNFVNLYYVYNSMQL-----LN 115

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
              G+              +P+PPL EQ  I E +      I+       ++  + +   
Sbjct: 116 FKPGSEHKRFWISEYSKFLIPLPPLPEQRKIAEILETIDNAIEKTDAIIEKYKRIKQGLM 175

Query: 200 QALVSYIVTK---GLNPDVKMKDSGIEW-----VGLVPDHWEVKPFFALVTELNRKNT-- 249
           Q L++  V     G +   +++D  I+      +G +P+ WEV   +  V  +N      
Sbjct: 176 QDLLTKGVVNEGEGESERWRLRDENIDKFKDSPLGRIPEEWEVVDVYGHVNLINGGTPST 235

Query: 250 -----KLIESNILSLSYGNIIQKLETRNMGLKPE---SYETYQIVDPGEIVFRFIDLQND 301
                       LS+   NI ++    +     E        +++  G ++         
Sbjct: 236 ERPEFWNGSIPWLSVEDFNIGKRWVFSSSKYITELGLKQSATKLLKKGMLIISARGTVGV 295

Query: 302 KRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFED 361
              L +     +       +  K     S    +    + +          +  ++  E 
Sbjct: 296 LAQLGADMAFNQSCYG---LDAKDKMKLSNDFLYYALKHFITSFLSLAYGNVFNTITRET 352

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            K + + +PP+ EQ  I +++    ++ID ++EK +     L+  +   +   +TG++ +
Sbjct: 353 FKEILIPLPPLPEQQRIASIL----SQIDEVIEKEQAYKEKLERIKKGLMEDLLTGKVRV 408



 Score = 70.2 bits (170), Expect = 6e-10,   Method: Composition-based stats.
 Identities = 35/209 (16%), Positives = 68/209 (32%), Gaps = 11/209 (5%)

Query: 8   PQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTG 61
            ++KDS    +G IP+ W+VV +     L  G T  +         I ++ +ED   G  
Sbjct: 202 DKFKDSP---LGRIPEEWEVVDVYGHVNLINGGTPSTERPEFWNGSIPWLSVEDFNIGKR 258

Query: 62  KYL--PKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV 119
                 K         S   +  KG ++    G     A +        + + +     +
Sbjct: 259 WVFSSSKYITELGLKQSATKLLKKGMLIISARGTVGVLAQLGADMAFNQSCYGLDAKDKM 318

Query: 120 LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
                  +           ++  G   +    +    I +P+PPL EQ  I   +     
Sbjct: 319 KLSNDFLYYALKHFITSFLSLAYGNVFNTITRETFKEILIPLPPLPEQQRIASILSQIDE 378

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVT 208
            I+     + +   + K   + L++  V 
Sbjct: 379 VIEKEQAYKEKLERIKKGLMEDLLTGKVR 407


>gi|229015569|ref|ZP_04172564.1| type I restriction-modification enzyme, S subunit, EcoA [Bacillus
           cereus AH1273]
 gi|229021767|ref|ZP_04178345.1| type I restriction-modification enzyme, S subunit, EcoA [Bacillus
           cereus AH1272]
 gi|228739514|gb|EEL89932.1| type I restriction-modification enzyme, S subunit, EcoA [Bacillus
           cereus AH1272]
 gi|228745716|gb|EEL95723.1| type I restriction-modification enzyme, S subunit, EcoA [Bacillus
           cereus AH1273]
          Length = 404

 Score =  113 bits (282), Expect = 6e-23,   Method: Composition-based stats.
 Identities = 61/403 (15%), Positives = 147/403 (36%), Gaps = 26/403 (6%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           + W+   +      + G+     +      + I   ++ +  G+   +  +    ++  +
Sbjct: 13  EEWETYSLADIADFHKGKGISKNELSSEGELCILYGELYTKYGEVTTEIYSKTNIESKEL 72

Query: 79  SIFAKGQILYGKLGPYLRKA----IIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
               K  +L    G   +       +   + +      +L+ K+ +      + ++    
Sbjct: 73  IKSKKYDVLIPSSGETAKDIACSTCVLQENILIGGDLNILRFKNNIDGRFISYQINGIKK 132

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           Q +    +GAT+ H   +GI  + + IP L EQ  I   +++   +    I  + + I+L
Sbjct: 133 QELSKYAQGATVVHLYSQGIKKLYLKIPNLEEQQKISNLLLSLDEK----IQLQQQKIDL 188

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
           L+E+K+  +  +  K      +M+ +G          WE +    +   +          
Sbjct: 189 LQEQKKGFLQKMFPKADEAQPEMRFAG------FTGDWEERALKEVGDFVRTSIDPQAAP 242

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
           +   + Y             +  +S ++ ++   GE++         KR        +  
Sbjct: 243 DSEFIEYSMPSYDNGRLPEHVLGKSMQSMRLKISGEVLLINKLNVRQKRIWLIEDAPDNA 302

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPP 371
           + ++ +M      ID T+L  LM S    +   ++ SG    ++ +   DV +  + +P 
Sbjct: 303 VASNEFMPFTSEKIDMTFLEQLMLSDKTTRDLESISSGTSNSQKRITPPDVLKYQIKLPK 362

Query: 372 -IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
              EQ  I         ++D ++   +Q I + KE++  F+  
Sbjct: 363 ERDEQEKIGIF----FKQLDNIIVLHQQKIDIYKEQKKGFMQQ 401



 Score = 79.5 bits (194), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 28/202 (13%), Positives = 72/202 (35%), Gaps = 7/202 (3%)

Query: 213 PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
           P ++ K+   EW        ++  F         + +   E  IL         ++ T  
Sbjct: 4   PKLRFKEFDEEW--ETYSLADIADFHKGKGISKNELSSEGELCILYGELYTKYGEVTTEI 61

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY-MAVKPHGIDST 331
                   +        +++           +  +  + E  +I     +    + ID  
Sbjct: 62  YSKTNIESKELIKSKKYDVLIPSSGETAKDIACSTCVLQENILIGGDLNILRFKNNIDGR 121

Query: 332 YLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
           ++++ +      ++           L  + +K+L + +P ++EQ  I+N++      +D 
Sbjct: 122 FISYQINGIKKQELSKYAQGATVVHLYSQGIKKLYLKIPNLEEQQKISNLLLS----LDE 177

Query: 392 LVEKIEQSIVLLKERRSSFIAA 413
            ++  +Q I LL+E++  F+  
Sbjct: 178 KIQLQQQKIDLLQEQKKGFLQK 199


>gi|269978346|gb|ACZ55907.1| putative type I restriction-modification system specificity subunit
           S [Helicobacter pylori]
          Length = 427

 Score =  113 bits (282), Expect = 6e-23,   Method: Composition-based stats.
 Identities = 53/407 (13%), Positives = 129/407 (31%), Gaps = 21/407 (5%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPKDGNSRQSD 74
           PK  +   ++   ++  G T             I +  +ED+            +     
Sbjct: 13  PKGVEFKTLEEVFEIKNGYTPSKNNPEFWKNGTIPWFRMEDIRENGRILKDSIQHITPKA 72

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP---ELLQGWLLSI 131
                +F K  I+          A++   D + + +F  L  K       ++   +    
Sbjct: 73  LKGKKLFPKNSIIISTTATIGEHALLI-VDSLANQRFTFLSKKANCDLALDMKFFFYQCF 131

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            + +  +     +  +  D         PIPPL  Q  I + + A T     L TE    
Sbjct: 132 LLGEWCKNNINVSGFASVDMTAFKKYKFPIPPLEIQQEIVKILDAFTELNTELNTELNTE 191

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           +   K++ Q   +      L+ +   ++     +   P    +K     +     +  KL
Sbjct: 192 LNARKKQYQYYQN----MFLDFNDINQNHKDAKMSAKPYPKRLKTLLQTLAPKGVEFRKL 247

Query: 252 IESNILSLSYGNIIQKLETR-NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
            E   +        +++  +    +          ++        I +     +      
Sbjct: 248 GEVCEIIRGKRVTKKEILDKGKYPVVSGGIGFMGYLNEYNREENTITIAQYGTAGFVNWQ 307

Query: 311 MERGIITSAYMAVKPHGID-STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
            ++        +V P+    + YL +++ +        +  S +  S+   ++ ++ + +
Sbjct: 308 NQKFWANDVCFSVIPNETLINRYLYYVLTNMQNYLYSISNRSAIPYSISSNNIMQITIPI 367

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           PP++ Q +I  +++  +A    L+  I   I   K+     R   + 
Sbjct: 368 PPLEIQQEIVKILDQFSALTTDLLAGIPAEIKARKKQYEYYREKLLT 414


>gi|224437016|ref|ZP_03657997.1| type I restriction-modification system specificity subunit
           [Helicobacter cinaedi CCUG 18818]
 gi|313143488|ref|ZP_07805681.1| predicted protein [Helicobacter cinaedi CCUG 18818]
 gi|313128519|gb|EFR46136.1| predicted protein [Helicobacter cinaedi CCUG 18818]
          Length = 404

 Score =  113 bits (282), Expect = 6e-23,   Method: Composition-based stats.
 Identities = 58/400 (14%), Positives = 114/400 (28%), Gaps = 26/400 (6%)

Query: 23  KHWKVVPIKRFTK-LNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           + W+ V +    K + +G T +S        +I ++  ++V++       +         
Sbjct: 20  EQWQEVRLGEVAKQIVSGGTPKSTQAEYYNGNIPWLNTKEVKNCRIYATERQITELGLCN 79

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
           S+     K  ++    G    K  I       +     +            +   +D   
Sbjct: 80  SSAKWIDKNSVIVAMYGATAGKVAINKIPLTTNQACCNISVDSEKANYNFIYYTLLDSFD 139

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
           R++ +  GA   + +   I N    +PPL  Q  I E + +   +ID L  +      L 
Sbjct: 140 RLDQMTSGAAQQNLNVGLISNFTFLLPPLTTQQKIAEILSSFDDKIDLLHRQNKTLESLA 199

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
               +        +    +  +K  G    G  P             E        I+  
Sbjct: 200 LTLFRHYFIDNPNRSEWEEKPLKYFGNIICGKTP--------PKNQKEYFNGTYPFIKIP 251

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
            +  +             GL  +  +T             I + +   ++         I
Sbjct: 252 DMHNNVFVFQTADSLTQQGLDSQKAKTLPPFSVCVSCIATIGVVSMNANIAQTNQQINSI 311

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
           +               +L   M+S        A G     +L   D   + +L+P  KE 
Sbjct: 312 V-------PHKEHYRYFLYCSMKSSFDELEAMASGGTATANLNTTDFSNMKLLLPREKE- 363

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
             I    + ET      +    + I  L+  R   + A  
Sbjct: 364 --ILRF-HTETLPFFDKIYNNTKQIQNLQAMRDVLLKAIF 400



 Score = 56.3 bits (134), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 18/190 (9%), Positives = 52/190 (27%), Gaps = 8/190 (4%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDG-NSRQSDT 75
             W+  P+K F  +  G+T    +         +I + D+ +    +   D    +  D+
Sbjct: 214 SEWEEKPLKYFGNIICGKTPPKNQKEYFNGTYPFIKIPDMHNNVFVFQTADSLTQQGLDS 273

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
                     +    +   +    +       + Q   + P            +     +
Sbjct: 274 QKAKTLPPFSVCVSCI-ATIGVVSMNANIAQTNQQINSIVPHKEHYRYFLYCSMKSSFDE 332

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
                  G   ++ +     N+ + +P   E +    + +    +I     +      + 
Sbjct: 333 LEAMASGGTATANLNTTDFSNMKLLLPREKEILRFHTETLPFFDKIYNNTKQIQNLQAMR 392

Query: 196 KEKKQALVSY 205
               +A+   
Sbjct: 393 DVLLKAIFKE 402


>gi|261417780|ref|YP_003251462.1| restriction modification system DNA specificity domain protein
           [Geobacillus sp. Y412MC61]
 gi|319767407|ref|YP_004132908.1| restriction modification system DNA specificity domain protein
           [Geobacillus sp. Y412MC52]
 gi|261374237|gb|ACX76980.1| restriction modification system DNA specificity domain protein
           [Geobacillus sp. Y412MC61]
 gi|317112273|gb|ADU94765.1| restriction modification system DNA specificity domain protein
           [Geobacillus sp. Y412MC52]
          Length = 429

 Score =  113 bits (282), Expect = 6e-23,   Method: Composition-based stats.
 Identities = 64/422 (15%), Positives = 141/422 (33%), Gaps = 36/422 (8%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            WK   +     +N       G     + ++DV     ++  K  +   ++ ++ S F  
Sbjct: 5   GWKETRLIDVIDINPRTPLRKGTLAKKVSMQDV----AEFTRKIQSYEIAEFTSGSKFKN 60

Query: 84  GQILYGKLGPYLRK-------AIIADFDGICSTQFLVLQPKDVL--PELLQGWLLSIDVT 134
           G  L  ++ P L          +  +     ST+F+VL+ K+ +   + +    +S +  
Sbjct: 61  GDTLLARITPCLENGKTAYVDILEDNEIAFGSTEFIVLRAKEGITDSKFVYYLAISPEFR 120

Query: 135 QRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
                   G++         + N  + +PPL EQ  I   +      ID  I       +
Sbjct: 121 NVAIKSMTGSSGRQRVQSDVLANTVICLPPLQEQKRIANLL----SAIDDKIELNNEMNK 176

Query: 194 LLKEKKQALVSYIVTKGLNPDV---KMKDSG----IEWVGLVPDHWEVKPFFALVTELNR 246
            L+E  Q +          P+      K SG       +G++P+ W V     L   +  
Sbjct: 177 TLEELAQTIFKRWFVDFEFPNENGEPYKSSGGKFVESELGMIPEGWRVATIGDLGDVVGG 236

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGE-------IVFRFIDLQ 299
                   +  + +    I   +  N   +     +  I + G        +    +   
Sbjct: 237 GTPSKKREDYFTQNGIPWITPKDLSNSKNRYVERGSVDITEEGLKNSSAKLLPKGTVLFS 296

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKF 359
           +       A           + +V PH    +   + +  Y+   +         + +  
Sbjct: 297 SRAPIGYIAIAKNEVTTNQGFKSVIPHKDIGSEFVFQVLKYNKDLIESRASGTTFKEISG 356

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
            ++K++P+++P ++    +    N     +  L+   E+ I  L   R S +   ++G+I
Sbjct: 357 GELKKVPIVLPKME----VIQRYNEAVRSLGKLICNNEEEINALISMRDSLLPKLMSGEI 412

Query: 420 DL 421
            +
Sbjct: 413 RV 414



 Score = 65.6 bits (158), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 39/209 (18%), Positives = 71/209 (33%), Gaps = 16/209 (7%)

Query: 10  YKDSG---VQW-IGAIPKHWKVVPIKRFTKLNTGRTSESG-------KDIIYIGLEDVES 58
           YK SG   V+  +G IP+ W+V  I     +  G T             I +I  +D+ +
Sbjct: 203 YKSSGGKFVESELGMIPEGWRVATIGDLGDVVGGGTPSKKREDYFTQNGIPWITPKDLSN 262

Query: 59  GTGKYLPK---DGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQ 115
              +Y+ +   D        S+  +  KG +L+    P      IA  +   +  F  + 
Sbjct: 263 SKNRYVERGSVDITEEGLKNSSAKLLPKGTVLFSSRAPI-GYIAIAKNEVTTNQGFKSVI 321

Query: 116 PKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKII 175
           P   +      + +       IE+   G T        +  +P+ +P +       E + 
Sbjct: 322 PHKDI-GSEFVFQVLKYNKDLIESRASGTTFKEISGGELKKVPIVLPKMEVIQRYNEAVR 380

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVS 204
           +    I     E    I +       L+S
Sbjct: 381 SLGKLICNNEEEINALISMRDSLLPKLMS 409


>gi|218666566|ref|YP_002426003.1| type I restriction-modification system, S subunit
           [Acidithiobacillus ferrooxidans ATCC 23270]
 gi|218518779|gb|ACK79365.1| type I restriction-modification system, S subunit
           [Acidithiobacillus ferrooxidans ATCC 23270]
          Length = 399

 Score =  113 bits (282), Expect = 6e-23,   Method: Composition-based stats.
 Identities = 57/415 (13%), Positives = 118/415 (28%), Gaps = 42/415 (10%)

Query: 24  HWKVVPIKRFTK-LNTGRTS--ESGKDIIYIGLEDVESGTGKY-LPKDGNSRQSDTSTVS 79
            W V P+ +  + +N G +           +  + +   +  Y L +         S   
Sbjct: 4   GWHVEPLSKVCQLINRGISPVYLDDGGTAVLNQKCIRDHSINYDLGRRHCVTTKRVSADK 63

Query: 80  IFAKGQILYGKLGP-YLRKAII----ADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
           +   G +L    G   L +               +   +++PKD L          I + 
Sbjct: 64  LVRVGDVLVNSTGTGTLGRVAQVRDEPHEPTTVDSHVTIVRPKDGLFFPEFFGYALIAIE 123

Query: 135 QRIEAICEGATMSH---ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            +I+   EG                       + EQ  I   +      I T      + 
Sbjct: 124 NQIQEGGEGCGGQTELARSKLANDYHVSFPTSIPEQRRIVAILDEAFEGIATAKANAEKN 183

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           ++  +E  ++ ++ + +                     + W  K    +         K 
Sbjct: 184 LQNAREVFESHLNAVFS------------------QRGEGWVEKRLDEVGKTQTGSTPKA 225

Query: 252 IES-----NILSLSYGNIIQK--LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
            E      +I  +  G+      +   N GL        ++V     +   I     K +
Sbjct: 226 SEPENLGKHIPFVKPGDFKPDGSITYDNEGLSQNGAAKARLVMAPSAIMVCIGATIGKSA 285

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF-YAMGSGLRQSLKFEDVK 363
             +  +     I S        GI +  + + M + D  +      G      +      
Sbjct: 286 YANRIIATNQQINS---LTPATGISAKMVYYQMITVDFQRRVHENAGQATLPIINKSKWS 342

Query: 364 RLPVLVPP-IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
            L + +PP + EQ  I   ++        L    ++ ++ L E + S +  A  G
Sbjct: 343 SLSIFIPPTVDEQNHIVARLDNLHEETQRLESLYQKKLIALDELKQSLLHQAFNG 397



 Score = 70.2 bits (170), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 34/197 (17%), Positives = 74/197 (37%), Gaps = 9/197 (4%)

Query: 23  KHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           + W    +    K  TG T ++      GK I ++   D +   G     +    Q+  +
Sbjct: 204 EGWVEKRLDEVGKTQTGSTPKASEPENLGKHIPFVKPGDFK-PDGSITYDNEGLSQNGAA 262

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP-ELLQGWLLSIDVTQ 135
              +      +   +G  + K+  A+     + Q   L P   +  +++   ++++D  +
Sbjct: 263 KARLVMAPSAIMVCIGATIGKSAYANRIIATNQQINSLTPATGISAKMVYYQMITVDFQR 322

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPP-LAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           R+      AT+   +     ++ + IPP + EQ  I  ++         L +   + +  
Sbjct: 323 RVHENAGQATLPIINKSKWSSLSIFIPPTVDEQNHIVARLDNLHEETQRLESLYQKKLIA 382

Query: 195 LKEKKQALVSYIVTKGL 211
           L E KQ+L+       L
Sbjct: 383 LDELKQSLLHQAFNGDL 399


>gi|312902064|ref|ZP_07761325.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX0470]
 gi|311290846|gb|EFQ69402.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX0470]
          Length = 380

 Score =  113 bits (282), Expect = 6e-23,   Method: Composition-based stats.
 Identities = 66/395 (16%), Positives = 137/395 (34%), Gaps = 33/395 (8%)

Query: 31  KRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
              T+  +G T ++G       +I +I   ++     +        +  + S+  I  KG
Sbjct: 2   GDITESFSGGTPQAGNSDYYDGEIPFIRSGEINDSQTELF---ITEKGLNNSSAKIVEKG 58

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            ILY   G    +  I+  +G  +   L ++P     E        +   + I       
Sbjct: 59  DILYALYGATSGEVGISQINGAINQAILAIRP-IKEDEPYLIAQWLLKQKESIIRTYLQG 117

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
              +     +  + + +P    +     KI     ++D  IT   R +E LKE K A + 
Sbjct: 118 GQGNLSSSIVKELVLKLPKDKAEQ---AKIGTFFKQLDDTITLHQRKLEQLKELKTAYLQ 174

Query: 205 -YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
              V+     +   K    ++ G     W+ +    L    + KN   +    ++   G 
Sbjct: 175 VMFVSMKTKNNKVPKLRFADFGGE----WDQRKSKELFIPKSEKNQPNLPVLSVTQDSGV 230

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
           + +     ++     S + Y++V+  + V      Q            ++GI + AY   
Sbjct: 231 VYRDQVGIDINYDLTSLKNYKVVNKNDFVISLRSFQG-----GFELSDKKGITSPAYTIF 285

Query: 324 KPHG---IDSTYLAWLMRSYDLCKVFYAMGSGLR--QSLKFEDVKRLPVLVP-PIKEQFD 377
            P      D+ +     +++   +    +  G+R  +S+ F +   L +  P   KEQ  
Sbjct: 286 VPKDIKLHDNLFWKTQFKTFQFIEALKTVTFGIRDGKSISFTEFGDLKLCFPKNKKEQQK 345

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           I          +D  +   +  +  LK  + S++ 
Sbjct: 346 IGKF----FEELDYAISLHQNKLTQLKSLKKSYLQ 376



 Score = 48.3 bits (113), Expect = 0.002,   Method: Composition-based stats.
 Identities = 26/189 (13%), Positives = 52/189 (27%), Gaps = 12/189 (6%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLP----KDGNSRQSDTSTVS 79
            W     K           +S K+   + +  V   +G         D N   +      
Sbjct: 198 EWDQRKSKELF------IPKSEKNQPNLPVLSVTQDSGVVYRDQVGIDINYDLTSLKNYK 251

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV-LPELLQGWLLSIDVTQRIE 138
           +  K   +   L  +     ++D  GI S  + +  PKD+ L + L              
Sbjct: 252 VVNKNDFVIS-LRSFQGGFELSDKKGITSPAYTIFVPKDIKLHDNLFWKTQFKTFQFIEA 310

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
                  +                   +    ++KI      +D  I+     +  LK  
Sbjct: 311 LKTVTFGIRDGKSISFTEFGDLKLCFPKNKKEQQKIGKFFEELDYAISLHQNKLTQLKSL 370

Query: 199 KQALVSYIV 207
           K++ +  + 
Sbjct: 371 KKSYLQNMF 379


>gi|253995601|ref|YP_003047665.1| restriction modification system DNA specificity domain-containing
           protein [Methylotenera mobilis JLW8]
 gi|253982280|gb|ACT47138.1| restriction modification system DNA specificity domain protein
           [Methylotenera mobilis JLW8]
          Length = 397

 Score =  113 bits (282), Expect = 7e-23,   Method: Composition-based stats.
 Identities = 68/419 (16%), Positives = 144/419 (34%), Gaps = 46/419 (10%)

Query: 23  KHWKVVPIKRFTKLNTG--RTSESGK-DIIYIGLEDVESGTGKYLP--KDGNSRQSDTST 77
             WK V ++    +     +T       +  + + D++ G        K         S 
Sbjct: 2   SEWKTVKLEEIASVIDSLHQTPSYSDLGLPMVRVTDIKKGKLNLTNTLKVSKEVFDKFSK 61

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
                KG IL+ ++G Y    I+ D    C  Q       +     L  +L S +    I
Sbjct: 62  NHTPKKGDILFSRVGSYGNTCIVDDETEFCLGQNTAFIVPNENSLFLYYFLNSPNGINEI 121

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           E+   G+T      K I N  +P PP  EQ  I   + +   +ID L  +      + + 
Sbjct: 122 ESSVAGSTQPTVSLKSIKNFEIPQPPHREQKAIASVLSSLDDKIDLLHRQNNTLEYMTE- 180

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
                               +   +E         E+  +      ++ K+ +L  S   
Sbjct: 181 -----------------TLFRQWFVEEALEDWAFVELGEYVNCFNGVSYKSAELNPSKTA 223

Query: 258 SLSYGNIIQKLETRNMGLKPES--YETYQIVDPGEIVFRFIDLQ------NDKRSLRSAQ 309
            ++  +  +    R  G K  +  Y+   +V  G++V    D+        +   + ++ 
Sbjct: 224 MVTLKSFDRNGGFRLDGFKEFTGRYKEQHVVVQGDLVVAHTDITQNAEVIGNPVLVVASP 283

Query: 310 VMERGIITSAYMAVKPH--GIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLP 366
             E  +I+   + V      + + +L  +MR+ +  +      +G     L  + +    
Sbjct: 284 DYETIVISMDLVKVTSKFDWLSNEFLYRMMRTREFKEHCLGYSNGSTVLHLSKQAIPTYE 343

Query: 367 VLVPPIK-EQ--FDIT-NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
             +PP +  Q    I  +++  +   I+         I +L++ R + +   ++G+I +
Sbjct: 344 FFLPPKEKIQSFTTIAKDMLGKKFKNIE--------QIQILEKLRDTLLPKLMSGEIRI 394


>gi|59713721|ref|YP_206496.1| type I restriction-modification system specificity subunit [Vibrio
           fischeri ES114]
 gi|59481969|gb|AAW87608.1| type I restriction-modification system specificity subunit [Vibrio
           fischeri ES114]
          Length = 406

 Score =  113 bits (282), Expect = 7e-23,   Method: Composition-based stats.
 Identities = 75/403 (18%), Positives = 150/403 (37%), Gaps = 21/403 (5%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDII--YIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
             WK V              +   + I   +GLE +ESG   YL +  +   S T T   
Sbjct: 15  SDWKKVKFGDVVFEPKESVKDPVSEGIEHVVGLEHIESGD-MYLRRSASIEGSTTFTKKF 73

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL--PELLQGWLLSIDVTQRIE 138
             KG +L+G+   YL+KA  A F GICS    V++ +D L  P+L+   + +        
Sbjct: 74  V-KGDVLFGRRRAYLKKAAKAKFSGICSGDITVMRARDELLLPDLVPFIVNNEKFFDYAI 132

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
               G       +K + N    IP   +Q  +   +      +   +  + + +  L+ +
Sbjct: 133 THSAGGLSPRVKFKDLANFEFFIPSKTDQKKLLSLLEGLDESLQNELILKQKLVSNLEAQ 192

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
            +  +      G   +  +K    +         ++K    ++       ++++ES I  
Sbjct: 193 IEHQIHGEHLDGKTINQVIKSLSSKK-----KIIKLKGLGEIIKGKGIAKSEVVESGIPC 247

Query: 259 LSYGNIIQK----LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME-R 313
           + YG +  K    +   +  +  +S E    +   +++F        +    +A      
Sbjct: 248 VRYGELYTKHHRMIRKFHSYISLKSSEKSVKLRVNDVLFAGSGETISEIGKSAAFTESVD 307

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPI 372
               S  +  +P  +D +YL +LM S  +      +G+G     +   D++++ V     
Sbjct: 308 AYAGSDILIFRPKDMDGSYLGYLMNSLLVRHQLNKLGTGATVMHVYGSDIQKIVVPYRDK 367

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            EQ  I N +    + I +L    ++ I   KE  +  ++   
Sbjct: 368 DEQVQIANCLEEIASNIRLL----DRKIHKTKELLAVLLSKVF 406


>gi|302037933|ref|YP_003798255.1| putative type I restriction-modification system, specificity
           subunit [Candidatus Nitrospira defluvii]
 gi|300605997|emb|CBK42330.1| putative Type I restriction-modification system, specificity
           subunit [Candidatus Nitrospira defluvii]
          Length = 404

 Score =  113 bits (282), Expect = 7e-23,   Method: Composition-based stats.
 Identities = 54/417 (12%), Positives = 124/417 (29%), Gaps = 39/417 (9%)

Query: 24  HWKVVPIKRFT-KLNTGR--------TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
            W+   ++     +  G          S      +YI  +++ +                
Sbjct: 4   GWQTKKLRDVCVTIQDGAHESPQRQFDSPGKGRFLYITSKNIRNNCLDLGNVSYVEEDFH 63

Query: 75  TSTVSIFAK--GQILYGKLGPYLRKAIIADFDGICS----TQFLVLQPKDVLPELLQGWL 128
                      G +L  K G       +   D   S       +  +P  + P  L  ++
Sbjct: 64  NRIYPRCKPSVGDVLLTKDGANTGNVTLNTLDEPFSLLSSVCLIKTKPDALKPGFLSYYI 123

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
            S D  + I     GA +     + I   P+PIPPL+EQ  I   +      +       
Sbjct: 124 QSPDGLESITGQMTGAAIKRIILRDIKLAPIPIPPLSEQRRIVGILDEAFDGLARATANA 183

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN 248
            + +   +   ++ +  +VT+                G      ++      +T      
Sbjct: 184 EQNLRNARALFESHLQSVVTQR---------------GEGWVDRKLDSLCREITVGYVGP 228

Query: 249 --TKLIESNILSLSYGN----IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK 302
             ++  ++ +  L   N     +      ++  + +       + PG++           
Sbjct: 229 MASEYTDTGVTFLRSQNIRPFHVSLENVLSISREFDVKIAKSRLRPGDVAVVRTGYPGTA 288

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY-AMGSGLRQSLKFED 361
             + ++  + +       +      ++  +LA    S          +    ++      
Sbjct: 289 AVIPAS--LPKANCADLVIVRPGSEVEPQFLAAFFNSSYGKLHVSGKVVGAAQKHFNVGA 346

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            K   + +PP+++Q  I    N   A    L    +Q +  L E + S +  A +G+
Sbjct: 347 AKETVLHLPPLQDQRRIIVKFNALAAETQRLESIYQQKLAALGELKKSLLHEACSGK 403



 Score = 47.9 bits (112), Expect = 0.003,   Method: Composition-based stats.
 Identities = 31/198 (15%), Positives = 60/198 (30%), Gaps = 9/198 (4%)

Query: 23  KHWKVVPIKRFT-KLNTGRTSESGKDIIYIGLEDVESGTGKYL------PKDGNSRQSDT 75
           + W    +     ++  G       +    G+  + S   +            +      
Sbjct: 207 EGWVDRKLDSLCREITVGYVGPMASEYTDTGVTFLRSQNIRPFHVSLENVLSISREFDVK 266

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIAD--FDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
              S    G +   + G     A+I        C+   +V    +V P+ L  +  S   
Sbjct: 267 IAKSRLRPGDVAVVRTGYPGTAAVIPASLPKANCADLVIVRPGSEVEPQFLAAFFNSSYG 326

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
              +     GA   H +        + +PPL +Q  I  K  A       L +   + + 
Sbjct: 327 KLHVSGKVVGAAQKHFNVGAAKETVLHLPPLQDQRRIIVKFNALAAETQRLESIYQQKLA 386

Query: 194 LLKEKKQALVSYIVTKGL 211
            L E K++L+    +  L
Sbjct: 387 ALGELKKSLLHEACSGKL 404


>gi|257891262|ref|ZP_05670915.1| predicted protein [Enterococcus faecium 1,231,410]
 gi|257827622|gb|EEV54248.1| predicted protein [Enterococcus faecium 1,231,410]
          Length = 421

 Score =  113 bits (282), Expect = 7e-23,   Method: Composition-based stats.
 Identities = 57/406 (14%), Positives = 141/406 (34%), Gaps = 27/406 (6%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            WK + +   T    G  ++    +  + +        +     GN    +    ++  K
Sbjct: 22  DWKKLKLSSVTSRVRG--NDGRMSLPTLTISARNGWLDQRERFSGNIAGKEQKNYTLLRK 79

Query: 84  GQILYGKLGPYLRKAIIADF----------DGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
           G++ Y K    L K  +                 S +         +  L +    + ++
Sbjct: 80  GELSYNKGNSKLAKYGVVFMLDNFEEALVPRVYHSFKTTNEASSKYIEYLFETKKPNKEL 139

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            + I +      + + ++     I + IP + EQ    +K+ +   +ID  IT + + + 
Sbjct: 140 RKLITSGARMDGLLNINYDDFMGIKITIPKIKEQ----KKLGSLFKQIDGTITLQQQLLT 195

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPD-----HWEVKPFFALVTELNRKN 248
             K+ K+AL+  +  +      K++ +G      + +       +V     +  E   ++
Sbjct: 196 DYKQFKKALLQQLFPQKGESVPKIRFTGFSDDWELKELKEFIGEDVSDGDWIQKEHIHES 255

Query: 249 TKLIESNILSLSYGNIIQKLET-RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
            +       ++  G  I K E+ + +  +         ++PG+I+   +     +  +  
Sbjct: 256 GEYRIVQTGNIGIGRYIDKPESAKYLNQESFDELKANEINPGDILISRLADPAGRALILP 315

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLP 366
               +        +        S +L   M S +         SG   + L  ++++++ 
Sbjct: 316 FTSSKMVTAVDVAIIRPNKNFISHFLVTRMNSSETLNDISKQVSGTSHKRLSRKNLEKIE 375

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           + VP I+EQ  I         ++D  +   EQ +   +E + + + 
Sbjct: 376 LNVPNIEEQEKIG----QLFKKLDEAIAGHEQKLATYQELKKALLQ 417



 Score = 75.6 bits (184), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 25/161 (15%), Positives = 62/161 (38%), Gaps = 11/161 (6%)

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS-AQVMERGIITSAY 320
              + + E  +  +  +  + Y ++  GE+ +   + +  K  +       E  ++   Y
Sbjct: 53  NGWLDQRERFSGNIAGKEQKNYTLLRKGELSYNKGNSKLAKYGVVFMLDNFEEALVPRVY 112

Query: 321 MAVKP-HGIDSTYLAWLMRSYDLCKVFYA-MGSGLRQ----SLKFEDVKRLPVLVPPIKE 374
            + K  +   S Y+ +L  +    K     + SG R     ++ ++D   + + +P IKE
Sbjct: 113 HSFKTTNEASSKYIEYLFETKKPNKELRKLITSGARMDGLLNINYDDFMGIKITIPKIKE 172

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           Q      +     +ID  +   +Q +   K+ + + +    
Sbjct: 173 QKK----LGSLFKQIDGTITLQQQLLTDYKQFKKALLQQLF 209


>gi|150006640|ref|YP_001301384.1| type I restriction enzyme EcoAI specificity protein [Bacteroides
           vulgatus ATCC 8482]
 gi|212691152|ref|ZP_03299280.1| hypothetical protein BACDOR_00642 [Bacteroides dorei DSM 17855]
 gi|149935064|gb|ABR41762.1| type I restriction enzyme EcoAI specificity protein [Bacteroides
           vulgatus ATCC 8482]
 gi|212666384|gb|EEB26956.1| hypothetical protein BACDOR_00642 [Bacteroides dorei DSM 17855]
          Length = 449

 Score =  113 bits (282), Expect = 7e-23,   Method: Composition-based stats.
 Identities = 60/383 (15%), Positives = 131/383 (34%), Gaps = 16/383 (4%)

Query: 21  IPKHWKVVPIKRF-TKLNTGRTSESGK--DIIYIGLEDVES-GTGKYLPKDGNSRQSDTS 76
           +P  W+   ++    +L  G + +S     I  + + ++ + GT  Y     +S   D  
Sbjct: 68  LPNGWEWCNLEDIVCELKYGTSEKSLSVGKIAVLRMGNITNVGTIDYSNLVYSSNNEDIK 127

Query: 77  TVSIFAKGQILYGKLGP---YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
             S+  K  +L+ +        + AI           +L+     ++       +++   
Sbjct: 128 LYSL-EKDDLLFNRTNSSEWVGKTAIYKKEQPAIYAGYLIRIRPILIFSDYLNTVMNSSY 186

Query: 134 TQRIEAICEGA--TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            +      +      S+ + + +  + +PIPPL EQ  I  ++      IDT+   +   
Sbjct: 187 YRNWCYNVKTDAVNQSNINAQKLSQLMIPIPPLKEQERIVVEVAKWISLIDTIKNSKEDL 246

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
              +K+ K  +++  +   L P     +  IE +  +   +                   
Sbjct: 247 QTTIKQAKSKILNLAIHGKLVPQDPNDEPAIELLKRINPDFTPCDNGHYTQLPEGWAIC- 305

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
               I S++ G   + +ET N                  +      +   K ++ +   +
Sbjct: 306 KMKQITSITNGKSQKNVETLNGIYPIYGSGGVIGRANQYLCIAGSTIIGRKGTINNPIFV 365

Query: 312 ERGIIT--SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
           E       +A+       I   YL +   S+D  K+     S    SL    +  + + +
Sbjct: 366 EEHFWNVDTAFGLKANDAILDKYLYYFCLSFDFSKL---DKSTAMPSLTKTSIGNVLIPI 422

Query: 370 PPIKEQFDITNVINVETARIDVL 392
           PP KEQ  I   I++    ++ +
Sbjct: 423 PPYKEQERIVAKIDMVLDTMNEI 445



 Score = 79.5 bits (194), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 38/197 (19%), Positives = 74/197 (37%), Gaps = 7/197 (3%)

Query: 229 PDHWEVKPFFALVTELNRKNTK--LIESNILSLSYGNIIQKLETRNMGLKPESYE---TY 283
           P+ WE      +V EL    ++  L    I  L  GNI          L   S       
Sbjct: 69  PNGWEWCNLEDIVCELKYGTSEKSLSVGKIAVLRMGNITNVGTIDYSNLVYSSNNEDIKL 128

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC 343
             ++  +++F   +           +  +  I     + ++P  I S YL  +M S    
Sbjct: 129 YSLEKDDLLFNRTNSSEWVGKTAIYKKEQPAIYAGYLIRIRPILIFSDYLNTVMNSSYYR 188

Query: 344 KVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
              Y + +    + ++  + + +L + +PP+KEQ  I   +    + ID +    E    
Sbjct: 189 NWCYNVKTDAVNQSNINAQKLSQLMIPIPPLKEQERIVVEVAKWISLIDTIKNSKEDLQT 248

Query: 402 LLKERRSSFIAAAVTGQ 418
            +K+ +S  +  A+ G+
Sbjct: 249 TIKQAKSKILNLAIHGK 265



 Score = 57.9 bits (138), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 34/164 (20%), Positives = 62/164 (37%), Gaps = 16/164 (9%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +P+ W +  +K+ T +  G++ +           +VE+  G Y P  G+      +   
Sbjct: 297 QLPEGWAICKMKQITSITNGKSQK-----------NVETLNGIY-PIYGSGGVIGRANQY 344

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           +   G  + G+ G       + +      T F +     +L + L  + LS D       
Sbjct: 345 LCIAGSTIIGRKGTINNPIFVEEHFWNVDTAFGLKANDAILDKYLYYFCLSFDF----SK 400

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           + +   M       IGN+ +PIPP  EQ  I  KI      ++ 
Sbjct: 401 LDKSTAMPSLTKTSIGNVLIPIPPYKEQERIVAKIDMVLDTMNE 444


>gi|83776726|gb|ABC46686.1| Sau1hsdS1 [Staphylococcus aureus]
          Length = 407

 Score =  113 bits (282), Expect = 7e-23,   Method: Composition-based stats.
 Identities = 69/406 (16%), Positives = 156/406 (38%), Gaps = 37/406 (9%)

Query: 24  HWKVVPIKRFT-KLNTGRTSE------SGKDIIYIGLEDVESGTGKYLP-KDGNSRQSDT 75
            W+   +   T K+ +G+T +      + K I ++  +++ +G          +    D 
Sbjct: 20  EWEEKKLGNLTTKIGSGKTPKGGSENYTNKGIPFLRSQNIRNGKLNLNDLVYISKDIDDE 79

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIA---DFDGICSTQ-FLVLQPKDVLPELLQGWLLSI 131
              S    G +L    G  + +  I    +     +    ++   K+        +LLS 
Sbjct: 80  MKNSRTYYGDVLLNITGASIGRTAINSIVETHANLNQHVCIIRLKKEYYYNFFGQYLLSR 139

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
              ++I     G +    ++K I N+ +  P + E+    +KI     ++D  I    + 
Sbjct: 140 KGKRKIFLAQSGGSREGLNFKEIANLKIFTPTIFEEQ---QKIGQFFSKLDQQIELEEQK 196

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           +ELL+++K+  +  I ++ L           +       HWE       + E N ++   
Sbjct: 197 LELLQQQKKGYMQKIFSQEL--------RFKDENSEDYPHWESSKIEKYLKERNERSD-- 246

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
               +       II+  E        +    Y++V   +I +  + +        +    
Sbjct: 247 KGQMLSVTINSGIIKFSELDRKDNSSKDKSNYKVVRKNDIAYNSMRMWQGASGKSNY--- 303

Query: 312 ERGIITSAYMAVKPHGIDSTYL-AWLMRSYDLCKVFYAMGSGLR---QSLKFEDVKRLPV 367
             GI++ AY  + P    S+    +  +++ +   F     GL     +LK++ +K + +
Sbjct: 304 -NGIVSPAYTVLYPTQNTSSLFIGYKFKTHRMIHKFKINSQGLTSDTWNLKYKQLKNINI 362

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            +P ++EQ  I +       ++D+L+ K +  I +L++ + SF+  
Sbjct: 363 DIPVLEEQEKIGDF----FKKMDILISKQKMKIEILEKEKQSFLQK 404



 Score = 65.6 bits (158), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 23/181 (12%), Positives = 51/181 (28%), Gaps = 6/181 (3%)

Query: 215 VKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK----LET 270
            +++  G E          +             +       I  L   NI        + 
Sbjct: 10  PELRFPGFEGEWEEKKLGNLTTKIGSGKTPKGGSENYTNKGIPFLRSQNIRNGKLNLNDL 69

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
             +    +          G+++         + ++ S       +     +         
Sbjct: 70  VYISKDIDDEMKNSRTYYGDVLLNITGASIGRTAINSIVETHANLNQHVCIIRLKKEYYY 129

Query: 331 TYLA-WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI-KEQFDITNVINVETAR 388
            +   +L+      K+F A   G R+ L F+++  L +  P I +EQ  I    +    +
Sbjct: 130 NFFGQYLLSRKGKRKIFLAQSGGSREGLNFKEIANLKIFTPTIFEEQQKIGQFFSKLDQQ 189

Query: 389 I 389
           I
Sbjct: 190 I 190



 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 34/184 (18%), Positives = 67/184 (36%), Gaps = 9/184 (4%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKD-GNSRQSDTSTVSIFA 82
           HW+   I+++ K    R+ +       + +  + SG  K+   D  ++   D S   +  
Sbjct: 228 HWESSKIEKYLKERNERSDKGQM----LSVT-INSGIIKFSELDRKDNSSKDKSNYKVVR 282

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           K  I Y  +  +   +  ++++GI S  + VL P      L  G+            I  
Sbjct: 283 KNDIAYNSMRMWQGASGKSNYNGIVSPAYTVLYPTQNTSSLFIGYKFKTHRMIHKFKINS 342

Query: 143 G---ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
               +   +  +K + NI + IP L EQ  I +      + I     +     +  +   
Sbjct: 343 QGLTSDTWNLKYKQLKNINIDIPVLEEQEKIGDFFKKMDILISKQKMKIEILEKEKQSFL 402

Query: 200 QALV 203
           Q + 
Sbjct: 403 QKMF 406


>gi|121583287|ref|YP_973723.1| restriction modification system DNA specificity subunit
           [Polaromonas naphthalenivorans CJ2]
 gi|120596545|gb|ABM39981.1| restriction modification system DNA specificity domain [Polaromonas
           naphthalenivorans CJ2]
          Length = 412

 Score =  113 bits (282), Expect = 7e-23,   Method: Composition-based stats.
 Identities = 71/415 (17%), Positives = 150/415 (36%), Gaps = 29/415 (6%)

Query: 23  KHWKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
             W    ++  T LN    ++       ++ ++ ++ +    G              +  
Sbjct: 2   SGWAQTRLRYVTDLNPPVRADLLAALDTELSFLPMDSI-GENGSLNLARTRPIAEVRNGY 60

Query: 79  SIFAKGQILYGKLGPYLRKA------IIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
           S F  G + + K+ P            +    G  +T+  VL+PK         +++  +
Sbjct: 61  SYFEDGDVAFAKVTPCFENGKGALMQGLEKGAGFGTTEITVLRPKTGTNARYLRYIVQSE 120

Query: 133 VTQR--IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
           + ++  + A+     +         +     P    Q  I   +  +T RID LI E+ R
Sbjct: 121 MFRQLGVGAMTGAGGLKRVPDDFTRDFKTVWPEAVAQERIANFLDDKTARIDALIAEKER 180

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIE-WVGLVPDHWEVKPFFALVTELNRKNT 249
            + LL E + ++ + ++ +          SG+   +G   D      F +     +  N 
Sbjct: 181 LLALLNEHRLSVSAQVLAEA--------SSGLRAKLGFCVDLLPGYAFPSDEFSRDAGNI 232

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQ---NDKRSLR 306
            L+    ++ +    I+  ET     + +S      +  G++V            + ++ 
Sbjct: 233 PLLRGINVAPAS---IRWDETVYWSREYDSSLERFRLQQGDVVLGMDRPWISSGARVAMI 289

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRL 365
                   ++           +   +L + + S +  +      +G+    L  E + R 
Sbjct: 290 DEASAGSFLLQRVCRLRGGVRLTQRFLFFALLSDEFRQSVEVDLTGVSVPHLSPEQILRF 349

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQID 420
            V V  + EQ    +V + +  +I+ L     Q +  L+E RSS I+AAVTGQ+D
Sbjct: 350 KVPVLTVDEQRVRCDVADRQLLKIEQLEAHTLQMLDRLREYRSSLISAAVTGQLD 404


>gi|319939009|ref|ZP_08013373.1| type I restriction-modification system specificity subunit
           [Streptococcus anginosus 1_2_62CV]
 gi|319812059|gb|EFW08325.1| type I restriction-modification system specificity subunit
           [Streptococcus anginosus 1_2_62CV]
          Length = 392

 Score =  113 bits (282), Expect = 7e-23,   Method: Composition-based stats.
 Identities = 59/414 (14%), Positives = 128/414 (30%), Gaps = 44/414 (10%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESG 59
            +P++K++        P  WK   +       +G T   G       +I +I   ++ S 
Sbjct: 14  RFPEFKNT--------PA-WKQRKLGEVAVSFSGGTPSIGNSKYYNGEIPFIRSAEINSA 64

Query: 60  TGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV 119
                           S+  +   G ILY   G    +  I+  +G  +   L ++P D 
Sbjct: 65  ---ITELYLTEEGLKNSSAKMVNVGDILYALYGATSGEVGISKINGAINQAILAIKPYDA 121

Query: 120 LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
                    L       I+   +G    +     +  + +P P L EQ  I +       
Sbjct: 122 YNSKFIEQWLKNQKKNIIDKYLQG-GQGNLSAAIVKKLLIPFPSLPEQTAIGDF----FS 176

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFA 239
            +D  I    R +E LK +K++L+  +  K      K++    +        WE +    
Sbjct: 177 TLDRSIALHQRELENLKNRKKSLLQKMFPKNGESVPKIRFPEFKNAPA----WEQRKLGE 232

Query: 240 LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQ 299
           +V+   +   K       S+                  +      ++   +         
Sbjct: 233 VVSAEKKGKAKADMIGDESVYLDTEYLNGGQIVKVNAVKDTYLDDVIILWDGSQAGTLYY 292

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKF 359
             + +L S         +S ++               ++S     ++    +     +  
Sbjct: 293 GFEGALGSTLKAYTISESSLFI------------YQQLKS-RQQIIYEKYRTPNIPHVIK 339

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
             +    V +P + EQ  I +      + +D  +   ++ +  LK R+ + +  
Sbjct: 340 TFLDEFGVYIPSLPEQTAIGDF----FSTLDRSIALHQRKLEHLKLRKKALLQK 389


>gi|254881457|ref|ZP_05254167.1| type I restriction enzyme EcoAI specificity protein [Bacteroides
           sp. 4_3_47FAA]
 gi|254834250|gb|EET14559.1| type I restriction enzyme EcoAI specificity protein [Bacteroides
           sp. 4_3_47FAA]
          Length = 450

 Score =  112 bits (281), Expect = 7e-23,   Method: Composition-based stats.
 Identities = 59/383 (15%), Positives = 131/383 (34%), Gaps = 16/383 (4%)

Query: 21  IPKHWKVVPIKRF-TKLNTGRTSESGK--DIIYIGLEDVES-GTGKYLPKDGNSRQSDTS 76
           +P  W+   ++    +L  G + +S     I  + + ++ + GT  Y     +S   D  
Sbjct: 69  LPNGWEWCNLEDIVCELKYGTSEKSLSVGKIAVLRMGNITNVGTIDYSNLVYSSNNEDIK 128

Query: 77  TVSIFAKGQILYGKLGP---YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
             S+  K  +L+ +        + AI           +L+     ++       +++   
Sbjct: 129 LYSL-EKDDLLFNRTNSSEWVGKTAIYKKEQPAIYAGYLIRIRPILIFSDYLNTVMNSSY 187

Query: 134 TQRIEAICEGA--TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            +      +      S+ + + +  + +PIPPL EQ  I  ++      I+T+   +   
Sbjct: 188 YRNWCYNVKTDAVNQSNINAQKLSQLMIPIPPLKEQERIVVEVAKWISLINTIKNSKEDL 247

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
              +K+ K  +++  +   L P     +  IE +  +   +                   
Sbjct: 248 QTTIKQAKSKILNLAIHGKLVPQDPNDEPAIELLKRINPDFTPCDNGHYTQLPEGWAIC- 306

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
               I S++ G   + +ET N                  +      +   K ++ +   +
Sbjct: 307 KMKQITSITNGKSQKNVETLNGIYPIYGSGGVIGRANQYLCIAGSTIIGRKGTINNPIFV 366

Query: 312 ERGIIT--SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
           E       +A+       I   YL +   S+D  K+     S    SL    +  + + +
Sbjct: 367 EEHFWNVDTAFGLKANDAILDKYLYYFCLSFDFSKL---DKSTAMPSLTKTSIGNVLIPI 423

Query: 370 PPIKEQFDITNVINVETARIDVL 392
           PP KEQ  I   I++    ++ +
Sbjct: 424 PPYKEQERIVAKIDMVLDTMNEI 446



 Score = 77.9 bits (190), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 37/197 (18%), Positives = 74/197 (37%), Gaps = 7/197 (3%)

Query: 229 PDHWEVKPFFALVTELNRKNTK--LIESNILSLSYGNIIQKLETRNMGLKPESYE---TY 283
           P+ WE      +V EL    ++  L    I  L  GNI          L   S       
Sbjct: 70  PNGWEWCNLEDIVCELKYGTSEKSLSVGKIAVLRMGNITNVGTIDYSNLVYSSNNEDIKL 129

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC 343
             ++  +++F   +           +  +  I     + ++P  I S YL  +M S    
Sbjct: 130 YSLEKDDLLFNRTNSSEWVGKTAIYKKEQPAIYAGYLIRIRPILIFSDYLNTVMNSSYYR 189

Query: 344 KVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
              Y + +    + ++  + + +L + +PP+KEQ  I   +    + I+ +    E    
Sbjct: 190 NWCYNVKTDAVNQSNINAQKLSQLMIPIPPLKEQERIVVEVAKWISLINTIKNSKEDLQT 249

Query: 402 LLKERRSSFIAAAVTGQ 418
            +K+ +S  +  A+ G+
Sbjct: 250 TIKQAKSKILNLAIHGK 266



 Score = 57.9 bits (138), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 34/164 (20%), Positives = 62/164 (37%), Gaps = 16/164 (9%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +P+ W +  +K+ T +  G++ +           +VE+  G Y P  G+      +   
Sbjct: 298 QLPEGWAICKMKQITSITNGKSQK-----------NVETLNGIY-PIYGSGGVIGRANQY 345

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           +   G  + G+ G       + +      T F +     +L + L  + LS D       
Sbjct: 346 LCIAGSTIIGRKGTINNPIFVEEHFWNVDTAFGLKANDAILDKYLYYFCLSFDF----SK 401

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           + +   M       IGN+ +PIPP  EQ  I  KI      ++ 
Sbjct: 402 LDKSTAMPSLTKTSIGNVLIPIPPYKEQERIVAKIDMVLDTMNE 445


>gi|254303928|ref|ZP_04971286.1| type I site-specific deoxyribonuclease specificity subunit
           [Fusobacterium nucleatum subsp. polymorphum ATCC 10953]
 gi|148324120|gb|EDK89370.1| type I site-specific deoxyribonuclease specificity subunit
           [Fusobacterium nucleatum subsp. polymorphum ATCC 10953]
          Length = 429

 Score =  112 bits (281), Expect = 7e-23,   Method: Composition-based stats.
 Identities = 61/397 (15%), Positives = 134/397 (33%), Gaps = 31/397 (7%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           P   +   +     L  G T            DI +  +ED+    G  L        + 
Sbjct: 13  PNGVEYKKLGEIFNLKNGYTPSKANKEYWENTDINWFRIEDINI-NGGILEDSIQKVNTK 71

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV---LPELLQGWLLSI 131
               S+F+   ++        + A+I   D IC+ QF  L  K+    +      +    
Sbjct: 72  GIKGSLFSAKSLIVSTTATIGKHALILK-DFICNQQFTCLTIKEDYEKIYNGKFMYYYFF 130

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            + +  +   + ++    D        +P+PPL  Q  I   +   T  ++ L  +    
Sbjct: 131 KINELTKKNLKVSSFPSVDMDKFKKFLIPLPPLEIQDEIVRVLDNYTKSVEELKEKLNEE 190

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           +   K++      Y++              I  +G + +          V +   +    
Sbjct: 191 LIARKKQYSWYRDYLLKFE-------NKIEIVKLGDIVE----------VYDGTHQTPDY 233

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
            ++ I  +S  NI     T     + +  + Y+I    + +F        K ++ +    
Sbjct: 234 KKTGIPFISVENIDNIYNTEKYISEEDYEKNYRIKPKIDDIFMTRIGTIGKCAIVTKNNP 293

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLV 369
               ++ A +    + IDS YL +++ S    K        + +   +   D+ +L + +
Sbjct: 294 LAYYVSLALLRPNKNKIDSAYLKYIIESGIGKKELNKRILFTAVPIKINKGDIDKLEIPL 353

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
           PP++ Q  I  V++      + L   +   I   +++
Sbjct: 354 PPLEVQKRIVGVLDNFEKICNDLNIGLPAEIEARQKQ 390



 Score = 55.6 bits (132), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/168 (9%), Positives = 41/168 (24%), Gaps = 9/168 (5%)

Query: 228 VPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVD 287
            P+  E K    +    N              +  N  +  +    G   E         
Sbjct: 12  CPNGVEYKKLGEIFNLKNGYTPSKANKEYWENTDINWFRIEDININGGILEDSIQKVNTK 71

Query: 288 --------PGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
                      ++            +    +  +               +  ++ +    
Sbjct: 72  GIKGSLFSAKSLIVSTTATIGKHALILKDFICNQQFTCLTIKEDYEKIYNGKFMYYYFFK 131

Query: 340 YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
            +         S    S+  +  K+  + +PP++ Q +I  V++  T 
Sbjct: 132 INELTKKNLKVSS-FPSVDMDKFKKFLIPLPPLEIQDEIVRVLDNYTK 178


>gi|309750367|gb|ADO80351.1| Probable type I restriction-modification system specificity
           determinant [Haemophilus influenzae R2866]
          Length = 408

 Score =  112 bits (281), Expect = 7e-23,   Method: Composition-based stats.
 Identities = 60/394 (15%), Positives = 133/394 (33%), Gaps = 29/394 (7%)

Query: 26  KVVPIKRFTKLN---TGRTS--ESGKDIIYIGLEDVESGTGKYLPKDGNSRQS--DTSTV 78
           +   +K     N      T   +   +I YI  ++++ G   +      +     + S  
Sbjct: 18  EWKTVKSLCNDNFWLMPATPEFDDNGNIPYITSKNIKGGKIDFQNTKYINEYVYQELSRT 77

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFL---VLQPKDVLPELLQGWLLSIDVTQ 135
               +  IL   +G      I+   D     Q +    L  + V  +    +  +  +  
Sbjct: 78  RCIIENDILISMIGTIGEAVIVKKEDLYFYGQNMYVLRLNNELVNHKFFLYYFTAPFILN 137

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            + +    +   +     I ++ +PIPPL+ Q  I + + A T     L +E I   +  
Sbjct: 138 SLLSKKNSSNQGYLKAGQIESLKIPIPPLSVQTEIVKILDALTTLTSELTSELILRQKQY 197

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
           +  ++ L+S           ++   G EW          K   +  T     N       
Sbjct: 198 EYYREKLLSE---------EELGKVGFEW---KTIDEISKKISSGGTPTTSNNGYYDNGT 245

Query: 256 ILSLSYGNIIQKLETRNMGLKPES---YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
           I  L    +  K          E      + + +    ++         K ++    +  
Sbjct: 246 IPWLRTQEVDFKEIWDTNIKITEDALNNSSAKWIPANCVIVAMYGATVGKTAINKIPLTT 305

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI 372
                +  + +        Y+   + S    +   ++GSG + ++  + +K+L V VPPI
Sbjct: 306 NQACAN--IEINDKLACYRYIFHYLTSKY--EYIKSLGSGSQTNINAQIIKKLKVPVPPI 361

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
           +EQ  I ++++      + + E +  +I   ++R
Sbjct: 362 EEQHRIVSILDKFETLTNSITEGLPLAIEQSQKR 395



 Score = 68.3 bits (165), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 21/188 (11%), Positives = 54/188 (28%), Gaps = 5/188 (2%)

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNIIQKLET-----RNMGLKPESYETYQIVDPGEI 291
                  +          NI  ++  NI                  +     + +   +I
Sbjct: 26  CNDNFWLMPATPEFDDNGNIPYITSKNIKGGKIDFQNTKYINEYVYQELSRTRCIIENDI 85

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
           +   I    +   ++   +   G                 +L +    + L  +     S
Sbjct: 86  LISMIGTIGEAVIVKKEDLYFYGQNMYVLRLNNELVNHKFFLYYFTAPFILNSLLSKKNS 145

Query: 352 GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
             +  LK   ++ L + +PP+  Q +I  +++  T     L  ++       +  R   +
Sbjct: 146 SNQGYLKAGQIESLKIPIPPLSVQTEIVKILDALTTLTSELTSELILRQKQYEYYREKLL 205

Query: 412 AAAVTGQI 419
           +    G++
Sbjct: 206 SEEELGKV 213


>gi|251798708|ref|YP_003013439.1| restriction modification system DNA specificity domain protein
           [Paenibacillus sp. JDR-2]
 gi|247546334|gb|ACT03353.1| restriction modification system DNA specificity domain protein
           [Paenibacillus sp. JDR-2]
          Length = 456

 Score =  112 bits (281), Expect = 8e-23,   Method: Composition-based stats.
 Identities = 71/442 (16%), Positives = 139/442 (31%), Gaps = 52/442 (11%)

Query: 20  AIPKHWKVVPIKRFTKLN-------------TGRTSESGKDIIYIGLEDVESGTGKYLPK 66
            +P +W  V +     L                  S+     +Y+ L D+  G G    K
Sbjct: 9   EVPGNWVWVKLGSLAYLTDFVANGSFQSLRENVEVSDDTDYALYVRLTDLRLGLGHEGQK 68

Query: 67  DGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIA---DFDGICSTQFLVLQPKDVLPEL 123
             +       + S    G+IL   +G  + +  +    D     +   +VL+    +  +
Sbjct: 69  YVDETSYKFLSKSSLTGGEILIANIGANVGEVFVMPNVDLLATIAPNMIVLRCNHYVENI 128

Query: 124 LQGWL-LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
              +   S    + +  I  G      +  G+  I + +PPL EQ  I +K+     +I+
Sbjct: 129 FLNYFLSSPQGKKLLGTIITGTGQPKINKTGLKTISVALPPLNEQKRIADKVERLLDKIN 188

Query: 183 TLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSG--------------IEWVGLV 228
                        + ++ A++       L    + + S                E   L+
Sbjct: 189 QAKQLIEEAKATFELRQAAILDKAFRGELTKKWRGEHSNQISTVRSISEDINPNEIPFLL 248

Query: 229 PDHWEVKPFFALVTELNRKNTK-------LIESNILSLSYG---NIIQKLETRNMGLKPE 278
           P  W       L T    K+         L       +  G   N    +E+ N  L   
Sbjct: 249 PAGWNWVRLKDLGTLERGKSKHRPRNDPKLFGGEYPFIQTGDVANAGDYIESYNQTLSEF 308

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
                ++   G +         D   L+        ++       K   I S YL + MR
Sbjct: 309 GLLQSKLFPEGTVCITIAANIADTALLKFPCCFPDSVVG---FIPKDAYISSLYLHYYMR 365

Query: 339 SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI---TNVINVETARIDVLVEK 395
           +       YA     ++++  + ++ + V VPP  E  +I    N++  +      ++  
Sbjct: 366 TIKSNLEHYAPA-TAQKNINLKVLQEILVPVPPKTEHDEILHMINLLMQKDEEAQTIMNV 424

Query: 396 IEQSIVLLKERRSSFIAAAVTG 417
                  L+  + S ++ A  G
Sbjct: 425 ASD----LEILKQSVLSKAFQG 442



 Score = 86.4 bits (212), Expect = 9e-15,   Method: Composition-based stats.
 Identities = 23/149 (15%), Positives = 62/149 (41%), Gaps = 1/149 (0%)

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
           + +      + +   +  GEI+   I     +  +     +   I  +  +    H +++
Sbjct: 68  KYVDETSYKFLSKSSLTGGEILIANIGANVGEVFVMPNVDLLATIAPNMIVLRCNHYVEN 127

Query: 331 TYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
            +L + + S    K+   + +G  +  +    +K + V +PP+ EQ  I + +     +I
Sbjct: 128 IFLNYFLSSPQGKKLLGTIITGTGQPKINKTGLKTISVALPPLNEQKRIADKVERLLDKI 187

Query: 390 DVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           +   + IE++    + R+++ +  A  G+
Sbjct: 188 NQAKQLIEEAKATFELRQAAILDKAFRGE 216



 Score = 66.0 bits (159), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 32/199 (16%), Positives = 61/199 (30%), Gaps = 10/199 (5%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSES--------GKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           +P  W  V +K    L  G++           G +  +I   DV +        +    +
Sbjct: 248 LPAGWNWVRLKDLGTLERGKSKHRPRNDPKLFGGEYPFIQTGDVANAGDYIESYNQTLSE 307

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
                  +F +G +    +   +    +  F        +   PKD     L        
Sbjct: 308 FGLLQSKLFPEGTVCIT-IAANIADTALLKFPCCFPDSVVGFIPKDAYISSLYLHYYMRT 366

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           +   +E         + + K +  I +P+PP  E   I   I     + +   T      
Sbjct: 367 IKSNLEHYAPATAQKNINLKVLQEILVPVPPKTEHDEILHMINLLMQKDEEAQTIMNVAS 426

Query: 193 ELLKEKKQALVSYIVTKGL 211
           +L    KQ+++S      L
Sbjct: 427 DLEI-LKQSVLSKAFQGNL 444


>gi|78188779|ref|YP_379117.1| specificity determinant HsdS-like [Chlorobium chlorochromatii CaD3]
 gi|78170978|gb|ABB28074.1| specificity determinant HsdS-like protein [Chlorobium
           chlorochromatii CaD3]
          Length = 363

 Score =  112 bits (281), Expect = 8e-23,   Method: Composition-based stats.
 Identities = 57/401 (14%), Positives = 117/401 (29%), Gaps = 51/401 (12%)

Query: 26  KVVPIKRFTKLNTGRTSES--GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           ++  + +  +   G+  E    ++  YI +        K++  +G S +     +    K
Sbjct: 5   ELTTLGKSCEFFNGKAHEKSIDENGQYIVV------NSKFISSEGKSFKRTNEQMFPLYK 58

Query: 84  GQILYGKLGPYLRK------AIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
           G I+         K       I  D     + +   ++      + L   L      +  
Sbjct: 59  GDIVMVMSDVPNGKALAKCFIIDKDDTYSLNQRICCIRSNKFDTKYLYYQLNR---HEHF 115

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
            A       ++     I   P+  P + EQ  I   +      ID       + ++  KE
Sbjct: 116 LAFNNSENQTNLRKDDILACPLIKPSMEEQQRIVSILDEAFAAIDQAKANAEQNLKNAKE 175

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
                +  +     +   + K      +G V      KP      + N K      + I 
Sbjct: 176 LFDGYLQSVFENQGDDWEEKK------LGEVIKLEYGKPLDETKRKSNGKYPMYGANGIK 229

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
             +                    + Y       IV R         +      ++     
Sbjct: 230 GRT--------------------DEYYHDKKSIIVGRKGSAGEINLTENKFWPLDV---- 265

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFD 377
             Y       I      + + S         +  G++  +   +V  +  L P ++EQ  
Sbjct: 266 -TYFVTFDEKIYDLMFLYFLLS---RFDLPKLAKGVKPGINRNEVYEIQALFPSLEEQQT 321

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           I   ++   A+   L E  ++ I  L+E + S +  A  G+
Sbjct: 322 IVRQLDTLRAKTQKLEEIYQRKIADLEELKKSMLQKAFAGE 362



 Score = 50.2 bits (118), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 29/188 (15%), Positives = 56/188 (29%), Gaps = 15/188 (7%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W+   +    KL  G+  +  K              GKY     N  +  T       K
Sbjct: 191 DWEEKKLGEVIKLEYGKPLDETK----------RKSNGKYPMYGANGIKGRTDEYYH-DK 239

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
             I+ G+ G      +  +        + V   + +   +   +L    +++        
Sbjct: 240 KSIIVGRKGSAGEINLTENKFWPLDVTYFVTFDEKIYDLMFLYFL----LSRFDLPKLAK 295

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
                 +   +  I    P L EQ  I  ++     +   L     R I  L+E K++++
Sbjct: 296 GVKPGINRNEVYEIQALFPSLEEQQTIVRQLDTLRAKTQKLEEIYQRKIADLEELKKSML 355

Query: 204 SYIVTKGL 211
                  L
Sbjct: 356 QKAFAGEL 363


>gi|304438090|ref|ZP_07398033.1| type I restriction-modification system specificity determinant
           [Selenomonas sp. oral taxon 149 str. 67H29BP]
 gi|304368863|gb|EFM22545.1| type I restriction-modification system specificity determinant
           [Selenomonas sp. oral taxon 149 str. 67H29BP]
          Length = 411

 Score =  112 bits (281), Expect = 8e-23,   Method: Composition-based stats.
 Identities = 51/400 (12%), Positives = 128/400 (32%), Gaps = 32/400 (8%)

Query: 22  PKHWKVVPIKRFT-KLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSDT- 75
           P   +   +      +  G   +  +     I  +   ++ +  G +     +       
Sbjct: 13  PDGVEYKKLGEIATNVFRGAGIKRDELTAMGIPCVRYGEIYTTYGIWFDSCVSHTDETFL 72

Query: 76  STVSIFAKGQILYGKLGP----YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
           +    F  G IL+   G       +       D   +   +V+   +  P+ L   L + 
Sbjct: 73  TNPKYFGHGDILFAITGESVEEIAKSTAYIGHDKCVAGGDIVVLQHEQNPKYLSYVLSTE 132

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
              ++       + + H+    I  I +P+PPL  Q  I + +   T     L  E    
Sbjct: 133 MAQRQKSKGRVKSKVVHSSVPAIKEIVIPVPPLPIQNEIVKMLDNFTELTAELTAELTLR 192

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
            +     + +L++              D  +EW         +     +++     +++ 
Sbjct: 193 KKQYSFYRDSLLN----------FSRDDVDVEW-------KTLGDVCDILSGYPFDSSQF 235

Query: 252 IESNILSLSYGNIIQKL----ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
           + + I  +   N+ + +    E  N   K         +   +I+         +     
Sbjct: 236 VNNGIRLMRGMNVKRGVLDFQEGNNRYWKNTDGLDKYKLKADDIIIAMDGSLVGQSYGLV 295

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY-AMGSGLRQSLKFEDVKRLP 366
            +     ++      V+    +S Y+   + S  L +       +G    +  +D+++  
Sbjct: 296 KKEHLPLLLVQRVARVRSKESNSHYVYHYISSGKLTEYVNAKRTAGAVPHISLKDIEKFE 355

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
           +  P I++Q  I  +++   A  + L + +   I   K++
Sbjct: 356 IPFPDIEKQNKIAEILDRFDALCNDLTQGLPAEIAARKKQ 395



 Score = 68.7 bits (166), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 32/194 (16%), Positives = 66/194 (34%), Gaps = 9/194 (4%)

Query: 228 VPDHWEVKPFFALVTELNR----KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY 283
            PD  E K    + T + R    K  +L    I  + YG I              + ET+
Sbjct: 12  CPDGVEYKKLGEIATNVFRGAGIKRDELTAMGIPCVRYGEIYTTYGIWFDSCVSHTDETF 71

Query: 284 ----QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
               +    G+I+F       ++ +  +A +     +    + V  H  +  YL++++ +
Sbjct: 72  LTNPKYFGHGDILFAITGESVEEIAKSTAYIGHDKCVAGGDIVVLQHEQNPKYLSYVLST 131

Query: 340 YDLCKVFYA-MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
               +                  +K + + VPP+  Q +I  +++  T     L  ++  
Sbjct: 132 EMAQRQKSKGRVKSKVVHSSVPAIKEIVIPVPPLPIQNEIVKMLDNFTELTAELTAELTL 191

Query: 399 SIVLLKERRSSFIA 412
                   R S + 
Sbjct: 192 RKKQYSFYRDSLLN 205


>gi|257883802|ref|ZP_05663455.1| type I restriction-modification system specificity subunit
           [Enterococcus faecium 1,231,501]
 gi|257819640|gb|EEV46788.1| type I restriction-modification system specificity subunit
           [Enterococcus faecium 1,231,501]
          Length = 413

 Score =  112 bits (281), Expect = 8e-23,   Method: Composition-based stats.
 Identities = 56/402 (13%), Positives = 125/402 (31%), Gaps = 22/402 (5%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + W+   ++  T+   G  ++   D+  + +        +     GN    +    ++  
Sbjct: 20  EEWEERKLRDITERVRG--NDGRMDLPTLTISASSGWLDQRDRFSGNIAGKEQKNYTLLK 77

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL-------PELLQGWLLSIDVTQ 135
           KGQ+ Y      L K              +                 +   +       +
Sbjct: 78  KGQLSYNHGNSKLAKYGAVFELTTYDEALVPRVYHSFDTNELASSNFIEYMFATKRPDRE 137

Query: 136 RIEAICEGATMS---HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
             + +  GA M    + ++     I + +P + EQ  I         ++D  I    R +
Sbjct: 138 LAKLVSSGARMDGLLNINFDEFMGINVSVPSVGEQQKIGTF----FKQLDDTIALHQRKL 193

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           +LLKE K+  +  +  K      +++  G          +E+               +  
Sbjct: 194 DLLKETKKGFLQKMFPKNGAKVPEIRFPGFTEDWEERKVFEISKVTYGGGTPKTNTKEFW 253

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
             NI  +   ++           K  + E  +      I    I +       + A +  
Sbjct: 254 NGNIPWIQSSDLEINRLFNISPKKKITSEAVKKSAAKIIPPNSIAIVTRVGVGKLALMPF 313

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP- 371
               +  ++++    IDS +  + + S  L K    +     + +   D+    V +P  
Sbjct: 314 EYATSQDFLSLSELQIDSYFGIFSLYSM-LQKELKNIQGTSIKGMTKSDLLEKKVTIPKK 372

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            +EQ  I N       ++D  +   +  +  LKE + S +  
Sbjct: 373 YEEQQKIGNF----FKQLDDTIALHQHELDSLKEMKKSLLQQ 410


>gi|291615455|ref|YP_003522563.1| restriction modification system DNA specificity domain protein
           [Nitrosococcus halophilus Nc4]
 gi|291582517|gb|ADE16973.1| restriction modification system DNA specificity domain protein
           [Nitrosococcus halophilus Nc4]
          Length = 416

 Score =  112 bits (281), Expect = 8e-23,   Method: Composition-based stats.
 Identities = 65/409 (15%), Positives = 129/409 (31%), Gaps = 24/409 (5%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           +P+ WK+  +    ++ TG T  + K      ++ ++   D+++       ++  SR   
Sbjct: 5   LPQGWKLAKLGEVGEVITGSTPSTSKPEYYGSEVPFVTPVDLDNDDPVTKAQNYLSRSG- 63

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
            S   +     ++   +G  L K  IA      + Q   L           G+     + 
Sbjct: 64  ASQARLLPPDAVMVCCIGS-LGKVGIAGIQLATNQQINSLIFDKSKILPRYGYHFCKTLK 122

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             +E +    T++  +      I +P PPL EQ  +   +          I  + +   +
Sbjct: 123 PILEHMAPSTTVAIVNKSRFSEITIPFPPLPEQRRLAAILDKADA-----IRRKRQRAIV 177

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGL---VPDHWEVKPFFALVTELNRKNTKL 251
           L E    L S  +    +P    K  G   +      P        F    ++     + 
Sbjct: 178 LTEDF--LRSAFLEMFGDPVTNPKGWGAGTIDEVVSNPKEDIRCGPFGTQLKVRELVPEG 235

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
           I    +   + +       + +  K     +     PG+++   +        +      
Sbjct: 236 IPLLGIENVHNDHFVSNTEKFLTEKKAEELSRFDACPGDVLITRMGSIGRACVVPKGIGK 295

Query: 312 ERGIITSAYMAVKPHGIDSTYL-AWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLV 369
            R       +   P      +L A + RS         +  G     L    +K +  L+
Sbjct: 296 ARISYHLFRIRTNPDKCLPEFLAATICRSGTFQHQLRRLAHGAIMDGLSTSILKEIVFLL 355

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           PP++ Q    + +NV       L+ KI  S        SS    A  G+
Sbjct: 356 PPVEMQ---LHYLNVVRKVERNLI-KINHSAENANILFSSLTHRAFRGE 400


>gi|167628750|ref|YP_001679249.1| type i restriction modification DNA specificity domain
           [Heliobacterium modesticaldum Ice1]
 gi|167591490|gb|ABZ83238.1| type i restriction modification DNA specificity domain
           [Heliobacterium modesticaldum Ice1]
          Length = 538

 Score =  112 bits (281), Expect = 8e-23,   Method: Composition-based stats.
 Identities = 62/434 (14%), Positives = 129/434 (29%), Gaps = 58/434 (13%)

Query: 20  AIPKHWKVVPIKRFTKL----NTGRTSESGKDIIYIGLEDVES-GTGKYLPKDGNSRQSD 74
            +P+ W    +    ++    N  +       + Y+ ++ +++        K    +   
Sbjct: 66  DLPEGWVWCRLGELIQIAENNNIHKNLPENTLVNYVDIDAIDNKKYCIKDVKQIPVKSLS 125

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAII---ADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
           +    +  KG I+Y  + PYL    +      + I ST F+V +P  +       +LLS 
Sbjct: 126 SRARRVLQKGFIVYSLVRPYLNNIAVVEDEKENYIGSTGFVVFKPIKIEINYFISFLLSP 185

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            V     ++  G        +   +   P+PPLAEQ  I  K+       D L       
Sbjct: 186 FVKTYYLSLLSGFNSPSVSQEDFLSTLFPLPPLAEQQRIVTKVNELMALCDELEAAEQEL 245

Query: 192 IELLKEK----KQALVSYIVTKGLNPDVK------------------------------- 216
             L         ++++   V   L P                                  
Sbjct: 246 DALESRFEEYLPKSILQAAVQGKLVPQDIHDEPASVLLERIRAEKARLVKEGKIKKEKPL 305

Query: 217 MKDSGIEWVGLVPDHWEVKPFFALVTELNRK------NTKLIESNILSLSYGNIIQKLET 270
              S  E    +P+ W       ++ +          N      NI   S  ++   +  
Sbjct: 306 PPISEDEIPYDLPEGWVWCRLGDIIIQNIGGGTPSKQNLAYWNGNIPWASVKDLTGPILD 365

Query: 271 RNMGLKPE--SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
           +      E    E+   + P   +     +   K ++ +  V     +  A +  + +  
Sbjct: 366 KTRDCITELGLEESSSNLIPANSIIVCTRMGLGKIAINTIPVAINQDL-RALIISRMNID 424

Query: 329 DSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
               +A+         +         + +  E++  +   +PP+ EQ  I    N   A 
Sbjct: 425 LRYIIAYY------KTLSIRGEGTTVKGISIEELHNMLFPLPPLAEQQRIVAKANELMAL 478

Query: 389 IDVLVEKIEQSIVL 402
            + +     + I  
Sbjct: 479 CEEIKAVKTKPIEQ 492



 Score = 92.2 bits (227), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 43/212 (20%), Positives = 79/212 (37%), Gaps = 15/212 (7%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI-------IQKLETRN 272
           S  E    +P+ W       L+      N          ++Y +I           + + 
Sbjct: 59  SEDETPYDLPEGWVWCRLGELIQIAENNNIHKNLPENTLVNYVDIDAIDNKKYCIKDVKQ 118

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
           + +K  S    +++  G IV+  +    +  ++      E  I ++ ++  KP  I+  Y
Sbjct: 119 IPVKSLSSRARRVLQKGFIVYSLVRPYLNNIAVVE-DEKENYIGSTGFVVFKPIKIEINY 177

Query: 333 LAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
               + S  +   + ++ SG    S+  ED       +PP+ EQ  I   +N   A  D 
Sbjct: 178 FISFLLSPFVKTYYLSLLSGFNSPSVSQEDFLSTLFPLPPLAEQQRIVTKVNELMALCDE 237

Query: 392 LVEKIEQSIVLLKERR-----SSFIAAAVTGQ 418
           L    EQ +  L+ R       S + AAV G+
Sbjct: 238 LEA-AEQELDALESRFEEYLPKSILQAAVQGK 268


>gi|3057063|gb|AAC38347.1| HsdS [Lactococcus lactis]
          Length = 456

 Score =  112 bits (281), Expect = 8e-23,   Method: Composition-based stats.
 Identities = 59/404 (14%), Positives = 124/404 (30%), Gaps = 31/404 (7%)

Query: 24  HWKVVPIKRFTKLN---TGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
            W+   +    +      G++          +  + +   +V++G      +        
Sbjct: 18  DWEERKLLDNVEKVLDYRGKSPAKFGMEWGTEGYLVLSALNVKNGYIDKSVEAKYGDHEL 77

Query: 75  TS---TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV--LPELLQGWLL 129
                  +   KG +++    P    A + D +G    Q  V                L 
Sbjct: 78  FDRWMGNNRLEKGDVVFTTEAPLGNVAQVPDNNGYILNQRAVAFKSLQETDDNFFAQLLR 137

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
           S  V   ++A   G T      K    +   +P   E+     KI     ++D  I    
Sbjct: 138 SPIVQNTLKASSSGGTAKGIGMKEFAKLNARVPETHEEQ---RKIGLFFKQLDDTIVLHQ 194

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNT 249
           R ++LLKE+K+  +  +  K  +   +++    E+     +    +    L     +++ 
Sbjct: 195 RKLDLLKEQKKGYLQKMFPKNGSKIPELR--FAEFADDWEERKLGEVATFLNGRAYKQDE 252

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
            L       L  GN                      VD G++V+ +              
Sbjct: 253 LLDSGKYKVLRVGNFYTNDSWY---YSNMELGDKYYVDKGDLVYTWSATFGPHI-----W 304

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
             E+ I       V+            +   D  ++  +        +   D++   V +
Sbjct: 305 SGEKVIYHYHIWKVELSKFLDRNFTLQLLEADKARLLSSTNGSTMIHVTKGDMESKIVSI 364

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           P I EQ  I +       ++D  +   ++ + LLKE++  F+  
Sbjct: 365 PNIDEQKQIGSF----FKQLDNTITLHQRKLDLLKEQKKGFLQK 404


>gi|150020303|ref|YP_001305657.1| restriction modification system DNA specificity subunit
           [Thermosipho melanesiensis BI429]
 gi|149792824|gb|ABR30272.1| restriction modification system DNA specificity domain [Thermosipho
           melanesiensis BI429]
          Length = 402

 Score =  112 bits (281), Expect = 9e-23,   Method: Composition-based stats.
 Identities = 60/427 (14%), Positives = 125/427 (29%), Gaps = 49/427 (11%)

Query: 8   PQYKDSGVQWIGAIPKHWKVVPIKRFTKLNT-----GRTSESGKDIIYIGLEDV-ESGTG 61
           P YK +    IG IP+ WK+  ++   ++           E  + I ++G+ D+ E+G  
Sbjct: 7   PGYKKTE---IGIIPEDWKIGELEEIAEVIDPHPSHRAPPEVSRGIPFVGIGDLDENGNI 63

Query: 62  KYLPKDGN--SRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV 119
                         +           I  G++    +   + +     S    +++   +
Sbjct: 64  INDNVRIVHPKILEEHKKRYNLYDNLIGLGRVASIGKVVKLKEGKYAVSPTMGIIKSNYI 123

Query: 120 LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPP-LAEQVLIREKIIAET 178
               L   L S  V ++   I  G+T S      +    +P PP + EQ  I   +    
Sbjct: 124 EWRYLYYILQSKYVIEQFNKIMTGSTRSSVGMIVLRKSKIPYPPTIEEQRAIARVLSDVD 183

Query: 179 VRIDTLITERIRFIELLKEKKQALVS-YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPF 237
             I++L     +   + K   Q L++      G   +   K  G       P+       
Sbjct: 184 KLIESLDKLIEKKKLIKKGAMQELLTGKKRLPGFKGEWVRKKLGEVAEIYQPETISQSQL 243

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID 297
             +                                       Y  Y       I+     
Sbjct: 244 SNV--------------------------GYNVYGANGIIGKYHKYNHEFWQNIITCRGS 277

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSL 357
                      +  ++  IT   M +      S    ++            +    +  +
Sbjct: 278 TCGMV-----NRTTDKCWITGNAMVINVDKNKSIDKLFMFYLLKFQDFTKLITGSGQPQI 332

Query: 358 KFEDVKRLPVLVPP-IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
             + +    +  P  I+EQ  I  +++   A I+ L    E+     +  +   +   +T
Sbjct: 333 IRKPLVEFIIHYPSDIEEQRAIAQILSDMDAEIEAL----EKKKAKYEMIKKGMMQLLLT 388

Query: 417 GQIDLRG 423
           G++ L+ 
Sbjct: 389 GKVRLKD 395


>gi|78357539|ref|YP_388988.1| subunit S of type I restriction-modification system [Desulfovibrio
           desulfuricans subsp. desulfuricans str. G20]
 gi|78219944|gb|ABB39293.1| subunit S of type I restriction-modification system [Desulfovibrio
           desulfuricans subsp. desulfuricans str. G20]
          Length = 565

 Score =  112 bits (281), Expect = 9e-23,   Method: Composition-based stats.
 Identities = 72/483 (14%), Positives = 138/483 (28%), Gaps = 93/483 (19%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSE---------SGKDIIYIGLEDVESGTGKYLPKDGNSR 71
           +P+ W    +     +  G +               + YI  +DV  G      K+G   
Sbjct: 87  LPQSWTWTRLGTIGNIFNGNSINAREKETKYAGANGLTYIATKDVGYGLDALDYKNGIYI 146

Query: 72  QSDTSTVSIFAKGQILYG-KLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
                   I  +G +L   + G   +K  I + D     +    +    +P     +L  
Sbjct: 147 PESEDKFKIAHQGAVLICAEGGSAGKKCGITEQDICFGNKLFANELFGGIPSKFILYLYL 206

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR---------- 180
             V +          +          +P+P+PPL EQ  I +KI     R          
Sbjct: 207 SPVFRESFNAAMTGIIGGVSIAKFLELPVPLPPLKEQHRIVDKIDQLMARCDELENLRTE 266

Query: 181 ---------------------------IDTLITERIRFIELLKEKKQALVSYIVTKGLN- 212
                                      I+    E     E + E ++ ++   V   L+ 
Sbjct: 267 REEKRLAVHAAAIKQLLDAPDGSAWDFIEQHFGELYTVKENVTELRKGILQLAVMGRLSE 326

Query: 213 -------------------------PDVKMKDSGIEWVGLVPDHWEVKPFFALVTEL--- 244
                                        + +S       +P+ W+      ++      
Sbjct: 327 QKTNDESVSTLLTNVHAERQRLKIRKTTDLINSPRPLGYEIPEQWKWVCLDDVLIYGPTN 386

Query: 245 -NRKNTKLIESNILSLSYGNIIQ---KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQN 300
                    E+NI SL+         K E         S ++   +  G+I+ +  +   
Sbjct: 387 GFSPRAVDYETNIRSLTLSATTSGTFKGEYSKFIDADISNDSDLWLRDGDILVQRGNTIE 446

Query: 301 DKRSLRSAQVMERGIITSAYMA--VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL---RQ 355
                   +      +    M        +D+ Y+ + M S    +   A  SG      
Sbjct: 447 YVGVSAVYRGNPGVYVYPDLMMKLRVSSHMDTDYVYYAMSSVPAREYLRAHASGTSGTMP 506

Query: 356 SLKFEDVKRLPVLVPPIKEQFDIT---NVINVETARIDVLVEKIE-QSIVLLKERRSSFI 411
            +  + +K LP+ VPP++EQ  I      +      +D  ++    +   LL     + +
Sbjct: 507 KINQKTLKSLPIPVPPLEEQHRIVVKIKRLMDLCEILDQQIDDATGKQTELLN----AVM 562

Query: 412 AAA 414
           A A
Sbjct: 563 AQA 565



 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 34/200 (17%), Positives = 63/200 (31%), Gaps = 13/200 (6%)

Query: 20  AIPKHWKVVPIKRFTKL--NTGRTS---ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
            IP+ WK V +          G +    +   +I  + L    SGT K            
Sbjct: 366 EIPEQWKWVCLDDVLIYGPTNGFSPRAVDYETNIRSLTLSATTSGTFKGEYSKFIDADIS 425

Query: 75  TSTVSIFAKGQILYGKLGPYLRK----AIIADFDGICSTQFLV--LQPKDVLPELLQGWL 128
             +      G IL  +               +         ++       +  + +   +
Sbjct: 426 NDSDLWLRDGDILVQRGNTIEYVGVSAVYRGNPGVYVYPDLMMKLRVSSHMDTDYVYYAM 485

Query: 129 LSIDVTQRIEAICEGA--TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
            S+   + + A   G   TM   + K + ++P+P+PPL EQ  I  KI       + L  
Sbjct: 486 SSVPAREYLRAHASGTSGTMPKINQKTLKSLPIPVPPLEEQHRIVVKIKRLMDLCEILDQ 545

Query: 187 ERIRFIELLKEKKQALVSYI 206
           +         E   A+++  
Sbjct: 546 QIDDATGKQTELLNAVMAQA 565


>gi|208434760|ref|YP_002266426.1| HP0790-like protein [Helicobacter pylori G27]
 gi|208432689|gb|ACI27560.1| HP0790-like protein [Helicobacter pylori G27]
          Length = 429

 Score =  112 bits (280), Expect = 9e-23,   Method: Composition-based stats.
 Identities = 52/407 (12%), Positives = 126/407 (30%), Gaps = 19/407 (4%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPKDGNSRQSD 74
           PK  +   ++   ++  G T             I +  +ED+            +     
Sbjct: 13  PKGVEFKTLEEVFEIKNGYTPSKNNPEFWKNGTIPWFRMEDIRENGRILKDSIQHITPKA 72

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP---ELLQGWLLSI 131
                +F K  I+          A++   D + + QF  L  K       ++   +    
Sbjct: 73  LKGKKLFPKNSIIISTTATIGEHALLI-VDSLANQQFTFLSKKANCDLALDMKFFFYQCF 131

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            + +  +     +  +  D         PIPPL  Q  I + + A T     L TE    
Sbjct: 132 LLGEWCKNNINVSGFASVDMTAFKKYKFPIPPLEIQQEIVKILDAFTELNTELNTELNTE 191

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           +   K++ Q   + ++    N   +      E +        +K     +     +  KL
Sbjct: 192 LNTRKKQYQYYQNMLLD--FNDINQNHKDAKEKLACKTYPKRLKTLLQTLAPKGVEFRKL 249

Query: 252 IESNILSLSYGNIIQKLETR-NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
            E   +        +++  +    +          ++        I +     +      
Sbjct: 250 GEVCEIIRGKRVTKKEILDKGKYPVVSGGIGFMGYLNEYNREENTITIAQYGTAGFVNWQ 309

Query: 311 MERGIITSAYMAVKPHGID-STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
            ++        ++ P     + YL +++ +        +  S +  S+   ++ ++ + +
Sbjct: 310 NQKFWANDVCFSLIPKETLINRYLYYVLTNMQNYLYSISNRSAIPYSISSNNIMQITIPI 369

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           PP++ Q +I  +++  +     L+  I   I   K+     R   + 
Sbjct: 370 PPLEIQQEIVKILDQFSLLTTDLLAGIPAEIKARKKQYEYYREKLLT 416


>gi|219850149|ref|YP_002464582.1| restriction modification system DNA specificity subunit
           [Chloroflexus aggregans DSM 9485]
 gi|219544408|gb|ACL26146.1| restriction modification system DNA specificity subunit
           [Chloroflexus aggregans DSM 9485]
          Length = 430

 Score =  112 bits (280), Expect = 9e-23,   Method: Composition-based stats.
 Identities = 67/431 (15%), Positives = 142/431 (32%), Gaps = 39/431 (9%)

Query: 24  HWKVVPIKRFTKLNTG--RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
            W+   +    ++N     +      I Y+ +  V  G+    P+     ++ +    + 
Sbjct: 4   EWRKARLGEVVRINPDALGSDWPFSYIKYVDISSVGEGSIVEPPRILRLDEAPSRAKRLV 63

Query: 82  AKGQILYGKLGPYLRKAIIADFD---GICSTQFLVLQPKDVLPELLQGWLLSID--VTQR 136
            +G  +   + P  R            + ST F VL+P     E    +    D  +T+ 
Sbjct: 64  REGDTVLSTVRPGRRSMFFVKEPEPEWVVSTGFAVLRPCREYIEPRYLYACVFDRGLTEF 123

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           +    +GA       + I +  + +PPL EQ  I   +      +D  I    R  E L+
Sbjct: 124 LIKREKGAAYPAVLPEDIADAIIKLPPLPEQRAIAHIL----GTLDDKIELNRRMSETLE 179

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIE---------------WVGLVPDHWEVKPFFALV 241
           +  QAL         +P       G E                +G +P+ W+V     LV
Sbjct: 180 QMAQALFKAWFVD-FDPVRAKCRGGFETRPYTDLFPDRLMDSELGKIPEGWDVVTLPKLV 238

Query: 242 TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQND 301
                +  +  E     L   N+  +    +           + ++ G+ +   I    +
Sbjct: 239 EINPGRPLRKGEIA-PYLDMANMPTRGHAPDQVAHRPFTSGTRFIN-GDTLVARITPCLE 296

Query: 302 KRSLRSAQVMERGII---TSAYMAVKPHGIDSTYLAWLM-RSYDLCK--VFYAMGSGLRQ 355
                    +E G +   ++ Y+ + P         + + RS    +  +    G+  RQ
Sbjct: 297 NGKTAFVDFLEEGQVGWGSTEYIVLHPKPPLPEEFGYCLARSDAFREFAIQSMTGTSGRQ 356

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            ++ + +    +  PP         ++    AR    V    +    L   R + +   +
Sbjct: 357 RVQADSIGHFKLPRPPDSVAVAFGRLVKPLFARSSDAV----RESRTLAALRDALLTKLI 412

Query: 416 TGQIDLRGESQ 426
           +G++ ++   +
Sbjct: 413 SGELRVKDAEK 423



 Score = 55.6 bits (132), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 37/140 (26%), Positives = 56/140 (40%), Gaps = 15/140 (10%)

Query: 12  DSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSR 71
           DS    +G IP+ W VV + +  ++N GR    G+   Y+ + ++   T  + P     R
Sbjct: 219 DSE---LGKIPEGWDVVTLPKLVEINPGRPLRKGEIAPYLDMANM--PTRGHAPDQVAHR 273

Query: 72  QSDTSTVSIFAKGQILYGKLGPYL--RKAIIADF-----DGICSTQFLVLQPKDVLPELL 124
              + T  I   G  L  ++ P L   K    DF      G  ST+++VL PK  LPE  
Sbjct: 274 PFTSGTRFI--NGDTLVARITPCLENGKTAFVDFLEEGQVGWGSTEYIVLHPKPPLPEEF 331

Query: 125 -QGWLLSIDVTQRIEAICEG 143
                 S    +       G
Sbjct: 332 GYCLARSDAFREFAIQSMTG 351


>gi|219851546|ref|YP_002465978.1| restriction modification system DNA specificity domain protein
           [Methanosphaerula palustris E1-9c]
 gi|219545805|gb|ACL16255.1| restriction modification system DNA specificity domain protein
           [Methanosphaerula palustris E1-9c]
          Length = 471

 Score =  112 bits (280), Expect = 9e-23,   Method: Composition-based stats.
 Identities = 70/453 (15%), Positives = 155/453 (34%), Gaps = 54/453 (11%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTS----ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            +P+ WK+V I    ++N  +       +   + ++ +  V++  G     +        
Sbjct: 18  EVPEGWKLVTILNACEVNPPKPPRDFLPADAPVTFVPMPAVDADMGAITNPEIKPYLEVR 77

Query: 76  STVSIFAKGQILYGKLGPYLRKA------IIADFDGICSTQFLVLQPKDVL-PELLQGWL 128
           +  + F  G ++  K+ P +          + +  G  ST+F V++ +  + PE L  ++
Sbjct: 78  NGFTSFRDGDVIMAKITPCMENGKAAIVRGMKNGIGFGSTEFHVMRSRGEILPEYLFYYI 137

Query: 129 LSIDVTQRIEAICEGA-TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
                    E+   G+          I    +P+PPLAEQ  I  +I A    +D     
Sbjct: 138 RQKSFRNEAESHFTGSVGQKRVPTDFIKQSVIPLPPLAEQRRIVARIEALLSHVDAAGDR 197

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK 247
             R   ++K  +QA+++   +  L  + +      E   L+    +       + ++   
Sbjct: 198 LSRVPLIMKRFRQAVLAAACSGRLTEEWREDKDNFEDPKLLLQDIQNYRLQHGINKIKID 257

Query: 248 NTKLIESNILSLSYGNIIQKLE-------------------------------------- 269
           +   I  N + +    I   +E                                      
Sbjct: 258 SKVNITENPIEIPNTWIWSTIEKIADISGGIQKQPMRAPQRNFYPYLRVANVLRGSLDLH 317

Query: 270 -TRNMGLKPESYETYQIVDPGEIVF-RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
             +NM L     E Y +     ++           RS      +E  +  +  + V+   
Sbjct: 318 EIKNMELFAGELERYHLELNDILIVEGNGSFSEIGRSAIWNGEIENCVHQNHIIRVRVRK 377

Query: 328 IDSTYLAWLMRSYDLCKVFY--AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
               Y+     S    ++    A+ +    +L  + + +LP+ +PPI EQ +I   + + 
Sbjct: 378 FLPQYVNLYWNSPLGSELSSGAAVTTSGLYTLSTKKIAQLPIPLPPISEQHEIVRRVGLL 437

Query: 386 TARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
             R D +  ++  +    +    + +  A +G+
Sbjct: 438 FERADAIEREVVAAGRRCERLTQAVMIKAFSGR 470



 Score = 57.1 bits (136), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 33/204 (16%), Positives = 68/204 (33%), Gaps = 12/204 (5%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTS-----ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
            IP  W    I++   ++ G               Y+ + +V  G+            + 
Sbjct: 268 EIPNTWIWSTIEKIADISGGIQKQPMRAPQRNFYPYLRVANVLRGSLDLHEIKNMELFAG 327

Query: 75  TSTVSIFAKGQILY----GKLGPYLRKAIIAD--FDGICSTQFLVLQPKDVLPELLQGWL 128
                      IL     G      R AI      + +     + ++ +  LP+ +  + 
Sbjct: 328 ELERYHLELNDILIVEGNGSFSEIGRSAIWNGEIENCVHQNHIIRVRVRKFLPQYVNLYW 387

Query: 129 LSIDVTQRIE-AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
            S   ++    A    + +     K I  +P+P+PP++EQ  I  ++     R D +  E
Sbjct: 388 NSPLGSELSSGAAVTTSGLYTLSTKKIAQLPIPLPPISEQHEIVRRVGLLFERADAIERE 447

Query: 188 RIRFIELLKEKKQALVSYIVTKGL 211
            +      +   QA++    +  L
Sbjct: 448 VVAAGRRCERLTQAVMIKAFSGRL 471


>gi|257452211|ref|ZP_05617510.1| restriction modification system DNA specificity domain protein
           [Fusobacterium sp. 3_1_5R]
 gi|317058754|ref|ZP_07923239.1| conserved hypothetical protein [Fusobacterium sp. 3_1_5R]
 gi|313684430|gb|EFS21265.1| conserved hypothetical protein [Fusobacterium sp. 3_1_5R]
          Length = 503

 Score =  112 bits (280), Expect = 1e-22,   Method: Composition-based stats.
 Identities = 57/459 (12%), Positives = 128/459 (27%), Gaps = 64/459 (13%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSES---------GKDIIYIGLEDVESGTGKYLPKDGNS 70
            IP  W  V +     ++ G +             +  + +   ++      +       
Sbjct: 26  EIPDSWVWVRLGSIVSVHRGLSYSKVDEIIRENNDEGYLVLRGGNLTEDGLNFEDNVYVR 85

Query: 71  RQSDTSTVSIFAKGQILYGKLGP---YLRKAIIAD--FDGICSTQFLVLQPKDVLPELLQ 125
            +     + +     IL    G      R  I+             ++ +P   + + + 
Sbjct: 86  EEIGRRAIELEENDVILVASTGSSKVIGRACIVEHKLEKTTIGAFLMLCRPVTSISKWVH 145

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
                      I  I +G+ + +   + I N  +  PP+ EQ  I +K+     +     
Sbjct: 146 YIFKGNSYRNYISNISKGSNIKNIKGEYITNYAISFPPIEEQQRIVKKLDFLFEKTKKAK 205

Query: 186 TERIRFIELLKEKKQALVSYIVTKGLNPDVKMK------------------------DSG 221
                  E ++ +K +++       L    + K                           
Sbjct: 206 KLLQEVKEEIEMRKISILDKAFRGELTKKWREKNKTGSVLELLQEIQNEKMKKWEEECCE 265

Query: 222 IEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ--------------K 267
            E  G              +     +    I      +  G I Q               
Sbjct: 266 AEKNGRKKPKKIKLSKIEEMIVPKEEEPYKIPDTWKWVKLGEISQISMGQSPLGEKVNSL 325

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER------GIITSAYM 321
           +    +G   +  E Y I+         +    D      A + +         +     
Sbjct: 326 IGVGLIGGPSDMGENYPIITRYTSQITKLSSIGDIIVSIRATLGKNIFSDGEYCLGRGVC 385

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
            ++   +++  L +   +  +  ++          +  ED+  L   +PP++EQ +I  V
Sbjct: 386 GIRSKIVNNILLRFYF-TNSIEYLYKISSGTTFAQVSKEDISNLYFSLPPLEEQQEIVRV 444

Query: 382 INVETARIDVLVEKI--EQSIVLLKERRSSFIAAAVTGQ 418
           +     +   + E I  E+ I LL+    S +  A  G+
Sbjct: 445 LEEVLEKEKKVKELIDLEEKIDLLE---KSILDKAFRGK 480



 Score = 79.8 bits (195), Expect = 7e-13,   Method: Composition-based stats.
 Identities = 29/212 (13%), Positives = 74/212 (34%), Gaps = 13/212 (6%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII---------QKLET 270
           S  E    +PD W      ++V+     +   ++  I   +    +           L  
Sbjct: 19  SKEEQPYEIPDSWVWVRLGSIVSVHRGLSYSKVDEIIRENNDEGYLVLRGGNLTEDGLNF 78

Query: 271 RNMGLKPESYETYQI-VDPGEIVF--RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
            +     E      I ++  +++        +   R+      +E+  I +  M  +P  
Sbjct: 79  EDNVYVREEIGRRAIELEENDVILVASTGSSKVIGRACIVEHKLEKTTIGAFLMLCRPVT 138

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
             S ++ ++ +          +  G   +++K E +    +  PPI+EQ  I   ++   
Sbjct: 139 SISKWVHYIFKGNSYRNYISNISKGSNIKNIKGEYITNYAISFPPIEEQQRIVKKLDFLF 198

Query: 387 ARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            +     + +++    ++ R+ S +  A  G+
Sbjct: 199 EKTKKAKKLLQEVKEEIEMRKISILDKAFRGE 230



 Score = 61.0 bits (146), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 36/206 (17%), Positives = 77/206 (37%), Gaps = 5/206 (2%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            IP  WK V +   ++++ G++    K    IG+  +  G            +  +    
Sbjct: 295 KIPDTWKWVKLGEISQISMGQSPLGEKVNSLIGVG-LIGGPSDMGENYPIITRYTSQITK 353

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           + + G I+   +   L K I +D +         ++ K V   LL+ +  +    + +  
Sbjct: 354 LSSIGDIIVS-IRATLGKNIFSDGEYCLGRGVCGIRSKIVNNILLRFYFTNS--IEYLYK 410

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
           I  G T +    + I N+   +PPL EQ  I   +     + +  + E I   E +   +
Sbjct: 411 ISSGTTFAQVSKEDISNLYFSLPPLEEQQEIVRVLEEVLEK-EKKVKELIDLEEKIDLLE 469

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWV 225
           ++++       L       +  +E +
Sbjct: 470 KSILDKAFRGKLGTQDINDEPALELL 495


>gi|295105614|emb|CBL03158.1| Restriction endonuclease S subunits [Faecalibacterium prausnitzii
           SL3/3]
          Length = 402

 Score =  112 bits (280), Expect = 1e-22,   Method: Composition-based stats.
 Identities = 71/410 (17%), Positives = 130/410 (31%), Gaps = 48/410 (11%)

Query: 22  PKHWKVVPIKRFT-KLNTGRTSESGKDIIYIGLEDVESGTGKYLPK-DGNSRQSDTSTVS 79
           P   +  PI     K    + + +     YI L  V+  T K       N+  + +    
Sbjct: 13  PDGVEFKPIGDCVHKTQNIKWATADGSYSYIDLTSVDRDTHKITETQTINAGNAPSRAQQ 72

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDG---ICSTQFLVLQPKDVL--PELLQGWLLSIDVT 134
           I  +G +L+    P L++  + D +    ICST F VL+ K+ +  P  L   + S +  
Sbjct: 73  IVLEGDVLFATTRPTLKRYCLIDEEYDGQICSTGFCVLRAKESIVSPRWLFHVVSSSEFY 132

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             +EA  +GA+      K +    MP+PPL  Q  I   +   T              +L
Sbjct: 133 YYVEANQKGASYPAISDKEVKQFKMPVPPLEVQSEIVRILDNFTELTARKKQYEFYRDKL 192

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
                                    +  +  G        +    +       +      
Sbjct: 193 ------------------------LTFGDVRGGATSDVVWRTLAEIADISTGSSNTDDAV 228

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
                 +    Q+   ++       Y+   I+  G+ V            +      +  
Sbjct: 229 EGGCYPFFVRSQQPLAKDEY----EYDEEAIITAGDGV--------GVGKVFHYINGKYA 276

Query: 315 IITSAY-MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
           +   AY +     G+   YL     +     +   M  G   S++   + +  V +P + 
Sbjct: 277 LHQRAYRIHPATDGLLGKYLYHYFVATFPKYIGQQMYQGSVPSIRRPMLNKFQVAIPSLD 336

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIAAAVTGQI 419
            Q  I NV++   A    L   +   I   ++     R + +  A TGQI
Sbjct: 337 VQKRIVNVLDNFDAICSDLKIGLPAEIEARQKQYEFYRDALLTYAATGQI 386



 Score = 65.6 bits (158), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 33/203 (16%), Positives = 69/203 (33%), Gaps = 21/203 (10%)

Query: 228 VPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG----NIIQKLETRNMGLKPESYETY 283
            PD  E KP    V +         + +   +       +  +  ET+ +          
Sbjct: 12  CPDGVEFKPIGDCVHKTQNIKWATADGSYSYIDLTSVDRDTHKITETQTINAGNAPSRAQ 71

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH-GIDSTYLAWLMRSYDL 342
           QIV  G+++F        +  L   +   +   T   +       +   +L  ++ S + 
Sbjct: 72  QIVLEGDVLFATTRPTLKRYCLIDEEYDGQICSTGFCVLRAKESIVSPRWLFHVVSSSEF 131

Query: 343 CKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
                A   G    ++  ++VK+  + VPP++ Q +I  +++  T          ++   
Sbjct: 132 YYYVEANQKGASYPAISDKEVKQFKMPVPPLEVQSEIVRILDNFTEL-----TARKKQYE 186

Query: 402 LLKERRSSFIAAAVT-GQIDLRG 423
                R       +T G  D+RG
Sbjct: 187 F---YRD----KLLTFG--DVRG 200


>gi|32455490|ref|NP_862616.1| hypothetical protein pAH82_p17 [Lactococcus lactis subsp. lactis]
 gi|7767523|gb|AAF69139.1|AF228680_3 HsdS [Lactococcus lactis]
 gi|9789464|gb|AAF98316.1|AF243383_17 HsdS [Lactococcus lactis subsp. lactis]
          Length = 421

 Score =  112 bits (280), Expect = 1e-22,   Method: Composition-based stats.
 Identities = 53/411 (12%), Positives = 136/411 (33%), Gaps = 30/411 (7%)

Query: 24  HWKVVPIKRFTKL-NTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQ---- 72
            W+   +        +  +           DI  +   D+       L    +       
Sbjct: 17  DWEERKVDECFNFPVSTNSLSRALLNYDEGDIKSVHYGDILIKYPTILNIKNDKIPYITG 76

Query: 73  SDTSTVS--IFAKGQILYG------KLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELL 124
                    +   G +++        +G  +    + + + +     +V + KD   E  
Sbjct: 77  GKLEKYKSSLLENGDLIFADAAEDETVGKAVEVNGLTEENLVAGLHTIVARSKDKKAEFF 136

Query: 125 QGWLLSID-VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
            G+ ++ +   +++  + +G+ +S      +    +  P   E+    +KI +   ++D 
Sbjct: 137 LGYYINSNTYHRQLLRLIQGSKVSSISKGNLQKTLVSFPKDFEEQ---QKIGSFFKQLDD 193

Query: 184 LITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTE 243
            I    R ++LLKE+K+  +  +  K      +++ +G           +        T 
Sbjct: 194 TIALHQRKLDLLKEQKKGYLQKMFPKNGEKVPELRFAGFADDWEERKLGQYTKLITKGTT 253

Query: 244 LNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKR 303
              K      + +   +  N       +    + ++Y     ++  +I+F          
Sbjct: 254 PKDKTGIGDVNFVKVENITNGKIYPINKIKQNEHDNYLKRSRLEEKDILFSIAGTLGRTA 313

Query: 304 SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM-GSGLRQSLKFEDV 362
            +  + +        A   ++ +  D+ +L   +    + +        G + +L  E V
Sbjct: 314 IVNKSILPAN--TNQALAIIRGYDFDTNFLITSLAGNVVKEYIRRNPTVGAQPNLSLEQV 371

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
             L V  P  +EQ  I +       ++D  +   ++ + LLKE++  F+  
Sbjct: 372 GNLLVNTPNAEEQQKIGSF----FKQLDETIALHQRKLDLLKEQKKGFLQK 418


>gi|31983518|ref|NP_858129.1| putative type i restriction hsds subunit [Lactobacillus delbrueckii
           subsp. lactis]
 gi|18077752|emb|CAD15744.1| putative Type I restriction hsdS subunit [Lactobacillus delbrueckii
           subsp. lactis]
          Length = 392

 Score =  112 bits (280), Expect = 1e-22,   Method: Composition-based stats.
 Identities = 47/398 (11%), Positives = 114/398 (28%), Gaps = 37/398 (9%)

Query: 25  WKVVPIKRFTKLNTGRTS---------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           W+   +K   ++  G +          +   ++ ++ + DV    G+      +  ++  
Sbjct: 20  WEQCKLKNKAEIVRGASPRPISNPKWFDDNSNVGWLRISDVTEQKGRIHHLSQHISKAGQ 79

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
           S   +  +  +L           I     G+     + L P          +   +    
Sbjct: 80  SKTRVITEPHLLLSIAATVGSPVINYVNTGVHDGFLIFLNPTF---NKEFMFQWLLMFKP 136

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
                 +  +  + +   +GN  +  P  +EQ  I          I     ++ +   L 
Sbjct: 137 YWNKYGQPGSQVNLNSDIVGNQSVAFPTTSEQERIANFFSELDTAITLHEEKKQQLKCLK 196

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
               Q + +    K   P ++ +    EW        E      +          +  + 
Sbjct: 197 SALLQKMFA---YKSGYPAIRFEGFSDEW--------EQCKLGEVFNYEQPTKYIVKSTE 245

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
                   ++   ++  +G   E            +V        D  +  S  V     
Sbjct: 246 YDDNFNTPVLTAGKSFLLGYTDEISGIKNATVENPVVI------FDDFTTDSHYVDFPFK 299

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
           I S+ M +     +S    ++  +    K          +           +  P  +EQ
Sbjct: 300 IKSSAMKLLSLNDNSDNFYFMFNTLKNIKYVPQS----HERHWISKFSSFKIYKPSQEEQ 355

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
             I + +     ++D  +   ++ + LLKE++  F+  
Sbjct: 356 KKIGSFL----KQLDDTIALHQRKLDLLKEQKKGFLQK 389


>gi|297569971|ref|YP_003691315.1| restriction modification system DNA specificity domain protein
           [Desulfurivibrio alkaliphilus AHT2]
 gi|296925886|gb|ADH86696.1| restriction modification system DNA specificity domain protein
           [Desulfurivibrio alkaliphilus AHT2]
          Length = 439

 Score =  112 bits (280), Expect = 1e-22,   Method: Composition-based stats.
 Identities = 66/435 (15%), Positives = 141/435 (32%), Gaps = 43/435 (9%)

Query: 10  YKDSGVQWIGAIPKHWKVVPI-KRFTKLNTGRTSES-GKDIIY-------IGLEDVESGT 60
           YK + V   G IP+ W++ P+ K   +L  G +  S  +DI         +    V  G 
Sbjct: 22  YKLTEV---GVIPEDWELAPLGKEVEQLEAGVSVNSVDEDIRSYAHYQAILKTSAVIGG- 77

Query: 61  GKYLPKDGNSRQSDTSTVSIFAK--GQILYGKLGPYLRKAIIADFDGICSTQF------- 111
            ++LP +           +        I+  ++                   F       
Sbjct: 78  -RFLPHENKKIAPRDIGRARLNPRFDTIIISRMNTPDLVGECGYVFADFPNLFLPDRLWM 136

Query: 112 -LVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT--MSHADWKGIGNIPMPIPPLAEQV 168
             +     V    L   L S     +I+ +  G +  M +     +  +P+  PP  EQ 
Sbjct: 137 THIRSGSKVNVRWLNYLLSSRPYKSQIKELATGTSGSMKNIAKDSLLAMPVAYPPPLEQR 196

Query: 169 LIREKIIAETVRIDTLITERIRFIELLKEKKQALVS-YIVTKGLNPDVKMKDSGIEWVGL 227
            I   +      +  L     +  +L +   Q L++        + + + K  G     +
Sbjct: 197 AIAAALTDVDALLAKLDQLIAKKRDLKQATMQQLLTGQTRLPSFSGEWETKLLGEIGDFI 256

Query: 228 VPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVD 287
                      +      R        N L   + + I K          E  ET   + 
Sbjct: 257 KGKGVSRDQAQSGRLPCVRYGEIYTIHNDLIREFHSWISK----------EVAETATSLK 306

Query: 288 PGEIVFRFIDLQNDKRSLRSAQVME-RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF 346
            G+++F       ++     A + +         + ++P  ++S +L + + S  + +  
Sbjct: 307 SGDLLFAGSGETKEEIGKCVAFIDDTEAYAGGDIVVLRPRSVNSIFLGYALNSPAVNRQK 366

Query: 347 YAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
            ++G G     +  + +  + + +P   EQ  I  V++   A     +  +E+     + 
Sbjct: 367 ASLGQGDAVVHISAKALADITIFLPGDAEQTAIAAVLSDMDAE----IAALERRREKTRF 422

Query: 406 RRSSFIAAAVTGQID 420
            +   +   +TG+I 
Sbjct: 423 IKQGMMQELLTGRIR 437



 Score = 79.1 bits (193), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 20/144 (13%), Positives = 51/144 (35%), Gaps = 17/144 (11%)

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP----HGIDSTYLAWLMRSYDLCK 344
             I+   ++  +              +     + +        ++  +L +L+ S     
Sbjct: 102 DTIIISRMNTPDLVGECGYVFADFPNLFLPDRLWMTHIRSGSKVNVRWLNYLLSSRPYKS 161

Query: 345 VFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDITNVI---NVETARIDVLVEKIEQ 398
               + +G     +++  + +  +PV  PP  EQ  I   +   +   A++D L+ K   
Sbjct: 162 QIKELATGTSGSMKNIAKDSLLAMPVAYPPPLEQRAIAAALTDVDALLAKLDQLIAKK-- 219

Query: 399 SIVLLKERRSSFIAAAVTGQIDLR 422
                ++ + + +   +TGQ  L 
Sbjct: 220 -----RDLKQATMQQLLTGQTRLP 238


>gi|153808172|ref|ZP_01960840.1| hypothetical protein BACCAC_02458 [Bacteroides caccae ATCC 43185]
 gi|149129075|gb|EDM20291.1| hypothetical protein BACCAC_02458 [Bacteroides caccae ATCC 43185]
          Length = 341

 Score =  112 bits (280), Expect = 1e-22,   Method: Composition-based stats.
 Identities = 50/344 (14%), Positives = 115/344 (33%), Gaps = 28/344 (8%)

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIAD---FDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
             +      +L    G  L + ++       G  S    +++   V PE     +LS   
Sbjct: 2   KGTEVLANDLLLNITGGSLGRCVVVPADFNCGNVSQHVCIMRSVLVEPEYFHALVLSSYF 61

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            + ++    G+         +  +  P+PPL EQ  I  +I      ID +   +     
Sbjct: 62  AKSMK--ITGSGREGLPKYNLEQMGFPLPPLTEQQRIVAEIKHWFALIDQIEQGKSDLQT 119

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWV---------------GLVPDHWEVKPFF 238
           ++K+ K  ++   +   + P     +  IE +                 +P +W      
Sbjct: 120 IIKQTKSKILDLAIHGKVVPQDPNDEPAIELLKRINPDFTPCDNGHSEKLPQNWTWVKGK 179

Query: 239 ALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY--QIVDPGEIVFRFI 296
            +   +     K  E   + +   +  +++ +    +K E+  +   +     +++F  +
Sbjct: 180 NIFAPMKSTKPKNEEFQYIDIDSIDNRRQIISEIKTIKTENAPSRASRYTQKNDVIFSMV 239

Query: 297 DLQNDKRSLRSAQVMERGIITSAYMAVKPHGI--DSTYLAWLMRSYDLCKVFYAMGSG-L 353
                  +  +    +  I ++ +    P     +S Y  +LM S ++         G  
Sbjct: 240 RPYLRNIAKVAN---DNCIASTGFYVCSPIPQLLNSDYCYYLMISDNVVNGLNQFMKGDN 296

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
             S+    +      +PP+ EQ  I   I    + +D +   +E
Sbjct: 297 SPSINKGHIDEWLFPLPPLAEQQRIVQKIEELFSALDNIQTALE 340



 Score = 69.4 bits (168), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 37/168 (22%), Positives = 65/168 (38%), Gaps = 5/168 (2%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLP-KDGNSRQSDTSTV 78
            +P++W  V  K         T    ++  YI ++ +++        K   +  + +   
Sbjct: 168 KLPQNWTWVKGKNIFA-PMKSTKPKNEEFQYIDIDSIDNRRQIISEIKTIKTENAPSRAS 226

Query: 79  SIFAKGQILYGKLGPYLRKAI-IADFDGICSTQFLVLQPKDVLPELLQGWLLSI--DVTQ 135
               K  +++  + PYLR    +A+ + I ST F V  P   L      + L I  +V  
Sbjct: 227 RYTQKNDVIFSMVRPYLRNIAKVANDNCIASTGFYVCSPIPQLLNSDYCYYLMISDNVVN 286

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
            +    +G      +   I     P+PPLAEQ  I +KI      +D 
Sbjct: 287 GLNQFMKGDNSPSINKGHIDEWLFPLPPLAEQQRIVQKIEELFSALDN 334



 Score = 66.0 bits (159), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 25/134 (18%), Positives = 54/134 (40%), Gaps = 2/134 (1%)

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV 345
           V   +++          R +        G ++     ++   ++  Y   L+ S    K 
Sbjct: 6   VLANDLLLNITGGSL-GRCVVVPADFNCGNVSQHVCIMRSVLVEPEYFHALVLSSYFAKS 64

Query: 346 FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
               GSG R+ L   +++++   +PP+ EQ  I   I    A ID + +       ++K+
Sbjct: 65  MKITGSG-REGLPKYNLEQMGFPLPPLTEQQRIVAEIKHWFALIDQIEQGKSDLQTIIKQ 123

Query: 406 RRSSFIAAAVTGQI 419
            +S  +  A+ G++
Sbjct: 124 TKSKILDLAIHGKV 137


>gi|297580645|ref|ZP_06942571.1| type I restriction-modification system specificity subunit [Vibrio
           cholerae RC385]
 gi|297535061|gb|EFH73896.1| type I restriction-modification system specificity subunit [Vibrio
           cholerae RC385]
          Length = 405

 Score =  112 bits (280), Expect = 1e-22,   Method: Composition-based stats.
 Identities = 60/397 (15%), Positives = 109/397 (27%), Gaps = 29/397 (7%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+  P  +  ++ +G+  +            +  G        G  R        ++   
Sbjct: 24  WENKPFSKLFEIGSGKDHK-----------HLADGDIPVYGSGGYMRSV---NDYLYEGK 69

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
               G+ G   +   ++       T F     K+ +PE +     +ID       + E  
Sbjct: 70  SACIGRKGTINKPMFLSGKFWTVDTLFYTHSFKNCIPEFIYLLFQNID----WLKLNEAG 125

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
            +       I  I + IP   EQ  I + I +    I     +        K   Q L  
Sbjct: 126 GVPSLSKVIINKIEVVIPKEEEQQKIVDCIYSVDDLITVNTKKLESLKLHKKGLMQKLFP 185

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
                  +           W      H  V        +    +T   +         N 
Sbjct: 186 AEGENKPDFRFPEFSMEANWKKEKL-HNLVDLLSGHAFKSEYFSTTGKKMVTPKNFTKNG 244

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQ-----NDKRSLRSAQVMERGIITSA 319
                  N     E +    I   G+++    DL        +  L +    E  +    
Sbjct: 245 FASFSEDNTKYTSEDFNERYICREGDLLLLLTDLTPSCELLGRPMLLTPSDGEVLLNQRI 304

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDI 378
              +    I+S +L +   S    K      +G   +    + V    +L+P + EQ  I
Sbjct: 305 AKVILKGNINSNFLKYFFLSNSFRKRIINTATGSTVRHTSNKIVLSTELLLPNLSEQNKI 364

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
              +      ID L+      I  LKE +   +    
Sbjct: 365 AACLLS----IDELIRSQADKIETLKEYKKGLMQQLF 397


>gi|319642846|ref|ZP_07997483.1| type I restriction enzyme EcoAI specificity protein [Bacteroides
           sp. 3_1_40A]
 gi|317385521|gb|EFV66463.1| type I restriction enzyme EcoAI specificity protein [Bacteroides
           sp. 3_1_40A]
          Length = 409

 Score =  112 bits (280), Expect = 1e-22,   Method: Composition-based stats.
 Identities = 59/383 (15%), Positives = 131/383 (34%), Gaps = 16/383 (4%)

Query: 21  IPKHWKVVPIKRF-TKLNTGRTSESGK--DIIYIGLEDVES-GTGKYLPKDGNSRQSDTS 76
           +P  W+   ++    +L  G + +S     I  + + ++ + GT  Y     +S   D  
Sbjct: 28  LPNGWEWCNLEDIVCELKYGTSEKSLSVGKIAVLRMGNITNVGTIDYSNLVYSSNNEDIK 87

Query: 77  TVSIFAKGQILYGKLGP---YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
             S+  K  +L+ +        + AI           +L+     ++       +++   
Sbjct: 88  LYSL-EKDDLLFNRTNSSEWVGKTAIYKKEQPAIYAGYLIRIRPILIFSDYLNTVMNSSY 146

Query: 134 TQRIEAICEGA--TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            +      +      S+ + + +  + +PIPPL EQ  I  ++      I+T+   +   
Sbjct: 147 YRNWCYNVKTDAVNQSNINAQKLSQLMIPIPPLKEQERIVVEVAKWISLINTIKNSKEDL 206

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
              +K+ K  +++  +   L P     +  IE +  +   +                   
Sbjct: 207 QTTIKQAKSKILNLAIHGKLVPQDPNDEPAIELLKRINPDFTPCDNGHYTQLPEGWAIC- 265

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
               I S++ G   + +ET N                  +      +   K ++ +   +
Sbjct: 266 KMKQITSITNGKSQKNVETLNGIYPIYGSGGVIGRANQYLCIAGSTIIGRKGTINNPIFV 325

Query: 312 ERGIIT--SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
           E       +A+       I   YL +   S+D  K+     S    SL    +  + + +
Sbjct: 326 EEHFWNVDTAFGLKANDAILDKYLYYFCLSFDFSKL---DKSTAMPSLTKTSIGNVLIPI 382

Query: 370 PPIKEQFDITNVINVETARIDVL 392
           PP KEQ  I   I++    ++ +
Sbjct: 383 PPYKEQERIVAKIDMVLDTMNEI 405



 Score = 77.5 bits (189), Expect = 4e-12,   Method: Composition-based stats.
 Identities = 37/197 (18%), Positives = 74/197 (37%), Gaps = 7/197 (3%)

Query: 229 PDHWEVKPFFALVTELNRKNTK--LIESNILSLSYGNIIQKLETRNMGLKPESYE---TY 283
           P+ WE      +V EL    ++  L    I  L  GNI          L   S       
Sbjct: 29  PNGWEWCNLEDIVCELKYGTSEKSLSVGKIAVLRMGNITNVGTIDYSNLVYSSNNEDIKL 88

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC 343
             ++  +++F   +           +  +  I     + ++P  I S YL  +M S    
Sbjct: 89  YSLEKDDLLFNRTNSSEWVGKTAIYKKEQPAIYAGYLIRIRPILIFSDYLNTVMNSSYYR 148

Query: 344 KVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
              Y + +    + ++  + + +L + +PP+KEQ  I   +    + I+ +    E    
Sbjct: 149 NWCYNVKTDAVNQSNINAQKLSQLMIPIPPLKEQERIVVEVAKWISLINTIKNSKEDLQT 208

Query: 402 LLKERRSSFIAAAVTGQ 418
            +K+ +S  +  A+ G+
Sbjct: 209 TIKQAKSKILNLAIHGK 225



 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 34/164 (20%), Positives = 62/164 (37%), Gaps = 16/164 (9%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +P+ W +  +K+ T +  G++ +           +VE+  G Y P  G+      +   
Sbjct: 257 QLPEGWAICKMKQITSITNGKSQK-----------NVETLNGIY-PIYGSGGVIGRANQY 304

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           +   G  + G+ G       + +      T F +     +L + L  + LS D       
Sbjct: 305 LCIAGSTIIGRKGTINNPIFVEEHFWNVDTAFGLKANDAILDKYLYYFCLSFDF----SK 360

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           + +   M       IGN+ +PIPP  EQ  I  KI      ++ 
Sbjct: 361 LDKSTAMPSLTKTSIGNVLIPIPPYKEQERIVAKIDMVLDTMNE 404


>gi|294793953|ref|ZP_06759090.1| putative type I restriction enzyme specificity protein [Veillonella
           sp. 3_1_44]
 gi|294455523|gb|EFG23895.1| putative type I restriction enzyme specificity protein [Veillonella
           sp. 3_1_44]
          Length = 412

 Score =  112 bits (280), Expect = 1e-22,   Method: Composition-based stats.
 Identities = 56/406 (13%), Positives = 125/406 (30%), Gaps = 25/406 (6%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + W+   ++        + +        +GL     GT  +        + +T+ +    
Sbjct: 14  EDWEQRKLESLFTKYEDKVNTPDSGYWRLGLRSHCKGT--FHTYVDAGHELETTEMYRVK 71

Query: 83  KGQILYGKLGPYLRKAIIADF---DGICSTQFLVLQPKDV--LPELLQGWLLSIDVTQRI 137
            G  +      + R   + D    D + S +F   +P     +       +         
Sbjct: 72  AGNFILNITFAWERALAVTDDEDQDKLVSHRFPQFKPNSDLVIDFFKHTLMDKRLKHHLE 131

Query: 138 EAICEGATMSH-ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
            +   GA  +       +    + +P + EQ +I   +      I     +  +     K
Sbjct: 132 LSSPGGAGRNKVLKVSDMLKYELLVPSIQEQNIISSFLNNIDHIITLHQCKLKKLNLAKK 191

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDH---WEVKPFFALVTELNRKNTKLIE 253
              Q L          P V+ K     W           +            +K++ + +
Sbjct: 192 SLLQKLFPR--NGSQIPGVRFKGFTDAWEQRKFLDLLDTQNGIRRGPFGSSLKKDSFVKK 249

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYET--YQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
           S+ +     N I         +  E Y       + PG+ +            +     +
Sbjct: 250 SDYVVYEQQNAIYDNYVTRYFISKEKYNELIRFNIQPGDFIMSGAGTIGRISMVP--DGI 307

Query: 312 ERGIITSAYMAVKPHGIDSTYLAW--LMRSYDLCKVFYAMG-SGLRQSL-KFEDVKRLPV 367
           ++G+   A +  K        L +   M+S  + K            +L   +++K+  V
Sbjct: 308 KKGVFNQALIRFKVDKNSVNPLYFLKFMQSDMMQKQLTQANPGSAMTNLVPMDELKKWDV 367

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            +P ++EQ  I+N IN    +ID  +   ++ +  L+E +   +  
Sbjct: 368 TIPSLEEQNKISNFIN----QIDESITLHQRKLERLQEVKKGLLQK 409


>gi|146305601|ref|YP_001186066.1| restriction modification system DNA specificity subunit
           [Pseudomonas mendocina ymp]
 gi|145573802|gb|ABP83334.1| restriction modification system DNA specificity domain protein
           [Pseudomonas mendocina ymp]
          Length = 415

 Score =  112 bits (280), Expect = 1e-22,   Method: Composition-based stats.
 Identities = 67/423 (15%), Positives = 133/423 (31%), Gaps = 43/423 (10%)

Query: 23  KHWKVVPIKRFTKLNTGR-----TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
             W    +++      GR     +        Y+G   +E G   Y              
Sbjct: 2   SDWAESSLEQLVTFQKGRKVDTSSFAQDGFAPYLGASGIEGGDDGYAATQFAVMS----- 56

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
                   IL    G            G+ ++    L P D +      + LS      I
Sbjct: 57  ----KPTDILMLWDGERSGLVGYGK-TGVVASTVSKLSPNDAINPKYLFFALSDRF-AWI 110

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           +    G  + H        + +  P      +   KI +     DTLI +    I   ++
Sbjct: 111 QHRRTGTGVPHVPKDLGRILRLRYPSDPRLQI---KIASIFEATDTLIQKSEALIAKYQQ 167

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIE--------WVGLVPDHWEVKPFFALVTELN---- 245
            K  ++  + T+G+ P+ +++    E         +G +P  W++K    + T +     
Sbjct: 168 IKAGMMHDLFTRGVLPNGQLRPPRSEAPELYQDTSIGWIPSMWKLKRCADICTRICVGIV 227

Query: 246 -RKNTKLIESNILSLSYGNI----IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQN 300
            +     +ES + +    NI    I       +            V  G+I+        
Sbjct: 228 IQPTQYYVESGVPAFRSANIREDGIDPSNLVFISHASNEVVAKSQVKAGDILSVRTGYPG 287

Query: 301 DKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKF 359
               +         I     ++     + S YL   + S    +       G  +Q    
Sbjct: 288 TSAVVPVHFDRANCI--DILISTPSAQVISEYLCDWINSPFGKEQVLRQQGGMAQQHFNV 345

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
            +++ L V +P  +EQ DI N I V   ++       +  +  L+ ++   +   +TG++
Sbjct: 346 GEMRELLVALPSREEQGDIRNRIGVVAKKL----AAEKALLEKLQYQKLGLMHDLLTGKV 401

Query: 420 DLR 422
            +R
Sbjct: 402 SVR 404



 Score = 47.5 bits (111), Expect = 0.005,   Method: Composition-based stats.
 Identities = 29/207 (14%), Positives = 60/207 (28%), Gaps = 12/207 (5%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTK-LNTGRTSES-----GKDIIYIGLEDVESGTGKY 63
           Y+D+ + W   IP  WK+         +  G   +         +      ++       
Sbjct: 198 YQDTSIGW---IPSMWKLKRCADICTRICVGIVIQPTQYYVESGVPAFRSANIREDGIDP 254

Query: 64  LP-KDGNSRQSDTSTVSIFAKGQILYGKLG--PYLRKAIIADFDGICSTQFLVLQPKDVL 120
                 +   ++    S    G IL  + G         +      C    +      V+
Sbjct: 255 SNLVFISHASNEVVAKSQVKAGDILSVRTGYPGTSAVVPVHFDRANCIDILISTPSAQVI 314

Query: 121 PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
            E L  W+ S    +++     G    H +   +  + + +P   EQ  IR +I     +
Sbjct: 315 SEYLCDWINSPFGKEQVLRQQGGMAQQHFNVGEMRELLVALPSREEQGDIRNRIGVVAKK 374

Query: 181 IDTLITERIRFIELLKEKKQALVSYIV 207
           +        +           L++  V
Sbjct: 375 LAAEKALLEKLQYQKLGLMHDLLTGKV 401


>gi|323438647|gb|EGA96390.1| hypothetical protein SAO11_2475 [Staphylococcus aureus O11]
          Length = 406

 Score =  112 bits (280), Expect = 1e-22,   Method: Composition-based stats.
 Identities = 50/394 (12%), Positives = 116/394 (29%), Gaps = 16/394 (4%)

Query: 24  HWKVVPIKRFTKLNTG--RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
            W+      FTK+N G        K      L    +               +     I 
Sbjct: 20  EWEEKRFADFTKINQGLQIAINERKTEYSPELYFYITNEFLRPNSQTKYFIENPPQSVIA 79

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            K  IL  + G   +           +   +           L   L S  +  +I ++ 
Sbjct: 80  NKEDILMTRTGNTGKVVTNVFGAFHNNFFKIKFDKNLYDRLFLVEVLNSSKIQNKILSLA 139

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
             +T+   +     +I    P L EQ  I +       +I+    +     +  K   Q 
Sbjct: 140 GSSTIPDLNHSDFYSISSSYPLLREQQKIGQFFSKLDRQIELQEQKLELLQQQKKGYMQK 199

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
           + S  +      D    D   + +G + +        ++            ++  + ++ 
Sbjct: 200 IFSQELRFKDENDEDYPDWKEKKLGDITE-------QSMYGIGASATRFDSKNIYIRITD 252

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL-RSAQVMERGIITSAY 320
            +   +         P+       +   +I+F        K  + +  + +         
Sbjct: 253 IDEKSRKLNYQNLTTPDELNNKYKLKRNDILFARTGASTGKSYIHKEEKDIYNYYFAGFL 312

Query: 321 MAVKPHGIDSTYLAWLMR--SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
           +  +    ++    +     S     V        +  +  E+  +LP+++P   EQ  I
Sbjct: 313 IKFEIDEQNNPLFIYQFTLTSKYNKWVKVMSVRSGQPGINSEEYAKLPLVLPNKLEQQKI 372

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
              ++    R D  +E  +Q I +L++++   + 
Sbjct: 373 AEFLD----RFDQQIELEKQKIEILQQQKKGLLQ 402



 Score = 71.4 bits (173), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 29/213 (13%), Positives = 67/213 (31%), Gaps = 13/213 (6%)

Query: 213 PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
           P+++      EW       +        +    RK     E      +            
Sbjct: 10  PELRFPGFEDEWEEKRFADFTKINQGLQIAINERKTEYSPELYFYITNEFLRPNSQTKYF 69

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
           +   P+S     I +  +I+           +     V          +    +  D  +
Sbjct: 70  IENPPQSV----IANKEDILMTRTGNTGKVVT----NVFGAFHNNFFKIKFDKNLYDRLF 121

Query: 333 LAWLMRSYDLCKVFYAM-GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
           L  ++ S  +     ++ GS     L   D   +    P ++EQ  I        +++D 
Sbjct: 122 LVEVLNSSKIQNKILSLAGSSTIPDLNHSDFYSISSSYPLLREQQKIGQF----FSKLDR 177

Query: 392 LVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGE 424
            +E  EQ + LL++++  ++    + ++  + E
Sbjct: 178 QIELQEQKLELLQQQKKGYMQKIFSQELRFKDE 210



 Score = 62.9 bits (151), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 25/190 (13%), Positives = 66/190 (34%), Gaps = 11/190 (5%)

Query: 24  HWKVVPIKRFTKLNT---GRTSES-GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            WK   +   T+ +    G ++       IYI + D++  + K   ++  +     +   
Sbjct: 217 DWKEKKLGDITEQSMYGIGASATRFDSKNIYIRITDIDEKSRKLNYQNLTTPDELNNKYK 276

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFL------VLQPKDVLPELLQGWLLSIDV 133
           +  +  IL+ + G    K+ I   +      +           +   P  +  + L+   
Sbjct: 277 L-KRNDILFARTGASTGKSYIHKEEKDIYNYYFAGFLIKFEIDEQNNPLFIYQFTLTSKY 335

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            + ++ +   +     + +    +P+ +P   EQ  I E +     +I+    +     +
Sbjct: 336 NKWVKVMSVRSGQPGINSEEYAKLPLVLPNKLEQQKIAEFLDRFDQQIELEKQKIEILQQ 395

Query: 194 LLKEKKQALV 203
             K   Q++ 
Sbjct: 396 QKKGLLQSMF 405


>gi|212703157|ref|ZP_03311285.1| hypothetical protein DESPIG_01198 [Desulfovibrio piger ATCC 29098]
 gi|212673423|gb|EEB33906.1| hypothetical protein DESPIG_01198 [Desulfovibrio piger ATCC 29098]
          Length = 393

 Score =  112 bits (280), Expect = 1e-22,   Method: Composition-based stats.
 Identities = 46/402 (11%), Positives = 122/402 (30%), Gaps = 29/402 (7%)

Query: 30  IKRFTK-LNTGRTSESGK-------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           I+  +K + +G T  +         DI ++  +++            N      S+    
Sbjct: 9   IREISKKILSGGTPSTKNKGYYYNGDIPWLNTKEINFKRIYKTENYINQDGLRNSSAKWI 68

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            +  ++    G    K  I       +     L   + + +    +   ++  ++I  + 
Sbjct: 69  PRDSVIVAMYGATAGKVAINKIPLTTNQACCNLIINEKVADFNFIYYYLVNEYEKIIKLA 128

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE-KKQ 200
            GA   + +   I N  + +PPL EQ  I   + +   +ID L  +      + +   +Q
Sbjct: 129 SGAAQQNLNVSIISNYIIFLPPLYEQKAIVGVLSSLDDKIDLLQRQNATLEAMAETLFRQ 188

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
             +        + +     S IE +G        + ++                      
Sbjct: 189 WFIEEAQE---DWEEYPLSSFIEIIGGGTPKTSEESYWHGDILWMSGGDIASSHKSFIF- 244

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
                     + +  +     +  ++     V             +   + E+   +   
Sbjct: 245 -------DTDKKISSEGLENSSANLLPKFSTVITARGTVG-----KICLLGEQAAFSQTN 292

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
             + P    + +  +L+ S  LC +  +    +  ++     + +    P       I N
Sbjct: 293 YGILPRIAGTPFFTFLLMSDLLCYLKQSAYGSVFDTITRSTFEEIKFNCPTD---NYIVN 349

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
                 +     +    + I  L++ R + +   ++G++ +R
Sbjct: 350 F-ENMISPFFQKMFSNCRQIRTLEKLRDTLLPKLMSGEVRVR 390



 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 26/195 (13%), Positives = 60/195 (30%), Gaps = 11/195 (5%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDV---ESGTGKYLPKDGNSRQS 73
           + W+  P+  F ++  G T ++ +      DI+++   D+            K  +S   
Sbjct: 196 EDWEEYPLSSFIEIIGGGTPKTSEESYWHGDILWMSGGDIASSHKSFIFDTDKKISSEGL 255

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
           + S+ ++  K   +    G   +  ++ +      T + +L      P      +  +  
Sbjct: 256 ENSSANLLPKFSTVITARGTVGKICLLGEQAAFSQTNYGILPRIAGTPFFTFLLMSDLLC 315

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
             +  A   G+            I    P     V     I     ++ +   +     +
Sbjct: 316 YLKQSAY--GSVFDTITRSTFEEIKFNCPTDNYIVNFENMISPFFQKMFSNCRQIRTLEK 373

Query: 194 LLKEKKQALVSYIVT 208
           L       L+S  V 
Sbjct: 374 LRDTLLPKLMSGEVR 388


>gi|256826063|ref|YP_003150023.1| hypothetical protein Ksed_22810 [Kytococcus sedentarius DSM 20547]
 gi|256689456|gb|ACV07258.1| hypothetical protein Ksed_22810 [Kytococcus sedentarius DSM 20547]
          Length = 418

 Score =  112 bits (280), Expect = 1e-22,   Method: Composition-based stats.
 Identities = 66/421 (15%), Positives = 135/421 (32%), Gaps = 29/421 (6%)

Query: 17  WIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT-GKYLPKDGNSRQSDT 75
           W+  +P  W  +  +  ++    R      D      + +   T  +Y+ + G+    + 
Sbjct: 4   WLEHLPSGWDTIQPR--SRFRERREPSRPDDEHLTPSQHLGVLTQREYMERTGSRVVLNL 61

Query: 76  STV---SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
           S          G      L  +      +   G  ST + V++  D        W+    
Sbjct: 62  SGADKMKHVEPGDF-IAHLRSFQGGLETSALRGKVSTAYTVMRAIDGAHHPYFRWVFKSH 120

Query: 133 VTQRIEAICEGATM--SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
                 A             ++ IG++ +P+PP  +Q  I + +     RID +I  R  
Sbjct: 121 AFIGELASTTQQLRDGQTVRFQDIGSLRLPLPPEPDQRRIADFLDDRVSRIDRIIAARNT 180

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
               +  +   L+ + +T   +             G V     +       +    +   
Sbjct: 181 QRGQVAAQAGQLIDHQLTDHGDRW-----------GAVRLGRLLTKLEQGWSPAADQQPA 229

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETY--QIVDPGEIVFRFI----DLQNDKRS 304
            +    +  +      +    +    P++ E      +  G+++        DL      
Sbjct: 230 ELGQWGVMRAGCVNSGEFRAEDNKRLPDAVEPRLEYEIKGGDLIMSRASGSLDLIGSVAL 289

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFED 361
           +  +   +  +    Y      G+   Y A  +R +   +      SG      +L    
Sbjct: 290 VPDSVRDQLLLCDKLYRLRTVAGLVPQYTAHALRHHANRQRIRQGVSGAEGMANNLPSGV 349

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           ++ L + +P    Q +  +    E A        + +SI LL E + S I AAVTGQ+D+
Sbjct: 350 IRSLMIPLPDRSTQIEAIDRWEDEMAGNRRTQAALTRSIELLTEYKQSLITAAVTGQLDV 409

Query: 422 R 422
            
Sbjct: 410 T 410


>gi|149199121|ref|ZP_01876160.1| putative restriction-modification system specificity determinant
           [Lentisphaera araneosa HTCC2155]
 gi|149137718|gb|EDM26132.1| putative restriction-modification system specificity determinant
           [Lentisphaera araneosa HTCC2155]
          Length = 402

 Score =  112 bits (279), Expect = 1e-22,   Method: Composition-based stats.
 Identities = 59/413 (14%), Positives = 126/413 (30%), Gaps = 41/413 (9%)

Query: 30  IKRFTKLNTGRTSESGK--------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           I   +    G + +               +   ++  G   Y  K    +        + 
Sbjct: 6   IGDISSQIRGVSYKKNDVVDEPTERYTPVMRANNINEGFLNY-DKLVYVKSEVIKEHQLL 64

Query: 82  AKGQILYG----KLGPYLRKAIIADFDGICSTQFL---VLQPKDVLPELLQGWLLSIDVT 134
            KG +L       L    +     D        F        K V P     +  S    
Sbjct: 65  QKGDVLICASSGSLNLVGKAGSFLDSTSSSFGAFCKVLRPDTKKVFPRFFHFYFQSQGYK 124

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           + I+A+ EGA +++   + + ++ +P+P L EQ  I   +               +  E 
Sbjct: 125 RSIKALAEGANINNIKNEHLDDLKIPLPSLEEQKRIAAILDKADELRQKRREAISQCNEF 184

Query: 195 LKEKKQALVSYIV--TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           LK    ++    V   KG +  +  +       G  P              +        
Sbjct: 185 LKSTFLSMFGDPVTNPKGWDKIIFDELLDNIDGGWSPKCETWPATLDEWGVMKLGALTTC 244

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
           E             K E     L     ++   + P +++F   +      +        
Sbjct: 245 EY------------KEEENKAMLPGLETKSNIEIQPRDLLFSRKNTHELVAACAYVWDTR 292

Query: 313 RGIITSAYMAVKPHG----IDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRL 365
             ++ S  M          ++S Y+  L+ +    K   A+ SG      ++  +++K +
Sbjct: 293 PQLMMSDLMFRFKFKASAEVNSIYMWKLLVNERQRKEVQALASGAAGSMPNISKKNLKTI 352

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            + +PPI+ Q     +      + +    +++QS+  L +   + +  A  G+
Sbjct: 353 KLPIPPIELQNQFAEI----AKKTESSKSQMQQSLKELDDNFDALMQKAFKGE 401


>gi|325474566|gb|EGC77752.1| type I restriction-modification system [Treponema denticola F0402]
          Length = 532

 Score =  112 bits (279), Expect = 1e-22,   Method: Composition-based stats.
 Identities = 63/449 (14%), Positives = 126/449 (28%), Gaps = 73/449 (16%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTS--------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           +P+ W    +     +  G +         +    I +I + D    +   +      + 
Sbjct: 86  VPEGWAWCRLGVVADIARGGSPRPIEDFITDKKNGINWIKIGDTVPESKYIISAKEKIKP 145

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
                      G  L      + R  I+     I     +       L +    + LS  
Sbjct: 146 EGKKHSRFVHAGDFLLTNSMSFGRPYILKIDGCIHDGWLVFADIIKYLLKDFLYYALSSK 205

Query: 133 VTQRIEAICE-GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
                 ++   G+T+ +     +  +  P+PPL EQ  I   I A   +ID L   +   
Sbjct: 206 YIYNSFSLVAAGSTVKNLKADTVKQVLFPLPPLLEQKRIITNIEAIFAQIDLLEQNKADL 265

Query: 192 IELLKEKKQALVSYIVTKGLNPD----------------------------------VKM 217
              +K+ K  ++   +   L P                                      
Sbjct: 266 QTAVKQAKSKILDLAIRGKLVPQDPTDEPASVMLEKLHAEKEAKIVAGEIKRGKYDSYIY 325

Query: 218 KDS-----------------GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN----- 255
           K+S                   E    VP+ W       +  +     T     N     
Sbjct: 326 KNSTDNCYYQKYTDGREENISDEIPFTVPEGWACCRLPEVCRKPTTDGTHNSPPNSASGA 385

Query: 256 ILSLSYGNIIQ-----KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
            L ++  NI          T       ES  +    +  +++        +     +   
Sbjct: 386 FLYITAKNIKNLEICLDDATYVSKEIHESIYSRCSPELNDVLLTKDGTIGEVA--VNNLN 443

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLV 369
               +++S  +     GI S +LA+++ S  L         G   + +    +    + +
Sbjct: 444 YPFSMLSSVALIKPSKGILSWFLAYILISDLLQNKMKKNAKGSALKRIILTQINDFLIPL 503

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQ 398
           PP+ EQ  I   I    A++D +   + +
Sbjct: 504 PPLAEQKRIVAKIEELFAQLDFITTTLTK 532



 Score = 80.6 bits (197), Expect = 5e-13,   Method: Composition-based stats.
 Identities = 40/212 (18%), Positives = 78/212 (36%), Gaps = 14/212 (6%)

Query: 218 KDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG----------NIIQK 267
           KD   E    VP+ W       +       + + IE  I     G             + 
Sbjct: 76  KDIEDEIPFAVPEGWAWCRLGVVADIARGGSPRPIEDFITDKKNGINWIKIGDTVPESKY 135

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
           + +    +KPE  +  + V  G+ +            L+    +  G +     A     
Sbjct: 136 IISAKEKIKPEGKKHSRFVHAGDFLLTNSMSFGRPYILKIDGCIHDGWL---VFADIIKY 192

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
           +   +L + + S  +   F  + +G   ++LK + VK++   +PP+ EQ  I   I    
Sbjct: 193 LLKDFLYYALSSKYIYNSFSLVAAGSTVKNLKADTVKQVLFPLPPLLEQKRIITNIEAIF 252

Query: 387 ARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           A+ID+L +        +K+ +S  +  A+ G+
Sbjct: 253 AQIDLLEQNKADLQTAVKQAKSKILDLAIRGK 284


>gi|118496896|ref|YP_897946.1| type I restriction-modification system, subunit S [Francisella
           tularensis subsp. novicida U112]
 gi|194324121|ref|ZP_03057895.1| type I restriction modification DNA specificity domain protein
           [Francisella tularensis subsp. novicida FTE]
 gi|118422802|gb|ABK89192.1| type I restriction-modification system, subunit S [Francisella
           novicida U112]
 gi|194321568|gb|EDX19052.1| type I restriction modification DNA specificity domain protein
           [Francisella tularensis subsp. novicida FTE]
          Length = 406

 Score =  112 bits (279), Expect = 1e-22,   Method: Composition-based stats.
 Identities = 57/422 (13%), Positives = 132/422 (31%), Gaps = 40/422 (9%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQS 73
            +PK W+   +  F  +  G   +         + I +   +   G G +          
Sbjct: 5   ELPKGWRECKLGDFISVKHGYAFKGKNITTEANENILVTPGNFNIGGG-FKKDKFKYFND 63

Query: 74  DTSTVSIFAKGQILYGKLGPYLR----------KAIIADFDGICSTQFLVLQPKDVLPEL 123
           D  +  I  +  I+                      I +   + + +  ++Q  + L   
Sbjct: 64  DYPSEYILNESDIIVTMTDLSKESDTLGYSAKVPKSIKNEKYLHNQRIGLVQFINQLCNK 123

Query: 124 LQGWL--LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
              +    + +    I     G ++ H     I +     PPLAEQ  I E +      +
Sbjct: 124 EYIYWLLRTREYQNYIVGSASGTSIMHTSPSRICDYVFLCPPLAEQKAIAEVL----SSL 179

Query: 182 DTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALV 241
           D  I    +  + L++  Q L      +  +           W  +              
Sbjct: 180 DDKIDLLHKQNQTLEDMAQTLFREWFIEKADEG---------WEEMPLSEVADIKIGRTP 230

Query: 242 TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQND 301
               ++       ++  +S  ++ Q+    N   +  + E  +      IV   + L   
Sbjct: 231 PRKEKQWFSNDPKDVKWISIKDMGQEGVFINGTSEYLTQEAVEKFKIPIIVKNTVILSFK 290

Query: 302 KRSLRSAQVMERGIITSAYMAVK--PHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKF 359
               R     E  +   A          + + YL   +++Y    +     S +  S+  
Sbjct: 291 MTLGRVKITGENMLSNEAIAHFNITNDKLYNEYLYLFLKTYPYQTL--GSTSSIVTSINS 348

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
             +K + +++P  K +     VI+    +    ++  ++ I  L++ R + +   ++GQ+
Sbjct: 349 AMIKNILIILPDFKVKKSFKEVISPMFEK----IQNNQKQIKTLEQTRDTLLPKLMSGQV 404

Query: 420 DL 421
            +
Sbjct: 405 RV 406


>gi|89890209|ref|ZP_01201719.1| putative type I restriction-modification specificity subunit
           [Flavobacteria bacterium BBFL7]
 gi|89517124|gb|EAS19781.1| putative type I restriction-modification specificity subunit
           [Flavobacteria bacterium BBFL7]
          Length = 408

 Score =  112 bits (279), Expect = 1e-22,   Method: Composition-based stats.
 Identities = 48/406 (11%), Positives = 122/406 (30%), Gaps = 33/406 (8%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKD-----IIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
            W+   +        G+            +  I   ++ +   + + +  +      S++
Sbjct: 21  EWEKFILGEIATFGKGKNISKSDISEDGVLECIRYGELYTEYNEVISEVKSKTNLPISSL 80

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFL--VLQPKDVLPELLQGWLLSIDVTQR 136
            +  +  +L    G        A             +   K     +   + L+ +    
Sbjct: 81  ILSEENDVLIPASGETRIDIATASCVKKAGVALGGDLNIIKTKKNGVYLSYYLNSEKKFD 140

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           I  + +G ++ H     +  + +  P   EQ  I   + A   +I  L +++ +  +  K
Sbjct: 141 IARLAQGNSVVHVYNSQLKTLKLNFPSQLEQQKIATFLTAVDDKISQLTSKKEQLTQYKK 200

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
              Q L S  +        +  D   + +G V            + E+ +     +   I
Sbjct: 201 GVMQQLFSQELRFQDENGKQFPDWEEKRLGEV--------LKQQIREIPKPKQNYLAIGI 252

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
            S   G   +     N      + +   +V   ++V           ++   +  + G++
Sbjct: 253 RSHVKGTFQKPDSDPNK----IAMKKLFVVKENDLVVNITFAWEGAIAIVKKE-DDGGLV 307

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM------GSGLRQS-LKFEDVKRLPVLV 369
           +  +         +       +   + K F         G   R   L  ++  ++    
Sbjct: 308 SHRFPTYTFKE--NQTCYEYFKHIIVDKKFRFTLDLISPGGAGRNRVLSKKEFLKIKWSF 365

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           P +KEQ  I   ++     +D  +E ++  I   +E +   +    
Sbjct: 366 PSLKEQQKIATYLSA----LDDKIEAVQVQIEKTQEFKKGLLQQLF 407



 Score = 72.9 bits (177), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 23/184 (12%), Positives = 60/184 (32%), Gaps = 8/184 (4%)

Query: 244 LNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES---YETYQIVDPGEIVFRFIDLQN 300
              K+    +  +  + YG +  +       +K ++     +  + +  +++        
Sbjct: 38  NISKSDISEDGVLECIRYGELYTEYNEVISEVKSKTNLPISSLILSEENDVLIPASGETR 97

Query: 301 DKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFE 360
              +  S  V + G+     + +     +  YL++ + S     +           +   
Sbjct: 98  IDIATASC-VKKAGVALGGDLNIIKTKKNGVYLSYYLNSEKKFDIARLAQGNSVVHVYNS 156

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQID 420
            +K L +  P   EQ  I   +     +I  L  K EQ    L + +   +    + ++ 
Sbjct: 157 QLKTLKLNFPSQLEQQKIATFLTAVDDKISQLTSKKEQ----LTQYKKGVMQQLFSQELR 212

Query: 421 LRGE 424
            + E
Sbjct: 213 FQDE 216


>gi|182626285|ref|ZP_02954041.1| type I restriction enzyme S subunit [Clostridium perfringens D str.
           JGS1721]
 gi|177908383|gb|EDT70925.1| type I restriction enzyme S subunit [Clostridium perfringens D str.
           JGS1721]
          Length = 387

 Score =  112 bits (279), Expect = 1e-22,   Method: Composition-based stats.
 Identities = 64/405 (15%), Positives = 138/405 (34%), Gaps = 35/405 (8%)

Query: 26  KVVPIKRFTKLNTGRTSESG-------KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           K   IK    ++TG T           KDI++I  +D++    +                
Sbjct: 3   KEYKIKELGDISTGNTPSKKNKEFYDSKDIMFIKPDDIDEDIKELSSSKEYISFIAKEKS 62

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
            I  K  +L   +G    K  I   +G  + Q   + P + +        + ++  ++++
Sbjct: 63  RIIPKNTLLVTCIGSI-GKIAINKEEGAFNQQINAIVPNNKIFSSKYLAYVFMNNKEKLK 121

Query: 139 AICEGATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           AI     +   +        + I   L  Q  I + +      I+    +      L   
Sbjct: 122 AIANAPVVPIINKTQFSEFKVYIHDDLGVQKKIVDILDKAQKLINKRKLQIEELDLL--- 178

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
               + S  +    +P    K      +  + +       +       R  ++    NI 
Sbjct: 179 ----VKSKFIEMFGDPVKNQKKLAKVKLSELGE-------WKTGGTPLRSKSEYYNGNIP 227

Query: 258 SLSYGNIIQKLETRNMGLKPES---YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
            LS G +  K   ++  +  ES       +I++ G ++    D      +L+S   M   
Sbjct: 228 WLSSGELNNKYCFKSNEMITESAIIESAAKIIEVGSLLLGMYDT----AALKSTINMIEC 283

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIK 373
               A    K +      +          + + +   G+ +++L    +K L +L+P ++
Sbjct: 284 SCNQAIAYSKLNENLVNTVYVYYCIQIGKEFYKSQQRGVRQKNLNLSMIKGLEILMPELE 343

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            Q      +     R+D L  ++E+S+  L++  +S +  A  G+
Sbjct: 344 LQNQFAEFV----KRVDKLKFEMEKSLKELEDNFNSLMQKAFKGE 384



 Score = 59.4 bits (142), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 23/192 (11%), Positives = 53/192 (27%), Gaps = 10/192 (5%)

Query: 28  VPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           V +    +  TG T    K      +I ++   ++ +       +         S   I 
Sbjct: 200 VKLSELGEWKTGGTPLRSKSEYYNGNIPWLSSGELNNKYCFKSNEMITESAIIESAAKII 259

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
             G +L G       K+ I   +  C+      +  + L   +  +       +  ++  
Sbjct: 260 EVGSLLLGMYDTAALKSTINMIECSCNQAIAYSKLNENLVNTVYVYYCIQIGKEFYKSQQ 319

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            G    + +   I  + + +P L  Q    E +         +        +       +
Sbjct: 320 RGVRQKNLNLSMIKGLEILMPELELQNQFAEFVKRVDKLKFEMEKSLKELEDNFN----S 375

Query: 202 LVSYIVTKGLNP 213
           L+       L  
Sbjct: 376 LMQKAFKGELFK 387


>gi|229541312|ref|ZP_04430372.1| restriction modification system DNA specificity domain protein
           [Bacillus coagulans 36D1]
 gi|229325732|gb|EEN91407.1| restriction modification system DNA specificity domain protein
           [Bacillus coagulans 36D1]
          Length = 427

 Score =  111 bits (278), Expect = 2e-22,   Method: Composition-based stats.
 Identities = 51/417 (12%), Positives = 130/417 (31%), Gaps = 30/417 (7%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           IG IPK WKV  +K  +     +      +++ I  +       +   K         + 
Sbjct: 28  IGTIPKDWKVKKLKDISNRVQRKNDGKSHNVLTISSKGGFLNQTERFSKVIAGEN--LAK 85

Query: 78  VSIFAKGQILYGKLGPYLRKAII-----ADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
             +  K +  Y K                  + +    +   + ++ + E  + + ++  
Sbjct: 86  YILLRKNEFAYNKGNSKTYPYGCIYRLEDYEEALVPNVYYCFEIREGVTEFYKHYFITGK 145

Query: 133 VTQRIEAICEGATMS----HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
           + + +  +      +    + +     ++P+  PP+ EQ  I   +      I+      
Sbjct: 146 LNKFLARVINTGVRNDGLLNLNVTDFFDVPVAAPPIKEQQKIASILSTWDKAIELNEKLI 205

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN 248
            +  +  K   Q L++  V         +     EW                 +  ++KN
Sbjct: 206 EQKKKQKKGLMQKLLTGEVR--------LPGFEGEWGKFKIKEVCNVVSGGTPSTNDKKN 257

Query: 249 TKLIESNIL--SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
                       ++      +   + +  K     +  ++    I+         +   R
Sbjct: 258 WDGNIPWCTPTDITSSGKFIRNTKQTITEKGLKNSSANLLPKNSILMCSRATIGPRSINR 317

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLP 366
                 +G  +     V           + + S  +              +  +DV+   
Sbjct: 318 VEMATNQGFKS----FVCNEEYLDYEFFYYLLSIYIPIFKKLASGSTFLEVSKKDVENTK 373

Query: 367 VLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
           + +P  +KEQ  I ++I      +D  +E +E+    LK+++   +   +TG++ ++
Sbjct: 374 IFIPKDVKEQKAIGSIIG----NLDKAIELLEEETKELKQQKKGLMQLLLTGKVRVK 426



 Score = 96.0 bits (237), Expect = 9e-18,   Method: Composition-based stats.
 Identities = 38/207 (18%), Positives = 81/207 (39%), Gaps = 10/207 (4%)

Query: 225 VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ 284
           +G +P  W+VK    +   + RKN     + +   S G  + + E  +  +  E+   Y 
Sbjct: 28  IGTIPKDWKVKKLKDISNRVQRKNDGKSHNVLTISSKGGFLNQTERFSKVIAGENLAKYI 87

Query: 285 IVDPGEIVFRFIDL-QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC 343
           ++   E  +   +        +   +  E  ++ + Y   +     + +      +  L 
Sbjct: 88  LLRKNEFAYNKGNSKTYPYGCIYRLEDYEEALVPNVYYCFEIREGVTEFYKHYFITGKLN 147

Query: 344 KVFYAMGSGLRQS-----LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
           K    + +   ++     L   D   +PV  PPIKEQ  I ++++      D  +E  E+
Sbjct: 148 KFLARVINTGVRNDGLLNLNVTDFFDVPVAAPPIKEQQKIASILSTW----DKAIELNEK 203

Query: 399 SIVLLKERRSSFIAAAVTGQIDLRGES 425
            I   K+++   +   +TG++ L G  
Sbjct: 204 LIEQKKKQKKGLMQKLLTGEVRLPGFE 230


>gi|121534615|ref|ZP_01666437.1| restriction modification system DNA specificity domain [Thermosinus
           carboxydivorans Nor1]
 gi|121306867|gb|EAX47787.1| restriction modification system DNA specificity domain [Thermosinus
           carboxydivorans Nor1]
          Length = 438

 Score =  111 bits (278), Expect = 2e-22,   Method: Composition-based stats.
 Identities = 70/432 (16%), Positives = 142/432 (32%), Gaps = 42/432 (9%)

Query: 26  KVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVES---GTGKYLPKDGNSRQSDTS 76
           KVV IK   K+ TG+T  +      G    +I   D+ S       ++ +  + +  D  
Sbjct: 7   KVVKIKDVGKVITGKTPPTSQPELFGDKYPFITPSDISSFDVRYIDFVERGLSDKGFDKQ 66

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQF--LVLQPKDVLPELLQGWLLSIDVT 134
                 K  + Y  +G  + K  + +     + Q   +V+      P+ +   L +    
Sbjct: 67  KRYALPKDTVCYVCIGSTIGKVCLTNKVSFTNQQINSIVVNRDKFNPKYVYYLLRAETPK 126

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
            +  +   GA  +  +     +I + + PL  Q  I   + A    I+            
Sbjct: 127 IQAISGGTGAGKAILNKSSFEDIDLNVFPLPIQNKIAAILSAYDDLIENNTRRIKILE-- 184

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
             E  Q L      K   P  +        +G +P+ WEVK   +L+          +  
Sbjct: 185 --EMAQLLYREWFVKFRFPGHEKVRMVDSELGPIPEGWEVKNIGSLLAHTIGGGWGEVSR 242

Query: 255 NILSLSYGNIIQKLETRNM----------GLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
           +        +I+  +  N+              ES    + +  G+IVF        +  
Sbjct: 243 SDKYTVPAYVIRGTDIPNVRQGSIESCPLRYHTESNFRSRKLKAGDIVFEVSGGSKGQPV 302

Query: 305 LRS-------AQVMERGIITSAY---MAVKPHGIDSTYLAWLMRSYDLCKVFYAM--GSG 352
            R+           +  +I +++   +      +    +   +       V       S 
Sbjct: 303 GRALLINQSLLNSYDNDVICASFCKLIRPDKETMLPELIYLHLLEIYANGVIEKYQVQST 362

Query: 353 LRQSLKFEDV-KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
              + K+E   K   +LVP  K Q +  + I      I  +++K+      L+  R   +
Sbjct: 363 GITNFKYEFFLKNDQILVPDRKIQQNFADHI----IPIFDMIQKLGAMNRNLRRTRDLLL 418

Query: 412 AAAVTGQIDLRG 423
              ++G++D+  
Sbjct: 419 PKLISGELDVED 430



 Score = 39.4 bits (90), Expect = 1.2,   Method: Composition-based stats.
 Identities = 32/221 (14%), Positives = 63/221 (28%), Gaps = 23/221 (10%)

Query: 12  DSGVQWIGAIPKHWKVVPIKRFTKLNTG-------RTSESGKDIIYIGLEDV-ESGTGKY 63
           DS    +G IP+ W+V  I        G       R+ +       I   D+     G  
Sbjct: 210 DSE---LGPIPEGWEVKNIGSLLAHTIGGGWGEVSRSDKYTVPAYVIRGTDIPNVRQGSI 266

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILY-----GKLGPYLRKAII-------ADFDGICSTQF 111
                               G I++      K  P  R  +I        D D IC++  
Sbjct: 267 ESCPLRYHTESNFRSRKLKAGDIVFEVSGGSKGQPVGRALLINQSLLNSYDNDVICASFC 326

Query: 112 LVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIR 171
            +++P          +L  +++             +                L     I+
Sbjct: 327 KLIRPDKETMLPELIYLHLLEIYANGVIEKYQVQSTGITNFKYEFFLKNDQILVPDRKIQ 386

Query: 172 EKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLN 212
           +      + I  +I +       L+  +  L+  +++  L+
Sbjct: 387 QNFADHIIPIFDMIQKLGAMNRNLRRTRDLLLPKLISGELD 427


>gi|324990378|gb|EGC22316.1| type I restriction-modification system specificity subunit
           [Streptococcus sanguinis SK353]
          Length = 415

 Score =  111 bits (278), Expect = 2e-22,   Method: Composition-based stats.
 Identities = 62/400 (15%), Positives = 133/400 (33%), Gaps = 24/400 (6%)

Query: 25  WKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           W+   +        G+    G         I    + +  G  +            +V +
Sbjct: 29  WEQRKLGEVADFTKGKGYSKGDIEMSGTPIILYGRLYTNYGTIIDNVDTYVTMKEHSV-L 87

Query: 81  FAKGQILY----GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI-DVTQ 135
               +I+            R +++A    I      +++       +     LS     +
Sbjct: 88  SEGNEIIVPSSGESSEEISRASVVAKKGVILGGDLNIIRLNSKFSSVFVAITLSNGSQQK 147

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            +    +G ++ H     +  + +  P L EQ+ I          +D LIT + R ++L+
Sbjct: 148 ELSKRAQGKSVVHLHNSDLKEVNLFYPTLPEQIAIGSF----FQELDQLITLQQRELKLI 203

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
           KE K+ L+S +  K       ++  G           +V   F+  T     N +    +
Sbjct: 204 KEGKKTLLSKMFPKDGENFPGIRFPGFTDAWEQRKLGDVFTSFSGGTPAAG-NKRYYGGD 262

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
           I  +    I        +  +     + ++V  G+I++      + +  +        G 
Sbjct: 263 IPFIRSAEIHSDSTELFLTNEGLENSSAKLVKKGDILYALYGATSGEVDISKI----NGA 318

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
           I  A + + P    S+        Y    +      G + +L    VK L + +P   EQ
Sbjct: 319 INQAILCIVPKINYSSGFIMQWLKYQKKNITDKYLQGGQGNLSGTLVKELDISLPTPPEQ 378

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
             I +        +D L+   ++ + +LK  +S+ +  A+
Sbjct: 379 RAIGSF----FQELDHLITLQQRELEILKTMKSTLL-KAM 413


>gi|282866390|ref|ZP_06275435.1| restriction modification system DNA specificity domain protein
           [Streptomyces sp. ACTE]
 gi|282558786|gb|EFB64343.1| restriction modification system DNA specificity domain protein
           [Streptomyces sp. ACTE]
          Length = 392

 Score =  111 bits (278), Expect = 2e-22,   Method: Composition-based stats.
 Identities = 68/399 (17%), Positives = 136/399 (34%), Gaps = 27/399 (6%)

Query: 27  VVPIKRFTKLNTGRTSESG------KDIIYIGLEDVESGTGKYL---PKDGNSRQSDTST 77
            VP+    ++ +G T ++G       +I +   +D+ S +GKY+   P+       D+  
Sbjct: 6   EVPLSECCEVVSGGTPKTGVASYWHGEIPWATPKDLGSLSGKYISETPRKITQEGLDSCG 65

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
            ++   G +L+    P      +       +  F    PK    +    +         +
Sbjct: 66  ATLLPAGSVLFSSRAPIGH-VAVNAISMATNQGFKSFIPKPDYLDASYLYHWLRASRPYL 124

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           E++  GAT        +G + +P+P + +Q  +   +             R   I+LL E
Sbjct: 125 ESLGNGATFKEISKSTVGKVKIPLPSIDDQRKVARVLDRVDELCAK----RCEAIDLLDE 180

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
             Q++   +    +    ++    +  +G +                N +N       I 
Sbjct: 181 LAQSIFLDMFGDPVVNSRELPTLPMSEIGKITTGSTPPR-------SNPRNYGNSIEWIK 233

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
           S +  N    L +    L  +  +  +IVDPG I+   I          SA    R    
Sbjct: 234 SDNIDNSSVYLTSAAERLSEDGAKIARIVDPGSILVTCIAGSTAAIG-SSAIANRRVSFN 292

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFD 377
               A+ P   DS +L + +R      +   +  G++  +       + +L PP  EQ +
Sbjct: 293 QQINAITPFNADSLFLYYQLRLAKPL-ILEKVTGGVKFLVSKSRFGSVVLLNPPHAEQRE 351

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
            +    +       L +     +  L+   SS   +A  
Sbjct: 352 FSKRAGLVLG----LQDMNRAHLAELRSLFSSLQHSAFR 386


>gi|261416113|ref|YP_003249796.1| restriction modification system DNA specificity domain protein
           [Fibrobacter succinogenes subsp. succinogenes S85]
 gi|261372569|gb|ACX75314.1| restriction modification system DNA specificity domain protein
           [Fibrobacter succinogenes subsp. succinogenes S85]
 gi|302327173|gb|ADL26374.1| putative type I restriction-modification system, S subunit
           [Fibrobacter succinogenes subsp. succinogenes S85]
          Length = 383

 Score =  111 bits (278), Expect = 2e-22,   Method: Composition-based stats.
 Identities = 71/406 (17%), Positives = 138/406 (33%), Gaps = 39/406 (9%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+   +K   +          K    I   D++  TG Y     +    +        + 
Sbjct: 4   WEWKKLKDICE----------KGSSNIKQSDLKDLTGDYPIFGASGYIQNVDFYQR-NRD 52

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            I   K G  + + ++             + PK+        + L            +GA
Sbjct: 53  YIGIIKDGSGVGRTMLLPAFSSVIGTLQYILPKEGNDIKFINYALQN---IDFSKSIQGA 109

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
            + H  +K  G   + +PPL+EQ  I + +  E  +I+TL T     ++  KE  ++ + 
Sbjct: 110 AIPHIYFKDYGETEILVPPLSEQKSIVKFLDEEFSKIETLKTNAETNLKNAKELFESTLE 169

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
             +  G               G +P  WE K    L      KN  L             
Sbjct: 170 KELNPG-------------KNGTLPSGWEWKTLRELCILRPSKNEALSHLKGTDEVSFLP 216

Query: 265 IQKLETRNMGLKP-------ESYETYQIVDPGEIVFRFIDLQ--NDKRSLRSAQVMERGI 315
           ++ L  R     P       E + +Y     G+++   +     N K  + S  +   G 
Sbjct: 217 MEDLNIRERNTIPHKSRALSEVHGSYTFFAEGDVLLAKVTPCFENGKMGIASNLLNGVGF 276

Query: 316 ITSAYMAVKP-HGIDSTYLAWLMRSYDLCK--VFYAMGSGLRQSLKFEDVKRLPVLVPPI 372
            +S Y+  +    + ++YL +++ S           +G+   + L  E V+   + +PP+
Sbjct: 277 GSSEYIVFRTTKSMINSYLFYVLMSSRFISGGKKQMLGACGLKRLSKEYVESFQIPLPPL 336

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
             Q +I   ++  +  +  L    +Q I    E + S +     G+
Sbjct: 337 SVQKEIVARLDKLSENVKRLEVNYKQIIANCDELKKSILKKTFEGE 382



 Score = 69.8 bits (169), Expect = 9e-10,   Method: Composition-based stats.
 Identities = 32/202 (15%), Positives = 78/202 (38%), Gaps = 13/202 (6%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRT-----SESGKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
           G +P  W+   ++    L   +       +   ++ ++ +ED+       +P    +   
Sbjct: 178 GTLPSGWEWKTLRELCILRPSKNEALSHLKGTDEVSFLPMEDLNIRERNTIPHKSRALSE 237

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIA------DFDGICSTQFLVLQ-PKDVLPELLQG 126
              + + FA+G +L  K+ P      +       +  G  S++++V +  K ++   L  
Sbjct: 238 VHGSYTFFAEGDVLLAKVTPCFENGKMGIASNLLNGVGFGSSEYIVFRTTKSMINSYLFY 297

Query: 127 WLLSIDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
            L+S       +    GA  +     + + +  +P+PPL+ Q  I  ++   +  +  L 
Sbjct: 298 VLMSSRFISGGKKQMLGACGLKRLSKEYVESFQIPLPPLSVQKEIVARLDKLSENVKRLE 357

Query: 186 TERIRFIELLKEKKQALVSYIV 207
               + I    E K++++    
Sbjct: 358 VNYKQIIANCDELKKSILKKTF 379



 Score = 67.9 bits (164), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 24/170 (14%), Positives = 55/170 (32%), Gaps = 4/170 (2%)

Query: 240 LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQ 299
           +     +K   + E    ++   ++        +       +              I   
Sbjct: 1   MSKWEWKKLKDICEKGSSNIKQSDLKDLTGDYPIFGASGYIQNVDFYQRNRDYIGIIK-D 59

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKF 359
                          +I +    +   G D  ++ + +++ D  K   ++       + F
Sbjct: 60  GSGVGRTMLLPAFSSVIGTLQYILPKEGNDIKFINYALQNIDFSK---SIQGAAIPHIYF 116

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
           +D     +LVPP+ EQ  I   ++ E ++I+ L    E ++   KE   S
Sbjct: 117 KDYGETEILVPPLSEQKSIVKFLDEEFSKIETLKTNAETNLKNAKELFES 166


>gi|217974626|ref|YP_002359377.1| restriction modification system DNA specificity domain-containing
           protein [Shewanella baltica OS223]
 gi|217499761|gb|ACK47954.1| restriction modification system DNA specificity domain protein
           [Shewanella baltica OS223]
          Length = 419

 Score =  111 bits (278), Expect = 2e-22,   Method: Composition-based stats.
 Identities = 49/411 (11%), Positives = 121/411 (29%), Gaps = 42/411 (10%)

Query: 26  KVVPIKRFTKLNTGRTS---------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           K  P++   +   G            +    + ++ + D+   + +              
Sbjct: 17  KWKPLEDVAEFRRGSFPQPYGNSEWYDGEGSMPFVQVVDLLDDSFELKEITKQRISKKAQ 76

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
             S+F +   +   L   + +  +  +D        +                     + 
Sbjct: 77  PKSVFVRNGTVIVTLQGTIGRVALTQYDCYVDRTLAIFTNYIECINTKYFAYQLKSKFEV 136

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPP-------LAEQVLIREKIIAETVRIDTLITERI 189
            +    G+T+            +PIP        LA Q  I   + A T     L  E  
Sbjct: 137 EKKNARGSTLKTITKAEFSKFQIPIPCPNNPEKSLAIQAEIVRILDAFTAMTAELTAELN 196

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEW--VGLVPDHWEVKPFFALVTELNRK 247
              +     +  L+S             ++  +EW  +G V             T     
Sbjct: 197 MRKKQYNYYRDQLLS------------FEEGEVEWKTLGDVTQ------LITKGTTPKEF 238

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYE-TYQIVDPGEIVFRFIDLQNDKRSLR 306
            +  +    L     N I+  +   +  +  + E    I++ G+I+F        K ++ 
Sbjct: 239 VSDGVNFIKLESFDDNQIKPDKFMFITPEVHNKELKRSILEEGDILFAIAGATIGKCAIV 298

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRL 365
              V+      +  +      ++  +  + M++  +         +  + ++  + +   
Sbjct: 299 DKSVLPANTNQALAIVRLTQQVNVKFAFYYMQTTAMTDYIAKFNKTSAQPNINLKQMSEF 358

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
            + VP I EQ  I  +++        + E + + I L ++     R   ++
Sbjct: 359 KIPVPTINEQIRIVKILDNFNTLTSSIKEGLPREIELRQKQYEYYRDLLLS 409


>gi|308064290|gb|ADO06177.1| type I R-M system specificity subunit [Helicobacter pylori Sat464]
          Length = 369

 Score =  111 bits (278), Expect = 2e-22,   Method: Composition-based stats.
 Identities = 61/406 (15%), Positives = 121/406 (29%), Gaps = 46/406 (11%)

Query: 21  IPKHWKVVPIKRF-----TKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           +P +W+ V +         K      +    +I +  +    +    ++ K         
Sbjct: 2   LPLNWQRVRLGDIGKPCMCKRVMKHQTTRYGEIPFYKIGTFGNTADAFISKKLFL--EYK 59

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
           +  S   KG IL    G   R  I            +V        E L           
Sbjct: 60  TKYSFPKKGDILISASGTIGRAVIYDGKPAYFQDSNIVWI---DNDETLVKNDFLFYAYS 116

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            ++   E  T+         N  +P+PPL EQ  I   +      +  L           
Sbjct: 117 NVKWNTEHTTILRLYNDNFRNTLIPLPPLNEQNAIANILSGLDRYLYAL----------- 165

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
                AL+       L  +   K    E +            +  V   +  N      +
Sbjct: 166 ----DALI-------LKKEGVKKALSFELLSQRKRLKGFNQAWQRVRLGDIANYLTSNLS 214

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
           +  ++    I+  +  N     ++     I D   I           R L      +  I
Sbjct: 215 VEQITQQGKIKVYDVNNFIGYTDTT---FISDKPYISIVKDGSVGRVRILPP----KTNI 267

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
           +++    +  H   + +L +L+ ++D           +   + F+D K   + +PP+ EQ
Sbjct: 268 LSTMGALIANHRTTTEFLFYLLSNFDFKNF---TSGSIIPHIYFKDYKEKTIFLPPLNEQ 324

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
             I N+++     I  L  K  Q     +  + +     ++ +I +
Sbjct: 325 NAIANILSALDNEIASLKNKKRQ----FENIKKALNHDLMSAKIRV 366


>gi|312872212|ref|ZP_07732285.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus iners LEAF 2062A-h1]
 gi|311092296|gb|EFQ50667.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus iners LEAF 2062A-h1]
          Length = 401

 Score =  111 bits (278), Expect = 2e-22,   Method: Composition-based stats.
 Identities = 53/409 (12%), Positives = 132/409 (32%), Gaps = 26/409 (6%)

Query: 24  HWKVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVESGTGKYL---PKDGNSRQS 73
           +WK+  I     +  G T  +       G  I +I  +D+   +G+++    ++   +  
Sbjct: 3   NWKICTIGDLGMVIGGATPSTKAAENYDGGTIAWITPKDLAGFSGRFISYGERNITKQGL 62

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
            + +  +  K  +L+    P      IA+ +   +  F  + P D        + L    
Sbjct: 63  KSCSAKLMPKHTVLFSSRAPI-GYIAIANQELCTNQGFKSVVPNDDTD-YKFLYYLLKYN 120

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPP-LAEQVLIREKIIAETVRIDTLITERIRFI 192
             +IE +  G T        + +I + +P  + EQ  I   +      +D  I +     
Sbjct: 121 KNKIENLGSGTTFKEVSGSTMRDIEVSVPTSIEEQRKIASVL----SLLDDKIEKNASIN 176

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           + L+++ QA+     +  L+         I+W+    D              + K  +  
Sbjct: 177 KNLEQQAQAIFK---SWFLDYKPFNGVRPIDWINGTIDDLA--KEVVCGKTPSTKVKEYY 231

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
            S++  +   ++              +Y                        L +    +
Sbjct: 232 GSDVPFIKIPDMHGNTYVVTTEQYLSNYGAASQAKKTLPPNSICVSCIGTAGLVTLVASK 291

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI 372
                     V        Y+  LM++                +L     +++  ++P I
Sbjct: 292 SQTNQQINAIVPKDKYSPFYIYLLMQTLSEVINKLGQSGSTIVNLNKTQFEKIKAIIPSI 351

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            +        +   + +  L+ + ++  + L   R++ +   ++G++D+
Sbjct: 352 TDMKTF----DALVSPLFALILENQKENIRLSSLRNTLLPKLMSGELDV 396


>gi|308062110|gb|ADO03998.1| anti-codon nuclease masking agent (prrB) [Helicobacter pylori
           Cuz20]
          Length = 429

 Score =  111 bits (278), Expect = 2e-22,   Method: Composition-based stats.
 Identities = 59/409 (14%), Positives = 128/409 (31%), Gaps = 22/409 (5%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYI--GLEDVESGTG------KYLPKDGNSRQS 73
           PK  +   +    +   G T +  ++I  +  G++ + +          +      ++  
Sbjct: 13  PKGVEFRKLGDIGEYIRGVTYKKNQEINNLECGIKVLRANNITLSNHLNFEDIKVINKNV 72

Query: 74  DTSTVSIFAKGQILY---GKLGPYLRKAIIA--DFDGICSTQFLVLQPKDVLPELLQGWL 128
                    K  IL         ++ K      DFD +      V++ ++V    +    
Sbjct: 73  KIRKEQYLKKNDILICAGSGSSEHIGKVAFINTDFDYVFGGFMGVIRIREVNSRFVYHIF 132

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
            S    Q +E      T+++ +   + N  +PIPPL  Q  I + + A T     L TE 
Sbjct: 133 TSNIFKQYLEKSLNTTTINNLNANILQNFLIPIPPLEIQQEIVKILDAFTELNTELNTEL 192

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN-RK 247
              ++  K++ Q     ++    + +   KD+ I+                 V      +
Sbjct: 193 NTELKARKKQYQ-YYQNMLLDFKDTNQSHKDAKIKTYPKRLKTLLQTLAPKGVEFRKLGE 251

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
              +++   L+        K    N G+    Y      D  +I+              +
Sbjct: 252 VINILKGKQLNKELLLDYGKYPVMNGGIYASGYWNEYNTDCPKIIISQGGAS---AGYVN 308

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
               +       Y         +    +         +  +       +L   D++ L +
Sbjct: 309 YMTSKFWAGAHCYAIELNSEKLNYKFLYYFLKNSQTILMKSQFGAGIPALNKADIETLTI 368

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
            +PP++ Q +I  +++   A    L+  I   I   K+     R   + 
Sbjct: 369 PIPPLEIQQEIVKILDQFLALTTDLLAGIPAEIEARKKQYEYYREKLLT 417


>gi|226310299|ref|YP_002770193.1| type I restriction modification system specificity protein
           [Brevibacillus brevis NBRC 100599]
 gi|226093247|dbj|BAH41689.1| putative type I restriction modification system specificity protein
           [Brevibacillus brevis NBRC 100599]
          Length = 411

 Score =  111 bits (278), Expect = 2e-22,   Method: Composition-based stats.
 Identities = 54/400 (13%), Positives = 137/400 (34%), Gaps = 26/400 (6%)

Query: 26  KVVPIKRFT-KLNTGRTSESGKDIIYIGLEDV-ESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           +   +   T   +  R  ++     YI L  V           + ++  + +    +  K
Sbjct: 17  EWKALGDVTLPTSNIRWRDTKDTYRYIDLTSVSREKNIIIETTEISAENAPSRAQKLVIK 76

Query: 84  GQILYGKLGPYLRKAIIADFDG---ICSTQFLVLQPKDV--LPELLQGWLLSIDVTQRIE 138
             +++    P  ++  +   +    + ST + +L+ +    LP+ +   + S      +E
Sbjct: 77  NDVIFATTRPTQQRLCLITEEFSGEVASTGYCILRARKDEVLPKWIYHSITSSRFKNYVE 136

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
               G+         + +  +PIPPL  Q  I   + A T     L +E    +   K++
Sbjct: 137 ENQSGSAYPAISDAKVKDFKIPIPPLKVQEEIVRILDAFTEFTSELTSELTSELTARKKQ 196

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEW--VGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
                        +  +  ++  +EW  +G V              +            +
Sbjct: 197 YTYYR--------DKLLTFEEGEVEWKTLGEVAKFRRGSFPQPYGKDEWYGGEG-AMPFV 247

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
             +  G  ++ ++     +   +      V  G ++             +    ++R + 
Sbjct: 248 QVVDVGEDMRLVQNTKNKISKLAQPKSVFVQEGTVIVTLQGSIGRVAITQYDCYVDRTL- 306

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
             A        I+  Y A+ +++    +   A GS   +++  E+  +  + +PP+ EQ 
Sbjct: 307 --AIFESFQVKINKKYFAYQLQAKFAFEKEKARGS-TIKTITKEEFTKFQIPIPPLTEQE 363

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
            I ++++   A    + E + + I L ++     R+  ++
Sbjct: 364 RIVSILDKFDALTSSITEALPREIELRQKQYEYYRNLLLS 403


>gi|254414907|ref|ZP_05028671.1| Type I restriction modification DNA specificity domain protein
           [Microcoleus chthonoplastes PCC 7420]
 gi|196178396|gb|EDX73396.1| Type I restriction modification DNA specificity domain protein
           [Microcoleus chthonoplastes PCC 7420]
          Length = 506

 Score =  111 bits (278), Expect = 2e-22,   Method: Composition-based stats.
 Identities = 61/409 (14%), Positives = 136/409 (33%), Gaps = 32/409 (7%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSE----SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           P  W  V +    + N G++      SG      G     +G   Y  +     +     
Sbjct: 5   PLSWIGVTLGDLLRFNYGKSLPERARSGAGFPVYG----SNGIVGYHDEPLTDGE----- 55

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
                   ++ G+ G                T + V Q   +        L ++ +++  
Sbjct: 56  -------TLIIGRKGSVGEVHFSPGACFPIDTTYYVDQFHGMPTRYWFYQLKNLGLSE-- 106

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
             + +   +   + K    + + + PL EQ  I +K+ A   R+D      IR   ++++
Sbjct: 107 --LDKATAIPSLNRKDAYRVQIHLSPLNEQKRIADKLDALLARVDACRDRLIRVSFIIQQ 164

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN-RKNTKLIESNI 256
            +QA+++  ++  +       ++            ++  F  ++      +        I
Sbjct: 165 LRQAILTDGISGKITQYWSKNNAENLAYNHQNIVGKLSDFADVIDPNPSHRYPSYKGGTI 224

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI- 315
             L+   +    +      K   Y+ Y+             +   K  L  A+   + I 
Sbjct: 225 PILATEQMSGLNDWDTSSAKLIKYDFYEARKAAHDFLNDDIIFARKGRLGLARNPPQNIR 284

Query: 316 ----ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF--YAMGSGLRQSLKFEDVKRLPVLV 369
                T   + VK   I  +YL W +R              +    +L    ++RLP+ +
Sbjct: 285 YVFSHTVFIIRVKADNILPSYLLWFLRQEFCIDWLLSEMNSNAGVPTLGKSVMERLPITI 344

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           P   EQ +I   I    A  D +  + + ++  +++   + ++ A  G+
Sbjct: 345 PDYAEQQEIVQCIEKLYAYADRIEARYQNALTRVEQLTPTLLSKAFRGE 393



 Score = 64.4 bits (155), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 16/122 (13%), Positives = 43/122 (35%)

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSL 357
           L   ++          G                    +         +     +    SL
Sbjct: 57  LIIGRKGSVGEVHFSPGACFPIDTTYYVDQFHGMPTRYWFYQLKNLGLSELDKATAIPSL 116

Query: 358 KFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
             +D  R+ + + P+ EQ  I + ++   AR+D   +++ +   ++++ R + +   ++G
Sbjct: 117 NRKDAYRVQIHLSPLNEQKRIADKLDALLARVDACRDRLIRVSFIIQQLRQAILTDGISG 176

Query: 418 QI 419
           +I
Sbjct: 177 KI 178


>gi|307290561|ref|ZP_07570472.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX0411]
 gi|306498382|gb|EFM67888.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX0411]
 gi|315158690|gb|EFU02707.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX0312]
          Length = 387

 Score =  111 bits (278), Expect = 2e-22,   Method: Composition-based stats.
 Identities = 52/402 (12%), Positives = 125/402 (31%), Gaps = 44/402 (10%)

Query: 23  KHWKVVPIKRFTK--------LNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           + W+   +    +           G    S      +G   V S    +           
Sbjct: 16  EDWEQRKLGEVVESVGTGRSTFTNGIVQTSETPYAVLGSTSVISYDSMFD---------- 65

Query: 75  TSTVSIFAKGQILYG-KLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
                    G  +   ++G           +   S           +      ++  +  
Sbjct: 66  -------HSGDFILTARVGANAGNLYKYFGEVKISDN------TVYIQADNLDFIYYLLT 112

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
              ++ +  G          + N+ +  P   E+    +KI      +D  IT   R ++
Sbjct: 113 KYDLKRLSFGTGQPLVKASEVKNLKLNFPQKNEEQ---QKIGTFFKNLDDTITLHQRKLD 169

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
           LLKE K+  +  +  K      +++  G           E+    +  T  +  N    E
Sbjct: 170 LLKETKKGFLQKMFPKNGAKVPEIRFPGFTEDWEERKLGEIVRISSGFTGDSSLNIGQYE 229

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
              +       +   +      +P+      ++D G+I+F  I+  +    +    +  +
Sbjct: 230 LTRIETIATGQVNPNKVGYSNTEPD---KKYLLDKGDILFSNINSLSHIGKIALFDLDMK 286

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPP 371
                  + ++P  ++S +L    +  +  +   +  +    + S+   ++ +   LVP 
Sbjct: 287 LYHGINLLRLQPMNVNSQFLYQSFQLNNHLEWAKSHANQAVSQASINQTELSKQVFLVPS 346

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            +EQ  I         ++D  +   ++ + LLKE +  F+  
Sbjct: 347 QQEQQKIGTF----FKQLDDTIALHQRKLDLLKETKKGFLQK 384


>gi|198284112|ref|YP_002220433.1| restriction modification system DNA specificity protein
           [Acidithiobacillus ferrooxidans ATCC 53993]
 gi|198248633|gb|ACH84226.1| restriction modification system DNA specificity domain
           [Acidithiobacillus ferrooxidans ATCC 53993]
          Length = 423

 Score =  111 bits (278), Expect = 2e-22,   Method: Composition-based stats.
 Identities = 46/400 (11%), Positives = 113/400 (28%), Gaps = 24/400 (6%)

Query: 24  HWKVVPIKRFTKLNTGRT-SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            WK+ P+ +       +   E    ++    E        +  K+  + Q +  +  +  
Sbjct: 32  GWKLAPLSQLATRTKQKNRDEKITRVLTNSAEFGVMDQRDFFDKEIAT-QGNLESYFVVE 90

Query: 83  KGQILYGKL----GPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL---SIDVTQ 135
            G  +Y        P    +      G+ S  + V + KD   +  + +          +
Sbjct: 91  LGSYVYNPRISATAPVGPISKNKVGTGVMSPLYTVFKFKDGGNDFYEHYFKTTGWHTYMR 150

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
           +  +                 +P+P+P   EQ  I E + +    +     +        
Sbjct: 151 QASSTGARHDRMAISSDDFMAMPLPVPTPKEQQKIAECLSSVDALMAAQARKVDALKT-- 208

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
              K+ L+  +         +++    +  G        +          ++   L    
Sbjct: 209 --HKKGLMQQLFPTEGETQPRLRFPEFQNAGEWNKTTLGEAATFFNGRAYKQEELLESGK 266

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
              L  GN           L+ +  +     D G++++ +      +       +    I
Sbjct: 267 YPVLRVGNFFTNNNWYYSDLELDETK---YCDKGDLLYAWSASFGPRMWHGVKVIYHYHI 323

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
               +   +  GID  +L   + +        +        +    ++      P   EQ
Sbjct: 324 ----WKVEQHSGIDRQFLFITLENETERMKSNSANGLGLLHITKGTIEGWDTAFPSPPEQ 379

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
             I + +    + +D L+    Q +  LK  +   +    
Sbjct: 380 HRIASCL----SSLDALITLETQKLEALKTHKKGLMQQLF 415


>gi|303252529|ref|ZP_07338692.1| hypothetical protein APP2_1506 [Actinobacillus pleuropneumoniae
           serovar 2 str. 4226]
 gi|307247278|ref|ZP_07529327.1| Restriction modification system DNA specificity domain
           [Actinobacillus pleuropneumoniae serovar 2 str. S1536]
 gi|302648497|gb|EFL78690.1| hypothetical protein APP2_1506 [Actinobacillus pleuropneumoniae
           serovar 2 str. 4226]
 gi|306856251|gb|EFM88405.1| Restriction modification system DNA specificity domain
           [Actinobacillus pleuropneumoniae serovar 2 str. S1536]
          Length = 414

 Score =  111 bits (278), Expect = 2e-22,   Method: Composition-based stats.
 Identities = 56/410 (13%), Positives = 126/410 (30%), Gaps = 38/410 (9%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDV--ESGTG 61
           KD  V+W            +    K   G T     +          +   ++   +   
Sbjct: 8   KDCEVEW----------KSLGEVAKYVRGLTYNKTNESDEKAGGYYVLRANNITLSNNQL 57

Query: 62  KYLPKDGNSRQSDTSTVSIFAKGQILYGKLGP----YLRKAIIADFDGICSTQFL--VLQ 115
            +         + T       K  IL            + A I++        F+  V  
Sbjct: 58  NFDDVKLVKFDTKTKPEQKLYKDDILISAASGSKEHVGKVAFISENMDFYFGGFMGVVRC 117

Query: 116 PKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKII 175
            +++LP  L   L S      +  +   +T+++ + K +    +PIPPL  Q  I + + 
Sbjct: 118 SQEILPRFLFHILTSSLFKTYLNEVLNSSTINNLNAKVMNEFQIPIPPLEIQEKIVKILD 177

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVK 235
             T    TL       + L  ++       ++    + +   K++    +G +       
Sbjct: 178 KFTELEATLEATLEAELSLRVKQYNYYRD-LLLNENDKNPFFKNTEYRCLGDI------- 229

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRF 295
              +   +           ++ S+   N       +   L   S    ++V   +++F  
Sbjct: 230 TLVSSNIKWKNNTNTYKYIDLTSVDRENHSIGETIKISALTAPS-RAQKLVAKDDVIFAT 288

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYM--AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL 353
                 + +    +     I ++ Y      P+ +   ++   + S D         SG 
Sbjct: 289 TRPTQLRFAF-INEEFANSIASTGYCVLRANPNLVLPKWIYHNLGSIDFKNFLEENQSGS 347

Query: 354 R-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
              ++    VK   + VP +  Q  I  +++      + +   + + I L
Sbjct: 348 AYPAVSDSKVKDYKIPVPSLDVQEKIIAILDNFENLANSIKNGLPREIEL 397



 Score = 77.5 bits (189), Expect = 4e-12,   Method: Composition-based stats.
 Identities = 26/205 (12%), Positives = 60/205 (29%), Gaps = 10/205 (4%)

Query: 218 KDSGIEW--VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL 275
           KD  +EW  +G V  +      +    E + K          +++  N     +   +  
Sbjct: 8   KDCEVEWKSLGEVAKYVRGLT-YNKTNESDEKAGGYYVLRANNITLSNNQLNFDDVKLVK 66

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM--AVKPHGIDSTYL 333
                +  Q +   +I+        +     +            +M        I   +L
Sbjct: 67  FDTKTKPEQKLYKDDILISAASGSKEHVGKVAFISENMDFYFGGFMGVVRCSQEILPRFL 126

Query: 334 AWLMRSYDLCKVFY-AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
             ++ S          + S    +L  + +    + +PP++ Q  I  +++  T     L
Sbjct: 127 FHILTSSLFKTYLNEVLNSSTINNLNAKVMNEFQIPIPPLEIQEKIVKILDKFTELEATL 186

Query: 393 VEKIEQSIVL----LKERRSSFIAA 413
              +E  + L        R   +  
Sbjct: 187 EATLEAELSLRVKQYNYYRDLLLNE 211


>gi|311063621|ref|YP_003970346.1| type I restriction-modification system specificity determinant
           [Bifidobacterium bifidum PRL2010]
 gi|310865940|gb|ADP35309.1| Type I restriction-modification system specificity determinant
           [Bifidobacterium bifidum PRL2010]
          Length = 403

 Score =  111 bits (278), Expect = 2e-22,   Method: Composition-based stats.
 Identities = 49/410 (11%), Positives = 119/410 (29%), Gaps = 44/410 (10%)

Query: 22  PKHWKVVPIKRFTKLNTG----RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT-S 76
           P   K   +    +   G    +          I    + +  G +     +    +   
Sbjct: 13  PDGVKHQTLGEIGEFIRGNGIQKRDFRDSGFGCIHYGQIYTYYGLFADHTKSFIDPNLAE 72

Query: 77  TVSIFAKGQILYGKLGP-----YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
                 KG ++               A + +     S    + +     P+ +     S 
Sbjct: 73  KRKKAYKGDLVIATTSENEEDVCKACAWLGEEPIAISGDAYIFR-HHQNPKYISYCFQSE 131

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
               + +    G  +   +   +  I +P+PPL  Q  I   + + +     L  E    
Sbjct: 132 LFQSQKKKYITGTKVLRVNGDAMAKIHVPVPPLPVQEEIVRILDSFSSLEAELEAELEAR 191

Query: 192 IELLKEKKQALVS--YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNT 249
            +     +  L++   +VT  +        SG                       + K  
Sbjct: 192 RKQYAYYRNELLTFERVVTVCIQDICIRICSG--------------------GTPSSKRH 231

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPES---YETYQIVDPGEIVFRFIDLQNDKRSLR 306
              + N+  L   +I   +  +      +        Q +    ++         K ++ 
Sbjct: 232 DYYDGNVPWLRTQDIDFNVINQTSATISDEGLRNSAAQWIPANCVIVAMYGATAAKVAVN 291

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLP 366
           S  +       +  +       D  Y+   + +    +   A+G G + ++  + VK  P
Sbjct: 292 SIPLTTNQACCNLQIDETK--ADVRYVFHWLSNEY--EHLKALGEGSQSNINAKKVKSYP 347

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           + +PP++EQ  I ++++      + L   +   I   ++     R   ++
Sbjct: 348 ISLPPLEEQRRIVSILDRFDKLTNDLSSGLPAEIEARRKQYEYYRDRLLS 397


>gi|187934035|ref|YP_001886271.1| Sau1hsdS1 [Clostridium botulinum B str. Eklund 17B]
 gi|187722188|gb|ACD23409.1| Sau1hsdS1 [Clostridium botulinum B str. Eklund 17B]
          Length = 422

 Score =  111 bits (278), Expect = 2e-22,   Method: Composition-based stats.
 Identities = 63/403 (15%), Positives = 138/403 (34%), Gaps = 39/403 (9%)

Query: 25  WKVVPIKRFTKLN---TGRTSESGKDI------IYIGLEDVESGTGKY-LPKDGNSRQSD 74
           W+   +     L     G+   S  D       I++   ++      +   +     +S+
Sbjct: 20  WEQRRLSDIANLIDGDRGKNYPSSTDFYEDGHTIFLSATNITRNGFSFESNQYITEEKSN 79

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDG-------ICSTQFLVLQPKDVLPELLQGW 127
                      I+    G         +          I S   ++   + V P  +  +
Sbjct: 80  VLGNGKVEINDIVLTSRGSLGHIGWYNNDIKSLIPFARINSGMLIIRSMEAVEPSYIAQY 139

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
           + S    ++IE I  G+       K + N  + I   +EQ  I              IT 
Sbjct: 140 MKSSLGKRQIELISFGSAQPQLTKKDMSNYKISITKKSEQDKIGFFFNNLDNL----ITL 195

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK 247
             R +  L++KK+ L+  +  K      +++  G        D WE +    +   + RK
Sbjct: 196 HQRKLNHLQDKKKGLLQKMFPKEGEKFPELRFPG------FTDPWEQRKLGDIAKRITRK 249

Query: 248 NTKLIESNILSLS-YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK-RSL 305
           NT+L  +  L++S    ++ ++   N  +       Y ++  GE  +     +     ++
Sbjct: 250 NTELKSTLPLTISAQYGLVDQITFFNKRVASRDVSGYYLLRKGEFAYNKSYSEGYPWGAI 309

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF-YAMGSGLRQ----SLKFE 360
           +  +  E G++++ Y+  K   ++S +L     + +  K        G R     ++  E
Sbjct: 310 KRLERYENGVLSTLYICFKLSDVNSNFLVSYYNTNNWHKEIAQRAAEGARNHGLLNISAE 369

Query: 361 DVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
           D     + +P   +EQ  I         +++ L+    + +  
Sbjct: 370 DFFDTKLTIPKSKEEQARIGEY----FKQLNNLITLHHRKLNH 408



 Score = 75.2 bits (183), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 23/215 (10%), Positives = 63/215 (29%), Gaps = 22/215 (10%)

Query: 207 VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ 266
                +P  + + S I  +                           + + + LS  NI +
Sbjct: 13  FPGFTDPWEQRRLSDIANLIDG----------DRGKNYPSSTDFYEDGHTIFLSATNITR 62

Query: 267 KLETRNMGLKPESYETYQI----VDPGEIVFRFIDLQNDKRSL---RSAQVMERGIITSA 319
              +          ++  +    V+  +IV                  + +    I +  
Sbjct: 63  NGFSFESNQYITEEKSNVLGNGKVEINDIVLTSRGSLGHIGWYNNDIKSLIPFARINSGM 122

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
            +      ++ +Y+A  M+S    +    +     +  L  +D+    + +    EQ  I
Sbjct: 123 LIIRSMEAVEPSYIAQYMKSSLGKRQIELISFGSAQPQLTKKDMSNYKISITKKSEQDKI 182

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
                     +D L+   ++ +  L++++   +  
Sbjct: 183 GFF----FNNLDNLITLHQRKLNHLQDKKKGLLQK 213


>gi|217968470|ref|YP_002353704.1| restriction modification system DNA specificity domain protein
           [Thauera sp. MZ1T]
 gi|217505797|gb|ACK52808.1| restriction modification system DNA specificity domain protein
           [Thauera sp. MZ1T]
          Length = 378

 Score =  111 bits (278), Expect = 2e-22,   Method: Composition-based stats.
 Identities = 52/395 (13%), Positives = 114/395 (28%), Gaps = 36/395 (9%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
           V +        G+  + G+D             G+Y     N             +  I+
Sbjct: 7   VTLGEVVDFFNGKAIKPGQD-------------GEYPAYGSNGLIGGAPDWKY--ENSII 51

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMS 147
            G++G Y             S   +V +PK          L ++++         GA   
Sbjct: 52  IGRVGAYCGSVAYCKSRFWASDNTIVARPKSGDVGYFYYLLKALEL----NRYAGGAAQP 107

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
                 +  +P  +P +  Q  I   + A    I+              E  + +     
Sbjct: 108 LVTQTVLKGVPARVPDIPTQRRIASILSAYDDLIENNTRRIAILE----EMARRIYEEWF 163

Query: 208 TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK 267
            +   P  +        +GL+P+ W+      +    +RK   L +              
Sbjct: 164 VRFRFPGHEQVKMVESELGLIPEGWKATNIGEVAENHDRKRKPLSKMQREKFKGPYPYYG 223

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
                  ++   ++   ++   +       +              R    +    ++   
Sbjct: 224 AAKIFDYVEDYIFDGRFVLMAED-----GSVITPDGFPVLQLANGRFWANNHTHILRGTP 278

Query: 328 IDSTYLAWL-MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
             ST   +L + S  +           +  +   ++ R+PV +PP       T ++  + 
Sbjct: 279 DASTEFIYLRLSSQKVSGYI---TGAAQPKITQANMNRIPVCLPPRDLMARFTELVGPKF 335

Query: 387 ARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
             ID L  K       L+  R   +   ++G++D+
Sbjct: 336 DLIDCLERKHTN----LRATRDLLLPKLISGELDV 366



 Score = 44.8 bits (104), Expect = 0.024,   Method: Composition-based stats.
 Identities = 29/192 (15%), Positives = 55/192 (28%), Gaps = 16/192 (8%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +G IP+ WK   I    + +  +     K                  P  G ++  D   
Sbjct: 181 LGLIPEGWKATNIGEVAENHDRKRKPLSKMQ--------REKFKGPYPYYGAAKIFDYVE 232

Query: 78  VSIFAKGQILYGKLGPYLRKAIIA-----DFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
             IF    +L  + G  +           +     +    +L      P+    ++    
Sbjct: 233 DYIFDGRFVLMAEDGSVITPDGFPVLQLANGRFWANNHTHIL---RGTPDASTEFIYLRL 289

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
            +Q++     GA         +  IP+ +PP        E +  +   ID L  +     
Sbjct: 290 SSQKVSGYITGAAQPKITQANMNRIPVCLPPRDLMARFTELVGPKFDLIDCLERKHTNLR 349

Query: 193 ELLKEKKQALVS 204
                    L+S
Sbjct: 350 ATRDLLLPKLIS 361


>gi|157372317|ref|YP_001480306.1| restriction modification system DNA specificity subunit [Serratia
           proteamaculans 568]
 gi|157324081|gb|ABV43178.1| restriction modification system DNA specificity domain [Serratia
           proteamaculans 568]
          Length = 409

 Score =  111 bits (278), Expect = 2e-22,   Method: Composition-based stats.
 Identities = 51/371 (13%), Positives = 120/371 (32%), Gaps = 19/371 (5%)

Query: 50  YIGLEDVESGTGKYLPKDGNSRQSDTSTV--SIFAKGQILYGKLGPYLRKAIIADFD--- 104
           Y+ + D++  +  +      S  +D S     +  KG IL+ + G  + K  I +     
Sbjct: 48  YLRITDIDEKSRNFDYCQLTSPDADLSKSDNYLLKKGDILFARTGASVGKTYIYNEQDGK 107

Query: 105 -GICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPP 163
                         +   + +     + +  + +    + +     + K  G   +  P 
Sbjct: 108 VYFAGFLIRASINHEASAQFIFQNTQTHEYARFVATTSQRSGQPGINAKEYGEYRLFSPT 167

Query: 164 LAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIE 223
             EQ  I         ++DTLI +  +  + L   K+A++  +  K      +++  G  
Sbjct: 168 EPEQTQIGNY----FQKLDTLINQHQQKHDKLSSIKKAMLEKMFPKQGETIPEIRFKGFS 223

Query: 224 WVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY 283
                    +        T   +         I  ++  +I + +         ++    
Sbjct: 224 GEWEEKSVGQFGEIITGSTPSTQNLINYSNDGIPWVTPTDISRNVTFNTAKRLSQTGCKV 283

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL- 342
             + P + +         K ++    +  +G        + P+  D+        S    
Sbjct: 284 ARIVPKDTILVTCIASIGKNTI----LGTQGGFNQQINGIIPNQKDNHPYFIFSASILWS 339

Query: 343 CKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
            K+  +  SG  Q +   +   L    P  +EQ  I N       ++D L+++ +Q I  
Sbjct: 340 EKLKRSAASGTMQIVNKTEFSELKTRAPKKEEQTAIGNY----FQKLDSLIDQHQQQITK 395

Query: 403 LKERRSSFIAA 413
           L   + + ++ 
Sbjct: 396 LNNIKQACLSK 406



 Score = 60.6 bits (145), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 35/202 (17%), Positives = 61/202 (30%), Gaps = 22/202 (10%)

Query: 21  IPK--------HWKVVPIKRFTKLNTGRTSE-------SGKDIIYIGLEDVESGTGKYLP 65
           IP+         W+   + +F ++ TG T         S   I ++   D+         
Sbjct: 214 IPEIRFKGFSGEWEEKSVGQFGEIITGSTPSTQNLINYSNDGIPWVTPTDISRNVTFNTA 273

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ 125
           K  +          I  K  IL   +    +  I+    G  + Q   + P         
Sbjct: 274 KRLSQTGCKV--ARIVPKDTILVTCIASIGKNTIL-GTQGGFNQQINGIIPNQKDNHPYF 330

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
            +  SI  +++++      TM   +      +    P   EQ  I          ID   
Sbjct: 331 IFSASILWSEKLKRSAASGTMQIVNKTEFSELKTRAPKKEEQTAIGNYFQKLDSLIDQH- 389

Query: 186 TERIRFIELLKEKKQALVSYIV 207
               + I  L   KQA +S + 
Sbjct: 390 ---QQQITKLNNIKQACLSKMF 408


>gi|332975815|gb|EGK12694.1| restriction endonuclease S subunit [Psychrobacter sp. 1501(2011)]
          Length = 574

 Score =  111 bits (277), Expect = 2e-22,   Method: Composition-based stats.
 Identities = 68/481 (14%), Positives = 139/481 (28%), Gaps = 89/481 (18%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           +P  W  + ++   ++N G   +S       I  I + D      K           D  
Sbjct: 96  LPLGWSWIKLEDIAEINGGFAFKSSDYTSDGIRVIRISDFNEMGFKSDKVVRYPYSLDLE 155

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIAD---FDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
              +  +  IL    G  + K+++        I + +   ++    +       L+  ++
Sbjct: 156 RYRL-EENNILMAMTGGTVGKSLLVQALPEPMIVNQRVATIKLIQGINSTYINSLIRSEL 214

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE---------------- 177
            Q +    + +T  +   K I N  +P+PP AEQ  I  K+                   
Sbjct: 215 IQSVINEAKNSTNDNISMKSIKNFLIPLPPFAEQKRIVAKVDELMLLCDQLEQQTETSID 274

Query: 178 -------------------------TVRIDTLITERIRFIELLKEKKQALVSYIVTKGLN 212
                                      RI           + +K  KQ ++   V   L 
Sbjct: 275 AHATLVEVLLSTLTDSADADELAQNWARIAEHFDSLFTTEQSIKSLKQTVLQLAVMGKLV 334

Query: 213 PDVK------------------------MKDSGIEWVGL------VPDHWEVKPFFA--L 240
           P                           ++ S  + +         P  WE         
Sbjct: 335 PQNPDDEPASVLLERINEVKSKLVKEEGLRTSASKELNADDKYLTQPHGWEWMRLGNLAK 394

Query: 241 VTELNRKNTKLIESNILSLSYGN-IIQKLETRNMGLKPESYETYQ----IVDPGEIVFRF 295
             +   K    IE+ +  ++  N     ++ +      E   T          G+ +F  
Sbjct: 395 FIDYRGKTPTKIENGVRLITAKNIRYGYVDLKPEEFISEDEYTSWMTRGFPKQGDTLFTP 454

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LR 354
                +  ++      +  +   A          S +L   + +           +G   
Sbjct: 455 EAPLGNAANI--DIKGKFALAQRAICFQWHISEISDFLLLQILAQPFQLQLIDNATGMTA 512

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAA 414
             +K   +K +P+++PP+ EQ  I   ++   A  D L  +++QS     +   + I  A
Sbjct: 513 TGIKASKLKEIPMIIPPLAEQHRIVTKVDELMAICDQLKARLQQSQETQVQLTDALIDKA 572

Query: 415 V 415
           +
Sbjct: 573 L 573



 Score = 82.1 bits (201), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 29/187 (15%), Positives = 60/187 (32%), Gaps = 5/187 (2%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNR---KNTKLIESNILSLSYGNIIQKLETRNMGLK 276
           +  E +  +P  W       +         K++      I  +   +  +     +  ++
Sbjct: 88  TENEKIFTLPLGWSWIKLEDIAEINGGFAFKSSDYTSDGIRVIRISDFNEMGFKSDKVVR 147

Query: 277 PES--YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
                      ++   I+         K  L  A      +           GI+STY+ 
Sbjct: 148 YPYSLDLERYRLEENNILMAMTGGTVGKSLLVQALPEPMIVNQRVATIKLIQGINSTYIN 207

Query: 335 WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
            L+RS  +  V     +    ++  + +K   + +PP  EQ  I   ++      D L +
Sbjct: 208 SLIRSELIQSVINEAKNSTNDNISMKSIKNFLIPLPPFAEQKRIVAKVDELMLLCDQLEQ 267

Query: 395 KIEQSIV 401
           + E SI 
Sbjct: 268 QTETSID 274


>gi|261415742|ref|YP_003249425.1| restriction modification system DNA specificity domain protein
           [Fibrobacter succinogenes subsp. succinogenes S85]
 gi|261372198|gb|ACX74943.1| restriction modification system DNA specificity domain protein
           [Fibrobacter succinogenes subsp. succinogenes S85]
 gi|302326810|gb|ADL26011.1| type I restriction-modification system, S subunit [Fibrobacter
           succinogenes subsp. succinogenes S85]
          Length = 408

 Score =  111 bits (277), Expect = 2e-22,   Method: Composition-based stats.
 Identities = 71/418 (16%), Positives = 136/418 (32%), Gaps = 33/418 (7%)

Query: 25  WKVVPIKRFT-KLNTGRT---SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST--- 77
           W+ V +      +  G      ++   I ++ + ++ S             Q    +   
Sbjct: 3   WEKVKLGDVCVSIADGDHLPPPKADCGIPFVTISNITSANQFDFTNTMFVPQEYYDSLDE 62

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICST---QFLVLQPKDVLPELLQGWLLSIDVT 134
                   ILY  +G + +   I D            L      +    L   +LS D  
Sbjct: 63  KRKPKVNDILYSVVGSFGKPVFIKDDSPFVFQRHIAILRPDESKIYSRYLYYKMLSNDFY 122

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
              +A+  GA         + N+ + IP    Q  I + + A    I+       + I+L
Sbjct: 123 MMADAVAVGAAQRTVSLTALRNMEINIPNKETQKRIADILSAYDDLIEN----NQKQIKL 178

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
           L+E  Q L          P  +        V  +P  W  +    +V  +   +    E 
Sbjct: 179 LEEAAQRLYKQWFIDLKFPGYETTPI----VDGLPQGWWKEKLGDVVDYVRGTSYTSNEL 234

Query: 255 NILS------LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
           +         L   N     +          Y+   I++ G++V    D+  ++R +   
Sbjct: 235 SDNEGVLLVNLKNINAFGGYKRNAEKRFTGKYKENGILESGDLVMGCTDMTKERRLVGHV 294

Query: 309 QVMER----GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVK 363
            ++       I T   + + P  I  T+     R   L      + +G     L+ E++ 
Sbjct: 295 ALIPNLKECAIFTMDLLKILPKTISKTFFYAQCRFGGLSYKISPLANGANVLHLRPENMA 354

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            + VL P       I  + +   A +   +EK+E  I L  E R+  +   + G+I +
Sbjct: 355 DIEVLCPEKS----IVEMYDNVFASMISKIEKLEDQIQLAAESRNRLLPKIMNGEISV 408



 Score = 48.6 bits (114), Expect = 0.002,   Method: Composition-based stats.
 Identities = 25/197 (12%), Positives = 62/197 (31%), Gaps = 14/197 (7%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSES-----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           +P+ W    +        G +  S      + ++ + L+++ +  G Y            
Sbjct: 208 LPQGWWKEKLGDVVDYVRGTSYTSNELSDNEGVLLVNLKNI-NAFGGYKRNAEKRFTGKY 266

Query: 76  STVSIFAKGQILYGK------LGPYLRKAIIAD--FDGICSTQFLVLQPKDVLPELLQGW 127
               I   G ++ G              A+I +     I +   L + PK +        
Sbjct: 267 KENGILESGDLVMGCTDMTKERRLVGHVALIPNLKECAIFTMDLLKILPKTISKTFFYAQ 326

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
                ++ +I  +  GA + H   + + +I +  P  +   +      +   +I+ L  +
Sbjct: 327 CRFGGLSYKISPLANGANVLHLRPENMADIEVLCPEKSIVEMYDNVFASMISKIEKLEDQ 386

Query: 188 RIRFIELLKEKKQALVS 204
                E        +++
Sbjct: 387 IQLAAESRNRLLPKIMN 403


>gi|229105722|ref|ZP_04236351.1| Type I restriction modification DNA specificity domain protein
           [Bacillus cereus Rock3-28]
 gi|228677611|gb|EEL31859.1| Type I restriction modification DNA specificity domain protein
           [Bacillus cereus Rock3-28]
          Length = 401

 Score =  111 bits (277), Expect = 2e-22,   Method: Composition-based stats.
 Identities = 53/399 (13%), Positives = 124/399 (31%), Gaps = 23/399 (5%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIY-IGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            W+   ++      T +       +   I  E        Y  K    +  D S   +  
Sbjct: 14  EWENQKLENVVDRVTRKNKNLESKLPLTISAERGLVDQITYFNKSIAGK--DLSGYYLLK 71

Query: 83  KGQILYGKLGPYLRKAIIAD-----FDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
            G+  Y K                   G+ ST ++  +  ++  + L+ +  +    + +
Sbjct: 72  SGEFAYNKSYSNGYPWGAIKRLDNYEMGVLSTLYICFKATNIHGDFLKHYFETDKWYKGV 131

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
             +      +H       N    I     +   + KI A   +++  I  + + I+LL++
Sbjct: 132 SMMAAEGARNHGLLNIAVNDFFKIHLSFPEENEQRKIAAFFEKLNQKIQFQQQKIDLLQK 191

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
           +K+  +  I  + +           +  G     W       ++    R+  K  ES I 
Sbjct: 192 QKKGYMHRIFEQEI--------PFKDENGGNHFEWRELAVSDILILHLREIPKPNESYIR 243

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
                +            +  + +   +V  G+ +           ++   +   + +  
Sbjct: 244 LGLRSHAKGTFHEIIDNPETITMDKLFVVHEGDFIINITFAWEQALAILDKEDHGKLVSH 303

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS---LKFEDVKRLPVLVPPIKE 374
                    G  S +  +   +            G       L  +D   + V VP  +E
Sbjct: 304 RFPTYRFNEGHYSGFYKYYFTTKYFKYCLGNASPGGAGRNRVLNKKDFMNIIVKVPKYEE 363

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           Q  I N +    +++D  ++  E+ +  LK+++  F+  
Sbjct: 364 QIKIANFL----SKLDEKIQLEEKKLEDLKKQKKGFMQQ 398



 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 37/218 (16%), Positives = 84/218 (38%), Gaps = 15/218 (6%)

Query: 214 DVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG-NIIQKLETRN 272
             ++K    E+ G     WE +    +V  + RKN  L     L++S    ++ ++   N
Sbjct: 1   MNELKLRFKEFSGE----WENQKLENVVDRVTRKNKNLESKLPLTISAERGLVDQITYFN 56

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQNDK-RSLRSAQVMERGIITSAYMAVKPHGIDST 331
             +  +    Y ++  GE  +           +++     E G++++ Y+  K   I   
Sbjct: 57  KSIAGKDLSGYYLLKSGEFAYNKSYSNGYPWGAIKRLDNYEMGVLSTLYICFKATNIHGD 116

Query: 332 YLAWLMRSYDLCKVFYAMGS-GLRQ----SLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
           +L     +    K    M + G R     ++   D  ++ +  P   EQ  I        
Sbjct: 117 FLKHYFETDKWYKGVSMMAAEGARNHGLLNIAVNDFFKIHLSFPEENEQRKIAAF----F 172

Query: 387 ARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGE 424
            +++  ++  +Q I LL++++  ++      +I  + E
Sbjct: 173 EKLNQKIQFQQQKIDLLQKQKKGYMHRIFEQEIPFKDE 210


>gi|150006638|ref|YP_001301382.1| type I restriction enzyme EcoR124II specificity protein
           [Bacteroides vulgatus ATCC 8482]
 gi|149935062|gb|ABR41760.1| type I restriction enzyme EcoR124II specificity protein
           [Bacteroides vulgatus ATCC 8482]
          Length = 447

 Score =  111 bits (277), Expect = 2e-22,   Method: Composition-based stats.
 Identities = 62/418 (14%), Positives = 132/418 (31%), Gaps = 41/418 (9%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            +P  W    ++    + +G T +        + YI + ++ +    +        +   
Sbjct: 30  ELPNSWVWCRLEDIAYVASGSTPDKTCFVENGVPYIKMYNLRNQKIDFAYHPQYITEEVH 89

Query: 76  STV---SIFAKGQILYGKLGPYLRKAIIAD---FDGICSTQFLVLQPKDVLPELLQGWLL 129
           +     S    G ++   +GP L K  I          +   ++++P      L+    +
Sbjct: 90  NGKLQRSRTEVGDLIMNIVGPPLGKLAIIPTTLPQANFNQAAVLIRPYKFKEVLVSYLKV 149

Query: 130 SIDVTQRIEAICE--GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
            ++    I +I     A   +       N+ +PIPPL E   I E++    + ID+L   
Sbjct: 150 YLEEMSEINSIATRGSAGQVNISLTQSQNMRIPIPPLNEVRRIIEEVSKYDILIDSLKQN 209

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWV----------------GLVPDH 231
                 L+   K  ++   +   L P     +  IE +                  VP  
Sbjct: 210 ITDIQNLIAYTKSKILDLAIHGKLVPQDPNDEPAIELLKRINPDFTPCDNGHYTFDVPSG 269

Query: 232 WEVKPFFALVT-----------ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
           W      ++               +          I  LS   ++      +        
Sbjct: 270 WITTNLGSIFNVVSAKRILKSDWKHSGVPFYRAREIAKLSIYGLVDNELYISEEHYNSLK 329

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY 340
           E + +    +I+   +        ++ +        +        + I++ Y+  +MRS 
Sbjct: 330 EKFPVPKASDIMISAVGTIGKCYIVKESDKFYYKDAS-VLCLCNDYQINAKYIYHIMRSE 388

Query: 341 DLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
            + K  Y    G    ++  E  K+  + +PP+ EQ  I   I    +  D +   +E
Sbjct: 389 YMLKQMYDNSKGTTVDTITIEKAKQYILPLPPLAEQQRIVAKIEETFSIFDGIQNSLE 446



 Score = 64.0 bits (154), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 23/194 (11%), Positives = 60/194 (30%), Gaps = 12/194 (6%)

Query: 227 LVPDHWEVKPFFALVTELNRKNT---KLIESNILSLSYGNIIQKLETRNMGLKPESYETY 283
            +P+ W       +    +         +E+ +  +   N+  +        +  + E +
Sbjct: 30  ELPNSWVWCRLEDIAYVASGSTPDKTCFVENGVPYIKMYNLRNQKIDFAYHPQYITEEVH 89

Query: 284 Q------IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI--DSTYLAW 335
                    + G+++   +     K ++    + +     +A +           +YL  
Sbjct: 90  NGKLQRSRTEVGDLIMNIVGPPLGKLAIIPTTLPQANFNQAAVLIRPYKFKEVLVSYLKV 149

Query: 336 LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
            +            GS  + ++     + + + +PP+ E   I   ++     ID L + 
Sbjct: 150 YLEEMSEINSIATRGSAGQVNISLTQSQNMRIPIPPLNEVRRIIEEVSKYDILIDSLKQN 209

Query: 396 IEQSIVLLKERRSS 409
           I   I  L     S
Sbjct: 210 ITD-IQNLIAYTKS 222


>gi|240949221|ref|ZP_04753565.1| hypothetical protein AM305_09766 [Actinobacillus minor NM305]
 gi|240296337|gb|EER46981.1| hypothetical protein AM305_09766 [Actinobacillus minor NM305]
          Length = 394

 Score =  111 bits (277), Expect = 2e-22,   Method: Composition-based stats.
 Identities = 51/388 (13%), Positives = 124/388 (31%), Gaps = 21/388 (5%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W+   +    ++  G++  SG          +  G           R   T    I  K
Sbjct: 19  DWEQRKLGEIAEIVMGQSPNSGNYTNNPKDHILVQGNADIKNGKVFPRIWTTQITKIGKK 78

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
             ++     P    A   D+D +       ++  + +       L  + +     A+  G
Sbjct: 79  NDLIMSVRAPVGDMAK-TDYDVVLGRGVCAIKGNEFI----YQILSKMKIDGYWNALSTG 133

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           +T    +      I   +  + ++   +  I     ++D  I    R +E  ++ K + +
Sbjct: 134 STFDAINSND---IKKTLISIPKEQKEQTAIGNFFKQLDDTIALHQRALEKYQKLKISYL 190

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
             +  K      +++              EV   F        +  K  +  ++ LS  +
Sbjct: 191 EKMFPKENEQFPELRFPNFTDAWEQRKLGEVVDIFDGT----HQTPKYTDKGVMFLSVED 246

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
           I      + +       E       G+++   I    D  +        +     +   +
Sbjct: 247 IKTLSSNKFISEVDFKKEFKNFPRKGDVLMTRIG---DVGTANVVLSDHKVAYYVSLALL 303

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
           KP GI S +LA  + S  +    +         + +   +++++ + +P  +EQ  I N 
Sbjct: 304 KPKGIHSFFLATAISSSSVQSDIWKRTLHIAFPKKINKSEIEKIDIFLPSSEEQQKIGNF 363

Query: 382 INVETARIDVLVEKIEQSIVLLKERRSS 409
                 ++D  +   ++ +   K+ + +
Sbjct: 364 ----FKQLDDTIALHQREVEKYKKIKQA 387


>gi|257094280|ref|YP_003167921.1| restriction modification system DNA specificity protein-containing
           protein [Candidatus Accumulibacter phosphatis clade IIA
           str. UW-1]
 gi|257046804|gb|ACV35992.1| restriction modification system DNA specificity domain protein
           [Candidatus Accumulibacter phosphatis clade IIA str.
           UW-1]
          Length = 440

 Score =  111 bits (277), Expect = 2e-22,   Method: Composition-based stats.
 Identities = 63/428 (14%), Positives = 135/428 (31%), Gaps = 36/428 (8%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKD------IIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
             W+   +       +G T   G D      I ++  +D++S    +  +D  S  +   
Sbjct: 3   SEWEETTLGDCADWLSGGTPFKGNDAYWSGPIPWVSAKDMKS-FRLHDAEDHMSPLAVGK 61

Query: 77  TVSIFAKGQILYGKLGPYLR---KAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
              +   G IL    G  L       +   +   +     L P   +      + L    
Sbjct: 62  GGKVVPAGTILLLVRGMTLHNDVPICMVTREMAFNQDIKALHPAKNVDGAFLAYWLLAHK 121

Query: 134 TQRIEAI-CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
              + ++   G          +    + +PPLAEQ  I E + A   +I+          
Sbjct: 122 PDLLASVDHAGHGTGRLVTGTLKGKAVQLPPLAEQKAIAEVLGALDDKIELNRRMNATLE 181

Query: 193 ELLKEKKQALVS--YIVTKGLN-----------PDVKMKDSGIEWVGLVPDHWEVKPFFA 239
            + +   Q+     + V   L+             +         +G +P  W  K    
Sbjct: 182 AMARALFQSWFVDIHPVRAKLDGRQPAGLDSATAALFPDHLEGSPLGHIPKGWSAKSLSE 241

Query: 240 LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQ 299
           +V    R+  +   +    L   N+  +  + +  +  E + +      G+ +   I   
Sbjct: 242 VVEVNPRRTLR-TGTIAPYLDMKNLPTQGHSADEVVDRE-FSSGTKFQNGDTLLARITPC 299

Query: 300 NDKRSLRSAQVMERGII---TSAYMAVKPHGIDSTYLAWLMRSYDLCK---VFYAMGSGL 353
            +         +E G +   ++ Y+ + P         +L+   D  +   +    G+  
Sbjct: 300 LENGKTGYVDFLEEGQVGWGSTEYIVLAPKPPLPPQFGYLLARSDPLRTHAIHNMTGTSG 359

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           RQ +  E  K   + VPP      I    +  TA +   ++        L   R + +  
Sbjct: 360 RQRVPSECFKSFLIAVPPP----AIACRFDELTAPLMTEIKANANQSRTLATLRDTLLPK 415

Query: 414 AVTGQIDL 421
            ++G++ +
Sbjct: 416 LLSGELSV 423



 Score = 53.3 bits (126), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 40/205 (19%), Positives = 69/205 (33%), Gaps = 13/205 (6%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +G IPK W    +    ++N  RT  +G    Y+ ++++ +               + S+
Sbjct: 227 LGHIPKGWSAKSLSEVVEVNPRRTLRTGTIAPYLDMKNLPTQG----HSADEVVDREFSS 282

Query: 78  VSIFAKGQILYGKLGPYL--RKAIIADF-----DGICSTQFLVLQPKDVLPELLQGW--L 128
            + F  G  L  ++ P L   K    DF      G  ST+++VL PK  LP         
Sbjct: 283 GTKFQNGDTLLARITPCLENGKTGYVDFLEEGQVGWGSTEYIVLAPKPPLPPQFGYLLAR 342

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
                T  I  +   +       +   +  + +PP A      E        I     + 
Sbjct: 343 SDPLRTHAIHNMTGTSGRQRVPSECFKSFLIAVPPPAIACRFDELTAPLMTEIKANANQS 402

Query: 189 IRFIELLKEKKQALVSYIVTKGLNP 213
                L       L+S  ++ G  P
Sbjct: 403 RTLATLRDTLLPKLLSGELSVGSCP 427


>gi|227508545|ref|ZP_03938594.1| type I site-specific deoxyribonuclease specificity subunit
           [Lactobacillus brevis subsp. gravesensis ATCC 27305]
 gi|227191877|gb|EEI71944.1| type I site-specific deoxyribonuclease specificity subunit
           [Lactobacillus brevis subsp. gravesensis ATCC 27305]
          Length = 405

 Score =  111 bits (277), Expect = 2e-22,   Method: Composition-based stats.
 Identities = 46/403 (11%), Positives = 117/403 (29%), Gaps = 34/403 (8%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDII-----YIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           W+   +    K     +     ++      YI   D+ + + KY+ K        +    
Sbjct: 18  WEQRKLGEGLKQLKSYSLPRKYEVPESDTEYIHYGDIHTSSRKYVDKSFRLPNIKSGDFQ 77

Query: 80  IFAKGQILYGKLGPYLRKAI-------IADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
           +   G I+        ++         I     +     + ++ K   P       LS  
Sbjct: 78  LLQTGDIVLADASEDYKEIAEPMLMKNIKGRKVVSGLHTIAIRLKCGDPVYYLYLFLSPG 137

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
               +  +  G  +   ++  +    + +P   EQ  I + +      I    ++  +  
Sbjct: 138 FRHYVYKVGTGLKVFGINYDKVQKYFLAVPDEKEQKYIGKILFLTDQLIAANQSKLEQLK 197

Query: 193 ELLKEKKQALVSYI--VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
            L K   Q + +         +P  + K   ++ +                         
Sbjct: 198 RLKKLLMQKIFNQEWRFKGFTDPWEQRKLGEVKTIKDGTHDSPRYV-----------PKG 246

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
                  +L+   +     +       +S      V+ G+I+F  I    +   L     
Sbjct: 247 YPLVTSKNLNDSGLNLSDVSYISESDFDSINKRSKVNVGDIIFGMIGTIGNPVLL----D 302

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV-FYAMGSGLRQSLKFEDVKRLPVLV 369
                I +  +      I + +L   ++S    ++         ++ +    ++ L +  
Sbjct: 303 ESNFAIKNVALLKNDGPIQNHWLIQYLKSDVFNRLTSEKTAGNTQKFIGLNVIRNLIIDT 362

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           P I EQ  I + +       D ++   ++ +  L+  +   + 
Sbjct: 363 PSIHEQVIIGSFL----KLTDSIIAANQRRLDHLQSLKKYLMQ 401



 Score = 71.7 bits (174), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 32/211 (15%), Positives = 66/211 (31%), Gaps = 17/211 (8%)

Query: 213 PDVKMKDSGIEW----VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKL 268
           P ++ K     W    +G      +                      I         +K 
Sbjct: 7   PKIRFKGFDDPWEQRKLGEGLKQLKSYSLPRKYEVPESDTEY-----IHYGDIHTSSRKY 61

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS---LRSAQVMERGIITSAYMAVKP 325
             ++  L       +Q++  G+IV         + +   L       + +     +A++ 
Sbjct: 62  VDKSFRLPNIKSGDFQLLQTGDIVLADASEDYKEIAEPMLMKNIKGRKVVSGLHTIAIRL 121

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
              D  Y  +L  S       Y +G+GL    + ++ V++  + VP  KEQ  I  ++  
Sbjct: 122 KCGDPVYYLYLFLSPGFRHYVYKVGTGLKVFGINYDKVQKYFLAVPDEKEQKYIGKILF- 180

Query: 385 ETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
                D L+   +  +  LK  +   +    
Sbjct: 181 ---LTDQLIAANQSKLEQLKRLKKLLMQKIF 208



 Score = 61.7 bits (148), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 26/184 (14%), Positives = 51/184 (27%), Gaps = 5/184 (2%)

Query: 25  WKVVPIKRFTKLNTGRTSES---GKDIIYIGLEDVESGTGKYLPKDGNSRQS--DTSTVS 79
           W+   +     +  G         K    +  +++             S       +  S
Sbjct: 221 WEQRKLGEVKTIKDGTHDSPRYVPKGYPLVTSKNLNDSGLNLSDVSYISESDFDSINKRS 280

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
               G I++G +G      ++ + +       L+     +    L  +L S    +    
Sbjct: 281 KVNVGDIIFGMIGTIGNPVLLDESNFAIKNVALLKNDGPIQNHWLIQYLKSDVFNRLTSE 340

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
              G T        I N+ +  P + EQV+I   +      I            L K   
Sbjct: 341 KTAGNTQKFIGLNVIRNLIIDTPSIHEQVIIGSFLKLTDSIIAANQRRLDHLQSLKKYLM 400

Query: 200 QALV 203
           Q + 
Sbjct: 401 QNMF 404


>gi|260221108|emb|CBA29344.1| hypothetical protein Csp_A11670 [Curvibacter putative symbiont of
           Hydra magnipapillata]
          Length = 449

 Score =  111 bits (277), Expect = 2e-22,   Method: Composition-based stats.
 Identities = 63/417 (15%), Positives = 147/417 (35%), Gaps = 27/417 (6%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQS--D 74
           +P+ W   P+ +  +  +  +    K     +  +   ++      +      S +   +
Sbjct: 3   LPQSWTTAPLGKLCEKLSDGSHNPPKAQETGMPMLSARNINDRKITFDEFRLISPEEFAE 62

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIAD--FDGICSTQFLVLQPKDVLPELLQGWLLSID 132
               +  + G +L   +G   R A++              VL+P       +   L +  
Sbjct: 63  EDRRTRVSSGDVLLTIVGAIGRTAVVPQGAPQFTLQRSVAVLKPIKSDSRYISYALEAPA 122

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           + + ++   +G        K +  + +P+ P  EQ  I +K+     R+D + T   R  
Sbjct: 123 LQKYLQDNAKGTAQKGIYLKALAGVEIPVAPEPEQKRIADKLDTVLTRVDAVNTRLARVA 182

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKP-----FFALVTELNRK 247
            LLK  +Q++++   +  L  D +         G +P+  E            +T+    
Sbjct: 183 PLLKRFRQSVLAAATSGRLTEDWR--------NGSIPEVKEWSEKALSEVCRTITDGEHI 234

Query: 248 NTKLIESNILSLSYGNIIQKL-ETRNMGLKPESY----ETYQIVDPGEIVFRFIDLQNDK 302
           +  L    +  +S  ++ +   +  +     E +            G+++         +
Sbjct: 235 SPPLAPHGVPLVSAKDVREWGVDFSDTKFVSEEFADASRKRCGPICGDVLVVSRGATVGR 294

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF-YAMGSGLRQSLKFED 361
             L  ++     + +          I S +LA ++ S    +    A G+  + ++   D
Sbjct: 295 TCLVKSKEKFCLMGSVLLFQPTATLIKSEFLAHVLASPLGLEQLTKASGATAQAAIYIRD 354

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            K L + +P I+EQ +I   +    A  D L  ++ Q+         + +A A +G+
Sbjct: 355 AKGLKIRLPSIEEQTEIVRRVETLFAFADRLEARLAQAQAAATRLTPALLAKAFSGE 411


>gi|317181215|dbj|BAJ59001.1| Type I R-M system specificity subunit [Helicobacter pylori F32]
          Length = 373

 Score =  111 bits (277), Expect = 2e-22,   Method: Composition-based stats.
 Identities = 62/406 (15%), Positives = 123/406 (30%), Gaps = 46/406 (11%)

Query: 21  IPKHWKVVPIKRF-----TKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           +P +W+ V +         K      +    +I +  +    +    ++ K         
Sbjct: 6   LPLNWQRVRLGDIGKPCMCKRVMKHQTTRYGEIPFYKIGTFGNTADAFISKKLFL--EYK 63

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
           +  S   KG IL    G   R  I            +V        E L           
Sbjct: 64  TKYSFPKKGDILISASGTIGRAVIYDGKPAYFQDSNIVWI---DNDETLVKNDFLFYAYS 120

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            ++   E  T+         N  +P+PPL EQ+ I   + A    +  L           
Sbjct: 121 NVKWNTEHTTILRLYNDNFRNTLIPLPPLNEQIAIANILSALDRYLYAL----------- 169

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
                AL+       L  +   K    E +            +  V   +  N      +
Sbjct: 170 ----DALI-------LKKEGVKKALSFELLSQRKRLKGFNQAWQRVRLGDIANYLTSNLS 218

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
           +  ++    I+  +  N     ++     I D   I           R L      +  I
Sbjct: 219 VEQITQQGKIKVYDVNNFIGYTDTT---FISDKPYISIVKDGSVGRVRILPP----KTNI 271

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
           +++    +  H   + +L +L+ ++D           +   + F+D K   + +PP+ EQ
Sbjct: 272 LSTMGALIANHRTTTEFLFYLLSNFDFKNF---TSGSIIPHIYFKDYKEKTIFLPPLNEQ 328

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
             I N+++     I  L  K  Q     +  + +     ++ +I +
Sbjct: 329 SAIANILSALDNEIASLKNKKRQ----FENIKKALNHDLMSAKIRV 370


>gi|332535331|ref|ZP_08411130.1| type I restriction-modification system, specificity subunit S
           [Pseudoalteromonas haloplanktis ANT/505]
 gi|332035244|gb|EGI71751.1| type I restriction-modification system, specificity subunit S
           [Pseudoalteromonas haloplanktis ANT/505]
          Length = 394

 Score =  111 bits (277), Expect = 2e-22,   Method: Composition-based stats.
 Identities = 63/414 (15%), Positives = 134/414 (32%), Gaps = 47/414 (11%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPI--KRFTKLNTGRTS-ESGKDIIYIGLEDVESGTGK 62
            +P++K+            W+   +  K        R   E  K   Y+  E++ +    
Sbjct: 14  RFPEFKN---------DAEWEKKVLNNKDIATFVKDREPLEQLKLNSYVSTENLLADYAG 64

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPE 122
                        ++        +L   + PYL+K   AD  G  S   +V++P   +  
Sbjct: 65  VAKASKLPPSGSFTSYK---PNDVLISNIRPYLKKVWCADKIGAASNDVIVIRPNAKVSA 121

Query: 123 -LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
             +   L + +    +    +G  M   D   I   P+ +P L EQ  I + + +    +
Sbjct: 122 AYMLHILKNDEFINFVMKGAKGVKMPRGDIASIKAYPVALPRLPEQQKIADCLSSLDKLV 181

Query: 182 DTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALV 241
                   + ++ LK  K+ L+  +         +++    E              F + 
Sbjct: 182 SA----NNQKLDALKAHKKGLMQQLFPAEGETVPELRFPEFE-NQTSWKKRSFSKLFEIG 236

Query: 242 TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQND 301
              + K   L   NI     G  ++ +       +         ++    +         
Sbjct: 237 GGKDHK--HLPSGNIPVYGSGGYMRSVNEFLYDGESACIGRKGTINKPMFL--------- 285

Query: 302 KRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFED 361
                     +   + + +     +G  + ++  L ++ D   +  A   G   SL    
Sbjct: 286 --------NGKFWTVDTLFYTHSFNGCTARFIYLLFQNIDWLSLNEA---GGVPSLSKVI 334

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           + ++ V++P IKEQ  IT+ I+     ++ L+    Q I  LK  +   +    
Sbjct: 335 INKIEVMIPEIKEQHRITDCIDS----LEELITAQSQKIGALKTHKRGLMQQLF 384


>gi|226951289|ref|ZP_03821753.1| type I restriction modification enzyme protein S [Acinetobacter sp.
           ATCC 27244]
 gi|226837962|gb|EEH70345.1| type I restriction modification enzyme protein S [Acinetobacter sp.
           ATCC 27244]
          Length = 399

 Score =  111 bits (277), Expect = 2e-22,   Method: Composition-based stats.
 Identities = 58/408 (14%), Positives = 131/408 (32%), Gaps = 29/408 (7%)

Query: 26  KVVPIKRFTKLNTGRTSESGK--------DIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           ++V I   +    G +              +  +   +++   G  L       +S  S 
Sbjct: 3   QIVKIGNISTQIRGVSYSKSDAVSNMQEGYLPVLRANNIQE-QGLILEDFVYVPESKISK 61

Query: 78  VSIFAKGQILY----GKLGPYLRKAIIADFDGICSTQFL---VLQPKDVLPELLQGWLLS 130
                 G ++     G +    + A   +        F        + V P     +  +
Sbjct: 62  KQRILAGDVIIAASSGSISLVGKAASAKEDINAGFGAFCKILRPNTELVDPRYFANYFQT 121

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
               Q I  +  GA +++   + + ++ +P+PPL+EQ  I   +    V          +
Sbjct: 122 QQYRQIISNLAAGANINNLKNEHLDDLEIPLPPLSEQRRIASILDQADVLRQKRQQAIEK 181

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
             +LL+          +    +P    K   ++ +    D  ++ PF   + + +     
Sbjct: 182 LDQLLQAT-------FIDMFGDPVSNPKGFEVKKLSEQVDLIQIGPFGTQLHQEDYIENG 234

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
           +   N   +  G I+  L+     LK      Y  +   +++            +   +V
Sbjct: 235 IPLINPSHIKNGKIVPNLKLSVSQLKYGELSQYH-LKLHDVLLGRRGEMGRCAVVTQNEV 293

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLV 369
                  S ++      I+  +L  L+ S  + +    +  G    +L    V  +P++ 
Sbjct: 294 GWLCGTGSLFLRPNVEKINPFFLEMLLSSDSIKRYLENVSQGQTMANLNKTIVGSIPLIA 353

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
           P I+ Q      +   +  I+ +  ++E S   +     S    A  G
Sbjct: 354 PSIEIQNKF--FL--ISEEINKMKTELENSKNQVNNLFQSLQNHAFNG 397


>gi|224282782|ref|ZP_03646104.1| Type I restriction-modification system specificity subunit
           [Bifidobacterium bifidum NCIMB 41171]
 gi|313139941|ref|ZP_07802134.1| type I restriction-modification system specificity subunit
           [Bifidobacterium bifidum NCIMB 41171]
 gi|313132451|gb|EFR50068.1| type I restriction-modification system specificity subunit
           [Bifidobacterium bifidum NCIMB 41171]
          Length = 397

 Score =  111 bits (277), Expect = 3e-22,   Method: Composition-based stats.
 Identities = 55/398 (13%), Positives = 124/398 (31%), Gaps = 29/398 (7%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGK-----DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
            W  + +     +   +     +     D+ +  +     G         +      S  
Sbjct: 18  DWDEMTLGDVGSVAMCKRVFKEQTCEVGDVPFFKIGTF--GGAPDSYISQSLFDELKSKY 75

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           +    G IL    G   R+      D       +V        + +    L    T    
Sbjct: 76  AYPKVGTILLSASGTIGRQVEYKGEDAYYQDSNIVW---LEHDDTVLDSYLKQFYTVVKW 132

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
              EG+T+     K I + P   P L EQ  I + + A    I     E   + +  K  
Sbjct: 133 QGLEGSTIKRLYNKTILDTPFYRPSLPEQRKIADFLSAVDAVIAAQQAEVDAWEQRKKGV 192

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
            Q L S  V    +          + +G            A +      NT   E ++ +
Sbjct: 193 MQKLFSQEVRFKADDGSDFPKWEEKTLGE-----YCTQLKASIDPRKSPNTIFAEYSMPA 247

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
                  + +  R      E     +I+    ++   ++++  +  L      +  + +S
Sbjct: 248 FDESRKARFVSGR------EMNSARKILSEPCVLVNKLNVRKRRIWLVK-NPEQNAVCSS 300

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQ 375
            ++ +  + I+ T+L++   +           SG    ++ +  + +    + +P + EQ
Sbjct: 301 EFVPLSSNAINLTFLSYFALTDRFTSYLMDCSSGSSNSQKRVVPDVILNYVMQIPSLPEQ 360

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
             I + +    A +D  ++K +  +   +E +   +  
Sbjct: 361 RKIADCL----ASMDEAIQKSKDELAKWQELKKGLLQQ 394



 Score = 69.1 bits (167), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 17/153 (11%), Positives = 45/153 (29%), Gaps = 10/153 (6%)

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
               +  L  E    Y     G I+         +         E      + +      
Sbjct: 60  DSYISQSLFDELKSKYAYPKVGTILLSASGTIGRQV----EYKGEDAYYQDSNIVWLE-- 113

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
            D T L   ++ +     +  +     + L  + +   P   P + EQ  I + ++    
Sbjct: 114 HDDTVLDSYLKQFYTVVKWQGLEGSTIKRLYNKTILDTPFYRPSLPEQRKIADFLSAV-- 171

Query: 388 RIDVLVEKIEQSIVLLKERRSSFIAAAVTGQID 420
             D ++   +  +   ++R+   +    + ++ 
Sbjct: 172 --DAVIAAQQAEVDAWEQRKKGVMQKLFSQEVR 202


>gi|325953723|ref|YP_004237383.1| restriction modification system DNA specificity domain protein
           [Weeksella virosa DSM 16922]
 gi|323436341|gb|ADX66805.1| restriction modification system DNA specificity domain protein
           [Weeksella virosa DSM 16922]
          Length = 407

 Score =  111 bits (277), Expect = 3e-22,   Method: Composition-based stats.
 Identities = 58/407 (14%), Positives = 129/407 (31%), Gaps = 38/407 (9%)

Query: 26  KVVPIKRFTKL-NTGRTSESGKDIIYIGLED-VESGTGKYLPKDGNSRQSDTSTVSI--- 80
           +   +     + NTG   +   D + + L + V+    +Y+  D  +     +   I   
Sbjct: 14  EWKTLGEVVDIANTGVDKKINADELTVRLLNFVDVFKNQYISNDTPTMIVTATERKIADC 73

Query: 81  -FAKGQILYGKLGPYLRKAI-----IADFDGICSTQFL----VLQPKDVLPELLQGWLLS 130
              KG +        + +       I DFD +  +  +    +     + P  L     S
Sbjct: 74  NVKKGDVFITPTSELIDEIGFSAMAIEDFDNVVYSYHIMRLRINNQNYLFPAYLNYLFKS 133

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
            D+ ++I    +G T          +I +PIPPL  Q  I   +   T            
Sbjct: 134 KDIRKQIRKKAQGITRYGLTQPNWKSIQIPIPPLDVQQEIVRILDRFTELTAE------- 186

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
              L   +KQ          +N +  M +  +EW              +  T     N  
Sbjct: 187 ---LTARQKQYEYYREQLLMVNDEGLMNNEKVEW---KKLGEIAVKISSGGTPSTSINDY 240

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPE--SYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
                    +     + +    + +        + +I+    ++         K  +   
Sbjct: 241 YDGDIPWLRTQEVDFKDIWDTEIKITEAGLKNSSAKIIPENCVIVAMYGATVGKIGINKI 300

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVL 368
            +       +  + V  +  +  Y+   + S    +   ++G+G + ++  + +K   + 
Sbjct: 301 PLSTNQACAN--IHVDENIANYRYVFHYLSSKY--EHIKSLGTGTQTNINAQIIKNYLIP 356

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFI 411
           VPP+ EQ  I  +++        + E + + I L ++     R   +
Sbjct: 357 VPPLAEQERIVAILDKFDTLTSSITEGLPREIELRQKQYEYYRDQLL 403


>gi|298735606|ref|YP_003728129.1| type I R-M system specificity subunit [Helicobacter pylori B8]
 gi|298354793|emb|CBI65665.1| type I R-M system specificity subunit [Helicobacter pylori B8]
          Length = 377

 Score =  111 bits (277), Expect = 3e-22,   Method: Composition-based stats.
 Identities = 55/406 (13%), Positives = 116/406 (28%), Gaps = 41/406 (10%)

Query: 21  IPKHWKVVPIKRF-----TKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           +P +W+ V +         K      +    +I +  +    +    ++ K         
Sbjct: 6   LPSNWQRVRLGDIGKPCMCKRVMKHQTTRYGEIPFYKIGTFGNTADAFISKKLFL--EYK 63

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
           +  S   KG IL    G   R  I            +V        E L           
Sbjct: 64  TKYSFPKKGDILISASGTIGRAVIYDGKPAYFQDSNIVWI---DNDETLVKNDFLFYTYS 120

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            ++   E  T+         N  +P+PPL EQ+ I   +      +  L    ++   + 
Sbjct: 121 HVKWNTEHTTILRLYNDNFRNTLIPLPPLNEQIAIANILSDVDRYLYNLDALILKKEGVK 180

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
           K     L+S           ++K     W         +     +   +     +L    
Sbjct: 181 KALSFELLSQ--------RKRLKGFNQAW-----QKVRLGDIAEIKRGVRITKNELDVFG 227

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
              +  G +     T N      +    Q    G + F+      +              
Sbjct: 228 KYPVVSGGVGFLGYTNNFNRYENTITIAQYGTAGYVNFQKNKFWANDVCF---------- 277

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
                +      I + +L + ++         +  +    S+  + +    +L+PP+ EQ
Sbjct: 278 ----CIYPNKDIIKNIFLYYFLKVNQNYLYEISNRNATPYSISKDKILDFEILLPPLNEQ 333

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
             I N+++     I  L  K  Q     +  + +     ++ +I +
Sbjct: 334 IAIANILSALDNEIISLKNKKRQ----FENIKKALNHDLMSAKIRV 375


>gi|254190416|ref|ZP_04896924.1| type I restriction-modification system, endonuclease S subunit
           [Burkholderia pseudomallei Pasteur 52237]
 gi|157938092|gb|EDO93762.1| type I restriction-modification system, endonuclease S subunit
           [Burkholderia pseudomallei Pasteur 52237]
          Length = 387

 Score =  111 bits (276), Expect = 3e-22,   Method: Composition-based stats.
 Identities = 70/399 (17%), Positives = 150/399 (37%), Gaps = 34/399 (8%)

Query: 23  KHWKVVPIKRFTKLNTGR--TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
             W++    +       R           Y+GLE +++ + K   +   +     +T  +
Sbjct: 9   NGWRIWRFDQMATNVNVRIDNPSESGVEHYVGLEHLDADSLKI--RRWGTPDDVEATKLM 66

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLV--LQPKDVLPELLQGWLLSIDVTQRIE 138
           F KG I++G+   Y RK  +A+FDGICS   +V   +P  VLP+ L  ++ S    +R  
Sbjct: 67  FKKGDIIFGRRRAYQRKLGVAEFDGICSAHAMVLRAKPDVVLPDFLPFFMQSDLFMKRAV 126

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
            I  G+     +WK +      +PP+ EQV   E +          I         +   
Sbjct: 127 EISVGSLSPTINWKTMAIQEFVLPPIDEQVRHVELL--------QAIERASESHRKIGCS 178

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
              LV  +++  LN +  + D G            V      ++       +     +++
Sbjct: 179 ADKLVRSLLSDVLNREWPVVDLG----------SVVYETQYGLSINAGSEGRYPMLRMMN 228

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
           +  G  ++  + + + L  + +E Y++V  G+++F   +           ++    +  S
Sbjct: 229 IEDGLCVEN-DIKYVDLSDKDFEAYRLVH-GDVLFNRTNSYELVGRTGVYELDGDHVFAS 286

Query: 319 AY--MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKE 374
               +   P  ++  +LA  + S    +   A  +    + ++   ++ R+ + +PP+  
Sbjct: 287 YLVRIKTNPERLEPKFLAQYLNSDFGRRQVLAFATKAVSQANVNASNLLRIRLPLPPLDV 346

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           Q      +  E A+              ++E +   +A 
Sbjct: 347 QQQ----LLDEIAKAKSAETAATVRRSYVEEMKKQLLAE 381


>gi|172039948|ref|YP_001799662.1| type I restriction-modification system, specificity subunit
           [Corynebacterium urealyticum DSM 7109]
 gi|171851252|emb|CAQ04228.1| type I restriction-modification system, specificity subunit
           [Corynebacterium urealyticum DSM 7109]
          Length = 384

 Score =  111 bits (276), Expect = 3e-22,   Method: Composition-based stats.
 Identities = 56/405 (13%), Positives = 122/405 (30%), Gaps = 37/405 (9%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDI------IYIGLEDVESGTGKYLPKDGNSRQSDTST 77
            W +V +    +  +G T    ++        +I   D+         +         S 
Sbjct: 6   DWPMVKLGDLGRFASGGTPNRKREEFYQGETPWISSADISEDGKITARRFITDEAIAKSA 65

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
            +    G +L        + AI             +L              L   +   +
Sbjct: 66  TTEVPAGTLLVAVRIGVGKTAITTSPTCFSQDVVALLDTDPNEVSTGFLQHLITWLRPHL 125

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           E I  G T+       + ++ +P+PPLAEQ  I + +    ++I      +     L  E
Sbjct: 126 EQIARGVTIKGITIGDLKDLNIPLPPLAEQRRIAKILDTVNIQIHR---TKEASNYLKDE 182

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
             +A    +                      P   +        +  +RK+ +    +I 
Sbjct: 183 LARAFFQQLGR-----------------NSQPAQIKTLATVTTGSTPSRKHPEYYGGSIP 225

Query: 258 SLSYG---NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
            +                +        + +I  PG ++      Q   R       +   
Sbjct: 226 WVKTNEVSGTAITSTEETITETGLENSSCKINPPGTVLVAMYG-QGRTRGSAGILRIPAT 284

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIK 373
              +       +  DS Y+ + +++    +   ++G  G + +L    ++   +  PP  
Sbjct: 285 TNQACAAISCTNPADSDYVYFALKASY--EELRSLGRGGTQPNLNLGLIRGFSIPYPP-A 341

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           EQ +    + +   +++ L    E  +  L+E  +S  A A  G+
Sbjct: 342 EQRE---ELTITIKKMENLNHAYETQLQKLEELNASLSARAFAGK 383


>gi|71024881|ref|YP_263290.1| hypothetical protein pAG6_01 [Lactococcus lactis subsp. cremoris]
 gi|70067198|dbj|BAE06236.1| HsdS [Lactococcus lactis subsp. cremoris]
          Length = 388

 Score =  111 bits (276), Expect = 3e-22,   Method: Composition-based stats.
 Identities = 51/402 (12%), Positives = 119/402 (29%), Gaps = 39/402 (9%)

Query: 20  AIPK--------HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSR 71
            +P+         W+   +    ++  G++  S           +  G           R
Sbjct: 15  KVPELRFKGFTDEWEQRKLGDEVRIVMGQSPNSENYTDDPNDYILVQGNADMKNGRVLPR 74

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
              T       K  ++     P         +D +       ++  + +       L  +
Sbjct: 75  VWTTQVTKQAEKDDLILSVRAPV-GDIGKTAYDVVIGRGVAAIKGNEFI----FQNLGKM 129

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
                      G+T    +   I    + +P + EQ  I         ++D  I    R 
Sbjct: 130 KSDGYWTRYSTGSTFESINSTDIKEAIISVPAIEEQDKIGSF----FKQLDNTIALHQRK 185

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           I+LLKE+K+  +  +  K      +++  G      +                 RK+ +L
Sbjct: 186 IDLLKEQKKGYLQKMFPKNGAKVPELRFEGFADDWEL-----------------RKSKEL 228

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
              +    +  + +               ++ + +   E V    D       +      
Sbjct: 229 CTISTGKGNTQDKVDDGAYPFYVRSATIEKSDEYLYDQEAVLTVGDGVGT-GKVYHYVNG 287

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
           +  +    Y       + + Y  +        +V          S++ E +  + ++ P 
Sbjct: 288 KYNLHQRVYRMYDFKDVSAKYFYYYFSKNFYKRVMSMTAKTSVDSVRMEMIADMNIVFPS 347

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           +KEQ +I        + +D  +   ++ + LLKE++  F+  
Sbjct: 348 VKEQENIVE----LFSNLDNTIALHQRKLDLLKEQKKGFLQK 385


>gi|85711478|ref|ZP_01042536.1| putative specificity protein s [Idiomarina baltica OS145]
 gi|85694630|gb|EAQ32570.1| putative specificity protein s [Idiomarina baltica OS145]
          Length = 426

 Score =  111 bits (276), Expect = 3e-22,   Method: Composition-based stats.
 Identities = 64/424 (15%), Positives = 130/424 (30%), Gaps = 37/424 (8%)

Query: 25  WKVVPIKRFTK-----LNTGRTSE-------SGKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           W    +          + TG           S      +  +D+  G  +          
Sbjct: 3   WNESTLGDICDAGQGIIKTGPFGSQLHQSDYSDAGTPVVMPKDIVGG--RVSESSIARVA 60

Query: 73  SDTS---TVSIFAKGQILYGKLGPYLRKAII--ADFDGICSTQFLVLQ--PKDVLPELLQ 125
            +     +      G I+YG+ G   R A++   +   +C T  L +     +V P+ L 
Sbjct: 61  EEHVERLSHHQLYPGDIVYGRRGDIGRCALVTPRESGWLCGTGCLRIHLGNGEVSPKFLF 120

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
            +L +      I     GATM + +   + +IP+  P    Q  I   + A    I+   
Sbjct: 121 YFLNNPSTVDWIYNQAVGATMPNLNTSILRSIPVRYPTRETQERIAAFLSAYDDLIENNT 180

Query: 186 TERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN 245
                      E  + L          P  +        +G +P+ WEV+     V    
Sbjct: 181 RRIEILE----EMARRLYEEWFVHFRFPGHEGVSFKESELGDIPEGWEVRRLEDAVALNP 236

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
           R         +        + +       L+ ++  +      G+ +F  I    +    
Sbjct: 237 RTKVPKEGEKLFVP--MGALSESSMIVGSLERKTGNSGAKFQNGDTLFARITPCLENGKT 294

Query: 306 RSAQVMER----GIITSAYMAVKPHGIDSTYLAWLMRSYDLCK--VFYAMGSGLRQSLKF 359
                +         ++ ++ ++   +    +  L RS       +    G+  RQ ++ 
Sbjct: 295 GFVDFLPEDQPTACGSTEFIVLRSVSLCPEMVYLLARSDRFRDVAIKSMSGATGRQRVRV 354

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
           E +   PV+ P           ++    +   L  K       L+ +R   +   V+G+I
Sbjct: 355 ESLVEFPVVQPDNATLEAFQRFVSPCFKQARTLALKN----ANLRAQRDLLLPKLVSGEI 410

Query: 420 DLRG 423
           D+  
Sbjct: 411 DVSD 414



 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 29/145 (20%), Positives = 57/145 (39%), Gaps = 15/145 (10%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDG 68
            +K+S    +G IP+ W+V  ++    LN         + +++ +  +   +       G
Sbjct: 210 SFKESE---LGDIPEGWEVRRLEDAVALNPRTKVPKEGEKLFVPMGALSESSMIV----G 262

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYL--RKAIIADF------DGICSTQFLVLQPKDVL 120
           +  +   ++ + F  G  L+ ++ P L   K    DF          ST+F+VL+   + 
Sbjct: 263 SLERKTGNSGAKFQNGDTLFARITPCLENGKTGFVDFLPEDQPTACGSTEFIVLRSVSLC 322

Query: 121 PELLQGWLLSIDVTQRIEAICEGAT 145
           PE++     S            GAT
Sbjct: 323 PEMVYLLARSDRFRDVAIKSMSGAT 347


>gi|145628526|ref|ZP_01784326.1| putative type I restriction-modification system specificity protein
           [Haemophilus influenzae 22.1-21]
 gi|145639724|ref|ZP_01795326.1| putative type I restriction-modification system specificity protein
           [Haemophilus influenzae PittII]
 gi|144978996|gb|EDJ88682.1| putative type I restriction-modification system specificity protein
           [Haemophilus influenzae 22.1-21]
 gi|145271092|gb|EDK11007.1| putative type I restriction-modification system specificity protein
           [Haemophilus influenzae PittII]
          Length = 394

 Score =  111 bits (276), Expect = 3e-22,   Method: Composition-based stats.
 Identities = 51/385 (13%), Positives = 127/385 (32%), Gaps = 25/385 (6%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           +   + + T + TG++              +   +G Y   +                  
Sbjct: 18  EWKSLGKVTDIKTGQSVSKN---------IIAQNSGIYPVINSGREPLGFINEWNTENDP 68

Query: 86  ILYGKLGPYLRKAIIADFDGI-CSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
           I     G  +      +      +  + V    +    +   + + +   + I  +C   
Sbjct: 69  IGITTRGAGVGSITWQEGKYFRGNLNYSVTIKSEYELNVRFLYHVLLHFQKEIHNLCSFT 128

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
            +   +   +  + +PIPPL+ Q  I + + A T     L +E    + L +++ +    
Sbjct: 129 GIPALNASELKKLEIPIPPLSVQTEIVKILDALTALTSELTSELTSELILRQKQYEYYRE 188

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
            ++++      ++   G EW          K   +  T     N       I  L    +
Sbjct: 189 KLLSEE-----ELGKVGFEW---KTIDEISKKISSGGTPTTSNNGYYDNGTIPWLRTQEV 240

Query: 265 IQKLETRNMGLKPES---YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
             K          E      + + +    ++         K ++    +       +  +
Sbjct: 241 DFKEIWDTNIKITEDALNNSSAKWIPANCVIVAMYGATVGKTAINKIPLTTNQACAN--I 298

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
            +        Y+   + S    +   ++GSG + ++  + +K+L V VPPI+EQ+ I ++
Sbjct: 299 EINDKLACYRYIFHYLTSKY--EYIKSLGSGSQTNINAQIIKKLKVPVPPIEEQYRIVSI 356

Query: 382 INVETARIDVLVEKIEQSIVLLKER 406
           ++      + + E +  +I   ++R
Sbjct: 357 LDKFETLTNSITEGLPLAIEQSQKR 381


>gi|327390070|gb|EGE88414.1| type I restriction modification DNA specificity domain protein
           [Streptococcus pneumoniae GA04375]
          Length = 353

 Score =  111 bits (276), Expect = 3e-22,   Method: Composition-based stats.
 Identities = 49/390 (12%), Positives = 102/390 (26%), Gaps = 39/390 (10%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V + +      G   +  +D    G E +         K  N          I   G 
Sbjct: 2   KKVKLGQVATFINGYAFKP-QDWSSEGKEIIRIQNLTKTSKGINYYSGTIDKKYIVEAGD 60

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           IL    G  L          + +     +    +  +      +     Q       G+T
Sbjct: 61  ILISWSG-TLGVFQWCGRSAVLNQHIFKVVFDKIDIDKSYFKYVVEKGLQDAVKHTHGST 119

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
           M H   K   NI +    L EQ  I  ++   +  I     +      L       + S 
Sbjct: 120 MKHLTKKYFDNIMVSYTNLREQQRIASELDLLSKLILRRQEQLEELNLL-------VKSR 172

Query: 206 IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII 265
                 +P    K   ++  G     +    F      +         + I         
Sbjct: 173 FNEMFGDPLNNNKKFAVKT-GQQCFKFSSGKFLDKHDRVFEGYPAYGGNGIAW------- 224

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
                              ++D   I+   +                +  I+   + +K 
Sbjct: 225 --------------KSRKYLIDNPTIIIGRVGA----YCGNVRTTHGKVWISDNAIYIKE 266

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
                  L +L+    +           +  +  + ++    ++PP+  Q +  + +   
Sbjct: 267 FKNSDFNLVFLLELMKVIDFSKFADFSGQPKITQKPLENQKYILPPLALQNEFADFV--- 323

Query: 386 TARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            A +D     I++S+  L+  + S +    
Sbjct: 324 -ALVDKSQLAIQKSLEELETLKKSLMQEYF 352


>gi|300361584|ref|ZP_07057761.1| type I restriction-modification system [Lactobacillus gasseri
           JV-V03]
 gi|300354203|gb|EFJ70074.1| type I restriction-modification system [Lactobacillus gasseri
           JV-V03]
          Length = 468

 Score =  111 bits (276), Expect = 3e-22,   Method: Composition-based stats.
 Identities = 49/408 (12%), Positives = 108/408 (26%), Gaps = 37/408 (9%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +P  W  + +        GR  +  + +    L  V      +                
Sbjct: 54  ELPSSWDWITLGSGVTFYNGRAYKKKELLSDDKLTPVLRVGNLFTNSSWYYSDLSLDENK 113

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
               G ++Y     +  K             + +    +V+      + L        E 
Sbjct: 114 YIDNGDLIYAWSASFGPKIWNGGHVIYHYHIWKLEYDNNVIDTNFLYYFLLDKRNVVGET 173

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
              G+TM H     + ++P P+PPL EQ  I  KI      +  + +   ++ +L    K
Sbjct: 174 DLHGSTMKHITKTNMEHLPFPLPPLEEQSRIAAKIAQLFALLRKVESSTQQYAKLQTLLK 233

Query: 200 QALVSYIVTKGLNPDVK-------------------------------MKDSGIEWVGLV 228
             ++   +   L                                       +  E    +
Sbjct: 234 SKVLDLAMRGKLVKQDPHDEPASVLLEKIKAEKEQLIKEKKIKKSKPLPPITDKEKPFDI 293

Query: 229 PDHWEVKPFFALVTELNRKNTKLIESN-----ILSLSYGNIIQKLETRNMGLKPESYETY 283
           PD WE      +   +    T   ++      +      N         +    +     
Sbjct: 294 PDSWEWVRLGEVAESIRYGYTASAQATGNAKLLRITDIQNNNVNWNMVPLCNISDMKLKD 353

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC 343
             +   +I+         K       V      +        +   S ++ +++ +    
Sbjct: 354 LSLHKKDILIARTGGTIGKNYFVKQIVEPTVFASYLIRVRNINKKVSNFIQYVLDAPIYW 413

Query: 344 KVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
               A  SG  + ++    ++     +PP++EQ  I + I       +
Sbjct: 414 NFISAKKSGTGQPNVNAAKLENFIFPIPPLEEQNRIVDKIINLIDLFN 461



 Score = 76.0 bits (185), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 38/213 (17%), Positives = 74/213 (34%), Gaps = 12/213 (5%)

Query: 211 LNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE-----SNILSLSYGNII 265
           L     +K S IE    +P  W+     + VT  N +  K  E          L  GN+ 
Sbjct: 39  LLKKNNLKRS-IEEPHELPSSWDWITLGSGVTFYNGRAYKKKELLSDDKLTPVLRVGNLF 97

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
                    L  +  +    +D G++++ +      K       +    I    Y     
Sbjct: 98  TNSSWYYSDLSLDENK---YIDNGDLIYAWSASFGPKIWNGGHVIYHYHIWKLEY---DN 151

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
           + ID+ +L + +           +     + +   +++ LP  +PP++EQ  I   I   
Sbjct: 152 NVIDTNFLYYFLLDKRNVVGETDLHGSTMKHITKTNMEHLPFPLPPLEEQSRIAAKIAQL 211

Query: 386 TARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            A +  +    +Q   L    +S  +  A+ G+
Sbjct: 212 FALLRKVESSTQQYAKLQTLLKSKVLDLAMRGK 244


>gi|212691155|ref|ZP_03299283.1| hypothetical protein BACDOR_00645 [Bacteroides dorei DSM 17855]
 gi|212666387|gb|EEB26959.1| hypothetical protein BACDOR_00645 [Bacteroides dorei DSM 17855]
          Length = 429

 Score =  111 bits (276), Expect = 3e-22,   Method: Composition-based stats.
 Identities = 57/406 (14%), Positives = 119/406 (29%), Gaps = 34/406 (8%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYLPKDGNSRQS 73
           +P  W+   ++       G+T            + +++  +D++             +  
Sbjct: 28  LPNGWEWCNLEDIVSFGGGKTPSMDNKEYWDNGNHLWVTSKDMKYSYITNSLMKITDKAL 87

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAI---IADFDGICSTQFLVLQPKDV-LPELLQGWLL 129
           +    +I+ KG +L       LR  +   I +     +     + P    L E L   + 
Sbjct: 88  EVM--TIYEKGTLLVVTRSGILRHTLPLSILEKPATVNQDLKTISPHIQELSEYLYVVIK 145

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
           + +     E   +G T+   D+     +P+P+ P+AEQ  I  +       ID +   ++
Sbjct: 146 ANEHFILKEYHKDGTTVDSIDFDKFRCLPIPLAPIAEQKRIIVETKRWFALIDQVEQGKV 205

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWV------------GLVPDHWEVKPF 237
                +K+ K  ++   +   L P     +  IE +            G  P  W     
Sbjct: 206 DLQTTIKQAKSKILGLAIHGKLVPQDLNDEPAIELLKRINPDFTPCDNGHYPVGWIETIL 265

Query: 238 FALVTELNRKNTKLIESNILSLSY------GNIIQKLETRNMGLKPESYETYQIVDPGEI 291
             L +    K         +   Y                      ES      V  G++
Sbjct: 266 GELFSHNTGKALNSSNKEGIFKDYLTTSNVYWNKFDFTAIKQMPFKESELNKCTVTKGDL 325

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
           +                       I +    ++P         +   +Y           
Sbjct: 326 LVCEGGDIGRSAIW---NYDYDICIQNHIHRLRPKIDLCVPFYYYTFAYLKENNLIGGKG 382

Query: 352 GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
                L    + ++ + +PP+ EQ  I   I    + +D +   +E
Sbjct: 383 IGLLGLSSNALHKIEMPLPPLAEQQRIVQKIEELFSVLDNIQNALE 428



 Score = 63.3 bits (152), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 33/169 (19%), Positives = 55/169 (32%), Gaps = 4/169 (2%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGR--TSESGKDI--IYIGLEDVESGTGKYLPKDGNSRQSD 74
           G  P  W    +      NTG+   S + + I   Y+   +V      +        +  
Sbjct: 254 GHYPVGWIETILGELFSHNTGKALNSSNKEGIFKDYLTTSNVYWNKFDFTAIKQMPFKES 313

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
                   KG +L  + G   R AI      IC    +      +   +   +     + 
Sbjct: 314 ELNKCTVTKGDLLVCEGGDIGRSAIWNYDYDICIQNHIHRLRPKIDLCVPFYYYTFAYLK 373

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           +      +G  +       +  I MP+PPLAEQ  I +KI      +D 
Sbjct: 374 ENNLIGGKGIGLLGLSSNALHKIEMPLPPLAEQQRIVQKIEELFSVLDN 422



 Score = 54.4 bits (129), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 27/198 (13%), Positives = 66/198 (33%), Gaps = 8/198 (4%)

Query: 229 PDHWEVKPFFALVTELNRK------NTKLIESNILSLSYGNIIQKLETRNMGLKPESYET 282
           P+ WE      +V+    K             N L ++  ++     T ++    +    
Sbjct: 29  PNGWEWCNLEDIVSFGGGKTPSMDNKEYWDNGNHLWVTSKDMKYSYITNSLMKITDKALE 88

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
              +     +         + +L  + + +   +      + PH  + +   +++   + 
Sbjct: 89  VMTIYEKGTLLVVTRSGILRHTLPLSILEKPATVNQDLKTISPHIQELSEYLYVVIKANE 148

Query: 343 CKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
             +            S+ F+  + LP+ + PI EQ  I        A ID + +      
Sbjct: 149 HFILKEYHKDGTTVDSIDFDKFRCLPIPLAPIAEQKRIIVETKRWFALIDQVEQGKVDLQ 208

Query: 401 VLLKERRSSFIAAAVTGQ 418
             +K+ +S  +  A+ G+
Sbjct: 209 TTIKQAKSKILGLAIHGK 226


>gi|168484775|ref|ZP_02709720.1| restriction modification system DNA specificity domain
           [Streptococcus pneumoniae CDC1873-00]
 gi|172042074|gb|EDT50120.1| restriction modification system DNA specificity domain
           [Streptococcus pneumoniae CDC1873-00]
          Length = 353

 Score =  111 bits (276), Expect = 3e-22,   Method: Composition-based stats.
 Identities = 49/390 (12%), Positives = 102/390 (26%), Gaps = 39/390 (10%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V +        G   +  +D    G E +          + N          I   G 
Sbjct: 2   KKVKLGEVATFINGYAFKP-QDWSSEGKEIIRIQNLTKTSTEINYYSGTIDKKYIVEAGD 60

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           IL    G  L          + +     +    +  +      +     Q       G+T
Sbjct: 61  ILISWSGT-LGVFQWRGRSAVLNQHIFKVVFDKIDIDKSYFKYVVEKGLQDAVKHTHGST 119

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
           M H   K   NI +P   L EQ  I  ++   +  I     +      L       + S 
Sbjct: 120 MKHLTKKYFDNIIVPYTNLGEQQRIASELDLLSKLILRRQEQLEELNLL-------VKSR 172

Query: 206 IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII 265
                 +P    K   ++  G     +    F      +         + I         
Sbjct: 173 FNEMFGDPLNNNKKFAVKT-GQQCFKFSSGKFLDKHDRVFEGYPAYGGNGIAW------- 224

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
                              ++D   I+   +                +  I+   + +K 
Sbjct: 225 --------------KSRKYLIDNPTIIIGRVGA----YCGNVRTTHGKVWISDNAIYIKE 266

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
                  L +L+    +           +  +  + ++    ++PP+  Q +  + +   
Sbjct: 267 FKNSDFNLVFLLELMKVIDFSKFADFSGQPKITQKPLENQKYILPPLALQNEFADFV--- 323

Query: 386 TARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            A +D     I++S+  L+  + S +    
Sbjct: 324 -ALVDKSQLAIQKSLEELETLKKSLMQEYF 352


>gi|317130965|ref|YP_004097247.1| restriction modification system DNA specificity domain [Bacillus
           cellulosilyticus DSM 2522]
 gi|315475913|gb|ADU32516.1| restriction modification system DNA specificity domain [Bacillus
           cellulosilyticus DSM 2522]
          Length = 414

 Score =  110 bits (275), Expect = 3e-22,   Method: Composition-based stats.
 Identities = 81/400 (20%), Positives = 156/400 (39%), Gaps = 27/400 (6%)

Query: 24  HWKVVPIKRFTKLNTGRT-SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF- 81
            W++VP K   +  + R   +  K   YIGLE ++S T K      +    D     +  
Sbjct: 14  GWRLVPFKLMAEHISKRVEPKETKLKYYIGLEHLDSKTLKI---KRHGTPEDVQGTKLVA 70

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKD--VLPELLQGWLLSIDVTQRIEA 139
             G I++GK   Y  K  I ++D I S   +VL+ ++  ++ ELL  ++ S +   R   
Sbjct: 71  KPGDIIFGKRRAYQGKVAICEWDAIVSAHSMVLRAQEEVIIKELLPFFMQSQEFYNRSLK 130

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
           I EG+      WK +      IPP   Q  I EK+       +  I  +   +E   + K
Sbjct: 131 ISEGSLSPTIKWKVLAEEKFIIPPKNIQRDIIEKLN----ATEDNINCKEILLEKTLKYK 186

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
           + LV+ ++T+G+N       S    +G +P  WE+K    +     +K         +S 
Sbjct: 187 EKLVNKLLTRGVNHSNYKPSS----IGEIPKDWELKRIDDVCNINPQKEKIADTDTEISF 242

Query: 260 SYGNIIQ---KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI- 315
                I    K+         E    +      +++   I    +      AQ ++  I 
Sbjct: 243 LTMEDISNDAKIINLRERKYSEVSSGFTSFRENDVIVAKITPCFENGKGALAQNLKNSIG 302

Query: 316 --ITSAYMAVKPHGIDSTYLAWLMRSYDLC--KVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
              T  ++      +   Y+ +   +        +   GS  ++ +  E ++   + +PP
Sbjct: 303 FGSTEFHILRAKDEVLPKYIYYHTTNKLFRTLGEWNMTGSAGQKRVPKEFLEGFKIGIPP 362

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
           + EQ  I  +++     ++ ++  IE +I   K+ +   +
Sbjct: 363 LTEQRKIVEILDG----LENVISNIESNIKNTKKVKEELL 398



 Score = 72.5 bits (176), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 42/210 (20%), Positives = 80/210 (38%), Gaps = 14/210 (6%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLN--TGRTSESGKDIIYIGLEDVESGTGKYLPKD 67
           YK S    IG IPK W++  I     +N    + +++  +I ++ +ED+ S   K +   
Sbjct: 203 YKPSS---IGEIPKDWELKRIDDVCNINPQKEKIADTDTEISFLTMEDI-SNDAKIINLR 258

Query: 68  GNSRQSDTSTVSIFAKGQILYGKLGPYLRKA------IIADFDGICSTQFLVLQPKDV-L 120
                  +S  + F +  ++  K+ P            + +  G  ST+F +L+ KD  L
Sbjct: 259 ERKYSEVSSGFTSFRENDVIVAKITPCFENGKGALAQNLKNSIGFGSTEFHILRAKDEVL 318

Query: 121 PELLQGWLLSIDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
           P+ +     +       E    G+        + +    + IPPL EQ  I E +     
Sbjct: 319 PKYIYYHTTNKLFRTLGEWNMTGSAGQKRVPKEFLEGFKIGIPPLTEQRKIVEILDGLEN 378

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVTK 209
            I  + +      ++ +E    L      +
Sbjct: 379 VISNIESNIKNTKKVKEELLIFLFDPKFYQ 408



 Score = 54.8 bits (130), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 29/189 (15%), Positives = 68/189 (35%), Gaps = 8/189 (4%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIV-DP 288
           D W + PF  +   ++++           +   ++  K         PE  +  ++V  P
Sbjct: 13  DGWRLVPFKLMAEHISKRVEPKETKLKYYIGLEHLDSKTLKIKRHGTPEDVQGTKLVAKP 72

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA 348
           G+I+F        K ++     +      S  +  +   I    L + M+S +       
Sbjct: 73  GDIIFGKRRAYQGKVAICEWDAIVSA--HSMVLRAQEEVIIKELLPFFMQSQEFYNRSLK 130

Query: 349 MGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
           +  G    ++K++ +     ++PP   Q DI   +N     I+     +E+++      +
Sbjct: 131 ISEGSLSPTIKWKVLAEEKFIIPPKNIQRDIIEKLNATEDNINCKEILLEKTLK----YK 186

Query: 408 SSFIAAAVT 416
              +   +T
Sbjct: 187 EKLVNKLLT 195


>gi|170025888|ref|YP_001722393.1| restriction modification system DNA specificity subunit [Yersinia
           pseudotuberculosis YPIII]
 gi|169752422|gb|ACA69940.1| restriction modification system DNA specificity domain [Yersinia
           pseudotuberculosis YPIII]
          Length = 410

 Score =  110 bits (275), Expect = 4e-22,   Method: Composition-based stats.
 Identities = 60/418 (14%), Positives = 135/418 (32%), Gaps = 40/418 (9%)

Query: 20  AIPK--------HWKVVPIKRFTKLNTGRTSESGKD---------IIYIGLEDVESGTGK 62
            +P+         W+   +    ++  G +    +D         + ++ + DV    G+
Sbjct: 6   KVPEIRFKGFGGEWEDKVLGELAEIVRGASPRPIEDPKWFDSQSSVGWLRIRDVTEQDGR 65

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPE 122
               +    +       +  +  +L        +  +     G+     +  +P   L  
Sbjct: 66  IHYLEQRISKLGQEKTRVLHEKHLLLSIAASVGKPVVNYVETGVHDGFLIFKKPLFEL-- 123

Query: 123 LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
               +        + +   +  +  + +   + +  + IP   EQ  I          I+
Sbjct: 124 -EFMYQWLKSFEAKWQQFGQPGSQVNLNSDIVKSQVVAIPTNEEQTTIGNYFQKLDSLIN 182

Query: 183 TLITERIRFIELLKEKKQALVSYIVTKGLN--PDVKMKDSGIEWVGLVPDHWEVKPFFAL 240
                  +  + L   K+A++  +  K     P+++ K    EW      +  +      
Sbjct: 183 QH----QQKHDKLSSIKKAMLEKMFPKQGETMPEIRFKGFSGEWN-----YLALGENAKF 233

Query: 241 VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDP--GEIVFRFIDL 298
                     L+ S    + YG +  K +T   G+     E  + V    GE++      
Sbjct: 234 TKGQGYSKGDLVTSGSPIILYGRLYTKYQTVITGVDTFVTEKNKSVKSIGGEVIVPASGE 293

Query: 299 QNDKRSLRSAQVMERGIITSAY-MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQS 356
             +  S  S       II     + +    I ST+LA  + +  L K   +   G     
Sbjct: 294 SPEDISRASVVSEPNVIIGGDLNIVLPSKKIHSTFLALAISNGHLKKKLSSKAQGKSVVH 353

Query: 357 LKFEDVKRLPVLVPP-IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           ++  D+  L +++P    EQ  I N       ++D L+ + +Q I  L   + + ++ 
Sbjct: 354 IRNSDLADLDLILPTEYMEQTAIGNY----FQKLDELINQHQQQISKLNNIKQACLSK 407


>gi|167620604|ref|ZP_02389235.1| Restriction modification system DNA specificity domain
           [Burkholderia thailandensis Bt4]
          Length = 392

 Score =  110 bits (275), Expect = 4e-22,   Method: Composition-based stats.
 Identities = 54/413 (13%), Positives = 137/413 (33%), Gaps = 46/413 (11%)

Query: 29  PIKRFTKLNTGRTSESGK------DIIYIGLEDV----ESGTGKYLPKDGNSRQSDTSTV 78
            +     +  G T + G       + IY+ + D+     S   +      +S        
Sbjct: 8   RLGDIADVQQGYTFKPGYQGQSSGEWIYVKVADIGSPASSKYLRKSQNYVSSEVLREMRA 67

Query: 79  SIFAKGQILYGKLGPYLRKAI--IADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
           + F  G I++ ++G  LR     I   + +     +V+  +D      +      D    
Sbjct: 68  TPFPAGSIVFPRVGAALRNNNKRILAENSLTDDNVIVVTVRDTQICDPEYLYYWFDFHDL 127

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
            +  C   T+   + + +    + +P +A Q +    +      ++ +     R I+  +
Sbjct: 128 QD-FCNAGTVPVINGRNLKIQEVMLPSIAIQRVTASALSTWDAALEKI----QRLIDAKE 182

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
            + + L+  ++ K L                       +   AL   ++ +N   +    
Sbjct: 183 RRHRGLLIRLLGKRL-----------------WSDCRHERADALFASVSERNQPELPVLA 225

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
           ++   G + + +  R + ++      +++V   + V      Q              G++
Sbjct: 226 VTQDQGVVPRTMLDRRITMELSDPANFKVVRKDDFVISLRSFQG-----GLEHSEYDGLV 280

Query: 317 TSAYMAVKPHGIDSTYLA-WLMRSYDLCKVFYAMGSGLR--QSLKFEDVKRLPVLVPPIK 373
           + AY  ++             ++S D  K       G+R  + + F D   + + +P   
Sbjct: 281 SPAYTVLRGQPALYPPFYRHYLKSPDFLKRLAVAVVGIRDGKQIAFTDFASIKLPLPAFD 340

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
            Q  I  V++         +  ++Q    L+ ++   +   +TG+  +    +
Sbjct: 341 LQTKIAAVLDESEDE----IALMKQQAGKLRTQKRGLMQKLLTGKWRVPVPEE 389


>gi|289667520|ref|ZP_06488595.1| Type I restriction enzyme StySPI specificity protein [Xanthomonas
           campestris pv. musacearum NCPPB4381]
          Length = 495

 Score =  110 bits (275), Expect = 4e-22,   Method: Composition-based stats.
 Identities = 66/457 (14%), Positives = 135/457 (29%), Gaps = 63/457 (13%)

Query: 20  AIPKHWKVVPIKRF---------TKLNTGRTSESGKDIIYIGLEDV-ESGTGKYLPKDGN 69
            +P+ W    +                  +  +       + L D+ +        +  N
Sbjct: 7   ELPQGWAFASLNELQAQGGIFADGDWIESKDQDPNGRNRLLQLADIGDRRFIDKSSRYVN 66

Query: 70  SRQSDTSTVSIFAKGQILYGKL-----GPYLRKAIIADFDGICSTQFLVLQPKDVLPELL 124
               D    +   +G IL  ++        L   +      +          +D+    L
Sbjct: 67  DETFDRLNCTALEEGDILLARMPDPLGRACLMPRLPQRCLTVVDVAVFRSGSRDISHRWL 126

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
              L +  + + I     G T        +  + +P+PP AEQ  I +K+ A   ++DTL
Sbjct: 127 MHTLNASPIREEISRNASGTTRKRIARGKLAELKVPVPPAAEQKRIAQKLDALLAQVDTL 186

Query: 185 ITERIRFIELLKEKKQALVSYIVTKGLNPDV---------------------KMKDSGIE 223
                    LLK  +Q+++    +  L  +                        + SG +
Sbjct: 187 KARIDAIPALLKRFRQSVLESAFSGELTAEWRQLHPDTKAASITDVRQAWRDHYQRSGRK 246

Query: 224 ---------WVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMG 274
                     +              ++ ++    T   +         + +   E     
Sbjct: 247 FAPPNLDPTNLRDDLPPTWQATQIGIIFDVFVGATPARDRTDFWKGSISWVSSAEVAFCR 306

Query: 275 LKPESYE---------TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
           ++    +         +  +  PG ++   I     +       +       +A + V  
Sbjct: 307 IRSTKEKITEAGYSATSTNLHPPGTVMLAMIGQGKTRGQPAILAIDACHNQNTAALRVHD 366

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
                 YL + +      +     G G  +Q+L  + V+ LP  + P+ EQ +I   +  
Sbjct: 367 EYCVPEYLYYYLWGKY--EETRRFGGGNNQQALNKKSVQSLPFPLAPLAEQTEIVRRVEQ 424

Query: 385 ETARIDVLVEK---IEQSIVLLKERRSSFIAAAVTGQ 418
             A  D L  K    +Q I  L     S +A A  G+
Sbjct: 425 LFACADQLEAKVAAAQQRIDALT---QSLLAKAFRGE 458



 Score = 59.4 bits (142), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 28/200 (14%), Positives = 62/200 (31%), Gaps = 8/200 (4%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD------IIYIGLEDVESGTGKYLPKDGNSRQS 73
            +P  W+   I     +  G T    +       I ++   +V     +   +       
Sbjct: 260 DLPPTWQATQIGIIFDVFVGATPARDRTDFWKGSISWVSSAEVAFCRIRSTKEKITEAGY 319

Query: 74  DTSTVSIFAKGQILYGKLGP--YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
             ++ ++   G ++   +G      +  I   D   +     L+  D        +    
Sbjct: 320 SATSTNLHPPGTVMLAMIGQGKTRGQPAILAIDACHNQNTAALRVHDEYCVPEYLYYYLW 379

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
              +       G      + K + ++P P+ PLAEQ  I  ++       D L  +    
Sbjct: 380 GKYEETRRFGGGNNQQALNKKSVQSLPFPLAPLAEQTEIVRRVEQLFACADQLEAKVAAA 439

Query: 192 IELLKEKKQALVSYIVTKGL 211
            + +    Q+L++      L
Sbjct: 440 QQRIDALTQSLLAKAFRGEL 459


>gi|86143515|ref|ZP_01061900.1| type I restriction-modification system specificity subunit
           [Leeuwenhoekiella blandensis MED217]
 gi|85829962|gb|EAQ48423.1| type I restriction-modification system specificity subunit
           [Leeuwenhoekiella blandensis MED217]
          Length = 502

 Score =  110 bits (275), Expect = 4e-22,   Method: Composition-based stats.
 Identities = 55/468 (11%), Positives = 124/468 (26%), Gaps = 74/468 (15%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           + W    +    KL  G   +S K     I  I + D++                +  + 
Sbjct: 3   EDWVECTLGSLLKLKNGYAFKSSKYQKDGIPVIRIGDIQDWNVDIENAKRIDDNIEYDS- 61

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV---LPELLQGWLLSIDVTQ 135
            I  KG IL    G    K  I + D        V         L      + L   + +
Sbjct: 62  HIVNKGDILIAMSGATTGKFGIYNSDKKAYQNQRVGNLIPHSEELTSNNYIYYLLYSLKR 121

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPP-------------------------------- 163
            IE    G    +     I  +   + P                                
Sbjct: 122 DIEQQAYGGAQPNISATKIEALKTKLFPLPIQQAIVKKIEELFSSLDSGIADLKKAQDQL 181

Query: 164 -LAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDS-- 220
            +  Q ++++    +  +        +   E L ++ +        + L    +   S  
Sbjct: 182 KIYRQAVLKKAFEGKLTKEWREKQTELPTAEELLKEIKKERQKHYEQQLAKWKEAVISWE 241

Query: 221 ---------------------GIEWVGLVPDHWEVKPFFALVTELNRKNTK--------- 250
                                 IE + ++P+ W  +    +  ++               
Sbjct: 242 NNDKEGKKPGKPGKIKEFELNEIEELPIIPNTWAWEKLGNVCLKIMDGTHFSPKNIEKGD 301

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
                  ++  G I  +  +       E+      V  G++++        + ++ + + 
Sbjct: 302 FKYITAKNIKEGRIDLRNISYVTQEDHEAIFGRCDVKKGDVLYIKDGATTGRAAVNTLEE 361

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLV 369
               + +          I+  +L   + +        +  +G     L    +      +
Sbjct: 362 EFSLLSSVGVFRTIKSFINPKFLESFLNAQVTRNRMLSNIAGVAITRLTLVKLNNSMFSL 421

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
             ++EQ  I   I    +  D + + I+ S+   +  R S +  A  G
Sbjct: 422 CSVEEQHQIVQEIESRLSVCDAVEQNIQDSLEKAQALRQSILKKAFEG 469



 Score = 91.8 bits (226), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 25/194 (12%), Positives = 61/194 (31%), Gaps = 2/194 (1%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY--Q 284
                  +     L      K++K  +  I  +  G+I           + +    Y   
Sbjct: 3   EDWVECTLGSLLKLKNGYAFKSSKYQKDGIPVIRIGDIQDWNVDIENAKRIDDNIEYDSH 62

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCK 344
           IV+ G+I+         K  + ++            +      + S    + +       
Sbjct: 63  IVNKGDILIAMSGATTGKFGIYNSDKKAYQNQRVGNLIPHSEELTSNNYIYYLLYSLKRD 122

Query: 345 VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLK 404
           +      G + ++    ++ L   + P+  Q  I   I    + +D  +  ++++   LK
Sbjct: 123 IEQQAYGGAQPNISATKIEALKTKLFPLPIQQAIVKKIEELFSSLDSGIADLKKAQDQLK 182

Query: 405 ERRSSFIAAAVTGQ 418
             R + +  A  G+
Sbjct: 183 IYRQAVLKKAFEGK 196



 Score = 65.2 bits (157), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 32/209 (15%), Positives = 69/209 (33%), Gaps = 11/209 (5%)

Query: 14  GVQWIGAIPKHWKVVPIKRFT-KLNTGRTSESGK----DIIYIGLEDVESGTGKY--LPK 66
            ++ +  IP  W    +     K+  G           D  YI  ++++ G      +  
Sbjct: 263 EIEELPIIPNTWAWEKLGNVCLKIMDGTHFSPKNIEKGDFKYITAKNIKEGRIDLRNISY 322

Query: 67  DGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIA----DFDGICSTQFLVLQPKDVLPE 122
                           KG +LY K G    +A +     +F  + S          + P+
Sbjct: 323 VTQEDHEAIFGRCDVKKGDVLYIKDGATTGRAAVNTLEEEFSLLSSVGVFRTIKSFINPK 382

Query: 123 LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
            L+ +L +     R+ +   G  ++      + N    +  + EQ  I ++I +     D
Sbjct: 383 FLESFLNAQVTRNRMLSNIAGVAITRLTLVKLNNSMFSLCSVEEQHQIVQEIESRLSVCD 442

Query: 183 TLITERIRFIELLKEKKQALVSYIVTKGL 211
            +       +E  +  +Q+++       L
Sbjct: 443 AVEQNIQDSLEKAQALRQSILKKAFEGTL 471


>gi|291277030|ref|YP_003516802.1| putative type I restriction-modification system S protein
           [Helicobacter mustelae 12198]
 gi|290964224|emb|CBG40073.1| putative type I restriction-modification system S protein
           [Helicobacter mustelae 12198]
          Length = 428

 Score =  110 bits (275), Expect = 4e-22,   Method: Composition-based stats.
 Identities = 47/418 (11%), Positives = 121/418 (28%), Gaps = 38/418 (9%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           P   +   +    +    +T ++ +         + SG   Y      +   +       
Sbjct: 13  PHGVEFRKLGEVCEFQNKKTLKTSEVKNNGKYPVINSGRDLYGYYHDFNNDGEN------ 66

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFL---VLQPKDVLPELLQGWLLSIDVTQRIE 138
               I     G Y       +             V     +L + L  +L + +      
Sbjct: 67  ----ITIASRGEYAGFVNYFNEKFFAGGLCYPYKVKNSNKLLTKFLYFYLKANESQIMEN 122

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
            +  G ++   +   I  +P+P+PPL  Q  I + +   T     L TE     +  +  
Sbjct: 123 LVIRG-SIPALNKADIETLPIPLPPLEVQREIVKILDTFTELNTELNTELKLRKKQYEYY 181

Query: 199 KQALVS--------YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPF-----------FA 239
           +  L+S            + L      K      + L P   E +             + 
Sbjct: 182 RNWLLSFGDVDASKEGAEQRLRNKSYPKALKALLLSLCPHGVEFRKLGEVGEYIRGVTYR 241

Query: 240 LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQ 299
              E+N +   +      +++  N +   + + +    +  +   +     ++       
Sbjct: 242 KSQEINGQGCGIKVLRANNITLSNHLNFEDIKTIDKSVKIRKEQYLKKNDILICAGSGSS 301

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM-GSGLRQSLK 358
                +         +       ++   ++S ++  +  S    +       +    +L 
Sbjct: 302 EHIGKVAFIDANSDYVFGGFMGVIRIRELNSRFVYHVFTSNIFKQYLEKSLNTTTINNLN 361

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
              ++   + +PP++ Q +I  +++  +   + L   I   I   K+     R   + 
Sbjct: 362 ANVLQNFKIPLPPLEVQREIVKILDDFSTLTEDLSSGIPAEIAARKKQYEYYRDKLLT 419



 Score = 66.0 bits (159), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 27/185 (14%), Positives = 63/185 (34%), Gaps = 9/185 (4%)

Query: 228 VPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVD 287
            P   E +    +    N+K  K  E             K    N G     Y      D
Sbjct: 12  CPHGVEFRKLGEVCEFQNKKTLKTSEVK--------NNGKYPVINSGRDLYGYYHDFNND 63

Query: 288 PGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY 347
              I            +  + +    G+    Y     + + + +L + +++ +   +  
Sbjct: 64  GENITIASRGEYAGFVNYFNEKFFAGGLCYP-YKVKNSNKLLTKFLYFYLKANESQIMEN 122

Query: 348 AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
            +  G   +L   D++ LP+ +PP++ Q +I  +++  T     L  +++      +  R
Sbjct: 123 LVIRGSIPALNKADIETLPIPLPPLEVQREIVKILDTFTELNTELNTELKLRKKQYEYYR 182

Query: 408 SSFIA 412
           +  ++
Sbjct: 183 NWLLS 187


>gi|317177321|dbj|BAJ55110.1| Type I restriction-modification system specificity subunit
           [Helicobacter pylori F16]
          Length = 422

 Score =  110 bits (275), Expect = 4e-22,   Method: Composition-based stats.
 Identities = 49/396 (12%), Positives = 119/396 (30%), Gaps = 15/396 (3%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPKDGNSRQSD 74
           PK  +   ++   ++  G T             I +  +ED+            +     
Sbjct: 13  PKGVEFKTLEEVFEIKNGYTPSKNNPEFWEKGTIPWFRMEDIRENGRILKDSIQHITPKA 72

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL---PELLQGWLLSI 131
                +F K  I+          A++   D + + QF  L  K       ++   +    
Sbjct: 73  LKGKKLFPKNSIIISTTATIGEHALLI-VDSLANQQFTFLSKKANCGIALDMKFFFYQCF 131

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            + +  +     +  +  D         PIPPL  Q  I + + A T     L TE    
Sbjct: 132 LLGEWCKKNTNVSGFASVDMTAFKKYKFPIPPLEIQQEIVKILDAFTELNTELNTELNTE 191

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           ++  K++ Q   + ++       +       +                L  +        
Sbjct: 192 LKARKKQYQYYQNMLLDF---KGINQNHKDAKMSAKPYPKRLKTLLQTLAPKGVEFRKLG 248

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
               I+        + L+     +          ++        I +     +       
Sbjct: 249 EVCEIIRGKRVTKKEILDKGKYPVVSGGIGFMGYLNEYNREENTITIAQYGTAGFVNWQN 308

Query: 312 ERGIITSAYMAVKPHGID-STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP 370
           ++        +V P     + YL +++ +        +  S +  S+   ++ ++ + +P
Sbjct: 309 QKFWANDVCFSVIPKETLINRYLYYVLTNMQNYLYSISNRSAIPYSISSNNIMQITIPIP 368

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
           P++ Q +I  +++  +     L+  I   I   K++
Sbjct: 369 PLEIQQEIVKILDQFSILTTDLLAGIPAEIEARKKQ 404



 Score = 57.9 bits (138), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 22/191 (11%), Positives = 56/191 (29%), Gaps = 17/191 (8%)

Query: 229 PDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMG---------LKPES 279
           P   E K    +    N                    +  + R  G         + P++
Sbjct: 13  PKGVEFKTLEEVFEIKNGYTPSKNNPEFWEKGTIPWFRMEDIRENGRILKDSIQHITPKA 72

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
            +  ++     I+        +   L    +  +      +++ K +   +  + +    
Sbjct: 73  LKGKKLFPKNSIIISTTATIGEHALLIVDSLANQQFT---FLSKKANCGIALDMKFFFYQ 129

Query: 340 YDLCKVFYAMGS--GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
             L   +    +      S+     K+    +PP++ Q +I  +++  T     L  ++ 
Sbjct: 130 CFLLGEWCKKNTNVSGFASVDMTAFKKYKFPIPPLEIQQEIVKILDAFTELNTELNTELN 189

Query: 398 QSIVLLKERRS 408
                LK R+ 
Sbjct: 190 TE---LKARKK 197


>gi|319642843|ref|ZP_07997481.1| type I restriction enzyme EcoR124II specificity protein
           [Bacteroides sp. 3_1_40A]
 gi|317385587|gb|EFV66528.1| type I restriction enzyme EcoR124II specificity protein
           [Bacteroides sp. 3_1_40A]
          Length = 484

 Score =  110 bits (275), Expect = 4e-22,   Method: Composition-based stats.
 Identities = 61/411 (14%), Positives = 129/411 (31%), Gaps = 41/411 (9%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            +P  W    ++    + +G T +        + YI + ++ +    +        +   
Sbjct: 71  ELPNSWVWCRLEDIAYVASGSTPDKTCFVENGVPYIKMYNLRNQKIDFAYHPQYITEEVH 130

Query: 76  STV---SIFAKGQILYGKLGPYLRKAIIAD---FDGICSTQFLVLQPKDVLPELLQGWLL 129
           +     S    G ++   +GP L K  I          +   ++++P      L+    +
Sbjct: 131 NGKLQRSRTEVGDLIMNIVGPPLGKLAIIPTTLPQANFNQAAVLIRPYKFKEVLVSYLKV 190

Query: 130 SIDVTQRIEAICE--GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
            ++    I +I     A   +       N+ +PIPPL E   I E++    + ID+L   
Sbjct: 191 YLEEMSEINSIATRGSAGQVNISLTQSQNMRIPIPPLNEVRRIIEEVSKYDILIDSLKQN 250

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWV----------------GLVPDH 231
                 L+   K  ++   +   L P     +  IE +                  VP  
Sbjct: 251 ITDIQNLIAYTKSKILDLAIHGKLVPQDPNDEPAIELLKRINPDFTPCDNGHYTFDVPSG 310

Query: 232 WEVKPFFALVT-----------ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
           W      ++               +          I  LS   ++      +        
Sbjct: 311 WITTNLGSIFNVVSAKRILKSDWKHSGVPFYRAREIAKLSIYGLVDNELYISEEHYNSLK 370

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY 340
           E + +    +I+   +        ++ +        +        + I++ Y+  +MRS 
Sbjct: 371 EKFPVPKASDIMISAVGTIGKCYIVKESDKFYYKDAS-VLCLCNDYQINAKYIYHIMRSE 429

Query: 341 DLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
            + K  Y    G    ++  E  K+  + +PP+ EQ  I   I    +  D
Sbjct: 430 YMLKQMYDNSKGTTVDTITIEKAKQYILPLPPLAEQQRIVAKIEETFSIFD 480



 Score = 64.0 bits (154), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 23/194 (11%), Positives = 60/194 (30%), Gaps = 12/194 (6%)

Query: 227 LVPDHWEVKPFFALVTELNRKNT---KLIESNILSLSYGNIIQKLETRNMGLKPESYETY 283
            +P+ W       +    +         +E+ +  +   N+  +        +  + E +
Sbjct: 71  ELPNSWVWCRLEDIAYVASGSTPDKTCFVENGVPYIKMYNLRNQKIDFAYHPQYITEEVH 130

Query: 284 Q------IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI--DSTYLAW 335
                    + G+++   +     K ++    + +     +A +           +YL  
Sbjct: 131 NGKLQRSRTEVGDLIMNIVGPPLGKLAIIPTTLPQANFNQAAVLIRPYKFKEVLVSYLKV 190

Query: 336 LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
            +            GS  + ++     + + + +PP+ E   I   ++     ID L + 
Sbjct: 191 YLEEMSEINSIATRGSAGQVNISLTQSQNMRIPIPPLNEVRRIIEEVSKYDILIDSLKQN 250

Query: 396 IEQSIVLLKERRSS 409
           I   I  L     S
Sbjct: 251 ITD-IQNLIAYTKS 263


>gi|206603725|gb|EDZ40205.1| Putative Type I restriction modification system, specificity
           protein [Leptospirillum sp. Group II '5-way CG']
          Length = 533

 Score =  110 bits (275), Expect = 4e-22,   Method: Composition-based stats.
 Identities = 57/436 (13%), Positives = 131/436 (30%), Gaps = 39/436 (8%)

Query: 17  WI--GAIPKHWKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKYLPKDGNS 70
           W+     P +W   P+    K   G               I + ++++G    + +    
Sbjct: 107 WLYHPDFPNNWIRTPLYSLAKWINGLAFRELQFCSSGKPVIKIAEIKNG----ISEQTKF 162

Query: 71  RQSDTSTVSIFAKGQILYGKLG---PYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW 127
                       KG +L+   G     +        +G  +     + P + +  +   +
Sbjct: 163 TNQSFDQSLHIKKGDLLFSWSGQPETSIDAFWWHGPNGWLNQHIYRVLPIENIDRIFFFY 222

Query: 128 --LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
                      I    +   + H   + +  I    PPL+EQ  I   +     +I+   
Sbjct: 223 LLRYLKPNFIAIARNKQTTGLGHVTKRDLEKIEAAYPPLSEQCAIAHILGTLDDKIELNR 282

Query: 186 TERIRFIELLKEKKQALVSYIVT---------KGLNPDV---KMKDSGIEWVGLVPDHWE 233
                   + +    +                 GL  ++            +G +P  W 
Sbjct: 283 RMNETLEAMAQAIFNSWFVNFDPVRAKMEGRLTGLPKEIADLFPDSFEDSDLGEIPRGWR 342

Query: 234 VKPFFALV-TELNRKNTKLIESNILSLSYGNIIQK-LETRNMGLKPESYETYQIVDPGEI 291
           +                  I+     ++  ++ ++ +      +  E        + G+I
Sbjct: 343 IGTLGEFATRSRQSIRPNEIKEGTPYIALEHMPRRCISLFEWKMADEVESNKFEFNKGDI 402

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW-LMRSYDLCKVFYAMG 350
           +F  +     K  +        G+ ++  + + P   +        + S    +      
Sbjct: 403 LFGKLRSYFHKVGVAPV----NGVCSTDILVIAPQKQELFGFVLGHVSSDSFVQYTDLGA 458

Query: 351 SGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
           SG R     +E++KR  ++VPPI      ++ I     +I  L    E     L   R +
Sbjct: 459 SGTRMPRTNWENMKRYSLVVPPISVSEVFSSKIGPLVEKI--LSNVHESK--TLSCLRDA 514

Query: 410 FIAAAVTGQIDLRGES 425
            +   ++G+I ++ +S
Sbjct: 515 LLHKLLSGEIKVQPDS 530



 Score = 71.7 bits (174), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 47/200 (23%), Positives = 78/200 (39%), Gaps = 8/200 (4%)

Query: 8   PQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES--GKDIIYIGLEDVESGTGKYLP 65
             ++DS    +G IP+ W++  +  F   +      +   +   YI LE +         
Sbjct: 327 DSFEDSD---LGEIPRGWRIGTLGEFATRSRQSIRPNEIKEGTPYIALEHMPRRCISLFE 383

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP-KDVLPELL 124
                     S    F KG IL+GKL  Y  K  +A  +G+CST  LV+ P K  L   +
Sbjct: 384 --WKMADEVESNKFEFNKGDILFGKLRSYFHKVGVAPVNGVCSTDILVIAPQKQELFGFV 441

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
            G + S    Q  +    G  M   +W+ +    + +PP++   +   KI     +I + 
Sbjct: 442 LGHVSSDSFVQYTDLGASGTRMPRTNWENMKRYSLVVPPISVSEVFSSKIGPLVEKILSN 501

Query: 185 ITERIRFIELLKEKKQALVS 204
           + E      L       L+S
Sbjct: 502 VHESKTLSCLRDALLHKLLS 521



 Score = 68.7 bits (166), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 23/195 (11%), Positives = 63/195 (32%), Gaps = 10/195 (5%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI--LSLSYGNIIQKLETRNMGLKPE 278
           G  +    P++W   P ++L   +N    + ++       +     I+   +       +
Sbjct: 106 GWLYHPDFPNNWIRTPLYSLAKWINGLAFRELQFCSSGKPVIKIAEIKNGISEQTKFTNQ 165

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
           S++    +  G+++F +                  G +      V P         + + 
Sbjct: 166 SFDQSLHIKKGDLLFSWSGQPETSIDAFW-WHGPNGWLNQHIYRVLPIENIDRIFFFYLL 224

Query: 339 SY---DLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
            Y   +   +     +     +   D++++    PP+ EQ  I +++      +D  +E 
Sbjct: 225 RYLKPNFIAIARNKQTTGLGHVTKRDLEKIEAAYPPLSEQCAIAHILGT----LDDKIEL 280

Query: 396 IEQSIVLLKERRSSF 410
             +    L+    + 
Sbjct: 281 NRRMNETLEAMAQAI 295


>gi|210623095|ref|ZP_03293582.1| hypothetical protein CLOHIR_01532 [Clostridium hiranonis DSM 13275]
 gi|210153898|gb|EEA84904.1| hypothetical protein CLOHIR_01532 [Clostridium hiranonis DSM 13275]
          Length = 632

 Score =  110 bits (275), Expect = 4e-22,   Method: Composition-based stats.
 Identities = 58/407 (14%), Positives = 133/407 (32%), Gaps = 36/407 (8%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           P   +   +    ++ TG+                 +  GKY    G         +S  
Sbjct: 13  PNGVEYKYLGDICEIKTGKGITKKD----------ITENGKYPIISGGKEPMGLYHLSNR 62

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELL---QGWLLSIDVTQRIE 138
               +   ++G         + D   + +   + P     + +     +    +  ++I 
Sbjct: 63  KANTVTISRVGANSGFVNYIEVDFYLNDKCFSIIPISKYEKKIDSKYIYEYLKNNEEKIS 122

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
           A+     +   + K + +I + +PPL  Q  I   + + T+    LI E    +   K++
Sbjct: 123 AMQSEGGVPTINTKKVSSIAIAVPPLEVQREIVRILDSFTLLTKELIKELAAELTARKKQ 182

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
            +   + +++  +      K + I  +                 +   +  +     I  
Sbjct: 183 YEYYRNELISINIVKSNVSKLNEIAEI----------------YDGTHQTPEYKSKGIPF 226

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
           +S  N I  + + N  +  E+Y  Y+I    + +F        K ++ +        ++ 
Sbjct: 227 ISVEN-IDDIYSSNKFISEEAYSKYKIKPQVDDLFMTRIGSIGKCAIMTQPKDLAYYVSL 285

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQF 376
           A +      +D  YL   + S    K          +   +  +D+ ++ +  P I  Q 
Sbjct: 286 ALIRPNKKLLDVRYLKHYIESSLGTKELAKRTLHHAVPIKINKDDIGKIVIKYPTIDIQR 345

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIAAAVTGQI 419
            I +V++   A    L   +   I   ++     R   +  A TG+I
Sbjct: 346 RIADVLDNFDAICSDLKIGLPAEIEARQKQYEYYRDLLLTFAETGKI 392



 Score = 94.1 bits (232), Expect = 4e-17,   Method: Composition-based stats.
 Identities = 56/436 (12%), Positives = 133/436 (30%), Gaps = 53/436 (12%)

Query: 26  KVVPIKRFTKLNTG--RTSE-SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            V  +    ++  G  +T E   K I +I +E+++         +    +   S   I  
Sbjct: 199 NVSKLNEIAEIYDGTHQTPEYKSKGIPFISVENID----DIYSSNKFISEEAYSKYKIKP 254

Query: 83  K-GQILYGKLGPYLRKAII---ADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           +   +   ++G   + AI+    D     S   +    K +    L+ ++ S   T+ + 
Sbjct: 255 QVDDLFMTRIGSIGKCAIMTQPKDLAYYVSLALIRPNKKLLDVRYLKHYIESSLGTKELA 314

Query: 139 AICEGATMSH-ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI--------------DT 183
                  +    +   IG I +  P +  Q  I + +                       
Sbjct: 315 KRTLHHAVPIKINKDDIGKIVIKYPTIDIQRRIADVLDNFDAICSDLKIGLPAEIEARQK 374

Query: 184 LITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSG---------------IEWVGLV 228
                   +    E  + + +   T         + +                I  +   
Sbjct: 375 QYEYYRDLLLTFAETGKIIATDRQTDRQTDRQTDRQTDRQTDRQTDRQTDRQAIIKLIQY 434

Query: 229 PDHWEVKPFFALVTELNRKN---TKLIESNILSLSYGNIIQKLETRNMG----LKPESYE 281
              +       + T     N      +E+    + YG I       +      +  E +E
Sbjct: 435 VFGYCPVKLDDIATISRGGNLQKKDFVENGKPCIHYGQIYTHFGVSSDKTLTFVNDEVFE 494

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD 341
             +    G+IV        +     +A + +  I  S + A+  H  ++ Y+++  RS  
Sbjct: 495 KSKTAKTGDIVMAVTSENIEDVCSCTAWLGDEEIAVSGHTAIIKHNQNAKYMSYFFRSSS 554

Query: 342 LCKVFYAMGSGLRQ-SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
                  +  G +   +    +  + +++P I+EQ  I ++++   +  + +   I   I
Sbjct: 555 FFGQKKKLAHGTKVIEVTPSKLGGIEIMLPSIEEQERIVSILDRFDSLCNDITSGIPAEI 614

Query: 401 VLLKE----RRSSFIA 412
              ++     R   + 
Sbjct: 615 EARQKQYEYYRDKLLT 630



 Score = 61.7 bits (148), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 24/190 (12%), Positives = 61/190 (32%), Gaps = 14/190 (7%)

Query: 228 VPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVD 287
            P+  E K    +      K     +             K    + G +P          
Sbjct: 12  CPNGVEYKYLGDICEIKTGKGITKKD--------ITENGKYPIISGGKEPMGLYHLSNRK 63

Query: 288 PGEIVFRFIDL-QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF 346
              +    +         +     +     +   ++     IDS Y+   +++ +  K+ 
Sbjct: 64  ANTVTISRVGANSGFVNYIEVDFYLNDKCFSIIPISKYEKKIDSKYIYEYLKNNE-EKIS 122

Query: 347 YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE- 405
                G   ++  + V  + + VPP++ Q +I  +++  T     L++++   +   K+ 
Sbjct: 123 AMQSEGGVPTINTKKVSSIAIAVPPLEVQREIVRILDSFTLLTKELIKELAAELTARKKQ 182

Query: 406 ---RRSSFIA 412
               R+  I+
Sbjct: 183 YEYYRNELIS 192


>gi|15839315|ref|NP_300003.1| type I restriction-modification system specificity determinant
           [Xylella fastidiosa 9a5c]
 gi|9107962|gb|AAF85511.1|AE004079_2 type I restriction-modification system specificity determinant
           [Xylella fastidiosa 9a5c]
          Length = 409

 Score =  110 bits (275), Expect = 4e-22,   Method: Composition-based stats.
 Identities = 49/412 (11%), Positives = 114/412 (27%), Gaps = 33/412 (8%)

Query: 22  PKHWKVVPIKRFTKLNTG----RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT-S 76
           P       I    +L  G    ++      I  I    + +  G +  +  +        
Sbjct: 13  PNGVDYKAIGDLGELVRGNGMPKSDFVDSGIGCIHYGQIYTYYGIWTTRTKSFVSLSKAE 72

Query: 77  TVSIFAKGQILYGKLGP----YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
            ++    G ++            +         I +     +   D  P+ L  +L +  
Sbjct: 73  KLAKVDPGDLVITNTSENVEDVCKAVAWIGEVQIVTGGHATVLKHDQDPKYLSYYLQTPQ 132

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
            +   +    G  +     K +  I +P+PPL  Q  I + +   T     L  E     
Sbjct: 133 FSVEKKKHATGTKVIDVSAKSLAKIKIPVPPLEVQRQIVKVLDTFTTLEAELEAELEARR 192

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
              +  + AL+     +G +   +++      +G +          +             
Sbjct: 193 RQYQYYRDALLR--FEEGTDAATRVR---WMTLGEI------CKSVSSGGTPLSTRADYY 241

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPES---YETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
             +I  L    +             E        + +    I+         + ++    
Sbjct: 242 GGDIPWLRTQEVRYTDILDTEIKITEKGLKESAAKWIPANCIIVAISGATAARSAINKIP 301

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
           +            ++     + Y           +   A+G G R  L    +K   + +
Sbjct: 302 LT----TNQHCCNLEVDSTQANYRYVFHWVSKEYERLKALGQGARADLNSGIIKNYKIPI 357

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA--AAV 415
           PP++ Q  I  V++     ++ +   +   I   ++     R   +    AV
Sbjct: 358 PPLEVQARIVAVLDQFDTLVNDITAGLPAEIAARRQQYAYYRDRLLTFKEAV 409


>gi|87124163|ref|ZP_01080013.1| type I site-specific deoxyribonuclease (specificity subunit)
           [Synechococcus sp. RS9917]
 gi|86168732|gb|EAQ69989.1| type I site-specific deoxyribonuclease (specificity subunit)
           [Synechococcus sp. RS9917]
          Length = 128

 Score =  110 bits (275), Expect = 4e-22,   Method: Composition-based stats.
 Identities = 36/110 (32%), Positives = 60/110 (54%), Gaps = 2/110 (1%)

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCK--VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
                    I S +L +L RS    +       G+G ++ +    V+     +P I+EQ 
Sbjct: 13  IVTRPVKEKITSEFLDYLFRSQTFRRLGESEMYGAGGQKRVPDSFVRDFTSALPSIEEQS 72

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
            +T  ++ ET +ID L+ + ++ I LL+ERRS+ I+A VTGQID+RG ++
Sbjct: 73  QVTRFLDRETGKIDALIAEQQRLIELLQERRSALISAVVTGQIDVRGLAE 122


>gi|254506510|ref|ZP_05118652.1| restriction modification system DNA specificity domain protein
           [Vibrio parahaemolyticus 16]
 gi|219550684|gb|EED27667.1| restriction modification system DNA specificity domain protein
           [Vibrio parahaemolyticus 16]
          Length = 428

 Score =  110 bits (275), Expect = 4e-22,   Method: Composition-based stats.
 Identities = 51/417 (12%), Positives = 133/417 (31%), Gaps = 34/417 (8%)

Query: 23  KHWKVVPIKRFTKLNTGRTSES---GKDIIYIGLEDV-ESGTGKYLPKDGNSRQSDTS-T 77
           ++W+ + +        G  +     G+ + +I + D+ E+    Y    G+    +    
Sbjct: 17  ENWQAIELGELMTFKNGINASREQYGRGVKFINVMDIIENDYITYDRIVGSVDVENKEFE 76

Query: 78  VSIFAKGQILYGKLGPYLR-----KAIIADFDGICSTQFLVLQPK--DVLPELLQGWLLS 130
            +I   G IL+ +              +   +      F++   K  D     +   L +
Sbjct: 77  KNIVEYGDILFQRSSETREEVGQANVYLDKKNVATFGGFVIRGKKVGDFDSVCMNYLLKT 136

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRIDTLITERI 189
               + +     G+T  +     +  + + +P  + EQ  I   +     ++D  I    
Sbjct: 137 DKARKEVTTKSGGSTRYNVGQATLSAVNIDLPPCIPEQQKIASFL----SKVDEKIALLA 192

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNT 249
              + L E K+ ++  +                  +            +  +        
Sbjct: 193 EKKDKLAEYKKGVMQQLFNGKWEEQDGQLTFVPPTLRFKAADGSEFSDWEEIELGKLSKK 252

Query: 250 KLIESNILSL--------SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQND 301
             +++   S+        + G I Q            + + Y +V P + V+        
Sbjct: 253 STVKNKDTSVSAVLTNSATQGIIHQADYFDRDIANQSNLDGYYVVKPNDFVYNPRISIPA 312

Query: 302 KRSLRSAQVMERGIITSAYMAVKPHG-IDSTYLAWLMRSYDLCKVFYAMGSGL----RQS 356
                +   ++ G+++  Y     +  ++ +YL +  ++    +   ++ +      R +
Sbjct: 313 PVGPINRNKLDVGVMSPLYTVFTVNKSVNLSYLEYFFKTTKWHRYMNSIANFGARHDRMN 372

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           +   D  ++P+ VP I+EQ  I   ++    ++D             KE +   +  
Sbjct: 373 ITTSDFFKMPIPVPCIEEQNKIVQFVSSIDQKLD----LANSEFEKAKEWKRGLLQQ 425



 Score = 81.4 bits (199), Expect = 3e-13,   Method: Composition-based stats.
 Identities = 24/177 (13%), Positives = 64/177 (36%), Gaps = 14/177 (7%)

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
           N++ +   + I                   IV+ G+I+F+      ++    +  + ++ 
Sbjct: 49  NVMDIIENDYITYDRIVGSVDVENKEFEKNIVEYGDILFQRSSETREEVGQANVYLDKKN 108

Query: 315 IITSAYMAVKPH---GIDSTYLAWLMRSYDLCKVFY-AMGSGLRQSLKFEDVKRLPVLVP 370
           + T     ++       DS  + +L+++    K      G   R ++    +  + + +P
Sbjct: 109 VATFGGFVIRGKKVGDFDSVCMNYLLKTDKARKEVTTKSGGSTRYNVGQATLSAVNIDLP 168

Query: 371 P-IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
           P I EQ  I + +    +++D  +  + +    L E +   +     G+       +
Sbjct: 169 PCIPEQQKIASFL----SKVDEKIALLAEKKDKLAEYKKGVMQQLFNGK-----WEE 216


>gi|15645409|ref|NP_207583.1| anti-codon nuclease masking agent (prrB) [Helicobacter pylori
           26695]
 gi|2313919|gb|AAD07838.1| anti-codon nuclease masking agent (prrB) [Helicobacter pylori
           26695]
          Length = 431

 Score =  110 bits (275), Expect = 4e-22,   Method: Composition-based stats.
 Identities = 53/411 (12%), Positives = 123/411 (29%), Gaps = 25/411 (6%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPKDGNSRQSD 74
           PK  +   ++   ++  G T             I +  +ED+            +     
Sbjct: 13  PKGVEFKTLEEVFEIKNGYTPSKNNPEFWKNGTIPWFRMEDIRENGRILKDSIQHITPKA 72

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP---ELLQGWLLSI 131
                +F K  I+          A++   D + + QF  L  K       ++   +    
Sbjct: 73  LKGKKLFPKNSIIISTKATIGEHALLI-VDSLANQQFTFLSKKANCDLALDMKFFFYQCF 131

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR---IDTLITER 188
            + +  +     +  +  D         PIPPL  Q  I + + A T     ++T +   
Sbjct: 132 LLGEWCKNNINVSGFASVDMTAFKKYKFPIPPLEIQQEIVKILDAFTELNTELNTELNTE 191

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN 248
           ++  +   E  Q ++        +     +    +                 V       
Sbjct: 192 LKARKKQYEYYQNMLLDFNDINQSHKDAKERLAQKTYPKRLKTLLQTLAPKGVEFRKLGE 251

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQ---NDKRSL 305
              I  N       N          G           +  G+ V    D      D   +
Sbjct: 252 VCEILDNRRIPIAKNKRNPGIYPYYGANGIQDYIDSYIFDGDFVLVGEDGSVINKDNTPV 311

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRL 365
            +    +  +   A++    + +   +L + +++ D+        +G    +  E++K++
Sbjct: 312 VNWASGKIWVNNHAHVLQTKNELKLKFLYFYLQTIDV----SYCVAGTPPKINQENLKKI 367

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
            + +PP++ Q +I  +++  +     L+  I   I   K+     R   + 
Sbjct: 368 AIPIPPLEIQQEIVKILDQFSILTTDLLAGIPAEIKARKKQYEYYREKLLT 418


>gi|307260751|ref|ZP_07542440.1| Restriction modification system DNA specificity domain
           [Actinobacillus pleuropneumoniae serovar 12 str. 1096]
 gi|306869590|gb|EFN01378.1| Restriction modification system DNA specificity domain
           [Actinobacillus pleuropneumoniae serovar 12 str. 1096]
          Length = 410

 Score =  110 bits (275), Expect = 4e-22,   Method: Composition-based stats.
 Identities = 57/410 (13%), Positives = 128/410 (31%), Gaps = 42/410 (10%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDV--ESGTG 61
           KD  V+W            +    K   G T     +          + + ++   +   
Sbjct: 8   KDCEVEW----------KSLGEVAKYVRGLTYNKTNESDEKAGGYYVLRVNNITLSNNQL 57

Query: 62  KYLPKDGNSRQSDTSTVSIFAKGQILYGKLGP----YLRKAIIADFDGICSTQFL--VLQ 115
            +         + T       K  IL            + A I++        F+  V  
Sbjct: 58  NFDDVKLVKFDTKTKPEQKLYKDDILISAASGSKEHVGKVAFISENMDFYFGGFMGVVRC 117

Query: 116 PKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKII 175
            +++LP  L   L S      +  +   +T+++ + K +    +PIPPL  Q  I + + 
Sbjct: 118 SQEILPRFLFHILTSSLFKTYLNEVLNSSTINNLNAKVMNEFQIPIPPLEIQEKIVKILD 177

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVK 235
             T    TL  E    ++     +  L++       + +   K++    +G +       
Sbjct: 178 KFTELEATLEAELSLRVKQYNYYRDLLLNE-----NDKNPFFKNTEYRCLGDI------- 225

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRF 295
              +   +           ++ S+   N       +   L   S    ++V   +++F  
Sbjct: 226 TLVSSNIKWKNNTNTYKYIDLTSVDRENHSIGETIKISALTAPS-RAQKLVAKDDVIFAT 284

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYM--AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL 353
                 + +    +     I ++ Y      P+ +   ++   + S D         SG 
Sbjct: 285 TRPTQLRFAF-INEEFANSIASTGYCVLRANPNLVLPKWIYHNLGSIDFKNFLEENQSGS 343

Query: 354 R-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
              ++    VK   + VP +  Q  I  +++      + +   + + I L
Sbjct: 344 AYPAVSDSKVKDYKIPVPSLDVQEKIIAILDNFENLANSIKNGLPREIEL 393



 Score = 77.9 bits (190), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 24/201 (11%), Positives = 60/201 (29%), Gaps = 6/201 (2%)

Query: 218 KDSGIEW--VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL 275
           KD  +EW  +G V  +      +    E + K        + +++  N     +   +  
Sbjct: 8   KDCEVEWKSLGEVAKYVRGLT-YNKTNESDEKAGGYYVLRVNNITLSNNQLNFDDVKLVK 66

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM--AVKPHGIDSTYL 333
                +  Q +   +I+        +     +            +M        I   +L
Sbjct: 67  FDTKTKPEQKLYKDDILISAASGSKEHVGKVAFISENMDFYFGGFMGVVRCSQEILPRFL 126

Query: 334 AWLMRSYDLCKVFY-AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
             ++ S          + S    +L  + +    + +PP++ Q  I  +++  T     L
Sbjct: 127 FHILTSSLFKTYLNEVLNSSTINNLNAKVMNEFQIPIPPLEIQEKIVKILDKFTELEATL 186

Query: 393 VEKIEQSIVLLKERRSSFIAA 413
             ++   +      R   +  
Sbjct: 187 EAELSLRVKQYNYYRDLLLNE 207


>gi|218692731|ref|YP_002400943.1| Type I restriction enzyme EcoAI specificity protein (S protein)
           (S.EcoAI) [Escherichia coli ED1a]
 gi|218430295|emb|CAV18170.1| Type I restriction enzyme EcoAI specificity protein (S protein)
           (S.EcoAI) [Escherichia coli ED1a]
          Length = 584

 Score =  110 bits (274), Expect = 5e-22,   Method: Composition-based stats.
 Identities = 75/480 (15%), Positives = 141/480 (29%), Gaps = 96/480 (20%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKD------IIYIGLE 54
           +K  K  P+   S  +    +P+ W+ V          G+T    KD      I ++  +
Sbjct: 83  IKKQKPLPEI--SEEEKPFELPEGWEWVTFSHLGYFFGGKTPSKMKDEYWGGTIPWVTPK 140

Query: 55  DVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLR---KAIIADFDGICSTQF 111
           D+++               +   ++  + G IL+      LR      I   +   +   
Sbjct: 141 DMKTNLIVDSEDKVTPLALE-DGLTKVSPGSILFVARSGILRRIFPVAITSIECTVNQDI 199

Query: 112 LVLQPKDVLPELLQGWLLSIDVTQRIEAI-CEGATMSHADWKGIGNIPMPIPPLAEQV-- 168
            VL P           +++      IE +   G T+    ++   + P  IPP AEQ   
Sbjct: 200 KVLSPFFSDISYYILLMMNGFERYIIENLTKTGTTVESLLFEDFISHPFMIPPFAEQNRI 259

Query: 169 ---------------------------------------LIREKIIAETVRIDTLITERI 189
                                                     E++     RI        
Sbjct: 260 LSTVKKLMSLCDQLEQQSLTTLDAHQQLVETLLGTLTDSQNAEELAENWARISEHFDTLF 319

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKD------------------------------ 219
                +   KQ ++   V   L P     +                              
Sbjct: 320 TTEASVDALKQTILQLAVMGKLVPQDPNDEPASELLKRIAQEKAQLVKEGKIKKQKPLPP 379

Query: 220 -SGIEWVGLVPDHWEVKPFFAL---VTELNRKNTKLIESNILSLSYGNIIQKLETRNM-- 273
            S  E    +P+ WE      +   +T+ + K    I      LS  NI       N   
Sbjct: 380 ISDEEKPFELPEGWEWCRLNDISSKITDGDHKTPPRIAEGYKLLSAKNIRDGYLDYNNCD 439

Query: 274 ---GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
               +  E      + + G+++   +     + SL      +  ++ S  +  KP  I+ 
Sbjct: 440 YISAIDYEKSRERCLPEKGDLLIVSVGGTIGRSSLIK-DCSDFALVRSVAII-KPLLIEP 497

Query: 331 TYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
            YL   M S  L  + ++    G +  L   ++ +     PP+ EQ +I N +++   + 
Sbjct: 498 EYLKLAMDSKLLQSMIHSHKRGGAQPCLYLGEISKFLFPTPPLAEQRNIVNKVSILMEKC 557



 Score = 69.4 bits (168), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 36/201 (17%), Positives = 66/201 (32%), Gaps = 10/201 (4%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
           S  E    +P+ WE   F  L      K    ++      +   +  K    N+ +  E 
Sbjct: 93  SEEEKPFELPEGWEWVTFSHLGYFFGGKTPSKMKDEYWGGTIPWVTPKDMKTNLIVDSED 152

Query: 280 -------YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
                   +    V PG I+F        +R    A       +      + P   D +Y
Sbjct: 153 KVTPLALEDGLTKVSPGSILFVARSGIL-RRIFPVAITSIECTVNQDIKVLSPFFSDISY 211

Query: 333 LAWLMRSYDLCKVFYA--MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
              LM +     +           +SL FED    P ++PP  EQ  I + +    +  D
Sbjct: 212 YILLMMNGFERYIIENLTKTGTTVESLLFEDFISHPFMIPPFAEQNRILSTVKKLMSLCD 271

Query: 391 VLVEKIEQSIVLLKERRSSFI 411
            L ++   ++   ++   + +
Sbjct: 272 QLEQQSLTTLDAHQQLVETLL 292



 Score = 67.5 bits (163), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 33/197 (16%), Positives = 65/197 (32%), Gaps = 8/197 (4%)

Query: 20  AIPKHWKVVPIKRF-TKLNTG--RTSES-GKDIIYIGLEDVESGTGKYLPKDGNSRQ--S 73
            +P+ W+   +    +K+  G  +T     +    +  +++  G   Y   D  S     
Sbjct: 388 ELPEGWEWCRLNDISSKITDGDHKTPPRIAEGYKLLSAKNIRDGYLDYNNCDYISAIDYE 447

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFD--GICSTQFLVLQPKDVLPELLQGWLLSI 131
            +    +  KG +L   +G  + ++ +              +++P  + PE L+  + S 
Sbjct: 448 KSRERCLPEKGDLLIVSVGGTIGRSSLIKDCSDFALVRSVAIIKPLLIEPEYLKLAMDSK 507

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            +   I +   G          I     P PPLAEQ  I  K+     +   L       
Sbjct: 508 LLQSMIHSHKRGGAQPCLYLGEISKFLFPTPPLAEQRNIVNKVSILMEKCRFLFLGLQSA 567

Query: 192 IELLKEKKQALVSYIVT 208
            +       AL    + 
Sbjct: 568 QQTQLHVADALTDAAIN 584


>gi|88810395|ref|ZP_01125652.1| Type I restriction enzyme StySPI specificity protein [Nitrococcus
           mobilis Nb-231]
 gi|88792025|gb|EAR23135.1| Type I restriction enzyme StySPI specificity protein [Nitrococcus
           mobilis Nb-231]
          Length = 496

 Score =  110 bits (274), Expect = 5e-22,   Method: Composition-based stats.
 Identities = 64/459 (13%), Positives = 142/459 (30%), Gaps = 65/459 (14%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDI--------IYIGLEDVESGTGKYLPKDGNS-R 71
           +P++W    +    +L  G T +  +            +   ++    G+   +D    R
Sbjct: 6   LPENWARCRVTELAQLIRGVTYKKSEASKESQPGFAPLLRANNI---NGRINHEDLVYVR 62

Query: 72  QSDTSTVSIFAKGQILYGK----LGPYLRKAIIADFDGICSTQFL--VLQPKDVLPELLQ 125
           ++  S      +  +L       +G   + A +    G     F   +    ++      
Sbjct: 63  EARISNEQWLKESDVLIAMSSGSIGLVGKAAQLRKVKGETFGSFCGALRPTSEIDCHFFG 122

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
            +  +    + +    +G+ +++     I ++  P+PP  EQ  I EKI     R+D   
Sbjct: 123 WFFQTRTYRECVSGDAKGSNINNLKRDHILHVDFPLPPANEQRRIVEKIETLFSRLDKGE 182

Query: 186 TERIRFIELLKEKKQALVSYIVTKGLNPDVK-----------------MKDSGIEWVG-- 226
                  +LL   +Q+++   VT  L  D +                 ++     W G  
Sbjct: 183 EALRDVQKLLSRYRQSVLKAAVTGQLTADWRAENAHRLEHGRDLLARILQTRRESWEGRG 242

Query: 227 --------------LVPDHWEVKPFFALVTE---------LNRKNTKLIESNILSLSYGN 263
                          +PD W       L               KN   +    ++     
Sbjct: 243 KYKEPIAPSTSGLPDLPDGWVWASLAQLTHIKGGVTVDKKRESKNPVTVPYLRVANVQNG 302

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFR-FIDLQNDKRSLRSAQVMERGIITSAYMA 322
            I   E + + +  +  E   ++  G+I+     D     R       +   I  +    
Sbjct: 303 HIDLTEIKEITVNRDKAEQ-TLLKAGDILLNEGGDRDKLGRGWVWDGQIAPCIHQNHVFR 361

Query: 323 VKPHGI--DSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDIT 379
            +P      S ++++   ++            +   S+    +   P+ +P   EQ +I 
Sbjct: 362 ARPVIPEISSRFVSYYANAFGQGFFMQKGKQSVNLASISLTAISGFPIALPSADEQREIV 421

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
             +  +   +  + E  +  +      R S +  A TG+
Sbjct: 422 GRLEEKLIEVATVAEWCKTELTRSAALRQSILKDAFTGR 460



 Score = 84.1 bits (206), Expect = 4e-14,   Method: Composition-based stats.
 Identities = 35/206 (16%), Positives = 65/206 (31%), Gaps = 11/206 (5%)

Query: 224 WVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES---- 279
               +P++W       L   +     K  E++  S      + +    N  +  E     
Sbjct: 2   ENRALPENWARCRVTELAQLIRGVTYKKSEASKESQPGFAPLLRANNINGRINHEDLVYV 61

Query: 280 ----YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM--AVKPHGIDSTYL 333
                   Q +   +++              +     +G    ++         ID  + 
Sbjct: 62  REARISNEQWLKESDVLIAMSSGSIGLVGKAAQLRKVKGETFGSFCGALRPTSEIDCHFF 121

Query: 334 AWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            W  ++    +       G    +LK + +  +   +PP  EQ  I   I    +R+D  
Sbjct: 122 GWFFQTRTYRECVSGDAKGSNINNLKRDHILHVDFPLPPANEQRRIVEKIETLFSRLDKG 181

Query: 393 VEKIEQSIVLLKERRSSFIAAAVTGQ 418
            E +     LL   R S + AAVTGQ
Sbjct: 182 EEALRDVQKLLSRYRQSVLKAAVTGQ 207



 Score = 72.9 bits (177), Expect = 9e-11,   Method: Composition-based stats.
 Identities = 35/236 (14%), Positives = 83/236 (35%), Gaps = 22/236 (9%)

Query: 9   QYKD------SGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKD------IIYIGLEDV 56
           +YK+      SG   +  +P  W    + + T +  G T +  ++      + Y+ + +V
Sbjct: 243 KYKEPIAPSTSG---LPDLPDGWVWASLAQLTHIKGGVTVDKKRESKNPVTVPYLRVANV 299

Query: 57  ESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPY---LRKAIIADFDGICSTQFLV 113
           ++G          +   D +  ++   G IL  + G      R  +       C  Q  V
Sbjct: 300 QNGHIDLTEIKEITVNRDKAEQTLLKAGDILLNEGGDRDKLGRGWVWDGQIAPCIHQNHV 359

Query: 114 LQPKDVLP----ELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVL 169
            + + V+P      +  +  +      ++   +   ++      I   P+ +P   EQ  
Sbjct: 360 FRARPVIPEISSRFVSYYANAFGQGFFMQKGKQSVNLASISLTAISGFPIALPSADEQRE 419

Query: 170 IREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWV 225
           I  ++  + + + T+       +      +Q+++    T  L P     +   E +
Sbjct: 420 IVGRLEEKLIEVATVAEWCKTELTRSAALRQSILKDAFTGRLVPQNPSDEPAAELL 475


>gi|261840205|gb|ACX99970.1| restriction modification system S subunit [Helicobacter pylori 52]
          Length = 373

 Score =  110 bits (274), Expect = 5e-22,   Method: Composition-based stats.
 Identities = 61/406 (15%), Positives = 122/406 (30%), Gaps = 46/406 (11%)

Query: 21  IPKHWKVVPIKRF-----TKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           +P +W+ V +         K      +    +I +  +    +    ++ K         
Sbjct: 6   LPLNWQKVRLGDIGKPCMCKRVMKHQTTRYGEIPFYKIGTFGNTADAFISKKLFL--EYR 63

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
           +  S   KG IL    G   R  I            +V        E L        +  
Sbjct: 64  TKYSFPKKGDILISASGTIGRAVIYDGKPAYFQDSNIVWI---DNDETLVKNDFLFYIYS 120

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            ++   E  T+         N  +P+PPL EQ  I   + A    +              
Sbjct: 121 NVKWNTEYTTILRLYNDNFRNTLIPLPPLNEQSAIANILSALDRYL-------------- 166

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
                AL+       L  +   K    E +            +  V   +  N      +
Sbjct: 167 -CALDALI-------LKKEGVKKALSFELLSQRKRLKGFNQAWQRVRLGDIANYLTSNLS 218

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
           +  ++    I+  +  N     ++     I D   I           R L      +  I
Sbjct: 219 VEQITQQGEIKVYDANNFIGYTDTT---FISDKPYISIVKDGSVGRVRILPP----KTNI 271

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
           +++    +  H   + +L +L+ ++D           +   + F+D K   + +PP+ EQ
Sbjct: 272 LSTMGALIANHRTTTEFLFYLLSNFDFKNF---TSGSIIPHIYFKDYKEKTIFLPPLNEQ 328

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
             I N+++     I  L  K  Q     +  + +     ++ +I +
Sbjct: 329 IAIANILSDLDNEITSLKNKKRQ----FENIKKALNHDLMSAKIRV 370


>gi|188528196|ref|YP_001910883.1| type I R-M system specificity subunit [Helicobacter pylori Shi470]
 gi|188144436|gb|ACD48853.1| type I R-M system specificity subunit [Helicobacter pylori Shi470]
          Length = 369

 Score =  110 bits (274), Expect = 5e-22,   Method: Composition-based stats.
 Identities = 62/406 (15%), Positives = 123/406 (30%), Gaps = 46/406 (11%)

Query: 21  IPKHWKVVPIKRF-----TKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           +P +W+ V +         K      +    +I +  +    +    ++ K         
Sbjct: 2   LPLNWQRVRLGDIGKPCMCKRVMKHQTTRYGEIPFYKIGTFGNTADAFISKKLFL--EYK 59

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
           +  S   KG IL    G   R  I            +V        E L           
Sbjct: 60  TKYSFPKKGDILISASGTIGRAVIYDGKPAYFQDSNIVWI---DNDETLVKNDFLFYAYS 116

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            ++   E  T+         N  +P+PPL EQ+ I   + A    +  L           
Sbjct: 117 NVKWNTEHTTILRLYNDNFRNTLIPLPPLNEQIAIANILSALDHYLYAL----------- 165

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
                AL+       L  +   K    E +            +  V   +  N      +
Sbjct: 166 ----DALI-------LKKESVKKALSFELLSQRKRLKGFNQAWQRVRLGDIANYLTSNLS 214

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
           +  ++    I+  +  N     ++     I D   I           R L      +  I
Sbjct: 215 VEQITQQGKIKVYDVNNFIGYTDTT---FISDKPYISIVKDGSVGRVRILPP----KTNI 267

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
           +++    +  H   + +L +L+ ++D           +   + F+D K   + +PP+ EQ
Sbjct: 268 LSTMGALIANHRTTTEFLFYLLSNFDFKNF---TSGSIIPHIYFKDYKEKTIFLPPLNEQ 324

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
             I N+++     I  L  K  Q     +  + +     ++ +I +
Sbjct: 325 IAIANILSDLDNEIASLKNKKRQ----FENIKKALNHDLMSAKIRV 366


>gi|84624926|ref|YP_452298.1| specificity determinant for hsdM and hsdR [Xanthomonas oryzae pv.
           oryzae MAFF 311018]
 gi|84368866|dbj|BAE70024.1| specificity determinant for hsdM and hsdR [Xanthomonas oryzae pv.
           oryzae MAFF 311018]
          Length = 450

 Score =  110 bits (274), Expect = 5e-22,   Method: Composition-based stats.
 Identities = 70/427 (16%), Positives = 148/427 (34%), Gaps = 44/427 (10%)

Query: 20  AIPKHWKVVPIKRFTKLNTG-----RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
            +P  W    I      ++      +  +   ++  + +              G      
Sbjct: 3   ELPGGWSETEIGPVNTYSSETLNPAKAPKQTFELYSVPVFAKRKPEIVDGKDIG------ 56

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAII----ADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
            ST        +L  K+ P + +  +     D + I S++++V++     P  ++  L  
Sbjct: 57  -STKQKVEPDDVLLCKINPRINRVWLVGKKNDHEQIASSEWIVIRQPLFDPAFIRFQLQE 115

Query: 131 IDVTQ--RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
                    E    G +++ A  K + +  + I PLAEQ  I +K+ A   ++DTL    
Sbjct: 116 SSFRDRLCAEVSGVGGSLTRAQPKKVESYKLRIAPLAEQKRIAQKLDALLAQVDTLKARI 175

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPD---VKMKDSGIEWVGLVPDHWEVKPFFALVTELN 245
                LLK  ++++V   V   L+ D      K    E +G + + W      +L     
Sbjct: 176 DAIPALLKRFRKSVVHSAVIGRLSADLRVPIEKSEEQEQLGPL-ESWREVTLASLGELSR 234

Query: 246 RKNTK-------LIESNILSLSYGNIIQKL---ETRNMGLKPESYETYQIVDPGEIVFRF 295
            K+         L  S    +  G++        +  +       +  ++   G +    
Sbjct: 235 GKSKHRPRNDSRLYGSEYPFIQTGDVANSGGALTSSKVFYSEFGLKQSRLFPSGTLCITI 294

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLR 354
                D   L         ++             + ++ +++   D  +   A+  +  +
Sbjct: 295 AANIADTAMLAIDACFPDSVVG---FIPNKDDCVAQFIKYVI--DDNKESLEALAPATAQ 349

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK---IEQSIVLLKERRSSFI 411
           +++  + + ++ + +PPIKEQ +I   +    A  D L  K    +Q I  L     S +
Sbjct: 350 KNINLKVLNQVKLRIPPIKEQTEIVRHVEQLFAYADQLEAKVAAAQQRIDALT---QSLL 406

Query: 412 AAAVTGQ 418
           A A  G+
Sbjct: 407 AKAFRGE 413


>gi|315506714|ref|YP_004085601.1| restriction modification system DNA specificity domain protein
           [Micromonospora sp. L5]
 gi|315413333|gb|ADU11450.1| restriction modification system DNA specificity domain protein
           [Micromonospora sp. L5]
          Length = 413

 Score =  110 bits (274), Expect = 5e-22,   Method: Composition-based stats.
 Identities = 48/406 (11%), Positives = 124/406 (30%), Gaps = 26/406 (6%)

Query: 22  PKHWKVVPIKRFTKLNTG----RTSESGKDIIYIGLEDVESGTGKY-LPKDGNSRQSDTS 76
           P   +  P+     L  G    +T  +   +  I    + +  G +             +
Sbjct: 13  PNGVEYKPLAEVGHLVRGNGLPKTDFTESGVGAIHYGQIYTYYGTWATDTISFVAPGTAT 72

Query: 77  TVSIFAKGQILYGKLGP----YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
            ++    G ++            +       + I +     +      P+ +  WL + +
Sbjct: 73  KLAKVDPGDVIITNTSENLEDVGKAVAWLGKEQIVTGGHATVFKHSQNPKFIAYWLQTPE 132

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
              + + +  G  ++    + +  + +P+PP+A Q  I   +   +  +  L  +     
Sbjct: 133 FFTQKKKLATGTKVTDVSARALERVKLPVPPIAIQDEIVRVLDLFSGAVADLKVQLDAEF 192

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
              + +       + T   + DV     G   VG            + V +    +    
Sbjct: 193 AARRLQYAYYRDNLFTFQ-DADVCFVPMG--EVGEFLRGRRFTK--SDVVDEGIPSIHYG 247

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
           E         +         +G         +   PG++V   +    +      A +  
Sbjct: 248 EIYTTYGIAADQAVSHIREKLG------PQLRYAKPGDVVIAAVGETVEDVGRGVAWLGT 301

Query: 313 RGI-ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM-GSGLRQSLKFEDVKRLPVLVP 370
             + I       + + +D  ++ + +RS    +           + +  E + +LP+ VP
Sbjct: 302 TDVAIHDDCFLYRSNVLDPKFVCYYLRSEAHNRAKAKYVARAKVKRMSREGLAKLPIPVP 361

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQS-IVLLKE---RRSSFIA 412
            +KEQ  I  +++   + +  +   +    I   ++    R   + 
Sbjct: 362 SLKEQKRIVAILDELDSLLTDMAAALPSEVIARRQQYDFYRDRLLT 407


>gi|254372256|ref|ZP_04987747.1| predicted protein [Francisella tularensis subsp. novicida
           GA99-3549]
 gi|151569985|gb|EDN35639.1| predicted protein [Francisella novicida GA99-3549]
          Length = 404

 Score =  110 bits (274), Expect = 5e-22,   Method: Composition-based stats.
 Identities = 68/422 (16%), Positives = 146/422 (34%), Gaps = 42/422 (9%)

Query: 20  AIPKHWKVVPIKRFTKL---NTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            +PK W+   ++    L   N G+      D     +++      +Y+  +   R  D  
Sbjct: 5   ELPKGWRECRLEEILDLIVDNRGKNPSKYSDRGIPVIDNFMIQNQRYINLNEAKRYIDIK 64

Query: 77  TV-----SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
           T             +L   +G        A  D     Q  +    D   +    +    
Sbjct: 65  TFESFIRKHIKYKDVLITLVGNGYGNVSQAPIDKSVIIQNTIGLRVDEYADQEFLFYNLK 124

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
              ++I     GA         + ++ + +PPLAEQ  I E + +   +ID         
Sbjct: 125 FNNEQILNFDRGAVQPSIKVSDLKSLEINLPPLAEQKAIAEVLSSLDDKID--------- 175

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
             LL ++ Q L               ++  IE      +  ++  +   +     K+++L
Sbjct: 176 --LLHQQNQTLEDMA-------KTLFREWFIEKADEGWEEVKLGDYVKCINGYTYKSSEL 226

Query: 252 IESNILSLSYGNIIQKLETRNMGLKP---ESYETYQIVDPGEIVFRFIDLQ------NDK 302
           +ES    ++  N  +    R  G K      ++  Q+V  G++V    D+        + 
Sbjct: 227 MESRNALVTLKNFARDGSLRLDGFKEFTGMKFKEAQVVIDGDLVVAHTDITQNADIIGNP 286

Query: 303 RSLRSAQVMERGIITSAYMAVKP--HGIDSTYLAWLMRSYDLCKV-FYAMGSGLRQSLKF 359
             +++    ++ +IT   + V+P  + I  +YL  L +S D                +  
Sbjct: 287 ILVKNIHNYDKLVITMDLVKVEPLVNWIKKSYLYCLFKSDDFKFHCLCNSNGSTVLHMSK 346

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
           + +      +PP +     T ++     + D      ++ I  L++ R + +   ++GQ+
Sbjct: 347 KAIPSYIFKLPPKELLVSFTKIVEDIFEKQD----LNQKQIKTLEQTRDTLLPKLMSGQV 402

Query: 420 DL 421
            +
Sbjct: 403 RV 404


>gi|322804999|emb|CBZ02559.1| type I restriction-modification system,specificity subunit S
           [Clostridium botulinum H04402 065]
          Length = 385

 Score =  110 bits (274), Expect = 5e-22,   Method: Composition-based stats.
 Identities = 59/399 (14%), Positives = 121/399 (30%), Gaps = 31/399 (7%)

Query: 29  PIKRFTKLNTGRTSESG-------KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
            +    ++ TG T           KDI++I  +D+ +   +                 I 
Sbjct: 6   KLWELGEILTGNTPSKKNGEFYDAKDIMFIKPDDINNNITEIECSKEYISNKAEKKARII 65

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            K  +L   +G    K  I       + Q   +   + +        + +   QR+E+I 
Sbjct: 66  PKDSLLITCIGSI-GKIAINKEKSAFNQQINSIVHNEKIISSKYLAYVIMINKQRLESIS 124

Query: 142 EGATMSHADWKGIGNIPMPIPPLAE-QVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
               +   +        + I    E Q  I   +      ID    +     EL      
Sbjct: 125 NAPVVPIINKTQFSEFEVYIHEKKEIQEKIANVLDKAQSLIDKRKAQIEALDEL------ 178

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
            + S  +    +     K+  +                  +T+  RK        I  + 
Sbjct: 179 -VKSRFIEMFGDLKSNSKNWDVSEFNE------FATIDTNMTKDFRKYKDYPHIGIECIE 231

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
                 ++    +    +      I D   I++  I    +K +L S          S  
Sbjct: 232 K--NTGRILEYKLVKNSDLKSGKYIFDNRHIIYSKIRPNLNKVALPSFA--GVCSADSYP 287

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
           +         +YL +++RS        A         +  E ++   +  PPI  Q    
Sbjct: 288 LLCNEKITTRSYLGYVLRSEFFLSYILAFSGRTNIPKVNKEQLRGFKMPTPPINLQNQFA 347

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           + +     ++D L  ++E+S+  L++  +S +  A  G+
Sbjct: 348 DFV----KQVDKLKFEMEKSLKELEDNFNSLMQRAFKGE 382


>gi|197302013|ref|ZP_03167076.1| hypothetical protein RUMLAC_00743 [Ruminococcus lactaris ATCC
           29176]
 gi|197298961|gb|EDY33498.1| hypothetical protein RUMLAC_00743 [Ruminococcus lactaris ATCC
           29176]
          Length = 406

 Score =  110 bits (274), Expect = 5e-22,   Method: Composition-based stats.
 Identities = 54/402 (13%), Positives = 137/402 (34%), Gaps = 32/402 (7%)

Query: 23  KHWKVVPIKRFTKLNTGRTSES---GKDIIYIGLEDVESGT-GKYLPKDGNSRQSDTSTV 78
           + W+   +     L  G        G    ++ L+++                       
Sbjct: 13  EDWEQRKLGELGSLKNGMNFSKEAMGIGFPFVNLQNIFGNNVIDVTNLGKAMASDSQLKD 72

Query: 79  SIFAKGQILYGKLGPYLRKAI-----IADFDGICSTQFLVLQPKDV--LPELLQGWLLSI 131
                G +L+ +    L           + +    + F++    +        +      
Sbjct: 73  YNLLNGDVLFVRSSVKLEGVGEAALVPQNLENTTYSGFIIRFRDEYGLDNNFKRFLFGIE 132

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            V  +I A    +   +     + N+ + IP  +EQ    EKI      +D LIT   R 
Sbjct: 133 SVRNQIMAQATNSANKNISQTVLENLCLKIPNKSEQ----EKIGLYFSNLDHLITLHQRK 188

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
            E  K  K+ ++  +  +  +   +++ SG        + WE + F     +  ++N + 
Sbjct: 189 CEETKTLKKYMLQKMFPQNGHSVPEIRFSG------FTEDWEQRKFADFTWDAGKRNKED 242

Query: 252 IESNILSLSYGNII---QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
           ++    +++  +     +        +K    + Y IV P    +     + +  S+   
Sbjct: 243 LDLEPYAITNEHGFIRQRDAHDDFGYMKDTDRKAYNIVQPNSFAYNP--ARINVGSIGYY 300

Query: 309 QVMERGIITSAY-MAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLP 366
           + +E  I++S Y +    + ++  +L   ++S +  +    +    +R    ++ +    
Sbjct: 301 KGVENVIVSSLYEVFQTDNYVNDRFLWHWLKSDEFPRWIEKLQEGSVRLYFYYDKLCECQ 360

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
           + +P ++EQ  I   ++     +D L+   +     L+  + 
Sbjct: 361 LYMPSLEEQEKIATFLDD----LDHLITLHQHKCEELQNIKK 398



 Score = 65.6 bits (158), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 17/157 (10%), Positives = 50/157 (31%), Gaps = 8/157 (5%)

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS--LRSAQVMERGIITS 318
           +GN +  +      +  +S      +  G+++F    ++ +         Q +E    + 
Sbjct: 50  FGNNVIDVTNLGKAMASDSQLKDYNLLNGDVLFVRSSVKLEGVGEAALVPQNLENTTYSG 109

Query: 319 AYMAVKPHGIDSTYLA-WLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPPIKEQF 376
             +  +           +L     +     A  +    +++    ++ L + +P   EQ 
Sbjct: 110 FIIRFRDEYGLDNNFKRFLFGIESVRNQIMAQATNSANKNISQTVLENLCLKIPNKSEQE 169

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            I        + +D L+   ++     K  +   +  
Sbjct: 170 KIGLY----FSNLDHLITLHQRKCEETKTLKKYMLQK 202


>gi|208434701|ref|YP_002266367.1| HP0790-like protein [Helicobacter pylori G27]
 gi|208432630|gb|ACI27501.1| HP0790-like protein [Helicobacter pylori G27]
          Length = 434

 Score =  110 bits (274), Expect = 5e-22,   Method: Composition-based stats.
 Identities = 54/409 (13%), Positives = 125/409 (30%), Gaps = 19/409 (4%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPKDGNSRQSD 74
           PK  +   ++   ++  G T             I +  +ED+            +     
Sbjct: 13  PKGVEFKTLEEVFEIKNGYTPSKNNPEFWKNGTIPWFRMEDIRENGRILKDSIQHITPKA 72

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP---ELLQGWLLSI 131
                +F K  I+          A++   D + + QF  L  K       ++   +    
Sbjct: 73  LKGKKLFPKNSIIISTTATIGEHALLI-VDSLANQQFTFLSKKANCDLALDMKFFFYQCF 131

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            + +  +     +  +  D         PIPPL  Q  I + + A T     L TE    
Sbjct: 132 LLGEWCKNNINVSGFASVDMTAFKKYKFPIPPLEIQQEIVKILDAFTELNTELNTELNTE 191

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           +      ++    Y     L+ +   ++       L    +  +    L T   +     
Sbjct: 192 LNTELNTRKKQYQYYQNMLLDFNDINQNHKDAKEKLACKTYPKRLKTLLQTLAPKGVEFR 251

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPE---SYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
               +  +  G  + K E  + G  P           ++        I +     +    
Sbjct: 252 KLGEVCEIIRGKRVTKKEILDKGKYPVVSGGIGFMGYLNEYNREENTITIAQYGTAGFVN 311

Query: 309 QVMERGIITSAYMAVKPHGID-STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
              ++        ++ P     + YL +++ +        +  S +  S+   ++ ++ +
Sbjct: 312 WQNQKFWANDVCFSLIPKETLINRYLYYVLTNMQNYLYSISNRSAIPYSISSNNIMQITI 371

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
            +PP++ Q +I  +++  +     L+  I   I   K+     R   + 
Sbjct: 372 PIPPLEIQQEIVKILDQFSLLTTDLLAGIPAEIKARKKQYEYYREKLLT 420


>gi|315585915|gb|ADU40296.1| type I R-M system specificity subunit [Helicobacter pylori 35A]
          Length = 373

 Score =  110 bits (274), Expect = 5e-22,   Method: Composition-based stats.
 Identities = 59/406 (14%), Positives = 120/406 (29%), Gaps = 46/406 (11%)

Query: 21  IPKHWKVVPIKRF-----TKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           +P +W+ V +         K      +    +I +  +    +    ++ K         
Sbjct: 6   LPLNWQKVRLGDIGKPCMCKRVMKHQTTRYGEIPFYKIGTFGNTADAFISKKLFL--EYK 63

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
           +  S   KG IL    G   +  I            +V        E L           
Sbjct: 64  TKYSFPKKGDILISASGTIGKAVIYDGKPAYFQDSNIVWI---DNDETLVKNDFLFYAYS 120

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            ++   E  T+         N  +P+PPL EQ  I   +      +              
Sbjct: 121 NVKWNTEYTTILRLYNDNFRNTLIPLPPLNEQSAIANILSDLDRYL-------------- 166

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
                AL+       L  +   K    E +            +  V   +  N      +
Sbjct: 167 -CALDALI-------LKKEGVKKSLSFELLSQRKRLKGFNQAWQRVRLGDIANYLTSNLS 218

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
           +  ++    I+  +  N     ++     I D   I           R L      +  I
Sbjct: 219 VEQITQQGEIKVYDVNNFIGYTDTT---FISDKPYISIVKDGSVGRVRILPP----KTNI 271

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
           +++    +  H   + +L +L+ ++D           +   + F+D K   + +PP+ EQ
Sbjct: 272 LSTMGALIANHRTTTEFLFYLLSNFDFKNF---TSGSIIPHIYFKDYKEKTIFLPPLNEQ 328

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
             I N+++     I  L  K  Q     +  + +     ++ +I +
Sbjct: 329 SAIANILSALDNEIASLKNKKRQ----FENIKKALNHDLMSAKIRV 370


>gi|295132750|ref|YP_003583426.1| restriction modification system DNA specificity subunit
           [Zunongwangia profunda SM-A87]
 gi|294980765|gb|ADF51230.1| restriction modification system DNA specificity subunit
           [Zunongwangia profunda SM-A87]
          Length = 440

 Score =  110 bits (274), Expect = 6e-22,   Method: Composition-based stats.
 Identities = 54/432 (12%), Positives = 130/432 (30%), Gaps = 39/432 (9%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESG------KDIIYIGLEDVESG 59
            +P++KD            W    +K       G   +SG      +D   + + +V   
Sbjct: 21  RFPEFKD-----------EWDKQKLKNLAHFQAGYAFKSGDMSSELEDYQIVKMSNVYKN 69

Query: 60  TGKYLPKDGNSRQ-SDTSTVSIFAKGQILYGKLGPYLR------KAIIADFDGICSTQFL 112
                         ++ S   +  +  ++    G   +        I      + + + +
Sbjct: 70  ELLLDRNPSFVNSINEKSKKFLLKQNDVVLTLTGTVGKRDYGYSVNIPESNKFLLNQRLV 129

Query: 113 VLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT--MSHADWKGIGNIPMPIPPLAEQVLI 170
           +L+ K      +   L +           +G T   ++     + NI +  P +AEQ  I
Sbjct: 130 LLRGKKENSLFISYLLKTDKFYYSFFNESKGGTGNQANVSSDDVKNIKLYSPAVAEQQKI 189

Query: 171 REKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPD 230
              + A   +I+ L  ++       K   Q L S  +           +   + +G V +
Sbjct: 190 ASFLSAVDEKINQLKRKKELLQAYKKGMMQQLFSQQLRFKDQNGNDFPEWEEKKLGDVFE 249

Query: 231 HWEVKPFFALVTELNR---KNTKLIESNILSLSYGN-IIQKLETRNMGLKPESYETYQIV 286
            +    F        +   KN    + +    +  +    ++   N  +     +     
Sbjct: 250 FFSTNSFSRDKMNEEKGEVKNIHYGDIHTKYKALVDVECDEVPYVNQDVDLSKIKIENYC 309

Query: 287 DPGEIVFRFIDLQNDKRSL---RSAQVMERGIITSAYMAVKPHGIDSTYLA-WLMRSYDL 342
             G+++        +              + +     +  +P    S       ++S+  
Sbjct: 310 KDGDLILADASEDYNDIGKSIEVKNIGDLKVLAGLHTILARPKIQFSEGFLGQYVQSWFH 369

Query: 343 CKVFYAMGSGLRQ-SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
            K       G +   +    +KR+ + +P  +EQ  I   +    A+ID     +  +I 
Sbjct: 370 RKQVMFEAQGTKVLGISVGRLKRIKIQIPSKEEQTKIAMFLLAFDAKIDT----VSTAIT 425

Query: 402 LLKERRSSFIAA 413
             ++ +   +  
Sbjct: 426 KTQDFKKGLLQQ 437



 Score = 86.4 bits (212), Expect = 8e-15,   Method: Composition-based stats.
 Identities = 26/217 (11%), Positives = 78/217 (35%), Gaps = 10/217 (4%)

Query: 213 PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNT-KLIESNILSLSYGNIIQKLETR 271
           P ++  +   EW      +             +  +  +  +   +S  Y N +      
Sbjct: 18  PKLRFPEFKDEWDKQKLKNLAHFQAGYAFKSGDMSSELEDYQIVKMSNVYKNELLLDRNP 77

Query: 272 NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME--RGIITSAYMAVKPHGID 329
           +            ++   ++V         +    S  + E  + ++    + ++    +
Sbjct: 78  SFVNSINEKSKKFLLKQNDVVLTLTGTVGKRDYGYSVNIPESNKFLLNQRLVLLRGKKEN 137

Query: 330 STYLAWLMRSYDLCKVF---YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
           S ++++L+++      F      G+G + ++  +DVK + +  P + EQ  I + ++   
Sbjct: 138 SLFISYLLKTDKFYYSFFNESKGGTGNQANVSSDDVKNIKLYSPAVAEQQKIASFLSAVD 197

Query: 387 ARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
            +I+ L    ++   LL+  +   +    + Q+  + 
Sbjct: 198 EKINQL----KRKKELLQAYKKGMMQQLFSQQLRFKD 230


>gi|254881459|ref|ZP_05254169.1| type I restriction enzyme EcoR124II specificity protein
           [Bacteroides sp. 4_3_47FAA]
 gi|254834252|gb|EET14561.1| type I restriction enzyme EcoR124II specificity protein
           [Bacteroides sp. 4_3_47FAA]
          Length = 443

 Score =  109 bits (273), Expect = 6e-22,   Method: Composition-based stats.
 Identities = 60/411 (14%), Positives = 129/411 (31%), Gaps = 41/411 (9%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            +P  W    ++    + +G T +        + YI + ++ +    +        +   
Sbjct: 30  ELPNSWVWCRLEDIAYVASGSTPDKTCFVENGVPYIKMYNLRNQKIDFAYHPQYITEEVH 89

Query: 76  STV---SIFAKGQILYGKLGPYLRKAIIAD---FDGICSTQFLVLQPKDVLPELLQGWLL 129
           +     S    G ++   +GP L K  I          +   ++++P      L+    +
Sbjct: 90  NGKLQRSRTEVGDLIMNIVGPPLGKLAIIPTTLPQANFNQAAVLIRPYKFKEVLVSYLKV 149

Query: 130 SIDVTQRIEAICE--GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
            ++    I +I     A   +       N+ +PIPPL E   I E++    + I++L   
Sbjct: 150 YLEEMSEINSIATRGSAGQVNISLTQSQNMRIPIPPLNEVRRIIEEVSKYDILINSLKQN 209

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWV----------------GLVPDH 231
                 L+   K  ++   +   L P     +  IE +                  VP  
Sbjct: 210 ITDIQNLIAYTKSKILDLAIHGKLVPQDPNDEPAIELLKRINPDFTPCDNGHYTFDVPSG 269

Query: 232 WEVKPFFALVT-----------ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
           W      ++               +          I  LS   ++      +        
Sbjct: 270 WITTNLGSIFNVVSAKRILKSDWKHSGVPFYRAREIAKLSIYGLVDNELYISEEHYNSLK 329

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY 340
           E + +    +I+   +        ++ +        +        + I++ Y+  +MRS 
Sbjct: 330 EKFPVPKASDIMISAVGTIGKCYIVKESDKFYYKDAS-VLCLCNDYQINAKYIYHIMRSE 388

Query: 341 DLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
            + K  Y    G    ++  E  K+  + +PP+ EQ  I   I    +  D
Sbjct: 389 YMLKQMYDNSKGTTVDTITIEKAKQYILPLPPLAEQQRIVAKIEETFSIFD 439



 Score = 62.1 bits (149), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 22/194 (11%), Positives = 60/194 (30%), Gaps = 12/194 (6%)

Query: 227 LVPDHWEVKPFFALVTELNRKNT---KLIESNILSLSYGNIIQKLETRNMGLKPESYETY 283
            +P+ W       +    +         +E+ +  +   N+  +        +  + E +
Sbjct: 30  ELPNSWVWCRLEDIAYVASGSTPDKTCFVENGVPYIKMYNLRNQKIDFAYHPQYITEEVH 89

Query: 284 Q------IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI--DSTYLAW 335
                    + G+++   +     K ++    + +     +A +           +YL  
Sbjct: 90  NGKLQRSRTEVGDLIMNIVGPPLGKLAIIPTTLPQANFNQAAVLIRPYKFKEVLVSYLKV 149

Query: 336 LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
            +            GS  + ++     + + + +PP+ E   I   ++     I+ L + 
Sbjct: 150 YLEEMSEINSIATRGSAGQVNISLTQSQNMRIPIPPLNEVRRIIEEVSKYDILINSLKQN 209

Query: 396 IEQSIVLLKERRSS 409
           I   I  L     S
Sbjct: 210 ITD-IQNLIAYTKS 222


>gi|18765822|gb|AAL78774.1|AF326623_1 JHP726-like protein [Helicobacter pylori]
          Length = 424

 Score =  109 bits (273), Expect = 6e-22,   Method: Composition-based stats.
 Identities = 50/398 (12%), Positives = 114/398 (28%), Gaps = 21/398 (5%)

Query: 22  PKHWKVVPIKRFTKLNTG----RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD-TS 76
           PK  +   +    +   G    ++    K    +    + +     + K  +        
Sbjct: 13  PKGVEFRKLGDIGEFTRGNGLLKSDLQDKGRPVVHYGQIHTQYNLSIDKTISYVNEALFH 72

Query: 77  TVSIFAKGQILYGKLGP----YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
            +       IL            +       + +  +  +     +  P+ +  +  +  
Sbjct: 73  KLKKAKPNDILIVTTSENVKDVGKSIAWLGNEEVAFSGEMYSYSTNENPKFIIYYFQTYF 132

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
             +  E    G  +       +  I +PIPPL  Q  I + + A T     L TE     
Sbjct: 133 FQKEKEKKITGTKVMRIHENDLKQITIPIPPLEIQQEIVKILDAFTELNTELNTELNARK 192

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           +  +  +  L+        N   +      E +   P    +K     +     +  KL 
Sbjct: 193 KQYQYYQNMLLD------FNDINQNHKDAKEKLAQKPYPKRLKTLLQTLAPKGVEFRKLG 246

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYET--YQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
           E            + +    + +     +   Y            I          S   
Sbjct: 247 EVCDFQKGKSITKKAVTFGKVPVISGGRQPAYYHNEANRSGETIAISSSGVYAGYVSYWD 306

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP 370
           +   +  S  ++ K   +   YL   + +     +     +G    +  +D+    + +P
Sbjct: 307 IPVFLADSFSVSPKQKTLMPKYLFHYLTTQQ-DAIHATKSTGGIPHVYSKDLLNFLIPIP 365

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
           P++ Q +I  +++  +A    L+  I   I   K R+ 
Sbjct: 366 PLEIQQEIVKILDQFSALTTDLLAGIPAEI---KARKK 400


>gi|313158289|gb|EFR57691.1| type I restriction modification DNA specificity domain protein
           [Alistipes sp. HGB5]
          Length = 462

 Score =  109 bits (273), Expect = 6e-22,   Method: Composition-based stats.
 Identities = 58/439 (13%), Positives = 114/439 (25%), Gaps = 72/439 (16%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQS 73
            IP+ W+   +        G T   G       +I+++   ++ +            +  
Sbjct: 24  EIPQGWEWSRMGSIGDWGAGATPAKGNTSYYGGNILWLRTGELNNSIVNDTEIKITDKAL 83

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
              ++ +   G +L    G  + K  IA  +   +       P  +    L  +L+    
Sbjct: 84  KECSLRLNKAGDVLIAMYGATIGKVAIAGCELTTNQACCACTPIGIFNYYLFYFLMGN-- 141

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIRE----KIIAETVRIDTLITERI 189
                   EG    +   + +    MPIPP+ EQ  I E     +        + I    
Sbjct: 142 QVDFIKKGEGGAQPNISREKLVAHLMPIPPIQEQHRIVERIKDVLPLTDKYAHSQIALDE 201

Query: 190 RFIELLKEKKQALVSYIVTKGLNPD----------------------------------- 214
               +  + K++++   +   L P                                    
Sbjct: 202 LNRSINGKLKKSILQEAIQGRLVPQVAEEGTAQELLEQIKLEKQKLVKEGNLKKSALSDS 261

Query: 215 ---------------VKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
                             KD   E    +P+ W       L    N       E      
Sbjct: 262 VIYKGDDNKYFEKIGTIEKDITDEIPFEIPNSWCWIRLNNLCNITNGFTPLRTEPKFWEN 321

Query: 260 SYGNIIQKLETRNMG---------LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
              N     + R  G         +   +    +IV  G ++                  
Sbjct: 322 GNINWFTVEDIRKQGEYIYQTTQKITELAVSKDRIVRAGSVLLCCTASVGQCAMTMIPTT 381

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP 370
             +              ++  +L   +++     +    G    + +  + V  + V +P
Sbjct: 382 TNQQFNALTIKEEYRCLVNDEFLYLFVKTLAPI-LHDLAGKTTFEFISVKKVGNILVPIP 440

Query: 371 PIKEQFDITNVINVETARI 389
           P+ EQ  I  V N   A I
Sbjct: 441 PVLEQCRICKVTNKAIASI 459



 Score = 80.6 bits (197), Expect = 4e-13,   Method: Composition-based stats.
 Identities = 38/214 (17%), Positives = 72/214 (33%), Gaps = 19/214 (8%)

Query: 218 KDSGIEWVGLVPDHWEVKPFFALVTE-----LNRKNTKLIESNILSLSYG---NIIQKLE 269
           K    E    +P  WE     ++          + NT     NIL L  G   N I    
Sbjct: 15  KCIDEEIPFEIPQGWEWSRMGSIGDWGAGATPAKGNTSYYGGNILWLRTGELNNSIVNDT 74

Query: 270 TRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID 329
              +  K     + ++   G+++         K ++   ++        A  A  P GI 
Sbjct: 75  EIKITDKALKECSLRLNKAGDVLIAMYGATIGKVAIAGCELT----TNQACCACTPIGIF 130

Query: 330 STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
           + YL + +    +         G + ++  E +    + +PPI+EQ  I   I       
Sbjct: 131 NYYLFYFLMGNQV-DFIKKGEGGAQPNISREKLVAHLMPIPPIQEQHRIVERIKDVLPLT 189

Query: 390 DVLVEKIEQSIVLLK-----ERRSSFIAAAVTGQ 418
           D      + ++  L      + + S +  A+ G+
Sbjct: 190 DKY-AHSQIALDELNRSINGKLKKSILQEAIQGR 222



 Score = 61.0 bits (146), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 28/173 (16%), Positives = 51/173 (29%), Gaps = 9/173 (5%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYLPKDGNSRQ 72
            IP  W  + +     +  G T    +       +I +  +ED+               +
Sbjct: 289 EIPNSWCWIRLNNLCNITNGFTPLRTEPKFWENGNINWFTVEDIRKQGEYIYQTTQKITE 348

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICST--QFLVLQPKDVLPELLQGWLLS 130
              S   I   G +L        + A+               + +    L      +L  
Sbjct: 349 LAVSKDRIVRAGSVLLCCTASVGQCAMTMIPTTTNQQFNALTIKEEYRCLVNDEFLYLFV 408

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
             +   +  +    T      K +GNI +PIPP+ EQ  I +        I +
Sbjct: 409 KTLAPILHDLAGKTTFEFISVKKVGNILVPIPPVLEQCRICKVTNKAIASIMS 461


>gi|71900231|ref|ZP_00682369.1| hypothetical protein XfasoDRAFT_2382 [Xylella fastidiosa Ann-1]
 gi|71730004|gb|EAO32097.1| hypothetical protein XfasoDRAFT_2382 [Xylella fastidiosa Ann-1]
          Length = 159

 Score =  109 bits (273), Expect = 7e-22,   Method: Composition-based stats.
 Identities = 32/127 (25%), Positives = 57/127 (44%), Gaps = 3/127 (2%)

Query: 301 DKRSLRSAQVMERGIITSAYMAVKPHGID--STYLAWLMRSYDLCKVFYAMGSGLRQSLK 358
                ++A +    +I  A + ++P        +L + +RS +   +     +  + +L 
Sbjct: 2   YASIGKAAILGIDAVINQAILGLEPKSNVLVPEFLFFWLRSLE-RHIKNLASTSTQANLN 60

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
              VK LP+  P ++EQ  I   I  E    D  + + E+ I L++E R   I   VTGQ
Sbjct: 61  AAKVKALPIFFPSVEEQKQICGWIKNECRIFDDAITRTEEEITLIREYRDRLITDVVTGQ 120

Query: 419 IDLRGES 425
           +D+RG  
Sbjct: 121 VDVRGWQ 127


>gi|261839336|gb|ACX99101.1| anti-codon nuclease masking agent (prrB) [Helicobacter pylori 52]
          Length = 421

 Score =  109 bits (273), Expect = 7e-22,   Method: Composition-based stats.
 Identities = 52/407 (12%), Positives = 128/407 (31%), Gaps = 27/407 (6%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPKDGNSRQSD 74
           PK  +   ++   ++  G T             I +  +ED+            +     
Sbjct: 13  PKGVEFKTLEEVFEIKNGYTPSKNNPEFWEKGTIPWFRMEDIRENGRILKDSIQHITPKA 72

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP---ELLQGWLLSI 131
                +F K  I+          A++   D + + +F  L  K       ++   +    
Sbjct: 73  LKGKKLFPKNSIIISTTATIGEHALLI-VDSLANQRFTFLSKKANCDIALDMKFFFYQCF 131

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            + +  +     +  +  D         PIPPL  Q  I + + A T     L TE    
Sbjct: 132 LLGEWCKKNTNVSGFASVDMTAFKKYKFPIPPLEIQQEIVKVLDAFTELNTELNTELKAR 191

Query: 192 IELLKEKKQALVS--YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNT 249
            +  +  +  L+    I     +     K        L P   E +    +   L+ +  
Sbjct: 192 KKQYEYYQNMLLDFKGINQSHKDAKTYPKRLKTLLQTLAPKGVEFRKLGEVCEILDNRRI 251

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
            + ++      Y           +       +   + + G ++        D   + +  
Sbjct: 252 PIAKNKRNPGIYPYYGANGIQDYIDSYIFDGDFVLVGEDGSVI------NKDNTPVVNWA 305

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
             +  +   A++    + +   +L + +++ D+        +G    +  E++K++ + +
Sbjct: 306 SGKIWVNNHAHVLQTKNELKLKFLYFYLQTIDV----SYCVAGTPPKINQENLKKITIPI 361

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
            P++ Q +I  +++  +     L+  I   I   K+     R   + 
Sbjct: 362 LPLEIQQEIVKILDQFSVLTTDLLAGIPAEIEARKKQYEYYREKLLT 408


>gi|302878638|ref|YP_003847202.1| restriction modification system DNA specificity domain [Gallionella
           capsiferriformans ES-2]
 gi|302581427|gb|ADL55438.1| restriction modification system DNA specificity domain [Gallionella
           capsiferriformans ES-2]
          Length = 410

 Score =  109 bits (273), Expect = 7e-22,   Method: Composition-based stats.
 Identities = 51/407 (12%), Positives = 123/407 (30%), Gaps = 32/407 (7%)

Query: 25  WKVVPIKRFTK--LNTGRTSESGK---DIIYIGLEDVESGT-GKYLPKDGNSRQSDTSTV 78
           W    +   ++     G  ++  K       I + D+   T                   
Sbjct: 15  WSEESLINLSESGFTNGVFNDPKKTGRGYKLINVLDMYIETTIDENRLSLVELSDAEFKK 74

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFD------GICSTQFLVLQPKDVLPELLQ--GWLLS 130
           +    G+I + +          ++               + ++P+  +   +     L +
Sbjct: 75  NKVEHGEIFFTRSSLVKEGIAFSNIYLGHSQDITFDGHLIRMRPRKDVLNSVFANYLLRT 134

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
               +++ A  + ATM+      I  + +  P LAEQ  I   + A   ++  L  +   
Sbjct: 135 SKARKQLVARGKTATMTTIGQADIAAVMVMFPSLAEQTKIANFLTAVDQKLTQLTRKHDL 194

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
             +  K   Q + S  +    +      +  +  +  +          A       K++ 
Sbjct: 195 LTQYKKGVMQQIFSQELRFKDDDGCDFPEWDVVELEKI----------AAKVNKKNKDSA 244

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
           +      S + G + Q            +   Y IV+  + V+      N          
Sbjct: 245 INNVLTNSATQGIVSQSDYFERDIANQNNLGGYYIVEIDDFVYNPRISANALVGPIKRNN 304

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL----RQSLKFEDVKRLP 366
           +  G+++  Y   +    +  ++     +        ++ +      R ++  E    LP
Sbjct: 305 LAVGVMSPLYNVFRFKAGNLNFIEQYFHTTHWHDYMKSVSNSGARHDRMNITNESFLGLP 364

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           +  P +KEQ  I N +      ID  +   +  +  +K+ +   +  
Sbjct: 365 IPYPCLKEQTKIANFLTA----IDEKITTAKTQLEAVKQYKQGLLQQ 407



 Score = 76.4 bits (186), Expect = 9e-12,   Method: Composition-based stats.
 Identities = 30/216 (13%), Positives = 71/216 (32%), Gaps = 9/216 (4%)

Query: 213 PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
           P ++       W      +     F   V    +K  +  +   +   Y          +
Sbjct: 4   PALRFDKGQAAWSEESLINLSESGFTNGVFNDPKKTGRGYKLINVLDMYIETTIDENRLS 63

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME--RGIITSAYMAVKPHGI-- 328
           +    ++      V+ GEI F    L  +  +  +  +            + ++P     
Sbjct: 64  LVELSDAEFKKNKVEHGEIFFTRSSLVKEGIAFSNIYLGHSQDITFDGHLIRMRPRKDVL 123

Query: 329 DSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           +S +  +L+R+    K   A G +    ++   D+  + V+ P + EQ  I N +     
Sbjct: 124 NSVFANYLLRTSKARKQLVARGKTATMTTIGQADIAAVMVMFPSLAEQTKIANFLTAVDQ 183

Query: 388 RIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
           ++  L  K      LL + +   +    + ++  + 
Sbjct: 184 KLTQLTRKH----DLLTQYKKGVMQQIFSQELRFKD 215


>gi|296454639|ref|YP_003661782.1| restriction endonuclease S subunit [Bifidobacterium longum subsp.
           longum JDM301]
 gi|296184070|gb|ADH00952.1| Restriction endonuclease S subunit [Bifidobacterium longum subsp.
           longum JDM301]
          Length = 398

 Score =  109 bits (273), Expect = 7e-22,   Method: Composition-based stats.
 Identities = 45/404 (11%), Positives = 117/404 (28%), Gaps = 42/404 (10%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+         + +G+  +            +E G        G     D +      + 
Sbjct: 19  WEQRKFSDIVNVCSGKDYK-----------HLEEGPIPVYGTGGFMTSVDEALSY--DRD 65

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            +  G+ G   +  ++        T F  +   D+       ++    +    ++  E  
Sbjct: 66  AVGIGRKGTIDKPYLLKAPFWTVDTLFYAIPKSDMD----LEFVHCSFLNVDWKSKDEST 121

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL--------ITERIRFIELLK 196
            +     + I      +P   EQ  + +        I           I ++    ++  
Sbjct: 122 GLPSLSKEAINETIALVPSFNEQSRLGDFFYNLDNLITLHQRKYDKLVIFKKSMLEKMFP 181

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
           +  +++         +P  + K       G   +  +                + +    
Sbjct: 182 KDGESVPEIRFAGFTDPWEQRK------FGDCFEFLKSNTLSRAGLNDENGTARNVHYGD 235

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQ---IVDPGEIVFRFIDLQNDKRSLRS--AQVM 311
           + + +G+ +    +    +  ++        I+  G+++F                    
Sbjct: 236 ILIKFGDCLDGERSDLPFITDDTVLPKFAGSILREGDVIFADTAEDEAAGKCVELRKLPK 295

Query: 312 ERGIITSAYMAVKPHGIDST-YLAWLMRSYDLCKVFYAMGSGLRQ-SLKFEDVKRLPVLV 369
           E  I     +  +P     T YL   + S    +    +  G++  S+    ++   V  
Sbjct: 296 EPTISGLHTIPARPRFFFGTGYLGHYLNSDAYHRQLLPLMQGIKVISVSKAALQDTQVRF 355

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           P + EQ  I   +    + ID L+   ++ + LL+  + S +  
Sbjct: 356 PGLSEQAAIGAAL----SEIDNLITLHQRKLELLQNIKKSLLDK 395


>gi|18765824|gb|AAL78775.1|AF326624_1 HP848-like protein [Helicobacter pylori]
          Length = 436

 Score =  109 bits (273), Expect = 7e-22,   Method: Composition-based stats.
 Identities = 64/415 (15%), Positives = 128/415 (30%), Gaps = 27/415 (6%)

Query: 22  PKHWKVVPIKRFTKLNTG----RTSESGKDIIYIGLEDVESGTG---KYLPKDGNSRQSD 74
           PK  +   +        G    R +     +  I + ++++      + +    N  +  
Sbjct: 13  PKGVEFRKLGEVCDFQNGFAFQRKNFRNTGLPIIRISNIQNDRLLLDEVIYFSLNDYKGT 72

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLV---LQPKDVLPELLQGWLLSI 131
                   KG IL    G    K  I  FD        V        +       +   +
Sbjct: 73  NFEPFKITKGDILIAMSGATTGKIGILTFDTTLYLNQRVGKFKPKLLLKLNNKFLYYFLL 132

Query: 132 DVTQRIEAICEGATMSHADWKGI-GNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
                + ++  G    +     I   I +PIPPL  Q  I   + A T     L TE   
Sbjct: 133 TKINFLYSLAGGGAQPNLSSNQILQQITIPIPPLEIQQEIVTILDAFTELNTELNTELNT 192

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
            ++  K++ Q   + ++    N   +      E +   P    +K     +        K
Sbjct: 193 ELKARKKQYQYYQNMLLD--FNDINQSHKDAKERLAQKPYPKRLKTLLQTLAPKGVGFRK 250

Query: 251 LIESN---------ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQND 301
           L E           I  +S           N G     Y      D   I          
Sbjct: 251 LGEVCESTNKKTLKISEVSEVKNKGMYPVINSGRDLYGYYHDFNNDGENITIASRGEYAG 310

Query: 302 KRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFED 361
             +  + +    G+    Y     + + + +L + +++ ++  +   +  G   +L   D
Sbjct: 311 FINYFNEKFFAGGLCYP-YKVKDTNELLTKFLYFYLKTNEIQIMENLVSRGSIPALNKAD 369

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           ++ L + +PP++ Q +I  +++  +A    L+  I   I   K+     R   + 
Sbjct: 370 IETLTIPIPPLEIQQEIVKILDQFSALTTDLLAGIPAEIKARKKQYEYYREKLLT 424


>gi|291461103|ref|ZP_06026993.2| putative type I restriction-modification system [Fusobacterium
           periodonticum ATCC 33693]
 gi|291378944|gb|EFE86462.1| putative type I restriction-modification system [Fusobacterium
           periodonticum ATCC 33693]
          Length = 433

 Score =  109 bits (273), Expect = 8e-22,   Method: Composition-based stats.
 Identities = 56/398 (14%), Positives = 130/398 (32%), Gaps = 38/398 (9%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           P   +   +    K   G+T         I   D+   +G   P   ++  +        
Sbjct: 30  PNGVEYKELGEIVKSQRGKTITKE----LIKDGDIPVISGGQKPAYYHNESN-------- 77

Query: 82  AKGQIL-YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
            KG+++     G Y    +  D     S  F +   K  L  +   +    +   +I ++
Sbjct: 78  RKGEVITIAGSGAYAGFVMYWDKPIFVSDAFTIECDKSYLN-IKYIYYFLQNNQMKIHSL 136

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
            +G  + H  +K +    +P+PPL  Q  I   +   T  ++           L ++   
Sbjct: 137 KKGGGVPHVYFKDMQKFLVPVPPLEVQNEIARILDDYTKSVEE----------LKEKLNT 186

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
            L++         D  +K      +  +   +E K           K T +I    +++ 
Sbjct: 187 ELITRKKQYSWYRDYLLKFENKVKIVKLGGLFEFKNGINKEKSSFGKGTPIIN--YVNVY 244

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA--QVMERGIITS 318
             N I   + + +    +       V  G++ F       ++    S   + +E  + + 
Sbjct: 245 KKNKIYFEDLQGLVEATDDELIRYKVKRGDVFFTRTSETIEEIGFTSVLLEDIENCVFSG 304

Query: 319 AYMAVKP--HGIDSTYLAWLMRSYDLCK-VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
             +  +P    +   Y A+   +  +   +        R  +    + ++ + +PP++ Q
Sbjct: 305 FLLRARPLTDLLLPEYCAYCFSTSSMRNAIIRKSTYTTRALINGTSLSQIEIPLPPLEVQ 364

Query: 376 FDITNVINVETARIDVL-------VEKIEQSIVLLKER 406
             I  V++        L       +EK ++    ++  
Sbjct: 365 KRIVEVLDNFEKTCKELNIELSSEIEKKQKEYEFVRNY 402



 Score = 67.5 bits (163), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 20/129 (15%), Positives = 52/129 (40%), Gaps = 7/129 (5%)

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF 346
             GE++   I                  +  +  +      ++  Y+ + +++  +    
Sbjct: 78  RKGEVI--TIAGSGAYAGFVMYWDKPIFVSDAFTIECDKSYLNIKYIYYFLQNNQMKIHS 135

Query: 347 YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE- 405
              G G+   + F+D+++  V VPP++ Q +I  +++  T  ++ L EK+   ++  K+ 
Sbjct: 136 LKKGGGV-PHVYFKDMQKFLVPVPPLEVQNEIARILDDYTKSVEELKEKLNTELITRKKQ 194

Query: 406 ---RRSSFI 411
               R   +
Sbjct: 195 YSWYRDYLL 203


>gi|329730359|gb|EGG66749.1| type I restriction modification DNA specificity domain protein
           [Staphylococcus aureus subsp. aureus 21193]
          Length = 406

 Score =  109 bits (273), Expect = 8e-22,   Method: Composition-based stats.
 Identities = 51/394 (12%), Positives = 116/394 (29%), Gaps = 16/394 (4%)

Query: 24  HWKVVPIKRFTKLNTG--RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
            W+      FTK+N G        K      L    +               +     I 
Sbjct: 20  EWEEKQFADFTKINQGLQIAINERKTEYSPELYFYITNEFLRPNSQTKYFIENPPQSVIA 79

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            K  IL  + G   +           +   +           L   L S  +  +I ++ 
Sbjct: 80  NKEDILMTRTGNTGKVVTNVFGAFHNNFFKIKFDKNLYDRLFLVEVLNSSKIQNKILSLA 139

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
             +T+   +     +I    P L EQ  I +       +I+    +     +  K   Q 
Sbjct: 140 GSSTIPDLNHSDFYSISSSYPLLREQQKIGKFFSKLDRQIELEEQKLELLQQQKKGYMQK 199

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
           + S  +           D   + +G + +        ++            ++  + ++ 
Sbjct: 200 IFSQELRFKDENGEDYPDWKEKKLGDITE-------QSMYGIGASATRFDSKNIYIRITD 252

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL-RSAQVMERGIITSAY 320
            +   +         P+       +   +I+F        K  + +  + +         
Sbjct: 253 IDEKSRKLNYQNLTTPDELNNKYKLKRNDILFARTGASTGKSYIHKEEKDIYNYYFAGFL 312

Query: 321 MAVKPHGIDSTYLAWLMR--SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
           +  K +  +S    +     S     V        +  +  E+  +LP+++P   EQ  I
Sbjct: 313 IKFKINEQNSPLFIYQFTLTSKFNKWVKVMSVRSGQPGINSEEYAKLPLVLPNKLEQQKI 372

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
              ++    R D  +E  +Q I +L++++   + 
Sbjct: 373 AKFLD----RFDRQIELEKQKIEILQQQKKGLLQ 402



 Score = 62.1 bits (149), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 24/190 (12%), Positives = 66/190 (34%), Gaps = 11/190 (5%)

Query: 24  HWKVVPIKRFTKLNT---GRTSES-GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            WK   +   T+ +    G ++       IYI + D++  + K   ++  +     +   
Sbjct: 217 DWKEKKLGDITEQSMYGIGASATRFDSKNIYIRITDIDEKSRKLNYQNLTTPDELNNKYK 276

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFL------VLQPKDVLPELLQGWLLSIDV 133
           +  +  IL+ + G    K+ I   +      +           +   P  +  + L+   
Sbjct: 277 L-KRNDILFARTGASTGKSYIHKEEKDIYNYYFAGFLIKFKINEQNSPLFIYQFTLTSKF 335

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            + ++ +   +     + +    +P+ +P   EQ  I + +     +I+    +     +
Sbjct: 336 NKWVKVMSVRSGQPGINSEEYAKLPLVLPNKLEQQKIAKFLDRFDRQIELEKQKIEILQQ 395

Query: 194 LLKEKKQALV 203
             K   Q++ 
Sbjct: 396 QKKGLLQSMF 405



 Score = 48.3 bits (113), Expect = 0.003,   Method: Composition-based stats.
 Identities = 23/178 (12%), Positives = 49/178 (27%), Gaps = 9/178 (5%)

Query: 213 PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
           P+++  +   EW       +        +    RK     E      +            
Sbjct: 10  PELRFPEFEGEWEEKQFADFTKINQGLQIAINERKTEYSPELYFYITNEFLRPNSQTKYF 69

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
           +   P+S     I +  +I+           +     V          +    +  D  +
Sbjct: 70  IENPPQSV----IANKEDILMTRTGNTGKVVT----NVFGAFHNNFFKIKFDKNLYDRLF 121

Query: 333 LAWLMRSYDLCKVFYAM-GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
           L  ++ S  +     ++ GS     L   D   +    P ++EQ  I    +    +I
Sbjct: 122 LVEVLNSSKIQNKILSLAGSSTIPDLNHSDFYSISSSYPLLREQQKIGKFFSKLDRQI 179


>gi|163737286|ref|ZP_02144704.1| Type I restriction-modification system specificity subunit
           [Phaeobacter gallaeciensis BS107]
 gi|161389890|gb|EDQ14241.1| Type I restriction-modification system specificity subunit
           [Phaeobacter gallaeciensis BS107]
          Length = 425

 Score =  109 bits (273), Expect = 8e-22,   Method: Composition-based stats.
 Identities = 62/426 (14%), Positives = 145/426 (34%), Gaps = 49/426 (11%)

Query: 30  IKRFTKLNTGRTSESG-----KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           + +  ++  G    S        +  + + D+ SG  +   +             + A G
Sbjct: 7   LGQKVEVLNGFAFPSSGFTTEDGLPLVRIRDIASGQTEVNFR------GKFDPAYLLANG 60

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            +L G  G +L  +  +  D + + +   +       +    +       + I       
Sbjct: 61  DVLIGMDGDFL-VSRWSGGDALLNQRVCKVTSISSEVDQRFLYWFLQPHIEDIHRKTPQT 119

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
           T+ H   K +  +P P     +Q  I E +          I      +  LK  KQ L+ 
Sbjct: 120 TVRHLSTKDVRAVPSPAFVATQQSKIAEVLDTLDAA----IRGTEAVVAKLKAMKQGLLH 175

Query: 205 YIVTKGLNPD-----------VKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK--- 250
            ++T+G++ +              K++ + W+    +  E++   A V    R       
Sbjct: 176 DLLTRGIDANGDLRPPHTKAPHLYKETPLGWLPKEWEVSEIQNMLASVDPAMRSGPFGSA 235

Query: 251 -----LIESNILSLSYGNIIQKLETRNMG--LKPESYET--YQIVDPGEIVFRFIDLQND 301
                L+E  +  L   N+  +   RN    + P  +       V P +++   +     
Sbjct: 236 LLKDELVEEGVPFLGIDNVFVERFDRNFKRFVTPGKFLQLQRYAVRPDDLMITIMGTVG- 294

Query: 302 KRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR---SYDLCKVFYA-MGSGLRQSL 357
            R       + R + +     +       +    +++   S  + + F      G   ++
Sbjct: 295 -RCCLVPLDVGRALSSKHTWTISLDEAKYSPYLAMLQVNYSDWVLRHFSKDQQGGTMSAI 353

Query: 358 KFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
           + E ++   + VPP  EQ  I  +++  + R+     + + S   L+ ++S  +   +TG
Sbjct: 354 RSETIRSTLLPVPPRDEQEAIAAILSELSRRLR----EEQTSFEKLRLQKSGLMDDLLTG 409

Query: 418 QIDLRG 423
           ++ +  
Sbjct: 410 RVPVTP 415



 Score = 43.6 bits (101), Expect = 0.055,   Method: Composition-based stats.
 Identities = 31/217 (14%), Positives = 70/217 (32%), Gaps = 21/217 (9%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKR-FTKL----NTGRTSES-------GKDIIYIGLEDV- 56
           YK++ + W+   PK W+V  I+     +     +G    +        + + ++G+++V 
Sbjct: 199 YKETPLGWL---PKEWEVSEIQNMLASVDPAMRSGPFGSALLKDELVEEGVPFLGIDNVF 255

Query: 57  ESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP 116
                +   +     +             ++   +G   R  ++    G   +       
Sbjct: 256 VERFDRNFKRFVTPGKFLQLQRYAVRPDDLMITIMGTVGRCCLVPLDVGRALSSKHTWTI 315

Query: 117 KDVLPEL-----LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIR 171
                +      +     S  V +      +G TMS    + I +  +P+PP  EQ  I 
Sbjct: 316 SLDEAKYSPYLAMLQVNYSDWVLRHFSKDQQGGTMSAIRSETIRSTLLPVPPRDEQEAIA 375

Query: 172 EKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVT 208
             +   + R+    T   +           L++  V 
Sbjct: 376 AILSELSRRLREEQTSFEKLRLQKSGLMDDLLTGRVP 412


>gi|315639287|ref|ZP_07894449.1| type I site-specific deoxyribonuclease [Campylobacter upsaliensis
           JV21]
 gi|315480613|gb|EFU71255.1| type I site-specific deoxyribonuclease [Campylobacter upsaliensis
           JV21]
          Length = 406

 Score =  109 bits (272), Expect = 8e-22,   Method: Composition-based stats.
 Identities = 52/398 (13%), Positives = 127/398 (31%), Gaps = 24/398 (6%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           P   +  P+    +    +  ++  ++    + + +        +D      D S  ++ 
Sbjct: 21  PNGVEFKPLGEVIERVRRKV-KNLNNVNVYSVSNSQGLILSTDFRDRKLYSEDISNYTLI 79

Query: 82  AKGQILYGKLGPYLRKAII-ADFDGICSTQFLVLQP--KDVLPELLQGWLLSIDVTQRIE 138
            KG+  Y      +       D  G  S  ++V +   K +  + L  +L S    ++I 
Sbjct: 80  QKGEFAYNPARLNIGSIAFLTDEVGAVSPMYVVFKIDEKSLNQKFLFYFLKSPTTLRKIV 139

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
           ++ E       D+K     P+P+PPL  Q  I E + A T     L  E    ++     
Sbjct: 140 SLTETGARFRFDFKRWEKFPIPLPPLEIQYKIVEILDAFTELEAELEAELEARLKQYHYY 199

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
           +  L+S+   +      +        V  V      +    L   + +            
Sbjct: 200 RNKLLSHDELENRTAKSRNDSDPATLVPYVRLGEACEILDNLRKPITKSKRTQGIYPYYG 259

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
            +           +        +   I      V  ++  +                  +
Sbjct: 260 ANGIQDYVNEYIFDGDFLLMGEDGSVINKDNSPVLNWVSGKFWV------------NNHA 307

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
             +  K +  +  ++ + +++ D+  +      G+   +  +++K + + +PP+  Q +I
Sbjct: 308 HILKEKSNTTNLRFVFFYLQTCDVSSIVR----GVPPKINQQNLKTIQIPLPPLAVQNEI 363

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
             +++      + L   I   I   K+     R   ++
Sbjct: 364 VELLDKFDTLTNDLTSGIPAEIEARKKQYEYYRERLLS 401



 Score = 72.9 bits (177), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 37/190 (19%), Positives = 78/190 (41%), Gaps = 7/190 (3%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG-NIIQKLETRNMGLKPESYETYQI 285
             P+  E KP   ++  + RK   L   N+ S+S    +I   + R+  L  E    Y +
Sbjct: 19  HCPNGVEFKPLGEVIERVRRKVKNLNNVNVYSVSNSQGLILSTDFRDRKLYSEDISNYTL 78

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV--KPHGIDSTYLAWLMRSYD-L 342
           +  GE  +    L        +    E G ++  Y+        ++  +L + ++S   L
Sbjct: 79  IQKGEFAYNPARLN---IGSIAFLTDEVGAVSPMYVVFKIDEKSLNQKFLFYFLKSPTTL 135

Query: 343 CKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
            K+     +G R    F+  ++ P+ +PP++ Q+ I  +++  T     L  ++E  +  
Sbjct: 136 RKIVSLTETGARFRFDFKRWEKFPIPLPPLEIQYKIVEILDAFTELEAELEAELEARLKQ 195

Query: 403 LKERRSSFIA 412
               R+  ++
Sbjct: 196 YHYYRNKLLS 205


>gi|148360829|ref|YP_001252036.1| hypothetical protein LPC_2789 [Legionella pneumophila str. Corby]
 gi|148282602|gb|ABQ56690.1| hypothetical protein LPC_2789 [Legionella pneumophila str. Corby]
          Length = 424

 Score =  109 bits (272), Expect = 8e-22,   Method: Composition-based stats.
 Identities = 62/362 (17%), Positives = 126/362 (34%), Gaps = 22/362 (6%)

Query: 72  QSDTSTVSIFAKGQILYGKL---GPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL 128
            SD ST  IF K  +++  +        +       GI S  ++ L P   L      + 
Sbjct: 61  SSDYSTYQIFEKDDLVFKLIDLENIKTSRVGYVPRRGIMSPAYIRLTPTSELVIPRYYYW 120

Query: 129 -LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
                    I     G    +     +   P+P+ P   Q+ I   +  E  RID LI +
Sbjct: 121 LFYAAYINNIFNGMGGGVRQNLTPTDLLEFPIPLTPKETQIEITNFLDREIDRIDQLIEK 180

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK 247
           + + I L++E++   V   +   +N  V++                 +      T   R 
Sbjct: 181 KKKLICLMRERESNAVREAIFSLINEGVQIWKL----------SHVCRVQRGKFTHRPRN 230

Query: 248 NTKLIESNILSLSYGNI---IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
             +L +  +  +  G++    + +      L               ++        +   
Sbjct: 231 APELYDGEVPFIQTGDVARANKFITKHKQTLSELGISVSAKFPSNTLLMAIAANVGNLAI 290

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKR 364
                  E     S    +    ++S YL +++R+        +  +  + +     +  
Sbjct: 291 T----TYEVYCPDSIVGFIPTEKVESEYLYYVLRAISDDISSSSTSN-AQDNTNVARLGS 345

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGE 424
           L + +P I++Q ++ +   +E   +     KI  SI  L E R + I+ AVTGQ+D++  
Sbjct: 346 LKIPLPSIQKQKNLIDKFKIEENLLFKTTSKISNSITKLNEFRCALISEAVTGQLDIKSW 405

Query: 425 SQ 426
            +
Sbjct: 406 KK 407



 Score = 99.5 bits (246), Expect = 9e-19,   Method: Composition-based stats.
 Identities = 61/179 (34%), Positives = 96/179 (53%), Gaps = 3/179 (1%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG 289
             W+  P       + + N  LIE + L+L+ G +I +      GL+   Y TYQI +  
Sbjct: 14  YRWKSVPTKRNFRNIKQINKGLIEEHRLALTLGGVIDRSLDDVEGLQSSDYSTYQIFEKD 73

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID--STYLAWLMRSYDLCKVFY 347
           ++VF+ IDL+N K S R   V  RGI++ AY+ + P        Y  WL  +  +  +F 
Sbjct: 74  DLVFKLIDLENIKTS-RVGYVPRRGIMSPAYIRLTPTSELVIPRYYYWLFYAAYINNIFN 132

Query: 348 AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
            MG G+RQ+L   D+   P+ + P + Q +ITN ++ E  RID L+EK ++ I L++ER
Sbjct: 133 GMGGGVRQNLTPTDLLEFPIPLTPKETQIEITNFLDREIDRIDQLIEKKKKLICLMRER 191



 Score = 50.6 bits (119), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 31/219 (14%), Positives = 78/219 (35%), Gaps = 11/219 (5%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSES--------GKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           I +  ++  +    ++  G+ +            ++ +I   DV               +
Sbjct: 204 INEGVQIWKLSHVCRVQRGKFTHRPRNAPELYDGEVPFIQTGDVARANKFITKHKQTLSE 263

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
              S  + F    +L   +   +    I  ++  C    +   P + + E    + +   
Sbjct: 264 LGISVSAKFPSNTLLMA-IAANVGNLAITTYEVYCPDSIVGFIPTEKV-ESEYLYYVLRA 321

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           ++  I +        + +   +G++ +P+P + +Q  + +K   E   +    ++    I
Sbjct: 322 ISDDISSSSTSNAQDNTNVARLGSLKIPLPSIQKQKNLIDKFKIEENLLFKTTSKISNSI 381

Query: 193 ELLKEKKQALVSYIVTKGLN-PDVKMKDSGIEWVGLVPD 230
             L E + AL+S  VT  L+    K + S  E +  + +
Sbjct: 382 TKLNEFRCALISEAVTGQLDIKSWKKRGSTDERLDNIEE 420


>gi|148656808|ref|YP_001277013.1| restriction modification system DNA specificity subunit
           [Roseiflexus sp. RS-1]
 gi|148568918|gb|ABQ91063.1| restriction modification system DNA specificity domain [Roseiflexus
           sp. RS-1]
          Length = 290

 Score =  109 bits (272), Expect = 8e-22,   Method: Composition-based stats.
 Identities = 37/229 (16%), Positives = 87/229 (37%), Gaps = 11/229 (4%)

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEW--VGLVPDHWEVKPFFALVTELNRKNTKLIES 254
           E K++L+ ++ T G  P  + +   ++   +G +P HW V     + T   R        
Sbjct: 45  ELKKSLMQHLFTYGPVPVTERERVPLQETEIGPLPAHWRVVRLGEVATLFTRGIDPANAG 104

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYET-YQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
               +   +I           K +   +       G++++  +    DK  L      + 
Sbjct: 105 AKRYIGLEHIEPGNIRIQHWGKADDVRSLKTAFQQGDVLYGKLRPYLDKAVLA---EWDG 161

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPI 372
              T   +      +   +LA+L+ +        +  +G+      ++ +++ P+ +PP+
Sbjct: 162 ICSTDILVIKAQSSLLPEFLAYLVHTSQFIDYAISTTTGVNHPRTSWKALQKFPISLPPL 221

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            EQ +I  ++    A+    +   +     L+E   + +   +TGQI +
Sbjct: 222 DEQREIARMLQAVDAK----IAAEQARRAALEELFKTLLHQLMTGQIRV 266



 Score = 83.3 bits (204), Expect = 8e-14,   Method: Composition-based stats.
 Identities = 58/189 (30%), Positives = 85/189 (44%), Gaps = 4/189 (2%)

Query: 18  IGAIPKHWKVVPIKRFTK-LNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           IG +P HW+VV +         G    +     YIGLE +E G  +   +         S
Sbjct: 75  IGPLPAHWRVVRLGEVATLFTRGIDPANAGAKRYIGLEHIEPGNIRI--QHWGKADDVRS 132

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV-LPELLQGWLLSIDVTQ 135
             + F +G +LYGKL PYL KA++A++DGICST  LV++ +   LPE L   + +     
Sbjct: 133 LKTAFQQGDVLYGKLRPYLDKAVLAEWDGICSTDILVIKAQSSLLPEFLAYLVHTSQFID 192

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
              +   G       WK +   P+ +PPL EQ  I   + A   +I      R    EL 
Sbjct: 193 YAISTTTGVNHPRTSWKALQKFPISLPPLDEQREIARMLQAVDAKIAAEQARRAALEELF 252

Query: 196 KEKKQALVS 204
           K     L++
Sbjct: 253 KTLLHQLMT 261



 Score = 42.9 bits (99), Expect = 0.11,   Method: Composition-based stats.
 Identities = 12/43 (27%), Positives = 16/43 (37%), Gaps = 4/43 (9%)

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           EQ  I +V+           E  E  I  LKE + S +    T
Sbjct: 18  EQRAIAHVLRTV----QWAKEATEGVIAALKELKKSLMQHLFT 56


>gi|254362756|ref|ZP_04978839.1| type I site-specific deoxyribonuclease specificity subunit
           [Mannheimia haemolytica PHL213]
 gi|153094384|gb|EDN75235.1| type I site-specific deoxyribonuclease specificity subunit
           [Mannheimia haemolytica PHL213]
          Length = 495

 Score =  109 bits (272), Expect = 8e-22,   Method: Composition-based stats.
 Identities = 60/434 (13%), Positives = 123/434 (28%), Gaps = 69/434 (15%)

Query: 20  AIPKHWKVVPIKRFT-KLNTGRTSES----GKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
            IP+ W  V +     K+  G           D +YI  ++++            +++  
Sbjct: 68  EIPESWVWVRLGDICLKITDGTHHSPPNIDKSDFLYITAKNIKKDGLDLSKISYVTKEIH 127

Query: 75  TSTVSIF--AKGQILYGKLGPYLRKAII---ADFDGICSTQFLVLQPKDVLPELLQGWLL 129
               S     KG ILY K G     +II    +   + S+  L+   +++  E L   + 
Sbjct: 128 NEIFSRCNPEKGDILYIKDGATTGVSIINTLNEPFSMLSSVALIKTSQEIDNEYLNYVMN 187

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
           S            G  +       + +  +P+PPL EQ  I +KI      ++       
Sbjct: 188 SHYFYNISIGSMSGTGIPRITLTKLESYLVPVPPLLEQQRIVQKIEELLPLVERYEQTEQ 247

Query: 190 RFIELLK----EKKQALVSYIVTKGLNPDVKM---------------------------- 217
           +  +L      + K++++   +   L                                  
Sbjct: 248 QLTKLNNTFPEQLKKSVLHAAIQGKLTEQDPNDELASCLIERIKAEKNRLIAEKKLKKPK 307

Query: 218 --------------------KDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
                               +    E    +P +W            +R+         +
Sbjct: 308 SVSEIVMRDNLPYEIKAGQERCIADEVPFEIPQNWIWVRLENYSLNHDRRRKP------V 361

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
           S++  +   KL                I D   I+          +   +  V  +    
Sbjct: 362 SVAQRSQQNKLYDYYGATGAIDKVASYIFDGKFILIGEDGGNFFTKKDVAFIVEGKFWAN 421

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFD 377
           +    +        Y  + + + +L  +    G      L   ++  + + +PPI EQ  
Sbjct: 422 NHVHVLSVDFNLEKYFCYYLNALNLPSMGLINGI-AVPKLNQRNLNSILIAIPPISEQHR 480

Query: 378 ITNVINVETARIDV 391
           I   I    + I+ 
Sbjct: 481 IVEKIEKLFSEIEK 494



 Score = 86.0 bits (211), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 38/244 (15%), Positives = 86/244 (35%), Gaps = 17/244 (6%)

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALV----TELN 245
             +  ++ +K  L++    K            IE    +P+ W       +        +
Sbjct: 31  ELLCKIQAEKDRLIAEGKIKKNKKTADKAPYTIEPPFEIPESWVWVRLGDICLKITDGTH 90

Query: 246 RKNTKLIESNILSLSYGNIIQKL-----ETRNMGLKPESYETYQIVDPGEIVFRFIDLQN 300
                + +S+ L ++  NI +        +           +    + G+I++       
Sbjct: 91  HSPPNIDKSDFLYITAKNIKKDGLDLSKISYVTKEIHNEIFSRCNPEKGDILYIKDGATT 150

Query: 301 DKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV-FYAMGSGLRQSLKF 359
              S+ +       +++S  +      ID+ YL ++M S+    +   +M       +  
Sbjct: 151 -GVSIINTLNEPFSMLSSVALIKTSQEIDNEYLNYVMNSHYFYNISIGSMSGTGIPRITL 209

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL-----KERRSSFIAAA 414
             ++   V VPP+ EQ  I   I      ++   E+ EQ +  L     ++ + S + AA
Sbjct: 210 TKLESYLVPVPPLLEQQRIVQKIEELLPLVERY-EQTEQQLTKLNNTFPEQLKKSVLHAA 268

Query: 415 VTGQ 418
           + G+
Sbjct: 269 IQGK 272



 Score = 44.0 bits (102), Expect = 0.041,   Method: Composition-based stats.
 Identities = 33/169 (19%), Positives = 62/169 (36%), Gaps = 14/169 (8%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            IP++W  V ++ ++  +  R          + +    S   K     G +   D     
Sbjct: 337 EIPQNWIWVRLENYSLNHDRRRKP-------VSVAQ-RSQQNKLYDYYGATGAIDKVASY 388

Query: 80  IFAKGQILYGKLG----PYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
           IF    IL G+ G         A I +     +    VL     L +    +L ++++  
Sbjct: 389 IFDGKFILIGEDGGNFFTKKDVAFIVEGKFWANNHVHVLSVDFNLEKYFCYYLNALNLPS 448

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
               +  G  +   + + + +I + IPP++EQ  I EKI      I+  
Sbjct: 449 M--GLINGIAVPKLNQRNLNSILIAIPPISEQHRIVEKIEKLFSEIEKF 495


>gi|157151665|ref|YP_001449873.1| HsdS specificity protein of type I restriction-modification system
           [Streptococcus gordonii str. Challis substr. CH1]
 gi|157076459|gb|ABV11142.1| HsdS specificity protein of type I restriction-modification system
           [Streptococcus gordonii str. Challis substr. CH1]
          Length = 402

 Score =  109 bits (272), Expect = 9e-22,   Method: Composition-based stats.
 Identities = 48/400 (12%), Positives = 118/400 (29%), Gaps = 26/400 (6%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           W    +    ++ +G T     D       I +I   D+ +       +  +   +  + 
Sbjct: 15  WTKSKLGEIYEVYSGNTPSRSDDRNYQNGEIPWIKTTDLNNTVICSNEEKISVYGA--TK 72

Query: 78  VSIFAKGQILYGKLGPY--LRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
           + +  +  +L    G +  + +  +  +    +     L P + +        L+     
Sbjct: 73  LKVLPEKSVLIAMYGGFNQIGRTGLLAYPATINQALAALMPVNEINPNFLLNFLNFKKES 132

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
                       +     +    +  P L EQ  I          + +       +  L 
Sbjct: 133 WRNVAASSRKDPNITKNDVEKFKISFPSLDEQSAIGSLFRTLDDLLASYKDNLANYQSLK 192

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
                 +          P++++     EWV        +        E+    +      
Sbjct: 193 ATMLSKMFPKAGQT--VPEIRLDGFEGEWV-----EVNLGTLIDNRDEIISGASGF--PI 243

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
             S   G  +Q           +    +  V  G + +R +   +  +  ++    +  +
Sbjct: 244 ATSSRKGLYLQNDYFEGGRTGIDLTLDFHRVPMGYVTYRHMSDDSIFKFNKNNLETDVLV 303

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIK 373
                + +     D  +L + + +  L   F  M    G R  L ++++    + VP IK
Sbjct: 304 SKEYPVFISNDSSDIDFLLYHLNNSRLFLRFSTMQKLGGTRVRLYYKNLITYKLAVPTIK 363

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           EQ  I +      + +D L+   ++ I  L+  +   +  
Sbjct: 364 EQQAIGSY----FSNLDNLITAHQEKISQLETLKKKLLQD 399


>gi|295101713|emb|CBK99258.1| Restriction endonuclease S subunits [Faecalibacterium prausnitzii
           L2-6]
          Length = 372

 Score =  109 bits (272), Expect = 9e-22,   Method: Composition-based stats.
 Identities = 52/389 (13%), Positives = 111/389 (28%), Gaps = 22/389 (5%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
            ++    +N G++ +S              G   +       R   +    I  +  IL 
Sbjct: 3   RLEEICAINMGQSPDSSTYNEDGNGLPFFQGNADFGEIYPAVRMWCSGPTKIAREKDILI 62

Query: 89  GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSH 148
               P      IA+ +         L   + +      W +       + +   G+T   
Sbjct: 63  SVRAPI-GALNIANCECCIGRGLAALTVNEDICAQEYLWHVLSGKVDELNSKGTGSTFKA 121

Query: 149 ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVT 208
            + K +    +P+PP+ EQ  I   +   +  I     +  +  E+       + +  V 
Sbjct: 122 INKKTLSETEIPLPPIDEQRKIAAVLDKVSGLIAKRRQQLDKLDEI-------VKAKFVE 174

Query: 209 KGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKL 268
              +P           +G               +  + +N       I S +       L
Sbjct: 175 MFGDPVGNPMGWEKIALGKR----CDIVTGNTPSRADPENYGNFIEWIKSDNINTPAVLL 230

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
                 L    +   + V+ G ++   I    +      A    R        A+ P   
Sbjct: 231 TEAQEYLSETGFHKCRFVEAGSLLMTCIAGSINCIG-NVAVTDRRVAFNQQINAIVPKQD 289

Query: 329 DSTYLAW--LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
           D  YL W  L+    +         G+   L    +  +    PP++ Q   +  +    
Sbjct: 290 DVLYLYWLMLLSKPAIHSTINMALKGI---LSKGQLSEMAFPFPPLELQNQFSVFV---- 342

Query: 387 ARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            + +     I +S+  L+  + + +    
Sbjct: 343 KKTEKTKANINRSLEKLETLKKALMQEYF 371



 Score = 54.0 bits (128), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 25/191 (13%), Positives = 53/191 (27%), Gaps = 11/191 (5%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKD------IIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           P  W+ + + +   + TG T            I +I  +++ +             ++  
Sbjct: 183 PMGWEKIALGKRCDIVTGNTPSRADPENYGNFIEWIKSDNINTPAVLLTEAQEYLSETGF 242

Query: 76  STVSIFAKGQILYGKLG---PYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
                   G +L   +      +    + D     + Q   + PK    ++L  + L + 
Sbjct: 243 HKCRFVEAGSLLMTCIAGSINCIGNVAVTDRRVAFNQQINAIVPKQ--DDVLYLYWLMLL 300

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
               I +    A         +  +  P PPL  Q      +         +     +  
Sbjct: 301 SKPAIHSTINMALKGILSKGQLSEMAFPFPPLELQNQFSVFVKKTEKTKANINRSLEKLE 360

Query: 193 ELLKEKKQALV 203
            L K   Q   
Sbjct: 361 TLKKALMQEYF 371


>gi|258515814|ref|YP_003192036.1| restriction modification system DNA specificity domain-containing
           protein [Desulfotomaculum acetoxidans DSM 771]
 gi|257779519|gb|ACV63413.1| restriction modification system DNA specificity domain protein
           [Desulfotomaculum acetoxidans DSM 771]
          Length = 400

 Score =  109 bits (272), Expect = 9e-22,   Method: Composition-based stats.
 Identities = 47/385 (12%), Positives = 119/385 (30%), Gaps = 25/385 (6%)

Query: 33  FTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLG 92
             +  + +   S   ++ I  E         +  + +       +  +   G  +   L 
Sbjct: 31  IFEPISNKNHNSDLPVLAITQEHGAIP-RDQIDYNVSVTDKSLESYKVVEIGDFIIS-LR 88

Query: 93  PYLRKAIIADFDGICSTQFLVLQPKDVL-PELLQGWLLSIDVTQRIEAICEGATM-SHAD 150
            +      + + GICS  +++L+ +  +  +  + +  +    + +    EG        
Sbjct: 89  SFQGGIEYSLYHGICSPAYIILRKRVPIVDQYYKHYFKTGRFIKDLNKDLEGIRDGKMVS 148

Query: 151 WKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKG 210
           ++    I +P P   EQ  I + +      ID LI    + +E L   K+ L+  +    
Sbjct: 149 YRQFSAIMLPKPDRKEQQKIADCL----SSIDDLIAAEDKKLEALGAHKRGLMQKLFPAE 204

Query: 211 LNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLET 270
                + +       G     W + P   +   L+ +   + E +               
Sbjct: 205 GKTLPEWRFPEFRGSGE----WVISPLSEVCENLDSRRIPITEKDRKKGFTPYYGASGIV 260

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
             +           + + G  +            +  +   +  +   A++    +    
Sbjct: 261 DYVDGFIFDEVLLCVSEDGANLVART------YPIAFSISGKTWVNNHAHVLKFQNSNTQ 314

Query: 331 TYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
             +   + S +L      M    +  L    +  +P+ +P  KEQ  I + +    + ID
Sbjct: 315 VMVKNYINSINLEDFLTGMA---QPKLNRAKLDIIPIPLPSEKEQQKIADCL----SSID 367

Query: 391 VLVEKIEQSIVLLKERRSSFIAAAV 415
            L+    + +  L+  +   +    
Sbjct: 368 DLIAGQVKKLEALRTHKKGLMQGLF 392


>gi|297157213|gb|ADI06925.1| restriction modification system DNA specificity subunit
           [Streptomyces bingchenggensis BCW-1]
          Length = 407

 Score =  109 bits (272), Expect = 9e-22,   Method: Composition-based stats.
 Identities = 84/419 (20%), Positives = 148/419 (35%), Gaps = 44/419 (10%)

Query: 24  HWKVVPIKRFTKL-NTGRTSES-------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            W  +P+K       TG               I  I   +++   GK +P   ++   +T
Sbjct: 2   SWATIPLKFLATSAQTGPFGSQLHSDQYITDGIPVINPSNIK--DGKLVPDRNSTVSVET 59

Query: 76  STVSIFA---KGQILYGKLGPYLRKAIIAD--FDGICSTQFLVLQPKDV--LPELLQGWL 128
           +          G I++ + G   R AI+       +C T  + ++              L
Sbjct: 60  AARLAVHRLLSGDIIFARRGELGRSAIVTKSAEGWLCGTGSIRVRINQNRLDYRFAGYAL 119

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
            ++      +    G+TM + + + +  +P+ +P LA Q  I + + +ET +ID    + 
Sbjct: 120 QNLQTYSYFQKQSVGSTMENLNTEIVLGLPVALPTLANQRRIADFLDSETEKIDAFTHKT 179

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN 248
            R + LL EK  + +             +   G   +  +     V+    L+T++ R  
Sbjct: 180 RRLLHLLDEKIASRI-------------LGHVGASQLNDIHSGSPVREINKLLTKVVRPP 226

Query: 249 TKLIESNILSL-SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
               E                      +   +    Q VD G+IV   +D          
Sbjct: 227 IADGEVITAYRDGQVTARSLRRAEGYTVSATTEAQGQRVDRGDIVIHGLDGFAGAIGTSE 286

Query: 308 AQVMERGIITSAYMAVKP-HGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSL----KFEDV 362
           A     G  +  Y    P +G DS +   L+R   L +      +  R+       +   
Sbjct: 287 A----AGNCSPVYHVCIPRNGGDSLFYGRLLRILALSEYLGPFATSTRERAVDFRNWNLF 342

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            R+P+     KEQ +I   I         L   +++S  L  ERR + I AAVTGQID+
Sbjct: 343 GRIPIPDVSFKEQQEIGEWI----KSARPLRIAVDRSNALAIERRQALITAAVTGQIDV 397


>gi|315026883|gb|EFT38815.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX2137]
          Length = 395

 Score =  109 bits (272), Expect = 9e-22,   Method: Composition-based stats.
 Identities = 65/395 (16%), Positives = 128/395 (32%), Gaps = 20/395 (5%)

Query: 25  WKVVPIKRFTKLNTGRTS-----ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           W+   +     +   +           DI +  +    +    ++ ++            
Sbjct: 10  WEQCKLGDLGSVAMNKRIFKEQTSESGDIPFYKIGTFGATADAFISRELFET--YKKKYP 67

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
               G +L    G   R       D       +V    D     L        V      
Sbjct: 68  YPKIGDLLISASGSIGRVVEYKGNDEYFQDSNIVWLKHDDRINNLFLKQFYSIVKWHGL- 126

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
             EG+T+     K I    + +P   EQ    EKI     ++D +IT   R +E LKE K
Sbjct: 127 --EGSTIKRLYNKNILETTIHLPVFDEQ----EKIGTLFKQLDDIITLHQRKLEQLKELK 180

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
           +A +  +  K      +++ +  E          +             N+     +I  L
Sbjct: 181 KAYLQLMFPKKDETLPRVRFADFEGEWEQCKLKNLFLKGGSGGTPTSSNSDYYNGDIPFL 240

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
           S  +I +         K  S E  +      +    I L       + A +      + A
Sbjct: 241 SISDITKSNGYIYTTEKCISLEGLKNSSAWIVPKESISLAMYASVGKVAILKLDIATSQA 300

Query: 320 YMAVKPHGID--STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFD 377
           +  +    I+  +    +L++     +    + +G + +L  + VK   VL+P   EQ  
Sbjct: 301 FYNMIFEDINTRNYIYHYLIKKEVFNEWITLISTGTQANLNADKVKNTFVLIPSNNEQKK 360

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           I  ++      I+V ++  ++ I +LK  + S++ 
Sbjct: 361 IAELLRC----IEVSIDIQQKKIHILKSLKKSYLQ 391


>gi|254786395|ref|YP_003073824.1| type I restriction modification DNA specificity domain-containing
           protein [Teredinibacter turnerae T7901]
 gi|237685013|gb|ACR12277.1| Type I restriction modification DNA specificity domain protein
           [Teredinibacter turnerae T7901]
          Length = 424

 Score =  109 bits (272), Expect = 9e-22,   Method: Composition-based stats.
 Identities = 53/402 (13%), Positives = 109/402 (27%), Gaps = 18/402 (4%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W+  PI    K  T + +E+ ++ + I  +        Y  K       D +   +  K
Sbjct: 24  GWERKPIGDGFKRVTNKNTENNQNALTISAQQGLVSQLDYFNKK--VAAKDLAGYYLMHK 81

Query: 84  GQILYGKLGPYLRKAIIAD-----FDGICSTQFLVLQPKDVLPELLQGWLL---SIDVTQ 135
           G   Y K                   G+ ST ++  +                  ++   
Sbjct: 82  GDFAYNKSYSQGYPMGAIKPLKLYEKGVVSTLYICFRANRGFCNEFYEQYFEAGMLNQQI 141

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
              A   G      +             +      ++     T  ID LIT   + ++ L
Sbjct: 142 ESIAQEGGRAHGLLNVSVKEFFKDVDILVPTIEEQQKIADCLTS-IDELITLHTQKLDAL 200

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDH--WEVKPFFALVTELNRKNTKLIE 253
           K  K+ L+  +         KM+       G        +V    +  T           
Sbjct: 201 KAHKKGLMQQLFPIEGKKVPKMRFPEFRKAGEWEKCALSDVATIRSGSTPSRSNPEFYEG 260

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
            +I  +   ++     T          +       G ++                +V   
Sbjct: 261 GDIPWVKTTDLNNSFITVTEECVTSKAKVKINA-IGSVLVAMYGGFKQIGRTGMLKVPAA 319

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
                + + V    +   Y+   + +        A  S    ++   DV + P+  P I 
Sbjct: 320 TNQALSVLNVDRKQVAPEYVLVWLNAKVGLWRKIASSSRKDPNITGSDVSKFPISFPEIG 379

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           EQ  I + I       + ++ +  + I  L   ++  +    
Sbjct: 380 EQRKIVDCIFSV----EEMISEQSEKISSLIAHKNGLVQKLF 417


>gi|307711301|ref|ZP_07647722.1| type I restriction modification DNA specificity domain protein
           [Streptococcus mitis SK321]
 gi|307616952|gb|EFN96131.1| type I restriction modification DNA specificity domain protein
           [Streptococcus mitis SK321]
          Length = 377

 Score =  109 bits (272), Expect = 1e-21,   Method: Composition-based stats.
 Identities = 58/394 (14%), Positives = 119/394 (30%), Gaps = 44/394 (11%)

Query: 25  WKVVPIKRFTKLNTGRTSESGK-----DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           W    +    +L  GR  +  +     +   + + +  +    Y   D     S  +   
Sbjct: 16  WVEKKLGEVAELLNGRAYKQEELLEDGEYRVLRVGNFNTNDRWYYS-DLQLEDSKYANY- 73

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
               G +LY          +  +   I       +     + +    +        RI+ 
Sbjct: 74  ----GDLLY-LWATNFGPELWKEEKVIYHYHIWKISGYSNILDKYYFYTFLEKDKDRIKQ 128

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
              G+TM H     +    +  P L EQ  I          ID LI+ + R +E+LKE+K
Sbjct: 129 NTNGSTMVHITKGMMEERVLTFPSLPEQTAIGSF----FQDIDQLISLQQRKLEVLKEQK 184

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
           +  +  +          ++ +G E          +     L       +  L+       
Sbjct: 185 KTYLKLLFPAKGQTKPALRFAGFE---DEWTSVLLGDISELYQPKTISSEDLLTEGFPVF 241

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
                I   +  N                       I  + +     S       I  ++
Sbjct: 242 GANGYIGYYKDYNHKENQ----------------VTISARGEGTGTPSFVEGPVWITGNS 285

Query: 320 YMAVKPHGID--STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFD 377
            +       +   ++L     S+D          G +  L  E +K++ +++P + EQ  
Sbjct: 286 MVVNVEKQDNITKSFLYAFCLSFDFKPFV---TGGAQPQLTREVLKKVNIMLPSLSEQEA 342

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
           I +        +D  + K E+ +  LKE + + +
Sbjct: 343 IGSF----FQDLDKAIAKQEEKVNQLKESKQTLL 372


>gi|253998802|ref|YP_003050865.1| restriction modification system DNA specificity domain-containing
           protein [Methylovorus sp. SIP3-4]
 gi|253985481|gb|ACT50338.1| restriction modification system DNA specificity domain protein
           [Methylovorus sp. SIP3-4]
          Length = 795

 Score =  109 bits (271), Expect = 1e-21,   Method: Composition-based stats.
 Identities = 60/472 (12%), Positives = 128/472 (27%), Gaps = 98/472 (20%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSE----SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            +P  W+   +    ++  GR       S + +  I ++++      +     N    D 
Sbjct: 100 ELPAGWQWAKLGMLMEMFNGRAFSQTEWSYEGLPIIRIQNLNDKNAPF-----NYFNGDV 154

Query: 76  STVSIFAKGQILYGKLGPYL---RKAIIADFDGICSTQFLVLQPK-DVLPELLQGWLLSI 131
           S  +    G  L    G         I +   G  +          + + +      ++ 
Sbjct: 155 SETNYVEPGTFLISWSGTPGTSFGAFIWSGAPGALNQHINKCMIFGEEINKQYLRLAVNS 214

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR----------- 180
            +   IE    G  + H     + N    IPPLAEQ  I  K+                 
Sbjct: 215 CMDHLIENAQGGVGLKHVTKGTLNNCVFAIPPLAEQYRIVAKVDELMALCDQLEQQTDAS 274

Query: 181 ------------------------------IDTLITERIRFIELLKEKKQALVSYIVTKG 210
                                         I           + + + KQ ++   V   
Sbjct: 275 LSAHQTLVETLLNALTSTADHAQFASSWQRIAEHFDTLFTTEDSIDQLKQTILQLAVMGK 334

Query: 211 LNPDVKMKDSGIEWV-------------GLVPDHWEVKPFFALVTELNRKNTK------- 250
           L P     +   E +             G +     + P  A       ++         
Sbjct: 335 LVPQDPNDEPASELIKKIAADKARLVKKGRINKDNPLPPISADEKPFLEQSAWQFVRLLS 394

Query: 251 ------------------LIESNILSLSYGNIIQKLETRNMGLKPESYETY----QIVDP 288
                              +   I  ++  ++I  + + ++ +  +  +        +  
Sbjct: 395 LSYEIGTGPFGSMIHQSDYVSGGIPLVNPSHMIDDVISEDIAVAVDHEKAKELTSYRLCA 454

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA 348
           G+IV            +   +        S Y+ + P  I   ++A + R+         
Sbjct: 455 GDIVLARRGEVGRCAIVTEREDGWLCGTGSFYLRLPP-AISRRFMALVFRATTTRSYLVG 513

Query: 349 MG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
                   +L    +  LP+ +PP+ EQ+ I   ++   A  D L  ++  +
Sbjct: 514 KAVGTTMVNLNHGILNSLPIALPPLGEQYRIVAKVDELIALCDQLTSRLRAA 565



 Score = 76.4 bits (186), Expect = 7e-12,   Method: Composition-based stats.
 Identities = 28/198 (14%), Positives = 57/198 (28%), Gaps = 4/198 (2%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ-KLETRNMGLKPE 278
           +  E    +P  W+      L+   N +     E +   L    I     +         
Sbjct: 93  TDDEQSFELPAGWQWAKLGMLMEMFNGRAFSQTEWSYEGLPIIRIQNLNDKNAPFNYFNG 152

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP--HGIDSTYLAWL 336
                  V+PG  +  +                  G +             I+  YL   
Sbjct: 153 DVSETNYVEPGTFLISWSGTPGTSFG-AFIWSGAPGALNQHINKCMIFGEEINKQYLRLA 211

Query: 337 MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
           + S     +  A G    + +    +      +PP+ EQ+ I   ++   A  D L ++ 
Sbjct: 212 VNSCMDHLIENAQGGVGLKHVTKGTLNNCVFAIPPLAEQYRIVAKVDELMALCDQLEQQT 271

Query: 397 EQSIVLLKERRSSFIAAA 414
           + S+   +    + + A 
Sbjct: 272 DASLSAHQTLVETLLNAL 289


>gi|1841496|emb|CAA71896.1| StySKI methylase [Salmonella enterica]
          Length = 587

 Score =  109 bits (271), Expect = 1e-21,   Method: Composition-based stats.
 Identities = 76/509 (14%), Positives = 141/509 (27%), Gaps = 101/509 (19%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKD------IIYIGLE 54
           +K  K  P+   S  +    +P  W+ V          G+T    KD      I ++  +
Sbjct: 83  IKKQKPLPEI--SEEEKPFELPVGWEWVTFSHLGHFFGGKTPSKMKDEYWGGTIPWVTPK 140

Query: 55  DVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLR---KAIIADFDGICSTQF 111
           D+++           S   +   ++  + G IL+      LR      I   +   +   
Sbjct: 141 DMKTNLIVDSEDKVTSLAIE-DGLTKVSPGSILFVARSGILRRIFPVAITSIECTVNQDL 199

Query: 112 LVLQPKDVLPELLQGWLLSIDVTQRIEAICE-GATMSHADWKGIGNIPMPIPPLAEQV-- 168
            VL P           +++      +E + + G T+    +    + P  IPP AEQ   
Sbjct: 200 KVLSPFLSEISYYIRLMMNGFERYIVENLTKTGTTVESLLFDDFISHPFMIPPFAEQNRI 259

Query: 169 ---------------------------------------LIREKIIAETVRIDTLITERI 189
                                                     +++     RI        
Sbjct: 260 LSTVKKLMSLCDQLEQHSLTSLDAHQQLVETLLTTLTDSQNADELAENWARISEHFDTLF 319

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKD------------------------------ 219
                ++  KQ ++   V   L P     +                              
Sbjct: 320 TTEPSIEALKQTILQLAVMGKLVPQDPNDEPASELLKRIAQEKAQLVKDGKIKKQKPLPP 379

Query: 220 -SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN----ILSLSYGNIIQKLETRNMG 274
            S  E    +P+ WE      +    +    K  + N       +   N+       +  
Sbjct: 380 ISEEEKPFELPEGWEWCRLEEIAYIFSGNAFKSEDFNESAGTKCIKITNVGVHEFIESQD 439

Query: 275 LKPESYETYQ---IVDPGEIVFRFIDLQNDKR--SLRSAQVMERGIITSAYMAVKPHGID 329
             P  +        V  G+++                        ++     A++     
Sbjct: 440 YLPSDFNKSYHNFRVYSGDMIIAMTRPYISSGLKICICPDNYHNALLNQRVCAIRLSHF- 498

Query: 330 STYLAWLMRSYDLCKVFY--AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           S Y    ++S  +   +      SGL+ +LK  D+  L + VPP  EQ  I N IN    
Sbjct: 499 SEYYYLFLKSLFVLMHYQDRFNNSGLQPNLKMADISHLLIPVPPENEQNKIQNKINALYT 558

Query: 388 RIDVLVEK----IEQSIVLLKERRSSFIA 412
            I+ L+E      +  + L      + I 
Sbjct: 559 MIETLLELTKSAQQTQLHLADALTDAAIN 587


>gi|268610643|ref|ZP_06144370.1| hypothetical protein RflaF_14247 [Ruminococcus flavefaciens FD-1]
          Length = 399

 Score =  109 bits (271), Expect = 1e-21,   Method: Composition-based stats.
 Identities = 57/372 (15%), Positives = 117/372 (31%), Gaps = 21/372 (5%)

Query: 55  DVESGTGKYLPKDGNSRQ-SDTSTVSIFAKGQILYGKLGPYLRKAIIADF--DGICSTQF 111
           D  +G   +      S    +        +  +L  K G   + A + D       ++  
Sbjct: 41  DFVNGRINWDDCYHVSVDRFEQDKGIQLRENDLLVTKDGTVGKTAFVVDCPTQATLNSHI 100

Query: 112 LVLQPKD--VLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVL 169
            +++ KD  V PE L   L S   +  +  I  G T+               P +  Q  
Sbjct: 101 FLVRSKDGSVEPEYLYYLLNSAVFSDFMRNILTGTTIKGLTQGNFYKFEFEAPDVPTQKK 160

Query: 170 IREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVP 229
           I   + +    ID +I +    IE      + +V  I+T  +N +  +K      +G   
Sbjct: 161 IVSVLES----IDDVIDKTRDLIEKYTSLMKGVVQDILTNDINDENTVK------IGSFA 210

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG 289
           D    K           K                I    +   +        +  IV+ G
Sbjct: 211 DALGGKRIPKGSELTIAKTAHPYIRVRDMTKPKVIELTDDYMYVEESDFHKISRYIVNAG 270

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
           +++   +        +             + +     G    +L + ++S    K     
Sbjct: 271 DLIISIVGTVGAVALVGETLDKANLTENCSKIVNI-KGYSPEFLYYFLKSEYGQKEIAGG 329

Query: 350 GSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
             G ++  L  +++  + V +  + EQ  I   + +   +ID  V    Q    ++  ++
Sbjct: 330 TVGEVQAKLPLKNILEINVPILSMPEQEAIVEKLRILDEKIDKEV----QYYNKMESIKA 385

Query: 409 SFIAAAVTGQID 420
             +   ++G ID
Sbjct: 386 GLMHDLLSGSID 397



 Score = 67.9 bits (164), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 16/160 (10%), Positives = 43/160 (26%), Gaps = 5/160 (3%)

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
                  I   +  ++ +     +    +   +++            +            
Sbjct: 40  WDFVNGRINWDDCYHVSVDRFEQDKGIQLRENDLLVTKDGTVGKTAFVVDCPTQATLNSH 99

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM-GSGLRQSLKFEDVKRLPVLVPPIKEQF 376
              +  K   ++  YL +L+ S         +      + L   +  +     P +  Q 
Sbjct: 100 IFLVRSKDGSVEPEYLYYLLNSAVFSDFMRNILTGTTIKGLTQGNFYKFEFEAPDVPTQK 159

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
            I +V+      ID +++K    I          +   +T
Sbjct: 160 KIVSVLES----IDDVIDKTRDLIEKYTSLMKGVVQDILT 195


>gi|24636601|dbj|BAC22942.1| probable restriction modification system specificity subunit HsdS
           [Staphylococcus aureus]
          Length = 406

 Score =  109 bits (271), Expect = 1e-21,   Method: Composition-based stats.
 Identities = 53/394 (13%), Positives = 124/394 (31%), Gaps = 16/394 (4%)

Query: 24  HWKVVPIKRFTKLNTG--RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
            W+      FTK+N G        K      L    +               +     I 
Sbjct: 20  EWEEKQFADFTKINQGLQIAINERKTEYSPELYFYITNEFLRPNSQTKYFIENPPQSVIA 79

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            K  IL  + G   +           +   +           L   L S  +  +I ++ 
Sbjct: 80  NKEDILMTRTGNTGKVVTNVFGAFHNNFFKIKFDKNLYDRLFLVEVLNSSKIQNKILSLA 139

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
             +T+   +     +I    P L EQ  I +       +ID  I  + + +ELL+++K+ 
Sbjct: 140 GSSTIPDLNHSDFYSISSSYPLLREQQKIGDF----FSKIDRQIELQEQKLELLQQQKKG 195

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
            +  I ++ L       ++G ++              ++            ++  + ++ 
Sbjct: 196 YMQKIFSQEL---RFKDENGEDYPDWKEKKLGDITEQSMYGIGASATRFDSKNIYIRITD 252

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL-RSAQVMERGIITSAY 320
            +   +         P+       +   +I+F        K  + +  + +         
Sbjct: 253 IDEKSRKLNYQNLTTPDELNNKYKLKRNDILFARTGASTGKSYIHKEEKDIYNYYFAGFL 312

Query: 321 MAVKPHGIDSTYLAWLMR--SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
           +  +    ++    +     S     V        +  +  E+  +LP+++P   EQ  I
Sbjct: 313 IKFEIDEQNNPLFIYQFTLTSKFNKWVKVMSVRSGQPGINSEEYAKLPLVLPNKLEQQKI 372

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
              ++    R D  +E  +Q I +L++++   + 
Sbjct: 373 AKFLD----RFDRQIELEKQKIEILQQQKKGLLQ 402



 Score = 72.9 bits (177), Expect = 9e-11,   Method: Composition-based stats.
 Identities = 30/213 (14%), Positives = 69/213 (32%), Gaps = 13/213 (6%)

Query: 213 PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
           P+++  +   EW       +        +    RK     E      +            
Sbjct: 10  PELRFPEFEGEWEEKQFADFTKINQGLQIAINERKTEYSPELYFYITNEFLRPNSQTKYF 69

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
           +   P+S     I +  +I+           +     V          +    +  D  +
Sbjct: 70  IENPPQSV----IANKEDILMTRTGNTGKVVT----NVFGAFHNNFFKIKFDKNLYDRLF 121

Query: 333 LAWLMRSYDLCKVFYAM-GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
           L  ++ S  +     ++ GS     L   D   +    P ++EQ  I +      ++ID 
Sbjct: 122 LVEVLNSSKIQNKILSLAGSSTIPDLNHSDFYSISSSYPLLREQQKIGDF----FSKIDR 177

Query: 392 LVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGE 424
            +E  EQ + LL++++  ++    + ++  + E
Sbjct: 178 QIELQEQKLELLQQQKKGYMQKIFSQELRFKDE 210



 Score = 62.9 bits (151), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 24/190 (12%), Positives = 66/190 (34%), Gaps = 11/190 (5%)

Query: 24  HWKVVPIKRFTKLNT---GRTSES-GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            WK   +   T+ +    G ++       IYI + D++  + K   ++  +     +   
Sbjct: 217 DWKEKKLGDITEQSMYGIGASATRFDSKNIYIRITDIDEKSRKLNYQNLTTPDELNNKYK 276

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFL------VLQPKDVLPELLQGWLLSIDV 133
           +  +  IL+ + G    K+ I   +      +           +   P  +  + L+   
Sbjct: 277 L-KRNDILFARTGASTGKSYIHKEEKDIYNYYFAGFLIKFEIDEQNNPLFIYQFTLTSKF 335

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            + ++ +   +     + +    +P+ +P   EQ  I + +     +I+    +     +
Sbjct: 336 NKWVKVMSVRSGQPGINSEEYAKLPLVLPNKLEQQKIAKFLDRFDRQIELEKQKIEILQQ 395

Query: 194 LLKEKKQALV 203
             K   Q++ 
Sbjct: 396 QKKGLLQSMF 405


>gi|253682396|ref|ZP_04863193.1| type I restriction enzyme specificity protein [Clostridium
           botulinum D str. 1873]
 gi|253562108|gb|EES91560.1| type I restriction enzyme specificity protein [Clostridium
           botulinum D str. 1873]
          Length = 422

 Score =  109 bits (271), Expect = 1e-21,   Method: Composition-based stats.
 Identities = 52/409 (12%), Positives = 132/409 (32%), Gaps = 29/409 (7%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIG---LEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           W+   + +     TG + ++ +D  +     +  V          +           +  
Sbjct: 20  WEQRKLGKMGDTFTGLSGKTKEDFGHGDAKFVTYVNVFGNVISDSNDVQSVEIDDKQNQV 79

Query: 82  AKGQILYGKLGPYLRKAIIADFD------GICSTQFLVLQPKDVLPELLQGWL-LSIDVT 134
             G + +        +  ++            ++     +P          ++  S ++ 
Sbjct: 80  KYGDVFFTTSSETPEEVGMSSVWLENTENVYLNSFCFGYRPTVEFDLYYLAFMLRSPEIR 139

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           ++   + +G +  +     + ++ +P+P L EQ  +              IT   R ++L
Sbjct: 140 KKFMFLAQGISRYNISKNKVMDMNVPVPELNEQRKVGTFFRNLDNL----ITLHQRKLDL 195

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKP--FFALVTELNRKNTKLI 252
           LK  K++++  +  K      +++ +G           E              +      
Sbjct: 196 LKVTKKSMLQKMFPKDGESVPEIRFAGFNDPWEQRKVIEQVEKVLDYRGKSPAKFGMSWG 255

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYE------TYQIVDPGEIVFRFIDLQNDKRSLR 306
            S  L LS  N+      +++  K    E        + ++ G+++F       +  +  
Sbjct: 256 NSGYLVLSSLNVKNGYIDKSVEAKYGDQELFDRWMGNERLEKGDVIFTTEAPLGN-IAQV 314

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRL 365
                      +         +D+ +LA L+ S        A  SG   + +  ++  ++
Sbjct: 315 PDNNGYILNQRAVAFKTSSDKLDNNFLATLLSSPLFQDKLQANSSGGTAKGIGMKEFAKI 374

Query: 366 PVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
             ++P  I EQ  I          +D L+   ++ + LLK+ + S +  
Sbjct: 375 ATMLPIDIAEQKKIGLF----FKDLDNLITLHQRELDLLKDLKKSMLQQ 419


>gi|303230842|ref|ZP_07317589.1| type I restriction modification DNA specificity domain protein
           [Veillonella atypica ACS-049-V-Sch6]
 gi|302514602|gb|EFL56597.1| type I restriction modification DNA specificity domain protein
           [Veillonella atypica ACS-049-V-Sch6]
          Length = 413

 Score =  109 bits (271), Expect = 1e-21,   Method: Composition-based stats.
 Identities = 56/407 (13%), Positives = 124/407 (30%), Gaps = 26/407 (6%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDI-----IYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           + W+   +       TG + ++ +D       YI   +V   T   +            T
Sbjct: 14  EDWEQRKLGSIGSTYTGLSGKTKEDFGHGEAQYITYLNVFQNTISDITMTDKVEID--IT 71

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFD------GICSTQFLVLQPKDVLPELLQGWLLSI 131
            +    G +L+        +  ++            ++     +P   +     G+ L  
Sbjct: 72  QNEVKYGDVLFTTSSETPEEVGMSSVWLGDTPNIYLNSFCFGFRPNQKIDPYFLGYSLRA 131

Query: 132 DVTQRIEA-ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
              +     + +G +  +     +  + + +P   EQ L+   +     RID +IT    
Sbjct: 132 PYMRDKIKILAQGISRYNISKNKVMELEISLPNNEEQKLLGTFL----QRIDLIITLHQC 187

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
            +E LK  K+AL+  +  K      +++  G           E    FA       K   
Sbjct: 188 KLEKLKLMKKALLQKLFPKNGKHIPEIRFKGFTDAWEQRKLGECMNSFAYGLNAAAKEYD 247

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYE---TYQIVDPGEIVFRFIDLQNDKRSLRS 307
            +   I      +        N+      +    +   ++ G+IVF        K  L +
Sbjct: 248 GMHKYIRITDIDDETHNFIQSNLTSPDIDFNTDVSDYKLNVGDIVFARTGASVGKTYLYN 307

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLP 366
               +                D+ ++     + D             +  +  ++     
Sbjct: 308 PNDGDLYYAGFLIRGKVKDDYDAGFIYQNTLTKDYDAFIKITSQRSGQPGVNSKEYATFR 367

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           + +P   EQ  I+ V+N     +D L    ++ +  L+E +   +  
Sbjct: 368 LNIPCKDEQRKISKVLNS----LDELFTLHQRKLERLQEVKKDLLQK 410



 Score = 63.3 bits (152), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 28/194 (14%), Positives = 66/194 (34%), Gaps = 13/194 (6%)

Query: 209 KGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKL 268
            G  P ++ K    +W                     +            ++Y N+ Q  
Sbjct: 1   MGNKPRIRFKGFTEDW----EQRKLGSIGSTYTGLSGKTKEDFGHGEAQYITYLNVFQNT 56

Query: 269 ETRNMGLKPESYE-TYQIVDPGEIVFRFIDLQNDKRSLRSAQVME--RGIITSAYMAVKP 325
            +          + T   V  G+++F       ++  + S  + +     + S     +P
Sbjct: 57  ISDITMTDKVEIDITQNEVKYGDVLFTTSSETPEEVGMSSVWLGDTPNIYLNSFCFGFRP 116

Query: 326 HG-IDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
           +  ID  +L + +R+  +      +  G+ R ++    V  L + +P  +EQ  +   + 
Sbjct: 117 NQKIDPYFLGYSLRAPYMRDKIKILAQGISRYNISKNKVMELEISLPNNEEQKLLGTFL- 175

Query: 384 VETARIDVLVEKIE 397
               RID+++   +
Sbjct: 176 ---QRIDLIITLHQ 186


>gi|295696353|ref|YP_003589591.1| restriction modification system DNA specificity domain protein
           [Bacillus tusciae DSM 2912]
 gi|295411955|gb|ADG06447.1| restriction modification system DNA specificity domain protein
           [Bacillus tusciae DSM 2912]
          Length = 411

 Score =  109 bits (271), Expect = 1e-21,   Method: Composition-based stats.
 Identities = 70/422 (16%), Positives = 137/422 (32%), Gaps = 46/422 (10%)

Query: 28  VPIKRFTKLNTGRTSESGKD---IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           V +     LNT             ++  +   +      L +  N +    S        
Sbjct: 8   VKLGDIFNLNTETVCPRELPSQVFVHYSIPAFDESHRPVLERGWNIK----SNKYALKGD 63

Query: 85  QILYGKLGPYLRKAIIA-----DFDGICSTQFLVLQPKDVLPELLQGWLLS--IDVTQRI 137
            +L  KL P + +             +CST+F+V Q      +L   +           +
Sbjct: 64  SLLVSKLNPRINRVWKFLSMSNPNPSVCSTEFMVYQTIRPDVDLDFYYHFFTSHLFQAAL 123

Query: 138 EAICEGAT--MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
             +  G T        K   NI +P PP  EQ  I   +      +D  I    R I+  
Sbjct: 124 MTLQSGTTGSRMRVTPKETLNIRIPYPPFREQRKIAAIL----TSVDDAIAATQRIIDQT 179

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
           +  K+ L+  ++T+G+    K K + I   G +P  W+V  F      +N +        
Sbjct: 180 ERVKRGLMQQLLTRGIG-HTKFKQTEI---GEIPAEWDVMSFRDACEIVNGQVDPKEAPY 235

Query: 256 ILSLSY-GNIIQKLETRNMGLKPESYET----YQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
              +    N I        G      +       +     ++F  I  +  K +      
Sbjct: 236 CDMIHIAPNHIVGFIGHLEGYTTAKEDCVTSGKYLFTEEHVLFSKIRPELGKVAYPGFS- 294

Query: 311 MERGIITSAY--MAVKPHGIDSTYLAWLMRSYDLCKV-FYAMGSGLRQSLKFEDVKRLPV 367
              GI ++    +  +   +   +L +++ S    +      G      +   D+    +
Sbjct: 295 ---GICSADIYPIRARNGIMLPEFLKYVLMSDRFYRYSISVSGRTGIPKVNRHDLDCYQI 351

Query: 368 LVPPIKEQF---DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGE 424
            VPPI EQ     I   +    +        + +   L+   +S+ +   +TG+I ++ +
Sbjct: 352 AVPPIAEQEGMCKILRSVYSYWS------ANLAKKSSLMT-LKSALMQVLLTGKIRVKVD 404

Query: 425 SQ 426
            +
Sbjct: 405 EE 406



 Score = 79.5 bits (194), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 39/201 (19%), Positives = 81/201 (40%), Gaps = 8/201 (3%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK---DIIYIGLEDVESGTGKYLP 65
           ++K +    IG IP  W V+  +   ++  G+         D+I+I    +    G    
Sbjct: 199 KFKQTE---IGEIPAEWDVMSFRDACEIVNGQVDPKEAPYCDMIHIAPNHIVGFIGHLEG 255

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKD--VLPEL 123
                    TS   +F +  +L+ K+ P L K     F GICS     ++ ++  +LPE 
Sbjct: 256 YTTAKEDCVTSGKYLFTEEHVLFSKIRPELGKVAYPGFSGICSADIYPIRARNGIMLPEF 315

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           L+  L+S    +   ++     +   +   +    + +PP+AEQ  + + + +       
Sbjct: 316 LKYVLMSDRFYRYSISVSGRTGIPKVNRHDLDCYQIAVPPIAEQEGMCKILRSVYSYWSA 375

Query: 184 LITERIRFIELLKEKKQALVS 204
            + ++   + L     Q L++
Sbjct: 376 NLAKKSSLMTLKSALMQVLLT 396


>gi|165975746|ref|YP_001651339.1| putative type I restriction enzyme specificity protein
           [Actinobacillus pleuropneumoniae serovar 3 str. JL03]
 gi|165875847|gb|ABY68895.1| putative type I restriction enzyme specificity protein
           [Actinobacillus pleuropneumoniae serovar 3 str. JL03]
          Length = 389

 Score =  109 bits (271), Expect = 1e-21,   Method: Composition-based stats.
 Identities = 54/417 (12%), Positives = 132/417 (31%), Gaps = 53/417 (12%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNS 70
           KD  V+W            +     L  GR               +E   G +      +
Sbjct: 8   KDCEVEW----------KSLGEVATLQRGRVISK---------TYLEENKGDFPVYSSQT 48

Query: 71  RQSDTSTV--SIFAKGQIL-YGKLGPYLRKAIIADFDGICST--QFLVLQPKDVLPELLQ 125
           + +       +    G+ + +   G               +     +V++ +D+L     
Sbjct: 49  QNNGEIGKINTYDFDGEFVNWTTDGANAGTVFYRKGKFSITNVSGLIVIKNQDLLNYKFL 108

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
            + L I+  + + +   G          +  I +PIP L  Q  I + +   T     L 
Sbjct: 109 YYWLLIEAKKHVYS---GMGNPKLMSHQMEKIRIPIPSLEIQEKIVKILDIFTELEAALE 165

Query: 186 TERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN 245
                 + L  ++     + ++T G + + K        +G V +               
Sbjct: 166 ATLEAELSLRVKQYDYYRNDLLTFGDDVEWK-------TLGEVGELIRGNGLQ------- 211

Query: 246 RKNTKLIESNILSLSYGNIIQKL----ETRNMGLKPESYETYQIVDPGEIVFRFIDLQND 301
                  E+ + ++ YG I        +     +  +  +  +    G+++         
Sbjct: 212 --KKDFTETGVPAIHYGQIYTYFGTFADKTKTFVSADLAKKLKKAQFGDVLIAGTSENLQ 269

Query: 302 KRSLRSAQVMERGIITSAYMAVKPHG-IDSTYLAWLMRSYDLCKVFYAMGSGLRQ-SLKF 359
                   +    + +    A +P+  I++ +L +L+++ D  K       G +   +K 
Sbjct: 270 DVMKPLGWLGGEIVFSGDMFAFRPNQEINTKFLTYLLQTEDFQKYKERYAQGTKVIRMKS 329

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           ++  +  + +PP+  Q  I  +++      + + E + + I L ++     R   + 
Sbjct: 330 DNFLKYQIPIPPLATQQKIVEILDKFDRLTNSISEGLPKEIELRRKQYEYYREQLLN 386


>gi|126665438|ref|ZP_01736420.1| restriction modification system DNA specificity domain
           [Marinobacter sp. ELB17]
 gi|126630066|gb|EBA00682.1| restriction modification system DNA specificity domain
           [Marinobacter sp. ELB17]
          Length = 456

 Score =  109 bits (271), Expect = 1e-21,   Method: Composition-based stats.
 Identities = 59/456 (12%), Positives = 143/456 (31%), Gaps = 59/456 (12%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKD----IIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
             W  V +        G+  +  K+      Y+G ++V  G+           + +    
Sbjct: 3   SEWPKVRLGDHVDSCLGKMLDKAKNRGELYPYLGNKNVRWGSFDLDDLAEMRFEKNEHDR 62

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFD--GICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
                G ++  + G   R AI  D             ++P   L      +  +      
Sbjct: 63  YGLRSGDLIVCEGGEPGRCAIWKDHIPGMKIQKALHRIRPLQGLNNYYLHYWFTEAYRTG 122

Query: 137 IEA-ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
           I A    G T+ H   + I  + +P+PPLA Q  I   + +   +ID           + 
Sbjct: 123 ILALYFTGTTIQHLTGRAISQLEIPLPPLAIQKHIASVLSSLDAKIDLNHQMNTTLETMA 182

Query: 196 KEKKQA-------LVSYIVTKG---------------------------LNPDVKMKDSG 221
           +   ++       ++   +  G                           +      +   
Sbjct: 183 QALFKSWFVDFDPVIDNALAAGNPIPEPFHARAEARKALGDQRRPLPAAIQQQFPDRFVL 242

Query: 222 IEWVGLVPDHWEVKPFFALVTELNR-----KNTKLIESNILSLSYGNIIQKLETRNMGLK 276
            E +G VP+ WE+      V  +       KN    +  + +      + +L++  +   
Sbjct: 243 TEEMGWVPEGWEISTVGEQVEIMGGGTPSTKNPIFWDDGVHAFCTPKDMSRLDSIVVTRT 302

Query: 277 --PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
               +    Q +  G++    + + +       A       +    +A+ P+        
Sbjct: 303 ERYLTDAGVQKITSGQLPAGVVLMSSRAPIGYLAISNIPVSVNQGIIAMLPNDSYGAMYL 362

Query: 335 WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
                +++ ++           +  ++ + +P LVP +        V+N    +   +  
Sbjct: 363 LSWAYFNMWQITDRANGSTFMEISKKNFRPIPFLVPNL-------GVLNAFNQQAKAVYS 415

Query: 395 K---IEQSIVLLKERRSSFIAAAVTGQIDLRG-ESQ 426
           K   + ++I  + + R + +   ++G++ +   E+Q
Sbjct: 416 KVLSVSENIEEVTKLRDTLLPKLLSGELRVPDAEAQ 451



 Score = 68.3 bits (165), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 21/190 (11%), Positives = 54/190 (28%), Gaps = 6/190 (3%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
           G EW  +            ++ +   +          ++ +G+    L+        ++ 
Sbjct: 2   GSEWPKVRLGDHVDSCLGKMLDKAKNRGELYPYLGNKNVRWGSF--DLDDLAEMRFEKNE 59

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY 340
                +  G+++             +      +       +       +     W   +Y
Sbjct: 60  HDRYGLRSGDLIVCEGGEPGRCAIWKDHIPGMKIQKALHRIRPLQGLNNYYLHYWFTEAY 119

Query: 341 DLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
               +         Q L    + +L + +PP+  Q  I +V++   A+ID       Q  
Sbjct: 120 RTGILALYFTGTTIQHLTGRAISQLEIPLPPLAIQKHIASVLSSLDAKID----LNHQMN 175

Query: 401 VLLKERRSSF 410
             L+    + 
Sbjct: 176 TTLETMAQAL 185



 Score = 53.6 bits (127), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 22/156 (14%), Positives = 45/156 (28%), Gaps = 12/156 (7%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSESGKDIIY-------IGLEDVESGTGKY---LPKDG 68
           G +P+ W++  +    ++  G T  +   I +          +D+            +  
Sbjct: 247 GWVPEGWEISTVGEQVEIMGGGTPSTKNPIFWDDGVHAFCTPKDMSRLDSIVVTRTERYL 306

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL 128
                   T      G +L     P      I++     +   + + P D     +    
Sbjct: 307 TDAGVQKITSGQLPAGVVLMSSRAPI-GYLAISNIPVSVNQGIIAMLPNDSY-GAMYLLS 364

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPL 164
            +     +I     G+T      K    IP  +P L
Sbjct: 365 WAYFNMWQITDRANGSTFMEISKKNFRPIPFLVPNL 400


>gi|237653838|ref|YP_002890152.1| restriction modification system DNA specificity domain protein
           [Thauera sp. MZ1T]
 gi|237625085|gb|ACR01775.1| restriction modification system DNA specificity domain protein
           [Thauera sp. MZ1T]
          Length = 390

 Score =  109 bits (271), Expect = 1e-21,   Method: Composition-based stats.
 Identities = 61/403 (15%), Positives = 133/403 (33%), Gaps = 28/403 (6%)

Query: 28  VPIKRFTKLNTGRTSE--SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           V +     +N   +      + + ++ +  + +   + +  +  +    +   + F  G 
Sbjct: 3   VNLGDVASINPRLSDPLQQTELVSFVPMASLSAEEARVVSTETRAYSEVSKGYTPFRNGD 62

Query: 86  ILYGKLGPYLRK-----AIIADFDGICSTQFLVLQPKDV--LPELLQGWLLSIDVTQRIE 138
           +L  K+ P         A +   +G  ST+F V++PK+       L   L   D+    E
Sbjct: 63  VLVAKITPCFENGKIAQAHLPHPNGFGSTEFHVIRPKESLLDGRYLHHLLRQADIRVEGE 122

Query: 139 AICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
               G+          + ++ +P+P L EQ  +   +                  EL + 
Sbjct: 123 RRMTGSGGQRRVPATFLSSLRIPLPRLEEQRRVAAILDQADALRAKRRKALALLDELQRG 182

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
                    +    +P    K      +G   +  +  P              +    I 
Sbjct: 183 I-------FIEMFGDPVTSPKGCTAGTLGDGIEEMQYGP---RFHNEAYSPEGIRIVRIT 232

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
            L     +       M +  E+ + +  +  G++VF        K +L   +     I  
Sbjct: 233 DLDAAGSLDFDSMPRMEVDEETRDKFA-LRAGDVVFARTGATVGKVALIK-ERDPVCIAG 290

Query: 318 SAYMAVKPH-GIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQ 375
           + ++ ++    I   Y   +++S  +  + +A      +Q+     ++RLP+ VP I+ Q
Sbjct: 291 AYFIRMRFQSRILPEYAFSVLQSESVQSLIFAQSRQAAQQNFSGPGLRRLPMPVPSIERQ 350

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
                 +    +       K   ++ LL E  SS    A  G+
Sbjct: 351 RRFAERVEAVGSE----KSKQLSALALLDELFSSLQHRAFRGE 389


>gi|269103360|ref|ZP_06156057.1| type I restriction-modification system specificity subunit S
           [Photobacterium damselae subsp. damselae CIP 102761]
 gi|268163258|gb|EEZ41754.1| type I restriction-modification system specificity subunit S
           [Photobacterium damselae subsp. damselae CIP 102761]
          Length = 418

 Score =  109 bits (271), Expect = 1e-21,   Method: Composition-based stats.
 Identities = 59/426 (13%), Positives = 140/426 (32%), Gaps = 36/426 (8%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
             ++ V + +   +  G++ +S              G G +      +    TS   +  
Sbjct: 2   SDFEWVQLGKIAAITMGQSPDSETYTDDDRYIPFLQGCGDFTGSYPETGVFCTSPGKVAK 61

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           +G +L     P      +AD D         +  K  +   L            +    +
Sbjct: 62  EGSLLVSVRAPV-GTTNVADKDYCIGRGLAAV--KSNIVSALYLREAFTVSASFLHRRAQ 118

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           G+T          ++     P+ +   + EK+      +++ +      I+     KQ +
Sbjct: 119 GSTFDAI---CAKDLSEMKIPMPKNRRVGEKVTDIIQCLNSELDATQALIDKYTAIKQGM 175

Query: 203 VSYIVTKGLNPDVKMKDSGIEW---------VGLVPDHWEVKPFFALVTELNRK------ 247
           ++ + ++G++P+ K      E          +G++P  W+V     L+ E+         
Sbjct: 176 MADLFSRGIDPETKTLRPTFEEAPELYYKTPLGMLPKGWKVIELENLLDEVTSPMRSGPF 235

Query: 248 -----NTKLIESNILSLSYGN----IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDL 298
                  +L+   I  L   N      +    R +  +     +   V   ++V   +  
Sbjct: 236 GSALLKEELVSEGIPLLGIDNIFVERFKASYKRFVTERKFRELSRYAVRERDVVITIMGT 295

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR-SYDLCKVFYA-MGSGLRQS 356
                 +  +  +         M      I    + W +  S      F      G+  +
Sbjct: 296 VGRSCVIPESIGLALSSKHLWTMTFDKEQILPELVCWQLNHSPWAESWFRRESQGGVMDA 355

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           ++ + +K+L ++VP   EQ  I          ++  +E  + S+  LK +++  +   +T
Sbjct: 356 IQSQTLKKLKLVVPSPVEQNAIYER----YENLNNHIEVNQTSLDKLKLQKTGLMQDLLT 411

Query: 417 GQIDLR 422
           G++ + 
Sbjct: 412 GKVPVP 417



 Score = 52.9 bits (125), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 30/209 (14%), Positives = 62/209 (29%), Gaps = 18/209 (8%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSES------------GKDIIYIGLEDVESGTGKYLP 65
           +G +PK WKV+ ++      T                   + I  +G++++     K   
Sbjct: 207 LGMLPKGWKVIELENLLDEVTSPMRSGPFGSALLKEELVSEGIPLLGIDNIFVERFKASY 266

Query: 66  KDG-NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGIC--STQFLVLQPKDVLPE 122
           K     R+    +     +  ++   +G   R  +I +  G+   S     +        
Sbjct: 267 KRFVTERKFRELSRYAVRERDVVITIMGTVGRSCVIPESIGLALSSKHLWTMTFDKEQIL 326

Query: 123 L---LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
                     S           +G  M     + +  + + +P   EQ  I E+      
Sbjct: 327 PELVCWQLNHSPWAESWFRRESQGGVMDAIQSQTLKKLKLVVPSPVEQNAIYERYENLNN 386

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVT 208
            I+   T   +         Q L++  V 
Sbjct: 387 HIEVNQTSLDKLKLQKTGLMQDLLTGKVP 415


>gi|261403055|ref|YP_003247279.1| restriction modification system DNA specificity domain protein
           [Methanocaldococcus vulcanius M7]
 gi|261370048|gb|ACX72797.1| restriction modification system DNA specificity domain protein
           [Methanocaldococcus vulcanius M7]
          Length = 436

 Score =  108 bits (270), Expect = 1e-21,   Method: Composition-based stats.
 Identities = 62/441 (14%), Positives = 147/441 (33%), Gaps = 28/441 (6%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSE----SGKDIIYIGLEDV 56
           M  ++   ++K++    IG IPK W V  +     + + +       + + I +   +++
Sbjct: 1   MVKFRWETEFKETE---IGKIPKDWNVKRLGDLCVITSSKRIYLREYTSEGIPFYRAKEI 57

Query: 57  ES-GTGKYLPKDGNSRQSDTS----TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQF 111
            S   G+ +                   +  +G +L   +G      ++   D       
Sbjct: 58  ISLSQGEQVKNCLYISNEKYEEIKAKYGVPKEGDLLLTAIGTIGYVYMVKQNDKFYFKDG 117

Query: 112 LVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIR 171
            VL  KD      +     + V  + + I  G++      K +  + +P PP  EQ  I 
Sbjct: 118 NVLWLKDFKNLYQKYLYFLLPVILKHQEIYIGSSQKALTIKDLKEVEIPYPPPEEQQKIA 177

Query: 172 EKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDH 231
             +      I+    +     ++  E  +           + +    +   + +    + 
Sbjct: 178 TVLSYFDDLIENKKKQNETLEKIALELFKNWFID-FEPFKDEEFVYNEELDKEIPKGWEV 236

Query: 232 WEVKPFFALVTELNRKNTKL----IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVD 287
             +     L+  ++ K++++     E+  ++L+        +T  +  K    +  Q + 
Sbjct: 237 KRLGEIAELIKGVSYKSSEISKEPEENIFITLNNFLRGGGFKTEYIYYKGTKAKETQKIK 296

Query: 288 PGEIVFRFIDLQ------NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD 341
            G+++    D+            +      E GII+     +        Y  +L   Y 
Sbjct: 297 EGDLIIALTDMTAEAKVVGAPAIVILPNNCEFGIISLDCAKIDLKDEFLKYYLYLYLKYS 356

Query: 342 LCKVFYAMGSGLRQSLKFEDVKRLP-VLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
             +            LK E  K    +L+PP      I    +     +   +   ++ I
Sbjct: 357 QEENSTFANGVNVLHLKVELFKNSKFILIPP----QPILQKFHSLVQPLFEKIINNQKQI 412

Query: 401 VLLKERRSSFIAAAVTGQIDL 421
           ++LK+ R + +   V G++ +
Sbjct: 413 MVLKKIRDALLPKLVFGELRV 433


>gi|294616003|ref|ZP_06695829.1| type I restriction-modification system specificity subunit
           [Enterococcus faecium E1636]
 gi|291591137|gb|EFF22820.1| type I restriction-modification system specificity subunit
           [Enterococcus faecium E1636]
          Length = 380

 Score =  108 bits (270), Expect = 1e-21,   Method: Composition-based stats.
 Identities = 61/398 (15%), Positives = 131/398 (32%), Gaps = 43/398 (10%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + W+   +   T+   G+      D+           +GKY P  G +   D     IF 
Sbjct: 16  EDWEERKLGELTESFDGKRVPIDSDLRI---------SGKY-PYYGATGIIDYVDDYIFN 65

Query: 83  KGQILYGKLGPYL-----RKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
              +L  + G  +       A +       +    +++ ++        +L+ +      
Sbjct: 66  GEYVLLAEDGANIIMRNYPVAYLTQGKFWLNNHAHIMRMRNGSN----YFLVQVLEKIDY 121

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           +    G      + K + NI + IP + EQ  I         ++D +I    R ++LLKE
Sbjct: 122 KKYNTGTAQPKLNSKIVKNIELKIPHIEEQQQIGNF----FKQLDDIIALHQRKLDLLKE 177

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
            K+  +  +  K      +++ SG        + WE +    +V     ++         
Sbjct: 178 TKKGFLQKMFPKNGAKVPEIRFSG------FTEDWEQRKLGEIVQITMGQSPNSENYTEN 231

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQ--IVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
              Y  +    + +N  + P  + T      + G+++        D        V+ RG+
Sbjct: 232 PEDYILVQGNADMKNNRVVPRVWTTQITKQAEKGDLILSVRAPVGDIGKTDYDVVLGRGV 291

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
                        +      L    +             +S+   D++   + +P  +EQ
Sbjct: 292 AA--------IKGNDFIFQQLGEMKESGYWNRFSTGSTFESINSNDIREALITIPTGEEQ 343

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
             I         ++D  +   ++ + LLKE +  F+  
Sbjct: 344 QKIGAF----FKQLDDTIALHQRKLDLLKETKKGFLQK 377



 Score = 50.9 bits (120), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 29/185 (15%), Positives = 56/185 (30%), Gaps = 9/185 (4%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + W+   +    ++  G++  S           +  G           R   T       
Sbjct: 204 EDWEQRKLGEIVQITMGQSPNSENYTENPEDYILVQGNADMKNNRVVPRVWTTQITKQAE 263

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           KG ++     P        D+D +       ++  D +       L  +  +        
Sbjct: 264 KGDLILSVRAPV-GDIGKTDYDVVLGRGVAAIKGNDFI----FQQLGEMKESGYWNRFST 318

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           G+T    +   I    + IP   EQ  I         ++D  I    R ++LLKE K+  
Sbjct: 319 GSTFESINSNDIREALITIPTGEEQQKIGAF----FKQLDDTIALHQRKLDLLKETKKGF 374

Query: 203 VSYIV 207
           +  + 
Sbjct: 375 LQKMF 379


>gi|89899861|ref|YP_522332.1| restriction modification system DNA specificity subunit [Rhodoferax
           ferrireducens T118]
 gi|89344598|gb|ABD68801.1| restriction modification system DNA specificity domain [Rhodoferax
           ferrireducens T118]
          Length = 397

 Score =  108 bits (270), Expect = 1e-21,   Method: Composition-based stats.
 Identities = 59/408 (14%), Positives = 120/408 (29%), Gaps = 33/408 (8%)

Query: 27  VVPIKRFTKLNTGRTSES--------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
            V +  F    +G T           G  I +I   ++         +         S++
Sbjct: 6   TVTLSEFCATGSGGTPSRAQMERYYEGGTIPWIKSGELRETVINGAEEHVTDVALKESSI 65

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
            +   G IL    G  + +  I   +   +     + P   +      +         + 
Sbjct: 66  KLVPAGAILLAMYGATVGRLGILGIEATTNQAVCHIIPDPRIAVTRYVYHALSSQVPSLI 125

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
           ++  G    + +   I N+ +P+P   EQ  I   +               +   L    
Sbjct: 126 SMGVGGAQPNINQGIIKNLAIPLPAKPEQRRIAAILDQADALRAKRREALAQLDSL---- 181

Query: 199 KQALVSYIVTKGLNPDVKMKD-SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
            Q++   +     +P    K       +G V     +         L  K T+ I    +
Sbjct: 182 TQSIFIQMFG---DPVSNPKGWPDATTLGQV---ANIASGVTKGRNLTGKVTRTIPYLAV 235

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
           +      +     + +    +  E Y +     ++    D     R       +   I  
Sbjct: 236 ANVQDKSLNLSAVKEIDATEDEIERYLLKWNDLLLTEGGDPDKLGRGTLWKNELPECIHQ 295

Query: 318 SAYMAVK--PHGIDSTYLAWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIK 373
           +    V+     +   +L WL+ S    K F      +    S+    ++  P+L+PP++
Sbjct: 296 NHIFRVRVTSQAVTPLFLNWLVGSQRGKKYFLRSAKQTTGIASINMTQLRSFPLLLPPVE 355

Query: 374 EQFD---ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            Q D   I  V+  + A           S+  L+    S    A  G+
Sbjct: 356 LQRDFETIAEVVAEQHA-------IHSVSLAELEALFVSLQHRAFRGE 396


>gi|303249550|ref|ZP_07335757.1| putative type I restriction enzyme specificity protein
           [Actinobacillus pleuropneumoniae serovar 6 str. Femo]
 gi|307251822|ref|ZP_07533724.1| type I restriction enzyme specificity protein [Actinobacillus
           pleuropneumoniae serovar 6 str. Femo]
 gi|302651624|gb|EFL81773.1| putative type I restriction enzyme specificity protein
           [Actinobacillus pleuropneumoniae serovar 6 str. Femo]
 gi|306860729|gb|EFM92740.1| type I restriction enzyme specificity protein [Actinobacillus
           pleuropneumoniae serovar 6 str. Femo]
          Length = 389

 Score =  108 bits (270), Expect = 1e-21,   Method: Composition-based stats.
 Identities = 55/417 (13%), Positives = 133/417 (31%), Gaps = 53/417 (12%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNS 70
           KD  V+W            +     L  GR               +E   G +      +
Sbjct: 8   KDCEVEW----------KSLGEVATLQRGRVISK---------TYLEENKGDFPVYSSQT 48

Query: 71  RQSDTSTV--SIFAKGQIL-YGKLGPYLRKAIIADFDGICST--QFLVLQPKDVLPELLQ 125
           + +       +    G+ + +   G               +     +V++ +D+L     
Sbjct: 49  QNNGEIGKINTYDFDGEFVNWTTDGANAGTVFYRKGKFSITNVSGLIVIKNQDLLNYKFL 108

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
            + L I+  + + +   G          +  I +PIP L  Q  I + +   T    TL 
Sbjct: 109 YYWLLIEAKKHVYS---GMGNPKLMSHQMEKIRIPIPSLEIQEKIVKILDIFTELEATLE 165

Query: 186 TERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN 245
                 + L  ++     + ++T G + + K        +G V +               
Sbjct: 166 ATLEAELSLRVKQYDYYRNDLLTFGDDVEWK-------TLGEVGELIRGNGLQ------- 211

Query: 246 RKNTKLIESNILSLSYGNIIQKL----ETRNMGLKPESYETYQIVDPGEIVFRFIDLQND 301
                  E+ + ++ YG I        +     +  +  +  +    G+++         
Sbjct: 212 --KKDFTETGVPAIHYGQIYTYFGTFADKTKTFVSADLAKKLKKAQFGDVLIAGTSENLQ 269

Query: 302 KRSLRSAQVMERGIITSAYMAVKPHG-IDSTYLAWLMRSYDLCKVFYAMGSGLRQ-SLKF 359
                   +    + +    A +P+  I++ +L +L+++ D  K       G +   +K 
Sbjct: 270 DVMKPLGWLGGEIVFSGDMFAFRPNQEINTKFLTYLLQTEDFQKYKERYAQGTKVIRMKS 329

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           ++  +  + +PP+  Q  I  +++      + + E + + I L ++     R   + 
Sbjct: 330 DNFLKYQIPIPPLATQQKIVEILDKFDRLTNSISEGLPKEIELRRKQYEYYREQLLN 386


>gi|110597491|ref|ZP_01385778.1| Restriction modification system DNA specificity domain [Chlorobium
           ferrooxidans DSM 13031]
 gi|110341035|gb|EAT59506.1| Restriction modification system DNA specificity domain [Chlorobium
           ferrooxidans DSM 13031]
          Length = 403

 Score =  108 bits (270), Expect = 1e-21,   Method: Composition-based stats.
 Identities = 64/434 (14%), Positives = 132/434 (30%), Gaps = 56/434 (12%)

Query: 8   PQYKDSGVQWIGAIPKHWKVVPIKRF-------TKLNTGRTSESGK--DIIYIGLEDVES 58
           P YK + V   G IP+ W+V+ +            +N+  T + G   +   +    V  
Sbjct: 5   PGYKQTEV---GVIPEDWEVIRLDSLISALDAGVSVNSVETEKVGYAHEGSILKTSCVYG 61

Query: 59  GTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPY-----LRKAIIADFDGICSTQFLV 113
           G            +          K  IL  ++                 +     +  +
Sbjct: 62  GKFDSEEHKKIHPRDIRRAKLNPRKNSILISRMNTPALVGECGFIDRDYPNLFLPDRLWM 121

Query: 114 LQPKDVLPELLQGWLLSIDVTQRIEAICEGAT-----MSHADWKGIGNIPMPIPPLAEQV 168
            + +   P  +  +   +       AI E AT     M +     +  + +P+P   EQ 
Sbjct: 122 TRHEGKRPTCILWFSYLLSFGSFNRAIKESATGTSGSMKNISKGSLFVLQVPLPNKIEQE 181

Query: 169 LIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLV 228
            I E +          I    + I   ++ KQ ++  ++T          +  +  +G +
Sbjct: 182 AIAEALSDADA----FIESLEQLIFKKRQIKQGVMQELLTGKKRLPGFSGEWMVTSLGEI 237

Query: 229 PDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDP 288
               +        +  + K   L                    N G+ P  Y        
Sbjct: 238 TIATKGSQLHGSESTKDGKYPHL--------------------NGGIAPSGYAEKSNTPA 277

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA 348
             I                  ++          ++    ID+ +L   ++      +   
Sbjct: 278 NTIAISEGGNS----CGYVQLMIVPYWCGGHCYSLISKCIDNGFLYQALKVQQTAIMGLR 333

Query: 349 MGSGLRQSLKFEDVKRLPVLVPPIK-EQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
           +GSGL  +++   +    +  P    EQ  I  V++     ID L  K+E++    +  +
Sbjct: 334 VGSGL-PNVQKSALLSFKLEYPSDDSEQTAIAEVLSEMDDEIDALTIKLEKA----RLLK 388

Query: 408 SSFIAAAVTGQIDL 421
            + +   +TG+I L
Sbjct: 389 QAMMHNLLTGKIRL 402



 Score = 80.6 bits (197), Expect = 5e-13,   Method: Composition-based stats.
 Identities = 23/175 (13%), Positives = 54/175 (30%), Gaps = 12/175 (6%)

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
           S  YG      E + +  +              I+   ++                 +  
Sbjct: 57  SCVYGGKFDSEEHKKIHPRDI-RRAKLNPRKNSILISRMNTPALVGECGFIDRDYPNLFL 115

Query: 318 SAYMAVKPH----GIDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVP 370
              + +  H         + ++L+      +      +G     +++    +  L V +P
Sbjct: 116 PDRLWMTRHEGKRPTCILWFSYLLSFGSFNRAIKESATGTSGSMKNISKGSLFVLQVPLP 175

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGES 425
              EQ  I   ++   A I+ L + I +     ++ +   +   +TG+  L G S
Sbjct: 176 NKIEQEAIAEALSDADAFIESLEQLIFKK----RQIKQGVMQELLTGKKRLPGFS 226


>gi|284048512|ref|YP_003398851.1| restriction modification system DNA specificity domain protein
           [Acidaminococcus fermentans DSM 20731]
 gi|283952733|gb|ADB47536.1| restriction modification system DNA specificity domain protein
           [Acidaminococcus fermentans DSM 20731]
          Length = 384

 Score =  108 bits (270), Expect = 2e-21,   Method: Composition-based stats.
 Identities = 69/396 (17%), Positives = 133/396 (33%), Gaps = 37/396 (9%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W+   +                +    G        G     DG +   +         
Sbjct: 17  DWEQRKVSDIVGRYDNLRVPVSSNKRVHGTTPYYGANGVQDYVDGYTHDGEY-------- 68

Query: 84  GQILYGKLGPY---LRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
             IL  + G            +     +    VLQ K  + +              I ++
Sbjct: 69  --ILIAEDGANDLQNYPVHYVNGRIWVNNHAHVLQGKTGIADTKFLSYAFS--QIDISSL 124

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
             G   +  +   +  + + +P   EQ    EK+      ID+LIT   R  E+LK+ K+
Sbjct: 125 LVGGGRAKLNAGVLMKLDLLLPEHKEQ----EKLGNYFSHIDSLITLHQRKYEMLKKIKK 180

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
           + +  +  K      +++ SG        D WE +   A+  E + K    + +  +   
Sbjct: 181 SFLEKMFPKNGKRVPELRFSG------FTDDWEQRKLGAIFEEYSDKGHPNLSALTIIQG 234

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
            G I +    RN+    +S   Y+ V+ G+ +      +         +    GII+ AY
Sbjct: 235 GGTIRRDDSDRNLQYDKKSLANYKKVETGDFIVHLRSFEG-----GLEKATTSGIISPAY 289

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKV-FYAMGSGLR--QSLKFEDVKRLPVLVPPIKEQFD 377
                 G DS +     RS             G+R  +S+  E +K + +    ++EQ  
Sbjct: 290 HTFHGEGTDSRFYYCYFRSERFINHDLKPHVYGIRDGRSIDIEGMKTINIPWTKVEEQKA 349

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           I N I+     +D L+   ++ +  L+  + + +  
Sbjct: 350 IGNYIDC----LDNLITLHQRKLEKLQNLKKALLKK 381


>gi|218709370|ref|YP_002416991.1| type I restriction enzyme EcoKI S subunit [Vibrio splendidus LGP32]
 gi|218322389|emb|CAV18542.1| Type I restriction enzyme EcoKI, S subunit [Vibrio splendidus
           LGP32]
          Length = 522

 Score =  108 bits (270), Expect = 2e-21,   Method: Composition-based stats.
 Identities = 67/480 (13%), Positives = 154/480 (32%), Gaps = 87/480 (18%)

Query: 20  AIPKHWKVVPIKRFT-----KLNTGRTSES-------GKDIIYIGLEDVE-----SGTGK 62
            +PK W              ++  G    +        +    + +++V+     +   K
Sbjct: 3   ELPKGWIACTPSDLANDPKNEIVDGPFGSNLKASEYTDEGTPIVRIQNVKRMAFLNKNIK 62

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFD---GICSTQFLVLQPKDV 119
           Y+       +++      F  G +L  KLG  L    IA      GI     + L+P   
Sbjct: 63  YV----TDEKAEFLKRHSFKSGDLLLTKLGEPLGLTCIAPEYLNEGIIVADIVRLRPNPE 118

Query: 120 LPELLQGWLLSID-VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
           +      +LL+ + V ++I A  +G+T +  +   + N+ + +PPLAEQ  I EKI    
Sbjct: 119 VNRKCLAYLLNSEGVIKQINAHTKGSTRARINLSVVRNLNINLPPLAEQKRIVEKIDEVL 178

Query: 179 VRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFF 238
            ++DT+        +LLK  +Q++++  V+  L  + + +      +  +    E + F 
Sbjct: 179 AQVDTIKARLDGIPDLLKRFRQSVLTSAVSGKLTEEWREEQDAYPTLNELKATIEQERFE 238

Query: 239 ALV-----TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVF 293
                    ++++      +        GN       +   +  E  +   ++   + V 
Sbjct: 239 IWCSAELNKKISKGKPPANDKWKEKYQPGNPKHNDSNKRTAV--EEIKAPWLLTSLDAVS 296

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL-------------------- 333
                +    +       +   ++ A +  + +  + +                      
Sbjct: 297 ILTTGKTPSTAKDEYWNGDTMFVSPAQIHPEGYLHNPSRYVSKAGCQIVPLISKGSTLIV 356

Query: 334 ---------------------------------AWLMRSYDLCKVFYAMGSGLRQS--LK 358
                                                    L             +  L 
Sbjct: 357 CIGTVGKVGLLTEDVVINQQINAITPLPSVTHKYMYYWCKTLYPWIIDTARATVNAAILN 416

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
              +   P  +PP++EQ +I  +++   A  D +  +++++   +     S +A A  G+
Sbjct: 417 KSTMSTAPFALPPLEEQKEIVRLVDQYFAFADTIEAQVKKAQARVDNLTQSILAKAFRGE 476



 Score = 53.3 bits (126), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 33/206 (16%), Positives = 67/206 (32%), Gaps = 9/206 (4%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNS 70
           K + V+    I   W +  +   + L TG+T  + KD  + G     S    +     ++
Sbjct: 276 KRTAVE---EIKAPWLLTSLDAVSILTTGKTPSTAKDEYWNGDTMFVSPAQIHPEGYLHN 332

Query: 71  RQSDTSTVS-----IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ 125
                S        + +KG  L   +G    K  +   D + + Q   + P   +     
Sbjct: 333 PSRYVSKAGCQIVPLISKGSTLIVCIGTV-GKVGLLTEDVVINQQINAITPLPSVTHKYM 391

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
            +         I+        +  +   +   P  +PPL EQ  I   +       DT+ 
Sbjct: 392 YYWCKTLYPWIIDTARATVNAAILNKSTMSTAPFALPPLEEQKEIVRLVDQYFAFADTIE 451

Query: 186 TERIRFIELLKEKKQALVSYIVTKGL 211
            +  +    +    Q++++      L
Sbjct: 452 AQVKKAQARVDNLTQSILAKAFRGEL 477


>gi|238924765|ref|YP_002938281.1| type I restriction enzyme EcoEI specificity protein [Eubacterium
           rectale ATCC 33656]
 gi|238876440|gb|ACR76147.1| type I restriction enzyme EcoEI specificity protein [Eubacterium
           rectale ATCC 33656]
          Length = 371

 Score =  108 bits (270), Expect = 2e-21,   Method: Composition-based stats.
 Identities = 45/400 (11%), Positives = 118/400 (29%), Gaps = 43/400 (10%)

Query: 26  KVVPIKRFTKLNTGRTSESG----KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
            ++ +        G   +      + +  I ++D+          D              
Sbjct: 4   DIIKLGDVATYINGYAFKPEDRGEEGLQIIRIQDLTGN-----SYDLGFYNGKYPKKIEI 58

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
             G +L       L   +      + +     ++   V  +              +    
Sbjct: 59  NDGDVLISWS-ASLGVYVWNGGKALLNQHIFKVKFDKVDIDKSYFVYAVRYKLNDMGKKT 117

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            GATM H   +      +P PPL +Q+ I   +    + I     E     EL       
Sbjct: 118 HGATMKHIVKRDFDATEIPYPPLKKQIEIAINLDKVLMVIKERKRELKLLDEL------- 170

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
                          +K   +E  G   +   +     ++T+   ++ K     I  +  
Sbjct: 171 ---------------IKARFVEMFGDCTNMISLSDLCLIITDGTHQSPKFQHEGIPFILV 215

Query: 262 GNIIQKLETRNMGL-----KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
            N+ +   T +          +       ++ G+I+   +        +   +       
Sbjct: 216 SNLSKNTVTYDTDKFISAETYKELYKRTPIEIGDILLSTVGSYGHPAVVVEDRKFLFQRH 275

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQ 375
             AY+  K   ++S Y+   + S    +       G  +++L   +++++ + VP +  Q
Sbjct: 276 -IAYLKPKSDILNSYYMHGALLSPGCQRQIEEKVKGIAQKTLNLSEIRKIRIPVPSLDLQ 334

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
               + ++    +++     +++++   +    S +    
Sbjct: 335 KQYADFVH----QVNKSKVAVQKALDETQILFDSLMQKYF 370


>gi|116627581|ref|YP_820200.1| restriction endonuclease S subunit [Streptococcus thermophilus
           LMD-9]
 gi|116100858|gb|ABJ66004.1| Restriction endonuclease S subunit [Streptococcus thermophilus
           LMD-9]
          Length = 387

 Score =  108 bits (270), Expect = 2e-21,   Method: Composition-based stats.
 Identities = 53/395 (13%), Positives = 123/395 (31%), Gaps = 32/395 (8%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + WK +  +   ++N+G+  +            +E G        G       +   I  
Sbjct: 18  ESWKRLKYEDVIEVNSGKDYK-----------HLEKGDIPVYGTGGYMLSVSEA---ITN 63

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           K  +  G+ G   +  I+        T F  +       +    ++ +I    + E   E
Sbjct: 64  KDGVGIGRKGTINKPYILKAPYWTVDTLFFCIPK----NKYNLYFINAIFERTQWERFDE 119

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
              +       I NI    P   EQ  I          + +        +   +  K  +
Sbjct: 120 STGVPSLSKLTINNIQNYFPSFDEQSAIGSLFRTLDDLLASY----KDNLANYQSLKATM 175

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
           +S +  K      +++  G E    + +           T    K+ +   + I + S  
Sbjct: 176 LSKMFPKAGQTVPEIRLDGFEGEWKLYELKSRAETITKGTTPKDKSWQGEVNYIKTESIN 235

Query: 263 NIIQKLETRNMGLKPES--YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
                L         E   Y    I+   +++F  +        +    +          
Sbjct: 236 RDTGSLVRTASTSLDEHLGYLKRSILKEDDVLFSIVGTLGVVGIVDKKDLPAN--TNQQI 293

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPP-IKEQFDI 378
             ++    D+ ++   ++S  +     +  + G + SL    ++++ V +PP ++EQ  I
Sbjct: 294 AIIRLKRDDAIFMLNFLKSPRIKSFIKSDSTIGAQPSLSLWQIEKIKVSLPPSLEEQQAI 353

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
                   + +D L+   ++ I  L+  +   +  
Sbjct: 354 GTY----FSNLDNLINSHQEKISQLETLKKKLLQD 384


>gi|238019006|ref|ZP_04599432.1| hypothetical protein VEIDISOL_00868 [Veillonella dispar ATCC 17748]
 gi|237864490|gb|EEP65780.1| hypothetical protein VEIDISOL_00868 [Veillonella dispar ATCC 17748]
          Length = 407

 Score =  108 bits (269), Expect = 2e-21,   Method: Composition-based stats.
 Identities = 63/404 (15%), Positives = 135/404 (33%), Gaps = 26/404 (6%)

Query: 23  KHWKVVPIKRFTKLNTGRTSES---GKDIIYIGLEDV-ESGTGKYLPKDGNSRQSDTSTV 78
           + W+   +     L  G        GK   +I L+++  S        +           
Sbjct: 14  EDWEQCKLGNLGTLKNGMNFSKEAMGKGYPFINLQNIFGSNVIDLTKLEKAEATDSQLKD 73

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDG------ICSTQFLVLQPKDVLPELLQGWLLSI- 131
               KG +L+ +    L     A            S   +  +    L    + ++    
Sbjct: 74  YNLQKGDVLFVRSSVKLEGVGEAALISEDLKDTTFSGFIIRFRDNYGLDYNFKRFIFITV 133

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            +  +I +    +   +     + N+ + IP   EQ     KI     ++D  IT   R 
Sbjct: 134 LIRNQIMSQATNSANKNISQSVLNNLYLFIPTKDEQ----SKIGLIFSKLDKCITLHQRK 189

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           +E LK  K+AL+  +  K  +   +++  G        +  +      L    N++N   
Sbjct: 190 LEKLKLAKKALLQKLFPKNGSQFPEIRFKG---FTDAWEQCKFSDITYLSGIKNKENKPY 246

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
              +I +        +       +K      Y IV      +     + +  S+      
Sbjct: 247 ESYSISNEFGFIPQDEQFENGGTMKTADKSMYYIVSQNSFAYNP--ARINVGSIGYYDKP 304

Query: 312 ERGIITSAYMAVKPHGIDSTYLAW-LMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLV 369
           +  I++S Y   K   I S    W   +S    ++       G+R    ++ + +  + +
Sbjct: 305 DNVIVSSLYEVFKTTDIVSDKFLWHWFKSNQFNRLIEKYQEGGVRLYFYYDKLCKGTIEL 364

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           P I EQ  I+N+++     +D+ +   ++ +  L+E +   +  
Sbjct: 365 PTINEQNKISNLLDD----LDMYITLHQRKLDKLQEVKKGLLQK 404


>gi|257088128|ref|ZP_05582489.1| predicted protein [Enterococcus faecalis D6]
 gi|256996158|gb|EEU83460.1| predicted protein [Enterococcus faecalis D6]
          Length = 395

 Score =  108 bits (269), Expect = 2e-21,   Method: Composition-based stats.
 Identities = 61/394 (15%), Positives = 137/394 (34%), Gaps = 24/394 (6%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + W+    +   K++TG+ +   K         VE+G     P    S   + S   ++ 
Sbjct: 18  EEWEQCKAEELCKISTGKGNTQDK---------VENGK---YPFYVRSENIERSNYFLYD 65

Query: 83  KGQILYGKLGPYLRKAIIA--DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
           +  +L    G    +          +    + +      +      +  S++  +R+ ++
Sbjct: 66  QEAVLTVGDGVGTGRVFHYVSGKYNLHQRVYRMYDFNKQISAKYFYYYFSLNFHRRVRSL 125

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
               ++       I ++ +  P   EQ+ I   +      +   IT   R +E LKE K+
Sbjct: 126 TAKTSVDSVRLNMIADMEIKYPSELEQLKIFSFLDY----LIKSITLHQRKLEQLKELKK 181

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
           A +  +  K      +++ +  E          +             N+     +I  LS
Sbjct: 182 AYLQLMFPKKDETLPRVRFADFEGEWEQCKLKNLFLKGGSGGTPTSSNSDYYNGDIPFLS 241

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
             +I +         K  S E  +      +    I L       + A +      + A+
Sbjct: 242 ISDITKSNGYIYTTEKCISLEGLKNSSAWIVPKESISLAMYASVGKVAILKLDIATSQAF 301

Query: 321 MAVKPHGID--STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
             +    I+  +    +L++     +    + +G + +L  + VK   VL+P   EQ  I
Sbjct: 302 YNMIFEDINTRNYIYHYLIKKEVFNEWITLISTGTQANLNADKVKNTFVLIPSNNEQKKI 361

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
             ++      I+V ++  ++ I +LK  + S++ 
Sbjct: 362 AELLRC----IEVSIDIQQKKIHILKSLKKSYLQ 391


>gi|325917799|ref|ZP_08179981.1| restriction endonuclease S subunit [Xanthomonas vesicatoria ATCC
           35937]
 gi|325535973|gb|EGD07787.1| restriction endonuclease S subunit [Xanthomonas vesicatoria ATCC
           35937]
          Length = 756

 Score =  108 bits (269), Expect = 2e-21,   Method: Composition-based stats.
 Identities = 87/479 (18%), Positives = 146/479 (30%), Gaps = 87/479 (18%)

Query: 20  AIPKHWKVVPIKRFTKL-NTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
            +P  W+   +   T    T +  E  +D   + LED+E  T K L K     ++  S  
Sbjct: 82  ELPVTWEWARLGEITNFGITVKKEEIPEDAWVLDLEDIEKDTSKLLQKARFKERNSLSDK 141

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPK-DVLPELLQGWLLSIDVTQRI 137
           + F KG +LYGKL PYL K ++AD DG C+T+ L  +     L     G L S    + +
Sbjct: 142 NFFNKGDVLYGKLRPYLNKVLVADEDGFCTTEILPFRCYGPFLANYFMGALKSPYFLRYV 201

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
            A   G  M     +       P+PPLAEQ  I  K+       D L   +        +
Sbjct: 202 NARSYGMKMPRLGTEDGRQALFPLPPLAEQYRIVAKVDELMALCDRLDARQADADSAHVQ 261

Query: 198 KKQA-----------------------------------------LVSYIVTKGLNPDVK 216
             QA                                         L+   V   L P   
Sbjct: 262 LVQALLDSLTQARNAEDFAQSWQRLAEHFHTLFTTEPSIDALKQILLQLAVMGKLVPQDP 321

Query: 217 MKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLET----RN 272
             +   E +  +     +      + +    +    +  +  L    I  +       + 
Sbjct: 322 SDEPASELLRRIAKEKALLVAEGKIKKQKVLSEIEKDEALFELPSSWIWTRFGNVCAIKG 381

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI---- 328
             ++PE + + + V P  I      L +++    S          +  +           
Sbjct: 382 ELVRPEDFPSLRQVAPDCIEKGTGRLTDNRTVKDSGVKGPNSRFFAGQIVYSKIRPSLSK 441

Query: 329 ------------DSTYLAWLMRSYDLCKVFYAM-----GSGLRQSLKFEDVK-----RLP 366
                       D   +   + S  L K   +             +K   +         
Sbjct: 442 AVLVDFDGLCSADMYPIDAFINSEFLLKEILSAVFLEQVRVAENRIKMPKLNQESMANFV 501

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS-------SFIAAAVTGQ 418
           + +PP+ EQ  I   ++   A  D L  +       L E R        + I  A+ G+
Sbjct: 502 LPIPPLAEQRRIVAKVDQLMALCDQLKAR-------LGEVRQVHGSLANALIGQALNGE 553



 Score = 68.7 bits (166), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 32/205 (15%), Positives = 67/205 (32%), Gaps = 18/205 (8%)

Query: 220 SGIEWVGLVPDHWEVKPFFA--LVTELNRKNTKLIESNILSLSYG-NIIQKLETRNMGLK 276
           SG      +P  WE              +K     ++ +L L        KL  +    +
Sbjct: 75  SGDGVPFELPVTWEWARLGEITNFGITVKKEEIPEDAWVLDLEDIEKDTSKLLQKARFKE 134

Query: 277 PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWL 336
             S       + G++++  +    +K  +      +    T            + Y    
Sbjct: 135 RNSLSDKNFFNKGDVLYGKLRPYLNKVLVA---DEDGFCTTEILPFRCYGPFLANYFMGA 191

Query: 337 MRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL--- 392
           ++S    +   A   G+    L  ED ++    +PP+ EQ+ I   ++   A  D L   
Sbjct: 192 LKSPYFLRYVNARSYGMKMPRLGTEDGRQALFPLPPLAEQYRIVAKVDELMALCDRLDAR 251

Query: 393 --------VEKIEQSIVLLKERRSS 409
                   V+ ++  +  L + R++
Sbjct: 252 QADADSAHVQLVQALLDSLTQARNA 276


>gi|260582498|ref|ZP_05850289.1| type I restriction/modification specificity protein [Haemophilus
           influenzae NT127]
 gi|260094478|gb|EEW78375.1| type I restriction/modification specificity protein [Haemophilus
           influenzae NT127]
          Length = 455

 Score =  108 bits (269), Expect = 2e-21,   Method: Composition-based stats.
 Identities = 61/468 (13%), Positives = 138/468 (29%), Gaps = 85/468 (18%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYLPK---DGNSRQ 72
            +WKV+ +     +  G T  S K       +I +I  +D+     +Y+ K   +     
Sbjct: 2   SNWKVMKLSEVATIVGGGTPSSSKSEYFENGNIPWITPKDLSGYNKRYISKGERNITELG 61

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
              S+  +  K  +L     P    AI ++          ++     +PE    + L  +
Sbjct: 62  LKNSSAKLLPKNTVLLTSRAPIGYVAIASNEISTNQGFKSLVLNNGHIPE--FFYYLLKN 119

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
               +E+   G+T      + + +  + IP    Q  I + +     +I+          
Sbjct: 120 NVHILESRATGSTFKEISGQILKDTELSIPTPDIQQKIVDILSPLDDKIELNTQINQTLE 179

Query: 193 ELLKEKKQALV---------SYIVTKGL-------------------------------- 211
           ++ +   ++              ++ GL                                
Sbjct: 180 QIAQALFKSWFVDFDPVRAKVQALSDGLSLEQAELAAMQAISGKTPEELTALSQTQPDRY 239

Query: 212 ----NPDVKMKDSGIEWVG-LVPDHWEVKPFFALVTELNRK-----NTKLIESNILSLSY 261
                         +E  G   P  WE+K    L   +  K     N +     +  +  
Sbjct: 240 AELAETAKVFPCEMVEIDGVEAPRGWEMKALSDLGQIICGKTPSKSNKEFYGDAVPFIKI 299

Query: 262 GNIIQKL----ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
            ++  ++     T N+ +   +Y++ + +    I    I                + I +
Sbjct: 300 PDMHNQVFITQTTDNLSVVGANYQSKKYIPAKSICVSCIATVGLVSMTSKPSHTNQQINS 359

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ--SLKFEDVKRLPVLVPPIKE- 374
                +        +L   ++   + K    + SG     +L      ++ ++ P  +  
Sbjct: 360 ----IIPDDEQSCEFLYLSLKQPSMTKYLKDLASGGTATFNLNTSTFSKIEIITPSKEII 415

Query: 375 ---QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
              Q  + ++          L   IE     L E R   +   ++G+I
Sbjct: 416 YIFQKKVVSIFEK------TLSNSIENK--RLTEIRDLLLPRLLSGEI 455



 Score = 45.6 bits (106), Expect = 0.017,   Method: Composition-based stats.
 Identities = 13/131 (9%), Positives = 42/131 (32%), Gaps = 7/131 (5%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKD------IIYIGLEDVESG-TGKYLPKDGNSRQSD 74
           P+ W++  +    ++  G+T            + +I + D+ +         + +   ++
Sbjct: 262 PRGWEMKALSDLGQIICGKTPSKSNKEFYGDAVPFIKIPDMHNQVFITQTTDNLSVVGAN 321

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
             +        I    +      ++ +           ++   +   E L   L    +T
Sbjct: 322 YQSKKYIPAKSICVSCIATVGLVSMTSKPSHTNQQINSIIPDDEQSCEFLYLSLKQPSMT 381

Query: 135 QRIEAICEGAT 145
           + ++ +  G T
Sbjct: 382 KYLKDLASGGT 392


>gi|160939416|ref|ZP_02086766.1| hypothetical protein CLOBOL_04309 [Clostridium bolteae ATCC
           BAA-613]
 gi|158437626|gb|EDP15388.1| hypothetical protein CLOBOL_04309 [Clostridium bolteae ATCC
           BAA-613]
          Length = 378

 Score =  108 bits (269), Expect = 2e-21,   Method: Composition-based stats.
 Identities = 60/392 (15%), Positives = 131/392 (33%), Gaps = 23/392 (5%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
            I       + R   +  +++ + + D      +   KD +    D S+  +  KG ++Y
Sbjct: 4   RIGDIYAERSER-GAADMELLSVTMNDGVMQRSEIEGKDNS--SEDKSSYKVVRKGDMVY 60

Query: 89  GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ-GWLLSIDVTQRIEAICEGAT-- 145
             +  +     ++ +DGI S  + VL  K  +          +  +        +G T  
Sbjct: 61  NSMRMWQGANGVSPYDGIVSPAYTVLTAKLPICNDYFAALFKNYKLINEFRKNSQGMTSD 120

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
             +  +  I  I + +P + EQ  I   +    V +D  I  +   IE LK+ K+ ++S 
Sbjct: 121 TWNLKYPQIETIKVYLPVIEEQEKIASIL----VTLDKRIAAQAALIEQLKKYKRGVISA 176

Query: 206 IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII 265
           +++   NP    +      +  V   +E          +   + K I    +  +     
Sbjct: 177 LLSSKTNPYYSSETWKEVALCDVASGFEYG--MNAAATVYDGSHKYIRITDIDDNSHLYS 234

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
           Q +     G   E Y     V   +I+F        K   R  +           + +  
Sbjct: 235 QDVPVSPEGQVDEKY----RVRENDILFARTGASVGKSY-RYQRSDGDLYYAGFLIRIHV 289

Query: 326 HGIDSTYLAWL--MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
           +   +    +   +       V        +  +  E  K+   L+PP++ Q  I    +
Sbjct: 290 NSDVNCGYVFQNTLTEAYRRWVLLESARSGQPGINAEQYKQYRFLLPPLELQNKI----S 345

Query: 384 VETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
                +D L+ K    +  +++ + + +    
Sbjct: 346 TLATNLDNLICKEGNLLSQIEQVKIALLQRLF 377



 Score = 82.5 bits (202), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 33/157 (21%), Positives = 68/157 (43%), Gaps = 12/157 (7%)

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
           Q+ E        E   +Y++V  G++V+  + +      +        GI++ AY  +  
Sbjct: 33  QRSEIEGKDNSSEDKSSYKVVRKGDMVYNSMRMWQGANGVSPYD----GIVSPAYTVLTA 88

Query: 326 H-GIDSTYLAWLMRSYDLCKVFYAMGSGLR---QSLKFEDVKRLPVLVPPIKEQFDITNV 381
              I + Y A L ++Y L   F     G+     +LK+  ++ + V +P I+EQ  I ++
Sbjct: 89  KLPICNDYFAALFKNYKLINEFRKNSQGMTSDTWNLKYPQIETIKVYLPVIEEQEKIASI 148

Query: 382 INVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           +      +D  +      I  LK+ +   I+A ++ +
Sbjct: 149 LVT----LDKRIAAQAALIEQLKKYKRGVISALLSSK 181


>gi|325685549|gb|EGD27638.1| type I site-specific deoxyribonuclease [Lactobacillus delbrueckii
           subsp. lactis DSM 20072]
          Length = 501

 Score =  108 bits (269), Expect = 2e-21,   Method: Composition-based stats.
 Identities = 64/436 (14%), Positives = 135/436 (30%), Gaps = 58/436 (13%)

Query: 22  PKHWKVVPIKRFTKLNTGR---------------TSESGKDIIYIGLEDVESGTGKYLPK 66
           P +W+V  +        G                  +S          +    T  Y   
Sbjct: 64  PTNWEVTRLIEICAKVKGAIKRGPFGSSITKAMFVPKSKNTFKVYEQGNAIRKTTDYGEY 123

Query: 67  DGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD--FDGICSTQFLVLQPKDVLPELL 124
                + +         G I+    G      +I      GI +   + L   + + +  
Sbjct: 124 YMPDSEFERLKSFEVHAGDIIISCAGTIGEAFVIPKTFERGIINQALMKLTIDENIIDKQ 183

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGI--GNIPMPIPPLAEQVLIREKIIAETVRID 182
              L+   +T ++    +G+ + +          +  P+PPLAEQ  I E++      +D
Sbjct: 184 FFLLVFKSITGQLREHSKGSAIKNLASLKYLKNEVTFPLPPLAEQKRIVERLDQIMPLVD 243

Query: 183 TLITERIRFIELL----KEKKQALVSYIVTKGLNPDVKMKDSGIEWV------------- 225
                  R  E+        K++L+ Y +   L       +   E +             
Sbjct: 244 KYAETYNRLQEIDKGIGDRLKKSLLQYAMGGKLVDQDPNDEPASELLKRIRAEKSELIKK 303

Query: 226 ------------------GLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK 267
                               +PD WE      L+   ++       + +   S  N +QK
Sbjct: 304 SKIKKSKKLPEITEDEKPFDIPDSWEWVRLGELLKPESKVKPTKNFTYVDIASLDNKVQK 363

Query: 268 LETRNMGLKPESY---ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
           + +       +        Q+++  +I++  +       ++   +       +   +   
Sbjct: 364 IISPKYVDVSKDKIPVRATQLINRNDILYSLVRPYLKNVAIVPKKFDGAIATSGFCVLKP 423

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
                + YL W + S       +A   GL   S+K  D+   P+ +PP+ EQ  I   ++
Sbjct: 424 LKESLTQYLFWALLSPYTTDEMHARMKGLNSPSIKKGDLIGWPIPLPPLAEQKRIVTKLS 483

Query: 384 VETARIDVLVEKIEQS 399
               ++D+L + +E  
Sbjct: 484 KLFKQVDILQKDLEAK 499



 Score = 72.9 bits (177), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 34/183 (18%), Positives = 65/183 (35%), Gaps = 20/183 (10%)

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYE---TYQIVDPGEIVFRFIDLQNDKRSLR 306
              ++       GN I+K         P+S         V  G+I+        +   + 
Sbjct: 99  PKSKNTFKVYEQGNAIRKTTDYGEYYMPDSEFERLKSFEVHAGDIIISCAGTIGEAFVIP 158

Query: 307 SAQVMERGIITSAYMA--VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKR 364
                ERGII  A M   +  + ID  +   + +S       ++ GS ++     + +K 
Sbjct: 159 K--TFERGIINQALMKLTIDENIIDKQFFLLVFKSITGQLREHSKGSAIKNLASLKYLKN 216

Query: 365 -LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE--------RRSSFIAAAV 415
            +   +PP+ EQ  I   ++     +D   E   +    L+E         + S +  A+
Sbjct: 217 EVTFPLPPLAEQKRIVERLDQIMPLVDKYAETYNR----LQEIDKGIGDRLKKSLLQYAM 272

Query: 416 TGQ 418
            G+
Sbjct: 273 GGK 275



 Score = 65.2 bits (157), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 38/170 (22%), Positives = 64/170 (37%), Gaps = 9/170 (5%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT---S 76
            IP  W+ V +     L      +  K+  Y+ +  +++   K +         D     
Sbjct: 323 DIPDSWEWVRLGEL--LKPESKVKPTKNFTYVDIASLDNKVQKIISPKYVDVSKDKIPVR 380

Query: 77  TVSIFAKGQILYGKLGPYLRKAII----ADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
              +  +  ILY  + PYL+   I     D     S   ++   K+ L + L   LLS  
Sbjct: 381 ATQLINRNDILYSLVRPYLKNVAIVPKKFDGAIATSGFCVLKPLKESLTQYLFWALLSPY 440

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
            T  + A  +G          +   P+P+PPLAEQ  I  K+     ++D
Sbjct: 441 TTDEMHARMKGLNSPSIKKGDLIGWPIPLPPLAEQKRIVTKLSKLFKQVD 490


>gi|124002922|ref|ZP_01687773.1| HsdS [Microscilla marina ATCC 23134]
 gi|123991572|gb|EAY30980.1| HsdS [Microscilla marina ATCC 23134]
          Length = 402

 Score =  108 bits (269), Expect = 2e-21,   Method: Composition-based stats.
 Identities = 52/397 (13%), Positives = 122/397 (30%), Gaps = 36/397 (9%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKD------GNSRQSDTSTVSIF 81
             +   T L + R  ++ K    + +  + +  G    ++       + R  D S   I 
Sbjct: 28  KRLGDITILVSKRNKDNKK----LPVYSINNKEGFLPQEEQFEGVISSKRGYDISLYKII 83

Query: 82  AKGQILYGKLGPYLRKAIIAD--FDGICSTQFLVLQPKDVLPELLQG-WLLSIDVTQRIE 138
            +    Y      +     +   ++ I S+ ++  Q +D +       +  +      + 
Sbjct: 84  ERNTFAYNPARIDVGSIGFSGDLYNIIISSLYVCFQTEDNIDNHFLWQFFNTYYFNTTVR 143

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
              EG   ++  ++    IP+ IP   EQ  I + + +        I      +E L   
Sbjct: 144 NNVEGGIRNYLFYENFSRIPVAIPKKLEQQKIADCLRSLDQL----IVVHETRLESLNNH 199

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
           K+ L+  +  +      +++    +  G   +              + KN          
Sbjct: 200 KKGLMQQLFPQEGEKVPRLRFPEFKGNGEWEEKELGSIAKVTTGNKDTKNKVDNGQYPFF 259

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
           +   N+          +   S++   I+  G+        +N    +      +R     
Sbjct: 260 VRSQNV--------ERIDSYSFDGEAILTSGD---GVGVGKNFHYIIGKFDFHQRVYA-- 306

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
             +      +   Y+      Y   +V          S++   +  +P+  P  KEQ  I
Sbjct: 307 --IYDFTEVVLGKYIFMYFSQYFYDRVMKMSAKNSVDSVRKAMITEMPIKFPSPKEQQKI 364

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            + +    + +D L+    Q I  L + +   +    
Sbjct: 365 ADCL----SSLDTLIAAEAQKIGALGKHKKGLMQQLF 397


>gi|283477074|emb|CAY72969.1| type I restriction-modification system specificity subunit [Erwinia
           pyrifoliae DSM 12163]
          Length = 474

 Score =  108 bits (269), Expect = 2e-21,   Method: Composition-based stats.
 Identities = 55/464 (11%), Positives = 135/464 (29%), Gaps = 72/464 (15%)

Query: 24  HWKVVPIKRFT-KLNTGRTSESGKDIIY-------IGLEDVESGTGKYLPK-DGNSRQSD 74
            W  V +     K+ +G T + GK +         I  +++ +   K           + 
Sbjct: 4   DWSFVRLGDHCLKIGSGATPKGGKSVYLDNGKTSLIRSQNIYNDGFKNSGLAYITEDAAK 63

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADF---DGICSTQ--FLVLQPKDVLPELLQGWLL 129
                    G IL    G  + +  +A         +     +    K+     ++ +L 
Sbjct: 64  KLNNVEVQDGDILLNITGDSVARVCLAPEGHLPARVNQHVAIIRPNSKEFDARFIRYFLA 123

Query: 130 SIDVTQRIEAICE-GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
           S      +  I   GAT +      I ++ +  P L  Q  I +++ +   +I +     
Sbjct: 124 SPAQQNVLLTIASAGATRNALTKSNIESLLICKPCLKNQKWIADQLESLDKKIHSNQQIN 183

Query: 189 IRFIELLKEKKQAL---------------------------VSYIVTKGLNPDVKMKDSG 221
               ++ +   ++                            ++ I  K  +     K   
Sbjct: 184 QTLEQMAQALFKSWFVDFEPVKAKIALLEAGGSQQEATLAAMTAISGKDADSLEVFKHKQ 243

Query: 222 IE-------------------WVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
            E                    +G +P  W        +           E         
Sbjct: 244 PEKYAELKATAELFPSAMQESELGEIPQGWTNSEIGEEIDIAGGATPSTKEPKFWENGDI 303

Query: 263 NIIQKLETRNMGLKPESYETYQI-------VDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
           N     +  N+  K       +I       +  G +    + + +       A       
Sbjct: 304 NWTTPKDLSNLQDKILIKTDRKITDRGLAKISSGLLAIDTVLMSSRAPVGYLALTKIPVA 363

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
           I   Y+A+K +   +        ++++ ++           +  ++   +P++ P     
Sbjct: 364 INQGYIAMKCNYDLNPEFVLQWCNHNMPEIISRASGTTFAEISKKNFNPIPLIKPT---- 419

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
             + ++   E   + +L+EK  +   +L++ R + +   ++G+I
Sbjct: 420 KKMVDIYTREVRSLYLLIEKNVRKTEILQQLRDTLLPKLLSGEI 463



 Score = 59.0 bits (141), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 27/197 (13%), Positives = 59/197 (29%), Gaps = 12/197 (6%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKY---LPKD 67
           +G IP+ W    I     +  G T  + +       DI +   +D+ +   K      + 
Sbjct: 266 LGEIPQGWTNSEIGEEIDIAGGATPSTKEPKFWENGDINWTTPKDLSNLQDKILIKTDRK 325

Query: 68  GNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW 127
              R     +  + A   +L     P      +       +  ++ ++    L       
Sbjct: 326 ITDRGLAKISSGLLAIDTVLMSSRAPV-GYLALTKIPVAINQGYIAMKCNYDLN-PEFVL 383

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
                    I +   G T +    K    IP+  P      +   ++ +  + I+  + +
Sbjct: 384 QWCNHNMPEIISRASGTTFAEISKKNFNPIPLIKPTKKMVDIYTREVRSLYLLIEKNVRK 443

Query: 188 RIRFIELLKEKKQALVS 204
                +L       L+S
Sbjct: 444 TEILQQLRDTLLPKLLS 460


>gi|126665708|ref|ZP_01736689.1| type I restriction-modification enzyme S subunit [Marinobacter sp.
           ELB17]
 gi|126629642|gb|EBA00259.1| type I restriction-modification enzyme S subunit [Marinobacter sp.
           ELB17]
          Length = 576

 Score =  108 bits (269), Expect = 2e-21,   Method: Composition-based stats.
 Identities = 71/465 (15%), Positives = 125/465 (26%), Gaps = 88/465 (18%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           IPK W    +       TG T    K      DI ++   D+          +G +    
Sbjct: 101 IPKAWSWQALGALGYTQTGSTPSKSKSEFFGSDIPFLKPGDISENGDVRYENEGLTEAGK 160

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
           ++      K  IL   +G   +  +I            +          L   L S    
Sbjct: 161 SALGKWAQKESILMVCIGTIGKCGLIERQSTFNQQINSITPYILETSRFLLLCLKSPYFQ 220

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE----------------- 177
           +         T+S  +     +IP+P+PP  EQ  I +K+                    
Sbjct: 221 KAAWEKSSSTTISILNKGKWESIPVPLPPTEEQHRIVQKVDELMALCDRLEQQSSDQLKA 280

Query: 178 ------------------------TVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNP 213
                                     R+           + + + KQ ++   V   L  
Sbjct: 281 HETLVDTLLGTLTQSENATELADNWARLAAHFDTLFTTEQSIDKLKQTVLQLAVMGRLVE 340

Query: 214 DVKMKDSGIEWV-----------------------------GLVPDHWEVKPFFALVTEL 244
              + +S  E +                               +P  W     F      
Sbjct: 341 QNPVDESAAELIVRVSMEKAQRQKRKRTQKAPCEISAEVKPFDIPKSWLWTSLFNTGFTS 400

Query: 245 NRKNT-----KLIESNILSLSYGNIIQKLET--RNMGLKPESYETYQIVDPGEIVFRFID 297
             K            NI  L  G +    E       L  +     +   PG+I+   I 
Sbjct: 401 TGKTPSTKVPNFFSGNIPFLGPGQVTGSGEILAPEKFLSEDGLSLSEEAIPGDIMTVCIG 460

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQS 356
               K +    ++ ER         V+P  I+  YL   +++        A  +G     
Sbjct: 461 GSIGKTA----KITERCGFNQQLNKVRPVLIEPDYLLATLKADFFQNAVLAKATGSATPI 516

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
           +       + V + P+ EQ  I   ++   A  D L +++ Q+  
Sbjct: 517 INRSKWDSIEVPIAPLAEQKRIVQKVDELMALCDQLKQRLNQASE 561



 Score = 73.7 bits (179), Expect = 6e-11,   Method: Composition-based stats.
 Identities = 27/208 (12%), Positives = 59/208 (28%), Gaps = 13/208 (6%)

Query: 213 PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
           P   +     ++   +P  W  +   AL            +S         +     + N
Sbjct: 86  PKAIINVPEADYPFSIPKAWSWQALGALGYTQTGSTPSKSKSEFFGSDIPFLKPGDISEN 145

Query: 273 MGLKPESYETY--------QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
             ++ E+            +      I+   I        +       + I +       
Sbjct: 146 GDVRYENEGLTEAGKSALGKWAQKESILMVCIGTIGKCGLIERQSTFNQQINS----ITP 201

Query: 325 PHGIDSTYLAWLMRSYDLCKV-FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
                S +L   ++S    K  +    S     L     + +PV +PP +EQ  I   ++
Sbjct: 202 YILETSRFLLLCLKSPYFQKAAWEKSSSTTISILNKGKWESIPVPLPPTEEQHRIVQKVD 261

Query: 384 VETARIDVLVEKIEQSIVLLKERRSSFI 411
              A  D L ++    +   +    + +
Sbjct: 262 ELMALCDRLEQQSSDQLKAHETLVDTLL 289



 Score = 59.4 bits (142), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 39/195 (20%), Positives = 72/195 (36%), Gaps = 7/195 (3%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESG------KDIIYIGLEDVESGTGKYLPKDGNSRQS 73
            IPK W    +      +TG+T  +        +I ++G   V +G+G+ L  +    + 
Sbjct: 383 DIPKSWLWTSLFNTGFTSTGKTPSTKVPNFFSGNIPFLGPGQV-TGSGEILAPEKFLSED 441

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
             S       G I+   +G  + K          + Q   ++P  + P+ L   L +   
Sbjct: 442 GLSLSEEAIPGDIMTVCIGGSIGKTAKITERCGFNQQLNKVRPVLIEPDYLLATLKADFF 501

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
              + A   G+     +     +I +PI PLAEQ  I +K+       D L     +  E
Sbjct: 502 QNAVLAKATGSATPIINRSKWDSIEVPIAPLAEQKRIVQKVDELMALCDQLKQRLNQASE 561

Query: 194 LLKEKKQALVSYIVT 208
              +    +V+  + 
Sbjct: 562 TRCQLANTVVAAALD 576


>gi|239827072|ref|YP_002949696.1| restriction modification system DNA specificity domain protein
           [Geobacillus sp. WCH70]
 gi|239807365|gb|ACS24430.1| restriction modification system DNA specificity domain protein
           [Geobacillus sp. WCH70]
          Length = 428

 Score =  108 bits (269), Expect = 2e-21,   Method: Composition-based stats.
 Identities = 66/424 (15%), Positives = 140/424 (33%), Gaps = 29/424 (6%)

Query: 23  KHWKVVPIKRFT-KLNTGRTSESGKD---IIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
             WK   +K     ++ G T+ + ++     ++ + D+ +    +      S        
Sbjct: 4   SEWKTYSLKDICTDISYGYTASAKEEKVGPKFLRITDLRNEFIDWESVPYCSINEKDYKK 63

Query: 79  SIFAKGQILYGKLGPYLRK--AIIADFDGICSTQFLVLQPKDVL--PELLQGWLLSIDVT 134
                G +   + G        I  D D + ++  +  +    +  P  ++    S    
Sbjct: 64  YKLEIGDLCIARTGATTGINTVIEEDVDAVFASYLVRFKLNKEIVDPTFIKYIFKSNMWY 123

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             + +I  G+    A+ + + N  M IP L EQ  I   +     +    I    +  + 
Sbjct: 124 GYVNSIISGSAQPGANAQQMSNFKMSIPDLDEQKKIASVLSVLDKK----IVLNNKINKT 179

Query: 195 LKEKKQALVSYIVTKGLNPD---VKMKDSG----IEWVGLVPDHWEVKPFFALVTELNRK 247
           L+E  QA+          P+      K SG        G++P+ W+      LV      
Sbjct: 180 LEEMAQAIFKRWFVDFEFPNENGKPYKSSGGKFVESESGMIPEGWKEGTLDNLVVINTAS 239

Query: 248 NTKLIESNILSLSY-GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
                   IL   Y      + +        E      +V P   +   ++    KR   
Sbjct: 240 VDPKENPEILYEHYSIPAFDEQKYPKFEYGREIKSNKYLVRPNSFLVSKLNPTT-KRVWD 298

Query: 307 SAQVMERGIITSAYMAVKPHGI-DSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDV 362
              + E  I ++ ++   P  I   +YL  ++ S    +      +G    RQ +K  + 
Sbjct: 299 PLCITENAISSTEFINYLPKDISYQSYLYCMLNSERFSEHLIKHATGSTGSRQRVKPAET 358

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
               V++P  +         +     I   ++  + +  +LK+ R   +   ++G+I + 
Sbjct: 359 LTFNVILPDTETLKKF----DNLIRPIREKLKINQINSAVLKDVRDILLPKLMSGEIRVP 414

Query: 423 GESQ 426
              +
Sbjct: 415 DAER 418



 Score = 49.8 bits (117), Expect = 0.001,   Method: Composition-based stats.
 Identities = 32/144 (22%), Positives = 53/144 (36%), Gaps = 9/144 (6%)

Query: 10  YKDSGVQWI----GAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLP 65
           YK SG +++    G IP+ WK   +     +NT          I      + +   +  P
Sbjct: 205 YKSSGGKFVESESGMIPEGWKEGTLDNLVVINTASVDPKENPEILYEHYSIPAFDEQKYP 264

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAI---IADFDGICSTQFLVLQPKDV-LP 121
           K    R+   S   +      L  KL P  ++         + I ST+F+   PKD+   
Sbjct: 265 KFEYGREIK-SNKYLVRPNSFLVSKLNPTTKRVWDPLCITENAISSTEFINYLPKDISYQ 323

Query: 122 ELLQGWLLSIDVTQRIEAICEGAT 145
             L   L S   ++ +     G+T
Sbjct: 324 SYLYCMLNSERFSEHLIKHATGST 347


>gi|229542895|ref|ZP_04431955.1| restriction modification system DNA specificity domain protein
           [Bacillus coagulans 36D1]
 gi|229327315|gb|EEN92990.1| restriction modification system DNA specificity domain protein
           [Bacillus coagulans 36D1]
          Length = 483

 Score =  108 bits (269), Expect = 2e-21,   Method: Composition-based stats.
 Identities = 61/448 (13%), Positives = 138/448 (30%), Gaps = 62/448 (13%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSES---GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            +P +W  V +K   K             +      +     G+ +++  D        S
Sbjct: 25  EVPGNWVWVKLKTINKDKKRNIDPKSFKDETFELYSVPSFPEGSPEFIKGDEIG-----S 79

Query: 77  TVSIFAKGQILYGKLGPYLRKAI-----IADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
           +  +  K +IL  K+ P + +          F  + ST+++V+     +      +LL  
Sbjct: 80  SKQLVNKDEILLCKINPRINRVWKVLNNHGKFRQLASTEWIVISENKAIYSEYLLYLLKS 139

Query: 132 DVTQRIEAICEGATMSHAD---WKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
              +++                 K +   P+ +PP+ EQ  I +K+     +ID      
Sbjct: 140 PYFRKLITSNVSGVGGSLTRARPKEVETYPIAVPPIKEQKRIADKVERLLSKIDEAKRLI 199

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIE------------------------- 223
               E  + ++ A++       L    + ++  IE                         
Sbjct: 200 EEAKETFELRRAAILDKAFRGELTRKWREENKNIEDAESLYVKIKESQSIRRKVSKEINI 259

Query: 224 --WVGLVPDHWEVKPFFALVTELNRKNTK-----LIESNILSLSYGNIIQKLETRNMGLK 276
                 +P  W+      + T  +    K       E NI  +  G I       +    
Sbjct: 260 KDLRYSIPSTWKWVRLGDVFTITSGGTPKRTIPEYYEGNIPWIKTGEIKWNAINESEEQI 319

Query: 277 PES---YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL 333
                   + +++ P  ++         +   R+A +        A  A+ P+   +   
Sbjct: 320 TPEAVANSSAKLLPPNTVLVAMYGQGLTRG--RAAILSVEATCNQAVCALLPNDYIAPEF 377

Query: 334 AWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET---ARID 390
            +        +       G +++L    +      +PP++EQ  I   +       ++I 
Sbjct: 378 IFYYFMEGYQRFRQVAKGGNQENLSVSLISDFIFPLPPLEEQRVIITTLQNIFKKESKIK 437

Query: 391 VLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            +++     I      + S ++ A  G+
Sbjct: 438 DVIKINTDEI------KQSILSKAFRGE 459



 Score = 86.0 bits (211), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 47/228 (20%), Positives = 93/228 (40%), Gaps = 12/228 (5%)

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
             KKQ  +  ++ + L P         E    VP +W       +  +  R        +
Sbjct: 1   MRKKQKTMEELLEEALVP-------EGEQPYEVPGNWVWVKLKTINKDKKRNIDPKSFKD 53

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME-RG 314
                Y        +       E   + Q+V+  EI+   I+ + ++         + R 
Sbjct: 54  ETFELYSVPSFPEGSPEFIKGDEIGSSKQLVNKDEILLCKINPRINRVWKVLNNHGKFRQ 113

Query: 315 IITSAYMAVKPHG-IDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKF---EDVKRLPVLVP 370
           + ++ ++ +  +  I S YL +L++S    K+  +  SG+  SL     ++V+  P+ VP
Sbjct: 114 LASTEWIVISENKAIYSEYLLYLLKSPYFRKLITSNVSGVGGSLTRARPKEVETYPIAVP 173

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           PIKEQ  I + +    ++ID     IE++    + RR++ +  A  G+
Sbjct: 174 PIKEQKRIADKVERLLSKIDEAKRLIEEAKETFELRRAAILDKAFRGE 221


>gi|224368580|ref|YP_002602743.1| HsdS1 [Desulfobacterium autotrophicum HRM2]
 gi|223691296|gb|ACN14579.1| HsdS1 [Desulfobacterium autotrophicum HRM2]
          Length = 393

 Score =  108 bits (269), Expect = 2e-21,   Method: Composition-based stats.
 Identities = 57/402 (14%), Positives = 132/402 (32%), Gaps = 24/402 (5%)

Query: 26  KVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           + + I  F K  +G T            I +I   +++        +  ++   + S+  
Sbjct: 4   EKISISDFCKTGSGGTPSRRNLEFYKGSIPWIKSGELKEDIIYDSEEKISAEAIENSSAK 63

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           I +   IL    G  + +  +   D   +     + P     +    +    +    + +
Sbjct: 64  IISNKAILVAMYGATIGRVAMLGVDAATNQAICNIIPDSKRADNRYLFYALQNAVPVLLS 123

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
              G    +     I +  +P+PP+ EQ  I   +         +  +R + IEL  E  
Sbjct: 124 RKVGGGQPNISQTIIKDTKIPLPPIKEQKRIAAILDKADA----IRRKREKAIELADEFL 179

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
           +++    +    +P    K      +  + +   +K       +L+ K T  +    ++ 
Sbjct: 180 KSV---FLYMFGDPVTNPKGWPEYKLSEISE---LKSGVTKGRKLDGKKTIAVPYMRVAN 233

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
                I   + + + +     E +Q+     ++    D     R       +   I  + 
Sbjct: 234 VQDGHIIIDDLKEIEVLETDVEKFQLNVGDLLLTEGGDPDKLGRGAVWKGEINPCIHQNH 293

Query: 320 YMAVKP--HGIDSTYLAWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQ 375
              V+P    I   YL+  + S    + F +    +    S+    +K    LVPP+  Q
Sbjct: 294 IFRVRPDEKRILPEYLSKQIGSARGKRYFLSSAKQTTGVASINMTQLKNFSALVPPMSLQ 353

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
            +   +     +  + +++K+       +   +S    A  G
Sbjct: 354 KEFCEIAAKLESIKNKMIDKLTNQ----EHLFNSLTQRAFRG 391



 Score = 49.4 bits (116), Expect = 0.001,   Method: Composition-based stats.
 Identities = 24/193 (12%), Positives = 55/193 (28%), Gaps = 14/193 (7%)

Query: 22  PKHWKVVPIKRFTKLNTGRTS------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           PK W    +   ++L +G T       +    + Y+ + +V+ G                
Sbjct: 194 PKGWPEYKLSEISELKSGVTKGRKLDGKKTIAVPYMRVANVQDGHIIIDDLKEIEVLETD 253

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT- 134
                   G +L  + G   +    A + G  +          V P+  +     +    
Sbjct: 254 VEKFQLNVGDLLLTEGGDPDKLGRGAVWKGEINPCIHQNHIFRVRPDEKRILPEYLSKQI 313

Query: 135 -------QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
                    + +  +   ++  +   + N    +PP++ Q    E         + +I +
Sbjct: 314 GSARGKRYFLSSAKQTTGVASINMTQLKNFSALVPPMSLQKEFCEIAAKLESIKNKMIDK 373

Query: 188 RIRFIELLKEKKQ 200
                 L     Q
Sbjct: 374 LTNQEHLFNSLTQ 386


>gi|294619903|ref|ZP_06699279.1| HsdS subunit [Enterococcus faecium E1679]
 gi|291593840|gb|EFF25338.1| HsdS subunit [Enterococcus faecium E1679]
          Length = 388

 Score =  107 bits (268), Expect = 2e-21,   Method: Composition-based stats.
 Identities = 63/398 (15%), Positives = 134/398 (33%), Gaps = 37/398 (9%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLED-------VESGTGKYLPKDGNSRQSDTS 76
            W+   +     +  G T  +     + G  D        +    K   K  +      S
Sbjct: 17  DWEQRKLGEVADIIGGGTPNTNNPEYWNGDIDWYAPAEIGKQIYVKNSQKKISQLGLQKS 76

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
           +  I   G +L+         AI+A   G  +  F  + P +   +    +  + ++ + 
Sbjct: 77  SAKILPIGTVLFTSRAGIGNTAILAKE-GTTNQGFQSIVPHENKLDSYFIFSRTHELKRY 135

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
            E    G+T +    K +  +P+ IP + EQ    +KI     ++D  IT   R ++LLK
Sbjct: 136 GEVTGAGSTFAEVSGKQMAKMPILIPYIDEQ----QKIGIFFKKLDDTITLHQRTLDLLK 191

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
           E K+  +  +      P    K   I + G   + WE +    +      K      + +
Sbjct: 192 ETKKGFLQKMF-----PKNGAKVPEIRFPGFT-EDWEERKLGDITKISTGK--LDANAMV 243

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
            +  Y      ++   + +      +  I   G  V       N   + +   V++  ++
Sbjct: 244 ENGKYDFYTSGIKKYRIDVAAFEGPSITIAGNGATVGYMHLADNKFNAYQRTYVLQEFLV 303

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-PIKEQ 375
             +++  +                   K+     +G    +  + +  L + +P    EQ
Sbjct: 304 DRSFIFSEIGNKLP------------KKIKQEARTGNIPYIVMDMLTELKLSIPQNNSEQ 351

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
             I         ++D  +   ++ + LLKE +  F+  
Sbjct: 352 QKIGTF----FKQLDDTITLHQRKLDLLKETKKGFLQK 385



 Score = 72.9 bits (177), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 29/189 (15%), Positives = 63/189 (33%), Gaps = 9/189 (4%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI----IQKLETRNMGLKPESYETYQI 285
           D WE +    +   +             +          I K        K  S    Q 
Sbjct: 16  DDWEQRKLGEVADIIGGGTPNTNNPEYWNGDIDWYAPAEIGKQIYVKNSQKKISQLGLQK 75

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV 345
                +    +   +      +A + + G     + ++ PH           R+++L + 
Sbjct: 76  SSAKILPIGTVLFTSRAGIGNTAILAKEGTTNQGFQSIVPHENKLDSYFIFSRTHELKRY 135

Query: 346 FYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLK 404
               G+G     +  + + ++P+L+P I EQ  I         ++D  +   ++++ LLK
Sbjct: 136 GEVTGAGSTFAEVSGKQMAKMPILIPYIDEQQKIGIF----FKKLDDTITLHQRTLDLLK 191

Query: 405 ERRSSFIAA 413
           E +  F+  
Sbjct: 192 ETKKGFLQK 200



 Score = 43.2 bits (100), Expect = 0.088,   Method: Composition-based stats.
 Identities = 30/185 (16%), Positives = 63/185 (34%), Gaps = 16/185 (8%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + W+   +   TK++TG+   +           VE+G   +        + D +    F 
Sbjct: 219 EDWEERKLGDITKISTGKLDANAM---------VENGKYDFYTSGIKKYRIDVAA---FE 266

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
              I     G  +    +AD       +  VLQ   V    +   + +    +  +    
Sbjct: 267 GPSITIAGNGATVGYMHLADNKFNAYQRTYVLQEFLVDRSFIFSEIGNKLPKKIKQEART 326

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           G       +  +  +      + +    ++KI     ++D  IT   R ++LLKE K+  
Sbjct: 327 GN----IPYIVMDMLTELKLSIPQNNSEQQKIGTFFKQLDDTITLHQRKLDLLKETKKGF 382

Query: 203 VSYIV 207
           +  + 
Sbjct: 383 LQKMF 387


>gi|325690778|gb|EGD32779.1| type I restriction-modification system specificity protein
           [Streptococcus sanguinis SK115]
          Length = 409

 Score =  107 bits (268), Expect = 2e-21,   Method: Composition-based stats.
 Identities = 43/411 (10%), Positives = 125/411 (30%), Gaps = 33/411 (8%)

Query: 23  KHWKVVPIKRFTK-LNTGRTSESGKD------IIYIGLEDVESGTGKYLPKDGNSRQSDT 75
             WK   I    + + +G T  +         + ++   +  +       K   +  +  
Sbjct: 15  SDWKEYRIGELIETIFSGGTPNTKNSDYWNGSLPWLSSGETRNRYINVTEKTITNSGAQN 74

Query: 76  STVSIFAKGQILYGKLGP--YLRKAIIADFDGICSTQFL-VLQPKDVLPELLQGWLLSID 132
           S+     KG ++    G      +    + D   +   + +   + VL +    + LS  
Sbjct: 75  SSTRQALKGDVVMASAGQGYTRGQVSFLNIDTFINQSVIAIRANEKVLDKKFLFYNLSSR 134

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
             +        +       K + ++ + IP L  Q  I   + +   +I+T         
Sbjct: 135 YEELRAISDSNSIRGSITTKMVKSMNIRIPDLNTQRAIANVLSSIDDKIETSKQINHHLE 194

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           ++ +   ++        G               G +P+ W +     ++  +        
Sbjct: 195 QMAQAIFKSWFVDFEPFG---------------GKMPNDWTIGKLSDVLKLIKNGINDKD 239

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQI-VDPGEIVFRFIDLQNDKRSLRSAQVM 311
           +  +  +    +     + N     +  ++  I     +I+   + +   +  +     +
Sbjct: 240 KQKLPYVPIDILPMHSLSLNSYKSNDEAKSSLITFKKNDILLGAMRVYFHRVCISPFTGI 299

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWL-MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP 370
            R       +           L    ++S        + GS +  ++    +  L + +P
Sbjct: 300 TRSTC--FVLRPFNKIYLEYCLLTCDLKSSIEYAQSTSKGSTMPYAVWENGLAELKIPIP 357

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
             K   + + +++     +   +      I  L+  R + +   ++G+I +
Sbjct: 358 TEKVIKNFSKIVSPLIKTLQDSIY----EIENLQNLRDTLLPKLLSGEISV 404



 Score = 53.6 bits (127), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 34/189 (17%), Positives = 67/189 (35%), Gaps = 5/189 (2%)

Query: 19  GAIPKHWKVVPIKRFTK-LNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           G +P  W +  +    K +  G   +  + + Y+ ++ +   +        N      S+
Sbjct: 213 GKMPNDWTIGKLSDVLKLIKNGINDKDKQKLPYVPIDILPMHSLSLNSYKSNDEA--KSS 270

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGIC-STQFLVLQPKDVLPELLQGWLLSIDVTQR 136
           +  F K  IL G +  Y  +  I+ F GI  ST F++     +  E            + 
Sbjct: 271 LITFKKNDILLGAMRVYFHRVCISPFTGITRSTCFVLRPFNKIYLEYCLLTCDLKSSIEY 330

Query: 137 IEAICEGATMSH-ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            ++  +G+TM +     G+  + +PIP         + +      +   I E      L 
Sbjct: 331 AQSTSKGSTMPYAVWENGLAELKIPIPTEKVIKNFSKIVSPLIKTLQDSIYEIENLQNLR 390

Query: 196 KEKKQALVS 204
                 L+S
Sbjct: 391 DTLLPKLLS 399


>gi|187729922|ref|YP_001853816.1| type IC specificity subunit [Vibrio tapetis]
 gi|182894481|gb|ACB99646.1| type I restriction modification system DNA specificity subunit Hsds
           [Vibrio tapetis]
          Length = 419

 Score =  107 bits (268), Expect = 2e-21,   Method: Composition-based stats.
 Identities = 66/407 (16%), Positives = 118/407 (28%), Gaps = 26/407 (6%)

Query: 24  HWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS- 76
            W+  P+     L  G   +S            +    V  G G    K  N +    + 
Sbjct: 19  EWEEKPLGDVLSLANGYAFKSEYFCKDKTGYEVLTPGSVHIGGGFQYGKGQNYKLEGKTP 78

Query: 77  TVSIFAKGQILYGKLGPY-----LRKAIIADFDGIC---STQFLVLQPKDVLPELLQGWL 128
              IFA G +             L    I   DG     + +   L         L   L
Sbjct: 79  QKFIFAAGDVFITMTDLTPTAQMLGLPAIVPDDGTTYLHNQRLGKLIQYKGDYGFLFYLL 138

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
            +     +I A   G T+ H+    + +     P   EQ      +      +D  +   
Sbjct: 139 STDTYRNQIVATSSGTTVKHSSPDKVKSSKFFFPNKVEQTS----LGYYFQNVDKQLKLH 194

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN 248
                 L++ K+A++  +  K      +++ +G      V        F           
Sbjct: 195 QDKFAKLQQLKKAMLGKMFPKAGQTVPELRFAGFSEKWEVEPLGTNASFNKGKGFTKGDL 254

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
                  +L        Q + T        S     +    E++        +  +  SA
Sbjct: 255 NTFGVPIVLYGRLYTNYQTIITEVDTFVS-SESKGIMSKGREVIVPASGESAEDIARASA 313

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL-CKVFYAMGSG-LRQSLKFEDVKRLP 366
            +    I+      + P+         L+ +Y            G     ++  D+K L 
Sbjct: 314 VLQPNVILGGDLNIIYPNNKILPSFLALIITYSCCQAELAKKAQGKSVVHVRNSDIKDLL 373

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           V +P IKEQ  I          +D L+   +Q I  LK  + +++A 
Sbjct: 374 VPMPTIKEQTKIAEY----FQNLDRLINLQQQQIDKLKNLKQTYLAK 416


>gi|169346826|ref|ZP_02865774.1| type I restriction modification DNA specificity domain protein
           [Clostridium perfringens C str. JGS1495]
 gi|169296885|gb|EDS79009.1| type I restriction modification DNA specificity domain protein
           [Clostridium perfringens C str. JGS1495]
          Length = 404

 Score =  107 bits (268), Expect = 2e-21,   Method: Composition-based stats.
 Identities = 57/406 (14%), Positives = 140/406 (34%), Gaps = 36/406 (8%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIY-IGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            W+ + +    +    +   +  +    I  +       ++  K   S+  +     +  
Sbjct: 16  EWEKIHLSDRVERVVRKNKGNVTNRPLTISAQYGLVNQEEFFNKVVASKNLE--GYYLLN 73

Query: 83  KGQILYGKLGPYLRKAIIAD-----FDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
            G+  Y K                  +G  ST ++  +PK  +               R 
Sbjct: 74  NGEFAYNKSYSNGYPFGAIKRLDKYKNGAVSTLYICFKPKLNVDSDFLTQYFESSKWYRE 133

Query: 138 EAIC-----EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
            ++          + +       +     P L EQ  I   +      I+    +   + 
Sbjct: 134 VSMVAVEGARNHGLLNIGVSDFFDTIHRFPSLQEQEKIANFLSKVDSIIEKQEKKVEYWN 193

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
              K   Q + S             K    +  G+    WE K    +++E++ K  +  
Sbjct: 194 SYKKGMMQKIFSQ------------KIRFKDGNGMDYPEWEKKNLKYVLSEISEKTKENN 241

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
           +  +LS +   + ++ E  N  +       Y+I+   +IV    +L     ++      +
Sbjct: 242 QYEVLSSTANGVFKQSEYFNREIASADNTGYKILRLNQIVLSPQNLWL--GNINYNNKYD 299

Query: 313 RGIITSAY-MAVKPHGIDSTYLAWLMRS----YDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
            GI++ +Y +      ++  Y+++++++    Y   +      S +R++L  +    + +
Sbjct: 300 MGIVSPSYKIFNINKNLNEKYISYIIKTDRMLYGYKQASEQGASVVRRNLNMDLFYDILI 359

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            +P ++EQ  I N +    + ID ++EK  + +  LK+ +   +  
Sbjct: 360 NIPCVEEQEKIANFL----SNIDNIIEKESKKLEELKQWKKGLLQQ 401



 Score = 74.1 bits (180), Expect = 4e-11,   Method: Composition-based stats.
 Identities = 35/200 (17%), Positives = 79/200 (39%), Gaps = 12/200 (6%)

Query: 232 WEVKPFFALVTELNRKNTKLIESNILSLS-YGNIIQKLETRNMGLKPESYETYQIVDPGE 290
           WE       V  + RKN   + +  L++S    ++ + E  N  +  ++ E Y +++ GE
Sbjct: 17  WEKIHLSDRVERVVRKNKGNVTNRPLTISAQYGLVNQEEFFNKVVASKNLEGYYLLNNGE 76

Query: 291 IVFRFIDLQND-KRSLRSAQVMERGIITSAYMAVKPH-GIDSTYLAWLMRSYDLCKVFYA 348
             +           +++     + G +++ Y+  KP   +DS +L     S    +    
Sbjct: 77  FAYNKSYSNGYPFGAIKRLDKYKNGAVSTLYICFKPKLNVDSDFLTQYFESSKWYREVSM 136

Query: 349 MG-SGLRQ----SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
           +   G R     ++   D        P ++EQ  I N +    +++D ++EK E+ +   
Sbjct: 137 VAVEGARNHGLLNIGVSDFFDTIHRFPSLQEQEKIANFL----SKVDSIIEKQEKKVEYW 192

Query: 404 KERRSSFIAAAVTGQIDLRG 423
              +   +    + +I  + 
Sbjct: 193 NSYKKGMMQKIFSQKIRFKD 212


>gi|302877622|ref|YP_003846186.1| restriction modification system DNA specificity domain [Gallionella
           capsiferriformans ES-2]
 gi|302580411|gb|ADL54422.1| restriction modification system DNA specificity domain [Gallionella
           capsiferriformans ES-2]
          Length = 582

 Score =  107 bits (268), Expect = 3e-21,   Method: Composition-based stats.
 Identities = 70/483 (14%), Positives = 143/483 (29%), Gaps = 90/483 (18%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNS-RQSDTSTV 78
            +PK W+ V + +       +  +S  +  YI +  ++S  G        +   + +   
Sbjct: 102 ELPKGWEWVRVGQVGHDWGQKEPDS--NFTYIEVSAIDSTRGVVSSPGLVAPEDAPSRAR 159

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDG----ICSTQFLVLQPKDVLPELLQ-GWLLSIDV 133
            I  KG ++Y  + PYL    + + +     I ST F ++ P  ++P      +  S   
Sbjct: 160 KIVKKGTVIYSTVRPYLLNIAVIEEEFSPEPIASTAFAIVHPFCLMPPRYFLSFFRSPVF 219

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE---------------- 177
            + +E++  G      +     +  +P+PP+ EQ  I  K+                   
Sbjct: 220 VRYVESVQMGIAYPAINDGQFFSGLIPLPPIEEQHRIVAKVDELMALCDQLENQHSNAAE 279

Query: 178 -------------------------TVRIDTLITERIRFIELLKEKKQALVSYIVTKGLN 212
                                      RI             +   KQ L+   V   L 
Sbjct: 280 AHEKLVSHLLGTLTQSQNAEDFSANWQRIAAHFDTLFATDASIDALKQTLLQLAVMGKLV 339

Query: 213 PDVKMKD-------------------------------SGIEWVGLVPDHWEVKPFFA-- 239
           P     +                               + +E    +P  WE        
Sbjct: 340 PQNANDEPASELLKRIQAEKAKLISEGKIKKDKPLTPITDVEKPFELPLRWEWVRLSDIA 399

Query: 240 -LVTELNRKNTKLIESNILSLSYGNIIQK-----LETRNMGLKPESYETYQIVDPGEIVF 293
             +T+      + I   +  LS  N+               +           +  +I+ 
Sbjct: 400 TQITDGAHHTPEYISDGVPFLSVKNLSSGCLDFTDTRFISPVAHADLTKRCNPEFDDILL 459

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL 353
             I        +   +      ++ A + +    ID  YL+ ++ S  + +       G+
Sbjct: 460 TKIGTTGIAVVIDDPRPFS-IFVSVALIKLPKILIDRDYLSLVINSPFVRQQSEDGTEGV 518

Query: 354 -RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
             ++L    +    +   P+ EQ  I   ++   A  D L  +I  +  L ++     + 
Sbjct: 519 GNKNLVLRKINTFDIPFAPLAEQHRIVAKVDELMALCDQLKSRITDASRLQQKLADVLVE 578

Query: 413 AAV 415
            AV
Sbjct: 579 QAV 581



 Score = 86.8 bits (213), Expect = 7e-15,   Method: Composition-based stats.
 Identities = 28/191 (14%), Positives = 68/191 (35%), Gaps = 5/191 (2%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
           +  E    +P  WE      +  +  +K         + +S  +  + + +    + PE 
Sbjct: 95  TEDEKPFELPKGWEWVRVGQVGHDWGQK-EPDSNFTYIEVSAIDSTRGVVSSPGLVAPED 153

Query: 280 YETY--QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG-IDSTYLAWL 336
             +   +IV  G +++  +       ++   +     I ++A+  V P   +   Y    
Sbjct: 154 APSRARKIVKKGTVIYSTVRPYLLNIAVIEEEFSPEPIASTAFAIVHPFCLMPPRYFLSF 213

Query: 337 MRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
            RS    +   ++  G+   ++         + +PPI+EQ  I   ++   A  D L  +
Sbjct: 214 FRSPVFVRYVESVQMGIAYPAINDGQFFSGLIPLPPIEEQHRIVAKVDELMALCDQLENQ 273

Query: 396 IEQSIVLLKER 406
              +    ++ 
Sbjct: 274 HSNAAEAHEKL 284



 Score = 68.3 bits (165), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 39/204 (19%), Positives = 68/204 (33%), Gaps = 9/204 (4%)

Query: 13  SGVQWIGAIPKHWKVVPIKRFTK-LNTGRTSES---GKDIIYIGLEDVESGTGKYLPKDG 68
           + V+    +P  W+ V +      +  G           + ++ ++++ SG   +     
Sbjct: 378 TDVEKPFELPLRWEWVRLSDIATQITDGAHHTPEYISDGVPFLSVKNLSSGCLDFTDTRF 437

Query: 69  NSRQSDTSTVSIFAK--GQILYGKLGPYLRKAIIAD---FDGICSTQFLVLQPKDVLPEL 123
            S  +              IL  K+G      +I D   F    S   + L    +  + 
Sbjct: 438 ISPVAHADLTKRCNPEFDDILLTKIGTTGIAVVIDDPRPFSIFVSVALIKLPKILIDRDY 497

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           L   + S  V Q+ E   EG    +   + I    +P  PLAEQ  I  K+       D 
Sbjct: 498 LSLVINSPFVRQQSEDGTEGVGNKNLVLRKINTFDIPFAPLAEQHRIVAKVDELMALCDQ 557

Query: 184 LITERIRFIELLKEKKQALVSYIV 207
           L +       L ++    LV   V
Sbjct: 558 LKSRITDASRLQQKLADVLVEQAV 581


>gi|251811428|ref|ZP_04825901.1| type I restriction-modification system specificity determinant
           protein [Staphylococcus epidermidis BCM-HMP0060]
 gi|251805057|gb|EES57714.1| type I restriction-modification system specificity determinant
           protein [Staphylococcus epidermidis BCM-HMP0060]
          Length = 400

 Score =  107 bits (268), Expect = 3e-21,   Method: Composition-based stats.
 Identities = 62/413 (15%), Positives = 134/413 (32%), Gaps = 39/413 (9%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
            +K    +  G+  +           +V++  GKY P  G     D +   ++ K  +L 
Sbjct: 4   KLKDLVNIKYGKNQK-----------NVKNPRGKY-PILGTGGIMDYADDFLYDKPSVLI 51

Query: 89  GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSH 148
           G+ G   +   I +      T F  +  ++++      + LS           EG T+  
Sbjct: 52  GRKGSIGKVKYIEEPFWTIDTLFYTIVNENLVIPKYLYYKLS---QIDFNYYNEGTTIPS 108

Query: 149 ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVT 208
              + +  I + +P    Q  +   +      ID  I    + I  L+E  Q L      
Sbjct: 109 LRTETLYKIDIDLPKKNIQKKVVNLLN----TIDEKIENNQKIIANLEELSQTLFKRWFV 164

Query: 209 KGLNPD---VKMKDSGIE----WVGLVPDHWEVKPFFALVTE--------LNRKNTKLIE 253
               PD      K SG E     +G +P  W +        +          +      E
Sbjct: 165 DFEFPDENGNPYKSSGGEMIDSELGEIPKKWNILTINDFADDLIITGKTPSTKNKDNYSE 224

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
             I  L+  ++   + + N  +K  S    + V    I    + +         +     
Sbjct: 225 KGIPFLTIPDMHTDVFSLN-TIKYISEVGIEKVKNKIIPENSLCVSCIATPGLVSITSSE 283

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
            +      +  P   D  YL + ++S          G     +L      ++ ++ P   
Sbjct: 284 TLTNQQINSFTPKKNDLYYLYFYIKSMKKYIEDLGSGGSATLNLNKTQFSKIKIIRPIND 343

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
                   ++        ++   ++  + L+E R++ +   ++G+I++  + +
Sbjct: 344 LLKKFHKCVDSNF----KIILTKQKENLKLQELRNTLLPKLMSGEIEIPDDIE 392



 Score = 52.9 bits (125), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 36/209 (17%), Positives = 69/209 (33%), Gaps = 16/209 (7%)

Query: 10  YKDSGVQW----IGAIPKHWKVVPIKRFTK--LNTGRTSE-------SGKDIIYIGLEDV 56
           YK SG +     +G IPK W ++ I  F    + TG+T         S K I ++ + D+
Sbjct: 176 YKSSGGEMIDSELGEIPKKWNILTINDFADDLIITGKTPSTKNKDNYSEKGIPFLTIPDM 235

Query: 57  ESGTGKYLP-KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQ 115
            +        K  +    +     I  +  +    +        I   + + + Q     
Sbjct: 236 HTDVFSLNTIKYISEVGIEKVKNKIIPENSLCVSCI-ATPGLVSITSSETLTNQQINSFT 294

Query: 116 PKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKII 175
           PK      L  ++ S+      +    G+   + +      I +  P         + + 
Sbjct: 295 PKKNDLYYLYFYIKSMK-KYIEDLGSGGSATLNLNKTQFSKIKIIRPINDLLKKFHKCVD 353

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVS 204
           +    I T   E ++  EL       L+S
Sbjct: 354 SNFKIILTKQKENLKLQELRNTLLPKLMS 382


>gi|95928602|ref|ZP_01311349.1| restriction modification system DNA specificity domain
           [Desulfuromonas acetoxidans DSM 684]
 gi|95135392|gb|EAT17044.1| restriction modification system DNA specificity domain
           [Desulfuromonas acetoxidans DSM 684]
          Length = 417

 Score =  107 bits (268), Expect = 3e-21,   Method: Composition-based stats.
 Identities = 60/415 (14%), Positives = 123/415 (29%), Gaps = 25/415 (6%)

Query: 11  KDS---GVQWIGAIPKHWKVVPIKRFTKLNT----GRTSE--SGKDIIYIGLEDVESGTG 61
           KDS    ++++G +   W   P+            G  +   +     Y+   +V++G  
Sbjct: 5   KDSNVPEIRFLGYV-NGWTENPLGEIYTKIRNAFVGTATPYYTKNGYFYLQSNNVKNGKI 63

Query: 62  KYLPKDGNSRQSDTS-TVSIFAKGQILYGKLGPYLRKAIIADF---DGICSTQFLVLQPK 117
               +     +       +      I+  + G     A+I +        +   +    K
Sbjct: 64  NRKTEIFIDEEFYFKQEKNWLRTNDIVMVQSGHVGHTAVIPNELNNSAAHALIIISKPLK 123

Query: 118 DVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
              P  L  +  +    Q I  I  G T+ H     I    +  PP  EQ  I       
Sbjct: 124 KSCPYYLNFYFQTYRAKQDIGNITTGNTIKHILATDIKRFNVFFPPYEEQTKIGTY---- 179

Query: 178 TVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPF 237
             ++D +I    R  + L   KQA++  +  +      +++ +G E         +V   
Sbjct: 180 FKKLDRIIELHQRKHDKLVTLKQAMLQKMFPQDGASTPEIRFNGFEGDWEKKKLRDVCNS 239

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY--ETYQIVDPGEIVFRF 295
           F        K        I         +     ++             ++  G+I+F  
Sbjct: 240 FDYGLNAAAKKYDGRNKYIRITDIDEFSRCFSQTDLTSPEADLPSSQNYLLCEGDILFAR 299

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLR 354
                 K  L                A   +   + ++ +   S +             +
Sbjct: 300 TGASVGKTYLYREIDGRVFFAGFLIRARVSNTESTDFIFYTTLSSNYENFVTITSQRSGQ 359

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
             +  ++      LVP + EQ  I         + D L+ +    +  LK+ +S+
Sbjct: 360 PGINAKEYSEYTFLVPSVTEQKKIGTY----FRKFDALISQHATQLKKLKQIKSA 410



 Score = 81.8 bits (200), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 22/173 (12%), Positives = 53/173 (30%), Gaps = 9/173 (5%)

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK--- 302
              T     N       N ++  +           E Y   +   +    I +       
Sbjct: 39  GTATPYYTKNGYFYLQSNNVKNGKINRKTEIFIDEEFYFKQEKNWLRTNDIVMVQSGHVG 98

Query: 303 -RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFE 360
             ++   ++          ++         YL +  ++Y   +    + +G   + +   
Sbjct: 99  HTAVIPNELNNSAAHALIIISKPLKKSCPYYLNFYFQTYRAKQDIGNITTGNTIKHILAT 158

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           D+KR  V  PP +EQ  I         ++D ++E  ++    L   + + +  
Sbjct: 159 DIKRFNVFFPPYEEQTKIGTY----FKKLDRIIELHQRKHDKLVTLKQAMLQK 207


>gi|29349931|ref|NP_813434.1| putative type I restriction enzyme EcoR124II protein [Bacteroides
           thetaiotaomicron VPI-5482]
 gi|253569700|ref|ZP_04847109.1| type I restriction enzyme EcoR124II specificity protein
           [Bacteroides sp. 1_1_6]
 gi|29341842|gb|AAO79628.1| putative type I restriction enzyme EcoR124II protein [Bacteroides
           thetaiotaomicron VPI-5482]
 gi|251840081|gb|EES68163.1| type I restriction enzyme EcoR124II specificity protein
           [Bacteroides sp. 1_1_6]
          Length = 394

 Score =  107 bits (268), Expect = 3e-21,   Method: Composition-based stats.
 Identities = 54/392 (13%), Positives = 118/392 (30%), Gaps = 22/392 (5%)

Query: 20  AIPKHWKVVPIKRFT-KLNTGRTSESGK----DIIYIGLEDVESGTGKYLP-KDGNSRQS 73
            IP  W    I+    K+ +G T          I +   ++V +    Y   K  +    
Sbjct: 10  EIPNSWVWTTIEEICSKIGSGSTPRGSNYSANGIPFFRSQNVYNDRLVYDDIKYISEEVH 69

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIAD---FDGICSTQFLVLQPKDVLPELLQGWLLS 130
                +      +L    G  L +  +       G  S    +++   V PE     +LS
Sbjct: 70  QKMKGTEVLANDLLLNITGGSLGRCAVVPADFNCGNVSQHVCIMRSVLVEPEYFHALVLS 129

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
               + ++    G+         +  +  P+PPL+EQ  I  +I      ID +   ++ 
Sbjct: 130 SYFAKSMK--ITGSGREGLPKYSLEQMAFPLPPLSEQQRIVMEIEKLFALIDQIEHSKVN 187

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
              ++K+ K  ++   +   L P     +  IE +  +   +            +     
Sbjct: 188 LQTIIKQTKSKILDLAIHGKLVPQDPNDEPAIELLKRINPDFTPCDNGHYTQLPDGWTFC 247

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
            ++  I     G               +SY T  +      +  + +      S     +
Sbjct: 248 RLDQII-----GYEQSTAYIVESTAYDDSYSTPVLTAGKSFIIGYTNEATGIYSNLPCII 302

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV------FYAMGSGLRQSLKFEDVKR 364
            +     S  +        S      +                 +     +     +  +
Sbjct: 303 FDDFTTDSKLVDFPFKVKSSAMKILKVHKDIEVDYVAMFMSITKLVGDTHKRYWISEYSK 362

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
           L + +P   EQ  I + I+    ++D+++E +
Sbjct: 363 LEIPIPSKAEQKRIIHAIHGIFTQLDLIMESL 394



 Score = 72.1 bits (175), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 31/200 (15%), Positives = 71/200 (35%), Gaps = 10/200 (5%)

Query: 227 LVPDHWEVKPFFALVTELNRKN----TKLIESNILSLSYGNIIQK-LETRNMGLKPESYE 281
            +P+ W       + +++   +    +    + I      N+    L   ++    E   
Sbjct: 10  EIPNSWVWTTIEEICSKIGSGSTPRGSNYSANGIPFFRSQNVYNDRLVYDDIKYISEEVH 69

Query: 282 TYQI---VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
                  V   +++         + ++  A     G ++     ++   ++  Y   L+ 
Sbjct: 70  QKMKGTEVLANDLLLNITGGSLGRCAVVPAD-FNCGNVSQHVCIMRSVLVEPEYFHALVL 128

Query: 339 SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
           S    K     GSG R+ L    ++++   +PP+ EQ  I   I    A ID +      
Sbjct: 129 SSYFAKSMKITGSG-REGLPKYSLEQMAFPLPPLSEQQRIVMEIEKLFALIDQIEHSKVN 187

Query: 399 SIVLLKERRSSFIAAAVTGQ 418
              ++K+ +S  +  A+ G+
Sbjct: 188 LQTIIKQTKSKILDLAIHGK 207


>gi|219870942|ref|YP_002475317.1| type I restriction enzyme specificity protein HsdS [Haemophilus
           parasuis SH0165]
 gi|219691146|gb|ACL32369.1| type I restriction enzyme specificity protein HsdS [Haemophilus
           parasuis SH0165]
          Length = 408

 Score =  107 bits (268), Expect = 3e-21,   Method: Composition-based stats.
 Identities = 65/405 (16%), Positives = 130/405 (32%), Gaps = 34/405 (8%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           +   +   T++  G+T         I  +D   G    +   G  + +            
Sbjct: 17  EFKSLGDVTEMKRGKT---------ITAKDASGGDIPVIS--GGQKPAYYHNEYNRNGKT 65

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           I     G Y    +  +     S  F +   + +L  L   +   +   Q+I  + +G+ 
Sbjct: 66  ITVAGSGAYAGFIMYWEEPIFVSDAFSIKSDETLLD-LKYVYHFLLQHQQKIYGMKKGSG 124

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
           + H   K +  + +PIPPL  Q  I   + A T     L  E    +   +++ Q     
Sbjct: 125 VPHVYPKDLSTLVIPIPPLDVQQEIVRILDAFTSLTAELTAELTAELTSRQKQYQYFRDK 184

Query: 206 IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFF-------ALVTELNRKNTKLIESNILS 258
           +    LN D      G E   +    W  K            ++         +E  I  
Sbjct: 185 L----LNFDDISDRGGYETNPITKALWHNKKVVFKTLGEVTTISIGLTYTPAYVEKGIKF 240

Query: 259 LSYGNI-IQKLETRNMGLKPESYETYQ----IVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
           +S  N     L+  N+    E               +I+F  +        +        
Sbjct: 241 ISAQNTSKDYLDLSNVKYISEEEFENSTDNAKPQRDDILFTRVGSNIGHPVIVETDEKLC 300

Query: 314 GIITSAYMAVKPHGID-STYLAWLMRSYDLCKVFYAMGSGLRQ-SLKFEDVKRLPVLVPP 371
             ++  ++ VK +    + YL   M +    K       G  + +L    +K   + +PP
Sbjct: 301 IFVSLGFLRVKDNNFLFNRYLKHWMSTDLFWKQVEKNVHGSAKINLNTGWLKDFKIPIPP 360

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
            +EQ  I  +++      + + E + + I L ++     R   ++
Sbjct: 361 FEEQQRIVAILDKFETLTNSIAEGLPKEIELRRKQYEYYREKLLS 405


>gi|77166476|ref|YP_345001.1| restriction modification system DNA specificity subunit
           [Nitrosococcus oceani ATCC 19707]
 gi|254436234|ref|ZP_05049741.1| Type I restriction modification DNA specificity domain protein
           [Nitrosococcus oceani AFC27]
 gi|76884790|gb|ABA59471.1| Restriction modification system DNA specificity domain
           [Nitrosococcus oceani ATCC 19707]
 gi|207089345|gb|EDZ66617.1| Type I restriction modification DNA specificity domain protein
           [Nitrosococcus oceani AFC27]
          Length = 564

 Score =  107 bits (268), Expect = 3e-21,   Method: Composition-based stats.
 Identities = 59/481 (12%), Positives = 128/481 (26%), Gaps = 90/481 (18%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +P+ W+ V +     +N    +E      ++ +  +  G  +    +  +        +
Sbjct: 86  ELPEGWEWVRLGEIGVINPRNNAEDSIKAGFVPMPMIPEGYSEEHQFEERTWSDVKKGYT 145

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICST--------QFLVLQPKDVLPELLQGWLLSI 131
             A   +   K+ P    A    F G+ +                  VLP  L  +L + 
Sbjct: 146 HLADSDVGMAKITPCFENAKSCVFSGLPNGLGAGTTELHIFRNTFNAVLPRFLLYYLKNP 205

Query: 132 DVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR---------- 180
               +      G+                P+P L+EQ  I  +I     R          
Sbjct: 206 HYISKTVPYMTGSAGQKRVPTPYFTEQLFPLPSLSEQQRIVARIDQLMARCDELEKLRKE 265

Query: 181 --------------------------IDTLITERIRFIELLKEKKQALVSYIVTKGLNPD 214
                                     I    +E     E + E ++A++   V   L P 
Sbjct: 266 REEVRLKVHAAAIKQLLDAPDAGWPFIQQHFSELYTVKENVAELRKAILQLAVIGRLVPQ 325

Query: 215 VKMKDSGIEWVGLV-------------------------------PDHWEVKPFFALVTE 243
                   E +  +                               P  WE      ++  
Sbjct: 326 DSNDPPACELLKEIEAEKQRLVDEKKIKKLKPLPPIKPEEVPYQLPRGWEWVRLQDVLDV 385

Query: 244 LNRKNTKLIE----SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG-----EIVFR 294
            +  +    +         ++  N        +      S + ++I         +I+F 
Sbjct: 386 RDGTHDSPKDAVGSDTYPLITSKNFSNGRIDFSEARMISSEDHFEITKRSKVDRLDILFS 445

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR 354
            I      + +            + +     +     ++   M       +      G +
Sbjct: 446 MIGGNIGNQVIVQEDREFSIKNVALFKYYDRNLTYPYFIKRFMEHIAA-DLQQKAVGGAQ 504

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAA 414
             +    ++ +   +PPI EQ+ I   I+   A  D L    +Q I     ++S+ + + 
Sbjct: 505 PFVSLGFLRNIVFGLPPINEQYHIVARIDELMALCDKL----DQQIEAASCKQSALLNSV 560

Query: 415 V 415
           +
Sbjct: 561 M 561



 Score = 73.7 bits (179), Expect = 6e-11,   Method: Composition-based stats.
 Identities = 24/190 (12%), Positives = 55/190 (28%), Gaps = 9/190 (4%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNTKLIES--NILSLSYGNIIQKLETRNMGLKPESY 280
           E    +P+ WE      +     R N +       +          +          +  
Sbjct: 82  EVPYELPEGWEWVRLGEIGVINPRNNAEDSIKAGFVPMPMIPEGYSEEHQFEERTWSDVK 141

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS----AYMAVKPHGIDSTYLAWL 336
           + Y  +   ++    I    +         +  G+              + +   +L + 
Sbjct: 142 KGYTHLADSDVGMAKITPCFENAKSCVFSGLPNGLGAGTTELHIFRNTFNAVLPRFLLYY 201

Query: 337 MRSYDLCKVF--YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
           +++         Y  GS  ++ +           +P + EQ  I   I+   AR D L E
Sbjct: 202 LKNPHYISKTVPYMTGSAGQKRVPTPYFTEQLFPLPSLSEQQRIVARIDQLMARCDEL-E 260

Query: 395 KIEQSIVLLK 404
           K+ +    ++
Sbjct: 261 KLRKEREEVR 270



 Score = 68.7 bits (166), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 24/195 (12%), Positives = 55/195 (28%), Gaps = 9/195 (4%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESG-----KDIIYIGLEDVESGTGKYLPKD--GNSRQ 72
            +P+ W+ V ++    +  G                I  ++  +G   +       +   
Sbjct: 369 QLPRGWEWVRLQDVLDVRDGTHDSPKDAVGSDTYPLITSKNFSNGRIDFSEARMISSEDH 428

Query: 73  SDTSTVSIFAKGQILYGKLGPYLR--KAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
            + +  S   +  IL+  +G  +     +  D +       L       L          
Sbjct: 429 FEITKRSKVDRLDILFSMIGGNIGNQVIVQEDREFSIKNVALFKYYDRNLTYPYFIKRFM 488

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
             +   ++    G          + NI   +PP+ EQ  I  +I       D L  +   
Sbjct: 489 EHIAADLQQKAVGGAQPFVSLGFLRNIVFGLPPINEQYHIVARIDELMALCDKLDQQIEA 548

Query: 191 FIELLKEKKQALVSY 205
                     ++++ 
Sbjct: 549 ASCKQSALLNSVMAQ 563


>gi|297545263|ref|YP_003677565.1| restriction modification system DNA specificity domain-containing
           protein [Thermoanaerobacter mathranii subsp. mathranii
           str. A3]
 gi|296843038|gb|ADH61554.1| restriction modification system DNA specificity domain protein
           [Thermoanaerobacter mathranii subsp. mathranii str. A3]
          Length = 426

 Score =  107 bits (268), Expect = 3e-21,   Method: Composition-based stats.
 Identities = 69/435 (15%), Positives = 136/435 (31%), Gaps = 48/435 (11%)

Query: 23  KHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVE-SGTGKYLPKDGNSRQSDT 75
             W+ V +    K+ TG+T  +      G    +I   D+      +Y  +  +    + 
Sbjct: 3   SEWRKVKLSEIGKIVTGKTPSTKNKENFGDKYPFITPRDMRGQKYIRYTERYLSDIGFNL 62

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
                     I    +G  + K  ++    I + Q   + P D        +        
Sbjct: 63  LKSIAIPPNSICVTCIGS-MGKIAMSSKQSITNQQINSIIPNDEYD-PSFIYYCLKPKED 120

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
             ++I  G TM   +     NI + +PPL EQ  I   + A   +    I       + L
Sbjct: 121 YFKSISSGTTMPILNKTDFSNIEIEVPPLPEQQKIASILSAFDDK----IELNNEMNKTL 176

Query: 196 KEKKQALVSYIVTKGLNPD---VKMKDSGIE----WVGLVPDHWEVKPFFALVTELNRKN 248
           +E  Q +  +       P+      K SG E     +GL+P  W+VK    LV      +
Sbjct: 177 EEIAQVIFKHWFIDFEFPNENGEPYKSSGGEFVDSELGLIPKGWKVKSIGELVDFTISGD 236

Query: 249 TKLIESNILSLSYGNIIQKLETRNMG----------LKPESYETYQIVDPGEIVFRFIDL 298
               E +         I+  +   +               S    + +  G+I+      
Sbjct: 237 WGNDERSQDYDKKCFCIRGADFPPIVRGDKTNIPVRFLKRSSFEKRRLKHGDILIEVSGG 296

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS---YDLCKVFYAMGSGLRQ 355
              + + R+  V    I       V  +      +  ++ S   +   +  Y  G   + 
Sbjct: 297 TKGRPTGRTVFVHRNLIKQFDESLVFSNFCRLIRVNDILNSIILFLYLQFIYNKGKMTQY 356

Query: 356 SLKFEDVKRL---------PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
            ++   +             + V PI+ Q    N++     +      K       L + 
Sbjct: 357 EIQSTGISNFQLKYFFENEKLAVAPIEIQEKFINLVEPIFDK------KYTFENYYLSQL 410

Query: 407 RSSFIAAAVTGQIDL 421
           R + +   ++G+I +
Sbjct: 411 RDTLLPKLISGEIRV 425



 Score = 40.5 bits (93), Expect = 0.52,   Method: Composition-based stats.
 Identities = 35/192 (18%), Positives = 59/192 (30%), Gaps = 28/192 (14%)

Query: 10  YKDSGVQW----IGAIPKHWKVVPIKRFTKL-------NTGRTSESGKDIIYIGLED--- 55
           YK SG ++    +G IPK WKV  I             N  R+ +  K    I   D   
Sbjct: 201 YKSSGGEFVDSELGLIPKGWKVKSIGELVDFTISGDWGNDERSQDYDKKCFCIRGADFPP 260

Query: 56  VESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY-----GKLGPYLRKAIIA-------DF 103
           +  G    +P     R S          G IL       K  P  R   +        D 
Sbjct: 261 IVRGDKTNIPVRFLKRSSFE--KRRLKHGDILIEVSGGTKGRPTGRTVFVHRNLIKQFDE 318

Query: 104 DGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPP 163
             + S    +++  D+L  ++    L     +      E  +   ++++           
Sbjct: 319 SLVFSNFCRLIRVNDILNSIILFLYLQFIYNKGKMTQYEIQSTGISNFQLKYFFENEKLA 378

Query: 164 LAEQVLIREKII 175
           +A   +  + I 
Sbjct: 379 VAPIEIQEKFIN 390


>gi|16799600|ref|NP_469868.1| hypothetical protein lin0525 [Listeria innocua Clip11262]
 gi|16412965|emb|CAC95757.1| lin0525 [Listeria innocua Clip11262]
          Length = 401

 Score =  107 bits (267), Expect = 3e-21,   Method: Composition-based stats.
 Identities = 52/400 (13%), Positives = 124/400 (31%), Gaps = 32/400 (8%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+   ++       G+  E  +D              K++  +G  ++     V     G
Sbjct: 18  WEQRKLRDIANYRNGKAHEQVEDED----GKYTIINSKFISTNGKVQRYTNEQVEPIFDG 73

Query: 85  QILYGKLGPYLRKA------IIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           +I          KA      +  D     + +   + P + +  +   + ++ +      
Sbjct: 74  EIAMVLSDLPNGKALAKLFLVKEDGKYTLNQRIAGITPNENIDPIFLNFRMNRN--NYFL 131

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
               G T ++     + N     P   EQ  I          I     +           
Sbjct: 132 KFDSGVTQTNLSKSQVENFIALYPTFDEQYKIGLFFTQLDDTIALHQRKLDALK------ 185

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI----ES 254
              L+    ++ + P+   K   I +     + WE +           K+        ++
Sbjct: 186 ---LMKKAFSQQIFPENNRKKPKIRFTSFY-EEWEQRKIGEYGYFYYGKSAPKWSVAQDA 241

Query: 255 NILSLSYGNIIQKL--ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
               + YG +  K   E   +       ++      G  V      +N       + +  
Sbjct: 242 TTPCVRYGELYTKFGPEIDIVHSYTNIDKSNLKFSSGNEVLVPRVGENPLDFANCSWLSI 301

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI 372
             +     ++V        ++A+  RS    +    +  G   +L +  ++ + + VP I
Sbjct: 302 SNVAIGEMISVYNTEQYPLFIAYYFRSKMKYEFAKRVEGGNVSNLYYSYLEDILISVPSI 361

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           +EQ  I   +N    +ID+ +  ++  +  +KE + +++ 
Sbjct: 362 EEQKKIAEFLN----KIDITINLLQNKLGRIKELKKAYLQ 397



 Score = 60.6 bits (145), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 32/197 (16%), Positives = 64/197 (32%), Gaps = 9/197 (4%)

Query: 215 VKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMG 274
           + +      +  L    WE +    +    N K  + +E      +  N   K  + N  
Sbjct: 1   MPLFYVFYHYFNLPFRAWEQRKLRDIANYRNGKAHEQVEDEDGKYTIIN--SKFISTNGK 58

Query: 275 LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG--IITSAYMAVKPHGIDSTY 332
           ++  + E  + +  GEI     DL N K   +   V E G   +      + P+  +   
Sbjct: 59  VQRYTNEQVEPIFDGEIAMVLSDLPNGKALAKLFLVKEDGKYTLNQRIAGITPNE-NIDP 117

Query: 333 LAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
           +    R               + +L    V+    L P   EQ+ I         ++D  
Sbjct: 118 IFLNFRMNRNNYFLKFDSGVTQTNLSKSQVENFIALYPTFDEQYKIGLF----FTQLDDT 173

Query: 393 VEKIEQSIVLLKERRSS 409
           +   ++ +  LK  + +
Sbjct: 174 IALHQRKLDALKLMKKA 190



 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 26/192 (13%), Positives = 65/192 (33%), Gaps = 11/192 (5%)

Query: 23  KHWKVVPIKRFTKLNTGRTSES-----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           + W+   I  +     G+++             +   ++ +  G  +    +    D S 
Sbjct: 213 EEWEQRKIGEYGYFYYGKSAPKWSVAQDATTPCVRYGELYTKFGPEIDIVHSYTNIDKSN 272

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQF--LVLQPKDVLPELLQGWLLSIDVTQ 135
           +   +  ++L  ++G          +  I +     ++         L   +     +  
Sbjct: 273 LKFSSGNEVLVPRVGENPLDFANCSWLSISNVAIGEMISVYNTEQYPLFIAYYFRSKMKY 332

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
                 EG  +S+  +  + +I + +P + EQ  I E +     +ID  I      +  +
Sbjct: 333 EFAKRVEGGNVSNLYYSYLEDILISVPSIEEQKKIAEFLN----KIDITINLLQNKLGRI 388

Query: 196 KEKKQALVSYIV 207
           KE K+A +  + 
Sbjct: 389 KELKKAYLQNMF 400


>gi|114563125|ref|YP_750638.1| restriction modification system DNA specificity subunit [Shewanella
           frigidimarina NCIMB 400]
 gi|114334418|gb|ABI71800.1| restriction modification system DNA specificity domain [Shewanella
           frigidimarina NCIMB 400]
          Length = 406

 Score =  107 bits (267), Expect = 3e-21,   Method: Composition-based stats.
 Identities = 50/407 (12%), Positives = 128/407 (31%), Gaps = 54/407 (13%)

Query: 26  KVVPIKRF-TKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           +  P+     K+++G T ++        DI ++  ++V                 D S+ 
Sbjct: 17  EWKPLDDISVKISSGGTPKTGVAEFYDGDIPWLRTQEVNFDEIWDTGVKITEAGVDNSSA 76

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
                  ++    G  + K  I       +     +Q    +      +   +   + I+
Sbjct: 77  KWIPANCVIVAMYGATVGKIGINKIPMTTNQACANIQLDGNIANYRYVFHFLLSQYEYIK 136

Query: 139 AICEGATMSHADWKGIGNIPMPIPP-------LAEQVLIREKIIAETVRIDTLITERIRF 191
           ++  G + ++ +   +  + +PIP        LA Q  I   + A T     L  E I  
Sbjct: 137 SLGSG-SQTNINAGIVKKLVVPIPCPNNPEKSLAIQAEIVRILDAFTAMTAELTAELIMR 195

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEW--VGLVPDHWEVKPFFALVTELNRKNT 249
            +     +  L+S             ++  +EW  +G + ++       +    +     
Sbjct: 196 KKQYNYYRDQLLS------------FEEGEVEWKTLGDLAEN-----LDSKRKPITSGLR 238

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
           +  E      S      K    +      S +   ++                  +  + 
Sbjct: 239 EAGEIPYYGASGIVDYVKDYIFDGDYLLVSEDGANLLARN-------------TPIAFSI 285

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
             +  +   A++       +  Y+ + + S DL           +  L  ++++ + +  
Sbjct: 286 SGKTWVNNHAHVLKFETYAERKYVEYYLNSIDLTPYI---SGAAQPKLNKKNLESINIPN 342

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           P  KE+  I  +++   +    + E + + I L ++     R   ++
Sbjct: 343 PAPKEKERIVAILDKFDSLTCSIKEGLPREIELRQKQYEYYRDLLLS 389


>gi|262375871|ref|ZP_06069102.1| predicted protein [Acinetobacter lwoffii SH145]
 gi|262308965|gb|EEY90097.1| predicted protein [Acinetobacter lwoffii SH145]
          Length = 391

 Score =  107 bits (267), Expect = 3e-21,   Method: Composition-based stats.
 Identities = 60/397 (15%), Positives = 123/397 (30%), Gaps = 24/397 (6%)

Query: 30  IKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKYLP-KDGNSRQSDTSTVSIFAKG 84
           +  F  + +G   +S      +   I + D++ G+ +       ++ Q   S        
Sbjct: 8   LGDFASVISGYAFKSEWFGSGNDKVIRIGDLQDGSVQIESALTVDANQYKISNNFKIQNK 67

Query: 85  QILYGKLGPYLRKAII---ADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            IL    G  + K  I    D     + +  +++ KD +      +  S      +    
Sbjct: 68  DILMALSGATVGKIAIASETDIGAYINQRVAIIRAKDEITADYLKFFFSGVFLDDLLKNA 127

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            GA   +   K +  + +P PPL+EQ  I   +             R +    +++  Q 
Sbjct: 128 GGAAQPNLSPKQLLFMEIPFPPLSEQRRIASILDQADEL-------RQKRQHAIEKLDQL 180

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
           L +  +    +P    K   ++ VG + +         ++ +  + +       + + + 
Sbjct: 181 LQTTFIDMFGDPVSNPKGWDLKTVGEISES----KLGKMLDKKKQSSENDQYKYLRNANV 236

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
                 L         E       +  G+I+             ++             +
Sbjct: 237 QWFRFDLSDVFEMEFNEKDRKNCELKFGDILVCEGGEPGRAAIWKNDLENCFFQKALHRV 296

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
            +    I   Y  WL   Y     F    +      L    +K + V +PP+  Q +   
Sbjct: 297 RLDTTQILPEYFVWLFWFYSKNGGFDDHITVATIAHLTGVKMKAMQVPIPPLSMQEEF-- 354

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
               +   I+VL   +E S  L +   SS    A  G
Sbjct: 355 --QKKVNEIEVLKTTLENSSKLFESLFSSLQNQAFNG 389



 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 35/200 (17%), Positives = 63/200 (31%), Gaps = 14/200 (7%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKD------IIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           PK W +  +   ++   G+  +  K         Y+   +V+                  
Sbjct: 196 PKGWDLKTVGEISESKLGKMLDKKKQSSENDQYKYLRNANVQWFRFDLSDVFEMEFNEKD 255

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICST----QFLVLQPKDVLPELLQGWLLSI 131
                   G IL  + G   R AI  +    C        + L    +LPE         
Sbjct: 256 RKNCELKFGDILVCEGGEPGRAAIWKNDLENCFFQKALHRVRLDTTQILPEYFVWLFWFY 315

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
                 +     AT++H     +  + +PIPPL+ Q   ++K+      I+ L T     
Sbjct: 316 SKNGGFDDHITVATIAHLTGVKMKAMQVPIPPLSMQEEFQKKVNE----IEVLKTTLENS 371

Query: 192 IELLKEKKQALVSYIVTKGL 211
            +L +    +L +      L
Sbjct: 372 SKLFESLFSSLQNQAFNGTL 391


>gi|18765826|gb|AAL78776.1|AF326625_1 HP790-like protein [Helicobacter pylori]
          Length = 435

 Score =  107 bits (267), Expect = 3e-21,   Method: Composition-based stats.
 Identities = 61/415 (14%), Positives = 123/415 (29%), Gaps = 29/415 (6%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPKDGNSRQSD 74
           PK  +   ++   ++  G T             I +  +ED+            +     
Sbjct: 13  PKGVEFKTLEEIFEIKNGYTPSKNNPEFWEKGTIPWFRMEDIRENGRILKDSIQHITPKA 72

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP---ELLQGWLLSI 131
                +F K  I+          A++   D + + QF  L  K       ++   +    
Sbjct: 73  LKGKKLFPKNSIIISTTATIGEHALLI-VDSLANQQFTFLSKKANCDIALDMKFFFYQCF 131

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            + +  +     +  +  D         PIPPL  Q  I + + A T     L TE    
Sbjct: 132 LLGEWCKNNTNVSGFASVDMTAFKKYKFPIPPLEIQQEIVKILDAFTELNTELNTELKAR 191

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGL--------VPDHWEVKPFFALVTE 243
            +  +  +  L+ +   K  + D K K +   +            P   E K    L   
Sbjct: 192 KKQYQYYQNMLLDFKDIKQSHKDAKEKLARKTYPKRLKALLQTLAPKGVEFKKIGELFKR 251

Query: 244 LNRKNTKLIESNILSLSYGN-IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK 302
               N    +   L    G   I         +  +      I++   ++ +       +
Sbjct: 252 NKGINITAAQMKELHSDIGKVRIFAGGATKADINYKDISKKDIINCESVIIKSRGNIGFE 311

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFED 361
              +           S+    K + +   +L + + +        A  S ++   L   D
Sbjct: 312 YYNQPFSHKNEIWSYSS----KTNQMLVKFLYYYLSNNQYYFQKLAQSSSVKLPQLSVSD 367

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
                V VPP++ Q +I  +++  +     L+  I   I   K+     R   + 
Sbjct: 368 TDEYEVPVPPLEIQQEIVKILDQFSILTTDLLAGIPAEIKARKKQYEYYREKLLT 422


>gi|308064186|gb|ADO06073.1| type I R-M system specificity subunit [Helicobacter pylori Sat464]
          Length = 377

 Score =  107 bits (267), Expect = 3e-21,   Method: Composition-based stats.
 Identities = 59/408 (14%), Positives = 117/408 (28%), Gaps = 42/408 (10%)

Query: 21  IPKHWKVVPIKRF-----TKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           +P +W+ V +         K      +    +I +  +    +    ++ K         
Sbjct: 2   LPLNWQRVRLGDIGKPCMCKRVMKHQTTRYGEIPFYKIGTFGNTADAFISKKLFL--EYK 59

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
           +  S   KG IL    G   R  I            +V        E L           
Sbjct: 60  TKYSFPKKGDILISASGTIGRAVIYDGKPAYFQDSNIVWI---DNDETLVKNDFLFYAYS 116

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            ++   E  T+         N  +P+PPL EQ  I   +      +  L    ++   + 
Sbjct: 117 NVKWNTEHTTILRLYNDNFRNTLIPLPPLNEQNAIANILSGLDRYLYALDALILKKEGVK 176

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
           K     L+S           ++K     W  +             +++ +  NTK  + N
Sbjct: 177 KALSFELLSQ--------RKRLKGFNQAWQRVRLGDIFFITAGGDLSKPHYSNTKQSDFN 228

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
               S     + L           Y ++ I+    I               +       +
Sbjct: 229 YPIYSNAIEKKGLC---------GYSSFFIIKNKSITITARGTIG-----VAFFRDYPYV 274

Query: 316 ITSAYMAVKPHGIDSTYLAW--LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
                + ++P   +     +   + S    KV +         L    V    + +PP+ 
Sbjct: 275 PIGRLLVLQPKISNIDCRFYAEYINS----KVKFNTEQTTIPQLTIPKVALCEIPLPPLN 330

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           EQ  I N+++     I  L  K  Q     +  + +     ++ +I +
Sbjct: 331 EQIAIANILSALDNEIASLKNKKRQ----FENIKKALNHDLMSAKIRV 374


>gi|289423479|ref|ZP_06425281.1| type I restriction-modification system specificity subunit
           [Peptostreptococcus anaerobius 653-L]
 gi|289156113|gb|EFD04776.1| type I restriction-modification system specificity subunit
           [Peptostreptococcus anaerobius 653-L]
          Length = 401

 Score =  107 bits (267), Expect = 3e-21,   Method: Composition-based stats.
 Identities = 64/401 (15%), Positives = 128/401 (31%), Gaps = 33/401 (8%)

Query: 23  KHWKVVPIKRFTK------LNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           + W+   +           +   +T + G D+ +  +         ++ ++    +    
Sbjct: 21  EDWEQRKLGELGNVGMCKRIFKEQTFDEG-DVPFFKIGTFGGEADAFISRELF--EEYKK 77

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
                 KG IL    G   R       D       +V    D          +   +   
Sbjct: 78  KYPYPEKGAILISASGTIGRTVEFTGRDEYFQDSNIVWLKHDSRLLDSFLKYVYECIKW- 136

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
                EG+T+       I    + +P + EQ  I          ID LIT   R +E LK
Sbjct: 137 --NGIEGSTIKRLYNNNILKTEIRLPEINEQKQISTF----FKFIDNLITLHQRKLEDLK 190

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
           E K+ L+  +  K      +++  G        + WE +    L      +N  LI  + 
Sbjct: 191 EMKKGLLQKMFPKNNEKVPELRFPG------FTEDWEQRKLGKLYQRNTERNENLIGYDK 244

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
                    +       G    S  TY+++  G+I F     +           +  GI+
Sbjct: 245 TISVATMSYKDDGN---GASESSLSTYKVLRVGDIAFEGHTNKQFHFGRFVVNDIGTGIM 301

Query: 317 TSAYMAVKP-HGIDSTYLAWLMRSYDLCKVF--YAMGSGLRQS-LKFEDVKRLPVLVPPI 372
           +  +  ++P + +   +    + S  + +     +  +G   + L   +     ++VP  
Sbjct: 302 SPRFSTLRPLNEMPVNFWKQYIHSESVMRRILVNSTKAGTMMNELVIPEFLNQTIMVPSE 361

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            EQ  I          +D L+   ++ +  LKE +   +  
Sbjct: 362 NEQAVIGQY----FTNLDHLITLHQRKLNHLKELKKGLLQQ 398


>gi|313618465|gb|EFR90470.1| type I site-specific restriction-modification system, S [Listeria
           innocua FSL S4-378]
          Length = 422

 Score =  107 bits (267), Expect = 3e-21,   Method: Composition-based stats.
 Identities = 57/423 (13%), Positives = 128/423 (30%), Gaps = 27/423 (6%)

Query: 23  KHWKVVPIKRFTKLNTGR-----TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
             WK V ++    +           +   +  +I   +++            S +     
Sbjct: 4   SEWKEVALEEIVDVLGDGLHGTPKYDENGEYYFINGNNLDGNIIIDEKTKKVSYEEFLKY 63

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICS-TQFLVLQPKDVLPELLQGWLLSIDVTQR 136
                +  IL    G     A       +   +       ++   E ++  +LS      
Sbjct: 64  KKDLNERTILISINGTLGNVAFYNGEKVVLGKSACYFNVKENCSKEFIKYIMLSHAFKHY 123

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           I     G T+ +   K +    + +P + EQ  I   +      +D  I    +  + L+
Sbjct: 124 INTYSTGTTIKNMGLKQMRAFRLNLPEINEQKAIAHVL----STLDEKIEVNNQINKTLE 179

Query: 197 EKKQALVSYIVTKGLNPDV---KMKDSGIE----WVGLVPDHWEVKPFFALVTELNRKNT 249
              QA+          P+      K SG E     +G++P  WEV            K  
Sbjct: 180 NMAQAIFKQWFVDFEFPNEDGEPYKSSGGEMIASELGMIPKGWEVGNLAESKLTNLVKTG 239

Query: 250 KLIESNILSLSYGNIIQKLE----TRNMGLKPESYETYQIVDPGEIVFRFI--DLQNDKR 303
               S+         + K      T  +                 + F  +    +  + 
Sbjct: 240 IAEFSSEKIYLATADVDKSNILSNTTKVTYNERPSRANMQPKENTVWFAKMKDSRKLIRV 299

Query: 304 SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVK 363
           S  S  ++E  I ++ +  +      +   +++  +    +          Q++   ++ 
Sbjct: 300 SRGSKDLIENYIFSTGFAGINVKEGLNYIWSFICSNDFDIRKNNLCHGTTMQAINNSNIS 359

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
            +P+L+P  +E   I       T  +       ++    L E R S +   ++G+I +  
Sbjct: 360 NIPLLLP-KEEMIQI---FEGVTNYLYESEYLRKKENEKLAEIRXSLLPKLMSGEIRVPL 415

Query: 424 ESQ 426
           + +
Sbjct: 416 DEE 418



 Score = 45.2 bits (105), Expect = 0.021,   Method: Composition-based stats.
 Identities = 41/215 (19%), Positives = 75/215 (34%), Gaps = 13/215 (6%)

Query: 10  YKDSGVQW----IGAIPKHWKVVPI--KRFTKLNTGRTSESGKDIIYIGLEDVESGTGKY 63
           YK SG +     +G IPK W+V  +   + T L     +E   + IY+   DV+      
Sbjct: 203 YKSSGGEMIASELGMIPKGWEVGNLAESKLTNLVKTGIAEFSSEKIYLATADVDKSNILS 262

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD------FDGICSTQFLVLQPK 117
                   +  +       +  + + K+    +   ++        + I ST F  +  K
Sbjct: 263 NTTKVTYNERPSRANMQPKENTVWFAKMKDSRKLIRVSRGSKDLIENYIFSTGFAGINVK 322

Query: 118 DVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
           + L  +   ++ S D   R   +C G TM   +   I NIP+ +P      +        
Sbjct: 323 EGLNYIW-SFICSNDFDIRKNNLCHGTTMQAINNSNISNIPLLLPKEEMIQIFEGVTNYL 381

Query: 178 TVRIDTLITERIRFIELLKEKKQALVSYIVTKGLN 212
                    E  +  E+       L+S  +   L+
Sbjct: 382 YESEYLRKKENEKLAEIRXSLLPKLMSGEIRVPLD 416


>gi|3057068|gb|AAC38351.1| HsdS subunit [Lactococcus lactis]
          Length = 425

 Score =  107 bits (267), Expect = 4e-21,   Method: Composition-based stats.
 Identities = 65/411 (15%), Positives = 147/411 (35%), Gaps = 30/411 (7%)

Query: 23  KHWKVVPIKR-FTKLN--TGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
             W+               GRT +           + +   +V++G    L       + 
Sbjct: 22  NDWEERKFFESIASTIDFRGRTPKKLGMDWSDSGYLALSALNVKNGYIDPLADAHYGDEK 81

Query: 74  DTST---VSIFAKGQILYGKLGPYLRKAIIADFDGIC-STQFLVLQPK--DVLPELLQGW 127
                       KGQ+L+    P    A + D +G   S + +  + K   +  + L   
Sbjct: 82  LYRKWMSGRELKKGQVLFTTEAPMGNVAQVPDDNGYILSQRTVAFETKEDMMTNDFLAVL 141

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
           L S  V   + A+  G T      K +  + + +P   ++    +KI +    +D  I  
Sbjct: 142 LKSPLVFNNLSALSSGGTAKGVSQKSLKGLSITVPLDIDEQ---QKIGSFFKHLDDTIAL 198

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK 247
             R ++LLKE+K+  +  +  K      +++ +G        +  ++     L      K
Sbjct: 199 HQRKLDLLKEQKKGYLQKMFPKNGAKVPELRFAG---FADDWEERKLGDIAPLRGGYAFK 255

Query: 248 NTKLIESNILSLSYGNIIQKLET--RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
           ++K  ++ +  +   NI+   E          +  +   I+     V         K S+
Sbjct: 256 SSKFRKTGVPIVRISNILSSGEVGGDFAYYDEQDKDDKYILPDKSAVLAMSGATTGKVSI 315

Query: 306 RSAQVMERGIITSAYMAVKP-HGIDSTYLAWLMRSYDLCKVFYA-MGSGLRQSLKFEDVK 363
            S    ++          +    ID  +++ ++RS        + + SG + ++  +++ 
Sbjct: 316 LSQTDYDKVYQNQRVGYFQSVDYIDYGFISTIVRSELFMMQLESVLVSGAQPNVSSKEID 375

Query: 364 RLPVLVPPI-KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
               ++P + +EQ  I +       ++D  +   ++ + LLKE++  F+  
Sbjct: 376 SFNFMIPILVQEQQKIGSF----FKQLDDTIALHQRKLDLLKEQKKGFLQK 422


>gi|282883047|ref|ZP_06291648.1| N-6 DNA methylase [Peptoniphilus lacrimalis 315-B]
 gi|281297104|gb|EFA89599.1| N-6 DNA methylase [Peptoniphilus lacrimalis 315-B]
          Length = 412

 Score =  107 bits (267), Expect = 4e-21,   Method: Composition-based stats.
 Identities = 54/395 (13%), Positives = 125/395 (31%), Gaps = 24/395 (6%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           +   +    +   G T    KDII   +  +  G         ++R+             
Sbjct: 14  EWKKLGEVCEFQRGNTITK-KDIIEGVIPVIAGGQKPAYYHGISNREGV----------T 62

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           I     G Y       +     S  F +   K++       +   +    +I  + +G+ 
Sbjct: 63  IAVAGSGAYAGFVSYWEEPIFLSDAFSIEPNKNLN--KRYLYHWLLSNQHKIFELKQGSG 120

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
           + H   K +G   +PIP L  Q  I E +   T  +  L  E     +  +  +  L+S 
Sbjct: 121 IPHVYGKDLGRFEIPIPSLETQEKIVETLDKFTNYVTELQAELQARNKQYEYYRDMLLSE 180

Query: 206 IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN-- 263
                ++  +    +    + +       +          +K        I  +  G+  
Sbjct: 181 EYLNKISMKMDALTNKDYELKMTTLGEIAQINRGASPRPIKKYITEDIKGIPWIKIGDVG 240

Query: 264 -IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
              + +      +  E  +  +I+  G+ +            L     +  G  +   ++
Sbjct: 241 VNSKYVTKTAQKITLEGAKKSRILKKGDFIMSNSMSYGRPYILGIDGAIHDGWAS---IS 297

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFY-AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
              + +DS +L + + S  +   +   + S    +L  E +  LP+ V   + Q  +  V
Sbjct: 298 GFYNTLDSDFLYYYLTSSKVQNYWKGKINSSSVDNLNSEIICSLPIPVIDKELQQVVAKV 357

Query: 382 INVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           ++   + +D     + + I   ++     R   + 
Sbjct: 358 LDKFQSLLDDTEGLLPEEIEKRQKQYEYYREKLLT 392



 Score = 67.9 bits (164), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 19/131 (14%), Positives = 44/131 (33%), Gaps = 2/131 (1%)

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
           Y  +   E V   +          S    E   ++ A+       ++  YL   + S   
Sbjct: 52  YHGISNREGVTIAVAGSGAYAGFVSYWE-EPIFLSDAFSIEPNKNLNKRYLYHWLLSNQ- 109

Query: 343 CKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
            K+F          +  +D+ R  + +P ++ Q  I   ++  T  +  L  +++     
Sbjct: 110 HKIFELKQGSGIPHVYGKDLGRFEIPIPSLETQEKIVETLDKFTNYVTELQAELQARNKQ 169

Query: 403 LKERRSSFIAA 413
            +  R   ++ 
Sbjct: 170 YEYYRDMLLSE 180


>gi|218703039|ref|YP_002410668.1| Type I restriction enzyme EcoAI specificity protein (S protein)
           (S.EcoAI) [Escherichia coli IAI39]
 gi|218373025|emb|CAR20914.1| Type I restriction enzyme EcoAI specificity protein (S protein)
           (S.EcoAI) [Escherichia coli IAI39]
          Length = 586

 Score =  107 bits (267), Expect = 4e-21,   Method: Composition-based stats.
 Identities = 65/489 (13%), Positives = 133/489 (27%), Gaps = 101/489 (20%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           +P+ W++  +        G T         G DI +    ++         +   +    
Sbjct: 101 VPQGWELCYLNDIGDWGAGATPNRTNSGYYGGDIPWFKSGELSEDYITDSEEHITALALK 160

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
             ++     G +L    G  + K  I +     +       P D L       +      
Sbjct: 161 ECSLRDNQPGDVLIAMYGATIGKTSILNSRSTTNQAVCACTPFDGLSNQ-YLLIFLKASK 219

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK--------------------- 173
           +   A+  G    +   + I      +PPL EQ+ I +K                     
Sbjct: 220 KVFTAMGAGGAQPNISKEKIVATLFALPPLNEQLRIVKKVEQLMSLCDQLEQQSLTSLDA 279

Query: 174 --------------------IIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNP 213
                               +     RI             +   KQ ++   V   L P
Sbjct: 280 HQQLVETLLGTLTDSQNTEELAENWARISEHFDTLFTTEASVDALKQTILQLAVMGKLVP 339

Query: 214 DVK------------------------------------MKDSGIEWVGLVPDHWEVKPF 237
                                                   K   +     +P++W     
Sbjct: 340 QDPNDEPAENLFNRLCITRNLSLQNQLKNKEADIMLRKIKKTKPVTPPFKLPENWICTNL 399

Query: 238 ---FALVTELNRKNTKLIESNILSLSYGNIIQKLE-----TRNMGLKPESYETYQIVDPG 289
                 + + + K    +++ I  +   NI  +               E +       PG
Sbjct: 400 IEICEYLVDCHNKTAPYVDAGIPIIRTTNIRNRNFQEQDLKFVNKETYEFWSRRCTPQPG 459

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
           +I+F       +   +        G   +  + V    I + ++   +    L +     
Sbjct: 460 DIIFTREAPMGEALIIPPNVQWCLG-QRTMLIRVMHEFISNEFILLALTEPLLLERASKH 518

Query: 350 GSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
             G   + L+  DV+ L + +PP+ EQ+ I   + +  +  D    K ++ I   K+  +
Sbjct: 519 AVGLTVKHLRVGDVETLNIPLPPLNEQYRIVAKVKILLSLCD----KAQKKIKSAKQ--T 572

Query: 409 SF-IAAAVT 416
              +A A+T
Sbjct: 573 QLHLADALT 581



 Score = 54.8 bits (130), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 26/198 (13%), Positives = 61/198 (30%), Gaps = 9/198 (4%)

Query: 20  AIPKHWKVVPIKRFTKL----NTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            +P++W    +    +     +          I  I   ++ +   +       ++++  
Sbjct: 389 KLPENWICTNLIEICEYLVDCHNKTAPYVDAGIPIIRTTNIRNRNFQEQDLKFVNKETYE 448

Query: 76  STVSIF--AKGQILYGKLGPYLRKAII-ADFDGICST--QFLVLQPKDVLPELLQGWLLS 130
                     G I++ +  P     II  +           + +  + +  E +   L  
Sbjct: 449 FWSRRCTPQPGDIIFTREAPMGEALIIPPNVQWCLGQRTMLIRVMHEFISNEFILLALTE 508

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
             + +R      G T+ H     +  + +P+PPL EQ  I  K+       D    +   
Sbjct: 509 PLLLERASKHAVGLTVKHLRVGDVETLNIPLPPLNEQYRIVAKVKILLSLCDKAQKKIKS 568

Query: 191 FIELLKEKKQALVSYIVT 208
             +       AL +  + 
Sbjct: 569 AKQTQLHLADALTNAAIN 586


>gi|158522936|ref|YP_001530806.1| restriction modification system DNA specificity subunit
           [Desulfococcus oleovorans Hxd3]
 gi|158511762|gb|ABW68729.1| restriction modification system DNA specificity domain
           [Desulfococcus oleovorans Hxd3]
          Length = 434

 Score =  107 bits (267), Expect = 4e-21,   Method: Composition-based stats.
 Identities = 74/422 (17%), Positives = 137/422 (32%), Gaps = 35/422 (8%)

Query: 29  PIKRFTKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
             K   +  +G T    ++        +  + + +++                +      
Sbjct: 7   KFKNLIEYKSGYTWSKEQENSKFVDGSVRVLTVTNIQEKLDLGSELYLTQVTKNDRERKA 66

Query: 81  FAKG-QILYGKLGP---YLRKAIIADF----DGICSTQFLVLQPKDVLPELLQGWLLSID 132
            +KG  I     G          I D          T F+   P  VLP+    WL S  
Sbjct: 67  ASKGWSIAVSSNGNRKRIGNAVFINDDTDYLFASFLTGFIPKDPDTVLPKYFFYWLSSHP 126

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           + +RI ++ EG T        I  +        +    ++ I     ++D +I      I
Sbjct: 127 IQERITSVSEGTT--GLGNLDIRFLRNMDFEYPKNTSEQKAIAGILSKVDAVIEAVENSI 184

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGI----EWVGLVPDHWEVKPFFALVTELNRKN 248
           +  +  K++L+  ++T  L PD   +        E  G VP  WEVKP           N
Sbjct: 185 KAAERLKKSLMQNLLTGKLKPDGTWRSEDDFYMDEKFGKVPKGWEVKPVGGKSLCNINPN 244

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYET--YQIVDPGEIVFRFIDLQ--NDKRS 304
               +         + I         L  +  +   Y     G+I+F  I     N K +
Sbjct: 245 YNFTKGEQYDFIPMDAINDDFRGLGYLVTKKVDGGGYTRFRIGDILFAKITPCTENGKVA 304

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM---GSGLRQSLKFED 361
           L        G  ++ ++  +P         + + S D           G+  RQ + ++ 
Sbjct: 305 LIEKMNTTVGFASTEFIIFQPKETIDNQFYFYLLSSDRVHNLSVSLMEGTTGRQRVPWKI 364

Query: 362 VKR-LPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
            K  +   +P  + EQ +I   +      I+ L       I  LK  + S +   +TG++
Sbjct: 365 FKNRILAPIPIDLDEQRNIAKRL----KVIEKLNVCKYSKIQSLKNLKKSLMQNLLTGKV 420

Query: 420 DL 421
            +
Sbjct: 421 RV 422



 Score = 67.5 bits (163), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 39/205 (19%), Positives = 72/205 (35%), Gaps = 14/205 (6%)

Query: 16  QWIGAIPKHWKVVPI--KRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
           +  G +PK W+V P+  K    +N       G+   +I ++ +             +++ 
Sbjct: 219 EKFGKVPKGWEVKPVGGKSLCNINPNYNFTKGEQYDFIPMDAINDDFRGLG--YLVTKKV 276

Query: 74  DTSTVSIFAKGQILYGKLGPY--LRKAIIADFD----GICSTQFLVLQPKDVLPELLQGW 127
           D    + F  G IL+ K+ P     K  + +      G  ST+F++ QPK+ +      +
Sbjct: 277 DGGGYTRFRIGDILFAKITPCTENGKVALIEKMNTTVGFASTEFIIFQPKETIDNQFYFY 336

Query: 128 LLSIDVTQRIEAI----CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           LLS D    +         G             +      L EQ  I +++         
Sbjct: 337 LLSSDRVHNLSVSLMEGTTGRQRVPWKIFKNRILAPIPIDLDEQRNIAKRLKVIEKLNVC 396

Query: 184 LITERIRFIELLKEKKQALVSYIVT 208
             ++      L K   Q L++  V 
Sbjct: 397 KYSKIQSLKNLKKSLMQNLLTGKVR 421


>gi|255038983|ref|YP_003089604.1| restriction modification system DNA specificity domain [Dyadobacter
           fermentans DSM 18053]
 gi|254951739|gb|ACT96439.1| restriction modification system DNA specificity domain [Dyadobacter
           fermentans DSM 18053]
          Length = 422

 Score =  107 bits (267), Expect = 4e-21,   Method: Composition-based stats.
 Identities = 53/410 (12%), Positives = 118/410 (28%), Gaps = 24/410 (5%)

Query: 24  HWKVVPIKRFTKLNTG--RTSE-SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
            W    +    ++  G  +T   + + + ++ +ED++    K   K  +           
Sbjct: 18  DWNRFDLVDIFEIYDGTHQTPTYTSEGVNFVSVEDIK--DLKASRKYISEAAFRKDFKIK 75

Query: 81  FAKGQILYGKL--GPYLRKAIIADFD---GICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
                IL  ++  G     AI+ D +      S   L ++    +    Q         +
Sbjct: 76  PKTNDILMTRITAGTIGDTAIVRDDEPLGIYVSLALLRIKIDGSVEFFNQNINSVYFRKE 135

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
             + I   A     +   IG   + I    EQ  I   + A   ++  L  ++    +  
Sbjct: 136 LHKRIIHTAFPKKINLGDIGGCKISICSKKEQQKIASFLTAVDEKLQALKKKKSLLEQYK 195

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK---NTKLI 252
           K   Q + S  +    +      D      G V                      N    
Sbjct: 196 KGVMQKIFSQELRFKGDNGEAFPDWQKVKFGEVYTFKVTNSLSRDKLNYTEGEVRNIHYG 255

Query: 253 ESNILSLSYGNIIQK-LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
           + +       +I ++ +   N  +             G++V        +          
Sbjct: 256 DIHTKFNILFDIKKEPVPFVNDDVLLNRLSEDSYCKEGDLVIADASEDYNDIGKSIEIFN 315

Query: 312 ERG-----IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ-SLKFEDVKRL 365
             G      + +       + +   +  +LMRS  +      +  G +  S+    +  +
Sbjct: 316 LDGEKVLAGLHTFLARPNRNTMSPGFGGYLMRSEKVKLQLMFIAQGTKVLSISTSRLSNI 375

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            + +P I EQ  I + +    + +D  +      I LL+  +   +    
Sbjct: 376 EIDLPIIFEQKKIVDFL----SNLDSTIACCTNEIQLLEIWKKGLLQRLF 421



 Score = 68.3 bits (165), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 20/186 (10%), Positives = 58/186 (31%), Gaps = 7/186 (3%)

Query: 241 VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDP-GEIVFRFIDLQ 299
           + +   +        +  +S  +I     +R    +    + ++I     +I+   I   
Sbjct: 30  IYDGTHQTPTYTSEGVNFVSVEDIKDLKASRKYISEAAFRKDFKIKPKTNDILMTRITAG 89

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG--SGLRQSL 357
               +         GI  S  +          +    + S    K  +     +   + +
Sbjct: 90  TIGDTAIVRDDEPLGIYVSLALLRIKIDGSVEFFNQNINSVYFRKELHKRIIHTAFPKKI 149

Query: 358 KFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
              D+    + +   KEQ  I + +     ++  L    ++   LL++ +   +    + 
Sbjct: 150 NLGDIGGCKISICSKKEQQKIASFLTAVDEKLQAL----KKKKSLLEQYKKGVMQKIFSQ 205

Query: 418 QIDLRG 423
           ++  +G
Sbjct: 206 ELRFKG 211


>gi|159901786|ref|YP_001548031.1| restriction modification system DNA specificity subunit
           [Herpetosiphon aurantiacus ATCC 23779]
 gi|159894825|gb|ABX07903.1| restriction modification system DNA specificity domain
           [Herpetosiphon aurantiacus ATCC 23779]
          Length = 418

 Score =  107 bits (266), Expect = 4e-21,   Method: Composition-based stats.
 Identities = 72/414 (17%), Positives = 145/414 (35%), Gaps = 20/414 (4%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGKD---IIYIGLEDVESGTGKYLPKDGNSRQSD 74
           I  +P HW V  +K   K  + +   +        Y GL+ +  G  +   ++     + 
Sbjct: 11  IWDLPSHWGVKKLKLIAKEISQQIKPADNPSTVYNYWGLDAITKGQFQEPKQNLVKGSNI 70

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ--GWLLSID 132
            ST   F + QI+Y KL PYL K I+    GI +T+++V++P   + +       L S  
Sbjct: 71  ESTCVTFTENQIIYSKLRPYLNKVIVPSIPGIGTTEWIVVEPDANVVDRKYLAYVLRSPA 130

Query: 133 VTQRIEA--ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
             + +       GA M         N P+P+P L+      +   +  VRI++L++E   
Sbjct: 131 FLRYVSRGENINGARMPRLRKDSFWNFPIPLPSLSNPARSLQIQQSIVVRIESLLSELGE 190

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
             EL +      +   V+  ++   +     +E         +           +RK+++
Sbjct: 191 IRELHRR-----IDLDVSNVMDSIFRDVYIDLENKYPSRQRIDSFTQVKTGGTPSRKHSE 245

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPES---YETYQIVDPGEIVFRFIDLQNDKRSLRS 307
               +I  +  G +   L  +               + +  G ++         +     
Sbjct: 246 YYNGDIPWVKTGELKDGLIKKTEEYITLEAMQNSNAKKIPIGTLLVAMYGQGQTRGRTGL 305

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLP 366
             +          +   P+     YL +            +    G + +L  + +K L 
Sbjct: 306 LAIEATTNQACCAILPNPYIFIPRYLQFWFIFMYHDLRKKSDARGGNQANLNSQIIKELK 365

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL--KERRSSFIAAAVTGQ 418
             +PPI  Q  + + ++     +  +     QSI  L   +   S +  A  G+
Sbjct: 366 PPLPPIFVQQQVVSYLDAAYNELIDMQSI--QSINKLLFDQIEQSILEQAFRGE 417



 Score = 68.3 bits (165), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 26/193 (13%), Positives = 61/193 (31%), Gaps = 10/193 (5%)

Query: 29  PIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            I  FT++ TG T           DI ++   +++ G  K   +         S      
Sbjct: 226 RIDSFTQVKTGGTPSRKHSEYYNGDIPWVKTGELKDGLIKKTEEYITLEAMQNSNAKKIP 285

Query: 83  KGQILYGKLGP--YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
            G +L    G      +  +   +   +     + P   +          I +   +   
Sbjct: 286 IGTLLVAMYGQGQTRGRTGLLAIEATTNQACCAILPNPYIFIPRYLQFWFIFMYHDLRKK 345

Query: 141 C--EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
               G   ++ + + I  +  P+PP+  Q  +   + A    +  + + +     L  + 
Sbjct: 346 SDARGGNQANLNSQIIKELKPPLPPIFVQQQVVSYLDAAYNELIDMQSIQSINKLLFDQI 405

Query: 199 KQALVSYIVTKGL 211
           +Q+++       L
Sbjct: 406 EQSILEQAFRGEL 418


>gi|300313842|ref|YP_003777934.1| Type I site-specific deoxyribonuclease specificity subunit
           [Herbaspirillum seropedicae SmR1]
 gi|300076627|gb|ADJ66026.1| Type I site-specific deoxyribonuclease specificity subunit protein
           [Herbaspirillum seropedicae SmR1]
          Length = 421

 Score =  107 bits (266), Expect = 4e-21,   Method: Composition-based stats.
 Identities = 58/401 (14%), Positives = 116/401 (28%), Gaps = 21/401 (5%)

Query: 24  HWKVVPIKRFTKLNT----GRTSESGKDIIYIGLEDVES---GTGKYLPKDGNSRQSDTS 76
            W    +     + +     +   +   + +    DV S   G              + S
Sbjct: 20  DWDERELGELFPITSAARVHKNEWTKSGVPFFRSSDVVSHFKGEANVKAFVSVELYEELS 79

Query: 77  TVS-IFAKGQILYGKLGPYLRKAIIADF---DGICSTQFLVLQPKDVLPELLQGWLLSID 132
                  KG IL    G      ++ +        +        + V    L  +L S  
Sbjct: 80  AKVGRIKKGDILITGGGSIGIPFLVKNDDPLYFKDADLLWFKIREAVDSHYLFTFLSSAP 139

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAE-QVLIREKIIAETVRIDTLITERIRF 191
             Q +++I    T++H   +     P+ +P   E Q  I E        I     +  + 
Sbjct: 140 FRQYLKSISHIGTIAHYTVEQAKGTPVMLPRYPEEQTKIGEYFRELDSLIGLHQRKHDKL 199

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
             L K   Q +          P+++ K+   +WV                 E   ++   
Sbjct: 200 AALKKAMLQKMFPQ--PGATTPEIRFKNFSGDWVEKTLAELCDLFTDGDWIESKDQSPSG 257

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYE--TYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
           I          N       +   +  +++E    + V  G+I+   +     +  +    
Sbjct: 258 IRLLQTGNVGINEFIDKADKARWISIDTFERLKCEEVFAGDILISRLPEPAGRACIVPKL 317

Query: 310 VMERGIITSAYMAVKPHGIDSTYLA-WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVL 368
           +          +       D  +L            V   +G G RQ +    + +  V 
Sbjct: 318 LHRVITAVDCTIVRTAKNCDPAFLVQHCSLDSYFETVNDFLGGGTRQRISRSALGKFVVK 377

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
           VP  +EQ  I          +D L+ K    +  L++ +S+
Sbjct: 378 VPDFEEQKKIGTY----FRTLDELISKHASQLQKLQQIKSA 414



 Score = 68.3 bits (165), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 22/146 (15%), Positives = 42/146 (28%), Gaps = 7/146 (4%)

Query: 270 TRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID 329
             ++ L  E       +  G+I+            L                      +D
Sbjct: 69  FVSVELYEELSAKVGRIKKGDILITGGGSIG-IPFLVKNDDPLYFKDADLLWFKIREAVD 127

Query: 330 STYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPPI-KEQFDITNVINVETA 387
           S YL   + S    +   ++   G       E  K  PV++P   +EQ  I         
Sbjct: 128 SHYLFTFLSSAPFRQYLKSISHIGTIAHYTVEQAKGTPVMLPRYPEEQTKIGEY----FR 183

Query: 388 RIDVLVEKIEQSIVLLKERRSSFIAA 413
            +D L+   ++    L   + + +  
Sbjct: 184 ELDSLIGLHQRKHDKLAALKKAMLQK 209


>gi|258540279|ref|YP_003174778.1| type I restriction-modification system specificity subunit
           [Lactobacillus rhamnosus Lc 705]
 gi|257151955|emb|CAR90927.1| Type I restriction-modification system specificity subunit
           [Lactobacillus rhamnosus Lc 705]
          Length = 391

 Score =  107 bits (266), Expect = 4e-21,   Method: Composition-based stats.
 Identities = 58/402 (14%), Positives = 129/402 (32%), Gaps = 41/402 (10%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+           + +   S      I +  +   T   +  +        +T ++  KG
Sbjct: 11  WEKRKFGDLYSKTSEKNDGSFGPDKIISVATMSWKTNVRISSE-----DYLATYNVLRKG 65

Query: 85  QILY----GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI--- 137
            I +     K   + R       DGI S  F+V +PK         + +  +   R    
Sbjct: 66  DIAFEGNKSKKFSFGRFVENDIGDGIVSHVFVVFRPKVSPIISYWKYFIHNEFVMRNILR 125

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           ++  +   M++          +  P   EQ  I   +      I     +  +   L + 
Sbjct: 126 KSTIKATMMTNLSSHDFLRQTLCTPSFKEQENIGNFLERLDSLIAATQDKLEKLSILQRG 185

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
             Q   +                   W      H         V    R N   +   IL
Sbjct: 186 FLQHFFAQT-----------------WRFSGYSHVWENHRLGDVATRVRGNDGRMNLPIL 228

Query: 258 SLSYG-NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS-LRSAQVMERGI 315
           ++S G   + + +  +  +     + Y ++  GE+ +   + +  +   +   +  +  +
Sbjct: 229 TISAGKGWLTQEQRFSQNIAGNELKKYTLLSKGELSYNHGNSKLAEYGAVFVLKQFKEAL 288

Query: 316 ITSAYMAVKPHGI-DSTYLAWLMRSYDLCKVFYA-MGSGLRQ----SLKFEDVKRLPVLV 369
           +   Y +    G  D  ++ +L  S          + SG R     ++ ++    + VL+
Sbjct: 289 VPRVYHSFNVSGKADPDFIEYLFESGVPNHELRKLISSGARMDGLLNINYDSFMNISVLL 348

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
           P I+EQ  I  V+     ++  L ++    +  L++ + S +
Sbjct: 349 PSIEEQNKIARVLE----KLKKLTDETRLRLFNLQQAKKSLL 386


>gi|319777422|ref|YP_004137073.1| hypothetical protein MfeM64YM_0698 [Mycoplasma fermentans M64]
 gi|318038497|gb|ADV34696.1| Hypothetical Protein MfeM64YM_0698 [Mycoplasma fermentans M64]
          Length = 407

 Score =  107 bits (266), Expect = 4e-21,   Method: Composition-based stats.
 Identities = 47/391 (12%), Positives = 117/391 (29%), Gaps = 22/391 (5%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSE------SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           P  ++ V +   + +  G +        S +   +I + D+E G            +  +
Sbjct: 13  PDGYEWVTLGEISSIRRGASPRPISSFLSKEGYPWIKIGDIEEGKIYLKKTKQFINEKGS 72

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV-T 134
               +  KG ++      + +  I      I     L+   +  +      +    +   
Sbjct: 73  KKSVVVDKGDLILSNSMSFGKPVIADIKGCIHDGWLLIANFEKNVTSKFLYYWFLSNYSQ 132

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
                     T+S+ + + +  + +P+ PL  Q  I E +     RI     +     EL
Sbjct: 133 SFFLQQSSPGTISNLNSEILKKLKIPLIPLKIQEKIVEILERF--RILEAELKAELKAEL 190

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
               KQ          L      K   ++ +  +   +  K F  +      K +     
Sbjct: 191 EARGKQ------FDFTLTKIFNFKQYKLKKLWEI--TFWDKNFQEVEKFKQSKTSNFKYL 242

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
               +   N  +         K E+ +        +I    + L              + 
Sbjct: 243 FYKEIENYNDPKGDVKIITTGKEENLKINSKNYKKDIYSGEVLLIPGGGEANIKYHKGKF 302

Query: 315 IITSAYMAVKPHGID---STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
           +     +    +  +        + + + DL +  +    G  +    +++  L + +PP
Sbjct: 303 VTGDNRIGQVLNKNEVATKFLYYYFLLNLDLIRKNFR--GGSIKHPFMKNILELNIPIPP 360

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVL 402
           ++ Q  I ++++  +     +   +   I L
Sbjct: 361 LETQNKIVSILDKLSEYSQEINLGLPAEIEL 391


>gi|300861378|ref|ZP_07107464.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TUSoD Ef11]
 gi|300849170|gb|EFK76921.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TUSoD Ef11]
          Length = 412

 Score =  107 bits (266), Expect = 4e-21,   Method: Composition-based stats.
 Identities = 57/408 (13%), Positives = 130/408 (31%), Gaps = 31/408 (7%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIG---LEDVESGTGKYLPKDGNSRQSDTSTVS 79
           + W+   ++      TG T ++ +D  +     +  +   +               +  +
Sbjct: 14  EDWEHRKVEELGDTFTGLTGKTKEDFGHGDATFVTYINVFSNPITDLKMTESVEIDAKQN 73

Query: 80  IFAKGQILYGKLGPYLRKAIIADFD------GICSTQFLVLQPKDVL-PELLQGWLLSID 132
               G I +        +  ++            ++     +P   L P  +   L S +
Sbjct: 74  QVEYGDIFFTTSSETPEEVGMSSVWLGNEANVYLNSFCFGYRPVTELAPYYMAFMLRSPN 133

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           V ++   + +G +  +     + +I +P+P + EQ  + +        I     +  +  
Sbjct: 134 VRKKFIFLAQGISRYNISKNRVMDIEIPVPNIDEQRKVGQFFKDIDDLITLHQRKLEQLK 193

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEW----VGLVPDHWEVKPFFALVTELNRKN 248
           EL K   Q +          P ++  D   EW    +G +  H          TE  +  
Sbjct: 194 ELKKTYLQVMFPR--KDERVPKLRFADFEGEWAQRKLGEISTHRSGTAIERYFTEDGK-- 249

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS- 307
                  ++S+       K   + +          ++V  GE+     D  +D   +   
Sbjct: 250 -----YKVISIGSYGTDSKYVDQGIRAISNEITNARVVHKGELTMVLNDKTSDGAIIGRS 304

Query: 308 --AQVMERGIITSAYMAVKPHGIDSTYLAWL-MRSYDLCKVFYAMGSGLRQSLKFEDVKR 364
              +  E  +I      + P    +   A+  + +    KV   +  G +  + +  VK 
Sbjct: 305 LLIESEEEYVINQRTEIISPKDDFNVNFAYTTLNNTFRQKVKKIVQGGTQIYVNYPAVKN 364

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           L +  P  KEQ  I         + D  +   +  +  LK  + +++ 
Sbjct: 365 LMLDFPSYKEQTKIGTF----FKQFDDTITLHQNKLDQLKTLKKTYLQ 408


>gi|170717882|ref|YP_001784937.1| restriction modification system DNA specificity subunit
           [Haemophilus somnus 2336]
 gi|168826011|gb|ACA31382.1| restriction modification system DNA specificity domain [Haemophilus
           somnus 2336]
          Length = 410

 Score =  107 bits (266), Expect = 4e-21,   Method: Composition-based stats.
 Identities = 60/407 (14%), Positives = 124/407 (30%), Gaps = 37/407 (9%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDI------IYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           W+   +                +        YI   D+  G    L              
Sbjct: 20  WEQRKLGDLANSIKSYPLSRNVETEEKTKTKYIHYGDIHRGIANILNDISVLPNITGEYS 79

Query: 79  SIFAKGQILYGKLGPYLRKA-------IIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
            + + G ++                   I + + +     + ++P       L   L S 
Sbjct: 80  ELLSFGDLVVADASEDYYGVAAPCVINCIYEQNIVAGLHTIAIRPYKSHHLFLYYLLHSS 139

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
              +  + +  G  +     K +       P   EQ  I          +D  IT   R 
Sbjct: 140 GFKEYCKKVGTGTKVFAITSKNLLGFESFFPHYEEQQKIGAF----FTALDRYITIHQRK 195

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           +E +++ K++L+  +  K      +++             WE +    +   ++ K    
Sbjct: 196 LENIQKLKKSLLQKMFPKNDQEFPEIRFP------EFTYAWEQRKAKEIFISVSEKGFPH 249

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
           +     S  +G I +     ++    +S +TY+ V PG+ V      Q        A   
Sbjct: 250 LPVLSASQEFGMIRRDDIGIDIKYDQKSTQTYKRVSPGQFVIHLRSFQG-----GFAWSD 304

Query: 312 ERGIITSAYMAVKPH---GIDSTYLAWLMRSYDLCKVFYAMGSGLR--QSLKFEDVKRLP 366
             GI + AY  +         S +   +  S    K    +  G+R  +S+ F D   L 
Sbjct: 305 IEGITSPAYTIIDFKKKENHSSNFWKLIFTSSSFIKKLETVTYGIRDGRSISFSDFSDLR 364

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           +    I+EQ  I          +D  +   ++ +  +++ + S +  
Sbjct: 365 LFYSQIQEQQKIGAF----FTALDRYITIHQRKLENMQKLKKSLLQQ 407


>gi|332204532|gb|EGJ18597.1| type I restriction modification DNA specificity domain protein
           [Streptococcus pneumoniae GA47901]
          Length = 516

 Score =  107 bits (266), Expect = 4e-21,   Method: Composition-based stats.
 Identities = 73/435 (16%), Positives = 144/435 (33%), Gaps = 62/435 (14%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLP-KDGNSRQSDTSTV 78
            IP  W+ V IK           E     I     D +     Y   +  +  Q+ +   
Sbjct: 83  DIPDTWEWVRIKSIYWNFGQNKPEKSFRYIDTSSIDRKKNIINYKNLQYLSPEQAPSRAR 142

Query: 79  SIFAKGQILYGKLGPYLRKAIIA---DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
            + ++  +L+  + PYL+   +        I ST F+VL        L   +LLS +   
Sbjct: 143 KLVSQNSVLFSTVRPYLKNIAVVRELKEYLIASTAFIVLDTLLNETYLKY-YLLSDNFIN 201

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
           R+     G +    +      + + +PPL+EQ  I E I +   ++D       R  +L 
Sbjct: 202 RVNNKSTGTSYPAINDYNFNLLLIALPPLSEQQRIVEAIESALEKVDEYAESYNRLEQLD 261

Query: 196 KEKK----QALVSYIVTKGLNPDVKMKDS------------------------------- 220
           KE      ++++ Y +   L       +S                               
Sbjct: 262 KEFPDKLKKSILQYAMQGKLVEQDPNDESVEVLLEKIRAEKQKLFEEGKIKKKDLDISIV 321

Query: 221 --------GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
                     E    +P+ WE      + + + R  +    +  +         +    +
Sbjct: 322 SQGDDSSYYEEVPCEIPESWEWVRLNDITSYIQRGKSPKYSNIPIYPVIAQKCNQWSGFS 381

Query: 273 MGL-------KPESYETYQIVDPGEIVFRFIDLQNDKR-SLRSAQVMERGIITSA----Y 320
           + L          SY+  +++  G++++    L    R ++        G   +      
Sbjct: 382 IDLARFIDPETVHSYQKERLLRDGDLMWNSTGLGTLGRLAIYHENKNPYGWAVADSHVTV 441

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDI 378
           + V    I+  ++   + S  +  V     SG   ++ L  + +K   + +PP+ EQ  I
Sbjct: 442 IRVLSGVINCHFIYNFLSSPIVQSVIEEKASGSTKQKELLTKTIKEYLIPLPPLPEQSRI 501

Query: 379 TNVINVETARIDVLV 393
            + I    A ID L+
Sbjct: 502 VDKIEQFFAHIDALI 516



 Score = 77.9 bits (190), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 33/206 (16%), Positives = 72/206 (34%), Gaps = 10/206 (4%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
            I+    +PD WE     ++     +   +     I + S       +  +N+       
Sbjct: 77  EIDVPYDIPDTWEWVRIKSIYWNFGQNKPEKSFRYIDTSSIDRKKNIINYKNLQYLSPEQ 136

Query: 281 ---ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
                 ++V    ++F  +       ++     ++  +I S    V    ++ TYL + +
Sbjct: 137 APSRARKLVSQNSVLFSTVRPYLKNIAVVR--ELKEYLIASTAFIVLDTLLNETYLKYYL 194

Query: 338 RSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
            S +         +G    ++   +   L + +PP+ EQ  I   I     ++D   E  
Sbjct: 195 LSDNFINRVNNKSTGTSYPAINDYNFNLLLIALPPLSEQQRIVEAIESALEKVDEYAESY 254

Query: 397 EQSIVLLKE----RRSSFIAAAVTGQ 418
            +   L KE     + S +  A+ G+
Sbjct: 255 NRLEQLDKEFPDKLKKSILQYAMQGK 280


>gi|240949255|ref|ZP_04753599.1| Type I restriction-modification system, S subunit/Type I
           restriction modification DNA specificity [Actinobacillus
           minor NM305]
 gi|240296371|gb|EER47015.1| Type I restriction-modification system, S subunit/Type I
           restriction modification DNA specificity [Actinobacillus
           minor NM305]
          Length = 446

 Score =  107 bits (266), Expect = 5e-21,   Method: Composition-based stats.
 Identities = 65/453 (14%), Positives = 142/453 (31%), Gaps = 67/453 (14%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESG------KDIIYIGLEDVESGTGKYLPK---DGNSRQS 73
             W++  +     +  G T +S        DI +I  +D+     +Y+ K   +      
Sbjct: 2   SSWELKKLSEVADIIGGATPKSDVDEYFNGDIPWITPKDLSGYKNRYISKGERNITKLGL 61

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
           + S+  +  KG +L+    P      IAD +   +  F  L  KD        +LL  ++
Sbjct: 62  ENSSAKLLPKGAVLFTSRAPI-GYVAIADNEVSTNQGFKSLVLKDGNIPEFFYYLLKHNI 120

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
               EA   G+T      + + N  + IP +  Q  I + +     +I+          +
Sbjct: 121 -PLFEARATGSTFKEVSGQVVKNTELLIPSIDIQKKIVDLVSPLDEKIELNTQINQTLEQ 179

Query: 194 LLKEKKQALVSYI--------------------------------------------VTK 209
           + +   ++                                                   +
Sbjct: 180 IAQTIFKSWFIDFDPVHAKANALASGQTTEQATQAAMAVISGKNTQELHRLQTANPEQYQ 239

Query: 210 GLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLE 269
            L    +   SG +  G VP  W +         +  ++ K    N  S        + E
Sbjct: 240 QLWEIAEAFPSGFDEEG-VPRGWGLSTIDENYNVVMGQSPKGETYNEESNGALFYQGRAE 298

Query: 270 TRNMGLKPESYET--YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
                 +P  Y T   ++   G I+        D         +E   I     A+    
Sbjct: 299 FGWRYPEPRLYTTDPKRMAKKGNILMSVRAPVGDL-----NVALEDCCIGRGLAALSHKS 353

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
              ++  + +++       +     +  S+  +D+K + V+ P       I  + +   +
Sbjct: 354 NSLSFGLYQIKNLQNEFDIFNGEGTVFGSINQKDLKAIKVINPSF----KIIKLFDDVCS 409

Query: 388 RIDVLVEKIEQSIVLLKERRSSFIAAAVTGQID 420
             ++ +E + + I+ L++ R   +   ++G+  
Sbjct: 410 SNELQIENLSREIIFLRKIRDELLPKLLSGEKK 442


>gi|221231344|ref|YP_002510496.1| type I restriction-modification system S protein [Streptococcus
           pneumoniae ATCC 700669]
 gi|220673804|emb|CAR68306.1| type I restriction-modification system S protein [Streptococcus
           pneumoniae ATCC 700669]
          Length = 516

 Score =  107 bits (266), Expect = 5e-21,   Method: Composition-based stats.
 Identities = 73/435 (16%), Positives = 144/435 (33%), Gaps = 62/435 (14%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLP-KDGNSRQSDTSTV 78
            IP  W+ V IK           E     I     D +     Y   +  +  Q+ +   
Sbjct: 83  DIPDTWEWVRIKSIYWNFGQNKPEKSFRYIDTSSIDRKKNIINYKNLQYLSPEQAPSRAR 142

Query: 79  SIFAKGQILYGKLGPYLRKAIIA---DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
            + ++  +L+  + PYL+   +        I ST F+VL        L   +LLS +   
Sbjct: 143 KLVSQNSVLFSTVRPYLKNIAVVRELKEYLIASTAFIVLDTLLNETYLKY-YLLSDNFIN 201

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
           R+     G +    +      + + +PPL+EQ  I E I +   ++D       R  +L 
Sbjct: 202 RVNNKSTGTSYPAINDYNFNLLLIALPPLSEQQRIVEAIESALEKVDEYAESYNRLEQLD 261

Query: 196 KEKK----QALVSYIVTKGLNPDVKMKDS------------------------------- 220
           KE      ++++ Y +   L       +S                               
Sbjct: 262 KEFPDKLKKSILQYAMQGKLVEQDPNDESVEVLLEKIRAEKQKLFEEGKIKKKDLDISIV 321

Query: 221 --------GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
                     E    +P+ WE      + + + R  +    +  +         +    +
Sbjct: 322 SQGDDNSYYEEVPCEIPESWEWVRLNDITSYIQRGKSPKYSNIPIYPVIAQKCNQWSGFS 381

Query: 273 MGL-------KPESYETYQIVDPGEIVFRFIDLQNDKR-SLRSAQVMERGIITSA----Y 320
           + L          SY+  +++  G++++    L    R ++        G   +      
Sbjct: 382 IDLARFIDPETVHSYQKERLLRDGDLMWNSTGLGTLGRLAIYHENKNPYGWAVADSHVTV 441

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDI 378
           + V    I+  ++   + S  +  V     SG   ++ L  + +K   + +PP+ EQ  I
Sbjct: 442 IRVLSGVINCHFIYNFLSSPIVQSVIEEKASGSTKQKELLTKTIKEYLIPLPPLPEQSRI 501

Query: 379 TNVINVETARIDVLV 393
            + I    A ID L+
Sbjct: 502 VDKIEQFFAHIDALI 516



 Score = 77.9 bits (190), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 33/206 (16%), Positives = 72/206 (34%), Gaps = 10/206 (4%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
            I+    +PD WE     ++     +   +     I + S       +  +N+       
Sbjct: 77  EIDVPYDIPDTWEWVRIKSIYWNFGQNKPEKSFRYIDTSSIDRKKNIINYKNLQYLSPEQ 136

Query: 281 ---ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
                 ++V    ++F  +       ++     ++  +I S    V    ++ TYL + +
Sbjct: 137 APSRARKLVSQNSVLFSTVRPYLKNIAVVR--ELKEYLIASTAFIVLDTLLNETYLKYYL 194

Query: 338 RSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
            S +         +G    ++   +   L + +PP+ EQ  I   I     ++D   E  
Sbjct: 195 LSDNFINRVNNKSTGTSYPAINDYNFNLLLIALPPLSEQQRIVEAIESALEKVDEYAESY 254

Query: 397 EQSIVLLKE----RRSSFIAAAVTGQ 418
            +   L KE     + S +  A+ G+
Sbjct: 255 NRLEQLDKEFPDKLKKSILQYAMQGK 280


>gi|310780627|ref|YP_003968958.1| restriction modification system DNA specificity domain protein
           [Ilyobacter polytropus DSM 2926]
 gi|309749950|gb|ADO84610.1| restriction modification system DNA specificity domain protein
           [Ilyobacter polytropus DSM 2926]
          Length = 392

 Score =  107 bits (266), Expect = 5e-21,   Method: Composition-based stats.
 Identities = 58/392 (14%), Positives = 128/392 (32%), Gaps = 23/392 (5%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W+ + +K    L +G+     +           +G   +  K     +       +  K
Sbjct: 19  EWQNIKLKDSYTLISGQHLGPDEYSQEENKTPYFTGPSDFTNKTDEISKWSLVNGKLAQK 78

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
             +L+   G  +   +  + + +   + L +  +  +              +  E +  G
Sbjct: 79  HDVLFTVKGSGVGSLMYLNLESVMIGRQL-MAIRSRISSTKLLSHFLPKKREYFEKLASG 137

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
             +     + I ++ + +P   EQ  I   + +   +I+ L  +R    E  +   Q + 
Sbjct: 138 NMIPGLSREDILSLNLSLPTSPEQQKIASFLTSVDSKIEKLEKKRELMAEYKRGVMQKIF 197

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
           S  +               E     P+ W   P   LV     K   L +  I       
Sbjct: 198 SQEIRFKG-----------EDGKEYPE-WVELPLGDLVIISKEKYNPLRDKEIYKCIELE 245

Query: 264 IIQKLETRNMGLKPESY--ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
            + +   + +G    S         + G+I++  +     K           G+ +S  +
Sbjct: 246 NLSQETGKLLGYFNSSQQQSIKNKFNKGDILYGKLRPYLKKYYKADFD----GVCSSEIL 301

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
            +K   +D+ +L  L++++    +             +E +K +    P I EQ  I N 
Sbjct: 302 VLKGKKLDNNFLYQLIKTFKFNSIANVSSGSKMPRADWEYMKEILFKYPSILEQQKIANF 361

Query: 382 INVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           ++     ID  +E +EQ    +KE +   +  
Sbjct: 362 LSG----IDKKIELVEQETEQVKEFKRGLLQQ 389



 Score = 71.0 bits (172), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 32/210 (15%), Positives = 75/210 (35%), Gaps = 16/210 (7%)

Query: 218 KDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKP 277
           K    E+ G     W+        T ++ ++    E +             +  N   + 
Sbjct: 10  KLRFPEFNGE----WQNIKLKDSYTLISGQHLGPDEYSQEENKTPYFTGPSDFTNKTDEI 65

Query: 278 ESYE--TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
             +     ++    +++F    ++           +E  +I    MA++     +  L+ 
Sbjct: 66  SKWSLVNGKLAQKHDVLFT---VKGSGVGSLMYLNLESVMIGRQLMAIRSRISSTKLLSH 122

Query: 336 LMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
            +      + F  + SG +   L  ED+  L + +P   EQ  I + +    ++    +E
Sbjct: 123 FL--PKKREYFEKLASGNMIPGLSREDILSLNLSLPTSPEQQKIASFLTSVDSK----IE 176

Query: 395 KIEQSIVLLKERRSSFIAAAVTGQIDLRGE 424
           K+E+   L+ E +   +    + +I  +GE
Sbjct: 177 KLEKKRELMAEYKRGVMQKIFSQEIRFKGE 206


>gi|300815957|ref|ZP_07096180.1| type I restriction modification DNA specificity domain protein
           [Escherichia coli MS 107-1]
 gi|300531164|gb|EFK52226.1| type I restriction modification DNA specificity domain protein
           [Escherichia coli MS 107-1]
          Length = 583

 Score =  107 bits (266), Expect = 5e-21,   Method: Composition-based stats.
 Identities = 70/510 (13%), Positives = 144/510 (28%), Gaps = 107/510 (20%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESG-------KDIIYIGL 53
           +K  K  P+   S  +    +P+ W+ V +    ++  G T +S          I +I  
Sbjct: 83  IKKQKPLPEI--SEEEKPFELPEGWEWVTLATVGEIVGGGTPKSDNPQFWAKNGIKWITP 140

Query: 54  EDVESGTGKYLP---KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQ 110
            D+    GKY+    +D +      S+  +  KG +L+    P      IAD +   +  
Sbjct: 141 ADLYGLKGKYITSGARDISPAGLSNSSARLMPKGSVLFSSRAPI-GYVAIADAELSTNQG 199

Query: 111 FLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQ--- 167
           F    P          +   +   ++I+A   G T        +  I +P+PPL+EQ   
Sbjct: 200 FKSCVPYIKE-SAEYIYYFLLASAKKIDAEASGTTFKEVSGAIVSKILLPLPPLSEQLKI 258

Query: 168 --------------------------------------VLIREKIIAETVRIDTLITERI 189
                                                     E++     RI        
Sbjct: 259 VSRANELMSLCDQLEQQSLTSLDAHQQLVETLLGTLTDSQNAEELAENWTRISEHFDTLF 318

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWV------------------------ 225
                +   KQ ++   V   L P     +   E +                        
Sbjct: 319 TTEASVDALKQTILQLAVMGKLVPQDPNDEPASELLKRIAQEKAQLVKEGKIKKQKSLPP 378

Query: 226 -------GLVPDHWEVKPFFALVTELNRKNTK--------LIESNILSLSYGNIIQKLET 270
                    +P+ WE      +      ++            +  I  +  G++ +    
Sbjct: 379 ISDEEKPFELPEGWEWSYLSDIGILARGRSKHRPRNDPTLYADGTIPLVQTGDVARSNGC 438

Query: 271 RNMG---LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
            N              ++ + G +         D   L             + +   P+ 
Sbjct: 439 INTYSALYNQLGLSQSKLWNKGTLCITIAANIADSGIL-----NFDACFPDSVVGFTPYE 493

Query: 328 IDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
            +   L +      +         S  ++++  + + +L    PP++E   I + +    
Sbjct: 494 NEIPVLYFHYFMMTIKSTLEKFAPSTAQKNINIDILSQLFFPCPPLEEFHRIVDKVQNLL 553

Query: 387 ARIDVL---VEKIEQ-SIVLLKERRSSFIA 412
           +  DVL   ++  +Q  + L      + I 
Sbjct: 554 SVCDVLRAYIQSAQQTQLHLADALTDAAIN 583


>gi|317009143|gb|ADU79723.1| putative type I restriction enzyme (specificity subunit)
           [Helicobacter pylori India7]
          Length = 460

 Score =  107 bits (266), Expect = 5e-21,   Method: Composition-based stats.
 Identities = 59/436 (13%), Positives = 138/436 (31%), Gaps = 45/436 (10%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGK-----DIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           PK  +   +    +   G   +S K     +  Y+   +V +     L    + +  D  
Sbjct: 13  PKGVEFRKLGDIGEFYGGLVGKSKKSFSQGNKFYVPYINVFNNPQLDLNALESVQIGDKE 72

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIAD----------FDGICSTQFLVLQPKDVLPELLQG 126
             +    G +L+      L    ++           +       F         P  L+ 
Sbjct: 73  KQNTIQLGDVLFTGSSENLDDCAMSCVVTQKIEKDIYLNSFCFGFRFFDKNLFNPSFLKH 132

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           +L   +  + I  +  G T  +   + +  I +PIPPL  Q  I + + A T     L T
Sbjct: 133 FLRDYNFRKNISKVANGVTRFNVSKQLLSKITIPIPPLEVQQEIVKILDAFTELNTELNT 192

Query: 187 ERIRFIELLKEKKQALVSYIVTKG------------LNPDVKMKDSGIEWVGLVPDHWEV 234
           E    +   K++ Q   + ++               L      K        L P   E 
Sbjct: 193 ELNTELNARKKQYQYYQNMLLDFKGIHQNHKDAKEKLAQKTYPKRLKALLQTLAPKGVEF 252

Query: 235 KPFFALVTELNR-------KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVD 287
           +    +               ++  +  +  ++  N  Q        ++    E    + 
Sbjct: 253 RKLGDIGEFYGGLVGKSKKSFSQGNKFYVPYINVFNNPQLDLNALESVQIGDKEKQNTIQ 312

Query: 288 PGEIVFRFID------LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD 341
            G+++F            +   + +  + +        +     +  + ++L   +R Y+
Sbjct: 313 LGDVLFTGSSENLDDCAMSCVVTQKIEKDIYLNSFCFGFRFFDKNLFNPSFLKHFLRDYN 372

Query: 342 LCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
             K    + +G  R ++  + + ++ + +PP++ Q +I  +++  +     L+  I   I
Sbjct: 373 FRKNISKVANGVTRFNVSKQLLSKITIPIPPLEVQQEIVKILDQFSLLTTDLLAGIPAEI 432

Query: 401 VLLKE----RRSSFIA 412
              K+     R   + 
Sbjct: 433 KARKKQYEYYREKLLT 448


>gi|332076345|gb|EGI86808.1| type I restriction modification DNA specificity domain protein
           [Streptococcus pneumoniae GA41301]
          Length = 516

 Score =  106 bits (265), Expect = 5e-21,   Method: Composition-based stats.
 Identities = 73/435 (16%), Positives = 142/435 (32%), Gaps = 62/435 (14%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLP-KDGNSRQSDTSTV 78
            IP  W+ V IK           E     I     D +     Y   +  +  Q+ +   
Sbjct: 83  DIPDTWEWVRIKSIYWNFGQNKPEKSFRYIDTSSIDRKKNIINYKNLQYLSPEQAPSRAR 142

Query: 79  SIFAKGQILYGKLGPYLRKAIIA---DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
            + ++  +L+  + PYL+   +        I ST F+VL        L   +LLS +   
Sbjct: 143 KLVSQNSVLFSTVRPYLKNIAVVRELKEYLIASTAFIVLDTLLNETYLKY-YLLSDNFIN 201

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
           R+     G +    +      + + +PPL+EQ  I E I +   ++D       R  +L 
Sbjct: 202 RVNNKSTGTSYPAINDYNFNLLLIALPPLSEQQRIVEAIESALEKVDEYAESYNRLEQLD 261

Query: 196 KEKK----QALVSYIVTKGLNPDVKMKDS------------------------------- 220
           KE      ++++ Y +   L       +S                               
Sbjct: 262 KEFPDKLKKSILQYAMQGKLVEQDPNDESVEVLLEKIRAEKQKLFEEGKIKKKDLDISIV 321

Query: 221 --------GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
                     E    +P+ WE      + + + R  +    +  +         +    +
Sbjct: 322 SQGDDNSYYEEVPCEIPESWEWVRLNDITSYIQRGKSPKYSNIPIYPVIAQKCNQWSGFS 381

Query: 273 MGL-------KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA-----Y 320
           + L          SY+  +++  G++++    L    R     +         A      
Sbjct: 382 IDLARFIDPETVHSYQKERLLRDGDLMWNSTGLGTLGRLAIYHENKNPYAWAVADSHVTV 441

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDI 378
           + V    I+  ++   + S  +  V     SG   ++ L  + +K   + +PP+ EQ  I
Sbjct: 442 IRVLSGVINCHFIYNFLSSPIVQSVIEEKASGSTKQKELLTKTIKEYLIPLPPLPEQSRI 501

Query: 379 TNVINVETARIDVLV 393
            + I    A ID L+
Sbjct: 502 VDKIEQFFAHIDALI 516



 Score = 77.9 bits (190), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 33/206 (16%), Positives = 72/206 (34%), Gaps = 10/206 (4%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
            I+    +PD WE     ++     +   +     I + S       +  +N+       
Sbjct: 77  EIDVPYDIPDTWEWVRIKSIYWNFGQNKPEKSFRYIDTSSIDRKKNIINYKNLQYLSPEQ 136

Query: 281 ---ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
                 ++V    ++F  +       ++     ++  +I S    V    ++ TYL + +
Sbjct: 137 APSRARKLVSQNSVLFSTVRPYLKNIAVVR--ELKEYLIASTAFIVLDTLLNETYLKYYL 194

Query: 338 RSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
            S +         +G    ++   +   L + +PP+ EQ  I   I     ++D   E  
Sbjct: 195 LSDNFINRVNNKSTGTSYPAINDYNFNLLLIALPPLSEQQRIVEAIESALEKVDEYAESY 254

Query: 397 EQSIVLLKE----RRSSFIAAAVTGQ 418
            +   L KE     + S +  A+ G+
Sbjct: 255 NRLEQLDKEFPDKLKKSILQYAMQGK 280


>gi|312902061|ref|ZP_07761322.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX0470]
 gi|311290843|gb|EFQ69399.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX0470]
          Length = 407

 Score =  106 bits (265), Expect = 5e-21,   Method: Composition-based stats.
 Identities = 64/401 (15%), Positives = 143/401 (35%), Gaps = 26/401 (6%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + W++  +K  T+   G  ++   D+  + +   +    +     GN    +    ++  
Sbjct: 18  EDWELCKLKEITERVKG--NDGRMDLPTLTISAGQGWLNQKDRFSGNIAGKEQKNYTLLL 75

Query: 83  KGQILYG----KLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           K ++ Y     KL  Y    ++  ++     +           +      +        E
Sbjct: 76  KNELSYNHGNSKLAKYGAVFLLKTYEEALVPRVYHSFKSTKNSDPDFLEYIFATKKPDKE 135

Query: 139 ------AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
                 +      + + ++    NI + IP + EQ  I   +     +ID  IT   R +
Sbjct: 136 LGKLVSSGARMDGLLNINYDDFSNIKINIPHVHEQKKISNLL----RKIDNTITLHQRKL 191

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           E LKE K+A +  +         K++ +  E         E+   F+  T    K+    
Sbjct: 192 EQLKELKKAYLQVMFPAKDERVPKVRFAAFEGEWAHRKLGEITESFSGGTPTAGKSEYY- 250

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
             +I  +  G I        +     +  + ++V  G+I++      + +  +       
Sbjct: 251 GGDIPFIRSGEISSDSTELFITENGLNSSSAKMVKVGDILYALYGATSGEVGISKI---- 306

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-P 371
            G I  A +A++P   D++YL           +      G + +L    VK L +++P  
Sbjct: 307 TGAINQAILAIRPSKNDNSYLIIQWLRKQKNTIISTYLQGGQGNLSSSIVKNLIIMLPQN 366

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
            +EQ  +         R+D ++   +  +  LK+ ++S++ 
Sbjct: 367 KEEQEKVGIF----FKRLDDIITLHQNKLEQLKDLKTSYLQ 403



 Score = 65.6 bits (158), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 31/186 (16%), Positives = 57/186 (30%), Gaps = 9/186 (4%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
            W    +   T+  +G T  +GK      DI +I   ++ S + +           ++S+
Sbjct: 224 EWAHRKLGEITESFSGGTPTAGKSEYYGGDIPFIRSGEISSDSTELF---ITENGLNSSS 280

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
             +   G ILY   G    +  I+   G  +   L ++P       L    L       I
Sbjct: 281 AKMVKVGDILYALYGATSGEVGISKITGAINQAILAIRPSKNDNSYLIIQWLRKQKNTII 340

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
               +G   + +       I M      EQ  +          I     +  +  +L   
Sbjct: 341 STYLQGGQGNLSSSIVKNLIIMLPQNKEEQEKVGIFFKRLDDIITLHQNKLEQLKDLKTS 400

Query: 198 KKQALV 203
             Q + 
Sbjct: 401 YLQNMF 406


>gi|329913607|ref|ZP_08275981.1| Type I restriction-modification system, specificity subunit S
           [Oxalobacteraceae bacterium IMCC9480]
 gi|327545304|gb|EGF30548.1| Type I restriction-modification system, specificity subunit S
           [Oxalobacteraceae bacterium IMCC9480]
          Length = 397

 Score =  106 bits (265), Expect = 5e-21,   Method: Composition-based stats.
 Identities = 58/405 (14%), Positives = 130/405 (32%), Gaps = 26/405 (6%)

Query: 27  VVPIKRFTK-LNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           +V +K     +  G T  S         + ++ +++V  G+  +        ++    + 
Sbjct: 5   LVKLKDLCSLITKGTTPTSIGLDFADDGVGFLRVQNVSGGSVNFQNGTLFIAENVHQELR 64

Query: 80  I--FAKGQILYGKLGPYLRKAIIADFDGI--CSTQFLVLQPKDVLPELLQ-GWLLSIDVT 134
                 G IL    G   R  ++ +      C+    +++P+  +       WL S D  
Sbjct: 65  RSQILAGDILLSIAGTIGRIGVVPENAPALNCNQALAIIRPEARVFRPFLRHWLESADAQ 124

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
            ++       T+ +     +G + + +P L EQ  I   +               +   L
Sbjct: 125 FQMRGATVTGTIQNLSLAQVGRLELSLPLLPEQRRIAAILDQADALRAKRREALAQLDSL 184

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
                Q++   +     +P    K    + +  +             +  + K   ++  
Sbjct: 185 T----QSIFIEMFG---DPVTNSKALPTKKLSEITTFENGDRSGNYPSGDDIKIAGILFL 237

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
           +  +++  + +   +   +  +     +   V   +++            +  A      
Sbjct: 238 STKNITN-DRLDLTKRVYISKEKFDSLSRGKVLRNDLIITLRGTLGS-CCIFDAIEETAF 295

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIK 373
           I     +     G  S YL  L+ S    + F  +G G     L    +  LP+ VP  +
Sbjct: 296 INAQMMIIRPQSGCSSEYLHALLTSQQAQERFDHIGRGAAVPQLTSAQLASLPIPVPSEE 355

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           +Q +      V    +D L  K EQ +  L    +S    A +G+
Sbjct: 356 KQREFA----VRKRTLDELKAKEEQGMAELDTLFASLQHRAFSGE 396


>gi|315641379|ref|ZP_07896454.1| type-I specificity determinant subunit [Enterococcus italicus DSM
           15952]
 gi|315482872|gb|EFU73393.1| type-I specificity determinant subunit [Enterococcus italicus DSM
           15952]
          Length = 410

 Score =  106 bits (265), Expect = 5e-21,   Method: Composition-based stats.
 Identities = 50/405 (12%), Positives = 127/405 (31%), Gaps = 29/405 (7%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDI----IYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            W+   +      + G        +      I    + +     + K         ++  
Sbjct: 17  EWEERKLGELASFSKGNGYTKNDLVEFGDPIILYGRLYTKYETVIEKVDTFVNKKDNS-- 74

Query: 80  IFAKGQILYGKLG-----PYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI-DV 133
           I ++G  +             R +++     I      +++P + +  +     +S    
Sbjct: 75  IISEGSEVIVPASGESSEDISRASVVGKSGLILGGDLNIIKPVNYIDSIFLALTISNGSQ 134

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            Q +    +G ++ H     +  + +  P L EQ  I         ++D  I+   R + 
Sbjct: 135 QQEMSKRAQGKSVVHLHNSDLKQVNLLYPKLEEQQKIGSF----FKKLDNTISLHQRKLN 190

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
           LL E+K+  +  +  K      +++ +G           +   +          N +  +
Sbjct: 191 LLNEQKKGFLQKMFPKNGEIIPEIRFAGFNDDWEERKLGDHAKYRRGSFPQPYGNKEWYD 250

Query: 254 -----SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
                  +  +   N +  +E     +   +      V  G++V             +  
Sbjct: 251 GEGAMPFVQVVDVTNKLTLVENTKQKISKLAQSKSVFVPKGKVVVTLQGSIGRVAITQYD 310

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVL 368
             ++R ++            D  + A+ ++     +   A G G  +++  E +    V 
Sbjct: 311 SFVDRTLL---IFEDYEKETDERFWAYTIQKKFEIEKLKAPG-GTIKTITKEALSSFNVH 366

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           +P  +EQ  I +       ++D  +   ++ I  LK  + S +  
Sbjct: 367 LPKFEEQQKIGSF----FKQLDDTIALHQRKIDELKLMKKSMLQK 407



 Score = 54.0 bits (128), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 24/200 (12%), Positives = 54/200 (27%), Gaps = 18/200 (9%)

Query: 21  IPK--------HWKVVPIKRFTKLNTGRTSESGKD---------IIYIGLEDVESGTGKY 63
           IP+         W+   +    K   G   +   +         + ++ + DV +     
Sbjct: 211 IPEIRFAGFNDDWEERKLGDHAKYRRGSFPQPYGNKEWYDGEGAMPFVQVVDVTNKLTLV 270

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPEL 123
                   +   S      KG+++    G   R   I  +D       L+ +  +   + 
Sbjct: 271 ENTKQKISKLAQSKSVFVPKGKVVVTLQGSIGR-VAITQYDSFVDRTLLIFEDYEKETDE 329

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
                      +  +    G T+     + + +  + +P   EQ  I          I  
Sbjct: 330 RFWAYTIQKKFEIEKLKAPGGTIKTITKEALSSFNVHLPKFEEQQKIGSFFKQLDDTIAL 389

Query: 184 LITERIRFIELLKEKKQALV 203
              +      + K   Q + 
Sbjct: 390 HQRKIDELKLMKKSMLQKMF 409


>gi|190149564|ref|YP_001968089.1| type I restriction enzyme EcoR124II specificity protein
           [Actinobacillus pleuropneumoniae serovar 7 str. AP76]
 gi|307262884|ref|ZP_07544508.1| Possible type I site-specific deoxyribonuclease [Actinobacillus
           pleuropneumoniae serovar 13 str. N273]
 gi|189914695|gb|ACE60947.1| putative Type I restriction enzyme EcoR124II specificity protein
           [Actinobacillus pleuropneumoniae serovar 7 str. AP76]
 gi|306871789|gb|EFN03509.1| Possible type I site-specific deoxyribonuclease [Actinobacillus
           pleuropneumoniae serovar 13 str. N273]
          Length = 388

 Score =  106 bits (265), Expect = 5e-21,   Method: Composition-based stats.
 Identities = 57/421 (13%), Positives = 117/421 (27%), Gaps = 64/421 (15%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDV--ESGTG 61
           KD  V+W            +    K   G T     +          +   ++   +   
Sbjct: 8   KDCEVEW----------KSLGEVAKYVRGLTYNKTNESDEKAGGYYVLRANNITLSNNQL 57

Query: 62  KYLPKDGNSRQSDTSTVSIFAKGQILYGKLGP----YLRKAIIADFDGICSTQFL--VLQ 115
            +         + T       K  IL            + A I++        F+  V  
Sbjct: 58  NFDDVKLVKFDTKTKPEQKLYKDDILISAASGSKEHVGKVAFISENMDFYFGGFMGVVRC 117

Query: 116 PKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKII 175
            +++LP  L   L S      +  +   +T+++ + K +    +PIPPL  Q  I + + 
Sbjct: 118 SQEILPRFLFHILTSSLFKTYLNEVLNSSTINNLNAKVMNEFQIPIPPLEIQEKIVKILD 177

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVK 235
             T    TL       + L  ++       ++  G +         +EW           
Sbjct: 178 KFTELEATLEATLEAELSLRVKQYDYYRDDLLNFGDD---------VEW----------- 217

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRF 295
                          L E  +   S  N I+  E +                  E     
Sbjct: 218 -------------KMLGEVCVRIFSGKNKIKNNEGKYNVYGSTGIIAKTDKKIYEEDLLL 264

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ 355
           I               E  +  +  +       D   L +L    +   +        + 
Sbjct: 265 IARVGANAGFVHIATGEYDVSDNTLIIKHKE--DLVILKYLYYVLENMNLNRFANGAGQP 322

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFI 411
            +    +K L + +PP+  Q  I  +++      + + + + + I L ++     R   +
Sbjct: 323 LITAGQLKELKIPLPPLSTQQKIVEILDKFDRLTNSISDGLPKEIELRRKQYEYYRERLL 382

Query: 412 A 412
            
Sbjct: 383 N 383


>gi|167718506|ref|ZP_02401742.1| putative type I restriction enzyme specificity protein
           [Burkholderia pseudomallei DM98]
 gi|167814674|ref|ZP_02446354.1| putative type I restriction enzyme specificity protein
           [Burkholderia pseudomallei 91]
          Length = 111

 Score =  106 bits (265), Expect = 5e-21,   Method: Composition-based stats.
 Identities = 35/104 (33%), Positives = 57/104 (54%), Gaps = 1/104 (0%)

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
              V+ H     YL ++++S     +  ++ S     +   D+    V +PP +EQ  I 
Sbjct: 1   MYTVQMHDNVPKYLWYMLQSLKHIFILNSLKS-AVPGVDRNDIHPAIVCLPPAEEQPAIV 59

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
             ++ E +++D L    E++I LLKERRS+ IAAAVTG+ID+R 
Sbjct: 60  AFLDAEISKLDALRADAERAIDLLKERRSALIAAAVTGKIDVRN 103


>gi|308190118|ref|YP_003923049.1| type I site-specific deoxyribonuclease [Mycoplasma fermentans JER]
 gi|307624860|gb|ADN69165.1| type I site-specific deoxyribonuclease [Mycoplasma fermentans JER]
          Length = 403

 Score =  106 bits (265), Expect = 6e-21,   Method: Composition-based stats.
 Identities = 47/391 (12%), Positives = 116/391 (29%), Gaps = 26/391 (6%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSE------SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           P  ++ V +   + +  G +        S +   +I + D+E G            +  +
Sbjct: 13  PDGYEWVTLGEISSIRRGASPRPISSFLSKEGYPWIKIGDIEEGKIYLKKTKQFINEKGS 72

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV-T 134
               +  KG ++      + +  I      I     L+   +  +      +    +   
Sbjct: 73  KKSVVVDKGDLILSNSMSFGKPVIADIKGCIHDGWLLIANFEKNVTSKFLYYWFLSNYSQ 132

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
                     T+S+ + + +  + +P+ PL  Q  I E +          I E     EL
Sbjct: 133 SFFLQQSSPGTISNLNSEILKKLKIPLIPLKIQEKIVEILERF------RILEAELKAEL 186

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
               KQ          L      K   ++ +  +   +  K F  +      K +     
Sbjct: 187 EARGKQ------FDFTLTKIFNFKQYKLKKLWEI--TFWDKNFQEVEKFKQSKTSNFKYL 238

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
               +   N  +         K E+ +        +I    + L              + 
Sbjct: 239 FYKEIENYNDPKGDVKIITTGKEENLKINSKNYKKDIYSGEVLLIPGGGEANIKYHKGKF 298

Query: 315 IITSAYMAVKPHGID---STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
           +     +    +  +        + + + DL +  +    G  +    +++  L + +PP
Sbjct: 299 VTGDNRIGQVLNKNEVATKFLYYYFLLNLDLIRKNFR--GGSIKHPFMKNILELNIPIPP 356

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVL 402
           ++ Q  I ++++  +     +   +   I L
Sbjct: 357 LETQNKIVSILDKLSEYSQEINSGLPAEIEL 387


>gi|309809641|ref|ZP_07703497.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus iners SPIN 2503V10-D]
 gi|308170001|gb|EFO72038.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus iners SPIN 2503V10-D]
          Length = 408

 Score =  106 bits (265), Expect = 6e-21,   Method: Composition-based stats.
 Identities = 63/407 (15%), Positives = 127/407 (31%), Gaps = 41/407 (10%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           P   +   +    ++ TG+ + + K              G Y     +      +  + F
Sbjct: 13  PNGVEYKELGEICEITTGKLNANEK-----------IDDGLYPFFTCDKLPFRINKYA-F 60

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
               IL    G  +      +       +  VL     + +      +   +   I   C
Sbjct: 61  NTSAILISGNGSQVGHLNSYEGKFNAYQRTYVLYEFKFVEKQYLLHYMRSYLKPYIILNC 120

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
           +  ++ +     + N  +PIPPL  Q  I   + + T     L  E     +  +  +  
Sbjct: 121 KKGSVPYITLPMLENFKIPIPPLPIQREIVRILDSFTELTAELTAELTARKKQYEFYRDE 180

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
           L+                S  E +             AL+ +   K      S I  +S 
Sbjct: 181 LL----------------SFGEIIKGGSTQSSKLCEIALIYDGTHKTPNYKNSGIPFISV 224

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
            N I  +      +  E Y+ Y+I      +F        K ++ +  V     ++ A +
Sbjct: 225 EN-INDIYGSKKFISKEDYDLYKITPQINDLFMTRIGSVGKCAIVTKNVDLAYYVSLALI 283

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
                 ID+ YL + + S    K        + +   +  ED+ ++ +  P +  Q  I 
Sbjct: 284 RPNNKIIDTGYLKYYIESVSGTKELSKRTLHNAVPIKINKEDIGKIKITYPSLDIQKKIA 343

Query: 380 NVINVETARIDVL-------VEKIEQSIVLLKERRSSFIAAAVTGQI 419
           + ++   A    L       +E  ++        R + +  A TG+I
Sbjct: 344 STLDNFDAICSDLNIGLPAEIEARQKQYEY---YRDALLTYAATGKI 387



 Score = 69.1 bits (167), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 25/183 (13%), Positives = 56/183 (30%), Gaps = 4/183 (2%)

Query: 234 VKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVF 293
           +     L+ EL     +  E   +       +   E  + GL P            +  F
Sbjct: 1   MSRLDELIQELCPNGVEYKELGEICEITTGKLNANEKIDDGLYPFFTCDKLPFRINKYAF 60

Query: 294 RF----IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
                 I     +    ++   +       Y+  +   ++  YL   MRSY    +    
Sbjct: 61  NTSAILISGNGSQVGHLNSYEGKFNAYQRTYVLYEFKFVEKQYLLHYMRSYLKPYIILNC 120

Query: 350 GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
             G    +    ++   + +PP+  Q +I  +++  T     L  ++       +  R  
Sbjct: 121 KKGSVPYITLPMLENFKIPIPPLPIQREIVRILDSFTELTAELTAELTARKKQYEFYRDE 180

Query: 410 FIA 412
            ++
Sbjct: 181 LLS 183


>gi|225871246|ref|YP_002747193.1| type I restriction-modification system S protein [Streptococcus
           equi subsp. equi 4047]
 gi|225700650|emb|CAW95217.1| type I restriction-modification system S protein [Streptococcus
           equi subsp. equi 4047]
          Length = 623

 Score =  106 bits (265), Expect = 6e-21,   Method: Composition-based stats.
 Identities = 52/412 (12%), Positives = 128/412 (31%), Gaps = 25/412 (6%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDI---------IYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           +   +        G   +   D+          ++ + DV     +   K   +      
Sbjct: 210 QWKTLGEVVNFRRGSFPQPYTDMSFYGGEDAQPFVQVVDVADEGFRLNTKTKKTISQKAI 269

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
             S+F     +   L   L +  +  +D        +        +          +  R
Sbjct: 270 PKSVFVPKGTVIVTLQGTLGRVAVTQYDAYVDRTLAIFDGYKQEVDKRYFAHQLKFIFDR 329

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
            +    G+T+     +   N  +P+PPL  Q  I + +       + L     + IEL +
Sbjct: 330 EKEFARGSTLKTITKQEFSNFKIPVPPLDIQRRIVQVLDNFDTVCNDLNIGLPKEIELHQ 389

Query: 197 EKKQALVSYIVTK-----GLNPDVKMKDSGIEWVGLV--PDHWEVKPFFALVTELNRKNT 249
           ++       ++T        +  V+ +   I  +  V  P   E+     +V     +  
Sbjct: 390 KQYAYFRDKLLTFTAEGVYTDSTVQYRQDLIRLLTWVFGPIKVELGAVCDVVRGNGLQKK 449

Query: 250 KLIESNILSLSYGNIIQKLE----TRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
             +      + YG I              + PE  +  +    G+++        +    
Sbjct: 450 DFVNEGYPVIHYGQIYTFYGLSARVTKSFVSPEVGQKLKKAKTGDVIVATTSENIEDVGK 509

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ-SLKFEDVKR 364
                    +    +  V     +S YL +  ++    K    +  G +   L  +++++
Sbjct: 510 ALVWEGAEDVCIGGHSCVLHTEQNSKYLLYYFQTTVFQKQKEKLVIGTKVIELYPKNLEK 569

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER----RSSFIA 412
             +++PP+ EQ  I ++++        L + + + I   +++    R   + 
Sbjct: 570 AIIILPPVYEQGRIVSILDKFDTLTSDLTQGLPKEIEQRQKQYEYWRDLLLN 621



 Score = 77.5 bits (189), Expect = 4e-12,   Method: Composition-based stats.
 Identities = 43/406 (10%), Positives = 106/406 (26%), Gaps = 32/406 (7%)

Query: 22  PKHWKVVPIKRFTK-------LNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           P   +   +            +   +       I  +        T      +  +    
Sbjct: 13  PDGVEWKELGEVVDYEQPTKYIVKSKEYSDDYSIPVLTAG----QTFILGYTNEVTGIYP 68

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
            S         I++     +       DF+    +  + L       +            
Sbjct: 69  ASKEHPV----IIF---DDFTTARKWVDFEFKVKSSAMKLLSIKSDRQDDVSIRYVWHYL 121

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             I+   E                +P+PPL  Q  I + +   T  +  L  E    +  
Sbjct: 122 GTIKYTPEQHARQWI--GTFSKFKIPLPPLEIQGEIVKILDKFTEHVTELTAELTAELTF 179

Query: 195 LKEKKQALVSYIVTKGLNPDV--KMKDSGIEW--VGLVPDHWEVKPFFALVTELNRKNTK 250
            +++       +++           K   ++W  +G V +                    
Sbjct: 180 RQKQYSYFRDKLLSFDDESMGGANDKVYTVQWKTLGEVVNFRRGSFPQPYTDMSFYGGED 239

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
                 +        +        +  ++      V  G ++             +    
Sbjct: 240 AQPFVQVVDVADEGFRLNTKTKKTISQKAIPKSVFVPKGTVIVTLQGTLGRVAVTQYDAY 299

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP 370
           ++R +   A        +D  Y A  ++     +  +A GS   +++  ++     + VP
Sbjct: 300 VDRTL---AIFDGYKQEVDKRYFAHQLKFIFDREKEFARGS-TLKTITKQEFSNFKIPVP 355

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER----RSSFIA 412
           P+  Q  I  V++      + L   + + I L +++    R   + 
Sbjct: 356 PLDIQRRIVQVLDNFDTVCNDLNIGLPKEIELHQKQYAYFRDKLLT 401


>gi|90410148|ref|ZP_01218165.1| type I restriction-modification system, S subunit [Photobacterium
           profundum 3TCK]
 gi|90329501|gb|EAS45758.1| type I restriction-modification system, S subunit [Photobacterium
           profundum 3TCK]
          Length = 523

 Score =  106 bits (265), Expect = 6e-21,   Method: Composition-based stats.
 Identities = 51/474 (10%), Positives = 132/474 (27%), Gaps = 76/474 (16%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTS--------ESGKDIIYIGLEDVESGTGKYLPKDGNSR 71
            +PK W    +     +  G +         +S   + +I + D + G            
Sbjct: 3   QLPKGWAENSLGNLVVVERGSSPRPIKNFLTDSDDGVNWIKIGDAKKGQKLLTSTAEKIT 62

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
           +           G  +      +    I+     I    F+   PK +  +     L S 
Sbjct: 63  KEGAMKSRFVDVGDFILSNSMSFGLPYIMGIPGYIHDGWFVFRLPKQISSDYFYYLLSSS 122

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPL--------------------------- 164
            V  +   +  G  + +     +    +P+PPL                           
Sbjct: 123 YVGAQFNNLAVGGVVKNISGDLVKKAILPLPPLAEQTRIVEKLDEVLAQVDTIKARLDGI 182

Query: 165 ------AEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ------------------ 200
                   Q ++   +  +       I       +   E                     
Sbjct: 183 PAIIKRFRQSVLAAAVSGKLTEEWRDINTAQDIEKFCSEITDVRKEQYLVTCQKAKLAKS 242

Query: 201 ------ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN----TK 250
                 + +   +   L+    +     +W   V          ++V      +    T 
Sbjct: 243 KKPRKPSNIDDKIEPHLDVLDLLPSIPEQWTQKVLSFVTDNYADSIVDGPFGASINVKTD 302

Query: 251 LIESNILSLSYGN----IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
            I+  +  +   N       +   + +  +     +   ++ G+++F  +        + 
Sbjct: 303 YIDDGVPVIRMVNIRPFQFLRENRKFVSFEKFEGLSRHKINEGDVLFAKVGATTGDCCMY 362

Query: 307 SAQVMERGI--ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKR 364
                   +    S  + V     +S +L  ++ +Y             +  L  + +K 
Sbjct: 363 PMNEPIAMLSTTGSCRITVDKQVYNSEFLVIVLNAYR-RIFNSITSQVAQPFLNMKTIKS 421

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           +P+ +P ++EQ +I  +++   +  D +  +++++   +     S +A A  G+
Sbjct: 422 VPIPIPALEEQKEIVRLVDQYFSFADTIEAQVKKAQARVDSLTQSILAKAFRGE 475



 Score = 55.6 bits (132), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 28/212 (13%), Positives = 69/212 (32%), Gaps = 18/212 (8%)

Query: 18  IGAIPKHWKVVPIKRFTK-----LNTG--------RTSESGKDIIYIGLEDVESGTG-KY 63
           + +IP+ W    +   T      +  G        +T      +  I + ++      + 
Sbjct: 265 LPSIPEQWTQKVLSFVTDNYADSIVDGPFGASINVKTDYIDDGVPVIRMVNIRPFQFLRE 324

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGIC----STQFLVLQPKDV 119
             K  +  + +  +     +G +L+ K+G       +   +       +T    +     
Sbjct: 325 NRKFVSFEKFEGLSRHKINEGDVLFAKVGATTGDCCMYPMNEPIAMLSTTGSCRITVDKQ 384

Query: 120 LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
           +       ++     +   +I         + K I ++P+PIP L EQ  I   +     
Sbjct: 385 VYNSEFLVIVLNAYRRIFNSITSQVAQPFLNMKTIKSVPIPIPALEEQKEIVRLVDQYFS 444

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVTKGL 211
             DT+  +  +    +    Q++++      L
Sbjct: 445 FADTIEAQVKKAQARVDSLTQSILAKAFRGEL 476


>gi|45656819|ref|YP_000905.1| type I restriction enzyme [Leptospira interrogans serovar
           Copenhageni str. Fiocruz L1-130]
 gi|45600055|gb|AAS69542.1| type I restriction enzyme [Leptospira interrogans serovar
           Copenhageni str. Fiocruz L1-130]
          Length = 393

 Score =  106 bits (265), Expect = 6e-21,   Method: Composition-based stats.
 Identities = 64/402 (15%), Positives = 121/402 (30%), Gaps = 49/402 (12%)

Query: 26  KVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           +   ++    L  G T             I +  +ED+ +             +S     
Sbjct: 17  EWKAVEEIFDLRNGYTPSKSISEYWKDGTIPWFRMEDIRANGQILNNALQKVAKSALKGG 76

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELL---QGWLLSIDVTQ 135
            +F    I+          A+I     + + +F  L  K    +       +     +  
Sbjct: 77  KLFPANSIIVATSATIGEHALIT-VPYLSNQRFTNLILKTEYSDRFEIRFLFYYCFLLDD 135

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
             +     ++ +  D  G   I +PIPPL  Q  I   + A T     L +E     +  
Sbjct: 136 WCKNNTTMSSFASVDMNGFKKIQIPIPPLPAQEEIVRILDAFTELTTELASELSARKKQY 195

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDS-GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
              +  L+S    +G      + ++  +   G  P+   +                    
Sbjct: 196 NYYRDQLLS--FEEGEVEWKTLGETCDVYTGGEAPESSSMSK------------------ 235

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
                     I K      G +   Y     +D   +    I         R A      
Sbjct: 236 ------TPTDIYKYPIFGNGAEVYGYTDRYRIDKDAVTISSIGANTGTIYFRKAHFTP-- 287

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKE 374
           II    +  K  GI   YL   + S     +     S    ++   DVKR+ + +PP+ E
Sbjct: 288 IIRLKVVIPKQEGILPRYLFHALSS-----IAIGSKSSSVPNMNAADVKRISIPIPPLAE 342

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           Q  I ++++   A    + E + + I L ++     R   ++
Sbjct: 343 QERIVDILDKFDALTSSISEGLPREIELRQKQYEYYRELLLS 384


>gi|238923270|ref|YP_002936785.1| type I restriction-modification system specificity subunit
           [Eubacterium rectale ATCC 33656]
 gi|238874944|gb|ACR74651.1| type I restriction-modification system specificity subunit
           [Eubacterium rectale ATCC 33656]
          Length = 412

 Score =  106 bits (265), Expect = 6e-21,   Method: Composition-based stats.
 Identities = 47/405 (11%), Positives = 120/405 (29%), Gaps = 24/405 (5%)

Query: 23  KHWKVVPIKRFTKLNT-------GRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           K W+   +    +           +       I      ++   +         + +   
Sbjct: 13  KDWEQRKLNEVAEKICVGFVGTCEKFYTDESGIPMYRTGNLNGLSLNRDDLKYVTNEFHQ 72

Query: 76  STVS-IFAKGQILYGKLGPYLRKAIIAD--FDGICSTQFLVLQPKDVLPELLQGWLLSID 132
                    G IL  + G   +     +       +   +    K    + L   + S +
Sbjct: 73  HNQKSQLKAGDILIARHGDSGKAVNYENSEEANCLNIVIIRPDFKKCNYKFLTNCINSPE 132

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
             + I+++  G+T +  +   I  + + IP   ++      I      +D LIT   R  
Sbjct: 133 CQKHIKSLSAGSTQAVINTSEIEKLGVVIPANIDEQNR---IARYFSTLDNLITLHQRKC 189

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           E  K+ K+ ++  +  +      +++  G  +        E+                  
Sbjct: 190 EQTKKLKKYMLQKMFPRNGAKVPEIRFDGFTYDWEQRKLGEIYGSIGNAFVGT-ATPYYA 248

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESY----ETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
           E     L   N+       N  +         +  + +  G++V           ++   
Sbjct: 249 EHGHFYLESNNVKDGQINHNAEIFINDEFYEKQKDKWLHTGDMVMVQSGHVGH-AAVIPE 307

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPV 367
           ++                 I+  +L +  ++    K    + +G   + +   D++   V
Sbjct: 308 ELDNTAAHALIMFRNPKEEIEPYFLNYEYQTDKAKKQIENITTGNTIKHILASDMQEFVV 367

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
            +P  +EQ  I +       ++D L+   ++    LK+ +   + 
Sbjct: 368 DIPKYEEQKVIASY----FCKLDHLITLHQRKCDELKKMKKYMLQ 408



 Score = 75.2 bits (183), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 26/206 (12%), Positives = 68/206 (33%), Gaps = 10/206 (4%)

Query: 212 NPDVKMKDSGIEWVGLVPDHWEVKPFFALV--TELNRKNTKLIESNILSLSYGNIIQKLE 269
           NP ++ K    +W     +    K     V   E    +   I         G  + + +
Sbjct: 3   NPKIRFKGFTKDWEQRKLNEVAEKICVGFVGTCEKFYTDESGIPMYRTGNLNGLSLNRDD 62

Query: 270 TRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID 329
            + +  +   +     +  G+I+           ++      E   +    +       +
Sbjct: 63  LKYVTNEFHQHNQKSQLKAGDILIARHGDSGK--AVNYENSEEANCLNIVIIRPDFKKCN 120

Query: 330 STYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVP-PIKEQFDITNVINVETA 387
             +L   + S +  K   ++ +G  +  +   ++++L V++P  I EQ  I        +
Sbjct: 121 YKFLTNCINSPECQKHIKSLSAGSTQAVINTSEIEKLGVVIPANIDEQNRIARY----FS 176

Query: 388 RIDVLVEKIEQSIVLLKERRSSFIAA 413
            +D L+   ++     K+ +   +  
Sbjct: 177 TLDNLITLHQRKCEQTKKLKKYMLQK 202


>gi|229129742|ref|ZP_04258709.1| Type I restriction-modification system specificity subunit
           [Bacillus cereus BDRD-Cer4]
 gi|228653658|gb|EEL09529.1| Type I restriction-modification system specificity subunit
           [Bacillus cereus BDRD-Cer4]
          Length = 388

 Score =  106 bits (265), Expect = 6e-21,   Method: Composition-based stats.
 Identities = 45/395 (11%), Positives = 114/395 (28%), Gaps = 27/395 (6%)

Query: 35  KLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPY 94
           +  T +  +    +  + +        +    +     ++     +  KG+  Y K    
Sbjct: 2   ERVTRKNKKGESRLP-LTISAQYGLVDQETYFNKTVASTNLEGYYLLYKGEFAYNKSYSN 60

Query: 95  LRKAIIAD-----FDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC------EG 143
                          G+ S+ ++  +P +                   E           
Sbjct: 61  GYPYGAIKRLEKHDKGVLSSLYICFRPLNYSVSSDFLTHYFESAVWHKEVSMISVEGARN 120

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
             + +            IP L EQ  I   +     ++D +I    + +  LK+ K+  +
Sbjct: 121 HGLLNISVSDFFETLHLIPNLVEQTQIGNFL----KQLDDMIALHQQELTTLKQTKKGFL 176

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
             +  K      +++  G            +                 +E     L   N
Sbjct: 177 QKMFPKEGESVPEVRFPGFTGDWEQRKLESIYEKIRNAFVGT-ATPYYVEDGHFYLESNN 235

Query: 264 IIQKLETRNMGLKPESY----ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
           +      RN  +         +    +  G++V           ++   ++         
Sbjct: 236 VKDGQINRNTEVFINDEFYEKQKNNWLHTGDLVMVQSGHVGH-TAVIPEELDNTAAHALI 294

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDI 378
             +      D  +L +  +++   K    + +G   + +   ++K+  V +P  +EQ  I
Sbjct: 295 MFSNYREKADPYFLNYQFQTHKSKKKLNNITTGNTIKHILASEMKKFLVDIPKYEEQKMI 354

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            N       ++D  +   ++ +  LKE + +F+  
Sbjct: 355 GNF----FKQLDDAIALHQRELDALKETKKAFLQK 385



 Score = 47.5 bits (111), Expect = 0.005,   Method: Composition-based stats.
 Identities = 30/194 (15%), Positives = 64/194 (32%), Gaps = 14/194 (7%)

Query: 24  HWKVVPIKRFTKLNT----GRTSES--GKDIIYIGLEDVESGTG-KYLPKDGNSRQSDTS 76
            W+   ++   +       G  +         Y+   +V+ G   +      N    +  
Sbjct: 198 DWEQRKLESIYEKIRNAFVGTATPYYVEDGHFYLESNNVKDGQINRNTEVFINDEFYEKQ 257

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV---LPELLQGWLLSIDV 133
             +    G ++  + G     A+I +     +   L++         P  L     +   
Sbjct: 258 KNNWLHTGDLVMVQSGHVGHTAVIPEELDNTAAHALIMFSNYREKADPYFLNYQFQTHKS 317

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            +++  I  G T+ H     +    + IP   EQ +I         ++D  I    R ++
Sbjct: 318 KKKLNNITTGNTIKHILASEMKKFLVDIPKYEEQKMIGNF----FKQLDDAIALHQRELD 373

Query: 194 LLKEKKQALVSYIV 207
            LKE K+A +  + 
Sbjct: 374 ALKETKKAFLQKMF 387


>gi|313113034|ref|ZP_07798672.1| type I restriction modification DNA specificity domain protein
           [Faecalibacterium cf. prausnitzii KLE1255]
 gi|310624648|gb|EFQ07965.1| type I restriction modification DNA specificity domain protein
           [Faecalibacterium cf. prausnitzii KLE1255]
          Length = 424

 Score =  106 bits (265), Expect = 6e-21,   Method: Composition-based stats.
 Identities = 69/404 (17%), Positives = 124/404 (30%), Gaps = 26/404 (6%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA-- 82
           W+   +    +  T       KD    G+  V++G                 +   F   
Sbjct: 21  WEQRKLTNLCEKFTDGDWIEAKDQSDSGVRLVQTGNVGVTEYLDKPNNKKWISFETFEQL 80

Query: 83  ------KGQILYGKLGPYLRKAIIADFDG---ICSTQFLVLQPKD-VLPELLQGWLLSID 132
                  G IL  +L     +A I    G   I +    +++P        L  +L S  
Sbjct: 81  HCEEVYPGDILISRLPEPAGRACIMPNLGTKMITAVDCTIVRPNAVTSTRFLLQYLSSQA 140

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
               +     G T        +    +PIP    +    EKI     ++DTLIT   R  
Sbjct: 141 YFDAVNTCLAGGTRQRISRGNLAQFNVPIPSSKIEQ---EKIGEILEKLDTLITLHQRKY 197

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           E L   K++++  +  K      +++  G           E+    A +   N + ++ +
Sbjct: 198 EKLVNIKKSMLDKMFPKNGASVPEIRFKGFTDPWEQRKLSELTSMHARIGWQNLRTSEFL 257

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETY-----QIVDPGEIVFRFIDLQNDKRSLRS 307
           +S    L  G                  E Y       +  G I+            ++S
Sbjct: 258 DSGDYMLITGTDFDDGTVNYSTCHFVERERYEQDKNIQIRNGSILITKDGTLGKVAYVQS 317

Query: 308 AQVMERGIITSAYM-AVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRL 365
             +          +       +D  YL   +++  L          G  + L    +   
Sbjct: 318 LSMPATLNAGVFNVEIRNTSIVDERYLFQYLKAPFLMDYVDKKATGGTIKHLNQNILVDF 377

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
           PV++P   EQ  I N       RID L+   ++ +  L+  + S
Sbjct: 378 PVVMPKKTEQVSIGNF----FQRIDTLITLHQRKLEKLQNIKKS 417



 Score = 78.3 bits (191), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 19/150 (12%), Positives = 49/150 (32%), Gaps = 6/150 (4%)

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
           +    + +  +       + V PG+I+   +     +  +      +        +    
Sbjct: 65  KPNNKKWISFETFEQLHCEEVYPGDILISRLPEPAGRACIMPNLGTKMITAVDCTIVRPN 124

Query: 326 HGIDSTYLAWLMRSYDLCKVFYA-MGSGLRQSLKFEDVKRLPVLVPPIK-EQFDITNVIN 383
               + +L   + S          +  G RQ +   ++ +  V +P  K EQ  I  ++ 
Sbjct: 125 AVTSTRFLLQYLSSQAYFDAVNTCLAGGTRQRISRGNLAQFNVPIPSSKIEQEKIGEILE 184

Query: 384 VETARIDVLVEKIEQSIVLLKERRSSFIAA 413
               ++D L+   ++    L   + S +  
Sbjct: 185 ----KLDTLITLHQRKYEKLVNIKKSMLDK 210


>gi|222525221|ref|YP_002569692.1| restriction modification system DNA specificity domain-containing
           protein [Chloroflexus sp. Y-400-fl]
 gi|222449100|gb|ACM53366.1| restriction modification system DNA specificity domain protein
           [Chloroflexus sp. Y-400-fl]
          Length = 438

 Score =  106 bits (265), Expect = 6e-21,   Method: Composition-based stats.
 Identities = 65/433 (15%), Positives = 135/433 (31%), Gaps = 37/433 (8%)

Query: 25  WKVVPIKRFTKLNTG--RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           W  V +     +N      +     I YI +  V  GT    P   +  ++ +    +  
Sbjct: 5   WGTVRLGDVATINPDAIGANWPFLHIRYIDISSVGEGTIIEKPSQISLSEAPSRAKRLIR 64

Query: 83  KGQILYGKLGPYLRKAII---ADFDGICSTQFLVLQPKDVLPELLQGWLLSID--VTQRI 137
           +G  +   + P  R        + D + ST F VL+PK  +      +    D   T  +
Sbjct: 65  EGDTVLSMVRPNRRSMFFVTTFEPDLVVSTGFAVLRPKPKVIHPRYLYACVFDRAFTDYL 124

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
            +  +GA       + I +  +P PPL EQ  I   +     +I+          ++ + 
Sbjct: 125 VSREKGAAYPAVLSEDIADAKIPFPPLPEQRAIAHILGTLDDKIELNRRMSETLEQMARA 184

Query: 198 KKQALVSYIVT---------------KGLNPDVKMKDSG---IEWVGLVPDHWEVKPFFA 239
             +A                       GL                +G +P+ W V     
Sbjct: 185 LFKAWFVDFEPVRAKIECRWQRGQSLPGLPAHFYDLFPERLVDSELGEIPEGWGVGRLSE 244

Query: 240 LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQ 299
           L+     +  +  E     L   N+  +       +    + +      G+ +   I   
Sbjct: 245 LIELNPPRVLRKGEVA-PYLDMANMPTRGHV-PGDVVDRPFGSGTRFINGDTLLARITPC 302

Query: 300 NDKRSLRSAQVMERGII---TSAYMAVKPHGIDSTYLAWLM-RSYDLCK--VFYAMGSGL 353
            +         +  G +   ++ Y+ ++P        A+ + RS +     +    G+  
Sbjct: 303 LENGKTAFVDFLRNGQVGWGSTEYIVLRPREPLPAEFAYCLARSENFRDFAIQNMTGTSG 362

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           RQ ++ E +    ++ PP          +    AR      +       L   R + +  
Sbjct: 363 RQRVQTEAIAHYLLVAPPAPVAEAFGRTVKQLFARA----TRASCESRTLAALRDALLPK 418

Query: 414 AVTGQIDLRGESQ 426
            + G+I ++   +
Sbjct: 419 LIRGEIRVKDAEK 431



 Score = 55.6 bits (132), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 36/140 (25%), Positives = 57/140 (40%), Gaps = 15/140 (10%)

Query: 12  DSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSR 71
           DS    +G IP+ W V  +    +LN  R    G+   Y+ + ++   T  ++P D   R
Sbjct: 227 DSE---LGEIPEGWGVGRLSELIELNPPRVLRKGEVAPYLDMANM--PTRGHVPGDVVDR 281

Query: 72  QSDTSTVSIFAKGQILYGKLGPYL--RKAIIADF-----DGICSTQFLVLQPKDVLP-EL 123
              + T  I   G  L  ++ P L   K    DF      G  ST+++VL+P++ LP E 
Sbjct: 282 PFGSGTRFI--NGDTLLARITPCLENGKTAFVDFLRNGQVGWGSTEYIVLRPREPLPAEF 339

Query: 124 LQGWLLSIDVTQRIEAICEG 143
                 S +          G
Sbjct: 340 AYCLARSENFRDFAIQNMTG 359


>gi|257080966|ref|ZP_05575327.1| type I restriction enzyme MjaXIP specificity protein [Enterococcus
           faecalis E1Sol]
 gi|256988996|gb|EEU76298.1| type I restriction enzyme MjaXIP specificity protein [Enterococcus
           faecalis E1Sol]
          Length = 422

 Score =  106 bits (265), Expect = 7e-21,   Method: Composition-based stats.
 Identities = 57/422 (13%), Positives = 124/422 (29%), Gaps = 29/422 (6%)

Query: 29  PIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYLP-KDGNSRQSDTSTVSI 80
            +     +  G+    GK       +  Y+ + D  SG       K  ++   D+ +   
Sbjct: 5   KLGNLCLVKGGKRLPKGKALLDYKTEHPYLRITDYASGNIDLKNLKYISNDVFDSISKYT 64

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICS-----TQFLVLQPKDVLPELLQGWLLSIDVTQ 135
             K  I    +G      II +     S      + +V     +    L  +L S     
Sbjct: 65  INKKDIFLSIVGTIGIVDIIDEKLDGASLTENAVKIIVKDRTKIDVNYLAYYLKSTMGQY 124

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            I+    G+T        I +IP+P+  + +Q  I   + +   +I           EL 
Sbjct: 125 EIDIRTVGSTQKKLAITRIKDIPVPVIEINKQRKIASVLSSLDSKIKLNNQIISNLEELS 184

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSG----IEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
               +           N     K SG        G +P+ ++VK    +   +       
Sbjct: 185 STLFKRWFVDFEFPDEN-GNPYKSSGGKMDDSEFGEIPECFQVKKLSDIADVIGGGTPSK 243

Query: 252 IESNILSLSYGNII-------QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
                      + I        K    + G    +           +    I   +    
Sbjct: 244 KVKEYFEDGNISWITPKDLSINKNIFIDRGKTSITRLGLNKSSAKLLPKNSILFSSRAPI 303

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKR 364
             +A           + ++           +     ++ K          + +    VK 
Sbjct: 304 GYTAISKNELATNQGFKSLIALDGIPYQFIFHFIRNNVSKFESIATGSTFKEVSGTAVKN 363

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGE 424
             +++P  +   +  +V +    +    ++ +E+   +L E R S +   ++G+I+L  +
Sbjct: 364 FKIVLPTEEVLQNYADVTSPLFKK----IKIVEEENNILTELRDSLLPKLLSGEIELPED 419

Query: 425 SQ 426
            +
Sbjct: 420 EE 421



 Score = 65.6 bits (158), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 37/209 (17%), Positives = 69/209 (33%), Gaps = 16/209 (7%)

Query: 10  YKDSGVQW----IGAIPKHWKVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVES 58
           YK SG +      G IP+ ++V  +     +  G T            +I +I  +D+  
Sbjct: 205 YKSSGGKMDDSEFGEIPECFQVKKLSDIADVIGGGTPSKKVKEYFEDGNISWITPKDLSI 264

Query: 59  GTGKYLPKDGNSR---QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQ 115
               ++ +   S      + S+  +  K  IL+    P    AI  +     +  F  L 
Sbjct: 265 NKNIFIDRGKTSITRLGLNKSSAKLLPKNSILFSSRAPIGYTAISKNELA-TNQGFKSLI 323

Query: 116 PKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKII 175
             D +P     +    +   + E+I  G+T        + N  + +P         +   
Sbjct: 324 ALDGIP-YQFIFHFIRNNVSKFESIATGSTFKEVSGTAVKNFKIVLPTEEVLQNYADVTS 382

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVS 204
               +I  +  E     EL       L+S
Sbjct: 383 PLFKKIKIVEEENNILTELRDSLLPKLLS 411


>gi|149012613|ref|ZP_01833610.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP19-BS75]
 gi|147763418|gb|EDK70355.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP19-BS75]
          Length = 516

 Score =  106 bits (265), Expect = 7e-21,   Method: Composition-based stats.
 Identities = 72/435 (16%), Positives = 143/435 (32%), Gaps = 62/435 (14%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLP-KDGNSRQSDTSTV 78
            IP  W+ V IK           E     I     D +     Y   +  +  Q+ +   
Sbjct: 83  DIPDTWEWVRIKSIYWNFGQNKPEKSFRYIDTSSIDRKKNIINYKNLQYLSPEQAPSRAR 142

Query: 79  SIFAKGQILYGKLGPYLRKAIIA---DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
            + ++  +L+  + PYL+   +        I ST F+VL        L   +LLS +   
Sbjct: 143 KLVSQNSVLFSTVRPYLKNIAVVRELKEYLIASTAFIVLDTLLNETYLKY-YLLSDNFIN 201

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
           R+     G +    +      + + +P L+EQ  I E I +   ++D       R  +L 
Sbjct: 202 RVNNKSTGTSYPAINDYNFNLLLIALPSLSEQQRIVEAIESALEKVDEYAESYNRLEQLD 261

Query: 196 KEKK----QALVSYIVTKGLNPDVKMKDS------------------------------- 220
           KE      ++++ Y +   L       +S                               
Sbjct: 262 KEFPDKLKKSILQYAMQGKLVEQDPNDESVEVLLEKIRAEKQKLFEEGKIKKKDLDISIV 321

Query: 221 --------GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
                     E    +P+ WE      + + + R  +    +  +         +    +
Sbjct: 322 SQGDDNSYYEEVPCEIPESWEWVRLNDITSYIQRGKSPKYSNISIYPVIAQKCNQWSGFS 381

Query: 273 MGL-------KPESYETYQIVDPGEIVFRFIDLQNDKR-SLRSAQVMERGIITSA----Y 320
           + L          SY+  +++  G++++    L    R ++        G   +      
Sbjct: 382 IDLARFIDPETVHSYQKERLLRDGDLMWNSTGLGTLGRLAIYHENKNPYGWAVADSHVTV 441

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDI 378
           + V    I+  ++   + S  +  V     SG   ++ L  + +K   + +PP+ EQ  I
Sbjct: 442 IRVLSGVINCHFIYNFLSSPIVQSVIEEKASGSTKQKELLTKTIKEYLIPLPPLPEQSRI 501

Query: 379 TNVINVETARIDVLV 393
            + I    A ID L+
Sbjct: 502 VDKIEQFFAHIDALI 516



 Score = 76.4 bits (186), Expect = 7e-12,   Method: Composition-based stats.
 Identities = 32/206 (15%), Positives = 71/206 (34%), Gaps = 10/206 (4%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
            I+    +PD WE     ++     +   +     I + S       +  +N+       
Sbjct: 77  EIDVPYDIPDTWEWVRIKSIYWNFGQNKPEKSFRYIDTSSIDRKKNIINYKNLQYLSPEQ 136

Query: 281 ---ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
                 ++V    ++F  +       ++     ++  +I S    V    ++ TYL + +
Sbjct: 137 APSRARKLVSQNSVLFSTVRPYLKNIAVVR--ELKEYLIASTAFIVLDTLLNETYLKYYL 194

Query: 338 RSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
            S +         +G    ++   +   L + +P + EQ  I   I     ++D   E  
Sbjct: 195 LSDNFINRVNNKSTGTSYPAINDYNFNLLLIALPSLSEQQRIVEAIESALEKVDEYAESY 254

Query: 397 EQSIVLLKE----RRSSFIAAAVTGQ 418
            +   L KE     + S +  A+ G+
Sbjct: 255 NRLEQLDKEFPDKLKKSILQYAMQGK 280


>gi|332292954|ref|YP_004431563.1| restriction modification system DNA specificity domain protein
           [Krokinobacter diaphorus 4H-3-7-5]
 gi|332171040|gb|AEE20295.1| restriction modification system DNA specificity domain protein
           [Krokinobacter diaphorus 4H-3-7-5]
          Length = 413

 Score =  106 bits (264), Expect = 7e-21,   Method: Composition-based stats.
 Identities = 69/397 (17%), Positives = 143/397 (36%), Gaps = 25/397 (6%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESG--KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           ++W         +    + +     ++   I +E +   +   L    +  Q        
Sbjct: 33  ENWTKKDFGTIVEKAKAKHNPKKSKEEYPCIEMESIAKESSILLEVFNSKDQLSIKNK-- 90

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
           F+KG+IL+GKL P L+K IIA FDG+CS++  VL  K++  E L   + +         +
Sbjct: 91  FSKGEILFGKLRPNLKKYIIAPFDGVCSSEIWVLNGKELSNEFLFRLIQTNKFHSSTL-V 149

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
             G+ M  ADW  I +   P P L EQ  I   +      +D  I +  +   LL++ K+
Sbjct: 150 TSGSKMPRADWAYISSSIFPFPSLPEQQKIASFL----SAVDKKIQQLTKKKALLEQYKK 205

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
            ++  + +  L    +  +   +W     +  ++    A+  E   K+ +      +   
Sbjct: 206 GVMQQLFSGQLRFKDENGNPYPDW-----EEKKMGDILAVRNEQAPKSEQYPLMAFIKHK 260

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
                     R   +     + Y+  + G+ ++   +L      L          I+  Y
Sbjct: 261 GVAPKGDRYNREFLVNDGDGKKYKKTEYGDFIYSSNNLDTGSIGL---NSYGSACISPVY 317

Query: 321 -MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQF 376
            +       D  +++  +              G+   +  +    V  +   +P ++EQ 
Sbjct: 318 SIFQIKELYDYQFISRFLVRKSFINKMLRFRQGVVYGQWKIHESAVLTIKEKIPCLEEQQ 377

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            I   +    + ID  +E +   I   +  +   +  
Sbjct: 378 KIATYL----SSIDTKIESVHTQITQTQTFKKGLLQQ 410



 Score = 85.2 bits (209), Expect = 2e-14,   Method: Composition-based stats.
 Identities = 23/178 (12%), Positives = 56/178 (31%), Gaps = 9/178 (5%)

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPES-YETYQIVDPGEIVFRFIDLQNDKRSLR 306
           N K  +     +   +I ++          +           GEI+F  +     K  + 
Sbjct: 52  NPKKSKEEYPCIEMESIAKESSILLEVFNSKDQLSIKNKFSKGEILFGKLRPNLKKYIIA 111

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLP 366
                  G+ +S    +    + + +L  L+++                   +  +    
Sbjct: 112 PFD----GVCSSEIWVLNGKELSNEFLFRLIQTNKFHSSTLVTSGSKMPRADWAYISSSI 167

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGE 424
              P + EQ  I + ++    +I  L     +   LL++ +   +    +GQ+  + E
Sbjct: 168 FPFPSLPEQQKIASFLSAVDKKIQQL----TKKKALLEQYKKGVMQQLFSGQLRFKDE 221



 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 25/189 (13%), Positives = 55/189 (29%), Gaps = 9/189 (4%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLED-VESGTGKYLPKDGNSRQSDTSTVSIFA 82
            W+   +     +   +  +S +  +   ++    +  G    ++      D        
Sbjct: 228 DWEEKKMGDILAVRNEQAPKSEQYPLMAFIKHKGVAPKGDRYNREFLVNDGDGKKYKKTE 287

Query: 83  KGQILYGKLGPYLRKAIIADF-DGICSTQFLVLQPKDVLPELLQ-GWLLSIDVTQRIEAI 140
            G  +Y           +  +     S  + + Q K++        +L+      ++   
Sbjct: 288 YGDFIYSSNNLDTGSIGLNSYGSACISPVYSIFQIKELYDYQFISRFLVRKSFINKMLRF 347

Query: 141 CEG--ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
            +G            +  I   IP L EQ  I   +      IDT I      I   +  
Sbjct: 348 RQGVVYGQWKIHESAVLTIKEKIPCLEEQQKIATYL----SSIDTKIESVHTQITQTQTF 403

Query: 199 KQALVSYIV 207
           K+ L+  + 
Sbjct: 404 KKGLLQQMF 412


>gi|293369054|ref|ZP_06615652.1| type I restriction modification DNA specificity domain protein
           [Bacteroides ovatus SD CMC 3f]
 gi|292635860|gb|EFF54354.1| type I restriction modification DNA specificity domain protein
           [Bacteroides ovatus SD CMC 3f]
          Length = 402

 Score =  106 bits (264), Expect = 7e-21,   Method: Composition-based stats.
 Identities = 51/400 (12%), Positives = 111/400 (27%), Gaps = 24/400 (6%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +P+ W    +    +L +G+     K    I       G      +     +   S   
Sbjct: 4   KVPEVWVWTTLGEILELVSGQDFPPEKYNANIAGIPYIIGASNIENEQLIINRWTESPSV 63

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
                 +L    G  + K  I +       + +           ++     +        
Sbjct: 64  YSYLNDLLVVCKGAGVGKMAINNIGVAHIARQIQAVRGYTNYTDIKYIKAVVKNNIENII 123

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
                 +     + + ++ +P+PP++EQ  I  +I      ID +   +     ++K+ K
Sbjct: 124 SKANGLIPGLKRELLLSLQLPLPPISEQRRIVCEIERWFFLIDQIEQGKADLQTVIKQAK 183

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHW--EVKPFFALVTELNRKNTKLIESNIL 257
             ++   +   L P     +  IE +  +   +          +     K       N +
Sbjct: 184 SKILDLAIHGKLVPQNPNDEPAIELLKRINPDFTPCDNRHSGKLPYEIPKTWVWCSHNSI 243

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQI--------------------VDPGEIVFRFID 297
               G            LKP     YQI                       G+I+     
Sbjct: 244 LDISGGSQPAKSYFETILKPNYIRLYQIRDYGESPVPVYIPINLASKQTKKGDILLARYG 303

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSL 357
               K  +  A+     +  +  +    + I   +  +   S         +    +   
Sbjct: 304 GSLGK--VFYAEQGAYNVAMAKVIFKFENLIYKEFAYYYYLSDLYQGKLKEISRTAQTGF 361

Query: 358 KFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
              D   +   +PPI EQ  I   +    + +D + + +E
Sbjct: 362 NITDFNDMYFPLPPINEQQRIVQKMEELFSSLDDIQKNLE 401


>gi|84386437|ref|ZP_00989465.1| type I restriction-modification system specificity determinant
           [Vibrio splendidus 12B01]
 gi|84378861|gb|EAP95716.1| type I restriction-modification system specificity determinant
           [Vibrio splendidus 12B01]
          Length = 404

 Score =  106 bits (264), Expect = 7e-21,   Method: Composition-based stats.
 Identities = 49/403 (12%), Positives = 121/403 (30%), Gaps = 40/403 (9%)

Query: 26  KVVPIKRFTKLNTG----RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT-STVSI 80
           +   +    +L  G    +T  +   +  I    + +  G       +     T   +  
Sbjct: 17  EWKVLSEVGELVRGNGLPKTDFTESGVPAIHYGQIYTHYGLCTSSTISFVSEKTADKLKK 76

Query: 81  FAKGQILYGKLGPYLR-----KAIIADFDGICSTQFLVLQPKDVLPELLQ-GWLLSIDVT 134
             KG ++       L         + +   +      + +P +++       +  +   +
Sbjct: 77  VNKGDVIITNTSENLEDVGKSVVYLGNEQAVTGGHATIFKPSEIILGKYFAYYTQTNAFS 136

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
                  +GA +       +  I +P+PP+  QV +   +         L +E     + 
Sbjct: 137 SEKRKYAKGAKVIDVSASDMAKIQVPLPPIHIQVEVVRILDTFRDLTSALSSELAMRKKQ 196

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
               +  L++              DS IEW          K    +     ++ +  +  
Sbjct: 197 YSYYRAKLLN------------FNDSEIEW----------KSLSEVSEYSKKRISFDLLD 234

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
               +S  N++Q    +    +  +       +  +I+   I     K     +     G
Sbjct: 235 TENYVSVENLLQNCAGKAKANRVPTSGNLTQYNSCDILIGNIRPYLKKIWYADSLGGTNG 294

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIK 373
            +    ++     I++ YL  L+      +       G          +    + VP ++
Sbjct: 295 DV--LVISSTDARINNRYLYQLLADDGFFEYNMQHAKGAKMPRGNKAKIMDYRIPVPSVE 352

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           EQ  I ++++     I    E + + I L ++     R   ++
Sbjct: 353 EQKRIVSILDKFNTLIHSTSEGLPKEIELRQKQYEYYRDLLLS 395


>gi|313107800|ref|ZP_07793974.1| hypothetical protein PA39016_001140001 [Pseudomonas aeruginosa
           39016]
 gi|310880476|gb|EFQ39070.1| hypothetical protein PA39016_001140001 [Pseudomonas aeruginosa
           39016]
          Length = 378

 Score =  106 bits (264), Expect = 7e-21,   Method: Composition-based stats.
 Identities = 72/393 (18%), Positives = 145/393 (36%), Gaps = 34/393 (8%)

Query: 24  HWKVVPIKRFTKLNTGR--TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
            WKV    +       R           Y+GLE +++ + K   +   +     +T  +F
Sbjct: 4   GWKVWRFDQLATNVNVRIDNPSESGMEHYVGLEHLDADSLKI--RRWGTPDDVEATKLMF 61

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLV--LQPKDVLPELLQGWLLSIDVTQRIEA 139
            KG I++G+   Y RK  +A+FDGICS   +V   +P  VLP  L  ++ S     R   
Sbjct: 62  KKGDIIFGRRRAYQRKLGVAEFDGICSAHAMVLRAKPDVVLPAFLPFFMQSDLFMSRAVE 121

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
           I  G+     +WK +      +PPL EQ      +      ++      +  +    + +
Sbjct: 122 ISVGSLSPTINWKTMAVQEFVLPPLEEQQRAVHFL----SAVEDQSEAVLHALTAATKLR 177

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
           +++     ++   P V+M        G  P                R      +  I  L
Sbjct: 178 KSMALEAFSRSDYPIVRMGSVAEIKNGSTP---------------RRATDAYWKGTIPWL 222

Query: 260 SYGNIIQKLE---TRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
             G + +++       +  K  S  +  ++  G  +   I     +   R+A +     I
Sbjct: 223 PTGKVNERVIQAADEFITEKALSECSLAMIPAGATLVAMIGEGQTRG--RAAMLAIDSCI 280

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
              + AV P G    +  + +   +   + +      +++L    +K  P+ VPP++ Q 
Sbjct: 281 NQNFGAVIPGGSLDPWYLFYLLESNYEALRHWSQGTNQRALSCGLLKNYPIPVPPLEVQQ 340

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
           ++   +      I+    ++   + ++ E R +
Sbjct: 341 ELVGQL----KEIEATESQLALRLDMVHEMRRA 369


>gi|253578027|ref|ZP_04855299.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39B_FAA]
 gi|251850345|gb|EES78303.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39BFAA]
          Length = 393

 Score =  106 bits (264), Expect = 7e-21,   Method: Composition-based stats.
 Identities = 56/403 (13%), Positives = 125/403 (31%), Gaps = 25/403 (6%)

Query: 26  KVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           K + +     +  G   +S       I  I + +V+ G  +         +++     + 
Sbjct: 2   KKIRLGDACDILNGFAFKSENYVDSGIRVIRIANVQKGYIEDNTPVFYPLETNELDKYML 61

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS----IDVTQRI 137
            +G +L    G   R AI+       +    V   +     + + +L          Q+ 
Sbjct: 62  EEGDLLMALTGNVGRVAILKKEFMPAALNQRVACLRLKTDRVAKDYLFHVLNSAFFEQQC 121

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
               +G    +   + + +  +P+ P  +Q LI + +      I   I+      +L   
Sbjct: 122 IQSSKGVAQKNMSTEWLKDYEIPMYPKEQQELIADILDKTRNII---ISRNYELKKLDDL 178

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
            K   V       LN     K      V + P +   KP    VT+ +      I+    
Sbjct: 179 IKARFVEMFGDAYLNEFGWKKIKIKNAVTVEPQNGMYKPQSDYVTDGSGIPILRIDGF-- 236

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ-VMERGII 316
              Y  ++    +       E+     ++   ++V   ++             ++E  + 
Sbjct: 237 ---YDGVVTDFSSLKRLRCSENERQKYLLYEDDVVINRVNSIEYLGKCAHINGLLEDTVY 293

Query: 317 TSAYMAVKPH--GIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPI 372
            S  M +          Y+  L+ S  +             + S+  +DV    +  PP+
Sbjct: 294 ESNMMRMHFDSTRFHPVYVCRLLCSRFVYDQIVNHAKQAVNQASINQKDVLDFDIYEPPL 353

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           K Q    + +       D    +I++++   +    S +    
Sbjct: 354 KLQIQFADFVRAV----DKSKVEIQKALDKTQMLFDSLMQEYF 392


>gi|313204425|ref|YP_004043082.1| restriction modification system DNA specificity domain
           [Paludibacter propionicigenes WB4]
 gi|312443741|gb|ADQ80097.1| restriction modification system DNA specificity domain
           [Paludibacter propionicigenes WB4]
          Length = 433

 Score =  106 bits (264), Expect = 7e-21,   Method: Composition-based stats.
 Identities = 50/417 (11%), Positives = 114/417 (27%), Gaps = 32/417 (7%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGK-DIIYIGLEDVESGTG-------------KYLPKDG 68
           K W + P           +      +     ++++  G                    + 
Sbjct: 20  KEWILEPFSEIYSFLGTNSFTRDNLNYRDGNIKNIHYGDIHTKFNSHFDITKEIVPFVNL 79

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELL---- 124
           +             +G I++      L     +      + + ++     +L        
Sbjct: 80  DITVEKIKEEFFCKEGDIIFADASEDLADVGKSIEIIYLNNEKILSGLHTLLARQKDSKL 139

Query: 125 -----QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAET 178
                     S  +  +I+   +GA +       + NI +  P    EQ  I   + +  
Sbjct: 140 RTGFGGHLFKSSSIRTQIQKESQGAKVLGISATRLSNISVYYPENKDEQQKIASCLSSLD 199

Query: 179 VRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFF 238
                 I      +E LK+ K+ L+  +         K++    E  G   +    K   
Sbjct: 200 EL----IAAHTYKLEALKDHKKGLMQQLFPAEGETVPKLRFKEFEGDGEWVETTLNKLGN 255

Query: 239 ALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDL 298
            +       N    E  ++  S       ++  +        +   ++ P +I+    + 
Sbjct: 256 LIGGLTYSPNDIRNEGLLVLRSSNIQNGLIDLNDCVYVTTEVKGANLIQPNDILICVRNG 315

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLK 358
                   +    +    T             +++  L ++        A       S+ 
Sbjct: 316 SKSLIGKNAIIPKDIPFATHGAFMTVFRAYQPSFIFQLFQTDLYSNQVKADLGATINSIN 375

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
             ++ +   +VP   EQ  I N +    + ID  +    Q I  LKE +   +    
Sbjct: 376 GSNLLKYKFIVPQPNEQQKIANFL----SSIDDEIAAQVQKIEGLKEHKKGLMQGLF 428


>gi|237712394|ref|ZP_04542875.1| type I restriction enzyme EcoR124II specificity protein
           [Bacteroides sp. 9_1_42FAA]
 gi|229453715|gb|EEO59436.1| type I restriction enzyme EcoR124II specificity protein
           [Bacteroides sp. 9_1_42FAA]
          Length = 356

 Score =  106 bits (264), Expect = 7e-21,   Method: Composition-based stats.
 Identities = 55/352 (15%), Positives = 113/352 (32%), Gaps = 37/352 (10%)

Query: 81  FAKGQILYGKLGPYLRKAIIAD---FDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
                +L    G  L +  +       G  S    +++   V PE     +LS    + +
Sbjct: 6   VLANDLLLNITGGSLGRCAVVPADFNCGNVSQHVCIMRSVLVEPEYFHVLVLSSYFAKSM 65

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           +    G+         +  +  P+PPL EQ  I  +I      ID +   +     ++K+
Sbjct: 66  K--ITGSGREGLPKYNLEQMGFPLPPLTEQQRIVAEIEHWFALIDQIEQGKADLQTIIKQ 123

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWV----------------GLVPDHWEVKPFFALV 241
            K  ++   +   L P     +  IE +                  VP+ W       L 
Sbjct: 124 TKSKILDLAIHGKLVPQDPNDEPAIELLKRINPDFTPCDNGHYTFDVPNGWNWCKLNDLC 183

Query: 242 TELNRKNTKLIESNILSLSYGNIIQKLETRNMGL---------KPESYETYQIVDPGEIV 292
           + L+R  +     +  +         L+   + L             +++   +  G+++
Sbjct: 184 SFLSRGKSPKYSEDDKTYPVFAQKCNLKEGGISLEQARFLDPSTINKWDSKYKLQTGDVL 243

Query: 293 FRFIDLQNDKRSLRSAQVM---ERGII--TSAYMAVKPHGIDSTYLAWLMRSYDLCKVF- 346
                     R+    +        ++  +   +      I+S Y+   M S  + +   
Sbjct: 244 VNSTGTGTVGRTRLFDESYLGKYPFVVPDSHVAVVRTYEEINSEYVFAYMSSQLIQQYIE 303

Query: 347 -YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
               GS  ++ L    ++ L    PPI EQ  I   I    + +D +   +E
Sbjct: 304 DNLAGSTNQKELYIGVLENLYFPFPPINEQQRIVQKIEELFSVLDNIQNALE 355



 Score = 67.5 bits (163), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 25/133 (18%), Positives = 55/133 (41%), Gaps = 2/133 (1%)

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV 345
           V   +++         + ++  A     G ++     ++   ++  Y   L+ S    K 
Sbjct: 6   VLANDLLLNITGGSLGRCAVVPAD-FNCGNVSQHVCIMRSVLVEPEYFHVLVLSSYFAKS 64

Query: 346 FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
               GSG R+ L   +++++   +PP+ EQ  I   I    A ID + +       ++K+
Sbjct: 65  MKITGSG-REGLPKYNLEQMGFPLPPLTEQQRIVAEIEHWFALIDQIEQGKADLQTIIKQ 123

Query: 406 RRSSFIAAAVTGQ 418
            +S  +  A+ G+
Sbjct: 124 TKSKILDLAIHGK 136



 Score = 53.6 bits (127), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 28/181 (15%), Positives = 61/181 (33%), Gaps = 17/181 (9%)

Query: 20  AIPKHWKVVPIKRFTKL-NTGRTSESGKDIIYIGLE----DVESGTGKYLPKDGN--SRQ 72
            +P  W    +       + G++ +  +D     +     +++ G            S  
Sbjct: 169 DVPNGWNWCKLNDLCSFLSRGKSPKYSEDDKTYPVFAQKCNLKEGGISLEQARFLDPSTI 228

Query: 73  SDTSTVSIFAKGQILYGKLGP-------YLRKAIIADFDGIC--STQFLVLQPKDVLPEL 123
           +   +      G +L    G           ++ +  +  +   S   +V   +++  E 
Sbjct: 229 NKWDSKYKLQTGDVLVNSTGTGTVGRTRLFDESYLGKYPFVVPDSHVAVVRTYEEINSEY 288

Query: 124 LQGWLLSIDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
           +  ++ S  + Q IE    G+T         + N+  P PP+ EQ  I +KI      +D
Sbjct: 289 VFAYMSSQLIQQYIEDNLAGSTNQKELYIGVLENLYFPFPPINEQQRIVQKIEELFSVLD 348

Query: 183 T 183
            
Sbjct: 349 N 349


>gi|168179781|ref|ZP_02614445.1| Sau1hsdS1 [Clostridium botulinum NCTC 2916]
 gi|182669200|gb|EDT81176.1| Sau1hsdS1 [Clostridium botulinum NCTC 2916]
          Length = 404

 Score =  106 bits (264), Expect = 7e-21,   Method: Composition-based stats.
 Identities = 54/409 (13%), Positives = 131/409 (32%), Gaps = 41/409 (10%)

Query: 24  HWKVVPIKRFTK-LNTGRTSESGK------DIIYIGLEDVESGTGKYLPK-DGNSRQSDT 75
            W+   I   TK + +G+T + G        +I++  +++ +G             ++  
Sbjct: 15  EWEFEKIGNITKKVGSGKTPKGGNTVYTDSGVIFLRSQNILNGILALNDVAYITEDENSK 74

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFD---GICSTQFLVLQPKDVLPELLQGWLLSID 132
              +      IL    G  + ++ I          +    +++ K+          +   
Sbjct: 75  MKSTQVYGNDILLNITGASIGRSCIVPKIFPKANVNQHVCIIRLKENYNSYFIMNQILSY 134

Query: 133 -VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            V ++I++   G      +++ I  + + +    EQ  I         +I+    +    
Sbjct: 135 KVQKQIDSYQAGGNREGLNFQQIKQMNVAVTVYEEQQKIANFFSLIDKKIENQQEKVEAL 194

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
            +  K   Q + S  +    +                P+    +     + E        
Sbjct: 195 KDYKKGMMQKIFSQAIRFKGD-----------NGEEYPE--WEEKKAEKLFESISDKKHN 241

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPES--YETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
            E  +LS +    +      N+ +K E     +Y+ V     +      Q          
Sbjct: 242 GELEVLSATQDRGVIPRSELNIDIKYEESSLSSYKRVRKNNFIISLRSFQG-----GIET 296

Query: 310 VMERGIITSAYMAVKPH---GIDSTYLAWLMRSYDLCKVFYAMGSGLR--QSLKFEDVKR 364
               G+++ AY           +  + + + +S +       +  G+R  +++ F+D   
Sbjct: 297 SKYDGLVSPAYTVFNFKENEKQNHDFFSLIFKSRNFINRLNTLIYGIRDGKAISFKDFAG 356

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           + +  P I+EQ  I     V   ++    EK ++ +  L E +   +  
Sbjct: 357 VKLQYPCIEEQEKIALFFLVIYKKL----EKEQEKLDSLNEWKKGLLQQ 401



 Score = 85.6 bits (210), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 35/216 (16%), Positives = 75/216 (34%), Gaps = 11/216 (5%)

Query: 213 PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKL---- 268
           P ++ K+   EW      +                NT   +S ++ L   NI+  +    
Sbjct: 5   PKLRFKEFSGEWEFEKIGNIT--KKVGSGKTPKGGNTVYTDSGVIFLRSQNILNGILALN 62

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
           +   +     S      V   +I+         +  +      +  +     +       
Sbjct: 63  DVAYITEDENSKMKSTQVYGNDILLNITGASIGRSCIVPKIFPKANVNQHVCIIRLKENY 122

Query: 329 DSTYLAWLMRSYDLCKVFYAM-GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           +S ++   + SY + K   +    G R+ L F+ +K++ V V   +EQ  I N      +
Sbjct: 123 NSYFIMNQILSYKVQKQIDSYQAGGNREGLNFQQIKQMNVAVTVYEEQQKIANF----FS 178

Query: 388 RIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
            ID  +E  ++ +  LK+ +   +    +  I  +G
Sbjct: 179 LIDKKIENQQEKVEALKDYKKGMMQKIFSQAIRFKG 214


>gi|167761134|ref|ZP_02433261.1| hypothetical protein CLOSCI_03532 [Clostridium scindens ATCC 35704]
 gi|167661253|gb|EDS05383.1| hypothetical protein CLOSCI_03532 [Clostridium scindens ATCC 35704]
          Length = 413

 Score =  106 bits (264), Expect = 8e-21,   Method: Composition-based stats.
 Identities = 56/422 (13%), Positives = 125/422 (29%), Gaps = 38/422 (9%)

Query: 24  HWKVVPIKRFTKLNTGRTSESG--------------KDIIYIGLEDVESGTGKYLPKDGN 69
           +W    +  +  L T   +                     Y+   D+E        +  +
Sbjct: 5   NWSYCRLDEYLNLLTDYDANGSFADMAANVHTEWGHGYAWYVRATDLEQKLPLSEVRYAD 64

Query: 70  SRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICS---TQFLVLQPKDVLPELLQG 126
               D    S    G++L  K G   +           +     +L+          L  
Sbjct: 65  KSSYDFLKKSSLFGGELLMAKRGEIGKVYFFEMKTKYATLAPNLYLLKLNDKADGRFLYY 124

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           + LS +  +RI+AI    ++       +  + +P     EQ  I   +      I  L  
Sbjct: 125 YFLSKEGQKRIKAINASTSLGAIYKDDVKGLLVPSIRKKEQENIAASLSDVDTLITDLQK 184

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
              +  ++ +   Q LV+           K +  G     +  +  +     A +     
Sbjct: 185 LIRKKKDIRQGTMQMLVT----------GKKRLDGYSGDWVKINLAKNSKLKARIGWQGL 234

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY-----QIVDPGEIVFRFIDLQND 301
              + ++     L  G           G    +Y+ Y       V  G+++         
Sbjct: 235 TTAEYLDEGYSFLITGTDFDGGRINWNGCHFVNYDRYAQDPNIQVSNGDLLLTKDGTIGK 294

Query: 302 KRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFE 360
              +   +           +        + ++ +++ S         + +G     L  +
Sbjct: 295 VAYVTDLKRPATLNSGVFLVKPITDAYVAHFMFYVLESSVFKDFLQQLSAGSTINHLYQK 354

Query: 361 DVKRLPVLVPP-IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
           D+ +  + VPP  +EQ  I  ++    + I  L    E+ +   +E +   +   +TG++
Sbjct: 355 DLVKFDLYVPPTKEEQEAIATILFDMDSDIHKL----EEKLYKYQEIKQGMMEELLTGKV 410

Query: 420 DL 421
            L
Sbjct: 411 RL 412


>gi|308183527|ref|YP_003927654.1| putative type I restriction enzyme specificity protein
           [Helicobacter pylori PeCan4]
 gi|308065712|gb|ADO07604.1| putative type I restriction enzyme specificity protein
           [Helicobacter pylori PeCan4]
          Length = 382

 Score =  106 bits (264), Expect = 8e-21,   Method: Composition-based stats.
 Identities = 38/411 (9%), Positives = 107/411 (26%), Gaps = 47/411 (11%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSES---------GKDIIYIGLEDVESGTGKYLPKDGNSR 71
           +P +W+ V +    ++  G +              ++ ++ + D+   +           
Sbjct: 6   LPLNWQRVRLGDIAEIKRGASPRPIENPKWFCANSNVGWVRISDISKNSRFLYKTAQKLS 65

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
           +       +  +  ++        +  I      I     +   PK  L      +    
Sbjct: 66  KKGIEKSRLVKQNSLIMSMCATIGKPIITKIDTCIHDGFVVFENPKIDLN---YLYYFLC 122

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRIDTLITERIR 190
            + +      +  +  + +   I N  +  P  L EQ+ I   +      + +L    ++
Sbjct: 123 YIEKEWLESGQQGSQVNLNVDLIKNKEVFYPKDLNEQIAIANILSDVDRYLYSLDALILK 182

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
              + K     L+S                  + +      W+      +          
Sbjct: 183 KEGVKKALSFELLSQ----------------RKRLKGFNQAWQRVRLGDICEITTGSLDA 226

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
               +     +    ++    +                       I              
Sbjct: 227 NEMVHYGKYRFYTCAKEYYFIDKYAFDTEAI-------------LISGNGAYVGYVHYYK 273

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP 370
            +       Y+          ++ + +  +    +      G    +    +K   +L+P
Sbjct: 274 GKFNAYQRTYVLDNFSEHI-IFVKYFLTMFLQSHIQTNRNEGNTPYIVMGTLKDFEILLP 332

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           P+ EQ  I N+++     I  L  K  Q     +  + +     ++ +I +
Sbjct: 333 PLNEQIAIANILSDLDHEIISLKNKKRQ----FENIKKALNHDLMSAKIRV 379


>gi|239994804|ref|ZP_04715328.1| restriction modification system DNA specificity domain protein
           [Alteromonas macleodii ATCC 27126]
          Length = 403

 Score =  106 bits (264), Expect = 9e-21,   Method: Composition-based stats.
 Identities = 60/401 (14%), Positives = 121/401 (30%), Gaps = 31/401 (7%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+        +    R   S    +Y            Y      + + +     I   G
Sbjct: 19  WERKVFGSGVEPYIERVDSSTDLPVYSSSRAGLLAQESYFSNRRVTNEGE---YGIVPYG 75

Query: 85  QILYGKLG---PYLRKAIIADFDGICSTQFLVLQPKDVLPEL-LQGWLLSIDVTQRIEAI 140
             +Y  +     ++            S ++ V   +D            S D  +     
Sbjct: 76  YFVYRHMSDDLTFMFNINDVSPKIAVSKEYPVFCVRDWDARFIRYKLNYSNDFKKFAATQ 135

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
             G T +   +K +      IP + EQ  I + + A   +I  L  +     +  K   Q
Sbjct: 136 KLGGTRTRLYFKNLCLWETLIPNIREQQKIADFLSAVDEKITLLKEKYALLQQYKKGVVQ 195

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
            L S       +             G     W   PF      + RKN     + +   +
Sbjct: 196 KLFSQENRFKDDD------------GQAFPDWIELPFAECFERVTRKNKIDNRNVLTISA 243

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQND-KRSLRSAQVMERGIITSA 319
              +I + +  N  +   +   Y ++D GE  +     +     +++     + G++++ 
Sbjct: 244 QHGLINQEKYFNKSVAAANLTGYYLLDKGEFAYNKSYSKGYPMGAIKRLNNYDLGVVSTL 303

Query: 320 YMAVKPHG-IDSTYLAWLMRSYDLCKVFYAMGS-GLRQS--LKFED---VKRLPVLVPPI 372
           Y+  K        +         L +    +   G R    L        + + V+VP I
Sbjct: 304 YICFKSKHEQIDEFWEQFFEGGMLNRQISKIAQEGARNHGLLNISVTEFFEDIKVMVPSI 363

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           +EQ  I N +     ++D     ++Q I L +  +   +  
Sbjct: 364 EEQRKIANFLQALDKKLDA----VQQQIDLTQTFKKGLLQQ 400



 Score = 68.7 bits (166), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 25/150 (16%), Positives = 58/150 (38%), Gaps = 7/150 (4%)

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
           E+     +  +   Y IV  G  V+R +   +         V  +  ++  Y        
Sbjct: 55  ESYFSNRRVTNEGEYGIVPYGYFVYRHMS-DDLTFMFNINDVSPKIAVSKEYPVFCVRDW 113

Query: 329 DSTYLAWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
           D+ ++ + +   +  K F A     G R  L F+++     L+P I+EQ  I + ++   
Sbjct: 114 DARFIRYKLNYSNDFKKFAATQKLGGTRTRLYFKNLCLWETLIPNIREQQKIADFLSAVD 173

Query: 387 ARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
            +    +  +++   LL++ +   +    +
Sbjct: 174 EK----ITLLKEKYALLQQYKKGVVQKLFS 199


>gi|284108343|ref|ZP_06386407.1| Restriction modification system DNA specificity domain [Candidatus
           Poribacteria sp. WGA-A3]
 gi|283829904|gb|EFC34190.1| Restriction modification system DNA specificity domain [Candidatus
           Poribacteria sp. WGA-A3]
          Length = 393

 Score =  106 bits (263), Expect = 9e-21,   Method: Composition-based stats.
 Identities = 66/411 (16%), Positives = 133/411 (32%), Gaps = 39/411 (9%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
             W+   +    +LN G++              V+S     +P  G++    + T +I  
Sbjct: 2   SGWQTKRLGDVLQLNYGKSLP------------VKSRVEGPIPVYGSNGVVGSHTEAIVD 49

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
              ++ G+ G   +  +         T F V       P+    +L  +     +  I  
Sbjct: 50  APGLIVGRKGSAGQVHLSRGPFCPIDTTFYVTANDA--PDTDLEFLFYLLQHINLTRIIG 107

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
              +   + +      +  P    +    +KI      +   I  + R I+   E K+ L
Sbjct: 108 DVGVPGLNREMAYMEQVRFPVTLSEQ---KKIAHILSTVQRAIEAQERIIQTTTELKKTL 164

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
           +  + T+G       K + I   GL+P+ WEV P  A+    N    K            
Sbjct: 165 MHKLFTEG-TRGEPQKQTEI---GLIPESWEVMPLGAIAKIGNGSTPKRSNVGYWEYGNI 220

Query: 263 NIIQKLETRNMGLKPES---------YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
             +   +   + +                   V P  ++         K    SA V   
Sbjct: 221 PWLNSTKIHELFVAEADQFVTPLAVKECHLPRVAPNSLLIAITG--QGKTLGNSAIVRFE 278

Query: 314 GIITSA--YMAVKPHGIDSTYLAWLMRS-YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP 370
             I     Y       I   ++ W M++ YD  +     G   + +L    +K   + +P
Sbjct: 279 TCINQHLAYAQFHSEKIIPDFVLWFMQTRYDFLRSIAQAGGSTKGALTCGYLKTHLIPIP 338

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
              EQ +I N+      +++   + I +    L++   + +   +T +I +
Sbjct: 339 EKNEQNEIVNI----FGQLENKQKVITRKRAFLQDIFRTLLHNLMTAKIRV 385



 Score = 63.3 bits (152), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 35/219 (15%), Positives = 73/219 (33%), Gaps = 26/219 (11%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKY 63
           K +    IG IP+ W+V+P+    K+  G T +          +I ++    +       
Sbjct: 179 KQTE---IGLIPESWEVMPLGAIAKIGNGSTPKRSNVGYWEYGNIPWLNSTKIHELFVAE 235

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGP--YLRKAIIADFDGICSTQ--FLVLQPKDV 119
             +           +   A   +L    G    L  + I  F+   +    +     + +
Sbjct: 236 ADQFVTPLAVKECHLPRVAPNSLLIAITGQGKTLGNSAIVRFETCINQHLAYAQFHSEKI 295

Query: 120 LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
           +P+ +  ++ +     R  A   G+T        +    +PIP   EQ  I         
Sbjct: 296 IPDFVLWFMQTRYDFLRSIAQAGGSTKGALTCGYLKTHLIPIPEKNEQNEIVN------- 348

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMK 218
                I  ++   + +  +K+A +  I    L+  +  K
Sbjct: 349 -----IFGQLENKQKVITRKRAFLQDIFRTLLHNLMTAK 382


>gi|194333152|ref|YP_002015012.1| restriction modification system DNA specificity domain
           [Prosthecochloris aestuarii DSM 271]
 gi|194310970|gb|ACF45365.1| restriction modification system DNA specificity domain
           [Prosthecochloris aestuarii DSM 271]
          Length = 456

 Score =  106 bits (263), Expect = 9e-21,   Method: Composition-based stats.
 Identities = 65/465 (13%), Positives = 144/465 (30%), Gaps = 61/465 (13%)

Query: 1   MKHYKA-------------YPQY-----------KDSGVQWIGAIPKHWKVVPIKRFTK- 35
           M +++              YP+Y           +DS     G   + WK   + + +  
Sbjct: 1   MSNFQRGADIPVRHSEGNGYPEYNGGLENPPSVERDSES---GRDMRDWKKTTVGKVSTG 57

Query: 36  LNTGRTSESGK------DIIYIGLEDVESG-TGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
             +G T  + +      +I +I  + +          K  +      +   I  K  I++
Sbjct: 58  FLSGGTPSTSRADYWKGEIPWITSKWLGDKLELTTGEKFVSEEAIKNTATKIVPKDSIIF 117

Query: 89  GKLGPYLRKAIIADFDGICSTQF--LVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATM 146
                 + K  I   D   +     +++  ++   + L   L    + Q +     GAT+
Sbjct: 118 AT-RVGVGKVGINRIDLAINQDLAGVLIDNENYDIKFLAYQLGIDSIQQYVAMNKRGATI 176

Query: 147 SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYI 206
                  +  I + IPPL EQ  I   +      +   I  + R I+   E K+AL+  +
Sbjct: 177 KGITRDCLEQIQLNIPPLPEQKKIAHIL----STVQRAIEAQERIIQTTTELKKALMHKL 232

Query: 207 VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN------TKLIESNILSLS 260
            T+GL  + +        +GLVP+ WEV     +    +             +  I  + 
Sbjct: 233 FTEGLRNEPQK----ETEIGLVPESWEVCKVGDVAKIQSGGTPSRDVPENWRDGTIPWVK 288

Query: 261 YG---NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
            G     + K     +     +    Q+   G ++         +  +    +       
Sbjct: 289 TGEINYCVIKDTEEKITPTGLANSAAQLFPTGTLLMAMYGQGITRGKVGLLGIEAATNQA 348

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFD 377
            A +        S+   +    +    +        ++++    ++  P+  P  +EQ  
Sbjct: 349 CASIIPIDQDQISSVFLYYFFEFQYENLRQLGHGANQRNMSAGLIRGFPLSFPKFEEQAA 408

Query: 378 -ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            I          +D      E+     +    + +   +  +  +
Sbjct: 409 MIAAF-----ESLDKKRYFHERKRTQFQGLFRTLLHELMNAKTRV 448


>gi|21282122|ref|NP_645210.1| specificity determinant HsdS [Staphylococcus aureus subsp. aureus
           MW2]
 gi|49485300|ref|YP_042521.1| putative restriction and modification system specificity protein
           [Staphylococcus aureus subsp. aureus MSSA476]
 gi|297209066|ref|ZP_06925466.1| specificity determinant HsdS [Staphylococcus aureus subsp. aureus
           ATCC 51811]
 gi|300911068|ref|ZP_07128517.1| specificity determinant HsdS [Staphylococcus aureus subsp. aureus
           TCH70]
 gi|21203558|dbj|BAB94258.1| probable specificity determinant HsdS [Staphylococcus aureus subsp.
           aureus MW2]
 gi|49243743|emb|CAG42168.1| putative restriction and modification system specificity protein
           [Staphylococcus aureus subsp. aureus MSSA476]
 gi|296886337|gb|EFH25270.1| specificity determinant HsdS [Staphylococcus aureus subsp. aureus
           ATCC 51811]
 gi|300887247|gb|EFK82443.1| specificity determinant HsdS [Staphylococcus aureus subsp. aureus
           TCH70]
          Length = 419

 Score =  106 bits (263), Expect = 9e-21,   Method: Composition-based stats.
 Identities = 61/408 (14%), Positives = 139/408 (34%), Gaps = 29/408 (7%)

Query: 24  HWKVVPIKRFT-KLNTGRTSE------SGKDIIYIGLEDVESGTGKYLP-KDGNSRQSDT 75
            W+   +   T K+ +G+T +      + K I ++  +++ +G          +    D 
Sbjct: 20  EWEEKKLGDLTTKIGSGKTPKGGSENYTNKGIPFLRSQNIRNGKLNLNDLVYISKDIDDE 79

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIA---DFDGICSTQ-FLVLQPKDVLPELLQGWLLSI 131
              S    G +L    G  + +  I    +     +    ++   K+        +LLS 
Sbjct: 80  MKNSRTYYGDVLLNITGASIGRTAINSIVEIHANLNQHVCIIRLKKEYYYNFFGQYLLSR 139

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAE-QVLIREKIIAETVRIDTLITERIR 190
              ++I     G +    ++K I N+ +  P + E Q  I E I     +I+    +   
Sbjct: 140 KGKRKIFLAQSGGSREGLNFKEIANLKIFTPTIFEEQQKIGEFISKLDRQIELEEQKLEL 199

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
             +  K   Q + S  +           D   + +  + ++                   
Sbjct: 200 LQQQKKGYMQKIFSQELRFKDEEGKDYPDWKSKSIQEIFENKGGTALETEFNFDG----- 254

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
                ++S+   +I      +N+ +         I+  G++     D   D + +  +  
Sbjct: 255 --NYKVISIGSYSINSTYNDQNIRVNKNKKTEKYILSKGDLAMVLNDKTKDGKIIGRSIF 312

Query: 311 MERG---IITSAYMAVKPHGIDSTYLAWLMRSYDLC--KVFYAMGSGLRQSLKFEDVKRL 365
           +++    I       + P   +     W + + DL   K+   M    +  + +  +K +
Sbjct: 313 IDKDNQYIYNQRTERLIPFAENDNKFLWFLMNTDLIRNKIKGMMQGATQVYINYSSIKLI 372

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            + +P ++EQ  I   + V    +  +  K    I  LKER+ +F+  
Sbjct: 373 SIQLPLLEEQQKIRGFLEV----LSGITTKQLHKIDQLKERKKAFLQK 416



 Score = 67.5 bits (163), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 24/181 (13%), Positives = 54/181 (29%), Gaps = 6/181 (3%)

Query: 215 VKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK----LET 270
            +++  G E         ++             +       I  L   NI        + 
Sbjct: 10  PELRFPGFEGEWEEKKLGDLTTKIGSGKTPKGGSENYTNKGIPFLRSQNIRNGKLNLNDL 69

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
             +    +          G+++         + ++ S   +   +     +         
Sbjct: 70  VYISKDIDDEMKNSRTYYGDVLLNITGASIGRTAINSIVEIHANLNQHVCIIRLKKEYYY 129

Query: 331 TYLA-WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI-KEQFDITNVINVETAR 388
            +   +L+      K+F A   G R+ L F+++  L +  P I +EQ  I   I+    +
Sbjct: 130 NFFGQYLLSRKGKRKIFLAQSGGSREGLNFKEIANLKIFTPTIFEEQQKIGEFISKLDRQ 189

Query: 389 I 389
           I
Sbjct: 190 I 190


>gi|237738767|ref|ZP_04569248.1| restriction endonuclease S [Fusobacterium sp. 2_1_31]
 gi|229423870|gb|EEO38917.1| restriction endonuclease S [Fusobacterium sp. 2_1_31]
          Length = 408

 Score =  106 bits (263), Expect = 1e-20,   Method: Composition-based stats.
 Identities = 45/380 (11%), Positives = 117/380 (30%), Gaps = 25/380 (6%)

Query: 26  KVVPIKRFTK----LNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD--TSTVS 79
           +    K   +    +     +   + I YI  +++++G   +      S       S   
Sbjct: 2   EYKKTKDIVQEKFWIMPETPNFIEEGIPYITSKNIKNGFIDFKDVKYVSVDDYNRISNNR 61

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFL--VLQPKDVLPELLQGWLLSIDVTQRI 137
              K  +L   +G     AI+ D             +  + +L +    ++    + + +
Sbjct: 62  KIKKDDMLITMIGTIGEVAIVEDEIDFYGQNLYLLRMNNEIILNKYYYYYITLNKIKRTL 121

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
                 ++  +     I N+ +P+PPL  Q  I   +   T  ++ L  +    +   K+
Sbjct: 122 VEKRNTSSQGYIKAGNIENLLIPVPPLEVQEEIVRILDDYTKSVEELKEKLNAELITRKK 181

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
           +      Y++              I  +G + +                     +     
Sbjct: 182 QYSWYRDYLLKFE-------NKIKIVKLGELFEFKNGINKEKSSFGKGTPIINYVN---- 230

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA--QVMERGI 315
            +   N I   + + +    +       V  G++ F       ++    S   + +E  +
Sbjct: 231 -VYKKNKIYFEDLQGLVEATDDELIRYKVKRGDVFFTRTSETIEEIGFTSVLLEDIENCV 289

Query: 316 ITSAYMAVKP--HGIDSTYLAWLMRSYDLCK-VFYAMGSGLRQSLKFEDVKRLPVLVPPI 372
            +   +  +P    +   Y A+   +  +   +        R  +    + ++ + +PP+
Sbjct: 290 FSGFLLRARPLTDLLLPEYCAYCFSTSSMRNAIIRKSTYTTRALINGTSLSQIEIPLPPL 349

Query: 373 KEQFDITNVINVETARIDVL 392
           + Q  I  V++        L
Sbjct: 350 EVQKRIVEVLDNFEKTCKEL 369



 Score = 72.1 bits (175), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 22/192 (11%), Positives = 66/192 (34%), Gaps = 12/192 (6%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK-----PESYETYQ 284
           ++ + K        +  +    IE  I  ++  NI                        +
Sbjct: 2   EYKKTKDIVQEKFWIMPETPNFIEEGIPYITSKNIKNGFIDFKDVKYVSVDDYNRISNNR 61

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCK 344
            +   +++   I    +   +     ++        + +    I + Y  + +    + +
Sbjct: 62  KIKKDDMLITMIGTIGEVAIV--EDEIDFYGQNLYLLRMNNEIILNKYYYYYITLNKIKR 119

Query: 345 -VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
            +     +  +  +K  +++ L + VPP++ Q +I  +++  T  ++ L EK+   ++  
Sbjct: 120 TLVEKRNTSSQGYIKAGNIENLLIPVPPLEVQEEIVRILDDYTKSVEELKEKLNAELITR 179

Query: 404 KE----RRSSFI 411
           K+     R   +
Sbjct: 180 KKQYSWYRDYLL 191


>gi|189501453|ref|YP_001960923.1| restriction modification system DNA specificity domain [Chlorobium
           phaeobacteroides BS1]
 gi|189496894|gb|ACE05442.1| restriction modification system DNA specificity domain [Chlorobium
           phaeobacteroides BS1]
          Length = 405

 Score =  106 bits (263), Expect = 1e-20,   Method: Composition-based stats.
 Identities = 59/411 (14%), Positives = 134/411 (32%), Gaps = 39/411 (9%)

Query: 30  IKRFTK---LNTGRTSE-------SGKDIIYIGLEDVESG--TGKYLPKDGNSRQSDTST 77
           +        + TG           +   +  +  +D+ SG  T  ++ +   S+ +    
Sbjct: 10  LGDIVIPKGIQTGPFGSQLKAEEYTEDGVPVVMPKDICSGYLTSSFISRVSQSKANKLKK 69

Query: 78  VSIFAKGQILYGKLGP--YLRKAIIADFDGICSTQFLVLQPKDVLPELL-QGWLLSIDVT 134
             I  +G I++ + G    +  A   +   IC T  L  +   V+       ++L   V 
Sbjct: 70  HQI-KEGDIIFPRRGDLRRIGVARKDNTGWICGTGCLRARLNSVVHSDFLHQYVLLDSVG 128

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           + +E    G TM +     I N+P+ +P L+EQ  I + + A    I+            
Sbjct: 129 KWLERNALGQTMLNLSTDIISNLPLTLPLLSEQKAIADLLSAWDEAIEKAERLIQEKERR 188

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
            +   + L+S       + + K    G                     +  ++ +  +  
Sbjct: 189 FRWLLRELISEPRNTRKDAEWKKVRMG--------SFLTESRIPDRENDPKKRISVRLHL 240

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
             + +              G +      Y I   G+ ++   ++      +   ++    
Sbjct: 241 RGVEVR----------EYRGTESNGATAYFIRKAGQFIYGKQNVFRGAVGIVPLELDGYS 290

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIK 373
                        +D ++L +L    +  K      SG   + L  +++ R+ + +P   
Sbjct: 291 STQDIPAFDIADHVDKSWLLFLFSYTNFYKKLELYASGSGSKRLHPKELFRMKITLPTFG 350

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGE 424
           EQ  I   ++     ID+L +         K ++   +   + G   ++ E
Sbjct: 351 EQQQIAETLSSAQYEIDLLKQLA----EKYKTQKRGLMQKMLAGTWRVKPE 397


>gi|114798271|ref|YP_761234.1| type I restriction-modification system, S subunit [Hyphomonas
           neptunium ATCC 15444]
 gi|114738445|gb|ABI76570.1| type I restriction-modification system, S subunit [Hyphomonas
           neptunium ATCC 15444]
          Length = 381

 Score =  106 bits (263), Expect = 1e-20,   Method: Composition-based stats.
 Identities = 63/407 (15%), Positives = 126/407 (30%), Gaps = 40/407 (9%)

Query: 24  HWKVVPIKRFTKLNTGRTS--------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           +W +  +    ++  G +         ++   + +I + D  + +          + S  
Sbjct: 2   NWPLRTLDEIFEIARGGSPRPIDQFITDADDGVNWIMIGDASNSSKHIRETKKKIKPSGV 61

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL--LSIDV 133
           S   +   G  L      + R  I+ D  G     +LVL P+    +    +    S  +
Sbjct: 62  SRSRLVKPGDFLLTNSMSFGRPYIL-DTHGCIHDGWLVLSPRRANVDHDYFYHLLGSPAI 120

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
             + E +  GAT+ + +   +  + + +PPL EQ  I   +               R  +
Sbjct: 121 FGQFEKLAAGATVKNLNIDLVKRVIVALPPLEEQKRIAAILDQADELRRKRQRALDRLNQ 180

Query: 194 LLKEKKQALVSYIVTKGL-NPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           L     QA+   +   G       ++  G    G  P   +   F   V           
Sbjct: 181 L----GQAIFIDMFGDGASFESASLRTLGRVSTGSTPPTSDADSFGGPVP---------- 226

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
                       +   E     L     +  ++V PG  +   I     K      +   
Sbjct: 227 ------FVTPGDLGSGEAVKRSLTEAGAQKSRLVGPGATLVCCIGATIGKMGQARERSAF 280

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI 372
              I +     +       +    +RS  + K      S     LK  + ++L + VPP+
Sbjct: 281 NQQINAVDWGDRIGAAFGFFAVQQIRSLIIHK--GKGASTTLPILKKSEFEKLEIFVPPM 338

Query: 373 KEQFDITNVINV-ETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            EQ +  + + + + +  D            L+E  +S    A  G+
Sbjct: 339 VEQQEFAHRVGIVQCSLTDA--SLHNS---RLEELFASLQHRAFRGE 380


>gi|242243194|ref|ZP_04797639.1| type I site-specific deoxyribonuclease specificity subunit
           [Staphylococcus epidermidis W23144]
 gi|242233348|gb|EES35660.1| type I site-specific deoxyribonuclease specificity subunit
           [Staphylococcus epidermidis W23144]
          Length = 405

 Score =  106 bits (263), Expect = 1e-20,   Method: Composition-based stats.
 Identities = 68/404 (16%), Positives = 136/404 (33%), Gaps = 31/404 (7%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           K W+   +    + + G+           I  I   ++ +  G  L K  +   S  +++
Sbjct: 17  KEWEFQELGNLAQFSKGKLLSKKDLNISGIPCILYGELYTRYGAILNKVYSKTDSKKNSL 76

Query: 79  SIFAKGQILYGKLGPY-----LRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
               K QIL    G          AI  D          ++ P +     +  ++     
Sbjct: 77  VFSKKNQILIPSSGETDIDIATATAINTDLKIAIGGDLNIITPINSDGRFISLYING-KG 135

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
              +    +G ++ H     I  +   +P    +    +KI     ++D  I    + +E
Sbjct: 136 KHNLAKYAQGKSVVHLYNSDIKKLKFYLPSNNSEQ---QKIGDFFSKLDQQIELEEKKLE 192

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
           LL+++K+  +  I ++ L           +  G     WEV     +++E     +K+  
Sbjct: 193 LLEQQKRGYMQKIFSQEL--------RFKDENGNAYPEWEVMKLKDILSERKEYASKIGN 244

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
               +LS   I  K +  N     +       V     +    +  N K  + +   +  
Sbjct: 245 YPHATLSTSGISLKSDRYNRDFLVKDKNKKYKVTIMNDI--CYNPANLKFGVITRNHIGS 302

Query: 314 GIITSAYMAVKPHGIDSTYLAWLM-RSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLV 369
            I +  Y+  + +   S     L+    D          G    R ++K ED       +
Sbjct: 303 AIFSPIYITFEVNNAHSPLFIELLVTRNDFINRVRKYEQGTVYERMAVKPEDFLNYETKI 362

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           P ++EQ  I N      +++D ++ K  Q I  LK R+   +  
Sbjct: 363 PCLEEQEKIGNF----FSKLDKVINKQRQKIDELKLRKQGLLQK 402


>gi|225573221|ref|ZP_03781976.1| hypothetical protein RUMHYD_01412 [Blautia hydrogenotrophica DSM
           10507]
 gi|225039353|gb|EEG49599.1| hypothetical protein RUMHYD_01412 [Blautia hydrogenotrophica DSM
           10507]
          Length = 405

 Score =  106 bits (263), Expect = 1e-20,   Method: Composition-based stats.
 Identities = 65/416 (15%), Positives = 143/416 (34%), Gaps = 30/416 (7%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDI----IYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            W+ V +   ++   G+  +  K+      Y+   +V  G            + D     
Sbjct: 2   SWEKVKLGDVSESCLGKMLDKRKNKGFYKPYLANVNVRWGAFDLENLQEMRFEDDEDERY 61

Query: 80  IFAKGQILYGKLGPYLRKAIIADF--DGICSTQFLVLQPKD-VLPELLQGWLLSIDVTQR 136
               G ++  + G   R AI  +   +         ++ K+ +    +  W L       
Sbjct: 62  GIKYGDLIICEGGEPGRCAIWKEELPNMKIQKALHRVRVKEEMDCRYVYYWFLLAGKQGA 121

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           ++    GAT+ H   + +  + +  PPL  Q  I   + +    I+       + I+LL+
Sbjct: 122 LKQYYTGATIMHMPEQKLKEVIIDKPPLDVQRKIGNYLESFDNLIEN----NQKQIKLLE 177

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE--- 253
           E  Q L          P  +        V  VP+ W + P  ++   +  K+    E   
Sbjct: 178 EAAQRLYKEWFVDLRFPGYE----DTPIVDGVPEGWAMMPLSSVFEYVRGKSYTSKELVE 233

Query: 254 ---SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL----R 306
                +++L                    ++  Q +  G+IV    D+  ++R +     
Sbjct: 234 EGGVVMINLKNIRAFGGYNRNAEKRYEGKFKENQELFAGDIVMGVTDMTKERRLVGHVAI 293

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRL 365
              + E    +   + + P  +  ++L   M      K    + +G+    LK E +  +
Sbjct: 294 VPDLDETMTFSMDLVKLVPLCVKKSFLYSTMFYGGYSKRISPLANGVNVLHLKPETMMNM 353

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            +LVP      +I    ++        +E +++   +  E R   +   ++G+I++
Sbjct: 354 EMLVPT----EEIMEQYDILFDIYQKKIETLQKQCDIATEARERLLPKLMSGEIEV 405



 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 34/211 (16%), Positives = 71/211 (33%), Gaps = 14/211 (6%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGK--- 62
            +P Y+D+ +  +  +P+ W ++P+    +   G++  S + +   G+  +     +   
Sbjct: 192 RFPGYEDTPI--VDGVPEGWAMMPLSSVFEYVRGKSYTSKELVEEGGVVMINLKNIRAFG 249

Query: 63  -YLPKDGNSRQSDTSTVSIFAKGQILYG------KLGPYLRKAIIA--DFDGICSTQFLV 113
            Y        +           G I+ G      +       AI+   D     S   + 
Sbjct: 250 GYNRNAEKRYEGKFKENQELFAGDIVMGVTDMTKERRLVGHVAIVPDLDETMTFSMDLVK 309

Query: 114 LQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
           L P  V    L   +     ++RI  +  G  + H   + + N+ M +P           
Sbjct: 310 LVPLCVKKSFLYSTMFYGGYSKRISPLANGVNVLHLKPETMMNMEMLVPTEEIMEQYDIL 369

Query: 174 IIAETVRIDTLITERIRFIELLKEKKQALVS 204
                 +I+TL  +     E  +     L+S
Sbjct: 370 FDIYQKKIETLQKQCDIATEARERLLPKLMS 400


>gi|119357508|ref|YP_912152.1| restriction modification system DNA specificity subunit [Chlorobium
           phaeobacteroides DSM 266]
 gi|119354857|gb|ABL65728.1| restriction modification system DNA specificity domain [Chlorobium
           phaeobacteroides DSM 266]
          Length = 414

 Score =  106 bits (263), Expect = 1e-20,   Method: Composition-based stats.
 Identities = 52/397 (13%), Positives = 115/397 (28%), Gaps = 32/397 (8%)

Query: 30  IKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           I    ++ TG+T  S      G D  ++   D++  +    P+   S +       +   
Sbjct: 38  IGDLGRVLTGKTPPSVRPELFGDDHPFLTPTDIDGASRYIEPERFLSPEGRNYQQRLMLP 97

Query: 84  G-QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           G  +    +G  + K  +       + Q   +   +   +    + L   +   ++A   
Sbjct: 98  GRSVCVVCIGATIGKVCMTGRPSFTNQQINSVVVNEQEHDPFFVYHLMTTLRDELKANAG 157

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           G+     +      I + +PPL  Q  I   +      I+              E  +++
Sbjct: 158 GSATPIINKTAFSEIKVRVPPLPVQRRIAGILSTYDELIENSQRRIKILE----EMARSV 213

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
                     P  +        +G +P  WE      ++      +    +    ++   
Sbjct: 214 YREWFVHFRFPGHENVSLVSSSLGAIPQGWEAGRLDDVLVLQRGFDLPKAKRMEGTVPIY 273

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
                            +     V    +V        D   +      +   + ++  A
Sbjct: 274 AATG----------VTGFHCEAKVKAPCVVTGRSGTIGDVIYV----QEDFWPLNTSLWA 319

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
                 +  Y  +++ S  L +           +L   D+  L VL+PP   Q     + 
Sbjct: 320 KGFPKSEPLYAYYVLSSVGLKQF---NSGAAVPTLNRNDLHGLDVLIPPCVLQKRFQKIA 376

Query: 383 NVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
                +   L    E  I  L+  R   +   ++GQ+
Sbjct: 377 GAMLLQTRNL----ELQIQNLRRTRDLLLPRLLSGQV 409



 Score = 42.9 bits (99), Expect = 0.093,   Method: Composition-based stats.
 Identities = 30/195 (15%), Positives = 56/195 (28%), Gaps = 16/195 (8%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +GAIP+ W+   +     L  G      K +          GT       G +     + 
Sbjct: 236 LGAIPQGWEAGRLDDVLVLQRGFDLPKAKRM---------EGTVPIYAATGVTGFHCEAK 286

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
                   ++ G+ G       + +     +T           P      L S+ + Q  
Sbjct: 287 ---VKAPCVVTGRSGTIGDVIYVQEDFWPLNTSLWAKGFPKSEPLYAYYVLSSVGLKQ-- 341

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
                GA +   +   +  + + IPP   Q   ++   A  ++   L  +          
Sbjct: 342 --FNSGAAVPTLNRNDLHGLDVLIPPCVLQKRFQKIAGAMLLQTRNLELQIQNLRRTRDL 399

Query: 198 KKQALVSYIVTKGLN 212
               L+S  V    N
Sbjct: 400 LLPRLLSGQVNPKEN 414


>gi|2865244|gb|AAC15898.1| type IC specificity subunit [Lactococcus lactis]
          Length = 405

 Score =  106 bits (263), Expect = 1e-20,   Method: Composition-based stats.
 Identities = 75/401 (18%), Positives = 149/401 (37%), Gaps = 26/401 (6%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W+        K    ++SE   ++ Y   + +     K  P + N +     T ++  K
Sbjct: 17  DWEERKFGEVWK----KSSERNLNLEYSPKQVLSVAQMKLNPSNRNEQDDYMKTYNVLHK 72

Query: 84  GQILY----GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI-- 137
           G I +     K   + R  +    DGI S  F V +P   +        ++ +   +   
Sbjct: 73  GDIAFEGNKSKSFAFGRFVLDDLQDGIVSHVFYVYRPICKMDTDFMIVYINNESVMKYLL 132

Query: 138 -EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
            +A  +   M+  + K I    + +P L EQ  I         ++D  I    R ++LLK
Sbjct: 133 VKATTKTLMMTTLNTKDIVKPKLNLPSLEEQQKIGSF----FKQLDATIALHQRKLDLLK 188

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
           E+K+     +  K      +++ +G        +  ++    +           L+E   
Sbjct: 189 EQKKGYFQKMFPKNGAKVPELRFAG---FADDWEDRKLGELASFSKGNGYTKNDLVEFGD 245

Query: 257 LSLSYGNIIQKLETRNMGL-KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
             + YG +  K ET    +    + +   I+  G  V      ++ +   R++ V + GI
Sbjct: 246 PIILYGRLYTKYETVIEKVDTFVNKKDKSIISGGSEVIVPASGESSEDISRASVVGKSGI 305

Query: 316 I--TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPI 372
           I      +    + IDS +LA  + +    K       G     L   D+K++ +L P +
Sbjct: 306 ILGGDLNIIKPVNYIDSIFLALTISNGSQQKEMSKRAQGKSVVHLHNSDLKQVNILYPKL 365

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            EQ  I +       ++D  +   ++ +  LKE++  F+  
Sbjct: 366 GEQQKIGSF----FKQLDNTIVLHQRKLDFLKEQKKGFLQK 402


>gi|163847375|ref|YP_001635419.1| restriction modification system DNA specificity subunit
           [Chloroflexus aurantiacus J-10-fl]
 gi|163668664|gb|ABY35030.1| restriction modification system DNA specificity domain
           [Chloroflexus aurantiacus J-10-fl]
          Length = 438

 Score =  106 bits (263), Expect = 1e-20,   Method: Composition-based stats.
 Identities = 65/433 (15%), Positives = 135/433 (31%), Gaps = 37/433 (8%)

Query: 25  WKVVPIKRFTKLNTG--RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           W  V +     +N      +     I YI +  V  GT    P   +  ++ +    +  
Sbjct: 5   WGTVRLGDVATINPDAIGANWPFLHIRYIDISSVGEGTIIEKPSQISLSEAPSRAKRLIR 64

Query: 83  KGQILYGKLGPYLRKAII---ADFDGICSTQFLVLQPKDVLPELLQGWLLSID--VTQRI 137
           +G  +   + P  R        + D + ST F VL+PK  +      +    D   T  +
Sbjct: 65  EGDTVLSMVRPNRRSRFFVTTFEPDLVVSTGFAVLRPKPKVIHPRYLYACVFDRAFTDYL 124

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
            +  +GA       + I +  +P PPL EQ  I   +     +I+          ++ + 
Sbjct: 125 VSREKGAAYPAVLSEDIADAKIPFPPLPEQRAIAHILGTLDDKIELNRRMSETLEQMARA 184

Query: 198 KKQALVSYIVT---------------KGLNPDVKMKDSG---IEWVGLVPDHWEVKPFFA 239
             +A                       GL                +G +P+ W V     
Sbjct: 185 LFKAWFVDFEPVRAKIECRWQRGQSLPGLPAHFYDLFPERLVDSELGEIPEGWGVGRLSE 244

Query: 240 LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQ 299
           L+     +  +  E     L   N+  +       +    + +      G+ +   I   
Sbjct: 245 LIELNPPRVLRKGEVA-PYLDMANMPTRGHV-PGDVVDRPFGSGTRFINGDTLLARITPC 302

Query: 300 NDKRSLRSAQVMERGII---TSAYMAVKPHGIDSTYLAWLM-RSYDLCK--VFYAMGSGL 353
            +         +  G +   ++ Y+ ++P        A+ + RS +     +    G+  
Sbjct: 303 LENGKTAFVDFLRNGQVGWGSTEYIVLRPREPLPAEFAYCLARSENFRDFAIQNMTGTSG 362

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           RQ ++ E +    ++ PP          +    AR      +       L   R + +  
Sbjct: 363 RQRVQTEAIAHYLLVAPPAPVAEAFGRTVKQLFARA----TRASCESRTLAALRDALLPK 418

Query: 414 AVTGQIDLRGESQ 426
            + G+I ++   +
Sbjct: 419 LIRGEIRVKDAEK 431



 Score = 55.6 bits (132), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 36/140 (25%), Positives = 57/140 (40%), Gaps = 15/140 (10%)

Query: 12  DSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSR 71
           DS    +G IP+ W V  +    +LN  R    G+   Y+ + ++   T  ++P D   R
Sbjct: 227 DSE---LGEIPEGWGVGRLSELIELNPPRVLRKGEVAPYLDMANM--PTRGHVPGDVVDR 281

Query: 72  QSDTSTVSIFAKGQILYGKLGPYL--RKAIIADF-----DGICSTQFLVLQPKDVLP-EL 123
              + T  I   G  L  ++ P L   K    DF      G  ST+++VL+P++ LP E 
Sbjct: 282 PFGSGTRFI--NGDTLLARITPCLENGKTAFVDFLRNGQVGWGSTEYIVLRPREPLPAEF 339

Query: 124 LQGWLLSIDVTQRIEAICEG 143
                 S +          G
Sbjct: 340 AYCLARSENFRDFAIQNMTG 359


>gi|210630771|ref|ZP_03296595.1| hypothetical protein COLSTE_00480 [Collinsella stercoris DSM 13279]
 gi|210160367|gb|EEA91338.1| hypothetical protein COLSTE_00480 [Collinsella stercoris DSM 13279]
          Length = 414

 Score =  106 bits (263), Expect = 1e-20,   Method: Composition-based stats.
 Identities = 52/405 (12%), Positives = 119/405 (29%), Gaps = 28/405 (6%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIY-IGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           W+   +         +   +  D+   I  +        Y          D S   +   
Sbjct: 19  WEQRKLGEVAHRVIRKNEGNQSDLPLTISAQHGLVDQRDYFNN--QVASRDMSGYYLLEN 76

Query: 84  GQILYGKL----GPYLRKAIIADF-DGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           G+  Y K      P+     +  +  G  ST ++        P+ L  +  +      ++
Sbjct: 77  GEFAYNKSTSGDSPWGAIKRLTKYEKGCLSTLYICFGLDQGDPDFLVTYYETNRWHGAVQ 136

Query: 139 AIC-EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
            I  EGA           +       L      +++I     ++ +LIT   R  + L  
Sbjct: 137 MIAAEGARNHGLLNIAPDDFFETALTLPCLTEEQKQIGCFFTQLVSLITLHQRKYDKLCA 196

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
            K++++  +  K      +++  G        D WE +   ++    +            
Sbjct: 197 VKKSMLDKMFPKPGETKPEIRFDG------FTDPWEQRKLGSVAASFDYGLNAAATEYDG 250

Query: 258 SLSYGNIIQKLETRNMGLKPE--------SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
              Y  I    +T +  LK +        +     +++ G+++F        K  L    
Sbjct: 251 QNKYLRITDIDDTTHEFLKSDLTTPLADLAMSADYLLEEGDLLFARTGASVGKTYLYRQY 310

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVL 368
                       A      D  ++     +    K          +  +  ++     ++
Sbjct: 311 DGTVYFAGFLIRARIGESADPEFVYQATLTDAYKKYVAITSQRSGQPGVNAQEYADYQLM 370

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           +P   EQ  I   +      +D  +   ++ + LL+  + S +  
Sbjct: 371 LPSRTEQQQIGMTL----RSLDNFITLHQRKLNLLRNTKKSLLDK 411


>gi|153815629|ref|ZP_01968297.1| hypothetical protein RUMTOR_01865 [Ruminococcus torques ATCC 27756]
 gi|145847060|gb|EDK23978.1| hypothetical protein RUMTOR_01865 [Ruminococcus torques ATCC 27756]
          Length = 380

 Score =  106 bits (263), Expect = 1e-20,   Method: Composition-based stats.
 Identities = 58/393 (14%), Positives = 114/393 (29%), Gaps = 24/393 (6%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
           VP+ +F K  + R  +  +DI    + + +    +Y  K+      D +T  I  +G   
Sbjct: 6   VPLGKFIKEYSERN-KGNEDIPVYSVTNSQGFCTEYFGKE--VASQDKTTYKIVPQGYFA 62

Query: 88  YGKLGPYLRKAII--ADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV-TQRIEAICEGA 144
           Y      +        +   I S  + V    + +      + L  D+  Q I+A   G+
Sbjct: 63  YNPSRINVGSVDWQRYEKRVIVSPLYNVFSVSEGIDRQYLYYFLRSDLGRQMIKAKASGS 122

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
              +     +  + +P   + +Q      +      I     E  +  E        + +
Sbjct: 123 VRDNLKLDMLKEMTIPDISVEQQKFCSSVLDKLHKLIQMRQQELQKLDEF-------IKA 175

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
             V    +     K   +     +      K   A           L   N+    +   
Sbjct: 176 RFVEMFGDVIHNSKKWQVCLFAEITSSRLGKMLDAKQQTGRNSYPYLANFNVQWFRF--- 232

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
              LE  N     E       +  G+++              +             +   
Sbjct: 233 --NLENLNKMDFDEKDRAEFELREGDLLVCEGGEIGRCAVWHNELQPCFFQKALHRVRCN 290

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSG--LRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
              I   YLAW  R       F A+         L    +K+L V VPP++ Q      +
Sbjct: 291 HQIILPDYLAWWFRYNCDYGGFSALAGAKATIAHLPGAKLKQLQVAVPPMELQEQFAVFV 350

Query: 383 NVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
               A+ D     +++++   +    S +    
Sbjct: 351 ----AQTDKSKVAVQKALDEAQLLFDSLMQEYF 379


>gi|60680614|ref|YP_210758.1| putative modification protein of type I restriction-modification
           system [Bacteroides fragilis NCTC 9343]
 gi|60492048|emb|CAH06810.1| putative modification protein of type I restriction-modification
           system [Bacteroides fragilis NCTC 9343]
          Length = 394

 Score =  106 bits (263), Expect = 1e-20,   Method: Composition-based stats.
 Identities = 52/425 (12%), Positives = 121/425 (28%), Gaps = 48/425 (11%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKR-FTKLNTGRTSESG------KDIIYIGLEDVESGTG 61
           ++K +    +  IP+ W +          + G T   G        I +I   ++     
Sbjct: 5   KFKQTE---LCRIPEDWDIGTFADFLITFSAGATPYRGIPDNFVGTIPWISSGELNYCEI 61

Query: 62  KYLPKDGNSRQSDTSTVSIFAKGQILYGKLG----PYLRKAIIADFDGICSTQFLVLQPK 117
           +   +  +S     + +++   G  L    G        +          +   L +   
Sbjct: 62  ENTREHISSDAQKNTHLTLHKPGTFLIAITGLEAAGTRGRCAFVKTPATTNQSCLAINST 121

Query: 118 DVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
           D +      W              +G+       + +  +P+  P   EQ  I E +   
Sbjct: 122 DKMTVKYLFWFYRQWSDFLAFNFSQGSKQQSFTAEIVKRLPLYAPKYKEQEKIAEALSDV 181

Query: 178 TVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPF 237
              I          ++ L EKK+A++   + + L    ++             H      
Sbjct: 182 DKLIRE--------LDTLIEKKRAVMQGTMQELLTAHRRL---------PGFVHPWRNTL 224

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID 297
                ++    +   +     +    I      R+                 +       
Sbjct: 225 VEKCCKITTGESNTRDQIESGIYPFYIRSATVMRSNSYIF------------DCEGVITI 272

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSL 357
                  +      +  +    Y+      ID  +  +L   +   +V          S+
Sbjct: 273 GDGQIGKVFHYVNGKFDLHQRCYLMYDFDDIDVKFFYFLFSFFFYNRVIALSAKATVDSV 332

Query: 358 KFEDVKRLPVLVPP-IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           +   + ++ + +P  ++EQ  I N+++      +  +E IE         R   +   +T
Sbjct: 333 RRNMIAKMKINIPSTMQEQKAIANILSDM----NDGIEAIEAKRDKYIAVRQGMMQQLLT 388

Query: 417 GQIDL 421
           G+I L
Sbjct: 389 GKIRL 393



 Score = 64.0 bits (154), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 34/210 (16%), Positives = 64/210 (30%), Gaps = 14/210 (6%)

Query: 224 WVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKP------ 277
            +  +P+ W++  F   +   +   T         +     I   E     ++       
Sbjct: 10  ELCRIPEDWDIGTFADFLITFSAGATPYRGIPDNFVGTIPWISSGELNYCEIENTREHIS 69

Query: 278 ---ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
              +      +  PG  +     L+      R A V        + +A+      +    
Sbjct: 70  SDAQKNTHLTLHKPGTFLIAITGLEAAGTRGRCAFVKTPATTNQSCLAINSTDKMTVKYL 129

Query: 335 WLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
           +         + +    G  +QS   E VKRLP+  P  KEQ  I   ++     I  L 
Sbjct: 130 FWFYRQWSDFLAFNFSQGSKQQSFTAEIVKRLPLYAPKYKEQEKIAEALSDVDKLIRELD 189

Query: 394 EKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
             IE+   ++       +   +T    L G
Sbjct: 190 TLIEKKRAVM----QGTMQELLTAHRRLPG 215


>gi|238810328|dbj|BAH70118.1| hypothetical protein [Mycoplasma fermentans PG18]
          Length = 403

 Score =  106 bits (263), Expect = 1e-20,   Method: Composition-based stats.
 Identities = 47/391 (12%), Positives = 116/391 (29%), Gaps = 26/391 (6%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSE------SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           P  ++ V +   + +  G +        S +   +I + D+E G            +  +
Sbjct: 13  PDGYEWVTLGEISSIRRGASPRPISSFLSKEGYPWIKIGDIEEGKIYLKKTKQFINEKGS 72

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV-T 134
               +  KG ++      + +  I      I     L+   +  +      +    +   
Sbjct: 73  KKSVVVDKGDLILSNSMSFGKPVIADIKGCIHDGWLLIANFEKNVTSKFLYYWFLSNYSQ 132

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
                     T+S+ + + +  + +P+ PL  Q  I E +          I E     EL
Sbjct: 133 SFFLQQSSPGTISNLNSEILKKLKIPLIPLKIQEKIVEILERF------RILEAELKAEL 186

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
               KQ          L      K   ++ +  +   +  K F  +      K +     
Sbjct: 187 EARGKQ------FDFTLTKIFNFKQYKLKKLWEI--TFWDKNFQEVEKFKQSKTSNFKYL 238

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
               +   N  +         K E+ +        +I    + L              + 
Sbjct: 239 FYKEIENYNDPKGDVKIITTGKEENLKINSKNYKKDIYSGEVLLIPGGGEANIKYHKGKF 298

Query: 315 IITSAYMAVKPHGID---STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
           +     +    +  +        + + + DL +  +    G  +    +++  L + +PP
Sbjct: 299 VTGDNRIGQVLNKNEVATKFLYYYFLLNLDLIRKNFR--GGSIKHPFMKNILELNIPIPP 356

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVL 402
           ++ Q  I ++++  +     +   +   I L
Sbjct: 357 LETQNKIVSILDKLSEYSQEINLGLPAEIEL 387


>gi|323136163|ref|ZP_08071245.1| restriction modification system DNA specificity domain
           [Methylocystis sp. ATCC 49242]
 gi|322398237|gb|EFY00757.1| restriction modification system DNA specificity domain
           [Methylocystis sp. ATCC 49242]
          Length = 482

 Score =  106 bits (263), Expect = 1e-20,   Method: Composition-based stats.
 Identities = 66/441 (14%), Positives = 138/441 (31%), Gaps = 42/441 (9%)

Query: 20  AIPKHWKVVPIKRFT---------KLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDG-N 69
            +P+ W  +P+++                +  +   ++  I L DV     +   +    
Sbjct: 3   DLPQGWIEIPLEKLAGPEGLVTDGDWVESKDQDPNGEVRLIQLADVGVNEFRDRSERFLT 62

Query: 70  SRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDG-----ICSTQFLVLQPKDVLPELL 124
           S ++     S   KG +L  ++   + +A +    G     +             +P  L
Sbjct: 63  SDKALELRCSFLEKGDVLIARMPDPIGRACVFPGLGQSAVTVVDVMLWRSDSALSIPAWL 122

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
              + S DV   I     G T        +  + +P PPLAEQ  I  K+ A        
Sbjct: 123 AFIMNSPDVRASILTETSGTTRQRISGGRLKALNIPTPPLAEQRRIVVKLNALDASSKRA 182

Query: 185 ITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSG------IEWVG--------LVPD 230
             +  R   L+   KQA+++   +  L  D ++ +S       ++ +G         +P 
Sbjct: 183 RADLDRIPALVARAKQAILAKAFSGELTADWRLHNSEKSVSALLDEIGVDAISSSVPLPR 242

Query: 231 HWEVKPFFALVTELNR------KNTKLIESNILSLSYGNIIQK---LETRNMGLKPESYE 281
            W       +            ++  +       L   N+ +    L+     L      
Sbjct: 243 GWAWVLAGEICEVKGGLALGKKRSQDVELVEKPYLRVANVQRGWLTLDQIKTVLVTPDEA 302

Query: 282 TYQIVDPGEIVFR-FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY 340
               +  G+I+     D     R       +   I  +    ++            + + 
Sbjct: 303 RSLELKAGDILMNEGGDRDKLGRGWVWEGQIAGCIHQNHVFRLRLRSGKIEPKFISIYAN 362

Query: 341 DL-CKVF--YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
                 F      +    S+    ++ LP+ +    E  +I + I    A+ID +  +  
Sbjct: 363 AFGQDYFLDQGKQTTNLASISMSKIRALPLPLASPDEMCEIFHRIESAFAKIDRIAAEAA 422

Query: 398 QSIVLLKERRSSFIAAAVTGQ 418
            +  LL     + ++ A  G+
Sbjct: 423 SASKLLDRLDQALLSKAFRGE 443


>gi|73661361|ref|YP_300142.1| restriction endonuclease S subunit [Staphylococcus saprophyticus
           subsp. saprophyticus ATCC 15305]
 gi|72493876|dbj|BAE17197.1| putative restriction endonuclease S subunit [Staphylococcus
           saprophyticus subsp. saprophyticus ATCC 15305]
          Length = 411

 Score =  106 bits (263), Expect = 1e-20,   Method: Composition-based stats.
 Identities = 59/401 (14%), Positives = 124/401 (30%), Gaps = 22/401 (5%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            WK   +K   +   G + E  K++  + +   +    +          +  S  +   K
Sbjct: 19  EWKKKRLKDIVEPLKGNSGE-NKNLPVLTISAKKGWLNQKERFSQVIAGNSLSKYNELKK 77

Query: 84  GQILYGKLGP----YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV-----T 134
           G + Y K       Y     +   + +    +   +PK               +      
Sbjct: 78  GDLSYNKGNSKVALYGIVYKLGFDNALVPNVYKSFRPKPNNVSDFLEKYFHTKILDRQLR 137

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           + I +      + +       N+ + IP   EQ  I +       ++D  I    + +  
Sbjct: 138 RVITSTARMDGLLNISDYDFYNMSLNIPVNNEQKKIGDF----FSKLDQQIELEEKKLAK 193

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
           L+E+K+  +  I ++ L    +  +   EW     +   +              +K    
Sbjct: 194 LEEQKKGYMQKIFSQELRFKDENGNDYPEW--EEINLGSLYKKGKAGGTPKSTESKYYNG 251

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
            +  LS  +I ++ +  N   K  + E         +    I+          +      
Sbjct: 252 KVPFLSISDITKQGKFLNTTEKKITQEGLDNSTAWLVPVNSINYAMYASVGYLSINKIEV 311

Query: 315 IITSAYMAVKPHGID-STYLAWLMRSYDLCKVFYA-MGSGLRQSLKFEDVKRLPVLVPPI 372
             + A   +     +   YL + +       V    MG+G + +L    +K + V VP  
Sbjct: 312 ATSQAIFNMVFEDYNLVEYLYYYLNYIRDKGVLEKLMGTGTQSNLSASIMKNITVKVPSK 371

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            E    +  +       D L+E     + LLKER+   +  
Sbjct: 372 NEIIKTSKFLGNV----DELIETQSSKVELLKERKEGLLQK 408



 Score = 76.4 bits (186), Expect = 8e-12,   Method: Composition-based stats.
 Identities = 20/168 (11%), Positives = 65/168 (38%), Gaps = 10/168 (5%)

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
             + + E  +  +   S   Y  +  G++ +   + +     +      +  ++ + Y +
Sbjct: 52  GWLNQKERFSQVIAGNSLSKYNELKKGDLSYNKGNSKVALYGIVYKLGFDNALVPNVYKS 111

Query: 323 VKPHGID-STYLAWLMRSYDLCKVFYAMGSGLRQ-----SLKFEDVKRLPVLVPPIKEQF 376
            +P   + S +L     +  L +    + +   +     ++   D   + + +P   EQ 
Sbjct: 112 FRPKPNNVSDFLEKYFHTKILDRQLRRVITSTARMDGLLNISDYDFYNMSLNIPVNNEQK 171

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGE 424
            I +      +++D  +E  E+ +  L+E++  ++    + ++  + E
Sbjct: 172 KIGDF----FSKLDQQIELEEKKLAKLEEQKKGYMQKIFSQELRFKDE 215


>gi|315169212|gb|EFU13229.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX1341]
          Length = 411

 Score =  105 bits (262), Expect = 1e-20,   Method: Composition-based stats.
 Identities = 64/399 (16%), Positives = 129/399 (32%), Gaps = 18/399 (4%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + W+   +          T+ S   +  +  ED+ +G G+       S++ D      F 
Sbjct: 18  EDWEQRKLIDLVVRLNKSTNSSR--LPKLEFEDIVAGEGRL--NKDVSQKFDNRKGIEFL 73

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
              ILYGKL PYL+  + A F G+    F V + K+   + +   + +    +       
Sbjct: 74  PNDILYGKLRPYLKNWLKATFTGVALGDFWVFRVKNSDSDFIYSLIQADRYQKAANDTSG 133

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ-A 201
                    K  G +      L EQ  I          I     +  +   L     Q  
Sbjct: 134 TKMPRSDWKKVSGTVFYVPNDLKEQQKIGTLFKQIDDAITLHQRKLDQLKNLKNAFLQLM 193

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
            VS        P ++  +   EW                     +      ++  L+LS 
Sbjct: 194 FVSNSPENSTVPKLRFANFTEEWELCGFFDTIENTIDFRGRTPKKLGLDWSDNGYLALSA 253

Query: 262 GNIIQKLETRNMGLK------PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
            N+       N+          + + + + +  G+++F       +   +          
Sbjct: 254 LNVKHGYIDSNIDAHYGNQELYDKWMSGKELRKGQVLFTTEAPMGNVAQI-PDNTGYILS 312

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA-MGSGLRQSLKFEDVKRLPVLVP-PIK 373
             +     K + I   +LA L+ S  +     +    G  + +  + + +L V +P  I 
Sbjct: 313 QRTIAFETKKNRITDDFLAVLLGSPKIFNELSSLSSGGTAKGISQKSLSQLRVQIPCSIS 372

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           EQ +I         +++  +   +  +  LKE + S++ 
Sbjct: 373 EQKEIGIF----FKQLNETITLHQNKLDQLKELKKSYLQ 407


>gi|71065438|ref|YP_264165.1| type I restriction modification system methylase [Psychrobacter
           arcticus 273-4]
 gi|71038423|gb|AAZ18731.1| probable type I restriction modification system methylase
           [Psychrobacter arcticus 273-4]
          Length = 424

 Score =  105 bits (262), Expect = 1e-20,   Method: Composition-based stats.
 Identities = 51/423 (12%), Positives = 115/423 (27%), Gaps = 27/423 (6%)

Query: 23  KHWKVVPIKRFTKLNTGRTSE---SGKDIIYIGLEDVESG--TGKYLPKDGNSRQSDTST 77
             W    +    ++   R      S      + + DV  G    +   K  +    D S 
Sbjct: 3   SDWNEDILSNIAEIIDSRHKTPVYSDSGYPMVRVVDVNGGALNLESTKKVSDDIYEDFSR 62

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
                 G ++  ++G Y   + +   +  C  Q        +    L   L+S  V  +I
Sbjct: 63  GRDPQIGDLVISRVGSYGVVSYVNSNEKFCLGQNTAFIIPKINSRFLYYQLISPFVKWQI 122

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           E    GA       K I    + +PP+ EQ  I   + +   +I+           + + 
Sbjct: 123 EQFVVGAVQKTISLKSIRQFQIKLPPVTEQKAIAHILGSLDDKIELNRQMNETLEAMAQA 182

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
             ++          N          E++       +++   +   +    +       + 
Sbjct: 183 LFKSWFVDFDPVIDNALAAGNAIPDEFIERAEQRKKIERKESSDIQGLFPDEFEFTEEMG 242

Query: 258 SLSYGNII----QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
            +  G             N    P+       V          D  N   ++   +V   
Sbjct: 243 WIPKGWNSGTLGDFAILGNGKTSPDRAVGDIPVFGSNGKIGDCDESNRDNTIIIGRVGSY 302

Query: 314 GIITSAYMAVKP--------HGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRL 365
                 Y                +  +  +L +      +        +  L    ++ +
Sbjct: 303 CGSLQYYPFKCWITDNAMSAEMKNKDHNIYLFQLLSRDNLNDRRTGSGQPLLNQSILRSI 362

Query: 366 PVLVPP---IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
             + P    I E   I N            + K  ++   L + R + +   ++G++ + 
Sbjct: 363 KTITPSVPLIDEYSRIAN-------SFYKKINKANRNNAALAKLRDTLLPKLMSGELRIA 415

Query: 423 GES 425
             +
Sbjct: 416 DAA 418



 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 29/186 (15%), Positives = 52/186 (27%), Gaps = 18/186 (9%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           G IPK W    +  F  L  G+TS            D   G       +G     D S  
Sbjct: 242 GWIPKGWNSGTLGDFAILGNGKTSP-----------DRAVGDIPVFGSNGKIGDCDESN- 289

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
                  I+ G++G Y        F    +   +  + K    +    +L  +     + 
Sbjct: 290 ---RDNTIIIGRVGSYCGSLQYYPFKCWITDNAMSAEMK---NKDHNIYLFQLLSRDNLN 343

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
               G+     +   + +I    P +           +   +I+          +L    
Sbjct: 344 DRRTGSGQPLLNQSILRSIKTITPSVPLIDEYSRIANSFYKKINKANRNNAALAKLRDTL 403

Query: 199 KQALVS 204
              L+S
Sbjct: 404 LPKLMS 409


>gi|28199935|ref|NP_780249.1| type I restriction-modification system specificity determinant
           [Xylella fastidiosa Temecula1]
 gi|182682689|ref|YP_001830849.1| restriction modification system DNA specificity subunit [Xylella
           fastidiosa M23]
 gi|28058066|gb|AAO29898.1| type I restriction-modification system specificity determinant
           [Xylella fastidiosa Temecula1]
 gi|182632799|gb|ACB93575.1| restriction modification system DNA specificity domain [Xylella
           fastidiosa M23]
 gi|307578972|gb|ADN62941.1| restriction modification system DNA specificity subunit [Xylella
           fastidiosa subsp. fastidiosa GB514]
          Length = 405

 Score =  105 bits (262), Expect = 1e-20,   Method: Composition-based stats.
 Identities = 66/413 (15%), Positives = 132/413 (31%), Gaps = 39/413 (9%)

Query: 22  PKHWKVVPIKRFTKLNTGRT--SESGKDIIYIGLEDVESGT-GKYLPKDGNSRQSDTSTV 78
           P+    + +    +  +        G++  YI L  V+  T      K  NS  + +   
Sbjct: 13  PEGVGFMRVGELLERTSNIRWQDTQGEEFQYIDLSSVDRNTHIIRGTKTINSGTAPSRAQ 72

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDG---ICSTQFLVLQPKDVL--PELLQGWLLSIDV 133
            I  +  +++G   P L++  +   +    I ST + V +PK+ L  P  L   L +   
Sbjct: 73  QIVRENDVIFGTTRPMLKRYCLIPSEYDGQISSTGYCVFRPKNELLLPNFLFHLLGTKAF 132

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
              +EA   GA+      + +    +P  P+  Q  I + +   T     L  E      
Sbjct: 133 YSYVEANQNGASYPVITDEAVKAFRIPRLPVEVQAEIAKVLDTFTTLEAELEAELETRRR 192

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
             +  + AL++                     G   D      +  L       NT++  
Sbjct: 193 QYQYYRDALLT--------------------FGEGTDAATRVRWVTLGEIATYANTRIQS 232

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIV---DPGEIVFRFIDLQNDKRSLRSAQV 310
             + + SY  +   L      ++     T   V      +I+   I     K  L  +  
Sbjct: 233 VGLDASSYVGVDNLLPDTRGKVRSNFVPTSGTVIGYQANDILIGNIRPYLKKIWLAHSTG 292

Query: 311 MERGIITSAYMAVKPHGID-STYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVL 368
                +    +  +   +    YL +L+ S D          G          + +  + 
Sbjct: 293 GTNQDVLVIRIKDEAKAMLKPRYLYYLLASDDFFTYDSQHAKGAKMPRGDKTMIMKYKIP 352

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA--AAV 415
           +PP++ Q  I  V++     ++ +   +   I   ++     R   +    AV
Sbjct: 353 IPPLEVQARIVAVLDQFDTLVNDITAGLPAEIAARRQQYAYYRDRLLTFKEAV 405


>gi|327490535|gb|EGF22316.1| hypothetical protein HMPREF9395_0052 [Streptococcus sanguinis
           SK1058]
 gi|332362947|gb|EGJ40736.1| hypothetical protein HMPREF9380_0601 [Streptococcus sanguinis SK49]
          Length = 411

 Score =  105 bits (262), Expect = 1e-20,   Method: Composition-based stats.
 Identities = 52/417 (12%), Positives = 118/417 (28%), Gaps = 37/417 (8%)

Query: 30  IKRFTKLNTGRTSES-------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS-TVSIF 81
           +       TG             +    + +E +      +      S       +  I 
Sbjct: 6   LGDIAISQTGPFGSQLHEEDYVSEGTPIVTVEHLGDTNFTHQNLPFVSEADTKRLSKYIL 65

Query: 82  AKGQILYGKLGPYLRKAIIADFD--GICSTQFLVLQ--PKDVLPELLQGWLLSIDVTQRI 137
            +G I++ ++G   R   +       + S + + ++     V P  L  +       + +
Sbjct: 66  IEGDIVFSRVGSIDRNVYVDKNHEGWMFSGRCIRVRADKNKVNPRYLSYYFKQNSFKKMM 125

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
             +  GATM   + K + +I + + P   Q  I   + A   +I            + K 
Sbjct: 126 MNLAVGATMPSLNTKIMNSIELDLLPRENQDKIANILSAIDDKIQINNQINQELEAMAKT 185

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGI-----EWVGLVPDHWEVKPFFALVT----ELNRKN 248
                         N       SG      E    +P+ W V     +V          N
Sbjct: 186 LYDYWFVQFDFPDQNGKPYKSSSGKMVYNPELKREIPEGWGVTKLNEVVDLISGYPFSSN 245

Query: 249 TKLIESNILSLSYGNIIQKLETRNMG----LKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
             +        +  N+        +       P +      +  G+++            
Sbjct: 246 DYVTSGKYKLYTIKNVQDGYTVDKVDNYLDFLPSNMSDECQLRRGDLIMSLTGNVGRVGM 305

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVK 363
           +    V+   +          +    +++    RS         M +G  +++L   D+ 
Sbjct: 306 VCEDDVL---LNQRVLKLNPINKTHKSFIYSFFRSDVTKAHLENMSTGTSQKNLSPIDIG 362

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQID 420
            + +  P       ++  ++      + LVE  +     L + R   +   + GQ+ 
Sbjct: 363 NMMIPFPSESL---LSKFLDNLNMLENNLVENQQ-----LTQLRDWLLPMLMNGQVK 411



 Score = 63.3 bits (152), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 27/172 (15%), Positives = 58/172 (33%), Gaps = 7/172 (4%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD-----IIYIGLEDVESG-TGKYLPKDGNSRQS 73
            IP+ W V  +     L +G    S             +++V+ G T   +    +   S
Sbjct: 220 EIPEGWGVTKLNEVVDLISGYPFSSNDYVTSGKYKLYTIKNVQDGYTVDKVDNYLDFLPS 279

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP-KDVLPELLQGWLLSID 132
           + S      +G ++    G   R  ++ + D + + + L L P        +  +  S  
Sbjct: 280 NMSDECQLRRGDLIMSLTGNVGRVGMVCEDDVLLNQRVLKLNPINKTHKSFIYSFFRSDV 339

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
               +E +  G +  +     IGN+ +P P  +      + +      +   
Sbjct: 340 TKAHLENMSTGTSQKNLSPIDIGNMMIPFPSESLLSKFLDNLNMLENNLVEN 391


>gi|168211073|ref|ZP_02636698.1| type-I specificity determinant subunit [Clostridium perfringens B
           str. ATCC 3626]
 gi|170710885|gb|EDT23067.1| type-I specificity determinant subunit [Clostridium perfringens B
           str. ATCC 3626]
          Length = 396

 Score =  105 bits (262), Expect = 1e-20,   Method: Composition-based stats.
 Identities = 62/395 (15%), Positives = 138/395 (34%), Gaps = 22/395 (5%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            WK   +  F   +T  T+E     +            +Y  ++      DT+  +I  +
Sbjct: 16  EWKDEKLGDFLMKSTDVTTEHTDIPVLTSSRRGLFLQSEYFNRE--VAAKDTTGYNILKR 73

Query: 84  GQILY---GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ--GWLLSIDVTQRIE 138
           G   Y        +          G+ S ++ V   K  L           S+  ++  +
Sbjct: 74  GYFTYRHMSDDSTFHFNINRFIDIGLVSPEYPVFTTKQDLNSYFLEQHLNSSLMFSKFCK 133

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
              +G T +   +K + N  + +P L EQ  I   +     ++D++I ++ + +E     
Sbjct: 134 MQKKGGTRTRLYFKVLENYKLKLPTLQEQEKIANFL----SKVDSIIEKQEKKVEYWSSY 189

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
           K+ ++  I  + +    +      EW     ++        +    + KN +    NI  
Sbjct: 190 KKGMMQKIFKQEIRFKDENGMDYPEWKINKIENIATI---EMGFTPSTKNDEAWNGNIDW 246

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
           LS   +  K                + + P + +     L   + ++    ++    I  
Sbjct: 247 LSIAGMNSKYIYSGNKKISSEILGKRKLVPIDTLIMSFKLTIGRLAIVKKDIVTNEAICQ 306

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
            Y   K   I + Y+   +   ++         G+  +L  E +  + V +P ++EQ  I
Sbjct: 307 FY--WKSKDISNEYMYAYLSVINIQSFGCRAAKGI--TLNTESLNSIVVKLPCLEEQTKI 362

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            N +    + ID +++K  + +  LK+ +   +  
Sbjct: 363 ANFL----SNIDNIIDKESKKLEELKQWKKGLLQQ 393



 Score = 74.4 bits (181), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 35/215 (16%), Positives = 80/215 (37%), Gaps = 16/215 (7%)

Query: 213 PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
           P ++ K    EW                + +     T+  +  +L+ S   +  + E  N
Sbjct: 6   PKLRFKGFEDEWKDE--------KLGDFLMKSTDVTTEHTDIPVLTSSRRGLFLQSEYFN 57

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI-DST 331
             +  +    Y I+  G   +R +   +        + ++ G+++  Y         +S 
Sbjct: 58  REVAAKDTTGYNILKRGYFTYRHMSDDSTFH-FNINRFIDIGLVSPEYPVFTTKQDLNSY 116

Query: 332 YLAWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
           +L   + S  +   F  M    G R  L F+ ++   + +P ++EQ  I N +    +++
Sbjct: 117 FLEQHLNSSLMFSKFCKMQKKGGTRTRLYFKVLENYKLKLPTLQEQEKIANFL----SKV 172

Query: 390 DVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGE 424
           D ++EK E+ +      +   +      +I  + E
Sbjct: 173 DSIIEKQEKKVEYWSSYKKGMMQKIFKQEIRFKDE 207


>gi|300958236|ref|ZP_07170386.1| type I restriction modification DNA specificity domain protein
           [Escherichia coli MS 175-1]
 gi|300315089|gb|EFJ64873.1| type I restriction modification DNA specificity domain protein
           [Escherichia coli MS 175-1]
          Length = 404

 Score =  105 bits (262), Expect = 1e-20,   Method: Composition-based stats.
 Identities = 54/393 (13%), Positives = 120/393 (30%), Gaps = 36/393 (9%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           + +P+   + L  GR    G      G   V S       K G+    D     I     
Sbjct: 17  EWLPLGEVSALRRGRVMSKGYLTENFGPYPVYSSQTANNGKIGSINTFDFDGEYISWTTD 76

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
                 G               +    ++  K     L+  +L      +  + +  G  
Sbjct: 77  ------GANAGTVFYRTGKFSITNVCGLITLKSKY-SLIYKFLFYWLTIEAKKHVYSGMG 129

Query: 146 MSHADWKGIGNIPMPIPP-------LAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
                   + NIP+PIP        LA Q  I   +   +     L  E     +     
Sbjct: 130 NPKLMSHQVENIPVPIPCPDNPEKSLAIQSEIVRILDTFSALTAELTAELNMRKKQYNYY 189

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
           +  L+S        P + M    I                  +     +    I++ +  
Sbjct: 190 RDQLLS--FNTEDVPHLPMGQKDI---------------GEFIRGGTFQKKDFIDAGVGC 232

Query: 259 LSYGNIIQKLETRNMGLKPESY----ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
           + YG I     T     K        +  +    G+++       ++      A +    
Sbjct: 233 IHYGQIYTYYGTYTEKTKTYISTALAKKCKKAQKGDLIIATTSENDEDVCKAVAWLGSED 292

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIK 373
           I  S+   +  H ++  Y+++  ++           +G   + +  +++ ++ + VP ++
Sbjct: 293 IAVSSDACIYKHNLNPKYVSYFFQTEQFQNQKRQYITGAKVRRVNADNLSKILIPVPSME 352

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
            Q  I ++++      + + E + + I L +++
Sbjct: 353 IQERIVSILDKFDTLTNSITEGLPREIELRQKQ 385



 Score = 46.3 bits (108), Expect = 0.010,   Method: Composition-based stats.
 Identities = 14/116 (12%), Positives = 34/116 (29%), Gaps = 7/116 (6%)

Query: 304 SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVK 363
           +        +  IT+    +      S    +L     +    +         L    V+
Sbjct: 80  AGTVFYRTGKFSITNVCGLITLKSKYSLIYKFLFYWLTIEAKKHVYSGMGNPKLMSHQVE 139

Query: 364 RLPVLVP-------PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
            +PV +P        +  Q +I  +++  +A    L  ++          R   ++
Sbjct: 140 NIPVPIPCPDNPEKSLAIQSEIVRILDTFSALTAELTAELNMRKKQYNYYRDQLLS 195


>gi|291289375|ref|YP_003517707.1| restriction modification system DNA specificity domain [Klebsiella
           pneumoniae]
 gi|290792336|gb|ADD63661.1| restriction modification system DNA specificity domain [Klebsiella
           pneumoniae]
          Length = 382

 Score =  105 bits (262), Expect = 1e-20,   Method: Composition-based stats.
 Identities = 46/376 (12%), Positives = 119/376 (31%), Gaps = 34/376 (9%)

Query: 48  IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGIC 107
             ++  ++V                   S+     K  ++    G  + K  I       
Sbjct: 5   FPWLRTQEVNFCDIWDTEVKITESGVKNSSAKWIPKNCVIVAMYGATVGKIGINKIPMTT 64

Query: 108 STQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPP---- 163
           +     +Q  + +      +         I+++  G + ++ + + + NI +PIP     
Sbjct: 65  NQACANIQLNEEVAHYRYVFHFLCSQYTYIKSLGTG-SQTNINAQIVKNIKIPIPCPDNP 123

Query: 164 ---LAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDS 220
              LA Q  I   +   T     L  E     +     +  L++             K+ 
Sbjct: 124 EKSLAIQSEIVRILDKFTALTAELTAELNMRKKQYNYYRDQLLT------------FKEG 171

Query: 221 GIEW--VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE 278
            +EW  +G + +    K F       +   + +    I    Y             ++ +
Sbjct: 172 EVEWKALGEIGEFIRGKRFTKADYVEDGGISVIHYGEI----YTRYGVYTTHSLSQVRAD 227

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
              + +    G++V   +    +      A + +  I    +     H ++  ++++ M+
Sbjct: 228 MAASLRYAKHGDVVITDVGETVEDVGKAVAWLGDDDIAIHDHCYAFRHSLNPKFISYYMQ 287

Query: 339 SYDLCKVFYAMGSGLRQS-LKFEDVKRLPVLVP-------PIKEQFDITNVINVETARID 390
           +           +  + + L      ++ + VP        +KEQ  I  +++      +
Sbjct: 288 TDSFISEKAKYVARTKVNTLLINGFSKIMIPVPYPKDHEKSLKEQARIVEILDKFDTLTN 347

Query: 391 VLVEKIEQSIVLLKER 406
            + E + + I L +++
Sbjct: 348 SITEGLPREIELRQKQ 363



 Score = 66.7 bits (161), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 14/156 (8%), Positives = 45/156 (28%), Gaps = 11/156 (7%)

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
                    +        + + +    ++         K  +    +       +  + +
Sbjct: 16  CDIWDTEVKITESGVKNSSAKWIPKNCVIVAMYGATVGKIGINKIPMTTNQACAN--IQL 73

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-------PIKEQF 376
                   Y+   + S        ++G+G + ++  + VK + + +P        +  Q 
Sbjct: 74  NEEVAHYRYVFHFLCSQYT--YIKSLGTGSQTNINAQIVKNIKIPIPCPDNPEKSLAIQS 131

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           +I  +++  TA    L  ++          R   + 
Sbjct: 132 EIVRILDKFTALTAELTAELNMRKKQYNYYRDQLLT 167



 Score = 47.5 bits (111), Expect = 0.004,   Method: Composition-based stats.
 Identities = 31/230 (13%), Positives = 72/230 (31%), Gaps = 29/230 (12%)

Query: 1   MKHYKAYPQYKDSGVQWI----GAIPKHWKVVPIKRFTKLNTGRTSES-----GKDIIYI 51
           M+  K Y  Y+D   Q +    G +    +   +    +   G+            I  I
Sbjct: 153 MRK-KQYNYYRD---QLLTFKEGEV----EWKALGEIGEFIRGKRFTKADYVEDGGISVI 204

Query: 52  GLEDVESGTGKYLPKDGNSRQSDT-STVSIFAKGQILYGKLGPY----LRKAIIADFDGI 106
              ++ +  G Y     +  ++D  +++     G ++   +G       +       D I
Sbjct: 205 HYGEIYTRYGVYTTHSLSQVRADMAASLRYAKHGDVVITDVGETVEDVGKAVAWLGDDDI 264

Query: 107 CSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPP--- 163
                       + P+ +  ++ +               ++     G   I +P+P    
Sbjct: 265 AIHDHCYAFRHSLNPKFISYYMQTDSFISEKAKYVARTKVNTLLINGFSKIMIPVPYPKD 324

Query: 164 ----LAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTK 209
               L EQ  I E +       +++     R IEL +++ +     + + 
Sbjct: 325 HEKSLKEQARIVEILDKFDTLTNSITEGLPREIELRQKQYEYYRDLLFSF 374


>gi|56808772|ref|ZP_00366488.1| COG0732: Restriction endonuclease S subunits [Streptococcus
           pyogenes M49 591]
 gi|209560055|ref|YP_002286527.1| Putative specificity determinant HsdS [Streptococcus pyogenes
           NZ131]
 gi|209541256|gb|ACI61832.1| Putative specificity determinant HsdS [Streptococcus pyogenes
           NZ131]
          Length = 380

 Score =  105 bits (262), Expect = 1e-20,   Method: Composition-based stats.
 Identities = 62/393 (15%), Positives = 122/393 (31%), Gaps = 31/393 (7%)

Query: 24  HWKVVPIKRFT-KLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            W+   +     ++ TG++S     I           TG+     G++     S    + 
Sbjct: 17  EWEEKKLGELASEIGTGKSSTLSDAI-----------TGEKYSILGSTSIIGYSKTYDYC 65

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
              IL  ++G               S           +      +L        I+ +  
Sbjct: 66  GDFILTARVGANAGNLYKYSGKVKISDN------TVFIKSDYINFLYHFLHRFDIKKLSF 119

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           G          + NI +  P L EQ  I E        +D L+  + + +  LKE+KQ  
Sbjct: 120 GTGQPLIKSSELRNILISTPSLPEQEAIGE----LFQTVDQLLQLQRQKLATLKEQKQTF 175

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
           +  +    +    +++  G +         E+   F+  T           + I  +   
Sbjct: 176 LRKMFPPQVQKVPEIRLQGFDGEWEEKKLGEISRMFSGGTPNVGIPEYYNGN-IPFIRSA 234

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
            I       ++  K  S  + ++V+   +++      + +  L        G I  A +A
Sbjct: 235 EINSDQTELSITDKGLSNSSAKLVEKNTLLYALYGATSGEVGLSRIS----GAINQAILA 290

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
           + P    S+             +      G + +L    VK L +  P + EQ  I N  
Sbjct: 291 IIPEKKYSSLFIKNWLYKQKSSIIEKYLQGGQGNLSGSIVKELTIHFPSLSEQEAIGNFF 350

Query: 383 NVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
                +ID      E+ +  LK  + + +    
Sbjct: 351 QTLDQQIDQ----SEEKLTELKALKQTLLNRLF 379


>gi|282865861|ref|ZP_06274910.1| restriction modification system DNA specificity domain protein
           [Streptomyces sp. ACTE]
 gi|282559185|gb|EFB64738.1| restriction modification system DNA specificity domain protein
           [Streptomyces sp. ACTE]
          Length = 412

 Score =  105 bits (262), Expect = 1e-20,   Method: Composition-based stats.
 Identities = 51/412 (12%), Positives = 128/412 (31%), Gaps = 30/412 (7%)

Query: 26  KVVPIKRFTKLNTGR--TSESGK---DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           + VP++   ++  G+  +  S +      Y+ + +V  G  +Y+  +             
Sbjct: 8   QWVPVRELGEVRMGKQLSPSSREAAGQFPYLRVANVHLGRIEYVDVNEMGFTPAERVTYG 67

Query: 81  FAKGQILYGKLGP---YLRKAIIA--DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
              G IL  +        R AI    + +       +  +P   +       +    +  
Sbjct: 68  LKPGDILLNEGQSLELVGRSAIYDRAEGEFCFQNTLIRFRPNGCILSAYAQVVFEHWLRS 127

Query: 136 RIEAICEGAT--MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            + A     T  ++H        +  P+ P   Q  I   + +       +    ++   
Sbjct: 128 GVFAAIAKQTTSIAHLGGDRFAALKFPLLPTGMQQRIVAVLDSLAELERRIEASIVKLRS 187

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
           + K       S    +  +P  +++   ++ +  V     +    +            + 
Sbjct: 188 VRKGIISEQFSRADVEDGSPASRLRA--LDSLADVGSGLTLGGISS------GGTLLEVP 239

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
              ++      I  LE +++ + P   E +++     +V    D     R       ++ 
Sbjct: 240 YLRVANVQDGFISTLEMKSVRVTPSDMERFRVRRDDVLVTEGGDFDKVGRGAVWDGRIDP 299

Query: 314 GIITSAYMA--VKPHGIDSTYLAWLMRSYDLCKVFYA--MGSGLRQSLKFEDVKRLPVLV 369
            +  +           +D  +L+  M S    + F      +    S+    +K +PV  
Sbjct: 300 CLNQNHVFRVRCDKEVLDPHFLSLYMSSAAGRRYFLRVVKQTTNLASINSSQLKAMPVPC 359

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           PP++EQ              D  + + E  +  L+E +   +   ++    +
Sbjct: 360 PPLEEQRRTVE----LVGSCDEQIAQEEGELTKLRELKVGLVDDLLS--RRV 405


>gi|256841218|ref|ZP_05546725.1| conserved hypothetical protein [Parabacteroides sp. D13]
 gi|256737061|gb|EEU50388.1| conserved hypothetical protein [Parabacteroides sp. D13]
          Length = 369

 Score =  105 bits (262), Expect = 1e-20,   Method: Composition-based stats.
 Identities = 68/389 (17%), Positives = 143/389 (36%), Gaps = 26/389 (6%)

Query: 27  VVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQI 86
           VV +    + +  + ++S +D+  +GLE +     ++   D N+   D +    F KGQ+
Sbjct: 3   VVKLGDVARESRLKWTKSKQDVPIVGLEHLIPDEIRFDAYDINT---DNTFSKRFVKGQV 59

Query: 87  LYGKLGPYLRKAIIADFDGICSTQFLVLQPKD--VLPELLQGWLLSIDVTQRIEAICEGA 144
           L+G+   Y RKA IA+FDGICS    V++  +  ++PELL   + +            G+
Sbjct: 60  LFGRRRAYQRKAAIAEFDGICSGDITVIEAIEGKMVPELLPFIIQTPVFFDYANRGSAGS 119

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
                 W+ + +    +PPL EQ ++ +K+             +  + +LL    + + S
Sbjct: 120 LSPRVKWEHLADYEFELPPLEEQKILADKL-------WAAYRLKEAYKKLLDATDEMVKS 172

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
             +    +P    K    + +                  L  K  ++ +   + L  GNI
Sbjct: 173 QFIEMVGDPRNNPKGWPTKRLSE---------LAEYSIGLTYKPEQICDDGTIVLRSGNI 223

Query: 265 IQ-KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
              K+   ++       +    V   +I+    +         +        +T      
Sbjct: 224 QDGKISFSDIVRVNAPIKESLFVKEDDILMCSRNGSASLVGKVAMIPDINEPMTFGAFMT 283

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
                ++ YL    +S D  +      S     +  + + ++ V  P    +      ++
Sbjct: 284 IIRSAEAKYLYLYFQSQDFRERVSEGKSSTMNQITQKMLDKVEVPFPDKDVR----ETLS 339

Query: 384 VETARIDVLVEKIEQSIVLLKERRSSFIA 412
              ++ D    ++ +SI  + +   S I 
Sbjct: 340 AIASQADKSKFELRKSIDAIDKVIKSLIN 368



 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 28/192 (14%), Positives = 67/192 (34%), Gaps = 15/192 (7%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           PK W    +    + + G T +         I +   +++ G   +      +     S 
Sbjct: 185 PKGWPTKRLSELAEYSIGLTYKPEQICDDGTIVLRSGNIQDGKISFSDIVRVNAPIKES- 243

Query: 78  VSIFAKGQILYGKLG----PYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
                +  IL            + A+I D +   +    +   +    + L  +  S D 
Sbjct: 244 -LFVKEDDILMCSRNGSASLVGKVAMIPDINEPMTFGAFMTIIRSAEAKYLYLYFQSQDF 302

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            +R+ +  + +TM+    K +  + +P P    +    E + A   + D    E  + I+
Sbjct: 303 RERV-SEGKSSTMNQITQKMLDKVEVPFPDKDVR----ETLSAIASQADKSKFELRKSID 357

Query: 194 LLKEKKQALVSY 205
            + +  ++L++ 
Sbjct: 358 AIDKVIKSLINN 369


>gi|188586601|ref|YP_001918146.1| restriction modification system DNA specificity domain
           [Natranaerobius thermophilus JW/NM-WN-LF]
 gi|179351288|gb|ACB85558.1| restriction modification system DNA specificity domain
           [Natranaerobius thermophilus JW/NM-WN-LF]
          Length = 490

 Score =  105 bits (262), Expect = 1e-20,   Method: Composition-based stats.
 Identities = 61/444 (13%), Positives = 143/444 (32%), Gaps = 46/444 (10%)

Query: 20  AIPKHWKVVPIKRFTK-LNTGRTSESGK---DIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            +P +W  V +    + +  G T +  K    I    +E +++   +             
Sbjct: 26  ELPNNWAWVALDILAEEIKNGTTIKQSKTKPGIPVTRIESIQNNEIQLDRVRYIRDLDKI 85

Query: 76  STVSIFAKGQILYGKLGPYLRKAI-------IADFDGICSTQFLVLQPKDVLPELLQGWL 128
                +  G I+   +                       +   + +    +LP+ LQ + 
Sbjct: 86  KNNDYYKIGDIVLSHINSIEHVGKTALIKEDYLPLIHGMNLLRIRVNNNMILPQFLQLYT 145

Query: 129 LSIDVTQRIEAICEG-ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
            S +  + +    +        + K +  I +PI P  EQ  I  K+     +I+     
Sbjct: 146 RSYNFRKAVLKRIKMAVNQVSLNQKNLKQISIPIAPKNEQRRIVYKVDRLLSKINKAKEL 205

Query: 188 RIRFIELLKEKKQALVSYIVTKGLN----------------PDVKMKDSGIEW----VGL 227
                E  + ++ A++       L                      K + I+     +  
Sbjct: 206 IGEAKETFELRRAAILDKAFKGELTWREENPRVESVDTLLAKINSEKKTDIKKSPNGLYE 265

Query: 228 VPDHWEVKPFFALVTELNRKNTKLIESNI---LSLSYGNIIQKLETRNMGLKPESYE--- 281
           +PD+W       L+   +   +     +I     L  GNI          LK   ++   
Sbjct: 266 LPDNWCWIDLGELICHSSYGTSAKAYKDINGLPVLRMGNIKLTGSIDLNDLKYLPFDHKD 325

Query: 282 -TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA----YMAVKPHGIDSTYLAWL 336
                ++  +++F   +           +    G  T A     +++    I + Y+ + 
Sbjct: 326 VEKYKLEEYDLLFNRTNSYELVGKSAIVEPEHAGKFTYASYLIKISLFYKKILAPYICYY 385

Query: 337 MRSYDLCKVFYAM--GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
           + S+   K   +       + ++  + +  LPV +PP +E  +I  ++   +A+ +  ++
Sbjct: 386 INSHIGRKYLLSTVKQQVGQANINSKKLSSLPVPLPPEEEIKEINRIMKKVSAK-ENRIQ 444

Query: 395 KIEQSIVLLKERRSSFIAAAVTGQ 418
            +      + E   S ++ A  G+
Sbjct: 445 NLLNLGTYVAELEQSILSKAFRGE 468



 Score = 69.8 bits (169), Expect = 7e-10,   Method: Composition-based stats.
 Identities = 37/215 (17%), Positives = 75/215 (34%), Gaps = 11/215 (5%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL------SYGNIIQKLETRNMG 274
             E    +P++W       L  E+    T         +      S  N   +L+     
Sbjct: 20  EDEEPYELPNNWAWVALDILAEEIKNGTTIKQSKTKPGIPVTRIESIQNNEIQLDRVRYI 79

Query: 275 LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY---MAVKPHGIDST 331
              +  +       G+IV   I+           +     +I       + V  + I   
Sbjct: 80  RDLDKIKNNDYYKIGDIVLSHINSIEHVGKTALIKEDYLPLIHGMNLLRIRVNNNMILPQ 139

Query: 332 YLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
           +L    RSY+  K           + SL  +++K++ + + P  EQ  I   ++   ++I
Sbjct: 140 FLQLYTRSYNFRKAVLKRIKMAVNQVSLNQKNLKQISIPIAPKNEQRRIVYKVDRLLSKI 199

Query: 390 DVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGE 424
           +   E I ++    + RR++ +  A  G++  R E
Sbjct: 200 NKAKELIGEAKETFELRRAAILDKAFKGELTWREE 234



 Score = 50.9 bits (120), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 32/228 (14%), Positives = 82/228 (35%), Gaps = 15/228 (6%)

Query: 18  IGAIPKHWKVVPIKR-FTKLNTGRTSESGKDI---IYIGLEDVE-SGTGKYLPKDGNSRQ 72
           +  +P +W  + +       + G ++++ KDI     + + +++ +G+            
Sbjct: 263 LYELPDNWCWIDLGELICHSSYGTSAKAYKDINGLPVLRMGNIKLTGSIDLNDLKYLPFD 322

Query: 73  SDTSTVSIFAKGQILYGKLGPY---LRKAIIADFDG----ICSTQFLV--LQPKDVLPEL 123
                     +  +L+ +   Y    + AI+           S    +     K + P +
Sbjct: 323 HKDVEKYKLEEYDLLFNRTNSYELVGKSAIVEPEHAGKFTYASYLIKISLFYKKILAPYI 382

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
                  I     +  + +    ++ + K + ++P+P+PP  E   I   +   + + + 
Sbjct: 383 CYYINSHIGRKYLLSTVKQQVGQANINSKKLSSLPVPLPPEEEIKEINRIMKKVSAK-EN 441

Query: 184 LITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDH 231
            I   +     + E +Q+++S      LN +    +S IE +  V   
Sbjct: 442 RIQNLLNLGTYVAELEQSILSKAFRGELNTNDPKDESAIELLKEVLKD 489


>gi|138894435|ref|YP_001124888.1| putative type I specificity subunit HsdS [Geobacillus
           thermodenitrificans NG80-2]
 gi|134265948|gb|ABO66143.1| Putative type I specificity subunit HsdS [Geobacillus
           thermodenitrificans NG80-2]
          Length = 509

 Score =  105 bits (262), Expect = 1e-20,   Method: Composition-based stats.
 Identities = 68/467 (14%), Positives = 143/467 (30%), Gaps = 75/467 (16%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKD------IIYIGLEDVESGTGKYLPKDGNSRQSD 74
           +PK+W         ++ TG T     +        ++   D++      +  +  + +  
Sbjct: 27  VPKNWVWTRTGITHEIVTGSTPSKKNNEYYGGNFPFVKPGDLDQKDSVTVASEYLTDKGK 86

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQF--LVLQPKDVLPELLQGWLLSID 132
             +  +  K   L   +G    K      +   + Q   L+   K + P+    + LS  
Sbjct: 87  EVS-RVIPKHSTLVCCIGSI-GKVGFNLVECTTNQQINSLIPNKKVIYPKYTYYFSLSSV 144

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
               +       T+S  +   +  +P  +PPL EQ  I EK+     +ID          
Sbjct: 145 YQNLLSKSSSSTTVSIINKSKMSKLPFALPPLNEQKHIAEKVDRLFAKIDEAKRLIEEVK 204

Query: 193 ELLKEKKQALVSYIVTKGLNPDVK------------------------------------ 216
           E  + ++ A++       L    +                                    
Sbjct: 205 ESFELRRAAILDKAFRGELTRSWRKKNEHLVSASLMLQEIASERKRKYSDLCRLAKINGE 264

Query: 217 -----MKDSGIEWVGLVPDHWEVKPFFALVTEL-----------NRKNTKLIESNILSLS 260
                +    +  +   P H     +                    K   L E+  + + 
Sbjct: 265 KKPRKLYLDEVPVIEEKPRHSLPDTWTITNIGFLAHVTKLAGFEYTKYFNLTETGDVPVI 324

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDP-----GEIVFRFIDLQNDKRSLRSAQVMERGI 315
               +Q  E     +K  + E   +++      GE++  FI        +       R  
Sbjct: 325 RAQNVQMGEFIESNIKYITKEVSDLLERSQVHGGEVLMVFIGAGTGNVCMAPRDNR-RWH 383

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY-AMGSGLRQSLKFEDVKRLPVLVPPIKE 374
           +      +    I + YL   ++S          M +  +QSL  E ++ + V VPP++E
Sbjct: 384 LAPNVAKITVDEILAEYLNLYLQSPIGQSYIKSKMKATAQQSLSMETIRDVLVYVPPLEE 443

Query: 375 QFDITNVINVETARIDV---LVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           Q++I  ++      +     ++  I   I      + S ++ A  G+
Sbjct: 444 QYEIVRIVERLLDNLKNEYLILNDIHMKID---NIKQSILSKAFRGE 487


>gi|88707236|ref|ZP_01104922.1| type I restriction-modification system, endonuclease S subunit
           [Congregibacter litoralis KT71]
 gi|88698519|gb|EAQ95652.1| type I restriction-modification system, endonuclease S subunit
           [Congregibacter litoralis KT71]
          Length = 398

 Score =  105 bits (262), Expect = 1e-20,   Method: Composition-based stats.
 Identities = 72/387 (18%), Positives = 146/387 (37%), Gaps = 24/387 (6%)

Query: 29  PIKRFTKLNTGRTSESGKDI-IYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
              +       +   +  D+  Y+GLE ++  + K   +         S+  +F  G I+
Sbjct: 12  RFDQMAVQVKEKVDPAEADVDRYVGLEHIDPESLKI--RRWGETSEVESSKILFKSGDII 69

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ--GWLLSIDVTQRIEAICEGAT 145
           +GK   Y RK  +ADFDGICS   +VL+PK  +        ++ S     R   I  G  
Sbjct: 70  FGKRRAYQRKLCVADFDGICSAHAMVLRPKTDVVLEDFLPFFMQSEIFMNRAVKISVGGL 129

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
               +W+ +      +PPL EQ  I + + A               +  L E+  +    
Sbjct: 130 SPTINWRDLAKEEFALPPLQEQRRIVQLLSAA--------ERYQNALYDLSERGTSSRDS 181

Query: 206 IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK--NTKLIESNILSLSYGN 263
           +V   +        +  E VG   + W + P   L+T        +   +     L   N
Sbjct: 182 LVDHRMRGATLGATTYHERVGRYFNGWNLVPLGELLTAAQYGLSESLHGKGQYPILRMMN 241

Query: 264 IIQK----LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
           +        + + + L    +ETY++V  G+++F   +            +    +  S 
Sbjct: 242 LEDGKATADDLKYLDLSDSDFETYRLVS-GDVLFNRTNSYELVGRTGVYDLPGDFVFASY 300

Query: 320 YMAVKPHGI--DSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQ 375
            + +K         YL+  +R+    +   +  +    + ++   ++KR+ V +PPI  Q
Sbjct: 301 LIRLKTDIDRLSPEYLSAFLRAPIGRRQVMSFATRGVSQANINASNLKRVLVPLPPIGYQ 360

Query: 376 FDITNVINVETARIDVLVEKIEQSIVL 402
            ++  ++ V  +     + +++ +  L
Sbjct: 361 KEVVELLTVADSSRRWAIARLQVAREL 387



 Score = 66.4 bits (160), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 29/155 (18%), Positives = 59/155 (38%), Gaps = 19/155 (12%)

Query: 270 TRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI- 328
            R  G   E   +  +   G+I+F        K  +        GI ++  M ++P    
Sbjct: 47  IRRWGETSEVESSKILFKSGDIIFGKRRAYQRKLCVADFD----GICSAHAMVLRPKTDV 102

Query: 329 -DSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
               +L + M+S         +   GL  ++ + D+ +    +PP++EQ  I  +++   
Sbjct: 103 VLEDFLPFFMQSEIFMNRAVKISVGGLSPTINWRDLAKEEFALPPLQEQRRIVQLLSAA- 161

Query: 387 ARIDVLVEKIEQSIVLLKER----RSSFIAAAVTG 417
                  E+ + ++  L ER    R S +   + G
Sbjct: 162 -------ERYQNALYDLSERGTSSRDSLVDHRMRG 189



 Score = 45.2 bits (105), Expect = 0.021,   Method: Composition-based stats.
 Identities = 27/183 (14%), Positives = 60/183 (32%), Gaps = 12/183 (6%)

Query: 23  KHWKVVPIKRF---TKLNTGRTSESGKDIIYIGLEDVESGTGK-YLPKDGNSRQSDTSTV 78
             W +VP+       +     +         + + ++E G       K  +   SD  T 
Sbjct: 206 NGWNLVPLGELLTAAQYGLSESLHGKGQYPILRMMNLEDGKATADDLKYLDLSDSDFETY 265

Query: 79  SIFAKGQILYGKLGPY--LRKAIIADFDGICSTQFLVLQPKDVLPELLQGW-----LLSI 131
            +   G +L+ +   Y  + +  + D  G       +++ K  +  L   +        I
Sbjct: 266 RLV-SGDVLFNRTNSYELVGRTGVYDLPGDFVFASYLIRLKTDIDRLSPEYLSAFLRAPI 324

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
              Q +     G + ++ +   +  + +P+PP+  Q  + E +          I      
Sbjct: 325 GRRQVMSFATRGVSQANINASNLKRVLVPLPPIGYQKEVVELLTVADSSRRWAIARLQVA 384

Query: 192 IEL 194
            EL
Sbjct: 385 REL 387


>gi|327191124|gb|EGE58170.1| type I restriction-modification system, S subunit [Rhizobium etli
           CNPAF512]
          Length = 559

 Score =  105 bits (262), Expect = 1e-20,   Method: Composition-based stats.
 Identities = 77/474 (16%), Positives = 147/474 (31%), Gaps = 85/474 (17%)

Query: 20  AIPKHWKVVPIKRF-TKLNTGRTSESGK----DIIYIGLEDVESGTG--KYLPKDGNSRQ 72
            +P  W    +     KL  G           D  YI  ++++        +    +   
Sbjct: 83  DLPDSWVWSRLGDILIKLTDGTHHSPDNGPVGDFRYITAKNIKEHGVALNDVTYVSSDVH 142

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIAD---FDGICSTQFLVLQPKDVLPELLQGWLL 129
           ++  +     KG ILY K G       I D      + S+  L+  P+ +L  LL  +L 
Sbjct: 143 AEIFSRCNPEKGDILYIKDGATTGVVTINDLDEPFSMLSSVALLKLPRGLLNRLLVIFLR 202

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
           S     ++    +GA ++    K +    +P+PPLAEQ  I  K+       D L   R 
Sbjct: 203 SPFFYDQMRGFMKGAAITRVTLKRMAPALLPLPPLAEQHRIVAKVDELMALCDQLEVARE 262

Query: 190 RF----------------------------------------IELLKEKKQALVSYIVTK 209
                                                      + +K+ +Q +++  V  
Sbjct: 263 EREAARARLAVASLARLNSPDPETFSEDARFALEALPALTARPDQIKQLRQTILNLAVRG 322

Query: 210 GLNPDVKMKDSGIEW----------VGLVPDHWEVKPFFALVTELNRK-----NTKLIES 254
            L P     +   E+             +P  W+      +            N++    
Sbjct: 323 KLVPQDPKDEPAEEFDEALPNALAKPFSIPSSWKWSRLSYVGKLRGGGTPSKSNSEFWRG 382

Query: 255 NILSLSYGNIIQKLETR---NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
            I  +S  ++     +    ++  K     + +++D G ++F    +     S   A   
Sbjct: 383 EIPWVSPKDMKVDYISNAQMSISQKAVRESSVKLIDRGSLLFVVRGMIL-AHSFPVAIAQ 441

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCK-----VFYAMGSGLRQSLKFEDVKRLP 366
           E   +     A+           + +R+    K            G    L+  D     
Sbjct: 442 EFVTVNQDMKALTLKK--PEMAEYFLRALKGLKPQMLARVQRSSHGT-CRLEGSDYSDFL 498

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKI----EQSIVLLKERRSSFIAAAVT 416
           + +PP+ EQ  I   ++   +  D L   +    E    LL+    + +A A+T
Sbjct: 499 MPIPPLAEQHRIVAKVDELLSLCDQLEASLMTAGEARGKLLE----ALLAEAIT 548



 Score = 48.6 bits (114), Expect = 0.002,   Method: Composition-based stats.
 Identities = 31/246 (12%), Positives = 71/246 (28%), Gaps = 51/246 (20%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY-- 280
           E    +PD W       ++ +L        ++  +        + ++   + L   +Y  
Sbjct: 79  ELPFDLPDSWVWSRLGDILIKLTDGTHHSPDNGPVGDFRYITAKNIKEHGVALNDVTYVS 138

Query: 281 -------ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL 333
                   +    + G+I++          ++         +++S  +   P G+ +  L
Sbjct: 139 SDVHAEIFSRCNPEKGDILYIKDGATTGVVTINDLDEP-FSMLSSVALLKLPRGLLNRLL 197

Query: 334 AWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
              +RS            G     +  + +    + +PP+ EQ  I   ++   A  D L
Sbjct: 198 VIFLRSPFFYDQMRGFMKGAAITRVTLKRMAPALLPLPPLAEQHRIVAKVDELMALCDQL 257

Query: 393 V------------------------------EKIEQSIVLL----------KERRSSFIA 412
                                          E    ++  L          K+ R + + 
Sbjct: 258 EVAREEREAARARLAVASLARLNSPDPETFSEDARFALEALPALTARPDQIKQLRQTILN 317

Query: 413 AAVTGQ 418
            AV G+
Sbjct: 318 LAVRGK 323


>gi|220908522|ref|YP_002483833.1| restriction modification system DNA specificity domain-containing
           protein [Cyanothece sp. PCC 7425]
 gi|219865133|gb|ACL45472.1| restriction modification system DNA specificity domain protein
           [Cyanothece sp. PCC 7425]
          Length = 412

 Score =  105 bits (261), Expect = 1e-20,   Method: Composition-based stats.
 Identities = 55/426 (12%), Positives = 122/426 (28%), Gaps = 40/426 (9%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDII--------------YIGLEDVESGTGKYLPKDG 68
             W+   +    +L T   S    +I+               I   + E        K  
Sbjct: 2   SEWEETRLGEVLELITDYHSNGSYEILKANVSLLDEEDFAVMIRTTNFEQNNFSKNLKYV 61

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQF--LVLQPKDVLPELLQG 126
           N         S+   G I+  K+        + D     S      +++           
Sbjct: 62  NKEAYFFLDKSMVFPGDIIMNKIANAGSVYFMPDLQRPVSLAMNLFLIRVNKEKANQRFV 121

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           +         ++   EG+         + N+ + +P L  Q  I + I +   +I+ L  
Sbjct: 122 FYYLKANEAYVKQFAEGSVTKTITKNAVRNLVIRMPSLERQNEIVKIIESVESKIENLRR 181

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPD---VKMKDSG----IEWVGLVPDHWEVKPFFA 239
           +            Q L  +       P+      K SG       +G VP  W +     
Sbjct: 182 QNETLE----RIAQTLFKHWFVDFEFPNADGKPYKSSGGAMVRSELGEVPSGWRIGKLRD 237

Query: 240 LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQ 299
           +   +N +  K  E          I                E  + +  G++++ +    
Sbjct: 238 ITAVINGRAYKQTEFREEGTPIVRIQNLTGKGQNVYSDLILENEKYISKGDLIYAWSATF 297

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW-LMRSYDLCKVFYAMGSG-LRQSL 357
                     +         Y   K +  +  +  +  +   ++       G+G +   +
Sbjct: 298 GPYIWRGVKSIY-------HYHIWKLNCFNPAFKYYLYIHLKNVSDRVKNQGTGSIFTHI 350

Query: 358 KFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
             E ++   +L+P       I    ++  +  D ++   E  I  L   R   +   ++G
Sbjct: 351 TKELMESQEILIPDN---RTIECWHDLAESAFDKIMLNYE-QIATLTNTRDVLLPQLMSG 406

Query: 418 QIDLRG 423
           ++ ++ 
Sbjct: 407 KLRVKP 412



 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 28/204 (13%), Positives = 68/204 (33%), Gaps = 18/204 (8%)

Query: 10  YKDSGV----QWIGAIPKHWKVVPIKRFTKLNTGRTSE----SGKDIIYIGLEDVESGTG 61
           YK SG       +G +P  W++  ++  T +  GR  +      +    + ++++ +G G
Sbjct: 211 YKSSGGAMVRSELGEVPSGWRIGKLRDITAVINGRAYKQTEFREEGTPIVRIQNL-TGKG 269

Query: 62  KYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP 121
           + +  D         +     KG ++Y          I      I    + + +     P
Sbjct: 270 QNVYSDLILENEKYIS-----KGDLIYAWS-ATFGPYIWRGVKSI--YHYHIWKLNCFNP 321

Query: 122 ELLQG-WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
                 ++   +V+ R++    G+  +H   + + +  + IP         +   +   +
Sbjct: 322 AFKYYLYIHLKNVSDRVKNQGTGSIFTHITKELMESQEILIPDNRTIECWHDLAESAFDK 381

Query: 181 IDTLITERIRFIELLKEKKQALVS 204
           I     +              L+S
Sbjct: 382 IMLNYEQIATLTNTRDVLLPQLMS 405


>gi|237721638|ref|ZP_04552119.1| type I restriction enzyme EcoAI specificity protein [Bacteroides
           sp. 2_2_4]
 gi|229449434|gb|EEO55225.1| type I restriction enzyme EcoAI specificity protein [Bacteroides
           sp. 2_2_4]
          Length = 464

 Score =  105 bits (261), Expect = 1e-20,   Method: Composition-based stats.
 Identities = 59/398 (14%), Positives = 130/398 (32%), Gaps = 29/398 (7%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV-- 78
           +PK W +  +        G+T        +   + +   +               S    
Sbjct: 68  LPKGWTICSLDDLATFGGGKTPSMDNRKYWNNAKHLWITSKDMKFAHIADSLLKISDAAL 127

Query: 79  ---SIFAKGQILYGKLGPYLR---KAIIADFDGICSTQF-LVLQPKDVLPELLQGWLLSI 131
              +I+ KG +L       LR      I D +   +     +      +   L   + + 
Sbjct: 128 DQMTIYGKGTLLIVTRSGILRHTFPIAILDTEATVNQDVKAISCVLSHIHTYLYYVIKAQ 187

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
           +     +   +G T+   D+     + +P+PPL+EQ  I E+I      ID +   +   
Sbjct: 188 EQVILKDYHKDGTTVDSIDFDKFKKLIVPLPPLSEQYRIVEEIEHWFALIDQIEQGKTDL 247

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
              +K+ K  ++   +   L P     +S IE +  +   +            N      
Sbjct: 248 QTTIKQIKGKILDLAIHGKLVPQDPNDESAIELLKRINPDFTPCDNRHYTQLPNGWAVCR 307

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYET---------------YQIVDPGEIVFRFI 296
           ++     L           RN+ +K +  +                  IVD   ++    
Sbjct: 308 LDQVADVLDNLRKPINSNERNLRIKGKQIDRLYPYYGATGQVGLIDDYIVDGHYLLLGED 367

Query: 297 DL-QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ 355
                DK ++++  +  +  + +    + P         +L  S +       +    R 
Sbjct: 368 GAPFLDKNAIKAYSISGKSWVNNHAHILSPKID----FEFLQYSLNQIDYSEYVNGSTRL 423

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
            L   D++ + +++PP+ EQ  I   I    +++D+++
Sbjct: 424 KLTQTDMRSIRLMLPPLSEQKLIKAKIQTLFSQLDMIM 461



 Score = 68.7 bits (166), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 29/203 (14%), Positives = 65/203 (32%), Gaps = 8/203 (3%)

Query: 224 WVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN-------MGLK 276
               +P  W +     L T    K   +      + +    I   + +        + + 
Sbjct: 64  ENKYLPKGWTICSLDDLATFGGGKTPSMDNRKYWNNAKHLWITSKDMKFAHIADSLLKIS 123

Query: 277 PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWL 336
             + +   I   G ++              +    E  +               TYL ++
Sbjct: 124 DAALDQMTIYGKGTLLIVTRSGILRHTFPIAILDTEATVNQDVKAISCVLSHIHTYLYYV 183

Query: 337 MRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
           +++ +   +           S+ F+  K+L V +PP+ EQ+ I   I    A ID + + 
Sbjct: 184 IKAQEQVILKDYHKDGTTVDSIDFDKFKKLIVPLPPLSEQYRIVEEIEHWFALIDQIEQG 243

Query: 396 IEQSIVLLKERRSSFIAAAVTGQ 418
                  +K+ +   +  A+ G+
Sbjct: 244 KTDLQTTIKQIKGKILDLAIHGK 266



 Score = 46.7 bits (109), Expect = 0.008,   Method: Composition-based stats.
 Identities = 26/166 (15%), Positives = 56/166 (33%), Gaps = 2/166 (1%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +P  W V  + +   +          +   + ++  +    +  P  G + Q       
Sbjct: 298 QLPNGWAVCRLDQVADVLDNLRKPINSNERNLRIKGKQID--RLYPYYGATGQVGLIDDY 355

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           I     +L G+ G             I    ++      + P++   +L           
Sbjct: 356 IVDGHYLLLGEDGAPFLDKNAIKAYSISGKSWVNNHAHILSPKIDFEFLQYSLNQIDYSE 415

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
              G+T        + +I + +PPL+EQ LI+ KI     ++D ++
Sbjct: 416 YVNGSTRLKLTQTDMRSIRLMLPPLSEQKLIKAKIQTLFSQLDMIM 461


>gi|254303655|ref|ZP_04971013.1| type I site-specific deoxyribonuclease restriction subunit
           [Fusobacterium nucleatum subsp. polymorphum ATCC 10953]
 gi|148323847|gb|EDK89097.1| type I site-specific deoxyribonuclease restriction subunit
           [Fusobacterium nucleatum subsp. polymorphum ATCC 10953]
          Length = 378

 Score =  105 bits (261), Expect = 1e-20,   Method: Composition-based stats.
 Identities = 56/392 (14%), Positives = 132/392 (33%), Gaps = 31/392 (7%)

Query: 30  IKRFTKLNTGRTSE----SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           +K       G   +    S + +  I ++++      +   +GN      +   +   G 
Sbjct: 10  LKEVATFLNGYAFKPSDWSKEGLPIIRIQNLTGTNRDFNYYNGN-----YNKKYLIENGD 64

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFL-VLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
           IL       L   +  +  GI +     V+  K++  + +        + ++IE    G+
Sbjct: 65  ILISWS-ASLGIFLWENMTGILNQHIFKVIFDKNIEIDKIYFLHCMKFLIKKIEKNIHGS 123

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
           TM H        I  PI  +  Q  I +K+I  T  I+       +  E         +S
Sbjct: 124 TMKHITRPEFEKIKFPIYEIDIQRKISKKLIFITKIIENNKKLLNKMEE---------LS 174

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
             +    + + K+ +  +E +         +    + T  N       +     +   + 
Sbjct: 175 KSLFTKYSKNKKVVNLELEEICEFIKDGTHQTPTYVNTNENGYKFLSSKDVSKGIINWDN 234

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
            + +         +           +I+            +   ++ +  I  S  +   
Sbjct: 235 TKYISEE----LHKELYKKIAPKKNDILLAKNGTTGIAALVDKEEIFD--IYVSLAILRL 288

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
               +  Y+   + S +  + F     G+   +L  +++K++ + +PPI+ Q      + 
Sbjct: 289 KKEYNPKYILEGINSIETNQQFKKSLKGIGVPNLHLKEIKKVKIPIPPIELQNKFAERVE 348

Query: 384 VETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
               +I+ L  +IE+SI   ++  +S I+   
Sbjct: 349 ----KIEKLKFEIEKSIEEAQKLYNSLISKYF 376


>gi|146318350|ref|YP_001198062.1| HsdS [Streptococcus suis 05ZYH33]
 gi|146320545|ref|YP_001200256.1| HsdS [Streptococcus suis 98HAH33]
 gi|253751503|ref|YP_003024644.1| type I restriction-modification system, specificity protein
           [Streptococcus suis SC84]
 gi|253753404|ref|YP_003026545.1| type I restriction-modification system, specificity protein
           [Streptococcus suis P1/7]
 gi|253755767|ref|YP_003028907.1| type I restriction-modification system, specificity protein
           [Streptococcus suis BM407]
 gi|145689156|gb|ABP89662.1| putative HsdS [Streptococcus suis 05ZYH33]
 gi|145691351|gb|ABP91856.1| putative HsdS [Streptococcus suis 98HAH33]
 gi|251815792|emb|CAZ51398.1| type I restriction-modification system, specificity protein
           [Streptococcus suis SC84]
 gi|251818231|emb|CAZ56035.1| type I restriction-modification system, specificity protein
           [Streptococcus suis BM407]
 gi|251819650|emb|CAR45408.1| type I restriction-modification system, specificity protein
           [Streptococcus suis P1/7]
 gi|319757930|gb|ADV69872.1| putative HsdS [Streptococcus suis JS14]
          Length = 419

 Score =  105 bits (261), Expect = 1e-20,   Method: Composition-based stats.
 Identities = 47/423 (11%), Positives = 126/423 (29%), Gaps = 37/423 (8%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKD---------IIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           W++  +    + + G++    ++            I   D+++             +   
Sbjct: 6   WQIKSLSELGRFSRGKSKHRPRNDKKLFTNGTYPLIQTGDIKNSNLYVTKNSDYYNEFGL 65

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
           S   ++ +G +    +   + +  I  +        +           L  + +   + +
Sbjct: 66  SQSKLWKQGTLCIT-IAANIAETAILSYPMCFPDSVVGFNAHKNESSELFVYYVFELIKK 124

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            I+    G+   + +   +  + + +P    Q  I   +      ID  I    +  E L
Sbjct: 125 EIQKTSSGSIQDNINIDYLTKLKLKVPNKDYQDRIVNLL----STIDKKILINNQINEEL 180

Query: 196 KEKKQALVSYIVTKGLNPD---VKMKDSGIEWVG------LVPDHWEVKPFFALVTELNR 246
           +   + L  Y   +   PD      K SG + V        +P+ W VK    +    N 
Sbjct: 181 EAMAKTLYDYWFVQFDFPDENGKPYKSSGGKMVYNDQLKREIPEGWGVKQLGEICEFRNG 240

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYE--------TYQIVDPGEIVFRFIDL 298
            N +  E+        N+     +       +              +V    I+     +
Sbjct: 241 INYEKSETGDTLSKIVNVRNISNSSTFVTTHDLDSITLDRRRIESYLVTDRTILITRSGI 300

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLK 358
               R +    +    I +   +      ++  Y  +         +       + +++ 
Sbjct: 301 PGATRIVS--DIPVNTIYSGFIIGATVANLNLFYYVFYHLKNIEMLMSNQSAGTIMKNIS 358

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
              +  + +++P  + Q   +N +         ++E   +    L + R   +   + GQ
Sbjct: 359 QTTLSEIRIVIPNKEIQKVFSNEVRSLL----DVIENNLKQNQELTQLRDWLLPMLMNGQ 414

Query: 419 IDL 421
           + +
Sbjct: 415 VKV 417



 Score = 61.3 bits (147), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 26/195 (13%), Positives = 61/195 (31%), Gaps = 7/195 (3%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIG----LEDVESGTGKYLPKDGNSRQSDT 75
            IP+ W V  +    +   G   E  +    +     + ++ + +      D +S   D 
Sbjct: 221 EIPEGWGVKQLGEICEFRNGINYEKSETGDTLSKIVNVRNISNSSTFVTTHDLDSITLDR 280

Query: 76  S--TVSIFAKGQILYGKLGPYLRKAIIADFD-GICSTQFLVLQPKDVLPELLQGWLLSID 132
                 +     IL  + G      I++D       + F++      L      +    +
Sbjct: 281 RRIESYLVTDRTILITRSGIPGATRIVSDIPVNTIYSGFIIGATVANLNLFYYVFYHLKN 340

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           +   +     G  M +     +  I + IP    Q +   ++ +    I+  + +     
Sbjct: 341 IEMLMSNQSAGTIMKNISQTTLSEIRIVIPNKEIQKVFSNEVRSLLDVIENNLKQNQELT 400

Query: 193 ELLKEKKQALVSYIV 207
           +L       L++  V
Sbjct: 401 QLRDWLLPMLMNGQV 415


>gi|254780039|ref|YP_003058146.1| putative type I R-M system specificity subunit [Helicobacter pylori
           B38]
 gi|254001952|emb|CAX30209.1| Putative type I R-M system specificity subunit [Helicobacter pylori
           B38]
          Length = 373

 Score =  105 bits (261), Expect = 2e-20,   Method: Composition-based stats.
 Identities = 55/405 (13%), Positives = 118/405 (29%), Gaps = 46/405 (11%)

Query: 22  PKHWKVVPIKRF-----TKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           P +W+ V +         K      +    +I +  +    +    ++ K         +
Sbjct: 7   PLNWQRVRLGDIGKPCMCKRVMKHQTTRYGEIPFYKIGTFGNTADAFISKKLFL--EYKT 64

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
             S   KG IL    G   R  I            +V    D           +    + 
Sbjct: 65  KYSFPKKGDILISASGTIGRAVIYDGKPAYFQDSNIVWIDNDETLVKNDFLFYAYSNVKW 124

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
                E  T+         N  +P+PPL EQ+ I   +      + +L    ++   + K
Sbjct: 125 D---TEHTTILRLYNDNFKNTLIPLPPLNEQIAIANILSDVDRYLYSLDALILKKESVKK 181

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
                L+S                  + +      W+      +   L    +    +  
Sbjct: 182 ALSFELLSQ----------------RKRLKGFNQAWQRVRLGDIANYLTSNLSAEQITQQ 225

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
             +   ++   +   N     +            I           R L      +  I+
Sbjct: 226 GKIKVYDVNNFIGYTNTTFISD---------KPYISIVKDGSVGRVRILPP----KTNIL 272

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
           ++    +  H   + +L +L+ ++D           +   + F+D K   + +PP+ EQ 
Sbjct: 273 STMGALIANHKTTTEFLFYLLSNFDFKNF---TSGSIIPHIYFKDYKEKTIFLPPLNEQI 329

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            I N+++     I  L  K  Q     +  + +     ++ +I +
Sbjct: 330 AIANILSDLDNEIISLKNKKSQ----FENIKKALNHDLMSAKIRV 370


>gi|229120554|ref|ZP_04249799.1| hypothetical protein bcere0016_8650 [Bacillus cereus 95/8201]
 gi|228662839|gb|EEL18434.1| hypothetical protein bcere0016_8650 [Bacillus cereus 95/8201]
          Length = 391

 Score =  105 bits (261), Expect = 2e-20,   Method: Composition-based stats.
 Identities = 56/370 (15%), Positives = 121/370 (32%), Gaps = 11/370 (2%)

Query: 52  GLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQF 111
           G   ++    K   +D  ++ S   T  +     I+Y                    +  
Sbjct: 26  GQGVIDRSERKTNNRDFLTKDSTKKTYLLTKYDDIVYNPSNLKYGAIDRNKHGQGVISPI 85

Query: 112 LVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIR 171
            V    D +P  ++  + S +  QR     EG        K    + + +     +    
Sbjct: 86  YVTFETDEIPSFIELIVKSENFKQRALQYEEGTVTKRQSVKPESLLCLNVVLPNSKDEQI 145

Query: 172 EKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGL--NPDVKMKDSGIEWVGLVP 229
             I     ++D  I    + +  LK+ KQ  +  +  K     P V+      EW     
Sbjct: 146 R-IGNFFKQLDDTIALHQQELTTLKQTKQGFLKKMFPKEGESTPKVRFPGFTGEWEQRKL 204

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG 289
           D    +     ++             I        +  +   +  L       Y++++ G
Sbjct: 205 DSIVDRVKSYSLSRDVETIENTGYKYIHYGDIHTKVADIIDESSNLPNIKVGNYELLEKG 264

Query: 290 EIVFRFIDLQNDKRS---LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF 346
           ++V           +   + +     + +     +A++P  +DS +L +L+ S    K  
Sbjct: 265 DLVLADASEDYQGIAAPAIITIDTPYKLVSGLHTIALRPKQVDSLFLYYLINSPIFRKFG 324

Query: 347 YAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
           Y  G+G+    +   ++ +   + P ++EQ  I N       +ID  +   +  +  LKE
Sbjct: 325 YKTGTGMKVFGISVTNLLKFESVFPLLEEQVKIGNF----FKKIDDTIALHQCKLDALKE 380

Query: 406 RRSSFIAAAV 415
            + +F+    
Sbjct: 381 TKKAFLQKIF 390



 Score = 59.8 bits (143), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 30/197 (15%), Positives = 54/197 (27%), Gaps = 17/197 (8%)

Query: 24  HWKVVPIKRFTKLNTGRTSESG------KDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
            W+   +          +              YI   D+ +     + +  N        
Sbjct: 198 EWEQRKLDSIVDRVKSYSLSRDVETIENTGYKYIHYGDIHTKVADIIDESSNLPNIKVGN 257

Query: 78  VSIFAKGQILYGK-------LGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
             +  KG ++          +       I   +  +     + L+PK V    L   + S
Sbjct: 258 YELLEKGDLVLADASEDYQGIAAPAIITIDTPYKLVSGLHTIALRPKQVDSLFLYYLINS 317

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
               +       G  +       +       P L EQV I         +ID  I     
Sbjct: 318 PIFRKFGYKTGTGMKVFGISVTNLLKFESVFPLLEEQVKIGNF----FKKIDDTIALHQC 373

Query: 191 FIELLKEKKQALVSYIV 207
            ++ LKE K+A +  I 
Sbjct: 374 KLDALKETKKAFLQKIF 390


>gi|197249026|ref|YP_002149447.1| type I restriction-modification system, endonuclease S subunit
           [Salmonella enterica subsp. enterica serovar Agona str.
           SL483]
 gi|197212729|gb|ACH50126.1| type I restriction-modification system, endonuclease S subunit
           [Salmonella enterica subsp. enterica serovar Agona str.
           SL483]
          Length = 382

 Score =  105 bits (261), Expect = 2e-20,   Method: Composition-based stats.
 Identities = 77/397 (19%), Positives = 142/397 (35%), Gaps = 31/397 (7%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDI-IYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
            +P+ W++V      K  + R   S  D+ IY+GLE ++  + K   K            
Sbjct: 5   QLPEGWQMVKFGDIAKHISKRVEPSETDLKIYVGLEHLDPDSLKI--KRHGVPADVEGQK 62

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLV--LQPKDVLPELLQGWLLSIDVTQR 136
            +  KGQI++GK   Y RK  +AD+D ICS   +V     K V+P  L  ++ S     R
Sbjct: 63  LLVKKGQIIFGKRRAYQRKVAVADWDCICSAHAMVLEENSKMVIPGFLPFFMQSDIFMNR 122

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
             AI EG+      WK +       P    Q+ +   +        +         +   
Sbjct: 123 AVAISEGSLSPTIKWKVLAEQVFLFPSKNRQLKMLPIL--------SSCNLASLKNDAAL 174

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
           E        I  + ++  +   +   E +G V          +          +  E +I
Sbjct: 175 ESLLFFRKVIFREHISKLIIRHNVSREKLGDV-------CRISTGKTPPPNEREYWEGDI 227

Query: 257 LSLSYGNIIQKLETRNMG---LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
             ++ G+I       N G   +  +  E    V  G ++   I     K ++ S  +   
Sbjct: 228 PFITPGDISSDSLYINSGERNITHKGLEKTPSVPKGSVLLTCIGSTIGKAAIASCDLSTN 287

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
             I S  +      +    + W+  + ++ K +  +       +    +  + V VP ++
Sbjct: 288 QQINS--LICSEKILPEYLIVWIQNNLEVIKKYTGIQ--AVPIINKSTLANIDVDVPFLE 343

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
           EQ  +  V+       D L  K+++  V+L     S 
Sbjct: 344 EQLKLVMVVREM----DSLRHKLKKKGVILTNLTKSL 376


>gi|282915752|ref|ZP_06323522.1| type-I specificity determinant subunit [Staphylococcus aureus
           subsp. aureus D139]
 gi|283768150|ref|ZP_06341065.1| predicted protein [Staphylococcus aureus subsp. aureus H19]
 gi|282320381|gb|EFB50721.1| type-I specificity determinant subunit [Staphylococcus aureus
           subsp. aureus D139]
 gi|283462029|gb|EFC09113.1| predicted protein [Staphylococcus aureus subsp. aureus H19]
          Length = 400

 Score =  105 bits (261), Expect = 2e-20,   Method: Composition-based stats.
 Identities = 71/387 (18%), Positives = 141/387 (36%), Gaps = 18/387 (4%)

Query: 30  IKRFTKLNTGRTSESGKD-IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
                   + + +   +D  I I L+ +E  TG+ +     + +  +S  + F    +LY
Sbjct: 26  FGNLATNKSDKFNPQNEDASIDIELDCIEQNTGRLI--KIYNSKEFSSQKNKFNPQNVLY 83

Query: 89  GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP--ELLQGWLLSIDVTQRIEAICEGATM 146
           GKL PYL K       G+CS++  VL+         L   + +       + +   G+ M
Sbjct: 84  GKLRPYLNKYYFTKKSGVCSSEIWVLKSTKEDKLLNLFLYYFIQTKRYSDVASKSAGSKM 143

Query: 147 SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYI 206
             ADW  + NI +  P L EQ  I E       ++D  I    + +ELL+++K+  +  I
Sbjct: 144 PRADWGLVENIRVYFPELCEQQKIGEF----FSKLDRQIELEEQKLELLQQQKKGYMQKI 199

Query: 207 VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ 266
            ++ L    +  +   EW                 ++         E   ++ +  N  +
Sbjct: 200 FSQELRFKDENGNDYPEWEKKKLKEIAYVYTGNTPSKKENIYWIKGEYVWVTPTDINNSK 259

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
            +      L  E Y+  + +    ++   I        LR      +G       AV P 
Sbjct: 260 NIYESEHKLTQEGYKKARQLPENTLLVTCIASIGKNAILRK-----QGSCNQQINAVVPF 314

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
              +    + +       +    G    Q +     + L + +   +EQ  I ++I    
Sbjct: 315 ENINIDYLYYISDSLSTFMKSIAGKTATQIVNKNTFENLELYLASFEEQNKIADLI---- 370

Query: 387 ARIDVLVEKIEQSIVLLKERRSSFIAA 413
           + ++ L+EK    ++ +K R+   +  
Sbjct: 371 SSLEELIEKQASKLIKMKSRKQGLLQK 397



 Score = 65.2 bits (157), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 30/190 (15%), Positives = 69/190 (36%), Gaps = 12/190 (6%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDV------ESGTGKYLPKDGNSRQSDTST 77
            W+   +K    + TG T    ++I +I  E V       + +      +    Q     
Sbjct: 216 EWEKKKLKEIAYVYTGNTPSKKENIYWIKGEYVWVTPTDINNSKNIYESEHKLTQEGYKK 275

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
                +  +L   +    + AI+    G C+ Q   + P + +  +   + +S  ++  +
Sbjct: 276 ARQLPENTLLVTCIASIGKNAILRK-QGSCNQQINAVVPFENIN-IDYLYYISDSLSTFM 333

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           ++I         +     N+ + +    EQ     KI      ++ LI ++   +  +K 
Sbjct: 334 KSIAGKTATQIVNKNTFENLELYLASFEEQ----NKIADLISSLEELIEKQASKLIKMKS 389

Query: 198 KKQALVSYIV 207
           +KQ L+  + 
Sbjct: 390 RKQGLLQKMF 399


>gi|294675507|ref|YP_003576123.1| type I restriction-modification system subunit S [Prevotella
           ruminicola 23]
 gi|294473033|gb|ADE82422.1| type I restriction-modification system, S subunit [Prevotella
           ruminicola 23]
          Length = 392

 Score =  105 bits (261), Expect = 2e-20,   Method: Composition-based stats.
 Identities = 55/393 (13%), Positives = 127/393 (32%), Gaps = 21/393 (5%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKD------IIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           W+   +    K   G T     +      I +  + D+ +            +    S  
Sbjct: 6   WEYKKLGEVAKFVGGGTPSKANEDYYTGNIPWATVRDMVNFNLSKTELCITDQAVKESAT 65

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           +I  K  I+        +  ++     I      V+ P+ V    +        +   + 
Sbjct: 66  NIIPKDTIIISTHVGLGKICLLMQDTAINQDLKGVILPQSVD--KMFFAAWYKSIADYVI 123

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
           +  +GAT+     K + ++ +PIPP+ +Q  I  ++      ++ +I  +   ++   + 
Sbjct: 124 SNGKGATVKGVTMKFVNDLKIPIPPINDQQRIVAELDC----LNEMIALKQEQLKEFDKL 179

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKP-FFALVTELNRKNTKLIESNIL 257
            Q++   +     +P    K+  +  +G   +    K      V +      +  E   L
Sbjct: 180 AQSIFYNMFG---DPVTNEKEWDVIELGDKCEVTSFKRVLIEDVVDSGVPFIRGTELMAL 236

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDP-GEIVFRFIDLQNDKRSLRSAQVMERGII 316
           S +      +          E  +    V   G+++   I+ + +   L + +       
Sbjct: 237 SKATKGEKIEFTLFITPEHYEQVKAISGVPAVGDLLIPSINSEGNIWILDTDEPRYYKDG 296

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
              ++ V      S  L ++M                   LK   ++ L  ++PP+  Q 
Sbjct: 297 RVLWVHVNHDAYTSEALKFIMHILLKKTYSVMATGATFAELKLFVLRELKTILPPLALQQ 356

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
                I      I+   E +++SI   ++   S
Sbjct: 357 QFAEKIQA----IEAQKELVKKSIAETQQLLDS 385



 Score = 58.3 bits (139), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/166 (10%), Positives = 45/166 (27%), Gaps = 12/166 (7%)

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPE---SYETYQIVDPGEIVFRFIDLQNDKRS 304
           N      NI   +  +++    ++      +         I+    I+            
Sbjct: 27  NEDYYTGNIPWATVRDMVNFNLSKTELCITDQAVKESATNIIPKDTIIIST-----HVGL 81

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKR 364
            +   +M+   I      V                     V         + +  + V  
Sbjct: 82  GKICLLMQDTAINQDLKGVILPQSVDKMFFAAWYKSIADYVISNGKGATVKGVTMKFVND 141

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
           L + +PPI +Q  I   ++     ++ ++   ++ +    +   S 
Sbjct: 142 LKIPIPPINDQQRIVAELDC----LNEMIALKQEQLKEFDKLAQSI 183


>gi|21227769|ref|NP_633691.1| type I restriction-modification system specificity subunit
           [Methanosarcina mazei Go1]
 gi|20906173|gb|AAM31363.1| type I restriction-modification system specificity subunit
           [Methanosarcina mazei Go1]
          Length = 412

 Score =  105 bits (261), Expect = 2e-20,   Method: Composition-based stats.
 Identities = 51/391 (13%), Positives = 112/391 (28%), Gaps = 52/391 (13%)

Query: 87  LYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATM 146
           L    G  + K      D   +     +    +       +L        I+    G   
Sbjct: 2   LVALYGATIGKLAFLGVDAATNQAVCAIFKNGIFESKFLYYLFFHRKQDLIKEAIGG-AQ 60

Query: 147 SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYI 206
            +     + N+ + I PL EQ  I  KI      ++  I       E LK  +QA++   
Sbjct: 61  PNISQTILKNLEVTICPLPEQRAIVSKIEQLFSELENGIANLKLAKEQLKVYRQAVLKKA 120

Query: 207 VTKGLNPDV------------------------------------KMKDSGIEWVGLVPD 230
               L                                           +  +E +  +P 
Sbjct: 121 FEGELTKKWREQQTDLPDAGGLLEQIRKEKEKAAKKAGKKLKQVKPFTEDELEDLNRLPK 180

Query: 231 HWEVKPFFALVTELNRKNT--KLIESNILSLSYGNIIQK-LETRNMGLKPESYE-TYQIV 286
            W       L   +    +       ++  L  GNI     +  ++    +  E    ++
Sbjct: 181 EWNWVKIGNLTLGVEYGTSAKSKESGDVAVLRMGNIQNGRFDWSDLVYTSDKTEIEKYLL 240

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK--PHGIDSTYLAWLMRSYDLCK 344
              +++F   +           +  +  I     + +        + YL + +  +    
Sbjct: 241 SKDDVLFNRTNSPELVGKTAIYKGEKPAIFAGYLIRINQLSELAVADYLNYFLNCHIAKV 300

Query: 345 VFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
              ++ +    + ++  E +   P  +  + EQ  I   I    +  D + + IE ++  
Sbjct: 301 HGNSVKTDGVNQSNINGEKLGNYPFPLCSLPEQQTIVQEIETRLSICDKIEQDIETNLEK 360

Query: 403 LKERRSSFIAAAVTGQI-------DLRGESQ 426
            +  R S +  A  G++       ++RG   
Sbjct: 361 AEALRQSILKKAFEGKLLNERELAEVRGAED 391



 Score = 71.7 bits (174), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 32/208 (15%), Positives = 74/208 (35%), Gaps = 11/208 (5%)

Query: 14  GVQWIGAIPKHWKVVPIKRF---TKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNS 70
            ++ +  +PK W  V I       +  T   S+   D+  + + ++++G   +      S
Sbjct: 171 ELEDLNRLPKEWNWVKIGNLTLGVEYGTSAKSKESGDVAVLRMGNIQNGRFDWSDLVYTS 230

Query: 71  RQSDTSTVSIFAKGQILYGKLGP---YLRKAIIADFDGICSTQFLVLQPKDVL----PEL 123
            +++     + +K  +L+ +        + AI           +L+   +         L
Sbjct: 231 DKTEIEKY-LLSKDDVLFNRTNSPELVGKTAIYKGEKPAIFAGYLIRINQLSELAVADYL 289

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
                  I          +G   S+ + + +GN P P+  L EQ  I ++I       D 
Sbjct: 290 NYFLNCHIAKVHGNSVKTDGVNQSNINGEKLGNYPFPLCSLPEQQTIVQEIETRLSICDK 349

Query: 184 LITERIRFIELLKEKKQALVSYIVTKGL 211
           +  +    +E  +  +Q+++       L
Sbjct: 350 IEQDIETNLEKAEALRQSILKKAFEGKL 377


>gi|146291271|ref|YP_001181695.1| restriction modification system DNA specificity subunit [Shewanella
           putrefaciens CN-32]
 gi|145562961|gb|ABP73896.1| restriction modification system DNA specificity domain [Shewanella
           putrefaciens CN-32]
          Length = 399

 Score =  105 bits (261), Expect = 2e-20,   Method: Composition-based stats.
 Identities = 62/421 (14%), Positives = 130/421 (30%), Gaps = 49/421 (11%)

Query: 21  IPKHWKVVPIKRFTK-------LNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
           +P  WK   ++   K       +N+            +    V  G            + 
Sbjct: 2   VPNGWKDGRVRDLIKSLNAGVSVNSEDDGNLNSSYKILKTSCVSKGVFDPNETKSVVEEI 61

Query: 74  DTSTVSIFAKGQ-ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKD------VLPELLQG 126
           + S +     G  I+  ++            +      +L  +          +     G
Sbjct: 62  EISRLKEPVLGDSIIISRMNTPALVGANGYIENGIDNTYLPDRLWQAKPKSNDVNMKWLG 121

Query: 127 WLLSIDVTQRIEAIC---EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           +  +   T+   +        +M +     + NI + IPPL EQ  I + +       D 
Sbjct: 122 YWFASSHTRYTLSSTATGTSGSMKNITKSDVLNIKIDIPPLPEQRKIAKIL----STWDK 177

Query: 184 LITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTE 243
            I+   R I+  K++K+AL+  ++T        + DSG  + G        K        
Sbjct: 178 AISTTERLIDNSKQQKKALMQQLLTA---KKRLLDDSGKPFEGEWTKVELGKLLDYKQPT 234

Query: 244 LN--RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQND 301
               +      E +I  L+ G       +       E      I D      +F+D    
Sbjct: 235 PYLVKSTDYSNEYSIPVLTAGKTFILGYSNENFGIFEEELPAIIFDDFTTASKFVDFPFK 294

Query: 302 KRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFED 361
            +S     ++ +  ++  ++      ++                      G  Q      
Sbjct: 295 AKSSAMKILVAKQGVSIKFVYEAMQVLNYPV-------------------GGHQRHWISI 335

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
              L + +P + EQ  I +V+          +E +EQ +  LK+ + + +   +TG+  +
Sbjct: 336 FANLVIGLPSLLEQQKIASVLTNADKE----IELLEQQLADLKQEKKALMQQLLTGKRRV 391

Query: 422 R 422
           +
Sbjct: 392 K 392



 Score = 90.6 bits (223), Expect = 4e-16,   Method: Composition-based stats.
 Identities = 25/183 (13%), Positives = 62/183 (33%), Gaps = 9/183 (4%)

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
           N+         +S G          +     S     ++    I+ R         +   
Sbjct: 33  NSSYKILKTSCVSKGVFDPNETKSVVEEIEISRLKEPVLGDSIIISRMNTPALVGANGYI 92

Query: 308 AQVMERGIITSAYMAVKP--HGIDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDV 362
              ++   +       KP  + ++  +L +   S        +  +G     +++   DV
Sbjct: 93  ENGIDNTYLPDRLWQAKPKSNDVNMKWLGYWFASSHTRYTLSSTATGTSGSMKNITKSDV 152

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
             + + +PP+ EQ  I  +++      D  +   E+ I   K+++ + +   +T +  L 
Sbjct: 153 LNIKIDIPPLPEQRKIAKILSTW----DKAISTTERLIDNSKQQKKALMQQLLTAKKRLL 208

Query: 423 GES 425
            +S
Sbjct: 209 DDS 211


>gi|47779388|gb|AAT38617.1| predicted type I site-specific deoxyribonuclease specificity
           subunit [uncultured gamma proteobacterium eBACHOT4E07]
          Length = 405

 Score =  105 bits (261), Expect = 2e-20,   Method: Composition-based stats.
 Identities = 49/409 (11%), Positives = 117/409 (28%), Gaps = 25/409 (6%)

Query: 24  HWKVVPIKRFTKLNTGRT-----SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
            WK   +     +           +S + I  +   ++  G  K           +T   
Sbjct: 2   SWKTYKLSELCNVFADGDWIESKDQSPEGIRLLQTGNIGVGVFKEREDKARYVSEETFKR 61

Query: 79  S---IFAKGQILYGKLGPYLRKAIIADFDG-----ICSTQFLVLQPKDVLPELLQGWLLS 130
                  +G +L  +L   + +  +                + ++   V    L+ ++ S
Sbjct: 62  LNCEEVFEGDLLISRLPEPVGRGCLIPSITSRAITAVDCTIIRVKSDLVDKRYLEYFIQS 121

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
                 I++   G T      K +G I + +  L  Q  I EK+ A    ID  I+    
Sbjct: 122 QQYQTEIQSKVTGTTRQRISRKNLGEISIVLTSLPVQKQIVEKLDAAFSDIDKAISATEM 181

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
            IE  +     ++     + +   +      +                  +   +     
Sbjct: 182 NIENAETLFSRILIQSFEEKIEGSIYKTLQDVSIDFSRGKSKHRPRNDPNLFGGHY---- 237

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
                I + +  N  + +   +     +  E  ++     +         +   L     
Sbjct: 238 ---PFIQTGNVANSSKFITHYDKSYNEKGLEQSKLWSKNTVCITIAANIAECGILNFDAC 294

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP 370
               II             S+   + + SY    +        +Q++     ++     P
Sbjct: 295 FPDSIIG----ITVDQKQTSSEYVFYLLSYFKDFIQSKSKGAAQQNINLGTFEKEKFPFP 350

Query: 371 -PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
             +  Q ++   +N  + +++ L     + +  L   +SS +  A  G+
Sbjct: 351 SSLLVQSELIAELNDVSNQLNRLKSIYSEKLKQLNSLKSSILNQAFRGE 399


>gi|156973427|ref|YP_001444334.1| hypothetical protein VIBHAR_01116 [Vibrio harveyi ATCC BAA-1116]
 gi|156525021|gb|ABU70107.1| hypothetical protein VIBHAR_01116 [Vibrio harveyi ATCC BAA-1116]
          Length = 400

 Score =  104 bits (260), Expect = 2e-20,   Method: Composition-based stats.
 Identities = 55/411 (13%), Positives = 121/411 (29%), Gaps = 36/411 (8%)

Query: 20  AIPK--------HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSR 71
            +P+        +W+++ ++   + +  R     +           +      P  G S 
Sbjct: 6   DVPEIRFNDFVGNWQLLKLEDVAQFHDERRKPITE----------SAREAGPHPYYGASG 55

Query: 72  QSDTSTVSIFAKGQILYGKLGPYL-----RKAIIADFDGICSTQFLVLQPKDVLPELLQG 126
             D     IF +  IL  + G  +     R   +A      +    VL+ K     L   
Sbjct: 56  IIDYVKDYIFDEEMILLSEDGANIIDRNYRVCFLASGQYWVNNHAHVLKAKQGNNNL--- 112

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           +L       R +    G      +     N+P+ I    EQ +I          I+    
Sbjct: 113 FLCESLERLRYDKYNTGTAQPKINQDVCRNLPVYITDNDEQEIIGNYFQKLDTLINQHQQ 172

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
           +  +   L K  ++ +          P+++      +W                  E   
Sbjct: 173 KHDKLSNLKKSMQEKMFPKA--GETVPEIRFDGFSGDWDSKPLSKVASNISDGDWIEAEH 230

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGL---KPESYETYQIVDPGEIVFRFIDLQNDKR 303
                    I + + G        ++      +         + PG+I+   +     + 
Sbjct: 231 IFPNGKFRIIQTGNIGVGEFLNNEKHAKYFHQRNFDLIKANEIYPGDILISRLAEPAGRA 290

Query: 304 SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDV 362
           ++               +  +    DS +L   + + +  KV     SG   + +   ++
Sbjct: 291 AILPDTGFRMVTAVDVAIVRREECYDSYFLMSYLNTAECLKVVSEGVSGTSHKRISRANL 350

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            ++ +  P I EQ  I          +D L+ +  Q I  +K  + + +  
Sbjct: 351 VKVNIPFPSIDEQIKIGKY----FENLDGLINQHNQQITKIKNIKQACLDK 397


>gi|315280772|ref|ZP_07869575.1| specificity determinant HsdS [Listeria marthii FSL S4-120]
 gi|313615581|gb|EFR88923.1| specificity determinant HsdS [Listeria marthii FSL S4-120]
          Length = 393

 Score =  104 bits (260), Expect = 2e-20,   Method: Composition-based stats.
 Identities = 45/398 (11%), Positives = 131/398 (32%), Gaps = 38/398 (9%)

Query: 25  WKVVPIKRFTKLNTGRTS---------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           W+   +    ++  G +          ++  ++ ++ + DV +  G+    +    ++  
Sbjct: 22  WEQRKLGELAEIVRGASPRPIQDPKWFDNNSEVGWLRISDVTAQNGRINYLEQRISEAGQ 81

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
               +  +  +L        +  I     G+     + L  K    E    +        
Sbjct: 82  EKTRVLKEPHLLLSIAATVGKPVINYVKTGVHDGFLIFLDIKF---EQEFLFQWLEMFRT 138

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
             +   +  +  + + + + N  + IP + EQ+    KI     ++D  I    R +E +
Sbjct: 139 SWQKYGQPGSQVNLNSELVRNQEILIPSMKEQI----KISQLFQQLDNTIALHQRKLEKI 194

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
           K  K A +S +         K + +G        D WE      L+ +  +   +L + +
Sbjct: 195 KALKTAYLSEMFPAEGETKPKRRFAG------FTDDWEQHKLGDLIDKQIKGKAQLEKLS 248

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
             +++Y +       +                  ++V   I +  D     +  +  +G 
Sbjct: 249 KGTVAYLDTFTLNGGKAFLTDGHE----------DVVETDILILWDGSKAGTVYIGFKGA 298

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
           + S     +     +    +    Y+   ++    +     ++ + +    + +P   EQ
Sbjct: 299 LGSTLKGYRTSI--NEQFVYQFLKYNQENIYNNYRTPNIPHVQKDFLDVFKISIPKTVEQ 356

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
             + +       ++D  +   ++ +  L+  + +++  
Sbjct: 357 AKLGSF----FQQLDKTITIHQRKLQKLQNIKKAYLNE 390


>gi|67921463|ref|ZP_00514981.1| Restriction modification system DNA specificity domain
           [Crocosphaera watsonii WH 8501]
 gi|67856575|gb|EAM51816.1| Restriction modification system DNA specificity domain
           [Crocosphaera watsonii WH 8501]
          Length = 408

 Score =  104 bits (260), Expect = 2e-20,   Method: Composition-based stats.
 Identities = 64/417 (15%), Positives = 151/417 (36%), Gaps = 38/417 (9%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESG---KDIIYIGLEDVESGTGKYLPKDGNSRQS--DT 75
           +P++WK    +    +  G              I  +++++    +      S     + 
Sbjct: 10  LPQYWKWSKCQEVIDVRDGTHDTPKYVSSGYPVITSKNLKTSGIDFSNVSYISEADHKEI 69

Query: 76  STVSIFAKGQILYGKLGPYLRKAI--IADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
           S  S   KG IL   +G      I  I     I +     L   ++ PE  +  L S  +
Sbjct: 70  SKRSKVDKGDILLAMIGTIGNPVIVDIEKEFSIKNVALFKLSKSNIYPEYFKYLLDSSII 129

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
           +++++    G T      K + N+ +P+PPL EQ  I + +                  E
Sbjct: 130 SRQLDFEQRGGTQKFVSLKVLRNLLIPLPPLEEQKRIAKILDKADEIRRKRKESIRLTDE 189

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
           L       L S  +    +P +  K   ++ +G             L    N K ++L +
Sbjct: 190 L-------LRSTFLDMFGDPVINPKGWEVKTLG--------SQIKELKYGTNSKCSELQK 234

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQI----VDPGEIVFRFIDL---QNDKRSLR 306
           +N +++     I   +     LK  + ++ +I    +  G+++F   +       + ++ 
Sbjct: 235 NNNIAVLRIPNIDNEKISWNDLKYTNLDSKEISKLLLKNGDLLFVRSNGNPDYIGRCAIF 294

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWL-----MRSYDLCKVFYAMGSGLRQSLKFED 361
             +   + +  S  +  +   I   + A++       ++    +  A  +    ++  ++
Sbjct: 295 EEESNRKAVYASYLIRGRLKSICDFHPAFIRDIIAFPTFRSFLIREARTTAGNYNINIQE 354

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           +  L ++ PP  +Q +    ++  T +I+      ++S+   +   +S +  A  G+
Sbjct: 355 LSSLKLICPPQDKQEE---YLD-ITTKINRSFLNKQKSLQESENLFNSLLQKAFKGE 407



 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 21/203 (10%), Positives = 66/203 (32%), Gaps = 13/203 (6%)

Query: 22  PKHWKVVPIKR-FTKLNTGRTSE-----SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           PK W+V  +     +L  G  S+        +I  + + ++++    +      +  S  
Sbjct: 206 PKGWEVKTLGSQIKELKYGTNSKCSELQKNNNIAVLRIPNIDNEKISWNDLKYTNLDSKE 265

Query: 76  STVSIFAKGQILYGKLG---PYLRKAIIADF----DGICSTQFLVLQPKDVLPELLQGWL 128
            +  +   G +L+ +      Y+ +  I +       + ++  +  + K +         
Sbjct: 266 ISKLLLKNGDLLFVRSNGNPDYIGRCAIFEEESNRKAVYASYLIRGRLKSICDFHPAFIR 325

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
             I        +   A  +  ++         +  +      +E+ +  T +I+     +
Sbjct: 326 DIIAFPTFRSFLIREARTTAGNYNINIQELSSLKLICPPQDKQEEYLDITTKINRSFLNK 385

Query: 189 IRFIELLKEKKQALVSYIVTKGL 211
            + ++  +    +L+       L
Sbjct: 386 QKSLQESENLFNSLLQKAFKGEL 408


>gi|229553104|ref|ZP_04441829.1| type I site-specific deoxyribonuclease specificity subunit
           [Lactobacillus rhamnosus LMS2-1]
 gi|229313601|gb|EEN79574.1| type I site-specific deoxyribonuclease specificity subunit
           [Lactobacillus rhamnosus LMS2-1]
          Length = 407

 Score =  104 bits (260), Expect = 2e-20,   Method: Composition-based stats.
 Identities = 61/405 (15%), Positives = 134/405 (33%), Gaps = 40/405 (9%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIY---IGLEDVESGTGKYLPKDGNSRQSDTS---TV 78
           W+   +     L    T  + KD  +   +  ++V   +  +   D    + D +     
Sbjct: 20  WEKRKLIDQLSLLKDGTHGTHKDGNFAFLLSAKNVIQDSIVFDDSDRKISEDDFNDIYAN 79

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGIC----STQFLVLQPKDVLPELLQGWLLSIDVT 134
               K  +L   +G   R A+            S   L  +P    P  L   L +  + 
Sbjct: 80  YHIKKNDVLLTIVGTIGRVALFPRLTVPVAFQRSVAILRTKPTLF-PYFLALELQTPTIQ 138

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
            +I+A    +  +      +  + + IP   EQ+ I   +   T  I     +  +   L
Sbjct: 139 SKIKARANMSAQAGIYLGDLKKVVISIPKSEEQIEIAMSLNRLTNLIAATQDKLEKLSIL 198

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
            +   Q   +                   W      H         V    R N   +  
Sbjct: 199 QRGFLQHFFAQT-----------------WRFSGYSHVWENHRLGDVATRVRGNDGRMNL 241

Query: 255 NILSLSYG-NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS-LRSAQVME 312
            IL++S G   + + +  +  +     + Y ++  GE+ +   + +  +   +   +  +
Sbjct: 242 PILTISAGKGWLTQEQRFSQNIAGNELKKYTLLSKGELSYNHGNSKLAEYGAVFVLKQFK 301

Query: 313 RGIITSAYMAVKPHGI-DSTYLAWLMRSYDLCKVFYA-MGSGLRQ----SLKFEDVKRLP 366
             ++   Y +    G  D  ++ +L  S          + SG R     ++ ++    + 
Sbjct: 302 EALVPRVYHSFNVSGKADPDFIEYLFESGVPNHELRKLISSGARMDGLLNINYDSFMNIS 361

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
           VL+P I+EQ  I  V+     ++  L ++    +  L++ + S +
Sbjct: 362 VLLPSIEEQNKIARVLE----KLKKLTDETRLRLFNLQQAKKSLL 402


>gi|164551505|gb|ABY60970.1| Sau1hsdS1 [Staphylococcus aureus]
          Length = 419

 Score =  104 bits (260), Expect = 2e-20,   Method: Composition-based stats.
 Identities = 61/408 (14%), Positives = 139/408 (34%), Gaps = 29/408 (7%)

Query: 24  HWKVVPIKRFT-KLNTGRTSE------SGKDIIYIGLEDVESGTGKYLP-KDGNSRQSDT 75
            W+   +   T K+ +G+T +      + K I ++  +++ +G          +    D 
Sbjct: 20  EWEEKKLGDLTTKIGSGKTPKGGSENYTNKGIPFLRSQNIRNGKLNLNDLVYISKDIDDE 79

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIA---DFDGICSTQ-FLVLQPKDVLPELLQGWLLSI 131
              S    G +L    G  + +  I    +     +    ++   K+        +LLS 
Sbjct: 80  MKNSRTYYGDVLLNITGASIGRTAINSIVEIHANLNQHVCIIRLKKEYYYNFFGQYLLSR 139

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAE-QVLIREKIIAETVRIDTLITERIR 190
              ++I     G +    ++K I N+ +  P + E Q  I E I     +I+    +   
Sbjct: 140 KGKRKIFLAQSGGSREGLNFKEIANLKIFTPTIFEEQQKIGEFISKLDRQIELEEQKLEL 199

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
             +  K   Q + S  +           D   + +  + ++                   
Sbjct: 200 LQQQKKGYMQKIFSQELRFKDEEGKDYPDWKSKSIQEIFENKGGTALETEFNFDG----- 254

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
                ++S+   +I      +N+ +         I+  G++     D   D + +  +  
Sbjct: 255 --NYKVISIGSYSINSTYNDQNIRVNKNKKTEKYILSKGDLAMVLNDKTKDGKIIGRSIF 312

Query: 311 MERG---IITSAYMAVKPHGIDSTYLAWLMRSYDLC--KVFYAMGSGLRQSLKFEDVKRL 365
           +++    I       + P   +     W + + DL   K+   M    +  + +  +K +
Sbjct: 313 IDKDNQYIYNQRTERLIPFAENDNKFLWFLMNTDLIRNKIKGMMQGATQVYINYSSIKLI 372

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            + +P ++EQ  I   + V    +  +  K    I  LKER+ +F+  
Sbjct: 373 SIQLPLLEEQQKIRGFLEV----LSGITTKQLHXIDQLKERKKAFLQK 416



 Score = 67.5 bits (163), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 24/181 (13%), Positives = 54/181 (29%), Gaps = 6/181 (3%)

Query: 215 VKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK----LET 270
            +++  G E         ++             +       I  L   NI        + 
Sbjct: 10  PELRFPGFEGEWEEKKLGDLTTKIGSGKTPKGGSENYTNKGIPFLRSQNIRNGKLNLNDL 69

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
             +    +          G+++         + ++ S   +   +     +         
Sbjct: 70  VYISKDIDDEMKNSRTYYGDVLLNITGASIGRTAINSIVEIHANLNQHVCIIRLKKEYYY 129

Query: 331 TYLA-WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI-KEQFDITNVINVETAR 388
            +   +L+      K+F A   G R+ L F+++  L +  P I +EQ  I   I+    +
Sbjct: 130 NFFGQYLLSRKGKRKIFLAQSGGSREGLNFKEIANLKIFTPTIFEEQQKIGEFISKLDRQ 189

Query: 389 I 389
           I
Sbjct: 190 I 190


>gi|326802759|ref|YP_004320577.1| type I restriction modification DNA specificity domain protein
           [Aerococcus urinae ACS-120-V-Col10a]
 gi|326650965|gb|AEA01148.1| type I restriction modification DNA specificity domain protein
           [Aerococcus urinae ACS-120-V-Col10a]
          Length = 396

 Score =  104 bits (260), Expect = 2e-20,   Method: Composition-based stats.
 Identities = 57/398 (14%), Positives = 135/398 (33%), Gaps = 26/398 (6%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W    +   +  N      S     Y+ LE V  GT     K  +  ++ +    +  K
Sbjct: 18  DWIQDKLGNISSFNPNAELPSQ--FFYVDLESV-CGTQLVDYKFMSKEEAPSRAKRLAKK 74

Query: 84  GQILYGKLGPYLRKAIIADFD---GICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
           G I Y  + PY R  ++ + D    + ST +  ++   +  + L   L +     ++ ++
Sbjct: 75  GDIFYQTVRPYQRNNLLFNEDDNEFVFSTGYAQIRTNIINNKFLFYLLQTDKFVLKVLSM 134

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
           C G +        +  + +  P    + +   +++     I   IT   + IE L+  KQ
Sbjct: 135 CTGTSYPAITSAEMSKVIIHYPKKQLEQIKIGELLNRLDFI---ITLEQQKIEKLELLKQ 191

Query: 201 ALVSYIVTKG-LNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
            L+  +       P+++ +     W               +  ++  K    +     + 
Sbjct: 192 YLLQNMFADESGYPNLRFRGYTGPWF--------KNKGKNIFKKITEKKQAHLPVLSATQ 243

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
             G +++      +    ++   Y++V PG+ V      Q          +         
Sbjct: 244 DKGMVLRDEFNERLQYDRKNLSNYKVVRPGQFVVHLRSFQGGFAHSNYLGITSPAYTIFD 303

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR--QSLKFEDVKRLPVLVPPIKEQFD 377
           ++    +  +  Y  +   +     +   +  G+R  +++ F D   L +  P + EQ  
Sbjct: 304 FI--NTNEHNDIYWKFYFANDHFILLLEKVTYGIRDGRTINFSDFCTLNINFPSLSEQNK 361

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           I  ++      +D L+      +  L   +   +++  
Sbjct: 362 IAKLLFS----LDSLINLRTTKLENLTSLKQKLLSSLF 395


>gi|294775383|ref|ZP_06740902.1| type I restriction modification DNA specificity domain protein
           [Bacteroides vulgatus PC510]
 gi|294450765|gb|EFG19246.1| type I restriction modification DNA specificity domain protein
           [Bacteroides vulgatus PC510]
          Length = 425

 Score =  104 bits (260), Expect = 2e-20,   Method: Composition-based stats.
 Identities = 62/425 (14%), Positives = 131/425 (30%), Gaps = 51/425 (12%)

Query: 20  AIPKHWKVVPIKRFTKLN-----------TGRTSESGKDIIYIGLEDVESGTGKYLPKDG 68
            +P  W    I+    +            T  T  S  ++  +  ++V  G   Y  ++ 
Sbjct: 4   EVPSSWVWTNIEELFFVTKLAGFEYTDCLTKDTISSNNEVPIVRAQNVRMG---YFVENT 60

Query: 69  NSRQSDTSTVSI----FAKGQILYGKLGPYLRKAIIADFDGIC----STQFLVLQPKDVL 120
           N   S+  +  +      K  +L   +G  +    I      C    +   +      + 
Sbjct: 61  NEAISEALSQQLERSALTKKCLLMTFIGAGIGDTCIFPALKRCHLAPNVAKIEPYSNKID 120

Query: 121 PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
            +    +L+S      +  I +           I ++ + +PPLAEQ  I  +I      
Sbjct: 121 LKYALYYLMSDLGQLGVRGISKSTAQPSLSMATIRSLEIALPPLAEQHRIVAEIEKLFEL 180

Query: 181 IDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWV--------------- 225
           ID +   +     ++K+ K  ++   +   L P     +  IE +               
Sbjct: 181 IDQIEQGKADLQTIIKQTKSKILDLAIHGKLVPQDPNDEPAIELLKRINPDFTPCDNGHY 240

Query: 226 -GLVPDHWEVKPFFALVT-----------ELNRKNTKLIESNILSLSYGNIIQKLETRNM 273
              VP  W      ++               +          I  LS   ++      + 
Sbjct: 241 TFDVPSGWITTNLGSIFNVVSAKRILKSDWKHSGVPFYRAREIAKLSIYGLVDNELYISE 300

Query: 274 GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL 333
                  E + +    +I+   +        ++ +        +        + I++ Y+
Sbjct: 301 EHYNSLKEKFPVPKASDIMISAVGTIGKCYIVKESDKFYYKDAS-VLCLCNDYQINTKYI 359

Query: 334 AWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
             +MRS  + K  Y    G    ++  E  K+  + +PP+ EQ  I   I    +  D +
Sbjct: 360 YHIMRSEYMLKQMYDNSKGTTVDTITIEKAKQYILPLPPLAEQQRIVAKIEETFSIFDGI 419

Query: 393 VEKIE 397
              +E
Sbjct: 420 QNSLE 424



 Score = 71.4 bits (173), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 31/200 (15%), Positives = 66/200 (33%), Gaps = 2/200 (1%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
           + IE +  V      +    L  +    N ++      ++  G  ++           + 
Sbjct: 12  TNIEELFFVTKLAGFEYTDCLTKDTISSNNEVPIVRAQNVRMGYFVENTNEAISEALSQQ 71

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
            E   +     ++  FI        +  A          A +    + ID  Y  + + S
Sbjct: 72  LERSALTKK-CLLMTFIGAGIGDTCIFPALKRCHLAPNVAKIEPYSNKIDLKYALYYLMS 130

Query: 340 YDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
                    +  S  + SL    ++ L + +PP+ EQ  I   I      ID + +    
Sbjct: 131 DLGQLGVRGISKSTAQPSLSMATIRSLEIALPPLAEQHRIVAEIEKLFELIDQIEQGKAD 190

Query: 399 SIVLLKERRSSFIAAAVTGQ 418
              ++K+ +S  +  A+ G+
Sbjct: 191 LQTIIKQTKSKILDLAIHGK 210


>gi|224543619|ref|ZP_03684158.1| hypothetical protein CATMIT_02829 [Catenibacterium mitsuokai DSM
           15897]
 gi|224523445|gb|EEF92550.1| hypothetical protein CATMIT_02829 [Catenibacterium mitsuokai DSM
           15897]
          Length = 381

 Score =  104 bits (260), Expect = 2e-20,   Method: Composition-based stats.
 Identities = 55/398 (13%), Positives = 124/398 (31%), Gaps = 27/398 (6%)

Query: 26  KVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           +   +        G   +      + +  I ++D+          D      D       
Sbjct: 2   EYKKLGDIATYINGYAFKPEQRGSEGLPIIRIQDLTGN-----AYDLGYYNGDYPKKIEL 56

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
             G +L       L   +      + +     +    V  + L           ++    
Sbjct: 57  NDGDVLISWS-ASLGVYLWNRGKALLNQHIFKVVFDKVEIDKLYFMYAVEYSLDKMSLKT 115

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            GATM H   K   N+ +P P L  Q  I  ++ +    I+    +     EL       
Sbjct: 116 HGATMKHITKKDFDNVVIPYPDLDYQKEISYRLTSLKGIIEKYQEQLDLLDEL------- 168

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTE-LNRKNTKLIESNILSLS 260
           + +  V    +P+++ K S +++  LV    +      +  +    K     +  I   +
Sbjct: 169 IKARFVEMFGDPNIEFKYSSVKFNDLVARMTKGPFGSDMKKDLFVPKGEDTYKVYIQINA 228

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
                   E        +   +   + P + +            L+  + ME+G+I+ + 
Sbjct: 229 IQKNQSLGEYYISKEYFDRKVSRFELFPNDYIITCDGTLGK--YLKLDENMEKGVISPSL 286

Query: 321 MAV--KPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSL-KFEDVKRLPVLVPPIKEQFD 377
           + +  +   I+  Y   +   Y L  +     +     L   + +  + + VPP++ Q  
Sbjct: 287 LRLTLQNDKINDKYFENIWDFYMLGLMKKEARNACLVHLPSAKKIGEISIPVPPLELQNQ 346

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
             + +      ID    +I++S+   +E   S +    
Sbjct: 347 FASFV----QEIDKSRSRIQKSLEASQELFDSLMQEYF 380


>gi|164551503|gb|ABY60969.1| Sau1hsdS2 [Staphylococcus aureus]
 gi|323438973|gb|EGA96707.1| type I restriction-modification enzyme, S subunit [Staphylococcus
           aureus O11]
 gi|323441823|gb|EGA99464.1| type I restriction-modification enzyme, S subunit [Staphylococcus
           aureus O46]
          Length = 399

 Score =  104 bits (260), Expect = 2e-20,   Method: Composition-based stats.
 Identities = 60/403 (14%), Positives = 139/403 (34%), Gaps = 39/403 (9%)

Query: 24  HWKVVPIKRFT-KLNTGRTSE------SGKDIIYIGLEDVESGTGKYLP-KDGNSRQSDT 75
            W+   +   T K+ +G+T +      + K I ++  ++V +G          +    D 
Sbjct: 20  EWEEKQLGDLTTKIGSGKTPKGGSENYTNKGIPFLRSQNVRNGKLNLNDLVYISKDIDDE 79

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIA---DFDGICSTQ-FLVLQPKDVLPELLQGWLLSI 131
              S    G +L    G  + +  I    +     +    ++   K+        +LLS 
Sbjct: 80  MKNSRTYYGDVLLNITGASIGRTAINSIVETHANLNQHVCIIRLKKEYYYNFFGQYLLSR 139

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
              ++I     G +    ++K I N+ +  P + E+    +KI     ++D  I    + 
Sbjct: 140 KGKRKIFLAQSGGSREGLNFKEIANLKIFTPTIFEEQ---QKIGKFFSKLDRQIELEEQK 196

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           +ELL+++K+  +  I ++ L       ++G E+        +    F         ++  
Sbjct: 197 LELLQQQKKGYMQKIFSQEL---RFKDENGEEYPNWENKFIKDIFIFENNRRKPITSSLR 253

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
            +          II  +            + Y   +   ++      +  +    S    
Sbjct: 254 EKGLYPYYGATGIIDYV------------KEYLFNNEERLLIGEDGAKWGQFETSSFIAN 301

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ-SLKFEDVKRLPVLVP 370
            +  + +    VK +  +  ++ + +      K   A  +G     L   ++  + + +P
Sbjct: 302 GQYWVNNHAHVVKSNDHNLFFMNYYLN----FKELRAFVTGNAPAKLTHANLCNINLKIP 357

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            + EQ    + ++     ID  +      I LLKER+   +  
Sbjct: 358 CLTEQ----DKVSALLKSIDNKMTNQMNRIELLKERKKGLLQK 396



 Score = 68.7 bits (166), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 22/181 (12%), Positives = 53/181 (29%), Gaps = 6/181 (3%)

Query: 215 VKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK----LET 270
            +++  G+E         ++             +       I  L   N+        + 
Sbjct: 10  PELRFPGLEGEWEEKQLGDLTTKIGSGKTPKGGSENYTNKGIPFLRSQNVRNGKLNLNDL 69

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
             +    +          G+++         + ++ S       +     +         
Sbjct: 70  VYISKDIDDEMKNSRTYYGDVLLNITGASIGRTAINSIVETHANLNQHVCIIRLKKEYYY 129

Query: 331 TYLA-WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI-KEQFDITNVINVETAR 388
            +   +L+      K+F A   G R+ L F+++  L +  P I +EQ  I    +    +
Sbjct: 130 NFFGQYLLSRKGKRKIFLAQSGGSREGLNFKEIANLKIFTPTIFEEQQKIGKFFSKLDRQ 189

Query: 389 I 389
           I
Sbjct: 190 I 190


>gi|307249506|ref|ZP_07531494.1| Possible type I site-specific deoxyribonuclease [Actinobacillus
           pleuropneumoniae serovar 4 str. M62]
 gi|306858499|gb|EFM90567.1| Possible type I site-specific deoxyribonuclease [Actinobacillus
           pleuropneumoniae serovar 4 str. M62]
          Length = 388

 Score =  104 bits (260), Expect = 2e-20,   Method: Composition-based stats.
 Identities = 58/421 (13%), Positives = 118/421 (28%), Gaps = 64/421 (15%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDV--ESGTG 61
           KD  V+W            +    K   G T     +          +   ++   +   
Sbjct: 8   KDCEVEW----------KSLGEVAKYVRGLTYNKTNESDEKAGGYYVLRANNITLSNNQL 57

Query: 62  KYLPKDGNSRQSDTSTVSIFAKGQILYGKLGP----YLRKAIIADFDGICSTQFL--VLQ 115
            +         + T       K  IL            + A I++        F+  V  
Sbjct: 58  NFDDVKLVKFDTKTKPEQKLYKDDILISAASGSKEHVGKVAFISENMDFYFGGFMGVVRC 117

Query: 116 PKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKII 175
            +++LP  L   L S      +  +   +T+++ + K +    +PIPPL  Q  I + + 
Sbjct: 118 SQEILPRFLFHILTSSLFKTYLNEVLNSSTINNLNAKVMNEFQIPIPPLEIQEKIVKILD 177

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVK 235
             T    TL       + L  ++       ++  G +         +EW           
Sbjct: 178 KFTELEATLEATLEAELSLRVKQYDYYRDDLLNFGDD---------VEW----------- 217

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRF 295
                          L E  +   S  N I+  E +                  E     
Sbjct: 218 -------------KMLGEVCVRIFSGKNKIKNNEGKYNVYGSTGIIAKTDKKIYEEDLLL 264

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ 355
           I               E  +  +  +       D   L +L    +   +        + 
Sbjct: 265 IARVGANAGFVHIATGEYDVSDNTLIIKHKE--DLVILKYLYYVLENMNLNRFANGAGQP 322

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFI 411
            +    +K L +L+PP+  Q  I  +++      + + + + + I L ++     R   +
Sbjct: 323 LITAGQLKELKILLPPLSTQQKIVEILDKFDRLTNSISDGLPKEIELRRKQYEYYRERLL 382

Query: 412 A 412
            
Sbjct: 383 N 383


>gi|289450224|ref|YP_003474823.1| type I restriction modification DNA specificity domain-containing
           protein [Clostridiales genomosp. BVAB3 str. UPII9-5]
 gi|289184771|gb|ADC91196.1| type I restriction modification DNA specificity domain protein
           [Clostridiales genomosp. BVAB3 str. UPII9-5]
          Length = 396

 Score =  104 bits (260), Expect = 2e-20,   Method: Composition-based stats.
 Identities = 48/409 (11%), Positives = 126/409 (30%), Gaps = 27/409 (6%)

Query: 24  HWKVVPIKRFTKLNTGRTS--------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            W+ + +    ++  G +         +    + ++ + DV+     +   +   + S  
Sbjct: 3   DWENIELGNICEVVRGGSPRPIIDYITDEPDGVNWLKIGDVKETDKFFTHANEKIKPSGI 62

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV-T 134
                   G ++      + R  I      I      +   +  L +    + L+ ++  
Sbjct: 63  PKTREVKAGDLILSNSMSFGRAFITLIDGYIHDGWLRLRCDESRLDKEYLYYFLTSNLAQ 122

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
            + +AI  G+ +++     +  I + +P L EQ  I E +     +    I       + 
Sbjct: 123 NQFKAIATGSVVNNLKSDTVKAIKIDLPTLGEQKRIAEVLSMFDDK----IKCNEEVNKN 178

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
           L+++ QAL   +     N   +   +  E+  +       +      T      T +   
Sbjct: 179 LEQQAQALYREMFVNTTNDQRRTCRAE-EYFDIAIGKTPPRKEHQWFTTNPSDATWVS-- 235

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
            I  +          +  +  +       ++V    ++  F              +    
Sbjct: 236 -ISDMGSCGTYIIRSSEQLTQEAVDKFNIKVVPSNTVLLSFKLTVGRIAITHGEMITNEA 294

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKE 374
           I              + YL   +R  D         S +  ++  + +K +P ++P   E
Sbjct: 295 IA----HFKTDKAFINEYLYCYLR--DFNYQTMGSTSSIAIAVNSKIIKAMPFVIPADDE 348

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
                +  +     +   +   +     L + R + +   ++G+ID+  
Sbjct: 349 ----ISRFHSVVGPMFEQILNNQLENDSLADLRDTLLPRLMSGEIDVSD 393


>gi|146295063|ref|YP_001185487.1| restriction modification system DNA specificity subunit [Shewanella
           putrefaciens CN-32]
 gi|145566753|gb|ABP77688.1| restriction modification system DNA specificity domain [Shewanella
           putrefaciens CN-32]
          Length = 401

 Score =  104 bits (259), Expect = 2e-20,   Method: Composition-based stats.
 Identities = 71/371 (19%), Positives = 138/371 (37%), Gaps = 10/371 (2%)

Query: 26  KVVPIKRFTKLN--TGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           + V           T +   +     YIGLE ++SG+ K + + G   + + S   +F K
Sbjct: 5   QTVKFGDICCEVKLTTKDPIADGYERYIGLEHLDSGSLK-IKRWGMIAEDNPSFTRVFKK 63

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
           G IL+GK  PYL+KA IA+FDGICS   +V++P   + +L    + S D  +       G
Sbjct: 64  GHILFGKRRPYLKKAAIAEFDGICSGDIIVMKPDPDVKDLFPFIVQSKDFWEWSVQTSSG 123

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           +      +K + N  + IP    + L+ E++      + T         +L+K +     
Sbjct: 124 SLSPRTKFKSLANFELAIPDFNRRKLLLEEVKKSNEVVKTTDLLIDAQEQLIKSQYYKTF 183

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
              +    +    ++ +    V +      +         + + +   ++ + L++  G 
Sbjct: 184 KQELGIDDDTTYPLRINSTSNVEIKLLKELLLNKPQNGQFVKKGSGGSVDCSFLNVVDGY 243

Query: 264 IIQKLETRNMGLK--PESYETYQIVDPGEIVFRFIDLQNDKRSLR--SAQVMERGIITSA 319
           +          +    +S      +  G+I+F    L               ++      
Sbjct: 244 VNSYSTEDRREIISCSQSEFEKYCLKNGDILFNRSSLVKSGIGWPFLVLNDTKQSTFDCH 303

Query: 320 YMAVK--PHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQF 376
            + V   P  I   YL     S    K F  +G +    ++   +++  PV VP I +Q 
Sbjct: 304 LIRVNVDPKIILPEYLYIYALSPWARKYFLCVGQTTTMTTISQSEIENFPVPVPSIYKQE 363

Query: 377 DITNVINVETA 387
           +I    +    
Sbjct: 364 EIVTTFSNLFT 374


>gi|20091246|ref|NP_617321.1| type I restriction modification enzyme protein S [Methanosarcina
           acetivorans C2A]
 gi|19916365|gb|AAM05801.1| type I restriction modification enzyme protein S [Methanosarcina
           acetivorans C2A]
          Length = 391

 Score =  104 bits (259), Expect = 3e-20,   Method: Composition-based stats.
 Identities = 58/405 (14%), Positives = 124/405 (30%), Gaps = 29/405 (7%)

Query: 25  WKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           W   PI     + TG T ++ +      DI ++   +++  T   +       ++ +   
Sbjct: 4   WPHQPIISLGTIITGSTPKTSEEHFYGGDIPFVTPAELDQ-TDPIMNAARTLSETGSQES 62

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
            +  +G ++   +G  L K  IA      + Q   +     +     G+     +  R+E
Sbjct: 63  RLLPEGTVMVCCIGS-LGKVGIAGRTVASNQQINSVIFDPKIIWPRFGFYACRLLKSRLE 121

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
            +    T+   +    G + +P+PPL EQ  I + +                      E 
Sbjct: 122 VLAPATTVPIVNKSKFGQLEIPVPPLPEQKRIADILDRAEALRAKRRVALEHLD----EL 177

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
            QA+   +    ++  +  K          P    V                 +   I  
Sbjct: 178 TQAIFIDMFGDSVSNPMGWKR--------YPLKHCVNHIQIGPFGSLLHKEDYVFGGIPL 229

Query: 259 LSYGNIIQKLETRNMGLKPESYE----TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
           ++  +I       ++       +        +  G+++            + S       
Sbjct: 230 INPTHIENGKIVPDVNQSITVQKLAELQLYQLQQGDVIMGRRGEMGRCAIVGSEHNGTLC 289

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIK 373
              S ++        + YL   + S  + K            +L    V  L + +PPI+
Sbjct: 290 GTGSLFIRPDESKAIAMYLQATLSSESMRKHLEGFSLGATLPNLNRGIVGELAISLPPIE 349

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            Q + ++ I      I+ L    + S+  + E   S    A  G+
Sbjct: 350 LQKEFSHHIES----IEKLKTTYKSSLTEIDELFLSLQYRAFRGE 390



 Score = 47.9 bits (112), Expect = 0.003,   Method: Composition-based stats.
 Identities = 35/203 (17%), Positives = 67/203 (33%), Gaps = 17/203 (8%)

Query: 22  PKHWKVVPIKRFTK-LNTGRTSE---SGK----DIIYIGLEDVESGTG-KYLPKDGNSRQ 72
           P  WK  P+K     +  G               I  I    +E+G     + +    ++
Sbjct: 193 PMGWKRYPLKHCVNHIQIGPFGSLLHKEDYVFGGIPLINPTHIENGKIVPDVNQSITVQK 252

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFD----GICSTQFLVLQPKDVLPELLQGWL 128
                +    +G ++ G+ G   R AI+            + F+       +   LQ  L
Sbjct: 253 LAELQLYQLQQGDVIMGRRGEMGRCAIVGSEHNGTLCGTGSLFIRPDESKAIAMYLQATL 312

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
            S  + + +E    GAT+ + +   +G + + +PP+  Q             I+ L T  
Sbjct: 313 SSESMRKHLEGFSLGATLPNLNRGIVGELAISLPPIELQKEFS----HHIESIEKLKTTY 368

Query: 189 IRFIELLKEKKQALVSYIVTKGL 211
              +  + E   +L        L
Sbjct: 369 KSSLTEIDELFLSLQYRAFRGEL 391


>gi|291542117|emb|CBL15227.1| Restriction endonuclease S subunits [Ruminococcus bromii L2-63]
          Length = 425

 Score =  104 bits (259), Expect = 3e-20,   Method: Composition-based stats.
 Identities = 49/409 (11%), Positives = 123/409 (30%), Gaps = 25/409 (6%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYI-GLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           W+   +   +   T +  +   D ++    E        +  KD  +   +     +   
Sbjct: 19  WEQRKLGEISDKVTKKNQDVVVDEVFTNSAEYGIISQRDFFDKDIANT-ENIDGYYVVEP 77

Query: 84  GQILYGKLGPYLRKAIIADFD-----GICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
              +Y               +     G  S  + V +P +V    L+ +  +      + 
Sbjct: 78  NDFVYNPRISTTAPFGPIKRNKLERSGAMSPLYYVFRPNNVDLSYLEWFFQTSCWYPFMR 137

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
                   S                L + +  +++I      +DTLIT   R ++ +K+ 
Sbjct: 138 FNGNSGARSDRFAITDKIFNEMPISLPQDIEEQKRIGMFLTTLDTLITLHQRKLDHVKDL 197

Query: 199 KQALVSYIVTK--GLNPDVKMKDSGIEW-------VGLVPDHWEVKPFFALVTELNRKNT 249
           K++++  +  K   L P+V+  +    W       + +   +  +            K+ 
Sbjct: 198 KKSMLQKMFPKNGQLYPEVRFPEFTDAWEQRKLKNILVSLQNNTLSRADLSNETGVAKDV 257

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
              +  I      +I ++        K  +      +  G++V                 
Sbjct: 258 HYGDVLIKFGEVLDISKEKLPMITDEKVLTKYKTSFLQNGDVVVADTAEDTTVGKCSEIA 317

Query: 310 VMERGIITSAYMAVKPHGIDST---YLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRL 365
            +   ++ S    +    ++     YL + + S         +  G+   S+    ++  
Sbjct: 318 ELNDEVVISGLHTIPYRPVEKFATGYLGYYLNSDSYHNQLIPLMQGIKVTSISKSAMQDT 377

Query: 366 PVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            ++ P   +EQ  I          +D L+   ++ +  LK  +   +  
Sbjct: 378 NIIYPNSKEEQAKIGKY----FITLDNLITLHQRELDHLKLLKKGMLQQ 422


>gi|166711015|ref|ZP_02242222.1| restriction modification system DNA specificity domain [Xanthomonas
           oryzae pv. oryzicola BLS256]
          Length = 767

 Score =  104 bits (259), Expect = 3e-20,   Method: Composition-based stats.
 Identities = 56/491 (11%), Positives = 128/491 (26%), Gaps = 91/491 (18%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDII----YIGLEDVESGTGKYLPKDGNSRQSDT 75
            +P+ W         + N+G+T + G++      YI   ++  G  +         +   
Sbjct: 77  ELPESWCWARFGDIAQHNSGKTLDKGRNSGVPRDYITTSNLYWGRFELSGVRQMLIEEKD 136

Query: 76  STVSIFAKGQILYGKLGPYLR--------------KAIIADFDGICSTQFL-VLQPKDVL 120
                     +L  + G   R                  A F G  +  +      +   
Sbjct: 137 LARCTAIMNDLLICEGGEAGRAAVWDQEREICFQNHVHRARFLGGINPHYAQRFFERLNY 196

Query: 121 PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLA--------------- 165
              +  +   + ++           +          I   +  L                
Sbjct: 197 SGEIAEYRKGVGISNMSSKSLASIPVPLPPVAEQHRIVAKVDELMGLCDQMEARQADADS 256

Query: 166 -------------EQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLN 212
                         Q    E       R+             +   KQ L+   V   L 
Sbjct: 257 AHAQLVQALLDSLTQARDAEDFAHSWQRLAEHFHTLFTTESSIDALKQTLLQLAVMGKLV 316

Query: 213 PDVKMKDSGIEWVGLV--------------------------------PDHWEVKPFFAL 240
                 ++G E +  +                                P  W    F  L
Sbjct: 317 QQDPNDETGCELLKRIAEGGSALIASKKVKTSKAHTGLAVQGIKGVRLPATWAWARFDDL 376

Query: 241 VTELNRKNTKLIESNILSLSYGNIIQKLE----------TRNMGLKPESYETYQIVDPGE 290
           +         ++      +     ++  +           +++  + +S      +  GE
Sbjct: 377 INREYPIAYGVLVPGPDVVDGIPFVRIADLDLVAPPAKPEKSISPEVDSQFKRTRIRGGE 436

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG 350
           I+   +             V    I  +    V    +  +Y+ WL++S  + K F    
Sbjct: 437 ILMGVVGSVGKLGIAPDTWVGAN-IARAICRIVPCGEVSKSYILWLLQSDLMRKQFLGDT 495

Query: 351 SG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
               + +L    ++     +PP+ EQ  I   ++   A  D L  ++ ++  + +   ++
Sbjct: 496 RTLAQPTLNVGLIRSALTPLPPLAEQQRIVAKVDQLMALCDQLKSRLSEARRVHEHLANA 555

Query: 410 FIAAAVTGQID 420
            I+ A+ G+  
Sbjct: 556 LISQALNGEKK 566


>gi|46019873|emb|CAE52399.1| putative restriction-modification enzyme type I S subunit
           [Streptococcus thermophilus]
          Length = 362

 Score =  104 bits (259), Expect = 3e-20,   Method: Composition-based stats.
 Identities = 47/378 (12%), Positives = 117/378 (30%), Gaps = 27/378 (7%)

Query: 36  LNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYL 95
           +   +  +   DI ++ + DV    G+    + +  +       +  +  +L        
Sbjct: 9   IQDPKWFDKESDIGWLRIADVTEQNGRIYHLEQHISKLGQEKTRVLTEPHLLLSIAATVG 68

Query: 96  RKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIG 155
           +  +     G+     + L P     E    +        + +   +  +  + + + + 
Sbjct: 69  KPVVNYVKTGVHDGFLIFLNPTF---EREFMFQWLEMFRPKWQKYGQPGSQVNLNSELVR 125

Query: 156 NIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDV 215
           N  + +P   EQ  I         ++D  I    R ++LLKE+K+  +  +  K      
Sbjct: 126 NQEIVLPNYKEQQKIGLF----FKQLDDTIALHQRKLDLLKEQKKGFLQKMFPKNGAKVP 181

Query: 216 KMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL 275
           +++ +G           ++  +      + +        N   L+ G       T  +  
Sbjct: 182 ELRFAGFADAWEERKLGKIFNYEQPTKYIVKSTEYDDTFNTPVLTAGKSFLLGYTDEITG 241

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
              +     +V   +             +  S  V     I S+ M +     +S    +
Sbjct: 242 IKNATVENPVVIFDDF------------TTGSHYVDFPFKIKSSAMKLLSLNDNSDNFYF 289

Query: 336 LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
           +  +    K          +           +  P  +EQ  I +       ++D  +  
Sbjct: 290 MFNTLKNIKYVPQS----HERHWISKFSEFEIYKPSQEEQQKIGSF----FKQLDDTIAL 341

Query: 396 IEQSIVLLKERRSSFIAA 413
            ++ + LLKE++  F+  
Sbjct: 342 HQRKLDLLKEQKKGFLQK 359


>gi|88195627|ref|YP_500433.1| type I restriction-modification enzyme, S subunit, EcoA family
           protein [Staphylococcus aureus subsp. aureus NCTC 8325]
 gi|297207478|ref|ZP_06923914.1| EcoA family type I restriction-modification enzyme [Staphylococcus
           aureus subsp. aureus ATCC 51811]
 gi|87203185|gb|ABD30995.1| type I restriction-modification enzyme, S subunit, EcoA family,
           putative [Staphylococcus aureus subsp. aureus NCTC 8325]
 gi|296887814|gb|EFH26711.1| EcoA family type I restriction-modification enzyme [Staphylococcus
           aureus subsp. aureus ATCC 51811]
 gi|329724465|gb|EGG60973.1| type I restriction modification DNA specificity domain protein
           [Staphylococcus aureus subsp. aureus 21189]
          Length = 399

 Score =  104 bits (259), Expect = 3e-20,   Method: Composition-based stats.
 Identities = 58/403 (14%), Positives = 136/403 (33%), Gaps = 39/403 (9%)

Query: 24  HWKVVPIKRFT-KLNTGRTSE------SGKDIIYIGLEDVESGTGKYLP-KDGNSRQSDT 75
            W+   +   T K+ +G+T +      + K I ++  +++ +G          +    D 
Sbjct: 20  EWEEKKLGNLTTKIGSGKTPKGGSENYTNKGIPFLRSQNIRNGKLNLNDLVYISKDIDDE 79

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIA---DFDGICSTQ-FLVLQPKDVLPELLQGWLLSI 131
              S    G +L    G  + +  I    +     +    ++   K+        +LLS 
Sbjct: 80  MKNSRTYYGDVLLNITGASIGRTAINSIVETHANLNQHVCIIRLKKEYYYNFFGQYLLSR 139

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
              ++I     G +    ++K I N+ +  P + E+    +KI     ++D  I    + 
Sbjct: 140 KGKRKIFLAQSGGSREGLNFKEIANLKIFTPTIFEEQ---QKIGKFFSKLDRQIELEEQK 196

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           +ELL+++K+  +  I T+ L    +  +   EW         +          +    K 
Sbjct: 197 LELLQQQKKGYMQKIFTQELRFKDENGEEYPEWENKFIKDIFIFENNRRKPITSSLREKG 256

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
           +     +    + ++     N                  ++      +  +    S    
Sbjct: 257 LYPYYGATGIIDYVKDYLFNNEE---------------RLLIGEDGAKWGQFETSSFIAN 301

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ-SLKFEDVKRLPVLVP 370
            +  + +    VK +  +  ++ + +      K   A  +G     L   ++  + + +P
Sbjct: 302 GQYWVNNHAHVVKSNDHNLFFMNYYLN----FKELRAFVTGNAPAKLTHANLCNINLKIP 357

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            + EQ    + ++     ID  +      I LLKER+   +  
Sbjct: 358 CLTEQ----DKVSALLKSIDNKMNNQMNRIELLKERKKGLLQK 396



 Score = 68.3 bits (165), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 23/181 (12%), Positives = 51/181 (28%), Gaps = 6/181 (3%)

Query: 215 VKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK----LET 270
            +++  G E          +             +       I  L   NI        + 
Sbjct: 10  PELRFPGFEGEWEEKKLGNLTTKIGSGKTPKGGSENYTNKGIPFLRSQNIRNGKLNLNDL 69

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
             +    +          G+++         + ++ S       +     +         
Sbjct: 70  VYISKDIDDEMKNSRTYYGDVLLNITGASIGRTAINSIVETHANLNQHVCIIRLKKEYYY 129

Query: 331 TYLA-WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI-KEQFDITNVINVETAR 388
            +   +L+      K+F A   G R+ L F+++  L +  P I +EQ  I    +    +
Sbjct: 130 NFFGQYLLSRKGKRKIFLAQSGGSREGLNFKEIANLKIFTPTIFEEQQKIGKFFSKLDRQ 189

Query: 389 I 389
           I
Sbjct: 190 I 190


>gi|312114645|ref|YP_004012241.1| restriction modification system DNA specificity domain protein
           [Rhodomicrobium vannielii ATCC 17100]
 gi|311219774|gb|ADP71142.1| restriction modification system DNA specificity domain protein
           [Rhodomicrobium vannielii ATCC 17100]
          Length = 409

 Score =  104 bits (259), Expect = 3e-20,   Method: Composition-based stats.
 Identities = 61/413 (14%), Positives = 130/413 (31%), Gaps = 29/413 (7%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
             W  V +    ++  G   +S       I  + ++++ +G G     D +       + 
Sbjct: 3   SGWPFVRLGEVCEVTPGYAFKSQDWSHAGIPVVKIKNI-AGDGTVDLNDVDCIPPTLFSR 61

Query: 79  SI----FAKGQILYGKLGPYLRKAII--ADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
            +       G I+    G    KA         + + +   L+P DV        + S D
Sbjct: 62  KLGRFELRDGDIIIAMTGATAGKAGRVRTSRSILLNQRVARLRPNDVDAAFFWALVGSKD 121

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
             +    + +GA   +     I  + +P PP+  Q  I   + A        I    R I
Sbjct: 122 YERIFFRLADGAAQPNMSSSQIEGVLIPCPPITVQRRIGSILRAYDDL----IEVNRRRI 177

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN-TKL 251
            +L+E  + L          P  +         G +P  W       L +E+        
Sbjct: 178 AVLEEMARRLFEEWFVHFRFPGYQADIPR----GRLPSGWIWSTLGELASEVRDAVLPSD 233

Query: 252 IESNILSLSYGNIIQKLETRNM-GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
           +  +   +   ++ ++  T    G   E   T     PG+I+F  I     K        
Sbjct: 234 VSPDTPYVGLEHLPRRSTTLGEWGNVDEVTSTKLKFRPGDILFGKIRPYFHKVVWAPCDG 293

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLV 369
           +     + A +        +  +  +  S           +G       +  + + PV +
Sbjct: 294 IS---SSDAIVIRARSDDLTAIVLSVASSDAFVAHAVQTSNGTKMPRANWPVLVKYPVPL 350

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
           PP++ +   ++ +         L   ++ +   L   R   +   ++G++ + 
Sbjct: 351 PPLELREKFSDYVLNGV----QLAATLQAANRRLVASRDLLLPRLISGELSVT 399



 Score = 65.2 bits (157), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 37/158 (23%), Positives = 59/158 (37%), Gaps = 5/158 (3%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSESGK--DIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           G +P  W    +             S    D  Y+GLE +   +         +    TS
Sbjct: 207 GRLPSGWIWSTLGELASEVRDAVLPSDVSPDTPYVGLEHLPRRSTTLGE--WGNVDEVTS 264

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL-PELLQGWLLSIDVTQ 135
           T   F  G IL+GK+ PY  K + A  DGI S+  +V++ +      ++     S     
Sbjct: 265 TKLKFRPGDILFGKIRPYFHKVVWAPCDGISSSDAIVIRARSDDLTAIVLSVASSDAFVA 324

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
                  G  M  A+W  +   P+P+PPL  +    + 
Sbjct: 325 HAVQTSNGTKMPRANWPVLVKYPVPLPPLELREKFSDY 362


>gi|187939949|gb|ACD39085.1| type I restriction modification DNA specificity protein
           [Pseudomonas aeruginosa]
          Length = 395

 Score =  104 bits (259), Expect = 3e-20,   Method: Composition-based stats.
 Identities = 52/414 (12%), Positives = 133/414 (32%), Gaps = 40/414 (9%)

Query: 24  HWKVVPIKRFTKLNTGRT----SESGKDIIYIGLEDV-----ESGTGKYLPKDGNSRQSD 74
            W +V +     + + +         + + +    +V     E      L  D +  +  
Sbjct: 2   SWPIVKLGEIFDITSSKRVHEIDWRNEGVPFYRAREVAVLAKEGRVDNDLFIDESMYEEF 61

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIA--DFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
            +   +   G +L   +G   +   +   D         + L+ +  +        ++  
Sbjct: 62  KAKYGVPKVGDLLVTAVGTLGKVYAVQESDRFYFKDASVIWLRARQEVDTSYIQHAMNST 121

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
             QR      GAT+            +P+PPL EQ  I   +                  
Sbjct: 122 DVQRFIQNSSGATVGTYTISRANETEIPLPPLPEQKRIAAILDKADAIRRKRQQAIQLAD 181

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           +        L +  +    +P    K   I  +  +    +            + +    
Sbjct: 182 DF-------LRAVFLDMFGDPVTNSKGFPIGTIRDLVATADYGS-------SAKASETYG 227

Query: 253 ESNILSLSYGNIIQKLETRNMGLKP--ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
           E  IL +       +++   +      E   +  +V+ G+++F   + +          +
Sbjct: 228 EYPILRMGNITYQGRIDLEGLKYINLEEKERSKYLVEKGDLLFNRTNSKELVGKTAVYDM 287

Query: 311 MERGIITSAYMAVKPHGI-DSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPV 367
            +   I    + V+P+ + +S Y++  + S        ++   +    ++  ++++ +P+
Sbjct: 288 DDPVAIAGYLIRVRPNEMGNSHYISGYLNSAHGKATLRSICKSIVGMANINAQEMQNIPI 347

Query: 368 LVPPIKEQ---FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           ++P I+ Q    ++  V   +    D        ++ L ++  SS    A +GQ
Sbjct: 348 MLPSIELQRKYQELVVVTKCKLQVFDT-------ALKLTEQLFSSLSYKAFSGQ 394


>gi|154496691|ref|ZP_02035387.1| hypothetical protein BACCAP_00983 [Bacteroides capillosus ATCC
           29799]
 gi|150273943|gb|EDN01043.1| hypothetical protein BACCAP_00983 [Bacteroides capillosus ATCC
           29799]
          Length = 428

 Score =  104 bits (259), Expect = 3e-20,   Method: Composition-based stats.
 Identities = 60/414 (14%), Positives = 150/414 (36%), Gaps = 23/414 (5%)

Query: 19  GAIPKHWK-VVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           G +P  W   +  K   K  T +      +I+    E+      + +  D        + 
Sbjct: 27  GIMPIDWDDSIRAKDVFKNYTDKKHNGELEILASTQENGIVPRSQ-IGIDIQCSDEGVAG 85

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ-GWLLSIDVTQR 136
               ++G  +   L  +      + ++GI S  + VL+P   + ++    +  +    QR
Sbjct: 86  YKKVSQGDFVIS-LRSFQGGIEYSRYEGIVSPAYTVLKPIKSISDVYYQHYFKTSRFIQR 144

Query: 137 IEAICEGATM-SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
           + +   G        ++  G++ +  PP+ EQ  I E +    ++ D LI  + + IE  
Sbjct: 145 LNSAVYGIRDGKQIGYQDFGDLYIHYPPIDEQKKIAEIL----MQCDKLIELKRQRIEEE 200

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSG--IEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
           K KK+ ++   +     P   +  S      +  +    E         ++N       +
Sbjct: 201 KNKKKWILEETMKP---PKGILDSSNKYTGTLEDLVSKIETGISVNSTDDVNSGIDSNHK 257

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
             + + +  + +         +  + + T   V+ G ++   ++      +         
Sbjct: 258 FVLKTSAICDGVFIETECKKVVPEDYHRTSCAVEGGTLLVSRMNTPKLVGACAICYKSLP 317

Query: 314 GIITSA--YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVL 368
            +      +       +D  +L +++ S     +      G     +++  +D   LP+ 
Sbjct: 318 NVYLPDRLWKVSVKATVDPRWLNYILNSAQYKNLIQERAGGTSNSMKNISQKDFLGLPIS 377

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
            P  ++Q  I + +    + ID L++K+EQ +    +++   +   +TG + ++
Sbjct: 378 PPSYEKQVIIGDTL----SSIDNLIQKLEQEVDAWMQKKKLMMQLLLTGIVRVK 427


>gi|124515159|gb|EAY56670.1| Restriction endonuclease S subunit [Leptospirillum rubarum]
          Length = 142

 Score =  104 bits (259), Expect = 3e-20,   Method: Composition-based stats.
 Identities = 32/100 (32%), Positives = 55/100 (55%), Gaps = 2/100 (2%)

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
           + +DS+Y+ +++ +       +         +  + V    + +P + EQ  I + ++ E
Sbjct: 34  NEVDSSYVIYVLTA--GRNELFKYDRTAIPQITVDQVASNRIPIPALSEQLAIASFLDSE 91

Query: 386 TARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGES 425
           T+RID L+ +    I LLKE RSS I AAVTG+ID+RG +
Sbjct: 92  TSRIDTLISESRTFIDLLKEYRSSLITAAVTGKIDVRGFT 131



 Score = 36.7 bits (83), Expect = 7.3,   Method: Composition-based stats.
 Identities = 28/124 (22%), Positives = 50/124 (40%), Gaps = 1/124 (0%)

Query: 89  GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSH 148
            +        +I +      T       K    +      +       +        +  
Sbjct: 4   ARGNSIGHVKLIHEPCTTTQTTIYSKNLKQNEVDSSYVIYVLTAGRNELFKYDR-TAIPQ 62

Query: 149 ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVT 208
                + +  +PIP L+EQ+ I   + +ET RIDTLI+E   FI+LLKE + +L++  VT
Sbjct: 63  ITVDQVASNRIPIPALSEQLAIASFLDSETSRIDTLISESRTFIDLLKEYRSSLITAAVT 122

Query: 209 KGLN 212
             ++
Sbjct: 123 GKID 126


>gi|159904437|ref|YP_001548099.1| restriction modification system DNA specificity subunit
           [Methanococcus maripaludis C6]
 gi|159885930|gb|ABX00867.1| restriction modification system DNA specificity domain
           [Methanococcus maripaludis C6]
          Length = 397

 Score =  104 bits (259), Expect = 3e-20,   Method: Composition-based stats.
 Identities = 60/422 (14%), Positives = 123/422 (29%), Gaps = 34/422 (8%)

Query: 8   PQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKD 67
            ++KD+    IG IP  W+V  I        G                V S      P  
Sbjct: 3   DEFKDTE---IGKIPVDWEVKEIGELVTFQRGHDLP------------VNSRKNGIYPVV 47

Query: 68  GNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW 127
            ++               +  G+ G       ++      +T   V +  +  P+ +  +
Sbjct: 48  ASNGIVGYHNEYKVENEGLTIGRSGNLGEPFYVSTSFWPLNTTLYVKKFHNSHPKFMYYF 107

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
           L ++D+         G+ +   +   I  I + +PPL EQ  I + + +   +I+    +
Sbjct: 108 LKTLDLK----KYNSGSAVPSLNRNYIHPIKVAVPPLHEQQKIAQILSSLDDKIENNNQQ 163

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLV-----PDHWEVKPFFALVT 242
                E      +           N     +++G            P  W+V   + +  
Sbjct: 164 NKILEETANSIFKEWFVNFNFLDENGLSYFENNGEMEFNEDLGSEIPKGWKVGSIYEISE 223

Query: 243 ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK 302
            +         S+ L    G+    +  R++     S+ T +    G +++    +    
Sbjct: 224 VIYG----APFSSKLFNECGDGYPLIRIRDLKTLNPSFFTTEQHAKGTLIYPGNIVAGMD 279

Query: 303 RSLRS-AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM-GSGLRQSLKFE 360
              R    +   G +       KP               +    F           L   
Sbjct: 280 AEFRPYFWLGNIGYLNQRVCTFKPKYEWIHNYFIYETIKEPLNFFEKSKVGTTVIHLGKS 339

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQID 420
           D+    ++VP         N         D ++E   +    L   R   +   ++G+I 
Sbjct: 340 DIDTFKIIVPDEVTLK---NFYITIDPIFDKIIEN-SKQNRYLSNLRDLLLPKLMSGEIR 395

Query: 421 LR 422
           L+
Sbjct: 396 LK 397


>gi|269838110|ref|YP_003320338.1| restriction modification system DNA specificity domain-containing
           protein [Sphaerobacter thermophilus DSM 20745]
 gi|269787373|gb|ACZ39516.1| restriction modification system DNA specificity domain protein
           [Sphaerobacter thermophilus DSM 20745]
          Length = 532

 Score =  104 bits (258), Expect = 3e-20,   Method: Composition-based stats.
 Identities = 61/469 (13%), Positives = 138/469 (29%), Gaps = 77/469 (16%)

Query: 21  IPKHWKVVPIKRFTKLNTG----RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           +P  W    I+   +   G    ++    + +  I ++++         K  N       
Sbjct: 9   LPPGWTWATIRDTGEYINGLAFRKSDWGDEGLPIIRIQNLTD-----PSKPFNRTSRQVD 63

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ- 135
            V I  +G IL       L         G+ +     + P + L      + L       
Sbjct: 64  PVYIVHRGDILLSWS-ATLDAFTWRGETGVLNQHIFKVVPDNRLVHSPYLYHLLRHAIDL 122

Query: 136 -RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
            +  +   G+TM H +     +  +P+ PLAEQ  I  +I     R+D  +    R    
Sbjct: 123 LKQSSHLHGSTMKHINRGPFLSFQVPLAPLAEQRRIVAEIEKHFTRLDAAVAALERARAN 182

Query: 195 LKEKK----------------------------------QALVSY------------IVT 208
           LK  +                                  Q ++              +  
Sbjct: 183 LKRYRAAVLKAACEGRLVPTEAELARAEGRDYETGEQLLQRILQERRAKWEAEELAKLRA 242

Query: 209 KGLNPDVKMKD--------SGIEWVGLVPDHWEVKPFFA---LVTELNRKNTKLIESNIL 257
           KG  P                   +  +P+ W           +     K         +
Sbjct: 243 KGKEPKDDRWKARYKEPAAPDTSDLPELPEGWVWARLDQLLGSLRNGISKKPDSESGTPI 302

Query: 258 SLSYGNIIQKLETRNMGLKPESYETY--QIVDPGEIVFRFIDLQNDKRSLR--SAQVMER 313
                     +    +     S + Y   ++  G+++F   +   +   +      V  +
Sbjct: 303 LRINAVRPLSVNMEEIRYLSGSVDQYADYVLCQGDLLFTRYNGSPELVGVCGAVRAVDRK 362

Query: 314 GIITSAYMAVK--PHGIDSTYLAWLMRSYDLCKVF--YAMGSGLRQSLKFEDVKRLPVLV 369
            +     +  +   H   S+++  ++      +        +  +  +   D++ +P+ +
Sbjct: 363 VVYPDKLIRARLASHLCLSSFVQIVLNVGLSREFIARRIRTTAGQSGVSGSDIRSVPLPL 422

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           PP+ EQ  I   +    + ++ L  +IE ++   +  R + +  A  G+
Sbjct: 423 PPLAEQRRIVAEVERRLSVVEELERQIEANLKRAERLRQAILKRAFAGK 471



 Score = 86.8 bits (213), Expect = 6e-15,   Method: Composition-based stats.
 Identities = 38/208 (18%), Positives = 71/208 (34%), Gaps = 10/208 (4%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLE-TRNMGLKPESYE 281
           +    +P  W           +N    +  +     L    I    + ++         +
Sbjct: 4   DNSPCLPPGWTWATIRDTGEYINGLAFRKSDWGDEGLPIIRIQNLTDPSKPFNRTSRQVD 63

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI--DSTYLAWLMRS 339
              IV  G+I+  +    +           E G++      V P      S YL  L+R 
Sbjct: 64  PVYIVHRGDILLSWSATLD-----AFTWRGETGVLNQHIFKVVPDNRLVHSPYLYHLLRH 118

Query: 340 -YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
             DL K    +     + +         V + P+ EQ  I   I     R+D  V  +E+
Sbjct: 119 AIDLLKQSSHLHGSTMKHINRGPFLSFQVPLAPLAEQRRIVAEIEKHFTRLDAAVAALER 178

Query: 399 SIVLLKERRSSFIAAAVTGQIDLRGESQ 426
           +   LK  R++ + AA  G++ +  E++
Sbjct: 179 ARANLKRYRAAVLKAACEGRL-VPTEAE 205



 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 33/213 (15%), Positives = 69/213 (32%), Gaps = 16/213 (7%)

Query: 18  IGAIPKHWKVVPIKRF-TKLNTG--RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           +  +P+ W    + +    L  G  +  +S      + +  V   +         S   D
Sbjct: 267 LPELPEGWVWARLDQLLGSLRNGISKKPDSESGTPILRINAVRPLSVNMEEIRYLSGSVD 326

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
                +  +G +L+ +         +         +  V+ P  ++   L   L      
Sbjct: 327 QYADYVLCQGDLLFTRYNGSPELVGVCGAVRAVDRK--VVYPDKLIRARLASHLCLSSFV 384

Query: 135 QRI-----------EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           Q +             I   A  S      I ++P+P+PPLAEQ  I  ++      ++ 
Sbjct: 385 QIVLNVGLSREFIARRIRTTAGQSGVSGSDIRSVPLPLPPLAEQRRIVAEVERRLSVVEE 444

Query: 184 LITERIRFIELLKEKKQALVSYIVTKGLNPDVK 216
           L  +    ++  +  +QA++       L P   
Sbjct: 445 LERQIEANLKRAERLRQAILKRAFAGKLVPQDP 477


>gi|194442247|ref|YP_002043768.1| putative type I restriction-modification system S subunit
           [Salmonella enterica subsp. enterica serovar Newport
           str. SL254]
 gi|194400910|gb|ACF61132.1| putative type I restriction-modification system, S subunit
           [Salmonella enterica subsp. enterica serovar Newport
           str. SL254]
          Length = 571

 Score =  104 bits (258), Expect = 3e-20,   Method: Composition-based stats.
 Identities = 81/497 (16%), Positives = 159/497 (31%), Gaps = 93/497 (18%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTK--LNTGRTSESGKDIIYI-GLEDVE 57
           +K  K  P+   S  +    +P  W+   +   +          E      +I  LED+E
Sbjct: 83  IKKQKPLPEI--SEEEKPFELPMGWEWTRLGSISNYGFCDKAEPEDVTPETWILELEDIE 140

Query: 58  SGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPK 117
             T K + K   + +   S+ + F++G +LYGKL PYL K I+A+  G+C+T+ + +   
Sbjct: 141 KVTSKLINKVTFAERPFKSSKNRFSQGDVLYGKLRPYLDKVIVANEPGVCTTEIIPITSY 200

Query: 118 DVL-PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIA 176
             + PE L+  L + +      +   G  +     +      + + P+ EQ+ I  ++  
Sbjct: 201 GNIYPEFLRLLLKAPNFIIYANSSTHGMNLPRLGTEKAQQAVIELAPIQEQLRIVSRVDK 260

Query: 177 ETVRIDTLITERIRFIELLKE--------------------------------------- 197
                D L    +  ++  ++                                       
Sbjct: 261 LMSLCDQLEQHSLTSLDAHQQLVETLLTTLTDSQNADELAENWARISEHFDTLFTTEASI 320

Query: 198 --KKQALVSYIVTKGLNPDVKMKDSGIEWV------------------------------ 225
              KQ ++   V   L P     +   E +                              
Sbjct: 321 AALKQTILQLAVMGKLVPQDPNDEPASELLKRIAQEKAQLVKDGKMKKQKPLPPISDEEK 380

Query: 226 -GLVPDHWEVKPFFALVT----ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
              +P  WE       +     +  + +    E +   L Y     +    +      + 
Sbjct: 381 PFELPIGWEWCRLGECINLISGQHLKPDEYEEECHGEMLPYITGPAEFGLISPTYSKYTN 440

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY 340
           E   I   G+I+         K ++    +     I+   MA+    ++S YL  ++ S 
Sbjct: 441 EKRAIAAKGDILITCKGAGLGKLNVADTNI----AISRQLMAINVIRMNSEYLKIILDSM 496

Query: 341 DLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV----LVEK 395
                F + G G     +  EDV    +++PP +EQ  I   +      I+     +   
Sbjct: 497 YG--YFQSKGVGIAIPGISREDVMEPLIMLPPFEEQKRIMENLYKLNFFIEDIKFRIKSA 554

Query: 396 IEQSIVLLKERRSSFIA 412
            +  + L      + I 
Sbjct: 555 QQTQLHLADALTDAAIN 571


>gi|68536333|ref|YP_251037.1| putative DNA restriction-modification system, specificity subunit
           [Corynebacterium jeikeium K411]
 gi|68263932|emb|CAI37420.1| putative DNA restriction-modification system, specificity subunit
           [Corynebacterium jeikeium K411]
          Length = 407

 Score =  104 bits (258), Expect = 3e-20,   Method: Composition-based stats.
 Identities = 58/419 (13%), Positives = 127/419 (30%), Gaps = 33/419 (7%)

Query: 24  HWKVVPIKRFTKLNTGRTS---------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
            W    I     +  G +          +    + +I + DV    G+ L         D
Sbjct: 4   DWIDTTIGELAVVTRGASPRPISSDRWFDDAGKVGWIRIADVNRSNGRELKVTSQRLSED 63

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
               S F     L   +   +   +I          F+ L   +   + +   L + +  
Sbjct: 64  GILRSRFLDSGTLILSIAASVGIPVITQIPACIHDGFVALTSVNADQKFMLYLLKAAEGR 123

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRIDTLITERIRFIE 193
             +    +  +  + +   +  +P+ IP   AEQ  I   +  +   I +L     +   
Sbjct: 124 --LREAGQSGSQMNINSDIVRGLPVKIPADFAEQKAISSALWEKDDLISSLERLISKKQA 181

Query: 194 LLKEKKQALVS-YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           + +   Q L++      G +        G   +G            +      R   +  
Sbjct: 182 IKQGMMQELLTGRTRLPGFSASWFSSTWGELALG-----------ISSGATPRRGVAEYW 230

Query: 253 ESNILSLSYGNIIQK---LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
              I  ++   + +       +++          +I   G  +     L+      +   
Sbjct: 231 NGEIPWVTSTELKRGPVDSIPQSITTAGLRAANLRIWPAGTFLMAITGLEAAGTRGKCGL 290

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVL 368
           +        + MAV P     T   +    +    + +    G  +QS     VK+LP+ 
Sbjct: 291 LSVAAATNQSCMAVAPGPDLDTEFLFYYYLHYGNDLAFKYVQGTKQQSYTAAIVKKLPIH 350

Query: 369 VPP-IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
           +P  + EQ  I  V+       D  +  +E+ +   +  +   +   +TG+  L  E +
Sbjct: 351 LPSDVSEQQAIAQVLRDA----DHEIAALERCLESARNIKQGMMQELLTGRTRLPFEGE 405


>gi|223040252|ref|ZP_03610530.1| restriction modification system specificity subunit [Campylobacter
           rectus RM3267]
 gi|222878505|gb|EEF13608.1| restriction modification system specificity subunit [Campylobacter
           rectus RM3267]
          Length = 420

 Score =  104 bits (258), Expect = 3e-20,   Method: Composition-based stats.
 Identities = 49/404 (12%), Positives = 119/404 (29%), Gaps = 27/404 (6%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W +  +    K    R  +    ++ +          +   ++            +  K 
Sbjct: 23  WNIKKLGCLMKPINERAGDKKYVLMSVTSGVGLIPQVEKFGREIAGNS--YKNYYVIRKN 80

Query: 85  QILYGKLGPYLRK------------AIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
              Y K                   A I +    C              +L         
Sbjct: 81  DFAYNKSSTKEFPEGYISMLKEYEEAAIPNSIFTCFRVIDDEYEPLFFEQLFNTNYHGKW 140

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           + + IE           D K + N+P+ +P L EQ  I + + +    I     + +   
Sbjct: 141 LRKYIEIGARAHGALSIDTKHLWNMPVAVPKLPEQQKIADCLSSIDDLISAEEKKLLLLN 200

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           +  K   Q L          P+ +  +          +  +                +  
Sbjct: 201 DYKKGWMQKLF--PAEGKTVPEWRFPEFKDSEGWEKLNIKKACYPSYSGGTPVTSKKEYY 258

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
             +I  +  G I ++     +  +     + ++++ G+++       +   ++       
Sbjct: 259 NGDIPFIRSGEIGKEKTELFLTSEGLDNSSAKMIEKGDVLMALYGANSGDVAISPI---- 314

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-P 371
           +G I  A + ++    ++    +   ++    +      G + +L  E VK + +  P  
Sbjct: 315 KGAINQAILCLRHK--NNNAFLYHYLAFKKNWIVRTYIQGGQGNLSGEIVKSIELCSPQE 372

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
             EQ  I   ++V    ID L    ++ I  LK+ +++ +    
Sbjct: 373 PDEQNRIAAFLSV----IDELTSNQKEKIEALKQHKTALMQGLF 412



 Score = 61.7 bits (148), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 32/203 (15%), Positives = 59/203 (29%), Gaps = 17/203 (8%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTK-LNTGRTS-ESGKDIIYIGLEDVESGTGKY 63
            +P++KDS         + W+ + IK+      +G T   S K+     +  + SG    
Sbjct: 222 RFPEFKDS---------EGWEKLNIKKACYPSYSGGTPVTSKKEYYNGDIPFIRSGEIGK 272

Query: 64  LPKDGNSRQS--DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP 121
              +        D S+  +  KG +L    G       I+   G  +   L L+ K    
Sbjct: 273 EKTELFLTSEGLDNSSAKMIEKGDVLMALYGANSGDVAISPIKGAINQAILCLRHK---N 329

Query: 122 ELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLA-EQVLIREKIIAETVR 180
                +         I          +   + + +I +  P    EQ  I   +      
Sbjct: 330 NNAFLYHYLAFKKNWIVRTYIQGGQGNLSGEIVKSIELCSPQEPDEQNRIAAFLSVIDEL 389

Query: 181 IDTLITERIRFIELLKEKKQALV 203
                 +     +      Q L 
Sbjct: 390 TSNQKEKIEALKQHKTALMQGLF 412


>gi|170718633|ref|YP_001783832.1| restriction modification system DNA specificity subunit
           [Haemophilus somnus 2336]
 gi|168826762|gb|ACA32133.1| restriction modification system DNA specificity domain [Haemophilus
           somnus 2336]
          Length = 471

 Score =  104 bits (258), Expect = 4e-20,   Method: Composition-based stats.
 Identities = 49/461 (10%), Positives = 113/461 (24%), Gaps = 79/461 (17%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           +P+ WK   +    K       +  K I    L D       Y     N         + 
Sbjct: 12  LPQGWKKYNLFEICK------PKQWKTIAVKDLTD-----TGYPVYGANGVIGYYHKYNH 60

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
                +L    G    +  I+      +   + +        +   +     +   +  I
Sbjct: 61  -ENATVLLTCRGATCGEIHISKPYSYINGNAMCMDNLSEKITIEFLYFYLKSI--NLSFI 117

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
             G+        G+  + +P+PPL  Q  I  KI      ID  I       + LK+ +Q
Sbjct: 118 ISGSAQPQITQVGLKKLEIPVPPLPTQQAIVNKIETLFADIDAGIDRLKTAQKQLKQYRQ 177

Query: 201 AL------------------------------VSYIVTKGLNPDVKMKDSGIEW------ 224
           +L                              +           +    S +E       
Sbjct: 178 SLLKNAFNGELTKDWREQNADNLPSSSELLAQIQQAREAHHAKQLADWQSAVEKWEQTRK 237

Query: 225 --------------------VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
                               +  +P  W       +              N         
Sbjct: 238 IGKKPSKPKAQTQAVQFEESLEDLPSGWGTIKINQVANIFTGATPLKSNPNYYINGSIPW 297

Query: 265 IQKLETRNMGLKPES---------YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
           +      N  ++                +++    ++         +       +     
Sbjct: 298 VTSGSLNNAFVECADNFVTDLALKETNLKLLPKHTLLIAMYGEGKTRGKCSELLIEATTN 357

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
              A + +  +   S          +   +      G++ +L    V  +    P + EQ
Sbjct: 358 QAIAGIVLYENFPISRQFLKFYMFKNYADLRRQSSGGVQPNLNLSLVGNIVFPFPCLTEQ 417

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
            +I  ++  + +  D L   + + +   +  + + + +A +
Sbjct: 418 TEIVRILESKLSAYDQLATTLSKQLKQAELLKQAVLKSAFS 458



 Score = 88.3 bits (217), Expect = 2e-15,   Method: Composition-based stats.
 Identities = 25/149 (16%), Positives = 55/149 (36%), Gaps = 6/149 (4%)

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
             Y      +   ++         +  +        G   +  M      I   +L + +
Sbjct: 52  IGYYHKYNHENATVLLTCRGATCGEIHISKPYSYING--NAMCMDNLSEKITIEFLYFYL 109

Query: 338 RSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
           +S +L  +        +  +    +K+L + VPP+  Q  I N I    A ID  +++++
Sbjct: 110 KSINLSFII---SGSAQPQITQVGLKKLEIPVPPLPTQQAIVNKIETLFADIDAGIDRLK 166

Query: 398 QSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
            +   LK+ R S +  A  G++  +   +
Sbjct: 167 TAQKQLKQYRQSLLKNAFNGELT-KDWRE 194



 Score = 64.8 bits (156), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 30/207 (14%), Positives = 65/207 (31%), Gaps = 12/207 (5%)

Query: 16  QWIGAIPKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPKDG 68
           + +  +P  W  + I +   + TG T             I ++    + +   +      
Sbjct: 256 ESLEDLPSGWGTIKINQVANIFTGATPLKSNPNYYINGSIPWVTSGSLNNAFVECADNFV 315

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGP--YLRKAIIADFDGICSTQF--LVLQPKDVLPELL 124
                  + + +  K  +L    G      K      +   +     +VL     +    
Sbjct: 316 TDLALKETNLKLLPKHTLLIAMYGEGKTRGKCSELLIEATTNQAIAGIVLYENFPISRQF 375

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
             + +  +          G    + +   +GNI  P P L EQ  I   + ++    D L
Sbjct: 376 LKFYMFKNYADLRRQS-SGGVQPNLNLSLVGNIVFPFPCLTEQTEIVRILESKLSAYDQL 434

Query: 185 ITERIRFIELLKEKKQALVSYIVTKGL 211
            T   + ++  +  KQA++    +  L
Sbjct: 435 ATTLSKQLKQAELLKQAVLKSAFSARL 461


>gi|325924160|ref|ZP_08185722.1| restriction endonuclease S subunit [Xanthomonas gardneri ATCC
           19865]
 gi|325545356|gb|EGD16648.1| restriction endonuclease S subunit [Xanthomonas gardneri ATCC
           19865]
          Length = 425

 Score =  104 bits (258), Expect = 4e-20,   Method: Composition-based stats.
 Identities = 51/411 (12%), Positives = 113/411 (27%), Gaps = 35/411 (8%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLP------KDGNSRQSDTSTVS 79
           +   +    +L  G      KD    G+  +  G    L                   + 
Sbjct: 17  EWKALGSLGELIRG-NGLQKKDFTETGIPAIHYGQIYTLYGLSTTKTKSFVSPEVAKQLR 75

Query: 80  IFAKGQILYGKLGPYLRKAI-----IADFDGICSTQFLVLQPKDVLPELLQGWLLS-IDV 133
              KG ++       L         + +   +      +L+P + L      +     D 
Sbjct: 76  KVDKGDVVITNTSENLEDVGKALVYLGESQAVTGGHATILKPGNCLLGKYFAYFTQTDDF 135

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPP-------LAEQVLIREKIIAETVRIDTLIT 186
             +     +G  +       +    +PIP        L  Q  I   +   T     L T
Sbjct: 136 ASQKIKYAKGTKVIDVSATDMAKTFIPIPCPDNPKKSLETQAEIVRILDIFTELTTELTT 195

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
           E    +   K++       +++           +  E                       
Sbjct: 196 ELTTELTARKKQYSYYRDRLLS--FEEGYVEWKTLPEMATDFGRGKSKHRPRNDARLYGG 253

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
               +   +I S S+      +   N        +  ++   G +         +   L 
Sbjct: 254 DVPFIQTGDIRSASHV-----ITDFNQTYSERGLKQSKLWPKGTLCITIAANIAETSILG 308

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY-AMGSGLRQSLKFEDVKRL 365
                   +I         +   S Y+ +L++S+           S  + ++     ++L
Sbjct: 309 FDACFPDSVIG---FVADSNKTSSGYVEYLLQSFKTKLEEKGKEKSSAQSNINLGTFEQL 365

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
            +  PP++EQ  I ++++   A  + L E +   I L ++     R   ++
Sbjct: 366 KLPFPPLEEQVRIVSILDKFDALTNSLTEGLPLEIELRQKQYAYYRDLLLS 416


>gi|198277090|ref|ZP_03209621.1| hypothetical protein BACPLE_03298 [Bacteroides plebeius DSM 17135]
 gi|198269588|gb|EDY93858.1| hypothetical protein BACPLE_03298 [Bacteroides plebeius DSM 17135]
          Length = 529

 Score =  104 bits (258), Expect = 4e-20,   Method: Composition-based stats.
 Identities = 70/441 (15%), Positives = 126/441 (28%), Gaps = 74/441 (16%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRT----SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            IPK W+   I        G+T     ESGK+  Y+   +V   +           + D 
Sbjct: 86  EIPKGWEWARINAIGVSQLGKTLDRGKESGKEYPYLCSINVYWDSINLSKIKTFRLRDDE 145

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
                  KG +L  + G Y R  I    + +     L                +      
Sbjct: 146 LPKYKLRKGDLLICEGGDYGRCCIWDRNEDMYYQNALHRVRFHGGLIPSFYKYVFELYRN 205

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
               + +G T+ H  ++ + +I  P+P + EQ  I  +I      +            L 
Sbjct: 206 IGYIVGQGQTIKHFTYENMRSILFPVPSIHEQKRIVSRIEEIQPIVKKYQRTEDALKRLN 265

Query: 196 KEKK----QALVSYIVTKGL---------------------------------------- 211
            E      ++++   +   L                                        
Sbjct: 266 TEIFDKLKKSILQEAIQGKLVSQITEEGTAQELLKQIKTEKEKLVKKGKLKKSALTDSVI 325

Query: 212 -----NPDVKMKDSGI-----EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL-- 259
                N   +   +       E    +P  W       + + + R  +            
Sbjct: 326 YKGDDNKYWEKYGTETICVNDEIPFEIPATWIWVRLDNICSYIQRGKSPKYSPIKKYPVI 385

Query: 260 ------SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQN---DKRSLRSAQV 310
                   G  I K +  +    P SY   +++  G++++    L           +   
Sbjct: 386 AQKCNQWAGFCIDKAQFIDPNSLP-SYSEERLLQDGDLMWNSTGLGTLGRMAIYQSALNP 444

Query: 311 MERGIITSAYMAVKP--HGIDSTYLAWLMRSYDLCKVF--YAMGSGLRQSLKFEDVKRLP 366
            E  +  S    ++P    I S YL +   S  +  V    + GS  ++ L    VK   
Sbjct: 445 YELAVADSHVTVIRPLKEHILSQYLYYYFASDTVQSVIEDKSDGSTKQKELSTTTVKNYL 504

Query: 367 VLVPPIKEQFDITNVINVETA 387
           V +PP +EQ  I   I   T+
Sbjct: 505 VPIPPYREQQRIVEKIKTVTS 525



 Score = 74.1 bits (180), Expect = 4e-11,   Method: Composition-based stats.
 Identities = 28/212 (13%), Positives = 65/212 (30%), Gaps = 15/212 (7%)

Query: 218 KDSGIEWVGLVPDHWEVKPFFALVTELNRKN------TKLIESNILSLSYGNIIQKLETR 271
           K    E    +P  WE     A+      K       +      + S++       L   
Sbjct: 77  KCIDEEIPFEIPKGWEWARINAIGVSQLGKTLDRGKESGKEYPYLCSINVYWDSINLSKI 136

Query: 272 NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST 331
                 +       +  G+++       +  R     +  +     + +      G+  +
Sbjct: 137 KTFRLRDDELPKYKLRKGDLLICEGG--DYGRCCIWDRNEDMYYQNALHRVRFHGGLIPS 194

Query: 332 YLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
           +  ++   Y         G    +   +E+++ +   VP I EQ  I + I      I  
Sbjct: 195 FYKYVFELYRNIGYIVGQGQ-TIKHFTYENMRSILFPVPSIHEQKRIVSRIEEI-QPIVK 252

Query: 392 LVEKIEQSIVLLK-----ERRSSFIAAAVTGQ 418
             ++ E ++  L      + + S +  A+ G+
Sbjct: 253 KYQRTEDALKRLNTEIFDKLKKSILQEAIQGK 284


>gi|322615694|gb|EFY12614.1| Type I restriction enzyme EcoAI specificity protein (S protein)
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. 315996572]
 gi|322618755|gb|EFY15644.1| Type I restriction enzyme EcoAI specificity protein (S protein)
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. 495297-1]
 gi|322621831|gb|EFY18681.1| Type I restriction enzyme EcoAI specificity protein (S protein)
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. 495297-3]
 gi|322627556|gb|EFY24347.1| Type I restriction enzyme EcoAI specificity protein (S protein)
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. 495297-4]
 gi|322630863|gb|EFY27627.1| Type I restriction enzyme EcoAI specificity protein (S protein)
           (S.EcoAI) [Salmonella enterica subsp. enterica serovar
           Montevideo str. 515920-1]
 gi|322637919|gb|EFY34620.1| Type I restriction enzyme EcoAI specificity protein (S protein)
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. 515920-2]
 gi|322643847|gb|EFY40395.1| Type I restriction enzyme EcoAI specificity protein (S protein)
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. NC_MB110209-0054]
 gi|322659905|gb|EFY56148.1| Type I restriction enzyme EcoAI specificity protein (S protein)
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. 19N]
 gi|322661886|gb|EFY58102.1| Type I restriction enzyme EcoAI specificity protein (S protein)
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. 81038-01]
 gi|322666368|gb|EFY62546.1| Type I restriction enzyme EcoAI specificity protein (S protein)
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. MD_MDA09249507]
 gi|322672787|gb|EFY68898.1| Type I restriction enzyme EcoAI specificity protein (S protein)
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. 414877]
 gi|322676216|gb|EFY72287.1| Type I restriction enzyme EcoAI specificity protein (S protein)
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. 366867]
 gi|322680701|gb|EFY76739.1| Type I restriction enzyme EcoAI specificity protein (S protein)
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. 413180]
 gi|322684405|gb|EFY80409.1| Type I restriction enzyme EcoAI specificity protein (S protein)
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. 446600]
 gi|323194257|gb|EFZ79454.1| Type I restriction enzyme EcoAI specificity protein (S protein)
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. 609458-1]
 gi|323197404|gb|EFZ82544.1| Type I restriction enzyme EcoAI specificity protein (S protein)
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. 556150-1]
 gi|323201479|gb|EFZ86543.1| Type I restriction enzyme EcoAI specificity protein (S protein)
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. 609460]
 gi|323205993|gb|EFZ90955.1| Type I restriction enzyme EcoAI specificity protein (S protein)
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. 507440-20]
 gi|323213005|gb|EFZ97807.1| Type I restriction enzyme EcoAI specificity protein (S protein)
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. 556152]
 gi|323226181|gb|EGA10398.1| Type I restriction enzyme EcoAI specificity protein (S protein)
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. MB110209-0055]
 gi|323228834|gb|EGA12963.1| Type I restriction enzyme EcoAI specificity protein (S protein)
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. MB111609-0052]
 gi|323236555|gb|EGA20631.1| Type I restriction enzyme EcoAI specificity protein (S protein)
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. 2009083312]
 gi|323239945|gb|EGA23992.1| Type I restriction enzyme EcoAI specificity protein (S protein)
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. 2009085258]
 gi|323242008|gb|EGA26037.1| Type I restriction enzyme EcoAI specificity protein (S protein)
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. 315731156]
 gi|323247844|gb|EGA31781.1| Type I restriction enzyme EcoAI specificity protein (S protein)
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. IA_2009159199]
 gi|323251516|gb|EGA35387.1| Type I restriction enzyme EcoAI specificity protein (S protein)
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. IA_2010008282]
 gi|323258117|gb|EGA41794.1| Type I restriction enzyme EcoAI specificity protein (S protein)
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. IA_2010008283]
 gi|323263740|gb|EGA47261.1| Type I restriction enzyme EcoAI specificity protein (S protein)
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. IA_2010008284]
 gi|323265666|gb|EGA49162.1| Type I restriction enzyme EcoAI specificity protein (S protein)
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. IA_2010008285]
 gi|323270111|gb|EGA53559.1| Type I restriction enzyme EcoAI specificity protein (S protein)
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. IA_2010008287]
          Length = 589

 Score =  104 bits (258), Expect = 4e-20,   Method: Composition-based stats.
 Identities = 68/511 (13%), Positives = 129/511 (25%), Gaps = 103/511 (20%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKD------IIYIGLE 54
           +K  K  P+   S  +    +P  W+ V          G+T    KD      I ++  +
Sbjct: 83  IKKQKPLPEI--SEEEKPFELPVGWEWVTFSHLGHFFGGKTPSKMKDEYWGGTIPWVTPK 140

Query: 55  DVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLR---KAIIADFDGICSTQF 111
           D+++               +   ++  + G IL+      LR      I   +   +   
Sbjct: 141 DMKTNLIVDSEDKVTPLAIE-DGLTKVSPGSILFVARSGILRRIFPVAITSIECTVNQDL 199

Query: 112 LVLQPKDVLPELLQGWLLSIDVTQRIEAI-CEGATMSHADWKGIGNIPMPIPPLAEQV-- 168
            VL P           +++      +E +   G T+    +    + P  IPP AEQ   
Sbjct: 200 KVLSPFLSEISYYIRLMMNGFERYIVENLTKTGTTVESLLFDDFISHPFMIPPFAEQNRI 259

Query: 169 ---------------------------------------LIREKIIAETVRIDTLITERI 189
                                                     + +     RI        
Sbjct: 260 LSTVKKLMSLCDQLEQHSLTSLDAHQQLVETLLTTLTDSQNADALAENWARISEHFDTLF 319

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKD------------------------------ 219
                +   KQ ++   V   L P     +                              
Sbjct: 320 TTEASIDALKQTILQLAVMGKLVPQDPNDEPASELLKRIAQEKAQLVKDGKIKKQKPLPP 379

Query: 220 -SGIEWVGLVPDHWEVKP-------FFALVTELNRKNTKLIESNILSLSYGNIIQKLETR 271
            S  E    VP+ WE                       + +   I  ++ G+I +     
Sbjct: 380 ISDKEKPFEVPEGWEWCKFGLISEFINGDRGSNYPNKNEYVVHGIPWINTGHIEKNGTLS 439

Query: 272 NMGLKPESYETYQ-----IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
              +   + + +       +  G++V+        K +          I +S  +     
Sbjct: 440 ITDMNFITEKKFNELRSGKIQSGDLVYCLRGATFGKTAFVKPYESG-AIASSLMIIRPFI 498

Query: 327 GIDSTYLAWLMRSYDLCKVFYAM-GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
                Y+   + S       +       + +L    V       PP++EQF I   I   
Sbjct: 499 REMGEYIYNYLISPFGRSQIFRFDNGSAQPNLSANSVMLYAFACPPLQEQFRIHKKITEL 558

Query: 386 TARIDVLV----EKIEQSIVLLKERRSSFIA 412
               D L        +  + L      + I 
Sbjct: 559 FHICDNLKLQTQSAQQTQLHLADALTDAAIN 589


>gi|332686985|ref|YP_004456759.1| type I restriction-modification system, specificity subunit S
           [Melissococcus plutonius ATCC 35311]
 gi|332370994|dbj|BAK21950.1| type I restriction-modification system, specificity subunit S
           [Melissococcus plutonius ATCC 35311]
          Length = 328

 Score =  104 bits (258), Expect = 4e-20,   Method: Composition-based stats.
 Identities = 63/334 (18%), Positives = 132/334 (39%), Gaps = 17/334 (5%)

Query: 87  LYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATM 146
           L+       + AI+    G  +  F  + P     +    +  + D+ +  E    G+T 
Sbjct: 2   LFTSRAGIGKTAILLKE-GCTNQGFQSIVPHKERLDSYFIFSKTDDLKKYGEKNGAGSTF 60

Query: 147 SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYI 206
                K I ++ + IP + EQ  I   +     ++D +IT +   +ELLK+ KQ  +  +
Sbjct: 61  IEVSGKQISHMSIIIPEIEEQQKIGNFL----KQLDDIITLQQHKLELLKQMKQGYLQKM 116

Query: 207 VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ 266
             K      +++ +G           ++         L+R    L +++I  + YG+I  
Sbjct: 117 FPKNEEDKPEIRFAGYTGAWEQRKFGDMVERVKS-YSLSRDVETLEDTDIKYVHYGDIHT 175

Query: 267 KLET---RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS---LRSAQVMERGIITSAY 320
           K+     +   L    Y+ Y+ +  G+++           +   +    V  + +     
Sbjct: 176 KVADRVTKLSNLPFIKYDDYEFIQKGDVIVADASEDYKGIATPSVIIEDVGYKLVAGLHT 235

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDIT 379
           +A++P  +DS +L +LM S    K  Y +G+G+    + + ++       P I EQ  I 
Sbjct: 236 IALRPFDMDSVFLYYLMNSNSFRKHGYRVGTGMKVFGISYSNILNFETYFPQIDEQKKIG 295

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
                   +ID  +   +  + LLK+ +  ++  
Sbjct: 296 ----WMLLKIDDSIALHQHKLELLKQMKQGYLQK 325



 Score = 70.6 bits (171), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 19/119 (15%), Positives = 51/119 (42%), Gaps = 5/119 (4%)

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LR 354
           +   +     ++A +++ G     + ++ PH           ++ DL K     G+G   
Sbjct: 1   MLFTSRAGIGKTAILLKEGCTNQGFQSIVPHKERLDSYFIFSKTDDLKKYGEKNGAGSTF 60

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
             +  + +  + +++P I+EQ  I N +     ++D ++   +  + LLK+ +  ++  
Sbjct: 61  IEVSGKQISHMSIIIPEIEEQQKIGNFL----KQLDDIITLQQHKLELLKQMKQGYLQK 115



 Score = 56.7 bits (135), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 31/196 (15%), Positives = 59/196 (30%), Gaps = 17/196 (8%)

Query: 25  WKVVPIKRFTKLNTGRTSESG------KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           W+        +     +           DI Y+   D+ +     + K  N         
Sbjct: 136 WEQRKFGDMVERVKSYSLSRDVETLEDTDIKYVHYGDIHTKVADRVTKLSNLPFIKYDDY 195

Query: 79  SIFAKGQILYGKLGPYLRKAIIA-------DFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
               KG ++        +             +  +     + L+P D+    L   + S 
Sbjct: 196 EFIQKGDVIVADASEDYKGIATPSVIIEDVGYKLVAGLHTIALRPFDMDSVFLYYLMNSN 255

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
              +    +  G  +    +  I N     P + EQ    +KI    ++ID  I      
Sbjct: 256 SFRKHGYRVGTGMKVFGISYSNILNFETYFPQIDEQ----KKIGWMLLKIDDSIALHQHK 311

Query: 192 IELLKEKKQALVSYIV 207
           +ELLK+ KQ  +  + 
Sbjct: 312 LELLKQMKQGYLQKMF 327


>gi|168262425|ref|ZP_02684398.1| putative type I restriction-modification system, S subunit
           [Salmonella enterica subsp. enterica serovar Hadar str.
           RI_05P066]
 gi|205348748|gb|EDZ35379.1| putative type I restriction-modification system, S subunit
           [Salmonella enterica subsp. enterica serovar Hadar str.
           RI_05P066]
          Length = 581

 Score =  104 bits (258), Expect = 4e-20,   Method: Composition-based stats.
 Identities = 74/504 (14%), Positives = 153/504 (30%), Gaps = 97/504 (19%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT 60
           +K  K  P+   S  +    +P  W+ + I         +T    +D  YI +  +    
Sbjct: 83  IKKPKPLPEI--SEEEKPFELPAGWEWIKISEIGHDWGQKTP--DEDFTYIDVGSINKEY 138

Query: 61  GKY-LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDG----ICSTQFLVLQ 115
           G    P   +++ + +    I  KG ++Y  + PYL    I +       I ST F ++ 
Sbjct: 139 GIIEEPSILSAKDAPSRARKIVQKGTVIYSTVRPYLLNIAIIESAFSPEPIASTAFAIIH 198

Query: 116 PKD-VLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKI 174
           P   +    +  +L S      +E+   G      + K   +  + +PP +EQ  I +KI
Sbjct: 199 PYTAMNANFIYYYLRSPVFINYVESCQTGVAYPAINDKQFFSGIIAVPPSSEQARITKKI 258

Query: 175 IAETVRIDTLITERIRFIELLKE------------------------------------- 197
                  D L    +  ++  ++                                     
Sbjct: 259 KELMSLCDQLEQHSLTSLDAHQQLVETLLTTLTDSQNADELAENWARISKHFDTLFTTEA 318

Query: 198 ----KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
                KQ ++   V   L P     +  +E +       + K       + N+K   +  
Sbjct: 319 SIDALKQTILQLAVMGKLVPQDPNDEP-VEKLLSRAKTHQQKRIENKEIQKNKKIDGVPY 377

Query: 254 SNILS--------------------LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVF 293
            +I                        Y N     +   + +          +    + F
Sbjct: 378 PDIQIPKTSSFILLNELAFITKLAGFEYTNYFSLEDAGEVPVVRAQNVKAFNLKKDNLKF 437

Query: 294 RFID----------------LQNDKRSLRSAQVMERG----IITSAYMAVKPHGIDSTYL 333
              D                +      +    + E      +  +         IDS YL
Sbjct: 438 ISYDVSKKLNRSALSTECLLMTFIGAGIGDTCIFEENKRWHLAPNVAKIEPFSDIDSHYL 497

Query: 334 AWLMRSYDLCK-VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV---INVETARI 389
              + S+     +F ++ +  + SL    ++ + V++PP++EQ  I      +     +I
Sbjct: 498 NIYLNSFTGRNEIFKSLKATAQPSLSMSTIREIMVILPPLQEQKRIVKKTNELLALCDKI 557

Query: 390 DVLVEKIEQ-SIVLLKERRSSFIA 412
           +  ++  +Q  + L      + I 
Sbjct: 558 NHYIQSAQQTQLHLADALTDAAIN 581


>gi|189424478|ref|YP_001951655.1| restriction modification system DNA specificity domain [Geobacter
           lovleyi SZ]
 gi|189420737|gb|ACD95135.1| restriction modification system DNA specificity domain [Geobacter
           lovleyi SZ]
          Length = 447

 Score =  104 bits (258), Expect = 4e-20,   Method: Composition-based stats.
 Identities = 72/449 (16%), Positives = 133/449 (29%), Gaps = 70/449 (15%)

Query: 23  KHWKVVPIKRFTKLNTGRTS----ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
            +WK   I    ++  G T       G+  +     D  S T      D           
Sbjct: 2   SNWKRARIGDLCEIIKGETGLASAPPGEYPLVATGADRRSCTTWQFDTDAVCIP------ 55

Query: 79  SIFAKGQILYGKLGP---YLRKAIIADFDGICSTQFLVLQPKDV--LPELLQGWLLSIDV 133
                   L    G     L             T    + PKD   L        LS   
Sbjct: 56  --------LVSSTGHGKKTLNYVHYQSGKFALGTILAAVIPKDPSVLTARFLHLYLSHFK 107

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
              +  + +GA       K I ++ +P+PPL EQ  + + I         L+TE      
Sbjct: 108 DTVLVPLMKGAANVSLSMKEIASVKIPVPPLDEQQSLIDLIFRIEDEHQELLTETNHQGV 167

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKD---------------------------------- 219
           LLK+ +QAL+   V   L    + +                                   
Sbjct: 168 LLKQLRQALLQEAVAGELTTAWRKQHPVAKGDPQYDAAALLAQIKAEKERLVKEGKIRKE 227

Query: 220 ------SGIEWVGLVPDHWEVKPFFALVTELNRKNTK--LIESNILSLSYGNII-QKLET 270
                 +  +    +P+ W       +       ++   L E  +  L  GNI   K++ 
Sbjct: 228 KPLPPITDEDKPFDLPEGWGWCRLGEVADGFQYGSSVKSLKEGKVPVLRMGNIQCGKIDW 287

Query: 271 RNMGLKPES-YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID 329
            N+    ++       V  G+++F   + +           M   I     + V   G  
Sbjct: 288 SNLVYTNDTGEIRKYRVTNGDLLFNRTNSRELVGKTGLFDGMYEAIFAGYLVRVTMLGGI 347

Query: 330 STYLAW-LMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
           S   +  ++ S    +   A  +    + ++    ++     +PP+ EQ  I   ++   
Sbjct: 348 SATYSNGVLNSKFHREWCDANKTDALGQSNINATKLRDYFFPLPPLAEQQAIVARVDSLM 407

Query: 387 ARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           A ID L +++ +     +    + +  A 
Sbjct: 408 ATIDELEKQVAERKEQAQLLMQTVLREAF 436



 Score = 74.1 bits (180), Expect = 5e-11,   Method: Composition-based stats.
 Identities = 25/200 (12%), Positives = 59/200 (29%), Gaps = 10/200 (5%)

Query: 20  AIPKHWKVVPIKRFTK-LNTGRTSESGKD--IIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            +P+ W    +         G + +S K+  +  + + +++ G   +      +   +  
Sbjct: 241 DLPEGWGWCRLGEVADGFQYGSSVKSLKEGKVPVLRMGNIQCGKIDWSNLVYTNDTGEIR 300

Query: 77  TVSIFAKGQILYGKLGP---YLRKAIIADFDGICSTQFLVLQPKDVLPELLQ---GWLLS 130
                  G +L+ +        +  +           +LV                    
Sbjct: 301 KYR-VTNGDLLFNRTNSRELVGKTGLFDGMYEAIFAGYLVRVTMLGGISATYSNGVLNSK 359

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
                      +    S+ +   + +   P+PPLAEQ  I  ++ +    ID L  +   
Sbjct: 360 FHREWCDANKTDALGQSNINATKLRDYFFPLPPLAEQQAIVARVDSLMATIDELEKQVAE 419

Query: 191 FIELLKEKKQALVSYIVTKG 210
             E  +   Q ++      G
Sbjct: 420 RKEQAQLLMQTVLREAFDVG 439



 Score = 70.2 bits (170), Expect = 7e-10,   Method: Composition-based stats.
 Identities = 23/105 (21%), Positives = 46/105 (43%)

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
           G I +A +   P  + + +L   +  +    +   M      SL  +++  + + VPP+ 
Sbjct: 80  GTILAAVIPKDPSVLTARFLHLYLSHFKDTVLVPLMKGAANVSLSMKEIASVKIPVPPLD 139

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           EQ  + ++I         L+ +     VLLK+ R + +  AV G+
Sbjct: 140 EQQSLIDLIFRIEDEHQELLTETNHQGVLLKQLRQALLQEAVAGE 184


>gi|57650596|ref|YP_186689.1| type I restriction-modification enzyme, S subunit, EcoA family
           protein [Staphylococcus aureus subsp. aureus COL]
 gi|87161451|ref|YP_494442.1| type I restriction-modification enzyme, S subunit [Staphylococcus
           aureus subsp. aureus USA300_FPR3757]
 gi|151221911|ref|YP_001332733.1| type I restriction modification system, site specificity
           determination subunit [Staphylococcus aureus subsp.
           aureus str. Newman]
 gi|161510022|ref|YP_001575681.1| type I site-specific deoxyribonuclease specificity subunit
           [Staphylococcus aureus subsp. aureus USA300_TCH1516]
 gi|294850681|ref|ZP_06791403.1| type I restriction enzyme [Staphylococcus aureus A9754]
 gi|57284782|gb|AAW36876.1| type I restriction-modification enzyme, S subunit, EcoA family
           [Staphylococcus aureus subsp. aureus COL]
 gi|87127425|gb|ABD21939.1| type I restriction-modification enzyme, S subunit [Staphylococcus
           aureus subsp. aureus USA300_FPR3757]
 gi|150374711|dbj|BAF67971.1| type I restriction modification system, site specificity
           determination subunit [Staphylococcus aureus subsp.
           aureus str. Newman]
 gi|160368831|gb|ABX29802.1| type I site-specific deoxyribonuclease specificity subunit
           [Staphylococcus aureus subsp. aureus USA300_TCH1516]
 gi|269941282|emb|CBI49677.1| type I restriction-modification system specificity protein
           [Staphylococcus aureus subsp. aureus TW20]
 gi|294822479|gb|EFG38926.1| type I restriction enzyme [Staphylococcus aureus A9754]
 gi|329314487|gb|AEB88900.1| Type I restriction modification system, site specificity
           determination subunit [Staphylococcus aureus subsp.
           aureus T0131]
          Length = 399

 Score =  104 bits (258), Expect = 4e-20,   Method: Composition-based stats.
 Identities = 58/403 (14%), Positives = 136/403 (33%), Gaps = 39/403 (9%)

Query: 24  HWKVVPIKRFT-KLNTGRTSE------SGKDIIYIGLEDVESGTGKYLP-KDGNSRQSDT 75
            W+   +   T K+ +G+T +      + K I ++  +++ +G          +    D 
Sbjct: 20  EWEEKKLGNLTTKIGSGKTPKGGSENYTNKGIPFLRSQNIRNGKLNLNDLVYISKDIDDE 79

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIA---DFDGICSTQ-FLVLQPKDVLPELLQGWLLSI 131
              S    G +L    G  + +  I    +     +    ++   K+        +LLS 
Sbjct: 80  MKNSRTYYGDVLLNITGASIGRTAINSIVETHANLNQHVCIIRLKKEYYYNFFGQYLLSR 139

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
              ++I     G +    ++K I N+ +  P + E+    +KI     ++D  I    + 
Sbjct: 140 KGKRKIFLAQSGGSREGLNFKEIANLKIFTPTIFEEQ---QKIGKFFSKLDRQIELEEQK 196

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           +ELL+++K+  +  I T+ L    +  +   EW         +          +    K 
Sbjct: 197 LELLQQQKKGYMQKIFTQELRFKDENGEEYPEWENKFIKDIFIFENNRRKPITSSLREKG 256

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
           +     +    + ++     N                  ++      +  +    S    
Sbjct: 257 LYPYYGATGIIDYVKDYLFNNEE---------------RLLIGEDGAKWGQFETSSFIAN 301

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ-SLKFEDVKRLPVLVP 370
            +  + +    VK +  +  ++ + +      K   A  +G     L   ++  + + +P
Sbjct: 302 GQYWVNNHAHVVKSNDHNLFFMNYYLN----FKELRAFVTGNAPAKLTHANLCNINLKIP 357

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            + EQ    + ++     ID  +      I LLKER+   +  
Sbjct: 358 CLTEQ----DKVSALLKSIDNKMNNQMNRIELLKERKKGLLQK 396



 Score = 68.3 bits (165), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 23/181 (12%), Positives = 51/181 (28%), Gaps = 6/181 (3%)

Query: 215 VKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK----LET 270
            +++  G E          +             +       I  L   NI        + 
Sbjct: 10  PELRFPGFEGEWEEKKLGNLTTKIGSGKTPKGGSENYTNKGIPFLRSQNIRNGKLNLNDL 69

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
             +    +          G+++         + ++ S       +     +         
Sbjct: 70  VYISKDIDDEMKNSRTYYGDVLLNITGASIGRTAINSIVETHANLNQHVCIIRLKKEYYY 129

Query: 331 TYLA-WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI-KEQFDITNVINVETAR 388
            +   +L+      K+F A   G R+ L F+++  L +  P I +EQ  I    +    +
Sbjct: 130 NFFGQYLLSRKGKRKIFLAQSGGSREGLNFKEIANLKIFTPTIFEEQQKIGKFFSKLDRQ 189

Query: 389 I 389
           I
Sbjct: 190 I 190


>gi|315145853|gb|EFT89869.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX2141]
          Length = 406

 Score =  104 bits (258), Expect = 4e-20,   Method: Composition-based stats.
 Identities = 57/406 (14%), Positives = 129/406 (31%), Gaps = 31/406 (7%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIG---LEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           W+   ++      TG T ++ +D  +     +  +   +               +  +  
Sbjct: 10  WEHRKVEELGDTFTGLTGKTKEDFGHGDATFVTYINVFSNPITDLKMTESVEIDAKQNQV 69

Query: 82  AKGQILYGKLGPYLRKAIIADFD------GICSTQFLVLQPKDVL-PELLQGWLLSIDVT 134
             G I +        +  ++            ++     +P   L P  +   L S +V 
Sbjct: 70  EYGDIFFTTSSETPEEVGMSSVWLGNEANVYLNSFCFGYRPVTELAPYYMAFMLRSPNVR 129

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           ++   + +G +  +     + +I +P+P + EQ  + +        I     +  +  EL
Sbjct: 130 KKFIFLAQGISRYNISKNRVMDIEIPVPNIDEQRKVGQFFKDIDDLITLHQRKLEQLKEL 189

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEW----VGLVPDHWEVKPFFALVTELNRKNTK 250
            K   Q +          P ++  D   EW    +G +  H          TE  +    
Sbjct: 190 KKTYLQVMFPR--KDERVPKLRFADFEGEWAQRKLGEISTHRSGTAIERYFTEDGK---- 243

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS--- 307
                ++S+       K   + +          ++V  GE+     D  +D   +     
Sbjct: 244 ---YKVISIGSYGTDSKYVDQGIRAISNEITNARVVHKGELTMVLNDKTSDGAIIGRSLL 300

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWL-MRSYDLCKVFYAMGSGLRQSLKFEDVKRLP 366
            +  E  +I      + P    +   A+  + +    KV   +  G +  + +  VK L 
Sbjct: 301 IESEEEYVINQRTEIISPKDDFNVNFAYTTLNNTFRQKVKKIVQGGTQIYVNYPAVKNLM 360

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           +  P  KEQ  I         + D  +   +  +  LK  + +++ 
Sbjct: 361 LDFPSYKEQTKIGTF----FKQFDDTITLHQNKLDQLKTLKKTYLQ 402


>gi|253699078|ref|YP_003020267.1| restriction modification system DNA specificity domain protein
           [Geobacter sp. M21]
 gi|251773928|gb|ACT16509.1| restriction modification system DNA specificity domain protein
           [Geobacter sp. M21]
          Length = 404

 Score =  104 bits (258), Expect = 4e-20,   Method: Composition-based stats.
 Identities = 65/423 (15%), Positives = 139/423 (32%), Gaps = 35/423 (8%)

Query: 8   PQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSE------SGKDIIYIGLEDVESGTG 61
           P YK + V   G IP+ W    ++    L +G          SG  + Y+       G  
Sbjct: 7   PGYKQTEV---GVIPEEWDCCMLRDGIVLLSGHHILAHYCNMSGCGVPYLT------GPA 57

Query: 62  KYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP 121
            +      + +      ++ + G IL    G      ++AD     S Q + ++P +   
Sbjct: 58  DFRNGAIANTKFTNKPATLCSDGDILVTVKGSGSGTIVVADKMYCISRQLMAIRPLEWNS 117

Query: 122 ELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
             L   LL   +            +       I    +P+PPL  Q  I + +    V +
Sbjct: 118 IFLYYSLLQNAL---HFKAASAGLIPGLSRSDILEQLVPLPPLPAQNTIADALSDVDVLL 174

Query: 182 DTLITERIRFIELLKEKKQALVS-YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFAL 240
             L     +  +L +   Q L++      G + +  +K  G   +G       ++   A+
Sbjct: 175 GALDRLIAKKRDLKQAAMQQLLTGETRLPGFHGEWAVKRLGD--LGTFLKGNGIRKDEAM 232

Query: 241 VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQN 300
                   +  +        Y +    +++ N  + PE   +   +  G+++F       
Sbjct: 233 --------SGALPCVRYGEIYTHHNNYVKSFNSWISPEVAVSATRLKKGDLLFAGSGETK 284

Query: 301 DKRSLRSAQVME-RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLK 358
           ++     A + +         + ++       ++ +      +     +   G     + 
Sbjct: 285 EEIGKCVACIDDCDAYAGGDIVILRLAAAHPLFMGYYCNIATVNAQKASRAQGDAVVHIG 344

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
              +  + V VP + EQ  I  V+    A +      +EQ     +  + S +   +TG+
Sbjct: 345 AVALSSVLVSVPSVSEQVAIAEVLFDMDAEL----AGLEQRRDKTRSLKQSIMQELLTGK 400

Query: 419 IDL 421
             L
Sbjct: 401 TRL 403



 Score = 82.1 bits (201), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 36/202 (17%), Positives = 79/202 (39%), Gaps = 12/202 (5%)

Query: 224 WVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY 283
            VG++P+ W+       +  L+  +      N+       +    + RN  +    +   
Sbjct: 13  EVGVIPEEWDCCMLRDGIVLLSGHHILAHYCNMSGCGVPYLTGPADFRNGAIANTKFTNK 72

Query: 284 Q--IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD 341
              +   G+I+       +    +      +   I+   MA++P   +S +L + +    
Sbjct: 73  PATLCSDGDILVTVKGSGSGTIVVA----DKMYCISRQLMAIRPLEWNSIFLYYSLLQNA 128

Query: 342 LCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
           L   F A  +GL   L   D+    V +PP+  Q  I + ++      DVL+  +++ I 
Sbjct: 129 LH--FKAASAGLIPGLSRSDILEQLVPLPPLPAQNTIADALSDV----DVLLGALDRLIA 182

Query: 402 LLKERRSSFIAAAVTGQIDLRG 423
             ++ + + +   +TG+  L G
Sbjct: 183 KKRDLKQAAMQQLLTGETRLPG 204


>gi|161528113|ref|YP_001581939.1| restriction modification system DNA specificity subunit
           [Nitrosopumilus maritimus SCM1]
 gi|160339414|gb|ABX12501.1| restriction modification system DNA specificity domain
           [Nitrosopumilus maritimus SCM1]
          Length = 453

 Score =  104 bits (258), Expect = 4e-20,   Method: Composition-based stats.
 Identities = 65/438 (14%), Positives = 147/438 (33%), Gaps = 40/438 (9%)

Query: 20  AIPKHWKVVPIKRF------TKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKD------ 67
            IP+ W  V + +       + +  G    S K    +    +++   + +  D      
Sbjct: 20  EIPEDWNYVILDKLTPKNEKSSIRMGPFGSSLKTHELLNSGKIKTLWIENIVNDKFTWKY 79

Query: 68  ---GNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDG--ICSTQF--LVLQPKDVL 120
                  + +           +L   +G   + AI+ +  G  I S+    + L  + +L
Sbjct: 80  QKFITEEKYEKLKGFTVKPNDVLITMMGTLGKTAIVPEDIGRAIISSHLLKISLDHEKLL 139

Query: 121 PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
           P+ L  +L S  V ++I     G  M   +   I N+ +  P ++EQ  I   +      
Sbjct: 140 PKFLYYFLKSNFVYRQIIKESRGLVMGGLNTGIIKNLLIKTPKISEQQKILSILSNVDNL 199

Query: 181 IDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFA- 239
           I +      +   L     Q L++  +       V  +      +    ++ ++K     
Sbjct: 200 IYSYEKIIDQTKHLKIGLLQQLLTKGIKHKKFKKVFDRFGNYFEIPDSWEYVKIKKLVDE 259

Query: 240 ---------LVTELNRKNTKLIESNILSLS----YGNIIQKLETRNMGLKPESYETYQIV 286
                       EL+ K+   I+  I  ++      + I     + +  K          
Sbjct: 260 KRILEIQDGNHGELHPKSLDFIQKGIPFVTADCLMNDNINYDLCKFLPEKFLKILRIGFA 319

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF 346
              +++        +   + +          + Y  +    I   +L ++ +S+D  K  
Sbjct: 320 KQKDVLLSHKGSVGNVAVVGNKFDRIILSPQTTYYRLSSKII-PKFLYYIFQSFDFQKQL 378

Query: 347 YAMG-SGLRQSLKFEDVKRLPVL-VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLK 404
            ++     R  +   + + L +  +  I+EQ  I +V++   + I  L  K +    L K
Sbjct: 379 KSLAKQSTRDYIGITNQQNLLIPYISSIEEQEKIISVLSDVDSNISNLELKKKSLESLKK 438

Query: 405 ERRSSFIAAAVTGQIDLR 422
                 +   +TG+I ++
Sbjct: 439 ----GLMQKLLTGKIRVK 452


>gi|253735166|ref|ZP_04869331.1| EcoA family type I restriction-modification enzyme, S subunit
           [Staphylococcus aureus subsp. aureus TCH130]
 gi|253726830|gb|EES95559.1| EcoA family type I restriction-modification enzyme, S subunit
           [Staphylococcus aureus subsp. aureus TCH130]
          Length = 389

 Score =  104 bits (258), Expect = 4e-20,   Method: Composition-based stats.
 Identities = 58/395 (14%), Positives = 129/395 (32%), Gaps = 37/395 (9%)

Query: 24  HWKVVPIKRFTKLNTG--RTSE-SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
            W+   +    K+  G  +T + + + I ++ +E++++       K  +    +      
Sbjct: 20  EWEEKKLGEVAKIYDGTHQTPKYTNEGIKFLSVENIKTLNS---SKYISEEAFEKEFKIR 76

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR--IE 138
              G IL  ++G      I++  +       L L     L       L+     Q     
Sbjct: 77  PEFGDILMTRIGDIGTPNIVSSNEKFAYYVSLALLKTKNLNSYFLKNLILSSSIQNELWR 136

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
                A     +   IG I +  P   EQ  I +       +I+    +     +  K  
Sbjct: 137 KTLHVAFPKKINKNEIGKIKINYPKKQEQQKIGQFFSKLDRQIELEEQKLELLQQQKKGY 196

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
            Q + S  +               +  G     WE + F  +    N+    + E+  + 
Sbjct: 197 MQKIFSQELRFK------------DENGNDYPEWEERRFADIFKFHNKLRKPIKENLRVK 244

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR-SAQVMERGIIT 317
            SY                  Y    I D   ++          RS      V  +  + 
Sbjct: 245 GSYPYYGATGII--------DYVDDFIFDGNYLLIGEDGANIITRSAPLVYLVNGKFWVN 296

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV-PPIKEQF 376
           +    + P   +   + +L +  +L           +  L  +++K + V++   ++EQ 
Sbjct: 297 NHAHILSPLNGN---IQYLYQVAELVNYEKYNTGTAQPKLNIQNLKIISVVISTNLEEQQ 353

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
            I + +    +++D  ++  EQ + LL++R+ + +
Sbjct: 354 KIGSFL----SKLDRQIDLEEQKLELLQQRKKALL 384


>gi|227506258|ref|ZP_03936307.1| type I restriction modification DNA specificity protein
           [Corynebacterium striatum ATCC 6940]
 gi|227197159|gb|EEI77207.1| type I restriction modification DNA specificity protein
           [Corynebacterium striatum ATCC 6940]
          Length = 371

 Score =  104 bits (258), Expect = 4e-20,   Method: Composition-based stats.
 Identities = 53/396 (13%), Positives = 127/396 (32%), Gaps = 40/396 (10%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W +V +     L  G+  +  + +            G++               +    
Sbjct: 8   DWPMVRLGDVCHLKYGKALKKEERVA-----------GEFPVFGSAGSVGSHVEANFVGP 56

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
             ++ G+ G        +    I  T F V    +   +    + L  D+      + + 
Sbjct: 57  VSVV-GRKGSAGFVEWSSGNCWIIDTAFGVFPKSEEQVDSRWLYWLLKDLRLG--RLQKH 113

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           A +       +      +PPL EQ  I   +      +  +       ++L +E    L 
Sbjct: 114 AAVPGISKADVVEEKFLLPPLDEQRRIAAILDEVDEALFRVNQSLGDLLQLKQELFTDLF 173

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
             I            +     +G   +  +        ++   +N  +    + ++SY  
Sbjct: 174 LRI------------ERESTIIGEYLESTQYGT-----SDKANENVGIPILRMGNVSYNG 216

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
            I   + + + L     E Y  +  G+++F   + ++          ++     + Y+  
Sbjct: 217 EIDLSDLKYVELDASDREKYS-LKAGDLLFNRTNSKDLVGKTAVVPELQEEYTYAGYLIR 275

Query: 324 K--PHGIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDIT 379
                     Y++  + S    K+       +    ++   ++KRLP+    + EQ +  
Sbjct: 276 CRVNDKAVPEYISGFLNSVLGKKILRNTAKAIVGMANINANELKRLPIPQASLDEQQEFA 335

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           +     T+RID +  ++++   LL+E + S    A 
Sbjct: 336 S----LTSRIDDVESQMKRQRKLLQELQESLSTRAF 367


>gi|258451917|ref|ZP_05699935.1| type I restriction-modification enzyme [Staphylococcus aureus
           A5948]
 gi|282929312|ref|ZP_06336882.1| type I restriction enzyme, S subunit [Staphylococcus aureus A9765]
 gi|284024855|ref|ZP_06379253.1| type I restriction-modification enzyme, S subunit, EcoA family
           protein [Staphylococcus aureus subsp. aureus 132]
 gi|304380595|ref|ZP_07363269.1| EcoA family type I restriction-modification enzyme [Staphylococcus
           aureus subsp. aureus ATCC BAA-39]
 gi|257860427|gb|EEV83257.1| type I restriction-modification enzyme [Staphylococcus aureus
           A5948]
 gi|282591836|gb|EFB96886.1| type I restriction enzyme, S subunit [Staphylococcus aureus A9765]
 gi|304340844|gb|EFM06770.1| EcoA family type I restriction-modification enzyme [Staphylococcus
           aureus subsp. aureus ATCC BAA-39]
 gi|315195943|gb|EFU26306.1| type I restriction-modification enzyme, S subunit, EcoA family,
           putative [Staphylococcus aureus subsp. aureus CGS01]
 gi|320143744|gb|EFW35520.1| type I restriction modification DNA specificity domain protein
           [Staphylococcus aureus subsp. aureus MRSA177]
          Length = 386

 Score =  104 bits (258), Expect = 4e-20,   Method: Composition-based stats.
 Identities = 58/403 (14%), Positives = 136/403 (33%), Gaps = 39/403 (9%)

Query: 24  HWKVVPIKRFT-KLNTGRTSE------SGKDIIYIGLEDVESGTGKYLP-KDGNSRQSDT 75
            W+   +   T K+ +G+T +      + K I ++  +++ +G          +    D 
Sbjct: 7   EWEEKKLGNLTTKIGSGKTPKGGSENYTNKGIPFLRSQNIRNGKLNLNDLVYISKDIDDE 66

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIA---DFDGICSTQ-FLVLQPKDVLPELLQGWLLSI 131
              S    G +L    G  + +  I    +     +    ++   K+        +LLS 
Sbjct: 67  MKNSRTYYGDVLLNITGASIGRTAINSIVETHANLNQHVCIIRLKKEYYYNFFGQYLLSR 126

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
              ++I     G +    ++K I N+ +  P + E+    +KI     ++D  I    + 
Sbjct: 127 KGKRKIFLAQSGGSREGLNFKEIANLKIFTPTIFEEQ---QKIGKFFSKLDRQIELEEQK 183

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           +ELL+++K+  +  I T+ L    +  +   EW         +          +    K 
Sbjct: 184 LELLQQQKKGYMQKIFTQELRFKDENGEEYPEWENKFIKDIFIFENNRRKPITSSLREKG 243

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
           +     +    + ++     N                  ++      +  +    S    
Sbjct: 244 LYPYYGATGIIDYVKDYLFNNEE---------------RLLIGEDGAKWGQFETSSFIAN 288

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ-SLKFEDVKRLPVLVP 370
            +  + +    VK +  +  ++ + +      K   A  +G     L   ++  + + +P
Sbjct: 289 GQYWVNNHAHVVKSNDHNLFFMNYYLN----FKELRAFVTGNAPAKLTHANLCNINLKIP 344

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            + EQ    + ++     ID  +      I LLKER+   +  
Sbjct: 345 CLTEQ----DKVSALLKSIDNKMNNQMNRIELLKERKKGLLQK 383



 Score = 67.1 bits (162), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 23/177 (12%), Positives = 48/177 (27%), Gaps = 6/177 (3%)

Query: 219 DSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK----LETRNMG 274
             G E          +             +       I  L   NI        +   + 
Sbjct: 1   FPGFEGEWEEKKLGNLTTKIGSGKTPKGGSENYTNKGIPFLRSQNIRNGKLNLNDLVYIS 60

Query: 275 LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
              +          G+++         + ++ S       +     +          +  
Sbjct: 61  KDIDDEMKNSRTYYGDVLLNITGASIGRTAINSIVETHANLNQHVCIIRLKKEYYYNFFG 120

Query: 335 -WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI-KEQFDITNVINVETARI 389
            +L+      K+F A   G R+ L F+++  L +  P I +EQ  I    +    +I
Sbjct: 121 QYLLSRKGKRKIFLAQSGGSREGLNFKEIANLKIFTPTIFEEQQKIGKFFSKLDRQI 177


>gi|148654896|ref|YP_001275101.1| restriction modification system DNA specificity subunit
           [Roseiflexus sp. RS-1]
 gi|148567006|gb|ABQ89151.1| restriction modification system DNA specificity domain [Roseiflexus
           sp. RS-1]
          Length = 392

 Score =  103 bits (257), Expect = 4e-20,   Method: Composition-based stats.
 Identities = 55/416 (13%), Positives = 110/416 (26%), Gaps = 45/416 (10%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +PK W    +K    +N G+                +      +P  G +        S
Sbjct: 6   ELPKGWGWKRLKTLVTVNYGKGLSE------------KQRKAGNVPVYGANGVVGFHDTS 53

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVL-QPKDVLPELLQGWLLSIDV-TQRI 137
           I     I+ G+ G                T F +   P+ + P+ L  +L S  +   + 
Sbjct: 54  ITKGQTIVIGRKGSAGAVNWSEIACWPIDTTFFIDEFPEILYPQFLYQFLRSQQIDRLQQ 113

Query: 138 EAICEGATMSHADWKGIGNIPM--PIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            A   G          +       P   LAEQ  I  ++         +  +       L
Sbjct: 114 SAAIPGLNRDVLYSVEVPIPYPDDPAHSLAEQRRIVARLELLLGETRAMREDIQAMRRDL 173

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
            +  ++ ++ +                   G +P  W  K    L       +       
Sbjct: 174 AQVMESALAEVFPNP--------------NGEMPKGWGWKSIDDLFELQQGASMSPRRRQ 219

Query: 256 ILSLSYGNIIQKLETRNMGLKP-------ESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
             +       + +    +           E       +  G+++                
Sbjct: 220 GRNPQPFLRTKNILWGEVDTSDVDVMDFTEDEIERLKLRKGDLLICEGGDVGRAAVWEDQ 279

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD--LCKVFYAMGSGLRQSLKFEDVKRLP 366
             +         +  K    D  +  + M++                  +L    +K   
Sbjct: 280 LPLVMYQNHIHRLRRKSDDADPKFYVYWMKAAYQLFKIYQGEESRTAIPNLSGRRLKNFL 339

Query: 367 VLVPPIKEQFDITNVINVETARI---DVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
           V    + EQ  I   +      I   D L+ +  + I +L+    S +AAA  G++
Sbjct: 340 VPTTSLTEQRRIVAYLEHIAEEIRAMDDLLAQDLRDIEVLE---QSILAAAFRGEV 392



 Score = 75.2 bits (183), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 27/200 (13%), Positives = 64/200 (32%), Gaps = 10/200 (5%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSES-----GKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
           G +PK W    I    +L  G +             ++  +++  G       D      
Sbjct: 190 GEMPKGWGWKSIDDLFELQQGASMSPRRRQGRNPQPFLRTKNILWGEVDTSDVDVMDFTE 249

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIAD-FDGICSTQFLVLQPKDVLPELLQGWLLSID 132
           D        KG +L  + G   R A+  D    +     +    +       + ++  + 
Sbjct: 250 DEIERLKLRKGDLLICEGGDVGRAAVWEDQLPLVMYQNHIHRLRRKSDDADPKFYVYWMK 309

Query: 133 VTQRIEAICEGA----TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
              ++  I +G      + +   + + N  +P   L EQ  I   +      I  +    
Sbjct: 310 AAYQLFKIYQGEESRTAIPNLSGRRLKNFLVPTTSLTEQRRIVAYLEHIAEEIRAMDDLL 369

Query: 189 IRFIELLKEKKQALVSYIVT 208
            + +  ++  +Q++++    
Sbjct: 370 AQDLRDIEVLEQSILAAAFR 389


>gi|223043494|ref|ZP_03613540.1| type-I specificity determinant subunit [Staphylococcus capitis
           SK14]
 gi|222443283|gb|EEE49382.1| type-I specificity determinant subunit [Staphylococcus capitis
           SK14]
          Length = 399

 Score =  103 bits (257), Expect = 4e-20,   Method: Composition-based stats.
 Identities = 64/410 (15%), Positives = 128/410 (31%), Gaps = 26/410 (6%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTG--RTSESGKDIIYIGLEDVESGTGKY 63
            +P++KD            W       FTK N G      + +     G     +     
Sbjct: 11  RFPEFKD-----------EWIEKAFGDFTKTNQGLQIAISNRETQYKEGYYFYITNEFLK 59

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPEL 123
                     +     I  K  IL  + G   +           +   +    K      
Sbjct: 60  PNNKIKYYIKNPPNSVIANKDDILMTRTGNTGKVITGVHGAFHNNFFKIKFDNKQYDRLF 119

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           +   L S  +  +I ++   +T+   +     +I   IP   EQ    +K+     ++D 
Sbjct: 120 IYELLKSSKINNKILSLAGTSTIPDLNHSDFYSIKSFIPKYEEQ----QKLGIFFSKLDR 175

Query: 184 LITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTE 243
            I      +ELL+++K+  +  I ++ L    +  +   +WV                ++
Sbjct: 176 QIELEEEKLELLEQQKRGYMQKIFSQDLRFKDENGNVYPKWVTQKIKELGNVYTGNTPSK 235

Query: 244 LNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKR 303
                        ++ +  N  + L+     L  E ++  + +    ++   I       
Sbjct: 236 KQSMYWNSNNYIWVTPTDINNKKDLKNSEYMLSDEGFKKARQLPKNTLLITCIASIGKNA 295

Query: 304 SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVK 363
            LR     E G       A+ P+   +    +         +    G    Q +     +
Sbjct: 296 ILR-----EEGSCNQQINALVPNSDKNVDFLYYAFEKVSKYMKRIAGKTATQIVNKSTFE 350

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            + + VP  +EQ  +   +N      D L+EK    I LLK+R+  F+  
Sbjct: 351 NISIEVPNFEEQLKVGRFLNS----FDKLIEKQVSKIELLKQRKQGFLQK 396



 Score = 48.6 bits (114), Expect = 0.002,   Method: Composition-based stats.
 Identities = 18/178 (10%), Positives = 46/178 (25%), Gaps = 9/178 (5%)

Query: 213 PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
           P+++  +   EW+      +        +   NR+            +            
Sbjct: 8   PELRFPEFKDEWIEKAFGDFTKTNQGLQIAISNRETQYKEGYYFYITNEFLKPNNKIKYY 67

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
           +   P S     I +  +I+           +                +       D  +
Sbjct: 68  IKNPPNSV----IANKDDILMTRTGNTGKVITGVHGAFHNNFF----KIKFDNKQYDRLF 119

Query: 333 LAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
           +  L++S  +     ++        L   D   +   +P  +EQ  +    +    +I
Sbjct: 120 IYELLKSSKINNKILSLAGTSTIPDLNHSDFYSIKSFIPKYEEQQKLGIFFSKLDRQI 177


>gi|283786950|ref|YP_003366815.1| type I restriction modification system HsdS component [Citrobacter
           rodentium ICC168]
 gi|282950404|emb|CBG90053.1| putative type I restriction modification system HsdS component
           [Citrobacter rodentium ICC168]
          Length = 538

 Score =  103 bits (257), Expect = 5e-20,   Method: Composition-based stats.
 Identities = 55/423 (13%), Positives = 133/423 (31%), Gaps = 44/423 (10%)

Query: 27  VVPIKRFTKLNTGRTS------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
            V +        GR         S ++I YI ++  E+           +         +
Sbjct: 10  TVKLSELLITTKGRKPANVGDRSSVREIPYIDIKAFENNEI--------TSYCSPENAVL 61

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
             +  +L    G       +  +  + ST   +  P  +       +   +     +   
Sbjct: 62  CNETDVLMVWDGSRSGLVGMGIYGALGSTLVAISIPFIL---PQYIYYFLLSKFDELNNN 118

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
             G  + H D   +G I  PI  ++ Q ++  KI      ID   T+  + +  +     
Sbjct: 119 TRGMGIPHIDPVYLGEIDFPITSVSNQEILYSKIDQLYNLIDDGFTKTEKALAQISILWS 178

Query: 201 ALVSYIVTKGLNPDVKMKDSG---------------IEWVGLVPDHWEVKPF---FALVT 242
             ++  ++  L  + +  +S                 E + ++P  W           ++
Sbjct: 179 LRITEALSGKLTKNWRDSNSQGKPLPVDIISINNQLEETLPVLPSDWRYVKLSSVIESIS 238

Query: 243 ELNRKNTKLIESNILSLSYGNIIQKLETRNM----GLKPESYETYQIVDPGEIVFRFIDL 298
               K           +   NI+      N         +  + Y + +   ++ R    
Sbjct: 239 YGTSKKCTYEPQETGVIRIPNIVNGEICDNDLKFANFTEKEKDKYSLKEDDILIIRSNGS 298

Query: 299 QNDKRSLRSAQVMERGIITSAYM---AVKPHGIDSTYLAWLMRSYDLCKVFY--AMGSGL 353
            N   +    +  + G + + Y+    +    ++ +YL + + S  L K     A  S  
Sbjct: 299 LNLVGACARVKSKDTGYLFAGYLLRLRINLELVNPSYLKYALESPLLRKQIERIAKSSSG 358

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
             ++  E+++ L + +  I+EQ  I N +      ++    ++   +   +  +   +  
Sbjct: 359 VNNINAEEIRSLIIPICSIEEQLVIVNELENIKYNLEAQQVQLRNLLEKSELTKKEIVKD 418

Query: 414 AVT 416
           A +
Sbjct: 419 AFS 421



 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 30/212 (14%), Positives = 74/212 (34%), Gaps = 13/212 (6%)

Query: 16  QWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDII----YIGLEDVESGTGKYLPKDGNSR 71
           + +  +P  W+ V +    +  +  TS+           I + ++ +G          + 
Sbjct: 216 ETLPVLPSDWRYVKLSSVIESISYGTSKKCTYEPQETGVIRIPNIVNGEICDNDLKFANF 275

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQF--------LVLQPKDVLPEL 123
                      +  IL  +    L             T +        L +  + V P  
Sbjct: 276 TEKEKDKYSLKEDDILIIRSNGSLNLVGACARVKSKDTGYLFAGYLLRLRINLELVNPSY 335

Query: 124 LQGWLLSIDVTQRIEAI-CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
           L+  L S  + ++IE I    + +++ + + I ++ +PI  + EQ++I  ++      ++
Sbjct: 336 LKYALESPLLRKQIERIAKSSSGVNNINAEEIRSLIIPICSIEEQLVIVNELENIKYNLE 395

Query: 183 TLITERIRFIELLKEKKQALVSYIVTKGLNPD 214
               +    +E  +  K+ +V    + G    
Sbjct: 396 AQQVQLRNLLEKSELTKKEIVKDAFSIGFKEM 427


>gi|148264154|ref|YP_001230860.1| restriction modification system DNA specificity subunit [Geobacter
           uraniireducens Rf4]
 gi|146397654|gb|ABQ26287.1| restriction modification system DNA specificity domain [Geobacter
           uraniireducens Rf4]
          Length = 393

 Score =  103 bits (257), Expect = 5e-20,   Method: Composition-based stats.
 Identities = 51/400 (12%), Positives = 113/400 (28%), Gaps = 24/400 (6%)

Query: 28  VPIKRFTKLNTGRTSESGKD------IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           VP+     ++ G T     D      I +  ++D++        +         S  ++ 
Sbjct: 6   VPLGGLVTISGGGTPSRNNDAYWGGSIPWATVKDLKDTMLSGTQETITPEGLRDSASNLI 65

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
             G ++       L K  I   D   +             E        +     ++++ 
Sbjct: 66  PAGSVIVATR-MGLGKVAINTMDVTINQDL-KAFSCGADLEPRYLLYFLLANASHLDSMG 123

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
           +GAT+       + ++ +P+PPL EQ  I   +                  ELL+     
Sbjct: 124 KGATVKGITLDVLKDLSVPLPPLPEQKRIAAILDKADSIRRKRQEAVRLTEELLRSV--- 180

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVG--LVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
            +        N    M  +G+   G   +                       I++ + + 
Sbjct: 181 FLDMFGDPESNNWPMMTIAGVALPGVSAIRTGPFGSQLLHSEFVDEGVAVLGIDNAVANE 240

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
              N  + +             +   V PG+++   +        +     +        
Sbjct: 241 FRWNERRYISEAKYR-----ELSRYTVRPGDVIITIMGTCGRCAVVPDDIPVAINTKHLC 295

Query: 320 YMAVKPHGIDSTYLA-WLMRSYDLCKVFYAMGSGLRQ-SLKFEDVKRLPVLVPPIKEQFD 377
            + +        ++  + ++     +       G     L    +K +P+ +PP+K Q  
Sbjct: 296 CITLDQTKCLPVFVHAYFLQHCIARRYLEKTAKGAIMDGLNMGIIKDMPIPIPPLKLQEK 355

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
               I    A I+ L      ++        S +  A  G
Sbjct: 356 FACSI----AAIEKLRHTTRSTLAEQDTLFHSLLQRAFNG 391


>gi|257454707|ref|ZP_05619962.1| restriction modification system DNA specificity domain protein
           [Enhydrobacter aerosaccus SK60]
 gi|257447888|gb|EEV22876.1| restriction modification system DNA specificity domain protein
           [Enhydrobacter aerosaccus SK60]
          Length = 384

 Score =  103 bits (257), Expect = 5e-20,   Method: Composition-based stats.
 Identities = 58/401 (14%), Positives = 117/401 (29%), Gaps = 29/401 (7%)

Query: 26  KVVPIKRFTKLNTGRTSESG------KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           KV P++   K+ +G   +S         +  I + DV  G             ++     
Sbjct: 4   KVKPLRDLVKITSGFAFKSNLFNTENNGLPLIRIRDVVRGYSD------TFYDAEYKDEY 57

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           +   G  L G  G +   A       + + +   ++                   + IE 
Sbjct: 58  VIQNGDALIGMDGEF-NLAKWRGGKALLNQRVCKIESTSEELSQGYLIRFLPKALKDIED 116

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
                T+ H   K I NI +P+PPL EQ  I + +               +  ELL    
Sbjct: 117 KTPFVTVKHLSIKDINNIQIPLPPLTEQKRIAQILDKADELRQKRQQSIEKLDELL---- 172

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
                      +  + K   S I+ +          PF + +      +  +    I + 
Sbjct: 173 -----QACFLKIFENEKCSMSQIKDLLENEKSIRTGPFGSQLLHSEFVDEGIAVLGIDN- 226

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
           +  N  +  + R +  +         V P +++   +        +     +        
Sbjct: 227 AVKNTFKWAKPRFITPEKYKQLKRYTVKPKDVIITIMGTCGKCAVVPDKIPLSINTKHLC 286

Query: 320 YMAVKPHGIDSTYLA-WLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFD 377
            + +     +  +L  + +          +   G     L    +K LPV +P I+ Q +
Sbjct: 287 CITLDFDKCNPEFLHSYFLLHPISINFLKSRAKGAIMAGLNMSIIKDLPVELPSIEIQNE 346

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
                     +I +   K+   +        S    A  G+
Sbjct: 347 FAE----LKTKIGLQKSKLINQLQEQDNLFQSLQQRAFNGE 383


>gi|270296269|ref|ZP_06202469.1| conserved hypothetical protein [Bacteroides sp. D20]
 gi|270273673|gb|EFA19535.1| conserved hypothetical protein [Bacteroides sp. D20]
          Length = 523

 Score =  103 bits (257), Expect = 5e-20,   Method: Composition-based stats.
 Identities = 59/436 (13%), Positives = 113/436 (25%), Gaps = 67/436 (15%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSE-------SGKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
            IP  W+   I    +  +G T            +I ++   D+ +G          S+ 
Sbjct: 86  EIPNGWQWERIGNIFETTSGSTPLSRNPDYYKNGNINWVRTTDLNNGILNKTEIQITSKA 145

Query: 73  SDTSTVSIFAKGQILYGKLG--PYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
                +SI  +  +     G    + K  I  FD   +     +QP            + 
Sbjct: 146 IIDYNLSILPQTSVCVAMYGGAGTIGKHCILHFDTTINQSVCAIQPNGFCNMDYIHTFIE 205

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
                 ++         + +   I +  +PIPP  EQ+ I  K+      I      + R
Sbjct: 206 YQRPFWMDFAAGSRKDPNINQLIIKHCLLPIPPQEEQLRIVTKLNQLYPYIYQYGNSQNR 265

Query: 191 FIELLKEKK----QALVSYIVTKGLNPDVKMKDSGIEWV--------------------- 225
             ++ KE      ++++   +   L P +  + +  E +                     
Sbjct: 266 LNQINKEIWHSLKKSILQEAIQGKLVPQITEEGTAQELLEPIRQEKLQLVKEGKLKKSAL 325

Query: 226 -----------------------------GLVPDHWEVKP---FFALVTELNRKNTKLIE 253
                                          +P+ W        F +        +K IE
Sbjct: 326 TDSIIFRGDDNKYFEKIGKTEQDITDEIPFDIPNTWVWVRHNDLFDISGGSQPPKSKFIE 385

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
                      I+   +    +        +I   G+I+         K           
Sbjct: 386 REKEGYIRLFQIRDYGSNPQPIYIPLSTASKISQKGDILLARYGASLGKVFYAEYGAY-N 444

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
             +       +   I   Y+     S              +     ED+  L   +PP+ 
Sbjct: 445 VALAKVIPLYESRLIFQKYIFLYYCSSIYQNEIVNRSRCAQAGFNKEDLNSLLFPLPPLS 504

Query: 374 EQFDITNVINVETARI 389
           EQ+ I        A I
Sbjct: 505 EQYRIVEKYEKAIASI 520



 Score = 62.1 bits (149), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 26/213 (12%), Positives = 62/213 (29%), Gaps = 12/213 (5%)

Query: 218 KDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN--MGL 275
           K    E    +P+ W+ +    +    +         +       N ++  +  N  +  
Sbjct: 77  KCIDEEIPFEIPNGWQWERIGNIFETTSGSTPLSRNPDYYKNGNINWVRTTDLNNGILNK 136

Query: 276 KPESYETYQIVDPGEIVFRFIDLQ-----NDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
                 +  I+D    +     +            +   +     I  +  A++P+G  +
Sbjct: 137 TEIQITSKAIIDYNLSILPQTSVCVAMYGGAGTIGKHCILHFDTTINQSVCAIQPNGFCN 196

Query: 331 TYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
                    Y             +  ++    +K   + +PP +EQ  I   +N     I
Sbjct: 197 MDYIHTFIEYQRPFWMDFAAGSRKDPNINQLIIKHCLLPIPPQEEQLRIVTKLNQLYPYI 256

Query: 390 DVLVEKIEQSIVLLKE----RRSSFIAAAVTGQ 418
                   +   + KE     + S +  A+ G+
Sbjct: 257 YQYGNSQNRLNQINKEIWHSLKKSILQEAIQGK 289



 Score = 54.8 bits (130), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 30/167 (17%), Positives = 54/167 (32%), Gaps = 3/167 (1%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV- 78
            IP  W  V       ++ G      K I       +     +    +        ST  
Sbjct: 356 DIPNTWVWVRHNDLFDISGGSQPPKSKFIEREKEGYIRLFQIRDYGSNPQPIYIPLSTAS 415

Query: 79  SIFAKGQILYGKLGPYLRKAIIADF--DGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
            I  KG IL  + G  L K   A++    +   + + L    ++ +          + Q 
Sbjct: 416 KISQKGDILLARYGASLGKVFYAEYGAYNVALAKVIPLYESRLIFQKYIFLYYCSSIYQN 475

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
                     +  + + + ++  P+PPL+EQ  I EK       I +
Sbjct: 476 EIVNRSRCAQAGFNKEDLNSLLFPLPPLSEQYRIVEKYEKAIASIMS 522


>gi|148977937|ref|ZP_01814490.1| Restriction endonuclease S subunit [Vibrionales bacterium SWAT-3]
 gi|145962883|gb|EDK28155.1| Restriction endonuclease S subunit [Vibrionales bacterium SWAT-3]
          Length = 585

 Score =  103 bits (257), Expect = 5e-20,   Method: Composition-based stats.
 Identities = 67/466 (14%), Positives = 131/466 (28%), Gaps = 89/466 (19%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKD------IIYIGLEDVESGTGKYLPKDGNSRQSD 74
           +P+ W    +       TG+T  + +       + ++G   + +  G+ L  +       
Sbjct: 106 LPQGWAWSRLGNAGIGATGKTPSTKQTEFFEGKLPFVGPGQI-TQNGQLLEAEKFLSSEG 164

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
               +   +G IL   +G  + KA +A      + Q   L+P  +  + L   + +    
Sbjct: 165 LLHSTEAVQGDILMVCIGGSIGKAALATQTVGFNQQINALRPLIMESDYLYVAVSTNSFY 224

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE----------------- 177
           + +     G+     +      + +PI PL+EQ  I  K+                    
Sbjct: 225 EGLLDKATGSATPIINRGKWEELLVPIAPLSEQHRIVAKVDELMTLCDQLEQQTEASIEA 284

Query: 178 ------------------------TVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNP 213
                                     RI             + + KQ ++   V   L P
Sbjct: 285 HQLLVRTLLDTLTNSADAEELMQNWARISEQFDTLFTTEASIDQLKQTILQLAVMGKLVP 344

Query: 214 DVKMKDS-------------------------------GIEWVGLVPDHWEVKPFFALVT 242
                +                                  E    +P+ WE      L  
Sbjct: 345 QDPNDEPAEKLLERIAEEKAQLIKDKKIKKQKALPPIADDEKPFELPNGWEWSKLQDLCF 404

Query: 243 ---ELNRKNTKLIESNILSLSYGNIIQKLE-----TRNMGLKPESYETYQIVDPGEIVFR 294
              +      K  E+    LS  N+                +          + G+I+  
Sbjct: 405 KITDGEHSTPKRTETGHYLLSARNVTNDGIILGDVDYVPDFEFARIRNRCDPNIGDILIS 464

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGL 353
                  + +L         + ++A +      +   YLA ++RS  L            
Sbjct: 465 CSGSVG-RVALVDRDNSYSMVRSAAMIRPCNTNLIKEYLALMLRSTYLQFQMKNRSKQSA 523

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
           + +L    +  L  ++PP+ EQ  I + ++      D L   IE S
Sbjct: 524 QANLFLGAISNLVGIIPPLSEQERIVSKVSELLVVCDQLKSHIEDS 569



 Score = 72.1 bits (175), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 31/191 (16%), Positives = 58/191 (30%), Gaps = 12/191 (6%)

Query: 229 PDHWEVKPFFALVTELNRKNT-----KLIESNILSLSYGNIIQKLETRN--MGLKPESYE 281
           P  W              K       +  E  +  +  G I Q  +       L  E   
Sbjct: 107 PQGWAWSRLGNAGIGATGKTPSTKQTEFFEGKLPFVGPGQITQNGQLLEAEKFLSSEGLL 166

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD 341
                  G+I+   I     K +L +  V           A++P  ++S YL   + +  
Sbjct: 167 HSTEAVQGDILMVCIGGSIGKAALATQTVG----FNQQINALRPLIMESDYLYVAVSTNS 222

Query: 342 LCK-VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
             + +           +     + L V + P+ EQ  I   ++      D L ++ E SI
Sbjct: 223 FYEGLLDKATGSATPIINRGKWEELLVPIAPLSEQHRIVAKVDELMTLCDQLEQQTEASI 282

Query: 401 VLLKERRSSFI 411
              +    + +
Sbjct: 283 EAHQLLVRTLL 293



 Score = 63.7 bits (153), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 35/197 (17%), Positives = 67/197 (34%), Gaps = 9/197 (4%)

Query: 20  AIPKHWKVVPIKRFT-KLNTG--RTSESGKDIIY-IGLEDVESGTGKYLPKDGNSRQSDT 75
            +P  W+   ++    K+  G   T +  +   Y +   +V +        D        
Sbjct: 389 ELPNGWEWSKLQDLCFKITDGEHSTPKRTETGHYLLSARNVTNDGIILGDVDYVPDFEFA 448

Query: 76  STVSIFAK--GQILYGKLGPYLRKAII---ADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
              +      G IL    G   R A++     +  + S   +     +++ E L   L S
Sbjct: 449 RIRNRCDPNIGDILISCSGSVGRVALVDRDNSYSMVRSAAMIRPCNTNLIKEYLALMLRS 508

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
             +  +++   + +  ++     I N+   IPPL+EQ  I  K+    V  D L +    
Sbjct: 509 TYLQFQMKNRSKQSAQANLFLGAISNLVGIIPPLSEQERIVSKVSELLVVCDQLKSHIED 568

Query: 191 FIELLKEKKQALVSYIV 207
                     A+V   V
Sbjct: 569 STVTQLHLTDAIVEQAV 585


>gi|213428389|ref|ZP_03361139.1| EcoKI restriction-modification system protein HsdS [Salmonella
           enterica subsp. enterica serovar Typhi str. E02-1180]
          Length = 381

 Score =  103 bits (257), Expect = 5e-20,   Method: Composition-based stats.
 Identities = 57/325 (17%), Positives = 124/325 (38%), Gaps = 12/325 (3%)

Query: 105 GICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPL 164
            +  T F + Q        L+ +L S D   ++  +  G  + + + + +  + +PIPP+
Sbjct: 15  FLLHTLFDLNQLIYFSEYYLKRFLESSDYWNQLSLMSAGNAVQNVNAQKLSTLTVPIPPI 74

Query: 165 AEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGL----NPDVKMKDS 220
           AEQ +I EK+     ++D+      +  ++LK  +QA+++  V+  L      +     S
Sbjct: 75  AEQKIIAEKLDTLLAQVDSTKARLEQIPQILKRFRQAVLAAAVSGLLIGSNKRNHHPLCS 134

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ------KLETRNMG 274
             +W   +P  W V  +  LV     K     ++   +  Y   I        LE     
Sbjct: 135 EWQW-PDLPSTWSVHKYSELVDSRLGKMLDKAKNFGSATKYLGNINVRWFSFDLENLQDI 193

Query: 275 LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
           L  +       +  G+++                Q +      + + A     I   +L 
Sbjct: 194 LISDIERRELSLKLGDVLICEGGEPGRCAIWSEPQDIPVIFQKALHRARVKDKIIPEWLV 253

Query: 335 WLMRSY-DLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
           + +++  +   +         + L  + +   P+ VPP++EQ +I   +    A  D + 
Sbjct: 254 YNLKNDSNNISLSQLFTGTTIKHLTGKALANYPIRVPPLEEQHEIVRRVEQLFAWADTIE 313

Query: 394 EKIEQSIVLLKERRSSFIAAAVTGQ 418
           +++  ++  +     S +A A  G+
Sbjct: 314 KQVNNALNRVNSLTQSILAKAFRGE 338



 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 39/212 (18%), Positives = 68/212 (32%), Gaps = 9/212 (4%)

Query: 13  SGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDI----IYIGLEDVESGTGKYLPKDG 68
           S  QW   +P  W V           G+  +  K+      Y+G  +V   +        
Sbjct: 134 SEWQW-PDLPSTWSVHKYSELVDSRLGKMLDKAKNFGSATKYLGNINVRWFSFDLENLQD 192

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAII---ADFDGICSTQFLVLQPKDVLPELLQ 125
                          G +L  + G   R AI     D   I        + KD +     
Sbjct: 193 ILISDIERRELSLKLGDVLICEGGEPGRCAIWSEPQDIPVIFQKALHRARVKDKIIPEWL 252

Query: 126 GWLLSIDVTQRIEA-ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
            + L  D      + +  G T+ H   K + N P+ +PPL EQ  I  ++       DT+
Sbjct: 253 VYNLKNDSNNISLSQLFTGTTIKHLTGKALANYPIRVPPLEEQHEIVRRVEQLFAWADTI 312

Query: 185 ITERIRFIELLKEKKQALVSYIVTKGLNPDVK 216
             +    +  +    Q++++      L    +
Sbjct: 313 EKQVNNALNRVNSLTQSILAKAFRGELTAQWR 344


>gi|308272898|emb|CBX29502.1| hypothetical protein N47_J04830 [uncultured Desulfobacterium sp.]
          Length = 387

 Score =  103 bits (257), Expect = 5e-20,   Method: Composition-based stats.
 Identities = 58/414 (14%), Positives = 133/414 (32%), Gaps = 40/414 (9%)

Query: 24  HWKVVPIKRFT--KLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
            W+   ++      + +       K I Y+    +  G  +   ++     + +    + 
Sbjct: 3   GWRKCKLRDVIASNVQSINKDYPHKTIQYLDTGSITCGKIE-SYQEIMLENTPSRAKRLV 61

Query: 82  AKGQILYGKLGPYLRKAII---ADFDGICSTQFLVLQPKDVL--PELLQGWLLSIDVTQR 136
            +  I+Y  + P  R          + + ST F V++    L  P  +  +L S ++ + 
Sbjct: 62  REHDIIYSTVRPIQRHYGFIVNPPANLVVSTGFSVIKTNRELAEPLFIYNFLTSNEIVEV 121

Query: 137 IEAICEGAT--MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           ++ I +G+T          I N+ + +PPL EQ  I   + +   +    I    R  + 
Sbjct: 122 LDVIADGSTSAYPSLKPSDIENLDILLPPLPEQKAIASVLSSLDGK----IDLLHRQNKT 177

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
           L+   Q L                   +E         +    F  V   +       E+
Sbjct: 178 LEAMAQTLFRQWF--------------VEEAQEDWQDGKFPDEFDYVMGASPPGESYNET 223

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
            +    +       E R    +  + +  +  +  + +                   E+ 
Sbjct: 224 GVGIPMFQGNAD-FEFRFPKRRIFTTDPKKFAEKYDTLVSVRAPVG-----AQNMANEKC 277

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM--GSGLRQSLKFEDVKRLPVLVPPI 372
            I     A +    +  Y     +   L K   +      +  S+   D +   +++PP 
Sbjct: 278 CIGRGVAAFRYKRNNGYYTYTYFKMKSLMKEIQSFNDTGTVFGSISKADFEAFEIIIPPS 337

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
           +      +    E   ID  V      I  L++ R + +   ++G++ ++ E++
Sbjct: 338 EL----VDRCQAEIKPIDDKVITNIIQIHTLEKLRDTLLPKLMSGEVQVKYEAK 387



 Score = 42.9 bits (99), Expect = 0.10,   Method: Composition-based stats.
 Identities = 22/187 (11%), Positives = 44/187 (23%), Gaps = 2/187 (1%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + W+            G +              +  G   +  +    R   T       
Sbjct: 196 EDWQDGKFPDEFDYVMGASPPGESYNETGVGIPMFQGNADFEFRFPKRRIFTTDPKKFAE 255

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA-IC 141
           K   L     P      +A+            + K         +     + + I++   
Sbjct: 256 KYDTLVSVRAPV-GAQNMANEKCCIGRGVAAFRYKRNNGYYTYTYFKMKSLMKEIQSFND 314

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            G               + IPP       + +I     ++ T I +     +L       
Sbjct: 315 TGTVFGSISKADFEAFEIIIPPSELVDRCQAEIKPIDDKVITNIIQIHTLEKLRDTLLPK 374

Query: 202 LVSYIVT 208
           L+S  V 
Sbjct: 375 LMSGEVQ 381


>gi|253991411|ref|YP_003042767.1| type i restriction enzyme ecobi specificity protein (s protein
           (s.ecobi) [Photorhabdus asymbiotica subsp. asymbiotica
           ATCC 43949]
 gi|253782861|emb|CAQ86026.1| type i restriction enzyme ecobi specificity protein (s protein
           (s.ecobi) [Photorhabdus asymbiotica]
          Length = 377

 Score =  103 bits (257), Expect = 5e-20,   Method: Composition-based stats.
 Identities = 52/392 (13%), Positives = 118/392 (30%), Gaps = 36/392 (9%)

Query: 27  VVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQI 86
           V  +    ++  G+               + +G G +     + ++  T    I   G I
Sbjct: 4   VCRLVDVCEITMGQAPAGSSYNEKGMGYALIAGAGDFGEMTPHPKKYTTKASKISKVGDI 63

Query: 87  LYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATM 146
           +   +   +     +D +         L+PK  L      W         + +   G+T 
Sbjct: 64  ILC-IRATIGDLNWSDKEYCLGRGVAGLRPKKELDSK-YLWHYLNTRKSLLSSKGTGSTF 121

Query: 147 SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYI 206
                  I ++ + + PL EQ  I   +               + ++L  +  QA    +
Sbjct: 122 KQISRSHIESLEIELFPLHEQKRIAAILDKADSIHRKH----EQAVKLADDFLQATFLEM 177

Query: 207 VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVT------ELNRKNTKLIESNILSLS 260
                +P V             P HW       + T            +  +E+ I  + 
Sbjct: 178 FG---DPVV------------NPSHWNKYKLKDITTKIGSGATPKGGKSVYVENGISFIR 222

Query: 261 YGNIIQKLETRNMGLKPESYETYQI----VDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
             NI          +     +   +    V   +I+         + ++    ++    +
Sbjct: 223 SLNIHDNKFLHKDLVFINDAQASALNNVEVKKNDILLNITGASVCRCAIVDNNIL-PARV 281

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA---MGSGLRQSLKFEDVKRLPVLVPPIK 373
                 ++   ++  YL  ++ S    +   +        R++L  + ++ L + +PPI+
Sbjct: 282 NQHVSIIRSEVVNHDYLLHILISPSFKQYLLSIARSAGATREALTKDQIENLSIPIPPIE 341

Query: 374 EQFDITNVINVETARIDVLVEKIEQS-IVLLK 404
            Q     +       ++ +V   E S I  L 
Sbjct: 342 LQNKFGIIKKKIKNMVEKMVSASENSLIEALN 373



 Score = 59.4 bits (142), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 36/177 (20%), Positives = 65/177 (36%), Gaps = 13/177 (7%)

Query: 22  PKHWKVVPIKRF-TKLNTGRTSESGK------DIIYIGLEDVESGTGKYLP-KDGNSRQS 73
           P HW    +K   TK+ +G T + GK       I +I   ++      +      N  Q+
Sbjct: 185 PSHWNKYKLKDITTKIGSGATPKGGKSVYVENGISFIRSLNIHDNKFLHKDLVFINDAQA 244

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGI---CSTQFLVLQPKDVLPELLQGWLLS 130
                    K  IL    G  + +  I D + +    +    +++ + V  + L   L+S
Sbjct: 245 SALNNVEVKKNDILLNITGASVCRCAIVDNNILPARVNQHVSIIRSEVVNHDYLLHILIS 304

Query: 131 IDVTQRIEAICE--GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
               Q + +I    GAT        I N+ +PIPP+  Q             ++ ++
Sbjct: 305 PSFKQYLLSIARSAGATREALTKDQIENLSIPIPPIELQNKFGIIKKKIKNMVEKMV 361


>gi|117920473|ref|YP_869665.1| restriction modification system DNA specificity subunit [Shewanella
           sp. ANA-3]
 gi|117612805|gb|ABK48259.1| restriction modification system DNA specificity domain [Shewanella
           sp. ANA-3]
          Length = 391

 Score =  103 bits (257), Expect = 5e-20,   Method: Composition-based stats.
 Identities = 53/411 (12%), Positives = 125/411 (30%), Gaps = 42/411 (10%)

Query: 28  VPIKRFTKLNTGRTSESGKDII--------YIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           V +     +  G +     D I        +I ++D  +            +    +   
Sbjct: 2   VKLGDIFDIARGGSPRPIDDYITDADDGLNWISIKDASNSNKYINSTKLKIKPEGLTKTR 61

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLV--LQPKDVLPELLQGWLLSIDVTQRI 137
           +   G  L      + R   I +  G     +LV    P  V  +     L S  + QR 
Sbjct: 62  MVYPGDFLLTNSMSFGRP-YIMNTTGCIHDGWLVLSGNPDKVNSDYFYYLLGSDTLKQRF 120

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
             +  GA + + + + + ++ +P+PPLAEQ  I   +                  +L   
Sbjct: 121 SGLAAGAVVKNLNTELVKSVEVPLPPLAEQKRIAAILDKADAIRRKRQQAIQLADDL--- 177

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
               L +  +    +P    K      +              ++T    K+ + +E +  
Sbjct: 178 ----LRAVFLEMFGDPVTNPKGFQKSKL---------SALADVITGFAFKSAEYVEDSDD 224

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQI-------VDPGEIVFRFIDLQ---NDKRSLRS 307
           ++     +  L           +++ +I       ++ G+++            K  +  
Sbjct: 225 AVRLCRGVNTLTGYFEWKDTAFWDSNKINGLHNYKLEAGDVILAMDRPWISSGLKVCVFP 284

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
               +  ++             + YL   + S    K            +   ++K   +
Sbjct: 285 ENERDTYLVQRVARIRSKQPRYTDYLYSSILSPAFEKHCCPTE-TTVPHISPVELKNFEI 343

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           LVP         +  +   +++    +++E ++    +  +S    A +GQ
Sbjct: 344 LVPD----EKSVSKYHDIVSKLRRSKDRMEMNLTEANQIFNSLSQKAFSGQ 390


>gi|32476948|ref|NP_869942.1| polypeptide HsdS [Rhodopirellula baltica SH 1]
 gi|32447496|emb|CAD79085.1| probable HsdS polypeptide, part of CfrA family [Rhodopirellula
           baltica SH 1]
          Length = 411

 Score =  103 bits (257), Expect = 5e-20,   Method: Composition-based stats.
 Identities = 59/414 (14%), Positives = 125/414 (30%), Gaps = 20/414 (4%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKD----IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            WK  P++       G+  ++ K+    + Y+   +V  G            +       
Sbjct: 2   SWKSAPLEDVADFRLGKMLDAKKNRGELMPYLANVNVRWGEFDLTDLREMRFEEHEVEKF 61

Query: 80  IFAKGQILYGKLGPYLRKAIIADFD--GICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
               G I+  + G   R AI  +     +       ++P D L      +       + +
Sbjct: 62  ELRSGDIVMCEGGEPGRCAIWKNQCENMMIQKAIHRIRPHDCLDNRFLFYSFVDLGKRGV 121

Query: 138 EA-ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
            +    G+T+ H   + +  + +P+PP+  Q  I + +      I+             +
Sbjct: 122 LSGFFTGSTIKHLPREKLALVHVPVPPIDVQQRIADVLSGYDDLIENNRRRMELLEASAR 181

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVK---PFFALVTELNRKNTKLIE 253
           +  +     +   G             W                         K +   +
Sbjct: 182 QLHEEWFVRLRFPGHEHAHFANGVPNGWEQQTIAELVEAGELELQTGPFGTQLKASDYTD 241

Query: 254 SNILSLSYGNI----IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
                ++  NI    ++  +   +  +        ++  G+IVF      +    +RS Q
Sbjct: 242 VGAPVINVRNIGLGSVRPDKLEFVPEEVAERLHKHVLASGDIVFGRKGAVDRHVLIRSMQ 301

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS--GLRQSLKFEDVKRLPV 367
                      M      I +T ++   R     +      S      SL  E + R+ V
Sbjct: 302 HGWVQGSDCIRMRSNSERISTTLMSLAFRDERHKEWMLTQCSNKATMASLNQEVLGRIEV 361

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           L+P    +     + +   A++D L    E     L   RS  +   ++G+I +
Sbjct: 362 LIPSSNIRKIFLEMASTIFAQMDNL----ESQNERLVAGRSHLLPRLMSGEIPV 411



 Score = 41.3 bits (95), Expect = 0.30,   Method: Composition-based stats.
 Identities = 29/202 (14%), Positives = 61/202 (30%), Gaps = 18/202 (8%)

Query: 21  IPKHWKVVPIKRFT-----KLNTG--RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
           +P  W+   I         +L TG   T     D   +G   +            +  + 
Sbjct: 205 VPNGWEQQTIAELVEAGELELQTGPFGTQLKASDYTDVGAPVINVRNIGLGSVRPDKLEF 264

Query: 74  DTST------VSIFAKGQILYGKLGPYLRKAII--ADFDGICSTQFLVLQPKDVLPELLQ 125
                       + A G I++G+ G   R  +I       +  +  + ++          
Sbjct: 265 VPEEVAERLHKHVLASGDIVFGRKGAVDRHVLIRSMQHGWVQGSDCIRMRSNSERISTTL 324

Query: 126 G---WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
               +         +      ATM+  + + +G I + IP    + +  E       ++D
Sbjct: 325 MSLAFRDERHKEWMLTQCSNKATMASLNQEVLGRIEVLIPSSNIRKIFLEMASTIFAQMD 384

Query: 183 TLITERIRFIELLKEKKQALVS 204
            L ++  R +         L+S
Sbjct: 385 NLESQNERLVAGRSHLLPRLMS 406


>gi|227547713|ref|ZP_03977762.1| EcoA family type I restriction-modification enzyme, S subunit
           [Corynebacterium lipophiloflavum DSM 44291]
 gi|227080211|gb|EEI18174.1| EcoA family type I restriction-modification enzyme, S subunit
           [Corynebacterium lipophiloflavum DSM 44291]
          Length = 264

 Score =  103 bits (257), Expect = 5e-20,   Method: Composition-based stats.
 Identities = 60/281 (21%), Positives = 122/281 (43%), Gaps = 24/281 (8%)

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
             +   +  IP+P+PPL  Q  I + +  E   +D LI E  R +  L  +K  L+  I+
Sbjct: 1   MVNTVDLQQIPIPLPPLETQRRIADYLDKEISEMDALIEEFERLVNDLSNRKLMLIDNII 60

Query: 208 TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK 267
            K  +P++ +   G+                  +T+   +  + IE  +  LS  + IQ 
Sbjct: 61  YKS-DPELCLAPLGL-------------FLAEPITDGPHETPEFIEEGVPFLSV-DGIQN 105

Query: 268 LETRNMGLKPESYETYQIVDP------GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
            E    G +  S E ++          G+I+            +++ +  E  I +   +
Sbjct: 106 GELTFAGCRFISQEDHERFAKKAKPRTGDILMGKAASTGKIALVKTKR--EFNIWSPLAI 163

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
                 ID  +L  +++S    +    + +   ++++   D+ R+ + V  I +Q  I +
Sbjct: 164 IRPNASIDPRWLTLVLKSPFSQRQINDLSTFNTQRNIAMGDIPRIRIPVMEIGKQGQIAD 223

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            ++ ETA++D L+E+  + I  LK R+++ I   VTG+ ++
Sbjct: 224 ELDRETAKMDALIEESTRLIENLKARKNALITEVVTGRKEV 264



 Score = 54.8 bits (130), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 36/167 (21%), Positives = 71/167 (42%), Gaps = 4/167 (2%)

Query: 45  GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK--GQILYGKLGPYLRKAII-- 100
            + + ++ ++ +++G   +      S++             G IL GK     + A++  
Sbjct: 92  EEGVPFLSVDGIQNGELTFAGCRFISQEDHERFAKKAKPRTGDILMGKAASTGKIALVKT 151

Query: 101 ADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMP 160
                I S   ++     + P  L   L S    ++I  +    T  +     I  I +P
Sbjct: 152 KREFNIWSPLAIIRPNASIDPRWLTLVLKSPFSQRQINDLSTFNTQRNIAMGDIPRIRIP 211

Query: 161 IPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
           +  + +Q  I +++  ET ++D LI E  R IE LK +K AL++ +V
Sbjct: 212 VMEIGKQGQIADELDRETAKMDALIEESTRLIENLKARKNALITEVV 258


>gi|257889087|ref|ZP_05668740.1| type I restriction-modification system DNA specificity subunit
           [Enterococcus faecium 1,141,733]
 gi|257825159|gb|EEV52073.1| type I restriction-modification system DNA specificity subunit
           [Enterococcus faecium 1,141,733]
          Length = 404

 Score =  103 bits (257), Expect = 5e-20,   Method: Composition-based stats.
 Identities = 63/404 (15%), Positives = 136/404 (33%), Gaps = 31/404 (7%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + W+   +    +   G+  E   D      + +     K++  +G  ++     +    
Sbjct: 16  EGWEQHKLIEVARYRNGKAHEQAIDE---SGKYIVV-NSKFVSTNGRVKKYTNIIIDPLK 71

Query: 83  KGQILYGKLGPYLRKAI----IADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           K ++ +        KAI    + D +   S    +               + ++      
Sbjct: 72  KNELAFVLSDVPNGKAIARTFLVDKEHRYSLNQRIAGITPHKDTDSYFLNVLMNRNPYFL 131

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
               G   ++     + N     P   EQ  I         ++D  I    R ++LLKE 
Sbjct: 132 KFDNGVGQTNLTKADVENFIGHYPSYEEQQKIGTF----FKQLDDTIALHQRKLDLLKET 187

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
           K+  +  +      P    K   + + G   + WE +    L      KN   + +    
Sbjct: 188 KKGFLQKMF-----PKNGAKVPEVRFPGFT-EDWEERKLKELFQPSKNKNNNGLYNQKDI 241

Query: 259 LSYG---NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
           L+      +I K     +    ES + Y+IV  G++++    ++     +  +     GI
Sbjct: 242 LAASLGTELIPKRTFFGLKSTRESVKNYRIVKTGDLIYTKSPIKGFPNGIIRSNKGNVGI 301

Query: 316 ITSAYMAVK-PHGIDSTYLAWLMRSYDLCK--VFYAMGSGLRQSLKFEDVKRL--PVLVP 370
           +   Y        I+S+ +       +     +F  +  G R ++   D++ L   V +P
Sbjct: 302 VPPLYCVYTLQKDINSSIIQLYFEDKNRLDFYLFPLVNVGARNNVNITDLEFLEGKVTIP 361

Query: 371 -PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
              +EQ  I         +++  +   ++ + LLKE +  F+  
Sbjct: 362 KSYEEQSKIVQF----MEQLNTTIALHQRKLDLLKETKKGFLQK 401


>gi|163858305|ref|YP_001632603.1| type I restriction-modification system, S subunit [Bordetella
           petrii DSM 12804]
 gi|163262033|emb|CAP44335.1| type I restriction-modification system, S subunit [Bordetella
           petrii]
          Length = 797

 Score =  103 bits (257), Expect = 5e-20,   Method: Composition-based stats.
 Identities = 61/491 (12%), Positives = 134/491 (27%), Gaps = 99/491 (20%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSE---SGKDIIYIGLEDVES----GTGKYLPKDGNSRQS 73
           +P+ W+   +   T +  G T       K+     +  + +       ++       R  
Sbjct: 87  LPQGWEWARLGEITDIIRGITFPASEKTKEPASGRIACLRTANVQKKIEWSDLLYIDRTF 146

Query: 74  DTSTVSIFAKGQILYGK--LGPYLRKAIIADFD----GICSTQFLVLQPKDVLPELLQGW 127
            +    +  +  I+         + K  +                VL+   V P  +   
Sbjct: 147 MSKNSQLVRQDDIVMSMANSRELVGKVAVVSEMPVNEATFGGFLGVLRTHKVAPLYVLHL 206

Query: 128 LLSIDVTQR-IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT--- 183
           L +       I+A  +   +++     +    +P+PP++EQ  I  KI     R D    
Sbjct: 207 LNTSYARSSLIDAASQTTNIANISLGKLNPFLVPVPPISEQHRIVAKIDELMARCDELEK 266

Query: 184 --------------------------------------LITERIRFIELLKEKKQALVSY 205
                                                    E       + E ++A++  
Sbjct: 267 LRTAQQGARLTVHAAAIKQLLNVAEPGQHQRAQTFLAEHFGELYTIKGNVAELRKAILQL 326

Query: 206 IVTKGLNPDVKMKDSGIEWVGLV-------------------------------PDHWEV 234
            V   L P         E +  +                               P  WE 
Sbjct: 327 AVMGKLVPQDPNDQPASELLKEIEAEKQRLVQEGKIKKTKPLPPVTEEEKPYALPQGWEW 386

Query: 235 KPFFALV-------TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY---- 283
             F  L               +  I   +  ++  +++      +  +            
Sbjct: 387 VRFGDLTTEISTGPFGSMIHKSDYIVDGVPLVNPSHMVDGKIFHDPSVTVSEIMAKKLDS 446

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC 343
             ++  +IV         + ++ +A+       T +++      I   Y+  + ++    
Sbjct: 447 HRLNTNDIVMARRGEMG-RCAIVTAESDGFLCGTGSFVLRFVDRIYRQYILTIFKTEITR 505

Query: 344 KVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
           +            +L    + ++PV +PP  EQ  I   I+      D L ++IE +   
Sbjct: 506 EFLGGNSVGTTMTNLNHGILNKMPVSLPPHPEQTRIVTKIDELMVMCDALDQQIEATSSK 565

Query: 403 LKERRSSFIAA 413
             E  ++ I A
Sbjct: 566 RTELLNALIHA 576



 Score = 77.1 bits (188), Expect = 4e-12,   Method: Composition-based stats.
 Identities = 44/278 (15%), Positives = 84/278 (30%), Gaps = 56/278 (20%)

Query: 197 EKKQALVSYIVTKGL--NPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR-------K 247
           ++ +A    +V +G    P      +  E    +P  WE      +   +         K
Sbjct: 54  QEIEAEKQQLVKEGQIKKPKPLPPVAEEEKPYALPQGWEWARLGEITDIIRGITFPASEK 113

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESY--ETYQIVDPGEIVFRFIDLQN--DKR 303
             +     I  L   N+ +K+E  ++     ++  +  Q+V   +IV    + +    K 
Sbjct: 114 TKEPASGRIACLRTANVQKKIEWSDLLYIDRTFMSKNSQLVRQDDIVMSMANSRELVGKV 173

Query: 304 SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY--AMGSGLRQSLKFED 361
           ++ S   +           ++ H +   Y+  L+ +          A  +    ++    
Sbjct: 174 AVVSEMPVNEATFGGFLGVLRTHKVAPLYVLHLLNTSYARSSLIDAASQTTNIANISLGK 233

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS-----------IVLL------- 403
           +    V VPPI EQ  I   I+   AR D L +                I  L       
Sbjct: 234 LNPFLVPVPPISEQHRIVAKIDELMARCDELEKLRTAQQGARLTVHAAAIKQLLNVAEPG 293

Query: 404 -----------------------KERRSSFIAAAVTGQ 418
                                   E R + +  AV G+
Sbjct: 294 QHQRAQTFLAEHFGELYTIKGNVAELRKAILQLAVMGK 331


>gi|296132421|ref|YP_003639668.1| restriction modification system DNA specificity domain protein
           [Thermincola sp. JR]
 gi|296030999|gb|ADG81767.1| restriction modification system DNA specificity domain protein
           [Thermincola potens JR]
          Length = 426

 Score =  103 bits (257), Expect = 5e-20,   Method: Composition-based stats.
 Identities = 58/416 (13%), Positives = 135/416 (32%), Gaps = 34/416 (8%)

Query: 26  KVVPIKRFT-KLNTGRTSESGKD------IIYIGLEDVESGTGKYLPK-DGNSRQSDTST 77
            +  +     K+ +G T + GK+      I +I   ++      Y      +  Q+   +
Sbjct: 19  NLTRLGNICTKIGSGLTPKGGKNAYKESGISFIRSLNIYDFHFDYTDLAYIDDNQARKLS 78

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGI---CSTQFLVLQPKDVLPELLQGWLLSIDVT 134
             I  +  IL    G  + +  +   + +    +    +++                   
Sbjct: 79  NVIVERHDILLNITGASVARCCMVPDNVLPARVNQHVSIVRIDKSKANPYYVLYSLNSPI 138

Query: 135 QRIEAI---CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            +   +     GAT      + I N  + +P L  Q  I   + A    I+         
Sbjct: 139 NKQRLLTLAQGGATREALTKETISNFEINLPSLTVQNKIAAILSAYDDLIENNTRRIKIL 198

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
                E  Q +      K   P  +        +G +P+ W+VK    +   +  ++   
Sbjct: 199 E----EMAQLIYREWFVKFRFPGHEKVRMVESELGPIPEGWKVKTLGEVCNIVMGQSP-- 252

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
            ES   +     +       N   +  ++E Y  +D        I         R     
Sbjct: 253 -ESKYYNTKGEGLPFHQGVSNFNNRYPTHEVYCTIDKRIAHAGDILFSVRAPVGRINIAD 311

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
            + I+     A++      ++L + M++    +     G  +  S+  +D+  + V+VP 
Sbjct: 312 RKLIVGRGLAAIRHIAGLQSFLYYQMKAIFKEEDIIGNG-AIFNSITKQDLLNVKVIVPS 370

Query: 372 IKEQFDITNVINVETAR----IDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
                   + ++ +       ID L+  + +  ++L+  R   +   ++G++D+  
Sbjct: 371 --------DCVDNDFNNKVEHIDQLILNLTRKNLILRRTRDLLLPKLISGELDVED 418



 Score = 67.1 bits (162), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 32/187 (17%), Positives = 57/187 (30%), Gaps = 3/187 (1%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +G IP+ WKV  +     +  G++ ES              G   +  +        T  
Sbjct: 228 LGPIPEGWKVKTLGEVCNIVMGQSPESKYYNTKGEGLPFHQGVSNFNNRYPTHEVYCTID 287

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
             I   G IL+    P  R   IAD   I       ++    L      +     + +  
Sbjct: 288 KRIAHAGDILFSVRAPVGR-INIADRKLIVGRGLAAIRHIAGLQS--FLYYQMKAIFKEE 344

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           + I  GA  +    + + N+ + +P          K+      I  L  + +        
Sbjct: 345 DIIGNGAIFNSITKQDLLNVKVIVPSDCVDNDFNNKVEHIDQLILNLTRKNLILRRTRDL 404

Query: 198 KKQALVS 204
               L+S
Sbjct: 405 LLPKLIS 411


>gi|158520839|ref|YP_001528709.1| restriction modification system DNA specificity subunit
           [Desulfococcus oleovorans Hxd3]
 gi|158509665|gb|ABW66632.1| restriction modification system DNA specificity domain
           [Desulfococcus oleovorans Hxd3]
          Length = 577

 Score =  103 bits (257), Expect = 5e-20,   Method: Composition-based stats.
 Identities = 62/483 (12%), Positives = 133/483 (27%), Gaps = 94/483 (19%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            IP  W V  +     +  GR  ++ +        + + ++ +    Y            
Sbjct: 101 KIPSGWNVTRLGEVLNVLNGRAYKNHEMLQEGTPLLRVGNLFTSDIWYYS------DLAL 154

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
                   G ++Y     +                + +    +        +     VT+
Sbjct: 155 EPEKYIDNGDLIYAWSASFGPFIWQGGKVIYHYHIWKLDLFDESCLYKNFLYHYLAAVTE 214

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI-------------- 181
           +I+A   G  M H     +  + + +PPLAEQ  I  K+                     
Sbjct: 215 KIKASGSGIAMIHMTKARMEKLVIMVPPLAEQHRIVTKVDELMALCDRLEQEQSQSIETH 274

Query: 182 -----------------------DTLITERIRFIELLKEKK----QALVSYIVTKGLNPD 214
                                     I +    +   ++      Q ++   V   L P 
Sbjct: 275 QTLVKTLLAALTTAGDAKACAQTWQQIADHFEILFTTEQSIDHLKQTILQLAVMGKLVPQ 334

Query: 215 VKM-------------------------------KDSGIEWVGLVPDHWEVKPFFALVTE 243
                                             K +  E    +P+ WE   F  L+  
Sbjct: 335 DPNDEPASVLLEKIDKEKARLIKAGKIKNQTPLPKITEDEKPFDLPEGWEWVRFNQLIEP 394

Query: 244 LNRKNT------KLIESNILSLSYGN----IIQKLETRNMGLKPESYETYQIVDPGEIVF 293
               +         +E+ +  +  G+       KL  +++  + +       +  GEI+ 
Sbjct: 395 NIPISYGVLVPGPDVENGVPFVRIGDLDLINPPKLPEKSIDKEIDRQYERTRLLGGEILM 454

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG- 352
             +           +      I  +         I   YL WL+++  +   F       
Sbjct: 455 GVVGSIGKLGVAPDSWRGAN-IARAICRIAPTRLILKQYLIWLLQTDLMQSGFIGATRTL 513

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
            + +L    ++     +PP+ EQ  I   ++   A  D L E++ Q+  +  +   + + 
Sbjct: 514 AQPTLNVGLIRAAATPLPPLAEQHRIVAKVDKLMALCDTLKERLHQAQTIQTQLSDAIVG 573

Query: 413 AAV 415
            A+
Sbjct: 574 QAL 576



 Score = 81.0 bits (198), Expect = 4e-13,   Method: Composition-based stats.
 Identities = 36/202 (17%), Positives = 71/202 (35%), Gaps = 9/202 (4%)

Query: 218 KDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKP 277
           K +  E    +P  W V     ++  LN +  K  E          +     +       
Sbjct: 92  KITEDEKPQKIPSGWNVTRLGEVLNVLNGRAYKNHEMLQEGTPLLRVGNLFTSDIWYYSD 151

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
            + E  + +D G++++          S          +I   ++       +S      +
Sbjct: 152 LALEPEKYIDNGDLIYA------WSASFGPFIWQGGKVIYHYHIWKLDLFDESCLYKNFL 205

Query: 338 RSY--DLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
             Y   + +   A GSG     +    +++L ++VPP+ EQ  I   ++   A  D L +
Sbjct: 206 YHYLAAVTEKIKASGSGIAMIHMTKARMEKLVIMVPPLAEQHRIVTKVDELMALCDRLEQ 265

Query: 395 KIEQSIVLLKERRSSFIAAAVT 416
           +  QSI   +    + +AA  T
Sbjct: 266 EQSQSIETHQTLVKTLLAALTT 287


>gi|49482661|ref|YP_039885.1| restriction and modification system specificity protein
           [Staphylococcus aureus subsp. aureus MRSA252]
 gi|282903020|ref|ZP_06310913.1| type I restriction-modification system, S subunit, EcoA family
           [Staphylococcus aureus subsp. aureus C160]
 gi|282907409|ref|ZP_06315257.1| type I restriction enzyme S subunit [Staphylococcus aureus subsp.
           aureus Btn1260]
 gi|282912640|ref|ZP_06320436.1| type I restriction-modification enzyme [Staphylococcus aureus
           subsp. aureus WBG10049]
 gi|282918216|ref|ZP_06325957.1| type I restriction enzyme, S subunit [Staphylococcus aureus subsp.
           aureus C427]
 gi|283959868|ref|ZP_06377309.1| type I restriction-modification system, S subunit, EcoA family
           [Staphylococcus aureus subsp. aureus A017934/97]
 gi|295426966|ref|ZP_06819605.1| type I restriction enzyme [Staphylococcus aureus subsp. aureus
           EMRSA16]
 gi|297588823|ref|ZP_06947464.1| EcoA family type I restriction-modification system [Staphylococcus
           aureus subsp. aureus MN8]
 gi|49240790|emb|CAG39455.1| putative restriction and modification system specificity protein
           [Staphylococcus aureus subsp. aureus MRSA252]
 gi|83776728|gb|ABC46687.1| Sau1hsdS1 [Staphylococcus aureus]
 gi|282317913|gb|EFB48281.1| type I restriction enzyme, S subunit [Staphylococcus aureus subsp.
           aureus C427]
 gi|282324336|gb|EFB54652.1| type I restriction-modification enzyme [Staphylococcus aureus
           subsp. aureus WBG10049]
 gi|282330308|gb|EFB59829.1| type I restriction enzyme S subunit [Staphylococcus aureus subsp.
           aureus Btn1260]
 gi|282597479|gb|EFC02438.1| type I restriction-modification system, S subunit, EcoA family
           [Staphylococcus aureus subsp. aureus C160]
 gi|283789460|gb|EFC28287.1| type I restriction-modification system, S subunit, EcoA family
           [Staphylococcus aureus subsp. aureus A017934/97]
 gi|295129418|gb|EFG59045.1| type I restriction enzyme [Staphylococcus aureus subsp. aureus
           EMRSA16]
 gi|297577334|gb|EFH96047.1| EcoA family type I restriction-modification system [Staphylococcus
           aureus subsp. aureus MN8]
 gi|312436476|gb|ADQ75547.1| EcoA family type I restriction-modification system [Staphylococcus
           aureus subsp. aureus TCH60]
 gi|315193172|gb|EFU23571.1| putative restriction and modification system specificity protein
           [Staphylococcus aureus subsp. aureus CGS00]
          Length = 410

 Score =  103 bits (257), Expect = 5e-20,   Method: Composition-based stats.
 Identities = 61/407 (14%), Positives = 139/407 (34%), Gaps = 36/407 (8%)

Query: 24  HWKVVPIKRFTKLNTGRTSES---GKDIIYIGLEDVESG---TGKYLPKDGNSRQSDTST 77
            W+   +    +   G        G     +  +DV +        L    N    +   
Sbjct: 20  EWEEKKVGELLEFKNGLNKGKEYFGSGSSIVNFKDVFNNRSLNTNNLTGKVNVNSKELKN 79

Query: 78  VSIFAKGQILYGKLGPYLRKAIIA------DFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
            S   KG + + +    + +            + + S   L  +PK  +  +   +   +
Sbjct: 80  YS-VEKGDVFFTRTSEVIGEIGYPSVILNDPENTVFSGFVLRGRPKSGIDLINNNFKRYV 138

Query: 132 DVTQRIEA-ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
             T      +   ++M+         I             + KI     ++D  I    +
Sbjct: 139 FFTNSFRKEMITKSSMTTRALTSGSAINKMKVIYPVSAKEQRKIGDFFSKLDRQIELEEQ 198

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
            +ELL+++K+  +  I ++ L           +       HWE       + E N ++  
Sbjct: 199 KLELLQQQKKGYMQKIFSQEL--------RFKDENSEDYPHWENSKIEKYLKERNERSD- 249

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
                +       II+  E        +    Y++V   +I +  + +          + 
Sbjct: 250 -KGQMLSVTINSGIIKFSELDRKDNSSKDKSNYKVVRKNDIAYNSMRMWQGASG----RS 304

Query: 311 MERGIITSAYMAVKPHGIDSTYL-AWLMRSYDLCKVFYAMGSGLR---QSLKFEDVKRLP 366
              GI++ AY  + P    S+    +  +++ +   F     GL     +LK++ +K + 
Sbjct: 305 NYNGIVSPAYTVLYPTQNTSSLFIGYKFKTHRMIHKFKINSQGLTSDTWNLKYKQLKNIN 364

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           + +P ++EQ  I +       ++D+L+ K +  I +L++ + SF+  
Sbjct: 365 IDIPVLEEQEKIGDF----FKKMDILISKQKIKIEILEKEKQSFLQK 407



 Score = 59.0 bits (141), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 34/184 (18%), Positives = 67/184 (36%), Gaps = 9/184 (4%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKD-GNSRQSDTSTVSIFA 82
           HW+   I+++ K    R+ +       + +  + SG  K+   D  ++   D S   +  
Sbjct: 231 HWENSKIEKYLKERNERSDKGQM----LSVT-INSGIIKFSELDRKDNSSKDKSNYKVVR 285

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           K  I Y  +  +   +  ++++GI S  + VL P      L  G+            I  
Sbjct: 286 KNDIAYNSMRMWQGASGRSNYNGIVSPAYTVLYPTQNTSSLFIGYKFKTHRMIHKFKINS 345

Query: 143 G---ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
               +   +  +K + NI + IP L EQ  I +      + I     +     +  +   
Sbjct: 346 QGLTSDTWNLKYKQLKNINIDIPVLEEQEKIGDFFKKMDILISKQKIKIEILEKEKQSFL 405

Query: 200 QALV 203
           Q + 
Sbjct: 406 QKMF 409


>gi|298483406|ref|ZP_07001583.1| type I restriction enzyme EcoAI specificity protein [Bacteroides
           sp. D22]
 gi|298270354|gb|EFI11938.1| type I restriction enzyme EcoAI specificity protein [Bacteroides
           sp. D22]
          Length = 470

 Score =  103 bits (257), Expect = 5e-20,   Method: Composition-based stats.
 Identities = 54/404 (13%), Positives = 112/404 (27%), Gaps = 29/404 (7%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRT----SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            +PK W         K  T  +     +       I  +++++G   +  KD  + +   
Sbjct: 69  EVPKGWVWTTFGNVCKKLTDGSHNPPPKCSNGYTVISAQNIKNGKIVFTDKDRYTDELGF 128

Query: 76  ST----VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
                   I     IL    G     AI      + + + + +    V        L S 
Sbjct: 129 QKENPRTQITNGDIILGIIGGSIGNVAIYDLSVPVIAQRSISIIDTYVSNIYCFYLLQST 188

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
                      G   +      +  + +P+PPL+EQ  I  +I      I+ +  ++   
Sbjct: 189 IFQSLFLEKSIGNAQAGVYLGELDKLYIPLPPLSEQQRIVTEIKRWFALIEQIEFDKADL 248

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWV------------GLVPDHWEVKPFFA 239
              +K+ K  ++   +   L P     +  IE +            G  P  W       
Sbjct: 249 QTTIKQTKSKILDLAIHGKLVPQDPNDEPAIELLKRINPDFTPCDNGHYPIGWLETILGE 308

Query: 240 LVTELNRK------NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVF 293
           L      K         +++  + + +                 E       V  G+++ 
Sbjct: 309 LFNHNTGKALNSSNKEGVMKDYLTTSNVYWNKFDFTVIKQMPFKEIELDKCTVTKGDLLV 368

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL 353
                                 I +    ++P         +   +Y             
Sbjct: 369 CEGGDIGRSAIW---NYDYDICIQNHIHRLRPKIDLCVPFYYYTLAYLKENNLIGGKGIG 425

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
              L    + ++ + +PP+ EQ  I   I    + +D +   +E
Sbjct: 426 LLGLSSNALHKIEMPLPPLTEQQRIVQKIEELFSVLDNIQNALE 469



 Score = 65.6 bits (158), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 29/199 (14%), Positives = 66/199 (33%), Gaps = 7/199 (3%)

Query: 227 LVPDHWEVKPF---FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY 283
            VP  W    F      +T+ +        +    +S  NI           +      +
Sbjct: 69  EVPKGWVWTTFGNVCKKLTDGSHNPPPKCSNGYTVISAQNIKNGKIVFTDKDRYTDELGF 128

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERG---IITSAYMAVKPHGIDSTYLAWLMRSY 340
           Q  +P   +     +            +      +I    +++    + + Y  +L++S 
Sbjct: 129 QKENPRTQITNGDIILGIIGGSIGNVAIYDLSVPVIAQRSISIIDTYVSNIYCFYLLQST 188

Query: 341 DLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
               +F     G  +  +   ++ +L + +PP+ EQ  I   I    A I+ +       
Sbjct: 189 IFQSLFLEKSIGNAQAGVYLGELDKLYIPLPPLSEQQRIVTEIKRWFALIEQIEFDKADL 248

Query: 400 IVLLKERRSSFIAAAVTGQ 418
              +K+ +S  +  A+ G+
Sbjct: 249 QTTIKQTKSKILDLAIHGK 267



 Score = 59.8 bits (143), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 31/169 (18%), Positives = 54/169 (31%), Gaps = 4/169 (2%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGR----TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           G  P  W    +      NTG+    +++ G    Y+   +V      +        +  
Sbjct: 295 GHYPIGWLETILGELFNHNTGKALNSSNKEGVMKDYLTTSNVYWNKFDFTVIKQMPFKEI 354

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
                   KG +L  + G   R AI      IC    +      +   +   +     + 
Sbjct: 355 ELDKCTVTKGDLLVCEGGDIGRSAIWNYDYDICIQNHIHRLRPKIDLCVPFYYYTLAYLK 414

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           +      +G  +       +  I MP+PPL EQ  I +KI      +D 
Sbjct: 415 ENNLIGGKGIGLLGLSSNALHKIEMPLPPLTEQQRIVQKIEELFSVLDN 463


>gi|312792864|ref|YP_004025787.1| restriction modification system DNA specificity domain
           [Caldicellulosiruptor kristjanssonii 177R1B]
 gi|312180004|gb|ADQ40174.1| restriction modification system DNA specificity domain
           [Caldicellulosiruptor kristjanssonii 177R1B]
          Length = 419

 Score =  103 bits (257), Expect = 5e-20,   Method: Composition-based stats.
 Identities = 63/423 (14%), Positives = 150/423 (35%), Gaps = 38/423 (8%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +P+ WK V +               K I+     D   G     P+             
Sbjct: 7   KLPEDWKGVELGEVLAYEQ-----PNKYIVKDEQYDKSHGIPVLTPEKTFILGFTQEHQG 61

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           I+    ++         + I   F    S+   +L+ K     L   +            
Sbjct: 62  IYNNIPVIIFDDFTTESRYIAFPFKLK-SSAVKILKSKCNFVNLYYVYNSMQL-----LN 115

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
              G+              +P PPL EQ  I E +      I+ +     ++  + +   
Sbjct: 116 FKPGSEHKRFWISEYSKFLIPFPPLPEQRKIAEILETIDNAIEKIDAIIEKYKRIKQGLM 175

Query: 200 QALVSYIVT---KGLNPDVKMKDSGIEW-----VGLVPDHWEVKPFFA-----LVTELNR 246
           Q L++  V    +G +   +++D  I+      +G +P+ W+++         ++T+ + 
Sbjct: 176 QDLLTKGVVSEGEGESERWRLRDENIDKFKDSPLGRIPEEWKIRKLDHREITIMITDGSH 235

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPES-------YETYQIVDPGEIVFRFIDLQ 299
            + + +E++   +     I   +      K  S                 +++F      
Sbjct: 236 YSPQPVENSEYYIVNIENIINGKIEFETCKKISPKDYKKLVSNKCNPKYRDVLFTKDGTV 295

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLK 358
               +L  +      +++S  +    + +DS+YL + + +  + K    +  G   + + 
Sbjct: 296 G--ITLVFSGERNVVLLSSIAIIRPSNCLDSSYLKYSLETEQIKKQIDILIGGSVLKRIV 353

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            +D+K L + +PP+ EQ  + +++    ++ID ++EK +     L+  +   +   +TG+
Sbjct: 354 LKDIKSLLIFIPPLPEQQRVASIL----SQIDEVIEKEQAYKEKLERIKKGLMEDLLTGK 409

Query: 419 IDL 421
           + +
Sbjct: 410 VRV 412



 Score = 54.8 bits (130), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 34/213 (15%), Positives = 82/213 (38%), Gaps = 15/213 (7%)

Query: 8   PQYKDSGVQWIGAIPKHWKVVPI--KRFTKLNTGRT-----SESGKDIIYIGLEDVESGT 60
            ++KDS    +G IP+ WK+  +  +  T + T  +          +   + +E++ +G 
Sbjct: 202 DKFKDSP---LGRIPEEWKIRKLDHREITIMITDGSHYSPQPVENSEYYIVNIENIINGK 258

Query: 61  GKYLPKDGNSRQSDT---STVSIFAKGQILYGKLGPYLRKAIIADFDGIC--STQFLVLQ 115
            ++      S +      S         +L+ K G      + +    +   S+  ++  
Sbjct: 259 IEFETCKKISPKDYKKLVSNKCNPKYRDVLFTKDGTVGITLVFSGERNVVLLSSIAIIRP 318

Query: 116 PKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKII 175
              +    L+  L +  + ++I+ +  G+ +     K I ++ + IPPL EQ  +   + 
Sbjct: 319 SNCLDSSYLKYSLETEQIKKQIDILIGGSVLKRIVLKDIKSLLIFIPPLPEQQRVASILS 378

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVSYIVT 208
                I+     + +   + K   + L++  V 
Sbjct: 379 QIDEVIEKEQAYKEKLERIKKGLMEDLLTGKVR 411


>gi|149203575|ref|ZP_01880544.1| Restriction endonuclease S subunits-like protein [Roseovarius sp.
           TM1035]
 gi|149142692|gb|EDM30734.1| Restriction endonuclease S subunits-like protein [Roseovarius sp.
           TM1035]
          Length = 413

 Score =  103 bits (256), Expect = 6e-20,   Method: Composition-based stats.
 Identities = 59/401 (14%), Positives = 125/401 (31%), Gaps = 29/401 (7%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           +P+ W    +  +  ++TG+              +  +  G+Y P    + Q        
Sbjct: 4   VPQGWAQSRLADWLDISTGKLD-----------ANAATENGQY-PFFTCAEQVSRIDTFA 51

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
           F    +L            +  + G  +        +    +L   ++    +   I   
Sbjct: 52  FDCEAVLL----AGNGNFNLHKYTGKFNAYQRTYVLQPHEIDLGFTFVALKSLLPEITKD 107

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
             G+T+ +     I +   P+PPL EQ  I  K+   + R  T  T      +L++  + 
Sbjct: 108 NRGSTIKYLRLGDIADTAAPLPPLPEQRRIVRKLDTLSARSTTARTHLTAIEKLVERYRT 167

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
           A++        +       +G        +H E     +   +   +    I  N   L+
Sbjct: 168 AVLEAAFRTAWDAGFDTTIAG------CLEHAETGLVRSKAEQTAGEGYPYIRMNHYDLA 221

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII--TS 318
                   +   +      +E YQ +   +++F   +       +      + G +   +
Sbjct: 222 --GRWNDRDLTYVAATSSEFERYQ-LRANDLLFNTRNSAELVGKVAIWPEGKDGYLFNNN 278

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYA--MGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
                    +   +  W M S    +        +    ++    +   P  VP   EQ 
Sbjct: 279 LLRMRFSADVLPGFAFWQMSSPPFRRYIEGFISATTSVAAIYQRSLMAAPFWVPDTDEQR 338

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
           +I   I    A+ID L  +  +++ LL       +A A  G
Sbjct: 339 EIVRRIETAFAKIDRLKAEAAKALKLLGHLDQRILAKAFAG 379


>gi|164688285|ref|ZP_02212313.1| hypothetical protein CLOBAR_01930 [Clostridium bartlettii DSM
           16795]
 gi|164602698|gb|EDQ96163.1| hypothetical protein CLOBAR_01930 [Clostridium bartlettii DSM
           16795]
          Length = 405

 Score =  103 bits (256), Expect = 6e-20,   Method: Composition-based stats.
 Identities = 64/416 (15%), Positives = 130/416 (31%), Gaps = 29/416 (6%)

Query: 23  KHWKVVPIKRFTKLNTGR-----TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
             WK V ++    +               +  +I   +++              +     
Sbjct: 4   SDWKTVKLEEVVDILGDGLHGTPKYSDDGEYYFINGNNLDGKIIVNEKTKRVGLEQYLKY 63

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICS-TQFLVLQPKDVLPELLQGWLLSIDVTQR 136
                   +L    G   + A     D I   +       KDV  + ++  LLS      
Sbjct: 64  KKDLNDRTLLVSINGTLGKVAEYGGEDIILGKSACYFNVKKDVNKKYIKYILLSDIFKHY 123

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           I     G T+ +   K +     P+P + EQ  I   +      +D  I       + L+
Sbjct: 124 IHNYSTGTTIKNLGLKQMRKFKFPLPNIEEQEKIANIL----SSLDDKIELNNEMNKTLE 179

Query: 197 EKKQALVSYIVTKGLNPD---VKMKDSGIE----WVGLVPDHWEVKPFFALVTELNRKNT 249
           E  Q++          P+      K SG E     +G++P  WE+     +       + 
Sbjct: 180 EMAQSIFKRWFIDFEFPNEDGQPYKSSGGEMVESELGMIPKEWEIAQIDDISQVTMGVSP 239

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESY--ETYQIVDPGEIVFRFIDLQNDKRSLRS 307
                N  ++    +    +     +KP  +  E  +I   G++VF       +      
Sbjct: 240 SSKTYNEDNIGLPLLNGAADFEGKLIKPSKFTSEPKKICKKGDMVFGVRATIGNIVFADK 299

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
              + RG+ +     V+P+        +      +  +       +  +LK  D+  L V
Sbjct: 300 EYALGRGVAS-----VEPNDKVFREFIYYSLDNSMENLINNASGSVFLNLKKADITDLKV 354

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
                    +I    N  +  +   + + +    LLK++R   +   V+G+I +  
Sbjct: 355 CYSD-----EIVKKFNNISRVLIDKIVENDMESELLKQQRDILLPKLVSGEIRITN 405



 Score = 52.9 bits (125), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 34/206 (16%), Positives = 76/206 (36%), Gaps = 11/206 (5%)

Query: 10  YKDSGVQW----IGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLP 65
           YK SG +     +G IPK W++  I   +++  G +  S           + +G   +  
Sbjct: 203 YKSSGGEMVESELGMIPKEWEIAQIDDISQVTMGVSPSSKTYNEDNIGLPLLNGAADFEG 262

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ 125
           K     +  +    I  KG +++G +   +   + AD +         ++P D +     
Sbjct: 263 KLIKPSKFTSEPKKICKKGDMVFG-VRATIGNIVFADKEYALGRGVASVEPNDKVFR-EF 320

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
            +    +  + +     G+   +     I ++ +          I +K    +  +   I
Sbjct: 321 IYYSLDNSMENLINNASGSVFLNLKKADITDLKVCYSDE-----IVKKFNNISRVLIDKI 375

Query: 186 TERIRFIELLKEKKQALVSYIVTKGL 211
            E     ELLK+++  L+  +V+  +
Sbjct: 376 VENDMESELLKQQRDILLPKLVSGEI 401


>gi|332310722|gb|EGJ23817.1| HsdS [Listeria monocytogenes str. Scott A]
          Length = 391

 Score =  103 bits (256), Expect = 6e-20,   Method: Composition-based stats.
 Identities = 47/400 (11%), Positives = 113/400 (28%), Gaps = 31/400 (7%)

Query: 25  WKVVPIKRFTKLN----TGRTSESGKDIIYIGLEDVESGTGKYLPKDGNS--RQSDTSTV 78
           W+   +              +     +  YI + D++  +  +   +  S     D    
Sbjct: 9   WEQRKLGEIANSFEYGLNASSKTYDGENKYIRITDIDESSHVFNQDNLTSPDISLDNLNH 68

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFD----GICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
            +  +G IL  + G    K+   +                   +     +    L+    
Sbjct: 69  YLLEEGDILLARTGASTGKSYCYNKIDGKVFFAGFLIRAKIKHEYNVSFIFQSTLTERYN 128

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             I+   + +     + +      + IP L EQ  I +       ++D  I    R +E 
Sbjct: 129 NFIQVTSQRSGQPGINAQEYARFALYIPKLKEQQKIGDF----FKQLDNTIALHQRKLEK 184

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
           +K  K A +S +         K +  G             +  F  +     K +     
Sbjct: 185 IKALKTAYLSEMFPAEGETKPKRRFGG-------FTDDWEQRKFIEIINRLSKTSNSSIL 237

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
             +        +    +++  K +S     +  P  I++  +                +G
Sbjct: 238 PKVEYEDIIAEEGRLNKDISNKFDS-RKGILFQPKNILYGKLRPYLKN----WLYPDFKG 292

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK- 373
           +    +   +       ++  L++S    KV             +  V      +P    
Sbjct: 293 VAVGDFWVFEAIEATPRFIYNLIQSDSYQKVANDTAGTKMPRSDWTKVSNSSFFIPKESS 352

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           EQ  I         ++D  +   ++ +  L+  + +++  
Sbjct: 353 EQKRIGTF----FKQLDDTIALHQRKLQKLQNIKKAYLNE 388


>gi|315149121|gb|EFT93137.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX0012]
          Length = 415

 Score =  103 bits (256), Expect = 6e-20,   Method: Composition-based stats.
 Identities = 60/404 (14%), Positives = 133/404 (32%), Gaps = 24/404 (5%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + W++  +K  T+   G  ++   D+  + +   +    +     GN    +    ++  
Sbjct: 18  EDWELCKLKEITERVKG--NDGRMDLPTLTISAGQGWLNQKDRFSGNIAGKEQKNYTLLL 75

Query: 83  KGQILYG----KLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           K ++ Y     KL  Y     +  ++     +           +      +        E
Sbjct: 76  KNELSYNHGNSKLAKYGAVFSLKTYEEALVPRVYHSFKSTKNSDPDFLEYIFATKKPDKE 135

Query: 139 ------AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
                 +      + + ++    NI + IP + EQ  I   +     +ID  IT   R +
Sbjct: 136 LGKLVSSGARMDGLLNINYDDFSNIKINIPHVHEQKKISNLL----RKIDNTITLHQRKL 191

Query: 193 ELLKEKKQALVSYIV---TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNT 249
           E LKE K+A +  +        N   K++ +  E         ++   +  +      N 
Sbjct: 192 EQLKELKKAYLQLMFVPTNTKNNKVPKLRFANFEGNWEQCKLIDLATTYIGLVTTMTTNY 251

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
               + ++  S     +      + LK E  +  +           +   +   S    +
Sbjct: 252 TDQGTLLIRNSDIKEGKFDLNNPIYLKEEFAKQNENRSMKMGDVVTVHTGDIGTSAVITE 311

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVL 368
            ++  I  +         ++S YL W   S    K    M +G  R +   +D  +  ++
Sbjct: 312 DLDGTIGFATITTRPSKKLNSNYLCWYFNSNIHKKYAKRMSTGDGRSNYNMKDFNKNILV 371

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           +P I+EQ  I          +D  +   +  +  LK  + S++ 
Sbjct: 372 IPKIEEQQTIGIF----FQNLDNTITLHQNKLDQLKSLKKSYLQ 411


>gi|323223292|gb|EGA07629.1| Type I restriction enzyme EcoAI specificity protein (S protein)
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. MB102109-0047]
          Length = 582

 Score =  103 bits (256), Expect = 6e-20,   Method: Composition-based stats.
 Identities = 66/494 (13%), Positives = 127/494 (25%), Gaps = 99/494 (20%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKD------IIYIGLE 54
           +K  K  P+   S  +    +P  W+ V          G+T    KD      I ++  +
Sbjct: 83  IKKQKPLPEI--SEEEKPFELPVGWEWVTFSHLGHFFGGKTPSKMKDEYWGGTIPWVTPK 140

Query: 55  DVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLR---KAIIADFDGICSTQF 111
           D+++               +   ++  + G IL+      LR      I   +   +   
Sbjct: 141 DMKTNLIVDSEDKVTPLAIE-DGLTKVSPGSILFVARSGILRRIFPVAITSIECTVNQDL 199

Query: 112 LVLQPKDVLPELLQGWLLSIDVTQRIEAI-CEGATMSHADWKGIGNIPMPIPPLAEQV-- 168
            VL P           +++      +E +   G T+    +    + P  IPP AEQ   
Sbjct: 200 KVLSPFLSEISYYIRLMMNGFERYIVENLTKTGTTVESLLFDDFISHPFMIPPFAEQNRI 259

Query: 169 ---------------------------------------LIREKIIAETVRIDTLITERI 189
                                                     + +     RI        
Sbjct: 260 LSTVKKLMSLCDQLEQHSLTSLDAHQQLVETLLTTLTDSQNADALAENWARISEHFDTLF 319

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKD------------------------------ 219
                +   KQ ++   V   L P     +                              
Sbjct: 320 TTEASIDALKQTILQLAVMGKLVPQDPNDEPASELLKRIAQEKAQLVKDGKIKKQKPLPP 379

Query: 220 -SGIEWVGLVPDHWEVKP-------FFALVTELNRKNTKLIESNILSLSYGNIIQKLETR 271
            S  E    VP+ WE                       + +   I  ++ G+I +     
Sbjct: 380 ISDKEKPFEVPEGWEWCKFGLISEFINGDRGSNYPNKNEYVVHGIPWINTGHIEKNGTLS 439

Query: 272 NMGLKPESYETYQ-----IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
              +   + + +       +  G++V+        K +          I +S  +     
Sbjct: 440 ITDMNFITEKKFNELRSGKIQSGDLVYCLRGATFGKTAFVKPYESG-AIASSLMIIRPFI 498

Query: 327 GIDSTYLAWLMRSYDLCKVFYAM-GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
                Y+   + S       +       + +L    V       PP++EQF I   I   
Sbjct: 499 REMGEYIYNYLISPFGRSQIFRFDNGSAQPNLSANSVMLYAFACPPLQEQFRIHKKITEL 558

Query: 386 TARIDVLVEKIEQS 399
               D L  + + +
Sbjct: 559 FHICDNLKLQTQSA 572



 Score = 62.1 bits (149), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 35/196 (17%), Positives = 62/196 (31%), Gaps = 10/196 (5%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
           S  E    +P  WE   F  L      K    ++      +   +  K    N+ +  E 
Sbjct: 93  SEEEKPFELPVGWEWVTFSHLGHFFGGKTPSKMKDEYWGGTIPWVTPKDMKTNLIVDSED 152

Query: 280 -------YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
                   +    V PG I+F        +R    A       +      + P   + +Y
Sbjct: 153 KVTPLAIEDGLTKVSPGSILFVARSGIL-RRIFPVAITSIECTVNQDLKVLSPFLSEISY 211

Query: 333 LAWLMRSYDLCKVFYA--MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
              LM +     +           +SL F+D    P ++PP  EQ  I + +    +  D
Sbjct: 212 YIRLMMNGFERYIVENLTKTGTTVESLLFDDFISHPFMIPPFAEQNRILSTVKKLMSLCD 271

Query: 391 VLVEKIEQSIVLLKER 406
            L +    S+   ++ 
Sbjct: 272 QLEQHSLTSLDAHQQL 287


>gi|119477798|ref|ZP_01617921.1| putative specificity protein s [marine gamma proteobacterium
           HTCC2143]
 gi|119448959|gb|EAW30200.1| putative specificity protein s [marine gamma proteobacterium
           HTCC2143]
          Length = 444

 Score =  103 bits (256), Expect = 6e-20,   Method: Composition-based stats.
 Identities = 68/431 (15%), Positives = 139/431 (32%), Gaps = 44/431 (10%)

Query: 23  KHWKVVPIKRFTKLNTGRTSE------------SGKDIIYIGLEDVESGTGKYLPKDGNS 70
           K W    I        G+               S +    +   D+++GT     +    
Sbjct: 2   KGWIKKNIGELCDSGGGKVKTGPFGAQLHQSDYSYQGTPVVMPTDIKNGTI--AQERIAR 59

Query: 71  RQSDTSTV---SIFAKGQILYGKLGPYLRKAIIAD--FDGICSTQF--LVLQPKDVLPEL 123
                 +       +KG I+YG+ G   R+A++ +     +C T    + L   +V+PE 
Sbjct: 60  VSDSHVSRLAMHQLSKGDIVYGRRGDIGRQALVKEAESGWLCGTGCLRITLGESEVIPEY 119

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPP-LAEQVLIREKIIAETVRID 182
           L  +L   ++   I+    GATM + +   +  +P+  P   A Q  I     A    I+
Sbjct: 120 LHLYLKMPEIIGWIQNQAIGATMPNLNTSILRRVPIHFPSSKATQRNIVSLSFAYDDLIE 179

Query: 183 TLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVT 242
            +         + +E  +         G       K    +WV      +          
Sbjct: 180 NIKRRINILESMGEEIYREWFVRFRFPGHKAVEFKKGVPKDWVVGRASLFFEHVKGRSYK 239

Query: 243 ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK 302
                +T       ++L   N      +  + L    + + Q+V  G++V    D+  ++
Sbjct: 240 SEEISDTDDESMPFVTLKSFNRGGGYRSDGLKLYSGKFSSSQVVHEGDVVMAVTDMTQNR 299

Query: 303 RSLRSAQVMER-----GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSL 357
             +     +        +I+   + + P  + +TYL   ++         +  +G     
Sbjct: 300 EVVGRVARVPEMGRRGAVISLDVIKLVPKSVSATYLYSYIKYSGFSHFIKSFANGA---- 355

Query: 358 KFEDVKRLPVLVPPIKEQFDIT-------NVINVETARIDVLVEKIEQSIVLLKERRSSF 410
              +V  L    P +  Q  I                 I   V  + + I  L+  R S 
Sbjct: 356 ---NVLHLK---PDLVTQQVIVVPTQGLREKFEAIVDPIHEQVGLLSKEIDNLEATRDSL 409

Query: 411 IAAAVTGQIDL 421
           +   ++G++ +
Sbjct: 410 LPRLISGKLSV 420



 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 30/200 (15%), Positives = 62/200 (31%), Gaps = 17/200 (8%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
           +PK W V     F +   GR+ +S        + + ++ L+    G G Y          
Sbjct: 217 VPKDWVVGRASLFFEHVKGRSYKSEEISDTDDESMPFVTLKSFNRGGG-YRSDGLKLYSG 275

Query: 74  DTSTVSIFAKGQILYGKL-----GPYLRKAIIADFDG----ICSTQFLVLQPKDVLPELL 124
             S+  +  +G ++            + +       G    + S   + L PK V    L
Sbjct: 276 KFSSSQVVHEGDVVMAVTDMTQNREVVGRVARVPEMGRRGAVISLDVIKLVPKSVSATYL 335

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
             ++     +  I++   GA + H     +    + +P    +      +     ++  L
Sbjct: 336 YSYIKYSGFSHFIKSFANGANVLHLKPDLVTQQVIVVPTQGLREKFEAIVDPIHEQVGLL 395

Query: 185 ITERIRFIELLKEKKQALVS 204
             E              L+S
Sbjct: 396 SKEIDNLEATRDSLLPRLIS 415


>gi|189423911|ref|YP_001951088.1| restriction endonuclease S subunits-like protein [Geobacter lovleyi
           SZ]
 gi|189420170|gb|ACD94568.1| restriction endonuclease S subunits-like protein [Geobacter lovleyi
           SZ]
          Length = 386

 Score =  103 bits (256), Expect = 6e-20,   Method: Composition-based stats.
 Identities = 71/394 (18%), Positives = 135/394 (34%), Gaps = 28/394 (7%)

Query: 24  HWKVVPIKRFTKLNTGRTSES--GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
            W+ V      +L+  R+S+        YIGLE ++    +   +   +     +  S+F
Sbjct: 9   GWQKVKFGDVVRLSKERSSDPLADGYERYIGLEHIDPEDLRV--RRWGNVADGVTFTSVF 66

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLV---LQPKDVLPELLQGWLLSIDVTQRIE 138
             GQ+L+GK   Y RK  +ADF G+CS    V     PK +LPELL     +    Q   
Sbjct: 67  KPGQVLFGKRRAYQRKVAVADFAGVCSGDIYVLESKDPKKLLPELLPFICQTEAFFQHAV 126

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
               G+     +W  + +    +PPL EQ  I E ++A    ID L++ R     L K  
Sbjct: 127 GTSAGSLSPRTNWTSLADFEFALPPLEEQRRIVELLLAVEETIDNLVSARSSAQLLFKA- 185

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
             AL+               +S  E                + +E  R  +        +
Sbjct: 186 --ALLESF------------NSLPENNKKKIADCYEIQLGKMSSEKARFGSNQKTYIKNN 231

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
                     E   M         Y+ +  G+++             +            
Sbjct: 232 NVLWGKFDFGELPQMSFDEREITKYE-LRKGDLLVCEGGEIGRAAIWQDEIPGMLYQKAL 290

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFD 377
             +  +       ++   +R      +   + +G   + L  E + +L +  P    Q  
Sbjct: 291 HRLRPRTSDDIPEFMFHYLRYCAERGILDGVATGTTIRHLPVEQLSQLALPFPKRAVQEQ 350

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
           + +++    ++I+     ++  I   +  +S+ +
Sbjct: 351 VASLL----SKIESGNSMLDAKICHSRSLKSAVL 380



 Score = 53.6 bits (127), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 31/168 (18%), Positives = 56/168 (33%), Gaps = 10/168 (5%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSE-----SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           +P++     I    ++  G+ S            YI   +V  G   +      S     
Sbjct: 194 LPEN-NKKKIADCYEIQLGKMSSEKARFGSNQKTYIKNNNVLWGKFDFGELPQMSFDERE 252

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADF-DGICST---QFLVLQPKDVLPELLQGWLLSI 131
            T     KG +L  + G   R AI  D   G+        L  +  D +PE +  +L   
Sbjct: 253 ITKYELRKGDLLVCEGGEIGRAAIWQDEIPGMLYQKALHRLRPRTSDDIPEFMFHYLRYC 312

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
                ++ +  G T+ H   + +  + +P P  A Q  +   +     
Sbjct: 313 AERGILDGVATGTTIRHLPVEQLSQLALPFPKRAVQEQVASLLSKIES 360


>gi|254932531|ref|ZP_05265890.1| HsdS [Listeria monocytogenes HPB2262]
 gi|293584086|gb|EFF96118.1| HsdS [Listeria monocytogenes HPB2262]
          Length = 404

 Score =  103 bits (256), Expect = 6e-20,   Method: Composition-based stats.
 Identities = 47/400 (11%), Positives = 113/400 (28%), Gaps = 31/400 (7%)

Query: 25  WKVVPIKRFTKLN----TGRTSESGKDIIYIGLEDVESGTGKYLPKDGNS--RQSDTSTV 78
           W+   +              +     +  YI + D++  +  +   +  S     D    
Sbjct: 22  WEQRKLGEIANSFEYGLNASSKTYDGENKYIRITDIDESSHVFNQDNLTSPDISLDNLNH 81

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFD----GICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
            +  +G IL  + G    K+   +                   +     +    L+    
Sbjct: 82  YLLEEGDILLARTGASTGKSYCYNKIDGKVFFAGFLIRAKIKHEYNVSFIFQSTLTERYN 141

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             I+   + +     + +      + IP L EQ  I +       ++D  I    R +E 
Sbjct: 142 NFIQVTSQRSGQPGINAQEYARFALYIPKLKEQQKIGDF----FKQLDNTIALHQRKLEK 197

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
           +K  K A +S +         K +  G             +  F  +     K +     
Sbjct: 198 IKALKTAYLSEMFPAEGETKPKRRFGG-------FTDDWEQRKFIEIINRLSKTSNSSIL 250

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
             +        +    +++  K +S     +  P  I++  +                +G
Sbjct: 251 PKVEYEDIIAEEGRLNKDISNKFDS-RKGILFQPKNILYGKLRPYLKN----WLYPDFKG 305

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK- 373
           +    +   +       ++  L++S    KV             +  V      +P    
Sbjct: 306 VAVGDFWVFEAIEATPRFIYNLIQSDSYQKVANDTAGTKMPRSDWTKVSNSSFFIPKESS 365

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           EQ  I         ++D  +   ++ +  L+  + +++  
Sbjct: 366 EQKRIGTF----FKQLDDTIALHQRKLQKLQNIKKAYLNE 401


>gi|317180610|dbj|BAJ58396.1| Type I restriction-modification system specificity subunit
           [Helicobacter pylori F32]
          Length = 401

 Score =  103 bits (256), Expect = 7e-20,   Method: Composition-based stats.
 Identities = 58/391 (14%), Positives = 122/391 (31%), Gaps = 24/391 (6%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           PK  +   +        G++    K + +  +  +  G       +  +R  +       
Sbjct: 13  PKGVEFRKLGEVCDFQKGKSITK-KAVTFGKVPVISGGRQPAYYHNEANRSGE------- 64

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
               I     G Y       D     +  F V  PK         +         I A  
Sbjct: 65  ---TIAISSSGVYAGYVSYWDIPVFLADSFSVS-PKQKTLMPKYLFHYLTTQQDAIHATK 120

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
               + H   K + N  +PIPPL  Q  I + + A T     L TE     +  +  +  
Sbjct: 121 STGGIPHVYSKDLQNFLIPIPPLEIQQEIVKILDAFTELNTELNTELKARKKQYQYYQNM 180

Query: 202 LV------SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
           L+             ++     K        L P   E +    +    N+K  K+ E +
Sbjct: 181 LLDFKDTNQNHQDAKMSAKPYPKRLKTLLQTLAPKGVEFRKLGEVCESTNKKTLKISEVS 240

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
            +       +        G   +        + GE +      +         +    G 
Sbjct: 241 EVKNKRMYPVINSGRDLYGYYHDFN------NDGENITIASRGEYAGFINYFNEKFFAGG 294

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
           +   Y     + + + +L + +++ ++  +   +  G   +L   D++ L + +PP++ Q
Sbjct: 295 LCYPYKVKDTNELLTKFLYFYLKTNEIQIMENLVSRGSIPALNKADIETLTIPIPPLEIQ 354

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKER 406
            +I  +++  +     L+  I   I   K++
Sbjct: 355 QEIVKILDQFSILTTDLLAGIPAEIEARKKQ 385



 Score = 62.1 bits (149), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 17/113 (15%), Positives = 40/113 (35%), Gaps = 8/113 (7%)

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ 355
           I          S   +   +  S  ++ K   +   YL   + +     +     +G   
Sbjct: 68  ISSSGVYAGYVSYWDIPVFLADSFSVSPKQKTLMPKYLFHYLTTQQ-DAIHATKSTGGIP 126

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
            +  +D++   + +PP++ Q +I  +++  T       E   +    LK R+ 
Sbjct: 127 HVYSKDLQNFLIPIPPLEIQQEIVKILDAFT-------ELNTELNTELKARKK 172


>gi|226947935|ref|YP_002803026.1| restriction modification system DNA specificity domain protein
           [Clostridium botulinum A2 str. Kyoto]
 gi|226842884|gb|ACO85550.1| restriction modification system DNA specificity domain protein
           [Clostridium botulinum A2 str. Kyoto]
          Length = 395

 Score =  103 bits (256), Expect = 7e-20,   Method: Composition-based stats.
 Identities = 54/405 (13%), Positives = 133/405 (32%), Gaps = 28/405 (6%)

Query: 26  KVVPIKRFTKLNTGRTSES---GKDIIYIGLEDVESGTGKYLPKDGNSRQ--SDTSTVSI 80
           K +       +  G         K    +  ++++     +   +  S +  +  +  S 
Sbjct: 4   KKIKCSEIIDVRDGTHDSPRYQSKGYPLVTSKNIKGNKIDFNNVNFISEEDYNKINMRSA 63

Query: 81  FAKGQILYGKLGPYLRKAIIA--DFDGICSTQFLVLQPKDVLPELLQGWLLSIDV-TQRI 137
              G IL   +G      ++       I +     L   + +      +LL+ D+   ++
Sbjct: 64  VHNGDILMPMIGTIGNPVLVNTNKKFAIKNVALFKLSNNNKVDSKYFYYLLTSDIVKNQL 123

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           E    G T +      I ++ +P+ P+ +Q+ I   +      ID    +     EL+K 
Sbjct: 124 ENRKRGGTQNFVSLSNIRSLEIPLVPIEKQIFISNILDKAKSLIDKRKAQIEDLDELVKS 183

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
           +    +       LNP         +W     +               +++     +  L
Sbjct: 184 R---FIEMFGDTKLNPF--------KWEVYRLEEIYYIIDGDRGKNYPKQDEFFERNYCL 232

Query: 258 SLSYGNIIQKLETRNMG----LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
            L+ GN+  K    +       + +       +   ++V        +          + 
Sbjct: 233 FLNAGNVTSKGFCFDKSSFIAKEKDEILRKGKLQREDLVVTTRGTVGNIAYYNDNVPYDN 292

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
             I S  + ++     +  L ++    +       +    +  +   ++K   +  PPI+
Sbjct: 293 IRINSGMVILRKRKEINP-LYFISYFSNKLVYQSLISGTAQPQMPISNMKNANIYYPPIQ 351

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            Q +    +N    ++D L  ++E+S+  L++  +S +  A  G+
Sbjct: 352 LQNEFAGFVN----QVDKLKFEMEKSLKELEDNFNSLMQKAFKGE 392


>gi|307824352|ref|ZP_07654578.1| restriction modification system DNA specificity domain protein
           [Methylobacter tundripaludum SV96]
 gi|307734732|gb|EFO05583.1| restriction modification system DNA specificity domain protein
           [Methylobacter tundripaludum SV96]
          Length = 615

 Score =  103 bits (256), Expect = 7e-20,   Method: Composition-based stats.
 Identities = 60/480 (12%), Positives = 132/480 (27%), Gaps = 97/480 (20%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSE---------SGKDIIYIGLEDVESGTGKYLPKDGNS 70
            +PK W+ V +   +    G+T           SG    ++ + D+      +      +
Sbjct: 130 ELPKGWEWVHLPDVSDYKVGKTPSTKSSVYWTNSGDGFNWVSIADLNHDDSVFETNKQIT 189

Query: 71  RQSDTSTVS--IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL 128
            ++ +          G IL       L K  I D     +   + + P   + +      
Sbjct: 190 DKAVSEVFRSDPAPAGTILMS-FKLTLGKISILDKPAFHNEAIISIYPNQSVFKDF--LF 246

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR-------- 180
             +               +  + + I  + +P+PP+AEQ  I  K+              
Sbjct: 247 KVLPARAMAGNSKSAIKGNTLNSESIAALMIPLPPMAEQQRIVAKVDELMALCDQLETQH 306

Query: 181 ---------------------------------IDTLITERIRFIELLKEKKQALVSYIV 207
                                            I             +   KQ L+   V
Sbjct: 307 SNAAEAHEKLVSHLLGTLTQSQNADDFSANWQRIAAYFDILFTTETSIDALKQTLLQLAV 366

Query: 208 TKGLNPDVKMKDSGIEWVGLV-------------------------------PDHWEVKP 236
              L P     +   E +  +                               P+ WE   
Sbjct: 367 MGKLVPQDPNDEPAGELLKRIQTEKAKLIAEGKIKKDKQLPPITDDEKPFGLPEGWEWIK 426

Query: 237 FFALVTELNRKNTKLIES----NILSLSYGNIIQK------LETRNMGLKPESYETYQIV 286
              +   +   +    +         ++ GN+ +          R++    +   +   +
Sbjct: 427 VSEVAELITSGSRDWAQYLSNEGAKFVTMGNLSRGSYELRLGNMRHVNPPKDGEGSRTKL 486

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF 346
           +  +++        +   +      +  I     +        + Y   +MRS      F
Sbjct: 487 EANDLLISITGDVGNLGRI-PEDFGDAYINQHTCLLRFVSQCRNRYFPEVMRSPMAAMQF 545

Query: 347 YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
            A   G++ S +  D+  + + +PP+ EQ  I   ++   A  D L  +I ++  L ++ 
Sbjct: 546 NAPQRGIKNSFRLGDLDEMVIPLPPLAEQHRIVAKVDELMALCDQLKTRITEANQLQQKL 605



 Score = 68.7 bits (166), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 25/196 (12%), Positives = 59/196 (30%), Gaps = 11/196 (5%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL--------SLSYGNIIQKLETR 271
           S  E    +P  WE      +      K      S            +S  ++       
Sbjct: 123 SVEEKPFELPKGWEWVHLPDVSDYKVGKTPSTKSSVYWTNSGDGFNWVSIADLNHDDSVF 182

Query: 272 NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST 331
               +       ++          I +       + + + +      A +++ P+   S 
Sbjct: 183 ETNKQITDKAVSEVFRSDPAPAGTILMSFKLTLGKISILDKPAFHNEAIISIYPNQ--SV 240

Query: 332 YLAWLMRSYDLCKVFYAMGSGLRQS-LKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
           +  +L +      +     S ++ + L  E +  L + +PP+ EQ  I   ++   A  D
Sbjct: 241 FKDFLFKVLPARAMAGNSKSAIKGNTLNSESIAALMIPLPPMAEQQRIVAKVDELMALCD 300

Query: 391 VLVEKIEQSIVLLKER 406
            L  +   +    ++ 
Sbjct: 301 QLETQHSNAAEAHEKL 316



 Score = 62.5 bits (150), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 26/197 (13%), Positives = 66/197 (33%), Gaps = 10/197 (5%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSE-----SGKDIIYIGLEDVESGTGKYLPKD---GNSRQ 72
           +P+ W+ + +    +L T  + +     S +   ++ + ++  G+ +    +    N  +
Sbjct: 418 LPEGWEWIKVSEVAELITSGSRDWAQYLSNEGAKFVTMGNLSRGSYELRLGNMRHVNPPK 477

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDG--ICSTQFLVLQPKDVLPELLQGWLLS 130
               + +      +L    G       I +  G    +    +L+            ++ 
Sbjct: 478 DGEGSRTKLEANDLLISITGDVGNLGRIPEDFGDAYINQHTCLLRFVSQCRNRYFPEVMR 537

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
             +        +    +      +  + +P+PPLAEQ  I  K+       D L T    
Sbjct: 538 SPMAAMQFNAPQRGIKNSFRLGDLDEMVIPLPPLAEQHRIVAKVDELMALCDQLKTRITE 597

Query: 191 FIELLKEKKQALVSYIV 207
             +L ++    +V   +
Sbjct: 598 ANQLQQKLADVVVERAI 614


>gi|298375957|ref|ZP_06985913.1| type I restriction-modification system, S subunit [Bacteroides sp.
           3_1_19]
 gi|298266994|gb|EFI08651.1| type I restriction-modification system, S subunit [Bacteroides sp.
           3_1_19]
          Length = 426

 Score =  103 bits (256), Expect = 7e-20,   Method: Composition-based stats.
 Identities = 56/411 (13%), Positives = 125/411 (30%), Gaps = 29/411 (7%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKD------IIYIGLEDVESGTGKYLP--KDGNSRQSD 74
           + WK  PI    ++  G T  S  D      I +I   D+       +   +        
Sbjct: 23  EGWKRTPILEICEIIGGGTPSSSNDVYWNGDIPWISSSDINENNISEITPTRHITKDAIK 82

Query: 75  TSTVSIFAKGQI-LYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
            S   +     I +  ++G  + K   +  D   S  F  L   +     L   L +I  
Sbjct: 83  HSATKLCKAPSIHIVSRVG--VGKVAFSRVDICTSQDFTNLCNINCNYIFLSYLLSTIMK 140

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            +  E   +G ++       I N+ +P+P + EQ  I + + +        I+     IE
Sbjct: 141 QKVQE--TQGTSIKGIASAEIKNLHVPLPEIEEQQRIADCLSSLDDL----ISAVADKIE 194

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
            L+E K+ L+  +          ++    +  G        K    ++T    K ++++E
Sbjct: 195 TLEEYKKGLMQQLFPAEGKTTPDIRFPEFQNEGKWILLPIKKCNIDILTGYAFKGSEILE 254

Query: 254 SN--------ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
            N        I              R    +  +   Y+++    ++           +L
Sbjct: 255 DNNGTPLMRGINITEGVVRHNNDIDRFYSREDHTLSKYRLLCNDLVIAMDGSKVGRNFAL 314

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA-MGSGLRQSLKFEDVKR 364
            + Q     ++         +     ++   + S    K       S     +  + ++ 
Sbjct: 315 INKQDEGSLLVQRVARLRADNIDFIMFIYQQIGSDRFKKYIDRINTSSGIPHISLKQIED 374

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
             +         +   ++    + +D L+      +  LK  +   +    
Sbjct: 375 FKIWTTRND--KEF-RMVTNCLSSVDELISTETAKLDQLKNHKKGLMQQLF 422


>gi|29294587|ref|NP_808857.1| HsdS protein [Lactococcus lactis subsp. lactis bv. diacetylactis]
 gi|29170399|emb|CAD79462.2| HsdS protein [Lactococcus lactis subsp. lactis bv. diacetylactis]
          Length = 405

 Score =  103 bits (256), Expect = 7e-20,   Method: Composition-based stats.
 Identities = 63/415 (15%), Positives = 128/415 (30%), Gaps = 44/415 (10%)

Query: 20  AIPK--------HWKVVPIKRFTKL-NTGRT---SESGKDIIYIGLEDVESGTGKYLPKD 67
            +P+         W+   +K   +    G+      +  D+ Y+    +  G        
Sbjct: 11  KVPELRFKGFTDEWEERKLKDVVEKQIKGKAQFEKLAQGDVEYLDTSRLNGGQALLTN-- 68

Query: 68  GNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW 127
                     +   +   IL    G             + ST    L+           +
Sbjct: 69  ---------GLKDVSLDDILILWDGSKAGTVYHGFEGALGST----LKAYRTSANSKFVY 115

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
                    I        + H     +    + IP   EQ  I         ++D  I  
Sbjct: 116 QYLKRHQDNIYNNYRTPNIPHVQKDFLNVFTISIPGSDEQAKIGSF----FKKLDDTIAL 171

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN-- 245
             R ++LLKE+K+  +  +  K      +++ +G            +      V      
Sbjct: 172 HQRKLDLLKEQKKGYLQKMFPKNGAKVPELRFAGFADDWEERKFESLLDKNEGVRRGPFG 231

Query: 246 ---RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK 302
              +K+  + ES  +     N I         +  E +E     +     F         
Sbjct: 232 SALKKDLFVKESPYVVYEQQNAIYDHYETRYNISKEKFEELHKFELIADDFIMSGAGTIG 291

Query: 303 RSLRSAQVMERGIITSAYMAVKPHG--IDSTYLAWLMRSYDLCKVFYAMGSG-LRQSL-K 358
           R  +  + +++G+   A +  + +    DS Y    +R+  + +      SG    +L  
Sbjct: 292 RISKVPKGIKKGVFNQALIRFRINKELTDSEYFLQFIRADFMQRKLTGANSGSAITNLVP 351

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
             DVK+  + VP  +EQ  I +       ++D  +   ++ + LLKE++  F+  
Sbjct: 352 MSDVKKWEIKVPIKEEQQRIGSF----FKQLDDTIALHQRKLDLLKEQKKGFLQK 402


>gi|196037267|ref|ZP_03104578.1| type I restriction-modification system specificity determinant
           [Bacillus cereus NVH0597-99]
 gi|196031509|gb|EDX70105.1| type I restriction-modification system specificity determinant
           [Bacillus cereus NVH0597-99]
          Length = 424

 Score =  103 bits (256), Expect = 7e-20,   Method: Composition-based stats.
 Identities = 54/418 (12%), Positives = 126/418 (30%), Gaps = 28/418 (6%)

Query: 26  KVVPIKRFTKLNTGR-----TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT-STVS 79
           +  P+        G        +    +  I    + +    ++ +            + 
Sbjct: 13  EWKPLGDIGAFINGSGMPKSMFDENGQVGAIHYGHIYTKYQNFVYEPIVKISEKNAEKLK 72

Query: 80  IFAKGQILYGKLGPYLRKA-----IIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
              KG ++  K    L         + D + +      + +       L   +  S ++ 
Sbjct: 73  KVQKGDLVIAKTSENLDDVMKTVAYLGDEEVVAGGHSAIFKHNQNPKYLTYIFNGSSNLI 132

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
            +   +  G  +     K +  I +PIPPL  Q  I E I   T  ++ L  E    +  
Sbjct: 133 MQKNRLARGTKVIELSAKHMEKIRIPIPPLEIQEKIVEIIDGFTRYVNGLTAELTAELTA 192

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWV-GLVPDHWEVKPFFALVTELNRKNTKLIE 253
            K++       +    L+ +   K S      G   D         +        T   +
Sbjct: 193 RKKQYAYYRDML----LSEEYLNKLSETLGNEGETNDKVIWTTLGEVAKFKYGFTTTAKD 248

Query: 254 S-NILSLSYGNIIQKLETRNMG---LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
             N   L   +I +    +      +  +  +   +V   +++         K    S +
Sbjct: 249 IGNYRFLRITDITENGILKTENAKFVNDDEVDEDYLVGKDDVLMARTGATYGKTLYISEK 308

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVL 368
           +          +      + S Y     +S D  K    +   G +       +K++ + 
Sbjct: 309 INAVYASFLIKIDTDKEKLSSRYYWHFAQSGDYWKQADFLAKGGGQPQFNANVLKKVKLP 368

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIAAAV-TGQIDL 421
           +P +  Q  + +++++       + + + + I L K+     R   +  A   G+ D+
Sbjct: 369 IPSLAIQAHVVSILDIFDKLTSDITQGLLKEIELRKKQYVYYREKLL--AFECGEKDV 424


>gi|114319661|ref|YP_741344.1| restriction modification system DNA specificity subunit
           [Alkalilimnicola ehrlichii MLHE-1]
 gi|114226055|gb|ABI55854.1| restriction modification system DNA specificity domain protein
           [Alkalilimnicola ehrlichii MLHE-1]
          Length = 413

 Score =  103 bits (256), Expect = 7e-20,   Method: Composition-based stats.
 Identities = 60/419 (14%), Positives = 147/419 (35%), Gaps = 40/419 (9%)

Query: 24  HWKVVPIKRFTKLNTGRTSES---GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
            W  V +     +NT     +     +  +  L   ++  G  + K  +   +  +    
Sbjct: 5   SWPDVSLGNIFTINTSAVIPNAAPNTEFYHHSLPAWDATGGPTVEKGSSIESNKVN---- 60

Query: 81  FAKGQILYGKLGPYLRKAIIADFDG-----ICSTQFLVLQPKDVLP-ELLQGWLLSIDVT 134
             K  +L  KL P   +  + +  G       ST+F+ L+PK             +    
Sbjct: 61  ITKPCVLVSKLNPRKPRVSVLESVGKDERHCASTEFVCLEPKAKEHLRFWGHLFSNKRFA 120

Query: 135 QRIEAICEGATMSH--ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
             ++ +  G+T SH       + ++ + +P   E+ LI   +     +    I +    I
Sbjct: 121 GHLDRMAIGSTNSHKRFSPGVLLSLRIELPSEPERRLIARILDTLDTQ----IQKTEALI 176

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIE--------WVGLVPDHWEVKPFFALVTEL 244
             L++ K+ L+  ++T+G++ + +++ S  +         +GL+P  W     + +    
Sbjct: 177 AKLEKVKEGLLHDLLTRGIDDNGQLRPSPEQAPELYKESPLGLIPREWNAVRLYEMAENH 236

Query: 245 NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
           + +   L +S     +Y           +           + + GE V            
Sbjct: 237 DGQRIPLKKSERKHGTYPYYGASGIIDWVEGYLFEGSYVLLGEDGENVVSRNLP------ 290

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKR 364
           L         +   A++       D+ +L  ++   D  +         +  +    ++ 
Sbjct: 291 LAFPVTGRFWVNNHAHIYSPKDDCDTRFLVEVLEQKDYSRWVN---GSAQPKITQASLRM 347

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
           +    PP  EQ  I+N +      I+  +++ +  I  ++ +++  +   +TG++ +  
Sbjct: 348 MWFCKPPTAEQKAISNSLEA----INQQIDEEKIKIAKVRTQKAGVMDDLLTGRVRVTP 402



 Score = 49.0 bits (115), Expect = 0.001,   Method: Composition-based stats.
 Identities = 34/204 (16%), Positives = 61/204 (29%), Gaps = 21/204 (10%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGN 69
           YK+S    +G IP+ W  V +    + + G+     K          E   G Y     +
Sbjct: 212 YKESP---LGLIPREWNAVRLYEMAENHDGQRIPLKKS---------ERKHGTYPYYGAS 259

Query: 70  SRQSDTSTVSIFAKGQILYGKLGP-----YLRKAIIADFDGICSTQFLVLQPKDVLPELL 124
                     +F    +L G+ G       L  A         +    +  PK    +  
Sbjct: 260 GIIDWVEGY-LFEGSYVLLGEDGENVVSRNLPLAFPVTGRFWVNNHAHIYSPK---DDCD 315

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
             +L+ +   +       G+         +  +    PP AEQ  I   + A   +ID  
Sbjct: 316 TRFLVEVLEQKDYSRWVNGSAQPKITQASLRMMWFCKPPTAEQKAISNSLEAINQQIDEE 375

Query: 185 ITERIRFIELLKEKKQALVSYIVT 208
             +  +           L++  V 
Sbjct: 376 KIKIAKVRTQKAGVMDDLLTGRVR 399


>gi|317010095|gb|ADU80675.1| type I R-M system specificity subunit [Helicobacter pylori India7]
          Length = 350

 Score =  102 bits (255), Expect = 8e-20,   Method: Composition-based stats.
 Identities = 53/375 (14%), Positives = 115/375 (30%), Gaps = 37/375 (9%)

Query: 47  DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGI 106
           +I +  +    +    ++ K         +  S   KG IL    G   R  I       
Sbjct: 10  EIPFYKIGTFGNTADAFISKKLFL--EYQTKYSFPKKGDILISASGTIGRAVIYDGKPAY 67

Query: 107 CSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAE 166
                +V        E L            ++   E  T+         N  +P+PPL E
Sbjct: 68  FQDSNIVWI---DNDETLVKNDFLFYAYSNVKWNTEHTTILRLYNDNFRNTLIPLPPLNE 124

Query: 167 QVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVG 226
           Q+ I   +      + +L    ++   + K     L+S                  + + 
Sbjct: 125 QIAIANILSGLDHYLYSLRALILKKESVKKALSFELLSQ----------------RKRLK 168

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIV 286
               +W+      +   +  +    I          N   K    N G+    Y     V
Sbjct: 169 GFNQNWQRVRLGDICEIVKGQQINKISL--------NNTDKYPVINGGIDFLGYTNKFNV 220

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF 346
               I           R ++S         +   +    + +++  L  +++SY+   + 
Sbjct: 221 SKNTIAISEGGTCGYVRFMKSDFWSGGHNYS---LQKISNKVNNLCLYHILKSYE-KDIM 276

Query: 347 YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
                   ++++ + +K   +L+PP+ EQ  I ++++     I  L  K  Q     +  
Sbjct: 277 KLGVGSGLKNIQLKALKDFEILLPPLNEQSAIADILSALDKEIANLKNKKRQ----FENI 332

Query: 407 RSSFIAAAVTGQIDL 421
           + +     ++ +I +
Sbjct: 333 KKALNHDLMSAKIRV 347



 Score = 53.3 bits (126), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 27/182 (14%), Positives = 63/182 (34%), Gaps = 11/182 (6%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           ++W+ V +    ++  G+                 + T KY   +G       +     +
Sbjct: 172 QNWQRVRLGDICEIVKGQQINKIS----------LNNTDKYPVINGGIDFLGYTNKFNVS 221

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           K  I   + G       +          + + +  + +  L   + +     + I  +  
Sbjct: 222 KNTIAISEGGTCGYVRFMKSDFWSGGHNYSLQKISNKVNNLCL-YHILKSYEKDIMKLGV 280

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           G+ + +   K + +  + +PPL EQ  I + + A    I  L  ++ +F  + K     L
Sbjct: 281 GSGLKNIQLKALKDFEILLPPLNEQSAIADILSALDKEIANLKNKKRQFENIKKALNHDL 340

Query: 203 VS 204
           +S
Sbjct: 341 MS 342


>gi|282865356|ref|ZP_06274408.1| hypothetical protein SACTEDRAFT_4953 [Streptomyces sp. ACTE]
 gi|282559829|gb|EFB65379.1| hypothetical protein SACTEDRAFT_4953 [Streptomyces sp. ACTE]
          Length = 107

 Score =  102 bits (255), Expect = 8e-20,   Method: Composition-based stats.
 Identities = 32/98 (32%), Positives = 56/98 (57%), Gaps = 2/98 (2%)

Query: 329 DSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           D+ Y  +++ +         + +G+    +    V++  +  PP+ EQ  +   ++ ETA
Sbjct: 10  DAGYFRYVISTDAFYDYLEPLFTGVSVPHVSEWQVRKFKMPFPPLDEQRCMARHLDAETA 69

Query: 388 RIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGES 425
           +ID L+ + E+ I L +ERRS+ I AAVTGQID+ GE+
Sbjct: 70  KIDTLIAESERFIELARERRSALITAAVTGQIDV-GEA 106


>gi|257424552|ref|ZP_05600981.1| type I restriction modification DNA specificity protein
           [Staphylococcus aureus subsp. aureus 55/2053]
 gi|257427218|ref|ZP_05603620.1| Sau1hsdS1 [Staphylococcus aureus subsp. aureus 65-1322]
 gi|257429854|ref|ZP_05606241.1| restriction modification system DNA specificity subunit
           [Staphylococcus aureus subsp. aureus 68-397]
 gi|257432558|ref|ZP_05608921.1| restriction and modification system specificity protein
           [Staphylococcus aureus subsp. aureus E1410]
 gi|257435462|ref|ZP_05611513.1| restriction modification system specificity subunit [Staphylococcus
           aureus subsp. aureus M876]
 gi|282913268|ref|ZP_06321060.1| type I restriction-modification system, S subunit, EcoA family
           [Staphylococcus aureus subsp. aureus M899]
 gi|282922896|ref|ZP_06330586.1| type I restriction enzyme, S subunit [Staphylococcus aureus subsp.
           aureus C101]
 gi|293509256|ref|ZP_06667973.1| hypothetical protein SAZG_02421 [Staphylococcus aureus subsp.
           aureus M809]
 gi|293550523|ref|ZP_06673195.1| type I restriction-modification system, S subunit, EcoA family
           [Staphylococcus aureus subsp. aureus M1015]
 gi|257273570|gb|EEV05672.1| type I restriction modification DNA specificity protein
           [Staphylococcus aureus subsp. aureus 55/2053]
 gi|257276849|gb|EEV08300.1| Sau1hsdS1 [Staphylococcus aureus subsp. aureus 65-1322]
 gi|257280335|gb|EEV10922.1| restriction modification system DNA specificity subunit
           [Staphylococcus aureus subsp. aureus 68-397]
 gi|257283437|gb|EEV13569.1| restriction and modification system specificity protein
           [Staphylococcus aureus subsp. aureus E1410]
 gi|257286058|gb|EEV16174.1| restriction modification system specificity subunit [Staphylococcus
           aureus subsp. aureus M876]
 gi|282315117|gb|EFB45503.1| type I restriction enzyme, S subunit [Staphylococcus aureus subsp.
           aureus C101]
 gi|282323368|gb|EFB53687.1| type I restriction-modification system, S subunit, EcoA family
           [Staphylococcus aureus subsp. aureus M899]
 gi|290919570|gb|EFD96646.1| type I restriction-modification system, S subunit, EcoA family
           [Staphylococcus aureus subsp. aureus M1015]
 gi|291467895|gb|EFF10404.1| hypothetical protein SAZG_02421 [Staphylococcus aureus subsp.
           aureus M809]
          Length = 410

 Score =  102 bits (255), Expect = 8e-20,   Method: Composition-based stats.
 Identities = 61/407 (14%), Positives = 139/407 (34%), Gaps = 36/407 (8%)

Query: 24  HWKVVPIKRFTKLNTGRTSES---GKDIIYIGLEDVESG---TGKYLPKDGNSRQSDTST 77
            W+   +    +   G        G     +  +DV +        L    N    +   
Sbjct: 20  EWEEKKVGELLEFKNGLNKGKEYFGSGSSIVNFKDVFNNRSLNTNNLTGKVNVNSKELKN 79

Query: 78  VSIFAKGQILYGKLGPYLRKAIIA------DFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
            S   KG + + +    + +            + + S   L  +PK  +  +   +   +
Sbjct: 80  YS-VEKGDVFFTRTSEVIGEIGYPSVILNDPENTVFSGFVLRGRPKSGIDLINNNFKRYV 138

Query: 132 DVTQRIEA-ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
             T      +   ++M+         I             + KI     ++D  I    +
Sbjct: 139 FFTNSFRKEMITKSSMTTRALTSGSAINKMKVIYPVSAKEQRKIGDFFNKLDRQIELEEQ 198

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
            +ELL+++K+  +  I ++ L           +       HWE       + E N ++  
Sbjct: 199 KLELLQQQKKGYMQKIFSQEL--------RFKDENSEDYPHWENSKIEKYLKERNERSD- 249

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
                +       II+  E        +    Y++V   +I +  + +          + 
Sbjct: 250 -KGQMLSVTINSGIIKFSELDRKDNSSKDKSNYKVVRKNDIAYNSMRMWQGASG----RS 304

Query: 311 MERGIITSAYMAVKPHGIDSTYL-AWLMRSYDLCKVFYAMGSGLR---QSLKFEDVKRLP 366
              GI++ AY  + P    S+    +  +++ +   F     GL     +LK++ +K + 
Sbjct: 305 NYNGIVSPAYTVLYPTQNTSSLFIGYKFKTHRMIHKFKINSQGLTSDTWNLKYKQLKNIN 364

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           + +P ++EQ  I +       ++D+L+ K +  I +L++ + SF+  
Sbjct: 365 IDIPVLEEQEKIGDF----FKKMDILISKQKIKIEILEKEKQSFLQK 407



 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 34/184 (18%), Positives = 67/184 (36%), Gaps = 9/184 (4%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKD-GNSRQSDTSTVSIFA 82
           HW+   I+++ K    R+ +       + +  + SG  K+   D  ++   D S   +  
Sbjct: 231 HWENSKIEKYLKERNERSDKGQM----LSVT-INSGIIKFSELDRKDNSSKDKSNYKVVR 285

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           K  I Y  +  +   +  ++++GI S  + VL P      L  G+            I  
Sbjct: 286 KNDIAYNSMRMWQGASGRSNYNGIVSPAYTVLYPTQNTSSLFIGYKFKTHRMIHKFKINS 345

Query: 143 G---ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
               +   +  +K + NI + IP L EQ  I +      + I     +     +  +   
Sbjct: 346 QGLTSDTWNLKYKQLKNINIDIPVLEEQEKIGDFFKKMDILISKQKIKIEILEKEKQSFL 405

Query: 200 QALV 203
           Q + 
Sbjct: 406 QKMF 409


>gi|167041820|gb|ABZ06561.1| putative Type I restriction modification DNA specificity domain
           protein [uncultured marine microorganism HF4000_097M14]
          Length = 425

 Score =  102 bits (255), Expect = 8e-20,   Method: Composition-based stats.
 Identities = 63/424 (14%), Positives = 148/424 (34%), Gaps = 37/424 (8%)

Query: 25  WKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTG---KYLPKDGNSRQSDTST 77
           W  +      KLNT    +      ++++ +   DV        K   +   +   +  +
Sbjct: 9   WIKLKFSEIGKLNTSSVDKKIQLNEQNVLLLNYMDVYRNNFISNKINFQKITATSKELES 68

Query: 78  VSIFAKGQILYGKL----GPYLRKAIIADFDGICSTQFLV-----LQPKDVLPELLQGWL 128
                KG I +             A+I          + +        K +         
Sbjct: 69  FK-VNKGDIFFTPSSETPDDIGHSAVIVSELINTLQSYHLVKLKLNDEKLMDLNFRGYVF 127

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPP-LAEQVLIREKIIAETVRIDTLITE 187
            S ++  +      G+T      K    I +  P  + +Q  I   +      +D +I +
Sbjct: 128 NSENILNQFRLAATGSTRFTISLKEFAKIEVYFPKSIPDQKKIASIL----TSVDDVIEK 183

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK 247
               I  L++ K+  ++ ++ KG+    + KDS +  V       E+     +++    K
Sbjct: 184 TQSKINKLQDLKKGTINKLLIKGIG-HTEFKDSELGIVPKSWKIMELSKVSKILSSNVDK 242

Query: 248 NTKLIESNILSLSYGNIIQKL-----ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK 302
            TK  E+++L  +Y ++ + L              +S     ++   +++        D 
Sbjct: 243 KTKENETSVLLCNYMDVYKNLKITREINFMKASAKKSEIDKFLIKKDDVIITKDSETPDD 302

Query: 303 RSLRSAQVMERGIITSAY----MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSL 357
            ++ S        +   Y    +      +D  +L +  +   +   F  + +G  R  L
Sbjct: 303 IAISSYVSENFDNVLCGYHLSIIRPNKSVLDGKFLNFFFKLDYMHHRFSILANGTTRFGL 362

Query: 358 KFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
             ++V+   +L+P ++EQ  I N+I      ++  +  I++ +      + S +   +TG
Sbjct: 363 NLKEVENSKILIPELEEQKKIANIICS----LEDKILIIKKKLNKYVFIKKSLMQDLLTG 418

Query: 418 QIDL 421
           ++ +
Sbjct: 419 KVRV 422



 Score = 49.8 bits (117), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 37/214 (17%), Positives = 80/214 (37%), Gaps = 17/214 (7%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKL----NTGRTSESGKDIIYIGLEDVESGTGKYL 64
           ++KDS    +G +PK WK++ + + +K+       +T E+   ++     DV        
Sbjct: 211 EFKDSE---LGIVPKSWKIMELSKVSKILSSNVDKKTKENETSVLLCNYMDVYKNLKITR 267

Query: 65  PKDGNSRQSDTS--TVSIFAKGQILYGKLGPYLRKAIIADF------DGICSTQFLVLQP 116
             +     +  S     +  K  ++  K         I+ +      + +C     +++P
Sbjct: 268 EINFMKASAKKSEIDKFLIKKDDVIITKDSETPDDIAISSYVSENFDNVLCGYHLSIIRP 327

Query: 117 KDV--LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKI 174
                  + L  +     +  R   +  G T    + K + N  + IP L EQ  I   I
Sbjct: 328 NKSVLDGKFLNFFFKLDYMHHRFSILANGTTRFGLNLKEVENSKILIPELEEQKKIANII 387

Query: 175 IAETVRIDTLITERIRFIELLKEKKQALVSYIVT 208
            +   +I  +  +  +++ + K   Q L++  V 
Sbjct: 388 CSLEDKILIIKKKLNKYVFIKKSLMQDLLTGKVR 421


>gi|116629554|ref|YP_814726.1| restriction endonuclease S subunit [Lactobacillus gasseri ATCC
           33323]
 gi|238854087|ref|ZP_04644436.1| restriction endonuclease S subunit [Lactobacillus gasseri 202-4]
 gi|116095136|gb|ABJ60288.1| Restriction endonuclease S subunit [Lactobacillus gasseri ATCC
           33323]
 gi|238833294|gb|EEQ25582.1| restriction endonuclease S subunit [Lactobacillus gasseri 202-4]
          Length = 396

 Score =  102 bits (255), Expect = 8e-20,   Method: Composition-based stats.
 Identities = 55/408 (13%), Positives = 133/408 (32%), Gaps = 35/408 (8%)

Query: 26  KVVPIKRFTKLNTGRTSESG------KDIIYIGLEDV------ESGTGKYLPKDGNSRQS 73
           K+  +    +  +G                +  + D+                  + R  
Sbjct: 5   KIKLLGEICEFYSGTGFPKKFQGNLEGKYPFYKVGDISKSADENKNFLTKSDNYVDERIV 64

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
            T    I     I++ K+G  L+          C     VL  K     +L  ++     
Sbjct: 65  KTLKGKIVPPKTIVFAKIGEALKLNRRMITSTECLIDNNVLGIKPKNDSILAEYIFYFMK 124

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
             ++E   E  T+       +  I + +P +  Q  I   +        +      +  E
Sbjct: 125 FVKLENYSESTTVPSVRKSELEKIKIRVPSIQNQQKIISILENIDKTKKSKTESLKKLNE 184

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
           L       + +  V    +P++K KD  ++ +  +      K       +  R     +E
Sbjct: 185 L-------IKARFVEMFGDPEIKNKDKSLKKLCDICLVNPDKR------KDPRLTNNDLE 231

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID--LQNDKRSLRSAQVM 311
            + + +S  +    ++T N+ L  E  + +      +++F  I   ++N K ++      
Sbjct: 232 VSFVPMSAVSENGDIDTTNIKLYSEVRKGFTYFSSNDVLFAKITPCMENGKGAIAQNLKN 291

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWL----MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
           + G  ++ +  ++P    S            S+         GS  ++ +  + ++   V
Sbjct: 292 DIGFGSTEFHVLRPLENLSNPYWLYVLTTFDSFRKVAEINMTGSAGQKRVPVKFLENYKV 351

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            +PP+  Q +  N +     ++D     +++S+   ++   S +    
Sbjct: 352 NIPPLSLQNEFANFV----QQVDKSKVAVQKSLDETQKLFDSLMQEYF 395



 Score = 62.5 bits (150), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 34/195 (17%), Positives = 69/195 (35%), Gaps = 9/195 (4%)

Query: 217 MKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK 276
           M+D  I+ +G + + +    F               +   +S S       L   +  + 
Sbjct: 1   MEDIKIKLLGEICEFYSGTGFPKKFQGNLEGKYPFYKVGDISKSADENKNFLTKSDNYVD 60

Query: 277 PESYE--TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
               +    +IV P  IVF  I         R        +I +  + +KP   DS    
Sbjct: 61  ERIVKTLKGKIVPPKTIVFAKIGEALKLN--RRMITSTECLIDNNVLGIKPKN-DSILAE 117

Query: 335 WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
           ++       K+     S    S++  +++++ + VP I+ Q  I +++      ID   +
Sbjct: 118 YIFYFMKFVKLENYSESTTVPSVRKSELEKIKIRVPSIQNQQKIISILE----NIDKTKK 173

Query: 395 KIEQSIVLLKERRSS 409
              +S+  L E   +
Sbjct: 174 SKTESLKKLNELIKA 188


>gi|329937001|ref|ZP_08286630.1| restriction modification system DNA specificity subunit
           [Streptomyces griseoaurantiacus M045]
 gi|329303608|gb|EGG47493.1| restriction modification system DNA specificity subunit
           [Streptomyces griseoaurantiacus M045]
          Length = 210

 Score =  102 bits (255), Expect = 8e-20,   Method: Composition-based stats.
 Identities = 36/195 (18%), Positives = 74/195 (37%), Gaps = 13/195 (6%)

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYE---------TYQIV 286
              +  T    +     + +I  ++ G + Q  E R   +     +           ++ 
Sbjct: 6   RMGSGHTPSRSRPDWWSDCHIPWITTGEVKQVREDRIEDVHETREKISDVGLANSAAELH 65

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF 346
             G +             +     ++               +   YL W +R+     + 
Sbjct: 66  PKGTVFLCRTASAGYSGVMG----LDMATSQDFVTWTCGPRLLPYYLLWCLRAMRPDLLG 121

Query: 347 YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
                   +++   D++ L + +PP++ Q  I + I  + AR+D L +K+++   LL+ER
Sbjct: 122 RLAMGSTHKTIYVPDLQMLRIPLPPMETQEQIVDAIRRQNARVDALTDKVQRQHELLRER 181

Query: 407 RSSFIAAAVTGQIDL 421
           R + I AAVTGQ D+
Sbjct: 182 RQALITAAVTGQFDV 196


>gi|118497303|ref|YP_898353.1| type I restriction-modification system, subunit S [Francisella
           tularensis subsp. novicida U112]
 gi|194323607|ref|ZP_03057384.1| type I restriction modification DNA specificity domain protein
           [Francisella tularensis subsp. novicida FTE]
 gi|118423209|gb|ABK89599.1| type I restriction-modification system, subunit S [Francisella
           novicida U112]
 gi|194322462|gb|EDX19943.1| type I restriction modification DNA specificity domain protein
           [Francisella tularensis subsp. novicida FTE]
          Length = 406

 Score =  102 bits (255), Expect = 8e-20,   Method: Composition-based stats.
 Identities = 52/398 (13%), Positives = 122/398 (30%), Gaps = 25/398 (6%)

Query: 24  HWKVVPIKRFTKLNTGRTS-----ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
            W+   IK  T L    +       S  D + +  +++ +G+      D    + D   +
Sbjct: 21  EWEENNIKALTSLLKDGSHGTHKEASESDYLLLSAKNITNGSINVYEDDRRISEEDYRQI 80

Query: 79  SI---FAKGQILYGKLGPYLRKAIIADFDGICSTQ-FLVLQPKDVLPELLQGWLLSIDVT 134
                  K  ++   +G   R A++ + D I   +     + K+   + +     +    
Sbjct: 81  YRNYHLQKDDLVLTIVGTIGRSALVKEIDKIAFQRSVAFFRFKNHNSKFVYQLFNTPKFL 140

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             ++     +         +  I + +P   EQ  I + +      I+ L +        
Sbjct: 141 NELDRRKVVSAQPGIYLGDLAKIKLTLPSKQEQQKIADCLSTWDDSIENLKSLIENKKLY 200

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
            K   Q L S  +    +      +   + +G V                +  NT+L   
Sbjct: 201 KKGMMQKLFSQEIRFKADNGSDFPEWVEKRLGDVGTVIT-------GKTPSTSNTELWNG 253

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
           NI  ++  +I                    I+  G IV+  I         + +      
Sbjct: 254 NIEFITPTDIEGAKYQTRTSRTVTEQTKMNILPIGTIVYTCIGSIG-----KMSLSTLPS 308

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKE 374
           I      ++  +  ++    +         +     +     +   +  +  + VP + E
Sbjct: 309 ITNQQINSLIVNEQNNNEFVYYSLLNLTPYIQSTQANTTLPIINKTEFSKFKIKVPCLAE 368

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           Q  I N ++     I++L +++EQ  +     +   + 
Sbjct: 369 QTKIANFLSCLDDEIELLEQELEQLQLQ----KKGLMQ 402



 Score = 84.5 bits (207), Expect = 3e-14,   Method: Composition-based stats.
 Identities = 28/210 (13%), Positives = 67/210 (31%), Gaps = 14/210 (6%)

Query: 218 KDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKP 277
           K    E+ G   ++        L    +  + +  ES+ L LS  NI           + 
Sbjct: 12  KLRFKEFSGEWEENNIKALTSLLKDGSHGTHKEASESDYLLLSAKNITNGSINVYEDDRR 71

Query: 278 ESYETY------QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST 331
            S E Y        +   ++V   +        ++    +++     +    +    +S 
Sbjct: 72  ISEEDYRQIYRNYHLQKDDLVLTIVGTIGRSALVK---EIDKIAFQRSVAFFRFKNHNSK 128

Query: 332 YLAWLMRSYDLCKVF-YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
           ++  L  +               +  +   D+ ++ + +P  +EQ  I + ++     I+
Sbjct: 129 FVYQLFNTPKFLNELDRRKVVSAQPGIYLGDLAKIKLTLPSKQEQQKIADCLSTWDDSIE 188

Query: 391 VLVEKIEQSIVLLKERRSSFIAAAVTGQID 420
            L   IE      K  +   +    + +I 
Sbjct: 189 NLKSLIENK----KLYKKGMMQKLFSQEIR 214


>gi|291614891|ref|YP_003525048.1| restriction modification system DNA specificity domain protein
           [Sideroxydans lithotrophicus ES-1]
 gi|291585003|gb|ADE12661.1| restriction modification system DNA specificity domain protein
           [Sideroxydans lithotrophicus ES-1]
          Length = 426

 Score =  102 bits (255), Expect = 9e-20,   Method: Composition-based stats.
 Identities = 60/418 (14%), Positives = 132/418 (31%), Gaps = 42/418 (10%)

Query: 27  VVPIKRFTKLNTGRTSE---SGKDIIYIGLEDVESG-----TGKYLPKDGNSRQSDTSTV 78
           V  +K F ++  G  +        ++Y+  ++ +S         Y+ +    +    +  
Sbjct: 11  VGRLKDFCQVGDGAHASIARQEHGVMYLSAKNFKSSGLDLSNVDYISEGDYEKHFGKTKK 70

Query: 79  SIFA--KGQILYGKLGPYL--RKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
           ++    KG +L+G +G           D  G+ S+  ++     + P+ L  ++ S    
Sbjct: 71  AVTTPVKGDVLFGIIGSLGTPYTVKHRDRFGLSSSVAILRPSSGLCPDYLYHFMTSSAFQ 130

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             + AI  G        + + N+P+    +  Q  I   + A    ID           +
Sbjct: 131 SAVHAIKSGVAQGFLSLEMVKNLPLVTHEINVQRKIAAILSAYDELIDNNQHRIALLERM 190

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK---- 250
            +E  +     +   G       K         +P  WE+                    
Sbjct: 191 AEEIYREWFVRMRFHGYEKTTFNKG--------LPSDWEICEIGRKFATCLGGTPSRAEL 242

Query: 251 -LIESNILSLSYGNIIQKLETRNMGLKPES---YETYQIVDPGEIVFRFIDLQNDKRSLR 306
                 I  ++ G + +           E    Y   +I+     V         + SL 
Sbjct: 243 SYWGGEIPWINSGEVNKLRIVEASEYLTEDGLRYSATKIMPRRTTVIAITGATLGQVSLT 302

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLP 366
              V       S        G+ S Y+   +++ ++  +      G +Q +  + V++  
Sbjct: 303 EIAV---CANQSVVGVYDSVGVYSEYIFQYVKT-NIENLIAKQSGGGQQHINKDIVEKEK 358

Query: 367 VLVPPIKE--Q-FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           +L+PP     Q   I   I     +I  L+   +       + R   +   ++G++ +
Sbjct: 359 ILLPPPDLIGQYNQIVRPI---FDQIRTLMFSTQG----YTQVRDRLLPRLISGKLSV 409



 Score = 54.4 bits (129), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 24/190 (12%), Positives = 55/190 (28%), Gaps = 7/190 (3%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           +P  W++  I R      G T         G +I +I   +V         +        
Sbjct: 216 LPSDWEICEIGRKFATCLGGTPSRAELSYWGGEIPWINSGEVNKLRIVEASEYLTEDGLR 275

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
            S   I  +   +    G  L +  + +     +   + +     +      +       
Sbjct: 276 YSATKIMPRRTTVIAITGATLGQVSLTEIAVCANQSVVGVYDSVGVYS-EYIFQYVKTNI 334

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           + + A   G    H +   +    + +PP        + +     +I TL+     + ++
Sbjct: 335 ENLIAKQSGGGQQHINKDIVEKEKILLPPPDLIGQYNQIVRPIFDQIRTLMFSTQGYTQV 394

Query: 195 LKEKKQALVS 204
                  L+S
Sbjct: 395 RDRLLPRLIS 404


>gi|228478285|ref|ZP_04062893.1| restriction modification system DNA specificity domain protein
           [Streptococcus salivarius SK126]
 gi|228249964|gb|EEK09234.1| restriction modification system DNA specificity domain protein
           [Streptococcus salivarius SK126]
          Length = 405

 Score =  102 bits (255), Expect = 9e-20,   Method: Composition-based stats.
 Identities = 52/397 (13%), Positives = 109/397 (27%), Gaps = 19/397 (4%)

Query: 25  WKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           WK   +K    L  G   +S K     I  + + ++    G    +     +       +
Sbjct: 17  WKKEKLKNIAPLRGGFAFKSEKFQNVGIPIVRISNI-GFDGTVGGEFEYYSKLSPDEKFV 75

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV---LPELLQGWLLSIDVTQRI 137
                +L    G    K  + D +        V   ++      + L   L +   T ++
Sbjct: 76  LKGRSLLLAMSGATTGKIAMLDSEEEYYQNQRVGFFQNNGAVDYDFLSSVLQTKAFTNQL 135

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
            A+       +   K I +    IP   E+      +      +          +   + 
Sbjct: 136 NAVLVAGAQPNISSKEIDSFEFCIPESIEEQSAIGSLFRILEDLLA---SYRDNLANYQS 192

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
            K  ++S +  K      +++  G +    V +   +       T L  K   ++    L
Sbjct: 193 LKMTMLSKMFPKAGQTVPELRLDGFKGDWEVKE---LGNIVDFYTGLTYKPNDMVSDGTL 249

Query: 258 SLSYGNIIQK-LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
            L   N+       ++           Q V  G+IV    +   D     +    E    
Sbjct: 250 VLRSSNVRDGEFIYKDNVFVNPDIVNCQNVKLGDIVVVVRNGSRDLIGKHALIKSEMPNT 309

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
                          ++  L+ +                 +   + KR+    P  +EQ 
Sbjct: 310 VIGAFMTGVRYDAPEFINALLDTEKFISEINKNLGSTINQITTGNFKRMKFHFPDKEEQR 369

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            I +         D L+    + I  L+  +   +  
Sbjct: 370 AIGSY----FTNFDNLIVAHREKITQLETLKKKLLQD 402



 Score = 56.3 bits (134), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 29/188 (15%), Positives = 53/188 (28%), Gaps = 11/188 (5%)

Query: 24  HWKVVPIKRFTKLNTGRTSESG----KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            W+V  +       TG T +         + +   +V    G+++ KD      D     
Sbjct: 220 DWEVKELGNIVDFYTGLTYKPNDMVSDGTLVLRSSNVR--DGEFIYKDNVFVNPDIVNCQ 277

Query: 80  IFAKGQILY----GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
               G I+     G      + A+I            +   +   PE +   L +     
Sbjct: 278 NVKLGDIVVVVRNGSRDLIGKHALIKSEMPNTVIGAFMTGVRYDAPEFINALLDTEKFIS 337

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            I     G+T++         +    P   EQ  I          I     +  +   L 
Sbjct: 338 EINKNL-GSTINQITTGNFKRMKFHFPDKEEQRAIGSYFTNFDNLIVAHREKITQLETLK 396

Query: 196 KEKKQALV 203
           K+  Q + 
Sbjct: 397 KKLLQDMF 404


>gi|27466962|ref|NP_763599.1| specificity determinant HsdS [Staphylococcus epidermidis ATCC
           12228]
 gi|27314504|gb|AAO03641.1|AE016744_44 probable specificity determinant HsdS [Staphylococcus epidermidis
           ATCC 12228]
 gi|319740868|gb|ADV68930.1| putative specificity determinant HsdS [Staphylococcus aureus]
          Length = 400

 Score =  102 bits (255), Expect = 9e-20,   Method: Composition-based stats.
 Identities = 63/397 (15%), Positives = 133/397 (33%), Gaps = 22/397 (5%)

Query: 23  KHWKVVPIKRFTKLNTGRTSES-GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           + WK   +        G + ES  K+     L  ++S   +    +      D    ++ 
Sbjct: 17  EEWKKRKLGEVVNYKNGGSFESLVKNHGVYKLITLKSVNTEGKLCNSGKYIDDKCVETLC 76

Query: 82  AKGQILYGKLGPYL----RKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
               ++               I  + + + + +   L PK  +        L     +  
Sbjct: 77  NDTLVMILSEQAPGLVGMTAIIPNNNEYVLNQRVAALVPKQFIDSQ-FLSKLINRNQKYF 135

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
                G  + +     + N     P   EQ  I         ++D  I      +ELL++
Sbjct: 136 SVRSAGTKVKNISKGHVENFNFLSPNYTEQQKIGNF----FSKLDRQIELEEEKLELLEQ 191

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
           +K+  +  I ++ L    +  +S  +W     +           T   + +    E N  
Sbjct: 192 QKRGYIQKIFSQDLRFKDENGNSYPDWSIKKIEDIS--KVNKGFTPNTKNDKYWDELNEN 249

Query: 258 SLSYGNIIQKLETR-NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
            LS   + QK   + N G+  +    +  VD   ++  F         ++        I 
Sbjct: 250 WLSIAGMTQKYLYKGNKGITEKGASKHVKVDKDTLIMSFKLTLGKLAIVKEPIYTNEAIC 309

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
              +   K   +++ Y+ + + S ++         G+  +L  + +  + V +P I+EQ 
Sbjct: 310 ---HFVWKESNVNTEYMYYYLNSINISTFGAQAVKGV--TLNNDAINSIIVKLPVIQEQN 364

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            I         ++D L+EK    + LLK+R+  F+  
Sbjct: 365 KIAYF----FNKLDKLIEKQSSKVELLKQRKQGFLQK 397



 Score = 47.1 bits (110), Expect = 0.005,   Method: Composition-based stats.
 Identities = 15/168 (8%), Positives = 45/168 (26%), Gaps = 3/168 (1%)

Query: 225 VGLVPDHWEVKPFFALVTELNRKNTK---LIESNILSLSYGNIIQKLETRNMGLKPESYE 281
                + W+ +    +V   N  + +           ++  ++  + +  N G   +   
Sbjct: 12  FPEFDEEWKKRKLGEVVNYKNGGSFESLVKNHGVYKLITLKSVNTEGKLCNSGKYIDDKC 71

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD 341
              + +   ++                      ++     A+ P     +     + + +
Sbjct: 72  VETLCNDTLVMILSEQAPGLVGMTAIIPNNNEYVLNQRVAALVPKQFIDSQFLSKLINRN 131

Query: 342 LCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
                        +++    V+    L P   EQ  I N  +    +I
Sbjct: 132 QKYFSVRSAGTKVKNISKGHVENFNFLSPNYTEQQKIGNFFSKLDRQI 179


>gi|49257052|dbj|BAD24841.1| hsdS homologue [Staphylococcus aureus]
          Length = 412

 Score =  102 bits (255), Expect = 9e-20,   Method: Composition-based stats.
 Identities = 65/417 (15%), Positives = 127/417 (30%), Gaps = 38/417 (9%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK---GQ 85
            +K   K    R   +      +   +  S       K G  + +   +     K     
Sbjct: 7   RLKELAKYKNERIDTNQ-----LTTSNYISTENLLPNKQGKQKANKLPSSKTVKKYTEND 61

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQF--LVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
           IL   + PY +K   AD  G  S     +    + +  + L  +L      Q +    +G
Sbjct: 62  ILISNIRPYFKKIWQADNIGGISNDVLNITSSNEKISNDYLYYYLSQDKFFQYMTQTSKG 121

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
             M   D + I    + +P   E    +  I      +D  I      IE L+E  Q L 
Sbjct: 122 TKMPRGDKEAIMEFEIQVPKNVE---YQNFIRNLGKLLDNKIKINNEIIENLEELSQTLF 178

Query: 204 SYIVTKGLNPDV---KMKDSGIE----WVGLVPDHWEVKPFFALVTELNR----KNTKLI 252
                    PD      K +G E     +G +P  W VK    +   +N     K     
Sbjct: 179 KRWFVDFEFPDENGAPYKANGGEMIDSELGKIPKGWIVKSLDEIANYINGLAMQKYPSNK 238

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
           E ++  +    +       N             +D G+I+F +         L       
Sbjct: 239 EESLPIVKIKELKNGFTDENSNRCTTEIPEKAKIDNGDIIFSWSATL-----LVKMWAGG 293

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS---GLRQSLKFEDVKRLPVLV 369
           +  +      V           + + +    + F  + +        +  + +    +++
Sbjct: 294 KAGLNQHLFKVTSETF--PKWFYYLWTKRYIEYFINIANDKATTMGHINRKHLSHAKIVL 351

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
           P    Q  + N  +     +       E+ I  L E R + +   ++G+I++  + +
Sbjct: 352 PT---QLQLENF-DKIFHNLLEKQLNTEEEIKRLIELRDTLLPKLMSGEIEIPDDVE 404



 Score = 53.3 bits (126), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 24/177 (13%), Positives = 56/177 (31%), Gaps = 12/177 (6%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRT-----SESGKDIIYIGLEDVESGTGKY 63
           +  DS    +G IPK W V  +        G       S   + +  + ++++++G   +
Sbjct: 201 EMIDSE---LGKIPKGWIVKSLDEIANYINGLAMQKYPSNKEESLPIVKIKELKNG---F 254

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPEL 123
             ++ N   ++    +    G I++      L K       G  +     +  +      
Sbjct: 255 TDENSNRCTTEIPEKAKIDNGDIIFSWSATLLVKMWAGGKAG-LNQHLFKVTSETFPKWF 313

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
              W           A  +  TM H + K + +  + +P   +     +       +
Sbjct: 314 YYLWTKRYIEYFINIANDKATTMGHINRKHLSHAKIVLPTQLQLENFDKIFHNLLEK 370


>gi|311741899|ref|ZP_07715710.1| conserved hypothetical protein [Aeromicrobium marinum DSM 15272]
 gi|311314905|gb|EFQ84811.1| conserved hypothetical protein [Aeromicrobium marinum DSM 15272]
          Length = 113

 Score =  102 bits (255), Expect = 9e-20,   Method: Composition-based stats.
 Identities = 31/113 (27%), Positives = 55/113 (48%), Gaps = 1/113 (0%)

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPI 372
              +  + A            WL+ +  +   F ++ +G   +++    +    + +PP+
Sbjct: 1   MATSQHFAAWICGDRLLPEYLWLLFTGAMQPYFDSLTNGSTLRTIGMSIIGGFRIPLPPV 60

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGES 425
            EQ  I      +T +ID L+ +  + I L +ERRS+ I AAVTGQID+RG +
Sbjct: 61  SEQVQIVQTARDQTGKIDELMAETARFIELSRERRSALITAAVTGQIDVRGAA 113


>gi|189347937|ref|YP_001944466.1| restriction modification system DNA specificity domain [Chlorobium
           limicola DSM 245]
 gi|189342084|gb|ACD91487.1| restriction modification system DNA specificity domain [Chlorobium
           limicola DSM 245]
          Length = 438

 Score =  102 bits (255), Expect = 9e-20,   Method: Composition-based stats.
 Identities = 60/436 (13%), Positives = 129/436 (29%), Gaps = 44/436 (10%)

Query: 12  DSGVQWIGAIPKHWKVV-----PIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGK 62
           DSG          W  V      +     L T  T ++ K        +  +++  G   
Sbjct: 24  DSG---------DWMKVGLTESTLAEVCSLVTDGTHDTPKRVETGYPLVKAKEISGGRID 74

Query: 63  YLPKDGNSRQS--DTSTVSIFAKGQILYGKLGPYLRKAIIAD---FDGICSTQFLVLQPK 117
           +   D  S Q        S    G  L+  +G  L +A   +      I +       P 
Sbjct: 75  FDNCDQISEQEHLKVIARSKPEFGDTLFAHIGASLGEAAFVNTTREFSIKNVALFKPNPS 134

Query: 118 DVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPP-LAEQVLIREKIIA 176
            +    L   ++S       +    G+         +    +     LA Q  I   + A
Sbjct: 135 VIDARYLYYLVVSPAFQSLAKGTRTGSAQPFLGLSQLRGHQIQYHRDLAHQRRISGILSA 194

Query: 177 ETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKP 236
               I+              E  ++L          P  +        +G++P  WEVK 
Sbjct: 195 YDDLIENRQRRIRILE----EMARSLYREWFVHFRFPGHENHPLVPSSLGVIPQGWEVKK 250

Query: 237 FFALVTELNRK-NTKLIESNILSLSYGNIIQKLETRNMGLKPESY-ETYQIVDPGEIVFR 294
              +   + R  +   +E     +   +I ++    +      +          GE++F 
Sbjct: 251 LGDIAESMRRNVSKGKLEERTPYVGLEHIPRQSLALDAWEMATALGSNKLEFKKGEVLFG 310

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL- 353
            I     K S+     +         +           +   + S +   V  A  +G  
Sbjct: 311 KIRPYFHKVSVAPFVGL---CSADTIVIRALRPEHYGIVVACVSSDEFVAVASATANGAK 367

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS---F 410
                +  +++  V++P         N+    +A    ++ + +  I  ++  R +    
Sbjct: 368 MPRANWNVLEKYQVVIPK-------GNLAEKFSALFADIIAQQQTLIFKIQNLRQTRDLL 420

Query: 411 IAAAVTGQIDLRGESQ 426
           +   ++G++ L+   +
Sbjct: 421 LPRLLSGEVKLKETDE 436


>gi|325121240|gb|ADY80763.1| restriction endonuclease S subunits-like protein [Acinetobacter
           calcoaceticus PHEA-2]
          Length = 419

 Score =  102 bits (255), Expect = 9e-20,   Method: Composition-based stats.
 Identities = 64/400 (16%), Positives = 128/400 (32%), Gaps = 35/400 (8%)

Query: 31  KRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYL-PKDGNSRQSDTSTVSIFAKGQILYG 89
               +++          I ++   DV  G       K     Q+DT       +G IL  
Sbjct: 35  GNHGEIHPTSADYVENGIPFVMATDVFDGNVYLDKSKKITKEQADTLRKGFSIEGDILLT 94

Query: 90  KLGPYLRKAIIADFDGICS------TQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
                   A +   D          T + V   + ++P+ ++    S      + A+C G
Sbjct: 95  HKATIGNVAKVPKLDTPYIMLTPQVTYYRVRDYEKLVPDFIKSSFESKKFQNELIALCTG 154

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           AT  +        +P   P  +EQ  I   +     +I  L  +     +  +   Q L 
Sbjct: 155 ATRLYIGISEQRKLPFSYPSKSEQTKIASFLSTVDEKISQLNQKHKLLSQYKQGMMQKLF 214

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
           S       +       +G E+ G V          A   +   K  + +E  IL ++  N
Sbjct: 215 SQQFRFKAD-------NGGEFGGWV---EIKITDVADYVDYRGKTPRKVEDGILLVTAKN 264

Query: 264 IIQKLETRNMGLKP------ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
           I       ++  +       +        + G+++        +  S+      E   + 
Sbjct: 265 IRFGYIDYSISQEYICSDDFDEVMRRGRAEIGDVLITTEAPLGNVASV----DRENIALA 320

Query: 318 SAYMAVKPHGI--DSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVP-PIK 373
              +  +      ++ +L     S +   +  +    G  Q +K   +  L + +P  I+
Sbjct: 321 QRVIKYRGKKGILNNEFLKQKFLSEEFQSLISSKATGGTVQGIKGSTLHNLEINIPEDIE 380

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           EQ  I N +    A ID  +E + + I   K+ +   +  
Sbjct: 381 EQTKIANFL----ATIDQKIEVVAKQIEQAKQWKKGLLQQ 416



 Score = 75.6 bits (184), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 29/216 (13%), Positives = 71/216 (32%), Gaps = 16/216 (7%)

Query: 213 PDVKMKDSGIEWV-----GLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK 267
           P ++ K+    W+     GLV  +   KP      E++  +   +E+ I  +   ++   
Sbjct: 4   PKLRFKEFDGAWISTNIQGLVDQNILDKPMDGNHGEIHPTSADYVENGIPFVMATDVFDG 63

Query: 268 ----LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS--AYM 321
                +++ +  +            G+I+        +   +         +      Y 
Sbjct: 64  NVYLDKSKKITKEQADTLRKGFSIEGDILLTHKATIGNVAKVPKLDTPYIMLTPQVTYYR 123

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITN 380
                 +   ++     S        A+ +G  R  +   + ++LP   P   EQ  I +
Sbjct: 124 VRDYEKLVPDFIKSSFESKKFQNELIALCTGATRLYIGISEQRKLPFSYPSKSEQTKIAS 183

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
            ++    +I  L +K +    LL + +   +    +
Sbjct: 184 FLSTVDEKISQLNQKHK----LLSQYKQGMMQKLFS 215


>gi|239629951|ref|ZP_04672982.1| type I restriction modification system [Lactobacillus paracasei
           subsp. paracasei 8700:2]
 gi|239527563|gb|EEQ66564.1| type I restriction modification system [Lactobacillus paracasei
           subsp. paracasei 8700:2]
          Length = 400

 Score =  102 bits (255), Expect = 9e-20,   Method: Composition-based stats.
 Identities = 58/406 (14%), Positives = 135/406 (33%), Gaps = 33/406 (8%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIY-IGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           W+   +    +  T +  +        I  +D      K+  K       + S   +   
Sbjct: 12  WEKRKLGEVVERVTRKNRDLVSTRPLTISAQDGLVDQRKFFSK--TVASKNISNYFLLKA 69

Query: 84  GQILYGKLGPYLRKAIIAD-----FDGICSTQFLVLQPKDVLPELLQGWLL-SIDVTQRI 137
           G   Y K                   G+ ST ++V +PK +  + L  +   +       
Sbjct: 70  GDFAYNKSYSVGYPWGAVKRLDKYPSGVLSTLYIVFKPKKINSQFLVTYFEGTTWYVSVS 129

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           +   EGA           +          +   +E I      +D LI      I+  ++
Sbjct: 130 KVASEGARNHGLLNISASDFFDQQLFFPTKKTEQESIGLTIKVLDDLIAATQDKIDAFEQ 189

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK--LIESN 255
            K+A + ++  +                G   + W       + +++  KNT+    E+ 
Sbjct: 190 IKKAFLQHLFDQSW------------RFGEYSELWTSHLLGEITSKVTEKNTENLYHETF 237

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFR-FIDLQNDKRSLRSAQVMERG 314
             S  YG + Q+     +     +   Y +V   + V+   I        +R  ++   G
Sbjct: 238 TNSAKYGIVEQQSFFDKLISNEANLTNYYVVRENDFVYNPRISNLAPVGPVRRNKLNRTG 297

Query: 315 IITSAYMAVK-PHGIDSTYLAWLMRSYDLCKVFYAMGSGL----RQSLKFEDVKRLPVLV 369
           +++  Y   K  +     +L +  +     +  Y  G       R ++K +  +++PV +
Sbjct: 298 VMSPLYYVFKATNAAYPMFLEYFFKGESWYRFMYLNGDTGARSDRFAIKDKVFEQMPVKL 357

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           P   EQ  I  ++      ++ ++ + ++ +  ++  + S + +  
Sbjct: 358 PEESEQKKIGALL----QNLETVMNQTQERLQKIRTIKDSLLKSLF 399


>gi|188528305|ref|YP_001910992.1| type I R-M system specificity subunit [Helicobacter pylori Shi470]
 gi|188144545|gb|ACD48962.1| type I R-M system specificity subunit [Helicobacter pylori Shi470]
          Length = 375

 Score =  102 bits (255), Expect = 9e-20,   Method: Composition-based stats.
 Identities = 54/403 (13%), Positives = 121/403 (30%), Gaps = 42/403 (10%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           +P +W+ V +     +  G          Y   +  +     Y            S+  I
Sbjct: 10  LPLNWQRVRLGDIFFITAGGDLSK---PHYSNTKQSDFNYPIYSNAIEKKGLCGYSSFFI 66

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
                I     G     A   D+  +   + LVLQPK    +       +  +  +++  
Sbjct: 67  IKNKSITITARGTI-GVAFFRDYPYVPIGRLLVLQPKISNIDCRFY---AEYINSKVKFN 122

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
            E  T+       +    +P+PPL EQ  I   +      +D  +      I   +  K+
Sbjct: 123 TEQTTIPQLTIPKVALCEIPLPPLNEQNAIANIL----SALDRYLCALDALILKKESVKK 178

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
           AL   ++++        +      +G + +            ++  K    +   +  L 
Sbjct: 179 ALSFELLSQKKRLKGFNQAWQRVRLGDIAEIKRGVRITKNELDVFGKYPV-VSGGVGFLG 237

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
           Y N   + E                          I +     +        +       
Sbjct: 238 YTNNFNRYE------------------------NTITIAQYGTAGYVNFQKNKFWANDVC 273

Query: 321 MAVKPHGID--STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
             + P+     + +L + ++         +  +    S+  + +    +L+PP+ EQ  I
Sbjct: 274 FCIYPNKDIIKNIFLYYFLKVNQNYLYEISNRNATPYSISKDKILDFEILLPPLNEQIAI 333

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            N+++     I  L  K  Q     +  + +     ++ +I +
Sbjct: 334 ANILSDLDNEIASLKNKKRQ----FENIKKALNHDLMSAKIRV 372



 Score = 58.3 bits (139), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 24/173 (13%), Positives = 54/173 (31%), Gaps = 17/173 (9%)

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT-S 318
            Y N  Q      +       +         I+         + ++  A   +   +   
Sbjct: 35  HYSNTKQSDFNYPIYSNAIEKKGLCGYSSFFIIKNKSITITARGTIGVAFFRDYPYVPIG 94

Query: 319 AYMAVKPHGIDSTYLAW--LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
             + ++P   +     +   + S    KV +         L    V    + +PP+ EQ 
Sbjct: 95  RLLVLQPKISNIDCRFYAEYINS----KVKFNTEQTTIPQLTIPKVALCEIPLPPLNEQN 150

Query: 377 DITNVINVETARI---DVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
            I N+++     +   D L+ K E         + +     ++ +  L+G +Q
Sbjct: 151 AIANILSALDRYLCALDALILKKESV-------KKALSFELLSQKKRLKGFNQ 196


>gi|78046066|ref|YP_362241.1| type I site-specific deoxyribonuclease (specificity subunit)
           [Xanthomonas campestris pv. vesicatoria str. 85-10]
 gi|78034496|emb|CAJ22141.1| type I site-specific deoxyribonuclease (specificity subunit)
           [Xanthomonas campestris pv. vesicatoria str. 85-10]
          Length = 419

 Score =  102 bits (255), Expect = 9e-20,   Method: Composition-based stats.
 Identities = 52/405 (12%), Positives = 124/405 (30%), Gaps = 27/405 (6%)

Query: 24  HWKVVPIKRFT-KLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            W +VP++R   +++T   +     ++    E        Y  KD  +         + +
Sbjct: 23  SWPIVPLERIAARISTKNCNGQVTRVLTNSAEFGVLDQRDYFDKDIAT-AGKVDGYYVVS 81

Query: 83  KGQILYGKLGPYLRKAIIADFD----GICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           KG  +Y      +        +    G+ S  + V    +   +  + +  S      + 
Sbjct: 82  KGDYVYNPRTSAIAPVGPISRNNLGEGVMSPLYTVFCFSEEKTDFYEHYFKSPGWHSYLR 141

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
           +               G       P   +   ++     T   + +I  + R +E LK  
Sbjct: 142 SAASTGARHDRMSITAGAFMRMPVPSPSREEQQKIADCLTSL-EEVIAAQGRKVEALKVH 200

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
           K+ L+  +         +++          P+ W  +P   ++   + +           
Sbjct: 201 KRGLMQQLFPLEGEALPRLRFP---EFRDAPE-WAERPLCQVIEVASGQVDPTEAPYCDF 256

Query: 259 LSYGNIIQKLETRNMG-----LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
              G    + ET ++       +        + D  ++++  I    +K ++        
Sbjct: 257 PHVGGENIESETGSLVGLKSAREDGVTSGKYLFDEKDVLYSKIRPILNKVAVPDF----N 312

Query: 314 GIITSAYMAVKPHGID--STYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVP 370
           GI ++    ++P   D    +L +L+RS    +        G    +  E +      +P
Sbjct: 313 GICSADIYPIRPSSSDITRQFLVYLLRSASFVEYATKHSERGKIPKINREALAAYGARLP 372

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
              EQ  I + +       D  +      + +LK  +   +    
Sbjct: 373 QQVEQQRIADCLFSV----DTAITAESAQLTVLKTHKQGLMQQLF 413



 Score = 74.1 bits (180), Expect = 4e-11,   Method: Composition-based stats.
 Identities = 45/208 (21%), Positives = 85/208 (40%), Gaps = 18/208 (8%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK---DIIYIGLEDVESGTGK 62
            +P+++D+        P+ W   P+ +  ++ +G+   +     D  ++G E++ES TG 
Sbjct: 220 RFPEFRDA--------PE-WAERPLCQVIEVASGQVDPTEAPYCDFPHVGGENIESETGS 270

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPE 122
            +          TS   +F +  +LY K+ P L K  + DF+GICS     ++P      
Sbjct: 271 LVGLKSAREDGVTSGKYLFDEKDVLYSKIRPILNKVAVPDFNGICSADIYPIRPSSSDIT 330

Query: 123 LLQ--GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
                  L S    +      E   +   + + +      +P   EQ  I + + +    
Sbjct: 331 RQFLVYLLRSASFVEYATKHSERGKIPKINREALAAYGARLPQQVEQQRIADCLFS---- 386

Query: 181 IDTLITERIRFIELLKEKKQALVSYIVT 208
           +DT IT     + +LK  KQ L+  +  
Sbjct: 387 VDTAITAESAQLTVLKTHKQGLMQQLFP 414


>gi|256825201|ref|YP_003149161.1| hypothetical protein Ksed_13680 [Kytococcus sedentarius DSM 20547]
 gi|256688594|gb|ACV06396.1| hypothetical protein Ksed_13680 [Kytococcus sedentarius DSM 20547]
          Length = 354

 Score =  102 bits (255), Expect = 9e-20,   Method: Composition-based stats.
 Identities = 59/352 (16%), Positives = 126/352 (35%), Gaps = 31/352 (8%)

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV---------TQRIE 138
           + K+        +A  DG+ +  + V++P+  +      +L+                  
Sbjct: 2   FNKMSIRDGAMGLAREDGLVTYHYEVMRPRPAVEARYVVYLMKSSWFGGELIKRERGIGA 61

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
              +G   +   ++ +  I   IP +  Q  I + +  ET +ID++I  +   ++ L+E+
Sbjct: 62  GGAKGVRTTEVPFRVLRTIDCYIPTVEGQRAIADFLDRETAQIDSMIEAQNVLMQELRER 121

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
           ++A +S  +    +            +  VP    +       +           S   S
Sbjct: 122 QRAAISNTIDSDAS------------LQRVPLRRLITGISQGWSPQCEDTPVDDPSTQWS 169

Query: 259 LSYGNIIQKLETRNMGLK--PESYETYQIV--DPGEIVFRFIDLQNDKRSLRSAQVMERG 314
           +     +     R    K  P   E    +    G+++    + +    S          
Sbjct: 170 VLKVGCVNGGVFRPEQNKMLPGDLEPRPELGLRAGDLLMSRGNTREWVGSAAVVDRDYPT 229

Query: 315 IITSAYMAV---KPHGIDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVL 368
           ++ S  +         + S Y+A  + +            G     Q +   D++   + 
Sbjct: 230 LMLSDLLYRVAVDRSLVSSEYVALALSTRKARDEIEIAAKGASHSMQKVSQGDIRSTTIP 289

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQID 420
           +  ++ Q D+ N  +  T R D ++   ++ I LL+ERR + I AAVTG+ID
Sbjct: 290 LRSLQAQADVVNEASAITVRADAMISAAQEVIDLLRERREALITAAVTGRID 341


>gi|227539165|ref|ZP_03969214.1| type I restriction-modification system, subunit S [Sphingobacterium
           spiritivorum ATCC 33300]
 gi|227240847|gb|EEI90862.1| type I restriction-modification system, subunit S [Sphingobacterium
           spiritivorum ATCC 33300]
          Length = 409

 Score =  102 bits (255), Expect = 9e-20,   Method: Composition-based stats.
 Identities = 50/430 (11%), Positives = 132/430 (30%), Gaps = 51/430 (11%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESG------KDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            +WK   +     +  G   +         + I +   + + G G +        + D  
Sbjct: 2   SNWKTYKLGDLIDVKHGFAFKGEFFSDEPTEDILLTPGNFKIGGG-FKTDKFKYYKGDYP 60

Query: 77  TVSIFAKGQILYGKL-----GPYLRKAIIADFDGICST------QFLVLQPKDVLPELLQ 125
              +  +G IL         G  L  +         +         +  +  D+ P+ L 
Sbjct: 61  KSYVLKEGDILITMTDLSKAGDTLGYSAKIPKHNEVNYLHNQRLGLVQFKSDDIDPDFLY 120

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
             L +      I     G+T+ H     I +    +P   ++    ++I      +D  I
Sbjct: 121 WVLRTQPYQYYIVGSATGSTVKHTSPTRICSYEFQVPKDKKKQ---KEIAQILSSLDDKI 177

Query: 186 TERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN 245
               +  + L+   QA+         +              ++P+ W  K    +    +
Sbjct: 178 ELLQQMNQTLENIAQAIFKEWCCVEED--------------IIPEGWSWKKLIDIANVSS 223

Query: 246 RKN-----------TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFR 294
            K                   +  LS G  I      +     E  E + +   G+I+  
Sbjct: 224 SKRIFREEYKIGGIPFYRGKEVTQLSNGEAISTELFISEERYNEIKEKFGVPQIGDILIT 283

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGL 353
            +        + +            ++      ++  ++   +++ +  +   ++     
Sbjct: 284 SVGTIGSVWLVDNDSPFYFKDGNVTWVKDYKTVVNGEFVYEWLQTKEAKEQIKSVTIGST 343

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           +Q+L    ++ L +L+P  +      + +  +  +++         I  L + R + +  
Sbjct: 344 QQALTISALRELKILIPDTET----VSKVCNQLGKLNAKRINNLNQIQTLTQTRDTLLPK 399

Query: 414 AVTGQIDLRG 423
            ++GQ++++ 
Sbjct: 400 LMSGQLEIKN 409



 Score = 46.7 bits (109), Expect = 0.008,   Method: Composition-based stats.
 Identities = 24/197 (12%), Positives = 66/197 (33%), Gaps = 13/197 (6%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVES-GTGKYLPKDGNSRQSDT 75
           IP+ W    +     +++ +     +     I +   ++V     G+ +  +    +   
Sbjct: 206 IPEGWSWKKLIDIANVSSSKRIFREEYKIGGIPFYRGKEVTQLSNGEAISTELFISEERY 265

Query: 76  STVS----IFAKGQILYGKLGPYLRKAIIAD---FDGICSTQFLVLQPKDVLP-ELLQGW 127
           + +     +   G IL   +G      ++ +   F         V   K V+  E +  W
Sbjct: 266 NEIKEKFGVPQIGDILITSVGTIGSVWLVDNDSPFYFKDGNVTWVKDYKTVVNGEFVYEW 325

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
           L + +  ++I+++  G+T        +  + + IP       +  ++     +    + +
Sbjct: 326 LQTKEAKEQIKSVTIGSTQQALTISALRELKILIPDTETVSKVCNQLGKLNAKRINNLNQ 385

Query: 188 RIRFIELLKEKKQALVS 204
                +        L+S
Sbjct: 386 IQTLTQTRDTLLPKLMS 402


>gi|254507634|ref|ZP_05119767.1| restriction modification system DNA specificity domain protein
           [Vibrio parahaemolyticus 16]
 gi|219549521|gb|EED26513.1| restriction modification system DNA specificity domain protein
           [Vibrio parahaemolyticus 16]
          Length = 594

 Score =  102 bits (255), Expect = 9e-20,   Method: Composition-based stats.
 Identities = 59/473 (12%), Positives = 135/473 (28%), Gaps = 94/473 (19%)

Query: 21  IPKHWKVVPIKRFT-KLNTGRT---SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           +PK W+   +   +  ++ G T     + + +  + + D+++    +          + +
Sbjct: 106 VPKGWEWTRLGNLSSDIHYGYTASAKPNSEGVRLLRITDIQNDKVNWGTVPACDITEEKA 165

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFD----GICSTQFLVLQPKDVLPELLQGWLLSID 132
              +     IL  + G  + K+ + +         S    V + + V     + +L S  
Sbjct: 166 KSYLLENDDILIARTGGTIGKSYLVENIDLQAVFASYLIRVKRVQAVYAPFTKVFLGSQL 225

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK------------------- 173
             +++     G    + +   +  +   +PP  +Q  I  K                   
Sbjct: 226 YWKQLIENSAGTGQPNVNATALKQLLFIVPPFNQQKRIVAKVDELMALCDQLEQQTEASI 285

Query: 174 ----------------------IIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGL 211
                                 ++    RI           E + + KQ ++   V   L
Sbjct: 286 EAHQVLVTTLLDTLTNSADADELMQNWERISEHFDTLFTTEESIDQLKQTILQLAVMGKL 345

Query: 212 NPDVKMKD-------------------------------SGIEWVGLVPDHWEVKPFFAL 240
                  +                               S  E    +P  WE      +
Sbjct: 346 VSQDPNDEPASELLKRIAEEKAQLVKEKKIKKQKALPPISEDEKPFELPSGWEWCRVDDV 405

Query: 241 V---TELNRKNTKLIESNILSL--SYGNIIQKLETRNMGLKPESY----ETYQIVDPGEI 291
           V        K++  +ES+   +  + GN  +    R+ G + + Y    E   I +  ++
Sbjct: 406 VALKHGYAFKSSYFLESSGPYVLTTPGNFYETGGFRDRGDRTKYYDGPLEVEFIFEANDL 465

Query: 292 VFRFI--DLQNDKRSLRSAQVMERGIITSAYMAVKPHGI--DSTYLAWLMRSYDLCKVFY 347
           +             +    +     +       + P+       Y++W   S  L     
Sbjct: 466 IIPLTEQAPGLLGSAAFIPEDGRTYLHNQRLAKLTPYHDAVRKDYISWYFNSPYLRSELA 525

Query: 348 AMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
              +G   +      V+     +PP  EQ +I   I+   +    L  ++ +S
Sbjct: 526 RTCTGTTVRHSSPTKVQVTLFALPPTNEQKNIVERIDSLLSICQQLKARLNES 578



 Score = 80.2 bits (196), Expect = 6e-13,   Method: Composition-based stats.
 Identities = 28/189 (14%), Positives = 61/189 (32%), Gaps = 7/189 (3%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS------YGNIIQKLETRNM 273
           +  E    VP  WE      L ++++   T   + N   +         N      T   
Sbjct: 98  TEQEAPFNVPKGWEWTRLGNLSSDIHYGYTASAKPNSEGVRLLRITDIQNDKVNWGTVPA 157

Query: 274 GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL 333
               E      +++  +I+         K  L     ++    +      +   + + + 
Sbjct: 158 CDITEEKAKSYLLENDDILIARTGGTIGKSYLVENIDLQAVFASYLIRVKRVQAVYAPFT 217

Query: 334 AWLMRS-YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
              + S     ++        + ++    +K+L  +VPP  +Q  I   ++   A  D L
Sbjct: 218 KVFLGSQLYWKQLIENSAGTGQPNVNATALKQLLFIVPPFNQQKRIVAKVDELMALCDQL 277

Query: 393 VEKIEQSIV 401
            ++ E SI 
Sbjct: 278 EQQTEASIE 286



 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 32/204 (15%), Positives = 57/204 (27%), Gaps = 17/204 (8%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +P  W+   +     L  G   +S    +      V +  G +    G   + D +   
Sbjct: 392 ELPSGWEWCRVDDVVALKHGYAFKSS-YFLESSGPYVLTTPGNFYETGGFRDRGDRTKYY 450

Query: 80  --------IFAKGQILYGKL----GPYLRKAIIADF--DGICSTQFLVLQPKDVLPELLQ 125
                   IF    ++        G     A I +     + + +   L P         
Sbjct: 451 DGPLEVEFIFEANDLIIPLTEQAPGLLGSAAFIPEDGRTYLHNQRLAKLTPYHDAVRKDY 510

Query: 126 --GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
              +  S  +   +   C G T+ H+    +      +PP  EQ  I E+I +       
Sbjct: 511 ISWYFNSPYLRSELARTCTGTTVRHSSPTKVQVTLFALPPTNEQKNIVERIDSLLSICQQ 570

Query: 184 LITERIRFIELLKEKKQALVSYIV 207
           L                A+V   V
Sbjct: 571 LKARLNESQATQLHLTDAIVEQAV 594


>gi|300933509|ref|ZP_07148765.1| restriction modification system DNA specificity subunit
           [Corynebacterium resistens DSM 45100]
          Length = 400

 Score =  102 bits (254), Expect = 1e-19,   Method: Composition-based stats.
 Identities = 51/410 (12%), Positives = 112/410 (27%), Gaps = 43/410 (10%)

Query: 23  KHWKVVPIKRFTK-LNTGRTSE-------SGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
             W+ V ++     + +G T         + + I ++  +++         +  +    +
Sbjct: 2   SDWREVAVEALCSRVTSGGTPSRKRADYYTDEGIPWVKSQELIGARIATTEEHISEAGLE 61

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
            S+  +     +L    G  + +      +   +     +       +    +       
Sbjct: 62  RSSAKLLPPDTVLLAMYGANVGQLGWLGVEATVNQAICAMVTDPKEADARFLYYALAGAR 121

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           +R+     GA   +   + I    + +P LA Q  I   + +    I+            
Sbjct: 122 ERLVGNAHGAAQQNLSQQLIKPFKLAVPALATQQRIGAILRSIDELIENNRRRIEVLE-- 179

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
             +  +A+      K   P  +        +G +P+ W        +     K  K    
Sbjct: 180 --KMARAIYREWFVKFRYPGHEDVPLVDSALGPIPEGWRAATIGDALELKYGKALKASAR 237

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
               ++  +    +   +               P  +V R  ++ +          ++  
Sbjct: 238 RGGGVAVVSSAGVVGWHDESFVD---------GPAIVVGRKGNVGSVHWVDGPCWPIDTA 288

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKE 374
                           T L     S  L +  +         L  E     P L+P    
Sbjct: 289 YFVQ------------TDLPLRFVSEQLRRTAFTNSHAAVPGLSREAAYAQPFLLPD--- 333

Query: 375 QFDITNVINVETARIDVLVEKIE---QSIVLLKERRSSFIAAAVTGQIDL 421
                 V++   A +D L             L E R   +   VTGQID+
Sbjct: 334 ----VQVLDSFQALVDPLGSHATGLMSQNEKLAEVRDLLLPKLVTGQIDV 379


>gi|332661882|ref|YP_004451352.1| restriction modification system DNA specificity domain-containing
           protein [Haliscomenobacter hydrossis DSM 1100]
 gi|332337379|gb|AEE54479.1| restriction modification system DNA specificity domain protein
           [Haliscomenobacter hydrossis DSM 1100]
          Length = 404

 Score =  102 bits (254), Expect = 1e-19,   Method: Composition-based stats.
 Identities = 49/411 (11%), Positives = 113/411 (27%), Gaps = 21/411 (5%)

Query: 24  HWKVVPIKRFTKLNTGRTSES--------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           +WK   I    ++  G +           G  I +I + D  S             +   
Sbjct: 3   NWKTYKISDLCEVGRGSSPRPIIDQRFFEGGSIPWIKIADATSSGKYIYYTKEYVNEFGA 62

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQ-FLVLQPKDVLPELLQGWLLSIDVT 134
           S      KG ++    G  L +       G        +   K  L      +   I  +
Sbjct: 63  SFSRYLDKGSLIIAASGVSLGQIKFLGVRGCIHDGWLYISDYKKDLISKDFLYYFLIYYS 122

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
                   GA + + + + + N  + IP L+ Q  I   +      I+          E 
Sbjct: 123 AGFHNFSSGAAIQNINTEILRNTLISIPHLSMQNSIASILSNYDDLIEVNNQRIKLLEET 182

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
            +E  +     +   G      +K    +WV            FA +      +T   E 
Sbjct: 183 ARELYKEWFVRMRFPGWKETKFVKGVPEDWVYDT------CYSFADIKGGGTPSTTNPEY 236

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV--ME 312
               +++        +  +    +      + +    +F         R           
Sbjct: 237 WEGDINFFTPTDHSNSFFIFETEKKITEKGLRNSSTKMFTKYSTFITARGTVGNICLAGT 296

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI 372
              +  +   +  H  +  +  +L     +  +          ++     K    L+P  
Sbjct: 297 DMAMNQSCFGIVSHNENDCFFTFLFTDEMIKYLKLVANGATFDAITLNTFKNYKALIPNT 356

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
           + +       +    +I+ L+    Q    L++ R   +   ++ ++ ++ 
Sbjct: 357 ELRQLFFERTSPFFYQIENLL----QQNTQLRQIRDRLLPRLISDKLTIKE 403



 Score = 45.2 bits (105), Expect = 0.021,   Method: Composition-based stats.
 Identities = 27/192 (14%), Positives = 61/192 (31%), Gaps = 9/192 (4%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKY-LPKDGNSRQS 73
           +P+ W       F  +  G T  +        DI +    D  +    +   K    +  
Sbjct: 208 VPEDWVYDTCYSFADIKGGGTPSTTNPEYWEGDINFFTPTDHSNSFFIFETEKKITEKGL 267

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
             S+  +F K        G      +      +  + F ++       +    +L + ++
Sbjct: 268 RNSSTKMFTKYSTFITARGTVGNICLAGTDMAMNQSCFGIV--SHNENDCFFTFLFTDEM 325

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            + ++ +  GAT          N    IP    + L  E+      +I+ L+ +  +  +
Sbjct: 326 IKYLKLVANGATFDAITLNTFKNYKALIPNTELRQLFFERTSPFFYQIENLLQQNTQLRQ 385

Query: 194 LLKEKKQALVSY 205
           +       L+S 
Sbjct: 386 IRDRLLPRLISD 397


>gi|329736380|gb|EGG72649.1| type I restriction modification DNA specificity domain protein
           [Staphylococcus epidermidis VCU045]
          Length = 418

 Score =  102 bits (254), Expect = 1e-19,   Method: Composition-based stats.
 Identities = 60/418 (14%), Positives = 144/418 (34%), Gaps = 34/418 (8%)

Query: 29  PIKRFTKLNTG-------RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
            +K  T    G           S     Y+ + D++   G        S         + 
Sbjct: 7   KLKDLTVNGKGEYGIGAPAVKYSPNLYKYLRITDID-DNGFINTNQMKSINDKNEEKYLL 65

Query: 82  AKGQILYGKLGPYLRKAIIADFDG--ICSTQFLVLQ---PKDVLPELLQGWLLSIDVTQR 136
               I++ + G    K+   + D   +    FL+     P  + P+ L+ + L+ +    
Sbjct: 66  KANDIVFARTGNSTGKSYFYNSDDGPLVYAGFLIKFSLDPTKLNPKYLRYYTLTNEYKGW 125

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           I     G+T  + + K  G++ + +PP   Q  + + + +    ++  +    + +  L+
Sbjct: 126 INQFSIGSTRKNINAKIFGDMVISLPPRYYQDFVVDILDS----LERKVKINKQMVANLE 181

Query: 197 EKKQALVSYIVTKGLNPD---VKMKDSGIE----WVGLVPDHWEVKPFFALVTELNRKNT 249
           E  Q L  +       PD      K SG E     +G +P  W+V     +   +  ++ 
Sbjct: 182 ELSQTLFKHWFVDFEFPDEDGNPYKSSGGEMIDSELGEIPSDWKVGVLSDMTEIIMGQSP 241

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
           K    N   +    +    + +N  +KP  Y +        +                 +
Sbjct: 242 KSDTYNNNKVGLPLLNGASDFKNRNIKPTKYTSAPKKIGHNL---DYVFGVRATIGLVTE 298

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ-SLKFEDVKRLPVL 368
           +     I       K +  +  ++  ++        F  +GSG    ++  +D+K+  ++
Sbjct: 299 LDGEYAIGRGAGLSKNNEENREFIYEILNQAFT--YFERIGSGSVYINISSKDLKQYKLI 356

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
           +P       +    + +   I   +   ++ I  L   R + +   ++G++++  + +
Sbjct: 357 IPS----KQVLMKYHYQLEPIFSELHNRKEQITSLTNLRDTLLPKLMSGELEIPDDIE 410



 Score = 57.9 bits (138), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 27/199 (13%), Positives = 59/199 (29%), Gaps = 7/199 (3%)

Query: 10  YKDSGVQW----IGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLP 65
           YK SG +     +G IP  WKV  +   T++  G++ +S           + +G   +  
Sbjct: 205 YKSSGGEMIDSELGEIPSDWKVGVLSDMTEIIMGQSPKSDTYNNNKVGLPLLNGASDFKN 264

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ 125
           ++    +  ++   I      ++G          +     I          K+       
Sbjct: 265 RNIKPTKYTSAPKKIGHNLDYVFGVRATIGLVTELDGEYAIGRGA---GLSKNNEENREF 321

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
            + +        E I  G+   +   K +    + IP     +    ++      +    
Sbjct: 322 IYEILNQAFTYFERIGSGSVYINISSKDLKQYKLIIPSKQVLMKYHYQLEPIFSELHNRK 381

Query: 186 TERIRFIELLKEKKQALVS 204
            +      L       L+S
Sbjct: 382 EQITSLTNLRDTLLPKLMS 400


>gi|120436928|ref|YP_862614.1| type I restriction-modification system DNA specificity subunit
           [Gramella forsetii KT0803]
 gi|117579078|emb|CAL67547.1| type I restriction-modification system DNA specificity subunit
           [Gramella forsetii KT0803]
          Length = 428

 Score =  102 bits (254), Expect = 1e-19,   Method: Composition-based stats.
 Identities = 58/422 (13%), Positives = 136/422 (32%), Gaps = 33/422 (7%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESG------KDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           + WK V +     +  G   +             +   +   G G Y            +
Sbjct: 3   EGWKFVKLGDIIHIKHGYGFKGEFFVDEPTKNFLLTPGNFAIGGG-YKSDKIKYYDGPIN 61

Query: 77  TVSIFAKGQILYGKL---------GPYLRKAIIADFDGICSTQF--LVLQPKDVLPELLQ 125
              I  +G ++             G   +    ++   + + +   + L+  +V  + + 
Sbjct: 62  EDFILKEGDVIVTMTDLSKQADTLGYSAKIPKDSENTYLHNQRIGLISLKTDEVDLDFIY 121

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPP-LAEQVLIREKIIAETVRIDTL 184
             L +    + I +   GAT+ H   K I +  + +P  L  Q  I   +      I+  
Sbjct: 122 WLLRTDYYQRYIASSSSGATVKHTSPKKIYSAKLLVPESLFVQQKIASILSGYDDLIENN 181

Query: 185 ITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTEL 244
           +       E  +   +     +   G    V  K++G+      P+ W +     L    
Sbjct: 182 LKRIKLLEEKAQLTYEEWFVRMKFPGHESVVINKETGL------PEGWRITKLNKLSGVN 235

Query: 245 NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY--QIVDPGEIVFRFIDLQNDK 302
           ++   K  E +I  +    +                     +IV  G+I++  +      
Sbjct: 236 SKNIEKTYEGDIKYIDIKGVSPNSIDSLTEYSIVDAPGRAKRIVKHGDIIWSCVRPNRRS 295

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFED 361
            ++   +     I ++ +  + P  + ++YL + + +         +  G    ++K + 
Sbjct: 296 HAVVW-KPESNWIASTGFCVISPKKLPTSYLYYFLTTNSFVGYLTNLAGGAAYPAVKADH 354

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            K   ++VP      +I    + +  +   L+   +Q    LKE R   +   + G I++
Sbjct: 355 FKTAEIVVPK----DEIVKAFDEKFEKSLELIWNFKQQNQFLKEARDILLPRLMAGMINV 410

Query: 422 RG 423
             
Sbjct: 411 ED 412



 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 31/183 (16%), Positives = 65/183 (35%), Gaps = 11/183 (6%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK-DIIYIGLEDVESGTGKYLPKDGN 69
           K++G      +P+ W++  + + + +N+    ++ + DI YI ++ V   +   L +  +
Sbjct: 215 KETG------LPEGWRITKLNKLSGVNSKNIEKTYEGDIKYIDIKGVSPNSIDSLTEY-S 267

Query: 70  SRQSDTSTVSIFAKGQILYGKLGPYLR---KAIIADFDGICSTQFLVLQPKDVLPELLQG 126
              +      I   G I++  + P  R        + + I ST F V+ PK +    L  
Sbjct: 268 IVDAPGRAKRIVKHGDIIWSCVRPNRRSHAVVWKPESNWIASTGFCVISPKKLPTSYLYY 327

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           +L +      +  +  GA              + +P         EK       I     
Sbjct: 328 FLTTNSFVGYLTNLAGGAAYPAVKADHFKTAEIVVPKDEIVKAFDEKFEKSLELIWNFKQ 387

Query: 187 ERI 189
           +  
Sbjct: 388 QNQ 390


>gi|220906631|ref|YP_002481942.1| restriction modification system DNA specificity domain-containing
           protein [Cyanothece sp. PCC 7425]
 gi|219863242|gb|ACL43581.1| restriction modification system DNA specificity domain protein
           [Cyanothece sp. PCC 7425]
          Length = 572

 Score =  102 bits (254), Expect = 1e-19,   Method: Composition-based stats.
 Identities = 82/470 (17%), Positives = 144/470 (30%), Gaps = 92/470 (19%)

Query: 24  HWKVVPIKRFTKLN--TGRTS-ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS--TV 78
            W+   +    +     G+T  ++   I  I  ++V  G  +  PK+  S Q+     T 
Sbjct: 87  GWQWERLGNLARFIDYRGKTPLKTDSGIKLITAKNVRMGFLQDEPKEYISEQTYYEWMTR 146

Query: 79  SIFAKGQILYGKLGPYLRKA-IIADFDGICSTQFLVLQPKDVLP-ELLQGWLLSIDVTQR 136
               +G IL+    P    A ++ D     + + + LQP   L    L   L S  + + 
Sbjct: 147 GFPRRGDILFTTEAPLGNVAQLLIDERIALAQRIIDLQPFADLYARYLLTALTSPLMQRL 206

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI--------------- 181
           +     G T        +  IPMPIPPLAEQ  I EK     +                 
Sbjct: 207 LNEKATGMTAQGIKSVKLKLIPMPIPPLAEQKRIVEKCDRLLILCDEIEKRQQQRQESLL 266

Query: 182 ----------------------DTLITERIRFIELLKEK----KQALVSYIVTKGLNPDV 215
                                    I      +  + E     +QA++   V   L    
Sbjct: 267 KMNEGAIFQLLTAQNPDDFYYHWQAICNNFDLLYSIPETIPKLRQAILQLAVQGKLVQQS 326

Query: 216 KMKDSGIEWVGL--------VPDHWEVKPFFALVTELNRK-------------------- 247
             + S  + VG          P   + K        +  K                    
Sbjct: 327 FDEKSLKDLVGQIQEERFALNPSEKDQKRIREEFNGIIYKFQQGNIKTLEMPAICFCNFI 386

Query: 248 --------NTKLIESNILSLSYGNIIQKLETRNMGLKPESYE------TYQIVDPGEIVF 293
                   N  L E +I  L   NI+             S           IV PG+I+ 
Sbjct: 387 TKGTTPASNELLPEGDIPYLKVYNIVNNRIDFFYKPSYISNIVHTTKLKRSIVFPGDILM 446

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL 353
             +     K ++     +E  I  +  +    + + + +L + + S+   +       G 
Sbjct: 447 NIVGPPLGKVAIVPDDFLEWNINQALAVFRPVNSVYNKFLYYALSSFATLENVLGETKGT 506

Query: 354 --RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
             + +L  E  + L V +  + EQ  I   ++   +  D L +K++ +  
Sbjct: 507 AGQDNLSLEQCRSLRVPLYDLAEQKRIVAKVDALLSLCDALEDKLKAARD 556



 Score = 64.0 bits (154), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 25/162 (15%), Positives = 57/162 (35%), Gaps = 3/162 (1%)

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
           ++  G +  + +          + T      G+I+F       +   L   + +   +  
Sbjct: 121 NVRMGFLQDEPKEYISEQTYYEWMTRGFPRRGDILFTTEAPLGNVAQLLIDERI--ALAQ 178

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQF 376
                     + + YL   + S  + ++     +G   Q +K   +K +P+ +PP+ EQ 
Sbjct: 179 RIIDLQPFADLYARYLLTALTSPLMQRLLNEKATGMTAQGIKSVKLKLIPMPIPPLAEQK 238

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            I    +      D + ++ +Q    L +     I   +T Q
Sbjct: 239 RIVEKCDRLLILCDEIEKRQQQRQESLLKMNEGAIFQLLTAQ 280


>gi|148378679|ref|YP_001253220.1| type I restriction enzyme S subunit [Clostridium botulinum A str.
           ATCC 3502]
 gi|153932499|ref|YP_001383063.1| putative type I restriction-modification system, S subunit
           [Clostridium botulinum A str. ATCC 19397]
 gi|153934972|ref|YP_001386612.1| putative type I restriction-modification system, S subunit
           [Clostridium botulinum A str. Hall]
 gi|148288163|emb|CAL82231.1| type I restriction enzyme S subunit [Clostridium botulinum A str.
           ATCC 3502]
 gi|152928543|gb|ABS34043.1| putative type I restriction-modification system, S subunit
           [Clostridium botulinum A str. ATCC 19397]
 gi|152930886|gb|ABS36385.1| putative type I restriction-modification system, S subunit
           [Clostridium botulinum A str. Hall]
          Length = 386

 Score =  102 bits (254), Expect = 1e-19,   Method: Composition-based stats.
 Identities = 57/404 (14%), Positives = 132/404 (32%), Gaps = 40/404 (9%)

Query: 29  PIKRFTKLNTGRTSESG-------KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
            +     + TG T           KDI++I  +D+ +   +                 I 
Sbjct: 6   KLCELGDILTGNTPSKKNGEFYDTKDIMFIKPDDINNNITEIECSKEYISNKAEKKARII 65

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            K  +L   +G    K  I       + Q   +   + +        + +   QR+E+I 
Sbjct: 66  PKDSLLITCIGSI-GKIAINKEKSAFNQQINSIVHNEKIICSKYLAYVLMINKQRLESIS 124

Query: 142 EGATMSHADWKGIGNIPMPIPPLAE-QVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
               +   +        + I    E Q  I   +      ID    +     EL+K +  
Sbjct: 125 NAPVVPIINKTQFSEFEVYIHEEKEIQEKIVNVLDKARSLIDKRKAQIEVLDELVKSR-- 182

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
                     ++    +K      +G                +   K   L +S I  ++
Sbjct: 183 ---------FIDMFADLKGEKHLTLGE----------CTNFIDYRGKTPVLSDSGIRIIN 223

Query: 261 ----YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
                    + ++         S+       PG+++F              + + +  + 
Sbjct: 224 AKSVGNGFFKYIDEYISEETFNSWMKRGFPVPGDVLFVTEGHTFGNICRIPSDLQKFAMG 283

Query: 317 TSAY-MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKE 374
                +      +++ +LA  M++           +G   Q ++ +++K++ + +P I+ 
Sbjct: 284 QRIITIQGNKEILNNAFLAQYMQTISFQIDIDKYKTGSSAQGIRSKELKKILIPIPQIEL 343

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           Q   T+ +N    ++D L  ++E+S+  L++  +S +  A  G+
Sbjct: 344 QNQFTDFVN----QVDKLKFEMEKSLKELEDNFNSLMQRAFKGE 383


>gi|19881243|gb|AAM00852.1|AF486551_3 HsdS [Campylobacter jejuni]
          Length = 380

 Score =  102 bits (254), Expect = 1e-19,   Method: Composition-based stats.
 Identities = 59/403 (14%), Positives = 125/403 (31%), Gaps = 26/403 (6%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESG-KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
            +WK   +    ++  G++ +S   +   IG+  ++ G   +  K        T    I 
Sbjct: 2   NNWKKCKLGDIAEITMGQSPKSEFYNFDNIGMPFLQ-GNRTFGRKYPYFDTYCTEYKKIA 60

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            KG+IL+    P       A+ D         +  K+   E L   L   ++   I    
Sbjct: 61  KKGEILFSVRAPV-GDINFANNDICIGRGLCSMNAKNGENEFLYYLLH--NLRSVIINNE 117

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            G+     +   +  I + +P L EQ  I   +      ID  I       + L+E  Q 
Sbjct: 118 SGSVFGSVNKNDLQTIEILLPLLEEQRQIATIL----SSIDDKIELLHEQNKTLEELAQT 173

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
           L                    E+   + D   ++  FA  ++            I ++S 
Sbjct: 174 LFLNWFK------------DREFNSTISDFISMQNGFAFKSKDFIDYGNNGVIKIKNISN 221

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
           G +      +              ++ G+I+F     +  K  +  +   +  +     M
Sbjct: 222 GIVDIVNTDKISQNTINEVNNKFNINSGDILFAMTGAEIGKMGIVPSTNKKLWLNQRVGM 281

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKV-FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
             +            + S         +     ++++   D++  P +    +E   I +
Sbjct: 282 VKERFLGARFLAYIHLTSEFGYDYVINSATGSAQENISATDIENCPFVKLTSEE---IVS 338

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
                    + ++  +   I  L+  R   I   + G+I +  
Sbjct: 339 YSKQLNDFFEKIIFNL-GEIQALENMRDILIPKLLNGEIKITN 380


>gi|312136019|ref|YP_004003357.1| restriction modification system DNA specificity domain-containing
           protein [Caldicellulosiruptor owensensis OL]
 gi|311776070|gb|ADQ05557.1| restriction modification system DNA specificity domain protein
           [Caldicellulosiruptor owensensis OL]
          Length = 409

 Score =  102 bits (254), Expect = 1e-19,   Method: Composition-based stats.
 Identities = 70/420 (16%), Positives = 140/420 (33%), Gaps = 35/420 (8%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
             WK V      ++N  R    G++  +I ++ VE  T K             S    F 
Sbjct: 3   SEWKEVIFSEVIEINPNRELSKGQEYPFIDMQAVEPYTRKVSNIKFRKYNGSGSK---FK 59

Query: 83  KGQILYGKLGPYLRKAII-------ADFDGICSTQFLVLQPKD--VLPELLQGWLLSIDV 133
            G  L+ ++ P L                G  ST+FLV   K+       +     S ++
Sbjct: 60  NGDTLFARITPCLENGKTAYVKELKNGEKGFGSTEFLVFSGKEGVTDNLFVYYLSRSPEI 119

Query: 134 TQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
            +       G +     D      + + +PPL EQ  I   + A   +    I       
Sbjct: 120 REYAVKNMIGTSGRQRVDKSCFNELRIKLPPLPEQQKIASILSAFDDK----IELNNEMN 175

Query: 193 ELLKEKKQALVSYIVTKGLNPD---VKMKDSGIE----WVGLVPDHWEVKPFFALVTELN 245
           + L+E  QA+  +       P+      K SG E     +G +P  W+V     ++  + 
Sbjct: 176 KTLEEIAQAIFKHWFIDFEFPNENGEPYKSSGGEFVDSELGPIPKGWKVVKLREILDNIC 235

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIV--DPGEIVFRFIDLQNDKR 303
                  E   L     +I+++        K        ++     +I+   + +   K 
Sbjct: 236 DSVKPGKEIEGLPYVPIDIVERKSIALKQFKSWEEAKSSLIKFKKDDILLGAMRVYFHKV 295

Query: 304 SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ--SLKFED 361
           S+   + + R      ++       D +Y   L+   D  K   A   G     ++    
Sbjct: 296 SIAPCEGVTRKTC---FVLRPKKRFDLSYTLLLIFQDDTIKFADAHSKGTTMPYAVWDNG 352

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           +  + + +P  K +     ++    ++I   + +       L + R + +   ++G+I +
Sbjct: 353 LAEMKIALPTEKIRQRFNELLYPIISKIRDCIFENL----TLSQLRDTLLPKLISGEIRV 408



 Score = 67.9 bits (164), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 46/203 (22%), Positives = 82/203 (40%), Gaps = 10/203 (4%)

Query: 10  YKDSGVQW----IGAIPKHWKVVPIKRFTKLN--TGRTSESGKDIIYIGLEDVESGTGKY 63
           YK SG ++    +G IPK WKVV ++        + +  +  + + Y+ ++ VE  +   
Sbjct: 203 YKSSGGEFVDSELGPIPKGWKVVKLREILDNICDSVKPGKEIEGLPYVPIDIVERKSIAL 262

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP-E 122
             K   S +   S++  F K  IL G +  Y  K  IA  +G+      VL+PK      
Sbjct: 263 --KQFKSWEEAKSSLIKFKKDDILLGAMRVYFHKVSIAPCEGVTRKTCFVLRPKKRFDLS 320

Query: 123 LLQGWLLSIDVTQRIEAICEGATMSH-ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
                +   D  +  +A  +G TM +     G+  + + +P    +    E +     +I
Sbjct: 321 YTLLLIFQDDTIKFADAHSKGTTMPYAVWDNGLAEMKIALPTEKIRQRFNELLYPIISKI 380

Query: 182 DTLITERIRFIELLKEKKQALVS 204
              I E +   +L       L+S
Sbjct: 381 RDCIFENLTLSQLRDTLLPKLIS 403


>gi|218247761|ref|YP_002373132.1| restriction modification system DNA specificity domain-containing
           protein [Cyanothece sp. PCC 8801]
 gi|218168239|gb|ACK66976.1| restriction modification system DNA specificity domain protein
           [Cyanothece sp. PCC 8801]
          Length = 386

 Score =  102 bits (254), Expect = 1e-19,   Method: Composition-based stats.
 Identities = 54/405 (13%), Positives = 129/405 (31%), Gaps = 38/405 (9%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K + +    K   G++  + +              GKYL   G+  +       +     
Sbjct: 7   KFIKLGNLIKFKYGKSLPNRERDP----------DGKYLVF-GSGGKIGLHNSYLTESPV 55

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           I+ G+ G         +      T + V Q    L      + L+     +++ +   AT
Sbjct: 56  IVVGRKGSIGSTFYSDNPCWCIDTTYYVDQFSSNLYSKYLYYFLNTL---KLDRLNRAAT 112

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT---LITERIRFIELLKEKKQAL 202
           +       +    +PIP      L  +       RI++    I      +E ++     L
Sbjct: 113 IPGLSRDDLYTFSIPIPYPNNPKLSLDIQQRIVARIESLFGEIKRNRLLLEQMRLDNDLL 172

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
           +   + + +      + + ++ +   P +                N       +   +  
Sbjct: 173 LPNALDEVVERLDSKRQTLLDVIQEKPRNGWSPKC---------DNDPNGVPVLKLGAVL 223

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
                 +       P     +  ++ G+I+    +  +          +    I    + 
Sbjct: 224 RFQYNPDEIKRTSLPTDENAHYWLEAGDILISRSNTLDLVGHASIYSGIPYPCIYPDLIM 283

Query: 323 VK---PHGIDSTYLAWLMRSYDLCKVFYAMGSG---LRQSLKFEDVKRLPVLVPPIKEQF 376
                P+  DS +L + ++S ++        SG     + +K E V  +P  +  ++EQ 
Sbjct: 284 RFRVNPNKADSKFLMYWLQSKEVRHYIQTNASGASPTMKKIKQETVCNIPFPIISLEEQS 343

Query: 377 DITNVIN---VETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
                ++    E  +I+ ++E+ EQ+   L+    + +  A  G+
Sbjct: 344 YFAYHLDAIQQEVNKINRIIEEDEQNFKYLE---QAILEKAFRGE 385


>gi|283778920|ref|YP_003369675.1| restriction modification system DNA specificity domain-containing
           protein [Pirellula staleyi DSM 6068]
 gi|283437373|gb|ADB15815.1| restriction modification system DNA specificity domain protein
           [Pirellula staleyi DSM 6068]
          Length = 421

 Score =  102 bits (254), Expect = 1e-19,   Method: Composition-based stats.
 Identities = 64/435 (14%), Positives = 138/435 (31%), Gaps = 40/435 (9%)

Query: 8   PQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESG---KDIIYIGLEDVESGTGKYL 64
           P +K +    IG IP  W    + +  K+   +   +    +      + +V+S      
Sbjct: 5   PGFKMTE---IGEIPAEWNAYHLSQLWKVTDCKHVTATFVPEGYPVASIREVQSKFVNLH 61

Query: 65  PKDGNSRQSD---TSTVSIFAKGQILYGKLGPYLRKAIIADFD--GICSTQFLVLQPKDV 119
             +  +                G ++  +     + A ++             +L+    
Sbjct: 62  AANHTTPHFYRLLIEGGRDPQAGDLILSRNATVGQIAQVSHSHPKFAMGQDVCLLRKTSP 121

Query: 120 LPELLQGW--LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
                       S  + Q+I  I  G+T    + K I    +P P  AEQ  I   +   
Sbjct: 122 TNSTEFIQAVFQSRIIKQQISDILVGSTFKRINVKQIKAFIVPSPSAAEQRAIAGALSDV 181

Query: 178 TVRIDTLITERIRFIELLKEKKQALVS--YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVK 235
              I++L     +   + +   Q L++    +        K +   I W    P   + +
Sbjct: 182 DALIESLEQLIAKKRAIKQGAMQELLTGKRRLPGFSGKWEKKRLQQIAWYQEGPGVQKHQ 241

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRF 295
                   LN  N    E           + + E             + + D G+IV   
Sbjct: 242 FASVGTKLLNGSNISHGELF---------LDQTERYIEDQLANGTYRHFLCDAGDIVIAS 292

Query: 296 IDLQ----NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW-LMRSYDLCKVFYAMG 350
             +     N+K ++  A  +   + TS         + +    +  ++          M 
Sbjct: 293 SGISPATLNEKMAIVQASHLPLCMNTSTIRFKANQDLATQAFLFVCLQGNSFRDQIAGMA 352

Query: 351 SG-LRQSLKFEDVKRLPVLVPPIKEQFDITNV---INVETARIDVLVEKIEQSIVLLKER 406
           +G  + +     + ++ +L+P I EQ  + +V   +  E  ++D         +  L+  
Sbjct: 353 TGSAQLNFGPSHLNKVELLLPTISEQVAVADVIGSLEHELRKLDD-------RLTKLRLL 405

Query: 407 RSSFIAAAVTGQIDL 421
           + + +   +TG+I L
Sbjct: 406 KQAMMQQLLTGKIRL 420



 Score = 81.4 bits (199), Expect = 3e-13,   Method: Composition-based stats.
 Identities = 27/211 (12%), Positives = 60/211 (28%), Gaps = 13/211 (6%)

Query: 224 WVGLVPDHWEVKPFF--ALVTELNRKNTKLIESNILSLSYGNIIQKL------ETRNMGL 275
            +G +P  W          VT+        +       S   +  K              
Sbjct: 11  EIGEIPAEWNAYHLSQLWKVTDCKHVTATFVPEGYPVASIREVQSKFVNLHAANHTTPHF 70

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
                E  +    G+++            +  +            +        + ++  
Sbjct: 71  YRLLIEGGRDPQAGDLILSRNATVGQIAQVSHSHPKFAMGQDVCLLRKTSPTNSTEFIQA 130

Query: 336 LMRSYDLCKVFY-AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
           + +S  + +     +     + +  + +K   V  P   EQ  I   ++      D L+E
Sbjct: 131 VFQSRIIKQQISDILVGSTFKRINVKQIKAFIVPSPSAAEQRAIAGALSDV----DALIE 186

Query: 395 KIEQSIVLLKERRSSFIAAAVTGQIDLRGES 425
            +EQ I   +  +   +   +TG+  L G S
Sbjct: 187 SLEQLIAKKRAIKQGAMQELLTGKRRLPGFS 217


>gi|260771740|ref|ZP_05880659.1| type I restriction-modification system specificity subunit S
           [Vibrio metschnikovii CIP 69.14]
 gi|260613324|gb|EEX38524.1| type I restriction-modification system specificity subunit S
           [Vibrio metschnikovii CIP 69.14]
          Length = 405

 Score =  102 bits (254), Expect = 1e-19,   Method: Composition-based stats.
 Identities = 51/399 (12%), Positives = 110/399 (27%), Gaps = 23/399 (5%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            W   P+    +L +G T          +  I   +V++G    +  D      +    S
Sbjct: 18  EWVEKPLNHEVELFSGLTYSPKDIRKQGVFVIRSSNVKNGQI--VQADNVYVNPEVVNCS 75

Query: 80  IFAKGQILY----GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
              KG I+     G      + A +            +   +   PE +     +   T 
Sbjct: 76  NVQKGDIIVVVRNGSRALIGKHAQVNSLMDNTVIGAFMTGVRAGHPEFINALFDTDKFTA 135

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
           ++E    GAT++         +    P   EQ  I          I+    +  +   + 
Sbjct: 136 QVEKNL-GATINQITNGAFNGMVFMFPEGQEQTAIGNTFQKLDSLINQHQKKHDKLSNIK 194

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
           K   + +          P+++ K    EWV    +H        L + L      + +  
Sbjct: 195 KAMLEKMFPK--PGETTPEIRFKGFSGEWVEKPLNHEV-----ELFSGLTYSPKDIRKQG 247

Query: 256 ILSLSYGNIIQKLETR-NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
           +  +   N+      + +             V  G+I+    +         +       
Sbjct: 248 VFVIRSSNVKNGQIVQADNVYVNPEVVNCSNVQKGDIIVVVRNGSRALIGKHAQVNSLMD 307

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKE 374
                            ++  L  +                 +       +  + P  +E
Sbjct: 308 NTVIGAFMTGVRAGHPEFINALFDTDKFTAQVEKNLGATINQITNGAFNGMVFMFPEGQE 367

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           Q  I N       ++D L+ + +Q I  L   + + ++ 
Sbjct: 368 QTAIGN----TFQKLDSLINQHQQQITKLNNIKQACLSK 402



 Score = 63.7 bits (153), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 21/202 (10%), Positives = 53/202 (26%), Gaps = 10/202 (4%)

Query: 213 PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETR- 271
           P+++ K    EWV    +H        L + L      + +  +  +   N+      + 
Sbjct: 8   PEIRFKGFSGEWVEKPLNHEV-----ELFSGLTYSPKDIRKQGVFVIRSSNVKNGQIVQA 62

Query: 272 NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST 331
           +             V  G+I+    +         +                        
Sbjct: 63  DNVYVNPEVVNCSNVQKGDIIVVVRNGSRALIGKHAQVNSLMDNTVIGAFMTGVRAGHPE 122

Query: 332 YLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
           ++  L  +                 +       +  + P  +EQ  I N       ++D 
Sbjct: 123 FINALFDTDKFTAQVEKNLGATINQITNGAFNGMVFMFPEGQEQTAIGN----TFQKLDS 178

Query: 392 LVEKIEQSIVLLKERRSSFIAA 413
           L+ + ++    L   + + +  
Sbjct: 179 LINQHQKKHDKLSNIKKAMLEK 200


>gi|328675907|gb|AEB28582.1| Type I restriction-modification system, specificity subunit S
           [Francisella cf. novicida 3523]
          Length = 438

 Score =  102 bits (253), Expect = 1e-19,   Method: Composition-based stats.
 Identities = 53/391 (13%), Positives = 117/391 (29%), Gaps = 29/391 (7%)

Query: 31  KRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGK 90
                ++ G      K + YI  E+V      +L  D +  +    +  +     ++   
Sbjct: 64  GTIKNIHYGDIHTKYKSMFYISDEEV-----PFLSNDIDITKIKDQSYCMVK--DLIIAD 116

Query: 91  LGPYLRKAII---------ADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
                +                     T                  + S  +  ++    
Sbjct: 117 ASEDYKDIGKAIEIIDLEDQKLVAGLHTYIARDLNNLTYLGFSGYLMQSYKIRSQMMKYA 176

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            G ++       +  I + +P L EQ  I + +      I+ L +         K   Q 
Sbjct: 177 TGISVLGLSKTSLSKIKINLPTLPEQQKIADCLSTWDDSIENLKSLIENKKLYKKGMMQK 236

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
           L S  +    +          + +G + +           +E    +   +       S 
Sbjct: 237 LFSQELRFKADDGSNYPAWVEKKLGEMGNITTGSTPSTKNSEYYGGDKLFVSP-----SD 291

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
            N  + ++  N  L    ++  + V  G + F  I     K S    Q+ +  +      
Sbjct: 292 INSSRYIKRTNTTLTELGFKKGRKVSKGSVCFVCIGSTIGKVS----QLTQDSLTNQQIN 347

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
            +  +  +S    + +  Y+  K+    G      +   D  RL  L P ++EQ  I N 
Sbjct: 348 CITANSNNSNEFTYSLLEYNADKIKLLAGEQAVPQINKSDFSRLKFLTPCLQEQTKIANF 407

Query: 382 INVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           ++     +D  +E + Q +  L+ ++   + 
Sbjct: 408 LSA----LDDEIELLGQELEQLQLQKKGLMQ 434



 Score = 76.0 bits (185), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 32/218 (14%), Positives = 81/218 (37%), Gaps = 18/218 (8%)

Query: 213 PDVKMKDSGIEWV----GLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKL 268
           P ++ K+   EW+    G V   ++   F   +        K I    +   Y ++    
Sbjct: 26  PKLRFKEFSEEWLEKEFGSVYSFFQTNSFSRSLLNYENGTIKNIHYGDIHTKYKSMFYIS 85

Query: 269 E------TRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
           +      + ++ +     ++Y +V    I     D ++  +++    + ++ ++   +  
Sbjct: 86  DEEVPFLSNDIDITKIKDQSYCMVKDLIIADASEDYKDIGKAIEIIDLEDQKLVAGLHTY 145

Query: 323 VKPHGIDSTYLA---WLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDI 378
           +     + TYL    +LM+SY +        +G+    L    + ++ + +P + EQ  I
Sbjct: 146 IARDLNNLTYLGFSGYLMQSYKIRSQMMKYATGISVLGLSKTSLSKIKINLPTLPEQQKI 205

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
            + ++     I+ L   IE      K  +   +    +
Sbjct: 206 ADCLSTWDDSIENLKSLIENK----KLYKKGMMQKLFS 239



 Score = 59.4 bits (142), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 26/185 (14%), Positives = 55/185 (29%), Gaps = 8/185 (4%)

Query: 25  WKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           W    +     + TG T  +        D +++   D+ S +      +    +      
Sbjct: 255 WVEKKLGEMGNITTGSTPSTKNSEYYGGDKLFVSPSDINS-SRYIKRTNTTLTELGFKKG 313

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
              +KG + +  +G  + K      D + + Q   +            + L      +I+
Sbjct: 314 RKVSKGSVCFVCIGSTIGKVSQLTQDSLTNQQINCITANS-NNSNEFTYSLLEYNADKIK 372

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
            +     +   +      +    P L EQ  I   + A    I+ L  E  +     K  
Sbjct: 373 LLAGEQAVPQINKSDFSRLKFLTPCLQEQTKIANFLSALDDEIELLGQELEQLQLQKKGL 432

Query: 199 KQALV 203
            Q + 
Sbjct: 433 MQGMF 437


>gi|168183360|ref|ZP_02618024.1| putative type I restriction-modification system, S subunit
           [Clostridium botulinum Bf]
 gi|237793996|ref|YP_002861548.1| putative type I restriction-modification system, S subunit
           [Clostridium botulinum Ba4 str. 657]
 gi|182673511|gb|EDT85472.1| putative type I restriction-modification system, S subunit
           [Clostridium botulinum Bf]
 gi|229261943|gb|ACQ52976.1| putative type I restriction-modification system, S subunit
           [Clostridium botulinum Ba4 str. 657]
          Length = 386

 Score =  102 bits (253), Expect = 1e-19,   Method: Composition-based stats.
 Identities = 58/404 (14%), Positives = 134/404 (33%), Gaps = 40/404 (9%)

Query: 29  PIKRFTKLNTGRTSESG-------KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
            +    ++ TG T           KDI++I  +D+ +   +                 I 
Sbjct: 6   KLCELGEILTGNTPSKKNGEFYDTKDIMFIKPDDINNNITEIECSKEYISNKAEKKARII 65

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            K  +L   +G    K  I       + Q   +   + +        + +   QR+E+I 
Sbjct: 66  PKDSLLITCIGSI-GKIAINKEKSAFNQQINSIVHNEKIISSKYLAYVLMINKQRLESIS 124

Query: 142 EGATMSHADWKGIGNIPMPIPPLAE-QVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
               +   +        + I    E Q  I   +      ID    +   F EL+K +  
Sbjct: 125 NAPVVPIINKTQFSEFEVYIHEEKEIQEKIVNVLDKARSLIDKRKAQIEVFDELVKSR-- 182

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
                     ++    +K      +G                +   K   L +S I  ++
Sbjct: 183 ---------FIDMFANLKGEKHLTLGE----------CTNFIDYRGKTPVLSDSGIRIIN 223

Query: 261 ----YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
                    + ++         S+       PG+++F              + + +  + 
Sbjct: 224 AKSVGNGFFKYIDEYISEETFNSWMKRGFPVPGDVLFVTEGHTFGNICRIPSDLQKFAMG 283

Query: 317 TSAY-MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKE 374
                +      +++ +LA  M++           +G   Q ++ +++K++ + +P I+ 
Sbjct: 284 QRIITIQGNKEILNNAFLAQYMQTISFQIDIDKYKTGSSAQGIRSKELKKILIPIPQIEL 343

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           Q   T+ +N    ++D L  ++E+S+  L++  +S +  A  G+
Sbjct: 344 QNQFTDFVN----QVDKLKFEMEKSLKELEDNFNSLMQRAFKGE 383


>gi|86149261|ref|ZP_01067492.1| HsdS [Campylobacter jejuni subsp. jejuni CF93-6]
 gi|88596768|ref|ZP_01100005.1| HsdS [Campylobacter jejuni subsp. jejuni 84-25]
 gi|121612440|ref|YP_001001191.1| hypothetical protein CJJ81176_1536 [Campylobacter jejuni subsp.
           jejuni 81-176]
 gi|167006083|ref|ZP_02271841.1| HsdS [Campylobacter jejuni subsp. jejuni 81-176]
 gi|218563144|ref|YP_002344923.1| putative type I restriction enzyme S protein [Campylobacter jejuni
           subsp. jejuni NCTC 11168]
 gi|19881204|gb|AAM00820.1|AF486544_3 HsdS [Campylobacter jejuni]
 gi|19881210|gb|AAM00825.1|AF486545_3 HsdS [Campylobacter jejuni]
 gi|19881237|gb|AAM00847.1|AF486550_3 HsdS [Campylobacter jejuni]
 gi|19881285|gb|AAM00887.1|AF486558_3 HsdS [Campylobacter jejuni subsp. jejuni 81-176]
 gi|19881289|gb|AAM00890.1|AF486559_1 HsdS [Campylobacter jejuni]
 gi|19881291|gb|AAM00891.1|AF486560_1 HsdS [Campylobacter jejuni]
 gi|19881293|gb|AAM00892.1|AF486561_1 HsdS [Campylobacter jejuni]
 gi|19881295|gb|AAM00893.1|AF486562_1 HsdS [Campylobacter jejuni]
 gi|19881297|gb|AAM00894.1|AF486563_1 HsdS [Campylobacter jejuni]
 gi|19881301|gb|AAM00896.1|AF486565_1 HsdS [Campylobacter jejuni]
 gi|19881303|gb|AAM00897.1|AF486566_1 HsdS [Campylobacter jejuni]
 gi|19881306|gb|AAM00898.1|AF486568_1 HsdS [Campylobacter jejuni]
 gi|19881308|gb|AAM00899.1|AF486569_1 HsdS [Campylobacter jejuni]
 gi|85840043|gb|EAQ57301.1| HsdS [Campylobacter jejuni subsp. jejuni CF93-6]
 gi|87249550|gb|EAQ72509.1| HsdS [Campylobacter jejuni subsp. jejuni 81-176]
 gi|88191609|gb|EAQ95581.1| HsdS [Campylobacter jejuni subsp. jejuni 84-25]
 gi|112360850|emb|CAL35651.1| putative type I restriction enzyme S protein [Campylobacter jejuni
           subsp. jejuni NCTC 11168]
 gi|284926750|gb|ADC29102.1| putative type I restriction enzyme S protein [Campylobacter jejuni
           subsp. jejuni IA3902]
 gi|315926726|gb|EFV06104.1| type I restriction modification DNA specificity domain protein
           [Campylobacter jejuni subsp. jejuni DFVF1099]
 gi|315929698|gb|EFV08873.1| type I restriction modification DNA specificity domain protein
           [Campylobacter jejuni subsp. jejuni 305]
          Length = 380

 Score =  102 bits (253), Expect = 1e-19,   Method: Composition-based stats.
 Identities = 59/403 (14%), Positives = 125/403 (31%), Gaps = 26/403 (6%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESG-KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
            +WK   +    ++  G++ +S   +   IG+  ++ G   +  K        T    I 
Sbjct: 2   NNWKKCKLGDIAEITMGQSPKSEFYNFDNIGMPFLQ-GNRTFGRKYPYFDTYCTEYKKIA 60

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            KG+IL+    P       A+ D         +  K+   E L   L   ++   I    
Sbjct: 61  KKGEILFSVRAPV-GDINFANNDICIGRGLCSMNAKNGENEFLYYLLH--NLRSVIINNE 117

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            G+     +   +  I + +P L EQ  I   +      ID  I       + L+E  Q 
Sbjct: 118 SGSVFGSVNKNDLQTIEILLPLLEEQRQIATIL----SSIDDKIELLHEQNKTLEELAQT 173

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
           L                    E+   + D   ++  FA  ++            I ++S 
Sbjct: 174 LFLNWFK------------DREFNSTISDFISMQNGFAFKSKDFIDYGNNGVIKIKNISN 221

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
           G +      +              ++ G+I+F     +  K  +  +   +  +     M
Sbjct: 222 GIVDIVNTDKISQNTINEVNNKFNINSGDILFAMTGAEIGKMGIVPSTNKKLWLNQRVGM 281

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKV-FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
             +            + S         +     ++++   D++  P +    +E   I +
Sbjct: 282 VKERFLGARFLAYIHLTSEFGYDYVINSATGSAQENISATDIENCPFVKLTSEE---IVS 338

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
                    + ++  +   I  L+  R   I   + G+I +  
Sbjct: 339 YSKQLNDFFEKIIFNL-GEIQTLENMRDILIPKLLNGEIKITN 380


>gi|293417766|ref|ZP_06660388.1| type I restriction modification system specificity protein
           [Escherichia coli B185]
 gi|291430484|gb|EFF03482.1| type I restriction modification system specificity protein
           [Escherichia coli B185]
          Length = 420

 Score =  102 bits (253), Expect = 1e-19,   Method: Composition-based stats.
 Identities = 63/405 (15%), Positives = 137/405 (33%), Gaps = 49/405 (12%)

Query: 26  KVVPIKRFT-KLNTGRTSESGKDIIYIGLEDVESGTGKYLPK-DGNSRQSDTSTVSIFAK 83
           +   ++  T + +  +  E  +   YI L  V+  T K     +     + +    +  +
Sbjct: 22  EWKTLEDITLRTSNIKWREVIRSYRYIDLTSVDIATKKITETTEITKNNAPSRAQKLVDE 81

Query: 84  GQILYGKLGPYLRKAIIADFDG---ICSTQFLVLQPKDV--LPELLQGWLLSIDVTQRIE 138
             +++    P  ++  + D +    + ST + +L+ K    LP+ +  W+ + D  + +E
Sbjct: 82  NDVIFATTRPTQQRFCLIDSEYAGEVASTGYCILRAKQDQVLPKWILHWISTSDFKKHVE 141

Query: 139 AICEGATMSHADWKGIGNIPMPIPP-------LAEQVLIREKIIAETVRIDTLITERIRF 191
               G+         +    +PIP        LA Q  I + +   T     L  E    
Sbjct: 142 ENQSGSAYPAISDSKVKECLIPIPCPDNPEKSLAIQSEIVQILDKFTALTAELTAELNMR 201

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEW--VGLVPDHWEVKPFFALVTELNRKNT 249
            +     +  L+S             K+  +EW  +G + +    K           K+ 
Sbjct: 202 KKQYNYYRDQLLS------------FKEGEVEWKALGEIGEVRMCKRIL--------KSQ 241

Query: 250 KLIESNILSLSYGNIIQKLETRNM-GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
              E  I     G   ++ ++     L  E  E Y     GE++                
Sbjct: 242 TSSEGEIPFYKIGTFGKEPDSYISRKLFNEFKEKYSYPKVGEVLISASGTIGRTVIF--- 298

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVL 368
                     + +    +        +L   Y + K   + G G  + L  +++++L + 
Sbjct: 299 -DGRESYFQDSNIVWIENNEKIVLNKYLFYFYKIAKWGISEG-GTIKRLYNDNLRKLMIP 356

Query: 369 VP-------PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
           VP        + EQ  I  +++   A  + + E + + I L +++
Sbjct: 357 VPFPDSPERSLVEQQKIVKLLDKFDALTNSITEGLPREIELRQKQ 401



 Score = 57.1 bits (136), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 21/153 (13%), Positives = 49/153 (32%), Gaps = 9/153 (5%)

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM-AVKPHG 327
           ET  +          ++VD  +++F        +  L  ++       T   +   K   
Sbjct: 62  ETTEITKNNAPSRAQKLVDENDVIFATTRPTQQRFCLIDSEYAGEVASTGYCILRAKQDQ 121

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVP-------PIKEQFDIT 379
           +   ++   + + D  K      SG    ++    VK   + +P        +  Q +I 
Sbjct: 122 VLPKWILHWISTSDFKKHVEENQSGSAYPAISDSKVKECLIPIPCPDNPEKSLAIQSEIV 181

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
            +++  TA    L  ++          R   ++
Sbjct: 182 QILDKFTALTAELTAELNMRKKQYNYYRDQLLS 214


>gi|120435037|ref|YP_860723.1| type I restriction-modification system DNA specificity subunit
           [Gramella forsetii KT0803]
 gi|117577187|emb|CAL65656.1| type I restriction-modification system DNA specificity subunit
           [Gramella forsetii KT0803]
          Length = 418

 Score =  102 bits (253), Expect = 1e-19,   Method: Composition-based stats.
 Identities = 50/388 (12%), Positives = 122/388 (31%), Gaps = 26/388 (6%)

Query: 40  RTSESGKDIIYIGLEDVESGTGKYLPKDGNS----RQSDTSTVSIFAKGQILYGKLGPYL 95
           +T  +      + +  +    G    ++ N      +       +   G  +   L  + 
Sbjct: 41  KTVSNKNHNSELPILAITQDQGAIPREEINYHVSVSKKSVEGYKVVEVGDFIIS-LRSFQ 99

Query: 96  RKAIIADFDGICSTQFLV--LQPKDVLPELLQGWLLSIDVTQRIEAICEGATM-SHADWK 152
                ++  GICS  +++   + K++L    + +  +      +    EG        +K
Sbjct: 100 GGIEYSNHLGICSPAYIILRRKKKNLLNLFYKQYFKTDVFISHLNKNLEGIRDGKMVSYK 159

Query: 153 GIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLN 212
               I +P P   EQ  I + I +    I   I +        +   Q L         N
Sbjct: 160 QFSEIKIPQPQTQEQQKIADCIASLDELILGFIEKLEALKRHKRGLMQNLFPQDGLNVPN 219

Query: 213 PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN----IIQKL 268
                  +  EW        E      +   ++ KN       + S++  +      ++ 
Sbjct: 220 YRFAEFKNDKEW--------EKTTLGKITNVISNKNKDNKNLPVYSINNKDGFLPQSEQF 271

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
           +  N   +      Y+I++     +    +        S  +    I +        + +
Sbjct: 272 DDMNSKRRGYDISLYKIIEKNTFAYNPARINVGSIG-YSGNLNNILISSLYVCFKTENIV 330

Query: 329 DSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           D  +L   + +    K+       G+R  L +++  ++ + +P ++EQ  I   +     
Sbjct: 331 DDKFLNQYLETPYFLKLVNRNTEGGIRSYLFYKNFSKITISLPSMQEQQKIATCLTSM-- 388

Query: 388 RIDVLVEKIEQSIVLLKERRSSFIAAAV 415
             D L+   +  I  +++ +   +    
Sbjct: 389 --DDLISAQQNKIAQIEQHKKGLLQGLF 414



 Score = 54.0 bits (128), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 28/187 (14%), Positives = 62/187 (33%), Gaps = 7/187 (3%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVES---GTGKYLPKDGNSRQSDTSTVS 79
           K W+   + + T + + +  +  K++    + + +     + ++   +   R  D S   
Sbjct: 229 KEWEKTTLGKITNVISNKNKD-NKNLPVYSINNKDGFLPQSEQFDDMNSKRRGYDISLYK 287

Query: 80  IFAKGQILYGKLGPYLRKAIIA---DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
           I  K    Y      +     +   +   I S          V  + L  +L +    + 
Sbjct: 288 IIEKNTFAYNPARINVGSIGYSGNLNNILISSLYVCFKTENIVDDKFLNQYLETPYFLKL 347

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           +    EG   S+  +K    I + +P + EQ  I   + +    I     +  +  +  K
Sbjct: 348 VNRNTEGGIRSYLFYKNFSKITISLPSMQEQQKIATCLTSMDDLISAQQNKIAQIEQHKK 407

Query: 197 EKKQALV 203
              Q L 
Sbjct: 408 GLLQGLF 414


>gi|294101457|ref|YP_003553315.1| restriction modification system DNA specificity domain protein
           [Aminobacterium colombiense DSM 12261]
 gi|293616437|gb|ADE56591.1| restriction modification system DNA specificity domain protein
           [Aminobacterium colombiense DSM 12261]
          Length = 389

 Score =  102 bits (253), Expect = 1e-19,   Method: Composition-based stats.
 Identities = 55/405 (13%), Positives = 126/405 (31%), Gaps = 23/405 (5%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
             W+ V +     +  G++ +S              G   +           T+   I  
Sbjct: 4   NEWREVKLGEIVDIEMGQSPKSEFYNTEGLGVPFLQGNKTFGMIYPKFDVFCTNVKKIAI 63

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           +  IL     P      IA            ++ K+     L   L      + ++    
Sbjct: 64  QNDILMSVRAPV-GDLNIAQEKICIGRGICAMRMKNRNNLYLFYLLKHN--VKNLKKTES 120

Query: 143 GATMSHADWKGIGNIP-MPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
           G      + K I  +  M  P L EQ  I   +     +    I    R  + L+E  QA
Sbjct: 121 GTVFGGVNKKDIMGLSVMWTPNLQEQKTIAATLSCLDDK----IELNNRINKTLEEMAQA 176

Query: 202 LV-SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
           +  S+ V      + +  DS    +G +P  W V     ++   + K   L       + 
Sbjct: 177 IFKSWFVDFEPFQNGEFIDS---ELGKIPKGWRVGTLDEIIELFDSKRIPLSSRKREKMQ 233

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
                    +    +    ++   ++   +       +      +      +  +   A+
Sbjct: 234 KVYPYYGATSLMDYVDDYIFDGVYVLLGED----GTVIDGKGYPILQYVWGKFWVNNHAH 289

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
           +    +G     L  L+++ ++  +       ++  +   ++K + V++P +     I  
Sbjct: 290 VLKGKNGFSEESLYILLKNTNVKSIV---TGAVQLKINQSNLKSVKVIIPSVD---KIAE 343

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGES 425
             N   AR      ++ +   +L   R + +   ++G++ +  E 
Sbjct: 344 F-NYLIARFFAEKRRLSEENQILISVRDALLPKLMSGEVRVPIEE 387



 Score = 38.2 bits (87), Expect = 2.3,   Method: Composition-based stats.
 Identities = 36/205 (17%), Positives = 62/205 (30%), Gaps = 19/205 (9%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDG 68
           ++ DS    +G IPK W+V  +    +L   +                     K  P  G
Sbjct: 192 EFIDSE---LGKIPKGWRVGTLDEIIELFDSKRIPLSSRK--------REKMQKVYPYYG 240

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIA-----DFDGICSTQFLVLQPKDVLPEL 123
            +   D     IF    +L G+ G  +                 +    VL+ K+   E 
Sbjct: 241 ATSLMDYVDDYIFDGVYVLLGEDGTVIDGKGYPILQYVWGKFWVNNHAHVLKGKNGFSEE 300

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
               LL       +++I  GA     +   + ++ + IP + +       I         
Sbjct: 301 SLYILLKN---TNVKSIVTGAVQLKINQSNLKSVKVIIPSVDKIAEFNYLIARFFAEKRR 357

Query: 184 LITERIRFIELLKEKKQALVSYIVT 208
           L  E    I +       L+S  V 
Sbjct: 358 LSEENQILISVRDALLPKLMSGEVR 382


>gi|153824634|ref|ZP_01977301.1| type I restriction-modification system, S subunit, putative [Vibrio
           cholerae MZO-2]
 gi|149741852|gb|EDM55881.1| type I restriction-modification system, S subunit, putative [Vibrio
           cholerae MZO-2]
          Length = 585

 Score =  102 bits (253), Expect = 1e-19,   Method: Composition-based stats.
 Identities = 60/473 (12%), Positives = 121/473 (25%), Gaps = 92/473 (19%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQS 73
            +P  W  + +  + +  +G T +          I +    ++++       +       
Sbjct: 100 DLPNGWSWIRLNEYGEWGSGSTPKRSNSEYYDGGIPWFKSGELKADYISESEETITELAL 159

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
             ++V     G +L    G  + K  I       +       P   L        L    
Sbjct: 160 SETSVRYNNVGDVLVAMYGATIGKTAILSVRATTNQAVCACTPFTGLSN-TYLLTLLKAY 218

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR------------- 180
             R+  +  G    +   + I    + +P  AEQ  I  K+                   
Sbjct: 219 KARLIGMGAGGAQPNISREKIITTVIALPSTAEQRRIVAKVDELMALCDQLEQQTEDSIE 278

Query: 181 ----------------------------IDTLITERIRFIELLKEKKQALVSYIVTKGLN 212
                                       I             + + KQ ++   V   L 
Sbjct: 279 AHQVLVTTLLDTLTNSADADELMQNWARISEHFDTLFTTEASIDQLKQTILQLAVMGKLV 338

Query: 213 PDVKMKDSGIEWV-------------------------------GLVPDHWEVKPFFALV 241
           P     +   E +                                 +P  WE      +V
Sbjct: 339 PQDPTDEPASELLKRIAEEKAQLVKEKKIKKEKTLPPIAEDEKPFELPSGWEWCRLEDVV 398

Query: 242 TELN-----RKNTKLIESNILSLSYGNIIQKLETRNMGLK---PESYETYQIVDPGEIVF 293
              +     RK        I  LS  N+ +     N   +   P        V+ G+++ 
Sbjct: 399 DIQSGITKGRKLAGRELKTIPYLSVANVQRGYLILNNVKEIDLPIDELEKYSVEDGDLLI 458

Query: 294 RFIDLQ-NDKRSLRSAQVMERGIITSAYMAVKP--HGIDSTYLAWLMRSYDLCKVF--YA 348
                     R+      +      +     +P        +L   +      K F   +
Sbjct: 459 TEGGDWDKVGRTAIWRSEVPYMAHQNHVFKARPFLKEQSEAWLEMYLNGPFARKYFAGSS 518

Query: 349 MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
             +    S+    ++   + VPP  E+ +I++ +       D+L+E I  S+ 
Sbjct: 519 KQTTNLASINKTQLRSCLIAVPPRDEKKEISDRVQELIGMCDLLLEGIRASLQ 571



 Score = 85.6 bits (210), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 30/190 (15%), Positives = 59/190 (31%), Gaps = 12/190 (6%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTE-----LNRKNTKLIESNILSLSYGNIIQKLETRNMG 274
           S  E    +P+ W                  R N++  +  I     G +     + +  
Sbjct: 93  SDEEKPFDLPNGWSWIRLNEYGEWGSGSTPKRSNSEYYDGGIPWFKSGELKADYISESEE 152

Query: 275 LKPE---SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST 331
              E   S  + +  + G+++         K ++ S     R     A  A  P    S 
Sbjct: 153 TITELALSETSVRYNNVGDVLVAMYGATIGKTAILSV----RATTNQAVCACTPFTGLSN 208

Query: 332 YLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
                +      ++      G + ++  E +    + +P   EQ  I   ++   A  D 
Sbjct: 209 TYLLTLLKAYKARLIGMGAGGAQPNISREKIITTVIALPSTAEQRRIVAKVDELMALCDQ 268

Query: 392 LVEKIEQSIV 401
           L ++ E SI 
Sbjct: 269 LEQQTEDSIE 278


>gi|189345678|ref|YP_001942207.1| N-6 DNA methylase [Chlorobium limicola DSM 245]
 gi|189339825|gb|ACD89228.1| N-6 DNA methylase [Chlorobium limicola DSM 245]
          Length = 846

 Score =  102 bits (253), Expect = 1e-19,   Method: Composition-based stats.
 Identities = 59/404 (14%), Positives = 118/404 (29%), Gaps = 60/404 (14%)

Query: 25  WKVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           W +V +       TG T  S       G  + ++   D+         K    +  + S 
Sbjct: 456 WPIVSLDEICTFMTGGTPTSTIAEYYEGGTVPWLVSGDIHGFEIMACEKRITQKAVENSN 515

Query: 78  VSIFAKGQILYGKLG---PYLRKAIIADFDGICSTQFLVLQP-KDVLPELLQGWLLSIDV 133
             +  K  +L    G        A++      C+   + + P           +     +
Sbjct: 516 AKVLPKDSVLIALNGQGKTRGTVALLRMTGATCNQSLVAITPAPPPRAISEFIFWALRSM 575

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
              I A+      S  +   + NI +P+PPL  Q  +  +I                   
Sbjct: 576 YSDIRALTGDTERSGLNIPILKNIQIPLPPLEVQKEVVAEI------------------- 616

Query: 194 LLKEKKQALVS--YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
              E  Q +++    V     P + +              W + P         RK+   
Sbjct: 617 ---EGYQNVINGARAVLDNYRPHIPIHP-----------DWPMVPLGEACVVNPRKSEVA 662

Query: 252 IESNILSLSYGNIIQ------KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
                  +S+  +          E ++     E   +Y     G+++   +    +    
Sbjct: 663 DHVGTTVVSFVPMSDVGEHEMFFELKDTKRLDEVTTSYTYFKDGDVLLAKVTPCFENGKA 722

Query: 306 RSAQVMERGI---ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF--YAMGSGLRQSLKFE 360
             A+ +  GI    +  Y+      +   ++     +            G+G  Q +   
Sbjct: 723 GIARNLRNGIGFGSSEFYVLRPTGDLLPQWVFMFAATPSFRTWATPQMTGTGGLQRVPRS 782

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARI---DVLVEKIEQSIV 401
            V+   + VPP+  Q  I   I  E A +     L+ + E+ I 
Sbjct: 783 VVENYQIPVPPLATQQAIVAEIEAEQALVAANRELIVRFEKKIQ 826



 Score = 54.0 bits (128), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 39/200 (19%), Positives = 74/200 (37%), Gaps = 14/200 (7%)

Query: 21  IPKH--WKVVPIKRFTKLNTGRT----SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           IP H  W +VP+     +N  ++          + ++ + DV      +  KD       
Sbjct: 637 IPIHPDWPMVPLGEACVVNPRKSEVADHVGTTVVSFVPMSDVGEHEMFFELKDTKRLDEV 696

Query: 75  TSTVSIFAKGQILYGKLGPYLRKA------IIADFDGICSTQFLVLQPKDV-LPELLQGW 127
           T++ + F  G +L  K+ P            + +  G  S++F VL+P    LP+ +  +
Sbjct: 697 TTSYTYFKDGDVLLAKVTPCFENGKAGIARNLRNGIGFGSSEFYVLRPTGDLLPQWVFMF 756

Query: 128 LLSIDVTQRIEAICEGA-TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
             +            G   +       + N  +P+PPLA Q  I  +I AE   +     
Sbjct: 757 AATPSFRTWATPQMTGTGGLQRVPRSVVENYQIPVPPLATQQAIVAEIEAEQALVAANRE 816

Query: 187 ERIRFIELLKEKKQALVSYI 206
             +RF + ++     +    
Sbjct: 817 LIVRFEKKIQSTLARIWGKA 836


>gi|295087102|emb|CBK68625.1| Restriction endonuclease S subunits [Bacteroides xylanisolvens
           XB1A]
          Length = 433

 Score =  102 bits (253), Expect = 1e-19,   Method: Composition-based stats.
 Identities = 59/422 (13%), Positives = 128/422 (30%), Gaps = 30/422 (7%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           P+ WK + +      ++G T  S +        I +I   ++ S          +    +
Sbjct: 13  PQGWKEITLAEVFNTSSGATPLSTEASYYENGTIPWINSGELASPYIYDTTNFISQAGFE 72

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
            S+  I+    +L    G    KA +   +   +     + P          + +     
Sbjct: 73  NSSTEIYPIDTVLVAMYGATAGKASLLKMEACTNQAICAILPNKDYSSTFLKYSIDTLY- 131

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             +  +  G+   +     +  + + +PP   +     K+++    ID  I       + 
Sbjct: 132 DHLVGLSSGSARDNLSQAELKKLKLIMPPTKNEQ---NKLVSILASIDRKIELNQAINQN 188

Query: 195 LKEKKQALVSYIVTKGLNPD---VKMKDSGIEWVG------LVPDHWEVKPFFALVTELN 245
           L+   + L  Y   +   P+      K SG E V        +P  WE K    +    N
Sbjct: 189 LEAMAKQLYDYWFVQFDFPNEEGKPYKSSGGEMVWNEELKREIPALWETKEVADIANVYN 248

Query: 246 RKNTKLIESNILSLSYGNIIQKL------ETRNMGLKPESYETYQIVDPGEIVFRFIDLQ 299
                 ++          I  K       +    G +  S   Y       +    I + 
Sbjct: 249 GATPSTVDELNYGGDIVWITPKDLSDQKQKFIYQGERNISQVGYDSCSTHLLPSNTILMS 308

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKF 359
           +       A           + +  P   +     +    Y L ++         + +  
Sbjct: 309 SRAPIGLLAIAKNELCTNQGFKSFVPKYRNIAIYLYYYLQYHLRQIEQLGAGTTFKEVSR 368

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
           ED+ + PVL P       I ++     +  +    +I++    L ++R   +   + GQ+
Sbjct: 369 EDIIKFPVLKPSDN----ILDLWEERVSAFNDKQLEIQKENENLTKQRDELLPLLMNGQV 424

Query: 420 DL 421
            +
Sbjct: 425 SV 426



 Score = 55.6 bits (132), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 33/164 (20%), Positives = 57/164 (34%), Gaps = 17/164 (10%)

Query: 10  YKDSGVQ--WIGA----IPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVE 57
           YK SG +  W       IP  W+   +     +  G T  +      G DI++I  +D+ 
Sbjct: 214 YKSSGGEMVWNEELKREIPALWETKEVADIANVYNGATPSTVDELNYGGDIVWITPKDLS 273

Query: 58  SGTGKYL---PKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVL 114
               K++    ++ +    D+ +  +     IL     P      IA  +   +  F   
Sbjct: 274 DQKQKFIYQGERNISQVGYDSCSTHLLPSNTILMSSRAPI-GLLAIAKNELCTNQGFKSF 332

Query: 115 QPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIP 158
            PK     +   + L   + Q IE +  G T      + I   P
Sbjct: 333 VPKYRNIAIYLYYYLQYHLRQ-IEQLGAGTTFKEVSREDIIKFP 375


>gi|293400128|ref|ZP_06644274.1| restriction modification system DNA specificity domain protein
           [Erysipelotrichaceae bacterium 5_2_54FAA]
 gi|291306528|gb|EFE47771.1| restriction modification system DNA specificity domain protein
           [Erysipelotrichaceae bacterium 5_2_54FAA]
          Length = 358

 Score =  102 bits (253), Expect = 1e-19,   Method: Composition-based stats.
 Identities = 59/359 (16%), Positives = 122/359 (33%), Gaps = 29/359 (8%)

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ 125
           +  ++   D S   +  KG ++Y  +  +     ++ +DGI S  + VL  K  +     
Sbjct: 19  EGKDNSSEDKSNYKVVRKGDMVYNSMRMWQGANGVSSYDGIVSPAYTVLTAKVSICNEYF 78

Query: 126 -GWLLSIDVTQRIEAICEGAT--MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
                +  +        +G T    +  +  I  I + +P +AEQ  +   ++    RI 
Sbjct: 79  AALFKNYKLINEFRKNSQGMTSDTWNLKYPQIETIKVYLPEVAEQEKVASMLVTLDKRIA 138

Query: 183 TLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVT 242
              T   +  +  +   Q +   +     +    ++ S I            K      +
Sbjct: 139 AQATLVEQLKKYKRGVMQRIFRNMSMLSPSGFETVQLSAI-----------FKKISRRNS 187

Query: 243 ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK 302
               KN     +    +   +   K    +          Y +++ G+ V+         
Sbjct: 188 NEEIKNVITNSAEYGLIPQRDFFDKDIAVDGNT-----SNYYVIEHGDFVYNPRKSNTAP 242

Query: 303 RS-LRSAQVMERGIITSAY-MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS--LK 358
                  +  ERGII+  Y   V    I+ +YLAW  +S    +  Y  GS   +   + 
Sbjct: 243 YGPFNRYEREERGIISPLYTCLVLQADIEPSYLAWYFKSDAWYRYIYDNGSQGVRHDRVS 302

Query: 359 FED--VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
             D  ++ +PV++P  + Q  I  +++   +R     +        LK  R + +    
Sbjct: 303 MTDGLLRGIPVIIPSKEAQLKIAKLLDCLESRF----QTELSQYESLKSIRVALLQQLF 357



 Score = 49.4 bits (116), Expect = 0.001,   Method: Composition-based stats.
 Identities = 29/192 (15%), Positives = 58/192 (30%), Gaps = 11/192 (5%)

Query: 22  PKHWKVVPIKRFT-KLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           P  ++ V +     K++   ++E  K++I    E        +  KD      +TS   +
Sbjct: 167 PSGFETVQLSAIFKKISRRNSNEEIKNVITNSAEYGLIPQRDFFDKDIAV-DGNTSNYYV 225

Query: 81  FAKGQILYGKLGPYLRKAIIAD-----FDGICSTQFLVLQPKDVL--PELLQGWLLSIDV 133
              G  +Y             +       GI S  +  L  +  +    L   +      
Sbjct: 226 IEHGDFVYNPRKSNTAPYGPFNRYEREERGIISPLYTCLVLQADIEPSYLAWYFKSDAWY 285

Query: 134 TQRIEAICEGATMSHADWKG--IGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
               +   +G            +  IP+ IP    Q+ I + +     R  T +++    
Sbjct: 286 RYIYDNGSQGVRHDRVSMTDGLLRGIPVIIPSKEAQLKIAKLLDCLESRFQTELSQYESL 345

Query: 192 IELLKEKKQALV 203
             +     Q L 
Sbjct: 346 KSIRVALLQQLF 357


>gi|225023390|ref|ZP_03712582.1| hypothetical protein EIKCOROL_00248 [Eikenella corrodens ATCC
           23834]
 gi|224943868|gb|EEG25077.1| hypothetical protein EIKCOROL_00248 [Eikenella corrodens ATCC
           23834]
          Length = 421

 Score =  102 bits (253), Expect = 1e-19,   Method: Composition-based stats.
 Identities = 43/400 (10%), Positives = 109/400 (27%), Gaps = 25/400 (6%)

Query: 26  KVVPIKRFTKLNTG----RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT-STVSI 80
           +  P+     L  G    +   +   +  I    + +  G    K  +    +    +  
Sbjct: 20  EWKPLGEVGLLVRGNGLQKKDFTESGVPAIHYGQIYTYYGNQTDKTLSFVSPELAEKLKK 79

Query: 81  FAKGQILYGKLGPYLRKAI-----IADFDGICSTQFLVLQPKDVLPELLQGWLLSID-VT 134
             KG ++       +         + +   +      + +P   +      +    +   
Sbjct: 80  VDKGDVVITNTSENIEDVGKALLYLGEEQAVTGGHATIFKPSKEIVGKFFVYFTQTEIFD 139

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           +      +G  +       +  I +PIP L  Q  I + +   T    TL       + L
Sbjct: 140 KAKRKFAKGTKVIDVSATDMAKIQIPIPSLETQQKIVKILDKFTELEATLEATLEAELVL 199

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
            K + Q    ++    L+ D ++     +           K    +      +      +
Sbjct: 200 RKRQYQYYRDFL----LDFDNQIGGWIADGYKGRLKDVVWKTLGEIAEYSKDRICSDKLN 255

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
               +   N++Q  E + +     S          +I+   I     K           G
Sbjct: 256 EHNYVGVDNLLQNREGKKLSGYVPSEGKMTEYIVNDILIGNIRPYLKKIWQADCTGGTNG 315

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIK 373
            +    + V    ++  YL  ++              G          + +  + +PP+ 
Sbjct: 316 DV--LVIRVTDEKVNPKYLYQVLADDKFFAFNMKHAKGAKMPRGSKAAIMQYKIPIPPLP 373

Query: 374 EQFDITNVINVETARIDVL-------VEKIEQSIVLLKER 406
           +Q  I  +++        +       +    +     +E+
Sbjct: 374 KQEKIVAILDKFDTLTHSISEGLPHEIALRRKQYEYYREQ 413



 Score = 69.8 bits (169), Expect = 9e-10,   Method: Composition-based stats.
 Identities = 28/176 (15%), Positives = 61/176 (34%), Gaps = 11/176 (6%)

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMG----LKPESYETYQIVDPGEIVFRFIDLQNDK 302
           +     ES + ++ YG I      +       + PE  E  + VD G++V        + 
Sbjct: 37  QKKDFTESGVPAIHYGQIYTYYGNQTDKTLSFVSPELAEKLKKVDKGDVVITNTSENIED 96

Query: 303 RSLRSAQVMERGIITSAY--MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS-LKF 359
                  + E   +T  +  +      I   +  +  ++    K       G +   +  
Sbjct: 97  VGKALLYLGEEQAVTGGHATIFKPSKEIVGKFFVYFTQTEIFDKAKRKFAKGTKVIDVSA 156

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFI 411
            D+ ++ + +P ++ Q  I  +++  T     L   +E  +VL K      R   +
Sbjct: 157 TDMAKIQIPIPSLETQQKIVKILDKFTELEATLEATLEAELVLRKRQYQYYRDFLL 212


>gi|18765818|gb|AAL78772.1|AF326621_1 HP790-like protein [Helicobacter pylori]
          Length = 449

 Score =  102 bits (253), Expect = 1e-19,   Method: Composition-based stats.
 Identities = 49/427 (11%), Positives = 119/427 (27%), Gaps = 39/427 (9%)

Query: 22  PKHWKVVPIKRFTKLNTG----RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD-TS 76
           PK  +   +    +   G    ++    K    +    + +     + K  +        
Sbjct: 13  PKGVEFRKLGDIGEFTKGNGLLKSDLQDKGRPVVHYGQIHTQYNLSIDKTISYVNEALFH 72

Query: 77  TVSIFAKGQILYGKLGP----YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
            +       IL            +       + +  +  +     +  P+ +  +  +  
Sbjct: 73  KLKKAKPNDILIVTTSENVKDVGKSIAWLGNEEVAFSGEMYSYSTNENPKFIIYYFQTYF 132

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
             +  E    G  +       +  I +PIPPL  Q  I + + A T     L TE    +
Sbjct: 133 FQKEKEKKITGTKVMRIHENDLKQITIPIPPLEIQQEIVKILDAFTELNTELNTELNTEL 192

Query: 193 ELLKEKKQALVSYIVTK------------GLNPDVKMKDSGIEWVGLVPDHWEVKPFFAL 240
              K++ Q   + ++               L      K        L P+  E +    +
Sbjct: 193 NARKKQYQYYQNMLLDFNDINQSHKDAKEKLAQKPYPKRLKALLQTLAPNGVEFRKLGEV 252

Query: 241 VTELNRKNTKLIESNILSLSYGNIIQKLETRNMG---------LKPESYETYQIVDPGEI 291
               N                    +  + R  G         + P++ +  ++     I
Sbjct: 253 CEIKNGYTPSKNNPEFWKNGTIPWFRMEDIRENGRILKDSIQHITPKALKGKKLFPKNSI 312

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
           +        +   L    +  +      +++ K +   +  + +      L   +    +
Sbjct: 313 IISTTATIGEHALLIVDSLANQQFT---FLSKKANCGIALDMKFFFYQCFLLGEWCKKNT 369

Query: 352 --GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE---- 405
                 S+     K+    +PP++ Q +I  +++  +     L+  I   I   K+    
Sbjct: 370 NVSGFASVDMTAFKKYKFPIPPLEIQQEIVKILDQFSILTTDLLAGIPAEIKARKKQYEY 429

Query: 406 RRSSFIA 412
            R   + 
Sbjct: 430 YREKLLT 436


>gi|94991199|ref|YP_599299.1| Type I restriction-modification system specificity subunit
           [Streptococcus pyogenes MGAS10270]
 gi|94544707|gb|ABF34755.1| Type I restriction-modification system specificity subunit
           [Streptococcus pyogenes MGAS10270]
          Length = 380

 Score =  102 bits (253), Expect = 1e-19,   Method: Composition-based stats.
 Identities = 62/393 (15%), Positives = 122/393 (31%), Gaps = 31/393 (7%)

Query: 24  HWKVVPIKRFT-KLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            W+   +     ++ TG++S     I           TG+     G++     S    + 
Sbjct: 17  EWEEKELGELASEIGTGKSSTLSDAI-----------TGEKYSILGSTSIIGYSKTYDYC 65

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
              IL  ++G               S           +      +L        I+ +  
Sbjct: 66  GDFILTARVGANAGNLYKYSGKVKISDN------TVFIKSDYINFLYHFLHRFDIKKLSF 119

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           G          + NI +  P L EQ  I E        +D LI  + + +  LKE+KQ  
Sbjct: 120 GTGQPLIKSSELRNILISTPSLPEQEAIGE----LFQTVDQLIQLQRQKLATLKEQKQTF 175

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
           +  +         +++  G +         E+   F+  T           + I  +   
Sbjct: 176 LRKMFPAQGQKVPEIRLQGFDGEWEEKKLGEISRMFSGGTPNVGIPEYYNGN-IPFIRSA 234

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
            I       ++  K  S  + ++V+   +++      + +  L        G I  A +A
Sbjct: 235 EINSDQTELSITDKGLSNSSAKLVEKNTLLYALYGATSGEVGLSRIS----GAINQAILA 290

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
           + P    S+             +      G + +L    VK L +  P + EQ  I N  
Sbjct: 291 IIPEKKYSSLFIKNWLYKQKSSIIKKYLQGGQGNLSGSIVKELTIHFPSLSEQEAIGNF- 349

Query: 383 NVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
                 +D  + + E  ++ LK  + + +    
Sbjct: 350 ---FQTLDQQMSQTEDKLIELKALKQTLLNRLF 379


>gi|90961892|ref|YP_535808.1| Type I restriction-modification system specificity subunit
           [Lactobacillus salivarius UCC118]
 gi|90821086|gb|ABD99725.1| Type I restriction-modification system specificity subunit
           [Lactobacillus salivarius UCC118]
          Length = 401

 Score =  102 bits (253), Expect = 2e-19,   Method: Composition-based stats.
 Identities = 52/404 (12%), Positives = 131/404 (32%), Gaps = 35/404 (8%)

Query: 25  WKVVPIKRFTK-LNTGRTSESGK------DIIYIGLEDVESGTG--KYLPKDGNSRQSDT 75
           W+   +         G T ++        DI +I   D+++       + K   ++  + 
Sbjct: 13  WERKKLGDVANSYINGGTPDTQNKNYWIGDIPWIQSSDLKNDDIWNVNINKYITNKAVND 72

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
           S   +     I         + A ++           ++  K+ L  ++           
Sbjct: 73  SAAKLIPANSIAIVTRVGVGKLAYMSQEYSTSQDFLSLVDIKEDLIFIMYMLYFK---IS 129

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
           ++ +  +G ++     K + N+ + I     +      I      +D  I     +++LL
Sbjct: 130 KVSSSLQGTSIKGITKKELLNLSISIVNNTAEQNR---IGQVFKILDNSINLHEDYLQLL 186

Query: 196 KEKKQALVSYIVTKG-LNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
            + +  L+  + +     P+++ K    +W                V ++    T     
Sbjct: 187 YDFRSFLLQKMFSINDTFPNLRFKQFNDKW---------KYKKLGEVADIVSGGTPDTTK 237

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIV-----DPGEIVFRFIDLQNDKRSLRSAQ 309
           +       N     E  N     +S      +         +    +   +     ++A 
Sbjct: 238 HDYWNGSINWYTPAEVGNKIFVSDSQRKITNIGLENSSAKILPVGTVLFTSRAGIGKTAI 297

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVL 368
           + E+G     + ++ P             S  L K   + G+G     +  +++ +  + 
Sbjct: 298 LKEKGSTNQGFQSIVPKQKFLDSYFIFSMSNILKKYGESHGAGSTFLEISGKELAKARIS 357

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           +P I EQ +I+ V+     ++D ++   +Q I  LK+ +   + 
Sbjct: 358 LPSITEQKNISKVLF----KLDTIITLQKQEIDNLKKLKQFLLQ 397



 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 19/171 (11%), Positives = 57/171 (33%), Gaps = 6/171 (3%)

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
           +N      +I  +   ++           K  + +         I    I +       +
Sbjct: 34  QNKNYWIGDIPWIQSSDLKNDDIWNVNINKYITNKAVNDSAAKLIPANSIAIVTRVGVGK 93

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLP 366
            A + +    +  ++++     D  ++ +++  + + KV  ++     + +  +++  L 
Sbjct: 94  LAYMSQEYSTSQDFLSLVDIKEDLIFIMYMLY-FKISKVSSSLQGTSIKGITKKELLNLS 152

Query: 367 VLVPPI-KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           + +     EQ  I          +D  +   E  + LL + RS  +    +
Sbjct: 153 ISIVNNTAEQNRIG----QVFKILDNSINLHEDYLQLLYDFRSFLLQKMFS 199


>gi|229195092|ref|ZP_04321867.1| type I restriction-modification enzyme, S subunit [Bacillus cereus
           m1293]
 gi|228588321|gb|EEK46364.1| type I restriction-modification enzyme, S subunit [Bacillus cereus
           m1293]
          Length = 475

 Score =  102 bits (253), Expect = 2e-19,   Method: Composition-based stats.
 Identities = 61/440 (13%), Positives = 133/440 (30%), Gaps = 56/440 (12%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           IP++W         K+ +G +    K                 +P  G +  + T   S 
Sbjct: 26  IPENWISTRFDSVLKIKSGDSLTKAK-----------MNEQGMIPVYGGNGITGTHDKSN 74

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
                I+ G++G Y     +   +   +    VL   + + +    +           + 
Sbjct: 75  VETETIVIGRVGYYCGSVHLTSEEAWVTDNAFVLSFPEKIIDKKFIYWNLKHCNLGQYS- 133

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
            + +       K IG + + +PP  EQ  I EK+     +I+          E  + ++ 
Sbjct: 134 -KSSAQPVISGKTIGPVGINVPPYLEQKRIVEKVERLLGKIEEAKALIEEAEETFELRRA 192

Query: 201 ALVSYIVTKGLNPDVK-----------------------------MKDSGI---EWVGLV 228
           A+++      L+   +                             +K   I   E    +
Sbjct: 193 AILNKAFRGELSAKWREDNVIVEDASSLLERIQIQKGNSSIKSNTLKIISINKEEEPFEL 252

Query: 229 PDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY-------- 280
           P  W+      +   +   +    +      +     Q +   ++ L   +Y        
Sbjct: 253 PSGWKWVRLGEISYYVTSGSRDWSKYYSDEGAMFIRTQDINKNSLNLSDVAYVSLPEKVE 312

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY 340
               +V+  +I+         K +L    + E  +  S  +        S Y+   + S 
Sbjct: 313 GKRSLVEKSDILTTITGANVGKCALVETNIKEAYVSQSVALTKLIEKSISKYIHLSLLSP 372

Query: 341 --DLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
                ++        R  L  ED+K + + + PI+EQ  I  ++          +  +  
Sbjct: 373 CGGGNELEERAYGIGRPVLSLEDIKNIKIPLAPIEEQEVIVQLVETLLNNEKESLGLVSM 432

Query: 399 SIVLLKERRSSFIAAAVTGQ 418
               L+  + S +  A  G+
Sbjct: 433 E-KKLETLKHSILNKAFRGE 451



 Score = 61.0 bits (146), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 34/219 (15%), Positives = 70/219 (31%), Gaps = 12/219 (5%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSE-----SGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
            +P  WK V +   +   T  + +     S +  ++I  +D+   +         S    
Sbjct: 251 ELPSGWKWVRLGEISYYVTSGSRDWSKYYSDEGAMFIRTQDINKNSLNLSDVAYVSLPEK 310

Query: 75  TSTVS-IFAKGQILYGKLGPYLRKAIIAD---FDGICST--QFLVLQPKDVLPELLQGWL 128
                 +  K  IL    G  + K  + +    +   S       L  K +   +    L
Sbjct: 311 VEGKRSLVEKSDILTTITGANVGKCALVETNIKEAYVSQSVALTKLIEKSISKYIHLSLL 370

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
                   +E    G        + I NI +P+ P+ EQ +I + +          +   
Sbjct: 371 SPCGGGNELEERAYGIGRPVLSLEDIKNIKIPLAPIEEQEVIVQLVETLLNNEKESLGLV 430

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGL 227
               +L    K ++++      L  +   ++S IE +  
Sbjct: 431 SMEKKLET-LKHSILNKAFRGELGTNDPTEESAIELLKE 468


>gi|229490942|ref|ZP_04384776.1| restriction modification system DNA specificity domain protein
           [Rhodococcus erythropolis SK121]
 gi|229322149|gb|EEN87936.1| restriction modification system DNA specificity domain protein
           [Rhodococcus erythropolis SK121]
          Length = 390

 Score =  102 bits (253), Expect = 2e-19,   Method: Composition-based stats.
 Identities = 53/403 (13%), Positives = 123/403 (30%), Gaps = 32/403 (7%)

Query: 28  VPIKRFTKLNTGRTSESG---KDIIYIGLEDVESGTGKYL-PKDGNSRQSDTSTVSIFAK 83
           VP+    +             K+ IY+ L  V+        P+  ++ ++ +    + + 
Sbjct: 7   VPLGDICQKVPTWNPAKSSAEKEFIYVDLSSVDQRNKTITSPQVISTSEAPSRARQLLSP 66

Query: 84  GQILYGKLGPYLRKAIIADF---DGICSTQFLV--LQPKDVLPELLQGWLLSIDVTQRIE 138
           G ++   + P L      +        ST F V    PK +    L  W+ +      + 
Sbjct: 67  GDVIVSTVRPNLNAVAHVEPEFDQATASTGFTVLRGDPKRIDSRYLSQWVKTPLFVSEMV 126

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
               GA+      + +    +P+P LA+Q  I   +    +  +       +  +L K  
Sbjct: 127 RKATGASYPAVSDRIVKASTIPLPDLADQRRIATVLDHADMLRNKRREALAQLSQLTKSI 186

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
            +           +P      +    +G               +  +R      E +I  
Sbjct: 187 FR-------DMFGDPTYARDSTHGVRIGDSIR-------VGSGSTPSRSRPDYYEGSIPW 232

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDP---GEIVFRFIDLQNDKRSLRSAQVMERGI 315
           +    +             E+      +     G I+         +  +   +V     
Sbjct: 233 VKTAEVNNGYIRETSEYVSETACADARLKMYPAGSILIAMYGQGKTRGRVAVLEV--AAT 290

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
              A   + P     T   +        ++      G + +L  + +  L +L+PP+ +Q
Sbjct: 291 TNQACAVLPPGDTHDTRFLFTQLLMSYERLRDLGRGGNQPNLNAKHIAGLDILLPPLDQQ 350

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            +     +    +I+ L  +   ++  L    ++  + A  G+
Sbjct: 351 QEF----SRRAKQIEQLESRHRIALDALDSLFAAAQSRAFRGE 389


>gi|298736493|ref|YP_003729019.1| type I restriction enzyme subunit S [Helicobacter pylori B8]
 gi|298355683|emb|CBI66555.1| type I restriction enzyme, S subunit [Helicobacter pylori B8]
          Length = 422

 Score =  101 bits (252), Expect = 2e-19,   Method: Composition-based stats.
 Identities = 48/407 (11%), Positives = 120/407 (29%), Gaps = 26/407 (6%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           PK  +   ++   ++  G T             I +  +ED+            +     
Sbjct: 13  PKGVEFKTLEEVFEIKNGYTPSKNNLEFWKNGTIPWFRMEDLRENGRILKDSIQHITPKA 72

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP---ELLQGWLLSI 131
                +F K  I+          A++   D + + +F  L  K       ++   +    
Sbjct: 73  LKGKKLFPKNSIIISTTATIGEHALLI-VDSLANQRFTFLSKKANCNLALDMKFFFYQCF 131

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT--LITERI 189
            + +  +     +  +  D         PIPPL  Q  I + + A T          ++ 
Sbjct: 132 LLGEWCKNNINVSGFASVDMTAFKKYKFPIPPLEVQQEIVKILDAFTELNTELKARKKQY 191

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNT 249
            + + +    + +        ++     K        LVP   E +    ++        
Sbjct: 192 EYYQNMLLDFKDIKQNHKDAKMSTKPYPKRLKTLLQTLVPKGVEFRKLGEVLEYDQPNKY 251

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
            ++           ++   +T  +G   E    YQ      ++       +   + +   
Sbjct: 252 CVMSKEFDKSYPTPVLTAGKTFILGYTNEKDNIYQASKSSPVII----FDDFTTATQWVD 307

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
              +   ++  + +  +   +    +         +    G   RQ +      ++ + +
Sbjct: 308 FPFKVKSSAMKILLPKNPTINIRFIFFYMQTIPYNI---SGEHTRQWISR--YSQITIPI 362

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           PP++ Q +I  +++   A    L+  I   I   K+     R   + 
Sbjct: 363 PPLEIQQEIVKILDQFLALTTDLLAGIPAEIEARKKQYEYYREKLLT 409


>gi|331085150|ref|ZP_08334236.1| hypothetical protein HMPREF0987_00539 [Lachnospiraceae bacterium
           9_1_43BFAA]
 gi|330407933|gb|EGG87423.1| hypothetical protein HMPREF0987_00539 [Lachnospiraceae bacterium
           9_1_43BFAA]
          Length = 417

 Score =  101 bits (252), Expect = 2e-19,   Method: Composition-based stats.
 Identities = 51/402 (12%), Positives = 121/402 (30%), Gaps = 21/402 (5%)

Query: 25  WKVVPIKRFTKLNTGRTS----ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST--- 77
           W+   +    ++    T     ++      +  +++++G   +   D    + +      
Sbjct: 16  WEQRKLGDVLEVIKDGTHGTHQDAEDGPFLLSAKNIKNGVIIWDETDRKISEDEYEKIHS 75

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQ--FLVLQPKDVLPELLQGWLLSIDVTQ 135
                   +L   +G     AI+ D  GI   +    +   +++  E L   + +    +
Sbjct: 76  KFKLQNNDVLLTIVGSIGETAILKDISGITFQRSVAFLRPSEELSSEFLYSEIQTPKFQK 135

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            ++     +         +  IP       ++    +KI    + ID L+T   R  +  
Sbjct: 136 ELDCRKSTSAQPGIYLGDLSEIPFAYSKDKDEQ---KKIGEYFLNIDNLLTLHQRKCDET 192

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
           KE K+ ++  +  K      +++  G           E     +                
Sbjct: 193 KELKKYMLQKMFPKKGEKVPEIRFKGFTDAWEQRKFSECYKMTSGYAFKMSDYCDTGVGL 252

Query: 256 ILSLSYGNIIQKLETRNM-GLKPESYETYQIVDPGEIVFR---FIDLQNDKRSLRSAQVM 311
           I   S  + I   +  N          +  ++   +IV      I   N K +   ++  
Sbjct: 253 INGESIQHGIINDDNLNYLPESFIQQYSEFLLKESDIVVGLNRPITNGNLKIARIPSKYN 312

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
              +   A   V     D  +   L+    L           +  +    +    +++P 
Sbjct: 313 NSLLYQRAGKIVYKIDCDKNFTYVLLSQEILKHTLVEAVGSDQPFISTSKLDNWKMMMPS 372

Query: 372 -IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
            ++EQ  I          +D L+   ++    LKE +   + 
Sbjct: 373 DMEEQEKIGLY----FTSLDHLITLHQRKCDSLKELKKYMLQ 410



 Score = 62.1 bits (149), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 16/151 (10%), Positives = 44/151 (29%), Gaps = 8/151 (5%)

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
             + + +    + E   +   +   +++   +    +   L+    +      S      
Sbjct: 58  WDETDRKISEDEYEKIHSKFKLQNNDVLLTIVGSIGETAILKDISGITFQ--RSVAFLRP 115

Query: 325 PHGIDSTYLAWLMRSYDLCKVFY-AMGSGLRQSLKFEDVKRLPVLVP-PIKEQFDITNVI 382
              + S +L   +++    K       +  +  +   D+  +P        EQ  I    
Sbjct: 116 SEELSSEFLYSEIQTPKFQKELDCRKSTSAQPGIYLGDLSEIPFAYSKDKDEQKKIGEY- 174

Query: 383 NVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
                 ID L+   ++     KE +   +  
Sbjct: 175 ---FLNIDNLLTLHQRKCDETKELKKYMLQK 202


>gi|21283479|ref|NP_646567.1| specificity determinant HsdS [Staphylococcus aureus subsp. aureus
           MW2]
 gi|49486626|ref|YP_043847.1| putative restriction modification DNA specificity protein
           [Staphylococcus aureus subsp. aureus MSSA476]
 gi|21204920|dbj|BAB95615.1| probable specificity determinant HsdS [Staphylococcus aureus subsp.
           aureus MW2]
 gi|49245069|emb|CAG43535.1| putative restriction modification DNA specificity protein
           [Staphylococcus aureus subsp. aureus MSSA476]
 gi|164551508|gb|ABY60971.1| Sau1hsdS2 [Staphylococcus aureus]
          Length = 399

 Score =  101 bits (252), Expect = 2e-19,   Method: Composition-based stats.
 Identities = 58/403 (14%), Positives = 136/403 (33%), Gaps = 39/403 (9%)

Query: 24  HWKVVPIKRFT-KLNTGRTSE------SGKDIIYIGLEDVESGTGKYLP-KDGNSRQSDT 75
            W+   +   T K+ +G+T +      + K I ++  +++ +G          +    D 
Sbjct: 20  EWEEKKLGNLTTKIGSGKTPKGGSENYTNKGIPFLRSQNIRNGKLNLNDLVYISKDIDDE 79

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIA---DFDGICSTQ-FLVLQPKDVLPELLQGWLLSI 131
              S    G +L    G  + +  I    +     +    ++   K+        +LLS 
Sbjct: 80  MKNSRTYYGDVLLNITGASIGRTAINSIVETHANLNQHVCIIRLKKEYYYNFFGQYLLSR 139

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
              ++I     G +    ++K I N+ +  P + E+    +KI     ++D  I    + 
Sbjct: 140 KGKRKIFLAQSGGSREGLNFKEIANLKIFTPTIFEEQ---QKIGKFFSKLDRQIELEEQK 196

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           +ELL+++K+  +  I T+ L    +  +   EW         +          +    K 
Sbjct: 197 LELLQQQKKGYMQKIFTQELRFKDENGEEYPEWENKFIKDIFIFENNRRKPITSSLREKG 256

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
           +     +    + ++     N                  ++      +  +    S    
Sbjct: 257 LYPYYGATGIIDYVKDYLFNNEE---------------RLLIGEDGAKWGQFETSSFIAN 301

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ-SLKFEDVKRLPVLVP 370
            +  + +    VK +  +  ++ + +      K   A  +G     L   ++  + + +P
Sbjct: 302 GQYWVNNHAHVVKSNDHNLFFMNYYLN----FKELRAFVTGNAPAKLTHANLCNINLKIP 357

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            + EQ    + ++     ID  +      I LLKER+   +  
Sbjct: 358 CLTEQ----DKVSALLKSIDNKMNNQMNRIELLKERKKELLQK 396



 Score = 68.3 bits (165), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 23/181 (12%), Positives = 51/181 (28%), Gaps = 6/181 (3%)

Query: 215 VKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK----LET 270
            +++  G E          +             +       I  L   NI        + 
Sbjct: 10  PELRFPGFEGEWEEKKLGNLTTKIGSGKTPKGGSENYTNKGIPFLRSQNIRNGKLNLNDL 69

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
             +    +          G+++         + ++ S       +     +         
Sbjct: 70  VYISKDIDDEMKNSRTYYGDVLLNITGASIGRTAINSIVETHANLNQHVCIIRLKKEYYY 129

Query: 331 TYLA-WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI-KEQFDITNVINVETAR 388
            +   +L+      K+F A   G R+ L F+++  L +  P I +EQ  I    +    +
Sbjct: 130 NFFGQYLLSRKGKRKIFLAQSGGSREGLNFKEIANLKIFTPTIFEEQQKIGKFFSKLDRQ 189

Query: 389 I 389
           I
Sbjct: 190 I 190


>gi|194435174|ref|ZP_03067406.1| putative type I restriction-modification system, S subunit
           [Shigella dysenteriae 1012]
 gi|194416592|gb|EDX32729.1| putative type I restriction-modification system, S subunit
           [Shigella dysenteriae 1012]
 gi|320179362|gb|EFW54320.1| Type I restriction-modification system, specificity subunit S
           [Shigella boydii ATCC 9905]
          Length = 578

 Score =  101 bits (252), Expect = 2e-19,   Method: Composition-based stats.
 Identities = 55/490 (11%), Positives = 126/490 (25%), Gaps = 101/490 (20%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDV 56
           +K  K  P+   S  +    +P+ W+ V +    ++  GR  +  +        + + ++
Sbjct: 83  IKKQKPLPEI--SEEEKPFELPEGWEWVRVADLMEVINGRAYKKHEMLQTGTPLLRVGNL 140

Query: 57  ESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP 116
                 +   +                G ++Y     +       +        + +   
Sbjct: 141 ------FTSNEWYYSDLQLDENKYINNGDLIYAWSASFGPFIWTGEKVIYHYHIWKLNLF 194

Query: 117 KDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIA 176
            +            + +T +I++   G  M H   + +    + +PP+ EQ  I  KI  
Sbjct: 195 AEEYSNKYFIHDFLLSITDKIKSQGNGIAMLHMTKEKMEQQIIALPPINEQQQIVRKIRE 254

Query: 177 ET-----------------------------------------VRIDTLITERIRFIELL 195
            T                                          RI             +
Sbjct: 255 LTVLCDQLEQQSLTSLDAHQQLVETLLGTLTDSQNAKELAENWARISEHFDTLFTTEASV 314

Query: 196 KEKKQALVSYIVTKGLNPDVKMKD-------------------------------SGIEW 224
              KQ ++   V   L P     +                               S  E 
Sbjct: 315 DALKQTILQLAVMGKLVPQDPNDEPASELLKRIAQEKAQLVKEGKIKKQKPLPPISDEEK 374

Query: 225 VGLVPDHWEVKP-------FFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKP 277
              +P+ WE                       + +   I  ++ G+I +        +  
Sbjct: 375 PFELPEGWEWCKFGLTSEFINGDRGSNYPNKNEYVSQGIPWINTGHIEKNGTLTVTEMNF 434

Query: 278 ESYETYQ-----IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
            +   +       +  G++V+        K +  +       I +S  +          Y
Sbjct: 435 ITEGKFNELRSGKIQKGDLVYCLRGATFGKTAFVTPYETG-AIASSLMIIRPFITEMGGY 493

Query: 333 LAWLMRSYDLCKVFYAM-GSGLRQSLKFEDVKRLPVLVPPIKEQFDI---TNVINVETAR 388
           +   + S       Y       + +L    V       PP+ EQ+ I     +++    +
Sbjct: 494 IYNYLTSPFGRSQIYRFDNGSAQPNLSANSVMLYSFPCPPLTEQYRIFSQVGLLHELCDK 553

Query: 389 IDVLVEKIEQ 398
           +   ++  +Q
Sbjct: 554 LKTRIKTAQQ 563



 Score = 69.1 bits (167), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 29/202 (14%), Positives = 61/202 (30%), Gaps = 13/202 (6%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSES--------GKDIIYIGLEDVESGTGKYLPKDGNSR 71
            +P+ W+       ++   G    +         + I +I    +E      + +     
Sbjct: 377 ELPEGWEWCKFGLTSEFINGDRGSNYPNKNEYVSQGIPWINTGHIEKNGTLTVTEMNFIT 436

Query: 72  QSDTSTVS--IFAKGQILYGKLGPYLRKAII---ADFDGICSTQFLVLQPKDVLPELLQG 126
           +   + +      KG ++Y   G    K       +   I S+  ++      +   +  
Sbjct: 437 EGKFNELRSGKIQKGDLVYCLRGATFGKTAFVTPYETGAIASSLMIIRPFITEMGGYIYN 496

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           +L S     +I     G+   +     +     P PPL EQ  I  ++       D L T
Sbjct: 497 YLTSPFGRSQIYRFDNGSAQPNLSANSVMLYSFPCPPLTEQYRIFSQVGLLHELCDKLKT 556

Query: 187 ERIRFIELLKEKKQALVSYIVT 208
                 +       AL +  + 
Sbjct: 557 RIKTAQQTQLHLADALTNAAIN 578



 Score = 65.2 bits (157), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 26/193 (13%), Positives = 63/193 (32%), Gaps = 5/193 (2%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
           S  E    +P+ WE      L+  +N +  K  E          +     +         
Sbjct: 93  SEEEKPFELPEGWEWVRVADLMEVINGRAYKKHEMLQTGTPLLRVGNLFTSNEWYYSDLQ 152

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
            +  + ++ G++++ +              +    I             +  ++   + S
Sbjct: 153 LDENKYINNGDLIYAWSASFGPFIWTGEKVIYHYHIW--KLNLFAEEYSNKYFIHDFLLS 210

Query: 340 YDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
             +     + G+G     +  E +++  + +PPI EQ  I   I   T   D L ++   
Sbjct: 211 --ITDKIKSQGNGIAMLHMTKEKMEQQIIALPPINEQQQIVRKIRELTVLCDQLEQQSLT 268

Query: 399 SIVLLKERRSSFI 411
           S+   ++   + +
Sbjct: 269 SLDAHQQLVETLL 281


>gi|317505566|ref|ZP_07963477.1| type I site-specific deoxyribonuclease [Prevotella salivae DSM
           15606]
 gi|315663314|gb|EFV03070.1| type I site-specific deoxyribonuclease [Prevotella salivae DSM
           15606]
          Length = 531

 Score =  101 bits (252), Expect = 2e-19,   Method: Composition-based stats.
 Identities = 49/444 (11%), Positives = 120/444 (27%), Gaps = 74/444 (16%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDI----IYIGLEDVESGTGKYLPKDGNSRQSDT 75
            IP  W+   I       +G+   S K+I     +I   ++  G          +   + 
Sbjct: 86  EIPNGWEWTRIGSVFNHASGKQQSSNKNIGTPQKFITTSNLYWGYFILDNVKIMNFTEEE 145

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP-ELLQGWLLSIDVT 134
                  KG +L  + G    ++ I  FD     Q  V + +  +       +     + 
Sbjct: 146 IKRCSATKGDLLVCEGGAGYGRSAIWHFDYDICLQNHVHRLRPYINGICEYVYYFIYLLK 205

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           +       G  M       +  + +P PPL+ Q  I  ++      I      +    +L
Sbjct: 206 ESNNLTSVGTAMPGLSANRLKGLLLPFPPLSAQKRIVAQLGVLLPLIAKYSDVQNSLDKL 265

Query: 195 ----LKEKKQALVSYIVTKGL---NPDVKMKDSGIEWV---------------------- 225
                 + K++++   +   L   +P  +     +E +                      
Sbjct: 266 NITINDKLKKSILQEAIQGRLVSQDPTDEPASILLERIKAEKVRLVEDGVLKEKVLVSST 325

Query: 226 -------------------------GLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
                                       P+ W       + +       K  ++ +  + 
Sbjct: 326 IFKGEDNKYYEQVGSTRLDISEVIPFEEPNGWRWCRLKDICSIFTGATFKKEDATMNGIG 385

Query: 261 YGNIIQKLET--------RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
                              ++ L  E  +   ++   +IV   +    +   +   +   
Sbjct: 386 IRVWRGGNILPFALINKPDDLYLPNEKVKDNILLKKNDIVTPAVTSLENIGKMARTEYDM 445

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSY-------DLCKVFYAMGSGLRQSLKFEDVKRL 365
                  ++ +         L+  + +        +  K           ++  E + + 
Sbjct: 446 PHTTVGGFVFIIRPFFSVDTLSQYLLNLLSSPILIEYMKTITNKSGQAFYNIGKERLGQA 505

Query: 366 PVLVPPIKEQFDITNVINVETARI 389
            + +PP+ EQ  I   ++    +I
Sbjct: 506 LLPIPPLAEQERIVEKVSQTFDKI 529



 Score = 71.4 bits (173), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 26/212 (12%), Positives = 60/212 (28%), Gaps = 14/212 (6%)

Query: 218 KDSGIEWVGLVPDHWEVKPFFALVTELNRK------NTKLIESNILSLSYGNIIQKLETR 271
           K    E    +P+ WE     ++    + K      N    +  I + +       L+  
Sbjct: 77  KCIDDEIPFEIPNGWEWTRIGSVFNHASGKQQSSNKNIGTPQKFITTSNLYWGYFILDNV 136

Query: 272 NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST 331
            +    E          G+++         + ++          + +    ++P+     
Sbjct: 137 KIMNFTEEEIKRCSATKGDLLVCEGGAGYGRSAIWHFD--YDICLQNHVHRLRPYINGIC 194

Query: 332 YLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
              +                     L    +K L +  PP+  Q  I   + V    I  
Sbjct: 195 EYVYYFIYLLKESNNLTSVGTAMPGLSANRLKGLLLPFPPLSAQKRIVAQLGVLLPLI-A 253

Query: 392 LVEKIEQSIVLLK-----ERRSSFIAAAVTGQ 418
               ++ S+  L      + + S +  A+ G+
Sbjct: 254 KYSDVQNSLDKLNITINDKLKKSILQEAIQGR 285


>gi|304380447|ref|ZP_07363125.1| EcoA family type I restriction-modification system [Staphylococcus
           aureus subsp. aureus ATCC BAA-39]
 gi|304340965|gb|EFM06887.1| EcoA family type I restriction-modification system [Staphylococcus
           aureus subsp. aureus ATCC BAA-39]
          Length = 390

 Score =  101 bits (252), Expect = 2e-19,   Method: Composition-based stats.
 Identities = 58/405 (14%), Positives = 130/405 (32%), Gaps = 39/405 (9%)

Query: 24  HWKVVPIKRFTKLNTGRTSE-SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            W+   +   T     +      K  + I  +       +Y  K  +S+  +    ++  
Sbjct: 7   EWEEKQLGDLTDRVIRKNKNLESKKPLTISGQLGLIDQTEYFSKSVSSKNLE--NYTLIK 64

Query: 83  KGQILYGKLGPYLRKAIIAD-----FDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
            G+  Y K                   G+ S+ ++    K  + +             R 
Sbjct: 65  NGEFAYNKSYSNGYPLGAIKRLTRYDSGVLSSLYICFSIKSEMSKDFMEAYFDSTHWYRE 124

Query: 138 EAIC-----EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
            +           + +        I +  P L EQ  I +       +I+    +     
Sbjct: 125 VSGIAVEGARNHGLLNVSVNDFFTILIKYPSLEEQQKIGKFFSKLDRQIELEEQKLELLQ 184

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           +  K   Q + S  +               +  G     WE       + E N ++    
Sbjct: 185 QQKKGYMQKIFSQELRFK------------DENGEDYPDWENSKIEKYLKERNERSD--K 230

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
              +       II+  E        +    Y++V   +I +  + +        +     
Sbjct: 231 GQMLSVTINSGIIKFSELDRKDNSSKDKSNYKVVRKNDIAYNSMRMWQGASGKSNY---- 286

Query: 313 RGIITSAYMAVKPHGIDSTYL-AWLMRSYDLCKVFYAMGSGLRQ---SLKFEDVKRLPVL 368
            GI++ AY  + P    S+    +  +++ +   F     GL     +LK++ +K + + 
Sbjct: 287 NGIVSPAYTVLYPTQNTSSLFIGYKFKTHRMIHKFKINSQGLTPDTWNLKYKQLKNINID 346

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           +P ++EQ  I +       ++D+L+ K +  I +L++ + SF+  
Sbjct: 347 IPVLEEQEKIGDF----FKKMDILISKQKMKIEILEKEKQSFLQK 387



 Score = 57.1 bits (136), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 33/184 (17%), Positives = 65/184 (35%), Gaps = 9/184 (4%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKD-GNSRQSDTSTVSIFA 82
            W+   I+++ K    R+ +       + +  + SG  K+   D  ++   D S   +  
Sbjct: 211 DWENSKIEKYLKERNERSDKGQM----LSVT-INSGIIKFSELDRKDNSSKDKSNYKVVR 265

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           K  I Y  +  +   +  ++++GI S  + VL P      L  G+            I  
Sbjct: 266 KNDIAYNSMRMWQGASGKSNYNGIVSPAYTVLYPTQNTSSLFIGYKFKTHRMIHKFKINS 325

Query: 143 G---ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
                   +  +K + NI + IP L EQ  I +      + I     +     +  +   
Sbjct: 326 QGLTPDTWNLKYKQLKNINIDIPVLEEQEKIGDFFKKMDILISKQKMKIEILEKEKQSFL 385

Query: 200 QALV 203
           Q + 
Sbjct: 386 QKMF 389


>gi|332364617|gb|EGJ42386.1| type I restriction-modification system specificty subunit
           [Streptococcus sanguinis SK1059]
          Length = 386

 Score =  101 bits (252), Expect = 2e-19,   Method: Composition-based stats.
 Identities = 49/398 (12%), Positives = 122/398 (30%), Gaps = 26/398 (6%)

Query: 26  KVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           +   ++    L  G   +S K     I  + + ++    G    +     +       + 
Sbjct: 2   EYKKLQSIAPLRGGFAFKSEKFQNVGIPIVRISNI-GFDGTVGGEFEYYSKLSPDEKFVL 60

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV---LPELLQGWLLSIDVTQRIE 138
               +L    G    K  + D +        V   ++      + L   L +   T ++ 
Sbjct: 61  KGRSLLLAMSGATTGKIAMLDSEEEYYQNQRVGYFQNNGAVDYDFLSSVLQTKAFTNQLN 120

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
           A+       +   K I +    IP   E+      +      +D L+      +   +  
Sbjct: 121 AVLVAGAQPNISSKEIDSFEFCIPESIEEQSAIGSL---FRTLDDLLASYKDNLANYQSL 177

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
           K  ++S +  K      +++  G E                 V   N K+        + 
Sbjct: 178 KATMLSKMFPKAGQTVPEIRLDGFEGEWEKLK-------LRDVVHTNPKSELPENFKYID 230

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
           L      +  + R            ++   G++ ++ +        L     ++  + ++
Sbjct: 231 LESVVGTRINKIREERKTSAPSRAQRLAKKGDVFYQTVRPYQKNNYLFKLDEIDY-VFST 289

Query: 319 AY--MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQ 375
            Y  +    +  DS +L  L+++           +G    ++   D+  + + +P  +EQ
Sbjct: 290 GYAQLRPIFNRCDSDFLLILLQNNRFLSNVLDRCTGTSYPAINVNDLIEILIAIPSYEEQ 349

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
             I        + +D L+   ++ I  L+  +   +  
Sbjct: 350 QAIGAY----FSNLDSLISAHQEKISQLETLKKKLLQD 383


>gi|218261756|ref|ZP_03476491.1| hypothetical protein PRABACTJOHN_02162 [Parabacteroides johnsonii
           DSM 18315]
 gi|218223800|gb|EEC96450.1| hypothetical protein PRABACTJOHN_02162 [Parabacteroides johnsonii
           DSM 18315]
          Length = 431

 Score =  101 bits (252), Expect = 2e-19,   Method: Composition-based stats.
 Identities = 55/411 (13%), Positives = 124/411 (30%), Gaps = 29/411 (7%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYL--PKDGNSRQSD 74
           + WK  P+    ++  G T  S        DI +I   D+       +   +        
Sbjct: 28  EGWKRTPLLEICEIIGGGTPTSSNDVYWNGDIPWISSSDINENNISEITPTRHITKDAIK 87

Query: 75  TSTVSIFAKGQI-LYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
            S   +     I +  ++G  + K   +  D   S  F  L   +     L   L  I  
Sbjct: 88  NSATKLCKAPSIHIVSRVG--VGKVAFSRVDICTSQDFTNLCNINCNYIFLSYLLSIIMK 145

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            +  E   +G ++       I N+ +P+P + EQ  I + + +        I+     IE
Sbjct: 146 QKVQE--TQGTSIKGIASAEIKNLHVPLPEIEEQQRIADCLSSLDDL----ISAVADKIE 199

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGL-VPDHWEVKPFFALVTELNRKNTKLI 252
            LKE K+ L+  +          ++    +  G  +    +      L     +    L 
Sbjct: 200 TLKEYKKGLMQQLFPAEGKTIPAIRFPEFQNAGEWMLLPIKKCNIDILTGYAFKGTEILE 259

Query: 253 ESNILSLSYGNII-------QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
           +++ + L  G  I            R    +  +   Y+++    ++           +L
Sbjct: 260 DNDGIPLMRGINITEGVVRHNNDIDRFYSGEDHTLSKYRLLCNDLVIAMDGSKVGRNFAL 319

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA-MGSGLRQSLKFEDVKR 364
            + Q     ++         +     ++   + S    K       S     +  + ++ 
Sbjct: 320 INKQDEGSLLVQRVARLRADNIDFIMFIYQQIGSDRFKKYIDRINTSSGIPHISLKQIED 379

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
             +         +   ++    + +D L+      +  LK  +   +    
Sbjct: 380 FKIWTTRND--KEF-RMVTNCLSSVDELISTEIAKLDQLKAHKKGLMQQLF 427


>gi|169347040|ref|ZP_02865982.1| restriction modification system DNA specificity domain [Clostridium
           perfringens C str. JGS1495]
 gi|169296723|gb|EDS78852.1| restriction modification system DNA specificity domain [Clostridium
           perfringens C str. JGS1495]
          Length = 389

 Score =  101 bits (252), Expect = 2e-19,   Method: Composition-based stats.
 Identities = 64/401 (15%), Positives = 136/401 (33%), Gaps = 33/401 (8%)

Query: 30  IKRFTKLNTGRTSESG------KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           +K   ++++G   +S       + I  I + D+ SG  +           D     I   
Sbjct: 7   LKNLIEIDSGYAFKSSFFNDNFEGIPIIRIRDINSGIAE------TYYSGDYEEKFIVNN 60

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
             +L G  G   +    +    + + +   ++           + +     + IE     
Sbjct: 61  DDLLIGMDG-NFKIRKWSGGKALLNQRVCRIKSISNKLSNEYLYRILPLELKLIEDKTSF 119

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
            T+ H   K I NI + IP +  Q  I + I      ID    +      L       + 
Sbjct: 120 VTVKHLSVKDINNIELIIPDIDIQNKIVKIIDKSQELIDNRKKQIEELDLL-------VK 172

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
           S  +     P    K    + +  +                 +K+  + E  ++      
Sbjct: 173 SKFIEMFGTPIE--KRFIGKTLPEIIAEGRYSLKRGPFGGSLKKDDFIQEGYLVYEQRHA 230

Query: 264 IIQKLETRNMGLKPESYETY--QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
           I    +     +  + Y+      V+P +++     +   + S    +  + GII  A +
Sbjct: 231 IHNDFDYAKYYISKDKYDEMIMFKVEPKDLLVSCSGVTLGRIS-EVPEGAKAGIINQALL 289

Query: 322 AVKPHG--IDSTYLAWLMRSYDLCKVFYAMGSG-LRQSL-KFEDVKRLPVLVPPIKEQFD 377
            +  +   +++ Y   L R+  +    +    G    +     +VK +  L PPI+ Q  
Sbjct: 290 KITLNQDIMNNIYFMQLFRNEQIQDKLFGFSRGSGIPNFPSMSEVKSMEFLCPPIELQNK 349

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
             + +N     ID L  ++E+S+  L++  +S +  A  G+
Sbjct: 350 FADFVN----NIDKLKFEMEKSLKELEDNFNSLMQKAFKGE 386


>gi|218690007|ref|YP_002398219.1| putative type I restriction modification system protein
           [Escherichia coli ED1a]
 gi|218427571|emb|CAR08467.2| putative Restriction modification system, type I similar to hsdS
           (fragment) [Escherichia coli ED1a]
          Length = 521

 Score =  101 bits (252), Expect = 2e-19,   Method: Composition-based stats.
 Identities = 57/408 (13%), Positives = 138/408 (33%), Gaps = 36/408 (8%)

Query: 27  VVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQI 86
            +P+       +G      +++  + +        +          SDTS   I  K ++
Sbjct: 5   TIPLGDILT-QSGHHRAGNRELPVLSITMKNGLVDQSDKFKKRIASSDTSKYRIVYKNEL 63

Query: 87  LYG-KLGPYLRKAIIADFDGICSTQFLVLQPKD---VLPELLQGWLLSIDVTQRIEAICE 142
           + G  +   +         GI S  + + + KD        L+ +L S +  +   +  +
Sbjct: 64  VVGFPIDEGVLGFQTKYPVGIVSPAYGIWKLKDESVCHIPYLERYLRSSEARRLYASRMQ 123

Query: 143 GA--TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
           G              ++ +P PP+ +Q  I   +     +++ LI +R + ++ L +  +
Sbjct: 124 GVVARRRSLTKSDFLSLEVPFPPINDQARIANLL----AKVEGLIEQRKQLLQYLDDLLK 179

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
           ++    V    +P    K   +  +G +            V      +          + 
Sbjct: 180 SV---FVDMFSDPVKNAKGWELTTIGEL-----------AVDVRYGTSVSAQGGKYKYIR 225

Query: 261 YGNIIQKLETRNMGLKPESYETYQI----VDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
             NI          LK    +   +    +  G++VF   + +            E  II
Sbjct: 226 MNNITPDGYWDFENLKYIDVDNKDLDKYSLQKGDLVFNRTNSKELVGKTAVYDRDETVII 285

Query: 317 TSAYMAVKPHGIDSTYLAW-LMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIK 373
               + V+     + +  W  + S       + +   +    ++  ++++ +P+L PP++
Sbjct: 286 AGYLIRVRFDQQTNPWFVWGHLNSKFGKAKLFNLCRNIIGMANINAQELRAIPILKPPLE 345

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            Q     ++    A    +  + +QS+  L+         A  G+++L
Sbjct: 346 LQNKFATIVEKAHA----IKFRYQQSLADLETLYDVVSQKAFKGELEL 389



 Score = 61.0 bits (146), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 36/174 (20%), Positives = 73/174 (41%), Gaps = 14/174 (8%)

Query: 231 HWEVKPFFALVTELNRKNTKLIESNILSLSYGNI-IQKLETRNMGLKPESYETYQIVDPG 289
           +    P   ++T+         E  +LS++  N  + + +     +       Y+IV   
Sbjct: 2   NRMTIPLGDILTQSGHHRAGNRELPVLSITMKNGLVDQSDKFKKRIASSDTSKYRIVYKN 61

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW---LMRSYDLCKVF 346
           E+V   +    D+  L        GI++ AY   K       ++ +    +RS +  +++
Sbjct: 62  ELV---VGFPIDEGVLGFQTKYPVGIVSPAYGIWKLKDESVCHIPYLERYLRSSEARRLY 118

Query: 347 YAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
            +   G+   R+SL   D   L V  PPI +Q  I N++    A+++ L+E+ +
Sbjct: 119 ASRMQGVVARRRSLTKSDFLSLEVPFPPINDQARIANLL----AKVEGLIEQRK 168



 Score = 50.2 bits (118), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 26/218 (11%), Positives = 55/218 (25%), Gaps = 11/218 (5%)

Query: 23  KHWKVVPIKRFT-KLNTGRTSE-SGKDIIYIGLEDVE-SGTGKYLPKDGNSRQSDTSTVS 79
           K W++  I      +  G +    G    YI + ++   G   +         +      
Sbjct: 194 KGWELTTIGELAVDVRYGTSVSAQGGKYKYIRMNNITPDGYWDFENLKYIDVDNKDLDKY 253

Query: 80  IFAKGQILYGKLGP----YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV-- 133
              KG +++ +               D   I +   + ++             L+     
Sbjct: 254 SLQKGDLVFNRTNSKELVGKTAVYDRDETVIIAGYLIRVRFDQQTNPWFVWGHLNSKFGK 313

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            +          M++ + + +  IP+  PPL  Q      +                   
Sbjct: 314 AKLFNLCRNIIGMANINAQELRAIPILKPPLELQNKFATIVEKAHAIKFRYQQSLADLET 373

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDH 231
           L     Q      +     P        +   G  P+H
Sbjct: 374 LYDVVSQKAFKGELELSRVPIPTQIFFPVS--GEEPEH 409


>gi|256845970|ref|ZP_05551428.1| anti-codon nuclease masking agent [Fusobacterium sp. 3_1_36A2]
 gi|256719529|gb|EEU33084.1| anti-codon nuclease masking agent [Fusobacterium sp. 3_1_36A2]
          Length = 592

 Score =  101 bits (252), Expect = 2e-19,   Method: Composition-based stats.
 Identities = 57/404 (14%), Positives = 127/404 (31%), Gaps = 29/404 (7%)

Query: 26  KVVPIKRFTKLNTGRTSESG---KDIIYIGLEDVESGTGKYLP--KDGNSRQSDTSTVSI 80
           K+V I    +   G   + G   K    I   +V      Y    K      +D      
Sbjct: 195 KMVKIGDLFEFKNGINKDKGSFGKGTPIINYVNVYKKNKIYFEDLKGLVEASNDELVRYG 254

Query: 81  FAKGQILYGKLGPYLRKAIIAD------FDGICSTQFLVLQPKDVL--PELLQGWLLSID 132
             +G + + +    + +            + + S   L  +P   L  PE       + +
Sbjct: 255 VKRGDVFFTRTSETIEEIGYTSVLLEDIENCVFSGFLLRARPITDLLLPEYCAYCFSTSN 314

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           +   I       T +  +   +  I +P+PPL  Q  I E +       + L       I
Sbjct: 315 IRNTIIKKSTYTTRALTNGTSLSQIEIPLPPLEVQKRIVEVLDNFEKICNDLNIGLPAEI 374

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           E  +++ +   ++++T  +      K    +    +   +     +  +        K  
Sbjct: 375 EARQKQYEFYRNFLLTFKIENCTLPKTRQDKTRQDIIKLFMYIFGYIELELGEILKIKNG 434

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
                       I  +     G      +TY       ++ R   + N     +    ++
Sbjct: 435 SDYKKF-----NIGNIPVYGSGGIINYIDTYIYDKESVLIPRKGSIGNLFYVDKPFWTVD 489

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI 372
               T  Y  +    +   YL + +   +L K+     +G   SL    + ++ + +PP+
Sbjct: 490 ----TIFYTVIDKDVVIPKYLYYYLSKMNLEKL---NTAGGVPSLTQTVLNKILIPLPPL 542

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           +EQ  I ++++      + + E +   I   ++     R   + 
Sbjct: 543 EEQQRIIDILDRFDKLCNDISEGLPAEIEARQKQYEYYREKLLT 586



 Score = 98.7 bits (244), Expect = 1e-18,   Method: Composition-based stats.
 Identities = 46/396 (11%), Positives = 113/396 (28%), Gaps = 34/396 (8%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           P   +   +    K+  G      K          +S   KY   +G    +        
Sbjct: 13  PNGVEYKELGDIAKVTIGEFVHKDK----------QSENAKYPVYNGGISNTGYYDEYNE 62

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            K +I+    G           +         +   D +      + +  +  + +    
Sbjct: 63  EKNKIIISARGANAGYINRIFVNYWAGNSCYTINANDKIINWNFLYYVLKNKEKGLLNKQ 122

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
           +  ++     K + +I +P+PPL  Q  I   +   T     L  E    +   K++   
Sbjct: 123 QTGSIPSISKKQVESILVPVPPLEVQDEIVRILDNFTALTAELTAELTAELTARKKQYSW 182

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
              Y++    N    +K      +G + +                     +      +  
Sbjct: 183 YRDYLLKFE-NKVKMVK------IGDLFEFKNGINKDKGSFGKGTPIINYVN-----VYK 230

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA--QVMERGIITSA 319
            N I   + + +            V  G++ F       ++    S   + +E  + +  
Sbjct: 231 KNKIYFEDLKGLVEASNDELVRYGVKRGDVFFTRTSETIEEIGYTSVLLEDIENCVFSGF 290

Query: 320 YMAVKPHGID--STYLAWLMRSYDLCK-VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
            +  +P        Y A+   + ++   +        R       + ++ + +PP++ Q 
Sbjct: 291 LLRARPITDLLLPEYCAYCFSTSNIRNTIIKKSTYTTRALTNGTSLSQIEIPLPPLEVQK 350

Query: 377 DITNVINVETARIDVL-------VEKIEQSIVLLKE 405
            I  V++      + L       +E  ++     + 
Sbjct: 351 RIVEVLDNFEKICNDLNIGLPAEIEARQKQYEFYRN 386



 Score = 69.4 bits (168), Expect = 9e-10,   Method: Composition-based stats.
 Identities = 22/149 (14%), Positives = 48/149 (32%), Gaps = 7/149 (4%)

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
           K    N G+    Y      +  +I+              +   +      S Y      
Sbjct: 43  KYPVYNGGISNTGYYDEYNEEKNKIIISARGAN---AGYINRIFVNYWAGNSCYTINAND 99

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
            I +    + +       +     +G   S+  + V+ + V VPP++ Q +I  +++  T
Sbjct: 100 KIINWNFLYYVLKNKEKGLLNKQQTGSIPSISKKQVESILVPVPPLEVQDEIVRILDNFT 159

Query: 387 ARIDVLVEKIEQSIVLLKE----RRSSFI 411
           A    L  ++   +   K+     R   +
Sbjct: 160 ALTAELTAELTAELTARKKQYSWYRDYLL 188


>gi|309379402|emb|CBX21969.1| putative recognition subunit of Type I restriction/modification
           system [Neisseria lactamica Y92-1009]
          Length = 414

 Score =  101 bits (252), Expect = 2e-19,   Method: Composition-based stats.
 Identities = 48/404 (11%), Positives = 116/404 (28%), Gaps = 37/404 (9%)

Query: 26  KVVPIKRFTKLNTG----RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT-STVSI 80
           +  P+     L  G    +   +   +  I    + +  G    K  +    +    +  
Sbjct: 20  EWKPLGEVGLLVRGNGLQKKDFTESGVPAIHYGQIYTYYGNQTDKTLSFVSPELAEKLKK 79

Query: 81  FAKGQILYGKLGPYLRKAI-----IADFDGICSTQFLVLQPKDVLPELLQGWLLSID-VT 134
             KG ++       +         + +   +      + +P   +      +    +   
Sbjct: 80  VDKGDVVITNTSENIEDVGKALLYLGEEQAVTGGHATIFKPSKEIVGKFFVYFTQTEIFD 139

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           +      +G  +       +  I +PIPPL  Q  I + +   T    TL  E +     
Sbjct: 140 KAKRKFAKGTKVIDVSATDMAKIKIPIPPLEIQQKIVKILDKFTELEATLEAELVLRKRQ 199

Query: 195 LKEKKQALVSYIVTKGLN----PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
            +  +  L+ +    G         ++KD   + +G + ++ + +     + E N     
Sbjct: 200 YRYYRDFLLDFDNQIGGGIADGYQCRLKDVVWKTLGEIAEYSKNRICSDKLNEHN----- 254

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
                   +   N++Q  E + +     S          +I+   I     K        
Sbjct: 255 -------YVGVDNLLQNREGKKLSGYVPSEGKMTEYIVNDILIGNIRPYLKKIWQADCTG 307

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLV 369
              G +    + V    ++  YL  ++              G          + +  + +
Sbjct: 308 GTNGDV--LVIRVTDEKVNPKYLYQVLADDKFFAFNMKHAKGAKMPRGSKTAIMQYKIPI 365

Query: 370 PPIKEQFDITNVINVETARIDVL-------VEKIEQSIVLLKER 406
           PPI EQ  I  +++        +       +    +     +E+
Sbjct: 366 PPIPEQEKIVAILDKFDTLTHSVSEGLPHEIALRRKQYEYYREQ 409



 Score = 70.6 bits (171), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 29/169 (17%), Positives = 62/169 (36%), Gaps = 12/169 (7%)

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMG----LKPESYETYQIVDPGEIVFRFIDLQNDK 302
           +     ES + ++ YG I      +       + PE  E  + VD G++V        + 
Sbjct: 37  QKKDFTESGVPAIHYGQIYTYYGNQTDKTLSFVSPELAEKLKKVDKGDVVITNTSENIED 96

Query: 303 RSLRSAQVMERGIITSAY--MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS-LKF 359
                  + E   +T  +  +      I   +  +  ++    K       G +   +  
Sbjct: 97  VGKALLYLGEEQAVTGGHATIFKPSKEIVGKFFVYFTQTEIFDKAKRKFAKGTKVIDVSA 156

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLK-ERR 407
            D+ ++ + +PP++ Q  I  +++  T     L   +E  +VL K + R
Sbjct: 157 TDMAKIKIPIPPLEIQQKIVKILDKFTE----LEATLEAELVLRKRQYR 201


>gi|126667037|ref|ZP_01738012.1| Restriction modification system DNA specificity domain
           [Marinobacter sp. ELB17]
 gi|126628443|gb|EAZ99065.1| Restriction modification system DNA specificity domain
           [Marinobacter sp. ELB17]
          Length = 527

 Score =  101 bits (252), Expect = 2e-19,   Method: Composition-based stats.
 Identities = 24/159 (15%), Positives = 60/159 (37%), Gaps = 3/159 (1%)

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY-- 320
                  +R +            +  G+I+   +     +  +       R +       
Sbjct: 55  GRFLDKSSRFLTRSKARELNCTFLRAGDILVARMPDPLGRCCIFPLDEDGRYVTVVDICA 114

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDIT 379
           +      +++ ++ +L+ S  +     A+ SG  R+ +   ++  +P+ +PP+ EQ  I 
Sbjct: 115 IRFGDSRVNAKFMMYLINSPSIRGKISALQSGSTRKRISRGNLATIPLPLPPLNEQHRIV 174

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
             I    + +D  +E ++ +   LK  R + +  A  G+
Sbjct: 175 AKIETLFSELDKGIESLKTAREQLKVYRQAVLKHAFEGK 213



 Score = 95.2 bits (235), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 71/492 (14%), Positives = 141/492 (28%), Gaps = 94/492 (19%)

Query: 18  IGAIPKHWKVVPIKRFT---------KLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDG 68
           +  +   W    I+                 +  +   D+  I L D+  G G++L K  
Sbjct: 5   LNELADGWVECVIEDVVGKGGIFKDGDWVESKDQDPNGDVRLIQLADI--GDGRFLDKSS 62

Query: 69  ---NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD------FDGICSTQFLVLQPKDV 119
                 ++     +    G IL  ++   L +  I        +  +     +      V
Sbjct: 63  RFLTRSKARELNCTFLRAGDILVARMPDPLGRCCIFPLDEDGRYVTVVDICAIRFGDSRV 122

Query: 120 LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET- 178
             + +   + S  +  +I A+  G+T        +  IP+P+PPL EQ  I  KI     
Sbjct: 123 NAKFMMYLINSPSIRGKISALQSGSTRKRISRGNLATIPLPLPPLNEQHRIVAKIETLFS 182

Query: 179 ---------------------------------------------------VRIDTLITE 187
                                                               RI      
Sbjct: 183 ELDKGIESLKTAREQLKVYRQAVLKHAFEGKLTAKWREQNKDKLETPQQLLARIQQERQA 242

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDVKMK------DSGIE--WVGLVPDHWEVKPF-- 237
           R +      +    +      K   P    K       S  E      +P  W       
Sbjct: 243 RYQQKLQEWQVAVKMWEENGKKENKPGKPKKLAALKETSENETRNFPQLPVGWTYVRLGL 302

Query: 238 -FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI----VDPGEI- 291
                T    K        +  L   N I      +  LK  S+E +++    +  G++ 
Sbjct: 303 LIEEPTYGTSKKCSYDSGQVGVLRIPN-ISHGAIDSSNLKFASFEEHEVKALALAKGDLL 361

Query: 292 -VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWL--MRSYDLCKVFYA 348
            +     +         A+     +     + ++P+         L  + S+ L +   +
Sbjct: 362 TIRSNGSVSLVGSCALIAEEDTDFLFAGYLIRLRPNHDLVAPFFLLSVLTSHLLRRQIES 421

Query: 349 MGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
                    ++   +++ L V +P + EQ ++   + + T  I V   +IE  +   +  
Sbjct: 422 AAKSTSGVNNINTGEIQNLIVPLPSMVEQVELLKFLEISTPNIAVAEYEIEVQLKKSEVL 481

Query: 407 RSSFIAAAVTGQ 418
           R S +  A +G+
Sbjct: 482 RQSILKKAFSGK 493



 Score = 49.8 bits (117), Expect = 9e-04,   Method: Composition-based stats.
 Identities = 32/210 (15%), Positives = 70/210 (33%), Gaps = 13/210 (6%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            +P  W  V +    +  T  TS+        +  + + ++  G          S +   
Sbjct: 290 QLPVGWTYVRLGLLIEEPTYGTSKKCSYDSGQVGVLRIPNISHGAIDSSNLKFASFEEHE 349

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIA------DFDGICSTQFLVLQPKDVLPELLQ---G 126
                 AKG +L  +    +            D D + +   + L+P   L         
Sbjct: 350 VKALALAKGDLLTIRSNGSVSLVGSCALIAEEDTDFLFAGYLIRLRPNHDLVAPFFLLSV 409

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
               +   Q   A    + +++ +   I N+ +P+P + EQV + + +   T  I     
Sbjct: 410 LTSHLLRRQIESAAKSTSGVNNINTGEIQNLIVPLPSMVEQVELLKFLEISTPNIAVAEY 469

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVK 216
           E    ++  +  +Q+++    +  L P   
Sbjct: 470 EIEVQLKKSEVLRQSILKKAFSGKLVPQDP 499


>gi|307824516|ref|ZP_07654741.1| restriction modification system DNA specificity domain protein
           [Methylobacter tundripaludum SV96]
 gi|307734500|gb|EFO05352.1| restriction modification system DNA specificity domain protein
           [Methylobacter tundripaludum SV96]
          Length = 394

 Score =  101 bits (252), Expect = 2e-19,   Method: Composition-based stats.
 Identities = 68/419 (16%), Positives = 137/419 (32%), Gaps = 54/419 (12%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGN 69
           YK + V   G IP+ W+V  +        G+  E    I   G   V     K++  +G 
Sbjct: 22  YKQTEV---GVIPEDWEVKTVGSVAAYANGKAHEGS--ISDFGKYIVV--NSKFISTNGK 74

Query: 70  SRQSDTSTVSIFAKGQILYGKLGPYLRKAI------IADFDGICSTQFLVLQPKDVLPEL 123
            ++      S  ++ +IL         +AI        +     + +  VL+P  +   L
Sbjct: 75  VKKYSDDCFSPTSESEILMVMSDVPNGRAIARCFFVDHNDLYTVNQRICVLRPNQINGRL 134

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPP-LAEQVLIREKIIAETVRID 182
               L          +  +G   ++     + + P+ IPP  AEQ  I E +    V I+
Sbjct: 135 FYYKLNRHPF---YLSFDDGVKQTNLRKNDVLSCPLTIPPTKAEQEAIAEALSDADVFIE 191

Query: 183 TLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVT 242
           +L     +   + +   Q                 + +G + +      W VK    ++T
Sbjct: 192 SLEQLIAKKRHIKQGAMQE----------------RLTGKKRLPGFSGEWGVKRIGDVLT 235

Query: 243 ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK 302
             + K+   +E             ++   N            + D   ++       +  
Sbjct: 236 IAHGKSQHAVEDRNGIYPILATGGQIGVAN----------CFLYDKPSVLIGRKGTIDR- 284

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDV 362
                        + + + +V     ++ +L +     D  +   A G     SL    +
Sbjct: 285 ---PQYMEQPFWTVDTLFYSVIHKQNNAKFLFYRFCLIDWKQYNEASG---VPSLNARTI 338

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           + + + VP   EQ  I  +++   A I  L    E  +   +  +   +   +TG+I L
Sbjct: 339 ESIEIKVPFEDEQVAIAAILSDMDAEISAL----EDKLAKTRAIKQGMMRNLLTGRIRL 393



 Score = 73.3 bits (178), Expect = 7e-11,   Method: Composition-based stats.
 Identities = 45/211 (21%), Positives = 83/211 (39%), Gaps = 11/211 (5%)

Query: 218 KDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKP 277
           K      VG++P+ WEVK   ++    N K  +   S+     Y  +  K  + N  +K 
Sbjct: 20  KGYKQTEVGVIPEDWEVKTVGSVAAYANGKAHEGSISD--FGKYIVVNSKFISTNGKVKK 77

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI--ITSAYMAVKPHGIDSTYLAW 335
            S + +      EI+    D+ N +   R   V    +  +      ++P+ I+     +
Sbjct: 78  YSDDCFSPTSESEILMVMSDVPNGRAIARCFFVDHNDLYTVNQRICVLRPNQINGRLFYY 137

Query: 336 LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP-IKEQFDITNVINVETARIDVLVE 394
            +  +     F       + +L+  DV   P+ +PP   EQ  I   ++      DV +E
Sbjct: 138 KLNRHPFYLSFDDGVK--QTNLRKNDVLSCPLTIPPTKAEQEAIAEALSDA----DVFIE 191

Query: 395 KIEQSIVLLKERRSSFIAAAVTGQIDLRGES 425
            +EQ I   +  +   +   +TG+  L G S
Sbjct: 192 SLEQLIAKKRHIKQGAMQERLTGKKRLPGFS 222


>gi|281418674|ref|ZP_06249693.1| restriction modification system DNA specificity domain protein
           [Clostridium thermocellum JW20]
 gi|281407758|gb|EFB38017.1| restriction modification system DNA specificity domain protein
           [Clostridium thermocellum JW20]
          Length = 504

 Score =  101 bits (252), Expect = 2e-19,   Method: Composition-based stats.
 Identities = 60/394 (15%), Positives = 127/394 (32%), Gaps = 37/394 (9%)

Query: 25  WKVVPIKRFT-KLNTGRTSESG-----KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           W+V+P+K     L TGR  + G     + I  IG E +++     L       +   +T+
Sbjct: 124 WEVIPLKEVLLSLETGRRPQGGVSNINEGIPSIGGEHIDTDGSLKLDDMKYIPEEFFNTL 183

Query: 79  S--IFAKGQILYGKLGPYLRKAIIAD----FDGICSTQFL--VLQPKDVLPELLQGWLLS 130
           +  +     IL  K G    K    +         +          + +LP+ L   L S
Sbjct: 184 TTGVIEDNNILIVKDGATTGKVAYINNLPFEKAAVNEHVFLLKADTEKILPQFLFYVLYS 243

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
                +I    +GA         + NI +P+PPL  Q  +  ++  +   I         
Sbjct: 244 EYGQNQILMYKKGAAQGGITRDILDNIQIPLPPLPVQQELVARLDKQQAII--------- 294

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
                 E+  A+   I+  G++      DS  E      +   +          + K   
Sbjct: 295 ------EQCNAMEKAILEAGID------DSIFEGDWEWVELESLCNDILSGGTPSTKVEA 342

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
             + +I  ++  +I  +        K  + E  +      I    I +       +    
Sbjct: 343 YWKGSIPWITSADI--QGIYEINVRKFITEEAVENSTTKIIPANNIIVATRVGLGKLCLN 400

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP 370
                I+     +                  +            Q +  + +K + + +P
Sbjct: 401 KFDVCISQDCQGLIIKENVIPEFMLFALYNRVQSFKQESQGSTVQGVTKDHLKAIKIPLP 460

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLK 404
           PI++Q +I + ++++   ++ +    E +   +K
Sbjct: 461 PIEKQQEIVDFLDIQFKALNNIRRLKENAKQTIK 494



 Score = 60.6 bits (145), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 29/167 (17%), Positives = 60/167 (35%), Gaps = 9/167 (5%)

Query: 24  HWKVVPIKRFT-KLNTGRTSESGKD------IIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            W+ V ++     + +G T  +  +      I +I   D++      + K       + S
Sbjct: 317 DWEWVELESLCNDILSGGTPSTKVEAYWKGSIPWITSADIQGIYEINVRKFITEEAVENS 376

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
           T  I     I+       L K  +  FD   S     L  K+ +      + L   V   
Sbjct: 377 TTKIIPANNIIVAT-RVGLGKLCLNKFDVCISQDCQGLIIKENVIPEFMLFALYNRVQS- 434

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
            +   +G+T+       +  I +P+PP+ +Q  I + +  +   ++ 
Sbjct: 435 FKQESQGSTVQGVTKDHLKAIKIPLPPIEKQQEIVDFLDIQFKALNN 481


>gi|227529076|ref|ZP_03959125.1| type I restriction-modification system specificity subunit
           [Lactobacillus vaginalis ATCC 49540]
 gi|227351088|gb|EEJ41379.1| type I restriction-modification system specificity subunit
           [Lactobacillus vaginalis ATCC 49540]
          Length = 382

 Score =  101 bits (251), Expect = 2e-19,   Method: Composition-based stats.
 Identities = 62/394 (15%), Positives = 129/394 (32%), Gaps = 34/394 (8%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W+   + +   + +G+  ++           +  G        G     + S   +   
Sbjct: 20  DWEQRKLGKLVAVKSGKDYKT-----------LNKGDIPVFGTGGYITSVNKS---LSDV 65

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
             I  G+ G   +  I+        T F ++  + V    +   + +++         E 
Sbjct: 66  NAIGLGRKGTINKPYILKAPFWTVDTLFFLVPTQQVRLNFVYSLIQNVN----WLKYDES 121

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
             +     K I NI +      EQ  I   +      +     +  +  +L K   Q L+
Sbjct: 122 TGLPSLSKKNIQNILVFSTNYEEQNNIGNLLNLLEKLLSLQQRKLRQLKQLKKAMLQQLL 181

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL--SLSY 261
                  L P+V+  D    W        +      ++ +   K     +  IL  S  +
Sbjct: 182 VSK-KDRLTPNVRFSDFSGSW--------KKCKLGEVIQDYTEKTIVENQYPILTSSQQH 232

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
           G I+Q        +       Y I+  G   +R     ND         ++RGII+  Y 
Sbjct: 233 GIILQNEYFSGSRVSKTGNIGYFILPRGYFAYRNRS-DNDTYVFNRNDCIDRGIISRFYP 291

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
             KP+  DS +L   + +    ++  A     +  L  ++ K +    P ++EQ  I + 
Sbjct: 292 VFKPYNADSNFLLIRLNNGLRKELSLASEGTGQHVLSLKNFKNIQTQFPNLEEQHKIGDF 351

Query: 382 INVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           I+     ++ L+   ++   +L   +   +    
Sbjct: 352 IST----LNSLIALHQRKANILSNLKKFLLQKLF 381


>gi|93007188|ref|YP_581625.1| restriction modification system DNA specificity subunit
           [Psychrobacter cryohalolentis K5]
 gi|92394866|gb|ABE76141.1| restriction modification system DNA specificity domain
           [Psychrobacter cryohalolentis K5]
          Length = 413

 Score =  101 bits (251), Expect = 2e-19,   Method: Composition-based stats.
 Identities = 50/422 (11%), Positives = 121/422 (28%), Gaps = 34/422 (8%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQS-DTST 77
           + W+   I    K+  G   +S       +  I ++ ++         D   +     + 
Sbjct: 3   EDWREYTIDDVAKIINGYAFKSKDFISSGVPIIKIKSLKDKMLVIDNGDFVDKDFLKLNE 62

Query: 78  VSIFAKGQILYGKLGPYLR---------KAIIADFDGICSTQFLVLQPKDVLPELLQGWL 128
                    +    G ++                   + + +    + KD + +    + 
Sbjct: 63  KYHIQYDDFVIAMTGSHITLPSSAVGRVAKSRHKEKLLLNQRVGKFKVKDKICDHNFLYY 122

Query: 129 L---SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
                                ++     IG+I + +PPL  Q  I   + A    I+  I
Sbjct: 123 FLTTDYFFQNVGLRAKGAGNQANISNGDIGSIKIHLPPLPTQQKIASILSAYYDLIENNI 182

Query: 186 TERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEW-VGLVPDHWEVKPFFALVTEL 244
                      E+ Q +      +   P+ +      E  +    +   +    + +T+ 
Sbjct: 183 RRIELLE----EQAQLIYEEWFVRKKFPNYENTQIDAETGLPEGWEKKGLDYLCSKITDG 238

Query: 245 NRKNTKLIESNILSLSYGNIIQKLETRNMGL-----KPESYETYQIVDPGEIVFRFIDLQ 299
              + K +      ++  ++ + +              E       ++ G+I+F  I   
Sbjct: 239 THDSPKQVNHGCYLVTGKHLNKGIIDFESAYQISIEDHEKIRKRSGIEKGDILFSNIGTL 298

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKF 359
            +   +            +  +  K +  DS    +L    +  K+        ++    
Sbjct: 299 GN---IGVVTEDFEYSCKNVVIFKKKNCFDSFLYCYLTNPINKIKLDNQSSGVAQKFYSL 355

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
             ++R     P    Q  +    +     I  L  K+ Q   LL+E R   +   + G I
Sbjct: 356 SFIRRFQDFFP----QEPLIKKFDEIVQPIFELKYKLHQQNQLLQEARDILLPRLMMGII 411

Query: 420 DL 421
           ++
Sbjct: 412 EV 413



 Score = 61.0 bits (146), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 29/210 (13%), Positives = 71/210 (33%), Gaps = 10/210 (4%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIY----IGLEDVESGT 60
           K +P Y+++ +     +P+ W+   +       T  T +S K + +    +  + +  G 
Sbjct: 203 KKFPNYENTQIDAETGLPEGWEKKGLDYLCSKITDGTHDSPKQVNHGCYLVTGKHLNKGI 262

Query: 61  GKYLPKDGNSRQ--SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKD 118
             +      S +        S   KG IL+  +G      ++ +         ++ + K+
Sbjct: 263 IDFESAYQISIEDHEKIRKRSGIEKGDILFSNIGTLGNIGVVTEDFEYSCKNVVIFKKKN 322

Query: 119 VLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
                L  +L +     +++    G            +          Q  + +K     
Sbjct: 323 CFDSFLYCYLTNPINKIKLDNQSSGVAQKFYSL----SFIRRFQDFFPQEPLIKKFDEIV 378

Query: 179 VRIDTLITERIRFIELLKEKKQALVSYIVT 208
             I  L  +  +  +LL+E +  L+  ++ 
Sbjct: 379 QPIFELKYKLHQQNQLLQEARDILLPRLMM 408


>gi|297528757|ref|YP_003670032.1| restriction modification system DNA specificity domain protein
           [Geobacillus sp. C56-T3]
 gi|297252009|gb|ADI25455.1| restriction modification system DNA specificity domain protein
           [Geobacillus sp. C56-T3]
          Length = 404

 Score =  101 bits (251), Expect = 2e-19,   Method: Composition-based stats.
 Identities = 62/387 (16%), Positives = 130/387 (33%), Gaps = 37/387 (9%)

Query: 45  GKDIIYIGLEDVESGTGKYLP-KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADF 103
              I  +  +++ +    +   +    +++     S    G IL+ K+G     A + D 
Sbjct: 38  DDGIPVLQGKNISNFQFNFSDIRYITPQKAQELIRSKVEVGDILFVKIGSIGYSAEVTDL 97

Query: 104 DGI------CSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNI 157
           +G        +   + +    V    L  WL S  V   ++               I  I
Sbjct: 98  NGYPFAIIPANLAKVSIDYSKVDKNYLLFWLRSDTVVNYLKKNASKTAQPALSLGKIKQI 157

Query: 158 PMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKM 217
           P+ +P L  Q  I   ++     ID    +     +L +     +    VT        +
Sbjct: 158 PVVMPSLETQKKISAVLLKAQELIDKRKAQIEALDQLTQSVFLEMFGDPVTNKTWERRPL 217

Query: 218 KDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ-KLETRNMGLK 276
           KD                     V +    + K + +    ++  NI   K++  N+   
Sbjct: 218 KDIA------------------DVRDGTHDSPKYVPNGYPLVTSKNIKNGKIDLSNVNYI 259

Query: 277 PES----YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
            E           VD G+I+   I    +   +   +     I   A +      + + Y
Sbjct: 260 SEEDFININKRSKVDVGDIIMPMIGTIGNP--IIVDEQPNFAIKNVALIKFNNPLVVNIY 317

Query: 333 LAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
           L +L+ S+ L  +       G ++ L   D++ + + +PP   Q   + ++     +ID 
Sbjct: 318 LKYLLDSHYLDYILNKNKRGGTQKFLSLTDIRNMEIPLPPRDLQDKFSEIV----KKIDS 373

Query: 392 LVEKIEQSIVLLKERRSSFIAAAVTGQ 418
               + +S+  L++  +S +  A  G+
Sbjct: 374 QKSILHKSLRELEKNFNSLMQRAFKGE 400



 Score = 69.4 bits (168), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 32/170 (18%), Positives = 64/170 (37%), Gaps = 11/170 (6%)

Query: 247 KNTKLIESNILSLSYGN----IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK 302
           K    ++  I  L   N         + R +  +         V+ G+I+F  I      
Sbjct: 32  KVKDYVDDGIPVLQGKNISNFQFNFSDIRYITPQKAQELIRSKVEVGDILFVKIGSIGYS 91

Query: 303 RSLRSAQVMERGII--TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKF 359
             +         II    A +++    +D  YL + +RS  +        S   + +L  
Sbjct: 92  AEVTDLNGYPFAIIPANLAKVSIDYSKVDKNYLLFWLRSDTVVNYLKKNASKTAQPALSL 151

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
             +K++PV++P ++ Q  I+ V+     +   L++K +  I  L +   S
Sbjct: 152 GKIKQIPVVMPSLETQKKISAVL----LKAQELIDKRKAQIEALDQLTQS 197



 Score = 65.6 bits (158), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 31/197 (15%), Positives = 66/197 (33%), Gaps = 11/197 (5%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESG---KDIIYIGLEDVESGTGKYLPKDGNSRQS--DTST 77
           K W+  P+K    +  G              +  +++++G       +  S +   + + 
Sbjct: 210 KTWERRPLKDIADVRDGTHDSPKYVPNGYPLVTSKNIKNGKIDLSNVNYISEEDFININK 269

Query: 78  VSIFAKGQILYGKLGPYLRKAIIAD--FDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
            S    G I+   +G      I+ +     I +   +      V+   L+  L S  +  
Sbjct: 270 RSKVDVGDIIMPMIGTIGNPIIVDEQPNFAIKNVALIKFNNPLVVNIYLKYLLDSHYLDY 329

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            +     G T        I N+ +P+PP   Q    E       +ID+  +   + +  L
Sbjct: 330 ILNKNKRGGTQKFLSLTDIRNMEIPLPPRDLQDKFSEI----VKKIDSQKSILHKSLREL 385

Query: 196 KEKKQALVSYIVTKGLN 212
           ++   +L+       L 
Sbjct: 386 EKNFNSLMQRAFKGELF 402


>gi|281424443|ref|ZP_06255356.1| type I restriction enzyme EcoAI specificity protein [Prevotella
           oris F0302]
 gi|281401429|gb|EFB32260.1| type I restriction enzyme EcoAI specificity protein [Prevotella
           oris F0302]
          Length = 382

 Score =  101 bits (251), Expect = 2e-19,   Method: Composition-based stats.
 Identities = 44/298 (14%), Positives = 92/298 (30%), Gaps = 9/298 (3%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
            +P++W+   +       +G T         G +I ++   D+  G    +P     +  
Sbjct: 70  EVPENWEWTTLGEIGTWQSGATPSRLRKDYYGGNIPWLKTGDLNDGLITDIPDFITQKAL 129

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
           + ++V +   G IL    G  + K  I  F    +         D   E +  +   +  
Sbjct: 130 EETSVKLNPIGSILIAMYGATIGKIGILTFPATTNQACCAC--SDYKIEQMYLFYFLLAN 187

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            +   A+  G    +   + I    MP+PPL EQ  I  +I      ID +   +     
Sbjct: 188 KKVFIAMGGGGAQPNISKEKIAVTFMPLPPLTEQQRIVVEIERWFKLIDAIDQSKAHLQT 247

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWV-GLVPDHWEVKPFFALVTELNRKNTKLI 252
            + + K  ++   +   L P     +   E +  + P               ++   + I
Sbjct: 248 TITQTKSKILDLAIHGKLVPQDPNDEPASELLKRINPKAEIACDNEHSRKLHSKGWVQCI 307

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
            +++ ++  G                            I   F      K +  ++ V
Sbjct: 308 LNDVFTIIMGQSPDGNSINEKNGIEFHQGKLFFSSEETIKISFYTTSPIKIAKPNSLV 365



 Score = 74.8 bits (182), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 34/200 (17%), Positives = 64/200 (32%), Gaps = 13/200 (6%)

Query: 227 LVPDHWEVKPFFALVTELNRKNT-----KLIESNILSLSYGNIIQKLETRNMGLKPESYE 281
            VP++WE      + T  +              NI  L  G++   L T       +   
Sbjct: 70  EVPENWEWTTLGEIGTWQSGATPSRLRKDYYGGNIPWLKTGDLNDGLITDIPDFITQKAL 129

Query: 282 TYQIVD---PGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
               V     G I+         K  + +           A  A   + I+  YL + + 
Sbjct: 130 EETSVKLNPIGSILIAMYGATIGKIGILTF----PATTNQACCACSDYKIEQMYLFYFLL 185

Query: 339 SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
           +          G G + ++  E +    + +PP+ EQ  I   I      ID + +    
Sbjct: 186 ANK-KVFIAMGGGGAQPNISKEKIAVTFMPLPPLTEQQRIVVEIERWFKLIDAIDQSKAH 244

Query: 399 SIVLLKERRSSFIAAAVTGQ 418
               + + +S  +  A+ G+
Sbjct: 245 LQTTITQTKSKILDLAIHGK 264



 Score = 37.5 bits (85), Expect = 4.5,   Method: Composition-based stats.
 Identities = 9/73 (12%), Positives = 20/73 (27%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           K W    +     +  G++ +        G+E  +        +        TS + I  
Sbjct: 301 KGWVQCILNDVFTIIMGQSPDGNSINEKNGIEFHQGKLFFSSEETIKISFYTTSPIKIAK 360

Query: 83  KGQILYGKLGPYL 95
              ++     P  
Sbjct: 361 PNSLVLCVRAPVG 373


>gi|171779404|ref|ZP_02920368.1| hypothetical protein STRINF_01249 [Streptococcus infantarius subsp.
           infantarius ATCC BAA-102]
 gi|171282021|gb|EDT47452.1| hypothetical protein STRINF_01249 [Streptococcus infantarius subsp.
           infantarius ATCC BAA-102]
          Length = 416

 Score =  101 bits (251), Expect = 2e-19,   Method: Composition-based stats.
 Identities = 52/405 (12%), Positives = 120/405 (29%), Gaps = 25/405 (6%)

Query: 24  HWKVVPIKRFTK-----LNTGRTSES-GKDIIYIGLEDVESGTGK-YLPKDGNSRQSDTS 76
            W+   +    +          T     +   Y+   +V+ G          N    +  
Sbjct: 19  DWEQRKLSDIYRDIGNAFVGTATPYYVEEGHFYLESNNVKDGQINHNTEVFINDEFYEKQ 78

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADF--DGICSTQFLVLQPKDVLPELLQGWLLSI-DV 133
                  G ++  + G     A+I +           +   PK  +      +       
Sbjct: 79  KDKWLHTGDMVMVQSGHVGHAAVIPEELDCSAAHALIMFRNPKFKIEPYFLNYQYQTVKA 138

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            ++IE I  G T+ H     +    + +    EQ  I          +D+LIT   R + 
Sbjct: 139 KKKIENITTGNTIKHILASEMQKFIVDVASYDEQEKIAGF----FSHLDSLITLHQRKLN 194

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
            LK  K+A++  +  K      +++ SG           ++                 +E
Sbjct: 195 GLKNVKKAMLEKMFPKNGESVPEIRFSGFTDDWEQRKLSDIYRDIGNAFVGT-ATPYYVE 253

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESY----ETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
                L   N+       N  +         +  + +  G++V           ++   +
Sbjct: 254 EGHFYLESNNVKDGQINHNTEVFINDEFYEKQKDKWLHTGDMVMVQSGHVGH-AAVIPEE 312

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVL 368
           +                 I+  +L +  ++    K    + +G   + +   ++++  V 
Sbjct: 313 LDCSAAHALIMFRNPKFKIEPYFLNYQYQTVKAKKKIENITTGNTIKHILASEMQKFIVD 372

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           V    EQ  I        + +D L+   ++ +  LK  + + +  
Sbjct: 373 VASYDEQEKIAGF----FSHLDSLITLHQRKLDKLKTVKKAMLEK 413


>gi|24375748|ref|NP_719791.1| type I restriction-modification system, S subunit [Shewanella
           oneidensis MR-1]
 gi|24350691|gb|AAN57235.1|AE015859_4 type I restriction-modification system, S subunit [Shewanella
           oneidensis MR-1]
          Length = 495

 Score =  101 bits (251), Expect = 2e-19,   Method: Composition-based stats.
 Identities = 69/455 (15%), Positives = 151/455 (33%), Gaps = 62/455 (13%)

Query: 21  IPKHWKVVPIKRFTKLNTG------RTSESGKDIIYIGLEDVE----SGTGKYLPKDGNS 70
           IP+ W    +     + +G         ++  D     + DV     S  G         
Sbjct: 5   IPEGWFSAVLGNAVDVKSGVGFPKKYQGKNSGDYPVYKVGDVSIAVTSKYGGLSEAGHYV 64

Query: 71  RQSDTSTVS--IFAKGQILYGKLGP--YLRKAIIADFDGICSTQFLVLQPKDVLPELLQG 126
            QS+   +   IF +G  L+ K+G    L +    + +G+     + + P     +    
Sbjct: 65  SQSEAEELKGVIFREGTTLFAKIGEAVKLNRRAFVERNGLADNNVMAVVPNYTEMDRFIY 124

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           + +       +       T+       I  + +  PPLAEQ +I +K+     ++++   
Sbjct: 125 YFMRTVNLSDVS---RSTTVPSVRKGDIEELVISYPPLAEQKVIADKLDELLGQVESTKA 181

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLN---------------------PDVKMKDSG---- 221
                  +LK  +Q++++  V+  L                          +K  G    
Sbjct: 182 RLDAIPAILKSFRQSVLAAAVSGKLTEKWRDRNNSEMVHGGELYSLAKKHHLKFYGKKYK 241

Query: 222 ---------IEWVGLVPDHWEVKPFFALVTELNRK---NTKLIESNILSLSYGNIIQKLE 269
                    +E +     +  V       +E+          ++  I  +   +I     
Sbjct: 242 APEPLDLRMLETLPQGWVYGVVSHLVEPGSEIMYGIVQPGPKLDEGIPYVRGTDIQNGQI 301

Query: 270 TRNMGLKPESYETYQI----VDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT-SAYMAVK 324
             +  +K       +     +   +I+   I     K ++   ++    I   +A + V 
Sbjct: 302 LVHQLMKTSPEIAKKYERATLSGNDILLGIIRAT--KVAIVPDELKGANITQGTARLRVF 359

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
              +   YLA  + S  +    ++   G+    L  +DV+RLP+ +P  +EQ +I   + 
Sbjct: 360 EGVLTYKYLAIYLESPKVQSWLHSNYRGIDMPGLNLKDVRRLPIALPSKEEQTEIVRRVE 419

Query: 384 VETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
                 D +  ++  + + +     S +A A  G+
Sbjct: 420 DLFVFADKVEAQVNAAQLRVNNLTQSILAKAFRGE 454



 Score = 50.6 bits (119), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 27/210 (12%), Positives = 69/210 (32%), Gaps = 11/210 (5%)

Query: 18  IGAIPKHWKVVPIKRFTK----LNTGRT---SESGKDIIYIGLEDVESGTGKYLPK-DGN 69
           +  +P+ W    +    +    +  G      +  + I Y+   D+++G          +
Sbjct: 251 LETLPQGWVYGVVSHLVEPGSEIMYGIVQPGPKLDEGIPYVRGTDIQNGQILVHQLMKTS 310

Query: 70  SRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGI-CSTQFLVLQPKDVLPELLQ--G 126
              +     +  +   IL G +       +  +  G   +     L+  + +        
Sbjct: 311 PEIAKKYERATLSGNDILLGIIRATKVAIVPDELKGANITQGTARLRVFEGVLTYKYLAI 370

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           +L S  V   + +   G  M   + K +  +P+ +P   EQ  I  ++    V  D +  
Sbjct: 371 YLESPKVQSWLHSNYRGIDMPGLNLKDVRRLPIALPSKEEQTEIVRRVEDLFVFADKVEA 430

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVK 216
           +       +    Q++++      L  + +
Sbjct: 431 QVNAAQLRVNNLTQSILAKAFRGELTAEWR 460


>gi|257437916|ref|ZP_05613671.1| putative toxin-antitoxin system, toxin component [Faecalibacterium
           prausnitzii A2-165]
 gi|257199576|gb|EEU97860.1| putative toxin-antitoxin system, toxin component [Faecalibacterium
           prausnitzii A2-165]
          Length = 381

 Score =  101 bits (251), Expect = 2e-19,   Method: Composition-based stats.
 Identities = 54/402 (13%), Positives = 127/402 (31%), Gaps = 39/402 (9%)

Query: 29  PIKRFTKLNTGR-TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
            +     +N    T     ++ +I +  V    G++   +  +        + F  G IL
Sbjct: 3   KLGEVCLINPKSCTLRDDTEVSFIPMTKVGEH-GEFDASEIKNYSEVKKGFTNFQNGDIL 61

Query: 88  YGKLGPYLRKA------IIADFDGICSTQFLVLQPKDV--LPELLQGWLLSIDVTQRIEA 139
           + K+ P +          + +  G  ST+F VL+P       E L          +  E 
Sbjct: 62  FAKITPCMENGKGAIAHNMKNGIGFGSTEFHVLRPDTDKITSEWLYYLTTWKAFRKEAER 121

Query: 140 ICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
              G+          + N  + +P +  Q    + +      I     +  +  EL    
Sbjct: 122 NMTGSAGQKRVPKTFLENYVVNLPDIDTQKSENKILRKVDDLIFLRKQQLAKLDEL---- 177

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
              + +  V    + +V  K      +G +           +     R   + +   I  
Sbjct: 178 ---VKARFVEMFGDINVNNKKWMTYPLGEL--------CTIVRGGSPRPIERYLGGTIPW 226

Query: 259 LSYGNIIQKLETR----NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
           +  G+               +  E  +  +++  G ++F    +      + +      G
Sbjct: 227 IKIGDATTGENIYLNSTKEYIIQEGVKKSRMIKAGSLIFANCGVSLGFARIITFD----G 282

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIK 373
            I   ++A++        +  L     + + F     +G + +L    +K    +VPP++
Sbjct: 283 CIHDGWLAMEDIDEKLDKIFLLYSLNQMTEYFRKTAPAGTQPNLNTNIMKMHRQIVPPME 342

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            Q    + +       D   + ++QS+  L+  + + +    
Sbjct: 343 MQKAFISFVKCA----DRQKQIVQQSLEKLELMKKALMQEYF 380



 Score = 62.1 bits (149), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 31/198 (15%), Positives = 60/198 (30%), Gaps = 9/198 (4%)

Query: 15  VQWIGAIPKH---WKVVPIKRFTKLNTGRTSES-----GKDIIYIGLEDVESGTGKYLP- 65
           V+  G I  +   W   P+     +  G +        G  I +I + D  +G   YL  
Sbjct: 183 VEMFGDINVNNKKWMTYPLGELCTIVRGGSPRPIERYLGGTIPWIKIGDATTGENIYLNS 242

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ 125
                 Q       +   G +++   G  L  A I  FDG     +L ++  D   + + 
Sbjct: 243 TKEYIIQEGVKKSRMIKAGSLIFANCGVSLGFARIITFDGCIHDGWLAMEDIDEKLDKIF 302

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
                  +T+         T  + +   +      +PP+  Q      +     +   + 
Sbjct: 303 LLYSLNQMTEYFRKTAPAGTQPNLNTNIMKMHRQIVPPMEMQKAFISFVKCADRQKQIVQ 362

Query: 186 TERIRFIELLKEKKQALV 203
               +   + K   Q   
Sbjct: 363 QSLEKLELMKKALMQEYF 380


>gi|317405485|gb|EFV85794.1| type I restriction-modification system [Achromobacter xylosoxidans
           C54]
          Length = 801

 Score =  101 bits (251), Expect = 2e-19,   Method: Composition-based stats.
 Identities = 56/491 (11%), Positives = 129/491 (26%), Gaps = 102/491 (20%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESG--------KDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           +P+ W+ V +    ++  G T              +  +   +++     +         
Sbjct: 87  LPQGWEWVRLGELAEIIRGVTYSKSQSNEIRFHDSVELLRANNIQ-DVINFQGTVFVPIS 145

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAI-----IADFDGICSTQFLVLQPKDVLPELLQG- 126
             +    I   G IL                  A+ +        V++P           
Sbjct: 146 LVSEAQKI-KNGDILIAMSSGSSHLVGKAAQFNANRECTFGAFCAVIRPLYASQFEYFRI 204

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR------ 180
           +  +     +     +G  + + + + + N+ +  PP+ EQ  I  KI     R      
Sbjct: 205 FSKTPLYRSQTRQEGKGIGIQNLNKEALENLLVAAPPMDEQHRIVAKIDELMARCDKLEK 264

Query: 181 -----------------------------------IDTLITERIRFIELLKEKKQALVSY 205
                                              +     E     E + E ++A++  
Sbjct: 265 LRTAQQEARLTVHAAAIKQLLNIAKPGQHQRAQTFLAEHFGELYTVKENVAELRKAILQL 324

Query: 206 IVTKGLNPDVK-------------------------------MKDSGIEWVGLVPDHWEV 234
            V   L P                                     +  E    +P  W  
Sbjct: 325 AVMGKLVPQEPGDQPASKLLQEIEAEKQRLIEGGRIKIPKSLPPVTEEEKPYALPQGWVW 384

Query: 235 KPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET---------YQI 285
           +    L    +   +     +        +++          P+  +             
Sbjct: 385 ERLGNLALSSDSGWSPQCLPSARKGQEWGVLKVSAVSWGKFNPDENKALPASQNPRLDCE 444

Query: 286 VDPGEIVFRFIDLQNDK-RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR-SYDLC 343
           V  G+ +    +      RS+    V    +++   +        +     ++       
Sbjct: 445 VKSGDFLISRANTDELVARSVVVDDVPPHLMMSDKIVRFTFSCNVNKTFLNIVNGVPYSR 504

Query: 344 KVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
             +    SG     +++  E +  LPV +PP++EQ  I   I+      D L ++I+ +I
Sbjct: 505 AYYMENASGTSSSMKNVSRETMSLLPVSLPPLQEQRRIVAKIDELKDFCDFLEQQIDAAI 564

Query: 401 VLLKERRSSFI 411
               E  ++ +
Sbjct: 565 SKQVELLNALM 575



 Score = 72.9 bits (177), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 43/250 (17%), Positives = 69/250 (27%), Gaps = 52/250 (20%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNR-------KNTKLIESNILSLSYGNIIQKLETRNM 273
             E    +P  WE      L   +          N      ++  L   NI   +  +  
Sbjct: 80  EEEKPYSLPQGWEWVRLGELAEIIRGVTYSKSQSNEIRFHDSVELLRANNIQDVINFQGT 139

Query: 274 GLKPESY-ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
              P S     Q +  G+I+       +      +     R     A+ AV      S +
Sbjct: 140 VFVPISLVSEAQKIKNGDILIAMSSGSSHLVGKAAQFNANRECTFGAFCAVIRPLYASQF 199

Query: 333 LAW--LMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
             +    ++          G G+  Q+L  E ++ L V  PP+ EQ  I   I+   AR 
Sbjct: 200 EYFRIFSKTPLYRSQTRQEGKGIGIQNLNKEALENLLVAAPPMDEQHRIVAKIDELMARC 259

Query: 390 DVLVEKIEQS-----------IVLL------------------------------KERRS 408
           D L +                I  L                               E R 
Sbjct: 260 DKLEKLRTAQQEARLTVHAAAIKQLLNIAKPGQHQRAQTFLAEHFGELYTVKENVAELRK 319

Query: 409 SFIAAAVTGQ 418
           + +  AV G+
Sbjct: 320 AILQLAVMGK 329


>gi|99078515|ref|YP_611773.1| restriction modification system DNA specificity subunit [Ruegeria
           sp. TM1040]
 gi|99035653|gb|ABF62511.1| type I restriction-modification system; S subunit [Ruegeria sp.
           TM1040]
          Length = 387

 Score =  101 bits (251), Expect = 2e-19,   Method: Composition-based stats.
 Identities = 49/397 (12%), Positives = 120/397 (30%), Gaps = 22/397 (5%)

Query: 30  IKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           +    ++  G T +         DI +  ++D +S +               S   +   
Sbjct: 6   LGELVEIRGGGTPDKKVPDYWDGDIPWASVKDFKSTSLASTIDRITQAGVANSATQVIPA 65

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
           G I+         KA I + D   +     L P   +          +   + +E    G
Sbjct: 66  GNIIVPTRMAV-GKAAINEIDLAINQDLKALIPSQRIDRQ-YLLHALLANAKTLEDQATG 123

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           AT+       + ++ +P+PPL EQ  I   +               +   L     QA+ 
Sbjct: 124 ATVKGIKLDALRSLQIPLPPLQEQRRIAGILDQADALRRFRTRALDKLGTLG----QAIF 179

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
             +     +PD        E + L             V +    + + +    ++     
Sbjct: 180 HEMFGAS-SPDHAAW----EKINLSELVLPDDRINYGVVQPGPHDPEGVPIIRVADLASP 234

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
           ++     + +    ++      +  GE++   +                      A + +
Sbjct: 235 VVAFDSIKRIAPSIDAEYGRSRLKGGEVLIGCVGSIGTTIIAPPEFAGANVARAVARVPL 294

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
                +  ++A  +RS  +   F        + +L  + ++   +++PP + Q      +
Sbjct: 295 DTSRCEPRFVAEQLRSQRIQNYFTKEVRLVAQPTLNIKQIRETEIILPPKELQVSFVERV 354

Query: 383 NVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
           +     I+    +   ++       +S  + A  G++
Sbjct: 355 H----EIEAQKAQHAAALTACDVLFASLQSTAFRGEV 387


>gi|200386888|ref|ZP_03213500.1| putative type I restriction-modification system, S subunit
           [Salmonella enterica subsp. enterica serovar Virchow
           str. SL491]
 gi|199603986|gb|EDZ02531.1| putative type I restriction-modification system, S subunit
           [Salmonella enterica subsp. enterica serovar Virchow
           str. SL491]
          Length = 586

 Score =  101 bits (251), Expect = 3e-19,   Method: Composition-based stats.
 Identities = 57/491 (11%), Positives = 134/491 (27%), Gaps = 96/491 (19%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDV 56
           +K  K  P+   S  +    +P  W+ V +    + N G T             +   ++
Sbjct: 83  IKKQKPLPEI--SEEEKPFELPVGWEWVRLGDIGETNIGLTYSPNNIKETGTPVLRSSNI 140

Query: 57  ESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGP----YLRKAIIADFDGICSTQFL 112
           ++G   +          +    S    G +L            + A+I       +    
Sbjct: 141 QNGILDFTDL-VRVSGMEIKNSSYVEDGDLLICARNGSKTLVGKNALINSLSEPMAFGAF 199

Query: 113 VLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQV---- 168
           +   +      ++ +L S    + ++ +    T++      + +  +P PP  EQ     
Sbjct: 200 MAIFRCSYNNYVKIFLDSPSFRRNLDGVDT-TTINQITQSNLKHTLIPFPPEIEQEKIKN 258

Query: 169 -------------------------------------LIREKIIAETVRIDTLITERIRF 191
                                                   +++     RI          
Sbjct: 259 TVFELISLCDQLEQHSLTSLDAHQQLVETLLTKLTDSQNADELAENWARISEHFDTLFTT 318

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKD-------------------------------S 220
              +   KQ ++   V   L P     +                               S
Sbjct: 319 EASIDALKQTILQLAVMGKLVPQDPNDEPASELLKRIAQEKAQLVKDGKIKKQKPLPPIS 378

Query: 221 GIEWVGLVPDHWEVKPFFALVT----ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK 276
             E    +P+ WE      L         +   + ++++   L   N+ +     +   +
Sbjct: 379 DEEKPFELPEGWEWCCINDLTFVSGGIQKQPKRRPVKNHFPYLRVANVQRGNINIDELER 438

Query: 277 PESYE---TYQIVDPGEIVF--RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI-DS 330
            E      T+  +   +I+            R       +E+ +  +  + V+       
Sbjct: 439 FELESHELTFWSLKKNDILIVEGNGSADEIGRCAIWLAPIEKCVYQNHLIRVRGIMEGYQ 498

Query: 331 TYLAWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
            ++A  + S    K    +   +    +L    ++ + + +PP+ +Q  I + I      
Sbjct: 499 EFIALYLNSPSGIKEMQRLAVTTSGLYNLSVGKIRGIKIPLPPLNQQNLILSKIREYIFI 558

Query: 389 IDVLVEKIEQS 399
            D L   I+ +
Sbjct: 559 CDNLKISIQSA 569



 Score = 69.1 bits (167), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 23/200 (11%), Positives = 56/200 (28%), Gaps = 5/200 (2%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNR---KNTKLIESNILSLSYGNIIQKLETRN--MG 274
           S  E    +P  WE      +             + E+    L   NI   +      + 
Sbjct: 93  SEEEKPFELPVGWEWVRLGDIGETNIGLTYSPNNIKETGTPVLRSSNIQNGILDFTDLVR 152

Query: 275 LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
           +     +    V+ G+++    +         +        +             + Y+ 
Sbjct: 153 VSGMEIKNSSYVEDGDLLICARNGSKTLVGKNALINSLSEPMAFGAFMAIFRCSYNNYVK 212

Query: 335 WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
             + S    +    + +     +   ++K   +  PP  EQ  I N +    +  D L +
Sbjct: 213 IFLDSPSFRRNLDGVDTTTINQITQSNLKHTLIPFPPEIEQEKIKNTVFELISLCDQLEQ 272

Query: 395 KIEQSIVLLKERRSSFIAAA 414
               S+   ++   + +   
Sbjct: 273 HSLTSLDAHQQLVETLLTKL 292



 Score = 56.3 bits (134), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 31/200 (15%), Positives = 61/200 (30%), Gaps = 20/200 (10%)

Query: 20  AIPKHWKVVPIKRFTKLNTG-----RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
            +P+ W+   I   T ++ G     +         Y+ + +V+ G       +    +S 
Sbjct: 385 ELPEGWEWCCINDLTFVSGGIQKQPKRRPVKNHFPYLRVANVQRGNINIDELERFELESH 444

Query: 75  TSTVSIFAKGQILY----GKLGPYLRKAII---ADFDGICSTQFLVLQPKDVLPELLQGW 127
             T     K  IL     G      R AI     +     +    V    +   E +  +
Sbjct: 445 ELTFWSLKKNDILIVEGNGSADEIGRCAIWLAPIEKCVYQNHLIRVRGIMEGYQEFIALY 504

Query: 128 LLSID-VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           L S   + +        + + +     I  I +P+PPL +Q            +I   I 
Sbjct: 505 LNSPSGIKEMQRLAVTTSGLYNLSVGKIRGIKIPLPPLNQQ-------NLILSKIREYIF 557

Query: 187 ERIRFIELLKEKKQALVSYI 206
                   ++  +Q  +   
Sbjct: 558 ICDNLKISIQSAQQTQLHLA 577


>gi|312879438|ref|ZP_07739238.1| restriction modification system DNA specificity domain [Aminomonas
           paucivorans DSM 12260]
 gi|310782729|gb|EFQ23127.1| restriction modification system DNA specificity domain [Aminomonas
           paucivorans DSM 12260]
          Length = 392

 Score =  101 bits (251), Expect = 3e-19,   Method: Composition-based stats.
 Identities = 68/384 (17%), Positives = 121/384 (31%), Gaps = 32/384 (8%)

Query: 24  HWKVVPIKRFTKLNT--GRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
            WK+V      K      R  E+      +GLE ++        +  +     TS    F
Sbjct: 9   GWKMVKFGEVVKNANLAERDPEAHGIERIVGLEHLDPENLHI--RRWDPVSEGTSFTRRF 66

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV---LPELLQGWLLSIDVTQRIE 138
             GQ L+GK   Y RK   A+F+GICS   L  +PKD    LPELL     S        
Sbjct: 67  VPGQTLFGKRRAYQRKVAYAEFEGICSGDILTFEPKDRKVLLPELLPWICQSNAFFDHAL 126

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
               G+      W  + N   P+PPL EQ  I E + A    +              + +
Sbjct: 127 GTSAGSLSPRTSWTALKNFEFPLPPLEEQKRIAEILWAADEAVSAYQEALTLIHITAQTR 186

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
            +  ++ +    L        S ++ +   P+     P           ++      +LS
Sbjct: 187 LEHTLNTLNCSEL--------SLLDVLSGSPESGCSAP----------PSSNETGHWVLS 228

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
           L+  +    +      +   +      +  G+++    +  +              +   
Sbjct: 229 LAALSANGYVRGNLKPVAKTNKMVACTLSKGDLLISRSNTIDLVGFAGIFNEDRPDVSFP 288

Query: 319 AYMAVKP---HGIDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPI 372
             +   P         YL  ++ S    +      SG     + +  + +      VP +
Sbjct: 289 DTIIRLPVNTQKALPDYLELVLLSNRGRRHMMKTASGTSSSMKKINRKILFEFKFPVPGL 348

Query: 373 KEQFDITNVINVETARIDVLVEKI 396
             Q  I    N +  R+   +   
Sbjct: 349 DTQERIVTEFNEQ-KRLRDAIANH 371



 Score = 63.3 bits (152), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 23/141 (16%), Positives = 46/141 (32%), Gaps = 12/141 (8%)

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
            L  R      E     +   PG+ +F        K +    +    GI +   +  +P 
Sbjct: 47  NLHIRRWDPVSEGTSFTRRFVPGQTLFGKRRAYQRKVAYAEFE----GICSGDILTFEPK 102

Query: 327 GI---DSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
                    L W+ +S           +G       +  +K     +PP++EQ  I  ++
Sbjct: 103 DRKVLLPELLPWICQSNAFFDHALGTSAGSLSPRTSWTALKNFEFPLPPLEEQKRIAEIL 162

Query: 383 NVETARIDVLVEKIEQSIVLL 403
                  D  V   ++++ L+
Sbjct: 163 WAA----DEAVSAYQEALTLI 179


>gi|269978370|gb|ACZ55919.1| putative type I restriction-modification system specificity subunit
           S [Helicobacter pylori]
          Length = 412

 Score =  101 bits (251), Expect = 3e-19,   Method: Composition-based stats.
 Identities = 57/406 (14%), Positives = 125/406 (30%), Gaps = 31/406 (7%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           +PK  +   +    ++  G+     + +            GKY    G            
Sbjct: 12  VPKGVEFRKLGEVCEIIRGKRVTKKEIL----------DKGKYPVVSGGIGFMGYLNEYN 61

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
             +  I   + G         +     +     + PK+ L      ++L+          
Sbjct: 62  REENTITIAQYGT-AGFVNWQNQKFWANDVCFSVIPKETLINRYLYYVLTNMQNYLYSIS 120

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR---IDTLITERIRFIELLKE 197
              A         I  I +PIPPL  Q  I + + A T     ++T +   ++  +   E
Sbjct: 121 NRSAIPYSISSNNIMQITIPIPPLEIQQEIVKILDAFTELNTELNTELNTELKARKKQYE 180

Query: 198 KKQALVSYIVTKGLN-------PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
             Q ++       LN            K        L P   E +    +    N+K  K
Sbjct: 181 YYQNMLLDFKDIYLNHKDAKMSAKTYPKRLKTLLQTLAPKGVEFRKLGEVCESTNKKTLK 240

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
           + E + +       +        G   +        + GE +      +         + 
Sbjct: 241 ISEVSEVKNKGMYPVINSGRDLYGYYHDFN------NDGENITIASRGEYAGFINYFNEK 294

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP 370
              G +   Y     + + + +L + +++ ++  +   +  G   +L   D++ L + +P
Sbjct: 295 FFAGGLCYPYKVKDTNELLTKFLYFYLKTNEIQIMENLVFRGSIPALNKADIETLTIPIP 354

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           P++ Q +I  +++  +     L+  I   I   K+     R   + 
Sbjct: 355 PLEIQQEIVKILDQFSLLTTDLLAGIPAEIKARKKQYEYYREKLLT 400


>gi|301801713|emb|CBW34419.1| putative type I RM modification enzyme [Streptococcus pneumoniae
           INV200]
          Length = 373

 Score =  101 bits (251), Expect = 3e-19,   Method: Composition-based stats.
 Identities = 44/400 (11%), Positives = 117/400 (29%), Gaps = 39/400 (9%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V +     L  G+ +    +   +    ++    +       +   + +         
Sbjct: 2   KKVKLGEVLSLKKGKKATVLAEQTTLSQRYIQIDDLRNNNNLKFTESLNMTEAL---PDD 58

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW--LLSIDVTQRIEAICEG 143
           IL    G             + ST  ++ + +    +++  +  +     +Q +     G
Sbjct: 59  ILIAWDGANAGTVGYGLSGAVGSTITVLKKNERYKEKIISDYLGVFLESKSQYLRDHSTG 118

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           AT+ H +   + ++ + +  + EQ  I   +      I     +      L+        
Sbjct: 119 ATIPHLNKNILLDLQLELLGIEEQENIICILNTIKRLITKRKFQLDELNLLV-------- 170

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
                         K    E     PD   +  +   +        +    N +  +   
Sbjct: 171 --------------KSRFNEMFEEYPDSVFLDTYIKELRAGKSLAGEENNKNKVLKTGAV 216

Query: 264 IIQKLETRNMGLKPESYE--TYQIVDPGEIVFRFIDLQNDKR--SLRSAQVMERGIITSA 319
                 +  +   P  Y       V+ G+++   ++            A   +   +   
Sbjct: 217 SYDYFNSSEVKNLPIDYIPLDEHKVEIGDVIISRMNTSELVGAAGYVWAINSDNIYLPDR 276

Query: 320 YMAVKPHGIDSTYLAWLM----RSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
              V  +   +    W +    ++    K   +  SG  +++    + ++ V  PP+  Q
Sbjct: 277 LWKVILNDRVNPVFLWKLITNEKTKLKIKRISSGTSGSMKNISKSQLLQIRVPFPPLALQ 336

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            +  + +    A +D     I++S+  L+  + S +    
Sbjct: 337 NEFADFV----ALVDKSQLAIQKSLEELETLKKSLMQEYF 372


>gi|317485045|ref|ZP_07943927.1| type I restriction modification DNA specificity domain-containing
           protein [Bilophila wadsworthia 3_1_6]
 gi|316923580|gb|EFV44784.1| type I restriction modification DNA specificity domain-containing
           protein [Bilophila wadsworthia 3_1_6]
          Length = 432

 Score =  101 bits (250), Expect = 3e-19,   Method: Composition-based stats.
 Identities = 53/401 (13%), Positives = 118/401 (29%), Gaps = 32/401 (7%)

Query: 25  WKVVPIKRFT---KLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           W+ +P+ +        T R S S  D++ I + +++ G   +      + + D     + 
Sbjct: 34  WRNLPLSKICHAMTYGTARKSSSEGDVVVIRMGNLQGGEIIWSKLAYTTARDDIEKY-LL 92

Query: 82  AKGQILYGKLGP---YLRKAIIADFDGICSTQFLVLQPKDVLP----ELLQGWLLSIDVT 134
           + G IL+ +        + +I           +L+    D        L        +  
Sbjct: 93  SPGDILFNRTNSPELVGKTSIYRGERPAIYAGYLIRLDYDKNIIIGEYLNYVMNSQEERQ 152

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
              +    G   ++ + K IG   +P+PP+ EQ  I   +      ++     +     L
Sbjct: 153 FCADVRVNGVCQANINAKKIGAFSIPVPPIDEQQYIVSCLNELLPLVEEYGKSQSALHVL 212

Query: 195 LKEKK----QALVSYIVTKGLNPD---VKMKDSGIEWVGL----VPDHWEVKPFFALVTE 243
             E       +L+   +   L P        D   E        +P+ W+      +   
Sbjct: 213 ETELPGKLRASLLQQAIMGKLVPQLDDEPAVDIDAEEPEEVPFAIPEKWKWVRLRDIGAI 272

Query: 244 LNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKR 303
            +    K   +   S +    +   +      K  S     I   G +    + L     
Sbjct: 273 FSGATPKTNVTEYWSPAIVPWVTPADLGKNKKKTISCGERSISKKGYLSCSAVLLPKGSV 332

Query: 304 SLR-------SAQVMERGIITSAYMAVKPHGI--DSTYLAWLMRSYDLCKVFYAMGSGLR 354
                      A             ++ P+     S Y+ + + +     +         
Sbjct: 333 VYSSRAPIGHIAITENELATNQGCKSIAPNFEIVLSEYVYYGLIALTP-DIQSRASGTTF 391

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
             +  +        +PP+ EQ  I   +N     ++ +++ 
Sbjct: 392 LEISSKKFGETFFPLPPLAEQRRIITRLNELLPYLNSMIKN 432



 Score = 77.5 bits (189), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 32/227 (14%), Positives = 85/227 (37%), Gaps = 12/227 (5%)

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
           +L++Y +  GL+   + + +    +         K   A+     RK++   +  ++ + 
Sbjct: 9   SLITYAMKGGLSASWRKEHNYSFELWRNL--PLSKICHAMTYGTARKSSSEGDVVVIRMG 66

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
                + + ++             ++ PG+I+F   +           +     I     
Sbjct: 67  NLQGGEIIWSKLAYTTARDDIEKYLLSPGDILFNRTNSPELVGKTSIYRGERPAIYAGYL 126

Query: 321 MA--VKPHGIDSTYLAWLMRSYDLCKVFY--AMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
           +      + I   YL ++M S +  +      +    + ++  + +    + VPPI EQ 
Sbjct: 127 IRLDYDKNIIIGEYLNYVMNSQEERQFCADVRVNGVCQANINAKKIGAFSIPVPPIDEQQ 186

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLK-----ERRSSFIAAAVTGQ 418
            I + +N     ++    K + ++ +L+     + R+S +  A+ G+
Sbjct: 187 YIVSCLNELLPLVEEY-GKSQSALHVLETELPGKLRASLLQQAIMGK 232



 Score = 71.4 bits (173), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 32/177 (18%), Positives = 67/177 (37%), Gaps = 11/177 (6%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYL---PKDGNS 70
           IP+ WK V ++    + +G T ++          + ++   D+     K +    +  + 
Sbjct: 257 IPEKWKWVRLRDIGAIFSGATPKTNVTEYWSPAIVPWVTPADLGKNKKKTISCGERSISK 316

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
           +   + +  +  KG ++Y    P    AI  +     +     + P   +      +   
Sbjct: 317 KGYLSCSAVLLPKGSVVYSSRAPIGHIAITENELA-TNQGCKSIAPNFEIVLSEYVYYGL 375

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
           I +T  I++   G T      K  G    P+PPLAEQ  I  ++      ++++I  
Sbjct: 376 IALTPDIQSRASGTTFLEISSKKFGETFFPLPPLAEQRRIITRLNELLPYLNSMIKN 432


>gi|298248250|ref|ZP_06972055.1| restriction modification system DNA specificity domain protein
           [Ktedonobacter racemifer DSM 44963]
 gi|297550909|gb|EFH84775.1| restriction modification system DNA specificity domain protein
           [Ktedonobacter racemifer DSM 44963]
          Length = 550

 Score =  101 bits (250), Expect = 3e-19,   Method: Composition-based stats.
 Identities = 55/411 (13%), Positives = 125/411 (30%), Gaps = 32/411 (7%)

Query: 25  WKVVPIKRFT-KLNTGRTSESGK---DIIYIGLEDVE-SGTGKYLPKDGNSRQSDTSTVS 79
           W  V ++  T  L +G      +    I  +   +V   G          +  +      
Sbjct: 8   WPQVRLEEITTDLQSGFAQSPNETNQGIPQLRTNNVSAEGNLDLSDLIRVALPASEQDKY 67

Query: 80  IFAKGQILYGKLGP--YLRKAIIAD--FDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
           +  KG I++       ++ K    D   + + S     ++  + +            + +
Sbjct: 68  LLQKGDIIFNNTNSVEWVGKTAYFDLEEEFVFSNHMTRIRVDESIVNARFLARYLHYLWK 127

Query: 136 RIEAI---CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           +  +     +    +  D   +    +P+PPL EQ  I E +    +  +  +  + +  
Sbjct: 128 KGFSRSRSKQWVNQAAIDQSILALFKIPLPPLGEQQRIVEFLQQAEILRELRVVAKEKLK 187

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
                  ++L  Y    G+          ++ +   P  +   P  + + ++        
Sbjct: 188 T----VYRSLFYYHFGSGMPTKQYPITIKLKDLLDEPLVYGYSP--SEIHDIPSGTPVFT 241

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
            S I                   + +       +   +I+    +       +   +   
Sbjct: 242 LSAITDQGL-----NETQIKYTPESDYVGKGDDLKKDDILITRSNTSELVGKVARYRGKP 296

Query: 313 RGIITSAYMAVK--PHGIDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPV 367
             +I    M      +  DS Y+   +RS  +  +      G     + +   D+K   +
Sbjct: 297 SPVIYPDLMIRINLKNPQDSPYVENYLRSDAMTALIQRKARGTSGSMKKISQGDIKEFAI 356

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           L PP   +       + E   ID  +E +  S+  L+    S +  A TGQ
Sbjct: 357 LWPPEAARQAF----SREVELIDQQLETLSISLKQLETLFQSLLTCAFTGQ 403


>gi|313674356|ref|YP_004052352.1| restriction modification system DNA specificity domain [Marivirga
           tractuosa DSM 4126]
 gi|312941054|gb|ADR20244.1| restriction modification system DNA specificity domain [Marivirga
           tractuosa DSM 4126]
          Length = 505

 Score =  101 bits (250), Expect = 3e-19,   Method: Composition-based stats.
 Identities = 63/467 (13%), Positives = 126/467 (26%), Gaps = 76/467 (16%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + W  + + +   +N G++  S              G  ++       ++  T+      
Sbjct: 3   EDWIEIELGKICNINMGQSPPSSTYNDKGEGMPFFQGKAEFTELYPVVKKWCTAPKKTAK 62

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
              IL     P            I      +  P          W     + + ++    
Sbjct: 63  VNDILISVRAPVGATNKTNIDCAIGRGLAAITYPFGNN----YLWFYLKFIERALDDQGT 118

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           G T        + +  +P  PL EQ  +  KI      +D  I       E L+  +QA+
Sbjct: 119 GTTFKAISGNILKSQKIPFAPLPEQKSLVSKIEQLFSELDNGIANLKSAKEKLEVYRQAV 178

Query: 203 -------------------------VSYIVTKGLNPDVKMKDSG-----IEWV-----GL 227
                                    +S  +T G N   + +        +EW        
Sbjct: 179 LKKAFEGELTKEWRKKQTELPSAEDLSNQITFGRNKLYENQIKEWQQDLVEWNSKRKQYK 238

Query: 228 VPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG------------------------- 262
            P   +           +      I  + +    G                         
Sbjct: 239 KPSKPKKLDVPEPPNSDHENKKWNIPKSWIWTQLGVIAFITKLAGFEYTKYVSYSENGDL 298

Query: 263 ----------NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
                     N  ++     +  +  S+     +  GE++  F+       +L       
Sbjct: 299 PVIKAENAGLNGFKRTNYSKVKSEDVSFLKRSKLLGGELIIVFVGAGTGNVALVPKDQNY 358

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPP 371
                        +     +L    RS     +  A      + SL    +++ PV+ P 
Sbjct: 359 FLGPNIGMARPYLNVE-PRFLELFFRSNFGKNLMMATAKAVAQPSLSMGTIRQSPVVFPS 417

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           ++EQ  I + I    +  + L E I +S+   +  R S +  A +G+
Sbjct: 418 VREQRQIVSEIESRLSVSNKLAESINESLEKSEALRQSILKRAFSGE 464



 Score = 44.4 bits (103), Expect = 0.037,   Method: Composition-based stats.
 Identities = 26/203 (12%), Positives = 57/203 (28%), Gaps = 12/203 (5%)

Query: 21  IPKHWKVVPIKRF--------TKLNTGRTSESGKDIIYIGLED-VESGTGKYLPKDGNSR 71
           IPK W    +            +     +     D+  I  E+   +G  +       S 
Sbjct: 263 IPKSWIWTQLGVIAFITKLAGFEYTKYVSYSENGDLPVIKAENAGLNGFKRTNYSKVKSE 322

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAII--ADFDGICSTQFLVLQPKDVLPELLQGWLL 129
                  S    G+++   +G       +   D +        + +P   +         
Sbjct: 323 DVSFLKRSKLLGGELIIVFVGAGTGNVALVPKDQNYFLGPNIGMARPYLNVEPRFLELFF 382

Query: 130 SIDV-TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
             +     + A  +           I   P+  P + EQ  I  +I +     + L    
Sbjct: 383 RSNFGKNLMMATAKAVAQPSLSMGTIRQSPVVFPSVREQRQIVSEIESRLSVSNKLAESI 442

Query: 189 IRFIELLKEKKQALVSYIVTKGL 211
              +E  +  +Q+++    +  L
Sbjct: 443 NESLEKSEALRQSILKRAFSGEL 465


>gi|289433647|ref|YP_003463519.1| type I restriction-modification system, S subunit, putative
           [Listeria seeligeri serovar 1/2b str. SLCC3954]
 gi|289169891|emb|CBH26431.1| type I restriction-modification system, S subunit, putative
           [Listeria seeligeri serovar 1/2b str. SLCC3954]
          Length = 429

 Score =  101 bits (250), Expect = 3e-19,   Method: Composition-based stats.
 Identities = 50/415 (12%), Positives = 120/415 (28%), Gaps = 32/415 (7%)

Query: 23  KHWKVVPIKRFTKLNTGR----TSESGKDIIYIGLEDVES-----GTGKYLPKDGNSRQS 73
             W++  +     + + +    +  + K + ++   D+ S        +YL         
Sbjct: 20  NDWELRKLGGLMNITSVKRIHQSDWTDKGVRFLRARDIVSASKGKNPSEYLYISKKLYDE 79

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFD--GICSTQFLVLQPKDVLPELLQGWLLS- 130
            +        G +L   +G      +I   +         +  Q K  +      +  + 
Sbjct: 80  HSKISGKVGVGDLLVTGVGSIGIPMLIKHEEPLYFKDGNIIWFQNKKNIDGGFFYYSFNS 139

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
             + + I       T+        G  P+ +P   EQ  I         ++D  I    R
Sbjct: 140 HSIQKFIRDSAGIGTVGTYTIDSGGKTPIYLPNKKEQQRIGTF----FKQLDNTIALHQR 195

Query: 191 FIELLKEKKQALVSYIVTKGLN--PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN 248
            +E +K  K A +S +        P  +      +W     D+          +     +
Sbjct: 196 KLEKIKALKTAYLSEMFPAEGETKPKRRFAGFTDDWEQRKLDNSIKVMDGDRGSNYPHDS 255

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI----VDPGEIVFRFIDLQNDKRS 304
                 + L L  GN+ +     +        +  Q+    ++  + V        +   
Sbjct: 256 DFFDNGDTLFLDTGNVTKNGFKFDNVKYITKEKDGQLRAGKLEKNDFVLTSRGTLGNVGF 315

Query: 305 LRSAQVMERG---IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG--SGLRQSLKF 359
                        I ++  +        S      +   +L   F         +  +  
Sbjct: 316 YDKFVYKRHPKLRINSAMLILRNTDEQLSCSYLHTLLKGNLISDFMRKNQVGSAQPHITK 375

Query: 360 EDVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            +  +L + VP  +KEQ  I +        +D  +   ++ +  L+  + +++  
Sbjct: 376 SEFLKLDLNVPCDVKEQNKIGDF----FKNLDNTITLHQRKLQKLQNIKKAYLNE 426


>gi|218667989|ref|YP_002426767.1| type I restriction-modification system, S subunit
           [Acidithiobacillus ferrooxidans ATCC 23270]
 gi|218520202|gb|ACK80788.1| type I restriction-modification system, S subunit
           [Acidithiobacillus ferrooxidans ATCC 23270]
          Length = 383

 Score =  101 bits (250), Expect = 3e-19,   Method: Composition-based stats.
 Identities = 41/364 (11%), Positives = 102/364 (28%), Gaps = 23/364 (6%)

Query: 59  GTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKL----GPYLRKAIIADFDGICSTQFLVL 114
               +  K+  + Q +  +  +   G  +Y        P    +      G+ S  + V 
Sbjct: 28  DQRDFFDKEIAT-QGNLESYFVVELGSYVYNPRISATAPVGPISKNKVGTGVMSPLYTVF 86

Query: 115 QPKDVLPELLQGWLL---SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIR 171
           + KD   +  + +          ++  +                 +P+P+P   EQ  I 
Sbjct: 87  KFKDGGNDFYEHYFKTTGWHTYMRQASSTGARHDRMAISSDDFMAMPLPVPTPKEQQKIA 146

Query: 172 EKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDH 231
           E + +    +     +           K+ L+  +         +++    +  G     
Sbjct: 147 ECLSSVDALMAAQARKVDALKT----HKKGLMQQLFPTEGETQPRLRFPEFQNAGEWNKT 202

Query: 232 WEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEI 291
              +          ++   L       L  GN           L+ +  +     D G++
Sbjct: 203 TLGEAATFFNGRAYKQEELLESGKYPVLRVGNFFTNNNWYYSDLELDETK---YCDKGDL 259

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
           ++ +      +       +    I    +   +  GID  +L   + +        +   
Sbjct: 260 LYAWSASFGPRMWHGVKVIYHYHI----WKVEQHSGIDRQFLFITLENETERMKSNSANG 315

Query: 352 GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
                +    ++      P   EQ  I + +    + +D L+    Q +  LK  +   +
Sbjct: 316 LGLLHITKGTIEGWDTAFPSPPEQHRIASCL----SSLDALITLETQKLEALKTHKKGLM 371

Query: 412 AAAV 415
               
Sbjct: 372 QQLF 375



 Score = 62.9 bits (151), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 21/180 (11%), Positives = 40/180 (22%), Gaps = 2/180 (1%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W    +        GR  +  + +       +  G   +   +      +        K
Sbjct: 198 EWNKTTLGEAATFFNGRAYKQEELLESGKYPVLRVGNF-FTNNNWYYSDLELDETKYCDK 256

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
           G +LY          +      I       ++    +        L  +  +       G
Sbjct: 257 GDLLYAWS-ASFGPRMWHGVKVIYHYHIWKVEQHSGIDRQFLFITLENETERMKSNSANG 315

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
             + H     I       P   EQ  I   + +    I     +        K   Q L 
Sbjct: 316 LGLLHITKGTIEGWDTAFPSPPEQHRIASCLSSLDALITLETQKLEALKTHKKGLMQQLF 375


>gi|237755860|ref|ZP_04584456.1| type I restriction/modification specificity protein
           [Sulfurihydrogenibium yellowstonense SS-5]
 gi|237691971|gb|EEP60983.1| type I restriction/modification specificity protein
           [Sulfurihydrogenibium yellowstonense SS-5]
          Length = 381

 Score =  101 bits (250), Expect = 3e-19,   Method: Composition-based stats.
 Identities = 56/399 (14%), Positives = 116/399 (29%), Gaps = 32/399 (8%)

Query: 14  GVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK---DIIYIGLEDVESGTGKYLPKDGNS 70
            ++++G IP+ WK V +     +  G      K       I  + +++G   +      S
Sbjct: 6   EIEYVGDIPEGWKWVKLGEIADVRDGTHDSPKKVIDGKYLITSKHIKNGKIDFSKAYKIS 65

Query: 71  RQ--SDTSTVSIFAKGQILYGKLGPYLRKAII-ADFDGICSTQFLVLQPKDVLPELLQGW 127
                  +  S   K  IL+  +G      I+  + D       L       L + +  +
Sbjct: 66  LDDFEAINKRSKVDKYDILFSMIGTIGEMVIVDFEPDFAIKNVGLFKTGNKDLSKWIYYY 125

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
           L S +    I A  +G+T  +     + N P+ +PP  E+  I E + +   +I+ L  +
Sbjct: 126 LKSNEAQAEIRASLKGSTQQYITLGDLRNFPILLPPPPERKAIAEVLSSIDDKIELLHRQ 185

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK 247
                E+     +         GL    + K     ++                      
Sbjct: 186 NKTLEEMAMTLFRQWFIEPTKDGLPDGWEEKRLKDVYIFEK-------------GIEPGS 232

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
              L    I ++ +  +   L+ +      +      I +  +++  F            
Sbjct: 233 KNYLKTPGIDTVRFIRVGNMLDNKADVYVKKDLARNSICNFDDLLVSFDGTVGRVSFGLV 292

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAW---LMRSYDLCKVFYAMGSGLRQSLKFEDVKR 364
                 G  +S    +         L     +  S ++         G         +  
Sbjct: 293 ------GCYSSGIRKIYSKDEIYNKLWLKHQIFISEEIQDEINMHAEGTTILHASSSIDY 346

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
           L  + PP +    I    +     I   +   +  I  L
Sbjct: 347 LSFVFPPKE---KIEEY-DKFFDPIYKKILHNKAQIQTL 381



 Score = 77.9 bits (190), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 34/194 (17%), Positives = 72/194 (37%), Gaps = 15/194 (7%)

Query: 221 GIEWVGLVPDHWEVKPFFA--LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK-- 276
            IE+VG +P+ W+         V +    + K +      ++  +I       +   K  
Sbjct: 6   EIEYVGDIPEGWKWVKLGEIADVRDGTHDSPKKVIDGKYLITSKHIKNGKIDFSKAYKIS 65

Query: 277 ---PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL 333
               E+      VD  +I+F  I    +   +          I +  +    +   S ++
Sbjct: 66  LDDFEAINKRSKVDKYDILFSMIGTIGEMVIV---DFEPDFAIKNVGLFKTGNKDLSKWI 122

Query: 334 AWLMRSYDLCKVFYAM-GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            + ++S +      A      +Q +   D++  P+L+PP  E+  I  V+    + ID  
Sbjct: 123 YYYLKSNEAQAEIRASLKGSTQQYITLGDLRNFPILLPPPPERKAIAEVL----SSIDDK 178

Query: 393 VEKIEQSIVLLKER 406
           +E + +    L+E 
Sbjct: 179 IELLHRQNKTLEEM 192


>gi|54308989|ref|YP_130009.1| putative Type I restriction enzyme ecoeispecificity protein
           [Photobacterium profundum SS9]
 gi|46913419|emb|CAG20207.1| hypothetical Type I restriction enzyme EcoEIspecificity protein (S
           protein) [Photobacterium profundum SS9]
          Length = 551

 Score =  101 bits (250), Expect = 3e-19,   Method: Composition-based stats.
 Identities = 59/476 (12%), Positives = 129/476 (27%), Gaps = 98/476 (20%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSES--------GKDIIYIGLEDVESGTGKYLP-KDGNSRQ 72
           P  W +V +   + L  G  S++           I ++    + +G  +          +
Sbjct: 60  PHSWSIVRLGGISTLENGDRSKNYPNKSVLVDSGIPFVNAGHLVNGRIQKSEMTFITDER 119

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAII--ADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
            D      F  G IL+   G   + A++   +   I S+  +V   + +L + L  +  S
Sbjct: 120 FDLLRAGKFKNGDILFCLRGSLGKSALVDGFENGAIASSLVIVRPDESILAKYLMLYFES 179

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK----------------- 173
               + I     G    +     +    +P PPL EQ  I  K                 
Sbjct: 180 PMSFRNISQYDNGTAQPNLSATDLAKFIVPTPPLEEQHRIVTKVDELMTLCDQLEQQTES 239

Query: 174 ------------------------IIAETVRIDTLITERIRFIELLKEKKQALVSYIVTK 209
                                   +     R+             + + KQ ++   V  
Sbjct: 240 SIDAHKTLVEVLLATLTNSTDADELAKNWTRVSEHFDTLFTTERSIDQLKQTVLQLAVMG 299

Query: 210 GLNPDVKMKD-------------------------------SGIEWVGLVPDHWEVKPFF 238
            L P     +                               +  E    +P  W      
Sbjct: 300 KLVPQDPNDEPASKLLKCIVEEKAQLIKDKKIKKQKALPEITDEEKPFELPSGWTWCRLG 359

Query: 239 ALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET---------YQIVDPG 289
            L    +   +           +  +++          P   +             V  G
Sbjct: 360 DLSLTSDAGWSPKCHPTPREEEHWGVLKVSAVTWNSYNPLENKELPSSLEPREQYEVQDG 419

Query: 290 EIVFRFIDLQN--DKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR-SYDLCKVF 346
           + +    +      +  +   +  ++ +++   +  + H         L   S      +
Sbjct: 420 DFLISRANTAKLVARAVVVPPKSPKKLMMSDKIIRFQFHKQVDANYINLFNDSSFARNYY 479

Query: 347 YAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
            A+  G     +++  E ++ L +  PP++EQ  I  +    +   D L  K+ ++
Sbjct: 480 AAVAGGTSSSMKNVSREQIRNLVIAFPPLEEQVKILKMKGQFSELCDELKNKLSKA 535



 Score = 85.2 bits (209), Expect = 2e-14,   Method: Composition-based stats.
 Identities = 31/168 (18%), Positives = 57/168 (33%), Gaps = 7/168 (4%)

Query: 244 LNRKNTKLIESNILSLSYGN----IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQ 299
                + L++S I  ++ G+     IQK E   +  +            G+I+F      
Sbjct: 82  NYPNKSVLVDSGIPFVNAGHLVNGRIQKSEMTFITDERFDLLRAGKFKNGDILFCLRGSL 141

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY-DLCKVFYAMGSGLRQSLK 358
                +   +     I +S  +      I + YL     S      +        + +L 
Sbjct: 142 GKSALVDGFENG--AIASSLVIVRPDESILAKYLMLYFESPMSFRNISQYDNGTAQPNLS 199

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
             D+ +  V  PP++EQ  I   ++      D L ++ E SI   K  
Sbjct: 200 ATDLAKFIVPTPPLEEQHRIVTKVDELMTLCDQLEQQTESSIDAHKTL 247



 Score = 48.6 bits (114), Expect = 0.002,   Method: Composition-based stats.
 Identities = 28/205 (13%), Positives = 54/205 (26%), Gaps = 18/205 (8%)

Query: 20  AIPKHWKVVPIKRFTKLNTG--------RTSESGKDIIYIGLEDVESGTGKYLPKDGNSR 71
            +P  W    +     L +          T    +    + +  V   +   L       
Sbjct: 348 ELPSGWTWCRLGDL-SLTSDAGWSPKCHPTPREEEHWGVLKVSAVTWNSYNPLENKELPS 406

Query: 72  QSDTSTVSIFAKGQILYGKLGP---YLRKAIIA---DFDGICSTQFLVLQPKDVLPELLQ 125
             +         G  L  +        R  ++        + S + +  Q    +     
Sbjct: 407 SLEPREQYEVQDGDFLISRANTAKLVARAVVVPPKSPKKLMMSDKIIRFQFHKQVDANYI 466

Query: 126 GWLLSIDVTQRIEAICEGAT---MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
                    +   A   G T   M +   + I N+ +  PPL EQV I +     +   D
Sbjct: 467 NLFNDSSFARNYYAAVAGGTSSSMKNVSREQIRNLVIAFPPLEEQVKILKMKGQFSELCD 526

Query: 183 TLITERIRFIELLKEKKQALVSYIV 207
            L  +  +   +       +V   V
Sbjct: 527 ELKNKLSKAKSIQLVLADTIVGQAV 551


>gi|28377766|ref|NP_784658.1| type Ic restriction-modification system, HsdS subunit
           [Lactobacillus plantarum WCFS1]
 gi|28270599|emb|CAD63503.1| type Ic restriction-modification system, HsdS subunit
           [Lactobacillus plantarum WCFS1]
          Length = 380

 Score =  101 bits (250), Expect = 3e-19,   Method: Composition-based stats.
 Identities = 60/395 (15%), Positives = 122/395 (30%), Gaps = 44/395 (11%)

Query: 25  WKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDV-ESGTGKYLPKDGNSRQSDTST 77
           W+   +    K+  G T +S        ++ +    +V  +G  +   +   S     S+
Sbjct: 19  WEQRKLGELGKIQGGGTPDSGIAEYWDGNVNWFTPTEVSNNGYLESSNRKITSLGLKKSS 78

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
             +     +L       + +  I  +    +  F  L       E    + +   +++  
Sbjct: 79  ARLMPASTVLITS-RAGVGRMGILKYPASTNQGFQSLILNSATDEY-FIYSMQPIISKLA 136

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
             +  G+T +    K +  I + IP   EQ  I   +      I     +  +   L K 
Sbjct: 137 NRLASGSTFTEISGKQMEKIEIMIPTTGEQNRISSLMKCINNLIAANEDKLEQLKTLKKL 196

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
             Q + S                  EW          +     ++++        +    
Sbjct: 197 MMQKIFSQ-----------------EWRFKGFTDPWEQRKLGDISKITAGGDIDKDKLST 239

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
              Y  I   L    +    +SY+      P   V    D+ + K  + S   + R ++ 
Sbjct: 240 RGRYPVIANALTNNGVVGYYDSYKVKG---PAVTVTGRGDVGHAKTRIESFTPIVRLLVV 296

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFD 377
           SA          +  + +L  + +  ++F    S     L    +       P   EQ  
Sbjct: 297 SA---------PNFDINFLENAINNIRIFNE--STGVPQLTAPQLGSYEFEYPCSSEQVC 345

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           I NV++    +ID L+   E  +  LKE +   + 
Sbjct: 346 IGNVLH----KIDNLIAANEDKLNQLKELKKYLMQ 376



 Score = 64.8 bits (156), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 22/210 (10%), Positives = 60/210 (28%), Gaps = 16/210 (7%)

Query: 211 LNPDVKMKDSGIEW----VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ 266
           L P V+ K     W    +G +          + + E    N   +     +    N   
Sbjct: 6   LVPKVRFKGFSDPWEQRKLGELGKIQGGGTPDSGIAEYWDGN---VNWFTPTEVSNNGYL 62

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
           +   R +        + +++    ++            L+             + ++  +
Sbjct: 63  ESSNRKITSLGLKKSSARLMPASTVLITSRAGVGRMGILK-----YPASTNQGFQSLILN 117

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
                Y  + M+                  +  + ++++ +++P   EQ  I    +   
Sbjct: 118 SATDEYFIYSMQPIISKLANRLASGSTFTEISGKQMEKIEIMIPTTGEQNRI----SSLM 173

Query: 387 ARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
             I+ L+   E  +  LK  +   +    +
Sbjct: 174 KCINNLIAANEDKLEQLKTLKKLMMQKIFS 203


>gi|325957309|ref|YP_004292721.1| type I restriction-modification system, S subunit [Lactobacillus
           acidophilus 30SC]
 gi|325333874|gb|ADZ07782.1| type I restriction-modification system, S subunit [Lactobacillus
           acidophilus 30SC]
          Length = 494

 Score =  101 bits (250), Expect = 3e-19,   Method: Composition-based stats.
 Identities = 66/431 (15%), Positives = 134/431 (31%), Gaps = 62/431 (14%)

Query: 20  AIPKHWKVVPIKRFTK-LNTGRTSESGKD---IIYIGLEDVESGTG--KYLPKDGNSRQS 73
            IP +W+ V +      +  G++ +  K+      I  + V+      ++          
Sbjct: 66  DIPNNWEWVKLGNIVDYVQRGKSPKYDKESNSYPIISQKCVQWDGVHLEFAKHLKEDFWK 125

Query: 74  DTSTVSIFAKGQILYGKLGP-----YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL 128
           +  +     KG +L    G       ++     D   + S   ++   K+V    +  +L
Sbjct: 126 ELPSYRFVTKGDLLLNSTGTGTVGRIIKVTESFDKIPVDSHVTIIRLNKNVCNSYILYFL 185

Query: 129 LSIDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
           +S  +   ++    G T         I NI + IPPL EQ  I  KI      +D     
Sbjct: 186 MSPIIQNNLDDYLTGTTKQKEFGLASIQNIVISIPPLEEQKRIVAKIEKLMPLVDEYAES 245

Query: 188 RIRFIELLKEK----KQALVSYIVTKGLNPDVKMKDSGIEWV------------------ 225
             R  ++  E     KQ+++ Y +   L       +   E +                  
Sbjct: 246 YNRLQKIDNEFEDKLKQSVLQYAMEGKLVKQNPSDEPASELIKKIENEKAELVKEGKIKK 305

Query: 226 -------------GLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
                          +P+ WE      +V     K  +   S+  +      +   +  N
Sbjct: 306 SKKLPAITDDEKPFDIPNSWEWVRLGDIVQAQIGKTPQRHNSDYWAERDIPWVSISDLTN 365

Query: 273 MGLKPESYE----------TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
             L     +            +IV    ++  F         LR   V    I++     
Sbjct: 366 GNLTETKEKISSKALKDVFHDRIVAKNTLLMSFKLTIGKVAILRINAVHNEAIVS----I 421

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNV 381
           +     + +   +L  +  +          ++ ++L    + +L + +PP+KEQ  I   
Sbjct: 422 IPFIDSEHSLRDYLFVTLPMISQNGDFKDAIKGKTLNKSSLTKLLIPLPPLKEQKRIVAK 481

Query: 382 INVETARIDVL 392
           +       D+L
Sbjct: 482 LREFKRSADIL 492



 Score = 75.6 bits (184), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 32/214 (14%), Positives = 78/214 (36%), Gaps = 15/214 (7%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE-----SNILSLSYGNIIQKLETRNMG 274
           +  E    +P++WE      +V  + R  +   +       I+S                
Sbjct: 59  TDEEKPFDIPNNWEWVKLGNIVDYVQRGKSPKYDKESNSYPIISQKCVQWDGVHLEFAKH 118

Query: 275 LKPESYE---TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY-MAVKPHGIDS 330
           LK + ++   +Y+ V  G+++          R ++  +  ++  + S   +      + +
Sbjct: 119 LKEDFWKELPSYRFVTKGDLLLNSTGTGTVGRIIKVTESFDKIPVDSHVTIIRLNKNVCN 178

Query: 331 TYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
           +Y+ + + S  +        +G   ++      ++ + + +PP++EQ  I   I      
Sbjct: 179 SYILYFLMSPIIQNNLDDYLTGTTKQKEFGLASIQNIVISIPPLEEQKRIVAKIEKLMPL 238

Query: 389 IDVLVEKIE--QSIVLLKE--RRSSFIAAAVTGQ 418
           +D   E     Q I    E   + S +  A+ G+
Sbjct: 239 VDEYAESYNRLQKIDNEFEDKLKQSVLQYAMEGK 272


>gi|206896558|ref|YP_002247704.1| type I restriction/modification enzyme [Coprothermobacter
           proteolyticus DSM 5265]
 gi|206739175|gb|ACI18253.1| type I restriction/modification enzyme [Coprothermobacter
           proteolyticus DSM 5265]
          Length = 678

 Score =  101 bits (250), Expect = 3e-19,   Method: Composition-based stats.
 Identities = 56/380 (14%), Positives = 108/380 (28%), Gaps = 52/380 (13%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+VV ++    +  G +      +            G      G    +     S     
Sbjct: 338 WEVVSLREICDIQKGTSITKADTV-----------EGNVPVIAGGQEPAYYHNQSNRDGN 386

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            I     G Y       D     S    +    +        + +     + +  +  GA
Sbjct: 387 IITVSASGAYAGFVNYFDIPIFASDCTTIKSNDEEKALTKYIFYILKSRQEDLYKLQRGA 446

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
              H     + NI +P+PPL  Q  +  ++  +   I               E+  A+  
Sbjct: 447 GQPHVYPNDLANIQIPLPPLPVQQELVARLDKQQAII---------------EQCNAMEK 491

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
            I+  G++  +   D     +G +            +     K      + I   +  N 
Sbjct: 492 TILEAGIDDSIFEGDWEWVELGELIALRNGISISNTLVSNRGKYPVCGSNGIYGYTDNND 551

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
                   +  +  +Y                             V +  I+        
Sbjct: 552 KLLFGETIVVGRVGAYCGNVHYYD-----------------VPIWVTDNAIV---VTVTN 591

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
              + + YL + + S DL K     G   +  +    +  L V +PPI++Q  I + +NV
Sbjct: 592 KDKLKTKYLYYFLLSKDLGKYANVTG---QPYISQSIISSLKVPLPPIEKQQKIVDFLNV 648

Query: 385 ETA---RIDVLVEKIEQSIV 401
           +      I  L E  +Q+I 
Sbjct: 649 QFETLTNIRRLKENAKQTIK 668



 Score = 54.8 bits (130), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 24/161 (14%), Positives = 55/161 (34%), Gaps = 12/161 (7%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT-STVSIFA 82
            W+ V +     L  G +  +           + S  GKY     N     T +   +  
Sbjct: 506 DWEWVELGELIALRNGISISNT----------LVSNRGKYPVCGSNGIYGYTDNNDKLLF 555

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
              I+ G++G Y       D     +   +V+   +   +L   +L    +++ +     
Sbjct: 556 GETIVVGRVGAYCGNVHYYDVPIWVTDNAIVVTVTNK-DKLKTKYLYYFLLSKDLGKYAN 614

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
                +     I ++ +P+PP+ +Q  I + +  +   +  
Sbjct: 615 VTGQPYISQSIISSLKVPLPPIEKQQKIVDFLNVQFETLTN 655


>gi|32477070|ref|NP_870064.1| type I restriction modification enzyme, S subunit [Rhodopirellula
           baltica SH 1]
 gi|32447618|emb|CAD79219.1| type I restriction modification enzyme, S subunit [Rhodopirellula
           baltica SH 1]
          Length = 393

 Score =  101 bits (250), Expect = 3e-19,   Method: Composition-based stats.
 Identities = 57/409 (13%), Positives = 126/409 (30%), Gaps = 35/409 (8%)

Query: 22  PKHWKVVPIKRFTK----LNTGRTSESG---KDIIYIGLEDVESGTGKYLP-KDGNSRQS 73
           P  W +  +         +  G           + Y+   +++    +    K      +
Sbjct: 7   PAGWSLTKLSEICDPNAPIMYGILQPGPVILDGVPYVRPSEIDPDRIRLEDIKRTTPEIA 66

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADF----DGICSTQFLVLQPKDVLPELLQGWLL 129
           +    S      +L   +G   R A++       +   S+  + L  K      ++  L 
Sbjct: 67  ERYRRSTLQTEDLLITIVGTLGRIAVVPPELNGANITQSSARIRLNRKTANLRYIRQLLR 126

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
           S    ++ +    G  +   +   + ++ +P+PPL+EQ  I E +             R 
Sbjct: 127 SPIAIRQYDFHRLGTGVPRLNIHHVRDLQIPLPPLSEQKRIAEILDRAEALRAK----RR 182

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNT 249
             + LL E  Q++    +    +P    K   +E +  +                + K  
Sbjct: 183 AALALLDELTQSI---FLDMFGDPVSNPKGWPVESLSDLGK-------ITTGGTPSSKKE 232

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
            +    +  ++ G+ ++  E     L        + V  G      I     K    S +
Sbjct: 233 GMFGGTVPFVTPGD-LESDELPKRTLSDHGASEAKTVPAGATFVCCIGATIGKMGQASVR 291

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
                 + +   +   +      +    +            S     LK    +++ + V
Sbjct: 292 SAFNQQLNAIEWSNSVNDDFGLGVLRFFKKLIATW----GASTTLPILKKSSFEKIEIPV 347

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           PPI+ Q  I    + + + I+ L      S+  L +  +S    A  G+
Sbjct: 348 PPIESQ-AI--YADRK-SEIEQLRSLHRNSLSELDQLFASLQHRAFRGE 392



 Score = 54.0 bits (128), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 34/197 (17%), Positives = 58/197 (29%), Gaps = 17/197 (8%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKD------IIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           PK W V  +    K+ TG T  S K+      + ++   D+ES                 
Sbjct: 207 PKGWPVESLSDLGKITTGGTPSSKKEGMFGGTVPFVTPGDLESDELP----KRTLSDHGA 262

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQF-LVLQPKDVLPELLQGWLLSIDVT 134
           S       G      +G  + K   A      + Q   +     V  +   G L      
Sbjct: 263 SEAKTVPAGATFVCCIGATIGKMGQASVRSAFNQQLNAIEWSNSVNDDFGLGVLRF--FK 320

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           + I       T+          I +P+PP+  Q +  +        I+ L +     +  
Sbjct: 321 KLIATWGASTTLPILKKSSFEKIEIPVPPIESQAIYAD----RKSEIEQLRSLHRNSLSE 376

Query: 195 LKEKKQALVSYIVTKGL 211
           L +   +L        L
Sbjct: 377 LDQLFASLQHRAFRGEL 393


>gi|15804920|ref|NP_290962.1| putative restriction modification enzyme S subunit [Escherichia
           coli O157:H7 EDL933]
 gi|15834560|ref|NP_313333.1| type I restriction-modification enzyme S subunit [Escherichia coli
           O157:H7 str. Sakai]
 gi|168749492|ref|ZP_02774514.1| putative type I restriction-modification system, S subunit
           [Escherichia coli O157:H7 str. EC4113]
 gi|168754917|ref|ZP_02779924.1| putative type I restriction-modification system, S subunit
           [Escherichia coli O157:H7 str. EC4401]
 gi|168760594|ref|ZP_02785601.1| putative type I restriction-modification system, S subunit
           [Escherichia coli O157:H7 str. EC4501]
 gi|168766628|ref|ZP_02791635.1| putative type I restriction-modification system, S subunit
           [Escherichia coli O157:H7 str. EC4486]
 gi|168773942|ref|ZP_02798949.1| putative type I restriction-modification system, S subunit
           [Escherichia coli O157:H7 str. EC4196]
 gi|168781636|ref|ZP_02806643.1| putative type I restriction-modification system, S subunit
           [Escherichia coli O157:H7 str. EC4076]
 gi|168784990|ref|ZP_02809997.1| putative type I restriction-modification system, S subunit
           [Escherichia coli O157:H7 str. EC869]
 gi|168797919|ref|ZP_02822926.1| putative type I restriction-modification system, S subunit
           [Escherichia coli O157:H7 str. EC508]
 gi|195937621|ref|ZP_03083003.1| type I restriction-modification enzyme S subunit [Escherichia coli
           O157:H7 str. EC4024]
 gi|208808904|ref|ZP_03251241.1| putative type I restriction-modification system, S subunit
           [Escherichia coli O157:H7 str. EC4206]
 gi|208813833|ref|ZP_03255162.1| putative type I restriction-modification system, S subunit
           [Escherichia coli O157:H7 str. EC4045]
 gi|208821430|ref|ZP_03261750.1| putative type I restriction-modification system, S subunit
           [Escherichia coli O157:H7 str. EC4042]
 gi|209396465|ref|YP_002273870.1| putative type I restriction-modification system, S subunit
           [Escherichia coli O157:H7 str. EC4115]
 gi|217325306|ref|ZP_03441390.1| putative type I restriction-modification system, S subunit
           [Escherichia coli O157:H7 str. TW14588]
 gi|254796345|ref|YP_003081182.1| putative restriction modification enzyme S subunit [Escherichia
           coli O157:H7 str. TW14359]
 gi|261226705|ref|ZP_05940986.1| putative restriction modification enzyme S subunit [Escherichia
           coli O157:H7 str. FRIK2000]
 gi|12519366|gb|AAG59529.1|AE005666_1 putative restriction modification enzyme S subunit [Escherichia
           coli O157:H7 str. EDL933]
 gi|13364784|dbj|BAB38729.1| type I restriction-modification enzyme S subunit [Escherichia coli
           O157:H7 str. Sakai]
 gi|187770232|gb|EDU34076.1| putative type I restriction-modification system, S subunit
           [Escherichia coli O157:H7 str. EC4196]
 gi|188016149|gb|EDU54271.1| putative type I restriction-modification system, S subunit
           [Escherichia coli O157:H7 str. EC4113]
 gi|189000706|gb|EDU69692.1| putative type I restriction-modification system, S subunit
           [Escherichia coli O157:H7 str. EC4076]
 gi|189357798|gb|EDU76217.1| putative type I restriction-modification system, S subunit
           [Escherichia coli O157:H7 str. EC4401]
 gi|189363994|gb|EDU82413.1| putative type I restriction-modification system, S subunit
           [Escherichia coli O157:H7 str. EC4486]
 gi|189368935|gb|EDU87351.1| putative type I restriction-modification system, S subunit
           [Escherichia coli O157:H7 str. EC4501]
 gi|189375167|gb|EDU93583.1| putative type I restriction-modification system, S subunit
           [Escherichia coli O157:H7 str. EC869]
 gi|189379418|gb|EDU97834.1| putative type I restriction-modification system, S subunit
           [Escherichia coli O157:H7 str. EC508]
 gi|208728705|gb|EDZ78306.1| putative type I restriction-modification system, S subunit
           [Escherichia coli O157:H7 str. EC4206]
 gi|208735110|gb|EDZ83797.1| putative type I restriction-modification system, S subunit
           [Escherichia coli O157:H7 str. EC4045]
 gi|208741553|gb|EDZ89235.1| putative type I restriction-modification system, S subunit
           [Escherichia coli O157:H7 str. EC4042]
 gi|209157865|gb|ACI35298.1| putative type I restriction-modification system, S subunit
           [Escherichia coli O157:H7 str. EC4115]
 gi|217321527|gb|EEC29951.1| putative type I restriction-modification system, S subunit
           [Escherichia coli O157:H7 str. TW14588]
 gi|254595745|gb|ACT75106.1| putative restriction modification enzyme S subunit [Escherichia
           coli O157:H7 str. TW14359]
 gi|320190535|gb|EFW65185.1| Type I restriction-modification system, specificity subunit S
           [Escherichia coli O157:H7 str. EC1212]
 gi|320638729|gb|EFX08387.1| putative restriction modification enzyme S subunit [Escherichia
           coli O157:H7 str. G5101]
 gi|320644441|gb|EFX13506.1| putative restriction modification enzyme S subunit [Escherichia
           coli O157:H- str. 493-89]
 gi|320649759|gb|EFX18283.1| putative restriction modification enzyme S subunit [Escherichia
           coli O157:H- str. H 2687]
 gi|320654809|gb|EFX22778.1| putative restriction modification enzyme S subunit [Escherichia
           coli O55:H7 str. 3256-97 TW 07815]
 gi|320665588|gb|EFX32634.1| putative restriction modification enzyme S subunit [Escherichia
           coli O157:H7 str. LSU-61]
 gi|326345338|gb|EGD69081.1| Type I restriction-modification system, specificity subunit S
           [Escherichia coli O157:H7 str. 1125]
 gi|326346808|gb|EGD70542.1| Type I restriction-modification system, specificity subunit S
           [Escherichia coli O157:H7 str. 1044]
          Length = 584

 Score =  101 bits (250), Expect = 3e-19,   Method: Composition-based stats.
 Identities = 75/489 (15%), Positives = 141/489 (28%), Gaps = 94/489 (19%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT 60
           +K  K  P+   S  +    +P+ W+ V I         +T    KD  YI +  +    
Sbjct: 83  IKKQKPLPEI--SEEEKPFELPEGWEWVRISEIGHDWGQKTP--DKDFTYIDVGSINKEY 138

Query: 61  GKYLPKDG-NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDG----ICSTQFLVLQ 115
           G        +++ + +    I  +G I+Y  + PYL    I + +     I ST F ++ 
Sbjct: 139 GIIEELSILSAKDAPSRARKIVQQGTIIYSTVRPYLLNIAIIENEILPEPIASTAFAIIH 198

Query: 116 PKD-VLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK- 173
           P   +    +  +L S      +E    G      + K   +   P+PP  EQV I  K 
Sbjct: 199 PYTAMDANFIYYYLRSPVFVCYVENCQTGVAYPAINDKQFFSGITPVPPSLEQVRIANKI 258

Query: 174 ----------------------------------------IIAETVRIDTLITERIRFIE 193
                                                   +     RI            
Sbjct: 259 KELMSLCDQLEQQSLTSLDAHQQLVETLLGTLTDSQTAEELAENWARISEYFDTLFTTEA 318

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKD-------------------------------SGI 222
            +   KQ ++   V   L P     +                               S  
Sbjct: 319 SVDALKQTILQLAVMGKLVPQDPNDEPASELLKRIAQEKAQLVKEGKIKKQKPLPPISDE 378

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNT---------KLIESNILSLSYGNIIQKLETRNM 273
           E    +P+ WE   F  ++   +               +    ++      +   E + +
Sbjct: 379 EKPFELPEGWEWCLFEDIIDIQSGITKGRNLSNRTLVKVPYLRVANVQRGYLDLTEIKQI 438

Query: 274 GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM-AVKPHGIDSTY 332
            +  E  E YQ+V    ++    D     R+               +        +D  +
Sbjct: 439 EIPIEEKEKYQVVKGDLLITEGGDWDTVGRTTVWCHDWYIANQNHVFKGRNIGQDVDPYW 498

Query: 333 LAWLMRSYDLCKVFY--AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
           L   M S    + F   +  +    S+    ++  PV +PP  E   I + +++     +
Sbjct: 499 LETYMNSPFSRQYFANASKQTTNLASINKTQLRGCPVAIPPSSEAKKIMSKLHIFYKLCE 558

Query: 391 VLVEKIEQS 399
            L   I+ +
Sbjct: 559 ELKNHIQSA 567



 Score = 76.0 bits (185), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 32/195 (16%), Positives = 73/195 (37%), Gaps = 3/195 (1%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLET-RNMGLKPE 278
           S  E    +P+ WE      +  +  +K      + I   S       +E    +  K  
Sbjct: 93  SEEEKPFELPEGWEWVRISEIGHDWGQKTPDKDFTYIDVGSINKEYGIIEELSILSAKDA 152

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG-IDSTYLAWLM 337
                +IV  G I++  +       ++   +++   I ++A+  + P+  +D+ ++ + +
Sbjct: 153 PSRARKIVQQGTIIYSTVRPYLLNIAIIENEILPEPIASTAFAIIHPYTAMDANFIYYYL 212

Query: 338 RSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
           RS           +G+   ++  +        VPP  EQ  I N I    +  D L ++ 
Sbjct: 213 RSPVFVCYVENCQTGVAYPAINDKQFFSGITPVPPSLEQVRIANKIKELMSLCDQLEQQS 272

Query: 397 EQSIVLLKERRSSFI 411
             S+   ++   + +
Sbjct: 273 LTSLDAHQQLVETLL 287



 Score = 72.5 bits (176), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 25/202 (12%), Positives = 55/202 (27%), Gaps = 13/202 (6%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESG------KDIIYIGLEDVESGTGKYLPKDGNSRQS 73
            +P+ W+    +    + +G T            + Y+ + +V+ G              
Sbjct: 383 ELPEGWEWCLFEDIIDIQSGITKGRNLSNRTLVKVPYLRVANVQRGYLDLTEIKQIEIPI 442

Query: 74  DTSTVSIFAKGQILYGKLGPY---LRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
           +        KG +L  + G +    R  +      I +   +                  
Sbjct: 443 EEKEKYQVVKGDLLITEGGDWDTVGRTTVWCHDWYIANQNHVFKGRNIGQDVDPYWLETY 502

Query: 131 IDV----TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           ++          A  +   ++  +   +   P+ IPP +E   I  K+       + L  
Sbjct: 503 MNSPFSRQYFANASKQTTNLASINKTQLRGCPVAIPPSSEAKKIMSKLHIFYKLCEELKN 562

Query: 187 ERIRFIELLKEKKQALVSYIVT 208
                 +       AL    V 
Sbjct: 563 HIQSAQQTQLHLADALTDAAVN 584


>gi|55820774|ref|YP_139216.1| type I restriction-modification system specificty subunit
           [Streptococcus thermophilus LMG 18311]
 gi|55822677|ref|YP_141118.1| type I restriction-modification system specificty subunit
           [Streptococcus thermophilus CNRZ1066]
 gi|55736759|gb|AAV60401.1| type I restriction-modification system specificty subunit
           [Streptococcus thermophilus LMG 18311]
 gi|55738662|gb|AAV62303.1| type I restriction-modification system specificty subunit
           [Streptococcus thermophilus CNRZ1066]
          Length = 406

 Score =  101 bits (250), Expect = 3e-19,   Method: Composition-based stats.
 Identities = 54/399 (13%), Positives = 132/399 (33%), Gaps = 36/399 (9%)

Query: 30  IKRFTKLN-----TGRTS----ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT--STV 78
           +K    LN      G T     E    ++     ++ +        D    Q     S  
Sbjct: 26  LKELVSLNGRIGFRGYTKNDIVERSNGVLTYSPTNIVNNKIVNYKNDTYISQDKYKESPE 85

Query: 79  SIFAKGQILYGKLGPYLRKAIIAD---FDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
            +     IL+ K G  L K+ +          + Q +V++   V  + L  +LL+  + +
Sbjct: 86  IMVKNNDILFVKTGSTLGKSALVRNLTEPATINPQLIVIKTIHVDSDYLAVYLLTDSIQK 145

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
           ++  +  G  +       IG   + +PPL EQ  I          + +       +  L 
Sbjct: 146 QVFQVKIGGAVPTLTETEIGKFVVKLPPLPEQTAIGSLFRTLDDLLASYKDNLTNYQSLK 205

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
                 +          P++++     EW     ++  +     +    + K+    ++ 
Sbjct: 206 VTMLSKMFPK--VGQTVPEIRLDGFEGEW-----ENKILSEVTNITMGQSPKSENYTDNP 258

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
              +        ++ + +  +  + E  ++ + G+I+        D        V+ RG+
Sbjct: 259 NDYILVQGNAD-IKDKQVVPRLWTTEVTKMAEIGDIILTVRAPVGDIGKTDYNVVIGRGV 317

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKE 374
                         + ++ + +    +   +    +G   +S+   D+K   + +P ++E
Sbjct: 318 AA---------IKGNDFIFYTLEKMKMTGFWNKFSTGSTFESISSNDIKEAIIQIPTLEE 368

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           Q  I        + +D L+   ++ I  L+  +   +  
Sbjct: 369 QKAIGAY----FSNLDNLIVAHQEKISQLETLKKKLLQD 403



 Score = 49.0 bits (115), Expect = 0.001,   Method: Composition-based stats.
 Identities = 28/180 (15%), Positives = 51/180 (28%), Gaps = 5/180 (2%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W+   +   T +  G++ +S           +  G      K    R   T    +   
Sbjct: 231 EWENKILSEVTNITMGQSPKSENYTDNPNDYILVQGNADIKDKQVVPRLWTTEVTKMAEI 290

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
           G I+     P        D++ +       ++  D +       L  + +T        G
Sbjct: 291 GDIILTVRAPV-GDIGKTDYNVVIGRGVAAIKGNDFI----FYTLEKMKMTGFWNKFSTG 345

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           +T        I    + IP L EQ  I          I     +  +   L K+  Q + 
Sbjct: 346 STFESISSNDIKEAIIQIPTLEEQKAIGAYFSNLDNLIVAHQEKISQLETLKKKLLQDMF 405


>gi|148988248|ref|ZP_01819711.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae SP6-BS73]
 gi|147926712|gb|EDK77785.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae SP6-BS73]
 gi|301801394|emb|CBW34080.1| type I restriction-modification system S protein [Streptococcus
           pneumoniae INV200]
          Length = 427

 Score =  101 bits (250), Expect = 3e-19,   Method: Composition-based stats.
 Identities = 70/426 (16%), Positives = 143/426 (33%), Gaps = 66/426 (15%)

Query: 34  TKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
            ++  G +    KD        I +I + D E G           ++S  +      KG 
Sbjct: 2   VEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINNVKEKIKKSGLNKTRFVKKGT 61

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV-TQRIEAICEGA 144
            L      + R  I+     I      +   ++ L +    ++LS +V   +  ++  GA
Sbjct: 62  FLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYLFYILSSNVVYSQFLSLISGA 121

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK----Q 200
            + + +   + +I +P+PPLAEQ  I E I +   ++D       R  +L KE      +
Sbjct: 122 VVKNLNSDKVASILIPLPPLAEQQRIIEAIESALEKVDEYAESYNRLEQLDKEFPDKLKK 181

Query: 201 ALVSYIVTKGLNPDVKMKDS---------------------------------------G 221
           +++ Y +   L       +S                                        
Sbjct: 182 SILQYAMQGKLVEQDPNDESVEVLLEKIRAEKQKLFEEGKIKKKDLDISIVSQGDDNSYY 241

Query: 222 IEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL------ 275
            E    +P+ WE      + + + R  +    +  +         +    ++ L      
Sbjct: 242 EEVPCEIPESWEWVRLNDITSYIQRGKSPKYSNIPIYPVIAQKCNQWSGFSIDLARFIDP 301

Query: 276 -KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA-----YMAVKPHGID 329
               SY+  +++  G++++    L    R     +     +   A      + V    I+
Sbjct: 302 ETVHSYQKERLLRDGDLMWNSTGLGTLGRLAIYHENKNPYVWAVADSHVTVIRVLSGVIN 361

Query: 330 STYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
             ++   + S  +  V     SG   ++ L  + +K   + +PP+ EQ  I + I    A
Sbjct: 362 CHFIYNFLSSPIVQSVIEEKASGSTKQKELLTKTIKEYLIPLPPLPEQSRIVDKIEQFFA 421

Query: 388 RIDVLV 393
            ID L+
Sbjct: 422 HIDALI 427



 Score = 77.9 bits (190), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 27/158 (17%), Positives = 59/158 (37%), Gaps = 8/158 (5%)

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
           + +      +K       + V  G  +            L     +  G +    ++   
Sbjct: 37  KYINNVKEKIKKSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLA---ISNYE 93

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
           + ++  YL +++ S  +   F ++ SG   ++L  + V  + + +PP+ EQ  I   I  
Sbjct: 94  NSLNKDYLFYILSSNVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLAEQQRIIEAIES 153

Query: 385 ETARIDVLVEKIEQSIVLLKE----RRSSFIAAAVTGQ 418
              ++D   E   +   L KE     + S +  A+ G+
Sbjct: 154 ALEKVDEYAESYNRLEQLDKEFPDKLKKSILQYAMQGK 191



 Score = 50.9 bits (120), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 29/181 (16%), Positives = 50/181 (27%), Gaps = 15/181 (8%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT-----GKYLPKDGNSRQSD 74
            IP+ W+ V +   T       S    +I    +   +                      
Sbjct: 247 EIPESWEWVRLNDITSYIQRGKSPKYSNIPIYPVIAQKCNQWSGFSIDLARFIDPETVHS 306

Query: 75  TSTVSIFAKGQILYGKL--GPYLRKAIIADF-----DGICSTQFLVLQPKDVLPELLQGW 127
                +   G +++     G   R AI  +        +  +   V++    +      +
Sbjct: 307 YQKERLLRDGDLMWNSTGLGTLGRLAIYHENKNPYVWAVADSHVTVIRVLSGVINCHFIY 366

Query: 128 LLSIDVTQR---IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
                   +    E             K I    +P+PPL EQ  I +KI      ID L
Sbjct: 367 NFLSSPIVQSVIEEKASGSTKQKELLTKTIKEYLIPLPPLPEQSRIVDKIEQFFAHIDAL 426

Query: 185 I 185
           I
Sbjct: 427 I 427


>gi|148377827|ref|YP_001256703.1| Type I R/M system specificity subunit [Mycoplasma agalactiae PG2]
 gi|148291873|emb|CAL59264.1| Type I R/M system specificity subunit [Mycoplasma agalactiae PG2]
          Length = 408

 Score =  101 bits (250), Expect = 3e-19,   Method: Composition-based stats.
 Identities = 55/401 (13%), Positives = 131/401 (32%), Gaps = 26/401 (6%)

Query: 25  WKVVPIKRFTKLNT-GRTSES-------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           W+        +  + G T  +          I +I +ED  +   +             S
Sbjct: 19  WEQEKFANIYQFASEGGTPSTSIKKYYENGTIPFIKVEDTVNKYIENGKYFITENGLINS 78

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP-ELLQGWLLSIDVTQ 135
           +  +  +  I++   G  +    I           L + PK     E +   L S +   
Sbjct: 79  SAWLVPENSIIFTN-GATIGNVAINKIKTATKQGILGIIPKQKYDVEFIYYLLSSKNFQN 137

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            +       T +      +  I + +P    +      +      +D+LIT   R +  L
Sbjct: 138 EVNRKITIGTFAMITLSNLDKIKVNLPNYDIERAKISSL---FSHLDSLITLHQRKLSSL 194

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
           K  K  L+  +     +    ++           + WE      ++    +KN K +   
Sbjct: 195 KNLKNRLLDKMFCYEKSQFPSIRFK------EFTNAWEQWKARDILLPYRQKNDKNLALI 248

Query: 256 ILSLSYG-NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
             S+S     + + E  + G K    +    +     +F +   + +  S+   +    G
Sbjct: 249 GYSVSNKEGFVDQKEFFDDGGKAVYADKKNSLIISFDMFAYNPSRINVGSIALFKNTING 308

Query: 315 IITSAY-MAVKPHGIDSTYLAWLMRSYDLCKVF-YAMGSGLRQSLKFEDVKRLPVLVPPI 372
           +++  Y +       +   +    +S    ++        +R +L  +  +   + +P +
Sbjct: 309 LVSPIYEVFKVSANSNPDLIYLWFKSECFNEIVANNSNKSVRDTLNLKQFEDNLLNLPVL 368

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           +EQ  I N      + +D L+   ++ +  LK  +++ +  
Sbjct: 369 QEQNKIAN----LFSHLDSLITLHQRKLNSLKNIKNTLLEK 405


>gi|312278103|gb|ADQ62760.1| Restriction modification system DNA specificity domain
           [Streptococcus thermophilus ND03]
          Length = 410

 Score =  101 bits (250), Expect = 4e-19,   Method: Composition-based stats.
 Identities = 63/417 (15%), Positives = 134/417 (32%), Gaps = 31/417 (7%)

Query: 26  KVVPIKRF-TKLNTGRTSE------SGKDIIYIGLEDV-ESGTGKYLPKDGNSRQSDTST 77
           +   +    +K+ +G T        +   I  I  ++V +           +  Q++   
Sbjct: 3   EWKELSSITSKIGSGLTPRGGNSVYTDNGISLIRSQNVLDMDFSTENLAYIDEVQAEKLK 62

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGI---CSTQFLVLQPKDVLPELLQGWLLSIDVT 134
             I  K  IL    G  + +  I   + +    +    +++ K+        + L     
Sbjct: 63  NVIVEKNDILLNITGDSIARCTIVPEEILPARVNQHVSIIRCKNTEQSKYVMYYLQYIKK 122

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             ++    G T +    + IG +P+ I           KI      ID  I    +  + 
Sbjct: 123 YLLQISKVGGTRNALTKEAIGKLPIKISDDC------NKISKILDNIDQKIHTNNQINQE 176

Query: 195 LKEKKQALVSYIVTKGLNPDV---KMKDSG------IEWVGLVPDHWEVKPFFALVTELN 245
           L+   + L  Y   +   PD      K SG       E    +P+ W V   + +    N
Sbjct: 177 LEAMAKTLYDYWFVQFDFPDQNAKPYKSSGGKMVYHPELKREIPEGWGVDSLWNIANFYN 236

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
               +    +     Y  +I+  E  N   K        I     +    I         
Sbjct: 237 GLAMQKYRPDTNEDDYLPVIKIREMMNGFSKDTERARLDIPSEAVVDRGDILFSWSATLE 296

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY-DLCKVFYAMGSGLRQSLKFEDVKR 364
                 E+G +      V       +++ + ++SY  + K    +       +  + +K+
Sbjct: 297 VIIWGKEKGALNQHIFKVTSDTYPKSFIYFELKSYLKVFKAIAELRKTTMGHITQDHLKQ 356

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
             ++VPPI+      + ++ +   I +  + +E     L + R   +   + GQ+ +
Sbjct: 357 AKIVVPPIEL----ISKLDAKLQPIMLKQQILENQNQELTQLRDWLLPMLMNGQVKV 409



 Score = 48.6 bits (114), Expect = 0.002,   Method: Composition-based stats.
 Identities = 30/191 (15%), Positives = 61/191 (31%), Gaps = 16/191 (8%)

Query: 20  AIPKHWKVVPIKRFTKLNTG-----RTSESGKD--IIYIGLEDVESGTGKYLPKDGNSRQ 72
            IP+ W V  +        G        ++ +D  +  I + ++ +G      KD    +
Sbjct: 218 EIPEGWGVDSLWNIANFYNGLAMQKYRPDTNEDDYLPVIKIREMMNG----FSKDTERAR 273

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
            D  + ++  +G IL+      L   I     G  +     +         +   L S  
Sbjct: 274 LDIPSEAVVDRGDILFSWS-ATLEVIIWGKEKGALNQHIFKVTSDTYPKSFIYFELKSYL 332

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
              +  A     TM H     +    + +PP+     +  K+ A+   I           
Sbjct: 333 KVFKAIAELRKTTMGHITQDHLKQAKIVVPPI----ELISKLDAKLQPIMLKQQILENQN 388

Query: 193 ELLKEKKQALV 203
           + L + +  L+
Sbjct: 389 QELTQLRDWLL 399


>gi|298229449|ref|ZP_06963130.1| putative type I RM modification enzyme [Streptococcus pneumoniae
           str. Canada MDR_19F]
          Length = 372

 Score =  101 bits (250), Expect = 4e-19,   Method: Composition-based stats.
 Identities = 50/394 (12%), Positives = 109/394 (27%), Gaps = 28/394 (7%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V + +      G   +  +D    G E +         K  N          I   G 
Sbjct: 2   KKVKLGQVATFINGYAFKP-QDWSSEGKEIIRIQNLTKTSKGINYYSGTIDKKYIVEAGD 60

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           IL    G  L          + +     +    +  +      +     Q       G+T
Sbjct: 61  ILISWSGT-LGVFQWCGRSAVLNQHIFKVVFDKIDIDKSYFKYVVEKGLQDAVKHTHGST 119

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
           M H   K   NI +    L EQ  I  ++   +  I     +                  
Sbjct: 120 MKHLTKKYFDNIMVSYTNLREQQRIASELDLLSKLILRRQEQLEELNL------------ 167

Query: 206 IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII 265
                L      +  G   +    D+              + +    E   L L+  N+ 
Sbjct: 168 -----LVKSRFNEMFGENKIFESIDNLFDIIDGDRGKNYPKSDELFSEEYCLFLNTKNVT 222

Query: 266 QKLETRN----MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
           +   + +    +    +       ++  +IV        +          +   I S  +
Sbjct: 223 KNGFSFDTKQFITKTKDKLLRKGKLERYDIVLTTRGTVGNVAYYDELIKYKHLRINSGMV 282

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
            ++P   +     +++           +    +  L    +K++ + +PP+  Q +  + 
Sbjct: 283 ILRPKTPNLNQ-KFIIHVLRNNNYSRVISGSAQPQLPITKLKKILLPLPPLALQNEFADF 341

Query: 382 INVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           +     +ID     I++S+  L+  + S +    
Sbjct: 342 VV----QIDKSQLAIQKSLEELETLKKSLMQEYF 371


>gi|297582534|ref|YP_003698314.1| restriction modification system DNA specificity domain-containing
           protein [Bacillus selenitireducens MLS10]
 gi|297140991|gb|ADH97748.1| restriction modification system DNA specificity domain protein
           [Bacillus selenitireducens MLS10]
          Length = 411

 Score =  100 bits (249), Expect = 4e-19,   Method: Composition-based stats.
 Identities = 56/400 (14%), Positives = 131/400 (32%), Gaps = 20/400 (5%)

Query: 25  WKVVPIKRFTKLNTGRTSES---GKDIIYIGLEDVESGT--GKYLPKDGNSRQSDTSTVS 79
           W    +    K + G  +     G+    I + D+ S         ++  S        +
Sbjct: 18  WLTRNLNEIMKFSNGINAPKEAYGQGRKMISVLDILSEEYLTYDNVRNSVSVSEILEQKN 77

Query: 80  IFAKGQILYGKLGPYLR-----KAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
               G +++ +    L      KA + +   + S   +  +       +     L+    
Sbjct: 78  KVEFGDLVFVRSSEVLNEVGLSKAYLDNEYALYSGFSIRGKKISEYDPIFVERSLNGISR 137

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           ++IE    G+T  +   + + ++ + +P + EQ  I E        +D  I  + + I L
Sbjct: 138 RQIERKSGGSTRYNVSQEILNSLFINMPTVQEQQKIGEF----FKNLDDRIALQQQHITL 193

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
           LKE KQ  +  +  K      +++  G      V +   +              +     
Sbjct: 194 LKESKQGFLQKMFPKDGERVPEVRFDGFSGEWEVLEIKNIAAETYGGGTPKTSISDYWNG 253

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
           NI  +   ++   +       K  S           +    I +       + A V    
Sbjct: 254 NIPWIQSSDLKTDVLNLVSPTKFISDAGINNSATKLVPENSIAIVTRVGVGKLALVPYPY 313

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP-IK 373
             +  ++++    ID  +  + +    + K    +     + +   ++ +  +++P  +K
Sbjct: 314 ATSQDFLSLSSLKIDLKFALYSLY-LIIKKEVNNLQGTSIKGITKPELLKKKIIIPSNLK 372

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           EQ  I          +D  +   E+ + LL+E +  F+  
Sbjct: 373 EQQKIGEF----FKNLDDSIAAHEKELELLQETKKGFLQK 408


>gi|108563887|ref|YP_628203.1| type I R-M system specificity subunit [Helicobacter pylori HPAG1]
 gi|107837660|gb|ABF85529.1| type I R-M system specificity subunit [Helicobacter pylori HPAG1]
          Length = 375

 Score =  100 bits (249), Expect = 4e-19,   Method: Composition-based stats.
 Identities = 47/406 (11%), Positives = 106/406 (26%), Gaps = 44/406 (10%)

Query: 21  IPKHWKVVPIKRF-----TKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           +P +W+ V +         K      +    +I +  +    +    ++ K         
Sbjct: 6   LPLNWQRVRLGDIGKPCMCKRVMKHQTTRYGEIPFYKIGTFGNTADAFISKKLFL--EYK 63

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
           +  S   KG IL    G   +  I            +V        E L           
Sbjct: 64  TKYSFPKKGDILISASGTIGKAVIYDGKPAYFQDSNIVWI---DNDETLVKNDFLFYAYS 120

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            ++   E  T+         N  +P+PPL EQ+ I   +      + +L    ++   + 
Sbjct: 121 NVKWNTEHTTILRLYNDNFRNTLIPLPPLNEQIAIANILSDLDHYLYSLDALILKKESVK 180

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
           K     L+S                  + +      W+      +              +
Sbjct: 181 KALSFELLSQ----------------RKRLKGFNQAWQRVRLGDICEITTGSLDANEMVH 224

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
                +    ++    +                       I               +   
Sbjct: 225 YGKYRFYTCAKEYYFIDKYAFDTEAI-------------LISGNGAYVGYVHYYKGKFNA 271

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
               Y+          ++ + +  +    +      G    +    +K   +L+PP+ EQ
Sbjct: 272 YQRTYVLDNFSEHI-IFIKYFLTMFLQSHIQTNRNEGNTPYIVTATLKDFEILLPPLNEQ 330

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
             I N+++     I  L  K  Q     +  + +     ++ +I +
Sbjct: 331 IAIANILSDLDNEIISLKNKKRQ----FESIKKALNHDLMSAKIRV 372


>gi|58427672|gb|AAW76709.1| restriction endonuclease S subunits [Xanthomonas oryzae pv. oryzae
           KACC10331]
          Length = 536

 Score =  100 bits (249), Expect = 4e-19,   Method: Composition-based stats.
 Identities = 61/418 (14%), Positives = 141/418 (33%), Gaps = 29/418 (6%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+   +    ++N  R+ + GK   +I ++ +        P+    R+   S +  F  G
Sbjct: 126 WRCTTVGDAFEVNPLRSVQRGKVTPFIPMDLLPVNER--SPERIEKREFTGSGIK-FKNG 182

Query: 85  QILYGKLGPYLRKAIIADFDGI-------CSTQFLV--LQPKDVLPELLQGWLLSIDVTQ 135
             L  ++ P L     A   G+        ST+++V   +P             S D  +
Sbjct: 183 DTLIARITPCLENGKTAFISGLQDGEVAHGSTEYIVLGGRPNHSDGLFAYYIARSPDFRR 242

Query: 136 RIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
                 EG +         +   P+ +PP++EQ +I   +     +I+           +
Sbjct: 243 YAIGQMEGTSGRQRVPSAAVEKYPLALPPISEQRVISRILGGLDDKIELNRRMNQTLEAM 302

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPF-FALVTELNRKNTKLIE 253
            +   ++   + V     P   M+ S    +GL+P  W++              + + IE
Sbjct: 303 ARALFKS---WFVDFDGVPPDDMQKS---ELGLIPKGWKLSRLGVECSYLSRGISPEYIE 356

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQI----VDPGEIVFRFIDLQNDKRSLRSAQ 309
              + +     I+         +        +    +  G+++     +    R  +   
Sbjct: 357 DGGVLVINQKCIRDFSIDTSKARRHDPTQRSVEERKIQFGDVLVNSTGVGTLGRVAQVLS 416

Query: 310 VMERGIITSAYMAVKPHGID-STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVL 368
           + E  ++ S    V+       TYL                GS  +  L    +  +P++
Sbjct: 417 LDEPTVVDSHVTVVRAGQRLRHTYLGQWFSDKQSEIQTMGEGSTGQTELSRLKLAHMPII 476

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
           +P    Q  + +  +   + ++  +   + S   L   R + +   +TG++ ++   +
Sbjct: 477 IPS---QKLLADF-DAIVSPLNSKIALADSSSRSLATLRDALLPKLITGELRVQDAER 530



 Score = 49.4 bits (116), Expect = 0.001,   Method: Composition-based stats.
 Identities = 27/194 (13%), Positives = 59/194 (30%), Gaps = 7/194 (3%)

Query: 18  IGAIPKHWKVVPIK-RFTKLNTGRTSESGKD--IIYIGLEDVESGTGKYLPKDGNSRQSD 74
           +G IPK WK+  +    + L+ G + E  +D  ++ I  + +   +        +     
Sbjct: 327 LGLIPKGWKLSRLGVECSYLSRGISPEYIEDGGVLVINQKCIRDFSIDTSKARRHDPTQR 386

Query: 75  TSTVSIFAKGQILYGKL--GPYLRKAII--ADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
           +        G +L      G   R A +   D   +  +   V++    L     G   S
Sbjct: 387 SVEERKIQFGDVLVNSTGVGTLGRVAQVLSLDEPTVVDSHVTVVRAGQRLRHTYLGQWFS 446

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
              ++           +      + ++P+ IP           +     +I    +    
Sbjct: 447 DKQSEIQTMGEGSTGQTELSRLKLAHMPIIIPSQKLLADFDAIVSPLNSKIALADSSSRS 506

Query: 191 FIELLKEKKQALVS 204
              L       L++
Sbjct: 507 LATLRDALLPKLIT 520


>gi|73670136|ref|YP_306151.1| type I restriction-modification system specificity subunit
           [Methanosarcina barkeri str. Fusaro]
 gi|72397298|gb|AAZ71571.1| type I restriction-modification system specificity subunit
           [Methanosarcina barkeri str. Fusaro]
          Length = 446

 Score =  100 bits (249), Expect = 4e-19,   Method: Composition-based stats.
 Identities = 68/421 (16%), Positives = 141/421 (33%), Gaps = 32/421 (7%)

Query: 23  KHWKVVPIKRF-TKLNTGRT---SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT--- 75
             WK VPIK     L  G       S    I++G++++       L +  N  + D    
Sbjct: 8   NSWKKVPIKNLYLGLYDGPHATPKPSLSGPIFLGIKNITEDGRLDLSQIRNISEDDFPKW 67

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIAD-FDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
           +   +  +G I++         A+I   F G    +  +++P   +      +       
Sbjct: 68  TKRVLPTEGDIVFSYEATLNLYAMIPKGFRGCLGRRLALIRPDTEIVNPKFLYYSFFGEE 127

Query: 135 QRI---EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            R    + +  GAT+         N  + IP  + Q  I   +      I+         
Sbjct: 128 WRNTISKNLISGATVDRIPLINFPNFEVSIPIHSIQRKIASILSNYDNLIENNTRRIEIL 187

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
                +  + +      K   P  +  +     +G +P+ W+V+    LV          
Sbjct: 188 E----QIAKLVYEEWFVKFRFPGHENVEMVSSELGEIPEGWKVEKLSELVKTQYGYTESA 243

Query: 252 IESNI-------LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
            E  I         ++  + I   E     + PE  + Y +     +V R  D       
Sbjct: 244 TEEEIGPKFLRGKDINKQSYISWDEVPFCSISPEVLDKYLLKKGDIVVIRMADP----GK 299

Query: 305 LRSAQVMERGIITSAYMA-VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDV 362
           +   +     +  S  +       I   YL + ++S        A  +G  R+S     +
Sbjct: 300 VGIVETEVNAVFASYLIRLEIIKNIKPYYLFYFLQSDKFQNYVIAASTGTTRKSASAGVI 359

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
             + +++PP        + I +   ++++L+ K +     L++ R   +   ++G+ID+ 
Sbjct: 360 TNIDLIIPPEYLLTLFEDKIGLLRKQLNILINKNQN----LRKTRDLLLPKLISGEIDVS 415

Query: 423 G 423
            
Sbjct: 416 D 416



 Score = 65.2 bits (157), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 39/193 (20%), Positives = 71/193 (36%), Gaps = 6/193 (3%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGKDII---YIGLEDVES-GTGKYLPKDGNSRQS 73
           +G IP+ WKV  +    K   G T  + ++ I   ++  +D+       +      S   
Sbjct: 217 LGEIPEGWKVEKLSELVKTQYGYTESATEEEIGPKFLRGKDINKQSYISWDEVPFCSISP 276

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVL--QPKDVLPELLQGWLLSI 131
           +     +  KG I+  ++    +  I+          +L+     K++ P  L  +L S 
Sbjct: 277 EVLDKYLLKKGDIVVIRMADPGKVGIVETEVNAVFASYLIRLEIIKNIKPYYLFYFLQSD 336

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
                + A   G T   A    I NI + IPP     L  +KI     +++ LI +    
Sbjct: 337 KFQNYVIAASTGTTRKSASAGVITNIDLIIPPEYLLTLFEDKIGLLRKQLNILINKNQNL 396

Query: 192 IELLKEKKQALVS 204
            +        L+S
Sbjct: 397 RKTRDLLLPKLIS 409


>gi|313112145|ref|ZP_07797926.1| hypothetical protein PA39016_004130024 [Pseudomonas aeruginosa
           39016]
 gi|310884428|gb|EFQ43022.1| hypothetical protein PA39016_004130024 [Pseudomonas aeruginosa
           39016]
          Length = 277

 Score =  100 bits (249), Expect = 4e-19,   Method: Composition-based stats.
 Identities = 59/300 (19%), Positives = 120/300 (40%), Gaps = 30/300 (10%)

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            + ++      G  +S+   + +G+I   +PPLAEQ  I E +       D  IT   + 
Sbjct: 1   MIKRQFSESGGGTNISNLSQQILGDIAFRLPPLAEQKKIAEIL----STWDQAITTSEQL 56

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           +E  K++K++L+  ++            SG + +      W          E        
Sbjct: 57  LENNKQQKKSLIQQLL------------SGKKRLPGFSTKWRDIRLGEAFQERVEIGFIK 104

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
           +    ++   G +I + ET            Y  + PG+I +  + +      L + +  
Sbjct: 105 LPLLSITAEEG-VIDRDETGRKDTSKSDKSKYLRICPGDIGYNTMRMWQGVSGLSTLE-- 161

Query: 312 ERGIITSAYMAVKPHGI-DSTYLAWLMRSYDLCKVFYAMGSGLR---QSLKFEDVKRLPV 367
             G+++ AY  + P    D  + ++L +   L   FY    GL     +LK+ +  ++  
Sbjct: 162 --GLVSPAYTVLTPKPEVDPLFASYLFKLPALVHAFYRHSQGLVSDTWNLKYSNFAKIKW 219

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR-GESQ 426
            +P ++EQ  I  V+    A  D  +E +   +  LK+ R + +   +TG+  ++  E +
Sbjct: 220 SIPGVEEQKAIAAVL----ASADREIEILRLQLAGLKQERKALMQQLLTGKRRVKVDEPE 275



 Score = 50.6 bits (119), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 27/183 (14%), Positives = 60/183 (32%), Gaps = 6/183 (3%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+ + +    +            +  + +   E    +      ++ +SD S       G
Sbjct: 85  WRDIRLGEAFQERVEIGFIK---LPLLSITAEEGVIDRDETGRKDTSKSDKSKYLRICPG 141

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            I Y  +  +   + ++  +G+ S  + VL PK  +  L   +L  +             
Sbjct: 142 DIGYNTMRMWQGVSGLSTLEGLVSPAYTVLTPKPEVDPLFASYLFKLPALVHAFYRHSQG 201

Query: 145 TM---SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            +    +  +     I   IP + EQ  I   + +    I+ L  +     +  K   Q 
Sbjct: 202 LVSDTWNLKYSNFAKIKWSIPGVEEQKAIAAVLASADREIEILRLQLAGLKQERKALMQQ 261

Query: 202 LVS 204
           L++
Sbjct: 262 LLT 264


>gi|253315067|ref|ZP_04838280.1| putative restriction/modification system specificity protein
           [Staphylococcus aureus subsp. aureus str. CF-Marseille]
          Length = 397

 Score =  100 bits (249), Expect = 4e-19,   Method: Composition-based stats.
 Identities = 58/405 (14%), Positives = 130/405 (32%), Gaps = 39/405 (9%)

Query: 24  HWKVVPIKRFTKLNTGRTSE-SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            W+   +   T     +      K  + I  +       +Y  K  +S+  +    ++  
Sbjct: 14  EWEEKQLGDLTDRVIRKNKNLESKKPLTISGQLGLIDQTEYFSKSVSSKNLE--NYTLIK 71

Query: 83  KGQILYGKLGPYLRKAIIAD-----FDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
            G+  Y K                   G+ S+ ++    K  + +             R 
Sbjct: 72  NGEFAYNKSYSNGYPLGAIKRLTRYDSGVLSSLYICFSIKSEMSKDFMEAYFDSTHWYRE 131

Query: 138 EAIC-----EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
            +           + +        I +  P L EQ  I +       +I+    +     
Sbjct: 132 VSGIAVEGARNHGLLNVSVNDFFTILIKYPSLEEQQKIGKFFSKLDRQIELEEQKLELLQ 191

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           +  K   Q + S  +               +  G     WE       + E N ++    
Sbjct: 192 QQKKGYMQKIFSQELRFK------------DENGEDYPDWENSKIEKYLKERNERSD--K 237

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
              +       II+  E        +    Y++V   +I +  + +        +     
Sbjct: 238 GQMLSVTINSGIIKFSELDRKDNSSKDKSNYKVVRKNDIAYNSMRMWQGASGKSNY---- 293

Query: 313 RGIITSAYMAVKPHGIDSTYL-AWLMRSYDLCKVFYAMGSGLR---QSLKFEDVKRLPVL 368
            GI++ AY  + P    S+    +  +++ +   F     GL     +LK++ +K + + 
Sbjct: 294 NGIVSPAYTVLYPTQNTSSLFIGYKFKTHRMIHKFKINSQGLTSDTWNLKYKQLKNINID 353

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           +P ++EQ  I +       ++D+L+ K +  I +L++ + SF+  
Sbjct: 354 IPVLEEQEKIGDF----FKKMDILISKQKMKIEILEKEKQSFLQK 394



 Score = 57.1 bits (136), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 33/184 (17%), Positives = 66/184 (35%), Gaps = 9/184 (4%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKD-GNSRQSDTSTVSIFA 82
            W+   I+++ K    R+ +       + +  + SG  K+   D  ++   D S   +  
Sbjct: 218 DWENSKIEKYLKERNERSDKGQM----LSVT-INSGIIKFSELDRKDNSSKDKSNYKVVR 272

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           K  I Y  +  +   +  ++++GI S  + VL P      L  G+            I  
Sbjct: 273 KNDIAYNSMRMWQGASGKSNYNGIVSPAYTVLYPTQNTSSLFIGYKFKTHRMIHKFKINS 332

Query: 143 G---ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
               +   +  +K + NI + IP L EQ  I +      + I     +     +  +   
Sbjct: 333 QGLTSDTWNLKYKQLKNINIDIPVLEEQEKIGDFFKKMDILISKQKMKIEILEKEKQSFL 392

Query: 200 QALV 203
           Q + 
Sbjct: 393 QKMF 396


>gi|291285727|ref|YP_003502545.1| putative type I restriction-modification system, S subunit
           [Escherichia coli O55:H7 str. CB9615]
 gi|290765600|gb|ADD59561.1| Putative type I restriction-modification system, S subunit
           [Escherichia coli O55:H7 str. CB9615]
 gi|320660661|gb|EFX28122.1| putative type I restriction-modification system, S subunit
           [Escherichia coli O55:H7 str. USDA 5905]
          Length = 584

 Score =  100 bits (249), Expect = 4e-19,   Method: Composition-based stats.
 Identities = 75/489 (15%), Positives = 141/489 (28%), Gaps = 94/489 (19%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT 60
           +K  K  P+   S  +    +P+ W+ V I         +T    KD  YI +  +    
Sbjct: 83  IKKQKPLPEI--SEEEKPFELPEGWEWVRISEIGHDWGQKTP--DKDFTYIDVGSINKEY 138

Query: 61  GKYLPKDG-NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDG----ICSTQFLVLQ 115
           G        +++ + +    I  +G I+Y  + PYL    I + +     I ST F ++ 
Sbjct: 139 GIIEELSILSAKDAPSRARKIVQQGTIIYSTVRPYLLNIAIIENEILPEPIASTAFAIIH 198

Query: 116 PKD-VLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK- 173
           P   +    +  +L S      +E    G      + K   +   P+PP  EQV I  K 
Sbjct: 199 PYTAMDANFIYYYLRSPVFVCYVENCQTGVAYPAINDKQFFSGITPVPPSLEQVRIANKI 258

Query: 174 ----------------------------------------IIAETVRIDTLITERIRFIE 193
                                                   +     RI            
Sbjct: 259 KELMSLCDQLEQQSLTSLDAHQQLVETLLGTLTDSQTAEELAENWARISEYFDTLFTTEV 318

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKD-------------------------------SGI 222
            +   KQ ++   V   L P     +                               S  
Sbjct: 319 SVDALKQTILQLAVMGKLVPQDPNDEPASELLKRIAQEKAQLVKEGKIKKQKPLPPISDE 378

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNT---------KLIESNILSLSYGNIIQKLETRNM 273
           E    +P+ WE   F  ++   +               +    ++      +   E + +
Sbjct: 379 EKPFELPEGWEWCLFEDIIDIQSGITKGRNLSNRTLVKVPYLRVANVQRGYLDLTEIKQI 438

Query: 274 GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM-AVKPHGIDSTY 332
            +  E  E YQ+V    ++    D     R+               +        +D  +
Sbjct: 439 EIPIEEKEKYQVVKGDLLITEGGDWDTVGRTTVWCHDWYIANQNHVFKGRNIGQDVDPYW 498

Query: 333 LAWLMRSYDLCKVFY--AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
           L   M S    + F   +  +    S+    ++  PV +PP  E   I + +++     +
Sbjct: 499 LETYMNSPFSRQYFANASKQTTNLASINKTQLRGCPVAIPPSSEAKKIMSKLHIFYKLCE 558

Query: 391 VLVEKIEQS 399
            L   I+ +
Sbjct: 559 ELKNHIQSA 567



 Score = 76.0 bits (185), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 32/195 (16%), Positives = 73/195 (37%), Gaps = 3/195 (1%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLET-RNMGLKPE 278
           S  E    +P+ WE      +  +  +K      + I   S       +E    +  K  
Sbjct: 93  SEEEKPFELPEGWEWVRISEIGHDWGQKTPDKDFTYIDVGSINKEYGIIEELSILSAKDA 152

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG-IDSTYLAWLM 337
                +IV  G I++  +       ++   +++   I ++A+  + P+  +D+ ++ + +
Sbjct: 153 PSRARKIVQQGTIIYSTVRPYLLNIAIIENEILPEPIASTAFAIIHPYTAMDANFIYYYL 212

Query: 338 RSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
           RS           +G+   ++  +        VPP  EQ  I N I    +  D L ++ 
Sbjct: 213 RSPVFVCYVENCQTGVAYPAINDKQFFSGITPVPPSLEQVRIANKIKELMSLCDQLEQQS 272

Query: 397 EQSIVLLKERRSSFI 411
             S+   ++   + +
Sbjct: 273 LTSLDAHQQLVETLL 287



 Score = 72.5 bits (176), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 25/202 (12%), Positives = 55/202 (27%), Gaps = 13/202 (6%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESG------KDIIYIGLEDVESGTGKYLPKDGNSRQS 73
            +P+ W+    +    + +G T            + Y+ + +V+ G              
Sbjct: 383 ELPEGWEWCLFEDIIDIQSGITKGRNLSNRTLVKVPYLRVANVQRGYLDLTEIKQIEIPI 442

Query: 74  DTSTVSIFAKGQILYGKLGPY---LRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
           +        KG +L  + G +    R  +      I +   +                  
Sbjct: 443 EEKEKYQVVKGDLLITEGGDWDTVGRTTVWCHDWYIANQNHVFKGRNIGQDVDPYWLETY 502

Query: 131 IDV----TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           ++          A  +   ++  +   +   P+ IPP +E   I  K+       + L  
Sbjct: 503 MNSPFSRQYFANASKQTTNLASINKTQLRGCPVAIPPSSEAKKIMSKLHIFYKLCEELKN 562

Query: 187 ERIRFIELLKEKKQALVSYIVT 208
                 +       AL    V 
Sbjct: 563 HIQSAQQTQLHLADALTDAAVN 584


>gi|329117251|ref|ZP_08245968.1| type I restriction modification DNA specificity domain protein
           [Streptococcus parauberis NCFD 2020]
 gi|326907656|gb|EGE54570.1| type I restriction modification DNA specificity domain protein
           [Streptococcus parauberis NCFD 2020]
          Length = 386

 Score =  100 bits (249), Expect = 4e-19,   Method: Composition-based stats.
 Identities = 47/396 (11%), Positives = 112/396 (28%), Gaps = 34/396 (8%)

Query: 24  HWKVVPIKRFTKL-----NTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
            W+   +              +++E         L   +S    Y  +    + +     
Sbjct: 16  DWEERKLGEIFNYEQPTKYIVKSTEYDDTFNTPVLTAGKSFLLGYTDEITGIKNAT---- 71

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
                  +++           +     I S+   +L   D        +    ++    +
Sbjct: 72  --VENPVVIF--DDFTTGSHYVDFPFKIKSSAMKLLSLNDNSDNFYFMFNTLKNIKYVPQ 127

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
           +                 I  P           +KI +   ++D  I    R ++LLKE+
Sbjct: 128 SHE----RHWISKFSEFEIYKPSQEEQ------QKIGSFFKQLDDTIALHQRKLDLLKEQ 177

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
           K+  +  +  K      +++ +G           +       +             N   
Sbjct: 178 KKGFLQKMFPKNGAKVPELRFAGFADDWEERKFSDFTKLSQGLQIAISDRFTEAGPNKEF 237

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
                 +    T+      E+     I +  +I+           +              
Sbjct: 238 YITNEFLNPNNTKK--YYIENPSKNVIANTNDILMTRTGNTGKVVT----NTKGAFHNNF 291

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFY-AMGSGLRQSLKFEDVKRLPVLVPPIKEQFD 377
             +   P  I   +L +L+ S  + K      G+     L  +D  ++ V +P  +EQ  
Sbjct: 292 FKIDYDPKKISKLFLYFLLTSIPIQKEILIRAGTSTIPDLNHKDFYKIKVYLPIFEEQQR 351

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           I +       ++D  +   ++ + LLKE++  ++  
Sbjct: 352 IGSF----FKQLDDTIALHQRKLDLLKEQKKGYLQK 383


>gi|148825521|ref|YP_001290274.1| hypothetical protein CGSHiEE_02145 [Haemophilus influenzae PittEE]
 gi|148715681|gb|ABQ97891.1| hypothetical protein CGSHiEE_02145 [Haemophilus influenzae PittEE]
          Length = 383

 Score =  100 bits (249), Expect = 4e-19,   Method: Composition-based stats.
 Identities = 58/388 (14%), Positives = 125/388 (32%), Gaps = 33/388 (8%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           +  P+     +              +      SG   Y     N+ Q      +   +G+
Sbjct: 7   EWKPLDEVANIVNNARKP-------VKSSSRVSGNIPY--YGANNIQDYVEGYT--HEGE 55

Query: 86  ILY----GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            +     G           A      +    V+  K+ L        L+        A  
Sbjct: 56  FVLIAEDGSASLENYSIQWAVGKFWANNHVHVVNGKEKLNNRFLYHYLTNMNFIPFLA-- 113

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            G   +      +  IP+PIPPL+ Q  I + + A T     L +E    + L +++ + 
Sbjct: 114 -GKERAKLTKAKLQQIPIPIPPLSVQTEIVKILDALTALTSELTSELTSELILRQKQYEY 172

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
               ++++      ++   G EW          K   +  T     N       I  L  
Sbjct: 173 YREKLLSEE-----ELGKVGFEW---KTIDEISKKISSGGTPTTSNNGYYDNGTIPWLRT 224

Query: 262 GNIIQKLETRNMGLKPES---YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
             +  K          E      + + +    ++         K ++    +       +
Sbjct: 225 QEVDFKEIWDTNIKITEDALNNSSAKWIPANCVIVAMYGATVGKTAINKIPLTTNQACAN 284

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
             + +        Y+   + S    +   ++GSG + ++  + +K+L V VPPI+EQ+ I
Sbjct: 285 --IEINDKLACYRYIFHYLTSKY--EYIKSLGSGSQTNINAQIIKKLKVPVPPIEEQYRI 340

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKER 406
            ++++      + + E +  +I   ++R
Sbjct: 341 VSILDKFETLTNSITEGLPLAIEQSQKR 368


>gi|298695075|gb|ADI98297.1| Type I restriction-modification system, specificity subunit S
           [Staphylococcus aureus subsp. aureus ED133]
          Length = 392

 Score =  100 bits (249), Expect = 4e-19,   Method: Composition-based stats.
 Identities = 57/397 (14%), Positives = 117/397 (29%), Gaps = 30/397 (7%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W+   ++   K+N+G+  +            ++ G        G           +   
Sbjct: 20  EWEEKKLESIIKVNSGKDYK-----------HLDKGDIPVYGTGGYMTSVSEP---LSEI 65

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
             +  G+ G   +  ++        T F     K+     +             +   E 
Sbjct: 66  DAVGIGRKGTINKPYLLEAPFWTVDTLFYCTPKKETDILFILSLFR----KINWKVYDES 121

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
             +     + I  I   +P   EQ  I +       +I+    +     +  K   Q + 
Sbjct: 122 TGVPSLSKQTINKINRFVPTNKEQQKIGKFFSKLDRQIELQEQKLELLQQQKKGYMQKIF 181

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
           S  +           +     +  V                  K    +ES        N
Sbjct: 182 SQELRFKDENGNDYPEWENVMLQKVLKDKTEG-IKRGPFGGALKKDIFVESGYAVYEQRN 240

Query: 264 IIQKLETRNMGLKPESYETY--QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
            I  +      +    Y+      V P +I+            +       +GII  A +
Sbjct: 241 AIYDISNFRYYINENKYKEMQSFSVQPNDIIMSCSGTIGRLALIPHNYT--KGIINQALI 298

Query: 322 AVKPHGID-STYLAWLMRSYDLCKVFYAM--GSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
             + +    S +    MRS  + +       GS +   +  +++K +P  +P   EQ  I
Sbjct: 299 RFRTNHKIRSEFFLIFMRSNQMQRKILEANPGSAITNLVPVKELKLIPFPLPVKFEQDKI 358

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           +  I++    I+  +E+ E+ I  LK R+  F+    
Sbjct: 359 SQFIHI----INRRIEQSEKKIESLKNRKQGFLQKLF 391



 Score = 66.0 bits (159), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 28/165 (16%), Positives = 61/165 (36%), Gaps = 19/165 (11%)

Query: 275 LKPESYETYQIVDPGEIVFRFIDLQNDKRS-----LRSAQVMERGIITSAYMAVKPHGID 329
           +K  S + Y+ +D G+I            S     + +  +  +G I   Y+   P    
Sbjct: 30  IKVNSGKDYKHLDKGDIPVYGTGGYMTSVSEPLSEIDAVGIGRKGTINKPYLLEAPFWTV 89

Query: 330 STYLA----------WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
            T             +++  +          S    SL  + + ++   VP  KEQ  I 
Sbjct: 90  DTLFYCTPKKETDILFILSLFRKINWKVYDESTGVPSLSKQTINKINRFVPTNKEQQKIG 149

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGE 424
                  +++D  +E  EQ + LL++++  ++    + ++  + E
Sbjct: 150 KF----FSKLDRQIELQEQKLELLQQQKKGYMQKIFSQELRFKDE 190


>gi|325913553|ref|ZP_08175918.1| hypothetical protein HMPREF0523_1024 [Lactobacillus iners UPII
           60-B]
 gi|325477132|gb|EGC80279.1| hypothetical protein HMPREF0523_1024 [Lactobacillus iners UPII
           60-B]
          Length = 389

 Score =  100 bits (249), Expect = 4e-19,   Method: Composition-based stats.
 Identities = 47/374 (12%), Positives = 117/374 (31%), Gaps = 11/374 (2%)

Query: 50  YIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICST 109
           YI  +++    G  +  +   +    +       G IL   + PY +K   +D    CS 
Sbjct: 25  YITTDNMIPNRGGVVDCESLPKAKRVTRY---EPGDILISNIRPYFKKIWFSDRISGCSN 81

Query: 110 QFLVLQPKDVLPELLQGWLL--SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQ 167
             +V +  D        + +         + +   G  M   + K I    +P   + +Q
Sbjct: 82  DVIVFRANDENWNKKFLYYVLSQDSFFDFMMSGSNGTKMPRGNKKTIPEFLIPDFDIDKQ 141

Query: 168 VLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGL 227
           + I + + A    I+    +     E  +   +     +   G      +      W   
Sbjct: 142 IRIADILSAYDSLIENNQKQIKLLEEAAQRLYKEWFVDLHFPGYEDVEIVDGVPEGWKKE 201

Query: 228 VPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVD 287
             + +             ++      + I  LS  ++           +  + E  +  +
Sbjct: 202 RAECFFKITIGKTPPRAEKQWFVNGNNGIPWLSISDMRDAGTFIFKTREGLTEEAIKKHN 261

Query: 288 PGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY 347
              +    I +       R A          A      +     Y    + +++   +  
Sbjct: 262 MKIVPPGTIFVSFKLTVGRVAIATTEMCTNEAIAHFYVNDSLQAYTYCYLSNFEYDTL-- 319

Query: 348 AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
              S + +++  + +K +P ++P      DI    ++  + I   ++  ++    L E R
Sbjct: 320 GNTSSISKAVNSKIIKAMPFIMPS----QDIIENFSMIVSPILNEIKAKQEMCNYLSEAR 375

Query: 408 SSFIAAAVTGQIDL 421
              +   ++G+I++
Sbjct: 376 DRLLPKLMSGEIEV 389



 Score = 52.9 bits (125), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 33/220 (15%), Positives = 66/220 (30%), Gaps = 24/220 (10%)

Query: 3   HYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES---------GKDIIYIGL 53
           H+  Y       V+ +  +P+ WK    + F K+  G+T               I ++ +
Sbjct: 181 HFPGYE-----DVEIVDGVPEGWKKERAECFFKITIGKTPPRAEKQWFVNGNNGIPWLSI 235

Query: 54  EDVES-GTGKYLPKDG-NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQF 111
            D+   GT  +  ++G          + I   G I +      + +  IA  +   +   
Sbjct: 236 SDMRDAGTFIFKTREGLTEEAIKKHNMKIVPPGTI-FVSFKLTVGRVAIATTEMCTNEAI 294

Query: 112 LVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIR 171
                 D L      +L + +              S         I   +P +     I 
Sbjct: 295 AHFYVNDSLQAYTYCYLSNFEY-------DTLGNTSSISKAVNSKIIKAMPFIMPSQDII 347

Query: 172 EKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGL 211
           E        I   I  +      L E +  L+  +++  +
Sbjct: 348 ENFSMIVSPILNEIKAKQEMCNYLSEARDRLLPKLMSGEI 387


>gi|198277087|ref|ZP_03209618.1| hypothetical protein BACPLE_03295 [Bacteroides plebeius DSM 17135]
 gi|198269585|gb|EDY93855.1| hypothetical protein BACPLE_03295 [Bacteroides plebeius DSM 17135]
          Length = 475

 Score =  100 bits (249), Expect = 4e-19,   Method: Composition-based stats.
 Identities = 70/445 (15%), Positives = 140/445 (31%), Gaps = 80/445 (17%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSE----SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            IPK W+   I+  ++   G T      S +  I +   ++++G  K +  D      + 
Sbjct: 30  EIPKGWEWTRIRNISQSYIGLTYSPTDVSSRGTIVLRSSNIQNG--KIVLNDVVRVSKEI 87

Query: 76  STVSIFAKGQILYGKLGP----YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
           S      K  I+            + A++ D     +    +   K  L + +  +L S 
Sbjct: 88  SEKLQVEKNDIIICARNGSAKLVGKSAVVTDVTEPMTFGAFMAICKTALYQYVSIFLQSD 147

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID--------- 182
               ++  +    T++        +  +PIPP  EQ  I EK+   +  I+         
Sbjct: 148 LFFSQLRGVSGTTTINQLTQNNFNDFWIPIPPANEQKRIVEKLQNVSPFIERYSKSQETL 207

Query: 183 --------------------------------------TLITERIRFIELLKEKKQALVS 204
                                                   I +  + +    + K+++++
Sbjct: 208 NLMNIQIKEQLKKSILQEAIQGKLVPQIAEEGTAQELLEQIRQEKQKLVKEGKLKKSVLT 267

Query: 205 YIVTKGLNPDVKMKDSGIEWVG-------LVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
             V    + +   +  G E +         +P  W       + + + R  +        
Sbjct: 268 DSVIYKGDDNKYWEKYGTETICVNDEIPFEIPATWIWVRLDNICSYIQRGKSPKYSPIKK 327

Query: 258 SL--------SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQN---DKRSLR 306
                       G  I K +  +    P SY   +++  G++++    L           
Sbjct: 328 YPVIAQKCNQWAGFCIDKAQFIDPNSLP-SYSEERLLQDGDLMWNSTGLGTLGRMAIYQS 386

Query: 307 SAQVMERGIITSAYMAVKP--HGIDSTYLAWLMRSYDLCKVF--YAMGSGLRQSLKFEDV 362
           +    E  +  S    ++P    I S YL +   S  +  V    + GS  ++ L    V
Sbjct: 387 ALNPYELAVADSHVTVIRPLKEHILSQYLYYYFASDTVQSVIEDKSDGSTKQKELSTTTV 446

Query: 363 KRLPVLVPPIKEQFDITNVINVETA 387
           K   V +PP +EQ  I   I   T+
Sbjct: 447 KNYLVPIPPYREQQRIVEKIKTVTS 471



 Score = 76.0 bits (185), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 26/211 (12%), Positives = 62/211 (29%), Gaps = 11/211 (5%)

Query: 218 KDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES----NILSLSYGNIIQKLETRNM 273
           K    E    +P  WE      +            +      I+  S      K+   ++
Sbjct: 21  KCIDEEIPFEIPKGWEWTRIRNISQSYIGLTYSPTDVSSRGTIVLRSSNIQNGKIVLNDV 80

Query: 274 GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL 333
               +       V+  +I+    +         +        +T              Y+
Sbjct: 81  VRVSKEISEKLQVEKNDIIICARNGSAKLVGKSAVVTDVTEPMTFGAFMAICKTALYQYV 140

Query: 334 AWLMRSYDLCKVFYA-MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
           +  ++S           G+     L   +     + +PP  EQ  I   +   +  I+  
Sbjct: 141 SIFLQSDLFFSQLRGVSGTTTINQLTQNNFNDFWIPIPPANEQKRIVEKLQNVSPFIERY 200

Query: 393 VEKIEQSIVLL-----KERRSSFIAAAVTGQ 418
             K ++++ L+     ++ + S +  A+ G+
Sbjct: 201 -SKSQETLNLMNIQIKEQLKKSILQEAIQGK 230


>gi|15923422|ref|NP_370956.1| restriction modification system specificity subunit [Staphylococcus
           aureus subsp. aureus Mu50]
 gi|15926110|ref|NP_373643.1| restriction modification system specificity subunit [Staphylococcus
           aureus subsp. aureus N315]
 gi|57651318|ref|YP_185367.1| type I restriction-modification system S subunit [Staphylococcus
           aureus subsp. aureus COL]
 gi|87159955|ref|YP_493120.1| putative restriction/modification system specificity protein
           [Staphylococcus aureus subsp. aureus USA300_FPR3757]
 gi|88194193|ref|YP_498985.1| restriction modification system specificity subunit [Staphylococcus
           aureus subsp. aureus NCTC 8325]
 gi|148266893|ref|YP_001245836.1| restriction modification system DNA specificity subunit
           [Staphylococcus aureus subsp. aureus JH9]
 gi|150392938|ref|YP_001315613.1| restriction modification system DNA specificity subunit
           [Staphylococcus aureus subsp. aureus JH1]
 gi|151220611|ref|YP_001331433.1| type I restriction modification system, site specificity
           determination subunit [Staphylococcus aureus subsp.
           aureus str. Newman]
 gi|156978761|ref|YP_001441020.1| restriction modification system specificity subunit [Staphylococcus
           aureus subsp. aureus Mu3]
 gi|161508681|ref|YP_001574340.1| type I site-specific deoxyribonuclease specificity subunit
           [Staphylococcus aureus subsp. aureus USA300_TCH1516]
 gi|221141679|ref|ZP_03566172.1| type I site-specific deoxyribonuclease specificity subunit
           [Staphylococcus aureus subsp. aureus str. JKD6009]
 gi|255005228|ref|ZP_05143829.2| putative restriction/modification system specificity protein
           [Staphylococcus aureus subsp. aureus Mu50-omega]
 gi|257795445|ref|ZP_05644424.1| restriction modification system specificity subunit [Staphylococcus
           aureus A9781]
 gi|258413471|ref|ZP_05681746.1| restriction modification system specificity subunit [Staphylococcus
           aureus A9763]
 gi|258421405|ref|ZP_05684332.1| type I restriction modification system [Staphylococcus aureus
           A9719]
 gi|258436895|ref|ZP_05689235.1| type I site-specific deoxyribonuclease specificity subunit
           [Staphylococcus aureus A9299]
 gi|258444387|ref|ZP_05692721.1| restriction modification system specificity subunit [Staphylococcus
           aureus A8115]
 gi|258445599|ref|ZP_05693779.1| restriction modification system specificity subunit [Staphylococcus
           aureus A6300]
 gi|258448131|ref|ZP_05696260.1| type I restriction-modification system S subunit [Staphylococcus
           aureus A6224]
 gi|258455963|ref|ZP_05703918.1| type I restriction-modification system S subunit [Staphylococcus
           aureus A5937]
 gi|269202054|ref|YP_003281323.1| type I restriction-modification system S subunit [Staphylococcus
           aureus subsp. aureus ED98]
 gi|282893572|ref|ZP_06301805.1| type I restriction enzyme, S subunit [Staphylococcus aureus A8117]
 gi|282927466|ref|ZP_06335084.1| type I restriction enzyme, S subunit [Staphylococcus aureus A10102]
 gi|294850454|ref|ZP_06791184.1| type I restriction enzyme [Staphylococcus aureus A9754]
 gi|295405682|ref|ZP_06815492.1| type I restriction enzyme [Staphylococcus aureus A8819]
 gi|297245590|ref|ZP_06929458.1| type I restriction enzyme [Staphylococcus aureus A8796]
 gi|13700323|dbj|BAB41621.1| probable restriction modification system specificity subunit
           [Staphylococcus aureus subsp. aureus N315]
 gi|14246200|dbj|BAB56594.1| probable restriction modification system specificity subunit
           [Staphylococcus aureus subsp. aureus Mu50]
 gi|57285504|gb|AAW37598.1| type I restriction-modification system, S subunit, EcoA family,
           putative [Staphylococcus aureus subsp. aureus COL]
 gi|87125929|gb|ABD20443.1| putative restriction/modification system specificity protein
           [Staphylococcus aureus subsp. aureus USA300_FPR3757]
 gi|87201751|gb|ABD29561.1| restriction modification system specificity subunit, putative
           [Staphylococcus aureus subsp. aureus NCTC 8325]
 gi|147739962|gb|ABQ48260.1| restriction modification system DNA specificity domain
           [Staphylococcus aureus subsp. aureus JH9]
 gi|149945390|gb|ABR51326.1| restriction modification system DNA specificity domain
           [Staphylococcus aureus subsp. aureus JH1]
 gi|150373411|dbj|BAF66671.1| type I restriction modification system, site specificity
           determination subunit [Staphylococcus aureus subsp.
           aureus str. Newman]
 gi|156720896|dbj|BAF77313.1| probable restriction modification system specificity subunit
           [Staphylococcus aureus subsp. aureus Mu3]
 gi|160367490|gb|ABX28461.1| type I site-specific deoxyribonuclease specificity subunit
           [Staphylococcus aureus subsp. aureus USA300_TCH1516]
 gi|257789417|gb|EEV27757.1| restriction modification system specificity subunit [Staphylococcus
           aureus A9781]
 gi|257839718|gb|EEV64187.1| restriction modification system specificity subunit [Staphylococcus
           aureus A9763]
 gi|257842829|gb|EEV67251.1| type I restriction modification system [Staphylococcus aureus
           A9719]
 gi|257848686|gb|EEV72673.1| type I site-specific deoxyribonuclease specificity subunit
           [Staphylococcus aureus A9299]
 gi|257850646|gb|EEV74594.1| restriction modification system specificity subunit [Staphylococcus
           aureus A8115]
 gi|257855549|gb|EEV78484.1| restriction modification system specificity subunit [Staphylococcus
           aureus A6300]
 gi|257858646|gb|EEV81520.1| type I restriction-modification system S subunit [Staphylococcus
           aureus A6224]
 gi|257862175|gb|EEV84948.1| type I restriction-modification system S subunit [Staphylococcus
           aureus A5937]
 gi|262074344|gb|ACY10317.1| type I restriction-modification system S subunit [Staphylococcus
           aureus subsp. aureus ED98]
 gi|269940012|emb|CBI48388.1| type I restriction-modification system specificity protein
           [Staphylococcus aureus subsp. aureus TW20]
 gi|282590790|gb|EFB95866.1| type I restriction enzyme, S subunit [Staphylococcus aureus A10102]
 gi|282764258|gb|EFC04385.1| type I restriction enzyme, S subunit [Staphylococcus aureus A8117]
 gi|285816132|gb|ADC36619.1| Type I restriction-modification system, specificity subunit S
           [Staphylococcus aureus 04-02981]
 gi|294822657|gb|EFG39096.1| type I restriction enzyme [Staphylococcus aureus A9754]
 gi|294969757|gb|EFG45776.1| type I restriction enzyme [Staphylococcus aureus A8819]
 gi|297177576|gb|EFH36827.1| type I restriction enzyme [Staphylococcus aureus A8796]
 gi|302750322|gb|ADL64499.1| restriction endonuclease S subunit [Staphylococcus aureus subsp.
           aureus str. JKD6008]
 gi|312828928|emb|CBX33770.1| type I restriction modification DNA specificity domain protein
           [Staphylococcus aureus subsp. aureus ECT-R 2]
 gi|315130060|gb|EFT86049.1| type I site-specific deoxyribonuclease specificity subunit
           [Staphylococcus aureus subsp. aureus CGS03]
 gi|320139278|gb|EFW31157.1| type I restriction modification DNA specificity domain protein
           [Staphylococcus aureus subsp. aureus MRSA131]
 gi|329313151|gb|AEB87564.1| Restriction modification system DNA specificity domain protein
           [Staphylococcus aureus subsp. aureus T0131]
 gi|329725596|gb|EGG62075.1| type I restriction modification DNA specificity domain protein
           [Staphylococcus aureus subsp. aureus 21172]
 gi|329730503|gb|EGG66892.1| type I restriction modification DNA specificity domain protein
           [Staphylococcus aureus subsp. aureus 21189]
          Length = 403

 Score =  100 bits (249), Expect = 4e-19,   Method: Composition-based stats.
 Identities = 58/405 (14%), Positives = 130/405 (32%), Gaps = 39/405 (9%)

Query: 24  HWKVVPIKRFTKLNTGRTSE-SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            W+   +   T     +      K  + I  +       +Y  K  +S+  +    ++  
Sbjct: 20  EWEEKQLGDLTDRVIRKNKNLESKKPLTISGQLGLIDQTEYFSKSVSSKNLE--NYTLIK 77

Query: 83  KGQILYGKLGPYLRKAIIAD-----FDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
            G+  Y K                   G+ S+ ++    K  + +             R 
Sbjct: 78  NGEFAYNKSYSNGYPLGAIKRLTRYDSGVLSSLYICFSIKSEMSKDFMEAYFDSTHWYRE 137

Query: 138 EAIC-----EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
            +           + +        I +  P L EQ  I +       +I+    +     
Sbjct: 138 VSGIAVEGARNHGLLNVSVNDFFTILIKYPSLEEQQKIGKFFSKLDRQIELEEQKLELLQ 197

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           +  K   Q + S  +               +  G     WE       + E N ++    
Sbjct: 198 QQKKGYMQKIFSQELRFK------------DENGEDYPDWENSKIEKYLKERNERSD--K 243

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
              +       II+  E        +    Y++V   +I +  + +        +     
Sbjct: 244 GQMLSVTINSGIIKFSELDRKDNSSKDKSNYKVVRKNDIAYNSMRMWQGASGKSNY---- 299

Query: 313 RGIITSAYMAVKPHGIDSTYL-AWLMRSYDLCKVFYAMGSGLR---QSLKFEDVKRLPVL 368
            GI++ AY  + P    S+    +  +++ +   F     GL     +LK++ +K + + 
Sbjct: 300 NGIVSPAYTVLYPTQNTSSLFIGYKFKTHRMIHKFKINSQGLTSDTWNLKYKQLKNINID 359

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           +P ++EQ  I +       ++D+L+ K +  I +L++ + SF+  
Sbjct: 360 IPVLEEQEKIGDF----FKKMDILISKQKMKIEILEKEKQSFLQK 400



 Score = 57.1 bits (136), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 33/184 (17%), Positives = 66/184 (35%), Gaps = 9/184 (4%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKD-GNSRQSDTSTVSIFA 82
            W+   I+++ K    R+ +       + +  + SG  K+   D  ++   D S   +  
Sbjct: 224 DWENSKIEKYLKERNERSDKGQM----LSVT-INSGIIKFSELDRKDNSSKDKSNYKVVR 278

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           K  I Y  +  +   +  ++++GI S  + VL P      L  G+            I  
Sbjct: 279 KNDIAYNSMRMWQGASGKSNYNGIVSPAYTVLYPTQNTSSLFIGYKFKTHRMIHKFKINS 338

Query: 143 G---ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
               +   +  +K + NI + IP L EQ  I +      + I     +     +  +   
Sbjct: 339 QGLTSDTWNLKYKQLKNINIDIPVLEEQEKIGDFFKKMDILISKQKMKIEILEKEKQSFL 398

Query: 200 QALV 203
           Q + 
Sbjct: 399 QKMF 402


>gi|302332147|gb|ADL22340.1| type I restriction modification system, site specificity
           determination subunit, HsdS_1 [Staphylococcus aureus
           subsp. aureus JKD6159]
          Length = 411

 Score =  100 bits (249), Expect = 4e-19,   Method: Composition-based stats.
 Identities = 60/401 (14%), Positives = 140/401 (34%), Gaps = 25/401 (6%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKD----IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            W+   ++         +    K+      +I   D+ S     L  DGN        V 
Sbjct: 20  EWEEKKLEDLGLFQKSYSFSRAKEGNGKTKHIHYGDIHSKFKTVLDSDGNIPNIIEKAVF 79

Query: 80  -IFAKGQILYGK----LGPYLRKAIIADFDGICSTQFLVLQPKDVLP---ELLQGWLLSI 131
            +  KG I++           +  +I        +       + +       L  +  ++
Sbjct: 80  ELIQKGDIVFADASEDYSDLGKAVMIDFEPNSLISGLHTHLFRPLNNAISNFLIFYTKTL 139

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
              + I     G ++     K + N+ + IP    +    +KI     ++D  I    + 
Sbjct: 140 SYKKFIRQQGTGISVLGISKKSLLNLNVLIPRSELEQ---QKIGQFFSKLDRQIELEEQK 196

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           +ELL+++K+  +  I ++ L    +  +   EW     +           +  N +    
Sbjct: 197 LELLQQQKKGYMQKIFSQELRFKDENGNDYPEWENKRIEDIANVNKGFTPSTNNNEYWDN 256

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
            + N LS++  N  + L   N G+  ++ + Y  V    ++  F         +++    
Sbjct: 257 NDKNWLSIAGMNQ-KYLYKGNKGISKDAAKNYMKVKNDTLIMSFKLTIGKLAIVKAPLYT 315

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
              I    +   K + I++ ++ + + S ++         G+  +L  + +  + V +P 
Sbjct: 316 NEAIC---HFIWKVNKINTEFIYYYLNSLNISTFGVQAVKGV--TLNNDSINSIIVKLPN 370

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
            +EQ  I   +      ++  + K +    LLK+R+   + 
Sbjct: 371 EEEQNIIAKFLLEVDKTVNNQLVKTK----LLKQRKKGLLQ 407



 Score = 48.3 bits (113), Expect = 0.003,   Method: Composition-based stats.
 Identities = 26/186 (13%), Positives = 57/186 (30%), Gaps = 10/186 (5%)

Query: 213 PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
           P+++      EW     +   +       +     N K    +   +            N
Sbjct: 10  PELRFPGFEGEWEEKKLEDLGLFQKSYSFSRAKEGNGKTKHIHYGDIHSKFKTVLDSDGN 69

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID--- 329
           +    E    ++++  G+IVF                  E   + S         ++   
Sbjct: 70  IPNIIEK-AVFELIQKGDIVFADASEDYSDLGKAVMIDFEPNSLISGLHTHLFRPLNNAI 128

Query: 330 STYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVP-PIKEQFDITNVINVETA 387
           S +L +  ++    K     G+G+    +  + +  L VL+P    EQ  I        +
Sbjct: 129 SNFLIFYTKTLSYKKFIRQQGTGISVLGISKKSLLNLNVLIPRSELEQQKIGQF----FS 184

Query: 388 RIDVLV 393
           ++D  +
Sbjct: 185 KLDRQI 190


>gi|238923780|ref|YP_002937296.1| putative type I restriction enzyme (specificity subunit)
           [Eubacterium rectale ATCC 33656]
 gi|238875455|gb|ACR75162.1| putative type I restriction enzyme (specificity subunit)
           [Eubacterium rectale ATCC 33656]
          Length = 425

 Score =  100 bits (249), Expect = 4e-19,   Method: Composition-based stats.
 Identities = 70/422 (16%), Positives = 136/422 (32%), Gaps = 44/422 (10%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDI-----IYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           P+  +   +    K   G T +S KD       +I  ++V S     L  +   R     
Sbjct: 16  PEGVEYKTLGECGKFYGGLTGKSKKDFEDGNSKFITYKNVYSNPALCLDVEDKVRIEPGE 75

Query: 77  TVSIFAKGQILYGKLGPYLRKAII-------ADFDGICSTQFLVLQ---PKDVLPELLQG 126
                  G I++        +  I        + +   ++   + +   P  +LP+  + 
Sbjct: 76  RQRTLEYGDIVFTGSSETPDECGISSVVAEIPEENLYLNSFCFIFRFDDPSILLPDFAKH 135

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
              S ++  +I     G T  +   K +G +  P+PPL  Q  I   + + T+    L  
Sbjct: 136 LFRSSELRYQIGKTASGVTRYNVSKKLMGKVSFPVPPLEVQREIVRVLDSFTLLTAELTA 195

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
           E     +  +  +  L++              D  I  +G V          A  T   +
Sbjct: 196 ELTARKQQYEFYRDYLLN-----------GNSDYDICNLGDV------CDVVAGGTPSRK 238

Query: 247 KNTKLIESNILSLSYGNIIQKLE----TRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK 302
            +    +  I  L       K      T  +        + +++     +   +     K
Sbjct: 239 VSDYWEDGCIPWLGSTVCKNKKNVDEPTEFITELGLEKSSAKMMKKDTTLIALVGATIGK 298

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFED 361
            +  +  V     I   Y        + +Y+ +   +     +    GS     +L F  
Sbjct: 299 VAFTTFDVAINQNIAGVYPKDTSKI-NPSYIYYACTTLYPHFLNLTQGSKLAMANLTF-- 355

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIAAAVTG 417
           V+ L + VPPI  Q  + NV++   +    L   +   I   K+     R + +  A TG
Sbjct: 356 VRGLKISVPPIDVQNHLVNVLDNFESITSDLSIGLPAEIEARKKQYEYYRDALLTYASTG 415

Query: 418 QI 419
           +I
Sbjct: 416 KI 417



 Score = 72.9 bits (177), Expect = 9e-11,   Method: Composition-based stats.
 Identities = 33/199 (16%), Positives = 66/199 (33%), Gaps = 14/199 (7%)

Query: 228 VPDHWEVKPFFALVTELNR----KNTKLIESNILSLSYGNIIQKL---ETRNMGLKPESY 280
            P+  E K                     + N   ++Y N+             ++ E  
Sbjct: 15  CPEGVEYKTLGECGKFYGGLTGKSKKDFEDGNSKFITYKNVYSNPALCLDVEDKVRIEPG 74

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSA---QVMERGIITSAYMAVK---PHGIDSTYLA 334
           E  + ++ G+IVF       D+  + S       E   + S     +   P  +   +  
Sbjct: 75  ERQRTLEYGDIVFTGSSETPDECGISSVVAEIPEENLYLNSFCFIFRFDDPSILLPDFAK 134

Query: 335 WLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
            L RS +L        SG  R ++  + + ++   VPP++ Q +I  V++  T     L 
Sbjct: 135 HLFRSSELRYQIGKTASGVTRYNVSKKLMGKVSFPVPPLEVQREIVRVLDSFTLLTAELT 194

Query: 394 EKIEQSIVLLKERRSSFIA 412
            ++       +  R   + 
Sbjct: 195 AELTARKQQYEFYRDYLLN 213


>gi|217980317|ref|YP_002364293.1| restriction modification system DNA specificity domain protein
           [Shewanella baltica OS223]
 gi|217500954|gb|ACK48926.1| restriction modification system DNA specificity domain protein
           [Shewanella baltica OS223]
          Length = 428

 Score =  100 bits (248), Expect = 5e-19,   Method: Composition-based stats.
 Identities = 63/425 (14%), Positives = 134/425 (31%), Gaps = 35/425 (8%)

Query: 26  KVVPIKRFTKLNTGR-TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           K   +       + R      + + +I   D+  G      +   S+            G
Sbjct: 4   KTYTLGEIASNTSRRFNFVGNEQVCFINTGDILDGHF-LTNERVQSKGLPGQAKKAIQHG 62

Query: 85  QILYGKLGPYLRKAIIADFD---GICSTQFLVLQPKDVLPELLQGW----LLSIDVTQRI 137
            ILY ++ P  ++ ++ + D    + ST+F+V+     +      +        +   ++
Sbjct: 63  DILYSEIRPGNKRHLLVEGDVDDYVVSTKFMVITCDHDVVLPEYLYLVLTSKECEAEFKV 122

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
            A     T     +  +   P+ +P L EQ  + E I + T +++          ++ + 
Sbjct: 123 IADSRSGTFPQITFDAVAYYPIELPSLNEQRNVVEIIKSITQKLNVNKDINSTSEDIAQA 182

Query: 198 KKQALVS-----YIVTKGLNPDVKMKDSG--------IEWVGLVPDHWEVKPFFA--LVT 242
             ++             G  P+     +            +GL+P+ W +        V 
Sbjct: 183 IFKSWFVDFDPVKAKMNGEQPEGMDAATASLFPEKLVESELGLIPEGWHIHNTQDLFEVR 242

Query: 243 ELNRKNTKLIESNILSLSYGNIIQKLETR-----NMGLKPESYETYQIVDPGEIVFRFID 297
           +    + K  E+    ++  +I +             L  E       VD  +I+   I 
Sbjct: 243 DGTHDSPKKAENGYYLVTSKHITKGKIDTSSAYLISELDFEQVNQRSKVDTFDILLTMIG 302

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY-AMGSGLRQS 356
              +   +    V E  I                   W ++S+ +       M    +Q 
Sbjct: 303 TVGEVVVVYDNPV-EFAIKNVGLFKTSQKPELVWLFYWHLQSFKMKNYLEVRMAGTTQQY 361

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           L  + ++ +PVLVP            N   + +   +         L E R   +   ++
Sbjct: 362 LTLKTLRTIPVLVPSQNLLQKF----NELISPLMGKISDNHNQNQSLSEMRDILLPKLLS 417

Query: 417 GQIDL 421
           G+IDL
Sbjct: 418 GEIDL 422



 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 32/195 (16%), Positives = 60/195 (30%), Gaps = 8/195 (4%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTG--RTSESGKDIIYI-GLEDVESGTGKYLPKDGNSRQ-- 72
           +G IP+ W +   +   ++  G   + +  ++  Y+   + +  G          S    
Sbjct: 223 LGLIPEGWHIHNTQDLFEVRDGTHDSPKKAENGYYLVTSKHITKGKIDTSSAYLISELDF 282

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIAD---FDGICSTQFLVLQPKDVLPELLQGWLL 129
              +  S      IL   +G      ++ D      I +        K  L  L    L 
Sbjct: 283 EQVNQRSKVDTFDILLTMIGTVGEVVVVYDNPVEFAIKNVGLFKTSQKPELVWLFYWHLQ 342

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
           S  +   +E    G T  +   K +  IP+ +P         E I     +I     +  
Sbjct: 343 SFKMKNYLEVRMAGTTQQYLTLKTLRTIPVLVPSQNLLQKFNELISPLMGKISDNHNQNQ 402

Query: 190 RFIELLKEKKQALVS 204
              E+       L+S
Sbjct: 403 SLSEMRDILLPKLLS 417


>gi|167854770|ref|ZP_02477548.1| type I restriction enzyme EcoKI subunit R [Haemophilus parasuis
           29755]
 gi|167854068|gb|EDS25304.1| type I restriction enzyme EcoKI subunit R [Haemophilus parasuis
           29755]
          Length = 397

 Score =  100 bits (248), Expect = 5e-19,   Method: Composition-based stats.
 Identities = 50/406 (12%), Positives = 135/406 (33%), Gaps = 24/406 (5%)

Query: 21  IPKHWKVVPIKRFTKLNT--GRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           +P+ W  + I +     +  G+   +   +       ++ G      +  +   +D + V
Sbjct: 6   LPEGWNKINITKVFTQISTTGKNIATKDCLSVGKYPVIDQG-----AEYISGYFNDETKV 60

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
                  I++   G + R   + DFD I     + +       +    +   + +    +
Sbjct: 61  IPVENKVIVF---GDHTRNFKLIDFDFIVGADGVKIFQPAKDIDPDFFYYQCLSLNLPNK 117

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
                          +       P  ++Q  + +K      ++  +     +   LLK  
Sbjct: 118 GYHRHFRY-------LKECDFIYPSFSQQQKLAKKFTVLLSQVAEIKQRLEKIPALLKTY 170

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
           +Q++++  V   L+   + +++G+     V +  +            + N       I  
Sbjct: 171 RQSVLARAVNGELSAKWR-EENGVSLDSWVYEKAQHICDKVQSGSTPKGNPFEQNGTIPF 229

Query: 259 LSYGNIIQ---KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
           L   NI+      + +   +  E +    I  P +++   +     K ++ + Q  E  I
Sbjct: 230 LKVYNIVNQELNFDYKPQFVTKEQHSQRSITLPNDVLMNIVGPPLGKVAIVTNQYSEWNI 289

Query: 316 ITSA-YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPI 372
             +       P  +   +  +++R     +       G+  + ++     + + V VP +
Sbjct: 290 NQAITLFRCNPRNLHYKFFYFVLREGRFIREIEHDLKGIVGQINISLSQCRDMIVPVPTL 349

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           +EQ  IT  +       + L  ++  ++  +     + +A    G+
Sbjct: 350 EEQNYITQAVEKHLNFANQLEAQVNAALERVNLMTQAILAKGFRGE 395


>gi|163748972|ref|ZP_02156223.1| Restriction endonuclease S subunit [Shewanella benthica KT99]
 gi|161331348|gb|EDQ02236.1| Restriction endonuclease S subunit [Shewanella benthica KT99]
          Length = 601

 Score =  100 bits (248), Expect = 5e-19,   Method: Composition-based stats.
 Identities = 55/475 (11%), Positives = 126/475 (26%), Gaps = 98/475 (20%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIY-IGLEDVESGTGKYLPKDGNSRQSD--TS 76
            +P  W    +    +   G   +S   +     +  +++ T  +         +    S
Sbjct: 107 ELPSSWAWSRMGDLAQYQKGYAFKSKDYLDSGFMITKIQNLTDNHTQNSVYIAPAKAMES 166

Query: 77  TVSIFAKGQILYGKLGPYLRKAI-----------IADFDGICSTQFLVLQPKDVLPELLQ 125
              + + G I+   +G +    I           + D   +      +   K+  P  L 
Sbjct: 167 KQYLLSDGDIVMTTVGSWFTAPISAVGRSFLISKLFDNSLLNQNAVRISSVKEFDPMYLY 226

Query: 126 GWLLSIDVTQRIEAICEGA-TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE------- 177
             + S      +    +G    +      I +  + +PPLAEQ  I  K           
Sbjct: 227 ICVNSPIFKNYLVKEAQGTANQASITQASIKHFLICVPPLAEQHRIVAKADELMTLCDQL 286

Query: 178 ----------------------------------TVRIDTLITERIRFIELLKEKKQALV 203
                                               RI             +++ KQ ++
Sbjct: 287 EQQTEESLSAHQTLVEVLLSTLTESKSAEDFQTSWQRIAEYFDLLFTTELSIEKLKQTIL 346

Query: 204 SYIVTKGLNPDVKMKD-------------------------------SGIEWVGLVPDHW 232
              V   L P     +                               +  E    +P  W
Sbjct: 347 QLAVMGKLVPQNPSDEPASVLLEKIAEEKAQLISDKKIKKQKALPAITDEEKPFELPSGW 406

Query: 233 EVKPFFA------LVTELNRKNTKLIESNILSLSYGN-IIQKLETRNMGLKPESYETYQI 285
           E +            +      +  ++  I+ L   N     L+  +     +      +
Sbjct: 407 EFERLGNLTSRLGSGSTPRGGQSAYVDKGIIFLRSQNVWNDGLKLDDTAYITDETHDKMV 466

Query: 286 ---VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
              V P +++         +  +   +++   +     +          +L   + S  +
Sbjct: 467 NTHVFPNDVLLNITGASLGRSIIFPEKLVTANVSQHVTIIRLLEVSMCKFLHLGIMSPLV 526

Query: 343 CKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
            K+ +    G   + L  + +++    VPP+ EQ  I   ++   A  + L  ++
Sbjct: 527 QKLVWGRQVGMAIEGLSKKVLEQFEFPVPPLAEQQRIVAKVDELMALCEQLKARL 581



 Score = 84.5 bits (207), Expect = 3e-14,   Method: Composition-based stats.
 Identities = 30/201 (14%), Positives = 65/201 (32%), Gaps = 14/201 (6%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNR---KNTKLIESNILSLSYGNIIQKLETRNMGLK 276
           +  E +  +P  W       L         K+   ++S  +     N+       ++ + 
Sbjct: 100 TDEEKMFELPSSWAWSRMGDLAQYQKGYAFKSKDYLDSGFMITKIQNLTDNHTQNSVYIA 159

Query: 277 PES--YETYQIVDPGEIVFRFIDLQND------KRSLRSAQVMERGIITSAYMAVKP-HG 327
           P         ++  G+IV   +            RS   +++ +  ++    + +     
Sbjct: 160 PAKAMESKQYLLSDGDIVMTTVGSWFTAPISAVGRSFLISKLFDNSLLNQNAVRISSVKE 219

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
            D  YL   + S            G   + S+    +K   + VPP+ EQ  I    +  
Sbjct: 220 FDPMYLYICVNSPIFKNYLVKEAQGTANQASITQASIKHFLICVPPLAEQHRIVAKADEL 279

Query: 386 TARIDVLVEKIEQSIVLLKER 406
               D L ++ E+S+   +  
Sbjct: 280 MTLCDQLEQQTEESLSAHQTL 300



 Score = 65.6 bits (158), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 36/198 (18%), Positives = 64/198 (32%), Gaps = 12/198 (6%)

Query: 20  AIPKHWKVVPIKRFTK-LNTGRTSES------GKDIIYIGLEDVESGTGKYLPK-DGNSR 71
            +P  W+   +   T  L +G T          K II++  ++V +   K          
Sbjct: 401 ELPSGWEFERLGNLTSRLGSGSTPRGGQSAYVDKGIIFLRSQNVWNDGLKLDDTAYITDE 460

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFD---GICSTQF-LVLQPKDVLPELLQGW 127
             D    +      +L    G  L ++II          S    ++   +  + + L   
Sbjct: 461 THDKMVNTHVFPNDVLLNITGASLGRSIIFPEKLVTANVSQHVTIIRLLEVSMCKFLHLG 520

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
           ++S  V + +     G  +     K +     P+PPLAEQ  I  K+       + L   
Sbjct: 521 IMSPLVQKLVWGRQVGMAIEGLSKKVLEQFEFPVPPLAEQQRIVAKVDELMALCEQLKAR 580

Query: 188 RIRFIELLKEKKQALVSY 205
                        A+VS 
Sbjct: 581 LSDAQTTQLHLADAVVSN 598


>gi|258452440|ref|ZP_05700448.1| type I restriction modification system [Staphylococcus aureus
           A5948]
 gi|282924487|ref|ZP_06332157.1| type I restriction enzyme, S subunit [Staphylococcus aureus A9765]
 gi|284023443|ref|ZP_06377841.1| type I restriction-modification system S subunit [Staphylococcus
           aureus subsp. aureus 132]
 gi|257859840|gb|EEV82680.1| type I restriction modification system [Staphylococcus aureus
           A5948]
 gi|282592796|gb|EFB97801.1| type I restriction enzyme, S subunit [Staphylococcus aureus A9765]
 gi|315196674|gb|EFU27020.1| type I site-specific deoxyribonuclease specificity subunit
           [Staphylococcus aureus subsp. aureus CGS01]
 gi|320142971|gb|EFW34764.1| type I restriction modification DNA specificity domain protein
           [Staphylococcus aureus subsp. aureus MRSA177]
          Length = 390

 Score =  100 bits (248), Expect = 5e-19,   Method: Composition-based stats.
 Identities = 58/405 (14%), Positives = 130/405 (32%), Gaps = 39/405 (9%)

Query: 24  HWKVVPIKRFTKLNTGRTSE-SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            W+   +   T     +      K  + I  +       +Y  K  +S+  +    ++  
Sbjct: 7   EWEEKQLGDLTDRVIRKNKNLESKKPLTISGQLGLIDQTEYFSKSVSSKNLE--NYTLIK 64

Query: 83  KGQILYGKLGPYLRKAIIAD-----FDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
            G+  Y K                   G+ S+ ++    K  + +             R 
Sbjct: 65  NGEFAYNKSYSNGYPLGAIKRLTRYDSGVLSSLYICFSIKSEMSKDFMEAYFDSTHWYRE 124

Query: 138 EAIC-----EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
            +           + +        I +  P L EQ  I +       +I+    +     
Sbjct: 125 VSGIAVEGARNHGLLNVSVNDFFTILIKYPSLEEQQKIGKFFSKLDRQIELEEQKLELLQ 184

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           +  K   Q + S  +               +  G     WE       + E N ++    
Sbjct: 185 QQKKGYMQKIFSQELRFK------------DENGEDYPDWENSKIEKYLKERNERSD--K 230

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
              +       II+  E        +    Y++V   +I +  + +        +     
Sbjct: 231 GQMLSVTINSGIIKFSELDRKDNSSKDKSNYKVVRKNDIAYNSMRMWQGASGKSNY---- 286

Query: 313 RGIITSAYMAVKPHGIDSTYL-AWLMRSYDLCKVFYAMGSGLR---QSLKFEDVKRLPVL 368
            GI++ AY  + P    S+    +  +++ +   F     GL     +LK++ +K + + 
Sbjct: 287 NGIVSPAYTVLYPTQNTSSLFIGYKFKTHRMIHKFKINSQGLTSDTWNLKYKQLKNINID 346

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           +P ++EQ  I +       ++D+L+ K +  I +L++ + SF+  
Sbjct: 347 IPVLEEQEKIGDF----FKKMDILISKQKMKIEILEKEKQSFLQK 387



 Score = 57.1 bits (136), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 33/184 (17%), Positives = 66/184 (35%), Gaps = 9/184 (4%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKD-GNSRQSDTSTVSIFA 82
            W+   I+++ K    R+ +       + +  + SG  K+   D  ++   D S   +  
Sbjct: 211 DWENSKIEKYLKERNERSDKGQM----LSVT-INSGIIKFSELDRKDNSSKDKSNYKVVR 265

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           K  I Y  +  +   +  ++++GI S  + VL P      L  G+            I  
Sbjct: 266 KNDIAYNSMRMWQGASGKSNYNGIVSPAYTVLYPTQNTSSLFIGYKFKTHRMIHKFKINS 325

Query: 143 G---ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
               +   +  +K + NI + IP L EQ  I +      + I     +     +  +   
Sbjct: 326 QGLTSDTWNLKYKQLKNINIDIPVLEEQEKIGDFFKKMDILISKQKMKIEILEKEKQSFL 385

Query: 200 QALV 203
           Q + 
Sbjct: 386 QKMF 389


>gi|332289037|ref|YP_004419889.1| EcoKI restriction-modification system protein HsdS [Gallibacterium
           anatis UMN179]
 gi|330431933|gb|AEC16992.1| EcoKI restriction-modification system protein HsdS [Gallibacterium
           anatis UMN179]
          Length = 390

 Score =  100 bits (248), Expect = 5e-19,   Method: Composition-based stats.
 Identities = 56/394 (14%), Positives = 120/394 (30%), Gaps = 35/394 (8%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           +   +    KL  GR          IG   V      Y  +  N+ +  T +   F +  
Sbjct: 14  EWKTLGEVAKLQRGRVISKQYLSENIGDYPV------YSSQTANNGEIGTISTFDFDQEA 67

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           I +   G                T    L     L +L   +L      +  + +  G  
Sbjct: 68  ITWTTDGANAGTVFHRLGKFSI-TNVCGLVNILDLQQLDYKFLFYWLSIEAKKYVYSGMG 126

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
                   +  I +PIPPL+ Q  I   + A T             + L +++ Q     
Sbjct: 127 NPKLMSNQMEKIKIPIPPLSVQKEIARILDAFTAITSE----LTSELTLRQKQYQHYRDK 182

Query: 206 IVTKGLNPDVKMKDSGIEW--VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
           ++T G           +EW  +G +    +   +          +   +      +    
Sbjct: 183 LLTFG---------DEVEWKTLGEITSPTKNIQWKNNTQAYRYIDLTSVSRENHCI---- 229

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
               LET  +          ++V   +++F        + +L +     + + T   +  
Sbjct: 230 ----LETTEITALNAPSRAQRLVKKDDVIFATTRPTQLRFALINDIYSGQVVSTGYCVLR 285

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVI 382
               +   ++ + + +           SG    ++    VK   + +  I+EQ  I +V+
Sbjct: 286 AKEEVLPKWIYYCISTIKFKNYVEENQSGSAYPAISDAKVKEFRIPILSIQEQKRIVSVL 345

Query: 383 NVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           +      + L + + + I L ++     R   + 
Sbjct: 346 DKFETLTNSLSDGLPKEIELRQKQYEYYRDLLLN 379


>gi|160945143|ref|ZP_02092369.1| hypothetical protein FAEPRAM212_02662 [Faecalibacterium prausnitzii
           M21/2]
 gi|158442874|gb|EDP19879.1| hypothetical protein FAEPRAM212_02662 [Faecalibacterium prausnitzii
           M21/2]
          Length = 424

 Score =  100 bits (248), Expect = 5e-19,   Method: Composition-based stats.
 Identities = 56/409 (13%), Positives = 122/409 (29%), Gaps = 22/409 (5%)

Query: 22  PKHWKVVPIKRFT-KLNTGRTSESG----KDIIYIGLEDVESGTGKYLPKDGNSRQS-DT 75
           P   +   +      +  G               +   ++ +  G +  K  +       
Sbjct: 13  PDGVEYKTLGEIAVDIYRGAGITRDQVTVDGTPCVRYGEIYTTYGVWFDKCVSHTDEAKL 72

Query: 76  STVSIFAKGQILYGKLGP----YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
           ++   F  G +L+   G       +       +   +   +V+   +  P+ L   L + 
Sbjct: 73  TSKKYFEYGDVLFAITGESVDDIAKCCAYIGHEKCLAGGDIVVLKHNQDPKYLSYVLATT 132

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
           D  Q+       + + H+    I  I +PIPP+  Q  I   +   T  I  L  +    
Sbjct: 133 DARQQKSKGKVKSKVVHSSVPAIREIKVPIPPIEIQREIVRILDDYTENIVELQNQLTAE 192

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           I   +++ +     ++T  +     + D   E +  + D  +            +     
Sbjct: 193 ITARQKQYEFYRDKLLTFDVLRGGTI-DFDREILCRIADLGKWSGGKTPSMAEKKYWESG 251

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
               + S      I      ++        +  +   G +               +    
Sbjct: 252 TIPWVSSKDVKQPILSDTIDHITNAAVDEASMTVYPAGSVAIVTRSGILRHTFPVTYIPF 311

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSY-DLCKVFYAMGSGLRQSLKFEDVKRLPVLVP 370
           E  +     + V   GI S Y++  +++Y +  +       G   SL F+ V    + VP
Sbjct: 312 ETTVNQDIKILVTKEGISSRYVSHALQAYGESIRRTTKKQGGTVDSLDFQKVLAYKIPVP 371

Query: 371 PIKEQFDITNVINVETARIDVL-------VEKIEQSIVLLKERRSSFIA 412
           P+  Q  I NV++        L       +E  ++        R   + 
Sbjct: 372 PLDVQNRIVNVLDNFEKICSDLNIGLPAEIEARQKQYEY---YRDKLLT 417



 Score = 69.1 bits (167), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 26/171 (15%), Positives = 60/171 (35%), Gaps = 10/171 (5%)

Query: 257 LSLSYGNIIQKLETRNMGLKPESYE----TYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
             + YG I              + E    + +  + G+++F       D  +   A +  
Sbjct: 45  PCVRYGEIYTTYGVWFDKCVSHTDEAKLTSKKYFEYGDVLFAITGESVDDIAKCCAYIGH 104

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ-SLKFEDVKRLPVLVPP 371
              +    + V  H  D  YL++++ + D  +         +        ++ + V +PP
Sbjct: 105 EKCLAGGDIVVLKHNQDPKYLSYVLATTDARQQKSKGKVKSKVVHSSVPAIREIKVPIPP 164

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA-AAVTG 417
           I+ Q +I  +++  T  I  L  ++   I   ++     R   +    + G
Sbjct: 165 IEIQREIVRILDDYTENIVELQNQLTAEITARQKQYEFYRDKLLTFDVLRG 215


>gi|152979297|ref|YP_001344926.1| restriction modification system DNA specificity subunit
           [Actinobacillus succinogenes 130Z]
 gi|150841020|gb|ABR74991.1| restriction modification system DNA specificity domain
           [Actinobacillus succinogenes 130Z]
          Length = 382

 Score =  100 bits (248), Expect = 5e-19,   Method: Composition-based stats.
 Identities = 57/408 (13%), Positives = 125/408 (30%), Gaps = 46/408 (11%)

Query: 23  KHWKVVPIKRFTKLNTGRTSE-----SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS- 76
           K W+ + +       T  + +     S     +I + ++       L  D       ++ 
Sbjct: 6   KGWEYIKLGDIATTVTSGSRDWAKYYSDTGAKFIRMTNLNRNGINLLLDDLKFVNVKSNS 65

Query: 77  ---TVSIFAKGQILYGKLGPYLRKAIIADFDG--ICSTQ--FLVLQPKDVLPELLQGWLL 129
                +      IL        +   I +  G    +     + + P     + +   L 
Sbjct: 66  SDGKRTALQANDILMSITAELGKIGFIPENFGEAYINQHTALIRIDPSKAYAKFIAYVLS 125

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
           S  + Q I ++ +    +  +   I  + + IPPL+EQ+ I E + A    I T   +  
Sbjct: 126 SRTMNQTINSLNDAGAKAGLNLPTIRALSLNIPPLSEQIKIAEILSAWDNAIQTTEKQIT 185

Query: 190 RFIELLKEKKQALVS--YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK 247
              +  K   Q L+S    V+        +K S I  +G                 +  K
Sbjct: 186 NSQQQKKALIQMLLSGEKRVSGFSGEWKIVKISDICNIGRG--------------RVISK 231

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
                      +     +       +               GE V    D  N   ++  
Sbjct: 232 QEIEKNQGKYPVYSSQTLNNGVMGYLDSFDFD---------GEFVTWTTDGVN-AGTIFY 281

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
                        ++ K   ++  +LA+++ +     V + + +     L    +  + V
Sbjct: 282 RNGKFNCTNVCGVLSSKLEQLNLRFLAYILSTVSYKYVSHTLAN---PKLMNGVMGTIEV 338

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            +P ++EQ  I  ++      I+ L    ++ +  LK  + + +    
Sbjct: 339 KLPQLEEQQKIAEILTTADQEIETL----QRKLECLKLEKRALMQGVF 382



 Score = 89.1 bits (219), Expect = 1e-15,   Method: Composition-based stats.
 Identities = 25/188 (13%), Positives = 69/188 (36%), Gaps = 5/188 (2%)

Query: 239 ALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDL 298
                 +    K I    L+ +  N++             S      +   +I+      
Sbjct: 26  DWAKYYSDTGAKFIRMTNLNRNGINLLLDDLKFVNVKSNSSDGKRTALQANDILMSITAE 85

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSL 357
                 +            +A + + P    + ++A+++ S  + +   ++  +G +  L
Sbjct: 86  LGKIGFIPENFGEAYINQHTALIRIDPSKAYAKFIAYVLSSRTMNQTINSLNDAGAKAGL 145

Query: 358 KFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
               ++ L + +PP+ EQ  I  +++      D  ++  E+ I   ++++ + I   ++G
Sbjct: 146 NLPTIRALSLNIPPLSEQIKIAEILSAW----DNAIQTTEKQITNSQQQKKALIQMLLSG 201

Query: 418 QIDLRGES 425
           +  + G S
Sbjct: 202 EKRVSGFS 209


>gi|328545366|ref|YP_004305475.1| Restriction modification system DNA specificity domain protein
           [polymorphum gilvum SL003B-26A1]
 gi|326415108|gb|ADZ72171.1| Restriction modification system DNA specificity domain protein
           [Polymorphum gilvum SL003B-26A1]
          Length = 298

 Score =  100 bits (248), Expect = 5e-19,   Method: Composition-based stats.
 Identities = 46/323 (14%), Positives = 104/323 (32%), Gaps = 32/323 (9%)

Query: 106 ICSTQFLVLQPK-DVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPL 164
             S  F+        + +    +          E +  G+T+          + +  PPL
Sbjct: 2   AVSQHFIAWSCSAKRVLDPWFLYAWMQTQKPFFERMAVGSTIKTIGLPIFKRLTIDFPPL 61

Query: 165 AEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEW 224
            EQ  I   +      ++ +       +  L      L+     + L+    + +     
Sbjct: 62  PEQRRIAAILRTWDEALEKVTALHAAKVRRLDGLAAWLIHDEQAERLHLRDFLSEVSTRN 121

Query: 225 VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ 284
            G                         +E  +   +    +   +     +       Y+
Sbjct: 122 RGQQ-----------------------VERVLSVTNSAGFVLAEDQFAHRVASADLSNYK 158

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK-PHGIDSTYLAWLMRSYDLC 343
           IV  G+  +    +     S+      E G ++  Y+  +   G+DS +    +RS +  
Sbjct: 159 IVRRGQYAYNPSRIN--VGSIARLDAWEAGALSPMYVVFQVRDGLDSDFFQHWLRSAEAR 216

Query: 344 KVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
           +       G +R+++ F D+  + + VP I+ Q  I+  +N         +  IE  I  
Sbjct: 217 QRIALAAQGSVRETVSFGDLGSILIPVPTIERQQSISRALNAGREE----IALIEAEIEA 272

Query: 403 LKERRSSFIAAAVTGQIDLRGES 425
           L  ++   +   +TG+  ++ E+
Sbjct: 273 LTRQKRGLMQKLLTGEWRVKLEA 295



 Score = 58.3 bits (139), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 14/103 (13%), Positives = 33/103 (32%), Gaps = 4/103 (3%)

Query: 314 GIITSAYMAVKPHGI---DSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP 370
             ++  ++A         D  +L   M++               +++     KRL +  P
Sbjct: 1   MAVSQHFIAWSCSAKRVLDPWFLYAWMQTQKPFFE-RMAVGSTIKTIGLPIFKRLTIDFP 59

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           P+ EQ  I  ++      ++ +       +  L    +  I  
Sbjct: 60  PLPEQRRIAAILRTWDEALEKVTALHAAKVRRLDGLAAWLIHD 102



 Score = 40.2 bits (92), Expect = 0.61,   Method: Composition-based stats.
 Identities = 31/136 (22%), Positives = 51/136 (37%), Gaps = 3/136 (2%)

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFD--GICSTQFLVLQPKDVLPELLQ-GWL 128
            +D S   I  +GQ  Y      +      D    G  S  ++V Q +D L       WL
Sbjct: 151 SADLSNYKIVRRGQYAYNPSRINVGSIARLDAWEAGALSPMYVVFQVRDGLDSDFFQHWL 210

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
            S +  QRI    +G+      +  +G+I +P+P +  Q  I   + A    I  +  E 
Sbjct: 211 RSAEARQRIALAAQGSVRETVSFGDLGSILIPVPTIERQQSISRALNAGREEIALIEAEI 270

Query: 189 IRFIELLKEKKQALVS 204
                  +   Q L++
Sbjct: 271 EALTRQKRGLMQKLLT 286


>gi|258592718|emb|CBE69027.1| putative Restriction endonuclease S subunits [NC10 bacterium 'Dutch
           sediment']
          Length = 390

 Score =  100 bits (248), Expect = 5e-19,   Method: Composition-based stats.
 Identities = 54/368 (14%), Positives = 112/368 (30%), Gaps = 20/368 (5%)

Query: 60  TGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFD---GICSTQFLVLQP 116
            G  L    +  +  T    +   G+ L  ++   +    I   D    I S  + + Q 
Sbjct: 33  QGIVLRDIVSGSEIKTKKQQVCRAGEFLVAEIDAKVGGFGIVPDDLDGAIVSNHYFLFQI 92

Query: 117 KDV-LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKII 175
               L      + +     +   A       +      +    + +PPL EQ  +  +I 
Sbjct: 93  DHTVLDCRFLDFFIRTPTFRDQVAAQGSTNYAAIRPNDVLGYKISLPPLEEQWRLVARIE 152

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVK 235
               +    I +         E+  AL+S            +  S               
Sbjct: 153 ELAAK----IEQARDLRREAVEEAGALLSAA-------SRNLFVSDGLKAPRGRLEHFAT 201

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYE---TYQIVDPGEIV 292
                 +   +  T      +   S       L+       PE +        + PG+++
Sbjct: 202 RITKGESPEWQGFTYQELGPVFVRSENVGWGTLDLSRRTCIPEEFHHKLKRSQLQPGDVL 261

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITS-AYMAVKPHGIDSTYLAWLMRSYDLCKVFYA-MG 350
              +     +  +  A + E  +  + A ++     +DS +L   + S       ++   
Sbjct: 262 INLVGASIGRSCVVPADLGEANVNQAVAVISPDSRQLDSNFLMHFLISAPAQTTIHSGKV 321

Query: 351 SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
              R ++   D++ L + VPP+ EQ  I   ++   A++D L      +   L     S 
Sbjct: 322 ETARPNISLGDLRNLILPVPPLFEQQRIVAYLDNLWAKVDALKRLQAATNPELGALLPSV 381

Query: 411 IAAAVTGQ 418
           +  A  G+
Sbjct: 382 LDKAFKGE 389


>gi|317501109|ref|ZP_07959315.1| ribosomal protein L10 [Lachnospiraceae bacterium 8_1_57FAA]
 gi|316897496|gb|EFV19561.1| ribosomal protein L10 [Lachnospiraceae bacterium 8_1_57FAA]
          Length = 380

 Score =  100 bits (248), Expect = 6e-19,   Method: Composition-based stats.
 Identities = 73/397 (18%), Positives = 128/397 (32%), Gaps = 31/397 (7%)

Query: 29  PIKRFTKLNTGRTSESG-KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
            +    +   G+   S   +  YI  E++    G          Q  T     F K  +L
Sbjct: 6   KLSDICEYAKGKIKVSALDENTYISTENMLPNKGGITKAASLPTQEQTQA---FMKNDVL 62

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID-VTQRIEAICEGATM 146
              + PY +K   A FDG CS   LV + KD +      ++L+ D       A  +G  M
Sbjct: 63  VSNIRPYFKKIWYATFDGGCSNDVLVFRAKDGVSSRFLHYVLADDTFFDYSMATSKGTKM 122

Query: 147 SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYI 206
              D K I    +P     +Q  I   +      ID  I       + L E+ Q++ +  
Sbjct: 123 PRGDKKAIMEYEVPELLYEDQCKIAGVLEV----IDEKIDLNTDINKNLLEQAQSIFTQE 178

Query: 207 VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ 266
                      ++S +  +    +   ++ +            K  E  +  L    + Q
Sbjct: 179 FLMFDRIPDGWQESSLLGIADYLNGLAMQKY----------RPKDDEQGLPVLKIKELRQ 228

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
                N  L   S +   IV  G+++F +         L          +      V   
Sbjct: 229 GSCDFNSELCSPSIKPEYIVHDGDVIFSWSGSL-----LVDLWCGGTCGLNQHLFKVTSS 283

Query: 327 GIDSTYLAWLMRSYDLCKV--FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
             D  +  +    + L K     A  +     +K E++ +  VL+P   +   I      
Sbjct: 284 TYD-KWFYYAWTDHHLQKFAAIAADMATTMGHIKREELSKAEVLIPSQSDYDRIG----G 338

Query: 385 ETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
             A +  LV         L   R   +   ++GQ+D+
Sbjct: 339 LLAPLYDLVIANRIENRKLASLRDELLPQLMSGQLDV 375



 Score = 50.2 bits (118), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 24/190 (12%), Positives = 51/190 (26%), Gaps = 10/190 (5%)

Query: 21  IPKHWKVVPIKRFTKLNTG------RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           IP  W+   +        G      R  +  + +  + ++++  G+  +   +       
Sbjct: 185 IPDGWQESSLLGIADYLNGLAMQKYRPKDDEQGLPVLKIKELRQGSCDF---NSELCSPS 241

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
                I   G +++   G  L         G  +     +            W       
Sbjct: 242 IKPEYIVHDGDVIFSWSGSLLVDLWCGGTCG-LNQHLFKVTSSTYDKWFYYAWTDHHLQK 300

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
               A     TM H   + +    + IP  ++   I   +      +     E  +   L
Sbjct: 301 FAAIAADMATTMGHIKREELSKAEVLIPSQSDYDRIGGLLAPLYDLVIANRIENRKLASL 360

Query: 195 LKEKKQALVS 204
             E    L+S
Sbjct: 361 RDELLPQLMS 370


>gi|10956198|ref|NP_051027.1| type IC specificity subunit [Streptococcus thermophilus]
 gi|6137149|gb|AAF04358.1| type IC specificity subunit [Streptococcus thermophilus]
          Length = 413

 Score =  100 bits (248), Expect = 6e-19,   Method: Composition-based stats.
 Identities = 62/408 (15%), Positives = 148/408 (36%), Gaps = 32/408 (7%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDI----IYIGLEDVESGTGKYLPKDGNSRQSDT-STV 78
            W+   + +  +L+     +          +  + D+ +   + +  + N+  SD+    
Sbjct: 17  DWEERKLGKLARLSLELDFQMLNKAVCKGPFYKVSDMNNPGNEVVMMNANNYASDSQIKE 76

Query: 79  SIFAKGQ-----ILYGKLGPYLRKAIIADFDGICSTQFL---VLQPKDVLPELLQGWLLS 130
           + +         +++ K+G     AI  D   I  T FL    +          + +  +
Sbjct: 77  NKWNPIDPQNSGVVFAKVGA----AIFLDRKRIVDTSFLSDNNMMSYLFDSSWNRYFGKT 132

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
           +    R+    +   +   +   + NI + +P + EQ  I         ++D +I    R
Sbjct: 133 LFEKLRLSRFAQVGAIPSFNGSDVENIKVMVPEIEEQQKIGSF----FKQLDEIIALHQR 188

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
            ++LL+E+K+  +  +  K      +++ +G        +    +          +    
Sbjct: 189 KLDLLEEQKKGFLQKMFPKNGAKVPELRFAGFADDWE--ERKLGEVGNTFTGLSGKTKED 246

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQI-VDPGEIVFRFIDLQNDKRSLRSAQ 309
                   ++Y N+         GL+    +  Q  V  G+++F       ++  + S  
Sbjct: 247 FGHGEGKFITYMNVFSNPVADLDGLESVEIDNKQFQVKAGDVLFTTSSETPEEVGMSSMW 306

Query: 310 VM--ERGIITSAYMAVKPHG-IDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRL 365
           +   +   + S     +P    D  YLA+++RS  + K F  +  G+ R ++    V   
Sbjct: 307 LGNADNIYLNSFCFGYRPTIEFDKYYLAFMLRSAPIRKKFQLLAQGISRYNISKNKVMEN 366

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
               P I+EQ     ++      ++  +   ++ + LLKE++  F+  
Sbjct: 367 VYSCPSIEEQ----ELLGAFFNNLNQTIALHQRKLDLLKEQKKGFLQK 410


>gi|164688032|ref|ZP_02212060.1| hypothetical protein CLOBAR_01677 [Clostridium bartlettii DSM
           16795]
 gi|164602445|gb|EDQ95910.1| hypothetical protein CLOBAR_01677 [Clostridium bartlettii DSM
           16795]
          Length = 393

 Score =  100 bits (248), Expect = 6e-19,   Method: Composition-based stats.
 Identities = 56/403 (13%), Positives = 115/403 (28%), Gaps = 38/403 (9%)

Query: 24  HWKVVPIKRFTKLNTGRTSES---GKDIIYIGLEDVESGTGKYLPKDGNSRQ--SDTSTV 78
            W    +    +   G   E    GK I  +   DV   T  Y        Q        
Sbjct: 13  EWDEKRLGDVYEFKNGLNKEKEFFGKGIPIVNYMDVNKNTHLYKNTIKGRVQLTKKEIEN 72

Query: 79  SIFAKGQILYGKLGPYLRKAII------ADFDGICSTQFLVLQPKDVLPELLQ--GWLLS 130
               KG + + +    + +            D + S   L  +PK+ L +        ++
Sbjct: 73  YSAKKGDLFFTRTSETIDEIGYTAVLLDDIEDAVFSGFILRARPKNELIDFKFSGYCFMT 132

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
            +V + I       T +      +  +   +P L EQ  I   +     +I     +   
Sbjct: 133 REVRKEIIKKSSMTTRALTSGTSLKQVVFYLPSLPEQTKIAHFLCTVDDKIQNQEDKITH 192

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
              + K   Q + S  +    +          EW               +++  N +   
Sbjct: 193 LENIKKGFMQKIFSRKIRFKDDSGEDF----PEWEEKKIKDVFKITRGYVLSANNVEKNI 248

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
             E      S     + L         E   T+           F   +    ++    +
Sbjct: 249 NKEYIYPVYSSQTKDKGLLGYYNEYLYEDAITWTTDGANAGTVHFRRGKFYCTNVCGVLI 308

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP 370
            E G      +A   + I   Y++++                    L    +  + + +P
Sbjct: 309 SENGYANK-CIAEMINRISKKYVSYV----------------GNPKLMNNIMAEIKIDLP 351

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            +KEQ  I++++++   +ID   E     +  LK+ +   +  
Sbjct: 352 CLKEQQKISDILSLLDEKIDTDKET----LEHLKQLKKGLLQQ 390



 Score = 72.5 bits (176), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 30/218 (13%), Positives = 71/218 (32%), Gaps = 10/218 (4%)

Query: 213 PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
           P ++ K+   EW                  +        I + +      ++ +      
Sbjct: 3   PKLRFKEFCGEWDEKRLGDVYEFKNGLNKEKEFFGKGIPIVNYMDVNKNTHLYKNTIKGR 62

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA--QVMERGIITSAYMAVKPHG--I 328
           + L  +  E Y     G++ F       D+    +     +E  + +   +  +P    I
Sbjct: 63  VQLTKKEIENYSA-KKGDLFFTRTSETIDEIGYTAVLLDDIEDAVFSGFILRARPKNELI 121

Query: 329 DSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           D  +  +   + ++ K      S   R       +K++   +P + EQ  I + +     
Sbjct: 122 DFKFSGYCFMTREVRKEIIKKSSMTTRALTSGTSLKQVVFYLPSLPEQTKIAHFLCTV-- 179

Query: 388 RIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGES 425
             D  ++  E  I  L+  +  F+    + +I  + +S
Sbjct: 180 --DDKIQNQEDKITHLENIKKGFMQKIFSRKIRFKDDS 215


>gi|308272573|emb|CBX29177.1| hypothetical protein N47_J01580 [uncultured Desulfobacterium sp.]
          Length = 435

 Score =  100 bits (248), Expect = 6e-19,   Method: Composition-based stats.
 Identities = 70/407 (17%), Positives = 121/407 (29%), Gaps = 33/407 (8%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           +P  W +V         +         I     + +  G    + +             +
Sbjct: 11  LPGGWAIVSFAESCDKIS------LNGIKIKQKQYLTEGKYPVVDQGQALIGGYFDDEKL 64

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICS-TQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
              G+  Y   G + R     +F  I       VL+P   L E L  +         I+ 
Sbjct: 65  IVPGKPPYVIFGDHTRVKKYINFRFIAGADGVKVLKPFAFLNEKLFFY-----FLHCIKL 119

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
             +G        + +    +P+PPL+EQ  I  KI      +D  I       + LK  +
Sbjct: 120 PDKGYARH---LQFLEKTDIPLPPLSEQHRIVAKIEELFSSLDKGIESLKTAQQQLKIYR 176

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
           QA++ +     L+    ++       G +PD W+ K    L              N  S 
Sbjct: 177 QAVLKWAFEGKLSNKNIVE-------GELPDGWQNKKINELGRVETGTTPSKKNPNFYSD 229

Query: 260 SYG-------NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
            Y        N    + +   GL     +  + V     +   I     K          
Sbjct: 230 EYPFYKPTDLNAGNNVVSSTDGLSELGIKEARFVPASSTLVTCIGATIGKTGFIKKGGGF 289

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPP 371
              I +          +  ++ +   S D  K      S      L     + L ++   
Sbjct: 290 NQQINAII---PSKEHNPKFIYYQAVSPDFQKQIQNNASATTLPILNKGKFENLTMVCCL 346

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            +EQ  I   I    +  D + E IE S+   +  R S +  A  G+
Sbjct: 347 PEEQQTIVAEIESRLSVCDKIEESIEHSLKQAEALRQSILKKAFEGK 393



 Score = 78.7 bits (192), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 32/205 (15%), Positives = 66/205 (32%), Gaps = 8/205 (3%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSESG------KDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           G +P  W+   I    ++ TG T           +  +    D+ +G       DG   +
Sbjct: 196 GELPDGWQNKKINELGRVETGTTPSKKNPNFYSDEYPFYKPTDLNAGNNVVSSTDG-LSE 254

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQF-LVLQPKDVLPELLQGWLLSI 131
                         L   +G  + K       G  + Q   ++  K+  P+ +    +S 
Sbjct: 255 LGIKEARFVPASSTLVTCIGATIGKTGFIKKGGGFNQQINAIIPSKEHNPKFIYYQAVSP 314

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
           D  ++I+      T+   +     N+ M      EQ  I  +I +     D +       
Sbjct: 315 DFQKQIQNNASATTLPILNKGKFENLTMVCCLPEEQQTIVAEIESRLSVCDKIEESIEHS 374

Query: 192 IELLKEKKQALVSYIVTKGLNPDVK 216
           ++  +  +Q+++       L P   
Sbjct: 375 LKQAEALRQSILKKAFEGKLVPQDP 399


>gi|298256068|ref|ZP_06979654.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae str. Canada MDR_19A]
          Length = 427

 Score =  100 bits (248), Expect = 6e-19,   Method: Composition-based stats.
 Identities = 70/426 (16%), Positives = 142/426 (33%), Gaps = 66/426 (15%)

Query: 34  TKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
            ++  G +    KD        I +I + D E G           ++S  +      KG 
Sbjct: 2   VEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINNVKEKIKKSGLNKTRFVKKGT 61

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV-TQRIEAICEGA 144
            L      + R  I+     I      +   ++ L +    ++LS +V   +  ++  GA
Sbjct: 62  FLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYLFYILSSNVVYSQFLSLISGA 121

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK----Q 200
            + + +   + +I +P+PPLAEQ  I E I +   ++D       R  +L KE      +
Sbjct: 122 VVKNLNSDKVASILIPLPPLAEQQRIIEAIESALEKVDEYAESYNRLEQLDKEFPDKLKK 181

Query: 201 ALVSYIVTKGLNPDVKMKDS---------------------------------------G 221
           +++ Y +   L       +S                                        
Sbjct: 182 SILQYAMQGKLVEQDPNDESVEVLLEKIRAEKQKLFEEGKIKKKDLDISIVSQGDDNSYY 241

Query: 222 IEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL------ 275
            E    +P+ WE      + + + R  +    +  +         +    ++ L      
Sbjct: 242 EEVPCEIPESWEWVRLNDITSYIQRGKSPKYSNIPIYPVIAQKCNQWSGFSIDLARFIDP 301

Query: 276 -KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA-----YMAVKPHGID 329
               SY+  +++  G++++    L    R     +         A      + V    I+
Sbjct: 302 ETVHSYQKERLLRDGDLMWNSTGLGTLGRLAIYHENKNPYAWAVADSHVTVIRVLSGVIN 361

Query: 330 STYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
             ++   + S  +  V     SG   ++ L  + +K   + +PP+ EQ  I + I    A
Sbjct: 362 CHFIYNFLSSPIVQSVIEEKASGSTKQKELLTKTIKEYLIPLPPLPEQSRIVDKIEQFFA 421

Query: 388 RIDVLV 393
            ID L+
Sbjct: 422 HIDALI 427



 Score = 77.9 bits (190), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 27/158 (17%), Positives = 59/158 (37%), Gaps = 8/158 (5%)

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
           + +      +K       + V  G  +            L     +  G +    ++   
Sbjct: 37  KYINNVKEKIKKSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLA---ISNYE 93

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
           + ++  YL +++ S  +   F ++ SG   ++L  + V  + + +PP+ EQ  I   I  
Sbjct: 94  NSLNKDYLFYILSSNVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLAEQQRIIEAIES 153

Query: 385 ETARIDVLVEKIEQSIVLLKE----RRSSFIAAAVTGQ 418
              ++D   E   +   L KE     + S +  A+ G+
Sbjct: 154 ALEKVDEYAESYNRLEQLDKEFPDKLKKSILQYAMQGK 191



 Score = 50.9 bits (120), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 29/181 (16%), Positives = 50/181 (27%), Gaps = 15/181 (8%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT-----GKYLPKDGNSRQSD 74
            IP+ W+ V +   T       S    +I    +   +                      
Sbjct: 247 EIPESWEWVRLNDITSYIQRGKSPKYSNIPIYPVIAQKCNQWSGFSIDLARFIDPETVHS 306

Query: 75  TSTVSIFAKGQILYGKL--GPYLRKAIIADF-----DGICSTQFLVLQPKDVLPELLQGW 127
                +   G +++     G   R AI  +        +  +   V++    +      +
Sbjct: 307 YQKERLLRDGDLMWNSTGLGTLGRLAIYHENKNPYAWAVADSHVTVIRVLSGVINCHFIY 366

Query: 128 LLSIDVTQR---IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
                   +    E             K I    +P+PPL EQ  I +KI      ID L
Sbjct: 367 NFLSSPIVQSVIEEKASGSTKQKELLTKTIKEYLIPLPPLPEQSRIVDKIEQFFAHIDAL 426

Query: 185 I 185
           I
Sbjct: 427 I 427


>gi|259508262|ref|ZP_05751162.1| conserved hypothetical protein [Corynebacterium efficiens YS-314]
 gi|259164150|gb|EEW48704.1| conserved hypothetical protein [Corynebacterium efficiens YS-314]
          Length = 329

 Score =  100 bits (248), Expect = 6e-19,   Method: Composition-based stats.
 Identities = 54/320 (16%), Positives = 113/320 (35%), Gaps = 17/320 (5%)

Query: 106 ICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLA 165
             +     L P   +                ++A   G+T +      + ++P+P+  L 
Sbjct: 4   AFNQGCKALIPLPGVSRPRFLKYAVESQMSTLQAAGRGSTFTEVSASDVASLPIPVTSLD 63

Query: 166 EQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWV 225
           +Q  I + +  ET  ID +  E  + ++L+ E+  A V         P + ++       
Sbjct: 64  KQDWIADYLDRETAEIDAMAVELDQAMDLIDERFHAEVEQSFQSLDAPRMPLRS------ 117

Query: 226 GLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET-YQ 284
                               +      E  +L+ S     +  ET    + P  Y     
Sbjct: 118 ------QIQSMTTGTSVTAAKFAPAAGEPGVLATSAVFGDELNETAVKSVDPHEYVRLTC 171

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCK 344
            +    ++   ++  N      +       +     +          Y+ W  RS    +
Sbjct: 172 PLRINTLLVSRMNTMNLVGKAVTVGRHLPDVYLPDRL-WAVEVDVPRYIYWWTRSQSYRE 230

Query: 345 VFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
               +  G     ++L  +  + + + VPP+ +Q  +   ++    R   L  +++++  
Sbjct: 231 QIRGLAVGASDSMKTLSQQAFRSITLPVPPVTQQIAVAAQLDEAAERFSALKAELQEAKG 290

Query: 402 LLKERRSSFIAAAVTGQIDL 421
           LL+ERR+  I+AAVTGQID+
Sbjct: 291 LLEERRAVLISAAVTGQIDV 310


>gi|313141382|ref|ZP_07803575.1| restriction modification system DNA specificity domain-containing
           protein [Helicobacter canadensis MIT 98-5491]
 gi|313130413|gb|EFR48030.1| restriction modification system DNA specificity domain-containing
           protein [Helicobacter canadensis MIT 98-5491]
          Length = 417

 Score =  100 bits (248), Expect = 6e-19,   Method: Composition-based stats.
 Identities = 46/401 (11%), Positives = 119/401 (29%), Gaps = 24/401 (5%)

Query: 25  WKVVPIKRFT-KLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           W +  +     K+      +S K +      +      +Y  ++  ++ +  +   +  K
Sbjct: 23  WGITQLNMLAGKITERNKDDSIKRVFTNSATEGVIDQEEYFDRNIANKNN-LTDYFVVEK 81

Query: 84  GQILYGKLGPYLRKAIIADFD----GICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           G  +Y               +    G+ S  + + + K+   +  + + L+      I+ 
Sbjct: 82  GDYVYNPRISTTALVGPISKNKLGIGVMSPLYTIFRFKNKGNDFYEHFFLTNLWHAYIKN 141

Query: 140 ICEGATMSH---ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           +                   +P+P     EQ  I + +      ID LI    R ++ L+
Sbjct: 142 LSNTGARHDRITISVDNFMKMPLPYASPEEQQKIADCL----SSIDELIDTESRKLKALE 197

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
           + K+ L+  +         + +    +  G              + E+    T       
Sbjct: 198 KYKKGLMQKLFPTEGKTLPEWRFPEFQGCGE-----WKYEEIGNIGEVITGKTPSTSDAA 252

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS-AQVMERGI 315
           L       +   +      +  +  T       +++ ++  +     S+   A  +   I
Sbjct: 253 LWDGDIQFVTPTDITENKYQHHTQRTVVKTPKMKVLPKYTIMYTCIASIGKMALSLYPCI 312

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-PIKE 374
                 ++ P    +    +         +     +     +   D  ++ V V    KE
Sbjct: 313 TNQQINSIVPKSFYNNEFIYYSLLQKTFLIKAGFANSTLPIINKTDFSKIQVPVILDKKE 372

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           Q  I   +    + ID ++ +  + I  L+  +   +    
Sbjct: 373 QEKIAGCL----SEIDTMITEQLKKIERLETHKKGLMQGLF 409


>gi|114567765|ref|YP_754919.1| restriction endonuclease S subunits-like protein [Syntrophomonas
           wolfei subsp. wolfei str. Goettingen]
 gi|114338700|gb|ABI69548.1| Restriction endonuclease S subunits-like protein [Syntrophomonas
           wolfei subsp. wolfei str. Goettingen]
          Length = 413

 Score =  100 bits (248), Expect = 6e-19,   Method: Composition-based stats.
 Identities = 54/423 (12%), Positives = 139/423 (32%), Gaps = 42/423 (9%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESG-----KDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           PK  +   +++   +  G+             +Y+  E +         ++        S
Sbjct: 3   PKECEKTQLRKIVTIEKGKPPAKQPFFEQNAELYLTPEYLRG-------RNLAEPVLPGS 55

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
                  G  +    G    +   A    + ST   +             +    +    
Sbjct: 56  NAVRVKDGDTILLWDGSNAGEFFRAREGVLASTMVRIWHDDTYDN--QYFYYAVKNWELF 113

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           ++    G+ + H D + +GNI +      EQ  I + +      +D  I +    I   +
Sbjct: 114 LKGQTSGSGIPHVDKEILGNIEILKYSKPEQTKIAKIL----STVDEAIEQIEALINKQQ 169

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEW-----VGLVPDHWEVKPFFALV----TELNRK 247
             K  L+  ++T+G++    ++           +G +P  W+V P   L+     + + +
Sbjct: 170 RIKTGLMQELLTRGIDEYGNIRSEQTHKFKDSPLGRIPVEWDVIPLGDLIEAIDPQPDHR 229

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI------VDPGEIVFRFIDLQND 301
             + +   I  +   N            +  S + ++       V  G+ +F  I     
Sbjct: 230 TPQEVSGGIPYIGVSNFNNDGSIDFTNARKVSIKAFKKQQDSFSVSEGDFIFGKIGT--- 286

Query: 302 KRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA-MGSGLRQSLKFE 360
              + S          SA + +        +  W + S  + K+    + S  + +   +
Sbjct: 287 -IGMPSRLPTSTQYALSANVILLKPRETPAFFYWWISSPIVSKMVELEIHSTSQAAFGIK 345

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQID 420
            ++ L +  P   E+  I  V++ +    +++    ++ +  L   +++ +   ++G+  
Sbjct: 346 KMRTLNLPRPNKDEREKIGKVLDTQ----ELVKLNTKRDLYKLHSLKTALMQDLLSGKKR 401

Query: 421 LRG 423
           +  
Sbjct: 402 VTP 404



 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 36/204 (17%), Positives = 76/204 (37%), Gaps = 11/204 (5%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNT----GRTSES-GKDIIYIGLEDVES-GTGK 62
           ++KDS    +G IP  W V+P+    +        RT +     I YIG+ +  + G+  
Sbjct: 197 KFKDSP---LGRIPVEWDVIPLGDLIEAIDPQPDHRTPQEVSGGIPYIGVSNFNNDGSID 253

Query: 63  YLPKDGNSRQ--SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL 120
           +      S +           ++G  ++GK+G     + +        +  ++L      
Sbjct: 254 FTNARKVSIKAFKKQQDSFSVSEGDFIFGKIGTIGMPSRLPTSTQYALSANVILLKPRET 313

Query: 121 PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
           P     W+ S  V++ +E      + +    K +  + +P P   E+  I + +  + + 
Sbjct: 314 PAFFYWWISSPIVSKMVELEIHSTSQAAFGIKKMRTLNLPRPNKDEREKIGKVLDTQELV 373

Query: 181 IDTLITERIRFIELLKEKKQALVS 204
                 +  +   L     Q L+S
Sbjct: 374 KLNTKRDLYKLHSLKTALMQDLLS 397


>gi|224417840|ref|ZP_03655846.1| restriction modification system DNA specificity domain
           [Helicobacter canadensis MIT 98-5491]
 gi|253827180|ref|ZP_04870065.1| methylase-S type I restriction modification domain containing
           protein [Helicobacter canadensis MIT 98-5491]
 gi|253510586|gb|EES89245.1| methylase-S type I restriction modification domain containing
           protein [Helicobacter canadensis MIT 98-5491]
          Length = 415

 Score = 99.9 bits (247), Expect = 6e-19,   Method: Composition-based stats.
 Identities = 46/401 (11%), Positives = 119/401 (29%), Gaps = 24/401 (5%)

Query: 25  WKVVPIKRFT-KLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           W +  +     K+      +S K +      +      +Y  ++  ++ +  +   +  K
Sbjct: 21  WGITQLNMLAGKITERNKDDSIKRVFTNSATEGVIDQEEYFDRNIANKNN-LTDYFVVEK 79

Query: 84  GQILYGKLGPYLRKAIIADFD----GICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           G  +Y               +    G+ S  + + + K+   +  + + L+      I+ 
Sbjct: 80  GDYVYNPRISTTALVGPISKNKLGIGVMSPLYTIFRFKNKGNDFYEHFFLTNLWHAYIKN 139

Query: 140 ICEGATMSH---ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           +                   +P+P     EQ  I + +      ID LI    R ++ L+
Sbjct: 140 LSNTGARHDRITISVDNFMKMPLPYASPEEQQKIADCL----SSIDELIDTESRKLKALE 195

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
           + K+ L+  +         + +    +  G              + E+    T       
Sbjct: 196 KYKKGLMQKLFPTEGKTLPEWRFPEFQGCGE-----WKYEEIGNIGEVITGKTPSTSDAA 250

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS-AQVMERGI 315
           L       +   +      +  +  T       +++ ++  +     S+   A  +   I
Sbjct: 251 LWDGDIQFVTPTDITENKYQHHTQRTVVKTPKMKVLPKYTIMYTCIASIGKMALSLYPCI 310

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-PIKE 374
                 ++ P    +    +         +     +     +   D  ++ V V    KE
Sbjct: 311 TNQQINSIVPKSFYNNEFIYYSLLQKTFLIKAGFANSTLPIINKTDFSKIQVPVILDKKE 370

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           Q  I   +    + ID ++ +  + I  L+  +   +    
Sbjct: 371 QEKIAGCL----SEIDTMITEQLKKIERLETHKKGLMQGLF 407


>gi|189467554|ref|ZP_03016339.1| hypothetical protein BACINT_03944 [Bacteroides intestinalis DSM
           17393]
 gi|189435818|gb|EDV04803.1| hypothetical protein BACINT_03944 [Bacteroides intestinalis DSM
           17393]
          Length = 376

 Score = 99.9 bits (247), Expect = 6e-19,   Method: Composition-based stats.
 Identities = 52/383 (13%), Positives = 112/383 (29%), Gaps = 25/383 (6%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+ + +     L   +T         I    ++S  GKYL    N      +  +     
Sbjct: 8   WQKIFLGEVCNLYQPKT---------IATSCLDS-NGKYLVYGANGVIGKYNEYNHKFP- 56

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
           ++L    G       I+      +   +V+ PK+    L   +L           +  GA
Sbjct: 57  EVLITCRGATCGTINISKPFSWINGNAMVVHPKE-ENLLDFAFLGKAVSAIDYSKVITGA 115

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
                    +  + + IP L EQ  I  ++      +  +I      I  L    Q++  
Sbjct: 116 AQPQITRANLQKVQIVIPTLVEQQTIASELD----AVQEMIDGYKTQITDLDALAQSI-- 169

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
             +    +P    K   I  +G + +    K       +          S+  +L     
Sbjct: 170 -FLDMFGDPVTNPKGWEIMKIGEISEVTSSKRI-YQSEQTKSGIPFYKISDFPNLIEYGY 227

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
                  +     E      + +  +++            ++             ++   
Sbjct: 228 SDTGIFISQAKYEELKSKKLVPNESDLLITSRGTLGLCYIVKDEDCFYFQDGMITWLKNL 287

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
              + S +L ++ +S           +G     L    +++  ++VPPIK Q    + + 
Sbjct: 288 KSTVLSAFLGFMFQSSLFKNQIEKAQNGSTIAYLSIAMIRKFDMIVPPIKLQQHFVSQVE 347

Query: 384 VETARIDVLVEKIEQSIVLLKER 406
                I+   E I   +   +  
Sbjct: 348 A----IEKQKELIRDQLAETETL 366



 Score = 63.7 bits (153), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 32/196 (16%), Positives = 70/196 (35%), Gaps = 13/196 (6%)

Query: 22  PKHWKVVPIKRFTKLNTGRTS----ESGKDIIYIGLED----VESGTGKYLPKDGNSRQS 73
           PK W+++ I   +++ + +      ++   I +  + D    +E G          ++  
Sbjct: 181 PKGWEIMKIGEISEVTSSKRIYQSEQTKSGIPFYKISDFPNLIEYGYSDTGIFISQAKYE 240

Query: 74  DTSTVSIFAKG-QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKD----VLPELLQGWL 128
           +  +  +      +L    G      I+ D D       ++   K+    VL   L    
Sbjct: 241 ELKSKKLVPNESDLLITSRGTLGLCYIVKDEDCFYFQDGMITWLKNLKSTVLSAFLGFMF 300

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
            S     +IE    G+T+++     I    M +PP+  Q     ++ A   + + +  + 
Sbjct: 301 QSSLFKNQIEKAQNGSTIAYLSIAMIRKFDMIVPPIKLQQHFVSQVEAIEKQKELIRDQL 360

Query: 189 IRFIELLKEKKQALVS 204
                L+ E+ Q   S
Sbjct: 361 AETETLMAERMQYYFS 376



 Score = 55.2 bits (131), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 20/166 (12%), Positives = 47/166 (28%), Gaps = 15/166 (9%)

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK-----------RS 304
              +  G +    + + +           +V     V    +  N K             
Sbjct: 8   WQKIFLGEVCNLYQPKTIATSCLDSNGKYLVYGANGVIGKYNEYNHKFPEVLITCRGATC 67

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKR 364
                      I    M V P   +    A+L ++         +    +  +   ++++
Sbjct: 68  GTINISKPFSWINGNAMVVHPKEENLLDFAFLGKAVSAIDYSKVITGAAQPQITRANLQK 127

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
           + +++P + EQ  I + ++     ID      +  I  L     S 
Sbjct: 128 VQIVIPTLVEQQTIASELDAVQEMID----GYKTQITDLDALAQSI 169


>gi|229508129|ref|ZP_04397634.1| type I restriction-modification system specificity subunit [Vibrio
           cholerae BX 330286]
 gi|229511632|ref|ZP_04401111.1| type I restriction-modification system specificity subunit [Vibrio
           cholerae B33]
 gi|229518771|ref|ZP_04408214.1| type I restriction-modification system specificity subunit [Vibrio
           cholerae RC9]
 gi|229607690|ref|YP_002878338.1| type I restriction-modification system specificity subunit [Vibrio
           cholerae MJ-1236]
 gi|229343460|gb|EEO08435.1| type I restriction-modification system specificity subunit [Vibrio
           cholerae RC9]
 gi|229351597|gb|EEO16538.1| type I restriction-modification system specificity subunit [Vibrio
           cholerae B33]
 gi|229355634|gb|EEO20555.1| type I restriction-modification system specificity subunit [Vibrio
           cholerae BX 330286]
 gi|229370345|gb|ACQ60768.1| type I restriction-modification system specificity subunit [Vibrio
           cholerae MJ-1236]
          Length = 167

 Score = 99.9 bits (247), Expect = 6e-19,   Method: Composition-based stats.
 Identities = 31/169 (18%), Positives = 66/169 (39%), Gaps = 10/169 (5%)

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
              +  + E        E Y   ++   G++V   +        +        GI++ +Y
Sbjct: 1   MTGVTPRSEKNVTMFMAEDYTGSKLCHSGDLVINIMWAWMGALGVS----DRTGIVSPSY 56

Query: 321 MAVKPHG---IDSTYLAWLMRSYDLCKVFYAMGSG---LRQSLKFEDVKRLPVLVPPIKE 374
              +          YL  L++S    + +  + +G    R       +  + +  PP +E
Sbjct: 57  GVFREQREGTFVPKYLEMLLKSTKYVEYYNKVSTGLHSSRLRFYGHMLFDMALGFPPYEE 116

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
           Q  I   I+ E +++D  +    + +  LKE +++ I +AVTG+I +  
Sbjct: 117 QTQIVEYISRECSKVDEAITVQAEQVSKLKEYKTTLINSAVTGKIKVTE 165



 Score = 53.3 bits (126), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 30/145 (20%), Positives = 58/145 (40%), Gaps = 5/145 (3%)

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKD---VLPELLQGWL 128
             D +   +   G ++   +  ++    ++D  GI S  + V + +     +P+ L+  L
Sbjct: 17  AEDYTGSKLCHSGDLVINIMWAWMGALGVSDRTGIVSPSYGVFREQREGTFVPKYLEMLL 76

Query: 129 LSIDVTQRIEAICEGAT--MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
            S    +    +  G            + ++ +  PP  EQ  I E I  E  ++D  IT
Sbjct: 77  KSTKYVEYYNKVSTGLHSSRLRFYGHMLFDMALGFPPYEEQTQIVEYISRECSKVDEAIT 136

Query: 187 ERIRFIELLKEKKQALVSYIVTKGL 211
            +   +  LKE K  L++  VT  +
Sbjct: 137 VQAEQVSKLKEYKTTLINSAVTGKI 161


>gi|51594887|ref|YP_069078.1| type I restriction enzyme, S subunit [Yersinia pseudotuberculosis
           IP 32953]
 gi|51588169|emb|CAH19776.1| putative type I restriction enzyme, S subunit [Yersinia
           pseudotuberculosis IP 32953]
          Length = 427

 Score = 99.9 bits (247), Expect = 6e-19,   Method: Composition-based stats.
 Identities = 47/409 (11%), Positives = 114/409 (27%), Gaps = 31/409 (7%)

Query: 25  WKVVPIKRFTKLNT----GRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS- 79
           W    +     + +     +   +   + +    DV S                 + +S 
Sbjct: 19  WVENNLGELIDIRSAARVHKEQWTEAGVPFFRTSDVVSIYKGQENTKSYISPEVYNGLSE 78

Query: 80  ---IFAKGQILYGKLGPYLRKAIIADF---DGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
                 K  +L    G      ++ +        +    +   K      L  +  S   
Sbjct: 79  KIGKVTKDDLLITGGGSIGIPYLVPNDDPLYFKDADLLWLKNNKKFNGYFLYTFFFSAPF 138

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            + I++I    T++H   +     P+      EQ  I          I+    +  +   
Sbjct: 139 KKHIKSISHTGTIAHYTIEQAKATPINTCYDEEQTQIGNYFQKLDSLINQHQQKHDKLSN 198

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFAL--------VTELN 245
           + K   + +          P+++ K    +W   +P                     +  
Sbjct: 199 IKKAMLEKMFPK--PGKTIPEIRFKGFSGKW-EEMPFGTCFVNVSNNTLSRADLNYEDGM 255

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
            KN    +  I      +   +L          +   +  +  G+I+       +     
Sbjct: 256 AKNIHYGDVLIKFGEVLDATNELLPFITNNDVTNKLKHAALRDGDIIIADAAEDSMVGKC 315

Query: 306 RSAQVMERGIITSAYMAVKPHGID---STYLAWLMRSYDLCKVFYAMGSGLRQ-SLKFED 361
                +   ++ S    +         S YL + + S        ++  G +  S+    
Sbjct: 316 TELFNIGEQLVLSGLHTIAVRPTLNFASKYLGYYLNSSSYHDQLLSLMQGTKVLSISKTA 375

Query: 362 VKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
           ++   ++ P   +EQ +I         ++D L+ + +Q I  L   + +
Sbjct: 376 IQNTNIVFPKSAEEQVEIGKY----FQKLDALINQHQQQITKLNNIKQA 420



 Score = 59.8 bits (143), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 24/174 (13%), Positives = 48/174 (27%), Gaps = 13/174 (7%)

Query: 248 NTKLIESNILSLSYGN---IIQKLETRNMGLKPESY----ETYQIVDPGEIVFRFIDLQN 300
             +  E+ +      +   I +  E     + PE Y    E    V   +++        
Sbjct: 38  KEQWTEAGVPFFRTSDVVSIYKGQENTKSYISPEVYNGLSEKIGKVTKDDLLITGGGSIG 97

Query: 301 DKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKF 359
               L                       +  +L     S    K   ++  +G       
Sbjct: 98  -IPYLVPNDDPLYFKDADLLWLKNNKKFNGYFLYTFFFSAPFKKHIKSISHTGTIAHYTI 156

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           E  K  P+     +EQ  I N       ++D L+ + +Q    L   + + +  
Sbjct: 157 EQAKATPINTCYDEEQTQIGNY----FQKLDSLINQHQQKHDKLSNIKKAMLEK 206


>gi|77415002|ref|ZP_00791084.1| Type I restriction modification DNA specificity domain protein
           [Streptococcus agalactiae 515]
 gi|77158946|gb|EAO70175.1| Type I restriction modification DNA specificity domain protein
           [Streptococcus agalactiae 515]
          Length = 497

 Score = 99.9 bits (247), Expect = 6e-19,   Method: Composition-based stats.
 Identities = 72/451 (15%), Positives = 143/451 (31%), Gaps = 63/451 (13%)

Query: 5   KAYPQYKD---SGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIY---IGLEDVES 58
           K Y +  D     V+    IP  W+ V ++  + L+        K   Y   + +ED+E 
Sbjct: 47  KPYEKLSDGTIKEVEVPYDIPASWEWVRLRNISSLSFFPNISGDKIPNYSWVLDMEDIEK 106

Query: 59  GTGKYLPKDGNSRQSDT-STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPK 117
            TG+ + K+  + +S   S    F+K  +LY KL P L+K II+D DG  +T+ + ++  
Sbjct: 107 ETGRLVRKNYKTEKSSYKSNKVYFSKDTVLYAKLRPNLKKVIISDEDGFATTELIPIKIF 166

Query: 118 DVLPELLQGWLLS-IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIA 176
             +      + +        I     G  M   +   + +  +P+PPL+EQ  I E+I  
Sbjct: 167 GGISAEYMRYCMISPSYYFNIIKSVYGVKMPRVNATFLNSTLLPLPPLSEQKRIVEQIER 226

Query: 177 ETVRIDTLITERIRFIELLKEKK----QALVSYIVTKGLNPDVKM--------------- 217
              ++D       +  EL K       ++++ Y +   L P                   
Sbjct: 227 ALEKVDAYSESYNKLQELDKSFPDKLKKSILQYAMQGKLVPQDPNDEPVEVLLEKIQAEK 286

Query: 218 --------------------KDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE---- 253
                               K       G +P +W       + +     + K  +    
Sbjct: 287 QKLYEEGKLKKKDLAEIVVTKGDDNSPYGKIPKNWSFLTIKDIFSITTGLSYKKTDLAIT 346

Query: 254 ---SNILSLSYGNIIQKLETRNMGLKPESY--ETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
                I+     N +      N       +       +   +++                
Sbjct: 347 KNGVRIIRGGNINPLSFKILDNDYYIDPKFITSETVYLKRNQLLTPVSTSLEHIGKFARI 406

Query: 309 QVMERGIITSAYMA----VKPHGIDSTYLAWLMRSYDLCKVFY---AMGSGLRQSLKFED 361
                      ++          + S YL + + S    +       +      ++    
Sbjct: 407 DKDYPNTAAGGFVFQLTPFVSSDVLSKYLLFSLSSPIFYEQLKSITKLSGQALYNIPKTK 466

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVL 392
           +  L V + P  EQ  I+  +     +++ L
Sbjct: 467 LNELLVPLAPETEQKRISQRVEQLFEKVNQL 497



 Score = 69.1 bits (167), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 32/208 (15%), Positives = 66/208 (31%), Gaps = 12/208 (5%)

Query: 221 GIEWVGLVPDHWEVKPFFA-----LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL 275
            +E    +P  WE               ++          +          +L  +N   
Sbjct: 59  EVEVPYDIPASWEWVRLRNISSLSFFPNISGDKIPNYSWVLDMEDIEKETGRLVRKNYKT 118

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
           +  SY++ ++    + V       N K+ + S +  +    T         GI + Y+ +
Sbjct: 119 EKSSYKSNKVYFSKDTVLYAKLRPNLKKVIISDE--DGFATTELIPIKIFGGISAEYMRY 176

Query: 336 LMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
            M S            G+    +    +    + +PP+ EQ  I   I     ++D   E
Sbjct: 177 CMISPSYYFNIIKSVYGVKMPRVNATFLNSTLLPLPPLSEQKRIVEQIERALEKVDAYSE 236

Query: 395 KIEQSIVLLK----ERRSSFIAAAVTGQ 418
              +   L K    + + S +  A+ G+
Sbjct: 237 SYNKLQELDKSFPDKLKKSILQYAMQGK 264


>gi|283770884|ref|ZP_06343776.1| type I restriction enzyme S subunit [Staphylococcus aureus subsp.
           aureus H19]
 gi|283461031|gb|EFC08121.1| type I restriction enzyme S subunit [Staphylococcus aureus subsp.
           aureus H19]
          Length = 392

 Score = 99.9 bits (247), Expect = 7e-19,   Method: Composition-based stats.
 Identities = 58/397 (14%), Positives = 118/397 (29%), Gaps = 30/397 (7%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W+   ++   K+N+G+  +            ++ G        G           +   
Sbjct: 20  EWEEKKLESIIKVNSGKDYK-----------HLDKGDIPVYGTGGYMTSVSEP---LSEI 65

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
             +  G+ G   +  ++ +      T F     K+     +             +   E 
Sbjct: 66  DAVGIGRKGTINKPYLLEEPFWTVDTLFYCTPKKETDILFILSLFR----KINWKVYDES 121

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
             +     + I  I   +P   EQ  I +       +I+    +     +  K   Q + 
Sbjct: 122 TGVPSLSKQTINKINRFVPTNKEQQKIGKFFSKLDRQIELEEQKLELLQQQKKGYMQKIF 181

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
           S  +           +     +  V                  K    +ES        N
Sbjct: 182 SQELRFKDENGNDYPEWENVMLQKVLKDKTEG-IKRGPFGGALKKDIFVESGYAVYEQRN 240

Query: 264 IIQKLETRNMGLKPESYETY--QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
            I  +      +    Y+      V P +I+            +   Q   +GII  A +
Sbjct: 241 AIYDISNFRYYINENKYKEMQSFSVQPNDIIMSCSGTIGRLALIP--QNYTKGIINQALI 298

Query: 322 AVKPHGID-STYLAWLMRSYDLCKVFYAM--GSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
             + +    S +    MRS  + +       GS +   +  +++K +P  +P   EQ  I
Sbjct: 299 RFRTNHKIRSEFFLIFMRSNQMQRKILEANPGSAITNLVPVKELKLIPFPLPVKFEQDKI 358

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           +  I +    I+  +E+ E+ I  LK R+  F+    
Sbjct: 359 SQFILI----INRRIEQSEKKIESLKNRKQGFLQKLF 391


>gi|68248822|ref|YP_247934.1| putative type I restriction-modification system specificity protein
           [Haemophilus influenzae 86-028NP]
 gi|229847392|ref|ZP_04467493.1| putative type I restriction-modification system specificity protein
           [Haemophilus influenzae 7P49H1]
 gi|68057021|gb|AAX87274.1| putative type I restriction-modification system specificity protein
           [Haemophilus influenzae 86-028NP]
 gi|229809718|gb|EEP45443.1| putative type I restriction-modification system specificity protein
           [Haemophilus influenzae 7P49H1]
          Length = 390

 Score = 99.9 bits (247), Expect = 7e-19,   Method: Composition-based stats.
 Identities = 60/388 (15%), Positives = 123/388 (31%), Gaps = 37/388 (9%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           +  P+     +              +      SG   Y     N+ Q      +   +G+
Sbjct: 18  EWKPLDEVANIVNNARKP-------VKSSSRVSGNIPY--YGANNIQDYVEGYT--HEGE 66

Query: 86  ILY----GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            +     G           A      +    V+  K+ L        L+        A  
Sbjct: 67  FVLIAEDGSASLENYSIQWAVGKFWANNHVHVVNGKEKLNNRFLYHYLTNMNFIPFLA-- 124

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            G   +      +  IP+PIPPL+ Q  I + + A T     L +E I   +  +  ++ 
Sbjct: 125 -GKERAKLTKAKLQQIPIPIPPLSVQTEIVKILDALTALTSELTSELILRQKQYEYYREK 183

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
           L+S           ++   G EW          K   +  T     N       I  L  
Sbjct: 184 LLSE---------EELGKVGFEW---KTIDEISKKISSGGTPTTSNNGYYDNGTIPWLRT 231

Query: 262 GNIIQKLETRNMGLKPES---YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
             +  K          E      + + +    ++         K ++    +       +
Sbjct: 232 QEVDFKEIWDTNIKITEDALNNSSAKWIPANCVIVAMYGATVGKTAINKIPLTTNQACAN 291

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
             + +        Y+   + S    +   ++GSG + ++  + +K+L V VPPI+EQ+ I
Sbjct: 292 --IEINDKLACYRYIFHYLTSKY--EYIKSLGSGSQTNINAQIIKKLKVPVPPIEEQYRI 347

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKER 406
            ++++      + + E +  +I   ++R
Sbjct: 348 VSILDKFETLTNSITEGLPLAIEQSQKR 375



 Score = 57.9 bits (138), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 14/129 (10%), Positives = 46/129 (35%), Gaps = 3/129 (2%)

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG 350
           ++       + +       V +       ++      +++ +L   + + +         
Sbjct: 68  VLIAEDGSASLENYSIQWAVGKFWANNHVHVVNGKEKLNNRFLYHYLTNMNFIPFLAGKE 127

Query: 351 SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
              R  L    ++++P+ +PP+  Q +I  +++  TA    L  ++       +  R   
Sbjct: 128 ---RAKLTKAKLQQIPIPIPPLSVQTEIVKILDALTALTSELTSELILRQKQYEYYREKL 184

Query: 411 IAAAVTGQI 419
           ++    G++
Sbjct: 185 LSEEELGKV 193


>gi|83943084|ref|ZP_00955544.1| Restriction endonuclease S subunit-like protein [Sulfitobacter sp.
           EE-36]
 gi|83846092|gb|EAP83969.1| Restriction endonuclease S subunit-like protein [Sulfitobacter sp.
           EE-36]
          Length = 497

 Score = 99.9 bits (247), Expect = 7e-19,   Method: Composition-based stats.
 Identities = 64/382 (16%), Positives = 130/382 (34%), Gaps = 20/382 (5%)

Query: 56  VESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLR---KAIIADFDGICSTQFL 112
           +++               + ST  + A+  +L       LR      +A+ D   +    
Sbjct: 1   MKADRIGDTKDYVTDLGIENSTTRVVAENSLLIVTRSGILRHSLPVALANKDVAFNQDIK 60

Query: 113 VLQPKDVLPELLQGWLLSIDVTQRIEAICE-GATMSHADWKGIGNIPMPIPPLAEQVLIR 171
            L     +      + L  D    ++A  + G T+   D+  + + P+ I P  EQ  I 
Sbjct: 61  ALTLFSGIDPEYVLYHLKADADDILDACAKAGTTVESLDFNRLKSYPLRIAPSLEQRRIV 120

Query: 172 EKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPD----VKMKDSGIEWVGL 227
           EK+   T R D    E  R  EL+ + K   +    T  L  D       K +G+E +  
Sbjct: 121 EKLDILTGRTDRAHDELSRIPELVAKYKSCFLRLAFTGQLTSDFRGEHSRKGTGVENIPD 180

Query: 228 VPDHWEVKPFFALVTELNRKNTKLIESNILSLSY-------GNIIQKLETRNMGLKPESY 280
                 +     +   +     +   ++++ + Y          +   E + +G+ P+  
Sbjct: 181 SWAVKPLGEISEIQGGVQVGKKRSSSTDLVEVPYLRVANVQRGWLDLEEIKTIGVTPQEK 240

Query: 281 ETYQIVDPGEIVFR-FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID--STYLAWLM 337
           E   ++  G+I+     D     R       +   I  +    ++         +++   
Sbjct: 241 E-RLLLRMGDILMNEGGDRDKLGRGWVWNNQIADCIHQNHVFRIRLKDSSLPPEFVSHYA 299

Query: 338 RSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
                              S+    +  LPV VPP  E  +I N I+   A ++ +  + 
Sbjct: 300 NEMGQQYFVDQGTQTTNLASISKRKLAALPVPVPPSDEAVEIVNRIDAAFAWLERISSEQ 359

Query: 397 EQSIVLLKERRSSFIAAAVTGQ 418
             +  LL E  ++ ++ A  G+
Sbjct: 360 AAASKLLPELDAAILSKAFRGE 381



 Score = 72.1 bits (175), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 40/215 (18%), Positives = 81/215 (37%), Gaps = 17/215 (7%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKRFTKLNTG-----RTSESGK--DIIYIGLEDVESGTGKY 63
           K +GV+    IP  W V P+   +++  G     + S S    ++ Y+ + +V+ G    
Sbjct: 171 KGTGVE---NIPDSWAVKPLGEISEIQGGVQVGKKRSSSTDLVEVPYLRVANVQRGWLDL 227

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGPY---LRKAIIADFDGICSTQFLVLQPKDVL 120
                           +   G IL  + G      R  +  +    C  Q  V + +   
Sbjct: 228 EEIKTIGVTPQEKERLLLRMGDILMNEGGDRDKLGRGWVWNNQIADCIHQNHVFRIRLKD 287

Query: 121 ----PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIA 176
               PE +  +   +     ++   +   ++    + +  +P+P+PP  E V I  +I A
Sbjct: 288 SSLPPEFVSHYANEMGQQYFVDQGTQTTNLASISKRKLAALPVPVPPSDEAVEIVNRIDA 347

Query: 177 ETVRIDTLITERIRFIELLKEKKQALVSYIVTKGL 211
               ++ + +E+    +LL E   A++S      L
Sbjct: 348 AFAWLERISSEQAAASKLLPELDAAILSKAFRGEL 382


>gi|15836900|ref|NP_297588.1| type I restriction-modification system specificity determinant
           [Xylella fastidiosa 9a5c]
 gi|9105118|gb|AAF83108.1|AE003883_3 type I restriction-modification system specificity determinant
           [Xylella fastidiosa 9a5c]
          Length = 442

 Score = 99.9 bits (247), Expect = 7e-19,   Method: Composition-based stats.
 Identities = 61/388 (15%), Positives = 130/388 (33%), Gaps = 35/388 (9%)

Query: 58  SGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLG-----PYLRKAII--ADFDGICSTQ 110
            G   +        +           G I+  + G     P  R A+    D     S+ 
Sbjct: 50  DGLLDFGDVVELEVEDRHFASRQLQPGDIIIERSGGGPKQPVGRAALFVPFDDHTYFSSN 109

Query: 111 FL----VLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLA 165
           F     +       P  +  +L ++ +    E +    T + + DW+    I +P  PL 
Sbjct: 110 FTTTIRIRDRSLFDPGYVALYLHALYLDGATETLQRATTGIRNLDWREYLRIEVPAHPLQ 169

Query: 166 EQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWV 225
           EQ      +    + + T         +     K++ +S I T+GL  + +        +
Sbjct: 170 EQQS----LAHLIIGVRTAYRNEQHLSQTFMALKRSALSSIFTRGLRGEAQKDT----EI 221

Query: 226 GLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY----- 280
           GL+P+ W ++P  A  + ++            +      I+  E     +          
Sbjct: 222 GLLPESWGLEPIAAHFSVVSGGTPSRGNPAYWTGGSIPWIKTTEVAYCQITETEEHITPK 281

Query: 281 ----ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWL 336
                  +++  G ++         +  +    +        A M    + + + YL   
Sbjct: 282 GLQDSAAKLLPKGTLLMAMYGQGVTRGKVAILGIEAACNQACAAMVPINNLVHTRYLYHF 341

Query: 337 MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK-EQFDITNVINVETARIDVLVEK 395
           + ++    +      G +Q+L  E V+ L    PP   EQ +I ++I+    +ID     
Sbjct: 342 L-TWRYEDIRSLAHGGQQQNLNLEMVRDLLFATPPSHVEQDEIVSIIDAIDRKID----L 396

Query: 396 IEQSIVLLKERRSSFIAAAVTGQIDLRG 423
             +   +L++   S +   +TG+I +  
Sbjct: 397 HRRKRHVLEDMFKSLLHKLMTGEISVSD 424



 Score = 79.8 bits (195), Expect = 9e-13,   Method: Composition-based stats.
 Identities = 37/204 (18%), Positives = 69/204 (33%), Gaps = 13/204 (6%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKY 63
           KD+    IG +P+ W + PI     + +G T   G         I +I   +V       
Sbjct: 217 KDTE---IGLLPESWGLEPIAAHFSVVSGGTPSRGNPAYWTGGSIPWIKTTEVAYCQITE 273

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGP--YLRKAIIADFDGICSTQFLVLQPKDVLP 121
             +    +    S   +  KG +L    G      K  I   +  C+     + P + L 
Sbjct: 274 TEEHITPKGLQDSAAKLLPKGTLLMAMYGQGVTRGKVAILGIEAACNQACAAMVPINNLV 333

Query: 122 ELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGN-IPMPIPPLAEQVLIREKIIAETVR 180
                +       + I ++  G    + + + + + +    P   EQ  I   I A   +
Sbjct: 334 HTRYLYHFLTWRYEDIRSLAHGGQQQNLNLEMVRDLLFATPPSHVEQDEIVSIIDAIDRK 393

Query: 181 IDTLITERIRFIELLKEKKQALVS 204
           ID    +R    ++ K     L++
Sbjct: 394 IDLHRRKRHVLEDMFKSLLHKLMT 417


>gi|164551510|gb|ABY60972.1| Sau1hsdS1 [Staphylococcus aureus]
          Length = 412

 Score = 99.9 bits (247), Expect = 7e-19,   Method: Composition-based stats.
 Identities = 58/402 (14%), Positives = 137/402 (34%), Gaps = 24/402 (5%)

Query: 24  HWKVVPIKRFT-KLNTGRTSE------SGKDIIYIGLEDVESGTGKYLP-KDGNSRQSDT 75
            W+   +   T K+ +G+T +      + K I ++  +++ +G          +    D 
Sbjct: 20  EWEEKQLGDLTTKIGSGKTPKGGSENYTNKGIPFLRSQNIRNGKLNLNDLVYISKDIDDE 79

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIA---DFDGICSTQ-FLVLQPKDVLPELLQGWLLSI 131
              S    G +L    G  + +  I    +     +    ++   K+        +LLS 
Sbjct: 80  MKNSRTYYGDVLLNITGASIGRTAINSIVETHANLNQHVCIIRLKKEYYYIFFGQYLLSR 139

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
              ++I     G +    ++K I N+ +  P + E+    +KI     ++D  I    + 
Sbjct: 140 KGKRKIFLAQSGGSREGLNFKEIANLKIFTPTIFEEQ---QKIGKFFSKLDRQIELEEQK 196

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           +ELL+++K+  +  I ++ L    +  +   EW       +  KP          K+  L
Sbjct: 197 LELLQQQKKGYLQKIFSQELRFKDENGNDYPEWRFARFKDFMYKPINIRPAINISKSELL 256

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
                        I ++         + +E   I           D+   K        +
Sbjct: 257 TVKLHCKGIEKANINRVLKLGATNYYKRFEGQFIYGKQNFFNGAFDIVPKK-----FDGL 311

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
                  A+         + +++++ R                + +    V    + +P 
Sbjct: 312 YSSSDVPAFEINTEKIEPNYFISYISRPSFYKSKEKYSTGTGSKRIHENTVLNFSLHLPC 371

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           + EQ  I + +      ++  +E +E+ I L+K+++ + +  
Sbjct: 372 LNEQLKIASFVCF----LNRKIELLERKIYLIKKQKQALLQQ 409



 Score = 67.1 bits (162), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 23/181 (12%), Positives = 52/181 (28%), Gaps = 6/181 (3%)

Query: 215 VKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK----LET 270
            +++  G E         ++             +       I  L   NI        + 
Sbjct: 10  PELRFPGFEGEWEEKQLGDLTTKIGSGKTPKGGSENYTNKGIPFLRSQNIRNGKLNLNDL 69

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
             +    +          G+++         + ++ S       +     +         
Sbjct: 70  VYISKDIDDEMKNSRTYYGDVLLNITGASIGRTAINSIVETHANLNQHVCIIRLKKEYYY 129

Query: 331 TYLA-WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI-KEQFDITNVINVETAR 388
            +   +L+      K+F A   G R+ L F+++  L +  P I +EQ  I    +    +
Sbjct: 130 IFFGQYLLSRKGKRKIFLAQSGGSREGLNFKEIANLKIFTPTIFEEQQKIGKFFSKLDRQ 189

Query: 389 I 389
           I
Sbjct: 190 I 190


>gi|258424532|ref|ZP_05687409.1| restriction modification system specificity subunit [Staphylococcus
           aureus A9635]
 gi|257845127|gb|EEV69164.1| restriction modification system specificity subunit [Staphylococcus
           aureus A9635]
          Length = 419

 Score = 99.9 bits (247), Expect = 7e-19,   Method: Composition-based stats.
 Identities = 54/407 (13%), Positives = 114/407 (28%), Gaps = 31/407 (7%)

Query: 24  HWKVVPIKRFTKLNTGRTSES---GKDIIYIGLEDVESG---TGKYLPKDGNSRQSDTST 77
            W+   +    +   G        G     +  +DV +        L    N    +   
Sbjct: 20  EWEEKKVGELLEFKNGLNKGKEYFGSGSSIVNFKDVFNNRSINTNNLTGKVNVNSKELKN 79

Query: 78  VSIFAKGQILYGKLGPYLRKAIIA------DFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
            S   KG + + +    + +            + + S   L  +PK  +  +   +   +
Sbjct: 80  YS-VEKGDVFFTRTSEVIGEIGYPSVILNDPENTVFSGFVLRGRPKSGIDLINNNFKRYV 138

Query: 132 DVTQRIEAIC---EGATMSHADWKGIGNIPMPIPPL--AEQVLIREKIIAETVRIDTLIT 186
             T             T          N    I P+   EQ  I +       +I+    
Sbjct: 139 FFTNSFRKEMITKSSMTTRALTSGTAINRMKVIYPVSAKEQKKIGDFFSKLDRQIELEEQ 198

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
           +     +  K   Q + S  +           +     +  + ++             + 
Sbjct: 199 KLELLQQQKKGYMQKIFSQELRFKDENGNDYPNWRTIELKNILENIVDNRGKTPDNAPSE 258

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
           K   L  + +       I                   + +   +I+F  +        + 
Sbjct: 259 KYPLLEVNALGYYRPAYIKVSKFVSENTYNN---WFREHLKENDILFSTVGNT----GIV 311

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL--CKVFYAMGSGLRQSLKFEDVKR 364
           S     + +I    + ++ +  +     + M SY     K+       ++ S+K    K 
Sbjct: 312 SLMDNYKAVIAQNIVGLRVNNNNLPSFIYYMLSYKGNQKKIKRIQMGAVQPSVKVSQFKF 371

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
           +  LVP   EQ  +          ID LV K    I LL++R+ + +
Sbjct: 372 IKYLVPIKDEQEKVA----KLLIEIDKLVNKQLIKIELLQQRKKALL 414



 Score = 48.6 bits (114), Expect = 0.002,   Method: Composition-based stats.
 Identities = 22/188 (11%), Positives = 67/188 (35%), Gaps = 8/188 (4%)

Query: 24  HWKVVPIKRFTKL---NTGRTSES--GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           +W+ + +K   +    N G+T ++   +    + +  +      Y+       ++  +  
Sbjct: 231 NWRTIELKNILENIVDNRGKTPDNAPSEKYPLLEVNALGYYRPAYIKVSKFVSENTYNNW 290

Query: 79  SI--FAKGQILYGKLGPYLRKAIIADFDGICSTQFL-VLQPKDVLPELLQGWLLSIDVTQ 135
                 +  IL+  +G     +++ ++  + +   + +    + LP  +   L      +
Sbjct: 291 FREHLKENDILFSTVGNTGIVSLMDNYKAVIAQNIVGLRVNNNNLPSFIYYMLSYKGNQK 350

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
           +I+ I  GA            I   +P   EQ  + + +I     ++  + +     +  
Sbjct: 351 KIKRIQMGAVQPSVKVSQFKFIKYLVPIKDEQEKVAKLLIEIDKLVNKQLIKIELLQQRK 410

Query: 196 KEKKQALV 203
           K   +++ 
Sbjct: 411 KALLKSMF 418


>gi|257083312|ref|ZP_05577673.1| type I restriction endonuclease S subunit [Enterococcus faecalis
           Fly1]
 gi|256991342|gb|EEU78644.1| type I restriction endonuclease S subunit [Enterococcus faecalis
           Fly1]
          Length = 398

 Score = 99.9 bits (247), Expect = 7e-19,   Method: Composition-based stats.
 Identities = 53/407 (13%), Positives = 123/407 (30%), Gaps = 43/407 (10%)

Query: 23  KHWKVVPIKRFTKL-----NTGRTSESGKDIIYIGLEDV----------ESGTGKYLPKD 67
           + W++  + R   +     + G       ++ +   E+            +  G +L  D
Sbjct: 14  EDWELCKLGRIFDVHTDFVSNGSFQSLKNNVRFYNDENYAYMIRLQDASNNWRGPWLYTD 73

Query: 68  GNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIA--DFDGICSTQFLVLQPKDVLPELLQ 125
            +    D    S   +  IL    G   +  ++   D     S+  ++L+  +     + 
Sbjct: 74  KHG--FDFLKKSTVYENDILMSDRGTIGKFFLVPKLDRPMTLSSNAVLLRSSNCNNNFIY 131

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
             L +ID+  +I+                  I   +P   EQ  I + +     +ID   
Sbjct: 132 YMLNTIDIGNQIKKRTTPGVQPMISKTEFKKIITKLPVREEQKKIGDFL----KKIDETF 187

Query: 186 TERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN 245
           T   R  + LKE K+A +  +         K++ +  E    +     +        +  
Sbjct: 188 TLHQRKSDQLKELKKAYLQLMFPTKEERVPKLRFADFEGEWELCKLNGILDIIKGTQKSK 247

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
            + +    +      Y   I      N+  +                      +    + 
Sbjct: 248 SELSTNQNNCTPYPVYNGGINPSGYTNIYNREN---------------AITISEGGNSAG 292

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRL 365
               V E+         +  +  D+ +L + + S    ++          +++   +  L
Sbjct: 293 FVNFVQEKFFSGGHNYTIVNNVTDTLFLFFYLCSIQ-EEIMRLRVGTGLPNIQKPTLMNL 351

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
            +      EQ  I   +      ID+L+   +  +  LK  + S++ 
Sbjct: 352 EIQKTTDNEQKSIGLFL----KNIDILISLTQNKLNQLKSLKKSYLQ 394


>gi|257064462|ref|YP_003144134.1| restriction endonuclease S subunit [Slackia heliotrinireducens DSM
           20476]
 gi|256792115|gb|ACV22785.1| restriction endonuclease S subunit [Slackia heliotrinireducens DSM
           20476]
          Length = 416

 Score = 99.9 bits (247), Expect = 7e-19,   Method: Composition-based stats.
 Identities = 57/417 (13%), Positives = 115/417 (27%), Gaps = 33/417 (7%)

Query: 26  KVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            VV +     L +G T           DI ++  + +++ +          +    S   
Sbjct: 4   NVVSLGDVVDLFSGGTPSKKNHEYWGGDIPWVSAKSMDADSINSGVLYITDKGL-ASGSR 62

Query: 80  IFAKGQILYGKLGPYLR---KAIIADFDGICSTQFLVLQPKDVLP-ELLQGWLLSIDVTQ 135
           +  KG +L+   G  L      I  +     +     LQ K       +  WL++     
Sbjct: 63  LAEKGTMLFLTRGSGLFSRIPVIWVESPVAFNQDIKCLQAKKPDDARYIYHWLVAQRPVF 122

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
                  G      +   + ++ +  P +  +  I +        I +            
Sbjct: 123 SKMLDVTGIGAGKINTDQLLDMEIYWPDVLTRQRITQIADPLIHAIHSNSCTNDYLA--- 179

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK------NT 249
            E  +AL S+       P         E +G +P    + P   L   + +         
Sbjct: 180 -ESIRALFSHWFVDFA-PFTGEPYVESE-IGRIPSSIRLVPLKDLTKTITKGTTPTTLGY 236

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYE-----TYQIVDPGEIVFRFIDLQNDKRS 304
           +  E  I  +   +I+               E        I++  +++F           
Sbjct: 237 RFTEHGINYIKGESILDDHSFDYSKFAHIDDETNIALKRSIIENRDLLFTIAGTLGRFAM 296

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM-GSGLRQSLKFEDVK 363
                +          +      I    L     S      +       ++ +L    +K
Sbjct: 297 AVPEILPANTNQAVGIIRPDVEKIAPEVLLSYFISGWQNDYYSRRVQQAVQANLSLTTLK 356

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQID 420
            LPV +  I E   I          I   +E        L + R + +   ++G+ID
Sbjct: 357 SLPVPM-LIGE-RRI--EYEDLIVPIVHAIESNNAQNRKLTDLRDTLLPKLMSGEID 409


>gi|91216789|ref|ZP_01253753.1| putative specificity protein s [Psychroflexus torquis ATCC 700755]
 gi|91184950|gb|EAS71329.1| putative specificity protein s [Psychroflexus torquis ATCC 700755]
          Length = 422

 Score = 99.9 bits (247), Expect = 7e-19,   Method: Composition-based stats.
 Identities = 67/423 (15%), Positives = 151/423 (35%), Gaps = 29/423 (6%)

Query: 22  PKHWKVVPIKRFT-KLNTGRTSESGKD-IIYIGLEDVESGTGKYLPKDGN------SRQS 73
           PK+WK+  +   T K+ +G T   GK+     G   + S          N       +Q+
Sbjct: 2   PKNWKIYKLSEVTTKIGSGATPRGGKEAYKKFGTSLIRSQNVLDFKFSINGLAFIDEKQA 61

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGI---CSTQF-LVLQPKDVLPELLQGWLL 129
                    +  +L    G  + +      + +    +    +V      L  +   + L
Sbjct: 62  SKLDNVTIEENDVLLNITGDSVARVCSVPKEFLPARVNQHVAIVRANILKLDAIYLKYFL 121

Query: 130 SIDVTQRIEA--ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
             +  + +       GAT +      I +  + +PPL EQ  I   + A   +I+  +  
Sbjct: 122 LENTNKNMLLTLASAGATRNALTKIMIEDFRLDLPPLPEQTQIANILSAIDDKIENNLAI 181

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK 247
                ++     +    + V  G   + +  DS    +GL+P  WEVK    +V   +  
Sbjct: 182 NKTLEDMAMALYK---HWFVDFGPFQEGEFIDS---ELGLIPKGWEVKRLEEVVQVNSNS 235

Query: 248 NTKLIESNILSLSYGNIIQKL---ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
             K  E  I++      +++    E + +  +       +I+  G+I++  +      R 
Sbjct: 236 IKKDKEPKIINYIDIASVKEGWVEEIKTIKYEDAPSRAKRIISDGDIIWSTVRPNRKSRF 295

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVK 363
           L      E  I+++ ++ + P  I  +YL     + D      +  +G    ++  +  +
Sbjct: 296 LALG-FSENTIVSTGFVVMSPILISYSYLYLCSCTKDFVDYLVSRATGSSYPAVTGKVFE 354

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
              +L+P       I +  ++    + +     +     L   R + +   ++G++ L+ 
Sbjct: 355 EYEILIPE----KAILDRFSIIVEPMFLHSSSNDIENQTLTNLRDTLLPKLISGEVRLKE 410

Query: 424 ESQ 426
             +
Sbjct: 411 FRE 413



 Score = 66.0 bits (159), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 36/205 (17%), Positives = 74/205 (36%), Gaps = 9/205 (4%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDG 68
           ++ DS    +G IPK W+V  ++   ++N+  + +  K+   I   D+ S    ++ +  
Sbjct: 207 EFIDSE---LGLIPKGWEVKRLEEVVQVNS-NSIKKDKEPKIINYIDIASVKEGWVEEIK 262

Query: 69  NSRQSD--TSTVSIFAKGQILYGKLGPYLRKAII---ADFDGICSTQFLVLQPKDVLPEL 123
             +  D  +    I + G I++  + P  +   +      + I ST F+V+ P  +    
Sbjct: 263 TIKYEDAPSRAKRIISDGDIIWSTVRPNRKSRFLALGFSENTIVSTGFVVMSPILISYSY 322

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           L     + D    + +   G++      K      + IP  A        +    +   +
Sbjct: 323 LYLCSCTKDFVDYLVSRATGSSYPAVTGKVFEEYEILIPEKAILDRFSIIVEPMFLHSSS 382

Query: 184 LITERIRFIELLKEKKQALVSYIVT 208
              E      L       L+S  V 
Sbjct: 383 NDIENQTLTNLRDTLLPKLISGEVR 407



 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 22/178 (12%), Positives = 59/178 (33%), Gaps = 15/178 (8%)

Query: 228 VPDHWEVKPFFALVT------ELNRKNTKLIESNILSLSYGNIIQKLETRN----MGLKP 277
           +P +W++     + T                +     +   N++    + N    +  K 
Sbjct: 1   MPKNWKIYKLSEVTTKIGSGATPRGGKEAYKKFGTSLIRSQNVLDFKFSINGLAFIDEKQ 60

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI--DSTYLAW 335
            S      ++  +++       +  R     +      +      V+ + +  D+ YL +
Sbjct: 61  ASKLDNVTIEENDVLLNITG-DSVARVCSVPKEFLPARVNQHVAIVRANILKLDAIYLKY 119

Query: 336 LMRSYDLCKVFY--AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
            +       +    A     R +L    ++   + +PP+ EQ  I N+++    +I+ 
Sbjct: 120 FLLENTNKNMLLTLASAGATRNALTKIMIEDFRLDLPPLPEQTQIANILSAIDDKIEN 177


>gi|258540281|ref|YP_003174780.1| hypothetical protein LC705_02090 [Lactobacillus rhamnosus Lc 705]
 gi|257151957|emb|CAR90929.1| Putative protein without homology [Lactobacillus rhamnosus Lc 705]
          Length = 402

 Score = 99.9 bits (247), Expect = 7e-19,   Method: Composition-based stats.
 Identities = 53/404 (13%), Positives = 123/404 (30%), Gaps = 35/404 (8%)

Query: 25  WKVVPIKRFTKLNTGRTSE---SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           W+        K N  R      S ++ + I    V         K   + ++      + 
Sbjct: 20  WEKRKFGELYKPNKERNESAEFSSENTLSIATMTVNR-------KGNGAAKTSLLKYKVI 72

Query: 82  AKGQILY----GKLGPYLRKAIIADFDGICSTQFLVLQP-KDVLPELLQGWLLSIDVTQR 136
             G I +     K   + R  +    DGI S +F  L+P    + +  + ++    + + 
Sbjct: 73  RIGDIAFEGHTSKKFAFGRFVLNDVADGIMSPRFTCLRPIHRQIIQFWKQYIHYEPILRP 132

Query: 137 I--EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           I   +   G  M+      +    + +P + EQ LI + +      I     +     ++
Sbjct: 133 ILIRSTKLGTMMNELVVPDLLKQNIRVPSINEQKLIGKSLSRVDDLIAATQGKLDNLEKI 192

Query: 195 LKEKKQALVSYI--VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
            +   + L           +P  K K      +     H   K            N   +
Sbjct: 193 KRALLKHLFDQSMRFRGYSDPWEKRKLIDQLSLLKDGTHGTHKD----------GNFAFL 242

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
            S    +    +    + +              +   +++   +             V  
Sbjct: 243 LSAKNVIQDSIVFDDSDRKISEDDFNDIYANYHIKKNDVLLTIVGTIGRVALFPRLTVPV 302

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPP 371
               + A +  KP      +LA  +++  +     A  +   +  +   D+K++ + +P 
Sbjct: 303 AFQRSVAILRTKPTLF-PYFLALELQTPTIQSKIKARANMSAQAGIYLGDLKKVVISIPK 361

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            +EQ +I   +N  T     L+   +  +  L+  + + +    
Sbjct: 362 SEEQIEIAMSLNRLT----NLIAATQSKLSSLETLKKALLQGLF 401


>gi|237742575|ref|ZP_04573056.1| restriction modification system DNA specificity subunit
           [Fusobacterium sp. 4_1_13]
 gi|229430223|gb|EEO40435.1| restriction modification system DNA specificity subunit
           [Fusobacterium sp. 4_1_13]
          Length = 598

 Score = 99.9 bits (247), Expect = 7e-19,   Method: Composition-based stats.
 Identities = 58/397 (14%), Positives = 124/397 (31%), Gaps = 30/397 (7%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           P   +   +    K   G+T         I   D+   +G   P   ++  +        
Sbjct: 13  PNGVEYKELGEIVKSQRGKTITKE----LIKDGDIPVISGGQKPAYYHNESN-------- 60

Query: 82  AKGQIL-YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
            KG+++     G Y    +  D     S  F +   K  L  +   +    +   +I ++
Sbjct: 61  RKGEVITVAGSGAYAGFVMYWDKPIFVSDAFSIECDKSYLN-IKYIYYFLQNNQMKIHSL 119

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
            +G  + H  +K +    +P+PPL  Q  I   +   T              EL  E   
Sbjct: 120 KKGGGVPHVYFKDMQKFLVPVPPLEVQNEIVRILDNFTALTAE--LTAELTAELTAELTA 177

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
            L +         D  +K      +  + D +E K           K T +I    +++ 
Sbjct: 178 ELTARKKQYSWYRDYLLKFENKVKMVKIGDLFEFKNGINKDKGSFGKGTPIIN--YVNVY 235

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA--QVMERGIITS 318
             N I   + + +            V  G++ F       ++    S   + +E  + + 
Sbjct: 236 KKNKIYFEDLKGLVEASNDELVRYGVKRGDVFFTRTSETIEEIGYTSVLLEDIENCVFSG 295

Query: 319 AYMAVKPHGID--STYLAWLMRSYDLCK-VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
             +  +P        Y A+   + ++   +        R       + ++ + +PP++ Q
Sbjct: 296 FLLRARPITDLLLPEYCAYCFSTSNIRNTIIKKSTYTTRALTNGTSLSQIEIPLPPLEVQ 355

Query: 376 FDITNVINVETARIDVL-------VEKIEQSIVLLKE 405
             I  V+       + L       +E  ++     + 
Sbjct: 356 KRIVEVLGNFEKICNDLNIGLPAEIEARQKQYEFYRN 392



 Score = 99.5 bits (246), Expect = 9e-19,   Method: Composition-based stats.
 Identities = 56/404 (13%), Positives = 126/404 (31%), Gaps = 29/404 (7%)

Query: 26  KVVPIKRFTKLNTGRTSESG---KDIIYIGLEDVESGTGKYLP--KDGNSRQSDTSTVSI 80
           K+V I    +   G   + G   K    I   +V      Y    K      +D      
Sbjct: 201 KMVKIGDLFEFKNGINKDKGSFGKGTPIINYVNVYKKNKIYFEDLKGLVEASNDELVRYG 260

Query: 81  FAKGQILYGKLGPYLRKAIIAD------FDGICSTQFLVLQPKDVL--PELLQGWLLSID 132
             +G + + +    + +            + + S   L  +P   L  PE       + +
Sbjct: 261 VKRGDVFFTRTSETIEEIGYTSVLLEDIENCVFSGFLLRARPITDLLLPEYCAYCFSTSN 320

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           +   I       T +  +   +  I +P+PPL  Q  I E +       + L       I
Sbjct: 321 IRNTIIKKSTYTTRALTNGTSLSQIEIPLPPLEVQKRIVEVLGNFEKICNDLNIGLPAEI 380

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           E  +++ +   ++++T  +      K    +    +   +     +  +        K  
Sbjct: 381 EARQKQYEFYRNFLLTFKIENCTLPKTRQDKTRQDIIKLFMYIFGYIELELGEILKIKNG 440

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
                       I  +     G      +TY       ++ R   + N     +    ++
Sbjct: 441 SDYKKF-----NIGNIPVYGSGGIINYIDTYIYDKESVLIPRKGSIGNLFYVDKPFWTVD 495

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI 372
               T  Y  +    +   YL + +   +L K+     +G   SL    + ++ + +P +
Sbjct: 496 ----TIFYTVIDKDVVIPKYLYYYLSKMNLEKL---NTAGGVPSLTQTVLNKILISLPSL 548

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           +EQ  I ++++      + + E +   I   ++     R   + 
Sbjct: 549 EEQERIVDILDRFDKLCNDISEGLPAEIEARQKQYEYYREKLLT 592



 Score = 64.4 bits (155), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 18/127 (14%), Positives = 48/127 (37%), Gaps = 8/127 (6%)

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF 346
             GE++   +                  +  +  +      ++  Y+ + +++  +    
Sbjct: 61  RKGEVI--TVAGSGAYAGFVMYWDKPIFVSDAFSIECDKSYLNIKYIYYFLQNNQMKIHS 118

Query: 347 YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV----- 401
              G G+   + F+D+++  V VPP++ Q +I  +++  TA    L  ++   +      
Sbjct: 119 LKKGGGV-PHVYFKDMQKFLVPVPPLEVQNEIVRILDNFTALTAELTAELTAELTAELTA 177

Query: 402 LLKERRS 408
            L  R+ 
Sbjct: 178 ELTARKK 184


>gi|69245866|ref|ZP_00603683.1| Restriction modification system DNA specificity domain
           [Enterococcus faecium DO]
 gi|257879184|ref|ZP_05658837.1| restriction-modification enzyme type I S subunit [Enterococcus
           faecium 1,230,933]
 gi|257881997|ref|ZP_05661650.1| restriction-modification enzyme type I S subunit [Enterococcus
           faecium 1,231,502]
 gi|257890014|ref|ZP_05669667.1| restriction-modification enzyme type I S subunit [Enterococcus
           faecium 1,231,410]
 gi|258615582|ref|ZP_05713352.1| HsdS protein [Enterococcus faecium DO]
 gi|260560169|ref|ZP_05832346.1| HsdS protein [Enterococcus faecium C68]
 gi|293560249|ref|ZP_06676748.1| HsdS protein [Enterococcus faecium E1162]
 gi|314947718|ref|ZP_07851125.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecium TX0082]
 gi|68195568|gb|EAN10010.1| Restriction modification system DNA specificity domain
           [Enterococcus faecium DO]
 gi|257813412|gb|EEV42170.1| restriction-modification enzyme type I S subunit [Enterococcus
           faecium 1,230,933]
 gi|257817655|gb|EEV44983.1| restriction-modification enzyme type I S subunit [Enterococcus
           faecium 1,231,502]
 gi|257826374|gb|EEV53000.1| restriction-modification enzyme type I S subunit [Enterococcus
           faecium 1,231,410]
 gi|260073736|gb|EEW62061.1| HsdS protein [Enterococcus faecium C68]
 gi|291605793|gb|EFF35228.1| HsdS protein [Enterococcus faecium E1162]
 gi|313645698|gb|EFS10278.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecium TX0082]
          Length = 414

 Score = 99.9 bits (247), Expect = 8e-19,   Method: Composition-based stats.
 Identities = 61/407 (14%), Positives = 132/407 (32%), Gaps = 31/407 (7%)

Query: 25  WKVVPIKRFTK----LNTGRTSESGKDIIYIGLED--VESGTGKYLPKDGNSRQSDTSTV 78
           W+    +        +  G    + K   ++   +  V               +      
Sbjct: 18  WEQRKFECLLDKKDGVRRGPFGSALKKEFFVSNSNFVVYEQQNAIYDNYETRYKITEKKY 77

Query: 79  -----SIFAKGQILYGKLGPYLRKAIIAD--FDGICSTQFLVLQPKDVLPELLQGWLLSI 131
                     G  +    G   R + +      G+ +   + L+    + +    ++  I
Sbjct: 78  NELIKFKLEPGDFIMSGAGTIGRISRVPKQIKPGVFNQALIRLRINKEITDSEY-FIQFI 136

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
                   +      S        +           +  ++KI     ++D  I  + R 
Sbjct: 137 RADFMQRKLTGANPGSAITNLVPMSEVKKWIVQFPILEEQKKIGNFFKQLDDTIALQQRK 196

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           ++LLKE K+  +  +      P    K   I + G   + WE + F     +  +KNTK 
Sbjct: 197 LDLLKETKKGFLQKMF-----PKNGAKVPEIRFPGFT-EDWEQRKFKEFSKKTGKKNTKD 250

Query: 252 IESNILSLSY--GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
           ++    S+S   G I Q  +     L       Y+ V+P E  +     + +  S+    
Sbjct: 251 LDFPAYSVSNKAGLISQTEQFDGSRLDDLEKTNYKFVEPNEFAYNP--ARVNVGSIAFNN 308

Query: 310 VMERGIITSAYMA-VKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPV 367
           +    I++S Y+       +D+ ++   ++S    K         +R+ L +E+   +  
Sbjct: 309 LGMTVIVSSLYVVVKMSEDLDNEFILQFIKSPTFIKEVKRNTEGSVREYLFYENFANIKF 368

Query: 368 LVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
                 +EQ  I         ++D  +   ++ + LLKE +  F+  
Sbjct: 369 PFTRNKEEQQKIGAF----FKQLDDTIALHQRKLDLLKETKKGFLQK 411



 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 32/189 (16%), Positives = 68/189 (35%), Gaps = 8/189 (4%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQS-DTSTVSIF 81
           + W+    K F+K  TG+ +    D     + +      +    DG+     + +     
Sbjct: 229 EDWEQRKFKEFSK-KTGKKNTKDLDFPAYSVSNKAGLISQTEQFDGSRLDDLEKTNYKFV 287

Query: 82  AKGQILYGKLGPYLRKAIIADFDGIC---STQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
              +  Y      +      +        S   +V   +D+  E +  ++ S    + ++
Sbjct: 288 EPNEFAYNPARVNVGSIAFNNLGMTVIVSSLYVVVKMSEDLDNEFILQFIKSPTFIKEVK 347

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
              EG+   +  ++   NI  P     E+    +KI A   ++D  I    R ++LLKE 
Sbjct: 348 RNTEGSVREYLFYENFANIKFPFTRNKEEQ---QKIGAFFKQLDDTIALHQRKLDLLKET 404

Query: 199 KQALVSYIV 207
           K+  +  + 
Sbjct: 405 KKGFLQKMF 413


>gi|255308058|ref|ZP_05352229.1| type I restriction-modification system S subunit [Clostridium
           difficile ATCC 43255]
          Length = 366

 Score = 99.9 bits (247), Expect = 8e-19,   Method: Composition-based stats.
 Identities = 47/399 (11%), Positives = 118/399 (29%), Gaps = 43/399 (10%)

Query: 26  KVVPIKRFTKLNTGRTSESG------KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           + + +     +N G+T              ++ + D++        ++      + + + 
Sbjct: 2   EYIKLNELCYINIGKTPSRNTSDYWGSGNRWLSISDLKEKYILKSKEEITDLAVEKANMK 61

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           +  K  ++        R AI+ +     + + +          +   +L     T     
Sbjct: 62  LVPKNTVVMSFKLSIGRVAILKEDM--FTNEAIANFQIKNNELITYEYLYYALRTLNFNN 119

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
                  +  +   + +I +P   +  Q  + E +      I+    +     EL     
Sbjct: 120 TDRAVMGATLNKSKLNDIKIPYFTICIQNKMVEVLNKAQELINKRKEQIEALDEL----- 174

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
             + S  +    N     KD   E +G + +    K       ++  KN+  +       
Sbjct: 175 --VKSRFIEMFGNVITNSKDWDTELLGEISNLKAGKNIK--AKDIYEKNSHELYPCYGGN 230

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
                ++    +                     F  I  Q            +      A
Sbjct: 231 GLRGYVKMYSHKGT-------------------FNLIGRQGALCGNVKYVNGKFYATEHA 271

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
            +      I+S +L + ++  DL ++        +  L    +  + +   P+  Q    
Sbjct: 272 VVVQPKVDINSYWLYFTLKELDLNRL---STGAAQPGLTVGKLNEVEIPKVPVYLQNKFV 328

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           + +     +ID L  ++E S+  L+   +S +  A  G+
Sbjct: 329 DFV----RQIDKLKSRMEDSLKELENNFNSLMQKAFKGE 363



 Score = 44.0 bits (102), Expect = 0.044,   Method: Composition-based stats.
 Identities = 24/191 (12%), Positives = 47/191 (24%), Gaps = 17/191 (8%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           K W    +   + L  G+          I  +D+       L                  
Sbjct: 191 KDWDTELLGEISNLKAGKN---------IKAKDIYEKNSHELYPCYGGNGLRGYVKMYSH 241

Query: 83  KGQI-LYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
           KG   L G+ G         +     +   +V+QPK  +      + L       +  + 
Sbjct: 242 KGTFNLIGRQGALCGNVKYVNGKFYATEHAVVVQPKVDINSYWLYFTLKEL---DLNRLS 298

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            GA         +  + +P  P+  Q    + +         +                +
Sbjct: 299 TGAAQPGLTVGKLNEVEIPKVPVYLQNKFVDFVRQIDKLKSRMEDSLKELENNFN----S 354

Query: 202 LVSYIVTKGLN 212
           L+       L 
Sbjct: 355 LMQKAFKGELF 365


>gi|120555303|ref|YP_959654.1| restriction modification system DNA specificity subunit
           [Marinobacter aquaeolei VT8]
 gi|120325152|gb|ABM19467.1| restriction modification system DNA specificity domain
           [Marinobacter aquaeolei VT8]
          Length = 374

 Score = 99.9 bits (247), Expect = 8e-19,   Method: Composition-based stats.
 Identities = 54/370 (14%), Positives = 116/370 (31%), Gaps = 32/370 (8%)

Query: 76  STVSIFAKGQILYGKLGPYLRKAII-----ADFDGICSTQFLVLQPKDVLPELLQ--GWL 128
           +   +   G+  Y K         +         GI S  ++         + L    + 
Sbjct: 3   TNYFLLKSGEFAYNKSYSNGYPVGVVRRLKRYDSGILSPLYICFDMSSSEVDELYAEHFF 62

Query: 129 LSIDVTQRIEAICEGATMSH----ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
            S      I  I +    +H           ++   +PPL EQ  I   + +    I+  
Sbjct: 63  DSQWFIDEINQIAKEGARNHGLLNVGVGEFFDLEFVLPPLPEQQKIAAILSSVDDVIEKT 122

Query: 185 ITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTEL 244
             +  +  +L     Q L++  +     P  + KDS +   G VP  WE+     +    
Sbjct: 123 RAQIDKLKDLKTGMMQELLTKGIGSDGVPHTEFKDSPV---GRVPVSWEIVRLGDVSKVQ 179

Query: 245 NR---KNTKLIESNILSLSYGNIIQK----LETRNMGLKPESYETYQIVDPGEIVFRFID 297
                K+    ++    L   N+ +      E   +  +  S  +   +   +IV     
Sbjct: 180 GGFAFKSADATDNGCRWLKIANVGRGTVVWGEKSFLPNEFLSEYSDFALKEADIVVALTR 239

Query: 298 LQNDKRSLRSAQVMERG--IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR- 354
                    +  +      ++      V P         +L       KV   +   +  
Sbjct: 240 PVISGELKVAQLMKSDAPSLLNQRVARVIPKL-SRVSREYLFTLLSWRKVANDIEQAIFG 298

Query: 355 ---QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
               ++  + ++ L   +PP +EQ  I + +   + RI  L       +  L+  + + +
Sbjct: 299 TDPPNVSTKQIESLCYPLPPREEQDLIASSLGAVSNRIRTL----SNKLDQLRGTKEALM 354

Query: 412 AAAVTGQIDL 421
              +TG++ +
Sbjct: 355 QDLLTGKVRV 364



 Score = 60.2 bits (144), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 47/227 (20%), Positives = 89/227 (39%), Gaps = 20/227 (8%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKYL 64
           ++KDS V   G +P  W++V +   +K+  G   +S         ++ + +V  GT  + 
Sbjct: 154 EFKDSPV---GRVPVSWEIVRLGDVSKVQGGFAFKSADATDNGCRWLKIANVGRGTVVWG 210

Query: 65  PKDGNSRQS-DTSTVSIFAKGQILYGKLGPYL----RKAIIADFDG--ICSTQFLVLQPK 117
            K     +     +     +  I+     P +    + A +   D   + + +   + PK
Sbjct: 211 EKSFLPNEFLSEYSDFALKEADIVVALTRPVISGELKVAQLMKSDAPSLLNQRVARVIPK 270

Query: 118 --DVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKII 175
              V  E L   L    V   IE    G    +   K I ++  P+PP  EQ LI   + 
Sbjct: 271 LSRVSREYLFTLLSWRKVANDIEQAIFGTDPPNVSTKQIESLCYPLPPREEQDLIASSL- 329

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGI 222
                +   I      ++ L+  K+AL+  ++T  +  +V  K+S +
Sbjct: 330 ---GAVSNRIRTLSNKLDQLRGTKEALMQDLLTGKVRVNVDQKESAV 373


>gi|168482751|ref|ZP_02707703.1| type I site-specific deoxyribonuclease chain S [Streptococcus
           pneumoniae CDC1873-00]
 gi|172043638|gb|EDT51684.1| type I site-specific deoxyribonuclease chain S [Streptococcus
           pneumoniae CDC1873-00]
          Length = 521

 Score = 99.9 bits (247), Expect = 8e-19,   Method: Composition-based stats.
 Identities = 65/438 (14%), Positives = 140/438 (31%), Gaps = 66/438 (15%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNSR 71
            IP  W+ V      ++  G +    KD        I +I + D E G           +
Sbjct: 83  DIPDTWEWVRFSTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINNVKEKIK 142

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
           +S  +      KG  L      + R  I+     I      +   ++ L +    ++LS 
Sbjct: 143 KSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYLFYILSS 202

Query: 132 D-VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
           + V  +  ++  GA + + +   + +I +P+PPL+EQ  I E I +   ++D       R
Sbjct: 203 NVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLSEQQRIIEAIESALEKVDEYAESYNR 262

Query: 191 FIELLKEKK----QALVSYIVTKGLNPDVKMKDS-------------------------- 220
             +L KE      ++++ Y +   L       +S                          
Sbjct: 263 LEQLDKEFPDKLKKSILQYAMQGKLVEQDPNDESVEVLLEKIRAEKQKLFEEGKIKKKDL 322

Query: 221 ---------GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETR 271
                       + G +P +W V     + +     + K  + +I +     II+    +
Sbjct: 323 DISIVSQGDDNSYYGNIPMNWVVIKIKDIFSMNTGLSYKKGDLSINN-KGVRIIRGGNIK 381

Query: 272 NMGLKPESYETYQ----------IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
            +       + Y            +   +++                     G++   ++
Sbjct: 382 PLEFSLLDNDYYIDTQFISSEQVYLKHNQLITPVSTSLEHIGKFARIDKDYDGVVAGGFI 441

Query: 322 A----VKPHGIDSTYLAWLMRSYDLCKVFY---AMGSGLRQSLKFEDVKRLPVLVPPIKE 374
                 +   I S +L + + S    K       +      ++    +  L + + P +E
Sbjct: 442 FQLTPFESSEIISKFLLFNLSSPLFYKQLKAITKLSGQALYNIPKTTLSELLIPLAPFEE 501

Query: 375 QFDITNVINVETARIDVL 392
           Q  IT  +     +++ L
Sbjct: 502 QELITQKVEKLFEKVNQL 519



 Score = 78.7 bits (192), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 43/210 (20%), Positives = 81/210 (38%), Gaps = 12/210 (5%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
            I+    +PD WE   F  LV  +   + + I+  + S   G    K+     G K  + 
Sbjct: 77  EIDVPYDIPDTWEWVRFSTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINN 136

Query: 281 ETYQIVDPG-----EIVFRFIDLQNDKRSLRSAQVMERGIITSAY--MAVKPHGIDSTYL 333
              +I   G      +      L N     R   +   G I   +  ++   + ++  YL
Sbjct: 137 VKEKIKKSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYL 196

Query: 334 AWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            +++ S  +   F ++ SG   ++L  + V  + + +PP+ EQ  I   I     ++D  
Sbjct: 197 FYILSSNVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLSEQQRIIEAIESALEKVDEY 256

Query: 393 VEKIEQSIVLLKE----RRSSFIAAAVTGQ 418
            E   +   L KE     + S +  A+ G+
Sbjct: 257 AESYNRLEQLDKEFPDKLKKSILQYAMQGK 286



 Score = 45.6 bits (106), Expect = 0.014,   Method: Composition-based stats.
 Identities = 36/184 (19%), Positives = 74/184 (40%), Gaps = 17/184 (9%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           G IP +W V+ IK    +NTG + +        K +  I   +++      L  D     
Sbjct: 337 GNIPMNWVVIKIKDIFSMNTGLSYKKGDLSINNKGVRIIRGGNIKPLEFSLLDNDYYIDT 396

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIA-----DFDGICSTQFLV----LQPKDVLPEL 123
              S+  ++ K   L   +   L           D+DG+ +  F+      +  +++ + 
Sbjct: 397 QFISSEQVYLKHNQLITPVSTSLEHIGKFARIDKDYDGVVAGGFIFQLTPFESSEIISKF 456

Query: 124 LQGWLLSIDVTQRIEAICE--GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
           L   L S    ++++AI +  G  + +     +  + +P+ P  EQ LI +K+     ++
Sbjct: 457 LLFNLSSPLFYKQLKAITKLSGQALYNIPKTTLSELLIPLAPFEEQELITQKVEKLFEKV 516

Query: 182 DTLI 185
           + L 
Sbjct: 517 NQLW 520


>gi|239629953|ref|ZP_04672984.1| restriction modification system DNA specificity domain containing
           protein [Lactobacillus paracasei subsp. paracasei
           8700:2]
 gi|239527565|gb|EEQ66566.1| restriction modification system DNA specificity domain containing
           protein [Lactobacillus paracasei subsp. paracasei
           8700:2]
          Length = 402

 Score = 99.5 bits (246), Expect = 8e-19,   Method: Composition-based stats.
 Identities = 54/406 (13%), Positives = 121/406 (29%), Gaps = 39/406 (9%)

Query: 25  WKVVPIKRFTK-LNTGRTSESGK---DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV-- 78
           W+        K    G  + + K      Y+ + D++  T  +  +   S  ++ S    
Sbjct: 20  WEKRKYGDIAKSFQYGLNAPAKKFDGINKYLRITDIDDLTRLFKQESLTSPDTNLSNAST 79

Query: 79  SIFAKGQILYGKLGP-YLRKAIIADFDGICSTQ---FLVLQPKDVLPELLQGWLLSIDVT 134
            +  +G +L+ + G    +       DG                   E      L+    
Sbjct: 80  YLLKQGDVLFARTGASTGKTYKYRKGDGKVYFAGFLIRADLKPKFDSEFFYQTTLTDSFL 139

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             ++   + +     + K   N  + +P L+EQ  I   +      I     +     + 
Sbjct: 140 DFVKVTSQRSGQPGINSKEYANKAIQVPELSEQQRIGSVLAIYDNLIAATQDKIDALEQA 199

Query: 195 LKEKKQALVSYI--VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
            K   Q L           +P  K K S                          +     
Sbjct: 200 KKALLQRLFDQSWRFKGYSDPWEKRKVSD--------------------YLCESRIPGSN 239

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS--AQV 310
                 L+     + +  +N          Y +    ++++  +D  +    +       
Sbjct: 240 GLKAKKLTVKLWGKGVVPKNETYSGSIKTKYYVRSANQLIYGKLDFLHAAFGIVPQSLDG 299

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMR-SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
            E  I + A+      G  +  LA  +R ++ L +   A GS   + +  +    + +  
Sbjct: 300 WESTIDSPAFDVNTSIGNAAFLLALFLRPNFYLREGIRANGSRKAKRIHEDTFLSMSISA 359

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           P  KEQ  I  V++    + ++L+   +  +  L+  + + +    
Sbjct: 360 PQRKEQDQIAVVLD----KTELLIAATQSRLSSLELLKKALLQDLF 401


>gi|58616451|ref|YP_195580.1| Type I restriction-modification system (specificity subunit)
           [Azoarcus sp. EbN1]
 gi|56315913|emb|CAI10556.1| Type I restriction-modification system (specificity subunit)
           [Aromatoleum aromaticum EbN1]
          Length = 408

 Score = 99.5 bits (246), Expect = 8e-19,   Method: Composition-based stats.
 Identities = 54/402 (13%), Positives = 124/402 (30%), Gaps = 30/402 (7%)

Query: 29  PIKRFTKLNTGRT----SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
            +     +N              + ++ +  V+  TG        S        + F + 
Sbjct: 7   RLADVCDINPRLPRTHGITDDTLVSFVPMAAVDELTGTIATSQSRSFAEVKKGYTSFREN 66

Query: 85  QILYGKLGPYLRKAI------IADFDGICSTQFLVLQP-KDVLPELLQGWLLSIDVTQRI 137
            +L+ K+ P +          +    G  ST+F VL+    VLPE L+ ++   +  +  
Sbjct: 67  DVLFAKITPCMENGKAALAQSLVGGVGFGSTEFHVLRAGPQVLPEWLRYFVRREEFRREA 126

Query: 138 EAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           +    G           +    +P+P L EQ  I + +       + ++  R        
Sbjct: 127 KRNFTGTAGQQRVPTTFLSGAEIPVPSLDEQRRIVDLLSRA----EGIVRLRREAQRKAA 182

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
           E   AL    V    +P    K   +  +G +  +    P      +             
Sbjct: 183 EIIPAL---FVDMFGDPATNPKGWPVTTIGSLSSYTRYGP---RFPDRPYAAEGAHILRT 236

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
             + Y   I   +   + +  +  E Y  + PG ++         K ++      E  I 
Sbjct: 237 TDMGYSGDIHWSDAPVLPVTVDELEKYH-LRPGTLLVTRTGATIGKIAIFRG-AEEPCIA 294

Query: 317 TSAYM-AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKE 374
            +  +       +   Y+   + S               + ++    +  +P+ +PP++ 
Sbjct: 295 GAYLIEIGFQAQVIPEYILHFLLSAFGQSQLVRGSRAVAQPNINAPTICAIPIPLPPLEI 354

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           Q      ++    ++       E ++   +   +S +A   +
Sbjct: 355 QARFAASVD----QLRAAQGLQESAMAKAEAIFNSLLAQVFS 392



 Score = 46.7 bits (109), Expect = 0.006,   Method: Composition-based stats.
 Identities = 30/168 (17%), Positives = 51/168 (30%), Gaps = 10/168 (5%)

Query: 22  PKHWKVVPIKRFTKLNT-GRTSES----GKDIIYIGLEDV-ESGTGKYLPKDGNSRQSDT 75
           PK W V  I   +     G          +    +   D+  SG   +          D 
Sbjct: 200 PKGWPVTTIGSLSSYTRYGPRFPDRPYAAEGAHILRTTDMGYSGDIHWSDAPVLPVTVDE 259

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIA---DFDGICSTQFL-VLQPKDVLPELLQGWLLSI 131
                   G +L  + G  + K  I    +   I     + +     V+PE +  +LLS 
Sbjct: 260 LEKYHLRPGTLLVTRTGATIGKIAIFRGAEEPCIAGAYLIEIGFQAQVIPEYILHFLLSA 319

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
               ++          + +   I  IP+P+PPL  Q      +     
Sbjct: 320 FGQSQLVRGSRAVAQPNINAPTICAIPIPLPPLEIQARFAASVDQLRA 367


>gi|225860524|ref|YP_002742033.1| type I site-specific deoxyribonuclease chain S [Streptococcus
           pneumoniae Taiwan19F-14]
 gi|225727877|gb|ACO23728.1| type I site-specific deoxyribonuclease chain S [Streptococcus
           pneumoniae Taiwan19F-14]
          Length = 521

 Score = 99.5 bits (246), Expect = 8e-19,   Method: Composition-based stats.
 Identities = 66/438 (15%), Positives = 140/438 (31%), Gaps = 66/438 (15%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNSR 71
            IP  W+ V      ++  G +    KD        I +I + D E G           +
Sbjct: 83  DIPDTWEWVRFSTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINNVKEKIK 142

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
           +S  +      KG  L      + R  I+     I      +   ++ L +    ++LS 
Sbjct: 143 KSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYLFYILSS 202

Query: 132 D-VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
           + V  +  ++  GA + + +   + +I +P+PPLAEQ  I E I +   ++D       R
Sbjct: 203 NVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLAEQQRIIEAIESALEKVDEYAESYNR 262

Query: 191 FIELLKEKK----QALVSYIVTKGLNPDVKMKDS-------------------------- 220
             +L KE      ++++ Y +   L       +S                          
Sbjct: 263 LEQLDKEFPDKLKKSILQYAMQGKLVEQDPNDESVEVLLEKIRAEKQKLFEEGKIKKKDL 322

Query: 221 ---------GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETR 271
                       + G +P +W V     + +     + K  + +I +     II+    +
Sbjct: 323 DISIVSQGDDNSYYGNIPMNWVVIKIKDIFSMNTGLSYKKGDLSINN-KGVRIIRGGNIK 381

Query: 272 NMGLKPESYETYQ----------IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
            +       + Y            +   +++                     G++   ++
Sbjct: 382 PLEFSLLDNDYYIDTQFISSEQVYLKHNQLITPVATSLEHIGKFARIDKDYDGVVAGGFI 441

Query: 322 A----VKPHGIDSTYLAWLMRSYDLCKVFY---AMGSGLRQSLKFEDVKRLPVLVPPIKE 374
                 +   I S +L + + S    K       +      ++    +  L + + P +E
Sbjct: 442 FQLTPFESSEIISKFLLFNLSSPLFYKQLKAITKLSGQALYNIPKTTLSELLIPLAPFEE 501

Query: 375 QFDITNVINVETARIDVL 392
           Q  IT  +     +++ L
Sbjct: 502 QELITQKVEKLFEKVNQL 519



 Score = 78.7 bits (192), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 43/210 (20%), Positives = 81/210 (38%), Gaps = 12/210 (5%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
            I+    +PD WE   F  LV  +   + + I+  + S   G    K+     G K  + 
Sbjct: 77  EIDVPYDIPDTWEWVRFSTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINN 136

Query: 281 ETYQIVDPG-----EIVFRFIDLQNDKRSLRSAQVMERGIITSAY--MAVKPHGIDSTYL 333
              +I   G      +      L N     R   +   G I   +  ++   + ++  YL
Sbjct: 137 VKEKIKKSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYL 196

Query: 334 AWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            +++ S  +   F ++ SG   ++L  + V  + + +PP+ EQ  I   I     ++D  
Sbjct: 197 FYILSSNVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLAEQQRIIEAIESALEKVDEY 256

Query: 393 VEKIEQSIVLLKE----RRSSFIAAAVTGQ 418
            E   +   L KE     + S +  A+ G+
Sbjct: 257 AESYNRLEQLDKEFPDKLKKSILQYAMQGK 286



 Score = 45.6 bits (106), Expect = 0.016,   Method: Composition-based stats.
 Identities = 36/184 (19%), Positives = 74/184 (40%), Gaps = 17/184 (9%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           G IP +W V+ IK    +NTG + +        K +  I   +++      L  D     
Sbjct: 337 GNIPMNWVVIKIKDIFSMNTGLSYKKGDLSINNKGVRIIRGGNIKPLEFSLLDNDYYIDT 396

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIA-----DFDGICSTQFLV----LQPKDVLPEL 123
              S+  ++ K   L   +   L           D+DG+ +  F+      +  +++ + 
Sbjct: 397 QFISSEQVYLKHNQLITPVATSLEHIGKFARIDKDYDGVVAGGFIFQLTPFESSEIISKF 456

Query: 124 LQGWLLSIDVTQRIEAICE--GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
           L   L S    ++++AI +  G  + +     +  + +P+ P  EQ LI +K+     ++
Sbjct: 457 LLFNLSSPLFYKQLKAITKLSGQALYNIPKTTLSELLIPLAPFEEQELITQKVEKLFEKV 516

Query: 182 DTLI 185
           + L 
Sbjct: 517 NQLW 520


>gi|294620837|ref|ZP_06700041.1| HsdS protein [Enterococcus faecium U0317]
 gi|291599622|gb|EFF30635.1| HsdS protein [Enterococcus faecium U0317]
          Length = 413

 Score = 99.5 bits (246), Expect = 8e-19,   Method: Composition-based stats.
 Identities = 61/407 (14%), Positives = 132/407 (32%), Gaps = 31/407 (7%)

Query: 25  WKVVPIKRFTK----LNTGRTSESGKDIIYIGLED--VESGTGKYLPKDGNSRQSDTSTV 78
           W+    +        +  G    + K   ++   +  V               +      
Sbjct: 18  WEQRKFECLLDKKDGVRRGPFGSALKKEFFVSNSNFVVYEQQNAIYDNYETRYKITEKKY 77

Query: 79  -----SIFAKGQILYGKLGPYLRKAIIAD--FDGICSTQFLVLQPKDVLPELLQGWLLSI 131
                     G  +    G   R + +      G+ +   + L+    + +    ++  I
Sbjct: 78  NELIKFKLEPGDFIMSGAGTIGRISRVPKQIKPGVFNQALIRLRINKEITDSEY-FIQFI 136

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
                   +      S        +           +  ++KI     ++D  I  + R 
Sbjct: 137 RADFMQRKLTGANPGSAITNLVPMSEVKKWIVQFPILEEQKKIGNFFKQLDDTIALQQRK 196

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           ++LLKE K+  +  +      P    K   I + G   + WE + F     +  +KNTK 
Sbjct: 197 LDLLKETKKGFLQKMF-----PKNGAKVPEIRFPGFT-EDWEQRKFKEFSKKTGKKNTKD 250

Query: 252 IESNILSLSY--GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
           ++    S+S   G I Q  +     L       Y+ V+P E  +     + +  S+    
Sbjct: 251 LDFPAYSVSNKAGLISQTEQFDGSRLDDLEKTNYKFVEPNEFAYNP--ARVNVGSIAFNN 308

Query: 310 VMERGIITSAYMA-VKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPV 367
           +    I++S Y+       +D+ ++   ++S    K         +R+ L +E+   +  
Sbjct: 309 LGMTVIVSSLYVVVKMSEDLDNEFILQFIKSPTFIKEVKRNTEGSVREYLFYENFANIKF 368

Query: 368 LVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
                 +EQ  I         ++D  +   ++ + LLKE +  F+  
Sbjct: 369 PFTRNKEEQQKIGAF----FKQLDDTIALHQRKLDLLKETKKGFLQK 411



 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 32/189 (16%), Positives = 68/189 (35%), Gaps = 8/189 (4%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQS-DTSTVSIF 81
           + W+    K F+K  TG+ +    D     + +      +    DG+     + +     
Sbjct: 229 EDWEQRKFKEFSK-KTGKKNTKDLDFPAYSVSNKAGLISQTEQFDGSRLDDLEKTNYKFV 287

Query: 82  AKGQILYGKLGPYLRKAIIADFDGIC---STQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
              +  Y      +      +        S   +V   +D+  E +  ++ S    + ++
Sbjct: 288 EPNEFAYNPARVNVGSIAFNNLGMTVIVSSLYVVVKMSEDLDNEFILQFIKSPTFIKEVK 347

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
              EG+   +  ++   NI  P     E+    +KI A   ++D  I    R ++LLKE 
Sbjct: 348 RNTEGSVREYLFYENFANIKFPFTRNKEEQ---QKIGAFFKQLDDTIALHQRKLDLLKET 404

Query: 199 KQALVSYIV 207
           K+  +  + 
Sbjct: 405 KKGFLQKMF 413


>gi|301170024|emb|CBW29628.1| putative type I restriction enzyme HindVIIP specificity protein
           [Haemophilus influenzae 10810]
          Length = 466

 Score = 99.5 bits (246), Expect = 9e-19,   Method: Composition-based stats.
 Identities = 55/464 (11%), Positives = 136/464 (29%), Gaps = 74/464 (15%)

Query: 23  KHWKVVPIKRFT-KLNTGRTSE-------SGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           K+W+   ++    K+ +G T            +I +I  +++ +G      +        
Sbjct: 10  KNWQKYSLEEICLKITSGGTPSRQNPKLYKNGNINWIKTKELNNGYIFESEEKITEEAIK 69

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
            S+  +     IL    G  + +  I   +  C+     L       +    + L     
Sbjct: 70  KSSAKLLPVNTILLAMYGATVGELGILGKEMACNQACCALIIDPKKADYRFIFYLLRLYK 129

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           + I+++  GA   +   K I      IP L +Q  I + +     +ID          ++
Sbjct: 130 KEIQSLATGAAQQNLSAKTIKEFSFYIPNLEKQKKIADILSELDKKIDLNTQINQTLEQI 189

Query: 195 LKEKKQALV---------SYIVTKGL---------------------------------- 211
            +   ++              ++ GL                                  
Sbjct: 190 AQALFKSWFVDFDPVRAKVQALSDGLSLEQAELAAMQAISGKTPEELTALSQTQPDRYAE 249

Query: 212 --NPDVKMKDSGIEWVG-LVPDHWEVKPFFALVTELNRKNTKLIES----------NILS 258
                       +E  G  VP  WE+K    ++  L     +  +           NI  
Sbjct: 250 LAETAKAFPCEMVEVDGVEVPKGWEIKALPEIIDFLEGPGIRNWQYTDEEDGIKFINIRC 309

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
           +  G++      +    +      +  ++  +IV            +R   +      + 
Sbjct: 310 IQNGDLTLTTANKITKEEAFGKYKHFQLEEDDIVVSTSGTLGRFAFVRKEHLPLSLNTSV 369

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP---IKEQ 375
                  +     ++A  + +    ++        +++     +K++ +LVP    ++  
Sbjct: 370 IRFRPIKNKSTLGFIAGFVENQLQHELEIRASGSAQRNFGPTHLKQITLLVPDFKLLELH 429

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
               + +  +  ++          I +LK+ R   +   + G+I
Sbjct: 430 QKYVSSLFEKRKQL-------LSEIDVLKDTRDLLLPKLLNGEI 466



 Score = 53.6 bits (127), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 20/172 (11%), Positives = 58/172 (33%), Gaps = 11/172 (6%)

Query: 20  AIPKHWKVVPIKRFTKLNTG------RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
            +PK W++  +        G      + ++    I +I +  +++G       +  +++ 
Sbjct: 268 EVPKGWEIKALPEIIDFLEGPGIRNWQYTDEEDGIKFINIRCIQNGDLTLTTANKITKEE 327

Query: 74  DTSTVSIF--AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW---L 128
                  F   +  I+    G   R A +       S    V++ + +  +   G+    
Sbjct: 328 AFGKYKHFQLEEDDIVVSTSGTLGRFAFVRKEHLPLSLNTSVIRFRPIKNKSTLGFIAGF 387

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
           +   +   +E    G+   +     +  I + +P      L ++ + +   +
Sbjct: 388 VENQLQHELEIRASGSAQRNFGPTHLKQITLLVPDFKLLELHQKYVSSLFEK 439


>gi|327404960|ref|YP_004345798.1| restriction modification system DNA specificity domain-containing
           protein [Fluviicola taffensis DSM 16823]
 gi|327320468|gb|AEA44960.1| restriction modification system DNA specificity domain protein
           [Fluviicola taffensis DSM 16823]
          Length = 391

 Score = 99.5 bits (246), Expect = 9e-19,   Method: Composition-based stats.
 Identities = 56/403 (13%), Positives = 114/403 (28%), Gaps = 46/403 (11%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           +   ++   ++ TG+                 S +  Y    G              +  
Sbjct: 14  EWKTLRDTCEIKTGKGITKND----------SSDSAPYPIISGGKEPMGYFEKFNRRENS 63

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQP----KDVLPELLQGWLLSIDVTQRIEAIC 141
           +   ++G               + +   + P    K  +      ++L  +     E   
Sbjct: 64  VTISRVGANAGYVSFIVSKFYLNDKCFSVLPIENYKSKIDNKFLFYVLKTNEKSITELQS 123

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
           EG  +   +   +G I +PIPPL  Q  I   +   T     L  E    +   K++   
Sbjct: 124 EG-GVPTINTTKVGGIQIPIPPLEIQQKIVAILDVFTELTAELTAELTAELTARKQQYNY 182

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
               +            +  ++ +G V D    K      T             I     
Sbjct: 183 YRVQLFR------FDEIEVELKSLGWVGDVRMCKRILKEQTTEIG--------VIPFYKI 228

Query: 262 GNIIQKLETRNMGLKPESY-ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
           G   ++          + Y   Y     GE++                          + 
Sbjct: 229 GTFGKEPNAYISKELFDEYRSKYNYPKVGEVLISASGTIGRAVIF----DGHDAYFQDSN 284

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-------PIK 373
           +    +        +L   Y + K   A G G  Q L  +++K+  + +P        +K
Sbjct: 285 IVWIENNESKVLNKYLFYFYQIVKWEIADG-GTIQRLYNDNLKKTKIPIPYPNDPKKSLK 343

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           EQ  I ++++      D + E + + I L K+     R   ++
Sbjct: 344 EQERIVSILDKFDTLTDSISEGLPKEIELRKKQYEYYRDLLLS 386


>gi|229542811|ref|ZP_04431871.1| restriction modification system DNA specificity subunit [Bacillus
           coagulans 36D1]
 gi|229327231|gb|EEN92906.1| restriction modification system DNA specificity subunit [Bacillus
           coagulans 36D1]
          Length = 393

 Score = 99.5 bits (246), Expect = 9e-19,   Method: Composition-based stats.
 Identities = 58/414 (14%), Positives = 133/414 (32%), Gaps = 44/414 (10%)

Query: 18  IGAI--PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKD-GNSRQSD 74
           IG I  P  W +  +    KL   +     +D  +  L  ++   G  + ++     Q  
Sbjct: 14  IGKITFPNDWSIYKLSDILKLV--KRPIKMEDQKFYNLVTIKRRFGGMVKRERLRGNQIQ 71

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFD---GICSTQFLVLQPKDVLPELLQGWLLSI 131
             +      G  +  K         I        I S ++ +L+ K+ L      W + +
Sbjct: 72  VKSQFSVKSGDFVISKRQISHGACAIVPEKLDGSIVSNEYNILRNKENLDLEFFNWYVQL 131

Query: 132 DVTQRIEAICEGATMSH---ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
              QR   +              +      + IP + EQ  I + I      I+      
Sbjct: 132 PFMQRYFYLSSDGVHIEKLLFKLEDWLQRKVCIPEVKEQKKIAKIISTWDKAIELKEKLI 191

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN 248
            +  +  K   Q L+                +G   +      WE   F  +  +   K 
Sbjct: 192 EQKKKQKKGLMQKLL----------------TGEVRLPGFYGEWEKVSFSDIFIKTKVKK 235

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
            ++  +  L      ++ + + +      +  + +++ + G IVF         R ++  
Sbjct: 236 HQIKTNEYLESGKYPVVDQGQKKVTAYSNDEEKVFEVPETGVIVFGD-----HTREIKFI 290

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVL 368
                       + +     D  +  + +    +        +G  +    + +K +   
Sbjct: 291 DFDFIIGADGTQVLMTKDDYDVRFYYYHLLIQKIPN------TGYNRHF--KFLKEMIFN 342

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
            P +KEQ  I+N+++     +D+L       +  L E++   +   +TG++ ++
Sbjct: 343 KPSLKEQKAISNLLSTIDKELDLL----NAELSALNEQKKGLMQLLLTGKVRVK 392



 Score = 77.9 bits (190), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 30/200 (15%), Positives = 73/200 (36%), Gaps = 8/200 (4%)

Query: 228 VPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK-LETRNMGLKPESYETYQIV 286
            P+ W +     ++  + R      +     ++        ++   +       ++   V
Sbjct: 19  FPNDWSIYKLSDILKLVKRPIKMEDQKFYNLVTIKRRFGGMVKRERLRGNQIQVKSQFSV 78

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF 346
             G+ V     + +   ++   ++    +     +      +D  +  W ++   + + F
Sbjct: 79  KSGDFVISKRQISHGACAIVPEKLDGSIVSNEYNILRNKENLDLEFFNWYVQLPFMQRYF 138

Query: 347 YAMGSGLRQS---LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
           Y    G+       K ED  +  V +P +KEQ  I  +I+      D  +E  E+ I   
Sbjct: 139 YLSSDGVHIEKLLFKLEDWLQRKVCIPEVKEQKKIAKIISTW----DKAIELKEKLIEQK 194

Query: 404 KERRSSFIAAAVTGQIDLRG 423
           K+++   +   +TG++ L G
Sbjct: 195 KKQKKGLMQKLLTGEVRLPG 214


>gi|261210084|ref|ZP_05924382.1| restriction endonuclease S subunit [Vibrio sp. RC341]
 gi|260840849|gb|EEX67391.1| restriction endonuclease S subunit [Vibrio sp. RC341]
          Length = 420

 Score = 99.5 bits (246), Expect = 9e-19,   Method: Composition-based stats.
 Identities = 50/412 (12%), Positives = 122/412 (29%), Gaps = 44/412 (10%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVES-GTGKYLPKDGNSRQSDTSTVSIFAK 83
           W    ++    L  G+         ++    +++  +G   P  G +     +     + 
Sbjct: 24  WVSKKLEDICSLQAGK---------FVKAASIKNEKSGNLYPCYGGNGLRGFTKSFTHSG 74

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
              L G+ G        A      +   +V++PK  +  L   + L       +     G
Sbjct: 75  NYSLIGRQGALCGNINFASGTFHATEHAVVVEPKHGIDNLWLYYELC---RLNLNQFATG 131

Query: 144 ATMSHADWKGIGNIPMPIPPL-AEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
                     +  +   +P +  EQ  I   + +    I   + +           K+ L
Sbjct: 132 QAQPGLSVDNLYKVDTCVPVVGKEQQKIGACLSSMDNLIVENVKKLESLKL----HKKGL 187

Query: 203 VSYIVTKGLNPDVKMKDS-GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
           +  +         ++  +  ++W     +          ++   R      +  + ++ Y
Sbjct: 188 MQKLFPDEGKSAPELGFTCNVKWNKKKFEEVYSLKTTNSLS---RDKLNYDDGLVKNIHY 244

Query: 262 GNIIQKLE-----------TRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
           G+I  K               N  +  +  +       G++VF       D        +
Sbjct: 245 GDIHTKFSTLFDITKESVPFINAEIALDKVKEESYCQEGDMVFADASEDIDDVGKSIELI 304

Query: 311 MERG-----IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ-SLKFEDVKR 364
              G      + +     K   +   +  +L +S  L K       G +   +    + +
Sbjct: 305 NLNGEKLLSGLHTILARQKGSYLVKGFGGYLFKSEVLRKQIQKESQGAKVLGISATRISK 364

Query: 365 LPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           + V+ P    EQ  I + +    + +D L++   + I +L   +   +    
Sbjct: 365 IDVVYPIEQSEQQRIVDCL----SSLDKLIDAQTKKIEILNIYKKGLMQQLF 412


>gi|331007889|ref|ZP_08330972.1| Restriction endonuclease S subunit [gamma proteobacterium IMCC1989]
 gi|330418302|gb|EGG92885.1| Restriction endonuclease S subunit [gamma proteobacterium IMCC1989]
          Length = 406

 Score = 99.5 bits (246), Expect = 9e-19,   Method: Composition-based stats.
 Identities = 69/412 (16%), Positives = 132/412 (32%), Gaps = 50/412 (12%)

Query: 25  WKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           W    + + +K  +G T           DI ++  +D+++           +   +    
Sbjct: 6   WTTKSLGKLSKFKSGGTPSKSNPKFWGGDIPWVTAKDMKTPLINNSIDKLTTEALNV--A 63

Query: 79  SIFAKGQILYGKLGPYLRK---AIIADFDGICSTQF-LVLQPKDVLPELLQGWLLSIDVT 134
            +     +L    G  L K     I   +   +     +   K++LP  L  +L S    
Sbjct: 64  KLAPTNTLLILVRGMTLHKDLPLAITKKELAFNQDIKALTTCKEILPMFLMIYLSSQKHK 123

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
                   G      D   + + P+  P + EQ  I + ++     I+   T        
Sbjct: 124 VLKLVDSAGHGTGRLDTDLLKSFPVNYPSIFEQKKIVDTLVFWDNAIEKTETLIAAKENQ 183

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
            K   Q L                          P         + + E  R+   +   
Sbjct: 184 FKWLTQKLF------------------------KPTASWQSYKLSDLFENRRETKNVDLP 219

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
            I       +I   ET       E    Y  + P +I +  + +     +L +      G
Sbjct: 220 LISITREKGVIPHSETNRKDNSNEDKSKYLRIRPNDIGYNTMRMWQGVSALSTID----G 275

Query: 315 IITSAYMAVKPHGI-DSTYLAWLMRSYDLCKVFYAMGSGLR---QSLKFEDVKRLPVLVP 370
           I++ AY   KP  I +  ++A+L ++  +   FY    GL     +LKF     +   +P
Sbjct: 276 IVSPAYTVCKPKKIVNPEFMAFLFKTKPMIHKFYRYSQGLTSDTWNLKFHHFSEVKASIP 335

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSI-VLLKERRSSFIAAAVTGQIDL 421
            I+ Q +I   +N     ID L     + I    + ++   +   +TG+  +
Sbjct: 336 DIETQSEIAKSLNSAKKEIDTL-----RKISEKYRIQKRGLMQKMLTGEWQV 382


>gi|284800798|ref|YP_003412663.1| type I restriction enzyme, S subunit [Listeria monocytogenes
           08-5578]
 gi|284993984|ref|YP_003415752.1| type I restriction enzyme, S subunit [Listeria monocytogenes
           08-5923]
 gi|284056360|gb|ADB67301.1| type I restriction enzyme, S subunit [Listeria monocytogenes
           08-5578]
 gi|284059451|gb|ADB70390.1| type I restriction enzyme, S subunit [Listeria monocytogenes
           08-5923]
          Length = 405

 Score = 99.5 bits (246), Expect = 9e-19,   Method: Composition-based stats.
 Identities = 58/402 (14%), Positives = 129/402 (32%), Gaps = 34/402 (8%)

Query: 25  WKVVPIKRFTKLN----TGRTSESGKDIIYIGLEDVESGTGKYLPKDGNS--RQSDTSTV 78
           W+   +              +     +  YI + D++  +  +   +  S     D    
Sbjct: 20  WEQRKLGEIANSFEYGLNASSKTYDGENKYIRITDIDESSHVFNQDNLTSPNISLDKLNH 79

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFD----GICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
            +  +G IL  + G    K+                      ++     +    L+    
Sbjct: 80  YLLEEGDILLARTGASTGKSYYYSKMDGKVFFAGFLIRAKIKQEYNVSFIFQNTLTERYN 139

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             I+   + +     + +      + IP L EQ  I         ++D  I    R ++ 
Sbjct: 140 NFIQVTSQRSGQPGINAQEYARFALYIPELKEQQKIGVF----FKQLDNAIALHQRKLDA 195

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
           LK  K+  +  +            ++ I  +       + +          R        
Sbjct: 196 LKLMKKGFLQQMFP--------KIEADIPEIRFADFDGKWEQRKLGEIFNERSERSADGE 247

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
            I       +I+  +             Y++V  G+I +  + +        S      G
Sbjct: 248 LISVTINSGVIKASKLEKKDNSSFDKSNYKVVKKGDIAYNSMRMWQGASGYSSYD----G 303

Query: 315 IITSAYMAVKP-HGIDSTYLAWLMRSYDLCKVFYAMGSGLR---QSLKFEDVKRLPVLVP 370
           I++ AY  + P   ID+ ++A++ +  D+ + F     GL     +LKF  +  + + +P
Sbjct: 304 ILSPAYTVIYPRKDIDTIFIAYMFKKIDMIQTFQRNSQGLTSDTWNLKFPSLSTIKIKIP 363

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
              EQ  ITN       +++      +  I +LK+ + +++ 
Sbjct: 364 ANDEQIKITN----LFQKLEYTSILHQNQIEMLKKVKKAYLQ 401



 Score = 65.6 bits (158), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 25/183 (13%), Positives = 60/183 (32%), Gaps = 5/183 (2%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+   +       + R+++   ++I + +        K   KD +    D S   +  KG
Sbjct: 227 WEQRKLGEIFNERSERSADG--ELISVTINSGVIKASKLEKKDNS--SFDKSNYKVVKKG 282

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            I Y  +  +   +  + +DGI S  + V+ P+  +  +   ++       +        
Sbjct: 283 DIAYNSMRMWQGASGYSSYDGILSPAYTVIYPRKDIDTIFIAYMFKKIDMIQTFQRNSQG 342

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
             S        ++      +       +          T I  + +   L K+ K+A + 
Sbjct: 343 LTSDTWNLKFPSLSTIKIKIPANDEQIKITNLFQKLEYTSILHQNQIEML-KKVKKAYLQ 401

Query: 205 YIV 207
            + 
Sbjct: 402 TMF 404



 Score = 64.8 bits (156), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 16/164 (9%), Positives = 47/164 (28%), Gaps = 5/164 (3%)

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
                I  +   + +   +             + +++ G+I+         K    S   
Sbjct: 47  NKYIRITDIDESSHVFNQDNLTSPNISLDKLNHYLLEEGDILLARTGASTGKSYYYSKMD 106

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLV 369
            +         A      + +++     +               +  +  ++  R  + +
Sbjct: 107 GKVFFAGFLIRAKIKQEYNVSFIFQNTLTERYNNFIQVTSQRSGQPGINAQEYARFALYI 166

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           P +KEQ  I         ++D  +   ++ +  LK  +  F+  
Sbjct: 167 PELKEQQKIGVF----FKQLDNAIALHQRKLDALKLMKKGFLQQ 206


>gi|224023956|ref|ZP_03642322.1| hypothetical protein BACCOPRO_00673 [Bacteroides coprophilus DSM
           18228]
 gi|224017178|gb|EEF75190.1| hypothetical protein BACCOPRO_00673 [Bacteroides coprophilus DSM
           18228]
          Length = 403

 Score = 99.5 bits (246), Expect = 9e-19,   Method: Composition-based stats.
 Identities = 61/420 (14%), Positives = 136/420 (32%), Gaps = 39/420 (9%)

Query: 23  KHWKVVPIKRFTKLNTGR----TSESGKDIIYIGLEDV-------ESGTGKYLPKDGNSR 71
             WK V + +   + + +    +  S   I +   +++       E     Y+P +    
Sbjct: 2   SEWKKVKLGKLCDITSSKRCLASERSNNGIPFYCSKEIILLEKGEEIRDSDYIPIELYLS 61

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGIC----STQFLVLQPKDVLPELLQGW 127
             +     +   G +L    G      I    D       +  +      D+  + L  W
Sbjct: 62  IKE--KYGVPITGDLLLTTRGTNGIPYIYKKHDCFYFADGNLSWFKNFKSDLDVKYLYYW 119

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
             S      I++I +G         G+ NI + IP +  Q  I E +      I+     
Sbjct: 120 FKSDTGKHIIDSIAKGTAQKAIPIDGLRNINISIPSIRVQCKISEILSHYDTLIENY--- 176

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK 247
             + I+LL+E  Q L          P  +     ++ V    +  E+  F ++++    K
Sbjct: 177 -QKQIKLLEESAQRLYKEWFVDLRFPGYENTKI-VDGVPEGWEKKEINEFISILSGYAFK 234

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGL-----KPESYETYQIVDPGEIVFRFIDLQNDK 302
           ++  +E     +     +Q        L      P     +  +  G+++          
Sbjct: 235 SSSFVEDGDYKIVTIKNVQDGFFDGKNLSHIREIPNKMPKHCFLTTGDLLLSLTGNIGRV 294

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFED 361
             +    +    ++      ++       +   L RS +L      + +G  +Q++    
Sbjct: 295 CMV----IGNNYLLNQRVAKIESVF--PAFAYCLFRSENLFTSINNLANGAAQQNVSPIK 348

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           +  L ++V       +I +        I   +  +   I  L E R   +   ++G+I++
Sbjct: 349 IGTLKIVV-----NNEIISKFEKVVGNIRNQILVLYSQIEELTEARDRLLPKLMSGEIEI 403



 Score = 48.6 bits (114), Expect = 0.002,   Method: Composition-based stats.
 Identities = 33/212 (15%), Positives = 73/212 (34%), Gaps = 15/212 (7%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES-----GKDIIYIGLEDVESGT 60
            +P Y+++ +  +  +P+ W+   I  F  + +G   +S       D   + +++V+ G 
Sbjct: 199 RFPGYENTKI--VDGVPEGWEKKEINEFISILSGYAFKSSSFVEDGDYKIVTIKNVQDGF 256

Query: 61  GK-YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV 119
                        +          G +L    G   R  ++   + + + +  V + + V
Sbjct: 257 FDGKNLSHIREIPNKMPKHCFLTTGDLLLSLTGNIGRVCMVIGNNYLLNQR--VAKIESV 314

Query: 120 LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
            P        S ++   I  +  GA   +     IG + + +        I  K      
Sbjct: 315 FPAFAYCLFRSENLFTSINNLANGAAQQNVSPIKIGTLKIVVNNE-----IISKFEKVVG 369

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVTKGL 211
            I   I      IE L E +  L+  +++  +
Sbjct: 370 NIRNQILVLYSQIEELTEARDRLLPKLMSGEI 401


>gi|254517360|ref|ZP_05129417.1| restriction modification system DNA specificity domain protein
           [gamma proteobacterium NOR5-3]
 gi|219674198|gb|EED30567.1| restriction modification system DNA specificity domain protein
           [gamma proteobacterium NOR5-3]
          Length = 570

 Score = 99.5 bits (246), Expect = 9e-19,   Method: Composition-based stats.
 Identities = 89/476 (18%), Positives = 159/476 (33%), Gaps = 89/476 (18%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGK-----DIIYIGLEDVESGTGKYLPKDGNSRQSD 74
            +P  W+ + +   T    G + ++       D   + LEDVE GT + L K     +  
Sbjct: 101 ELPLSWQWIALGSCTNY--GYSDKTDGTDLGPDTWVLELEDVEKGTSRLLQKVRFEDRPF 158

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFL-VLQPKDVLPELLQGWLLSIDV 133
            S+ S+F  G ++YGKL PYL K I+AD  G+C+T+ + V     + P  L+ +L S   
Sbjct: 159 QSSKSMFEAGDVIYGKLRPYLDKVIVADEGGVCTTEMIPVRGHFGIDPRYLRLFLKSPHF 218

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKII------------------ 175
            Q   +   G  +           P P+PPLAEQ  I  K+                   
Sbjct: 219 VQYASSSVHGMNLPRLGTPKAREAPFPLPPLAEQKRIVAKVDELMTLADALEAGTRAGMA 278

Query: 176 -------------------AETVRIDTLITERIRFIELLKEKKQALVSYIVTKG----LN 212
                               +  +  + I      +   +E   AL   IV  G    L 
Sbjct: 279 THETLVRELLAILVNSQDAHDLAQNWSRIETHFDTLFTTEESIDALKQNIVDLGVRGMLC 338

Query: 213 PDVKMKDSGIEW---------------------VGLVPDHWEVKPFFA---LVTELNRKN 248
              + +DS  +                      +  +P  W ++P       + +     
Sbjct: 339 AQDRTEDSSNQKKLRADRDAENFDLDAFEKRAALFRLPPGWTIEPLSRVSSNIVDCPHTT 398

Query: 249 TKLIESNILSLSYGNIIQK-LETRNMGLKPESYETYQI----VDPGEIVFRFIDLQNDKR 303
            K  +   + +    I    L+        E     +I       G+I+++         
Sbjct: 399 PKWTDDGEICVKSDQIFAGHLDLSKPNYVSEDTYIERIARLEPREGDILYKREGGIL-GI 457

Query: 304 SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY-AMGSGLRQSLKFEDV 362
             R     +  +     +      +   +L  ++ S  L +        G    +    V
Sbjct: 458 GARIPAETKLCLGQRLMLIRANQAVLPPFLELVINSPWLQEFAKQKTTGGAAPRVNMTVV 517

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLK--ERRSSFIAAAVT 416
           +  PV +P I+EQ  I   ++        L E+  +S+  L   E +   ++ A+T
Sbjct: 518 RAYPVPIPAIREQERILQRVDELF----QLCERASKSLADLAGLEIK---LSDAIT 566


>gi|254303654|ref|ZP_04971012.1| possible type I site-specific deoxyribonuclease specificity subunit
           [Fusobacterium nucleatum subsp. polymorphum ATCC 10953]
 gi|148323846|gb|EDK89096.1| possible type I site-specific deoxyribonuclease specificity subunit
           [Fusobacterium nucleatum subsp. polymorphum ATCC 10953]
          Length = 387

 Score = 99.5 bits (246), Expect = 9e-19,   Method: Composition-based stats.
 Identities = 62/379 (16%), Positives = 126/379 (33%), Gaps = 31/379 (8%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
             WK V +    ++ TG T    +       ++ +I   +++     Y+  +    +   
Sbjct: 7   SEWKKVKLVDVCEIITGNTPLKKEKEYWDKDEVPFITPPELKYEGINYITPNIYVSKIGA 66

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
               I  K  I    +G  L K  I   D I + Q   L  K+   +LL  +     +  
Sbjct: 67  KQGRIIPKNSICVCCIGS-LGKLGILKEDAITNQQINSLILKNKNVDLLYLYFYLKTIKN 125

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            +E+I    T+   +      I + +P L  Q  I +K+      ++  I  R   +  L
Sbjct: 126 NLESIASSTTVKIINKSSFEKIEISLPNLEIQKKISKKL----ELLENNIDFRKNQLNYL 181

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
           KE  ++L + +       D   K   +E             +  ++     KN     S 
Sbjct: 182 KELNKSLFTRMFGDIKTNDKNWKIVKLE------------KYINIIGGYAFKNIDFKSSG 229

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVD--PGEIVFRFIDLQND----KRSLRSAQ 309
           I  +  GNI          +  E  + ++     P +I+                +    
Sbjct: 230 IPLIRIGNINSGQFKSTNLVFIEENKKFEKFKVFPNDILISLTGTVGKDDYGNACILGDS 289

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ-SLKFEDVKRLPVL 368
             E  +            ++  +   +M+  ++ K    +  G+RQ ++  +D+  L + 
Sbjct: 290 YSEYYLNQRNAKIELTDKMNKNFFLEIMKIKEVKKKLTGISRGIRQANISNKDIYNLSLP 349

Query: 369 VPPIKEQFDITNVINVETA 387
           +PPI+ Q      +     
Sbjct: 350 LPPIELQNKFAERVEKIEK 368



 Score = 61.3 bits (147), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 21/144 (14%), Positives = 52/144 (36%), Gaps = 8/144 (5%)

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
              T N+ +     +  +I+    I    I        L+   +  + I +   + +K  
Sbjct: 53  NYITPNIYVSKIGAKQGRIIPKNSICVCCIGSLGKLGILKEDAITNQQINS---LILKNK 109

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
            +D  YL + +++     +     S   + +     +++ + +P ++ Q  I+  + +  
Sbjct: 110 NVDLLYLYFYLKTIK-NNLESIASSTTVKIINKSSFEKIEISLPNLEIQKKISKKLELLE 168

Query: 387 ARIDVLVEKIEQSIVLLKERRSSF 410
             ID      +  +  LKE   S 
Sbjct: 169 NNID----FRKNQLNYLKELNKSL 188


>gi|332142753|ref|YP_004428491.1| type I site-specific deoxyribonuclease [Alteromonas macleodii str.
           'Deep ecotype']
 gi|327552775|gb|AEA99493.1| type I site-specific deoxyribonuclease [Alteromonas macleodii str.
           'Deep ecotype']
          Length = 364

 Score = 99.5 bits (246), Expect = 9e-19,   Method: Composition-based stats.
 Identities = 58/386 (15%), Positives = 122/386 (31%), Gaps = 31/386 (8%)

Query: 43  ESGKDIIYIGLEDVESGT-GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIA 101
           +S  +  YI ++D+ +    KY   D           +      ++    G         
Sbjct: 3   KSVTNNRYIQIDDLRNDNLIKYTDDD---------KGTFVEPSDVIIAWDGANAGTIGYG 53

Query: 102 DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPI 161
               I ST   +      +     G  L     +     C GAT+ H     + ++ +P+
Sbjct: 54  LEGLIGSTLARLKVIIPHIDTNYLGRFLQSKFKEI-RNNCTGATIPHVSKVHLNSLLVPV 112

Query: 162 PPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSG 221
           PPL  Q  I   +                   L     Q++   +        + +K S 
Sbjct: 113 PPLPIQKQIAAVLEKADNLRQQSQQMEQELNSLA----QSVFLDMFGDYRKDAMSLKSS- 167

Query: 222 IEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYE 281
              +G V D          +               ++      +   E +++ +K + +E
Sbjct: 168 ---LGEVADVRSGVTKGQKLEGHKLTTVPY---MRVANVQDGYLDLSEIKDITVKAKDFE 221

Query: 282 TYQIVDPGEIVFR-FIDLQNDKRSLRSAQVMERGIITSAYMAVK-PHGIDSTYLAWLMRS 339
            YQ +  G+++     D     R    +  +   I  +    V+      S + A+ +++
Sbjct: 222 KYQ-LKAGDVLMTEGGDFDKLGRGAIWSGQIANCIHQNHVFRVRLCDRYISEFFAYYLQT 280

Query: 340 YDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
             + + F      +    S+    +K LP+    I +Q     +I+     +  L E   
Sbjct: 281 PFVKQYFLKCAKKTTNLASINITQLKGLPIPDESIGKQQSFLRIID----ELKALKEANF 336

Query: 398 QSIVLLKERRSSFIAAAVTGQIDLRG 423
           +         +S +  A  G++DL+ 
Sbjct: 337 EQQEQANAHFNSLMQRAFKGELDLKD 362



 Score = 64.4 bits (155), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 27/156 (17%), Positives = 54/156 (34%), Gaps = 9/156 (5%)

Query: 255 NILSLSYGNIIQKLETRNMGL-KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
            + S++    IQ  + RN  L K    +    V+P +++  +              ++  
Sbjct: 1   MVKSVTNNRYIQIDDLRNDNLIKYTDDDKGTFVEPSDVIIAWDGANAGTIGYGLEGLIGS 60

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
            +     +      ID+ YL   ++S    ++           +    +  L V VPP+ 
Sbjct: 61  TLARLKVIIPH---IDTNYLGRFLQS-KFKEIRNNCTGATIPHVSKVHLNSLLVPVPPLP 116

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
            Q  I  V+     + D L ++ +Q    L     S
Sbjct: 117 IQKQIAAVLE----KADNLRQQSQQMEQELNSLAQS 148



 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 26/196 (13%), Positives = 56/196 (28%), Gaps = 17/196 (8%)

Query: 30  IKRFTKLNTGRTS------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           +     + +G T            + Y+ + +V+ G          + ++          
Sbjct: 168 LGEVADVRSGVTKGQKLEGHKLTTVPYMRVANVQDGYLDLSEIKDITVKAKDFEKYQLKA 227

Query: 84  GQILYGKLGPY---LRKAIIADFDGIC---STQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
           G +L  + G +    R AI +     C   +  F V      + E    +L +  V Q  
Sbjct: 228 GDVLMTEGGDFDKLGRGAIWSGQIANCIHQNHVFRVRLCDRYISEFFAYYLQTPFVKQYF 287

Query: 138 EAICEGATM-SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
               +  T  +  +   +  +P+P   + +Q      I                  E   
Sbjct: 288 LKCAKKTTNLASINITQLKGLPIPDESIGKQQSFLRIIDELKAL----KEANFEQQEQAN 343

Query: 197 EKKQALVSYIVTKGLN 212
               +L+       L+
Sbjct: 344 AHFNSLMQRAFKGELD 359


>gi|77543209|gb|ABA87021.1| specificity subunit [Vibrio cholerae]
 gi|259156528|gb|ACV96472.1| specificity subunit [Vibrio cholerae Mex1]
          Length = 440

 Score = 99.5 bits (246), Expect = 9e-19,   Method: Composition-based stats.
 Identities = 61/422 (14%), Positives = 132/422 (31%), Gaps = 50/422 (11%)

Query: 26  KVVPIKRFT-KLNTGRTSESGKDII-------YIGLEDVESGTGKYLPKDGNSRQ---SD 74
           +  P+++    L TG        +        Y+ + +++ G   +L K           
Sbjct: 17  EWRPLEKVIHSLKTGLNPRKNFQLNTSDAQGYYVTVREIQDGKIVFLEKTDRVNDRALEL 76

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV----LPELLQGWLLS 130
            +  S    G IL+   G   R A+I       + +  V   K +    LP  L   L S
Sbjct: 77  INGRSNLEVGDILFSGTGTVGRTAVIEAKPANWNIKEGVYTIKPIQEKILPRFLSHLLNS 136

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPP-------LAEQVLIREKIIAETVRIDT 183
            ++ +       G  +       +  + +PIP        LA Q  I   + A T     
Sbjct: 137 SEIVKDYGKKIVGNPVVSLPMGELKKLLVPIPCPDNPEKSLAIQAEIVRILDAFTAMTAE 196

Query: 184 LITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTE 243
           L  E    + + K++       +++          +  +EW         +         
Sbjct: 197 LTAELTAELNMRKKQYNYYRDQLLS--------FDEGDVEW-------KTLGDISDFTYG 241

Query: 244 LNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET-YQIVDPGEIVFRFIDLQNDK 302
              K  +  ++  + ++  N   KL   +      S E    ++   +++         K
Sbjct: 242 YAAKAQESGDARFVRITDINTNGKLSPADHMYVDISEENERYLLKKDDLLMARTGATFGK 301

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM-GSGLRQSLKFED 361
             +               +++ P+ ++  Y     +S         +   G +       
Sbjct: 302 TMIFEEDYPAIYAGFLIKLSLDPNIVNPKYYWHFAQSDLFWDQANKLVSGGGQPQFNANA 361

Query: 362 VKRLPVLVP-------PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSF 410
           +K++ + VP        + EQ  I  +++   A    L E + + I L ++     R   
Sbjct: 362 LKQVKLPVPYPSDTAKSLAEQARIVLILDKFDAIASSLSEGLPREIELRQKQYEYYRDLL 421

Query: 411 IA 412
           ++
Sbjct: 422 LS 423



 Score = 62.9 bits (151), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 42/240 (17%), Positives = 83/240 (34%), Gaps = 25/240 (10%)

Query: 1   MKHYKAYPQYKD---SGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK--DIIYIGLED 55
           M+  K Y  Y+D   S  +  G +    +   +   +    G  +++ +  D  ++ + D
Sbjct: 207 MRK-KQYNYYRDQLLSFDE--GDV----EWKTLGDISDFTYGYAAKAQESGDARFVRITD 259

Query: 56  VESGTGKYLPKDGNSRQSDTST-VSIFAKGQILYGKLGPYLRKAIIADFDG-ICSTQFLV 113
           + +  GK  P D             +  K  +L  + G    K +I + D       FL+
Sbjct: 260 INT-NGKLSPADHMYVDISEENERYLLKKDDLLMARTGATFGKTMIFEEDYPAIYAGFLI 318

Query: 114 L---QPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPP------- 163
                P  V P+    +  S     +   +  G      +   +  + +P+P        
Sbjct: 319 KLSLDPNIVNPKYYWHFAQSDLFWDQANKLVSGGGQPQFNANALKQVKLPVPYPSDTAKS 378

Query: 164 LAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIE 223
           LAEQ  I   +        +L     R IEL +++ +     +++   +P    K    E
Sbjct: 379 LAEQARIVLILDKFDAIASSLSEGLPREIELRQKQYEYYRDLLLSFPASPAGGPKSHSDE 438


>gi|149920795|ref|ZP_01909258.1| Restriction modification system, type I [Plesiocystis pacifica
           SIR-1]
 gi|149818313|gb|EDM77765.1| Restriction modification system, type I [Plesiocystis pacifica
           SIR-1]
          Length = 403

 Score = 99.5 bits (246), Expect = 1e-18,   Method: Composition-based stats.
 Identities = 66/365 (18%), Positives = 124/365 (33%), Gaps = 20/365 (5%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSESGKDII-YIGLEDVESGTGKYLPKDGNSRQSDTST 77
           G +   W+ V      +    +       +  YI  E +++   +       +       
Sbjct: 2   GELKSGWRRVKFGDVVRQVKDKVPAKESGLSRYIAGEHMDTNDLRLRRWGEINDDYLGPA 61

Query: 78  VSI-FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV---LPELLQGWLLSIDV 133
             I F  GQ+LYG    YLRK  +A FDG+C+    V++ K     LPELL   + +   
Sbjct: 62  FHIRFRPGQVLYGSRRTYLRKVAVAGFDGVCANTTFVVESKSPGILLPELLPFIMTTEAF 121

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            +      +G+   + ++  +      +PPL EQ  I   +                 ++
Sbjct: 122 HEHSVRESKGSVNPYVNFSDLAWYEFALPPLEEQGKISRILQRSAEL----QASYADLVQ 177

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
           + K   ++ V   +  G       K+      G    +  ++     + +   +  K  +
Sbjct: 178 VAKTTHRSFVDQTLGYGAQRPCFEKEPPSIRRGWA--YQPIEALCEALVDCLHRTPKYSK 235

Query: 254 SNILSLSYGNIIQKL-ETRNMGLKPESY----ETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
           +   ++   ++             PES      T     PG+++F     +    +L   
Sbjct: 236 AGFPAIRTADVEPGFLRWETARRVPESEYLIQTTRLRPKPGDVLFSREGERMGMAALVPE 295

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAW-LMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLP 366
            V     I+   M ++P       L    + S    +      SG     +   DV+RL 
Sbjct: 296 GVS--LCISQRMMHLRPKPNFPANLLMEYLNSSWAQRQILMHKSGSTSPHINVADVRRLM 353

Query: 367 VLVPP 371
           V VPP
Sbjct: 354 VPVPP 358



 Score = 52.9 bits (125), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 23/166 (13%), Positives = 57/166 (34%), Gaps = 10/166 (6%)

Query: 226 GLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI-IQKLETRNMGLKPESYET-- 282
           G +   W    F  +V ++  K           ++  ++    L  R  G   + Y    
Sbjct: 2   GELKSGWRRVKFGDVVRQVKDKVPAKESGLSRYIAGEHMDTNDLRLRRWGEINDDYLGPA 61

Query: 283 -YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA--VKPHGIDSTYLAWLMRS 339
            +    PG++++        K ++      +     + ++     P  +    L ++M +
Sbjct: 62  FHIRFRPGQVLYGSRRTYLRKVAVAGF---DGVCANTTFVVESKSPGILLPELLPFIMTT 118

Query: 340 YDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
               +       G +   + F D+      +PP++EQ  I+ ++  
Sbjct: 119 EAFHEHSVRESKGSVNPYVNFSDLAWYEFALPPLEEQGKISRILQR 164


>gi|77163975|ref|YP_342500.1| restriction modification system DNA specificity subunit
           [Nitrosococcus oceani ATCC 19707]
 gi|76882289|gb|ABA56970.1| Restriction modification system DNA specificity domain
           [Nitrosococcus oceani ATCC 19707]
          Length = 434

 Score = 99.5 bits (246), Expect = 1e-18,   Method: Composition-based stats.
 Identities = 56/429 (13%), Positives = 134/429 (31%), Gaps = 38/429 (8%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLP 65
            +P+++D+G          W+ V +    +L +G             +    +G   Y  
Sbjct: 17  RFPEFRDAG---------EWEKVALSTQVELLSGLHLSPDGYTDTGDIPYF-TGPSDYTN 66

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ 125
                 +  T + ++   G  L    G  + + +  + D +      ++  +        
Sbjct: 67  DLALVSKWTTRSANVGRAGDTLITVKGSGVGELLNLELDEVA-MGRQLMAVRARTAHGEF 125

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
            +   I    R+ A+  G  +       I ++ +P+P   EQ  I + + +        I
Sbjct: 126 IFHFLITQRLRLIALASGNLIPGLSRGDILSLKVPVPSHEEQQKIADCLSSLDAL----I 181

Query: 186 TERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVG-LVPDHWEVKPFFALVTEL 244
             +   ++ LK  K+ L+  +  +      +++       G            F      
Sbjct: 182 AAQTEKLDALKTHKKGLMQQLFPRAGETVPRLRFPKFRDGGRWTSKKMSDVYRFLSTNTY 241

Query: 245 NRKNTKLIESNILSLSYGNIIQKLE-----------TRNMGLKPESYETYQIVDPGEIVF 293
           +R      +  + ++ YG+I  K               N     E  +       G+IVF
Sbjct: 242 SRDKLNYEKGEVKNIHYGDIHTKFSTLFDVTQEYVPYINRTESLERIKDDSYCLEGDIVF 301

Query: 294 RFIDLQNDKRS--LRSAQVMERGIITSAYMAVKPHGIDSTYLA---WLMRSYDLCKVFYA 348
                  +     +         I++  +  +     +   +    +L +S  + +    
Sbjct: 302 ADASEDVEDVGKSIEIVNTGNEKILSGLHTLLARQKNNDLVIGFGGYLFKSGLIREQIKR 361

Query: 349 MGSGLRQ-SLKFEDVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
              G +   +    + ++ V  P   +EQ  I + +    + +D L+    + I  LK  
Sbjct: 362 ESQGAKVLGISSGRLSKIKVCFPYEKREQQKIAHCL----SSLDALIAAQAEKIDALKTH 417

Query: 407 RSSFIAAAV 415
           +   +    
Sbjct: 418 KKGLMQQLF 426


>gi|320449896|ref|YP_004201992.1| restriction modification system DNA specificity domain-containing
           protein [Thermus scotoductus SA-01]
 gi|320150065|gb|ADW21443.1| restriction modification system DNA specificity domain protein
           [Thermus scotoductus SA-01]
          Length = 352

 Score = 99.5 bits (246), Expect = 1e-18,   Method: Composition-based stats.
 Identities = 58/345 (16%), Positives = 117/345 (33%), Gaps = 33/345 (9%)

Query: 105 GICSTQFLVLQPKDVLPELLQ--GWLLSIDVTQRIEAICEG--ATMSHADWKGIGNIPMP 160
           G+ S  + V + K            L   +          G              +IP+P
Sbjct: 7   GLVSPVYPVWEVKPDKAYAWFIDPLLRMPNTISAYNRFASGAVNRRRAIRKNDFLSIPIP 66

Query: 161 IPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDS 220
           +PPL EQ  I   +      +        R I  L++ K++L+ ++ T G     +    
Sbjct: 67  LPPLLEQRAIAHVL----RTVQEAKQATERVIAALRDLKKSLMRHLFTYGPVSIGEQHTV 122

Query: 221 GIEW--VGLVPDHWEVKPFF--------ALVTELNRKNTKLIESNILSLSYGNIIQKLET 270
            ++   +G +P HW V             +     +       S +  L   NI    + 
Sbjct: 123 PLQETEIGPIPAHWRVVRLGELVAKGILWMKNGFPQGKHNRTASGVPHLRPFNITDTGDI 182

Query: 271 RNMGLK---PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK--- 324
               +K   P   ++   V PG+++F   + +               +I++    ++   
Sbjct: 183 TLSQVKYVPPPPEDSPYRVFPGDVIFNNTNSEELVGKTAYFDRNGTFVISNHMTLIRVLS 242

Query: 325 ---PHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
                   S YL WL        +     +  + S+  E +K++ + +PP+ EQ  I +V
Sbjct: 243 GEVNPYWLSKYLHWLWSKGVFRNLCRRHVN--QASVSLERLKQVTLPLPPLPEQRAIAHV 300

Query: 382 INVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
           +       D  +   E     L +   S +   +TG+  ++  ++
Sbjct: 301 LRTV----DRRIAAEEAYARALGDLFKSLLQELMTGRRRVKVAAE 341



 Score = 63.3 bits (152), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 35/204 (17%), Positives = 71/204 (34%), Gaps = 18/204 (8%)

Query: 18  IGAIPKHWKVVPIKRFTK---------LNTGRTSESGKDIIYIGLEDV-ESGTGKYLPKD 67
           IG IP HW+VV +                 G+ + +   + ++   ++ ++G        
Sbjct: 129 IGPIPAHWRVVRLGELVAKGILWMKNGFPQGKHNRTASGVPHLRPFNITDTGDITLSQVK 188

Query: 68  GNSRQSDTSTVSIFAKGQILYGKLGP--YLRKAIIADFDG--ICSTQF--LVLQPKDVLP 121
                 + S   +F  G +++        + K    D +G  + S     + +   +V P
Sbjct: 189 YVPPPPEDSPYRVF-PGDVIFNNTNSEELVGKTAYFDRNGTFVISNHMTLIRVLSGEVNP 247

Query: 122 ELLQGWLLSIDVTQRIEAICEGA-TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
             L  +L  +        +C      +    + +  + +P+PPL EQ  I   +     R
Sbjct: 248 YWLSKYLHWLWSKGVFRNLCRRHVNQASVSLERLKQVTLPLPPLPEQRAIAHVLRTVDRR 307

Query: 181 IDTLITERIRFIELLKEKKQALVS 204
           I           +L K   Q L++
Sbjct: 308 IAAEEAYARALGDLFKSLLQELMT 331


>gi|312870900|ref|ZP_07731005.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus iners LEAF 3008A-a]
 gi|311093590|gb|EFQ51929.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus iners LEAF 3008A-a]
          Length = 378

 Score = 99.5 bits (246), Expect = 1e-18,   Method: Composition-based stats.
 Identities = 71/397 (17%), Positives = 132/397 (33%), Gaps = 31/397 (7%)

Query: 29  PIKRFTKLNTGR-TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
            +    +    +    +  +  YI  E++    G          Q  T     F K  +L
Sbjct: 4   KLSDICEYAKEKIKISALDENTYISTENMLPNKGGITQATSLPVQEHTQA---FMKNDVL 60

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID-VTQRIEAICEGATM 146
              + PY +K   A FDG CS   LV + K  +      ++L+ D       A  +G  M
Sbjct: 61  VSNIRPYFKKIWFATFDGGCSNDVLVFRAKKGINSRFLHYVLANDSFFNYSMATSKGTKM 120

Query: 147 SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYI 206
              D K I    +P      QV I + +      ID  I    +  + L+E+ Q++ +  
Sbjct: 121 PRGDKKAIMAYEVPKLSYKYQVKIADILEI----IDNKIELNKKINKNLEEQAQSIFANE 176

Query: 207 VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ 266
                      K + +  +    +   ++ +               ES I  L    + Q
Sbjct: 177 FLSLDTLPEGWKQASLIDIADYLNGLAMQKY----------RPTADESGIPVLKIKELRQ 226

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
                N  L   S ++  I+  G+++F +         L          +      V  +
Sbjct: 227 GCCDDNSELCSPSIKSDYIIHDGDVIFSWSGSL-----LVDFWCGGTCGLNQHLFKVTSN 281

Query: 327 GIDSTYLAWLMRSYDLCKV--FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
             D  +  +   +Y L K     A  +     +K E++ +  VL+P   +   I      
Sbjct: 282 IYD-KWFYYSWTNYYLQKFAAIAADMATTMGHIKREELAKSRVLIPSNSDYERIG----G 336

Query: 385 ETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
             A +  LV         L   R + +   ++G++D+
Sbjct: 337 LLAPLYNLVISNRIENSKLATIRDTLLPKLMSGEVDV 373



 Score = 48.3 bits (113), Expect = 0.003,   Method: Composition-based stats.
 Identities = 23/194 (11%), Positives = 51/194 (26%), Gaps = 10/194 (5%)

Query: 21  IPKHWKVVPIKRFTKLNTG-----RTSESGK-DIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           +P+ WK   +        G         + +  I  + ++++  G       +       
Sbjct: 183 LPEGWKQASLIDIADYLNGLAMQKYRPTADESGIPVLKIKELRQGCCD---DNSELCSPS 239

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
             +  I   G +++   G  L         G  +     +            W       
Sbjct: 240 IKSDYIIHDGDVIFSWSGSLLVDFWCGGTCG-LNQHLFKVTSNIYDKWFYYSWTNYYLQK 298

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
               A     TM H   + +    + IP  ++   I   +      + +   E  +   +
Sbjct: 299 FAAIAADMATTMGHIKREELAKSRVLIPSNSDYERIGGLLAPLYNLVISNRIENSKLATI 358

Query: 195 LKEKKQALVSYIVT 208
                  L+S  V 
Sbjct: 359 RDTLLPKLMSGEVD 372


>gi|192289910|ref|YP_001990515.1| restriction modification system DNA specificity domain
           [Rhodopseudomonas palustris TIE-1]
 gi|192283659|gb|ACF00040.1| restriction modification system DNA specificity domain
           [Rhodopseudomonas palustris TIE-1]
          Length = 393

 Score = 99.5 bits (246), Expect = 1e-18,   Method: Composition-based stats.
 Identities = 50/411 (12%), Positives = 110/411 (26%), Gaps = 34/411 (8%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           IPK    VP+  F ++  G T           +I ++  +D+++           +    
Sbjct: 3   IPK----VPLGEFVEIKGGGTPSKSNAAFWGGNIPWVSPKDMKTWEICDSEDKITAEAVR 58

Query: 75  TSTVSIFAKG-QILYGKLGPYLR--KAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
            S  ++      ++  + G         I       +     +              +  
Sbjct: 59  ESATNLIPPNATLIVNRSGILKHTLPVGITRRPVAINQDIKAILVSPR-AHPEYVAHIIK 117

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
                +       T  +     +  + +P+PPL EQ  I   +                 
Sbjct: 118 AAEPIVLKWVRATTADNFPIDNLRELEIPLPPLDEQRRIAAILDKADALRRKRKRTIELI 177

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
             L++   + +     +           +     G          F      +       
Sbjct: 178 ECLMQATYRRMFVEQASNSWPKCTVASLARDIRTGPFGSQLLHSEFVDEGIAVLG----- 232

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
                +     N  +  E R++  +         V PG+++   +        +     +
Sbjct: 233 -----IDNVATNEFRWGERRHIPEEKYEKLRRYTVFPGDVLITIMGTCGRCAIVPENIPL 287

Query: 312 ERGIITSAYMAVKPHGIDSTYL-AWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLV 369
                    + +        +L +  ++  D+         G     L    +K L + +
Sbjct: 288 AINTKHLCCITLDEEKCLPEFLQSTFLQHPDVLLQLGVQAKGAVMPGLNMGIIKSLQISL 347

Query: 370 PPIKEQFDITNVINVETARIDVLVEKI--EQSIVLLKERRSSFIAAAVTGQ 418
           PP++ Q D    I+   +    L+     E    LL    SS    A +GQ
Sbjct: 348 PPVQLQRDFVMRISKLRS---TLISSRHWEAEGELL---FSSLQHRAFSGQ 392


>gi|83776730|gb|ABC46688.1| Sau1hsdS1 [Staphylococcus aureus]
          Length = 419

 Score = 99.5 bits (246), Expect = 1e-18,   Method: Composition-based stats.
 Identities = 54/407 (13%), Positives = 114/407 (28%), Gaps = 31/407 (7%)

Query: 24  HWKVVPIKRFTKLNTGRTSES---GKDIIYIGLEDVESG---TGKYLPKDGNSRQSDTST 77
            W+   +    +   G        G     +  +DV +        L    N    +   
Sbjct: 20  EWEEKKVGELLEFKNGLNKGKEYFGSGSSIVNFKDVFNNRSINTNNLTGKVNVNSKELKN 79

Query: 78  VSIFAKGQILYGKLGPYLRKAIIA------DFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
            S   KG + + +    + +            + + S   L  +PK  +  +   +   +
Sbjct: 80  YS-VEKGDVFFTRTSEVIGEIGYPSVILNDPENTVFSGFVLRGRPKSGIDLINNNFKRYV 138

Query: 132 DVTQRIEAIC---EGATMSHADWKGIGNIPMPIPPL--AEQVLIREKIIAETVRIDTLIT 186
             T             T          N    I P+   EQ  I +       +I+    
Sbjct: 139 FFTNSFRKEMITKSSMTTRALTSGXAINKMKVIYPVSAKEQKKIGDFFSKLDRQIELEEQ 198

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
           +     +  K   Q + S  +           +     +  + ++             + 
Sbjct: 199 KLELLQQQKKGYMQKIFSQELRFKDENGNDYPNWRTIELKNILENIVDNRGKTPDNAPSE 258

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
           K   L  + +       I                   + +   +I+F  +        + 
Sbjct: 259 KYPLLEVNALGYYRPAYIKVSKFVSENTYNN---WFREHLKENDILFSTVGNT----GIV 311

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL--CKVFYAMGSGLRQSLKFEDVKR 364
           S     + +I    + ++ +  +     + M SY     K+       ++ S+K    K 
Sbjct: 312 SLMDNYKAVIAQNIVGLRVNNNNLPSFIYYMLSYKGNQKKIKRIQMGAVQPSVKVSQFKF 371

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
           +  LVP   EQ  +          ID LV K    I LL++R+ + +
Sbjct: 372 IKYLVPIKDEQEKVA----KLLIEIDKLVNKQLIKIELLQQRKKALL 414



 Score = 48.3 bits (113), Expect = 0.002,   Method: Composition-based stats.
 Identities = 22/188 (11%), Positives = 67/188 (35%), Gaps = 8/188 (4%)

Query: 24  HWKVVPIKRFTKL---NTGRTSES--GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           +W+ + +K   +    N G+T ++   +    + +  +      Y+       ++  +  
Sbjct: 231 NWRTIELKNILENIVDNRGKTPDNAPSEKYPLLEVNALGYYRPAYIKVSKFVSENTYNNW 290

Query: 79  SI--FAKGQILYGKLGPYLRKAIIADFDGICSTQFL-VLQPKDVLPELLQGWLLSIDVTQ 135
                 +  IL+  +G     +++ ++  + +   + +    + LP  +   L      +
Sbjct: 291 FREHLKENDILFSTVGNTGIVSLMDNYKAVIAQNIVGLRVNNNNLPSFIYYMLSYKGNQK 350

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
           +I+ I  GA            I   +P   EQ  + + +I     ++  + +     +  
Sbjct: 351 KIKRIQMGAVQPSVKVSQFKFIKYLVPIKDEQEKVAKLLIEIDKLVNKQLIKIELLQQRK 410

Query: 196 KEKKQALV 203
           K   +++ 
Sbjct: 411 KALLKSMF 418


>gi|229819003|ref|YP_002880529.1| restriction modification system DNA specificity domain protein
           [Beutenbergia cavernae DSM 12333]
 gi|229564916|gb|ACQ78767.1| restriction modification system DNA specificity domain protein
           [Beutenbergia cavernae DSM 12333]
          Length = 408

 Score = 99.5 bits (246), Expect = 1e-18,   Method: Composition-based stats.
 Identities = 54/410 (13%), Positives = 118/410 (28%), Gaps = 39/410 (9%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           P   + + +        G T             + +  +ED+            +   + 
Sbjct: 13  PDGVEYIELAELFSTRNGYTPPKSDASAWADGTVPWFRMEDIREKGRVLDDSIQHIATTA 72

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDG----ICSTQFLVLQPKDVLPELLQGWLLS 130
                +F    I+          A+I+          S             + +  +   
Sbjct: 73  VKGGRLFPANSIIVATSATIGEHALISVPHLSNQRFTSLALKPKYQDRFEIKFIFYYCFV 132

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
           +D  +  +     ++ +  D  G+     P PPL  Q  I   + A T     L  E   
Sbjct: 133 LD--EWCKNNTTVSSFASVDMVGLKKFKFPAPPLEVQRDIVRILDAFTELEAELEAELEA 190

Query: 191 FIELLKEKKQALVS----YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
             +     + AL+S      V+     ++    SG    G       V     +      
Sbjct: 191 RKQQYAHYRDALLSFGGSEAVSWATLSELCTIQSG----GTPKSDNAVYYGGDIPW---- 242

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
                    I  ++  +   +   R +  +  +  + ++ D G ++        +     
Sbjct: 243 -------CAISDITSASKYIRRTQRTITPEGLANSSAKVFDAGTLLLSIYASLGEVTITS 295

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLP 366
                 + I+    +     GI   YL + M S    ++      G + +L    V    
Sbjct: 296 IPMATNQAIL--GLVPRDGSGILVDYLYYTMLSSK-DRLLAQRQVGSQNNLNKAIVADFR 352

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           V VP + +Q  I  +++   A ++ L   +   I   ++     R   ++
Sbjct: 353 VPVPAMPDQERIVALLDKFDALVNDLSSGLPAEIEARRQQYAHYRDRLLS 402



 Score = 53.6 bits (127), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 21/187 (11%), Positives = 59/187 (31%), Gaps = 12/187 (6%)

Query: 239 ALVTELNRKNTKLIESNILSLSYGNIIQKL---ETRNMGLKPESYETYQIVDPGEIVFRF 295
              T      +   +  +      +I +K    +     +   + +  ++     I+   
Sbjct: 29  NGYTPPKSDASAWADGTVPWFRMEDIREKGRVLDDSIQHIATTAVKGGRLFPANSIIVAT 88

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-- 353
                +   +    +  +   + A    KP   D   + ++     +   +    + +  
Sbjct: 89  SATIGEHALISVPHLSNQRFTSLAL---KPKYQDRFEIKFIFYYCFVLDEWCKNNTTVSS 145

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI-- 411
             S+    +K+     PP++ Q DI  +++  T     L  ++E         R + +  
Sbjct: 146 FASVDMVGLKKFKFPAPPLEVQRDIVRILDAFTELEAELEAELEARKQQYAHYRDALLSF 205

Query: 412 --AAAVT 416
             + AV+
Sbjct: 206 GGSEAVS 212


>gi|86742691|ref|YP_483091.1| restriction modification system DNA specificity subunit [Frankia
           sp. CcI3]
 gi|86569553|gb|ABD13362.1| restriction modification system DNA specificity domain [Frankia sp.
           CcI3]
          Length = 436

 Score = 99.5 bits (246), Expect = 1e-18,   Method: Composition-based stats.
 Identities = 59/435 (13%), Positives = 138/435 (31%), Gaps = 47/435 (10%)

Query: 15  VQWIGAIPKHWKVVPIKRFTKLNTGRT-----SESGKDIIYIGLEDVESGTGKYLPKDGN 69
           ++  G I    ++  +    ++ +G T     +   KD  Y+ + +V+ G          
Sbjct: 10  IESFGEIFPG-RISTVGTEFEIQSGITLSPRRTSGRKDAPYLRVANVQRGRLTLSDVAWL 68

Query: 70  SRQSDTSTVSIFAKGQILY----GKLGPYLRKAIIADFDGIC--STQFLVLQPKDVLPEL 123
              +          G +L            R A +      C        L+P+++    
Sbjct: 69  EASARERIRYALDDGDLLVVEGHANPAEIGRCAQVGPESKNCLYQNHLFRLRPRNLEARF 128

Query: 124 LQGWLLSIDVTQRIEAIC-EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
              WL S          C   + +   + + +G +P+P+PP  +Q  I E + A    I 
Sbjct: 129 ALHWLNSSFSQSYWGRNCATSSGLYTINSRQLGALPIPVPPPDKQRKISEILDAADEAIR 188

Query: 183 TLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVT 242
           +      +  ++    +  L+   V +                G +PD W +     L  
Sbjct: 189 STERLVGKLEQVFDSLRGDLLQEHVIRS---------------GRLPDCWRMDRLDRLSE 233

Query: 243 ELNR---------KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVF 293
                          +  +    ++      I   + + + ++   ++ Y ++  G+++ 
Sbjct: 234 ITGGVTLGGVTSAGRSVELPYLRVANVQDGYIDTTDIKTVTVRTSEFDRY-LLQAGDVLM 292

Query: 294 R-FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI--DSTYLAWLMRSYDLCKVFY--A 348
               D     R       ++  +  +    V+   I     YL+    S      F   +
Sbjct: 293 TEGGDFDKLGRGAVWDGSIDPCLHQNHIFRVRCDKIRLLPEYLSTYSASTAGRSYFMGIS 352

Query: 349 MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
             +    S+    +  LPV +PP+  Q  I   +       +  +   +  +  L+  + 
Sbjct: 353 KQTTNLASINKSQLSALPVPLPPLATQKMIIGSLGAA----ERQISSTKAELAKLRLVKQ 408

Query: 409 SFIAAAVTGQIDLRG 423
             +   + G++ + G
Sbjct: 409 GLMDDLLMGRVQVSG 423


>gi|317180553|dbj|BAJ58339.1| Type I restriction-modification system specificity subunit
           [Helicobacter pylori F32]
          Length = 411

 Score = 99.1 bits (245), Expect = 1e-18,   Method: Composition-based stats.
 Identities = 57/393 (14%), Positives = 121/393 (30%), Gaps = 25/393 (6%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSE--SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           PK  +   +    ++   R       K    I      +G   Y+               
Sbjct: 13  PKGVEFRKLGEVCEILDNRRIPIAKNKRNPGIYPYYGANGIQDYIDSYIFDGDFV----- 67

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           +  +   +  K          A      +    VLQ K+ L      +     +     +
Sbjct: 68  LVGEDGSVINKDNT--PIVNWASGKIWVNNHAHVLQTKNELKLKFLYF----YLQTIDVS 121

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
            C   T    + + +  I +PIPPL  Q  I   + A T     L TE     +  +  +
Sbjct: 122 YCVAGTPPKINQENLKKITIPIPPLEIQQEIVNILDAFTELNTELNTELKARKKQYQYYQ 181

Query: 200 QALV------SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
             L+             ++     K        L P   E +    +    N+K  K+ E
Sbjct: 182 NMLLDFKDTNQNHQDAKMSAKPYPKRLKTLLQTLAPKGVEFRKLGEVCESTNKKTLKISE 241

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
            + +       +        G   +        + GE +      +         +    
Sbjct: 242 VSEVKNKRMYPVINSGRDLYGYYHDFN------NDGENITIASRGEYAGFINYFNEKFFA 295

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
           G +   Y     + + + +L + +++ ++  +   +  G   +L   D++ L + +PP++
Sbjct: 296 GGLCYPYKVKDTNELLTKFLYFYLKTNEIQIMENLVSRGSIPALNKADIETLTIPIPPLE 355

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
            Q +I  +++   A    L+  I   I   K++
Sbjct: 356 IQQEIVKILDQFLALTTDLLAGIPAEIEARKKQ 388



 Score = 62.5 bits (150), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 20/132 (15%), Positives = 53/132 (40%), Gaps = 13/132 (9%)

Query: 279 SYETYQIVDPGEIVFRFIDLQNDK--RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWL 336
            Y    I D   ++        +K    + +    +  +   A++    + +   +L + 
Sbjct: 55  DYIDSYIFDGDFVLVGEDGSVINKDNTPIVNWASGKIWVNNHAHVLQTKNELKLKFLYFY 114

Query: 337 MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
           +++ D+        +G    +  E++K++ + +PP++ Q +I N+++  T       E  
Sbjct: 115 LQTIDV----SYCVAGTPPKINQENLKKITIPIPPLEIQQEIVNILDAFT-------ELN 163

Query: 397 EQSIVLLKERRS 408
            +    LK R+ 
Sbjct: 164 TELNTELKARKK 175


>gi|291458787|ref|ZP_06598177.1| type I restriction-modification system specificity subunit
           [Oribacterium sp. oral taxon 078 str. F0262]
 gi|291418704|gb|EFE92423.1| type I restriction-modification system specificity subunit
           [Oribacterium sp. oral taxon 078 str. F0262]
          Length = 385

 Score = 99.1 bits (245), Expect = 1e-18,   Method: Composition-based stats.
 Identities = 55/390 (14%), Positives = 124/390 (31%), Gaps = 19/390 (4%)

Query: 32  RFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI-FAKGQILYGK 90
              ++      +      YI    V+         +    ++  S  ++   KG I++ K
Sbjct: 8   ECVEIVGSACKQYDGVKNYISTGAVDVDYIVSDEIERFEFENRPSRANLEVNKGDIIFAK 67

Query: 91  LGPYLRKAIIAD--FDGICSTQFLVLQPKDVL--PELLQGWLLSIDVTQRIEAICEGATM 146
           +    +  +I D     I ST F  ++PKD +     L   + S     + +  C GAT 
Sbjct: 68  MQGTKKTLLIDDALSQNIYSTGFCAVRPKDDVLTDRCLYHLVTSEMFLSQKDKNCSGATQ 127

Query: 147 SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYI 206
                 G+  I + +P    Q  I +++    V I     + I+  EL       + +  
Sbjct: 128 KAITNAGLEKIFIRVPDYHLQERIADELDKLAVIISKRKNQLIKLDEL-------INARF 180

Query: 207 VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ 266
           V    +P    K    + +        +            +NT  +      +    I+ 
Sbjct: 181 VEMFGDPVNNEKKWSTKALEDA--CRSIVDCPHSTPNYTSENTGFMCIRTSIVKKNRIMW 238

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
                    + +     +  + G++V+          ++            S  ++    
Sbjct: 239 DDIEFIPEEEYKQRTQRKKPEKGDVVYTREGAILGIAAIIDRDCNVALGQRSMLVSPDDK 298

Query: 327 GIDSTYLAWLMRSYDL-CKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
              S +L+  M            M       +   D+K   +++PP+K+Q + +  +   
Sbjct: 299 ICTSEFLSVAMNFDSFLNNALKGMSGSASPHINVGDIKTFKMIMPPVKQQEEFSTFV--- 355

Query: 386 TARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
             +I+     + Q++   +   +S +    
Sbjct: 356 -KQIEKSKNIVGQALEETQVLFNSLMQEYF 384


>gi|168490326|ref|ZP_02714525.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae SP195]
 gi|183571333|gb|EDT91861.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae SP195]
 gi|332073221|gb|EGI83700.1| type I restriction modification DNA specificity domain protein
           [Streptococcus pneumoniae GA17570]
          Length = 347

 Score = 99.1 bits (245), Expect = 1e-18,   Method: Composition-based stats.
 Identities = 54/362 (14%), Positives = 95/362 (26%), Gaps = 37/362 (10%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V +        G   +  +D    G E +          + N          I   G 
Sbjct: 2   KKVKLGEVATFINGYAFKP-QDWSSEGREIIRIQNLTKTSTEINYYSGTIDKKYIVEAGD 60

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           IL    G  L          + +     +    +  +      +     Q       G+T
Sbjct: 61  ILISWSGT-LGVFQWCGRSAVLNQHIFKVVFDKIDIDKSYFKYVVEKGLQDAVKHTHGST 119

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
           M H   K   NI +P   L EQ  I  ++   +  I     +      L+          
Sbjct: 120 MKHLTKKYFDNIIVPYTNLGEQQRIASELDLLSKLILRRQEQLEELNLLV---------- 169

Query: 206 IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII 265
                       K    E  G V  + +          L  +N K  +    +     I 
Sbjct: 170 ------------KSRFNEMFGDVILNEKEWKVSKWNEILTIRNGKNQKQVEDADGKFPIY 217

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
                         Y    IV    ++       N    +R              +    
Sbjct: 218 GSGGI-------MGYAKDWIVKKNSVIIGRKGNINKPILVRENFWNVDTAFG---LEPVL 267

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
             I+S YL +  + Y+  K+  A+      SL   D+  + + +PP+  Q +  + +   
Sbjct: 268 EKINSEYLFYFCQLYNFEKLNKAV---TIPSLTKSDLLNISIPLPPLALQNEFADFVVQV 324

Query: 386 TA 387
             
Sbjct: 325 DK 326



 Score = 54.8 bits (130), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/142 (11%), Positives = 41/142 (28%), Gaps = 10/142 (7%)

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
            +  +     + +   IV+ G+I+  +                   ++      V    I
Sbjct: 39  TSTEINYYSGTIDKKYIVEAGDILISWSGTLG-----VFQWCGRSAVLNQHIFKVVFDKI 93

Query: 329 DSTYLAW-LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           D     +  +    L            + L  +    + V    + EQ  I + ++    
Sbjct: 94  DIDKSYFKYVVEKGLQDAVKHTHGSTMKHLTKKYFDNIIVPYTNLGEQQRIASELD---- 149

Query: 388 RIDVLVEKIEQSIVLLKERRSS 409
            +  L+ + ++ +  L     S
Sbjct: 150 LLSKLILRRQEQLEELNLLVKS 171



 Score = 49.8 bits (117), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 27/151 (17%), Positives = 52/151 (34%), Gaps = 15/151 (9%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           K WKV        +  G+  +            VE   GK+ P  G+      +   I  
Sbjct: 185 KEWKVSKWNEILTIRNGKNQKQ-----------VEDADGKF-PIYGSGGIMGYAKDWIVK 232

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           K  ++ G+ G   +  ++ +      T F +    + +      +   +      E + +
Sbjct: 233 KNSVIIGRKGNINKPILVRENFWNVDTAFGLEPVLEKINSEYLFYFCQLY---NFEKLNK 289

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
             T+       + NI +P+PPLA Q    + 
Sbjct: 290 AVTIPSLTKSDLLNISIPLPPLALQNEFADF 320


>gi|227517374|ref|ZP_03947423.1| type I site-specific deoxyribonuclease specificity subunit
           [Enterococcus faecalis TX0104]
 gi|227075173|gb|EEI13136.1| type I site-specific deoxyribonuclease specificity subunit
           [Enterococcus faecalis TX0104]
          Length = 366

 Score = 99.1 bits (245), Expect = 1e-18,   Method: Composition-based stats.
 Identities = 69/389 (17%), Positives = 132/389 (33%), Gaps = 33/389 (8%)

Query: 30  IKRFTKLNTGRTSESGKDIIYIGLEDV-ESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
           +K    + +GR      D  ++G  ++   GTG Y+     +   D           I  
Sbjct: 1   LKEIVDVRSGR------DYKHLGSGNIPVYGTGGYMLSVSEALSYDEDA--------IGI 46

Query: 89  GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSH 148
           G+ G      I+        T F  +   +     +             ++  E   +  
Sbjct: 47  GRKGTINNPYILKAPFWTVDTLFYAIPKNNFDLNFIYSIFR----KINWKSKDESTGVPS 102

Query: 149 ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVT 208
                I  + + IP  +EQ  I E       +ID  IT   R ++ LKE K+A +  +  
Sbjct: 103 LSKTTINAVTVYIPSGSEQQRIGEF----FKQIDNTITLHQRKLDQLKELKKAYLQLMFA 158

Query: 209 KGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKL 268
                + K+            +  ++      V E N K+ K  E+   S  YG I Q+ 
Sbjct: 159 STNTKNDKLPKLRFTGFKGYWELCKLSDISDKVKEKN-KHGKFTETLTNSAEYGIINQRF 217

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFR-FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
                     + ++Y +V   + V+   I        ++  ++   G+++  Y   + H 
Sbjct: 218 FFDKDISNANNLDSYYVVQNDDFVYNPRISNFAPVGPIKRNKLGRTGVMSPLYYVFRTHS 277

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGL----RQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
           ID+ YL     +          G       R ++K      +P+  P  +EQ  I     
Sbjct: 278 IDNNYLEKYFDTVYWHHFMELNGDTGARADRFAIKDSIFVEMPIPYPSTEEQKKIGIF-- 335

Query: 384 VETARIDVLVEKIEQSIVLLKERRSSFIA 412
               ++D  +   +  +  LK  + S++ 
Sbjct: 336 --FKKLDQSITLYKNKLNQLKTLKKSYLQ 362



 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 18/188 (9%), Positives = 55/188 (29%), Gaps = 6/188 (3%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W++  +   +     +              +      ++      S  ++  +  +    
Sbjct: 179 WELCKLSDISDKVKEKNKHGKFTETLTNSAEYGIINQRFFFDKDISNANNLDSYYVVQND 238

Query: 85  QILYGKLGPYLRKAIIADFD-----GICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
             +Y               +     G+ S  + V +   +    L+ +  ++     +E 
Sbjct: 239 DFVYNPRISNFAPVGPIKRNKLGRTGVMSPLYYVFRTHSIDNNYLEKYFDTVYWHHFMEL 298

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
             +    +        +I + +P        ++KI     ++D  IT     +  LK  K
Sbjct: 299 NGDTGARADRFAIK-DSIFVEMPIPYPSTEEQKKIGIFFKKLDQSITLYKNKLNQLKTLK 357

Query: 200 QALVSYIV 207
           ++ +  + 
Sbjct: 358 KSYLQNMF 365


>gi|307259762|ref|ZP_07541482.1| Type I restriction enzyme EcoAI specificity protein [Actinobacillus
           pleuropneumoniae serovar 11 str. 56153]
 gi|306866152|gb|EFM98020.1| Type I restriction enzyme EcoAI specificity protein [Actinobacillus
           pleuropneumoniae serovar 11 str. 56153]
          Length = 489

 Score = 99.1 bits (245), Expect = 1e-18,   Method: Composition-based stats.
 Identities = 45/434 (10%), Positives = 111/434 (25%), Gaps = 72/434 (16%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            IP+ W  V ++    L  GR         +I   ++     + L              +
Sbjct: 70  EIPESWVWVRLEDIFHLQAGR---------FISASEIYGEYKESLYPCYGGNGLRGFVKT 120

Query: 80  IFAKGQI-LYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
              +G+  + G+ G        A+     +   +V++       L   +     +   + 
Sbjct: 121 YNREGKFPIIGRQGALCGNINFAEGKFYSTEHAVVVETFSNTDTLWANYF---LIQLNLN 177

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
                          I ++ +P+PPL EQ  I  KI      I+    +  +   L ++ 
Sbjct: 178 QYATATAQPGLAVNKINDVLIPLPPLNEQKRIVAKIEELLPYIEQYAEKEEKLTALHQQF 237

Query: 199 K----QALVSYIVTKGLNPDVKM------------------------------------- 217
                ++++   +   L                                           
Sbjct: 238 PEQLKKSILQAAIQGKLTEQNPNDEPASALIERIKAEKLRLIAEKKLKKPKVISEIIMRD 297

Query: 218 -----------KDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE---SNILSLSYGN 263
                      +    E    +P+ W       +            +      + L  GN
Sbjct: 298 NLPYEIVNGKERCIADEVPFEIPESWVWVRLGEIGETNIGLTYNPSDVASDGTIVLRSGN 357

Query: 264 IIQKLET--RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
           I         ++          +     +++    +         +    +     +   
Sbjct: 358 IQDGKIDVSSDIVKVNLDIPENKRCYKNDLLICARNGSKKLVGKAAIIDKDGYSFGAFMA 417

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
             +     + Y+ + + S      F  + +     +   ++    + +P + EQ  I   
Sbjct: 418 IFRSPF--NKYIYYYLSSPLFRNDFDGVNTTTINQITQSNLNNRLIPLPSLNEQLRIVEK 475

Query: 382 INVETARIDVLVEK 395
           I    + +  L +K
Sbjct: 476 IETLFSTLQNLSQK 489



 Score = 72.5 bits (176), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 25/204 (12%), Positives = 60/204 (29%), Gaps = 18/204 (8%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
           +  ++   +P+ W       +      +     E                     +K  +
Sbjct: 63  TEQDFPFEIPESWVWVRLEDIFHLQAGRFISASEIYGEYKESLYPCYGGNGLRGFVKTYN 122

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
            E           F  I  Q       +    +      A +       D+ +  + +  
Sbjct: 123 REGK---------FPIIGRQGALCGNINFAEGKFYSTEHAVVVETFSNTDTLWANYFLIQ 173

Query: 340 YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
            +L +      +  +  L    +  + + +PP+ EQ  I   I      I+    + E+ 
Sbjct: 174 LNLNQY---ATATAQPGLAVNKINDVLIPLPPLNEQKRIVAKIEELLPYIEQY-AEKEEK 229

Query: 400 IVLL-----KERRSSFIAAAVTGQ 418
           +  L     ++ + S + AA+ G+
Sbjct: 230 LTALHQQFPEQLKKSILQAAIQGK 253


>gi|327470620|gb|EGF16076.1| restriction modification system DNA specificity subunit
           [Streptococcus sanguinis SK330]
          Length = 405

 Score = 99.1 bits (245), Expect = 1e-18,   Method: Composition-based stats.
 Identities = 50/420 (11%), Positives = 124/420 (29%), Gaps = 44/420 (10%)

Query: 23  KHWKVVPIKRFTKLN-TGRTSESGKD------IIYIGLEDVESGTGKYLPKDGNSRQSDT 75
             WK   I    ++  +G T  +  +      + ++   + ++       K      +  
Sbjct: 4   SDWKEYKIADLVEIIFSGGTPNTKVNEYWNGSLPWLSSGETKNRYINSTEKTITESGAQN 63

Query: 76  STVSIFAKGQILYGKLGP--YLRKAIIADFDGICSTQFL-VLQPKDVLPELLQGWLLSID 132
           S+  +   G ++    G      +    + D   +   + +   + VL +    + LS  
Sbjct: 64  SSTRLALSGDVVMASAGQGYTRGQVSFLNIDTFINQSVIAIRANEKVLDKKFLFYNLSSR 123

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
             +        +       K + ++ + IP L  Q  I   + +   +I+T         
Sbjct: 124 YEELRAISDSNSIRGSITTKMVKSMNIRIPDLNTQKAIANTLSSIDDKIETSKQINHHLE 183

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           ++ +   ++        G               G +P  W+ KP          K     
Sbjct: 184 QMAQAIFKSWFVDFEPFG---------------GEMPSKWQTKPADCFFDISIGKTPPRK 228

Query: 253 ESN--------ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
           E+         +  +S  ++ ++    N   +  + E     +   +    I L      
Sbjct: 229 ENWCFSEDSKDVPWISISDMGKEGLFINKTSEYLTREAIDKFNVKVVPQNTILLSFKLTI 288

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKR 364
            R A    +     A    K     +    +   +           S +  ++  + +K 
Sbjct: 289 GRIAITNCKMSTNEAIAHFKLTNKHALEWLYCFLNNINYAEL-GNTSSIATAINSKIIKS 347

Query: 365 LPVLVP---PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           + + +P    + +   I        A I   +      I  L+  R+  +   ++G+I +
Sbjct: 348 MLITMPDSSSLSKFHKIA-------APIFEEIRNNHGEIESLQNLRNILLPKLLSGEIPV 400



 Score = 50.9 bits (120), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 32/197 (16%), Positives = 58/197 (29%), Gaps = 14/197 (7%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSESG---------KDIIYIGLEDV--ESGTGKYLPKD 67
           G +P  W+  P   F  ++ G+T             KD+ +I + D+  E        + 
Sbjct: 202 GEMPSKWQTKPADCFFDISIGKTPPRKENWCFSEDSKDVPWISISDMGKEGLFINKTSEY 261

Query: 68  GNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW 127
                 D   V +  +  IL        R AI        ST   +   K      L+  
Sbjct: 262 LTREAIDKFNVKVVPQNTILLSFKLTIGRIAITNCKM---STNEAIAHFKLTNKHALEWL 318

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
              ++     E     +  +  + K I ++ + +P  +      +        I     E
Sbjct: 319 YCFLNNINYAELGNTSSIATAINSKIIKSMLITMPDSSSLSKFHKIAAPIFEEIRNNHGE 378

Query: 188 RIRFIELLKEKKQALVS 204
                 L       L+S
Sbjct: 379 IESLQNLRNILLPKLLS 395


>gi|164551500|gb|ABY60968.1| Sau1hsdM1 [Staphylococcus aureus]
 gi|298693766|gb|ADI96988.1| Type I restriction-modification system, specificity subunit S
           [Staphylococcus aureus subsp. aureus ED133]
          Length = 397

 Score = 99.1 bits (245), Expect = 1e-18,   Method: Composition-based stats.
 Identities = 59/402 (14%), Positives = 115/402 (28%), Gaps = 39/402 (9%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKD----IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            W+   +          +    K+      +I   D+ S     L  DGN        V 
Sbjct: 20  EWEEKKLGDLGLFQKSYSFSRAKEGNGKTKHIHYGDIHSKFKTVLDSDGNIPNIIEKAVF 79

Query: 80  -IFAKGQILYGK----LGPYLRKAIIADFDGICSTQFLVLQPKDVLP---ELLQGWLLSI 131
            +  KG I++           +  +I        +       + +       L  +  ++
Sbjct: 80  ELIQKGDIVFADASEDYSDLGKAVMIDFKPNSLISGLHTHLFRPLNNAISNFLIFYTKTL 139

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
              + I     G ++     K + N+ + IP    +     K      ++D  I    + 
Sbjct: 140 SYKKFIRQQGTGISVLGISKKSLLNLNVLIPRSELEQQKVGK---FFSKLDRQIELEEQK 196

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           IELL+++K+  +  I ++ L           +  G     WE      +      K    
Sbjct: 197 IELLQQQKKGYIQKIFSQEL--------RFKDENGDDYPEWEETTIKEIAQINTGKKDTK 248

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
                      + I           P  Y+       GE +    D     +        
Sbjct: 249 -----------DAITNGSYDFYVRSPIVYKINTFSYEGEAILTVGDGVGVGKVF-HYVNG 296

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
           +       Y            L +      L +           S++ + V  + V  P 
Sbjct: 297 KFDYHQRVYKISDFKNYYGLLLFYYFSQNFLKETKKYSAKTSVDSVRKDMVANMKVPRPI 356

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
             EQ  I   I     ++D  ++  +Q I LLK+R+ + +  
Sbjct: 357 YIEQEKIGQFI----KKVDNKIKIQKQVIELLKQRKKALLQK 394



 Score = 67.9 bits (164), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 32/217 (14%), Positives = 73/217 (33%), Gaps = 10/217 (4%)

Query: 213 PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
           P+++      EW         +       +     N K    +   +            N
Sbjct: 10  PELRFPGFEGEWEEKKLGDLGLFQKSYSFSRAKEGNGKTKHIHYGDIHSKFKTVLDSDGN 69

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID--- 329
           +    E    ++++  G+IVF                  +   + S         ++   
Sbjct: 70  IPNIIEK-AVFELIQKGDIVFADASEDYSDLGKAVMIDFKPNSLISGLHTHLFRPLNNAI 128

Query: 330 STYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVP-PIKEQFDITNVINVETA 387
           S +L +  ++    K     G+G+    +  + +  L VL+P    EQ  +        +
Sbjct: 129 SNFLIFYTKTLSYKKFIRQQGTGISVLGISKKSLLNLNVLIPRSELEQQKVGKF----FS 184

Query: 388 RIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGE 424
           ++D  +E  EQ I LL++++  +I    + ++  + E
Sbjct: 185 KLDRQIELEEQKIELLQQQKKGYIQKIFSQELRFKDE 221


>gi|291277043|ref|YP_003516815.1| type I restriction-modification methylase [Helicobacter mustelae
           12198]
 gi|290964237|emb|CBG40086.1| type I restriction-modification methylase [Helicobacter mustelae
           12198]
          Length = 401

 Score = 99.1 bits (245), Expect = 1e-18,   Method: Composition-based stats.
 Identities = 51/395 (12%), Positives = 115/395 (29%), Gaps = 19/395 (4%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           P   +   +     +  G+                 S  G+Y   +G    S        
Sbjct: 13  PHGVEFRKLGEVINICKGKQLNKE----------FLSNYGEYPVMNGGIYASGYWNTYNT 62

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
              +I+  + G                    V++           +    +    +    
Sbjct: 63  NSPKIIISQGGASAGYVNYMTSKFWAGAHCYVIESDSKKVNYKFLFYFLKNKESFLIKSQ 122

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            GA +   +   I  +P+P+PPL  Q  I + +   T     L TE     +  +  +  
Sbjct: 123 FGAGIPALNKADIETLPIPLPPLEVQREIVKILDTFTELNTELNTELKLRKKQYEYYRNW 182

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
           L+S+          + +     +         +        E  +           ++S 
Sbjct: 183 LLSFSDVDASKEGAEQRLRDKSY--PKALKALLLSLCPHGVEFRKLGEVGEFQKGATISK 240

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
            N +        G +  +Y        GE +   I          S   +   +  S  +
Sbjct: 241 KNAVPGEVPVIAGGRQPAYYHNHANRIGETI--AISSSGAYAGYVSYWNIPVFLSDSFSI 298

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
           + K   +   YL + ++      ++    +G    +  +++  LP+ +PP++ Q +I  +
Sbjct: 299 SPKKENLIPKYLFYWLQVKQ-DAIYATKSTGGIPHVYSKNLDNLPIPLPPLEVQREIVKI 357

Query: 382 INVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           ++  +   + L   I   I   K+     R   + 
Sbjct: 358 LDDFSTLTEDLSSGIPAEIAARKKQYEYYRDKLLT 392



 Score = 68.3 bits (165), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 19/185 (10%), Positives = 53/185 (28%), Gaps = 11/185 (5%)

Query: 228 VPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVD 287
            P   E +    ++     K       +           +    N G+    Y      +
Sbjct: 12  CPHGVEFRKLGEVINICKGKQLNKEFLS--------NYGEYPVMNGGIYASGYWNTYNTN 63

Query: 288 PGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY 347
             +I+              +    +       Y+        +    +         +  
Sbjct: 64  SPKIIISQGGAS---AGYVNYMTSKFWAGAHCYVIESDSKKVNYKFLFYFLKNKESFLIK 120

Query: 348 AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
           +       +L   D++ LP+ +PP++ Q +I  +++  T     L  +++      +  R
Sbjct: 121 SQFGAGIPALNKADIETLPIPLPPLEVQREIVKILDTFTELNTELNTELKLRKKQYEYYR 180

Query: 408 SSFIA 412
           +  ++
Sbjct: 181 NWLLS 185


>gi|28867249|ref|NP_789868.1| type I restriction-modification system, S subunit, EcoA family
           [Pseudomonas syringae pv. tomato str. DC3000]
 gi|28850483|gb|AAO53563.1| type I restriction-modification system, S subunit, EcoA family
           [Pseudomonas syringae pv. tomato str. DC3000]
          Length = 435

 Score = 99.1 bits (245), Expect = 1e-18,   Method: Composition-based stats.
 Identities = 52/366 (14%), Positives = 122/366 (33%), Gaps = 31/366 (8%)

Query: 84  GQ-ILYGKLGPY-----LRKAIIADFDGICSTQFLVLQP--KDVLPELLQGWLLSIDVTQ 135
           G  I+  ++               + +     +    +P  +      L  WL    V +
Sbjct: 66  GDRIIISRMNTPALVGESGYVTKDEPNLFLPDRLWQTEPSDRPHSQRWLSYWLQHPGVRR 125

Query: 136 RIEAICEG--ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            I A   G   +M +   + + ++P+P  PL EQ  I   + A   ++D +  +      
Sbjct: 126 LIAASATGTSNSMKNISKETVLSLPVPRTPLPEQQKIAAILTAVDDKLDVIFRQIKATQA 185

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIE--WVGLVPDHWEVKPFFALVTELNRKNT-- 249
           L +   QAL S  V         ++ +  +   +G +P  W+V      V+ L    +  
Sbjct: 186 LKQGLMQALFSRGVGTQDTTGRWIQHTEFKDSELGTIPALWDVGVIADYVSALRSGVSVN 245

Query: 250 ----KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDP---GEIVFRFIDLQNDK 302
                  +  I  L    +++     N        E  ++ +P   G I+    +     
Sbjct: 246 AEDRMHGDDEIGVLKVSCVLRGGFYPNCHKTVVPEERERVAEPVLQGRIIVSRANTPALV 305

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDST---YLAWLMRSYDLCKVFYAMGSGL---RQS 356
                       +     +             +L++ ++S  + +      +G     ++
Sbjct: 306 GESAYVNSAWPNLFLPDKLWQIEPSESPHSIKWLSFYLQSPFVRQEISKAATGTSGSMKN 365

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           +       + + + P+ EQ  I  +++  T++I+ L  K        +  +   +   +T
Sbjct: 366 ISKPAFLSIRMPLVPLAEQEHIAAILSDVTSKIEALNSKQN----HFQTLKRGLMQKLLT 421

Query: 417 GQIDLR 422
           G+  ++
Sbjct: 422 GEWRVK 427


>gi|317014259|gb|ADU81695.1| type I restriction-modification methylase [Helicobacter pylori
           Gambia94/24]
          Length = 400

 Score = 99.1 bits (245), Expect = 1e-18,   Method: Composition-based stats.
 Identities = 52/397 (13%), Positives = 108/397 (27%), Gaps = 23/397 (5%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           PK      +     +  G+       + Y     +  G   Y     N   +D       
Sbjct: 13  PKGVGFRKLGEVINILKGKQLNKELLLDYGKYPVMNGGI--YASGYWNEYNTDYPK---- 66

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
               I+  + G                     ++           +    +    +    
Sbjct: 67  ----IIISQGGASAGYVNYMTSKFWAGAHCYTIELNSEKLNYKFLYYFLKNSQTILMKSQ 122

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            GA +   +   I  + +PIPPL  Q  I   + A T     L TE     +  +  +  
Sbjct: 123 FGAGIPALNKADIETLTIPIPPLEIQQEIVTILDAFTELNTELNTELNARKKQYEYYQNM 182

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
           L+        N   +      E +   P    +K     +        KL E        
Sbjct: 183 LLD------FNDINQSHKDAKEKLVQKPYPKRLKQLLHTLAPKGVGFRKLGEVCDFQKGK 236

Query: 262 GNIIQKLETRNMGLKPESYET--YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
               + +    + +     +   Y            I          S   +   +  S 
Sbjct: 237 SITKKAVTFGKVPVISGGRQPAYYHNEANRSGETIAISSSGVYAGYVSYWDIPVFLADSF 296

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
            ++ K   +   YL + + +     +     +G    +  +D++   + +PP++ Q +I 
Sbjct: 297 SVSPKQKTLMPKYLFYYLTTQQ-DAIHATKSTGGIPHVYSKDLQNFLIPIPPLEIQQEIV 355

Query: 380 NVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
            +++  +A    L   I   I   K+     R   + 
Sbjct: 356 KILDQFSALTTDLQAGIPAEIKARKKQYEYYREKLLT 392


>gi|291556522|emb|CBL33639.1| Restriction endonuclease S subunits [Eubacterium siraeum V10Sc8a]
          Length = 380

 Score = 99.1 bits (245), Expect = 1e-18,   Method: Composition-based stats.
 Identities = 64/394 (16%), Positives = 128/394 (32%), Gaps = 28/394 (7%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
           V +      +      +      +GLE +          D     SD +   +F KG +L
Sbjct: 4   VKLGEVAIEHKETCKGNKDGYPIVGLEHLVPEEVTLTAWD---EGSDNTFTKMFRKGNVL 60

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVL--QPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           +G+   YL+KA +A FDGICS    V+   P  +LP LL   + + ++         G+ 
Sbjct: 61  FGRRRAYLKKAAVAPFDGICSGDITVIEAIPDRILPMLLPFIIQNDELFDFAVGKSAGSL 120

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
                W+ + N    +P + +Q  + E + A      +         EL       + S 
Sbjct: 121 SPRVKWEHLKNYEFELPDMDKQRELAELLWAMDATKKSYQKLIAATDEL-------VKSQ 173

Query: 206 IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII 265
            + +  +P    K   +  +G        K           ++     +N   +   +++
Sbjct: 174 FMEQFGDPKNNQKGLPVLSIGQFGKAKGGKRLPK------GESYADCATNYPYVRVIDMV 227

Query: 266 QKLETR----NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
                      +            +   ++            ++  +         +A +
Sbjct: 228 NHSVNIPALVYLTQSTHEKIAKYTISSKDVYISIAGTIGQVGAVPDSIDGANLTENAAKI 287

Query: 322 AVKPH-GIDSTYLAWLMRSYDLCKVFY-AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
            +     +D  YL W +      +          +  L    ++ + VLVPPI+EQ    
Sbjct: 288 VLDKDSPVDRDYLIWYLSLPAGAEQIEEKTMHTTQPKLALYRIEEIEVLVPPIEEQRSFA 347

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
             I     + D    ++EQ++  L       I+ 
Sbjct: 348 AFI----RQSDKSKFELEQTLSELTATYKRIISE 377


>gi|327403691|ref|YP_004344529.1| restriction modification system DNA specificity domain-containing
           protein [Fluviicola taffensis DSM 16823]
 gi|327319199|gb|AEA43691.1| restriction modification system DNA specificity domain protein
           [Fluviicola taffensis DSM 16823]
          Length = 411

 Score = 99.1 bits (245), Expect = 1e-18,   Method: Composition-based stats.
 Identities = 57/414 (13%), Positives = 121/414 (29%), Gaps = 28/414 (6%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           IPK WK V I +      G    +       +  + + ++ +G         +    + +
Sbjct: 8   IPKGWKKVKIPKVLFFQEGPGVRNWQFTESGVKLLNVGNINNGKVDLNSTSIHLSDEEAN 67

Query: 77  TVS---IFAKGQILYGKLGPYLRKAI---------IADFDGICSTQFLVLQPKDVLPELL 124
                 +  +G +L    G  +                     ST         +     
Sbjct: 68  GKYSHFLVDEGDLLIACSGIVVSNFHNKIAIAEKSHLPLCLNTSTMRFKSIESKIDLNYF 127

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
           + +L ++  T +++ +  G+   +     I  I + +PPL  Q  I + +          
Sbjct: 128 KYYLQTVYFTAQLQKLITGSAQLNFGPSHIKKIDILLPPLETQKRIAQILDDGQALKQK- 186

Query: 185 ITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTEL 244
                  ++      Q++   +    +      K   +E +              +   +
Sbjct: 187 ---TELLLKEYDALAQSIFMDMFGDPVRNPNTWKKVKLEKLC----GVGSSKRVFVEDLV 239

Query: 245 NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
                    + + SL  G  I            E      +   G+++   I        
Sbjct: 240 ESGVPFYRGTEVGSLGAGLEINPKLFITKKHYEELKTHTGVPKVGDLLLPSICPDGRIFR 299

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKR 364
           + S            ++ V    I+S YL  L++S                 LK   +K+
Sbjct: 300 VISENPFYFKDGRVLWIKVNQEKINSVYLKTLLKSIFYSNYSNIASGSTFAELKIFALKK 359

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           + +L+P IK Q      I      ID   E  +Q +   ++  +  +  A  G+
Sbjct: 360 IDLLLPDIKLQNLFAEKIE----LIDKQKELAKQELKESEDLFNCLLQKAFKGE 409



 Score = 62.1 bits (149), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 31/196 (15%), Positives = 74/196 (37%), Gaps = 16/196 (8%)

Query: 225 VGLVPDHWEVKPFFALVTELNR---KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYE 281
           +  +P  W+      ++        +N +  ES +  L+ GNI       N      S E
Sbjct: 5   LDFIPKGWKKVKIPKVLFFQEGPGVRNWQFTESGVKLLNVGNINNGKVDLNSTSIHLSDE 64

Query: 282 ------TYQIVDPGEIVFRFIDLQN----DKRSLRSAQVMERGIITSAY-MAVKPHGIDS 330
                 ++ +VD G+++     +      +K ++     +   + TS          ID 
Sbjct: 65  EANGKYSHFLVDEGDLLIACSGIVVSNFHNKIAIAEKSHLPLCLNTSTMRFKSIESKIDL 124

Query: 331 TYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
            Y  + +++         + +G  + +     +K++ +L+PP++ Q  I  +++   A +
Sbjct: 125 NYFKYYLQTVYFTAQLQKLITGSAQLNFGPSHIKKIDILLPPLETQKRIAQILDDGQA-L 183

Query: 390 DVLVEKIEQSIVLLKE 405
               E + +    L +
Sbjct: 184 KQKTELLLKEYDALAQ 199


>gi|253576201|ref|ZP_04853532.1| type I restriction-modification system specificity determinant
           protein [Paenibacillus sp. oral taxon 786 str. D14]
 gi|251844328|gb|EES72345.1| type I restriction-modification system specificity determinant
           protein [Paenibacillus sp. oral taxon 786 str. D14]
          Length = 420

 Score = 99.1 bits (245), Expect = 1e-18,   Method: Composition-based stats.
 Identities = 61/414 (14%), Positives = 128/414 (30%), Gaps = 35/414 (8%)

Query: 35  KLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPY 94
            +N   +   G     I + D+E     +  K  N   ++ +  S F  G  L  ++ P 
Sbjct: 2   DINPFYSIRKGTLAKKISMADLE----PFTRKITNYEVAEFNGGSKFKNGDTLVARITPC 57

Query: 95  LRK-------AIIADFDGICSTQFLVLQPKDVL--PELLQGWLLSIDVTQRIEAICEGAT 145
           L          +  D  G  ST+F+VL+ K+ +   + +    +S +          G +
Sbjct: 58  LENGKTAYVNILEKDEIGFGSTEFIVLRGKEGISDNKYVYYLSISPEFRNVAIKSMTGTS 117

Query: 146 -MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
               A    I      +PP+ EQ  I   + +   +I+  I           E  QAL  
Sbjct: 118 GRQRAQVDAISKWQFRLPPIKEQKEISALLSSLDDKIELNIAINKNLE----EMAQALFK 173

Query: 205 YIVTKGLNPDV---KMKDSGIE----WVGLVPDHWEVKPFFALVTELNRKNTK-----LI 252
                   P+      K SG E     +GL+P  W+V     +    +    K       
Sbjct: 174 RWFVDFEFPNENGEPYKSSGGEFEESELGLIPKGWKVGRATDIFDVQSGGTPKTSTSEYW 233

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
              I   +  +    L       K  + +     +        + +       + A    
Sbjct: 234 NGEIPFFTPKDCSNSLYV-IETEKTITEDGLNNCNSKLFKTDTVFITARGTVGKVALAGR 292

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI 372
              +  +  A+      +    + +    +  +       +  ++     + L   +P I
Sbjct: 293 DMAMNQSCYALVAKSGYTQKYVFHLTQQLVNVLRKNASGAVFDAITVSTFQNLKTTLPDI 352

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
           +         +     +  L+ +       L++ R + +   ++G+I +  E  
Sbjct: 353 EL----VRHFDGLVNGLYSLLLEKANETQTLQQLRDTLLPKLMSGEIRVPVEQD 402



 Score = 64.8 bits (156), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 32/206 (15%), Positives = 59/206 (28%), Gaps = 13/206 (6%)

Query: 10  YKDSGVQW----IGAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESG 59
           YK SG ++    +G IPK WKV        + +G T ++        +I +   +D  + 
Sbjct: 189 YKSSGGEFEESELGLIPKGWKVGRATDIFDVQSGGTPKTSTSEYWNGEIPFFTPKDCSNS 248

Query: 60  -TGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKD 118
                  K       +     +F    +     G    K  +A  D   +     L  K 
Sbjct: 249 LYVIETEKTITEDGLNNCNSKLFKTDTVFITARGTV-GKVALAGRDMAMNQSCYALVAKS 307

Query: 119 VLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
                   + L+  +   +     GA           N+   +P +         +    
Sbjct: 308 GY-TQKYVFHLTQQLVNVLRKNASGAVFDAITVSTFQNLKTTLPDIELVRHFDGLVNGLY 366

Query: 179 VRIDTLITERIRFIELLKEKKQALVS 204
             +     E     +L       L+S
Sbjct: 367 SLLLEKANETQTLQQLRDTLLPKLMS 392


>gi|189426561|ref|YP_001953738.1| restriction modification system DNA specificity domain [Geobacter
           lovleyi SZ]
 gi|189422820|gb|ACD97218.1| restriction modification system DNA specificity domain [Geobacter
           lovleyi SZ]
          Length = 514

 Score = 99.1 bits (245), Expect = 1e-18,   Method: Composition-based stats.
 Identities = 73/469 (15%), Positives = 134/469 (28%), Gaps = 76/469 (16%)

Query: 23  KHWKVVPIKRFT-KLNTGRTSESGK-----DIIYIGLEDVESGTGKYLPKDGNSRQS--D 74
             W  VP+      L TG   + G       I  +G E ++S  G  L           +
Sbjct: 8   NGWLTVPLSDLLMSLETGSRPKGGVRGITAGIPSLGGEHLDSNGGFKLDNIRYVPLEFAE 67

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQ------FLVLQPKDVLPELLQGWL 128
             T      G IL  K G    K    D     S        FL      +  + +  +L
Sbjct: 68  LMTRGAINNGDILVVKDGATTGKVSFVDNSFPLSIAVVNEHVFLCRCSSLLNSKYIFFYL 127

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
            S    Q+I     GA       +    + +P+ P AEQ  I EK+      +D  + E 
Sbjct: 128 FSNSGNQQILEDFRGAAQGGISQRFADLVKVPLAPAAEQTRIVEKLEELFSDLDAGVAEL 187

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIE------------------------- 223
               + L + +Q+L+   V   L  + + K++  E                         
Sbjct: 188 KAAQKKLAQYRQSLLKAAVEGSLTAEWRTKNTPKETGAQLLERILKERRARWEEKQLARF 247

Query: 224 ------------------------WVGLVPDHWEVKPFFALVTELNRKNTKLIES----- 254
                                    +  +P+ W       +      K     +      
Sbjct: 248 KEQAKTPPKGWQDKYPEPVQPDTTNLPELPEGWVWASVDQVGEVFLGKMLDKTKHQTGAM 307

Query: 255 --NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV-- 310
              + ++S      +          E       +  G+++                    
Sbjct: 308 LPYLRNISVRWGSIETHDLPEMYYEEDELERYGLASGDVLVCEGGEPGRAAVCGKEHEKL 367

Query: 311 -MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
             ++ +      ++    +   YL  L ++  L + F        +    E    LP+ +
Sbjct: 368 KYQKALHRVRLFSLYESDLLVFYLEHLAKTGMLEQYF---TGSTIKHFTKESFIALPIPL 424

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           PPI EQ +I   + +           I  S+     +R + + +A +GQ
Sbjct: 425 PPICEQSEIVEHLKLAIQCAQEQDAAIIHSLTQAAAQRKNILKSAFSGQ 473



 Score = 62.1 bits (149), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 34/202 (16%), Positives = 70/202 (34%), Gaps = 8/202 (3%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGKD-----IIYIGLEDVESGTGKYLPKDGNSRQ 72
           +  +P+ W    + +  ++  G+  +  K      + Y+    V  G+ +         +
Sbjct: 273 LPELPEGWVWASVDQVGEVFLGKMLDKTKHQTGAMLPYLRNISVRWGSIETHDLPEMYYE 332

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQ---FLVLQPKDVLPELLQGWLL 129
            D       A G +L  + G   R A+          Q     V        +LL  +L 
Sbjct: 333 EDELERYGLASGDVLVCEGGEPGRAAVCGKEHEKLKYQKALHRVRLFSLYESDLLVFYLE 392

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
            +  T  +E    G+T+ H   +    +P+P+PP+ EQ  I E +              I
Sbjct: 393 HLAKTGMLEQYFTGSTIKHFTKESFIALPIPLPPICEQSEIVEHLKLAIQCAQEQDAAII 452

Query: 190 RFIELLKEKKQALVSYIVTKGL 211
             +     +++ ++    +  L
Sbjct: 453 HSLTQAAAQRKNILKSAFSGQL 474


>gi|165976841|ref|YP_001652434.1| Type I restriction enzyme EcoAI specificity protein [Actinobacillus
           pleuropneumoniae serovar 3 str. JL03]
 gi|165876942|gb|ABY69990.1| Type I restriction enzyme EcoAI specificity protein [Actinobacillus
           pleuropneumoniae serovar 3 str. JL03]
          Length = 470

 Score = 99.1 bits (245), Expect = 1e-18,   Method: Composition-based stats.
 Identities = 45/434 (10%), Positives = 111/434 (25%), Gaps = 72/434 (16%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            IP+ W  V ++    L  GR         +I   ++     + L              +
Sbjct: 51  EIPESWVWVRLEDIFHLQAGR---------FISASEIYGEYKESLYPCYGGNGLRGFVKT 101

Query: 80  IFAKGQI-LYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
              +G+  + G+ G        A+     +   +V++       L   +     +   + 
Sbjct: 102 YNREGKFPIIGRQGALCGNINFAEGKFYSTEHAVVVETFSNTDTLWANYF---LIQLNLN 158

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
                          I ++ +P+PPL EQ  I  KI      I+    +  +   L ++ 
Sbjct: 159 QYATATAQPGLAVNKINDVLIPLPPLNEQKRIVAKIEELLPYIEQYAEKEEKLTALHQQF 218

Query: 199 K----QALVSYIVTKGLNPDVKM------------------------------------- 217
                ++++   +   L                                           
Sbjct: 219 PEQLKKSILQAAIQGKLTEQNPNDEPASALIERIKAEKLRLIAEKKLKKPKVISEIIMRD 278

Query: 218 -----------KDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE---SNILSLSYGN 263
                      +    E    +P+ W       +            +      + L  GN
Sbjct: 279 NLPYEIVNGKERCIADEVPFEIPESWVWVRLGEIGETNIGLTYNPSDVASDGTIVLRSGN 338

Query: 264 IIQKLET--RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
           I         ++          +     +++    +         +    +     +   
Sbjct: 339 IQDGKIDVSSDIVKVNLDIPENKRCYKNDLLICARNGSKKLVGKAAIIDKDGYSFGAFMA 398

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
             +     + Y+ + + S      F  + +     +   ++    + +P + EQ  I   
Sbjct: 399 IFRSPF--NKYIYYYLSSPLFRNDFDGINTTTINQITQSNLNNRLIPLPSLNEQLRIVEK 456

Query: 382 INVETARIDVLVEK 395
           I    + +  L +K
Sbjct: 457 IETLFSTLQNLSQK 470



 Score = 72.5 bits (176), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 25/204 (12%), Positives = 60/204 (29%), Gaps = 18/204 (8%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
           +  ++   +P+ W       +      +     E                     +K  +
Sbjct: 44  TEQDFPFEIPESWVWVRLEDIFHLQAGRFISASEIYGEYKESLYPCYGGNGLRGFVKTYN 103

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
            E           F  I  Q       +    +      A +       D+ +  + +  
Sbjct: 104 REGK---------FPIIGRQGALCGNINFAEGKFYSTEHAVVVETFSNTDTLWANYFLIQ 154

Query: 340 YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
            +L +      +  +  L    +  + + +PP+ EQ  I   I      I+    + E+ 
Sbjct: 155 LNLNQY---ATATAQPGLAVNKINDVLIPLPPLNEQKRIVAKIEELLPYIEQY-AEKEEK 210

Query: 400 IVLL-----KERRSSFIAAAVTGQ 418
           +  L     ++ + S + AA+ G+
Sbjct: 211 LTALHQQFPEQLKKSILQAAIQGK 234


>gi|167829998|ref|ZP_02461469.1| restriction modification system DNA specificity domain
           [Burkholderia pseudomallei 9]
 gi|167847544|ref|ZP_02473052.1| restriction modification system DNA specificity domain
           [Burkholderia pseudomallei B7210]
          Length = 437

 Score = 99.1 bits (245), Expect = 1e-18,   Method: Composition-based stats.
 Identities = 60/431 (13%), Positives = 137/431 (31%), Gaps = 35/431 (8%)

Query: 26  KVVPIKRFTKLNTG--RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI--- 80
           +V P++    L      ++    D  Y+ + +     G+      +   ++     I   
Sbjct: 4   EVRPLRDLCSLIADCPHSTPVWTDSGYLVIRNQNIKGGRLDLSSPSFTDAEHFAHRIRRA 63

Query: 81  -FAKGQILYGKLGPYLRKAIIADFDGICS---TQFLVLQPKDVLPELLQGWLLSIDVTQR 136
              +G I++ +  P     +I      C       L   P  V    L   L S  V   
Sbjct: 64  KPREGDIVFTREAPMGEVCMIPKGLECCVGQRQVLLRPDPDVVDGRYLLYALQSPQVQHE 123

Query: 137 I-EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
           I      G+T+S+     + ++ +P P +A Q  I   + A   RID L         + 
Sbjct: 124 IGWNEGTGSTVSNVRIPVLESLKIPTPSIAVQRDIGSVLSALDDRIDLLRQTNATLESIA 183

Query: 196 KEKKQALV-----SYIVTKGLNPDVKMKDS--------GIEWVGLVPDHWEVKPFFALVT 242
           +   ++            +G  PD    ++            +G +P  W V     +  
Sbjct: 184 QTLFKSWFIDFDPVRAKAEGREPDGMDAETAALFPDSFEDSALGEIPKGWAVSTVGRVAQ 243

Query: 243 ELNRKNTKLIESNILSLSYGNIIQKLETRNM-------GLKPESYETYQIVDPGEIVFRF 295
            +        E      +  +     +   +         +  S      V  G +    
Sbjct: 244 CVGGGTPSTKEQKFWEPAIHHWTTPKDLSGIAAPVLLDTERRLSDAGLAKVSSGLLPVGT 303

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ 355
           + + +       A       +   Y+A+ P G  +    +     ++  +          
Sbjct: 304 LLMSSRAPIGYLAISQIPLAVNQGYIAMLPGGQLAPEYLYFWCQSNMDAIKQKANGSTFM 363

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            +     + +P+++P  +    +        A+I   + + E+  + L+E R++ +   +
Sbjct: 364 EISKTAFRPIPIVLPSSE----VAACFADLAAKIFERISEGERQRIHLEEIRNTLLPRLI 419

Query: 416 TGQIDLRGESQ 426
           +G++ L  E++
Sbjct: 420 SGKLRL-PEAE 429



 Score = 61.0 bits (146), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 29/197 (14%), Positives = 56/197 (28%), Gaps = 12/197 (6%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIG----------LEDVESGTGKYLPKD 67
           +G IPK W V  + R  +   G T  + +   +            L  + +       + 
Sbjct: 226 LGEIPKGWAVSTVGRVAQCVGGGTPSTKEQKFWEPAIHHWTTPKDLSGIAAPVLLDTERR 285

Query: 68  GNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW 127
            +       +  +   G +L     P      I+      +  ++ + P   L      +
Sbjct: 286 LSDAGLAKVSSGLLPVGTLLMSSRAPI-GYLAISQIPLAVNQGYIAMLPGGQL-APEYLY 343

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
                    I+    G+T           IP+ +P         +       RI     +
Sbjct: 344 FWCQSNMDAIKQKANGSTFMEISKTAFRPIPIVLPSSEVAACFADLAAKIFERISEGERQ 403

Query: 188 RIRFIELLKEKKQALVS 204
           RI   E+       L+S
Sbjct: 404 RIHLEEIRNTLLPRLIS 420


>gi|294784905|ref|ZP_06750193.1| type I restriction modification DNA specificity family protein
           [Fusobacterium sp. 3_1_27]
 gi|294486619|gb|EFG33981.1| type I restriction modification DNA specificity family protein
           [Fusobacterium sp. 3_1_27]
          Length = 592

 Score = 98.7 bits (244), Expect = 1e-18,   Method: Composition-based stats.
 Identities = 46/396 (11%), Positives = 113/396 (28%), Gaps = 34/396 (8%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           P   +   +    K+  G      K          +S   KY   +G    +        
Sbjct: 13  PNGVEYKELGDIAKVTIGEFVHKDK----------QSENAKYPVYNGGISNTGYYDEYNE 62

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            K +I+    G           +         +   D +      + +  +  + +    
Sbjct: 63  EKNKIIISARGANAGYINRIFVNYWAGNSCYTINANDKIINWNFLYYVLKNKEKGLLNKQ 122

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
           +  ++     K + +I +P+PPL  Q  I   +   T     L  E    +   K++   
Sbjct: 123 QTGSIPSISKKQVESILVPVPPLEVQDEIVRILDNFTALTAELTAELTAELTARKKQYSW 182

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
              Y++    N    +K      +G + +                     +      +  
Sbjct: 183 YRDYLLKFE-NKVKMVK------IGDLFEFKNGINKDKGSFGKGTPIINYVN-----VYK 230

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA--QVMERGIITSA 319
            N I   + + +            V  G++ F       ++    S   + +E  + +  
Sbjct: 231 KNKIYFEDLKGLVEASNDELVRYGVKRGDVFFTRTSETIEEIGYTSVLLEDIENCVFSGF 290

Query: 320 YMAVKPHGID--STYLAWLMRSYDLCK-VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
            +  +P        Y A+   + ++   +        R       + ++ + +PP++ Q 
Sbjct: 291 LLRARPITDLLLPEYCAYCFSTSNIRNTIIKKSTYTTRALTNGTSLSQIEIPLPPLEVQK 350

Query: 377 DITNVINVETARIDVL-------VEKIEQSIVLLKE 405
            I  V++      + L       +E  ++     + 
Sbjct: 351 RIVEVLDNFEKICNDLNIGLPAEIEARQKQYEFYRN 386



 Score = 98.7 bits (244), Expect = 2e-18,   Method: Composition-based stats.
 Identities = 57/404 (14%), Positives = 127/404 (31%), Gaps = 29/404 (7%)

Query: 26  KVVPIKRFTKLNTGRTSESG---KDIIYIGLEDVESGTGKYLP--KDGNSRQSDTSTVSI 80
           K+V I    +   G   + G   K    I   +V      Y    K      +D      
Sbjct: 195 KMVKIGDLFEFKNGINKDKGSFGKGTPIINYVNVYKKNKIYFEDLKGLVEASNDELVRYG 254

Query: 81  FAKGQILYGKLGPYLRKAIIAD------FDGICSTQFLVLQPKDVL--PELLQGWLLSID 132
             +G + + +    + +            + + S   L  +P   L  PE       + +
Sbjct: 255 VKRGDVFFTRTSETIEEIGYTSVLLEDIENCVFSGFLLRARPITDLLLPEYCAYCFSTSN 314

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           +   I       T +  +   +  I +P+PPL  Q  I E +       + L       I
Sbjct: 315 IRNTIIKKSTYTTRALTNGTSLSQIEIPLPPLEVQKRIVEVLDNFEKICNDLNIGLPAEI 374

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           E  +++ +   ++++T  +      K    +    +   +     +  +        K  
Sbjct: 375 EARQKQYEFYRNFLLTFKIENCTLPKTRQDKTRQDIIKLFMYIFGYIELELGEILKIKNG 434

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
                       I  +     G      +TY       ++ R   + N     +    ++
Sbjct: 435 SDYKKF-----NIGNIPVYGSGGIINYIDTYIYDKESVLIPRKGSIGNLFYVDKPFWTVD 489

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI 372
               T  Y  +    + S YL + +   +L K+     +G   SL    + ++ + +P +
Sbjct: 490 ----TIFYTVIDKDVVISKYLYYYLSKMNLEKL---NTAGGVPSLTQTVLNKILISLPSL 542

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           +EQ  I ++++      + + E +   I   ++     R   + 
Sbjct: 543 EEQERIVDILDRFDKLCNDISEGLPAEIEARQKQYEYYREKLLT 586



 Score = 69.4 bits (168), Expect = 9e-10,   Method: Composition-based stats.
 Identities = 22/149 (14%), Positives = 48/149 (32%), Gaps = 7/149 (4%)

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
           K    N G+    Y      +  +I+              +   +      S Y      
Sbjct: 43  KYPVYNGGISNTGYYDEYNEEKNKIIISARGAN---AGYINRIFVNYWAGNSCYTINAND 99

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
            I +    + +       +     +G   S+  + V+ + V VPP++ Q +I  +++  T
Sbjct: 100 KIINWNFLYYVLKNKEKGLLNKQQTGSIPSISKKQVESILVPVPPLEVQDEIVRILDNFT 159

Query: 387 ARIDVLVEKIEQSIVLLKE----RRSSFI 411
           A    L  ++   +   K+     R   +
Sbjct: 160 ALTAELTAELTAELTARKKQYSWYRDYLL 188


>gi|221231664|ref|YP_002510816.1| type I RM modification enzyme [Streptococcus pneumoniae ATCC
           700669]
 gi|220674124|emb|CAR68643.1| putative type I RM modification enzyme [Streptococcus pneumoniae
           ATCC 700669]
          Length = 372

 Score = 98.7 bits (244), Expect = 1e-18,   Method: Composition-based stats.
 Identities = 50/394 (12%), Positives = 109/394 (27%), Gaps = 28/394 (7%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V +        G   +  +D    G E +          + N          I   G 
Sbjct: 2   KKVKLGEVATFINGYAFKP-QDWSSEGKEIIRIQNLTKTSTEINYYSGMIDKKYIVEAGD 60

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           IL    G  L          + +     +    +  +      +     Q       G+T
Sbjct: 61  ILISWSG-TLGVFQWRGRSAVLNQHIFKVVFDKIDIDKSYFKYVVEKGLQDAVKHTHGST 119

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
           M H   K   NI +P   L EQ  I  ++   +  I     +                  
Sbjct: 120 MKHLTKKYFDNIIVPYTNLGEQQRIASELDLLSKLILRRQEQLEELNL------------ 167

Query: 206 IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII 265
                L      +  G   +    D+              + +    E   L L+  N+ 
Sbjct: 168 -----LVKSRFNEMFGENKIFESIDNLFDIIDGDRGKNYPKSDELFSEEYCLFLNTKNVT 222

Query: 266 QKLETRN----MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
           +   + +    +    +       ++  +IV        +          +   I S  +
Sbjct: 223 KNGFSFDTKQFITKTKDKLLRKGKLERYDIVLTTRGTVGNVAYYDELIKYKHLRINSGMV 282

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
            ++P   +     +++           +    +  L    +K++ + +PP+  Q +  + 
Sbjct: 283 ILRPKTPNLNQ-KFIIHVLRNNNYSRVISGSAQPQLPITKLKKILLPLPPLALQNEFADF 341

Query: 382 INVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           +    A +D     I++S+  L+  + S +    
Sbjct: 342 V----ALVDKSQLAIQKSLEELETLKKSLMQEYF 371


>gi|291004532|ref|ZP_06562505.1| restriction modification system DNA specificity domain-containing
           protein [Saccharopolyspora erythraea NRRL 2338]
          Length = 283

 Score = 98.7 bits (244), Expect = 1e-18,   Method: Composition-based stats.
 Identities = 60/274 (21%), Positives = 104/274 (37%), Gaps = 9/274 (3%)

Query: 156 NIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDV 215
            +P P   L EQ  I + + AET RID L   R R +++L+EK    V   V  G     
Sbjct: 1   MLPFPRVSLEEQRRIADFLDAETTRIDKLSALRERQLDILEEKAMRRVYDTVR-GTGVVG 59

Query: 216 KMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL 275
             + SG+ W+G VP HW V            K      +    L     +  ++   +  
Sbjct: 60  ARRPSGLSWLGSVPVHWRVAAVSHYFEVELGKMLNQERARGDHLRPYLRVANVQWGVVDT 119

Query: 276 K-------PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
                   P   +    + PG+++         + ++ S ++ E     + +        
Sbjct: 120 TELAMMDFPPEEQKRYRLQPGDLLVNEGGSWPGRAAVWSGEIEEIYYQKALHRIRPRGME 179

Query: 329 DSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
            + +L + + + +  KVF   G S     L  E ++      P + EQ      +    A
Sbjct: 180 STWWLYFCLVAAERMKVFQVQGNSSTMTHLTREQLRPQRFPFPDLAEQEQAVERLKDAEA 239

Query: 388 RIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           +   +   + +    L ERR + I AAVTG+ D+
Sbjct: 240 KDRQIRRVLSRQQATLAERRQALITAAVTGEFDV 273



 Score = 77.9 bits (190), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 36/211 (17%), Positives = 79/211 (37%), Gaps = 9/211 (4%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSE-----SGKDIIYIGLEDVESGTGKYLP 65
           + SG+ W+G++P HW+V  +  + ++  G+              Y+ + +V+ G      
Sbjct: 62  RPSGLSWLGSVPVHWRVAAVSHYFEVELGKMLNQERARGDHLRPYLRVANVQWGVVDTTE 121

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD---FDGICSTQFLVLQPKDVLPE 122
                   +         G +L  + G +  +A +      +         ++P+ +   
Sbjct: 122 LAMMDFPPEEQKRYRLQPGDLLVNEGGSWPGRAAVWSGEIEEIYYQKALHRIRPRGMEST 181

Query: 123 LLQGWLLSIDVTQRIEAIC-EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
               + L      ++  +    +TM+H   + +     P P LAEQ    E++     + 
Sbjct: 182 WWLYFCLVAAERMKVFQVQGNSSTMTHLTREQLRPQRFPFPDLAEQEQAVERLKDAEAKD 241

Query: 182 DTLITERIRFIELLKEKKQALVSYIVTKGLN 212
             +     R    L E++QAL++  VT   +
Sbjct: 242 RQIRRVLSRQQATLAERRQALITAAVTGEFD 272


>gi|254234631|ref|ZP_04927954.1| hypothetical protein PACG_00495 [Pseudomonas aeruginosa C3719]
 gi|126166562|gb|EAZ52073.1| hypothetical protein PACG_00495 [Pseudomonas aeruginosa C3719]
          Length = 416

 Score = 98.7 bits (244), Expect = 1e-18,   Method: Composition-based stats.
 Identities = 53/413 (12%), Positives = 125/413 (30%), Gaps = 28/413 (6%)

Query: 29  PIKRFTKLNTGRTSES--------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
            + +   +  G++           G D  +    DV+              +   +   +
Sbjct: 9   KLDQLGFVGRGKSKHRPRNDPSLYGGDYPFFQTGDVKGAELYLRCFSATYNEKGLAQSKL 68

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
           +  G +    +   +    I    G      +         ++         +   +++I
Sbjct: 69  WQPGTLCIT-IAANIADTSILSIPGCFPDSVVGFVADPQRSDVFFVKYYLDTLKNAMQSI 127

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
             G T  +   + + +    +PP+ EQ  I   ++A    I+              E  +
Sbjct: 128 SHGTTQDNLSLEKLLSFDFWVPPVEEQRKIASVLLAYDDLIENNTRRIEILE----EMAR 183

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPF---FALVTELNRKNTKLIESNIL 257
            L      +   P  +  +     +GL+P  W V        L+T+   K+    E+ + 
Sbjct: 184 RLYEEWFVQFRFPGHEGVEFKESELGLIPKSWSVVKLEEICDLITDGAHKSPPTAETGMP 243

Query: 258 SLSYGNIIQKL----ETRNMGLKPESYETYQIVDP--GEIVFRFIDLQNDKRSLRSAQVM 311
             S  ++        + R +              P  G+++         K      +  
Sbjct: 244 MASVKDMHDWGVDVSKCRKISRSDYDELVRNNCKPMIGDVLVAKDGSYL-KHIFSVEKDQ 302

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVP 370
           +  +++S  +    +   S  L  L+R  +         SG     +  +D ++  ++ P
Sbjct: 303 DLVLLSSIAILRPINKSVSDLLVCLLRHPETIARMKGCVSGVAIPRIILKDFRKFQIVFP 362

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
               Q       +        LV+K       L+ +R   +   ++G+ID+  
Sbjct: 363 SQDLQEAWLATASPLMRLCRKLVDKN----ANLRAQRDLLLPKLISGEIDVSD 411



 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 33/206 (16%), Positives = 64/206 (31%), Gaps = 13/206 (6%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKYL 64
           ++K+S    +G IPK W VV ++    L T    +S       +    ++D+        
Sbjct: 202 EFKESE---LGLIPKSWSVVKLEEICDLITDGAHKSPPTAETGMPMASVKDMHDWGVDVS 258

Query: 65  P-KDGNSRQSDTSTVSIFAK--GQILYGKLGPYLRKAIIADFD---GICSTQFLVLQPKD 118
             +  +    D    +      G +L  K G YL+     + D    + S+  ++     
Sbjct: 259 KCRKISRSDYDELVRNNCKPMIGDVLVAKDGSYLKHIFSVEKDQDLVLLSSIAILRPINK 318

Query: 119 VLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
            + +LL   L   +   R++    G  +     K      +  P    Q           
Sbjct: 319 SVSDLLVCLLRHPETIARMKGCVSGVAIPRIILKDFRKFQIVFPSQDLQEAWLATASPLM 378

Query: 179 VRIDTLITERIRFIELLKEKKQALVS 204
                L+ +              L+S
Sbjct: 379 RLCRKLVDKNANLRAQRDLLLPKLIS 404


>gi|317014200|gb|ADU81636.1| type I restriction-modification methylase [Helicobacter pylori
           Gambia94/24]
          Length = 404

 Score = 98.7 bits (244), Expect = 1e-18,   Method: Composition-based stats.
 Identities = 52/389 (13%), Positives = 107/389 (27%), Gaps = 22/389 (5%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           PK      +     +  G+       + Y     +  G   Y     N   +D       
Sbjct: 13  PKGVGFRKLGEVINILKGKQLNKELLLDYGKYPVMNGGI--YASGYWNEYNTDYPK---- 66

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
               I+  + G                     ++           +    +    +    
Sbjct: 67  ----IIISQGGASAGYVNYMTSKFWAGAHCYTIELNSEKLNYKFLYYFLKNSQTILMKSQ 122

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            GA +   +   I  + +PIPPL  Q  I   + A T     L TE     +  +  +  
Sbjct: 123 FGAGIPALNKADIETLTIPIPPLEIQQEIVTILDAFTELNTELNTELNARKKQYEYYQNM 182

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
           L+        N   +      E +   P    +K     +        KL E        
Sbjct: 183 LLD------FNDINQSHKDAKEKLAQKPYPKRLKQLLHTLAPKGVGFRKLGEVCDFQKGK 236

Query: 262 GNIIQKLETRNMGLKPESYET--YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
               + +    + +     +   Y            I          S   +   +  S 
Sbjct: 237 SITKKAVTFGKVPVISGGRQPAYYHNEANRSGETIAISSSGVYAGYVSYWDIPVFLADSF 296

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
            ++ K   +   YL + + +     +     +G    +  +D++   + +PP++ Q +I 
Sbjct: 297 SVSPKQKTLMPKYLFYYLTTQQ-DAIHATKSTGGIPHVYSKDLQNFLIPIPPLEIQQEIV 355

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRS 408
            +++  +A    L   I   I   K R+ 
Sbjct: 356 TILDQFSALTTDLQAGIPAEI---KARKK 381


>gi|254414393|ref|ZP_05028159.1| Type I restriction modification DNA specificity domain protein
           [Microcoleus chthonoplastes PCC 7420]
 gi|196178623|gb|EDX73621.1| Type I restriction modification DNA specificity domain protein
           [Microcoleus chthonoplastes PCC 7420]
          Length = 411

 Score = 98.7 bits (244), Expect = 1e-18,   Method: Composition-based stats.
 Identities = 64/420 (15%), Positives = 138/420 (32%), Gaps = 29/420 (6%)

Query: 23  KHWKVVPIKRFTKLNTGRTSES--------GKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
             W    +     L  G++           G    +I   D+ +             ++ 
Sbjct: 2   SEWNEFYLSDVGTLARGKSKHRPRWADHLYGGPYPFIQTGDISAANKYINTYRQTYSEAG 61

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
            +   ++ KG  L   +   + +  I +         L   P     +L   +     + 
Sbjct: 62  LAQSKLWDKGT-LCITIAANIAEIAILELPACFPDSVLGFIPNPEKVDLNFVFYTLTFLK 120

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
            RI+ +  G+   + +     NI    P + +Q  I   +     +I+ L  +      +
Sbjct: 121 ARIQNLAIGSVQENINLGTFKNIKFFFPSVKKQKEIASVLSCLDRKIENLRKQNDTLEAI 180

Query: 195 LKEKKQALVSYIVTKGLNPD---VKMKDSG----IEWVGLVPDHWEVKPFFALVTEL--- 244
                Q L  +       P+      K SG       +G +P  W V     +V      
Sbjct: 181 A----QTLFKHWFVDFEFPNADGKPYKSSGGAMEPSELGEIPAGWRVGKLGDVVKVNAES 236

Query: 245 NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
             K+ +  E   + +S   I     T +   K       ++V  G++++  +   N K  
Sbjct: 237 ISKSYQHKEIEYVDISSVGIGVLEGTTSYLFKNAPSRARRLVKHGDVIWSGVRP-NRKSY 295

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVK 363
           L  +   E  ++++ ++ + P  I S+YL   + +    +      SG    ++K E  +
Sbjct: 296 LFISHPPENLVVSTGFITLTPDSIPSSYLYSWVTTESFVEYLTFNASGSAYPAIKAEHFE 355

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
              VL+P          VI     +I        + +  L + R   +   ++G++ ++ 
Sbjct: 356 IADVLLPDKFNLTKFHAVIEPMREKIHQ----NSRQLQTLTKTRDLLLPKLMSGKLRIKP 411



 Score = 63.7 bits (153), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 33/204 (16%), Positives = 70/204 (34%), Gaps = 10/204 (4%)

Query: 10  YKDSG--VQ--WIGAIPKHWKVVPIKRFTKLNTGRTSES--GKDIIYIGLEDVESGTGKY 63
           YK SG  ++   +G IP  W+V  +    K+N    S+S   K+I Y+ +  V  G  + 
Sbjct: 202 YKSSGGAMEPSELGEIPAGWRVGKLGDVVKVNAESISKSYQHKEIEYVDISSVGIGVLE- 260

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAII---ADFDGICSTQFLVLQPKDVL 120
                  + + +    +   G +++  + P  +  +       + + ST F+ L P  + 
Sbjct: 261 GTTSYLFKNAPSRARRLVKHGDVIWSGVRPNRKSYLFISHPPENLVVSTGFITLTPDSIP 320

Query: 121 PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
              L  W+ +    + +     G+       +      + +P           I     +
Sbjct: 321 SSYLYSWVTTESFVEYLTFNASGSAYPAIKAEHFEIADVLLPDKFNLTKFHAVIEPMREK 380

Query: 181 IDTLITERIRFIELLKEKKQALVS 204
           I     +     +        L+S
Sbjct: 381 IHQNSRQLQTLTKTRDLLLPKLMS 404


>gi|320321657|gb|EFW77756.1| restriction modification system DNA specificity domain [Pseudomonas
           syringae pv. glycinea str. B076]
          Length = 567

 Score = 98.7 bits (244), Expect = 1e-18,   Method: Composition-based stats.
 Identities = 65/486 (13%), Positives = 130/486 (26%), Gaps = 91/486 (18%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +P  WK   + +   +N    +    ++ ++ +  + +       ++           +
Sbjct: 82  ELPAGWKWSSLAQVAFVNPRNAAADSLEVSFVPMTFIGTRFDDQHGQEPRLWGELKQGFT 141

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICST--------QFLVLQPKDVLPELLQGWLLSI 131
            FA+G I   K+ P    +    F  + +           +      + P  +  +L S 
Sbjct: 142 HFAEGDIGVAKITPCFENSKACVFSNLLNGLGAGTTELHIVRPITGTLDPRYVLAYLKSP 201

Query: 132 DVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID-------- 182
                 E    G           +   P P+PPLAEQ  I  K+       D        
Sbjct: 202 QFLLVGETKMTGTAGQKRLPKDFVEANPFPLPPLAEQHRIIAKVDELMALCDRLEAQQAD 261

Query: 183 ---------------------------------TLITERIRFIELLKEKKQALVSYIVTK 209
                                                        +   KQ L+   V  
Sbjct: 262 AESAHTQLVQALLDSLTQASDATDFATNWQRLAEHFHTLFTTEPSIDALKQTLLQLAVMG 321

Query: 210 GLNPDVKMKDSGIEWVGLV-------------------------------PDHWEVKPFF 238
            L P     +   E +  +                               P  WE     
Sbjct: 322 KLVPQDSSDEPASELIKKIESEKYRQVKAGKFKPVKQVNGIEAADKPFQLPATWEWARLA 381

Query: 239 A---LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKP-----ESYETYQIVDPGE 290
                +T+        IE  +  LS  ++       N          E          G+
Sbjct: 382 DVAFQITDGAHHTPTYIEFGVPFLSVKDMSGGSLGFNATRYISEDAHEQLTKRCHPQRGD 441

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG 350
           ++   I        +          ++   +      ++ +YL  L+ S  + K      
Sbjct: 442 LLLTKIGTTG-VPVIVDTDRPFSIFVSVGLIKAPWDHLNVSYLQLLISSPFVKKQSLDGT 500

Query: 351 SGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
            G+  ++L    +    + +PP+ EQ  I   ++      D L  ++ Q+  L ++  S+
Sbjct: 501 EGVGNKNLVLRKIANFLIAIPPLAEQHRIVIKVDELMTLCDQLKIRLTQARQLNEQLAST 560

Query: 410 FIAAAV 415
            +  AV
Sbjct: 561 LVEQAV 566



 Score = 68.3 bits (165), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 30/218 (13%), Positives = 65/218 (29%), Gaps = 9/218 (4%)

Query: 206 IVTKGLNPDVKMKDSGIE-WVGLVPDHWEVKPFFALVTELNRKN--TKLIESNILSLSYG 262
            V + +     + + G E     +P  W+      +     R      L  S +     G
Sbjct: 60  AVERKIKKKKPLAEVGEEAQPFELPAGWKWSSLAQVAFVNPRNAAADSLEVSFVPMTFIG 119

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS---- 318
                   +   L  E  + +     G+I    I    +         +  G+       
Sbjct: 120 TRFDDQHGQEPRLWGELKQGFTHFAEGDIGVAKITPCFENSKACVFSNLLNGLGAGTTEL 179

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLC--KVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
             +      +D  Y+   ++S            G+  ++ L  + V+  P  +PP+ EQ 
Sbjct: 180 HIVRPITGTLDPRYVLAYLKSPQFLLVGETKMTGTAGQKRLPKDFVEANPFPLPPLAEQH 239

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAA 414
            I   ++   A  D L  +   +     +   + + + 
Sbjct: 240 RIIAKVDELMALCDRLEAQQADAESAHTQLVQALLDSL 277


>gi|330969619|gb|EGH69685.1| type I restriction-modification system, S subunit [Pseudomonas
           syringae pv. aceris str. M302273PT]
          Length = 432

 Score = 98.7 bits (244), Expect = 1e-18,   Method: Composition-based stats.
 Identities = 66/407 (16%), Positives = 142/407 (34%), Gaps = 27/407 (6%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            IP  W ++           + S SGK +     + +  G    + +  +         +
Sbjct: 5   DIPASWLILDFNEIFS----QVSTSGKKVK--SADVLTEGRFPVVDQGRSFISGYLDDAN 58

Query: 80  IF---AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
           +     K  I++   G + R+    DF  I     + +       +    +    ++   
Sbjct: 59  LVVSENKPLIIF---GDHTREIKWIDFPFIPGADGVQILKPHPEMDTRFLYYFLRNLPIE 115

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
                    +       + +    +PPLAEQ  I  K+     ++DTL         LLK
Sbjct: 116 SRGYARHFKI-------VKDAAYLVPPLAEQTRIAAKLDELLAQVDTLKACIDGIPSLLK 168

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
             +Q++++  V+  L  + +                      A   +   K  + ++S I
Sbjct: 169 RFRQSVLAAAVSGRLTDEWRGAVRENSDGQGFSYPVRRLGVIARFIDYRGKTPEKVDSGI 228

Query: 257 LSLSYGNIIQKLETR--NMGLKPESYETYQ---IVDPGEIVFRFIDLQNDKRSLRSAQVM 311
             ++  NI     +R     ++PE+YE++    I   G+++        +   +   +  
Sbjct: 229 PLITAKNIKSGYISRVPREFIRPEAYESWMTRGIPKVGDVLITTEAPLGNVAVIDITE-- 286

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVP 370
           +  +   A       G  S++ A  ++S  L +      +G   + +K   +K + +  P
Sbjct: 287 KFALAQRAICLQFHEGYSSSFAAITLQSSLLQEELARRSTGTTVKGIKASVLKEIGLPAP 346

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
            I EQ +I + +    A  + L  K+ ++   +     S +A A  G
Sbjct: 347 SIDEQNEIVHRVEQLFAYAEQLETKVSEAKKRIDHLAQSILAKAFKG 393



 Score = 62.1 bits (149), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 40/199 (20%), Positives = 82/199 (41%), Gaps = 16/199 (8%)

Query: 226 GLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI 285
             +P  W +  F  + ++++    K+  +++L+     ++ +  +   G   +      +
Sbjct: 4   NDIPASWLILDFNEIFSQVSTSGKKVKSADVLTEGRFPVVDQGRSFISGYLDD---ANLV 60

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV 345
           V   + +  F D   + + +    +     +    +      +D+ +L + +R+  +   
Sbjct: 61  VSENKPLIIFGDHTREIKWIDFPFIPGADGVQ---ILKPHPEMDTRFLYYFLRNLPIESR 117

Query: 346 FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
            YA          F+ VK    LVPP+ EQ  I   ++   A++D L   I+    LLK 
Sbjct: 118 GYAR--------HFKIVKDAAYLVPPLAEQTRIAAKLDELLAQVDTLKACIDGIPSLLKR 169

Query: 406 RRSSFIAAAVTGQIDLRGE 424
            R S +AAAV+G   L  E
Sbjct: 170 FRQSVLAAAVSG--RLTDE 186


>gi|168488197|ref|ZP_02712396.1| type I site-specific deoxyribonuclease chain S [Streptococcus
           pneumoniae SP195]
 gi|183572997|gb|EDT93525.1| type I site-specific deoxyribonuclease chain S [Streptococcus
           pneumoniae SP195]
          Length = 521

 Score = 98.7 bits (244), Expect = 2e-18,   Method: Composition-based stats.
 Identities = 65/438 (14%), Positives = 140/438 (31%), Gaps = 66/438 (15%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNSR 71
            IP  W+ V      ++  G +    KD        I +I + D E G           +
Sbjct: 83  DIPDTWEWVRFSTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINNVKEKIK 142

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
           +S  +      KG  L      + R  I+     I      +   ++ L +    ++LS 
Sbjct: 143 KSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYLFYILSS 202

Query: 132 D-VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
           + V  +  ++  GA + + +   + +I +P+PPLAEQ  I E I +   ++D       R
Sbjct: 203 NVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLAEQQRIIEAIESALEKVDEYAESYNR 262

Query: 191 FIELLKEKK----QALVSYIVTKGLNPDVKMKDS-------------------------- 220
             +L K+      ++++ Y +   L       +S                          
Sbjct: 263 LEQLDKKFPDKLKKSILQYAMQGKLVEQDPNDESVEVLLEKIRAEKQKLFEEGKIKKKDL 322

Query: 221 ---------GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETR 271
                       + G +P +W V     + +     + K  + +I +     II+    +
Sbjct: 323 DISIVSQGDDNSYYGNIPMNWVVIKIKDIFSMNTGLSYKKGDLSINN-KGVRIIRGGNIK 381

Query: 272 NMGLKPESYETYQ----------IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
            +       + Y            +   +++                     G++   ++
Sbjct: 382 PLEFSLLDNDYYIDTQFISSEQVYLKHNQLITPVSTSLEHIGKFARIDKDYDGVVAGGFI 441

Query: 322 A----VKPHGIDSTYLAWLMRSYDLCKVFY---AMGSGLRQSLKFEDVKRLPVLVPPIKE 374
                 +   I S +L + + S    K       +      ++    +  L + + P +E
Sbjct: 442 FQLTPFESSEIISKFLLFNLSSPLFYKQLKAITKLSGQALYNIPKTTLSELLIPLAPFEE 501

Query: 375 QFDITNVINVETARIDVL 392
           Q  IT  +     +++ L
Sbjct: 502 QELITQKVEKLFEKVNQL 519



 Score = 77.5 bits (189), Expect = 4e-12,   Method: Composition-based stats.
 Identities = 41/211 (19%), Positives = 81/211 (38%), Gaps = 14/211 (6%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
            I+    +PD WE   F  LV  +   + + I+  + S   G    K+     G K  + 
Sbjct: 77  EIDVPYDIPDTWEWVRFSTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINN 136

Query: 281 ETYQIVDPG-----EIVFRFIDLQNDKRSLRSAQVMERGIITSAY--MAVKPHGIDSTYL 333
              +I   G      +      L N     R   +   G I   +  ++   + ++  YL
Sbjct: 137 VKEKIKKSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYL 196

Query: 334 AWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            +++ S  +   F ++ SG   ++L  + V  + + +PP+ EQ  I   I     ++D  
Sbjct: 197 FYILSSNVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLAEQQRIIEAIESALEKVDEY 256

Query: 393 VEKIEQSIVLL-----KERRSSFIAAAVTGQ 418
            E   + +  L      + + S +  A+ G+
Sbjct: 257 AESYNR-LEQLDKKFPDKLKKSILQYAMQGK 286



 Score = 45.6 bits (106), Expect = 0.014,   Method: Composition-based stats.
 Identities = 36/184 (19%), Positives = 74/184 (40%), Gaps = 17/184 (9%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           G IP +W V+ IK    +NTG + +        K +  I   +++      L  D     
Sbjct: 337 GNIPMNWVVIKIKDIFSMNTGLSYKKGDLSINNKGVRIIRGGNIKPLEFSLLDNDYYIDT 396

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIA-----DFDGICSTQFLV----LQPKDVLPEL 123
              S+  ++ K   L   +   L           D+DG+ +  F+      +  +++ + 
Sbjct: 397 QFISSEQVYLKHNQLITPVSTSLEHIGKFARIDKDYDGVVAGGFIFQLTPFESSEIISKF 456

Query: 124 LQGWLLSIDVTQRIEAICE--GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
           L   L S    ++++AI +  G  + +     +  + +P+ P  EQ LI +K+     ++
Sbjct: 457 LLFNLSSPLFYKQLKAITKLSGQALYNIPKTTLSELLIPLAPFEEQELITQKVEKLFEKV 516

Query: 182 DTLI 185
           + L 
Sbjct: 517 NQLW 520


>gi|93006186|ref|YP_580623.1| restriction modification system DNA specificity subunit
           [Psychrobacter cryohalolentis K5]
 gi|92393864|gb|ABE75139.1| restriction modification system DNA specificity domain
           [Psychrobacter cryohalolentis K5]
          Length = 453

 Score = 98.7 bits (244), Expect = 2e-18,   Method: Composition-based stats.
 Identities = 65/457 (14%), Positives = 135/457 (29%), Gaps = 65/457 (14%)

Query: 23  KHWKVVPIKRFTKLNTGRTSES------------GKDIIYIGLEDVESGTGKYLPK-DGN 69
             W    +    KL  G                  + I  I   ++ +            
Sbjct: 3   SDWVKTTLGEIVKLGNGIIQTGPFGSQLHASDYVDEGIPVIMPLNIINNKIDLSGIARIT 62

Query: 70  SRQSDTSTVSIFAKGQILYGKLGPYLRKAIIA--DFDGICSTQFLVLQPKDVLPELLQGW 127
              ++  +  +  K  I+Y + G   RKA+I   +    C T  L+++P + +      +
Sbjct: 63  KEDAERLSKHLVKKNDIVYSRRGDVTRKALITELEEGMFCGTGCLLVRPGNSIDARFLTY 122

Query: 128 L-LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
              S    + I     GATM + +   +  +P+ IP L  Q  I   + +   +I+    
Sbjct: 123 HLSSPINQEWIIRHAVGATMPNLNTGILKRVPLNIPSLDTQKAIAHILGSLDDKIELNRQ 182

Query: 187 ERIRFIELLKEKKQA-------LVSYIVTKG-------------LNPDVKMKDSGI---- 222
                  + +   ++       L+   +  G                  K  +S I    
Sbjct: 183 MNETLEAMAQALFKSWFVDFDPLIDNALAAGNAIPDEFIERAEQRKKIEKKDNSDIQDLF 242

Query: 223 -------EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL 275
                  E +G +P  WE      + +    K      +    +S  N+ ++    +   
Sbjct: 243 PDAFEFAEEMGWIPKGWENGILADICSYGKGKINTSELTLENYVSTENMNKEKSGISHAA 302

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
              S         G+ +   I     K  L S      G           + + + YL  
Sbjct: 303 NIASTNQVPKFSVGQTLISNIRPYFKKIWLASFSG---GRSNDVLSFQAHNSVANEYLFN 359

Query: 336 LMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
           L+          A   G          +    V +P         + +  E + +   + 
Sbjct: 360 LLYQDSFFDYMTATSKGTKMPRGDKAAIMSWSVAIPS--------SRLMEEFSELAKPMY 411

Query: 395 KIE-----QSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
                   Q+I L K  R + ++  ++G++ +   ++
Sbjct: 412 LANNLRSLQTIELAK-LRDTLLSKLMSGELCIPDAAR 447



 Score = 43.6 bits (101), Expect = 0.062,   Method: Composition-based stats.
 Identities = 36/148 (24%), Positives = 56/148 (37%), Gaps = 9/148 (6%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           G IPK W+   +        G+ + S      + LE+  S       K G S  ++ ++ 
Sbjct: 253 GWIPKGWENGILADICSYGKGKINTSE-----LTLENYVSTENMNKEKSGISHAANIAST 307

Query: 79  SIFAK---GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL-PELLQGWLLSIDVT 134
           +   K   GQ L   + PY +K  +A F G  S   L  Q  + +  E L   L      
Sbjct: 308 NQVPKFSVGQTLISNIRPYFKKIWLASFSGGRSNDVLSFQAHNSVANEYLFNLLYQDSFF 367

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIP 162
             + A  +G  M   D   I +  + IP
Sbjct: 368 DYMTATSKGTKMPRGDKAAIMSWSVAIP 395


>gi|304569708|ref|YP_010923.2| type I restriction-modification enzyme, S subunit [Desulfovibrio
           vulgaris str. Hildenborough]
 gi|311233889|gb|ADP86743.1| restriction modification system DNA specificity domain protein
           [Desulfovibrio vulgaris RCH1]
          Length = 416

 Score = 98.7 bits (244), Expect = 2e-18,   Method: Composition-based stats.
 Identities = 56/416 (13%), Positives = 138/416 (33%), Gaps = 26/416 (6%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLP-KDGNSRQS 73
           +P+ W+   I     + +G   +S         I  +  +++  G  ++   K   ++  
Sbjct: 2   VPEGWRADIIGNHISIVSGYPFKSHEYTDNSDGIRLLRGDNIAQGYIRWSGCKRWINKDK 61

Query: 74  DTSTVSIFAKGQILYGKLGPY------LRKAIIADFDGICSTQFLVLQPKD-VLPELLQG 126
                       ++      +      + +    D   +   +   L+ KD  + ELL+ 
Sbjct: 62  INVERFALKPADLVIAMDRTWVSSGLKISEIRHEDCPSLLVQRVSRLRSKDSFVQELLKQ 121

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
              S    Q ++++     + H   + I   P+ +PPL EQ  I   +       D  I 
Sbjct: 122 IFNSFRFEQYVKSVQTETAVPHISAQQIKEFPILLPPLTEQKKIARIL----STWDKAIE 177

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
              + IE  K++K+AL+  ++T          +     +G +                  
Sbjct: 178 TVDKLIENSKQQKKALMQQLLTGKKRLPGFSGEWKEVRLGDLFQVTIGGTPSRKNNAYWD 237

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
           +        +      N         +     +    +++    ++  F      +   +
Sbjct: 238 QLKASGNKWVAISDLKNKFLVETNEYITDAGAANSNVKLIPRLTVIMSFKLTIGKRAITK 297

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLP 366
           +       I   A++    + ID+ +    +   DL +       G  +++    + ++ 
Sbjct: 298 TQCYTNEAIC--AFIPKHKNEIDTNFFYHHLGIIDLVQDVDQAVKG--KTINKSKIMKIR 353

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
             +P + EQ  I   I     +     + ++  I L+KE + + +   +TG+  ++
Sbjct: 354 TKLPNLLEQIAIAQRIEAFDLQ---QEDYLKTRIFLVKE-KQALMQQLLTGKRRVK 405



 Score = 93.3 bits (230), Expect = 6e-17,   Method: Composition-based stats.
 Identities = 25/167 (14%), Positives = 59/167 (35%), Gaps = 8/167 (4%)

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG---IITSA 319
             I+    +    K +       + P ++V              S    E     ++   
Sbjct: 46  GYIRWSGCKRWINKDKINVERFALKPADLVIAMDRTWVSSGLKISEIRHEDCPSLLVQRV 105

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPPIKEQFDI 378
                        L  +  S+   +   ++ +      +  + +K  P+L+PP+ EQ  I
Sbjct: 106 SRLRSKDSFVQELLKQIFNSFRFEQYVKSVQTETAVPHISAQQIKEFPILLPPLTEQKKI 165

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGES 425
             +++      D  +E +++ I   K+++ + +   +TG+  L G S
Sbjct: 166 ARILSTW----DKAIETVDKLIENSKQQKKALMQQLLTGKKRLPGFS 208


>gi|313639652|gb|EFS04448.1| restriction modification system DNA specificity subunit [Listeria
           seeligeri FSL S4-171]
          Length = 431

 Score = 98.7 bits (244), Expect = 2e-18,   Method: Composition-based stats.
 Identities = 52/417 (12%), Positives = 124/417 (29%), Gaps = 34/417 (8%)

Query: 23  KHWKVVPIKRFTKLNTGR----TSESGKDIIYIGLEDVES-----GTGKYLPKDGNSRQS 73
             W+   +     + + +    +  + K + ++   D+ S        +YL         
Sbjct: 20  NDWEQRKLGGLMNITSVKRIHQSDWTDKGVRFLRARDIVSASKGKNPSEYLYISKKLYDE 79

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFD--GICSTQFLVLQPKDVLPELLQGWLLS- 130
            +        G +L   +G      +I   +         +  Q K  +      +  + 
Sbjct: 80  HSKISGKVGVGDLLVTGVGSIGIPMLIKHEEPLYFKDGNIIWFQNKKNIDGGFFYYSFNS 139

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
             + + I       T+        G  P+ +P   EQ  I         ++D  I    R
Sbjct: 140 HSIQKFIRDSAGIGTVGTYTIDSGGKTPIYLPNKKEQQRIGTF----FKQLDNTIALHQR 195

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
            +E +K  K A +S +         + + +G            V  F      L+R    
Sbjct: 196 KLEKIKALKTAYLSEMFPAEGELKPRRRFAGFTDDWEQRKLMSVFEFPVSTNSLSRSQLN 255

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKP---------ESYETYQIVDPGEIVFRFIDLQND 301
                I S+ YG+I+   ++     K                 +++ G+++F        
Sbjct: 256 YDNGEIKSVHYGDILVNYDSILEIAKDRIPFITNGVIDKYKPNLLENGDLIFADAAEDET 315

Query: 302 KRSLRSAQVMERGIITSA---YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSL 357
                         I +     +A     +   +  + + S         +  G    S+
Sbjct: 316 VGKAVEVDGKTNEYIVAGLHTIVARPRRKMAKFFWGYYINSSIYHNQLLRLMQGTKVASI 375

Query: 358 KFEDVKRLPVLVPP-IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
              ++++  +  P    EQ  + N       ++D  +   ++ +  L+  + +++  
Sbjct: 376 SKSNLQKTCIAYPDNFAEQQKLGNF----FKQLDNTITLHQRKLKKLQNIKKAYLNE 428


>gi|257465469|ref|ZP_05629840.1| restriction modification system DNA specificity subunit
           [Actinobacillus minor 202]
 gi|257451129|gb|EEV25172.1| restriction modification system DNA specificity subunit
           [Actinobacillus minor 202]
          Length = 374

 Score = 98.7 bits (244), Expect = 2e-18,   Method: Composition-based stats.
 Identities = 48/406 (11%), Positives = 125/406 (30%), Gaps = 55/406 (13%)

Query: 24  HWKVVPIKRFTKLNTGRTSE-----SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
            W+ V +       T  + +     S     +I + ++       L  D       +++ 
Sbjct: 7   GWESVRLGDIAITVTSGSRDWAQYYSDTGAKFIRMTNLNRNGITLLLDDLKFVNVQSNSA 66

Query: 79  SI----FAKGQILYGKLGPYLRKAIIADFDG--ICSTQ--FLVLQPKDVLPELLQGWLLS 130
            +         IL        +   I +  G    +     + + P     + +   L S
Sbjct: 67  DVKRTSLQANDILISITAELGKIGFIPENFGEAYINQHTALIRIDPNKAHAKFIAYVLSS 126

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
           + + + I ++ +    +  +   I  + + +P + EQ+ I E +       D  I    +
Sbjct: 127 VAINKTINSLNDAGAKAGLNLPTIKALSLKLPSIEEQIQITETL----STWDNAIQTTEK 182

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
            +E  +++K+AL+  ++                  G   +  +++    +VT     N  
Sbjct: 183 LLENTRQQKKALMQKLL-----------------NGKDWEETKLQNLCKIVTGKKDVNEG 225

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
             +      +        ++ +   +                   +   N      +   
Sbjct: 226 NDKGIYPFFTCAKEHTYSDSYSFECE-----------------ALLIAGNGVVGQTTYYK 268

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP 370
            +       Y+  +  GI+  YL   ++ +    +      G    +K   +    V +P
Sbjct: 269 GKFEAYQRTYVLYEFKGINVQYLYQYIKWHLQKDIEREKQHGAMPYIKLGLLTDFVVKLP 328

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
              EQ  I  +++     I+ L    ++ +  LK  + + +   + 
Sbjct: 329 KSNEQQKIAEILSTADQEIETL----QRKLECLKLEKGALMQRLLR 370



 Score = 80.6 bits (197), Expect = 5e-13,   Method: Composition-based stats.
 Identities = 19/146 (13%), Positives = 57/146 (39%), Gaps = 9/146 (6%)

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD 341
               +   +I+            +            +A + + P+   + ++A+++ S  
Sbjct: 69  KRTSLQANDILISITAELGKIGFIPENFGEAYINQHTALIRIDPNKAHAKFIAYVLSSVA 128

Query: 342 LCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
           + K   ++  +G +  L    +K L + +P I+EQ  IT  ++      D  ++  E+ +
Sbjct: 129 INKTINSLNDAGAKAGLNLPTIKALSLKLPSIEEQIQITETLSTW----DNAIQTTEKLL 184

Query: 401 VLLKERRSSFIAAAVTGQIDLRGESQ 426
              ++++ + +   + G+       +
Sbjct: 185 ENTRQQKKALMQKLLNGK----DWEE 206



 Score = 46.7 bits (109), Expect = 0.007,   Method: Composition-based stats.
 Identities = 29/182 (15%), Positives = 56/182 (30%), Gaps = 15/182 (8%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGK-YLPKDGNSRQSDTSTVSIF 81
           K W+   ++   K+ TG+             +DV  G  K   P    +++   S    F
Sbjct: 202 KDWEETKLQNLCKIVTGK-------------KDVNEGNDKGIYPFFTCAKEHTYSDSYSF 248

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
               +L    G  + +            +  VL     +        +   + + IE   
Sbjct: 249 ECEALLIAGNG-VVGQTTYYKGKFEAYQRTYVLYEFKGINVQYLYQYIKWHLQKDIEREK 307

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
           +   M +     + +  + +P   EQ  I E +      I+TL  +            Q 
Sbjct: 308 QHGAMPYIKLGLLTDFVVKLPKSNEQQKIAEILSTADQEIETLQRKLECLKLEKGALMQR 367

Query: 202 LV 203
           L+
Sbjct: 368 LL 369


>gi|317179608|dbj|BAJ57396.1| Type I R-M system specificity subunit [Helicobacter pylori F30]
          Length = 388

 Score = 98.7 bits (244), Expect = 2e-18,   Method: Composition-based stats.
 Identities = 47/379 (12%), Positives = 115/379 (30%), Gaps = 24/379 (6%)

Query: 46  KDIIYIGLEDVESGTGKYLPKDGNSRQSDTS-TVSIFAKGQILYGKLGPYLRKAIIADFD 104
             I +I  +D       Y        +        +  +  +L    G     A+     
Sbjct: 28  NYIPFIQNKDFLGHYINYKTDYFIPNEIAIRFPQILLNEKCLLISISGAIGNVAVFNHSQ 87

Query: 105 -GICSTQFLVLQPKDVLP-ELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIP 162
                    VL+ K+    + +  +L+S    + +    + ++  +     + ++ +P+P
Sbjct: 88  DAFTGGAIAVLKFKEKKSLDFVMHFLMSASGQKLLLNGVKSSSHKNLTIADLRDLLIPLP 147

Query: 163 PLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGI 222
           PL EQ+ I   +      +          I   +  K++L   ++++        +    
Sbjct: 148 PLNEQIAIANILSGLDRYL----CALDALILKKESVKKSLSFELLSQRKRLKGFNQAWQR 203

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET 282
             +G +      K      T    +            ++GN      ++ + L+  +   
Sbjct: 204 VRLGDIGKPCMCKRVMKHQTTRYGEIPFYKIG-----TFGNTADAFISKKLFLEYRT--K 256

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
           Y     G+I+                   +      + +    +        +L  +Y  
Sbjct: 257 YSFPKKGDILISASGT----IGKAVIYDGKPAYFQDSNIVWIDNDETLVKNDFLFYAYSN 312

Query: 343 CKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
            K            L  ++ +   + +PP+ EQ  I NV++     I  L  K  Q    
Sbjct: 313 VKW--NTEHTTILRLYNDNFRNTLIPLPPLNEQSAIANVLSALDNEIISLKNKKRQ---- 366

Query: 403 LKERRSSFIAAAVTGQIDL 421
            +  + +     ++ +I +
Sbjct: 367 FENIKKALNHDLMSAKIRV 385



 Score = 65.6 bits (158), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 26/181 (14%), Positives = 62/181 (34%), Gaps = 11/181 (6%)

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
              I         G+ I       +  +        +++   ++        +      +
Sbjct: 27  PNYIPFIQNKDFLGHYINYKTDYFIPNEIAIRFPQILLNEKCLLISISGAIGNVAVFNHS 86

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVL 368
           Q    G   +     +   +D   + +LM +     +   + S   ++L   D++ L + 
Sbjct: 87  QDAFTGGAIAVLKFKEKKSLD-FVMHFLMSASGQKLLLNGVKSSSHKNLTIADLRDLLIP 145

Query: 369 VPPIKEQFDITNVINVETAR---IDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGES 425
           +PP+ EQ  I N+++        +D L+ K E         + S     ++ +  L+G +
Sbjct: 146 LPPLNEQIAIANILSGLDRYLCALDALILKKESV-------KKSLSFELLSQRKRLKGFN 198

Query: 426 Q 426
           Q
Sbjct: 199 Q 199



 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 32/185 (17%), Positives = 56/185 (30%), Gaps = 10/185 (5%)

Query: 25  WKVVPIKRF-----TKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           W+ V +         K      +    +I +  +    +    ++ K         +  S
Sbjct: 201 WQRVRLGDIGKPCMCKRVMKHQTTRYGEIPFYKIGTFGNTADAFISKKLFL--EYRTKYS 258

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
              KG IL    G   +  I            +V        E L            ++ 
Sbjct: 259 FPKKGDILISASGTIGKAVIYDGKPAYFQDSNIVWI---DNDETLVKNDFLFYAYSNVKW 315

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
             E  T+         N  +P+PPL EQ  I   + A    I +L  ++ +F  + K   
Sbjct: 316 NTEHTTILRLYNDNFRNTLIPLPPLNEQSAIANVLSALDNEIISLKNKKRQFENIKKALN 375

Query: 200 QALVS 204
             L+S
Sbjct: 376 HDLMS 380


>gi|149203432|ref|ZP_01880402.1| restriction modification system DNA specificity domain [Roseovarius
           sp. TM1035]
 gi|149143265|gb|EDM31304.1| restriction modification system DNA specificity domain [Roseovarius
           sp. TM1035]
          Length = 394

 Score = 98.7 bits (244), Expect = 2e-18,   Method: Composition-based stats.
 Identities = 63/407 (15%), Positives = 132/407 (32%), Gaps = 32/407 (7%)

Query: 27  VVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
            +P+     +  G T   GK       I +  ++D ++ +     +         S  +I
Sbjct: 4   TIPLGELVSIRGGGTPSRGKKEFWGGPIPWATVKDFKTTSLDSTLESITEDGVRKSATNI 63

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
              G I+         KA I   D   +     L PK  +          +  +  +E+ 
Sbjct: 64  VPAGSIVVPTRMAV-GKAAINTIDVAINQDLKALLPKGEIDTR-FLLHFLLSKSNFLESQ 121

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
            +GAT+       + ++P P   L EQ  I   +         +  +R + + L  E   
Sbjct: 122 AQGATVKGIKLDLLKSLPFPDLSLNEQRRIAAILDKADA----IRRKREQALNLADEFLM 177

Query: 201 ALVSYIVTKGL-NPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
           ++   +    + NP    K+     +       +  PF A + +       +    + ++
Sbjct: 178 SVFLEMFGDPIENPHNFPKEKVKLHLSKSRAGTQSGPFGAALKKHEYVPEGIPVWGVENV 237

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
            Y   I K        K      Y  V  G+I+          R   ++   ER II++ 
Sbjct: 238 QYNRFIDKPRLFITEDKFNDLLRYS-VQHGDILISRAGTVG--RMCIASTSEERSIISTN 294

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS--------LKFEDVKRLPVLVPP 371
            + V       T   ++     L          L+ +        L  + +K + + +P 
Sbjct: 295 LIRVALDPASLTAEYFV----SLFSYLPGRVGALKANNKDDAFTFLNPKTLKEIEIPIPD 350

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           + +Q    ++++    R+   + +    +    +  SS    A  G+
Sbjct: 351 MTQQKRFVSILH----RVQHSIRRQGDQLAGFSDLFSSLSQRAFRGE 393


>gi|302880110|ref|YP_003848674.1| restriction modification system DNA specificity domain [Gallionella
           capsiferriformans ES-2]
 gi|302582899|gb|ADL56910.1| restriction modification system DNA specificity domain [Gallionella
           capsiferriformans ES-2]
          Length = 573

 Score = 98.7 bits (244), Expect = 2e-18,   Method: Composition-based stats.
 Identities = 64/481 (13%), Positives = 133/481 (27%), Gaps = 95/481 (19%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDI----IYIGLEDVESGTGKYLPKDGNSRQSDT 75
            +PK W+ V       +  GR  +  + I      + + ++      +  +         
Sbjct: 102 ELPKGWEWVRFADLVNVLNGRAYKKEELIDAGTPVLRVGNL------FTSEHWYYSDLIL 155

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
                  KG +L+     +       D        + +      L      +   ++ TQ
Sbjct: 156 EEDKYCNKGDLLFAWSASFGPFIWDGDKAIYHYHIWKLDLYGGDLLYKRYLYTFLLEQTQ 215

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
           +I+A   G  M H   + +  I + +PPLAEQ  I  K+       D L  +     +  
Sbjct: 216 KIKAAGHGVMMIHMTKEKMEKIVVYLPPLAEQHRIAAKVDELMALCDQLENQHSNAADAH 275

Query: 196 KE-----------------------------------------KKQALVSYIVTKGLNPD 214
           ++                                          KQ L+   V   L P 
Sbjct: 276 EKLVSHLLGTLTQSQSAEDFSANWQRIAAYFDTLFTTDASIDALKQTLLQLAVMGKLVPQ 335

Query: 215 VKMKDSGIEWV-------------GLVPDHWEVKPFFALVTELNRKNTKLI--------- 252
              ++   E +             G +     + P           NT            
Sbjct: 336 DVNEEPASELLKRIHAEKVKLIAEGKMKKDKPLPPITDDEKPFELPNTWQWVKLQEVFDV 395

Query: 253 -----------ESNILSLSYGNIIQKL-ETRNMGLKPE----SYETYQIVDPGEIVFRFI 296
                      +     ++  NI   + +  ++    E      +    V  G+I+F  I
Sbjct: 396 RDGTHDTPKYCDIGFPLITSKNISTGILDFSDIKYISEADHLKIKDRSAVKRGDILFAMI 455

Query: 297 DLQNDKRSLRSAQVMERGIITSAYMAVKPH--GIDSTYLAWLMRSYDLCKVFYAMGSGLR 354
               +   +      +  I   A      +     +  L +L+ +    +        ++
Sbjct: 456 GSIGNPVIV--NIDTDFSIKNMALFKPYSNNICDMNYLLKYLLIAAVAMR--EQSTGAVQ 511

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAA 414
             +    ++     +PP+ EQ  I   ++      D L  +I  +  L ++     +  A
Sbjct: 512 SFVSLGIIRNYLYAMPPLAEQHRIIAKVDELMGLCDQLKSRITDASRLQQKLADVLVEQA 571

Query: 415 V 415
           V
Sbjct: 572 V 572



 Score = 68.7 bits (166), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 32/182 (17%), Positives = 62/182 (34%), Gaps = 7/182 (3%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
           +  E    +P  WE   F  LV  LN +  K  E          +     + +       
Sbjct: 95  TEDEKPFELPKGWEWVRFADLVNVLNGRAYKKEELIDAGTPVLRVGNLFTSEHWYYSDLI 154

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
            E  +  + G+++F +                ++ I       +  +G D  Y  +L   
Sbjct: 155 LEEDKYCNKGDLLFAWSASFGPFI-----WDGDKAIYHYHIWKLDLYGGDLLYKRYLYTF 209

Query: 340 YDLC-KVFYAMGSGLRQ-SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
                +   A G G+    +  E ++++ V +PP+ EQ  I   ++   A  D L  +  
Sbjct: 210 LLEQTQKIKAAGHGVMMIHMTKEKMEKIVVYLPPLAEQHRIAAKVDELMALCDQLENQHS 269

Query: 398 QS 399
            +
Sbjct: 270 NA 271


>gi|237743942|ref|ZP_04574423.1| type I restriction system specificity protein [Fusobacterium sp.
           7_1]
 gi|229432973|gb|EEO43185.1| type I restriction system specificity protein [Fusobacterium sp.
           7_1]
          Length = 590

 Score = 98.7 bits (244), Expect = 2e-18,   Method: Composition-based stats.
 Identities = 53/391 (13%), Positives = 135/391 (34%), Gaps = 17/391 (4%)

Query: 26  KVVPIKRFT-KLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSD-TSTVS 79
           ++V +K    ++  G   +  +     I  +   ++ +  G    K  +    +  +   
Sbjct: 191 EIVKLKDIAIEMYRGNGIKREEVREIGIPCVRYGEIYTDYGISFKKTKSYTDENLITNKK 250

Query: 80  IFAKGQILYGKLGP----YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
               G IL+   G       +       +       +++      P  L   L + +  +
Sbjct: 251 YIDYGDILFAITGESVEEIGKSTAYIGKEKCLVGGDVLVMKHKQDPVYLSYVLSTENAQK 310

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
           +       + + H +   IG I +P+PPL  Q  I E +       + L       IE  
Sbjct: 311 QKSKGKIKSKVVHTNATDIGEIEIPLPPLEVQKRIVEVLDNFEKICNDLNIGLPAEIEAR 370

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
           +++ +   ++++T  +      K    +          +K F  +   +  +  ++++  
Sbjct: 371 QKQYEFYRNFLLTFKIENCTLPKTRQDKTRQDKTRQDIIKLFMYIFGYIELELGEILKIK 430

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
             S      I  +     G      +TY       ++ R   + N     +    ++   
Sbjct: 431 NGSDYKKFNIGNIPVYGSGGIINYIDTYIYDKESVLIPRKGSIGNLFYVDKPFWTVD--- 487

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
            T  Y  +    +   Y+ + +   +L K+     +G   SL    + ++ + +PP++EQ
Sbjct: 488 -TIFYTVIDKDIVIPKYIYYYLSKVNLEKL---NTAGGVPSLTQTVLNKILIPLPPLEEQ 543

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKER 406
             I ++++      + + E +   I   +++
Sbjct: 544 QKIVDILDRFDKLCNGISEGLPAEIEARQKQ 574



 Score = 96.4 bits (238), Expect = 8e-18,   Method: Composition-based stats.
 Identities = 50/392 (12%), Positives = 113/392 (28%), Gaps = 33/392 (8%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           P   +   +K    +  G      K +             +Y   +G    S        
Sbjct: 13  PNGVEYKELKDLCIIKKGVQLNKEKLL----------EEAEYPVINGGILPSGYWNDYNV 62

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            +  I   + G                     L+ KD        +        ++ +  
Sbjct: 63  KENTITISQGGASAGYVQYIPTKFWAGAHCYYLELKDKNINYRYIYHFIKMKQDKLTSSQ 122

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            GA +   + K + N+ +P+PPL  Q  I   +   T          +      ++K+ +
Sbjct: 123 VGAGIPSVEKKILENLLIPVPPLEVQDEIVRILDNFTALTAE-----LTAELTARKKQYS 177

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
                + K  N    +K   I       +  + +    +     R      +  I     
Sbjct: 178 WYRDYLLKFENKIEIVKLKDIAIEMYRGNGIKREEVREIGIPCVRYGEIYTDYGISFKKT 237

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
            +   +    N             +D G+I+F       ++    +A + +   +    +
Sbjct: 238 KSYTDENLITNKKY----------IDYGDILFAITGESVEEIGKSTAYIGKEKCLVGGDV 287

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYA-MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
            V  H  D  YL++++ + +  K                 D+  + + +PP++ Q  I  
Sbjct: 288 LVMKHKQDPVYLSYVLSTENAQKQKSKGKIKSKVVHTNATDIGEIEIPLPPLEVQKRIVE 347

Query: 381 VINVETARIDVL-------VEKIEQSIVLLKE 405
           V++      + L       +E  ++     + 
Sbjct: 348 VLDNFEKICNDLNIGLPAEIEARQKQYEFYRN 379



 Score = 60.6 bits (145), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 19/140 (13%), Positives = 40/140 (28%), Gaps = 3/140 (2%)

Query: 272 NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST 331
           N G+ P  Y     V    I                    +       Y         + 
Sbjct: 48  NGGILPSGYWNDYNVKENTITISQGGAS---AGYVQYIPTKFWAGAHCYYLELKDKNINY 104

Query: 332 YLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
              +        K+  +       S++ + ++ L + VPP++ Q +I  +++  TA    
Sbjct: 105 RYIYHFIKMKQDKLTSSQVGAGIPSVEKKILENLLIPVPPLEVQDEIVRILDNFTALTAE 164

Query: 392 LVEKIEQSIVLLKERRSSFI 411
           L  ++          R   +
Sbjct: 165 LTAELTARKKQYSWYRDYLL 184


>gi|315171545|gb|EFU15562.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX1342]
          Length = 404

 Score = 98.7 bits (244), Expect = 2e-18,   Method: Composition-based stats.
 Identities = 47/402 (11%), Positives = 126/402 (31%), Gaps = 22/402 (5%)

Query: 24  HWKVVPIKRFT-KLNTGRTSESG------KDIIYIGLEDVESGTGKYLP--KDGNSRQSD 74
           +W++  +  F  ++  G T ++         + +I   D++      +   K  + +   
Sbjct: 8   NWELCKVGDFGREIYGGGTPKTSVKEFWSGTLPWIQSSDLKEDKVCDIKAKKHISVKAIQ 67

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
            S+    +K  I         +   +  ++   S  FL       + +    + L   + 
Sbjct: 68  QSSAKKISKNSIAIVTRVSVGKLV-LMPYEYATSQDFL-SISVLQVDKWFGVYSLYNKLQ 125

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             + ++   +       + +    M   PL EQ  I   +      I     +  +  EL
Sbjct: 126 SELNSVQGTSIKGITKDELLNKKIMIPKPLKEQSKIGLFLKKIDTTIALHQRKLDQLKEL 185

Query: 195 LKEKKQALV--SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
            K   Q ++  +      +        +G   +  + D   +       T  +      +
Sbjct: 186 KKAYLQLIIVLNSSENSTVPKLRFANFTGEWELCKLGDELALLKDGTHGTHTDSLVGPYL 245

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
            S     +    I   + +    + +   +   +   +I+   +    +   LR+ + + 
Sbjct: 246 LSAKNIKNGKINITNEDRKISQDEFDRIHSRFSLKKDDILLTIVGSIGEAAILRAPEGI- 304

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPP 371
                 +   ++   I+  +L   +   +  K          +  +   D+ ++P+L P 
Sbjct: 305 --TFQRSVAYLRSKVINPEFLYTYITGPEFQKELKNRQVVSAQPGIYLGDLDKIPILFPK 362

Query: 372 IK-EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
              EQ  I         ++D  +   +  +  LK  + S++ 
Sbjct: 363 TSREQQKIGTF----FQQLDQAITLHQNKLTQLKFLKKSYLQ 400


>gi|167771561|ref|ZP_02443614.1| hypothetical protein ANACOL_02933 [Anaerotruncus colihominis DSM
           17241]
 gi|167666201|gb|EDS10331.1| hypothetical protein ANACOL_02933 [Anaerotruncus colihominis DSM
           17241]
          Length = 388

 Score = 98.7 bits (244), Expect = 2e-18,   Method: Composition-based stats.
 Identities = 64/402 (15%), Positives = 130/402 (32%), Gaps = 29/402 (7%)

Query: 29  PIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
            +        GR  +  +     +  I ++++ + +  Y     N    +        +G
Sbjct: 3   TLGNVATYINGRAFKPSEWEDSGLPIIRIQNLTNFSAPY-----NYSSRELEEKYKVTRG 57

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            +L+      L   I    D   +     + P + + +    + L   V +       G+
Sbjct: 58  DLLFAWS-ASLGAHIWKGNDAWLNQHIFRVVPSEQIEKKYLYYFLLQVVAELHAKTH-GS 115

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
            M H       N P+P+P L EQ  I  KI     ++D  + E     E LK  +QA++ 
Sbjct: 116 GMVHITKGPFMNTPIPVPSLPEQKRIVSKIEELFSKLDASVAELQTAKEKLKVYRQAVLK 175

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN- 263
                  +P  K K   +E +   P +   K           KN       I ++ Y N 
Sbjct: 176 EAF----DPVSKEK-ILLEDIIEKPRYGTSKKC-----SYAYKNGFKAVYRIPNICYQNG 225

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
            I   + +  G   +  +   +++   ++ R     +        +  +     + Y+  
Sbjct: 226 SIDHKDIKYAGFSDDELKNLDLIENDLLIIRSNGSVSLVGRSSIVKAEDCDATFAGYLIR 285

Query: 324 ----KPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP---PIKEQF 376
               KP  + S +L + + S+        +             +   + VP       Q 
Sbjct: 286 LRLKKPSEVLSKFLHYFLESHAARTYIEHVAKSTSGVNNINSNEISNLPVPKCDDFDMQA 345

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
                I    +  D + + I+ S+   +  R S +  A  G+
Sbjct: 346 QTVVKIETNLSICDDIQQTIDTSLQQAEALRQSILKQAFEGE 387


>gi|259419409|ref|ZP_05743325.1| RmeS [Silicibacter sp. TrichCH4B]
 gi|259344650|gb|EEW56537.1| RmeS [Silicibacter sp. TrichCH4B]
          Length = 400

 Score = 98.3 bits (243), Expect = 2e-18,   Method: Composition-based stats.
 Identities = 63/398 (15%), Positives = 132/398 (33%), Gaps = 32/398 (8%)

Query: 36  LNTGRTSESGK---DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLG 92
           +  G      +    + ++   DV       +    + + ++    S  A G IL+   G
Sbjct: 24  IVYGIVQPGPECPGGVPFVQSRDVGGAVDVNVLNRTSQQIAEQYRRSKIALGDILFSLRG 83

Query: 93  PYLRKAIIADFDGICSTQFLVLQPK---DVLPELLQGWLLSIDVTQRIEAICEGATMSHA 149
              + +I        +    V + +      PE ++  L    + + I     G+T    
Sbjct: 84  NIGQSSITPAELDGANIARGVARIRVGAKGDPEFVRYVLQGPVLQRLIARNANGSTFREL 143

Query: 150 DWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTK 209
             + +  +P+P   L EQ+ I E +      ++ L   R      L   + AL+      
Sbjct: 144 SIEELRKLPIPDVSLPEQLKIAEILRTWDEALEKLTVLRAAKERRLGALRAALL------ 197

Query: 210 GLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLE 269
                 +++  G+        H         VT    K          S+      + + 
Sbjct: 198 ----FGRLRQKGL-------RHNWAPTRLEAVTHELTKRNGTKGLGRESVMGVTKAEGVV 246

Query: 270 TRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI- 328
                        Y+ + P    +  + +     S+      E  +++  Y+    +   
Sbjct: 247 PMREQTIAADISRYKRLPPRAFAYNPMRIN--VGSIAMNDRDEAVLVSPDYVVFACNADG 304

Query: 329 -DSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
            D  YL  L ++        + GSG +RQ   + ++  L + +P + EQ  I  V+N   
Sbjct: 305 LDPDYLDHLRKTSWWAHYINSGGSGSVRQRTYYANLAALKLPLPDLDEQKAIAAVLNTAR 364

Query: 387 ARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGE 424
           A    L+   E+ I  +  ++   +   +TG+  +  E
Sbjct: 365 A---DLIA-TEREIEAVTRQKRGLMQKLLTGEWQVEEE 398


>gi|332142825|ref|YP_004428563.1| type I site-specific deoxyribonuclease [Alteromonas macleodii str.
           'Deep ecotype']
 gi|327552847|gb|AEA99565.1| type I site-specific deoxyribonuclease [Alteromonas macleodii str.
           'Deep ecotype']
          Length = 360

 Score = 98.3 bits (243), Expect = 2e-18,   Method: Composition-based stats.
 Identities = 57/382 (14%), Positives = 120/382 (31%), Gaps = 31/382 (8%)

Query: 47  DIIYIGLEDVESGT-GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDG 105
           +  YI ++D+ +    KY   D           +      ++    G             
Sbjct: 3   NNRYIQIDDLRNDNLIKYTDDD---------KGTFVEPSDVIIAWDGANAGTIGYGLEGL 53

Query: 106 ICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLA 165
           I ST   +      +     G  L     +     C GAT+ H     + ++ +P+PPL 
Sbjct: 54  IGSTLARLKVIIPHIDTNYLGRFLQSKFKEI-RNNCTGATIPHVSKVHLNSLLVPVPPLP 112

Query: 166 EQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWV 225
            Q  I   +                   L     Q++   +        + +K S    +
Sbjct: 113 IQKQIAAVLEKADNLRQQSQQMEQELNSLA----QSVFLDMFGDYRKDAMSLKSS----L 164

Query: 226 GLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI 285
           G V D          +               ++      +   E +++ +K + +E YQ 
Sbjct: 165 GEVADVRSGVTKGQKLEGHKLTTVPY---MRVANVQDGYLDLSEIKDITVKAKDFEKYQ- 220

Query: 286 VDPGEIVFR-FIDLQNDKRSLRSAQVMERGIITSAYMAVK-PHGIDSTYLAWLMRSYDLC 343
           +  G+++     D     R    +  +   I  +    V+      S + A+ +++  + 
Sbjct: 221 LKAGDVLMTEGGDFDKLGRGAIWSGQIANCIHQNHVFRVRLCDRYISEFFAYYLQTPFVK 280

Query: 344 KVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
           + F      +    S+    +K LP+    I +Q     +I+     +  L E   +   
Sbjct: 281 QYFLKCAKKTTNLASINITQLKGLPIPDESIGKQQSFLRIID----ELKALKEANFEQQE 336

Query: 402 LLKERRSSFIAAAVTGQIDLRG 423
                 +S +  A  G++DL+ 
Sbjct: 337 QANAHFNSLMQRAFKGELDLKD 358



 Score = 62.9 bits (151), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 26/152 (17%), Positives = 52/152 (34%), Gaps = 9/152 (5%)

Query: 259 LSYGNIIQKLETRNMGL-KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
           ++    IQ  + RN  L K    +    V+P +++  +              ++   +  
Sbjct: 1   MTNNRYIQIDDLRNDNLIKYTDDDKGTFVEPSDVIIAWDGANAGTIGYGLEGLIGSTLAR 60

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFD 377
              +      ID+ YL   ++S    ++           +    +  L V VPP+  Q  
Sbjct: 61  LKVIIPH---IDTNYLGRFLQS-KFKEIRNNCTGATIPHVSKVHLNSLLVPVPPLPIQKQ 116

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
           I  V+     + D L ++ +Q    L     S
Sbjct: 117 IAAVLE----KADNLRQQSQQMEQELNSLAQS 144



 Score = 52.1 bits (123), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 26/196 (13%), Positives = 56/196 (28%), Gaps = 17/196 (8%)

Query: 30  IKRFTKLNTGRTS------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           +     + +G T            + Y+ + +V+ G          + ++          
Sbjct: 164 LGEVADVRSGVTKGQKLEGHKLTTVPYMRVANVQDGYLDLSEIKDITVKAKDFEKYQLKA 223

Query: 84  GQILYGKLGPY---LRKAIIADFDGIC---STQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
           G +L  + G +    R AI +     C   +  F V      + E    +L +  V Q  
Sbjct: 224 GDVLMTEGGDFDKLGRGAIWSGQIANCIHQNHVFRVRLCDRYISEFFAYYLQTPFVKQYF 283

Query: 138 EAICEGATM-SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
               +  T  +  +   +  +P+P   + +Q      I                  E   
Sbjct: 284 LKCAKKTTNLASINITQLKGLPIPDESIGKQQSFLRIIDELKAL----KEANFEQQEQAN 339

Query: 197 EKKQALVSYIVTKGLN 212
               +L+       L+
Sbjct: 340 AHFNSLMQRAFKGELD 355


>gi|332204890|gb|EGJ18955.1| type I restriction modification DNA specificity domain protein
           [Streptococcus pneumoniae GA47901]
          Length = 352

 Score = 98.3 bits (243), Expect = 2e-18,   Method: Composition-based stats.
 Identities = 51/392 (13%), Positives = 116/392 (29%), Gaps = 44/392 (11%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V +     L  G+ +    +   +    ++    +       +   + +         
Sbjct: 2   KKVKLGEILSLKKGKKATVLAEQTTLSQRYIQIDDLRNNNNLKFTESLNMTEAL---PDD 58

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW--LLSIDVTQRIEAICEG 143
           IL    G             + ST  ++ + +    +++  +  +     +Q +     G
Sbjct: 59  ILIAWDGANAGTVGYGLSGAVGSTITVLKKNERYKEKIISDYLGVFLESKSQYLRDHSTG 118

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           AT+ H +   + ++ + +  + EQ  I   +      I     +      L+        
Sbjct: 119 ATIPHLNKNILLDLQLELLGIEEQENIICILNTIKRLITRRKFQLDELNLLV-------- 170

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
                         K    E  G V  + +          L  +N K  +    +     
Sbjct: 171 --------------KSRFNEMFGDVILNEKEWKVSKWNEILTIRNGKNQKQVEDADGKFP 216

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
           I               Y    IV    ++       N    +R              +  
Sbjct: 217 IYGSGGI-------MGYAKDWIVKKNSVIIGRKGNINKPILVRENFWNVDTAFG---LEP 266

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
               I+S YL +  + Y+  K+  A+      SL   D+  + + +PP+  Q +  + + 
Sbjct: 267 VLEKINSEYLFYFCQLYNFEKLNKAV---TIPSLTKSDLLNISIPLPPLALQNEFADFV- 322

Query: 384 VETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
              A++D     I++S+  L+  + S +    
Sbjct: 323 ---AQVDKSQLAIQKSLEELETLKKSLMQEYF 351



 Score = 52.9 bits (125), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 32/185 (17%), Positives = 65/185 (35%), Gaps = 19/185 (10%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           K WKV        +  G+  +            VE   GK+ P  G+      +   I  
Sbjct: 186 KEWKVSKWNEILTIRNGKNQKQ-----------VEDADGKF-PIYGSGGIMGYAKDWIVK 233

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           K  ++ G+ G   +  ++ +      T F +    + +      +   +      E + +
Sbjct: 234 KNSVIIGRKGNINKPILVRENFWNVDTAFGLEPVLEKINSEYLFYFCQLY---NFEKLNK 290

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
             T+       + NI +P+PPLA Q    +       ++D       + +E L+  K++L
Sbjct: 291 AVTIPSLTKSDLLNISIPLPPLALQNEFADF----VAQVDKSQLAIQKSLEELETLKKSL 346

Query: 203 VSYIV 207
           +    
Sbjct: 347 MQEYF 351


>gi|206558820|ref|YP_002229580.1| type I restriction enzyme specificity protein [Burkholderia
           cenocepacia J2315]
 gi|198034857|emb|CAR50729.1| type I restriction enzyme specificity protein [Burkholderia
           cenocepacia J2315]
          Length = 444

 Score = 98.3 bits (243), Expect = 2e-18,   Method: Composition-based stats.
 Identities = 69/439 (15%), Positives = 131/439 (29%), Gaps = 42/439 (9%)

Query: 22  PKHWKVVPIKRFT-----KLNTGRTSES---GKDIIY--IGLEDVESGTGKYLPKDGNSR 71
           P  W+   +          + TG           +      +  V  G  + +       
Sbjct: 9   PAAWERTTLGEVVARGGGSVQTGPFGSQLHASDYVPVGIPSIMPVNIGDNRLIRDGIACI 68

Query: 72  QSDTS---TVSIFAKGQILYGKLGPYLRKAIIAD--FDGICSTQFLVLQPKD--VLPELL 124
               +   +  I  KG I+Y + G   R+A++ D      C T  L ++     VLPE  
Sbjct: 69  TEVDAQRLSKHIVRKGDIIYSRRGDVERRALVRDAEDGWFCGTGCLKVRLGQGVVLPEFA 128

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
             +L   +V + I     GATM + +   +  IP  +PPL +Q LI   + A   +I+  
Sbjct: 129 AFYLGHPEVREWIVRHAVGATMPNLNTGIMEAIPFLLPPLPQQELIAATLGALDDKIEQN 188

Query: 185 ITERIRFIELLKEKKQALVSYIVT-----------KGLNPDVKMKDSG---IEWVGLVPD 230
                    L +   +A                   G+ P              +G VP 
Sbjct: 189 RRTNRELEGLAQAMFKAWFVDFEPVKAKASGKTSFAGMPPAAFAALPDRLTDSPLGQVPQ 248

Query: 231 HWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGE 290
            WE++P   LV            +              +   +        +  I D G 
Sbjct: 249 GWEIRPIGDLVAVKGGGTPSTKVAEYWDEGTHFWATPKDLSGLQDPVLLETSRCITDAGA 308

Query: 291 IVF-------RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC 343
                       + L +      +A       +   ++A+   G    +         L 
Sbjct: 309 ECISSGVLQENTVLLSSRAPVGYTALAKVPTAVNQGFIAMTCDGPLPPHYVLHWTRSMLG 368

Query: 344 KVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
           ++           +     + +  +VP       +        A +  L+E   +    L
Sbjct: 369 EIKSRASGTTFPEISKGAFRPILAIVPS----AVVVQAFESFAACLFDLIEVNVRQRFSL 424

Query: 404 KERRSSFIAAAVTGQIDLR 422
           +E R+  +   ++G + +R
Sbjct: 425 EEMRNYLLPRLLSGAVKVR 443



 Score = 63.3 bits (152), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 26/200 (13%), Positives = 57/200 (28%), Gaps = 12/200 (6%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESG-------KDIIYIGLEDVESGTGKY---LPKD 67
           +G +P+ W++ PI     +  G T  +            +   +D+            + 
Sbjct: 243 LGQVPQGWEIRPIGDLVAVKGGGTPSTKVAEYWDEGTHFWATPKDLSGLQDPVLLETSRC 302

Query: 68  GNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW 127
                ++  +  +  +  +L     P    A +A      +  F+ +     LP      
Sbjct: 303 ITDAGAECISSGVLQENTVLLSSRAPVGYTA-LAKVPTAVNQGFIAMTCDGPLP-PHYVL 360

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
             +  +   I++   G T           I   +P                  I+  + +
Sbjct: 361 HWTRSMLGEIKSRASGTTFPEISKGAFRPILAIVPSAVVVQAFESFAACLFDLIEVNVRQ 420

Query: 188 RIRFIELLKEKKQALVSYIV 207
           R    E+       L+S  V
Sbjct: 421 RFSLEEMRNYLLPRLLSGAV 440


>gi|213971210|ref|ZP_03399328.1| type I site-specific deoxyribonuclease (specificity subunit)
           [Pseudomonas syringae pv. tomato T1]
 gi|213924079|gb|EEB57656.1| type I site-specific deoxyribonuclease (specificity subunit)
           [Pseudomonas syringae pv. tomato T1]
          Length = 414

 Score = 98.3 bits (243), Expect = 2e-18,   Method: Composition-based stats.
 Identities = 44/403 (10%), Positives = 106/403 (26%), Gaps = 29/403 (7%)

Query: 24  HWKVVPIKRFTKLNTGRTSESG-KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            WK   +++  +  + R       +++ +  E       +Y  K      +D        
Sbjct: 22  GWKETQLQKIARSVSDRAVTGDGDNVLSLSGEHGLVLQSEYFGKKIAGDITD--RYLKLL 79

Query: 83  KGQILYGKLGPYLRKAIIAD-----FDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
           +   +Y                     GI S  +   +       +   W       +  
Sbjct: 80  RDDFVYNDRTTKASTFGTIKRLSKYSGGIVSPIYKCFRFHTGEDPVFWEWYFESGSHEAQ 139

Query: 138 EAICEGAT----MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
                         +   +   +     P   EQ  + E +      +D  I  + R + 
Sbjct: 140 LGSLVNEGARAGRFNISIRQFLSTTAWRPDEREQQKVAEFL----SSVDDFIAAQARKVT 195

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
            LK  K+ L   +  +      +++    + V              +       N     
Sbjct: 196 ALKIYKKGLTQRLFPQESESQPRLRFPEFQNVEEWKVKRLSGMIELISGMHLSPNDYSTV 255

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
             +   +              +   +  T  +    +I+     ++           +  
Sbjct: 256 GEVPYFTGP---SDFTNNLSNVTKWTKRTANVSKAEDILIT---VKGSGVGEIWYSTLPE 309

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPI 372
             +    MA++     S ++   +++      F  +GSG +   L    +  L    P +
Sbjct: 310 IAMGRQLMAIRSKSGASRFMFQFLQTK--KNHFKDLGSGNMIPGLSRAVILELEASFPNL 367

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            EQ  I + +      +D L+    Q    L+  +   +    
Sbjct: 368 PEQQRIADCL----TSLDDLIAAQTQKHEALETYKMGLMQQLF 406



 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 25/182 (13%), Positives = 52/182 (28%), Gaps = 4/182 (2%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + WKV  +    +L +G             +    +G   +     N  +    T ++  
Sbjct: 228 EEWKVKRLSGMIELISGMHLSPNDYSTVGEVPYF-TGPSDFTNNLSNVTKWTKRTANVSK 286

Query: 83  KGQILYGKLGPYLRKAIIADFDGIC-STQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
              IL    G  + +   +    I    Q + ++ K      +  +L +       + + 
Sbjct: 287 AEDILITVKGSGVGEIWYSTLPEIAMGRQLMAIRSKSGASRFMFQFLQTK--KNHFKDLG 344

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            G  +       I  +    P L EQ  I + + +    I     +            Q 
Sbjct: 345 SGNMIPGLSRAVILELEASFPNLPEQQRIADCLTSLDDLIAAQTQKHEALETYKMGLMQQ 404

Query: 202 LV 203
           L 
Sbjct: 405 LF 406


>gi|225861216|ref|YP_002742725.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae Taiwan19F-14]
 gi|225726806|gb|ACO22657.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae Taiwan19F-14]
          Length = 347

 Score = 98.3 bits (243), Expect = 2e-18,   Method: Composition-based stats.
 Identities = 54/362 (14%), Positives = 96/362 (26%), Gaps = 37/362 (10%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V + +      G   +  +D    G E +         K  N          I   G 
Sbjct: 2   KKVKLGQVATFINGYAFKP-QDWSSEGKEIIRIQNLTKTSKGINYYSGTIDKKYIVEAGD 60

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           IL    G  L          + +     +    +  +      +     Q       G+T
Sbjct: 61  ILISWSGT-LGVFQWCGRSAVLNQHIFKVVFDKIDIDKSYFKYVVEKGLQDAVKHTHGST 119

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
           M H   K   NI +    L EQ  I  ++   +  I     +      L+          
Sbjct: 120 MKHLTKKYFDNIMVSYTNLREQQRIASELDLLSKLILRRQEQLEELNLLV---------- 169

Query: 206 IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII 265
                       K    E  G V  + +          L  +N K  +    +     I 
Sbjct: 170 ------------KSRFNEMFGDVILNEKEWKVSKWNEILTIRNGKNQKQVEDADGKFPIY 217

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
                         Y    IV    ++       N    +R              +    
Sbjct: 218 GSGGI-------MGYAKDWIVKKNSVIIGRKGNINKPILVRENFWNVDTAFG---LEPVL 267

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
             I+S YL +  + Y+  K+  A+      SL   D+  + + +PP+  Q +  + + + 
Sbjct: 268 EKINSEYLFYFCQLYNFEKLNKAV---TIPSLTKSDLLNISIPLPPLALQNEFADFVALV 324

Query: 386 TA 387
             
Sbjct: 325 DK 326



 Score = 53.3 bits (126), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 16/142 (11%), Positives = 43/142 (30%), Gaps = 10/142 (7%)

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
            ++ +     + +   IV+ G+I+  +                   ++      V    I
Sbjct: 39  TSKGINYYSGTIDKKYIVEAGDILISWSGTLG-----VFQWCGRSAVLNQHIFKVVFDKI 93

Query: 329 DSTYLAW-LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           D     +  +    L            + L  +    + V    ++EQ  I + ++    
Sbjct: 94  DIDKSYFKYVVEKGLQDAVKHTHGSTMKHLTKKYFDNIMVSYTNLREQQRIASELD---- 149

Query: 388 RIDVLVEKIEQSIVLLKERRSS 409
            +  L+ + ++ +  L     S
Sbjct: 150 LLSKLILRRQEQLEELNLLVKS 171



 Score = 49.8 bits (117), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 27/151 (17%), Positives = 52/151 (34%), Gaps = 15/151 (9%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           K WKV        +  G+  +            VE   GK+ P  G+      +   I  
Sbjct: 185 KEWKVSKWNEILTIRNGKNQKQ-----------VEDADGKF-PIYGSGGIMGYAKDWIVK 232

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           K  ++ G+ G   +  ++ +      T F +    + +      +   +      E + +
Sbjct: 233 KNSVIIGRKGNINKPILVRENFWNVDTAFGLEPVLEKINSEYLFYFCQLY---NFEKLNK 289

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
             T+       + NI +P+PPLA Q    + 
Sbjct: 290 AVTIPSLTKSDLLNISIPLPPLALQNEFADF 320


>gi|260592891|ref|ZP_05858349.1| type I restriction-modification system, S subunit [Prevotella
           veroralis F0319]
 gi|260535180|gb|EEX17797.1| type I restriction-modification system, S subunit [Prevotella
           veroralis F0319]
          Length = 429

 Score = 98.3 bits (243), Expect = 2e-18,   Method: Composition-based stats.
 Identities = 62/418 (14%), Positives = 117/418 (27%), Gaps = 49/418 (11%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNSR 71
            IP  W  V +   + +  G +    K+        I +I + D E              
Sbjct: 11  EIPLTWAWVRLNFVSIIARGSSPRPIKEYLTDSLDGINWIKIGDTEKDGMYINSTKEKIT 70

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
               S   +  KG  L      + R   I + DG     +LV+ P     +    + L  
Sbjct: 71  VEGLSKSRLVHKGDFLLTNSMSFGRP-YITNVDGCIHDGWLVISPIGTSFKQKFLYYLLS 129

Query: 132 DVT--QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE-- 187
                 +      GA + + +   +     P+PP  EQ  I +K+     +I+T      
Sbjct: 130 SGYAFSQFAGKVSGAVVKNLNSDKVAEAMFPLPPYNEQQRILDKLDVLVPKINTYGIMSD 189

Query: 188 --RIRFIELLKEKKQALVSYIVTKGLNPDVK--------------------------MKD 219
                   L  +  ++++   +   L P                              KD
Sbjct: 190 AIYDMNTSLRSKLHKSILQEAIQGKLIPQDPNDEPASVLLQRIKEEKQRLVKEGKLKKKD 249

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
                +    D+   +       ++           ++ LS+   +   E +        
Sbjct: 250 VVDSIIYKGDDNKYYEQVDGTAIQIESDYDFPNTWAVVKLSHICRLIDGEKKEGQHICLD 309

Query: 280 ------YETYQIVDPGEIV--FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST 331
                   T   +D G+ V     I L + + S     V   G + S +  +        
Sbjct: 310 AKYLRGKSTGTYLDKGKFVAKGNNIILVDGENSGEVFTVPHDGYMGSTFKQLWISEAMHQ 369

Query: 332 YLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
                   +    +  +        L  E    L + +PP +EQ  I   I++    I
Sbjct: 370 PYVLYFIQFYKELLRNSKKGAAIPHLNKEIFYSLLIGIPPYQEQIRIARKIDIIVNEI 427



 Score = 65.2 bits (157), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 36/221 (16%), Positives = 73/221 (33%), Gaps = 26/221 (11%)

Query: 217 MKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN-------ILSLSYGNIIQ--- 266
           M     E    +P  W       +       + + I+         I  +  G+  +   
Sbjct: 1   MVCIDDEIPFEIPLTWAWVRLNFVSIIARGSSPRPIKEYLTDSLDGINWIKIGDTEKDGM 60

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
            + +    +  E     ++V  G+ +     L N     R       G I   ++ + P 
Sbjct: 61  YINSTKEKITVEGLSKSRLVHKGDFL-----LTNSMSFGRPYITNVDGCIHDGWLVISPI 115

Query: 327 GID--STYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
           G      +L +L+ S      F    SG   ++L  + V      +PP  EQ  I + ++
Sbjct: 116 GTSFKQKFLYYLLSSGYAFSQFAGKVSGAVVKNLNSDKVAEAMFPLPPYNEQQRILDKLD 175

Query: 384 VETARID------VLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           V   +I+        +  +  S+    +   S +  A+ G+
Sbjct: 176 VLVPKINTYGIMSDAIYDMNTSLRS--KLHKSILQEAIQGK 214


>gi|225858688|ref|YP_002740198.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae 70585]
 gi|225720968|gb|ACO16822.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae 70585]
          Length = 347

 Score = 98.3 bits (243), Expect = 2e-18,   Method: Composition-based stats.
 Identities = 53/362 (14%), Positives = 96/362 (26%), Gaps = 37/362 (10%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V + +      G   +  +D    G E +          + N          I   G 
Sbjct: 2   KKVKLGQVATFINGYAFKP-QDWSSEGKEIIRIQNLTKTSTEINYYSGTIDKKYIVEAGD 60

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           IL    G  L          + +     +    +  +      +     Q       G+T
Sbjct: 61  ILISWSGT-LGVFQWCGRSAVLNQHIFKVVFDKIDIDKSYFKYVVEKGLQDAVKHTHGST 119

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
           M H   K   NI +    L EQ  I  ++   +  I     +      L+          
Sbjct: 120 MKHLTKKYFDNIMVSYTNLREQQRIASELDLLSKLILRRQEQLEELNLLV---------- 169

Query: 206 IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII 265
                       K    E  G V  + +          L  +N K  +    +     I 
Sbjct: 170 ------------KSRFNEMFGDVILNEKEWKVSKWNEILTIRNGKNQKQVEDADGKFPIY 217

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
                         Y    IV    ++       N    +R              +    
Sbjct: 218 GSGGI-------MGYAKDWIVKKNSVIIGRKGNINKPILVRENFWNVDTAFG---LEPVL 267

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
             I+S YL +  + Y+  K+  A+      SL   D+  + + +PP+  Q +  + + + 
Sbjct: 268 EKINSEYLFYFCQLYNFEKLNKAV---TIPSLTKSDLLNISIPLPPLALQNEFADFVALV 324

Query: 386 TA 387
             
Sbjct: 325 DK 326



 Score = 52.9 bits (125), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/142 (11%), Positives = 42/142 (29%), Gaps = 10/142 (7%)

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
            +  +     + +   IV+ G+I+  +                   ++      V    I
Sbjct: 39  TSTEINYYSGTIDKKYIVEAGDILISWSGTLG-----VFQWCGRSAVLNQHIFKVVFDKI 93

Query: 329 DSTYLAW-LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           D     +  +    L            + L  +    + V    ++EQ  I + ++    
Sbjct: 94  DIDKSYFKYVVEKGLQDAVKHTHGSTMKHLTKKYFDNIMVSYTNLREQQRIASELD---- 149

Query: 388 RIDVLVEKIEQSIVLLKERRSS 409
            +  L+ + ++ +  L     S
Sbjct: 150 LLSKLILRRQEQLEELNLLVKS 171



 Score = 49.8 bits (117), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 27/151 (17%), Positives = 52/151 (34%), Gaps = 15/151 (9%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           K WKV        +  G+  +            VE   GK+ P  G+      +   I  
Sbjct: 185 KEWKVSKWNEILTIRNGKNQKQ-----------VEDADGKF-PIYGSGGIMGYAKDWIVK 232

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           K  ++ G+ G   +  ++ +      T F +    + +      +   +      E + +
Sbjct: 233 KNSVIIGRKGNINKPILVRENFWNVDTAFGLEPVLEKINSEYLFYFCQLY---NFEKLNK 289

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
             T+       + NI +P+PPLA Q    + 
Sbjct: 290 AVTIPSLTKSDLLNISIPLPPLALQNEFADF 320


>gi|220930106|ref|YP_002507015.1| restriction modification system DNA specificity domain protein
           [Clostridium cellulolyticum H10]
 gi|220000434|gb|ACL77035.1| restriction modification system DNA specificity domain protein
           [Clostridium cellulolyticum H10]
          Length = 409

 Score = 98.3 bits (243), Expect = 2e-18,   Method: Composition-based stats.
 Identities = 63/406 (15%), Positives = 137/406 (33%), Gaps = 33/406 (8%)

Query: 25  WKVVPIKRFTKLN-TGRTSES------GKDIIYIGLEDVESGT--GKYLPKDGNSRQSDT 75
           W+   +    +    G T  +        +I +I   D+      G    K        +
Sbjct: 17  WEQRTLGEMAEETYGGGTPSTLNKAYWNGNIPWIQSSDLVEHQLFGVSPRKYITESGVCS 76

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
           S   +  +  I        + K     F    S  FL              + +   + +
Sbjct: 77  SAAKLVPENSIAIVT-RVGVGKLATMPFAFATSQDFL-SLSNLKCEIWFFAYSIYKKLQR 134

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            I+A+   +       + +         + EQ  I   +      +D  IT   R ++ L
Sbjct: 135 DIDAVQGTSIKGITKNELLSKSICAPSDILEQTSIGNFL----HLLDDAITLHKRKLDDL 190

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
           K+ K   +  +  +       ++ +G        + W+ +    +V  + RKN  L  + 
Sbjct: 191 KDLKHGYLQQMFPQAGESVPLVRFAG------FTEPWQKRTLGDVVECVTRKNKGLKSTL 244

Query: 256 ILSLS-YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK-RSLRSAQVMER 313
           +L++S    +I + +  +  +  +    Y ++  GE  +           +++     E 
Sbjct: 245 VLTISAQHGLIAQKDFFDKEVASKDVSNYYLMKNGEFAYNKSYSNGYPWGAVKRLDNYEI 304

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQ----SLKFEDVKRLPVL 368
           G++++ Y+  KP  IDS +L     +           + G R     ++   D     + 
Sbjct: 305 GVLSTLYIVFKPTTIDSEFLTQYYETTHWHNEVAQYAAEGARNHGLLNIATSDFFETVLA 364

Query: 369 VP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           +P    EQ  I N  +     +D  +   EQ +  LK+ +S+++  
Sbjct: 365 IPTNSNEQTAIGNFFHT----LDRQIIAQEQKLNRLKQLKSAYLQK 406


>gi|304560216|gb|ADM42880.1| conserved hypothetical protein [Edwardsiella tarda FL6-60]
          Length = 340

 Score = 98.3 bits (243), Expect = 2e-18,   Method: Composition-based stats.
 Identities = 49/317 (15%), Positives = 109/317 (34%), Gaps = 25/317 (7%)

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVL-IREKIIAETVRIDTL 184
            + L  ++ QR  A   GAT++    K + N  + +P   ++ + I +K+ +    I  L
Sbjct: 27  FYQLQSNLVQRQIAETLGATINQITNKDLSNFKIAVPRNKDEYIEISDKLASIDGLIIDL 86

Query: 185 ITERIRFIELLKEKKQALVS---YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALV 241
                +   +     Q L++    +    L  D  +K       G +P+ WE       +
Sbjct: 87  KKIVNKKQAIKTATMQQLLTGKTRLPQFALRKDGTVKGYRRSEFGDIPEDWETSTLDNFI 146

Query: 242 TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIV----------DPGEI 291
           ++L+   +    +     S+G  I K    + G          +             G I
Sbjct: 147 SKLDAGVSVNSVNEKDIFSHGKNILKTSCVSNGYFYGHEAKSIVPDDINRAKTTPKKGCI 206

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI----DSTYLAWLMRSYDLCKVFY 347
           +   ++  N    L   +  E  +     +           D+ +LA+++    +     
Sbjct: 207 IISRMNTPNLVGELGYVERDEPNLYLPDRLWQMNVCQEQIIDNRWLAYILSFPLISNKLK 266

Query: 348 AMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLK 404
              +G     +++  + +  L    P   EQ  I  +++     I  L    +Q +   +
Sbjct: 267 ETATGTSNSMKNISKDSLYSLSFPRPSKDEQTAIAAILSDMDKDIQTL----QQRLDKTR 322

Query: 405 ERRSSFIAAAVTGQIDL 421
           + +   +   +TG+  L
Sbjct: 323 QLKQGMMQELLTGKTRL 339



 Score = 62.5 bits (150), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 14/93 (15%), Positives = 40/93 (43%), Gaps = 5/93 (5%)

Query: 331 TYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-PIKEQFDITNVINVETARI 389
            Y+ + ++S  + +            +  +D+    + VP    E  +I++ +    A I
Sbjct: 24  PYVFYQLQSNLVQRQIAETLGATINQITNKDLSNFKIAVPRNKDEYIEISDKL----ASI 79

Query: 390 DVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
           D L+  +++ +   +  +++ +   +TG+  L 
Sbjct: 80  DGLIIDLKKIVNKKQAIKTATMQQLLTGKTRLP 112



 Score = 45.6 bits (106), Expect = 0.018,   Method: Composition-based stats.
 Identities = 31/213 (14%), Positives = 62/213 (29%), Gaps = 21/213 (9%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKR-FTKLNTGRTSES--GKDI-----IYIGLEDVESGTG 61
           Y+ S     G IP+ W+   +    +KL+ G +  S   KDI       +    V +G  
Sbjct: 125 YRRSE---FGDIPEDWETSTLDNFISKLDAGVSVNSVNEKDIFSHGKNILKTSCVSNGYF 181

Query: 62  KYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPY-----LRKAIIADFDGICSTQFLVLQP 116
                            +   KG I+  ++        L      + +     +   +  
Sbjct: 182 YGHEAKSIVPDDINRAKTTPKKGCIIISRMNTPNLVGELGYVERDEPNLYLPDRLWQMNV 241

Query: 117 KDVLPELLQGWLLSIDVTQRIEAIC-----EGATMSHADWKGIGNIPMPIPPLAEQVLIR 171
                   +     +        +         +M +     + ++  P P   EQ  I 
Sbjct: 242 CQEQIIDNRWLAYILSFPLISNKLKETATGTSNSMKNISKDSLYSLSFPRPSKDEQTAIA 301

Query: 172 EKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
             +      I TL     +  +L +   Q L++
Sbjct: 302 AILSDMDKDIQTLQQRLDKTRQLKQGMMQELLT 334


>gi|40467|emb|CAA35604.1| HsdS polypeptide, part of CfrA family [Citrobacter freundii]
          Length = 578

 Score = 98.3 bits (243), Expect = 2e-18,   Method: Composition-based stats.
 Identities = 70/501 (13%), Positives = 137/501 (27%), Gaps = 95/501 (18%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT 60
           +K  K  P+   S       +P  W+ V +     +  G++  S              G 
Sbjct: 83  IKKQKPLPEI--SEEDKPFELPAGWEWVRLGEAFYIEMGQSXSSQYYNQSEEGIPFFQGK 140

Query: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL 120
             +  K   +R   TS   +  K  +L     P      ++ +          ++     
Sbjct: 141 ADFGKKYPTARYWCTSPTKLAQKNDVLLSVRAPV-GPTNLSPYHCCIGRGLAAIRCLSDA 199

Query: 121 PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
           P     ++L     +R+E +  G T        I  + MPIPPL EQ+ I + I      
Sbjct: 200 PHEYLLYILKAS-QRRLEELATGTTFVAVSKTDIEPLLMPIPPLNEQIRIVDTIDRLMSL 258

Query: 181 -----------------------------------------IDTLITERIRFIELLKEKK 199
                                                    I             +   K
Sbjct: 259 CDQLEQHSLTSLDAHQQLVEILLTTLTDSQNADELAKNWARISEHFDTLFTTEASIDALK 318

Query: 200 QALVSYIVTKGLNPDVKMKD-------------------------------SGIEWVGLV 228
           Q ++   V   L P     +                               S  E    +
Sbjct: 319 QTILQLAVMGKLVPQDPNDEPASELLKRIAQEKAQLVKDGKIKKQKPLPPISDEEKPFEL 378

Query: 229 PDHWEVKPFFALVT----ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE---SYE 281
           PD WE      L         +   + I+++   L   N+ +     +   + E      
Sbjct: 379 PDGWEWCCIDDLTFVSGGIQKQPKRRPIKNHFPYLRVANVQRGNINIDELERFELEPHEL 438

Query: 282 TYQIVDPGEIVF--RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI-DSTYLAWLMR 338
           T+  +   +I+            R       +E+ +  +  + V+        ++A  + 
Sbjct: 439 TFWSLKKNDILIVEGNGSADEIGRCAIWLAPIEKCVYQNHLIRVRGIMDGHQEFIALYLN 498

Query: 339 SYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL-VEK 395
           S    K    +   +    +L    ++ + + +PP+ +Q  I + I       + L +  
Sbjct: 499 SPSGIKEMQRLAVTTSGLYNLSVGKIRGITIPLPPLNQQNLILSKIREYIFICENLKISL 558

Query: 396 IEQSIVLLKERRSSFIAAAVT 416
                  L       +A A+T
Sbjct: 559 QSAQQTQLH------LADALT 573



 Score = 55.6 bits (132), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 32/202 (15%), Positives = 60/202 (29%), Gaps = 13/202 (6%)

Query: 20  AIPKHWKVVPIKRFTKLNTG-----RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
            +P  W+   I   T ++ G     +         Y+ + +V+ G       +    +  
Sbjct: 377 ELPDGWEWCCIDDLTFVSGGIQKQPKRRPIKNHFPYLRVANVQRGNINIDELERFELEPH 436

Query: 75  TSTVSIFAKGQILY----GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELL----QG 126
             T     K  IL     G      R AI       C  Q  +++ + ++          
Sbjct: 437 ELTFWSLKKNDILIVEGNGSADEIGRCAIWLAPIEKCVYQNHLIRVRGIMDGHQEFIALY 496

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
                 + +        + + +     I  I +P+PPL +Q LI  KI       + L  
Sbjct: 497 LNSPSGIKEMQRLAVTTSGLYNLSVGKIRGITIPLPPLNQQNLILSKIREYIFICENLKI 556

Query: 187 ERIRFIELLKEKKQALVSYIVT 208
                 +       AL    + 
Sbjct: 557 SLQSAQQTQLHLADALTDAAIN 578


>gi|92112221|ref|YP_572149.1| restriction modification system DNA specificity protein
           [Chromohalobacter salexigens DSM 3043]
 gi|91795311|gb|ABE57450.1| restriction modification system DNA specificity protein
           [Chromohalobacter salexigens DSM 3043]
          Length = 538

 Score = 97.9 bits (242), Expect = 2e-18,   Method: Composition-based stats.
 Identities = 63/477 (13%), Positives = 138/477 (28%), Gaps = 83/477 (17%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKD--IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           HW  +   +  ++N  +  +  ++  + +I +  V   +G+Y   D    +      + F
Sbjct: 25  HWLWIEHNQIAEINPKK-PKLDEELSVSFIPMGAVAEESGRYTTDDSKKFEDVKKGYTYF 83

Query: 82  AKGQILYGKLGPYLRKAII------ADFDGICSTQFLVLQPKDVLPELLQGWLLSID-VT 134
           + G IL+ K+ P +    +       +  G  ST+F V +  + + +    +        
Sbjct: 84  SDGDILFAKITPCMENGKVALLSNLTNGVGFGSTEFHVSRLTEAVEKKFYFYFFVSKSFR 143

Query: 135 QRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKII------------------ 175
           ++ +A   G+            N+ +P+ P  EQ  I  KI                   
Sbjct: 144 KQAQANMAGSAGQLRVTTDYFSNVSVPLCPTREQQRIVTKIEELFSEIDSGVESLKTAQA 203

Query: 176 ----------------AETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVK--- 216
                             T +      +R    E L E+ QA       + L        
Sbjct: 204 KLKTARQSLLKAAFEGKLTEQWRKDNADRQESPEALLERIQAEREAHYQQQLTDWQHQLK 263

Query: 217 -----------------------MKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI- 252
                                  +    +  +  +P+ W+      +             
Sbjct: 264 DWEAAGKEGKKPRKPKVPKALPPLTQQELAELPELPEGWKWINLGNISEISGGITKNQKR 323

Query: 253 ---ESNILSLSYGNII-QKLETRNMGLK--PESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
                    L   N+   KLE  ++              +   +++    +   D+    
Sbjct: 324 QSLPQKNPFLRVANVYANKLELDDIHFIGTTPDEAKRAKLKKDDLLIVEGNGSPDQIGRV 383

Query: 307 SAQVM--ERGIITSAYMAVKPHGIDSTYL-AWLMRSYDLCKVFYAMGSGLR--QSLKFED 361
           +      E     +  +  +     S       + S    K    + S      +L    
Sbjct: 384 AKWDGSIEHCTHQNHLIRSRLASPISADFVLHFLLSATGRKAIKKVASSTSGLYTLSLAK 443

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           V++L + V    EQ  I + +    +++D L   +  S+   +  + S +  A  G+
Sbjct: 444 VEKLCIPVCSKNEQMMIVDQLESRLSQLDQLERTLTASMKQAEALKQSILKRAFAGR 500



 Score = 71.7 bits (174), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 25/221 (11%), Positives = 72/221 (32%), Gaps = 13/221 (5%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESG-----KDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           +  +P+ WK + +   ++++ G T         +   ++ + +V +   +          
Sbjct: 295 LPELPEGWKWINLGNISEISGGITKNQKRQSLPQKNPFLRVANVYANKLELDDIHFIGTT 354

Query: 73  SDTSTVSIFAKGQILY----GKLGPYLRKAIIAD--FDGICSTQFLVLQPKDVL--PELL 124
            D +  +   K  +L     G      R A               +  +    +    +L
Sbjct: 355 PDEAKRAKLKKDDLLIVEGNGSPDQIGRVAKWDGSIEHCTHQNHLIRSRLASPISADFVL 414

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
              L +       +     + +       +  + +P+    EQ++I +++ +   ++D L
Sbjct: 415 HFLLSATGRKAIKKVASSTSGLYTLSLAKVEKLCIPVCSKNEQMMIVDQLESRLSQLDQL 474

Query: 185 ITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWV 225
                  ++  +  KQ+++       L P     +   E +
Sbjct: 475 ERTLTASMKQAEALKQSILKRAFAGRLVPQDPDDEPASELL 515


>gi|111222733|ref|YP_713527.1| Type I restriction modification enzyme protein S [Frankia alni
           ACN14a]
 gi|111150265|emb|CAJ61962.1| Type I restriction modification enzyme protein S [Frankia alni
           ACN14a]
          Length = 399

 Score = 97.9 bits (242), Expect = 2e-18,   Method: Composition-based stats.
 Identities = 57/407 (14%), Positives = 125/407 (30%), Gaps = 31/407 (7%)

Query: 28  VPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKY---LPKDGNSRQSDTSTV 78
            P+  F ++ +G T ++      G +I +    D+ S   K+     +        +   
Sbjct: 7   TPLGEFCEIISGATPKTASEEYWGGEIPWATPRDLGSLNSKFLASTSRAITEAGLRSCAT 66

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
            +   G +L     P      I       +  F  L P          +        R++
Sbjct: 67  HVLPAGSVLLTSRAPI-GSVAINARPMATNQGFKSLVPDTSRALPGYLYHWLRCQRSRLQ 125

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
           ++  GAT           I +P+PPL+EQ  I + +               R      E 
Sbjct: 126 SLGNGATFKELSKSATARIAVPLPPLSEQKRIEQMLDQADTIRARRRETIARLE----EL 181

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
            Q++ S +     NP    +      +  +    +       +    R     +      
Sbjct: 182 AQSIFSVMFG---NPVQNERGWRRVPLSELVVRIDSGRSPVCLDRPARPGEWGVLKLGAV 238

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
            S    + +           +  +   V PG+++F   + +    +          ++  
Sbjct: 239 TS---CVYRAGENKALPPDVAAFSACEVRPGDLLFSRKNTRELVAACALVDATPARLLLP 295

Query: 319 AYM----AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPP 371
             +          +D  YL  L+   +  +    + SG      ++    +  L + +PP
Sbjct: 296 DLIFRLVVEPRSAVDPVYLHRLLTHPEKRRKVQGLASGSSASMPNISKSRLLGLEIELPP 355

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           ++ Q +  N +      ++ +    + S+V   E  +S    A  G+
Sbjct: 356 MEVQKEFANRVRA----LERIKVAHQASLVEQDELVASLAHRAFRGE 398


>gi|94267246|ref|ZP_01290822.1| Restriction modification system DNA specificity domain [delta
           proteobacterium MLMS-1]
 gi|93452076|gb|EAT02762.1| Restriction modification system DNA specificity domain [delta
           proteobacterium MLMS-1]
          Length = 578

 Score = 97.9 bits (242), Expect = 2e-18,   Method: Composition-based stats.
 Identities = 76/466 (16%), Positives = 138/466 (29%), Gaps = 91/466 (19%)

Query: 21  IPKHWKVVPIKRFTKL-NTGRTSESGK--DIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +PK W+ V +   T    T +        D   + LED+E  + K L K     +   S+
Sbjct: 101 LPKGWEWVRLGDVTNYGVTEKAEPGETSPDTWVLELEDIEKESSKLLQKVFQRDRQFKSS 160

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL-LSIDVTQR 136
            + F +G +LYGKL PYL K +IAD  G+C+T+ + ++    L          + +    
Sbjct: 161 KNKFIRGDVLYGKLRPYLDKVLIADASGVCTTEIMPIRAFTGLQSEYLRLSLKTPNFKNY 220

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK----------------------- 173
                 G  +            + +PP  EQ  I EK                       
Sbjct: 221 ATNSTHGMNLPRLGTDKARLALLALPPAPEQSRIVEKVDELMALCDRLEQQTSDQLAAHE 280

Query: 174 ------------------IIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDV 215
                             + A   R+ T           +   KQ ++   V   L P  
Sbjct: 281 TLVETLLDTLTRSADATELAANWTRLQTHFDTLFTTESSIDRLKQTILQLAVMGRLVPQD 340

Query: 216 KMKD-------------------------------SGIEWVGLVPDHWEVKPFFALVTEL 244
             ++                               S  E    +PD WE   F  +    
Sbjct: 341 PNEEPASALLKKIAAEKARLVKEGKIKKTKPLPEISEEEKPFALPDGWEWCRFTDIGELA 400

Query: 245 NRKNTK--------LIESNILSLSYGNI---IQKLETRNMGLKPESYETYQIVDPGEIVF 293
             K+           I      +  G++    +K+ T          E  ++   G +  
Sbjct: 401 RGKSKHRPRNDPALYIGGKTPLVQTGDVARADRKITTFTALYNQAGVEQSKLWKAGTLCI 460

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL 353
                  D   L         ++           + + Y  + +R+     +     S  
Sbjct: 461 TIAANIGDTGILGFDACFPDSVVG---FTPFDDRLKNEYFEYFLRTAK-KNLEEFAPSTA 516

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
           ++++  E ++ + V +PP +E   I    +      D     + Q+
Sbjct: 517 QKNINLEVLQNVLVPLPPARELVRIVEKTDKLMGLCDQFKASLSQA 562



 Score = 58.3 bits (139), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 30/195 (15%), Positives = 57/195 (29%), Gaps = 10/195 (5%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTS--ESGKDIIYIG-------LEDVESGTGKYLPKDGNSR 71
           +P  W+        +L  G++         +YIG         DV     K         
Sbjct: 384 LPDGWEWCRFTDIGELARGKSKHRPRNDPALYIGGKTPLVQTGDVARADRKITTFTALYN 443

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
           Q+      ++  G +    +   +    I  FD       +   P D   +         
Sbjct: 444 QAGVEQSKLWKAGTLCIT-IAANIGDTGILGFDACFPDSVVGFTPFDDRLKNEYFEYFLR 502

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
              + +E         + + + + N+ +P+PP  E V I EK        D       + 
Sbjct: 503 TAKKNLEEFAPSTAQKNINLEVLQNVLVPLPPARELVRIVEKTDKLMGLCDQFKASLSQA 562

Query: 192 IELLKEKKQALVSYI 206
            +       A ++ I
Sbjct: 563 CQTQHHLTGATMAQI 577



 Score = 40.9 bits (94), Expect = 0.41,   Method: Composition-based stats.
 Identities = 19/133 (14%), Positives = 45/133 (33%), Gaps = 4/133 (3%)

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
             +      G++++  +    DK  +  A  +     T         G+ S YL   +++
Sbjct: 158 KSSKNKFIRGDVLYGKLRPYLDKVLIADASGV---CTTEIMPIRAFTGLQSEYLRLSLKT 214

Query: 340 YDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
            +          G+    L  +  +   + +PP  EQ  I   ++   A  D L ++   
Sbjct: 215 PNFKNYATNSTHGMNLPRLGTDKARLALLALPPAPEQSRIVEKVDELMALCDRLEQQTSD 274

Query: 399 SIVLLKERRSSFI 411
            +   +    + +
Sbjct: 275 QLAAHETLVETLL 287


>gi|169825230|ref|YP_001692841.1| putative type I restriction enzyme S protein [Finegoldia magna ATCC
           29328]
 gi|167832035|dbj|BAG08951.1| putative type I restriction enzyme S protein [Finegoldia magna ATCC
           29328]
          Length = 410

 Score = 97.9 bits (242), Expect = 3e-18,   Method: Composition-based stats.
 Identities = 47/421 (11%), Positives = 121/421 (28%), Gaps = 41/421 (9%)

Query: 27  VVPIKRFTKLNTGRTSESGKDII----YIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            V +      N G   +S +        + + D    +            +D     I  
Sbjct: 5   EVKLGDIITYNKGYAFKSNEYTNTGKMVVRVTDFTLDSIS-DNDSVYLEPNDKYKKFIIN 63

Query: 83  KGQILYGKLGPY--------LRKAIIADFD--GICSTQFLVLQPKDVLPELLQGW--LLS 130
              IL   +G +         +   + D       +   + + P          +    +
Sbjct: 64  TNDILIQTVGSWANNPNSIVGKVVRVPDKCNKAYLNQNIVRIIPNRDFNNTYLYYALKAN 123

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
              T  +      A  +      I         L+EQ  I + + +    I+        
Sbjct: 124 QFSTYCVLRGQGAANQASITLDTIFKFKFRAHLLSEQKRIADILSSYDNLIENNNKRIKL 183

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVT---ELNRK 247
             ++ +   +         G           +E+   +P  WE       +        K
Sbjct: 184 LEQMAENLYKEWFVRFRFPG--------YEDVEFENGIPKGWEEVRLGEFINLASGYAFK 235

Query: 248 NTKLIESNILSLSYGNIIQ-KLETRNMGLKPES---YETYQIVDPGEIVFRFIDLQNDKR 303
           +    +  +  +   +I   K++  N+    E          V  G+I+         K 
Sbjct: 236 SDWWTDQGVPVIKIKDIQNGKIDLTNLDYVSEDNAQKAKNFYVGKGDILIALTGATIGKV 295

Query: 304 SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG--LRQSLKFED 361
            + +   +        +   KP   +  Y+  L +   + ++          + ++   D
Sbjct: 296 GIVTHDNVLVNQRVGKFFIKKPSIKNIGYIYSLFKQNWIQELIVMYSGSNAAQPNISPFD 355

Query: 362 VKRLPVLVPPIKEQFDI-TNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQID 420
           +++  ++         +  +  NV    I   + K+ +   LL+++R   +   ++G+++
Sbjct: 356 IEKFKIIY------NKVYVDKFNVIVYPIYDSIIKLYEKNELLEKQRDLLLPRLMSGKLE 409

Query: 421 L 421
           +
Sbjct: 410 V 410



 Score = 69.1 bits (167), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 41/211 (19%), Positives = 80/211 (37%), Gaps = 7/211 (3%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTG 61
            +P Y+D  V++   IPK W+ V +  F  L +G   +S     + +  I ++D+++G  
Sbjct: 200 RFPGYED--VEFENGIPKGWEEVRLGEFINLASGYAFKSDWWTDQGVPVIKIKDIQNGKI 257

Query: 62  KYLPKDGNSRQSDTSTV-SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL 120
                D  S  +          KG IL    G  + K  I   D +   Q +        
Sbjct: 258 DLTNLDYVSEDNAQKAKNFYVGKGDILIALTGATIGKVGIVTHDNVLVNQRVGKFFIKKP 317

Query: 121 PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
                G++ S+     I+ +    + S+A    I    +    +    +  +K       
Sbjct: 318 SIKNIGYIYSLFKQNWIQELIVMYSGSNAAQPNISPFDIEKFKIIYNKVYVDKFNVIVYP 377

Query: 181 IDTLITERIRFIELLKEKKQALVSYIVTKGL 211
           I   I +     ELL++++  L+  +++  L
Sbjct: 378 IYDSIIKLYEKNELLEKQRDLLLPRLMSGKL 408


>gi|159028181|emb|CAO89788.1| hsdS [Microcystis aeruginosa PCC 7806]
          Length = 406

 Score = 97.9 bits (242), Expect = 3e-18,   Method: Composition-based stats.
 Identities = 68/425 (16%), Positives = 129/425 (30%), Gaps = 49/425 (11%)

Query: 21  IPKHWKVVPIKRFTK-----LNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           +PK W +V +          +  G    S K  I+     VESG   Y  ++        
Sbjct: 3   LPKTWSLVALGDIAAHEKGAIRRGPFGGSLKKEIF-----VESGFKVYEQQNAIKDDFQI 57

Query: 76  STVSI------------FAKGQILYGKLGPYLRKAIIADF--DGICSTQFLVLQPKDVLP 121
               I                 ++    G   + AI+      G+ +   + ++P   + 
Sbjct: 58  GNYFIDEDKFREMEGFNVKPHDLIISCAGTIGKVAIVPYEALPGVINQALMRIRPNPEII 117

Query: 122 ELLQ--GWLLSIDVTQRIEAICEGATMSHAD-WKGIGNIPMPIPPLAEQVLIREKIIAET 178
                   L S    + I     G+ + +      I    +P+PPL EQ  I   +    
Sbjct: 118 LCRYLKWLLESPKYQRDIFGKSAGSALKNLAAISEIKKCKIPLPPLEEQRRIAAILDKAD 177

Query: 179 VRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFF 238
                         EL       L S  +    +P    K   I  +G +         F
Sbjct: 178 GVRRKRKEAIRLTEEL-------LRSTFLEMFGDPVTNPKGWEIVKLGSLVVGQPNNGIF 230

Query: 239 ALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDL 298
               E            +  L  G  I   E+R +    E  + + +   G+I+F    L
Sbjct: 231 KKNHEYGGDTPV---VWVKELFSGYTIDCSESRTLTPTDEEVKKFGLT-KGDILFCRSSL 286

Query: 299 QNDKRSLRSAQVMERGI----ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-L 353
             D     +                 + +    ++S +L +L+    L K   A  +   
Sbjct: 287 NRDGIGFNNVFDGMDFSALFECHIIRVRLNQKKVNSIFLNYLLHFPGLRKQIIAKANTVT 346

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
             ++   ++K++   +PP + Q    +   +   +I     K+E      +   +S +  
Sbjct: 347 MSTIGQSEIKKIEFYLPPKELQ----DKFEIFLRKIATNRTKLENK--ESENLFNSLLQR 400

Query: 414 AVTGQ 418
           A  G+
Sbjct: 401 AFRGE 405


>gi|152991445|ref|YP_001357167.1| type I restriction-modification system, S subunit [Nitratiruptor
           sp. SB155-2]
 gi|151423306|dbj|BAF70810.1| type I restriction-modification system, S subunit [Nitratiruptor
           sp. SB155-2]
          Length = 373

 Score = 97.9 bits (242), Expect = 3e-18,   Method: Composition-based stats.
 Identities = 60/409 (14%), Positives = 116/409 (28%), Gaps = 47/409 (11%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           WK   +    ++   +          +   + +   G Y P  G S   D     IF   
Sbjct: 4   WKEYKLNEIAEIFDHKRIP-------LSTMERQKRKGIY-PYYGASGIIDYIDDFIFDGE 55

Query: 85  QILYGKLGPYLR-----KAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
            +L  + G  LR      A IA      +    V++ K+     L  +            
Sbjct: 56  YVLISEDGENLRTRQSPIAFIAKGKFWVNNHAHVIKGKNNYLNKLIVYYFKNLNLNPFL- 114

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLA-EQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
              GA     +   + +IP+ +P    EQ  I   + +   +ID           LL  +
Sbjct: 115 --TGAVQPKLNKTTLLSIPIYLPEDMSEQKAIASVLSSFDDKID-----------LLHRQ 161

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
            Q L               +   IE      +   +   F  +   + K +   E     
Sbjct: 162 NQTLEQMA-------QTLFRKWFIEEAKEDWEEGFLPDEFDFLMGHSPKGSSFNEYGFGI 214

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
             Y                 +           ++     +     +L      E+  I  
Sbjct: 215 PMYQGNADFGFRFPKKRIFTTEPKRFAEKFDTLISVRAPVGEQNMAL------EKCCIGR 268

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQF 376
                +     + Y     +   L            +  S+   D ++L +++PPI    
Sbjct: 269 GLARFRYKLNPNFYSYTYYKLKYLINKIKLFNDEGTVFGSISKGDFQKLEIMIPPID--- 325

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGES 425
            I      +   ID  + +    I  LK+ R + +   ++G+I ++   
Sbjct: 326 -IIEKFQQQVKPIDDKIIQNSLQIQTLKKLRDTLLPKLMSGEIRIKNAE 373



 Score = 38.6 bits (88), Expect = 1.8,   Method: Composition-based stats.
 Identities = 20/182 (10%), Positives = 46/182 (25%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + W+   +        G + +      Y     +  G   +  +    R   T       
Sbjct: 183 EDWEEGFLPDEFDFLMGHSPKGSSFNEYGFGIPMYQGNADFGFRFPKKRIFTTEPKRFAE 242

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           K   L     P   + +  +   I           +        + L   + +      E
Sbjct: 243 KFDTLISVRAPVGEQNMALEKCCIGRGLARFRYKLNPNFYSYTYYKLKYLINKIKLFNDE 302

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           G             + + IPP+      ++++     +I     +     +L       L
Sbjct: 303 GTVFGSISKGDFQKLEIMIPPIDIIEKFQQQVKPIDDKIIQNSLQIQTLKKLRDTLLPKL 362

Query: 203 VS 204
           +S
Sbjct: 363 MS 364


>gi|157156744|ref|YP_001461441.1| type I restriction modification DNA specificity domain-containing
           protein [Escherichia coli E24377A]
 gi|157078774|gb|ABV18482.1| type I restriction modification DNA specificity domain protein
           [Escherichia coli E24377A]
          Length = 471

 Score = 97.9 bits (242), Expect = 3e-18,   Method: Composition-based stats.
 Identities = 54/458 (11%), Positives = 135/458 (29%), Gaps = 65/458 (14%)

Query: 30  IKRFTK-LNTGRTSESGK---DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           +      ++ G T+ + +      ++ + D++ G   +      +  +   +      G 
Sbjct: 10  LTDICDDVSYGYTASANEQCIGPKFLRITDIQGGLCNWNAVPYCNIDAKNKSKYNLEIGD 69

Query: 86  ILYGKLG-PYLRKAIIADFDGICSTQF---LVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
           I+  + G       II D        +     +      P  +   L + +    +    
Sbjct: 70  IVIARTGNSTGENYIIQDDIDSVFASYLIRYRINKSIADPYFVWLNLRTDNWWSYVNGAK 129

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            G+  + A+ K +G+ P+ +P L  QV I +       +I           ++ +   ++
Sbjct: 130 TGSAQAGANAKVLGSYPLSLPSLTRQVGISKLFKIINGKIFENTKINQTLEQMAQALFKS 189

Query: 202 LVSY------------------------------------IVTKGLNPDVK--MKDSGI- 222
                                                    V +  +P+    +K +   
Sbjct: 190 WFVNFEPVKAKMAVLEAGGSQEDATLAAMTAISGKNADALAVFEREHPEQYAELKATAEL 249

Query: 223 -------EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL 275
                    +G +P+ W +    A +             +       +     +  N+  
Sbjct: 250 FPLAMQDSELGEIPEGWTLSEIGAQIDIAGGATPSTKTPDFWDNGDIHWTTPKDLSNVKD 309

Query: 276 KPESYETYQIVDPGE-------IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
           K   +   +I   G        +    + + +       A       I   Y+A+K +  
Sbjct: 310 KILLHTERKITKAGLGKISSGLLPVNTVLMSSRAPVGYLAIAKVPVAINQGYIAMKCNKE 369

Query: 329 DSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
            S        S ++ ++           +  ++   +P++ PP++           + + 
Sbjct: 370 LSPEFVLQWCSANMPEIISRASGTTFAEISKKNFNPIPLVKPPLEL----VKNYTKQVSA 425

Query: 389 IDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
           I  L+E   +    L E R + +   ++G+I L    Q
Sbjct: 426 IYSLIENTMRENNSLTELRDTLLPKLLSGEITLPEAEQ 463



 Score = 61.7 bits (148), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 34/206 (16%), Positives = 62/206 (30%), Gaps = 15/206 (7%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVESGTG 61
             +DS    +G IP+ W +  I     +  G T  +         DI +   +D+ +   
Sbjct: 253 AMQDSE---LGEIPEGWTLSEIGAQIDIAGGATPSTKTPDFWDNGDIHWTTPKDLSNVKD 309

Query: 62  KY---LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKD 118
           K      +          +  +     +L     P      IA      +  ++ ++   
Sbjct: 310 KILLHTERKITKAGLGKISSGLLPVNTVLMSSRAPV-GYLAIAKVPVAINQGYIAMKCNK 368

Query: 119 VLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
            L                I +   G T +    K    IP+  PPL       +++ A  
Sbjct: 369 EL-SPEFVLQWCSANMPEIISRASGTTFAEISKKNFNPIPLVKPPLELVKNYTKQVSAIY 427

Query: 179 VRIDTLITERIRFIELLKEKKQALVS 204
             I+  + E     EL       L+S
Sbjct: 428 SLIENTMRENNSLTELRDTLLPKLLS 453



 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/187 (9%), Positives = 51/187 (27%), Gaps = 8/187 (4%)

Query: 228 VPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL---KPESYETYQ 284
            P  + +      V+     +          L   +I   L   N           ++  
Sbjct: 4   EPKEYCLTDICDDVSYGYTASANEQCIGPKFLRITDIQGGLCNWNAVPYCNIDAKNKSKY 63

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCK 344
            ++ G+IV         +  +    +            +     D  ++   +R+ +   
Sbjct: 64  NLEIGDIVIARTGNSTGENYIIQDDIDSVFASYLIRYRINKSIADPYFVWLNLRTDNWWS 123

Query: 345 VFY-AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
               A     +     + +   P+ +P +  Q  I    +     I+  + +  +    L
Sbjct: 124 YVNGAKTGSAQAGANAKVLGSYPLSLPSLTRQVGI----SKLFKIINGKIFENTKINQTL 179

Query: 404 KERRSSF 410
           ++   + 
Sbjct: 180 EQMAQAL 186


>gi|301382338|ref|ZP_07230756.1| restriction modification system DNA specificity subunit
           [Pseudomonas syringae pv. tomato Max13]
          Length = 424

 Score = 97.9 bits (242), Expect = 3e-18,   Method: Composition-based stats.
 Identities = 44/403 (10%), Positives = 106/403 (26%), Gaps = 29/403 (7%)

Query: 24  HWKVVPIKRFTKLNTGRTSESG-KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            WK   +++  +  + R       +++ +  E       +Y  K      +D        
Sbjct: 32  GWKETQLQKIARSVSDRAVTGDGDNVLSLSGEHGLVLQSEYFGKKIAGDITD--RYLKLL 89

Query: 83  KGQILYGKLGPYLRKAIIAD-----FDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
           +   +Y                     GI S  +   +       +   W       +  
Sbjct: 90  RDDFVYNDRTTKASTFGTIKRLSKYSGGIVSPIYKCFRFHTGEDPVFWEWYFESGSHEAQ 149

Query: 138 EAICEGAT----MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
                         +   +   +     P   EQ  + E +      +D  I  + R + 
Sbjct: 150 LGSLVNEGARAGRFNISIRQFLSTTAWRPDEREQQKVAEFL----SSVDDFIAAQARKVT 205

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
            LK  K+ L   +  +      +++    + V              +       N     
Sbjct: 206 ALKIYKKGLTQRLFPQESESQPRLRFPEFQNVEEWKVKRLSGMIELISGMHLSPNDYSTV 265

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
             +   +              +   +  T  +    +I+     ++           +  
Sbjct: 266 GEVPYFTGP---SDFTNNLSNVTKWTKRTANVSKAEDILIT---VKGSGVGEIWYSTLPE 319

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPI 372
             +    MA++     S ++   +++      F  +GSG +   L    +  L    P +
Sbjct: 320 IAMGRQLMAIRSKSGASRFMFQFLQTK--KNHFKDLGSGNMIPGLSRAVILELEASFPNL 377

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            EQ  I + +      +D L+    Q    L+  +   +    
Sbjct: 378 PEQQRIADCL----TSLDDLIAAQTQKHEALETYKMGLMQQLF 416



 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 25/182 (13%), Positives = 52/182 (28%), Gaps = 4/182 (2%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + WKV  +    +L +G             +    +G   +     N  +    T ++  
Sbjct: 238 EEWKVKRLSGMIELISGMHLSPNDYSTVGEVPYF-TGPSDFTNNLSNVTKWTKRTANVSK 296

Query: 83  KGQILYGKLGPYLRKAIIADFDGIC-STQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
              IL    G  + +   +    I    Q + ++ K      +  +L +       + + 
Sbjct: 297 AEDILITVKGSGVGEIWYSTLPEIAMGRQLMAIRSKSGASRFMFQFLQTK--KNHFKDLG 354

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            G  +       I  +    P L EQ  I + + +    I     +            Q 
Sbjct: 355 SGNMIPGLSRAVILELEASFPNLPEQQRIADCLTSLDDLIAAQTQKHEALETYKMGLMQQ 414

Query: 202 LV 203
           L 
Sbjct: 415 LF 416


>gi|269797186|ref|YP_003311086.1| restriction modification system DNA specificity domain protein
           [Veillonella parvula DSM 2008]
 gi|269093815|gb|ACZ23806.1| restriction modification system DNA specificity domain protein
           [Veillonella parvula DSM 2008]
          Length = 400

 Score = 97.6 bits (241), Expect = 3e-18,   Method: Composition-based stats.
 Identities = 53/407 (13%), Positives = 128/407 (31%), Gaps = 21/407 (5%)

Query: 26  KVVPIKRFT-KLNTGRT---SESGKDIIYIGLEDVESGTGKYLPKDGNS---RQSDTSTV 78
           + V ++     ++ G      +S   I +I + ++ S                       
Sbjct: 4   QTVRLQDLCISISDGDHQAPPKSNSGIPFITISNITSMNQLDFSSSMFVPRWYYEKLDIK 63

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICST---QFLVLQPKDVLPELLQGWLLSIDVTQ 135
               K  ILY  +G +     + +            L    + ++P+ L   +L      
Sbjct: 64  RTAQKNDILYSVVGSFGIPVFMKNSIEFVFQRHIALLRPNIEKIVPQYLYYKILDRAFYM 123

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
             +++  GA         + NI + IP + +Q  I + + A    I+    +     E +
Sbjct: 124 MADSLAIGAAQRTITLSSLRNIEINIPEVEQQQSIVDILSAYDDLIENNQKQIKLLEETV 183

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
           +   +     +   G      +    + W     D              + + T L +  
Sbjct: 184 QRLYKEWFIDLRFPGHGNGEIIDGLPLGWHEDTIDTKVNLLNGFAFKSKDLEETGLFKLV 243

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
            +        +    + +   P+    +  +D G+++            +         +
Sbjct: 244 TIKNVQDGYFEGKNVKYLSKIPDKMPRHCHLDEGDLLLSLTGNVGRVCIV----EGNDFL 299

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKE 374
           +      +        Y   L RS +L      + +G  +Q++    + ++  L P    
Sbjct: 300 LNQRVAKISSET--PAYTYCLFRSNELLVKINNIANGAAQQNVSPIRIGQIKHLFPND-- 355

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
              I +     +  I   V  ++++I+LL+E R   +   + G+I++
Sbjct: 356 -KLIMDF-ERVSGPILKRVVLMKKNIILLEEARDRLLPKLMNGEIEV 400


>gi|209527350|ref|ZP_03275858.1| restriction modification system DNA specificity domain [Arthrospira
           maxima CS-328]
 gi|209492208|gb|EDZ92555.1| restriction modification system DNA specificity domain [Arthrospira
           maxima CS-328]
          Length = 440

 Score = 97.6 bits (241), Expect = 3e-18,   Method: Composition-based stats.
 Identities = 62/436 (14%), Positives = 138/436 (31%), Gaps = 44/436 (10%)

Query: 27  VVPIKRFTKLN----TGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            +P+ +  +                I  I   ++++G       +  S ++     +   
Sbjct: 7   WIPLSQLCEAIVDCEHKTAPVQDSGIPSIRTTNIKNGRLDLENANLVSEETYKLWTARLE 66

Query: 83  K--GQILYGKLGPYLRKAIIADFDGIC---STQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
                ++  +  P     I+     +C    T  +    K + P  L   LL+ ++   +
Sbjct: 67  PQPNDLILAREAPVGEVGIVPRGKRVCLGQRTVLIRPDGKKLFPRYLLYLLLTPEMRHEM 126

Query: 138 EAICEGATMSHADWKGIGNI-PMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
               EG+ + H +   I N    P PPL EQ  I   +     +I+           + +
Sbjct: 127 TCRAEGSVVPHLNMSDIRNFEIPPPPPLDEQKAIAHILGTLDDKIELNQQMNRTLEAIAR 186

Query: 197 EKKQALVSYI----------VTKGLNPDVKMKDSGIEW---VGLVPDHWEVKPFFALVTE 243
              ++                  G++ ++ +          +G +P  W  +    +   
Sbjct: 187 AIFKSWFIDFDPVRAKMDGRQPVGMDAEMAVLFPDEFEDSPLGQIPKGWTYQAANCIANI 246

Query: 244 LNRKNTKLIESNILSLSYGN--IIQKLETRNMGLKPESYETY-----------QIVDPGE 290
              K     E    SL+  N   +   +    G+     + Y           +IV    
Sbjct: 247 GIGKTPPRKEQAWFSLNLKNIRWVSIRDMGASGVFIRKTKEYLIPDALHKFSIKIVPDNT 306

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG 350
           ++  F              V    I  + +         S YL   +  +D  ++     
Sbjct: 307 VLLSFKLTIGRVVLTDGEMVTNEAI--AHFKLPVYTPFSSEYLYLYLEKFDYNQL--GNT 362

Query: 351 SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
           S + Q++  + +K +P+L P       I N  +   A I   +++ +Q    L   R + 
Sbjct: 363 SSIAQAVNSKIIKEMPILNPGAD----ILNTFSCRIASIFRKIKQTQQESETLSSIRDTL 418

Query: 411 IAAAVTGQIDLRGESQ 426
           +   ++G+I ++   +
Sbjct: 419 LPKLLSGEIRVKDAEK 434



 Score = 47.1 bits (110), Expect = 0.005,   Method: Composition-based stats.
 Identities = 26/216 (12%), Positives = 61/216 (28%), Gaps = 21/216 (9%)

Query: 8   PQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESG---------KDIIYIGLEDV-- 56
            +++DS    +G IPK W          +  G+T             K+I ++ + D+  
Sbjct: 221 DEFEDSP---LGQIPKGWTYQAANCIANIGIGKTPPRKEQAWFSLNLKNIRWVSIRDMGA 277

Query: 57  ESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP 116
                +   +          ++ I     +L       + + ++ D + + +      + 
Sbjct: 278 SGVFIRKTKEYLIPDALHKFSIKIVPDNTVLLS-FKLTIGRVVLTDGEMVTNEAIAHFKL 336

Query: 117 KDVLP-ELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKII 175
               P      +L                  +         I   +P L     I     
Sbjct: 337 PVYTPFSSEYLYLYLEKFDYNQLGNTSSIAQAVNSK-----IIKEMPILNPGADILNTFS 391

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVSYIVTKGL 211
                I   I +  +  E L   +  L+  +++  +
Sbjct: 392 CRIASIFRKIKQTQQESETLSSIRDTLLPKLLSGEI 427


>gi|16799598|ref|NP_469866.1| hypothetical protein lin0523 [Listeria innocua Clip11262]
 gi|16412963|emb|CAC95755.1| lin0523 [Listeria innocua Clip11262]
          Length = 397

 Score = 97.6 bits (241), Expect = 3e-18,   Method: Composition-based stats.
 Identities = 53/391 (13%), Positives = 123/391 (31%), Gaps = 30/391 (7%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+   ++       G+  E  +D              K++  +G  ++     V     G
Sbjct: 20  WEQRKLRDIANYRNGKAHEQVEDED----GKYTIINSKFISTNGKVQRYTNEQVEPIFDG 75

Query: 85  QILYGKLGPYLRKA------IIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           +I          KA      +  D     + +   + P + +  +   + ++ +      
Sbjct: 76  EIAMVLSDLPNGKALAKLFLVKEDGKYTLNQRIAGITPNENIDPIFLNFRMNRN--NYFL 133

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
               G T ++     + N     P   EQ  I         ++D  I    R ++ LK  
Sbjct: 134 KFDSGVTQTNLSKSQVENFIALYPTFDEQYKIGLF----FTQLDDTIALHQRKLDTLKLM 189

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
           K+ L+  +  K      K++    + +         +     + E   K +    +  L+
Sbjct: 190 KKGLLQQMFPKRGENIPKIRFDDFDDIWEQ------RILGEFLKESKIKGSNGSLAKKLT 243

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
           +      + +  +       S   Y I   G+ ++  +D  N    +   ++        
Sbjct: 244 VKL--WRKGVVPKEEIYTGSSATQYYIRKTGQFIYGKLDFLNQAFGIIPLELDGYESTLD 301

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR--QSLKFEDVKRLPVLVPPIKEQF 376
           +        I+ T+L   +      K    + +G R  + +  +    +P+ +P   EQ 
Sbjct: 302 SPAFDIEESINETFLLEYVSLARFYKYQGNIANGSRRAKRIHTDTFFEMPIPLPNSNEQQ 361

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERR 407
            I       + +ID L+   +  +  L   +
Sbjct: 362 KIGTF----SRQIDDLIALQQNKLEKLSSLK 388



 Score = 67.1 bits (162), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 31/186 (16%), Positives = 61/186 (32%), Gaps = 9/186 (4%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG 289
           + WE +    +    N K  + +E      +  N   K  + N  ++  + E  + +  G
Sbjct: 18  EAWEQRKLRDIANYRNGKAHEQVEDEDGKYTIIN--SKFISTNGKVQRYTNEQVEPIFDG 75

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERG--IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY 347
           EI     DL N K   +   V E G   +      + P+  +   +    R         
Sbjct: 76  EIAMVLSDLPNGKALAKLFLVKEDGKYTLNQRIAGITPNE-NIDPIFLNFRMNRNNYFLK 134

Query: 348 AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
                 + +L    V+    L P   EQ+ I         ++D  +   ++ +  LK  +
Sbjct: 135 FDSGVTQTNLSKSQVENFIALYPTFDEQYKIGLF----FTQLDDTIALHQRKLDTLKLMK 190

Query: 408 SSFIAA 413
              +  
Sbjct: 191 KGLLQQ 196


>gi|307708293|ref|ZP_07644760.1| sty sbli [Streptococcus mitis NCTC 12261]
 gi|307615739|gb|EFN94945.1| sty sbli [Streptococcus mitis NCTC 12261]
          Length = 385

 Score = 97.6 bits (241), Expect = 3e-18,   Method: Composition-based stats.
 Identities = 45/399 (11%), Positives = 106/399 (26%), Gaps = 27/399 (6%)

Query: 29  PIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYL--PKDGNSRQSDTSTVSI 80
            +     + +G T ++        DI ++ + D  +         K       + S   +
Sbjct: 4   KLSDVVTIISGGTPKTSVKEYWDGDIDWLAVADFNTSNRYVSTASKKITELGLNNSNTKM 63

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
             KG ++    G     A +       +     L+ K    E    +    +    +   
Sbjct: 64  LEKGDLIISARGTVGAIAQLTKPMA-FNQSCFGLRGKKNKLETDYLYYWLKNYVDILLNK 122

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
            +G+  +  +     +I + +P +  Q  I   +     +I                   
Sbjct: 123 SQGSVFNTINLSTFDDIKIDLPNIENQRSISNFLTLLDNKIQINNQINQEL--------- 173

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
                 + K L     ++    +  G        K  +    +        +E     L+
Sbjct: 174 ----EAMAKTLYDYWFVQFDFPDQNGKPYKSSGGKMVYHPELKREIPEGWGVEKLKYFLT 229

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
             N       ++                  +      L   K +L +   +     T   
Sbjct: 230 IKNGKDHKHLQDGKFAVYGSGGIMRTVADYLYSGESILFPRKGTLNNVMYVNEEFWTVDT 289

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
           M       +++ L ++  S                S+    +  L ++VP  +E  +I  
Sbjct: 290 MFYSEVNKNNSAL-YVFYSVKDIDFNKLNTGTGVPSMTSSILYDLNIIVP--EE--NILE 344

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
             N    +    ++        L + R   +   + GQ+
Sbjct: 345 KFNTIVKQNYETIKLNNIQNQELNQLRDWLLPMLMNGQV 383



 Score = 44.4 bits (103), Expect = 0.036,   Method: Composition-based stats.
 Identities = 26/184 (14%), Positives = 55/184 (29%), Gaps = 22/184 (11%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            IP+ W V  +K F  +  G+  +  +D  +                 G+     T    
Sbjct: 214 EIPEGWGVEKLKYFLTIKNGKDHKHLQDGKF--------------AVYGSGGIMRTVADY 259

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           +++   IL+ + G       + +      T F     K+     +   +  ID       
Sbjct: 260 LYSGESILFPRKGTLNNVMYVNEEFWTVDTMFYSEVNKNNSALYVFYSVKDIDF----NK 315

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
           +  G  +         +I   +  +  +  I EK      +    I       + L + +
Sbjct: 316 LNTGTGVPSMTS----SILYDLNIIVPEENILEKFNTIVKQNYETIKLNNIQNQELNQLR 371

Query: 200 QALV 203
             L+
Sbjct: 372 DWLL 375


>gi|223934052|ref|ZP_03626004.1| restriction modification system DNA specificity domain protein
           [Streptococcus suis 89/1591]
 gi|223897279|gb|EEF63688.1| restriction modification system DNA specificity domain protein
           [Streptococcus suis 89/1591]
          Length = 425

 Score = 97.6 bits (241), Expect = 3e-18,   Method: Composition-based stats.
 Identities = 72/402 (17%), Positives = 149/402 (37%), Gaps = 42/402 (10%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDI--IYIGLEDVESGTG------------KYLPKDGNS 70
           WK   +      +    S S   +   +  ++++  G              K LP    S
Sbjct: 20  WKQRKLGEVADFSIKTNSLSRDKLSSYFYEVQNIHYGDILTKYDAILDVCNKELPSIIGS 79

Query: 71  RQSDTSTVSIFAKGQILYGK---LGPYLRKAIIADFDG--ICST-QFLVLQPKDVLPELL 124
             SD +   + ++G I++          +   + +F G  + S    +V +PK       
Sbjct: 80  TISDFADA-LLSEGDIVFADAAEDSTVGKAIEVRNFKGKNVVSGLHTIVARPKVSYAPYY 138

Query: 125 QGWLLSI-DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
            G+L++      +I  + +G  +S      + +  +  P L EQ  I          +D 
Sbjct: 139 LGYLINSTAYHNQILPLMQGTKVSSISKANLKSTTVVFPTLPEQEAIGSF----FSDLDQ 194

Query: 184 LITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTE 243
           LIT   R ++ +KE K+AL+  +  KG   D               D W+ +    +  +
Sbjct: 195 LITLHQRKLDDVKELKKALLQKMFPKGNGNDFP-----ELRFPEFTDAWKQRKLGEVAEK 249

Query: 244 LNRKN--TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFR-FIDLQN 300
           +++KN   + +E+   S  +G I Q+          ++   Y IV+P + V+   I    
Sbjct: 250 ISQKNLDRQYVETFTNSAEFGIISQRDFFEKNISSLDNISGYYIVNPDDFVYNPRISNLA 309

Query: 301 DKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL----RQS 356
               ++  ++   G+++  Y   +   I   ++     +    +     G       R +
Sbjct: 310 PVGPIKRNKLGRVGVMSPLYTIFRFSDIHLDFVEKYFDTTIWHRYMELNGDSGARSDRFA 369

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
           +K    K LP+ +P + EQ  I +      + +D L+   ++
Sbjct: 370 IKDSVFKGLPIPLPTLPEQEAIGSF----FSDLDQLITLHQR 407



 Score = 81.4 bits (199), Expect = 3e-13,   Method: Composition-based stats.
 Identities = 28/211 (13%), Positives = 67/211 (31%), Gaps = 11/211 (5%)

Query: 207 VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ 266
                +   + K   +    +  +        +   E+   N    +      +  ++  
Sbjct: 13  FPGFTDAWKQRKLGEVADFSIKTNSLSRDKLSSYFYEVQ--NIHYGDILTKYDAILDVCN 70

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFI--DLQNDKRSLRSAQVMERGIITSAYMAVK 324
           K     +G     +    ++  G+IVF     D    K         +  +     +  +
Sbjct: 71  KELPSIIGSTISDF-ADALLSEGDIVFADAAEDSTVGKAIEVRNFKGKNVVSGLHTIVAR 129

Query: 325 PHGID-STYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
           P       YL +L+ S         +  G    S+   ++K   V+ P + EQ  I +  
Sbjct: 130 PKVSYAPYYLGYLINSTAYHNQILPLMQGTKVSSISKANLKSTTVVFPTLPEQEAIGSF- 188

Query: 383 NVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
               + +D L+   ++ +  +KE + + +  
Sbjct: 189 ---FSDLDQLITLHQRKLDDVKELKKALLQK 216


>gi|163803499|ref|ZP_02197370.1| type I restriction-modification system, S subunit [Vibrio sp. AND4]
 gi|159172717|gb|EDP57567.1| type I restriction-modification system, S subunit [Vibrio sp. AND4]
          Length = 463

 Score = 97.6 bits (241), Expect = 3e-18,   Method: Composition-based stats.
 Identities = 61/432 (14%), Positives = 143/432 (33%), Gaps = 44/432 (10%)

Query: 30  IKRFTKLNTGRTSESGK---DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV--SIFAKG 84
           +     L  G              + ++ +  G         + R      +   +  K 
Sbjct: 10  LGELGSLKNGANFNKNDAGDGCPVMSVKQLFRGRYVDTEGLSSIRIGTLKKLDDYLVRKN 69

Query: 85  QILYGKLG----PYLRKAIIADFDGIC-----STQFLVLQPKDVLPELLQGWLLSIDVTQ 135
            +L+ +         + AI+ D+   C     + +F +     V P  L   L S    +
Sbjct: 70  DLLFARSSLKAEGSGQVAIVNDYPENCIFSGFTIRFRLFDESKVNPLYLYYLLRSAKYRE 129

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
               I  G+ +S+     +  IP+ +P    Q  + + +     + +          ++ 
Sbjct: 130 IFVRITTGSVISNLTQATLSKIPVELPNKETQDYVAKILDELDRKNELATATNQTLEQMA 189

Query: 196 KEKKQALVS-----YIVTKGLNPDVK-------MKDSGIE-WVGLVPDHWEVKPFFALV- 241
           +   ++             G  P+           +  +E  +GL+P+ W V      + 
Sbjct: 190 QAIFKSWFVDFDPVKAKMNGEQPEGMDAATASLFPEKLVESELGLIPEGWPVDQVGNHIE 249

Query: 242 --TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES--YETYQIVDPGEIVFRFID 297
                + K+++L ES    ++  +  +    R  GLK  +  Y+  Q+++ G++V    D
Sbjct: 250 LTKGKSYKSSELQESTTALVTLKSFKRGGGYRMDGLKEYTGTYKPQQVIEAGDLVMSLTD 309

Query: 298 LQ------NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW-LMRSYDLCKVFYAMG 350
           +            +  A   +  + +     ++P   D+    + LM +Y   +   +  
Sbjct: 310 VTQAAEIVGKPALVIEAPQYDTLVASLDVAILRPKETDAKQYFYGLMSTYRFHRYAESFA 369

Query: 351 SGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
           +G     L  + +       P      ++    +   A I   +E        L + R +
Sbjct: 370 TGTTVLHLSPKGITTFEFACPS----TELVKKYHEFAAPIFAKIEANILESQELVKLRDT 425

Query: 410 FIAAAVTGQIDL 421
            +   ++G+I+L
Sbjct: 426 LLPKLLSGEIEL 437



 Score = 57.1 bits (136), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 33/202 (16%), Positives = 63/202 (31%), Gaps = 16/202 (7%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQS 73
           +G IP+ W V  +    +L  G++ +S +        + L+  + G G Y          
Sbjct: 232 LGLIPEGWPVDQVGNHIELTKGKSYKSSELQESTTALVTLKSFKRGGG-YRMDGLKEYTG 290

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGIC----------STQFLVLQPKDVLPEL 123
                 +   G ++           I+     +           S    +L+PK+   + 
Sbjct: 291 TYKPQQVIEAGDLVMSLTDVTQAAEIVGKPALVIEAPQYDTLVASLDVAILRPKETDAKQ 350

Query: 124 LQG-WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
                + +    +  E+   G T+ H   KGI       P         E       +I+
Sbjct: 351 YFYGLMSTYRFHRYAESFATGTTVLHLSPKGITTFEFACPSTELVKKYHEFAAPIFAKIE 410

Query: 183 TLITERIRFIELLKEKKQALVS 204
             I E    ++L       L+S
Sbjct: 411 ANILESQELVKLRDTLLPKLLS 432


>gi|308062170|gb|ADO04058.1| Type I R-M system specificity subunit [Helicobacter pylori Cuz20]
          Length = 425

 Score = 97.6 bits (241), Expect = 3e-18,   Method: Composition-based stats.
 Identities = 58/414 (14%), Positives = 131/414 (31%), Gaps = 32/414 (7%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYI--GLEDVESGTG------KYLPKDGNSRQS 73
           PK  +   +    +   G T +  ++I  +  G++ + +          +      ++  
Sbjct: 13  PKGVEFRKLGDIGEYIRGVTYKKNQEINNLECGIKVLRANNITLSNHLNFEDIKVINKNV 72

Query: 74  DTSTVSIFAKGQILY---GKLGPYLRKAIIA--DFDGICSTQFLVLQPKDVLPELLQGWL 128
                    K  IL         ++ K      DFD +      V++ ++V    +    
Sbjct: 73  KIRKEQYLKKNDILICAGSGSSEHIGKVAFINTDFDYVFGGFMGVIRIREVNSRFVYHIF 132

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
            S    Q +E      T+++ +   + N  +PIPPL  Q  I + + A T     L TE 
Sbjct: 133 TSNIFKQYLEKSLNTTTINNLNANILQNFLIPIPPLEIQQEIVKILDAFTELNTELNTEL 192

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKM------KDSGIEWVGLVPDHWEVKPFFALVT 242
               +  +  +  L+ +      + D KM      K        L P   E +    ++ 
Sbjct: 193 KARKKQYQYYQNMLLDFKDIHSNHKDAKMSAKTYPKRLKTLLQTLAPKGVEFRKLGEVLE 252

Query: 243 ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK 302
                   +            ++   +T  +G   E    YQ      ++       +  
Sbjct: 253 YDQPNKYCVTSKEFDKSYPTPVLTAGKTFILGYTNEKDNIYQASKSSPVII----FDDFT 308

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDV 362
            + +      +   ++  + +  +   +    +         +    G   RQ +     
Sbjct: 309 TATQWVDFPFKVKSSAMKILLPKNPTINIRFIFFYMQTIPYNI---SGEHTRQWISR--Y 363

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
            ++ + +PP++ Q +I  +++   A    L+  I   I   K+     R   + 
Sbjct: 364 SQITIPIPPLEIQQEIVKILDQFLALTTDLLAGIPAEIEARKKQYEYYREKLLT 417


>gi|322628320|gb|EFY25108.1| restriction modification system DNA specificity domain protein
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. 495297-4]
 gi|322649127|gb|EFY45568.1| restriction modification system DNA specificity domain protein
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. OH_2009072675]
          Length = 229

 Score = 97.6 bits (241), Expect = 4e-18,   Method: Composition-based stats.
 Identities = 40/242 (16%), Positives = 84/242 (34%), Gaps = 19/242 (7%)

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
              + +   +++K+AL+  ++T        + ++G+ + G     W       +   +  
Sbjct: 1   MTEKLLANSQQQKKALIQQLLT---GKKRLLDENGVRFSGE----WCTCTLSEVAHIIMG 53

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ--IVDPGEIVFRFIDLQNDKRS 304
            + K    N   L    I    + +     P  Y +       PG+I+            
Sbjct: 54  SSPKSEAYNDNGLGLPLIQGNADIKCRVSCPRVYTSDITKECTPGDILLSVRAPVGTVA- 112

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKR 364
                   +  I     A+K     S    +    +   K  Y       +S+  +D+K 
Sbjct: 113 ----LSQHKACIGRGISAIKSKRKMSQSFLYQWFLWFEPKWCYLSQGSTFESINSDDIKT 168

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR-G 423
           L + VP  +EQ  I  V++     I  L    E+ +  LK  + + +   +TG+  ++  
Sbjct: 169 LKLSVPNFEEQQKIAAVLSAADTEISTL----EKKLACLKNEKKALMQQLLTGKRRVKVD 224

Query: 424 ES 425
           E+
Sbjct: 225 EA 226



 Score = 58.3 bits (139), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 27/191 (14%), Positives = 55/191 (28%), Gaps = 6/191 (3%)

Query: 14  GVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
           GV++ G     W    +     +  G + +S           +  G      +    R  
Sbjct: 32  GVRFSGE----WCTCTLSEVAHIIMGSSPKSEAYNDNGLGLPLIQGNADIKCRVSCPRVY 87

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
            +        G IL     P      ++            ++ K  +      +   +  
Sbjct: 88  TSDITKECTPGDILLSVRAPV-GTVALSQHKACIGRGISAIKSKRKM-SQSFLYQWFLWF 145

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
             +   + +G+T    +   I  + + +P   EQ  I   + A    I TL  +      
Sbjct: 146 EPKWCYLSQGSTFESINSDDIKTLKLSVPNFEEQQKIAAVLSAADTEISTLEKKLACLKN 205

Query: 194 LLKEKKQALVS 204
             K   Q L++
Sbjct: 206 EKKALMQQLLT 216


>gi|153947182|ref|YP_001402491.1| type I restriction-modification system, S subunit [Yersinia
           pseudotuberculosis IP 31758]
 gi|152958677|gb|ABS46138.1| putative type I restriction-modification system, S subunit
           [Yersinia pseudotuberculosis IP 31758]
          Length = 419

 Score = 97.6 bits (241), Expect = 4e-18,   Method: Composition-based stats.
 Identities = 53/408 (12%), Positives = 128/408 (31%), Gaps = 27/408 (6%)

Query: 24  HWKVVPIKRFTKLNTGRTSE---SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           +W    + + T +  G       +   ++++  E+++S T     K  +           
Sbjct: 18  NWLNFNLSQITDVYDGTHQTPAYTKSGVMFLSAENIKSLTS---TKFISEEAFKKEFKVY 74

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
             K  +L  ++G      ++   D       L L     +        ++    Q+   +
Sbjct: 75  PKKNDVLMTRIGDVGTANVVETDDDRAYYVTLALLKYKKISPYFLKSSIASPFVQKDIWL 134

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
                ++      +  I          V+  +KI      +D LI +  +  + L   K+
Sbjct: 135 RT-LHIAFPKKINMNEIKKVAVNCPPDVVESDKIGQYFKNLDALINQHQQKHDKLSNIKK 193

Query: 201 ALVSYIVTKGLN--PDVKMKDSGIEWVGLVPDHWEVKPFFAL--------VTELNRKNTK 250
           A++  +  K     P+++ K    EW   +P                     +   KN  
Sbjct: 194 AMLEKMFPKPGKTIPEIRFKGFSGEW-EEMPFGACFINVSNNTLSRADLNYDDGMAKNIH 252

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
             +  I      +   +L          +   +  +  G+I+       +          
Sbjct: 253 YGDVLIKFGEVLDATNELLPFITNNDVANKLKHAALRDGDIIIADAAEDSMVGKCTELFN 312

Query: 311 MERGIITSAYMAVKPHGID---STYLAWLMRSYDLCKVFYAMGSGLRQ-SLKFEDVKRLP 366
           +   ++ S    +         S YL + + S        ++  G +  S+    ++   
Sbjct: 313 IGEQLVLSGLHTIAVRPTLTFASKYLGYYLNSSSYHDQLLSLMQGTKVLSISRTAIQNTN 372

Query: 367 VLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           ++ P   +EQ +I N       ++D L+ + +Q I  L   + + ++ 
Sbjct: 373 IVFPKSAEEQVEIGNY----FQKLDALINQHQQQITKLNNIKQACLSK 416


>gi|330971616|gb|EGH71682.1| type I restriction enzyme, S subunit [Pseudomonas syringae pv.
           aceris str. M302273PT]
          Length = 198

 Score = 97.6 bits (241), Expect = 4e-18,   Method: Composition-based stats.
 Identities = 47/199 (23%), Positives = 73/199 (36%), Gaps = 15/199 (7%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTK--LNT--GRTSESGKDIIYIGLEDV 56
           M  + +YP YKDSGV+W+G +P+ W V  IKR     +N   G   +   DI  I + D 
Sbjct: 1   MS-FPSYPTYKDSGVEWLGEVPQSWSVYSIKRTVDGCINGLWGDEPDGENDIAVIRVADF 59

Query: 57  ESGTGKYLPKDGNSRQS--DTSTVSIFAKGQILYGKLG----PYLRKAII--ADFDGICS 108
           E             R          +   G +L  K G      +   ++   +FD I S
Sbjct: 60  ERSFSTVGLDKLTYRSITPKERQSRLIKSGDLLIEKSGGGEKTLVGCVVLFTHEFDAITS 119

Query: 109 TQFLVLQPKDVLPELLQGWLLSIDVTQRIE--AICEGATMSHADWKGIGNIPMPIPPLAE 166
                ++P          +        R+   ++ +   + + D +         P   E
Sbjct: 120 NFVARMRPLAEFDSQFLCYAFGNLYHGRVNYPSVKQVTGIQNLDAESYLQERFCFPTRVE 179

Query: 167 QVLIREKIIAETVRIDTLI 185
           Q  I   +  ET RID LI
Sbjct: 180 QTQIARFLNHETARIDALI 198



 Score = 69.8 bits (169), Expect = 9e-10,   Method: Composition-based stats.
 Identities = 38/193 (19%), Positives = 66/193 (34%), Gaps = 13/193 (6%)

Query: 214 DVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK---NTKLIESNILSLSYGNIIQKLET 270
               KDSG+EW+G VP  W V      V         +    E++I  +   +  +   T
Sbjct: 6   YPTYKDSGVEWLGEVPQSWSVYSIKRTVDGCINGLWGDEPDGENDIAVIRVADFERSFST 65

Query: 271 RNMGL-----KPESYETYQIVDPGEIVFRFIDLQND--KRSLRSAQVMERGIITSAYMAV 323
             +               +++  G+++              +         I ++    +
Sbjct: 66  VGLDKLTYRSITPKERQSRLIKSGDLLIEKSGGGEKTLVGCVVLFTHEFDAITSNFVARM 125

Query: 324 KP-HGIDSTYLAWLMRSYDLCKVFYAMGS--GLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
           +P    DS +L +   +    +V Y         Q+L  E   +     P   EQ  I  
Sbjct: 126 RPLAEFDSQFLCYAFGNLYHGRVNYPSVKQVTGIQNLDAESYLQERFCFPTRVEQTQIAR 185

Query: 381 VINVETARIDVLV 393
            +N ETARID L+
Sbjct: 186 FLNHETARIDALI 198


>gi|317182100|dbj|BAJ59884.1| Type I restriction-modification system specificity subunit
           [Helicobacter pylori F57]
          Length = 430

 Score = 97.6 bits (241), Expect = 4e-18,   Method: Composition-based stats.
 Identities = 50/415 (12%), Positives = 123/415 (29%), Gaps = 34/415 (8%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPKDGNSRQSD 74
           PK  +   ++   ++  G T             I +  +ED+            +     
Sbjct: 13  PKGVEFKTLEEVFEIKNGYTPSKNNPEFWEKGTIPWFRMEDIRENGRILKDSIQHITPKA 72

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP---ELLQGWLLSI 131
                +F K  I+          A++   D + + +F  L  K       ++   +    
Sbjct: 73  LKGKKLFPKNSIMISTTATIGEHALLI-VDSLANQRFTFLSKKANCDLALDMKFFFYQCF 131

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            + +  +     +  +  D         PIPPL  Q  I + + A T     L TE    
Sbjct: 132 LLGEWCKKNTNVSGFASVDMTAFKKYKFPIPPLEIQQEIVKILDAFTELNTELNTELNTE 191

Query: 192 IELLKEKKQALVSYIVTKG--LNPDVKMKDSGIEWVGL--------VPDHWEVKPFFALV 241
           ++  K++ +   + ++      +     K S   +            P   E +    ++
Sbjct: 192 LKARKKQYEYYQNMLLDFKGIHSNHKDAKMSAKTYPKRLKSLLQTLAPKGVEFRKLGEVL 251

Query: 242 TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQND 301
                    +            ++   +T  +G   E    YQ      ++       + 
Sbjct: 252 EYDQPNKYCVTSKEFDKSYPTPVLTAGKTFILGYTNEKDNIYQASKSSPVII----FDDF 307

Query: 302 KRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFED 361
             + +      +   ++  + +  +   +    +         +    G   RQ +    
Sbjct: 308 TTATQWVDFPFKVKSSAMKILLPKNPTINIRFIFFYMQTIPYNI---SGEHTRQWISR-- 362

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
             ++ + +PP++ Q +I  +++  +     L+  I   I   K+     R   + 
Sbjct: 363 YSKITIPIPPLEIQQEIVKILDQFSILTTDLLAGIPAEIEARKKQYEYYREKLLT 417


>gi|332297063|ref|YP_004438985.1| restriction modification system DNA specificity domain protein
           [Treponema brennaborense DSM 12168]
 gi|332180166|gb|AEE15854.1| restriction modification system DNA specificity domain protein
           [Treponema brennaborense DSM 12168]
          Length = 407

 Score = 97.6 bits (241), Expect = 4e-18,   Method: Composition-based stats.
 Identities = 59/399 (14%), Positives = 136/399 (34%), Gaps = 22/399 (5%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + W+   +   +  N      +     Y+ LE V SGT     +      + +    +  
Sbjct: 16  EDWEEKTLGEVSDFNPKSEIPNI--FKYVDLESV-SGTQLLQYRTETKDSAPSRAQRLAR 72

Query: 83  KGQILYGKLGPYLRKAIIADFD---GICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           K  I Y  + PY +   + D D    + ST +  ++P  +    L   L   +  + +  
Sbjct: 73  KNDIFYQTVRPYQKNNFLYDKDDLDFVFSTGYAQIRP-FIDSSFLFTKLQEDEFVKLVLD 131

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
            C G +    +   + N+ + I   + +      +      IDTLIT +    E L + K
Sbjct: 132 NCTGTSYPAINSNTLENLSVYITTNSIEQTKIGTL---FKNIDTLITSKKAKYEKLLQIK 188

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFA----LVTELNRKNTKLIESN 255
           ++L+  +  +       ++  G           E+    +      ++   K  K + + 
Sbjct: 189 KSLLEKMFPQDGQATPALRFKGFTEDWKEKTMGEIMNITSVKRIHQSDWTNKGIKFLRAR 248

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYET-YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
            +  SY N            K + Y +    V   +++   +        + + + +   
Sbjct: 249 DIVASYKNEKITDNLFISKQKYDEYTSISGKVKIEDLLVTGVGTIGIPMQIENLEPVYFK 308

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY-AMGSGLRQSLKFEDVKRLPVLVP-PI 372
                      + I+  +  +      +      + G+G   +   E  K+ P+++P   
Sbjct: 309 DGN-IIWFQNSNKINGNFFYYSFCGKKIQYFIKESAGTGTVGTYTIESGKKTPIILPIDK 367

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
            EQ  I N       ++D L+   ++ +  L+  + + +
Sbjct: 368 AEQTKIGNF----FKQLDTLLSLQKKELDKLQNVKKALL 402



 Score = 50.9 bits (120), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 24/182 (13%), Positives = 55/182 (30%), Gaps = 6/182 (3%)

Query: 233 EVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIV 292
             +     V++ N K+        + L   +  Q L+ R            ++    +I 
Sbjct: 18  WEEKTLGEVSDFNPKSEIPNIFKYVDLESVSGTQLLQYRTETKDSAPSRAQRLARKNDIF 77

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
           ++ +        L     ++  + ++ Y  ++P    S     L     +  V       
Sbjct: 78  YQTVRPYQKNNFLYDKDDLD-FVFSTGYAQIRPFIDSSFLFTKLQEDEFVKLVLDNCTGT 136

Query: 353 LRQSLKFEDVKRLPVLVPPIK-EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
              ++    ++ L V +     EQ  I          ID L+   +     L + + S +
Sbjct: 137 SYPAINSNTLENLSVYITTNSIEQTKIG----TLFKNIDTLITSKKAKYEKLLQIKKSLL 192

Query: 412 AA 413
             
Sbjct: 193 EK 194


>gi|319946656|ref|ZP_08020890.1| putative restriction modification system DNA specificity subunit
           [Streptococcus australis ATCC 700641]
 gi|319746704|gb|EFV98963.1| putative restriction modification system DNA specificity subunit
           [Streptococcus australis ATCC 700641]
          Length = 386

 Score = 97.2 bits (240), Expect = 4e-18,   Method: Composition-based stats.
 Identities = 52/415 (12%), Positives = 121/415 (29%), Gaps = 54/415 (13%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
           + +        G++ +    +I I   +   G                          I+
Sbjct: 4   IKLGDIIDFKNGKSVKKSDGVIPIYGGNGILGYTDKSNFSHT----------------IV 47

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMS 147
            G++G Y     + +     S   +   PK+        ++L       + +   G++  
Sbjct: 48  VGRVGAYCGSIYVEENSCWVSDNAIAGVPKEGQDLTYLYYVLKSL---NLNSKQIGSSQP 104

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
                    +   +  +   +  +++I      ID  I    +  + L+   + L  Y  
Sbjct: 105 LITQS---MLRDMVVDIEINIEKQKRIANSISIIDQKIQINNQINQELEAMAKTLYDYWF 161

Query: 208 TKGLNPDV---KMKDSG------IEWVGLVPDHWEVKPFFALVTELNRKNT------KLI 252
            +   PD      K SG       E    +P+ W V     +    +             
Sbjct: 162 VQFDFPDQNGKPYKSSGGKMVYHPELKLEIPEGWGVDKIEDIAKTGSGGTPKSTNVSYYS 221

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPES---YETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
              I  ++ G + Q + T       E      + ++   G I+         K S  + +
Sbjct: 222 NGEIPWINSGELEQTVITSTSNFITEEGLNNSSAKLFPSGTILVAMYGATAGKVSFLTFE 281

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRS---YDLCKVFYAMGSGLRQSLKFEDVKRLP 366
                 I +  +           + + +++        +        R +L  + +K + 
Sbjct: 282 ASTNQAICAIMLKDI-------RMRYYLKNVIEDLYQYLVKLSTGSARDNLSQDMIKNIK 334

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           V++P       I +     +  I   + K +Q    L + R   +   + GQ+ +
Sbjct: 335 VVIPSND----ILDRFYDFSNNIIKEITKKQQENEQLTQLRDWILPMLMNGQVKV 385



 Score = 73.7 bits (179), Expect = 5e-11,   Method: Composition-based stats.
 Identities = 35/195 (17%), Positives = 62/195 (31%), Gaps = 8/195 (4%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
            IP+ W V  I+   K  +G T +S         +I +I   ++E               
Sbjct: 190 EIPEGWGVDKIEDIAKTGSGGTPKSTNVSYYSNGEIPWINSGELEQTVITSTSNFITEEG 249

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
            + S+  +F  G IL    G    K     F+   +     +  KD +        +  D
Sbjct: 250 LNNSSAKLFPSGTILVAMYGATAGKVSFLTFEASTNQAICAIMLKD-IRMRYYLKNVIED 308

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           + Q +  +  G+   +     I NI + IP         +        I     E  +  
Sbjct: 309 LYQYLVKLSTGSARDNLSQDMIKNIKVVIPSNDILDRFYDFSNNIIKEITKKQQENEQLT 368

Query: 193 ELLKEKKQALVSYIV 207
           +L       L++  V
Sbjct: 369 QLRDWILPMLMNGQV 383


>gi|299822016|ref|ZP_07053903.1| type I restriction-modification system specificity subunit
           [Listeria grayi DSM 20601]
 gi|299816644|gb|EFI83881.1| type I restriction-modification system specificity subunit
           [Listeria grayi DSM 20601]
          Length = 376

 Score = 97.2 bits (240), Expect = 4e-18,   Method: Composition-based stats.
 Identities = 51/392 (13%), Positives = 117/392 (29%), Gaps = 33/392 (8%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W+      F  + +G+  +            + SG        G     D    ++   
Sbjct: 17  DWEERKFADFIDVKSGKDYK-----------HLNSGPIPVYGTGGYMLSVD---RALSDI 62

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
             I  G+ G   +  ++        T F  + PK  +      + LSI      +   E 
Sbjct: 63  DAIGIGRKGTIDKPYLLKAPFWTVDTLFYAV-PKQNID---LQFSLSIFKKINWKKFDES 118

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
             +       I ++   +P   EQ  I         ++D  I    R +EL+K+ KQ  +
Sbjct: 119 TGVPSLSKTVINSVGAFVPSYEEQQKIGSF----FKQLDETIALHQRKLELIKQLKQGFL 174

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
             +  +       ++ +  E          +            + +   +     +    
Sbjct: 175 QQMFVREDEKGPVLRFADFESEWEQRKLGALGSVVMNKRIFKEQTSDDGDVPFYKIGTFG 234

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
             +     +  L  E  E Y   + G+I+          RS+      E    ++     
Sbjct: 235 -SEPDAYISYELFLEYKEKYPYPEIGDILLSASGSIG--RSVVYEGKDEYFQDSNIIWLK 291

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
               +D+      ++ + L   +  +     + L  +++    + +P   EQ  I     
Sbjct: 292 HDERLDNK----FLKQFYLIVKWQGLEGSTIKRLYNKNILDTNIFLPSPTEQGKIGCF-- 345

Query: 384 VETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
               ++D ++      +  L+  +  ++ A  
Sbjct: 346 --FEKLDTIIALHHNKLEQLQSLKKGYLKALF 375



 Score = 63.3 bits (152), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 14/97 (14%), Positives = 35/97 (36%), Gaps = 9/97 (9%)

Query: 330 STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
           +  L + +  +          S    SL    +  +   VP  +EQ  I +       ++
Sbjct: 97  NIDLQFSLSIFKKINWKKFDESTGVPSLSKTVINSVGAFVPSYEEQQKIGSF----FKQL 152

Query: 390 DVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
           D  +   ++ + L+K+ +  F+         +R + +
Sbjct: 153 DETIALHQRKLELIKQLKQGFLQQMF-----VREDEK 184



 Score = 47.5 bits (111), Expect = 0.004,   Method: Composition-based stats.
 Identities = 26/186 (13%), Positives = 49/186 (26%), Gaps = 10/186 (5%)

Query: 23  KHWKVVPIKRFTKLNTGRTS-----ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
             W+   +     +   +           D+ +  +    S    Y+  +          
Sbjct: 195 SEWEQRKLGALGSVVMNKRIFKEQTSDDGDVPFYKIGTFGSEPDAYISYELFL--EYKEK 252

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
                 G IL    G   R  +    D       ++    D   +        + V  + 
Sbjct: 253 YPYPEIGDILLSASGSIGRSVVYEGKDEYFQDSNIIWLKHDERLDNKFLKQFYLIVKWQG 312

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
               EG+T+     K I +  + +P   EQ  I          I     +  +   L K 
Sbjct: 313 L---EGSTIKRLYNKNILDTNIFLPSPTEQGKIGCFFEKLDTIIALHHNKLEQLQSLKKG 369

Query: 198 KKQALV 203
             +AL 
Sbjct: 370 YLKALF 375


>gi|307127561|ref|YP_003879592.1| type I restriction-modification system S subunit [Streptococcus
           pneumoniae 670-6B]
 gi|306484623|gb|ADM91492.1| type I restriction-modification system S subunit [Streptococcus
           pneumoniae 670-6B]
          Length = 352

 Score = 97.2 bits (240), Expect = 4e-18,   Method: Composition-based stats.
 Identities = 51/392 (13%), Positives = 115/392 (29%), Gaps = 44/392 (11%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V +     L  G+ +    +   +    ++    +       +   + +         
Sbjct: 2   KKVKLGEVLSLKKGKKATVLAEQTTLSQRYIQIDDLRNNNNLKFTESLNMTEAL---PDD 58

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW--LLSIDVTQRIEAICEG 143
           IL    G             + ST  ++ + +    +++  +  +     +Q +     G
Sbjct: 59  ILIAWDGANAGTVGYGLSGAVGSTITVLKKNERYKEKIISDYLGVFLESKSQYLRDHSTG 118

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           AT+ H +   + ++ + +  + EQ  I   +      I     +      L+        
Sbjct: 119 ATIPHLNKNILLDLQLELLGIEEQENIICILNTIKRLITKRKFQLDELNLLV-------- 170

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
                         K    E  G V  + +          L  +N K  +    +     
Sbjct: 171 --------------KSRFNEMFGDVILNEKEWKVSKWNEILTIRNGKNQKQVEDADGKFP 216

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
           I               Y    IV    ++       N    +R              +  
Sbjct: 217 IYGSGGI-------MGYAKDWIVKKNSVIIGRKGNINKPILVRENFWNVDTAFG---LEP 266

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
               I+S YL +  + Y+  K+  A+      SL   D+  + + +PP+  Q +  + + 
Sbjct: 267 VLEKINSEYLFYFCQLYNFEKLNKAV---TIPSLTKSDLLNISIPLPPLALQNEFADFV- 322

Query: 384 VETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
              A +D     I++S+  L+  + S +    
Sbjct: 323 ---ALVDKSQLAIQKSLEELETLKKSLMQEYF 351



 Score = 52.9 bits (125), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 32/185 (17%), Positives = 64/185 (34%), Gaps = 19/185 (10%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           K WKV        +  G+  +            VE   GK+ P  G+      +   I  
Sbjct: 186 KEWKVSKWNEILTIRNGKNQKQ-----------VEDADGKF-PIYGSGGIMGYAKDWIVK 233

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           K  ++ G+ G   +  ++ +      T F +    + +      +   +      E + +
Sbjct: 234 KNSVIIGRKGNINKPILVRENFWNVDTAFGLEPVLEKINSEYLFYFCQLY---NFEKLNK 290

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
             T+       + NI +P+PPLA Q    +        +D       + +E L+  K++L
Sbjct: 291 AVTIPSLTKSDLLNISIPLPPLALQNEFADF----VALVDKSQLAIQKSLEELETLKKSL 346

Query: 203 VSYIV 207
           +    
Sbjct: 347 MQEYF 351


>gi|283469727|emb|CAQ48938.1| Sau1hsdS1 [Staphylococcus aureus subsp. aureus ST398]
          Length = 392

 Score = 97.2 bits (240), Expect = 4e-18,   Method: Composition-based stats.
 Identities = 49/398 (12%), Positives = 105/398 (26%), Gaps = 36/398 (9%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W+   +  F    T +  +           ++   + K       S   +     +  +
Sbjct: 20  EWEEKKLGEFAGKVTQKNVDKKYIETLTNSAELGIISQKDYFDKEISNIDNIKKYYVVEE 79

Query: 84  GQILYGKLGPYLRKAIIAD-----FDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
              +Y             +       G+ S  + V + +++    ++ +  S    + + 
Sbjct: 80  NDFVYNPRMSNYAPFGPVNRNKLGKKGVMSPLYTVFKIQNIDLNFIEFYFKSSKWYRFMA 139

Query: 139 AICEGATM---SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
              +            +    +P+ IP + EQ+ I +       +I+    +     +  
Sbjct: 140 LNGDSGARADRFSIKDRTFMEMPLHIPCMDEQIKIGQFFSKLDRQIELEEQKLELLQQQK 199

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
           K   Q + S  +               +  G     WE      +      K        
Sbjct: 200 KGYMQKIFSQELRFK------------DENGKDYPEWEETTIKEIAQINTGKKDTK---- 243

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
                  + I           P  Y+       GE +    D     +        +   
Sbjct: 244 -------DAITNGSYDFYVRSPIVYKINTFSYEGEAILTVGDGVGVGKVF-HYVNGKFDY 295

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
               Y            L +      L +           S++ + +  + V  P   EQ
Sbjct: 296 HQRVYKISDFKNYYGLLLFYYFSQNFLKETKKYSAKTSVDSVRKDMIANMKVPRPIYIEQ 355

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
             I   I     R+D   +  +Q I LLK+R+ S +  
Sbjct: 356 KKIGQFI----KRVDNKTKIQKQVIELLKQRKKSLLQK 389


>gi|269978374|gb|ACZ55921.1| putative type I restriction-modification system specificity subunit
           S [Helicobacter pylori]
          Length = 431

 Score = 97.2 bits (240), Expect = 4e-18,   Method: Composition-based stats.
 Identities = 50/417 (11%), Positives = 118/417 (28%), Gaps = 36/417 (8%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPKDGNSRQSD 74
           PK  +   ++   ++  G T             I +  +ED+            +     
Sbjct: 13  PKGVEFKTLEEVFEIRNGYTPSKNNPEFWKNGTIPWFRMEDLRENGRILKDSIQHITPKA 72

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP---ELLQGWLLSI 131
                +F K  I+          A++   D + + +F  L  K       ++   +    
Sbjct: 73  LKGKKLFPKNSIIISTTATIGEHALLI-VDSLANQRFTFLSKKANCDLALDMKFFFYQCF 131

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR---IDTLITER 188
            + +  +     +  +  D         PIPPL  Q  I + + A T     ++T +   
Sbjct: 132 LLGEWCKKNTNVSGFASVDMTAFKKYKFPIPPLEIQQEIVKILDAFTELNTELNTELNTE 191

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLV---------PDHWEVKPFFA 239
           +   +   E  Q ++        N     +    +              P   E K    
Sbjct: 192 LNARKKQYEYYQNMLLDFNGINQNHKDAKEKLAQKTYPKRLKTLLQTLAPKGVEFKKLGE 251

Query: 240 LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQ 299
           ++         ++           ++   +T  +G   E    YQ      ++       
Sbjct: 252 VLEYDQPNKYCVMGKEFDKSYPTPVLTAGKTFILGYTNEKDNIYQASKSSPVII----FD 307

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKF 359
           +   + +      +   ++  +    +   +    +         +     SG       
Sbjct: 308 DFTTATQWVDFPFKVKSSAMKILFSKNPTINIRFIFFYMQTIPYNI-----SGEHARHWI 362

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
               +L V +PP++ Q +I  +++  +     L+  I   I   K+     R   + 
Sbjct: 363 SRYSQLEVPIPPLEIQQEIVKILDQFSLLTTDLLAGIPAEIKARKKQYEYYREKLLT 419


>gi|283796925|ref|ZP_06346078.1| restriction modification system DNA specificity domain protein
           [Clostridium sp. M62/1]
 gi|291075335|gb|EFE12699.1| restriction modification system DNA specificity domain protein
           [Clostridium sp. M62/1]
          Length = 353

 Score = 97.2 bits (240), Expect = 4e-18,   Method: Composition-based stats.
 Identities = 53/354 (14%), Positives = 119/354 (33%), Gaps = 26/354 (7%)

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ 125
           ++ +   +  +      +G  +   L  +     +A+ DGI S  + +L+ K     L  
Sbjct: 21  RNIHYDDASLANYKKVEQGDFII-HLRSFEGGLEMANEDGIVSPAYTILRCKKPHSSLFY 79

Query: 126 G-WLLSIDVTQRIEAICEGATM--SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
             +  + +    I +             ++    + +P   ++EQ  I +        + 
Sbjct: 80  EAYFHTDEFINHILSKSVEGIRDGRQISYEAFKWLGLPYCDVSEQERIAQ----LFCTLS 135

Query: 183 TLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVT 242
             I ++ + ++ LK+ K+ L + I             S I          E+       T
Sbjct: 136 HRIEKQQQMVDALKKYKRGLFNQIF------------SAISKSSQCRKLRELVRVSGGKT 183

Query: 243 ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK 302
                +       +   S      ++    + +   +     +  PG ++         K
Sbjct: 184 PSMSNSLYWNGDIVWISSKDMKSSRISGSELKITNLALNEMTLYHPGTLLLVARSGIL-K 242

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW-LMRSYDLCKVFYAMGSGLRQSLKFED 361
            SL  A +     I     A++ HG ++ YL + ++   D             QSL  + 
Sbjct: 243 HSLPLAILEVDATINQDIKALQVHGCNAFYLYYAILSQEDTIIRTLVKTGTTVQSLMMDS 302

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
              + +  P I +Q  I + +    A+++  VE  E+ + LL + R+  +    
Sbjct: 303 FLNIEIPTPDIDQQQRIIDKL----AKLEKYVEVQEKELSLLSQMRNGLLQQLF 352



 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 25/150 (16%), Positives = 52/150 (34%), Gaps = 13/150 (8%)

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
           RN+     S   Y+ V+ G+ +      +            E GI++ AY  ++     S
Sbjct: 21  RNIHYDDASLANYKKVEQGDFIIHLRSFEG-----GLEMANEDGIVSPAYTILRCKKPHS 75

Query: 331 TYLA--WLMRSYDLCKVFYAMGSGLR--QSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
           +     +      +  +      G+R  + + +E  K L +    + EQ  I        
Sbjct: 76  SLFYEAYFHTDEFINHILSKSVEGIRDGRQISYEAFKWLGLPYCDVSEQERIA----QLF 131

Query: 387 ARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
             +   +EK +Q +  LK+ +        +
Sbjct: 132 CTLSHRIEKQQQMVDALKKYKRGLFNQIFS 161



 Score = 46.7 bits (109), Expect = 0.007,   Method: Composition-based stats.
 Identities = 30/189 (15%), Positives = 72/189 (38%), Gaps = 15/189 (7%)

Query: 28  VPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
             ++   +++ G+T           DI++I  +D++S   +    +        + ++++
Sbjct: 170 RKLRELVRVSGGKTPSMSNSLYWNGDIVWISSKDMKS--SRISGSELKITNLALNEMTLY 227

Query: 82  AKGQILYGKLGPYLR---KAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
             G +L       L+      I + D   +     LQ        L   +LS + T    
Sbjct: 228 HPGTLLLVARSGILKHSLPLAILEVDATINQDIKALQVHGCNAFYLYYAILSQEDTIIRT 287

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
            +  G T+         NI +P P + +Q  I +K+     +++  +  + + + LL + 
Sbjct: 288 LVKTGTTVQSLMMDSFLNIEIPTPDIDQQQRIIDKL----AKLEKYVEVQEKELSLLSQM 343

Query: 199 KQALVSYIV 207
           +  L+  + 
Sbjct: 344 RNGLLQQLF 352


>gi|207091738|ref|ZP_03239525.1| type I restriction enzyme S protein (hsdS) [Helicobacter pylori
           HPKX_438_AG0C1]
          Length = 412

 Score = 97.2 bits (240), Expect = 4e-18,   Method: Composition-based stats.
 Identities = 57/418 (13%), Positives = 125/418 (29%), Gaps = 43/418 (10%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           +PK  +   +    ++  G+     + +            GKY    G            
Sbjct: 12  VPKGVEFRKLGEVCEIIRGKRVTKKEIL----------DKGKYPVVSGGIGFMGYLNEYN 61

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
             +  I   + G         +     +     + PK+ L      ++L+          
Sbjct: 62  REENTITIAQYGT-AGFVNWQNQKFWANDVCFSVIPKETLINRYLYYVLTNMQNYLYSIS 120

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR---------------IDTLI 185
              A         I  I +PIPPL  Q  I + + A T                 ++T +
Sbjct: 121 NRSAIPYSISSNNIMQITIPIPPLEIQQEIVKILDAFTELNTELNTELNTELNTELNTEL 180

Query: 186 TERIRFIELLKEKKQALVSYIVTKGLN-------PDVKMKDSGIEWVGLVPDHWEVKPFF 238
              ++  +   E  Q ++       LN            K        L P   E +   
Sbjct: 181 NTELKARKKQYEYYQNMLLDFKDIYLNHKDAKMSAKTYPKRLKTLLQTLAPKGVEFRKLG 240

Query: 239 ALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDL 298
            +    N+K  K+ E + +       +        G   +        + GE +      
Sbjct: 241 EVCESTNKKTLKISEVSEVKNKGMYPVINSGRDLYGYYHDFN------NDGENITIASRG 294

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLK 358
           +         +    G +   Y     + + + +L + +++ ++  +   +  G   +L 
Sbjct: 295 EYAGFINYFNEKFFAGGLCYPYKVKDTNELLTKFLYFYLKTNEIQIMENLVFRGSIPALN 354

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
             D++ L + +PP++ Q +I  +++  +     L+  I   I   K+     R   + 
Sbjct: 355 KADIETLTIPIPPLEIQQEIVKILDQFSLLTTDLLAGIPAEIKARKKQYEYYREKLLT 412


>gi|148262630|ref|YP_001229336.1| restriction modification system DNA specificity subunit [Geobacter
           uraniireducens Rf4]
 gi|146396130|gb|ABQ24763.1| restriction modification system DNA specificity domain [Geobacter
           uraniireducens Rf4]
          Length = 385

 Score = 97.2 bits (240), Expect = 4e-18,   Method: Composition-based stats.
 Identities = 48/403 (11%), Positives = 113/403 (28%), Gaps = 34/403 (8%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
             +        G    S K              G Y     +      +      +G ++
Sbjct: 7   KRLGDIVNFKRGYDLPSYK-----------RKEGPYPIVSSSGISGYHAEYKAKGEG-LI 54

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMS 147
            G+ G       +       +T   V   K   P+ +   L  +   +  +      T+ 
Sbjct: 55  TGRYGTLGEMYYVNGKYWPHNTALYVTDFKGNYPKYVYFLLKCLGSLKTSDKS----TVP 110

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
             +   +  + +P      Q  I + +     +ID           + K           
Sbjct: 111 GVNRNDLHELLVPYIKPELQKPIADFLFLLESKIDLNNRINSELEAMAKTLYDYWFVQFD 170

Query: 208 TKGLNPDVKMKDSGI-----EWVGLVPDHWEVKPFFALVTELNR---KNTKLIESNILSL 259
               N       SG      E    +P+ W+V     +   +N    +  + I ++ L +
Sbjct: 171 FPDKNGKPYKSCSGKIVWNKELKREIPEGWKVGSLLDIAEYINGLPCQKYRPIGTDFLYV 230

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
                ++   T    L         I++ G+++F +                 +G +   
Sbjct: 231 IKIREMRDGFTSESELVRPDIPQKAIIENGDVLFSWSASLE-----VQIWTGGKGALNQH 285

Query: 320 YMAVKPHGIDSTYLAWLM-RSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
              V       ++  + +       K+           +  + +K+  +++PPI+     
Sbjct: 286 IFKVTSKKYPKSFYYYQLVNYLQHFKMMADNRRTTMGHITQDHLKQSRIVLPPIEL---- 341

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           T  +  +   I   +   + +   L   R   +   + GQ+ +
Sbjct: 342 TEKLECKLGPIRTAITSNQLANNTLSSLRDWLLPMLMNGQVKV 384



 Score = 53.6 bits (127), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 29/196 (14%), Positives = 56/196 (28%), Gaps = 10/196 (5%)

Query: 20  AIPKHWKVVPIKRFTKLNTG-----RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
            IP+ WKV  +    +   G             +  I + ++  G       +    + D
Sbjct: 195 EIPEGWKVGSLLDIAEYINGLPCQKYRPIGTDFLYVIKIREMRDG----FTSESELVRPD 250

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
               +I   G +L+      L   I     G  +     +  K          L++    
Sbjct: 251 IPQKAIIENGDVLFSWS-ASLEVQIWTGGKGALNQHIFKVTSKKYPKSFYYYQLVNYLQH 309

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
            ++ A     TM H     +    + +PP+     +  K+      I +          L
Sbjct: 310 FKMMADNRRTTMGHITQDHLKQSRIVLPPIELTEKLECKLGPIRTAITSNQLANNTLSSL 369

Query: 195 LKEKKQALVSYIVTKG 210
                  L++  V  G
Sbjct: 370 RDWLLPMLMNGQVKVG 385


>gi|328951821|ref|YP_004369155.1| Site-specific DNA-methyltransferase (adenine-specific)
           [Desulfobacca acetoxidans DSM 11109]
 gi|328452145|gb|AEB07974.1| Site-specific DNA-methyltransferase (adenine-specific)
           [Desulfobacca acetoxidans DSM 11109]
          Length = 896

 Score = 97.2 bits (240), Expect = 4e-18,   Method: Composition-based stats.
 Identities = 71/390 (18%), Positives = 135/390 (34%), Gaps = 27/390 (6%)

Query: 17  WIGAIPKHWKVVPIKRFTKLNTGRT-SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           W+    + W+ +P   F +    R       D IY+GLE ++        +         
Sbjct: 512 WLKR--EEWQRLPFGAFAESINERVEPSDAGDEIYVGLEHLDPQDLHI--RRWGKGSDVI 567

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQ--PKDVLPELLQGWLLSIDV 133
            T   F KG +++G+   Y RK  IA FDGICS   +V++  P+ VLPE L   ++S   
Sbjct: 568 GTKLRFRKGDLIFGRRRAYQRKLAIAQFDGICSAHAMVVRAKPEVVLPEFLPFLMVSDRF 627

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
             R   I  G+     +WK +     P+P + +Q  I E +           +      +
Sbjct: 628 MNRAVEISVGSLSPTINWKTLKLEKFPLPSIDQQRRIAEILWEADKVFGKYFSVTKALAK 687

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
           +       +V        +          E +   P +    P       + R       
Sbjct: 688 IENALVDIMVRSAAANFESK------PLRELIIGKPQYGANAPAANYRDGMPR------Y 735

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
             I  +     + K +     L  ES +    +  G+++         K  L S +   R
Sbjct: 736 VRITDIETKGRLTKQDIV-AVLLDESSQKKYELADGDLLIARTGNTVGKSYLYS-ESDGR 793

Query: 314 GIITSAYMAVKPHGI--DSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVP 370
            +     +  +P+       YL  + +S             G + ++   +   L + +P
Sbjct: 794 CVYAGYLVRFRPNREIVLPEYLFRVTQSSYYRNWLENNIRVGAQPNVNGTEYGSLLIPLP 853

Query: 371 PIKEQ-FDITNV--INVETARIDVLVEKIE 397
           P+  Q   ++++  ++      + L+  I 
Sbjct: 854 PLSFQSERLSDIKELSSGDQGYEELISAIR 883



 Score = 60.6 bits (145), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 25/143 (17%), Positives = 48/143 (33%), Gaps = 11/143 (7%)

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA--YMA 322
            Q L  R  G   +   T      G+++F        K ++        GI ++    + 
Sbjct: 552 PQDLHIRRWGKGSDVIGTKLRFRKGDLIFGRRRAYQRKLAIAQFD----GICSAHAMVVR 607

Query: 323 VKPHGIDSTYLAWLMRSYDLCKV-FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
            KP  +   +L +LM S              L  ++ ++ +K     +P I +Q  I  +
Sbjct: 608 AKPEVVLPEFLPFLMVSDRFMNRAVEISVGSLSPTINWKTLKLEKFPLPSIDQQRRIAEI 667

Query: 382 I---NVETARIDVLVEKIEQSIV 401
           +   +    +    V K    I 
Sbjct: 668 LWEADKVFGKYFS-VTKALAKIE 689


>gi|241895014|ref|ZP_04782310.1| type I restriction-modification system specificity subunit
           [Weissella paramesenteroides ATCC 33313]
 gi|241871732|gb|EER75483.1| type I restriction-modification system specificity subunit
           [Weissella paramesenteroides ATCC 33313]
          Length = 399

 Score = 97.2 bits (240), Expect = 5e-18,   Method: Composition-based stats.
 Identities = 53/395 (13%), Positives = 121/395 (30%), Gaps = 21/395 (5%)

Query: 25  WKVVPIKRFTK-LNTG--RTSE--SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV- 78
           W+   +   ++ +  G   T +     ++ ++   +   G  K   +  +  ++  S+V 
Sbjct: 17  WEKRKLLDGSEKIGDGLHGTPKYFEKGNVYFVNGNNFIDGEIKITKETKHVAETAQSSVD 76

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
                  IL    G     A               +   D   E +  +L +  V     
Sbjct: 77  QGLTNNTILMSINGTIGNLAYYHGEKISLGKSAAFITVSDFYKEFIYAYLQTKTVHSYFM 136

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
               G T+ +   K +   P+ +P + EQ    +KI     +ID LIT   R ++LLKE 
Sbjct: 137 NSLTGTTIKNLGLKALRETPLSVPVIFEQ----KKIGRLFKQIDKLITVNQRKVDLLKEL 192

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
           K+  +  +  K      +++ +G           ++            +     +     
Sbjct: 193 KKGFLQKMFPKNEENYPQIRFAGYTDAWEKRKLGDIGSVAMNKRIFKSETFDYGDVPFYK 252

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
           +     I            E    Y     G+++                   E      
Sbjct: 253 IGTFGKIADSFITREKFT-EYKAKYPFPKNGDVLISASGS----IGKTVVYHGEDAYFQD 307

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
           + +    H          +  +     +  +     + L  +++    + +P + EQ  I
Sbjct: 308 SNIVWLEHDGQIDNK--FLEQFYKIVRWSGVEGSTIKRLYNKNILNTSISIPNLDEQEKI 365

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
             ++       D L+   ++ + LLK+ + + +  
Sbjct: 366 GELLY----LFDFLITVNQRRVDLLKQEKKALLQK 396


>gi|328946726|gb|EGG40864.1| type I restriction modification DNA specificity family protein
           [Streptococcus sanguinis SK1087]
          Length = 402

 Score = 97.2 bits (240), Expect = 5e-18,   Method: Composition-based stats.
 Identities = 63/413 (15%), Positives = 128/413 (30%), Gaps = 44/413 (10%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLP---KDGNSRQS 73
             WK V +     +  G T  + K      DI +I  +D+ +   +Y+    ++      
Sbjct: 15  SDWKKVKLSELGTIVGGGTPSTKKEEYYGGDIPWITPKDLANFGERYIEHGSRNITLAGL 74

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
           + S+  I   G IL+    P      IA  +   +  F  + P   +   L  + L    
Sbjct: 75  ENSSAKILPVGSILFSSRAPI-GYIAIASNNVSTNQGFKSIIPNSDVDS-LFLYYLLKFN 132

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRIDTLITERIRFI 192
             +IE +  G T        + +I + IP  + EQ  I   + A   +I           
Sbjct: 133 KDKIENMGSGTTFKEVSASIMKSIEVFIPTEIVEQRKISAILGAIDDKI----------- 181

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
               E  + +  ++     N       +    +G + +      F +       K    I
Sbjct: 182 ----ENNKKINHHLAAISKNYLKIFHSNNSIKLGDLFELKSGYAFKSKDWVDEGKPVIKI 237

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
           +           +  ++ ++   K  ++E    V   EIV         K  +       
Sbjct: 238 KDIDGITIDITNLNYVKNKSQLAKASNFE----VFGKEIVMALTGATTGKIGVIPKNF-- 291

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLM--RSYDLCKVFYAMGSGLRQSLKFEDVKR--LPVL 368
           +G +             S  + W +  +   +  +        + +L    V    L V 
Sbjct: 292 KGYVNQRVGLFYAKTELSYAVLWSILQQQNIITDLIELSSGSAQANLSPSSVNSYDLNVT 351

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           +  + E   I + +         L       I  L E R + +   ++G++ +
Sbjct: 352 LKDLIELDKIISPLYELF--CFNL-----SEIQRLSELRDTLLPKLLSGELSV 397


>gi|226223148|ref|YP_002757255.1| specificity determinant HsdS [Listeria monocytogenes Clip81459]
 gi|225875610|emb|CAS04313.1| Putative specificity determinant HsdS [Listeria monocytogenes
           serotype 4b str. CLIP 80459]
          Length = 414

 Score = 97.2 bits (240), Expect = 5e-18,   Method: Composition-based stats.
 Identities = 58/383 (15%), Positives = 128/383 (33%), Gaps = 27/383 (7%)

Query: 25  WKVVPIKRFTKLN----TGRTSESGKDIIYIGLEDVESGTGKYLPKDGNS--RQSDTSTV 78
           W+   +              +     +  YI + D++  +  +   +  S     D    
Sbjct: 20  WEQRKLGEIANSFEYGLNASSKTYDGENKYIRITDIDESSHVFNQDNLTSPDISLDNLNH 79

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFD----GICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
            +  +G IL  + G    K+   +                   +     +    L+    
Sbjct: 80  YLLEEGDILLARTGASTGKSYCYNKIDGKVFFAGFLIRAKIKHEYNVSFIFQSTLTERYN 139

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             I+   + +     + +      + IP L EQ  I +       ++D  I    R ++ 
Sbjct: 140 NFIQVTSQRSGQPGINAQEYARFALYIPKLKEQQKIGDF----FKQLDDTIALHQRKLDT 195

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN--TKLI 252
           LK+ K+ L+  +  K      K++ +  +      + W  +    +  ++  KN  +   
Sbjct: 196 LKQMKKGLLQQMFPKSEEDVPKIRFADFD------EEWYQRKLGEISDKVIEKNKESTYF 249

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFR-FIDLQNDKRSLRSAQVM 311
           E+   S  YG I Q+          ++   Y IV   + V+   I        ++  ++ 
Sbjct: 250 ETLTNSAEYGIISQREFFNKDISNEKNLNGYYIVRENDFVYNPRISNYAPVGPIKRNKLG 309

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQ---SLKFEDVKRLPV 367
             GI++  Y   +    + ++L +              G SG R    ++K   +K +P+
Sbjct: 310 RIGIVSPLYYVFRTFDTNQSFLEYYFDGTVWHNFMLLNGDSGARADRFAIKDSVLKEMPI 369

Query: 368 LVPPIKEQFDITNVINVETARID 390
               + EQ  I+  ++  T  I+
Sbjct: 370 PYSTLYEQEKISFFLDEITIIIN 392



 Score = 75.2 bits (183), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 15/164 (9%), Positives = 49/164 (29%), Gaps = 5/164 (3%)

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
                I  +   + +   +             + +++ G+I+         K    +   
Sbjct: 47  NKYIRITDIDESSHVFNQDNLTSPDISLDNLNHYLLEEGDILLARTGASTGKSYCYNKID 106

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLV 369
            +         A   H  + +++     +               +  +  ++  R  + +
Sbjct: 107 GKVFFAGFLIRAKIKHEYNVSFIFQSTLTERYNNFIQVTSQRSGQPGINAQEYARFALYI 166

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           P +KEQ  I +       ++D  +   ++ +  LK+ +   +  
Sbjct: 167 PKLKEQQKIGDF----FKQLDDTIALHQRKLDTLKQMKKGLLQQ 206



 Score = 53.3 bits (126), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 25/190 (13%), Positives = 56/190 (29%), Gaps = 10/190 (5%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGK-DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           + W    +   +     +  ES   + +    E       ++  KD ++ ++  +   I 
Sbjct: 225 EEWYQRKLGEISDKVIEKNKESTYFETLTNSAEYGIISQREFFNKDISNEKN-LNGYYIV 283

Query: 82  AKGQILYGKLGPYLRKAIIADFD-----GICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
            +   +Y               +     GI S  + V +  D     L+ +         
Sbjct: 284 RENDFVYNPRISNYAPVGPIKRNKLGRIGIVSPLYYVFRTFDTNQSFLEYYFDGTVWHNF 343

Query: 137 IEAICEGAT---MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
           +    +              +  +P+P   L EQ  I   +   T+ I+    +  +   
Sbjct: 344 MLLNGDSGARADRFAIKDSVLKEMPIPYSTLYEQEKISFFLDEITIIINLHQNKLKKLSS 403

Query: 194 LLKEKKQALV 203
           L K   Q + 
Sbjct: 404 LKKAYLQNMF 413


>gi|168178057|ref|ZP_02612721.1| type I restriction-modification system specificity subunit
           [Clostridium botulinum NCTC 2916]
 gi|182671430|gb|EDT83404.1| type I restriction-modification system specificity subunit
           [Clostridium botulinum NCTC 2916]
          Length = 377

 Score = 97.2 bits (240), Expect = 5e-18,   Method: Composition-based stats.
 Identities = 62/403 (15%), Positives = 149/403 (36%), Gaps = 40/403 (9%)

Query: 26  KVVPIKRFTKLNTGRTS------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           + + +   ++   G+        + GK   ++         G++  K     +  T ++ 
Sbjct: 2   EYIKLGELSEFIMGQAPNSQYCNKKGKGTPFVKA-------GQFGVKYPIIDEWTTKSLK 54

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
              K  +L   +G    K  +     I  +   +   +  L   +  +        +I  
Sbjct: 55  KALKKDVLICVVGATAGKINLGCDCSIGRSVSAIRCNEKKLD-HVYLYYYLKTWITKIRQ 113

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
             +G+ +     + + +I +P+  L+EQ  I   +      I+   T+     EL+K + 
Sbjct: 114 QSQGSAVGVITKEMLNDIIIPVVTLSEQNRIVTILDKAQFLINKRKTQIEALDELVKSR- 172

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
              +        NP    K + +  +G           +      +R N++    NI  L
Sbjct: 173 --FIEMFGDPVKNPMKLPK-TPLSNIGQ----------WKTGGTPSRSNSEYYNGNIPWL 219

Query: 260 SYGNIIQKLETRNMGLKPE---SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
           S G +       +  +  E      + +I++ G ++    D    K ++   +      I
Sbjct: 220 SSGELNNIYCFNSDEMITELAIKESSAKIIEKGSLLLGMYDTAALKSTINMIECSCNQAI 279

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQ 375
             AY  +  + +++ Y+ + ++       + +   G+ +++L    VK L +L+P +K Q
Sbjct: 280 --AYAKLDENLVNTIYVYYCIQ--IGKDFYKSQQRGVRQKNLNLSMVKELEILMPELKLQ 335

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
               + +N      + L  ++E+S+  L++  +S +  A  G+
Sbjct: 336 NQFADFVNQG----NTLKFEMEKSLKELEDNFNSLMQRAFKGE 374



 Score = 63.7 bits (153), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 21/191 (10%), Positives = 53/191 (27%), Gaps = 10/191 (5%)

Query: 28  VPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
            P+    +  TG T           +I ++   ++ +       +         S+  I 
Sbjct: 190 TPLSNIGQWKTGGTPSRSNSEYYNGNIPWLSSGELNNIYCFNSDEMITELAIKESSAKII 249

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            KG +L G       K+ I   +  C+      +  + L   +  +          ++  
Sbjct: 250 EKGSLLLGMYDTAALKSTINMIECSCNQAIAYAKLDENLVNTIYVYYCIQIGKDFYKSQQ 309

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            G    + +   +  + + +P L  Q    + +         +        +       +
Sbjct: 310 RGVRQKNLNLSMVKELEILMPELKLQNQFADFVNQGNTLKFEMEKSLKELEDNFN----S 365

Query: 202 LVSYIVTKGLN 212
           L+       L 
Sbjct: 366 LMQRAFKGELF 376


>gi|313123147|ref|YP_004033406.1| type i site-specific deoxyribonuclease chain s [Lactobacillus
           delbrueckii subsp. bulgaricus ND02]
 gi|312279710|gb|ADQ60429.1| Type I site-specific deoxyribonuclease chain S [Lactobacillus
           delbrueckii subsp. bulgaricus ND02]
          Length = 471

 Score = 97.2 bits (240), Expect = 5e-18,   Method: Composition-based stats.
 Identities = 64/415 (15%), Positives = 128/415 (30%), Gaps = 55/415 (13%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            IP  W+ V ++        +T++  +  +    +       K   +       D S + 
Sbjct: 66  EIPDSWEWVRLEEIAYTIGNKTNQIKEKEVLPKGKFRVVSQSK---EKIIGYYDDESKLL 122

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
                 I++G     ++        G   T+      +     +      ++   ++I  
Sbjct: 123 RVDGDCIVFGDHTALVKYIDFDFIIGADGTKVFKCFKRTDTKFIFYVLEFALQSIEKISG 182

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL----L 195
                         + N  +P+PPLAEQ  I +K+      ID          E+     
Sbjct: 183 YSRHYKY-------LKNKCLPLPPLAEQKRIVDKLDRIMPLIDEYAKSYTHLAEIDSSFN 235

Query: 196 KEKKQALVSYIVTKGLNPDVKMKD-------------------------------SGIEW 224
              K++++ Y +   L P                                     S  E 
Sbjct: 236 DRMKKSILQYAMEGKLVPQDPSDQPASELLAEIQQEKTQLVKEKKIKKTKPLPEISEDEI 295

Query: 225 VGLVPDHWEVKPFFA-LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKP------ 277
           +  +P+ W               K+ K    + L +     IQ         +       
Sbjct: 296 LYEIPESWVWARLSDVTNYIQRGKSPKYSNDSDLYVLSQKCIQWSGISLEKARSVSSEFW 355

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRS-LRSAQVMERGIITSAYMAVKPHGIDSTYLAWL 336
           +  E Y+ V  G++++    L    R  +   +V    + +   +      IDS YL   
Sbjct: 356 DKLEDYRFVQSGDLLWNSTGLGTVGRINIVDQEVAGYPVDSHVTIVRSSSLIDSRYLLRY 415

Query: 337 MRSYDLCKVF--YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
           + S  +      Y  GS  ++ L  E ++++ V +PP+ EQ  I + I+     +
Sbjct: 416 LMSPVIQFNLSDYLTGSTKQKELGKESIEKILVPIPPLAEQKRIADKIDQIFDIL 470



 Score = 61.7 bits (148), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 37/207 (17%), Positives = 72/207 (34%), Gaps = 23/207 (11%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
           S  E    +PD WE      +   +  K  ++ E  +L      ++ + + + +G   + 
Sbjct: 59  SEDEIPFEIPDSWEWVRLEEIAYTIGNKTNQIKEKEVLPKGKFRVVSQSKEKIIGY-YDD 117

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
                 VD   IVF       D  +L      +  I        K      T   + +  
Sbjct: 118 ESKLLRVDGDCIVF------GDHTALVKYIDFDFIIGADGTKVFKCFKRTDTKFIFYVLE 171

Query: 340 YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
           + L  +    G         + +K   + +PP+ EQ  I + ++    RI  L+++  +S
Sbjct: 172 FALQSIEKISGYSRHY----KYLKNKCLPLPPLAEQKRIVDKLD----RIMPLIDEYAKS 223

Query: 400 IVLLKE--------RRSSFIAAAVTGQ 418
              L E         + S +  A+ G+
Sbjct: 224 YTHLAEIDSSFNDRMKKSILQYAMEGK 250



 Score = 59.4 bits (142), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 33/177 (18%), Positives = 62/177 (35%), Gaps = 11/177 (6%)

Query: 13  SGVQWIGAIPKHWKVVPIKRFTK-LNTGRTSE--SGKDIIYIGLEDVESGTGKYLPKDGN 69
           S  + +  IP+ W    +   T  +  G++ +  +  D+  +  + ++            
Sbjct: 291 SEDEILYEIPESWVWARLSDVTNYIQRGKSPKYSNDSDLYVLSQKCIQWSGISLEKARSV 350

Query: 70  SRQS--DTSTVSIFAKGQILYGKL--GPYLRKAIIADFDG---ICSTQFLVLQPKDVLPE 122
           S +             G +L+     G   R  I+        + S   +V     +   
Sbjct: 351 SSEFWDKLEDYRFVQSGDLLWNSTGLGTVGRINIVDQEVAGYPVDSHVTIVRSSSLIDSR 410

Query: 123 LLQGWLLSIDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
            L  +L+S  +   +     G+T       + I  I +PIPPLAEQ  I +KI    
Sbjct: 411 YLLRYLMSPVIQFNLSDYLTGSTKQKELGKESIEKILVPIPPLAEQKRIADKIDQIF 467


>gi|328947424|ref|YP_004364761.1| restriction modification system DNA specificity domain protein
           [Treponema succinifaciens DSM 2489]
 gi|328447748|gb|AEB13464.1| restriction modification system DNA specificity domain protein
           [Treponema succinifaciens DSM 2489]
          Length = 444

 Score = 97.2 bits (240), Expect = 5e-18,   Method: Composition-based stats.
 Identities = 57/430 (13%), Positives = 118/430 (27%), Gaps = 38/430 (8%)

Query: 16  QWIGAI-PKHWKVVPIKRFTKLNTGRTSESGKDII-------YIGLEDV--ESGTGKYLP 65
           + I  + P   +            G T     ++         +   ++  E+ T  +  
Sbjct: 6   ELINELCPDGVEYRLFFDVCNYIRGITYNKNDEVNNDSYGIEVLRANNITLETNTLNFDD 65

Query: 66  KDGNSRQSDTSTVSIFAKGQILY-----GKLGPYLRKAIIADFDGICSTQFLVLQPKDVL 120
               S            K  IL       K        I AD +        V++PK   
Sbjct: 66  VKIISENVKIKETQWLKKNDILICAGSGSKEHIGKVAYIFADTNITFGGFMAVVRPKIEN 125

Query: 121 PELLQGWL----LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIA 176
                 +               +    +T+++ +     N  +P+PPL  Q  I   + +
Sbjct: 126 FSTRFLFHILTSDMFKRHLAKVSAASSSTINNINNDTWKNFQIPVPPLPVQEEIVRILDS 185

Query: 177 ETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKP 236
            T     L  E     +  +  + AL++               +G    G  P       
Sbjct: 186 FTELTAELTAELTARRKQYEYYRDALLT----------PPFGSAGSPINGTFPVVKLKDI 235

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY----QIVDPGEIV 292
                     +  ++    +  + YG I              +   Y    +  + G+I+
Sbjct: 236 ATEFYRGSGIRRDEITAEGVPCVRYGEIYTTYNISFEKCVSHTKLEYVQSPKYFEHGDIL 295

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
           F       +  +   A       +    + V  H  +  YLA ++ + +           
Sbjct: 296 FAITGENIEDIAKSVAYTGNEKCLAGGDIVVMKHNQNPRYLAHVLATTEARIQKGKGKVK 355

Query: 353 LRQ-SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RR 407
            +        ++ + + +P +  Q    NV++   A    L   +   I   K+     R
Sbjct: 356 SKVVHSSIPSIQEIEIPLPSLDVQERWANVLDNFDAICSDLKIGLPAEIDARKKQYEYYR 415

Query: 408 SSFIAAAVTG 417
              +  A  G
Sbjct: 416 DLLLTFAERG 425


>gi|332663457|ref|YP_004446245.1| restriction modification system DNA specificity domain-containing
           protein [Haliscomenobacter hydrossis DSM 1100]
 gi|332332271|gb|AEE49372.1| restriction modification system DNA specificity domain protein
           [Haliscomenobacter hydrossis DSM 1100]
          Length = 390

 Score = 97.2 bits (240), Expect = 5e-18,   Method: Composition-based stats.
 Identities = 63/404 (15%), Positives = 132/404 (32%), Gaps = 35/404 (8%)

Query: 25  WKVVPIKRFTKLNTGRTSESG-----KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           W++V ++    + +G   +S      K +  I + D++ G  +         +     V 
Sbjct: 3   WEMVKLEELITILSGFAFDSKLFSNQKGVPLIRIRDIKRGFSE------TYYEGKFDAVF 56

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP-ELLQGWLLSIDVTQRIE 138
           +   G IL G  G +   A  +  D + + +   +   D    +            + IE
Sbjct: 57  VVKNGDILIGMDGEF-NIAEWSGQDALLNQRVCKINSVDTSRLDKRYLLHFLPQELKFIE 115

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
                 T+ H   K I +I +P+PPLA Q  I           D L  +    ++   E 
Sbjct: 116 DKASFVTVKHLSVKDIKSIQIPLPPLATQKRIAA----ILDAADALRRKDHALLQKYAEL 171

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
            QA+    V    NP    K   +  +G +    E             KN    E  +L 
Sbjct: 172 AQAI---FVDMFGNPVKNEKGWEVSSMGNIILDIEAGS----SFGGEDKNLDKDELGVLK 224

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQI-VDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
           +S              +K +      I ++ G+ +F   + +    +          +  
Sbjct: 225 VSAVTSGTFKPQEYKAVKKDRINKKIIKLNKGDFLFSRANTRELVGATCLVDQNYDHLFL 284

Query: 318 SAYMA---VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPP 371
              +          D  ++  ++   ++        +G      ++  + +K L +++PP
Sbjct: 285 PDKIWKISFHLDKTDPIFIKHILSQKEVRYELNKTATGTSGSMLNISMQKLKELSIVLPP 344

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           ++ Q +   +I   +          +QS +  +    S +  A 
Sbjct: 345 VELQRNFGKIIQKMSEN----SGFAKQSNMKSETLFQSLLQKAF 384


>gi|170021702|ref|YP_001726656.1| restriction modification system DNA specificity subunit
           [Escherichia coli ATCC 8739]
 gi|169756630|gb|ACA79329.1| restriction modification system DNA specificity domain [Escherichia
           coli ATCC 8739]
          Length = 585

 Score = 96.8 bits (239), Expect = 5e-18,   Method: Composition-based stats.
 Identities = 67/489 (13%), Positives = 128/489 (26%), Gaps = 93/489 (19%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT 60
           +K  K  P+   S  +    +P+ W+   I        G   +S  +    G+  V+ G 
Sbjct: 83  IKKQKPLPEI--SEEEKPFELPEGWEWARINDIASFTNGYAFKSS-EFQNSGVGIVKIGD 139

Query: 61  GKYLPKDGNSRQSDTSTVSI--------FAKGQILYGKLGPYLRKAIIADFDGICSTQFL 112
                    +  S  S   I           G ++    G    K               
Sbjct: 140 IDSSGFISTAGMSYVSEKKINVLPEEMRVNPGDMVIAMSGATTGKLGFNKTKSTFLLNQR 199

Query: 113 VLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQV---- 168
           V +      +    +       +   +I  G+ + +     I NI +PIPP  EQV    
Sbjct: 200 VGKIVTYSVDKEFIYHYLSTRIEENLSISLGSAIPNISTAQINNIIIPIPPSDEQVKIIA 259

Query: 169 -------------------------------------LIREKIIAETVRIDTLITERIRF 191
                                                   E++     RI          
Sbjct: 260 RVKLLISLCDQLEQQSLTSQDAHQQLVETLLGTLTDSQNAEELAENWARISEHFDTLFTT 319

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKD-----------------------------SGI 222
              +   KQ ++   V   L P     +                             S  
Sbjct: 320 EASVDALKQTILQLAVMGKLVPQDPNDEPASELLKRIAQEKAQLVKEGKIKKPLPPISDE 379

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNT---------KLIESNILSLSYGNIIQKLETRNM 273
           E    +P+ WE   F  ++   +               +    ++      +   E + +
Sbjct: 380 EKPFELPEGWEWCLFEDIIDIQSGITKGRNLSNRTLVKVPYLRVANVQRGYLDLTEIKQI 439

Query: 274 GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM-AVKPHGIDSTY 332
            +  E  E YQ+V    ++    D     R+               +        +D  +
Sbjct: 440 EIPIEEKEKYQVVKGDLLITEGGDWDTVGRTTVWCHDWYIANQNHVFKGRNIGQYVDPYW 499

Query: 333 LAWLMRSYDLCKVF--YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
           L   M S    + F   +  +    S+    ++  PV +PP  E   I + +++     +
Sbjct: 500 LETYMNSPFSRQYFANASKQTTNLASINKTQLRGCPVAIPPSSEAKKIMSKLHIFYKLCE 559

Query: 391 VLVEKIEQS 399
            L   I+ +
Sbjct: 560 ELKNHIQSA 568



 Score = 72.1 bits (175), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 26/202 (12%), Positives = 56/202 (27%), Gaps = 13/202 (6%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESG------KDIIYIGLEDVESGTGKYLPKDGNSRQS 73
            +P+ W+    +    + +G T            + Y+ + +V+ G              
Sbjct: 384 ELPEGWEWCLFEDIIDIQSGITKGRNLSNRTLVKVPYLRVANVQRGYLDLTEIKQIEIPI 443

Query: 74  DTSTVSIFAKGQILYGKLGPY---LRKAIIADFDGICSTQ--FLVLQPKDVLPELLQGWL 128
           +        KG +L  + G +    R  +      I +    F        +        
Sbjct: 444 EEKEKYQVVKGDLLITEGGDWDTVGRTTVWCHDWYIANQNHVFKGRNIGQYVDPYWLETY 503

Query: 129 LSIDV--TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           ++          A  +   ++  +   +   P+ IPP +E   I  K+       + L  
Sbjct: 504 MNSPFSRQYFANASKQTTNLASINKTQLRGCPVAIPPSSEAKKIMSKLHIFYKLCEELKN 563

Query: 187 ERIRFIELLKEKKQALVSYIVT 208
                 +       AL    V 
Sbjct: 564 HIQSAQQTQLHLADALTDAAVN 585



 Score = 45.9 bits (107), Expect = 0.013,   Method: Composition-based stats.
 Identities = 29/200 (14%), Positives = 70/200 (35%), Gaps = 19/200 (9%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNR---KNTKLIESNILSLSYGNIIQKLETRNMGLK 276
           S  E    +P+ WE      + +  N    K+++   S +  +  G+I         G+ 
Sbjct: 93  SEEEKPFELPEGWEWARINDIASFTNGYAFKSSEFQNSGVGIVKIGDIDSSGFISTAGMS 152

Query: 277 PESYET------YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
             S +          V+PG++V         K      +     ++      +  + +D 
Sbjct: 153 YVSEKKINVLPEEMRVNPGDMVIAMSGATTGKLGFNKTKST--FLLNQRVGKIVTYSVDK 210

Query: 331 TYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
            ++   + +     +  ++GS    ++    +  + + +PP  EQ  I   + +  +  D
Sbjct: 211 EFIYHYLSTRIEENLSISLGS-AIPNISTAQINNIIIPIPPSDEQVKIIARVKLLISLCD 269

Query: 391 VLVEK-------IEQSIVLL 403
            L ++        +Q +  L
Sbjct: 270 QLEQQSLTSQDAHQQLVETL 289


>gi|331002083|ref|ZP_08325602.1| hypothetical protein HMPREF0491_00464 [Lachnospiraceae oral taxon
           107 str. F0167]
 gi|330411177|gb|EGG90593.1| hypothetical protein HMPREF0491_00464 [Lachnospiraceae oral taxon
           107 str. F0167]
          Length = 405

 Score = 96.8 bits (239), Expect = 5e-18,   Method: Composition-based stats.
 Identities = 71/406 (17%), Positives = 137/406 (33%), Gaps = 36/406 (8%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTG---KYLPKDGNSRQSDTS--- 76
           + W+   +       T       KD    G+  +++G     +YL K  N +        
Sbjct: 14  EDWEQRKLSSLCDKFTDGDWIEAKDQSNSGVRLIQTGNVGVAEYLDKPNNKKWISNDTFE 73

Query: 77  --TVSIFAKGQILYGKLGPYLRKAIIADF----DGICSTQFLVLQPKDVLPELLQGWLLS 130
                   +G IL  +L     +A I               +V    D   + L  +L S
Sbjct: 74  ALNCEEVFEGDILISRLPEPAGRACIIPKLASKMITAVDCTIVRVSNDTSNKYLLQYLSS 133

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
                 +     G T       G+ N  + IP    +    E I A    +D LIT   R
Sbjct: 134 QKYFDEVNTCLAGGTRQRISRSGLANFDVAIPVKKSEQ---EAIGAYFSNLDHLITLHQR 190

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
            +E LK  K++++  +  K      +++ SG        + WE +      TE     + 
Sbjct: 191 KLEKLKIIKKSMLENLFPKNGENTPRIRFSG------FTEDWEQRKLGECFTERIE--SM 242

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
                I       + +  E        +    Y+ V  G+I +  + +            
Sbjct: 243 PDGELISVTINDGVKKFSELGRHDNSNDDKSKYKKVCIGDIAYNSMRMWQGASGYS---- 298

Query: 311 MERGIITSAYMAVKPHGI-DSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLP 366
              GI++ AY  +  +   +S ++A+  +   +   F     G+     +LKF  +  + 
Sbjct: 299 YYNGIVSPAYTVLSANYNVNSKFIAYQFKLPKMIHTFKINSQGITSDNWNLKFPVLSYIE 358

Query: 367 VLVPP-IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
           + +   I+EQ  I   +      +D L+   +  +  L++ + S +
Sbjct: 359 IYISKQIEEQSKIAVFLES----LDHLITLHQSKLEKLQKIKKSML 400



 Score = 68.7 bits (166), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 26/185 (14%), Positives = 61/185 (32%), Gaps = 4/185 (2%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + W+   +            +   ++I + + D      +    D +    D S      
Sbjct: 224 EDWEQRKLGECFTERIESMPDG--ELISVTINDGVKKFSELGRHDNS--NDDKSKYKKVC 279

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
            G I Y  +  +   +  + ++GI S  + VL     +      +   +        I  
Sbjct: 280 IGDIAYNSMRMWQGASGYSYYNGIVSPAYTVLSANYNVNSKFIAYQFKLPKMIHTFKINS 339

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
               S         +      +++Q+  + KI      +D LIT     +E L++ K+++
Sbjct: 340 QGITSDNWNLKFPVLSYIEIYISKQIEEQSKIAVFLESLDHLITLHQSKLEKLQKIKKSM 399

Query: 203 VSYIV 207
           +  + 
Sbjct: 400 LESMF 404


>gi|319952390|ref|YP_004163657.1| restriction modification system DNA specificity domain protein
           [Cellulophaga algicola DSM 14237]
 gi|319421050|gb|ADV48159.1| restriction modification system DNA specificity domain protein
           [Cellulophaga algicola DSM 14237]
          Length = 427

 Score = 96.8 bits (239), Expect = 6e-18,   Method: Composition-based stats.
 Identities = 69/416 (16%), Positives = 141/416 (33%), Gaps = 42/416 (10%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQS---- 73
            W++    +  K  T  +    K       +  I   D+ +    Y   +          
Sbjct: 23  EWRMSQFGKLYKFYTTNSFSRDKLNYESGKVKNIHYGDIHTKFQSYFYLNNEYVPFVNDD 82

Query: 74  -DTSTVS---IFAKGQILYGK-------LGPYLRKAIIADFDGICSTQFLVLQP--KDVL 120
            D S +        G ++          +G  +    I D   I      + +P  K+  
Sbjct: 83  LDLSKIKDEAFCKIGDLIIADASEDYADIGKTIEIIDINDEKVIAGLHTFLARPFSKETY 142

Query: 121 PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
              +   L S ++ ++I  I +G  +          + +  P L EQ  I   +      
Sbjct: 143 IGFISYLLKSWNLRKQIMTIAQGTKVLGLSMGRFSQLKLNTPSLPEQQKIASFL----SA 198

Query: 181 IDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFAL 240
           +D  I +  +   LL++ K+ ++  + +  L           E  G  PD  E K    L
Sbjct: 199 VDEKIQQLNKKKTLLEQYKKGVMQQLFSGDL-------RFKDENGGDFPDWEENKQLGTL 251

Query: 241 VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDP--GEIVFRFIDL 298
             ++ +KN   I+  I S++     +    +  GL          +        F +   
Sbjct: 252 TYKVGKKNKNNIQYPIYSINNQEGFRPQSEQFDGLDSNDRGYDISLYKIVDAETFAYNPA 311

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW-LMRSYDLCKVFYAMG-SGLRQS 356
           + +  S+  +  ++R I++S Y+  K             + +Y   K        G+RQ 
Sbjct: 312 RINVGSIGYSYDLKRVIVSSLYVCFKTKDTLEDLFLLAYLDTYSFQKDILRYEEGGVRQY 371

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           L +++   + + +P  +EQ  I N ++     ID  +E + Q I   +  +   + 
Sbjct: 372 LFYDNFSHIKIPLPTTQEQQKIANYLSA----IDTKIETVNQQINKTQAFKKGLLQ 423



 Score = 86.8 bits (213), Expect = 7e-15,   Method: Composition-based stats.
 Identities = 31/228 (13%), Positives = 72/228 (31%), Gaps = 18/228 (7%)

Query: 211 LNPDVKMKDSGIEW----VGLVPDHWEVKPFFALVTELNR---KNTKLIESNILSLSYGN 263
           L P ++ K+   EW     G +   +    F            KN    + +    SY  
Sbjct: 11  LVPKLRFKEFDGEWRMSQFGKLYKFYTTNSFSRDKLNYESGKVKNIHYGDIHTKFQSYFY 70

Query: 264 IIQ-KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER-----GIIT 317
           +    +   N  L     +       G+++                 +          + 
Sbjct: 71  LNNEYVPFVNDDLDLSKIKDEAFCKIGDLIIADASEDYADIGKTIEIIDINDEKVIAGLH 130

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ-SLKFEDVKRLPVLVPPIKEQF 376
           +             ++++L++S++L K    +  G +   L      +L +  P + EQ 
Sbjct: 131 TFLARPFSKETYIGFISYLLKSWNLRKQIMTIAQGTKVLGLSMGRFSQLKLNTPSLPEQQ 190

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGE 424
            I + ++    +I  L     +   LL++ +   +    +G +  + E
Sbjct: 191 KIASFLSAVDEKIQQL----NKKKTLLEQYKKGVMQQLFSGDLRFKDE 234


>gi|307721264|ref|YP_003892404.1| restriction modification system DNA specificity domain-containing
           protein [Sulfurimonas autotrophica DSM 16294]
 gi|306979357|gb|ADN09392.1| restriction modification system DNA specificity domain protein
           [Sulfurimonas autotrophica DSM 16294]
          Length = 412

 Score = 96.8 bits (239), Expect = 6e-18,   Method: Composition-based stats.
 Identities = 51/421 (12%), Positives = 128/421 (30%), Gaps = 44/421 (10%)

Query: 20  AIPK--------HWKVVPIKRFTK--LNTGRTSESGK---DIIYIGLEDVES-GTGKYLP 65
            +P+         W    +   +K   + G  ++  K       I ++D+   G      
Sbjct: 6   KVPELRFAEFSGEWDEKQLIELSKNGFSNGAFNDPKKAGHGYRIINVKDMYIDGRINISN 65

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD------FDGICSTQFLVLQPKDV 119
               +        +    G I + +          ++       D       + ++P   
Sbjct: 66  LLRVALDEKEFLKNRVEYGDIFFTRSSLVKEGIAYSNINLNNANDLTFDGHLIRMRPNKQ 125

Query: 120 LPELLQGWLLSIDVTQRIEAICEGAT--MSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
               L  +     +  R + I  G T  M+    + I ++ + +P   EQ  I   + + 
Sbjct: 126 NYSPLFLYYNFTTLYARKQFIIRGKTTTMTTIGQEDIASVKIVLPSKLEQEKIAFFLSSV 185

Query: 178 TVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPF 237
             +I+ L  ++    +  K   Q + S  +    + +              P+ W  K  
Sbjct: 186 DSKIEQLSKKKTLLEQYKKGVMQKIFSQELRFKDDDES-----------EFPE-WVEKQL 233

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID 297
              +    RK  K  E+ +      +     +  +      + E   +V   +++     
Sbjct: 234 GDFLILTLRKVPKPTENYLAIGIRSHCKGTFQKPDSEPHKIAMEKLFLVKENDLIVSITF 293

Query: 298 LQNDKRSLRSAQVMERGIITSAY--MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ 355
                 ++   +  + G+++  +             +  +++       +   +  G   
Sbjct: 294 AWESAIAIVKKE-DKNGLVSHRFPTYTFDEKIATHEFFKYVIIQKKFRFMLDLISPGGAG 352

Query: 356 S---LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
               +  +D   L   +P IKEQ  I N +    + +D  +    + +   KE + + + 
Sbjct: 353 RNRVMSKKDFLTLKWNMPCIKEQTKIANFL----SSLDKKIALTNKELDATKEFKKALLQ 408

Query: 413 A 413
            
Sbjct: 409 K 409



 Score = 81.4 bits (199), Expect = 3e-13,   Method: Composition-based stats.
 Identities = 27/219 (12%), Positives = 73/219 (33%), Gaps = 9/219 (4%)

Query: 213 PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
           P+++  +   EW            F        +K         +   Y +    +    
Sbjct: 8   PELRFAEFSGEWDEKQLIELSKNGFSNGAFNDPKKAGHGYRIINVKDMYIDGRINISNLL 67

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME--RGIITSAYMAVKPHGID- 329
                E       V+ G+I F    L  +  +  +  +            + ++P+  + 
Sbjct: 68  RVALDEKEFLKNRVEYGDIFFTRSSLVKEGIAYSNINLNNANDLTFDGHLIRMRPNKQNY 127

Query: 330 -STYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
              +L +   +    K F   G +    ++  ED+  + +++P   EQ  I   ++   +
Sbjct: 128 SPLFLYYNFTTLYARKQFIIRGKTTTMTTIGQEDIASVKIVLPSKLEQEKIAFFLSSVDS 187

Query: 388 RIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
           +I+ L     +   LL++ +   +    + ++  + + +
Sbjct: 188 KIEQL----SKKKTLLEQYKKGVMQKIFSQELRFKDDDE 222


>gi|324115000|gb|EGC08965.1| type I restriction modification DNA specificity domain-containing
           protein [Escherichia fergusonii B253]
          Length = 402

 Score = 96.8 bits (239), Expect = 6e-18,   Method: Composition-based stats.
 Identities = 37/386 (9%), Positives = 103/386 (26%), Gaps = 24/386 (6%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           +   +     + TG  +            D +     Y      +     +      +  
Sbjct: 17  EWSNLGNLCDIFTGGEAPQKHIKGDTPTSDYQ-----YPIYGNGAEIYGYADSYRIGQDA 71

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA----IC 141
           +    +G                 +  V+ PK         +      T   ++      
Sbjct: 72  VTISSIGANTGTIYFRKAFFTPIIRLKVVIPKHSWLLPRYLFHYLSSQTINSKSSSVPNM 131

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
             + +                 LA Q  I   +   T     L  E     +     +  
Sbjct: 132 NASDVKKLSIPIPCPNNPE-KSLAIQSEIVRILDKFTALTAELTAELNMRKKQYNYYRDQ 190

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
           L+S        P + M   G + +G        +    +           +        Y
Sbjct: 191 LLS--FDNEDVPHLPM---GQKDIGEFIRGGTFQKKDFM--------DAGVGCIHYGQIY 237

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
                  +     +     +  +    G ++       ++      A +    I  S+  
Sbjct: 238 TYYGTYTKKTKTHISAALAKKCKKAQKGNLIIATTSENDEDVCKAVAWLGSDDIAVSSDA 297

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITN 380
            +  H ++  Y+++  ++           +G   + +  +++ ++ + VP +  Q  I +
Sbjct: 298 CIYKHNLNPKYVSYYFQTEQFQNQKRQYITGAKVRRVNADNLSKILIPVPSMAVQERIVS 357

Query: 381 VINVETARIDVLVEKIEQSIVLLKER 406
           +++      + + E + + I L +++
Sbjct: 358 ILDKFDTLTNSITEGLPREIELRQKQ 383



 Score = 56.3 bits (134), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 22/161 (13%), Positives = 48/161 (29%), Gaps = 12/161 (7%)

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
           +         +    G   E Y        G+       +  +  ++   +     II  
Sbjct: 38  IKGDTPTSDYQYPIYGNGAEIYGYADSYRIGQDAVTISSIGANTGTIYFRKAFFTPIIRL 97

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-------P 371
             +  K   +   YL   + S  +        S    ++   DVK+L + +P        
Sbjct: 98  KVVIPKHSWLLPRYLFHYLSSQTI-----NSKSSSVPNMNASDVKKLSIPIPCPNNPEKS 152

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           +  Q +I  +++  TA    L  ++          R   ++
Sbjct: 153 LAIQSEIVRILDKFTALTAELTAELNMRKKQYNYYRDQLLS 193


>gi|51893047|ref|YP_075738.1| type I restriction-modification system specificity determinant
           protein [Symbiobacterium thermophilum IAM 14863]
 gi|51856736|dbj|BAD40894.1| type I restriction-modification system specificity determinant
           protein [Symbiobacterium thermophilum IAM 14863]
          Length = 400

 Score = 96.8 bits (239), Expect = 6e-18,   Method: Composition-based stats.
 Identities = 50/383 (13%), Positives = 118/383 (30%), Gaps = 28/383 (7%)

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPEL 123
           +P  G +     +   +     ++ G+ G Y    +      +  T F +  PK  L   
Sbjct: 20  VPVYGTNGPIGWTNKPLCPFPTVIIGRKGAYRGVHLSPSPCWVIDTAFYIS-PKQPLDIR 78

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
              +     +TQ I  +  G+ +     +    +P+ +PPLA Q  I + +     RI  
Sbjct: 79  WAYYQ---LLTQDINGMDSGSAIPSTSREEFYRLPVKVPPLAVQKQIADVLGTLDSRIAN 135

Query: 184 LITERIRFIELLKEKKQALVS-----YIVTKGLNPD--------VKMKDSGIEWVGLVPD 230
           + +  I    + +   ++            +G +P+           ++     +G +P 
Sbjct: 136 VQSTNICLESIGQAIFKSWFVDFDPVRAKAEGRDPEGVDEDTAAWFPEEFQDSELGPIPK 195

Query: 231 HWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGE 290
            W V    ++++ +        E    +    + +   +               I + G 
Sbjct: 196 GWRVDTIDSVISCVGGSTPSTKEPAYWNPPEYHWVTPKDLSGQSTPVLLTTERMISEAGL 255

Query: 291 IVFRFIDL-------QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC 343
                  L        +       A       I   ++A+ P G  S         Y+L 
Sbjct: 256 KKISSGLLPEGTLLLSSRAPIGYLAITKIPTAINQGFIAMPPAGQLSPEYMLFWSHYNLD 315

Query: 344 KVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
            +           +     +++ ++VPP      + N        +   +   E+  + L
Sbjct: 316 TIKQHANGSTFMEISKAAFRKIKLVVPP----AQLVNRFTQIAQTVLERIAANERYRMQL 371

Query: 404 KERRSSFIAAAVTGQIDLRGESQ 426
              R + +   + G++ +    +
Sbjct: 372 VNLRDTLLPRLIAGKLRVPEAEE 394



 Score = 66.0 bits (159), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 32/206 (15%), Positives = 61/206 (29%), Gaps = 15/206 (7%)

Query: 8   PQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGT 60
            +++DS    +G IPK W+V  I        G T  + +       +  ++  +D+   +
Sbjct: 183 EEFQDSE---LGPIPKGWRVDTIDSVISCVGGSTPSTKEPAYWNPPEYHWVTPKDLSGQS 239

Query: 61  GKYLPKDGNSRQS---DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPK 117
              L               +  +  +G +L     P      I       +  F+ + P 
Sbjct: 240 TPVLLTTERMISEAGLKKISSGLLPEGTLLLSSRAPI-GYLAITKIPTAINQGFIAMPPA 298

Query: 118 DVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
             L         S      I+    G+T           I + +PP        +     
Sbjct: 299 GQL-SPEYMLFWSHYNLDTIKQHANGSTFMEISKAAFRKIKLVVPPAQLVNRFTQIAQTV 357

Query: 178 TVRIDTLITERIRFIELLKEKKQALV 203
             RI      R++ + L       L+
Sbjct: 358 LERIAANERYRMQLVNLRDTLLPRLI 383


>gi|269978344|gb|ACZ55906.1| putative type I restriction-modification system specificity subunit
           S [Helicobacter pylori]
          Length = 420

 Score = 96.8 bits (239), Expect = 6e-18,   Method: Composition-based stats.
 Identities = 50/410 (12%), Positives = 119/410 (29%), Gaps = 34/410 (8%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPKDGNSRQSD 74
           PK  +   ++   ++  G T             I +  +ED+            +     
Sbjct: 13  PKGVEFKTLEEVFEIKNGYTPSKNNPEFWKNGTIPWFRMEDIRENGRILKDSIQHITPKA 72

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP---ELLQGWLLSI 131
                +F K  I+          A++   D + + +F  L  K       ++   +    
Sbjct: 73  LKGKKLFPKNSIIISTTATIGEHALLI-VDSLANQRFTFLSKKANCDIALDMKFFFYQCF 131

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            + +  +     +  +  D         PIPPL  Q  I + + A T          +  
Sbjct: 132 LLGEWCKNNINVSGFASVDMTAFKKYKFPIPPLEIQQEIVKILDAFTELNTE-----LNA 186

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGL-----VPDHWEVKPFFALVTELNR 246
            +   +  Q ++        N       S  + +        P   E +    ++     
Sbjct: 187 RKKQYQYYQNMLLDFNDINQNHKDAKIKSYPKRLKTLLQTLAPKGVEFRKLGEVLEYDQP 246

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
               +            ++   +T  +G   E    YQ      ++       +   + +
Sbjct: 247 NQYCVTSKEFDKSYPTPVLTAGKTFILGYTNEKDNIYQASKNAPVII----FDDFTTATQ 302

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLP 366
                 +   ++  + +  + I +    +         +    G   RQ +      +L 
Sbjct: 303 WVDFPFKVKSSAMKILLPKNPIINIRFIFFYMQTIPYNI---SGEHTRQWISR--YSQLA 357

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           + +PP++ Q +I  +++  +A    L+  I   I   K+     R   + 
Sbjct: 358 IPIPPLEIQQEIVKILDQFSALTTDLLAGIPAEIKARKKQYEYYREKLLT 407


>gi|17988795|ref|NP_541428.1| type I restriction-modification system specificity subunit
           [Brucella melitensis bv. 1 str. 16M]
 gi|225686603|ref|YP_002734575.1| type I restriction enzyme specificity protein [Brucella melitensis
           ATCC 23457]
 gi|256043714|ref|ZP_05446637.1| Type I restriction enzyme specificity protein [Brucella melitensis
           bv. 1 str. Rev.1]
 gi|256111243|ref|ZP_05452274.1| Type I restriction enzyme specificity protein [Brucella melitensis
           bv. 3 str. Ether]
 gi|256262258|ref|ZP_05464790.1| type I restriction-modification system protein [Brucella melitensis
           bv. 2 str. 63/9]
 gi|260564901|ref|ZP_05835386.1| type I restriction-modification system protein [Brucella melitensis
           bv. 1 str. 16M]
 gi|265990136|ref|ZP_06102693.1| predicted protein [Brucella melitensis bv. 1 str. Rev.1]
 gi|265992756|ref|ZP_06105313.1| predicted protein [Brucella melitensis bv. 3 str. Ether]
 gi|17984613|gb|AAL53692.1| type i restriction-modification system specificity subunit
           [Brucella melitensis bv. 1 str. 16M]
 gi|225642708|gb|ACO02621.1| Type I restriction enzyme specificity protein [Brucella melitensis
           ATCC 23457]
 gi|260152544|gb|EEW87637.1| type I restriction-modification system protein [Brucella melitensis
           bv. 1 str. 16M]
 gi|262763626|gb|EEZ09658.1| predicted protein [Brucella melitensis bv. 3 str. Ether]
 gi|263000805|gb|EEZ13495.1| predicted protein [Brucella melitensis bv. 1 str. Rev.1]
 gi|263091974|gb|EEZ16280.1| type I restriction-modification system protein [Brucella melitensis
           bv. 2 str. 63/9]
 gi|326410993|gb|ADZ68057.1| type I restriction enzyme specificity protein [Brucella melitensis
           M28]
 gi|326554284|gb|ADZ88923.1| type I restriction enzyme specificity protein [Brucella melitensis
           M5-90]
          Length = 407

 Score = 96.8 bits (239), Expect = 6e-18,   Method: Composition-based stats.
 Identities = 61/416 (14%), Positives = 120/416 (28%), Gaps = 38/416 (9%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +PK W+ V I +  +  + R   S  DI  + +               +    +T    
Sbjct: 4   EVPKGWREVRIGQIAREISNRNHASA-DIPVLSMTKHRGFVRSNEYFSKSVHSENTRQYK 62

Query: 80  IFAKGQILYGKLGPYLRKAII--ADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV---- 133
           +  +GQ  Y  +            +  G+ S  + V +                      
Sbjct: 63  VVKRGQFAYATIHLDEGSIDYLRNEDAGLISPMYTVFETNSEEINNEIALRQFKRFALSG 122

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
                +           +  +      +PPL EQ  I E + A        I +    I+
Sbjct: 123 RFDPYSNGGVNRRKSILFSDLSAFKFGLPPLTEQRAIAEVLGAAEAA----IAKTEALIK 178

Query: 194 LLKEKKQALV-SYIVTKGLNPDVKMKDSGIEWV-GLVPDHWEVKPFFALVTELNRKNTKL 251
            +++ K+AL+  Y V +  +           W+ G  P                    + 
Sbjct: 179 AIEQTKKALLKQYFVERQQSLLWSCVAKMGRWLSGGTPATA---------------AEEN 223

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETY-QIVDPGEIVFRFIDLQNDKRSLRSAQV 310
            + +I  +   +I     +  +    E       +V PG ++     +    RS+ S   
Sbjct: 224 WKGSIPWVCPKDIKGPSISSTVDHISEDAAKALGMVGPGTLLLVVRGMIL-ARSVPSTIC 282

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWL---MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
             R        A  P+   +     L   +  + L         G  +    E +   PV
Sbjct: 283 TVRCAFNQDVKAFVPNEGVAPAFLKLWLDINEHKLLGEIETATHGT-KRFPLERLNEFPV 341

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
            V    EQ  +  +      R+         ++  L+  R +     ++G+I L  
Sbjct: 342 PVVTRDEQIRLVTLAESSQERLRS----ERDNLSALRSVRDALAQELLSGRIRLPE 393


>gi|49484056|ref|YP_041280.1| type I restriction modification DNA specificity protein
           [Staphylococcus aureus subsp. aureus MRSA252]
 gi|282904386|ref|ZP_06312274.1| type I restriction-modification enzyme, S subunit, EcoA family
           [Staphylococcus aureus subsp. aureus C160]
 gi|282906210|ref|ZP_06314065.1| type I restriction enzyme S subunit [Staphylococcus aureus subsp.
           aureus Btn1260]
 gi|282911435|ref|ZP_06319237.1| type I restriction-modification enzyme [Staphylococcus aureus
           subsp. aureus WBG10049]
 gi|282919572|ref|ZP_06327307.1| type I restriction enzyme, S subunit [Staphylococcus aureus subsp.
           aureus C427]
 gi|283958566|ref|ZP_06376017.1| type I restriction-modification enzyme, S subunit, EcoA family
           [Staphylococcus aureus subsp. aureus A017934/97]
 gi|295428387|ref|ZP_06821016.1| type I restriction enzyme [Staphylococcus aureus subsp. aureus
           EMRSA16]
 gi|49242185|emb|CAG40887.1| putative type I restriction modification DNA specificity protein
           [Staphylococcus aureus subsp. aureus MRSA252]
 gi|282317382|gb|EFB47756.1| type I restriction enzyme, S subunit [Staphylococcus aureus subsp.
           aureus C427]
 gi|282325130|gb|EFB55440.1| type I restriction-modification enzyme [Staphylococcus aureus
           subsp. aureus WBG10049]
 gi|282331502|gb|EFB61016.1| type I restriction enzyme S subunit [Staphylococcus aureus subsp.
           aureus Btn1260]
 gi|282596004|gb|EFC00968.1| type I restriction-modification enzyme, S subunit, EcoA family
           [Staphylococcus aureus subsp. aureus C160]
 gi|283790715|gb|EFC29532.1| type I restriction-modification enzyme, S subunit, EcoA family
           [Staphylococcus aureus subsp. aureus A017934/97]
 gi|295127787|gb|EFG57424.1| type I restriction enzyme [Staphylococcus aureus subsp. aureus
           EMRSA16]
 gi|315195724|gb|EFU26111.1| putative type I restriction modification DNA specificity protein
           [Staphylococcus aureus subsp. aureus CGS00]
          Length = 384

 Score = 96.8 bits (239), Expect = 6e-18,   Method: Composition-based stats.
 Identities = 46/393 (11%), Positives = 111/393 (28%), Gaps = 30/393 (7%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W+   +    K+N+G+  +            +E G        G           +   
Sbjct: 20  EWEEKKLGDLIKVNSGKDYK-----------HLEKGDIPVYGTGGYMTSVSEP---LSEI 65

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
             +  G+ G   +  ++        T F     K+     +             +   E 
Sbjct: 66  DAVGIGRKGTINKPYLLEAPFWTVDTLFYCTPKKETDILFILSLFR----KINWKVYDES 121

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
             +     + I  I   +P   EQ  I E  I    +I+    +     +  K   Q + 
Sbjct: 122 TGVPSLSKQTINKINRFVPSNKEQQKIGEFFIKLDRQIELEEQKLELLQQQKKGYMQKIF 181

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
           S  +           +   + +  +                N K  +    +I  +   +
Sbjct: 182 SQELRFKDENGNDYPNWEEKKIEDI------ASQVYGGGTPNTKIKEFWNGDIPWIQSSD 235

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
           +           K  S  + ++     I    I +       +   V      +  ++++
Sbjct: 236 VKVNDLILRQCNKFISKNSIELSSAKLIPANSIAIVTRVGVGKLCLVEFDYATSQDFLSL 295

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-PIKEQFDITNVI 382
                D  Y  + +  Y + K+   +     + +  +++    + +P  ++EQ  I +  
Sbjct: 296 SSLKYDKLYSLYSLL-YTMKKISANLQGTSIKGITKKELLDSIIKIPHNLEEQQKIGD-- 352

Query: 383 NVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
                +ID  +   +  I +LK  +   +    
Sbjct: 353 --LFYKIDKYISFNKCKIEILKSLKQGLLQKIF 383


>gi|307825363|ref|ZP_07655582.1| restriction modification system DNA specificity domain protein
           [Methylobacter tundripaludum SV96]
 gi|307733538|gb|EFO04396.1| restriction modification system DNA specificity domain protein
           [Methylobacter tundripaludum SV96]
          Length = 165

 Score = 96.8 bits (239), Expect = 6e-18,   Method: Composition-based stats.
 Identities = 23/153 (15%), Positives = 56/153 (36%), Gaps = 4/153 (2%)

Query: 270 TRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI- 328
            + +    +       ++  +++F   +           +     I     + +      
Sbjct: 12  DKLVYSDDDCEIDKYFLNNNDVLFNRTNSPELVGKTAIYKAEMPAIFAGYLIRIHRKENL 71

Query: 329 -DSTYLAWLMRSYDLCKVFYA--MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
            D+ YL + + S    +      + S  + ++  + +K  P+ +PP+KEQ  I   I+  
Sbjct: 72  LDADYLNYFLNSKIAKEYGKTVVISSVNQANINGQKLKSYPIPLPPLKEQQAIVVKISAL 131

Query: 386 TARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           +     L    +Q +  L E + S +  A +G+
Sbjct: 132 SEETQRLESIYQQKLAALDELKKSLLHQAFSGE 164



 Score = 37.5 bits (85), Expect = 4.7,   Method: Composition-based stats.
 Identities = 25/166 (15%), Positives = 57/166 (34%), Gaps = 8/166 (4%)

Query: 53  LEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGP---YLRKAIIADFDGICST 109
           + +++SG   +     +    +     +     +L+ +        + AI          
Sbjct: 1   MGNIQSGRFVWDKLVYSDDDCEIDKYFL-NNNDVLFNRTNSPELVGKTAIYKAEMPAIFA 59

Query: 110 QFLVLQPKDVL----PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLA 165
            +L+   +         L       I        +      ++ + + + + P+P+PPL 
Sbjct: 60  GYLIRIHRKENLLDADYLNYFLNSKIAKEYGKTVVISSVNQANINGQKLKSYPIPLPPLK 119

Query: 166 EQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGL 211
           EQ  I  KI A +     L +   + +  L E K++L+    +  L
Sbjct: 120 EQQAIVVKISALSEETQRLESIYQQKLAALDELKKSLLHQAFSGEL 165


>gi|304383192|ref|ZP_07365665.1| type I site-specific deoxyribonuclease [Prevotella marshii DSM
           16973]
 gi|304335663|gb|EFM01920.1| type I site-specific deoxyribonuclease [Prevotella marshii DSM
           16973]
          Length = 444

 Score = 96.8 bits (239), Expect = 6e-18,   Method: Composition-based stats.
 Identities = 59/380 (15%), Positives = 125/380 (32%), Gaps = 5/380 (1%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +P  W    +     L +GR  +  +   +       +G            +  T+ ++
Sbjct: 67  DVPNGWCKTALSEIITLLSGRDLQPTQYNSFEKGIPYITGASNIDNNTIIINRWTTAPIT 126

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           I  KG +L    G   + A   +  G        +  + + P + +     ++       
Sbjct: 127 ISHKGDLLITCKGTIGKLAF--NSVGDLHIARQFMSLQFIEPLVSKYLFYCLEERISAIK 184

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
             +   +   D   I N  + +PPLAEQ  I  +I      IDT+   +      +K+ K
Sbjct: 185 QMDNGLIPGIDRSIILNQIIQLPPLAEQYRIVAEIERWFALIDTIEKSKEGLETAIKQTK 244

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
             ++   +   L P     +   E +  +    ++        +L R+ + +   ++  L
Sbjct: 245 SKILDLAIHGKLVPQDPKDEPASEQLRRINPKAKITCDNGHYAQLPREWSVISMQDVCKL 304

Query: 260 SYGNIIQKLETRNMGLKP-ESYETYQIVDPGEIVF--RFIDLQNDKRSLRSAQVMERGII 316
             G  +      N+ +K        +++D G+ V    ++ L + + S    +    G  
Sbjct: 305 KDGIKLDSTPLINLDVKYLRGTSAGKVIDSGKFVTANSYMILVDGENSGEVFKTPIDGYQ 364

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
            S +  +             + +     +           L  +  K + V +PP  EQ 
Sbjct: 365 GSTFKLLDIDQNIDEKYILNVINLHRKALRENKVGSAIPHLNKKLFKAISVPLPPYNEQV 424

Query: 377 DITNVINVETARIDVLVEKI 396
            I   I      +D L E +
Sbjct: 425 RIVEAIKSTFNLLDALKENL 444



 Score = 59.8 bits (143), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 32/194 (16%), Positives = 69/194 (35%), Gaps = 7/194 (3%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILS--LSYGNIIQKLETRNMGLKPESYETYQ 284
            VP+ W       ++T L+ ++ +  + N     + Y      ++   + +   +     
Sbjct: 67  DVPNGWCKTALSEIITLLSGRDLQPTQYNSFEKGIPYITGASNIDNNTIIINRWTTAPIT 126

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCK 344
           I   G+++            L    V +  I            + S YL + +   +   
Sbjct: 127 ISHKGDLLITCKGTIGK---LAFNSVGDLHIARQFMSLQFIEPLVSKYLFYCL--EERIS 181

Query: 345 VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLK 404
               M +GL   +    +    + +PP+ EQ+ I   I    A ID + +  E     +K
Sbjct: 182 AIKQMDNGLIPGIDRSIILNQIIQLPPLAEQYRIVAEIERWFALIDTIEKSKEGLETAIK 241

Query: 405 ERRSSFIAAAVTGQ 418
           + +S  +  A+ G+
Sbjct: 242 QTKSKILDLAIHGK 255


>gi|294339640|emb|CAZ88000.1| putative Type I Restriction modification protein [Thiomonas sp.
           3As]
          Length = 396

 Score = 96.8 bits (239), Expect = 6e-18,   Method: Composition-based stats.
 Identities = 62/366 (16%), Positives = 124/366 (33%), Gaps = 10/366 (2%)

Query: 60  TGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV 119
            G+      N      +  + F    I+ G+ G + +            T + +      
Sbjct: 26  EGEVPVYGSNGITGTHNAANTFGP-AIIVGRKGSFGKVTWTDVPSFCIDTAYFI---DSR 81

Query: 120 LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
             +    WL     T  ++   E   +     +      + +PP  EQ  I   +  +T 
Sbjct: 82  STKASLRWLYWSLQTLGLDEHSEDTGVPGLSREKAYQAKLKLPPSVEQERISNFLDEKTA 141

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFA 239
           RID LI E+ R +E L+E   +++S     G N            +  V       PF +
Sbjct: 142 RIDALIAEKERLVEKLEEHWASVIS--TELGANETEGKHAWTTIPLKYVTVARCDGPFGS 199

Query: 240 LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID-- 297
            +T  +  +       + ++ +G                   TY  V  G+I+   +   
Sbjct: 200 ALTSAHYVDEGARVIRLQNIRFGEFDSTDAAFIDDDYFARELTYHSVLEGDILIAGLGDE 259

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVK--PHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ 355
                R+  +  +    ++ +     +     +   ++A  + +              RQ
Sbjct: 260 KNFVGRACVAPNLGSNALVKADCFRFRVDTKRVLPKFVALQLSATAQRDGGLLSSGSTRQ 319

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            +     +   + +P + EQ DI   +         L+    + I  L+E RSS ++AAV
Sbjct: 320 RIPLTVTECRLLCLPALAEQIDIVERLERRKREHSTLLHHTAEHIARLREYRSSLVSAAV 379

Query: 416 TGQIDL 421
           TGQ+++
Sbjct: 380 TGQLNV 385


>gi|241762636|ref|ZP_04760708.1| restriction modification system DNA specificity domain protein
           [Zymomonas mobilis subsp. mobilis ATCC 10988]
 gi|241372774|gb|EER62486.1| restriction modification system DNA specificity domain protein
           [Zymomonas mobilis subsp. mobilis ATCC 10988]
          Length = 419

 Score = 96.8 bits (239), Expect = 7e-18,   Method: Composition-based stats.
 Identities = 61/405 (15%), Positives = 123/405 (30%), Gaps = 32/405 (7%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           +P+ W        T   +G +      +        +   G Y P    S          
Sbjct: 4   LPQGWIQTTFADITNQRSGNSKLVKGKLES------QESNGLY-PAFSASGPDVWRDAFE 56

Query: 81  FAKGQILYGKLGPYLRKAIIADFDG--ICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           +    I+   +G    KA  A      I +T  +  +P+ V  E L   L   +  +   
Sbjct: 57  YEGDAIIVSAVGARCGKAFRAKGQWSAIANTHIVWPEPQVVETEFLFLLLNDENFWE--- 113

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
               G+       +      + +PPL EQ  I  KI + T +             L+++ 
Sbjct: 114 --KGGSAQPFVKVRATFERTINLPPLPEQRRIVAKIDSLTGKSRRARDHLDHIPRLVEKY 171

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
           KQA++S         D  +   G        +          +    R   +     +  
Sbjct: 172 KQAILSAAFR----ADWPLISVG--------ETIRAVVAGKNLRCEERPPFEHESGVVKV 219

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA-QVMERGIIT 317
            +               +  +      +  G+++    +      ++    +      ++
Sbjct: 220 SAVSWGTFDARASKTLPESFTPPENTRIKAGDLLISRANTLELVGAVVIVLECPSNLFLS 279

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR---QSLKFEDVKRLPVLVPPIKE 374
              + +     D  +L W +RS D         +G +   ++L    +K + +  P   E
Sbjct: 280 DKVLRLDVEDGDKPWLMWFLRSPDGRAAIEGAATGNQLSMRNLSQAALKSISMPWP-AAE 338

Query: 375 Q-FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           Q  +I + I    A I+ L      +  L+     S +A A  G+
Sbjct: 339 QREEIVSRIESAFAWIECLAADAASARKLIDHLDQSMLAKAFKGE 383



 Score = 39.4 bits (90), Expect = 1.2,   Method: Composition-based stats.
 Identities = 32/207 (15%), Positives = 65/207 (31%), Gaps = 14/207 (6%)

Query: 24  HWKVVPIKRFTK-LNTGRT------SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            W ++ +    + +  G+            +   + +  V  GT                
Sbjct: 183 DWPLISVGETIRAVVAGKNLRCEERPPFEHESGVVKVSAVSWGTFDARASKTLPESFTPP 242

Query: 77  TVSIFAKGQILYGKLGP---YLRKAII--ADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
             +    G +L  +           I+     +   S + L L  +D     L  +L S 
Sbjct: 243 ENTRIKAGDLLISRANTLELVGAVVIVLECPSNLFLSDKVLRLDVEDGDKPWLMWFLRSP 302

Query: 132 DVTQRIEAICEGA--TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
           D    IE    G   +M +     + +I MP P   ++  I  +I +    I+ L  +  
Sbjct: 303 DGRAAIEGAATGNQLSMRNLSQAALKSISMPWPAAEQREEIVSRIESAFAWIECLAADAA 362

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVK 216
              +L+    Q++++      L P   
Sbjct: 363 SARKLIDHLDQSMLAKAFKGELVPQDP 389


>gi|226225493|ref|YP_002759599.1| putative type I restriction-modification system restriction subunit
           [Gemmatimonas aurantiaca T-27]
 gi|226088684|dbj|BAH37129.1| putative type I restriction-modification system restriction subunit
           [Gemmatimonas aurantiaca T-27]
          Length = 409

 Score = 96.8 bits (239), Expect = 7e-18,   Method: Composition-based stats.
 Identities = 45/403 (11%), Positives = 107/403 (26%), Gaps = 33/403 (8%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + WK V +   +   T    +     + I          +   +D +  Q      ++  
Sbjct: 22  EGWKSVTLGEVSTQVTEIVGDRKLTPVSISAGIGFVPQAEKFGRDISGNQ--YQRYTLVR 79

Query: 83  KGQILYGKLGPY---LRKAIIADFDG-------ICSTQFLVLQPKDVLPELLQGWLLSID 132
            G  ++ K            +    G           +              +       
Sbjct: 80  DGDFVFNKGNSLKFPQGCVYLLHGWGQVAAPSVFICFRLRDGYSNGFFQNCFEQNQHGRQ 139

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           + + I +      + +   +    + +P P  AEQ  I E + +        I  + R +
Sbjct: 140 LKRHITSGARSNGLLNISKETFFGVEIPTPTSAEQQKIAECLSSADEL----IAAQARKV 195

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           + LK  K+ L+  +  +      +++       G     WE+K    +      K   + 
Sbjct: 196 DALKTHKKGLMQQLFPREGETQPRLRFPDFRECGE----WELKAVGDVFEVTRGKVLAMT 251

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
                + S                   Y  Y      + +    D  N   +        
Sbjct: 252 LVKEDASSDAPYPVYSSQTKSKGLAGYYSEYLY---RDAITWTTDGAN---AGDVNFRSG 305

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI 372
               T+    +      +      + +         +G+     L    ++++ +  P  
Sbjct: 306 PFYCTNVCGVLVNTRGYANACVAALLNGVTRSHVSYVGN---PKLMNGVMEKIEIPFPSP 362

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           +EQ  I   +    + +D L+      +  LK  +   +    
Sbjct: 363 QEQQRIAECL----SSLDALITAESDKLEALKHHKRGLMQQLF 401


>gi|23500571|ref|NP_700011.1| type I restriction-modification system, S subunit [Brucella suis
           1330]
 gi|161620898|ref|YP_001594784.1| Type I restriction enzyme EcoR124II specificity protein [Brucella
           canis ATCC 23365]
 gi|254703172|ref|ZP_05165000.1| Type I restriction enzyme EcoR124II specificity protein [Brucella
           suis bv. 3 str. 686]
 gi|260567900|ref|ZP_05838369.1| type I restriction-modification system protein [Brucella suis bv. 4
           str. 40]
 gi|261753794|ref|ZP_05997503.1| predicted protein [Brucella suis bv. 3 str. 686]
 gi|23464208|gb|AAN34016.1| type I restriction-modification system, S subunit [Brucella suis
           1330]
 gi|161337709|gb|ABX64013.1| Type I restriction enzyme EcoR124II specificity protein [Brucella
           canis ATCC 23365]
 gi|260154565|gb|EEW89646.1| type I restriction-modification system protein [Brucella suis bv. 4
           str. 40]
 gi|261743547|gb|EEY31473.1| predicted protein [Brucella suis bv. 3 str. 686]
          Length = 407

 Score = 96.8 bits (239), Expect = 7e-18,   Method: Composition-based stats.
 Identities = 61/416 (14%), Positives = 121/416 (29%), Gaps = 38/416 (9%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +PK W+ V I +  +  + R   S  DI  + +               +    +T    
Sbjct: 4   EVPKGWREVRIGQIAREISNRNHASA-DIPVLSMTKHRGFVRSNEYFSKSVHSENTRQYK 62

Query: 80  IFAKGQILYGKLGPYLRKAII--ADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV---- 133
           +  +GQ  Y  +            +  G+ S  + V +      +               
Sbjct: 63  VVKRGQFAYATIHLDEGSIDYLRNEDAGLISPMYTVFETNSEEIDNEIALRQFKRFALSG 122

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
                +           +  +      +PPL EQ  I E + A        I +    I+
Sbjct: 123 RFDPYSNGGVNRRKSILFSDLSAFKFGLPPLTEQRAIAEVLGAAEAA----IAKTEALIK 178

Query: 194 LLKEKKQALV-SYIVTKGLNPDVKMKDSGIEWV-GLVPDHWEVKPFFALVTELNRKNTKL 251
            +++ K+AL+  Y V +  +           W+ G  P                    + 
Sbjct: 179 AIEQTKKALLKQYFVERQQSLLWSCVAKMGRWLSGGTPATA---------------AEEN 223

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETY-QIVDPGEIVFRFIDLQNDKRSLRSAQV 310
            + +I  +   +I     +  +    E       +V PG ++     +    RS+ S   
Sbjct: 224 WKGSIPWVCPKDIKGPSISSTVDHISEDAAKALGMVGPGTLLLVVRGMIL-ARSVPSTIC 282

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWL---MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
             R        A  P+   +     L   +  + L         G  +    E +   PV
Sbjct: 283 TVRCAFNQDVKAFVPNEGVAPAFLKLWLDINEHKLLGEIETATHGT-KRFPLEHLNEFPV 341

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
            V    EQ  +  +      R+         ++  L+  R +     ++G+I L  
Sbjct: 342 PVVTRDEQIRLVTLAESSQERLRS----ERDNLSALRSVRDALAQELLSGRIRLPE 393


>gi|269793143|ref|YP_003318047.1| restriction modification system DNA specificity domain-containing
           protein [Thermanaerovibrio acidaminovorans DSM 6589]
 gi|269100778|gb|ACZ19765.1| restriction modification system DNA specificity domain protein
           [Thermanaerovibrio acidaminovorans DSM 6589]
          Length = 374

 Score = 96.4 bits (238), Expect = 7e-18,   Method: Composition-based stats.
 Identities = 55/406 (13%), Positives = 123/406 (30%), Gaps = 54/406 (13%)

Query: 22  PKHWKVVPIKRFTKLNTGRTS-----ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           P   K VP+K+  ++ TG +      + G+   Y+  +++         ++      +  
Sbjct: 13  PSGVKYVPLKQIAEVGTGSSDRVNAVDDGEYPFYVRSKNILRSNRYLFDEEAIIIPGEGG 72

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
              IF                  +     +    + +      +      + LS +  + 
Sbjct: 73  IGDIFH----------------YVNGKYDLHQRAYRIHLIDPNVNTKFTYYCLSANFKKF 116

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           I      AT++      I N  +P+PPL  Q  I   +   T     L  E    +   +
Sbjct: 117 IIMKAVNATVTSIRKPMIENFQIPLPPLPVQQEIVRILDNFTELTAELTAELTAELTARR 176

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
           ++ +    +++T G           +EW              +    + +   K  E   
Sbjct: 177 KQYEYYRDFLLTFG---------DEVEW---TTLGEVAINLDSKRKPVAKGKRKAGEYPY 224

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
              S           +      S +   +V                  +  +   +  + 
Sbjct: 225 YGASGIVDYVDDYIFDGDYLLVSEDGANLV-------------ARVTPIAFSASGKIWVN 271

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
             A++       D  ++ + +   DL +      +  +  L  E++ ++PV  P  +E+ 
Sbjct: 272 NHAHVLEFETYEDRKFIEYYLNMIDLSRFL---STAAQPKLTQENLNKIPVPAPSFEEKE 328

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA-AAVTG 417
            I  +++   A  + L   I   I   ++     R   +    VTG
Sbjct: 329 RIVAILDRFDALCNDLTSGIPAEIEARQKQYEYYRDKLLTFKEVTG 374



 Score = 66.4 bits (160), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 22/188 (11%), Positives = 59/188 (31%), Gaps = 9/188 (4%)

Query: 234 VKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVF 293
           +     L+ EL     K +    ++        ++   + G  P    +  I+     +F
Sbjct: 1   MSKLDELIAELCPSGVKYVPLKQIAEVGTGSSDRVNAVDDGEYPFYVRSKNILRSNRYLF 60

Query: 294 ----RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCK-VFYA 348
                 I  +     +      +  +   AY         +T   +   S +  K +   
Sbjct: 61  DEEAIIIPGEGGIGDIFHYVNGKYDLHQRAYRIHLIDPNVNTKFTYYCLSANFKKFIIMK 120

Query: 349 MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE--- 405
             +    S++   ++   + +PP+  Q +I  +++  T     L  ++   +   ++   
Sbjct: 121 AVNATVTSIRKPMIENFQIPLPPLPVQQEIVRILDNFTELTAELTAELTAELTARRKQYE 180

Query: 406 -RRSSFIA 412
             R   + 
Sbjct: 181 YYRDFLLT 188


>gi|227523729|ref|ZP_03953778.1| type I site-specific deoxyribonuclease specificity subunit
           [Lactobacillus hilgardii ATCC 8290]
 gi|227089044|gb|EEI24356.1| type I site-specific deoxyribonuclease specificity subunit
           [Lactobacillus hilgardii ATCC 8290]
          Length = 402

 Score = 96.4 bits (238), Expect = 7e-18,   Method: Composition-based stats.
 Identities = 58/392 (14%), Positives = 127/392 (32%), Gaps = 42/392 (10%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDII-----YIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           W+   +    K     +     ++      YI   D+ + + KY+ K        +    
Sbjct: 18  WEQRKLGEGLKQLKSYSLPRKYEVPESDTEYIHYGDIHTSSRKYVDKSFRLPNIKSGDFQ 77

Query: 80  IFAKGQILYGKLGPYLRKAI-------IADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
           +   G I+        ++         I     +     + ++ K   P       LS  
Sbjct: 78  LLQTGDIVLADASEDYKEIAEPMLMKNIKGRKVVSGLHTIAIRLKCGDPVYYLYLFLSPG 137

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
               +  +  G  +   ++  +    + +P   EQ  I + +      I    ++  +  
Sbjct: 138 FRHYVYKVGTGLKVFGINYDKVQKYFLAVPDEKEQKYIGKILFLTDQLIAANQSKLEQLK 197

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
            L K   Q + +                  EW          +     + E  ++N K  
Sbjct: 198 RLKKLLMQKIFNQ-----------------EWRFKGFTDPWEQRKLGEIFEERKENPKGQ 240

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYE-TYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
              +LS++  + I      N      S +  Y++V   +I +  + +      + +    
Sbjct: 241 TLKMLSVTINSGIVDANVLNRKDNSNSNKSNYKVVHANDIAYNSMRMWQGASGVSN---- 296

Query: 312 ERGIITSAYMAVKPHGI-DSTYLAWLMRSYDLCKVFYAMGSGLR---QSLKFEDVKRLPV 367
           E GI++ AY  +KP    D  +  +L +   + + F     GL     +LK++ +K + V
Sbjct: 297 ELGIVSPAYTVLKPRVGLDVRFWGYLFKLTKMLQEFQKNSQGLTSDTWNLKYKQIKSIEV 356

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
            +P   EQ  I    +    ++D  +    + 
Sbjct: 357 TMPSKNEQNAI----SQLLQKLDFSIAANLRQ 384



 Score = 71.7 bits (174), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 32/211 (15%), Positives = 66/211 (31%), Gaps = 17/211 (8%)

Query: 213 PDVKMKDSGIEW----VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKL 268
           P ++ K     W    +G      +                      I         +K 
Sbjct: 7   PKIRFKGFDDPWEQRKLGEGLKQLKSYSLPRKYEVPESDTEY-----IHYGDIHTSSRKY 61

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS---LRSAQVMERGIITSAYMAVKP 325
             ++  L       +Q++  G+IV         + +   L       + +     +A++ 
Sbjct: 62  VDKSFRLPNIKSGDFQLLQTGDIVLADASEDYKEIAEPMLMKNIKGRKVVSGLHTIAIRL 121

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
              D  Y  +L  S       Y +G+GL    + ++ V++  + VP  KEQ  I  ++  
Sbjct: 122 KCGDPVYYLYLFLSPGFRHYVYKVGTGLKVFGINYDKVQKYFLAVPDEKEQKYIGKILF- 180

Query: 385 ETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
                D L+   +  +  LK  +   +    
Sbjct: 181 ---LTDQLIAANQSKLEQLKRLKKLLMQKIF 208


>gi|303250873|ref|ZP_07337066.1| hypothetical protein APP6_1998 [Actinobacillus pleuropneumoniae
           serovar 6 str. Femo]
 gi|302650288|gb|EFL80451.1| hypothetical protein APP6_1998 [Actinobacillus pleuropneumoniae
           serovar 6 str. Femo]
          Length = 481

 Score = 96.4 bits (238), Expect = 7e-18,   Method: Composition-based stats.
 Identities = 53/429 (12%), Positives = 116/429 (27%), Gaps = 70/429 (16%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            IP+ W  V ++    L  GR   + +          E   G Y    GN  +    T +
Sbjct: 70  EIPESWVWVRLEDIFHLQAGRFISASE-------IYGEYKEGLYPCYGGNGLRGFVKTYN 122

Query: 80  IFAKGQI-LYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
              +G+  + G+ G        A+     +   +V++       L   +     +   + 
Sbjct: 123 --REGKFPIIGRQGALCGNINFAEGKFYSTEHAVVVETFSNTDTLWANYF---LIQLNLN 177

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
                          I ++ +P+PPL EQ  I  KI      I+    +  +   L ++ 
Sbjct: 178 QYATATAQPGLAVNKINDVLIPLPPLNEQKRIVAKIEELLPYIEQYAEKEEKLTALHQQF 237

Query: 199 K----QALVSYIVTKGLNPDVKM------------------------------------- 217
                ++++   +   L                                           
Sbjct: 238 PEQLKKSILQAAIQGKLTEQNPNDEPASALIERIKAEKLRLIAEKKLKKPKVISEIIMRD 297

Query: 218 -----------KDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ 266
                      +    E    +P+ W       +      ++             G    
Sbjct: 298 NLPYEIVNGKERCIADEVPFEIPESWVWVRLSEISKITMGQSPDNK----YLGKEGIEFH 353

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
           + ++       ES + Y  +         I L                 I     ++ P 
Sbjct: 354 QGKSFFSEYIIESSDIYCSLPNKLATPNSILLCVRAPVGIVNITNRELCIGRGLASIDPI 413

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
            +++ +L + +  Y              +++  + +    + +PP+ EQ  I   I    
Sbjct: 414 YVNTIFLYYALFCYKNY-YERKSTGSTFKAISKDIIDNTIIPIPPLNEQIRIVEKIETLF 472

Query: 387 ARIDVLVEK 395
           + +  L +K
Sbjct: 473 STLQNLSQK 481



 Score = 71.0 bits (172), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 25/204 (12%), Positives = 60/204 (29%), Gaps = 18/204 (8%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
           +  ++   +P+ W       +      +     E                     +K  +
Sbjct: 63  TEQDFPFEIPESWVWVRLEDIFHLQAGRFISASEIYGEYKEGLYPCYGGNGLRGFVKTYN 122

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
            E           F  I  Q       +    +      A +       D+ +  + +  
Sbjct: 123 REGK---------FPIIGRQGALCGNINFAEGKFYSTEHAVVVETFSNTDTLWANYFLIQ 173

Query: 340 YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
            +L +      +  +  L    +  + + +PP+ EQ  I   I      I+    + E+ 
Sbjct: 174 LNLNQY---ATATAQPGLAVNKINDVLIPLPPLNEQKRIVAKIEELLPYIEQY-AEKEEK 229

Query: 400 IVLL-----KERRSSFIAAAVTGQ 418
           +  L     ++ + S + AA+ G+
Sbjct: 230 LTALHQQFPEQLKKSILQAAIQGK 253


>gi|229553106|ref|ZP_04441831.1| type I site-specific deoxyribonuclease specificity subunit
           [Lactobacillus rhamnosus LMS2-1]
 gi|229313603|gb|EEN79576.1| type I site-specific deoxyribonuclease specificity subunit
           [Lactobacillus rhamnosus LMS2-1]
          Length = 386

 Score = 96.4 bits (238), Expect = 7e-18,   Method: Composition-based stats.
 Identities = 57/402 (14%), Positives = 128/402 (31%), Gaps = 38/402 (9%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+           + +   S      I +  +   T   +  +        +T ++  KG
Sbjct: 11  WEKRKFGDLYSKTSEKNDGSFGPDKIISVATMSWKTNVRISSE-----DYLATYNVLRKG 65

Query: 85  QILY----GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI--- 137
            I +     K   + R       DGI S  F+V +PK         + +  +   R    
Sbjct: 66  DIAFEGNKSKKFSFGRFVENDIGDGIVSHVFVVFRPKVSPIISYWKYFIHNEFVMRNILR 125

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           ++  +   M++          +  P   EQ  I   +          I      ++ L++
Sbjct: 126 KSTIKATMMTNLSSHDFLRQTLCTPSFKEQENIGNFLERLDSL----IAATQGKLDNLEK 181

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
            K+AL+ ++  + +              G +              +   ++ +    N L
Sbjct: 182 IKRALLKHLFDQSMRFRGYSDPWEKRKFGEL----------YKPNKERNESAEFSSENTL 231

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
           S++   + +K      G    S   Y+++  G+I F     +           +  GI++
Sbjct: 232 SIATMTVNRKGN----GAAKTSLLKYKVIRIGDIAFEGHTSKKFAFGRFVLNDVADGIMS 287

Query: 318 SAYMAVKPHGIDSTYLA--WLMRSYDLCKVFYAMGS-GLRQS-LKFEDVKRLPVLVPPIK 373
             +  ++P           ++     L  +       G   + L   D+ +  + VP I 
Sbjct: 288 PRFTCLRPIHRQIIQFWKQYIHYEPILRPILIRSTKLGTMMNELVVPDLLKQNIRVPSIN 347

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           EQ  I   +    +R+D L+   +  +  L+  + + +    
Sbjct: 348 EQKLIGKSL----SRVDDLIAATQSKLSSLETLKKALLQGLF 385


>gi|215489627|ref|YP_002332058.1| predicted type I restriction-modification enzyme S subunit
           [Escherichia coli O127:H6 str. E2348/69]
 gi|215267699|emb|CAS12157.1| predicted type I restriction-modification enzyme S subunit
           [Escherichia coli O127:H6 str. E2348/69]
          Length = 408

 Score = 96.4 bits (238), Expect = 7e-18,   Method: Composition-based stats.
 Identities = 61/405 (15%), Positives = 130/405 (32%), Gaps = 56/405 (13%)

Query: 26  KVVPIKRFT-KLNTGRTSESGKDII-------YIGLEDVESGTGKYLPKDGNSRQ---SD 74
           +   +      L TG        +        Y+ + ++++G   +L K           
Sbjct: 17  EWKMLGEVIHSLKTGLNPRQNFSLNTLDAQGYYVTVREIQNGKVVFLDKTDRVNDRALKI 76

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICS---TQFLVLQPKDVL-PELLQGWLLS 130
            +  S    G IL+   G   R A+I +     +     + +   K+ + P  L   L S
Sbjct: 77  INGRSNLEAGDILFSGTGTVGRIAVIEENPINWNIKEGVYTIKPIKEKIAPRFLSYLLQS 136

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPP-------LAEQVLIREKIIAETVRIDT 183
             + +       G  +       +  + +PIP        LA Q  I   +   T     
Sbjct: 137 SKIVKDYSKKIVGNPVISLPMGDLKKLLIPIPCPDNPEKSLAIQSEIVRILDKFTALTAE 196

Query: 184 LITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEW--VGLVPDHWEVKPFFALV 241
           L  E    + + K++       +++         K+  +EW  +G V           + 
Sbjct: 197 LTAELTAELNMRKKQYNYYRDQLLS--------FKEGEVEWKTLGEV---------AVIG 239

Query: 242 TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQND 301
           T  +     +     +  + G    KL           ++   I+  G+           
Sbjct: 240 TGNHDTQDAIEHGKYIFYARGREPLKLNVF-------DFDETAIITAGD--------GAG 284

Query: 302 KRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFED 361
              +      +  +   AY  V    ++  ++   + +Y    +  A  S    SL+   
Sbjct: 285 VGKVFHYAKGKYALHQRAYRIVPNAFMNPRFVYHYITAYFFTYIQKASVSSSVTSLRRPM 344

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
             + P+ VPP +EQ  I  +++      + + E + + I L +++
Sbjct: 345 FLKFPIPVPPSEEQARIVEILDKFDTLTNSITEGLPREIELRQKQ 389


>gi|301162175|emb|CBW21720.1| putative type I DNA restriction-modification [Bacteroides fragilis
           638R]
          Length = 399

 Score = 96.4 bits (238), Expect = 8e-18,   Method: Composition-based stats.
 Identities = 56/411 (13%), Positives = 122/411 (29%), Gaps = 43/411 (10%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
            +    +L  G    S            +   G  L    N      +         I  
Sbjct: 7   KLGEILELQRGYDLPSS-----------QMKKGDILVAGSNGVIGYHNEARSNHP-CITV 54

Query: 89  GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSH 148
           G+ G   +           +T   V   K   P+ L  +L ++ + +  +     + +  
Sbjct: 55  GRSGSVGKVHYYEQATWAHNTALFVKDFKGNDPKYLYYFLKNLHLDKMFDK--GSSVVPS 112

Query: 149 ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVT 208
            D K + ++ +P     +       I     +ID  I       + L+   + L  Y   
Sbjct: 113 LDRKVVHSLNVPCHKDIDCQKRIAAI---LSKIDRKIELNCAINQNLEAMAKQLYDYWFV 169

Query: 209 KGLNPD---VKMKDSGIEWVG------LVPDHWEVKPFFALVTELNRKN------TKLIE 253
           +   P+      K SG + V        +P+ W++     + T  +              
Sbjct: 170 QFDFPNEEGKPYKSSGGKMVWNEKLKREIPEGWDISLIKDIATTYSGGTPKSTNIEYYDN 229

Query: 254 SNILSLSYGNIIQKLETRNMGLKPE---SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
             I  ++ G +   + T+      +      + ++     I+         K SL + + 
Sbjct: 230 GEIAWINSGELNSPIITKTTNYITKCGLENSSAKLYPSNSILVAMYGATAGKVSLLTFE- 288

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP 370
                   A   V P   +  Y  +   S              R ++  + +K + + +P
Sbjct: 289 ---ACSNQAVCGVIPTIENMLYYVYFHISSLYSHFITLSTGSARDNISQDTIKNILLPIP 345

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
                 +I  + + +   I   +    Q I  L ++R   +   + GQ+ +
Sbjct: 346 T----RNILKLFDEKIGSIYQTIVNNYQQIDSLTKQRDELLPLLMNGQVSV 392



 Score = 75.2 bits (183), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 39/211 (18%), Positives = 68/211 (32%), Gaps = 14/211 (6%)

Query: 10  YKDSG--VQWIG----AIPKHWKVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDV 56
           YK SG  + W       IP+ W +  IK      +G T +S         +I +I   ++
Sbjct: 181 YKSSGGKMVWNEKLKREIPEGWDISLIKDIATTYSGGTPKSTNIEYYDNGEIAWINSGEL 240

Query: 57  ESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP 116
            S               + S+  ++    IL    G    K  +  F+   +     + P
Sbjct: 241 NSPIITKTTNYITKCGLENSSAKLYPSNSILVAMYGATAGKVSLLTFEACSNQAVCGVIP 300

Query: 117 KDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIA 176
             +   L   +     +      +  G+   +     I NI +PIP      L  EKI +
Sbjct: 301 -TIENMLYYVYFHISSLYSHFITLSTGSARDNISQDTIKNILLPIPTRNILKLFDEKIGS 359

Query: 177 ETVRIDTLITERIRFIELLKEKKQALVSYIV 207
               I     +     +   E    L++  V
Sbjct: 360 IYQTIVNNYQQIDSLTKQRDELLPLLMNGQV 390


>gi|162447451|ref|YP_001620583.1| type I site-specific restriction-modification system, S
           (specificity) subunit [Acholeplasma laidlawii PG-8A]
 gi|161985558|gb|ABX81207.1| type I site-specific restriction-modification system, S
           (specificity) subunit [Acholeplasma laidlawii PG-8A]
          Length = 419

 Score = 96.4 bits (238), Expect = 8e-18,   Method: Composition-based stats.
 Identities = 69/424 (16%), Positives = 144/424 (33%), Gaps = 33/424 (7%)

Query: 25  WKVVPIKRFTKL---NTGRTS-ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           W  V +           G+T  +S K I+ +  + V++    Y      +   D     +
Sbjct: 6   WSKVNLVDCLDKLIDYRGKTPAKSEKGILTLSAKSVKNSNIDYSE--AYTISEDEYKKFM 63

Query: 81  FA----KGQILYGKLGPYLRKAIIADFDGICSTQFL--VLQPKDVLPELLQGWLLSIDVT 134
                 KG IL     P  + A +       + + L     PK +  + L  +L S    
Sbjct: 64  VRGIPVKGDILITTEAPMGQVAKLDRDGVAVAQRLLTLRPNPKILDNDYLLYYLQSPIGQ 123

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             ++A   G+T++         I + +PPL+EQ +I   +      +D  I    +  + 
Sbjct: 124 AELKARESGSTVTGIKQAEFRKINIILPPLSEQKVIANIL----SSLDDKIELNNKINKN 179

Query: 195 LKEKKQALVSYIVTKGLNPDVK---MKDSGIE----WVGLVPDHWEVKPFFALVTELNRK 247
           L+E  Q L          P+ +    K SG E     +GL+P  W+V+            
Sbjct: 180 LEELAQTLYKRWFVDFDFPNEEGESYKSSGGEMVESELGLIPKGWKVESIGRSSISKLIS 239

Query: 248 NTKL----IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFI--DLQND 301
           +        +  I +    N+  +     +  K            G + F  +    +  
Sbjct: 240 SGINEFNGTKKYIATADVTNLSIRSFVTEIDFKKRPSRANMQPIAGSLWFAKMKDSRKMI 299

Query: 302 KRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFED 361
           + S  S+ ++++ I ++ +  +      +     L                  Q++  E+
Sbjct: 300 RVSKSSSYLIDKCIFSTGFAGLFAPKYSNYIWTILTTKDFDDTKNNLCNGTTMQAINNEN 359

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           + R+ +L+P         ++    +  I   ++  E     L + R   +   + G+I++
Sbjct: 360 INRIRILIPD----NKTLDLFESVSEPIFEKIQFNEIESNKLSKIRDELLPKLMNGEIEV 415

Query: 422 RGES 425
             E 
Sbjct: 416 PIEE 419



 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 41/209 (19%), Positives = 72/209 (34%), Gaps = 13/209 (6%)

Query: 8   PQYKDSGVQW----IGAIPKHWKVVPIKR--FTKLNTGRTSESGKDIIYIGLEDVESGTG 61
             YK SG +     +G IPK WKV  I R   +KL +   +E      YI   DV + + 
Sbjct: 203 ESYKSSGGEMVESELGLIPKGWKVESIGRSSISKLISSGINEFNGTKKYIATADVTNLSI 262

Query: 62  KYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD------FDGICSTQFLVLQ 115
           +    + + ++  +        G + + K+    +   ++          I ST F  L 
Sbjct: 263 RSFVTEIDFKKRPSRANMQPIAGSLWFAKMKDSRKMIRVSKSSSYLIDKCIFSTGFAGLF 322

Query: 116 PKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKII 175
                  +      + D       +C G TM   + + I  I + IP      L      
Sbjct: 323 APKYSNYIWTILT-TKDFDDTKNNLCNGTTMQAINNENINRIRILIPDNKTLDLFESVSE 381

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVS 204
               +I     E  +  ++  E    L++
Sbjct: 382 PIFEKIQFNEIESNKLSKIRDELLPKLMN 410


>gi|124006764|ref|ZP_01691595.1| restriction endonuclease S subunits [Microscilla marina ATCC 23134]
 gi|123987672|gb|EAY27372.1| restriction endonuclease S subunits [Microscilla marina ATCC 23134]
          Length = 422

 Score = 96.4 bits (238), Expect = 8e-18,   Method: Composition-based stats.
 Identities = 59/422 (13%), Positives = 117/422 (27%), Gaps = 37/422 (8%)

Query: 26  KVVPIKRFTKLN-TGRTSESGKD--IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           K   +      +  G T +   +  II +  + + +    Y            S      
Sbjct: 3   KWRKLGDLVSYSGKGITPKYVDESSIIVLNQKCIRNHNIDYTLARYTDDTRSISQHKFLQ 62

Query: 83  KGQILYGKLG--PYLRKAII----ADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
            G IL    G     R A +     D   I  +  L+L+ ++        +++       
Sbjct: 63  TGDILVNSTGQGTAGRCAFVDKLPQDKKVITDSHILILRFQNHFEAKCLSYVIFSIEELV 122

Query: 137 IEAICEGATMSHADWKGIGNIPMPI-PPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
              +         D   + N+   +      Q  I + +     +I            + 
Sbjct: 123 QTFMDGSTGQGELDKVRLFNLMTSLTENKLYQKQIAKVLSDLDAKIALNNQINAELEAMA 182

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSG------IEWVGLVPDHWEVKPFFALVTEL----- 244
           K               N     K SG       E    VP+ WEVK   +          
Sbjct: 183 KLIYDYWFVQFDFPDAN-GKPYKSSGGKMVYNEELKREVPEGWEVKKISSFAKTSSGGTP 241

Query: 245 -NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES---YETYQIVDPGEIVFRFIDLQN 300
              K       NI  ++ G + Q     +     +      + ++   G I+        
Sbjct: 242 LRSKKEYYHNGNIPWINSGELNQPFIVSSQKFITKEGLNNSSAKVFKKGTILIAMYGATA 301

Query: 301 DKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFE 360
            K S    +         A  A+  H     YL   + +     +        R +L  +
Sbjct: 302 GKVSFMDIE----ACTNQAICAIDTHSNLRVYLKLGLETL-YDYLVTLSSGSARDNLSQD 356

Query: 361 DVKRLPVLVPPIKEQFDITNVINVET-ARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
            +K L  ++P       +    +  T A ++ ++  + +    L   R   +   + GQ+
Sbjct: 357 KIKELKFVIPN----EKLLQQFDKFTKAPLNNILANL-KQNQQLTSLRDWLLPMLMNGQV 411

Query: 420 DL 421
            +
Sbjct: 412 SV 413



 Score = 77.5 bits (189), Expect = 4e-12,   Method: Composition-based stats.
 Identities = 36/211 (17%), Positives = 65/211 (30%), Gaps = 15/211 (7%)

Query: 10  YKDSG------VQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDV 56
           YK SG       +    +P+ W+V  I  F K ++G T    K       +I +I   ++
Sbjct: 203 YKSSGGKMVYNEELKREVPEGWEVKKISSFAKTSSGGTPLRSKKEYYHNGNIPWINSGEL 262

Query: 57  ESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP 116
                    K       + S+  +F KG IL    G    K    D +   +     +  
Sbjct: 263 NQPFIVSSQKFITKEGLNNSSAKVFKKGTILIAMYGATAGKVSFMDIEACTNQAICAIDT 322

Query: 117 KDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIA 176
              L   +   L    +   +  +  G+   +     I  +   IP         +   A
Sbjct: 323 HSNL--RVYLKLGLETLYDYLVTLSSGSARDNLSQDKIKELKFVIPNEKLLQQFDKFTKA 380

Query: 177 ETVRIDTLITERIRFIELLKEKKQALVSYIV 207
               I   + +  +   L       L++  V
Sbjct: 381 PLNNILANLKQNQQLTSLRDWLLPMLMNGQV 411


>gi|62317327|ref|YP_223180.1| HsdS restriction-modification system, S subunit [Brucella abortus
           bv. 1 str. 9-941]
 gi|62197520|gb|AAX75819.1| HsdS, type I restriction-modification system, S subunit [Brucella
           abortus bv. 1 str. 9-941]
          Length = 407

 Score = 96.4 bits (238), Expect = 8e-18,   Method: Composition-based stats.
 Identities = 61/416 (14%), Positives = 121/416 (29%), Gaps = 38/416 (9%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +PK W+ V I +  +  + R   S  DI  + +               +    +T    
Sbjct: 4   EVPKGWREVRIGQIAREISNRNHASA-DIPVLSMTKHRGFVRSNEYFSKSVHSENTRQYK 62

Query: 80  IFAKGQILYGKLGPYLRKAII--ADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV---- 133
           +  +GQ  Y  +            +  G+ S  + V +      +               
Sbjct: 63  VVKRGQFAYATIHLDEGSIDYLRNEDVGLISPMYTVFETNSEEIDNEIALRQFKRFALSG 122

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
                +           +  +      +PPL EQ  I E + A        I +    I+
Sbjct: 123 RFDPYSNGGVNRRKSILFSDLSAFKFGLPPLTEQRAIAEVLGAAEAA----IAKTEALIK 178

Query: 194 LLKEKKQALV-SYIVTKGLNPDVKMKDSGIEWV-GLVPDHWEVKPFFALVTELNRKNTKL 251
            +++ K+AL+  Y V +  +           W+ G  P                    + 
Sbjct: 179 AIEQTKKALLKQYFVERQQSLLWSCVAKMGRWLSGGTPATA---------------AEEN 223

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETY-QIVDPGEIVFRFIDLQNDKRSLRSAQV 310
            + +I  +   +I     +  +    E       +V PG ++     +    RS+ S   
Sbjct: 224 WKGSIPWVCPKDIKGPSISSTVDHISEDAAKALGMVGPGTLLLVVRGMIL-ARSVPSTIC 282

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWL---MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
             R        A  P+   +     L   +  + L         G  +    E +   PV
Sbjct: 283 TVRCAFNQDVKAFVPNEGVAPAFLKLWLDINEHKLLGEIETATHGT-KRFPLERLNEFPV 341

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
            V    EQ  +  +      R+         ++  L+  R +     ++G+I L  
Sbjct: 342 PVVTRDEQIRLVTLAESSQERLRS----ERDNLSALRSVRDALAQELLSGRIRLPE 393


>gi|260361455|ref|ZP_05774514.1| restriction endonuclease, S subunit [Vibrio parahaemolyticus K5030]
 gi|260878068|ref|ZP_05890423.1| restriction endonuclease, S subunit [Vibrio parahaemolyticus
           AN-5034]
 gi|260896963|ref|ZP_05905459.1| restriction endonuclease, S subunit [Vibrio parahaemolyticus
           Peru-466]
 gi|308088719|gb|EFO38414.1| restriction endonuclease, S subunit [Vibrio parahaemolyticus
           Peru-466]
 gi|308090038|gb|EFO39733.1| restriction endonuclease, S subunit [Vibrio parahaemolyticus
           AN-5034]
 gi|308111011|gb|EFO48551.1| restriction endonuclease, S subunit [Vibrio parahaemolyticus K5030]
          Length = 590

 Score = 96.4 bits (238), Expect = 8e-18,   Method: Composition-based stats.
 Identities = 57/479 (11%), Positives = 128/479 (26%), Gaps = 97/479 (20%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESG-------KDIIYIGLEDVESGTGKYLP-KDGNSRQS 73
           P HW+ + + +   +  G+    G        D +Y+ + D+++ +      +  +    
Sbjct: 104 PLHWETICVGQVAHVLGGKRVPKGYKLSEQPTDFVYLRVTDMKNQSIDESDLRYISEEVF 163

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICS-TQFLVLQPKDVLPELLQGWLLSID 132
              +      G +     G       I       S T+         L +     +L   
Sbjct: 164 KQISRYTINTGDVYVTIAGTIGAVGTIPPHLDGMSLTENAAKLVFSGLSKKYLVTVLQSS 223

Query: 133 V-TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR----------- 180
             T++                 I +  +PIPPL EQ  I +K+                 
Sbjct: 224 FVTRQFNDAVNQMAQPKLSLNSIKHTCIPIPPLEEQEYIADKVDELMALCDQLEQQTEAS 283

Query: 181 ------------------------------IDTLITERIRFIELLKEKKQALVSYIVTKG 210
                                         I           E + + KQ ++   V   
Sbjct: 284 IEAHQVLVTTLLDTLTNSADADELMQNWARISEHFDTLFTTEESIDQLKQTILQLAVMGK 343

Query: 211 LNPDVKMKDSGIEWV-------------------------------GLVPDHWEVKPFFA 239
           L P     +   E +                                 +P  WE      
Sbjct: 344 LVPQDPSDEPAAELLKRIAEEKAQLVKEKKIKKQKALPPIAEDEKPFELPSGWEWCRLDD 403

Query: 240 LVTELNR-----KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ------IVDP 288
           +   +       K        I  L   NI ++        +    + ++      ++ P
Sbjct: 404 ICFGITSGSTPPKVNFNESEGIPYLKVYNIREQKIDFEYKPQFVDNDCHKTKLARSVLYP 463

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA 348
           G++V   +     K ++      E     +           + Y+   + +         
Sbjct: 464 GDVVMNIVGPPLGKIAIIPDTYPEWNCNQAITFFRPIVPQLNKYIYTYLTAGSFLDSIEL 523

Query: 349 MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
           +G+  + ++     + + +  PP++EQ  I N ++      + L  ++ +     +E +
Sbjct: 524 IGTAGQDNISVTKSRSILLPTPPLREQKRIVNKVHELFLLCNSLKMRLRKR----QELK 578



 Score = 79.1 bits (193), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 37/201 (18%), Positives = 68/201 (33%), Gaps = 14/201 (6%)

Query: 20  AIPKHWKVVPIKRFTK-LNTGRTSES-----GKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
            +P  W+   +      + +G T         + I Y+ + ++      +  K       
Sbjct: 391 ELPSGWEWCRLDDICFGITSGSTPPKVNFNESEGIPYLKVYNIREQKIDFEYKPQFVDND 450

Query: 74  DTSTV---SIFAKGQILYGKLGPYLRKAIIAD---FDGICSTQFLVLQPK-DVLPELLQG 126
              T    S+   G ++   +GP L K  I      +  C+      +P    L + +  
Sbjct: 451 CHKTKLARSVLYPGDVVMNIVGPPLGKIAIIPDTYPEWNCNQAITFFRPIVPQLNKYIYT 510

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           +L +      IE I   A   +       +I +P PPL EQ  I  K+    +  ++L  
Sbjct: 511 YLTAGSFLDSIELIGT-AGQDNISVTKSRSILLPTPPLREQKRIVNKVHELFLLCNSLKM 569

Query: 187 ERIRFIELLKEKKQALVSYIV 207
              +  EL       +V   V
Sbjct: 570 RLRKRQELKLCITDTIVEQAV 590


>gi|225629307|ref|ZP_03787340.1| Type I restriction enzyme specificity protein [Brucella ceti str.
           Cudo]
 gi|260167613|ref|ZP_05754424.1| type I restriction-modification system, S subunit [Brucella sp.
           F5/99]
 gi|261757036|ref|ZP_06000745.1| type I restriction-modification system protein [Brucella sp. F5/99]
 gi|225615803|gb|EEH12852.1| Type I restriction enzyme specificity protein [Brucella ceti str.
           Cudo]
 gi|261737020|gb|EEY25016.1| type I restriction-modification system protein [Brucella sp. F5/99]
          Length = 407

 Score = 96.4 bits (238), Expect = 8e-18,   Method: Composition-based stats.
 Identities = 61/416 (14%), Positives = 121/416 (29%), Gaps = 38/416 (9%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +PK W+ V I +  +  + R   S  DI  + +               +    +T    
Sbjct: 4   EVPKGWREVRIGQIAREISNRNHASA-DIPVLSMTKHRGFVRSNEYFSKSVHSENTRQYK 62

Query: 80  IFAKGQILYGKLGPYLRKAII--ADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV---- 133
           +  +GQ  Y  +            +  G+ S  + V +      +               
Sbjct: 63  VVKRGQFAYATIHLDEGSIDYLRNEDAGLISPMYTVFETNSKEIDNEIALRQFKRFALSG 122

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
                +           +  +      +PPL EQ  I E + A        I +    I+
Sbjct: 123 RFDPYSNGGVNRRKSILFSDLSAFKFGLPPLTEQRAIAEVLGAAEAA----IAKTEALIK 178

Query: 194 LLKEKKQALV-SYIVTKGLNPDVKMKDSGIEWV-GLVPDHWEVKPFFALVTELNRKNTKL 251
            +++ K+AL+  Y V +  +           W+ G  P                    + 
Sbjct: 179 AIEQTKKALLKQYFVERQQSLLWSCVAKMGRWLSGGTPATA---------------AEEN 223

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETY-QIVDPGEIVFRFIDLQNDKRSLRSAQV 310
            + +I  +   +I     +  +    E       +V PG ++     +    RS+ S   
Sbjct: 224 WKGSIPWVCPKDIKGPSISSTVDHISEDAAKALGMVGPGTLLLVVRGMIL-ARSVPSTIC 282

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWL---MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
             R        A  P+   +     L   +  + L         G  +    E +   PV
Sbjct: 283 TVRCAFNQDVKAFVPNEGVAPAFLKLWLDINEHKLLGEIETATHGT-KRFPLERLNEFPV 341

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
            V    EQ  +  +      R+         ++  L+  R +     ++G+I L  
Sbjct: 342 PVVTRDEQIRLVTLAESSQERLRS----ERDNLSALRSVRDALAQELLSGRIRLPE 393


>gi|159026888|emb|CAO89139.1| hsdS [Microcystis aeruginosa PCC 7806]
          Length = 510

 Score = 96.4 bits (238), Expect = 8e-18,   Method: Composition-based stats.
 Identities = 25/159 (15%), Positives = 60/159 (37%), Gaps = 3/159 (1%)

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI--ITSAY 320
              +    R +  K         +  G+I+   +     +  +     +++ +  +    
Sbjct: 64  GFFKDQSDRFLTFKKSIELNCTYLQKGDILVARLPDPLGRACIFPLSGIKKFVTVVDVCI 123

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDIT 379
           +    + I+S YL +L+ S           SG  R+ +  ++  ++   + P+ EQ  I 
Sbjct: 124 IRNNSNFINSQYLLYLINSPQTRLEVDKYKSGSTRKRISRKNFAKIQFPIAPLPEQHRIV 183

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
             I    + +D  V  +++ +  LK  R + +  A  G+
Sbjct: 184 EKIEELFSELDNGVASLKKVLEQLKTYRQAVLKWAFEGK 222



 Score = 94.5 bits (233), Expect = 3e-17,   Method: Composition-based stats.
 Identities = 70/492 (14%), Positives = 136/492 (27%), Gaps = 93/492 (18%)

Query: 20  AIPKHWKVVPIKRFT---------KLNTGRTSESGKDIIYIGLEDVESGTGKY-LPKDGN 69
            +P  W    IK                 +  +   ++  I L D+  G  K    +   
Sbjct: 16  DLPPGWTKSAIKELIGHDGIFCDGDWVESKDQDPNGEVRLIQLADIGDGFFKDQSDRFLT 75

Query: 70  SRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGI------CSTQFLVLQPKDVLPEL 123
            ++S     +   KG IL  +L   L +A I    GI           +      +  + 
Sbjct: 76  FKKSIELNCTYLQKGDILVARLPDPLGRACIFPLSGIKKFVTVVDVCIIRNNSNFINSQY 135

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK---------- 173
           L   + S      ++    G+T      K    I  PI PL EQ  I EK          
Sbjct: 136 LLYLINSPQTRLEVDKYKSGSTRKRISRKNFAKIQFPIAPLPEQHRIVEKIEELFSELDN 195

Query: 174 ---------------------------------------IIAETVRIDTLITERIRFIEL 194
                                                  +      ++ +  ER R  + 
Sbjct: 196 GVASLKKVLEQLKTYRQAVLKWAFEGKLTEKWRNTHQDSLEDADTLLEQIKAERKRHYQQ 255

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKD-----------SGIEWVGLVPDHWEVKPFFALVTE 243
             E  +  +      G      +K              +  +  +PD W       L++ 
Sbjct: 256 QLEDWKQALKEWENNGKETKKPIKPQQPKDLPPLTKEELSNLPSLPDGWMWVKVDYLLSL 315

Query: 244 LNR-----------KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI----VDP 288
             +           K ++   S I  L   NI   +      +     +  ++    V  
Sbjct: 316 DKKGMTTGPFGTLLKKSEHQISGIPVLGIENIGNGVFLPKNKIFITEKKARELSSFEVSG 375

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY-DLCKVFY 347
           G+I+        +   +               +++  + I   +  +L      + +   
Sbjct: 376 GDIIISRSGTVGEICLVPDYFGYSLISTNLIRISLNKNIIIPKFFVFLFLGGGSVREQVK 435

Query: 348 AMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
            +  G  R  L    ++ +    P ++EQ  I   I    +  D L   + +++   +  
Sbjct: 436 ELCKGSTRDFLNQTILQTIIFPFPSLQEQTQIVQEIESRLSVCDQLEATLTENLDKAEAL 495

Query: 407 RSSFIAAAVTGQ 418
           R S +  A  G+
Sbjct: 496 RQSILKRAFEGK 507



 Score = 65.2 bits (157), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 37/214 (17%), Positives = 80/214 (37%), Gaps = 22/214 (10%)

Query: 18  IGAIPKHWKVVPIKRFTKL-NTG-----------RTSESGKDIIYIGLEDVESGTGKYLP 65
           + ++P  W  V +     L   G           ++      I  +G+E++  G G +LP
Sbjct: 297 LPSLPDGWMWVKVDYLLSLDKKGMTTGPFGTLLKKSEHQISGIPVLGIENI--GNGVFLP 354

Query: 66  KDGNSRQSDTS---TVSIFAKGQILYGKLGPYLRKAIIADFDGI--CSTQFLVLQPKDVL 120
           K+        +   +    + G I+  + G      ++ D+ G    ST  + +     +
Sbjct: 355 KNKIFITEKKARELSSFEVSGGDIIISRSGTVGEICLVPDYFGYSLISTNLIRISLNKNI 414

Query: 121 PELLQGWLLSI---DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
                   L +    V ++++ +C+G+T    +   +  I  P P L EQ  I ++I + 
Sbjct: 415 IIPKFFVFLFLGGGSVREQVKELCKGSTRDFLNQTILQTIIFPFPSLQEQTQIVQEIESR 474

Query: 178 TVRIDTLITERIRFIELLKEKKQALVSYIVTKGL 211
               D L       ++  +  +Q+++       L
Sbjct: 475 LSVCDQLEATLTENLDKAEALRQSILKRAFEGKL 508


>gi|83269308|ref|YP_418599.1| type I restriction-modification system, S subunit [Brucella
           melitensis biovar Abortus 2308]
 gi|148558787|ref|YP_001257780.1| type I restriction-modification system, S subunit [Brucella ovis
           ATCC 25840]
 gi|189022582|ref|YP_001932323.1| type I restriction-modification system, S subunit [Brucella abortus
           S19]
 gi|237816882|ref|ZP_04595874.1| Type I restriction enzyme EcoR124II specificity protein [Brucella
           abortus str. 2308 A]
 gi|254690827|ref|ZP_05154081.1| type I restriction-modification system, S subunit [Brucella abortus
           bv. 6 str. 870]
 gi|254695865|ref|ZP_05157693.1| type I restriction-modification system, S subunit [Brucella abortus
           bv. 3 str. Tulya]
 gi|254698608|ref|ZP_05160436.1| type I restriction-modification system, S subunit [Brucella abortus
           bv. 2 str. 86/8/59]
 gi|254700052|ref|ZP_05161880.1| type I restriction-modification system, S subunit [Brucella suis
           bv. 5 str. 513]
 gi|254705682|ref|ZP_05167510.1| type I restriction-modification system, S subunit [Brucella
           pinnipedialis M163/99/10]
 gi|254710913|ref|ZP_05172724.1| type I restriction-modification system, S subunit [Brucella
           pinnipedialis B2/94]
 gi|254712614|ref|ZP_05174425.1| type I restriction-modification system, S subunit [Brucella ceti
           M644/93/1]
 gi|254715685|ref|ZP_05177496.1| type I restriction-modification system, S subunit [Brucella ceti
           M13/05/1]
 gi|254732055|ref|ZP_05190633.1| type I restriction-modification system, S subunit [Brucella abortus
           bv. 4 str. 292]
 gi|256015605|ref|YP_003105614.1| type I restriction-modification system, S subunit [Brucella microti
           CCM 4915]
 gi|256029297|ref|ZP_05442911.1| type I restriction-modification system, S subunit [Brucella
           pinnipedialis M292/94/1]
 gi|256058985|ref|ZP_05449196.1| type I restriction-modification system, S subunit [Brucella
           neotomae 5K33]
 gi|256157492|ref|ZP_05455410.1| type I restriction-modification system, S subunit [Brucella ceti
           M490/95/1]
 gi|256253531|ref|ZP_05459067.1| type I restriction-modification system, S subunit [Brucella ceti
           B1/94]
 gi|256256009|ref|ZP_05461545.1| type I restriction-modification system, S subunit [Brucella abortus
           bv. 9 str. C68]
 gi|260544564|ref|ZP_05820385.1| type I restriction-modification system protein [Brucella abortus
           NCTC 8038]
 gi|260756405|ref|ZP_05868753.1| predicted protein [Brucella abortus bv. 6 str. 870]
 gi|260759837|ref|ZP_05872185.1| predicted protein [Brucella abortus bv. 4 str. 292]
 gi|260763076|ref|ZP_05875408.1| predicted protein [Brucella abortus bv. 2 str. 86/8/59]
 gi|260882229|ref|ZP_05893843.1| predicted protein [Brucella abortus bv. 9 str. C68]
 gi|261216285|ref|ZP_05930566.1| predicted protein [Brucella abortus bv. 3 str. Tulya]
 gi|261217434|ref|ZP_05931715.1| predicted protein [Brucella ceti M13/05/1]
 gi|261220661|ref|ZP_05934942.1| predicted protein [Brucella ceti B1/94]
 gi|261313102|ref|ZP_05952299.1| predicted protein [Brucella pinnipedialis M163/99/10]
 gi|261318496|ref|ZP_05957693.1| predicted protein [Brucella pinnipedialis B2/94]
 gi|261320308|ref|ZP_05959505.1| predicted protein [Brucella ceti M644/93/1]
 gi|261322929|ref|ZP_05962126.1| predicted protein [Brucella neotomae 5K33]
 gi|261750535|ref|ZP_05994244.1| predicted protein [Brucella suis bv. 5 str. 513]
 gi|265986294|ref|ZP_06098851.1| predicted protein [Brucella pinnipedialis M292/94/1]
 gi|265995989|ref|ZP_06108546.1| predicted protein [Brucella ceti M490/95/1]
 gi|294853393|ref|ZP_06794065.1| type I restriction enzyme [Brucella sp. NVSL 07-0026]
 gi|297249368|ref|ZP_06933069.1| type I restriction enzyme, S subunit [Brucella abortus bv. 5 str.
           B3196]
 gi|82939582|emb|CAJ12562.1| type I restriction-modification system, S subunit [Brucella
           melitensis biovar Abortus 2308]
 gi|148370072|gb|ABQ62944.1| type I restriction-modification system, S subunit [Brucella ovis
           ATCC 25840]
 gi|189021156|gb|ACD73877.1| type I restriction-modification system, S subunit [Brucella abortus
           S19]
 gi|237787695|gb|EEP61911.1| Type I restriction enzyme EcoR124II specificity protein [Brucella
           abortus str. 2308 A]
 gi|255998265|gb|ACU49952.1| type I restriction-modification system, S subunit [Brucella microti
           CCM 4915]
 gi|260097835|gb|EEW81709.1| type I restriction-modification system protein [Brucella abortus
           NCTC 8038]
 gi|260670155|gb|EEX57095.1| predicted protein [Brucella abortus bv. 4 str. 292]
 gi|260673497|gb|EEX60318.1| predicted protein [Brucella abortus bv. 2 str. 86/8/59]
 gi|260676513|gb|EEX63334.1| predicted protein [Brucella abortus bv. 6 str. 870]
 gi|260871757|gb|EEX78826.1| predicted protein [Brucella abortus bv. 9 str. C68]
 gi|260917892|gb|EEX84753.1| predicted protein [Brucella abortus bv. 3 str. Tulya]
 gi|260919245|gb|EEX85898.1| predicted protein [Brucella ceti B1/94]
 gi|260922523|gb|EEX89091.1| predicted protein [Brucella ceti M13/05/1]
 gi|261292998|gb|EEX96494.1| predicted protein [Brucella ceti M644/93/1]
 gi|261297719|gb|EEY01216.1| predicted protein [Brucella pinnipedialis B2/94]
 gi|261298909|gb|EEY02406.1| predicted protein [Brucella neotomae 5K33]
 gi|261302128|gb|EEY05625.1| predicted protein [Brucella pinnipedialis M163/99/10]
 gi|261740288|gb|EEY28214.1| predicted protein [Brucella suis bv. 5 str. 513]
 gi|262550286|gb|EEZ06447.1| predicted protein [Brucella ceti M490/95/1]
 gi|264658491|gb|EEZ28752.1| predicted protein [Brucella pinnipedialis M292/94/1]
 gi|294819048|gb|EFG36048.1| type I restriction enzyme [Brucella sp. NVSL 07-0026]
 gi|297173237|gb|EFH32601.1| type I restriction enzyme, S subunit [Brucella abortus bv. 5 str.
           B3196]
          Length = 407

 Score = 96.4 bits (238), Expect = 9e-18,   Method: Composition-based stats.
 Identities = 61/416 (14%), Positives = 121/416 (29%), Gaps = 38/416 (9%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +PK W+ V I +  +  + R   S  DI  + +               +    +T    
Sbjct: 4   EVPKGWREVRIGQIAREISNRNHASA-DIPVLSMTKHRGFVRSNEYFSKSVHSENTRQYK 62

Query: 80  IFAKGQILYGKLGPYLRKAII--ADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV---- 133
           +  +GQ  Y  +            +  G+ S  + V +      +               
Sbjct: 63  VVKRGQFAYATIHLDEGSIDYLRNEDAGLISPMYTVFETNSEEIDNEIALRQFKRFALSG 122

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
                +           +  +      +PPL EQ  I E + A        I +    I+
Sbjct: 123 RFDPYSNGGVNRRKSILFSDLSAFKFGLPPLTEQRAIAEVLGAAEAA----IAKTEALIK 178

Query: 194 LLKEKKQALV-SYIVTKGLNPDVKMKDSGIEWV-GLVPDHWEVKPFFALVTELNRKNTKL 251
            +++ K+AL+  Y V +  +           W+ G  P                    + 
Sbjct: 179 AIEQTKKALLKQYFVERQQSLLWSCVAKMGRWLSGGTPATA---------------AEEN 223

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETY-QIVDPGEIVFRFIDLQNDKRSLRSAQV 310
            + +I  +   +I     +  +    E       +V PG ++     +    RS+ S   
Sbjct: 224 WKGSIPWVCPKDIKGPSISSTVDHISEDAAKALGMVGPGTLLLVVRGMIL-ARSVPSTIC 282

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWL---MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
             R        A  P+   +     L   +  + L         G  +    E +   PV
Sbjct: 283 TVRCAFNQDVKAFVPNEGVAPAFLKLWLDINEHKLLGEIETATHGT-KRFPLERLNEFPV 341

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
            V    EQ  +  +      R+         ++  L+  R +     ++G+I L  
Sbjct: 342 PVVTRDEQIRLVTLAESSQERLRS----ERDNLSALRSVRDALAQELLSGRIRLPE 393


>gi|269978362|gb|ACZ55915.1| putative type I restriction-modification system specificity subunit
           S [Helicobacter pylori]
          Length = 408

 Score = 96.4 bits (238), Expect = 9e-18,   Method: Composition-based stats.
 Identities = 60/397 (15%), Positives = 124/397 (31%), Gaps = 28/397 (7%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           +   +        G++    K + +  +  +  G       +  +R  +           
Sbjct: 17  EFRKLGEVCDFQKGKSITK-KAVTFGKVPVISGGRQPAYYHNEANRSGE----------T 65

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           I     G Y       D     +  F V  PK         +         I A      
Sbjct: 66  IAISSSGVYAGYVSYWDIPVFLADSFSVS-PKQKTLMPKYLFHYLTTQQDAIHATKSAGG 124

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
           + H   K + N  +PIPPL  Q  I + + A T     L TE     +  +  +  L+ +
Sbjct: 125 IPHVYSKDLQNFLIPIPPLEIQQEIVKILDAFTELNTELNTELKARKKQYEYYQNMLLDF 184

Query: 206 IVTKGLNPDVKM------KDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
                 + D KM      K        L P   E +    +    N+K  K+ E + +  
Sbjct: 185 NDINQNHKDAKMSAKPYPKRLKTLLQTLAPKGVEFRKLGDVCESTNKKTLKISEVSEVKN 244

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
                +        G   +        + GE +      +         +    G +   
Sbjct: 245 KGMYPVINSGRDLYGYYHDFN------NDGENITIASRGEYAGFINYFNEKFFAGGLCYP 298

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
           Y     + + + +L + +++ ++  +   +  G   +L   D++ L + +PP++ Q +I 
Sbjct: 299 YKVKDTNELLTKFLYFYLKTNEIQIMENLVFRGSIPALNKADIETLTIPIPPLEIQQEIV 358

Query: 380 NVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
            +++  +     L+  I   I   K+     R   + 
Sbjct: 359 KILDQFSLLTTDLLAGIPAEIKARKKQYEYYREKLLT 395



 Score = 45.2 bits (105), Expect = 0.019,   Method: Composition-based stats.
 Identities = 21/161 (13%), Positives = 49/161 (30%), Gaps = 15/161 (9%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGK--DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           PK  +   +    +    +T +  +  ++   G+  V +          +      +   
Sbjct: 214 PKGVEFRKLGDVCESTNKKTLKISEVSEVKNKGMYPVINSGRDLYGYYHDFNNDGEN--- 270

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFL---VLQPKDVLPELLQGWLLSIDVTQR 136
                 I     G Y       +             V    ++L + L  +L + ++   
Sbjct: 271 ------ITIASRGEYAGFINYFNEKFFAGGLCYPYKVKDTNELLTKFLYFYLKTNEIQIM 324

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
              +  G ++   +   I  + +PIPPL  Q  I + +   
Sbjct: 325 ENLVFRG-SIPALNKADIETLTIPIPPLEIQQEIVKILDQF 364


>gi|15964351|ref|NP_384704.1| putative specificity protein S [Sinorhizobium meliloti 1021]
 gi|15073528|emb|CAC45170.1| Putative specificity protein S [Sinorhizobium meliloti 1021]
          Length = 424

 Score = 96.0 bits (237), Expect = 9e-18,   Method: Composition-based stats.
 Identities = 64/424 (15%), Positives = 142/424 (33%), Gaps = 38/424 (8%)

Query: 23  KHWKVVPIKRFT-----KLNTGRTSE-------SGKDIIYIGLEDVESGT-GKYLPKDGN 69
           K W    + +       ++ TG           S      +  +D+  G   ++      
Sbjct: 2   KEWTETTLGQLCDDGGGEIKTGPFGSQLHQSDYSSDGTPVVMPKDILEGRLSEFSVARVG 61

Query: 70  SRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFD--GICSTQFLVLQPKD--VLPELLQ 125
           S             G I+YG+ G   R A+I + +   +C T  L +      + P+ L 
Sbjct: 62  SEHVQRLAQHQLQSGDIVYGRRGDIGRCALITERETGWLCGTGCLRISLGQGAIEPKFLF 121

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
            +L++      I     GATM + +   + +I +  P +  Q  I   + A        I
Sbjct: 122 YFLINPVTVSWIYNQAVGATMPNLNTGILRSITVRYPDILTQRRIAGILSAYDDL----I 177

Query: 186 TERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN 245
               R I +L++  + L      +   P  +        +G+VP  W    F   V    
Sbjct: 178 EVNQRRIAILEDMARRLFDEWFVRFRYPGHEAVPLVETELGMVPVGWTPGTFRECVDVNP 237

Query: 246 ---RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK 302
                       + + ++  ++ +      M          +++  G++++  +      
Sbjct: 238 ETLSPRKAPAHIHYIDIASVSVGRVDAVTTMKFSEAPGRARRVIRNGDVIWSTVRPNRRS 297

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFED 361
            +L    V    + ++ + A++    D  ++    R+            G    ++   D
Sbjct: 298 HALL-LDVASDTVASTGFAALRSRNSDWAWVYEATRTDAFVGFLVGRARGSAYPAVVGAD 356

Query: 362 VKRLPVLVPPIKE----QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
            + +P++VPP+      Q  +          +  L   + +    L+  R   +   ++G
Sbjct: 357 FEDVPLIVPPLDLRSTFQIQVG--------PMHELASTLHRQNNKLRAARDLLLPKLISG 408

Query: 418 QIDL 421
           +ID+
Sbjct: 409 EIDV 412



 Score = 36.3 bits (82), Expect = 9.1,   Method: Composition-based stats.
 Identities = 26/192 (13%), Positives = 58/192 (30%), Gaps = 6/192 (3%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGKD--IIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           +G +P  W     +    +N    S       I YI +  V  G            ++  
Sbjct: 217 LGMVPVGWTPGTFRECVDVNPETLSPRKAPAHIHYIDIASVSVGRVD-AVTTMKFSEAPG 275

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDG---ICSTQFLVLQPKDVLPELLQGWLLSID 132
               +   G +++  + P  R   +        + ST F  L+ ++     +     +  
Sbjct: 276 RARRVIRNGDVIWSTVRPNRRSHALLLDVASDTVASTGFAALRSRNSDWAWVYEATRTDA 335

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
               +     G+           ++P+ +PPL  +   + ++        TL  +  +  
Sbjct: 336 FVGFLVGRARGSAYPAVVGADFEDVPLIVPPLDLRSTFQIQVGPMHELASTLHRQNNKLR 395

Query: 193 ELLKEKKQALVS 204
                    L+S
Sbjct: 396 AARDLLLPKLIS 407


>gi|320155756|ref|YP_004188135.1| type I restriction-modification system, DNA-methyltransferase
           subunit M [Vibrio vulnificus MO6-24/O]
 gi|319931068|gb|ADV85932.1| type I restriction-modification system, DNA-methyltransferase
           subunit M [Vibrio vulnificus MO6-24/O]
          Length = 590

 Score = 96.0 bits (237), Expect = 9e-18,   Method: Composition-based stats.
 Identities = 57/474 (12%), Positives = 127/474 (26%), Gaps = 93/474 (19%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESG-------KDIIYIGLEDVESGTGKYLP-KDGNSRQS 73
           P HW+ + + +   +  G+    G        D +Y+ + D+++ +      +  +    
Sbjct: 104 PLHWETICVGQVAHVLGGKRVPKGYKLSEQPTDFVYLRVTDMKNQSIDESDLRYISEEVF 163

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICS-TQFLVLQPKDVLPELLQGWLLSID 132
              +      G +     G       I       S T+         L +     +L   
Sbjct: 164 KQISRYTINTGDVYVTIAGTIGAVGTIPPHLDGMSLTENAAKLVFSGLSKKYLVTVLQSS 223

Query: 133 V-TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR----------- 180
             T++                 I +  +PIPPL EQ  I +K+                 
Sbjct: 224 FVTRQFNDAVNQMAQPKLSLNSIKHTCIPIPPLEEQEYIADKVDELMALCDQLEQQTEAS 283

Query: 181 ------------------------------IDTLITERIRFIELLKEKKQALVSYIVTKG 210
                                         I           E + + KQ ++   V   
Sbjct: 284 IEAHQVLVTTLLDTLTNSADADELMQNWARISEHFDTLFTTEESIDQLKQTILQLAVMGK 343

Query: 211 LNPDVKMKD-------------------------------SGIEWVGLVPDHWEVKPFFA 239
           L P     +                               S  E    +P+ W+      
Sbjct: 344 LVPQDPSDEPAAELLKRIAEEKAQLVKEKKIKKQKELPPISEDEKPFELPNGWKWCRLDD 403

Query: 240 LVTELNR-----KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ------IVDP 288
           +   +       K        I  L   NI ++        +    + ++      ++ P
Sbjct: 404 ICFGITSGSTPPKVNFNESEGIPYLKVYNIREQKIDFEYKPQFVDNDCHKTKLARSVLYP 463

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA 348
           G++V   +     K ++      E     +           + ++   + +         
Sbjct: 464 GDVVMNIVGPPLGKIAIIPDTYPEWNCNQAITFFRPIVPQLNKFIYTYLTAGSFLNSIEL 523

Query: 349 MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
           +G+  + ++     + + +  PP+KEQ  I N ++      + L  ++ +   L
Sbjct: 524 IGTAGQDNISVTKSRSILLPTPPLKEQRRIVNKVHELFLLCNSLKMRLRERHEL 577



 Score = 76.8 bits (187), Expect = 6e-12,   Method: Composition-based stats.
 Identities = 38/201 (18%), Positives = 67/201 (33%), Gaps = 14/201 (6%)

Query: 20  AIPKHWKVVPIKRFTK-LNTGRTSES-----GKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
            +P  WK   +      + +G T         + I Y+ + ++      +  K       
Sbjct: 391 ELPNGWKWCRLDDICFGITSGSTPPKVNFNESEGIPYLKVYNIREQKIDFEYKPQFVDND 450

Query: 74  DTSTV---SIFAKGQILYGKLGPYLRKAIIAD---FDGICSTQFLVLQPK-DVLPELLQG 126
              T    S+   G ++   +GP L K  I      +  C+      +P    L + +  
Sbjct: 451 CHKTKLARSVLYPGDVVMNIVGPPLGKIAIIPDTYPEWNCNQAITFFRPIVPQLNKFIYT 510

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           +L +      IE I   A   +       +I +P PPL EQ  I  K+    +  ++L  
Sbjct: 511 YLTAGSFLNSIELIGT-AGQDNISVTKSRSILLPTPPLKEQRRIVNKVHELFLLCNSLKM 569

Query: 187 ERIRFIELLKEKKQALVSYIV 207
                 EL       +V   V
Sbjct: 570 RLRERHELKLCITDTIVERAV 590


>gi|295397610|ref|ZP_06807686.1| restriction endonuclease S subunits family protein [Aerococcus
           viridans ATCC 11563]
 gi|294974148|gb|EFG49899.1| restriction endonuclease S subunits family protein [Aerococcus
           viridans ATCC 11563]
          Length = 402

 Score = 96.0 bits (237), Expect = 9e-18,   Method: Composition-based stats.
 Identities = 56/396 (14%), Positives = 130/396 (32%), Gaps = 25/396 (6%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W+   ++   ++N      +     Y+ LE V+     Y   +            +   
Sbjct: 21  DWEQRRLENVVEINPSSNLPNS--FHYVDLESVKGTELIYSRIEYRDTAPS-RAKRLARN 77

Query: 84  GQILYGKLGPYLRKAIIADFDG---ICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
           G + +  + PY +   + + +G   + ST +  ++P     E L  +L +     ++   
Sbjct: 78  GDVFFQLVRPYQKNNYLFNLEGKNYVFSTGYAQMRPSIS-SEYLINYLTTDKFIFQVLNR 136

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
             G++    +   +  I + IP    +     KI      I+  IT   R ++ L + K+
Sbjct: 137 STGSSYPAINSTDLIKIKIAIPQNELESF---KIGRILELINQTITLHQRKLDQLNQLKE 193

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
           +L+  +         K++ +G E  G   +            ++   N            
Sbjct: 194 SLLQQMFPGKGETVPKLRFAGFE--GEWEERKLGDILSERNDQIPETNEY--PLMSFVQG 249

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
            G   +        L  +S + Y+  + G+ ++   +L+             + +I+  Y
Sbjct: 250 KGVTPKGERYNRSFLVKDSEKKYKKTELGDFIYSSNNLETGSIG---FNKTGKAVISPVY 306

Query: 321 MAVKPHG-IDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQF 376
                    DS ++  L    +          G+   +  +   D   + + +P  KE+ 
Sbjct: 307 CIFNSKKAKDSQFIGILSARKEFISEMVRFRQGVVYGQWRIHESDFLNINIRIPNDKEKQ 366

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
            I          ID  +   ++ +  LK  +   + 
Sbjct: 367 LII----YLFENIDNTLVLYQRKLDQLKNMKQILLQ 398



 Score = 63.3 bits (152), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 21/189 (11%), Positives = 66/189 (34%), Gaps = 6/189 (3%)

Query: 231 HWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGE 290
               +     V E+N  +      + + L      + + +R            ++   G+
Sbjct: 20  DDWEQRRLENVVEINPSSNLPNSFHYVDLESVKGTELIYSRIEYRDTAPSRAKRLARNGD 79

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG 350
           + F+ +        L + +  +  + ++ Y  ++P       + +L     + +V     
Sbjct: 80  VFFQLVRPYQKNNYLFNLE-GKNYVFSTGYAQMRPSISSEYLINYLTTDKFIFQVLNRST 138

Query: 351 SGLRQSLKFEDVKRLPVLVPPIK-EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
                ++   D+ ++ + +P  + E F I  ++      I+  +   ++ +  L + + S
Sbjct: 139 GSSYPAINSTDLIKIKIAIPQNELESFKIGRILE----LINQTITLHQRKLDQLNQLKES 194

Query: 410 FIAAAVTGQ 418
            +     G+
Sbjct: 195 LLQQMFPGK 203


>gi|229088747|ref|ZP_04220304.1| Methyltransferase type 11 [Bacillus cereus Rock3-44]
 gi|228694572|gb|EEL47991.1| Methyltransferase type 11 [Bacillus cereus Rock3-44]
          Length = 395

 Score = 96.0 bits (237), Expect = 1e-17,   Method: Composition-based stats.
 Identities = 59/405 (14%), Positives = 138/405 (34%), Gaps = 40/405 (9%)

Query: 35  KLNTGRTSES---GKDIIYIGLEDVESGTGKYLPKDGNSRQSD--TSTVSIFAKGQILYG 89
           + + G  +     GK    I + D+ +          NS Q D  T + +    G +++ 
Sbjct: 2   EFSNGINAPKENYGKGRKMISVMDILADEPIIYGNIRNSVQVDDKTESKNKVENGDLVFV 61

Query: 90  KLGPYLRKAII-----ADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
           +      +             + S   +  + K           L+     +IE    G+
Sbjct: 62  RSSEIRDEVGWAKAYRQKEYALYSGFSIRGKKKSDFDAKFIELSLNNSNRGQIERQAGGS 121

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
           T  +     + +I +  P + EQ+ I         ++D  I    + + +LK+ KQ  + 
Sbjct: 122 TRFNVSQSILKSIGILEPSIEEQIEIGNF----FEKLDETIALHQQELTILKQTKQGFLQ 177

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG-- 262
            +  K      +++  G  + G   +   +      V +   K+         +  Y   
Sbjct: 178 KMFPKEGESVPEVRFPG--FTGDWEERKLINNIIEKVLDFRGKSPAKFGMKWGNSGYLVL 235

Query: 263 ---NIIQKLETRNMGLKP------ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
              N+      + +  K       E +   + ++ G++VF       +   +      + 
Sbjct: 236 SALNVKNGYIDKLVEAKYGDQMLFERWMGKERLEKGDVVFTTEAPLGNVAQVP----DDN 291

Query: 314 GIITSAYMAVKP---HGIDSTYLAWLMRSYDLC-KVFYAMGSGLRQSLKFEDVKRLPVLV 369
           G I +  +          D+ +LA L+R+     ++      G  + +  ++  ++   +
Sbjct: 292 GYILNQRVVAFKTSTEKTDNNFLAQLLRNPLFQTRLKENASGGTAKGIGMKEFAKMSATI 351

Query: 370 P-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           P  ++EQ  I N       ++D  +   +  +  LKE + +F+  
Sbjct: 352 PASVEEQTKIGNF----FKQLDETIALHQLELDTLKETKKAFLQK 392



 Score = 45.6 bits (106), Expect = 0.017,   Method: Composition-based stats.
 Identities = 32/200 (16%), Positives = 62/200 (31%), Gaps = 19/200 (9%)

Query: 24  HWKVVPI-KRFTKLN---TGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
            W+   +     +      G++             + +   +V++G    L +     Q 
Sbjct: 198 DWEERKLINNIIEKVLDFRGKSPAKFGMKWGNSGYLVLSALNVKNGYIDKLVEAKYGDQM 257

Query: 74  DTS---TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQ---PKDVLPELLQGW 127
                       KG +++    P    A + D +G    Q +V      +      L   
Sbjct: 258 LFERWMGKERLEKGDVVFTTEAPLGNVAQVPDDNGYILNQRVVAFKTSTEKTDNNFLAQL 317

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
           L +     R++    G T      K    +   IP   E+     KI     ++D  I  
Sbjct: 318 LRNPLFQTRLKENASGGTAKGIGMKEFAKMSATIPASVEEQ---TKIGNFFKQLDETIAL 374

Query: 188 RIRFIELLKEKKQALVSYIV 207
               ++ LKE K+A +  + 
Sbjct: 375 HQLELDTLKETKKAFLQKMF 394


>gi|294792925|ref|ZP_06758071.1| putative type I restriction-modification system, S subunit
           [Veillonella sp. 6_1_27]
 gi|294455870|gb|EFG24234.1| putative type I restriction-modification system, S subunit
           [Veillonella sp. 6_1_27]
          Length = 490

 Score = 96.0 bits (237), Expect = 1e-17,   Method: Composition-based stats.
 Identities = 73/421 (17%), Positives = 136/421 (32%), Gaps = 54/421 (12%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           IP  W+ V +K        +   S    I I   D      K      ++  + +    I
Sbjct: 67  IPNTWRWVRLKEIVYNRGQKKPTSKFWYIDISSIDNTRQKLKQAINIIDAENAPSRARRI 126

Query: 81  FAKGQILYGKLGPYLRKAIIAD----FDGICSTQFLVL-QPKDVLPELLQGWLLSIDVTQ 135
              G ILY  + PYL    I D    F+ I ST    +     V  + L  +LLS    Q
Sbjct: 127 VDVGDILYSTVRPYLHNMCIIDSTSPFESIASTGLAAMTCYNKVYNKYLFYYLLSASFDQ 186

Query: 136 RIEAICE--GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
              ++    G      + + +    +P+PP+ EQ  I EKI      ID       +  E
Sbjct: 187 YANSLENSKGVAYPAINDERLYKAVIPLPPVDEQKRIVEKIEVIFPLIDRYEGVWHKLNE 246

Query: 194 LLKEK----KQALVSYIVTKGLNPDVKMKDSGIEWV------------------------ 225
           L K      +++++   +   L        S  E +                        
Sbjct: 247 LNKTFPETLQKSILQEAIQGKLCEQKDEDGSAKELIEKISLEKERLIESGQIKKHKALPA 306

Query: 226 -------GLVPDHWEVKPFFALVTELNRKNTKLIE--SNILSLSYGNIIQKLETRNMGLK 276
                    +P  W  +    + T    K          ++ +   + I+K   + +   
Sbjct: 307 IQEDEIPFDIPSSWCWERLGNISTYNQTKPKIKAIDLDRLIWVLDLDDIEKNTGKILRYV 366

Query: 277 PESYET----YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM-AVKPHGIDST 331
               +       +   G+I++  +     K  +     +E G+ T   +      G +  
Sbjct: 367 KAKDKKVSGEKVVFHKGQILYSKLRPYLKKALIA----LEDGVCTPELVPFDIFGGCNRN 422

Query: 332 YLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
           Y+  +++S  +     +   G+    +  E +  L + +PPI+EQ  I    +   + I 
Sbjct: 423 YILSVLKSPYVDFGVNSATYGVKMPRVGVETMINLLIPIPPIREQERIVKKFDKSHSLIQ 482

Query: 391 V 391
            
Sbjct: 483 R 483


>gi|303258214|ref|ZP_07344221.1| type I restriction system specificity protein [Burkholderiales
           bacterium 1_1_47]
 gi|302858967|gb|EFL82051.1| type I restriction system specificity protein [Burkholderiales
           bacterium 1_1_47]
          Length = 408

 Score = 96.0 bits (237), Expect = 1e-17,   Method: Composition-based stats.
 Identities = 51/425 (12%), Positives = 122/425 (28%), Gaps = 49/425 (11%)

Query: 26  KVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKY--LPKDGNSRQSDTST 77
           K   +    ++  G T ++        DI ++ ++D    T       K  +      S+
Sbjct: 2   KTYKLTDIAEVIVGGTPKTSVAEYWNGDIPWLSVKDFNKVTRYVLTTEKKISMEGLQKSS 61

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
            ++  K  I+    G     A+I       +     ++           +       + +
Sbjct: 62  TNLLKKDDIIISARGTVGALAMIKTPMA-FNQSCYGIRVNAEKVSPAYLFYSLKTKIKAL 120

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           +A   G+         +  +   +P L EQ+     +     +I+   +       L ++
Sbjct: 121 KAASHGSVFDTITLDTLNGLDFELPSLNEQLCASNFLSLLDEKIELNNSINRNLDALARQ 180

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLV------PDHWEVKPFFALVTELNR----- 246
                               + SG + V         P+HWEV   F  V          
Sbjct: 181 LYDYWFVQ-FDFPDESGRPYRTSGGKMVWNNRLKRNIPEHWEVVNIFDSVDVQYGFPFST 239

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
            +    +S++  +   +I+            E       +  G+++       +      
Sbjct: 240 DSFVDQDSDVPVVRIRDILNG---TVSAYSTEQVGEKYRLSTGDLILGMDGNFHM----- 291

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMR--SYDLCKVFYAMGSGLRQSLKFEDVKR 364
           +     +  +    +  +     +     +M   +  +              L  +D+K 
Sbjct: 292 NLWCDNKSFLNQRCVRFRQKDNSAVSTLQVMYEIAPYIRAKEQVAKGSTVGHLSDKDLKD 351

Query: 365 LPVLVPPIKEQFDITNVINVE-------TARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
           L ++ P           +N +          I  L+ +  + I  L + R   +   + G
Sbjct: 352 LWIMTP-----------LNNKYFSASSTLNHISNLIIENRREISELTKLRDDLLPILLNG 400

Query: 418 QIDLR 422
           Q+ +R
Sbjct: 401 QVSIR 405



 Score = 56.7 bits (135), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 30/194 (15%), Positives = 65/194 (33%), Gaps = 14/194 (7%)

Query: 21  IPKHWKVVPIKRFTKLNTG------RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           IP+HW+VV I     +  G         +   D+  + + D+ +GT      +       
Sbjct: 216 IPEHWEVVNIFDSVDVQYGFPFSTDSFVDQDSDVPVVRIRDILNGTVSAYSTEQVGE--- 272

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI-DV 133
                  + G ++ G  G      +  D     + + +  + KD         +  I   
Sbjct: 273 ---KYRLSTGDLILGMDG-NFHMNLWCDNKSFLNQRCVRFRQKDNSAVSTLQVMYEIAPY 328

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            +  E + +G+T+ H   K + ++ +  P   +       +   +  I     E     +
Sbjct: 329 IRAKEQVAKGSTVGHLSDKDLKDLWIMTPLNNKYFSASSTLNHISNLIIENRREISELTK 388

Query: 194 LLKEKKQALVSYIV 207
           L  +    L++  V
Sbjct: 389 LRDDLLPILLNGQV 402


>gi|70725064|ref|YP_251978.1| hypothetical protein SH0063 [Staphylococcus haemolyticus JCSC1435]
 gi|68445788|dbj|BAE03372.1| hsdS [Staphylococcus haemolyticus JCSC1435]
          Length = 407

 Score = 96.0 bits (237), Expect = 1e-17,   Method: Composition-based stats.
 Identities = 49/410 (11%), Positives = 135/410 (32%), Gaps = 26/410 (6%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
            +++     + +   S K+++++   D+E G      +                   ILY
Sbjct: 4   KLEKLLDSVSIKHPFSKKNVVFLNTSDIEEGNI-LKKEYSKIDDLPGQAKKSIQPNDILY 62

Query: 89  GKLGPYLRKAIIADFDG---ICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE--- 142
            ++ P  ++    +F+    + ST+ +VL+  +      +     +   + +  +     
Sbjct: 63  SEIRPKNKRYAYINFECDDYVVSTKLMVLRNINPDLVHSKYLYYFLIDQKTVNYLQNIAE 122

Query: 143 --GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
               T     +  + N+ + +P + +Q+ I   +     +I+          EL +   +
Sbjct: 123 SRSGTFPQITFSEVKNLKLDLPSIEKQITIINIMDTLNEKINNNKKIISNLEELSQTSFK 182

Query: 201 ALVSYIVTKGLNPDVKMKDSGIE----WVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
                      +     K SG E     +G +P +W +K    +    N     L +   
Sbjct: 183 RWFVDFEFPDED-GNPYKSSGGEMIDSELGEIPKNWSIKTVKEIAESFNSIRKPLSKIER 241

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
                             +    ++   I     +V     +Q +  +     V  +  +
Sbjct: 242 EKRESIYPYYGATKIIDYVDNYIFDGKYI-----LVGEDGTVQTETGNPFIQYVWGKFWV 296

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
           ++    +K   I    L   +++ ++          ++  L  +++  +  ++   +   
Sbjct: 297 SNHAHILKGKLISDELLMLYLKNTNVAPYI---TGAVQPKLNKKNLNSIKFVIADKETII 353

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
              N I     +I +L     +    L E R + +   ++G+I++  + +
Sbjct: 354 KFENSIKSYFQKIRIL----NKENKKLIELRDTLLPKLMSGEIEIPDDIE 399



 Score = 41.7 bits (96), Expect = 0.20,   Method: Composition-based stats.
 Identities = 42/204 (20%), Positives = 65/204 (31%), Gaps = 21/204 (10%)

Query: 10  YKDSGVQW----IGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLP 65
           YK SG +     +G IPK+W +  +K   +          K                  P
Sbjct: 198 YKSSGGEMIDSELGEIPKNWSIKTVKEIAESFNSIRKPLSKIE--------REKRESIYP 249

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPY-----LRKAIIADFDGICSTQFLVLQPKDVL 120
             G ++  D     IF    IL G+ G                    S    +L+ K + 
Sbjct: 250 YYGATKIIDYVDNYIFDGKYILVGEDGTVQTETGNPFIQYVWGKFWVSNHAHILKGKLIS 309

Query: 121 PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
            ELL  +L + +V         GA     + K + +I   I      +     I +   +
Sbjct: 310 DELLMLYLKNTNVAP----YITGAVQPKLNKKNLNSIKFVIADKETIIKFENSIKSYFQK 365

Query: 181 IDTLITERIRFIELLKEKKQALVS 204
           I  L  E  + IEL       L+S
Sbjct: 366 IRILNKENKKLIELRDTLLPKLMS 389


>gi|154507565|ref|ZP_02043207.1| hypothetical protein ACTODO_00044 [Actinomyces odontolyticus ATCC
           17982]
 gi|153797199|gb|EDN79619.1| hypothetical protein ACTODO_00044 [Actinomyces odontolyticus ATCC
           17982]
          Length = 383

 Score = 96.0 bits (237), Expect = 1e-17,   Method: Composition-based stats.
 Identities = 53/396 (13%), Positives = 110/396 (27%), Gaps = 37/396 (9%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           P   +   +    +L  G      + +            G+     G    +     S  
Sbjct: 13  PDGVEYRALGDVAELKRGEAVTRKEVV-----------EGQVPVIAGGREPAYYIDRSNR 61

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
               I+    G Y       D     S  F ++  + VL +    +       + I A+ 
Sbjct: 62  QGETIVIAGSGAYAGFVSFWDEPIFVSDAFSIVVDRSVL-QPRFVYHWLSGRQEAIHALK 120

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            G  + H   K +  +  P+PPL  Q  I   +   T     L  E           +  
Sbjct: 121 SGGGVPHVYPKDVAKLRCPVPPLEVQREIVRILDQFTTLEAELEAELEARRTQYAHYRTH 180

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
           L+SY       P        +  +  V      K      T +               ++
Sbjct: 181 LLSYESLAARGPVN------VIELQDVGVVRMCKRIHKAETSIQGDIPFFK-----ISTF 229

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
           G       +  +  K +    Y     G+++               A    +      ++
Sbjct: 230 GGTPTSFISAELYGKYKD--KYPYPKKGDLLISAAGTIGQIVRFDGADAYFQD-SNIVWL 286

Query: 322 AVKPHGIDSTYLAW-LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
                 + + YL +  + +            G  + L    + +  + VPPI+ Q  I +
Sbjct: 287 EHDESIVLNRYLYYVYLNTRWTTD------GGTIKRLYNNRILQQQICVPPIETQITIAD 340

Query: 381 VINVETARIDVLVEKIEQSI----VLLKERRSSFIA 412
           +++   A ++ +   +   I       +  R   ++
Sbjct: 341 LLDRFDALVNDISSGLPAEIAARRAQYEHYRDRLLS 376


>gi|91785555|ref|YP_560761.1| putative HsdS protein [Burkholderia xenovorans LB400]
 gi|91689509|gb|ABE32709.1| Putative HsdS protein [Burkholderia xenovorans LB400]
          Length = 438

 Score = 96.0 bits (237), Expect = 1e-17,   Method: Composition-based stats.
 Identities = 68/435 (15%), Positives = 133/435 (30%), Gaps = 49/435 (11%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGK---------DIIYIGLEDVE-SGTGKYLPKDGNSRQ 72
             W  V +    ++  G   +S             I + + + + +G  ++         
Sbjct: 3   SEWTHVRLGELAEVKHGWAFKSDYFKADDEAAGLPIVVAIGNFQYTGGFRFESTQIKRYT 62

Query: 73  SDTSTVSIFAKGQILYGKL-----GPYLRKAIIADFDGICSTQF-----LVLQPKDVLPE 122
            +  +  I   G+IL         G  L        +G           +VL+   V  +
Sbjct: 63  GEFPSEYILQPGEILLVMTCQTAGGEILGIPARVPDNGRVYLHNQRLGKVVLKSGRVCSD 122

Query: 123 LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
            L    L     + +     G  + H     I +    +P +AEQ  I E + A   RI 
Sbjct: 123 FLYWLFLYPPFNRHLVNSATGTKILHTAPSRIESFEFKLPSVAEQREIAEALDAIDDRIS 182

Query: 183 TLITERIRFIELLKEKKQALVS-----YIVTKGLNPDVK------MKDSGIEW--VGLVP 229
            L    +    + +   ++            +G  P+        +   G E   +GLVP
Sbjct: 183 LLRETNVTLEAIAQAMFKSWFVDFEPVRAKQEGRAPEGMDEATAALFPDGFEESELGLVP 242

Query: 230 DHWEVKPFFALVTELNR----KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI 285
             W  +   +    LN     K     E   L +     ++   T+N        +   I
Sbjct: 243 RAWRARSLDSFADYLNGLALQKFPAESEDEYLPVIKIAQLRAGNTQNADRASTKLKAEYI 302

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL--C 343
           V  G+++F +                  G +      V    +   +  +L   + L   
Sbjct: 303 VRDGDVLFSWSGSLE-----VELWCGGEGALNQHLFKVTSSEV-PKWFYYLATRHHLPEF 356

Query: 344 KVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
           +   A  +     ++ + +    + VPP +    +   +    A +  L  +    I  L
Sbjct: 357 REIAAHKATTMGHIQRKHLTEAKIAVPPPE----VLTRLTEFVAPLIELRIENAVRIRSL 412

Query: 404 KERRSSFIAAAVTGQ 418
            E R S +   ++GQ
Sbjct: 413 GELRDSLLPRLISGQ 427


>gi|319788900|ref|YP_004090215.1| restriction modification system DNA specificity domain
           [Ruminococcus albus 7]
 gi|315450767|gb|ADU24329.1| restriction modification system DNA specificity domain
           [Ruminococcus albus 7]
          Length = 536

 Score = 96.0 bits (237), Expect = 1e-17,   Method: Composition-based stats.
 Identities = 68/453 (15%), Positives = 134/453 (29%), Gaps = 76/453 (16%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSE----SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            +P+ W+   ++   +  T  T +    S +  I++  ++V SG   +            
Sbjct: 87  DLPEGWEWARLQSICEPITDGTHKTPTYSDEGFIFLSSKNVTSGHIDWDNIMYIPESLHN 146

Query: 76  STVSIF--AKGQILYGKLGPYLRKAIIADFD---GICSTQFLVLQPKDVLPELLQGWLLS 130
              +     K  IL  K G     AI+          S   L +    + PE L   + S
Sbjct: 147 ELYARLAPQKNDILLAKNGTTGVAAIVNRDCVFDIYVSLALLRIIGYIISPEYLLSTIAS 206

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
             +     +  +G  + +   + I    +P+ P+ EQ  I  K+       D + +++  
Sbjct: 207 STIQNYFNSSLKGIGVPNLHLEHIRTTLIPVAPINEQNRIAAKLEQLLSFADNIESDKTD 266

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVK---------------------------------- 216
               ++  K  ++   +   L P                                     
Sbjct: 267 LQTTIQLTKSKILDLAIRGKLVPQNPDDEPASVLLDRIRAEKEELIKQGKIKRDKKESVI 326

Query: 217 ---------------MKDSGIEWVGLVPDHWEVKPFFALVT--ELNRKNTKLIESNILSL 259
                          +     E    +PD W                K+ K  ES+   +
Sbjct: 327 FKGDDNSYYEKIGDTVTCIDEELPFELPDGWAWVRLQTCCQKEIKRGKSPKYTESSGTLV 386

Query: 260 SYGNIIQKLETRNMGL-------KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
                  K +  NM L           Y   + +   + V          R     +   
Sbjct: 387 FAQKCNTKYDGINMDLALYLDESTLVKYPDDEYMQDKDTVINSTGTGTLGRVGIYRRTDN 446

Query: 313 RGII-----TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
           R  +     +   +    + I + Y+   ++++         GS  ++ LK   +K L V
Sbjct: 447 RREMPVVPDSHVTVIRTNNEISAEYIYHFLKAHQHELEKLGEGSTNQKELKPLTLKNLIV 506

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
            +PP  EQ  I  +I         ++  IE+S+
Sbjct: 507 ALPPYAEQERIIEIITAAFE----IMTNIEKSL 535



 Score = 79.8 bits (195), Expect = 7e-13,   Method: Composition-based stats.
 Identities = 36/215 (16%), Positives = 75/215 (34%), Gaps = 10/215 (4%)

Query: 213 PDVKMKDSGIEWVGLVPDHWEVKPF---FALVTELNRKNTKLIESNILSLSYGNIIQK-L 268
           PD  +K    E    +P+ WE          +T+   K     +   + LS  N+    +
Sbjct: 73  PDGTVKCIEDEIPYDLPEGWEWARLQSICEPITDGTHKTPTYSDEGFIFLSSKNVTSGHI 132

Query: 269 ETRNMGLKPESYETYQI----VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
           +  N+   PES              +I+           ++ +   +    ++ A + + 
Sbjct: 133 DWDNIMYIPESLHNELYARLAPQKNDILLAKNGTTG-VAAIVNRDCVFDIYVSLALLRII 191

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
            + I   YL   + S  +   F +   G+   +L  E ++   + V PI EQ  I   + 
Sbjct: 192 GYIISPEYLLSTIASSTIQNYFNSSLKGIGVPNLHLEHIRTTLIPVAPINEQNRIAAKLE 251

Query: 384 VETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
              +  D +          ++  +S  +  A+ G+
Sbjct: 252 QLLSFADNIESDKTDLQTTIQLTKSKILDLAIRGK 286


>gi|294677465|ref|YP_003578080.1| type I restriction-modification system RcaSBIV subunit S
           [Rhodobacter capsulatus SB 1003]
 gi|294476285|gb|ADE85673.1| type I restriction-modification system RcaSBIV, S subunit
           [Rhodobacter capsulatus SB 1003]
          Length = 401

 Score = 96.0 bits (237), Expect = 1e-17,   Method: Composition-based stats.
 Identities = 67/417 (16%), Positives = 124/417 (29%), Gaps = 43/417 (10%)

Query: 24  HWKVVPIKRFT-KLNTGRTSE----SGKDIIYIGLEDVESGTGKY---LPKDGNSRQSDT 75
            W+V P+      +  G   E    S   I  I   ++ +G  K      +  +    + 
Sbjct: 4   GWQVKPLHSLALTITDGNWVETKDQSDSGIRLIQTGNIGTGFFKNRCEKSRYIDDATFER 63

Query: 76  STVSIFAKGQILYGKL-GPYLRKAIIAD----FDGICSTQFLVLQPKDVLPELLQGWLLS 130
              +    G  L  +L  P  R  II D             +      +LPE    + +S
Sbjct: 64  LRCTEVFPGDCLVSRLPDPVGRSCIIPDTGEKMITAVDCTIIRFDRDVLLPEFFIYFSMS 123

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
                 +   C G T        +G +P+P+PPL EQ  I   +      +D        
Sbjct: 124 QSYLTAVADACTGTTRQRISRTNLGKLPIPLPPLDEQKRIIAILDETFEGLDRARANAEA 183

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
            +   +E  +A +                   E +      W       +   +     +
Sbjct: 184 NLADARELFEATLR------------------EELEKNSTDWRECSLSDIGQTVTGSTPR 225

Query: 251 LIES-----NILSLSYGNIIQKL--ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKR 303
             E+      I  +  G+ +        + GL  +   + +I+ PG  +   I     K 
Sbjct: 226 TSETGNTGTFIPFIKPGDFLPDGRLNYESEGLSEKGAASSRILPPGSALMVCIGATIGKA 285

Query: 304 SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV-FYAMGSGLRQSLKFEDV 362
                 +     I +    V   GI   ++   M S    +      G      +     
Sbjct: 286 GFSDRSIATNQQINA---LVPSVGICGEFVYLQMLSKSFQREVIQNAGQATLPIINKSKW 342

Query: 363 KRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
             L V +P  +  Q  +T  +      +  L +    ++  L   R S +  A +G+
Sbjct: 343 SALKVRMPHDLSRQEAVTAKMREARNHVSSLEKHFTTTLADLTSLRQSLLQKAFSGE 399


>gi|282907757|ref|ZP_06315597.1| type I restriction-modification enzyme [Staphylococcus aureus
           subsp. aureus WW2703/97]
 gi|282328321|gb|EFB58594.1| type I restriction-modification enzyme [Staphylococcus aureus
           subsp. aureus WW2703/97]
          Length = 387

 Score = 96.0 bits (237), Expect = 1e-17,   Method: Composition-based stats.
 Identities = 60/403 (14%), Positives = 137/403 (33%), Gaps = 36/403 (8%)

Query: 28  VPIKRFTKLNTGRTSES---GKDIIYIGLEDVESG---TGKYLPKDGNSRQSDTSTVSIF 81
             +    +   G        G     +  +DV +        L    N    +    S  
Sbjct: 1   KKVGELLEFKNGLNKGKEYFGSGSSIVNFKDVFNNRSLNTNNLTGKVNVNSKELKNYS-V 59

Query: 82  AKGQILYGKLGPYLRKAIIA------DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
            KG + + +    + +            + + S   L  +PK  +  +   +   +  T 
Sbjct: 60  EKGDVFFTRTSEVIGEIGYPSVILNDPENTVFSGFVLRGRPKSGIDLINNNFKRYVFFTN 119

Query: 136 RIEA-ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
                +   ++M+         I             + KI     ++D  I    + +EL
Sbjct: 120 SFRKEMITKSSMTTRALTSGSAINKMKVIYPVSAKEQRKIGDFFSKLDRQIELEEQKLEL 179

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
           L+++K+  +  I ++ L           +       HWE       + E N ++      
Sbjct: 180 LQQQKKGYMQKIFSQEL--------RFKDENSEDYPHWENSKIEKYLKERNERSD--KGQ 229

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
            +       II+  E        +    Y++V   +I +  + +          +    G
Sbjct: 230 MLSVTINSGIIKFSELDRKDNSSKDKSNYKVVRKNDIAYNSMRMWQGASG----RSNYNG 285

Query: 315 IITSAYMAVKPHGIDSTYL-AWLMRSYDLCKVFYAMGSGLR---QSLKFEDVKRLPVLVP 370
           I++ AY  + P    S+    +  +++ +   F     GL     +LK++ +K + + +P
Sbjct: 286 IVSPAYTVLYPTQNTSSLFIGYKFKTHRMIHKFKINSQGLTSDTWNLKYKQLKNINIDIP 345

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            ++EQ  I +       ++D+L+ K +  I +L++ + SF+  
Sbjct: 346 VLEEQEKIGDF----FKKMDILISKQKIKIEILEKEKQSFLQK 384



 Score = 58.3 bits (139), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 34/184 (18%), Positives = 67/184 (36%), Gaps = 9/184 (4%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKD-GNSRQSDTSTVSIFA 82
           HW+   I+++ K    R+ +       + +  + SG  K+   D  ++   D S   +  
Sbjct: 208 HWENSKIEKYLKERNERSDKGQM----LSVT-INSGIIKFSELDRKDNSSKDKSNYKVVR 262

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           K  I Y  +  +   +  ++++GI S  + VL P      L  G+            I  
Sbjct: 263 KNDIAYNSMRMWQGASGRSNYNGIVSPAYTVLYPTQNTSSLFIGYKFKTHRMIHKFKINS 322

Query: 143 G---ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
               +   +  +K + NI + IP L EQ  I +      + I     +     +  +   
Sbjct: 323 QGLTSDTWNLKYKQLKNINIDIPVLEEQEKIGDFFKKMDILISKQKIKIEILEKEKQSFL 382

Query: 200 QALV 203
           Q + 
Sbjct: 383 QKMF 386


>gi|293189230|ref|ZP_06607953.1| type I restriction enzyme specificity protein HsdS [Actinomyces
           odontolyticus F0309]
 gi|292821693|gb|EFF80629.1| type I restriction enzyme specificity protein HsdS [Actinomyces
           odontolyticus F0309]
          Length = 395

 Score = 95.6 bits (236), Expect = 1e-17,   Method: Composition-based stats.
 Identities = 58/406 (14%), Positives = 122/406 (30%), Gaps = 45/406 (11%)

Query: 22  PKHWKVVPIKRFTKLNTG-RTSES---GKDIIYIGLEDVESGTGKYLPKDGNSR-QSDTS 76
           P   +  P+     L  G    +     K I  I    + +  G             D  
Sbjct: 13  PDGVEYRPLGEIADLQRGAGMPKKLFVDKGIPAIHYGHIFTKYGIQAKCAAAYLAPEDAE 72

Query: 77  TVSIFAKGQILYGKLGPYL-----RKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
            ++    G ++       L         + D +G+      V++   V    L  +L + 
Sbjct: 73  KLTRVFPGDLVVANTSENLEDVGKGVVWLGDVEGVTGGHATVVRSLAVDSVFLSYYLRTE 132

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
           D   +     +G  +       +  I +P+PP+  Q  I   +   T     L  E    
Sbjct: 133 DFALKKRKYAQGTKVIELSAANLSKIDIPLPPVEVQREIVRILDQFTTLEAELEAELEAR 192

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
               +  +  L+SY       P   +K      +G             + T     +  +
Sbjct: 193 QAQYEHYRNHLLSYDSLAARGPVEMVK------LGE---------LAHIATGGRNTSDAV 237

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
                       +        + L    ++   ++  G+ V            +      
Sbjct: 238 DNGTYPFYVRSQVP-------LSLNEYDFDESAVLTAGDGV--------GVGKVFHHVEG 282

Query: 312 ERGIITSAY-MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP 370
           +  +   AY +      + S YL  +M S     +   +      S++   ++R PV VP
Sbjct: 283 KYALHQRAYRIVPNLELLSSRYLYHVMVSQFGRYLESTVFHSSVTSVRKPMLERFPVAVP 342

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSI----VLLKERRSSFIA 412
           P++EQ  + +V++   A ++ +   +   I       +  R   ++
Sbjct: 343 PMEEQDRVADVLDRFNALVNDITSGLPAEIAARRAQYEHYRDRLLS 388



 Score = 72.9 bits (177), Expect = 8e-11,   Method: Composition-based stats.
 Identities = 31/169 (18%), Positives = 65/169 (38%), Gaps = 9/169 (5%)

Query: 228 VPDHWEVKPFFALVTELNR---KNTKLIESNILSLSYGNIIQKLETRNM----GLKPESY 280
            PD  E +P   +              ++  I ++ YG+I  K   +       L PE  
Sbjct: 12  CPDGVEYRPLGEIADLQRGAGMPKKLFVDKGIPAIHYGHIFTKYGIQAKCAAAYLAPEDA 71

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME-RGIITSAYMAVKPHGIDSTYLAWLMRS 339
           E    V PG++V        +        + +  G+       V+   +DS +L++ +R+
Sbjct: 72  EKLTRVFPGDLVVANTSENLEDVGKGVVWLGDVEGVTGGHATVVRSLAVDSVFLSYYLRT 131

Query: 340 YDLCKVFYAMGSGLRQ-SLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
            D          G +   L   ++ ++ + +PP++ Q +I  +++  T 
Sbjct: 132 EDFALKKRKYAQGTKVIELSAANLSKIDIPLPPVEVQREIVRILDQFTT 180


>gi|332969662|gb|EGK08678.1| hypothetical protein HMPREF9374_3258 [Desmospora sp. 8437]
          Length = 281

 Score = 95.6 bits (236), Expect = 1e-17,   Method: Composition-based stats.
 Identities = 34/201 (16%), Positives = 74/201 (36%), Gaps = 9/201 (4%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
              E    +P++W              K  K + +       GNI     T  +G   + 
Sbjct: 21  PEAEQPYELPENWVWVRLLDGGAICLDKFRKPVNARQREERKGNIPYYGATGQVGWIDDF 80

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS--TYLAWLM 337
               ++V  GE    F+D    K  +    +  +  + +    +K +       +L + +
Sbjct: 81  LTNEELVLVGEDGAPFLDPNKSKAYM----ITGKAWVNNHAHILKSNFGSPGNKFLTYYL 136

Query: 338 RSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
             ++            R  L    ++++P  +PP+ EQ  I + +     +ID   E I+
Sbjct: 137 NQFNYNGFV---TGTTRLKLTQGKLRQIPFPLPPLSEQKRIVDRVESLLGKIDEAKELIQ 193

Query: 398 QSIVLLKERRSSFIAAAVTGQ 418
           ++    ++RR++ +  A  G+
Sbjct: 194 EARDSFEQRRAAILDRAFRGE 214



 Score = 52.9 bits (125), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 29/213 (13%), Positives = 59/213 (27%), Gaps = 22/213 (10%)

Query: 20  AIPKHWKVVPI---KRFT------KLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNS 70
            +P++W  V +              +N  +  E   +I Y G    + G       +   
Sbjct: 28  ELPENWVWVRLLDGGAICLDKFRKPVNARQREERKGNIPYYGAT-GQVGWIDDFLTNEEL 86

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
                                     KA +       +    +L+     P         
Sbjct: 87  VLVGEDGAPFLDPN----------KSKAYMITGKAWVNNHAHILKSNFGSPGNKFLTYYL 136

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
                       G T        +  IP P+PPL+EQ  I +++ +   +ID        
Sbjct: 137 NQF--NYNGFVTGTTRLKLTQGKLRQIPFPLPPLSEQKRIVDRVESLLGKIDEAKELIQE 194

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIE 223
             +  ++++ A++       L    + +    E
Sbjct: 195 ARDSFEQRRAAILDRAFRGELTRTWREQHPDAE 227


>gi|229082881|ref|ZP_04215305.1| hypothetical protein bcere0023_54720 [Bacillus cereus Rock4-2]
 gi|228700419|gb|EEL52981.1| hypothetical protein bcere0023_54720 [Bacillus cereus Rock4-2]
          Length = 393

 Score = 95.6 bits (236), Expect = 1e-17,   Method: Composition-based stats.
 Identities = 44/385 (11%), Positives = 102/385 (26%), Gaps = 27/385 (7%)

Query: 33  FTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLG 92
             +  + +   S   ++ I  E       + +  + +          +   G  +   L 
Sbjct: 26  IFESISNKNHNSDLPVLAITQEHGAIPRDR-INYNVSVTNKSLENYKVVEIGDFVIS-LR 83

Query: 93  PYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ-GWLLSIDVTQRIEAICEGATM-SHAD 150
            +      + + GICS  +++L+ K  + E     +  +    Q +    EG        
Sbjct: 84  SFQGGIEYSLYHGICSPAYIILRKKIPIVEQYYKHYFKTNKFIQDLNKDLEGIRDGKMVS 143

Query: 151 WKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKG 210
           +    +I +P P   EQ  I + + +    I     +        K   Q L+       
Sbjct: 144 YSQFSSILLPKPENKEQQKIADFLSSLDDLITAENEKLEALKVNKKGLMQKLL------- 196

Query: 211 LNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLET 270
                          G     W    F         +     +         N +   + 
Sbjct: 197 ------------PAEGKTVPEWRFPEFRDCREWDIYRIKDFAKVTTGKKDTQNKVDHGKY 244

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
                     +        E +    D     ++                +         
Sbjct: 245 PFFVRSQAVEKIDSYTFDCEAILTSGDGVGVGKNFHYINGKFDFHQRVYCIYDFSKSAFG 304

Query: 331 TYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
            ++      +   +V          S++   +  +P+ +P I EQ  I++ +    + ID
Sbjct: 305 KFVFQYFSEHFKNRVMKLSAKNSVDSVRKSMITEMPITMPNIAEQHKISDCL----SSID 360

Query: 391 VLVEKIEQSIVLLKERRSSFIAAAV 415
            L+    + +  LK  +   +    
Sbjct: 361 DLITAQAEKVKTLKLYKKGLMQGLF 385


>gi|254383777|ref|ZP_04999125.1| type I restriction-modification system specificity subunit
           [Streptomyces sp. Mg1]
 gi|194342670|gb|EDX23636.1| type I restriction-modification system specificity subunit
           [Streptomyces sp. Mg1]
          Length = 403

 Score = 95.6 bits (236), Expect = 1e-17,   Method: Composition-based stats.
 Identities = 69/385 (17%), Positives = 138/385 (35%), Gaps = 27/385 (7%)

Query: 47  DIIYIGLEDVESGTGKYLP-KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADF-- 103
              ++   +++     +         +   S      +G +L  K G  L    +  +  
Sbjct: 22  GFTFLSTPNIKGREIDFDNVNYITEFRYQESPELKLREGDVLLAKDGNTLGIVNLVKYLP 81

Query: 104 -DGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIP 162
                +    V++P  +    L+  L S      I  +  G  + H     I  +P+P+P
Sbjct: 82  RPATVNGSIAVIRPTGIDGAFLRYVLASRVTQAAINMLKGGMGVPHLFQWDINRLPVPVP 141

Query: 163 PLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGI 222
           PL EQ  I + +  ET RID L   R R   LL+E+    +            ++K    
Sbjct: 142 PLEEQRRIADFLDVETARIDRLTQLRSRQAGLLEERFGLALDKAFENATYEPTRLKY--- 198

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET 282
             + + P +  + P ++       +   L++    + S   I  +L          S   
Sbjct: 199 -LLAVKPRYGVLVPQYSDSGVRFIRVNDLLDLAGRADSLAKIPDELS---------SQYA 248

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
             +  PG+++   +     + ++   Q+    +  +       H +    LA  + +   
Sbjct: 249 RTVTRPGDVLLSVVGTMG-RSAVVPPQLAGANVARAVASLRTRHEVSPELLATWLTTPSF 307

Query: 343 CKVFYAMGS--GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID----VLVEKI 396
            +    +      + +L  ED+    +  P + E+    + + + T+ I      L   +
Sbjct: 308 LRQASDVTGSDTAQPTLGMEDLSNFRLSWP-VDERGR--DELLLVTSTIRRHQRELTGVL 364

Query: 397 EQSIVLLKERRSSFIAAAVTGQIDL 421
           E    +L ERR + I AAVTGQ D+
Sbjct: 365 EVQRRVLTERRQALITAAVTGQFDV 389


>gi|269115098|ref|YP_003302861.1| Type I restriction enzyme specificity protein [Mycoplasma hominis]
 gi|268322723|emb|CAX37458.1| Type I restriction enzyme specificity protein [Mycoplasma hominis
           ATCC 23114]
          Length = 446

 Score = 95.6 bits (236), Expect = 1e-17,   Method: Composition-based stats.
 Identities = 60/394 (15%), Positives = 118/394 (29%), Gaps = 31/394 (7%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDII------YIGLEDVESGTGKYLPKDGNSRQSDT 75
           P   +   I     L  G + ++  D +      YI   ++ +     +           
Sbjct: 13  PNGVEYKKIGDLGILYNGLSGKNKNDFLNNTNKQYITYLNIFNNLSIDIKGLEKVSVLKN 72

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIAD------------FDGICSTQFLVLQPKDVLPEL 123
              +    G IL+        +   A             +       + +   ++     
Sbjct: 73  EKQNRVLYGDILFTTSSESANECGYASVANDKYFDNNDVYLNSFCFGYRLFNIENYNVNY 132

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
            +     +++ + I     G T  +   +    I +PIPPL  Q  I   +   T     
Sbjct: 133 FKYLFKDLNIRKEIIKCVNGVTRFNLSKEQFKRILIPIPPLEIQNQIVNILDKFTELTTE 192

Query: 184 LITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTE 243
           L TE     +     +  L+ +   K L  +  M +       +                
Sbjct: 193 LTTELTYRDKQYNYYRNKLLDFDNNKEL-LNKIMNNQQCSNNIVEYKKIGDLGILYNGLS 251

Query: 244 LNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES---YETYQIVDPGEIVFRFIDLQN 300
              KN  L  +N   ++Y NI   L      L+  S    E    V  G+I+F       
Sbjct: 252 GKNKNDFLNNTNKQYITYLNIFNNLSIDIKSLEKVSVLKNEKQNRVLYGDILFTTSSESA 311

Query: 301 DKRSLRSAQVMERGIITSAYMAVKP--------HGIDSTYLAWLMRSYDLCKVFYAMGSG 352
           ++    S    +       Y+               +  Y  +L +  ++ K      +G
Sbjct: 312 NECGYASVANDKYFDNNDVYLNSFCFGYRLFNIENYNVNYFKYLFKDLNIRKEIIKCVNG 371

Query: 353 -LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
             R +L  E  KR+ + +PP++ Q  I  +++  
Sbjct: 372 VTRFNLSKEQFKRILIPIPPLEIQNKIVEILDKL 405


>gi|323215378|gb|EGA00122.1| Type I restriction enzyme EcoAI specificity protein (S protein)
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. MB101509-0077]
          Length = 552

 Score = 95.6 bits (236), Expect = 1e-17,   Method: Composition-based stats.
 Identities = 63/473 (13%), Positives = 121/473 (25%), Gaps = 99/473 (20%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKD------IIYIGLE 54
           +K  K  P+   S  +    +P  W+ V          G+T    KD      I ++  +
Sbjct: 83  IKKQKPLPEI--SEEEKPFELPVGWEWVTFSHLGHFFGGKTPSKMKDEYWGGTIPWVTPK 140

Query: 55  DVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLR---KAIIADFDGICSTQF 111
           D+++               +   ++  + G IL+      LR      I   +   +   
Sbjct: 141 DMKTNLIVDSEDKVTPLAIE-DGLTKVSPGSILFVARSGILRRIFPVAITSIECTVNQDL 199

Query: 112 LVLQPKDVLPELLQGWLLSIDVTQRIEAI-CEGATMSHADWKGIGNIPMPIPPLAEQV-- 168
            VL P           +++      +E +   G T+    +    + P  IPP AEQ   
Sbjct: 200 KVLSPFLSEISYYIRLMMNGFERYIVENLTKTGTTVESLLFDDFISHPFMIPPFAEQNRI 259

Query: 169 ---------------------------------------LIREKIIAETVRIDTLITERI 189
                                                     + +     RI        
Sbjct: 260 LSTVKKLMSLCDQLEQHSLTSLDAHQQLVETLLTTLTDSQNADALAENWARISEHFDTLF 319

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKD------------------------------ 219
                +   KQ ++   V   L P     +                              
Sbjct: 320 TTEASIDALKQTILQLAVMGKLVPQDPNDEPASELLKRIAQEKAQLVKDGKIKKQKPLPP 379

Query: 220 -SGIEWVGLVPDHWEVKP-------FFALVTELNRKNTKLIESNILSLSYGNIIQKLETR 271
            S  E    VP+ WE                       + +   I  ++ G+I +     
Sbjct: 380 ISDKEKPFEVPEGWEWCKFGLISEFINGDRGSNYPNKNEYVVHGIPWINTGHIEKNGTLS 439

Query: 272 NMGLKPESYETYQ-----IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
              +   + + +       +  G++V+        K +          I +S  +     
Sbjct: 440 ITDMNFITEKKFNELRSGKIQSGDLVYCLRGATFGKTAFVKPYESG-AIASSLMIIRPFI 498

Query: 327 GIDSTYLAWLMRSYDLCKVFYAM-GSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
                Y+   + S       +       + +L    V       PP++EQF I
Sbjct: 499 REMGEYIYNYLISPFGRSQIFRFDNGSAQPNLSANSVMLYAFACPPLQEQFRI 551



 Score = 62.1 bits (149), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 35/196 (17%), Positives = 62/196 (31%), Gaps = 10/196 (5%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
           S  E    +P  WE   F  L      K    ++      +   +  K    N+ +  E 
Sbjct: 93  SEEEKPFELPVGWEWVTFSHLGHFFGGKTPSKMKDEYWGGTIPWVTPKDMKTNLIVDSED 152

Query: 280 -------YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
                   +    V PG I+F        +R    A       +      + P   + +Y
Sbjct: 153 KVTPLAIEDGLTKVSPGSILFVARSGIL-RRIFPVAITSIECTVNQDLKVLSPFLSEISY 211

Query: 333 LAWLMRSYDLCKVFYA--MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
              LM +     +           +SL F+D    P ++PP  EQ  I + +    +  D
Sbjct: 212 YIRLMMNGFERYIVENLTKTGTTVESLLFDDFISHPFMIPPFAEQNRILSTVKKLMSLCD 271

Query: 391 VLVEKIEQSIVLLKER 406
            L +    S+   ++ 
Sbjct: 272 QLEQHSLTSLDAHQQL 287


>gi|260858509|ref|YP_003232400.1| type I restriction-modification enzyme S subunit [Escherichia coli
           O26:H11 str. 11368]
 gi|257757158|dbj|BAI28660.1| type I restriction-modification enzyme S subunit [Escherichia coli
           O26:H11 str. 11368]
          Length = 589

 Score = 95.6 bits (236), Expect = 1e-17,   Method: Composition-based stats.
 Identities = 66/514 (12%), Positives = 140/514 (27%), Gaps = 109/514 (21%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLE 54
           +K  K  P+   S  +    +P+ W+   +        G    +       K+I+   + 
Sbjct: 83  IKKQKPLPEI--SEEEKPFELPEGWEWTRLINLGIWALGSGFPNVVQGSTDKEILMCKVS 140

Query: 55  DVE-SGTGKYLPKDGNSRQSDTS---TVSIFAKGQILYGKLG---PYLRKAIIADFDGIC 107
           D+   G  K++    N+   D +    + I   G I++ K+G      ++ I+     I 
Sbjct: 141 DMNLEGNEKFIFSTKNTISKDLADEYKIKISEPGTIIFPKIGGAIATNKRRILVQDTAID 200

Query: 108 STQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQ 167
           +    +     +  E     L ++D    +     G ++   +   IG+IP+ +P L  Q
Sbjct: 201 NNCLGIKPCDAISGEWFYLILNTLD----MSKYQSGTSIPAINQSVIGSIPIALPSLKMQ 256

Query: 168 VLIREK-----------------------------------------IIAETVRIDTLIT 186
             I                                            +     RI     
Sbjct: 257 EKIVSYVITLMSLCDQLEQQSLTSLDAHQQLVETLLGTLTDSQNAEELAENWARISEHFD 316

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKD--------------------------- 219
                   +   KQ ++   V   L P     +                           
Sbjct: 317 TLFTTEASVDALKQTILQLAVMGKLVPQDPNDEPASELLKRIAQEKAQLVKEGKIKKQKP 376

Query: 220 ----SGIEWVGLVPDHWEVKP-------FFALVTELNRKNTKLIESNILSLSYGNIIQKL 268
               S  E    +P+ WE                       + +   I  ++ G+I +  
Sbjct: 377 LPPISDEEKPFELPEGWEWCKFGLTSEFINGDRGSNYPNKNEYVSQGIPWINTGHIEKNG 436

Query: 269 ETRNMGLKPESYETYQ-----IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
                 +   +   +       +  G++V+        K +          I +S  +  
Sbjct: 437 TLTVTEMNFITEGKFNELRSGKIQKGDLVYCLRGATFGKTAFVIPYETG-AIASSLMIIR 495

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYAM-GSGLRQSLKFEDVKRLPVLVPPIKEQFDI---T 379
                   Y+   + S       Y       + +L    V       PP+ EQ+ I    
Sbjct: 496 PFITEMGGYIYNYLTSPFGRSQIYRFDNGSAQPNLSANSVMLYSFPCPPLTEQYRIFSQV 555

Query: 380 NVINVETARIDVLVEKIEQ-SIVLLKERRSSFIA 412
            +++    ++   ++  +Q  + L      + I 
Sbjct: 556 GLLHELCDKLKTRIKTAQQTQLHLADALTDAAIN 589


>gi|310287613|ref|YP_003938871.1| HsdS-like protein of Type I restriction-modification system
           [Bifidobacterium bifidum S17]
 gi|309251549|gb|ADO53297.1| HsdS-like protein of Type I restriction-modification system
           [Bifidobacterium bifidum S17]
          Length = 412

 Score = 95.6 bits (236), Expect = 1e-17,   Method: Composition-based stats.
 Identities = 64/407 (15%), Positives = 131/407 (32%), Gaps = 34/407 (8%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV----SI 80
           W+   +      + G       DI   G+     G   Y   +      DT       ++
Sbjct: 19  WEQRKLGEIASFSKGSGYSKA-DIRESGIPLFLYG-RMYTQYETRVDSVDTFAAPRPGTL 76

Query: 81  FAKG-QILYGKLGP----YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW-LLSIDVT 134
           ++KG +I+    G       R + I            V+ P+ ++  L   + L      
Sbjct: 77  YSKGTEIVVPASGESAEDIARASAITREGIALGGDLNVVYPQRMVTPLFLAYGLSHGSSQ 136

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           + +    +G T+ H     +  + +  P + EQ  I     +    I     +  + +  
Sbjct: 137 KLLAQKAQGKTVVHIHASDLKGLGIAFPDVTEQQAIGTFFSSLDDLITLHQRKYDKLV-- 194

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK--LI 252
                  +    + + + P        I + G   D WE +       +   KN    L 
Sbjct: 195 -------IFKKTMLEKMFPKDGESVPEIRFAGFT-DPWEQRKLGEFSKKNTIKNANGALS 246

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFR-FIDLQNDKRSLRSAQVM 311
           E+   S   G I Q     +      +   Y +V P + V+   I        +   ++ 
Sbjct: 247 ETFTNSAEQGVISQLDYFDHDITNDANISGYYVVQPDDFVYNPRISATAPCGPINRNRLN 306

Query: 312 ERGIITSAYMAVKPH-GIDSTYLAWLMRSYDLCKVFYAMGSGL----RQSLKFEDVKRLP 366
             G+++  Y        +D TYL    ++       +  G+      R S+    +  +P
Sbjct: 307 RAGVMSPLYTVFSVDASMDKTYLEHYFKTSRWHDFMFLEGNTGARSDRFSISDATLFEMP 366

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           +  P I EQ  +   +       + L+   ++ + LL+  + S +  
Sbjct: 367 IWCPEISEQIAMAKQLET----TETLITLHQRKLELLRNIKKSLLDK 409



 Score = 61.0 bits (146), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 30/191 (15%), Positives = 60/191 (31%), Gaps = 8/191 (4%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIV 286
              +  ++    +           + ES I    YG +  + ETR   +   +      +
Sbjct: 17  DPWEQRKLGEIASFSKGSGYSKADIRESGIPLFLYGRMYTQYETRVDSVDTFAAPRPGTL 76

Query: 287 DPG--EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI-DSTYLAWLMRSYDLC 343
                EIV        +  +  SA   E   +      V P  +    +LA+ +      
Sbjct: 77  YSKGTEIVVPASGESAEDIARASAITREGIALGGDLNVVYPQRMVTPLFLAYGLSHGSSQ 136

Query: 344 KVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
           K+      G     +   D+K L +  P + EQ  I        + +D L+   ++    
Sbjct: 137 KLLAQKAQGKTVVHIHASDLKGLGIAFPDVTEQQAIGTF----FSSLDDLITLHQRKYDK 192

Query: 403 LKERRSSFIAA 413
           L   + + +  
Sbjct: 193 LVIFKKTMLEK 203


>gi|262373386|ref|ZP_06066665.1| predicted protein [Acinetobacter junii SH205]
 gi|262313411|gb|EEY94496.1| predicted protein [Acinetobacter junii SH205]
          Length = 814

 Score = 95.6 bits (236), Expect = 1e-17,   Method: Composition-based stats.
 Identities = 73/488 (14%), Positives = 142/488 (29%), Gaps = 101/488 (20%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           +P  W    +   T L T  T  +       I +I ++DV   T  +      S +  + 
Sbjct: 101 LPSKWVKAYLGEVTLLITDGTHHTPKYLDSGIPFISVKDVSGKTISFDDCKYISSEEHSE 160

Query: 77  TVSIFAK--GQILYGKLGPYLRKAIIA---DFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
            +         IL  ++G   R  +I    DF    S   L L       + L  +L S 
Sbjct: 161 LIKRCKPEINDILLCRIGTLGRATLIDVEKDFSIFVSLGLLKLSKIINYSKYLHLFLHSP 220

Query: 132 D-VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLI-------------------- 170
             + Q  E    G+  +  + K + +I + +PPL EQ  I                    
Sbjct: 221 QALLQFDEVKVGGSHTNKLNLKDLPHIVINLPPLEEQQRIVEKVDELMQLCDQLEQQQNL 280

Query: 171 ---------------------REKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTK 209
                                 ++      RI             + + KQ ++   V  
Sbjct: 281 SSEAHDQLVDTLLNVLTNSSDVDEFQQNWQRISENFDLLFTTEYSIDQLKQTILQLAVMG 340

Query: 210 GLNPDVK-------------------------------MKDSGIEWVGLVPDHWEVKPFF 238
            L                                    ++ S  E    +P +W      
Sbjct: 341 KLVKQDPNDEPASELLKQITEEKAKLIKEGKIKKSKPLLEISNEEKQYEIPHNWVWARLD 400

Query: 239 A------LVTELNRKNTKLIESNILSLSYGN-IIQKLETRNMGLKPESYETYQ---IVDP 288
           +        +         ++S I  L   N     L   ++    E          V  
Sbjct: 401 SLTSKIGAGSTPKGGKEVYVDSGIPFLRSQNVWNDGLALDDVAFISEGTHEKMSGTHVQA 460

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA 348
            +++F        + +L +       +     +        + +L  ++RS  + K+   
Sbjct: 461 NDLLFNITGGSIGRCALVATDFETANVSQHVTIVRSIDKDLAPFLHLVLRSSYIQKLVMD 520

Query: 349 MGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
           +  G+ R+ L    + +  + +P + EQ  I   + +  + ID L    + S+  L++ +
Sbjct: 521 VQVGVSREGLSIGKLSQFLIPLPSLTEQKRIIKKVEILNSIIDSL----QVSLRKLQKTK 576

Query: 408 ----SSFI 411
                S I
Sbjct: 577 LHLADSLI 584



 Score = 69.1 bits (167), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 27/179 (15%), Positives = 64/179 (35%), Gaps = 8/179 (4%)

Query: 241 VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDP-----GEIVFRF 295
           +T+      K ++S I  +S  ++  K  + +      S E  +++        +I+   
Sbjct: 117 ITDGTHHTPKYLDSGIPFISVKDVSGKTISFDDCKYISSEEHSELIKRCKPEINDILLCR 176

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY--AMGSGL 353
           I     + +L   +      ++   + +      S YL   + S      F    +G   
Sbjct: 177 IGTLG-RATLIDVEKDFSIFVSLGLLKLSKIINYSKYLHLFLHSPQALLQFDEVKVGGSH 235

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
              L  +D+  + + +PP++EQ  I   ++      D L ++   S     +   + + 
Sbjct: 236 TNKLNLKDLPHIVINLPPLEEQQRIVEKVDELMQLCDQLEQQQNLSSEAHDQLVDTLLN 294



 Score = 55.2 bits (131), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 30/200 (15%), Positives = 67/200 (33%), Gaps = 12/200 (6%)

Query: 20  AIPKHWKVVPIKRF-TKLNTGRTSESGKD------IIYIGLEDVESGTGKYLPK-DGNSR 71
            IP +W    +    +K+  G T + GK+      I ++  ++V +           +  
Sbjct: 389 EIPHNWVWARLDSLTSKIGAGSTPKGGKEVYVDSGIPFLRSQNVWNDGLALDDVAFISEG 448

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAII---ADFDGICSTQF-LVLQPKDVLPELLQGW 127
             +  + +      +L+   G  + +  +          S    +V      L   L   
Sbjct: 449 THEKMSGTHVQANDLLFNITGGSIGRCALVATDFETANVSQHVTIVRSIDKDLAPFLHLV 508

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
           L S  + + +  +  G +        +    +P+P L EQ  I +K+      ID+L   
Sbjct: 509 LRSSYIQKLVMDVQVGVSREGLSIGKLSQFLIPLPSLTEQKRIIKKVEILNSIIDSLQVS 568

Query: 188 RIRFIELLKEKKQALVSYIV 207
             +  +       +L+   +
Sbjct: 569 LRKLQKTKLHLADSLIVNAL 588


>gi|28897161|ref|NP_796766.1| HsdS polypeptide [Vibrio parahaemolyticus RIMD 2210633]
 gi|28805370|dbj|BAC58650.1| putative HsdS polypeptide, part of CfrA family [Vibrio
           parahaemolyticus RIMD 2210633]
          Length = 583

 Score = 95.6 bits (236), Expect = 1e-17,   Method: Composition-based stats.
 Identities = 57/479 (11%), Positives = 128/479 (26%), Gaps = 97/479 (20%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESG-------KDIIYIGLEDVESGTGKYLP-KDGNSRQS 73
           P HW+ + + +   +  G+    G        D +Y+ + D+++ +      +  +    
Sbjct: 97  PLHWETICVGQVAHVLGGKRVPKGYKLSEQPTDFVYLRVTDMKNQSIDESDLRYISEEVF 156

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICS-TQFLVLQPKDVLPELLQGWLLSID 132
              +      G +     G       I       S T+         L +     +L   
Sbjct: 157 KQISRYTINTGDVYVTIAGTIGAVGTIPPHLDGMSLTENAAKLVFSGLSKKYLVTVLQSS 216

Query: 133 V-TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR----------- 180
             T++                 I +  +PIPPL EQ  I +K+                 
Sbjct: 217 FVTRQFNDAVNQMAQPKLSLNSIKHTCIPIPPLEEQEYIADKVDELMALCDQLEQQTEAS 276

Query: 181 ------------------------------IDTLITERIRFIELLKEKKQALVSYIVTKG 210
                                         I           E + + KQ ++   V   
Sbjct: 277 IEAHQVLVTTLLDTLTNSADADELMQNWARISEHFDTLFTTEESIDQLKQTILQLAVMGK 336

Query: 211 LNPDVKMKDSGIEWV-------------------------------GLVPDHWEVKPFFA 239
           L P     +   E +                                 +P  WE      
Sbjct: 337 LVPQDPSDEPAAELLKRIAEEKAQLVKEKKIKKQKALPPIAEDEKPFELPSGWEWCRLDD 396

Query: 240 LVTELNR-----KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ------IVDP 288
           +   +       K        I  L   NI ++        +    + ++      ++ P
Sbjct: 397 ICFGITSGSTPPKVNFNESEGIPYLKVYNIREQKIDFEYKPQFVDNDCHKTKLARSVLYP 456

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA 348
           G++V   +     K ++      E     +           + Y+   + +         
Sbjct: 457 GDVVMNIVGPPLGKIAIIPDTYPEWNCNQAITFFRPIVPQLNKYIYTYLTAGSFLDSIEL 516

Query: 349 MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
           +G+  + ++     + + +  PP++EQ  I N ++      + L  ++ +     +E +
Sbjct: 517 IGTAGQDNISVTKSRSILLPTPPLREQKRIVNKVHELFLLCNSLKMRLRKR----QELK 571



 Score = 78.7 bits (192), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 37/201 (18%), Positives = 68/201 (33%), Gaps = 14/201 (6%)

Query: 20  AIPKHWKVVPIKRFTK-LNTGRTSES-----GKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
            +P  W+   +      + +G T         + I Y+ + ++      +  K       
Sbjct: 384 ELPSGWEWCRLDDICFGITSGSTPPKVNFNESEGIPYLKVYNIREQKIDFEYKPQFVDND 443

Query: 74  DTSTV---SIFAKGQILYGKLGPYLRKAIIAD---FDGICSTQFLVLQPK-DVLPELLQG 126
              T    S+   G ++   +GP L K  I      +  C+      +P    L + +  
Sbjct: 444 CHKTKLARSVLYPGDVVMNIVGPPLGKIAIIPDTYPEWNCNQAITFFRPIVPQLNKYIYT 503

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           +L +      IE I   A   +       +I +P PPL EQ  I  K+    +  ++L  
Sbjct: 504 YLTAGSFLDSIELIGT-AGQDNISVTKSRSILLPTPPLREQKRIVNKVHELFLLCNSLKM 562

Query: 187 ERIRFIELLKEKKQALVSYIV 207
              +  EL       +V   V
Sbjct: 563 RLRKRQELKLCITDTIVEQAV 583


>gi|269978368|gb|ACZ55918.1| putative type I restriction-modification system specificity subunit
           S [Helicobacter pylori]
          Length = 420

 Score = 95.6 bits (236), Expect = 1e-17,   Method: Composition-based stats.
 Identities = 57/411 (13%), Positives = 116/411 (28%), Gaps = 36/411 (8%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           PK  +   +        G++    K + +  +  +  G       +  +R  +       
Sbjct: 13  PKGVEFRKLGEVCDFQKGKSITK-KAVTFGKVPVISGGRQPAYYHNEANRSGE------- 64

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
               I     G Y       D     +  F V  PK         +         I A  
Sbjct: 65  ---TIAISSSGVYAGYVSYWDIPVFLADSFSVS-PKQKTLMPKYLFHYLTTQQDAIHATK 120

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
               + H   K + N  +PIPPL  Q  I + + A T     L    ++  +   E  Q 
Sbjct: 121 STGGIPHVYSKDLQNFLIPIPPLEIQQEIVKILDAFTELNTEL-NTELKARKKQYEYYQN 179

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVG-----LVPDHWEVKPFFALVTELNRKNTKLIESNI 256
           ++        N       S  + +      L P   E K    +    N           
Sbjct: 180 MLLDFNDINQNHKDAKIKSYPKRLKTLLQTLAPKGVEFKTLEEVFEIKNGYTPSKNNPEF 239

Query: 257 LSLSYGNIIQKLETRNMG---------LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
                    +  + R  G         + P++ +  ++     I+        +   L  
Sbjct: 240 WKNGTIPWFRMEDIRENGRILKDSIQHITPKALKGKKLFPKNSIIISTTATIGEHALLIV 299

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF--YAMGSGLRQSLKFEDVKRL 365
             +  +      +++ K +   +  + +      L   +    +      S+     K+ 
Sbjct: 300 DSLANQRFT---FLSKKANCDLALDMKFFFYQCFLLGEWCKNNINVSGFASVDMTAFKKY 356

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
              +PP++ Q +I  +++   A    L+  I   I   K+     R   + 
Sbjct: 357 KFPIPPLEIQQEIVKILDQFLALTTDLLAGIPAEIKARKKQYEYYREKLLT 407


>gi|148988314|ref|ZP_01819761.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP6-BS73]
 gi|147925995|gb|EDK77069.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP6-BS73]
          Length = 352

 Score = 95.6 bits (236), Expect = 1e-17,   Method: Composition-based stats.
 Identities = 50/392 (12%), Positives = 115/392 (29%), Gaps = 44/392 (11%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V +     L  G+ +    +   +    ++    +       +   + +         
Sbjct: 2   KKVKLGEVLSLKKGKKATVLAEQTTLSQRYIQIDDLRNNNNLKFTESLNMTEAL---PDD 58

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW--LLSIDVTQRIEAICEG 143
           IL    G             + ST  ++ + +    +++  +  +     +Q +     G
Sbjct: 59  ILIAWDGANAGTVGYGLSGAVGSTITVLKKNERYKEKIISDYLGVFLESKSQYLREHSTG 118

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           AT+ H +   + ++ + +  + EQ  I   +      I     +      L+        
Sbjct: 119 ATIPHLNKNILLDLQLELLGIEEQENIICILNTIKRLITKRKLQLDELNLLV-------- 170

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
                         K    E  G V  + +          L  +N K  +    +     
Sbjct: 171 --------------KSRFNEMFGDVILNEKEWKVSKWNEILTIRNGKNQKQVEDADGKFP 216

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
           I               Y    IV    ++       N    +R              +  
Sbjct: 217 IYGSGGI-------MGYAKDWIVKKNSVIIGRKGNINKPILVRENFWNVDTAFG---LEP 266

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
               I+S YL +  + Y+  K+  A+      SL   D+  + + +PP+  Q +  + + 
Sbjct: 267 VLEKINSEYLFYFCQLYNFEKLNKAV---TIPSLTKSDLLNISIPLPPLALQNEFADFVV 323

Query: 384 VETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
               ++D     I++S+  L+  + S +    
Sbjct: 324 ----QVDKSQLAIQKSLEELETLKKSLMQEYF 351



 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 27/151 (17%), Positives = 52/151 (34%), Gaps = 15/151 (9%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           K WKV        +  G+  +            VE   GK+ P  G+      +   I  
Sbjct: 186 KEWKVSKWNEILTIRNGKNQKQ-----------VEDADGKF-PIYGSGGIMGYAKDWIVK 233

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           K  ++ G+ G   +  ++ +      T F +    + +      +   +      E + +
Sbjct: 234 KNSVIIGRKGNINKPILVRENFWNVDTAFGLEPVLEKINSEYLFYFCQLY---NFEKLNK 290

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
             T+       + NI +P+PPLA Q    + 
Sbjct: 291 AVTIPSLTKSDLLNISIPLPPLALQNEFADF 321


>gi|269967980|ref|ZP_06182019.1| hypothetical protein VMC_34490 [Vibrio alginolyticus 40B]
 gi|269827416|gb|EEZ81711.1| hypothetical protein VMC_34490 [Vibrio alginolyticus 40B]
          Length = 421

 Score = 95.6 bits (236), Expect = 1e-17,   Method: Composition-based stats.
 Identities = 55/393 (13%), Positives = 127/393 (32%), Gaps = 26/393 (6%)

Query: 38  TGRTSESGKDI------IYIGLEDVESGTGKYLPKDGNSRQSDTS-TVSIFAKGQILYGK 90
            G    S  D+      +++   +V     ++  K   + +   S      A   I+   
Sbjct: 35  RGHNYPSTGDLKEQGHTLFLSASNVTKRGFEFNSKQYITLEKSQSMGNGKLALNDIVLTS 94

Query: 91  LGPYLRKAIIAD-------FDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
            G     A   +       +  I S   ++     + P ++  +L S    ++I+ I  G
Sbjct: 95  RGSIGHIAWYDEIVKQKVPYARINSGMLILRSNDSMCPSIVSQYLKSPIGAKKIDLISFG 154

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           +         +  + + IP    +  +     +   ++DTLI +  +  + L   K+A++
Sbjct: 155 SAQPQLTKASVSKLKITIPENKTEQYLVG---SYFQKLDTLINQHQQKHDKLSNLKKAML 211

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
             +  K       ++  G    G                +   K++   +     + YG 
Sbjct: 212 EKMFPKAGETVPAIRFDGFS--GDWQSKTLGSVASFHKGKGLPKSSIQDDGVYSCIHYGE 269

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII-TSAYMA 322
           +  K       +   + +          V         K  ++   V + G++     + 
Sbjct: 270 LFTKYSEVIEMVTGRTNQNDNFFSVSNDVLMPTSDVTPKGLVKPCCVKQSGVVLGGDILV 329

Query: 323 VKPHGIDSTYLAWL--MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
           ++P+  +    A+L         +V   +       L    ++ L +    I EQ  I N
Sbjct: 330 IRPNDQNLIDGAFLSRFIRTREQQVLQNVTGSTVFHLYASSIENLDIAFCSIDEQKAIAN 389

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
                  ++D+L+ +  Q I  LK  + + +  
Sbjct: 390 Y----FQKLDLLISQNNQQITKLKNIKQACLDK 418



 Score = 37.9 bits (86), Expect = 3.5,   Method: Composition-based stats.
 Identities = 29/192 (15%), Positives = 57/192 (29%), Gaps = 12/192 (6%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTG--KYLPKDGNSRQSDTSTVSIF 81
            W+   +      + G+               +  G    KY               + F
Sbjct: 233 DWQSKTLGSVASFHKGKGLPKSSIQDDGVYSCIHYGELFTKYSEVIEMVTGRTNQNDNFF 292

Query: 82  A-KGQILYGKLGPY----LRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
           +    +L           ++   +     +     LV++P D            I   ++
Sbjct: 293 SVSNDVLMPTSDVTPKGLVKPCCVKQSGVVLGGDILVIRPNDQNLIDGAFLSRFIRTREQ 352

Query: 137 I-EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
                  G+T+ H     I N+ +    + EQ  I         ++D LI++  + I  L
Sbjct: 353 QVLQNVTGSTVFHLYASSIENLDIAFCSIDEQKAIANY----FQKLDLLISQNNQQITKL 408

Query: 196 KEKKQALVSYIV 207
           K  KQA +  + 
Sbjct: 409 KNIKQACLDKMF 420


>gi|183600210|ref|ZP_02961703.1| hypothetical protein PROSTU_03754 [Providencia stuartii ATCC 25827]
 gi|188022507|gb|EDU60547.1| hypothetical protein PROSTU_03754 [Providencia stuartii ATCC 25827]
          Length = 368

 Score = 95.6 bits (236), Expect = 1e-17,   Method: Composition-based stats.
 Identities = 46/401 (11%), Positives = 114/401 (28%), Gaps = 45/401 (11%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
             W+   +     L+ G+  ++            ++     +P   ++  +      +  
Sbjct: 2   SEWQNTTLGDVITLHYGKALKT------------QNRIVGNIPVYSSAGITGYHNEPLVM 49

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
              I+ G+ G   +     +      T + VL  +     +   +      T  +E + E
Sbjct: 50  SKGIIIGRKGTVGKVYYSPEPFWCIDTAYYVLPNETKYDFIWLYYQ---LGTIGLEELNE 106

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
            + +   +     +  + IP +AEQ  I   + +   +ID L  +      +        
Sbjct: 107 DSAVPGLNRTTAYSQDILIPSIAEQKAIASVLSSLDDKIDLLHRQNKTLESM-------- 158

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
                      +   +   +E       H  +K  FA     + K +   E  I +  + 
Sbjct: 159 ----------AETLFRQWFVEEAQDDWVHGTLKDEFAFTMGQSPKGSSFNEEQIGTPMFQ 208

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
                           +  T        ++                    +  I     A
Sbjct: 209 GNADFGFRFPKERVYTTEPTRFAQKLDTLI------SVRAPVGAQNMARSKCCIGRGVAA 262

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
            +       Y     +   L            +  S+   D +++ V++PP      I +
Sbjct: 263 FRHINNPDWYTYTYFKLRCLMDEIKKFNDEGTVFGSISKSDFEKIEVIIPPAS----IIH 318

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
              +    ++  V      I  L++ R + +   ++G++ +
Sbjct: 319 NYEIMVKPLNDRVITNCFQIEKLEKLRDTLLPKLMSGEVRV 359


>gi|157159064|ref|YP_001463945.1| putative type I restriction-modification system, S subunit
           [Escherichia coli E24377A]
 gi|157081094|gb|ABV20802.1| putative type I restriction-modification system, S subunit
           [Escherichia coli E24377A]
          Length = 373

 Score = 95.6 bits (236), Expect = 1e-17,   Method: Composition-based stats.
 Identities = 50/400 (12%), Positives = 134/400 (33%), Gaps = 44/400 (11%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W    +     LN G+          +  +D  +G+       G +        ++  + 
Sbjct: 4   WIKTKLGEIVILNYGKA---------LKAQDRNAGSIPVYSSGGLT---GWHNKALINEQ 51

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            I+ G+ G   +  +         T + +L            +L  +  T  +E + E +
Sbjct: 52  GIIIGRKGTVGKAYLTYGPFWCIDTAYYILPNPSKYD---FVFLFYLLKTLGLEELNEDS 108

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
            +   +     +  + +P L EQ  I   + +   +ID L  +      + +   +    
Sbjct: 109 AVPGLNRDTAYSQEILLPSLPEQKTIASVLSSLDDKIDLLHRQNKTLESMAETLFR---- 164

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
                 +     +  S  + +   P    +K   A   ++   +T      ++  + G  
Sbjct: 165 ---QWFILDSTGVSVSIDQIIDFNPKRTLIKSQDATYLDMAGLST------VIFRANGYY 215

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
            +   +     K ++                         +      E G  ++ ++ ++
Sbjct: 216 RRPFSSGTKFTKRDTLLAR---------ITPCLENGKAAYIDFLDDNETGWGSTEFIVMR 266

Query: 325 PHGIDSTYLAWLM-RSYDLCKVFYA--MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
           P      +++++M R+ D  +   +   GS  RQ +  + +K+  V +P       I  +
Sbjct: 267 PKKEIHPFISYIMCRNPDFKEYAESCMEGSTGRQRVNLDHLKKFNVNLPTEASLRIINEL 326

Query: 382 INVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           ++   ++   L+    + I  L++ R + +   ++G++ +
Sbjct: 327 LDSFESK---LINN-SKQIDSLEKLRDTLLPKLMSGEVRV 362


>gi|237729543|ref|ZP_04560024.1| type I restriction-modification system specificity subunit
           [Citrobacter sp. 30_2]
 gi|226908149|gb|EEH94067.1| type I restriction-modification system specificity subunit
           [Citrobacter sp. 30_2]
          Length = 410

 Score = 95.6 bits (236), Expect = 1e-17,   Method: Composition-based stats.
 Identities = 53/424 (12%), Positives = 134/424 (31%), Gaps = 42/424 (9%)

Query: 23  KHWKVVPIKRFTKLNTGRTSES--------GKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
             W    ++    L  GR+                +I   +V + +      +    +  
Sbjct: 2   SEWVNRKLREVGTLERGRSRHRPRYAFHLYNGPYPFIQTGEVRAASKYINSYENTYSEDG 61

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
                ++ KG +    +   + +  I DFD       L   P      +   +       
Sbjct: 62  LKQSKLWPKGTLCIT-IAANIAELAILDFDACFPDSVLGFLPDTTKTSVDFVFYTLRHYQ 120

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           + ++ I EG+   + +     NI  P PP++EQ  I   + A   +I+ L  +      +
Sbjct: 121 KTLKHIGEGSVQDNINLGTFENIEFPFPPISEQKAIASVLSALDDKINLLHRQNKTLESM 180

Query: 195 LKE-KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
            +   +Q  +                             +     A             +
Sbjct: 181 AETLFRQWFIEEAQAD-----------------WEITTLDCHITVAKGLSYKGAGLTTSD 223

Query: 254 SNILSLSYGNIIQKLETRNMGLKPE--SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
           + I   S  ++++    ++ G+K     ++   I+  G+I+    +  ++ R +    ++
Sbjct: 224 NGIPLFSLNSVLEGGGYKSAGIKYYNGDFKERHIIKHGDIIVANTEQGHEYRLIGYPAII 283

Query: 312 ER-----GIITSAYMAVKPHGID---STYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDV 362
                   I T     V  +      + ++ +L+ S D+ +   A  +G     L  + +
Sbjct: 284 PTTKSKLSIYTHHLFKVSINDDSYLTNYFMYYLLCSKDMHEQVVAATNGSTVNQLSADGL 343

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
           +R    +PP      +      +       +      I  ++  R + +   ++G++ ++
Sbjct: 344 QRPEFKLPP----ECMVKKFTTQITSFWEKISINNSQIKNIESLRDTLLPKLLSGEVRVK 399

Query: 423 GESQ 426
              +
Sbjct: 400 YAEE 403


>gi|85716965|ref|ZP_01047929.1| type I restriction-modification system, endonuclease S subunit
           [Nitrobacter sp. Nb-311A]
 gi|85696244|gb|EAQ34138.1| type I restriction-modification system, endonuclease S subunit
           [Nitrobacter sp. Nb-311A]
          Length = 402

 Score = 95.6 bits (236), Expect = 1e-17,   Method: Composition-based stats.
 Identities = 67/388 (17%), Positives = 131/388 (33%), Gaps = 21/388 (5%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKD--IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
            W  V   +       R     +     Y+GLE ++  + +   +         ST   F
Sbjct: 12  GWTRVRFDQIATQINERVDNPAEAGVERYVGLEHLDPDSLRI--RRWGEPTDVESTKLRF 69

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKD--VLPELLQGWLLSIDVTQRIEA 139
             G I++GK   Y RK  +ADF+GICS   +VL+ K   VLP+ L  ++ S    +R  +
Sbjct: 70  QPGDIIFGKRRVYQRKVAVADFEGICSAHAMVLRAKPGAVLPDFLPFFMQSDLFMERALS 129

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
           I  G+     +W  +      +PP+ EQ  + E + A           +   +   +   
Sbjct: 130 ISVGSLSPTINWTALAAEEFLLPPIREQSRLVEALSAADKL----AEVQHDLLTRSESVF 185

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN--TKLIESNIL 257
           +AL    + +G  P    +    +   +                 +R     +       
Sbjct: 186 KALFKERIGRGFKPADYQRWEEDDEPNMCFVRLSEVASVDRGRFSHRPRNLPQFFGGPYP 245

Query: 258 SLSYGNI---IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
               G++     +  + +  L  E  +  +   PG I      +        +    E  
Sbjct: 246 FAQTGDVAAARGRDFSASQFLSDEGVQYGKSFPPGTIFLTIAAVIAA----TAISTTETY 301

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKE 374
              S    V    +D  YL + +R       F       ++++  E ++ L +  P  ++
Sbjct: 302 CTDSVVGIVPKDPLDVDYLEYTLRFTRPYLEFEVATQTAQKNINLEVLRPLTIPWPSKED 361

Query: 375 QFDITNVINVETARIDVLVEK--IEQSI 400
           +  I   +    + I  +  +    + I
Sbjct: 362 RDAIAKELAAAESAIRTIEARQAATKKI 389


>gi|160894141|ref|ZP_02074919.1| hypothetical protein CLOL250_01695 [Clostridium sp. L2-50]
 gi|156864174|gb|EDO57605.1| hypothetical protein CLOL250_01695 [Clostridium sp. L2-50]
          Length = 372

 Score = 95.2 bits (235), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 56/396 (14%), Positives = 117/396 (29%), Gaps = 33/396 (8%)

Query: 30  IKRFTKLNTGRTSESGKDII-YIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
           +    +   G+   +  D   YI  E++                   +    F  G IL 
Sbjct: 5   LADICEYAKGKVDVAILDADTYISTENMMPNKRGITSATSLPT---VAQTQAFLAGDILV 61

Query: 89  GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID-VTQRIEAICEGATMS 147
             + PY +K   A+F+G CS   LV + K+ + +    ++L+ D       +  +G  M 
Sbjct: 62  SNIRPYFKKIWFAEFNGGCSNDVLVFRAKNGVSKRFLYYVLANDTFFDYSMSTSKGTKMP 121

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
             D   I    +P     +Q  I   + A   +    I         L+++ QA+   + 
Sbjct: 122 RGDKAAIMKYDVPDFTYEKQEKIAGILDALDKK----IQLNTEINNNLEQQAQAIYQQMF 177

Query: 208 TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK 267
                            +      W       +      ++      N           +
Sbjct: 178 -----------------IDNARSDWAEGTLSDIADITIGQSPSGSSYNEDGTGTIFFQGR 220

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
            E    G +  S   Y              +                 I     A+    
Sbjct: 221 AEF---GFRFPSVRLYTTEPKRMARSNDTLMSVRAPVGDLNVAHTDCCIGRGLAAIHSKS 277

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
              +++ + M S       +     +  S+    +  +P+L+P       I +      A
Sbjct: 278 NHQSFVLYTMFSLKKQLDVFNGEGTVFGSINRNSLNDMPILIPSDD----ILDEFERIVA 333

Query: 388 RIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
            +D+ +      I  L++ R + +   ++G++D+  
Sbjct: 334 PMDLTIRNNYDEICRLQDIRDTLLPRLMSGELDVSD 369



 Score = 42.5 bits (98), Expect = 0.15,   Method: Composition-based stats.
 Identities = 21/182 (11%), Positives = 45/182 (24%), Gaps = 2/182 (1%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
             W    +     +  G++                 G  ++  +  + R   T    +  
Sbjct: 183 SDWAEGTLSDIADITIGQSPSGSSYNEDGTGTIFFQGRAEFGFRFPSVRLYTTEPKRMAR 242

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
               L     P      +A  D         +  K    +    + +     Q      E
Sbjct: 243 SNDTLMSVRAPV-GDLNVAHTDCCIGRGLAAIHSKS-NHQSFVLYTMFSLKKQLDVFNGE 300

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           G      +   + ++P+ IP           +    + I     E  R  ++       L
Sbjct: 301 GTVFGSINRNSLNDMPILIPSDDILDEFERIVAPMDLTIRNNYDEICRLQDIRDTLLPRL 360

Query: 203 VS 204
           +S
Sbjct: 361 MS 362


>gi|291288456|ref|YP_003505272.1| restriction modification system DNA specificity domain protein
           [Denitrovibrio acetiphilus DSM 12809]
 gi|290885616|gb|ADD69316.1| restriction modification system DNA specificity domain protein
           [Denitrovibrio acetiphilus DSM 12809]
          Length = 405

 Score = 95.2 bits (235), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 53/420 (12%), Positives = 119/420 (28%), Gaps = 39/420 (9%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            WK   +     L  G+   + K     G   V    G+    +                
Sbjct: 3   EWKEYKLADLANLRNGK-GLNNKFYTDFGKSGVWGANGQIASTNEVLNSDPV-------- 53

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
             I+ G++G Y     +A+ +   +   +   PK+        +LL       +     G
Sbjct: 54  --IVIGRVGAYCGSIHMAEGNNWVTDNAIQATPKNDTDLNFLYYLLKSL---NVSRAATG 108

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           +        GIG +    P    Q  +   + +   +I+          E+ +   ++  
Sbjct: 109 SAQPLITQSGIGVLECKAPSPKIQKEVASILSSLDDKIELNRKMNETLEEMARAIFKSWF 168

Query: 204 S-----YIVTKGLNPDVKMKDSG----------IEWVGLVPDHWEVKPFFALVTELNRKN 248
                 +   +G  P     +             +    +P  WEVK    +   L    
Sbjct: 169 VDFDPVHAKARGEEPSGMPDEIASLFPSEFVHSEQLNNPIPKGWEVKSLGDVFEALGGGT 228

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFR-------FIDLQND 301
               E         +     +  N+           + + G             + L + 
Sbjct: 229 PSTKEPEYWVNGIYHWATPKDLSNLNEPIILTTERMLTEKGLNKISSGLLPKGTVLLSSR 288

Query: 302 KRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFED 361
                 A       +   ++A+K +   S Y  +     ++  +           +  ++
Sbjct: 289 APIGYVAISETPIAVNQGFIAIKENETFSKYFIYFWCKENIELIIANANGSTFLEISKKN 348

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            + +  + P + E   I +        I  L++K       L + R S +   ++G+I++
Sbjct: 349 FRNINSVFP-VDE--KIISEFTSIVEPIFQLIQKNIIEKNTLTDLRDSLLPRLISGEIEV 405



 Score = 69.1 bits (167), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 28/195 (14%), Positives = 59/195 (30%), Gaps = 13/195 (6%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIG----------LEDVESGTGKYLPKDGNS 70
           IPK W+V  +    +   G T  + +   ++           L ++         +    
Sbjct: 208 IPKGWEVKSLGDVFEALGGGTPSTKEPEYWVNGIYHWATPKDLSNLNEPIILTTERMLTE 267

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
           +  +  +  +  KG +L     P      I++     +  F+ ++  +   +    +   
Sbjct: 268 KGLNKISSGLLPKGTVLLSSRAPI-GYVAISETPIAVNQGFIAIKENETFSK-YFIYFWC 325

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRIDTLITERI 189
            +  + I A   G+T      K   NI    P            +      I   I E+ 
Sbjct: 326 KENIELIIANANGSTFLEISKKNFRNINSVFPVDEKIISEFTSIVEPIFQLIQKNIIEKN 385

Query: 190 RFIELLKEKKQALVS 204
              +L       L+S
Sbjct: 386 TLTDLRDSLLPRLIS 400


>gi|261378712|ref|ZP_05983285.1| type I restriction-modification system specificity subunit
           [Neisseria cinerea ATCC 14685]
 gi|269144866|gb|EEZ71284.1| type I restriction-modification system specificity subunit
           [Neisseria cinerea ATCC 14685]
          Length = 413

 Score = 95.2 bits (235), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 56/420 (13%), Positives = 127/420 (30%), Gaps = 42/420 (10%)

Query: 27  VVPIKRFT-KLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
              +   +  +++G T     D       I ++  E +         +    +    + V
Sbjct: 3   EKRLIDISRNISSGITPLRSNDEFWTDGTIPWLKTEQLGEKYIFDTNEHITEKALQEANV 62

Query: 79  SIFAKGQILYGKLGP--YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
            IF +  +     G         I       +     ++  +        +       + 
Sbjct: 63  KIFPENTLSIAMYGEGKTRGNVSILKRPMATNQACCNIELDEGKVSSEYVYYFLKTQYEN 122

Query: 137 IEAICEGATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
           +  +  G    + +   I N  + +P  L  Q  I   +      +D  I    +    L
Sbjct: 123 LRGLSSG-IRKNLNTNDIKNFVVRLPKNLKTQQSIAAVL----SALDKKIALNKQINARL 177

Query: 196 KEKKQALVSYIVTKGLNPD---VKMKDSGIEWVG------LVPDHWEVKPFFALVTELNR 246
           +E  + L  Y   +   PD      K SG E V        +P  WEVK    +   +  
Sbjct: 178 EEMAKTLYDYWFVQFDFPDANGKPYKSSGGEMVFDETLKREIPKGWEVKSLNQVADIVMG 237

Query: 247 KNTKLIESNILSLSYGNI--IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
           ++      N+              + R   ++  +    +    G+I+        D   
Sbjct: 238 QSPDGASYNLEQEGTIFFQGSTDFDWRFPNVRQYTTSPTRFAQKGDILLSVRAPVGDL-- 295

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKR 364
                      I     A++    ++++L ++M+ +               S+  +D+  
Sbjct: 296 ---NIAPFECCIGRGLAALRSKSGNNSFLFYVMKYFKTVFERRNTEGTTFGSITKDDLHS 352

Query: 365 LPVLVPP---IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           L ++ P    +++  +I        ++ D ++    Q    L + R   +   + GQI +
Sbjct: 353 LKLVAPADNVLEKYNEIA-------SKYDEMIFIRSQQNHQLTQLRDFLLPMLMNGQISV 405



 Score = 62.1 bits (149), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 36/201 (17%), Positives = 63/201 (31%), Gaps = 8/201 (3%)

Query: 10  YKDSGVQWI------GAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKY 63
           YK SG + +        IPK W+V  + +   +  G++ +     +         G+  +
Sbjct: 202 YKSSGGEMVFDETLKREIPKGWEVKSLNQVADIVMGQSPDGASYNLEQEGTIFFQGSTDF 261

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPEL 123
             +  N RQ  TS      KG IL     P      IA F+         L+ K      
Sbjct: 262 DWRFPNVRQYTTSPTRFAQKGDILLSVRAPV-GDLNIAPFECCIGRGLAALRSKSGNNSF 320

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           L  +++    T       EG T        + ++ +  P         E        I  
Sbjct: 321 LF-YVMKYFKTVFERRNTEGTTFGSITKDDLHSLKLVAPADNVLEKYNEIASKYDEMIFI 379

Query: 184 LITERIRFIELLKEKKQALVS 204
              +  +  +L       L++
Sbjct: 380 RSQQNHQLTQLRDFLLPMLMN 400


>gi|322656670|gb|EFY52958.1| Type I restriction enzyme EcoAI specificity protein (S protein)
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. CASC_09SCPH15965]
          Length = 554

 Score = 95.2 bits (235), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 63/473 (13%), Positives = 121/473 (25%), Gaps = 99/473 (20%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKD------IIYIGLE 54
           +K  K  P+   S  +    +P  W+ V          G+T    KD      I ++  +
Sbjct: 83  IKKQKPLPEI--SEEEKPFELPVGWEWVTFSHLGHFFGGKTPSKMKDEYWGGTIPWVTPK 140

Query: 55  DVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLR---KAIIADFDGICSTQF 111
           D+++               +   ++  + G IL+      LR      I   +   +   
Sbjct: 141 DMKTNLIVDSEDKVTPLAIE-DGLTKVSPGSILFVARSGILRRIFPVAITSIECTVNQDL 199

Query: 112 LVLQPKDVLPELLQGWLLSIDVTQRIEAI-CEGATMSHADWKGIGNIPMPIPPLAEQV-- 168
            VL P           +++      +E +   G T+    +    + P  IPP AEQ   
Sbjct: 200 KVLSPFLSEISYYIRLMMNGFERYIVENLTKTGTTVESLLFDDFISHPFMIPPFAEQNRI 259

Query: 169 ---------------------------------------LIREKIIAETVRIDTLITERI 189
                                                     + +     RI        
Sbjct: 260 LSTVKKLMSLCDQLEQHSLTSLDAHQQLVETLLTTLTDSQNADALAENWARISEHFDTLF 319

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKD------------------------------ 219
                +   KQ ++   V   L P     +                              
Sbjct: 320 TTEASIDALKQTILQLAVMGKLVPQDPNDEPASELLKRIAQEKAQLVKDGKIKKQKPLPP 379

Query: 220 -SGIEWVGLVPDHWEVKP-------FFALVTELNRKNTKLIESNILSLSYGNIIQKLETR 271
            S  E    VP+ WE                       + +   I  ++ G+I +     
Sbjct: 380 ISDKEKPFEVPEGWEWCKFGLISEFINGDRGSNYPNKNEYVVHGIPWINTGHIEKNGTLS 439

Query: 272 NMGLKPESYETYQ-----IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
              +   + + +       +  G++V+        K +          I +S  +     
Sbjct: 440 ITDMNFITEKKFNELRSGKIQSGDLVYCLRGATFGKTAFVKPYESG-AIASSLMIIRPFI 498

Query: 327 GIDSTYLAWLMRSYDLCKVFYAM-GSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
                Y+   + S       +       + +L    V       PP++EQF I
Sbjct: 499 REMGEYIYNYLISPFGRSQIFRFDNGSAQPNLSANSVMLYAFACPPLQEQFRI 551



 Score = 62.1 bits (149), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 35/196 (17%), Positives = 62/196 (31%), Gaps = 10/196 (5%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
           S  E    +P  WE   F  L      K    ++      +   +  K    N+ +  E 
Sbjct: 93  SEEEKPFELPVGWEWVTFSHLGHFFGGKTPSKMKDEYWGGTIPWVTPKDMKTNLIVDSED 152

Query: 280 -------YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
                   +    V PG I+F        +R    A       +      + P   + +Y
Sbjct: 153 KVTPLAIEDGLTKVSPGSILFVARSGIL-RRIFPVAITSIECTVNQDLKVLSPFLSEISY 211

Query: 333 LAWLMRSYDLCKVFYA--MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
              LM +     +           +SL F+D    P ++PP  EQ  I + +    +  D
Sbjct: 212 YIRLMMNGFERYIVENLTKTGTTVESLLFDDFISHPFMIPPFAEQNRILSTVKKLMSLCD 271

Query: 391 VLVEKIEQSIVLLKER 406
            L +    S+   ++ 
Sbjct: 272 QLEQHSLTSLDAHQQL 287


>gi|149196780|ref|ZP_01873833.1| Type I restriction-modification system specificity subunit
           [Lentisphaera araneosa HTCC2155]
 gi|149139890|gb|EDM28290.1| Type I restriction-modification system specificity subunit
           [Lentisphaera araneosa HTCC2155]
          Length = 405

 Score = 95.2 bits (235), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 59/408 (14%), Positives = 129/408 (31%), Gaps = 43/408 (10%)

Query: 25  WKVVPIKRFTKLN---TGRTSESGKDI------IYIGLEDV-ESGTGKYLPKDGNSRQSD 74
           WK  P+     +     G    SG D+      +++   +V +SG      +    ++SD
Sbjct: 19  WKESPLMEVADIIDGDRGSNYPSGDDLNTSGHTLFLNASNVTKSGFIFNTNQYIIKKKSD 78

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDG-------ICSTQFLVLQPKDVLPELLQGW 127
                + +   I+    G     A  +           I S   ++     + P  +   
Sbjct: 79  AMGNGMLSLDDIIITSRGSVGNVAWYSGEIHQEIPFARINSGMLIIRCKNMLTPTFITCL 138

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRIDTLIT 186
           L+S    ++I  I  G+       K +    +  P    EQ  I +        I+    
Sbjct: 139 LMSPLGRRQISTITFGSAQPQLTKKDVSIFTVSFPVDKQEQAKIGKYFQQVDKLINNHQE 198

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
           +  +   + K   + +          P+++ K    +W     D    K   + V    +
Sbjct: 199 KHKKLQNIKKAMLKKMFPQAGQS--VPEIRFKGFSGDWEFQTLDEVATKHDNSRVPITAK 256

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
                +     +    + ++                      GE V    D  ND ++  
Sbjct: 257 DRIAGVTPYYGANGIQDYVEGFT-----------------HEGEYVLLAEDGANDLKNYP 299

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLP 366
              V  +  + +    ++     ++ L +L  +     +   +  G R  L    +  L 
Sbjct: 300 INYVTGKIWVNNHAHVLQGKNYKTSTL-YLKYAISQIDIEPFLVGGGRAKLNASVMMNLG 358

Query: 367 VLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           + +P  I+EQ  I +        +D L+ + +Q I  L+  + + ++ 
Sbjct: 359 LSLPEKIQEQEKIGSY----FKSLDNLISQHDQQIQKLQNIKQACLSK 402


>gi|16415962|emb|CAC85954.1| AloI restriction modification enzyme [Acinetobacter lwoffii]
          Length = 1262

 Score = 95.2 bits (235), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 48/396 (12%), Positives = 115/396 (29%), Gaps = 42/396 (10%)

Query: 25   WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
            W  V +        G+     ++    G   V    G+              +  +    
Sbjct: 903  WPQVKVGSICSFEYGK--PLPEENRVSGPYPVMGSNGRV----------GYHSEYLIKGP 950

Query: 85   QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
             I+ G+ G   +     +      T F        + +     +L          +  G 
Sbjct: 951  AIIIGRKGSAGQVVWEEEDCYPIDTTFYAKTLTSDIDKYFLFHVLKELDLGH---LQGGV 1007

Query: 145  TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
             +   +      +PMP+PP+  Q  +          + +        +  +  +  +L S
Sbjct: 1008 GVPGLNRNEAHELPMPLPPIKVQEQMVVDFKKIDADVASAAALVSDSLSRINSEVDSLYS 1067

Query: 205  YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
              V +            IE +     +   +                    +  +  G +
Sbjct: 1068 SGVGR----------ISIEEISTNVQYGLNEKMNETGIG-------YKTFRMNEVIDGRM 1110

Query: 265  IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
            +   + +   +  + +  YQ ++ G+++F   +   +         ++     ++Y+   
Sbjct: 1111 VDNGKMKRANISAKEFSKYQ-LNKGDLLFIRSNGSLEHIGRFGLFDLDGEYCYASYLVRI 1169

Query: 325  PHGIDSTYLAWL---MRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
                      +L   M S  L K   ++   SG   ++    +K + V VP + EQ    
Sbjct: 1170 VADTSKIRPYYLAIIMNSAALRKEVVSLAVKSGGTNNINATKMKSIKVPVPSLDEQAKFI 1229

Query: 380  NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
              I      +   V   + +I     R+S+ +   +
Sbjct: 1230 AKIE----LLQKQVADAQATIDSAAARKSTVMKKYL 1261



 Score = 41.3 bits (95), Expect = 0.32,   Method: Composition-based stats.
 Identities = 21/146 (14%), Positives = 39/146 (26%), Gaps = 4/146 (2%)

Query: 246  RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
             K  ++   +I S  YG  + +    +                  ++     +   K S 
Sbjct: 901  SKWPQVKVGSICSFEYGKPLPEENRVSGPYPVMGSNGRVGYHSEYLIKGPAIIIGRKGSA 960

Query: 306  RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRL 365
                  E                      +L        + +  G      L   +   L
Sbjct: 961  GQVVWEEEDCYPIDTTFYAKTLTSDIDKYFLFHVLKELDLGHLQGGVGVPGLNRNEAHEL 1020

Query: 366  PVLVPPIKEQFDITNVINVETARIDV 391
            P+ +PPIK Q  +     V+  +ID 
Sbjct: 1021 PMPLPPIKVQEQMV----VDFKKIDA 1042


>gi|328947490|ref|YP_004364827.1| restriction modification system DNA specificity domain protein
           [Treponema succinifaciens DSM 2489]
 gi|328447814|gb|AEB13530.1| restriction modification system DNA specificity domain protein
           [Treponema succinifaciens DSM 2489]
          Length = 493

 Score = 95.2 bits (235), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 37/253 (14%), Positives = 83/253 (32%), Gaps = 15/253 (5%)

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFA 239
           ++   I       +LL+E ++  +S+ +            +  E    +P+ W       
Sbjct: 18  KLVPQIASEGNARDLLEEIRKEKLSHGLDFANAKSNPCDITEEEIPFDIPESWCWCRLGE 77

Query: 240 ---LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKP----ESYETYQIVDPGEIV 292
               V     K  +   + +  + YG +    + +    K     + +E    +   +I+
Sbjct: 78  LGNFVRGSGIKRDETTNTGLPCVRYGEMYTTYKIKFSKTKSFTSKDVFEKCHKIHTNDIL 137

Query: 293 FRFIDLQNDKRSLR-SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
                      +L  + +  E   +        P   +S +L +L+ S    +      +
Sbjct: 138 MALTGENKWDIALAATYEGTEEIAMGGDLCKFTPINCNSLFLVYLINSPYGIEYKRNTST 197

Query: 352 G-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----- 405
           G +        +  L + +PP+ EQ  I   I      I+    K E  +  + E     
Sbjct: 198 GDIIVHTSTTKLGNLLIPLPPLAEQRRIVAAIEKFMPLIEEY-GKKETQLKAINEKIGTL 256

Query: 406 RRSSFIAAAVTGQ 418
            + + +  AV G+
Sbjct: 257 TKKAILQEAVQGK 269



 Score = 77.1 bits (188), Expect = 5e-12,   Method: Composition-based stats.
 Identities = 58/427 (13%), Positives = 121/427 (28%), Gaps = 54/427 (12%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGT-GKYLPKDGNSRQSD 74
            IP+ W    +        G   +  +     +  +   ++ +    K+      + +  
Sbjct: 65  DIPESWCWCRLGELGNFVRGSGIKRDETTNTGLPCVRYGEMYTTYKIKFSKTKSFTSKDV 124

Query: 75  TSTVSIFAKGQILYGKLGPY-----LRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
                      IL    G       L        +           P +     L   + 
Sbjct: 125 FEKCHKIHTNDILMALTGENKWDIALAATYEGTEEIAMGGDLCKFTPINCNSLFLVYLIN 184

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
           S    +       G  + H     +GN+ +P+PPLAEQ  I   I      I+    +  
Sbjct: 185 SPYGIEYKRNTSTGDIIVHTSTTKLGNLLIPLPPLAEQRRIVAAIEKFMPLIEEYGKKET 244

Query: 190 RFIELLKE----KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN 245
           +   + ++     K+A++   V   L P +  + +  + +  +        F       +
Sbjct: 245 QLKAINEKIGTLTKKAILQEAVQGKLVPQIAAEGNARDLLEEIRKEKLSHGFANSYGICS 304

Query: 246 RKNTKLIESNILSLSYGNIIQKL--ETRNMGLKPESYETYQIVDPGEIVF---------- 293
            K  K   S++ S S   + +K   E     +  +  E +     GEI            
Sbjct: 305 EKGKKSKSSDLRSKSQIRVTKKELPEITEDEIPFDIPENWCWCRLGEICKLIDGEKVKEV 364

Query: 294 ---------------RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA---- 334
                            I  +    ++    ++  G  +      K  GI  +       
Sbjct: 365 KLPLLDAKYLRGKKDATIVSEGKVANVNDLLILVDGENSGEVFVNKEKGIMGSTFKQLCI 424

Query: 335 -------WLMRSYDLCKVF--YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
                  ++++  ++ K     +        L  +    L + +PP+ EQ  I   I   
Sbjct: 425 CEKLYLPYILKFIEMHKELLRNSKKGAAIPHLNKDIFFGLLLPLPPLSEQKRIVAAIEKM 484

Query: 386 TARIDVL 392
               + L
Sbjct: 485 LPLCERL 491


>gi|315171543|gb|EFU15560.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX1342]
          Length = 407

 Score = 95.2 bits (235), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 49/400 (12%), Positives = 123/400 (30%), Gaps = 24/400 (6%)

Query: 23  KHWKVVPIKRFTKLNT----GRTSES--GKDIIYIGLEDVESGTGK-YLPKDGNSRQSDT 75
           + W++  +    K       G  +     +   Y+   +++ G          N    + 
Sbjct: 18  EDWELCKLNNIYKKIRNAFVGTATPYYVKEGNFYLESNNIKDGNINQNTKVFINDEFYEK 77

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQ---PKDVLPELLQGWLLSID 132
                     I+  + G     A+I       +   L++     ++  P  L    L+  
Sbjct: 78  QKDKWLETEDIVMVQSGHVGHTAVIPKELNNTAAHALIMFQERKRETNPYFLNYQFLTDT 137

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
             ++++ I  G T+ H     + +  + +   AE+ LI +       ++D  I    R +
Sbjct: 138 SKRKLDMITTGNTIKHILASEMKSFEVFVCESAEENLISDF----FRKLDDTIGLHQRKL 193

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           + LKE K+A +  +         +M+ +  E    +            +    +    + 
Sbjct: 194 DQLKELKKAYLQVMFPAKDETVPRMRFAYFEGEWEL------CKLGDFLIVPPKIKATID 247

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
             + L     N+       +          Y     G+ ++   +  N   ++   ++  
Sbjct: 248 NPSDLMTVKLNLGGVYSGASRDTLSLGSTIYYKRFSGQFIYGKQNFFNGSMAIIPKELHG 307

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI 372
           +            +        ++ R                + +  + ++   +LVP  
Sbjct: 308 KATSGDVPSFDIININKDYLFYFISRKSYWKSKEVEATGTGSKRIHEKTLQNFSILVPLK 367

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
            EQ  I    +    +ID  +   +  +  LK  + S++ 
Sbjct: 368 DEQIRI----STFCEKIDDTITLHQNKLNQLKSLKKSYLQ 403


>gi|282883099|ref|ZP_06291699.1| putative type-1 restriction enzyme specificity protein
           [Peptoniphilus lacrimalis 315-B]
 gi|281297076|gb|EFA89572.1| putative type-1 restriction enzyme specificity protein
           [Peptoniphilus lacrimalis 315-B]
          Length = 397

 Score = 95.2 bits (235), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 45/389 (11%), Positives = 117/389 (30%), Gaps = 27/389 (6%)

Query: 26  KVVPIKRFTK---LNTGRTSE-SGKDIIYIGLEDVESGTGKYLPKDGNSRQ--SDTSTVS 79
           +   +             T +     I YI  ++++ G   +      S+   ++ S   
Sbjct: 14  EWKKLGEICIDKFWVMPTTPKFIQNGIPYITGKNIKDGKIDFDNVKYISQDDYNNISKNR 73

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFL--VLQPKDVLPELLQGWLLSIDVTQRI 137
              K  IL   +G      ++ +             L  K +L +    +     + Q +
Sbjct: 74  DILKNDILVSMIGTIGEIGLVCNSIKFYGQNLYLLRLNKKIILNKFFYHYFSQNKIKQGL 133

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
            +    ++  +     +  + +PIP L  Q  I + +   T  ++ L  E    ++   +
Sbjct: 134 ISKKNSSSQGYIRAGQLEYLEIPIPSLETQEKIVDILDKFTNYVNELQAELQAELQARNK 193

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
           + +     +    L+ +   K S  E      +         + T    K     +   +
Sbjct: 194 QYEYYRDML----LSEEYLNKRSS-ELFIKNNNSITKCKLKDIATITRGKRLVRSDLKEI 248

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
                             +  S +   ++  G              +       E     
Sbjct: 249 GKFPVFQNSLKPLGYYYDRNFSGDKACVISAG-------------AAGVIFYREEDFWAA 295

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFD 377
              + +    I + ++ + + S     +   +       L  ++V+ L +LVP ++ Q  
Sbjct: 296 DDVLVINSDRILNKFIYYFLLSNQ-RLIKTKVRKASVPRLSRDEVENLEILVPSMELQKI 354

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKER 406
           I  V++   + +      + + I   +++
Sbjct: 355 IVKVLDKFQSLVIDTKGLLPKEIEKRQKQ 383



 Score = 67.9 bits (164), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 16/187 (8%), Positives = 60/187 (32%), Gaps = 12/187 (6%)

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK-----PESYETYQIVDPGEI 291
                  +     K I++ I  ++  NI       +           +    + +   +I
Sbjct: 21  ICIDKFWVMPTTPKFIQNGIPYITGKNIKDGKIDFDNVKYISQDDYNNISKNRDILKNDI 80

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCK-VFYAMG 350
           +   I    +   + ++            + +    I + +         + + +     
Sbjct: 81  LVSMIGTIGEIGLVCNSIKFYGQ--NLYLLRLNKKIILNKFFYHYFSQNKIKQGLISKKN 138

Query: 351 SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV----LLKER 406
           S  +  ++   ++ L + +P ++ Q  I ++++  T  ++ L  +++  +       +  
Sbjct: 139 SSSQGYIRAGQLEYLEIPIPSLETQEKIVDILDKFTNYVNELQAELQAELQARNKQYEYY 198

Query: 407 RSSFIAA 413
           R   ++ 
Sbjct: 199 RDMLLSE 205


>gi|270296267|ref|ZP_06202467.1| conserved hypothetical protein [Bacteroides sp. D20]
 gi|270273671|gb|EFA19533.1| conserved hypothetical protein [Bacteroides sp. D20]
          Length = 454

 Score = 95.2 bits (235), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 58/424 (13%), Positives = 124/424 (29%), Gaps = 54/424 (12%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSES-----GKDIIYIGLEDVESGTGKY--LPKDGNSRQ 72
            IP+ W+ V +     +  G   +S       +   + L ++++   K+   P   +   
Sbjct: 30  EIPQGWEWVRLGNIATIIGGYAYKSQDFINSSNNQVLRLGNIKNDFLKHNASPVYISDDL 89

Query: 73  SDTSTVSIFAKGQILYGKLGPYLR-------KAIIADFDGICST--QFLVLQPKDVLPEL 123
           +  +         IL    G   +       K    D +   +     L     +V   +
Sbjct: 90  ATKTDKFRCHLDDILITMTGTRKKRDYFFSYKVEQNDLNYFINQRVGILRFYISEVSMFM 149

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           +        +    +     A   +   + I  + +P+PPL+EQ+ I  KI      ++ 
Sbjct: 150 IYALKAENTLQNVFQYETGTANQGNLGAENIAKVYIPLPPLSEQLRIVSKIKELIPLVEA 209

Query: 184 LITERIRFIELLKE----KKQALVSYIVTK------------------------GLNPDV 215
               +     L         ++++   +                           L  + 
Sbjct: 210 YEQTQNELNTLNTSLNELLCKSILQEAIQGKLVLQVAEEGTAQELLERIRQEKLQLVKEG 269

Query: 216 KMKDSGI--EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNM 273
           K+K S +    +    D+   +   A   E+          ++L L     +   E RN 
Sbjct: 270 KLKKSALTDSVIYKGDDNKYYERINAQTVEIELPFEYPNNWSVLRLKDICQLIDGEKRNG 329

Query: 274 GLKPES------YETYQIVDPGEIVFRFIDLQNDKR--SLRSAQVMERGIITSAYMAVKP 325
                         +   V+ G+ V+   ++       S     V + G + S +  +  
Sbjct: 330 KGICLDAKYLRGKSSATTVEKGKFVYAGDNIILVDGENSGEVFTVPQDGYMGSTFKQLWL 389

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
                         +    +  +        L  E    LP+ +PP +EQ  I   IN  
Sbjct: 390 SSAMWKPYILAFILFYKEDLRNSKRGAAIPHLNKELFYNLPIGIPPYQEQQRIAKRINEL 449

Query: 386 TARI 389
           +  +
Sbjct: 450 SQLL 453



 Score = 61.3 bits (147), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 34/220 (15%), Positives = 74/220 (33%), Gaps = 19/220 (8%)

Query: 218 KDSGIEWVGLVPDHWEVKPFFALVTEL----NRKNTKLIESNILSLSYGNIIQKLETRNM 273
           K    E    +P  WE      + T +     +    +  SN   L  GNI       N 
Sbjct: 21  KCIDEEIPFEIPQGWEWVRLGNIATIIGGYAYKSQDFINSSNNQVLRLGNIKNDFLKHNA 80

Query: 274 GLKPESYE-----TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER----GIITSAYMAVK 324
                S +             +I+      +  +    S +V +      I     +   
Sbjct: 81  SPVYISDDLATKTDKFRCHLDDILITMTGTRKKRDYFFSYKVEQNDLNYFINQRVGILRF 140

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
                S ++ + +++ +  +  +   +G   + +L  E++ ++ + +PP+ EQ  I + I
Sbjct: 141 YISEVSMFMIYALKAENTLQNVFQYETGTANQGNLGAENIAKVYIPLPPLSEQLRIVSKI 200

Query: 383 NVETARIDVLVEKIEQSIVL---LKERR-SSFIAAAVTGQ 418
                 ++   +   +   L   L E    S +  A+ G+
Sbjct: 201 KELIPLVEAYEQTQNELNTLNTSLNELLCKSILQEAIQGK 240


>gi|37680389|ref|NP_934998.1| type I restriction-modification system, endonuclease S subunit
           [Vibrio vulnificus YJ016]
 gi|37199136|dbj|BAC94969.1| type I restriction-modification system, endonuclease S subunit
           [Vibrio vulnificus YJ016]
          Length = 389

 Score = 95.2 bits (235), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 73/395 (18%), Positives = 141/395 (35%), Gaps = 30/395 (7%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRT-SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
            +P+ W++V      K  + R      +  +Y+GLE ++  + K   K            
Sbjct: 5   QLPEGWQMVKFGDIAKHISKRVEPSETELEVYVGLEHLDPDSLKI--KRHGVPSDVAGQK 62

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLV--LQPKDVLPELLQGWLLSIDVTQR 136
            +  KGQI++GK   Y RK  +AD+D ICS   +V    PK VLPE L  ++ S    +R
Sbjct: 63  LLVKKGQIIFGKRRAYQRKVAVADWDCICSAHAMVLEANPKTVLPEFLPVFMQSGYFMER 122

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
             AI EG+      WK +      +PPL  Q     K+IA   +I+       +     +
Sbjct: 123 AIAISEGSLSPTIKWKVLEQQKFSLPPLELQ----SKLIARLSKIENTYDLSCQVENAAR 178

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
              +AL+              K S  + +     +       +  +        + E  +
Sbjct: 179 SLYKALLFATFE---------KSSETKKLKSYIRNISSGKSISAASIP----ADVNEFGV 225

Query: 257 LSLSYGNIIQKLETRNMGLKPESYE-TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
           L +S  N        N  +K +        V   +++    +       +         +
Sbjct: 226 LKVSAVNNGSFNPGENKLVKGDKISLLKNHVMANDLLMSRANTAELVGDVCIVDKTSTKL 285

Query: 316 ITSA--YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVP 370
                 +     +     +L  L+R   L     ++ SG     +++  + +  + V   
Sbjct: 286 FLPDKLWKIEPINEHYKLWLFHLLRFLKLNGTLASLSSGTSGSMKNISQKKLLEIDVG-- 343

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
             ++  +I  V+      ++    +++  + L KE
Sbjct: 344 DSEKAQEIGEVLQSAFLCVESSSMRVKAILELYKE 378



 Score = 55.6 bits (132), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 25/184 (13%), Positives = 69/184 (37%), Gaps = 8/184 (4%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN-IIQKLETRNMGLKPESYETYQI 285
            +P+ W++  F  +   ++++         + +   +     L+ +  G+  +      +
Sbjct: 5   QLPEGWQMVKFGDIAKHISKRVEPSETELEVYVGLEHLDPDSLKIKRHGVPSDVAGQKLL 64

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA--VKPHGIDSTYLAWLMRSYDLC 343
           V  G+I+F        K ++         I ++  M     P  +   +L   M+S    
Sbjct: 65  VKKGQIIFGKRRAYQRKVAVA----DWDCICSAHAMVLEANPKTVLPEFLPVFMQSGYFM 120

Query: 344 KVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
           +   A+  G    ++K++ +++    +PP++ Q  +   ++      D+  +    +  L
Sbjct: 121 ERAIAISEGSLSPTIKWKVLEQQKFSLPPLELQSKLIARLSKIENTYDLSCQVENAARSL 180

Query: 403 LKER 406
            K  
Sbjct: 181 YKAL 184


>gi|158522248|ref|YP_001530118.1| restriction modification system DNA specificity subunit
           [Desulfococcus oleovorans Hxd3]
 gi|158511074|gb|ABW68041.1| restriction modification system DNA specificity domain
           [Desulfococcus oleovorans Hxd3]
          Length = 412

 Score = 94.9 bits (234), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 63/399 (15%), Positives = 130/399 (32%), Gaps = 18/399 (4%)

Query: 33  FTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF--AKGQILYGK 90
                        +    I   ++  G       +  S ++  S         G ++  +
Sbjct: 10  IVDCEHKTAPTQAEGYPSIRTPNIGRGYFLLDGVNRVSEETYRSWTRRAEPKPGDLIMAR 69

Query: 91  LGPYLRKAIIADFDGICSTQ---FLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMS 147
             P    A++      C  Q    +      V P  L   L+   +   I A+  G T+ 
Sbjct: 70  EAPVGNVAMVPAGLRPCLGQRTLLIRPMRSKVFPRYLAYLLIGDQIQNIIHAMTNGVTVP 129

Query: 148 HADWKGIG-NIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYI 206
           H + K +      P+PPL  Q  I   + A    I+  +           E  Q L    
Sbjct: 130 HLNMKDVRSLPLPPLPPLPTQRKIAAILSAYDDLIENNLRRIKILE----EMAQNLYREW 185

Query: 207 VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ 266
             K   P  +        +G +P+ WEV     + + +NR  T   +++  SL       
Sbjct: 186 FVKFRFPGWEKARFVDSPLGKIPEEWEVTTINKVTSYINRGVTPKYDASASSLVVNQKCI 245

Query: 267 KLETRNMGLKPESYETYQ---IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
           +    N+ L  +          V  G+I+     +    R  +  + +    + +    V
Sbjct: 246 RDRKLNLSLARQHKSRVMDDKYVVFGDILINSTGVGTLGRVAQVYEDLNDVTVDTHVSIV 305

Query: 324 KPHGIDSTYLAWL-MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
           +P   D      L +   +        G+  +  L+ + +    +++PP+K +       
Sbjct: 306 RPSNGDGIDFLGLALIDLEPHFESLGAGATGQTELRRDRIGETEIVLPPVKMRKQF---- 361

Query: 383 NVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           + +   +  LV  +      L+  R   +   ++G++D+
Sbjct: 362 SEKVTSLRKLVLNLAARNETLRRTRDLLLPKLISGEVDV 400



 Score = 45.9 bits (107), Expect = 0.012,   Method: Composition-based stats.
 Identities = 32/198 (16%), Positives = 60/198 (30%), Gaps = 9/198 (4%)

Query: 18  IGAIPKHWKVVPIKRFTK-LNTGRTSESG--KDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           +G IP+ W+V  I + T  +N G T +       + +  + +            +  +  
Sbjct: 204 LGKIPEEWEVTTINKVTSYINRGVTPKYDASASSLVVNQKCIRDRKLNLSLARQHKSRVM 263

Query: 75  TSTVSIFAKGQILYGKL--GPYLRKAIIAD--FDGICSTQFLVLQPKDVLPELLQGWLLS 130
                +F  G IL      G   R A + +   D    T   +++P +       G  L 
Sbjct: 264 DDKYVVF--GDILINSTGVGTLGRVAQVYEDLNDVTVDTHVSIVRPSNGDGIDFLGLALI 321

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
                           +      IG   + +PP+  +    EK+ +    +  L      
Sbjct: 322 DLEPHFESLGAGATGQTELRRDRIGETEIVLPPVKMRKQFSEKVTSLRKLVLNLAARNET 381

Query: 191 FIELLKEKKQALVSYIVT 208
                      L+S  V 
Sbjct: 382 LRRTRDLLLPKLISGEVD 399


>gi|269978360|gb|ACZ55914.1| putative type I restriction-modification system specificity subunit
           S [Helicobacter pylori]
          Length = 430

 Score = 94.9 bits (234), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 57/414 (13%), Positives = 127/414 (30%), Gaps = 32/414 (7%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYI--GLEDVESGTG------KYLPKDGNSRQS 73
           PK  +   +    +   G T +  ++I  +  G++ + +          +      ++  
Sbjct: 13  PKGVEFRKLGDIGEYIRGVTYKKNQEINNLECGIKVLRANNITLSNHLNFEDIKVINKNV 72

Query: 74  DTSTVSIFAKGQILY---GKLGPYLRKAIIA--DFDGICSTQFLVLQPKDVLPELLQGWL 128
                    K  IL         ++ K      DFD +      V++ ++V    +    
Sbjct: 73  KIRKEQYLKKNDILICAGSGSSEHIGKVAFINTDFDYVFGGFMGVIRIREVNSRFVYHIF 132

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
            S    Q +E      T+++ +   + N  +PIPPL  Q  I + + A T     L TE 
Sbjct: 133 TSNIFKQYLEKSLNTTTINNLNANILQNFLIPIPPLEIQQEIVKILDAFTELNTELNTEL 192

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKM------KDSGIEWVGLVPDHWEVKPFFALVT 242
               +  +  +  L+ +      + D KM      K        L P   E +    ++ 
Sbjct: 193 KARKKQYEYYQNMLLDFNDINSTHKDAKMSAKPYPKRLKTLLQTLAPKGVEFRKLGEVLE 252

Query: 243 ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK 302
                   +            ++   +T  +G   E    YQ      ++       +  
Sbjct: 253 YDQPNKYCVTSKEFDKSYPTPVLTAGKTFILGYTNEKDNIYQASKSYPVII----FDDFT 308

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDV 362
            + +      +   ++  +    +   +    +         +      G          
Sbjct: 309 TATQWVDFPFKVKSSAMKILFSKNPTINIRFIFFYMQTIPYNI-----GGEHARHWISRY 363

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
            +L V +PP++ Q +I  +++  +     L+  I   I   K+     R   + 
Sbjct: 364 SQLEVPIPPLEIQQEIVKILDQFSILTTDLLAGIPAEIKARKKQYEYYREKLLT 417


>gi|303250871|ref|ZP_07337064.1| hypothetical protein APP6_1996 [Actinobacillus pleuropneumoniae
           serovar 6 str. Femo]
 gi|302650286|gb|EFL80449.1| hypothetical protein APP6_1996 [Actinobacillus pleuropneumoniae
           serovar 6 str. Femo]
          Length = 417

 Score = 94.9 bits (234), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 52/415 (12%), Positives = 111/415 (26%), Gaps = 63/415 (15%)

Query: 42  SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT---STVSIFAKGQILYGKLGPYLRK- 97
            +    I YI  +D     G          + D    S      K  I++ + G      
Sbjct: 5   YKGKNGIPYISPKDFYDKNGIDFANAKKVSEEDYFLLSKKFAPQKNDIIFPRYGTIGVVR 64

Query: 98  AIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNI 157
            I  +   + S     ++ + +  + +  +L S      I+      T  +   K I   
Sbjct: 65  VIEENIKLLVSYSCACIRVEYINMQYVVAYLNSELAKLEIKKYTNKTTQPNVGLKSIKKF 124

Query: 158 PMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ----------------- 200
            +P+PPL EQ  I  KI      I+    +  +   L ++  +                 
Sbjct: 125 IIPLPPLNEQKRIVAKIEELLPYIEQYAEKEEKLTALHQQFPEQLKKSILQAAIQGKLTE 184

Query: 201 ---------ALVSYIVTKGLNPDVKMK--------------------------DSGIEWV 225
                    AL+  I  + L P  + K                              E  
Sbjct: 185 QNPNDEPASALIERIKAEKLRPIAEKKLKKPKVISEIIMRDNLPYEIVNGEERCIADEVP 244

Query: 226 GLVPDHWEVKPFFALVTELNRKNTKLIE---SNILSLSYGNIIQKLET--RNMGLKPESY 280
             +P+ W       +            +      + L  GNI         ++       
Sbjct: 245 FEIPESWVWVRLGEIGETNIGLTYNPSDVASDGTIVLRSGNIQDGKIDVSSDIVKVNLDI 304

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY 340
              +     +++    +         +    +     +     +     + Y+ + + S 
Sbjct: 305 PENKRCYKNDLLICARNGSKKLVGKAAIIDKDGYSFGAFMAIFRSPF--NKYIYYYLSSP 362

Query: 341 DLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
                F  + +     +   ++    + +P + EQ  I   I    + +  L +K
Sbjct: 363 LFRNDFDGINTTTINQITQSNLNNRLIPLPSLNEQLRIVEKIETLFSTLQNLSQK 417



 Score = 83.7 bits (205), Expect = 6e-14,   Method: Composition-based stats.
 Identities = 27/182 (14%), Positives = 66/182 (36%), Gaps = 16/182 (8%)

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIV------DPGEIVFRFIDLQNDK 302
               ++ I  +S  +   K        K  S E Y ++         +I+F         
Sbjct: 4   EYKGKNGIPYISPKDFYDKNGIDFANAKKVSEEDYFLLSKKFAPQKNDIIFPRYGTIGVV 63

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFED 361
           R +       + +++ +   ++   I+  Y+   + S           +   + ++  + 
Sbjct: 64  RVIEENI---KLLVSYSCACIRVEYINMQYVVAYLNSELAKLEIKKYTNKTTQPNVGLKS 120

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL-----KERRSSFIAAAVT 416
           +K+  + +PP+ EQ  I   I      I+    + E+ +  L     ++ + S + AA+ 
Sbjct: 121 IKKFIIPLPPLNEQKRIVAKIEELLPYIEQY-AEKEEKLTALHQQFPEQLKKSILQAAIQ 179

Query: 417 GQ 418
           G+
Sbjct: 180 GK 181



 Score = 64.8 bits (156), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 34/171 (19%), Positives = 56/171 (32%), Gaps = 10/171 (5%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            IP+ W  V +    + N G T           I +   +++ G    +  D      D 
Sbjct: 246 EIPESWVWVRLGEIGETNIGLTYNPSDVASDGTIVLRSGNIQDGKID-VSSDIVKVNLDI 304

Query: 76  STVSIFAKGQILYGKLGPYL---RKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
                  K  +L            KA I D DG  S    +   +    + +  +L S  
Sbjct: 305 PENKRCYKNDLLICARNGSKKLVGKAAIIDKDGY-SFGAFMAIFRSPFNKYIYYYLSSPL 363

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
                + I    T++      + N  +P+P L EQ+ I EKI      +  
Sbjct: 364 FRNDFDGINT-TTINQITQSNLNNRLIPLPSLNEQLRIVEKIETLFSTLQN 413


>gi|295101277|emb|CBK98822.1| Restriction endonuclease S subunits [Faecalibacterium prausnitzii
           L2-6]
          Length = 393

 Score = 94.9 bits (234), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 59/399 (14%), Positives = 125/399 (31%), Gaps = 24/399 (6%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
           P+       +    E    +  I   DV  G      +  NS          F +  ILY
Sbjct: 8   PVGEVCSSISDTYREKKNMVTLINTSDVLEGRVLNHERVPNS-NLKGQFKKTFQRDDILY 66

Query: 89  GKLGPYLRKAIIADF---DGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
            ++ P  R+    DF   D I ST+ +V++ K  +      +    + +   E      T
Sbjct: 67  SEIRPQNRRFAYVDFSPIDYIASTKLMVIRAKKDVVSPKYLYYFLKNSSTVAELQLLAET 126

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
            S    +   +    +      + ++E I+     ++  IT   +  + L+++ Q+    
Sbjct: 127 RSGTFPQITFSEVANLTIPVPSLAVQEVIVQTMQCLEDKITCNEQINDNLEQQAQSYFQE 186

Query: 206 IVTKGLNPDVKMKDS---GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
           +     +P+  +      G    G  P   + + +              I  +       
Sbjct: 187 LFVDNADPEWAIGTISDLGTVVGGSTPSKAKPEYYTESGIAWITPKDLSINKSKFVSHGE 246

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
           N I +L  +N         +  I+  G ++F              A           + +
Sbjct: 247 NDITELGLKN--------SSAAIMPEGTVLFSSRAPIGY-----IAIAAGEVTTNQGFKS 293

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
           V P     T   +      L  +         + +    +K +P ++P  +     ++  
Sbjct: 294 VVPKPEIGTPFVYFFLKNTLPVIEGMASGSTFKEVSGSTMKNVPAVIPDAETLAKFSDF- 352

Query: 383 NVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
               A I      +E+    L   R + +   ++G+ID+
Sbjct: 353 ---CAPIFAQQRILEEQNQSLATLRDNLLPKLMSGEIDV 388



 Score = 54.8 bits (130), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 29/169 (17%), Positives = 54/169 (31%), Gaps = 13/169 (7%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYL---PKDGNSR 71
           P+ W +  I     +  G T    K        I +I  +D+     K++     D    
Sbjct: 194 PE-WAIGTISDLGTVVGGSTPSKAKPEYYTESGIAWITPKDLSINKSKFVSHGENDITEL 252

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
               S+ +I  +G +L+    P      IA  +   +  F  + PK  +      +    
Sbjct: 253 GLKNSSAAIMPEGTVLFSSRAPI-GYIAIAAGEVTTNQGFKSVVPKPEI-GTPFVYFFLK 310

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
           +    IE +  G+T        + N+P  IP         +       +
Sbjct: 311 NTLPVIEGMASGSTFKEVSGSTMKNVPAVIPDAETLAKFSDFCAPIFAQ 359


>gi|17232094|ref|NP_488642.1| type I site-specific deoxyribonuclease chain S [Nostoc sp. PCC
           7120]
 gi|17133739|dbj|BAB76301.1| type I site-specific deoxyribonuclease chain S [Nostoc sp. PCC
           7120]
          Length = 390

 Score = 94.9 bits (234), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 48/391 (12%), Positives = 117/391 (29%), Gaps = 28/391 (7%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
             WK   +     +  G++              + +G  ++  ++    Q       I  
Sbjct: 2   SEWKETTLGEIADIIMGQSPTGETCNNNGQGLPLLNGPTEFGDRNPLPTQFTIDPKKIAE 61

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
            G +L+   G    +   AD           ++ KD +        +     + + A+  
Sbjct: 62  AGDLLFCVRGSTTGRMNWADQKYAIGRGIASIRAKDGILFQPYIRAIIEKELKSLLAVAT 121

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           G+T  +     + N+ + +P    ++ I         +I  L ++      +     Q L
Sbjct: 122 GSTFPNISKDHLLNLIVQLPSKNIKIYISNLARILDEKIYNLRSQNETLEAI----AQTL 177

Query: 203 VSYIVTKGLNPD---VKMKDSGIEW----VGLVPDHWEVKPFFALVTELNR--------K 247
             +       P+      K SG       +G +P+ W V      +   +          
Sbjct: 178 FKHWFIDFEFPNADGKPYKSSGGAMVRSALGYIPEAWSVGKLGQYLNIKHGYAFKGEYIT 237

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK----- 302
                +  +  +++       +++      + Y    ++   ++     DL  +      
Sbjct: 238 TEVTEKILLTPVNFKIGGGFNDSKYKYYSADDYSNEYVLRRKDLAITMTDLSKEGDSLGY 297

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFED 361
            +       +  +       V+ + ID T+L +L+   +         SG   +      
Sbjct: 298 PAFIPDIKGKVFLHNQRIGKVENNNIDKTFLYFLLCRREYRSHILGTSSGSTVRHTSPSR 357

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVL 392
           +     ++P  +    I     + TA ID +
Sbjct: 358 ICEYSFVIPDFEL---IDKFSALATATIDKI 385



 Score = 53.6 bits (127), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 29/174 (16%), Positives = 52/174 (29%), Gaps = 19/174 (10%)

Query: 10  YKDSGV----QWIGAIPKHWKVVPIKRFTKLNTGRTSESG------KDIIYIGLEDVESG 59
           YK SG       +G IP+ W V  + ++  +  G   +         + I +   + + G
Sbjct: 195 YKSSGGAMVRSALGYIPEAWSVGKLGQYLNIKHGYAFKGEYITTEVTEKILLTPVNFKIG 254

Query: 60  TGKYLPKDGNSRQSDTSTVSIFAKGQILYGKL------GPYLRKAIIADFDGIC---STQ 110
            G    K       D S   +  +  +                 A I D  G     + +
Sbjct: 255 GGFNDSKYKYYSADDYSNEYVLRRKDLAITMTDLSKEGDSLGYPAFIPDIKGKVFLHNQR 314

Query: 111 FLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPL 164
              ++  ++    L   L   +    I     G+T+ H     I      IP  
Sbjct: 315 IGKVENNNIDKTFLYFLLCRREYRSHILGTSSGSTVRHTSPSRICEYSFVIPDF 368



 Score = 44.0 bits (102), Expect = 0.043,   Method: Composition-based stats.
 Identities = 17/148 (11%), Positives = 42/148 (28%), Gaps = 7/148 (4%)

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
           N   +   RN      + +  +I + G+++F        + +       +  I       
Sbjct: 37  NGPTEFGDRNPLPTQFTIDPKKIAEAGDLLFCVRGSTTGRMNWA---DQKYAIGRGIASI 93

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
               GI        +   +L  +          ++  + +  L V +P       I   I
Sbjct: 94  RAKDGILFQPYIRAIIEKELKSLLAVATGSTFPNISKDHLLNLIVQLPSKNI--KI--YI 149

Query: 383 NVETARIDVLVEKIEQSIVLLKERRSSF 410
           +     +D  +  +      L+    + 
Sbjct: 150 SNLARILDEKIYNLRSQNETLEAIAQTL 177


>gi|291556519|emb|CBL33636.1| Restriction endonuclease S subunits [Eubacterium siraeum V10Sc8a]
          Length = 373

 Score = 94.9 bits (234), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 65/392 (16%), Positives = 137/392 (34%), Gaps = 36/392 (9%)

Query: 29  PIKRFTKLNTGRTSESGKD-IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
              +    +T +     +D   Y+GLE ++SGT K                 +  KG +L
Sbjct: 5   RFDQIAINSTEKKKPVEEDRFTYLGLEHLDSGTLKVTRFGSEVAPIGE--KLVMHKGDVL 62

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQG--WLLSIDVTQRIEAICEGAT 145
           +GK   Y +K  IA FDGI S   +VL+PK+ + +      ++ S         I  G+ 
Sbjct: 63  FGKRRAYQKKVAIAPFDGIFSAHGMVLRPKENVIDKDFFPLFISSDYFLDAAIKISVGSL 122

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
               +W+ +  +   +P +  Q  + E + +    ++          EL       + S 
Sbjct: 123 SPTINWRDLKELEFELPDMDSQRKLAEVLWSINDTMEAYKKLISATDEL-------VKSQ 175

Query: 206 IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII 265
            +     P    K   ++ +G +                  K    ++ + + +     I
Sbjct: 176 FIDMFGAPLSNEKGWPLKRIGDLFS-----------LISRGKQPSYVDHSSVRVVNQACI 224

Query: 266 QKLETRNMGLKPESYETYQI---VDPGEIVFRFIDLQNDKRSLRSAQVMERGII---TSA 319
                    +K    ++ +    V    I+          R     ++ +  +    +  
Sbjct: 225 YWDRFNFENVKYHDSQSGKKTLPVKKDCILINSTGTGTLGRCNVFPELTDGYVYVVDSHV 284

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYA---MGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
            +  + H +++ +    ++  D+ K  YA    GS  +  L  E +  + ++VPP++ Q 
Sbjct: 285 TVLAESHDVNAYFFKCFLQREDVQKKIYAECVNGSTNQIELSKEKLSDVLLVVPPMERQE 344

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRS 408
                +     + D       Q + L+ +RR 
Sbjct: 345 QFAAFV----RQSDKSKYNASQVMRLIAQRRK 372



 Score = 44.0 bits (102), Expect = 0.046,   Method: Composition-based stats.
 Identities = 19/162 (11%), Positives = 40/162 (24%), Gaps = 11/162 (6%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI-- 80
           K W +  I     L +     S  D   + + +           +        S      
Sbjct: 188 KGWPLKRIGDLFSLISRGKQPSYVDHSSVRVVNQACIYWDRFNFENVKYHDSQSGKKTLP 247

Query: 81  FAKGQILYGKLGP-YLRKAIIAD-----FDGICSTQFLVLQPKDVLPELLQGWLLSID-- 132
             K  IL    G   L +  +       +  +  +   VL     +        L  +  
Sbjct: 248 VKKDCILINSTGTGTLGRCNVFPELTDGYVYVVDSHVTVLAESHDVNAYFFKCFLQREDV 307

Query: 133 -VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
                 E +           + + ++ + +PP+  Q      
Sbjct: 308 QKKIYAECVNGSTNQIELSKEKLSDVLLVVPPMERQEQFAAF 349


>gi|294775385|ref|ZP_06740904.1| type I restriction modification DNA specificity domain protein
           [Bacteroides vulgatus PC510]
 gi|294450767|gb|EFG19248.1| type I restriction modification DNA specificity domain protein
           [Bacteroides vulgatus PC510]
          Length = 370

 Score = 94.9 bits (234), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 61/379 (16%), Positives = 120/379 (31%), Gaps = 21/379 (5%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           +P  W +  I        G           +        T K     G +   D     +
Sbjct: 2   LPDGWCLTDIGELLINRDGERKP-------VSSVIRSKQTSKIYDYYGAAGVIDKVDSYL 54

Query: 81  FAKGQILYGKLGPYL-----RKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
           F +  +L G+ G  L       A  A+     +    VL       + L  ++  +  + 
Sbjct: 55  FDERLLLIGEDGANLLSRSKNNAFFAEGRYWVNNHAHVLDAT---DKNLLDFIAIVINSM 111

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
           +++    G+         +  IP+ +PPLAEQ  I  +I      ID +  ++      +
Sbjct: 112 KLDDYITGSAQPKLSQDNLNKIPIVLPPLAEQQRIIAEIKKWFTLIDQIEQDKADLQTTI 171

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
           +  K  ++   +   L P     +  IE +  +   +                       
Sbjct: 172 ELTKSKILDLAIHGKLIPQDPNDEPAIELLKRINPDFTPCDNGHYTQLPEGWAIC-KMKQ 230

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
           I S++ G   + +ET N                  +      +   K ++ +   +E   
Sbjct: 231 ITSITNGKSQKNVETLNGIYPIYGSGGVIGRANQYLCIAGSTIIGRKGTINNPIFVEEHF 290

Query: 316 IT--SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
               +A+       I   YL +   S+D  K+     S    SL    +  + + +PP K
Sbjct: 291 WNVDTAFGLKANDAILDKYLYYFCLSFDFSKL---DKSTAMPSLTKTSIGNVLIPIPPYK 347

Query: 374 EQFDITNVINVETARIDVL 392
           EQ  I   I++    ++ +
Sbjct: 348 EQERIVAKIDMVLDTMNEI 366



 Score = 61.7 bits (148), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 24/155 (15%), Positives = 52/155 (33%), Gaps = 8/155 (5%)

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME-- 312
            + S+       K+                + D   ++          RS  +A   E  
Sbjct: 24  PVSSVIRSKQTSKIYDYYGAAGVIDKVDSYLFDERLLLIGEDGANLLSRSKNNAFFAEGR 83

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI 372
             +   A++          ++A ++ S  L           +  L  +++ ++P+++PP+
Sbjct: 84  YWVNNHAHVLDATDKNLLDFIAIVINSMKLDDYI---TGSAQPKLSQDNLNKIPIVLPPL 140

Query: 373 KEQFDITNVINVETARIDVLV---EKIEQSIVLLK 404
            EQ  I   I      ID +      ++ +I L K
Sbjct: 141 AEQQRIIAEIKKWFTLIDQIEQDKADLQTTIELTK 175



 Score = 59.8 bits (143), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 34/164 (20%), Positives = 62/164 (37%), Gaps = 16/164 (9%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +P+ W +  +K+ T +  G++ +           +VE+  G Y P  G+      +   
Sbjct: 218 QLPEGWAICKMKQITSITNGKSQK-----------NVETLNGIY-PIYGSGGVIGRANQY 265

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           +   G  + G+ G       + +      T F +     +L + L  + LS D       
Sbjct: 266 LCIAGSTIIGRKGTINNPIFVEEHFWNVDTAFGLKANDAILDKYLYYFCLSFDF----SK 321

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           + +   M       IGN+ +PIPP  EQ  I  KI      ++ 
Sbjct: 322 LDKSTAMPSLTKTSIGNVLIPIPPYKEQERIVAKIDMVLDTMNE 365


>gi|307253723|ref|ZP_07535587.1| Type I restriction enzyme EcoAI specificity protein [Actinobacillus
           pleuropneumoniae serovar 6 str. Femo]
 gi|306858799|gb|EFM90848.1| Type I restriction enzyme EcoAI specificity protein [Actinobacillus
           pleuropneumoniae serovar 6 str. Femo]
          Length = 428

 Score = 94.9 bits (234), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 52/415 (12%), Positives = 111/415 (26%), Gaps = 63/415 (15%)

Query: 42  SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT---STVSIFAKGQILYGKLGPYLRK- 97
            +    I YI  +D     G          + D    S      K  I++ + G      
Sbjct: 16  YKGKNGIPYISPKDFYDKNGIDFANAKKVSEEDYFLLSKKFAPQKNDIIFPRYGTIGVVR 75

Query: 98  AIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNI 157
            I  +   + S     ++ + +  + +  +L S      I+      T  +   K I   
Sbjct: 76  VIEENIKLLVSYSCACIRVEYINMQYVVAYLNSELAKLEIKKYTNKTTQPNVGLKSIKKF 135

Query: 158 PMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ----------------- 200
            +P+PPL EQ  I  KI      I+    +  +   L ++  +                 
Sbjct: 136 IIPLPPLNEQKRIVAKIEELLPYIEQYAEKEEKLTALHQQFPEQLKKSILQAAIQGKLTE 195

Query: 201 ---------ALVSYIVTKGLNPDVKMK--------------------------DSGIEWV 225
                    AL+  I  + L P  + K                              E  
Sbjct: 196 QNPNDEPASALIERIKAEKLRPIAEKKLKKPKVISEIIMRDNLPYEIVNGEERCIADEVP 255

Query: 226 GLVPDHWEVKPFFALVTELNRKNTKLIE---SNILSLSYGNIIQKLET--RNMGLKPESY 280
             +P+ W       +            +      + L  GNI         ++       
Sbjct: 256 FEIPESWVWVRLGEIGETNIGLTYNPSDVASDGTIVLRSGNIQDGKIDVSSDIVKVNLDI 315

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY 340
              +     +++    +         +    +     +     +     + Y+ + + S 
Sbjct: 316 PENKRCYKNDLLICARNGSKKLVGKAAIIDKDGYSFGAFMAIFRSPF--NKYIYYYLSSP 373

Query: 341 DLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
                F  + +     +   ++    + +P + EQ  I   I    + +  L +K
Sbjct: 374 LFRNDFDGINTTTINQITQSNLNNRLIPLPSLNEQLRIVEKIETLFSTLQNLSQK 428



 Score = 83.3 bits (204), Expect = 6e-14,   Method: Composition-based stats.
 Identities = 27/188 (14%), Positives = 67/188 (35%), Gaps = 16/188 (8%)

Query: 243 ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIV------DPGEIVFRFI 296
           +         ++ I  +S  +   K        K  S E Y ++         +I+F   
Sbjct: 9   DHKMPQEYKGKNGIPYISPKDFYDKNGIDFANAKKVSEEDYFLLSKKFAPQKNDIIFPRY 68

Query: 297 DLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQ 355
                 R +       + +++ +   ++   I+  Y+   + S           +   + 
Sbjct: 69  GTIGVVRVIEENI---KLLVSYSCACIRVEYINMQYVVAYLNSELAKLEIKKYTNKTTQP 125

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL-----KERRSSF 410
           ++  + +K+  + +PP+ EQ  I   I      I+    + E+ +  L     ++ + S 
Sbjct: 126 NVGLKSIKKFIIPLPPLNEQKRIVAKIEELLPYIEQY-AEKEEKLTALHQQFPEQLKKSI 184

Query: 411 IAAAVTGQ 418
           + AA+ G+
Sbjct: 185 LQAAIQGK 192



 Score = 64.4 bits (155), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 34/171 (19%), Positives = 56/171 (32%), Gaps = 10/171 (5%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            IP+ W  V +    + N G T           I +   +++ G    +  D      D 
Sbjct: 257 EIPESWVWVRLGEIGETNIGLTYNPSDVASDGTIVLRSGNIQDGKID-VSSDIVKVNLDI 315

Query: 76  STVSIFAKGQILYGKLGPYL---RKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
                  K  +L            KA I D DG  S    +   +    + +  +L S  
Sbjct: 316 PENKRCYKNDLLICARNGSKKLVGKAAIIDKDGY-SFGAFMAIFRSPFNKYIYYYLSSPL 374

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
                + I    T++      + N  +P+P L EQ+ I EKI      +  
Sbjct: 375 FRNDFDGINT-TTINQITQSNLNNRLIPLPSLNEQLRIVEKIETLFSTLQN 424


>gi|167760901|ref|ZP_02433028.1| hypothetical protein CLOSCI_03289 [Clostridium scindens ATCC 35704]
 gi|167661504|gb|EDS05634.1| hypothetical protein CLOSCI_03289 [Clostridium scindens ATCC 35704]
          Length = 487

 Score = 94.9 bits (234), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 61/438 (13%), Positives = 137/438 (31%), Gaps = 51/438 (11%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V I  F K    +      +  Y GL+ +E     +  K   S     + + +   G 
Sbjct: 2   KTVKISSFLKERKIKFKPEVAN--YTGLQRIE--KIDFSGKVYLSPVQTNTDMILVKPGD 57

Query: 86  ILYGKLGPYLRKAIIA----DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
           ++   +        I     D              + +  + L+ +L S    + +    
Sbjct: 58  LVISGINVEKGALAIYTGEEDVLASIHYSAYEFDAEKIDIDYLKWFLKSGIFRKLLLKQT 117

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
                     K    I + +P L +Q  +  +I      I  +  +  +  + ++  +Q 
Sbjct: 118 GRGIKKEIKAKHFLPIEIQLPSLNQQHEVVRQIQGVADYIVEINQQIEQQTKYMEILRQT 177

Query: 202 LVSYIVTKGLNPDVKMKD-------------------------------SGIEWVGLVPD 230
           ++   +   L       +                               S  E   ++P 
Sbjct: 178 ILQQAIEGKLCEQNPSDEPASVLLEKIKAEKERLIVEKKIKKQKTLPPISNAEKPFVLPK 237

Query: 231 HWEVKPFFALVTELNRKNTKLIESNILSLS-------YGNIIQKLETRNMGLKPESYETY 283
            WE      ++ E  R      +    + +         + I  L+         S  +Y
Sbjct: 238 GWEWCRLGEILYEAPRNGYSPPKVERETNTRVLTLTATTSGILDLQHYKYVEDMISESSY 297

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP--HGIDSTYLAWLMRSYD 341
             +  G+++ +  +  +   ++    V+ +G I    M      +  DS Y+ + ++S  
Sbjct: 298 LWIKQGDLLIQRSNSLDYVGTVCLCDVVIKGYIYPDLMMKAKVSNEADSHYIVYYLKSPF 357

Query: 342 LCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
             + F    +G     + +K   V  +P+ +PPI EQ  I   +    A    + +++ Q
Sbjct: 358 ARQYFKDRATGTSNSMKKIKQSVVSEIPIALPPINEQKQIVAKMKELFALNQKMNQELLQ 417

Query: 399 SIVLLKERRSSFIAAAVT 416
           +     +   S +  A +
Sbjct: 418 AKKYASQLMESVLQEAFS 435



 Score = 68.3 bits (165), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 25/141 (17%), Positives = 61/141 (43%), Gaps = 1/141 (0%)

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
           +     +V PG++V   I+++    ++ + +      I  +        ID  YL W ++
Sbjct: 46  TNTDMILVKPGDLVISGINVEKGALAIYTGEEDVLASIHYSAYEFDAEKIDIDYLKWFLK 105

Query: 339 SYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
           S    K+       G+++ +K +    + + +P + +Q ++   I      I  + ++IE
Sbjct: 106 SGIFRKLLLKQTGRGIKKEIKAKHFLPIEIQLPSLNQQHEVVRQIQGVADYIVEINQQIE 165

Query: 398 QSIVLLKERRSSFIAAAVTGQ 418
           Q    ++  R + +  A+ G+
Sbjct: 166 QQTKYMEILRQTILQQAIEGK 186



 Score = 60.2 bits (144), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 27/200 (13%), Positives = 60/200 (30%), Gaps = 13/200 (6%)

Query: 21  IPKHWKVVPIKRFTKL--NTGRTSES---GKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           +PK W+   +          G +        +   + L    SG                
Sbjct: 235 LPKGWEWCRLGEILYEAPRNGYSPPKVERETNTRVLTLTATTSGILDLQHYKYVEDMISE 294

Query: 76  STVSIFAKGQILYGKLGP--YLRKAIIAD--FDGICSTQFLV--LQPKDVLPELLQGWLL 129
           S+     +G +L  +     Y+    + D    G      ++      +     +  +L 
Sbjct: 295 SSYLWIKQGDLLIQRSNSLDYVGTVCLCDVVIKGYIYPDLMMKAKVSNEADSHYIVYYLK 354

Query: 130 SIDVTQRIEAICEG--ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
           S    Q  +    G   +M       +  IP+ +PP+ EQ  I  K+         +  E
Sbjct: 355 SPFARQYFKDRATGTSNSMKKIKQSVVSEIPIALPPINEQKQIVAKMKELFALNQKMNQE 414

Query: 188 RIRFIELLKEKKQALVSYIV 207
            ++  +   +  ++++    
Sbjct: 415 LLQAKKYASQLMESVLQEAF 434


>gi|198284497|ref|YP_002220818.1| restriction modification system DNA specificity protein
           [Acidithiobacillus ferrooxidans ATCC 53993]
 gi|218667678|ref|YP_002427161.1| type I restriction-modification system, S subunit
           [Acidithiobacillus ferrooxidans ATCC 23270]
 gi|198249018|gb|ACH84611.1| restriction modification system DNA specificity domain
           [Acidithiobacillus ferrooxidans ATCC 53993]
 gi|218519891|gb|ACK80477.1| type I restriction-modification system, S subunit
           [Acidithiobacillus ferrooxidans ATCC 23270]
          Length = 418

 Score = 94.9 bits (234), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 56/433 (12%), Positives = 124/433 (28%), Gaps = 61/433 (14%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
             WK   +    +L  G      + +         SG    +   G +   DT   ++  
Sbjct: 3   NEWKECSLGDVIELKRGYDLPQKERL---------SGDVPLVSSSGVT---DTHAKAMVK 50

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
              ++ G+ G   +   +       +T   V   K   P  +  +L  +D     +    
Sbjct: 51  GPGVVTGRYGTLGQVFYVRQNFWPLNTTLYVYDFKGNDPRFISYFLREVDFLVYSDK--- 107

Query: 143 GATMSHADWKGIGNIPMPIPPLA-EQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            A +   +   +    + IP    EQ  I   +     +I+           + +   Q+
Sbjct: 108 -AAVPGLNRNHLHQARVRIPTDPTEQRRIAHILGTLDDKIENNRKTAKTLEAMAQAIFQS 166

Query: 202 LVS-----YIVTKGLNPDVKMKDSGI--------------EWVGLVPDHWEVKPFFALVT 242
                        G +P+   K   +                +G +P+ W V+    +  
Sbjct: 167 WFVDFDPVRAKMAGESPESICKRLKLTPEILDLFPDKLVDSELGEIPEGWVVRSLDNIGN 226

Query: 243 ELNR----KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDL 298
            LN     K     + + L +     ++              E   IV  G+I+F +   
Sbjct: 227 FLNGLALQKFPSKGQDDALPVIKIAQLRSGNLGGADQASCEIEPQYIVHDGDILFSWSGS 286

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWL--MRSYDLCKVFYAMGSGLRQS 356
                          G +      V P      +L +       D  +   A  +     
Sbjct: 287 LECAI-----WSGGTGALNQHLFKVTPKSDYPRWLCYFGVHHFLDFFREIAAGKATTMGH 341

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL-----VEKIEQSIVLLKERRSSFI 411
           ++   +    +  P        +  ++V    +  +     ++ +E+    L   R + +
Sbjct: 342 IQRHHLSDSKLPFPC-------SGTLDVMNKPLSSMFEVMWMKTVEEQ--KLVFLRDTLL 392

Query: 412 AAAVTGQIDLRGE 424
              ++G+I +  E
Sbjct: 393 PKLISGEIRVLDE 405



 Score = 73.3 bits (178), Expect = 7e-11,   Method: Composition-based stats.
 Identities = 36/200 (18%), Positives = 64/200 (32%), Gaps = 15/200 (7%)

Query: 12  DSGVQWIGAIPKHWKVVPIKRFTKLNTG----RTSESGKD--IIYIGLEDVESGTGKYLP 65
           DS    +G IP+ W V  +        G    +    G+D  +  I +  + SG      
Sbjct: 206 DSE---LGEIPEGWVVRSLDNIGNFLNGLALQKFPSKGQDDALPVIKIAQLRSGNLG--- 259

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPEL-L 124
              +    +     I   G IL+   G  L  AI +   G  +     + PK   P    
Sbjct: 260 -GADQASCEIEPQYIVHDGDILFSWSGS-LECAIWSGGTGALNQHLFKVTPKSDYPRWLC 317

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
              +       R  A  +  TM H     + +  +P P      ++ + + +    +   
Sbjct: 318 YFGVHHFLDFFREIAAGKATTMGHIQRHHLSDSKLPFPCSGTLDVMNKPLSSMFEVMWMK 377

Query: 185 ITERIRFIELLKEKKQALVS 204
             E  + + L       L+S
Sbjct: 378 TVEEQKLVFLRDTLLPKLIS 397


>gi|21229940|ref|NP_635857.1| putative restriction modification system specificity subunit
           [Xanthomonas campestris pv. campestris str. ATCC 33913]
 gi|66766816|ref|YP_241578.1| putative restriction modification system specificity subunit
           [Xanthomonas campestris pv. campestris str. 8004]
 gi|21111451|gb|AAM39781.1| putative restriction modification system specificity subunit
           [Xanthomonas campestris pv. campestris str. ATCC 33913]
 gi|66572148|gb|AAY47558.1| putative restriction modification system specificity subunit
           [Xanthomonas campestris pv. campestris str. 8004]
          Length = 430

 Score = 94.9 bits (234), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 46/415 (11%), Positives = 120/415 (28%), Gaps = 41/415 (9%)

Query: 25  WKVVPIKRFTKLNTGRTSE---SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           W++  +  F      R        ++++ +  E       + L +         +   + 
Sbjct: 26  WELKKLSCFLVEQKKRNKNLSFGPQEVLSVSGEHGCVNQIELLGRSYAGVS--LANYHVV 83

Query: 82  AKGQILYGK----LGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV---- 133
             G I+Y K      P+          G+ ST + V +              S D     
Sbjct: 84  ETGDIVYTKSPLKRNPFGIIKENKGKPGVVSTLYAVYRTTVFGNPAFLDHYFSGDYNLNS 143

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
             +                 +    +  P + EQ  I + + +    I   + +      
Sbjct: 144 YLQPIVRKGAKNDMKVSNAAVLAGEVFAPEVEEQKKIADFLTSLDDLISVQVLKVEALKV 203

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEW-----VG---LVPDHWEVKPFFALVTELN 245
                K+ L+  +  +      +++           +G    + D  +   F   +    
Sbjct: 204 ----HKRGLMQELFPREGEASPRLRFPEFSNASGWTLGKASDIIDVLQGYGFPERLQGGR 259

Query: 246 RKNTKLIESNIL--SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDL---QN 300
             N    + + +   +  G I+      ++          +++  G  VF  I      N
Sbjct: 260 EGNFPFYKVSDISACVDAGGILLDKANNHIDADVLEELRAKLMPIGSTVFAKIGEAIRSN 319

Query: 301 DKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFE 360
            +       +++  +     +    H     ++ ++     L +       G+  ++K  
Sbjct: 320 KRAITSRPCLVDNNVAGVKAITGLAHD---RFVYYMWCQIPLIEY----AGGVVPAVKKS 372

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            ++++PV  P   EQ  I + ++   A+    +      +  L+  +   +    
Sbjct: 373 LMEQIPVCYPKFDEQQRIADFLSSLDAK----IAAEFDQLAALRTHKKGLMQQLF 423


>gi|308270631|emb|CBX27243.1| hypothetical protein N47_A12720 [uncultured Desulfobacterium sp.]
          Length = 393

 Score = 94.9 bits (234), Expect = 3e-17,   Method: Composition-based stats.
 Identities = 60/407 (14%), Positives = 133/407 (32%), Gaps = 38/407 (9%)

Query: 25  WKVVPIKRFTKLNTGRT----SESGKDIIYIGLEDVESGTGKY-LPKDGNSRQSDTSTVS 79
           W++V +    +++  +       S   + +  + D+      +   +  N        +S
Sbjct: 8   WELVKLGGICEIDPSKRELADIASDTLVSFAEMADLNEKRPYFNFSRKSNLGVLKKGGLS 67

Query: 80  IFAKGQILYGKLGPYLR------KAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
            F    +L  K+ P          A   +  G  ST+F VL+   + P LL   + S   
Sbjct: 68  YFKDADVLLAKMTPCFENGKSGLVAGCLNGIGFGSTEFFVLRGVKIDPYLLYSIISSDFF 127

Query: 134 TQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
               + +  G T         + N  +P+PPL EQ  I     +    I+ +  +     
Sbjct: 128 IDSGKLMMLGTTGRKRLMKDFVANYQIPLPPLEEQKQIAALFQSIETAIEQVEVQEKNLQ 187

Query: 193 ELLKEKKQALVSYI--VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
            L  +    L S     T  LN +   K                  F  +   ++ +   
Sbjct: 188 NLKNQLLCELFSEALQFTNYLNKNDFEK----------------IKFEKIALNISERVEP 231

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPES-YETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
              +    +   ++           KP+    T   +  G+I+F        K ++    
Sbjct: 232 QKTTLDTYVGLEHLDPDNLVIARTGKPDDVIGTKLKIYKGDIIFGKRRAYQRKVAVSHFD 291

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVL 368
            +      S  +      I+  +L + M+S         +  G    ++K++ +     +
Sbjct: 292 GI--ASAHSMILRANEKYIEKEFLPFFMQSDVFMNRAVQISEGSLSPTIKWKTLAAQEFI 349

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           +P  ++Q +    +     + D   ++++Q    LK  +   ++  +
Sbjct: 350 LPKKEKQKE----LTKLFKQFDTTRDQLKQQKTTLKNLKQKLLSEIL 392



 Score = 72.5 bits (176), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 21/136 (15%), Positives = 51/136 (37%), Gaps = 8/136 (5%)

Query: 285 IVDPGEIVFRFIDLQ--NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
                +++   +     N K  L +  +   G  ++ +  ++   ID   L  ++ S   
Sbjct: 68  YFKDADVLLAKMTPCFENGKSGLVAGCLNGIGFGSTEFFVLRGVKIDPYLLYSIISSDFF 127

Query: 343 CK--VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
                   +G+  R+ L  + V    + +PP++EQ  I          I+  +E++E   
Sbjct: 128 IDSGKLMMLGTTGRKRLMKDFVANYQIPLPPLEEQKQIA----ALFQSIETAIEQVEVQE 183

Query: 401 VLLKERRSSFIAAAVT 416
             L+  ++  +    +
Sbjct: 184 KNLQNLKNQLLCELFS 199


>gi|255262928|ref|ZP_05342270.1| restriction modification system DNA specificity domain protein
           [Thalassiobium sp. R2A62]
 gi|255105263|gb|EET47937.1| restriction modification system DNA specificity domain protein
           [Thalassiobium sp. R2A62]
          Length = 380

 Score = 94.9 bits (234), Expect = 3e-17,   Method: Composition-based stats.
 Identities = 60/397 (15%), Positives = 123/397 (30%), Gaps = 38/397 (9%)

Query: 32  RFTKLNTGRTSESGKDIIYIGLEDVESGTG-KYLPKDGNSRQSDTSTVSIFAKGQILYGK 90
               +  G        I       V       +          D  T+   +K  I+  +
Sbjct: 11  EVCDIQGGTQPPKSTFIDEPTDGYVRLLQIQDFKTDKKAVFVPDKQTLKKCSKNDIMIAR 70

Query: 91  LGPYLRKAIIADFDGICSTQFLVLQP--KDVLPELLQGWLLSIDVTQRIEAICEGATMSH 148
            G  L K  ++  +G  +   +   P  + +       +L +      I  +   A  + 
Sbjct: 71  YGASLGKI-LSGLEGAYNVALVKTIPDLERLDRAYFAHFLRANAFQSFILNLGGRAAQAG 129

Query: 149 ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVT 208
            +   +  I +P+PPL EQ  I   +               R   L     QA+   +  
Sbjct: 130 FNKADLERIKIPLPPLEEQKRIAGILDQADALRRLRTRALDRLNTLG----QAIFHEMFG 185

Query: 209 KGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKL 268
              +P        +  +G V            V +    + K +E+    L+  N    +
Sbjct: 186 ---DPTHNF---SLATLGEV----------CDVRDGTHDSPKYVETGYPLLTSKNFSTGV 229

Query: 269 ETRNMGLKPESYETYQIVDP------GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
            + + G K  S E Y  ++       G+IV   I        +   +     I   A + 
Sbjct: 230 LSFD-GAKSISEEDYFKINKRSKVDLGDIVMPMIGTIGSPVVI--EEEAAFAIKNVALIK 286

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
                  ++++  L+    L ++    G  G ++ +   D+++L   +PP ++Q      
Sbjct: 287 FVEGSPKASFIQTLLSGVYLERIVKTQGRGGTQKFVSLGDLRKLQFPLPPKEQQEAF--- 343

Query: 382 INVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
                + I     K+   +   +   +S    A  G+
Sbjct: 344 -EGLISEIKKQKSKLCNLVTTQETLFASLQHRAFRGE 379


>gi|257417155|ref|ZP_05594149.1| type I restriction endonuclease S subunit domain-containing protein
           [Enterococcus faecalis AR01/DG]
 gi|257158983|gb|EEU88943.1| type I restriction endonuclease S subunit domain-containing protein
           [Enterococcus faecalis ARO1/DG]
          Length = 379

 Score = 94.5 bits (233), Expect = 3e-17,   Method: Composition-based stats.
 Identities = 49/398 (12%), Positives = 114/398 (28%), Gaps = 37/398 (9%)

Query: 28  VPIKRFTKLNTGRTSESGKDII------YIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
              +R  +     +     +        YI   D+ +     + ++ N         ++ 
Sbjct: 2   CKFERIVEKLKSYSLSREVETNEFTGMKYIHYGDIHTKKADKVSENSNIPNIIKKNYALL 61

Query: 82  AKGQILYGKLGPYLRKAI-------IADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
             G ++        +             FD +     + L+PK++ P  L   + +    
Sbjct: 62  EIGDLILTDASEDYKGIATPAVIRENTSFDIVAGLHTIALRPKNIDPMFLYYLIKAPTFR 121

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           +    +  G  +       + +    IP   E  L+   +      +D    +  +  EL
Sbjct: 122 KYGYKVGTGMKVFGISSSKVLDFTTYIPKNDETKLVSSFLEKIDYALDLHQRKLDQLKEL 181

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
            K   Q  + + V     P ++  D   EW     +    K     +     K       
Sbjct: 182 KKAYLQ--LMFPVKDERVPKLRFADFEEEWEQCKLEDLANKYNNLRIPITASKRIYGNTP 239

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
              +    + ++                      GE +    D  ++ +      V  + 
Sbjct: 240 YYGANGIQDFVEGYT-----------------HDGEFILVAEDGASNLKDYPVQYVNGKV 282

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKE 374
            + +    ++          +LM +     +   +  G R  L  E +  L +  P   E
Sbjct: 283 WVNNHAHVLQAKR-SKADNKFLMNAIKSINIEPFLVGGGRSKLNSEVMMNLEINTPSKDE 341

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           Q  I    +    ++D +    +  +  LK  + S++ 
Sbjct: 342 QLKI----STLCKQLDDITALYQNKLNQLKNLKKSYLQ 375


>gi|283796717|ref|ZP_06345870.1| putative type I restriction modification DNA specificity domain
           protein [Clostridium sp. M62/1]
 gi|291075601|gb|EFE12965.1| putative type I restriction modification DNA specificity domain
           protein [Clostridium sp. M62/1]
          Length = 436

 Score = 94.5 bits (233), Expect = 3e-17,   Method: Composition-based stats.
 Identities = 76/430 (17%), Positives = 146/430 (33%), Gaps = 42/430 (9%)

Query: 23  KHWKVVPIKRFTK-LNTGRTSESGKDIIYIGLEDV------ESGTGKYLPKDGNSRQSD- 74
             W+++      K LNTG    +   + +  L+ +      + GT  +   D    Q+  
Sbjct: 10  NGWQILKFSECIKQLNTGLNPRNHFSLGHGSLKYITAKNLTQFGTIDFSKCDFIDEQAKR 69

Query: 75  -TSTVSIFAKGQILYGKLGPYLRKAIIA----DFDGICSTQFLVLQPKDVLPELLQGWLL 129
                S    G IL+    P     +I     D+D   S   + +  K +LP+ L  ++ 
Sbjct: 70  IIHRRSDIQVGDILFSSRAPIGHCHLICEKPDDYDIGESIFSIRVNRKIILPDYLCLYMA 129

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
           S    +       G+ +       + +  + +PP+ EQ  I E       +ID  I    
Sbjct: 130 SDYFVRMASLHTTGSIIQEIRISDLMDTDVILPPMNEQRRIAEC----FKKIDRKIALNN 185

Query: 190 RFIELLKEKKQALVSYIVTKGLNPD---VKMKDSGIEWVG------LVPDHWEVKPFFAL 240
           +  + L ++ + L  Y  T+   PD      + SG + V        +P  W        
Sbjct: 186 KINDNLAQQLRLLYDYWFTQFDFPDESGKPYRSSGGQMVWSDDAKKEIPASWNSTKMSDA 245

Query: 241 VTE-----LNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDP------G 289
           +         R N KL    I  ++  N+         G          IV        G
Sbjct: 246 IEGIRTGLNPRDNFKLGSGTIKYITVKNLRSDGILDFSGCDTIDETARAIVHRRSDVCTG 305

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
           +I+F  I        ++          +   +      +   YL   ++S    K   A 
Sbjct: 306 DILFASIAPLGRCHLVQELPQDWDINESVFSIRCNKATVTPEYLYMHLQSEAFVKESTAC 365

Query: 350 GSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
            +G + + ++   +    +L+PP+     + +  + +T  +  L  K+ + I  L + R 
Sbjct: 366 STGSVFKGIRINTLLDSRMLLPPM----QVVDKFSQQTKPLFSLQYKLNKEIQALTQLRD 421

Query: 409 SFIAAAVTGQ 418
             +   + GQ
Sbjct: 422 WLLPMLMNGQ 431



 Score = 37.5 bits (85), Expect = 4.7,   Method: Composition-based stats.
 Identities = 35/208 (16%), Positives = 67/208 (32%), Gaps = 25/208 (12%)

Query: 20  AIPKHWKVVPIKRFTK-LNTGRTSESG-----KDIIYIGLEDVESGTGKYLPKDGNSRQS 73
            IP  W    +    + + TG             I YI ++++ S               
Sbjct: 232 EIPASWNSTKMSDAIEGIRTGLNPRDNFKLGSGTIKYITVKNLRSDGILDFSGCDTI--- 288

Query: 74  DTSTVSIFAK------GQILYGKLGPYLRKAII----ADFDGICSTQFLVLQPKDVLPEL 123
           D +  +I  +      G IL+  + P  R  ++     D+D   S   +      V PE 
Sbjct: 289 DETARAIVHRRSDVCTGDILFASIAPLGRCHLVQELPQDWDINESVFSIRCNKATVTPEY 348

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLA------EQVLIREKIIAE 177
           L   L S    +   A   G+         + +  M +PP+       +Q      +  +
Sbjct: 349 LYMHLQSEAFVKESTACSTGSVFKGIRINTLLDSRMLLPPMQVVDKFSQQTKPLFSLQYK 408

Query: 178 TVRIDTLITERIRFIELLKEKKQALVSY 205
             +    +T+   ++  +    QA +S 
Sbjct: 409 LNKEIQALTQLRDWLLPMLMNGQATISD 436


>gi|317051875|ref|YP_004112991.1| restriction modification system DNA specificity domain
           [Desulfurispirillum indicum S5]
 gi|316946959|gb|ADU66435.1| restriction modification system DNA specificity domain
           [Desulfurispirillum indicum S5]
          Length = 527

 Score = 94.5 bits (233), Expect = 3e-17,   Method: Composition-based stats.
 Identities = 50/412 (12%), Positives = 125/412 (30%), Gaps = 36/412 (8%)

Query: 28  VPIKRFTKLNTG-RTSESGK----DIIYIG---LEDVESGTGKYLPKDGNSRQSDTSTVS 79
           VPI     +  G    +  +     I ++    LED+ +G  +   +   ++ +    + 
Sbjct: 4   VPISSIADVTAGQGAPKPDEFSDSGIPFVRAGSLEDLLAGKSESDLELVPAQTAKKRKLK 63

Query: 80  IFAKGQILYGKLG--PYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
           ++ KG IL+ K G      +  +        +   +L PK     + + +L         
Sbjct: 64  LYPKGSILFAKSGMSATKDRIYVLQNPAHVVSHLAILTPK---DNVYRDYLRLALKQFPP 120

Query: 138 EAICEGATMSHADWKGIGNIPMPIPP-LAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
            ++ +           I +  +P+P  + +Q  I   +      I        +  +L  
Sbjct: 121 SSLIKDPAYPAIGLGEIQSYEIPVPEEIDDQKRIAHLLGKVEGLIARRKQHLQQLDDL-- 178

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
                L S  +    +P    K    + +G          F +           +  +N+
Sbjct: 179 -----LKSVFLEMFGDPVRNEKGWEKDRIGRSTKVQGGFAFKSKDLVTKGNVRLVKIANV 233

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR----SAQVME 312
              +        +   +            +  G+++            +       +   
Sbjct: 234 HFENLIW----DDVTFVPNHFIEDYIRFALSEGDLLIALTRPIIKSLDVVKTATVREADL 289

Query: 313 RGIITSAYMAVKPHG--IDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLV 369
             ++             I+  +      +         +   GL+ ++    ++ +P+  
Sbjct: 290 PCLLNQRVARFVFDKAAINKRFFLQYCYTSFFKNTVDKLCPPGLQPNISTNQIEDIPIYY 349

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           PPI  Q     ++     +++ L    +QS+  L+    +    A  G++DL
Sbjct: 350 PPIDLQNQFATIVE----KVEGLKSHYQQSLTDLESLYGALSQKAFKGELDL 397



 Score = 46.7 bits (109), Expect = 0.006,   Method: Composition-based stats.
 Identities = 28/207 (13%), Positives = 59/207 (28%), Gaps = 22/207 (10%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGK-----DIIYIGLEDVESGTGKYLPKDG--NSRQSDT 75
           K W+   I R TK+  G   +S       ++  + + +V      +       N    D 
Sbjct: 195 KGWEKDRIGRSTKVQGGFAFKSKDLVTKGNVRLVKIANVHFENLIWDDVTFVPNHFIEDY 254

Query: 76  STVSIFAKGQILYGKLGPYLR--------KAIIADFDGICSTQF--LVLQPKDVLPELLQ 125
              ++ ++G +L     P ++            AD   + + +    V     +      
Sbjct: 255 IRFAL-SEGDLLIALTRPIIKSLDVVKTATVREADLPCLLNQRVARFVFDKAAINKRFFL 313

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
            +  +      ++ +C      +     I +IP+  PP+  Q      +           
Sbjct: 314 QYCYTSFFKNTVDKLCPPGLQPNISTNQIEDIPIYYPPIDLQNQFATIVEKVEGLKSHYQ 373

Query: 186 TERIRFIELLKEKKQALVSYIVTKGLN 212
                   L      AL        L+
Sbjct: 374 QSLTDLESLYG----ALSQKAFKGELD 396


>gi|3057070|gb|AAC38352.1| HsdS subunit [Lactococcus lactis]
          Length = 395

 Score = 94.5 bits (233), Expect = 3e-17,   Method: Composition-based stats.
 Identities = 56/398 (14%), Positives = 129/398 (32%), Gaps = 45/398 (11%)

Query: 20  AIPK--------HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDV----ESGTGKYLPKD 67
            +P+         W+   +   + +  G T  +     + G  D     E G   Y+ K 
Sbjct: 11  KVPELRFKGFTNDWEERKLGELSNIVGGGTPSTSNPEYWDGDIDWYAPAEIGEQSYVSKS 70

Query: 68  GNSRQS---DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELL 124
             +        S+  I   G +L+         AI+A      +  F  + P     +  
Sbjct: 71  KKTITELGLKKSSARILPVGTVLFTSRAGIGNTAILAKE-ATTNQGFQSIVPDQNKLDSY 129

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
             +  + ++ +  E    G+T      K +  + + +P L+EQ  I          +D  
Sbjct: 130 FIFSRTNELKRYGEVTGAGSTFVEVSGKQMSKMSIMVPELSEQQKIGNF----FKELDNT 185

Query: 185 ITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTEL 244
           I    R ++LLKE+K+  +  +  K      +++ +G        D WE +    +    
Sbjct: 186 IALHQRKLDLLKEQKKGYLQKMFPKNGAKVPELRFAG------FADDWEERKLGDITKIS 239

Query: 245 NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
             K      + + +  Y      ++   + +      +  I   G  V       N   +
Sbjct: 240 TGK--LDANAMVENGKYDFYTSGIKKYRIDVAAFEGPSITIAGNGATVGYMHLADNKFNA 297

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKR 364
            +   V++  ++  +++  +                   K+     +G    +  + +  
Sbjct: 298 YQRTYVLQEFLVDRSFIFSEIGNKLP------------KKIKQEARTGNIPYIVMDMLTE 345

Query: 365 LPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIV 401
           L + +P    EQ  I +       ++D  +   ++ + 
Sbjct: 346 LKLSIPQNNSEQQKIGSF----FKQLDDTIALHQRKLA 379



 Score = 75.6 bits (184), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 21/167 (12%), Positives = 59/167 (35%), Gaps = 6/167 (3%)

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
           N +  + +I   +    I +    +   K  +    +      +    +   +      +
Sbjct: 45  NPEYWDGDIDWYAPA-EIGEQSYVSKSKKTITELGLKKSSARILPVGTVLFTSRAGIGNT 103

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLP 366
           A + +       + ++ P            R+ +L +     G+G     +  + + ++ 
Sbjct: 104 AILAKEATTNQGFQSIVPDQNKLDSYFIFSRTNELKRYGEVTGAGSTFVEVSGKQMSKMS 163

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           ++VP + EQ  I N        +D  +   ++ + LLKE++  ++  
Sbjct: 164 IMVPELSEQQKIGNF----FKELDNTIALHQRKLDLLKEQKKGYLQK 206


>gi|120601902|ref|YP_966302.1| restriction modification system DNA specificity subunit
           [Desulfovibrio vulgaris DP4]
 gi|120562131|gb|ABM27875.1| restriction modification system DNA specificity domain
           [Desulfovibrio vulgaris DP4]
          Length = 595

 Score = 94.5 bits (233), Expect = 3e-17,   Method: Composition-based stats.
 Identities = 69/490 (14%), Positives = 141/490 (28%), Gaps = 88/490 (17%)

Query: 9   QYKDSGVQWIGAIP-----KHWKVVPIKRFTKLNTG-----RTSESGKDIIYIGLEDVES 58
            YK   +   G  P      HWK V +     +  G     +     + I  I + D+  
Sbjct: 4   SYKPIEIVKEGKNPLLGKADHWKRVYVSEIAMVQNGFAFKSKFFSRDEGIPLIRIRDI-- 61

Query: 59  GTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKD 118
                  +  +          +   G +L G  G ++  A     +G+ + +   +  + 
Sbjct: 62  ----LSAETEHKYFGQFDKEYLVHNGDLLIGMDGDFV-AAYWPGKEGLLNQRVCRIVIES 116

Query: 119 VLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
              +    +L        I       T+ H   K +  IP+P+PPL EQ  I  KI    
Sbjct: 117 ENYDKKFFFLALQPYLDAIHEKTSSVTVKHLSSKTVNEIPLPLPPLNEQNRIVAKIEELF 176

Query: 179 VRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFF 238
             +D  +    +  E L   +Q+L+ +     L    + +++     G        K   
Sbjct: 177 SELDAGVENLTKAKEQLGVYRQSLLKHAFEGKLTEAWRKRNADKLESGEALLKRVKKERE 236

Query: 239 ALVTELNRKNTKLIESN------------------------------------ILSLSYG 262
               +   +  K +                                        +    G
Sbjct: 237 EYFKKQLEQWEKDVAQWEADGKPGKKPTQPKKPKKLAPISEEELKELPELPEGWVWARLG 296

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME---------- 312
           N+I             + +   ++    IV   ID  + K +  S    E          
Sbjct: 297 NLIDPPAYGTSRKSDYNIDGTGVLRIPNIVDGKIDSSDLKYTAFSPGEEEQYRLKAGDLL 356

Query: 313 ----RGIITSAYMAVKPHGIDSTYLA--WLMR-----------------SYDLCKVFYAM 349
                G ++           D+ Y+   +L+R                 S  L     + 
Sbjct: 357 TIRSNGSVSLVGQCALIEDDDTRYVYAGYLIRLRTIGLLVSKFLLYCLSSLRLRNQIESK 416

Query: 350 GSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
                   ++  +++  L V +    EQ +++ ++    +        IE  +  ++  +
Sbjct: 417 AKSTSGVNNINSQELSSLIVPLCSQLEQNEVSKLLADSLSTAGEQTSMIEIQLEHIRILK 476

Query: 408 SSFIAAAVTG 417
            S +  A +G
Sbjct: 477 QSILDKAFSG 486



 Score = 93.7 bits (231), Expect = 5e-17,   Method: Composition-based stats.
 Identities = 22/140 (15%), Positives = 51/140 (36%), Gaps = 6/140 (4%)

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM-R 338
           ++   +V  G+++            + +    + G++      +     +     + +  
Sbjct: 74  FDKEYLVHNGDLLIGMDGD-----FVAAYWPGKEGLLNQRVCRIVIESENYDKKFFFLAL 128

Query: 339 SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
              L  +     S   + L  + V  +P+ +PP+ EQ  I   I    + +D  VE + +
Sbjct: 129 QPYLDAIHEKTSSVTVKHLSSKTVNEIPLPLPPLNEQNRIVAKIEELFSELDAGVENLTK 188

Query: 399 SIVLLKERRSSFIAAAVTGQ 418
           +   L   R S +  A  G+
Sbjct: 189 AKEQLGVYRQSLLKHAFEGK 208


>gi|289524551|ref|ZP_06441405.1| type I restriction-modification system specificity determinant
           [Anaerobaculum hydrogeniformans ATCC BAA-1850]
 gi|289502210|gb|EFD23374.1| type I restriction-modification system specificity determinant
           [Anaerobaculum hydrogeniformans ATCC BAA-1850]
          Length = 113

 Score = 94.5 bits (233), Expect = 3e-17,   Method: Composition-based stats.
 Identities = 24/69 (34%), Positives = 36/69 (52%)

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAA 414
           Q+L         V  PP+ EQ  I   ++ +TA+ID  +      I LL+E R+  IA  
Sbjct: 1   QNLDSRTYLSELVAFPPLPEQTAIVEYLDTQTAKIDAAISAARSEIDLLREYRTRLIADV 60

Query: 415 VTGQIDLRG 423
           VTG++D+R 
Sbjct: 61  VTGKVDVRE 69


>gi|307259764|ref|ZP_07541484.1| Type I restriction-modification system S subunit [Actinobacillus
           pleuropneumoniae serovar 11 str. 56153]
 gi|306866154|gb|EFM98022.1| Type I restriction-modification system S subunit [Actinobacillus
           pleuropneumoniae serovar 11 str. 56153]
          Length = 427

 Score = 94.5 bits (233), Expect = 3e-17,   Method: Composition-based stats.
 Identities = 52/431 (12%), Positives = 117/431 (27%), Gaps = 67/431 (15%)

Query: 27  VVPIKRFTKLNTG------RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT---ST 77
            V ++   +  +       +  +    I YI  +D     G          + D    S 
Sbjct: 2   WVRLEDVCQEISDIDHKMPQEYKGKNGIPYISPKDFYDKNGIDFANAKKVSEEDYFLLSK 61

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGI-CSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
                K  I++ + G      II +   +  S     ++ + +  + +  +L S      
Sbjct: 62  KFAPQKNDIIFPRYGTIGVVRIIEENIKLLVSYSCACIRVEYINMQYVVAYLNSELAKLE 121

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           I+      T  +   K I    +P+PPL EQ  I  KI      I+    +  +   L +
Sbjct: 122 IKKYTNKTTQPNVGLKSIKKFIIPLPPLNEQKRIVAKIEELLPYIEQYAEKEEKLTALHQ 181

Query: 197 EKK----QALVSYIVTKGLNPDVKM----------------------------------- 217
           +      ++++   +   L                                         
Sbjct: 182 QFPEQLKKSILQAAIQGKLTEQNPNDEPASALIERIKAEKLRLIAEKKLKKPKVISEIIM 241

Query: 218 -------------KDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
                        +    E    +P+ W       +      ++             G  
Sbjct: 242 RDNLPYEIVNGKERCIADEVPFEIPESWVWVRLSEISKITMGQSPDNK----YLGKEGIE 297

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
             + ++       ES + Y  +         I L                 I     +++
Sbjct: 298 FHQGKSFFSEYIIESSDIYCSLPNKLATPNSILLCVRAPVGIVNITNRELCIGRGLASIE 357

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
              +++ +L + +  Y              +++  + +    + +PP+ EQ  I   I  
Sbjct: 358 SIYVNTIFLYYALFCYKNY-YERKSTGSTFKAISKDIIDNTIIPIPPLNEQIRIVEKIET 416

Query: 385 ETARIDVLVEK 395
             + +  L +K
Sbjct: 417 LFSTLQNLSQK 427



 Score = 81.0 bits (198), Expect = 3e-13,   Method: Composition-based stats.
 Identities = 27/188 (14%), Positives = 67/188 (35%), Gaps = 16/188 (8%)

Query: 243 ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIV------DPGEIVFRFI 296
           +         ++ I  +S  +   K        K  S E Y ++         +I+F   
Sbjct: 16  DHKMPQEYKGKNGIPYISPKDFYDKNGIDFANAKKVSEEDYFLLSKKFAPQKNDIIFPRY 75

Query: 297 DLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQ 355
                 R +       + +++ +   ++   I+  Y+   + S           +   + 
Sbjct: 76  GTIGVVRIIEENI---KLLVSYSCACIRVEYINMQYVVAYLNSELAKLEIKKYTNKTTQP 132

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL-----KERRSSF 410
           ++  + +K+  + +PP+ EQ  I   I      I+    + E+ +  L     ++ + S 
Sbjct: 133 NVGLKSIKKFIIPLPPLNEQKRIVAKIEELLPYIEQY-AEKEEKLTALHQQFPEQLKKSI 191

Query: 411 IAAAVTGQ 418
           + AA+ G+
Sbjct: 192 LQAAIQGK 199



 Score = 59.0 bits (141), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 35/167 (20%), Positives = 57/167 (34%), Gaps = 10/167 (5%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT---S 76
            IP+ W  V +   +K+  G++ ++     Y+G E +E   GK    +     SD     
Sbjct: 264 EIPESWVWVRLSEISKITMGQSPDNK----YLGKEGIEFHQGKSFFSEYIIESSDIYCSL 319

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
              +     IL     P      I + +         ++   V    +  +         
Sbjct: 320 PNKLATPNSILLCVRAPV-GIVNITNRELCIGRGLASIESIYVN--TIFLYYALFCYKNY 376

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
            E    G+T        I N  +PIPPL EQ+ I EKI      +  
Sbjct: 377 YERKSTGSTFKAISKDIIDNTIIPIPPLNEQIRIVEKIETLFSTLQN 423


>gi|18765810|gb|AAL78768.1|AF326617_1 HP790-like protein [Helicobacter pylori]
          Length = 409

 Score = 94.5 bits (233), Expect = 3e-17,   Method: Composition-based stats.
 Identities = 56/403 (13%), Positives = 128/403 (31%), Gaps = 30/403 (7%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           PK      +        G++    K + +  +  +  G       +  +R  +       
Sbjct: 13  PKGVGFRKLGEVCDFQKGKSITK-KAVTFGKVPVISGGRQPAYYHNEANRIGE------- 64

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
               I     G Y       D     +  F V  PK         +         I A  
Sbjct: 65  ---TIAISSSGVYAGYVSYWDIPVFLADSFSVS-PKQKTLMPKYLFYYLTTQQDAIHATK 120

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
               + H   K + N  +PIPPL  Q  I + + A T     L TE    +   K++ Q 
Sbjct: 121 SAGGIPHVYSKDLQNFLIPIPPLEIQQEIVKILDAFTELNTELNTELNTELNARKKQYQY 180

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFAL------VTELNRKNTKLIESN 255
             + ++    N   +      E +   P    +K                 +  +++++ 
Sbjct: 181 YQNMLLD--FNDINQSHKDAKERLVQKPYPKRLKTLLQTLAPKGVGFRKLGEVCEILDNR 238

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK--RSLRSAQVMER 313
            + ++       +         + Y    I D   ++        +K    + +    + 
Sbjct: 239 RIPIAKNKRNPGIYPYYGANGIQDYIDSYIFDGDFVLVGEDGSVINKDNTPVVNWASGKI 298

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
            +   A++    + +   +L + +++ D+        +G    +  E++K++ + +PP++
Sbjct: 299 WVNNHAHVLQTKNELKLKFLYFYLQTIDV----SYCVAGTPPKINQENLKKITIPIPPLE 354

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
            Q +I  +++  +     L+  I   I   K+     R   + 
Sbjct: 355 IQQEIVKILDQFSILTTDLLAGIPAEIKARKKQYEYYREKLLT 397


>gi|108563257|ref|YP_627573.1| HP0790-like protein [Helicobacter pylori HPAG1]
 gi|107837030|gb|ABF84899.1| HP0790-like protein [Helicobacter pylori HPAG1]
          Length = 412

 Score = 94.5 bits (233), Expect = 3e-17,   Method: Composition-based stats.
 Identities = 53/389 (13%), Positives = 122/389 (31%), Gaps = 27/389 (6%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
             +        G++    K + +  +  +  G       +  +R  +           I 
Sbjct: 19  RKLGEVCDFQKGKSITK-KAVTFGKVPVISGGRQPAYYHNEANRSGE----------TIA 67

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMS 147
               G Y       D     +  F V  PK         +         I A      + 
Sbjct: 68  ISSSGVYAGYVSYWDIPVFLADSFSVS-PKQKTLMPKYLFHYLTTQQDAIHATKSTGGIP 126

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
           H   K + N  +PIPPL  Q  I + + A T     L TE    +      ++    Y  
Sbjct: 127 HVYSKDLQNFLIPIPPLEIQQEIVKILDAFTELNTELNTELNTELNTELNARKKQYQYYQ 186

Query: 208 TKGLN------PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
              L+           K S   +   +    +      +      +  +++++  + ++ 
Sbjct: 187 NMLLDFNDINQNHKDAKMSAKTYPKRLKTLLQTLVPKGVEFRKLGEVCEILDNRRIPIAK 246

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ--VMERGIITSA 319
                 +         + Y    I D   ++        +K +         +  +   A
Sbjct: 247 NKRKPGIYPYYGANGIQDYIDSYIFDGDFVLVGEDGSVINKNNTPVVNWASGKIWVNNHA 306

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
           ++    + +   +L + +++ D+        +G    +  E++K++ + +PP++ Q +I 
Sbjct: 307 HVLQTKNELKLKFLYFYLQTIDVSYYV----AGTPPKINQENLKKITIPIPPLEIQQEIV 362

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRS 408
            +++  +A    L+  I   I   K R+ 
Sbjct: 363 KILDQFSALTTDLLAGIPAEI---KARKK 388



 Score = 44.4 bits (103), Expect = 0.036,   Method: Composition-based stats.
 Identities = 23/162 (14%), Positives = 45/162 (27%), Gaps = 13/162 (8%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSE--SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           +PK  +   +    ++   R       K    I      +G   Y+              
Sbjct: 221 VPKGVEFRKLGEVCEILDNRRIPIAKNKRKPGIYPYYGANGIQDYIDSYIFDGDFV---- 276

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
            +  +   +  K          A      +    VLQ K+ L      +     +     
Sbjct: 277 -LVGEDGSVINKNNT--PVVNWASGKIWVNNHAHVLQTKNELKLKFLYF----YLQTIDV 329

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
           +     T    + + +  I +PIPPL  Q  I + +   +  
Sbjct: 330 SYYVAGTPPKINQENLKKITIPIPPLEIQQEIVKILDQFSAL 371


>gi|324005094|gb|EGB74313.1| type I restriction modification DNA specificity domain protein
           [Escherichia coli MS 57-2]
          Length = 584

 Score = 94.5 bits (233), Expect = 3e-17,   Method: Composition-based stats.
 Identities = 75/510 (14%), Positives = 149/510 (29%), Gaps = 105/510 (20%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKD------IIYIGLE 54
           +K  K  P+   S  +    +P+ W+ V          G+T    KD      I ++  +
Sbjct: 83  IKKQKPLPEI--SEEEKPFELPEGWEWVTFSHLGYFFGGKTPSKMKDEYWGGTIPWVTPK 140

Query: 55  DVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLR---KAIIADFDGICSTQF 111
           D+++               +   ++  + G IL+      LR      I   +   +   
Sbjct: 141 DMKTNLIVDSEDKVTPLAIE-DGLTKVSPGSILFVARSGILRRIFPVAITSIECTVNQDI 199

Query: 112 LVLQPKDVLPELLQGWLLSIDVTQRIEAI-CEGATMSHADWKGIGNIPMPIPPLAEQV-- 168
            VL P           +++      IE +   G T+    ++   + P  IPP AEQ   
Sbjct: 200 KVLSPFFSDISYYIRLMMNGFERYIIENLTKTGTTVESLLFEDFISHPFMIPPFAEQNRI 259

Query: 169 ---------------------------------------LIREKIIAETVRIDTLITERI 189
                                                     E++     RI        
Sbjct: 260 LSTVKKLMSLCDQLEQQSLTSLDAHQQLVETLLGTLTDSQNAEELAENWARISEHFDTLF 319

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKD------------------------------ 219
                +   KQ ++   V   L P     +                              
Sbjct: 320 TTEASVDALKQTILQLAVMGKLVPQDPNDEPASELLKRIAQEKAQLVKEGKIKKQKPLPP 379

Query: 220 -SGIEWVGLVPDHWEVKPFFA---LVTELNRKNTKLIESNILSLSYGNIIQKLETRNM-G 274
            S  E    +PD WE          +T+ + +     ++ I  L  GN+ + + + +   
Sbjct: 380 ISDEEKPFELPDGWEWCRLNDLFSFITDGDHQAPPKSDTGIPFLVIGNLNKGIVSFDECK 439

Query: 275 LKPESYETY----QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
             P  Y       +    G++++           +      E   +      +K      
Sbjct: 440 YVPIDYYERLDWSRKPCQGDVLYTVTGSYGIPIIV---DNNEPFCVQRHVAILKSCSNTP 496

Query: 331 -TYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
            TYL +L  S         + +G  ++++    ++ +P+ VP    Q      I      
Sbjct: 497 ITYLRYLFLSKYSYAYAEKIATGIAQKTVPLTGLRLMPIPVP----QHRTLLNIINLIKL 552

Query: 389 IDVLVEKIEQSIVLLKERRSSF-IAAAVTG 417
           +D + E ++  I   ++  +   +A A+TG
Sbjct: 553 VDAMSESLKIGIQSAQQ--TQLHLADALTG 580


>gi|393411|emb|CAA52162.1| hsdS [Escherichia coli]
          Length = 406

 Score = 94.5 bits (233), Expect = 3e-17,   Method: Composition-based stats.
 Identities = 53/400 (13%), Positives = 116/400 (29%), Gaps = 48/400 (12%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           + V +     + TG ++   +    I    V S                 S    F +  
Sbjct: 17  EWVTLGSMADIGTGSSNRQDESENGIYPFYVRSKNIL------------KSDTFEFDEVA 64

Query: 86  ILYGKLGPYLRKAIIADFDGICST-QFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
           I+    G         +         + +    + +      + +S    Q I     GA
Sbjct: 65  IVIPGEGGIGDIFHYVEGKYALHQRAYRIRITTNAVDTKFLYYFMSSSFKQYILTKSVGA 124

Query: 145 TMSHADWKGIGNIPMPIPP-------LAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           T        +    +PIP        LA Q  I   +   T     L  E    + + K+
Sbjct: 125 TAISIRKPMLEGFKVPIPSPDNPEKSLAIQSEIVRILDTFTALTAELTAELTAELNMRKK 184

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEW--VGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
           +       +++         K+  +EW  +G                    K     ++ 
Sbjct: 185 QYNYYRDQLLS--------FKEGEVEWKTLGE---------IGNFTYGYAAKAMDSGDAR 227

Query: 256 ILSLSYGNIIQKLETRN-MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
            + ++  N   KL   N M ++         +D  +++         K  +         
Sbjct: 228 FVRITDINKDGKLSKENPMYVELNEENEKYTLDKNDLLMARTGATFGKTMIFEEDYPAVY 287

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM-GSGLRQSLKFEDVKRLPVLVP--- 370
                 + +    I++ Y     +S    +    +   G +       +K++ V +P   
Sbjct: 288 AGFLIKLNLNETIINAKYYWHFAQSDFFWEQANKLVSGGGQPQFNANALKQVRVPIPYPS 347

Query: 371 ----PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
                + EQ  I ++++   A    + E + + I L +++
Sbjct: 348 HPQKSLDEQGRIVDILDKFDAIAASITEGLPREIELRQKQ 387



 Score = 60.2 bits (144), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 21/166 (12%), Positives = 55/166 (33%), Gaps = 16/166 (9%)

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVF----RFIDLQNDKRSLRSAQVMERGIITS 318
               + +    G+ P    +  I+      F      I  +     +      +  +   
Sbjct: 30  GSSNRQDESENGIYPFYVRSKNILKSDTFEFDEVAIVIPGEGGIGDIFHYVEGKYALHQR 89

Query: 319 AY-MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP------- 370
           AY + +  + +D+ +L + M S     +          S++   ++   V +P       
Sbjct: 90  AYRIRITTNAVDTKFLYYFMSSSFKQYILTKSVGATAISIRKPMLEGFKVPIPSPDNPEK 149

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
            +  Q +I  +++  TA    L  ++   + + K+     R   ++
Sbjct: 150 SLAIQSEIVRILDTFTALTAELTAELTAELNMRKKQYNYYRDQLLS 195



 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 34/229 (14%), Positives = 74/229 (32%), Gaps = 24/229 (10%)

Query: 1   MKHYKAYPQYKD---SGVQWIGAIPKHWKVVPIKRFTKLNTGRTSE--SGKDIIYIGLED 55
           M+  K Y  Y+D   S  +  G +    +   +        G  ++     D  ++ + D
Sbjct: 181 MRK-KQYNYYRDQLLSFKE--GEV----EWKTLGEIGNFTYGYAAKAMDSGDARFVRITD 233

Query: 56  VESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIA--DFDGICSTQFLV 113
           +                ++ +      K  +L  + G    K +I   D+  + +   + 
Sbjct: 234 INKDGKLSKENPMYVELNEENEKYTLDKNDLLMARTGATFGKTMIFEEDYPAVYAGFLIK 293

Query: 114 LQPKDVLPELLQGWLL--SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPP-------L 164
           L   + +      W    S    ++   +  G      +   +  + +PIP        L
Sbjct: 294 LNLNETIINAKYYWHFAQSDFFWEQANKLVSGGGQPQFNANALKQVRVPIPYPSHPQKSL 353

Query: 165 AEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNP 213
            EQ  I + +  +   I   ITE +     L++K+      ++     P
Sbjct: 354 DEQGRIVDILD-KFDAIAASITEGLPREIELRQKQYEYYRDLLFSFPKP 401


>gi|146300449|ref|YP_001195040.1| restriction modification system DNA specificity subunit
           [Flavobacterium johnsoniae UW101]
 gi|146154867|gb|ABQ05721.1| restriction modification system DNA specificity domain protein
           [Flavobacterium johnsoniae UW101]
          Length = 267

 Score = 94.5 bits (233), Expect = 3e-17,   Method: Composition-based stats.
 Identities = 57/251 (22%), Positives = 103/251 (41%), Gaps = 18/251 (7%)

Query: 183 TLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVT 242
               ++ R IELL EKK+A++   + KGL P+V MKDSGIEW G +P+HW+V     L  
Sbjct: 18  QFCPKKTRLIELLDEKKKAVIIQNIIKGLAPNVAMKDSGIEWFGEIPEHWKVVKLKYLSK 77

Query: 243 ELNRKN---------TKLIESNILSLSYGNIIQKLETRNMGLKPESYE-----TYQIVDP 288
            ++  +          +L E+     + G+  +     N   +  S+E       ++ D 
Sbjct: 78  NIDTGSTPNGYDIPIEELNENVWNWFTPGDFNEDFNFVNESKRKLSFEVVEDNNVRLYDS 137

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA 348
             ++F  I     K ++                 ++ +   +        S  +      
Sbjct: 138 NSVMFVGIGATLGKIAV----TDTNFYTNQQINIIELNNDINKMFVAYSLSATIKISKML 193

Query: 349 MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
             S     L  + +  + + +P + EQ  +   +         +  KI  SI LLKE+R+
Sbjct: 194 ANSATLPILNQQKLGDIQIPIPDLNEQILVVERLENIYFNHFNIANKISTSIELLKEKRT 253

Query: 409 SFIAAAVTGQI 419
           + I+A + G+I
Sbjct: 254 AIISATINGEI 264



 Score = 86.8 bits (213), Expect = 6e-15,   Method: Composition-based stats.
 Identities = 47/216 (21%), Positives = 97/216 (44%), Gaps = 13/216 (6%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDII----------YIGLEDVES 58
             KDSG++W G IP+HWKVV +K  +K     ++ +G DI           +    D   
Sbjct: 51  AMKDSGIEWFGEIPEHWKVVKLKYLSKNIDTGSTPNGYDIPIEELNENVWNWFTPGDFNE 110

Query: 59  --GTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP 116
                    +  +    + + V ++    +++  +G  L K  + D +   + Q  +++ 
Sbjct: 111 DFNFVNESKRKLSFEVVEDNNVRLYDSNSVMFVGIGATLGKIAVTDTNFYTNQQINIIEL 170

Query: 117 KDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIA 176
            + + ++   +       +  + +   AT+   + + +G+I +PIP L EQ+L+ E++  
Sbjct: 171 NNDINKMFVAYS-LSATIKISKMLANSATLPILNQQKLGDIQIPIPDLNEQILVVERLEN 229

Query: 177 ETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLN 212
                  +  +    IELLKEK+ A++S  +   +N
Sbjct: 230 IYFNHFNIANKISTSIELLKEKRTAIISATINGEIN 265


>gi|312130088|ref|YP_003997428.1| restriction modification system DNA specificity domain
           [Leadbetterella byssophila DSM 17132]
 gi|311906634|gb|ADQ17075.1| restriction modification system DNA specificity domain
           [Leadbetterella byssophila DSM 17132]
          Length = 390

 Score = 94.5 bits (233), Expect = 3e-17,   Method: Composition-based stats.
 Identities = 48/386 (12%), Positives = 115/386 (29%), Gaps = 21/386 (5%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +  +P  W    +    K  T  +    +     G   +     +++    +        
Sbjct: 8   LKDVPVEW--KALGGIVKTKTAPSKIKREHYCLSGSNPIIDQGAQFIAGYTDV------N 59

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
             +  K + +    G +       DF         +         +   +   +   ++ 
Sbjct: 60  FPMVEKNEYII--FGDHSEHIKYVDFS-FIQGADGLKILNSKNNNVKYLYYCFLSFYEKE 116

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
            +     T +      I     P   LA Q  I   +   + +   L     + I+  K+
Sbjct: 117 GSYQRHWTKAKETLIPIPYPNDPEKSLAVQQEIVRVLDGLSEQNKALTAALAQEIDQRKK 176

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
           + +     +       +V+ K  G E VG       ++                I     
Sbjct: 177 QYEYYREELFRFE-GKEVEWKTLGDENVGKFTRGSGLQKKDF--------TEFGIGCIHY 227

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
              Y             +  +  +  +    G++V       +D      A + E  I  
Sbjct: 228 GQVYTYYNTYTYETKSFVSVDFAKNARKAKTGDLVIATTSENDDDVCKAVAWLGEEDIAV 287

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQF 376
           S+      H ++  ++A+  ++    K      +G   + +   D++++ +  P I EQ 
Sbjct: 288 SSDACFYSHSLNPKFVAYYFQTEQFQKQKRKYITGTKVRRVNVNDLEKITIPKPVITEQE 347

Query: 377 DITNVINVETARIDVLVEKIEQSIVL 402
            I ++++        +V ++E+ I L
Sbjct: 348 RIVHLLDQYDEATKNIVAQLEREIEL 373



 Score = 39.8 bits (91), Expect = 0.98,   Method: Composition-based stats.
 Identities = 17/132 (12%), Positives = 41/132 (31%), Gaps = 20/132 (15%)

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD 341
            + +V+  E +      ++ K    S      G        +     +  YL +   S+ 
Sbjct: 59  NFPMVEKNEYIIFGDHSEHIKYVDFSFIQGADG-----LKILNSKNNNVKYLYYCFLSFY 113

Query: 342 LCKVFYAMGSGLRQSLKFEDVKRLPVLVP-------PIKEQFDITNVINVETARIDVLVE 394
             +         ++       K   + +P        +  Q +I  V++  + +   L  
Sbjct: 114 EKE------GSYQRHWTKA--KETLIPIPYPNDPEKSLAVQQEIVRVLDGLSEQNKALTA 165

Query: 395 KIEQSIVLLKER 406
            + Q I   K++
Sbjct: 166 ALAQEIDQRKKQ 177


>gi|317502418|ref|ZP_07960582.1| restriction endonuclease S subunit [Lachnospiraceae bacterium
           8_1_57FAA]
 gi|316896156|gb|EFV18263.1| restriction endonuclease S subunit [Lachnospiraceae bacterium
           8_1_57FAA]
          Length = 363

 Score = 94.5 bits (233), Expect = 3e-17,   Method: Composition-based stats.
 Identities = 57/390 (14%), Positives = 111/390 (28%), Gaps = 32/390 (8%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
           V +    +   G ++        + L DV    G++     +                + 
Sbjct: 3   VKLGDVCE--RGTSN--------LKLSDVSEKNGEFSVFGASGYIGSVDFYQQGYP-YVA 51

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMS 147
             K G  + +A++             L PKD +      +++       +E    GAT+ 
Sbjct: 52  VVKDGAGIGRAMLCPGKTSVIGTMQYLLPKDNILPKYLFYVVK---YMNLEKYFTGATIP 108

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
           H  +K   N          QV I   +     + + +I    + ++LL +  +A     V
Sbjct: 109 HIYFKDYKNEEFNFDFWERQVEIVSVL----SKCEKVIDLCKQELQLLDKLIKA---RFV 161

Query: 208 TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK 267
               +     K   +     +      K   A           L   N+    +      
Sbjct: 162 EMFGDVIHNSKKWQVCLFAEITSSRLGKMLDAKQQTGRNSYPYLANFNVQWFRF-----N 216

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
           LE  N     E       +  G+++              +             +      
Sbjct: 217 LENLNKMDFDEKDRAEFELREGDLLVCEGGEIGRCAVWHNELQPCFFQKALHRVRCNHQI 276

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSG--LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
           I   YLAW  R       F A+         L    +K+L V VPP++ Q      +   
Sbjct: 277 ILPDYLAWWFRYNCDYGGFSALAGAKATIAHLPGAKLKQLQVAVPPMELQEQFAVFV--- 333

Query: 386 TARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            A+ D     +++++   +    S +    
Sbjct: 334 -AQTDKSKVAVQKALDEAQLLFDSLMQEYF 362


>gi|6137144|gb|AAF04354.1| restriction modification system specificity subunit [Streptococcus
           thermophilus]
          Length = 419

 Score = 94.5 bits (233), Expect = 3e-17,   Method: Composition-based stats.
 Identities = 55/415 (13%), Positives = 133/415 (32%), Gaps = 30/415 (7%)

Query: 20  AIPK--------HWKVVPIKRFTKLNTGR-TSESGKDIIYIGLEDVESGTGKYLPKDGNS 70
            +P+         W+   +     +   R          YI           Y  K    
Sbjct: 11  EVPELRFKGFTDEWEERKLSSIANVLLERIKIMIDSSSYYISTRWFSGSKNDYFNK--QV 68

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD-----FDGICSTQFLVLQPKDVLPEL-L 124
              D +   +   G+  Y K                   G+ ST ++V +P  +  +  +
Sbjct: 69  ASRDVTGYFLVKNGEFAYNKSYSNGYPWGAIKRLDKYEMGVLSTLYIVFKPTAINSQFLV 128

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
             +  +    +  +   EGA           +    +  + +    +++I +   ++D  
Sbjct: 129 SYYETTRWYREVSKNAAEGARNHGLLNISPNDFFNTLLTIPKSAEEQQQIGSFFKQLDDT 188

Query: 185 ITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTEL 244
           IT   R ++LLKE+K+  +  +  K      +++ +G        +  ++        + 
Sbjct: 189 ITLHQRKLDLLKEQKKGFLQKMFPKNSAKVPELRFAG---FADDWEERKLSDIADKAVDN 245

Query: 245 NRKNTKLIESNILSLSYG----NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQN 300
             K   + E     +          +  +   + ++P   E    +  G+I   +     
Sbjct: 246 RGKTPTISEDESSVIRGCKSRKRCSRLFQVLILAMRPLMTEFAAYIKEGDICVFYCGKYW 305

Query: 301 DKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA-WLMRSYDLCKVFYAMGSGLRQSLKF 359
              +L   Q+    I  +          DS +L   +++  +     +     ++ S+K 
Sbjct: 306 FGLALMDTQMKNATIAQNIVAFRANEKYDSKFLYANVIKEGESSNKAHVCDGAVQPSIKV 365

Query: 360 EDVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
             +  +   V   ++EQ  +          +D L+   ++ + LLKE++  F+  
Sbjct: 366 SQLVDVDYCVTENMEEQRKLGEY----FLNLDNLITLHQRKLDLLKEQKKGFLQK 416


>gi|323223408|gb|EGA07738.1| restriction modification system DNA specificity domain protein
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. MB102109-0047]
 gi|323225169|gb|EGA09416.1| restriction modification system DNA specificity domain protein
           [Salmonella enterica subsp. enterica serovar Montevideo
           str. MB110209-0055]
          Length = 361

 Score = 94.1 bits (232), Expect = 4e-17,   Method: Composition-based stats.
 Identities = 62/367 (16%), Positives = 124/367 (33%), Gaps = 32/367 (8%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           +PK W ++ +    KL  G + +      K +  I ++++ +G+G Y    G  +     
Sbjct: 2   VPKGWMLLQVSDICKLQNGNSFKPHEWDTKGLPIIRIQNL-NGSGNYNYFSGVPQD---- 56

Query: 77  TVSIFAKGQILYGKLGPYL---RKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
              +   GQ+L+   G         I     G+ +     +   + + E      L    
Sbjct: 57  -KWLVEPGQLLFSWAGTKGVSFGPFIWNGPKGVLNQHIYKVFANENVHEHWLYLALLHIT 115

Query: 134 TQRIEAICEGA-TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
            +          T+ H   K I N  +  PP+AEQ  I + +       +  I+   + +
Sbjct: 116 QKIEAQAHGFKSTLLHVQKKDIDNQFVLTPPVAEQKKISQIL----STWNKAISVTEKLL 171

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
              +++K+AL+  ++T        + ++G+ + G     W       +   +   + K  
Sbjct: 172 ANSQQQKKALIQQLLT---GKKRLLDENGVRFSGE----WCTCTLSEVAHIIMGSSPKSE 224

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQ--IVDPGEIVFRFIDLQNDKRSLRSAQV 310
             N   L    I    + +     P  Y +       PG+I+                  
Sbjct: 225 AYNDNGLGLPLIQGNADIKCRVSCPRVYTSDITKECTPGDILLSVRAPVGTVA-----LS 279

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP 370
             +  I     A+K     S    +    +   K  Y       +S+  +D+K L + VP
Sbjct: 280 QHKACIGRGISAIKSKRKMSQSFLYQWFLWFEPKWCYLSQGSTFESINSDDIKTLKLSVP 339

Query: 371 PIKEQFD 377
             +EQ  
Sbjct: 340 NFEEQQK 346



 Score = 86.0 bits (211), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 31/200 (15%), Positives = 73/200 (36%), Gaps = 7/200 (3%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIV 286
           +VP  W +     +    N  + K  E +   L    I     + N        +   +V
Sbjct: 1   MVPKGWMLLQVSDICKLQNGNSFKPHEWDTKGLPIIRIQNLNGSGNYNYFSGVPQDKWLV 60

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF 346
           +PG+++F +   +             +G++      V  +     +  +L   +   K+ 
Sbjct: 61  EPGQLLFSWAGTKGVSFG-PFIWNGPKGVLNQHIYKVFANENVHEHWLYLALLHITQKIE 119

Query: 347 YAMGS--GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLK 404
                       ++ +D+    VL PP+ EQ  I+ +++      +  +   E+ +   +
Sbjct: 120 AQAHGFKSTLLHVQKKDIDNQFVLTPPVAEQKKISQILSTW----NKAISVTEKLLANSQ 175

Query: 405 ERRSSFIAAAVTGQIDLRGE 424
           +++ + I   +TG+  L  E
Sbjct: 176 QQKKALIQQLLTGKKRLLDE 195


>gi|218665757|ref|YP_002425317.1| type I restriction-modification system, S subunit
           [Acidithiobacillus ferrooxidans ATCC 23270]
 gi|218517970|gb|ACK78556.1| type I restriction-modification system, S subunit
           [Acidithiobacillus ferrooxidans ATCC 23270]
          Length = 409

 Score = 94.1 bits (232), Expect = 4e-17,   Method: Composition-based stats.
 Identities = 55/384 (14%), Positives = 115/384 (29%), Gaps = 25/384 (6%)

Query: 23  KHWKVVPIKRFTK-LNTGRTSESGK------DIIYIGLEDVESG-TGKYLPKDGNSRQSD 74
             W+   +        +G T  + +      +  +I  + +          K  +     
Sbjct: 25  SDWQKTTVGEIASGFLSGGTPSTSRADFWEGENPWITSKWLGDKLELTTGEKFVSEGAVK 84

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQF--LVLQPKDVLPELLQGWLLSID 132
            +   I  K  I++      + K  I   D   +     +++  +    + L   L    
Sbjct: 85  KTATKIVPKDSIIFAT-RVGVGKVGINRIDLAINQDLAGVLIDNERYDIKFLAYQLGIDS 143

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           + Q +     GAT+       +  I + +PPL EQ  I   +      +   I  + R I
Sbjct: 144 IQQYVAMNKRGATIKGITRDCLEQIRLNLPPLPEQKKIAHIL----STVQRAIEAQERII 199

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           +   E K+AL+  + T+GL  +   K + I  +    +  E+      +T    K     
Sbjct: 200 QTTTELKKALMHKLFTEGL-RNEPQKQTEIGPIPESWEVVEIGDLGKCITGSTPKTKVDS 258

Query: 253 ESNILSLSYG-----NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
             +  +  +         + +      + PE   T + +    ++   I     K  +  
Sbjct: 259 FYDPPTEDFIAPADLGARRYVYDSEKKISPEGMATIRPIPRNAVMCVCIGSSIGKVGMSY 318

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
               E         ++           + + SY           G    L       + V
Sbjct: 319 R---EESATNQQINSIICGEGRDPEFVYCLLSYRSDYWKSFATFGPVPILSKGRFSTIGV 375

Query: 368 LVP-PIKEQFDITNVINVETARID 390
            +P  + EQ  I   +      I+
Sbjct: 376 PIPSSLDEQQAIAKPLVSTVKDIE 399



 Score = 77.9 bits (190), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 20/169 (11%), Positives = 58/169 (34%), Gaps = 7/169 (4%)

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
            +     I S   G+ ++         +    +T   + P + +     +   K  +   
Sbjct: 53  WEGENPWITSKWLGDKLELTTGEKFVSEGAVKKTATKIVPKDSIIFATRVGVGKVGINRI 112

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPV 367
            +     +    +       D  +LA+ +    + +       G   + +  + ++++ +
Sbjct: 113 DLAINQDLAGVLI--DNERYDIKFLAYQLGIDSIQQYVAMNKRGATIKGITRDCLEQIRL 170

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
            +PP+ EQ  I ++++         +E  E+ I    E + + +    T
Sbjct: 171 NLPPLPEQKKIAHILSTV----QRAIEAQERIIQTTTELKKALMHKLFT 215



 Score = 52.9 bits (125), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 31/187 (16%), Positives = 65/187 (34%), Gaps = 10/187 (5%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIG-----LEDVESGTGKYLP 65
           K +    IG IP+ W+VV I    K  TG T ++  D  Y       +   + G  +Y+ 
Sbjct: 224 KQTE---IGPIPESWEVVEIGDLGKCITGSTPKTKVDSFYDPPTEDFIAPADLGARRYVY 280

Query: 66  KDGNSRQ-SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELL 124
                      +T+    +  ++   +G  + K  ++  +   + Q +         +  
Sbjct: 281 DSEKKISPEGMATIRPIPRNAVMCVCIGSSIGKVGMSYREESATNQQINSIICGEGRDPE 340

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRIDT 183
             + L    +   ++      +          I +PIP  L EQ  I + +++    I+ 
Sbjct: 341 FVYCLLSYRSDYWKSFATFGPVPILSKGRFSTIGVPIPSSLDEQQAIAKPLVSTVKDIEG 400

Query: 184 LITERIR 190
            +     
Sbjct: 401 FVYADGH 407


>gi|82750028|ref|YP_415769.1| type-I specificity determinant subunit [Staphylococcus aureus
           RF122]
 gi|82655559|emb|CAI79953.1| type-I specificity determinant subunit [Staphylococcus aureus
           RF122]
          Length = 410

 Score = 94.1 bits (232), Expect = 4e-17,   Method: Composition-based stats.
 Identities = 51/386 (13%), Positives = 112/386 (29%), Gaps = 24/386 (6%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            W+   +        G+           +  I   ++ +  G  + K  +      + + 
Sbjct: 20  EWEEKKLGDVATFAKGKLGAKKDVSQNGVPIILYGELYTKYGAIVSKIFSKTDIPENKLK 79

Query: 80  IFAKGQILYGKLGPY-----LRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
           I  K  +L    G           I  +          +L P+      +    ++    
Sbjct: 80  IAKKNDVLIPSSGETAIDIATASCIYLNKGVAVGGDINILTPQKQDDRFI-SLSINGINK 138

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLA-EQVLIREKIIAETVRIDTLITERIRFIE 193
             +    +G T+ H     I N+ +  P    EQV I +       +I+    +     +
Sbjct: 139 NELSKYAQGKTVVHLYNNDIKNLKIVFPSEFEEQVRIGDFFSKLDRQIELEEQKLELLQQ 198

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
             K   Q + S  +        +  +   + +G V +              + KN     
Sbjct: 199 QKKGYMQKIFSQELRFKDENGEEYPEWEEKQLGEVAE-------IIGGGPPSTKNKLYWN 251

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
             I   S    I          K  + E  +      +    I   +     ++A + + 
Sbjct: 252 GEINWFSPI-EIGNKTYVYSSQKKITEEGLRKSSAKILPVGTILFTSRAGIGKTAILAKE 310

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA-MGSGLRQSLKFEDVKRLPVLVPPI 372
                 + ++ P             S  L  +            +  + +++L + +P I
Sbjct: 311 STTNQGFQSIVPRKGVLDSYYVYTISNILKILAEKVSAGSTFSEISKKQMEQLNLNIPMI 370

Query: 373 KEQFDITNVINVETARIDVLVEKIEQ 398
           KEQ +I+       ++ D L+E  E+
Sbjct: 371 KEQKNISKF----FSKFDNLIEIQER 392



 Score = 54.8 bits (130), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 20/177 (11%), Positives = 54/177 (30%), Gaps = 2/177 (1%)

Query: 215 VKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMG 274
            +++  G E         +V  F        +  ++     IL          + ++   
Sbjct: 10  PELRFPGFEGEWEEKKLGDVATFAKGKLGAKKDVSQNGVPIILYGELYTKYGAIVSKIFS 69

Query: 275 LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI-ITSAYMAVKPHGIDSTYL 333
                    +I    +++           +  S   + +G+ +      + P   D  ++
Sbjct: 70  KTDIPENKLKIAKKNDVLIPSSGETAIDIATASCIYLNKGVAVGGDINILTPQKQDDRFI 129

Query: 334 AWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP-IKEQFDITNVINVETARI 389
           +  +   +  ++           L   D+K L ++ P   +EQ  I +  +    +I
Sbjct: 130 SLSINGINKNELSKYAQGKTVVHLYNNDIKNLKIVFPSEFEEQVRIGDFFSKLDRQI 186


>gi|330899951|gb|EGH31370.1| Type I restriction-modification system specificity subunit
           [Pseudomonas syringae pv. japonica str. M301072PT]
          Length = 441

 Score = 94.1 bits (232), Expect = 4e-17,   Method: Composition-based stats.
 Identities = 63/441 (14%), Positives = 137/441 (31%), Gaps = 48/441 (10%)

Query: 23  KHWKVVPIKRFTK-------LNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
             W+ VP+    +       +N         +I  +    +  G           +    
Sbjct: 2   SDWRFVPLGDLIESLDAGVSVNAEDRPHGAGEIGVLKTSAISGGEFHAEQNKAVLQSERR 61

Query: 76  STVSIFAKGQILYGKLGPY-----LRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
                     IL  ++              A        +   L+P+D +   ++     
Sbjct: 62  LIAEPVQADSILVSRMNTPALVGESCYVAEAYPMLFLPDRLWQLKPRDRMQVNMRWLSFV 121

Query: 131 I---DVTQRIEAICEGA--TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
           +   D    +E    G   TM +     + + P+  PPL+EQ +I + +      I    
Sbjct: 122 LQSADYRSYVEVHATGTSGTMKNLPKSKMLSFPVLYPPLSEQKIIAQILDTLDTIIRETE 181

Query: 186 TERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWV--------GLVPDHWEVKPF 237
           +   +   L       L+  ++T+G++ + +++ S  E          G +P  W     
Sbjct: 182 SILDKLKALKH----GLLHDLLTRGIDANGELRPSQSEAPQLYKESQWGCIPKEWRQTST 237

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES-------------YETYQ 284
             L + + +  T    +          ++       G                    +  
Sbjct: 238 RELCSLITKGTTPAANNMWQGSEGVKFLRVDNLSFDGQLDFDASRFQISLGTHRGELSRS 297

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS-AYMAVKPHGIDSTYLAWLMRSYDLC 343
           I  PG+++   +     K  L + Q+ E  I  + A    +P+ +    L WL  S    
Sbjct: 298 ICLPGDVLTNIVGPPLGKLGLVTKQMGEVNINQAIALFRPEPNLLPGFLLLWLGGSPAQT 357

Query: 344 KV-FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
            +   A  +  + +L     + LP+    ++EQ  I + I     R+          +  
Sbjct: 358 WLRKRAKQTSGQVNLTLALCQELPIPKISLEEQQLIVDRIEKMHERL----SVGTSELSK 413

Query: 403 LKERRSSFIAAAVTGQIDLRG 423
           L   + + +   +TG++ +  
Sbjct: 414 LHHMKYAMMDDLLTGRVRVTP 434



 Score = 50.9 bits (120), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 40/215 (18%), Positives = 73/215 (33%), Gaps = 19/215 (8%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSE-------SGKDIIYIGLEDVESGTGK 62
           YK+S  QW G IPK W+    +    L T  T+          + + ++ ++++      
Sbjct: 220 YKES--QW-GCIPKEWRQTSTRELCSLITKGTTPAANNMWQGSEGVKFLRVDNLSFDGQL 276

Query: 63  YLPKDGNSRQSDTS----TVSIFAKGQILYGKLGPYLRKAI-IADFDGICS----TQFLV 113
                       T     + SI   G +L   +GP L K   +    G  +         
Sbjct: 277 DFDASRFQISLGTHRGELSRSICLPGDVLTNIVGPPLGKLGLVTKQMGEVNINQAIALFR 336

Query: 114 LQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
            +P  +   LL     S   T   +   + +   +        +P+P   L EQ LI ++
Sbjct: 337 PEPNLLPGFLLLWLGGSPAQTWLRKRAKQTSGQVNLTLALCQELPIPKISLEEQQLIVDR 396

Query: 174 IIAETVRIDTLITERIRFIELLKEKKQALVSYIVT 208
           I     R+    +E  +   +       L++  V 
Sbjct: 397 IEKMHERLSVGTSELSKLHHMKYAMMDDLLTGRVR 431


>gi|170017257|ref|YP_001728176.1| putative restriction-modification enzyme type I S subunit
           [Leuconostoc citreum KM20]
 gi|169804114|gb|ACA82732.1| Putative restriction-modification enzyme type I S subunit
           [Leuconostoc citreum KM20]
          Length = 397

 Score = 94.1 bits (232), Expect = 4e-17,   Method: Composition-based stats.
 Identities = 50/402 (12%), Positives = 117/402 (29%), Gaps = 36/402 (8%)

Query: 24  HWKVVPIKRFTKLNTGR----TSESGKDIIYIGLEDV-----ESGTGKYLPKDGNSRQSD 74
            W+   +     + + +    +  +   I ++   D+           YL          
Sbjct: 16  DWEERKLGDMMDVTSVKRIHQSDWTNSGIRFLRARDIVSAAKNEEPSDYLYISEEKYNEY 75

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGIC--STQFLVLQPKDVLPELLQGWLLSID 132
           +      ++G +L   +G      +I D + I       +  + +  +      +    +
Sbjct: 76  SKISGKVSQGDLLVTGVGSIGVPLLITDDNPIYFKDGNIIWFKNEHKIDGNFFYYSFINN 135

Query: 133 VTQRIEAICEGA-TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
             Q+      G  T+            + +P   EQ  I         ++D  I    R 
Sbjct: 136 KIQKYIRDVAGIGTVGTYTIDSGKKTRISLPTYDEQNKIGSF----FKQLDNTIALHQRK 191

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           ++LLKE+K+  +  +  K      +++ +G        D WE +    +          +
Sbjct: 192 LDLLKEQKKGFLQKMFPKNGAKIPELRFAG------FTDDWEERKLGEIFDYEQPTKYIV 245

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
             +         ++   ++  +G   E            +V                 V 
Sbjct: 246 QSTEYDDTFNTPVLTAGKSFLLGYTDEISGIKNATVENPVVIFDDFTTGSHY------VD 299

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
               I S+ M +     +S    ++  +    K          +           +  P 
Sbjct: 300 FPFKIKSSAMKLLSLNDNSDNFYFMFNTLKNIKYVPQS----HERHWISKFSEFEIYKPS 355

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            +EQ  I         ++D  +   +Q + LLK+++  F+  
Sbjct: 356 QEEQQKIGPF----FKQLDNTIALHQQKLDLLKQQKKGFLQK 393



 Score = 71.7 bits (174), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 27/206 (13%), Positives = 61/206 (29%), Gaps = 9/206 (4%)

Query: 212 NPDVKMKDSGIEWVGLVPDHWEVK---PFFALVTELNRKNTKLIESNILSLSYGNIIQKL 268
            P ++ K    +W                       N     L   +I+S +        
Sbjct: 5   TPQIRFKGFTDDWEERKLGDMMDVTSVKRIHQSDWTNSGIRFLRARDIVSAAKNEEPSDY 64

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
              +     E  +    V  G+++   +        L +          +       H I
Sbjct: 65  LYISEEKYNEYSKISGKVSQGDLLVTGVGSIG-VPLLITDDNPIYFKDGNIIWFKNEHKI 123

Query: 329 DSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           D  +  +   +  + K    +   G   +   +  K+  + +P   EQ  I +       
Sbjct: 124 DGNFFYYSFINNKIQKYIRDVAGIGTVGTYTIDSGKKTRISLPTYDEQNKIGSF----FK 179

Query: 388 RIDVLVEKIEQSIVLLKERRSSFIAA 413
           ++D  +   ++ + LLKE++  F+  
Sbjct: 180 QLDNTIALHQRKLDLLKEQKKGFLQK 205


>gi|298575369|ref|NP_247095.2| Type I restriction-modification enzyme subunit S
           [Methanocaldococcus jannaschii DSM 2661]
 gi|2826248|gb|AAB98112.1| type I restriction-modification enzyme 2, S subunit
           [Methanocaldococcus jannaschii DSM 2661]
          Length = 343

 Score = 94.1 bits (232), Expect = 4e-17,   Method: Composition-based stats.
 Identities = 58/331 (17%), Positives = 109/331 (32%), Gaps = 35/331 (10%)

Query: 8   PQYKDSGVQWIGAIPKHWKVVPIKRFT-KLNTGRTSE-------SGKDIIYIGLEDVESG 59
             +K +    IG IP+ W++V +K    K+  G T +           I ++ +ED+ + 
Sbjct: 6   ENFKKTE---IGEIPEDWEIVELKDVCKKIKAGGTPKTSVEEYYKNGTIPFVKIEDITNS 62

Query: 60  TGKYLPKDGNSRQS--DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPK 117
                       +   + S   I  K  +L+   G     A I   +   +   L + PK
Sbjct: 63  NKYLTNTKIKITEEGLNNSNAWIVPKNSVLFAMYGSIGETA-INKIEVATNQAILGIIPK 121

Query: 118 DVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
           D + E    + +          +    T  + + + + +  +P+PPL EQ  I + +   
Sbjct: 122 DNILESEFLYYILAKNKNYYSKLGMQTTQKNLNAQIVKSFKIPLPPLEEQKQIAKIL--- 178

Query: 178 TVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPF 237
             +ID  I    + I  L+  K+ L+  ++TKG+      K      +G +P+ WEV   
Sbjct: 179 -TKIDEGIEIIEKSINKLERIKKGLMHKLLTKGIGHSRFKKS----EIGEIPEDWEVFEI 233

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQ-------------KLETRNMGLKPESYETYQ 284
             +            +S        N I                  R +           
Sbjct: 234 KDIFEVKTGTTPSTKKSEYWENGEINWITPLDLSRLNEKIYIGSSERKVTKIALEKCNLN 293

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
           ++  G I+            L       +G 
Sbjct: 294 LIPKGSIIISTRAPVGYVAVLTVESTFNQGC 324



 Score = 91.0 bits (224), Expect = 3e-16,   Method: Composition-based stats.
 Identities = 31/205 (15%), Positives = 70/205 (34%), Gaps = 20/205 (9%)

Query: 224 WVGLVPDHWEVKPFFALVT------------ELNRKNTKLIESNILSLSYGNIIQKLETR 271
            +G +P+ WE+     +              E   KN  +    I  ++  N        
Sbjct: 12  EIGEIPEDWEIVELKDVCKKIKAGGTPKTSVEEYYKNGTIPFVKIEDITNSNKYLTNTKI 71

Query: 272 NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST 331
            +  +  +     IV    ++F       +         +E     +    +    I  +
Sbjct: 72  KITEEGLNNSNAWIVPKNSVLFAMYGSIGETAI----NKIEVATNQAILGIIPKDNILES 127

Query: 332 YLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
              + + + +            +++L  + VK   + +PP++EQ  I  ++     +ID 
Sbjct: 128 EFLYYILAKNKNYYSKLGMQTTQKNLNAQIVKSFKIPLPPLEEQKQIAKIL----TKIDE 183

Query: 392 LVEKIEQSIVLLKERRSSFIAAAVT 416
            +E IE+SI  L+  +   +   +T
Sbjct: 184 GIEIIEKSINKLERIKKGLMHKLLT 208


>gi|284800800|ref|YP_003412665.1| hypothetical protein LM5578_0548 [Listeria monocytogenes 08-5578]
 gi|284993986|ref|YP_003415754.1| hypothetical protein LM5923_0547 [Listeria monocytogenes 08-5923]
 gi|284056362|gb|ADB67303.1| hypothetical protein LM5578_0548 [Listeria monocytogenes 08-5578]
 gi|284059453|gb|ADB70392.1| hypothetical protein LM5923_0547 [Listeria monocytogenes 08-5923]
          Length = 389

 Score = 94.1 bits (232), Expect = 4e-17,   Method: Composition-based stats.
 Identities = 52/398 (13%), Positives = 124/398 (31%), Gaps = 34/398 (8%)

Query: 25  WKVVPIKRFTKLNTGRTSES---GKDIIYIGLEDVESGTGKYLP--KDGNSRQSDTSTVS 79
           W+   +      + G  +     GK    I + D+           ++         + +
Sbjct: 12  WEQRELSSLLSFSNGINAPKEHYGKGRKMISVMDILDEKPVKYEFIRNSVQVDKKIESKN 71

Query: 80  IFAKGQILYGKLGPYLRKAII-----ADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
               G I++ +      +             + S   +  +  +          L+    
Sbjct: 72  KVEYGDIVFVRSSEVPEEVGWAKAYLEKEYALYSGFSIRGKKINEFNPYFVELTLNSINR 131

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           ++IE    G+T  +     + +I + +P + EQ     KI    +++DT I    R ++ 
Sbjct: 132 KQIERKAGGSTRFNVSQTILSSIELLMPEIEEQ----NKIDKFFIQLDTTIALHQRKLDT 187

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
           LK  K+  +  +         +++ +  +                ++ E+  +   L   
Sbjct: 188 LKRMKKGFLQQMFPNNEEKVPRLRFADFDEEWEQ----------RMLNEIANRYDNLRVP 237

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
              S              +    E +        GE +    D  ND ++     V  + 
Sbjct: 238 ITASARSSGTTPYYGANGIQDYVEGFT-----HDGEFILVAEDGANDVKNYPVQYVNGKI 292

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKE 374
            + +    ++    +     +LM +  + K+   +  G R  L  + +  L V  P  + 
Sbjct: 293 WVNNHAHVLQAKE-NKHDNKFLMNAIKILKIEPFLVGGGRAKLNSDVMMTLMVKFPCYEG 351

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           Q  I   +     R+D  +   +  I  L   + +++ 
Sbjct: 352 QKKIGTFL----QRLDNTITLHKNKINKLSSLKKTYLQ 385



 Score = 80.6 bits (197), Expect = 4e-13,   Method: Composition-based stats.
 Identities = 23/164 (14%), Positives = 63/164 (38%), Gaps = 6/164 (3%)

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
              +++ +     ++    RN     +  E+   V+ G+IVF       ++     A + 
Sbjct: 39  KMISVMDILDEKPVKYEFIRNSVQVDKKIESKNKVEYGDIVFVRSSEVPEEVGWAKAYLE 98

Query: 312 ERGIITSAYMAVKP--HGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
           +   + S +       +  +  ++   + S +  ++    G   R ++    +  + +L+
Sbjct: 99  KEYALYSGFSIRGKKINEFNPYFVELTLNSINRKQIERKAGGSTRFNVSQTILSSIELLM 158

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           P I+EQ  I    +    ++D  +   ++ +  LK  +  F+  
Sbjct: 159 PEIEEQNKI----DKFFIQLDTTIALHQRKLDTLKRMKKGFLQQ 198


>gi|315652288|ref|ZP_07905280.1| type I restriction system specificity protein [Eubacterium
           saburreum DSM 3986]
 gi|315485411|gb|EFU75801.1| type I restriction system specificity protein [Eubacterium
           saburreum DSM 3986]
          Length = 421

 Score = 93.7 bits (231), Expect = 4e-17,   Method: Composition-based stats.
 Identities = 48/414 (11%), Positives = 122/414 (29%), Gaps = 36/414 (8%)

Query: 11  KDSGVQW--IGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDG 68
           K+  V+W  IG IP+           K+ T +     ++ +  G   +     +++    
Sbjct: 13  KNEKVEWKEIGDIPE----------IKVITVKKKLKKQEYLREGDYPIIDQGQEFIVGYT 62

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL 128
           N   +          G                 +        F        + +  + ++
Sbjct: 63  NDNDAIIDKYPCVIFGD--------------HTESIKYVDFAFAQGADGIKILKTDEKYI 108

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
            S  +   I +  +        +  +    +PIP +  Q  I + +   T  +  L  E 
Sbjct: 109 KSRYLYHTILSYYKLEGKYMRHFSLLRKTLIPIPSIKTQEKIVKTLDKFTEYVTELQAEL 168

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEV-KPFFALVTELNRK 247
              ++    + +   + ++++     +  K   +   G                     +
Sbjct: 169 QAELQYRTNQYEYYRNMLLSEEYLNKLSKKLLDVSEGGTNRLCCTTLGDIGKFTRGNGLQ 228

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKP----ESYETYQIVDPGEIVFRFIDLQNDKR 303
            +         + YG I  K       +      E +E  +    G+I+        +  
Sbjct: 229 KSDFASHGKPVIHYGQIYTKYGFETNEVISFVSEELFEKLRKARQGDILMATTSENIEDV 288

Query: 304 SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDV 362
                      I  S  M       +  Y+A+  ++ +  K      +G +   +  +D+
Sbjct: 289 GKCVVWTGNEEIGFSGDMYSYRTTENPKYIAYYFQTAEFQKQKEKKVTGTKLIRIHGDDM 348

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           ++  + +PP+  Q  I  +++   A +      + + I   ++     R   + 
Sbjct: 349 EKFSIHLPPLSLQNKIVEILDKFQAILSETRGLLPKEIEERQKQYEYYREKLLT 402


>gi|161871030|ref|YP_001598938.1| type I restriction enzyme [Neisseria meningitidis 053442]
 gi|161596583|gb|ABX74243.1| type I restriction enzyme [Neisseria meningitidis 053442]
          Length = 405

 Score = 93.7 bits (231), Expect = 5e-17,   Method: Composition-based stats.
 Identities = 47/395 (11%), Positives = 112/395 (28%), Gaps = 31/395 (7%)

Query: 26  KVVPIKR---FTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           +  P+        + TG+     K         + +  G Y   +               
Sbjct: 20  EWKPLGGENGIAIIKTGQAVSKQK---------ISNNIGSYPVINSGKEPLGYIDEWNTE 70

Query: 83  KGQILYGKLGPYLRKAIIADFDGI-CSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
              I     G  +      +      +  + V        ++   + + ++  Q I A+C
Sbjct: 71  NDPIGITTRGAGVGSITWQEGRYFRGNLNYAVTIKNRTELDVRFLYHILLEFEQEIHALC 130

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
               +   +   +  + +PIPPL  Q  I + +   T     L   R R     ++    
Sbjct: 131 TFTGIPALNASNLKKLLIPIPPLETQQKIVKILDKFTELEAEL-ALRKRQYRYYRDFLLD 189

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
             + I         ++KD   + +G V             T            +I     
Sbjct: 190 FDNQIGGIADGYKGRLKDVVWKTLGEV------FDLKNGYTPSKSNKEYWENGSIPWFRM 243

Query: 262 GNIIQKLETRNMGLKPESY---ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
            +I +     +  LK  S    +  ++     I+        +   ++   +  + +   
Sbjct: 244 EDIRENGRILDNSLKHISKSAVKGGKLFPAKSIMMSTTATIGEHALIKVNYISNQQLTNF 303

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
                    +D  +  +               S L   +  +++K+L + +PP+ EQ  I
Sbjct: 304 TIKDEFKDALDINFAFYYFFIIAEQSKKLINTSSL-PIISMKELKKLKIPIPPLPEQEKI 362

Query: 379 TNVINVETARIDVL-------VEKIEQSIVLLKER 406
             +++        +       +    +     +E+
Sbjct: 363 AAILDKFDTLTHSISEGLPHEIALRRKQYEYYREQ 397


>gi|218698186|ref|YP_002405853.1| Type I restriction enzyme EcoAI specificity protein (S protein)
           (S.EcoAI) [Escherichia coli 55989]
 gi|218354918|emb|CAV02125.1| Type I restriction enzyme EcoAI specificity protein (S protein)
           (S.EcoAI) [Escherichia coli 55989]
          Length = 578

 Score = 93.7 bits (231), Expect = 5e-17,   Method: Composition-based stats.
 Identities = 54/487 (11%), Positives = 132/487 (27%), Gaps = 96/487 (19%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDV 56
           +K  K  P+   S  +    +P+ W+ V +    ++  GR  +  +        + + ++
Sbjct: 83  IKKQKPLPEI--SEEEKPFELPEGWEWVRVADLMEVINGRAYKKHEMLQTGTPLLRVGNL 140

Query: 57  ESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP 116
                 +   +                G ++Y     +       +        + +   
Sbjct: 141 ------FTSNEWYYSDLQLDENKYINNGDLIYAWSASFGPFIWTGEKVIYHYHIWKLNLF 194

Query: 117 KDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIA 176
            +            + +T +I++   G  M H   + +    + +PP+ EQ  I  KI  
Sbjct: 195 AEEYSNKYFIHDFLLSITDKIKSQGNGIAMLHMTKEKMEQQIIALPPINEQQQIVRKIRE 254

Query: 177 ET-----------------------------------------VRIDTLITERIRFIELL 195
            T                                          RI             +
Sbjct: 255 LTVLCDQLEQQSLTSLDAHQQLVETLLGTLTDSQNAEELAENWARISEHFDTLFTTEASV 314

Query: 196 KEKKQALVSYIVTKGLNPDVKMKD-------------------------------SGIEW 224
              KQ ++   V   L P     +                               S  E 
Sbjct: 315 DTLKQTILQLAVMGKLVPQDPNDEPASELLKRIAQEKAQLVKEGKIKKQKPLPPISDEEK 374

Query: 225 VGLVPDHWEVKPFFALVT----ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE-- 278
              +P+ WE      L         +   + ++++   L   N+ +     +   + E  
Sbjct: 375 PFELPEGWEWCRIDDLTFVSGGIQKQPKRRPVKNHFPYLRVANVQRGDINIDKLERFEVE 434

Query: 279 -SYETYQIVDPGEIVF--RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI-DSTYLA 334
                +  ++  +I+            R       +E+ +  +  + V+        ++A
Sbjct: 435 PHELAFWSLEKNDILIVEGNGSADEIGRCAIWHAPIEKCVYQNHLIRVRGIIEGYQEFIA 494

Query: 335 WLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
             + S    K    +   +    +L    ++ + + +PP+ +Q  I + I       + L
Sbjct: 495 LYLNSPSGIKEMQRLAVTTSGLYNLSVGKIRGITIPLPPLNQQNLILSRIREYILACENL 554

Query: 393 VEKIEQS 399
               + +
Sbjct: 555 KTSTQSA 561



 Score = 64.8 bits (156), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 26/193 (13%), Positives = 63/193 (32%), Gaps = 5/193 (2%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
           S  E    +P+ WE      L+  +N +  K  E          +     +         
Sbjct: 93  SEEEKPFELPEGWEWVRVADLMEVINGRAYKKHEMLQTGTPLLRVGNLFTSNEWYYSDLQ 152

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
            +  + ++ G++++ +              +    I             +  ++   + S
Sbjct: 153 LDENKYINNGDLIYAWSASFGPFIWTGEKVIYHYHIW--KLNLFAEEYSNKYFIHDFLLS 210

Query: 340 YDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
             +     + G+G     +  E +++  + +PPI EQ  I   I   T   D L ++   
Sbjct: 211 --ITDKIKSQGNGIAMLHMTKEKMEQQIIALPPINEQQQIVRKIRELTVLCDQLEQQSLT 268

Query: 399 SIVLLKERRSSFI 411
           S+   ++   + +
Sbjct: 269 SLDAHQQLVETLL 281



 Score = 56.3 bits (134), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 31/202 (15%), Positives = 62/202 (30%), Gaps = 13/202 (6%)

Query: 20  AIPKHWKVVPIKRFTKLNTG-----RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
            +P+ W+   I   T ++ G     +         Y+ + +V+ G       +    +  
Sbjct: 377 ELPEGWEWCRIDDLTFVSGGIQKQPKRRPVKNHFPYLRVANVQRGDINIDKLERFEVEPH 436

Query: 75  TSTVSIFAKGQILY----GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELL----QG 126
                   K  IL     G      R AI       C  Q  +++ + ++          
Sbjct: 437 ELAFWSLEKNDILIVEGNGSADEIGRCAIWHAPIEKCVYQNHLIRVRGIIEGYQEFIALY 496

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
                 + +        + + +     I  I +P+PPL +Q LI  +I    +  + L T
Sbjct: 497 LNSPSGIKEMQRLAVTTSGLYNLSVGKIRGITIPLPPLNQQNLILSRIREYILACENLKT 556

Query: 187 ERIRFIELLKEKKQALVSYIVT 208
                 +       AL    + 
Sbjct: 557 STQSAQQTQLHLADALTDAAIN 578


>gi|315651210|ref|ZP_07904240.1| 50S ribosomal protein L10 [Eubacterium saburreum DSM 3986]
 gi|315486506|gb|EFU76858.1| 50S ribosomal protein L10 [Eubacterium saburreum DSM 3986]
          Length = 367

 Score = 93.7 bits (231), Expect = 5e-17,   Method: Composition-based stats.
 Identities = 51/395 (12%), Positives = 127/395 (32%), Gaps = 43/395 (10%)

Query: 30  IKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYG 89
           +     +  G+  +            V S  G  +P  G       +  +++ K  +L G
Sbjct: 8   LSELVTIKYGKNQKK-----------VHSDDGN-IPIYGTGGLMGYAKTALYDKPSVLIG 55

Query: 90  KLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHA 149
           + G   +   +        T F  +   D++      +++S+     +    EG T+   
Sbjct: 56  RKGTIGKVKYVEHPFWTVDTLFYTIINTDIVTPKYLYYVMSL---IDLNNYNEGTTIPSL 112

Query: 150 DWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTK 209
             + +  +   IP + EQ ++   +      ID  I         L+++ +A+ S     
Sbjct: 113 RTETLNRLEFNIPSIEEQEIVLSCLNP----IDEKIELNNAINNNLEQQAKAIFSKEFLT 168

Query: 210 GLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTE--LNRKNTKLIESNILSLSYGNIIQK 267
                       +E +    +   +      +    + +      E+ I  L    + Q 
Sbjct: 169 ------------LETLPDGWNQASLIDIADYLNGLAMQKYRPTADETGIPVLKIKELRQT 216

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
               N  L   + ++  I+  G+++F +         L          +      V  + 
Sbjct: 217 CCDDNSELCSPNIKSEYIIQDGDVIFSWSGSL-----LVDFWCGGICGLNQHLFKVTSNK 271

Query: 328 IDSTYLAWLMRSYDLCKVFYAM-GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
            +  +     + +    +  A   +     +K +++ +  VL+P   +   I  ++    
Sbjct: 272 YNKWFYYAWTKHHLDRFIAVAADKATTMGHIKRDELAKAKVLIPNEADYQRIGALL---- 327

Query: 387 ARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
             I  L+         L   R + +   ++G++D+
Sbjct: 328 QPIYDLIISNRIENKKLSSLRDTLLPKLMSGELDV 362



 Score = 50.6 bits (119), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 25/167 (14%), Positives = 56/167 (33%), Gaps = 4/167 (2%)

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
           K  +   S ++++ YG   +K+ + +  +               +  +   L   K ++ 
Sbjct: 2   KFKRYALSELVTIKYGKNQKKVHSDDGNIPIYGTGGLMGYAKTALYDKPSVLIGRKGTIG 61

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLP 366
             + +E    T   +       D     +L     L  +          SL+ E + RL 
Sbjct: 62  KVKYVEHPFWTVDTLFYTIINTDIVTPKYLYYVMSLIDLNNYNEGTTIPSLRTETLNRLE 121

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
             +P I+EQ     ++      ID  +E        L+++  +  + 
Sbjct: 122 FNIPSIEEQ----EIVLSCLNPIDEKIELNNAINNNLEQQAKAIFSK 164


>gi|126176529|ref|YP_001052678.1| restriction modification system DNA specificity subunit [Shewanella
           baltica OS155]
 gi|125999734|gb|ABN63809.1| restriction modification system DNA specificity domain [Shewanella
           baltica OS155]
          Length = 363

 Score = 93.7 bits (231), Expect = 5e-17,   Method: Composition-based stats.
 Identities = 76/393 (19%), Positives = 135/393 (34%), Gaps = 36/393 (9%)

Query: 30  IKRFTKLNTGR-TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
           +           +    +DI YIGLE V   T + L K  +      S    F KG IL+
Sbjct: 6   LNEVADEIRESFSPTPDEDIPYIGLEHVSQQTLQLLGKGSSLNVE--SNKYKFKKGDILF 63

Query: 89  GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSH 148
           G L PY RK  IA FDG+CST++ V++PK         + L+ +                
Sbjct: 64  GTLRPYFRKVTIAPFDGVCSTEYSVIRPKKADYTNFVFYFLANEKFIEYATTNSVGARPR 123

Query: 149 ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVT 208
             WK   +  +      E+  I  K+ A    I+       R I+LL+E  + L      
Sbjct: 124 TKWKLFSDYKVRKTRNQEKFDIGFKLRALDDLIEN----NRRRIQLLEESARLLYQEWFV 179

Query: 209 KGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKL 268
               P  ++    ++ +  VP+ WE KP   + T    K  K                ++
Sbjct: 180 HLRFPGHEL----VKVIDGVPEGWEKKPIKQIATLNYGKALKAEVRIPGPFPVYGSSGEV 235

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
                     S+E   +  PG +V R  ++ +               + + +  +     
Sbjct: 236 G---------SHEKALVKGPGIVVGRKGNVGSI------------FWVNTDFYPIDTVYF 274

Query: 329 DSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
            S   + L   + L  V +         L  +      +L+P  K        ++     
Sbjct: 275 ISAEESSLFLYHALQNVQFINTDVAVPGLNRDMAYSREILIPDHKNYQR---FLSEV-QP 330

Query: 389 IDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           I   +  ++     L + R   +   ++G++ +
Sbjct: 331 IQKQINNLQDYNNKLAQARDLLLPKLMSGELTV 363



 Score = 42.1 bits (97), Expect = 0.15,   Method: Composition-based stats.
 Identities = 25/184 (13%), Positives = 56/184 (30%), Gaps = 20/184 (10%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           +P+ W+  PIK+   LN G+  ++   I                P  G+S +  +   ++
Sbjct: 195 VPEGWEKKPIKQIATLNYGKALKAEVRIP------------GPFPVYGSSGEVGSHEKAL 242

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
                I+ G+ G       +        T + +   +  L              Q ++ I
Sbjct: 243 VKGPGIVVGRKGNVGSIFWVNTDFYPIDTVYFISAEESSL--------FLYHALQNVQFI 294

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
                +   +     +  + IP          ++     +I+ L     +  +       
Sbjct: 295 NTDVAVPGLNRDMAYSREILIPDHKNYQRFLSEVQPIQKQINNLQDYNNKLAQARDLLLP 354

Query: 201 ALVS 204
            L+S
Sbjct: 355 KLMS 358


>gi|83647701|ref|YP_436136.1| restriction endonuclease S subunit [Hahella chejuensis KCTC 2396]
 gi|83635744|gb|ABC31711.1| Restriction endonuclease S subunit [Hahella chejuensis KCTC 2396]
          Length = 406

 Score = 93.7 bits (231), Expect = 5e-17,   Method: Composition-based stats.
 Identities = 62/420 (14%), Positives = 140/420 (33%), Gaps = 34/420 (8%)

Query: 24  HWKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGT---GKYLPKDGNSRQSDTS 76
            W  V +     +  G+T        +    + ++DV+      G +     +   +   
Sbjct: 2   SWDRVGLSTVADVFNGKTPSKAEQRDEGFPVLKIKDVDENFKFRGAFQSFVDDEFYAKHK 61

Query: 77  TVSIFAKGQILYGK------LGPYLRKAIIADFDGICSTQFLVLQPKDVL--PELLQGWL 128
              I     ++         +G     A     D + + ++LV + K  +  P+ L  WL
Sbjct: 62  AKKIQLHDSMILNAAHNSDYVGSKQYCAEEDVVDSVATGEWLVCRAKQGVLSPKFLNFWL 121

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
            S      ++ + +G    H   K +  + +P+PPL  Q  I   +              
Sbjct: 122 RSEATRFEMKGLVKG---IHLYPKDVARLEIPLPPLETQKQIAAILEKADQLRKDCQQME 178

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN 248
                L     Q++   +     +P    K      +  +   +   PF + +   + ++
Sbjct: 179 QELNNLA----QSVFMDMFG---DPVSNPKGWNKASLRSISTKFNDGPFGSNLKTSHYRD 231

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
           + +    + ++  G               E+ E +    PG+IV   +   N +  +   
Sbjct: 232 SGVQVIRLTNIGTGWFKNDDRAFVSVEHAETLEKFH-CKPGDIVIATLGDPNLRACIIPD 290

Query: 309 QVMERGIITSAYMAVKPHGID--STYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRL 365
           +V    I  +  +   P+       YL   +      +       G  R  +    +  +
Sbjct: 291 EVPL-AINKADCVHCVPNTKIVRKEYLVEFLNLPSTLRSIENKLHGQTRTRISSGQLAEV 349

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGES 425
            VL+PP+ EQ    N I +    +  L    +   V  ++  +S +  A  G+++++ ++
Sbjct: 350 DVLIPPLSEQDKFMNAIWLRDKELKRL----QDQNVAFEDLFNSLMQKAFNGELNIKNKA 405



 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 41/205 (20%), Positives = 69/205 (33%), Gaps = 18/205 (8%)

Query: 22  PKHWKVVPIKRFT-KLNTGRTSES-------GKDIIYIGLEDVESGTGKYLPK-DGNSRQ 72
           PK W    ++  + K N G    +          +  I L ++ +G  K   +   +   
Sbjct: 200 PKGWNKASLRSISTKFNDGPFGSNLKTSHYRDSGVQVIRLTNIGTGWFKNDDRAFVSVEH 259

Query: 73  SDTSTVSIFAKGQILYGKLG-PYLRKAIIADFD--GICSTQFLVLQPKDVLPELLQ--GW 127
           ++T        G I+   LG P LR  II D     I     +   P   +        +
Sbjct: 260 AETLEKFHCKPGDIVIATLGDPNLRACIIPDEVPLAINKADCVHCVPNTKIVRKEYLVEF 319

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
           L      + IE    G T +      +  + + IPPL+EQ      I      +  L  +
Sbjct: 320 LNLPSTLRSIENKLHGQTRTRISSGQLAEVDVLIPPLSEQDKFMNAIWLRDKELKRLQDQ 379

Query: 188 RIRFIELLKEKKQALVSYIVTKGLN 212
            + F +L      +L+       LN
Sbjct: 380 NVAFEDLFN----SLMQKAFNGELN 400


>gi|16272178|ref|NP_438384.1| type I restriction/modification specificity protein [Haemophilus
           influenzae Rd KW20]
 gi|260580902|ref|ZP_05848726.1| type I restriction/modification specificity protein [Haemophilus
           influenzae RdAW]
 gi|12229974|sp|P71344|T1SI_HAEIN RecName: Full=Putative type I restriction enzyme specificity
           protein HI_0216; Short=S protein
 gi|1573175|gb|AAC21883.1| type I restriction/modification specificity protein (hsdS)
           [Haemophilus influenzae Rd KW20]
 gi|260092391|gb|EEW76330.1| type I restriction/modification specificity protein [Haemophilus
           influenzae RdAW]
          Length = 385

 Score = 93.7 bits (231), Expect = 5e-17,   Method: Composition-based stats.
 Identities = 64/386 (16%), Positives = 119/386 (30%), Gaps = 35/386 (9%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           +  P+     +           +           +G       N+ Q      +   +G+
Sbjct: 18  EWKPLDEVANIVNNARKPVKSSLRV---------SGNIPYYGANNIQDYVEGYT--HEGE 66

Query: 86  ILY----GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            +     G           A      +    V+  K+ L        L+        A  
Sbjct: 67  FVLIAEDGSASLENYSIQWAVGKFWANNHVHVVNGKEKLNNRFLYHYLTNMNFIPFLA-- 124

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            G   +      +  IP+PIPPL+ Q  I + + A T     L +E    +      +Q 
Sbjct: 125 -GKERAKLTKAKLQQIPIPIPPLSVQTEIVKILDALTALTSELTSELTSELTSELILRQK 183

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
              Y   K LN D   K   +  +G V      K           KN      +I     
Sbjct: 184 QYEYYREKLLNIDEMNK---VIELGDVGPVRMCKRIL--------KNQTASSGDIPFYKI 232

Query: 262 GNIIQKLETRNMGLKPESYE-TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
           G   +K +        + Y+  Y     G+I+                   E      + 
Sbjct: 233 GTFGKKPDAYISNELFQEYKQKYSYPKKGDILISASGTIGRTVIF----DGENSYFQDSN 288

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
           +    +        +L   Y + K   A G G  Q L  +++K++ + +PP+KEQ  I +
Sbjct: 289 IVWIDNDETLVLNKYLYHFYKIAKWGIAEG-GTIQRLYNDNLKKVKISIPPLKEQHRIVS 347

Query: 381 VINVETARIDVLVEKIEQSIVLLKER 406
           +++      + + E +  +I   ++R
Sbjct: 348 ILDKFETLTNSITEGLPLAIEQSQKR 373


>gi|323143495|ref|ZP_08078178.1| type I restriction modification DNA specificity domain protein
           [Succinatimonas hippei YIT 12066]
 gi|322416780|gb|EFY07431.1| type I restriction modification DNA specificity domain protein
           [Succinatimonas hippei YIT 12066]
          Length = 401

 Score = 93.7 bits (231), Expect = 6e-17,   Method: Composition-based stats.
 Identities = 43/408 (10%), Positives = 113/408 (27%), Gaps = 31/408 (7%)

Query: 29  PIKRFT-KLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
            +K    K+ +G T  + +      +I ++   +             ++     ++    
Sbjct: 5   KLKDICTKIYSGGTPSTKEPKYWGGNIPWLSSSESGKDFIYETDNYISNLALKETSTKYV 64

Query: 82  AKGQILYGKLGP--YLRKAIIADFDGICSTQFLVLQPK-DVLPELLQGWLLSIDVTQRIE 138
           +K  ++    G      +          +   + L+     +  L   + L    ++   
Sbjct: 65  SKNTVIIATAGEGKTRGQVSYLKIGACINQSLIALETDAKKVDSLFLYYYLKNSYSRIRS 124

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
                          +  + + IP ++EQ+ I + +    ++I     +      L K  
Sbjct: 125 LSNATGIRGSLSGARLKELIVFIPDVSEQLKISDLLYKLDLKIQNNKKQIEILETLAKTI 184

Query: 199 KQALVSYIVTKGLNPDVKMKDSG------IEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
                              K SG       E    +P+ W       + + +  K  +  
Sbjct: 185 YDYWFVQ-FDFPNEEGKPYKSSGGKMVWNEELKREIPEGWRCIKLCNIFSFIKGKIPQK- 242

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
                 L         +   + +       Y +            +  D  +     V  
Sbjct: 243 ------LLEQKEPSLEQYITIDVANGGTPLYCLPALMPYCNSETIMVMDGAASGDVYVGI 296

Query: 313 RGIITSAYMAVKPHGID-STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
            G++ S +  +K    D S    +L+ +        A           + ++ + + +P 
Sbjct: 297 DGVLGSTFSMLKSKREDISNSYIYLILNSLKKIYKKANTGSTVPHANRKYIENMVIALPN 356

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
                     ++ +   I   ++  +  I  L   +S  +   + GQ+
Sbjct: 357 D------CKFLSRKFDEIYAQIKLQKLLIKNLNSLKSFLLPLLMNGQV 398



 Score = 42.5 bits (98), Expect = 0.15,   Method: Composition-based stats.
 Identities = 33/200 (16%), Positives = 69/200 (34%), Gaps = 17/200 (8%)

Query: 10  YKDSG--VQWIGA----IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKY 63
           YK SG  + W       IP+ W+ + +        G+  +   +     LE         
Sbjct: 202 YKSSGGKMVWNEELKREIPEGWRCIKLCNIFSFIKGKIPQKLLEQKEPSLE----QYITI 257

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPEL 123
              +G +       +  +   + +    G       +   DG+  + F +L+ K      
Sbjct: 258 DVANGGTPLYCLPALMPYCNSETIMVMDGAASGDVYV-GIDGVLGSTFSMLKSKREDISN 316

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
              +L+   + +  +    G+T+ HA+ K I N+ + +P         + +  +   I  
Sbjct: 317 SYIYLILNSLKKIYKKANTGSTVPHANRKYIENMVIALPNDC------KFLSRKFDEIYA 370

Query: 184 LITERIRFIELLKEKKQALV 203
            I  +   I+ L   K  L+
Sbjct: 371 QIKLQKLLIKNLNSLKSFLL 390


>gi|49658898|emb|CAF28524.1| putative HsdS-like DNA methylase [Yersinia pseudotuberculosis]
          Length = 449

 Score = 93.7 bits (231), Expect = 6e-17,   Method: Composition-based stats.
 Identities = 71/473 (15%), Positives = 140/473 (29%), Gaps = 93/473 (19%)

Query: 14  GVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
           G +W+         + +  F  L  G      K           SG    +   G S   
Sbjct: 2   GSEWLD--------ITLGEFLNLKRGYDLPKSKR---------NSGNIPIISSSGFSGNH 44

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
           D     +     ++ G+ G       + +     +T   V   K   P      L +I+ 
Sbjct: 45  DKP---MVYGPGVVTGRYGTIGEVFYVNESYWPLNTTLYVDDFKGNSPLFCYYLLQTINF 101

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPP-LAEQVLIREKIIAETVRIDTLITERIRFI 192
               +     A +   +   I    + +P  +  Q  I   +     +++  IT  +   
Sbjct: 102 RAYSDK----AAVPGINRNHIHMANIRVPKSVVTQDNIAVVL----KKLEDKITNNLEIN 153

Query: 193 ELLKEKKQALVSYIVTKG------------------------------------------ 210
           + L++  QAL +                                                
Sbjct: 154 KTLEQITQALFNSWFVDFEPVKAKIAVLEAGGSQEEATLAAMTAISGKDADSLAIFEREH 213

Query: 211 ------LNPDVKMKDSGIEW--VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
                 L    ++  S ++   +G  P+ W V    + VTEL R  +         ++  
Sbjct: 214 PEQYTELKATAELFPSAMQESELGETPEGWNVCNIKSSVTELRRGISPKYTEETDGVTVI 273

Query: 263 N--IIQKLETRNMGLKPESYETYQI----VDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
           N   I+         +    +   I    +  G+++          R      + E  I 
Sbjct: 274 NQKCIRNHTINFSLARLHDSKKRTISGRELQVGDVLVNSTGTGTLGRLAPIRYLAETVIA 333

Query: 317 TSAYMAVKPHGIDSTYLAW--LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKE 374
            S    V+      T      L+  Y+        GS  +  L+ E ++ +    PP+  
Sbjct: 334 DSHVTVVRADTAKITASYLSGLLMKYEQFIESNGSGSTGQTELRKEVLEEIYFPCPPL-- 391

Query: 375 QFDI-TNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
              I   + +  T R++  +  +EQ I +L + R + +   ++G+I L    Q
Sbjct: 392 ---ILGQLFDKFTNRLNAKLSLLEQQITVLSQLRDTLLPKLLSGEITLPESEQ 441


>gi|327383090|gb|AEA54566.1| hypothetical protein LC2W_2234 [Lactobacillus casei LC2W]
          Length = 608

 Score = 93.3 bits (230), Expect = 6e-17,   Method: Composition-based stats.
 Identities = 75/402 (18%), Positives = 131/402 (32%), Gaps = 26/402 (6%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+    K    +     +     I  +  ED+ S  G+          S       F   
Sbjct: 221 WEKRKFKDL--VVRVNKTSDDSTIPSVEFEDIISKQGRLNKDVRLKINSKQGIY--FEPQ 276

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            +L+GKL PYL+  +   F G     F VL+    +       L+     Q +  I  G 
Sbjct: 277 DVLFGKLRPYLQNWLFPSFYGRAVGDFWVLRANSSVLSEYLFVLIQSPRFQIVANISSGT 336

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
            M  +DW  + N   PIP  +EQ     KI      +D LI      +  LK+ K   + 
Sbjct: 337 KMPRSDWNTVSNTSFPIPVQSEQ----RKIWQLFNVLDNLIAATQDKLSFLKKMKMFFLQ 392

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
            I     +   +++  G      V  H+++     +  E   K   L +           
Sbjct: 393 QIFPTKNHDVPQIRFDG---FTDVWSHYKLGSLMRIDKEQEVKKELLTDIQKGFYVLAMR 449

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRF----------IDLQNDKRSLRSAQVMERG 314
              ++      KP        V   + +              +L    R L +A   +  
Sbjct: 450 TFSMDGYIDHSKPYWLNHLDNVSDDKFLLPREFAILDADMDANLPKIGRVLLNASSEKYL 509

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIK 373
           +           G D  ++  LMR   + +      +G   + L  ++V +  +LVP   
Sbjct: 510 LAAHVRKIQVKSGNDPIFIYALMRGNSVHERLKLEANGSISKRLLDKNVYKQSILVPNRS 569

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           EQ  I          ++  +   +Q I +LK+ + S +    
Sbjct: 570 EQSRIGR----LFFLLETTITLHQQKIKMLKQVKKSCLQNLF 607



 Score = 89.1 bits (219), Expect = 1e-15,   Method: Composition-based stats.
 Identities = 51/398 (12%), Positives = 115/398 (28%), Gaps = 40/398 (10%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPK-------------DGNSR 71
           W+   +     + T   +      +   +    +    Y+ +               + +
Sbjct: 15  WEKRKLGEIFNVVTDYVANGSFKSLRQRVSTYSNPNFAYMIRLQDASNNWKGPWLYTDQQ 74

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADF--DGICSTQFLVLQPKDVLPELLQGWLL 129
                  +    G IL   +G   +  ++ D       +   ++L+        L   L 
Sbjct: 75  SYSFLAKTKLNPGDILMSNVGSVGKFFLVPDLDRPMTLAPNAILLRSMTYSTYFLFQLLQ 134

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
           +  +T+ I            +   +  I   +P L E  ++ + +      +D LI    
Sbjct: 135 TSSMTESINEKTTPGVQQKINKTDLKKIITNVPTLNESSMVGQML----SLLDNLIAATQ 190

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNT 249
             I+ L++ K+AL+  +  +              W          K  F  +     K +
Sbjct: 191 DKIDALEQAKKALLQRLFDQ-------------SWRFKGYSDPWEKRKFKDLVVRVNKTS 237

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
                  +        Q    +++ LK  S +     +P +++F  +          S  
Sbjct: 238 DDSTIPSVEFEDIISKQGRLNKDVRLKINS-KQGIYFEPQDVLFGKLRPYLQNWLFPSFY 296

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
                 +   ++      + S YL  L++S     V             +  V      +
Sbjct: 297 GR---AVGDFWVLRANSSVLSEYLFVLIQSPRFQIVANISSGTKMPRSDWNTVSNTSFPI 353

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
           P   EQ  I          +D L+   +  +  LK+ +
Sbjct: 354 PVQSEQRKI----WQLFNVLDNLIAATQDKLSFLKKMK 387



 Score = 69.4 bits (168), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 18/150 (12%), Positives = 58/150 (38%), Gaps = 7/150 (4%)

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
           K        +  S+     ++PG+I+   +             +     +    + ++  
Sbjct: 65  KGPWLYTDQQSYSFLAKTKLNPGDILMSNVGSVGK--FFLVPDLDRPMTLAPNAILLRSM 122

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
              + +L  L+++  + +      + G++Q +   D+K++   VP + E    ++++   
Sbjct: 123 TYSTYFLFQLLQTSSMTESINEKTTPGVQQKINKTDLKKIITNVPTLNE----SSMVGQM 178

Query: 386 TARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            + +D L+   +  I  L++ + + +    
Sbjct: 179 LSLLDNLIAATQDKIDALEQAKKALLQRLF 208


>gi|182412909|ref|YP_001817975.1| restriction modification system DNA specificity subunit [Opitutus
           terrae PB90-1]
 gi|177840123|gb|ACB74375.1| restriction modification system DNA specificity domain [Opitutus
           terrae PB90-1]
          Length = 437

 Score = 93.3 bits (230), Expect = 6e-17,   Method: Composition-based stats.
 Identities = 52/409 (12%), Positives = 114/409 (27%), Gaps = 27/409 (6%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+   +     ++T R  +  K +  + +        +                 +  K 
Sbjct: 30  WETQTLGSLVTISTERVGD-NKCVP-MSITSGVGLVSQMEKFGRVIAGDSYKNYLLLKKN 87

Query: 85  QILYGKLGPYLRK------------AIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
              Y K                   A + +    C          + L  L  G L    
Sbjct: 88  DFAYNKSATKEYPEGFIARYSGEALAAVPNSIFTCFRINGDSPIPEYLNYLFLGNLHGQW 147

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           + + IE           D   +  +P+P+P        ++KI      +D LI    + +
Sbjct: 148 LRKFIEVGARAHGSLSIDEDDLLALPVPLPAGRSSRAEQQKIAGCLGTLDELIGAESQNL 207

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMK----DSGIEWVGLVPDHWEVKPFFALVTELNRKN 248
           + LK  K+ L+  +  +      +++     S  +W  +            ++       
Sbjct: 208 DALKAHKKGLMRQLFPREGETLPRLRFAEFHSAPKWEMVPLGAIAEIKLGKMLDCQKHTT 267

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
             L+          N +       M       + +  +  G++V          R+    
Sbjct: 268 GLLLPYLNNIAIRWNAVDTSNLPEMYFDDHELDRFG-LKAGDVVVCEGG--EPGRAAVWD 324

Query: 309 QVMERGIITSAYMAVKPH-GIDSTYLAWLMRSYDLCKVFYAM-GSGLRQSLKFEDVKRLP 366
             +       A   V+ +   +   L   + +      F  +   G  + L  E   +L 
Sbjct: 325 GRLPDLKFQKAVHRVRFNVPFEPHLLVQYLEAIAGTPQFEKLFTGGGIKHLTRETFAKLE 384

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           V +    EQ  I   +    + +D L+      +V L+  +   +    
Sbjct: 385 VPLISESEQHRIATCL----SSLDDLIAAQSDRLVALQTHKQGLLQQLF 429


>gi|113866036|ref|YP_724525.1| Type I restriction-modification system specificity subunit
           [Ralstonia eutropha H16]
 gi|113524812|emb|CAJ91157.1| Type I restriction-modification system specificity subunit
           [Ralstonia eutropha H16]
          Length = 422

 Score = 93.3 bits (230), Expect = 6e-17,   Method: Composition-based stats.
 Identities = 55/422 (13%), Positives = 134/422 (31%), Gaps = 45/422 (10%)

Query: 30  IKRFTKLNTGRTSESGKDI-----IYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           +     +  G+       +      Y+  E +         +               A+G
Sbjct: 7   LGDHITVQKGKAPLVTGYVGKGAEPYLSPEYLRG-------RAPADLAKAGPDAVRAAEG 59

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
           + +    G    +   +    + ST   +             + ++    + ++A   G 
Sbjct: 60  ETILLWDGSNAGEFFRSKVGLVASTMTKISPSSVF--RPAYFFHVAKQAERFLKAQTNGT 117

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
            + H D + +  I +  P   EQ L+ E +      I          I  LK  KQ L+ 
Sbjct: 118 GIPHVDRELLEGIKVFCPGSTEQQLLAEILDTLDTAIYE----TEAIIAKLKAVKQGLLH 173

Query: 205 YIVTKGLNPDVKMKDSGIE--------WVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
            ++T+G++ + +++    E         +G +P+ W + P       + +  T       
Sbjct: 174 DLLTRGIDANGELRPPQAEAPHLYESSPLGWIPNEWGLAPTATRCHLITKGTTPAANEMW 233

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQI-------------VDPGEIVFRFIDLQNDKR 303
              +    ++       G       T+++                G+++   +     K 
Sbjct: 234 QGGAGIRFLRVDNLSFDGQLDLDASTFRVSLATHKGFLARSRCLEGDVLTNIVGPPLGKL 293

Query: 304 SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG--SGLRQSLKFED 361
            L + ++ E  I  +  +      +   +L   + S             +  + +L    
Sbjct: 294 GLVTKEIGEVNINQAIALFRPTEQLLPKFLLIWLSSSISQSWLRNRAKQTSGQVNLTLAL 353

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            + LP+    I EQ  I + ++    +I       E+ I  ++  +S  +   +TG++ +
Sbjct: 354 CQELPLPRMTINEQQAIVDRVDAAQEQIWC----EEELIRKMRLEKSGLMDDLLTGRVRV 409

Query: 422 RG 423
           + 
Sbjct: 410 KP 411


>gi|261884856|ref|ZP_06008895.1| type I restriction-modification system, S subunit [Campylobacter
           fetus subsp. venerealis str. Azul-94]
          Length = 319

 Score = 93.3 bits (230), Expect = 6e-17,   Method: Composition-based stats.
 Identities = 31/209 (14%), Positives = 85/209 (40%), Gaps = 16/209 (7%)

Query: 226 GLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI 285
           G +P  WEV     +   + RKNT   ++ +   +   +I++       +  +    Y +
Sbjct: 11  GRIPKEWEVVRLGDVFQRVTRKNTVNSDNVLTISAQNGLIKQENFFTKSVASKDLSNYIL 70

Query: 286 VDPGEIVFRFIDLQND-KRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCK 344
           ++ GE  +           + +   +   G++++ Y+  K    +S +      +  L K
Sbjct: 71  LEKGEFAYNKSYSSGYPMGATKRLNLYNYGVLSNLYIYFKIKNGNSDFYEQYFEAGLLNK 130

Query: 345 VFYAMGS-GLRQ----SLKFEDVKRLPVLVPPIKEQFDITNVINVET---ARIDVLVEKI 396
             + +   G R     ++   D   + + +PP+KEQ  I ++++      + +D L+ + 
Sbjct: 131 EIHQIAQEGARNHGLLNISVVDFFNILIALPPLKEQEKIADILSTWDMAISNLDELIIQK 190

Query: 397 EQSIVLLKERRSSFIAAAVTGQIDLRGES 425
           ++        +++ +   ++ +I  +  +
Sbjct: 191 QK-------LKTALMQNLLSAKIRFKEFT 212



 Score = 78.3 bits (191), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 48/289 (16%), Positives = 95/289 (32%), Gaps = 19/289 (6%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDG 68
            YK + V   G IPK W+VV +    +  T + + +  +++ I  ++       +  K  
Sbjct: 4   SYKQTAV---GRIPKEWEVVRLGDVFQRVTRKNTVNSDNVLTISAQNGLIKQENFFTK-- 58

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD-----FDGICSTQFLVLQPKDVLPEL 123
           +    D S   +  KG+  Y K                   G+ S  ++  + K+   + 
Sbjct: 59  SVASKDLSNYILLEKGEFAYNKSYSSGYPMGATKRLNLYNYGVLSNLYIYFKIKNGNSDF 118

Query: 124 LQGWLLSIDVTQRIEAICEGATMSH----ADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
            + +  +  + + I  I +    +H           NI + +PPL EQ  I + +    +
Sbjct: 119 YEQYFEAGLLNKEIHQIAQEGARNHGLLNISVVDFFNILIALPPLKEQEKIADILSTWDM 178

Query: 180 RIDTLITERIRFIELLKEKKQALVSYI--VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPF 237
            I  L    I+  +L     Q L+S      +   P  ++K   I        +      
Sbjct: 179 AISNLDELIIQKQKLKTALMQNLLSAKIRFKEFTAPWQEVKLGDILDYEQPTKYIVN--- 235

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIV 286
                    K   L       L Y +    +  +   +  + + T    
Sbjct: 236 NVAYVNDMYKIPVLTAGKSFILGYTDETNGIYDKLPVILFDDFTTDTKF 284


>gi|302346749|ref|YP_003815047.1| type I restriction modification DNA specificity domain protein
           [Prevotella melaninogenica ATCC 25845]
 gi|302150720|gb|ADK96981.1| type I restriction modification DNA specificity domain protein
           [Prevotella melaninogenica ATCC 25845]
          Length = 407

 Score = 93.3 bits (230), Expect = 7e-17,   Method: Composition-based stats.
 Identities = 54/417 (12%), Positives = 126/417 (30%), Gaps = 32/417 (7%)

Query: 26  KVVPIKR-FTKLNTGRT----SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           + V  K        G T    S++     Y+ + D+      +             +  I
Sbjct: 2   EYVKFKDVIINSQYGYTATETSQTEGTYKYLRITDIVPYYVNFDTVPFCKITEKDVSKYI 61

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQF------LVLQPKDVLPELLQGWLLSIDVT 134
             +G IL  + G       +    GI +T +       ++  K VLP  ++  L +    
Sbjct: 62  VKEGDILIARTGATTGYNYVV-PSGISNTVYASYLIRFIVDKKLVLPLFMKYVLKTQSYY 120

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             I     G+     + K      +P   L  Q  I   + +    I+       R I L
Sbjct: 121 GFINNYIGGSAQPGMNAKVFTKFNIPKLSLVTQQKIASILSSYDRLIEN----NTRRIRL 176

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
           L++  + L      +   P+ +  +  +  +        +K    L +    K+   +E 
Sbjct: 177 LEQMAENLYKEWFVRFRFPEHENVEI-VNGLPKGWKTIHIKELAQLKSGYAFKSEWFVEE 235

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDP-----GEIVFRFIDLQNDKRSLRS-- 307
                   + I  +            E            G++          K S+    
Sbjct: 236 GEAVAKIKD-IGNILMDTSNFSYVDKENCIKAKKFLLTTGDLTIALTGATIGKISIVPKH 294

Query: 308 -AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY-AMGSGLRQSLKFEDVKRL 365
              +     +   ++   P            +   +  +   +  S  + ++  E ++++
Sbjct: 295 KGNIYTNQRLGKFFLGDNPMEKLPFLYCLFKQESMVSNIVNLSNSSSAQPNISPEQIEKI 354

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
            +L        DI ++ N     +   +  +     LL  +R   +   ++G+++++
Sbjct: 355 KIL-----GNHDIISMYNKTCNPLFSNILALYSQNQLLTRQRDLLLPRLMSGKLEVK 406



 Score = 41.3 bits (95), Expect = 0.31,   Method: Composition-based stats.
 Identities = 27/196 (13%), Positives = 59/196 (30%), Gaps = 13/196 (6%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           +PK WK + IK   +L +G   +S     +      ++D+ +            +++   
Sbjct: 206 LPKGWKTIHIKELAQLKSGYAFKSEWFVEEGEAVAKIKDIGNILMDTSNFSYVDKENCIK 265

Query: 77  TVS-IFAKGQILYGKLGPYLRKAII---ADFDGICSTQ----FLVLQPKDVLPELLQGWL 128
               +   G +     G  + K  I      +   + +    FL   P + LP L   + 
Sbjct: 266 AKKFLLTTGDLTIALTGATIGKISIVPKHKGNIYTNQRLGKFFLGDNPMEKLPFLYCLFK 325

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
               V+  +      +   +   + I  I   +       +  +        I  L ++ 
Sbjct: 326 QESMVSNIVNLSNSSSAQPNISPEQIEKI-KILGNHDIISMYNKTCNPLFSNILALYSQN 384

Query: 189 IRFIELLKEKKQALVS 204
                        L+S
Sbjct: 385 QLLTRQRDLLLPRLMS 400


>gi|121610479|ref|YP_998286.1| restriction modification system DNA specificity subunit
           [Verminephrobacter eiseniae EF01-2]
 gi|121555119|gb|ABM59268.1| restriction modification system DNA specificity domain
           [Verminephrobacter eiseniae EF01-2]
          Length = 296

 Score = 93.3 bits (230), Expect = 7e-17,   Method: Composition-based stats.
 Identities = 41/291 (14%), Positives = 94/291 (32%), Gaps = 17/291 (5%)

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            +       G+ + + +   I  +P+ I   +EQ  I + +      ID LI    + ++
Sbjct: 6   QKYFLNSAAGSGVQNLNADIIKQLPILITKYSEQQKIADCL----SSIDQLIAAEAQKLD 61

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTE--LNRKNTKL 251
            LK  K+ L+  +         K++    +   +            + +    N  +   
Sbjct: 62  TLKAHKKGLMQQLFPAEGETLPKLRFPEFKDARVWASCDLGSRTIKVGSGITPNGGDKNY 121

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYET----YQIVDPGEIVFRFIDLQNDKRSLRS 307
           I +    +   NI       N     +           ++  ++            ++  
Sbjct: 122 INAGRPFIRSQNIDWGELLLNNVAFIDDETHASFVSTKINDSDVFLNITGASIGISAIAD 181

Query: 308 AQVMERGIITSAYMAVKP-HGIDSTYLAWLMRSYDLCKVFYAM-GSGLRQSLKFEDVKRL 365
           ++V+   +     +       ++ T+L   + S    +   +    G RQ L F  V+  
Sbjct: 182 SRVIGGNVNQHVCIIRLKQKELNPTFLNQYLLSQYGQRQIDSFQAGGNRQGLNFTQVRSF 241

Query: 366 PVLVPP-IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            +  P  ++EQ  I + +    + ID L+    Q    LK  +   +    
Sbjct: 242 SIPTPSKMEEQIRIADCL----SSIDELINVQSQKFEALKIHKKGLMQQLF 288



 Score = 72.1 bits (175), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 18/78 (23%), Positives = 32/78 (41%), Gaps = 5/78 (6%)

Query: 339 SYDLCKVF-YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
           S    K F  +      Q+L  + +K+LP+L+    EQ  I + +    + ID L+    
Sbjct: 2   SPTSQKYFLNSAAGSGVQNLNADIIKQLPILITKYSEQQKIADCL----SSIDQLIAAEA 57

Query: 398 QSIVLLKERRSSFIAAAV 415
           Q +  LK  +   +    
Sbjct: 58  QKLDTLKAHKKGLMQQLF 75


>gi|317481746|ref|ZP_07940778.1| type I restriction modification DNA specificity domain-containing
           protein [Bifidobacterium sp. 12_1_47BFAA]
 gi|316916860|gb|EFV38250.1| type I restriction modification DNA specificity domain-containing
           protein [Bifidobacterium sp. 12_1_47BFAA]
          Length = 335

 Score = 93.3 bits (230), Expect = 7e-17,   Method: Composition-based stats.
 Identities = 54/341 (15%), Positives = 121/341 (35%), Gaps = 21/341 (6%)

Query: 77  TVSIFAKGQILYGKLGPYLR---KAIIADFDGICSTQFLVLQP-KDVLPELLQGWLLSID 132
           T++++    I+       LR              +    V+Q         L  + ++ +
Sbjct: 9   TLTLYPSDSIVIVARSGILRHTIPVAKLRKPATVNQDIKVIQTVDSCDSSWLLQYFIASN 68

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
            T   E    G T+   D+  + +  + +P + EQ  I         R+D LIT   R  
Sbjct: 69  KTLLREYGKTGTTVESIDFAKMKSTALMVPYIEEQQAIGSF----FSRLDNLITLHQRKY 124

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           + L   K++++  +  K      +++ +G           E+    A            +
Sbjct: 125 DKLVIFKKSMLEKMFPKDGESVPEIRFAGFTDPWEQRKLGEIVSIGAGAPPSAFSAGNFL 184

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
              +  L+  +  Q    + +            +  G I+F           +R   + +
Sbjct: 185 YVKVDDLNESSHFQFDSAQRVDANTAVKP----IRKGSIIFAKRGAAILGNKVRV--LGK 238

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI 372
              I +  MA++P G+D+ +L   +    L ++     +     +  + ++  PV +P +
Sbjct: 239 TAYIDTNMMALEPRGVDADFLWLFINQTGLYRIAD---TSTIPQINNKHIEPYPVDIPNM 295

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            EQ  I        +R+D L+   ++ + LL++ + S +  
Sbjct: 296 AEQQAIGTF----FSRLDDLITLHQRKLELLQDIKKSLLDK 332



 Score = 54.8 bits (130), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 41/187 (21%), Positives = 75/187 (40%), Gaps = 14/187 (7%)

Query: 25  WKVVPIKRFTKLNTGRTSE--SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           W+   +     +  G      S  + +Y+ ++D+   +  +   D   R    + V    
Sbjct: 158 WEQRKLGEIVSIGAGAPPSAFSAGNFLYVKVDDLNESS--HFQFDSAQRVDANTAVKPIR 215

Query: 83  KGQILYGKLGP--YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
           KG I++ K G      K  +        T  + L+P+ V       +L        +  I
Sbjct: 216 KGSIIFAKRGAAILGNKVRVLGKTAYIDTNMMALEPRGVD----ADFLWLFINQTGLYRI 271

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
            + +T+   + K I   P+ IP +AEQ  I         R+D LIT   R +ELL++ K+
Sbjct: 272 ADTSTIPQINNKHIEPYPVDIPNMAEQQAIGTF----FSRLDDLITLHQRKLELLQDIKK 327

Query: 201 ALVSYIV 207
           +L+  + 
Sbjct: 328 SLLDKMF 334


>gi|281421788|ref|ZP_06252787.1| putative type I restriction enzyme EcoAI specificity protein
           [Prevotella copri DSM 18205]
 gi|281404146|gb|EFB34826.1| putative type I restriction enzyme EcoAI specificity protein
           [Prevotella copri DSM 18205]
          Length = 385

 Score = 93.3 bits (230), Expect = 7e-17,   Method: Composition-based stats.
 Identities = 43/387 (11%), Positives = 111/387 (28%), Gaps = 25/387 (6%)

Query: 27  VVPIKRFTKLNTGR-----TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI- 80
              ++  T +                  ++   ++ +             + +       
Sbjct: 2   WCKLEDITSVIGDGLHGTPQYNPNGAYYFVNGNNLSNRQIIIKNNTKRVSEEEYIKYKKP 61

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICS-TQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
             +  IL    G        ++   I   +         ++ E +   + S    +    
Sbjct: 62  LNEHTILVSINGTIGNIGTYSNEQIILGKSACYFNITPFLVKEYMCYVIESNYFQKYALL 121

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
              G+T+ +   K I    +PIPP++EQ  I  +I      I+ +   R     +++  K
Sbjct: 122 SATGSTIKNVPLKAINEFYVPIPPVSEQKRIVSEIDYLLAFINKVEEGRENLQSIVQSAK 181

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWV----------GLVPDHWEVKPFFALVTELNRKNT 249
             ++   +   L P    ++   E +             P + ++   +   T  +    
Sbjct: 182 SKILDLAIHGKLVPQDPNEEPASELLKRINPKAEITCDTPQYGKLLKGWCETTLKSLAKE 241

Query: 250 KLIESNILSLSYGNIIQKLET--RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
                +  +               + G++ +    Y  V         +  +        
Sbjct: 242 VFAGGDKPTEFTKEKTNGNIIPIYSNGVEKDGLYGYTNVARVIEPCLTVSARGTIGFTCI 301

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
             +    I+    +   P   D  Y+ + +    +              L    +K++ +
Sbjct: 302 RNIPFVPIVRLITIVPNP-AFDLKYMKFCLDCLLIWSE-----GSSIPQLTVPTIKKMQL 355

Query: 368 LVPPIKEQFDITNVINVETARIDVLVE 394
            +PP++EQ  I   I     +++ + E
Sbjct: 356 PLPPLQEQHRIVAKIEELFNQLNKIEE 382



 Score = 67.9 bits (164), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 25/185 (13%), Positives = 67/185 (36%), Gaps = 3/185 (1%)

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNIIQK--LETRNMGLKPESYETYQIVDPGEIVFR 294
             +++ +      +   +       GN +    +  +N   +    E  +   P      
Sbjct: 8   ITSVIGDGLHGTPQYNPNGAYYFVNGNNLSNRQIIIKNNTKRVSEEEYIKYKKPLNEHTI 67

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-L 353
            + +     ++ +    +  +  SA        +   Y+ +++ S    K      +G  
Sbjct: 68  LVSINGTIGNIGTYSNEQIILGKSACYFNITPFLVKEYMCYVIESNYFQKYALLSATGST 127

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            +++  + +    V +PP+ EQ  I + I+   A I+ + E  E    +++  +S  +  
Sbjct: 128 IKNVPLKAINEFYVPIPPVSEQKRIVSEIDYLLAFINKVEEGRENLQSIVQSAKSKILDL 187

Query: 414 AVTGQ 418
           A+ G+
Sbjct: 188 AIHGK 192


>gi|327490260|gb|EGF22048.1| type I restriction/modification specificity protein [Streptococcus
           sanguinis SK1058]
          Length = 392

 Score = 93.3 bits (230), Expect = 7e-17,   Method: Composition-based stats.
 Identities = 62/394 (15%), Positives = 126/394 (31%), Gaps = 25/394 (6%)

Query: 30  IKRFTKLNTGR-TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
           + + +   + R   +      Y+  E++ S  G              S   +F KG IL 
Sbjct: 17  LSQVSSYVSERIRIDEVNLDNYVSTENMISERGGVTKATKLPSGKTIS---VFQKGDILI 73

Query: 89  GKLGPYLRKAIIADFDGICSTQFLVLQPKDVL-PELLQGWLLSIDVTQRIEAICEGATMS 147
             + PY +K  +AD  G CS   LV++  + +    L   L S +         +G  M 
Sbjct: 74  SNIRPYFKKIWLADKSGGCSNDVLVVRANEKISNRFLYYVLSSDNFFDYAVGTSKGTKMP 133

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
             D K I    +PI  L EQ  I E + A   +I          +E      + +     
Sbjct: 134 RGDKKAIMKYKVPIYSLVEQEKIAEILRAFDKKIILNKQINHHLVEQAYAIYKEVCVNQK 193

Query: 208 TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK 267
                 +     S     G  P       +   +  +   +       + +L Y      
Sbjct: 194 DDSFVEETIKSISQKVITGKTPSTQNKDYYGGDLPFITIPDMHNNIYCVETLRY------ 247

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
                +  K E  +  + +    I+   I           + +           AV P  
Sbjct: 248 -----LTQKGEQTQPSKTLPKNSIIVSCIATPG-----LVSLLDRESQTNQQINAVIPSE 297

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
               YL   + S     +          +L     +++ +  P I+++++    +N    
Sbjct: 298 NQEYYLFLELLSKSKLIIELGSSGSTTYNLNKTQFEKIKISAPSIEKRYE----LNNLLR 353

Query: 388 RIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            + + + + +   + L + R + +   ++G+I +
Sbjct: 354 PLFLKINQTQHETIKLSQLRDTLLPKLLSGEISV 387


>gi|306825747|ref|ZP_07459086.1| restriction modification system DNA specificity subunit
           [Streptococcus sp. oral taxon 071 str. 73H25AP]
 gi|304432108|gb|EFM35085.1| restriction modification system DNA specificity subunit
           [Streptococcus sp. oral taxon 071 str. 73H25AP]
          Length = 408

 Score = 93.3 bits (230), Expect = 7e-17,   Method: Composition-based stats.
 Identities = 63/416 (15%), Positives = 131/416 (31%), Gaps = 31/416 (7%)

Query: 26  KVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQS--DTSTVS 79
           + +  + +       T ++ K        +  +++ S T         S +   + +  S
Sbjct: 3   EWIKAEEYCISVFDGTHDTPKVTESGYKLVTSKNILSNTLDLNSAYFISEEDFVNINKRS 62

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPE----LLQGWLLSIDVTQ 135
              +  IL+  +G     ++  +           +       +     L  +L S    +
Sbjct: 63  KVKQYDILFSMIGTVG--SLYFETSDTIDYAIKNIGVFSCCDKEKAEWLYYYLQSSYARK 120

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            I+    GA       +G+   P+P         I+  +      ID  I    +  + L
Sbjct: 121 YIKRYLNGAVQKFLPLRGLREFPVPQFNKELHNRIKILLN-----IDQKIQTNNQINQEL 175

Query: 196 KEKKQALVSYIVTKGLNPDV---KMKDSG------IEWVGLVPDHWEVKPFFALVTELNR 246
           +   + L  Y   +   PD      K SG       E    +P+ W V   + +    N 
Sbjct: 176 EAMAKTLYDYWFVQFDFPDQNGKPYKSSGGKMVYHPELKREIPEGWGVDSLWNIANFYNG 235

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
              +    +     Y  +I+  E  N   K        I     +    I          
Sbjct: 236 LAMQKYRPDTNEDDYLPVIKIREMMNSFSKDTEKARLDIPTEAVVERGDILFSWSATLEV 295

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY-DLCKVFYAMGSGLRQSLKFEDVKRL 365
                ERG +      V       T++ + ++SY  + K    +       +  + +K+ 
Sbjct: 296 IIWGKERGALNQHIFKVTSDTYPKTFIYFELKSYLKVFKSIAELRKTTMGHITQDHLKQA 355

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            ++VPPI+      + I+V+   I    + +E     L + R   +   + GQ+ +
Sbjct: 356 KIVVPPIEL----ISKIDVQLQHIMSQQQILENQNQELTQLRDWLLPMLMNGQVKV 407



 Score = 47.9 bits (112), Expect = 0.003,   Method: Composition-based stats.
 Identities = 30/191 (15%), Positives = 60/191 (31%), Gaps = 16/191 (8%)

Query: 20  AIPKHWKVVPIKRFTKLNTG-----RTSESGKD--IIYIGLEDVESGTGKYLPKDGNSRQ 72
            IP+ W V  +        G        ++ +D  +  I + ++ +       KD    +
Sbjct: 216 EIPEGWGVDSLWNIANFYNGLAMQKYRPDTNEDDYLPVIKIREMMNS----FSKDTEKAR 271

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
            D  T ++  +G IL+      L   I     G  +     +         +   L S  
Sbjct: 272 LDIPTEAVVERGDILFSWS-ATLEVIIWGKERGALNQHIFKVTSDTYPKTFIYFELKSYL 330

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
              +  A     TM H     +    + +PP+     +  KI  +   I +         
Sbjct: 331 KVFKSIAELRKTTMGHITQDHLKQAKIVVPPI----ELISKIDVQLQHIMSQQQILENQN 386

Query: 193 ELLKEKKQALV 203
           + L + +  L+
Sbjct: 387 QELTQLRDWLL 397


>gi|229491519|ref|ZP_04385340.1| putative type I restriction-modification system, S subunit
           [Rhodococcus erythropolis SK121]
 gi|229321200|gb|EEN87000.1| putative type I restriction-modification system, S subunit
           [Rhodococcus erythropolis SK121]
          Length = 416

 Score = 93.3 bits (230), Expect = 7e-17,   Method: Composition-based stats.
 Identities = 84/424 (19%), Positives = 149/424 (35%), Gaps = 46/424 (10%)

Query: 21  IPKHWKVVPIKRFTKL-NTGRTSESGKDIIY--IGLEDVESGTGKYLPKDGNSRQSDTST 77
           +P  W  VP+K  T   + G   E   D     +      +    +     ++   D+ +
Sbjct: 9   LPDSWNWVPLKFSTTFLSRGTAPEYVDDGPVRAVSQAANRATGIDWSRTRFHAHVGDSRS 68

Query: 78  VS-IFAKGQILYGKLGP-YLRKAIIA-----DFDGICSTQFLVLQPKDVL--PELLQGWL 128
           +        IL    G   L +         D   I      V +    +  P  L  W+
Sbjct: 69  LKGYLYSDDILINSTGTGTLGRIGYFAEGPDDRPCIADGHVTVTRADRNIIEPRFLFYWM 128

Query: 129 LSIDVTQRIEAI--CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
                   I +            +   +   P+ +PP+  Q  I + +  ET RID+L  
Sbjct: 129 SCAPYQDYIYSCLVTGATNQIELNRDQLAGTPVVVPPIHVQRRIVDLLDLETGRIDSLAA 188

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
            + R + LL+++  + +  IV             G   +   P    V+P   L+ +L R
Sbjct: 189 GQQRVLNLLEDRVDSRILEIV-------------GGSRLVD-PSGDAVQPAKRLLAKLAR 234

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLK--PESYETYQIVDPGEIVFRFIDLQNDKRS 304
                 E  I +   G +  +   R+ G      +    Q V+ G++V   +D      +
Sbjct: 235 ATKATGEV-ITAYRDGQVTSRSIRRSEGYTLAASTDPQGQGVEVGDVVVHGLD----GFA 289

Query: 305 LRSAQVMERGIITSAYMAVKP-HGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSL----KF 359
                    G  +  Y    P  G +  +   L+R   +        +  R+       +
Sbjct: 290 GAIGDSEADGNCSPVYHVCAPADGGNPAFYGRLLRVLAVENYLGLFATSTRERAVDFRSW 349

Query: 360 EDVKRLPVL-VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           +    +P+  V P+  Q +I  +I    A I  L +++ +   LL ERR + I AAVTGQ
Sbjct: 350 DLFGNIPIPQVEPL-VQHEIGQMI----ASIRPLRKEVVRFNALLAERRLALITAAVTGQ 404

Query: 419 IDLR 422
           ID+ 
Sbjct: 405 IDVT 408


>gi|56476903|ref|YP_158492.1| restriction modification system specificity subunit [Aromatoleum
           aromaticum EbN1]
 gi|56312946|emb|CAI07591.1| restriction modification system specificity subunit [Aromatoleum
           aromaticum EbN1]
          Length = 424

 Score = 93.3 bits (230), Expect = 7e-17,   Method: Composition-based stats.
 Identities = 47/407 (11%), Positives = 119/407 (29%), Gaps = 26/407 (6%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W+   +   +   T R  +     + I          +   +D +  Q   S  ++   
Sbjct: 23  SWEYTVLGDASTPVTERVGDRKLTPVSISAGIGFVPQAEKFGRDISGNQ--YSLYTLVRD 80

Query: 84  GQILYGKLGPY---LRKAIIADFDGICS--TQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           G  +Y K                 G  +    F+  + K         +    ++     
Sbjct: 81  GDFVYNKGNSLKFPQGCVYQLRGLGEVAAPNVFISFRLKQGFVAEYFQYCFEKNIHGAQL 140

Query: 139 AIC-----EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
                       + +        I +P P   EQ  I + +      +D +I  + R +E
Sbjct: 141 KKHITSGARSNGLLNVSKDQFYGISIPTPLPDEQQKIADCL----TSLDEVIAAQGRKVE 196

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGI-EWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
            +K  K+ L+  +  +      +++     +     P   +           ++ N    
Sbjct: 197 AVKTYKRGLMQQLFPREGETLPRLRFPEFRDSPKWEPTTLDGLVDLQSGGTPSKINLAFW 256

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPES--YETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
             +I  +S  ++ +            +   +  ++V  G ++     +   K ++    +
Sbjct: 257 NGSIPWVSAKDMKRLFLDDAEDHISAAAVDDGAKLVPAGTVLMLTRGMTLLK-NVPICVL 315

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA--MGSGLRQSLKFEDVKRLPVL 368
                      A+ P G  +     L+   +  ++     +       L  +++K L + 
Sbjct: 316 RREMSFNQDVKALLPKGETTGLFVALLLLGNKQRLLRMVDIAGHGTGKLNTDELKALKLA 375

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            P   EQ  I + +    + +D  +      +  LK  +   +    
Sbjct: 376 APKPAEQQRIADFL----SSLDAQIAAEADKLAALKIHKDGLMQQLF 418


>gi|313669545|ref|YP_004049970.1| restriction modification system DNA specificity domain
           [Sulfuricurvum kujiense DSM 16994]
 gi|313156742|gb|ADR35417.1| restriction modification system DNA specificity domain
           [Sulfuricurvum kujiense DSM 16994]
          Length = 417

 Score = 92.9 bits (229), Expect = 8e-17,   Method: Composition-based stats.
 Identities = 62/421 (14%), Positives = 133/421 (31%), Gaps = 38/421 (9%)

Query: 26  KVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGK--YLPKDGNSRQSDTSTVS 79
           K + +  +     G   +S          + + D    +     L K            S
Sbjct: 3   KTIQLGDYICTLKGFAFKSQWYEKDGHPIVKVSDFTENSIDTSKLVKIPFEVAEKYKKYS 62

Query: 80  IFAKGQILYGKLGPY-----------LRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL 128
           +     I+   +G +           ++    A    +     ++   K++    L   L
Sbjct: 63  L-KTNDIVIQTVGSWPSNPASVVGKTIKVPCQAHGSLLNQNAVIIYPDKNIDQSYLYYVL 121

Query: 129 LSIDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
              +    I    +GA   +      I    + +P    Q  I   +    V I+     
Sbjct: 122 KDQNFKDYIVGTAQGAASQASITLDAIKGFELELPDQEVQQKIASILSTYDVLIENNNRR 181

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPF---FALVTEL 244
                    E  ++L      K   P  +  +     +G +P  WEV P     + +T+ 
Sbjct: 182 ITILE----EMARSLYREWFVKFRFPGHEAVEMVDSELGQIPKGWEVSPLENLCSRITDG 237

Query: 245 NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYE------TYQIVDPGEIVFRFIDL 298
           + K+ K +       S  ++       N   K    +          V   +I+      
Sbjct: 238 SHKSPKSVLEGFPMASVKDMHDFGLNVNSCRKISKEDFDDLVRNDCKVTANDILIAKDGS 297

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSL 357
              K +    + ++  +++S  M    + I S +L++ ++S ++ +      SG     +
Sbjct: 298 YL-KHTFVVEKDLDIALLSSIAMLRPNNKIKSHFLSYCLKSPEVKERMKQCVSGVAIPRI 356

Query: 358 KFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
             +D +   ++VP I  Q    N+I         L+    +   LLK +R   +   ++G
Sbjct: 357 ILQDFRNFKIIVPTIDIQKQWNNLIEDNIQMCWNLI----KQNNLLKTQRDMLLPKLISG 412

Query: 418 Q 418
           +
Sbjct: 413 K 413



 Score = 61.0 bits (146), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 36/206 (17%), Positives = 67/206 (32%), Gaps = 13/206 (6%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYL 64
           +  DS    +G IPK W+V P++      T  + +S K          ++D+        
Sbjct: 209 EMVDSE---LGQIPKGWEVSPLENLCSRITDGSHKSPKSVLEGFPMASVKDMHDFGLNVN 265

Query: 65  P-KDGNSRQSD--TSTVSIFAKGQILYGKLGPYLRKAIIADFD---GICSTQFLVLQPKD 118
             +  +    D             IL  K G YL+   + + D    + S+  ++     
Sbjct: 266 SCRKISKEDFDDLVRNDCKVTANDILIAKDGSYLKHTFVVEKDLDIALLSSIAMLRPNNK 325

Query: 119 VLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
           +    L   L S +V +R++    G  +     +   N  + +P +  Q      I    
Sbjct: 326 IKSHFLSYCLKSPEVKERMKQCVSGVAIPRIILQDFRNFKIIVPTIDIQKQWNNLIEDNI 385

Query: 179 VRIDTLITERIRFIELLKEKKQALVS 204
                LI +              L+S
Sbjct: 386 QMCWNLIKQNNLLKTQRDMLLPKLIS 411


>gi|328542331|ref|YP_004302440.1| Restriction modification system, type I hsdS [polymorphum gilvum
           SL003B-26A1]
 gi|326412078|gb|ADZ69141.1| Putative Restriction modification system, type I hsdS [Polymorphum
           gilvum SL003B-26A1]
          Length = 390

 Score = 92.9 bits (229), Expect = 8e-17,   Method: Composition-based stats.
 Identities = 57/403 (14%), Positives = 127/403 (31%), Gaps = 29/403 (7%)

Query: 28  VPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           VPI   T++  G T    K      DI ++  +D++                  S  ++ 
Sbjct: 4   VPIGDVTEVKGGGTPSKRKPEYYQGDIPWVTPKDMKVWDISDAIDKITPEAVADSATNLI 63

Query: 82  AKGQILYGKLGPYLR---KAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
               IL       L+      I   +   +     L   D          +       I 
Sbjct: 64  PARSILLVNRSGILKHTLPVGITRREVAINQDLKALICSDR-AHPEYLAHIVKAAEPIIL 122

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
                 T  +     +  + +P+P L EQ  I   +             R R ++ L   
Sbjct: 123 KWVRATTADNFPIDSLKELKIPLPTLDEQRRIAGILDQADAL----RRLRSRALDKLNTL 178

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
            QA+   +     +P    K   +  +G +    +        +E       L    + +
Sbjct: 179 GQAIFHEMFG---DPATNPKGWPMGVIGDLLKEAKYGSSGKANSEGRG----LPMLRMGN 231

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
           ++Y   I   + +++ L  + ++ Y    PG+++F   + +            E   I  
Sbjct: 232 VTYDGRIDLSDLKHIELSDKEFDKYT-TRPGDLLFNRTNSKELVGKTAVVTQAEPMAIAG 290

Query: 319 AYMAVKPH-GIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQ 375
             +  + +   ++ Y++  + S     V   M   +    ++  ++ + +P  +PP++ Q
Sbjct: 291 YLVRGRANARGNTHYISGYLNSTHGKAVLRNMCKNIVGMANINAKEFQSIPTAIPPVEIQ 350

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
                 +    A       + + S+ +     +S    A  G+
Sbjct: 351 RVYAEKLMSLRAE----EAQFQASLDIASTLFASLQHRAFKGE 389


>gi|325661847|ref|ZP_08150468.1| hypothetical protein HMPREF0490_01204 [Lachnospiraceae bacterium
           4_1_37FAA]
 gi|325471825|gb|EGC75042.1| hypothetical protein HMPREF0490_01204 [Lachnospiraceae bacterium
           4_1_37FAA]
          Length = 379

 Score = 92.9 bits (229), Expect = 8e-17,   Method: Composition-based stats.
 Identities = 53/385 (13%), Positives = 104/385 (27%), Gaps = 40/385 (10%)

Query: 26  KVVPIKRFTKLNTGRTSESG----KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           +   +        G   +      + +  I ++D+          D      D       
Sbjct: 4   EYKRLGDIASYINGYAFKPEQRGTEGLPIIRIQDLTGN-----AYDLGFYDGDYPEKIEI 58

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
             G +L       L   I      + +     +    V                 +    
Sbjct: 59  NNGDVLISWS-ASLGVYIWNRGKALLNQHIFKVAFDKVNVNKDYFVFAVKHKLDEMVLKT 117

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            GATM H   K   N  +P P L  Q      +      +  +I  R + I+ L E  +A
Sbjct: 118 HGATMKHIIKKDFDNTKIPFPSLEMQEETASILKM----VSDIIDTRQQEIKKLDELIRA 173

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
               +   G            E +G              +T+   K    ++  I  +S 
Sbjct: 174 RFVELFENGDYKT--------EKLG---------SVCTKITDGTHKTPTYLDEGITFISA 216

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII----T 317
            NI+      +        E  +I    +     I L           V     +    +
Sbjct: 217 KNIVNGELDFSDVKHISEEEYQEIQKRCQTAIYDILLSKSGSLGAPVIVKTEEKLGLFES 276

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQF 376
            A +      +   +L   +++  + + F     G   + L    +    V+VPPI+EQ 
Sbjct: 277 LAVIKYDREKLLPEFLCEQLKTDRIQRQFTTGTKGVAIKHLHLGVIAETDVIVPPIEEQR 336

Query: 377 DITNVINV----ETARIDVLVEKIE 397
              + +      +  + +  +    
Sbjct: 337 QFADFVKQVDKSKFQKYNATILSHN 361



 Score = 58.3 bits (139), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 14/140 (10%), Positives = 45/140 (32%), Gaps = 10/140 (7%)

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
               ++G     Y     ++ G+++  +                 + ++      V    
Sbjct: 40  GNAYDLGFYDGDYPEKIEINNGDVLISWSASLG-----VYIWNRGKALLNQHIFKVAFDK 94

Query: 328 IDSTYLAWLMR-SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
           ++     ++    + L ++         + +  +D     +  P ++ Q +  +++ + +
Sbjct: 95  VNVNKDYFVFAVKHKLDEMVLKTHGATMKHIIKKDFDNTKIPFPSLEMQEETASILKMVS 154

Query: 387 ARIDVLVEKIEQSIVLLKER 406
             ID      +Q I  L E 
Sbjct: 155 DIIDT----RQQEIKKLDEL 170


>gi|330838540|ref|YP_004413120.1| restriction modification system DNA specificity domain protein
           [Selenomonas sputigena ATCC 35185]
 gi|329746304|gb|AEB99660.1| restriction modification system DNA specificity domain protein
           [Selenomonas sputigena ATCC 35185]
          Length = 443

 Score = 92.9 bits (229), Expect = 9e-17,   Method: Composition-based stats.
 Identities = 45/359 (12%), Positives = 115/359 (32%), Gaps = 30/359 (8%)

Query: 80  IFAKGQIL---YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
              +G+++   +GK               + +   +              +   +   + 
Sbjct: 83  YLKEGEVVSIPWGKSRDVTDCIKYYKGKFVTADNRIATSNDITKLSNRYLYYWMMSQGKV 142

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           I+    G+ + H D   + N+ +PIPPLA Q  I + +   T     L  + +  + L K
Sbjct: 143 IDTFYRGSGIKHPDMAKVLNMQIPIPPLAIQNEIVKLLDDFTELTAELTEQLMTELTLRK 202

Query: 197 EKKQALVSYIVTK--------GLNPDVKMKDSGIEWVGLVPDHWE--VKPFFALVTELNR 246
           ++       ++            +     +   I   GL+   ++   K    + +++  
Sbjct: 203 KQYNFYRDSLLNFVRVDDTIVQTDRQTDRQAQRISKFGLLRKTFDVEWKTLGEVSSQICS 262

Query: 247 KNTKLIESNILSLSYGNI-----IQKLETRNMGLKPESY----ETYQIVDPGEIVFRFID 297
             T    +    +          I   +  + G+K         + + +    ++     
Sbjct: 263 GGTPTASNAAFYVGTIPWLRTQEIDWADIYDTGIKISEEALKASSARWIPANCVIVAMYG 322

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSL 357
               K ++    +       +  + +     +  Y+   + S    K   A G G + ++
Sbjct: 323 ATAAKVAINRIPLTTNQACCN--LKINEEMAEHRYVYHWLCSQY--KTLKAKGQGSQSNI 378

Query: 358 KFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
               +++ P+ VPP+  Q  I ++++      + L   +   I   K+     R   + 
Sbjct: 379 NKNIIEKYPIPVPPLDVQQKIVSILDRFDTLCNDLTSGLPAEIAARKKQYEHYRDRLLT 437


>gi|325287951|ref|YP_004263741.1| restriction modification system DNA specificity domain-containing
           protein [Cellulophaga lytica DSM 7489]
 gi|324323405|gb|ADY30870.1| restriction modification system DNA specificity domain protein
           [Cellulophaga lytica DSM 7489]
          Length = 409

 Score = 92.9 bits (229), Expect = 9e-17,   Method: Composition-based stats.
 Identities = 58/409 (14%), Positives = 133/409 (32%), Gaps = 21/409 (5%)

Query: 25  WKVVPIKRFTKLNTGR----TSESGKDIIYIGLEDV----ESGTGKYLPKDGNSRQSDTS 76
           W+   +    ++ + +    +    + + +    +V    ++G                +
Sbjct: 4   WEEENLSNLFEIKSSKRVLKSDWKTEGVPFYRAREVVKLAQNGFVNNELFISEKLYDQYT 63

Query: 77  TVSIFAK-GQILYGKLGPYLRKAII---ADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
               F K   I+   +G   +  ++     F    ++     +  D     ++    +  
Sbjct: 64  KDRGFPKEDDIIISAVGTLGQCYLVKKSDKFYFKDASVLWFEKKSDTDSRFIEYAFKTRL 123

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           +  +I     GAT+         N+ +P+PPLAEQ  I  K+     +ID  I      +
Sbjct: 124 IKNQINKKSSGATVGTLTISTARNLKIPLPPLAEQQRIVAKLDGLFAKIDKAI----GLL 179

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           E      QAL+  ++ +      K     + +           PF + +      +    
Sbjct: 180 EDNIAHTQALMGSVLDEEFGRLEKYNKPLMTFCKNPKKDMVGGPFGSNLKASEYVDKGYP 239

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
              + ++   N  +K        K E   ++  +  G+IV   +     K  +       
Sbjct: 240 IIRLQNVDRFNFKEKNIMFVTEEKAEFLSSHSYIS-GDIVMTKLGDPLGKCCVVEDVHGV 298

Query: 313 RGIITSAYMAVKPHGIDSTYLAWL---MRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVL 368
              + S+ +          Y  ++   + S    K   +   G  R  +  ++V+ + + 
Sbjct: 299 DRGVISSDIIRIRIDESKHYKPYVVAGINSEFFIKQLKSKTQGSTRPRVTLKEVRAMQLP 358

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
           +   ++Q      I+        ++E   Q +  LK  +SS +  A  G
Sbjct: 359 MLKREDQVIAAKRIDGILELQSKVLETQNQKLNHLKALKSSLLDQAFKG 407


>gi|297562022|ref|YP_003680996.1| restriction modification system DNA specificity domain protein
           [Nocardiopsis dassonvillei subsp. dassonvillei DSM
           43111]
 gi|296846470|gb|ADH68490.1| restriction modification system DNA specificity domain protein
           [Nocardiopsis dassonvillei subsp. dassonvillei DSM
           43111]
          Length = 415

 Score = 92.9 bits (229), Expect = 9e-17,   Method: Composition-based stats.
 Identities = 68/424 (16%), Positives = 149/424 (35%), Gaps = 43/424 (10%)

Query: 22  PKHWKVVPIKRFT-----KLNTGRTSES-------GKDIIYIGLEDVESGTGKYLPK-DG 68
           P+ WKV  +          + TG             + I  +  +++     K       
Sbjct: 10  PQTWKVTTLGELCASGGGNIQTGPFGSQLHAADYVTQGIPSVMPQNIGDNVIKEEGIARI 69

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFD--GICSTQFLVLQPKDV-LPELLQ 125
               +      + A G I+Y + G   ++A++ +     +C T  L ++P      E + 
Sbjct: 70  APEDAFRLEKYLLAPGDIVYSRRGDIEKRALVRETQRGWLCGTGCLRVRPGVGANSEFIS 129

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
            +L    V + I     GATM + + K + ++P+ +PPL EQV I   + A   +I    
Sbjct: 130 YYLGHPSVREWIVKHAVGATMPNLNTKILSSLPVSVPPLNEQVSIASTLGALDNKITVNK 189

Query: 186 TERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN 245
                +  LL  + + L+   +  G   D+ + +  +E+        +       +  L 
Sbjct: 190 QIVSTYESLLATEFEQLIR--IEAGAEQDIALANEFVEFNPKYQKPSDPTSRHVNMAALP 247

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
             + ++   +    + G   Q  +T    + P                           +
Sbjct: 248 TSSARVHTWDFRKPTPGTRFQNGDTLLARITP------------------CLENGKTAFV 289

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLM-RSYDLCK--VFYAMGSGLRQSLKFEDV 362
                 E GI ++ ++ ++       + ++L+ R+    +  +   +G+  RQ    + +
Sbjct: 290 DFMDDNETGIGSTEFIVMRSLPGVPQHFSYLLARNKRFREHAISNMIGTSGRQRCPADRL 349

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
               +  P   E   I    +V  A +  L    E  I  L E R + +   ++G++ ++
Sbjct: 350 PGFSMKRPDPTELERIGKDSDVAFAHMRSL--DSEAYI--LAELRDTLLPKLISGELRVK 405

Query: 423 GESQ 426
              +
Sbjct: 406 DAEK 409


>gi|322386250|ref|ZP_08059882.1| type I restriction system specificity protein [Streptococcus
           cristatus ATCC 51100]
 gi|321269712|gb|EFX52640.1| type I restriction system specificity protein [Streptococcus
           cristatus ATCC 51100]
          Length = 394

 Score = 92.9 bits (229), Expect = 9e-17,   Method: Composition-based stats.
 Identities = 59/416 (14%), Positives = 139/416 (33%), Gaps = 48/416 (11%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
           + +        G++ +               G       +G    +D S  S      I+
Sbjct: 4   IKLGDVIDFKNGKSIKKSD------------GNIPIYGGNGILGYTDKSNFSH----TIV 47

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMS 147
            G++G Y     + +     S   +   PK+        ++L       + +   G++  
Sbjct: 48  VGRVGAYCGSIHVEENLCWVSDNAIAGIPKEGQDLTYLYYVLKSL---NLNSKQIGSSQP 104

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
                 + ++ + +    E+     K I     ID  I    +  + L+   + L  Y  
Sbjct: 105 LITQSMLKDMVVDVEIDNEKQKRIAKSILI---IDQKIQINNQINQELEAMAKTLYDYWF 161

Query: 208 TKGLNPDV---KMKDSG------IEWVGLVPDHWEVKPFFALVTELNRKN------TKLI 252
            +   PD      K SG       E    +P+ W V+     ++     +         I
Sbjct: 162 VQFDFPDQNGKPYKSSGGKMVYNPELKREIPEGWGVEKLKDKLSVSRGISYKTENIKDNI 221

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQ----NDKRSLRSA 308
            + +++L+  +I +  ++  +      Y   +IV  G+++    DL          +   
Sbjct: 222 GTPMINLASIDINRNYKSTGLKYFNGEYLKEKIVSGGDLLIACTDLTRNADIVGSPIIVP 281

Query: 309 QVMERGIITSAYMAVKPH--GIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRL 365
              ++ + +     +      I+  YL   +R+           SG     L  + +   
Sbjct: 282 FDEQKYVFSMDLAKIDSKVDFINKYYLYSTLRTEHYHNYIKKWASGTNVLHLNLDGMNWY 341

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            + VPPI+ Q + + +I   + + +  +++ ++    L + R   +   + GQ+ +
Sbjct: 342 SISVPPIELQEEYSQIILNFSKKTNKNIQENQE----LTQLRDWLLPMLMNGQVKV 393



 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 27/202 (13%), Positives = 58/202 (28%), Gaps = 14/202 (6%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVE----SGTGKYLPKDGNSRQSDT 75
            IP+ W V  +K    ++ G + ++      IG   +          Y          + 
Sbjct: 190 EIPEGWGVEKLKDKLSVSRGISYKTENIKDNIGTPMINLASIDINRNYKSTGLKYFNGEY 249

Query: 76  STVSIFAKGQILYGKLGPYLR--------KAIIADFDGICSTQFLVLQPKDVLPELLQGW 127
               I + G +L                      +   + S     +  K         +
Sbjct: 250 LKEKIVSGGDLLIACTDLTRNADIVGSPIIVPFDEQKYVFSMDLAKIDSKVDFINKYYLY 309

Query: 128 L--LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
               +      I+    G  + H +  G+    + +PP+  Q    + I+  + + +  I
Sbjct: 310 STLRTEHYHNYIKKWASGTNVLHLNLDGMNWYSISVPPIELQEEYSQIILNFSKKTNKNI 369

Query: 186 TERIRFIELLKEKKQALVSYIV 207
            E     +L       L++  V
Sbjct: 370 QENQELTQLRDWLLPMLMNGQV 391


>gi|126667622|ref|ZP_01738591.1| specificity determinant for hsdM and hsdR [Marinobacter sp. ELB17]
 gi|126627891|gb|EAZ98519.1| specificity determinant for hsdM and hsdR [Marinobacter sp. ELB17]
          Length = 479

 Score = 92.9 bits (229), Expect = 9e-17,   Method: Composition-based stats.
 Identities = 62/429 (14%), Positives = 138/429 (32%), Gaps = 58/429 (13%)

Query: 38  TGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRK 97
           TG T  S         + +++G    + +  N                 L     P +  
Sbjct: 15  TGFTQISTTGKKVKTKDCLQTGRFPVIDQGQNPVAG------YVDDPDRLINVSDPLIVF 68

Query: 98  AIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNI 157
                        F V           + +L       ++ ++          +K +  +
Sbjct: 69  GDHTRAVKWVDFSF-VPGADGTKILQPEPYLFPRFAYYQLRSLEIPNKGYSRHFKFLKEL 127

Query: 158 PMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKM 217
              + PLAEQ  I  K+     +++       R   +LK  +Q++++  V+  L  + + 
Sbjct: 128 KFEVAPLAEQKTIAVKLDTLLAQVENTKARLERIPTILKRFRQSVLAAAVSGRLTEEWRN 187

Query: 218 ----KDSGIEWV-----------------------------------GLVPDHWEVKP-- 236
               K S  + +                                   G +P+ W   P  
Sbjct: 188 NRTTKSSPKKLLNHFEELRQIAVQDENLRTGKKTKYKPVTIDTYGTPGDLPNSWYWIPVE 247

Query: 237 -FFALVTELNRKNTKLIESNILSLSYGNIIQKL------ETRNMGLKPESYETYQIVDPG 289
                VT+   K    I + +  ++  N+ +                 E +      + G
Sbjct: 248 ALATKVTDGVHKKPTYISNGVPFITVKNLTKGNGISFTETNYISTHDHEEFCKRTNPEKG 307

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
           +I+          R +R+  +    I  S  +        S YL    +S  +      +
Sbjct: 308 DILISKDGTLGVVRQIRTDAIF--SIFVSVALVKPADRSMSNYLELAFQSSVVQGQMIGV 365

Query: 350 GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
           G+GL+  +   D+++  + VPP++EQ +I + ++   A  + + +++  ++  + +   S
Sbjct: 366 GTGLQ-HIHLIDLRKDLIPVPPLEEQIEIVHQVDQLFAYAERVEQQVNNALARVNKLTQS 424

Query: 410 FIAAAVTGQ 418
            +A A  G+
Sbjct: 425 ILAKAFRGE 433



 Score = 62.1 bits (149), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 33/206 (16%), Positives = 68/206 (33%), Gaps = 9/206 (4%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKYLPKD---GNSR 71
           G +P  W  +P++      T    +        + +I ++++  G G    +        
Sbjct: 235 GDLPNSWYWIPVEALATKVTDGVHKKPTYISNGVPFITVKNLTKGNGISFTETNYISTHD 294

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPEL-LQGWLLS 130
             +    +   KG IL  K G  L        D I S    V   K     +     L  
Sbjct: 295 HEEFCKRTNPEKGDILISKDG-TLGVVRQIRTDAIFSIFVSVALVKPADRSMSNYLELAF 353

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
                + + I  G  + H     +    +P+PPL EQ+ I  ++       + +  +   
Sbjct: 354 QSSVVQGQMIGVGTGLQHIHLIDLRKDLIPVPPLEEQIEIVHQVDQLFAYAERVEQQVNN 413

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVK 216
            +  + +  Q++++      L    +
Sbjct: 414 ALARVNKLTQSILAKAFRGELTEQWR 439


>gi|323972573|gb|EGB67776.1| type I restriction modification DNA specificity domain-containing
           protein [Escherichia coli TA007]
          Length = 300

 Score = 92.9 bits (229), Expect = 9e-17,   Method: Composition-based stats.
 Identities = 24/163 (14%), Positives = 62/163 (38%), Gaps = 6/163 (3%)

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
           N ++  E R +  +  + ++   +  G+++         + ++ + Q             
Sbjct: 61  NKLETNEIRYVTREFHTAQSKTALKAGDLLTVQSGHIG-ETAVVTDQFHGANCHALIVTR 119

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAM-GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
           +K    D  YL + + S         +        +  +D+K+  VL+P + EQ  I  +
Sbjct: 120 LKQEKADPHYLCFYVNSEIGRARMKGLEVGSTILHINTKDLKKFRVLLPSLPEQKKIAQI 179

Query: 382 INVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGE 424
           ++      D  +   E+ +   + ++ + +   +TG+  L  E
Sbjct: 180 LSTW----DKAISVTEKLLTNSQRQKKALMQQLLTGKKRLLDE 218


>gi|329913308|ref|ZP_08275914.1| Type I restriction-modification system, specificity subunit S
           [Oxalobacteraceae bacterium IMCC9480]
 gi|327545395|gb|EGF30614.1| Type I restriction-modification system, specificity subunit S
           [Oxalobacteraceae bacterium IMCC9480]
          Length = 517

 Score = 92.9 bits (229), Expect = 9e-17,   Method: Composition-based stats.
 Identities = 60/422 (14%), Positives = 121/422 (28%), Gaps = 50/422 (11%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W  VP+     L  G    S K           SG   Y  + G               
Sbjct: 111 EWAEVPLGDVITLQRGFDLPSQKRKPGKVPIVSSSGVSDYNSEVGVKGPG---------- 160

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
             ++ G+ G   +  +I +     +T   V       P      L +ID     +     
Sbjct: 161 --VVTGRYGTIGQVFLIKEDFWPLNTTLWVKNFHGNDPHFASYLLRTIDFRSCSDKS--- 215

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
            ++   +   +  IP+  PPLAEQ  I   +     +I+           + +   ++  
Sbjct: 216 -SVPGVNRNDLHRIPVLRPPLAEQKSIALILGTLDDKIELNRRMNKTLEAIARALFKSWF 274

Query: 204 SYI--VTKGLNPDVKMKDSG----------------IEWVGLVPDHWEVKPFFALVTELN 245
                V   ++   +  DS                    +G +P+ WEVKP   +   +N
Sbjct: 275 VDFEPVRAKIDARWQSGDSLPGLPAHLCELFPSRLVDSELGEIPEGWEVKPLDEIAAFIN 334

Query: 246 R----KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQND 301
                K +    ++ L +     ++   +              I+  G+ +F +      
Sbjct: 335 GLALQKFSATDLADSLPVIKIAELRNGVSHKSDRASRDVPEKYIIKDGDFLFSWSGSL-- 392

Query: 302 KRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV-FYAMGSGLRQSLKFE 360
              L        G +      V        +++  +  +        A  +     ++  
Sbjct: 393 ---LAKFWTEGEGALNQHLFKVTSEQYPMWFVSHWVHHHLEEFQSIAASKATTMGHIQRG 449

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETA-RIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
            +K    + P            +   A  ID  +   E     L   R + +   V+G++
Sbjct: 450 HLKSAMTVCPDQDTLKKF----DCVMAPLIDEAI-HNELESRSLAALRDTLLPKLVSGEL 504

Query: 420 DL 421
            +
Sbjct: 505 RV 506



 Score = 69.8 bits (169), Expect = 8e-10,   Method: Composition-based stats.
 Identities = 30/189 (15%), Positives = 60/189 (31%), Gaps = 17/189 (8%)

Query: 12  DSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLP 65
           DS    +G IP+ W+V P+        G   +          +  I + ++ +G    + 
Sbjct: 311 DSE---LGEIPEGWEVKPLDEIAAFINGLALQKFSATDLADSLPVIKIAELRNG----VS 363

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ 125
              +    D     I   G  L+   G  L K    + +G  +     +  +      + 
Sbjct: 364 HKSDRASRDVPEKYIIKDGDFLFSWSGSLLAK-FWTEGEGALNQHLFKVTSEQYPMWFVS 422

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
            W+       +  A  +  TM H      G++   +    +Q  +++        ID  I
Sbjct: 423 HWVHHHLEEFQSIAASKATTMGHIQR---GHLKSAMTVCPDQDTLKKFDCVMAPLIDEAI 479

Query: 186 TERIRFIEL 194
              +    L
Sbjct: 480 HNELESRSL 488


>gi|291527172|emb|CBK92758.1| Restriction endonuclease S subunits [Eubacterium rectale M104/1]
          Length = 382

 Score = 92.9 bits (229), Expect = 9e-17,   Method: Composition-based stats.
 Identities = 47/376 (12%), Positives = 105/376 (27%), Gaps = 29/376 (7%)

Query: 28  VPIKRFTKLNTGRTSESGK-------DIIYIGLEDVE--SGTGKYLPKDGNSRQSDTSTV 78
           V +K    L  G+T            D  +I + D+   S       +  +      S +
Sbjct: 3   VKLKDIFDLQMGKTPSRSNLEYWNTTDYKWISIADLTKTSKYIFETKEYLSKSAIKDSGI 62

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
            +     ++       + K  I   D   +   +  + K V+  + +            E
Sbjct: 63  KVIPANTVVMS-FKLSIGKTAITKEDMYSNEAIMAFKDKHVINIIPEYIFYLFKYKNWEE 121

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
              +       +   +  I + I  + +Q  I   +      +D    E     EL    
Sbjct: 122 CSNKAVMGKTLNKATLSEIEVEICSIEKQRQIVNILDKIMSAVDGRKQELQLLDEL---- 177

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
              + +  V    +     K   I                  +    +         I S
Sbjct: 178 ---IKARFVEMFGDLKTNSKMWQIVGFNE------CAVIDTNMIHNFQGYEDYPHIGIDS 228

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
           +       KL       +        +  P  I++  I    +K +L     +      +
Sbjct: 229 IEK--ETGKLIGYRTISEDGVVSGKYLFTPQHIIYSKIRPNLNKVALPDFDGL--CSADA 284

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFD 377
             + VK    +  Y+ + +R+        A  S      +  + V+   + +PP+  Q  
Sbjct: 285 YPILVKKEICNREYMGYTLRNKYFLDYILAFSSRTNLPKVNKKQVEGFKLPLPPMGLQNQ 344

Query: 378 ITNVINVET-ARIDVL 392
             + ++    ++ D +
Sbjct: 345 FADFVHQVDKSKFDTM 360



 Score = 54.8 bits (130), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 33/153 (21%), Positives = 58/153 (37%), Gaps = 4/153 (2%)

Query: 25  WKVVPIKRFTKL--NTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           W++V       +  N     +  +D  +IG++ +E  TGK +     S     S   +F 
Sbjct: 196 WQIVGFNECAVIDTNMIHNFQGYEDYPHIGIDSIEKETGKLIGYRTISEDGVVSGKYLFT 255

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL--LSIDVTQRIEAI 140
              I+Y K+ P L K  + DFDG+CS     +  K  +           +      I A 
Sbjct: 256 PQHIIYSKIRPNLNKVALPDFDGLCSADAYPILVKKEICNREYMGYTLRNKYFLDYILAF 315

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
                +   + K +    +P+PP+  Q    + 
Sbjct: 316 SSRTNLPKVNKKQVEGFKLPLPPMGLQNQFADF 348



 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 24/184 (13%), Positives = 56/184 (30%), Gaps = 11/184 (5%)

Query: 233 EVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLE----TRNMGLKPESYETYQIVDP 288
                  +      K          + +    I   +    ++ +    E      I D 
Sbjct: 1   MRVKLKDIFDLQMGKTPSRSNLEYWNTTDYKWISIADLTKTSKYIFETKEYLSKSAIKDS 60

Query: 289 GEIVF--RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF 346
           G  V     + +       ++A   E      A MA K   + +    ++   +      
Sbjct: 61  GIKVIPANTVVMSFKLSIGKTAITKEDMYSNEAIMAFKDKHVINIIPEYIFYLFKYKNWE 120

Query: 347 YAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
                 +  ++L    +  + V +  I++Q  I N+++   + +D      +Q + LL E
Sbjct: 121 ECSNKAVMGKTLNKATLSEIEVEICSIEKQRQIVNILDKIMSAVD----GRKQELQLLDE 176

Query: 406 RRSS 409
              +
Sbjct: 177 LIKA 180


>gi|229042278|ref|ZP_04190030.1| hypothetical protein bcere0027_3480 [Bacillus cereus AH676]
 gi|228727069|gb|EEL78274.1| hypothetical protein bcere0027_3480 [Bacillus cereus AH676]
          Length = 396

 Score = 92.9 bits (229), Expect = 9e-17,   Method: Composition-based stats.
 Identities = 55/404 (13%), Positives = 129/404 (31%), Gaps = 27/404 (6%)

Query: 31  KRFTKLNTG----RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQI 86
                 + G    ++  + +    I    + +     +            +V I    ++
Sbjct: 2   GDTADFSKGNGYSKSDLTDEGKPVILYGRLYTRYETVIESVDTFTIEKDKSV-ISKGNEV 60

Query: 87  LYGKLGPYL----RKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC- 141
           +    G       R ++++    I      +++P + +  +     +S    ++  +   
Sbjct: 61  IVPASGETSEDISRASVVSKPGIILGGDLNIIRPSNEIDPIFLALTISNGKQKKELSKRA 120

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
           +G ++ H     +  + +  P   EQ+ I +       ++D  I    + +  LK+ KQ 
Sbjct: 121 QGKSVVHLHNSDLKEVNLLFPKKEEQIKIGKF----FKQLDDTIALHQQELTTLKQTKQG 176

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN-----I 256
            +  +  K      + +  G            V      +      +    E        
Sbjct: 177 FLQKMFPKEGESVPEFRFPGFTGDWEQRRFENVLNKQDGIRRGPFGSALKKEFFVKDSDY 236

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
                 N I         +  E +E  +     E  F         R  R  + +++G+ 
Sbjct: 237 AVYEQQNAIYDNYETRYNITKEKFEELKNFQLSEGDFILSGAGTIGRISRVPKGIKQGVF 296

Query: 317 TSAYMAV--KPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSL-KFEDVKRLPVLVPPI 372
             A +      +  DS Y    +RS ++ +            +L    +VK+  V+VP  
Sbjct: 297 NQALIRFKIDENITDSEYFVQWIRSANMQRKLTGANPGSAMTNLVPMSEVKKWDVMVPSK 356

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
            EQ  I         ++D ++   ++ + +LKE + +F+    T
Sbjct: 357 NEQIKIGKF----FKQLDEMIALQQRDLDVLKETKKAFLQKMFT 396


>gi|154488696|ref|ZP_02029545.1| hypothetical protein BIFADO_02003 [Bifidobacterium adolescentis
           L2-32]
 gi|154082833|gb|EDN81878.1| hypothetical protein BIFADO_02003 [Bifidobacterium adolescentis
           L2-32]
          Length = 395

 Score = 92.9 bits (229), Expect = 9e-17,   Method: Composition-based stats.
 Identities = 63/406 (15%), Positives = 125/406 (30%), Gaps = 38/406 (9%)

Query: 26  KVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKD-----GNSRQSD 74
           K V I    K  +G T  S         I +IG   +    GK+L K+            
Sbjct: 10  KKVTIGELGKTQSGGTPSSKHPEFFNGSIPWIGTTAL---NGKFLGKNDAVKLITEEAVA 66

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFL-VLQPKDVLPELLQGWLLSIDV 133
            S   I  +  I+ G +   + K  I       S   + ++   +         L     
Sbjct: 67  KSATKIVPEKSIMVG-IRVGVGKVAINAVPMCTSQDIVSIVGIDEASWNKEYISLALQYK 125

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
              + A  +GAT++    K +  I +P  P+ EQ  + + +     ++  +  +      
Sbjct: 126 APLLAAQAQGATIAGITSKTLKAIEIPAIPINEQNRVVDILRKLENQVGFVRKQLCGLDA 185

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
           L+K +   +          P   +K       G  P         A           L  
Sbjct: 186 LVKSRFVEIFGDFACYETKP--LIKCVDCIEAGKSPKCLAFSRKMAEPGV-------LKL 236

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQN-DKRSLRSAQVME 312
           S I S  Y     K   R++ L  +      +V   +I+    +      RS+       
Sbjct: 237 SAISSGVYCENENKALPRSVSLTIDK-----VVHANDILLSRKNTPELVGRSVLVKHTDG 291

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ---SLKFEDVKRLPVLV 369
             +       + P    +      + +  L     ++  G  +   ++   ++ +L + +
Sbjct: 292 NIMFPDIIFRMHPLPPINAMYLSYLLAGPLLHSIQSLAHGSAKSMSNIPKSELAKLSIPI 351

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           P +  Q +  N +    +++D      +Q I  L+    S      
Sbjct: 352 PALNLQNEFANFV----SQVDKSRFVAQQQIEKLQMLYDSLAQEYF 393


>gi|145637803|ref|ZP_01793452.1| type I restriction/modification specificity protein [Haemophilus
           influenzae PittHH]
 gi|145268996|gb|EDK08950.1| type I restriction/modification specificity protein [Haemophilus
           influenzae PittHH]
          Length = 464

 Score = 92.9 bits (229), Expect = 1e-16,   Method: Composition-based stats.
 Identities = 67/467 (14%), Positives = 139/467 (29%), Gaps = 80/467 (17%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVES-GTGKY-LPKDGNSRQSDTST 77
            +P++WK+V +    K+   ++        +I   D+ S  TG +  PK     +  +  
Sbjct: 11  KLPENWKLVRLGDIAKV-NEKSLTKKSQADFIRYIDISSVSTGAFDTPKLLKKDEIPSRA 69

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADF---DGICSTQFLVLQPKD-VLPELLQGWLLSIDV 133
             I      +   + P L++    +    + I ST F V+   +  L   L   + S   
Sbjct: 70  KRILRNNDFIISTVRPNLKQFSFIEEAQENLIASTGFCVISSNNSKLAWYLYSLITSDLF 129

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
           T+ +  I +G      + K I +  +P+P         E I   +      I    +  +
Sbjct: 130 TEYLVKISDGGAYPAFNPKEIEDAIIPLPDKD----NLEFISDTSRFFHKKIQLNTQINQ 185

Query: 194 LLKEKKQALVSYIVTKG--------------------LNPDVKMKDSGIEWV-------- 225
            L++  QAL                            L     +     E +        
Sbjct: 186 TLEQIAQALFKSWFVDFDPVRAKVQALSDGLSLEQAELAAMQTISGKTPEELTALSQTQP 245

Query: 226 ----------------------GLVPDHWEVKPFFALVTELNRK-----NTKLIESNILS 258
                                 G VP  WE+K    L   +  K     N +    ++  
Sbjct: 246 DRYAELAETAKAFPCEMVEVDGGEVPKGWEMKALSDLGQIICGKTPSKSNKEFFGDDVPF 305

Query: 259 LSYGNIIQKL----ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
           +   ++  ++     T N+ +   +Y++ + +    I    I                + 
Sbjct: 306 IKIPDMHNQVFITQTTDNLSVVGANYQSKKYIPAKSICVSCIATVGLVSMTSKPSHTNQQ 365

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ--SLKFEDVKRLPVLVPPI 372
           I +     +        +L   ++   + K    + SG     +L      ++ ++ P  
Sbjct: 366 INS----IIPDDEQSCEFLYLSLKQPSMTKYLKDLASGGTATLNLNTSTFSKIEIITPS- 420

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
               +I  +   +   I             L E R   +   + G+I
Sbjct: 421 ---KEIIYIFTKKVVSIFEKTLSNSIENKRLTEIRDLLLPRLLNGEI 464



 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/134 (12%), Positives = 46/134 (34%), Gaps = 7/134 (5%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESG-TGKYLPKDGNSR 71
           G +PK W++  +    ++  G+T         G D+ +I + D+ +         + +  
Sbjct: 268 GEVPKGWEMKALSDLGQIICGKTPSKSNKEFFGDDVPFIKIPDMHNQVFITQTTDNLSVV 327

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
            ++  +        I    +      ++ +           ++   +   E L   L   
Sbjct: 328 GANYQSKKYIPAKSICVSCIATVGLVSMTSKPSHTNQQINSIIPDDEQSCEFLYLSLKQP 387

Query: 132 DVTQRIEAICEGAT 145
            +T+ ++ +  G T
Sbjct: 388 SMTKYLKDLASGGT 401


>gi|227517377|ref|ZP_03947426.1| type I site-specific deoxyribonuclease specificity subunit
           [Enterococcus faecalis TX0104]
 gi|227075176|gb|EEI13139.1| type I site-specific deoxyribonuclease specificity subunit
           [Enterococcus faecalis TX0104]
          Length = 390

 Score = 92.5 bits (228), Expect = 1e-16,   Method: Composition-based stats.
 Identities = 63/396 (15%), Positives = 129/396 (32%), Gaps = 27/396 (6%)

Query: 32  RFTKLNTGRTSES---GKDIIYIGLEDV--ESGTGKYLPKDGNSRQSDTSTVSIFAKGQI 86
            F     G   E    G  +  +   DV    G    + K   +            +G I
Sbjct: 3   EFYDFKNGLNKEKEFFGSGVPIVNFVDVFHNRGLTPEMLKGRVTLSKKEIKNFEVKQGDI 62

Query: 87  LYGKLGPYLRKAIIADFD------GICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
            + +    + +              + S   L  + + V P                  +
Sbjct: 63  FFTRTSETINEIGYPSVMLGVPTDTVFSGFVLRGRARSVDPMDNLFKRYVFFTESFRNEM 122

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
            + ++M+         I             + KI A   +ID  I    R ++ LKE K+
Sbjct: 123 VKKSSMTTRALTSGTAIKEMYVQYPSSKDEQHKIGAFLAQIDDTIALHQRELDQLKELKK 182

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
           A +  +         K++ +  E        WE   FF +  + + +N +L  S+   LS
Sbjct: 183 AYLQLMFPVKDERVPKLRFADFEG------EWEQCKFFDMWEKSSDRNKELKYSSKDVLS 236

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
              + +    RN     E  +TY I+  G+I F     ++          ++ GI++  +
Sbjct: 237 VAKMTKNPVERNS--SDEYMKTYNILHYGDIAFEGNKSKDYSFGRFVLNNLQDGIVSHVF 294

Query: 321 MAVKPH-GIDSTYLAWLMRSYDLCKVFYAMGSGLRQSL---KFEDVKRLPVLVPPIKEQF 376
           +  KP   +D  ++   + +    K      +     +     +D+ +  + +P + EQ 
Sbjct: 295 IVFKPKVKMDIDFMKVYINNEYFMKHHLVKATTKTLMMTTLNVQDMNKQKLRIPSLNEQE 354

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
            I          +D  +   +  +  LK  + S++ 
Sbjct: 355 RIGKF----FKELDHAITLHQNKLTQLKSLKKSYLQ 386


>gi|294341644|emb|CAZ90063.1| putative Type I restriction-modification system (Specificity
           subunit) [Thiomonas sp. 3As]
          Length = 393

 Score = 92.5 bits (228), Expect = 1e-16,   Method: Composition-based stats.
 Identities = 60/408 (14%), Positives = 134/408 (32%), Gaps = 41/408 (10%)

Query: 29  PIKRFTKLNT--GRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQI 86
           P++    LN   G   ++   + ++ +  + +   K    +       +   + F  G +
Sbjct: 8   PLREVALLNPRLGEKLDANAFVSFVPMASLSAEDAKVTSVEQRPYAEVSKGYTPFKSGDV 67

Query: 87  LYGKLGPYLRK-----AIIADFDGICSTQFLVLQP--KDVLPELLQGWLLSIDVTQRIEA 139
           L  K+ P          ++ +  G  ST+F V++P         L  +L    +    E 
Sbjct: 68  LVAKITPCFENGKISQVLLPETYGFGSTEFHVVRPLPNKSDARYLHHFLRLGTIRIEGER 127

Query: 140 ICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
              G+          +  + +P+PP+ EQ  I   +               +  +L    
Sbjct: 128 RMTGSGGQRRVPENFLAELSIPLPPVPEQRRIAAILDQADALRAKRREALAQLDKLT--- 184

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
            QA+   +     +    +  + +E                 VT+   ++ K     I  
Sbjct: 185 -QAIFVEMFGDLESNVNGLPVTNLE------------DLCVRVTDGTHQSPKWEPDGIPF 231

Query: 259 LSYGNIIQKLETRNMGL-----KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
           L   NI+    + +                  +D G+I+F  +    +   +   +    
Sbjct: 232 LFISNILNGEISYSTEKFISRETYHELTRRCAIDAGDILFTTVGSYGNTAVVSGER---E 288

Query: 314 GIITSAYMAVKPHGI--DSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVP 370
                    +KP+    DS++ A ++ S  + +    +  G  ++++   D+K L V  P
Sbjct: 289 FCFQRHIAHIKPNAEKLDSSFCAAMLESASVRRQIDKVARGVAQKTINLADLKALRVFYP 348

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           PI++Q         +   +  +     QS+    +   +    A  G+
Sbjct: 349 PIEKQKSF----TTKQGLVKSIKAIQAQSLREFDDLFVTLQHRAFRGE 392


>gi|300727766|ref|ZP_07061150.1| type I restriction-modification system, endonuclease S subunit
           [Prevotella bryantii B14]
 gi|299774976|gb|EFI71584.1| type I restriction-modification system, endonuclease S subunit
           [Prevotella bryantii B14]
          Length = 375

 Score = 92.5 bits (228), Expect = 1e-16,   Method: Composition-based stats.
 Identities = 75/382 (19%), Positives = 133/382 (34%), Gaps = 31/382 (8%)

Query: 34  TKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGP 93
                 +T        YIGLE ++S   +      N          I  KG IL+GK   
Sbjct: 10  FNSTAKKTPTESDKEHYIGLEHIDSECLEITRWGSNVAPIGE--KLIMKKGDILFGKRRA 67

Query: 94  YLRKAIIADFDGICSTQFLVLQPKDVLPELLQG--WLLSIDVTQRIEAICEGATMSHADW 151
           Y RK  IA FDGI S   +VL+P + + +      ++ S    +R   I  G      +W
Sbjct: 68  YQRKLAIAPFDGIFSAHGMVLRPNEEVVDKNYFPFFMSSDLFMERAVQISVGGLSPTINW 127

Query: 152 KGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGL 211
           K +     P+P LAEQ ++ +K+ A             + +   +E  ++    +     
Sbjct: 128 KDLREQEFPLPSLAEQKVLADKLWAAYRL----KESYKKLLAATEEMVKSQFIEMFYNEK 183

Query: 212 NPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETR 271
            P  K+K               +     +  +      +  +S  + L   NII      
Sbjct: 184 YPLQKLKT-------------HIDVIRGVSYKPVDIKEETSDSISVILRSNNIINGQINF 230

Query: 272 NMGLKPESYE--TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS----AYMAVKP 325
           +  +  ++    T Q++  G+IV    +         +         TS           
Sbjct: 231 DDVVYVDNKRVTTEQVLSKGDIVMCGSNGSKKLVGKAAMINTIPSYRTSFGAFCLGIRCK 290

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
             I   YL+   ++    +V   +GSG    ++K E +  L + +P +++Q     +   
Sbjct: 291 ESILPEYLSVYFQTPKYREVIEFLGSGSNILNIKPEHIYNLEIPIPSLEDQKHFVTIAEQ 350

Query: 385 ETA---RIDVLVEKIEQSIVLL 403
                  I   +E I+  I  L
Sbjct: 351 ADKSGFEIRKSIEAIDNVIKSL 372



 Score = 54.4 bits (129), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 23/133 (17%), Positives = 50/133 (37%), Gaps = 11/133 (8%)

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI--DSTYLAWLM 337
                I+  G+I+F        K ++        GI ++  M ++P+    D  Y  + M
Sbjct: 49  IGEKLIMKKGDILFGKRRAYQRKLAIAPFD----GIFSAHGMVLRPNEEVVDKNYFPFFM 104

Query: 338 RSYDLCKV-FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
            S    +        GL  ++ ++D++     +P + EQ  + + +         L E  
Sbjct: 105 SSDLFMERAVQISVGGLSPTINWKDLREQEFPLPSLAEQKVLADKLWAAY----RLKESY 160

Query: 397 EQSIVLLKERRSS 409
           ++ +   +E   S
Sbjct: 161 KKLLAATEEMVKS 173


>gi|168207082|ref|ZP_02633087.1| putative type I restriction-modification enzyme, S subunit, EcoA
           family [Clostridium perfringens E str. JGS1987]
 gi|170661517|gb|EDT14200.1| putative type I restriction-modification enzyme, S subunit, EcoA
           family [Clostridium perfringens E str. JGS1987]
          Length = 394

 Score = 92.5 bits (228), Expect = 1e-16,   Method: Composition-based stats.
 Identities = 47/398 (11%), Positives = 117/398 (29%), Gaps = 30/398 (7%)

Query: 24  HWKVVPIKRFTKLNTG----RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            W+   +    +   G    ++  S      I   ++ +  G+ +    +          
Sbjct: 16  EWEEKKLGSIGEFFKGSGISKSDLSESGKECILYGELYTTYGEVITSIRSKTDISLKNAV 75

Query: 80  IFAKGQILYGKLGPYLRKA----IIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
           +     ++    G           +   + +      V +P      L   + L+    +
Sbjct: 76  LSKINDVIIPSSGETAVDIATASCVMKDNVLLGGDLNVFRPNK-DNGLFISYQLNNAKKK 134

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            I  I +GA++ H   + +  + +  P L EQ  I          I+    +        
Sbjct: 135 EIAKIAQGASVVHIYNEQLKKVKVDTPSLQEQEKIANFFSILDELIEEQEGKVKDLELYK 194

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
           K   Q +    +    +             GL    WE K    +      +       +
Sbjct: 195 KGMMQKIFKQEIRFKDD------------NGLDYPEWEEKKITEIFNITRGQVIAKTSIS 242

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
            + +            +         +Y     GE +    D  N   + +  +   +  
Sbjct: 243 PIKIDRSIYPVYSSQTSNYGILGYDSSYDF--DGEFLTWTTDGAN---AGKVFKRNGKFR 297

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
            T+    +    I   +    ++     +    +       L    +  + + +P ++EQ
Sbjct: 298 CTNVCGLLVEKDITKGFANEFIKEILEKETPKHVSYIGNPKLMNGVIGDIKIRIPLLEEQ 357

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
             I + +    + ID +VE+ ++++  L+E + S +  
Sbjct: 358 RKIADFL----SNIDKIVEEEKKNLADLREMKKSLLQQ 391



 Score = 81.4 bits (199), Expect = 3e-13,   Method: Composition-based stats.
 Identities = 26/211 (12%), Positives = 72/211 (34%), Gaps = 6/211 (2%)

Query: 213 PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
           P ++ K+   EW         +  FF          ++  +  IL         ++ T  
Sbjct: 6   PKLRFKEFSDEW--EEKKLGSIGEFFKGSGISKSDLSESGKECILYGELYTTYGEVITSI 63

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
                 S +   +    +++           +  S  + +  ++       +P+  +  +
Sbjct: 64  RSKTDISLKNAVLSKINDVIIPSSGETAVDIATASCVMKDNVLLGGDLNVFRPNKDNGLF 123

Query: 333 LAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
           +++ + +    ++           +  E +K++ V  P ++EQ  I N      + +D L
Sbjct: 124 ISYQLNNAKKKEIAKIAQGASVVHIYNEQLKKVKVDTPSLQEQEKIANF----FSILDEL 179

Query: 393 VEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
           +E+ E  +  L+  +   +      +I  + 
Sbjct: 180 IEEQEGKVKDLELYKKGMMQKIFKQEIRFKD 210


>gi|257467222|ref|ZP_05631533.1| putative type I restriction-modification system, specificity
           determinant; restriction endonuclease [Fusobacterium
           gonidiaformans ATCC 25563]
          Length = 422

 Score = 92.5 bits (228), Expect = 1e-16,   Method: Composition-based stats.
 Identities = 49/394 (12%), Positives = 108/394 (27%), Gaps = 33/394 (8%)

Query: 26  KVVPIKRFTKLNTGR---------TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           +   I       + +              K+   I  +  E    K   +D      D S
Sbjct: 14  EWKKIGDIITKFSEKQRNKVNLKLVYTVSKEYGLISSK--EYWKNKERREDYTVYSEDLS 71

Query: 77  TVSIFAKGQILYGKLGPYLRK--AIIADFDGICSTQFLVLQPKDVLPELLQ--GWLLSID 132
             +I  K    Y      +     +    +GI S  + +    + +        ++ S  
Sbjct: 72  NYNIIKKNMFAYNPARLNIGSIDCLFDREEGILSPMYTIFSIDEEIINSKYLLYFIKSPK 131

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           + + I    E       D+     I +PIP L  Q  I + +   T  +  L  E    +
Sbjct: 132 ILKIINDKKEEGARFRFDFNRWKKIEIPIPSLETQEKIVKILDNFTNYVTELQAELQAEL 191

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           +   ++ Q     ++++G      ++    E         E+     +V     K     
Sbjct: 192 QARVKQYQYYRDMLLSEG-----YLRKISEERFLKTNSVIEIYKLNEVVEIKRGKRLVKS 246

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
                        Q  E     +   S                  + +   +       E
Sbjct: 247 -------------QLSELEKYPVFQNSLIPLGYYKDKNFEGNKTCIISAGAAGDIFYQAE 293

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI 372
                     + P         +         +   +       L  ++V+++ VL+P +
Sbjct: 294 DFWAADDVFVLSPSKKIVDKYLYYFLLSKQEFIKSKVRKASIPRLSRDEVEKIDVLIPSL 353

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
           + Q  I  V++   + +      + Q I   +++
Sbjct: 354 ELQNKIVEVLDKFQSLLSDTKGLLPQEIEQRQKQ 387


>gi|301062613|ref|ZP_07203245.1| type I restriction modification DNA specificity domain protein
           [delta proteobacterium NaphS2]
 gi|300443293|gb|EFK07426.1| type I restriction modification DNA specificity domain protein
           [delta proteobacterium NaphS2]
          Length = 422

 Score = 92.5 bits (228), Expect = 1e-16,   Method: Composition-based stats.
 Identities = 55/399 (13%), Positives = 121/399 (30%), Gaps = 25/399 (6%)

Query: 30  IKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           +     +  GRT         G    ++ + D++     +  ++      +     +  +
Sbjct: 6   LGDICDIVIGRTPSRSVPEYWGTGYPWVTISDLKEKHIWHTKEEITQNAIEKVKCRLIPR 65

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
           G +L+      + K   A  +   +     L  KD           ++ V + + +    
Sbjct: 66  GTLLFS-FKLTIGKMAFAARNLYTNEAIAGLLIKDPKKLCSDYLFYAMKVAKLLGSNQAV 124

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
              +                L +Q+ I   +      I T         EL       L 
Sbjct: 125 MGKTLNSKSLALIKVPVPEHLEDQLHIATLLSRLEALIATRKDNLRMLDEL-------LK 177

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
           S  +    NP    K      +G +      +       +    N          +S  N
Sbjct: 178 SIFLEMFGNPVKNEKTWQTAHLGNLARVERGRFSPRPRNDPKFYNGNFPFIQTRDISRAN 237

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
              +L   +  L     +  +    G +V   +     + ++          +    +  
Sbjct: 238 --GRLTEYSQTLNDLGIKVSKEFKNGTVVIAIVGATIGETAILQVDTYATDSVIG--ITP 293

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
            P  ID+ YL +L+R      V  A      R ++    +K L +++PP      + +  
Sbjct: 294 LPERIDAVYLEFLLR--FWKPVLKARAPEAARANININTLKPLNIILPP----KHLVSNF 347

Query: 383 NVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            +   +++ +    +Q++  LKE   +    A  G++DL
Sbjct: 348 VLIVQKVESIKSLYQQNLKGLKELYGTLSQKAFKGKLDL 386



 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 24/198 (12%), Positives = 61/198 (30%), Gaps = 12/198 (6%)

Query: 23  KHWKVVPIKRFTKLNTGRTSES--------GKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           K W+   +    ++  GR S            +  +I   D+    G+            
Sbjct: 192 KTWQTAHLGNLARVERGRFSPRPRNDPKFYNGNFPFIQTRDISRANGRLTEYSQTLNDLG 251

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
                 F  G ++   +G  + +  I   D   +   + + P     + +    L     
Sbjct: 252 IKVSKEFKNGTVVIAIVGATIGETAILQVDTYATDSVIGITPLPERIDAVYLEFLLRFWK 311

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             ++A    A  ++ +   +  + + +PP                +++++ +   + ++ 
Sbjct: 312 PVLKARAPEAARANININTLKPLNIILPPKHLVSNFVLI----VQKVESIKSLYQQNLKG 367

Query: 195 LKEKKQALVSYIVTKGLN 212
           LKE    L        L+
Sbjct: 368 LKELYGTLSQKAFKGKLD 385


>gi|293570792|ref|ZP_06681841.1| type I restriction-modification system, S subunit, putative
           [Enterococcus faecium E980]
 gi|291609145|gb|EFF38418.1| type I restriction-modification system, S subunit, putative
           [Enterococcus faecium E980]
          Length = 495

 Score = 92.5 bits (228), Expect = 1e-16,   Method: Composition-based stats.
 Identities = 64/439 (14%), Positives = 130/439 (29%), Gaps = 58/439 (13%)

Query: 13  SGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES----------GKDIIYIGLEDVESGTGK 62
           S  + +  IP+ W+   +     + TG +             G    YIG +DV      
Sbjct: 59  SEDEVLFDIPESWEWTRMSNIADMYTGNSIPKTIKENKYSKVGNGYDYIGTKDVGFDYTI 118

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGKLG-PYLRKAIIADFDGICSTQFLVLQPKDVLP 121
               +G     +        K  IL    G    RK  I D       +          P
Sbjct: 119 NYD-NGIKIPFEEDKFRNSFKDSILMCIEGGSAGRKIGILDKTVCFGNKLCSFNLIYGEP 177

Query: 122 ELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
             L  +L S    Q       G  +       +  I +P+PPL EQ  I  KI      +
Sbjct: 178 RFLYYYLQSPLFFQAFRDEMTG-IIGGVSITKLKGIIVPLPPLEEQKRIVAKIEELMPYV 236

Query: 182 DTLITERIRFIELLKEK----KQALVSYIVTKGLNPDVK--------------------- 216
           D          EL K+     +++++ Y +   L    +                     
Sbjct: 237 DKYDVAYSEVEELNKKFPEDIQKSILQYAIQGKLVEQREEDGTAEDLYKQIQEEKKKLIK 296

Query: 217 ----------MKDSGIEWVGLVPDHWEVKPFFALVT---ELNRKNTKLIESNILSLSYGN 263
                      + +  E    +P++W+      L+    +      K   + +  +S  +
Sbjct: 297 EGKIKKTKALPEITEDEIPFDIPENWKWVRLGDLLYKLTDGTHSTPKYTATGVPFISVKD 356

Query: 264 IIQKLETRNMGL-----KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
           I       +        + E+       +  +I+   +        +          ++ 
Sbjct: 357 ISSGEIDFSNTKFISREEHEALYKRCDPERDDILLTKVGTTGIPV-IVDTDKEFSLFVSV 415

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFD 377
           A +      I + Y  +++++  +         G+  ++    D+    + + P+ EQ  
Sbjct: 416 ALLKFNTDLIFNKYFMYVIKAPVVQIQARENTRGVGNKNWVMRDIANTVLPLSPLAEQNR 475

Query: 378 ITNVINVETARIDVLVEKI 396
           I   I       + L++K+
Sbjct: 476 IVEKIEELLPYTNQLIKKV 494



 Score = 78.7 bits (192), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 29/215 (13%), Positives = 70/215 (32%), Gaps = 20/215 (9%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKP-- 277
           S  E +  +P+ WE      +       +             GN    + T+++G     
Sbjct: 59  SEDEVLFDIPESWEWTRMSNIADMYTGNSIPKTIKENKYSKVGNGYDYIGTKDVGFDYTI 118

Query: 278 ----------ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
                     E  +         ++         K  +    + +     +   +     
Sbjct: 119 NYDNGIKIPFEEDKFRNSFKDSILMCIEGGSAGRKIGI----LDKTVCFGNKLCSFNLIY 174

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET- 386
            +  +L + ++S    + F    +G+   +    +K + V +PP++EQ  I   I     
Sbjct: 175 GEPRFLYYYLQSPLFFQAFRDEMTGIIGGVSITKLKGIIVPLPPLEEQKRIVAKIEELMP 234

Query: 387 --ARIDVLVEKIEQSIVLL-KERRSSFIAAAVTGQ 418
              + DV   ++E+      ++ + S +  A+ G+
Sbjct: 235 YVDKYDVAYSEVEELNKKFPEDIQKSILQYAIQGK 269


>gi|75674466|ref|YP_316887.1| restriction endonuclease S subunits [Nitrobacter winogradskyi
           Nb-255]
 gi|74419336|gb|ABA03535.1| restriction endonuclease S subunit [Nitrobacter winogradskyi
           Nb-255]
          Length = 444

 Score = 92.5 bits (228), Expect = 1e-16,   Method: Composition-based stats.
 Identities = 54/440 (12%), Positives = 117/440 (26%), Gaps = 47/440 (10%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W  V +    +  +        +  Y  +    +G G    +     +   +       G
Sbjct: 5   WPTVALGDLLR-RSEHIIPLDPEATYKEVTVRINGKGVVERRQVQGVEIAANRRYQAKSG 63

Query: 85  QILYGKLGPYLRKAIIADFD---GICSTQF--LVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           Q +  ++      + +   +    + +  F    +    +    L     +    +  + 
Sbjct: 64  QFIISRIDARHGASGLIPDELDGAVVTNDFPLFDVAEDRLDAAFLGWMSKTASFVELCKR 123

Query: 140 ICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
             EG T            + +P+PPL EQ  I  +I     ++      R   IE ++  
Sbjct: 124 ASEGTTNRVRLSEDRFKALSIPLPPLDEQRRIVARIEELAAKVKEARGLRAAAIEEVEAH 183

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
             A++       L   V  K S  E +                     K           
Sbjct: 184 WPAILRLAFDGKLVSLVPFKASAQEILKQAATFHANYQETKNNNAYPNKPQISDNGPYAL 243

Query: 259 LSYGNIIQ--------------------------KLETRNMGLKPESYETYQIVDPGEIV 292
            +                                 L+T N+       +    + PG+  
Sbjct: 244 PTGWCWTTLGSVLTHMVDCVNDTPNFSEVDTGLLGLKTTNIRPYRLDLQRRWYMTPGDFA 303

Query: 293 FRFIDLQNDKRSLRSAQVMERGIIT-------------SAYMAVKPHGIDSTYLAWLMRS 339
                       +   +    G +                 +  +   I S YL   + S
Sbjct: 304 SWNRRQPPQAGDIVLTREAPVGNVCMLPEGISACLTQRLMLLRAENRVIQSRYLLHFLNS 363

Query: 340 YDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
                   A G G     ++  D     + +PP+++Q  I   ++   +++D +     +
Sbjct: 364 PCFTDQIAASGRGQTHPHIRVGDAPHFLLPLPPMEQQVKIVAELDALQSKLDSVKALQTE 423

Query: 399 SIVLLKERRSSFIAAAVTGQ 418
           +   L     + +  A TG+
Sbjct: 424 TAAELDAMLPAILDKAFTGE 443



 Score = 49.0 bits (115), Expect = 0.001,   Method: Composition-based stats.
 Identities = 33/202 (16%), Positives = 66/202 (32%), Gaps = 11/202 (5%)

Query: 21  IPKHWKVVPIKRF----TKLNTG--RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           +P  W    +                 SE    ++ +   ++         +   +    
Sbjct: 243 LPTGWCWTTLGSVLTHMVDCVNDTPNFSEVDTGLLGLKTTNIRPYRLDLQRRWYMTPGDF 302

Query: 75  TSTVSIFAK--GQILYGKLGPYLRKAIIADFDGICSTQ---FLVLQPKDVLPELLQGWLL 129
            S         G I+  +  P     ++ +    C TQ    L  + + +    L  +L 
Sbjct: 303 ASWNRRQPPQAGDIVLTREAPVGNVCMLPEGISACLTQRLMLLRAENRVIQSRYLLHFLN 362

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
           S   T +I A   G T  H       +  +P+PP+ +QV I  ++ A   ++D++   + 
Sbjct: 363 SPCFTDQIAASGRGQTHPHIRVGDAPHFLLPLPPMEQQVKIVAELDALQSKLDSVKALQT 422

Query: 190 RFIELLKEKKQALVSYIVTKGL 211
                L     A++    T  L
Sbjct: 423 ETAAELDAMLPAILDKAFTGEL 444


>gi|60681038|ref|YP_211182.1| putative type I restriction-modification specificity protein
           [Bacteroides fragilis NCTC 9343]
 gi|60492472|emb|CAH07242.1| putative type I restriction-modification specificity protein
           [Bacteroides fragilis NCTC 9343]
          Length = 457

 Score = 92.5 bits (228), Expect = 1e-16,   Method: Composition-based stats.
 Identities = 57/437 (13%), Positives = 117/437 (26%), Gaps = 70/437 (16%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRT-----SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
            IPK W+   +++ T L           +   +  ++   +++       P      + +
Sbjct: 24  EIPKGWEWCRLRQITSLLGDGIHGTPEYDPNGEYYFVNGNNLQDKKIVIKPDTKKVSREE 83

Query: 75  TSTVSI-FAKGQILYGKLGPYLRKAIIADFDGICS-TQFLVLQPKDVLPELLQGWLLSID 132
                    K  +L    G         D   +   +        + L E +   L S  
Sbjct: 84  YLKYKKNLNKHTVLVSINGTLGNIGFYNDEPIMLGKSACYFNLIVEDLKEYVYILLQSPF 143

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIRE---KIIAETVRIDTLITERI 189
             +       G T+ +     + N+ +P+PPL EQ  I +    +  +  +     T   
Sbjct: 144 FMEYTLKAATGTTIKNVSLMAMNNLLIPLPPLCEQNRIVDRMTILDTKVKQYQKQETCLR 203

Query: 190 RFIELLKEK-KQALVSYIVTKGLNPDV------------------------KMKDS---- 220
                +    K++++   +   L P +                        K+K S    
Sbjct: 204 ELNNNIYSILKKSILQDAIQGKLVPQIAEEGTAEELLAEIHKEKERLVKEGKLKKSALTD 263

Query: 221 ----------------------GIEWVGLVPDHWEVKPFFALVTELNRK------NTKLI 252
                                   E +  +PD W       L      K          +
Sbjct: 264 SIIFKGDDNKYYERIGGKDICIDDEILFEIPDSWVWCRLGFLFNHNTGKALNASNKEGSM 323

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
              I + +       L +       +S      V  G+++                    
Sbjct: 324 LPYITTSNLYWGQFDLSSVRQMYFKDSEIEKCSVSNGDLLVCEGGDIGRAAIWP---YDT 380

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI 372
              I +    ++ +    T   + +        +        Q L  + +  + V +PPI
Sbjct: 381 PMCIQNHIHKLRSYNQLDTLFYYYIFQAYKYNGYIGGKGIGIQGLSSKALHNMLVPLPPI 440

Query: 373 KEQFDITNVINVETARI 389
            EQ  IT+ I+     I
Sbjct: 441 NEQIRITSKISSLFQFI 457



 Score = 76.8 bits (187), Expect = 6e-12,   Method: Composition-based stats.
 Identities = 30/215 (13%), Positives = 64/215 (29%), Gaps = 18/215 (8%)

Query: 218 KDSGIEWVGLVPDHWEVKPFFAL----VTELNRKNTKLIESNILSLSYGNIIQKLETRNM 273
           K    E    +P  WE      +       ++             ++  N+  K      
Sbjct: 15  KCIDEEIPFEIPKGWEWCRLRQITSLLGDGIHGTPEYDPNGEYYFVNGNNLQDKKIVIKP 74

Query: 274 GLKPESYETYQIVDPG-EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
             K  S E Y             + +     ++         +  SA            Y
Sbjct: 75  DTKKVSREEYLKYKKNLNKHTVLVSINGTLGNIGFYNDEPIMLGKSACYFNLIVEDLKEY 134

Query: 333 LAWLMRSYDLCKV-FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
           +  L++S    +    A      +++    +  L + +PP+ EQ  I +        +D 
Sbjct: 135 VYILLQSPFFMEYTLKAATGTTIKNVSLMAMNNLLIPLPPLCEQNRIVDR----MTILDT 190

Query: 392 LVEKIEQSIVLLKE--------RRSSFIAAAVTGQ 418
            V++ ++    L+E         + S +  A+ G+
Sbjct: 191 KVKQYQKQETCLRELNNNIYSILKKSILQDAIQGK 225


>gi|297568979|ref|YP_003690323.1| restriction modification system DNA specificity domain protein
           [Desulfurivibrio alkaliphilus AHT2]
 gi|296924894|gb|ADH85704.1| restriction modification system DNA specificity domain protein
           [Desulfurivibrio alkaliphilus AHT2]
          Length = 458

 Score = 92.5 bits (228), Expect = 1e-16,   Method: Composition-based stats.
 Identities = 54/459 (11%), Positives = 133/459 (28%), Gaps = 66/459 (14%)

Query: 24  HWKVVPIKR----FTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPK---DGNSRQSDTS 76
            W  + +K               ++G    YI +  ++ G   +         +   + +
Sbjct: 4   EWVRLTLKEAGVSLLDCVHKTPPDAGDGYPYIAIPQMKEGRIDFNANPRLISAADLEEWT 63

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGIC---STQFLVLQPKDVLPELLQGWLLSIDV 133
             +   +  ++  +       A +          +   L      V P  L+      + 
Sbjct: 64  KKANPQEDDVVLSRRCNPGETAYVPAGVRFALGQNLVLLRSDSSRVYPPFLRWLANGPEW 123

Query: 134 TQRIEAICE-GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
             +++     GA         I N  +PIPP+ EQ  I   + +   +I+          
Sbjct: 124 WAQVDKYLNVGAVFDSLRCADIPNFELPIPPIEEQKAIAHILGSLDDKIELNRRMNATLE 183

Query: 193 ELLKEKKQA-------LVSYIVTKG---------------------------LNPDVKMK 218
            + +   ++       ++   +  G                           +      +
Sbjct: 184 AMARALFKSWFVDFDPVIDNALAAGNPIPEPLQARAKARKALGDQRKPLPEAIQKQFPSR 243

Query: 219 DSGIEWVGLVPDHWE-------VKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETR 271
               E +G VP+ WE               T    K     +  +  L+ G + Q + T 
Sbjct: 244 FVSTEEMGWVPEGWEVSQISQLCTKIQNGGTPRKDKTEYWDDGTVPWLTSGEVRQNIITN 303

Query: 272 NMGLKPE---SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
            +           + + +  G  V           + + A V E      A   + P   
Sbjct: 304 TVNRITNLGLKNSSAKWLPSGATVIAMYGAT----AGQVAFVGEPLTTNQAVCGLIPKEP 359

Query: 329 DSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
              +  +L     +  +        +Q++    +++  V++PP+        ++  +   
Sbjct: 360 Y-RFFNYLTLERIVATLANQARGSAQQNISKGIIQQTKVVIPPVVL----GELLEKQVDN 414

Query: 389 I-DVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
           I D  ++ +      L + R + +   ++GQ+ +    +
Sbjct: 415 IFDKWIKNLNSQ-ETLAKIRDTLLPKLISGQLRIPDAEK 452



 Score = 76.0 bits (185), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 26/194 (13%), Positives = 58/194 (29%), Gaps = 10/194 (5%)

Query: 19  GAIPKHWKVVPIKRFT-KLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPKDGNS 70
           G +P+ W+V  I +   K+  G T    K        + ++   +V             +
Sbjct: 251 GWVPEGWEVSQISQLCTKIQNGGTPRKDKTEYWDDGTVPWLTSGEVRQNIITNTVNRITN 310

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
                S+      G  +    G    +          +     L PK+  P     +L  
Sbjct: 311 LGLKNSSAKWLPSGATVIAMYGATAGQVAFVGEPLTTNQAVCGLIPKE--PYRFFNYLTL 368

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
             +   +     G+   +     I    + IPP+    L+ +++     +    +  +  
Sbjct: 369 ERIVATLANQARGSAQQNISKGIIQQTKVVIPPVVLGELLEKQVDNIFDKWIKNLNSQET 428

Query: 191 FIELLKEKKQALVS 204
             ++       L+S
Sbjct: 429 LAKIRDTLLPKLIS 442


>gi|238854454|ref|ZP_04644794.1| type IC specificity subunit [Lactobacillus jensenii 269-3]
 gi|282932599|ref|ZP_06338020.1| type IC specificity subunit [Lactobacillus jensenii 208-1]
 gi|313472061|ref|ZP_07812553.1| type I restriction-modification system, specificity subunit
           [Lactobacillus jensenii 1153]
 gi|238832947|gb|EEQ25244.1| type IC specificity subunit [Lactobacillus jensenii 269-3]
 gi|239530090|gb|EEQ69091.1| type I restriction-modification system, specificity subunit
           [Lactobacillus jensenii 1153]
 gi|281303295|gb|EFA95476.1| type IC specificity subunit [Lactobacillus jensenii 208-1]
          Length = 390

 Score = 92.5 bits (228), Expect = 1e-16,   Method: Composition-based stats.
 Identities = 75/380 (19%), Positives = 129/380 (33%), Gaps = 31/380 (8%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           WK      F+   T  ++    D   I  E++ SG GK              +   F KG
Sbjct: 14  WKNKKFLTFSSKITKNSTSDDIDFPRIEFENIVSGEGKLAQNRSKLNHIK--SGIKFDKG 71

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            IL+GKL PYL+   +A+F G+    F V++ K         +L+   + +++     G 
Sbjct: 72  DILFGKLRPYLKNWWLAEFPGVAVGDFWVIRAK--DNRYFLYYLIQAPLFEKVSNYTTGT 129

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
            M  +DW  + N    +P + EQ  I   +      +     +     +  K     L  
Sbjct: 130 KMPRSDWNYVSNTFFKLPKIDEQEKIGRILDKVDSLLSLQHRKMELENQTSKAIYNYLFD 189

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
                    +   K    E                  + L+ KN                
Sbjct: 190 KNKPFYFKDNKTKKVFLKE-------------LGTTYSGLSGKNKTDFGHGKAKYITYLN 236

Query: 265 IQKLETRNMGLKP--ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME--RGIITSAY 320
           + K    N  L    E  +    V  G+I+F       ++  L S    +     + S  
Sbjct: 237 VNKNTIANHNLLDLIEIDKKQNEVLNGDILFTISSETPEEVGLASLWPYDDTNIYLNSFC 296

Query: 321 MAVKPH-GIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDI 378
              +P+  I++ +LA+ +RS  + K  Y +  G+ R +L  + V  L V VP   EQ   
Sbjct: 297 FGFRPNSKINNLWLAYELRSLKIRKNMYKLAQGISRYNLSKKSVLNLQVDVPSDAEQN-- 354

Query: 379 TNVINVETARIDVLVEKIEQ 398
                   ++   L+    +
Sbjct: 355 ------FDSKFVKLINIQTK 368



 Score = 50.9 bits (120), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 25/180 (13%), Positives = 60/180 (33%), Gaps = 10/180 (5%)

Query: 232 WEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK-LETRNMGLKPESYETYQIVDPGE 290
                 F   +    KN+   + +   + + NI+    +      K    ++    D G+
Sbjct: 13  PWKNKKFLTFSSKITKNSTSDDIDFPRIEFENIVSGEGKLAQNRSKLNHIKSGIKFDKGD 72

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG 350
           I+F  +        L        G+    +  ++    +  +L +L+++    KV     
Sbjct: 73  ILFGKLRPYLKNWWLAEF----PGVAVGDFWVIRAKD-NRYFLYYLIQAPLFEKVSNYTT 127

Query: 351 SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
                   +  V      +P I EQ  I  +++    ++D L+    + + L  +   + 
Sbjct: 128 GTKMPRSDWNYVSNTFFKLPKIDEQEKIGRILD----KVDSLLSLQHRKMELENQTSKAI 183


>gi|227893572|ref|ZP_04011377.1| conserved hypothetical protein [Lactobacillus ultunensis DSM 16047]
 gi|227864624|gb|EEJ72045.1| conserved hypothetical protein [Lactobacillus ultunensis DSM 16047]
          Length = 406

 Score = 92.5 bits (228), Expect = 1e-16,   Method: Composition-based stats.
 Identities = 52/406 (12%), Positives = 132/406 (32%), Gaps = 34/406 (8%)

Query: 24  HWKVVPIKRFTKLNTGRTSES-----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
            W+   +        G+++          I  I   ++ +     + K  +    D   +
Sbjct: 20  DWEQRKLNDIGNFYYGKSAPKWSVTNNGGIPCIRYGELYTKYSTKIDKILSFTSIDKDKL 79

Query: 79  SIFAKGQILYGKLGP----YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
              +  ++L  ++G     + + A       +   + + +      P  +  +L +  + 
Sbjct: 80  KFSSGHEVLIPRVGEEPLDFAKHASWLSVPNVAIGEMITVFNTKEDPLFIANYLRAKYIV 139

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           +      EG  +S+  +       + IP   E+  + + I     +I+ LI+ + R ++ 
Sbjct: 140 KFA-KFVEGGNVSNLYFDRYKYTNIFIPTKKEERSVSKLI----YKINKLISLQQRKMKE 194

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
           L   KQ++   I+    +     K     W             +       + N K    
Sbjct: 195 LNSLKQSISKLILENQSDKIRFCKFKESNW-----------KTYQFGQLYQKTNDKNKNV 243

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
           N                      E  + Y I   G+IVF     +  +        +  G
Sbjct: 244 NDNFKIISVAGMDWGQSVTKSSKEYMKPYNITKLGDIVFEGHKNKQHEFGRFIENTLGTG 303

Query: 315 IITSAYMAVKPHGI--DSTYLAWLMRSYDLCKVFYAMGSG---LRQSLKFEDVKRLPVLV 369
           +++  +   +P     D  +  + + S ++      M +    +  +L  +D+K+  +++
Sbjct: 304 LVSHIFDVYRPKNEISDLNFWKFYINSENIMNRVLRMSTSSARMMNNLNNKDLKKQKIVI 363

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           P  +E   I N++          +   +  ++LL+    + +    
Sbjct: 364 PGYEEMKKIGNLLLTLQEN----IGNSQTKLMLLRNIEKALLQDLF 405


>gi|297617309|ref|YP_003702468.1| restriction modification system DNA specificity domain protein
           [Syntrophothermus lipocalidus DSM 12680]
 gi|297145146|gb|ADI01903.1| restriction modification system DNA specificity domain protein
           [Syntrophothermus lipocalidus DSM 12680]
          Length = 422

 Score = 92.2 bits (227), Expect = 1e-16,   Method: Composition-based stats.
 Identities = 53/421 (12%), Positives = 131/421 (31%), Gaps = 35/421 (8%)

Query: 26  KVVPIKRFTKLNTGRTSE----SGKDIIYIGLEDV---ESGTGKYLPKDGNSRQSDTSTV 78
           K+  +     + + +         + + +   +++     G      +    R       
Sbjct: 6   KLYKMSELCDITSSKRIYAADYKPEGVPFYRGKEIVEKHQGKLDVSTELFIDRVKFEQIR 65

Query: 79  SIF---AKGQILYGKLGPYLRKAIIA---DFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
           + F     G +L   +G      ++    +F             +++    L  WLLS  
Sbjct: 66  AKFGTPKAGDLLLTSVGTLGVPYVVRHGEEFYFKDGNLTWFTNFRNLDNRFLYYWLLSPQ 125

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
             ++++    G++        +  + + +P    Q  I   + A    ID          
Sbjct: 126 GREQLKKCVIGSSQPAYTIALLKEMEICLPHFPIQRKIAAILSAYDDLIDNNNRRIRILE 185

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
               E  Q +      K   P  +        +G +P+ WEVK    LV           
Sbjct: 186 ----EMAQLIYREWFVKFRFPGYEKVRMVDSELGPIPEGWEVKRLSDLVDTQYGYTESAR 241

Query: 253 ESNI-------LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
           +  +         ++  + I   + +   +  E Y  Y++     +V R  D       +
Sbjct: 242 DLPVGPKYLRGTDINKNSYIDWDKVQFCTINDEDYRKYKLKQGDILVIRMADP----GKV 297

Query: 306 RSAQVMERGIITSAYMAVKPHGID--STYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDV 362
              +     +  S  + +K   +     YL + + S           +G  R+S     +
Sbjct: 298 GIVEQSVEAVFASYLIRLKIRSLSVAPYYLFYFLLSDRYQNYINRASTGTTRKSASASVI 357

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
             + +++PP     +I ++           +  + +   +L+  R   +   ++G++++ 
Sbjct: 358 TDISLVIPP----KEIIDMFEEIIMGYRKFLNILLKQNTVLRRTRDLLLPKLISGELNVE 413

Query: 423 G 423
            
Sbjct: 414 D 414



 Score = 62.9 bits (151), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 37/182 (20%), Positives = 62/182 (34%), Gaps = 14/182 (7%)

Query: 3   HYKAYPQ--YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDII----YIGLEDV 56
            +  Y +    DS    +G IP+ W+V  +        G T ES +D+     Y+   D+
Sbjct: 200 RFPGYEKVRMVDSE---LGPIPEGWEVKRLSDLVDTQYGYT-ESARDLPVGPKYLRGTDI 255

Query: 57  E-SGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQ 115
             +    +      +   +        +G IL  ++    +  I+          +L+  
Sbjct: 256 NKNSYIDWDKVQFCTINDEDYRKYKLKQGDILVIRMADPGKVGIVEQSVEAVFASYLIRL 315

Query: 116 PKDVL---PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIRE 172
               L   P  L  +LLS      I     G T   A    I +I + IPP     +  E
Sbjct: 316 KIRSLSVAPYYLFYFLLSDRYQNYINRASTGTTRKSASASVITDISLVIPPKEIIDMFEE 375

Query: 173 KI 174
            I
Sbjct: 376 II 377



 Score = 62.5 bits (150), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 23/198 (11%), Positives = 56/198 (28%), Gaps = 8/198 (4%)

Query: 217 MKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK 276
           MK S   +                               I+    G +    E     +K
Sbjct: 1   MKSSTKLYKMSELCDITSSKRIYAADYKPEGVPFYRGKEIVEKHQGKLDVSTELFIDRVK 60

Query: 277 PESYE-TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
            E     +     G+++   +        +R  +          +     +  D+ +L +
Sbjct: 61  FEQIRAKFGTPKAGDLLLTSVGTLGVPYVVRHGEEFYFKDGNLTWFTNFRNL-DNRFLYY 119

Query: 336 LMRSYDLCKVFYA-MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
            + S    +     +    + +     +K + + +P    Q  I  +++      D L++
Sbjct: 120 WLLSPQGREQLKKCVIGSSQPAYTIALLKEMEICLPHFPIQRKIAAILSA----YDDLID 175

Query: 395 KIEQSIVLLKERRSSFIA 412
              + I +L+E     I 
Sbjct: 176 NNNRRIRILEEMAQ-LIY 192


>gi|42528244|ref|NP_973342.1| type I restriction-modification system, S subunit [Treponema
           denticola ATCC 35405]
 gi|41819514|gb|AAS13261.1| type I restriction-modification system, S subunit [Treponema
           denticola ATCC 35405]
          Length = 532

 Score = 92.2 bits (227), Expect = 1e-16,   Method: Composition-based stats.
 Identities = 54/451 (11%), Positives = 118/451 (26%), Gaps = 83/451 (18%)

Query: 21  IPKHWKVVPIKRFTKLN-TGRTS--ESGKDIIYIGLEDVESGTGKYLPKDGNSRQ--SDT 75
           +P+ W    +    +    G+T           +  +  +    +            S  
Sbjct: 86  VPEGWAWCRLGEICEFISRGKTPVYTKESQYPVLAQKCNQWDGIRLDKVLFLDPNSLSKW 145

Query: 76  STVSIFAKGQILYGKLGP-YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
           +         I+    G   + +  I D   +    F+V      +    + ++    + 
Sbjct: 146 TNEYHLQHEDIVINSTGTGTIGRVGIFDIGILGQYPFIVPDSHISVVRCYKVYIHRKYIY 205

Query: 135 QRIEAIC----------EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
               +                      K +    +PIPPL+EQ  I  KI A   +ID L
Sbjct: 206 HIFTSEYLQTKINKVATGSTNQKELPKKVLTEFFIPIPPLSEQQRIVAKIEAIFAQIDLL 265

Query: 185 ITERIRFIELLKEKKQALVSYIVTKGLNPD------------------------------ 214
              +      +K+ K  ++   +   L P                               
Sbjct: 266 EQNKADLQTAVKQAKSKILDLAIRGKLVPQDPADEPASVMLEKLHAEKEAKIAAGEIKRG 325

Query: 215 ----VKMKDS-----------------GIEWVGLVPDHWEVKPFFALV-------TELNR 246
                  K+S                   E    +P++W+      +            +
Sbjct: 326 KNDSYIYKNSTDNCYYEKFFEKKDLCIDNEIPFELPENWQWTKLGRICDKLVDGDHNPPK 385

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVD----PGEIVFRFIDLQNDK 302
              +  E  ++S    N     +  N+    +     + +      G+I F  +      
Sbjct: 386 GIEEKTEYIMVSSRNINHNTVEDLENVRYLTKEMFDAENLRTNATAGDIFFTSVGSLGR- 444

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFED 361
                       I     +++    + + Y+ +   S           +G  +     ++
Sbjct: 445 ---SCIYDGRMNICFQRSVSILNTKVYNKYVKFFFDSNFYQNYVAEHATGTAQMGFYLQE 501

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVL 392
           +    + +PPI EQ  I   I      +D +
Sbjct: 502 MAESFIAIPPISEQKRIVARIEEIFYVLDNI 532



 Score = 79.1 bits (193), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 31/216 (14%), Positives = 71/216 (32%), Gaps = 15/216 (6%)

Query: 218 KDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES--------NILSLSYGNIIQKLE 269
           KD   E    VP+ W       +   ++R  T +              +   G  + K+ 
Sbjct: 76  KDIEDEIPFAVPEGWAWCRLGEICEFISRGKTPVYTKESQYPVLAQKCNQWDGIRLDKVL 135

Query: 270 TRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII-----TSAYMAVK 324
             +     +    Y +     ++         +  +    ++ +          + +   
Sbjct: 136 FLDPNSLSKWTNEYHLQHEDIVINSTGTGTIGRVGIFDIGILGQYPFIVPDSHISVVRCY 195

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
              I   Y+  +  S  L      + +G   ++ L  + +    + +PP+ EQ  I   I
Sbjct: 196 KVYIHRKYIYHIFTSEYLQTKINKVATGSTNQKELPKKVLTEFFIPIPPLSEQQRIVAKI 255

Query: 383 NVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
               A+ID+L +        +K+ +S  +  A+ G+
Sbjct: 256 EAIFAQIDLLEQNKADLQTAVKQAKSKILDLAIRGK 291



 Score = 57.9 bits (138), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 28/173 (16%), Positives = 59/173 (34%), Gaps = 9/173 (5%)

Query: 20  AIPKHWKVVPIKRFT-KLNTG-----RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
            +P++W+   + R   KL  G     +  E   + I +   ++   T + L       + 
Sbjct: 359 ELPENWQWTKLGRICDKLVDGDHNPPKGIEEKTEYIMVSSRNINHNTVEDLENVRYLTKE 418

Query: 74  DTSTVSI---FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
                ++      G I +  +G   R  I      IC  + + +    V  + ++ +  S
Sbjct: 419 MFDAENLRTNATAGDIFFTSVGSLGRSCIYDGRMNICFQRSVSILNTKVYNKYVKFFFDS 478

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
                 +     G        + +    + IPP++EQ  I  +I      +D 
Sbjct: 479 NFYQNYVAEHATGTAQMGFYLQEMAESFIAIPPISEQKRIVARIEEIFYVLDN 531


>gi|93213410|gb|ABC46685.1| Sau1hsdS1 [Staphylococcus aureus]
          Length = 419

 Score = 92.2 bits (227), Expect = 1e-16,   Method: Composition-based stats.
 Identities = 62/407 (15%), Positives = 133/407 (32%), Gaps = 27/407 (6%)

Query: 24  HWKVVPIKRFTKLNTGRTSE-SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            W+   +   T     +      K  + I  +       +Y  K  +S+  +    ++  
Sbjct: 20  EWEEKKLGDLTDRVIRKNKNLESKKPLTISGQLGLIDQTEYFSKSVSSKNLE--NYTLIK 77

Query: 83  KGQILYGKLGPYLRKAIIAD-----FDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
            G+  Y K                   G+ S+ ++    K  + +             R 
Sbjct: 78  NGEFAYNKSYSNGYPLGAIKRLTRYDSGVLSSLYICFSIKSEMSKDFMEAYFDSTHWYRE 137

Query: 138 EAIC-----EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
            +           + +        I +  P L EQ  I +       ++D  I    + +
Sbjct: 138 VSGIAVEGARNHGLLNVSVNDFFTILIKYPSLEEQQKIGKF----FSKLDRQIELEEQKL 193

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           ELL+++K+  +  I ++ L    +  +   +W  +       K          + N +  
Sbjct: 194 ELLQQQKKGYMQKIFSQELRFKNENGNDYPDWERIKFFDVIDKVIDFRGRTPKKLNMEWS 253

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR----SA 308
           +   L+LS  N+ +     N+  K  + + Y     G  +++   L   +  +       
Sbjct: 254 DEGYLALSAVNVKKGYIDFNVEAKYGNLDLYTRWMRGNELYKGQVLFTTEAPMGNVAQVP 313

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPV 367
                 +            I   +LA L+ S ++      + SG   + +  +++ RL V
Sbjct: 314 DNKGYILSQRTIAFNSNEKITDNFLASLLSSENVYNDLLKLCSGATAKGVSQKNLNRLYV 373

Query: 368 LVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            +P  I EQ +I         +I+ LVE  +  I   K ++  F+  
Sbjct: 374 TIPHSISEQEEIAEF----FRKINQLVELQKYKIEHTKSQKQVFLQK 416


>gi|308270340|emb|CBX26952.1| hypothetical protein N47_A09810 [uncultured Desulfobacterium sp.]
          Length = 422

 Score = 92.2 bits (227), Expect = 1e-16,   Method: Composition-based stats.
 Identities = 67/430 (15%), Positives = 143/430 (33%), Gaps = 48/430 (11%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGK-----DIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
             W +  +        G+  E+ +        Y+G   +  G   Y     + +      
Sbjct: 2   SEWVIDQLHNLLDFQKGKKVETSEIQRSGYERYLGAASLVGGHDGYASTRFSVKA----- 56

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
                K  +L    G         +  G+ S+    L P + +   L  + L     + I
Sbjct: 57  ----NKDDVLMLWDGERSGLVG-HNLTGVVSSTVTKLSPNNKIISSLLYYYLLQSF-EWI 110

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           +    G  + H     +  + +  P   +       I      +D  I +    I   ++
Sbjct: 111 QNRRTGTGVPHVPKDLMKILKLKYPKENKYQKKVALI---LETVDQAIEKTEALIYKYQQ 167

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIE--------WVGLVPDHWEVKPFFALVTELNR--- 246
            K  L+  + T+G+  D K++    +         +G +P  W++     +   + +   
Sbjct: 168 IKAGLMHDLFTRGVTADGKLRPLREQAPELYKETPIGWIPKEWDIVRASDICHPITKGTT 227

Query: 247 -----------KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRF 295
                      K+   I    LS +              +   S      V PG+I+   
Sbjct: 228 PSTFINNANRIKSIPYIRVENLSFNGSLRFDMDSLFVSNIIHNSELARSKVFPGDILMNI 287

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG--SGL 353
           +     K SL + +  E     +  +    H     YL + + S    K FY     +  
Sbjct: 288 VGPPLGKVSLITDEYEEWNTNQAVSIYRVLHQRYRLYLLYYLLSDFAQKWFYLRSKRTSG 347

Query: 354 RQSLKFEDVKRLPVLVPPIK-EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           + +L  E    L + +P  + E   I+N+++    +I+  +E   +  + LK+++S  + 
Sbjct: 348 QVNLTLEMCSNLEMPLPKNEGELASISNILSQIFEKIN--IENNFR--IKLKKQKSGLMN 403

Query: 413 AAVTGQIDLR 422
             +TG++ + 
Sbjct: 404 DLLTGKVQVT 413



 Score = 62.5 bits (150), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 39/213 (18%), Positives = 70/213 (32%), Gaps = 19/213 (8%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTK-LNTGRTSES-------GKDIIYIGLEDVESGTG 61
           YK++ + W   IPK W +V        +  G T  +        K I YI +E++     
Sbjct: 198 YKETPIGW---IPKEWDIVRASDICHPITKGTTPSTFINNANRIKSIPYIRVENLSFNGS 254

Query: 62  KYLPKD----GNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD---FDGICSTQFLVL 114
                D     N   +     S    G IL   +GP L K  +      +   +    + 
Sbjct: 255 LRFDMDSLFVSNIIHNSELARSKVFPGDILMNIVGPPLGKVSLITDEYEEWNTNQAVSIY 314

Query: 115 QPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKI 174
           +       L   + L  D  Q+   +    T    +        + +P    +  +   I
Sbjct: 315 RVLHQRYRLYLLYYLLSDFAQKWFYLRSKRTSGQVNLTLEMCSNLEMPLPKNEGELAS-I 373

Query: 175 IAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
                +I   I     F   LK++K  L++ ++
Sbjct: 374 SNILSQIFEKINIENNFRIKLKKQKSGLMNDLL 406


>gi|254779944|ref|YP_003058051.1| putative type I restriction enzyme specificity protein
           [Helicobacter pylori B38]
 gi|254001857|emb|CAX30107.1| Putative type I restriction enzyme specificity protein
           [Helicobacter pylori B38]
          Length = 362

 Score = 92.2 bits (227), Expect = 1e-16,   Method: Composition-based stats.
 Identities = 42/401 (10%), Positives = 109/401 (27%), Gaps = 47/401 (11%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           +P +W+ V +    ++ TG + ++ + + Y                   +++        
Sbjct: 6   LPLNWQRVRLGDICEITTG-SLDANEMVHYGKYR-----------FYTCAKEYYFIDKYA 53

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
           F    IL    G Y+              +  VL        +   + L++ +   I+  
Sbjct: 54  FDTEAILISGNGAYVGYVHYYKGKFNAYQRTYVLD-NFSEHIIFVKYFLTMFLQSHIQTN 112

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
                  +     + +  + +PPL EQ+ I   +      + +L    ++   + K    
Sbjct: 113 RNEGNTPYIVMATLKDFEILLPPLNEQIAIANILSDVDRYLYSLDALILKKESVKKALSF 172

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
            L+S                  + +      W+      +              +     
Sbjct: 173 ELLSQ----------------RKRLKGFNQAWQRVRLGDICEITTGSLDANEMVHYGKYR 216

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
           +    ++    +                       I               +       Y
Sbjct: 217 FYTCAKEYYFIDKYAFDTEAI-------------LISGNGAYVGYVHYYKGKFNAYQRTY 263

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
           +          ++ + +  +    +      G    +    +K   +L+PP+ EQ  I N
Sbjct: 264 VLDNFSEHI-IFVKYFLTMFLQSHIQTNRNEGNTPYIVMATLKDFEILLPPLNEQIAIAN 322

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           +++     I  L  K  Q     +  + +     ++ +I +
Sbjct: 323 ILSDLDNEIISLKNKKSQ----FENIKKALNHDLMSAKIRV 359


>gi|229164779|ref|ZP_04292611.1| Type I restriction modification system, specificity subunit
           [Bacillus cereus R309803]
 gi|228618682|gb|EEK75676.1| Type I restriction modification system, specificity subunit
           [Bacillus cereus R309803]
          Length = 269

 Score = 92.2 bits (227), Expect = 1e-16,   Method: Composition-based stats.
 Identities = 47/272 (17%), Positives = 102/272 (37%), Gaps = 28/272 (10%)

Query: 172 EKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDH 231
           +KI A    ++  I +    IE  ++ K+ L+  + TKG+      +      +G +P  
Sbjct: 5   KKITAILSNVEEAIKKTEAVIEQTEKVKKGLMQQLFTKGIGHKDYKQTV----IGEIPRK 60

Query: 232 WEVKPFFALVTELN----RKNTKLIESNILSLSYGNIIQKLETRNMGL----KPESYETY 283
           W++ P   L+   +     K  +   S    +    + +        L            
Sbjct: 61  WDIYPLRDLIIGGSQNGLYKPKEYYGSGFGMVHMREMFKGEVLDISALQMVNTSVGENEK 120

Query: 284 QIVDPGEIVFRFIDLQNDKRS--LRSAQVMERGIITSAYMAVKPH--GIDSTYLAWLMRS 339
             ++ G+I+F    +  +     +   +  E     S+ + + P+   I   +L    RS
Sbjct: 121 FSLNEGDILFARRSVVYEGAGTPVYVPKHTEPITFESSIIRITPNQDFILPMFLNLYFRS 180

Query: 340 Y----DLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
                ++ ++   +       +  ED+  L V VP + EQ  I N +   + R     E 
Sbjct: 181 PVGRVNMQRIIRRLAVSG---ISSEDLLGLYVPVPSLDEQKQIVNSLAGVSKR----KEI 233

Query: 396 IEQSIVLLKERRSSFIAAAVTGQIDLR-GESQ 426
            E+ I  L + +   + + +TG++ ++  E +
Sbjct: 234 EEKKISSLTKVKQGLMQSLLTGKVRVKVDEDE 265



 Score = 42.5 bits (98), Expect = 0.12,   Method: Composition-based stats.
 Identities = 8/45 (17%), Positives = 20/45 (44%), Gaps = 4/45 (8%)

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           + EQ  IT ++    + ++  ++K E  I   ++ +   +    T
Sbjct: 1   MNEQKKITAIL----SNVEEAIKKTEAVIEQTEKVKKGLMQQLFT 41



 Score = 41.3 bits (95), Expect = 0.31,   Method: Composition-based stats.
 Identities = 32/217 (14%), Positives = 69/217 (31%), Gaps = 17/217 (7%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKR--FTKLNTGRTSESGKDIIYIGLEDVES-GTGKYLPK 66
           YK +    IG IP+ W + P++         G            G+  +     G+ L  
Sbjct: 49  YKQT---VIGEIPRKWDIYPLRDLIIGGSQNGLYKPKEYYGSGFGMVHMREMFKGEVLDI 105

Query: 67  DG---NSRQSDTSTVSIFAKGQILYGKLGPY----LRKAIIADFDGIC----STQFLVLQ 115
                 +     +      +G IL+ +             +           S   +   
Sbjct: 106 SALQMVNTSVGENEKFSLNEGDILFARRSVVYEGAGTPVYVPKHTEPITFESSIIRITPN 165

Query: 116 PKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKII 175
              +LP  L  +  S      ++ I     +S    + +  + +P+P L EQ  I   + 
Sbjct: 166 QDFILPMFLNLYFRSPVGRVNMQRIIRRLAVSGISSEDLLGLYVPVPSLDEQKQIVNSLA 225

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLN 212
             + R +    +     ++ +   Q+L++  V   ++
Sbjct: 226 GVSKRKEIEEKKISSLTKVKQGLMQSLLTGKVRVKVD 262


>gi|240949220|ref|ZP_04753564.1| restriction modification system, specificity subunit
           [Actinobacillus minor NM305]
 gi|240296336|gb|EER46980.1| restriction modification system, specificity subunit
           [Actinobacillus minor NM305]
          Length = 384

 Score = 92.2 bits (227), Expect = 1e-16,   Method: Composition-based stats.
 Identities = 50/389 (12%), Positives = 111/389 (28%), Gaps = 24/389 (6%)

Query: 31  KRFTKLNTGRTSESG---KDIIYIGLEDVESGTGKYLPKDGNS--RQSDTSTVSIFAKGQ 85
                +  G  S           +  +++             S    ++ +  S   +G 
Sbjct: 2   GDAADVRDGTHSSPNYYETGYPLVTSKNLTEYGLDLSDVSFISLCDFNEINKRSKVDEGD 61

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           IL G +G      ++           L+ + +++    L   L S      I     G T
Sbjct: 62  ILLGLIGTIGNPILVDKSGYAIKNVGLIKEKEELKNIFLVQLLKSSTFNNYIFQKNTGNT 121

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
                   + N     P + EQ  I         ++D  I    R     +  K A +  
Sbjct: 122 QKFLSLDTLRNFNFLCPKIEEQTAIGNF----FKQLDETIALHRRNCIKFQNLKTAYLEN 177

Query: 206 IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII 265
           I +           +  E   L    +          E  RK        I      ++ 
Sbjct: 178 IFSTKYIQIQNENKNAWEQRKLGEVGYCQSGIGFPEREQGRKK------GIPFYKVSDMT 231

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
                  M          QI+     V   I      +   +  +  + ++ ++++    
Sbjct: 232 LIGNELIMVTSNNYVSEEQILKNRWKVINSIPAIIFAKVGAALLLDRKRLVLNSFLIDNN 291

Query: 326 HGI---DSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVP-PIKEQFDITN 380
                 +  +  +  ++         +   G   S   +DV+ L V++P   +EQ  I N
Sbjct: 292 TMAYILNEQWDYYFCKTLFDTIYLPQLSQVGALPSFNGKDVENLNVIIPKSKEEQTTIGN 351

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSS 409
                  ++D  +   ++ +   ++ +++
Sbjct: 352 F----FKQLDETIALHQKELAKYQQIKAA 376


>gi|24215897|ref|NP_713378.1| type I restriction enzyme EcoprrI specificity protein [Leptospira
           interrogans serovar Lai str. 56601]
 gi|24197105|gb|AAN50396.1| type I restriction enzyme EcoprrI specificity protein [Leptospira
           interrogans serovar Lai str. 56601]
          Length = 411

 Score = 92.2 bits (227), Expect = 1e-16,   Method: Composition-based stats.
 Identities = 56/408 (13%), Positives = 130/408 (31%), Gaps = 42/408 (10%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIY-IGLEDVESGTG-------KYLPKDGNSRQSDTST 77
           +   +    +   G T     +    IG + + +           +      +  ++ S 
Sbjct: 16  EWKTLGEVAEYVRGLTYSKTDESPDNIGYKVIRANNITLPGNLLNFNDIKFINLDTNVSD 75

Query: 78  VSIFAKGQILYG----KLGPYLRKAIIA-DFDGICSTQFLVLQPKDVLPELL-QGWLLSI 131
                K  IL            + A I  D D        V++ KD +        L S 
Sbjct: 76  SKKLYKNDILISAASGSRDHVGKVAFIYSDLDYYFGGFMGVIRCKDEINSRYLFHILASD 135

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
              + ++ +   +T+++ +   +    +PIPPLA Q+ I   + A T     L TE    
Sbjct: 136 IFQKYLDEMLNSSTINNLNSAVMSGFQLPIPPLAVQIEIVRILDAFTELTTELTTELTTE 195

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEW--VGLVPDHWEVKPFFALVTELNRKNT 249
           +      ++   +       +  +  ++  +EW  +G      +     A   +   K  
Sbjct: 196 LTTELTARKKQYN----YYRDQLLSFEEGEVEWKTLGETLVRTKGTNITAGQMKELNK-- 249

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
                          +         +  E      +     I+ +   +   +   +   
Sbjct: 250 ---------YGAPLKVFAGGRTVAFVNFEDIPAKDVNREPSIIVKSRGVIEFEYYDKPFS 300

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVL 368
                    +    K  GI+  Y+ + ++  +    F ++GS ++   +   D  +  + 
Sbjct: 301 HKNEMWSYHS----KNEGINIKYVYYFLKMNEP--YFRSIGSKMQMPQIATPDTDKFQIP 354

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           +PP+ EQ  I  +++   A    + E + + I L ++     R   ++
Sbjct: 355 IPPLAEQERIVAILDKFDALTSSISEGLPREIRLRQKQYEYYRELLLS 402



 Score = 64.4 bits (155), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 21/167 (12%), Positives = 50/167 (29%), Gaps = 3/167 (1%)

Query: 222 IEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYE 281
           +EW  L      V+      T+ +  N         +++    +             +  
Sbjct: 15  VEWKTLGEVAEYVRGLTYSKTDESPDNIGYKVIRANNITLPGNLLNFNDIKFINLDTNVS 74

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM--AVKPHGIDSTYLAWLMRS 339
             + +   +I+        D     +    +       +M        I+S YL  ++ S
Sbjct: 75  DSKKLYKNDILISAASGSRDHVGKVAFIYSDLDYYFGGFMGVIRCKDEINSRYLFHILAS 134

Query: 340 YDLCKVF-YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
               K     + S    +L    +    + +PP+  Q +I  +++  
Sbjct: 135 DIFQKYLDEMLNSSTINNLNSAVMSGFQLPIPPLAVQIEIVRILDAF 181


>gi|302190881|ref|ZP_07267135.1| type I restriction-modification system specificity protein
           [Lactobacillus iners AB-1]
          Length = 389

 Score = 92.2 bits (227), Expect = 1e-16,   Method: Composition-based stats.
 Identities = 43/402 (10%), Positives = 118/402 (29%), Gaps = 30/402 (7%)

Query: 29  PIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKD--GNSRQSDTSTVSI 80
            +     +  G T ++        +I ++ ++D  +        +        D S+  +
Sbjct: 4   KLSEIMDIIGGGTPKTSNPEYWNGNIPWLSVKDFNNDYRYVYETEKAITQAGLDNSSTKM 63

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
             +   +    G     A+I  F    +     L+ K  L +    + L       ++  
Sbjct: 64  LKRNDSIISARGTVGEMAMIP-FPMAFNQSCYGLRAKKGLVDAEYLYYLIKHNVVVLKKN 122

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
             G+           +I + +P L EQ ++   +     +I+          +  +   +
Sbjct: 123 THGSVFDTITHDTFDDIEVELPSLKEQKVVASILRNLDDKIEVNNEINKNLEQQARSLFK 182

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
           A          +P      S  +W              ++ T  N     L    I   +
Sbjct: 183 AWFVDF-----DPFANTMLS--DWKKGKLKDILKLKRQSIKTGENTTLPYLPIDVIPMRT 235

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
                      +     E+  +    D  +I+   + +   +  L     + R    +  
Sbjct: 236 -------FALTDFKPNAEAQSSLITFDKDDIIIGAMRVYFHRVVLAPCDGITRTTCFT-- 286

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ-SLKFEDVKRLPVLVPPIKEQFDIT 379
           +A   +   S  L    +   +              ++    +  + +++P  +      
Sbjct: 287 LAPYNNEYLSFALLCCDQESSIDYAQSTSKGSTMPYAIWEGGLGDMEIIIPTPEIAKKFN 346

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            ++     +I     +  +    L+E R++ +   ++ ++D+
Sbjct: 347 EIVLPMLRQIQNSYFENNR----LREIRNALLPRLMSDEVDV 384



 Score = 47.5 bits (111), Expect = 0.004,   Method: Composition-based stats.
 Identities = 36/192 (18%), Positives = 72/192 (37%), Gaps = 7/192 (3%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKD--IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
             WK   +K   KL   ++ ++G++  + Y+ ++ +   T  +   D        S++  
Sbjct: 197 SDWKKGKLKDILKLKR-QSIKTGENTTLPYLPIDVIPMRT--FALTDFKPNAEAQSSLIT 253

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
           F K  I+ G +  Y  + ++A  DGI  T    L P     E L   LL  D    I+  
Sbjct: 254 FDKDDIIIGAMRVYFHRVVLAPCDGITRTTCFTLAP--YNNEYLSFALLCCDQESSIDYA 311

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
              +  S   +         +  +     I +K     + +   I         L+E + 
Sbjct: 312 QSTSKGSTMPYAIWEGGLGDMEIIIPTPEIAKKFNEIVLPMLRQIQNSYFENNRLREIRN 371

Query: 201 ALVSYIVTKGLN 212
           AL+  +++  ++
Sbjct: 372 ALLPRLMSDEVD 383


>gi|283796927|ref|ZP_06346080.1| type I restriction-modification enzyme, S subunit, EcoA family
           [Clostridium sp. M62/1]
 gi|291075337|gb|EFE12701.1| type I restriction-modification enzyme, S subunit, EcoA family
           [Clostridium sp. M62/1]
          Length = 374

 Score = 92.2 bits (227), Expect = 1e-16,   Method: Composition-based stats.
 Identities = 55/396 (13%), Positives = 115/396 (29%), Gaps = 34/396 (8%)

Query: 30  IKRFTKLNTGRTSE-SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
           +      NT + ++    ++I    +       +Y  K+  +   +T+   I  +   +Y
Sbjct: 2   LSSVFAKNTQKNTDGRITNVICNSAKQGLIPQREYFDKNI-ANSDNTNGYYIIEENDFVY 60

Query: 89  GKL----GPYLRKAII-ADFDGICSTQFLVLQPKDVLPELLQGWLL----SIDVTQRIEA 139
                   PY   +       GI S  +L  + K  +      W                
Sbjct: 61  NPRKSADAPYGPISSYKYTEAGIVSPLYLCFRAKKEINPAFFEWYFRSSAWHRYVYMSGD 120

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
                            +P+ IP   EQ  I   +     RI+          +  +   
Sbjct: 121 SGARHDRVSIKDDTFFAMPINIPSAHEQAQIAIFLERIEQRIEMQRALVDSLKKYKRGVV 180

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
            A+ S+          ++K S     G     W        V  L+ +   L ES   + 
Sbjct: 181 AAIFSH----------QLKFSDAT--GNPYPEWTSCTLQDAVDFLDGQRKPL-ESADRAK 227

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
             G       +  +    +      ++  GE     ++       +      +  +   A
Sbjct: 228 RQGQYPYYGASGIIDYIDDFIFDEPLLLLGEDGANILNRSTPLCFIA---EGKYWVNNHA 284

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
           ++     G +  +L  L+ S D  +         +  L  +  +R+ + +P  +EQ  I 
Sbjct: 285 HVMRPKAGQNIKFLCELLESLDYTRY---NTGTAQPKLNQDKCRRIGLALPVYEEQCHIA 341

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           + ++    R D    K +  +  L   R   +    
Sbjct: 342 DFLSAFDQRTD----KAQSILDYLLSNRDGLLQQLF 373


>gi|21228841|ref|NP_634763.1| type I restriction-modification system specificity subunit
           [Methanosarcina mazei Go1]
 gi|20907364|gb|AAM32435.1| type I restriction-modification system specificity subunit
           [Methanosarcina mazei Go1]
          Length = 406

 Score = 92.2 bits (227), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 58/414 (14%), Positives = 140/414 (33%), Gaps = 43/414 (10%)

Query: 28  VPIKRFTKLNTG------------RTSESGKDIIYIGLEDVESGTGKYLPK-DGNSRQSD 74
             +        G            ++    + I  +  +++               +  +
Sbjct: 6   RTLGDICDEVKGIVQTGPFGSQLHKSDYKDEGIPVVMPKNIIEDKISIEEIARIGKKDVE 65

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFD--GICSTQFLVLQPKDV---LPELLQGWLL 129
             +     KG I+YG+ G   R+A+I       +C T  + +  K+     P  L  +L 
Sbjct: 66  RLSQHKLQKGDIVYGRRGDIGRRALIKGEQAGWLCGTGCIKISLKNASILEPSFLYYYLG 125

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
             ++   I     GATM + +   I +IP+  P L  Q  I   + +    I+       
Sbjct: 126 QPEIVSWIYNQAIGATMPNLNTSIIRSIPITYPSLTTQKKIAYILSSYDDLIENNTRRIE 185

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNT 249
                  +  + +      K   P  +        +G +P  W+V    + + +  +   
Sbjct: 186 ILE----QMAKLVYEEWFVKFRFPGHENVKMVPSDLGEIPKRWKV-REVSEILKRFKAGK 240

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
           K  + N+L      +I + E   +G   +  +    +    ++F          + +   
Sbjct: 241 KYTQDNVLEEGLIPVIDQSEKEILGFHNDIADHSASLKNPIMIFGDH-------TCKIKI 293

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
           ++E   +    +  +       ++ +L+++    K +            + +++   V++
Sbjct: 294 LIEPFSVGPNVIPFRSEDYPEIFVFFLIKNLVQTKEYKRH---------WNELQAKRVVL 344

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
           P +    D  NV+N    +    +  +E     L++ R   +   ++G+ID+  
Sbjct: 345 PDVPLAMDFVNVVNPLFKQ----ITLLEHKNQNLRKTRDLLLPKLISGEIDVSD 394


>gi|309797884|ref|ZP_07692265.1| type I restriction modification DNA specificity domain protein
           [Escherichia coli MS 145-7]
 gi|308118492|gb|EFO55754.1| type I restriction modification DNA specificity domain protein
           [Escherichia coli MS 145-7]
          Length = 415

 Score = 92.2 bits (227), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 64/407 (15%), Positives = 131/407 (32%), Gaps = 53/407 (13%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDII-----YIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           + V + +      G++    K         I   ++ +  G  + K  +      +   +
Sbjct: 17  EWVALNKLATFLKGKSLPKEKITPDGNRYCIHYGELFTHYGPIIDKVCSKTNQAINESIL 76

Query: 81  FAKGQILYGKLGPYLR----KAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
             K  +L        R     + I +   I     L+++   V           I+  ++
Sbjct: 77  SEKNDVLMPTSDVTPRGLATASCIQESGVILGGDILIIRCSGVD--GRYLSNFIINNKKK 134

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPP-------LAEQVLIREKIIAETVRIDTLITERI 189
           I  + +G+T+ H   K IG + +PIP        LA Q  I   +   T     L  E  
Sbjct: 135 ILQMVKGSTVYHLYAKDIGKLLIPIPCPNNPEKSLAIQSEIVRILDKFTALTAELTAELS 194

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEW--VGLVPDHWEVKPFFALVTELNRK 247
              +     +  L+S             K+  +EW  +G + +    K           K
Sbjct: 195 MRKKQYNYYRDQLLS------------FKEGEVEWKALGEIGEVRMCKRIL--------K 234

Query: 248 NTKLIESNILSLSYGNIIQKLETRNM-GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
           +    E  I     G   ++ ++     L  E  E Y     GE++              
Sbjct: 235 SQTSSEGEIPFYKIGTFGKEPDSYISRKLFNEFKEKYSYPKVGEVLISASGTIGRTVIF- 293

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLP 366
                       + +    +        +L   Y + K   + G G  + L  +++++L 
Sbjct: 294 ---DGRESYFQDSNIVWIENNEKIVLNKYLFYFYKIAKWGISEG-GTIKRLYNDNLRKLM 349

Query: 367 VLVP-------PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
           + VP        + EQ  I  +++   A  + + E + + I L +++
Sbjct: 350 IPVPFPDSPERSLVEQQKIVKLLDKFDALTNSITEGLPREIELRQKQ 396



 Score = 62.5 bits (150), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 19/172 (11%), Positives = 54/172 (31%), Gaps = 8/172 (4%)

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
                   I           +  +      ++     + +  +++    D+     +  S
Sbjct: 39  TPDGNRYCIHYGELFTHYGPIIDKVCSKTNQAINESILSEKNDVLMPTSDVTPRGLATAS 98

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
                  I+    + ++  G+D  YL+  + +    K+   +       L  +D+ +L +
Sbjct: 99  CIQESGVILGGDILIIRCSGVDGRYLSNFIINNK-KKILQMVKGSTVYHLYAKDIGKLLI 157

Query: 368 LVP-------PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
            +P        +  Q +I  +++  TA    L  ++          R   ++
Sbjct: 158 PIPCPNNPEKSLAIQSEIVRILDKFTALTAELTAELSMRKKQYNYYRDQLLS 209


>gi|163801598|ref|ZP_02195496.1| type I restriction-modification system, endonuclease S subunit
           [Vibrio sp. AND4]
 gi|159174515|gb|EDP59317.1| type I restriction-modification system, endonuclease S subunit
           [Vibrio sp. AND4]
          Length = 382

 Score = 92.2 bits (227), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 71/401 (17%), Positives = 137/401 (34%), Gaps = 39/401 (9%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDI-IYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           + W++V      K  + R   +  D+ IY+GLE ++  +   + K             + 
Sbjct: 8   ESWQMVKFGDIAKQISKRVEPNETDLKIYVGLEHLDPDS--LIIKRHGVPSDVKGQKLLV 65

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLV--LQPKDVLPELLQGWLLSIDVTQRIEA 139
            KGQI++GK   Y RK  +AD D ICS   +V    P  V+PE L  ++ S     R  A
Sbjct: 66  NKGQIIFGKRRAYQRKIAVADCDCICSAHAMVLEANPDKVIPEFLPFFMQSDVFMNRAVA 125

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
           I EG+      WK + +    IP + +Q     KII     +  +  +     E      
Sbjct: 126 ISEGSLSPTIKWKVLASQNFKIPSVVQQ----RKIIEAGFLLQRIQEQITDLNESAINLS 181

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
            +++   +                      +  ++     +      K+    +  +  +
Sbjct: 182 NSIIQKSL-----------------NRDKVEVKKLNQLVDMQVGYAFKSKDFSDKGVALM 224

Query: 260 SYGN------IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
              N           +        + Y  Y + D   I+            +      + 
Sbjct: 225 RGANVGVSKPDWANGKKFLSNEMAKDYSEYLLNDKDIIIAMDRPFTGAGFKVSRLSKSDL 284

Query: 314 GI--ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVP 370
               +          GI   YL  L+ S  +    ++   G+    L  +++    V V 
Sbjct: 285 PCLLVQRVGRFHSYKGITQEYLWLLLNSKFVKGYLFSQQKGMDIPHLSRKEILECEVPVL 344

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
              EQ +++N I    ++ D L    E+ I  +++ + + +
Sbjct: 345 SEDEQNELSNTIGCLLSKCDAL---SEKRI-YVRQIKKTLL 381


>gi|160939418|ref|ZP_02086768.1| hypothetical protein CLOBOL_04311 [Clostridium bolteae ATCC
           BAA-613]
 gi|158437628|gb|EDP15390.1| hypothetical protein CLOBOL_04311 [Clostridium bolteae ATCC
           BAA-613]
          Length = 366

 Score = 92.2 bits (227), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 54/382 (14%), Positives = 119/382 (31%), Gaps = 31/382 (8%)

Query: 46  KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKL----GPYLRKAII- 100
            ++I    +       +Y  KD  +   +T+   I      +Y        PY   +   
Sbjct: 3   SNVICNSAKQGLIPQREYFDKDI-ANSDNTNGYYIIESNDFVYNPRKSADAPYGPISSYQ 61

Query: 101 ADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG----ATMSHADWKGIGN 156
               GI S  +L  + K  +  L   W        R   +                    
Sbjct: 62  YPEAGIVSPLYLCFRAKREINPLYFEWYFRSSTWHRYIYMSGDSGARHDRVSIKDDVFFA 121

Query: 157 IPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVK 216
           +P+ +P   EQ  I   + A   RI+T  T      +  +   ++L+S     GL  +V+
Sbjct: 122 MPINVPSAKEQERISLFLDAIERRIETQRTLVETLKKYKRGVVRSLLS-PEHCGL-KEVQ 179

Query: 217 MKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK 276
            +   I  +G       +                + E+    + YG +          + 
Sbjct: 180 WQCDTIGNLGFFIKGAPLSK------------ADISETGTPFILYGELYTTYHEVITSVV 227

Query: 277 PESY---ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL 333
            ++    E       G+++       +++ S  S  ++   I+       +   ID   +
Sbjct: 228 RKTEAVVEQVHHSMVGDVLIPTSGETSEEISTASCVMLPGVILAGDLNIFRSTKIDGRIM 287

Query: 334 AWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
           ++++       +           ++  ++ ++ +  P  + Q  I  ++      I   +
Sbjct: 288 SYILNHIVNGNIARVAQGKSVVHVQASEISKIKISYPDPETQIRIIKILEA----ISNRI 343

Query: 394 EKIEQSIVLLKERRSSFIAAAV 415
           E  E  +  L + RSS +    
Sbjct: 344 ESCENELNHLTKMRSSLLQQLF 365


>gi|71275993|ref|ZP_00652275.1| Restriction modification system DNA specificity domain [Xylella
           fastidiosa Dixon]
 gi|71899061|ref|ZP_00681226.1| Restriction modification system DNA specificity domain [Xylella
           fastidiosa Ann-1]
 gi|170731328|ref|YP_001776761.1| hypothetical protein Xfasm12_2285 [Xylella fastidiosa M12]
 gi|71163226|gb|EAO12946.1| Restriction modification system DNA specificity domain [Xylella
           fastidiosa Dixon]
 gi|71731174|gb|EAO33240.1| Restriction modification system DNA specificity domain [Xylella
           fastidiosa Ann-1]
 gi|167966121|gb|ACA13131.1| hypothetical protein Xfasm12_2285 [Xylella fastidiosa M12]
          Length = 425

 Score = 92.2 bits (227), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 62/435 (14%), Positives = 135/435 (31%), Gaps = 54/435 (12%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
            +      N  R  E G    +I + D+                   S    F  G  L+
Sbjct: 2   KLSDLIDFNPKRPLEKGVMNPFIEMADLPEVERDVSGIGSRIFNGGGSK---FKNGDTLF 58

Query: 89  GKLGPYLRKAIIADFDGI-------CSTQFLVLQPKDVLPELLQGWL-LSIDVTQRIEAI 140
            ++ P L     A   G+        ST+F+V+  KD   E    ++    +     +  
Sbjct: 59  SRITPCLENGKTAKVGGLPNNAVGHGSTEFIVMAAKDSSDEDFVYYVARHPEFRAYAQGR 118

Query: 141 CEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
            EG +      W+ I +  +P     E+  I   + +    I            + +   
Sbjct: 119 MEGTSGRQRVSWQAIADYEIPDFSSLERNRIGSVLSSIDNLIANNRRVNQVLEAMARALF 178

Query: 200 QALVSYI--VTKGLNPDVKMKDSG----------------IEWVGLVPDHWEVKPFFALV 241
           +A       V   L    +  +S                    +G +P+ W+++   ++ 
Sbjct: 179 KAWCVDFEPVRAKLEGRWQRGESLPGLPAHLYDLFPDRLIESELGEIPEGWQMRSLDSIA 238

Query: 242 TELNR----KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID 297
             LN     K     E+  L +     ++   T       +  +   IV  G+++F +  
Sbjct: 239 NYLNGLALQKFPPESENEFLPVIKIAQLRTGNTSGADKASKQIKPEYIVVDGDVLFSWSG 298

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG---LR 354
                          RG +      V    +      +   +    + F A+ +G     
Sbjct: 299 SLE-----VEVWNGGRGALNQHLFKVTSEEV--PKWFYFFATRHHLQNFRAIATGKATTM 351

Query: 355 QSLKFEDV--KRLPVLVPPIKEQFDITNVINVETARI-DVLVEKIEQSIVLLKERRSSFI 411
             ++ + +   R+ V +P   E        +   A + + ++   +QS   L + R + +
Sbjct: 352 GHIQRKHLTDARIAVALPESME------KFDAVIAPLFNQMISNAQQSRS-LAQLRDTLL 404

Query: 412 AAAVTGQIDLRGESQ 426
              ++G++ +    +
Sbjct: 405 PKLISGELRVPDAER 419



 Score = 61.7 bits (148), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 23/193 (11%), Positives = 54/193 (27%), Gaps = 11/193 (5%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTG----RTSESGKD--IIYIGLEDVESGTGKYLPKDGNSR 71
           +G IP+ W++  +        G    +     ++  +  I +  + +G         +  
Sbjct: 222 LGEIPEGWQMRSLDSIANYLNGLALQKFPPESENEFLPVIKIAQLRTGN----TSGADKA 277

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
                   I   G +L+   G    +       G  +     +  ++V            
Sbjct: 278 SKQIKPEYIVVDGDVLFSWSGSLEVEV-WNGGRGALNQHLFKVTSEEVPKWFYFFATRHH 336

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
               R  A  +  TM H   K + +  + +            I     ++ +   +    
Sbjct: 337 LQNFRAIATGKATTMGHIQRKHLTDARIAVALPESMEKFDAVIAPLFNQMISNAQQSRSL 396

Query: 192 IELLKEKKQALVS 204
            +L       L+S
Sbjct: 397 AQLRDTLLPKLIS 409


>gi|322388273|ref|ZP_08061877.1| type I restriction-modification system specificty subunit
           [Streptococcus infantis ATCC 700779]
 gi|321140945|gb|EFX36446.1| type I restriction-modification system specificty subunit
           [Streptococcus infantis ATCC 700779]
          Length = 414

 Score = 92.2 bits (227), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 46/380 (12%), Positives = 127/380 (33%), Gaps = 31/380 (8%)

Query: 50  YIGLEDVESGTGKYLPK-----DGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIA--- 101
           Y+ + D++  +  +L       D N  + +     +     +L+ + G  + K  +    
Sbjct: 47  YLRITDIDDSSRLFLTDKLSSPDVNFTEEEYENYKL-RINDLLFARTGASVGKTYLYRES 105

Query: 102 -DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMP 160
                                  +    L+    Q IE   + +     + K  G+  + 
Sbjct: 106 DGEVYYAGFLIRARLHDSYDGNFIFQQTLTDKYKQFIEITSQRSGQPGVNGKEYGDWKIG 165

Query: 161 IPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDS 220
           +    EQ  I          + +     + +  L       ++S +  K      +++  
Sbjct: 166 MTSYPEQSAIGSLFRTLDDLLASYKNNLVNYQSLKV----TMLSKMFPKVRQTVPEIRLD 221

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
           G E      D W+      +   +   + ++    +   + G  + +++  +  +  +  
Sbjct: 222 GFE------DEWKKAKLKDVAHRVQGNDGRMDLPTLTISASGGWMNQIDRFSANIAGKEQ 275

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLR-SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
           + Y ++  GE+ +   + +  K  +    +  E  ++   Y + + + +       +M S
Sbjct: 276 KNYTLLKKGELSYNHGNSKLAKYGVVFELKEYEEALVPKVYHSFRVNQLADAKFIEIMFS 335

Query: 340 YDL--CKVFYAMGSGLRQ----SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
             +   ++   + SG R     ++ F+D   + +++P   EQ  I        + +D L+
Sbjct: 336 TKIPDRELGKLVSSGARMDGLLNISFDDFMNIAIIIPTFAEQQAIGIY----FSNLDNLI 391

Query: 394 EKIEQSIVLLKERRSSFIAA 413
              +  I  L+  +   +  
Sbjct: 392 VAHQDKIFQLETLKKKLLQD 411


>gi|327386274|gb|AEA57748.1| Restriction endonuclease S subunit [Lactobacillus casei BD-II]
          Length = 431

 Score = 92.2 bits (227), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 75/402 (18%), Positives = 131/402 (32%), Gaps = 26/402 (6%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+    K    +     +     I  +  ED+ S  G+          S       F   
Sbjct: 44  WEKRKFKDL--VVRVNKTSDDSTIPSVEFEDIISKQGRLNKDVRLKINSKQGIY--FEPQ 99

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            +L+GKL PYL+  +   F G     F VL+    +       L+     Q +  I  G 
Sbjct: 100 DVLFGKLRPYLQNWLFPSFYGRAVGDFWVLRANSSVLSEYLFVLIQSPRFQIVANISSGT 159

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
            M  +DW  + N   PIP  +EQ     KI      +D LI      +  LK+ K   + 
Sbjct: 160 KMPRSDWNTVSNTSFPIPVQSEQ----RKIWQLFNVLDNLIAATQDKLSFLKKMKMFFLQ 215

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
            I     +   +++  G      V  H+++     +  E   K   L +           
Sbjct: 216 QIFPTKNHDVPQIRFDG---FTDVWSHYKLGSLMRIDKEQEVKKELLTDIQKGFYVLAMR 272

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRF----------IDLQNDKRSLRSAQVMERG 314
              ++      KP        V   + +              +L    R L +A   +  
Sbjct: 273 TFSMDGYIDHSKPYWLNHLDNVSDDKFLLPREFAILDADMDANLPKIGRVLLNASSEKYL 332

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIK 373
           +           G D  ++  LMR   + +      +G   + L  ++V +  +LVP   
Sbjct: 333 LAAHVRKIQVKSGNDPIFIYALMRGNSVHERLKLEANGSISKRLLDKNVYKQSILVPNRS 392

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           EQ  I          ++  +   +Q I +LK+ + S +    
Sbjct: 393 EQSRIGR----LFFLLETTITLHQQKIKMLKQVKKSCLQNLF 430



 Score = 58.3 bits (139), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 34/231 (14%), Positives = 68/231 (29%), Gaps = 21/231 (9%)

Query: 177 ETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKP 236
               +D LI      I+ L++ K+AL+  +  +              W          K 
Sbjct: 1   MLSLLDNLIAATQDKIDALEQAKKALLQRLFDQ-------------SWRFKGYSDPWEKR 47

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFI 296
            F  +     K +       +        Q    +++ LK  S +     +P +++F  +
Sbjct: 48  KFKDLVVRVNKTSDDSTIPSVEFEDIISKQGRLNKDVRLKINS-KQGIYFEPQDVLFGKL 106

Query: 297 DLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS 356
                     S        +   ++      + S YL  L++S     V           
Sbjct: 107 RPYLQNWLFPSFYGR---AVGDFWVLRANSSVLSEYLFVLIQSPRFQIVANISSGTKMPR 163

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
             +  V      +P   EQ  I          +D L+   +  +  LK+ +
Sbjct: 164 SDWNTVSNTSFPIPVQSEQRKI----WQLFNVLDNLIAATQDKLSFLKKMK 210



 Score = 37.1 bits (84), Expect = 4.9,   Method: Composition-based stats.
 Identities = 4/31 (12%), Positives = 13/31 (41%)

Query: 385 ETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
             + +D L+   +  I  L++ + + +    
Sbjct: 1   MLSLLDNLIAATQDKIDALEQAKKALLQRLF 31


>gi|89093019|ref|ZP_01165970.1| putative type I restriction enzyme, S subunit [Oceanospirillum sp.
           MED92]
 gi|89082669|gb|EAR61890.1| putative type I restriction enzyme, S subunit [Oceanospirillum sp.
           MED92]
          Length = 394

 Score = 91.8 bits (226), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 55/398 (13%), Positives = 119/398 (29%), Gaps = 32/398 (8%)

Query: 24  HWKVVPIKRFT-KLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            WK   +        +G+         +I  ED+ +  G Y    GN  +  TS  +   
Sbjct: 18  EWKKATLASLCSNFRSGK---------FIRSEDI-NKDGAYPVYGGNGLRGYTSEYN--H 65

Query: 83  KGQI-LYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
           +G   L G+ G        ++     +   + +Q  +    L   +      +  +    
Sbjct: 66  EGSYALIGRQGALCGNMNFSNGKAFFTEHAIAVQANEKNDTLFLYY---KLGSMNLGQYS 122

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
             +         +  +        EQ  I          I+    +  +   L     +A
Sbjct: 123 GQSAQPGLSVNKLSELETFTAGKVEQTAIGNYFHKLDTLINQHQQKHDKLSNLK----KA 178

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
           ++  +  K      +++  G           ++             +        + +  
Sbjct: 179 MLEKMFPKAGETVPEVRFDGFTGNWTTTSLSKIAHVIDPHPSHRAPDAVANGVPFIGIGD 238

Query: 262 GNIIQKLETRNMGLKPE----SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
            +    ++ +N+ + P      +     V+ G+  +  +        L S  V      +
Sbjct: 239 VDENGHVDFKNVRIVPYHIYGEHRQRYQVEVGDFAYGRVASIGKIIDLSS-NVDREYTYS 297

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVF-YAMGSGLRQSLKFEDVKRLPVLVPPI-KEQ 375
                VKP  + S YL   M +               R+SL  +D + L V  P   +EQ
Sbjct: 298 PTMAIVKPVTLYSPYLKGYMNTSVFKGRVDNKTTGSTRKSLGVQDFRELSVCFPEQQEEQ 357

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
             I +       ++ +L+ +  Q I  LK  + + +  
Sbjct: 358 IKIGDY----FLKLGLLINQHNQQITKLKNIKQACLDK 391



 Score = 58.3 bits (139), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 26/199 (13%), Positives = 55/199 (27%), Gaps = 17/199 (8%)

Query: 215 VKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMG 274
           + M+    E           K   A +    R    +   +I       +      R   
Sbjct: 1   MAMELKEPEIRFDGFSGEWKKATLASLCSNFRSGKFIRSEDINKDGAYPVYGGNGLRGYT 60

Query: 275 LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
            +     +Y ++     +   ++  N K                A         D+ +L 
Sbjct: 61  SEYNHEGSYALIGRQGALCGNMNFSNGKAFFTE----------HAIAVQANEKNDTLFLY 110

Query: 335 WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
           + + S +L +     G   +  L    +  L        EQ  I N       ++D L+ 
Sbjct: 111 YKLGSMNLGQY---SGQSAQPGLSVNKLSELETFTAGKVEQTAIGNY----FHKLDTLIN 163

Query: 395 KIEQSIVLLKERRSSFIAA 413
           + +Q    L   + + +  
Sbjct: 164 QHQQKHDKLSNLKKAMLEK 182


>gi|332983356|ref|YP_004464797.1| restriction modification system DNA specificity domain-containing
           protein [Mahella australiensis 50-1 BON]
 gi|332701034|gb|AEE97975.1| restriction modification system DNA specificity domain protein
           [Mahella australiensis 50-1 BON]
          Length = 358

 Score = 91.8 bits (226), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 50/406 (12%), Positives = 123/406 (30%), Gaps = 58/406 (14%)

Query: 22  PKHWKVVPIKRFTKLNTG-----RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           P  W+   +     + TG         +GK   ++    VE         +      D  
Sbjct: 5   PSDWEKDTVSNVVDITTGCRDTQDNKANGKYPFFVRSPIVERIDVADFDCEAVLTAGDGI 64

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
                              +             +  V+     +      +  S +  + 
Sbjct: 65  G----------------TGKVYHYVKGKFSAHQRVYVMSNFRNIDGKYFYYFFSKNFFKE 108

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           +E     +++       I ++    P ++EQ  I + +      ID         +  L 
Sbjct: 109 VEKYTAKSSVDSVRRAMIADMEFVHPSVSEQREIVKVLSDFDAYIDN--------LSELI 160

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
            KK+++    +   ++   +++    EW     D+ ++     ++   +++  +      
Sbjct: 161 NKKKSIRDGALVDLISGRTRLEGFDYEW-----DNGKIGDILKILHGKSQRGVESYNGKY 215

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
             L  G +I K                 + D   ++       +    + S        I
Sbjct: 216 PILGTGGVIGKATEY-------------LCDWECVLIGRKGTIDKPIYMNSP----FWTI 258

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
            + Y +         +  ++  +           S  R SL  + ++ +P+ +P  +EQ 
Sbjct: 259 DTLYYSKPVENQCVKFQYYIFCAIPWYDY---TESSGRPSLSRKVIENIPIRIPKYEEQQ 315

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
            I +V+      I+ L  + ++ I    + R   +   +TG++ L 
Sbjct: 316 AIASVLTAMDKEIENLEAERDKMI----QIREGAMDDLLTGRVRLT 357



 Score = 62.9 bits (151), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 22/121 (18%), Positives = 41/121 (33%), Gaps = 4/121 (3%)

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDV 362
             +      +       Y+      ID  Y  +        +V          S++   +
Sbjct: 67  GKVYHYVKGKFSAHQRVYVMSNFRNIDGKYFYYFFSKNFFKEVEKYTAKSSVDSVRRAMI 126

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
             +  + P + EQ +I  V++   A ID L E I +     K  R   +   ++G+  L 
Sbjct: 127 ADMEFVHPSVSEQREIVKVLSDFDAYIDNLSELINKK----KSIRDGALVDLISGRTRLE 182

Query: 423 G 423
           G
Sbjct: 183 G 183


>gi|116871901|ref|YP_848682.1| type I restriction endonuclease S subunit [Listeria welshimeri
           serovar 6b str. SLCC5334]
 gi|116740779|emb|CAK19899.1| type I restriction endonuclease S subunit domain protein [Listeria
           welshimeri serovar 6b str. SLCC5334]
          Length = 392

 Score = 91.8 bits (226), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 48/397 (12%), Positives = 126/397 (31%), Gaps = 34/397 (8%)

Query: 25  WKVVPIKRFTKLNTGRTSESG----KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           W+   ++     + G          K I  +    + +     + +     +    +V +
Sbjct: 17  WEQRKLEELAAFSKGIGYTKNDLVEKGIPLVLYGRLYTKYETIITEVNTFTKMKDKSV-V 75

Query: 81  FAKGQILYGKLGPYLRKA----IIADFDGICSTQFLVLQPKDVLPELLQGWLLSI-DVTQ 135
               +++    G   +      +I     I      ++QPK  L  +     +S  +  +
Sbjct: 76  SKGNEVVVPSSGETAKDISRASVIGAEGFILGGDLNIIQPKRELNSIFLALTISNGEQQK 135

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            I    +G ++ H     +  + +  P   EQ  I +       ++D  I    R ++ L
Sbjct: 136 EIIKRAQGKSVVHLYNTDLKQVKLSYPIFNEQQKIGDF----FKQLDNTIALHQRKLDAL 191

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
           K  K+ L+  +         +++    +         E+   +  +      + ++  + 
Sbjct: 192 KLMKKGLLQQMFANNEEKAPRLRFINFDEEWEQRKLNEIANRYDNLRVPITASARISGTT 251

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
               + G                          GE +    D  N+ ++     V  +  
Sbjct: 252 PYYGANGIQDYVEGFT---------------HDGEFILVAEDGANNVKNYPVQHVNGKIW 296

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
           + +    ++    +     +LM +  + +    +  G R  L  + + +L V  P  +EQ
Sbjct: 297 VNNHAHVLQAKE-NKHDNKFLMNAIKIIRFEPFLVGGGRAKLNSDVMMKLIVKFPCYEEQ 355

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
             I   +     R++ ++   +  I  L   + +++ 
Sbjct: 356 KKIGTFL----QRLENVITLHKNKINKLSSLKKTYLQ 388



 Score = 70.6 bits (171), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 28/181 (15%), Positives = 57/181 (31%), Gaps = 8/181 (4%)

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY--ETYQIVDPGEIVFR 294
             A    +      L+E  I  + YG +  K ET    +   +   +   +    E+V  
Sbjct: 25  LAAFSKGIGYTKNDLVEKGIPLVLYGRLYTKYETIITEVNTFTKMKDKSVVSKGNEVVVP 84

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCK--VFYAMGSG 352
                    S  S    E  I+      ++P    ++    L  S    +  +       
Sbjct: 85  SSGETAKDISRASVIGAEGFILGGDLNIIQPKRELNSIFLALTISNGEQQKEIIKRAQGK 144

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
               L   D+K++ +  P   EQ  I +       ++D  +   ++ +  LK  +   + 
Sbjct: 145 SVVHLYNTDLKQVKLSYPIFNEQQKIGDF----FKQLDNTIALHQRKLDALKLMKKGLLQ 200

Query: 413 A 413
            
Sbjct: 201 Q 201


>gi|255324374|ref|ZP_05365492.1| type I site-specific deoxyribonuclease [Corynebacterium
           tuberculostearicum SK141]
 gi|255298561|gb|EET77860.1| type I site-specific deoxyribonuclease [Corynebacterium
           tuberculostearicum SK141]
          Length = 372

 Score = 91.8 bits (226), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 48/380 (12%), Positives = 108/380 (28%), Gaps = 38/380 (10%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           + V +     +  G +    K     G+  V +   + L        +D           
Sbjct: 17  EYVKLGDVATVKAGSSVSKQKIAESAGIYPVINSGREPLGFIAEFNSTDP---------- 66

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           I     G  +      +           ++    +      +    +  Q I  +C  A 
Sbjct: 67  IGITTRGAGVGFVSWTEGPHFKGNLNYNVKVNSDIVSDRFLFFTLKEHGQSIRDLCSFAG 126

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
           +   + K I  +  P+PP   Q  I E++ A    I++             + + AL   
Sbjct: 127 IPALNLKSIKTLAFPLPPREVQDAIVERLDALAALIES------------LDSEIALREK 174

Query: 206 IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII 265
                    +   +S            E      +      +      +    +   N++
Sbjct: 175 RFEYFREQLLTFDESD---------GVEYVKLGEVAGYSPLRVDSADLNADTFVGVDNLL 225

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
           +    + +     + +       G+++   I     K           G  +   +A+ P
Sbjct: 226 KDRGGKALSEHGPNTKRSTKYQVGDVLIGNIRPYLRKIW----HATNEGGCSGDVLAIHP 281

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
             +D+ +L W +   +          G          +      +P ++ Q DI + ++ 
Sbjct: 282 SKVDARFLYWTLFGDEFWHYNNNFSRGGKMPRGDKAAILAYQFPLPSLEVQQDIADKLDT 341

Query: 385 ETARIDVLVEKIEQSIVLLK 404
             A ID L  K E+ +   +
Sbjct: 342 MQALIDNL--KKERELRKTQ 359



 Score = 61.3 bits (147), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 37/184 (20%), Positives = 63/184 (34%), Gaps = 12/184 (6%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDII-----YIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           + V +        G +             ++G++++    G     +       ++   +
Sbjct: 193 EYVKLGEVA----GYSPLRVDSADLNADTFVGVDNLLKDRGGKALSEHGPNTKRSTKYQV 248

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
              G +L G + PYLRK   A  +G CS   L + P  V    L   L   +        
Sbjct: 249 ---GDVLIGNIRPYLRKIWHATNEGGCSGDVLAIHPSKVDARFLYWTLFGDEFWHYNNNF 305

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
             G  M   D   I     P+P L  Q  I +K+      ID L  ER       +  ++
Sbjct: 306 SRGGKMPRGDKAAILAYQFPLPSLEVQQDIADKLDTMQALIDNLKKERELRKTQFEYHRE 365

Query: 201 ALVS 204
            L++
Sbjct: 366 KLLT 369


>gi|150398839|ref|YP_001322606.1| restriction modification system DNA specificity subunit
           [Methanococcus vannielii SB]
 gi|150011542|gb|ABR53994.1| restriction modification system DNA specificity domain
           [Methanococcus vannielii SB]
          Length = 392

 Score = 91.8 bits (226), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 55/397 (13%), Positives = 129/397 (32%), Gaps = 34/397 (8%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           P+  +   +    K    ++      I  +G+  +             S   D       
Sbjct: 17  PEGVEFKELGEIWK-RAPKSKIGVGKIPLLGVGKI---------ICFTSGSKDYLVNDFL 66

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
             G+ ++   G        +         F      +++      + L  +     E + 
Sbjct: 67  VDGEYIFVNDGGVADFKYYSGKAYYTDHVFTFGIESELVNVKFVYYFLKDNQFMINEKMF 126

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
           +G+ + +   K    + +P+PPL  Q  I + +   T     L  E    +E  K++ + 
Sbjct: 127 QGSGLKNLQKKLFETLKIPLPPLPIQEEIVKILDNFT----ELEAELEAELEARKKQYEY 182

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
               ++T G +          + +G +              +         E   LS   
Sbjct: 183 YRDELLTFGDD-------VEFKELGEI-------CLNTNNIKWKENQNTNYEYIDLSSVS 228

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
            +  Q  ET+ +          QIV+ G+++F        + SL +++   +   T   +
Sbjct: 229 RDNNQISETKTINSDNAPSRAQQIVNEGDVIFGTTRPTLKRYSLINSEHHNQICSTGFCV 288

Query: 322 -AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDIT 379
               P  +   +L +++++            G    S+    VK+  +  P ++EQ  I 
Sbjct: 289 LRANPKKLLPKFLFFILKTTKFYDYVENNQEGAGYPSISNGKVKKFKIPFPSLQEQNRIV 348

Query: 380 NVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
            +++   A ++ +   +   + L K+     R+  + 
Sbjct: 349 AILDKFDALVNDISIGLPAELELRKKQYEYYRNKLLT 385


>gi|325982847|ref|YP_004295249.1| restriction modification system DNA specificity domain
           [Nitrosomonas sp. AL212]
 gi|325532366|gb|ADZ27087.1| restriction modification system DNA specificity domain
           [Nitrosomonas sp. AL212]
          Length = 399

 Score = 91.8 bits (226), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 55/424 (12%), Positives = 139/424 (32%), Gaps = 54/424 (12%)

Query: 23  KHWKVVPIKRFT-KLNTG--RTSESGKDIIYIGLEDVESGTGKYLPK------DGNSRQS 73
             W+   +     K   G   ++   ++   IG+  +      Y              ++
Sbjct: 2   SEWRKCKLSEVAVKFAMGPFGSNIKAENFTNIGVPVIRGTNLNYYRYVDGEFVYLTEEKA 61

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIA-----DFDGICSTQFLVLQPKDVLPELLQGWL 128
           +    S    G I+    G   +  +I       +    S   + + P+ +    L  + 
Sbjct: 62  NQLKSSNCFPGDIVVTHRGTLGQVGLIPFGKFDRYVISQSGMKVTVNPEFIDSNFLLYFF 121

Query: 129 LSIDVTQRIEAICEGATMSHADWK--GIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
            S      +        +         + ++ + +PPL EQ  I   + +   +ID L  
Sbjct: 122 KSNIGQNELLQHESQVGVPSISNPLTSLKSVSLNLPPLPEQKAIASILSSLDDKIDLLHR 181

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
           +                   + + L     ++++ I+         E +     + E   
Sbjct: 182 QNKTL-------------EAMAETLFRQWFVEEAEIQ--------SENQLILGELIESVS 220

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESY--ETYQIVDPGEIVFRFIDLQNDKRS 304
              KL    I+ L+  +I +     N  +  +S   +  + +   +I+F  I   N + +
Sbjct: 221 ITHKLQTDTIIFLNTSDIYKGDVLINSQVNVDSLPGQAKKSIQRNDILFSEIRPANGRWA 280

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY----DLCKVFYAMGSGLRQSLKFE 360
                  E  ++++  M ++  G  S    +   +     D  ++     SG    + F+
Sbjct: 281 YIHFDA-EDYVVSTKLMVLRSKGFLSQAFVYFFLTNSQTVDWLQLLAESRSGTFPQITFD 339

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ---SIVLLKERRSSFIAAAVTG 417
            ++ L + +P         ++++      +  ++KI      I  L+  R + +   ++G
Sbjct: 340 QLRDLKINIPSK-------SILSNSIEWCESALKKINSNSIQIRTLETLRDTLLPKLMSG 392

Query: 418 QIDL 421
           ++ +
Sbjct: 393 EVRV 396


>gi|168482748|ref|ZP_02707700.1| type I site-specific deoxyribonuclease chain S [Streptococcus
           pneumoniae CDC1873-00]
 gi|172043831|gb|EDT51877.1| type I site-specific deoxyribonuclease chain S [Streptococcus
           pneumoniae CDC1873-00]
          Length = 426

 Score = 91.8 bits (226), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 67/415 (16%), Positives = 140/415 (33%), Gaps = 64/415 (15%)

Query: 42  SESGKDIIYIGLEDVESGTGKYLPKDG---NSRQSDTSTVSIFAKGQILYGKLGPYLRKA 98
           ++  K   YI    ++        K+    +  Q+ +    + ++  +L+  + PYL+  
Sbjct: 13  NKPEKSFRYIDTSSIDRKKNIINYKNLQYLSPEQAPSRARKLVSQNSVLFSTVRPYLKNI 72

Query: 99  IIA---DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIG 155
            +        I ST F+VL        L   +LLS +   R+     G +    +     
Sbjct: 73  AVVRELKEYLIASTAFIVLDTLLNETYLKY-YLLSDNFINRVNNKSTGTSYPAINDYNFN 131

Query: 156 NIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK----QALVSYIVTKGL 211
            + + +PPL+EQ  I E I +   ++D       R  +L KE      ++++ Y +   L
Sbjct: 132 LLLIALPPLSEQQRIVEAIESALEKVDEYAESYNRLEQLDKEFPDKLKKSILQYAMQGKL 191

Query: 212 NPDVKMKDS---------------------------------------GIEWVGLVPDHW 232
                  +S                                         E    +P+ W
Sbjct: 192 VEQDPNDESVEVLLEKIRAEKQKLFEEGKIKKKDLDISIVSQGDDSSYYEEVPCEIPESW 251

Query: 233 EVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL-------KPESYETYQI 285
           E      + + + R  +    +  +         +    ++ L          SY+  ++
Sbjct: 252 EWVRLNDITSYIQRGKSPKYSNIPIYPVIAQKCNQWSGFSIDLARFIDPETVHSYQKERL 311

Query: 286 VDPGEIVFRFIDLQNDKR-SLRSAQVMERGIITSA----YMAVKPHGIDSTYLAWLMRSY 340
           +  G++++    L    R ++        G   +      + V    I+  ++   + S 
Sbjct: 312 LRDGDLMWNSTGLGTLGRLAIYHENKNPYGWAVADSHVTVIRVLSGVINCHFIYNFLSSP 371

Query: 341 DLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
            +  V     SG   ++ L  + +K   + +PP+ EQ  I + I    A ID L+
Sbjct: 372 IVQSVIEEKASGSTKQKELLTKTIKEYLIPLPPLPEQSRIVDKIEQFFAHIDALI 426



 Score = 72.9 bits (177), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 29/192 (15%), Positives = 66/192 (34%), Gaps = 7/192 (3%)

Query: 232 WEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEI 291
             +K  +    +   + +             NII     + +  +       ++V    +
Sbjct: 1   MRIKSIYWNFGQNKPEKSFRYIDTSSIDRKKNIINYKNLQYLSPEQAPSRARKLVSQNSV 60

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
           +F  +       ++     ++  +I S    V    ++ TYL + + S +         +
Sbjct: 61  LFSTVRPYLKNIAVVR--ELKEYLIASTAFIVLDTLLNETYLKYYLLSDNFINRVNNKST 118

Query: 352 GLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----R 406
           G    ++   +   L + +PP+ EQ  I   I     ++D   E   +   L KE     
Sbjct: 119 GTSYPAINDYNFNLLLIALPPLSEQQRIVEAIESALEKVDEYAESYNRLEQLDKEFPDKL 178

Query: 407 RSSFIAAAVTGQ 418
           + S +  A+ G+
Sbjct: 179 KKSILQYAMQGK 190



 Score = 50.9 bits (120), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 29/181 (16%), Positives = 50/181 (27%), Gaps = 15/181 (8%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT-----GKYLPKDGNSRQSD 74
            IP+ W+ V +   T       S    +I    +   +                      
Sbjct: 246 EIPESWEWVRLNDITSYIQRGKSPKYSNIPIYPVIAQKCNQWSGFSIDLARFIDPETVHS 305

Query: 75  TSTVSIFAKGQILYGKL--GPYLRKAIIADF-----DGICSTQFLVLQPKDVLPELLQGW 127
                +   G +++     G   R AI  +        +  +   V++    +      +
Sbjct: 306 YQKERLLRDGDLMWNSTGLGTLGRLAIYHENKNPYGWAVADSHVTVIRVLSGVINCHFIY 365

Query: 128 LLSIDVTQR---IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
                   +    E             K I    +P+PPL EQ  I +KI      ID L
Sbjct: 366 NFLSSPIVQSVIEEKASGSTKQKELLTKTIKEYLIPLPPLPEQSRIVDKIEQFFAHIDAL 425

Query: 185 I 185
           I
Sbjct: 426 I 426


>gi|251772360|gb|EES52928.1| restriction modification system DNA specificity domain
           [Leptospirillum ferrodiazotrophum]
          Length = 556

 Score = 91.8 bits (226), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 44/434 (10%), Positives = 117/434 (26%), Gaps = 36/434 (8%)

Query: 23  KHWKVVPIKRFTK-LNTGRT---SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           + W    +      ++ G T    ++     ++ + D+  G   +               
Sbjct: 122 EEWIECKLSEVCSSIDYGLTASAIDTPVGPHFLRITDIVGGAIDWKSVPYVKITESMFRK 181

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFD--GICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
                  I+  + G     ++  +     + ++  + L+ K         + L       
Sbjct: 182 FQLNSKDIVIARTGASTGSSMYINNPPPAVFASYLVRLKIKTEFDSRFIAYYLKSSKFWS 241

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
                 G   +  +         P+         +  I      +D  I    R  E L+
Sbjct: 242 FIHGVLGDKSAQPNASARTLTQAPLKAPKN-KNSQRTIAHILGTLDDKIELNRRMNETLE 300

Query: 197 EKKQALVSYIVTKGLNPDVKMKD-----------------SGIEWVGLVPDHWEVKPFFA 239
              QA+         +P     +                      +G +P  W+V     
Sbjct: 301 AMAQAIFKSWFVD-FDPVWAKMEGRPMGLPKEIEDLFPDSFEDSELGEIPRGWKVATIGE 359

Query: 240 LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL-------KPESYETYQIVDPGEIV 292
           +V           ES              +  ++         +  +      +  G++ 
Sbjct: 360 IVNIAGGSTPSTKESTYWENGRHYWATPKDLSSLSTPVLLGTERKITDAGLAQIGSGKLP 419

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
              + L +       A       I   ++A+ P    S        +    ++       
Sbjct: 420 AGTVLLSSRAPIGYLAISEVPVSINQGFIAMLPREEVSNLFILYWAACAHEEIVSRANGS 479

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
               +   + +++ V+ P       +  +       + + + + E+  ++L   RSS + 
Sbjct: 480 TFLEISKANFRQILVIRPTKS----VMELFESNVRPLYLQIVRNERETMILATLRSSLLP 535

Query: 413 AAVTGQIDLRGESQ 426
             ++G+I ++   +
Sbjct: 536 KLLSGEIRVKDAEK 549



 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 31/207 (14%), Positives = 64/207 (30%), Gaps = 15/207 (7%)

Query: 8   PQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYI-------GLEDVESGT 60
             ++DS    +G IP+ WKV  I     +  G T  + +   +          +D+ S +
Sbjct: 338 DSFEDSE---LGEIPRGWKVATIGEIVNIAGGSTPSTKESTYWENGRHYWATPKDLSSLS 394

Query: 61  GKY---LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPK 117
                   +                 G +L     P      I++     +  F+ + P+
Sbjct: 395 TPVLLGTERKITDAGLAQIGSGKLPAGTVLLSSRAPI-GYLAISEVPVSINQGFIAMLPR 453

Query: 118 DVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
           + +  L   +  +    + I +   G+T           I +  P  +   L    +   
Sbjct: 454 EEVSNLFILYWAACA-HEEIVSRANGSTFLEISKANFRQILVIRPTKSVMELFESNVRPL 512

Query: 178 TVRIDTLITERIRFIELLKEKKQALVS 204
            ++I     E +    L       L+S
Sbjct: 513 YLQIVRNERETMILATLRSSLLPKLLS 539


>gi|238926417|ref|ZP_04658177.1| possible type I site-specific deoxyribonuclease [Selenomonas
           flueggei ATCC 43531]
 gi|238885821|gb|EEQ49459.1| possible type I site-specific deoxyribonuclease [Selenomonas
           flueggei ATCC 43531]
          Length = 391

 Score = 91.8 bits (226), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 47/405 (11%), Positives = 119/405 (29%), Gaps = 52/405 (12%)

Query: 22  PKHWKVVPIKRFT-KLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSDT- 75
           P   +   +      +  G   +  +     I  +   ++ +  G +     +       
Sbjct: 13  PDGVEYKKLGEIATNVFRGAGIKRDELTAMGIPCVRYGEIYTTYGIWFDSCVSHTDETFL 72

Query: 76  STVSIFAKGQILYGKLG----PYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
           +    F  G IL+   G       +       D   +   +V+   +  P+ L   L + 
Sbjct: 73  TNPKYFGHGDILFAITGESVEEIAKSTAYIGHDKCVAGGDIVVLQHEQNPKYLSYVLSTD 132

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
              ++       + + H+    I  I +P+PPL  Q  I + +   T     L  E    
Sbjct: 133 MAQRQKSKGRVKSKVVHSSVPAIKEIVIPVPPLPIQNEIVKMLDNFTELTAELTAELTLR 192

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
            +     + +L++              D+ +EW  L      +      +  ++ +    
Sbjct: 193 KKQYSFYRDSLLN----------FSRDDAEVEWKTLGETTKSISSGKNKIRVVDGEYPVY 242

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
             + I+                      Y T  + +  +I+   +               
Sbjct: 243 GSTGII---------------------GYCTNFVYEHAQILVARVGS----VGYVQIADG 277

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
              +  +  +      I+  Y+ + +       +        +  +    +K+L + +PP
Sbjct: 278 RYDVSDNTLIVDVLSTINMKYIFYYL---GYMNLSRLAHGAGQPLITAGQLKKLIIPIPP 334

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           ++ Q  I ++++        L + +   I   K+     R   + 
Sbjct: 335 LETQAKIVSILDRFDELCHDLTQGLPAEIAARKKQYEYYREKLLT 379



 Score = 69.8 bits (169), Expect = 7e-10,   Method: Composition-based stats.
 Identities = 32/194 (16%), Positives = 66/194 (34%), Gaps = 9/194 (4%)

Query: 228 VPDHWEVKPFFALVTELNR----KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY 283
            PD  E K    + T + R    K  +L    I  + YG I              + ET+
Sbjct: 12  CPDGVEYKKLGEIATNVFRGAGIKRDELTAMGIPCVRYGEIYTTYGIWFDSCVSHTDETF 71

Query: 284 ----QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
               +    G+I+F       ++ +  +A +     +    + V  H  +  YL++++ +
Sbjct: 72  LTNPKYFGHGDILFAITGESVEEIAKSTAYIGHDKCVAGGDIVVLQHEQNPKYLSYVLST 131

Query: 340 YDLCKVFYA-MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
               +                  +K + + VPP+  Q +I  +++  T     L  ++  
Sbjct: 132 DMAQRQKSKGRVKSKVVHSSVPAIKEIVIPVPPLPIQNEIVKMLDNFTELTAELTAELTL 191

Query: 399 SIVLLKERRSSFIA 412
                   R S + 
Sbjct: 192 RKKQYSFYRDSLLN 205


>gi|330000675|ref|ZP_08303788.1| hypothetical protein HMPREF9538_01448 [Klebsiella sp. MS 92-3]
 gi|328537911|gb|EGF64097.1| hypothetical protein HMPREF9538_01448 [Klebsiella sp. MS 92-3]
          Length = 490

 Score = 91.8 bits (226), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 56/382 (14%), Positives = 131/382 (34%), Gaps = 37/382 (9%)

Query: 53  LEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYG-KLGPYLRKAIIADFDGICSTQF 111
           +++          K      SDTS   I  K +++ G  +   +         GI S  +
Sbjct: 1   MKNGLVDQSDKFKKRIA--SSDTSKYRIVYKNELVVGFPIDEGVLGFQTKYPVGIVSPAY 58

Query: 112 LVLQPKD---VLPELLQGWLLSIDVTQRIEAICEGA--TMSHADWKGIGNIPMPIPPLAE 166
            + + KD        L+ +L S +  +   +  +G              ++ +P PP+ +
Sbjct: 59  GIWKLKDESVCHIPYLERYLRSSEARRLYASRMQGVVARRRSLTKSDFLSLEVPFPPIND 118

Query: 167 QVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVG 226
           Q  I   +     +++ LI +R + ++ L +  +++    V    +P    K   +  +G
Sbjct: 119 QARIANLL----AKVEGLIEQRKQLLQYLDDLLKSV---FVDMFSDPVKNAKGWELTTIG 171

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI- 285
            +            V      +          +   NI          LK    +   + 
Sbjct: 172 EL-----------AVDVRYGTSVSAQGGKYKYIRMNNITPDGYWDFENLKYIDVDNKDLD 220

Query: 286 ---VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW-LMRSYD 341
              +  G++VF   + +            E  II    + V+     + +  W  + S  
Sbjct: 221 KYSLQKGDLVFNRTNSKELVGKTAVYDRDETVIIAGYLIRVRFDQQTNPWFVWGHLNSKF 280

Query: 342 LCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
                + +   +    ++  ++++ +P+L PP++ Q     ++    A    +  + +QS
Sbjct: 281 GKAKLFNLCRNIIGMANINAQELRAIPILKPPLELQNKFATIVEKAHA----IKFRYQQS 336

Query: 400 IVLLKERRSSFIAAAVTGQIDL 421
           +  L+         A  G+++L
Sbjct: 337 LADLETLYDVVSQKAFKGELEL 358



 Score = 49.8 bits (117), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 26/218 (11%), Positives = 55/218 (25%), Gaps = 11/218 (5%)

Query: 23  KHWKVVPIKRFT-KLNTGRTSE-SGKDIIYIGLEDVE-SGTGKYLPKDGNSRQSDTSTVS 79
           K W++  I      +  G +    G    YI + ++   G   +         +      
Sbjct: 163 KGWELTTIGELAVDVRYGTSVSAQGGKYKYIRMNNITPDGYWDFENLKYIDVDNKDLDKY 222

Query: 80  IFAKGQILYGKLGP----YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV-- 133
              KG +++ +               D   I +   + ++             L+     
Sbjct: 223 SLQKGDLVFNRTNSKELVGKTAVYDRDETVIIAGYLIRVRFDQQTNPWFVWGHLNSKFGK 282

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            +          M++ + + +  IP+  PPL  Q      +                   
Sbjct: 283 AKLFNLCRNIIGMANINAQELRAIPILKPPLELQNKFATIVEKAHAIKFRYQQSLADLET 342

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDH 231
           L     Q      +     P        +   G  P+H
Sbjct: 343 LYDVVSQKAFKGELELSRVPIPTQIFFPVS--GEEPEH 378


>gi|299142937|ref|ZP_07036063.1| type I restriction enzyme specificity protein [Prevotella oris
           C735]
 gi|298575553|gb|EFI47433.1| type I restriction enzyme specificity protein [Prevotella oris
           C735]
          Length = 402

 Score = 91.8 bits (226), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 64/402 (15%), Positives = 128/402 (31%), Gaps = 45/402 (11%)

Query: 24  HWKVVPIKRFTKLNTGRTSES---GKDIIYIGLEDVESGTGKYLPKDG--NSRQSDTSTV 78
            W+   +  F     G   +    GK I +I + D+ + T              +     
Sbjct: 25  EWEEHGLSEFLDFKNGLNPKPEKFGKGIKFISVMDILNNTIITYDSIKACVDANNKEIDN 84

Query: 79  SIFAKGQILYGKLGPYLR-----KAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
                G +L+ +    L         + +   I     +  + K     L    LL    
Sbjct: 85  YSVKMGDLLFQRSSETLEDVGRANVYMDEKPAIFGGFVIRGKKKGEYNPLFFKNLLETPF 144

Query: 134 -TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
             ++I  +  GA   +   +G+  + +   P+ EQ  I + +     RI T         
Sbjct: 145 SRRKIIPMGAGAQHFNIGQEGLSKVKLYFAPINEQNKIAKILSLLDDRISTQNKIIEDLK 204

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           +L                         S I  +               + + +++N    
Sbjct: 205 KL------------------------KSAIIEIEYSSKTKTSSHIGDFIVQTSKRNKDNA 240

Query: 253 ESNILSL--SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
              +LS+    G I Q  +  N  +  +    Y+IV+  +  F     + +  S+     
Sbjct: 241 IRTVLSVSNRQGFIQQSEQFENRCVASDDTSNYKIVERNDFAFNP--ARINVGSIARLIT 298

Query: 311 MERGIITSAYMAVKPHGI-DSTYLAWLMRSY-DLCKVFYAMGSGLRQSLKFEDVKRLPVL 368
            E+GI++  Y+  +        YL +   S     ++   +   +RQ L +E +  +P  
Sbjct: 299 FEKGIVSPMYICFRTKDYATPEYLDYFFESKLFFTEIQKRLEGSVRQCLSYESLCNIPFP 358

Query: 369 VPPIKEQFDITNVINVETARI----DVLVEKIEQSIVLLKER 406
           +  I+ Q  I   +     +I    D L    +Q   LL++ 
Sbjct: 359 LLAIEVQQRIGKQLFTLAQKIKLETDFLEILHKQKQHLLRQM 400



 Score = 68.3 bits (165), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 28/197 (14%), Positives = 68/197 (34%), Gaps = 14/197 (7%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK-----P 277
           E+ G   +H   +              +     I  +S  +I+         +K      
Sbjct: 21  EFEGEWEEHGLSEFLD--FKNGLNPKPEKFGKGIKFISVMDILNNTIITYDSIKACVDAN 78

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG--IDSTYLAW 335
                   V  G+++F+      +     +  + E+  I   ++         +  +   
Sbjct: 79  NKEIDNYSVKMGDLLFQRSSETLEDVGRANVYMDEKPAIFGGFVIRGKKKGEYNPLFFKN 138

Query: 336 LMRSYDLCKVFYAMGSGLRQ-SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
           L+ +    +    MG+G +  ++  E + ++ +   PI EQ  I  ++    + +D  + 
Sbjct: 139 LLETPFSRRKIIPMGAGAQHFNIGQEGLSKVKLYFAPINEQNKIAKIL----SLLDDRIS 194

Query: 395 KIEQSIVLLKERRSSFI 411
              + I  LK+ +S+ I
Sbjct: 195 TQNKIIEDLKKLKSAII 211


>gi|325981136|ref|YP_004293538.1| restriction modification system DNA specificity domain
           [Nitrosomonas sp. AL212]
 gi|325530655|gb|ADZ25376.1| restriction modification system DNA specificity domain
           [Nitrosomonas sp. AL212]
          Length = 428

 Score = 91.8 bits (226), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 44/419 (10%), Positives = 100/419 (23%), Gaps = 38/419 (9%)

Query: 29  PIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSDTS-TVSIFAK 83
            +        G      +     I  + + ++  G       +                 
Sbjct: 5   RLDSVCDFINGGAWSDTEYAHSGIHVVKVTNLSDGRVTRGDDNYLPFSKYEEYKQHELIS 64

Query: 84  GQILYGKLGP-------YLRKAIIADFDGICST------QFLVLQPKDVLPELLQGWLLS 130
           G I+   +G         + +  +   +   S          V +P  V    L     +
Sbjct: 65  GDIVVSTVGSHPTQPGSVVGRVALVSVEFSGSFLNQNAACIRVNKPNLVSQRYLFYLANT 124

Query: 131 IDVTQRIEAICEGA-TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
           +     IE+   G+          +    +  P + EQ  I   + A    I+       
Sbjct: 125 VIFKHHIESRARGSANQVRMAIGELKKFEVQYPSITEQKKIAAILSAYDEMIENNQRRIA 184

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNT 249
              ++ +E  +     +   G     K+K         VP+ W++               
Sbjct: 185 LLEKMTEEIYREWFVRLRFPGHEKVKKVKG--------VPEGWKLVKLEHAFKFTGGGTP 236

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG-------EIVFRFIDLQNDK 302
               +        N                    Q  + G             + L +  
Sbjct: 237 TKEVNRYWDGGDVNWFTPSNITGANGIFLEQSGEQCTEEGLNNSSAKIFPAYSVMLTSRA 296

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDV 362
                   +        ++   P+        +              G      L     
Sbjct: 297 TIGAVGINLTPACTNQGFITCIPNAQYPLPYLYHWIKLAKPHFELLSGGATFAELTKGTF 356

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           KR+ +L PP     +   +     + +   +E   ++   L E R   +   ++G++ +
Sbjct: 357 KRIEILTPPESIITEFVRI----ESPLFKAIENHLRANSKLIETRDKLLPRLISGKLSV 411



 Score = 70.6 bits (171), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 32/194 (16%), Positives = 60/194 (30%), Gaps = 12/194 (6%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVESGTGKYLPKDG---NS 70
           +P+ WK+V ++   K   G T          G D+ +    ++    G +L + G     
Sbjct: 215 VPEGWKLVKLEHAFKFTGGGTPTKEVNRYWDGGDVNWFTPSNITGANGIFLEQSGEQCTE 274

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
              + S+  IF    ++       +    I       +  F+   P    P L   +   
Sbjct: 275 EGLNNSSAKIFPAYSVMLTS-RATIGAVGINLTPACTNQGFITCIPNAQYP-LPYLYHWI 332

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
                  E +  GAT +         I +  PP +               I+  +    +
Sbjct: 333 KLAKPHFELLSGGATFAELTKGTFKRIEILTPPESIITEFVRIESPLFKAIENHLRANSK 392

Query: 191 FIELLKEKKQALVS 204
            IE   +    L+S
Sbjct: 393 LIETRDKLLPRLIS 406


>gi|325695186|gb|EGD37087.1| type I restriction-modification system specificty subunit
           [Streptococcus sanguinis SK150]
          Length = 402

 Score = 91.8 bits (226), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 56/414 (13%), Positives = 130/414 (31%), Gaps = 42/414 (10%)

Query: 21  IPK--------HWKVVPIKRFTK-LNTGRTSES---GKDIIYIGLEDVESGTGKYLPKDG 68
           IP+        +W    +K  +  +  G  + +        Y+ + D++  + K++ +  
Sbjct: 7   IPEIRFQNYSDNWGGKTLKDLSDSIEYGLNASATYFDGVHKYVRITDIDDNSRKFISEKV 66

Query: 69  NSRQSDTS---TVSIFAKGQILYGKLGPYLRKAIIADF----DGICSTQFLVLQPKDVLP 121
            S   + +         K  +L+ + G  + K  + +                  + V  
Sbjct: 67  TSPDVEFTPELENFKLQKNDLLFARTGASVGKTYLYEEKDGEMYYAGFLIRARIKEAVSA 126

Query: 122 ELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
           + +    L+    + I+   + +     + K  G   + IP + EQ  I          +
Sbjct: 127 DFIFQQTLTEKYKRFIDITSQRSGQPGVNGKEYGEWKLGIPSIQEQSAIGSLFRTLDDLL 186

Query: 182 DTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALV 241
                         K  K +++S +      P    K   I     + +           
Sbjct: 187 ----ATYKENFANYKAFKTSMLSKMF-----PKSGQKVPEI----RLAEFEVEWEEKEFT 233

Query: 242 TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE-SYETYQIVDPGEIVFRFIDLQN 300
             + R +T    S +  + Y +I+      N  +  +          PG  ++  +    
Sbjct: 234 KIVKRISTSSDSSQLPKVEYEDIVSGQGRLNKDVSSKFDNRKGIHFKPGYTLYGKLRPYL 293

Query: 301 DKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFE 360
           +   L   +    G+    +    P+G +  ++ +L++S    KV             ++
Sbjct: 294 NNWLLPKFE----GVALGDFWVFNPNGNNPEFIYYLIQSSHYQKVANDTSGTKMPRSDWK 349

Query: 361 DVKRLPVLVPP-IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            V      +P  IKEQ  I +      + +D L+   +  I  L+  +   +  
Sbjct: 350 SVSTTNFALPSTIKEQVAIGSF----FSNLDTLINSYQDKIYQLEILKKKLLQD 399


>gi|229176527|ref|ZP_04303956.1| Type I restriction-modification system specificity subunit
           [Bacillus cereus MM3]
 gi|228606964|gb|EEK64357.1| Type I restriction-modification system specificity subunit
           [Bacillus cereus MM3]
          Length = 312

 Score = 91.8 bits (226), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 38/315 (12%), Positives = 100/315 (31%), Gaps = 11/315 (3%)

Query: 104 DGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI-EAICEGATMSHADWKGIGNIPMPIP 162
            G+ ST ++  +P  +  + L  +  +    + +     EGA                  
Sbjct: 1   MGVLSTLYITFKPTLINSDFLVSYYDTTQWHKEVSMRAAEGARNHGLLNISASEFFDTNL 60

Query: 163 PLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGI 222
            +  +   + KI     ++D  I    + ++++K+ KQ  +  +         +++  G 
Sbjct: 61  KVPNKEEEQIKIGNFFKQLDDTIALHQQELDIIKQTKQGFLQKMFPNEGESVPEVRFPGY 120

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE---S 279
                              T   +         I  +S G + +K  +    +       
Sbjct: 121 TGDWEQRKLGNHAEILTGGTPKTQIKEYWEPREIPWMSSGEVNKKRLSSTDNMISTQGFE 180

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWL-MR 338
             + + V    ++         + ++   ++        +  A+ P         +  + 
Sbjct: 181 NSSARWVKENSVLIALAGQGKTRGTVAINEIP--LTTNQSIAAIVPKDELHFEFIFQNLE 238

Query: 339 SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
                    + G G R  L  + +  + ++ P ++EQ  I N       ++D  +   ++
Sbjct: 239 KRYEELRLISSGDGTRGGLNKQLISDVEIMSPSVEEQIKIGNF----FKQLDDTIALHQR 294

Query: 399 SIVLLKERRSSFIAA 413
            +  LKE + +F+  
Sbjct: 295 ELDALKETKKAFLQK 309



 Score = 62.9 bits (151), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 29/193 (15%), Positives = 65/193 (33%), Gaps = 13/193 (6%)

Query: 24  HWKVVPIKRFTKLNTGRTSESG-------KDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            W+   +    ++ TG T ++        ++I ++   +V            +++  + S
Sbjct: 123 DWEQRKLGNHAEILTGGTPKTQIKEYWEPREIPWMSSGEVNKKRLSSTDNMISTQGFENS 182

Query: 77  TVSIFAKGQILYGKLGP--YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
           +     +  +L    G         I +     +     + PKD L        L     
Sbjct: 183 SARWVKENSVLIALAGQGKTRGTVAINEIPLTTNQSIAAIVPKDELHFEFIFQNLEKRYE 242

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           +         T    + + I ++ +  P + EQ+ I         ++D  I    R ++ 
Sbjct: 243 ELRLISSGDGTRGGLNKQLISDVEIMSPSVEEQIKIGNF----FKQLDDTIALHQRELDA 298

Query: 195 LKEKKQALVSYIV 207
           LKE K+A +  + 
Sbjct: 299 LKETKKAFLQKMF 311


>gi|313675494|ref|YP_004053490.1| restriction modification system DNA specificity domain [Marivirga
           tractuosa DSM 4126]
 gi|312942192|gb|ADR21382.1| restriction modification system DNA specificity domain [Marivirga
           tractuosa DSM 4126]
          Length = 384

 Score = 91.8 bits (226), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 60/396 (15%), Positives = 127/396 (32%), Gaps = 34/396 (8%)

Query: 32  RFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
                 T  T  + K     + +  + D+ +          N    +        KG IL
Sbjct: 2   DICTKITDGTHHTPKYTESGVPFFRVTDITASN-NSKKYISNEEHLELIKRCHPEKGDIL 60

Query: 88  YGKLGPYLRKAII---ADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
           Y K G      I+    +F    S   +    K V  + L  +L +    ++     + A
Sbjct: 61  YSKNGTIGVGKIVDWDFEFSIFVSLCLIKPNHKIVNTKYLNYFLNTSFALRQALKYSKVA 120

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
           T+ +     I  + +P+PPLA Q  I   + A               ++   +  Q+L  
Sbjct: 121 TIKNLHLVEIKKLKVPLPPLAVQERIAAILDAADELRQK----DQALLKKYDDLIQSL-- 174

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
             +    +P    K+  ++ +G               +    K  +L       +   N+
Sbjct: 175 -FLDMFGDPVSNSKNLKVKPLGE---------LCDFYSGKAWKKAELGSYGYKLVRISNL 224

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
            +        L          V+ G+++F +  +             E G++      +K
Sbjct: 225 HKP--NFPYWLYEGEMIEKLKVEAGDLLFSWAGV--QASIDVYLYDGETGMLNQHIYNLK 280

Query: 325 PHGIDSTYLAWL-MRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
           P            +    L  +  ++G G+ +  LK  D+  + VL+P           +
Sbjct: 281 PKKNSPNKEYLFNLLKLHLRNLRSSLGGGVGQFHLKKSDITSIKVLIPDEATMQ---VFL 337

Query: 383 NVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           +   + ++   ++ + +I   +E   S +  A  G+
Sbjct: 338 DSL-SILNDQKQQAQANIKKSEELFQSLLQKAFKGE 372



 Score = 74.1 bits (180), Expect = 4e-11,   Method: Composition-based stats.
 Identities = 23/179 (12%), Positives = 58/179 (32%), Gaps = 8/179 (4%)

Query: 235 KPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYE--TYQIVDPGEIV 292
                 +T+      K  ES +      +I     ++      E  E       + G+I+
Sbjct: 1   MDICTKITDGTHHTPKYTESGVPFFRVTDITASNNSKKYISNEEHLELIKRCHPEKGDIL 60

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS- 351
           +           +          ++   +      +++ YL + + +    +        
Sbjct: 61  YSKNGTIG-VGKIVDWDFEFSIFVSLCLIKPNHKIVNTKYLNYFLNTSFALRQALKYSKV 119

Query: 352 GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
              ++L   ++K+L V +PP+  Q  I  +++      D L +K +  +    +   S 
Sbjct: 120 ATIKNLHLVEIKKLKVPLPPLAVQERIAAILDAA----DELRQKDQALLKKYDDLIQSL 174



 Score = 55.2 bits (131), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 28/202 (13%), Positives = 66/202 (32%), Gaps = 16/202 (7%)

Query: 26  KVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           KV P+       +G+  +  +        + + ++      Y        + +       
Sbjct: 190 KVKPLGELCDFYSGKAWKKAELGSYGYKLVRISNLHKPNFPY-----WLYEGEMIEKLKV 244

Query: 82  AKGQILYGKLG--PYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL-LSIDVTQRIE 138
             G +L+   G    +   +     G+ +     L+PK   P     +  L + +     
Sbjct: 245 EAGDLLFSWAGVQASIDVYLYDGETGMLNQHIYNLKPKKNSPNKEYLFNLLKLHLRNLRS 304

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
           ++  G    H     I +I + IP  A   +  + +      ++    +    I+  +E 
Sbjct: 305 SLGGGVGQFHLKKSDITSIKVLIPDEATMQVFLDSL----SILNDQKQQAQANIKKSEEL 360

Query: 199 KQALVSYIVTKGLNPDVKMKDS 220
            Q+L+       L  +++ K S
Sbjct: 361 FQSLLQKAFKGELVSELESKVS 382


>gi|312863322|ref|ZP_07723560.1| type I restriction modification DNA specificity domain protein
           [Streptococcus vestibularis F0396]
 gi|311100858|gb|EFQ59063.1| type I restriction modification DNA specificity domain protein
           [Streptococcus vestibularis F0396]
          Length = 409

 Score = 91.8 bits (226), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 56/401 (13%), Positives = 122/401 (30%), Gaps = 25/401 (6%)

Query: 25  WKVVPIKRFTKLNT----GRTSES--GKDIIYIGLEDVESGTGKYLPKD-GNSRQSDTST 77
           W+   +K           G  +     K   Y+   +V++G   Y  +   N    +   
Sbjct: 19  WECDDLKNIFGTIRNAFVGTATPYYVEKGHFYLESNNVKNGKINYNSQIFINDEFYEKQR 78

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQ---FLVLQPKDVLPELLQGWLLSIDVT 134
                   I+  + G     A+I       +           K+V P  L     S    
Sbjct: 79  DKWLKTNDIVMVQSGHVGHTAVIPKELNNTAAHALIVFTDYKKEVNPHFLNYQFQSSSKR 138

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           ++++ I  G T+ H     + +  M  P + EQ  I          + +       +  L
Sbjct: 139 KKLDLISTGNTIKHILASEMKSFKMDFPTVEEQSAIGSLFRTLDDLLTSYKDNLANYQSL 198

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
                  +          P++++     EW     +   +        E+    +     
Sbjct: 199 KTTMLSKMFPKAGRT--VPEIRLDGFEGEW-----EVVNLGTLIENYDEVISGTSGF--P 249

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
              S   G  +Q           +    +  V  G + +R +   +  +  ++    +  
Sbjct: 250 IATSSRKGLYLQNDYFEGGRTGIDLTLDFHRVPIGYVTYRHMSDDSIFKFNKNNFETDVL 309

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPI 372
           +     + +     D  +L + + +  L   F  M    G R  L ++++    + VP +
Sbjct: 310 VSKEYPVFISNDSSDIDFLLYHLNNSRLFLRFSTMQKLGGTRVRLYYKNLITYKIAVPTV 369

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           KEQ  I        + +D L+   ++ I  L+  +   +  
Sbjct: 370 KEQQAIGAY----FSILDNLIATHQEKISQLETLKKKLLQD 406


>gi|146319440|ref|YP_001199152.1| restriction endonuclease S subunit [Streptococcus suis 05ZYH33]
 gi|146321641|ref|YP_001201352.1| restriction endonuclease S subunit [Streptococcus suis 98HAH33]
 gi|253752460|ref|YP_003025601.1| type I restriction-modification system S protein [Streptococcus
           suis SC84]
 gi|253754286|ref|YP_003027427.1| type I restriction-modification system S protein [Streptococcus
           suis P1/7]
 gi|253756220|ref|YP_003029360.1| type I restriction-modification system S protein [Streptococcus
           suis BM407]
 gi|145690246|gb|ABP90752.1| Restriction endonuclease S subunit [Streptococcus suis 05ZYH33]
 gi|145692447|gb|ABP92952.1| Restriction endonuclease S subunit [Streptococcus suis 98HAH33]
 gi|251816749|emb|CAZ52391.1| type I restriction-modification system S protein [Streptococcus
           suis SC84]
 gi|251818684|emb|CAZ56519.1| type I restriction-modification system S protein [Streptococcus
           suis BM407]
 gi|251820532|emb|CAR47287.1| type I restriction-modification system S protein [Streptococcus
           suis P1/7]
 gi|267026754|gb|ACY78468.1| VirA [Streptococcus suis]
 gi|292559064|gb|ADE32065.1| Restriction modification system DNA specificity domain protein
           [Streptococcus suis GZ1]
 gi|319758864|gb|ADV70806.1| restriction endonuclease S subunit [Streptococcus suis JS14]
          Length = 401

 Score = 91.8 bits (226), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 66/398 (16%), Positives = 140/398 (35%), Gaps = 39/398 (9%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDI--IYIGLEDVESGTG------------KYLPKDGNS 70
           WK   +      +    S S   +   +  ++++  G              K LP    S
Sbjct: 20  WKQRKLGEVADFSIKTNSLSRDKLSSYFYEVQNIHYGDILTKYDAILDVCNKELPSIIGS 79

Query: 71  RQSDTSTVSIFAKGQILYGK---LGPYLRKAIIADFDG--ICST-QFLVLQPKDVLPELL 124
             SD +   + ++G I++          +   + +F G  + S    +V +PK       
Sbjct: 80  TISDFADA-LLSEGDIVFADAAEDSTVGKAIEVRNFKGKNVVSGLHTIVARPKVSYAPYY 138

Query: 125 QGWLLSI-DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
            G+L++      +I  + +G  +S      + +  +  P L EQ  I          +D 
Sbjct: 139 LGYLINSTAYHNQILPLMQGTKVSSISKANLKSTTVVFPTLPEQEAIGSF----FSDLDQ 194

Query: 184 LITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTE 243
           LIT   R ++ +KE K+AL+  +  KG   D               D W+ +     + E
Sbjct: 195 LITLHQRKLDDVKELKKALLQKMFPKGNGNDFP-----ELRFPEFTDAWKQRKLGEFMKE 249

Query: 244 LNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKR 303
                +K   +  L++      + + ++       S   Y I   G+ ++  +D  N   
Sbjct: 250 SKILGSKGDIARKLTVRLWG--RGVVSKKEIYSGSSATQYYIRKSGQFIYGKLDFLNQAF 307

Query: 304 SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ--SLKFED 361
            +   ++        +       GI+  +L   +   +       + +G R+   +  E 
Sbjct: 308 GIIPPELDGYESTLDSPAFDLLKGINGQFLLEFVSRKEFYYYQGNIANGSRKAKRIHTET 367

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
              +P+ +P + EQ  I +      + +D L+   ++ 
Sbjct: 368 FLGMPISLPTLPEQEAIGSF----FSDLDQLITLHQRK 401



 Score = 81.8 bits (200), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 28/211 (13%), Positives = 67/211 (31%), Gaps = 11/211 (5%)

Query: 207 VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ 266
                +   + K   +    +  +        +   E+   N    +      +  ++  
Sbjct: 13  FPGFTDAWKQRKLGEVADFSIKTNSLSRDKLSSYFYEVQ--NIHYGDILTKYDAILDVCN 70

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFI--DLQNDKRSLRSAQVMERGIITSAYMAVK 324
           K     +G     +    ++  G+IVF     D    K         +  +     +  +
Sbjct: 71  KELPSIIGSTISDF-ADALLSEGDIVFADAAEDSTVGKAIEVRNFKGKNVVSGLHTIVAR 129

Query: 325 PHGID-STYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
           P       YL +L+ S         +  G    S+   ++K   V+ P + EQ  I +  
Sbjct: 130 PKVSYAPYYLGYLINSTAYHNQILPLMQGTKVSSISKANLKSTTVVFPTLPEQEAIGSF- 188

Query: 383 NVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
               + +D L+   ++ +  +KE + + +  
Sbjct: 189 ---FSDLDQLITLHQRKLDDVKELKKALLQK 216


>gi|229002234|dbj|BAH57700.1| hypothetical protein [Staphylococcus aureus]
 gi|238768520|dbj|BAH66832.1| type I restriction-modification system endonuclease [Staphylococcus
           aureus]
          Length = 433

 Score = 91.8 bits (226), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 62/427 (14%), Positives = 137/427 (32%), Gaps = 39/427 (9%)

Query: 30  IKRFTKLNTGRTSESG----KDIIYIGLEDVESGTGK-YLPKDGNSRQSDTSTVSIFAKG 84
                K+  G   +S     K I  I ++++ S        +  + +  + +      K 
Sbjct: 8   FGDVAKIKNGYAFKSKEFQEKGIPVIKIKNIISPIVDTKDSQKVSIKTYEKTKGFSLKKN 67

Query: 85  QILYGKLGPYL-------RKAIIADFDGICSTQFLV------LQPKDVLPELLQGWLLSI 131
            IL    G  +        K    +FD        V            L  L   +L   
Sbjct: 68  DILISLTGSGVNQMSSAVGKVGRIEFDYPALQNQRVGKFELKYSNSADLDFLFYYFLQPK 127

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
                +      A  ++ + K I  + +P   L +Q  I + +     +I   I    + 
Sbjct: 128 ITEYLVRNSTGSANQANINSKLIETVKIPNFSLIKQKSISKFLN----QITRKIETNQKM 183

Query: 192 IELLKEKKQALVSYIVTKGLNPD---VKMKDSGIE----WVGLVPDHWEVKPFFALVTEL 244
           I  LKE  Q L  +       PD      K SG E     +G +P +W++     + +  
Sbjct: 184 IANLKELSQTLFKHWFVDFEFPDEDGNPYKSSGGEMIDSELGKIPSNWKIYKLKDIASHK 243

Query: 245 NRK-NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKR 303
               N K  E   +           E        +      I++   ++F  ++    + 
Sbjct: 244 KETFNPKKSEEVTVKHFSLPAYDNEEQAIEEEVNKIKSNKWIINNNCVLFSKMNPDTKRI 303

Query: 304 SLRSAQVMERGIITSAYMAVK-PHGIDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKF 359
            L      +  + +S ++ ++ P+   ++++  +  +        A  +G    RQ +K 
Sbjct: 304 WLPVIDNKKLNVASSEFVVMESPNNKINSFIYNICLNSQFIDYLKANTTGSTNSRQRVKP 363

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
                  + +    E   I    +         ++ +   I  L + R + +   ++G++
Sbjct: 364 TIAVNYKLAI----E-DSIVKKYSEIITPYMEEMKILRSEIGKLTQLRDTLLPKLMSGEL 418

Query: 420 DLRGESQ 426
           ++  + +
Sbjct: 419 EISDDIE 425



 Score = 54.0 bits (128), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 23/146 (15%), Positives = 54/146 (36%), Gaps = 12/146 (8%)

Query: 10  YKDSGVQW----IGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLP 65
           YK SG +     +G IP +WK+  +K          +    +   + ++           
Sbjct: 212 YKSSGGEMIDSELGKIPSNWKIYKLKDIASHKKETFNPKKSEE--VTVKHFSLPAYDNEE 269

Query: 66  KDGNSRQSD-TSTVSIFAKGQILYGKLGPYLRKAII----ADFDGICSTQFLVLQ-PKDV 119
           +      +   S   I     +L+ K+ P  ++  +         + S++F+V++ P + 
Sbjct: 270 QAIEEEVNKIKSNKWIINNNCVLFSKMNPDTKRIWLPVIDNKKLNVASSEFVVMESPNNK 329

Query: 120 LPELLQGWLLSIDVTQRIEAICEGAT 145
           +   +    L+      ++A   G+T
Sbjct: 330 INSFIYNICLNSQFIDYLKANTTGST 355


>gi|15900419|ref|NP_345023.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae TIGR4]
 gi|148996901|ref|ZP_01824619.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP11-BS70]
 gi|149005619|ref|ZP_01829358.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP18-BS74]
 gi|168577282|ref|ZP_02723073.1| type I site-specific deoxyribonuclease chain S [Streptococcus
           pneumoniae MLV-016]
 gi|169833432|ref|YP_001694005.1| type I site-specific deoxyribonuclease chain S [Streptococcus
           pneumoniae Hungary19A-6]
 gi|14971978|gb|AAK74663.1| putative type I restriction-modification system, S subunit
           [Streptococcus pneumoniae TIGR4]
 gi|147757476|gb|EDK64515.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP11-BS70]
 gi|147762559|gb|EDK69519.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP18-BS74]
 gi|168995934|gb|ACA36546.1| type I site-specific deoxyribonuclease chain S [Streptococcus
           pneumoniae Hungary19A-6]
 gi|183577166|gb|EDT97694.1| type I site-specific deoxyribonuclease chain S [Streptococcus
           pneumoniae MLV-016]
          Length = 426

 Score = 91.8 bits (226), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 67/415 (16%), Positives = 140/415 (33%), Gaps = 64/415 (15%)

Query: 42  SESGKDIIYIGLEDVESGTGKYLPKDG---NSRQSDTSTVSIFAKGQILYGKLGPYLRKA 98
           ++  K   YI    ++        K+    +  Q+ +    + ++  +L+  + PYL+  
Sbjct: 13  NKPEKSFRYIDTSSIDRKKNIINYKNLQYLSPEQAPSRARKLVSQNSVLFSTVRPYLKNI 72

Query: 99  IIA---DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIG 155
            +        I ST F+VL        L   +LLS +   R+     G +    +     
Sbjct: 73  AVVRELKEYLIASTAFIVLDTLLNETYLKY-YLLSDNFINRVNNKSTGTSYPAINDYNFN 131

Query: 156 NIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK----QALVSYIVTKGL 211
            + + +PPL+EQ  I E I +   ++D       R  +L KE      ++++ Y +   L
Sbjct: 132 LLLIALPPLSEQQRIVEAIESALEKVDEYAESYNRLEQLDKEFPDKLKKSILQYAMQGKL 191

Query: 212 NPDVKMKDS---------------------------------------GIEWVGLVPDHW 232
                  +S                                         E    +P+ W
Sbjct: 192 VEQDPNDESVEVLLEKIRAEKQKLFEEGKIKKKDLDISIVSQGDDNSYYEEVPCEIPESW 251

Query: 233 EVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL-------KPESYETYQI 285
           E      + + + R  +    +  +         +    ++ L          SY+  ++
Sbjct: 252 EWVRLNDITSYIQRGKSPKYSNIPIYPVIAQKCNQWSGFSIDLARFIDPETVHSYQKERL 311

Query: 286 VDPGEIVFRFIDLQNDKR-SLRSAQVMERGIITSA----YMAVKPHGIDSTYLAWLMRSY 340
           +  G++++    L    R ++        G   +      + V    I+  ++   + S 
Sbjct: 312 LRDGDLMWNSTGLGTLGRLAIYHENKNPYGWAVADSHVTVIRVLSGVINCHFIYNFLSSP 371

Query: 341 DLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
            +  V     SG   ++ L  + +K   + +PP+ EQ  I + I    A ID L+
Sbjct: 372 IVQSVIEEKASGSTKQKELLTKTIKEYLIPLPPLPEQSRIVDKIEQFFAHIDALI 426



 Score = 72.5 bits (176), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 29/192 (15%), Positives = 66/192 (34%), Gaps = 7/192 (3%)

Query: 232 WEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEI 291
             +K  +    +   + +             NII     + +  +       ++V    +
Sbjct: 1   MRIKSIYWNFGQNKPEKSFRYIDTSSIDRKKNIINYKNLQYLSPEQAPSRARKLVSQNSV 60

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
           +F  +       ++     ++  +I S    V    ++ TYL + + S +         +
Sbjct: 61  LFSTVRPYLKNIAVVR--ELKEYLIASTAFIVLDTLLNETYLKYYLLSDNFINRVNNKST 118

Query: 352 GLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----R 406
           G    ++   +   L + +PP+ EQ  I   I     ++D   E   +   L KE     
Sbjct: 119 GTSYPAINDYNFNLLLIALPPLSEQQRIVEAIESALEKVDEYAESYNRLEQLDKEFPDKL 178

Query: 407 RSSFIAAAVTGQ 418
           + S +  A+ G+
Sbjct: 179 KKSILQYAMQGK 190



 Score = 50.9 bits (120), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 29/181 (16%), Positives = 50/181 (27%), Gaps = 15/181 (8%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT-----GKYLPKDGNSRQSD 74
            IP+ W+ V +   T       S    +I    +   +                      
Sbjct: 246 EIPESWEWVRLNDITSYIQRGKSPKYSNIPIYPVIAQKCNQWSGFSIDLARFIDPETVHS 305

Query: 75  TSTVSIFAKGQILYGKL--GPYLRKAIIADF-----DGICSTQFLVLQPKDVLPELLQGW 127
                +   G +++     G   R AI  +        +  +   V++    +      +
Sbjct: 306 YQKERLLRDGDLMWNSTGLGTLGRLAIYHENKNPYGWAVADSHVTVIRVLSGVINCHFIY 365

Query: 128 LLSIDVTQR---IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
                   +    E             K I    +P+PPL EQ  I +KI      ID L
Sbjct: 366 NFLSSPIVQSVIEEKASGSTKQKELLTKTIKEYLIPLPPLPEQSRIVDKIEQFFAHIDAL 425

Query: 185 I 185
           I
Sbjct: 426 I 426


>gi|205372128|ref|ZP_03224944.1| hypothetical protein Bcoam_01225 [Bacillus coahuilensis m4-4]
          Length = 424

 Score = 91.8 bits (226), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 54/427 (12%), Positives = 136/427 (31%), Gaps = 33/427 (7%)

Query: 23  KHWKVVPIKRFTKLNTGRTS-----ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
             W+V+ I     +   + S     +   +   +   ++  G  + +    +  +     
Sbjct: 4   NGWEVLAIDDVCTVTDCQHSTAPAVDYETEYRMLRTVNIRDGRLRDIETTKSVTEETYKK 63

Query: 78  VSI---FAKGQILYGKLGPYLRKAIIAD--FDGICSTQFLVLQPKDVLPELLQGWL---L 129
            S+      G ++  +  P    AI+ D  +      + L L+ K  +      +     
Sbjct: 64  WSVRGYLEDGDVILTREAPMGEVAILKDEEYKFFLGQRMLQLKVKKEIITPEFLYYSLQT 123

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
           S    Q +     G+ +S+     +  + + +P +  Q  I   + +   + +   +   
Sbjct: 124 SSMRHQIMMNEGTGSVVSNIRIPLLKKMQISVPSIKLQKKITLLLESIDSKYNNNNSMIK 183

Query: 190 RFIELLKEKKQALVSYIVTKGLNPD---VKMKDSG----IEWVGLVPDHWEVKPFFALVT 242
                  E  Q L          P+   +  K SG        G +P+ W ++   +   
Sbjct: 184 GLE----ELSQILFKQWFIDFEFPNEDGMPYKSSGGKMVDSEFGEIPEGWNIEYLSSSTE 239

Query: 243 ELNRKNTKLIESNILS--LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQN 300
            L+    K  ES   +  + +        +       ++     +      ++    +  
Sbjct: 240 FLSGGTPKTKESTYWNGDIPFFTPKDVGSSVYTTNTEKTITELGLSKCNSRLYPKNTVFI 299

Query: 301 DKRSLR--SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLK 358
             R      A       +  +  A+K       YL   +++  L ++       +  ++ 
Sbjct: 300 TARGTVGKVALANRDMAMNQSCFALKSRNECQFYLYGAIKTL-LREIIQGANGAVFNAIN 358

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
             D+ RL + +P    Q  + +            +  +E   + L+  R + +   ++G+
Sbjct: 359 LSDLNRLRLAMP----QQGLIDKYEAIAITFFDQMSALEFENINLQILRDTLLPKLLSGE 414

Query: 419 IDLRGES 425
           I++  ES
Sbjct: 415 IEIPDES 421



 Score = 59.0 bits (141), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 23/199 (11%), Positives = 69/199 (34%), Gaps = 12/199 (6%)

Query: 217 MKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK 276
           MK +G E + +           +    ++ +        + +++  +   +       + 
Sbjct: 1   MKSNGWEVLAIDDVCTVTDCQHSTAPAVDYETEY---RMLRTVNIRDGRLRDIETTKSVT 57

Query: 277 PESYETYQ---IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL 333
            E+Y+ +     ++ G+++        +   L+  +           + VK   I   +L
Sbjct: 58  EETYKKWSVRGYLEDGDVILTREAPMGEVAILKDEEYKFFLGQRMLQLKVKKEIITPEFL 117

Query: 334 AWLMRSYDLCKVFYAM--GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
            + +++  +            +  +++   +K++ + VP IK Q  IT ++    ++ + 
Sbjct: 118 YYSLQTSSMRHQIMMNEGTGSVVSNIRIPLLKKMQISVPSIKLQKKITLLLESIDSKYNN 177

Query: 392 LVEKIEQSIVLLKERRSSF 410
                   I  L+E     
Sbjct: 178 ----NNSMIKGLEELSQIL 192



 Score = 54.8 bits (130), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 33/206 (16%), Positives = 65/206 (31%), Gaps = 14/206 (6%)

Query: 10  YKDSGVQWI----GAIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDV-ES 58
           YK SG + +    G IP+ W +  +   T+  +G T ++ +      DI +   +DV  S
Sbjct: 210 YKSSGGKMVDSEFGEIPEGWNIEYLSSSTEFLSGGTPKTKESTYWNGDIPFFTPKDVGSS 269

Query: 59  GTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKD 118
                  K             ++ K  +     G   + A+      +  + F +   K 
Sbjct: 270 VYTTNTEKTITELGLSKCNSRLYPKNTVFITARGTVGKVALANRDMAMNQSCFAL---KS 326

Query: 119 VLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
                   +     + + I     GA  +  +   +  + + +P            I   
Sbjct: 327 RNECQFYLYGAIKTLLREIIQGANGAVFNAINLSDLNRLRLAMPQQGLIDKYEAIAITFF 386

Query: 179 VRIDTLITERIRFIELLKEKKQALVS 204
            ++  L  E I    L       L+S
Sbjct: 387 DQMSALEFENINLQILRDTLLPKLLS 412


>gi|163784829|ref|ZP_02179613.1| type I restriction-modification system specificity subunit
           [Hydrogenivirga sp. 128-5-R1-1]
 gi|159879899|gb|EDP73619.1| type I restriction-modification system specificity subunit
           [Hydrogenivirga sp. 128-5-R1-1]
          Length = 80

 Score = 91.8 bits (226), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 26/77 (33%), Positives = 45/77 (58%)

Query: 345 VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLK 404
             +  GS  ++ +  E VK L + +PP+ EQ  I   ++ +T +ID L++K E+ I L+K
Sbjct: 4   EKFMTGSAGQKRIPTEFVKNLQIPLPPLHEQQKIAQYLDKKTQQIDQLIQKTEKEIKLIK 63

Query: 405 ERRSSFIAAAVTGQIDL 421
           E +   I+ AV G+I +
Sbjct: 64  EFKEKLISDAVLGKIKV 80


>gi|295114354|emb|CBL32991.1| Restriction endonuclease S subunits [Enterococcus sp. 7L76]
 gi|315145851|gb|EFT89867.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX2141]
          Length = 407

 Score = 91.8 bits (226), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 60/412 (14%), Positives = 129/412 (31%), Gaps = 48/412 (11%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESG----TGKYLPKDGNSRQSDTSTV 78
           + W++  +    +  +G  S    D +  G+  +  G    TG            D    
Sbjct: 18  EDWELCKLSGVIEKLSGGASIKPTDYLEDGIRTIPKGAVNATGIADLSGSKYISEDFFEK 77

Query: 79  SI---FAKGQILYG---------KLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQG 126
           +I        ++            +G  +R     +   +    + +   + +  + L  
Sbjct: 78  NITSHVHTNNLVTSLRDLVPSAPNMGRIVRIEGDEEQFLMPQGVYKLELFEGMDGDFLIS 137

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           +  S    + I A   G+T  H       NI + +P   EQ  I         ++D  IT
Sbjct: 138 FSNSDKYRKIISAEKNGSTQVHIRNGEFLNIDINLPSKYEQKKIGAF----FKQLDDTIT 193

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
              R ++ LKE K+A +  +  K      +++ +  E      D W++       + +  
Sbjct: 194 LHQRKLDQLKELKKAYLQLMFPKKDETVPRVRFADFE------DDWQLCKLGETFSIIMG 247

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY--QIVDPGEIVFRFIDLQNDKRS 304
           ++            Y  +    + +N  + P  + T   +  + G+++        +   
Sbjct: 248 QSPNSENYTENPDDYILVQGNSDMKNNKVVPRIWTTQVTKKAEKGDLILSVRAPVGEIGK 307

Query: 305 LRSAQVMERGII----TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFE 360
                V+ RG+                 DS Y                      +S+   
Sbjct: 308 TDYNVVLGRGVAAVKGNDFIFQQLRKMKDSGYWTRY------------STGSTFESINSN 355

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           D+K   + +P   EQ  I +        +D  +   +  +  LK  + S++ 
Sbjct: 356 DIKEALINIPNKDEQQKIGD----LFTHLDDAIILNQNKLNQLKSLKKSYLQ 403



 Score = 50.9 bits (120), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 24/180 (13%), Positives = 49/180 (27%), Gaps = 5/180 (2%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W++  +     +  G++  S           +  G           R   T       K
Sbjct: 232 DWQLCKLGETFSIIMGQSPNSENYTENPDDYILVQGNSDMKNNKVVPRIWTTQVTKKAEK 291

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
           G ++     P   +    D++ +       ++  D +       L  +  +        G
Sbjct: 292 GDLILSVRAPV-GEIGKTDYNVVLGRGVAAVKGNDFI----FQQLRKMKDSGYWTRYSTG 346

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           +T    +   I    + IP   EQ  I +        I     +  +   L K   Q + 
Sbjct: 347 STFESINSNDIKEALINIPNKDEQQKIGDLFTHLDDAIILNQNKLNQLKSLKKSYLQNMF 406


>gi|256810724|ref|YP_003128093.1| restriction modification system DNA specificity domain protein
           [Methanocaldococcus fervens AG86]
 gi|256793924|gb|ACV24593.1| restriction modification system DNA specificity domain protein
           [Methanocaldococcus fervens AG86]
          Length = 219

 Score = 91.4 bits (225), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 25/191 (13%), Positives = 60/191 (31%), Gaps = 5/191 (2%)

Query: 234 VKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVF 293
            K   A  T             I  +   +I    +         + +     +   +  
Sbjct: 30  CKKIKAGGTPKTSVKEYYESGTIPFVKIEDITNSNKYLTYTKVKITEKGLNNSNAWIVPK 89

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH-GIDSTYLAWLMRSYDLCKVFYAMGSG 352
             +          +A          A + + P   +  +   + + + +           
Sbjct: 90  NSVLFAMYGSIGETAINKIEVATNQAILGIIPKGEVLESEFLYYILAKNKNYYSKLGMQT 149

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
            +++L  + VK   + +PPI+EQ  I   +      ID L+E   +    L++ +   + 
Sbjct: 150 TQKNLNAQIVKTFKIPLPPIEEQKAIAERL----KSIDELIEIKRKEKEQLEKAKKKIMD 205

Query: 413 AAVTGQIDLRG 423
             +TG+I ++ 
Sbjct: 206 LLLTGKIRVKN 216



 Score = 69.4 bits (168), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 35/194 (18%), Positives = 74/194 (38%), Gaps = 11/194 (5%)

Query: 21  IPKHWKVVPIKRFT-KLNTGRTSES-------GKDIIYIGLEDV--ESGTGKYLPKDGNS 70
           +P+ W VV +K    K+  G T ++          I ++ +ED+   +    Y       
Sbjct: 17  VPEDWDVVELKDVCKKIKAGGTPKTSVKEYYESGTIPFVKIEDITNSNKYLTYTKVKITE 76

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
           +  + S   I  K  +L+   G     A I   +   +   L + PK  + E    + + 
Sbjct: 77  KGLNNSNAWIVPKNSVLFAMYGSIGETA-INKIEVATNQAILGIIPKGEVLESEFLYYIL 135

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
                    +    T  + + + +    +P+PP+ EQ  I E++ +    I+    E+ +
Sbjct: 136 AKNKNYYSKLGMQTTQKNLNAQIVKTFKIPLPPIEEQKAIAERLKSIDELIEIKRKEKEQ 195

Query: 191 FIELLKEKKQALVS 204
             +  K+    L++
Sbjct: 196 LEKAKKKIMDLLLT 209


>gi|313605683|gb|EFR83058.1| specificity subunit [Listeria monocytogenes FSL F2-208]
          Length = 326

 Score = 91.4 bits (225), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 46/326 (14%), Positives = 99/326 (30%), Gaps = 10/326 (3%)

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
           G IL+G +G       +   D       L+ + K++L   L   L S    + IE    G
Sbjct: 2   GDILFGMIGTIGTPVQLIRKDFAIKNVALIKEKKNILNRFLIHLLKSAVFDRYIENENTG 61

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
            T        I N     P L EQ  I         ++D  I    R ++ LK  K+ L+
Sbjct: 62  GTQKFLSLSKIRNFCFLSPKLEEQDQISLF----FKQLDNAIALHQRKLDALKLMKKGLL 117

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
             +         +++ +                             +  +  I  +  G+
Sbjct: 118 QQMFPNNEEKVPRLRFADFNEKWERCKISSFARNTYGGGTPKTNVPEYWQGRIPWIQSGD 177

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
           ++       +  K  +    +      I    I +       + A +      +  ++++
Sbjct: 178 LLIDSLFNIIPKKHVTGSAVKSSATKCIPANSIAIVTRVGVGKLAFIPFEYTTSQDFLSL 237

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-PIKEQFDITNVI 382
               +DS +  + +    L +    +     + +   D+    +  P    EQ  I   +
Sbjct: 238 SNLRVDSNFGTYSIYIM-LQRELNNIQGSTIKGITKSDLLEKNINKPLNRIEQERIGVSL 296

Query: 383 NVETARIDVLVEKIEQSIVLLKERRS 408
                 +D ++   +  +  L   + 
Sbjct: 297 ----KLLDNIITLHQSKLEKLSSLKK 318



 Score = 72.9 bits (177), Expect = 9e-11,   Method: Composition-based stats.
 Identities = 19/127 (14%), Positives = 47/127 (37%), Gaps = 9/127 (7%)

Query: 288 PGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY 347
            G+I+F  I             + +   I +  +  +   I + +L  L++S    +   
Sbjct: 1   MGDILFGMIGT----IGTPVQLIRKDFAIKNVALIKEKKNILNRFLIHLLKSAVFDRYIE 56

Query: 348 A-MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
                G ++ L    ++    L P ++EQ  I    ++   ++D  +   ++ +  LK  
Sbjct: 57  NENTGGTQKFLSLSKIRNFCFLSPKLEEQDQI----SLFFKQLDNAIALHQRKLDALKLM 112

Query: 407 RSSFIAA 413
           +   +  
Sbjct: 113 KKGLLQQ 119


>gi|313123731|ref|YP_004033990.1| type-i specificity determinant subunit [Lactobacillus delbrueckii
           subsp. bulgaricus ND02]
 gi|312280294|gb|ADQ61013.1| Putative type-I specificity determinant subunit [Lactobacillus
           delbrueckii subsp. bulgaricus ND02]
          Length = 390

 Score = 91.4 bits (225), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 56/399 (14%), Positives = 124/399 (31%), Gaps = 38/399 (9%)

Query: 24  HWKVVPIKRFTKLNTG----RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            W+   +      + G    ++   G     I    + +     + ++ +S     S   
Sbjct: 18  DWEQRKLGDVANFSKGTGYSKSDLKGTGSPIILYGRLYTKYETII-RNVDSFVVPKSGSV 76

Query: 80  IFAKGQILYGKLGPYLRKAII---ADFDGIC--STQFLVLQPKDVLPELLQGWLLSIDVT 134
               G+++    G       I    +  GI       ++    D+ P  L   + +    
Sbjct: 77  FSKGGEVIVPGSGETAEDISIASVVEPAGILLGGDLNIIYPNSDLDPTFLAITISNGKPH 136

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             +    +G ++ H     + +I +  P L+EQ  I +        I     ++ +   L
Sbjct: 137 FDMARRAQGKSIVHLHNADLKHISLKTPNLSEQKRISKIFEVLDQTITLHEEKKHQLESL 196

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
                Q + +    K   P V+ +    EW     +H ++     + T        + + 
Sbjct: 197 KSALLQKMFAN---KNGYPAVRFEGFSNEW-----EHCKLGDVADITTGSRNHQDSVTDG 248

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
                   + +++L           ++T  I+ PG+              +      +  
Sbjct: 249 KYPFFVRSDKVERLNEY-------DFDTKAILVPGD---------GRIGEIFHYYNGKFA 292

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKE 374
           +    Y     +GI+  +L  L +             G   SL+        + VP I E
Sbjct: 293 LHQRVYKVDNFNGINELFLLGLFKYSFKEHALRLNAQGTVPSLRLPMFTNWSISVPMITE 352

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           Q  I         +++  +   +  + LLK+ + S + A
Sbjct: 353 QKRIGVF----FQKLEQTISLYDHKLELLKKVKRSMLQA 387


>gi|225856224|ref|YP_002737735.1| type I site-specific deoxyribonuclease chain S [Streptococcus
           pneumoniae P1031]
 gi|225725320|gb|ACO21172.1| type I site-specific deoxyribonuclease chain S [Streptococcus
           pneumoniae P1031]
          Length = 426

 Score = 91.4 bits (225), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 67/415 (16%), Positives = 138/415 (33%), Gaps = 64/415 (15%)

Query: 42  SESGKDIIYIGLEDVESGTGKYLPKDG---NSRQSDTSTVSIFAKGQILYGKLGPYLRKA 98
           ++  K   YI    ++        K+    +  Q+ +    + ++  +L+  + PYL+  
Sbjct: 13  NKPEKSFRYIDTSSIDRKKNIINYKNLQYLSPEQAPSRARKLVSQNSVLFSTVRPYLKNI 72

Query: 99  IIA---DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIG 155
            +        I ST F+VL        L   +LLS +   R+     G +    +     
Sbjct: 73  AVVRELKEYLIASTAFIVLDTLLNETYLKY-YLLSDNFINRVNNKSTGTSYPAINDYNFN 131

Query: 156 NIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK----QALVSYIVTKGL 211
            + + +PPL+EQ  I E I +   ++D       R  +L KE      ++++ Y +   L
Sbjct: 132 LLLIALPPLSEQQRIVEAIESALEKVDEYAESYNRLEQLDKEFPDKLKKSILQYAMQGKL 191

Query: 212 NPDVKMKDS---------------------------------------GIEWVGLVPDHW 232
                  +S                                         E    +P+ W
Sbjct: 192 VEQDPNDESVEVLLEKIRAEKQKLFEEGKIKKKDLDISIVSQGDDNSYYEEVPCEIPESW 251

Query: 233 EVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL-------KPESYETYQI 285
           E      + + + R  +    +  +         +    ++ L          SY+  ++
Sbjct: 252 EWVRLNDITSYIQRGKSPKYSNIPIYPVIAQKCNQWSGFSIDLARFIDPETVHSYQKERL 311

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA-----YMAVKPHGIDSTYLAWLMRSY 340
           +  G++++    L    R     +         A      + V    I+  ++   + S 
Sbjct: 312 LRDGDLMWNSTGLGTLGRLAIYHENKNPYAWAVADSHVTVIRVLSGVINCHFIYNFLSSP 371

Query: 341 DLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
            +  V     SG   ++ L  + +K   + +PP+ EQ  I + I    A ID L+
Sbjct: 372 IVQSVIEEKASGSTKQKELLTKTIKEYLIPLPPLPEQSRIVDKIEQFFAHIDALI 426



 Score = 72.5 bits (176), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 29/192 (15%), Positives = 66/192 (34%), Gaps = 7/192 (3%)

Query: 232 WEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEI 291
             +K  +    +   + +             NII     + +  +       ++V    +
Sbjct: 1   MRIKSIYWNFGQNKPEKSFRYIDTSSIDRKKNIINYKNLQYLSPEQAPSRARKLVSQNSV 60

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
           +F  +       ++     ++  +I S    V    ++ TYL + + S +         +
Sbjct: 61  LFSTVRPYLKNIAVVR--ELKEYLIASTAFIVLDTLLNETYLKYYLLSDNFINRVNNKST 118

Query: 352 GLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----R 406
           G    ++   +   L + +PP+ EQ  I   I     ++D   E   +   L KE     
Sbjct: 119 GTSYPAINDYNFNLLLIALPPLSEQQRIVEAIESALEKVDEYAESYNRLEQLDKEFPDKL 178

Query: 407 RSSFIAAAVTGQ 418
           + S +  A+ G+
Sbjct: 179 KKSILQYAMQGK 190



 Score = 50.9 bits (120), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 29/181 (16%), Positives = 50/181 (27%), Gaps = 15/181 (8%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT-----GKYLPKDGNSRQSD 74
            IP+ W+ V +   T       S    +I    +   +                      
Sbjct: 246 EIPESWEWVRLNDITSYIQRGKSPKYSNIPIYPVIAQKCNQWSGFSIDLARFIDPETVHS 305

Query: 75  TSTVSIFAKGQILYGKL--GPYLRKAIIADF-----DGICSTQFLVLQPKDVLPELLQGW 127
                +   G +++     G   R AI  +        +  +   V++    +      +
Sbjct: 306 YQKERLLRDGDLMWNSTGLGTLGRLAIYHENKNPYAWAVADSHVTVIRVLSGVINCHFIY 365

Query: 128 LLSIDVTQR---IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
                   +    E             K I    +P+PPL EQ  I +KI      ID L
Sbjct: 366 NFLSSPIVQSVIEEKASGSTKQKELLTKTIKEYLIPLPPLPEQSRIVDKIEQFFAHIDAL 425

Query: 185 I 185
           I
Sbjct: 426 I 426


>gi|170760858|ref|YP_001787474.1| type IC HsdS subunit [Clostridium botulinum A3 str. Loch Maree]
 gi|169407847|gb|ACA56258.1| type IC HsdS subunit [Clostridium botulinum A3 str. Loch Maree]
          Length = 410

 Score = 91.4 bits (225), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 50/379 (13%), Positives = 128/379 (33%), Gaps = 17/379 (4%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            WK             R  +  ++  Y  +     G G +  ++   ++     V     
Sbjct: 15  EWKEKKCSNLFDKIRNRV-DVEENKSYKQIGIRSHGKGIFYKEEVTGKELGNKRVFWVEP 73

Query: 84  GQILYGKLGPYLRKAII---ADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
              +   +  + R        +   I S +F + +PK  + +L            +    
Sbjct: 74  NVFIVNIVFAWERAVARTTENEIGMIASHRFPMYKPKKEILDLDYITYFFKTNKGKALLE 133

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
                 +  +          +  +  +V  ++KI +  + ID  I ++   +E LKE K+
Sbjct: 134 LASPGGAGRNKTLGQKEFDNLKIILPKVEEQKKIGSVILLIDKKIEKQQEKVEALKEYKK 193

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
            ++  I ++ +    + K+   E      +               +        +   ++
Sbjct: 194 GIMQKIFSQEI----RFKEDNEEEYPEWEEKKLCSLGETYTGLSGKTKDNFGFGSGKYIT 249

Query: 261 YGNIIQKLETR---NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA--QVMERGI 315
           Y N+ + ++        +  E  E    V  G+I+F       ++  + S   + +E   
Sbjct: 250 YMNVFKNIKINLDMIDFVDIEEDEKQNTVLKGDILFTTSSETPEEVGMASVCDKDIENLY 309

Query: 316 ITSAYMAVKPHGI---DSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPP 371
           + S     + +     +  ++ + +RS  +      +  G  R +L   ++ ++ + VP 
Sbjct: 310 LNSFCFGFRLNSFEKINYNFITYYLRSPKIRGKISILAQGSTRYNLPKTELMKMMIKVPC 369

Query: 372 IKEQFDITNVINVETARID 390
            +EQ  I N ++    +++
Sbjct: 370 FEEQQKIANFLSKIDDKLN 388



 Score = 73.7 bits (179), Expect = 6e-11,   Method: Composition-based stats.
 Identities = 29/200 (14%), Positives = 70/200 (35%), Gaps = 10/200 (5%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG 289
                +   + + +  R    + E+            K       +  +     ++    
Sbjct: 13  SGEWKEKKCSNLFDKIRNRVDVEENKSYKQIGIRSHGKGIFYKEEVTGKELGNKRVFWVE 72

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP---HGIDSTYLAWLMRSYDLCKVF 346
             VF    +   +R++      E G+I S    +       +D  Y+ +  ++     + 
Sbjct: 73  PNVFIVNIVFAWERAVARTTENEIGMIASHRFPMYKPKKEILDLDYITYFFKTNKGKALL 132

Query: 347 YAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
                G     ++L  ++   L +++P ++EQ  I +VI      ID  +EK ++ +  L
Sbjct: 133 ELASPGGAGRNKTLGQKEFDNLKIILPKVEEQKKIGSVI----LLIDKKIEKQQEKVEAL 188

Query: 404 KERRSSFIAAAVTGQIDLRG 423
           KE +   +    + +I  + 
Sbjct: 189 KEYKKGIMQKIFSQEIRFKE 208


>gi|154492482|ref|ZP_02032108.1| hypothetical protein PARMER_02116 [Parabacteroides merdae ATCC
           43184]
 gi|254881867|ref|ZP_05254577.1| restriction modification system DNA specificity subunit
           [Bacteroides sp. 4_3_47FAA]
 gi|154087707|gb|EDN86752.1| hypothetical protein PARMER_02116 [Parabacteroides merdae ATCC
           43184]
 gi|254834660|gb|EET14969.1| restriction modification system DNA specificity subunit
           [Bacteroides sp. 4_3_47FAA]
          Length = 397

 Score = 91.4 bits (225), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 52/415 (12%), Positives = 117/415 (28%), Gaps = 44/415 (10%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           + WK   +     + +G   +       + + +G+  V      +L K       +    
Sbjct: 2   EQWKEYKLSDILSIVSGFAYKGEYLGKGESLLLGMGCVSYSEL-FLEKGMRPYAGEFPER 60

Query: 79  SIFAKGQILYGKLG----------PYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL 128
                G I+               P +          +       + PK     +   + 
Sbjct: 61  YSVEAGDIVLATRQQSDNLPILGMPAIVPQKFKGKKMVFGANLYKVVPKSPEFPIDYIYW 120

Query: 129 --LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
              +    + I +   G T+       I +     P   ++  I + +      I+  I 
Sbjct: 121 LLKTPAYIRHIRSCQTGTTVRMITKANIEDYAFMCPCKEQRNQISKLLWD----IEMKIV 176

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
              R  + L+++ QAL  +              SG  ++              L     +
Sbjct: 177 LNRRINDNLEQQAQALFDHYFD-----------SGSIYLEDSIMGCLTDIAVYLNGLAMQ 225

Query: 247 KNT-KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
           K     IE ++  L    + Q+          +S +   I+D  +I+F +         +
Sbjct: 226 KFPATDIERSLPVLKIKELGQRKCDDCSDRCSDSIDADYIIDNEDIIFSWSGTL-----M 280

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLM--RSYDLCKVFYAMGSGLRQSLKFEDVK 363
                  +  +      V P      +  +    R     K+     +     ++  D++
Sbjct: 281 VDVWCGGKCGLNQHLFKVTPLKNYPRWFVYYWTNRHLKKFKLIAKDKAVTMGHIRRGDLE 340

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
              V +P      +I   IN         +      I  L+  R + +   ++G+
Sbjct: 341 NAEVAIPTNLNMLEINARINPLF----QSIIDRRLEITKLENIRDALLPKLMSGE 391


>gi|300861381|ref|ZP_07107467.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TUSoD Ef11]
 gi|300849173|gb|EFK76924.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TUSoD Ef11]
          Length = 403

 Score = 91.4 bits (225), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 60/412 (14%), Positives = 129/412 (31%), Gaps = 48/412 (11%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESG----TGKYLPKDGNSRQSDTSTV 78
           + W++  +    +  +G  S    D +  G+  +  G    TG            D    
Sbjct: 14  EDWELCKLSGVIEKLSGGASIKPTDYLEDGIRTIPKGAVNATGIADLSGSKYISEDFFEK 73

Query: 79  SI---FAKGQILYG---------KLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQG 126
           +I        ++            +G  +R     +   +    + +   + +  + L  
Sbjct: 74  NITSHVHTNNLVTSLRDLVPSAPNMGRIVRIEGDEEQFLMPQGVYKLELFEGMDGDFLIS 133

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           +  S    + I A   G+T  H       NI + +P   EQ  I         ++D  IT
Sbjct: 134 FSNSDKYRKIISAEKNGSTQVHIRNGEFLNIDINLPSKYEQKKIGAF----FKQLDDTIT 189

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
              R ++ LKE K+A +  +  K      +++ +  E      D W++       + +  
Sbjct: 190 LHQRKLDQLKELKKAYLQLMFPKKDETVPRVRFADFE------DDWQLCKLGETFSIIMG 243

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY--QIVDPGEIVFRFIDLQNDKRS 304
           ++            Y  +    + +N  + P  + T   +  + G+++        +   
Sbjct: 244 QSPNSENYTENPDDYILVQGNSDMKNNKVVPRIWTTQVTKKAEKGDLILSVRAPVGEIGK 303

Query: 305 LRSAQVMERGII----TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFE 360
                V+ RG+                 DS Y                      +S+   
Sbjct: 304 TDYNVVLGRGVAAVKGNDFIFQQLRKMKDSGYWTRY------------STGSTFESINSN 351

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           D+K   + +P   EQ  I +        +D  +   +  +  LK  + S++ 
Sbjct: 352 DIKEALINIPNKDEQQKIGD----LFTHLDDAIILNQNKLNQLKSLKKSYLQ 399



 Score = 50.9 bits (120), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 24/180 (13%), Positives = 49/180 (27%), Gaps = 5/180 (2%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W++  +     +  G++  S           +  G           R   T       K
Sbjct: 228 DWQLCKLGETFSIIMGQSPNSENYTENPDDYILVQGNSDMKNNKVVPRIWTTQVTKKAEK 287

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
           G ++     P   +    D++ +       ++  D +       L  +  +        G
Sbjct: 288 GDLILSVRAPV-GEIGKTDYNVVLGRGVAAVKGNDFI----FQQLRKMKDSGYWTRYSTG 342

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           +T    +   I    + IP   EQ  I +        I     +  +   L K   Q + 
Sbjct: 343 STFESINSNDIKEALINIPNKDEQQKIGDLFTHLDDAIILNQNKLNQLKSLKKSYLQNMF 402


>gi|160946888|ref|ZP_02094091.1| hypothetical protein PEPMIC_00849 [Parvimonas micra ATCC 33270]
 gi|158447272|gb|EDP24267.1| hypothetical protein PEPMIC_00849 [Parvimonas micra ATCC 33270]
          Length = 417

 Score = 91.4 bits (225), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 46/413 (11%), Positives = 123/413 (29%), Gaps = 23/413 (5%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYL 64
           K Y   K+  V+W            +     +  GR          I LE+ +     Y 
Sbjct: 3   KIYELLKNEKVEW----------KKLGEVCNIKRGRVISK------IYLEEHKGEFPVYS 46

Query: 65  PKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELL 124
            +  N+ +    +   F      +   G Y       +     +    +++PKD   +L 
Sbjct: 47  SQTRNNGEIGRISTYDFDGEFATWTTDGAYAGTVFYRNGKFSVTNICGLIEPKD-NKKLS 105

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
             +++     +  + +  G+         +  I +PIP +  Q  I + +   T  +  L
Sbjct: 106 VKFIVYWLQIEAKKHVKGGSGNPKLMSNVVERIKIPIPSIETQEKIVKTLDKFTNYVTEL 165

Query: 185 ITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTEL 244
            +E    ++   ++ +     ++++     +         + L     +     +L    
Sbjct: 166 QSELQSELQSRTKQYEYYRDMLLSEEYLNKLSCHLEENRLLKLEWKTLDEISVGSLSYGS 225

Query: 245 NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
              +    +     +   +I            P   E   I++  +I+F        K  
Sbjct: 226 -GASAIDYDGETRYIRITDINDSGGLNKEKASPNVVEAKYILNNEDILFARSGSTVGKNY 284

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVK 363
           +               + V        ++ + + +           S G + ++  +   
Sbjct: 285 IHLINDKCIYAGYLIRLIVNREIALPKFVFYCLNTNRYKIFVDNTKSRGSQPNINAKQYG 344

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
              + + PI+ Q  +  +++   + +      + + I   ++     R   + 
Sbjct: 345 SFKIPIIPIEIQNKVVEILDKFRSLLADTKGLLPKEIEQRQKQYEYYREKLLT 397


>gi|210135697|ref|YP_002302136.1| type I R-M system S protein [Helicobacter pylori P12]
 gi|210133665|gb|ACJ08656.1| type I R-M system S protein [Helicobacter pylori P12]
          Length = 402

 Score = 91.4 bits (225), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 59/419 (14%), Positives = 127/419 (30%), Gaps = 49/419 (11%)

Query: 22  PKHWKVVPIKRF---TKLNTGRTSESG-----------KDIIYIGLEDVESGTGKYLPKD 67
           P +W+ V +          TG    +              I +I  +D       Y    
Sbjct: 11  PSNWQRVRLGDMTTSFTKQTGFDYSASIKPTLIKEQLPNYIPFIQNKDFLGHYINYKTDY 70

Query: 68  GNSRQSDTS-TVSIFAKGQILYGKLGPYLRKAIIADFD-GICSTQFLVLQPKDVLP-ELL 124
               +        +  +  +L    G     A+              VL+ K+    + +
Sbjct: 71  FIPNEIAIRFPQILLNEKCLLISISGAIGNVAVFNHSQDAFIGGAIAVLKFKEKKSLDFV 130

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
             +L+S    + +  I + ++  +     + ++ +P+PPL EQ+ I   +      + +L
Sbjct: 131 MHFLMSASGQKSLLNIVKSSSHKNLTIADLRDLLIPLPPLNEQIAIANILSDLDHYLYSL 190

Query: 185 ITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTEL 244
               ++   + K     L+S           ++K     W  +             +++ 
Sbjct: 191 DALILKKESVKKALSFELLSQ--------RKRLKGFNQAWQRVRLGDIFFITAGGDLSKP 242

Query: 245 NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
           +  NTK  + N    S     + L           Y ++ I+    I             
Sbjct: 243 HYSNTKQSDFNYPIYSNAIDKKGLY---------GYSSFFIIKNKSITITARGTMG---- 289

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAW--LMRSYDLCKVFYAMGSGLRQSLKFEDV 362
             +       +     + ++P   +     +   + S    KV +         L    V
Sbjct: 290 -VAFFRDYPYVPIGRLLVLQPKISNIDCRFYAEYINS----KVKFNTEQTTIPQLTIPKV 344

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
               +L+PPI EQ  I N+++     I  L  K  Q        + +     ++ +I +
Sbjct: 345 ALCEILLPPINEQIAIANILSALDNEIISLKNKKRQ----FDNIKKALNHDLMSAKIRV 399



 Score = 66.0 bits (159), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 23/178 (12%), Positives = 61/178 (34%), Gaps = 5/178 (2%)

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
              I         G+ I       +  +        +++   ++        +      +
Sbjct: 48  PNYIPFIQNKDFLGHYINYKTDYFIPNEIAIRFPQILLNEKCLLISISGAIGNVAVFNHS 107

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVL 368
           Q    G   +     +   +D   + +LM +     +   + S   ++L   D++ L + 
Sbjct: 108 QDAFIGGAIAVLKFKEKKSLD-FVMHFLMSASGQKSLLNIVKSSSHKNLTIADLRDLLIP 166

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
           +PP+ EQ  I N+++     +  L   I +     +  + +     ++ +  L+G +Q
Sbjct: 167 LPPLNEQIAIANILSDLDHYLYSLDALILKK----ESVKKALSFELLSQRKRLKGFNQ 220


>gi|298292624|ref|YP_003694563.1| restriction modification system DNA specificity domain protein
           [Starkeya novella DSM 506]
 gi|296929135|gb|ADH89944.1| restriction modification system DNA specificity domain protein
           [Starkeya novella DSM 506]
          Length = 392

 Score = 91.4 bits (225), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 54/419 (12%), Positives = 129/419 (30%), Gaps = 46/419 (10%)

Query: 24  HWKVVPIKRFTKLNTGRTS---ESGKDIIYIGLEDVESGTG--KYLPKDGNSRQSDTSTV 78
            WK   +    +   G        G  +  IG+ D +       +      +     +  
Sbjct: 4   GWKRRSLADLLEFRNGMNFTQASQGARVKIIGVGDFKDKEVLNDFSETPSITLNGKLNPD 63

Query: 79  SIFAKGQILYGKLGP----YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW----LLS 130
            +     +L+ +         R  +++      S     ++ +    E+   +    + S
Sbjct: 64  DLLKNDDLLFVRSNGNKALIGRCVLVSGITEPISFSGFTIRGRVKSDEINHSFASKLVRS 123

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
               + +  +  G+++++     +      +PPL EQ  I E +      I+ L   R  
Sbjct: 124 PLFKEHLHRMGGGSSINNLSQDTLSEFCFSLPPLPEQRKIAEILRTWDEAIEKLEALRAA 183

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
            +  +   +Q L                            H  ++    +   ++ +   
Sbjct: 184 KLRRITSVRQRLFEAAFA---------------------SHNRLQRARDIFEPVSERARP 222

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
            +    +    G + +    R + +      +Y++V PG+ V      +           
Sbjct: 223 DLPLLAVMQDIGIVRRDELDRRVAMPDGDTSSYKVVRPGDFVISLRSFEG-----GLEYS 277

Query: 311 MERGIITSAYMAVKPHGIDSTYLA-WLMRSYDLCKVFYAMGSGLR--QSLKFEDVKRLPV 367
              G+++ AY  ++P             +S         +  G+R  + + F D   +P+
Sbjct: 278 TITGLVSPAYTVLRPTTEVVGDYYRHFFKSRSFIGRLDKLIFGIRDGKQIAFRDFGDMPI 337

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
             PP+ EQ   T  +    A +          I  L  ++   +   +TG+  +  E+ 
Sbjct: 338 PAPPVSEQKAQTGALGCLEADL----ALENVRIEALTRQKRGLMQKLLTGEWRVNVEAD 392


>gi|119945591|ref|YP_943271.1| restriction modification system DNA specificity subunit
           [Psychromonas ingrahamii 37]
 gi|119864195|gb|ABM03672.1| restriction modification system DNA specificity domain
           [Psychromonas ingrahamii 37]
          Length = 611

 Score = 91.4 bits (225), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 63/495 (12%), Positives = 131/495 (26%), Gaps = 104/495 (21%)

Query: 21  IPKHWKVVPIKRFTK-LNTGRTSESGKD------IIYIGLEDVESGTGKYLPK-DGNSRQ 72
           +P  W    +   T  L +G T   GK+      +I++  ++V +   K       +   
Sbjct: 120 LPGGWAFERLGNLTSRLGSGSTPRGGKNAYVDKGVIFLRSQNVWNDGLKLDDTAYISDET 179

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADF---DGICSTQFLVLQ-PKDVLPELLQGWL 128
                 +      +L    G  L ++ I          S    V++     + + L   +
Sbjct: 180 HHKMENTRVFPNDVLLNITGASLGRSTIFPKALVTANVSQHVTVIRLIHPSICQYLHLAI 239

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK--------------- 173
           +S  V +       G  +     K +     P+PPL EQ  I  K               
Sbjct: 240 MSPLVQELAWGRQVGMAIEGLSKKVLEQFEFPVPPLEEQHRIVAKVDELMLLCDLFEQKT 299

Query: 174 --------------------------IIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
                                     +     R+             + + KQ ++   V
Sbjct: 300 ESSIDAHKTLVEVLLTTLTDSKNSDELNKNWARVSEFFDILFTTEHSIDQLKQTILQLAV 359

Query: 208 TKGLNPDVKMKD-------------------------------SGIEWVGLVPDHWEVKP 236
              L    +  +                               +  E    VP  WE   
Sbjct: 360 MGKLVAQNENDEPASKLLERIAAEKETLIKDKKIKKQKALPPITDEEKPFSVPSGWEWCR 419

Query: 237 FFALVTELNRKNTKLI---ESNILSLSYGNIIQKLET---RNMGLKPESYETYQIVDPGE 290
            +          ++        +  L  G+I         + +            +  G+
Sbjct: 420 IYDASLFTEYGTSEKAFEGNDGVPVLKMGDIQSGKVYHGGQKVVPSTIKDLPNLYLKYGD 479

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAY---MAVKPHGIDSTYLAWLMRSYDLCKVF- 346
           I++   +           +  +     ++Y   +      +   YL   M++    K   
Sbjct: 480 ILYNRTNSAELVGKTGMFEGDDDIFTFASYLIRIRCDFEKVAPQYLTLSMQTPLFKKTQI 539

Query: 347 --YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV----EKIEQSI 400
             +      + ++    +K + + +P + EQ+ I N +       D L     E  +  +
Sbjct: 540 DPHVKQQCGQANVNGTIMKSMLISIPSLSEQYRIVNKVEELMTLCDQLKTRLNESQQSQL 599

Query: 401 VLLKERRSSFIAAAV 415
            L      + I  AV
Sbjct: 600 HLA----DALIEQAV 610


>gi|288926746|ref|ZP_06420657.1| type I restriction system specificity protein [Prevotella buccae
           D17]
 gi|288336476|gb|EFC74851.1| type I restriction system specificity protein [Prevotella buccae
           D17]
          Length = 205

 Score = 91.4 bits (225), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 27/175 (15%), Positives = 64/175 (36%), Gaps = 9/175 (5%)

Query: 247 KNTKLIESNILSLSYGNIIQKLET----RNMGLKPESYETYQIVDPGEIVFRFIDLQNDK 302
           +      + I  + YG I     T        +  E     +    G++V       ++ 
Sbjct: 28  QKKDFTPAGIGCIHYGQIYTYYGTCAKKTKSFVSQELALKARKAKYGDLVIATTSENDED 87

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFED 361
                A + +  I  S       H ++  Y+A+  ++    K   +  +G   + +  +D
Sbjct: 88  VCKAVAWLGDEDIAISGDACFYTHTMNPKYVAYYFQTEQFQKQKRSFITGTKVRRVNTKD 147

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           + ++ + VPP+ EQ  I  +++        + E + + I L ++     R   ++
Sbjct: 148 LAKIEIPVPPLAEQQRIVAILDDFDTLTTSISEGLPKEIELRRKQYEYYRDQLLS 202


>gi|293388419|ref|ZP_06632927.1| putative restriction endonuclease S subunit [Enterococcus faecalis
           S613]
 gi|312908545|ref|ZP_07767489.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis DAPTO 512]
 gi|312908985|ref|ZP_07767847.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis DAPTO 516]
 gi|291082194|gb|EFE19157.1| putative restriction endonuclease S subunit [Enterococcus faecalis
           S613]
 gi|310625512|gb|EFQ08795.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis DAPTO 512]
 gi|311290685|gb|EFQ69241.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis DAPTO 516]
          Length = 405

 Score = 91.4 bits (225), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 62/405 (15%), Positives = 155/405 (38%), Gaps = 36/405 (8%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + W++  +K  T+   G  ++   D+  + +   +    +     GN    +    ++  
Sbjct: 18  EDWELCKLKEITERVKG--NDGRMDLPTLTISASQGWLNQKDRFSGNIAGKEQKNYTLLL 75

Query: 83  KGQILYG----KLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           K ++ Y     KL  Y     +  ++     +           +      +        E
Sbjct: 76  KNELSYNHGNSKLAKYGAVFSLKTYEEALVPRVYHSFKSTKNSDPDFLEYIFATKKPDKE 135

Query: 139 ------AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
                 +      + + ++    NI + IP + EQ  I   +     +ID +IT   R +
Sbjct: 136 LGKLVSSGARMDGLLNINYDDFSNIKINIPHVHEQKKISNLL----RKIDDIITLHQRKL 191

Query: 193 ELLKEKKQALVSYIVTKGLNPDVK-MKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           + LKE K+A +  +       + K  K    ++ G     W+ +     + + ++K+T  
Sbjct: 192 DQLKELKKAYLQLMFVSMNTKNNKVPKLRFADFEGD----WKQRKLGDFLEDFSKKSTIE 247

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
            E  ILS +   +    E R   +   S   Y+I+D G++V    +L     ++     +
Sbjct: 248 NEYIILSSTNNGM----EIREGRVSGNSNLGYKIIDDGDLVLSPQNLWLGNINI---NNI 300

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM----GSGLRQSLKFEDVKRLPV 367
            +G+++ +Y   K   ++  +L   +R+  +   +        S +R++L+ +   ++ +
Sbjct: 301 GQGLVSPSYKTFKIIDLNKEFLNPQLRTNKMLDQYKNASTQGASIVRRNLELDLFYQIRI 360

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
            +P  +EQ  I     +   +++  +   +  +  +K  + +++ 
Sbjct: 361 FIPKNEEQKQIG----LLFRKLNESISLHQSKLDSIKYLKKAYLQ 401



 Score = 44.4 bits (103), Expect = 0.039,   Method: Composition-based stats.
 Identities = 24/185 (12%), Positives = 63/185 (34%), Gaps = 8/185 (4%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            WK   +  F +  + +++   + II      + S       ++G    +      I   
Sbjct: 227 DWKQRKLGDFLEDFSKKSTIENEYII------LSSTNNGMEIREGRVSGNSNLGYKIIDD 280

Query: 84  GQILYGKLGPYLRKAIIADF-DGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           G ++      +L    I +   G+ S  +   +  D+  E L   L +  +  + +    
Sbjct: 281 GDLVLSPQNLWLGNININNIGQGLVSPSYKTFKIIDLNKEFLNPQLRTNKMLDQYKNAST 340

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
               S        ++   I     +   +++I     +++  I+     ++ +K  K+A 
Sbjct: 341 QGA-SIVRRNLELDLFYQIRIFIPKNEEQKQIGLLFRKLNESISLHQSKLDSIKYLKKAY 399

Query: 203 VSYIV 207
           +  + 
Sbjct: 400 LQNMF 404


>gi|291276639|ref|YP_003516411.1| putative type I restriction-modification system S protein
           [Helicobacter mustelae 12198]
 gi|290963833|emb|CBG39669.1| putative type I restriction-modification system S protein
           [Helicobacter mustelae 12198]
          Length = 435

 Score = 91.4 bits (225), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 59/419 (14%), Positives = 116/419 (27%), Gaps = 33/419 (7%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSES---------GKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           P   +   IK       G   +             + +I + DV            +  +
Sbjct: 13  PHGVEFKAIKDIAMFRRGSFPQPYTRSKWYGGDNSMPFIQVIDVADTMKLNEKSKQSISK 72

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
                     KG ++    G    K  I  +D        +     +  +      +   
Sbjct: 73  LAQPKSVFVPKGTVIVTLQGTI-GKVAITQYDSYIDRTIAIFTSYRINIDKKYFAYMLYQ 131

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
                + +  GAT+     +   +  +P+PPL  Q  I + +   T     L TE     
Sbjct: 132 KFAMEKMLARGATLKTITKEEFSDFKIPLPPLEVQREIVKILDTFTELNTELNTELKLRK 191

Query: 193 ELLKEKKQALVS--------YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTEL 244
           +  +  +  L+S            + L      K      + L P   E +    +    
Sbjct: 192 KQYEYYRNWLLSFGDVDASKEGAEQRLRNKSYPKALKALLLSLCPHGVEFRKLGEVCERS 251

Query: 245 NRKNTKLIES-------NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID 297
              N    +        N  S   G  I       + ++ E      I++   +V +   
Sbjct: 252 TGINITAAQMKKLQETFNKTSSQRGIKIFGGGETKVNIRSEDISEKSIINAESVVVKSRG 311

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSL 357
               +               S+    K +     +L + + S        A        L
Sbjct: 312 NIGFEYCNEPFSHKNEIWSYSS----KTNEAMIKFLHYYLASKQDYFQRLANEFTKMPQL 367

Query: 358 KFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           K      LP+ +PP++ Q +I  +++  +   + L   I   I   K+     R   + 
Sbjct: 368 KVSHTDNLPIPLPPLEVQREIVKILDDFSTLTEDLSSGIPAEIAARKKQYEYYRDKLLT 426


>gi|94266628|ref|ZP_01290308.1| hypothetical protein MldDRAFT_3372 [delta proteobacterium MLMS-1]
 gi|93452747|gb|EAT03290.1| hypothetical protein MldDRAFT_3372 [delta proteobacterium MLMS-1]
          Length = 348

 Score = 91.4 bits (225), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 38/196 (19%), Positives = 72/196 (36%), Gaps = 4/196 (2%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIV 286
            +P+ W                        +   Y     +          E   + Q+V
Sbjct: 4   ELPEGWVSNTLCQFTQSRGSSINPAKFPAEIFELYSVPSYETGVPERVSGMEIGSSKQVV 63

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP-HGIDSTYLAWLMRSYDLCKV 345
            P  ++   I+ + ++  + ++Q   R I ++ ++   P  G++  +L + ++   +   
Sbjct: 64  VPNSVLLCKINPRINRSWVVASQSDFRQIASTEWIVFPPSEGVEPKFLCFFLKQNAVRDF 123

Query: 346 FYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
                SG+      +K   +K  P  V P+ EQ  I   I    AR+D     + +   L
Sbjct: 124 LAQNVSGVGGSLMRVKPSTLKGHPFPVAPLNEQRRIVEKIETLFARLDKGEAALREVQKL 183

Query: 403 LKERRSSFIAAAVTGQ 418
           L   R S + AAVTGQ
Sbjct: 184 LASYRQSVLKAAVTGQ 199


>gi|146281850|ref|YP_001172003.1| type I restriction-modification system, S subunit [Pseudomonas
           stutzeri A1501]
 gi|145570055|gb|ABP79161.1| type I restriction-modification system, S subunit [Pseudomonas
           stutzeri A1501]
          Length = 527

 Score = 91.4 bits (225), Expect = 3e-16,   Method: Composition-based stats.
 Identities = 81/483 (16%), Positives = 150/483 (31%), Gaps = 90/483 (18%)

Query: 2   KHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTG 61
              +A P+  +S   +I  +P  W    +   T++          D +   +   +   G
Sbjct: 65  AKRQALPEVCESEQPYI--LPNGWAWGRLGDVTEIL---------DSLRRPVTKQDRKPG 113

Query: 62  KYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRK----AIIADFDGICSTQFLVLQPK 117
            Y P  G S   D  +  IF +  +L G+ G         A         +    VL+PK
Sbjct: 114 PY-PYYGASGVVDYVSAYIFDEPLVLVGEDGAKWGVGERTAFSITGKTWVNNHAHVLRPK 172

Query: 118 DVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
                +   +L+     Q +     G T+   +   + +I +P+PPLAEQ  I  K+   
Sbjct: 173 R--DAVCDDYLVISLTAQDLSQFITGMTVPKLNQARLTSIGIPLPPLAEQHRIVAKVDEL 230

Query: 178 TVRID-----------------------------------------TLITERIRFIELLK 196
               D                                                     + 
Sbjct: 231 MALCDRLEAQQADAESAHALLVQALLHSLTQAADAEDFAASWQRLAEHFHTLFTTESSID 290

Query: 197 EKKQALVSYIVTKGLNPDVK--------MKDSGIEWVGLVPDHWEVKPFF-------ALV 241
             KQ L+   V   L P           ++   +E +                       
Sbjct: 291 ALKQTLLQLAVMGKLVPQDPNDEPASELLQRIAVERLDREGSRRSKSQVELREIDGSEKK 350

Query: 242 TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKP-------ESYETYQIVDPGEIVFR 294
            EL      +    I+S+S G+ +   +    G  P         +   Q V+   +V  
Sbjct: 351 FELPAGWEWVRLQQIVSVSSGDGLVSAKMNTEGSVPVYGGNGVTGHHDRQNVEKETLVIG 410

Query: 295 FIDLQNDKRSL--RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
            +        L   SA V +  +I    +      ID ++L WL++  +L +   A    
Sbjct: 411 RVGYYCGSIHLTPASAWVTDNALI----VRFSERNIDKSFLFWLLKGTNLKEQENA---T 463

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
            +  +    +  + + +PP+ EQ  I   +N      D L  ++ Q+  L ++  ++ + 
Sbjct: 464 AQPVISGRKIYPIVLAIPPLAEQRRIVAKLNQLMVLCDQLKTRLTQARRLNEQLATALVE 523

Query: 413 AAV 415
            AV
Sbjct: 524 QAV 526


>gi|94266646|ref|ZP_01290324.1| Restriction modification system DNA specificity domain [delta
           proteobacterium MLMS-1]
 gi|93452717|gb|EAT03266.1| Restriction modification system DNA specificity domain [delta
           proteobacterium MLMS-1]
          Length = 344

 Score = 91.4 bits (225), Expect = 3e-16,   Method: Composition-based stats.
 Identities = 33/184 (17%), Positives = 64/184 (34%), Gaps = 9/184 (4%)

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFI 296
               +  +  K    +ES I  +   N+      + +       E   +V+  +I+  + 
Sbjct: 18  LGEFINGVAFKPADWVESGIPIIRIQNLTDPD--KPLNRTEREVEDKYVVEHNDILVSWS 75

Query: 297 DLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA--MGSGLR 354
              +  R         R  +      V P+    T   +      + ++ ++  +     
Sbjct: 76  ATLDAFR-----WRGPRAYVNQHIFKVVPNPELDTGFVFYALKESIRELVHSEHLHGTTM 130

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAA 414
           + +  +     P  +PP+ EQ  I   I    AR+D     + +   LL   R S + AA
Sbjct: 131 KHINRKPFLAHPRALPPLNEQRRIVEKIETLFARLDKGEAALREVQKLLASYRQSVLKAA 190

Query: 415 VTGQ 418
           VTGQ
Sbjct: 191 VTGQ 194



 Score = 70.6 bits (171), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 49/333 (14%), Positives = 100/333 (30%), Gaps = 42/333 (12%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +P  W +  +    +   G   +    +   G+  +         K  N  + +     
Sbjct: 5   DLPTGWVMANVDALGEFINGVAFKPADWVES-GIPIIRIQNLTDPDKPLNRTEREVEDKY 63

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           +     IL       L            +     + P   L      + L   + + + +
Sbjct: 64  VVEHNDILVSWS-ATLDAFRWRGPRAYVNQHIFKVVPNPELDTGFVFYALKESIRELVHS 122

Query: 140 IC-EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
               G TM H + K     P  +PPL EQ  I EKI     R+D          +LL   
Sbjct: 123 EHLHGTTMKHINRKPFLAHPRALPPLNEQRRIVEKIETLFARLDKGEAALREVQKLLASY 182

Query: 199 KQALVSYIVTKGLNPDVK---------------------------------MKDSGIEWV 225
           +Q+++   VT  L  D +                                         +
Sbjct: 183 RQSVLKAAVTGQLTADWRAENAHRLEPGRDLLTRILQTRRDTWQGRGKYKEPTTPDTTNL 242

Query: 226 GLVPDHWEVKPFFALVTELNRKNTKLIESN---ILSLSYGNIIQK-LETRNMGLKPESYE 281
             +P+ W       + + ++  ++    ++   +  L  GNI+   L+ RN    P+ + 
Sbjct: 243 PELPEGWVWATVDQVSSSVDYGSSAKCTTDAIGVPVLRMGNIVGGTLDLRNFKYLPDDHS 302

Query: 282 TYQ--IVDPGEIVFRFIDLQNDKRSLRSAQVME 312
            +   +++  +++F   +           Q  E
Sbjct: 303 EFPKLLLESRDLLFNRTNSAELVGKTAVYQGPE 335



 Score = 41.7 bits (96), Expect = 0.22,   Method: Composition-based stats.
 Identities = 8/98 (8%), Positives = 26/98 (26%), Gaps = 6/98 (6%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQS 73
           +  +P+ W    + + +      +S         +  + + ++  GT             
Sbjct: 242 LPELPEGWVWATVDQVSSSVDYGSSAKCTTDAIGVPVLRMGNIVGGTLDLRNFKYLPDDH 301

Query: 74  DTSTVSIFAKGQILYGKLGP--YLRKAIIADFDGICST 109
                 +     +L+ +      + K  +       S 
Sbjct: 302 SEFPKLLLESRDLLFNRTNSAELVGKTAVYQGPESVSN 339


>gi|67920713|ref|ZP_00514232.1| Restriction modification system DNA specificity domain
           [Crocosphaera watsonii WH 8501]
 gi|67856830|gb|EAM52070.1| Restriction modification system DNA specificity domain
           [Crocosphaera watsonii WH 8501]
          Length = 563

 Score = 91.4 bits (225), Expect = 3e-16,   Method: Composition-based stats.
 Identities = 74/480 (15%), Positives = 139/480 (28%), Gaps = 94/480 (19%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESG----KDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           +P  W+ V +   T L T     +       + ++ ++D+ SG          S ++   
Sbjct: 85  LPIGWEWVRLDDITLLITDGAHHTPTYRFSGVPFLSVKDISSGFINLANTRFISEETHQK 144

Query: 77  TVSIFAK--GQILYGKLGPYLRKAIIA---DFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
            +         IL  K+       +I    +F    S   L      +    L+  + S 
Sbjct: 145 LIKRCHPEFNDILLTKVETTGIAKVIDIDIEFSIFVSLALLKFNKSLIYTYYLELLINSP 204

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV------------ 179
            V ++     +G    +   K I N   P+PPL EQ  I +K+                 
Sbjct: 205 LVKEKSAKNTQGVGNKNLVLKHIKNFVTPLPPLNEQHRIVKKVAQLMKYCDELENKKTEQ 264

Query: 180 ----------------------------RIDTLITERIRFIELLKEKKQALVSYIVTKGL 211
                                       +I           E +K+ +Q ++   V   L
Sbjct: 265 KKQLILLGETATNKLTKTKEEDFKNNWQQIQENFELIYSTPENIKQLRQTILQLAVMGKL 324

Query: 212 NPDVKMKD-------------------------------SGIEWVGLVPDHWEVKPFFAL 240
            P  K  +                               +  E    +P  WE      +
Sbjct: 325 VPQDKSDEPASILLEKIKSEKAKLVKDKKIKKSKPLPPITDDEIPYNLPVGWEWVRLGNI 384

Query: 241 VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQN 300
           V  +        +           +     +    K E ++T+         F   D+  
Sbjct: 385 VNFIGGSQPPKKKFIYHEEKGYTRL----IQIRDFKSEEFKTFVPNQYANRPFSKDDVMI 440

Query: 301 DKRSLRSAQVME--RGIITSAYMAVKPHG--IDSTYLAWLMRSYDLCKVFYAMG--SGLR 354
            +      Q++    G    A M   P    I   YL +L++   + K+  A    +  +
Sbjct: 441 GRYGPPVFQILRGLEGTYNVALMKADPIHLLISKDYLYYLLQEPRIQKIVIAESERTAGQ 500

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAA 414
             ++ E +    + +P + EQ  I   ++      D L +++ Q I    E R   I  A
Sbjct: 501 TGVRKELINAFVIGLPSLNEQHRIVKKVDQLMKYCDDLEQQLTQGI----EYRKKLIQTA 556



 Score = 66.7 bits (161), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 30/192 (15%), Positives = 58/192 (30%), Gaps = 8/192 (4%)

Query: 220 SGIEWVGLVPDHWEVKPFFAL---VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK 276
           +  E    +P  WE      +   +T+          S +  LS  +I            
Sbjct: 77  TDDEIPYNLPIGWEWVRLDDITLLITDGAHHTPTYRFSGVPFLSVKDISSGFINLANTRF 136

Query: 277 PESYETYQIVDPGEIVFRFIDLQ----NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
                  +++      F  I L          +    +     ++ A +      I + Y
Sbjct: 137 ISEETHQKLIKRCHPEFNDILLTKVETTGIAKVIDIDIEFSIFVSLALLKFNKSLIYTYY 196

Query: 333 LAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
           L  L+ S  + +       G+  ++L  + +K     +PP+ EQ  I   +       D 
Sbjct: 197 LELLINSPLVKEKSAKNTQGVGNKNLVLKHIKNFVTPLPPLNEQHRIVKKVAQLMKYCDE 256

Query: 392 LVEKIEQSIVLL 403
           L  K  +    L
Sbjct: 257 LENKKTEQKKQL 268



 Score = 53.6 bits (127), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 29/191 (15%), Positives = 62/191 (32%), Gaps = 5/191 (2%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVE-SGTGKYLPKDGNSRQSDTSTVS 79
           +P  W+ V +        G      K I +             +  ++  +   +     
Sbjct: 372 LPVGWEWVRLGNIVNFIGGSQPPKKKFIYHEEKGYTRLIQIRDFKSEEFKTFVPNQYANR 431

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL---LSIDVTQR 136
            F+K  ++ G+ GP + +  +   +G  +   +   P  +L      +            
Sbjct: 432 PFSKDDVMIGRYGPPVFQI-LRGLEGTYNVALMKADPIHLLISKDYLYYLLQEPRIQKIV 490

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           I      A  +    + I    + +P L EQ  I +K+       D L  +  + IE  K
Sbjct: 491 IAESERTAGQTGVRKELINAFVIGLPSLNEQHRIVKKVDQLMKYCDDLEQQLTQGIEYRK 550

Query: 197 EKKQALVSYIV 207
           +  Q  +  ++
Sbjct: 551 KLIQTAIYQLL 561


>gi|18765815|gb|AAL78770.1|AF326620_1 JHP1422-like protein [Helicobacter pylori]
          Length = 370

 Score = 91.4 bits (225), Expect = 3e-16,   Method: Composition-based stats.
 Identities = 56/400 (14%), Positives = 123/400 (30%), Gaps = 39/400 (9%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           P +W+ V +     +  G          Y   +  +     Y            S+  I 
Sbjct: 7   PSNWQKVRLGDIFFITAGGDLSK---PHYSNTKQSDFNYPIYSNAIEKKGLYGYSSFFII 63

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
               I     G     A   D+  +   + LVLQPK    +       +  +  +++   
Sbjct: 64  KNKSITITSRGTI-GVAFFRDYPYVPIGRLLVLQPKISNIDCRF---YAEYINSKVKFNT 119

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
           E  T+       +    +P+PPL EQ+ I   +      + +L    ++   + K     
Sbjct: 120 EQTTIPQLTIPKVALCEIPLPPLNEQIAIANVLSDVDRYLYSLDALILKKESVKKALSFE 179

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
           L+S                  + +      W+      +++        +  +  L   +
Sbjct: 180 LLSQ----------------RKRLKGFNQAWQRVRLGDILSYEQPTKFLVATTQYLQKGF 223

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
             I+   +T  +G   + +  Y  +     V  F D   D + +         + +SA  
Sbjct: 224 TPILTAGKTFILGYTNDKHGIYTNIP----VIIFDDFTTDSKMV----NFPFKVKSSAIK 275

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
            +     +   L ++                  +    ++     +L+PP+ EQ  I N+
Sbjct: 276 ILSLRDNNQADLKYI----YEKLTLLKHQVTDHKRYWIDEFSNFEILLPPLNEQIAIANI 331

Query: 382 INVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           ++     I  L  K  Q     +  + +     ++ +I +
Sbjct: 332 LSDLDNEIIGLKNKKRQ----FENIKKALNHDLMSAKIRV 367



 Score = 56.7 bits (135), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 25/201 (12%), Positives = 57/201 (28%), Gaps = 16/201 (7%)

Query: 228 VPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVD 287
            P +W+      +       +      +    S  N                Y ++ I+ 
Sbjct: 6   TPSNWQKVRLGDIFFITAGGDLSKPHYSNTKQSDFNYPIYSNAIEKKGLY-GYSSFFIIK 64

Query: 288 PGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW--LMRSYDLCKV 345
              I               +       +     + ++P   +     +   + S    KV
Sbjct: 65  NKSITITSRGTIG-----VAFFRDYPYVPIGRLLVLQPKISNIDCRFYAEYINS----KV 115

Query: 346 FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
            +         L    V    + +PP+ EQ  I NV++     +  L   I +     + 
Sbjct: 116 KFNTEQTTIPQLTIPKVALCEIPLPPLNEQIAIANVLSDVDRYLYSLDALILKK----ES 171

Query: 406 RRSSFIAAAVTGQIDLRGESQ 426
            + +     ++ +  L+G +Q
Sbjct: 172 VKKALSFELLSQRKRLKGFNQ 192


>gi|325682981|ref|ZP_08162497.1| type I restriction-modification system S subunit [Lactobacillus
           reuteri MM4-1A]
 gi|324977331|gb|EGC14282.1| type I restriction-modification system S subunit [Lactobacillus
           reuteri MM4-1A]
          Length = 365

 Score = 91.4 bits (225), Expect = 3e-16,   Method: Composition-based stats.
 Identities = 52/395 (13%), Positives = 126/395 (31%), Gaps = 40/395 (10%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
            +K       G ++   KD+         + +G+Y P  G +          + +  +  
Sbjct: 2   KLKDVC--IKGTSNIRQKDV---------NDSGRY-PVYGAAGPVGFMNSFQYDEPYVGV 49

Query: 89  GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSH 148
            K G  + +A     +         L PK  +      + +S      +E    GAT+ H
Sbjct: 50  VKDGAGIGRATYLPSNSSIIGTMQALIPKKNVLPKYLYYAVSS---MHLEKYYSGATIPH 106

Query: 149 ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVT 208
             +K   +    +    EQ      II     ++ +I+ + + +  L E  +A     V 
Sbjct: 107 IYFKNYKHERFVLVSKKEQEQ----IIWRFSLLEKMISNKQQQLLKLDELIKA---RFVE 159

Query: 209 KGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKL 268
              +P    K      +  + D                      +  I  +   N+    
Sbjct: 160 MFGDPISNKKSWKKRLLNDLVDKIGS------GATPKGGKESYQDHGISFIRSMNVHDGY 213

Query: 269 ETRN----MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS-AYMAV 323
                   +        +  IV   ++          +  +    ++   +    + +  
Sbjct: 214 FNYKDLAYINSTQAKQLSNVIVQSQDVFINITGASVARSCIVPDDILPARVNQHVSIIRC 273

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYA---MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
           K   ++  ++  L  +    ++  +    G   RQ++  + ++ L +++PPI  Q +  N
Sbjct: 274 KSDVLNPIFINNLFLNDSFKRILLSIGLSGGATRQAITKKQLEMLKIILPPISLQNEYAN 333

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            ++    ++D     I++S+   ++   S +    
Sbjct: 334 FVH----QVDKSKVVIQKSLDETQKLYDSLMQEYF 364


>gi|259907262|ref|YP_002647618.1| Type I restriction modification DNA specificity domain protein
           [Erwinia pyrifoliae Ep1/96]
 gi|224962884|emb|CAX54365.1| Type I restriction modification DNA specificity domain protein
           [Erwinia pyrifoliae Ep1/96]
          Length = 437

 Score = 91.4 bits (225), Expect = 3e-16,   Method: Composition-based stats.
 Identities = 48/429 (11%), Positives = 123/429 (28%), Gaps = 64/429 (14%)

Query: 51  IGLEDVESGTGKYLPK-DGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADF---DGI 106
           I  +++ +   K           +          G IL    G  + +  +A        
Sbjct: 2   IRSQNIYNDGFKNSGLAYITEDAAKKLNNVEVQDGDILLNITGDSVARVCLAPEGHLPAR 61

Query: 107 CSTQ--FLVLQPKDVLPELLQGWLLSIDVTQRIEAICE-GATMSHADWKGIGNIPMPIPP 163
            +     +    K+     ++ +L S      +  I   GAT +      I ++ +  P 
Sbjct: 62  VNQHVAIIRPNSKEFDARFIRYFLASPAQQNVLLTIASAGATRNALTKSNIESLLICKPC 121

Query: 164 LAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL--------------------- 202
           L  Q  I +++ +   +I +         ++ +   ++                      
Sbjct: 122 LKNQKWIADQLESLDKKIHSNQQINQTLEQMAQALFKSWFVDFEPVKAKIALLEAGGSQQ 181

Query: 203 ------VSYIVTKGLNPDVKMKDSGIE-------------------WVGLVPDHWEVKPF 237
                 ++ I  K  +     K    E                    +G +P  W     
Sbjct: 182 EATLAAMTAISGKDADSLEVFKHKQPEKYAELKATAELFPSAMQESELGEIPQGWTNSEI 241

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI-------VDPGE 290
              +           E         N     +  N+  K       +I       +  G 
Sbjct: 242 GEEIDIAGGATPSTKEPKFWENGDINWTTPKDLSNLQDKILIKTDRKITDRGLAKISSGL 301

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG 350
           +    + + +       A       I   Y+A+K +   +        ++++ ++     
Sbjct: 302 LAIDTVLMSSRAPVGYLALTKIPVAINQGYIAMKCNYDLNPEFVLQWCNHNMPEIISRAS 361

Query: 351 SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
                 +  ++   +P++ P       + ++   E   + +L+EK  +   +L++ R + 
Sbjct: 362 GTTFAEISKKNFNPIPLIKPT----KKMVDIYTREVRSLYLLIEKNVRKTEILQQLRDTL 417

Query: 411 IAAAVTGQI 419
           +   ++G+I
Sbjct: 418 LPKLLSGEI 426



 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 27/197 (13%), Positives = 59/197 (29%), Gaps = 12/197 (6%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKY---LPKD 67
           +G IP+ W    I     +  G T  + +       DI +   +D+ +   K      + 
Sbjct: 229 LGEIPQGWTNSEIGEEIDIAGGATPSTKEPKFWENGDINWTTPKDLSNLQDKILIKTDRK 288

Query: 68  GNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW 127
              R     +  + A   +L     P      +       +  ++ ++    L       
Sbjct: 289 ITDRGLAKISSGLLAIDTVLMSSRAPV-GYLALTKIPVAINQGYIAMKCNYDLN-PEFVL 346

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
                    I +   G T +    K    IP+  P      +   ++ +  + I+  + +
Sbjct: 347 QWCNHNMPEIISRASGTTFAEISKKNFNPIPLIKPTKKMVDIYTREVRSLYLLIEKNVRK 406

Query: 188 RIRFIELLKEKKQALVS 204
                +L       L+S
Sbjct: 407 TEILQQLRDTLLPKLLS 423


>gi|188496140|ref|ZP_03003410.1| putative type I restriction-modification system, S subunit
           [Escherichia coli 53638]
 gi|188491339|gb|EDU66442.1| putative type I restriction-modification system, S subunit
           [Escherichia coli 53638]
          Length = 588

 Score = 91.4 bits (225), Expect = 3e-16,   Method: Composition-based stats.
 Identities = 54/494 (10%), Positives = 129/494 (26%), Gaps = 100/494 (20%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK---------DIIYI 51
           +K  K  P+   S  +    +P+ W+   +   T    G+T  +            I ++
Sbjct: 83  IKKQKPLPEI--SEEEKPFELPEGWEWARLPDITYYRVGKTPPTKDLSFWETSTTGIPWV 140

Query: 52  GLEDVESGTGKYLPKDGNSR--QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICST 109
            + D+             S+  Q+D           IL       + K  I   D   + 
Sbjct: 141 SISDLNHNGIVNATSKHVSKKAQADIFKYLPIPAETILMS-FKLTVGKTSILKTDAYHNE 199

Query: 110 QFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQV- 168
             + +     + +        +          +       +   +  + +P+P   EQ  
Sbjct: 200 AIISINEMKGIHKNY--LFHILPFIVLQGNTKQAIMGHTLNSDSLSMLLLPVPCEKEQCR 257

Query: 169 ----------------------------------------LIREKIIAETVRIDTLITER 188
                                                      E++     RI+      
Sbjct: 258 ITYKYEELMSLCDQLEQQSLTSLDAHQQLVETLLGTLTDSQNAEELAENWARINEHFDTL 317

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKD----------------------------- 219
                 +   KQ ++   V   L P     +                             
Sbjct: 318 FTTETSVDALKQTILQLAVMGKLVPQDPNDEPASELLKRIAQEKAQLVKEGKIKKQKPLP 377

Query: 220 --SGIEWVGLVPDHWEVKPFFALVT----ELNRKNTKLIESNILSLSYGNIIQKLETRNM 273
             S  E    +P+ WE      L         +   + ++++   L   N+ +     + 
Sbjct: 378 PISDEEKPFELPEGWEWCRIDDLTFVSGGIQKQPKRRPVKNHFPYLRVANVQRGDINIDK 437

Query: 274 GLKPE---SYETYQIVDPGEIVF--RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
             + E       +  ++  +I+            R       +E+ +  +  + V+    
Sbjct: 438 LERFELEPHELAFWSLEKNDILIVEGNGSADEIGRCAIWHAPIEKCVYQNHLIRVRGIIE 497

Query: 329 -DSTYLAWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
               ++A  + S    K    +   +    +L    ++ + + +PP+ +Q  I + I   
Sbjct: 498 GYQEFIALYLNSPSGIKEMQRLAVTTSGLYNLSVGKIRGITIPLPPLNQQNLILSRIREY 557

Query: 386 TARIDVLVEKIEQS 399
               + L    + +
Sbjct: 558 ILVCENLKTSTQSA 571



 Score = 57.1 bits (136), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 28/200 (14%), Positives = 57/200 (28%), Gaps = 20/200 (10%)

Query: 20  AIPKHWKVVPIKRFTKLNTG-----RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
            +P+ W+   I   T ++ G     +         Y+ + +V+ G       +    +  
Sbjct: 387 ELPEGWEWCRIDDLTFVSGGIQKQPKRRPVKNHFPYLRVANVQRGDINIDKLERFELEPH 446

Query: 75  TSTVSIFAKGQILY----GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELL----QG 126
                   K  IL     G      R AI       C  Q  +++ + ++          
Sbjct: 447 ELAFWSLEKNDILIVEGNGSADEIGRCAIWHAPIEKCVYQNHLIRVRGIIEGYQEFIALY 506

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
                 + +        + + +     I  I +P+PPL +Q            RI   I 
Sbjct: 507 LNSPSGIKEMQRLAVTTSGLYNLSVGKIRGITIPLPPLNQQ-------NLILSRIREYIL 559

Query: 187 ERIRFIELLKEKKQALVSYI 206
                    +  +Q  +   
Sbjct: 560 VCENLKTSTQSAQQTQLHLA 579



 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 25/201 (12%), Positives = 58/201 (28%), Gaps = 11/201 (5%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE--------SNILSLSYGNIIQKLETR 271
           S  E    +P+ WE      +      K     +        + I  +S  ++       
Sbjct: 93  SEEEKPFELPEGWEWARLPDITYYRVGKTPPTKDLSFWETSTTGIPWVSISDLNHNGIVN 152

Query: 272 NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST 331
                        I     I    I +       +++ +        A +++  + +   
Sbjct: 153 ATSKHVSKKAQADIFKYLPIPAETILMSFKLTVGKTSILKTDAYHNEAIISI--NEMKGI 210

Query: 332 YLAWLMRSYDLCKVFYAMGSGLRQS-LKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
           +  +L        +       +    L  + +  L + VP  KEQ  IT       +  D
Sbjct: 211 HKNYLFHILPFIVLQGNTKQAIMGHTLNSDSLSMLLLPVPCEKEQCRITYKYEELMSLCD 270

Query: 391 VLVEKIEQSIVLLKERRSSFI 411
            L ++   S+   ++   + +
Sbjct: 271 QLEQQSLTSLDAHQQLVETLL 291


>gi|296876904|ref|ZP_06900950.1| type I restriction/modification specificity protein [Streptococcus
           parasanguinis ATCC 15912]
 gi|296432096|gb|EFH17897.1| type I restriction/modification specificity protein [Streptococcus
           parasanguinis ATCC 15912]
          Length = 417

 Score = 91.0 bits (224), Expect = 3e-16,   Method: Composition-based stats.
 Identities = 48/419 (11%), Positives = 121/419 (28%), Gaps = 41/419 (9%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKD---------IIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           W++  +      + G++    ++            +   DV++        D        
Sbjct: 6   WEITSLSELGTFSRGKSKHRPRNDIKLFEGGTYPLVQTGDVKAANLYITKNDSYYNDFGL 65

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
               ++  G +    +   + +  I  +        +           L  +     + +
Sbjct: 66  KQSKLWPAGTLCIT-IAANIAETAILSYPMCFPDSIVGFNANPEKSSELFVYYFFEYIKK 124

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            I+    G+   + +   +  + + +P    Q  I E +      ID  I    +  + L
Sbjct: 125 EIQKSASGSIQDNINIDYLSKMRIKVPEKDYQDKIVEVL----SSIDKKILLNNQINQEL 180

Query: 196 KEKKQALVSYIVTKGLNPDV---KMKDSG------IEWVGLVPDHWEVKPFFALVTELNR 246
           +   + L  Y   +   PD      K SG       E    +P+ W V+      +++  
Sbjct: 181 EGMAKTLYDYWFVQFDFPDQNGKPYKSSGGKMVYNPELKREIPEGWGVETLRDFESKIIT 240

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET----------YQIVDPGEIVFRFI 296
             T    ++         I   + R       + E+           + +  G +    I
Sbjct: 241 GKTPSRANSDNFGGKIPFITIGDIRGNTFIYSTSESLTDLGASVQQNKYLPEGSLCVSCI 300

Query: 297 DLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS 356
               +           + I +     V        YL + +++Y       A       +
Sbjct: 301 ATVGEIGFTTEWSHTNQQINS----IVFEDENHRYYLYFALKNYFENAKASAKTGNTFAN 356

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           +  ED   + +++P      +I N  +  +      ++ ++     L + R   +   +
Sbjct: 357 MNKEDFSGIRIILPS----KEIKNNFHEISEPYFAQIKCLQGQNQELTQFRDWLLPMLM 411



 Score = 64.4 bits (155), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 28/196 (14%), Positives = 61/196 (31%), Gaps = 9/196 (4%)

Query: 20  AIPKHWKVVPIKRF-TKLNTGRTSES------GKDIIYIGLEDVESGTGKY-LPKDGNSR 71
            IP+ W V  ++ F +K+ TG+T         G  I +I + D+   T  Y   +     
Sbjct: 221 EIPEGWGVETLRDFESKIITGKTPSRANSDNFGGKIPFITIGDIRGNTFIYSTSESLTDL 280

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
            +         +G +    +   + +          + Q   +  +D        + L  
Sbjct: 281 GASVQQNKYLPEGSLCVSCI-ATVGEIGFTTEWSHTNQQINSIVFEDENHRYYLYFALKN 339

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
                  +   G T ++ + +    I + +P    +    E       +I  L  +    
Sbjct: 340 YFENAKASAKTGNTFANMNKEDFSGIRIILPSKEIKNNFHEISEPYFAQIKCLQGQNQEL 399

Query: 192 IELLKEKKQALVSYIV 207
            +        L++  V
Sbjct: 400 TQFRDWLLPMLMNRQV 415


>gi|283458001|ref|YP_003362608.1| restriction endonuclease S subunit [Rothia mucilaginosa DY-18]
 gi|283134023|dbj|BAI64788.1| restriction endonuclease S subunit [Rothia mucilaginosa DY-18]
          Length = 390

 Score = 91.0 bits (224), Expect = 3e-16,   Method: Composition-based stats.
 Identities = 50/410 (12%), Positives = 118/410 (28%), Gaps = 63/410 (15%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSE---------SGKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           P   +  P+     + +G             +  +I +  + D+     +      N+  
Sbjct: 17  PDGVEYRPLGEIADVTSGYVFPVKYQGNEKSAEDNIPFYKVSDMNLPGNEMFMTSSNNYV 76

Query: 73  SDTST----VSIFAKGQILYGKLGPYL--RKAIIADFDGICSTQFLVLQPKDVLPELLQG 126
           S  S      S+     I++ K+G  +   K  I     I     + +  + V+      
Sbjct: 77  SAESAEEMRASLAQPESIIFPKIGAAIATNKKRILTEKSIVDNNVMAVTARSVINSKFLY 136

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           ++  +     +        +       +    +P+PP+  Q  I E +   T     L  
Sbjct: 137 YV--LSGFDLMSWSMGAGAVPSIKKSVVVKHEVPVPPMEVQEAIVEILDKFTNLEAELEA 194

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
           E        +  + +L   +                             P  +     N 
Sbjct: 195 ELEARTLQYEYYRDSLFEAL------------------------DCPRVPLDSFAKIKNG 230

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
           K  K   +  + +             +        T  I   G +            +L 
Sbjct: 231 KTYKDFGAGNIPV----YGSGGIMTYVDRSSYDKPTVLIPRKGSL-----------GNLF 275

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLP 366
             +     + T  Y  +    +   +L + +++  L  +     +G   SL  + + ++ 
Sbjct: 276 YLEEPFWNVDTIFYTEIDEEQVIPKFLYYFLKTAHLEDL---NTAGGVPSLTQKVLNKVL 332

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           + VP ++EQ  I ++++   A    L E +   +   +      R   ++
Sbjct: 333 IPVPSLEEQQRIVDILDRFDALTSSLSEGLPAELTARRSQYEYYRDQLLS 382


>gi|312887840|ref|ZP_07747427.1| restriction modification system DNA specificity domain protein
           [Mucilaginibacter paludis DSM 18603]
 gi|311299659|gb|EFQ76741.1| restriction modification system DNA specificity domain protein
           [Mucilaginibacter paludis DSM 18603]
          Length = 546

 Score = 91.0 bits (224), Expect = 3e-16,   Method: Composition-based stats.
 Identities = 60/428 (14%), Positives = 135/428 (31%), Gaps = 46/428 (10%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
             W  +P     +     T  + K           +G    + +           V++  
Sbjct: 18  SGWLTIPFGESIEKTGTFTKLTSKQYN-------ATGNYPVVDQGETFISGYIDDVNLIY 70

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           KG +     G + R     +F          +            +     +         
Sbjct: 71  KGDLPVIIFGDHTRFVKYINFKFAVGADGTKILKPINALNEKFFYYYIKSLNIPSLGYSR 130

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
             ++       +  + +P+P ++EQ  I  K+      IDTL  +  R  EL+K+ +  L
Sbjct: 131 HFSI-------LKTVKIPVPSISEQHRIVAKLDKAFDNIDTLKGKIERIPELIKQFRLQL 183

Query: 203 VSYIVTKGLNPDVKMKDSGIEW-------------------------VGLVPDHWEVKPF 237
           + Y ++  L  D +  +                              +  +P  W     
Sbjct: 184 LDYAISGKLTADWRKNNIQDANDIVKNLKQRTNDSKRLDFFEDIEVTLFDIPKQWTFAYL 243

Query: 238 FALVTELNRKNTKLIES--NILSLSYGNIIQK-LETRNMGLKPESYE-TYQIVDPGEIVF 293
            AL  ++    +   E+  +I  L  GN+    ++  ++    +  E     ++ G+++F
Sbjct: 244 GALSEKITYGTSVKSENEGDIPVLRMGNLQNGQIDWSDLKYTSDPEELKKYSLNRGDVLF 303

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI-DSTYLAWLMRSYDLCKVFYAMGSG 352
              +           +   + I     M +      +S YL +L+ S       + + + 
Sbjct: 304 NRTNSPELVGKTSIYESDNQAIYAGYLMKIWNKPELNSYYLNYLLNSAYARNWCWQVKTD 363

Query: 353 L--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
              + ++  + + +  V +PP  EQ  I   +N      ++LV + E   + +       
Sbjct: 364 GVSQSNINAQKLSKFVVPLPPPDEQTIIVVKLNKLFESAEILVNQFESLRLKINALPQVL 423

Query: 411 IAAAVTGQ 418
           +  A  G+
Sbjct: 424 LQKAFRGE 431


>gi|164551512|gb|ABY60973.1| Sau1hsdS1 [Staphylococcus aureus]
          Length = 394

 Score = 91.0 bits (224), Expect = 3e-16,   Method: Composition-based stats.
 Identities = 68/398 (17%), Positives = 142/398 (35%), Gaps = 34/398 (8%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W+    K  +        +         L     G G  +PK    + SD +       
Sbjct: 20  EWEE---KSISSFLKESKIKGSNGSHAKKLTVKLWGKG-VVPKKETFKGSDNTQYYKRKA 75

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI--- 140
           GQ++YGKL        I           +     D +    +  L  I +    +     
Sbjct: 76  GQLMYGKLDFLNCAFGIVPDSLNNYESTIDSPSFDFINGDSKFLLERIKLKSFYKKFGDI 135

Query: 141 -CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
                     +     ++P+  P   EQ+ I E       ++D  I  + + +ELL+++K
Sbjct: 136 ANGSRKAKRINQDTFLSLPVFAPKYDEQLRIGEF----FSKLDRQIELQKQKLELLQQQK 191

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
           +  +  I ++ L           +  G    HWE       + E N ++       +   
Sbjct: 192 KGYMQKIFSQEL--------RFKDENGEDYPHWENSKIEKYLKERNERSD--KGQMLSVT 241

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
               II+  E        ++   Y++V   +I +  + +        +      GI++ A
Sbjct: 242 INSGIIKFSELDRKDNSSKNKSNYKVVRKNDIAYNSMRMWQGASGKSNY----NGIVSPA 297

Query: 320 YMAVKPHGIDSTYL-AWLMRSYDLCKVFYAMGSGLR---QSLKFEDVKRLPVLVPPIKEQ 375
           Y  + P    S+    +  +++ +   F     GL     +LK++ +K + + +P ++EQ
Sbjct: 298 YTVLYPTQNTSSLFIGYKFKTHRMIHKFKINSQGLTSDTWNLKYKQLKNINIDIPVLEEQ 357

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
             I +       ++D+L+ K +  I +L++ + SF+  
Sbjct: 358 EKIGDF----FKKMDILISKQKIKIEILEKEKQSFLQK 391



 Score = 67.5 bits (163), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 26/163 (15%), Positives = 61/163 (37%), Gaps = 7/163 (4%)

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
             + +  +    K      Y     G++++  +D  N    +     +     T    + 
Sbjct: 51  WGKGVVPKKETFKGSDNTQYYKRKAGQLMYGKLDFLNCAFGIVP-DSLNNYESTIDSPSF 109

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ--SLKFEDVKRLPVLVPPIKEQFDITNV 381
                DS +L   ++     K F  + +G R+   +  +    LPV  P   EQ  I   
Sbjct: 110 DFINGDSKFLLERIKLKSFYKKFGDIANGSRKAKRINQDTFLSLPVFAPKYDEQLRIGEF 169

Query: 382 INVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGE 424
                +++D  +E  +Q + LL++++  ++    + ++  + E
Sbjct: 170 ----FSKLDRQIELQKQKLELLQQQKKGYMQKIFSQELRFKDE 208



 Score = 56.3 bits (134), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 34/184 (18%), Positives = 65/184 (35%), Gaps = 9/184 (4%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD-TSTVSIFA 82
           HW+   I+++ K    R+ +       + +  + SG  K+   D     S   S   +  
Sbjct: 215 HWENSKIEKYLKERNERSDKGQM----LSVT-INSGIIKFSELDRKDNSSKNKSNYKVVR 269

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           K  I Y  +  +   +  ++++GI S  + VL P      L  G+            I  
Sbjct: 270 KNDIAYNSMRMWQGASGKSNYNGIVSPAYTVLYPTQNTSSLFIGYKFKTHRMIHKFKINS 329

Query: 143 G---ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
               +   +  +K + NI + IP L EQ  I +      + I     +     +  +   
Sbjct: 330 QGLTSDTWNLKYKQLKNINIDIPVLEEQEKIGDFFKKMDILISKQKIKIEILEKEKQSFL 389

Query: 200 QALV 203
           Q + 
Sbjct: 390 QKMF 393


>gi|113476050|ref|YP_722111.1| restriction modification system DNA specificity subunit
           [Trichodesmium erythraeum IMS101]
 gi|110167098|gb|ABG51638.1| restriction modification system DNA specificity domain
           [Trichodesmium erythraeum IMS101]
          Length = 402

 Score = 91.0 bits (224), Expect = 3e-16,   Method: Composition-based stats.
 Identities = 61/412 (14%), Positives = 134/412 (32%), Gaps = 31/412 (7%)

Query: 25  WKVVPIKRFTKLNTGRTSE-------SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS- 76
           W+ V ++   K+ T  T+        S + I ++ + +++ G            ++D + 
Sbjct: 3   WQRVFVEDVAKIVTKGTTPTSIGFSFSKEGIPFLRVNNIQDGKINLGDVLFIDSKTDQAL 62

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFD--GICSTQF-LVLQPKDVLPELLQGWLLSIDV 133
             S   K  ++    G   + A+I        C+    ++    +V P     WL + D 
Sbjct: 63  ARSRILKKDVIISIAGTIGKTAVIPTNAPAMNCNQALAIIRLHNNVDPYYFNHWLNTGDA 122

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            ++I      AT+S+     I  + +P+PP+ EQ  I   +                  E
Sbjct: 123 FRQITGSKVTATISNLSLGCIKKLKIPLPPIEEQRRIAAILDQADAIRRKRQQAIALTDE 182

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
           L       L S  +    +P +  K   ++ +  V    +              +  + +
Sbjct: 183 L-------LRSTFLEMFGDPVINPKGWEVKKLEEVALKRKGAIKCGPFGSQLLISEFVKD 235

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVD-----PGEIVFRFIDLQNDKRSLRSA 308
              + +   + +QK E      K  + E Y+ +        +++                
Sbjct: 236 G--IPVYGIDNVQKNEFVWAKPKYITTEKYEQLKSFSIQDEDVLISRTGTVGRTCVAPPD 293

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMR-SYDLCKVFYAMG-SGLRQSLKFEDVKRLP 366
                       +++  + +   YL++ +  S  L +    M            ++K L 
Sbjct: 294 IPRSILGPNLLKVSLNTNKMLPKYLSYALNHSNPLIEEIKRMSPGATVAVFNTTNLKALR 353

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           + +P I  Q    N     T  +++  +K    +       +S +  A  GQ
Sbjct: 354 LTIPHINLQSQFVNF----TENVELTKQKESNYLTESNNLFNSLLQRAFKGQ 401



 Score = 50.2 bits (118), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 28/208 (13%), Positives = 63/208 (30%), Gaps = 22/208 (10%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSES------------GKDIIYIGLEDVESGTGKY-LPKDG 68
           PK W+V  ++       G                    I   G+++V+     +  PK  
Sbjct: 199 PKGWEVKKLEEVALKRKGAIKCGPFGSQLLISEFVKDGIPVYGIDNVQKNEFVWAKPKYI 258

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD--FDGICSTQFLVL--QPKDVLPEL- 123
            + + +           +L  + G   R  +        I     L +      +LP+  
Sbjct: 259 TTEKYEQLKSFSIQDEDVLISRTGTVGRTCVAPPDIPRSILGPNLLKVSLNTNKMLPKYL 318

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
                 S  + + I+ +  GAT++  +   +  + + IP +  Q          T  ++ 
Sbjct: 319 SYALNHSNPLIEEIKRMSPGATVAVFNTTNLKALRLTIPHINLQSQFVNF----TENVEL 374

Query: 184 LITERIRFIELLKEKKQALVSYIVTKGL 211
              +   ++        +L+       L
Sbjct: 375 TKQKESNYLTESNNLFNSLLQRAFKGQL 402


>gi|302333477|gb|ADL23670.1| type I restriction modification DNA specificity protein
           [Staphylococcus aureus subsp. aureus JKD6159]
          Length = 412

 Score = 91.0 bits (224), Expect = 3e-16,   Method: Composition-based stats.
 Identities = 48/400 (12%), Positives = 125/400 (31%), Gaps = 20/400 (5%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDI---IYIGLEDVESGTGKYLPKDGNSRQS----DTS 76
            WK   ++   +     T  + +++    ++            +  D             
Sbjct: 20  EWKEKKLEDTLEFIKDGTHGTHENVNNGPWLLSAKNIKNNKIIISSDDRKISESDYKKIY 79

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQ--FLVLQPKDVLPELLQGWLLSIDVT 134
                 KG +L   +G   R AI+ + + I   +   ++          +     +    
Sbjct: 80  KNYKLEKGDLLLTIVGTIGRAAIVKNPNNIAFQRSVAILKTKATYDVGFIFQLFQTKYFK 139

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             +      +         I  I + I  + E+     KI     ++D  I    + +EL
Sbjct: 140 NLLLRKQVVSAQPGLYLGDIRKIKISITNIIEEQ---RKIGIFFSKLDRQIELEEQKLEL 196

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
           L+++K+  +  I ++ L    +  +   +W     +    +         N K  +    
Sbjct: 197 LQQQKKGYMQKIFSQELRFKDENGNDYPKWEEKKIEDIASQ--VYGGGTPNTKIKEFWNG 254

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
           +I  +   ++           K  S  + ++     I    I +       +   V    
Sbjct: 255 DIPWIQSSDVKVNDLILQQCNKFISKNSIELSSAKLIPANSIAIVTRVGVGKLCLVEFDY 314

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-PIK 373
             +  ++++     D  Y  + +  Y + K+   +     + +  +++    + +P  ++
Sbjct: 315 ATSQDFLSLSSLKYDKLYSLYSLL-YTMKKISANLQGTSIKGITKKELLDSIIKIPHNLE 373

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           EQ  I +       +ID  +   +  I +LK  +   +  
Sbjct: 374 EQQKIGD----LFYKIDKYISFNKCKIEMLKSLKQGLLKK 409



 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 21/180 (11%), Positives = 57/180 (31%), Gaps = 5/180 (2%)

Query: 213 PDVKMKDSGIEWVGLVPDHW-EVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETR 271
           P+++  +   EW     +   E        T  N  N   + S     +   II   + +
Sbjct: 10  PELRFPEFEGEWKEKKLEDTLEFIKDGTHGTHENVNNGPWLLSAKNIKNNKIIISSDDRK 69

Query: 272 NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST 331
                 +       ++ G+++   +        +++   +      S  +       D  
Sbjct: 70  ISESDYKKIYKNYKLEKGDLLLTIVGTIGRAAIVKNPNNI--AFQRSVAILKTKATYDVG 127

Query: 332 YLAWLMRSYDLCKVF-YAMGSGLRQSLKFEDVKRLPVLVPP-IKEQFDITNVINVETARI 389
           ++  L ++     +         +  L   D++++ + +   I+EQ  I    +    +I
Sbjct: 128 FIFQLFQTKYFKNLLLRKQVVSAQPGLYLGDIRKIKISITNIIEEQRKIGIFFSKLDRQI 187


>gi|168485625|ref|ZP_02710133.1| type I site-specific deoxyribonuclease chain S [Streptococcus
           pneumoniae CDC1087-00]
 gi|183571135|gb|EDT91663.1| type I site-specific deoxyribonuclease chain S [Streptococcus
           pneumoniae CDC1087-00]
          Length = 426

 Score = 91.0 bits (224), Expect = 3e-16,   Method: Composition-based stats.
 Identities = 66/415 (15%), Positives = 139/415 (33%), Gaps = 64/415 (15%)

Query: 42  SESGKDIIYIGLEDVESGTGKYLPKDG---NSRQSDTSTVSIFAKGQILYGKLGPYLRKA 98
           ++  K   YI    ++        K+    +  Q+ +    + ++  +L+  + PYL+  
Sbjct: 13  NKPEKSFRYIDTSSIDRKKNIINYKNLQYLSPEQAPSRARKLVSQNSVLFSTVRPYLKNI 72

Query: 99  IIA---DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIG 155
            +        I ST F+VL        L   +LLS +   R+     G +    +     
Sbjct: 73  AVVRELKEYLIASTAFIVLDTLLNETYLKY-YLLSDNFINRVNNKSTGTSYPAINDYNFN 131

Query: 156 NIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK----QALVSYIVTKGL 211
            + + +P L+EQ  I E I +   ++D       R  +L KE      ++++ Y +   L
Sbjct: 132 LLLIALPSLSEQQRIVEAIESALEKVDEYAESYNRLEQLDKEFPDKLKKSILQYAMQGKL 191

Query: 212 NPDVKMKDS---------------------------------------GIEWVGLVPDHW 232
                  +S                                         E    +P+ W
Sbjct: 192 VEQDPNDESVEVLLEKIRAEKQKLFEEGKIKKKDLDISIVSQGDDNSYYEEVPCEIPESW 251

Query: 233 EVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL-------KPESYETYQI 285
           E      + + + R  +    +  +         +    ++ L          SY+  ++
Sbjct: 252 EWVRLNDITSYIQRGKSPKYSNISIYPVIAQKCNQWSGFSIDLARFIDPETVHSYQKERL 311

Query: 286 VDPGEIVFRFIDLQNDKR-SLRSAQVMERGIITSA----YMAVKPHGIDSTYLAWLMRSY 340
           +  G++++    L    R ++        G   +      + V    I+  ++   + S 
Sbjct: 312 LRDGDLMWNSTGLGTLGRLAIYHENKNPYGWAVADSHVTVIRVLSGVINCHFIYNFLSSP 371

Query: 341 DLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
            +  V     SG   ++ L  + +K   + +PP+ EQ  I + I    A ID L+
Sbjct: 372 IVQSVIEEKASGSTKQKELLTKTIKEYLIPLPPLPEQSRIVDKIEQFFAHIDALI 426



 Score = 71.4 bits (173), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 28/192 (14%), Positives = 65/192 (33%), Gaps = 7/192 (3%)

Query: 232 WEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEI 291
             +K  +    +   + +             NII     + +  +       ++V    +
Sbjct: 1   MRIKSIYWNFGQNKPEKSFRYIDTSSIDRKKNIINYKNLQYLSPEQAPSRARKLVSQNSV 60

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
           +F  +       ++     ++  +I S    V    ++ TYL + + S +         +
Sbjct: 61  LFSTVRPYLKNIAVVR--ELKEYLIASTAFIVLDTLLNETYLKYYLLSDNFINRVNNKST 118

Query: 352 GLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----R 406
           G    ++   +   L + +P + EQ  I   I     ++D   E   +   L KE     
Sbjct: 119 GTSYPAINDYNFNLLLIALPSLSEQQRIVEAIESALEKVDEYAESYNRLEQLDKEFPDKL 178

Query: 407 RSSFIAAAVTGQ 418
           + S +  A+ G+
Sbjct: 179 KKSILQYAMQGK 190



 Score = 50.6 bits (119), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 30/181 (16%), Positives = 54/181 (29%), Gaps = 15/181 (8%)

Query: 20  AIPKHWKVVPIKRFTK-LNTGRTSESGKDIIYIGLE----DVESGTGKYLPKDGNSRQSD 74
            IP+ W+ V +   T  +  G++ +     IY  +          +              
Sbjct: 246 EIPESWEWVRLNDITSYIQRGKSPKYSNISIYPVIAQKCNQWSGFSIDLARFIDPETVHS 305

Query: 75  TSTVSIFAKGQILYGKL--GPYLRKAIIADF-----DGICSTQFLVLQPKDVLPELLQGW 127
                +   G +++     G   R AI  +        +  +   V++    +      +
Sbjct: 306 YQKERLLRDGDLMWNSTGLGTLGRLAIYHENKNPYGWAVADSHVTVIRVLSGVINCHFIY 365

Query: 128 LLSIDVTQR---IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
                   +    E             K I    +P+PPL EQ  I +KI      ID L
Sbjct: 366 NFLSSPIVQSVIEEKASGSTKQKELLTKTIKEYLIPLPPLPEQSRIVDKIEQFFAHIDAL 425

Query: 185 I 185
           I
Sbjct: 426 I 426


>gi|197121943|ref|YP_002133894.1| restriction modification system DNA specificity domain
           [Anaeromyxobacter sp. K]
 gi|196171792|gb|ACG72765.1| restriction modification system DNA specificity domain
           [Anaeromyxobacter sp. K]
          Length = 364

 Score = 91.0 bits (224), Expect = 3e-16,   Method: Composition-based stats.
 Identities = 54/386 (13%), Positives = 116/386 (30%), Gaps = 40/386 (10%)

Query: 43  ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKA---- 98
              + + ++ +ED+        P           + + FA G +L  K+ P         
Sbjct: 2   SDSEYVSFVPMEDLGITQKYLEPTKERCLSDVIGSYTYFADGDVLLAKITPCFENGKLGI 61

Query: 99  --IIADFDGICSTQFLVLQPKDVLPELL-QGWLLSIDVTQRIEAICEG-ATMSHADWKGI 154
              + +  G  S+++ VL+P+  +       +L              G       + + I
Sbjct: 62  ARGLVNGIGFGSSEYFVLRPQPSVTSEWLYYFLARSAFRAVGATRMTGAVGHKRVEKEFI 121

Query: 155 GNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPD 214
            + P+P+PPL EQ  I   +      +   ++     I        +    +        
Sbjct: 122 ESCPIPVPPLEEQRRITALLDKSFQSLSDALSAAADGIHRADALFDSYRHSVF------- 174

Query: 215 VKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMG 274
                  +   G  P                 +    ++S  + ++  +  Q        
Sbjct: 175 -------VAQKGERPTTTLD------------RIATNLDSKRVPITKADRRQGAFPYYGA 215

Query: 275 LKPESYETYQIVDPGEIVFRFIDLQNDKRS--LRSAQVMERGIITSAYMAVKPHGIDSTY 332
                Y +  I D   ++          RS  +  +   +  +   A++          Y
Sbjct: 216 SGIVDYVSDYIFDGDTLLVSEDGANLLSRSTPIAFSVTGKYWVNNHAHVLKFNDSATQRY 275

Query: 333 LAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-PIKEQFDITNVINVETARIDV 391
           + + + S  L K         +  L  + +  +P+ +P    E+ DI   +    +    
Sbjct: 276 VEFYLESISLQKYV---TGAAQPKLTQKALNSIPIPLPATPAERADIVKRMQSLESEAQR 332

Query: 392 LVEKIEQSIVLLKERRSSFIAAAVTG 417
           L    E     L+E R S +  A +G
Sbjct: 333 LRALYESKSAALEELRESLLHTAFSG 358


>gi|323935281|gb|EGB31634.1| type I restriction modification DNA specificity domain-containing
           protein [Escherichia coli E1520]
          Length = 461

 Score = 91.0 bits (224), Expect = 3e-16,   Method: Composition-based stats.
 Identities = 71/450 (15%), Positives = 141/450 (31%), Gaps = 65/450 (14%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDI----IYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           W    +  +   N G+  +  K+      Y+G  +V  G            +   S    
Sbjct: 5   WVHAKLGDYIDSNLGKMLDQNKNKGDFHPYLGNSNVRWGYFDLENLSLMKFEEHESDRYG 64

Query: 81  FAKGQILYGKLGPYLRKAIIAD--FDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI- 137
             KG ++  + G   R AI  D   +         ++P   L      +           
Sbjct: 65  IRKGDLIICEGGEPGRCAIWEDDVPNMKIQKALHRVRPLPGLTSEYLYYWFLYFGRTGQL 124

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           +A   G T+ H   K +  +P+ IPP+ EQ  I   + +   +I           ++ + 
Sbjct: 125 DAYFTGTTIKHLTGKALSELPIEIPPIDEQKHISMVLGSLDTKIKANRKINKTLEQMSQT 184

Query: 198 KKQA-------LVSYIVTKGLNPDV-----------------KMKDSGIE---------- 223
             ++       ++   +  G NP                     K   +E          
Sbjct: 185 LFKSWFVDFDPVIDNALDAG-NPIPEALQTRAELRQKVRNSADFKPLPVEIRSLFPSEFV 243

Query: 224 --WVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS------------YGNIIQKLE 269
              +G VP  W  K    + T    K     +                    GN    ++
Sbjct: 244 ETELGWVPKGWHYKNAEEIATISIGKTPPRTQKECFCDKKDSNYAWVSIKDLGNCSVFIK 303

Query: 270 TRNMGLKPESYETYQI-VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
             +  L  ++  +Y + + P + V     L   + ++    +     I   Y     HGI
Sbjct: 304 DSSEYLTSDAVNSYNVKIVPKDAVLLSFKLTIGRIAIAEDILTTNEAIAHFY--NMKHGI 361

Query: 329 DSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
           +  YL   ++ +D   +     S +  ++  + ++++PVLVP       I       T  
Sbjct: 362 NKEYLYSYLKIFDYNSL--GSTSSIATAINSKIIRKIPVLVPDGD----ILEKYKKSTDI 415

Query: 389 IDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           I   ++    +I  L   R + +   ++G+
Sbjct: 416 IFQKIKFNNGNICNLTALRDTLLPKLISGE 445



 Score = 50.2 bits (118), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 21/199 (10%), Positives = 52/199 (26%), Gaps = 14/199 (7%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTS----------ESGKDIIYIGLEDVESGTGKYLPKD 67
           +G +PK W     +    ++ G+T           +   +  ++ ++D+ + +       
Sbjct: 247 LGWVPKGWHYKNAEEIATISIGKTPPRTQKECFCDKKDSNYAWVSIKDLGNCSVFIKDSS 306

Query: 68  GNSRQSDTSTV--SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ 125
                   ++    I  K  +L       + +  IA+     +                 
Sbjct: 307 EYLTSDAVNSYNVKIVPKDAVLLS-FKLTIGRIAIAEDILTTNEAIAHFYNMKHGINKEY 365

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
            +                   +  + K I  IP+ +P        ++       +I    
Sbjct: 366 LYSYLKIFDYNSLGSTSSIA-TAINSKIIRKIPVLVPDGDILEKYKKSTDIIFQKIKFNN 424

Query: 186 TERIRFIELLKEKKQALVS 204
                   L       L+S
Sbjct: 425 GNICNLTALRDTLLPKLIS 443


>gi|313896514|ref|ZP_07830065.1| type I restriction modification DNA specificity domain protein
           [Selenomonas sp. oral taxon 137 str. F0430]
 gi|312974938|gb|EFR40402.1| type I restriction modification DNA specificity domain protein
           [Selenomonas sp. oral taxon 137 str. F0430]
          Length = 376

 Score = 91.0 bits (224), Expect = 3e-16,   Method: Composition-based stats.
 Identities = 56/386 (14%), Positives = 121/386 (31%), Gaps = 22/386 (5%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
           V +                    +GLE +  G  +    D  S   D +    F +G IL
Sbjct: 4   VTLGEVAMEARETCKGDRSGFPTVGLEHITPGEIRLSEYDVGS---DNTFTKRFHEGDIL 60

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQP--KDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           +G+   YL+KA IA F+GICS    V++     + P LL   + + D          G+ 
Sbjct: 61  FGRRRAYLKKAAIAPFEGICSGDITVIRAIQDKMEPRLLPFVIQNDDFFDFAVGRSAGSL 120

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
                W+ +      +P + +Q  + + +      I+            ++E  ++    
Sbjct: 121 SPRVKWEHLKTYSFELPEMDKQRELADVLW----AIEDTRAAYQELAVAMEELVKSQFVE 176

Query: 206 IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII 265
           +    +      +   +  +  +               +              +  GNI+
Sbjct: 177 MFGDPILNTHGWQKVSLSALAEIKIGPFGSLLHREDYIVGGHPVVNPSH----VHDGNIV 232

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
              +      K +    Y + +  ++V                Q       T + +    
Sbjct: 233 IDEKLTISETKYKELSAYHLFE-NDVVLGRRGEMGR---CAVVQTSGLLCGTGSMIIRTL 288

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
             + + +L  ++      K+   M  G    +L    + RL ++ PP + Q      +  
Sbjct: 289 GEVRADFLQKIISFPSFKKMLEDMAVGQTMPNLNVPIISRLEIIKPPNEVQNAYYAFVEQ 348

Query: 385 ETARIDVLVEKIEQ----SIVLLKER 406
                  + E +++     + +L+E 
Sbjct: 349 VDKSKLTIREILKKNAAMKLAILREY 374



 Score = 52.9 bits (125), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 21/165 (12%), Positives = 50/165 (30%), Gaps = 9/165 (5%)

Query: 24  HWKVVPIKRFTKLNTGRTSE---SGKDI----IYIGLEDVESGTGKYLPK-DGNSRQSDT 75
            W+ V +    ++  G           I      +    V  G      K   +  +   
Sbjct: 187 GWQKVSLSALAEIKIGPFGSLLHREDYIVGGHPVVNPSHVHDGNIVIDEKLTISETKYKE 246

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQG-WLLSIDVT 134
            +     +  ++ G+ G   R A++     +C T  ++++    +        +      
Sbjct: 247 LSAYHLFENDVVLGRRGEMGRCAVVQTSGLLCGTGSMIIRTLGEVRADFLQKIISFPSFK 306

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
           + +E +  G TM + +   I  + +  PP   Q      +     
Sbjct: 307 KMLEDMAVGQTMPNLNVPIISRLEIIKPPNEVQNAYYAFVEQVDK 351


>gi|253735334|ref|ZP_04869499.1| possible type I site-specific deoxyribonuclease specificity subunit
           [Staphylococcus aureus subsp. aureus TCH130]
 gi|253726741|gb|EES95470.1| possible type I site-specific deoxyribonuclease specificity subunit
           [Staphylococcus aureus subsp. aureus TCH130]
          Length = 372

 Score = 91.0 bits (224), Expect = 3e-16,   Method: Composition-based stats.
 Identities = 53/395 (13%), Positives = 115/395 (29%), Gaps = 46/395 (11%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W+   +    K+N+G+  +            ++ G        G           +   
Sbjct: 20  EWEEKQLGNIIKVNSGKDYK-----------HLDKGDIPVYGTGGYMTSVSEP---LSEI 65

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
             +  G+ G   +  ++        T F     K+     +             +   E 
Sbjct: 66  DAVGIGRKGTINKPYLLEAPFWTVDTLFYCTPKKETDILFILSLFR----KINWKVYDES 121

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
             +     + I  I   +P   EQ  I +       +I+    +     +  K   Q + 
Sbjct: 122 TGVPSLSKQTINKINRFVPTNKEQQKIGKFFSKLDRQIELEEQKLELLQQQKKGYMQKIF 181

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
           S  +               +  G     W  +    + T    ++ K +     S     
Sbjct: 182 SQELRFK------------DENGNDYPDWTNERLGEVTTVTMGQSPKSVNYTDNSNDTVL 229

Query: 264 IIQKLETRNMGLKPESY--ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
           I    +  N  + P  Y  E  +++   EI+             +    + RG+ +    
Sbjct: 230 IQGNADIENGLINPRIYTREVTKLIQKDEIILTVRAPVGKLAMAQINACIGRGVCS---- 285

Query: 322 AVKPHGIDSTYLAWLMRSYDLC-KVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
                     +L + +  +    K          +S+   D++ + + +P   E+  I  
Sbjct: 286 -----IKGDKFLYYFLEWFATQNKWIRFSQGSTFESISGNDIRNIHIKIPVEDERTKIIK 340

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           ++N     +DVL  K +  I  LK+R+ S +    
Sbjct: 341 LLNS----LDVLNSKTDLKIQNLKQRKQSLLQKIF 371


>gi|238018338|ref|ZP_04598764.1| hypothetical protein VEIDISOL_00163 [Veillonella dispar ATCC 17748]
 gi|237864809|gb|EEP66099.1| hypothetical protein VEIDISOL_00163 [Veillonella dispar ATCC 17748]
          Length = 408

 Score = 91.0 bits (224), Expect = 3e-16,   Method: Composition-based stats.
 Identities = 68/400 (17%), Positives = 140/400 (35%), Gaps = 27/400 (6%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+   +     +N  +T    K   Y+ LE V  GT     +      + +    + + G
Sbjct: 22  WEQRKLSEVVTINP-KTELPDK-FKYVDLESV-VGTNLLGFQVIKKENAPSRAQRLASYG 78

Query: 85  QILYGKLGPYLRKAIIA---DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            + Y  + PY R   +    D D + ST +  L+ K      L   + + +  + +   C
Sbjct: 79  DVFYQTVRPYQRNNYLFENIDKDMVFSTGYAQLRSKL-DSYFLLTLVQNDNFVKVVLDNC 137

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            G +    +   +G I + IP   E+     +I      ID +IT   R +E LK  K+A
Sbjct: 138 TGTSYPAINGSELGKITVQIPSNDEE---ANQIGKVFRGIDNIITLHQRKLEKLKLIKKA 194

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL-- 259
           L+  +  +  +   +++  G        +  ++  F     +   K   L E+    L  
Sbjct: 195 LLQKLFPQHGSNIPELRFKG---FTDAWEQRKLSEFVDKAVDNRGKTPPLDENGAHPLIE 251

Query: 260 --SYGNIIQKLETRNMGLKPESYET--YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
             + G +          L  + + T     +   +I+F  +        + S +  E  I
Sbjct: 252 VAALGGVYPDYSKVEKYLSDDVFNTNLRAYIKKDDILFTTVGSIGLVSLMDSRE--EAAI 309

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLV-PPIK 373
             +             YL  L  + D       +    ++ S+K   +  +  ++   I+
Sbjct: 310 AQNIVAFRAKENFLPEYLYALFSNEDNQYKAKRIAMVAVQPSIKVSQLVNVEYMISTNIE 369

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           EQ  I        + +  L+   ++ + +LK  +   +  
Sbjct: 370 EQERIGVF----FSSLQSLITLHQRKLDMLKNVKKGLLQK 405



 Score = 43.6 bits (101), Expect = 0.068,   Method: Composition-based stats.
 Identities = 22/169 (13%), Positives = 62/169 (36%), Gaps = 6/169 (3%)

Query: 231 HWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGE 290
               +   + V  +N K     +   + L        L  + +  +       ++   G+
Sbjct: 20  DAWEQRKLSEVVTINPKTELPDKFKYVDLESVVGTNLLGFQVIKKENAPSRAQRLASYGD 79

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG 350
           + ++ +        L    + +  + ++ Y  ++    DS +L  L+++ +  KV     
Sbjct: 80  VFYQTVRPYQRNNYLFE-NIDKDMVFSTGYAQLRSKL-DSYFLLTLVQNDNFVKVVLDNC 137

Query: 351 SGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
           +G    ++   ++ ++ V +P   E+    N I      ID ++   ++
Sbjct: 138 TGTSYPAINGSELGKITVQIPSNDEE---ANQIGKVFRGIDNIITLHQR 183


>gi|237822638|ref|ZP_04598483.1| restriction modification system DNA specificity subunit
           [Streptococcus pneumoniae CCRI 1974M2]
          Length = 329

 Score = 91.0 bits (224), Expect = 3e-16,   Method: Composition-based stats.
 Identities = 43/362 (11%), Positives = 89/362 (24%), Gaps = 35/362 (9%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V + +      G   +  +D    G E +         K  N          I   G 
Sbjct: 2   KKVKLGQVATFINGYAFKP-QDWSSEGKEIIRIQNLTKTSKGINYYSGTIDKKYIVEAGD 60

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           IL    G  L          + +     +    +  +      +     Q       G+T
Sbjct: 61  ILISWSG-TLGVFQWCGRSAVLNQHIFKVVFDKIDIDKSYFKYVVEKGLQDAVKHTHGST 119

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
           M H   K   NI +    L EQ  I  ++   +  I     +      L       + S 
Sbjct: 120 MKHLTKKYFDNIMVSYTNLGEQQRIASELDLLSKLILRRQEQLEELNLL-------VKSR 172

Query: 206 IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII 265
                 +P    K   ++  G     +    F      +         + I         
Sbjct: 173 FNEMFGDPLNNNKKFAVKT-GQQCFKFSSGKFLDKHDRVFEGYPAYGGNGIAW------- 224

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
                              ++D   I+   +                +  I+   + +K 
Sbjct: 225 --------------KSRKYLIDNPTIIIGRVGA----YCGNVRTTHGKVWISDNAIYIKE 266

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
                  L +L+    +           +  +  + ++    ++PP+  Q +  + +   
Sbjct: 267 FKNSDFNLVFLLELMKVIDFSKFADFSGQPKITQKPLENQKYILPPLALQNEFADFVVQV 326

Query: 386 TA 387
             
Sbjct: 327 DK 328



 Score = 54.4 bits (129), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/142 (11%), Positives = 42/142 (29%), Gaps = 10/142 (7%)

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
            ++ +     + +   IV+ G+I+  +                   ++      V    I
Sbjct: 39  TSKGINYYSGTIDKKYIVEAGDILISWSGTLG-----VFQWCGRSAVLNQHIFKVVFDKI 93

Query: 329 DSTYLAW-LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           D     +  +    L            + L  +    + V    + EQ  I + ++    
Sbjct: 94  DIDKSYFKYVVEKGLQDAVKHTHGSTMKHLTKKYFDNIMVSYTNLGEQQRIASELD---- 149

Query: 388 RIDVLVEKIEQSIVLLKERRSS 409
            +  L+ + ++ +  L     S
Sbjct: 150 LLSKLILRRQEQLEELNLLVKS 171


>gi|295401866|ref|ZP_06811830.1| restriction modification system DNA specificity domain protein
           [Geobacillus thermoglucosidasius C56-YS93]
 gi|294976120|gb|EFG51734.1| restriction modification system DNA specificity domain protein
           [Geobacillus thermoglucosidasius C56-YS93]
          Length = 397

 Score = 91.0 bits (224), Expect = 4e-16,   Method: Composition-based stats.
 Identities = 61/416 (14%), Positives = 134/416 (32%), Gaps = 49/416 (11%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGK-----DIIYIGLEDV-ESGTGKYLPKDGNSRQSDTST 77
           +W+ + +    K+  G   +          I +   +  ESG  K           D   
Sbjct: 2   NWRNIKLGEVLKIKHGYAFKGKYFGDKGKYIVLTPGNFRESGGLKLKGDKEKYYLGDFPK 61

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVL----------QPKDVLPELLQGW 127
             I  KG +L           I+     I +    +             + V+ E +   
Sbjct: 62  EYILHKGDLLVVMTDLTQECRILGSAAFIDADDVYLHNQRLGKVVDINTELVMKEFVYYL 121

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
             S  V  ++     G T+ H     I  + + IPP+  Q  I   + +   +I      
Sbjct: 122 FNSKSVRTQLINSSSGTTVHHTSPDRIYEVEVQIPPIKIQEKIVSILKSIDDKIQLNRQM 181

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK 247
                E+     +    + V  G   D +  +S    +G++P++W++     L   L+ K
Sbjct: 182 NETLEEMAMTLYK---HWFVDFGPFQDGEFVES---ELGVIPNNWKIGQVKDLAKVLSGK 235

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
             K+ +     +  G              P       + +    +   +        +  
Sbjct: 236 RPKVKDIGEYPIFGGGG------------PMGVTNEYLYNEPIFITGRVGTIGKVFRVSK 283

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
                     ++ + +       ++L  ++++ D   +    G   +  +    +K + V
Sbjct: 284 PCWPSD----NSLVLIPLKAYYYSFLYAVLKNIDFSLI---TGGSTQPLITQTSLKSIKV 336

Query: 368 LVPPIK--EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           ++PP +  EQ+      N +      L++K +     L E R   +   ++G+ID+
Sbjct: 337 IIPPEETIEQY------NKQVLTYYSLIDKNDNINKQLSEIRDYLLPRLLSGEIDV 386



 Score = 44.4 bits (103), Expect = 0.036,   Method: Composition-based stats.
 Identities = 29/187 (15%), Positives = 62/187 (33%), Gaps = 18/187 (9%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +G IP +WK+  +K   K+ +G+  +                     P  G       + 
Sbjct: 213 LGVIPNNWKIGQVKDLAKVLSGKRPK--------------VKDIGEYPIFGGGGPMGVTN 258

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
             ++ +   + G++G   +   ++          +++  K      L   L +ID     
Sbjct: 259 EYLYNEPIFITGRVGTIGKVFRVSKPCWPSDNSLVLIPLKAYYYSFLYAVLKNIDF---- 314

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
             I  G+T        + +I + IPP        ++++     ID       +  E+   
Sbjct: 315 SLITGGSTQPLITQTSLKSIKVIIPPEETIEQYNKQVLTYYSLIDKNDNINKQLSEIRDY 374

Query: 198 KKQALVS 204
               L+S
Sbjct: 375 LLPRLLS 381


>gi|325498694|gb|EGC96553.1| restriction modification system DNA specificity subunit
           [Escherichia fergusonii ECD227]
          Length = 594

 Score = 90.6 bits (223), Expect = 4e-16,   Method: Composition-based stats.
 Identities = 67/515 (13%), Positives = 137/515 (26%), Gaps = 106/515 (20%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKD--------IIYIG 52
           +K  K  P+   S  +    +P  W+ V +  FT +  G T    +         I  + 
Sbjct: 83  IKKQKPLPEI--SEEEKPFELPVGWEWVRLGDFTNIIRGITFPGNEKSQFQAPGKIACLR 140

Query: 53  LEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGK--LGPYLRKAII----ADFDGI 106
             +V+     +      S            +  I+         + K  +     +    
Sbjct: 141 TANVQEK-IDWDDLIYISDSFVKRDDQYLQEHDIVMSMANSRELVGKVALASLPDNSKFT 199

Query: 107 CSTQFLVLQPKDVLPELLQGWLLSIDVTQR-IEAICEGATMSHADWKGIGNIPMPIPPLA 165
                 VL+P  V    L   L       + IE+  +   +++     +  +P+ IPP  
Sbjct: 200 FGGFLSVLRPLVVNEIYLMALLRCETYKSQLIESASQTTNIANISLAKLNPLPVCIPPAK 259

Query: 166 EQVLIREKIIAETVR-----------------------------------------IDTL 184
           EQ+ I +K+                                               I+  
Sbjct: 260 EQIHIVKKMNELMSLCDQLEQQSLTSLDAHQQLVETLLGTLTDSQNAEELAENWARINEH 319

Query: 185 ITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKD------------------------- 219
                     +   KQ ++   V   L P     +                         
Sbjct: 320 FDTLFTTEASVDALKQTILQLAVMGKLVPQDPNDEPASELLKRIAQEKAQLVKEGKIKKQ 379

Query: 220 ------SGIEWVGLVPDHWEVKPFFALVTELNRKNT---------KLIESNILSLSYGNI 264
                 S  E    +P+ WE   F  ++   +               +    ++      
Sbjct: 380 KPLPPISDEEKPFELPEGWEWCLFEDIIDIQSGITKGRNLSNRTLVKVPYLRVANVQRGY 439

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM-AV 323
           +   E + + +  E  E YQ+V    ++    D     R+               +    
Sbjct: 440 LDLTEIKQIEIPIEEKEKYQVVKGDLLITEGGDWDTVGRTTVWCHDWYIANQNHVFKGRN 499

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFY--AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
               +D  +L   M S    + F   +  +    S+    ++  PV +PP  E   I + 
Sbjct: 500 IGQDVDPYWLETYMNSPFSRQYFANASKQTTNLASINKTQLRGCPVAIPPSSEAKKIMSK 559

Query: 382 IN---VETARIDVLVEKIEQ-SIVLLKERRSSFIA 412
           ++        +   ++  +Q  + L      + I 
Sbjct: 560 LHIFYKLCEELKNHIQSAQQTQLHLADALTDAAIN 594


>gi|169825073|ref|YP_001692684.1| putative type I restriction enzyme [Finegoldia magna ATCC 29328]
 gi|167831878|dbj|BAG08794.1| putative type I restriction enzyme [Finegoldia magna ATCC 29328]
          Length = 466

 Score = 90.6 bits (223), Expect = 4e-16,   Method: Composition-based stats.
 Identities = 60/434 (13%), Positives = 139/434 (32%), Gaps = 70/434 (16%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLN-----TGRTSESGKDIIY---------IGLED 55
           YKD+ V   G IP+ W+V  IK  T++       G  +   +++ Y         I L D
Sbjct: 80  YKDTEV---GIIPESWEVKQIKEVTEIVTDYVANGSFASLAENVKYKDEPDEAVLIRLVD 136

Query: 56  VESG-TGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIA---DFDGICSTQF 111
             +   GK++  D ++   +    S    G+I+   +G  +          +    +   
Sbjct: 137 YNNDFNGKFVFIDSHAY--EFLGKSKLFGGEIIISNVGAKVGTVFRCPTLKYKMSLAPN- 193

Query: 112 LVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIR 171
            V+       +    WL   +    +++I  G+     +      + +P+PP+ EQ  I 
Sbjct: 194 SVMVKFKENDDFYFHWLRGYNGQSMLKSIVTGSAQPKFNKTNFREMLVPVPPVEEQTKIA 253

Query: 172 EKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDH 231
             + +   +ID           L     + L                             
Sbjct: 254 NILNSIDEKID-----------LNNGINKNLEQQAFAI---------------------- 280

Query: 232 WEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEI 291
                F  +  +       + +    +   G + +     N+ +     E     +    
Sbjct: 281 -----FNEMFVDSIYGENFVGDILTPNRGKGLLSKDAVPGNVPVVAGGLEPATYHNQSNT 335

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
           V   + +     +     +    + +S    +  +  ++ Y  + M      ++F A   
Sbjct: 336 VAPVLTISASGANAGYVNLWNIPVWSSDSSFIDTNMTENVYFWYAMLKSRQSEIFDAQTG 395

Query: 352 GLRQSLKFEDVKRLPV--LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
             +  +  + + RLP+  + P      +I     V  + +   +   ++  + L   R +
Sbjct: 396 SAQPHIYPKHIARLPMGNIRPD-----EINQY-TVLVSPLFEAIGANKEENLSLASMRDA 449

Query: 410 FIAAAVTGQIDLRG 423
            +   ++G+ID+  
Sbjct: 450 LLPKLMSGEIDVTN 463


>gi|291561048|emb|CBL39848.1| Restriction endonuclease S subunits [butyrate-producing bacterium
           SSC/2]
          Length = 371

 Score = 90.6 bits (223), Expect = 4e-16,   Method: Composition-based stats.
 Identities = 54/401 (13%), Positives = 125/401 (31%), Gaps = 47/401 (11%)

Query: 28  VPIKRFTKLNTG---RTSESGKDI------IYIGLEDVESGTGKYLP-KDGNSRQSDTST 77
           V +     L  G   +   S K+I       ++    +     ++         + +   
Sbjct: 4   VKLGDIAVLINGDRGKNYPSQKEIITSGGIPFVNAGHLNGRAIEFEAMNYITPEKYEKLN 63

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADF-DGICSTQFLVLQPKDVLPELLQGWL--LSIDVT 134
              F +  ILY   G   +KA+I D   G  ++  ++++P           L   +  + 
Sbjct: 64  SGKFQQNDILYCLRGSLGKKALINDNIYGAIASSLVIIRPNLEKVRPQYLMLALETPLIK 123

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           +++     G++  +   K +    + +P L  Q  I  K+     ++  LI +  +   L
Sbjct: 124 EQLFKFNNGSSQPNLSAKSVKEYKLELPDLFIQDSIISKL----EKVRNLIEDEKQEKLL 179

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
           L    QA     V    +P    K   IE +             A +T         ++ 
Sbjct: 180 LDNLIQA---RFVEMFGDPITNSKLLPIEKIEER------YFLKAGITTKAEDIHDYLKD 230

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
                 YG    +    N+  +                +  I  Q            +  
Sbjct: 231 KYEIPCYGGNGIRGYVENLSYEG--------------CYPIIGRQGALCGNVQYATGKFH 276

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKE 374
               A +       ++ ++ ++++  DL +         +  L  + +  + V+V  I  
Sbjct: 277 ATEHAVLVSTLKNDNTMWVYYMLKLMDLYRY---HTGAAQPGLAVKKLNTIDVIVADINL 333

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           Q      ++    +I+    ++++S+   +    S +    
Sbjct: 334 QNQFAAFVH----QINKSKFEVQKSLEKTQLLYDSLMQEYF 370


>gi|114048353|ref|YP_738903.1| restriction modification system DNA specificity subunit [Shewanella
           sp. MR-7]
 gi|113889795|gb|ABI43846.1| restriction modification system DNA specificity domain [Shewanella
           sp. MR-7]
          Length = 589

 Score = 90.6 bits (223), Expect = 4e-16,   Method: Composition-based stats.
 Identities = 61/471 (12%), Positives = 120/471 (25%), Gaps = 96/471 (20%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            +P  W+   +  F + N G T          I  +   +++ G          ++    
Sbjct: 103 ELPVGWEFARLGVFGETNIGLTYSPNDVGENGIPVLRSSNIQQGKIDLSDLVRVNKDVKE 162

Query: 76  STVSIFAKGQILYGKLGP----YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
           S+  + A G +L            + A I   D   +    +   +  L   ++ +L S 
Sbjct: 163 SS--LVALGDLLICARNGSKSLVGKTAQIKSLDEPMAFGAFMAVFRSELNNYIELFLNSP 220

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK------------------ 173
              + +E +    T++      +      IPPL EQ  I  K                  
Sbjct: 221 LFRRNLEGVST-TTINQITQNNLKETVCTIPPLKEQHRIVAKVDELMALCDQLEQRSESQ 279

Query: 174 -----------------------IIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKG 210
                                  +     R+ T           +   KQ ++   V   
Sbjct: 280 LAAHQTLVETLLATLTDSTDADELAQNWARLSTHFDTLFTTEASIDALKQTILQLAVMGK 339

Query: 211 LNPDVKMKD-------------------------------SGIEWVGLVPDHWEVKPFFA 239
           L P     +                               S  E    +P  W       
Sbjct: 340 LVPQDPSDEPASTLLARIAAEKARLVKEKKIKKEKPLPALSENEKPFELPLGWAWSRISE 399

Query: 240 LVTELNRKNTKLI----ESNILSLSYGNIIQKLETRNMGLK---PESYETYQIVDPGEIV 292
                   +++         +  L  G+I                        +  G+++
Sbjct: 400 SSLFCEYGSSEKTVSELSDGVPVLKMGDIQDGKVILGSHQVVSPKIDDLPNLYLKKGDVL 459

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAY---MAVKPHGIDSTYLAWLMRSYDLCKVF--- 346
           +   +              +     ++Y   +    H I   YL   M S    K     
Sbjct: 460 YNRTNSAELVGKTGMFDGDDDTYTFASYLIRIRCSIHNIRPEYLTLCMNSPLFRKTQIEP 519

Query: 347 YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
           +      + ++    +K + V +PP  EQ  I   I+      D L  +++
Sbjct: 520 HIKQQCGQANVNGTLMKSMLVSIPPYHEQVLILQKIHELMTLCDQLKSRLQ 570



 Score = 79.1 bits (193), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 24/204 (11%), Positives = 62/204 (30%), Gaps = 4/204 (1%)

Query: 213 PDVKMKDSGIEWVGLVPDHWEVKPF----FALVTELNRKNTKLIESNILSLSYGNIIQKL 268
           P  + + +  E    +P  WE           +      N        +  S      K+
Sbjct: 89  PKAQPEIAEDEKPFELPVGWEFARLGVFGETNIGLTYSPNDVGENGIPVLRSSNIQQGKI 148

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
           +  ++    +  +   +V  G+++    +         +        +            
Sbjct: 149 DLSDLVRVNKDVKESSLVALGDLLICARNGSKSLVGKTAQIKSLDEPMAFGAFMAVFRSE 208

Query: 329 DSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
            + Y+   + S    +    + +     +   ++K     +PP+KEQ  I   ++   A 
Sbjct: 209 LNNYIELFLNSPLFRRNLEGVSTTTINQITQNNLKETVCTIPPLKEQHRIVAKVDELMAL 268

Query: 389 IDVLVEKIEQSIVLLKERRSSFIA 412
            D L ++ E  +   +    + +A
Sbjct: 269 CDQLEQRSESQLAAHQTLVETLLA 292


>gi|293609932|ref|ZP_06692234.1| conserved hypothetical protein [Acinetobacter sp. SH024]
 gi|292828384|gb|EFF86747.1| conserved hypothetical protein [Acinetobacter sp. SH024]
          Length = 370

 Score = 90.6 bits (223), Expect = 4e-16,   Method: Composition-based stats.
 Identities = 52/395 (13%), Positives = 110/395 (27%), Gaps = 39/395 (9%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
            + +   +  G T    +         V++G    +     S  S            I  
Sbjct: 7   RLDQVCLIRRGSTITKNQ---------VKAGNIPVVAGGKTSTISHNEANR--DAYTITV 55

Query: 89  GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSH 148
              G               S    V    + L ++   +         + ++  GA   H
Sbjct: 56  SASGASAGFVNFWQVPIFASDCSTVEVINE-LADINYVYYFLKFKQDYLYSLQAGAAQPH 114

Query: 149 ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVT 208
              K I  I +P+PPL EQ  I   +    V          +  +LL+          + 
Sbjct: 115 VYAKDIAKIEIPLPPLPEQRRIAAILDQADVLRQKRQQAIEKLDQLLQAT-------FID 167

Query: 209 KGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKL 268
              +P    K      +G + +            +    +   ++  I  L   N+    
Sbjct: 168 MFGDPVSNPKGWDFGCIGDMLESV----------KYGSSDKATLDGEIPILRMNNLTYSG 217

Query: 269 ETRNMGLKPESY---ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA-VK 324
           E     LK  +    +   +V  G+I+F   + +            E        +    
Sbjct: 218 EMDLRDLKYITKAQADEKYLVKEGDILFNRTNSKELVGKTAVYVGPEPMAYAGYLVRGRT 277

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
                  Y++  + S    +   +M   +    ++  ++ + + + +PP  EQ       
Sbjct: 278 KESFAPEYISAFLNSPWGKEKLQSMCKSIVGMANINAKEFQSIVLPIPPENEQM----YF 333

Query: 383 NVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
                 I    + +   + + +    S    A +G
Sbjct: 334 KTRVLAIREKKQLLVNQLNVFETLFKSLQNQAFSG 368



 Score = 47.1 bits (110), Expect = 0.005,   Method: Composition-based stats.
 Identities = 30/199 (15%), Positives = 74/199 (37%), Gaps = 13/199 (6%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSES---GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           PK W    I    +     +S+      +I  + + ++       L       ++     
Sbjct: 176 PKGWDFGCIGDMLESVKYGSSDKATLDGEIPILRMNNLTYSGEMDLRDLKYITKAQADEK 235

Query: 79  SIFAKGQILYGKLGP---YLRKAIIADFDGICSTQFLV--LQPKDVLPELLQGWLLSIDV 133
            +  +G IL+ +        + A+    + +    +LV     +   PE +  +L S   
Sbjct: 236 YLVKEGDILFNRTNSKELVGKTAVYVGPEPMAYAGYLVRGRTKESFAPEYISAFLNSPWG 295

Query: 134 TQRIEAICEGA-TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
            ++++++C+    M++ + K   +I +PIPP  EQ+          + I       +  +
Sbjct: 296 KEKLQSMCKSIVGMANINAKEFQSIVLPIPPENEQM----YFKTRVLAIREKKQLLVNQL 351

Query: 193 ELLKEKKQALVSYIVTKGL 211
            + +   ++L +   +  L
Sbjct: 352 NVFETLFKSLQNQAFSGTL 370


>gi|226954356|ref|ZP_03824820.1| type I restriction modification DNA specificity domain-containing
           protein [Acinetobacter sp. ATCC 27244]
 gi|226834892|gb|EEH67275.1| type I restriction modification DNA specificity domain-containing
           protein [Acinetobacter sp. ATCC 27244]
          Length = 464

 Score = 90.6 bits (223), Expect = 4e-16,   Method: Composition-based stats.
 Identities = 68/454 (14%), Positives = 134/454 (29%), Gaps = 62/454 (13%)

Query: 22  PKHWKVVPIKRFTK---LNTGRTSES-GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           P  W+ +P++          G+T +  G  I  I  + V+SG  + LP D      D  +
Sbjct: 6   PISWQQIPLEDALDALIDYRGKTPKKVGNGIPLITAKVVKSG--RILPMDEFIADEDYES 63

Query: 78  ---VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL--PELLQGWLLSID 132
                I   G I+     P    A I D +   + + + L+ K        L   + S  
Sbjct: 64  WMVRGIPQVGDIVVTTEAPLGEVAQIKDANVALAQRIVTLRGKVDFLENNFLLFLMQSNF 123

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           V  ++EA   G+T+       +  + +PIPP+ EQ  I + +     +I           
Sbjct: 124 VQNQLEARATGSTVKGIKQSELRKVILPIPPINEQKSIGKILSDLDDKIHLNNQINQTLE 183

Query: 193 ELLKEKKQALVSY---------IVTKGLNPDVKMKD-----SGIE--------------- 223
            + +   ++                 G +P+          S  E               
Sbjct: 184 SIAQAIFKSWFIDFEPVRAKIAAKQAGQDPERAAMCAISGKSEAELEQMAKEDFAELQAT 243

Query: 224 -----------WVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
                       +G VP  WEV         +                  +     +  N
Sbjct: 244 AALFPDELVESELGEVPRGWEVSTIGEQTQTVGGATPSTKNDEFWDKGNNHWTTPKDLSN 303

Query: 273 MGLKPESYETYQI-------VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
           +  K       +I       +  G +    + + +       A       I   Y+A+ P
Sbjct: 304 LTDKILLNTDRKITDAGLKKISSGLLPKNTVLMSSRAPVGYLALAKIEVAINQGYIAILP 363

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
           +   S          ++ ++         Q +  ++ + +    P  K    + +     
Sbjct: 364 NMKYSAEYLIQWCEANMAEIKGRASGTTFQEISKKNFREISFFCPDDKV---VVSYTKTV 420

Query: 386 TARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
               D +  K  +    L   R + +   ++G+I
Sbjct: 421 KTLYDEITSKA-KENQSLINLRDTLLPKLMSGEI 453



 Score = 61.0 bits (146), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 30/197 (15%), Positives = 55/197 (27%), Gaps = 12/197 (6%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGKDII-------YIGLEDVESGTGKY---LPKD 67
           +G +P+ W+V  I   T+   G T  +  D         +   +D+ + T K      + 
Sbjct: 256 LGEVPRGWEVSTIGEQTQTVGGATPSTKNDEFWDKGNNHWTTPKDLSNLTDKILLNTDRK 315

Query: 68  GNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW 127
                    +  +  K  +L     P      +A  +   +  ++ + P           
Sbjct: 316 ITDAGLKKISSGLLPKNTVLMSSRAPV-GYLALAKIEVAINQGYIAILPNMKY-SAEYLI 373

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
                    I+    G T      K    I    P     V   + +      I +   E
Sbjct: 374 QWCEANMAEIKGRASGTTFQEISKKNFREISFFCPDDKVVVSYTKTVKTLYDEITSKAKE 433

Query: 188 RIRFIELLKEKKQALVS 204
               I L       L+S
Sbjct: 434 NQSLINLRDTLLPKLMS 450


>gi|83776732|gb|ABC46689.1| Sau1hsdS1 [Staphylococcus aureus]
          Length = 386

 Score = 90.6 bits (223), Expect = 4e-16,   Method: Composition-based stats.
 Identities = 59/396 (14%), Positives = 134/396 (33%), Gaps = 42/396 (10%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W+   ++   K+N+G+  +            ++ G        G           +   
Sbjct: 20  EWEEKKLEDIIKVNSGKDYK-----------HLDKGDIPVYGTGGYMTSVSEP---LSEI 65

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
             +  G+ G   +  ++        T F     K+     +             +   E 
Sbjct: 66  DAVGIGRKGTINKPYLLEAPFWTVDTLFYCTPKKETDILFILSLFR----KINWKVYDES 121

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
             +     + I  I   +P   EQ  I +       ++D  I    + +EL +++K+  +
Sbjct: 122 TGVPSLSKQTINKINRFVPTNKEQQKIGKF----FSKLDRQIELEEQKLELFQQQKKGYM 177

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG- 262
             I ++ L           +  G     WE K    +   + RKN        L++S   
Sbjct: 178 QKIFSQEL--------RFKDESGNDYPDWEEKELGEVADRVIRKNKNFESKKPLTISGQL 229

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK-RSLRSAQVMERGIITSAYM 321
            +I + E  +  +  ++ E Y ++  GE  +           +++     + G+++S Y+
Sbjct: 230 GLIDQTEYFSKSVSSKNLENYTLIKNGEFAYNKSYSNGYPLGAIKRLTRYDSGVLSSLYI 289

Query: 322 AVKPHGIDSTYLA--WLMRSYDLCKVFYAMGSGLRQ----SLKFEDVKRLPVLVPPIKEQ 375
                   S      +   ++   +V      G R     ++   D   + +  P ++EQ
Sbjct: 290 CFSIKSEMSKDFMEAYFDSTHWYREVSGIAVEGARNHGLLNISVNDFFTILIKYPSLEEQ 349

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
             I +       ++D  +E  EQ + LL++R+ + +
Sbjct: 350 RKIGDF----FIKLDRQIELEEQKLELLQQRKKALL 381



 Score = 64.0 bits (154), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 28/166 (16%), Positives = 61/166 (36%), Gaps = 19/166 (11%)

Query: 275 LKPESYETYQIVDPGEIVFRFIDLQNDKRS-----LRSAQVMERGIITSAYMAVKPHGID 329
           +K  S + Y+ +D G+I            S     + +  +  +G I   Y+   P    
Sbjct: 30  IKVNSGKDYKHLDKGDIPVYGTGGYMTSVSEPLSEIDAVGIGRKGTINKPYLLEAPFWTV 89

Query: 330 STYLA----------WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
            T             +++  +          S    SL  + + ++   VP  KEQ  I 
Sbjct: 90  DTLFYCTPKKETDILFILSLFRKINWKVYDESTGVPSLSKQTINKINRFVPTNKEQQKIG 149

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGES 425
                  +++D  +E  EQ + L ++++  ++    + ++  + ES
Sbjct: 150 KF----FSKLDRQIELEEQKLELFQQQKKGYMQKIFSQELRFKDES 191



 Score = 40.9 bits (94), Expect = 0.40,   Method: Composition-based stats.
 Identities = 22/191 (11%), Positives = 53/191 (27%), Gaps = 13/191 (6%)

Query: 24  HWKVVPIKRFTKLNTGRTSE-SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            W+   +         +      K  + I  +       +Y  K  +S+  +    ++  
Sbjct: 197 DWEEKELGEVADRVIRKNKNFESKKPLTISGQLGLIDQTEYFSKSVSSKNLE--NYTLIK 254

Query: 83  KGQILYGKLGPYLRKAIIAD-----FDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
            G+  Y K                   G+ S+ ++    K  + +             R 
Sbjct: 255 NGEFAYNKSYSNGYPLGAIKRLTRYDSGVLSSLYICFSIKSEMSKDFMEAYFDSTHWYRE 314

Query: 138 EAIC-----EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
            +           + +        I +  P L EQ  I +  I    +I+    +     
Sbjct: 315 VSGIAVEGARNHGLLNISVNDFFTILIKYPSLEEQRKIGDFFIKLDRQIELEEQKLELLQ 374

Query: 193 ELLKEKKQALV 203
           +  K   ++++
Sbjct: 375 QRKKALLKSML 385


>gi|308062694|gb|ADO04582.1| type I R-M system specificity subunit [Helicobacter pylori Cuz20]
          Length = 303

 Score = 90.6 bits (223), Expect = 4e-16,   Method: Composition-based stats.
 Identities = 47/332 (14%), Positives = 106/332 (31%), Gaps = 33/332 (9%)

Query: 90  KLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHA 149
                +    I       +  F  L P + +      + L + +  ++  +  G+T    
Sbjct: 2   TSRASIGDCAILKVVATTNQGFQSLIPLEKINNE-FLYYLILTLKNKLLKLASGSTFLEV 60

Query: 150 DWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTK 209
               I N+ +P+PPL EQ+ I   +      +  L    ++   + K     L+S     
Sbjct: 61  SPNKIKNLLIPLPPLNEQIAIANILSDLDRYLYALDALILKKEGVKKALSFELLSQ---- 116

Query: 210 GLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLE 269
                        + +      W+      +   +  +    I          N   K  
Sbjct: 117 ------------RKRLKGFNQAWQRVRLGDIAEIVKGQQINKISL--------NNTDKYP 156

Query: 270 TRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID 329
             N G+    Y     V    I           R + S         +   +    + ++
Sbjct: 157 VINGGIDFLGYTNKFNVSKNTIAISEGGTCGYVRFMTSNFWSGGHNYS---LQKISNKVN 213

Query: 330 STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
           +  L  +++SY+   +         ++++ + +K   +L+PP+ EQ  I N+++     I
Sbjct: 214 NLCLYHILKSYE-KDIMKLGVGSGLKNIQLKALKDFEILLPPLNEQIAIANILSALDNEI 272

Query: 390 DVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
             L  K  Q     +  + +     ++ +I +
Sbjct: 273 ASLKNKKRQ----FENIKKALNHDLMSAKIRV 300



 Score = 59.4 bits (142), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 15/113 (13%), Positives = 40/113 (35%), Gaps = 4/113 (3%)

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
                 + ++ P    +    + +      K+           +    +K L + +PP+ 
Sbjct: 17  ATTNQGFQSLIPLEKINNEFLYYLILTLKNKLLKLASGSTFLEVSPNKIKNLLIPLPPLN 76

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
           EQ  I N+++     +  L   I +     +  + +     ++ +  L+G +Q
Sbjct: 77  EQIAIANILSDLDRYLYALDALILKK----EGVKKALSFELLSQRKRLKGFNQ 125



 Score = 52.9 bits (125), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 27/180 (15%), Positives = 62/180 (34%), Gaps = 11/180 (6%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+ V +    ++  G+                 + T KY   +G       +     +K 
Sbjct: 127 WQRVRLGDIAEIVKGQQINKIS----------LNNTDKYPVINGGIDFLGYTNKFNVSKN 176

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            I   + G       +          + + +  + +  L   + +     + I  +  G+
Sbjct: 177 TIAISEGGTCGYVRFMTSNFWSGGHNYSLQKISNKVNNLCL-YHILKSYEKDIMKLGVGS 235

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
            + +   K + +  + +PPL EQ+ I   + A    I +L  ++ +F  + K     L+S
Sbjct: 236 GLKNIQLKALKDFEILLPPLNEQIAIANILSALDNEIASLKNKKRQFENIKKALNHDLMS 295


>gi|317177380|dbj|BAJ55169.1| Type I restriction-modification system specificity subunit
           [Helicobacter pylori F16]
          Length = 413

 Score = 90.6 bits (223), Expect = 4e-16,   Method: Composition-based stats.
 Identities = 46/391 (11%), Positives = 119/391 (30%), Gaps = 19/391 (4%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGK--DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           PK  +   +    +    +T +  +  ++   G+  V +          +      +   
Sbjct: 13  PKGVEFRKLGEVCESTNKKTLKISEVSEVKNKGMYPVINSGRDLYGYYHDFNNDGEN--- 69

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFL---VLQPKDVLPELLQGWLLSIDVTQR 136
                 I     G Y       +             V    ++L + L  +L + ++   
Sbjct: 70  ------ITIASRGEYAGFINYFNEKFFAGGLCYPYKVKDTNELLTKFLYFYLKTNEIQIM 123

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
              +  G ++   +   I  + +PIPPL  Q  I + + A T     L TE    ++  K
Sbjct: 124 ENLVSCG-SIPALNKADIETLTIPIPPLEIQQEIVKILDAFTELNTELNTELNTELKARK 182

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
           ++ Q   + ++       +       +                L  +            I
Sbjct: 183 KQYQYYQNMLLDF---KGINQNHKDAKMSAKPYPKRLKTLLQTLAPKGVEFRKLGEVCEI 239

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
           +        + L+     +          ++        I +     +       ++   
Sbjct: 240 IRGKRVTKKEILDKGKYPVVSGGIGFMGYLNEYNREENTITIAQYGTAGFVNWQNQKFWA 299

Query: 317 TSAYMAVKPHGID-STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
                +V P     + YL +++ +        +  S +  S+   ++ ++ + +PP++ Q
Sbjct: 300 NDVCFSVIPKETLINRYLYYVLTNMQNYLYSISNRSAIPYSISSNNIMQITIPIPPLEIQ 359

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKER 406
            +I  +++  +     L+  I   I   K++
Sbjct: 360 QEIVKILDQFSILTTDLLAGIPAEIEARKKQ 390



 Score = 64.0 bits (154), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 25/180 (13%), Positives = 64/180 (35%), Gaps = 9/180 (5%)

Query: 229 PDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDP 288
           P   E +    +    N+K  K+ E + +       +        G   +        + 
Sbjct: 13  PKGVEFRKLGEVCESTNKKTLKISEVSEVKNKGMYPVINSGRDLYGYYHDFN------ND 66

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA 348
           GE +      +         +    G +   Y     + + + +L + +++ ++  +   
Sbjct: 67  GENITIASRGEYAGFINYFNEKFFAGGLCYPYKVKDTNELLTKFLYFYLKTNEIQIMENL 126

Query: 349 MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
           +  G   +L   D++ L + +PP++ Q +I  +++  T     L  ++      LK R+ 
Sbjct: 127 VSCGSIPALNKADIETLTIPIPPLEIQQEIVKILDAFTELNTELNTELNTE---LKARKK 183


>gi|84489295|ref|YP_447527.1| type I restriction-modification system subunit [Methanosphaera
           stadtmanae DSM 3091]
 gi|84372614|gb|ABC56884.1| predicted type I restriction-modification system subunit
           [Methanosphaera stadtmanae DSM 3091]
          Length = 393

 Score = 90.6 bits (223), Expect = 4e-16,   Method: Composition-based stats.
 Identities = 56/402 (13%), Positives = 123/402 (30%), Gaps = 41/402 (10%)

Query: 24  HWKVVPIKRFTK-LNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            W    +      +     +   K  + I  +       ++  K   S+        +  
Sbjct: 18  EWITYKLCDVVTRIIRKNKNLETKRPLTISAKYGLIDQIEFFDKYVASKNLK--GYYLLK 75

Query: 83  KGQILYGKLGPYLRKAIIAD-----FDGICSTQFLVLQPKDVLPELL-QGWLLSIDVTQR 136
           KG+  Y K                   G  ST ++  +  + +     + +  S    + 
Sbjct: 76  KGEFAYNKSYSNGFPYGAVKRLDLYNQGAISTLYICFEITNKINSNFLKIYFDSNKWNKE 135

Query: 137 IEAICEGATMSH----ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           +  I      +H           N     P ++EQ  I + + A   +I  +  +   + 
Sbjct: 136 MYKIAVEGARNHGLLNIPINDFFNTKHLFPSISEQEKIADFLSAIDKKIGFMEKKHTLYQ 195

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
            + K     L S            +KD  I  +G  P                 K  +  
Sbjct: 196 NIKKYYSHVLFSNTSDWN---KKNLKDIAIIKMGFTPST---------------KKEEYW 237

Query: 253 ESNILSLSYGNIIQKLETR-NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
             NI  L+  ++  K  ++    +   +    +I+    +V  F         L+     
Sbjct: 238 NGNIKWLAVSDMGSKYISKTKKHITKIAIGKKEIIKKDTLVMSFKLTIGKLGILKEDMYS 297

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
              I        K   I++ ++ + + S +L K       G+  +L  E +  +P+ +P 
Sbjct: 298 NEAICN---FQWKNKNINTEFMYYYLSSINLKKYGSQAAKGI--TLNKETLNMIPIRIPS 352

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            + Q +I N+++    +++ L     + I   K  +   +  
Sbjct: 353 YETQINIVNILSNIDIKLEYL----SKKINYEKRYKKDLLQK 390


>gi|331090314|ref|ZP_08339198.1| hypothetical protein HMPREF1025_02781 [Lachnospiraceae bacterium
           3_1_46FAA]
 gi|330401449|gb|EGG81034.1| hypothetical protein HMPREF1025_02781 [Lachnospiraceae bacterium
           3_1_46FAA]
          Length = 363

 Score = 90.6 bits (223), Expect = 4e-16,   Method: Composition-based stats.
 Identities = 55/365 (15%), Positives = 103/365 (28%), Gaps = 20/365 (5%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
           VP+ +F K  + R  +  +DI    + + +    +Y  K+      D +T  I  +G   
Sbjct: 6   VPLGKFIKEYSERN-KGNEDIPVYSVTNSQGFCTEYFGKE--VASQDKTTYKIVPQGYFA 62

Query: 88  YGKLGPYLRKAII--ADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV-TQRIEAICEGA 144
           Y      +        +   I S  + V    + +      + L  D+  Q I+A   G+
Sbjct: 63  YNPSRINVGSVDWQRYEKRVIVSPLYNVFSVSEGIDRQYLYYFLRSDLGRQMIKAKASGS 122

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
              +     +  + +P   + +Q      +      I     E  +  E        + +
Sbjct: 123 VRDNLKLDMLKEMTIPDISVEQQKFCSSVLDKLHKLIQMRQQELQKLDEF-------IKA 175

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
             V    +     K   +     +      K   A           L   N+    +   
Sbjct: 176 RFVEMFGDVIHNSKKWQVCLFAEITSSRLGKMLDAKQQTGRNSYPYLANFNVQWFRF--- 232

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
              LE  N     E       +  G+++              +             +   
Sbjct: 233 --NLENLNKMDFDEKDRAEFELREGDLLVCEGGEIGRCAVWHNELQPCFFQKALHRVRCN 290

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSG--LRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
              I   YLAW  R       F A+         L    +K+L V VPP++ Q      +
Sbjct: 291 HQIILPDYLAWWFRYNCDYGGFSALAGAKATIAHLPGAKLKQLQVAVPPMELQEQFAVFV 350

Query: 383 NVETA 387
                
Sbjct: 351 AQTDK 355



 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 36/173 (20%), Positives = 70/173 (40%), Gaps = 11/173 (6%)

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRF 295
           P    + E + +N    +  + S++        E     +  +   TY+IV  G   +  
Sbjct: 7   PLGKFIKEYSERNKGNEDIPVYSVTNSQGFC-TEYFGKEVASQDKTTYKIVPQGYFAYNP 65

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAV-KPHGIDSTYLAWLMRSYDLCKVFYAMGSG-L 353
             +     S+   +  +R I++  Y       GID  YL + +RS    ++  A  SG +
Sbjct: 66  SRIN--VGSVDWQRYEKRVIVSPLYNVFSVSEGIDRQYLYYFLRSDLGRQMIKAKASGSV 123

Query: 354 RQSLKFEDVKRLPVLVPPIK-EQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
           R +LK + +K + +  P I  EQ       +    ++  L++  +Q +  L E
Sbjct: 124 RDNLKLDMLKEMTI--PDISVEQQK---FCSSVLDKLHKLIQMRQQELQKLDE 171


>gi|296119615|ref|ZP_06838173.1| type I restriction enzyme EcoprrI specificity protein
           [Corynebacterium ammoniagenes DSM 20306]
 gi|295967498|gb|EFG80765.1| type I restriction enzyme EcoprrI specificity protein
           [Corynebacterium ammoniagenes DSM 20306]
          Length = 371

 Score = 90.6 bits (223), Expect = 4e-16,   Method: Composition-based stats.
 Identities = 51/398 (12%), Positives = 101/398 (25%), Gaps = 52/398 (13%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           P+     P+    KL  G +               +   G      G    +     S  
Sbjct: 13  PEGVNFAPLNTVAKLKRGTSITKK-----------QVTEGDIPVVAGGRTAAYFHGESNR 61

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
               I+    G Y       +     S  F V   K  L      +       + + ++ 
Sbjct: 62  EGETIVIAGSGAYAGYVSWWEGPIFVSDAFSVKPEKRFL-IPRYCYYWLTFQQEILHSLK 120

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            G  + H   K +G + +P+PPL  Q +I E +                 +E  + + + 
Sbjct: 121 SGGGVPHVYAKDVGKLRIPVPPLEIQHVIVEILDDFAHLESEHKAVLESELEARRTQYEY 180

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
             + +++ G                   + W              K+ K    +    S 
Sbjct: 181 YRTMLLSSG-------------------EDWRWTTLGESFALKAGKSIKSDAISSRVTSD 221

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
            +I         G         Q    G                           T   +
Sbjct: 222 RHIPCFGGNGIRGFVESHSHNGQFPLIGR---------QGALCGNVNWAEGYFYATEHAI 272

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
              PH   +   A+ M       +        +  L    +KR+P  +P ++ Q +   +
Sbjct: 273 VATPHQTVNARWAYHM--LGFLDLNKYATKSAQPGLSVARLKRVPFPLPDLQIQRETAAI 330

Query: 382 INVETARIDVL-------VEKIEQSIVLLKERRSSFIA 412
           ++   + I+ L       +    +        R   + 
Sbjct: 331 LDKFGSLINDLNSVLFSEIAARRKQYEY---YRDKLLT 365


>gi|21673510|ref|NP_661575.1| type I restriction system specificity protein [Chlorobium tepidum
           TLS]
 gi|21646618|gb|AAM71917.1| type I restriction system specificity protein [Chlorobium tepidum
           TLS]
          Length = 444

 Score = 90.6 bits (223), Expect = 4e-16,   Method: Composition-based stats.
 Identities = 53/439 (12%), Positives = 132/439 (30%), Gaps = 54/439 (12%)

Query: 14  GVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK-DIIYIGLEDVESGTGKYLPKDGNSRQ 72
           G +W+G      +        ++  G++  S   + + IG+  + +G  ++ P   +  Q
Sbjct: 8   GSEWLGE-----E-------CEIVMGQSPPSETCNTVGIGIP-LLNGPTEFGPHHPSPAQ 54

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
             T        G IL+   G    +   AD +         ++ K           +   
Sbjct: 55  FTTDVRKRAIPGDILFCVRGSTTGRMNWADQEYAIGRGIAAIRHKFKPELQPFVRAVIEC 114

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
               + A   G+T  +   + + N+  P     EQ  I   +     +I+    +     
Sbjct: 115 YLPELLAQATGSTFPNVSAQQLSNLKWPELAADEQRAIAYILGTLDDKIELNRKQNETLE 174

Query: 193 ELLKEKKQALVSYI--VTKGLNPDVKMKDSG----------------IEWVGLVPDHWEV 234
            + +   +A       V   L    +   S                    +G +P+ WE+
Sbjct: 175 AMARALFKAWFVDFEPVRAKLEGRWQRGQSLPGLPAHLYDLFPDCLVDSELGEIPEGWEI 234

Query: 235 KPFFALVTELNRKNTK-----LIESNILSLSYGNIIQKLE------TRNMGLKPESYETY 283
             F  +V  +     K         +I   S  +     +       +++     +  + 
Sbjct: 235 GSFADVVEIIGGSTPKTSVSEYWGGDIPWFSVVDTPASSDVFVVQTEKSITQSGLNESSA 294

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC 343
           +++  G  +        +                 +  A++      +Y  + + +  + 
Sbjct: 295 RLISKGTTIISARGTVGNLAIAGC-----DMTFNQSCYALRSKNSLGSYFVF-LSAQRMV 348

Query: 344 KVFYAMGSGLRQS-LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
           +   AM  G   S +  +  + +  ++PP               A +   +         
Sbjct: 349 EQLKAMAHGSVFSTITRQTFEAVQTVLPPENVLQQF----ERSFASLFDEILNNVNESRT 404

Query: 403 LKERRSSFIAAAVTGQIDL 421
           L + R + +   ++G++ +
Sbjct: 405 LAKLRDTLLPKLISGELRV 423



 Score = 69.8 bits (169), Expect = 8e-10,   Method: Composition-based stats.
 Identities = 34/202 (16%), Positives = 71/202 (35%), Gaps = 14/202 (6%)

Query: 12  DSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKY-- 63
           DS    +G IP+ W++       ++  G T ++      G DI +  + D  + +  +  
Sbjct: 222 DSE---LGEIPEGWEIGSFADVVEIIGGSTPKTSVSEYWGGDIPWFSVVDTPASSDVFVV 278

Query: 64  -LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPE 122
              K       + S+  + +KG  +    G       IA  D   +     L+ K+ L  
Sbjct: 279 QTEKSITQSGLNESSARLISKGTTIISARGTV-GNLAIAGCDMTFNQSCYALRSKNSL-G 336

Query: 123 LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
               +L +  + ++++A+  G+  S    +    +   +PP            +    I 
Sbjct: 337 SYFVFLSAQRMVEQLKAMAHGSVFSTITRQTFEAVQTVLPPENVLQQFERSFASLFDEIL 396

Query: 183 TLITERIRFIELLKEKKQALVS 204
             + E     +L       L+S
Sbjct: 397 NNVNESRTLAKLRDTLLPKLIS 418


>gi|254520682|ref|ZP_05132738.1| conserved hypothetical protein [Clostridium sp. 7_2_43FAA]
 gi|226914431|gb|EEH99632.1| conserved hypothetical protein [Clostridium sp. 7_2_43FAA]
          Length = 405

 Score = 90.6 bits (223), Expect = 4e-16,   Method: Composition-based stats.
 Identities = 60/383 (15%), Positives = 127/383 (33%), Gaps = 31/383 (8%)

Query: 45  GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAII---A 101
            KD IY  +     G G +   +    +     V        +   +  + R        
Sbjct: 37  EKDKIYKQIGIRSHGKGIFYKDEVLGEELGNKRVFWIEPNVFIVNIVFAWERAVARTTEK 96

Query: 102 DFDGICSTQFLVLQPKDV---LPELLQGWLLSIDVTQRIEAICEGATMSH-ADWKGIGNI 157
           +   I S +F + +PK     L  +   +   I       A   GA  +     K   N+
Sbjct: 97  EVGMIVSHRFPMYKPKQQKLNLDYITYFFKTKIGQNLLELASPGGAGRNKTLGQKEFDNL 156

Query: 158 PMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKM 217
            + IP L EQ  I   +      I+    +        K   Q +    +    +     
Sbjct: 157 KLKIPSLEEQEKIANFLSNVDKIIEEQEGKVKDLELYKKGMMQKIFKQEIRFKDD----- 211

Query: 218 KDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKP 277
                   G     WE K    ++TE   KNT  ++   +++  G +I ++E        
Sbjct: 212 -------NGQDYPEWEEKKLSEVLTETKAKNTGDLKVCSVAVKKG-VIDQIEHLGRSFAA 263

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRSLRS-AQVMERGIITSAYMAVKPHGI-----DST 331
           +    Y++V  G++++           +   + + E  I++  Y   +P          +
Sbjct: 264 KDTSNYKLVKKGDLIYTKSPTGKFPYGIVKQSFLDEDVIVSPLYGVFEPMNYFLGYILHS 323

Query: 332 YLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-PIKEQFDITNVINVETARID 390
           Y  +   + +        G+    ++  E      + +P  ++EQ  I N +    + ID
Sbjct: 324 YFYYKENTNNYLHSIVQKGAKNTINISNETFLSKKIRLPINLEEQTKIANFL----SNID 379

Query: 391 VLVEKIEQSIVLLKERRSSFIAA 413
            ++E+  + +  L++ +   +  
Sbjct: 380 KILEEENKKLEDLRQWKKGLLQQ 402



 Score = 68.7 bits (166), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 21/177 (11%), Positives = 62/177 (35%), Gaps = 9/177 (5%)

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
            +     +   +  + +  ++  L  E            +    I    ++   R+ +  
Sbjct: 38  KDKIYKQIGIRSHGKGIFYKDEVLGEELGNKRVFWIEPNVFIVNIVFAWERAVARTTEKE 97

Query: 312 ERGIITSAYMAVKPHGI--DSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLP 366
              I++  +   KP     +  Y+ +  ++     +      G     ++L  ++   L 
Sbjct: 98  VGMIVSHRFPMYKPKQQKLNLDYITYFFKTKIGQNLLELASPGGAGRNKTLGQKEFDNLK 157

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
           + +P ++EQ  I N +    + +D ++E+ E  +  L+  +   +      +I  + 
Sbjct: 158 LKIPSLEEQEKIANFL----SNVDKIIEEQEGKVKDLELYKKGMMQKIFKQEIRFKD 210


>gi|16273200|ref|NP_439438.1| type I restriction/modification specificity protein [Haemophilus
           influenzae Rd KW20]
 gi|260581408|ref|ZP_05849222.1| type I restriction/modification specificity protein [Haemophilus
           influenzae RdAW]
 gi|1175603|sp|P44152|T1SH_HAEIN RecName: Full=Putative type-1 restriction enzyme HindVIIP
           specificity protein; Short=S.HindVIIP; AltName:
           Full=Type I restriction enzyme HindVIIP specificity
           protein; Short=S protein
 gi|1574744|gb|AAC22935.1| type I restriction/modification specificity protein (hsdS)
           [Haemophilus influenzae Rd KW20]
 gi|260091950|gb|EEW75899.1| type I restriction/modification specificity protein [Haemophilus
           influenzae RdAW]
          Length = 459

 Score = 90.6 bits (223), Expect = 5e-16,   Method: Composition-based stats.
 Identities = 66/471 (14%), Positives = 150/471 (31%), Gaps = 87/471 (18%)

Query: 23  KHWKVVPIKRFT-KLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
             WK   +   +  ++      +  ++++I   DV +    +     N +          
Sbjct: 2   SDWKEYSLGDISRNISRRFDFNAYPNVVFINTGDVLNNKFLHCEI-SNVKDLPGQAKKAI 60

Query: 82  AKGQILYGKLGPYLRKAIIADF---DGICSTQFLVLQPKDVL--PELLQGWLLSIDVTQR 136
            KG ILY ++ P   + +  D    + + ST+F+V++P   +  PE L   L+S + T+ 
Sbjct: 61  KKGDILYSEIRPGNGRYLFVDNDLDNYVVSTKFMVIEPNANIVLPEFLFLLLISNETTEY 120

Query: 137 IEAI--CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
            + I      T     +  + ++ + IP    Q  I + I     +I+          ++
Sbjct: 121 FKMIAESRSGTFPQITFDSVSSLSLNIPDKETQQKILDIITPLDDKIELNTQINQTLEQI 180

Query: 195 LKEKKQALV---------SYIVTKGL---------------------------------- 211
            +   ++           +  ++ G+                                  
Sbjct: 181 AQALFKSWFVDFDPVRAKAQALSDGMSLEQAELAAMQAISGKTPEELTALSQTQPDRYAE 240

Query: 212 -------NPDVKMKDSGIEWVG-LVPDHWEVKPFFALVTELNRK-----NTKLIESNILS 258
                   P   ++  G+E  G  VP  WE+K    L   +  K     N +    ++  
Sbjct: 241 LAETAKAFPCEMVEVDGVEVDGVEVPRGWEMKALSDLGQIICGKTPSKSNKEFYGDDVPF 300

Query: 259 LSYGNIIQKL----ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
           +   ++  ++     T N+ +   +Y++ + +    I    I                + 
Sbjct: 301 IKIPDMHNQVFITQTTDNLSVVGANYQSKKYIPAKSICVSCIATVGLVSMTSKPSHTNQQ 360

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ--SLKFEDVKRLPVLVPPI 372
           I +     +        +L   ++   + K    + SG     +L      ++ ++ P  
Sbjct: 361 INS----IIPDDEQSCEFLYLSLKQPSMTKYLKDLASGGTATLNLNTSTFSKIEIITPSK 416

Query: 373 KE----QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
           +     Q  + ++          L   IE     L E R   +   + G+I
Sbjct: 417 EIIYIFQKKVVSIFEK------TLSNSIENK--RLTEIRDLLLPRLLNGEI 459



 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 18/140 (12%), Positives = 49/140 (35%), Gaps = 8/140 (5%)

Query: 14  GVQWIG-AIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESG-TGKYLP 65
           GV+  G  +P+ W++  +    ++  G+T         G D+ +I + D+ +        
Sbjct: 257 GVEVDGVEVPRGWEMKALSDLGQIICGKTPSKSNKEFYGDDVPFIKIPDMHNQVFITQTT 316

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ 125
            + +   ++  +        I    +      ++ +           ++   +   E L 
Sbjct: 317 DNLSVVGANYQSKKYIPAKSICVSCIATVGLVSMTSKPSHTNQQINSIIPDDEQSCEFLY 376

Query: 126 GWLLSIDVTQRIEAICEGAT 145
             L    +T+ ++ +  G T
Sbjct: 377 LSLKQPSMTKYLKDLASGGT 396


>gi|322392313|ref|ZP_08065774.1| type I restriction-modification system specificity subunit
           [Streptococcus peroris ATCC 700780]
 gi|321144848|gb|EFX40248.1| type I restriction-modification system specificity subunit
           [Streptococcus peroris ATCC 700780]
          Length = 384

 Score = 90.6 bits (223), Expect = 5e-16,   Method: Composition-based stats.
 Identities = 45/390 (11%), Positives = 116/390 (29%), Gaps = 27/390 (6%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W    +     +  G++ +S           +  G           R   T    +  KG
Sbjct: 18  WGNTKLTEKAPIIMGQSPDSKNYTDNPNDYILVQGNADMKNGRVFPRVWTTQVTKLAEKG 77

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            ++     P        D+  +       ++  D L       L  +  +        G+
Sbjct: 78  DLILSVRAPV-GDIGKTDYTVVLGRGVAAIKGNDFL----FYLLSKMKQSNYWARFSTGS 132

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
           T    +   I    + IP   EQ  I          +         +  L   K   +  
Sbjct: 133 TFESINSGDIRFAEIMIPSPEEQSAIGSLFRNLDDLLACYKDNLANYQSLKATKLSKMFP 192

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
                   P++++     EW     ++  +     +    + K+    ++    +     
Sbjct: 193 KAGQT--VPEIRLDGFEGEW-----ENKILSEVTNITMGQSPKSENYTDNPNDYILVQGN 245

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
              ++ + +  +  + E  +  + G+I+        D        V+ RG+         
Sbjct: 246 AD-IKDKQVVPRLWTTEVTKTAEIGDIILTVRAPVGDIGKTDYNVVIGRGVAA------- 297

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
                + ++ + +    +   +  + +G   +S+   D+K   + +P ++EQ  I     
Sbjct: 298 --IKGNDFIFYTLEKMKMTGFWNRLSTGSTFESISSNDIKEAIIQIPTLEEQQAIGTY-- 353

Query: 384 VETARIDVLVEKIEQSIVLLKERRSSFIAA 413
              + +D L+   ++ I  ++  +   +  
Sbjct: 354 --FSNLDNLINSHQEKITQIETLKKKLLQD 381


>gi|298502302|ref|YP_003724242.1| type I site-specific deoxyribonuclease [Streptococcus pneumoniae
           TCH8431/19A]
 gi|298237897|gb|ADI69028.1| possible type I site-specific deoxyribonuclease [Streptococcus
           pneumoniae TCH8431/19A]
          Length = 426

 Score = 90.6 bits (223), Expect = 5e-16,   Method: Composition-based stats.
 Identities = 67/415 (16%), Positives = 138/415 (33%), Gaps = 64/415 (15%)

Query: 42  SESGKDIIYIGLEDVESGTGKYLPKDG---NSRQSDTSTVSIFAKGQILYGKLGPYLRKA 98
           ++  K   YI    ++        K+    +  Q+ +    + ++  +L+  + PYL+  
Sbjct: 13  NKPEKSFRYIDTSSIDRKKNIINYKNLQYLSPEQAPSRARKLVSQNSVLFSTVRPYLKNI 72

Query: 99  IIA---DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIG 155
            +        I ST F+VL        L   +LLS +   R+     G +    +     
Sbjct: 73  AVVRELKEYLIASTAFIVLDTLLNETYLKY-YLLSDNFINRVNNKSTGTSYPAINDYNFN 131

Query: 156 NIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK----QALVSYIVTKGL 211
            + + +PPL+EQ  I E I +   ++D       R  +L KE      ++++ Y +   L
Sbjct: 132 LLLIALPPLSEQQRIIEAIESALEKVDEYAESYNRLEQLDKEFPDKLKKSILQYAMQGKL 191

Query: 212 NPDVKMKDS---------------------------------------GIEWVGLVPDHW 232
                  +S                                         E    +P+ W
Sbjct: 192 VEQDPNDESVEVLLEKIRAEKQKLFEEGKIKKKDLDISIVSQGDDNSYYEEVPCEIPESW 251

Query: 233 EVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL-------KPESYETYQI 285
           E      + + + R  +    +  +         +    ++ L          SY+  ++
Sbjct: 252 EWVRLNDITSYIQRGKSPKYSNIPIYPVIAQKCNQWSGFSIDLARFIDPETVHSYQKERL 311

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA-----YMAVKPHGIDSTYLAWLMRSY 340
           +  G++++    L    R     +         A      + V    I+  ++   + S 
Sbjct: 312 LRDGDLMWNSTGLGTLGRLAIYHENKNPYAWAVADSHVTVIRVLSGVINCHFIYNFLSSP 371

Query: 341 DLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
            +  V     SG   ++ L  + +K   + +PP+ EQ  I + I    A ID L+
Sbjct: 372 IVQSVIEEKASGSTKQKELLTKTIKEYLIPLPPLPEQSRIVDKIEQFFAHIDALI 426



 Score = 70.6 bits (171), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 29/192 (15%), Positives = 66/192 (34%), Gaps = 7/192 (3%)

Query: 232 WEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEI 291
             +K  +    +   + +             NII     + +  +       ++V    +
Sbjct: 1   MRIKSIYWNFGQNKPEKSFRYIDTSSIDRKKNIINYKNLQYLSPEQAPSRARKLVSQNSV 60

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
           +F  +       ++     ++  +I S    V    ++ TYL + + S +         +
Sbjct: 61  LFSTVRPYLKNIAVVR--ELKEYLIASTAFIVLDTLLNETYLKYYLLSDNFINRVNNKST 118

Query: 352 GLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----R 406
           G    ++   +   L + +PP+ EQ  I   I     ++D   E   +   L KE     
Sbjct: 119 GTSYPAINDYNFNLLLIALPPLSEQQRIIEAIESALEKVDEYAESYNRLEQLDKEFPDKL 178

Query: 407 RSSFIAAAVTGQ 418
           + S +  A+ G+
Sbjct: 179 KKSILQYAMQGK 190



 Score = 50.9 bits (120), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 29/181 (16%), Positives = 50/181 (27%), Gaps = 15/181 (8%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT-----GKYLPKDGNSRQSD 74
            IP+ W+ V +   T       S    +I    +   +                      
Sbjct: 246 EIPESWEWVRLNDITSYIQRGKSPKYSNIPIYPVIAQKCNQWSGFSIDLARFIDPETVHS 305

Query: 75  TSTVSIFAKGQILYGKL--GPYLRKAIIADF-----DGICSTQFLVLQPKDVLPELLQGW 127
                +   G +++     G   R AI  +        +  +   V++    +      +
Sbjct: 306 YQKERLLRDGDLMWNSTGLGTLGRLAIYHENKNPYAWAVADSHVTVIRVLSGVINCHFIY 365

Query: 128 LLSIDVTQR---IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
                   +    E             K I    +P+PPL EQ  I +KI      ID L
Sbjct: 366 NFLSSPIVQSVIEEKASGSTKQKELLTKTIKEYLIPLPPLPEQSRIVDKIEQFFAHIDAL 425

Query: 185 I 185
           I
Sbjct: 426 I 426


>gi|28868302|ref|NP_790921.1| type I restriction-modification system, S subunit [Pseudomonas
           syringae pv. tomato str. DC3000]
 gi|28851539|gb|AAO54616.1| type I restriction-modification system, S subunit [Pseudomonas
           syringae pv. tomato str. DC3000]
          Length = 422

 Score = 90.2 bits (222), Expect = 5e-16,   Method: Composition-based stats.
 Identities = 71/436 (16%), Positives = 140/436 (32%), Gaps = 56/436 (12%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
             W+ +    F  +  G             L D     G               TV    
Sbjct: 3   SEWREITFGDFVAIQRGHD-----------LPDQNRKLGSVPILGSFGITGYHDTVKAKG 51

Query: 83  KGQILYGKLGPYLRKAIIAD-FDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            G +  G+ G     A   D      +T   V   K   P+ +  ++   D         
Sbjct: 52  PG-VTIGRSGASFGVAAYTDQDYWPLNTALYVTDFKGNHPKFVFYFMRVFDF----SGFN 106

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            G+     +   +  + + +P   EQ+ I + + A   RI  L+        + +   ++
Sbjct: 107 SGSAQPSLNRNNLYPVSIRVPQPNEQMAISKLLAALDDRIALLVETNTTLESIAQALFKS 166

Query: 202 LVS-----YIVTKGLNPDVKMKDS--------GIEWVGLVPDHWEVKPFFALVTELNRKN 248
                        GL P+     +            +GLVP  W ++    +   +  K+
Sbjct: 167 WFVDFDPVRAKVAGLEPEGMDAATAALFPDNFEESELGLVPTGWIIESIANVAEVVKGKS 226

Query: 249 TKLIE----SNILSLSYGNIIQKLETRNMGLKPE--SYETYQIVDPGEIVFRFIDLQ--- 299
            K  E     +   ++  +  +    R  G KP   SY+  Q+V PG+++  + D+    
Sbjct: 227 YKSTELAESHHTALVTLKSFSRGGGFRLDGFKPYTGSYKQTQVVVPGDLIIAYTDVTQAA 286

Query: 300 --NDKRSLRSAQVMERGIITS---AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL- 353
               K ++       + ++ S     +      +   YL  L R+       +A  SG  
Sbjct: 287 ELIGKPAIVVGVEDYQTLVASLDVGIVRTNNPRVSRQYLYGLFRTELFQSHTFAHTSGTT 346

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL---LKERRSSF 410
              L  + V       P      ++    +  T   + L E+ + +I     L + R + 
Sbjct: 347 VLHLAKDGVGSYKFACPS----QELVQCFSAVT---ETLSERCQNNIDQMRTLTQLRDTL 399

Query: 411 IAAAVTGQIDLRGESQ 426
           +   ++GQ+ L  E++
Sbjct: 400 LPRLISGQLRL-PEAE 414



 Score = 49.4 bits (116), Expect = 0.001,   Method: Composition-based stats.
 Identities = 26/204 (12%), Positives = 53/204 (25%), Gaps = 18/204 (8%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGK-----DIIYIGLEDVESGTGKYLPKDGNSRQ 72
           +G +P  W +  I    ++  G++ +S +         + L+    G G +         
Sbjct: 203 LGLVPTGWIIESIANVAEVVKGKSYKSTELAESHHTALVTLKSFSRGGG-FRLDGFKPYT 261

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICS------------TQFLVLQPKDVL 120
                  +   G ++           +I     +                 +      V 
Sbjct: 262 GSYKQTQVVVPGDLIIAYTDVTQAAELIGKPAIVVGVEDYQTLVASLDVGIVRTNNPRVS 321

Query: 121 PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
            + L G   +        A   G T+ H    G+G+     P               + R
Sbjct: 322 RQYLYGLFRTELFQSHTFAHTSGTTVLHLAKDGVGSYKFACPSQELVQCFSAVTETLSER 381

Query: 181 IDTLITERIRFIELLKEKKQALVS 204
               I +     +L       L+S
Sbjct: 382 CQNNIDQMRTLTQLRDTLLPRLIS 405


>gi|145222996|ref|YP_001133674.1| restriction modification system DNA specificity subunit
           [Mycobacterium gilvum PYR-GCK]
 gi|145215482|gb|ABP44886.1| restriction modification system DNA specificity domain
           [Mycobacterium gilvum PYR-GCK]
          Length = 442

 Score = 90.2 bits (222), Expect = 5e-16,   Method: Composition-based stats.
 Identities = 62/426 (14%), Positives = 136/426 (31%), Gaps = 31/426 (7%)

Query: 24  HWKVVPIKRFTKLNTG-----RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
            W +V +    ++  G     + +       ++ + +V +                    
Sbjct: 2   SWPLVALADVAEIQGGIQKQPKRTARDNAFPFLRVANVTARGLALDEVHTIELFDGELER 61

Query: 79  SIFAKGQILY---GKLGPYLRKAIIADF---DGICSTQFLVLQPKDVLPELLQGWLLSID 132
               +G +L          + +A + D    D +     + ++P   +     G L +  
Sbjct: 62  YRLLRGDLLVVEGNGSASQIGRAAVWDGSITDAVHQNHLIRVRPGFQIDPRFLGHLWNSP 121

Query: 133 VTQRIEAICEGAT--MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
           + +   +    +T  +       +  I +P+P L EQ  I + +     R+D   +E  R
Sbjct: 122 LIRDELSRVASSTSGLHTLSVTKLKRITLPLPSLTEQRRIVDLLEDHLSRLDAGRSEVER 181

Query: 191 FIEL-----LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFAL----- 240
                     +   QAL         +  +    +    +  +P  W       +     
Sbjct: 182 AAAKLAILRERTVIQALTGGAEANREDARLTDVSTADGDLSALPIGWSWSRLGDVADVVG 241

Query: 241 -VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK---PESYETYQIVDPGEIVFR-F 295
            VT+ ++K +      +  L   N+ +     +   K   P+S      + PG+++    
Sbjct: 242 GVTKDSKKQSDPNYVEVPYLRVANVQRGRLNLDEVTKIRVPQSKADALRLRPGDVLLNEG 301

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMA--VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL 353
            D     R       +   I  +      +    ID  +L+W   +             +
Sbjct: 302 GDRDKLARGWVWEGQVPDCIHQNHVFRARITDPRIDPYFLSWTANTIGGRWAERNGKQSV 361

Query: 354 R-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
              S+    ++R+PV+VPP  E   I   +    +  D L + I   +      + S + 
Sbjct: 362 NLASISLSMIRRMPVIVPPPGEAVRIATELRDSRSDFDRLEKSIRDGMDRALVLKKSLLT 421

Query: 413 AAVTGQ 418
           AA +G+
Sbjct: 422 AAFSGR 427



 Score = 60.6 bits (145), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 27/206 (13%), Positives = 59/206 (28%), Gaps = 14/206 (6%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYLPKDGNSRQS 73
           +P  W    +     +  G T +S K       ++ Y+ + +V+ G              
Sbjct: 224 LPIGWSWSRLGDVADVVGGVTKDSKKQSDPNYVEVPYLRVANVQRGRLNLDEVTKIRVPQ 283

Query: 74  DTSTVSIFAKGQILYGKLGPY----LRKAIIADFDGICSTQFL---VLQPKDVLPELLQG 126
             +       G +L  + G                       +    +    + P  L  
Sbjct: 284 SKADALRLRPGDVLLNEGGDRDKLARGWVWEGQVPDCIHQNHVFRARITDPRIDPYFLSW 343

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
              +I          +   ++      I  +P+ +PP  E V I  ++       D L  
Sbjct: 344 TANTIGGRWAERNGKQSVNLASISLSMIRRMPVIVPPPGEAVRIATELRDSRSDFDRLEK 403

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLN 212
                ++     K++L++   +  L 
Sbjct: 404 SIRDGMDRALVLKKSLLTAAFSGRLT 429


>gi|281358282|ref|ZP_06244765.1| restriction modification system DNA specificity domain protein
           [Victivallis vadensis ATCC BAA-548]
 gi|281315372|gb|EFA99402.1| restriction modification system DNA specificity domain protein
           [Victivallis vadensis ATCC BAA-548]
          Length = 375

 Score = 90.2 bits (222), Expect = 5e-16,   Method: Composition-based stats.
 Identities = 61/395 (15%), Positives = 126/395 (31%), Gaps = 34/395 (8%)

Query: 29  PIKRFTKLNTGR-TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
            +  +   +  + +        Y   E++    G      G   Q     V+      +L
Sbjct: 8   KLSDYADYSKAKISIAEIDTKCYFSTENMLPNKGGVTEAAGLPTQD---NVTKVLPENVL 64

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKD-VLPELLQGWLLSIDVTQRIEAICEGATM 146
              + PY +K   A+     S   L    K+  LP  L   L S      + A  +G  M
Sbjct: 65  VSNIRPYFKKIYFANELAGASNDVLCFVAKNGCLPRYLYYLLSSDSFFDYMMAGAKGTKM 124

Query: 147 SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYI 206
              D   I N P+ +P   EQ  I   + A   +I+ +        E  K   ++   + 
Sbjct: 125 PRGDKGQIMNFPVWVPAQNEQSRIVSVLSALDEKIENISKINHNLEEQAKAIFKS---WF 181

Query: 207 VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ 266
           +      D +  DS    +G +P  W+V     ++     K     E   L+     +  
Sbjct: 182 IDFEPFRDGEFVDS---ELGQIPAGWQVGTLKDMLEVRYGK-----EHKKLADGAIPVYG 233

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
                    K        ++     +   + +             E   + + + +V   
Sbjct: 234 SGGLMRHVEKALYNGESVLIPRKGTLNNVMRVTG-----------EFWTVDTMFYSVPRK 282

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
              + YL  ++   DL             S+  + +  + +++PP      +    +  T
Sbjct: 283 TGAAKYLYHILSKLDLT---SMNSGSAVPSMTTDILNAIKIILPP----DKVLKDFDYLT 335

Query: 387 ARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           +     +E  +  +  L + R + +   ++G+ID+
Sbjct: 336 SFFWESIETKKMEMQKLAQLRDALLPELMSGEIDV 370



 Score = 66.4 bits (160), Expect = 8e-09,   Method: Composition-based stats.
 Identities = 27/181 (14%), Positives = 50/181 (27%), Gaps = 4/181 (2%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG 289
            + +++           K +          S  N++             + +    V P 
Sbjct: 2   KNNQLEKLSDYADYSKAKISIAEIDTKCYFSTENMLPNKGGVTEAAGLPTQDNVTKVLPE 61

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
            ++   I     K    +      G        V  +G    YL +L+ S        A 
Sbjct: 62  NVLVSNIRPYFKKIYFANELA---GASNDVLCFVAKNGCLPRYLYYLLSSDSFFDYMMAG 118

Query: 350 GSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
             G          +   PV VP   EQ  I +V++    +I+ + +         K    
Sbjct: 119 AKGTKMPRGDKGQIMNFPVWVPAQNEQSRIVSVLSALDEKIENISKINHNLEEQAKAIFK 178

Query: 409 S 409
           S
Sbjct: 179 S 179



 Score = 47.5 bits (111), Expect = 0.004,   Method: Composition-based stats.
 Identities = 30/201 (14%), Positives = 69/201 (34%), Gaps = 25/201 (12%)

Query: 12  DSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSR 71
           DS    +G IP  W+V  +K   ++  G+  +   D                +P  G+  
Sbjct: 194 DSE---LGQIPAGWQVGTLKDMLEVRYGKEHKKLADGA--------------IPVYGSGG 236

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
                  +++    +L  + G       +        T F  +  K    + L   L  +
Sbjct: 237 LMRHVEKALYNGESVLIPRKGTLNNVMRVTGEFWTVDTMFYSVPRKTGAAKYLYHILSKL 296

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
           D+T    ++  G+ +       +  I + +PP      + +     T      I  +   
Sbjct: 297 DLT----SMNSGSAVPSMTTDILNAIKIILPP----DKVLKDFDYLTSFFWESIETKKME 348

Query: 192 IELLKEKKQALVSYIVTKGLN 212
           ++ L + + AL+  +++  ++
Sbjct: 349 MQKLAQLRDALLPELMSGEID 369


>gi|108800742|ref|YP_640939.1| restriction endonuclease S subunits-like protein [Mycobacterium sp.
           MCS]
 gi|119869881|ref|YP_939833.1| restriction endonuclease S subunits-like protein [Mycobacterium sp.
           KMS]
 gi|108771161|gb|ABG09883.1| Restriction endonuclease S subunits-like protein [Mycobacterium sp.
           MCS]
 gi|119695970|gb|ABL93043.1| restriction endonuclease S subunits-like protein [Mycobacterium sp.
           KMS]
          Length = 419

 Score = 90.2 bits (222), Expect = 6e-16,   Method: Composition-based stats.
 Identities = 66/420 (15%), Positives = 139/420 (33%), Gaps = 42/420 (10%)

Query: 24  HW-KVVPIKRFTK---LNTG-----RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
            W + V +    +    + G     +  ++  D+    L DV  G  +        R   
Sbjct: 2   SWAQEVTLAELAEGGLFSDGDWVESKDQDASGDVRLTQLADVGVGEFRDRSDRWMRRDQA 61

Query: 75  TSTVSIFAKGQ-ILYGKL-GPYLRKAIIADFDG----ICSTQFLVLQPKDVLPELLQGWL 128
                 F +G  +L  ++  P  R  ++    G    +     L L  +D  P  +   L
Sbjct: 62  HRLRCTFLEGDDVLIARMPDPIGRSCLVPSSVGSAVTVVDVAILRLARRDANPRYVMWAL 121

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
            S     ++ A+  G T      K + ++ +P+P L EQ  I + +     R+D   +  
Sbjct: 122 NSPRFHSKVVALQSGTTRKRISRKNLASLTIPLPTLDEQNRIVDLLEDHLSRLDAAESSL 181

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN 248
              ++       A +    T G           +  +       +               
Sbjct: 182 RLAMQKADAMTTASLDRQTTAGSRAWRDTTIGAMAELVEYGSSAKC-------------A 228

Query: 249 TKLIESNILSLSYGNIIQ-KLETRNMGLKPESYETYQ--IVDPGEIVFRFIDLQNDKRSL 305
            +  +S++  L  GNI   K+    +   P  +  +   ++  G++VF   +        
Sbjct: 229 GQAADSDVPVLRMGNIQNGKINWTGLKYLPAGHAEFPKLLLQSGDLVFNRTNSAELVGKS 288

Query: 306 RSAQVMERGIITSAYMAVKP-HGIDSTYLAWLMRSYDLCKVFYAMGSG--LRQSLKFEDV 362
              +        S  + V+    ++  +   ++ S    +   ++ S    + ++    +
Sbjct: 289 AVFEDTRAASFASYLIRVRFGQEVNPAWANMVINSPAGRRYVKSVASQQVGQANVNGTKL 348

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL----KERRSSFIAAAVTGQ 418
           K  P+ +PP+ EQ       +       V  E++   I  L       R + +AAA TG+
Sbjct: 349 KAFPLPLPPLDEQCRRVRAHDEVV----VSRERLHHQIADLVVRAAGLRRALLAAAFTGR 404


>gi|257088126|ref|ZP_05582487.1| type I restriction-modification system specificity subunit protein
           [Enterococcus faecalis D6]
 gi|256996156|gb|EEU83458.1| type I restriction-modification system specificity subunit protein
           [Enterococcus faecalis D6]
          Length = 380

 Score = 90.2 bits (222), Expect = 6e-16,   Method: Composition-based stats.
 Identities = 53/393 (13%), Positives = 112/393 (28%), Gaps = 34/393 (8%)

Query: 25  WKVVPIKRFTKLNTGRTS-----ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           W+   +     +   +           DI +  +    +    ++ ++            
Sbjct: 13  WEQCKLGDLGSVAMNKRIFKEQTSESGDIPFYKIGTFGATADAFISRELFET--YKKKYP 70

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
               G +L    G   R       D       +V    D     L        V      
Sbjct: 71  YPKIGDLLISASGSIGRVVEYKGNDEYFQDSNIVWLKHDDRINNLFLKQFYSIVKWHGL- 129

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
             EG+T+     K I    + +P   EQ    EKI     ++D +IT   R +E LKE K
Sbjct: 130 --EGSTIKRLYNKNILETTIHLPVFDEQ----EKIGTLFKQLDDIITLHQRKLEQLKELK 183

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
           +A +  +         K++ +  E    +     +        +   + +    +     
Sbjct: 184 KAYLQLMFPTKEERVPKLRFADFEGEWELCKLIGILDIIKGTQKSKSELSTNQNNCTPYP 243

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
            Y   I      N+  +                      +    +     V E+      
Sbjct: 244 VYNGGINPSGYTNIYNREN---------------AITISEGGNSAGFVNFVQEKFFSGGH 288

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
              +  +  D+ +L + + S    ++          +++   +  L +      EQ  I 
Sbjct: 289 NYTIVNNVTDTLFLFFYLCSIQ-EEIMRLRVGTGLPNIQKPTLMNLEIQKTTDNEQKFIG 347

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
             +      ID+L+   +  +  LK  + S++ 
Sbjct: 348 LFL----KNIDILITLTQNKLNQLKSLKKSYLQ 376


>gi|30250445|ref|NP_842515.1| restriction modification system, type I [Nitrosomonas europaea ATCC
           19718]
 gi|30139286|emb|CAD86438.1| Restriction modification system, type I [Nitrosomonas europaea ATCC
           19718]
          Length = 396

 Score = 90.2 bits (222), Expect = 6e-16,   Method: Composition-based stats.
 Identities = 56/404 (13%), Positives = 133/404 (32%), Gaps = 40/404 (9%)

Query: 24  HWKVVPIKRFTKLNTGRT-SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI-F 81
            W+ V      +    +   E+     YI  + +++   +                 + F
Sbjct: 9   GWRRVKFGDVVRQCKEKADPETSGLERYIAGDHMDTDDLRLRRWGEIGSGYLGPAFHMRF 68

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLV---LQPKDVLPELLQGWLLSIDVTQRIE 138
             GQ+LYG    YLRK  +ADF+GIC+    V     P ++LPE L   + +        
Sbjct: 69  KPGQVLYGSRRTYLRKVAVADFEGICANTTFVLEPHNPNELLPEFLPFLMQTEAFNDFSV 128

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
              +G+   + ++  +      +PP+ EQ      + A T +   +         +L+  
Sbjct: 129 KNSKGSVNPYINFSDLAKFEFVLPPIDEQQSAIALLSAATDQCHAVEAAHRAAGRMLQSF 188

Query: 199 KQALVSYIVTKGLNPDVKMKDSGI--EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
           K +L+       L     + +S +  + +   P+     P                   +
Sbjct: 189 KDSLL-------LRKTSSLANSFLLGDLLLRSPESGCSAP----------PKDADTGYFV 231

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
           L L+  +    +      ++P S      +  G+++    +  +    +         + 
Sbjct: 232 LGLAALSRDGYVSGDFKPVEPTSKMVAAKLSMGDMLISRSNTVDRVGFVGIFSDNRDDVS 291

Query: 317 TSAYMA---VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVP 370
               M      P  +   +L  L+++    +    + +G     + +   ++ ++ + VP
Sbjct: 292 FPDTMMRLQPNPALVHPHFLEALLQTTSAREFLMRIAAGTSASMKKINRANLLQMRLNVP 351

Query: 371 PIKEQFDITNVINVETARIDVLVEKIE------QSIVLLKERRS 408
            +  Q      ++    +    +   +      + +  L   R+
Sbjct: 352 DLDVQEM---ALDEL-QQFKNAIATQKARWDAARQLTRLIAMRT 391



 Score = 69.1 bits (167), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 18/132 (13%), Positives = 52/132 (39%), Gaps = 6/132 (4%)

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA--VKPHGIDSTYLAWLMRSY 340
           +    PG++++        K ++   + +      + ++     P+ +   +L +LM++ 
Sbjct: 65  HMRFKPGQVLYGSRRTYLRKVAVADFEGI---CANTTFVLEPHNPNELLPEFLPFLMQTE 121

Query: 341 DLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
                      G +   + F D+ +   ++PPI EQ     +++  T +   +      +
Sbjct: 122 AFNDFSVKNSKGSVNPYINFSDLAKFEFVLPPIDEQQSAIALLSAATDQCHAVEAAHRAA 181

Query: 400 IVLLKERRSSFI 411
             +L+  + S +
Sbjct: 182 GRMLQSFKDSLL 193


>gi|257417158|ref|ZP_05594152.1| restriction endonuclease S subunit [Enterococcus faecalis AR01/DG]
 gi|257158986|gb|EEU88946.1| restriction endonuclease S subunit [Enterococcus faecalis ARO1/DG]
          Length = 367

 Score = 90.2 bits (222), Expect = 6e-16,   Method: Composition-based stats.
 Identities = 56/392 (14%), Positives = 124/392 (31%), Gaps = 48/392 (12%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDV-ESGTGKYLPKDGNSRQSDTSTVSIF 81
           + W++  ++    + +GR      D  ++G  ++   GTG Y+     +   D       
Sbjct: 18  EDWELCKLEEIVDVRSGR------DYKHLGSGNIPVYGTGGYMLSVSEALSYDEDA---- 67

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
               I  G+ G      I+        T F  +   +     +             ++  
Sbjct: 68  ----IGIGRKGTINNPYILKAPFWTVDTLFYTVPKNNFDLNFIYSIFR----KTNWKSKD 119

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
           E   +       I  + + IP  +EQ  I +       ++D  IT   R ++ LKE K+A
Sbjct: 120 ESTGVPSLSKTTINAVTVYIPSGSEQQRIGKF----FKQLDDTITLHQRKLDQLKELKKA 175

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
            +  +         K++ +  E      + WE++    +      K              
Sbjct: 176 YLQLMFPVKDERVPKLRFADFE------EEWELRKLGDITKISTGKLDANAM-------- 221

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
                 +E           + Y+I  P           N            +        
Sbjct: 222 ------VENGKYDFYTSGIKKYRIDVPAFEGPAITIAGNGATVGYMHLADNKFNAYQRTY 275

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-PIKEQFDITN 380
            ++   +D ++L   + +    K+     +G    +  + +  L + +P    EQ  I +
Sbjct: 276 VLQKFVVDRSFLFSEVGNKLPKKINQEARTGNIPYIVMDMLTELKLSIPQDEAEQSKIGS 335

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
                  +ID  +   ++ +  LK+ ++S++ 
Sbjct: 336 F----FKQIDKTIALHQKKLEQLKDLKTSYLQ 363


>gi|88812209|ref|ZP_01127460.1| type I restriction-modification system, S subunit [Nitrococcus
           mobilis Nb-231]
 gi|88790460|gb|EAR21576.1| type I restriction-modification system, S subunit [Nitrococcus
           mobilis Nb-231]
          Length = 577

 Score = 90.2 bits (222), Expect = 6e-16,   Method: Composition-based stats.
 Identities = 65/458 (14%), Positives = 133/458 (29%), Gaps = 84/458 (18%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESG----KDIIYIGLEDVESGTGKYLPKDGNSRQS--D 74
           +P  W+   +     L T  T  +     K + +I ++D+  G  ++      S++    
Sbjct: 102 LPPRWRWSRLGGLALLVTDGTHHTPQYVAKGVPFISVKDISGGQLRFSDTKFISQEEHQT 161

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAII---ADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
            S+     +  IL  ++G   +  I+     F    S   +       +    +  L S 
Sbjct: 162 ISSRCNPERNDILLCRIGTLGKPVIVDTDQPFSLFVSVGLIKTPKSTPITRWTKLVLESP 221

Query: 132 DVTQRIEAICEGATM-SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT------- 183
            +  + EAI  G +  +  +   I  + +P+PPLA Q  I  K+       D        
Sbjct: 222 LMLGQYEAIKAGGSHTNKLNLGDIPKLMVPLPPLAGQARIVAKVDELMALCDRLEAQQAD 281

Query: 184 ----------------------------------LITERIRFIELLKEKKQALVSYIVTK 209
                                                        +   KQ L+   V  
Sbjct: 282 TEAAHTTLVKTLLDTLTQSRSAEDFAANWQRLSAHFDTLFTTEPSIDTLKQTLLQLAVMG 341

Query: 210 GLNPDVKM---------------------KDSGIEWVGLVPDHWEVKPFFALVTE----- 243
            L P                         + +  E +  +P  WE      L        
Sbjct: 342 KLVPQDPSDGPASELLKRLRGRNGNRQVGRRTNEEALPALPAGWECVSVGDLGPIAGGAT 401

Query: 244 LNRKNTKLIESNILSLSYGNIIQKLETRNMGLKP---ESYETYQIVDPGEIVFRFIDLQN 300
            N+ +  L    I  +S  ++ +      +           + +++  G ++     +  
Sbjct: 402 PNKGDASLWSGTIPWVSPKDMKRSYINDAVDHVSAVAIEKTSLKLIPAGSLLLVVRGMIL 461

Query: 301 DKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR--SYDLCKVFYAMGSGLRQSLK 358
              S   A       I     A+      + ++ + ++     + ++      G    LK
Sbjct: 462 -AHSFPVAISQVPLCINQDMKAISLLPEMAEFVLYALQGLKPHILQLIERSSHGT-CKLK 519

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
            E +   P  +PP+ EQ  I   ++      D L  ++
Sbjct: 520 SETLFGHPFPLPPLAEQHRIVAKVDELMVLCDRLKARL 557



 Score = 61.0 bits (146), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 30/198 (15%), Positives = 61/198 (30%), Gaps = 9/198 (4%)

Query: 16  QWIGAIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGN 69
           + + A+P  W+ V +     +  G T   G        I ++  +D++           +
Sbjct: 376 EALPALPAGWECVSVGDLGPIAGGATPNKGDASLWSGTIPWVSPKDMKRSYINDAVDHVS 435

Query: 70  SRQSDTSTVSIFAKGQILYGKLG---PYLRKAIIADFDGICSTQFLVLQPKDVLPELLQG 126
           +   + +++ +   G +L    G    +     I+      +     +     + E +  
Sbjct: 436 AVAIEKTSLKLIPAGSLLLVVRGMILAHSFPVAISQVPLCINQDMKAISLLPEMAEFVLY 495

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
            L  +                    + +   P P+PPLAEQ  I  K+    V  D L  
Sbjct: 496 ALQGLKPHILQLIERSSHGTCKLKSETLFGHPFPLPPLAEQHRIVAKVDELMVLCDRLKA 555

Query: 187 ERIRFIELLKEKKQALVS 204
                  +      AL  
Sbjct: 556 RLAHCRIVHGRLADALAQ 573


>gi|291485259|dbj|BAI86334.1| hypothetical protein BSNT_04127 [Bacillus subtilis subsp. natto
           BEST195]
          Length = 439

 Score = 90.2 bits (222), Expect = 6e-16,   Method: Composition-based stats.
 Identities = 71/420 (16%), Positives = 141/420 (33%), Gaps = 50/420 (11%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +P++W  V +        G      K    +  E+     G  +P  G + Q       
Sbjct: 25  ELPENWIWVKL------LNGYAVCLDKYRKPVNAEERAKRVGN-IPYYGATGQVGWIDDY 77

Query: 80  IFAKGQILYGKLG-----PYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
           +  +  +L G+ G     P+  KA I       +    +L+        L          
Sbjct: 78  LTDEELVLLGEDGVPFLEPFKNKAYIIREKAWVNNHAHILRSNFGSEGNLFLLHYLNQF- 136

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
                   G T      K +  IP+P+PPL EQ  I EK+     +I+          E 
Sbjct: 137 -NFNGYVSGTTRLKLTQKKMAIIPVPLPPLNEQKRIAEKVERLLSKIEEAKQLIEEAKET 195

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK-----NT 249
            + ++ +++  I+ + L+             G +P  W       L T            
Sbjct: 196 FELRRASIIRTILKEELS------------NGKLPTGWRNIKVKDLFTIFGGGTPSKAKE 243

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPES---YETYQIVDPGEIVFRFIDLQNDKRSLR 306
           +     I  +S  ++     ++ M    E      + ++   G +           R+L 
Sbjct: 244 EYWNGRIPWISAKDMKTTFISKTMDYITEEGLNNSSAKLAKRGSVAMVVRSGILQ-RTLP 302

Query: 307 SAQVMERGIITSAYMAVKP--HGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKR 364
            A ++    +             I+  +L ++  +       Y+       S++FE  K 
Sbjct: 303 VAFLLSECTVNQDLKVFDSGDELINKYFLWYVKGNERNLLHNYSKSGTTVNSIEFEKFKS 362

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLK------ERRSSFIAAAVTGQ 418
             +L+PP+        V+  +  +I+ ++EK + + V+L       E +SS ++ A  G+
Sbjct: 363 HEILLPPMD-------VLKQKIDKIENVIEKEKSANVMLNLANSIDELKSSILSKAFRGE 415



 Score = 77.5 bits (189), Expect = 4e-12,   Method: Composition-based stats.
 Identities = 33/191 (17%), Positives = 73/191 (38%), Gaps = 9/191 (4%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET 282
           E    +P++W              K  K + +   +   GNI     T  +G   +    
Sbjct: 21  EQPYELPENWIWVKLLNGYAVCLDKYRKPVNAEERAKRVGNIPYYGATGQVGWIDDYLTD 80

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID--STYLAWLMRSY 340
            ++V  GE    F++   +K  +    + E+  + +    ++ +     + +L   +  +
Sbjct: 81  EELVLLGEDGVPFLEPFKNKAYI----IREKAWVNNHAHILRSNFGSEGNLFLLHYLNQF 136

Query: 341 DLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
           +            R  L  + +  +PV +PP+ EQ  I   +    ++I+   + IE++ 
Sbjct: 137 NFNGYV---SGTTRLKLTQKKMAIIPVPLPPLNEQKRIAEKVERLLSKIEEAKQLIEEAK 193

Query: 401 VLLKERRSSFI 411
              + RR+S I
Sbjct: 194 ETFELRRASII 204



 Score = 64.4 bits (155), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 25/219 (11%), Positives = 74/219 (33%), Gaps = 11/219 (5%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSESGKD------IIYIGLEDVESGTGKYLPKDGNSRQ 72
           G +P  W+ + +K    +  G T    K+      I +I  +D+++              
Sbjct: 215 GKLPTGWRNIKVKDLFTIFGGGTPSKAKEEYWNGRIPWISAKDMKTTFISKTMDYITEEG 274

Query: 73  SDTSTVSIFAKGQILYGKLGPYLR---KAIIADFDGICSTQFLVLQP-KDVLPELLQGWL 128
            + S+  +  +G +        L+          +   +    V     +++ +    ++
Sbjct: 275 LNNSSAKLAKRGSVAMVVRSGILQRTLPVAFLLSECTVNQDLKVFDSGDELINKYFLWYV 334

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
              +          G T++  +++   +  + +PP+       +KI     + +      
Sbjct: 335 KGNERNLLHNYSKSGTTVNSIEFEKFKSHEILLPPMDVLKQKIDKIENVIEK-EKSANVM 393

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGL 227
           +     + E K +++S      L  +   +++ +E +  
Sbjct: 394 LNLANSIDELKSSILSKAFRGELGTNDPSEENAVELLKE 432


>gi|218281998|ref|ZP_03488310.1| hypothetical protein EUBIFOR_00879 [Eubacterium biforme DSM 3989]
 gi|218216985|gb|EEC90523.1| hypothetical protein EUBIFOR_00879 [Eubacterium biforme DSM 3989]
          Length = 402

 Score = 90.2 bits (222), Expect = 6e-16,   Method: Composition-based stats.
 Identities = 50/378 (13%), Positives = 118/378 (31%), Gaps = 35/378 (9%)

Query: 30  IKRFTKLNTGRTS--------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
                KL  G +              + +I + D+ S   +         +  +      
Sbjct: 35  FGHVMKLYRGSSPRPIINYVTTDKSGLNWIKIGDMPSTGNRVFFCKERINKEGSKKSRAV 94

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV-TQRIEAI 140
            KG I+      + +  I+     I    F++   ++ + +     LLS DV   + ++ 
Sbjct: 95  YKGDIILSNSMSFGKPYILEIDGFIHDGWFVIRDYQNYIDKTYLCQLLSSDVVQNQYKST 154

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
             G  + +     + ++   +P + EQ  I   +     +I+  I      + +      
Sbjct: 155 AAGGVVKNISSDLVNSVKFHLPSIMEQRKIARFLELIDQKIEVQIKIIDDLLTVKN---- 210

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
                               GI          E+   +     +    T +  S    ++
Sbjct: 211 --------------------GISNKLFKLQQIELSNHYLFEYLIEGDKTAVDTSCYKKIT 250

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
                Q L    +  +      + +   GE++    +  N   ++ + +  +  I ++A 
Sbjct: 251 VKLNNQGLAFSELNREMADTRPFYVRHKGELIIGKQNYFNGSIAIVT-EQFDNCICSNAI 309

Query: 321 MAVKPHGIDSTYLAWLM-RSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
           M+ K  GI S +L + +  +  L    Y      ++ L  ++     +  P ++ Q  I 
Sbjct: 310 MSFKIKGIYSDFLYYQISNNNYLNSQSYKANGTGQKELSEKEFLNFKIWCPQLEVQQKIV 369

Query: 380 NVINVETARIDVLVEKIE 397
           N       +I+     + 
Sbjct: 370 NCFKSLDLKIENEKAILN 387



 Score = 62.9 bits (151), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 26/163 (15%), Positives = 54/163 (33%), Gaps = 8/163 (4%)

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
           + I      +   ++      +  E  +  + V  G+I+            L     +  
Sbjct: 62  NWIKIGDMPSTGNRVFFCKERINKEGSKKSRAVYKGDIILSNSMSFGKPYILEIDGFIHD 121

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPI 372
           G      +    + ID TYL  L+ S  +   + +    G+ +++  + V  +   +P I
Sbjct: 122 GWF---VIRDYQNYIDKTYLCQLLSSDVVQNQYKSTAAGGVVKNISSDLVNSVKFHLPSI 178

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            EQ  I   +      ID  +E   + I  L   ++       
Sbjct: 179 MEQRKIARFLE----LIDQKIEVQIKIIDDLLTVKNGISNKLF 217


>gi|1174557|sp|P19704|T1SA_ECOLX RecName: Full=Type-1 restriction enzyme EcoAI specificity protein;
           Short=S.EcoAI; AltName: Full=Type I restriction enzyme
           EcoAI specificity protein; Short=S protein
 gi|146402|gb|AAA23987.1| EcoA type I restriction-modification enzyme S subunit [Escherichia
           coli]
          Length = 589

 Score = 90.2 bits (222), Expect = 6e-16,   Method: Composition-based stats.
 Identities = 63/509 (12%), Positives = 133/509 (26%), Gaps = 99/509 (19%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK-DIIYIGLEDVESG 59
           +K  K  P+   S  +    +P  W+   + R  ++N        + +I +I +  + + 
Sbjct: 83  IKKQKPLPEI--SEEEKPFELPDGWEWTTLTRIAEINPKIDVSDDEQEISFIPMPLISTK 140

Query: 60  TGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRK------AIIADFDGICSTQFLV 113
                  +    +      + FA G I   K+ P          + + +  G+ +T+  V
Sbjct: 141 FDGSHEFEIKKWKDVKKGYTHFANGDIAIAKITPCFENSKAAIFSGLKNGIGVGTTELHV 200

Query: 114 LQPKDVLPELLQ---GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQV-- 168
            +P   +         +     +      +   A           N P+P PPL EQ   
Sbjct: 201 ARPFSDIINRKYLLLNFKSPNFLKSGESQMTGSAGQKRVPRFFFENNPIPFPPLQEQERI 260

Query: 169 ---------------------------------------LIREKIIAETVRIDTLITERI 189
                                                     E++     RI        
Sbjct: 261 IIRFTQLMSLCDQLEQQSLTSLDAHQQLVETLLGTLTDSQNVEELAENWARISEHFDTLF 320

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKD------------------------------ 219
                +   KQ ++   V   L P     +                              
Sbjct: 321 TTEASVDALKQTILQLAVMGKLVPQDPNDEPASELLKRIAQEKAQLVKEGKIKKQKPLPP 380

Query: 220 -SGIEWVGLVPDHWEVKPF---FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL 275
            S  E    +P+ WE       +  +     K+       +  L   NI   +      +
Sbjct: 381 ISDEEKPFELPEGWEWCRLGSIYNFLNGYAFKSEWFTSVGLRLLRNANIAHGVTNWKDVV 440

Query: 276 KP----ESYETYQIVDPGEIVFR----FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
                  S     I+   +IV       I+       +  + +    +   A      + 
Sbjct: 441 HIPNDMISDFENYILSENDIVISLDRPIINTGLKYAIISKSDLPCLLLQRVAKFKNYANT 500

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           + +++L   ++SY          S     +  + ++     + P  EQ  I + ++    
Sbjct: 501 VSNSFLTIWLQSYFFINSIDPGRSNGVPHISTKQLEMTLFPLLPQSEQDRIISKMDELIQ 560

Query: 388 RIDVL----VEKIEQSIVLLKERRSSFIA 412
             + L        +  + L      + I 
Sbjct: 561 TCNKLKYIIKTAKQTQLHLADALTDAAIN 589


>gi|237650545|ref|ZP_04524797.1| restriction modification system DNA specificity subunit
           [Streptococcus pneumoniae CCRI 1974]
          Length = 338

 Score = 89.9 bits (221), Expect = 7e-16,   Method: Composition-based stats.
 Identities = 43/362 (11%), Positives = 89/362 (24%), Gaps = 35/362 (9%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V + +      G   +  +D    G E +         K  N          I   G 
Sbjct: 2   KKVKLGQVATFINGYAFKP-QDWSSEGKEIIRIQNLTKTSKGINYYSGTIDKKYIVEAGD 60

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           IL    G  L          + +     +    +  +      +     Q       G+T
Sbjct: 61  ILISWSGT-LGVFQWCGRSAVLNQHIFKVVFDKIDIDKSYFKYVVEKGLQDAVKHTHGST 119

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
           M H   K   NI +    L EQ  I  ++   +  I     +      L       + S 
Sbjct: 120 MKHLTKKYFDNIMVSYTNLGEQQRIASELDLLSKLILRRQEQLEELNLL-------VKSR 172

Query: 206 IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII 265
                 +P    K   ++  G     +    F      +         + I         
Sbjct: 173 FNEMFGDPLNNNKKFAVKT-GQQCFKFSSGKFLDKHDRVFEGYPAYGGNGIAW------- 224

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
                              ++D   I+   +                +  I+   + +K 
Sbjct: 225 --------------KSRKYLIDNPTIIIGRVGA----YCGNVRTTHGKVWISDNAIYIKE 266

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
                  L +L+    +           +  +  + ++    ++PP+  Q +  + +   
Sbjct: 267 FKNSDFNLVFLLELMKVIDFSKFADFSGQPKITQKPLENQKYILPPLALQNEFADFVVQV 326

Query: 386 TA 387
             
Sbjct: 327 DK 328



 Score = 54.0 bits (128), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 16/142 (11%), Positives = 42/142 (29%), Gaps = 10/142 (7%)

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
            ++ +     + +   IV+ G+I+  +                   ++      V    I
Sbjct: 39  TSKGINYYSGTIDKKYIVEAGDILISWSGTLG-----VFQWCGRSAVLNQHIFKVVFDKI 93

Query: 329 DSTYLAW-LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           D     +  +    L            + L  +    + V    + EQ  I + ++    
Sbjct: 94  DIDKSYFKYVVEKGLQDAVKHTHGSTMKHLTKKYFDNIMVSYTNLGEQQRIASELD---- 149

Query: 388 RIDVLVEKIEQSIVLLKERRSS 409
            +  L+ + ++ +  L     S
Sbjct: 150 LLSKLILRRQEQLEELNLLVKS 171


>gi|222055950|ref|YP_002538312.1| Restriction endonuclease S subunit-like protein [Geobacter sp.
           FRC-32]
 gi|221565239|gb|ACM21211.1| Restriction endonuclease S subunit-like protein [Geobacter sp.
           FRC-32]
          Length = 644

 Score = 89.9 bits (221), Expect = 7e-16,   Method: Composition-based stats.
 Identities = 51/400 (12%), Positives = 125/400 (31%), Gaps = 43/400 (10%)

Query: 21  IPKHWKVVPIKRFT-KLNTGRTSESGKD----IIYIGLEDVE-SGTGKYLPKDGNSRQSD 74
           +P+ W+V  +      L  G   + G++       I   +V   G          S  + 
Sbjct: 3   LPESWRVATVGNVLLDLQPGFAQKPGEEDDGTTPQIRTHNVTPDGKITLEGIKHISASAK 62

Query: 75  TSTVSIFAKGQILYGKLGP--YLRKAIIADFDG--ICSTQFLVLQPKDVLPELLQGWLLS 130
            +       G +++       ++ K  + + +G  + S     L+P   L          
Sbjct: 63  ETARYKLMMGDVVFNNTNSEEWVGKTAVFNQEGEYVFSNHMTRLRPHPELVTPEYLAFYL 122

Query: 131 IDVTQRIEAI---CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
             +     +        + +  + K I +  + +P L EQ  I + +           ++
Sbjct: 123 HQLWAIGYSKTRAKRWVSQAGIESKAIASFKLSLPTLPEQHRIIDVLRQAQDL----RSQ 178

Query: 188 RIRFIELLKEKKQALV-SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
           + + ++L  E  +AL   +    G +    M+  G         H     +     +   
Sbjct: 179 KEQVLKLSAELAKALFEQHFGIAGASSAWPMEPFG--------KHTTYSKYGPRFPDQQY 230

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
            ++ +       ++    I+  E   + L  E       + PG +V              
Sbjct: 231 SDSGIHILRTTDMNNDGTIRWWEAPKLALT-EGQIQEHALKPGTLVVSRSGTIGP---FA 286

Query: 307 SAQVMERGIITSAYMAVK--PHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVK 363
                E   +  AY+        +   Y+  L  +  + ++         + ++   +++
Sbjct: 287 LFDGQEGRCVAGAYLIEFGLADSVQPEYVRALFATPYVQQMLKKAVRSVAQPNINAPNIQ 346

Query: 364 RLPVLVPPIKEQFDIT----------NVINVETARIDVLV 393
            + + VPP++ Q              + I    ++ID ++
Sbjct: 347 SIKIPVPPLEIQEAFAVQIKQVRAWTSEIVKSASKIDEVI 386



 Score = 66.0 bits (159), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 22/182 (12%), Positives = 55/182 (30%), Gaps = 12/182 (6%)

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK----PESYETYQIVDPGEIV 292
              L     +K  +  +     +   N+    +    G+K             +  G++V
Sbjct: 16  LLDLQPGFAQKPGEEDDGTTPQIRTHNVTPDGKITLEGIKHISASAKETARYKLMMGDVV 75

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAY--MAVKPHGIDSTYLAWLMRSYDLCKVFYAMG 350
           F   + +               + ++    +   P  +   YLA+ +             
Sbjct: 76  FNNTNSEEWVGKTAVFNQEGEYVFSNHMTRLRPHPELVTPEYLAFYLHQLWAIGYSKTRA 135

Query: 351 S--GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
                +  ++ + +    + +P + EQ  I +V+     +   L  + EQ + L  E   
Sbjct: 136 KRWVSQAGIESKAIASFKLSLPTLPEQHRIIDVL----RQAQDLRSQKEQVLKLSAELAK 191

Query: 409 SF 410
           + 
Sbjct: 192 AL 193


>gi|331006907|ref|ZP_08330153.1| Restriction modification system DNA specificity domain containing
           protein [gamma proteobacterium IMCC1989]
 gi|330419283|gb|EGG93703.1| Restriction modification system DNA specificity domain containing
           protein [gamma proteobacterium IMCC1989]
          Length = 203

 Score = 89.9 bits (221), Expect = 7e-16,   Method: Composition-based stats.
 Identities = 19/139 (13%), Positives = 57/139 (41%), Gaps = 5/139 (3%)

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
           ++    I++ G+I+F        K ++ ++ ++      +  +      ++  Y+ +++R
Sbjct: 55  TFLKRSILEEGDILFTIAGATIGKSAVVTSDLLPANTNQALAIIRLHQTVNKKYVFYILR 114

Query: 339 SYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
           S  + +       G  + +L    +    + +P  +EQ  I  +++   A    + E + 
Sbjct: 115 SNHMKEYIEKSAKGSAQPNLNLRQINEFCIPLPSPEEQTRIVAILDKFDALTSSITEGLP 174

Query: 398 QSIVLLKE----RRSSFIA 412
           + I L ++     R   ++
Sbjct: 175 REIELRQKQYEYYRDLLLS 193



 Score = 61.3 bits (147), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 32/190 (16%), Positives = 65/190 (34%), Gaps = 12/190 (6%)

Query: 26  KVVPIKRFTK-LNTGRTSES--GKDIIYIGLE--DVESGTGKYLPKDGNSRQSDTSTVSI 80
           +  P+   T  +  G T +S     I +I  E  D        L   G +        SI
Sbjct: 2   EWKPLGELTSLITKGTTPKSFESSGISFIKTEAFDGTRINKNKLSYVGETIHRTFLKRSI 61

Query: 81  FAKGQILYGKLGPYLRKAIIADF---DGICSTQFLVLQPKDVLPELLQGWL-LSIDVTQR 136
             +G IL+   G  + K+ +          +    +++    + +    ++  S  + + 
Sbjct: 62  LEEGDILFTIAGATIGKSAVVTSDLLPANTNQALAIIRLHQTVNKKYVFYILRSNHMKEY 121

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR---IDTLITERIRFIE 193
           IE   +G+   + + + I    +P+P   EQ  I   +         I   +   I   +
Sbjct: 122 IEKSAKGSAQPNLNLRQINEFCIPLPSPEEQTRIVAILDKFDALTSSITEGLPREIELRQ 181

Query: 194 LLKEKKQALV 203
              E  + L+
Sbjct: 182 KQYEYYRDLL 191


>gi|167756439|ref|ZP_02428566.1| hypothetical protein CLORAM_01972 [Clostridium ramosum DSM 1402]
 gi|167703847|gb|EDS18426.1| hypothetical protein CLORAM_01972 [Clostridium ramosum DSM 1402]
          Length = 388

 Score = 89.9 bits (221), Expect = 7e-16,   Method: Composition-based stats.
 Identities = 50/410 (12%), Positives = 123/410 (30%), Gaps = 48/410 (11%)

Query: 16  QWIGAI-PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           + I  + P    + P+ +   +NT       K+I+  G   V +    Y+    N     
Sbjct: 6   ELINELCPDGVVLKPLFKLVTINTPSIKILSKNILITGDYPVINQGSDYISGYTN----- 60

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
               ++F K + +    G +       DF        + +     +      +       
Sbjct: 61  -DKTALFPKNEYII--FGDHTEIIKYVDFPFAQGADGIKILTSKNINCKYLYYCFVNFYK 117

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
              +     +           N  +P PPL  Q  I   +   T     L  E    +  
Sbjct: 118 TTGKYTRHWSA--------AKNTLIPFPPLPVQEEIVRILDNFTELTAELTAELTAELTA 169

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
            K++ +     ++T                 G   +   ++    ++   N +     E 
Sbjct: 170 RKKQYEYYRDSLLT----------------FGDDVERKPLREIATIIRGGNFQKKDFTEK 213

Query: 255 NILSLSYGNIIQKL----ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
            I  + YG I  +           +  +  +  +  +  +I+        +        +
Sbjct: 214 GIPCIHYGQIYTRYGLSATKTITFIDGDVAKKSKFANTNDIIMAVTSENIEDVCKCVVWL 273

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ-SLKFEDVKRLPVLV 369
            E  +  S + A+  H  ++ +LA+   +    K    +  G +   +    +  + V +
Sbjct: 274 GEEKVAISGHTAIIKHNQNAKFLAYYFHTAMFFKDKKKLAHGTKVIEVTPSKLGDIIVPL 333

Query: 370 PPIKEQFDITNVINVETARIDVL-------VEKIEQSIVLLKERRSSFIA 412
           P + EQ  I ++++      + +       + + ++        R+  + 
Sbjct: 334 PSLSEQQRIVDILDRFDTLCNDISKGLPAEIAERQKQYEY---YRNKLLT 380


>gi|218282512|ref|ZP_03488762.1| hypothetical protein EUBIFOR_01344 [Eubacterium biforme DSM 3989]
 gi|218216499|gb|EEC90037.1| hypothetical protein EUBIFOR_01344 [Eubacterium biforme DSM 3989]
          Length = 365

 Score = 89.9 bits (221), Expect = 7e-16,   Method: Composition-based stats.
 Identities = 64/389 (16%), Positives = 121/389 (31%), Gaps = 28/389 (7%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
            IK           ++G+ +             KYL    ++ ++   T   F K  I+ 
Sbjct: 2   KIKDLCSYAPKSRIKAGEAV----------ENAKYLFFTSSADENKRYTDFQFDKEAIIM 51

Query: 89  GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSH 148
           G  G         +     ST  LVL P   + +    +         +EA  +GA + H
Sbjct: 52  GTGG--NATLHYYNGKFSVSTDCLVLFPNSKI-KCKYLYYFFKSHMSVLEAGFKGAGLKH 108

Query: 149 ADWKGIGNIP-MPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
            + K I  I    +P L  Q  I   +   T  I+ L  E   F  L K          +
Sbjct: 109 TNKKYIEEINVSKVPDLTTQEKIVSHLDTITENIEKLNRELELFGSLTKA-------RFI 161

Query: 208 TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK 267
               +P        I  VG V D  + +P               I     +   G I  +
Sbjct: 162 EMFGDPLDGSAKYPIHQVGEVADTIDPQPSHRTPPIDESGIP-YISIRDCNYKTGRIDFE 220

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
              +      E       +  G+ V   I    +   +               +    + 
Sbjct: 221 GARKVSRKILEEQSKRYTLHDGDFVIGKIGTIGNPVFIPPRDDY-TLSANVVLVQPNNNL 279

Query: 328 IDSTYLAWLMRSYDLCKVF-YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
           +   +L + + S  + + F  A  S  + +   + V+ + V+ P +  Q       +   
Sbjct: 280 VSPYFLKYSLESGYVDRQFAEAKNSTSQAAFGIQKVRTIKVMNPDLNIQRKF----DNFV 335

Query: 387 ARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            ++D   E++++S+   ++   S +    
Sbjct: 336 KQVDKSREEVKKSLEKTQQLYDSLMQEYF 364


>gi|148993502|ref|ZP_01822993.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP9-BS68]
 gi|147927871|gb|EDK78892.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP9-BS68]
          Length = 426

 Score = 89.9 bits (221), Expect = 7e-16,   Method: Composition-based stats.
 Identities = 66/415 (15%), Positives = 140/415 (33%), Gaps = 64/415 (15%)

Query: 42  SESGKDIIYIGLEDVESGTGKYLPKDG---NSRQSDTSTVSIFAKGQILYGKLGPYLRKA 98
           ++  K   YI    ++        K+    +  Q+ +    + ++  +L+  + PYL+  
Sbjct: 13  NKPEKSFRYIDTSSIDRKKNIINYKNLQYLSPEQAPSRARKLVSQNSVLFSTVRPYLKNI 72

Query: 99  IIA---DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIG 155
            +        I ST F+VL        L   +LLS +   R+     G +    +     
Sbjct: 73  AVVRELKEYLIASTAFIVLDTLLNETYLKY-YLLSDNFINRVNNKSTGTSYPAINDYNFN 131

Query: 156 NIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK----QALVSYIVTKGL 211
            + + +PPL+EQ  I E I +   ++D       R  +L KE      ++++ Y +   L
Sbjct: 132 LLLIALPPLSEQQRIVEAIESALEKVDEYAESYNRLEQLDKEFPDKLKKSILQYAMQGKL 191

Query: 212 NPDVKMKDS---------------------------------------GIEWVGLVPDHW 232
                  +S                                         E    +P+ W
Sbjct: 192 VEQDPNDESVEVLLEKIRAEKQKLFEEGKIKKKDLDISIVSQGDDNSYYEEVPCEIPESW 251

Query: 233 EVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL-------KPESYETYQI 285
           E      + + + R  +    +  +         +    ++ L          SY+  ++
Sbjct: 252 EWVRLNDITSYIQRGKSPKYSNIPIYPVIAQKCNQWSGFSIDLARFIDPETVHSYQKERL 311

Query: 286 VDPGEIVFRFIDLQNDKR-SLRSAQVMERGIITSA----YMAVKPHGIDSTYLAWLMRSY 340
           +  G++++    L    R ++        G   +      + V    I+  ++   + S 
Sbjct: 312 LRDGDLMWNSTGLGTLGRLAIYHENKNPYGWAVADSHVTVIRVLSGVINCHFIYNFLSSP 371

Query: 341 DLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
            +  V     SG   ++ L  + +K   + +PP+ EQ  I + I    A I+ L+
Sbjct: 372 IVQSVIEEKASGSTKQKELLTKTIKEYLIPLPPLPEQSRIVDKIEQFFAHINALI 426



 Score = 72.5 bits (176), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 29/192 (15%), Positives = 66/192 (34%), Gaps = 7/192 (3%)

Query: 232 WEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEI 291
             +K  +    +   + +             NII     + +  +       ++V    +
Sbjct: 1   MRIKSIYWNFGQNKPEKSFRYIDTSSIDRKKNIINYKNLQYLSPEQAPSRARKLVSQNSV 60

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
           +F  +       ++     ++  +I S    V    ++ TYL + + S +         +
Sbjct: 61  LFSTVRPYLKNIAVVR--ELKEYLIASTAFIVLDTLLNETYLKYYLLSDNFINRVNNKST 118

Query: 352 GLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----R 406
           G    ++   +   L + +PP+ EQ  I   I     ++D   E   +   L KE     
Sbjct: 119 GTSYPAINDYNFNLLLIALPPLSEQQRIVEAIESALEKVDEYAESYNRLEQLDKEFPDKL 178

Query: 407 RSSFIAAAVTGQ 418
           + S +  A+ G+
Sbjct: 179 KKSILQYAMQGK 190



 Score = 50.9 bits (120), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 28/181 (15%), Positives = 50/181 (27%), Gaps = 15/181 (8%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT-----GKYLPKDGNSRQSD 74
            IP+ W+ V +   T       S    +I    +   +                      
Sbjct: 246 EIPESWEWVRLNDITSYIQRGKSPKYSNIPIYPVIAQKCNQWSGFSIDLARFIDPETVHS 305

Query: 75  TSTVSIFAKGQILYGKL--GPYLRKAIIADF-----DGICSTQFLVLQPKDVLPELLQGW 127
                +   G +++     G   R AI  +        +  +   V++    +      +
Sbjct: 306 YQKERLLRDGDLMWNSTGLGTLGRLAIYHENKNPYGWAVADSHVTVIRVLSGVINCHFIY 365

Query: 128 LLSIDVTQR---IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
                   +    E             K I    +P+PPL EQ  I +KI      I+ L
Sbjct: 366 NFLSSPIVQSVIEEKASGSTKQKELLTKTIKEYLIPLPPLPEQSRIVDKIEQFFAHINAL 425

Query: 185 I 185
           I
Sbjct: 426 I 426


>gi|300862301|ref|ZP_07108380.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TUSoD Ef11]
 gi|300848252|gb|EFK76010.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TUSoD Ef11]
          Length = 320

 Score = 89.9 bits (221), Expect = 7e-16,   Method: Composition-based stats.
 Identities = 36/190 (18%), Positives = 74/190 (38%), Gaps = 10/190 (5%)

Query: 229 PDHWEVKPFFALVTELNRK-NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI-V 286
            +H +V+      T L  K        +   ++Y N+     T     +    +  Q  V
Sbjct: 10  WEHRKVEELGDTFTGLTGKTKEDFGHGDATFVTYINVFSNPITDLKMTESVEIDAKQNQV 69

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGII--TSAYMAVKPHGID-STYLAWLMRSYDLC 343
           + G+I F       ++  + S  +     +   S     +P       Y+A+++RS ++ 
Sbjct: 70  EYGDIFFTTSSETPEEVGMSSVWLGNEANVYLNSFCFGYRPVTELAPYYMAFMLRSPNVR 129

Query: 344 KVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
           K F  +  G+ R ++    V  + + VP I EQ  +          ID L+   ++ +  
Sbjct: 130 KKFIFLAQGISRYNISKNRVMDIEIPVPNIDEQRKVGQF----FKDIDDLITLHQRKLDQ 185

Query: 403 LKERRSSFIA 412
           LKE + +++ 
Sbjct: 186 LKELKKAYLQ 195



 Score = 43.6 bits (101), Expect = 0.054,   Method: Composition-based stats.
 Identities = 9/74 (12%), Positives = 18/74 (24%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W++  +     +  G++  S           +  G           R   T       K
Sbjct: 216 DWQLCKLGETFSIIMGQSPNSENYTENPDDYILVQGNSDMKNNKVVPRIWTTQVTKKAEK 275

Query: 84  GQILYGKLGPYLRK 97
           G ++     P    
Sbjct: 276 GDLILSVRAPVGEI 289


>gi|217971596|ref|YP_002356347.1| restriction modification system DNA specificity domain-containing
           protein [Shewanella baltica OS223]
 gi|217496731|gb|ACK44924.1| restriction modification system DNA specificity domain protein
           [Shewanella baltica OS223]
          Length = 642

 Score = 89.9 bits (221), Expect = 7e-16,   Method: Composition-based stats.
 Identities = 52/419 (12%), Positives = 126/419 (30%), Gaps = 40/419 (9%)

Query: 20  AIPKHWKVVPIKRFTK-LNTGRTSESGKD----IIYIGLEDVE-SGTGKYLPKDGNSRQS 73
            +P+ W    I      +  G + + GK+       I   ++   G          +  +
Sbjct: 2   KLPEGWVETTIGNIIDDMQPGFSQKPGKEDGDTTPQIRTHNISPDGKLTLEGIKHVTASN 61

Query: 74  DTSTVSIFAKGQILYGKLGP--YLRKAIIADFDG--ICSTQFLVLQPKDVLPELLQGWLL 129
             S      KG +++       ++ K  + D +G  + S     L+    L         
Sbjct: 62  KESERYSLTKGDVVFNNTNSEEWVGKTAVFDQEGEFVFSNHITRLRANSKLITPDFLAAY 121

Query: 130 SIDVTQRIEAI---CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIA--ETVRIDTL 184
              +     +        + +  +   +    +P+P L EQ  I + +       +    
Sbjct: 122 LQFLWSMGFSKTRAKRWVSQAGIEGSTLALFRIPLPSLPEQERIVDVLQQVGIVAKAKQS 181

Query: 185 ITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTEL 244
           I +               +  +V            +       V     V      V+E 
Sbjct: 182 IDDH--------------IDNLVRTAYWEHFSEWYTADGLRDPVRISDIVADSQYGVSEA 227

Query: 245 NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
             +  K     + S++    +   + +   L  +  +   +++ G+++F   + +     
Sbjct: 228 MSETGKQAILRMNSITTSGWLNLADLKYATLSEKDIKATTLLN-GDLLFNRTNSKELVGK 286

Query: 305 LRSAQVMERGIITSAYMAV--KPHGIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFE 360
               +  +     ++Y+       GI   Y+   + S                  ++   
Sbjct: 287 CAIWRGAKEPFSYASYIVRFRMKEGILPEYIWATLNSSYGKYRLMNSAKQAVSMANVSPT 346

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI-AAAVTGQ 418
           D+ R+ V +PP+  Q     +IN     I+ L +++        E   + +   A+ G+
Sbjct: 347 DLGRITVPLPPLALQEKFAKLIN----HIETLRQEMLNKQDQYSEL-QTLVTQQALLGE 400


>gi|260664494|ref|ZP_05865346.1| type I restriction-modification system S protein [Lactobacillus
           jensenii SJ-7A-US]
 gi|260561559|gb|EEX27531.1| type I restriction-modification system S protein [Lactobacillus
           jensenii SJ-7A-US]
          Length = 394

 Score = 89.9 bits (221), Expect = 8e-16,   Method: Composition-based stats.
 Identities = 58/402 (14%), Positives = 131/402 (32%), Gaps = 33/402 (8%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKD------IIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           WK V +       +G T ++G        I +I   ++ S   +      +      S+ 
Sbjct: 14  WKKVKLGEIATTYSGGTPKAGNKKYYNGLIPFIRSGEIHSNKTELF---ISEAGLKNSSA 70

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
            +  KG +LY   G    +  I+  +G  +   L + PK   P ++   L         +
Sbjct: 71  KMVTKGDLLYALYGATSGEVDISKINGAINQAVLAIIPKQYNPYIISLLLSKKKDAILSK 130

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
            +  G             I   I  +         +      +D L++ + R +EL  + 
Sbjct: 131 YLQGGQG------NLSAEIVKSIKLILPSKNEESSLYPLFKVLDNLLSLQQRKLELENKL 184

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
           K+ +  Y+ +  L P+ K  +   + +G             +   +   + K   +  L+
Sbjct: 185 KKQIAFYLYSFTLTPNFKHIEVKNKKLGD---------IVNISNGIMGDSQKKSGNFKLT 235

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDL---QNDKRSLRSAQVMERGI 315
                   K++    G   +  +  + ++ G+I++  I+          ++   +     
Sbjct: 236 RIETISNGKIDLSRTGYIDQVSDEKKFLEVGDILYSNINSLTHIGKNAIVKEKHLPLVHG 295

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIK 373
           I    + +  + I   YL  L+          +  +    + S+   ++  L +  P + 
Sbjct: 296 INLFRLHITNNQITPNYLHGLLNLPKYKWWVKSHANPAVNQASINKTELSSLVIKYPDLD 355

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            Q  I N IN   A+   +          L + +   +    
Sbjct: 356 IQNQI-NNINYSFAQYWDI---QYSKKESLCQLKQFLLQNLF 393


>gi|312869799|ref|ZP_07729941.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus oris PB013-T2-3]
 gi|311094645|gb|EFQ52947.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus oris PB013-T2-3]
          Length = 487

 Score = 89.9 bits (221), Expect = 8e-16,   Method: Composition-based stats.
 Identities = 54/417 (12%), Positives = 122/417 (29%), Gaps = 48/417 (11%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDII---YIGLEDVESGTGKYLPKDGNSRQSDTS 76
            IP  W+ V +     L +GR       +       +  +   +           +   +
Sbjct: 73  DIPDSWEWVRLGDVINLISGRDIPKKSHLNKPANDSMPYITGASNIDNNGKITITEWVNN 132

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
              I   G +L    G   + A++   +   + Q + L+    L    Q + L   + + 
Sbjct: 133 PSVIVKNGTLLLSVKGTIGKVAVLKIPEAHIARQIMGLENIYKLDLEFQKYFLEDYIEEL 192

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
                    +       + +  +P PPL+EQ  I  KI      +  + +   ++ +L  
Sbjct: 193 KSKAKSM--IPGISRDDLLSAVIPFPPLSEQSRIAAKIAQLFALLRKVESSIQQYAKLKV 250

Query: 197 EKKQALVSYIVTKGL---NPDVKMKDSGIEWV---------------------------- 225
             K  ++       L   +P  +     +E +                            
Sbjct: 251 LLKSKVLDLATRGELVEQDPHDEPASVLLEKIKAEKEELIKEKKIKRSKPLAPIAEDEKP 310

Query: 226 GLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYE---- 281
             +P  WE      +V+    K     E       Y   I+  + +N  +  +  +    
Sbjct: 311 FDIPASWEWVRLGEIVSVKGGKRVPRGEKLTNQKDYKPYIRVADMKNQSVNFQHIKYASK 370

Query: 282 ------TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK-PHGIDSTYLA 334
                 +   +    + F    +     S+            +A +     + + +T+L 
Sbjct: 371 AIFDQLSSYTISSHNVYFSIAGIIGKVGSIPQDLDGALLTENAAKLENIGKNLVSNTFLI 430

Query: 335 WLMRSYDLCKVFYAM-GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
             + S ++      +     +  L    ++   +  PP+ EQ  I   I   +  +D
Sbjct: 431 NALESDEVKNQHKRILSQVAQPKLALTKLRNTVISFPPLAEQSRIATKIAQLSELLD 487



 Score = 68.7 bits (166), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 27/195 (13%), Positives = 58/195 (29%), Gaps = 11/195 (5%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVT-----ELNRKNTKLIESNILSLSYGNIIQKLETRNMG 274
           +  E    +PD WE      ++      ++ +K+     +N                 + 
Sbjct: 66  TEDEKPFDIPDSWEWVRLGDVINLISGRDIPKKSHLNKPANDSMPYITGASNIDNNGKIT 125

Query: 275 LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
           +         IV  G ++            L+   + E  I          + +D  +  
Sbjct: 126 ITEWVNNPSVIVKNGTLLLSVKGTIGKVAVLK---IPEAHIARQIMGLENIYKLDLEFQK 182

Query: 335 WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
           + +   D  +   +    +   +  +D+    +  PP+ EQ  I   I    A +  +  
Sbjct: 183 YFL--EDYIEELKSKAKSMIPGISRDDLLSAVIPFPPLSEQSRIAAKIAQLFALLRKVES 240

Query: 395 KIEQSIVLLKERRSS 409
            I+     LK    S
Sbjct: 241 SIQ-QYAKLKVLLKS 254


>gi|153000503|ref|YP_001366184.1| restriction modification system DNA specificity subunit [Shewanella
           baltica OS185]
 gi|151365121|gb|ABS08121.1| restriction modification system DNA specificity domain protein
           [Shewanella baltica OS185]
          Length = 616

 Score = 89.9 bits (221), Expect = 8e-16,   Method: Composition-based stats.
 Identities = 37/204 (18%), Positives = 61/204 (29%), Gaps = 12/204 (5%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTK-----LIESNILSLSYGNIIQKLETRN-- 272
           S  E    +P+ WE             K          + NI  +  G I          
Sbjct: 117 SDDEKPFELPNGWEWSRLSETGLGSTGKTPSTKQSSFFDGNIPFIGPGQITPAGIVLKAE 176

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
             L            PG+I    I     K ++      ER         + P  I S Y
Sbjct: 177 KFLSQSGLGNSCEALPGDIFMVCIGGSIGKAAIVV----ERSGFNQQINCISPLHIASKY 232

Query: 333 LAWLMRSYDLCK-VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
           L + + +      V           +     + LPV + P++EQ  I   ++   +  D 
Sbjct: 233 LYFALSTNSFHSSVLEKATGSATPIINRGKWEELPVPIAPLEEQHRIVAKVDELMSLCDA 292

Query: 392 LVEKIEQSIVLLKERRSSFIAAAV 415
           L  + E SI   +    + + A +
Sbjct: 293 LEAQTEASISAHQILVETLLNALL 316



 Score = 79.8 bits (195), Expect = 7e-13,   Method: Composition-based stats.
 Identities = 37/208 (17%), Positives = 66/208 (31%), Gaps = 11/208 (5%)

Query: 11  KDSGVQWIGAI---PKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTG 61
           K S V  IG +   P  W+ + ++ F  +  G T    +      DI ++   +V     
Sbjct: 409 KQSEVNPIGEVVVLPDTWQQILVQDFADIRLGSTPSRAEPSYWSGDIPWVSSGEVAGSII 468

Query: 62  KYLPKDGNSRQSDTSTVSIFAKGQILYGKLGP--YLRKAIIADFDGICSTQFLVLQPKDV 119
           K   +       + S+ SI  K  +L   +G      +  +   D   +         + 
Sbjct: 469 KDTAEKITQLGFEKSSTSIIPKRSLLMAIIGQGKTRGQTALLGIDACTNQNVAAFIFNEE 528

Query: 120 LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
                  W+ +    +       G      + K + +   P+PPL EQ  I  KI     
Sbjct: 529 FVVPEFVWIWAQSKYEAHRGDGRGGAQPALNGKIVRSFRFPLPPLEEQHRIVAKIDELMA 588

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIV 207
             + L T              A+V   +
Sbjct: 589 LCEQLKTRLADSQTTQLHLTDAIVEQAI 616



 Score = 73.3 bits (178), Expect = 7e-11,   Method: Composition-based stats.
 Identities = 29/207 (14%), Positives = 61/207 (29%), Gaps = 12/207 (5%)

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLV---PDHWEVKPFFALVTELNRKNTK-----LI 252
           A ++    + +  +   K S +  +G V   PD W+                        
Sbjct: 392 ARIAKEKAQLIKNNKIKKQSEVNPIGEVVVLPDTWQQILVQDFADIRLGSTPSRAEPSYW 451

Query: 253 ESNILSLSYG---NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
             +I  +S G     I K     +        +  I+    ++   I     +       
Sbjct: 452 SGDIPWVSSGEVAGSIIKDTAEKITQLGFEKSSTSIIPKRSLLMAIIGQGKTRGQTALLG 511

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
           +        A        +   ++    +S          G G + +L  + V+     +
Sbjct: 512 IDACTNQNVAAFIFNEEFVVPEFVWIWAQSKYEAHRGDGRG-GAQPALNGKIVRSFRFPL 570

Query: 370 PPIKEQFDITNVINVETARIDVLVEKI 396
           PP++EQ  I   I+   A  + L  ++
Sbjct: 571 PPLEEQHRIVAKIDELMALCEQLKTRL 597



 Score = 71.0 bits (172), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 36/194 (18%), Positives = 67/194 (34%), Gaps = 7/194 (3%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
            +P  W+   +      +TG+T  +        +I +IG   + +  G  L  +    QS
Sbjct: 124 ELPNGWEWSRLSETGLGSTGKTPSTKQSSFFDGNIPFIGPGQI-TPAGIVLKAEKFLSQS 182

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
                     G I    +G  + KA I       + Q   + P  +  + L   L +   
Sbjct: 183 GLGNSCEALPGDIFMVCIGGSIGKAAIVVERSGFNQQINCISPLHIASKYLYFALSTNSF 242

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
              +     G+     +      +P+PI PL EQ  I  K+       D L  +    I 
Sbjct: 243 HSSVLEKATGSATPIINRGKWEELPVPIAPLEEQHRIVAKVDELMSLCDALEAQTEASIS 302

Query: 194 LLKEKKQALVSYIV 207
             +   + L++ ++
Sbjct: 303 AHQILVETLLNALL 316


>gi|331085650|ref|ZP_08334733.1| hypothetical protein HMPREF0987_01036 [Lachnospiraceae bacterium
           9_1_43BFAA]
 gi|330406573|gb|EGG86078.1| hypothetical protein HMPREF0987_01036 [Lachnospiraceae bacterium
           9_1_43BFAA]
          Length = 385

 Score = 89.9 bits (221), Expect = 8e-16,   Method: Composition-based stats.
 Identities = 67/405 (16%), Positives = 126/405 (31%), Gaps = 40/405 (9%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYIGLEDVESGT---GKYLPKDGNSRQSDTSTVSIFA--- 82
            ++    + T       KD    G+  V++G    G YL K+  ++     T        
Sbjct: 2   RLEDVCTVFTDGDWIESKDQSEKGIRLVQTGNIGEGIYLEKESRAKYIPEDTFKRLKCTE 61

Query: 83  --KGQILYGKLGPYLRKAIIADF---DGICSTQFLVLQPKDVLPELLQ--GWLLSIDVTQ 135
              G IL  +L   + +A I        I +    + +P + L        ++ S     
Sbjct: 62  IFPGDILVSRLPEPVGRACIIPEKTERMITAVDCTICRPDEALISKDYLCYFMRSNAYYM 121

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
           R+     G T      K +GN+ + +P   EQ  + E++      ID+   E     +L 
Sbjct: 122 RLLGNVTGTTRKRISRKNLGNVELKVPTKEEQKTVVERLDCLVKVIDSRTKELQLLDDL- 180

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
                 + +  V    NP        I          +           +RK  +     
Sbjct: 181 ------IKARFVEMFGNPR-------INPNKYPTKLIKDTCIVITGNTPSRKVHEYYGDA 227

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQI---VDPGEIVFRFIDLQNDKRSLRSAQVME 312
           I  +   NI+  L    +  +  S     +   VD G I+   I         R      
Sbjct: 228 IEWIKTDNIVSSLLYPTVASESLSDSGKAVGRAVDAGAILMACIAGSVASIG-RVCITDR 286

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMR--SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP 370
                    A+ P   D  +L  L++     L +       G+   +    ++    +VP
Sbjct: 287 EVAFNQQINAIVPKEYDVRFLHALLQISKDYLVEDINMSLKGI---ISKSKLEEKEFIVP 343

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            ++EQ    + +     +ID     I+ ++   +    S +    
Sbjct: 344 SMEEQVGFADFV----KQIDKSKVAIQAALDKTQLLFDSLMQKYF 384


>gi|78358464|ref|YP_389913.1| restriction endonuclease S subunits-like [Desulfovibrio
           desulfuricans subsp. desulfuricans str. G20]
 gi|78220869|gb|ABB40218.1| Restriction endonuclease S subunits-like protein [Desulfovibrio
           desulfuricans subsp. desulfuricans str. G20]
          Length = 390

 Score = 89.9 bits (221), Expect = 8e-16,   Method: Composition-based stats.
 Identities = 72/394 (18%), Positives = 131/394 (33%), Gaps = 27/394 (6%)

Query: 24  HWKVVPIKRFTKLNT--GRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
            WK+V      K      R  E+      +GLE ++        +  NS    TS    F
Sbjct: 9   GWKMVKFGEVVKNANLVEREPEANGVEKIVGLEHIDPEN--LHVRRWNSVVDGTSFTRKF 66

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV---LPELLQGWLLSIDVTQRIE 138
             GQ L+GK   Y RK   A+F+GICS   L  +PK+    LPELL     S        
Sbjct: 67  VPGQTLFGKRRAYQRKVAYAEFEGICSGDILTFEPKNRKVLLPELLPFICQSDAFFDHAL 126

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
               G+      W  + +   P+PP+ EQ  I E + A    ++       +    L   
Sbjct: 127 DTSAGSLSPRTSWTALKDFEFPLPPIDEQKRIAEILWAADEAVEQWTEAYRQAELALNST 186

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
           +  ++  +    +   V +KD G    G  P                R  +     +   
Sbjct: 187 RSQILQELSQTEV--CVSLKDVGRWVSGGTPS---------------RSRSDFWNGDFPW 229

Query: 259 LSYGNIIQKLETRNMGLKPES-YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
           +S  ++ Q + + +     ++       + P E +   +       +   A         
Sbjct: 230 VSPKDMKQDVISDSEEKLTDTALNGRVTILPSESILIVVRGMILAHTFPVALTGREVTFN 289

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR--QSLKFEDVKRLPVLVPPIKEQ 375
                + P+   S    +     +  ++  A        + L  + +  + +  P   +Q
Sbjct: 290 QDMKGIIPNSDFSAEFVFHWFKDNSTRILQATEESTHGTKRLATDVLYGMQIPKPSPAKQ 349

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
                V      ++  + E I  S  +L+  R++
Sbjct: 350 EMAVTVFETFRTKLAEISEHIASSQQMLRSLRNA 383



 Score = 64.8 bits (156), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 22/131 (16%), Positives = 42/131 (32%), Gaps = 8/131 (6%)

Query: 288 PGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI---DSTYLAWLMRSYDLCK 344
           PG+ +F        K +    +    GI +   +  +P          L ++ +S     
Sbjct: 68  PGQTLFGKRRAYQRKVAYAEFE----GICSGDILTFEPKNRKVLLPELLPFICQSDAFFD 123

Query: 345 V-FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
                    L     +  +K     +PPI EQ  I  ++      ++   E   Q+ + L
Sbjct: 124 HALDTSAGSLSPRTSWTALKDFEFPLPPIDEQKRIAEILWAADEAVEQWTEAYRQAELAL 183

Query: 404 KERRSSFIAAA 414
              RS  +   
Sbjct: 184 NSTRSQILQEL 194


>gi|319955097|ref|YP_004166364.1| restriction modification system DNA specificity domain protein
           [Cellulophaga algicola DSM 14237]
 gi|319423757|gb|ADV50866.1| restriction modification system DNA specificity domain protein
           [Cellulophaga algicola DSM 14237]
          Length = 584

 Score = 89.5 bits (220), Expect = 8e-16,   Method: Composition-based stats.
 Identities = 34/212 (16%), Positives = 79/212 (37%), Gaps = 11/212 (5%)

Query: 218 KDSGIEWVGLVPDHWEVKP---FFALVTELNRKNTKLIESNILSLSYGN--IIQKLETRN 272
           K +  E    +P+ W           +T+   +  K  E   + LS  N    + +  ++
Sbjct: 367 KITKEEIPYELPEGWVWCRMIELCQYITDGTHQTPKYTEEGRMFLSAKNVKPFKFMPEKH 426

Query: 273 MGLKPESYETYQIVDP---GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID 329
             +  E +E Y+        +I+   +     + +L    +     ++   + + P+ ++
Sbjct: 427 RFVSEEDFEGYRRNRKPELNDILLTRVGAGIGEATLIDQDLEFAIYVSVGLLKMFPNKLE 486

Query: 330 STYLAWLMRSYDLCKVFYAMGSG---LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
             Y+   + S +  +       G    + +L    +++  V +PPI+EQ  I   +N   
Sbjct: 487 PNYIVMWLNSPEGRQYSSKNTYGKGVSQGNLNLSLIRQFVVSLPPIEEQKAIVEKVNALM 546

Query: 387 ARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
              D L  +++QS    +    S +     G+
Sbjct: 547 GLCDTLEHEVQQSQEYSEMLMQSVLREVFEGK 578



 Score = 73.3 bits (178), Expect = 7e-11,   Method: Composition-based stats.
 Identities = 34/211 (16%), Positives = 72/211 (34%), Gaps = 12/211 (5%)

Query: 218 KDSGIEWVGLVPDHWEVKPFFALV-TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK 276
           K S  E    +PD W       +       K+ K  E   + +     +Q         +
Sbjct: 75  KISKDEIPYELPDSWVWCRLNDICEYIQRGKSPKYTEIPKIPVISQKCVQWSGFDISRAR 134

Query: 277 P------ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM---AVKPHG 327
                  E Y   + +  G++++         R +         ++  +++       + 
Sbjct: 135 FITEESLEKYVEERFLQKGDLLWNSTGDGTIGRVISYPGTNYEKVVADSHVTVVRGFKNF 194

Query: 328 IDSTYLAWLMRSYDLCKVF--YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
           I + YL     S  + ++      GS  +  L    VK +    PP++EQ +I  V+   
Sbjct: 195 IITEYLWIFTASPLIQELVVGRVTGSTKQTELGTGTVKSMEFSFPPLEEQKEIVKVVETL 254

Query: 386 TARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
              ++ L +   + I L ++  +S +    T
Sbjct: 255 FKEVEQLEQLTVERINLKEDFVTSALHQLTT 285



 Score = 61.7 bits (148), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 40/202 (19%), Positives = 77/202 (38%), Gaps = 16/202 (7%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDII----YIGLEDVESGTGKYLPKDGNSRQ-SD 74
            +P+ W    +    +  T  T ++ K       ++  ++V+    K++P+        D
Sbjct: 376 ELPEGWVWCRMIELCQYITDGTHQTPKYTEEGRMFLSAKNVK--PFKFMPEKHRFVSEED 433

Query: 75  TSTVSIFAK---GQILYGKLGPYLRKAIIAD----FDGICSTQFLVLQPKDVLPELLQGW 127
                   K     IL  ++G  + +A + D    F    S   L + P  + P  +  W
Sbjct: 434 FEGYRRNRKPELNDILLTRVGAGIGEATLIDQDLEFAIYVSVGLLKMFPNKLEPNYIVMW 493

Query: 128 LLSIDVTQRIEA--ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
           L S +  Q        +G +  + +   I    + +PP+ EQ  I EK+ A     DTL 
Sbjct: 494 LNSPEGRQYSSKNTYGKGVSQGNLNLSLIRQFVVSLPPIEEQKAIVEKVNALMGLCDTLE 553

Query: 186 TERIRFIELLKEKKQALVSYIV 207
            E  +  E  +   Q+++  + 
Sbjct: 554 HEVQQSQEYSEMLMQSVLREVF 575



 Score = 55.2 bits (131), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 28/211 (13%), Positives = 67/211 (31%), Gaps = 13/211 (6%)

Query: 20  AIPKHWKVVPIKRFTK-LNTGRTSESGK--DIIYIGLEDVESGTGKYLPKDGNSRQ--SD 74
            +P  W    +    + +  G++ +  +   I  I  + V+            + +    
Sbjct: 84  ELPDSWVWCRLNDICEYIQRGKSPKYTEIPKIPVISQKCVQWSGFDISRARFITEESLEK 143

Query: 75  TSTVSIFAKGQILYGKL--GPYLRKAIIAD---FDGICSTQFLVL--QPKDVLPELLQGW 127
                   KG +L+     G   R            +  +   V+      ++ E L  +
Sbjct: 144 YVEERFLQKGDLLWNSTGDGTIGRVISYPGTNYEKVVADSHVTVVRGFKNFIITEYLWIF 203

Query: 128 LLSIDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
             S  + + +     G+T  +      + ++    PPL EQ  I + +      ++ L  
Sbjct: 204 TASPLIQELVVGRVTGSTKQTELGTGTVKSMEFSFPPLEEQKEIVKVVETLFKEVEQLEQ 263

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKM 217
             +  I L ++   + +  + T   N +   
Sbjct: 264 LTVERINLKEDFVTSALHQLTTNNANQEWTF 294


>gi|169834252|ref|YP_001694345.1| restriction modification system DNA specificity subunit
           [Streptococcus pneumoniae Hungary19A-6]
 gi|168996754|gb|ACA37366.1| restriction modification system DNA specificity domain
           [Streptococcus pneumoniae Hungary19A-6]
          Length = 340

 Score = 89.5 bits (220), Expect = 8e-16,   Method: Composition-based stats.
 Identities = 43/362 (11%), Positives = 89/362 (24%), Gaps = 35/362 (9%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V + +      G   +  +D    G E +         K  N          I   G 
Sbjct: 2   KKVKLGQVATFINGYAFKP-QDWSSEGKEIIRIQNLTKTSKGINYYSGTIDKKYIVEAGD 60

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           IL    G  L          + +     +    +  +      +     Q       G+T
Sbjct: 61  ILISWSGT-LGVFQWCGRSAVLNQHIFKVVFDKIDIDKSYFKYVVEKGLQDAVKHTHGST 119

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
           M H   K   NI +    L EQ  I  ++   +  I     +      L       + S 
Sbjct: 120 MKHLTKKYFDNIMVSYTNLGEQQRIASELDLLSKLILRRQEQLEELNLL-------VKSR 172

Query: 206 IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII 265
                 +P    K   ++  G     +    F      +         + I         
Sbjct: 173 FNEMFGDPLNNNKKFAVKT-GQQCFKFSSGKFLDKHDRVFEGYPAYGGNGIAW------- 224

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
                              ++D   I+   +                +  I+   + +K 
Sbjct: 225 --------------KSRKYLIDNPTIIIGRVGA----YCGNVRTTHGKVWISDNAIYIKE 266

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
                  L +L+    +           +  +  + ++    ++PP+  Q +  + +   
Sbjct: 267 FKNSDFNLVFLLELMKVIDFSKFADFSGQPKITQKPLENQKYILPPLALQNEFADFVVQI 326

Query: 386 TA 387
             
Sbjct: 327 DK 328



 Score = 54.0 bits (128), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 16/142 (11%), Positives = 42/142 (29%), Gaps = 10/142 (7%)

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
            ++ +     + +   IV+ G+I+  +                   ++      V    I
Sbjct: 39  TSKGINYYSGTIDKKYIVEAGDILISWSGTLG-----VFQWCGRSAVLNQHIFKVVFDKI 93

Query: 329 DSTYLAW-LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           D     +  +    L            + L  +    + V    + EQ  I + ++    
Sbjct: 94  DIDKSYFKYVVEKGLQDAVKHTHGSTMKHLTKKYFDNIMVSYTNLGEQQRIASELD---- 149

Query: 388 RIDVLVEKIEQSIVLLKERRSS 409
            +  L+ + ++ +  L     S
Sbjct: 150 LLSKLILRRQEQLEELNLLVKS 171


>gi|307150616|ref|YP_003886000.1| restriction modification system DNA specificity domain-containing
           protein [Cyanothece sp. PCC 7822]
 gi|306980844|gb|ADN12725.1| restriction modification system DNA specificity domain protein
           [Cyanothece sp. PCC 7822]
          Length = 467

 Score = 89.5 bits (220), Expect = 9e-16,   Method: Composition-based stats.
 Identities = 60/458 (13%), Positives = 137/458 (29%), Gaps = 60/458 (13%)

Query: 25  WKVVPIKRFTK-----LNTGRTSES-------GKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           W+VV ++   +        G    +          I  I   ++  GT ++   +     
Sbjct: 8   WQVVTLEDIAQKDGHGFVDGPFGSNLPASEYVPFGIPVIRGTNLSLGTTRFKDDEFVFVS 67

Query: 73  SDTSTV---SIFAKGQILYGKLGPYLRKAIIADFDGI------CSTQFLVLQPKDVLPEL 123
            +T+     S+   G I++ K G   + AII             +   L +  +   P  
Sbjct: 68  EETAKRLERSLCEPGDIIFTKKGTLGQTAIIPFNHKYQKFLLSSNQMKLTVDIQKAEPLF 127

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           +  ++ S     +I    E   +   +   +   P+ +PPL EQ  I   +     +I+ 
Sbjct: 128 VYYYVSSFTSRSKIIQDSEATGVPKTNLTYLRKFPIVLPPLPEQKAIAHILGTLDDKIEL 187

Query: 184 LITERIRFIELLKEKKQALV------------SYIVTKGLNPDVKMKDSGIE-WVGLVPD 230
                     + +   ++                +V           DS  E  +GL+P 
Sbjct: 188 NQQMNQTLEAMARAIFKSWFVDFDPVRAKMEGKQLVGMDEATAALFPDSFEESDLGLIPK 247

Query: 231 HWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN----------MGLKPESY 280
            W V     +   +   +     ++         I+  +  +          +     S 
Sbjct: 248 GWRVSTLDEVTEFVLGGDWGKDLASEQYNQPAYCIRGADIPDLQNAGLGKMPIRYLKASS 307

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG---------IITSAYMAVKPHGIDST 331
              + +  G IV         + + R   +                   +      I   
Sbjct: 308 LKKRSLQAGNIVIEISGGSPTQSTGRPVLITLNLLDRLSYPLVCSNFCRLIFLKEDISPN 367

Query: 332 YLAWLMRSYDLCKVF--YAMGSGLRQSLKFEDV-KRLPVLVPPIKEQFDITNVINVETAR 388
           ++   +R       F  Y  G+   ++L ++   ++  +++P    Q  +  V    T  
Sbjct: 368 FIYLWLRWLYASDSFLQYENGTTGIKNLAYKIFSEKYELVLP----QQYVLKVFEKTTQP 423

Query: 389 IDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
           +    +       +L   R + +   ++GQI ++   +
Sbjct: 424 LFKKRDANGLQSEILATIRDTLLPKLMSGQIRVKEAEK 461



 Score = 37.1 bits (84), Expect = 5.4,   Method: Composition-based stats.
 Identities = 30/218 (13%), Positives = 64/218 (29%), Gaps = 29/218 (13%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGR-------TSESGKDIIYIGLEDV----ESGTGKYLPK 66
           +G IPK W+V  +   T+   G        + +  +    I   D+     +G GK   +
Sbjct: 242 LGLIPKGWRVSTLDEVTEFVLGGDWGKDLASEQYNQPAYCIRGADIPDLQNAGLGKMPIR 301

Query: 67  DGNSRQSDTSTVSIFAKGQILY-----GKLGPYLRKAIIA-------DFDGICSTQFLVL 114
              +      +      G I+             R  +I         +  +CS    ++
Sbjct: 302 YLKASSLKKRS---LQAGNIVIEISGGSPTQSTGRPVLITLNLLDRLSYPLVCSNFCRLI 358

Query: 115 QPKDVL-PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
             K+ + P  +  WL  +  +        G T                  +  Q  + + 
Sbjct: 359 FLKEDISPNFIYLWLRWLYASDSFLQYENGTT--GIKNLAYKIFSEKYELVLPQQYVLKV 416

Query: 174 IIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGL 211
               T  +           E+L   +  L+  +++  +
Sbjct: 417 FEKTTQPLFKKRDANGLQSEILATIRDTLLPKLMSGQI 454


>gi|260582435|ref|ZP_05850227.1| type I restriction/modification specificity protein [Haemophilus
           influenzae NT127]
 gi|260094586|gb|EEW78482.1| type I restriction/modification specificity protein [Haemophilus
           influenzae NT127]
          Length = 418

 Score = 89.5 bits (220), Expect = 9e-16,   Method: Composition-based stats.
 Identities = 57/400 (14%), Positives = 127/400 (31%), Gaps = 47/400 (11%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           +  P+     +              + +       G       N+ Q      +    G+
Sbjct: 18  EWKPLDEVANIANNARKPVKS---SLRIS------GNIPYYGANNIQDYVEGYT--HDGE 66

Query: 86  ILY----GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            +     G           A      +    V+  K+ L        L+        A  
Sbjct: 67  FVLIAEDGSASLENYSIQWAVGKFWANNHVHVVNGKEKLNNRFLYHYLTNMNFIPFLA-- 124

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            G   +      +  IP+PIPPL+ Q  I   + A T     L +E I   +  +  ++ 
Sbjct: 125 -GKERAKLTKAKLQQIPIPIPPLSVQTEIVRILDALTALTSELTSELILRQKQYEYYREK 183

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
           L+S          +++ +  ++W+       ++     L+     +     E+ + ++ Y
Sbjct: 184 LLS-------FDSLELSEGVVQWI-------KLIDLGELIRGNGLQKKDFTETGVPAIHY 229

Query: 262 GNIIQKLETR----NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
           G I     T        + PE  +  + VD G++V        +        + +   +T
Sbjct: 230 GQIYTYYGTFATKTKSFVSPELAKKLKKVDYGDVVITNTSENFEDVGKAMVYLGKEQAVT 289

Query: 318 SA---YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS-LKFEDVKRLPVLVPPIK 373
                        I S Y  +L ++            G +   +   D+ ++ + +PP+K
Sbjct: 290 GGHATIFKPNHEKILSKYFVYLTQTSFFTNEKRKYAKGTKVIDVSATDMAKIILPIPPLK 349

Query: 374 EQFDITNVINVETARIDVL-------VEKIEQSIVLLKER 406
           EQ  I ++++      + +       +E+ ++     +E 
Sbjct: 350 EQHRIVSILDKFETLTNSITEGLPLAIEQSQKRYEYYREL 389


>gi|313681904|ref|YP_004059642.1| restriction modification system DNA specificity domain
           [Sulfuricurvum kujiense DSM 16994]
 gi|313154764|gb|ADR33442.1| restriction modification system DNA specificity domain
           [Sulfuricurvum kujiense DSM 16994]
          Length = 635

 Score = 89.5 bits (220), Expect = 9e-16,   Method: Composition-based stats.
 Identities = 62/439 (14%), Positives = 137/439 (31%), Gaps = 57/439 (12%)

Query: 30  IKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYG 89
           +      +   +     +       +V+    + +  D        +   I +  Q +YG
Sbjct: 6   LGDILTESKVESLNPDPNNRITVRLNVKGVEKRPVKNDT----EGATKYYIRSFNQFIYG 61

Query: 90  KLGPYLRKAIIADFD---GICSTQ--FLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
           K   +     I   +      S+      +      PE +  +    +  + +E I  GA
Sbjct: 62  KQNLFKGAFGIIPKELDGFETSSDLPCFDIDINRCKPEWILYFFKKGNFYKTLEKIARGA 121

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
                  K    I +P+P + +Q  I  KI + T     +  E      LLK+ +Q+++ 
Sbjct: 122 GSKRISPKDFFKIEIPLPSIDQQESILNKISSITNYSIRIEDEIFSQQNLLKKLRQSILQ 181

Query: 205 YIVTKGLNPDVKMKDSGIEWVGL-----------------------------------VP 229
             +   L    + ++S +E V                                     +P
Sbjct: 182 EAIEGKLTAQWRKENSDVESVSKLLKKIRDEKERLIKEKKIKKGAEVSPILTNDIPFIIP 241

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK-------PESYET 282
            +W       L+  L    +K         +    I  + +  + +         E  + 
Sbjct: 242 QNWGWCRLGNLLRSLEYGTSKKCFQEKKYNTPILRIPNISSGIINVDDLKFTDLSEKEKA 301

Query: 283 YQIVDPGEIVFRFIDLQ--NDKRSLRSAQVMERGIITSAYMA--VKPHGIDSTYLAWLMR 338
              ++  +I+    +       RS+  +   +        +        ID+ Y+ + +R
Sbjct: 302 QYTLENNDILIIRSNGSREIVGRSVLVSNEFQNYGYAGYLIRLRFIGISIDAKYIQYALR 361

Query: 339 SYDLCKVFYA--MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
           S  + +        +    ++   ++  L + +PPI+EQ  I   +    A  D L ++I
Sbjct: 362 SPYIREQIEMPLRTTVGINNINSVEISNLLIPLPPIEEQNVIVEKVENLFAMCDDLEQQI 421

Query: 397 EQSIVLLKERRSSFIAAAV 415
            +S    +    S +  A 
Sbjct: 422 NESKANAEMLMQSVLKEAF 440



 Score = 72.9 bits (177), Expect = 9e-11,   Method: Composition-based stats.
 Identities = 26/175 (14%), Positives = 64/175 (36%), Gaps = 2/175 (1%)

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
            K   L       ++    ++ +E R +    E    Y I    + ++   +L      +
Sbjct: 13  SKVESLNPDPNNRITVRLNVKGVEKRPVKNDTEGATKYYIRSFNQFIYGKQNLFKGAFGI 72

Query: 306 RSAQVMERGIITSA-YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVK 363
              ++      +      +  +     ++ +  +  +  K    +  G   + +  +D  
Sbjct: 73  IPKELDGFETSSDLPCFDIDINRCKPEWILYFFKKGNFYKTLEKIARGAGSKRISPKDFF 132

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           ++ + +P I +Q  I N I+  T     + ++I     LLK+ R S +  A+ G+
Sbjct: 133 KIEIPLPSIDQQESILNKISSITNYSIRIEDEIFSQQNLLKKLRQSILQEAIEGK 187



 Score = 61.7 bits (148), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 24/201 (11%), Positives = 55/201 (27%), Gaps = 14/201 (6%)

Query: 21  IPKHWKVVPIKRFT-KLNTGRTSE----SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           IP++W    +      L  G + +       +   + + ++ SG                
Sbjct: 240 IPQNWGWCRLGNLLRSLEYGTSKKCFQEKKYNTPILRIPNISSGIINVDDLKFTDLSEKE 299

Query: 76  STVSIFAKGQILYGKLGPYLRKAII-------ADFDGICSTQFLVLQPKDVLPELLQGWL 128
                     IL  +                     G       +      +      + 
Sbjct: 300 KAQYTLENNDILIIRSNGSREIVGRSVLVSNEFQNYGYAGYLIRLRFIGISIDAKYIQYA 359

Query: 129 LSIDVTQRIEAIC--EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           L     +    +       +++ +   I N+ +P+PP+ EQ +I EK+       D L  
Sbjct: 360 LRSPYIREQIEMPLRTTVGINNINSVEISNLLIPLPPIEEQNVIVEKVENLFAMCDDLEQ 419

Query: 187 ERIRFIELLKEKKQALVSYIV 207
           +        +   Q+++    
Sbjct: 420 QINESKANAEMLMQSVLKEAF 440


>gi|121595899|ref|YP_987795.1| restriction modification system [Acidovorax sp. JS42]
 gi|120607979|gb|ABM43719.1| restriction modification system, type I [Acidovorax sp. JS42]
          Length = 396

 Score = 89.5 bits (220), Expect = 9e-16,   Method: Composition-based stats.
 Identities = 56/404 (13%), Positives = 133/404 (32%), Gaps = 40/404 (9%)

Query: 24  HWKVVPIKRFTKLNTGRT-SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI-F 81
            W+ V      +    +   E+     YI  + +++   +                 + F
Sbjct: 9   GWRRVKFGDVVRQCKEKADPETSGLERYIAGDHMDTDDLRLRRWGEIGSGYLGPAFHMRF 68

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLV---LQPKDVLPELLQGWLLSIDVTQRIE 138
             GQ+LYG    YLRK  +ADF+GIC+    V     P ++LPE L   + +        
Sbjct: 69  KPGQVLYGSRRTYLRKVAVADFEGICANTTFVLEPQNPNELLPEFLPFLMQTEAFNDFSV 128

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
              +G+   + ++  +      +PP+ EQ      + A T +   +         +L+  
Sbjct: 129 KNSKGSVNPYINFSDLAKFEFVLPPIDEQQSAIALLSAATDQCHAVEAAHRAAGRMLQSF 188

Query: 199 KQALVSYIVTKGLNPDVKMKDSGI--EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
           K +L+       L     + +S +  + +   P+     P                   +
Sbjct: 189 KDSLL-------LRKTSSLANSFLLGDLLLRSPESGCSAP----------PKDADTGYFV 231

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
           L L+  +    +      ++P S      +  G+++    +  +    +         + 
Sbjct: 232 LGLAALSRDGYVSGDFKPVEPTSKMVAAKLSMGDMLISRSNTVDRVGFVGIFSDNRDDVS 291

Query: 317 TSAYMA---VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVP 370
               M      P  +   +L  L+++    +    + +G     + +   ++ ++ + VP
Sbjct: 292 FPDTMMRLQPNPALVHPHFLEALLQTTSAREFLMRIAAGTSASMKKINRANLLQMRLNVP 351

Query: 371 PIKEQFDITNVINVETARIDVLVEKIE------QSIVLLKERRS 408
            +  Q      ++    +    +   +      + +  L   R+
Sbjct: 352 DLDVQEM---ALDEL-QQFKNAIATQKARWDAARQLTRLIAMRT 391



 Score = 68.7 bits (166), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 18/132 (13%), Positives = 52/132 (39%), Gaps = 6/132 (4%)

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA--VKPHGIDSTYLAWLMRSY 340
           +    PG++++        K ++   + +      + ++     P+ +   +L +LM++ 
Sbjct: 65  HMRFKPGQVLYGSRRTYLRKVAVADFEGI---CANTTFVLEPQNPNELLPEFLPFLMQTE 121

Query: 341 DLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
                      G +   + F D+ +   ++PPI EQ     +++  T +   +      +
Sbjct: 122 AFNDFSVKNSKGSVNPYINFSDLAKFEFVLPPIDEQQSAIALLSAATDQCHAVEAAHRAA 181

Query: 400 IVLLKERRSSFI 411
             +L+  + S +
Sbjct: 182 GRMLQSFKDSLL 193


>gi|194336529|ref|YP_002018323.1| restriction modification system DNA specificity domain [Pelodictyon
           phaeoclathratiforme BU-1]
 gi|194309006|gb|ACF43706.1| restriction modification system DNA specificity domain [Pelodictyon
           phaeoclathratiforme BU-1]
          Length = 392

 Score = 89.5 bits (220), Expect = 9e-16,   Method: Composition-based stats.
 Identities = 54/401 (13%), Positives = 119/401 (29%), Gaps = 28/401 (6%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS-TVSIFAKG 84
           K V +++ T +  G++ ES              G   +  K    R    S        G
Sbjct: 2   KTVELQQVTTIIAGQSPESSTYNSIADGLPFFQGKADFQDKFPKVRIWCNSAKRKEADPG 61

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            IL     P      I +   I       ++P   L      + L  +      ++  G+
Sbjct: 62  DILMSVRAPV-GSVNICNQKCIIGRGLSAIRPDANLNNYFLYYYLKCNEKNVA-SLGTGS 119

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
           T        +  + +P+PPL +Q+     +      I     +  +  EL       L S
Sbjct: 120 TFQAITQTTLKRLDVPLPPLDDQIRSATLLSKVENLIFRRREQLKQLDEL-------LKS 172

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
             +    +P             +  +   +           R    +  +++      + 
Sbjct: 173 VFLEMFGDPVR---------NEMGWEMKRMDEISDSRLGKMRDKKFITGNHLRKYIGNSN 223

Query: 265 IQKLETRNMGLKPESYETYQIV----DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
           +Q    +   L+   ++  + V      G+++             RS             
Sbjct: 224 VQWFRFKLDDLEEMDFDERERVLFALMDGDLLICEGGDIGRCAIWRSNLSECYFQKAIHR 283

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
           + +        YL ++M  + L   F  +        L  E +K   + +P ++ Q   +
Sbjct: 284 VRLHKSQAIPEYLQYVMLFFSLYNGFKNVTCKATISHLTGEKLKETLIPLPSLELQNRFS 343

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQID 420
            ++     +++ +      S + L+         A  G++D
Sbjct: 344 TIV----KKVEKIKITYTHSFINLESLYGILSQKAFKGELD 380


>gi|325697670|gb|EGD39555.1| hypothetical protein HMPREF9384_0501 [Streptococcus sanguinis
           SK160]
          Length = 412

 Score = 89.5 bits (220), Expect = 1e-15,   Method: Composition-based stats.
 Identities = 56/425 (13%), Positives = 138/425 (32%), Gaps = 41/425 (9%)

Query: 23  KHWKVVPIKR----FTKLNTGRTSESGKDII------YIGLEDVESGTGKYLPKDGNSRQ 72
             WK + +K     F   + G       +++      ++   +V   +  +   D  +++
Sbjct: 2   SEWKFLTLKEAELEFIDGDRGINYPKKSELLLEGDCVFLNTGNVRQNSFDFSNLDFITKE 61

Query: 73  SDTSTVS-IFAKGQILYGKLGPYLRKAIIADFDGICSTQF------LVLQPKDVLPELLQ 125
            D    +    +  I+    G     A+ +      + +       + +      P  + 
Sbjct: 62  KDNLLRNGKLQRDDIVLTTRGTVGNVALYSQEVPFSNIRINSGMVIIRVNKNFWHPYFVY 121

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
            +  S    ++I  +  G+         +  + +P   L EQ    ++II     ID  I
Sbjct: 122 LFFQSHLFKKQISRLISGSAQPQLPISILETVSIPQLTLDEQ----KEIIFNIKSIDQKI 177

Query: 186 TERIRFIELLKEKKQALVSYIVTKGLNPDV---KMKDSG------IEWVGLVPDHWEVKP 236
               +  + L+   + L  Y   +   PD      K SG       E    +P+ W V+ 
Sbjct: 178 QINNQINQELETMAKTLYDYWFVQFDFPDQNGKPYKSSGGKMVYNPELKRQIPEGWGVEK 237

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFI 296
              +    + K   L  ++   +               +    +E   ++   +      
Sbjct: 238 LGDITICHDSKRVPLSSNDRELVKGEIPYYGATGIMDYVNNYIFEGDYVLMAED----GS 293

Query: 297 DLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS 356
            +      +      +  +   A++           L  L++   + K+       ++  
Sbjct: 294 VMTEKGTPILQRISGKNWVNNHAHVLEPIKNHSCKLLMMLLKDVSVMKI---KTGSIQMK 350

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           +  E++ ++ V   P++  F+I   + V   +   L+E+ +Q    L + R   +   + 
Sbjct: 351 INQENMNKIVVPAIPLELLFEINQKLEVIDKQQLNLIEENKQ----LTQLRDWLLPMLMN 406

Query: 417 GQIDL 421
           GQ+ +
Sbjct: 407 GQVKV 411



 Score = 40.5 bits (93), Expect = 0.54,   Method: Composition-based stats.
 Identities = 32/193 (16%), Positives = 63/193 (32%), Gaps = 16/193 (8%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            IP+ W V  +   T  +  +      +   +   ++        P  G +   D     
Sbjct: 228 QIPEGWGVEKLGDITICHDSKRVPLSSNDRELVKGEI--------PYYGATGIMDYVNNY 279

Query: 80  IFAKGQILYGKLGPYL---RKAIIADFDG--ICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
           IF    +L  + G  +      I+    G    +    VL+P   +       L+ +   
Sbjct: 280 IFEGDYVLMAEDGSVMTEKGTPILQRISGKNWVNNHAHVLEP---IKNHSCKLLMMLLKD 336

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             +  I  G+     + + +  I +P  PL     I +K+     +   LI E  +  +L
Sbjct: 337 VSVMKIKTGSIQMKINQENMNKIVVPAIPLELLFEINQKLEVIDKQQLNLIEENKQLTQL 396

Query: 195 LKEKKQALVSYIV 207
                  L++  V
Sbjct: 397 RDWLLPMLMNGQV 409


>gi|291320524|ref|YP_003515788.1| type I R/M system specificity subunit [Mycoplasma agalactiae]
 gi|290752859|emb|CBH40834.1| Type I R/M system specificity subunit [Mycoplasma agalactiae]
          Length = 410

 Score = 89.5 bits (220), Expect = 1e-15,   Method: Composition-based stats.
 Identities = 53/403 (13%), Positives = 120/403 (29%), Gaps = 28/403 (6%)

Query: 25  WKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           W+   +  F     G + E+          I +         Y  +      S      I
Sbjct: 19  WEQEKLGNFGTSTGGSSIENFFNNNGKYKVISIGSFSEDNT-YNDQGLRIDYSPFIKDKI 77

Query: 81  FAKGQILY-----GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
             K  I+            L KA++ + D        V +        L  ++ ++  + 
Sbjct: 78  LKKDNIVMILNDKSSEAKILGKALLIEKDDEFVYNQRVQKIDINKDRFLSKFIFTLLNSN 137

Query: 136 RIEAIC---EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
             E I    +G T  + +W  I +I   IP L EQ  I          I     +     
Sbjct: 138 SREKITLLAQGNTQIYVNWSSISSIEYLIPNLEEQSQISSLFSHLDSLITLHQRKLSSLK 197

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
            L           +     +   +      +      + W+ +       + N KN  LI
Sbjct: 198 NLKNRL-------LDKMFCDEKSQFPSIRFKEFTNAWEQWKARGILLPYRQKNDKNLTLI 250

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
             ++ +       ++             +   I+      +    +     S+   +   
Sbjct: 251 SYSVSNKEGFVDQKEFFDEGGKAVYADKKNSLIISFDTFAYNPSRIN--VGSIALFKNTI 308

Query: 313 RGIITSAY-MAVKPHGIDSTYLAWLMRSYDLCKVF-YAMGSGLRQSLKFEDVKRLPVLVP 370
            G+++  Y +       +  ++    +S    K+        +R +L  +  +   + +P
Sbjct: 309 NGLVSPIYEVFKVSANSNPDFIYLWFKSECFNKIVANNSNKSVRDTLNLKQFEDNLLNLP 368

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            ++EQ  I        + +D L+   ++ +  LK  +++ +  
Sbjct: 369 VLQEQNKIA----KLFSSLDSLITLHQRKLNSLKNIKNTLLEK 407



 Score = 69.1 bits (167), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 30/208 (14%), Positives = 72/208 (34%), Gaps = 12/208 (5%)

Query: 211 LNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLET 270
           L P ++ K+    W      ++      + +      N K    +I S S  N       
Sbjct: 6   LVPKIRFKEFTNAWEQEKLGNFGTSTGGSSIENFFNNNGKYKVISIGSFSEDNTYNDQGL 65

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA---QVMERGIITSAY--MAVKP 325
           R   +    +   +I+    IV    D  ++ + L  A   +  +  +       + +  
Sbjct: 66  R---IDYSPFIKDKILKKDNIVMILNDKSSEAKILGKALLIEKDDEFVYNQRVQKIDINK 122

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
               S ++  L+ S    K+        +  + +  +  +  L+P ++EQ  I    +  
Sbjct: 123 DRFLSKFIFTLLNSNSREKITLLAQGNTQIYVNWSSISSIEYLIPNLEEQSQI----SSL 178

Query: 386 TARIDVLVEKIEQSIVLLKERRSSFIAA 413
            + +D L+   ++ +  LK  ++  +  
Sbjct: 179 FSHLDSLITLHQRKLSSLKNLKNRLLDK 206


>gi|194467966|ref|ZP_03073952.1| restriction modification system DNA specificity domain
           [Lactobacillus reuteri 100-23]
 gi|194452819|gb|EDX41717.1| restriction modification system DNA specificity domain
           [Lactobacillus reuteri 100-23]
          Length = 385

 Score = 89.5 bits (220), Expect = 1e-15,   Method: Composition-based stats.
 Identities = 54/377 (14%), Positives = 131/377 (34%), Gaps = 30/377 (7%)

Query: 51  IGLEDVESGTGKYLPKDGNSRQSDTST---VSIFAKGQILYGKLGPYLRKAIIADFDGIC 107
           +  +++ +        D    ++D           KG +L   +G   R AI+ + + + 
Sbjct: 26  LSAKNIINNRVVITSNDRKISENDFKKIHDKFQLRKGDVLLTIVGTIGRSAILKEANKLT 85

Query: 108 STQ----FLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPP 163
             +        +        L     S +   +++     +         I  + + IP 
Sbjct: 86  FQRSVAYLRPDENILTSSNFLFSLSKSSNFQNQLKKRTVISAQPGIYLSDIDKLNITIPE 145

Query: 164 LAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIE 223
           L E+    +KI +  + ID++++ + R +E LK+ K+A++  +     +    ++     
Sbjct: 146 LKEEQ---DKIASIIITIDSILSLQQRKLEQLKQLKKAMLQQLFVNKNSKQPNLRFKN-- 200

Query: 224 WVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY 283
                   W+ +   ++    + K+   +     +   G + +     ++  + +S   Y
Sbjct: 201 ----FNGDWKQRKGKSIFYSKSNKDFPELTVLSATQDKGMVPRSSTGIDIKYEKKSLRGY 256

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWL---MRSY 340
           + V+PG+ +      Q        A     GI++ AY        +     +      SY
Sbjct: 257 KKVEPGDFIVHLRSFQG-----GFAYSDLTGIVSPAYTVFTFKQPEMFNNYFWKEKFTSY 311

Query: 341 DLCKVFYAMGSGLR--QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
           +  ++   +  G+R  +S+ + D   L    P   EQ  I +        I+ L+   + 
Sbjct: 312 NFIQLLKKVTYGVRDGRSISYSDFLTLNEKFPVEVEQTKIAD----LFKTINNLIAFQQN 367

Query: 399 SIVLLKERRSSFIAAAV 415
            +  L   +   +    
Sbjct: 368 KLTQLTALKKHLLQKLF 384


>gi|194364815|ref|YP_002027425.1| restriction modification system DNA specificity domain
           [Stenotrophomonas maltophilia R551-3]
 gi|194347619|gb|ACF50742.1| restriction modification system DNA specificity domain
           [Stenotrophomonas maltophilia R551-3]
          Length = 364

 Score = 89.5 bits (220), Expect = 1e-15,   Method: Composition-based stats.
 Identities = 52/365 (14%), Positives = 104/365 (28%), Gaps = 34/365 (9%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
             W +VP+K    L  G           +G+ +     G+      N +      V I  
Sbjct: 8   SGWPLVPLKNIATLKRGYDLP-------VGMRN----KGEVPIYAANGQNGSHDEVKING 56

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
            G ++ G+ G   R           +T   V+      P  +   L +  +    E   E
Sbjct: 57  PG-VITGRSGTIGRVHYCEGGFWPLNTALYVMDFHGNHPRWVYYMLSAFKL----ERFSE 111

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           GA +   +   + +  +P+PPL EQ  I   +                  +L       L
Sbjct: 112 GAGVPTLNRNLVHDELIPLPPLPEQKRIAAILDKADAIRRKRQQAIQLADDL-------L 164

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
            +  +    +P    K    + +  +      K   +    +  K T         ++ G
Sbjct: 165 RAVFLDMFGDPVTNPKGWPRKALRTLGSSITGKTPPSEKAGMWGKGT-------PFVTPG 217

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
           ++   + +    +  E     ++   G ++   I     K  +  + V           A
Sbjct: 218 DLNGCIRSSAREVTEEGLANSRLCRAGGLLVCCIGATIGKVGISESPVT----FNQQINA 273

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
            + +        + +       V           LK      + + VPP   Q     ++
Sbjct: 274 QEWNCEVHDIYGYFVFKICPQLVRDGAIQTTLPILKKSLFDGIEIPVPPRAMQAKFAGIV 333

Query: 383 NVETA 387
               A
Sbjct: 334 ESTLA 338



 Score = 63.3 bits (152), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 17/109 (15%), Positives = 41/109 (37%), Gaps = 7/109 (6%)

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL 353
             I  ++               + +A   +  HG    ++ +++ ++ L +         
Sbjct: 58  GVITGRSGTIGRVHYCEGGFWPLNTALYVMDFHGNHPRWVYYMLSAFKLERFSE---GAG 114

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
             +L    V    + +PP+ EQ  I  +++    + D +  K +Q+I L
Sbjct: 115 VPTLNRNLVHDELIPLPPLPEQKRIAAILD----KADAIRRKRQQAIQL 159



 Score = 55.2 bits (131), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 20/158 (12%), Positives = 44/158 (27%), Gaps = 13/158 (8%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           PK W    ++      TG+T  S      GK   ++   D+    G          +   
Sbjct: 179 PKGWPRKALRTLGSSITGKTPPSEKAGMWGKGTPFVTPGDL---NGCIRSSAREVTEEGL 235

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
           +   +   G +L   +G  + K  I++     + Q             +           
Sbjct: 236 ANSRLCRAGGLLVCCIGATIGKVGISESPVTFNQQI----NAQEWNCEVHDIYGYFVFKI 291

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
             + + +GA  +               P+  + +  + 
Sbjct: 292 CPQLVRDGAIQTTLPILKKSLFDGIEIPVPPRAMQAKF 329


>gi|307566385|ref|ZP_07628824.1| type I restriction modification DNA specificity domain protein
           [Prevotella amnii CRIS 21A-A]
 gi|307344962|gb|EFN90360.1| type I restriction modification DNA specificity domain protein
           [Prevotella amnii CRIS 21A-A]
          Length = 399

 Score = 89.5 bits (220), Expect = 1e-15,   Method: Composition-based stats.
 Identities = 56/395 (14%), Positives = 118/395 (29%), Gaps = 22/395 (5%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W+   I+      +   + +  +++  G   V    G     +   ++ +  +      
Sbjct: 21  DWEKKKIESIISQESSTMAMNKLELLKEGFP-VYGADGLIGYINDFQQKEEYIS------ 73

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
                 K G  + K  +             L+ KD        W+  +  T    +  +G
Sbjct: 74  ----MVKDGSGVGKLNLCQKHSSILGTLTALKSKDS-KRYFLKWIYYLLNTLDFSSYVKG 128

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           A + H  +  I +  + IP  +EQ  I + + +    I+    +        K   Q L+
Sbjct: 129 AGIPHIYYSDIKHKCIYIPSFSEQEKIADCLSSLDDYINATQEKIEILQAHKKGLIQQLL 188

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
             +      P  ++   G           E+       T          +  I      +
Sbjct: 189 PALGKTM--PQKRLPKFGKSKKWSPYSMEEMFKIRNGYTPSKSNPKFWEDGTIPWFRMED 246

Query: 264 IIQKL---ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
           I +           +  E+ +   +     I+        +   +    +  +       
Sbjct: 247 IREHGHILSDSIQHITKEAVKGKGLFPANSIIVATTATIGEHALIIVDSLANQRFTFLTK 306

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
                  ID  Y  + M   D         +G   S+     KRL V +P  +EQ +I  
Sbjct: 307 RKSFDTQIDMKYFYYYMYIID-EWCKQHTNAGGFASVDMNGFKRLSVSLPSPEEQKEIAE 365

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
                 A ID L++  +Q +V+L++ +   +    
Sbjct: 366 ----CFASIDDLIDSTKQKLVMLQKHKQGLMQQLF 396


>gi|225076052|ref|ZP_03719251.1| hypothetical protein NEIFLAOT_01084 [Neisseria flavescens
           NRL30031/H210]
 gi|224952612|gb|EEG33821.1| hypothetical protein NEIFLAOT_01084 [Neisseria flavescens
           NRL30031/H210]
          Length = 387

 Score = 89.1 bits (219), Expect = 1e-15,   Method: Composition-based stats.
 Identities = 55/397 (13%), Positives = 107/397 (26%), Gaps = 34/397 (8%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLP---KDGNSRQSDTSTVS 79
           + WK   +    ++   R     +      +   + GT    P         +       
Sbjct: 16  EEWKNKTLGDLGRVEMCRRIFKEQTQPSGEIPFFKIGTFGQEPDAFISSELFEEYRQKYP 75

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
              +G IL    G   R       +       +V        E            Q I+ 
Sbjct: 76  YPKQGDILISAAGTIGRTVEFTGENAYFQDSNIVW---LRFDESQITSTFLNITYQNIKW 132

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
             EG+T+       + +  + +P L EQ  +         +I          +E  ++ K
Sbjct: 133 GLEGSTIKRLYNSDLLSAEITVPSLPEQTHLGLFFRRLDSQIAE----SRAVLEKSRQLK 188

Query: 200 QALVSYIVTKGLN--PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
           +A+++ +        P ++ K    EW               ++   N  + K  +    
Sbjct: 189 KAMLAKMFPANGEKIPQIRFKGFEGEWETYQICDLFRITRGNVLATTNLVDNKNEDYCYP 248

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
             S     + L         E+  T+           F   +    ++    + E G   
Sbjct: 249 VYSSQTKNKGLMGYWKHYLFENAITWTTDGANAGDVNFRSGKFYCTNVCGVLINEDGFAN 308

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP-IKEQF 376
                +      S                          L    +  +P+L+PP IKEQ 
Sbjct: 309 QCIAEILNLVTHSYVSY-----------------VGNPKLMNNVMAEIPILIPPTIKEQT 351

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            I N       ++D  +      +  L   +   +AA
Sbjct: 352 AIGNF----FLQLDETIALQSAEVEKLNRLKKGLLAA 384



 Score = 65.6 bits (158), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 24/202 (11%), Positives = 54/202 (26%), Gaps = 15/202 (7%)

Query: 213 PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
           P ++ K    EW                +     K        I     G   Q+ +   
Sbjct: 7   PRLRFKGFTEEWKNKTLGDLGRVEMCRRIF----KEQTQPSGEIPFFKIGTFGQEPDAFI 62

Query: 273 MGLKPESYE-TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST 331
                E Y   Y     G+I+                   E      + +       D +
Sbjct: 63  SSELFEEYRQKYPYPKQGDILISAAGTIGRTV----EFTGENAYFQDSNIVWL--RFDES 116

Query: 332 YLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
            +     +     + + +     + L   D+    + VP + EQ      + +   R+D 
Sbjct: 117 QITSTFLNITYQNIKWGLEGSTIKRLYNSDLLSAEITVPSLPEQT----HLGLFFRRLDS 172

Query: 392 LVEKIEQSIVLLKERRSSFIAA 413
            + +    +   ++ + + +A 
Sbjct: 173 QIAESRAVLEKSRQLKKAMLAK 194


>gi|315026885|gb|EFT38817.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX2137]
          Length = 377

 Score = 89.1 bits (219), Expect = 1e-15,   Method: Composition-based stats.
 Identities = 49/392 (12%), Positives = 121/392 (30%), Gaps = 38/392 (9%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + W+    +   K++TG+ +   K         VE+G     P    S   + S   ++ 
Sbjct: 18  EEWEQCKAEELCKISTGKGNTQDK---------VENGK---YPFYVRSENIERSNYFLYD 65

Query: 83  KGQILYGKLGPYLRKAIIA--DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
           +  +L    G    +          +    + +      +      +  S++  +R+ ++
Sbjct: 66  QEAVLTVGDGVGTGRVFHYVSGKYNLHQRVYRMYDFNKQISAKYFYYYFSLNFHRRVRSL 125

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
               ++       I ++ +  P   EQ+ I   +      +   IT   R +E LKE K+
Sbjct: 126 TAKTSVDSVRLNMIADMEIKYPSELEQLKIFSFLDY----LIKSITLHQRKLEQLKELKK 181

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
           A +  +         K++ +  E    +     +        +   + +    +      
Sbjct: 182 AYLQLMFPTKEERVPKLRFADFEGEWELCKLIGILDIIKGTQKSKSELSTNQNNCTPYPV 241

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
           Y   I      N+  +                      +    +     V E+       
Sbjct: 242 YNGGINPSGYTNIYNREN---------------AITISEGGNSAGFVNFVQEKFFSGGHN 286

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
             +  +  D+ +L + + S    ++          +++   +  L +      EQ  I  
Sbjct: 287 YTIVNNVTDTLFLFFYLCSIQ-EEIMRLRVGTGLPNIQKPTLMNLEIQKTTDNEQKFIGL 345

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
            +      ID+L+   +  +  LK  + S++ 
Sbjct: 346 FL----KNIDILITLTQNKLNQLKSLKKSYLQ 373



 Score = 63.3 bits (152), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 25/186 (13%), Positives = 51/186 (27%), Gaps = 7/186 (3%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYE---TYQIV 286
           +  +V            +  K  E   +S   GN   K+E         S     +   +
Sbjct: 4   EMKKVPRLRFRGFSEEWEQCKAEELCKISTGKGNTQDKVENGKYPFYVRSENIERSNYFL 63

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF 346
              E V    D     R                 M      I + Y  +        +V 
Sbjct: 64  YDQEAVLTVGDGVGTGRVFHYVSGKYNLHQRVYRMYDFNKQISAKYFYYYFSLNFHRRVR 123

Query: 347 YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
                    S++   +  + +  P   EQ  I + ++         +   ++ +  LKE 
Sbjct: 124 SLTAKTSVDSVRLNMIADMEIKYPSELEQLKIFSFLDYLIKS----ITLHQRKLEQLKEL 179

Query: 407 RSSFIA 412
           + +++ 
Sbjct: 180 KKAYLQ 185


>gi|26251229|ref|NP_757269.1| putative restriction modification enzyme S subunit [Escherichia
           coli CFT073]
 gi|227885169|ref|ZP_04002974.1| restriction modification enzyme S subunit [Escherichia coli 83972]
 gi|300980747|ref|ZP_07175162.1| type I restriction modification DNA specificity domain protein
           [Escherichia coli MS 45-1]
 gi|26111662|gb|AAN83843.1|AE016772_21 Putative restriction modification enzyme S subunit [Escherichia
           coli CFT073]
 gi|227837998|gb|EEJ48464.1| restriction modification enzyme S subunit [Escherichia coli 83972]
 gi|300409162|gb|EFJ92700.1| type I restriction modification DNA specificity domain protein
           [Escherichia coli MS 45-1]
 gi|307556579|gb|ADN49354.1| type I restriction-modification system, S subunit [Escherichia coli
           ABU 83972]
 gi|315293301|gb|EFU52653.1| type I restriction modification DNA specificity domain protein
           [Escherichia coli MS 153-1]
          Length = 589

 Score = 89.1 bits (219), Expect = 1e-15,   Method: Composition-based stats.
 Identities = 63/509 (12%), Positives = 132/509 (25%), Gaps = 99/509 (19%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK-DIIYIGLEDVESG 59
           +K  K  P+   S  +    +P  W+   + R  ++N        + +I +I +  + + 
Sbjct: 83  IKKQKPLPEI--SEEEKPFELPDGWEWTTLTRIAEINPKIDVSDDEQEISFIPMPLISTK 140

Query: 60  TGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRK------AIIADFDGICSTQFLV 113
                  +    +      + FA G I   K+ P          + + +  G+ +T+  V
Sbjct: 141 FDGSHEFEIKKWKDVKKGYTHFANGDIAIAKITPCFENSKAAIFSGLKNGIGVGTTELHV 200

Query: 114 LQPKDVLPELLQ---GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQV-- 168
            +P   +         +     +      +   A           N P+P PPL EQ   
Sbjct: 201 ARPFSDIINRKYLLLNFKSPNFLKSGESQMTGSAGQKRVPRFFFENNPIPFPPLQEQERI 260

Query: 169 ---------------------------------------LIREKIIAETVRIDTLITERI 189
                                                     E++     RI        
Sbjct: 261 IIRFTQLMSLCDQLEQQSLTSLDAHQQLVETLLGTLTDSQNVEELAENWARISEHFDTLF 320

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKD------------------------------ 219
                +   KQ ++   V   L P     +                              
Sbjct: 321 TTEASVDALKQTILQLAVMGKLVPQDPNDEPASELLKRIAQKKAQLVKEGKIKKQKPLPP 380

Query: 220 -SGIEWVGLVPDHWEVKPF---FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL 275
            S  E    +P+ WE       +  +     K+       +  L   NI   +      +
Sbjct: 381 ISDEEKPFELPEGWEWCRLGSIYNFLNGYAFKSEWFTSVGLRLLRNANIAHGVTNWKDVV 440

Query: 276 KP----ESYETYQIVDPGEIVFR----FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
                  S     I+   +IV       I+       +  + +    +   A      + 
Sbjct: 441 HIPNDMISDFENYILSENDIVISLDRPIINTGLKYAIISKSDLPCLLLQRVAKFKNYANT 500

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           + +++L   ++SY          S     +  + ++     + P  EQ  I +  +    
Sbjct: 501 VSNSFLTIWLQSYFFINSIDPGRSNGVPHISTKQLEMTLFPLLPQSEQDRIISKTDELIQ 560

Query: 388 RIDVL----VEKIEQSIVLLKERRSSFIA 412
             + L        +  + L      + I 
Sbjct: 561 TCNKLKYIIKTAKQTQLHLADALTDAAIN 589


>gi|282909127|ref|ZP_06316945.1| type I restriction-modification enzyme [Staphylococcus aureus
           subsp. aureus WW2703/97]
 gi|282327391|gb|EFB57686.1| type I restriction-modification enzyme [Staphylococcus aureus
           subsp. aureus WW2703/97]
          Length = 361

 Score = 89.1 bits (219), Expect = 1e-15,   Method: Composition-based stats.
 Identities = 45/389 (11%), Positives = 109/389 (28%), Gaps = 30/389 (7%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
             +    K+N+G+  +            +E G        G           +     + 
Sbjct: 1   KKLGDLIKVNSGKDYK-----------HLEKGDIPVYGTGGYMTSVSEP---LSEIDAVG 46

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMS 147
            G+ G   +  ++        T F     K+     +             +   E   + 
Sbjct: 47  IGRKGTINKPYLLEAPFWTVDTLFYCTPKKETDILFILSLFR----KINWKVYDESTGVP 102

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
               + I  I   +P   EQ  I E  I    +I+    +     +  K   Q + S  +
Sbjct: 103 SLSKQTINKINRFVPSNKEQQKIGEFFIKLDRQIELEEQKLELLQQQKKGYMQKIFSQEL 162

Query: 208 TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK 267
                      +   + +  +                N K  +    +I  +   ++   
Sbjct: 163 RFKDENGNDYPNWEEKKIEDI------ASQVYGGGTPNTKIKEFWNGDIPWIQSSDVKVN 216

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
                   K  S  + ++     I    I +       +   V      +  ++++    
Sbjct: 217 DLILRQCNKFISKNSIELSSAKLIPANSIAIVTRVGVGKLCLVEFDYATSQDFLSLSSLK 276

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-PIKEQFDITNVINVET 386
            D  Y  + +  Y + K+   +     + +  +++    + +P  ++EQ  I +      
Sbjct: 277 YDKLYSLYSLL-YTMKKISANLQGTSIKGITKKELLDSIIKIPHNLEEQQKIGD----LF 331

Query: 387 ARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            +ID  +   +  I +LK  +   +    
Sbjct: 332 YKIDKYISFNKCKIEILKSLKQGLLQKIF 360



 Score = 44.8 bits (104), Expect = 0.024,   Method: Composition-based stats.
 Identities = 38/193 (19%), Positives = 67/193 (34%), Gaps = 15/193 (7%)

Query: 24  HWKVVPIKRFTK-LNTGRTSES------GKDIIYIGLEDVESGTGKYL--PKDGNSRQSD 74
           +W+   I+     +  G T  +        DI +I   DV+          K  +    +
Sbjct: 174 NWEEKKIEDIASQVYGGGTPNTKIKEFWNGDIPWIQSSDVKVNDLILRQCNKFISKNSIE 233

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
            S+  +     I        + K  + +FD   S  FL L         L      +   
Sbjct: 234 LSSAKLIPANSIAIVT-RVGVGKLCLVEFDYATSQDFLSLSSLKYD--KLYSLYSLLYTM 290

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           ++I A  +G ++     K    +   I  +   +  ++KI     +ID  I+     IE+
Sbjct: 291 KKISANLQGTSIKGITKKE---LLDSIIKIPHNLEEQQKIGDLFYKIDKYISFNKCKIEI 347

Query: 195 LKEKKQALVSYIV 207
           LK  KQ L+  I 
Sbjct: 348 LKSLKQGLLQKIF 360


>gi|255284468|ref|ZP_05349023.1| type I restriction-modification system specificity subunit
           [Bryantella formatexigens DSM 14469]
 gi|255264978|gb|EET58183.1| type I restriction-modification system specificity subunit
           [Bryantella formatexigens DSM 14469]
          Length = 359

 Score = 89.1 bits (219), Expect = 1e-15,   Method: Composition-based stats.
 Identities = 49/388 (12%), Positives = 115/388 (29%), Gaps = 34/388 (8%)

Query: 30  IKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYG 89
                ++  GR               VE+  GKY P  G+      +   I +   ++ G
Sbjct: 3   FNDVLEIKNGRNQRR-----------VENPDGKY-PVYGSGGIMGYADDYICSAETVIIG 50

Query: 90  KLGPYLRKAIIADFDGICSTQFLVLQPKDV-LPELLQGWLLSIDVTQRIEAICEGATMSH 148
           + G       + +      T F +   ++V +P  L  +    D  Q    + +  T+  
Sbjct: 51  RKGSINNPIFVDEPFWNVDTAFGLEAKREVLIPRYLYYFCKHFDFKQ----LNKTVTIPS 106

Query: 149 ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVT 208
                +  I + +P L+ Q  I  ++      ++ +I    + +E L E  +A    +  
Sbjct: 107 LTKSDLLKIEIKLPCLSNQQSIVHRL----QSVEQIIDNYYQQLEKLDELVKARFVEMFG 162

Query: 209 KGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKL 268
             +      +   +  +  +                              +  G ++   
Sbjct: 163 DPVENPHGFRKVALSELAEIKIGPFGSLLHKEDYIEGGHPLLNPSH----IVGGKVVPDS 218

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
           +      K +  E Y  +   ++V                        T + +      +
Sbjct: 219 KLTISDKKYDELEAYH-LHTDDVVMGRRGEMGR---CAVVTSEGFLCGTGSLLIRTKGEV 274

Query: 329 DSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
            + Y+   +      K    M  G    +L    V +  ++ PPI+ Q      +    A
Sbjct: 275 TADYIQKTISFPSFRKTIEDMAVGQTMPNLNVPIVSKFQIIKPPIEVQKRYYEFV----A 330

Query: 388 RIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           ++D     +++++   +    S +    
Sbjct: 331 QVDKSKIAVQKALDQTQLLFDSLMQKYF 358


>gi|294619474|ref|ZP_06698918.1| restriction modification system DNA specificity protein
           [Enterococcus faecium E1679]
 gi|291594301|gb|EFF25731.1| restriction modification system DNA specificity protein
           [Enterococcus faecium E1679]
          Length = 400

 Score = 89.1 bits (219), Expect = 1e-15,   Method: Composition-based stats.
 Identities = 49/410 (11%), Positives = 123/410 (30%), Gaps = 54/410 (13%)

Query: 26  KVVPIKRFTKLNT----GRTSESGKDIIYIGLEDVESGT--GKYLPKDGNSRQSDTSTVS 79
           +   +     +++     +  E  K I  +   DV       K +P    +         
Sbjct: 16  EWKTLDEIGLISSAGVDKKKIEGEKSIKLLNYMDVYRNMYLIKDIPSMIVTAPDKKIEQC 75

Query: 80  IFAKGQILYGKLGPYLR-----KAIIADFDGICSTQFLV----LQPKDVLPELLQGWLLS 130
              KG I +      L         + +  G+  +  ++      P  +    +   L S
Sbjct: 76  NVLKGDIFFTPSSEVLNDIGNSAVALENMYGVVYSYHIMRLRLNNPNIITSMFINYMLGS 135

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
             V  +I    +G T           + +PIPPL  Q  I   +   T     L  E   
Sbjct: 136 EFVQNQINKNAKGLTRFGLTKTQWEKLQIPIPPLNVQEEIVRILDTFTELTAELTAELTA 195

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEW--VGLVPDHWEVKPFFALVTELNRKN 248
            +   K++             +  +  ++  +EW  +G + ++ +              +
Sbjct: 196 ELTARKKQYTYYR--------DKLLTFEEGEVEWKPLGELAENHDSMRKPITSGLREIGD 247

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQN--DKRSLR 306
                ++ +                      Y    I D   ++           +  + 
Sbjct: 248 IPYYGASGIV--------------------DYVKDFIFDGDYLLVSEDGANLLARRTPIA 287

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLP 366
            +   +  +   A++       +  Y+ + + S DL           +  L   ++  + 
Sbjct: 288 FSISGKSWVNNHAHVLKFNTYAERKYIEYYLNSIDLTPYI---SGAAQPKLNQRNLNAIH 344

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           +  P ++++  I ++++   A    + E + + I L ++     R+  ++
Sbjct: 345 IPNPSLEDKERIVSILDKFDALTSSITEGLPREIELRQKQYEYYRNMLLS 394


>gi|225155300|ref|ZP_03723793.1| Restriction endonuclease S subunits-like protein [Opitutaceae
           bacterium TAV2]
 gi|224803907|gb|EEG22137.1| Restriction endonuclease S subunits-like protein [Opitutaceae
           bacterium TAV2]
          Length = 462

 Score = 89.1 bits (219), Expect = 1e-15,   Method: Composition-based stats.
 Identities = 33/213 (15%), Positives = 60/213 (28%), Gaps = 10/213 (4%)

Query: 209 KGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE-------SNILSLSY 261
           +G              +  +P+ W       +                          S 
Sbjct: 245 QGRGKYKPPAAPDTTTLPPLPEGWTWANIEQIGQTTTGFTPPKNNAALFGGSIPFFKPSD 304

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
            ++   +      L  +  E  +I+    I+   I     K  L   Q      I +  +
Sbjct: 305 LDVGYNVREYRDSLTNKGAEYGRILPALSILVTCIGATIGKTGLARVQCTTNQQINA--L 362

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
            V    I S ++ W + S    +      S      L     + LPV +PP+ EQ  I  
Sbjct: 363 TVPNELILSQFVYWYINSPLGQRQIIDNASATTLPILNKSRFEALPVPLPPLTEQTRIVA 422

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            +    + ID L   +  ++      R S +  
Sbjct: 423 EVERRLSVIDELETLVTANLTRATHLRQSILQQ 455



 Score = 68.3 bits (165), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 35/202 (17%), Positives = 72/202 (35%), Gaps = 9/202 (4%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSR 71
           +  +P+ W    I++  +  TG T            I +    D++ G         +  
Sbjct: 261 LPPLPEGWTWANIEQIGQTTTGFTPPKNNAALFGGSIPFFKPSDLDVGY-NVREYRDSLT 319

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQF--LVLQPKDVLPELLQGWLL 129
                   I     IL   +G  + K  +A      + Q   L +  + +L + +  ++ 
Sbjct: 320 NKGAEYGRILPALSILVTCIGATIGKTGLARVQCTTNQQINALTVPNELILSQFVYWYIN 379

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
           S    ++I       T+   +      +P+P+PPL EQ  I  ++      ID L T   
Sbjct: 380 SPLGQRQIIDNASATTLPILNKSRFEALPVPLPPLTEQTRIVAEVERRLSVIDELETLVT 439

Query: 190 RFIELLKEKKQALVSYIVTKGL 211
             +      +Q+++     +G+
Sbjct: 440 ANLTRATHLRQSILQQTFNEGI 461



 Score = 57.9 bits (138), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 26/192 (13%), Positives = 74/192 (38%), Gaps = 9/192 (4%)

Query: 240 LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY--QIVDPGEIVFRFID 297
            V  + +      E   + +   N   K       L      +   Q++  G+++     
Sbjct: 12  CVDNVEKTGPVGREFVYVDIGSINRETKRIEDAKTLLASKAPSRAKQVLKTGDVLVSMTR 71

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QS 356
              +  +    ++ +  I ++ +  ++    +S +L + +++    +       G    +
Sbjct: 72  PNLNAVAWVPPEL-DGSIGSTGFHVLRAQNTESKFLFYAVQTNSFIEAMCQKVQGALYPA 130

Query: 357 LKFEDVKRLPVLVPP--IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAA 414
           ++  D+      +PP  + +Q  I   I  +  R+D  V  +++    LK  R++ + +A
Sbjct: 131 VRPRDISSF--CLPPFSLAQQHRIVAEIEKQFTRLDAGVTALKRVQANLKRNRAAVLKSA 188

Query: 415 VTGQIDLRGESQ 426
             G++ +  E++
Sbjct: 189 CEGRL-VPTEAE 199


>gi|322515485|ref|ZP_08068471.1| type I restriction/modification specificity protein [Actinobacillus
           ureae ATCC 25976]
 gi|322118452|gb|EFX90703.1| type I restriction/modification specificity protein [Actinobacillus
           ureae ATCC 25976]
          Length = 386

 Score = 89.1 bits (219), Expect = 1e-15,   Method: Composition-based stats.
 Identities = 59/414 (14%), Positives = 123/414 (29%), Gaps = 48/414 (11%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           +   ++    +  G+  +            +  G     P  G+          ++    
Sbjct: 2   EEYKLQDLISIKNGKKYD-----------HLNKGNI---PVYGSGGIMTYVDDYLYDGEA 47

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           +L  + G                T +  L  +   P  L  +L  +++     A+  G+T
Sbjct: 48  VLLPRKGTLNNIMYSKGKLWTVDTMYYALVNEKADPYYLYAYLSQLNL----SALDSGST 103

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
           +         +IP+ +P    Q  I + +      +D  I    +    L++  + L  Y
Sbjct: 104 LPSMTSTAYYSIPVKLPNKKNQQKIAQVL----SSLDRKIALNQQINAELEKMAKTLYDY 159

Query: 206 IVTKGLNPD---VKMKDSGIEWVG------LVPDHWEVKPFFALVTELNRKN------TK 250
              +   PD      K SG E V        VP  WEVK    +    +           
Sbjct: 160 WFVQFDFPDENGNPYKSSGGEMVYHPELKREVPKGWEVKQIKDIAKTGSGGTPKSTIAEY 219

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPE---SYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
               +I  ++ G +             +      + ++     I+         K SL S
Sbjct: 220 YENGDIPWINSGELNNPFIIATENYISQLGLENSSAKLFPADSILMAMYGATAGKTSLIS 279

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
            +         A  A+ P+     +   +  S     +        R +L  + +K L V
Sbjct: 280 FE----ATTNQAICAIMPNDKQLNFYLKIALSDLYQYLVNLSSGSARDNLSQDKIKDLYV 335

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           +VP  +            T +    ++   +      + R   +   + GQ+++
Sbjct: 336 VVPSEEMIEKYAQY----TTKFYNKIKINLKETQKFTQLRDFLLPMLMNGQVEV 385



 Score = 78.7 bits (192), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 37/211 (17%), Positives = 70/211 (33%), Gaps = 14/211 (6%)

Query: 10  YKDSGVQWI------GAIPKHWKVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDV 56
           YK SG + +        +PK W+V  IK   K  +G T +S         DI +I   ++
Sbjct: 174 YKSSGGEMVYHPELKREVPKGWEVKQIKDIAKTGSGGTPKSTIAEYYENGDIPWINSGEL 233

Query: 57  ESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP 116
            +          +    + S+  +F    IL    G    K  +  F+   +     + P
Sbjct: 234 NNPFIIATENYISQLGLENSSAKLFPADSILMAMYGATAGKTSLISFEATTNQAICAIMP 293

Query: 117 KDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIA 176
            D          LS      +  +  G+   +     I ++ + +P         +    
Sbjct: 294 NDKQLNFYLKIALSDLYQYLV-NLSSGSARDNLSQDKIKDLYVVVPSEEMIEKYAQYTTK 352

Query: 177 ETVRIDTLITERIRFIELLKEKKQALVSYIV 207
              +I   + E  +F +L       L++  V
Sbjct: 353 FYNKIKINLKETQKFTQLRDFLLPMLMNGQV 383


>gi|283796924|ref|ZP_06346077.1| type I restriction-modification system, S subunit, EcoA family
           [Clostridium sp. M62/1]
 gi|291075334|gb|EFE12698.1| type I restriction-modification system, S subunit, EcoA family
           [Clostridium sp. M62/1]
          Length = 411

 Score = 89.1 bits (219), Expect = 1e-15,   Method: Composition-based stats.
 Identities = 72/406 (17%), Positives = 147/406 (36%), Gaps = 35/406 (8%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIY-IGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           W+   +  F +  T + S +  D+   I  +D       Y  K       D S   +   
Sbjct: 25  WRAEKLSDFAERITRKNSNNETDLPLTISSKDGLVDQISYFNK--TVASKDMSGYYLLRN 82

Query: 84  GQILYGKLGPYLRKAIIAD-----FDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           G+  Y K                   G  ST ++    K    + ++ +  S+   + I 
Sbjct: 83  GEYAYNKSYSVGYDFGSIKRLDRYPMGALSTLYICFALKKHNTDFIKVYFDSLKWYKEIY 142

Query: 139 AIC-EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
            I  EGA                   L E    + KI    + ++  I  +   ++ LK+
Sbjct: 143 MISAEGARNHGLLNVPTDEFFATEHYLPENTAEQRKIADFLIALERRIDAQQSLVDNLKK 202

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
            K+ ++ +I  +          +G EW               +  +++R+NT  +  N++
Sbjct: 203 YKRGVMQHIFRQ------LPSRNGAEW--------TCVRLGDIFKKVSRRNTDGVIKNVI 248

Query: 258 SLS--YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS-LRSAQVMERG 314
           + S  YG I Q+     +     +   Y +++ G+ V+      +          + E+G
Sbjct: 249 TNSAEYGLIPQRDFFDKVIAVDGNTANYYVIENGDFVYNPRKSNSAPYGPFNRYTLSEQG 308

Query: 315 IITSAY-MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS--LKFED--VKRLPVLV 369
           II+  Y   V    I  +YLAW  +S    +  Y  GS   +   +   D  +  +PV+ 
Sbjct: 309 IISPLYTCLVLQADISPSYLAWYFKSDAWYRYIYDNGSQGVRHDRVSMTDDLLMGIPVMY 368

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           P   +Q    +++++  AR+    +  ++++  L + R  ++    
Sbjct: 369 PSHVKQLLYADILDMVEARL----QATQKTLDFLNKMRDGYMRQLF 410


>gi|270293233|ref|ZP_06199444.1| type Ic restriction-modification system, HsdS subunit
           [Streptococcus sp. M143]
 gi|270279212|gb|EFA25058.1| type Ic restriction-modification system, HsdS subunit
           [Streptococcus sp. M143]
          Length = 383

 Score = 89.1 bits (219), Expect = 1e-15,   Method: Composition-based stats.
 Identities = 47/392 (11%), Positives = 114/392 (29%), Gaps = 32/392 (8%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W    I    K++ G   +  +         + +       K       D          
Sbjct: 18  WVEKKIADIVKISAGGDVDKERLKQSGKYPVIANA---LTNKGIVGFYDD----YKVKAP 70

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            +     G         +          V         +   +L +   + +I     G 
Sbjct: 71  AVTVTGRGDVGYAVARHENFTPV-----VRLLTLQSDSIDMDYLENQINSMKILNESTGV 125

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
                    +GN  +  P + EQ  I          + +        +   +  K  ++S
Sbjct: 126 PQ--LTAPQLGNYKVYRPEIDEQSAIGSLFRTLDDLLASY----KDNLTNYQSLKATMLS 179

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
            +  K      +++  G E        WE K    LV+ ++RK  K  +         + 
Sbjct: 180 KMFPKAGQTIPEIRLDGFE------RKWEKKKLIDLVSPVSRKVKKPSDPYYRLSIRSHA 233

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
               +      K  + +    V   ++V           ++ S +  +  +++  +    
Sbjct: 234 KGTFKQFVDDPKKIAMDNLFEVKENDLVVNITFAWEHAIAVASKE-DDGLLVSHRFPTFV 292

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS---LKFEDVKRLPVLVPPIKEQFDITNV 381
               D  ++   ++  +  +    +  G       L  +D  ++ ++VP ++EQ  I + 
Sbjct: 293 IDKSDKNFINIYIKREEFRQKLDLLSPGGAGRNRVLNVKDFIKIQMIVPELEEQQAIGSY 352

Query: 382 INVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
                + +D L+   ++ I  L+  +   +  
Sbjct: 353 ----FSNLDNLINSCQEKITQLETLKKKLLQD 380


>gi|227892722|ref|ZP_04010527.1| restriction modification system DNA specificity subunit
           [Lactobacillus ultunensis DSM 16047]
 gi|227865499|gb|EEJ72920.1| restriction modification system DNA specificity subunit
           [Lactobacillus ultunensis DSM 16047]
          Length = 383

 Score = 89.1 bits (219), Expect = 1e-15,   Method: Composition-based stats.
 Identities = 52/365 (14%), Positives = 110/365 (30%), Gaps = 37/365 (10%)

Query: 29  PIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
            +     +  G   +S K     I  I + +V+ G  +        ++ +  +       
Sbjct: 5   TLDTVCDVLNGYAFKSKKYVSTGIRIIRINNVQDGYIEDKTPVFYPKEDEHVSKYRLLAD 64

Query: 85  QILYGKLGPYLRKAIIADFD--GICST--QFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
            +L    G   R AII D       +     L ++   VL + L  +L S        + 
Sbjct: 65  DVLVSLTGNVGRVAIINDEYLPAALNQRVACLRVKNSKVLKKYLFYFLNSKKFRSDCISS 124

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
             G    +   K +    + IP + EQ      +      I     +  +   L      
Sbjct: 125 ANGIAQKNISTKWLKKYKISIPSIEEQRKKVAILSKLESAIKKKNEQINKINLLA----- 179

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
                            K   +E         ++     ++T+   ++ + +   I  + 
Sbjct: 180 -----------------KARFVEMFAQEQHVSKMSQACFIITDGTHQSPEFVTKGIPFVF 222

Query: 261 YGNIIQKLETRNMGL-----KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
             N+I      +                  ++ G+++   +        ++S +      
Sbjct: 223 VSNLINNQLIYDTQKFIDENTYNKLIKRTPIEKGDLLLSIVGSYGHVAVVKSNKKFLFQR 282

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKE 374
              AY+ V P+ +DS YL   +    +         G  +++L    VK L + +PP+  
Sbjct: 283 H-IAYIKVNPNLVDSEYLQSELLDSYVQNQIRMEVHGVAQKTLNLSAVKNLTIKLPPLAS 341

Query: 375 QFDIT 379
           Q    
Sbjct: 342 QKKFA 346



 Score = 75.6 bits (184), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 19/184 (10%), Positives = 65/184 (35%), Gaps = 8/184 (4%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL---KPESYETYQIV 286
            +  +     ++     K+ K + + I  +   N+          +   K + + +   +
Sbjct: 2   QYLTLDTVCDVLNGYAFKSKKYVSTGIRIIRINNVQDGYIEDKTPVFYPKEDEHVSKYRL 61

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF 346
              +++            +    +        A + VK   +   YL + + S       
Sbjct: 62  LADDVLVSLTGNVGRVAIINDEYLPAALNQRVACLRVKNSKVLKKYLFYFLNSKKFRSDC 121

Query: 347 YAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
            +  +G  ++++  + +K+  + +P I+EQ     ++    ++++  ++K  + I  +  
Sbjct: 122 ISSANGIAQKNISTKWLKKYKISIPSIEEQRKKVAIL----SKLESAIKKKNEQINKINL 177

Query: 406 RRSS 409
              +
Sbjct: 178 LAKA 181


>gi|63146884|emb|CAI79467.1| HsdS-type I specificity subunit [Lactobacillus delbrueckii subsp.
           lactis]
          Length = 401

 Score = 89.1 bits (219), Expect = 1e-15,   Method: Composition-based stats.
 Identities = 68/387 (17%), Positives = 116/387 (29%), Gaps = 27/387 (6%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI-FA 82
            W+ V      +    +   S   +  +  +D+  G G     +   +   TS   I F 
Sbjct: 18  DWEQVKYGEIFQ-RRSKMGVSTPALPSVEYDDINPGMGTL---NKEPKSKGTSKRGIHFN 73

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
            G +L+GKL PYL+  + A F+G+    F VL    +        + + +          
Sbjct: 74  PGDVLFGKLRPYLKNWLFACFEGVAVGDFWVLTSSKIDHGFTYSLIQAPEFQYIANLSSG 133

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
                                L+EQ  I   +      I     ++ +   L     Q +
Sbjct: 134 SKMPRSDWGLVSNARTFIPTNLSEQKSISSVLFGLDTAITLHEEKKRQLERLKSALLQKM 193

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
            +    K   P V+ K     W         +     L   L      + +S I  L   
Sbjct: 194 FAD---KSGYPAVRFKGFDDIWDQEK-----LNSLVRLHRGLTYSPNNVQDSGIRILRSS 245

Query: 263 NIIQKLETRNMGLKPESYETYQI--VDPGEIVFRFIDLQNDKRS--LRSAQVMERGIITS 318
           NI+                   I  V  G+I+    +            + + E   ++ 
Sbjct: 246 NILDGQFVMTDDDIFVKSSVVNIPTVKDGDILITAANGSIKLVGKHAIISGISENTAVSG 305

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM---GSGLRQSLKFEDVKRLPVLVPPIKEQ 375
            +M V    I   ++  L  +    +        G+G   +LK  D+ +  V VP   EQ
Sbjct: 306 GFMLVGSSRI-PDFVNSLFDTSWYQRFIRKYVTGGNGSIGNLKKNDLDKQYVKVPTTSEQ 364

Query: 376 FDITNVINVETARIDVLVEKIEQSIVL 402
             I          ID L+  I   I  
Sbjct: 365 ERIGEF----FREIDQLI--INNQIKH 385



 Score = 58.3 bits (139), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 25/182 (13%), Positives = 60/182 (32%), Gaps = 10/182 (5%)

Query: 234 VKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI-VDPGEIV 292
            +          R    +    + S+ Y +I   + T N   K +      I  +PG+++
Sbjct: 19  WEQVKYGEIFQRRSKMGVSTPALPSVEYDDINPGMGTLNKEPKSKGTSKRGIHFNPGDVL 78

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
           F  +            +    G+    +  +    ID  +   L+++ +   +       
Sbjct: 79  FGKLRPYLKNWLFACFE----GVAVGDFWVLTSSKIDHGFTYSLIQAPEFQYIANLSSGS 134

Query: 353 LRQSLKFEDVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
                 +  V      +P  + EQ  I++V+      +D  +   E+    L+  +S+ +
Sbjct: 135 KMPRSDWGLVSNARTFIPTNLSEQKSISSVLFG----LDTAITLHEEKKRQLERLKSALL 190

Query: 412 AA 413
             
Sbjct: 191 QK 192


>gi|53805024|ref|YP_113333.1| type I restriction-modification system S subunit [Methylococcus
           capsulatus str. Bath]
 gi|53758785|gb|AAU93076.1| type I restriction-modification system, S subunit, EcoA family
           [Methylococcus capsulatus str. Bath]
          Length = 416

 Score = 89.1 bits (219), Expect = 1e-15,   Method: Composition-based stats.
 Identities = 51/426 (11%), Positives = 125/426 (29%), Gaps = 45/426 (10%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            WK   +    +L  G        +      DV        P   +S  +DT   ++   
Sbjct: 4   EWKECSLGDVIELKRGYDLPQKDRLP----GDV--------PLVSSSGVTDTHAKAMVKG 51

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI-CE 142
             ++ G+ G   +   +       +T   V   K   P  +  +L  +D     +     
Sbjct: 52  PGVVTGRYGTLGQVFYVEQDFWPLNTTLYVRDFKGNDPRFISYFLRDVDFHAYSDKAAVP 111

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           G   +H     +           EQ  I   +     +I+    +      + +   +A 
Sbjct: 112 GLNRNHLHQAKVRIP----SDPNEQRAIAHILGTLDDKIELNRRQNETLEAMARALFKAW 167

Query: 203 VSYI--VTKGLNPDVKMKDSGIEW----------------VGLVPDHWEVKPFFALVTEL 244
                 V      D  +  +G +W                +G +P+ W V  F  +  + 
Sbjct: 168 FVDFEPVRAKCRGDRPVAPTGWQWPQHILDLFPDRLVESELGEIPEGWRVFSFGDVAEQG 227

Query: 245 NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYE-TYQIVDPGEIVFRFIDLQNDKR 303
                   E       Y           +    ES +     V  G ++   ++    + 
Sbjct: 228 KGFVNPSREPGERFTHYSLPAFDAGKMPVIEPGESIKSNKTPVPDGAVLVSKLNPHIPRI 287

Query: 304 SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM-RSYDLCKVFYAMGSGL---RQSLKF 359
            L   +   R + ++ ++   P     +   + +  S +       + +G     Q +K 
Sbjct: 288 WLV-GEAGNRAVCSTEFIVWTPKSPAQSAFVYCLASSPEFVGAMCQLVTGTSNSHQRVKP 346

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
           + ++ + V         ++    +     +     +  +   +L + R + +   ++G++
Sbjct: 347 DQLREIRVF----AGNENVVETFSKTAEPLMDQFLQNTRQSRILAQLRDTLLPKLISGEL 402

Query: 420 DLRGES 425
            ++   
Sbjct: 403 RVKDAE 408



 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 28/138 (20%), Positives = 54/138 (39%), Gaps = 11/138 (7%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSES---GKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           +G IP+ W+V       +   G  + S   G+   +  L   ++G    +    + +   
Sbjct: 208 LGEIPEGWRVFSFGDVAEQGKGFVNPSREPGERFTHYSLPAFDAGKMPVIEPGESIK--- 264

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDG---ICSTQFLVLQPKDV-LPELLQGWLLS 130
            S  +    G +L  KL P++ +  +    G   +CST+F+V  PK       +     S
Sbjct: 265 -SNKTPVPDGAVLVSKLNPHIPRIWLVGEAGNRAVCSTEFIVWTPKSPAQSAFVYCLASS 323

Query: 131 IDVTQRIEAICEGATMSH 148
            +    +  +  G + SH
Sbjct: 324 PEFVGAMCQLVTGTSNSH 341


>gi|229148006|ref|ZP_04276345.1| N-6 DNA methylase [Bacillus cereus BDRD-ST24]
 gi|228635431|gb|EEK91922.1| N-6 DNA methylase [Bacillus cereus BDRD-ST24]
          Length = 1009

 Score = 89.1 bits (219), Expect = 1e-15,   Method: Composition-based stats.
 Identities = 64/398 (16%), Positives = 126/398 (31%), Gaps = 45/398 (11%)

Query: 27   VVPI-KRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
            +V + K   +          K+  ++ L  V +  G  + +D    Q+      +  K  
Sbjct: 636  IVRLGKYIIENTKKVKPADDKERKWVTLG-VSNKDGIVINEDLKPEQTKQ-KYFLVNKND 693

Query: 86   ILYGKLGPYLRKAIIADFDG---ICSTQFLVLQPKDV--LPELLQGWLLSIDVTQRIEAI 140
              Y      +    +  FD    I S  ++V + K+    PE L+  L        + +I
Sbjct: 694  FCYNPYRINVGSIGLNKFDYENQIISGAYVVFRTKEDELNPEYLEKLLKHDSFRAYVNSI 753

Query: 141  CE--GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
                     +  +  IGN  +P+PP+  Q                 I    + I  +   
Sbjct: 754  ANIGKGVRMNLTFDEIGNFELPLPPMEIQ---------------EEIVREYKKISEVLYG 798

Query: 199  KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN--I 256
             +A++               DS +   G  P H         +   + K+   I+    I
Sbjct: 799  SKAILDNWDV----------DSTLFTEGNFPLHNIGDLTINSLYGSSEKSDYEIDGYDII 848

Query: 257  LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME--RG 314
               + G    KL        P        +  G+++    +         +    E    
Sbjct: 849  RIGNIGYCSFKLNDLKRVPLPLKKFKNYELKKGDLLIVRSNGNPKLVGKCAIWQDEIPNA 908

Query: 315  IITSAYMAVKPHGI--DSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI 372
            +  S  +  + +       Y+ + + S            G   +   E +K +P+ +P  
Sbjct: 909  VYASYLVRFRFNEEAVVPEYIMYYLMSSVGKSYIKPKAGGGTYNFNAERIKEIPIPLPDK 968

Query: 373  KEQFDITNVINVE---TARIDVLVEKIEQSIV-LLKER 406
            + Q  I   +  E    +R++ L+ K E+ I  LLK+ 
Sbjct: 969  QTQLSIIERVKSEQETVSRVEKLMIKSEERIKSLLKKY 1006


>gi|315187183|gb|EFU20940.1| restriction modification system DNA specificity domain [Spirochaeta
           thermophila DSM 6578]
          Length = 554

 Score = 89.1 bits (219), Expect = 1e-15,   Method: Composition-based stats.
 Identities = 64/425 (15%), Positives = 127/425 (29%), Gaps = 49/425 (11%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKR--FTKLNTGRTSESGKDIIYIGLEDVES 58
           M   + Y             +PK W+   +       +  G++                 
Sbjct: 1   MNKQQNY-------------LPKGWQWAKLGDGQIATVVMGQSPPGTTYNEQGQGLPFYQ 47

Query: 59  GTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKD 118
           G   +       R   ++       G IL     P     + +    I      +   ++
Sbjct: 48  GKADFGDVSPTPRVWCSAPKKTAEPGDILLSVRAPVGPTNLASHRCCIGRGLAAIRGERN 107

Query: 119 VLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
            L   L  +     +   +    +G+T        + NI +P+PPL  Q  I E +    
Sbjct: 108 AL--TLYLYFWFKHIEPWLSEQGQGSTFKAIGKDILENIIVPLPPLPVQERIVEILQKAD 165

Query: 179 VRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFF 238
                +  +R   +EL ++   AL   +     +P    K    E +G +          
Sbjct: 166 ----EIRRKRKEALELAEKILPALFLEMFG---DPATNPKGWETEPIGSLVHFDTALIKP 218

Query: 239 ALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDL 298
                      + IESN  + +  +     E  +      S           +++  +  
Sbjct: 219 EPGKTYLYLAPEHIESNTGNYTGPHPTDGREIGSAKYSFTS---------DHVLYCKLRP 269

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHGI-DSTYLAWLMRSYDLCKVFYAMGSGL-RQS 356
             +K  L        GI ++  + ++P       +LA  +R             G     
Sbjct: 270 YLNKVVLPHTS----GICSTELVPLRPGPKLLREFLAIYLRLPFFVATAVQKSQGTKMPR 325

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE---KIEQSIVLLKERRSSFIAA 413
              E +K+  ++VPPI  Q            +   L+E   K+++ + L        ++ 
Sbjct: 326 FGPELMKQERIIVPPIPLQR-------SFCLQASQLMEASRKLKEGLSLSSSCFDGLLSR 378

Query: 414 AVTGQ 418
           A TG+
Sbjct: 379 AFTGE 383



 Score = 60.2 bits (144), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 45/196 (22%), Positives = 71/196 (36%), Gaps = 6/196 (3%)

Query: 22  PKHWKVVPIKRFTKLNTG-RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           PK W+  PI      +T     E GK  +Y+  E +ES TG Y        +   S    
Sbjct: 197 PKGWETEPIGSLVHFDTALIKPEPGKTYLYLAPEHIESNTGNYTGPHPTDGREIGSAKYS 256

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ-GWLLSIDVTQRIEA 139
           F    +LY KL PYL K ++    GICST+ + L+P   L       +L           
Sbjct: 257 FTSDHVLYCKLRPYLNKVVLPHTSGICSTELVPLRPGPKLLREFLAIYLRLPFFVATAVQ 316

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
             +G  M     + +    + +PP+  Q         +  ++     +    + L     
Sbjct: 317 KSQGTKMPRFGPELMKQERIIVPPIPLQRSFC----LQASQLMEASRKLKEGLSLSSSCF 372

Query: 200 QALVSYIVTKGLNPDV 215
             L+S   T  L  + 
Sbjct: 373 DGLLSRAFTGELTAEW 388


>gi|212691981|ref|ZP_03300109.1| hypothetical protein BACDOR_01476 [Bacteroides dorei DSM 17855]
 gi|212665373|gb|EEB25945.1| hypothetical protein BACDOR_01476 [Bacteroides dorei DSM 17855]
          Length = 391

 Score = 89.1 bits (219), Expect = 1e-15,   Method: Composition-based stats.
 Identities = 56/404 (13%), Positives = 128/404 (31%), Gaps = 54/404 (13%)

Query: 24  HWKVVPIKRF-TKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            W+   I     K+ +G T   G+         ++  ++V  G G+ L  D      DT 
Sbjct: 25  EWEKCTIGELTIKVGSGVTPRGGEAVYKTEGHPFVRSQNV--GLGQLLLDDIAYIDEDTH 82

Query: 77  TVSI---FAKGQILYGKLGPYLRKAIIADFD---GICSTQ-FLVLQPKDVLPELLQGWLL 129
                       +L    G  + ++ IA  +   G  +    ++    +++   L  +LL
Sbjct: 83  QRQKNTELQLDDVLLNITGASIGRSAIATKEIAGGNVNQHVCIIRTQDNLISSFLCNFLL 142

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
           S    ++I++   G      +++ I +I + IP + EQ  I + +     RI T      
Sbjct: 143 SSYGQKQIDSFQAGGNRQGLNFEQIKSIKIAIPTVNEQYKIAQLLQLVEGRIATQNKIIE 202

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNT 249
              +L     +++++ ++   +     ++   I                  V ++   N 
Sbjct: 203 DLKKL-----KSVITDLLFNSIIDAHTIRLGNI------------AHITNGVGDVQDANI 245

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
           + IE+          ++   T +   +   Y                     +       
Sbjct: 246 EHIENWYPFFDRSEELKWFPTYSFDKEAVIY-----------------AGEGQSFYPRYY 288

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
             +  +    Y              +   S                SL+ +  ++  + +
Sbjct: 289 KGKFALHQRCYAITDFASCILPKYCYYFMSTLNSYFVRNSVGSTVSSLRMDIFQKAEIKL 348

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           PPI +Q  I  +I+    ++    E  +  I  L+E +   ++ 
Sbjct: 349 PPIPKQQHICKIIDAFCTKL----EVEQSIISTLQELKQFLLSQ 388



 Score = 72.5 bits (176), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 30/207 (14%), Positives = 73/207 (35%), Gaps = 10/207 (4%)

Query: 213 PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
           P+++  +   EW              + VT    +     E +    S    + +L   +
Sbjct: 15  PNLRFPEFSGEW-EKCTIGELTIKVGSGVTPRGGEAVYKTEGHPFVRSQNVGLGQLLLDD 73

Query: 273 MGLKPESYETYQI---VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID 329
           +    E     Q    +   +++         + ++ + ++    +     +      + 
Sbjct: 74  IAYIDEDTHQRQKNTELQLDDVLLNITGASIGRSAIATKEIAGGNVNQHVCIIRTQDNLI 133

Query: 330 STYLAWLMRSYDLCKVFYAM-GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
           S++L   + S    K   +    G RQ L FE +K + + +P + EQ+ I  ++      
Sbjct: 134 SSFLCNFLLSSYGQKQIDSFQAGGNRQGLNFEQIKSIKIAIPTVNEQYKIAQLL----QL 189

Query: 389 IDVLVEKIEQSIVLLKERRSSFIAAAV 415
           ++  +    + I  LK+ + S I   +
Sbjct: 190 VEGRIATQNKIIEDLKKLK-SVITDLL 215


>gi|18765813|gb|AAL78769.1|AF326619_1 HP848-like protein [Helicobacter pylori]
          Length = 413

 Score = 89.1 bits (219), Expect = 1e-15,   Method: Composition-based stats.
 Identities = 57/405 (14%), Positives = 122/405 (30%), Gaps = 31/405 (7%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSE--SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           PK  +   +    ++   R       K    I      +G   Y+               
Sbjct: 13  PKGVEFRKLGEMCEILDNRRIPIAKNKRNPGIYPYYGANGIQDYIDSYIFDGDFV----- 67

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           +  +   +  K          A      +    VLQ K+ L      +     +     +
Sbjct: 68  LVGEDGSVINKDNT--PVVNWASGKIWVNNHAHVLQTKNELKLKFLYF----YLQTIDVS 121

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
            C   T    + + +  I +PIPPL  Q  I + + A T     L TE     +  +  +
Sbjct: 122 YCVAGTPPKINQENLKKITIPIPPLEIQQEIVKILDAFTELNTELNTELKARKKQYQYYQ 181

Query: 200 QALVS--------YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
             L+             + L      K        L P     +    +    N+K  K+
Sbjct: 182 NMLLDFNDINQSHKDAKERLAQKPYPKRLKTLLQTLAPKGVGFRKLGEVCESTNKKTLKI 241

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
            E + +       +        G   +        + GE +      +         +  
Sbjct: 242 SEVSEVKNKGMYPVINSGRDLYGYYHDFN------NDGENITIASRGEYAGFINYFNEKF 295

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
             G +   Y     + + + +L + +++ ++  +   +  G   +L   D++ L + +PP
Sbjct: 296 FAGGLCYPYKVKDTNELLTKFLYFYLKTNEIQIMENLVFRGSIPALNKADIETLTIPIPP 355

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           ++ Q +I  +++  +     L+  I   I   K+     R   + 
Sbjct: 356 LEIQQEIVTILDQFSLLTTDLLAGIPAEIKARKKQYEYYREKLLT 400


>gi|294782549|ref|ZP_06747875.1| type I restriction-modification enzyme S subunit [Fusobacterium sp.
           1_1_41FAA]
 gi|294481190|gb|EFG28965.1| type I restriction-modification enzyme S subunit [Fusobacterium sp.
           1_1_41FAA]
          Length = 371

 Score = 88.7 bits (218), Expect = 1e-15,   Method: Composition-based stats.
 Identities = 62/372 (16%), Positives = 120/372 (32%), Gaps = 37/372 (9%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESG-------KDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
             WK V +    ++ TG T            ++ +I   +++     Y+  +    +   
Sbjct: 7   NEWKKVKLGDVCEVITGNTPLKKIKEYWDKDEVPFITPPELKYEGINYITPNIYVSKIGA 66

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
               I  K  I    +G  L K  I   D I + Q   L  KD   +LL  +     +  
Sbjct: 67  KQGRIIPKNSICVCCIGS-LGKLGILKEDAITNQQINSLILKDKNVDLLYLYFYLKTIKN 125

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            +E+I    T+   +      I + +P L  Q  I +K+      ++  I  R   +  L
Sbjct: 126 NLESIASSTTVKIINKSSFEKIDINLPSLEIQKKISKKL----ELLENNINFRKSQLNSL 181

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
            E  ++L +     G+     + D     +G  P           +     K        
Sbjct: 182 NELSKSLFTKFNKNGVEKQ--LNDVADIIMGQSPLSQSYNKDKKGLPFYQGKTEFSDIYI 239

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
             +  Y N   K                 +V+  +I+        D          ++  
Sbjct: 240 KEATVYCNSPIK-----------------VVEENDILMSVRAPVGDV-----NIATQKSC 277

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
           I     ++KP  ID  YL +L++          +GS   +++   ++  L + +    +Q
Sbjct: 278 IGRGLASIKPKKIDYLYLFYLLKEQKSKIEKIGVGS-TFKAINKNNISTLKISIVEKDKQ 336

Query: 376 FDITNVINVETA 387
             I N ++    
Sbjct: 337 NKIRNYLSSIEK 348



 Score = 59.8 bits (143), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 18/147 (12%), Positives = 51/147 (34%), Gaps = 8/147 (5%)

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
              T N+ +     +  +I+    I    I        L+   +  + I +   + +K  
Sbjct: 53  NYITPNIYVSKIGAKQGRIIPKNSICVCCIGSLGKLGILKEDAITNQQINS---LILKDK 109

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
            +D  YL + +++     +     S   + +     +++ + +P ++ Q  I+  +    
Sbjct: 110 NVDLLYLYFYLKTIK-NNLESIASSTTVKIINKSSFEKIDINLPSLEIQKKISKKLE--- 165

Query: 387 ARIDVLVEKIEQSIVLLKERRSSFIAA 413
             ++  +   +  +  L E   S    
Sbjct: 166 -LLENNINFRKSQLNSLNELSKSLFTK 191


>gi|167837439|ref|ZP_02464322.1| Restriction endonuclease S subunits [Burkholderia thailandensis
           MSMB43]
          Length = 462

 Score = 88.7 bits (218), Expect = 1e-15,   Method: Composition-based stats.
 Identities = 58/454 (12%), Positives = 130/454 (28%), Gaps = 76/454 (16%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W + P+ +   +  G+              ++  G+G       N      S       G
Sbjct: 10  WPIKPLGKTLPIEYGKALP----------ANLRDGSGIVPVYGSNGIAGRHSRA--LTSG 57

Query: 85  -QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
             +L G+ G      +  +   +  T +  +             L  + +    +A+ + 
Sbjct: 58  QTLLIGRKGGAGIAHLSREACWVIDTAYYTVDDSVYDLSFACYLLQFLRL----DALDKS 113

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
            T+             P+P   EQ +I EK+      +DT +    R    L+  + +++
Sbjct: 114 TTIPSLSRDDYNATLAPVPTKDEQRIIVEKLDELFSDVDTGVASLSRAYGNLRRYRASVL 173

Query: 204 SYIVTKGL-------------------------------------------------NPD 214
              +   L                                                 +  
Sbjct: 174 KMALEGRLTVDWRSNNPSTSTGEQLLSRILTARRDEWEREQSERFSAQGKRPPKNWRDKY 233

Query: 215 VKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMG 274
            +     ++ +  +P  W       L   +   +    +            Q + T  + 
Sbjct: 234 AEPAGPDVKNLPELPAGWCWATLQQLTGTITSGSRGWAKYYSNDGPIFIRSQDINTDLLN 293

Query: 275 LKP--------ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
           +          +S     +V  G+++         K +  +  + E  +     +A    
Sbjct: 294 IDSVAHVNPPKDSEGGRTLVRLGDLLITITGANVAKCAEVTCHIDEAYVSQHVALARPVL 353

Query: 327 GIDSTYLAWLM--RSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
              S YL   +   S    ++        +  L  + V  + V +P   EQ  I  +I+ 
Sbjct: 354 PEISRYLHACLTCESQGRRQLLKFAYGAGKPGLNLQQVASVVVPLPTFSEQSQIVQLIDE 413

Query: 385 ETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           + A    +  ++E  +V  ++ R S + AA  G+
Sbjct: 414 QLAAHTRIEGQLEHDVVRARQLRQSILKAAFEGK 447



 Score = 65.6 bits (158), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 25/215 (11%), Positives = 69/215 (32%), Gaps = 11/215 (5%)

Query: 14  GVQWIGAIPKHWKVVPIKRF-TKLNTGRT----SESGKDIIYIGLEDVESGTGKYLPKDG 68
            V+ +  +P  W    +++    + +G        S    I+I  +D+ +          
Sbjct: 240 DVKNLPELPAGWCWATLQQLTGTITSGSRGWAKYYSNDGPIFIRSQDINTDLLNIDSVAH 299

Query: 69  NSRQSDTS-TVSIFAKGQILYGKLGPYLRKAI---IADFDGICSTQFLVLQPKDVLPELL 124
            +   D+    ++   G +L    G  + K         +   S    + +P        
Sbjct: 300 VNPPKDSEGGRTLVRLGDLLITITGANVAKCAEVTCHIDEAYVSQHVALARPVLPEISRY 359

Query: 125 QGWL--LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
                       +++     GA     + + + ++ +P+P  +EQ  I + I  +     
Sbjct: 360 LHACLTCESQGRRQLLKFAYGAGKPGLNLQQVASVVVPLPTFSEQSQIVQLIDEQLAAHT 419

Query: 183 TLITERIRFIELLKEKKQALVSYIVTKGLNPDVKM 217
            +  +    +   ++ +Q+++       L     +
Sbjct: 420 RIEGQLEHDVVRARQLRQSILKAAFEGKLTSAEHL 454



 Score = 63.7 bits (153), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 22/123 (17%), Positives = 47/123 (38%), Gaps = 4/123 (3%)

Query: 302 KRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFED 361
              +         +I +AY  V     D ++  +L++     ++     S    SL  +D
Sbjct: 67  GAGIAHLSREACWVIDTAYYTVDDSVYDLSFACYLLQ---FLRLDALDKSTTIPSLSRDD 123

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
                  VP   EQ  I   ++   + +D  V  + ++   L+  R+S +  A+ G++ +
Sbjct: 124 YNATLAPVPTKDEQRIIVEKLDELFSDVDTGVASLSRAYGNLRRYRASVLKMALEGRLTV 183

Query: 422 RGE 424
              
Sbjct: 184 -DW 185


>gi|227114145|ref|ZP_03827801.1| restriction modification system DNA specificity subunit
           [Pectobacterium carotovorum subsp. brasiliensis PBR1692]
          Length = 566

 Score = 88.7 bits (218), Expect = 2e-15,   Method: Composition-based stats.
 Identities = 66/481 (13%), Positives = 124/481 (25%), Gaps = 96/481 (19%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT 60
           +K  K  P+   S  +    +P+ W+   +          T     + + +  E+  S  
Sbjct: 83  IKKQKPQPEI--SEDEKPFELPEGWEFCRLGD-------ATINRDAERVPLSSEERSSRQ 133

Query: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGP-----YLRKAIIADFDGICSTQFLVLQ 115
           G+Y    G S   D     +F K  +L G+ G          A IAD     +    VL 
Sbjct: 134 GQY-DYYGASGIIDKIDDFLFDKPLLLIGEDGANLINRTTPIAFIADGRYWVNNHAHVL- 191

Query: 116 PKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKII 175
             D + E    ++     +  +E    G      +   +  I + + P  EQ  I  K+ 
Sbjct: 192 --DGVSEGFLKYVGLYINSINLEQYITGTAQPKMNQAKMNTILLGLAPEKEQQRILSKVD 249

Query: 176 AETVR-----------------------------------------IDTLITERIRFIEL 194
                                                         I             
Sbjct: 250 ILMSLCDQLAQQSLTSLEAHQQLVETLLATLIDSQNAEELAENWARISQHFDTLFTTEAS 309

Query: 195 LKEKKQALVSYIVTKGLNPDV-------------------------KMKDSGIEWVGLVP 229
           +   KQ ++   V   L P                             K   +E +G   
Sbjct: 310 IDALKQTILQLAVMGKLVPQDANDEPASELLKRIEQEKIQLVKEGKIKKHPPVEPLGEPT 369

Query: 230 DHWEVK-----------PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE 278
                               +      RK        + S    N +       +  +  
Sbjct: 370 SLPHSWLNIVVQDFADIRLGSTPDRSERKYWNGDVPWVSSGEVANEVILDTKEKITSEGF 429

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
              +  ++  G ++   I     +       +        A        ++  Y+    +
Sbjct: 430 KNSSTSMIPTGSLLMAIIGQGKTRGQTAVLGIDACTNQNVAAFVFNQALVEPEYVWIWAK 489

Query: 339 SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
           S  L       G G + +L  + V+     + PIKEQ  I + +       D L  +++ 
Sbjct: 490 SKYLSHRGDGHG-GAQPALNGKKVRSFIFPLAPIKEQQRIVSEVKRLNDICDALKSRLQS 548

Query: 399 S 399
           +
Sbjct: 549 A 549



 Score = 62.5 bits (150), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 31/219 (14%), Positives = 67/219 (30%), Gaps = 19/219 (8%)

Query: 1   MKHYKAYPQYKDSGVQWIGA---IPKHWKVVPIKRFTKLNTGRTSESGK------DIIYI 51
           +K +          V+ +G    +P  W  + ++ F  +  G T +  +      D+ ++
Sbjct: 356 IKKHPP--------VEPLGEPTSLPHSWLNIVVQDFADIRLGSTPDRSERKYWNGDVPWV 407

Query: 52  GLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGP--YLRKAIIADFDGICST 109
              +V +       +   S     S+ S+   G +L   +G      +  +   D   + 
Sbjct: 408 SSGEVANEVILDTKEKITSEGFKNSSTSMIPTGSLLMAIIGQGKTRGQTAVLGIDACTNQ 467

Query: 110 QFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVL 169
                     L E    W+ +            G      + K + +   P+ P+ EQ  
Sbjct: 468 NVAAFVFNQALVEPEYVWIWAKSKYLSHRGDGHGGAQPALNGKKVRSFIFPLAPIKEQQR 527

Query: 170 IREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVT 208
           I  ++       D L +      +       AL    + 
Sbjct: 528 IVSEVKRLNDICDALKSRLQSAQQTQLHLADALTDAALN 566



 Score = 59.4 bits (142), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 25/189 (13%), Positives = 58/189 (30%), Gaps = 10/189 (5%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
           S  E    +P+ WE           + +   L      S   G       +  +    + 
Sbjct: 93  SEDEKPFELPEGWEFCRLGDATINRDAERVPLSSEERSS-RQGQYDYYGASGIIDKIDDF 151

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
                ++  GE     I+       +         +   A++          Y+   + S
Sbjct: 152 LFDKPLLLIGEDGANLINRTTPIAFIA---DGRYWVNNHAHVLDGVSEGFLKYVGLYINS 208

Query: 340 YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
            +L +         +  +    +  + + + P KEQ  I + +++  +  D L    +QS
Sbjct: 209 INLEQYI---TGTAQPKMNQAKMNTILLGLAPEKEQQRILSKVDILMSLCDQL---AQQS 262

Query: 400 IVLLKERRS 408
           +  L+  + 
Sbjct: 263 LTSLEAHQQ 271


>gi|190150795|ref|YP_001969320.1| restriction-modification enzyme [Actinobacillus pleuropneumoniae
           serovar 7 str. AP76]
 gi|189915926|gb|ACE62178.1| Putative restriction-modification enzyme [Actinobacillus
           pleuropneumoniae serovar 7 str. AP76]
          Length = 416

 Score = 88.7 bits (218), Expect = 2e-15,   Method: Composition-based stats.
 Identities = 52/425 (12%), Positives = 111/425 (26%), Gaps = 72/425 (16%)

Query: 27  VVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQI 86
            V ++    L  GR         +I   ++     + L              +   +G+ 
Sbjct: 2   WVRLEDIFHLQAGR---------FISASEIYGEYKESLYPCYGGNGLRGFVKTYNREGKF 52

Query: 87  -LYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
            + G+ G        A+     +   +V++       L   +     +   +        
Sbjct: 53  PIIGRQGALCGNINFAEGKFYSTEHAVVVETFSNTDTLWANYF---LIQLNLNQYATATA 109

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK----QA 201
                   I ++ +P+PPL EQ  I  KI      I+    +  +   L ++      ++
Sbjct: 110 QPGLAVNKINDVLIPLPPLNEQKRIVAKIEELLPYIEQYAEKEEKLTALHQQFPEQLKKS 169

Query: 202 LVSYIVTKGLNPDVKM-------------------------------------------- 217
           ++   +   L                                                  
Sbjct: 170 ILQAAIQGKLTEQNPNDEPASALIERIKAEKLRLIAEKKLKKPKVISEIIMRDNLPYEII 229

Query: 218 ----KDSGIEWVGLVPDHWEVKPFFALVTE------LNRKNTKLIESNILSLSYGNIIQK 267
               +    E    +P++W       +            +        I  L  G++   
Sbjct: 230 NGEERCIADEVPFEIPENWCWVRLGEIGNWGAGATPNRHEPKYYENGTIPWLKTGDLNDG 289

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
           + T       E       V    +    I +            +E     +    +   G
Sbjct: 290 IITEIPEYITELAIEKTSVKLNPVGSVLIAMYGATIGKLGILNIEATTNQACCACIPYTG 349

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           I + YL + + S        + GSG + ++  E +      +PP+ EQ  I   I    +
Sbjct: 350 IYNKYLFYYLMSQKTELQKRSEGSG-QPNISKEKIVNYLFPLPPLNEQKCIVEKIETLFS 408

Query: 388 RIDVL 392
            +  L
Sbjct: 409 TLQNL 413



 Score = 88.3 bits (217), Expect = 2e-15,   Method: Composition-based stats.
 Identities = 33/171 (19%), Positives = 60/171 (35%), Gaps = 8/171 (4%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPKDGNSRQ 72
            IP++W  V +        G T    +        I ++   D+  G    +P+      
Sbjct: 243 EIPENWCWVRLGEIGNWGAGATPNRHEPKYYENGTIPWLKTGDLNDGIITEIPEYITELA 302

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
            + ++V +   G +L    G  + K  I + +   +       P   +      + L   
Sbjct: 303 IEKTSVKLNPVGSVLIAMYGATIGKLGILNIEATTNQACCACIPYTGIYNKYLFYYLMSQ 362

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
            T+  +   EG+   +   + I N   P+PPL EQ  I EKI      +  
Sbjct: 363 KTELQKRS-EGSGQPNISKEKIVNYLFPLPPLNEQKCIVEKIETLFSTLQN 412



 Score = 67.9 bits (164), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 20/131 (15%), Positives = 46/131 (35%), Gaps = 9/131 (6%)

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
           F  I  Q       +    +      A +       D+ +  + +   +L +      + 
Sbjct: 52  FPIIGRQGALCGNINFAEGKFYSTEHAVVVETFSNTDTLWANYFLIQLNLNQY---ATAT 108

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL-----KERR 407
            +  L    +  + + +PP+ EQ  I   I      I+    + E+ +  L     ++ +
Sbjct: 109 AQPGLAVNKINDVLIPLPPLNEQKRIVAKIEELLPYIEQY-AEKEEKLTALHQQFPEQLK 167

Query: 408 SSFIAAAVTGQ 418
            S + AA+ G+
Sbjct: 168 KSILQAAIQGK 178


>gi|322513994|ref|ZP_08067069.1| type I restriction/modification specificity protein [Actinobacillus
           ureae ATCC 25976]
 gi|322120220|gb|EFX92178.1| type I restriction/modification specificity protein [Actinobacillus
           ureae ATCC 25976]
          Length = 386

 Score = 88.7 bits (218), Expect = 2e-15,   Method: Composition-based stats.
 Identities = 53/388 (13%), Positives = 116/388 (29%), Gaps = 38/388 (9%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           +  P+     +              + +       G       N+ Q      +   +G+
Sbjct: 18  EWKPLDEVANIANNVRKPVKS---SLRIS------GNIPYYGANNIQDYVEGYT--HEGE 66

Query: 86  ILY----GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            +     G           A      +    V+  K+ L        L+        A  
Sbjct: 67  FVLIAEDGSASLENYSIQWAVGKFWANNHVHVVNGKEKLNNRFLYHYLTNMNFIPFLA-- 124

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            G  ++      +  IP+PIPPL+ Q  I + + A T     L +E I   +  +  ++ 
Sbjct: 125 -GKELAKLTKAKLQQIPIPIPPLSVQTEIVKILDALTALTSELTSELILRQKQYEYYREK 183

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
           L+S           ++   G EW  L     E+    +          +    NI  L  
Sbjct: 184 LLSE---------EELGKVGFEWRNLG----EICKKVSSGGTPLSTKDEYYNGNIPWLRT 230

Query: 262 GNIIQKLETRNMGLKPES---YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
             +             +      + + +    ++         + ++    +        
Sbjct: 231 QEVQFNEIWDTEVKITQDGLNNSSAKWIPENCVIVAISGATAGRSAINKIALT----TNQ 286

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
               ++     + Y           +   ++G G R  L    +K  P+ +PP+KEQ  I
Sbjct: 287 HCCNLQIAHEYANYRYVFHWVCKEYEKLKSLGQGARADLNSGIIKNYPIALPPLKEQHRI 346

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKER 406
            ++++      + + E +  +I   ++R
Sbjct: 347 VSILDKFETLTNSITEGLPLAIEQSQKR 374



 Score = 56.7 bits (135), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 13/129 (10%), Positives = 45/129 (34%), Gaps = 3/129 (2%)

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG 350
           ++       + +       V +       ++      +++ +L   + + +         
Sbjct: 68  VLIAEDGSASLENYSIQWAVGKFWANNHVHVVNGKEKLNNRFLYHYLTNMNFIPFLAGKE 127

Query: 351 SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
                 L    ++++P+ +PP+  Q +I  +++  TA    L  ++       +  R   
Sbjct: 128 ---LAKLTKAKLQQIPIPIPPLSVQTEIVKILDALTALTSELTSELILRQKQYEYYREKL 184

Query: 411 IAAAVTGQI 419
           ++    G++
Sbjct: 185 LSEEELGKV 193


>gi|46449531|gb|AAS96182.1| type I restriction-modification enzyme, S subunit [Desulfovibrio
           vulgaris str. Hildenborough]
          Length = 339

 Score = 88.7 bits (218), Expect = 2e-15,   Method: Composition-based stats.
 Identities = 19/94 (20%), Positives = 45/94 (47%), Gaps = 5/94 (5%)

Query: 333 LAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
           L  +  S+   +   ++ +      +  + +K  P+L+PP+ EQ  I  +++      D 
Sbjct: 42  LKQIFNSFRFEQYVKSVQTETAVPHISAQQIKEFPILLPPLTEQKKIARILSTW----DK 97

Query: 392 LVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGES 425
            +E +++ I   K+++ + +   +TG+  L G S
Sbjct: 98  AIETVDKLIENSKQQKKALMQQLLTGKKRLPGFS 131



 Score = 82.5 bits (202), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 41/297 (13%), Positives = 99/297 (33%), Gaps = 12/297 (4%)

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
               S    Q ++++     + H   + I   P+ +PPL EQ  I   +       D  I
Sbjct: 44  QIFNSFRFEQYVKSVQTETAVPHISAQQIKEFPILLPPLTEQKKIARIL----STWDKAI 99

Query: 186 TERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN 245
               + IE  K++K+AL+  ++T          +     +G +                 
Sbjct: 100 ETVDKLIENSKQQKKALMQQLLTGKKRLPGFSGEWKEVRLGDLFQVTIGGTPSRKNNAYW 159

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
            +        +      N         +     +    +++    ++  F      +   
Sbjct: 160 DQLKASGNKWVAISDLKNKFLVETNEYITDAGAANSNVKLIPRLTVIMSFKLTIGKRAIT 219

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRL 365
           ++       I   A++    + ID+ +    +   DL +       G  +++    + ++
Sbjct: 220 KTQCYTNEAIC--AFIPKHKNEIDTNFFYHHLGIIDLVQDVDQAVKG--KTINKSKIMKI 275

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
              +P + EQ  I   I     +     + ++  I L+KE + + +   +TG+  ++
Sbjct: 276 RTKLPNLLEQIAIAQRIEAFDLQ---QEDYLKTRIFLVKE-KQALMQQLLTGKRRVK 328



 Score = 56.7 bits (135), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 26/194 (13%), Positives = 66/194 (34%), Gaps = 15/194 (7%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKD----------IIYIGLEDVESGTGKYLPKDGNSRQS 73
            WK V +    ++  G T     +            ++ + D+++       +      +
Sbjct: 133 EWKEVRLGDLFQVTIGGTPSRKNNAYWDQLKASGNKWVAISDLKNKFLVETNEYITDAGA 192

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
             S V +  +  ++       + K  I       +       PK         +   + +
Sbjct: 193 ANSNVKLIPRLTVIMS-FKLTIGKRAITKTQCYTNEAICAFIPKHKNEIDTNFFYHHLGI 251

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
              ++ + +       +   I  I   +P L EQ+ I ++I A  ++      + ++   
Sbjct: 252 IDLVQDVDQAVKGKTINKSKIMKIRTKLPNLLEQIAIAQRIEAFDLQ----QEDYLKTRI 307

Query: 194 LLKEKKQALVSYIV 207
            L ++KQAL+  ++
Sbjct: 308 FLVKEKQALMQQLL 321


>gi|330506384|ref|YP_004382812.1| restriction modification system DNA specificity domain-containing
           protein [Methanosaeta concilii GP-6]
 gi|328927192|gb|AEB66994.1| restriction modification system DNA specificity domain protein
           [Methanosaeta concilii GP-6]
          Length = 436

 Score = 88.7 bits (218), Expect = 2e-15,   Method: Composition-based stats.
 Identities = 24/167 (14%), Positives = 57/167 (34%), Gaps = 13/167 (7%)

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYET------YQIVDPGEIVFRFIDLQND 301
           +    +  I  +   N+              S           +  PG++VF        
Sbjct: 54  SRDYSDQGIPVIRGSNLNNGRFLDMNEFVYVSDSKVRKDLSGNLAKPGDLVFTQRGTLGQ 113

Query: 302 KRSLRSAQVMERGIITSAYMAVKPHGI--DSTYLAWLMRSYDLCKVF-YAMGSGLRQSLK 358
              +    + +R +++ + M +       D  +L +   S ++         S     + 
Sbjct: 114 VAIIPKEGISDRYVVSQSQMKLTVDDTKADQFFLYYYFSSREVIDRITNFTSSSGVPHIN 173

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
              ++   + VPP++ Q  I ++++      D L+E   + I LL++
Sbjct: 174 LTVLRNFEIPVPPLEIQKSIASILSA----YDDLIENNRRRIQLLEQ 216



 Score = 84.5 bits (207), Expect = 3e-14,   Method: Composition-based stats.
 Identities = 52/422 (12%), Positives = 117/422 (27%), Gaps = 35/422 (8%)

Query: 24  HWKVVPIKRFT-----KLNTGRTSES-------GKDIIYIGLEDVESGTGKYLPKDGNSR 71
            W    ++            G             + I  I   ++ +G    + +     
Sbjct: 26  SWPRKKLELLAADEPYSFVGGPFGSKLTSRDYSDQGIPVIRGSNLNNGRFLDMNEFVYVS 85

Query: 72  QSDTSTV---SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV--------L 120
            S        ++   G +++ + G   + AII       S +++V Q +           
Sbjct: 86  DSKVRKDLSGNLAKPGDLVFTQRGTLGQVAIIPKEG--ISDRYVVSQSQMKLTVDDTKAD 143

Query: 121 PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
              L  +  S +V  RI      + + H +   + N  +P+PPL  Q  I   + A    
Sbjct: 144 QFFLYYYFSSREVIDRITNFTSSSGVPHINLTVLRNFEIPVPPLEIQKSIASILSAYDDL 203

Query: 181 IDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFAL 240
           I+          +  +   +    ++   G      M      W        E+      
Sbjct: 204 IENNRRRIQLLEQAARLLYREWFVHLRFPGHEHVRIMDGVPEGWERKT-AFDEMDILSGG 262

Query: 241 VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ-IVDPGEIVFRFIDLQ 299
             +    +    +    +                L  E        + P + +F      
Sbjct: 263 TPKTGVPDYWNGDIPFFTPKDSMDYAYALATEKRLTEEGLRNCNSKLYPKDTIFITARGT 322

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKF 359
             K +L          +  +  A+      + Y  +      + +        +  ++  
Sbjct: 323 VGKINLA----QTAMAMNQSCYALIGKPPLNQYYLYFALVDGVEQFRSRAVGAVFDAIIR 378

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
           E   ++P +VP       I          I   ++ +   I +L + R   +   + G+I
Sbjct: 379 ETFNQIPFIVPD----DKIIQSFTEHVVPIIKQIDVLSTEIRMLTQARDLLLPRLMNGEI 434

Query: 420 DL 421
            +
Sbjct: 435 KI 436



 Score = 47.5 bits (111), Expect = 0.004,   Method: Composition-based stats.
 Identities = 25/169 (14%), Positives = 50/169 (29%), Gaps = 9/169 (5%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLED-VESGTGKYLPKDGNSRQS 73
           +P+ W+         + +G T ++        DI +   +D ++        K       
Sbjct: 243 VPEGWERKTAFDEMDILSGGTPKTGVPDYWNGDIPFFTPKDSMDYAYALATEKRLTEEGL 302

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
                 ++ K  I     G    K  +A      +     L  K  L      +   +D 
Sbjct: 303 RNCNSKLYPKDTIFITARGTV-GKINLAQTAMAMNQSCYALIGKPPLN-QYYLYFALVDG 360

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
            ++  +   GA       +    IP  +P         E ++    +ID
Sbjct: 361 VEQFRSRAVGAVFDAIIRETFNQIPFIVPDDKIIQSFTEHVVPIIKQID 409


>gi|332201352|gb|EGJ15422.1| type I restriction modification DNA specificity domain protein
           [Streptococcus pneumoniae GA47368]
          Length = 331

 Score = 88.7 bits (218), Expect = 2e-15,   Method: Composition-based stats.
 Identities = 42/349 (12%), Positives = 87/349 (24%), Gaps = 24/349 (6%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V +        G   +  +D    G E +          + N          I   G 
Sbjct: 2   KKVKLGEVATFINGYAFKP-QDWSSEGKEIIRIQNLTKTSTEINYYSGTIDKKYIVEAGD 60

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           IL    G  L          + +     +    +  +      +     Q       G+T
Sbjct: 61  ILISWSG-TLGVFQWRGRSAVLNQHIFKVVFDKIDIDKSYFKYVVEKGLQDAVKHTHGST 119

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
           M H   K   NI +P   L EQ  I  ++   +  I     +                  
Sbjct: 120 MKHLTKKYFDNIIVPYTNLGEQQRIASELDLLSKLILRRQEQLEELNL------------ 167

Query: 206 IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII 265
                L      +  G   +    D+              + +    E   L L+  N+ 
Sbjct: 168 -----LVKSRFNEMFGENKIFESIDNLFDIIDGDRGKNYPKSDELFSEEYCLFLNTKNVT 222

Query: 266 QKLETRN----MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
           +   + +    +    +       ++  +IV        +          +   I S  +
Sbjct: 223 KNGFSFDTKQFITKTKDKLLRKGKLERYDIVLTTRGTVGNVAYYDELIKYKHLRINSGMV 282

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP 370
            ++P   +     +++           +    +  L    +K+     P
Sbjct: 283 ILRPKTPNLNQ-KFIIHVLRNNNYSRVISGSAQPQLPITKLKKYFSPFP 330



 Score = 55.2 bits (131), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/142 (11%), Positives = 41/142 (28%), Gaps = 10/142 (7%)

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
            +  +     + +   IV+ G+I+  +                   ++      V    I
Sbjct: 39  TSTEINYYSGTIDKKYIVEAGDILISWSGTLG-----VFQWRGRSAVLNQHIFKVVFDKI 93

Query: 329 DSTYLAW-LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           D     +  +    L            + L  +    + V    + EQ  I + ++    
Sbjct: 94  DIDKSYFKYVVEKGLQDAVKHTHGSTMKHLTKKYFDNIIVPYTNLGEQQRIASELD---- 149

Query: 388 RIDVLVEKIEQSIVLLKERRSS 409
            +  L+ + ++ +  L     S
Sbjct: 150 LLSKLILRRQEQLEELNLLVKS 171


>gi|322411066|gb|EFY01974.1| Type I restriction-modification system specificity subunit
           [Streptococcus dysgalactiae subsp. dysgalactiae ATCC
           27957]
          Length = 381

 Score = 88.7 bits (218), Expect = 2e-15,   Method: Composition-based stats.
 Identities = 48/391 (12%), Positives = 106/391 (27%), Gaps = 28/391 (7%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+   +    ++  G++  S           +  G           R   T        G
Sbjct: 18  WEERKLGEVAEVTMGQSPSSTNYTANPSDYILVQGNADLKNGYVFPRVWTTQITKTADAG 77

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            ++     P    A                       E L   L  +      + +  G+
Sbjct: 78  DLIISVRAPVGDVA-----KTAFDVVLGRGVAGIKGNEFLFQTLSKLKKDGYWKRLSTGS 132

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
           T    + + I +  + IP L EQ  I          +        R ++LLKE K+  + 
Sbjct: 133 TFESINSEDIKSTIIQIPSLPEQESIGNFFRQLDDLLT----LHERKLDLLKEHKKTYLR 188

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
            +          ++    E         E+            K +K+ ++      Y + 
Sbjct: 189 LLFPAKGQKVPALRFDSFEGDWEEKKVGEIFKVTRGQVLSATKVSKIKDNKNQYPVYSSQ 248

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
            Q      +G   E   +  I                     + +  +        + + 
Sbjct: 249 TQNNGL--LGYYSECLFSDAI---------TWTTDGANAGTVNFRKGKFYSTNVNGVLLS 297

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
             G  +  +A ++ S         +       L    +  + + +P + EQ  I N    
Sbjct: 298 ESGYANKMVAEILNSVAWKF----VSKVGNPKLMNNVMSEITLSLPSLPEQEAIGNF--- 350

Query: 385 ETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
             + +D  + ++E  +  L   +++ +    
Sbjct: 351 -FSTLDEEITQVESKLASLNAMKATLLRKIF 380



 Score = 39.0 bits (89), Expect = 1.4,   Method: Composition-based stats.
 Identities = 18/182 (9%), Positives = 50/182 (27%), Gaps = 12/182 (6%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS--IF 81
            W+   +    K+  G+   + K      +  ++    +Y      ++ +          
Sbjct: 209 DWEEKKVGEIFKVTRGQVLSATK------VSKIKDNKNQYPVYSSQTQNNGLLGYYSECL 262

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
               I +   G               +    VL  +      +   +L+    + +  + 
Sbjct: 263 FSDAITWTTDGANAGTVNFRKGKFYSTNVNGVLLSESGYANKMVAEILNSVAWKFVSKVG 322

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
               M++     +  I + +P L EQ  I          I  + ++      +     + 
Sbjct: 323 NPKLMNNV----MSEITLSLPSLPEQEAIGNFFSTLDEEITQVESKLASLNAMKATLLRK 378

Query: 202 LV 203
           + 
Sbjct: 379 IF 380


>gi|91773198|ref|YP_565890.1| restriction modification system DNA specificity subunit
           [Methanococcoides burtonii DSM 6242]
 gi|91712213|gb|ABE52140.1| Restriction modification system DNA specificity subunit
           [Methanococcoides burtonii DSM 6242]
          Length = 351

 Score = 88.7 bits (218), Expect = 2e-15,   Method: Composition-based stats.
 Identities = 53/397 (13%), Positives = 129/397 (32%), Gaps = 57/397 (14%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           WK   +     LN G++    K +               +P   ++  +     ++    
Sbjct: 5   WKKCKLGDVLVLNYGKSLPERKRVE------------GKIPVYSSAGLTGYHNETLVNSE 52

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            ++ G+ G   +            T + +L  +    +    ++  +  T  +E + E +
Sbjct: 53  GLIIGRKGTVGKIYYSKTPFFCIDTAYYILPEET---KYYLNFIYYLLKTIGLEELNEDS 109

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
            +   +     +  + +PPL EQ  I   + +   +ID L  +               ++
Sbjct: 110 AVPRLNRNTAYSQDILLPPLPEQRAIASVLSSLDDKIDLLHRQNKTLEA---------MA 160

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
             + +    +   +      +G V      K     + E                  GNI
Sbjct: 161 ETLFRQWFEEEADEGWEEGTLGDVASFHNGKKRPDDIIE------------------GNI 202

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
                   +G   +S      V  G +      L  ++  +         I  +A +A  
Sbjct: 203 PIYGGNGILGYSDKSNNEGVTVIIGRVGAYCGSLYIERNPV--------WISDNALVAKP 254

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
            +   S++L +L++S  L ++           L    +K + +++PP      I   +  
Sbjct: 255 INKEHSSFLFFLLKSLQLNEIAE---GSSHPLLTQNLLKSIQIILPPE---HRIEPFVYQ 308

Query: 385 ETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
                +  ++K  + I  L++ R + ++  ++G+  +
Sbjct: 309 ADTWFNK-IDKNNKQIRTLEKLRDTLLSKLMSGEARV 344


>gi|289550024|ref|YP_003470928.1| Type I restriction-modification system, specificity subunit S
           [Staphylococcus lugdunensis HKU09-01]
 gi|289179556|gb|ADC86801.1| Type I restriction-modification system, specificity subunit S
           [Staphylococcus lugdunensis HKU09-01]
          Length = 391

 Score = 88.7 bits (218), Expect = 2e-15,   Method: Composition-based stats.
 Identities = 49/400 (12%), Positives = 110/400 (27%), Gaps = 40/400 (10%)

Query: 24  HWKVVPIKRFTKLNTGRTSESG----KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            W    +K       G++        +    I   ++ +  G    K  +        + 
Sbjct: 19  EWVRKKLKNIASFGKGKSLSKKDISKEGHPCILYGELYTKYGPITTKVYSKTNKLDKKLV 78

Query: 80  IFAKGQILYGKLGPY-----LRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
              K Q+L    G           I      I      ++ PK      +  ++      
Sbjct: 79  YSEKNQVLIPSSGETDIDIATATCINISEKIIIGGDLNIITPKIADGRFISLYINGKGKY 138

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
              +     + +   +             ++EQ  I         +I+    +     + 
Sbjct: 139 NLAKYAQGKSVVHLYNSDIKKLEFFLPKEISEQEKIGNFFSKLDRQIELEEQKLELLKQQ 198

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
            K   Q + S  +               +  G     W  K    +   ++ K +     
Sbjct: 199 KKGYMQKIFSQEIKFK------------DENGNDYPEWIEKTIEEVTKYISSKKSSNQYI 246

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
              +L    +   ++      + +  E Y  +         ++L+  K S+         
Sbjct: 247 ENNTLGSYPVYDAIQEIAKDSQYDMEEPYISILKDGAGVGRLNLRAGKSSVI-------- 298

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI-K 373
                   + P  ID  +L + M+  +  K            L ++D  +  + +P    
Sbjct: 299 ---GTMGYLLPKYIDIQFLYYRMKLLEFKKYII---GSTIPHLYYKDYSKEKLKIPSSSD 352

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           EQ  I   +     ++D  +EK    +  LK+R+   +  
Sbjct: 353 EQKKIGTSL----KKLDDYIEKQSSKVEFLKQRKQGLLQK 388


>gi|32455448|ref|NP_862562.1| hypothetical protein pSRQ800_03 [Lactococcus lactis]
 gi|14251229|gb|AAK57812.1|U35629_2 HsdS [Lactococcus lactis]
          Length = 387

 Score = 88.7 bits (218), Expect = 2e-15,   Method: Composition-based stats.
 Identities = 51/403 (12%), Positives = 124/403 (30%), Gaps = 42/403 (10%)

Query: 20  AIPK--------HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSR 71
            +P+         W++  +    ++  G++  S           +  G           R
Sbjct: 15  KVPELRFKGFTDEWELRKLGDEVRIVMGQSPNSENYTDDPNDYILVQGNADMKNGRVLPR 74

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
              T       K  ++     P         +D +       ++  + +       L  +
Sbjct: 75  VWTTQVTKQAEKDDLILSVRAPV-GDIGKTAYDVVIGRGVAAIKGNEFI----FQNLGKM 129

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
                      G+T    +   I    + +P + EQ  I         ++D  I    R 
Sbjct: 130 KSDGYWTRYSTGSTFESINSTDIKEAIISVPAIEEQDKIGSF----FKQLDNTIALHQRK 185

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           ++LLKE+K+  +  +  K      +++ +G        D WE +    +      K    
Sbjct: 186 LDLLKEQKKGFLQKMFPKNGAKVPELRFAG------FADDWEERKLGDITKISTGK--LD 237

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
             + + +  Y      ++   + +      +  I   G  V       N   + +   V+
Sbjct: 238 ANAMVENGKYDFYTSGIKKYRIDVAAFEGPSITIAGNGATVGYMHLADNKFNAYQRTYVL 297

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP- 370
           +  ++  +++  +                   K+     +G    +  + +  L + +P 
Sbjct: 298 QEFLVDRSFIFSEIGNKLP------------KKIKQEARTGNIPYIVMDMLTELKLSIPQ 345

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
              EQ  I +       ++D  +   ++ + LLKE++  F+  
Sbjct: 346 NNSEQQKIGSF----FKQLDDTIALHQRKLDLLKEQKKGFLQK 384



 Score = 67.5 bits (163), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 31/205 (15%), Positives = 70/205 (34%), Gaps = 15/205 (7%)

Query: 211 LNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLET 270
           ++  VK K   + + G   + WE++     V  +  ++            Y  +    + 
Sbjct: 8   IDDSVKKKVPELRFKGFTDE-WELRKLGDEVRIVMGQSPNSENYTDDPNDYILVQGNADM 66

Query: 271 RNMGLKPESYETY--QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
           +N  + P  + T   +  +  +++        D        V+ RG+             
Sbjct: 67  KNGRVLPRVWTTQVTKQAEKDDLILSVRAPVGDIGKTAYDVVIGRGVAA--------IKG 118

Query: 329 DSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
           +      L +                +S+   D+K   + VP I+EQ  I +       +
Sbjct: 119 NEFIFQNLGKMKSDGYWTRYSTGSTFESINSTDIKEAIISVPAIEEQDKIGSF----FKQ 174

Query: 389 IDVLVEKIEQSIVLLKERRSSFIAA 413
           +D  +   ++ + LLKE++  F+  
Sbjct: 175 LDNTIALHQRKLDLLKEQKKGFLQK 199


>gi|313207214|ref|YP_004046391.1| restriction modification system DNA specificity domain [Riemerella
           anatipestifer DSM 15868]
 gi|312446530|gb|ADQ82885.1| restriction modification system DNA specificity domain [Riemerella
           anatipestifer DSM 15868]
 gi|315022984|gb|EFT36005.1| restriction modification system DNA specificity domain protein
           [Riemerella anatipestifer RA-YM]
 gi|325335340|gb|ADZ11614.1| Restriction endonuclease S subunit [Riemerella anatipestifer RA-GD]
          Length = 365

 Score = 88.3 bits (217), Expect = 2e-15,   Method: Composition-based stats.
 Identities = 62/396 (15%), Positives = 130/396 (32%), Gaps = 36/396 (9%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           + V +    K       +  K    I  +D+    GKY     N +    +  +   K  
Sbjct: 2   ERVKLIDICK------PKQWKT---ISGKDILEK-GKYPVYGANGKIGFYNEYNH-EKPT 50

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           +L G  G      I   F         +      +      + L     +  + +  G  
Sbjct: 51  LLIGCRGSCGTIHISEPFSYTSGNAMALDGLSSKVDIKFLFYYLK---QRGFDDVMSGGV 107

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
                  G+  + +P+PPL EQ  I EK+         +I      +    +  QAL   
Sbjct: 108 QKQITKVGLEKVEIPLPPLVEQQAIAEKLDQA----QKIIDLNEAEVARYDKLAQAL--- 160

Query: 206 IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII 265
            +    +P    K   ++ +G V                ++   +    +I  ++  ++ 
Sbjct: 161 FIDMFGDPVQNPKGWEVKKLGEV------CTNILGGGTPSKSKPEFYIGDIPWVTPKDMK 214

Query: 266 QKLETRNMGLKPE--SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
            K    ++    +     +   + P + +   I     K +L  A       I     A 
Sbjct: 215 TKFIRNSIDHINKLAIENSSAKLIPVDSILMVIRSGILKHTLPVAINKVSVTINQDMKAF 274

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFY--AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
            P+   +  L +++  + +C  F    + +    +++F  +K L  ++PPI  Q +    
Sbjct: 275 LPNDKITNTL-FMLYFFKVCSYFLLGKVRAVTADNIEFNQIKNLNYILPPITLQNEFAKR 333

Query: 382 INVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
           I     +I++L  + +Q +   K    S +  +  G
Sbjct: 334 IE----QIELLKNQAQQELEQSKNLFQSLLQESFKG 365



 Score = 70.6 bits (171), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 32/196 (16%), Positives = 65/196 (33%), Gaps = 14/196 (7%)

Query: 22  PKHWKVVPIKRFT-KLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           PK W+V  +      +  G T    K      DI ++  +D+++   +      N    +
Sbjct: 172 PKGWEVKKLGEVCTNILGGGTPSKSKPEFYIGDIPWVTPKDMKTKFIRNSIDHINKLAIE 231

Query: 75  TSTVSIFAKGQILYGKLGPYLR---KAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
            S+  +     IL       L+      I       +       P D +   L       
Sbjct: 232 NSSAKLIPVDSILMVIRSGILKHTLPVAINKVSVTINQDMKAFLPNDKITNTLFMLYFFK 291

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
             +  +       T  + ++  I N+   +PP+  Q    ++I     +I+ L  +  + 
Sbjct: 292 VCSYFLLGKVRAVTADNIEFNQIKNLNYILPPITLQNEFAKRI----EQIELLKNQAQQE 347

Query: 192 IELLKEKKQALVSYIV 207
           +E  K   Q+L+    
Sbjct: 348 LEQSKNLFQSLLQESF 363


>gi|78189089|ref|YP_379427.1| restriction endonuclease S subunits-like [Chlorobium
           chlorochromatii CaD3]
 gi|78171288|gb|ABB28384.1| Restriction endonuclease S subunits-like protein [Chlorobium
           chlorochromatii CaD3]
          Length = 428

 Score = 88.3 bits (217), Expect = 2e-15,   Method: Composition-based stats.
 Identities = 60/430 (13%), Positives = 131/430 (30%), Gaps = 39/430 (9%)

Query: 23  KHWKVVPIKRFTKLNTGRTSES--------GKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
             WK   +K    L  GR+           G    +I   ++   +      +    +  
Sbjct: 5   SEWKEYKLKDLGLLQRGRSRHRPRYAFHLYGGKYPFIQTGEIREASKYITKFEKTYSEEG 64

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
                ++ KG +    +   + +  I +FD       L   P D +      + +     
Sbjct: 65  LKQSKLWPKGTLCIT-IAANIAELAILNFDACFPDSVLGFIPNDKIANADFIYYILTHFQ 123

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           + ++ I EG+   + +     ++  PIPPL EQ  I   + +   +I+ L  +     ++
Sbjct: 124 KELKHIGEGSVQDNINLGTFEDLLFPIPPLPEQRAIASVLSSLDDKIELLHRQNATLEKM 183

Query: 195 LKEKKQA--------------LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFAL 240
            +   +               L+     K        K+   +      + W++      
Sbjct: 184 AETLFRQWFIERKSLNYDSYDLLDEHDLKNQKNHNNQKNHSSDNGEEAIEEWKIGKVSDY 243

Query: 241 -VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQ 299
            +   +    +  +S              +     L  E            I+F  ++  
Sbjct: 244 ALHLKDSIQPQKNQSTFYFHYSIPSFDNDKNPIKELGKEIQSNKYKAPRYCILFSKLNPH 303

Query: 300 NDKR-SLRSAQVMERGIITSAYMAVKPHGIDSTYLAW-LMRSYDLCKVFYAMGSGL---R 354
            DKR  L   +V +  I ++ +  V P      Y  +  +   D      +   G     
Sbjct: 304 KDKRVWLLQNEVEKNAICSTEFQVVLPIKRQYLYFLYGWLTLNDNYNEIASGVGGTSGSH 363

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI---EQSIVLLKERRSSFI 411
           Q +    +      +  + E     +VI     +I  L +K    +  I  L   R   +
Sbjct: 364 QRIDPNTIYDFQCPL--VTE-----SVIEKFNIQIKPLFKKQVINQTQIRTLTALRDMLL 416

Query: 412 AAAVTGQIDL 421
              ++G++ +
Sbjct: 417 PKLMSGEVKV 426


>gi|165976843|ref|YP_001652436.1| Type I restriction-modification system S subunit [Actinobacillus
           pleuropneumoniae serovar 3 str. JL03]
 gi|165876944|gb|ABY69992.1| Type I restriction-modification system S subunit [Actinobacillus
           pleuropneumoniae serovar 3 str. JL03]
          Length = 406

 Score = 88.3 bits (217), Expect = 2e-15,   Method: Composition-based stats.
 Identities = 52/410 (12%), Positives = 111/410 (27%), Gaps = 64/410 (15%)

Query: 42  SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT---STVSIFAKGQILYGKLGPYLRK- 97
            +    I YI  +D     G          + D    S      K  I++ + G      
Sbjct: 5   YKGKNGIPYISPKDFYDKNGIDFANAKKVSEEDYFLLSKKFAPQKNDIIFPRYGTIGVVR 64

Query: 98  AIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNI 157
            I  +   + S     ++ + +  + +  +L S      I+      T  +   K I   
Sbjct: 65  VIEENIKLLVSYSCACIRVEYINMQYVVAYLNSELAKLEIKKYTNKTTQPNVGLKSIKKF 124

Query: 158 PMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK----QALVSYIVTKGLNP 213
            +P+PPL EQ  I  KI      I+    +  +   L ++      ++++   +   L  
Sbjct: 125 IIPLPPLNEQKRIVAKIEELLPYIEQYAEKEEKLTALHQQFPEQLKKSILQAAIQGKLTE 184

Query: 214 DVKM------------------------------------------------KDSGIEWV 225
                                                               +    E  
Sbjct: 185 QNPNDEPASALIERIKAEKLRLIAEKKLKKPKVISEIIMRDNLPYEIVNGKERCIADEVP 244

Query: 226 GLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI 285
             +P+ W       +    +  N  L +  I            ++       ES + Y  
Sbjct: 245 FEIPESWVWVRLSKITMGQSPDNKYLGKEGIEFHQ-------GKSFFSEYIIESSDIYCS 297

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV 345
           +         I L                 I     +++   +++ +L + +  Y     
Sbjct: 298 LPNKLATPNSILLCVRAPVGIVNITNRELCIGIGLASIESIYVNTIFLYYALFCYKNY-Y 356

Query: 346 FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
                    +++  + +    + +PP+ EQ  I   I    + +  L +K
Sbjct: 357 ERKSTGSTFKAISKDIIDNTIIPIPPLNEQIRIVEKIETLFSTLQNLSQK 406



 Score = 81.0 bits (198), Expect = 3e-13,   Method: Composition-based stats.
 Identities = 27/182 (14%), Positives = 66/182 (36%), Gaps = 16/182 (8%)

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIV------DPGEIVFRFIDLQNDK 302
               ++ I  +S  +   K        K  S E Y ++         +I+F         
Sbjct: 4   EYKGKNGIPYISPKDFYDKNGIDFANAKKVSEEDYFLLSKKFAPQKNDIIFPRYGTIGVV 63

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFED 361
           R +       + +++ +   ++   I+  Y+   + S           +   + ++  + 
Sbjct: 64  RVIEENI---KLLVSYSCACIRVEYINMQYVVAYLNSELAKLEIKKYTNKTTQPNVGLKS 120

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL-----KERRSSFIAAAVT 416
           +K+  + +PP+ EQ  I   I      I+    + E+ +  L     ++ + S + AA+ 
Sbjct: 121 IKKFIIPLPPLNEQKRIVAKIEELLPYIEQY-AEKEEKLTALHQQFPEQLKKSILQAAIQ 179

Query: 417 GQ 418
           G+
Sbjct: 180 GK 181



 Score = 50.9 bits (120), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 35/167 (20%), Positives = 55/167 (32%), Gaps = 13/167 (7%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT---S 76
            IP+ W  V +    K+  G++ ++     Y+G E +E   GK    +     SD     
Sbjct: 246 EIPESWVWVRLS---KITMGQSPDNK----YLGKEGIEFHQGKSFFSEYIIESSDIYCSL 298

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
              +     IL     P     I      I      +   + +    +  +         
Sbjct: 299 PNKLATPNSILLCVRAPVGIVNITNRELCI---GIGLASIESIYVNTIFLYYALFCYKNY 355

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
            E    G+T        I N  +PIPPL EQ+ I EKI      +  
Sbjct: 356 YERKSTGSTFKAISKDIIDNTIIPIPPLNEQIRIVEKIETLFSTLQN 402


>gi|150389395|ref|YP_001319444.1| restriction modification system DNA specificity subunit
           [Alkaliphilus metalliredigens QYMF]
 gi|149949257|gb|ABR47785.1| restriction modification system DNA specificity domain
           [Alkaliphilus metalliredigens QYMF]
          Length = 408

 Score = 88.3 bits (217), Expect = 2e-15,   Method: Composition-based stats.
 Identities = 48/380 (12%), Positives = 108/380 (28%), Gaps = 19/380 (5%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+   +   T+   G+     K       E V   +        +S +    T     K 
Sbjct: 22  WEPCKLSDLTEYKNGK-GHEDKQSTSGKYELVNLNSISIDGGLKHSGKFVDDTTDTLFKN 80

Query: 85  QILYGKL----GPYLRKAIIA--DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
            ++        G  L +  +   +   + + +  +L+P          +       +  +
Sbjct: 81  DLVMVLSDVGHGDLLGRVALIPENDRFVLNQRVALLRPNRAAD-PQFLFSYINAHQRYFK 139

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
           A   G +  +     + +    IP   EQV    KI     ++D LIT   R ++ +K  
Sbjct: 140 AQGAGMSQLNISKGSVESFTSFIPDKEEQV----KIGKHFKQLDNLITLHQRKLDKIKSM 195

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
           K+A +  +         K +  G           +    F+ +T     N  + ++    
Sbjct: 196 KKAYLYEMFPVEGESRPKRRFKGFTDAWEQRKLTDEVELFSGLT--YSPNDIVKDNGTFV 253

Query: 259 LSYGNIIQKLETR-NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
           L   N+        +             V  G+I+    +         +    ++    
Sbjct: 254 LRSSNVKNGEVVDADNVYVNSEVVNSCNVKNGDIIVVVRNGSRSLIGKHAQIKGDKDKTV 313

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFD 377
                       S ++  L+ +                 +      ++  ++P  +EQ  
Sbjct: 314 IGAFMTGLRSNHSDFVNALLDTPLFKSEIDKNLGATINQITNGMFHQMKFMIPNPEEQDR 373

Query: 378 ITNVINVETARIDVLVEKIE 397
           I          +D L+   +
Sbjct: 374 IG----KLFTGLDNLITLHQ 389



 Score = 70.2 bits (170), Expect = 6e-10,   Method: Composition-based stats.
 Identities = 24/210 (11%), Positives = 73/210 (34%), Gaps = 11/210 (5%)

Query: 206 IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII 265
             TK L P  + K+          +  ++            ++ +        ++  +I 
Sbjct: 2   AETKKLIPKRRFKEFQ---NAEAWEPCKLSDLTEYKNGKGHEDKQSTSGKYELVNLNSIS 58

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
                ++ G   +        +   +V   +   +    +      +R ++      ++P
Sbjct: 59  IDGGLKHSGKFVDDTTDTLFKNDLVMVLSDVGHGDLLGRVALIPENDRFVLNQRVALLRP 118

Query: 326 HGI-DSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
           +   D  +L   + ++   + F A G+G+ + ++    V+     +P  +EQ  I     
Sbjct: 119 NRAADPQFLFSYINAH--QRYFKAQGAGMSQLNISKGSVESFTSFIPDKEEQVKIGKH-- 174

Query: 384 VETARIDVLVEKIEQSIVLLKERRSSFIAA 413
               ++D L+   ++ +  +K  + +++  
Sbjct: 175 --FKQLDNLITLHQRKLDKIKSMKKAYLYE 202


>gi|315038272|ref|YP_004031840.1| restriction modification system DNA specificity domain protein
           [Lactobacillus amylovorus GRL 1112]
 gi|312276405|gb|ADQ59045.1| restriction modification system DNA specificity domain protein
           [Lactobacillus amylovorus GRL 1112]
          Length = 372

 Score = 88.3 bits (217), Expect = 2e-15,   Method: Composition-based stats.
 Identities = 52/380 (13%), Positives = 126/380 (33%), Gaps = 19/380 (5%)

Query: 45  GKDIIYIGLEDVESGTGKYLPKDG---NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIA 101
            + I +I +E + +    +  K G   N      +      K  +   K G  + K  I 
Sbjct: 2   KEGIPFISVEAIVNNKIDFKRKRGYISNEYNEKCNQKYKPQKNDVYLVKSGSTVGKTAIV 61

Query: 102 D---FDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIP 158
           +      I S    +       P  L   L + ++  ++    +G T  +   + + +  
Sbjct: 62  ETNIPFNIWSPLAALRPNNATSPYFLFYLLQTDNLQSQVINKSKGGTQPNLSMRLLEHFK 121

Query: 159 MPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTK--GLNPDVK 216
           + +P   +      +++    +I   I+ + R +  LKE K+ L+S +        P ++
Sbjct: 122 IFVPNNIDYQTQIARLLINVDKI---ISLQQRKLNELKEVKKTLLSQLFPSKGQYRPIIR 178

Query: 217 MKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII-QKLETRNMGL 275
            K    +W      +          +  N        +       GN I      + + +
Sbjct: 179 FKKFTNKWTKRKLGNIAKIIGGGTPSTSNHDYWNGNINWYSPTEIGNNIFVNSSNKKISI 238

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
           K  +  + +++  G+ +           ++            S  +      I   Y  +
Sbjct: 239 KGLNNSSAKLLPGGKTILFTSRAGIGNMAIMLTDGCTNQGFQSWVIDDTKIDI---YFLY 295

Query: 336 LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
            +                   +  ++VK+L + +P   EQ  I N++     +ID  + +
Sbjct: 296 SLGRLLKHDAIRQASGSTFLEISNKEVKKLLLEIPSFTEQKLIGNML----RKIDDDIVR 351

Query: 396 IEQSIVLLKERRSSFIAAAV 415
            ++ I+L+ + + + +    
Sbjct: 352 QKERIILITKIKKNLLQKLF 371



 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 28/186 (15%), Positives = 56/186 (30%), Gaps = 7/186 (3%)

Query: 25  WKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKY-LPKDGNSRQSDTST 77
           W    +    K+  G T  +        +I +    ++ +        K  + +  + S+
Sbjct: 186 WTKRKLGNIAKIIGGGTPSTSNHDYWNGNINWYSPTEIGNNIFVNSSNKKISIKGLNNSS 245

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
             +   G+ +       +    I   DG  +  F      D   ++   + L   +    
Sbjct: 246 AKLLPGGKTILFTSRAGIGNMAIMLTDGCTNQGFQSWVIDDTKIDIYFLYSLGRLLKHDA 305

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
                G+T      K +  + + IP   EQ LI   +      I       I   ++ K 
Sbjct: 306 IRQASGSTFLEISNKEVKKLLLEIPSFTEQKLIGNMLRKIDDDIVRQKERIILITKIKKN 365

Query: 198 KKQALV 203
             Q L 
Sbjct: 366 LLQKLF 371


>gi|332362406|gb|EGJ40206.1| type I restriction-modification system [Streptococcus sanguinis
           SK1056]
          Length = 170

 Score = 88.3 bits (217), Expect = 2e-15,   Method: Composition-based stats.
 Identities = 31/84 (36%), Positives = 52/84 (61%)

Query: 333 LAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
           + +L+ +YD+CKVFY  G G+RQ   + D+ ++ +L+PP  EQ  I + ++ + A++D  
Sbjct: 1   MYYLLHTYDICKVFYNFGGGVRQGGTWSDIYKMELLIPPCNEQQKIADYLDKKIAQLDRA 60

Query: 393 VEKIEQSIVLLKERRSSFIAAAVT 416
              +E+ I  LK+ RSS I   VT
Sbjct: 61  KRLLEKQIQKLKDYRSSLIYETVT 84



 Score = 50.6 bits (119), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 34/114 (29%), Positives = 55/114 (48%), Gaps = 1/114 (0%)

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           +   L + D+ +       G       W  I  + + IPP  EQ  I + +  +  ++D 
Sbjct: 1   MYYLLHTYDICKVFYNFGGGVRQGG-TWSDIYKMELLIPPCNEQQKIADYLDKKIAQLDR 59

Query: 184 LITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPF 237
                 + I+ LK+ + +L+   VTKGL+  V MKDSGI+W+G VP+ W V   
Sbjct: 60  AKRLLEKQIQKLKDYRSSLIYETVTKGLDKTVPMKDSGIDWIGQVPEGWGVSKL 113



 Score = 44.8 bits (104), Expect = 0.026,   Method: Composition-based stats.
 Identities = 15/76 (19%), Positives = 23/76 (30%), Gaps = 5/76 (6%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTK-----LNTGRTSESGKDIIYIGLEDVESGTGKYL 64
            KDSG+ WIG +P+ W V  +K   +     +  G    S                   L
Sbjct: 93  MKDSGIDWIGQVPEGWGVSKLKFTLEKASNNIKVGPFGSSLSGDAIRSSGKWVYNQRNVL 152

Query: 65  PKDGNSRQSDTSTVSI 80
             +     +  S    
Sbjct: 153 DNNFTETDTFISDAKW 168


>gi|298375506|ref|ZP_06985463.1| HsdS, type I site-specific deoxyribonuclease [Bacteroides sp.
           3_1_19]
 gi|298268006|gb|EFI09662.1| HsdS, type I site-specific deoxyribonuclease [Bacteroides sp.
           3_1_19]
          Length = 409

 Score = 88.3 bits (217), Expect = 2e-15,   Method: Composition-based stats.
 Identities = 66/412 (16%), Positives = 140/412 (33%), Gaps = 30/412 (7%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLED--VESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
             +       T + S +   +      D  +++  G+ +  +   +    +       G 
Sbjct: 2   TKLSSIADYVTDKISSNDIALREYVTTDCILQNKKGREIATNLPPQSCCLTRYQH---GD 58

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKD-VLPELLQGWLLSIDVTQRIEAICEGA 144
           +L   + PYL+K   AD DG  S+  LV + K+   P  L   LL       +    +G+
Sbjct: 59  VLIANIRPYLKKVWFADIDGGASSDVLVFRAKEGHSPSFLYAVLLQDSFFDYVMQGAKGS 118

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
            M   D + I    MP    +E+ +    +      +D  I    +  + L+   + L  
Sbjct: 119 KMPRGDKEQILRYEMPTLSCSEESIGTFFLN-----LDQKIRLNEQINQNLEAMAKQLYD 173

Query: 205 YIVTKGLNPD---VKMKDSGIEWVG------LVPDHWEVKPFFALVTELNR-----KNTK 250
           Y   +   PD      K SG E V        +P  WE K    +    N       N +
Sbjct: 174 YWFVQFDFPDENGRPYKSSGGEMVWNEKLKRKIPASWENKNIEDIADVYNGATPSTINEQ 233

Query: 251 LIESNILSLSYGNIIQ-KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
               +I+ ++  ++   K +    G +  S   Y       +    I + +       + 
Sbjct: 234 NYGGDIVWITPKDLSDQKQKFVYQGERNISQAGYNSCSTHLLPPNTILMSSRAPIGLLSI 293

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
                     + +  P   + +   +   +  + ++         + +  EDV + P+L 
Sbjct: 294 AKTELCTNQGFKSFVPKAENISTYLYYYLNIHIKQIEQLGTGTTFKEVSREDVLKFPILK 353

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           P       I ++   + + ++     I++    L ++R   +   + GQ+ +
Sbjct: 354 PS----DAILDLWEKQVSALNNKQFVIQKENEFLTKQRDELLPLLMNGQVSV 401



 Score = 61.0 bits (146), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 30/164 (18%), Positives = 56/164 (34%), Gaps = 17/164 (10%)

Query: 10  YKDSGVQ--WIGA----IPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVE 57
           YK SG +  W       IP  W+   I+    +  G T  +      G DI++I  +D+ 
Sbjct: 189 YKSSGGEMVWNEKLKRKIPASWENKNIEDIADVYNGATPSTINEQNYGGDIVWITPKDLS 248

Query: 58  SGTGKYL---PKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVL 114
               K++    ++ +    ++ +  +     IL     P      IA  +   +  F   
Sbjct: 249 DQKQKFVYQGERNISQAGYNSCSTHLLPPNTILMSSRAPI-GLLSIAKTELCTNQGFKSF 307

Query: 115 QPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIP 158
            PK         +       ++IE +  G T      + +   P
Sbjct: 308 VPKA-ENISTYLYYYLNIHIKQIEQLGTGTTFKEVSREDVLKFP 350


>gi|167856385|ref|ZP_02479111.1| Type I restriction-modification system specificity subunit
           [Haemophilus parasuis 29755]
 gi|167852491|gb|EDS23779.1| Type I restriction-modification system specificity subunit
           [Haemophilus parasuis 29755]
          Length = 236

 Score = 88.3 bits (217), Expect = 2e-15,   Method: Composition-based stats.
 Identities = 32/195 (16%), Positives = 74/195 (37%), Gaps = 14/195 (7%)

Query: 231 HWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGE 290
            WE +P   +   +  KN +  ++ +   +   +I +L+  N  +  +    Y ++  G+
Sbjct: 29  GWENRPLSTVFNRITLKNKENNQNVLTISAQYGLISQLDFFNKSVSAKDITGYYLLHKGD 88

Query: 291 IVFRFIDLQNDKRS-LRSAQVMERGIITSAYMAVKPHGIDSTY---LAWLMRSYDLCKVF 346
             +            ++  ++ ++G++++ Y+  K     S Y         +       
Sbjct: 89  FAYNKSYSNGYPYGAIKPLKLYDKGVVSTLYICFKLKESYSNYGNFFEHYFEAGVQNNDI 148

Query: 347 YAMGS-GLRQS--LK---FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
             +   G R    L     E    + VL+P  +EQ  I + +    + +D L+E  EQ +
Sbjct: 149 GKVAQEGARNHGLLNIGIQEFFNEVNVLIPSFEEQQKIADCL----SSLDELIELQEQKL 204

Query: 401 VLLKERRSSFIAAAV 415
             LK+ +   +    
Sbjct: 205 AALKQHKKGLMQQLF 219



 Score = 57.9 bits (138), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 31/206 (15%), Positives = 67/206 (32%), Gaps = 11/206 (5%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W+  P+       T +  E+ ++++ I  +        +  K  +++  D +   +  K
Sbjct: 29  GWENRPLSTVFNRITLKNKENNQNVLTISAQYGLISQLDFFNKSVSAK--DITGYYLLHK 86

Query: 84  GQILYGKLGPYLRKAIIADF-----DGICSTQFLVLQPKDVLPELLQGWLLSID----VT 134
           G   Y K                   G+ ST ++  + K+        +    +      
Sbjct: 87  GDFAYNKSYSNGYPYGAIKPLKLYDKGVVSTLYICFKLKESYSNYGNFFEHYFEAGVQNN 146

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
              +   EGA        GI      +  L      ++KI      +D LI  + + +  
Sbjct: 147 DIGKVAQEGARNHGLLNIGIQEFFNEVNVLIPSFEEQQKIADCLSSLDELIELQEQKLAA 206

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDS 220
           LK+ K+ L+  +     +     + S
Sbjct: 207 LKQHKKGLMQQLFPSHNDLQASKQAS 232


>gi|117676103|ref|YP_863679.1| restriction modification system DNA specificity subunit [Shewanella
           sp. ANA-3]
 gi|117614927|gb|ABK50380.1| restriction modification system DNA specificity domain [Shewanella
           sp. ANA-3]
          Length = 405

 Score = 88.3 bits (217), Expect = 2e-15,   Method: Composition-based stats.
 Identities = 51/398 (12%), Positives = 125/398 (31%), Gaps = 21/398 (5%)

Query: 24  HWKVVPIKRFTKLNTGRTSE---SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
            W+ + + + T +  G       +   ++++  E++ S T +   K  + +         
Sbjct: 18  EWQSLSLDKITDVYDGTHQTPAYTKNGVMFLSAENIRSLTSQ---KFISEKAFKEEFKVY 74

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
             K  +L  ++G      ++   D       L L     L        ++    Q+   +
Sbjct: 75  PQKNDVLMTRIGDVGTANVVETDDDKAYYVTLALLKYKQLSPYFLKSSIASPYVQKDIWL 134

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
                ++      +  I              +KI     ++D LI +  +  + L   K+
Sbjct: 135 RT-LHIAFPKKINMNEIKQVNVNCPTNSKESDKIGNYFQKLDNLINQYQQKHDKLSNIKK 193

Query: 201 ALVSYIVTKGLN--PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL---IESN 255
           A++  +  K     P+++ K    EW        +V       T     +      I+  
Sbjct: 194 AMLEKMFPKQGETIPEIRFKGFSGEW-DEKELGTDVADIVGGGTPSTSISEFWNGDIDWY 252

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
             +    N+  +   + +     +  + +I+  G      +   +       A + + G 
Sbjct: 253 SPTEIGSNVYAEGSQKKITALGLNSSSAKILPAG----NTVLFTSRAGIGDMAILTKPGT 308

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
               + +         Y  +                     +  + + R+ +LVP   EQ
Sbjct: 309 TNQGFQSFVVKEGFVPYFIYSAGKQIKEYALKHASGSTFLEISGKQLGRMKILVPCETEQ 368

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
             I N       ++D L+++ +Q I  L   + + ++ 
Sbjct: 369 TAIGNY----FQKLDALIKQHQQQITKLNNIKQACLSK 402


>gi|241888736|ref|ZP_04776043.1| putative type I restriction enzyme specificity protein [Gemella
           haemolysans ATCC 10379]
 gi|241864759|gb|EER69134.1| putative type I restriction enzyme specificity protein [Gemella
           haemolysans ATCC 10379]
          Length = 621

 Score = 87.9 bits (216), Expect = 2e-15,   Method: Composition-based stats.
 Identities = 50/407 (12%), Positives = 115/407 (28%), Gaps = 55/407 (13%)

Query: 26  KVVPIKRFTKLNT-----GRTSESGKDIIY---------IGLEDVESGTGKYLPKDGNSR 71
           +   +    ++ T     G      +++ Y         I  +D++S   K         
Sbjct: 14  EWKKLGEVVEIVTDYVAAGSFKTIAENVKYLQKEGYAQLIRTKDIKSDFKKVDDFVYVDE 73

Query: 72  QSDTSTVSI-FAKGQILYGKLGPYLRKAIIADF-----DGICSTQFLVLQPKDVLPELLQ 125
            +      +   K  I+   +G       I        + +     + L+ K    + L 
Sbjct: 74  NAFRFLYRVNLDKECIILPNIGNCGEVYYIYPEKLPSDNNVLGPNAIYLRSKTQSNKYLY 133

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
                    + +E I         +   +  + +PIP L  Q  + E +   T  +  L 
Sbjct: 134 YLFHEYFFQKSLEKITSKVGQGKFNKTDLKELLIPIPSLETQEKMVEILDKFTSYVTELQ 193

Query: 186 TERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN 245
           +E     +     +  L+S         ++                  +     +VT  N
Sbjct: 194 SELQSRTKQYTYYRDKLLSEEYLIKATKEM-----------EEDRRLNIVQLEEVVTIKN 242

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
            K+ K ++   + +        +          +    +      + +      N     
Sbjct: 243 GKDWKKLDQGDIPVYGSGGEMGVFVDKYSYDKPTVLIPRKGSIDNVFYLDKPFWNVDTIF 302

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRL 365
            +     + I                Y  + +  YDL K+     +  R SL    + +L
Sbjct: 303 HTEIDESKLI--------------PKYFYYFIEHYDLNKLSD---NSTRPSLTQSTLNKL 345

Query: 366 PVLVPPIKEQFDITNVINVETARIDVL-------VEKIEQSIVLLKE 405
            V +PP+  Q  I  +++     +          +E+ ++     +E
Sbjct: 346 KVPLPPLSLQNKIVRILDKFQVLLADTKGLIPVEIEQRQKQYEYYRE 392



 Score = 76.0 bits (185), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 43/396 (10%), Positives = 106/396 (26%), Gaps = 32/396 (8%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
            +V ++    +  G+  +                 G                   + K  
Sbjct: 230 NIVQLEEVVTIKNGKDWKKLD-------------QGDIPVYGSGGEMGVFVDKYSYDKPT 276

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           +L  + G       +        T F     +  L      + +       +  + + +T
Sbjct: 277 VLIPRKGSIDNVFYLDKPFWNVDTIFHTEIDESKLIPKYFYYFIEHY---DLNKLSDNST 333

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL---ITERIRFIELLKEKKQ-A 201
                   +  + +P+PPL+ Q  I   +    V +      I   I   +   E  +  
Sbjct: 334 RPSLTQSTLNKLKVPLPPLSLQNKIVRILDKFQVLLADTKGLIPVEIEQRQKQYEYYREK 393

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVP----------DHWEVKPFFALVTELNRKNTKL 251
           L+++ V      +     S   +  L            D         +    + + +  
Sbjct: 394 LLTFDVEYSRTNERTFIISNTYYNILQEAAKYVGIILEDKVIEYRLRDIAEYSSSRISAE 453

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
                  +   N+++    R          T    +  +I+   I     K         
Sbjct: 454 ELDTFNYVGVDNLLKDKYGREDSTYVPETGTSIKYEKDDILIGNIRPYLRKIWYSDRTGG 513

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVP 370
             G +  A        +DS YL   +      +       G        + +      +P
Sbjct: 514 TNGDV-LAISVKDKKLVDSRYLYHALADERFFEYNIKYSKGAKMPRGDKKKIMEYHFPIP 572

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
           P+  Q  + ++++     ++ + E + + I   +++
Sbjct: 573 PLYVQQHVVSILDKFYTLVNDIKEGLPKEIEQRQKQ 608



 Score = 70.2 bits (170), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 17/169 (10%), Positives = 57/169 (33%), Gaps = 2/169 (1%)

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
           +     +         +  +  +   +      +     +D   I+   I    +   + 
Sbjct: 45  QKEGYAQLIRTKDIKSDFKKVDDFVYVDENAFRFLYRVNLDKECIILPNIGNCGEVYYIY 104

Query: 307 SAQVM-ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKR 364
             ++  +  ++    + ++     + YL +L   Y   K    + S + +      D+K 
Sbjct: 105 PEKLPSDNNVLGPNAIYLRSKTQSNKYLYYLFHEYFFQKSLEKITSKVGQGKFNKTDLKE 164

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           L + +P ++ Q  +  +++  T+ +  L  +++         R   ++ 
Sbjct: 165 LLIPIPSLETQEKMVEILDKFTSYVTELQSELQSRTKQYTYYRDKLLSE 213


>gi|54024731|ref|YP_118973.1| putative restriction-modification system specificity determinant
           [Nocardia farcinica IFM 10152]
 gi|54016239|dbj|BAD57609.1| putative restriction-modification system specificity determinant
           [Nocardia farcinica IFM 10152]
          Length = 394

 Score = 87.9 bits (216), Expect = 2e-15,   Method: Composition-based stats.
 Identities = 58/411 (14%), Positives = 121/411 (29%), Gaps = 34/411 (8%)

Query: 23  KHWKVVPIKRFTKLNTGRT--SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
            +W +VP+        G+T    + +   ++ +     G G      G+ +         
Sbjct: 2   SNWPLVPLGDILA-QDGQTERIANTESEKFLTIR--LYGKGLVERSIGSGKTPKPFVGYR 58

Query: 81  FAKGQILYGKLGPYLRKAIIADFD---GICS---TQFLVLQPKDVLPELLQGWLLSIDVT 134
              GQ +Y ++        +   +    +CS    +F V Q +     LL+         
Sbjct: 59  VKPGQFVYSRIDARNGAYGVVPDELDGAVCSKDFPKFDVDQQRADENYLLRLVQTRDFYR 118

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           +  +             +    + +P+PP+ EQ  I   +               R    
Sbjct: 119 KVQDLSFGATNRQRVKEEEFLRLRIPLPPIEEQRRIAAILDHADALRAKRREALARLD-- 176

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
             E  Q++    +    +P    ++     VG   D +E         +       L  S
Sbjct: 177 --ELTQSI---FIDMFGDPVANERNWPFGTVGDFVDRFEGGKNIVGSGDSTDGYRVLKVS 231

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR-SAQVMER 313
            + SLSY     K                 IV  G+++F   +      +     +   R
Sbjct: 232 AVTSLSYRESESKPLPEGYVPPSN-----HIVQRGDLLFSRANTSELVGATALVTETDGR 286

Query: 314 GIITSAYMAVKPHGIDSTYLAW---LMRSYDLCKVFYAMG---SGLRQSLKFEDVKRLPV 367
             +       K     +    +   L +     +         SG  +++    V  +P+
Sbjct: 287 TALPDKLWRFKWKNRTAAVPGYVAALFQRPSFRQTISDRATGSSGSMKNISQSKVLSIPL 346

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            +PP++ Q             +D +      ++  L    +S  + A  G+
Sbjct: 347 GIPPVELQEKF----ESVRVEVDSMKNSNRIALAELDALFASLQSRAFRGE 393


>gi|227834295|ref|YP_002836002.1| hypothetical protein cauri_2473 [Corynebacterium aurimucosum ATCC
           700975]
 gi|227455311|gb|ACP34064.1| hypothetical protein cauri_2473 [Corynebacterium aurimucosum ATCC
           700975]
          Length = 378

 Score = 87.9 bits (216), Expect = 3e-15,   Method: Composition-based stats.
 Identities = 52/409 (12%), Positives = 119/409 (29%), Gaps = 53/409 (12%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
            W +VP+ +  +  +G T  + K      +I ++   D+         K         S 
Sbjct: 8   DWPMVPLPKLVQFQSGGTPSTKKPEYYNGEIPWVTSADISESHCIDAKKFITEAAIRNSA 67

Query: 78  VSIFAKGQI-LYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
             I   G + L  ++G  + K+ + +     S     L                      
Sbjct: 68  ACIAQPGSVLLVTRIG--VGKSALVEAPVSFSQDVTNLNDLSEECNARYLLHFLQSARSF 125

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL-L 195
            ++   G T+       + ++ +P+PPL EQ  I   +      I    ++      +  
Sbjct: 126 FQSRSRGVTIKGIKRTDLNDLLVPLPPLDEQRRIAAILDEVESAIVAAKSQLSELSAIPF 185

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
               +      +++ ++    + D   E    +P                         +
Sbjct: 186 WMGDRKFELVALSELVDIRSSLVDPTSEPYMDMP-------------------------H 220

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
           I   +  +           ++            G+I++  I    +K S+ +    +   
Sbjct: 221 IAPNNLSSGSDDFVGVKSAVEDRVTSGKYAFQAGDILYSKIRPYLNKVSIAAY---DGVC 277

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPPIKE 374
               Y  V  +   + ++ W +RS        +         +  + +    V       
Sbjct: 278 SADMYALVPRNRTQTDWIVWQLRSSRFLAYAASSSGRASIPKINRKALGAFKV------- 330

Query: 375 QFDITN--VINVETAR--IDVLVEK-IEQSIVLLKERRSSFIAAAVTGQ 418
              I    V+        +   +E  + + + LL+E +SS    A  G+
Sbjct: 331 --QIVEPAVLEQFNREQNVKKTIENSVRKKLYLLQELQSSLSTRAFQGE 377


>gi|307268428|ref|ZP_07549806.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX4248]
 gi|306515235|gb|EFM83772.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX4248]
          Length = 407

 Score = 87.9 bits (216), Expect = 3e-15,   Method: Composition-based stats.
 Identities = 53/405 (13%), Positives = 142/405 (35%), Gaps = 34/405 (8%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + W++  +K  T+   G  ++   D+  + +   +    +     GN    +    ++  
Sbjct: 18  EDWELCKLKEITERVKG--NDGRMDLPTLTISASQGWLNQKDRFSGNIAGKEQKNYTLLL 75

Query: 83  KGQILYG----KLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           K ++ Y     KL  Y     +  ++     +           +      +        E
Sbjct: 76  KNELSYNHGNSKLAKYGAVFSLKTYEEALVPRVYHSFKSTKNSDPDFLEYIFATKKPDKE 135

Query: 139 ------AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
                 +      + + ++    NI + IP + EQ  I   +     +ID  I    R +
Sbjct: 136 LGKLVSSGARMDGLLNINYDDFSNIKINIPHVHEQKKISNLL----RKIDDTIALHQRKL 191

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFA--LVTELNRKNTK 250
           + LKE K+A +  +  K      +++ +  E      D W++        + +   +  +
Sbjct: 192 DQLKELKKAYLQLMFPKKDETVPQVRFADFE------DDWQLCKLGDVVEIFDGTHQTPR 245

Query: 251 LIESNILSLSYGNIIQKLETRNMGLK-PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
             +S +  +S  NI      + +  +  E   + +    G+I+   I    D  +++  +
Sbjct: 246 YTDSGVKFVSVENIATLETKKYITHEAYEKEYSKKRAKKGDILMTRIG---DIGTMKVIE 302

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPV 367
             E          +K    +  +L++++ S ++ +  +         + +   ++ ++ +
Sbjct: 303 TDEPLAYYVTLALLKAKETNPYFLSFIISSPEIQRNIWKRTLHIAFPKKINLGEINQVEM 362

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
            +   +EQ  I +        +D  +   +  +  LK  + S++ 
Sbjct: 363 KITIFEEQDKIGD----LFTNLDDAIILNQNKLNQLKSLKKSYLQ 403


>gi|297587127|ref|ZP_06945772.1| restriction modification system DNA specificity domain protein
           [Finegoldia magna ATCC 53516]
 gi|297575108|gb|EFH93827.1| restriction modification system DNA specificity domain protein
           [Finegoldia magna ATCC 53516]
          Length = 439

 Score = 87.9 bits (216), Expect = 3e-15,   Method: Composition-based stats.
 Identities = 64/432 (14%), Positives = 136/432 (31%), Gaps = 43/432 (9%)

Query: 23  KHWKVVPIKRFTKLNTGRTS----ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD---- 74
           ++++   +K  + +++ +         K I +   +++          +      +    
Sbjct: 5   ENFEKYKLKELSDISSSKRIFASEYKEKGIPFYRSKEIIEKQSNKRISNKLFISKERYIE 64

Query: 75  -TSTVSIFAKGQILYGKLGPYLRKAIIADFDGIC--STQFLVLQPKDVLPELLQGWLLSI 131
             +   + + G +L   +G      ++ + +              K +    L  W  S 
Sbjct: 65  IKNKYGVPSCGDLLLTSVGTLGVPYLVKNEEFYFKDGNLTWFRNLKQINKSYLYYWFFSP 124

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
           +   +I +   G+T        + N  + IP  A Q  I   + +   +I+         
Sbjct: 125 EAKYQITSKQIGSTQKALTISNLNNFEILIPTRAIQEKIVTILKSLDSKIE---INNKII 181

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
             L  + +    S+ V      D    +S    +G++P+ WEVKP   L+          
Sbjct: 182 SNLESQAQAIFKSWFVDFEPFQDGNFVES---ELGMIPEGWEVKPIGELLDFDIGGGWGK 238

Query: 252 IESNILSLSYGNIIQKLET----------RNMGLKPESYETYQIVDPGEIVFRFIDLQND 301
            +     L    +I+  +            N     ES    + +  G+I+F       +
Sbjct: 239 EKPQEKYLIPAYVIRGTDIPDSKFGYFNMDNYRYHTESNLKNRRLQVGDIIFESSGGSTN 298

Query: 302 KRSLRSAQVME--------RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF---YAMG 350
           +   R   V +          I  S    ++ +     +  + +  Y         Y + 
Sbjct: 299 QDLGRMLLVTDELLNEYNNDVICASFCKLIRINDSSIRWFVYNLLEYSYRNKILTKYEVK 358

Query: 351 SGLRQSLKFEDVKR-LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
           S    +  F   K    + VP  K         NV    I+ L  K+      L E R +
Sbjct: 359 STGISNFSFTIFKDDFKIAVPDRKTMER---YFNVTGNNIN-LSAKLGIQNTKLAELRDA 414

Query: 410 FIAAAVTGQIDL 421
            +   + G+ID+
Sbjct: 415 LLPKLMAGEIDV 426



 Score = 65.6 bits (158), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 17/189 (8%), Positives = 57/189 (30%), Gaps = 6/189 (3%)

Query: 215 VKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMG 274
           ++ K++  ++                     +         I+       I      +  
Sbjct: 1   MEFKENFEKYKLKELSDISSSKRIFASEYKEKGIPFYRSKEIIEKQSNKRISNKLFISKE 60

Query: 275 LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
              E    Y +   G+++   +        +++ +   +    +         I+ +YL 
Sbjct: 61  RYIEIKNKYGVPSCGDLLLTSVGTLGVPYLVKNEEFYFKD--GNLTWFRNLKQINKSYLY 118

Query: 335 WLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI---D 390
           +   S +      +      +++L   ++    +L+P    Q  I  ++    ++I   +
Sbjct: 119 YWFFSPEAKYQITSKQIGSTQKALTISNLNNFEILIPTRAIQEKIVTILKSLDSKIEINN 178

Query: 391 VLVEKIEQS 399
            ++  +E  
Sbjct: 179 KIISNLESQ 187



 Score = 39.8 bits (91), Expect = 0.98,   Method: Composition-based stats.
 Identities = 17/83 (20%), Positives = 30/83 (36%), Gaps = 8/83 (9%)

Query: 18  IGAIPKHWKVVPIKRFTKLNT----GRTSESGKDII---YIGLEDVESGTGKYLPKDGNS 70
           +G IP+ W+V PI      +     G+     K +I    I   D+      Y   D   
Sbjct: 212 LGMIPEGWEVKPIGELLDFDIGGGWGKEKPQEKYLIPAYVIRGTDIPDSKFGYFNMDNYR 271

Query: 71  RQSDTS-TVSIFAKGQILYGKLG 92
             ++++        G I++   G
Sbjct: 272 YHTESNLKNRRLQVGDIIFESSG 294


>gi|91772548|ref|YP_565240.1| restriction modification system DNA specificity subunit
           [Methanococcoides burtonii DSM 6242]
 gi|91711563|gb|ABE51490.1| Restriction modification system DNA specificity subunit
           [Methanococcoides burtonii DSM 6242]
          Length = 511

 Score = 87.9 bits (216), Expect = 3e-15,   Method: Composition-based stats.
 Identities = 29/205 (14%), Positives = 70/205 (34%), Gaps = 6/205 (2%)

Query: 216 KMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL 275
              ++ +  +  +P+ +       L    + K+T   ES            +    +   
Sbjct: 272 PFTETELAELPTLPNGYGWTRLGELHHLKSDKHTGSGESLFYIGLEHISKNQGTLTDEVK 331

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI-DSTYLA 334
                        G++++  +    +K  L +    E G+ ++  +  +     D  Y  
Sbjct: 332 IDVINTVKNSFKKGDLLYGKLRPYLNKVYLAN----EDGVCSTDILVFESIPSLDLNYSK 387

Query: 335 WLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
           +   SY          SG+    +  + ++  P  +  ++EQ  I   I    +  D + 
Sbjct: 388 YYFLSYKFVNDMTHNSSGVNLPRVSTKYLQEYPFPLFSLEEQQAIVTEIETRLSVCDKVE 447

Query: 394 EKIEQSIVLLKERRSSFIAAAVTGQ 418
           + IE ++ + +  R S +  A  G+
Sbjct: 448 QDIEDNLKIAEALRQSILKKAFEGK 472



 Score = 86.4 bits (212), Expect = 7e-15,   Method: Composition-based stats.
 Identities = 25/178 (14%), Positives = 55/178 (30%), Gaps = 11/178 (6%)

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPE------SYETYQIVDPGEIVFRFIDLQN 300
           K  +    +IL ++  ++    E      +           + +++  G ++F       
Sbjct: 35  KVPEYWGEDILWITPADLSGYSEKYIYKGRKSITHLGLKNSSARLIPKGSVLFSSRAPIG 94

Query: 301 DKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFE 360
                  A           +  + P    +    +                   + L  +
Sbjct: 95  Y-----IAIAGNELCTNQGFKTLIPSEALNRDFLYYYLKSIKQLAEGRASGTTFKELSGK 149

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
               LP+ VPP+ EQ  I + I    + +D  +  ++ +   LK  R S +  A  G+
Sbjct: 150 AFAELPLCVPPLPEQRAIVSKIEQLFSELDNGIANLKLAQQQLKVYRQSVLKKAFEGE 207



 Score = 79.1 bits (193), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 45/201 (22%), Positives = 82/201 (40%), Gaps = 3/201 (1%)

Query: 12  DSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSR 71
           ++ +  +  +P  +    +     L + + + SG+ + YIGLE +    G    +     
Sbjct: 275 ETELAELPTLPNGYGWTRLGELHHLKSDKHTGSGESLFYIGLEHISKNQGTLTDEVKIDV 334

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP-ELLQGWLLS 130
            +       F KG +LYGKL PYL K  +A+ DG+CST  LV +    L     + + LS
Sbjct: 335 INTVKNS--FKKGDLLYGKLRPYLNKVYLANEDGVCSTDILVFESIPSLDLNYSKYYFLS 392

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
                 +     G  +     K +   P P+  L EQ  I  +I       D +  +   
Sbjct: 393 YKFVNDMTHNSSGVNLPRVSTKYLQEYPFPLFSLEEQQAIVTEIETRLSVCDKVEQDIED 452

Query: 191 FIELLKEKKQALVSYIVTKGL 211
            +++ +  +Q+++       L
Sbjct: 453 NLKIAEALRQSILKKAFEGKL 473



 Score = 76.4 bits (186), Expect = 8e-12,   Method: Composition-based stats.
 Identities = 44/215 (20%), Positives = 79/215 (36%), Gaps = 14/215 (6%)

Query: 16  QWIGAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPK--- 66
           + +G     W    +  F ++ +G T ++      G+DI++I   D+   + KY+ K   
Sbjct: 9   EKLGD---DWVKGVLSDFGQVVSGGTPKTKVPEYWGEDILWITPADLSGYSEKYIYKGRK 65

Query: 67  DGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQG 126
                    S+  +  KG +L+    P    AI  +     +  F  L P + L      
Sbjct: 66  SITHLGLKNSSARLIPKGSVLFSSRAPIGYIAIAGNEL-CTNQGFKTLIPSEALNR-DFL 123

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           +     + Q  E    G T      K    +P+ +PPL EQ  I  KI      +D  I 
Sbjct: 124 YYYLKSIKQLAEGRASGTTFKELSGKAFAELPLCVPPLPEQRAIVSKIEQLFSELDNGIA 183

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSG 221
                 + LK  +Q+++       L    + + + 
Sbjct: 184 NLKLAQQQLKVYRQSVLKKAFEGELTRQWREQQTD 218


>gi|293384341|ref|ZP_06630226.1| putative restriction endonuclease S subunit [Enterococcus faecalis
           R712]
 gi|291078333|gb|EFE15697.1| putative restriction endonuclease S subunit [Enterococcus faecalis
           R712]
          Length = 394

 Score = 87.9 bits (216), Expect = 3e-15,   Method: Composition-based stats.
 Identities = 62/404 (15%), Positives = 155/404 (38%), Gaps = 36/404 (8%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           +W++  +K  T+   G  ++   D+  + +   +    +     GN    +    ++  K
Sbjct: 8   NWELCKLKEITERVKG--NDGRMDLPTLTISASQGWLNQKDRFSGNIAGKEQKNYTLLLK 65

Query: 84  GQILYG----KLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE- 138
            ++ Y     KL  Y     +  ++     +           +      +        E 
Sbjct: 66  NELSYNHGNSKLAKYGAVFSLKTYEEALVPRVYHSFKSTKNSDPDFLEYIFATKKPDKEL 125

Query: 139 -----AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
                +      + + ++    NI + IP + EQ  I   +     +ID +IT   R ++
Sbjct: 126 GKLVSSGARMDGLLNINYDDFSNIKINIPHVHEQKKISNLL----RKIDDIITLHQRKLD 181

Query: 194 LLKEKKQALVSYIVTKGLNPDVK-MKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
            LKE K+A +  +       + K  K    ++ G     W+ +     + + ++K+T   
Sbjct: 182 QLKELKKAYLQLMFVSMNTKNNKVPKLRFADFEGD----WKQRKLGDFLEDFSKKSTIEN 237

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
           E  ILS +   +    E R   +   S   Y+I+D G++V    +L     ++     + 
Sbjct: 238 EYIILSSTNNGM----EIREGRVSGNSNLGYKIIDDGDLVLSPQNLWLGNINI---NNIG 290

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM----GSGLRQSLKFEDVKRLPVL 368
           +G+++ +Y   K   ++  +L   +R+  +   +        S +R++L+ +   ++ + 
Sbjct: 291 QGLVSPSYKTFKIIDLNKEFLNPQLRTNKMLDQYKNASTQGASIVRRNLELDLFYQIRIF 350

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           +P  +EQ  I     +   +++  +   +  +  +K  + +++ 
Sbjct: 351 IPKNEEQKQIG----LLFRKLNESISLHQSKLDSIKYLKKAYLQ 390



 Score = 43.6 bits (101), Expect = 0.057,   Method: Composition-based stats.
 Identities = 24/185 (12%), Positives = 63/185 (34%), Gaps = 8/185 (4%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            WK   +  F +  + +++   + II      + S       ++G    +      I   
Sbjct: 216 DWKQRKLGDFLEDFSKKSTIENEYII------LSSTNNGMEIREGRVSGNSNLGYKIIDD 269

Query: 84  GQILYGKLGPYLRKAIIADF-DGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           G ++      +L    I +   G+ S  +   +  D+  E L   L +  +  + +    
Sbjct: 270 GDLVLSPQNLWLGNININNIGQGLVSPSYKTFKIIDLNKEFLNPQLRTNKMLDQYKNAST 329

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
               S        ++   I     +   +++I     +++  I+     ++ +K  K+A 
Sbjct: 330 QGA-SIVRRNLELDLFYQIRIFIPKNEEQKQIGLLFRKLNESISLHQSKLDSIKYLKKAY 388

Query: 203 VSYIV 207
           +  + 
Sbjct: 389 LQNMF 393


>gi|77164710|ref|YP_343235.1| restriction modification system DNA specificity subunit
           [Nitrosococcus oceani ATCC 19707]
 gi|76883024|gb|ABA57705.1| Restriction modification system DNA specificity domain
           [Nitrosococcus oceani ATCC 19707]
          Length = 547

 Score = 87.9 bits (216), Expect = 3e-15,   Method: Composition-based stats.
 Identities = 31/199 (15%), Positives = 69/199 (34%), Gaps = 5/199 (2%)

Query: 224 WVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY----GNIIQKLETRNMGLKPES 279
           WV                     K TK  + ++  +      G  +   E   +  +   
Sbjct: 9   WVFCRFGDIARIRNGYAFRSSAFKKTKTHDCDVPLIRQSQLIGTAVNIGEAVYLPAEYLE 68

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
                +++ G+I+             ++     +   T          +DS +    + S
Sbjct: 69  RFAQYVINKGDILIGMSGAIGKVCRYKNGFPALQNQRTGKIEVFDESQMDSRFFGLYLSS 128

Query: 340 YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
            +   +  A G  ++ ++  +D++ LP+ +PP  EQ  I   I    + +D  +E ++ +
Sbjct: 129 IEGELIRQAKGMAVQ-NISAKDIEALPLGLPPYNEQQRIVAKIEELFSELDKGIESLKTA 187

Query: 400 IVLLKERRSSFIAAAVTGQ 418
              LK  R + +  A  G+
Sbjct: 188 REQLKVYRQAVLKHAFEGK 206



 Score = 75.6 bits (184), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 22/158 (13%), Positives = 57/158 (36%), Gaps = 4/158 (2%)

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
           +   + R++ L     + Y++     +  R     N    +   +          ++  +
Sbjct: 325 VDSSDLRSIKLDATEIQKYELSRNDLLCIRVNGSPNLVGRMILFKHDNVMAYCDHFIRFR 384

Query: 325 PHG--IDSTYLAWLMRSYDLCKVF--YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
                +  +Y+  L  +  + +      + S  + ++    +  L +    + EQ  I +
Sbjct: 385 FPQGIVLPSYIQMLFDTQTVRRYIELNKVSSAGQNTVSQTTISALAIPYCSLMEQKIIVS 444

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            +  +   I  +  +IE++   LK  R S +  A +GQ
Sbjct: 445 RLEEQLTSISAVKVEIEENFQRLKSLRQSILKKAFSGQ 482



 Score = 66.4 bits (160), Expect = 8e-09,   Method: Composition-based stats.
 Identities = 41/213 (19%), Positives = 66/213 (30%), Gaps = 24/213 (11%)

Query: 22  PKHWKVVPIKRFTKLNTG---------RTSESGKDIIYIGL-----EDVESGTGKYLPKD 67
           P  W         ++  G         +T     D+  I         V  G   YLP +
Sbjct: 6   PTGWVFCRFGDIARIRNGYAFRSSAFKKTKTHDCDVPLIRQSQLIGTAVNIGEAVYLPAE 65

Query: 68  GNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQ----FLVLQPKDVLPEL 123
                 +     +  KG IL G  G   +     +       Q      V     +    
Sbjct: 66  Y----LERFAQYVINKGDILIGMSGAIGKVCRYKNGFPALQNQRTGKIEVFDESQMDSRF 121

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
              +L SI+    +    +G  + +   K I  +P+ +PP  EQ  I  KI      +D 
Sbjct: 122 FGLYLSSIEG--ELIRQAKGMAVQNISAKDIEALPLGLPPYNEQQRIVAKIEELFSELDK 179

Query: 184 LITERIRFIELLKEKKQALVSYIVTKGLNPDVK 216
            I       E LK  +QA++ +     L    +
Sbjct: 180 GIESLKTAREQLKVYRQAVLKHAFEGKLTAQWR 212



 Score = 55.6 bits (132), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 33/207 (15%), Positives = 66/207 (31%), Gaps = 12/207 (5%)

Query: 22  PKHWKVVPIKRFTK-LNTGRTS---ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           P  W  + ++   +    G       SGK I  I L D+++              +    
Sbjct: 282 PNGWISIQLRELFESTQNGLAKRQGTSGKPIPVIRLADIKNQEVDSSDLRSIKLDATEIQ 341

Query: 78  VSIFAKGQILYGKLGPYLRKAIIA------DFDGICSTQFLVLQPKDV-LPELLQGWLLS 130
               ++  +L  ++                +    C        P+ + LP  +Q    +
Sbjct: 342 KYELSRNDLLCIRVNGSPNLVGRMILFKHDNVMAYCDHFIRFRFPQGIVLPSYIQMLFDT 401

Query: 131 IDVTQRIE-AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
             V + IE      A  +      I  + +P   L EQ +I  ++  +   I  +  E  
Sbjct: 402 QTVRRYIELNKVSSAGQNTVSQTTISALAIPYCSLMEQKIIVSRLEEQLTSISAVKVEIE 461

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVK 216
              + LK  +Q+++    +  L P   
Sbjct: 462 ENFQRLKSLRQSILKKAFSGQLVPQDP 488


>gi|131021|sp|P17222|T1SP_ECOLX RecName: Full=Type-1 restriction enzyme EcoprrI specificity
           protein; Short=S.EcoprrI; AltName: Full=Type I
           restriction enzyme EcoprrI specificity protein; Short=S
           protein
 gi|42512|emb|CAA36526.1| unnamed protein product [Escherichia coli]
          Length = 401

 Score = 87.9 bits (216), Expect = 3e-15,   Method: Composition-based stats.
 Identities = 48/386 (12%), Positives = 109/386 (28%), Gaps = 45/386 (11%)

Query: 26  KVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           + +P+ +   L  G T    K       DI +  ++D+                      
Sbjct: 17  EWLPLSKVFNLRNGYTPSKTKKEFWANGDIPWFRMDDIRENGRILGSSLQKISSCAVKGG 76

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELL---QGWLLSIDVTQ 135
            +F +  IL          A+I     + + +F  L  K+   +       +     + +
Sbjct: 77  KLFPENSILISTSATIGEHALITVPH-LANQRFTCLALKESYADCFDIKFLFYYCFSLAE 135

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPP-------LAEQVLIREKIIAETVRIDTLITER 188
                   ++ +  D  G     +P P        LA Q  I   +   +     L  E 
Sbjct: 136 WCRKNTTMSSFASVDMDGFKKFLIPRPCPDNPEKSLAIQSEIVRILDKFSALTAELTAEL 195

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN 248
              + + K++       +++   +     + +  E                +    +   
Sbjct: 196 TAELSMRKKQYNYYRDQLLSFKEDEVEGKRKTLGE-------------IMKMRAGQHISA 242

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
             +IE    S  Y           +  K    E   I   G +      ++    +    
Sbjct: 243 HNIIERKEESYIYPCFGGNGIRGYVKEKSHDGEHLLIGRQGALCGNVQRMKGQFYATE-- 300

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVL 368
                     A +     GI+  +   ++ + +L +         +  L    ++ L + 
Sbjct: 301 ---------HAVVVSVMPGINIDWAFHMLTAMNLNQY---ASKSAQPGLAVGKLQELKLF 348

Query: 369 VPPIKEQFDITNVINVETARIDVLVE 394
           VP I+ Q  I  +++      + + E
Sbjct: 349 VPSIERQIYIAAILDKFDTLTNSITE 374



 Score = 52.1 bits (123), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 27/221 (12%), Positives = 62/221 (28%), Gaps = 22/221 (9%)

Query: 217 MKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK 276
           M    +EW+ L     +V       T    K       +I      +I +        L+
Sbjct: 11  MDGVEVEWLPLS----KVFNLRNGYTPSKTKKEFWANGDIPWFRMDDIRENGRILGSSLQ 66

Query: 277 PES---YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL 333
             S    +  ++     I+        +   +    +  +     A         D  +L
Sbjct: 67  KISSCAVKGGKLFPENSILISTSATIGEHALITVPHLANQRFTCLALKESYADCFDIKFL 126

Query: 334 AWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-------PIKEQFDITNVINVET 386
            +   S                S+  +  K+  +  P        +  Q +I  +++  +
Sbjct: 127 FYYCFSLA-EWCRKNTTMSSFASVDMDGFKKFLIPRPCPDNPEKSLAIQSEIVRILDKFS 185

Query: 387 ARIDVLVEKIEQSIVLLKE----RRSSFIA---AAVTGQID 420
           A    L  ++   + + K+     R   ++     V G+  
Sbjct: 186 ALTAELTAELTAELSMRKKQYNYYRDQLLSFKEDEVEGKRK 226


>gi|50122043|ref|YP_051210.1| subunit S of type I restriction-modification system [Pectobacterium
           atrosepticum SCRI1043]
 gi|49612569|emb|CAG76019.1| subunit S of type I restriction-modification system [Pectobacterium
           atrosepticum SCRI1043]
          Length = 551

 Score = 87.9 bits (216), Expect = 3e-15,   Method: Composition-based stats.
 Identities = 53/453 (11%), Positives = 136/453 (30%), Gaps = 62/453 (13%)

Query: 20  AIPKHWKVVPIKRFTK-LNTGRTSESGK--DIIYIGLEDVESGTGKYLPKDGNSRQS--D 74
            +P+ W+ V +   ++ +  G+  +  +   +  +  + V+    K       + +S   
Sbjct: 100 ELPEVWEWVRLSDISEYIQRGKGPKYAEHGSVKVVSQKCVQWSGFKLEQSRWITDESIHS 159

Query: 75  TSTVSIFAKGQILYGKLGPYL--RKAII---ADFDGICSTQFLVLQPKDVLPELLQGWLL 129
            +       G +L+   G      + I         +  +   +++      + +  ++ 
Sbjct: 160 YTKDRFLKDGDVLWNSTGAGGTAGRVIYLPVVKEKLVVDSHVTLIRTVRDNGKFISNYIS 219

Query: 130 SIDVTQRIEAICEGA------TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           +  + QR +              +  +   + +  +P PP  EQ  I +K        D 
Sbjct: 220 TYGIQQRFDPKHSNTLLSGTTNQAELNSSVVNSFLVPFPPQREQERINDKAAELMSLCDQ 279

Query: 184 LITERIRFIELLKEKKQALVSYIVT---------------KGLNPDVKMKDS-------- 220
           L  + +  ++  ++  + L++ +V                +  +     + S        
Sbjct: 280 LEQQSLTSLDAHQQLVETLLATLVDSQHAEELAENWARISQHFDTLFTTEASIDAIKQTI 339

Query: 221 --------GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG---NIIQKLE 269
                    IE           K            +    E+++  L  G       KL+
Sbjct: 340 LQLAVMGLLIESAEFSQRSHLKKYLSFGPKNGLSPSEVKYETDVKVLKLGATSYGYLKLQ 399

Query: 270 TRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM--AVKPHG 327
                      ++Y  +   +I+ +  +  N        +     +I    M        
Sbjct: 400 ETKYVDIDVKDKSYLFLKKNDILIQRGNSSNFVGCSLLIEEDFDDLIYPDLMMKIRTKDE 459

Query: 328 IDSTYLAWLMRSYDLCKVFYAM---GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
           +   Y    + S       ++     SG    +  + V+ +P+ VPP   Q  +   I  
Sbjct: 460 LLPEYAVLWLSSPFARDFMWSKMTGTSGTMPKISKKVVEEIPIAVPPFAVQNQLVIKIKE 519

Query: 385 ETARIDVLVEKIEQSIVLLKERRSSF-IAAAVT 416
                  L  +++        +++   +A A+T
Sbjct: 520 LFLLCGSLTSRLQSV------QKTQLHLADALT 546



 Score = 71.7 bits (174), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 32/211 (15%), Positives = 71/211 (33%), Gaps = 15/211 (7%)

Query: 220 SGIEWVGLVPDHWEVKPFFALV-TELNRKNTKLIESNILSLSYGNIIQKLETR------N 272
           S  E    +P+ WE      +       K  K  E   + +     +Q    +       
Sbjct: 93  SEDEKPFELPEVWEWVRLSDISEYIQRGKGPKYAEHGSVKVVSQKCVQWSGFKLEQSRWI 152

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQND-KRSLRSAQVMERGIITSAYMAVKPHGIDST 331
                 SY   + +  G++++          R +    V E+ ++ S    ++    +  
Sbjct: 153 TDESIHSYTKDRFLKDGDVLWNSTGAGGTAGRVIYLPVVKEKLVVDSHVTLIRTVRDNGK 212

Query: 332 YLAWLMRSYDLCKVF-------YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
           +++  + +Y + + F          G+  +  L    V    V  PP +EQ  I +    
Sbjct: 213 FISNYISTYGIQQRFDPKHSNTLLSGTTNQAELNSSVVNSFLVPFPPQREQERINDKAAE 272

Query: 385 ETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
             +  D L ++   S+   ++   + +A  V
Sbjct: 273 LMSLCDQLEQQSLTSLDAHQQLVETLLATLV 303



 Score = 37.1 bits (84), Expect = 5.4,   Method: Composition-based stats.
 Identities = 33/192 (17%), Positives = 55/192 (28%), Gaps = 13/192 (6%)

Query: 30  IKRFTKL--NTGRTSESGK---DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           +K++       G +    K   D+  + L     G  K              +     K 
Sbjct: 360 LKKYLSFGPKNGLSPSEVKYETDVKVLKLGATSYGYLKLQETKYVDIDVKDKSYLFLKKN 419

Query: 85  QILY---GKLGPYLRKAII---ADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
            IL              +I    D          +    ++LPE    WL S      + 
Sbjct: 420 DILIQRGNSSNFVGCSLLIEEDFDDLIYPDLMMKIRTKDELLPEYAVLWLSSPFARDFMW 479

Query: 139 AICEGA--TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           +   G   TM     K +  IP+ +PP A Q  +  KI    +   +L +      +   
Sbjct: 480 SKMTGTSGTMPKISKKVVEEIPIAVPPFAVQNQLVIKIKELFLLCGSLTSRLQSVQKTQL 539

Query: 197 EKKQALVSYIVT 208
               AL    + 
Sbjct: 540 HLADALTDAALN 551


>gi|89902765|ref|YP_525236.1| restriction endonuclease S subunits-like protein [Rhodoferax
           ferrireducens T118]
 gi|89347502|gb|ABD71705.1| Restriction endonuclease S subunits-like [Rhodoferax ferrireducens
           T118]
          Length = 412

 Score = 87.9 bits (216), Expect = 3e-15,   Method: Composition-based stats.
 Identities = 58/429 (13%), Positives = 129/429 (30%), Gaps = 56/429 (13%)

Query: 20  AIPKHWKVVPIKRFTKL---------NTGRTSESGKD-----IIYIGLEDVESGTGKYLP 65
            +P  W +V + +             N G     G D     I ++   D+ +G    + 
Sbjct: 11  QLPDGWSLVTVGQLVNEGVIAKPLDGNHGEIHPKGSDFVSDGIPFVMATDINAGKVDLVN 70

Query: 66  -KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD---FDGICSTQ--FLVLQPKDV 119
            K    +Q+D+          +L        R AI+ +      + + Q  +     KD 
Sbjct: 71  CKFITKKQADSLAKGFAIPEDVLLTHKATLGRTAIVGELRTPYIMLTPQVTYYRTIKKDR 130

Query: 120 LPELLQGWLLSIDVTQRIEAIC--EGATMSHADWKGIGNIPMPIPPL-AEQVLIREKIIA 176
           L      +       Q         G+T ++       ++P+ +P L  EQ  I   + +
Sbjct: 131 LHNRFLKYYFDSPFFQDTLVNHGDSGSTRAYVGITAQRDLPIILPNLVREQESIAAVLAS 190

Query: 177 ETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKP 236
              +ID L  +      + +   +        +G +                P       
Sbjct: 191 LDDKIDLLHRQNQTLEAIAETLFRQWFVEDAQEGWD--------------ERPLSSIANF 236

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFI 296
                    +K     +   L +     +    +          +   IV+ G+++F + 
Sbjct: 237 LN---GLACQKYPPTNDLEKLPVLKIRELSSGISETADWATSQVKPGYIVEAGDVIFAWS 293

Query: 297 DLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQ 355
                   +      E+ ++      V        +     + +    +  A        
Sbjct: 294 -----ASLMVKVWDGEKCVLNQHLFKVTSDEFPKWFYLRWCKHHLAEFIAVAASHATTMG 348

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK---IEQSIVLLKERRSSFIA 412
            +K  D+    VLVPP         V+   + ++  L+ K   I +    L++ R + + 
Sbjct: 349 HIKRGDLDAAMVLVPPPP-------VLETMSRQMQPLLNKQIAIARQRKTLEKLRDTLLP 401

Query: 413 AAVTGQIDL 421
             ++G++ +
Sbjct: 402 KLMSGEVRV 410


>gi|325696148|gb|EGD38039.1| type I restriction-modification system specificity determinant
           [Streptococcus sanguinis SK160]
          Length = 390

 Score = 87.5 bits (215), Expect = 3e-15,   Method: Composition-based stats.
 Identities = 63/410 (15%), Positives = 136/410 (33%), Gaps = 33/410 (8%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            +WK V +    + N   T   G     I +E++E  T      +      +    + F 
Sbjct: 2   NNWKKVKLSDIIEFNPRETLSKGAIAKKIAMENLEPFTRDIPEFEY----LEFRGGTKFR 57

Query: 83  KGQILYGKLGPYLRKAII-------ADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
            G  L  ++ P L             D  G  ST+F+V++ K+ + +    + L I    
Sbjct: 58  NGDTLMARITPSLENGKTSKVNLLDEDEVGFGSTEFIVVRSKENISDENFVYYLMIAPNI 117

Query: 136 R---IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           R   I+++   +         + N  +  PPL EQ+ I + + A   +I+          
Sbjct: 118 REVAIKSMVGTSGRQRVQLDVVKNHEILCPPLKEQIRIGKTLKALDDKIENNKKINHHLE 177

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           E         +     +     + +K   I+    V DH     F +L   +        
Sbjct: 178 E---------ILQANLEKQLESISIKSKIIDLNLTVSDHVANGSFKSLKDNVKLVEKTDY 228

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
              + ++   N +   E R +      +     +   E++   +        +    +  
Sbjct: 229 ALFLRNIDLKNHLNG-ERRYVTESSYEFLKKSRLYGHEVIISNVADVGSVHRVPKMNMPM 287

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPP 371
                +       + + + YL     S        ++ SG  +Q     D + L + +  
Sbjct: 288 VAG-NNVVFLQSENSLLTDYLYVYFNSRLGQHDIMSITSGSAQQKFNKTDFRNLEIPILS 346

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
                    +I  + + I   ++ I + I  L + R++ +   ++G+I +
Sbjct: 347 DD-------IIKKKISSILHYIDNIHEEIACLMKIRATLLPKLLSGEISV 389


>gi|292492041|ref|YP_003527480.1| restriction modification system DNA specificity domain protein
           [Nitrosococcus halophilus Nc4]
 gi|291580636|gb|ADE15093.1| restriction modification system DNA specificity domain protein
           [Nitrosococcus halophilus Nc4]
          Length = 451

 Score = 87.5 bits (215), Expect = 3e-15,   Method: Composition-based stats.
 Identities = 59/431 (13%), Positives = 140/431 (32%), Gaps = 41/431 (9%)

Query: 21  IPKHWKVV---PIKRFTKLNT------GRTSES----GKDIIYIGLEDVESGTGKYLPKD 67
           +P  W+ V    +K   +  +      G +  S     + +  I   ++  G  +++P  
Sbjct: 5   LPHGWRFVSVEKLKS-AEARSLAAGPFGSSISSRYFVNEGVPVIRGANLSEGKQRFIPSG 63

Query: 68  GNSRQSDTSTVSI---FAKGQILYGKLGPYLRKAIIADFDGICSTQF------LVLQPKD 118
                 D +          G +++   G   +  +I       S         L   P  
Sbjct: 64  FAFITRDKAKEFKGAHVKSGDLVFTCWGTLGQVGLIPRDGPYDSYVISNKQLKLRPDPDI 123

Query: 119 VLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
              E L  +  S  + +R   +  G+ +   +   +    +P+PPL  Q  I   + A  
Sbjct: 124 ASSEFLYYYFSSPTLRKRFNDVAIGSAVPGINLGILRRELVPLPPLRMQEKIAAILTAYD 183

Query: 179 VRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFF 238
             I+          ++ +E  +     +   G      +K     W     D   ++ F 
Sbjct: 184 DLIEVNKRRIALLEKMAEELYREWFVRLRFPGYQDTRFVKGVPEGW-----DVVSLENFC 238

Query: 239 ALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI-----VDPGEIVF 293
             +T+      K ++S  L ++  NI                +  +I     +  G+I++
Sbjct: 239 ETITDGTHDTPKPVDSGHLLVTGKNIKSNQIDFTGAYFISEQDHREISKRSGLREGDILY 298

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL 353
             I        + +        + +  +    +  DS +L  ++++  + +   AM SG 
Sbjct: 299 SNIGTIGQTAIVGA---KPDYSVKNVIIFRPRNAHDSLFLFHVLKNPAISEHLLAMASGA 355

Query: 354 -RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
            +Q +     +   +L P      +    ++    + + L+        +L   R   + 
Sbjct: 356 SQQFIGLGTARSFNILKPNSIILEEFGKTVSKFFEQRNTLISMN----HILCSSRDLLLP 411

Query: 413 AAVTGQIDLRG 423
             ++G++ +  
Sbjct: 412 RLISGKLSVED 422



 Score = 67.5 bits (163), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 38/210 (18%), Positives = 76/210 (36%), Gaps = 17/210 (8%)

Query: 6   AYPQYKDS----GVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDI----IYIGLEDVE 57
            +P Y+D+    GV      P+ W VV ++ F +  T  T ++ K +    + +  ++++
Sbjct: 212 RFPGYQDTRFVKGV------PEGWDVVSLENFCETITDGTHDTPKPVDSGHLLVTGKNIK 265

Query: 58  SGTGKYLPKDGNSRQS--DTSTVSIFAKGQILYGKLGPYLRKAII-ADFDGICSTQFLVL 114
           S    +      S Q   + S  S   +G ILY  +G   + AI+ A  D       +  
Sbjct: 266 SNQIDFTGAYFISEQDHREISKRSGLREGDILYSNIGTIGQTAIVGAKPDYSVKNVIIFR 325

Query: 115 QPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKI 174
                    L   L +  +++ + A+  GA+          +  +  P         + +
Sbjct: 326 PRNAHDSLFLFHVLKNPAISEHLLAMASGASQQFIGLGTARSFNILKPNSIILEEFGKTV 385

Query: 175 IAETVRIDTLITERIRFIELLKEKKQALVS 204
                + +TLI+               L+S
Sbjct: 386 SKFFEQRNTLISMNHILCSSRDLLLPRLIS 415


>gi|307638191|gb|ADN80641.1| type I restriction-modification system specificity subunit S
           [Helicobacter pylori 908]
 gi|325996786|gb|ADZ52191.1| Type I restriction-modification system specificity subunit S
           [Helicobacter pylori 2018]
 gi|325998378|gb|ADZ50586.1| Type I restriction-modification specificity subunit [Helicobacter
           pylori 2017]
          Length = 277

 Score = 87.5 bits (215), Expect = 3e-15,   Method: Composition-based stats.
 Identities = 50/288 (17%), Positives = 104/288 (36%), Gaps = 20/288 (6%)

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
           +  G+T        I N+ +P+PPL EQ+ I   +      + +L    ++   + K   
Sbjct: 1   MASGSTFLEVSPNKIKNLLIPLPPLNEQIAIANILSDVDRYLYSLDALILKKESVKKALS 60

Query: 200 QALVSYIVT-KGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
             L+S     KG N   +    G   +G+       K     +    +         I  
Sbjct: 61  FELLSQRKRLKGFNQAWQRVRLGD--IGITISGLAGKTKQDFINGNAK--------YITF 110

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA--QVMERGII 316
           L+  N +    +    +K    E        ++ F        +  + +     +++  +
Sbjct: 111 LNVLNNVIIDTSILENVKIYPNEKQNSFKKYDLFFNTSSETPKEVGMCAVLLDDIDQVFL 170

Query: 317 TSAYM--AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIK 373
            S      +    +DS +L++L+ S    K F  +  G  R +L       + +++PP+ 
Sbjct: 171 NSFCFGFRIFDKAVDSLFLSYLINSEIGRKAFENLAQGSTRYNLSKSGFNNVCLILPPLN 230

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           EQ  I NV++   + I  L  K  Q     +  + +     ++ +I +
Sbjct: 231 EQIAIANVLSDLDSEIISLKNKKRQ----FENIKKALNHDLMSAKIRV 274



 Score = 52.9 bits (125), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 33/193 (17%), Positives = 71/193 (36%), Gaps = 13/193 (6%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDII-----YIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           W+ V +       +G   ++ +D I     YI   +V +          N +       +
Sbjct: 77  WQRVRLGDIGITISGLAGKTKQDFINGNAKYITFLNVLNNVIIDTSILENVKIYPNEKQN 136

Query: 80  IFAKGQILYGKLGPYLRKAIIA-------DFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
            F K  + +       ++  +        D   + S  F        +  L   +L++ +
Sbjct: 137 SFKKYDLFFNTSSETPKEVGMCAVLLDDIDQVFLNSFCFGFRIFDKAVDSLFLSYLINSE 196

Query: 133 V-TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
           +  +  E + +G+T  +    G  N+ + +PPL EQ+ I   +      I +L  ++ +F
Sbjct: 197 IGRKAFENLAQGSTRYNLSKSGFNNVCLILPPLNEQIAIANVLSDLDSEIISLKNKKRQF 256

Query: 192 IELLKEKKQALVS 204
             + K     L+S
Sbjct: 257 ENIKKALNHDLMS 269


>gi|225861220|ref|YP_002742729.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae Taiwan19F-14]
 gi|298503106|ref|YP_003725046.1| type I restriction-modification system subunit S [Streptococcus
           pneumoniae TCH8431/19A]
 gi|225727667|gb|ACO23518.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae Taiwan19F-14]
 gi|298238701|gb|ADI69832.1| type I restriction-modification system S subunit [Streptococcus
           pneumoniae TCH8431/19A]
          Length = 373

 Score = 87.5 bits (215), Expect = 3e-15,   Method: Composition-based stats.
 Identities = 53/400 (13%), Positives = 124/400 (31%), Gaps = 39/400 (9%)

Query: 26  KVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           K V +    ++ +G   +S +       +  I + DVE G            +       
Sbjct: 2   KKVKLGEVCEILSGYAFKSSQFNDNKIGLPLIRIRDVERGFSD------TYFEGTYPEEY 55

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           +   G +L    G ++ K        + + +   ++  D   +      L     + IE 
Sbjct: 56  LIKNGDLLITMDGSFILK-KWEGDLALLNQRVCKIKITDKSVDEGYISWLIPKFLKEIED 114

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
                T+ H     I +I   +P   EQ LI +K+      I  +   R    E   E  
Sbjct: 115 KTPFVTVKHLSVAKIKDISFVLPNKLEQKLIAKKLN----TISQIYDFRKIQSEKFNELV 170

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
           ++  + +              G   +    D+              + +    E   L L
Sbjct: 171 KSRFNEMF-------------GENKIFESIDNLFDIIDGDRGKNYPKSDELFSEEYCLFL 217

Query: 260 SYGNIIQKLETRN----MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
           +  N+ +   + +    +    +       ++  +IV        +          +   
Sbjct: 218 NTKNVTKNGFSFDTKQFITKTKDKLLRKGKLERYDIVLTTRGTVGNVAYYDELIKYKHLR 277

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
           I S  + ++P   +     +++           +    +  L    +K++ + +PP+  Q
Sbjct: 278 INSGMVILRPKTPNLNQ-KFIIHVLRNNNYSRVISGSAQPQLPITKLKKILLPLPPLALQ 336

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            +  + +     +ID     I++S+  L+  + S +    
Sbjct: 337 NEFADFVV----QIDKSQLAIQKSLEELETLKKSLMQEYF 372


>gi|117676180|ref|YP_863756.1| restriction modification system DNA specificity subunit [Shewanella
           sp. ANA-3]
 gi|117615004|gb|ABK50457.1| restriction modification system DNA specificity domain [Shewanella
           sp. ANA-3]
          Length = 411

 Score = 87.5 bits (215), Expect = 3e-15,   Method: Composition-based stats.
 Identities = 51/420 (12%), Positives = 149/420 (35%), Gaps = 44/420 (10%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            W  V +        G  + + K        + ++   D+ +G+ +   +  +     ++
Sbjct: 4   SWPTVTLDECASFQEGYVNPTQKKEHYFDGPVKWLRAVDLNNGSIRNTSRTLSEEGFKSA 63

Query: 77  TVS--IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
             S  +F  G +   K G   R  I+ D+    +   + ++      + L  + + +   
Sbjct: 64  GKSALLFEPGTLAISKSGTIGRIGILEDYM-CGNRAVINIKVDKDKCDNLYIFYVLLMSR 122

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           + IE +  G+   +     +G++ + +PPL  Q  I +++     +ID          E+
Sbjct: 123 RVIETLAVGSVQKNLYTSALGSLELRLPPLQVQAAIAKQLSDLDKKIDLNTQTNQTLEEM 182

Query: 195 LKEKKQAL----------VSYIVTKGLNPDVKMKDSG---IEWVGLVPDHWEVKPFFALV 241
            +   ++           ++    +G++               +GL+P+ W+      +V
Sbjct: 183 AQAIFKSWFVDFDPVKAKMNGKQPEGMDAATASLFPEKLVESELGLIPEGWDAVQVGDIV 242

Query: 242 TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQND 301
             L  K  +  +  +       + ++  +  +G   +        +    +F        
Sbjct: 243 QRLKPKK-RYTKKQVEPYGKTPVYEQGASILLGFHNDDAGFDASPEDPVFIFGDHTCITH 301

Query: 302 KRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFED 361
                      +  I+S  + +K     + +  + ++     + +       R+      
Sbjct: 302 LSC-------SKFDISSNVIPLKGSVRPTIWTYYAIQGKQEFQEY-------RRHWSEFI 347

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           +K   V++PP++       ++  +     +++E +++    L++ R + +   ++G+I+L
Sbjct: 348 IKD--VVLPPVELAEKYAELVTTKY----LMMESLKRQSKELEQLRDTLLPKLLSGEIEL 401


>gi|253689248|ref|YP_003018438.1| restriction modification system DNA specificity domain protein
           [Pectobacterium carotovorum subsp. carotovorum PC1]
 gi|251755826|gb|ACT13902.1| restriction modification system DNA specificity domain protein
           [Pectobacterium carotovorum subsp. carotovorum PC1]
          Length = 390

 Score = 87.5 bits (215), Expect = 3e-15,   Method: Composition-based stats.
 Identities = 53/392 (13%), Positives = 127/392 (32%), Gaps = 32/392 (8%)

Query: 24  HWKVVPIKRFTKLNTGRTSE-----SGKDIIYIGLEDVESGTGKY-LPKDGNSRQSDTST 77
            W    +       T  +       S    + +  +++      +  P+       +   
Sbjct: 2   SWPTYKLTDLCNKITDGSHNPPPGISESKFLMLSSKNIFDDDINFHNPRYLTKDDFEREN 61

Query: 78  VSI-FAKGQILYGKLGPYLRKAIIAD--FDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
                + G +L   +G   R A++ D            VL+PK  +            + 
Sbjct: 62  RRTDVSSGDVLLTIVGTVGRAAVVPDGSPKFTLQRSVAVLKPKHGIITSRFLMYTLRSML 121

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             + A   G        K + ++ + +P +  Q  I   +   +         R + I+L
Sbjct: 122 DVLLAGARGVAQQGIYLKQLHDLDIKVPSVEIQKHIVNVLDKASSLCRK----REQGIKL 177

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
             E  +A  S +     NPD  +K+  I  +             +  +      T     
Sbjct: 178 ADEFLRATFSNMFG---NPDNNIKNFPIGTIRD---------LVSSASYGLSSKTSKHSG 225

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETY----QIVDPGEIVFRFIDLQNDKRSLRSAQV 310
               L  GNI  + +   + LK    +       +++ G+++F   + +         + 
Sbjct: 226 KYPVLRMGNITYQGDWDLIDLKYIDLDEKAQEKFLLEKGDLLFNRTNSKELVGKTAIFEN 285

Query: 311 MERGIITSAYMAVKPHGI-DSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPV 367
                     + V+ + I ++ Y+A  + S         M   +    ++  ++++ + +
Sbjct: 286 DRDMAFAGYLIRVRTNEIGNNYYIAGYLNSLHGKNTLINMSKSIVGMANINAQEMQNIKI 345

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
           L+PP + Q +   +      +I + +E  ++S
Sbjct: 346 LIPPKELQDNYEKIYKTVKNKIKIHIESKKES 377



 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 31/182 (17%), Positives = 62/182 (34%), Gaps = 8/182 (4%)

Query: 229 PDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNM-----GLKPESYETY 283
           P +        +    +     + ES  L LS  NI       +          E     
Sbjct: 4   PTYKLTDLCNKITDGSHNPPPGISESKFLMLSSKNIFDDDINFHNPRYLTKDDFERENRR 63

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC 343
             V  G+++   +        +           + A +  K   I S +L + +RS  + 
Sbjct: 64  TDVSSGDVLLTIVGTVGRAAVVPDGSPKFTLQRSVAVLKPKHGIITSRFLMYTLRS--ML 121

Query: 344 KVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
            V  A   G  +Q +  + +  L + VP ++ Q  I NV++  ++      + I+ +   
Sbjct: 122 DVLLAGARGVAQQGIYLKQLHDLDIKVPSVEIQKHIVNVLDKASSLCRKREQGIKLADEF 181

Query: 403 LK 404
           L+
Sbjct: 182 LR 183


>gi|315638033|ref|ZP_07893218.1| restriction modification system S chain-like protein [Campylobacter
           upsaliensis JV21]
 gi|315481881|gb|EFU72500.1| restriction modification system S chain-like protein [Campylobacter
           upsaliensis JV21]
          Length = 591

 Score = 87.5 bits (215), Expect = 3e-15,   Method: Composition-based stats.
 Identities = 33/189 (17%), Positives = 69/189 (36%), Gaps = 9/189 (4%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYLPKDGNSRQS 73
           IP  W  V +    ++ +G T    K        I ++ + DV++       +       
Sbjct: 130 IPNSWAWVKLGDICEIVSGGTPSRDKIEYWHNGTIPWVKIADVKNNVVNQTQEFITELGL 189

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
           + S+  IF KG +LY  +   L +  I + D   +     L            + L   +
Sbjct: 190 ENSSAKIFKKGTLLYT-IFATLGETAILNIDAATNQAIAALIETYDYDTKFLMYCLM-SM 247

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
              + ++  G   ++ +   + N  +P+PPL EQ  I +K+       +     +     
Sbjct: 248 KDYVNSLGRGVAQNNINQTMLKNFTIPLPPLCEQQEIVKKLDLLVSLANDFAITKENLKR 307

Query: 194 LLKEKKQAL 202
           + K  ++ +
Sbjct: 308 IEKRIEKRI 316



 Score = 72.1 bits (175), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 27/203 (13%), Positives = 71/203 (34%), Gaps = 20/203 (9%)

Query: 229 PDHWEVKPFFALVTELNR------KNTKLIESNILSLSYGNIIQKLETRNMGLKPE---S 279
           P+ W       +   ++       K        I  +   ++   +  +      E    
Sbjct: 131 PNSWAWVKLGDICEIVSGGTPSRDKIEYWHNGTIPWVKIADVKNNVVNQTQEFITELGLE 190

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
             + +I   G +++       +   L       + I       ++ +  D+ +L + + S
Sbjct: 191 NSSAKIFKKGTLLYTIFATLGETAILNIDAATNQAIA----ALIETYDYDTKFLMYCLMS 246

Query: 340 YDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV-LVEKIE 397
             +     ++G G  + ++    +K   + +PP+ EQ +I   +++  +  +   + K  
Sbjct: 247 --MKDYVNSLGRGVAQNNINQTMLKNFTIPLPPLCEQQEIVKKLDLLVSLANDFAITKEN 304

Query: 398 -QSIVLLKERR--SSFIAAAVTG 417
            + I    E+R   S +  A+ G
Sbjct: 305 LKRIEKRIEKRIEKSLLKLALEG 327



 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 27/213 (12%), Positives = 61/213 (28%), Gaps = 10/213 (4%)

Query: 177 ETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKP 236
           +     + I    + +   KE     +S        P           +G + +  +   
Sbjct: 379 KKALCKSQIQMLKKELTKCKEITPLNLSEA------PFTIPNSWAWVKLGDICEMKKGPF 432

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFI 296
             A+  ++   N           +     + L    + L+         V   +I+    
Sbjct: 433 GSAITKDMFIPNGNNAVKIYEQKNAIQKSETLGEYYISLEHFEKLKQFEVFENDIIVSCA 492

Query: 297 DLQNDKRSLRSAQVMERGIITSAYM-AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ 355
               +    R  +   +GII  A M     +     Y           K          +
Sbjct: 493 GTIGE--IFRIPKNAPKGIINQALMKIKLVNEEWIPYFMIFFDFLIKQKSQENSKGSAIK 550

Query: 356 SLK-FEDVKRLPVLVPPIKEQFDITNVINVETA 387
           ++   + +K   + +PP++EQ  IT +++    
Sbjct: 551 NIPPLDILKNFSIPLPPLQEQEYITQILDTLFT 583


>gi|170768570|ref|ZP_02903023.1| type I restriction modification DNA specificity domain protein
           [Escherichia albertii TW07627]
 gi|170122674|gb|EDS91605.1| type I restriction modification DNA specificity domain protein
           [Escherichia albertii TW07627]
          Length = 456

 Score = 87.5 bits (215), Expect = 3e-15,   Method: Composition-based stats.
 Identities = 53/430 (12%), Positives = 136/430 (31%), Gaps = 59/430 (13%)

Query: 38  TGRTSES-GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA-KGQILYGKLGPYL 95
            G+T +     I  I  + +++G  + + +       D   V     +G ++     P  
Sbjct: 21  RGKTPKKVDNGIPLITAKIIKNGRIQEVNEFIAINDYDDWMVRGLPLEGDVVLTTEAPLG 80

Query: 96  RKAIIADFDGICSTQFLVLQPKDVL--PELLQGWLLSIDVTQRIEAICEGATMSHADWKG 153
             A +       + + + L+ K  +   + L   L S  V  +++    G+T++      
Sbjct: 81  EVAQLDSRKVALAQRVITLRGKKGILENDYLLYLLQSSFVQNQLDGRASGSTVTGIKQSE 140

Query: 154 IGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA-------LVSYI 206
           +  I + +PP++ Q  I  ++     +ID          ++ +   ++       ++   
Sbjct: 141 LREIILRLPPVSLQKSISHQLKCLDKKIDLNNKINKTLEQMSQTLFKSWFVDFDPVIDNA 200

Query: 207 VTKGLNPDVKMKDSGIE-----------------------------WVGLVPDHWEVKPF 237
           +  G NP  +   +  E                              +G VP +W V   
Sbjct: 201 LDAG-NPIPEALQTRAELRQKVRNSADFKPLPAEIRSLFPNKFEETELGWVPKYWFVTEL 259

Query: 238 FALVTELNRKNTKLIE---------SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDP 288
             L+T     + + I             +S +  +  + +      +K E      ++  
Sbjct: 260 GKLITVKRGGSPRPIHDFLCNKGLPWVKISDATASNSRFINLTKDFIKTEGLNKTVLLKK 319

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA 348
           G ++                 +     I   ++        +    + +      K+   
Sbjct: 320 GSLILSNSATPG-----LPKFLDIDACIHDGWLHFPKKKRLTDIYLYNLFLEIKEKLISQ 374

Query: 349 MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
               +  +LK + +K   + VP       I +  +  +  +   +  + ++I  L   R 
Sbjct: 375 GNGSVFTNLKTDILKDYKIAVPGHD----IISYFDKISRELHNKIHSVTENINTLVALRD 430

Query: 409 SFIAAAVTGQ 418
           + +   ++G+
Sbjct: 431 TLLPKLISGE 440



 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 28/190 (14%), Positives = 70/190 (36%), Gaps = 9/190 (4%)

Query: 226 GLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK----PESYE 281
           G       ++     + +   K  K +++ I  ++   I                 + + 
Sbjct: 2   GNNYIEMRLEDCMDAIIDYRGKTPKKVDNGIPLITAKIIKNGRIQEVNEFIAINDYDDWM 61

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD 341
              +   G++V        +   L S +V     +    +  K   +++ YL +L++S  
Sbjct: 62  VRGLPLEGDVVLTTEAPLGEVAQLDSRKVALAQRV--ITLRGKKGILENDYLLYLLQSSF 119

Query: 342 LCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
           +        SG     +K  +++ + + +PP+  Q  I++ +     +ID L  KI +++
Sbjct: 120 VQNQLDGRASGSTVTGIKQSELREIILRLPPVSLQKSISHQLKCLDKKID-LNNKINKTL 178

Query: 401 VLL-KERRSS 409
             + +    S
Sbjct: 179 EQMSQTLFKS 188



 Score = 55.2 bits (131), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 21/194 (10%), Positives = 64/194 (32%), Gaps = 9/194 (4%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLP-KDGNS 70
           +G +PK+W V  + +   +  G +          K + ++ + D  +   +++       
Sbjct: 247 LGWVPKYWFVTELGKLITVKRGGSPRPIHDFLCNKGLPWVKISDATASNSRFINLTKDFI 306

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
           +    +   +  KG ++              D D        +  PK      +  + L 
Sbjct: 307 KTEGLNKTVLLKKGSLILSNS-ATPGLPKFLDIDACIHDG-WLHFPKKKRLTDIYLYNLF 364

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
           +++ +++ +   G+  ++     + +  + +P         +       +I ++      
Sbjct: 365 LEIKEKLISQGNGSVFTNLKTDILKDYKIAVPGHDIISYFDKISRELHNKIHSVTENINT 424

Query: 191 FIELLKEKKQALVS 204
            + L       L+S
Sbjct: 425 LVALRDTLLPKLIS 438


>gi|331090321|ref|ZP_08339205.1| hypothetical protein HMPREF1025_02788 [Lachnospiraceae bacterium
           3_1_46FAA]
 gi|330401456|gb|EGG81041.1| hypothetical protein HMPREF1025_02788 [Lachnospiraceae bacterium
           3_1_46FAA]
          Length = 359

 Score = 87.5 bits (215), Expect = 3e-15,   Method: Composition-based stats.
 Identities = 42/388 (10%), Positives = 117/388 (30%), Gaps = 32/388 (8%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
           V +    +   G ++        + L DV    G++     +                + 
Sbjct: 3   VKLGDVCE--RGTSN--------LKLSDVSEKNGEFSVFGASGYIGSVDFYQQGYP-YVA 51

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMS 147
             K G  + +A++             L PKD +      +++       +E    GAT+ 
Sbjct: 52  VVKDGAGIGRAMLCPGKTSVIGTMQYLLPKDNILPKYLFYVVK---YMNLEKYFTGATIP 108

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
           H  +K   N          QV I   +     + + +I    + ++LL +  +A    + 
Sbjct: 109 HIYFKDYKNEEFNFDFWERQVEIVSVL----SKCEKVIDLCKQELQLLDKLIKARFVELF 164

Query: 208 TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK 267
              ++    + ++ +  +G              +  L  K   +   ++      N    
Sbjct: 165 GDPVSNSYGLPEATLPDLGEFGRGVSKHRPRNDIKLLGGKYPLIQTGDV-----ANAGLY 219

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
           + + +        +  ++ D G +              ++A +        + +    + 
Sbjct: 220 ITSYSSTYSELGLKQSKMWDKGTLCI-----TIAANIAKTAILEFDACFPDSVVGFIANE 274

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
             +        S+    +        ++++  + +  L V+VP  ++Q    + +     
Sbjct: 275 RTNNIFVHYWFSFFQAILESQAPESAQKNINLKILSELKVIVPEKRKQDQFASFV----K 330

Query: 388 RIDVLVEKIEQSIVLLKERRSSFIAAAV 415
             D     +++++   +    S +    
Sbjct: 331 LTDKSKVAVQKALDEAQLLFDSLMQEYF 358


>gi|94263943|ref|ZP_01287746.1| Restriction modification system DNA specificity domain [delta
           proteobacterium MLMS-1]
 gi|93455688|gb|EAT05867.1| Restriction modification system DNA specificity domain [delta
           proteobacterium MLMS-1]
          Length = 414

 Score = 87.5 bits (215), Expect = 3e-15,   Method: Composition-based stats.
 Identities = 60/413 (14%), Positives = 133/413 (32%), Gaps = 41/413 (9%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W VV ++   +L  G        +                  +G+    +   + I    
Sbjct: 20  WAVVELRNIARLKYGENLSGSSMLP---------DGFPVFGANGHIGYYEKPNLFI---D 67

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            ++    G       +A      +   +V++           +     V +    +  G+
Sbjct: 68  SVIVSCRGENSGVINLAPAHSFVTNNSIVIELLAQEIYAGYLFYALQLVPKA--RMVSGS 125

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
                    +  I + +P  +EQ  I   +      ID  I      I+  ++ K  L+ 
Sbjct: 126 AQPQVVINDLQKISVNLPSYSEQQKIAHIL----QTIDRAIERTEALIDKYQQIKAGLMH 181

Query: 205 YIVTKGLNPDVKMKDSGIE--------WVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
            + T+G+ P+ +++    +         +G +P  WEVK    LV   + + + L+   I
Sbjct: 182 DLFTRGIGPNGQLRPPRDQAPELYQQTPIGRIPKEWEVKNILDLVEFPSGQVSPLVSPYI 241

Query: 257 LSL-----SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
                          +L  R    +  +     + + G+IV+  I     K  L      
Sbjct: 242 DMSLVAPDHIERNTGRLMLRETAREQGAISGKYVFESGDIVYSKIRPYLRKAILADFD-- 299

Query: 312 ERGIITSAYMAVKPHGIDSTYLAW-LMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLV 369
             GI ++    +K    +     + ++          ++        +   +       V
Sbjct: 300 --GICSADMYPLKVKQGNDPLFIFGVILGERFSTYAESVSMRSGFPKINRSEFSGFSCAV 357

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
           P   EQ  I+ +I    A+I       E+ +  L++++S  +    TG++ + 
Sbjct: 358 PSNNEQMKISEIIESAEAKIKS----NEKLLQKLQKQKSGLMYDLFTGRVQVP 406



 Score = 82.5 bits (202), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 50/195 (25%), Positives = 82/195 (42%), Gaps = 4/195 (2%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSE---SGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           IG IPK W+V  I    +  +G+ S       D+  +  + +E  TG+ + ++    Q  
Sbjct: 210 IGRIPKEWEVKNILDLVEFPSGQVSPLVSPYIDMSLVAPDHIERNTGRLMLRETAREQGA 269

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPE-LLQGWLLSIDV 133
            S   +F  G I+Y K+ PYLRKAI+ADFDGICS     L+ K       + G +L    
Sbjct: 270 ISGKYVFESGDIVYSKIRPYLRKAILADFDGICSADMYPLKVKQGNDPLFIFGVILGERF 329

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
           +   E++   +     +          +P   EQ+ I E I +   +I +      +  +
Sbjct: 330 STYAESVSMRSGFPKINRSEFSGFSCAVPSNNEQMKISEIIESAEAKIKSNEKLLQKLQK 389

Query: 194 LLKEKKQALVSYIVT 208
                   L +  V 
Sbjct: 390 QKSGLMYDLFTGRVQ 404


>gi|300853532|ref|YP_003778516.1| type I restriction enzyme, specificity subunit [Clostridium
           ljungdahlii DSM 13528]
 gi|300433647|gb|ADK13414.1| type I restriction enzyme, specificity subunit [Clostridium
           ljungdahlii DSM 13528]
          Length = 417

 Score = 87.5 bits (215), Expect = 4e-15,   Method: Composition-based stats.
 Identities = 68/408 (16%), Positives = 138/408 (33%), Gaps = 43/408 (10%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIY-------IGLEDVESGTGKYLPKD------GNSR 71
           W+         +     S S  D+ Y       +   DV    G+ L  +       ++ 
Sbjct: 19  WEQRKFSGIF-IYLQNNSLSRTDLNYEQGSVKNVHYGDVLIKFGEVLDVEKTEIPFISNN 77

Query: 72  QSDTSTVSIFAKGQILYGKL--GPYLRKAIIADFDGICS-----TQFLVLQPKDVLPELL 124
           + +TS+ S+   G I+         + K       G  S             K      L
Sbjct: 78  EFNTSSTSLLRNGDIVIADAAEDETVGKCSEIKGIGCISIVSGLHTIPCRPIKTFETGYL 137

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
             ++ S     ++  + +G  +S      + N  +  P   ++ L   KI      +D+L
Sbjct: 138 GYYMNSSAYHDQLLPLIQGTKISSISKSALQNTEIIYPDSEKEQL---KIGQFFQNLDSL 194

Query: 185 ITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTEL 244
           IT   R  + L   K++++  +     +       S +  +       + K         
Sbjct: 195 ITLHQRKYDKLIIVKKSMLEKMFPIDGS------GSNVPEIRFGGFTDDWKFRKLGDCFS 248

Query: 245 NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
            R  +      I       I +  E        +    Y+ V  G+I +  + +      
Sbjct: 249 ERSESMPDGELISVTINDGIKKFSELGRHDTSNDDKSKYKKVCVGDIAYNSMRMWQGASG 308

Query: 305 LRSAQVMERGIITSAYMAVKPHG-IDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFE 360
               +    GI++ AY  + P+  IDS  +++L +  D+   F     G+     +LK++
Sbjct: 309 YSPYE----GIVSPAYTVLAPNNGIDSKCISYLFKRPDMIHTFQVNSQGITSDNWNLKYQ 364

Query: 361 DVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
            +  + +L+P  I+EQ  I          +D L+   ++ +  L+  R
Sbjct: 365 ALSEIEILIPNDIQEQKYIAEY----FTGLDNLITLHQRKLEKLRNIR 408



 Score = 61.3 bits (147), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 26/184 (14%), Positives = 57/184 (30%), Gaps = 4/184 (2%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            WK   +       +    +   ++I + + D      +    D +    D S       
Sbjct: 237 DWKFRKLGDCFSERSESMPDG--ELISVTINDGIKKFSELGRHDTS--NDDKSKYKKVCV 292

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
           G I Y  +  +   +  + ++GI S  + VL P + +      +L           +   
Sbjct: 293 GDIAYNSMRMWQGASGYSPYEGIVSPAYTVLAPNNGIDSKCISYLFKRPDMIHTFQVNSQ 352

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
              S         +      +   +  ++ I      +D LIT   R +E L+  + +  
Sbjct: 353 GITSDNWNLKYQALSEIEILIPNDIQEQKYIAEYFTGLDNLITLHQRKLEKLRNIRFSCT 412

Query: 204 SYIV 207
             + 
Sbjct: 413 EKMF 416



 Score = 60.2 bits (144), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 28/214 (13%), Positives = 64/214 (29%), Gaps = 17/214 (7%)

Query: 207 VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ 266
                +   + K SGI        + +            + + K +    + + +G ++ 
Sbjct: 12  FKGFTDAWEQRKFSGIFI------YLQNNSLSRTDLNYEQGSVKNVHYGDVLIKFGEVLD 65

Query: 267 KLETRNMGLKPESYETYQ--IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
             +T    +    + T    ++  G+IV                + +    I S    + 
Sbjct: 66  VEKTEIPFISNNEFNTSSTSLLRNGDIVIADAAEDETVGKCSEIKGIGCISIVSGLHTIP 125

Query: 325 P---HGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVP-PIKEQFDIT 379
                  ++ YL + M S         +  G    S+    ++   ++ P   KEQ  I 
Sbjct: 126 CRPIKTFETGYLGYYMNSSAYHDQLLPLIQGTKISSISKSALQNTEIIYPDSEKEQLKIG 185

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
                    +D L+   ++    L   + S +  
Sbjct: 186 QF----FQNLDSLITLHQRKYDKLIIVKKSMLEK 215


>gi|254429566|ref|ZP_05043273.1| Type I restriction modification DNA specificity domain protein
           [Alcanivorax sp. DG881]
 gi|196195735|gb|EDX90694.1| Type I restriction modification DNA specificity domain protein
           [Alcanivorax sp. DG881]
          Length = 471

 Score = 87.5 bits (215), Expect = 4e-15,   Method: Composition-based stats.
 Identities = 57/468 (12%), Positives = 138/468 (29%), Gaps = 82/468 (17%)

Query: 26  KVVPIKRFTKLN---TGRTSE-SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS-- 79
           K  P++   +L       T +   + +I +  +++ +G            +   S +   
Sbjct: 4   KTTPLEELCELVVDCPHSTPKWKSEGVIVLRNQNIRNGQLDLSSPSYTDEEGYQSRIKRA 63

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGIC-STQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           +   G I++ +  P     +I +    C   + ++L+PK  +      W L     Q   
Sbjct: 64  VPQAGDIVFTREAPMGEVCLIPEGLKCCLGQRQVLLRPKKEISGEYLYWALQSPFVQHQI 123

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
           +  EG   + ++ +      +    +  Q    + I      +   I    +  + L++ 
Sbjct: 124 SWNEGTGTTVSNVRIPV---LKSLEIPRQSEHEQSIANILGALSERIQSNHQINQTLEKI 180

Query: 199 KQALVSYIVTKG------------------------------------------------ 210
            QA+                                                        
Sbjct: 181 AQAIFKSWFVDFEPVKAKIAALEAGGSEEDALFTAIQAISGKTTDELARLQAEQPDRYAD 240

Query: 211 LNPDVKMKDSGIE--WVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS---------- 258
           L    ++  S +E   +G +P+ W+             K     E +  +          
Sbjct: 241 LRATAELFPSTLEDSELGGIPEGWDTCQAHERFEITIGKTPPRKEPHWFTEDPKDIKWLS 300

Query: 259 ---LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
              +  GN+   +    +     +    +I  PG ++  F           S       I
Sbjct: 301 IKGMGDGNVFSSVTEEYLIADAVAKHNVKICPPGTVLLSFKLTLGRVMICSSEMTTNEAI 360

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
              A+  +      + +    + S+D   +     S +  ++  + +K +  +VP     
Sbjct: 361 ---AHFRINDDSPGTYWTYLWLSSFDYSSL--GSTSSIATAVNSKTIKGMQFVVPNPVL- 414

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
               N    +   I   ++  +++   L E R + +   +TG+++L  
Sbjct: 415 ---LNYFESKMEPIFQQIQTTQENSCSLAELRDALLPKLLTGELELPD 459



 Score = 61.7 bits (148), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 29/211 (13%), Positives = 59/211 (27%), Gaps = 20/211 (9%)

Query: 12  DSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESG---------KDIIYIGLEDVESGT-- 60
           DS    +G IP+ W         ++  G+T             KDI ++ ++ +  G   
Sbjct: 254 DSE---LGGIPEGWDTCQAHERFEITIGKTPPRKEPHWFTEDPKDIKWLSIKGMGDGNVF 310

Query: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL 120
                +   +       V I   G +L       L + +I   +   +      +  D  
Sbjct: 311 SSVTEEYLIADAVAKHNVKICPPGTVLLS-FKLTLGRVMICSSEMTTNEAIAHFRINDDS 369

Query: 121 PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
           P     +L                  +             +  +    ++     ++   
Sbjct: 370 PGTYWTYLWLSSFDYSSLGSTSSIATAVNSKT-----IKGMQFVVPNPVLLNYFESKMEP 424

Query: 181 IDTLITERIRFIELLKEKKQALVSYIVTKGL 211
           I   I         L E + AL+  ++T  L
Sbjct: 425 IFQQIQTTQENSCSLAELRDALLPKLLTGEL 455


>gi|169350756|ref|ZP_02867694.1| hypothetical protein CLOSPI_01529 [Clostridium spiroforme DSM 1552]
 gi|169292619|gb|EDS74752.1| hypothetical protein CLOSPI_01529 [Clostridium spiroforme DSM 1552]
          Length = 397

 Score = 87.5 bits (215), Expect = 4e-15,   Method: Composition-based stats.
 Identities = 59/406 (14%), Positives = 116/406 (28%), Gaps = 43/406 (10%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W+   +    K       E  +  I    +  E      L    +     T+      +
Sbjct: 14  DWEQRKLGEIFK------YEQPQAYIVESTDYDEKNNIPVLTAGQSFILGYTNEQFGIKE 67

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV--------LPELLQGWLLSIDVTQ 135
                       R  +I   D   S+ ++    K          L         + +V Q
Sbjct: 68  ---------ASGRNPVIIFDDFTTSSHYVDFPFKVKSSAIKLLSLNNPNDNMHCAYNVLQ 118

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            I  +               ++ +P   + EQ  I + +      +D LIT   R  + +
Sbjct: 119 CIGYLPVSHERHWISIFSKFDVLLP-KSIDEQEQIGQYL----ANLDNLITLHQRKCDEI 173

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
           K+ K+ ++  +  +      K++  G           E+    A +   N + ++ +E+ 
Sbjct: 174 KKLKKYMLQNMFPQNGEKAPKIRFDGFTDDWEQRKLSEIATMHARIGWQNLRTSEFLENG 233

Query: 256 ILSLSYG-----NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKR---SLRS 307
              L  G       I       +  +    +    +  G I+               L  
Sbjct: 234 DYMLITGTDFVDGSINYSTCYFVNKERYEQDKNIQIKNGSILITKDGTLGKVALVQGLSM 293

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLP 366
              +  GI            ID+ YL   +++  L          G  + L    +   P
Sbjct: 294 PATLNAGIFN--IEIKNELEIDNKYLFQYLKAPFLLDYVKKRATGGTIKHLNQNILVNFP 351

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           VL P   EQ  I        + +D L+   ++    LK  +   + 
Sbjct: 352 VLTPQKLEQTKIGQY----FSNLDNLITLHQRKCDELKNMKKFMLQ 393


>gi|167768050|ref|ZP_02440103.1| hypothetical protein CLOSS21_02594 [Clostridium sp. SS2/1]
 gi|167710379|gb|EDS20958.1| hypothetical protein CLOSS21_02594 [Clostridium sp. SS2/1]
          Length = 391

 Score = 87.5 bits (215), Expect = 4e-15,   Method: Composition-based stats.
 Identities = 55/404 (13%), Positives = 127/404 (31%), Gaps = 33/404 (8%)

Query: 28  VPIKRFTKLNTG---RTSESGKDI------IYIGLEDVESGTGKYLP-KDGNSRQSDTST 77
           V +     L  G   +   S K+I       ++    +     ++         + +   
Sbjct: 4   VKLGDIAVLINGDRGKNYPSQKEIITSGGIPFVNAGHLNGRAIEFEAMNYITPEKYEKLN 63

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADF-DGICSTQFLVLQPKDVLPELLQGWL--LSIDVT 134
              F +  ILY   G   +KA+I D   G  ++  ++++P           L   +  + 
Sbjct: 64  SGKFQQNDILYCLRGSLGKKALINDNIYGAIASSLVIIRPNLEKVRPQYLMLALETPLIK 123

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           +++     G++  +   K +    + +P L  Q  I  K+     ++  LI +  +   L
Sbjct: 124 EQLFKFNNGSSQPNLSAKSVKEYKLELPDLFIQDSIISKL----EKVRNLIEDEKQEKLL 179

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
           L    QA    +    +  D K +   ++ +                           + 
Sbjct: 180 LDNLIQARFVELFGDAVYNDKKWETDTVKNLCKEIYGGGTPSKAHP--------EYYKDG 231

Query: 255 NILSLSYGNIIQ---KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
           +I  +S  ++     K     +        T ++V    ++         K +L  A   
Sbjct: 232 DIPWVSAKDMKTDVLKDSQIKINQLGVDNSTARLVPVNSVIMVIRSGIL-KHTLPVAVNK 290

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
               +        P     T    +        +   + +    +++F  +K+  ++VPP
Sbjct: 291 VPITVNQDLKVFIPGERILTRFLAVQFKMQEKDILSGVRAVTADNIEFNSLKQRRMIVPP 350

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           I  Q      +     RID    ++++S+   +    S +    
Sbjct: 351 IDLQQKYLMFLE----RIDKSKFEVQKSLEKTQLLYDSLMQEYF 390



 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 23/190 (12%), Positives = 53/190 (27%), Gaps = 12/190 (6%)

Query: 25  WKVVPIKRFT-KLNTGRTSE-------SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           W+   +K    ++  G T            DI ++  +D+++   K      N    D S
Sbjct: 202 WETDTVKNLCKEIYGGGTPSKAHPEYYKDGDIPWVSAKDMKTDVLKDSQIKINQLGVDNS 261

Query: 77  TVSIFAKGQILYGKLGPYLR---KAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
           T  +     ++       L+      +       +    V  P + +          +  
Sbjct: 262 TARLVPVNSVIMVIRSGILKHTLPVAVNKVPITVNQDLKVFIPGERILTRFLAVQFKMQ- 320

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            + I +     T  + ++  +    M +PP+  Q      +         +     +   
Sbjct: 321 EKDILSGVRAVTADNIEFNSLKQRRMIVPPIDLQQKYLMFLERIDKSKFEVQKSLEKTQL 380

Query: 194 LLKEKKQALV 203
           L     Q   
Sbjct: 381 LYDSLMQEYF 390


>gi|332655466|ref|ZP_08421203.1| restriction modification system, type I [Ruminococcaceae bacterium
           D16]
 gi|332515601|gb|EGJ45214.1| restriction modification system, type I [Ruminococcaceae bacterium
           D16]
          Length = 393

 Score = 87.5 bits (215), Expect = 4e-15,   Method: Composition-based stats.
 Identities = 62/400 (15%), Positives = 134/400 (33%), Gaps = 35/400 (8%)

Query: 30  IKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY- 88
           +  F +    R ++  ++ +        S    ++P   N+  +D +      +GQ  Y 
Sbjct: 8   LGDFIRQVDVRNTDGKEENLL-----GVSVQKMFIPSIANTVGTDFTKYKEVKRGQFTYI 62

Query: 89  ---GKLGPYLRKAIIADFD-GICSTQFLVLQPKDVL---PELLQGWLLSIDVTQRIEAIC 141
               + G  +  A++ D+D G+ S  + V + KD     PE L  W    +  +      
Sbjct: 63  PDTSRRGDKIGIALLTDYDEGLVSNIYTVFEVKDENELLPEYLMLWFSRPEFDRYARFKS 122

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            G+     DW  +  + +P+P + +Q  I +        I   I  + R  + L E  + 
Sbjct: 123 HGSVREIMDWDEMCKVELPVPSIDKQRSIVK----AYQTITERIELKRRINDNLVELCKT 178

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
                         +  D     +G       + PF + +     K    ++  +  L+ 
Sbjct: 179 EFMRTFATHPEYRDEQSDWFSHPLGKSLSRVAMGPFGSNI-----KTDCFVDHGVPVLNG 233

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDP----GEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
            NI   L +       E  +  Q+ +     G+IV            +      +R +I+
Sbjct: 234 DNISGYLLSERSFRYVEDEKASQLKNSIAVSGDIVITHRGTLGQVALVPDKTKFDRYVIS 293

Query: 318 SAYMAVKPHGI--DSTYLAWLMRSYDLCKVFYAM-GSGLRQSLKF--EDVKRLPVLVPPI 372
            +   +          Y+ +   +    +   A   +    S+      +K L + +PPI
Sbjct: 294 QSQFLLACDQCALLPEYVLFYFHTDAGRRKLLANDNTTGVPSIAKPTSYIKALHIPIPPI 353

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           + Q +   ++    A     V      +  L +   + ++
Sbjct: 354 ELQQNWAVLVRATLA----AVADNNLEMEKLTDFAQTLLS 389


>gi|119356951|ref|YP_911595.1| restriction modification system DNA specificity subunit [Chlorobium
           phaeobacteroides DSM 266]
 gi|119354300|gb|ABL65171.1| restriction modification system DNA specificity domain [Chlorobium
           phaeobacteroides DSM 266]
          Length = 413

 Score = 87.5 bits (215), Expect = 4e-15,   Method: Composition-based stats.
 Identities = 53/400 (13%), Positives = 115/400 (28%), Gaps = 20/400 (5%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V +  F  ++ G+     +       + +       L  D   R +D     +     
Sbjct: 2   KTVKLGTFITISKGKKHTLSEMP---SSQSIRMLGIDDLRNDTLIRMTDDKDGVLACVDD 58

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           +L    G             I ST   +              +        +     GAT
Sbjct: 59  VLIAWDGANAGTIGYGKQGYIGSTISRLRLHDTSKFFAPFIGMFLQSNFSYLRKTATGAT 118

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
           + H +   + +I +P+    +Q+ I   +      I     +  +  EL       L S 
Sbjct: 119 IPHINRNALESIQVPVFTYGDQICIATLLSKVENLISRRREQLKQLDEL-------LKSV 171

Query: 206 IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII 265
            +    +P +  K   I+ +     + +            +KN  L+ES I   +  NI 
Sbjct: 172 FLEMFGDPMINPKKFPIKLLSEFYINSKHGTKCGPFGSALKKNE-LLESGIAVWNMDNIS 230

Query: 266 QKLETRNMGLKPESYETYQIVDP-----GEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
                        S E +Q +       G+I+             ++  +          
Sbjct: 231 SSGIMILPFRMWVSEEKFQELRAYSVINGDIIISRAGTVGKMCVAKTDGIPAIISTNLIR 290

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
           + +    +    ++ +               G    +    +  L    P I+ Q    +
Sbjct: 291 LRLNSLLLPLYIVSLMTYCNGRVGRLKTGADGTFTHMNTGILDILEFPYPSIELQRQFAD 350

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQID 420
           ++     +++ +     QS+  L+    +    A  G++D
Sbjct: 351 IVE----KVESIKVYYHQSLAELQNLYGTLSQKAFKGELD 386



 Score = 48.6 bits (114), Expect = 0.002,   Method: Composition-based stats.
 Identities = 23/179 (12%), Positives = 55/179 (30%), Gaps = 10/179 (5%)

Query: 232 WEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEI 291
            +       +T    K   L E    S     ++   + RN  L   + +   ++   + 
Sbjct: 1   MKTVKLGTFITISKGKKHTLSEM--PSSQSIRMLGIDDLRNDTLIRMTDDKDGVLACVDD 58

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
           V    D  N   ++   +    G   S           + ++   ++S           +
Sbjct: 59  VLIAWDGAN-AGTIGYGKQGYIGSTISRLRLHDTSKFFAPFIGMFLQSNF--SYLRKTAT 115

Query: 352 G-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
           G     +    ++ + V V    +Q  I        ++++ L+ +  + +  L E   S
Sbjct: 116 GATIPHINRNALESIQVPVFTYGDQICIA----TLLSKVENLISRRREQLKQLDELLKS 170


>gi|30065580|ref|NP_839751.1| hypothetical protein S4635 [Shigella flexneri 2a str. 2457T]
 gi|30043844|gb|AAP19563.1| hypothetical protein S4635 [Shigella flexneri 2a str. 2457T]
 gi|313646315|gb|EFS10777.1| type I restriction enzyme EcoAI specificity [Shigella flexneri 2a
           str. 2457T]
          Length = 551

 Score = 87.5 bits (215), Expect = 4e-15,   Method: Composition-based stats.
 Identities = 47/190 (24%), Positives = 78/190 (41%), Gaps = 2/190 (1%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLED-VESGTGKYLPKDGNSRQSDTSTV 78
            +P+ W+   I     + +   S      +Y    D +E GTG+ + K            
Sbjct: 363 ELPEGWEWCRIGNIVNIKSELVSPKDYLNLYQVAPDIIEKGTGRVISKRTVKESGVKGPN 422

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           S F KGQI+Y K+ P L K  +A+++G+CS     L    + P  L  ++LSI    +++
Sbjct: 423 SRFYKGQIVYSKIRPSLSKVFLAEYNGLCSADMYPLDC-YINPNYLLKYILSIPFLMQVK 481

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
                  M   +     NI + IPP  EQ  I +KI +     + LI+    + +     
Sbjct: 482 KAENRIKMPKLNSDSFYNIIVAIPPYNEQQAIFDKINSIEAVCNGLISYIGIYHKTQLHL 541

Query: 199 KQALVSYIVT 208
             AL    + 
Sbjct: 542 ADALTDAAIN 551



 Score = 76.0 bits (185), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 56/453 (12%), Positives = 118/453 (26%), Gaps = 65/453 (14%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRF-TKLNTGRTSESGKDIIYIGLEDVESG 59
           +K  K  P+   S  +    +P+ W+ V +      ++         +I+  G   V   
Sbjct: 83  IKKQKPLPEI--SEEEKPFELPEGWEWVHLPDIYCSISESSRKIKSSEILPEGKYPVIEQ 140

Query: 60  TGKYLPKDGNSR------------QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGIC 107
           + +++    N+               D +    F     + G  G  +   I+       
Sbjct: 141 SQEFISGYCNNECLLIKLNNPVIVFGDHTRNIKFIDFDFVVGADGVKILSPILICERFFF 200

Query: 108 ST-------------QFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGI 154
                           F VL         +      ++    + ++C+            
Sbjct: 201 WQLRSFKLDVRGYARHFKVLNSCLFALPPIAEQERIVEKVSSLMSLCDQLEQQSLTSLDA 260

Query: 155 GN-IPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNP 213
              +   +           ++     RI             +   KQ ++   V   L P
Sbjct: 261 HQQLVETLLGTLTDSQNTAELAENWARISEHFDTLFTTEASVDALKQTILQLAVMGKLVP 320

Query: 214 DVKMKD-----------------------------SGIEWVGLVPDHWEVKPFFALVTEL 244
                +                             S  E    +P+ WE      +V   
Sbjct: 321 QDPNDEPASELLKRIAQEKAQLVKEGKIQKPLPPISDEEKPFELPEGWEWCRIGNIVNIK 380

Query: 245 ---NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQND 301
                    L    +          ++ ++    +            G+IV+  I     
Sbjct: 381 SELVSPKDYLNLYQVAPDIIEKGTGRVISKRTVKESGVKGPNSRFYKGQIVYSKIRPSLS 440

Query: 302 KRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFED 361
           K  L        G+ ++    +  +   +  L +++    L +V  A        L  + 
Sbjct: 441 KVFLAEY----NGLCSADMYPLDCYINPNYLLKYILSIPFLMQVKKAENRIKMPKLNSDS 496

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
              + V +PP  EQ  I + IN   A  + L+ 
Sbjct: 497 FYNIIVAIPPYNEQQAIFDKINSIEAVCNGLIS 529



 Score = 55.6 bits (132), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 32/192 (16%), Positives = 65/192 (33%), Gaps = 15/192 (7%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
           S  E    +P+ WE      +   ++  + K+  S IL      +I++ +    G     
Sbjct: 93  SEEEKPFELPEGWEWVHLPDIYCSISESSRKIKSSEILPEGKYPVIEQSQEFISGYCNNE 152

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
                ++     V  F D   +          +  +       + P  I   +  W +RS
Sbjct: 153 ---CLLIKLNNPVIVFGDHTRN----IKFIDFDFVVGADGVKILSPILICERFFFWQLRS 205

Query: 340 YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
           + L    YA          F+ +      +PPI EQ  I   ++   +  D L ++   S
Sbjct: 206 FKLDVRGYAR--------HFKVLNSCLFALPPIAEQERIVEKVSSLMSLCDQLEQQSLTS 257

Query: 400 IVLLKERRSSFI 411
           +   ++   + +
Sbjct: 258 LDAHQQLVETLL 269


>gi|210610699|ref|ZP_03288580.1| hypothetical protein CLONEX_00770 [Clostridium nexile DSM 1787]
 gi|210152332|gb|EEA83338.1| hypothetical protein CLONEX_00770 [Clostridium nexile DSM 1787]
          Length = 405

 Score = 87.5 bits (215), Expect = 4e-15,   Method: Composition-based stats.
 Identities = 67/408 (16%), Positives = 141/408 (34%), Gaps = 26/408 (6%)

Query: 27  VVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVESGTGKYLPKDGNSRQ-SDTSTV 78
           +V ++  ++L TG             + I  I ++++  G+      D  S    +  + 
Sbjct: 3   IVKLRDISELKTGPFGTQFRASEYVTEGIPVINVKNIGYGSLLVSGLDHVSENTLERLSE 62

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFD--GICSTQFLVLQPKDVL--PELLQGWLLSIDVT 134
               +G I++G+ G   R  +I       +  +  + ++  D +  PE +  +LL+  V 
Sbjct: 63  HKLQEGDIVFGRKGSVDRHCLIRKGQDGWMQGSDCIRVRFTDAIVYPEFVSYYLLTDAVK 122

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
            +I     G+TM+  +   +G+I + +P   EQ  I   +      ID  I+   +  + 
Sbjct: 123 MKINNSAVGSTMASLNTDILGDIDIILPDCEEQKRIALIL----GTIDKKISNNNQINDY 178

Query: 195 LKEKKQALVSYIVTKGLNPD---VKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           L+E  + + +Y   +   PD      K SG +       + E+   +   +  N      
Sbjct: 179 LEEMAKTIYNYWFIQFDFPDENGKPYKSSGGKMSFCNELNREIPQNWNYTSIGNITICLD 238

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ-V 310
            E   LS      ++             Y    I     ++        D       Q V
Sbjct: 239 SERIPLSNQQREGMKGSIPYYGATGIMDYVNRPIFSGNFVLLAEDGSVMDDNGNPILQRV 298

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP 370
                I +    ++P    S  L +L+       +       ++  +   ++    +L  
Sbjct: 299 SGDVWINNHTHVLQPVKGYSCRLLYLLLKDIPVSIIK--TGSIQMKINQANLNNYNILSI 356

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           P   +    N +      +D  + +I+Q    L + R   +   + GQ
Sbjct: 357 PDAIRTQFINCVE----PLDTKIMQIQQENNNLIQFRDWLLPMLMNGQ 400


>gi|323697973|ref|ZP_08109885.1| restriction modification system DNA specificity domain
           [Desulfovibrio sp. ND132]
 gi|323457905|gb|EGB13770.1| restriction modification system DNA specificity domain
           [Desulfovibrio desulfuricans ND132]
          Length = 499

 Score = 87.5 bits (215), Expect = 4e-15,   Method: Composition-based stats.
 Identities = 68/458 (14%), Positives = 134/458 (29%), Gaps = 73/458 (15%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +P  W     +   +  T  T +  +       E +E+     + +        T    
Sbjct: 14  ELPVQWDWAVFQDIFEDLTSSTKKVKQK------EYIENAPLAVVDQGVALIGGATDKFD 67

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           +  +G +     G + R   + DF         V   K + P     +  +++  Q  + 
Sbjct: 68  LAFEGDLPVIVFGDHTRCVKLVDFP-FVQGADGVKVLKPLSPLSTNLYSYALNTVQLPDR 126

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
                      +K +     P+PPL EQ  I +KI A   +             LL++ +
Sbjct: 127 GYSRH------FKFLKATEFPVPPLNEQRRIADKIDALQAKSRRAREALETVGPLLEKFR 180

Query: 200 QALVSYIVTKGLNPDVKMKDSGIE------------------------------------ 223
           Q++++      L  + + +   +E                                    
Sbjct: 181 QSVLAAAFRGDLTAEWREQHPDVEPAEKLLERIRVERRARWEEAELAKMRAKGINPKNDK 240

Query: 224 --------------WVGLVPDHWEVKPFFALVTELNRKNTKLI---ESNILSLSYGNIIQ 266
                          +  +P+ W       L  ++    +      E+ +  L  GNI+ 
Sbjct: 241 WKAKYKEPEPVDASGLPELPEGWCWAKVEELACDVRYGTSAKTSDDETQMPVLRMGNIVD 300

Query: 267 KLETRNMGLKPESYETYQI----VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
                +  LK        +    +  G+I+F   +              E     S  + 
Sbjct: 301 GDLVYD-NLKYLDRSHKDLSELCLHYGDILFNRTNSAELVGKTAMFDSDEDFSFASYLIR 359

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMGSG--LRQSLKFEDVKRLPVLVPPIKEQFDITN 380
           V+   I    + W + S    +      S    + ++    +K L V +PP  EQ ++  
Sbjct: 360 VRVLQIVPEVVVWYINSPFGRQWVSQNVSQQVGQANINGSKLKALAVPIPPQDEQVELAR 419

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            I    A I    E     I  +     S +A A  G+
Sbjct: 420 KIKQTLAVIKGQRENSIGLIGQVANLDQSILAKAFRGE 457



 Score = 76.4 bits (186), Expect = 9e-12,   Method: Composition-based stats.
 Identities = 38/229 (16%), Positives = 84/229 (36%), Gaps = 20/229 (8%)

Query: 3   HYKAYPQYKD------SGVQWIGAIPKHWKVVPIKRF-TKLNTGRTSESGKDI---IYIG 52
            +KA  +YK+      SG   +  +P+ W    ++     +  G ++++  D      + 
Sbjct: 240 KWKA--KYKEPEPVDASG---LPELPEGWCWAKVEELACDVRYGTSAKTSDDETQMPVLR 294

Query: 53  LEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGP---YLRKAIIA-DFDGICS 108
           + ++  G   Y       R     +      G IL+ +        + A+   D D   +
Sbjct: 295 MGNIVDGDLVYDNLKYLDRSHKDLSELCLHYGDILFNRTNSAELVGKTAMFDSDEDFSFA 354

Query: 109 TQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA-TMSHADWKGIGNIPMPIPPLAEQ 167
           +  + ++   ++PE++  ++ S    Q +          ++ +   +  + +PIPP  EQ
Sbjct: 355 SYLIRVRVLQIVPEVVVWYINSPFGRQWVSQNVSQQVGQANINGSKLKALAVPIPPQDEQ 414

Query: 168 VLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVK 216
           V +  KI      I       I  I  +    Q++++      L P   
Sbjct: 415 VELARKIKQTLAVIKGQRENSIGLIGQVANLDQSILAKAFRGELVPQDP 463


>gi|91792595|ref|YP_562246.1| restriction modification system DNA specificity subunit [Shewanella
           denitrificans OS217]
 gi|91714597|gb|ABE54523.1| restriction modification system DNA specificity domain [Shewanella
           denitrificans OS217]
          Length = 633

 Score = 87.5 bits (215), Expect = 4e-15,   Method: Composition-based stats.
 Identities = 39/234 (16%), Positives = 87/234 (37%), Gaps = 15/234 (6%)

Query: 197 EKKQALVSYIVTKG-LNPDVKMKDSG-IEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
           E+  A+ + +V +G L     + + G  E    +P+ W+       V+ +        E 
Sbjct: 89  ERIAAVKAQLVKEGKLKKQKPLPEIGDNEKPFELPNGWKWSRLGDFVSIIRGITFPSSEK 148

Query: 255 N-------ILSLSYGNIIQKLETRNMGLKPESYETY--QIVDPGEIVFRFIDLQNDKRSL 305
           +       +  +   N+   LE  ++     SY     Q +  G+IV    + +     +
Sbjct: 149 HRELAPSRVACIRTTNVQDSLEWDDLLYVDRSYVKREEQYLKLGDIVMSMANSRELVGKV 208

Query: 306 RSA--QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF--YAMGSGLRQSLKFED 361
                  +           ++P+  D+++L  ++R+          A  +    ++  E 
Sbjct: 209 SFITHIPVGESSFGGFLSVIRPYQFDASFLMSVLRAPLTKNELIGSASQTTNIANISLEK 268

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           +  L + VPP++EQ  I   ++   +  D L  + E SI   +    + + A +
Sbjct: 269 LNPLVIAVPPLEEQHRIVAKVDELMSLCDALEAQTEASIAAHQTLVETLLNALL 322



 Score = 82.5 bits (202), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 27/186 (14%), Positives = 63/186 (33%), Gaps = 9/186 (4%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
           +  E    +P+  E      L T +   +         S +     Q ++   +    ++
Sbjct: 429 TDEEKPFELPESGEWVRLGDLCTLVTSGSRGWKTYYAESGATFIRSQDIKYDRVEFDDKA 488

Query: 280 Y--------ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS-AYMAVKPHGIDS 330
           Y             VD G ++         K ++   ++ E  +    A + +    ++ 
Sbjct: 489 YVKLPETTEGKRTKVDVGNLLMTITGANVAKTAIVEIELDEAYVSQHVALIKLINSVMNK 548

Query: 331 TYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
               WL  ++    +      G +  L  +++  L + +PP++EQ  I   +    A  D
Sbjct: 549 YIHLWLTGAFGGRGLLLECSYGAKPGLNLQNINELIIPIPPLEEQHRIVAKVEELMALCD 608

Query: 391 VLVEKI 396
            L  ++
Sbjct: 609 KLKARL 614



 Score = 62.9 bits (151), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 35/198 (17%), Positives = 63/198 (31%), Gaps = 10/198 (5%)

Query: 20  AIPKHWKVVPIKRFTKLNTG-----RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
            +P+  + V +     L T      +T  +     +I  +D++    ++  K        
Sbjct: 436 ELPESGEWVRLGDLCTLVTSGSRGWKTYYAESGATFIRSQDIKYDRVEFDDKAYVKLPET 495

Query: 75  TSTVS-IFAKGQILYGKLGPYLRKAIIADF---DGICSTQF-LVLQPKDVLPELLQGWLL 129
           T         G +L    G  + K  I +    +   S    L+     V+ + +  WL 
Sbjct: 496 TEGKRTKVDVGNLLMTITGANVAKTAIVEIELDEAYVSQHVALIKLINSVMNKYIHLWLT 555

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
                + +   C        + + I  + +PIPPL EQ  I  K+       D L     
Sbjct: 556 GAFGGRGLLLECSYGAKPGLNLQNINELIIPIPPLEEQHRIVAKVEELMALCDKLKARLS 615

Query: 190 RFIELLKEKKQALVSYIV 207
                      A+V   V
Sbjct: 616 DAQTTQLHLTDAIVEQAV 633



 Score = 59.4 bits (142), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 29/203 (14%), Positives = 64/203 (31%), Gaps = 16/203 (7%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNSR 71
            +P  WK   +  F  +  G T  S +         +  I   +V+  + ++       R
Sbjct: 121 ELPNGWKWSRLGDFVSIIRGITFPSSEKHRELAPSRVACIRTTNVQ-DSLEWDDLLYVDR 179

Query: 72  QSDTSTVSIFAKGQILYGK------LGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ 125
                       G I+         +G       I   +        V++P       L 
Sbjct: 180 SYVKREEQYLKLGDIVMSMANSRELVGKVSFITHIPVGESSFGGFLSVIRPYQFDASFLM 239

Query: 126 GWLLSIDVTQRIE-AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
             L +      +  +  +   +++   + +  + + +PPL EQ  I  K+       D L
Sbjct: 240 SVLRAPLTKNELIGSASQTTNIANISLEKLNPLVIAVPPLEEQHRIVAKVDELMSLCDAL 299

Query: 185 ITERIRFIELLKEKKQALVSYIV 207
             +    I   +   + L++ ++
Sbjct: 300 EAQTEASIAAHQTLVETLLNALL 322


>gi|322420368|ref|YP_004199591.1| restriction modification system DNA specificity domain-containing
           protein [Geobacter sp. M18]
 gi|320126755|gb|ADW14315.1| restriction modification system DNA specificity domain protein
           [Geobacter sp. M18]
          Length = 411

 Score = 87.5 bits (215), Expect = 4e-15,   Method: Composition-based stats.
 Identities = 60/402 (14%), Positives = 125/402 (31%), Gaps = 31/402 (7%)

Query: 24  HWKVVPIKRFTKL----NTGRTSESGKDIIY--IGLEDVESGTGKYLPKDGNSRQSDTST 77
            W+ +PI    ++             +   +  +   +V +G          + ++    
Sbjct: 8   DWQRLPIVSLCEVHVDCVNRTAPIVSEPTPFKMLRTTNVRNGYVDAENVRYVTEETYKKW 67

Query: 78  VSIF--AKGQILYGKLGPYLRKAIIADFDGIC-STQFLVLQP--KDVLPELLQGWLLSID 132
                  +G IL  +  P      I   D +    +    +P  K +  + L   LL  D
Sbjct: 68  TRRLIPKRGDILLTREAPLGDVGKIRTDDAVFLGQRLYHFRPDPKKLDADFLLYSLLGDD 127

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           +  +I+    G+T+ H   + I N+   +P L  Q  I   + A    I+          
Sbjct: 128 LQSQIKGFGSGSTVEHMRLEDIPNLEFNVPALPIQQRIASILSAYDELIENSQRRIKILE 187

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK-L 251
                  + L          P  + +      +G +P  WEVK    +  E+ R   K  
Sbjct: 188 ----SMARTLYREWFVHFRFPGHENQPRVASPLGEIPQGWEVKKLGEVAEEMRRNVPKGQ 243

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESY-ETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
           I+     +   +I ++                      GE++F  I     K S+     
Sbjct: 244 IDEPTPYVGLEHIPRRSLALAAWETTIELGSNKLEFKKGEVLFGKIRPYFHKVSVAPF-- 301

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLV 369
            +        +          Y+   + S        A  +G       ++ +K+ P+++
Sbjct: 302 -DGLCSADTIVIRARRQEHYAYVVMCVSSDAFVAEASATANGAKMPRANWDVLKKHPIVI 360

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQ---SIVLLKERRS 408
           P          V +  ++ I  ++ + +     I +L+  R 
Sbjct: 361 PN-------GEVADKFSSLIKDVIVQEQALVFQIQILRRTRD 395



 Score = 74.8 bits (182), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 40/182 (21%), Positives = 71/182 (39%), Gaps = 12/182 (6%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSES--GKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           +G IP+ W+V  +    +       +    +   Y+GLE +   +      +        
Sbjct: 216 LGEIPQGWEVKKLGEVAEEMRRNVPKGQIDEPTPYVGLEHIPRRSLALAAWETTIELG-- 273

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID-VT 134
           S    F KG++L+GK+ PY  K  +A FDG+CS   +V++ +           +S D   
Sbjct: 274 SNKLEFKKGEVLFGKIRPYFHKVSVAPFDGLCSADTIVIRARRQEHYAYVVMCVSSDAFV 333

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
               A   GA M  A+W  +   P+ IP         E     +  I  +I +    +  
Sbjct: 334 AEASATANGAKMPRANWDVLKKHPIVIP-------NGEVADKFSSLIKDVIVQEQALVFQ 386

Query: 195 LK 196
           ++
Sbjct: 387 IQ 388



 Score = 66.4 bits (160), Expect = 8e-09,   Method: Composition-based stats.
 Identities = 28/181 (15%), Positives = 62/181 (34%), Gaps = 6/181 (3%)

Query: 231 HWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGE 290
                        +  + T        ++  G +  +          + +    I   G+
Sbjct: 18  CEVHVDCVNRTAPIVSEPTPFKMLRTTNVRNGYVDAENVRYVTEETYKKWTRRLIPKRGD 77

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG 350
           I+        D   +R+   +  G     +    P  +D+ +L + +   DL       G
Sbjct: 78  ILLTREAPLGDVGKIRTDDAVFLG-QRLYHFRPDPKKLDADFLLYSLLGDDLQSQIKGFG 136

Query: 351 SG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
           SG   + ++ ED+  L   VP +  Q  I ++++      D L+E  ++ I +L+    +
Sbjct: 137 SGSTVEHMRLEDIPNLEFNVPALPIQQRIASILSA----YDELIENSQRRIKILESMART 192

Query: 410 F 410
            
Sbjct: 193 L 193


>gi|254372674|ref|ZP_04988163.1| predicted protein [Francisella tularensis subsp. novicida
           GA99-3549]
 gi|151570401|gb|EDN36055.1| predicted protein [Francisella novicida GA99-3549]
          Length = 374

 Score = 87.5 bits (215), Expect = 4e-15,   Method: Composition-based stats.
 Identities = 45/366 (12%), Positives = 108/366 (29%), Gaps = 35/366 (9%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W   PI +  K+ +G+      D  ++ + DV        P  G      +    ++  
Sbjct: 21  EWVEKPISKALKIGSGK------DYKHLNIGDV--------PVYGTGGYMLSVDKYLYDG 66

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
             +  G+ G   +   +        T F      + +P+ +             +   E 
Sbjct: 67  ESVCIGRKGTIDKPIFLNGKFWTVDTLFYTHSFNNSIPKFIYSIFQ----KINWKLYNEA 122

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           + +       I  I + +P L EQ  I + +      I+T  +         K   Q + 
Sbjct: 123 SGVPSLSKSTIEKIKINLPTLPEQQKIADCLSTWDEVIETQKSLIEAKKLYKKGMMQKIF 182

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
           S  +    +      +   + +G V +   +      + +  R+  +       + +  +
Sbjct: 183 SQELRFKADDGSDFPEWVEKKLGEVSE--CLDNLRKPLNDSERQKMQGNIPYWGANNIMD 240

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
            I         +                     +    +    +     +  + +    +
Sbjct: 241 YINDYIFDETIVLLAED--------------GGNFSEYRTRPIANLSKGKCWVNNHTHVL 286

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
           +     S    +L  S     +   +G G R  L   ++ ++ + +P + EQ  I N ++
Sbjct: 287 REKKNISKN-EFLFYSLVHKNITGYVGGGTRSKLTKSEMLKIGLKLPCLPEQTKIANFLS 345

Query: 384 VETARI 389
                I
Sbjct: 346 ALDDEI 351



 Score = 65.2 bits (157), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 16/170 (9%), Positives = 51/170 (30%), Gaps = 9/170 (5%)

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL--R 306
             + +    +L  G+           +       Y +     +          K ++   
Sbjct: 21  EWVEKPISKALKIGSGKDYKHLNIGDVPVYGTGGYMLSVDKYLYDGESVCIGRKGTIDKP 80

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLP 366
                +   + + +     +     ++  + +  +      A G     SL    ++++ 
Sbjct: 81  IFLNGKFWTVDTLFYTHSFNNSIPKFIYSIFQKINWKLYNEASG---VPSLSKSTIEKIK 137

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           + +P + EQ  I + ++      D ++E  +  I   K  +   +    +
Sbjct: 138 INLPTLPEQQKIADCLSTW----DEVIETQKSLIEAKKLYKKGMMQKIFS 183


>gi|168485628|ref|ZP_02710136.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae CDC1087-00]
 gi|183571190|gb|EDT91718.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae CDC1087-00]
          Length = 522

 Score = 87.2 bits (214), Expect = 4e-15,   Method: Composition-based stats.
 Identities = 68/441 (15%), Positives = 133/441 (30%), Gaps = 71/441 (16%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNSR 71
            IP  W+ V      ++  G +    KD        I +I + D E G           +
Sbjct: 83  DIPDTWEWVRFSTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINNVKEKIK 142

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
           +S  +      KG  L      + R  I+     I      +   ++ L +    ++LS 
Sbjct: 143 KSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYLFYILSS 202

Query: 132 D-VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
           + V  +  ++  GA + + +   + +I +P+PPL+EQ  I E I +   ++D       R
Sbjct: 203 NVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLSEQQRIVEAIESALEKVDEYAESYNR 262

Query: 191 FIELLKEKK----QALVSYIVTKG--------------LNPDVKMKDSGIEW-------- 224
             +L KE      ++++ Y +                 L      K    E         
Sbjct: 263 LEQLDKEFPDKLKKSILQYAMQGKLVEQDPNDESVEVLLEKIRAEKQKLFEEGKIKKKDL 322

Query: 225 ------------------------VGLVPDHWEVKPFFALVTELNRKNTK-----LIESN 255
                                   +  +P+ W    F +LV     K           + 
Sbjct: 323 DISIVSQGDDNSYYGNKDETTSYPIYEIPEAWRYIKFASLVNFRIGKTPPRSEATFWGTE 382

Query: 256 ILSLSYGNIIQKLETRN----MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
           I  +S  ++       N    +       +   I   G ++  F         L      
Sbjct: 383 IPWVSISDMPISGYVTNTRESISKLALKSKKIDISPKGTLLMSFKLSIGKVAILDIPATH 442

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
              II+  +       I   YL   +              G  ++L    +  L + +  
Sbjct: 443 NEAIIS-IFPYANKENIIRDYLMIFLPLISTLGDSKDAIKG--KTLNSTSISELLIPISN 499

Query: 372 IKEQFDITNVINVETARIDVL 392
            +E   I + +++   ++  L
Sbjct: 500 HEEMKRIISKVDLLFQKVSQL 520



 Score = 80.2 bits (196), Expect = 5e-13,   Method: Composition-based stats.
 Identities = 43/210 (20%), Positives = 81/210 (38%), Gaps = 12/210 (5%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
            I+    +PD WE   F  LV  +   + + I+  + S   G    K+     G K  + 
Sbjct: 77  EIDVPYDIPDTWEWVRFSTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINN 136

Query: 281 ETYQIVDPG-----EIVFRFIDLQNDKRSLRSAQVMERGIITSAY--MAVKPHGIDSTYL 333
              +I   G      +      L N     R   +   G I   +  ++   + ++  YL
Sbjct: 137 VKEKIKKSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYL 196

Query: 334 AWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            +++ S  +   F ++ SG   ++L  + V  + + +PP+ EQ  I   I     ++D  
Sbjct: 197 FYILSSNVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLSEQQRIVEAIESALEKVDEY 256

Query: 393 VEKIEQSIVLLKE----RRSSFIAAAVTGQ 418
            E   +   L KE     + S +  A+ G+
Sbjct: 257 AESYNRLEQLDKEFPDKLKKSILQYAMQGK 286



 Score = 48.6 bits (114), Expect = 0.002,   Method: Composition-based stats.
 Identities = 19/119 (15%), Positives = 43/119 (36%), Gaps = 8/119 (6%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDV-ESGTGKYLPKDGNS 70
           I  IP+ W+ +          G+T    +      +I ++ + D+  SG      +  + 
Sbjct: 347 IYEIPEAWRYIKFASLVNFRIGKTPPRSEATFWGTEIPWVSISDMPISGYVTNTRESISK 406

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
               +  + I  KG +L       + K  I D     +   + + P      +++ +L+
Sbjct: 407 LALKSKKIDISPKGTLLMS-FKLSIGKVAILDIPATHNEAIISIFPYANKENIIRDYLM 464


>gi|227356294|ref|ZP_03840682.1| type I restriction modification system methylase [Proteus mirabilis
           ATCC 29906]
 gi|227163404|gb|EEI48325.1| type I restriction modification system methylase [Proteus mirabilis
           ATCC 29906]
          Length = 469

 Score = 87.2 bits (214), Expect = 4e-15,   Method: Composition-based stats.
 Identities = 51/468 (10%), Positives = 128/468 (27%), Gaps = 74/468 (15%)

Query: 26  KVVPIKRFT-KLNTGRTSESGKD-----IIYIGLEDVESGTGKYLPKDGNSRQS-DTSTV 78
           +   +     ++  G       +     I ++  +++E    K+      S       + 
Sbjct: 6   ETRLLGELCHEITVGFVGTMTNEYIENGIPFLRSKNIEEYDVKWDDMKYVSSAFHKKLSK 65

Query: 79  SIFAKGQILYGKLGPYLRKAIIADF--DGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
           S+   G +   + G      +I +   +  CS   +     ++L      + ++     +
Sbjct: 66  SVLKPGDVAIVRTGKPGTTCVIPNDLREANCSDIVIARVNNELLCPHYLSYFMNAMAHGQ 125

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           + A   GA   H +      + +P+P   +Q  I + +     ++           ++ +
Sbjct: 126 VNAHIVGAVQQHFNVSSAKKLEIPLPSRVKQTKIVQVLKTLDDKLKLNRQINQTLEQMAQ 185

Query: 197 EKKQALV-------SYIVTKGL-------------------------------------- 211
              ++            +  G                                       
Sbjct: 186 TLFKSWFVDFDPVVDNALDAGFFEQDLAFSDELLRRVEVRKAVRESDNFKPLSEDIRRLF 245

Query: 212 -NPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLET 270
            N   +  +  +   G +P  W  K     +    + N                      
Sbjct: 246 PNAFEECAEPALGLGGWMPKGWMSKSISDAIFINPKVNLAKDTVAKFVDMKALSTSGYSI 305

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQ--NDKRSLRSAQVMERGIITS--AYMAVKPH 326
             +  KP  +         +I+   I     N K  +            S    +     
Sbjct: 306 EEVSEKP--FSGGMKFQNNDILLARITPCLENGKTGIVDFLSENEAGFGSTEFIILRGNK 363

Query: 327 GIDSTYLAWLMRSYDLCK--VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
            I  +Y+A L R     +  +   +GS  RQ ++        + VP  +      ++++ 
Sbjct: 364 NIHYSYIACLARYESFRQHVIQSMVGSSGRQRVQNGCFNDYKIAVPSGEVMNRFADIVSP 423

Query: 385 ETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG-------QIDLRGES 425
              ++     +       L + R + +   ++G       +ID+  E+
Sbjct: 424 SFKKL----TQNTNESRSLTKLRDTLLPKLISGELSLSDIKIDIPEET 467


>gi|104774035|ref|YP_619015.1| Type I restriction-modification system, specificity subunit
           [Lactobacillus delbrueckii subsp. bulgaricus ATCC 11842]
 gi|103423116|emb|CAI97855.1| Type I restriction-modification system, specificity subunit
           [Lactobacillus delbrueckii subsp. bulgaricus ATCC 11842]
          Length = 411

 Score = 87.2 bits (214), Expect = 4e-15,   Method: Composition-based stats.
 Identities = 55/411 (13%), Positives = 115/411 (27%), Gaps = 43/411 (10%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTS- 76
            W+   +          T    +         YI   D+ +  G        S    T+ 
Sbjct: 18  DWEQCKLGDVFSFLKNSTLSRSELNYESGKFKYIHYGDILTKFGDITDTRNFSVPFVTTP 77

Query: 77  ------TVSIFAKGQILY------GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELL 124
                        G ++         +G          F  +     + ++P        
Sbjct: 78  EKVIRLEKYFLQNGDVVIADTAEDSMVGKVTEIQNPDPFPTVSGLHTIPIRPNKEFAAGF 137

Query: 125 Q-GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
              ++ +     ++  + +G  +       +    +  P   EQ LI   I      ID 
Sbjct: 138 LGHYMNAPFYHDQLFKLMQGVKVLSLSKSAVIQTKINSPSYCEQRLISRMIN----LIDG 193

Query: 184 LITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTE 243
            IT        L+  K AL+  +             SG   V       + +        
Sbjct: 194 TITLHEEKKRQLERLKSALLQKMFAD---------KSGYPPVRFEGFSDKWEQVKYGEIF 244

Query: 244 LNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI-VDPGEIVFRFIDLQNDK 302
             R    +    + S+ Y +I   + T N   K +      I  +PG+++F  +      
Sbjct: 245 QRRSKMGVSTPTLPSVEYDDINPGMGTLNKEPKSKGISKRGIYFNPGDVLFGKLRPYLKN 304

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDV 362
                 +    G+    +  +    ID  +   L+++     +             +  V
Sbjct: 305 WLFACFE----GVAVGDFWVLTSSKIDHGFTYSLIQTPGFQYIANLSSGSKMPRSDWGLV 360

Query: 363 KRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
                 +P    EQ  I++V+      +D  +   E  + +L + +S  + 
Sbjct: 361 SNARTFIPINHLEQERISSVLFG----LDHAITLYEHKLEILNKIKSFLLQ 407



 Score = 60.2 bits (144), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 30/212 (14%), Positives = 62/212 (29%), Gaps = 15/212 (7%)

Query: 213 PDVKMKDSGIEW----VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKL 268
           P ++ K    +W    +G V    +                K I    +   +G+I    
Sbjct: 8   PKLRFKGFTDDWEQCKLGDVFSFLKNSTLSRSELNYESGKFKYIHYGDILTKFGDITDTR 67

Query: 269 ETRNMGLKPESY---ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM---A 322
                 +             +  G++V       +    +   Q  +     S       
Sbjct: 68  NFSVPFVTTPEKVIRLEKYFLQNGDVVIADTAEDSMVGKVTEIQNPDPFPTVSGLHTIPI 127

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ-SLKFEDVKRLPVLVPPIKEQFDITNV 381
                  + +L   M +       + +  G++  SL    V +  +  P   EQ  I+ +
Sbjct: 128 RPNKEFAAGFLGHYMNAPFYHDQLFKLMQGVKVLSLSKSAVIQTKINSPSYCEQRLISRM 187

Query: 382 INVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           IN     ID  +   E+    L+  +S+ +  
Sbjct: 188 IN----LIDGTITLHEEKKRQLERLKSALLQK 215



 Score = 49.8 bits (117), Expect = 9e-04,   Method: Composition-based stats.
 Identities = 27/179 (15%), Positives = 50/179 (27%), Gaps = 3/179 (1%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+ V      +    +   S   +  +  +D+  G G    +  +   S       F  G
Sbjct: 235 WEQVKYGEIFQ-RRSKMGVSTPTLPSVEYDDINPGMGTLNKEPKSKGISKRGIY--FNPG 291

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            +L+GKL PYL+  + A F+G+    F VL    +        + +              
Sbjct: 292 DVLFGKLRPYLKNWLFACFEGVAVGDFWVLTSSKIDHGFTYSLIQTPGFQYIANLSSGSK 351

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
                                EQ  I   +      I     +     ++     Q + 
Sbjct: 352 MPRSDWGLVSNARTFIPINHLEQERISSVLFGLDHAITLYEHKLEILNKIKSFLLQNMF 410


>gi|291540207|emb|CBL13318.1| Restriction endonuclease S subunits [Roseburia intestinalis XB6B4]
          Length = 414

 Score = 87.2 bits (214), Expect = 4e-15,   Method: Composition-based stats.
 Identities = 55/402 (13%), Positives = 123/402 (30%), Gaps = 22/402 (5%)

Query: 29  PIKRFTKLNTGRTSESG------KDIIYIGLEDVESGT-GKYLPKDGNSRQSDTSTVSIF 81
            IK   ++ TG+T  +G       +I++I   D+      +   K        +   +  
Sbjct: 18  KIKDIGRVVTGKTPLTGVNEYYGGNIMFISPSDLHGDYLIEKSEKTITEEGLKSIESNSI 77

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQF-LVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
               +L G +G  +    + +     + Q   ++     L +    +         + +I
Sbjct: 78  DGISVLTGCIGWDMGNVAMCNSRCATNQQINAIIDFNHKLVDPRYVYYWLKGKKDYLFSI 137

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
                          NI +P+P L  Q  + + +      ID  I +  +  + L+E  +
Sbjct: 138 ASVTRTPILSKSVFENIDIPLPSLKIQERVTKLL----SLIDEKIRKNHQINDYLEEMAK 193

Query: 201 ALVSYIVTKGLNPD---VKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
            +  Y   +   PD      K SG + +     +  +   +   +  N       +   L
Sbjct: 194 TIYDYWFVQFDFPDENGNPYKSSGGKMIFCKELNRNIPQNWEYTSVGNITKCLDSDRIPL 253

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ-VMERGII 316
           S      ++             Y    I     ++        D       Q +     I
Sbjct: 254 SSHQREEMKGTIPYYGATGIMDYVNRPIFSGDFVLLAEDGSVMDDNGNPILQRISGDVWI 313

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
            +    ++P    S  L +L+       +       ++  +   ++    +L  P + + 
Sbjct: 314 NNHTHVLQPVNGYSCRLLYLLLKNIPVSMIK--TGSIQLKINQANLNSYNILNIPKEIRT 371

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
              N I     +I  L    ++   +L + R   +   + GQ
Sbjct: 372 QFINQIEPMDTKIIQL----QKENNILVQTRDWLLPILMNGQ 409


>gi|260664491|ref|ZP_05865343.1| type IC HsdS subunit [Lactobacillus jensenii SJ-7A-US]
 gi|260561556|gb|EEX27528.1| type IC HsdS subunit [Lactobacillus jensenii SJ-7A-US]
          Length = 406

 Score = 87.2 bits (214), Expect = 4e-15,   Method: Composition-based stats.
 Identities = 54/394 (13%), Positives = 119/394 (30%), Gaps = 39/394 (9%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTG---KYLPKDGNSRQSDTSTVS 79
           + W+   +K   +  +G + +   D  +   + +          +      +    +   
Sbjct: 12  ESWRTEKLKNIGESFSGLSGKKSSDFGHGEAKYITYLNILNNPIIDTKLTDKIEIDNKQH 71

Query: 80  IFAKGQILYGKLGPYLRKAII---------ADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
           +  KG I +       ++  +           +    S  + + +              S
Sbjct: 72  LVKKGDIFFTISSETPQEVGLSSVLDTNLNECYLNSFSFGYRLKEISMFDNLFNSYNFRS 131

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
            +  +++  + +G +  +   K + N  +  P ++EQ  I + I      +     +   
Sbjct: 132 PNFRRKMYILAQGISRYNISKKAVLNETICFPKISEQKQIGKLIKLMNSLLSLQHRKMEL 191

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
             +  K     L           +   K    E                  + L+ KN  
Sbjct: 192 ENQTSKAIYNYLFDKNKPFYFKDNKTKKVFLKE-------------LGTTYSGLSGKNKT 238

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKP--ESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
                         + K    N  L    E  +    V  G+I+F       ++  L S 
Sbjct: 239 DFGHGKAKYITYLNVNKNTIANHNLLDLIEIDKKQNEVLNGDILFTISSETPEEVGLASL 298

Query: 309 QVME--RGIITSAYMAVKPH-GIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKR 364
              +     + S     +P+  I++ +LA+ +RS  + K  Y +  G+ R +L  + V  
Sbjct: 299 WPYDDTNIYLNSFCFGFRPNSKINNLWLAYELRSLKIRKNMYKLAQGISRYNLSKKSVLN 358

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
           L V VP   EQ           ++   L+    +
Sbjct: 359 LQVDVPSDAEQN--------FDSKFVKLINIQTK 384



 Score = 54.4 bits (129), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 27/172 (15%), Positives = 59/172 (34%), Gaps = 11/172 (6%)

Query: 246 RKNTKLIESNILSLSYGNIIQK-LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
           +K++         ++Y NI+   +    +  K E      +V  G+I F        +  
Sbjct: 32  KKSSDFGHGEAKYITYLNILNNPIIDTKLTDKIEIDNKQHLVKKGDIFFTISSETPQEVG 91

Query: 305 LRSAQVMERG-----IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLK 358
           L S              +  Y   +    D+ + ++  RS +  +  Y +  G+ R ++ 
Sbjct: 92  LSSVLDTNLNECYLNSFSFGYRLKEISMFDNLFNSYNFRSPNFRRKMYILAQGISRYNIS 151

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
            + V    +  P I EQ  I          ++ L+    + + L  +   + 
Sbjct: 152 KKAVLNETICFPKISEQKQIG----KLIKLMNSLLSLQHRKMELENQTSKAI 199


>gi|294794795|ref|ZP_06759930.1| HsdS, type I site-specific deoxyribonuclease [Veillonella sp.
           3_1_44]
 gi|294454157|gb|EFG22531.1| HsdS, type I site-specific deoxyribonuclease [Veillonella sp.
           3_1_44]
          Length = 406

 Score = 87.2 bits (214), Expect = 4e-15,   Method: Composition-based stats.
 Identities = 54/409 (13%), Positives = 121/409 (29%), Gaps = 34/409 (8%)

Query: 26  KVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           K  P+        G   +        +  I + ++ +G              D       
Sbjct: 18  KRYPLYDLALWKNGLAFKKIHFSDTGVPVIKIAELNNGISGNTSYTKQIFSDDVH----L 73

Query: 82  AKGQILYGKLGPYLRKAIIADFD---GICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
            K  +L+   G       I  F    G  +     + P + + +    + L   +     
Sbjct: 74  KKEDLLFSWSGNPQTSIDIFKFQLQEGWLNQHIFKVTPNEEIVDRDYFYFLMKYLKPWFT 133

Query: 139 ---AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
              +  +   + H     I  + + +P L  Q  I + +      ID  I         L
Sbjct: 134 QIASNKQTTGLGHVTIADIKRMSVLVPSLTMQKKIVDVLKP----IDDKIQINTSINNNL 189

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
           +++ +AL   +  + +NP    K+  +  +G V                  K        
Sbjct: 190 EQQAEALFHSLFVEDVNPIW--KEGVLSDLGTVVAGGTPSK---------TKPEYYSRKG 238

Query: 256 ILSLSYGN-IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
           I  ++  +  + K +  + G    S   +      ++    +   +       A      
Sbjct: 239 IAWITPKDLSLNKSKFISHGEIDISELGFSKSSAIKMPTGTVLFSSRAPIGYIAIAANEV 298

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKE 374
                + +V P+    T   + +  + L  +         + +    +K +PV++P  + 
Sbjct: 299 TTNQGFKSVVPNENVGTAFMYYLLRFLLPTIEGMASGSTFKEISGAGMKSVPVVIPDNET 358

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
                +  N     I    E +E     L + R + +   + G +D+ G
Sbjct: 359 ----IDKFNAFCTPIFQQQEVLEAENSRLVDIRDALLPKLMAGDLDVSG 403



 Score = 45.9 bits (107), Expect = 0.012,   Method: Composition-based stats.
 Identities = 28/166 (16%), Positives = 53/166 (31%), Gaps = 12/166 (7%)

Query: 25  WKVVPIKRFTKLNTGRTSESG-------KDIIYIGLEDVESGTGKYL---PKDGNSRQSD 74
           WK   +     +  G T           K I +I  +D+     K++     D +     
Sbjct: 209 WKEGVLSDLGTVVAGGTPSKTKPEYYSRKGIAWITPKDLSLNKSKFISHGEIDISELGFS 268

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
            S+      G +L+    P    AI A+     +  F  + P + +      + L   + 
Sbjct: 269 KSSAIKMPTGTVLFSSRAPIGYIAIAANEV-TTNQGFKSVVPNENV-GTAFMYYLLRFLL 326

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
             IE +  G+T       G+ ++P+ IP                 +
Sbjct: 327 PTIEGMASGSTFKEISGAGMKSVPVVIPDNETIDKFNAFCTPIFQQ 372


>gi|146294001|ref|YP_001184425.1| restriction modification system DNA specificity subunit [Shewanella
           putrefaciens CN-32]
 gi|145565691|gb|ABP76626.1| restriction modification system DNA specificity domain [Shewanella
           putrefaciens CN-32]
          Length = 440

 Score = 87.2 bits (214), Expect = 4e-15,   Method: Composition-based stats.
 Identities = 53/406 (13%), Positives = 125/406 (30%), Gaps = 31/406 (7%)

Query: 47  DIIYIGLEDVESGTGKYLPKDGNSRQSDT---STVSIFAKGQILYGKLGPYLRKAIIADF 103
              YI +  ++ G  +    +    ++D    +   +  +  ++  +     + A +   
Sbjct: 33  GFPYIAIPQLKDGHVRVDGTERRISETDFMQWTKKLLPQENDVIVVRRCNSGQSAYVPKG 92

Query: 104 -DGICSTQFLVLQP--KDVLPELLQGWLLSIDVTQRIEAICE-GATMSHADWKGIGNIPM 159
                    +VL+   K V P  L+  + S +  +++      GA       + I    +
Sbjct: 93  VKWAIGQNLVVLRSDGKKVYPPFLRWLVRSDEWWEQVRKYLNVGAVFDSLKCREIPLFEL 152

Query: 160 PIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKD 219
           PIPP+  Q+ I   + +   RI+ L         + +   ++          N   +   
Sbjct: 153 PIPPMVAQIEIATVLNSIDARIELLRETNTTLEAIAQALFKSWFVDFDPVHANAGTQAPS 212

Query: 220 SGIEWV------------GLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK 267
              E              G +P+ W +      V  +             + +       
Sbjct: 213 LPPEIQALFPATFIDSPQGPIPEGWALGTIADAVATVGGATPDTKNGEFWNPAEVAWTSP 272

Query: 268 LETRNMGL-------KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
            +   +         +  S +    +  G +    + + +       A       I   Y
Sbjct: 273 KDLSGLNTPVLLDTERKVSEKGLAKISSGLLPAGTLLMSSRAPIGYLAIAQLPLAINQGY 332

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
           +A+ P G             ++  +           +  +  + + +++PP++      N
Sbjct: 333 IAIPPGGRLPPLYMLFWCRQNMEIIKNRANGSTFMEISKKAFRPIELVLPPVEVIEAFVN 392

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
           V        D LVE  E+    L   R + +   ++GQ+ L  E++
Sbjct: 393 VAQPLF---DRLVEN-EKQAQTLATLRDTLLPRLISGQLRL-PEAK 433



 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 29/196 (14%), Positives = 53/196 (27%), Gaps = 12/196 (6%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYLPKDGNSR 71
           G IP+ W +  I        G T ++         ++ +   +D+       L       
Sbjct: 231 GPIPEGWALGTIADAVATVGGATPDTKNGEFWNPAEVAWTSPKDLSGLNTPVLLDTERKV 290

Query: 72  QSDTSTVS---IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL 128
                      +   G +L     P      IA      +  ++ + P   LP  L    
Sbjct: 291 SEKGLAKISSGLLPAGTLLMSSRAPI-GYLAIAQLPLAINQGYIAIPPGGRLP-PLYMLF 348

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
                 + I+    G+T      K    I + +PP+               R+     + 
Sbjct: 349 WCRQNMEIIKNRANGSTFMEISKKAFRPIELVLPPVEVIEAFVNVAQPLFDRLVENEKQA 408

Query: 189 IRFIELLKEKKQALVS 204
                L       L+S
Sbjct: 409 QTLATLRDTLLPRLIS 424


>gi|302668598|ref|YP_003833046.1| type I restriction modification system S subunit HsdS1
           [Butyrivibrio proteoclasticus B316]
 gi|302397562|gb|ADL36464.1| type I restriction modification system S subunit HsdS1
           [Butyrivibrio proteoclasticus B316]
          Length = 388

 Score = 87.2 bits (214), Expect = 4e-15,   Method: Composition-based stats.
 Identities = 60/399 (15%), Positives = 126/399 (31%), Gaps = 43/399 (10%)

Query: 25  WKVVPIKRFTKLNT----GRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS- 79
           W+      FT+L +     +   + + + +    DV S       +     +     +S 
Sbjct: 16  WEQRKFGNFTELKSASRVHKDEWTSEGVPFYRSSDVMSAINGTQNEKAFISEELYEKLSS 75

Query: 80  ---IFAKGQILYGKLGPYLRKAIIADFDGICS---TQFLVLQPKDVLPELLQGWLLSIDV 133
                 KG +L    G      I+ D   + +       +          +  +  S   
Sbjct: 76  VSGKLEKGDVLVTGGGSVGNPYIVPDNKPLYTKDADLLWIKNQGRFDAYFIYEFFFSPTF 135

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            + +E+I    T++H     +   P+ +P L EQ  + +        ID LIT   R  +
Sbjct: 136 RKYLESISHVGTIAHYTITQLTETPVSLPSLEEQKKVGDY----FRSIDNLITLHQRKCD 191

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
             KE K+ ++  +  K      +++ +G           +V    + +         L E
Sbjct: 192 ETKELKKYMLQKMFPKNGETKPEIRFAGFTGDWEQRKFSDVVEIGSGM-----DYKHLGE 246

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
            +I     G  +  ++               + +  + +        DK  +  A     
Sbjct: 247 GDIPVYGTGGYMLSVD-------------AALSEEKDAIGIGRKGTIDKPYILRA---PF 290

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
             + + +  +   G D  + + L ++ D  K      S    SL    +  +    P  +
Sbjct: 291 WTVDTLFYCIPKDGYDLDFTSCLFQNIDWKK---KDESTGVPSLSKVIINNVETAAPSYE 347

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           EQ  I +        ID L+   ++     KE +   + 
Sbjct: 348 EQRKIGDY----FKGIDNLITLHQRKCDETKELKKYMLQ 382



 Score = 74.1 bits (180), Expect = 4e-11,   Method: Composition-based stats.
 Identities = 23/204 (11%), Positives = 55/204 (26%), Gaps = 10/204 (4%)

Query: 215 VKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMG 274
             ++ SG                 +       + T        S    + I   +     
Sbjct: 5   PNIRFSGYTDAWEQRKFGNFTELKSASRVHKDEWTSEGVPFYRSSDVMSAINGTQNEKAF 64

Query: 275 LKPESYET----YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
           +  E YE        ++ G+++        +   +   + +                 D+
Sbjct: 65  ISEELYEKLSSVSGKLEKGDVLVTGGGSVGNPYIVPDNKPLYTKDA-DLLWIKNQGRFDA 123

Query: 331 TYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
            ++     S    K   ++   G         +   PV +P ++EQ  + +        I
Sbjct: 124 YFIYEFFFSPTFRKYLESISHVGTIAHYTITQLTETPVSLPSLEEQKKVGDY----FRSI 179

Query: 390 DVLVEKIEQSIVLLKERRSSFIAA 413
           D L+   ++     KE +   +  
Sbjct: 180 DNLITLHQRKCDETKELKKYMLQK 203


>gi|24115563|ref|NP_710073.1| hypothetical protein SF4364 [Shigella flexneri 2a str. 301]
 gi|110808124|ref|YP_691644.1| hypothetical protein SFV_4365 [Shigella flexneri 5 str. 8401]
 gi|24054894|gb|AAN45780.1| orf, conserved hypothetical protein [Shigella flexneri 2a str. 301]
 gi|110617672|gb|ABF06339.1| conserved hypothetical protein [Shigella flexneri 5 str. 8401]
 gi|281603673|gb|ADA76657.1| hypothetical protein SFxv_4757 [Shigella flexneri 2002017]
          Length = 553

 Score = 87.2 bits (214), Expect = 4e-15,   Method: Composition-based stats.
 Identities = 47/190 (24%), Positives = 78/190 (41%), Gaps = 2/190 (1%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLED-VESGTGKYLPKDGNSRQSDTSTV 78
            +P+ W+   I     + +   S      +Y    D +E GTG+ + K            
Sbjct: 365 ELPEGWEWCRIGNIVNIKSELVSPKDYLNLYQVAPDIIEKGTGRVISKRTVKESGVKGPN 424

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           S F KGQI+Y K+ P L K  +A+++G+CS     L    + P  L  ++LSI    +++
Sbjct: 425 SRFYKGQIVYSKIRPSLSKVFLAEYNGLCSADMYPLDC-YINPNYLLKYILSIPFLMQVK 483

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
                  M   +     NI + IPP  EQ  I +KI +     + LI+    + +     
Sbjct: 484 KAENRIKMPKLNSDSFYNIIVAIPPYNEQQAIFDKINSIEAVCNGLISYIGIYHKTQLHL 543

Query: 199 KQALVSYIVT 208
             AL    + 
Sbjct: 544 ADALTDAAIN 553



 Score = 74.8 bits (182), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 56/455 (12%), Positives = 118/455 (25%), Gaps = 67/455 (14%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRF-TKLNTGRTSESGKDIIYIGLEDVESG 59
           +K  K  P+   S  +    +P+ W+ V +      ++         +I+  G   V   
Sbjct: 83  IKKQKPLPEI--SEEEKPFELPEGWEWVHLPDIYCSISESSRKIKSSEILPEGKYPVIEQ 140

Query: 60  TGKYLPKDGNSR------------QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGIC 107
           + +++    N+               D +    F     + G  G  +   I+       
Sbjct: 141 SQEFISGYCNNECLLIKLNNPVIVFGDHTRNIKFIDFDFVVGADGVKILSPILICERFFF 200

Query: 108 ST-------------QFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGI 154
                           F VL         +      ++    + ++C+            
Sbjct: 201 WQLRSFKLDVRGYARHFKVLNSCLFALPPIAEQERIVEKVSSLMSLCDQLEQQSLTSLDA 260

Query: 155 GN-IPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNP 213
              +   +           ++     RI             +   KQ ++   V   L P
Sbjct: 261 HQQLVETLLGTLTDSQNTAELAENWARISEHFDTLFTTEASVDALKQTILQLAVMGKLVP 320

Query: 214 DVKMKD-------------------------------SGIEWVGLVPDHWEVKPFFALVT 242
                +                               S  E    +P+ WE      +V 
Sbjct: 321 QDPNDEPASELLKRIAQEKAQLVKEGKIKKQKPLPPISDEEKPFELPEGWEWCRIGNIVN 380

Query: 243 EL---NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQ 299
                      L    +          ++ ++    +            G+IV+  I   
Sbjct: 381 IKSELVSPKDYLNLYQVAPDIIEKGTGRVISKRTVKESGVKGPNSRFYKGQIVYSKIRPS 440

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKF 359
             K  L        G+ ++    +  +   +  L +++    L +V  A        L  
Sbjct: 441 LSKVFLAEY----NGLCSADMYPLDCYINPNYLLKYILSIPFLMQVKKAENRIKMPKLNS 496

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
           +    + V +PP  EQ  I + IN   A  + L+ 
Sbjct: 497 DSFYNIIVAIPPYNEQQAIFDKINSIEAVCNGLIS 531



 Score = 55.6 bits (132), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 32/192 (16%), Positives = 65/192 (33%), Gaps = 15/192 (7%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
           S  E    +P+ WE      +   ++  + K+  S IL      +I++ +    G     
Sbjct: 93  SEEEKPFELPEGWEWVHLPDIYCSISESSRKIKSSEILPEGKYPVIEQSQEFISGYCNNE 152

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
                ++     V  F D   +          +  +       + P  I   +  W +RS
Sbjct: 153 ---CLLIKLNNPVIVFGDHTRN----IKFIDFDFVVGADGVKILSPILICERFFFWQLRS 205

Query: 340 YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
           + L    YA          F+ +      +PPI EQ  I   ++   +  D L ++   S
Sbjct: 206 FKLDVRGYAR--------HFKVLNSCLFALPPIAEQERIVEKVSSLMSLCDQLEQQSLTS 257

Query: 400 IVLLKERRSSFI 411
           +   ++   + +
Sbjct: 258 LDAHQQLVETLL 269


>gi|120556289|ref|YP_960640.1| restriction modification system DNA specificity subunit
           [Marinobacter aquaeolei VT8]
 gi|120326138|gb|ABM20453.1| restriction modification system DNA specificity domain
           [Marinobacter aquaeolei VT8]
          Length = 485

 Score = 87.2 bits (214), Expect = 4e-15,   Method: Composition-based stats.
 Identities = 58/472 (12%), Positives = 132/472 (27%), Gaps = 77/472 (16%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDI----IYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
             W  V +        G+  +  K+      Y+G  +V  G            +      
Sbjct: 3   SDWPRVRLGDHIDSCLGKMLDKKKNKGIQQPYLGNSNVRWGEFDLSDLAQMKFEESEHER 62

Query: 79  SIFAKGQILYGKLGPYLRKAIIADF--DGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
                G ++  + G   R AI      D         ++ K  L      +         
Sbjct: 63  YGITYGDLIVCEGGEPGRCAIWKAELPDMKIQKALHRIRTKSSLNNRYLYYWFYHAGKHG 122

Query: 137 -IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            +E    G T+ H   + + N+ +P+PPL+ Q  + E + +   +I           ++ 
Sbjct: 123 LLEPYFTGTTIKHLTGRALNNLEIPLPPLSHQEFMAEVLGSLDDKIQLNHQTNQTLEQMA 182

Query: 196 KEKKQALVSYI--------------------------------------------VTKGL 211
           +   ++                                                     L
Sbjct: 183 QAIFKSWFVDFEPVKAKIAALAAGGSEEDALLAAMQAISGKGEAELSRLQTEQPEQYAEL 242

Query: 212 NPDVKMKDSGIE--WVGLVPDHWEVKPFFALVTELNRKNTKL-----IESNILSLSYGNI 264
               ++  S ++   +G +P+ WE       +  L   +        I   + S+   NI
Sbjct: 243 RATAELFPSAMQDSELGEIPEGWEASQLGGYLDTLETGSRPKGGVSGITEGVPSVGAENI 302

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEI----------VFRFIDLQNDKRSLRSAQVMERG 314
           +          K  S + +  +  G +            +  D +             + 
Sbjct: 303 VGVGNYHYGKEKFVSVDFFNKLKRGIVEHLDCLLYKDGGKPGDFKPRVSMFGCGFPYNKL 362

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY-AMGSGLRQSLKFEDVKRLPVLVPPIK 373
            I      ++   +   YL +L+    +               +   DVK +  + PP  
Sbjct: 363 AINEHVFRLRSQRLGQPYLYFLIGHERVLADLRHKGAKAAIPGINQTDVKTVWTVCPP-- 420

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLK--ERRSSFIAAAVTGQIDLRG 423
              ++ ++ N    +   L   + +S   L+  + R + +   ++G++ +  
Sbjct: 421 --REVLDIFNTIAEK--SLTSILTRSKESLRLSKLRDTLLPKLLSGELSVSD 468



 Score = 42.5 bits (98), Expect = 0.14,   Method: Composition-based stats.
 Identities = 16/76 (21%), Positives = 27/76 (35%), Gaps = 10/76 (13%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPI-KRFTKLNTGRTSESG-----KDIIYIGLEDVESGTGK 62
             +DS    +G IP+ W+   +      L TG   + G     + +  +G E++  G G 
Sbjct: 252 AMQDSE---LGEIPEGWEASQLGGYLDTLETGSRPKGGVSGITEGVPSVGAENI-VGVGN 307

Query: 63  YLPKDGNSRQSDTSTV 78
           Y          D    
Sbjct: 308 YHYGKEKFVSVDFFNK 323


>gi|187930240|ref|YP_001900727.1| restriction modification system [Ralstonia pickettii 12J]
 gi|187727130|gb|ACD28295.1| restriction modification system, type I [Ralstonia pickettii 12J]
          Length = 394

 Score = 87.2 bits (214), Expect = 5e-15,   Method: Composition-based stats.
 Identities = 64/399 (16%), Positives = 139/399 (34%), Gaps = 38/399 (9%)

Query: 27  VVPIKRFTKLNTGRTSESGKD--IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           +V      +L+  R+ +   D    Y+GLE +E G  +       +     ++  +F  G
Sbjct: 12  LVKFGDVVRLSKARSQDPLADGIERYVGLEHLEPGDLRIRSWGSVADGVTFTS--VFQPG 69

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV---LPELLQGWLLSIDVTQRIEAIC 141
           Q+L+GK   Y RK  +ADF G+CS    VL+ KD    LPELL     +           
Sbjct: 70  QVLFGKRRAYQRKVAVADFSGVCSGDIYVLETKDAQVLLPELLLFICQTDAFFDHAVGTS 129

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            G+     +W  + +    +PP+ EQ      + A T +   +    +    +L+  K +
Sbjct: 130 AGSLSPRTNWASLADFEFVLPPIEEQQSAIVLLSAATDQCHAIEAAHLAAGRMLQSFKDS 189

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
           ++ Y  +   NP +       + +   P+     P                   +L L+ 
Sbjct: 190 MLLYNTSAVANPYLL-----SDVLLRSPESGCSAP----------PKDADTGYFVLGLAA 234

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
            +    +      ++P S      +  G+++    +  +    +         +     M
Sbjct: 235 LSRDGYVSGDFKPVEPTSKMVAAKLSKGDMLISRSNTVDRVGFVGIFSDNRDDVSFPDTM 294

Query: 322 ---AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQ 375
                 P  +   +L  L+++    +    + +G     + +   ++ ++ + VP +  Q
Sbjct: 295 MRLRPNPALVHPDFLEALLQTTSAREYLMRIAAGTSASMKKINRANLLQMRLNVPDLDAQ 354

Query: 376 FDITNVINVETARIDVLVEKIEQ------SIVLLKERRS 408
               + ++         +   +        +  L   R+
Sbjct: 355 E---SALDAL-QEFKNAIATQKARWDAALQLTKLIAMRT 389



 Score = 53.6 bits (127), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 19/152 (12%), Positives = 51/152 (33%), Gaps = 10/152 (6%)

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
              L  R+ G   +      +  PG+++F        K ++        G+ +     ++
Sbjct: 45  PGDLRIRSWGSVADGVTFTSVFQPGQVLFGKRRAYQRKVAVADFS----GVCSGDIYVLE 100

Query: 325 PHGI---DSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQF-DIT 379
                      L ++ ++           +G       +  +     ++PPI+EQ   I 
Sbjct: 101 TKDAQVLLPELLLFICQTDAFFDHAVGTSAGSLSPRTNWASLADFEFVLPPIEEQQSAIV 160

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
            +++  T +   +      +  +L+  + S +
Sbjct: 161 -LLSAATDQCHAIEAAHLAAGRMLQSFKDSML 191


>gi|330907934|gb|EGH36453.1| type 1 restriction-modification system, specificity subunit S
           [Escherichia coli AA86]
          Length = 372

 Score = 87.2 bits (214), Expect = 5e-15,   Method: Composition-based stats.
 Identities = 61/398 (15%), Positives = 123/398 (30%), Gaps = 44/398 (11%)

Query: 26  KVVPIKRFTKLNTG-----RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           ++V + +   + +G             +  I + D+ SG      K     +       +
Sbjct: 5   QLVTLGKHIDILSGCAFPSSGFNRNNGVPLIRIRDILSG------KTETYYEGSYDLKYL 58

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
             KG +L G  G + R+      D + + +   + P     +    +        +I A 
Sbjct: 59  IKKGDLLVGMDGDFNRE-YWKGTDALLNQRVCKITPNPETLDKNFLYHFLQKELDKIHAT 117

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
            +  T+ H   K I +I + +P L EQ  I   +      I     + I+  +       
Sbjct: 118 TDVVTVKHLSVKKIQDIKIRLPSLKEQKRIAAILDKADA-IHQKREQAIKLADDFLRATF 176

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
           A +        NP    K   +  +G + +                K+  + E     + 
Sbjct: 177 ATM------YGNPITNPKKWPVHLMGEIIEFK--------GGNQPPKSDFIFEPKQGYIR 222

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
              I      +     P+      I +  +++            +        G    A 
Sbjct: 223 LVQIRDFKSDKYATYIPQEKAKR-IFEVDDVMIARYGPP-----VFQILRGLSGSYNVAL 276

Query: 321 MAVKPHGIDSTYL-AWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQFD 377
           M   P          +L++  +   V       +  +  +  E + +  V +PPI  Q +
Sbjct: 277 MKASPKENIRKGFIFYLLQLPEYHDVVVKNSERTAGQTGVNLELLNKFNVPLPPIYYQDE 336

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLK----ERRSSFI 411
           I   +    ARI+   EKIE S+  L+      +   +
Sbjct: 337 ILARL----ARIEKFKEKIEISLNHLEMQFLSLQKRLM 370



 Score = 42.9 bits (99), Expect = 0.11,   Method: Composition-based stats.
 Identities = 22/185 (11%), Positives = 56/185 (30%), Gaps = 4/185 (2%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVE-SGTGKYLPKDGNSRQSDTSTVSI 80
           PK W V  +    +   G        I       +       +      +         I
Sbjct: 187 PKKWPVHLMGEIIEFKGGNQPPKSDFIFEPKQGYIRLVQIRDFKSDKYATYIPQEKAKRI 246

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR--IE 138
           F    ++  + GP + +  +    G  +   +   PK+ + +    +LL +       ++
Sbjct: 247 FEVDDVMIARYGPPVFQI-LRGLSGSYNVALMKASPKENIRKGFIFYLLQLPEYHDVVVK 305

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
                A  +  + + +    +P+PP+  Q  I  ++       + +              
Sbjct: 306 NSERTAGQTGVNLELLNKFNVPLPPIYYQDEILARLARIEKFKEKIEISLNHLEMQFLSL 365

Query: 199 KQALV 203
           ++ L+
Sbjct: 366 QKRLM 370


>gi|237654255|ref|YP_002890569.1| restriction modification system DNA specificity domain protein
           [Thauera sp. MZ1T]
 gi|237625502|gb|ACR02192.1| restriction modification system DNA specificity domain protein
           [Thauera sp. MZ1T]
          Length = 532

 Score = 87.2 bits (214), Expect = 5e-15,   Method: Composition-based stats.
 Identities = 62/416 (14%), Positives = 131/416 (31%), Gaps = 30/416 (7%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +P  W V         +    + + +      L  V S   K+  +         ST  
Sbjct: 10  DLPAGWDVASFGELNSFSGSTVNPATRPDEVFELYSVPSFPTKHPEQLPGRAIG--STKQ 67

Query: 80  IFAKGQILYGKLGPYLRKAI----IADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
               G +L  K+ P + +        D + I S++++  +   ++P   + +        
Sbjct: 68  TVRPGDVLVCKINPRINRVWTVGTRRDHEQIASSEWIGFRSDAMVPRFAKHYFSEPSFRS 127

Query: 136 --RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
               E    G +++ A    +   P+ + PLAEQ  I +++ A   RI            
Sbjct: 128 LLCSEVSGVGGSLTRAQPSRVAKYPVLVAPLAEQARIADQLEALLARIQACQDRLEAIPA 187

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR------K 247
           LLK  ++ ++S  ++  L    +         G+  D W  +    +             
Sbjct: 188 LLKRFRKLVLSSALSGDLTEVWRA------EQGVGLDTWSARTIADVAEVGTGSTPLRSN 241

Query: 248 NTKLIESNILSLS---YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
           +    E+    ++             + +          ++  PG ++         +  
Sbjct: 242 SNFYAETGTPWVTSAATSRPYIDSADQYVTKAAIDAHRLRVYRPGTLIIAMYGEGKTRGQ 301

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKR 364
           +   ++        A + V     ++ ++   + S        A G G + +L    V+ 
Sbjct: 302 VSELRIDATINQACAAITVDEQQANAAFVKLALLSQYEQTRALAEG-GAQPNLNLSKVRG 360

Query: 365 LPVLVPPIKEQFDITNVINVETA---RIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
           +P+ +P   EQ  I + +    A    ID  V         L       +A A  G
Sbjct: 361 IPLRLPEGPEQAQIVHRVGELFAFADTIDSRVAAATGKTRKLPSLT---LAKAFRG 413


>gi|191639032|ref|YP_001988198.1| Type I R/M system specificity subunit [Lactobacillus casei BL23]
 gi|190713334|emb|CAQ67340.1| Type I R/M system specificity subunit [Lactobacillus casei BL23]
          Length = 426

 Score = 87.2 bits (214), Expect = 5e-15,   Method: Composition-based stats.
 Identities = 56/417 (13%), Positives = 125/417 (29%), Gaps = 37/417 (8%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPK-------------DGNSR 71
           W+   +     + T   +      +   +    +    Y+ +               + +
Sbjct: 20  WEKRKLGEIFNVVTDYVANGSFKSLRQRVSTYSNPNFAYMIRLQDASNNWKGPWLYTDQQ 79

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADF--DGICSTQFLVLQPKDVLPELLQGWLL 129
                  +    G IL   +G   +  ++ D       +   ++L+        L   L 
Sbjct: 80  SYSFLAKTKLNPGDILMSNVGSVGKFFLVPDLDRPMTLAPNAILLRSMTYSTYFLFQLLQ 139

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
           +  +T+ I            +   +  I   +P L E  ++ + +      +D LI    
Sbjct: 140 TSSMTESINEKTTPGVQQKINKTDLKKIITNVPTLNESSMVGQML----SLLDNLIAATQ 195

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNT 249
             +  LK+ K   +  I     +   +++  G      V  H+++     +  E   K  
Sbjct: 196 DKLSFLKKMKMFFLQQIFPTKNHDVPQIRFDG---FTDVWSHYKLGSLMRIDKEQEVKKE 252

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRF----------IDLQ 299
            L +              ++      KP        V   + +              +L 
Sbjct: 253 LLTDIQKGFYVLAMRTFSMDGYIDHSKPYWLNHLDNVSDDKFLLPREFAILDADMDANLP 312

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLK 358
              R L +A   +  +           G D  ++  LMR   + +      +G   + L 
Sbjct: 313 KIGRVLLNASSEKYLLAAHVRKIQVKSGNDPIFIYALMRGNSVHERLKLEANGSISKRLL 372

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            ++V +  +LVP   EQ  I          ++  +   +Q I +LK+ + S +    
Sbjct: 373 DKNVYKQSILVPNRSEQSRIGR----LFFLLETTITLHQQKIKMLKQVKKSCLQNLF 425


>gi|254433927|ref|ZP_05047435.1| Type I restriction modification DNA specificity domain protein
           [Nitrosococcus oceani AFC27]
 gi|207090260|gb|EDZ67531.1| Type I restriction modification DNA specificity domain protein
           [Nitrosococcus oceani AFC27]
          Length = 505

 Score = 87.2 bits (214), Expect = 5e-15,   Method: Composition-based stats.
 Identities = 24/135 (17%), Positives = 55/135 (40%), Gaps = 1/135 (0%)

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC 343
            +++ G+I+             ++     +   T          +DS +    + S +  
Sbjct: 31  YVINKGDILIGMSGAIGKVCRYKNGFPALQNQRTGKIEVFDESQMDSRFFGLYLSSIEGE 90

Query: 344 KVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
            +  A G  ++ ++  +D++ LP+ +PP  EQ  I   I    + +D  +E ++ +   L
Sbjct: 91  LIRQAKGMAVQ-NISAKDIEALPLGLPPYNEQQRIVAKIEELFSELDKGIESLKTAREQL 149

Query: 404 KERRSSFIAAAVTGQ 418
           K  R + +  A  G+
Sbjct: 150 KVYRQAVLKHAFEGK 164



 Score = 75.2 bits (183), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 22/158 (13%), Positives = 57/158 (36%), Gaps = 4/158 (2%)

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
           +   + R++ L     + Y++     +  R     N    +   +          ++  +
Sbjct: 283 VDSSDLRSIKLDATEIQKYELSRNDLLCIRVNGSPNLVGRMILFKHDNVMAYCDHFIRFR 342

Query: 325 PHG--IDSTYLAWLMRSYDLCKVF--YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
                +  +Y+  L  +  + +      + S  + ++    +  L +    + EQ  I +
Sbjct: 343 FPQGIVLPSYIQMLFDTQTVRRYIELNKVSSAGQNTVSQTTISALAIPYCSLMEQKIIVS 402

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            +  +   I  +  +IE++   LK  R S +  A +GQ
Sbjct: 403 RLEEQLTSISAVKVEIEENFQRLKSLRQSILKKAFSGQ 440



 Score = 55.2 bits (131), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 33/207 (15%), Positives = 66/207 (31%), Gaps = 12/207 (5%)

Query: 22  PKHWKVVPIKRFTK-LNTGRTS---ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           P  W  + ++   +    G       SGK I  I L D+++              +    
Sbjct: 240 PNGWISIQLRELFESTQNGLAKRQGTSGKPIPVIRLADIKNQEVDSSDLRSIKLDATEIQ 299

Query: 78  VSIFAKGQILYGKLGPYLRKAIIA------DFDGICSTQFLVLQPKDV-LPELLQGWLLS 130
               ++  +L  ++                +    C        P+ + LP  +Q    +
Sbjct: 300 KYELSRNDLLCIRVNGSPNLVGRMILFKHDNVMAYCDHFIRFRFPQGIVLPSYIQMLFDT 359

Query: 131 IDVTQRIE-AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
             V + IE      A  +      I  + +P   L EQ +I  ++  +   I  +  E  
Sbjct: 360 QTVRRYIELNKVSSAGQNTVSQTTISALAIPYCSLMEQKIIVSRLEEQLTSISAVKVEIE 419

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVK 216
              + LK  +Q+++    +  L P   
Sbjct: 420 ENFQRLKSLRQSILKKAFSGQLVPQDP 446



 Score = 47.5 bits (111), Expect = 0.004,   Method: Composition-based stats.
 Identities = 30/142 (21%), Positives = 49/142 (34%), Gaps = 6/142 (4%)

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQ----FLVLQPKDVLPELLQGWLLSIDVT 134
            +  KG IL G  G   +     +       Q      V     +       +L SI+  
Sbjct: 31  YVINKGDILIGMSGAIGKVCRYKNGFPALQNQRTGKIEVFDESQMDSRFFGLYLSSIEG- 89

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             +    +G  + +   K I  +P+ +PP  EQ  I  KI      +D  I       E 
Sbjct: 90  -ELIRQAKGMAVQNISAKDIEALPLGLPPYNEQQRIVAKIEELFSELDKGIESLKTAREQ 148

Query: 195 LKEKKQALVSYIVTKGLNPDVK 216
           LK  +QA++ +     L    +
Sbjct: 149 LKVYRQAVLKHAFEGKLTAQWR 170


>gi|24379345|ref|NP_721300.1| putative type I restriction-modification system, specificity
           determinant; restriction endonuclease [Streptococcus
           mutans UA159]
 gi|24377270|gb|AAN58606.1|AE014930_8 putative type I restriction-modification system, specificity
           determinant [Streptococcus mutans UA159]
          Length = 603

 Score = 87.2 bits (214), Expect = 5e-15,   Method: Composition-based stats.
 Identities = 55/398 (13%), Positives = 124/398 (31%), Gaps = 21/398 (5%)

Query: 26  KVVPIKRFTKLNTGRTSESGKD--IIYIGLEDVESGTGKYLP-KDGNSRQSDTSTVSIFA 82
           +   ++  +      + +   +    YI L  V+  + K        + ++ +    I  
Sbjct: 215 EWKTLEEISVPIKNISWKENSERTYSYIDLSSVDRESKKITDITTITADKAPSRAQRIVK 274

Query: 83  KGQILYGKLGPYLRKAIIADFDG---ICSTQFLVLQ-PKDVLPELLQGWLLSIDVTQRIE 138
              I++G   P LR+      +    ICST F V +   +VLP  +     S D    +E
Sbjct: 275 TDDIIFGTTRPTLRRFAKVPENFNNQICSTGFYVFRASNEVLPSYIYHIFASNDFNSYVE 334

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
               GA+        +    +P+P L  Q  I + +       +         + +   K
Sbjct: 335 KNQSGASYPAIADSLVKKYKLPVPSLKIQSRIVQVLDNFDTVCND--------LNIGLPK 386

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
           +  L         +  +     G+     V    ++      V     K +     +I  
Sbjct: 387 EIELRQKQYEYFRDKLLTFTAEGVYTDSTVQYRQDLIRLLQWVFGP-IKVSLGSICSISR 445

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
                  Q  +     +   S       +          + +   +       +      
Sbjct: 446 GKRLIRSQLNKNGKYPVYQNSLIPLGYFNETNEEANTTFVISAGAAGEIGFSKQPFWKAD 505

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
               +    I+  +L +++ S    K+   +       L    ++ L V +P  + Q  I
Sbjct: 506 DVWTMSSEFINQRFLYYMLLSNQ-SKIKGQVRKASIPRLSKNVIENLTVCLPESEGQSRI 564

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKER----RSSFIA 412
            +V++     I+ + E + + I L +++    R   ++
Sbjct: 565 VSVLDKFDTLINSISEGLPKEIELRQKQYEYFRDKLLS 602



 Score = 54.8 bits (130), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 23/202 (11%), Positives = 62/202 (30%), Gaps = 2/202 (0%)

Query: 212 NPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETR 271
           +    +   G+EW   + +       F  V +  ++     E  +       ++   + +
Sbjct: 6   DMIKDLCPDGVEW-KKLWEVTIWDKKFNSVPKFKQQLVDKYEYLLAKDLSQMVVSGGDIK 64

Query: 272 NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST 331
            +   P +  T + V  GE   + I       +        + I     +A   +  +  
Sbjct: 65  ILTTSPSNLWTTEYVAGGEFFDKEIVAIPWGGNPIVQYYKGKFITGDNRIARVKNDDELL 124

Query: 332 YLAWLMRSYDLCKVFYA-MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
                    +  K+  +       Q      V    + +PP++ Q ++  +++  T  + 
Sbjct: 125 TKYLYYYLQNNLKLISSFYRGSGIQHPDMSKVLDTKIPIPPLEIQEEVVKILDKFTDYVT 184

Query: 391 VLVEKIEQSIVLLKERRSSFIA 412
            L  ++          R   ++
Sbjct: 185 ELTSELTLRQKQYSFYRDKLLS 206


>gi|291528110|emb|CBK93696.1| Restriction endonuclease S subunits [Eubacterium rectale M104/1]
          Length = 398

 Score = 87.2 bits (214), Expect = 5e-15,   Method: Composition-based stats.
 Identities = 55/402 (13%), Positives = 123/402 (30%), Gaps = 22/402 (5%)

Query: 29  PIKRFTKLNTGRTSESG------KDIIYIGLEDVESGT-GKYLPKDGNSRQSDTSTVSIF 81
            IK   ++ TG+T  +G       +I++I   D+      +   K        +   +  
Sbjct: 2   KIKDIGRVVTGKTPLTGVNEYYGGNIMFISPSDLHGDYLIEKSEKTITEEGLKSIESNSI 61

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQF-LVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
               +L G +G  +    + +     + Q   ++     L +    +         + +I
Sbjct: 62  DGISVLTGCIGWDMGNVAMCNSRCATNQQINAIIDFNHKLVDPRYVYYWLKGKKDYLFSI 121

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
                          NI +P+P L  Q  + + +      ID  I +  +  + L+E  +
Sbjct: 122 ASVTRTPILSKSVFENIDIPLPSLKIQERVTKLL----SLIDEKIRKNHQINDYLEEMAK 177

Query: 201 ALVSYIVTKGLNPD---VKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
            +  Y   +   PD      K SG + +     +  +   +   +  N       +   L
Sbjct: 178 TIYDYWFVQFDFPDENGNPYKSSGGKMIFCKELNRNIPQNWEYTSVGNITKCLDSDRIPL 237

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ-VMERGII 316
           S      ++             Y    I     ++        D       Q +     I
Sbjct: 238 SSHQREEMKGTIPYYGATGIMDYVNRPIFSGDFVLLAEDGSVMDDNGNPILQRISGDVWI 297

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
            +    ++P    S  L +L+       +       ++  +   ++    +L  P + + 
Sbjct: 298 NNHTHVLQPVNGYSCRLLYLLLKNIPVSMIK--TGSIQLKINQANLNSYNILNIPKEIRT 355

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
              N I     +I  L    ++   +L + R   +   + GQ
Sbjct: 356 QFINQIEPMDTKIIQL----QKENNILVQTRDWLLPILMNGQ 393


>gi|90580557|ref|ZP_01236362.1| probable type I restriction modification system methylase [Vibrio
           angustum S14]
 gi|90438215|gb|EAS63401.1| probable type I restriction modification system methylase
           [Photobacterium angustum S14]
          Length = 442

 Score = 87.2 bits (214), Expect = 5e-15,   Method: Composition-based stats.
 Identities = 64/442 (14%), Positives = 134/442 (30%), Gaps = 59/442 (13%)

Query: 23  KHWKVVPIKRFTK-LNTG--RTSES-GKDIIYIGLEDVESGTGKYLP-KDGNSRQSDTST 77
            +W V+ +    + +  G  ++ +S         ++D+          +  +    D   
Sbjct: 3   SNWLVLTLGDVCERITDGAHKSPKSVDDGKPMASVKDLTRFGVDLSNARKISKNDFDELV 62

Query: 78  VSIFAK--GQILYGKLG--PYLRKAIIADFDGIC---STQFLVLQPKDVLPELLQGWLLS 130
                   G +L  K G         +          S   L   P+ +    L+ +  S
Sbjct: 63  QQGCKPQVGDVLIAKDGNSALDTVCTVDTEIDAVLLSSVAILRPDPEKLDSNFLKYYFCS 122

Query: 131 IDVTQRIE-AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
             V   ++     GA +     +      + +PP+  Q  I + +      ID  I    
Sbjct: 123 PQVIDYLKTNFISGAAIPRVVLRDFRKAEINLPPIETQRKISQYL----SSIDNKIFVNS 178

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIE-----------------WVGLVPDHW 232
           +  + L++  QA+             KM     E                  +GL+PD W
Sbjct: 179 KINQTLEQMAQAIFKSWFVDFDPVKAKMNGKQPEGMDAATASLFPEKLVESELGLIPDGW 238

Query: 233 EVKPFFALVTELNR---------KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY 283
           EVK         +          K    +      + Y       +     LK     +Y
Sbjct: 239 EVKNVGDFTDTFDYVANGSFAALKANVELYDEPNEVIYVRTTDFNKGFKNDLKYTDEPSY 298

Query: 284 QIVDPGEIVFRFIDLQNDK----RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
           Q +   ++      + N           +       + S  M +   G +S Y+ ++ +S
Sbjct: 299 QFLSKSKLYGHETIISNVGDVGTVFRAPSWYDMPMTLGSNAMGIVSKGANS-YIYYMFKS 357

Query: 340 YDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI-- 396
           +    +   + SG  +        ++L V++P  +       V+       D L  K   
Sbjct: 358 HIGQHLLDGITSGSAQMKFNKTSFRKLRVVLPSKE-------VLAKFEELEDSLWAKHAS 410

Query: 397 -EQSIVLLKERRSSFIAAAVTG 417
            ++  + L+  R + +   ++G
Sbjct: 411 NQKESLHLERLRDTLLPKLLSG 432



 Score = 48.6 bits (114), Expect = 0.002,   Method: Composition-based stats.
 Identities = 29/202 (14%), Positives = 58/202 (28%), Gaps = 16/202 (7%)

Query: 18  IGAIPKHWKVVPIKRFTK----LNTGRT---------SESGKDIIYIGLEDVESGTGKYL 64
           +G IP  W+V  +  FT     +  G            +   ++IY+   D   G    L
Sbjct: 231 LGLIPDGWEVKNVGDFTDTFDYVANGSFAALKANVELYDEPNEVIYVRTTDFNKGFKNDL 290

Query: 65  PKDGNSRQSDTSTVSIFAKGQIL--YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPE 122
                      S   ++    I+   G +G   R     D      +  + +  K     
Sbjct: 291 KYTDEPSYQFLSKSKLYGHETIISNVGDVGTVFRAPSWYDMPMTLGSNAMGIVSKGANSY 350

Query: 123 LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
           +   +   I     ++ I  G+     +      + + +P         E   +   +  
Sbjct: 351 IYYMFKSHI-GQHLLDGITSGSAQMKFNKTSFRKLRVVLPSKEVLAKFEELEDSLWAKHA 409

Query: 183 TLITERIRFIELLKEKKQALVS 204
           +   E +    L       L+S
Sbjct: 410 SNQKESLHLERLRDTLLPKLLS 431


>gi|260913244|ref|ZP_05919726.1| type I restriction enzyme StySJI specificity protein [Pasteurella
           dagmatis ATCC 43325]
 gi|260632831|gb|EEX51000.1| type I restriction enzyme StySJI specificity protein [Pasteurella
           dagmatis ATCC 43325]
          Length = 206

 Score = 86.8 bits (213), Expect = 5e-15,   Method: Composition-based stats.
 Identities = 26/168 (15%), Positives = 59/168 (35%), Gaps = 9/168 (5%)

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
           + + L +S  +   ++         +  + Y      +I+F  I    +         +E
Sbjct: 39  DISFLPMSLVSEYGQVIGFETRKVYKVKKGYTAFKNKDIIFAKITPCFENGKAALLNDLE 98

Query: 313 RGI---ITSAYMAVKPHGIDSTYLAWLMRSY--DLCKVFYAMGSGLRQSLKFEDVKRLPV 367
            G     T  ++    +  +  +L   + S    +       GS  +Q +  +  +   +
Sbjct: 99  NGYGFGSTEFHVIRSQNNCNPNFLFSYLYSDTLLIKGKKSMTGSAGQQRVPAQFFENYII 158

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            +PP +EQ  I N +    + +D L+ +  Q I  LK  +   +    
Sbjct: 159 ALPPPEEQQAIANCL----SSLDSLISEQNQQICRLKTHKKGLMQQLF 202



 Score = 59.4 bits (142), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 38/207 (18%), Positives = 72/207 (34%), Gaps = 19/207 (9%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGR-TSESGKDIIYIGLEDVESGTGKYL 64
            +PQ+KD          K W+V  +K    +N  +       DI ++ +  + S  G+ +
Sbjct: 6   RFPQFKDC---------KGWEVAELKDIALVNPKKENLPDDLDISFLPMS-LVSEYGQVI 55

Query: 65  PKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAI------IADFDGICSTQFLVLQP-K 117
             +           + F    I++ K+ P            + +  G  ST+F V++   
Sbjct: 56  GFETRKVYKVKKGYTAFKNKDIIFAKITPCFENGKAALLNDLENGYGFGSTEFHVIRSQN 115

Query: 118 DVLPELLQGWLLSIDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIA 176
           +  P  L  +L S  +  + +    G+        +   N  + +PP  EQ  I   + +
Sbjct: 116 NCNPNFLFSYLYSDTLLIKGKKSMTGSAGQQRVPAQFFENYIIALPPPEEQQAIANCLSS 175

Query: 177 ETVRIDTLITERIRFIELLKEKKQALV 203
               I     +  R     K   Q L 
Sbjct: 176 LDSLISEQNQQICRLKTHKKGLMQQLF 202


>gi|322372657|ref|ZP_08047193.1| type I restriction-modification system specificty subunit
           [Streptococcus sp. C150]
 gi|321277699|gb|EFX54768.1| type I restriction-modification system specificty subunit
           [Streptococcus sp. C150]
          Length = 394

 Score = 86.8 bits (213), Expect = 5e-15,   Method: Composition-based stats.
 Identities = 50/392 (12%), Positives = 115/392 (29%), Gaps = 31/392 (7%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W    I    K++ G   +  K         V +       +       D          
Sbjct: 28  WVENRIADIVKISAGGDVDKIKLKETGQYPVVANS---LTNRGIVGFYDD----YKVKAP 80

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            +     G         +          +      +           +    +  + E  
Sbjct: 81  AVTVTGRGDVGYAVARHENFTPIVRLLTLQSENIDVD-------YLENQINSMRILNEST 133

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
            +       +GN  +  P + EQ  I          + +       +  L       +  
Sbjct: 134 GVPQLTAPQLGNYKVYHPEINEQTAIGSLFRNLDDLLASYKDNLANYQSLKATMLAKMFP 193

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
                   P++++     EW        +     +     +        +  +S   G I
Sbjct: 194 KAGQTI--PEMRLDRFEGEW------EIKKFKSISTKRGKSNSKGYDYPAYSVSNQSGLI 245

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
            Q  +     L+     +Y+IV+P E  +     + +  S+    + E  I++S Y+   
Sbjct: 246 PQSEQFEGSRLENLEKTSYKIVEPNEFAYNP--ARINVGSIAFNDLDETVIVSSLYVIFS 303

Query: 325 -PHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPP-IKEQFDITNV 381
               I++ Y    ++S +  K         +R+ L +E+   + + +PP ++EQ  I   
Sbjct: 304 LDKSINNNYALLFIKSPEFNKEVRRNTEGSVREYLFYENFANIRIPIPPSLEEQQAIGAY 363

Query: 382 INVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
                + +D L+   ++ I  L+  ++  +  
Sbjct: 364 ----FSNLDNLINSYQEKISQLETLKNKLLQD 391


>gi|194467964|ref|ZP_03073950.1| type I restriction endonuclease S subunit domain protein
           [Lactobacillus reuteri 100-23]
 gi|194452817|gb|EDX41715.1| type I restriction endonuclease S subunit domain protein
           [Lactobacillus reuteri 100-23]
          Length = 397

 Score = 86.8 bits (213), Expect = 5e-15,   Method: Composition-based stats.
 Identities = 59/400 (14%), Positives = 119/400 (29%), Gaps = 31/400 (7%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPK----DGNSRQSDTSTVS 79
            W+    K          S+S KD   + +       G         D    +       
Sbjct: 20  DWEQRKGKSIFY------SKSNKDFPELTVLSATQDKGMIPRSSTGIDIKYEKKSLRGYK 73

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
               G  +   L  +      +D  GI S  + V   K         W         I+ 
Sbjct: 74  KIEPGDFVV-HLRSFQGGFAYSDLTGIVSPAYTVFTFKQPEMFNNYFWKEKFTSYNFIQL 132

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
           + +             +  + +       + + KI      ID LIT + R +E LK  +
Sbjct: 133 LKKVTYGVRDGRSISYSDFLTLNEKFPVKVEQTKIADLFKIIDNLITLQQRKLEQLKLLE 192

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
           +AL   +          ++      +    + W       + TE   K +   E  +   
Sbjct: 193 KALQQKLFPNSFQEKPLLR------ILHGDNSWWNNYIGEVFTERVDKGS--SEKLLSVS 244

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
               +    E++      +    Y+ V   +I +  + L      +   +    GI++ A
Sbjct: 245 ITDGVYPFDESKRKNNSSDDKHNYKKVFQNDIAYNSMRLWQGALGVSKYE----GIVSPA 300

Query: 320 YMAVKPHGIDSTYLA-WLMRSYDLCKVFYAMGSGLR---QSLKFEDVKRLPVLVPPIKEQ 375
           Y  +KP    ++    ++ ++ D+  +F     GL     +LKF  ++ + +    +  Q
Sbjct: 301 YTVLKPLPNQNSIFYEFMFKNIDMLHIFQRNSQGLTSDTWNLKFNQLQHIKIKTTNLNSQ 360

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
             I         +I+ L          L   +   +    
Sbjct: 361 NKIA----KLLIKIEELKNNESNYYHNLMTLKKYLLQKLF 396


>gi|300214618|gb|ADJ79034.1| Type I restriction-modification system specificity subunit
           [Lactobacillus salivarius CECT 5713]
          Length = 375

 Score = 86.8 bits (213), Expect = 5e-15,   Method: Composition-based stats.
 Identities = 49/375 (13%), Positives = 124/375 (33%), Gaps = 28/375 (7%)

Query: 47  DIIYIGLEDVESGTG--KYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFD 104
           DI +I   D+++       + K   ++  + S   +     I         + A ++   
Sbjct: 16  DIPWIQSSDLKNDDIWNVNINKYITNKAVNDSAAKLIPANSIAIVTRVGVGKLAYMSQEY 75

Query: 105 GICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPL 164
                   ++  K+ L  ++           ++ +  +G ++     K + N+ + I   
Sbjct: 76  STSQDFLSLVDIKEDLIFIMYMLYFK---ISKVSSSLQGTSIKGITKKELLNLSISIVNN 132

Query: 165 AEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKG-LNPDVKMKDSGIE 223
             +      I      +D  I     +++LL + +  L+  + +     P+++ K    +
Sbjct: 133 TAEQNR---IGQVFKILDNSINLHEDYLQLLYDFRSFLLQKMFSINDTFPNLRFKQFNDK 189

Query: 224 WVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY 283
           W                V ++    T     +       N     E  N     +S    
Sbjct: 190 W---------KYKKLGEVADIVSGGTPDTTKHDYWNGSINWYTPAEVGNKIFVSDSQRKI 240

Query: 284 QIV-----DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
             +         +    +   +     ++A + E+G     + ++ P             
Sbjct: 241 TNIGLENSSAKILPVGTVLFTSRAGIGKTAILKEKGSTNQGFQSIVPKQKFLDSYFIFSM 300

Query: 339 SYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
           S  L K   + G+G     +  +++ +  + +P I EQ +I+ V+     ++D ++   +
Sbjct: 301 SNILKKYGESHGAGSTFLEISGKELAKARISLPSITEQKNISKVLF----KLDTIITLQK 356

Query: 398 QSIVLLKERRSSFIA 412
           Q I  LK+ +   + 
Sbjct: 357 QEIDNLKKLKQFLLQ 371



 Score = 61.0 bits (146), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 30/186 (16%), Positives = 63/186 (33%), Gaps = 8/186 (4%)

Query: 25  WKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGK-YLPKDGNSRQSDTST 77
           WK   +     + +G T ++ K       I +    +V +        +   +   + S+
Sbjct: 190 WKYKKLGEVADIVSGGTPDTTKHDYWNGSINWYTPAEVGNKIFVSDSQRKITNIGLENSS 249

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
             I   G +L+      + K  I    G  +  F  + PK    +    + +S  + +  
Sbjct: 250 AKILPVGTVLFTS-RAGIGKTAILKEKGSTNQGFQSIVPKQKFLDSYFIFSMSNILKKYG 308

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           E+   G+T      K +    + +P + EQ  I + +      I     E     +L + 
Sbjct: 309 ESHGAGSTFLEISGKELAKARISLPSITEQKNISKVLFKLDTIITLQKQEIDNLKKLKQF 368

Query: 198 KKQALV 203
             Q + 
Sbjct: 369 LLQNMF 374



 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 19/178 (10%), Positives = 59/178 (33%), Gaps = 6/178 (3%)

Query: 240 LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQ 299
           +    + +N      +I  +   ++           K  + +         I    I + 
Sbjct: 1   MXXTPDTQNKNYWIGDIPWIQSSDLKNDDIWNVNINKYITNKAVNDSAAKLIPANSIAIV 60

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKF 359
                 + A + +    +  ++++     D  ++ +++  + + KV  ++     + +  
Sbjct: 61  TRVGVGKLAYMSQEYSTSQDFLSLVDIKEDLIFIMYMLY-FKISKVSSSLQGTSIKGITK 119

Query: 360 EDVKRLPVLVPPI-KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           +++  L + +     EQ  I          +D  +   E  + LL + RS  +    +
Sbjct: 120 KELLNLSISIVNNTAEQNRIG----QVFKILDNSINLHEDYLQLLYDFRSFLLQKMFS 173


>gi|149391960|emb|CAL68657.1| restriction-modification enzyme [Pseudomonas putida]
          Length = 1289

 Score = 86.8 bits (213), Expect = 5e-15,   Method: Composition-based stats.
 Identities = 64/409 (15%), Positives = 143/409 (34%), Gaps = 40/409 (9%)

Query: 25   WKVVPIKRFTKLNTGRT----SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
            W  +PI++   LN  ++      +  +I ++ +  V               +    + + 
Sbjct: 903  WPQMPIRQVAVLNPRKSELKGFSASTEISFVEMASVSEDGFITGAVRRKLGEVLKGSYTY 962

Query: 81   FAKGQILYGKLGPYLRKA------IIADFDGICSTQFLVLQPKD--VLPELLQGWLLSID 132
            FA+  I+  K+ P +          +++  G+ S++F V++     V+P+ + G+L   +
Sbjct: 963  FAEDDIIIAKITPCMENGKCALARGLSNKIGMGSSEFHVIRADKGKVIPDFVFGYLNRAE 1022

Query: 133  VTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            V +  E    G++           ++ +P+PPL  Q  I +    E  ++D  +      
Sbjct: 1023 VRKVAEKSMTGSSGHRRVPESFYADLRIPVPPLKVQSQICD----EFTKVDKAVQSARTK 1078

Query: 192  IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
            I   ++  + LV  I           K S     GL     EV                 
Sbjct: 1079 IASTQQSIELLVESIYASTAPRIEIAKLSSNIQYGLSEKMNEV-------------GIGY 1125

Query: 252  IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
                +  +  G ++     +   +  E +  Y  ++ G+++F   +   +         +
Sbjct: 1126 KIFRMNEIIQGRMVDDGAMKCADISVEEFANY-KLNKGDLLFVRSNGSLEHIGKVGLFDL 1184

Query: 312  ERGIITSAY---MAVKPHGIDSTYLAWLMRSYDLCK--VFYAMGSGLRQSLKFEDVKRLP 366
            E     ++Y   +          YL  +M S    K  V  A+ SG   ++    +K + 
Sbjct: 1185 EGDYCYASYLVRIVPDSSKALPQYLVSIMNSPIFRKGMVQLAVKSGGTNNINATKMKSIK 1244

Query: 367  VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            V  P + EQ +    ++    +    +   +  I     R+ + +   +
Sbjct: 1245 VPTPSLAEQEEFVVKVDALGKQ----IADAQAVIDAAPARKEAVMKKYL 1289


>gi|328471221|gb|EGF42123.1| restriction modification system DNA specificity subunit [Vibrio
           parahaemolyticus 10329]
          Length = 418

 Score = 86.8 bits (213), Expect = 6e-15,   Method: Composition-based stats.
 Identities = 70/425 (16%), Positives = 140/425 (32%), Gaps = 51/425 (12%)

Query: 23  KHWKVVPIKR-FTKLNTGRT------SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           K WK   +      L +G +      + S  D   + +  V  G          +     
Sbjct: 3   KEWKNGRVGELIASLESGISVNGEDGTPSNDDYAVLKVSAVTYGKFNPQASKKITGSELQ 62

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFL-------VLQPKDVLPELLQGWL 128
                  KGQI+  +                   +FL       V  P+  +      + 
Sbjct: 63  RAKCNPKKGQIIISRSNTPDLVGASCYVSEDYPNRFLPDKLWQTVPHPEKKVEHKWLAYF 122

Query: 129 ---LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
                        A     +M +     +  +P+ IPP  EQ  I   +      I    
Sbjct: 123 LASPWARFRLSKLATGTSNSMKNITKSELLTLPVAIPPFLEQKKIASFLECWDNAI---- 178

Query: 186 TERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN 245
                      EK +AL++    +           G          WE     + VT  N
Sbjct: 179 -----------EKTEALIAAKEKQFEWLCQTYFKPGNSTN----SGWEKHKIASFVTVRN 223

Query: 246 RKNTKLIESNILSLSYGNI---IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK 302
            +     E  + SL+  N          R   +  +  + Y++V P +IVF   +L+   
Sbjct: 224 EREVPSEEVPLYSLTIENGVTAKTDRYNREFLVIDKGGKKYKVVHPKDIVFNPANLRW-- 281

Query: 303 RSLRSAQVMERGIITSAY--MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL---RQSL 357
            ++  ++V  + +++  Y  + V  + IDS +L   +       +F  M  G    R ++
Sbjct: 282 GAIARSEVEHKVVLSPIYEVLKVDENKIDSDFLTHALTCSRQIAIFATMVEGTLVERMAV 341

Query: 358 KFEDVKRLPVLVPP-IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           K +      + VP   +EQ +I +V+N+        +  +++++   + ++   +   +T
Sbjct: 342 KIDTFLSCHIHVPSSKEEQKNIAHVLNLSKQE----ISLLKKTLEQYRSQKRGLMQKLLT 397

Query: 417 GQIDL 421
           G+  +
Sbjct: 398 GEWQV 402


>gi|57506131|ref|ZP_00372053.1| type I restriction-modification system S subunit, putative
           [Campylobacter upsaliensis RM3195]
 gi|57015615|gb|EAL52407.1| type I restriction-modification system S subunit, putative
           [Campylobacter upsaliensis RM3195]
          Length = 544

 Score = 86.8 bits (213), Expect = 6e-15,   Method: Composition-based stats.
 Identities = 56/435 (12%), Positives = 120/435 (27%), Gaps = 68/435 (15%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESG--TGKYLPKDGNSRQSD 74
           IP  W  V +    ++ +G +        + I  +   ++            D   +Q  
Sbjct: 102 IPNSWAWVKLGDICEIISGTSYSKDDLSDEGIRILRGGNINKNSHNIDLFADDVIIKQDL 161

Query: 75  TSTVSIFAKGQIL-YGKLGP--YLRKAIIADFDGICSTQ----FLVLQPKDVLPELLQGW 127
           T+      K  IL     G    + K+  +D     +       ++   K+   + +   
Sbjct: 162 TNKEKQILKNDILMIASTGSKEIIGKSAFSDVALENTQIGAFLRIIRISKEQNAKYIFHN 221

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
           L+S      I++   G  + +   + I N  +P+PPL EQ  I +K+       +     
Sbjct: 222 LISQIFATHIKSCAGGTNILNIKNEYIENFLIPLPPLCEQQEIVKKLDLLVTLANDFAIT 281

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR- 246
           +     + K  +++L+   +   L+   +     +     +  + E         E    
Sbjct: 282 KENLKRIEKRIEKSLLKLALEGSLSKLYRRSSPTLCAFNEINTYNEAIKQKHKNLEKELK 341

Query: 247 ------KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQN 300
                 K  K  E   L  S   +++K   +   + P +        P    +  +    
Sbjct: 342 KCEKEFKLEKDKEQKALFKSQIQMLKKELIKCKEITPLNSTEAPFTIPNSWAWVKLGDIC 401

Query: 301 DKR------------------------------------------------SLRSAQVME 312
           +                                                  S       E
Sbjct: 402 EIISGEIIDLQEENLPLLDVKYLRSKGDKKLANSGNFANANDRLILMDGENSGEIFITKE 461

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI 372
           +G + S    ++   +        M                   L  +    L + +PP+
Sbjct: 462 KGFLGSTLKKLEFSSLSQVEFMDFMLLCYKDFFKGNKKGAAIPHLDRKLFANLLIPLPPL 521

Query: 373 KEQFDITNVINVETA 387
           KEQ  I  +++    
Sbjct: 522 KEQEHIVQILDTLFT 536



 Score = 59.4 bits (142), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 25/203 (12%), Positives = 63/203 (31%), Gaps = 16/203 (7%)

Query: 229 PDHWEVKPFFALVTELNRKNTKLIESNILSLSY--GNIIQKLETRNMGLKPE-------S 279
           P+ W       +   ++  +    + +   +    G  I K          +       +
Sbjct: 103 PNSWAWVKLGDICEIISGTSYSKDDLSDEGIRILRGGNINKNSHNIDLFADDVIIKQDLT 162

Query: 280 YETYQIVDPGEIVFRFIDL--QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
            +  QI+    ++           K +     +    I     +       ++ Y+   +
Sbjct: 163 NKEKQILKNDILMIASTGSKEIIGKSAFSDVALENTQIGAFLRIIRISKEQNAKYIFHNL 222

Query: 338 RSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV-LVEK 395
            S        +   G    ++K E ++   + +PP+ EQ +I   +++     +   + K
Sbjct: 223 ISQIFATHIKSCAGGTNILNIKNEYIENFLIPLPPLCEQQEIVKKLDLLVTLANDFAITK 282

Query: 396 IE-QSIVLLKERRSSFIAAAVTG 417
              + I    E   S +  A+ G
Sbjct: 283 ENLKRIEKRIE--KSLLKLALEG 303


>gi|322377800|ref|ZP_08052289.1| type I restriction-modification system specificty subunit
           [Streptococcus sp. M334]
 gi|321281223|gb|EFX58234.1| type I restriction-modification system specificty subunit
           [Streptococcus sp. M334]
          Length = 418

 Score = 86.8 bits (213), Expect = 6e-15,   Method: Composition-based stats.
 Identities = 51/411 (12%), Positives = 127/411 (30%), Gaps = 34/411 (8%)

Query: 25  WKVVPIKRFTKLNTGRTSE-----SGKDIIYIGLEDVES----GTGKYLPKDGNSRQSDT 75
           W    + +     +G           + I +  + D+ +       +         Q   
Sbjct: 17  WGNYKLGQLGSFKSGIGFPDSQQGGTEGIPFFKVSDMNNIGNETEMRNANNYVTQEQIVK 76

Query: 76  STVSIFAK-GQILYGKLGP---YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
           ++ ++      I++ K+G      RK ++     I +        K    +       +I
Sbjct: 77  NSWNVVKDTPAIIFAKVGAALMLNRKRLVTKTFLIDNNTMSYSLNKSWDKDFGLTLFQTI 136

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            +        +   +   +   I  I + +P + EQ  I          + +       +
Sbjct: 137 YLP----KYAQIGALPSYNASDIATIKVNVPNIQEQSAIGTLFRTLDDLLASYKDNLANY 192

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEW----VGLVPDHWEVKPFFALVTELNRK 247
             L       +          P++++     EW    +    D  +       V      
Sbjct: 193 QSLKATMLSKMFPKAGQT--VPEIRLDGFEGEWEKTTLEKSTDRVKSYSLSRDVETNQDT 250

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS--- 304
             K I    + L   ++I    +  +       +  + +  G+++F          +   
Sbjct: 251 GLKYIHYGDIHLGKVSMIDDGNS--IPYIKTDTKLSEFLQQGDLIFADASEDYKGIAEVA 308

Query: 305 LRSAQVMERGIITSAYMAVKPH-GIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDV 362
           +    + E+ +     +AV+P    DS +L ++ ++    K  Y +G+G+    +   ++
Sbjct: 309 VVVDALSEKIVAGLHTIAVRPQSIFDSIFLYFMFKTQTFRKYGYKVGTGMKVFGISPSNL 368

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            +     P  KEQ  I        + +D L+   ++ I  L+  +   +  
Sbjct: 369 MKYEFYYPDKKEQQAIGFY----FSNLDNLINSHQEKISQLETLKKKLLQD 415


>gi|300925837|ref|ZP_07141685.1| type I restriction modification DNA specificity domain protein
           [Escherichia coli MS 182-1]
 gi|300418089|gb|EFK01400.1| type I restriction modification DNA specificity domain protein
           [Escherichia coli MS 182-1]
          Length = 381

 Score = 86.8 bits (213), Expect = 6e-15,   Method: Composition-based stats.
 Identities = 57/380 (15%), Positives = 118/380 (31%), Gaps = 34/380 (8%)

Query: 28  VPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           V I+   K+ TG+T         G +I +I   ++ + +   L  +    +   +T  + 
Sbjct: 2   VSIESVAKVITGKTPPKADPNCFGGNIPFITPSEL-TDSDYLLKPETTLTEKGLATTKLI 60

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            K  IL   +G  L K  IAD     + Q   +   D       G+     +   ++ I 
Sbjct: 61  PKNSILVCCIGS-LGKMAIADLPVATNQQINSVIFDDDKIYYRFGFYALKLLKNDLKKIA 119

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
              T++  +      + +P PPL EQ  I   +                           
Sbjct: 120 PSTTVAIINKSRFSELKIPCPPLEEQKRIATILDKADGIHKKREQA-------------- 165

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
            +           ++M  +    +   P           V         +       L  
Sbjct: 166 -IKLADDFLRAKFLEMFGTPANNIHRFPKGTIRD-LVDSVNYGTSAKASIDSGEYPILRM 223

Query: 262 GNIIQKLETRNMGLKPES----YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
           GNI  +       LK        +   +V  G+++F   + +         +        
Sbjct: 224 GNITYQGRWDFTDLKYLDLSVKEKDKYLVKEGDLLFNRTNSKELVGKTAVYEEDRPMAFA 283

Query: 318 SAYMAVKPHGI-DSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKE 374
              + V+P+ I ++ Y++  + S         M   +    ++  ++++ + +L+PP   
Sbjct: 284 GYLIRVRPNSIGNNYYISGYLNSIHGKITLMNMCKSIVGMANINAQELQNIEILIPPKHL 343

Query: 375 QFD---ITNVINVETARIDV 391
           Q +   I   I    +  D 
Sbjct: 344 QDEYEIIYKKIKKGLSIYDK 363



 Score = 59.0 bits (141), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 22/137 (16%), Positives = 42/137 (30%), Gaps = 8/137 (5%)

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
             L      L  +   T +++    I+   I     K ++    V     I S       
Sbjct: 40  DYLLKPETTLTEKGLATTKLIPKNSILVCCIGSLG-KMAIADLPVATNQQINSVIFDDDK 98

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
                    +         +     S     +       L +  PP++EQ  I  +++  
Sbjct: 99  IYY---RFGFYALKLLKNDLKKIAPSTTVAIINKSRFSELKIPCPPLEEQKRIATILD-- 153

Query: 386 TARIDVLVEKIEQSIVL 402
             + D + +K EQ+I L
Sbjct: 154 --KADGIHKKREQAIKL 168


>gi|187477054|ref|YP_785078.1| type i restriction enzyme EcoR124II specificity protein [Bordetella
           avium 197N]
 gi|115421640|emb|CAJ48150.1| type i restriction enzyme EcoR124II specificity protein [Bordetella
           avium 197N]
          Length = 406

 Score = 86.8 bits (213), Expect = 6e-15,   Method: Composition-based stats.
 Identities = 51/408 (12%), Positives = 120/408 (29%), Gaps = 48/408 (11%)

Query: 26  KVVPIKRFTKLNTGRTSESGK-DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
              P+        G    +G+   ++     V+   G       N        +      
Sbjct: 17  DWKPLGEVLNRTKGTKITAGQMRELHKEGGPVKIFAGGKTVAFVNFNDIPEKDIQTVP-- 74

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            I+    G    +    +       +      KD    +   +            I    
Sbjct: 75  SIIVKSRGII--EFEYYENPFTHKNEMWAYNAKDRALNIKYVYHFLKLNEPHFHGIGSKM 132

Query: 145 TMSHADWKGIGNIPMPIPP-------LAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
            M            +PIP        L  Q  I   + A T     L TE     +    
Sbjct: 133 QMPQIAIPDTDGFSIPIPCPNNPKRSLEIQAEIVRILDAFTELTAELSTELSARKKQYNY 192

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
            +  L+S                     G       +      + + + +  +  E  I 
Sbjct: 193 YRDQLLS--------------------FGEGVPFLSLAQCCESIADGDHQAPQKTEDGIP 232

Query: 258 SLSYGNI--IQKLETRNMGLKPESY----ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
            ++  N+    +++  N      SY    ++ +     +I++  +        +      
Sbjct: 233 FITISNVSATNQIDFSNTKFVSNSYYDGLDSKRKARTNDILYTVVGSFGIPVHI---DCE 289

Query: 312 ERGIITSAYMAVKPHG--IDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVL 368
           ++         ++P+   + S Y+   +RS  + K  + + +G  ++++    + R+ + 
Sbjct: 290 KKFAFQRHIAILRPNPAVVLSKYMYHALRSSAVEKQAHKVAAGAAQKTITLSALNRMLIA 349

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           VP ++EQ  I  +++      + + E + + I L K+     R   ++
Sbjct: 350 VPSLEEQARIVAILDKFDVLTNSIAEGLPREIELRKKQYKHYRDLLLS 397


>gi|323490713|ref|ZP_08095915.1| putative typeI restriction enzyme MjaXP specificity protein
           [Planococcus donghaensis MPA1U2]
 gi|323395595|gb|EGA88439.1| putative typeI restriction enzyme MjaXP specificity protein
           [Planococcus donghaensis MPA1U2]
          Length = 409

 Score = 86.8 bits (213), Expect = 6e-15,   Method: Composition-based stats.
 Identities = 52/412 (12%), Positives = 130/412 (31%), Gaps = 37/412 (8%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGK---DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
            WK   +    +   G  ++         +I + D+ +       K   S  +       
Sbjct: 14  EWKQQELSELLEFKNGINADKDSYGHGTKFINVLDILNNDYILSDKIIGSVNATVQQFQT 73

Query: 81  --FAKGQILYGKLGPY-----LRKAIIADFDGICSTQFLVLQPKDVLPELLQ--GWLLSI 131
                G IL+ +              + +        F++   K            L + 
Sbjct: 74  YSVTHGDILFLRSSETREDVGKCNVYLDEEKASVFGGFVIRGKKIADYSPFFLKTALNNS 133

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
               +I +   G+T  +     +  + + IP + EQ  +   ++    + +    +  + 
Sbjct: 134 SARNQISSKAGGSTRYNVGQGILSEVTVMIPKIEEQQKVSSFLMLLNRKTEKQQEKIEKL 193

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
            +L K   Q + S  +          KD      G     W+      ++ E   K  + 
Sbjct: 194 EQLKKGMMQEIFSQELR--------FKDEDGGEFGE----WKSIKLNKILEERKEKCNER 241

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS-AQV 310
                       +I ++         +    Y +V  G+IV+      +    +   + +
Sbjct: 242 NLKVHSVAVRAGVINQITHLGRSFAAKDVSNYSVVKYGDIVYTKSPTGDFPFGIIKQSHI 301

Query: 311 MERGIITSAYMAVKPHGIDSTYLA--WLMRSYDLCKVFYAM-GSGLRQSLKFEDV----K 363
            E  I++  Y   +P      Y+   + M   +     +++   G + ++   +     K
Sbjct: 302 KEDVIVSPLYGIYEPKNFYIGYILHSYFMYKNNTTNYLHSIVQKGAKNTINITNQNFVSK 361

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            + + +    EQ  I + +       D  ++K ++ +++L+E++  F+    
Sbjct: 362 NIQLPI-SEVEQKQIADFL----RNTDRKIKKEKEKLMVLEEQKKGFMQRLF 408



 Score = 73.7 bits (179), Expect = 5e-11,   Method: Composition-based stats.
 Identities = 24/215 (11%), Positives = 73/215 (33%), Gaps = 7/215 (3%)

Query: 213 PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
           P ++      EW                  + +  +     + +  L+   I+      +
Sbjct: 4   PQLRFDGFDGEWKQQELSELLEFKNGINADKDSYGHGTKFINVLDILNNDYILSDKIIGS 63

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID--S 330
           +    + ++TY +     +  R  + + D          E+  +   ++       D   
Sbjct: 64  VNATVQQFQTYSVTHGDILFLRSSETREDVGKCNVYLDEEKASVFGGFVIRGKKIADYSP 123

Query: 331 TYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
            +L   + +        +   G  R ++    +  + V++P I+EQ  +++ +      +
Sbjct: 124 FFLKTALNNSSARNQISSKAGGSTRYNVGQGILSEVTVMIPKIEEQQKVSSFLM----LL 179

Query: 390 DVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGE 424
           +   EK ++ I  L++ +   +    + ++  + E
Sbjct: 180 NRKTEKQQEKIEKLEQLKKGMMQEIFSQELRFKDE 214


>gi|308062794|gb|ADO04682.1| restriction modification system DNA specificity subunit
           [Helicobacter pylori Cuz20]
          Length = 318

 Score = 86.8 bits (213), Expect = 6e-15,   Method: Composition-based stats.
 Identities = 45/333 (13%), Positives = 105/333 (31%), Gaps = 20/333 (6%)

Query: 90  KLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHA 149
                +    I       +  F  L P + +      + L + +  ++  +  G+T    
Sbjct: 2   TSRASIGDCAILKVVATTNQGFQSLIPLEKINNE-FLYYLILTLKNKLLKLASGSTFLEV 60

Query: 150 DWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTK 209
               I N+ +P+PPL EQ+ I   + A    +  L    ++   + K     L+S     
Sbjct: 61  SPNKIKNLLIPLPPLNEQIAIANILSALDRYLYALDALILKKEGVKKALSFELLSQ---- 116

Query: 210 GLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLE 269
                 ++K     W  +    + +    +       +      S I   +  N  + + 
Sbjct: 117 ----RKRLKGFNQAWQRVKVKDFGIIITGSTPLTQISEYWNGTISWITP-TDINDNKDIF 171

Query: 270 TRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID 329
                +  +   T +++    ++   I        LR       G       A+ P+   
Sbjct: 172 NSERKITQKGLNTIRMIPKNSVLVTCIASIGKNAILRV-----NGACNQQINAIIPNKDF 226

Query: 330 STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-PIKEQFDITNVINVETAR 388
           +    + +   +   +    G      +  +  + +   VP  + EQ  I N+++     
Sbjct: 227 NADFIYYLMENNKQYLLGKAGVTATYIISKQVFEEIDFFVPKDLNEQSAIANILSALDNE 286

Query: 389 IDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           I  L  K  Q     +  + +     ++ +I +
Sbjct: 287 IASLKNKKRQ----FENIKKALNHDLMSAKIRV 315



 Score = 59.0 bits (141), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 15/113 (13%), Positives = 40/113 (35%), Gaps = 4/113 (3%)

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
                 + ++ P    +    + +      K+           +    +K L + +PP+ 
Sbjct: 17  ATTNQGFQSLIPLEKINNEFLYYLILTLKNKLLKLASGSTFLEVSPNKIKNLLIPLPPLN 76

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
           EQ  I N+++     +  L   I +     +  + +     ++ +  L+G +Q
Sbjct: 77  EQIAIANILSALDRYLYALDALILKK----EGVKKALSFELLSQRKRLKGFNQ 125



 Score = 55.2 bits (131), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 34/186 (18%), Positives = 64/186 (34%), Gaps = 8/186 (4%)

Query: 25  WKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           W+ V +K F  + TG T  +         I +I   D+ +        +    Q   +T+
Sbjct: 127 WQRVKVKDFGIIITGSTPLTQISEYWNGTISWITPTDI-NDNKDIFNSERKITQKGLNTI 185

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
            +  K  +L   +    + AI+   +G C+ Q   + P          +L+  +    + 
Sbjct: 186 RMIPKNSVLVTCIASIGKNAILR-VNGACNQQINAIIPNKDFNADFIYYLMENNKQYLLG 244

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
                AT   +              L EQ  I   + A    I +L  ++ +F  + K  
Sbjct: 245 KAGVTATYIISKQVFEEIDFFVPKDLNEQSAIANILSALDNEIASLKNKKRQFENIKKAL 304

Query: 199 KQALVS 204
              L+S
Sbjct: 305 NHDLMS 310


>gi|312965803|ref|ZP_07780029.1| type I restriction modification DNA specificity domain protein
           [Escherichia coli 2362-75]
 gi|331669720|ref|ZP_08370566.1| putative type I restriction-modification system specificity subunit
           [Escherichia coli TA271]
 gi|312289046|gb|EFR16940.1| type I restriction modification DNA specificity domain protein
           [Escherichia coli 2362-75]
 gi|331063388|gb|EGI35301.1| putative type I restriction-modification system specificity subunit
           [Escherichia coli TA271]
          Length = 372

 Score = 86.8 bits (213), Expect = 6e-15,   Method: Composition-based stats.
 Identities = 61/398 (15%), Positives = 123/398 (30%), Gaps = 44/398 (11%)

Query: 26  KVVPIKRFTKLNTG-----RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           ++V + +   + +G             +  I + D+ SG      K     +       +
Sbjct: 5   QLVTLGKHIDILSGCAFPSSGFNRNNGVPLIRIRDILSG------KTETYYEGSYDLKYL 58

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
             KG +L G  G + R+      D + + +   + P     +    +        +I A 
Sbjct: 59  IKKGDLLVGMDGDFNRE-YWKGTDALLNQRVCKITPNPETLDKNFLYHFLQKELDKIHAT 117

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
            +  T+ H   K I +I + +P L EQ  I   +      I     + I+  +       
Sbjct: 118 TDVVTVKHLSVKKIQDIKIRLPSLKEQKRIAAILDKADA-IRQKREQAIKLADDFLRATF 176

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
           A +        NP    K   +  +G + +                K+  + E     + 
Sbjct: 177 ATM------YGNPITNPKKWPVHLMGEIIEFK--------GGNQPPKSDFIFEPKQGYIR 222

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
              I      +     P+      I +  +++            +        G    A 
Sbjct: 223 LVQIRDFKSDKYATYIPQEKAKR-IFEVDDVMIARYGPP-----VFQILRGLSGSYNVAL 276

Query: 321 MAVKPHGIDSTYL-AWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQFD 377
           M   P          +L++  +   V       +  +  +  E + +  V +PPI  Q +
Sbjct: 277 MKASPKENIRKGFIFYLLQLPEYHDVVVKNSERTAGQTGVNLELLNKFNVPLPPIYYQDE 336

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLK----ERRSSFI 411
           I   +    ARI+   EKIE S+  L+      +   +
Sbjct: 337 ILARL----ARIEKFKEKIEISLNHLEMQFLSLQKRLM 370



 Score = 42.9 bits (99), Expect = 0.11,   Method: Composition-based stats.
 Identities = 22/185 (11%), Positives = 56/185 (30%), Gaps = 4/185 (2%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVE-SGTGKYLPKDGNSRQSDTSTVSI 80
           PK W V  +    +   G        I       +       +      +         I
Sbjct: 187 PKKWPVHLMGEIIEFKGGNQPPKSDFIFEPKQGYIRLVQIRDFKSDKYATYIPQEKAKRI 246

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR--IE 138
           F    ++  + GP + +  +    G  +   +   PK+ + +    +LL +       ++
Sbjct: 247 FEVDDVMIARYGPPVFQI-LRGLSGSYNVALMKASPKENIRKGFIFYLLQLPEYHDVVVK 305

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
                A  +  + + +    +P+PP+  Q  I  ++       + +              
Sbjct: 306 NSERTAGQTGVNLELLNKFNVPLPPIYYQDEILARLARIEKFKEKIEISLNHLEMQFLSL 365

Query: 199 KQALV 203
           ++ L+
Sbjct: 366 QKRLM 370


>gi|297192314|ref|ZP_06909712.1| restriction modification system DNA specificity subunit
           [Streptomyces pristinaespiralis ATCC 25486]
 gi|197719704|gb|EDY63612.1| restriction modification system DNA specificity subunit
           [Streptomyces pristinaespiralis ATCC 25486]
          Length = 494

 Score = 86.8 bits (213), Expect = 6e-15,   Method: Composition-based stats.
 Identities = 52/414 (12%), Positives = 116/414 (28%), Gaps = 25/414 (6%)

Query: 21  IPKHWKVVPIKR--FTKLNTGRTSESGKD-IIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +P+ W    +       +  GR+  +       + L  + S       +      +D + 
Sbjct: 17  LPEGWAWATVGDVLIAPIANGRSVRTEDGGFPVLRLTALRSDKVDLAERKEGEWTADEAA 76

Query: 78  VSIFAKGQILYGKLGPYLRKAII-------ADFDGICSTQFLVLQP-KDVLPELLQGWLL 129
             +      L  +    L             D      T   V  P + + P        
Sbjct: 77  PFLVRANDFLICRGSGSLDLVGRGALVPEAPDPVAFPDTMIRVRVPVEHMSPRFFTRLWA 136

Query: 130 SIDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
           S  V ++IEA       +       +  + +P+PP AEQ  I   +     R+D +    
Sbjct: 137 SPLVREQIEAAARTTAGIYKVSQPAVRELRIPVPPTAEQHRIAAALDTRMARLDAVDRAV 196

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN 248
                 L   ++A++       L+   + +     W                        
Sbjct: 197 TSARRDLAALRKAVL-------LDAVPEPEQWPAHWTATTTGKAGTVELGRARHPDWHTG 249

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKR--SLR 306
            K+     ++  + + I   + + M            ++PG+I+       +     ++ 
Sbjct: 250 PKVRPYLRVANVFEDRIDSSDVKVMDFS--GVFGKYRLEPGDILLNEGQSPHLVGRPAMY 307

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA--MGSGLRQSLKFEDVKR 364
                      S         +   +   + R +     F      +     L    +K 
Sbjct: 308 RGIPEGVAFTNSLLRFRASGDVLPGWALLVFRRHLHAGRFMREVRITTNLAHLSGARLKT 367

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           +   VPP+ EQ  +        A    +   +++        R + ++ A +G+
Sbjct: 368 VEFPVPPLDEQRHLVRTTKQRLAAFGRIERGLDRVARHNSAVRRALLSEAFSGR 421


>gi|153811905|ref|ZP_01964573.1| hypothetical protein RUMOBE_02298 [Ruminococcus obeum ATCC 29174]
 gi|149832039|gb|EDM87124.1| hypothetical protein RUMOBE_02298 [Ruminococcus obeum ATCC 29174]
          Length = 385

 Score = 86.8 bits (213), Expect = 6e-15,   Method: Composition-based stats.
 Identities = 63/398 (15%), Positives = 134/398 (33%), Gaps = 31/398 (7%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
             + +F +    R SE  ++ +        S   K++P   N+  +D     +  KGQ  
Sbjct: 6   KQLGQFIRQVDIRNSEGKEENLL-----GVSVQKKFIPSIANTVGTDFKKYKVVKKGQFT 60

Query: 88  Y----GKLGPYLRKAIIADFD-GICSTQFLVLQP---KDVLPELLQGWLLSIDVTQRIEA 139
           Y     + G  +  A++ D++ G+ S  + V +    K ++PE L  W    +  +    
Sbjct: 61  YIPDTSRRGDKIGIALLEDYEEGLVSNVYTVFEIIDEKQLIPEYLMLWFSRPEFDRYARF 120

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
              G+     DW  +  + +P+PP  +Q  I +        I   I  + +  + L   +
Sbjct: 121 KSHGSVREVMDWDEMCKVELPVPPYEKQEEIVD----GYKTITERIALKQKINDNLANTE 176

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
           QA+    V            +    +G + D  +        T     +T        S 
Sbjct: 177 QAIWVETVINN--------HTVPTALGDLVDFIDGDRGKNYPTFDEFTSTGYCLFLNASN 228

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
                        +  + +       + P +IV        +          E   I S 
Sbjct: 229 VTSTGFNFDNCMFVSEEKDKLMNKGHLSPYDIVLTSRGTLGNVALYDKHIKYENVRINSG 288

Query: 320 YMAVKPHGI--DSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQF 376
            + ++P        ++  L++S  +        SG  +  L  +D++++   +P   E  
Sbjct: 289 MLIIRPKTKRLSPYFIYVLLKSSYMKAAIERFKSGSAQPQLPIKDLQKITFEIP---ESD 345

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAA 414
            +   ++ +   ++  +      I  LKE  +  +A  
Sbjct: 346 TVLVALDRQFLAVEESISINNNEIDNLKELSNVLLAEL 383


>gi|323972574|gb|EGB67777.1| hypothetical protein ERHG_01317 [Escherichia coli TA007]
          Length = 132

 Score = 86.8 bits (213), Expect = 7e-15,   Method: Composition-based stats.
 Identities = 27/132 (20%), Positives = 52/132 (39%), Gaps = 13/132 (9%)

Query: 303 RSLRSAQVMERGIITSAYMAV---KPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQ--- 355
            +++       G++T+ Y+      P      Y      S  L      +   G R    
Sbjct: 2   GAIKRLNRYPEGVVTTLYICFELTTPKKSCGDYWEHYFESGLLNNSLSQIAHEGGRAHGL 61

Query: 356 -SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAA 414
            ++K  D   L V VP  +EQ  I +V++     I  L    E+ +  LK+ + + +   
Sbjct: 62  LNVKPSDFFSLKVAVPGFEEQQKIASVLSAADTEISTL----EKKLACLKDEKKALMQQL 117

Query: 415 VTGQIDLR-GES 425
           +TG+  ++  E+
Sbjct: 118 LTGKRRVKVDEA 129


>gi|294668321|ref|ZP_06733424.1| hypothetical protein NEIELOOT_00233 [Neisseria elongata subsp.
           glycolytica ATCC 29315]
 gi|291309639|gb|EFE50882.1| hypothetical protein NEIELOOT_00233 [Neisseria elongata subsp.
           glycolytica ATCC 29315]
          Length = 385

 Score = 86.8 bits (213), Expect = 7e-15,   Method: Composition-based stats.
 Identities = 60/393 (15%), Positives = 121/393 (30%), Gaps = 34/393 (8%)

Query: 43  ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD 102
               DI +  +         ++ KD   +     T S    G IL    G   +  I   
Sbjct: 11  SESGDIPFYKISTFGGIADAFISKDIFEK--YRETYSYPKIGDILISAAGTLGKTVIFDG 68

Query: 103 FDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIP 162
                    +V        + +    L             G+T++      I N+ +  P
Sbjct: 69  KPSYFQDSNIVWVDN--DEKTVINSFLYYFYQTNPWIKTTGSTINRLYNNDIKNLEISFP 126

Query: 163 PLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPD---VKMKD 219
            L +Q  I   +      +D  IT   +    L+E  + L  Y   +   PD      K 
Sbjct: 127 DLIKQQSIAAVL----SALDKKITLNKQINARLEEMAKTLYDYWFVQFDFPDANGKPYKS 182

Query: 220 SGIEWVGLV------PDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI--IQKLETR 271
           SG E V         P  WEVK    +   +  ++      N+              + R
Sbjct: 183 SGGEMVFDETLKRKIPKGWEVKSLNQVADIVMGQSPDGASYNLEQEGTIFFQGSTDFDWR 242

Query: 272 NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST 331
              ++  +    +    G+I+        D              I     A++    +++
Sbjct: 243 FPNVRQYTTSPTRFAQKGDILLSVRAPVGDL-----NISPFECCIGRGLAALRSKSGNNS 297

Query: 332 YLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP---IKEQFDITNVINVETAR 388
           +L ++M+ +               S+  +D+  L ++ P    +++  +I        ++
Sbjct: 298 FLFYVMKYFKTVFERRNTEGTTFGSITKDDLHSLKLVAPADNVLEKYNEIA-------SK 350

Query: 389 IDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            D ++    Q    L + R   +   + GQ+ +
Sbjct: 351 YDEMIFIRSQQSHQLTQLRDFLLPMLMNGQVSV 383



 Score = 63.3 bits (152), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 24/171 (14%), Positives = 52/171 (30%), Gaps = 10/171 (5%)

Query: 241 VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY-ETYQIVDPGEIVFRFIDLQ 299
           + +   K       +I            +        E Y ETY     G+I+       
Sbjct: 1   MCKRILKEETSESGDIPFYKISTFGGIADAFISKDIFEKYRETYSYPKIGDILISAAGTL 60

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKF 359
             K  +   +          ++      + +++L +  ++    K            L  
Sbjct: 61  G-KTVIFDGKPSYFQDSNIVWVDNDEKTVINSFLYYFYQTNPWIK----TTGSTINRLYN 115

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
            D+K L +  P + +Q  I  V++     +D  +   +Q    L+E   + 
Sbjct: 116 NDIKNLEISFPDLIKQQSIAAVLSA----LDKKITLNKQINARLEEMAKTL 162



 Score = 59.4 bits (142), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 36/204 (17%), Positives = 64/204 (31%), Gaps = 8/204 (3%)

Query: 10  YKDSGVQWI------GAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKY 63
           YK SG + +        IPK W+V  + +   +  G++ +     +         G+  +
Sbjct: 180 YKSSGGEMVFDETLKRKIPKGWEVKSLNQVADIVMGQSPDGASYNLEQEGTIFFQGSTDF 239

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPEL 123
             +  N RQ  TS      KG IL     P      I+ F+         L+ K      
Sbjct: 240 DWRFPNVRQYTTSPTRFAQKGDILLSVRAPV-GDLNISPFECCIGRGLAALRSKSGNNSF 298

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           L  +++    T       EG T        + ++ +  P         E        I  
Sbjct: 299 LF-YVMKYFKTVFERRNTEGTTFGSITKDDLHSLKLVAPADNVLEKYNEIASKYDEMIFI 357

Query: 184 LITERIRFIELLKEKKQALVSYIV 207
              +  +  +L       L++  V
Sbjct: 358 RSQQSHQLTQLRDFLLPMLMNGQV 381


>gi|323481350|gb|ADX80789.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis 62]
          Length = 292

 Score = 86.8 bits (213), Expect = 7e-15,   Method: Composition-based stats.
 Identities = 53/317 (16%), Positives = 104/317 (32%), Gaps = 33/317 (10%)

Query: 97  KAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGN 156
            A +       +    +++ ++        +L+ +      +    G      + K + N
Sbjct: 6   VAYLTQGKFWLNNHAHIMRMRNGSN----YFLVQVLEKIDYKKYNTGTAQPKLNSKIVKN 61

Query: 157 IPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVK 216
           I + IP + EQ  I         ++D +I    R ++LLKE K+  +  +      P   
Sbjct: 62  IELKIPHIEEQQQIGNF----FKQLDDIIALHQRKLDLLKETKKGFLQKMF-----PKNG 112

Query: 217 MKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK 276
            K   I + G     WE      +            E              +   +    
Sbjct: 113 AKVPEIRFPGFTG-DWEQCKLGDIAKMYQPPTISGSELLDTGYPVFGANGYIGFYSKSNH 171

Query: 277 PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWL 336
            E           ++            S   A V   G   S  + V+   I+  +L  +
Sbjct: 172 LED----------QVTISARGEGTGTPSYVKAPVWITG--NSMVINVEDFDINKKFLYAM 219

Query: 337 MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
           + SY L K       G +  L  + + ++P+++P   EQF I         ++D  +   
Sbjct: 220 LLSYSLKKYI---TGGAQPQLTRDVLLKVPIIIPSYNEQFKIGTF----FKQLDDTIALQ 272

Query: 397 EQSIVLLKERRSSFIAA 413
           ++ + LLKE +  F+  
Sbjct: 273 QRKLDLLKETKKGFLQK 289



 Score = 39.4 bits (90), Expect = 1.1,   Method: Composition-based stats.
 Identities = 26/196 (13%), Positives = 55/196 (28%), Gaps = 26/196 (13%)

Query: 20  AIPK--------HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSR 71
            +P+         W+   +    K+    T    + +              Y     N  
Sbjct: 114 KVPEIRFPGFTGDWEQCKLGDIAKMYQPPTISGSELL-----------DTGYPVFGANGY 162

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
               S  +     Q+     G               +   +V+  +D        + + +
Sbjct: 163 IGFYSKSNHLE-DQVTISARGEGTGTPSYVKAPVWITGNSMVINVEDFDINKKFLYAMLL 221

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
                ++    G          +  +P+ IP   EQ  I         ++D  I  + R 
Sbjct: 222 SY--SLKKYITGGAQPQLTRDVLLKVPIIIPSYNEQFKIGTF----FKQLDDTIALQQRK 275

Query: 192 IELLKEKKQALVSYIV 207
           ++LLKE K+  +  + 
Sbjct: 276 LDLLKETKKGFLQKMF 291


>gi|268323778|emb|CBH37366.1| putative type I restriction enzyme, DNA specificity domain
           [uncultured archaeon]
          Length = 323

 Score = 86.8 bits (213), Expect = 7e-15,   Method: Composition-based stats.
 Identities = 31/193 (16%), Positives = 69/193 (35%), Gaps = 2/193 (1%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIV 286
               +          T    +N +  +   ++    N +         +  E  E ++ +
Sbjct: 13  ECIINDVSIKIHYGYTAKANENGRGSKYLRITDIQENKVNWDTVPFCEIDDEEIEKFE-L 71

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK-PHGIDSTYLAWLMRSYDLCKV 345
               IVF        K  L    V  + +  S  + +K  + ID  Y+    +S +    
Sbjct: 72  KENNIVFARTGGTVGKSFLIKNDVPSKAVFASYLIRIKLSNYIDKKYIYLFFQSLNYWSQ 131

Query: 346 FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
                +GL+ ++  + + +L + + P+ EQ  I   I      +D  +  ++++   LK 
Sbjct: 132 IELGKTGLKTNVNAQILSKLKLNLAPLPEQRAIVAKIEQLFCDLDNGMANLKKAQEQLKI 191

Query: 406 RRSSFIAAAVTGQ 418
            R + +  A  G+
Sbjct: 192 YRQAVLKKAFEGE 204



 Score = 72.9 bits (177), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 42/325 (12%), Positives = 106/325 (32%), Gaps = 26/325 (8%)

Query: 21  IPKHWKVVPIKRF-TKLNTGRT---SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           IP +W+   I     K++ G T   +E+G+   Y+ + D++     +          +  
Sbjct: 7   IPDNWEECIINDVSIKIHYGYTAKANENGRGSKYLRITDIQENKVNWDTVPFCEIDDEEI 66

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFD----GICSTQFLVLQPKDVLPELLQGWLLSID 132
                 +  I++ + G  + K+ +   D     + ++  + ++  + + +          
Sbjct: 67  EKFELKENNIVFARTGGTVGKSFLIKNDVPSKAVFASYLIRIKLSNYIDKKYIYLFFQSL 126

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
                  + +    ++ + + +  + + + PL EQ  I  KI      +D  +    +  
Sbjct: 127 NYWSQIELGKTGLKTNVNAQILSKLKLNLAPLPEQRAIVAKIEQLFCDLDNGMANLKKAQ 186

Query: 193 ELLKEKKQALVSYIVT----KGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN 248
           E LK  +QA++          G       K   +  +                    ++N
Sbjct: 187 EQLKIYRQAVLKKAFEGEFTGGTKRWACKKMEAVVELIDG----------DRGPNYPKRN 236

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI----VDPGEIVFRFIDLQNDKRS 304
             L     L LS  N+       N  +     +  Q+    ++ G+I+        +   
Sbjct: 237 DYLYGGYCLFLSTKNVRPDGFEFNETVYISEEKHNQLRKGTLNRGDIILTTRGTIGNVAY 296

Query: 305 LRSAQVMERGIITSAYMAVKPHGID 329
              +   +   I S  + +  + + 
Sbjct: 297 YGESVPFDVIRINSGMLILSRNSVH 321


>gi|84385716|ref|ZP_00988747.1| type I restriction-modification system specificity subunit [Vibrio
           splendidus 12B01]
 gi|84379696|gb|EAP96548.1| type I restriction-modification system specificity subunit [Vibrio
           splendidus 12B01]
          Length = 400

 Score = 86.8 bits (213), Expect = 7e-15,   Method: Composition-based stats.
 Identities = 56/387 (14%), Positives = 123/387 (31%), Gaps = 23/387 (5%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDII--YIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
             WK V              +   + I   +GLE ++S            + +  +    
Sbjct: 15  SDWKKVKFGEVVFEPKESVKDPIAEGIEHVVGLEHIDSEDMHLRRSATIEKSTTFTKKFC 74

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL--PELLQGWLLSIDVTQRIE 138
              G +L+G+   YL+KA  A+F GICS    V++ K+ +  P+LL   + +        
Sbjct: 75  I--GDVLFGRRRAYLKKAAQANFKGICSGDITVMRAKEDILEPDLLPFIVNNDKFFDHAI 132

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
               G       +K + +    +P   +Q  + E +      ++           +   K
Sbjct: 133 THSAGGLSPRVKFKDLADYEFYLPAKDKQFELIELLNGALSALNA--------KNISSRK 184

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
            ++L+     + LN       S +    ++ +  +     A  T L              
Sbjct: 185 VESLLKSFQNQYLNKGYYSNRSLLPDDWVMKNIKDFAKVQAGATPLRSNKDYFDNGTTYW 244

Query: 259 LSYGNIIQKLETRNMGLKPES---YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
           +   ++       +     +      + ++     ++       N        +V     
Sbjct: 245 VKTLDLNNGEINFSEEKISDKAIQKTSCKVKPINTVLVAMYGGFNQIGRTGILKVEAATN 304

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
              + + V    +   YL  ++ +        A+ S    ++  +DV+  PV +PP+  Q
Sbjct: 305 QAISAIEVDESIVLPEYLLHVLNAKVEYWKKVAISSRKDPNITKDDVENFPVPIPPLSTQ 364

Query: 376 FDITNVINVETARIDVLVEKIEQSIVL 402
                 +  +   I  L + +   I  
Sbjct: 365 V----HLIKQVNEILNLQKSLN--IEK 385



 Score = 54.8 bits (130), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 25/170 (14%), Positives = 60/170 (35%), Gaps = 10/170 (5%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTS-ESGKDI------IYIGLEDVESGTGKYLPKDGNSRQS 73
           +P  W +  IK F K+  G T   S KD        ++   D+ +G   +  +  + +  
Sbjct: 208 LPDDWVMKNIKDFAKVQAGATPLRSNKDYFDNGTTYWVKTLDLNNGEINFSEEKISDKAI 267

Query: 74  DTSTVSIFAKGQILYGKLGPY--LRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
             ++  +     +L    G +  + +  I   +   +     ++  + +        +  
Sbjct: 268 QKTSCKVKPINTVLVAMYGGFNQIGRTGILKVEAATNQAISAIEVDESIVLPEYLLHVLN 327

Query: 132 DVTQRIEA-ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
              +  +          +     + N P+PIPPL+ QV + +++      
Sbjct: 328 AKVEYWKKVAISSRKDPNITKDDVENFPVPIPPLSTQVHLIKQVNEILNL 377


>gi|315919694|ref|ZP_07915934.1| conserved hypothetical protein [Bacteroides sp. D2]
 gi|313693569|gb|EFS30404.1| conserved hypothetical protein [Bacteroides sp. D2]
          Length = 402

 Score = 86.8 bits (213), Expect = 7e-15,   Method: Composition-based stats.
 Identities = 54/404 (13%), Positives = 128/404 (31%), Gaps = 41/404 (10%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGT-GKYLPKDGNSRQSDTSTV 78
            WK   + +  ++  G      +        I   ++ +    + + +  +  + D+S +
Sbjct: 23  EWKETTLGKIAEITKGSGISKDQLSEQGSPCILYGELYTKYKSEIINEVYSRTELDSSPL 82

Query: 79  SIFAKGQILYGKLGPYLRKA----IIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
                  ++    G           +   + +      +++ K         + L+    
Sbjct: 83  VKSKANDVIIPCSGETAIDISTARCVLFNNILLGGDLNIIRLK-YDDGGFFAYQLNGARK 141

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           + I  + +G ++ H   + +  I +  P + EQ     KI      ID  I  + + I+ 
Sbjct: 142 KDIARVAQGVSVVHLYGENLKQIRVYYPNIEEQ----RKITHLLSLIDGRIATQNKIIDK 197

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
           LK   + L+  I+T      V                          T            
Sbjct: 198 LKSLIKGLIDDIITLECGLLVTF-------------ETLYSKAGEGGTPTTSNMEFYDNG 244

Query: 255 NILSLSYGNIIQKLETRNMGLKPE---SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
           NI  +   ++  K    N     E      +  ++    I++            +     
Sbjct: 245 NIPFIKIEDLNNKYLLTNKDCITELGLKKSSAWLIPTNSIIYSNGATIGAISINKYPICT 304

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVP 370
           ++GI+      +    ID  YL + MRS    K    + + G  ++   +D+  +   +P
Sbjct: 305 KQGILG----IIPNSNIDVEYLYYFMRSSYFQKEVERIVTEGTMKTAYLKDINHIKCPIP 360

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQS-IVLLKERRSSFIAA 413
              +Q +I++ ++        L E IE   +   + ++   ++ 
Sbjct: 361 DSDKQKEISHALSTL-----SLKEDIENQLLKKYQIQKQYLLSQ 399



 Score = 67.9 bits (164), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 26/209 (12%), Positives = 57/209 (27%), Gaps = 9/209 (4%)

Query: 212 NPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETR 271
           +          E+ G       +     +         +L E     + YG +  K ++ 
Sbjct: 8   DKCNVPHLRFPEFSGE-WKETTLGKIAEITKGSGISKDQLSEQGSPCILYGELYTKYKSE 66

Query: 272 NMGLKPE----SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
            +                    +++           S     +    ++      ++   
Sbjct: 67  IINEVYSRTELDSSPLVKSKANDVIIPCSGETAIDISTARCVLFNNILLGGDLNIIRLKY 126

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
            D  + A+ +       +           L  E++K++ V  P I+EQ  I        +
Sbjct: 127 DDGGFFAYQLNGARKKDIARVAQGVSVVHLYGENLKQIRVYYPNIEEQRKI----THLLS 182

Query: 388 RIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
            ID  +    + I  LK      I   +T
Sbjct: 183 LIDGRIATQNKIIDKLKSLIKGLIDDIIT 211



 Score = 48.3 bits (113), Expect = 0.002,   Method: Composition-based stats.
 Identities = 31/164 (18%), Positives = 59/164 (35%), Gaps = 6/164 (3%)

Query: 45  GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFD 104
             +I +I +ED+ +                 S+  +     I+Y   G  +    I  + 
Sbjct: 243 NGNIPFIKIEDLNNKYLLTNKDCITELGLKKSSAWLIPTNSIIYSN-GATIGAISINKYP 301

Query: 105 GICSTQFLVLQPKDVLP-ELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPP 163
                  L + P   +  E L  ++ S    + +E I    TM  A  K I +I  PIP 
Sbjct: 302 ICTKQGILGIIPNSNIDVEYLYYFMRSSYFQKEVERIVTEGTMKTAYLKDINHIKCPIPD 361

Query: 164 LAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
             +Q    ++I      +        + ++  + +KQ L+S + 
Sbjct: 362 SDKQ----KEISHALSTLSLKEDIENQLLKKYQIQKQYLLSQMF 401


>gi|254481808|ref|ZP_05095051.1| Type I restriction modification DNA specificity domain protein
           [marine gamma proteobacterium HTCC2148]
 gi|214037937|gb|EEB78601.1| Type I restriction modification DNA specificity domain protein
           [marine gamma proteobacterium HTCC2148]
          Length = 386

 Score = 86.4 bits (212), Expect = 7e-15,   Method: Composition-based stats.
 Identities = 51/368 (13%), Positives = 130/368 (35%), Gaps = 33/368 (8%)

Query: 27  VVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           V  IK   K+ TG+T         G DI ++   D+               Q    T+ +
Sbjct: 5   VRAIKHVAKVATGKTPSRKLDDNFGGDIPFVTPGDL-GLAAYITEAPQTLSQKGAETIKL 63

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
             K  ++   +G  L K  IA  +   + Q   +   +       G+     +  ++EA+
Sbjct: 64  IPKNAVMVSCIGT-LGKVAIAGRELATNQQINSVIFDETKVFPKYGYYALGRLKPKMEAL 122

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
               T++  +     ++ + +PPL EQ  I   +             R + I+L  E  +
Sbjct: 123 APSTTVAIINKSNFESLEISVPPLEEQKRIAAILDKADNLRRK----RQQAIQLADEFLR 178

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
           A+   +  +        K S    +G +  +           +   K  +  ES +  ++
Sbjct: 179 AVFLDMFGEMFTTKGYEKASR-RKIGELTSYI----------DYRGKTPEKSESGVPLIT 227

Query: 261 YGNIIQKLET-----RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
             N+ +   +              + +  + +  +++F       +   L +    E+ +
Sbjct: 228 AKNVKKGYISEEPREFIPEENYLEWMSRGLPEKNDVLFTTEAPLGNVALLGNY---EKVV 284

Query: 316 ITSAYMAVKP-HGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIK 373
           +    ++++    +   +L   + +  +  +     SG   + ++ +++  + + VP ++
Sbjct: 285 VGQRLISLRSLGKVTQEFLMHALLNRFVQGLIEKRSSGSTVKGIRTKELYEIEIPVPNLE 344

Query: 374 EQFDITNV 381
           +Q   + +
Sbjct: 345 DQKRFSKI 352



 Score = 67.5 bits (163), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 24/139 (17%), Positives = 49/139 (35%), Gaps = 8/139 (5%)

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
            +      L  +  ET +++    ++   I     K ++   ++     I S        
Sbjct: 45  YITEAPQTLSQKGAETIKLIPKNAVMVSCIGTLG-KVAIAGRELATNQQINSVIFDETKV 103

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
                Y  + +          A  S     +   + + L + VPP++EQ  I  +++   
Sbjct: 104 F--PKYGYYALGRLKPKMEALAP-STTVAIINKSNFESLEISVPPLEEQKRIAAILD--- 157

Query: 387 ARIDVLVEKIEQSIVLLKE 405
            + D L  K +Q+I L  E
Sbjct: 158 -KADNLRRKRQQAIQLADE 175


>gi|324993831|gb|EGC25750.1| type I restriction-modification system specificity determinant
           [Streptococcus sanguinis SK405]
          Length = 390

 Score = 86.4 bits (212), Expect = 7e-15,   Method: Composition-based stats.
 Identities = 63/410 (15%), Positives = 136/410 (33%), Gaps = 33/410 (8%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            +WK V +    + N   T   G     I +E +E  T      +      +    + F 
Sbjct: 2   NNWKKVKLSDIIEFNPRETLSKGAIAKKIAMEKLEPFTRDIPEFEY----LEYRGGTKFR 57

Query: 83  KGQILYGKLGPYLRKAII-------ADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
            G  L  ++ P L             D  G  ST+F+V++ K+ + +    + L I  + 
Sbjct: 58  NGDTLMARITPSLENGKTSKVNLLDEDEVGFGSTEFIVVRAKENISDENFVYYLMIAPSI 117

Query: 136 R---IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           R   I+++   +         + N  +  PPL EQ+ I + + A   +I+          
Sbjct: 118 REVAIKSMVGTSGRQRVQLDVVKNHEILCPPLKEQIRIGKILKALDDKIENNKKINHHLE 177

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           E         +     +     + +K   I+    V DH     F +L   +        
Sbjct: 178 E---------ILQANLEKQLESISIKSKIIDLNLTVSDHVANGSFKSLKDNVKLVEKTDY 228

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
              + ++   N +   E R +      +     +   E++   +        +    +  
Sbjct: 229 ALFLRNIDLKNHLNG-ERRYVTESSYEFLKKSRLYGHEVIISNVADVGSVHRVPKMNMPM 287

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPP 371
                +       + + + YL     S        ++ SG  +Q     D + L + +  
Sbjct: 288 VAG-NNVVFLQSENSLLTDYLYVYFNSRLGQHDIMSITSGSAQQKFNKTDFRNLEIPILS 346

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
                    +I  + + I   ++ I + I  L + R++ +   ++G+I +
Sbjct: 347 DD-------IIKKKISSILHYIDNIHEEIACLMKIRATLLPKLLSGEISV 389


>gi|149391962|emb|CAL68658.1| restriction-modification enzyme [Thermus scotoductus]
          Length = 1251

 Score = 86.4 bits (212), Expect = 7e-15,   Method: Composition-based stats.
 Identities = 51/381 (13%), Positives = 111/381 (29%), Gaps = 49/381 (12%)

Query: 25   WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
            W+V  +        G+     K     G   V    G+                 +    
Sbjct: 893  WEVRKVGDVCNFEYGKGLPQNKRQP--GPYPVIGSNGRV----------GFHNQYLVEGP 940

Query: 85   QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
             I+ G+ G         +      T F V      +      +L  +     ++ +  G 
Sbjct: 941  AIIVGRKGTAGAVYWEDNNCWPIDTTFYVKLKASDIS---LRYLYLMLQELHLDKLSGGV 997

Query: 145  TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
             +   +   +    +P+PPL  Q  I ++  A    ++    E     ++ KEK QA  +
Sbjct: 998  GVPGLNRDDVYQQKIPVPPLDVQAQIVDECQAIDAEVEQAEKEVSDCYQIAKEKVQACFA 1057

Query: 205  YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
                  L   V                         +   +   T+  E + + +  GN+
Sbjct: 1058 QGQVTALGTLV------------------------HINRESTDPTQFSEKSFIYVDIGNV 1093

Query: 265  IQKLETRNMGL----KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
             +     +       K       +I   G ++   +       +       +  + ++ +
Sbjct: 1094 EKGTGVIDYSQVITGKDAPSRARRIAPKGSVIISTVRPNLRGFAFIDRDTAD-CVFSTGF 1152

Query: 321  MAVKPHG----IDSTYLAWLMRSYDLCKV-FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
              ++        + +     M S DL      AMG     S+   D++ L + VP ++ Q
Sbjct: 1153 AVLESKDESVLKNKSLFYAFMFSDDLMAQMIDAMGKAAYPSINQTDIENLRIRVPDVQAQ 1212

Query: 376  FDITNVINVETARIDVLVEKI 396
              +   ++    ++      I
Sbjct: 1213 EKLIQELDKLETQLQSARAVI 1233



 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/161 (11%), Positives = 44/161 (27%)

Query: 245  NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
              K       ++ +  YG  + + + +                   +V     +   K +
Sbjct: 890  QSKWEVRKVGDVCNFEYGKGLPQNKRQPGPYPVIGSNGRVGFHNQYLVEGPAIIVGRKGT 949

Query: 305  LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKR 364
              +    +                    L +L        +    G      L  +DV +
Sbjct: 950  AGAVYWEDNNCWPIDTTFYVKLKASDISLRYLYLMLQELHLDKLSGGVGVPGLNRDDVYQ 1009

Query: 365  LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
              + VPP+  Q  I +      A ++   +++     + KE
Sbjct: 1010 QKIPVPPLDVQAQIVDECQAIDAEVEQAEKEVSDCYQIAKE 1050


>gi|262403984|ref|ZP_06080539.1| type I restriction-modification system specificity subunit S
           [Vibrio sp. RC586]
 gi|262349016|gb|EEY98154.1| type I restriction-modification system specificity subunit S
           [Vibrio sp. RC586]
          Length = 391

 Score = 86.4 bits (212), Expect = 7e-15,   Method: Composition-based stats.
 Identities = 57/402 (14%), Positives = 121/402 (30%), Gaps = 24/402 (5%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIG----LEDVESGTGKYL-PKDGNSRQSDTSTVSIFA 82
           V IK   K+ TG+T     +  + G    +  VE G+ +++ P      ++  + + +  
Sbjct: 2   VSIKSVAKVTTGKTPSKKVEEYFGGHIPFISPVELGSAQFVSPAKQTLTEAGAAQIKLVP 61

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           K  +L   +G  L K  IAD     + Q   +   + L     G+     +   +E+I  
Sbjct: 62  KNSVLVCCIGS-LGKLAIADQTLATNQQINSVTFDEKLVFPKYGYYALSRLKPILESIAP 120

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
             T++         + +P+PPL EQ  I   +                  E        L
Sbjct: 121 ATTVAIVSKSKFEELEIPLPPLEEQKRIAAILDKADAIRQKRKQAITLADEF-------L 173

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
            S  +    +P    K    + +                +    +    +   I +++ G
Sbjct: 174 RSVFLEMFGDPVTNPKGWSRKEIKEGVSRITSGWSAKGDSRPCGQGEVGV-LKISAVTSG 232

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
               K             +       G+++F   + +    +          +     + 
Sbjct: 233 EFKPKENKFVEKHIIPEGKNLIFPKKGDLLFSRANTRELVAATCIVPKDCDDVFLPDKLW 292

Query: 323 VK---PHGIDSTYLAWLMRSYDLCKVFYAMG---SGLRQSLKFEDVKRLPVLVPPIKEQF 376
                   +   Y   L++     +   +     SG   ++  +  +       PI  Q 
Sbjct: 293 NIELSSEELMPEYFHMLLQDDKFKETLTSQATGSSGSMLNISKQKFETTLAPFAPIDLQM 352

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
              N+              ++ S   L E+ ++    A +GQ
Sbjct: 353 KFKNIYWHLKDNA----ANMKNSEDYLIEQFNALSQKAFSGQ 390



 Score = 46.3 bits (108), Expect = 0.008,   Method: Composition-based stats.
 Identities = 29/208 (13%), Positives = 62/208 (29%), Gaps = 22/208 (10%)

Query: 22  PKHWKVVPIKR-FTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           PK W    IK   +++ +G +++         ++  + +  V SG  K        +   
Sbjct: 188 PKGWSRKEIKEGVSRITSGWSAKGDSRPCGQGEVGVLKISAVTSGEFKPKENKFVEKHII 247

Query: 75  TSTVSIF--AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL-------PELLQ 125
               ++    KG +L+ +       A        C   FL  +  ++        PE   
Sbjct: 248 PEGKNLIFPKKGDLLFSRANTRELVAATCIVPKDCDDVFLPDKLWNIELSSEELMPEYFH 307

Query: 126 GWLLSIDVTQRIEAICEGA--TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
             L      + + +   G+  +M +   +       P  P+  Q+  +            
Sbjct: 308 MLLQDDKFKETLTSQATGSSGSMLNISKQKFETTLAPFAPIDLQMKFKNIYWHLKDNAAN 367

Query: 184 LITERIRFIELLKEKKQALVSYIVTKGL 211
           +            E+  AL     +  L
Sbjct: 368 MKNSEDYL----IEQFNALSQKAFSGQL 391


>gi|298502305|ref|YP_003724245.1| type I restriction-modification system subunit S [Streptococcus
           pneumoniae TCH8431/19A]
 gi|298237900|gb|ADI69031.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae TCH8431/19A]
          Length = 522

 Score = 86.4 bits (212), Expect = 7e-15,   Method: Composition-based stats.
 Identities = 69/441 (15%), Positives = 133/441 (30%), Gaps = 71/441 (16%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNSR 71
            IP  W+ V      ++  G +    KD        I +I + D E G           +
Sbjct: 83  DIPDTWEWVRFSTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINNVKEKIK 142

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
           +S  +      KG  L      + R  I+     I      +   ++ L +    ++LS 
Sbjct: 143 KSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYLFYILSS 202

Query: 132 D-VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
           + V  +  ++  GA + + +   + +I +P+PPLAEQ  I E I +   ++D       R
Sbjct: 203 NVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLAEQQRIIEAIESALEKVDEYAESYNR 262

Query: 191 FIELLKEKK----QALVSYIVTKG--------------LNPDVKMKDSGIEW-------- 224
             +L KE      ++++ Y +                 L      K    E         
Sbjct: 263 LEQLDKEFPDKLKKSILQYAMQGKLVEQDPNDESVEVLLEKIRAEKQKLFEEGKIKKKDL 322

Query: 225 ------------------------VGLVPDHWEVKPFFALVTELNRKNTK-----LIESN 255
                                   +  +P+ W    F +LV     K           + 
Sbjct: 323 DISIVSQGDDNSYYGNKDETTSYPIYEIPEAWRYIKFASLVNFRIGKTPPRSEATFWGTE 382

Query: 256 ILSLSYGNIIQKLETRN----MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
           I  +S  ++       N    +       +   I   G ++  F         L      
Sbjct: 383 IPWVSISDMPISGYVTNTRESISKLALKSKKIDISPKGTLLMSFKLSIGKVAILDIPATH 442

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
              II+  +       I   YL   +              G  ++L    +  L + +  
Sbjct: 443 NEAIIS-IFPYANKENIIRDYLMIFLPLISTLGDSKDAIKG--KTLNSTSISELLIPISN 499

Query: 372 IKEQFDITNVINVETARIDVL 392
            +E   I + +++   ++  L
Sbjct: 500 HEEMKRIISKVDLLFQKVSQL 520



 Score = 78.7 bits (192), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 43/210 (20%), Positives = 81/210 (38%), Gaps = 12/210 (5%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
            I+    +PD WE   F  LV  +   + + I+  + S   G    K+     G K  + 
Sbjct: 77  EIDVPYDIPDTWEWVRFSTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINN 136

Query: 281 ETYQIVDPG-----EIVFRFIDLQNDKRSLRSAQVMERGIITSAY--MAVKPHGIDSTYL 333
              +I   G      +      L N     R   +   G I   +  ++   + ++  YL
Sbjct: 137 VKEKIKKSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYL 196

Query: 334 AWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            +++ S  +   F ++ SG   ++L  + V  + + +PP+ EQ  I   I     ++D  
Sbjct: 197 FYILSSNVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLAEQQRIIEAIESALEKVDEY 256

Query: 393 VEKIEQSIVLLKE----RRSSFIAAAVTGQ 418
            E   +   L KE     + S +  A+ G+
Sbjct: 257 AESYNRLEQLDKEFPDKLKKSILQYAMQGK 286



 Score = 48.3 bits (113), Expect = 0.002,   Method: Composition-based stats.
 Identities = 19/119 (15%), Positives = 43/119 (36%), Gaps = 8/119 (6%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDV-ESGTGKYLPKDGNS 70
           I  IP+ W+ +          G+T    +      +I ++ + D+  SG      +  + 
Sbjct: 347 IYEIPEAWRYIKFASLVNFRIGKTPPRSEATFWGTEIPWVSISDMPISGYVTNTRESISK 406

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
               +  + I  KG +L       + K  I D     +   + + P      +++ +L+
Sbjct: 407 LALKSKKIDISPKGTLLMS-FKLSIGKVAILDIPATHNEAIISIFPYANKENIIRDYLM 464


>gi|219669965|ref|YP_002460400.1| restriction modification system DNA specificity domain protein
           [Desulfitobacterium hafniense DCB-2]
 gi|219540225|gb|ACL21964.1| restriction modification system DNA specificity domain protein
           [Desulfitobacterium hafniense DCB-2]
          Length = 406

 Score = 86.4 bits (212), Expect = 8e-15,   Method: Composition-based stats.
 Identities = 49/408 (12%), Positives = 113/408 (27%), Gaps = 29/408 (7%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           G I     V  +K +  L+    ++      YI   D+       + +D +         
Sbjct: 2   GEI-----VKKLKSY-PLSRDVETKERTGYRYIHYGDIHKQIADLIVQDEDLPSIKEGDY 55

Query: 79  SIFAKGQILYGKLGPYLRKAIIA-------DFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
               +G ++   +                     I     + ++P+      L   L + 
Sbjct: 56  IPLNQGDLVLADVSEDYTGIAEPSIILHEPKTKIIAGLHTIAIRPQSATSLYLYYLLHTE 115

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
              +    +  G  +    +  +    +  P   EQ  I          I     +  + 
Sbjct: 116 RFKKFGSHVGTGLKVFGITFNNLSLFQIKTPSFPEQTAIGNFFRTLDDTITLHKRKLDKL 175

Query: 192 IELLKEKKQALVSYI------VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN 245
            EL     Q L          V      +     S    +        +        + +
Sbjct: 176 KELKNGYLQKLFPQPGEDVPRVRFAGFNEPWEVRSFENILAPAVASNTLSRAELSYEKGS 235

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
            KN    +  +    Y +I +         +   Y+   ++  G+++F            
Sbjct: 236 IKNIHYGDILVRFGVYIDIARDPIPCIANGRIIDYKNK-LLQEGDVIFADTAEDETVGKA 294

Query: 306 RSAQVMERGIITSAYMAV---KPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ-SLKFED 361
                +    + S    +       +   YL + + S+        +  G++  SL  ++
Sbjct: 295 VEITNISNFQVVSGLHTMAYRPKIKMSPYYLGYYLNSHSFRYQLLPLMQGVKVLSLSRKN 354

Query: 362 VKRLPVLVPP-IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
           + +  +  P  + EQ  I + +     +I  L       +  LK+ +S
Sbjct: 355 LSKTLIRYPAVLSEQSQIGDFLRNLDEQIFTLY----NKLGKLKQLKS 398



 Score = 76.4 bits (186), Expect = 9e-12,   Method: Composition-based stats.
 Identities = 28/172 (16%), Positives = 61/172 (35%), Gaps = 8/172 (4%)

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS--- 304
             +     I        I  L  ++  L       Y  ++ G++V   +       +   
Sbjct: 20  KERTGYRYIHYGDIHKQIADLIVQDEDLPSIKEGDYIPLNQGDLVLADVSEDYTGIAEPS 79

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVK 363
           +   +   + I     +A++P    S YL +L+ +    K    +G+GL    + F ++ 
Sbjct: 80  IILHEPKTKIIAGLHTIAIRPQSATSLYLYYLLHTERFKKFGSHVGTGLKVFGITFNNLS 139

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
              +  P   EQ  I N        +D  +   ++ +  LKE ++ ++    
Sbjct: 140 LFQIKTPSFPEQTAIGNF----FRTLDDTITLHKRKLDKLKELKNGYLQKLF 187


>gi|319777746|ref|YP_004137397.1| restriction modification system DNA specificity domain [Mycoplasma
           fermentans M64]
 gi|318038821|gb|ADV35020.1| Restriction modification system DNA specificity domain [Mycoplasma
           fermentans M64]
          Length = 372

 Score = 86.4 bits (212), Expect = 8e-15,   Method: Composition-based stats.
 Identities = 52/383 (13%), Positives = 127/383 (33%), Gaps = 26/383 (6%)

Query: 46  KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDG 105
           K++                P  G +            +  I+ G++G       I +   
Sbjct: 6   KELGIFETGSTLIKKIGNFPAFGGNGIITYVNKWNVDEDAIIIGRVGANCGCVNITNKKS 65

Query: 106 ICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLA 165
             +   L+ +PK+        +     +   +     G++        +GNI + IP L 
Sbjct: 66  FVTDNALIFKPKEKNMARFYFYF---LLHLNLNKFHIGSSQPLLTQGILGNIKINIPSLN 122

Query: 166 EQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWV 225
           +   I + +      ID  I      ++ L+   QA+ +    +  +     K    E +
Sbjct: 123 KCQKISKILDN----IDNQIERNNSMVQKLQVMGQAIFNRWFLQFEHFKKDNKFKYNEDL 178

Query: 226 G-LVPDHWEVKPFFALVTELNR-----KNTKLIESNILSLSYG---NIIQKLETRNMGLK 276
              +P++WEVK    +           KN +     I  L+ G   N       + +  K
Sbjct: 179 NLKIPENWEVKKIAEICKIFLGGTPSTKNREYWNGEINWLNSGEVANFPIIDSEKTINEK 238

Query: 277 PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWL 336
                  +++  G +V           ++R + +     I  + + ++ + +      + 
Sbjct: 239 GLKNSNTKLLKKGTVVISITG------NIRVSYLAIDSCINQSIVGIEENELLKIGYLYP 292

Query: 337 MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
                +  +  +     ++ +    ++ L +++PP     ++ ++ N  T  I   + +I
Sbjct: 293 FLKNKIEFLIRSSTGNCQKHINKNFIENLKIVLPP----KNVLDIFNNLTQNIYAKISQI 348

Query: 397 EQSIVLLKERRSSFIAAAVTGQI 419
                 L + ++  +   +  QI
Sbjct: 349 SLMTKKLIKFKNKLLPLLINQQI 371



 Score = 65.2 bits (157), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 28/192 (14%), Positives = 65/192 (33%), Gaps = 9/192 (4%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQS 73
            IP++W+V  I    K+  G T  +        +I ++   +V +       K  N +  
Sbjct: 181 KIPENWEVKKIAEICKIFLGGTPSTKNREYWNGEINWLNSGEVANFPIIDSEKTINEKGL 240

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
             S   +  KG ++    G    +      D   +   +V   ++ L ++   +    + 
Sbjct: 241 KNSNTKLLKKGTVVISITGNI--RVSYLAIDSCINQS-IVGIEENELLKIGYLYPFLKNK 297

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            + +     G    H +   I N+ + +PP     +          +I  +     + I+
Sbjct: 298 IEFLIRSSTGNCQKHINKNFIENLKIVLPPKNVLDIFNNLTQNIYAKISQISLMTKKLIK 357

Query: 194 LLKEKKQALVSY 205
              +    L++ 
Sbjct: 358 FKNKLLPLLINQ 369


>gi|293408034|ref|ZP_06651874.1| conserved hypothetical protein [Escherichia coli B354]
 gi|291472285|gb|EFF14767.1| conserved hypothetical protein [Escherichia coli B354]
          Length = 576

 Score = 86.4 bits (212), Expect = 8e-15,   Method: Composition-based stats.
 Identities = 46/190 (24%), Positives = 79/190 (41%), Gaps = 2/190 (1%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIY-IGLEDVESGTGKYLPKDGNSRQSDTSTV 78
            +P+ W+   I     + +   S      +Y +  + +E GTG+ + K            
Sbjct: 388 ELPEGWEWCRIGNIVNIKSELVSPKDYLNLYQVAPDIIEKGTGRVISKRTVKESGVKGPN 447

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           S F KGQI+Y K+ P L K  +A+++G+CS     L    + P  L  ++LSI    +++
Sbjct: 448 SRFYKGQIVYSKIRPSLSKVFLAEYNGLCSADMYPLDC-YINPNYLLKYILSIPFLMQVK 506

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
                  M   +     NI + IPP  EQ  I +KI +     + LI+    + +     
Sbjct: 507 KAENRIKMPKLNSDSFYNIIVAIPPYNEQQAIFDKINSIEAVCNGLISYIGIYHKTQLHL 566

Query: 199 KQALVSYIVT 208
             AL    + 
Sbjct: 567 ADALTDAAIN 576



 Score = 84.5 bits (207), Expect = 3e-14,   Method: Composition-based stats.
 Identities = 69/482 (14%), Positives = 136/482 (28%), Gaps = 98/482 (20%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLE 54
           +K  K  P+   S  +    +P+ W+   +        G    +       K+I+   + 
Sbjct: 83  IKKQKPLPEI--SEEEKPFELPEGWEWTRLINLGIWALGSGFPNVVQGSTDKEILMCKVS 140

Query: 55  DVE-SGTGKYLPKDGNSRQSDTS---TVSIFAKGQILYGKLG---PYLRKAIIADFDGIC 107
           D+   G  K++    N+   D +    + I   G I++ K+G      ++ I+     I 
Sbjct: 141 DMNLEGNEKFIFSTKNTISKDLADEYKIKISEPGTIIFPKIGGAIATNKRRILVQDTAID 200

Query: 108 STQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQ 167
           +    +     +  E     L ++D    +     G ++   +   IG+IP+ +P L  Q
Sbjct: 201 NNCLGIKPCDAISGEWFYLILNTLD----MSKYQSGTSIPAINQSVIGSIPIALPSLKMQ 256

Query: 168 VLIREK-----------------------------------------IIAETVRIDTLIT 186
             I                                            +     RI     
Sbjct: 257 EKIVSYVITLMSLCDQLEQQSLTSLDAHQQLVETLLGTLTDSQNAEELAENWTRISEHFD 316

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKD--------------------------- 219
                   +   KQ ++   V   L P     +                           
Sbjct: 317 TLFTTEASVDALKQTILQLAVMGKLVPQDPNDEPASELLKRIAQEKAQLVKEGKIKKQKP 376

Query: 220 ----SGIEWVGLVPDHWEVKPFFALVTEL---NRKNTKLIESNILSLSYGNIIQKLETRN 272
               S  E    +P+ WE      +V            L    +          ++ ++ 
Sbjct: 377 LPPISDEEKPFELPEGWEWCRIGNIVNIKSELVSPKDYLNLYQVAPDIIEKGTGRVISKR 436

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
              +            G+IV+  I     K  L        G+ ++    +  +   +  
Sbjct: 437 TVKESGVKGPNSRFYKGQIVYSKIRPSLSKVFLAEY----NGLCSADMYPLDCYINPNYL 492

Query: 333 LAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
           L +++    L +V  A        L  +    + V +PP  EQ  I + IN   A  + L
Sbjct: 493 LKYILSIPFLMQVKKAENRIKMPKLNSDSFYNIIVAIPPYNEQQAIFDKINSIEAVCNGL 552

Query: 393 VE 394
           + 
Sbjct: 553 IS 554



 Score = 69.8 bits (169), Expect = 7e-10,   Method: Composition-based stats.
 Identities = 28/204 (13%), Positives = 66/204 (32%), Gaps = 16/204 (7%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI-----ESNILSLSYGNIIQKLETRNMG 274
           S  E    +P+ WE      L           +     +  IL     ++  +   + + 
Sbjct: 93  SEEEKPFELPEGWEWTRLINLGIWALGSGFPNVVQGSTDKEILMCKVSDMNLEGNEKFIF 152

Query: 275 LKPESYETY-------QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
               +           +I +PG I+F  I       + R   V +  I  +         
Sbjct: 153 STKNTISKDLADEYKIKISEPGTIIFPKIGGAI-ATNKRRILVQDTAIDNNCLGIKPCDA 211

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           I   +   ++ + D+ K           ++    +  +P+ +P +K Q  I + +    +
Sbjct: 212 ISGEWFYLILNTLDMSKY---QSGTSIPAINQSVIGSIPIALPSLKMQEKIVSYVITLMS 268

Query: 388 RIDVLVEKIEQSIVLLKERRSSFI 411
             D L ++   S+   ++   + +
Sbjct: 269 LCDQLEQQSLTSLDAHQQLVETLL 292


>gi|293384344|ref|ZP_06630229.1| restriction endonuclease S subunit [Enterococcus faecalis R712]
 gi|291078336|gb|EFE15700.1| restriction endonuclease S subunit [Enterococcus faecalis R712]
          Length = 409

 Score = 86.4 bits (212), Expect = 8e-15,   Method: Composition-based stats.
 Identities = 63/405 (15%), Positives = 137/405 (33%), Gaps = 32/405 (7%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESG----KDIIYIGLEDVESG------TGKYLPKDGNSRQ 72
           + W++  +++ T   +G T             +   +V+              +  NS  
Sbjct: 18  EDWELCKLEKLTDFFSGLTYSPDNVQKDGTFVLRSSNVKDNAIISADNVYVRNEVANSEH 77

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
                V +  +     G      + A I            +   +   P+ L   L +  
Sbjct: 78  VQVGDVIVVVRN----GSRSLIGKHAPINREMPNTVIGAFMTGLRSPSPKFLNTLLDTQQ 133

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
               I     GAT++         +   +P   ++    EKI +   ++D +IT   R +
Sbjct: 134 FNVEIHKNL-GATINQITTGEFKRMHFIVPTDEDEK---EKIGSLFRQLDDIITLHQRKL 189

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           + LKE K+A +  +         K++ +  E  G               T+ ++     +
Sbjct: 190 DQLKELKKAYLQVMFPAKDERVPKLRFADFE--GEWEQCKLGNILTERNTQQSKSKEYPL 247

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
            S  +        ++ E   +    +S + Y++ +  +IV+   +L   K    +     
Sbjct: 248 VSFTVEDGVTPKTERYEREQLVRGDKSSKKYKVTELNDIVYNPANL---KFGAIARNHYG 304

Query: 313 RGIITSAYMAVKPHGI--DSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPV 367
           + + +  Y+    +     S+Y+   +   D          G    RQS+  E++  +  
Sbjct: 305 KAVFSPIYITFIVNDKLACSSYVEVFITRKDFISYSLKYQQGTVYERQSVSPENLLNMKF 364

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           L+P  KEQ  I +       ++D      ++ I  LK  + S++ 
Sbjct: 365 LLPNTKEQEFIGHF----FEKLDCNSNFHKKKITQLKNLKKSYLQ 405


>gi|296535588|ref|ZP_06897769.1| specificity determinant for HsdM and hsdR [Roseomonas cervicalis
           ATCC 49957]
 gi|296264104|gb|EFH10548.1| specificity determinant for HsdM and hsdR [Roseomonas cervicalis
           ATCC 49957]
          Length = 480

 Score = 86.4 bits (212), Expect = 8e-15,   Method: Composition-based stats.
 Identities = 75/439 (17%), Positives = 137/439 (31%), Gaps = 52/439 (11%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTS-ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           +P  W    +         R   ++  ++ ++GLE +     +  P          S  S
Sbjct: 9   LPAGWAHTTLGEVAGEPRARVPADAKSNLPFVGLEHIAPHALR--PHGFGRFGDMRSAAS 66

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
            F  G +LY ++ PYL K   AD +G+ S +FLVL     +       LL          
Sbjct: 67  PFTPGDVLYARMRPYLNKVWHADREGVASAEFLVLPRSGRVHPDFLALLLHHRPFVEFAR 126

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
                     +W  I   P+ +PP AEQ  I   + A    ++       R  E L + +
Sbjct: 127 HASSGDRPRVEWADISKYPIALPPRAEQDRIVTAVNALFDEVEAGEASLARAREGLTQFR 186

Query: 200 QALVSYIVT------------------------------KGLNPDVKMKDSGIEWVGLVP 229
            +L+    T                              +GL P       G   +  +P
Sbjct: 187 TSLLHAACTGALTADWRTANPTNQTAADLLAEVAAWRAARGLKPLAAASAVGTATLPTLP 246

Query: 230 DHWEVKPFFALVTELNRKNTK-------LIESNILSLSYGNIIQ---KLETRNMGLKPES 279
           + W       L      K+         L  + +  +  G + +   ++ + +       
Sbjct: 247 EGWIWASLPQLGEFGRGKSKHRPRDDARLYGAAMPFIQTGEVSRSRGRITSWSRMYSDFG 306

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
               ++   G +            +       +     S    V PH   + Y+   M++
Sbjct: 307 VAQSKVWPAGTVCI----TIAANIAASGILTFDACFPDSVVGLVTPHAALARYVELFMQT 362

Query: 340 YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
                  YA     ++++  E +  + V +PP+ E   I   ++         V  I   
Sbjct: 363 ARANLEAYAPA-TAQKNINLEILNTVAVPLPPLMEIEAIVRAVDDVHTEAVEPVGTIADG 421

Query: 400 IVLLKERRSSFIAAAVTGQ 418
                  R S + AA TG+
Sbjct: 422 SA----LRQSILHAAFTGR 436



 Score = 43.6 bits (101), Expect = 0.055,   Method: Composition-based stats.
 Identities = 26/207 (12%), Positives = 61/207 (29%), Gaps = 14/207 (6%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGN 69
           +  +P+ W    + +  +   G++    +D        + +I   +V    G+       
Sbjct: 242 LPTLPEGWIWASLPQLGEFGRGKSKHRPRDDARLYGAAMPFIQTGEVSRSRGRITSWSRM 301

Query: 70  SRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
                 +   ++  G +    +   +  + I  FD       +V              L 
Sbjct: 302 YSDFGVAQSKVWPAGTVCIT-IAANIAASGILTFDACF-PDSVVGLVTPHAALARYVELF 359

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
                  +EA        + + + +  + +P+PPL E   I   +          +    
Sbjct: 360 MQTARANLEAYAPATAQKNINLEILNTVAVPLPPLMEIEAIVRAVDDVHTEAVEPVGTIA 419

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVK 216
               L    +Q+++    T  L P   
Sbjct: 420 DGSAL----RQSILHAAFTGRLVPQDP 442


>gi|169834387|ref|YP_001694008.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae Hungary19A-6]
 gi|168996889|gb|ACA37501.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae Hungary19A-6]
 gi|332203679|gb|EGJ17746.1| type I restriction modification DNA specificity domain protein
           [Streptococcus pneumoniae GA47368]
          Length = 522

 Score = 86.4 bits (212), Expect = 8e-15,   Method: Composition-based stats.
 Identities = 68/441 (15%), Positives = 133/441 (30%), Gaps = 71/441 (16%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNSR 71
            IP  W+ V      ++  G +    KD        I +I + D E G           +
Sbjct: 83  DIPDTWEWVRFSTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINNVKEKIK 142

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
           +S  +      KG  L      + R  I+     I      +   ++ L +    ++LS 
Sbjct: 143 KSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYLFYILSS 202

Query: 132 D-VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
           + V  +  ++  GA + + +   + +I +P+PPL+EQ  I E I +   ++D       R
Sbjct: 203 NVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLSEQQRIIEAIESALEKVDEYAESYNR 262

Query: 191 FIELLKEKK----QALVSYIVTKG--------------LNPDVKMKDSGIEW-------- 224
             +L KE      ++++ Y +                 L      K    E         
Sbjct: 263 LEQLDKEFPDKLKKSILQYAMQGKLVEQDPNDESVEVLLEKIRAEKQKLFEEGKIKKKDL 322

Query: 225 ------------------------VGLVPDHWEVKPFFALVTELNRKNTK-----LIESN 255
                                   +  +P+ W    F +LV     K           + 
Sbjct: 323 DISIVSQGDDNSYYGNKDETTSYPIYEIPEAWRYIKFASLVNFRIGKTPPRSEATFWGTE 382

Query: 256 ILSLSYGNIIQKLETRN----MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
           I  +S  ++       N    +       +   I   G ++  F         L      
Sbjct: 383 IPWVSISDMPISGYVTNTRESISKLALKSKKIDISPKGTLLMSFKLSIGKVAILDIPATH 442

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
              II+  +       I   YL   +              G  ++L    +  L + +  
Sbjct: 443 NEAIIS-IFPYANKENIIRDYLMIFLPLISTLGDSKDAIKG--KTLNSTSISELLIPISN 499

Query: 372 IKEQFDITNVINVETARIDVL 392
            +E   I + +++   ++  L
Sbjct: 500 HEEMKRIISKVDLLFQKVSQL 520



 Score = 78.7 bits (192), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 43/210 (20%), Positives = 81/210 (38%), Gaps = 12/210 (5%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
            I+    +PD WE   F  LV  +   + + I+  + S   G    K+     G K  + 
Sbjct: 77  EIDVPYDIPDTWEWVRFSTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINN 136

Query: 281 ETYQIVDPG-----EIVFRFIDLQNDKRSLRSAQVMERGIITSAY--MAVKPHGIDSTYL 333
              +I   G      +      L N     R   +   G I   +  ++   + ++  YL
Sbjct: 137 VKEKIKKSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYL 196

Query: 334 AWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            +++ S  +   F ++ SG   ++L  + V  + + +PP+ EQ  I   I     ++D  
Sbjct: 197 FYILSSNVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLSEQQRIIEAIESALEKVDEY 256

Query: 393 VEKIEQSIVLLKE----RRSSFIAAAVTGQ 418
            E   +   L KE     + S +  A+ G+
Sbjct: 257 AESYNRLEQLDKEFPDKLKKSILQYAMQGK 286



 Score = 48.3 bits (113), Expect = 0.002,   Method: Composition-based stats.
 Identities = 19/119 (15%), Positives = 43/119 (36%), Gaps = 8/119 (6%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDV-ESGTGKYLPKDGNS 70
           I  IP+ W+ +          G+T    +      +I ++ + D+  SG      +  + 
Sbjct: 347 IYEIPEAWRYIKFASLVNFRIGKTPPRSEATFWGTEIPWVSISDMPISGYVTNTRESISK 406

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
               +  + I  KG +L       + K  I D     +   + + P      +++ +L+
Sbjct: 407 LALKSKKIDISPKGTLLMS-FKLSIGKVAILDIPATHNEAIISIFPYANKENIIRDYLM 464


>gi|170731318|ref|YP_001776751.1| type I restriction system specificity protein [Xylella fastidiosa
           M12]
 gi|167966111|gb|ACA13121.1| type I restriction system specificity protein [Xylella fastidiosa
           M12]
          Length = 399

 Score = 86.4 bits (212), Expect = 8e-15,   Method: Composition-based stats.
 Identities = 37/292 (12%), Positives = 92/292 (31%), Gaps = 21/292 (7%)

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            Q I    +                +P+PPL  Q  I + +   T     L  E    +E
Sbjct: 119 MQMIAYTPQDHARQWI--GTYSKFLIPVPPLEVQRQIVKVLDTFTTLEAELEAELEAELE 176

Query: 194 LLKEKKQALVSYI--VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
             + + Q     +    +G +   +++   +  +G          F   V        + 
Sbjct: 177 ARRRQYQYYRDALLRFEEGTDAATRVRWVTLGEIG---------SFIRGVGIQKSDFIEF 227

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETY-QIVDPGEIVFRFIDLQNDKRSLRSAQV 310
               I              +        +    +  + G++V       +D  +   A +
Sbjct: 228 GSGCIHYGQIHTHYGTWADKTKSFIRSDFAARLRKANTGDLVIATTSEDDDAVAKAVAWM 287

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLV 369
            +  +  S    +  H I++ Y+++  ++           +G   + +  + + ++ + V
Sbjct: 288 GDEEVAVSTDAYIYRHTINAKYVSYFFQTKFFHSQKKPHITGTKVRRISGDSLAKIRIPV 347

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA--AAV 415
           PP++ Q  I  V++     ++ +   +   I   ++     R   +    AV
Sbjct: 348 PPLEVQARIVAVLDQFDTLVNDITAGLPAEIAARRQQYAYYRDRLLTFKEAV 399



 Score = 49.8 bits (117), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 22/193 (11%), Positives = 57/193 (29%), Gaps = 11/193 (5%)

Query: 27  VVPIKRFTKLNTGRTSESGKDIIY----IGLEDVESGTGKYLPKDGNSRQSDTSTV-SIF 81
            V +        G   +    I +    I    + +  G +  K  +  +SD +      
Sbjct: 204 WVTLGEIGSFIRGVGIQKSDFIEFGSGCIHYGQIHTHYGTWADKTKSFIRSDFAARLRKA 263

Query: 82  AKGQILYGKLGPYLRKA-----IIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
             G ++                 + D +   ST   + +   +  + +  +  +     +
Sbjct: 264 NTGDLVIATTSEDDDAVAKAVAWMGDEEVAVSTDAYIYR-HTINAKYVSYFFQTKFFHSQ 322

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
            +    G  +       +  I +P+PPL  Q  I   +      ++ +       I   +
Sbjct: 323 KKPHITGTKVRRISGDSLAKIRIPVPPLEVQARIVAVLDQFDTLVNDITAGLPAEIAARR 382

Query: 197 EKKQALVSYIVTK 209
           ++       ++T 
Sbjct: 383 QQYAYYRDRLLTF 395


>gi|167904492|ref|ZP_02491697.1| Restriction endonuclease S subunits [Burkholderia pseudomallei NCTC
           13177]
          Length = 329

 Score = 86.4 bits (212), Expect = 8e-15,   Method: Composition-based stats.
 Identities = 44/308 (14%), Positives = 104/308 (33%), Gaps = 29/308 (9%)

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLA-EQVLIREKIIAETVRIDTLITERIRFIELL 195
           +     G+TM H     +    + +P    EQ  + + +      I          I  L
Sbjct: 23  MNKRTHGSTMKHIKRGELREFFVSLPVDGGEQRKLAQILDTLDATIQE----TDAIIAKL 78

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEW--------VGLVPDHWEVKPFFALVTELNRK 247
           K  KQ L+  ++T G++ + +++    E         +G +P  W        +    + 
Sbjct: 79  KVVKQGLLHDLLTWGIDANGELRPPYSEAPHLYKWSALGWIPKDWTCSALQPWLDGKPKN 138

Query: 248 NTKLIE---SNILSLSYGNIIQKLETRNMGLKPESYETYQI----VDPGEIVFRFIDLQN 300
                E      + +     +     +   LKP   +  ++    +  G+++    + ++
Sbjct: 139 GYSPQEAGAWTGIQMLGLGCLTADGFQPAQLKPAPRDDRRLCSAFLSEGDLLMSRSNTRD 198

Query: 301 DKRSLRSAQVMERGIITSAYMAV--KPHGIDSTYLAWLMRSYDLCKVFYAMG---SGLRQ 355
                   + +         M          + +L +++RS  L +   A     SG   
Sbjct: 199 LVGLAGVYRDVGTPCTYPDLMMRLRPSPETSAEFLQFVLRSPQLRRQIQAQAVGTSGSMV 258

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            +  + V  L V +P   EQ  I + + +    +   +E     I  L++ ++  +   +
Sbjct: 259 KISGKIVSELVVAIPDRTEQEVILSRLLLADRCLTAEIEN----IAKLRQVKAGLMDDLL 314

Query: 416 TGQIDLRG 423
            G++ +  
Sbjct: 315 CGRVRVTP 322



 Score = 57.1 bits (136), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 11/85 (12%), Positives = 34/85 (40%), Gaps = 5/85 (5%)

Query: 333 LAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-PIKEQFDITNVINVETARIDV 391
           L + +    + ++         + +K  +++   V +P    EQ  +  +++     +D 
Sbjct: 11  LLFHLLLASVAEMNKRTHGSTMKHIKRGELREFFVSLPVDGGEQRKLAQILDT----LDA 66

Query: 392 LVEKIEQSIVLLKERRSSFIAAAVT 416
            +++ +  I  LK  +   +   +T
Sbjct: 67  TIQETDAIIAKLKVVKQGLLHDLLT 91


>gi|75909474|ref|YP_323770.1| restriction modification system DNA specificity subunit [Anabaena
           variabilis ATCC 29413]
 gi|75703199|gb|ABA22875.1| Restriction modification system DNA specificity domain protein
           [Anabaena variabilis ATCC 29413]
          Length = 557

 Score = 86.4 bits (212), Expect = 9e-15,   Method: Composition-based stats.
 Identities = 62/462 (13%), Positives = 133/462 (28%), Gaps = 95/462 (20%)

Query: 24  HWKVVPIKRFTKLNTGRT------SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
            W    +    +L +G+       ++ G+ + Y+       G   +   +  + +   + 
Sbjct: 85  GWVDTKLGYLIELVSGQHLGQEEQNDQGEGLPYLT------GPADFGEFNPVATRWTNTV 138

Query: 78  VSIFAKGQILYGKLGPYLRKAII-ADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
            ++  K  IL    G  + KA I +        Q + ++P  +L E    +LL I   ++
Sbjct: 139 KALAKKNDILITVKGAGVGKANILSMEKAAIGRQLMAIRP--ILLEYEFIYLLIISSYEK 196

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIA-------------------- 176
            +A+  G+T+     K I +  + +PPLAEQ  I EK                       
Sbjct: 197 FQALSIGSTVPGMGRKDILDFSLGLPPLAEQKRIVEKCDRLLSTCDEIEKRQQQKQESVV 256

Query: 177 -----------------ETVRIDTLITERIRFIELLKEK----KQALVSYIVTKGLN--- 212
                            E  +    I      +  + E     +QA++   V   L    
Sbjct: 257 RMNESAIAQLLSSQNPEEFRQHWQRICNNFDLLYSIPETIPKLRQAILQLAVQGKLTRQD 316

Query: 213 ----------------------------PDVKMKDSGIEWVGLVPDHWEVKPFFALVTEL 244
                                       P         E +  +P  W       +    
Sbjct: 317 PNNEPASVLFEKIKFERKRLLGETNFREPKELKPIRDNEILFELPKEWVWTRIGEIFLIS 376

Query: 245 NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET------YQIVDPGEIVFRFIDL 298
           +                   ++  +  N  +     +          +    +    + L
Sbjct: 377 SGTTPNRTNHKYFEDGTEYWVKTTDLNNETVLNCEEKITKQAVLDCNLKYYPVGTVCVAL 436

Query: 299 QNDKRSLRSAQV--MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS 356
                ++  + +  +E  I  S         +++ YL   ++      + +A       +
Sbjct: 437 YGGAGTIGKSGLLGIETTINQSVCGIYPNKYVNAKYLHLYIKLIRPLWMNFAASLRKAPN 496

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
           +    V  +   + P+ EQ  I    +   +  D L  K++Q
Sbjct: 497 INAGVVNNMVFPLAPLAEQKRIVEKCDRLMSLCDTLEAKLKQ 538



 Score = 63.3 bits (152), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 26/200 (13%), Positives = 67/200 (33%), Gaps = 6/200 (3%)

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
            Y++    N   +  +   ++       W       L+  ++ ++    E N        
Sbjct: 58  EYLLQNEKNKKNEFIEIKFDFNNKCLPGWVDTKLGYLIELVSGQHLGQEEQNDQGEGLPY 117

Query: 264 IIQ--KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
           +         N      +     +    +I+     ++       +   ME+  I    M
Sbjct: 118 LTGPADFGEFNPVATRWTNTVKALAKKNDILIT---VKGAGVGKANILSMEKAAIGRQLM 174

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
           A++P  ++  ++  L+ S        ++GS     +  +D+    + +PP+ EQ  I   
Sbjct: 175 AIRPILLEYEFIYLLIISSYEKFQALSIGS-TVPGMGRKDILDFSLGLPPLAEQKRIVEK 233

Query: 382 INVETARIDVLVEKIEQSIV 401
            +   +  D + ++ +Q   
Sbjct: 234 CDRLLSTCDEIEKRQQQKQE 253



 Score = 61.3 bits (147), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 23/172 (13%), Positives = 51/172 (29%), Gaps = 9/172 (5%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
            +PK W    I     +++G T               ++   D+ + T     +    + 
Sbjct: 359 ELPKEWVWTRIGEIFLISSGTTPNRTNHKYFEDGTEYWVKTTDLNNETVLNCEEKITKQA 418

Query: 73  SDTSTVSIFAKGQILYGKLG--PYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
                +  +  G +     G    + K+ +   +   +     + P   +        + 
Sbjct: 419 VLDCNLKYYPVGTVCVALYGGAGTIGKSGLLGIETTINQSVCGIYPNKYVNAKYLHLYIK 478

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
           +     +          + +   + N+  P+ PLAEQ  I EK        D
Sbjct: 479 LIRPLWMNFAASLRKAPNINAGVVNNMVFPLAPLAEQKRIVEKCDRLMSLCD 530


>gi|194451100|ref|YP_002048348.1| restriction modification system DNA specificity domain [Salmonella
           enterica subsp. enterica serovar Heidelberg str. SL476]
 gi|194409404|gb|ACF69623.1| restriction modification system DNA specificity domain [Salmonella
           enterica subsp. enterica serovar Heidelberg str. SL476]
          Length = 380

 Score = 86.4 bits (212), Expect = 9e-15,   Method: Composition-based stats.
 Identities = 52/381 (13%), Positives = 114/381 (29%), Gaps = 38/381 (9%)

Query: 26  KVVPIKRFTKLNTG-----RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           ++V + +   + +G             +  I + D+ SG      K     +       +
Sbjct: 5   QLVTLGKHIDILSGCAFPSSGFNRNNGVPLIRIRDILSG------KTETYYEGSYDLKYL 58

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
             KG +L G  G + R+      D + + +   + P     +    +        +I A 
Sbjct: 59  IKKGDLLVGMDGDFNRE-YWKGTDALLNQRVCKITPNPETLDKNFLYHFLQKELDKIHAT 117

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
            +  T+ H   K I +I + +P L EQ  I   +                          
Sbjct: 118 TDVVTVKHLSVKKIQDIKIRLPSLKEQKRIAAILDKADAIRQKREQA------------- 164

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
             +           ++M  +    +   P           V         +       L 
Sbjct: 165 --IKLADDFLRAKFLEMFGTPANNIHRFPKGTIRD-LVDSVNYGTSAKASIDSGEYPILR 221

Query: 261 YGNIIQKLETRNMGLKPES----YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
            GNI  +       LK        +   +V  G+++F   + +         +       
Sbjct: 222 MGNITYQGRWDFTDLKYLDLSVKEKDKYLVKEGDLLFNRTNSKELVGKTAVYEEDRPMAF 281

Query: 317 TSAYMAVKPHGI-DSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIK 373
               + V+P+ I ++ Y++  + S         M   +    ++  ++++ + +L+PP  
Sbjct: 282 AGYLIRVRPNSIGNNYYISGYLNSIHGKITLMNMCKSIVGMANINAQELQNIEILIPPKH 341

Query: 374 EQFD---ITNVINVETARIDV 391
            Q +   I   I    +  D 
Sbjct: 342 LQDEYEIIYKKIKKGLSIYDK 362



 Score = 63.3 bits (152), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 20/133 (15%), Positives = 49/133 (36%), Gaps = 10/133 (7%)

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG-ID 329
           +       SY+   ++  G+++       N     R        ++      + P+    
Sbjct: 44  KTETYYEGSYDLKYLIKKGDLLVGMDGDFN-----REYWKGTDALLNQRVCKITPNPETL 98

Query: 330 STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
                +     +L K+         + L  + ++ + + +P +KEQ  I  +++    + 
Sbjct: 99  DKNFLYHFLQKELDKIHATTDVVTVKHLSVKKIQDIKIRLPSLKEQKRIAAILD----KA 154

Query: 390 DVLVEKIEQSIVL 402
           D + +K EQ+I L
Sbjct: 155 DAIRQKREQAIKL 167


>gi|315169210|gb|EFU13227.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX1341]
          Length = 365

 Score = 86.4 bits (212), Expect = 9e-15,   Method: Composition-based stats.
 Identities = 56/354 (15%), Positives = 124/354 (35%), Gaps = 27/354 (7%)

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD---FDGICSTQFLVLQPKDVLPELLQ 125
           N   + +    +  K  + Y  + PY +   + D    + + ST +  ++P       L 
Sbjct: 25  NRDSAPSRAQRLAKKNDVFYQTVRPYQKNNYLFDLPYDNYVFSTGYAQMRPSG-NGYFLL 83

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
             +       R+     G +    +   +  + + +P   E+     K       +D L+
Sbjct: 84  TLVQEEKFVNRVLERSTGTSYPAINSNDLAKLSVRVPADIEEEQNIGK---FFSNLDNLV 140

Query: 186 TERIRFIELLKEKKQALVS-YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTEL 244
           T   R ++ LKE K A +    V+     +   K    ++ G     W+ +    L    
Sbjct: 141 TLHQRKLDQLKELKTAYLQVMFVSMKTKNNKVPKLRFADFGGE----WDQRKSKELFIPK 196

Query: 245 NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
           + KN   +    ++   G + +     ++     + + Y++V+  + V      Q     
Sbjct: 197 SEKNQPNLPVLSVTQDSGVVYRDQVGIDIKYDSTTLKNYKVVNKNDFVISLRSFQG---- 252

Query: 305 LRSAQVMERGIITSAYMAVKPHG---IDSTYLAWLMRSYDLCKVFYAMGSGLR--QSLKF 359
                  ++GI + AY    P      D+ +     +++   +    +  G+R  +S+ F
Sbjct: 253 -GFELSDKKGITSPAYTIFVPKDIKLHDNLFWKTQFKTFQFIEALKTVTFGIRDGKSISF 311

Query: 360 EDVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
            +   L +  P   KEQ  I          +D  +   +  +  LK  + S++ 
Sbjct: 312 TEFGDLKLCFPKNKKEQQKIGKF----FEELDYAISLHQNKLTQLKSLKKSYLQ 361



 Score = 50.6 bits (119), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 25/189 (13%), Positives = 51/189 (26%), Gaps = 12/189 (6%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLP----KDGNSRQSDTSTVS 79
            W     K           +S K+   + +  V   +G         D     +      
Sbjct: 183 EWDQRKSKELF------IPKSEKNQPNLPVLSVTQDSGVVYRDQVGIDIKYDSTTLKNYK 236

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV-LPELLQGWLLSIDVTQRIE 138
           +  K   +   L  +     ++D  GI S  + +  PKD+ L + L              
Sbjct: 237 VVNKNDFVIS-LRSFQGGFELSDKKGITSPAYTIFVPKDIKLHDNLFWKTQFKTFQFIEA 295

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
                  +                   +    ++KI      +D  I+     +  LK  
Sbjct: 296 LKTVTFGIRDGKSISFTEFGDLKLCFPKNKKEQQKIGKFFEELDYAISLHQNKLTQLKSL 355

Query: 199 KQALVSYIV 207
           K++ +  + 
Sbjct: 356 KKSYLQNMF 364


>gi|260171381|ref|ZP_05757793.1| putative type IC restriction-modification system specificity
           subunit, partial [Bacteroides sp. D2]
          Length = 404

 Score = 86.4 bits (212), Expect = 9e-15,   Method: Composition-based stats.
 Identities = 54/404 (13%), Positives = 128/404 (31%), Gaps = 41/404 (10%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGT-GKYLPKDGNSRQSDTSTV 78
            WK   + +  ++  G      +        I   ++ +    + + +  +  + D+S +
Sbjct: 25  EWKETTLGKIAEITKGSGISKDQLSEQGSPCILYGELYTKYKSEIINEVYSRTELDSSPL 84

Query: 79  SIFAKGQILYGKLGPYLRKA----IIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
                  ++    G           +   + +      +++ K         + L+    
Sbjct: 85  VKSKANDVIIPCSGETAIDISTARCVLFNNILLGGDLNIIRLK-YDDGGFFAYQLNGARK 143

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           + I  + +G ++ H   + +  I +  P + EQ     KI      ID  I  + + I+ 
Sbjct: 144 KDIARVAQGVSVVHLYGENLKQIRVYYPNIEEQ----RKITHLLSLIDGRIATQNKIIDK 199

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
           LK   + L+  I+T      V                          T            
Sbjct: 200 LKSLIKGLIDDIITLECGLLVTF-------------ETLYSKAGEGGTPTTSNMEFYDNG 246

Query: 255 NILSLSYGNIIQKLETRNMGLKPE---SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
           NI  +   ++  K    N     E      +  ++    I++            +     
Sbjct: 247 NIPFIKIEDLNNKYLLTNKDCITELGLKKSSAWLIPTNSIIYSNGATIGAISINKYPICT 306

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVP 370
           ++GI+      +    ID  YL + MRS    K    + + G  ++   +D+  +   +P
Sbjct: 307 KQGILG----IIPNSNIDVEYLYYFMRSSYFQKEVERIVTEGTMKTAYLKDINHIKCPIP 362

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQS-IVLLKERRSSFIAA 413
              +Q +I++ ++        L E IE   +   + ++   ++ 
Sbjct: 363 DSDKQKEISHALSTL-----SLKEDIENQLLKKYQIQKQYLLSQ 401



 Score = 67.5 bits (163), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 26/209 (12%), Positives = 57/209 (27%), Gaps = 9/209 (4%)

Query: 212 NPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETR 271
           +          E+ G       +     +         +L E     + YG +  K ++ 
Sbjct: 10  DKCNVPHLRFPEFSGE-WKETTLGKIAEITKGSGISKDQLSEQGSPCILYGELYTKYKSE 68

Query: 272 NMGLKPE----SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
            +                    +++           S     +    ++      ++   
Sbjct: 69  IINEVYSRTELDSSPLVKSKANDVIIPCSGETAIDISTARCVLFNNILLGGDLNIIRLKY 128

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
            D  + A+ +       +           L  E++K++ V  P I+EQ  I        +
Sbjct: 129 DDGGFFAYQLNGARKKDIARVAQGVSVVHLYGENLKQIRVYYPNIEEQRKI----THLLS 184

Query: 388 RIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
            ID  +    + I  LK      I   +T
Sbjct: 185 LIDGRIATQNKIIDKLKSLIKGLIDDIIT 213



 Score = 48.3 bits (113), Expect = 0.003,   Method: Composition-based stats.
 Identities = 31/164 (18%), Positives = 59/164 (35%), Gaps = 6/164 (3%)

Query: 45  GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFD 104
             +I +I +ED+ +                 S+  +     I+Y   G  +    I  + 
Sbjct: 245 NGNIPFIKIEDLNNKYLLTNKDCITELGLKKSSAWLIPTNSIIYSN-GATIGAISINKYP 303

Query: 105 GICSTQFLVLQPKDVLP-ELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPP 163
                  L + P   +  E L  ++ S    + +E I    TM  A  K I +I  PIP 
Sbjct: 304 ICTKQGILGIIPNSNIDVEYLYYFMRSSYFQKEVERIVTEGTMKTAYLKDINHIKCPIPD 363

Query: 164 LAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
             +Q    ++I      +        + ++  + +KQ L+S + 
Sbjct: 364 SDKQ----KEISHALSTLSLKEDIENQLLKKYQIQKQYLLSQMF 403


>gi|163814567|ref|ZP_02205956.1| hypothetical protein COPEUT_00718 [Coprococcus eutactus ATCC 27759]
 gi|158450202|gb|EDP27197.1| hypothetical protein COPEUT_00718 [Coprococcus eutactus ATCC 27759]
          Length = 407

 Score = 86.4 bits (212), Expect = 9e-15,   Method: Composition-based stats.
 Identities = 56/425 (13%), Positives = 122/425 (28%), Gaps = 49/425 (11%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGKD------IIYIGLEDVESGTGKYLPKDGNSR 71
           IG IP  W++       ++ +  T            +  I   D+ +   + L  +    
Sbjct: 10  IGDIPVDWELQTFDETFRVISNNTLSRENLNNRGGAVRNIHYGDILTKFPEVLDCNEEEI 69

Query: 72  QSDTSTVSIFA------KGQILYG------KLGPYLRKAIIADFDGICSTQFLVLQPKDV 119
                   + +       G I+         +G  +    + D   +     +  + K  
Sbjct: 70  PYVNELSLLSSSTQLLQDGDIVVADTAEDETVGKVIEVQNLGDSKLVAGLHTIPCRVKKG 129

Query: 120 L--PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
              P  L  ++ S     +I     G  +S      I    + +PP  EQ  I + +   
Sbjct: 130 DFAPGWLGYYMNSDLFHNQILPYITGIKVSSISKGAISETLILVPPFDEQEKIVQSLN-- 187

Query: 178 TVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPF 237
             +I  L+T   + +  +K  K   +S +  +  +   +M+  G        + WE +  
Sbjct: 188 --KIQLLMTSETKVVNKIKLVKNGCLSKMFPQKDDTVPEMRLPG------FTEAWEQRKL 239

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID 297
               TE+           + +  Y      L    +    +    Y  V    +      
Sbjct: 240 GDEATEMLAGGDIDKSRVVENGQYPIYANALTNDGIVGYYDD---YYRVKAPAVTVTGRG 296

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSL 357
                     A++ +   +         H +             + K    + S     L
Sbjct: 297 DVGH----AQARIDDFTPVVRLLAIRSEHDV-------YFLENAINKHVVIVESTGVPQL 345

Query: 358 KFEDVKRLPVLVPPI-KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
               +    +  P   +E+  I +        +D L+   +         +   ++  +T
Sbjct: 346 TVPQLGNYIISFPTTTEEEIKIGSY----FHNLDHLISLHQCKCDKYSNIKKGMMSDLLT 401

Query: 417 GQIDL 421
           G+I L
Sbjct: 402 GKIRL 406


>gi|119356723|ref|YP_911367.1| N-6 DNA methylase [Chlorobium phaeobacteroides DSM 266]
 gi|119354072|gb|ABL64943.1| N-6 DNA methylase [Chlorobium phaeobacteroides DSM 266]
          Length = 834

 Score = 86.4 bits (212), Expect = 9e-15,   Method: Composition-based stats.
 Identities = 50/386 (12%), Positives = 108/386 (27%), Gaps = 45/386 (11%)

Query: 32  RFTKLNTGRTSESGKD------IIYIGLEDVESGT----GKYLPKDGNSRQSDTSTVSIF 81
              ++ +G T +S  +        +  L D+ S       +   +  + R    S+  + 
Sbjct: 465 ELFRVESGGTPKSDVEELWNGGFPWATLADLPSTDFITEIRSTRRTISERGLRESSAKMI 524

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            +  ++        R AI             V+             L    +   + A  
Sbjct: 525 PENSVIVSTRATIGRIAINRIPMATNQGFKNVIIEDKSKVISEYVALALTKLVPTMNAWA 584

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            G T           + +P+PPL  Q  I  KI      ID        +   +      
Sbjct: 585 TGGTFKEIPKSRFCELEIPLPPLEVQKKIVAKIEGYQKVIDGARAVLDNYRPHIPINPDW 644

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
            +  +                           V       +   + + K     +  L  
Sbjct: 645 PIVKL-------------------------ETVSTIVRGSSPRPQGDPKYFGGPVPRLMV 679

Query: 262 GNIIQKLETR---NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
            +I +           L        + +  GE++            L     +  G +  
Sbjct: 680 ADITRDGMYTTPLIDSLTELGAGKSRFMKSGEVIITVSGNPGLPTILAVDACIHDGFVG- 738

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
             +    + +   YL + + +        ++G  + ++L  + ++   + +PP+  Q  I
Sbjct: 739 --LRELSNDVVPEYLYFSLLALHSQHGSQSVG-AVFKNLTSDQIREFTISLPPLATQQAI 795

Query: 379 TNVINVETARID---VLVEKIEQSIV 401
              I  E A ++    L+E+ E  I 
Sbjct: 796 VAEIEAEQALVNANSELIERFENKIQ 821



 Score = 46.7 bits (109), Expect = 0.007,   Method: Composition-based stats.
 Identities = 34/194 (17%), Positives = 64/194 (32%), Gaps = 14/194 (7%)

Query: 21  IP--KHWKVVPIKRFTKLNTGRTSESGKDIIYIG-------LEDVESGTGKYLPKDGNSR 71
           IP    W +V ++  + +  G +     D  Y G       + D+        P   +  
Sbjct: 638 IPINPDWPIVKLETVSTIVRGSSPRPQGDPKYFGGPVPRLMVADITRDGMYTTPLIDSLT 697

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
           +           G+++    G      I+A  D      F+ L+           +   +
Sbjct: 698 ELGAGKSRFMKSGEVIITVSGNPGLPTILA-VDACIHDGFVGLRELSNDVVPEYLYFSLL 756

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            +  +  +   GA   +     I    + +PPLA Q  I  +I AE   ++         
Sbjct: 757 ALHSQHGSQSVGAVFKNLTSDQIREFTISLPPLATQQAIVAEIEAEQALVNA----NSEL 812

Query: 192 IELLKEKKQALVSY 205
           IE  + K QA ++ 
Sbjct: 813 IERFENKIQATITR 826


>gi|110003976|emb|CAK98316.1| putative hsds protein typeIrestriction enzyme [Spiroplasma citri]
          Length = 404

 Score = 86.4 bits (212), Expect = 9e-15,   Method: Composition-based stats.
 Identities = 59/382 (15%), Positives = 115/382 (30%), Gaps = 26/382 (6%)

Query: 37  NTGRTSESGK------DIIYIGLEDVES--GTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
            +G T  +        +I ++ ++DV +         K    +    S+  +  K  ++Y
Sbjct: 31  KSGGTPSTKNKDFYNGEISFLSIKDVTNQGKYIFQTEKTITKKGLKNSSAWLVPKNSLIY 90

Query: 89  GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSH 148
                     I           F +             +LL     + +       T  +
Sbjct: 91  SIYASVGFPTINKIPLATSQAFFSMEINNLYFSTEYLYYLLLKFKKKELNKFIIKQTQPN 150

Query: 149 ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV- 207
              K I      IP L EQ  I          ID  I      + LL+++KQ  ++ +  
Sbjct: 151 LSKKIINQFIFKIPSLQEQTKIVNF----FSIIDRKIELIKEQLSLLEKQKQYYLNNMFA 206

Query: 208 TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK 267
            +   P ++ K    EW                 +  N KN       I         + 
Sbjct: 207 NEKSYPKIRFKGFNDEWKSKKIKELGNIKTGKTPSTKNEKNWLNDVLWITIPDM--TKKY 264

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
           L      +   + +   IV    I+F  I    +     +     + I +          
Sbjct: 265 LTNSKKKISLMASKKNPIVKEKSILFSCIGTIGNIGITTTITSFNQQINS------ISSI 318

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-PIKEQFDITNVINVET 386
            D     + +  Y+  K+     +     +     + + + V    KEQ  I N      
Sbjct: 319 KDGVEYVYYLFQYNTEKIKSYSSAQTLPMINKNYFENIEIFVSLNYKEQTKIANF----F 374

Query: 387 ARIDVLVEKIEQSIVLLKERRS 408
           + ID  +E I++ + LL++++ 
Sbjct: 375 SIIDRKIELIKEQLSLLEKQKQ 396



 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 34/190 (17%), Positives = 68/190 (35%), Gaps = 14/190 (7%)

Query: 24  HWKVVPIKRFTKLNTGRTSESG------KDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
            WK   IK    + TG+T  +        D+++I + D+         K  +   S  + 
Sbjct: 222 EWKSKKIKELGNIKTGKTPSTKNEKNWLNDVLWITIPDMTKKYLTNSKKKISLMASKKNP 281

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
             I  +  IL+  +G      I      I S    +     +   +   + L    T++I
Sbjct: 282 --IVKEKSILFSCIGTIGNIGITTT---ITSFNQQINSISSIKDGVEYVYYLFQYNTEKI 336

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           ++     T+   +     NI + +    ++     KI      ID  I      + LL++
Sbjct: 337 KSYSSAQTLPMINKNYFENIEIFVSLNYKEQ---TKIANFFSIIDRKIELIKEQLSLLEK 393

Query: 198 KKQALVSYIV 207
           +KQ  ++ + 
Sbjct: 394 QKQYYLNNMF 403


>gi|34764188|ref|ZP_00145050.1| TYPE I RESTRICTION-MODIFICATION SYSTEM SPECIFICITY SUBUNIT
           [Fusobacterium nucleatum subsp. vincentii ATCC 49256]
 gi|27886036|gb|EAA23350.1| TYPE I RESTRICTION-MODIFICATION SYSTEM SPECIFICITY SUBUNIT
           [Fusobacterium nucleatum subsp. vincentii ATCC 49256]
          Length = 156

 Score = 86.4 bits (212), Expect = 9e-15,   Method: Composition-based stats.
 Identities = 22/134 (16%), Positives = 56/134 (41%), Gaps = 1/134 (0%)

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
           E     +K    E  + V+ G+I+F       +        + E+ I+T  + A+  H  
Sbjct: 4   EKTISFVKESLAEKLRKVEKGDIIFAVTSENIEDLCKCVVWLGEKEIVTGGHTAILKHNQ 63

Query: 329 DSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           +S +LA+  ++         + +G     +    ++ + + +P ++EQ  I ++++    
Sbjct: 64  NSKFLAYYFQTEAFHSQKRKLATGTKVMDITATKLEEILIPLPSLEEQQRIVDILDRFDK 123

Query: 388 RIDVLVEKIEQSIV 401
             + ++E +   I 
Sbjct: 124 LCNDILEGLPAEIE 137



 Score = 42.5 bits (98), Expect = 0.12,   Method: Composition-based stats.
 Identities = 13/112 (11%), Positives = 33/112 (29%), Gaps = 4/112 (3%)

Query: 76  STVSIFAKGQILYGKLGPY----LRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
             +    KG I++           +  +      I +     +   +   + L  +  + 
Sbjct: 16  EKLRKVEKGDIIFAVTSENIEDLCKCVVWLGEKEIVTGGHTAILKHNQNSKFLAYYFQTE 75

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
               +   +  G  +       +  I +P+P L EQ  I + +       + 
Sbjct: 76  AFHSQKRKLATGTKVMDITATKLEEILIPLPSLEEQQRIVDILDRFDKLCND 127


>gi|237751051|ref|ZP_04581531.1| restriction endonuclease S [Helicobacter bilis ATCC 43879]
 gi|229373496|gb|EEO23887.1| restriction endonuclease S [Helicobacter bilis ATCC 43879]
          Length = 401

 Score = 86.4 bits (212), Expect = 9e-15,   Method: Composition-based stats.
 Identities = 60/405 (14%), Positives = 137/405 (33%), Gaps = 36/405 (8%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + W+ V +    ++N   T         + ++++E     Y  K  +      +  + F 
Sbjct: 20  EQWQEVRLGEVAEINPKETLRKHYLYKKVAMDNLE----PYTKKVYSFGIESFNGGAKFR 75

Query: 83  KGQILYGKLGPYLRK-------AIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
            G  L  ++ P L          +  D     ST+F+VL+ K  + +    + L+     
Sbjct: 76  NGDTLLARITPCLENGKTAFVDFLQDDEIAFGSTEFIVLREKTTISDKDFLYYLARSKHF 135

Query: 136 R---IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           R   I+++   +       + + +    +PPL  Q  I E + +   +ID          
Sbjct: 136 REVAIKSMTGSSGRERVQIEVLRDFTFLLPPLTIQQKIAEILSSFDDKID---------- 185

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
            LL  + + L S  +T   +  +         +G + D+ ++              T   
Sbjct: 186 -LLHRQNKTLESLALTLFRHYFIDNPKRDEWELGKLGDYVKIIDNRGKTPPFTTDITPYP 244

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQI--VDPGEIVFRFIDLQNDKRSLRSAQV 310
              + +LS  +++   +     +  E+Y+ +    +   +I+F  +    +   L    +
Sbjct: 245 LIEVNALSDDSMLINYDIVRKYVIKETYQKWFREHIKQYDILFSTVGSIGEVAML----L 300

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP 370
             +G I    +  +   I   YL   ++ Y   ++       ++ S+K        +  P
Sbjct: 301 DNKGCIAQNVIGFRARDISPFYLYEWLK-YMQQEIKEFDIGSVQPSIKVTHFVEKQIYKP 359

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
                  I    + +   I   +    + I  L+  R   + A  
Sbjct: 360 D----SKILESFDKQMLLITDKISHNAKQIQNLQAMRDILLKAIF 400


>gi|262198181|ref|YP_003269390.1| Restriction endonuclease S subunits-like protein [Haliangium
           ochraceum DSM 14365]
 gi|262081528|gb|ACY17497.1| Restriction endonuclease S subunits-like protein [Haliangium
           ochraceum DSM 14365]
          Length = 465

 Score = 86.4 bits (212), Expect = 9e-15,   Method: Composition-based stats.
 Identities = 58/410 (14%), Positives = 120/410 (29%), Gaps = 52/410 (12%)

Query: 16  QWIGA----IPKHWKVVPIKRFTKLNTGR---------TSESGKDIIYIGLEDVESGTGK 62
            W G     +P+ W+   +       TG+                  ++ + D+    G+
Sbjct: 27  PWSGKPGAALPEGWRWSSLGALA---TGKARYGVNLPARPYDAGLPRFVRITDI-GDDGR 82

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRK-AIIADFDGICSTQFLVLQ----PK 117
                  S     +       G +   + G  + K  +    DG+C     +L     P 
Sbjct: 83  LRDDAPVSLSDPGAADYRLKPGDLAVARSGATVGKSYLYRPEDGVCVPAGYLLCVPLAPS 142

Query: 118 DVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
              P  +  W  S      + +    A   + +   +  +P+P+PPL EQ  +   +   
Sbjct: 143 RCEPAFVAQWAQSRGYRAWLRSAVRTAAQPNVNASELATLPVPVPPLEEQREVARVLALG 202

Query: 178 TVRIDTLITERIRFIELLKEKKQALVSYIVTKG---LNPDVKMKDSGIEWVGLVPDHWEV 234
              +        +   +L    + L+S  + +     +P    +      +GL+P  W V
Sbjct: 203 DALLAHSGRIIDKLGLVLAALVRDLLSRGIGEDGRIRDPARHPELFRETPLGLLPRAWSV 262

Query: 235 KP----FFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYE--------- 281
                   AL   +              ++ G  +  ++  +       Y          
Sbjct: 263 SEAGELLAALKPAMRSGPFGSELRKSDLVAEGVPLLGIDNVDTDAFVPRYRRFVPPHLFQ 322

Query: 282 --TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
                 V PG+++   +      RS      +   + +           D      L+ S
Sbjct: 323 ALGRYAVRPGDVMVTVMGTVG--RSCVVPDDIGDALSSKHV---WTLSFDPERYLPLLAS 377

Query: 340 YDLC-------KVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
                       +      G   S++   ++   + VPP+ EQ  I  V+
Sbjct: 378 LQFNYAPWVHAHLTREAQGGTIASIRSSTLRSTLLPVPPLAEQRAIAEVL 427



 Score = 59.4 bits (142), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 24/147 (16%), Positives = 56/147 (38%), Gaps = 16/147 (10%)

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP---HGIDSTYLAWLMRSY 340
             + PG++          K  L   +  +   + + Y+   P      +  ++A   +S 
Sbjct: 99  YRLKPGDLAVARSGATVGKSYLYRPE--DGVCVPAGYLLCVPLAPSRCEPAFVAQWAQSR 156

Query: 341 DLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
                  +   +  + ++   ++  LPV VPP++EQ ++  V+    A  D L+    + 
Sbjct: 157 GYRAWLRSAVRTAAQPNVNASELATLPVPVPPLEEQREVARVL----ALGDALLAHSGRI 212

Query: 400 IVLLKERRSSFIAAAVT------GQID 420
           I  L    ++ +   ++      G+I 
Sbjct: 213 IDKLGLVLAALVRDLLSRGIGEDGRIR 239


>gi|257058613|ref|YP_003136501.1| restriction modification system DNA specificity domain protein
           [Cyanothece sp. PCC 8802]
 gi|256588779|gb|ACU99665.1| restriction modification system DNA specificity domain protein
           [Cyanothece sp. PCC 8802]
          Length = 400

 Score = 86.0 bits (211), Expect = 9e-15,   Method: Composition-based stats.
 Identities = 55/432 (12%), Positives = 132/432 (30%), Gaps = 55/432 (12%)

Query: 6   AYPQYKDSGVQWIGAIP--KHWKVV----PIKRFTKLNTGRTSESGKDIIYIGLEDVESG 59
            YPQ   + V W    P  ++W+       +     +      +  K    + +E+V+  
Sbjct: 2   KYPQLDLTKVFWFQEGPGVRNWQFTESGIKLLNVANITNYGNIDLTKTDRCLSIEEVDQK 61

Query: 60  TGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLG----------PYLRKAIIADFDGICST 109
                               +  +G ++    G                         +T
Sbjct: 62  Y----------------KHFLVDEGDLVIASSGISFDTDGFLRTRGAFIQKKHLPLCMNT 105

Query: 110 QFLVLQPKDVLPELLQ--GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQ 167
             +  + KD   +LL    WL S +  ++I  +  G+   +     +  + + +PPL EQ
Sbjct: 106 STIRFKAKDETSDLLFLKYWLDSFEFREQITRLVTGSAQQNFGPSHLKQLKISLPPLEEQ 165

Query: 168 VLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGL 227
             I + +         +   R   +EL     Q++   +     +P        +  +  
Sbjct: 166 KRIAKILTKADK----IRRTRRYALELSDTYLQSVFLEMFG---DPVTNSMGWDVVTISD 218

Query: 228 VPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVD 287
           +            +          ++     +  G I  K                  ++
Sbjct: 219 ISQKVTDGTHQPPLFTSTGIPFIFVQH----IVSGKISFKKTNYVSEKTYNELTRNTKIE 274

Query: 288 PGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG--IDSTYLAWLMRSYDLCKV 345
             +I++  +        +      ++ +       +KP+   I+ST+L   M +  +   
Sbjct: 275 LHDILYSSVGSFGVAVEI---LTKDKFVFQRHIAHIKPNHKKINSTFLCSQMNTDFVYNQ 331

Query: 346 FYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLK 404
                 G  + ++   D+K L ++ PP++ Q     ++  +  RI    ++ ++    L 
Sbjct: 332 AKKASRGVAQATINLSDIKELKIIYPPLELQEKFAKIV-QKYERIRKQQQEAQRQADHL- 389

Query: 405 ERRSSFIAAAVT 416
               S +    +
Sbjct: 390 --FQSLLHQFFS 399


>gi|194397224|ref|YP_002037524.1| type I restriction-modification system subunit S [Streptococcus
           pneumoniae G54]
 gi|194356891|gb|ACF55339.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae G54]
          Length = 373

 Score = 86.0 bits (211), Expect = 9e-15,   Method: Composition-based stats.
 Identities = 52/400 (13%), Positives = 124/400 (31%), Gaps = 39/400 (9%)

Query: 26  KVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           K V +    ++ +G   +S +       +  I + DVE G            +       
Sbjct: 2   KKVKLGEVCEILSGYAFKSSQFNDNKIGLPLIRIRDVERGFSD------TYFEGTYPEEY 55

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           +   G +L    G ++ K        + + +   ++  D   +      L     + IE 
Sbjct: 56  LIKNGDLLITMDGSFILK-KWEGDLALLNQRVCKIKITDKSVDEGYISWLIPKFLKEIED 114

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
                T+ H     I +I   +P   EQ LI +K+      I  +   R    E   E  
Sbjct: 115 KTPFVTVKHLSVAKIKDISFVLPNKLEQKLIAKKLN----TISQIYDFRKIQSEKFNELV 170

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
           ++  + +              G   +    D+              + +    E   L L
Sbjct: 171 KSRFNEMF-------------GENKIFESIDNLFDXIDGDRGKNYPKSDELFSEEYCLFL 217

Query: 260 SYGNIIQKLETRN----MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
           +  N+ +   + +    +    +       ++  +IV        +          +   
Sbjct: 218 NTKNVTKNGFSFDTKQFITKTKDKLLRKGKLERYDIVLTTRGTVGNVAYYDELIKYKHLR 277

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
           I S  + ++P   +     +++           +    +  L    +K++ + +PP+  Q
Sbjct: 278 INSGMVILRPKTPNLNQ-KFIIHVLRNNNYSRVISGSAQPQLPITKLKKILLPLPPLALQ 336

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            +  + +     ++D     I++S+  L+  + S +    
Sbjct: 337 NEFADFVV----QVDKSQLAIQKSLEELETLKKSLMQEYF 372


>gi|148263100|ref|YP_001229806.1| restriction modification system DNA specificity subunit [Geobacter
           uraniireducens Rf4]
 gi|146396600|gb|ABQ25233.1| restriction modification system DNA specificity domain [Geobacter
           uraniireducens Rf4]
          Length = 420

 Score = 86.0 bits (211), Expect = 9e-15,   Method: Composition-based stats.
 Identities = 56/416 (13%), Positives = 122/416 (29%), Gaps = 47/416 (11%)

Query: 25  WKVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           W +V I RF +  +G T            +I ++   ++         +         S+
Sbjct: 3   WPMVEISRFCQTGSGGTPSRNNAGDYYGGNIPWVKSGELNQEFVLNTEERITELAIKESS 62

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
             I   G IL    G  + K+ +   D   +     + P     +    W    +    +
Sbjct: 63  AKIVPAGAILVAMYGATVGKSALLGIDAATNQAICNIIPDPEAADTRYVWYALKNQLPYL 122

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
            A   G    +   + I N  +P+P L+EQ  I E +             R    +  + 
Sbjct: 123 LAQRVGGAQPNISQQIIKNTQIPLPLLSEQRRIVEILDQADHL----RKLRGEADKKAEL 178

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
              AL + +                      P  W   P   ++ ++    + + E+   
Sbjct: 179 ILPALFNKMFGGPAT---------------NPMGWPEMPLRQVIAKVEAGWSAVSEARGC 223

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIV---------DPGEIVFRFIDLQNDKRSLRSA 308
           +     +++     +       ++   ++           G+++F   + +    +    
Sbjct: 224 TKDEFGVLKVSAVTSGRFLACEHKAVLVLQTDRGLLTPRRGDLLFSRANTRELVAASCVV 283

Query: 309 QVMERGIITSAYMAV---KPHGIDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDV 362
           +     +     +      P    + YL  L  +      F A  SG      ++  E +
Sbjct: 284 EDDHPNLFLPDKLWRLILHPDRATAMYLKELFWNNGFRDRFRASASGSSGSMLNISQEAM 343

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI-VLLKERRSSFIAAAVTG 417
                 +PP K Q + +             + K  +     L    S+ +  A +G
Sbjct: 344 LNTIAPIPPFKLQEEYSAKAWSL-----AAIAKERRLAGDALDTLWSNLLQRAFSG 394


>gi|325108023|ref|YP_004269091.1| restriction modification system DNA specificity domain protein
           [Planctomyces brasiliensis DSM 5305]
 gi|324968291|gb|ADY59069.1| restriction modification system DNA specificity domain protein
           [Planctomyces brasiliensis DSM 5305]
          Length = 621

 Score = 86.0 bits (211), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 58/413 (14%), Positives = 122/413 (29%), Gaps = 29/413 (7%)

Query: 23  KHWKVVPIKRFTK-LNTGRT---SESGKDIIYIGLEDV-ESGTGKYLPKDGNSRQSDTST 77
           + W+ V +K     L  G       S    +++G++++ + G          S       
Sbjct: 5   EKWRCVSMKELYHGLYDGPHATPKPSDSGPVFLGIKNITDDGHLDLGSIRHISESDYAKW 64

Query: 78  VSIFAK--GQILYGKLGPYLRKAIIADFDGICST---QFLVLQPKDVLPELLQGWLLSID 132
                     I++       R AII      C       +    + V P+ L  +     
Sbjct: 65  TRRVEPQENDIVFTYEATLNRYAIIPKGFRGCLGRRLALIRPNTEMVDPKFLFLYFFGHT 124

Query: 133 VTQ-RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
                      G+T++        +  + +PPL  Q  I   + A    I+         
Sbjct: 125 WRDLIATKTIIGSTVNRIPLLEFPDFEITLPPLPTQRKIASILSAYDDLIENNTRRIAIL 184

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEV---KPFFALVTELNRKN 248
                +  QAL          P  +        +G +P+ WEV   +    LV   + K+
Sbjct: 185 E----QMAQALYREWFVHFRFPGHENVKLVDSPLGQIPEGWEVEELQSLCKLVMGQSPKS 240

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
               E       +  +    +         + +   +    +I+F               
Sbjct: 241 EFYNEVGDGLPFHQGVTNFGDRYPTHKTFCTVKNR-LAHENDILFSVRAPVGRINIANCE 299

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVL 368
            V+ RG+             D+    +        +     G  + +S+   D+  L +L
Sbjct: 300 IVVGRGVSA------IRRFDDAQIFLFHQLKELFSEEDIMGGGTIFKSVTKHDLTTLKLL 353

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            P       +  +   +      L E + +   +L+  R   +   ++G++D+
Sbjct: 354 SPSP----KMVELFEQQVQPAFALYENLTKRNEVLRTTRDLLLPKLISGKLDV 402



 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 24/187 (12%), Positives = 56/187 (29%), Gaps = 3/187 (1%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +G IP+ W+V  ++   KL  G++ +S              G   +  +    +   T  
Sbjct: 214 LGQIPEGWEVEELQSLCKLVMGQSPKSEFYNEVGDGLPFHQGVTNFGDRYPTHKTFCTVK 273

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
             +  +  IL+    P  R   IA+ + +      V   +      +  +    ++    
Sbjct: 274 NRLAHENDILFSVRAPVGR-INIANCEIVVGRG--VSAIRRFDDAQIFLFHQLKELFSEE 330

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           + +  G          +  + +  P      L  +++       + L             
Sbjct: 331 DIMGGGTIFKSVTKHDLTTLKLLSPSPKMVELFEQQVQPAFALYENLTKRNEVLRTTRDL 390

Query: 198 KKQALVS 204
               L+S
Sbjct: 391 LLPKLIS 397


>gi|303253789|ref|ZP_07339924.1| Putative restriction-modification enzyme [Actinobacillus
           pleuropneumoniae serovar 2 str. 4226]
 gi|302647373|gb|EFL77594.1| Putative restriction-modification enzyme [Actinobacillus
           pleuropneumoniae serovar 2 str. 4226]
          Length = 203

 Score = 86.0 bits (211), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 33/171 (19%), Positives = 60/171 (35%), Gaps = 8/171 (4%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPKDGNSRQ 72
            IP++W  V +        G T    +        I ++   D+  G    +P+      
Sbjct: 30  EIPENWCWVRLGEIGNWGAGATPNRHEPKYYENGTIPWLKTGDLNDGIITEIPEYITELA 89

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
            + ++V +   G +L    G  + K  I + +   +       P   +      + L   
Sbjct: 90  IEKTSVKLNPVGSVLIAMYGATIGKLGILNIEATTNQACCACIPYTGIYNKYLFYYLMSQ 149

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
            T+  +   EG+   +   + I N   P+PPL EQ  I EKI      +  
Sbjct: 150 KTELQKRS-EGSGQPNISKEKIVNYLFPLPPLNEQKCIVEKIETLFSTLQN 199



 Score = 79.5 bits (194), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 27/181 (14%), Positives = 53/181 (29%), Gaps = 7/181 (3%)

Query: 218 KDSGIEWVGLVPDHWEVKPFFALVTE------LNRKNTKLIESNILSLSYGNIIQKLETR 271
           +    E    +P++W       +            +        I  L  G++   + T 
Sbjct: 21  RCIADEVPFEIPENWCWVRLGEIGNWGAGATPNRHEPKYYENGTIPWLKTGDLNDGIITE 80

Query: 272 NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST 331
                 E       V    +    I +            +E     +    +   GI + 
Sbjct: 81  IPEYITELAIEKTSVKLNPVGSVLIAMYGATIGKLGILNIEATTNQACCACIPYTGIYNK 140

Query: 332 YLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
           YL + + S        + GSG + ++  E +      +PP+ EQ  I   I    + +  
Sbjct: 141 YLFYYLMSQKTELQKRSEGSG-QPNISKEKIVNYLFPLPPLNEQKCIVEKIETLFSTLQN 199

Query: 392 L 392
           L
Sbjct: 200 L 200


>gi|302336437|ref|YP_003801644.1| restriction modification system DNA specificity domain protein
           [Olsenella uli DSM 7084]
 gi|301320277|gb|ADK68764.1| restriction modification system DNA specificity domain protein
           [Olsenella uli DSM 7084]
          Length = 525

 Score = 86.0 bits (211), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 55/427 (12%), Positives = 120/427 (28%), Gaps = 70/427 (16%)

Query: 20  AIPKHWKVVPIKRFT-KLNTGRTSES---GKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            +P  W+   +      +  G           I ++ + +V SG   +            
Sbjct: 88  DLPDGWEWARLGSIVLSVADGDHQPPPQVSSGIPFLVISNVSSGYLNFEDTRFVPESYYE 147

Query: 76  S--TVSIFAKGQILYGKLGPYLRKA-IIADFDGICSTQFLVLQPKDVLPELLQGWLLSI- 131
           S        +G +LY   G Y     ++ D          +++P  +L      + L   
Sbjct: 148 SLGEYRRPMRGDVLYTVTGSYGIVIRVLDDRRFCVQRHIGIIRPNKLLGNHYLSYCLQSG 207

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            +    +++  G        + I +  +P+PPLAEQ  I   +      +D +   +   
Sbjct: 208 WIRSCADSVATGIAQKTVGLQSIRSFLVPVPPLAEQRRIVVALDELLGLVDEVERSQAEL 267

Query: 192 IELLKEKKQALVSYIVTKGLNPDVK------------------------MKDSGIEW--- 224
             LL   +  ++   +   L P                           ++   +E    
Sbjct: 268 EGLLDRARAKVLDLAIRGRLVPQDPSDEPAEALLARVREERLLMAADGRLRRRDVEGDSV 327

Query: 225 VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ 284
           +    D+   + F              I        +G I     + ++  +    E + 
Sbjct: 328 IFRGEDNSYYERFGDNRVIPIEGEVFAIPRTWAWSRFGAISNYGSSESVNPEKIDDEAWV 387

Query: 285 I-----------------------------VDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
           +                                G++++  +    +K  +      E G 
Sbjct: 388 LDLEDIEKGSGRILRRVCGGERRSSSVKRPFCAGQLLYSKLRPYLNKVLIAP----EPGY 443

Query: 316 ITSAYM-AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIK 373
            TS  +       +  +Y+  ++ S            G+    L   D +   + +PP  
Sbjct: 444 CTSEIIPIELYGTVAPSYIRLVLMSDYFLSYANRCSYGVKMPRLGTRDGQGALLPIPPSH 503

Query: 374 EQFDITN 380
           EQ  I +
Sbjct: 504 EQERIAS 510



 Score = 71.0 bits (172), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 37/228 (16%), Positives = 85/228 (37%), Gaps = 30/228 (13%)

Query: 223 EWVGLVPDHWEVKPFFALV---TELNRKNTKLIESNILSLSYGNIIQKLETRNMGL---- 275
           E    +PD WE     ++V    + + +    + S I  L   N+               
Sbjct: 84  ELPFDLPDGWEWARLGSIVLSVADGDHQPPPQVSSGIPFLVISNVSSGYLNFEDTRFVPE 143

Query: 276 -KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID-STYL 333
              ES   Y+    G++++           +       R  +      ++P+ +  + YL
Sbjct: 144 SYYESLGEYRRPMRGDVLYTVTGSYG---IVIRVLDDRRFCVQRHIGIIRPNKLLGNHYL 200

Query: 334 AWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
           ++ ++S  +     ++ +G  ++++  + ++   V VPP+ EQ  I   ++     +D  
Sbjct: 201 SYCLQSGWIRSCADSVATGIAQKTVGLQSIRSFLVPVPPLAEQRRIVVALDELLGLVDE- 259

Query: 393 VEKIEQSIV-LLKERRSSFIAAAVTGQI---------------DLRGE 424
           VE+ +  +  LL   R+  +  A+ G++                +R E
Sbjct: 260 VERSQAELEGLLDRARAKVLDLAIRGRLVPQDPSDEPAEALLARVREE 307


>gi|219669967|ref|YP_002460402.1| restriction modification system DNA specificity domain protein
           [Desulfitobacterium hafniense DCB-2]
 gi|219540227|gb|ACL21966.1| restriction modification system DNA specificity domain protein
           [Desulfitobacterium hafniense DCB-2]
          Length = 413

 Score = 86.0 bits (211), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 52/399 (13%), Positives = 116/399 (29%), Gaps = 20/399 (5%)

Query: 25  WKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           W+   +    K   G T           DI+++  ++++             +    +  
Sbjct: 20  WEQRELGEDIKFVGGATPFKENPEYWNGDIVWLSSQEIKERFVTSGTYKITKKAVKDNAT 79

Query: 79  SIFAKGQ-ILYGKLG--PYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
            +   G  ++  + G         I   D   +     L   D                 
Sbjct: 80  KVIKAGTPLIVTRSGILAKRFPISIPTVDVAINQDIKALLYDDERIATDFLIAGLQKNEG 139

Query: 136 RIEAIC--EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            I       G T+   +        M  P L EQ  I          +D  IT   R ++
Sbjct: 140 FILKHIVKTGTTVQSINLPDFQKFLMAYPMLPEQTAIGNF----FRTLDDTITLHKRKLD 195

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
            LKE K+A +  +  +  N   K++ +G           EV       +    ++ K  +
Sbjct: 196 KLKELKKAYLQRMFPQAGNDVPKVRFAGFTEPWASRKLGEVAEIVRGASPRPIQDPKWFD 255

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
                         ++   +    +            +    + L       +       
Sbjct: 256 EKSNVGWLRISDVSVQDGRVHYLEQHISKAGQKKTRVLTQPHLLLSIAASVGKPVINYVN 315

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
             +   ++  +    +  ++   ++ ++   + Y    G + +L  + VK   + +P  +
Sbjct: 316 TGVHDGFLIFQNPNFEIEFMFQWLKMFEEQWLKYG-QPGSQINLNSDIVKNQDISIPTKE 374

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           EQ  I N        +D  V   +Q +  L + + S++ 
Sbjct: 375 EQKHIGN----LFLNLDNQVFVRQQKLDQLNQLKRSYLQ 409


>gi|317481423|ref|ZP_07940490.1| type I restriction modification DNA specificity domain-containing
           protein [Bacteroides sp. 4_1_36]
 gi|316902408|gb|EFV24295.1| type I restriction modification DNA specificity domain-containing
           protein [Bacteroides sp. 4_1_36]
          Length = 370

 Score = 86.0 bits (211), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 49/395 (12%), Positives = 104/395 (26%), Gaps = 57/395 (14%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
            WK   +       +G T  S K      +I +I   ++     +           ++S 
Sbjct: 23  EWKRHKLSEICSFYSGGTPSSSKKEFYNGNIPFIRSGELHKDKTELF---ITEDGLNSSA 79

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
             +   G +L    G       I+   G  +   L ++ K           +     +R+
Sbjct: 80  AKLVEIGDLLLALYGATSGDIAISKIKGAINQAILCIRTKQ---NKKFIESVWNKHVERL 136

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
                     +     + NIP     L EQ  +   I     RI T      +   L+K 
Sbjct: 137 LQTYLQGGQGNLSADIVKNIPFYFADLEEQDKLANFISLLDERISTQNKIIEKLETLIKG 196

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
             + ++S      L  +    +S                            + L ES + 
Sbjct: 197 IVETVISSQKPNTLIKNCLECNS----------------------------STLQESQVA 228

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
                 +    +               ++                         E   I 
Sbjct: 229 ETGTFPVYGATDISGYTETAGINGESILIIKD----------GSGVGTVKFVSGEYSYIG 278

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFD 377
           +        G    Y+ + ++ +                + F+D  +  +  P    Q  
Sbjct: 279 TLNSLTAKDGYCLKYIYFALQRFSFEPY---KTGMAIPHIYFKDYGKAKIYCPSFSLQTL 335

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           I   +    + I+  +E  ++ I+  + +RS  ++
Sbjct: 336 IAQKL----SLIENKMEVEKRIILCYQLQRSYLLS 366



 Score = 60.6 bits (145), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 21/191 (10%), Positives = 58/191 (30%), Gaps = 15/191 (7%)

Query: 225 VGLVPDHWEVKPFFALVTELNRKNT-----KLIESNILSLSYGNIIQKLETRNMGLKPES 279
                  W+      + +  +         +    NI  +  G + +      +     +
Sbjct: 17  FPEFSREWKRHKLSEICSFYSGGTPSSSKKEFYNGNIPFIRSGELHKDKTELFITEDGLN 76

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
               ++V+ G+++       +   ++   +      I           I+S +       
Sbjct: 77  SSAAKLVEIGDLLLALYGATSGDIAISKIKGAINQAILCIRTKQNKKFIESVWNKH---- 132

Query: 340 YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
             + ++      G + +L  + VK +P     ++EQ  + N I    + +D  +    + 
Sbjct: 133 --VERLLQTYLQGGQGNLSADIVKNIPFYFADLEEQDKLANFI----SLLDERISTQNKI 186

Query: 400 IVLLKERRSSF 410
           I  L+      
Sbjct: 187 IEKLETLIKGI 197


>gi|239833255|ref|ZP_04681583.1| Type I restriction enzyme EcoEI specificity protein [Ochrobactrum
           intermedium LMG 3301]
 gi|239821318|gb|EEQ92887.1| Type I restriction enzyme EcoEI specificity protein [Ochrobactrum
           intermedium LMG 3301]
          Length = 865

 Score = 86.0 bits (211), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 54/410 (13%), Positives = 118/410 (28%), Gaps = 59/410 (14%)

Query: 18  IGAIPKHWKVVPIKR--FTKLNTGRTSESG------KDIIYIGLEDVESGTGKY----LP 65
           IG     + +V +      K+ +G T +S         I +  L D+ +           
Sbjct: 473 IGK--SGFPMVSLGDEALFKVESGGTPKSDVPEYWDGGIPWATLVDLPASNFITEITGTV 530

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ 125
           +  +      S+  I     +L        R AI             ++   +       
Sbjct: 531 RTISEAGLKGSSAKILPANSVLVSSRATIGRIAINRVPLATNQGFKNIVIADEARVLPEY 590

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
                  +   +++   G T +         + +P+PPL  Q  I  ++           
Sbjct: 591 LAFAVTKLVPTMQSWATGGTFAEISKSKFCELEIPLPPLEMQREIVAEV----------- 639

Query: 186 TERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN 245
                      E  Q ++       L+          EW         ++P   +     
Sbjct: 640 -----------EGYQRVIDGA-RAVLDNYRSYIPVDPEW--------PMRPLSEVAQVNP 679

Query: 246 RKNTKLIESNILSLSYGNI------IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQ 299
           +K+          +S+  +        + +   +    E   +Y      +++   +   
Sbjct: 680 KKSELKDTDPSTPVSFVPMAVLNENNVRFDPVEVKTISEVVGSYTYFRESDVLVAKVTPC 739

Query: 300 NDKRSLRSAQVMERGI---ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF--YAMGSGLR 354
            +      A+ ++ GI    +  Y+          +L   + + D          G+G  
Sbjct: 740 FENGKAGIARGLKNGIGFGSSEFYVVRANEETLPGWLFHWLTTPDFRARATAKMTGTGGL 799

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID---VLVEKIEQSIV 401
           Q +    V+   + +P +  Q  I   I  E A I+    L+ + E+ I 
Sbjct: 800 QRVPRAVVEEELIPLPELVVQKSIVAEIEAERALIEGNRDLITRFEKKIE 849


>gi|160887310|ref|ZP_02068313.1| hypothetical protein BACOVA_05328 [Bacteroides ovatus ATCC 8483]
 gi|156107721|gb|EDO09466.1| hypothetical protein BACOVA_05328 [Bacteroides ovatus ATCC 8483]
          Length = 409

 Score = 86.0 bits (211), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 53/404 (13%), Positives = 126/404 (31%), Gaps = 36/404 (8%)

Query: 24  HWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
            W++  I    +L +G T            I +I   +++        +  +   +  ++
Sbjct: 25  EWEMSSIGEQFELYSGNTPSRMNKNQFDGSINWITSGELKEHYISDTKEKISEEAAKNNS 84

Query: 78  VSIFAKGQILYGKLG----PYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
           + +   G  +    G           I   +   S   +    K  +             
Sbjct: 85  LKLLPVGTFVIAIYGLEANGVRGTCSITTRESTISQACMAFTSKMDIQNEFLYSWYKKHG 144

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
                   +G    +  +  I    +  P + EQ    +K+I     ID  I  + + IE
Sbjct: 145 NIIGIKYAQGTKQQNLSYDIIERFNISYPCMEEQ----KKLIRFISLIDQRIATQNKIIE 200

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
            LK+ K A+  ++  +    +  +  S I  +           F +       K   L  
Sbjct: 201 DLKKLKSAISKHLFARKDLLETTICLSNIATL------KNGYAFQSGKYNALGKWKILTI 254

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
           +N+    Y N        N+   P   + +Q++  G+I+             ++   +  
Sbjct: 255 TNVPGERYINDEDCNCIINL---PNDIQDHQVLKEGDILISLTGNVGRVSLCKNGDYLLN 311

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPI 372
             +    +      ++  +L  ++ S        A G G  + ++   DV+   +     
Sbjct: 312 QRVG---LLQLSKNVNREFLYQILSSQRFENSMIACGQGAAQMNIGKGDVESYVLPYSSN 368

Query: 373 KEQFDI---TNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
               +I     +++    RI   + ++ + + LL  ++   +  
Sbjct: 369 G--NNILWVAKILHSYDERI---INELRR-LTLLTMQKQYLLTQ 406



 Score = 69.1 bits (167), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 27/199 (13%), Positives = 62/199 (31%), Gaps = 5/199 (2%)

Query: 213 PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
           P ++  +   EW                 + +N+       + I S              
Sbjct: 15  PHLRFPEFSGEWEMSSIGEQFELYSGNTPSRMNKNQFDGSINWITSGELKEHYISDTKEK 74

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
           +  +     + +++  G  V     L+ +      +       I+ A MA          
Sbjct: 75  ISEEAAKNNSLKLLPVGTFVIAIYGLEANGVRGTCSITTRESTISQACMAFTSKMDIQNE 134

Query: 333 LAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
             +         +      G  +Q+L ++ ++R  +  P ++EQ  +   I    + ID 
Sbjct: 135 FLYSWYKKHGNIIGIKYAQGTKQQNLSYDIIERFNISYPCMEEQKKLIRFI----SLIDQ 190

Query: 392 LVEKIEQSIVLLKERRSSF 410
            +    + I  LK+ +S+ 
Sbjct: 191 RIATQNKIIEDLKKLKSAI 209


>gi|238918026|ref|YP_002931540.1| type I restriction-modification system, S subunit, [Edwardsiella
           ictaluri 93-146]
 gi|238867594|gb|ACR67305.1| type I restriction-modification system, S subunit, putative
           [Edwardsiella ictaluri 93-146]
          Length = 585

 Score = 86.0 bits (211), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 29/208 (13%), Positives = 66/208 (31%), Gaps = 11/208 (5%)

Query: 213 PDVKMKDSGIEWVGLVPDHWEVKPF---FALVTELNRKNTKLIESNILSLSYGNIIQKLE 269
           P    + S  E    +P+ W           V     K++      +  +  G+I     
Sbjct: 86  PKALPEISEEEQPFDLPEGWAWGSIGYITEFVNGYAFKSSDFASEGVGIVKIGDIQDGEI 145

Query: 270 TRNMGLKP-----ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
             +   +      +       V  G+++         K         E   +        
Sbjct: 146 VVDNMSRVSQHVVDGLNENLQVKSGDMLIAMSGATTGKLGFNKTD--EIFYLNQRVGKFI 203

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
            + +D  +L + + +     +  AMGS    ++  + +  + + +PP+ EQ  I   ++ 
Sbjct: 204 TYLVDKEFLYYPLATKIAENLAKAMGS-AIPNISTKQINEITIALPPLAEQHRIVAKVDE 262

Query: 385 ETARIDVLVEKIEQSIVLLKERRSSFIA 412
             A  D L +  E  +   +    + +A
Sbjct: 263 LMALCDQLEQCSESQLAAHQTLVEALLA 290



 Score = 76.0 bits (185), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 33/190 (17%), Positives = 60/190 (31%), Gaps = 6/190 (3%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESG----KDIIYIGLEDVESGTG--KYLPKDGNSRQS 73
            +P+ W    I   T+   G   +S     + +  + + D++ G      + +       
Sbjct: 100 DLPEGWAWGSIGYITEFVNGYAFKSSDFASEGVGIVKIGDIQDGEIVVDNMSRVSQHVVD 159

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
             +       G +L    G    K      D I      V +    L +    +      
Sbjct: 160 GLNENLQVKSGDMLIAMSGATTGKLGFNKTDEIFYLNQRVGKFITYLVDKEFLYYPLATK 219

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
                A   G+ + +   K I  I + +PPLAEQ  I  K+       D L       + 
Sbjct: 220 IAENLAKAMGSAIPNISTKQINEITIALPPLAEQHRIVAKVDELMALCDQLEQCSESQLA 279

Query: 194 LLKEKKQALV 203
             +   +AL+
Sbjct: 280 AHQTLVEALL 289



 Score = 71.0 bits (172), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 30/203 (14%), Positives = 65/203 (32%), Gaps = 17/203 (8%)

Query: 220 SGIEWVGLVPDHW---EVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK 276
           S  E    +P  W    ++    L+T+   +  K  +     +S    ++         +
Sbjct: 378 SEDEKPFSLPKGWDFAYMQDLCYLITDGTHQTPKYTDDGRPFIS-AQCVKPFRFMPEFCR 436

Query: 277 PESYETYQIVDP------GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
             S E YQ+         G+I+   +     + ++  + +     +++  +      + S
Sbjct: 437 YVSEEHYQLYIKNRRPEFGDILLSRVGAGIGEAAVIDSCLEFAIYVSTGLLKPNRGAVYS 496

Query: 331 TYLAWLMRSYDLCKVFYAMGSG---LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
            YL   + S            G    + +L    ++   V +PP KEQ  I   +     
Sbjct: 497 KYLELWLNSPIGRGFSERNTLGKGVSQGNLNLSLIRSFIVSLPPKKEQKLIVAKVGEMIT 556

Query: 388 RIDVLV----EKIEQSIVLLKER 406
             D L        +  + L +  
Sbjct: 557 LCDQLKSCLQTSQQTQLALAESL 579



 Score = 45.6 bits (106), Expect = 0.015,   Method: Composition-based stats.
 Identities = 37/201 (18%), Positives = 70/201 (34%), Gaps = 16/201 (7%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSE----SGKDIIYIGLEDVESGTGKYLPKDGNSRQSD-- 74
           +PK W    ++    L T  T +    +     +I  + V+    +++P+       +  
Sbjct: 386 LPKGWDFAYMQDLCYLITDGTHQTPKYTDDGRPFISAQCVK--PFRFMPEFCRYVSEEHY 443

Query: 75  --TSTVSIFAKGQILYGKLGPYLRKAIIADFD----GICSTQFLVLQPKDVLPELLQGWL 128
                      G IL  ++G  + +A + D         ST  L      V  + L+ WL
Sbjct: 444 QLYIKNRRPEFGDILLSRVGAGIGEAAVIDSCLEFAIYVSTGLLKPNRGAVYSKYLELWL 503

Query: 129 LSIDVTQRIEAIC--EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
            S       E     +G +  + +   I +  + +PP  EQ LI  K+       D L +
Sbjct: 504 NSPIGRGFSERNTLGKGVSQGNLNLSLIRSFIVSLPPKKEQKLIVAKVGEMITLCDQLKS 563

Query: 187 ERIRFIELLKEKKQALVSYIV 207
                 +      ++LV   +
Sbjct: 564 CLQTSQQTQLALAESLVEGAI 584


>gi|166364730|ref|YP_001657003.1| putative type I restriction enzyme specificity protein [Microcystis
           aeruginosa NIES-843]
 gi|166087103|dbj|BAG01811.1| putative type I restriction enzyme specificity protein [Microcystis
           aeruginosa NIES-843]
          Length = 388

 Score = 86.0 bits (211), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 62/411 (15%), Positives = 123/411 (29%), Gaps = 41/411 (9%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            I K W   P+         +          I  +D   G     P  G + Q D+    
Sbjct: 6   EITKKWPHRPLSEVVDFLDSKRKP-------ITQKDRVPG---PYPYYGANGQQDSVADY 55

Query: 80  IFAKGQILYGKLGPYLR-----KAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
           IF +  +L  + G +        A   +     +    VL+PK  +      ++      
Sbjct: 56  IFDEPLVLLAEDGGHFGDADKTIAYQVEGKCWVNNHAHVLRPKKDVD---IRYICRHLER 112

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             +     G+T          NIP+ +PPL EQ  I   +                  EL
Sbjct: 113 YDVTPFITGSTRGKLTKTAANNIPIALPPLEEQRRIAAILDKADGVRRKRKEAIRLTDEL 172

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
                  L S  +    +P    K   +  +G      E         + + +  +  E 
Sbjct: 173 -------LKSTFLEMFGDPVTNPKGWEVRELGDCVKDIESG----WSPKCDTRQAEPEEW 221

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQI-VDPGEIVFRFIDLQNDKRSLRSAQVMER 313
            +L L            N  + P+     ++ +  G+++    +      +    Q+   
Sbjct: 222 GVLKLGAVTYGHFNPDENKAMLPDDVPRQELEIKTGDLLVTRKNTYELVGASAFVQMTRP 281

Query: 314 GIITSAYMAVKP--HGIDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVL 368
            ++    +       GID  Y+   +    +      +  G      ++    ++ LP  
Sbjct: 282 KLMLPDLIFRLRLIDGIDPVYVWQTLSQKTMRLKLSGLAGGTAGSMPNISKARLRTLPFP 341

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL-KERRSSFIAAAVTGQ 418
           VPP   Q     + N        L ++ ++    + +   +S +  A  G+
Sbjct: 342 VPPQLLQLKYREIFNQF-----WLKKEHQKESEEISENLFNSLLQRAFRGE 387


>gi|255011912|ref|ZP_05284038.1| type I restriction-modification system, endonuclease S subunit
           [Bacteroides fragilis 3_1_12]
 gi|313149746|ref|ZP_07811939.1| predicted protein [Bacteroides fragilis 3_1_12]
 gi|313138513|gb|EFR55873.1| predicted protein [Bacteroides fragilis 3_1_12]
          Length = 375

 Score = 86.0 bits (211), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 64/398 (16%), Positives = 124/398 (31%), Gaps = 42/398 (10%)

Query: 29  PIKRFTKLNTGRTSESGKD-IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
                   +T +     +D   Y+GLE ++    +                 +  KG IL
Sbjct: 5   RFDEIAINSTQKKKPIEEDRFHYVGLEHIDPECFEIQQYGSEVAPVGE--KLVMKKGDIL 62

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKD--VLPELLQGWLLSIDVTQRIEAICEGAT 145
           +GK   Y RK  IA  DGI S   +VL+PK   +       ++ S    +    I  G  
Sbjct: 63  FGKRRAYQRKVAIAPCDGIFSAHGMVLRPKTGVIDSSYFPFFISSDTFMETAIRISVGGL 122

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
               +WK +      +P L EQ  + +K+ A     +      I   E++          
Sbjct: 123 SPTINWKDLAKQEFELPSLEEQKNLADKLWAAYRLKEAYKKLLIATDEMV---------- 172

Query: 206 IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII 265
                       K   IE    V  + +++   +        +  + E+ I  +   N  
Sbjct: 173 ------------KSQFIEMFENVESYCKLEDLISDTFPGEWGSEPISENTIKVIRTTNFT 220

Query: 266 QKLETRNMGLKPESYETYQIVDP----GEIVFRFIDLQND---KRSLRSAQVMERGIITS 318
            +       +     E  ++V      G+ +        D    R +   ++ +      
Sbjct: 221 NEGYLDLTDVVTRDIEPKKVVRKKLKQGDTILERSGGTKDNPVGRVVFFDEIGDYLPNNF 280

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKV----FYAMGSGLRQSLKFEDVKRLPVLVPPIKE 374
             +      ++  YL + + +            A  +   Q+L   D     +++P   E
Sbjct: 281 TQVLRPKESVNPVYLFYALYNSYNLNKAAMRAMASQTTGIQNLSMSDFMAKFIVLPSRNE 340

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           Q            + D    +++Q I  + +   S I 
Sbjct: 341 QNKF----EQIYHQADKSKFELKQCIENIDKVIKSLIN 374



 Score = 53.3 bits (126), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 25/155 (16%), Positives = 60/155 (38%), Gaps = 8/155 (5%)

Query: 232 WEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK-LETRNMGLKPESYETYQIVDPGE 290
                F  +     +K   + E     +   +I  +  E +  G +        ++  G+
Sbjct: 1   MGKYRFDEIAINSTQKKKPIEEDRFHYVGLEHIDPECFEIQQYGSEVAPVGEKLVMKKGD 60

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG--IDSTYLAWLMRSYDLCK-VFY 347
           I+F        K ++        GI ++  M ++P    IDS+Y  + + S    +    
Sbjct: 61  ILFGKRRAYQRKVAIAPCD----GIFSAHGMVLRPKTGVIDSSYFPFFISSDTFMETAIR 116

Query: 348 AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
               GL  ++ ++D+ +    +P ++EQ ++ + +
Sbjct: 117 ISVGGLSPTINWKDLAKQEFELPSLEEQKNLADKL 151


>gi|290474452|ref|YP_003467332.1| putative restriction-modification system specificity determinant
           [Xenorhabdus bovienii SS-2004]
 gi|289173765|emb|CBJ80545.1| Putative restriction-modification system specificity determinant
           [Xenorhabdus bovienii SS-2004]
          Length = 407

 Score = 86.0 bits (211), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 46/419 (10%), Positives = 114/419 (27%), Gaps = 36/419 (8%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDI--------IYIGLEDVESGTGKYLPKDGNSRQSDT 75
            W    +        G T +    +        + +  ++V+    +         +   
Sbjct: 2   SWPQAKLDDVISFIRGVTFKPDDLVEPLSSNSTVVMRTKNVQVEGLEQSDLIAIPSELVK 61

Query: 76  STVSIFAKGQILYGKLGPY-----LRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
                  +G IL      +            ++         +++ K  + +    +   
Sbjct: 62  RKEQALCEGDILISSANSWELVGKASYVPKLNYQATAGGFISIVRAKQRVIDSRYLYHWI 121

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPM---PIPPLAEQVLIREKIIAETVRIDTLITE 187
              + +      G   ++     +G       P+PPL EQ  I   +         +  +
Sbjct: 122 SSPSTQHRIRHCGRQTTNISNLDVGRFKDLEIPLPPLTEQKRIAAILDKAGA----IRRK 177

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK 247
           R + I+L  E  +A+    +    +P    K   +  +            ++   E    
Sbjct: 178 RQQAIQLANEFLRAV---FLDMFGDPVTNPKGWEVRPLVDGIKSII--SGWSAKGESYPC 232

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIV-DPGEIVFRFIDLQNDKRSLR 306
           N        +S          E + +  K    +   +    G+++F   + ++   +  
Sbjct: 233 NEGEYGVLKISAVTSGKFNPQENKFVYEKDIPADKKLVFPKKGDLLFSRANTRDLVAATC 292

Query: 307 SAQVMERGIITSAYMAVKPHGID---STYLAWLMRSYDLCKVFYAMGSGL---RQSLKFE 360
                   +     +       +     YL +L+          +  +G      ++   
Sbjct: 293 IVPKDNNNVFLPDKLWNVKTSENILLPEYLNYLIWEPRFKGKLTSQATGTSGSMLNISKG 352

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
             +    + P +  Q    ++       ID L      S+       SS    A +G+I
Sbjct: 353 KFETTDAIFPDLPLQKKFRSIYWRVQKYIDSL----NASLDGCDASFSSLSQKAFSGEI 407



 Score = 44.4 bits (103), Expect = 0.039,   Method: Composition-based stats.
 Identities = 29/208 (13%), Positives = 60/208 (28%), Gaps = 22/208 (10%)

Query: 22  PKHWKVVPIKR-FTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           PK W+V P+      + +G +++         +   + +  V SG            +  
Sbjct: 204 PKGWEVRPLVDGIKSIISGWSAKGESYPCNEGEYGVLKISAVTSGKFNPQENKFVYEKDI 263

Query: 75  TSTVSIF--AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV-------LPELLQ 125
            +   +    KG +L+ +       A         +  FL  +  +V       LPE L 
Sbjct: 264 PADKKLVFPKKGDLLFSRANTRDLVAATCIVPKDNNNVFLPDKLWNVKTSENILLPEYLN 323

Query: 126 GWLLSIDVTQRIEAICEGA--TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
             +       ++ +   G   +M +             P L  Q   R        R+  
Sbjct: 324 YLIWEPRFKGKLTSQATGTSGSMLNISKGKFETTDAIFPDLPLQKKFRSIYW----RVQK 379

Query: 184 LITERIRFIELLKEKKQALVSYIVTKGL 211
            I      ++       +L     +  +
Sbjct: 380 YIDSLNASLDGCDASFSSLSQKAFSGEI 407


>gi|312905316|ref|ZP_07764431.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX0635]
 gi|310631340|gb|EFQ14623.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX0635]
 gi|315162495|gb|EFU06512.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX0645]
 gi|315578595|gb|EFU90786.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX0630]
          Length = 398

 Score = 86.0 bits (211), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 51/403 (12%), Positives = 121/403 (30%), Gaps = 39/403 (9%)

Query: 23  KHWKVVPIKRFTKLNT----GRTSESGKDIIYIGLEDV------ESGTGKYLPKDGNSRQ 72
           + W++  +     +++     +   S   + +    D+       +    ++P +     
Sbjct: 18  EDWELCKLGEKVDISSASRVHKHEWSSSGVRFFRSSDIMSAYNGTTNQKAFIPNELYEEL 77

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADF---DGICSTQFLVLQPKDVLPELLQGWLL 129
              S         IL    G      +++D        +    +     +  + L  + +
Sbjct: 78  IKKSGK--VNLDDILVTGGGSVGVPYLVSDEKPLYFKDADLLWIKNSGVIDGQFLYTFFI 135

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
           S    + I++I    T+SH         P+ +P   EQ  I          +D  IT   
Sbjct: 136 SPFFRKYIKSISHIGTISHYTIVQAKETPIKLPSFKEQGSIGSF----FKYLDDTITLHQ 191

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNT 249
           R +E LKE K+A +  +         K++ +  E    +     +        +   + +
Sbjct: 192 RKLEQLKELKKAYLQLMFPTKEERVPKLRFADFEGEWELCKLIGILDIIKGTQKSKSELS 251

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
               +      Y   I      N+  +                      +    +     
Sbjct: 252 TNQNNCTPYPVYNGGINPSGYTNIYNREN---------------AITISEGGNSAGFVNF 296

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
           V E+         +  +  D+ +L + + S    ++          +++   +  L +  
Sbjct: 297 VQEKFFSGGHNYTIVNNVTDTLFLFFYLCSIQ-EEIMRLRVGTGLPNIQKPTLMNLEIQK 355

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
               EQ  I   +      ID+L+   +  +  LK  + S++ 
Sbjct: 356 TTDNEQKFIGLFL----KNIDILITLTQNKLNQLKSLKKSYLQ 394


>gi|257091257|ref|ZP_05585618.1| predicted protein [Enterococcus faecalis CH188]
 gi|257000069|gb|EEU86589.1| predicted protein [Enterococcus faecalis CH188]
          Length = 394

 Score = 86.0 bits (211), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 51/403 (12%), Positives = 121/403 (30%), Gaps = 39/403 (9%)

Query: 23  KHWKVVPIKRFTKLNT----GRTSESGKDIIYIGLEDV------ESGTGKYLPKDGNSRQ 72
           + W++  +     +++     +   S   + +    D+       +    ++P +     
Sbjct: 14  EDWELCKLGEKVDISSASRVHKHEWSSSGVRFFRSSDIMSAYNGTTNQKAFIPNELYEEL 73

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADF---DGICSTQFLVLQPKDVLPELLQGWLL 129
              S         IL    G      +++D        +    +     +  + L  + +
Sbjct: 74  IKKSGK--VNLDDILVTGGGSVGVPYLVSDEKPLYFKDADLLWIKNSGVIDGQFLYTFFI 131

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
           S    + I++I    T+SH         P+ +P   EQ  I          +D  IT   
Sbjct: 132 SPFFRKYIKSISHIGTISHYTIVQAKETPIKLPSFKEQGSIGSF----FKYLDDTITLHQ 187

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNT 249
           R +E LKE K+A +  +         K++ +  E    +     +        +   + +
Sbjct: 188 RKLEQLKELKKAYLQLMFPTKEERVPKLRFADFEGEWELCKLIGILDIIKGTQKSKSELS 247

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
               +      Y   I      N+  +                      +    +     
Sbjct: 248 TNQNNCTPYPVYNGGINPSGYTNIYNREN---------------AITISEGGNSAGFVNF 292

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
           V E+         +  +  D+ +L + + S    ++          +++   +  L +  
Sbjct: 293 VQEKFFSGGHNYTIVNNVTDTLFLFFYLCSIQ-EEIMRLRVGTGLPNIQKPTLMNLEIQK 351

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
               EQ  I   +      ID+L+   +  +  LK  + S++ 
Sbjct: 352 TTDNEQKFIGLFL----KNIDILITLTQNKLNQLKSLKKSYLQ 390


>gi|148997029|ref|ZP_01824683.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP11-BS70]
 gi|147756729|gb|EDK63769.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP11-BS70]
          Length = 373

 Score = 86.0 bits (211), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 52/400 (13%), Positives = 124/400 (31%), Gaps = 39/400 (9%)

Query: 26  KVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           K V +    ++ +G   +S +       +  I + DVE G            +       
Sbjct: 2   KKVKLGEVCEILSGYAFKSSQFNDNKIGLPLIRIRDVERGFSD------TYFEGTYPEEY 55

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           +   G +L    G ++ K        + + +   ++  D   +      L     + IE 
Sbjct: 56  LIKNGDLLITMDGSFILK-KWEGDLALLNQRVCKIKITDKSVDEGYISWLIPKFLKEIED 114

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
                T+ H     I +I   +P   EQ LI +K+      I  +   R    E   E  
Sbjct: 115 KTPFVTVKHLSVAKIKDISFVLPNKLEQKLIAKKLN----TISQIYDFRKIQSEKFNELV 170

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
           ++  + +              G   +    D+              + +    E   L L
Sbjct: 171 KSRFNEMF-------------GENKIFESIDNLFDIIDGDRGKNYPKSDELFSEEYCLFL 217

Query: 260 SYGNIIQKLETRN----MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
           +  N+ +   + +    +    +       ++  +IV        +          +   
Sbjct: 218 NTKNVTKNGFSFDTKQFITKTKDKLLRKGKLERYDIVLTTRGTVGNVAYYDELIKYKHLR 277

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
           I S  + ++P   +     +++           +    +  L    +K++ + +PP+  Q
Sbjct: 278 INSGMVILRPKTPNLNQ-KFIIHVLRNNNYSRVISGSAQPQLPITKLKKILLPLPPLALQ 336

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            +  + +     ++D     I++S+  L+  + S +    
Sbjct: 337 NEFADFVV----QVDKSQLAIQKSLEELETLKKSLMQEYF 372


>gi|317009200|gb|ADU79780.1| type I R-M system S protein [Helicobacter pylori India7]
          Length = 404

 Score = 85.6 bits (210), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 44/405 (10%), Positives = 103/405 (25%), Gaps = 40/405 (9%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSES-----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           PK  +   I     +  GR                  + + +G   ++       +    
Sbjct: 13  PKGVEFRKIGEICLIKRGRVIAKKILQENGKYPVYSSQTLNNGILGFIDTYDFDGEF--- 69

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
                    + +   G Y             +   +    + +   +L  +L  I     
Sbjct: 70  ---------LTWTTDGAYAGSVFYRKGRFSITN--VCGLLQVIQDNILHKYLYYILQITT 118

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
              +  G          +  I +PIPPL  Q  I + + A T          +   +   
Sbjct: 119 PLHVSSGMGNPKLMSAAMQQITIPIPPLEIQQEIVKILDAFTELNTE-----LNARKKQY 173

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
           +  Q ++        +          E +        +K     +    +         +
Sbjct: 174 QYYQNMLLDF-----DGIHSNHKDAKEKLAQKTYPKRLKTLLQTLA--PKGVEFRKLGEV 226

Query: 257 LSLSYGNIIQKLETRNMGLKP-----ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
           +++  G  + K    + G  P          Y      +     I          +    
Sbjct: 227 INIFKGKQLNKELLLDYGEYPVMNGGIHASGYWNEYNTDYPKIIISQGGASAGYVNYMTS 286

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
           +       Y         +    +         +  +       +L   D++ L + +PP
Sbjct: 287 KFWAGAHCYTIELNSEKLNYKFLYYFLKNSQIILMKSQFGAGIPALNKADIETLTIPIPP 346

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           ++ Q +I  +++  +     L+  I   I   K+     R   + 
Sbjct: 347 LEIQQEIVKILDQFSILTTDLLAGIPAEIKARKKQYEYYREKLLT 391


>gi|262067380|ref|ZP_06026992.1| type I restriction system specificity protein [Fusobacterium
           periodonticum ATCC 33693]
 gi|291378943|gb|EFE86461.1| type I restriction system specificity protein [Fusobacterium
           periodonticum ATCC 33693]
          Length = 216

 Score = 85.6 bits (210), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 29/181 (16%), Positives = 69/181 (38%), Gaps = 12/181 (6%)

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNIIQKL----ETRNMGLKPESYETYQIVDPGEIV 292
             ++V     +     E  +  + YG I  K     E     ++    E  + V+ G+I+
Sbjct: 28  IGSIVRGNGLQKRDFTEEGVGCIHYGQIYTKYGMATEKTISFVEESLAEKLRKVEKGDII 87

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
           F       +        + E  I+T  + A+  H  +S +LA+  ++         + +G
Sbjct: 88  FAVTSENIEDLCKCVVWLGEEEIVTGGHTAILKHNQNSKFLAYYFQTEAFHSQKRKLATG 147

Query: 353 L-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL-------VEKIEQSIVLLK 404
                +    ++ + + +PP++EQ  I ++++      D +       +E  ++     +
Sbjct: 148 TKVMDVTATKLEEIIIPLPPLEEQQRIVDILDRFNKLCDDISEGLLVEIEARQKQYEYYR 207

Query: 405 E 405
           E
Sbjct: 208 E 208



 Score = 57.9 bits (138), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 23/192 (11%), Positives = 61/192 (31%), Gaps = 9/192 (4%)

Query: 27  VVPIKRFTKLNTG----RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT-STVSIF 81
            V +     +  G    +   + + +  I    + +  G    K  +  +      +   
Sbjct: 22  EVRLGDIGSIVRGNGLQKRDFTEEGVGCIHYGQIYTKYGMATEKTISFVEESLAEKLRKV 81

Query: 82  AKGQILYGKLGPY----LRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
            KG I++           +  +    + I +     +   +   + L  +  +     + 
Sbjct: 82  EKGDIIFAVTSENIEDLCKCVVWLGEEEIVTGGHTAILKHNQNSKFLAYYFQTEAFHSQK 141

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
             +  G  +       +  I +P+PPL EQ  I + +       D +    +  IE  ++
Sbjct: 142 RKLATGTKVMDVTATKLEEIIIPLPPLEEQQRIVDILDRFNKLCDDISEGLLVEIEARQK 201

Query: 198 KKQALVSYIVTK 209
           + +     ++T 
Sbjct: 202 QYEYYREKLLTF 213


>gi|237738768|ref|ZP_04569249.1| type I restriction-modification system specificity subunit
           [Fusobacterium sp. 2_1_31]
 gi|229423871|gb|EEO38918.1| type I restriction-modification system specificity subunit
           [Fusobacterium sp. 2_1_31]
          Length = 216

 Score = 85.6 bits (210), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 29/185 (15%), Positives = 70/185 (37%), Gaps = 9/185 (4%)

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNIIQKL----ETRNMGLKPESYETYQIVDPGEIV 292
             ++V     +     E  +  + YG I  K     E     ++    E  + V+ G+I+
Sbjct: 28  IASIVRGNGLQKRDFTEEGVGCIHYGQIYTKYGMVAEKTISFVEESLAEKLRKVEKGDII 87

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
           F       +        + E  I+T  + A+  H  +S +LA+  ++         + +G
Sbjct: 88  FAVTSENIEDLCKCVVWLGEDEIVTGGHTAILKHNQNSKFLAYYFQTEAFHSQKRKLATG 147

Query: 353 L-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RR 407
                +    ++ + + +PP++EQ  I ++++      + + E +   I   ++     R
Sbjct: 148 TKVMDITATKLEEILISLPPLEEQQRIVDILDRFDRLCNDISEGLPAEIEARQKQYEYYR 207

Query: 408 SSFIA 412
              + 
Sbjct: 208 EKLLN 212



 Score = 60.2 bits (144), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 19/166 (11%), Positives = 49/166 (29%), Gaps = 9/166 (5%)

Query: 27  VVPIKRFTKLNTG----RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT-STVSIF 81
            V +     +  G    +   + + +  I    + +  G    K  +  +      +   
Sbjct: 22  EVRLGDIASIVRGNGLQKRDFTEEGVGCIHYGQIYTKYGMVAEKTISFVEESLAEKLRKV 81

Query: 82  AKGQILYGKLGPY----LRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
            KG I++           +  +    D I +     +   +   + L  +  +     + 
Sbjct: 82  EKGDIIFAVTSENIEDLCKCVVWLGEDEIVTGGHTAILKHNQNSKFLAYYFQTEAFHSQK 141

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
             +  G  +       +  I + +PPL EQ  I + +       + 
Sbjct: 142 RKLATGTKVMDITATKLEEILISLPPLEEQQRIVDILDRFDRLCND 187


>gi|77165283|ref|YP_343808.1| restriction modification system DNA specificity subunit
           [Nitrosococcus oceani ATCC 19707]
 gi|254434555|ref|ZP_05048063.1| Type I restriction modification DNA specificity domain protein
           [Nitrosococcus oceani AFC27]
 gi|76883597|gb|ABA58278.1| Restriction modification system DNA specificity domain
           [Nitrosococcus oceani ATCC 19707]
 gi|207090888|gb|EDZ68159.1| Type I restriction modification DNA specificity domain protein
           [Nitrosococcus oceani AFC27]
          Length = 483

 Score = 85.6 bits (210), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 66/473 (13%), Positives = 135/473 (28%), Gaps = 81/473 (17%)

Query: 24  HWKVVPIKRFTKLNTGRTSESG-------KDIIYIGLEDVE-SGTGKYLPKDGNSRQSDT 75
            W +V + +  ++  G   +         K  I + + + + SG  ++          D 
Sbjct: 4   EWPLVTLSKLIEIKHGWAFKGKHMAESVIKGPIVVAIGNFDYSGGFRFSSTRIKRYTEDY 63

Query: 76  STVSIFAKGQILYGKL-----GPYLRKAIIADFDGICSTQ------FLVLQPKDVLPELL 124
                   G +L         G  L    I   D             +V +PK V    L
Sbjct: 64  PKEYQLQPGDVLLAMTCQTPGGEILGLPGIIPEDDEVYLHNQRLGKLIVKEPKKVWAPFL 123

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
               LS D  + +     G  + H     I +    IPP+  Q  I   + + + +I   
Sbjct: 124 YWVFLSYDFNRYLAGSATGTKILHTSPNKITSYETRIPPINLQQSIANILWSISDKISLN 183

Query: 185 ITERIRFIELLKEKKQALVSYI-------------------------------------- 206
                   ++ +   ++                                           
Sbjct: 184 HQINQILEQMAQAIFKSWFVDFEPVKAKIAALKAGGSQEDALLAAMQAISGKSSEQLTRL 243

Query: 207 ------VTKGLNPDVKMKDSGIE--WVGLVPDHWEVKPFFALVTELNR----KNTKLIES 254
                     L    ++  S ++   +G +P+ W  +    +    N     K     E+
Sbjct: 244 QAEQPEQYAQLRTTAELFPSAMQDSELGEIPEGWSCRALDDIAKYKNGLALQKFRPENEN 303

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
           + L +     ++K           +     I+D G++VF +         L       R 
Sbjct: 304 DYLPVVKIAQLKKGYADGEEKASPNINPECIIDNGDVVFSWSGSL-----LVDTWCGGRA 358

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPI 372
            +      V        +L +    + L          +     +K E +KR    +P  
Sbjct: 359 ALNQHLFKVTSETH-PKWLYYHFTQHHLEDFQRIAADKAVTMGHIKREHLKRALCAIPC- 416

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGES 425
            EQ  I++  N     ++  +E   +SI  L   R + +   ++G++ +    
Sbjct: 417 -EQL-ISDAGNSLRNILEKQIELRLESIT-LSTLRDTLLPKLLSGELSISDAE 466



 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 22/178 (12%), Positives = 46/178 (25%), Gaps = 14/178 (7%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGR-----TSESGKDI-IYIGLEDVESGTGK 62
             +DS    +G IP+ W    +    K   G        E+  D    + +  ++ G   
Sbjct: 264 AMQDSE---LGEIPEGWSCRALDDIAKYKNGLALQKFRPENENDYLPVVKIAQLKKGYAD 320

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPE 122
                      + +   I   G +++   G  L            +     +  +     
Sbjct: 321 ----GEEKASPNINPECIIDNGDVVFSWSGSLLVDT-WCGGRAALNQHLFKVTSETHPKW 375

Query: 123 LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
           L   +        +  A  +  TM H   + +      IP           +     +
Sbjct: 376 LYYHFTQHHLEDFQRIAADKAVTMGHIKREHLKRALCAIPCEQLISDAGNSLRNILEK 433


>gi|121583503|ref|YP_973929.1| restriction modification system DNA specificity subunit
           [Polaromonas naphthalenivorans CJ2]
 gi|120596753|gb|ABM40187.1| restriction modification system DNA specificity domain [Polaromonas
           naphthalenivorans CJ2]
          Length = 415

 Score = 85.6 bits (210), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 59/430 (13%), Positives = 134/430 (31%), Gaps = 51/430 (11%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
             W+   +  F +L  G      K             T    P   +S  SD  +V +  
Sbjct: 3   SEWQFGKLGDFIELKRGYDLPQAK------------RTSGPFPLVSSSGVSDCHSVPMVR 50

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
              ++ G+ G   +   + D     +T   V   K   P+ +  +L ++D     +    
Sbjct: 51  GPGVVTGRYGTIGQVYFVEDDFWPLNTTLYVRDFKGNDPKFISYFLKTVDFFAYSDK--- 107

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
            A +   +   +      IP L  Q  I   +     RI  L         + +   ++ 
Sbjct: 108 -AAVPGVNRNHLHEALGAIPDLPTQQEIARTLGVLDDRIALLRETNATLEAIAQALFKSW 166

Query: 203 VS-----YIVTKGLNPDVK------MKDSGIE--WVGLVPDHWEVKPFFALVTELNRKNT 249
                      +G  P+        +   G E   +GLVP  W  +    + T    K  
Sbjct: 167 FVDFDPVRARMEGRAPEGMDEATAALFPDGFEDSELGLVPKGWATRTMADISTVGIGKTP 226

Query: 250 KLIESNILS-------------LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFI 296
              E +  S             +    +   + +  +  +       + V    ++  F 
Sbjct: 227 PRKEQHWFSEDPSDVRWVSIRDMGAVGVYAAVTSEFLKKEAIEKFNIRRVPDNTVLMSFK 286

Query: 297 DLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS 356
                             I  + +       + + Y+   ++ +D   +  +  S +  +
Sbjct: 287 MTIGRVAITDGEMTTNEAI--AHFKLAPDAQLSTEYIYLHLKQFDFSTL--SSTSSIADA 342

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           +  + V+ +P+L+P ++      + +    A++    +  +     L   R + +   ++
Sbjct: 343 VNSKTVREIPILMPSLEGLTAFQSQVAALFAKLKNTEQHAQ----TLVTLRDTLLPRLIS 398

Query: 417 GQIDLRGESQ 426
           GQ+ L  E++
Sbjct: 399 GQLRL-PEAE 407



 Score = 49.0 bits (115), Expect = 0.001,   Method: Composition-based stats.
 Identities = 23/204 (11%), Positives = 58/204 (28%), Gaps = 15/204 (7%)

Query: 12  DSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK---------DIIYIGLEDV--ESGT 60
           DS    +G +PK W    +   + +  G+T    +         D+ ++ + D+      
Sbjct: 199 DSE---LGLVPKGWATRTMADISTVGIGKTPPRKEQHWFSEDPSDVRWVSIRDMGAVGVY 255

Query: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL 120
                +       +   +       +L       + +  I D +   +      +     
Sbjct: 256 AAVTSEFLKKEAIEKFNIRRVPDNTVLMS-FKMTIGRVAITDGEMTTNEAIAHFKLAPDA 314

Query: 121 PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
               +   L +            +     + K +  IP+ +P L      + ++ A   +
Sbjct: 315 QLSTEYIYLHLKQFDFSTLSSTSSIADAVNSKTVREIPILMPSLEGLTAFQSQVAALFAK 374

Query: 181 IDTLITERIRFIELLKEKKQALVS 204
           +          + L       L+S
Sbjct: 375 LKNTEQHAQTLVTLRDTLLPRLIS 398


>gi|294624820|ref|ZP_06703480.1| type I restriction-modification system specificity determinant
           [Xanthomonas fuscans subsp. aurantifolii str. ICPB
           11122]
 gi|292600884|gb|EFF44961.1| type I restriction-modification system specificity determinant
           [Xanthomonas fuscans subsp. aurantifolii str. ICPB
           11122]
          Length = 389

 Score = 85.6 bits (210), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 54/414 (13%), Positives = 129/414 (31%), Gaps = 42/414 (10%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
             W+         L  G+      ++            GKY     N     T       
Sbjct: 3   SEWRDTTWGEEISLEYGKAIRGYDEVR-----------GKYRVFGSNGAIGWTENALAEG 51

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
            G ++ G+ G Y       +   +  T + V+  K +    L   +    + +    I +
Sbjct: 52  PG-VILGRKGAYRGVRFWREPFWVIDTAYYVVPKKKLDMRWLYYAIKHHKLGE----IDD 106

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           G+ +       +    + +P L EQ  I   +     +I+           ++    ++ 
Sbjct: 107 GSPIPSTTRAAVYVRELTVPSLKEQGEISYVLGVLDDKIELNRRMNQTLEAMVHALFKS- 165

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
             + V         M++S    +G +P  W+V  F  +  ++      +         Y 
Sbjct: 166 --WFVDFDGVAPEDMQES---ELGFIPKGWQVIAFGDVAQQVKGTVNPMTSPEETFTHYS 220

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
                +    +    E+ ++ +   P E V       +  R           + ++ ++ 
Sbjct: 221 LPAFDVAQLPVRELGEAIKSNKTPVPNECVLVSKLNPHIPRIWLIGGAGHNAVCSTEFIV 280

Query: 323 VKPHGIDSTYLAWLM-RSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDI 378
             P    ++   +++  S +       + +G     Q +K E +  + V          I
Sbjct: 281 WMPKKPANSAFVYVLASSSEFNSALRQLVTGTSNSHQRVKPEQLANIRV----------I 330

Query: 379 T---NVINVETARIDVLVEK---IEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
                 I+  +A+   L+EK          L + R + +   ++G++ ++   +
Sbjct: 331 AVNDEAISKFSAQSKPLMEKLLHHRLQSQQLAQLRDTLLPKLISGEVRIKDAER 384



 Score = 47.9 bits (112), Expect = 0.003,   Method: Composition-based stats.
 Identities = 26/148 (17%), Positives = 51/148 (34%), Gaps = 14/148 (9%)

Query: 8   PQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSE---SGKDIIYIGLEDVESGTGKYL 64
              ++S    +G IPK W+V+      +   G  +      +   +  L   +       
Sbjct: 176 EDMQESE---LGFIPKGWQVIAFGDVAQQVKGTVNPMTSPEETFTHYSLPAFDVAQLPVR 232

Query: 65  PKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDG---ICSTQFLVLQPKDVLP 121
                 +    S  +      +L  KL P++ +  +    G   +CST+F+V  PK    
Sbjct: 233 ELGEAIK----SNKTPVPNECVLVSKLNPHIPRIWLIGGAGHNAVCSTEFIVWMPKKPAN 288

Query: 122 E-LLQGWLLSIDVTQRIEAICEGATMSH 148
              +     S +    +  +  G + SH
Sbjct: 289 SAFVYVLASSSEFNSALRQLVTGTSNSH 316


>gi|238809963|dbj|BAH69753.1| hypothetical protein [Mycoplasma fermentans PG18]
          Length = 429

 Score = 85.6 bits (210), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 52/418 (12%), Positives = 119/418 (28%), Gaps = 47/418 (11%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGN-SRQSDTSTV 78
            IP++W  V      ++  G      K I +     +     +   ++ N          
Sbjct: 15  EIPENWAWVRHNNIFEIIGGSQPPKSKFIEHEKQGYIRLYQIRDYGENPNPVYIPSKFAF 74

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLV--LQPKDVLPELLQGWLLSIDVTQR 136
               K  IL  + G  + K   A+          V  +   D + +          + Q 
Sbjct: 75  KQSEKNDILLARYGASIGKVFFAENGAYNVALAKVKKMFINDWINKEFMFIFYKSSIYQT 134

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           +      +  +  +   + N+ MPIP L E   I  K       I+    +  +  +L  
Sbjct: 135 LVKNNSRSAQAGFNKDDLKNLFMPIPSLNESSRIVSKWNDLNKLINEYENKENQLFKLDS 194

Query: 197 EK----KQALVSYIVTKGLNPDVK-------------------------MKDSGIEWVGL 227
           +     +++++ Y +   L                               KD    ++  
Sbjct: 195 KIKDKLQKSILQYAIQGKLVKQDPNDEPASKLLEAIQIEKNELIKEGKIKKDKQESFIFQ 254

Query: 228 VPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI---IQKLETRNMGLKPESYETYQ 284
             D    +   + V  +  +    I      +   NI    +   ++N        +  +
Sbjct: 255 GEDKNYYEKIGSKVINITNEIPFEIPKKWAWVRQKNILKLTKNEASKNGNYPYLEAKVLR 314

Query: 285 IVDPGEIVFRFIDLQNDKRSLRS--------AQVMERGIITSAYMAVKPHGIDSTYLAWL 336
            +   +I+   + +      +            + + G + S +  +K +         +
Sbjct: 315 KIIKPKIINNGVLINKGDIVILVDGENSGETFVLDQTGYMGSTFKLLKINNKIDQEYVLM 374

Query: 337 MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
           +  +                L  +    L + +P IKEQ +I   +     +ID  + 
Sbjct: 375 LLKFYKELFKKNKKGAAIPHLNIDIFNNLLLAIPNIKEQKEIILKL----KKIDNFIS 428



 Score = 61.7 bits (148), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 29/210 (13%), Positives = 62/210 (29%), Gaps = 8/210 (3%)

Query: 216 KMKDSGIEWVGLVPDHWEVKP---FFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
            +KD   E    +P++W        F ++       +K IE           I+      
Sbjct: 4   NIKDITEELPFEIPENWAWVRHNNIFEIIGGSQPPKSKFIEHEKQGYIRLYQIRDYGENP 63

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
             +   S   ++  +  +I+         K             +           I+  +
Sbjct: 64  NPVYIPSKFAFKQSEKNDILLARYGASIGKVFFAE-NGAYNVALAKVKKMFINDWINKEF 122

Query: 333 LAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
           +    +S     +        +     +D+K L + +P + E   I +  N     I+  
Sbjct: 123 MFIFYKSSIYQTLVKNNSRSAQAGFNKDDLKNLFMPIPSLNESSRIVSKWNDLNKLINEY 182

Query: 393 VEKIEQSIVLLKERR----SSFIAAAVTGQ 418
             K  Q   L  + +     S +  A+ G+
Sbjct: 183 ENKENQLFKLDSKIKDKLQKSILQYAIQGK 212


>gi|158521273|ref|YP_001529143.1| restriction modification system DNA specificity subunit
           [Desulfococcus oleovorans Hxd3]
 gi|158510099|gb|ABW67066.1| restriction modification system DNA specificity domain
           [Desulfococcus oleovorans Hxd3]
          Length = 385

 Score = 85.6 bits (210), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 52/400 (13%), Positives = 122/400 (30%), Gaps = 26/400 (6%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
             WK  P+ +   +  G+  +            + +G         + ++  TS      
Sbjct: 7   SSWKTQPLNQLCLVVMGQAPKGDTYNENTLGTPLIAGAADLGLIHPSPKKWTTSPTKTGK 66

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
            G I+   +   +     AD           L+  +        + L       + ++  
Sbjct: 67  AGDIILC-VRATIGDLNWADSKYCYGRGVCGLRIIEGHDPEFLWFWLMAC-KDHLLSLGR 124

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           GAT        I N+P+P   + EQ  I  +I     R++ +   R   +       ++L
Sbjct: 125 GATFKQISKTDIANLPVPALAVDEQRRIVARIKECMERVEEIEGLRAEAMRERGYLLESL 184

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
           +                   E  G      +V    + + +   +  + I+   +     
Sbjct: 185 IEAEYQ--------------EADGEKVTLADVCAITSSLVDP--RAPQYIDLLHIGGGNI 228

Query: 263 NIIQKLETRNMGLKPESYETYQI-VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY- 320
                        + E  ++ +   +   +++  I     K +    +    G+ ++   
Sbjct: 229 EAKTSKLVNLKTARAEKLKSSKFTFNDSMVLYNKIRPYLMKVA----RPGFSGLCSADMY 284

Query: 321 -MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPPIKEQFDI 378
            +   P  +   YL +L+ S        A  +      +  + +      +P  ++Q  I
Sbjct: 285 PLFPAPQKLTRDYLFYLLLSRHFTDYVIAGSNRAGMPKVNRKHLFAYKFTLPSTQKQQQI 344

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           T  ++   A ++ L   +  S   +   R S +  A  G+
Sbjct: 345 TESLDDAVAAVEELQTDMAASTSEVNALRQSILHKAFAGE 384


>gi|326319450|ref|YP_004237122.1| restriction modification system DNA specificity domain-containing
           protein [Acidovorax avenae subsp. avenae ATCC 19860]
 gi|323376286|gb|ADX48555.1| restriction modification system DNA specificity domain protein
           [Acidovorax avenae subsp. avenae ATCC 19860]
          Length = 434

 Score = 85.6 bits (210), Expect = 2e-14,   Method: Composition-based stats.
 Identities = 59/428 (13%), Positives = 135/428 (31%), Gaps = 28/428 (6%)

Query: 23  KHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVE-SGTGKYLPKDGNSRQSDT 75
             W+   ++   +L TG+T +S      G D+ ++   D   S       +  +   + +
Sbjct: 3   SEWRTYRLQEVGRLVTGKTPKSGVPAFDGDDVPFVSPPDFTGSKWITKTVRSISEAGAQS 62

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
              S+     +L   +G  + KA IA    + + Q   +   +        +        
Sbjct: 63  VKGSLIPPRSVLVTCIGSDMGKAAIAASQCVTNQQINAILVDESRFCPEFVYYNLSLRKD 122

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            I ++  G+     +    G I +  P L  Q  +   +     RI  L         + 
Sbjct: 123 EIRSLAGGSAQPILNKSAFGQIFLEAPCLEVQRTVSAALRPLDDRITLLRETNATLEAIA 182

Query: 196 KEKKQALV-----SYIVTKGLNPDVKMKDS--------GIEWVGLVPDHWEVKPFFALVT 242
           +   ++             G  P+   + +            +G+VP  W+V    ++  
Sbjct: 183 QALFKSWFVDFDPVRAKMAGRAPEGMDEATAALFPDALEETELGIVPKGWQVGVLDSIAA 242

Query: 243 ELNRKNTKLIES-NILSLSYGNIIQKLETRNMGLKPESYET--YQIVDPGEIVFRFIDLQ 299
                 +       IL +   N            + +   +   +++  G+++   +   
Sbjct: 243 LNPESWSTKHHPDRILYVDLANTKANQIEGITEFRFDDAPSRARRVLREGDVIVGTVRPG 302

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLK 358
           N   +  S         T   +    H  D   +       +  +    +   G   +++
Sbjct: 303 NGSFARISVDRAGLTGSTGFAVLRAHHLFDQALVYIAATREESIERLAHLADGGAYPAVR 362

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            E V   PV++ P K +     V N   A+    +   ++    L + R + +   ++GQ
Sbjct: 363 PEVVAGTPVVIAPRKVREAFGGVANHLLAQ----IGGNQEQSRYLGDIRDTLLPRLISGQ 418

Query: 419 IDLRGESQ 426
           + L    +
Sbjct: 419 LRLPEAHE 426



 Score = 40.2 bits (92), Expect = 0.68,   Method: Composition-based stats.
 Identities = 27/193 (13%), Positives = 66/193 (34%), Gaps = 7/193 (3%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESG--KDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           +G +PK W+V  +     LN    S       I+Y+ L + ++   + +  +     + +
Sbjct: 225 LGIVPKGWQVGVLDSIAALNPESWSTKHHPDRILYVDLANTKANQIEGI-TEFRFDDAPS 283

Query: 76  STVSIFAKGQILYGKLGPYLR---KAIIADFDGICSTQFLVLQPKDVLPEL-LQGWLLSI 131
               +  +G ++ G + P      +  +       ST F VL+   +  +  +       
Sbjct: 284 RARRVLREGDVIVGTVRPGNGSFARISVDRAGLTGSTGFAVLRAHHLFDQALVYIAATRE 343

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
           +  +R+  + +G        + +   P+ I P   +            +I     +    
Sbjct: 344 ESIERLAHLADGGAYPAVRPEVVAGTPVVIAPRKVREAFGGVANHLLAQIGGNQEQSRYL 403

Query: 192 IELLKEKKQALVS 204
            ++       L+S
Sbjct: 404 GDIRDTLLPRLIS 416


>gi|94263107|ref|ZP_01286925.1| Restriction modification system DNA specificity domain [delta
           proteobacterium MLMS-1]
 gi|93456478|gb|EAT06592.1| Restriction modification system DNA specificity domain [delta
           proteobacterium MLMS-1]
          Length = 456

 Score = 85.6 bits (210), Expect = 2e-14,   Method: Composition-based stats.
 Identities = 58/457 (12%), Positives = 131/457 (28%), Gaps = 66/457 (14%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV- 78
            W+  P+ +   L  G   +S       +  I +++V++G   +   + +    D  +V 
Sbjct: 4   EWQEKPLGKVFDLVNGYAFKSKDFSSSGVPVIKIKNVKAGY--FSEHNFSYVSPDFLSVR 61

Query: 79  --SIFAKGQILYGKLG--------PYLRKAIIA--DFDGICST---QFLVLQPKDVLPEL 123
              +  +  +L    G         ++ K      +     +           KDV P  
Sbjct: 62  HEKLAQRDDLLISMSGNRHDGSPETWVGKVAHFKRNEPFFINQRVGALRAKNTKDVCPRF 121

Query: 124 LQGWLLSIDVTQRIEAICEGA-TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
           +   L S D      +I   +   ++   K I    +P+P + EQ  I   + +   +++
Sbjct: 122 MSYVLSSWDFQHLFISIATSSGGQANISPKQILGTSVPVPHITEQRAIAHILGSLDDKVE 181

Query: 183 TLITERIRFIELLKEKKQALVSYIVTKGLN----------------------------PD 214
                     ++ +   ++          N                            P 
Sbjct: 182 LNRQMNRTLEQMAQALFKSWFIDFDPVVYNTVQAGHPVPERFRVIAERYRQNPEIQTLPQ 241

Query: 215 VKM----KDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLET 270
             +           +G +P  WE     A    +  ++      N +         + + 
Sbjct: 242 HILDLFPNHFEDSDLGEIPAGWEAMNVGAKFDVIMGQSPPGQSYNEIGQGLPFFQGRRDF 301

Query: 271 RNMGLKPESY--ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
                    Y  E  ++ +PG+ +        D    R      +  I     AV+    
Sbjct: 302 GFRYPTQRVYCTEPKRLANPGDTLISVRAPVGDINMARV-----KCCIGRGVAAVRHKSE 356

Query: 329 DSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
             ++  + MR+       Y     +  S+  +   +LP + P         ++       
Sbjct: 357 SRSFTYYSMRALTEQFSSYEGEGTVFGSINKKQFGKLPHVAPDDDL----IDLFESLVGS 412

Query: 389 IDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGES 425
            D  +E        L   R + +   ++GQ+ +    
Sbjct: 413 SDGEIEAHIDEADSLSRIRDTLLPKLISGQLRIPDAE 449



 Score = 66.4 bits (160), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 29/200 (14%), Positives = 66/200 (33%), Gaps = 19/200 (9%)

Query: 226 GLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII-QKLETRNMGLKPESY---E 281
           G       +   F LV     K+     S +  +   N+        N       +    
Sbjct: 2   GGEWQEKPLGKVFDLVNGYAFKSKDFSSSGVPVIKIKNVKAGYFSEHNFSYVSPDFLSVR 61

Query: 282 TYQIVDPGEIVFRFID------LQNDKRSLRSAQVMERGIITS---AYMAVKPHGIDSTY 332
             ++    +++            +     +   +  E   I     A  A     +   +
Sbjct: 62  HEKLAQRDDLLISMSGNRHDGSPETWVGKVAHFKRNEPFFINQRVGALRAKNTKDVCPRF 121

Query: 333 LAWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
           +++++ S+D   +F ++   SG + ++  + +    V VP I EQ  I +++      +D
Sbjct: 122 MSYVLSSWDFQHLFISIATSSGGQANISPKQILGTSVPVPHITEQRAIAHILGS----LD 177

Query: 391 VLVEKIEQSIVLLKERRSSF 410
             VE   Q    L++   + 
Sbjct: 178 DKVELNRQMNRTLEQMAQAL 197



 Score = 50.2 bits (118), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 28/193 (14%), Positives = 50/193 (25%), Gaps = 5/193 (2%)

Query: 12  DSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSR 71
           DS    +G IP  W+ + +     +  G++                 G   +  +    R
Sbjct: 253 DSD---LGEIPAGWEAMNVGAKFDVIMGQSPPGQSYNEIGQGLPFFQGRRDFGFRYPTQR 309

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
              T    +   G  L     P      +A            ++ K         + +  
Sbjct: 310 VYCTEPKRLANPGDTLISVRAPV-GDINMARVKCCIGRGVAAVRHKSESRSFTY-YSMRA 367

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
              Q      EG      + K  G +P   P      L    + +    I+  I E    
Sbjct: 368 LTEQFSSYEGEGTVFGSINKKQFGKLPHVAPDDDLIDLFESLVGSSDGEIEAHIDEADSL 427

Query: 192 IELLKEKKQALVS 204
             +       L+S
Sbjct: 428 SRIRDTLLPKLIS 440


>gi|226952350|ref|ZP_03822814.1| restriction modification system DNA specificity domain protein
           [Acinetobacter sp. ATCC 27244]
 gi|226836902|gb|EEH69285.1| restriction modification system DNA specificity domain protein
           [Acinetobacter sp. ATCC 27244]
          Length = 401

 Score = 85.6 bits (210), Expect = 2e-14,   Method: Composition-based stats.
 Identities = 59/424 (13%), Positives = 123/424 (29%), Gaps = 50/424 (11%)

Query: 13  SGVQWIGAIP--KHWKVV----PIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPK 66
           S V W    P  ++W+       +     +      +  K   ++  E+V+S    +   
Sbjct: 7   SDVYWFQEGPGVRNWQFKESGIKLLNVANITKQGKIDLNKTDRHLSTEEVDSKYQHF--- 63

Query: 67  DGNSRQSDTSTVSIFAKGQILYGKLG----------PYLRKAIIADFDGICSTQFLVLQP 116
                        +  +G ++    G            +            +T  +  + 
Sbjct: 64  -------------LIDEGDLVIASSGITNDEDNLLRTKIAFIEKQHLPLCLNTSTIRFKA 110

Query: 117 KDVLPELLQ--GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKI 174
           KD + +L     WL S++  Q+I     G    +     +  I + +PPL EQ  I   +
Sbjct: 111 KDGVSDLKFLKHWLNSLEFRQQITKEVTGIAQKNFGPSHLKKIKISLPPLTEQRRIASIL 170

Query: 175 IAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEV 234
                          +  +LL+          +    +P    K   + +VG + +    
Sbjct: 171 DQADELRQKRQQAIEKLDQLLQAT-------FIDMFGDPVSNPKGWDLRYVGEISES--- 220

Query: 235 KPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFR 294
                ++ +  + +       + + +       L         E       +  G+++  
Sbjct: 221 -KLGKMLDKKKQSSEIDQYKYLRNANVQWFRFDLSDVFEMEFNEKDRKNCELKFGDVLVC 279

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GL 353
                      ++             + +    I   Y  WL   Y     F    +   
Sbjct: 280 EGGEPGRAAIWKNDLENCFFQKALHRVRLDMTQILPEYFVWLFWFYSKNGGFDDHITVAT 339

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
              L    +K + + +PP+  Q D       +   I+VL   +E S  L +   SS    
Sbjct: 340 IAHLTGVKMKAMQIPIPPLSLQEDF----QQKVNEIEVLKTTLENSSKLFESLFSSLQNQ 395

Query: 414 AVTG 417
           A  G
Sbjct: 396 AFNG 399



 Score = 47.5 bits (111), Expect = 0.005,   Method: Composition-based stats.
 Identities = 34/200 (17%), Positives = 63/200 (31%), Gaps = 14/200 (7%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKD------IIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           PK W +  +   ++   G+  +  K         Y+   +V+                  
Sbjct: 206 PKGWDLRYVGEISESKLGKMLDKKKQSSEIDQYKYLRNANVQWFRFDLSDVFEMEFNEKD 265

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICST----QFLVLQPKDVLPELLQGWLLSI 131
                   G +L  + G   R AI  +    C        + L    +LPE         
Sbjct: 266 RKNCELKFGDVLVCEGGEPGRAAIWKNDLENCFFQKALHRVRLDMTQILPEYFVWLFWFY 325

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
                 +     AT++H     +  + +PIPPL+ Q   ++K+      I+ L T     
Sbjct: 326 SKNGGFDDHITVATIAHLTGVKMKAMQIPIPPLSLQEDFQQKVNE----IEVLKTTLENS 381

Query: 192 IELLKEKKQALVSYIVTKGL 211
            +L +    +L +      L
Sbjct: 382 SKLFESLFSSLQNQAFNGTL 401


>gi|182683452|ref|YP_001835199.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae CGSP14]
 gi|182628786|gb|ACB89734.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae CGSP14]
          Length = 430

 Score = 85.6 bits (210), Expect = 2e-14,   Method: Composition-based stats.
 Identities = 60/427 (14%), Positives = 131/427 (30%), Gaps = 63/427 (14%)

Query: 29  PIKRFTKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
                 ++  G +    KD        I +I + D E G           ++S  +    
Sbjct: 2   RFSTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINNVKEKIKKSGLNKTRF 61

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID-VTQRIEA 139
             KG  L      + R  I+     I      +   ++ L +    ++LS + V  +  +
Sbjct: 62  VKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYLFYILSSNVVYSQFLS 121

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
           +  GA + + +   + +I +P+PPL+EQ  I E I +   ++D       R  +L KE  
Sbjct: 122 LISGAVVKNLNSDKVASILIPLPPLSEQQRIIEAIESALEKVDEYAESYNRLEQLDKEFP 181

Query: 200 ----QALVSYIVTKGLNPDVKMKDS----------------------------------- 220
               ++++ Y +   L       +S                                   
Sbjct: 182 DKLKKSILQYAMQGKLVEQDPNDESVEVLLEKIRAEKQKLFEEGKIKKKDLDISIVSQGD 241

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
              + G +P +W V     + +     + K  + +I           ++     L    Y
Sbjct: 242 DNSYYGNIPMNWVVIKIKDIFSINTGLSYKKGDLSINKGVRIIRGGNIKPLEFSLLDNDY 301

Query: 281 --------ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA----VKPHGI 328
                        +   +++                     G++   ++      +   I
Sbjct: 302 YIDTQFISSEQVYLKHNQLITPVSTSIEHIGKFARIDKDYDGVVAGGFIFQLTPFESSEI 361

Query: 329 DSTYLAWLMRSYDLCKVFY---AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
            S +L + + S    K       +      ++    +  L + + P +EQ  IT  +   
Sbjct: 362 ISKFLLFNLSSPLFYKQLKAITKLSGQALYNIPKTTLSELLIPLAPFEEQELITQKVEKL 421

Query: 386 TARIDVL 392
             +++ L
Sbjct: 422 FEKVNQL 428



 Score = 76.8 bits (187), Expect = 6e-12,   Method: Composition-based stats.
 Identities = 27/158 (17%), Positives = 59/158 (37%), Gaps = 8/158 (5%)

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
           + +      +K       + V  G  +            L     +  G +    ++   
Sbjct: 42  KYINNVKEKIKKSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLA---ISNYE 98

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
           + ++  YL +++ S  +   F ++ SG   ++L  + V  + + +PP+ EQ  I   I  
Sbjct: 99  NSLNKDYLFYILSSNVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLSEQQRIIEAIES 158

Query: 385 ETARIDVLVEKIEQSIVLLKE----RRSSFIAAAVTGQ 418
              ++D   E   +   L KE     + S +  A+ G+
Sbjct: 159 ALEKVDEYAESYNRLEQLDKEFPDKLKKSILQYAMQGK 196



 Score = 47.9 bits (112), Expect = 0.003,   Method: Composition-based stats.
 Identities = 35/183 (19%), Positives = 74/183 (40%), Gaps = 16/183 (8%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSES-----GKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
           G IP +W V+ IK    +NTG + +       K +  I   +++      L  D      
Sbjct: 247 GNIPMNWVVIKIKDIFSINTGLSYKKGDLSINKGVRIIRGGNIKPLEFSLLDNDYYIDTQ 306

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIA-----DFDGICSTQFLV----LQPKDVLPELL 124
             S+  ++ K   L   +   +           D+DG+ +  F+      +  +++ + L
Sbjct: 307 FISSEQVYLKHNQLITPVSTSIEHIGKFARIDKDYDGVVAGGFIFQLTPFESSEIISKFL 366

Query: 125 QGWLLSIDVTQRIEAICE--GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
              L S    ++++AI +  G  + +     +  + +P+ P  EQ LI +K+     +++
Sbjct: 367 LFNLSSPLFYKQLKAITKLSGQALYNIPKTTLSELLIPLAPFEEQELITQKVEKLFEKVN 426

Query: 183 TLI 185
            L 
Sbjct: 427 QLW 429


>gi|311109505|ref|YP_003982358.1| type I restriction enzyme StySPI specificity protein [Achromobacter
           xylosoxidans A8]
 gi|310764194|gb|ADP19643.1| type I restriction enzyme StySPI specificity protein [Achromobacter
           xylosoxidans A8]
          Length = 400

 Score = 85.6 bits (210), Expect = 2e-14,   Method: Composition-based stats.
 Identities = 48/411 (11%), Positives = 120/411 (29%), Gaps = 36/411 (8%)

Query: 27  VVPIKRFTKLNTGRTSESGKDIIY--------IGLEDVESGTGKYLPKDGNSRQSDTSTV 78
              +    +   G +       +         +   ++      +            S  
Sbjct: 6   TRRVGDLCEQLRGVSYSKSDATLSNQAGYKAILRANNITKHGLTFDDLVYVPDA-CISER 64

Query: 79  SIFAKGQILYGKLGPYLRKAII-----ADFDGICSTQFLVLQPKDVLPELLQ-GWLLSID 132
                G ++       L           D          VL+P  ++       +  +  
Sbjct: 65  QFLKAGDVVIAASSGSLDVVGKAARVENDLAAGFGAFCKVLRPNSLVDAGYFAHFFQTSS 124

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
             ++I ++  GA +++   + + N+ + +P L EQ  I + +               +  
Sbjct: 125 YRRKISSLAAGANINNLRNEHLDNLEIRVPSLPEQRRIADVLDKADALRAQRRAAITKLD 184

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           EL       L S  +    +P    +   I   G +  H   K         +    + +
Sbjct: 185 EL-------LQSVFIEMFGDPVTNPRGWAI---GSLNAHGSFKNGLNFGKGESGATVRYV 234

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQ--NDKRSLRSAQV 310
              +        +    +       +       +   +++F   +       R +     
Sbjct: 235 G--VGDFQSKAALDDFSSLAFIELNDLPAEDYFLHDSDLLFVRSNGNRELVGRCMAVYPG 292

Query: 311 MERGIITSAYMAVKPHGID--STYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPV 367
           ME+   +   +  +   +   STY+A L RS    ++ +  G G   Q++  + +  LP+
Sbjct: 293 MEKVTYSGFCIRYRIADVSLQSTYVAHLFRSVPFRRLIFQGGQGANIQNINQQILSGLPI 352

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            +P    Q     ++     +I    + + ++        +S    A +G+
Sbjct: 353 PIPDEGLQRQFAAIVE----KIGAQKQIMHRAAEKSNALFASLQHLAFSGK 399


>gi|269101868|ref|ZP_06154565.1| putative type I restriction-modification system subunit S
           [Photobacterium damselae subsp. damselae CIP 102761]
 gi|268161766|gb|EEZ40262.1| putative type I restriction-modification system subunit S
           [Photobacterium damselae subsp. damselae CIP 102761]
          Length = 421

 Score = 85.2 bits (209), Expect = 2e-14,   Method: Composition-based stats.
 Identities = 58/416 (13%), Positives = 130/416 (31%), Gaps = 36/416 (8%)

Query: 30  IKRFTKLNTGRT-SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA----KG 84
           +      N G+T       +  I    ++  +  Y   +     SD +  + F      G
Sbjct: 12  LSNIVD-NRGKTCPVGDAGLPLIATNCIKEHSL-YPVYEKVRYVSDETYTNWFRGHPQPG 69

Query: 85  QILYGKLGPYLRKAIIADFDGIC---STQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            +++   G   R   + D    C       +      V P+ L   L S    Q+I  + 
Sbjct: 70  DMIFVCKGSPGRVNWVPDPVNFCIAQDMVAIRADTTKVYPKYLFALLRSQASQQKILNMH 129

Query: 142 EGATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
            G+ + H      GN+   +P  L  Q  + +      ++I++         ++ +   +
Sbjct: 130 VGSLIPHFKKGDFGNLYFELPEDLEYQKKVGDAYFDFCLKIESNNQLNQTLEQMAQAIFK 189

Query: 201 ALV------------SYIVTKGLNPDVKMKDSGIE-WVGLVPDHWEVKPFFALVTELNRK 247
           +                 V    +  +   +  +E  +GL+P+ WEV    ++V  +  +
Sbjct: 190 SWFVDFDPVKAKMNGEQPVGMDADTALLFPEKLVESELGLIPEGWEVGSLSSIVDVIMGQ 249

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ--IVDPGEIVFRFIDLQNDKRSL 305
           + K    N        +   +E        + + T    +    +++         +  +
Sbjct: 250 SPKGTTYNDQGEGTPLVNGPVEFGVYHPVAQKWTTAPTKLSKNKDLIVCVRGSTTGRYVV 309

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRL 365
              +           +          +  +L +S+ L  +          S     +K  
Sbjct: 310 SDGE-----YCLGRGVCSIRSDDSPAFANYLFKSH-LNNLLNLTTGSTFPSWSGPTLKNF 363

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            V+VPP   Q  I          +  ++ +       L   R + +   ++G+IDL
Sbjct: 364 KVVVPP---QSIIGKF-ETIVGNLCSMMAQNTGENESLSLLRDTLLPKLLSGEIDL 415



 Score = 57.1 bits (136), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 20/187 (10%), Positives = 54/187 (28%), Gaps = 3/187 (1%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +G IP+ W+V  +     +  G++ +            + +G  ++      +++  T+ 
Sbjct: 227 LGLIPEGWEVGSLSSIVDVIMGQSPKGTTYNDQGEGTPLVNGPVEFGVYHPVAQKWTTAP 286

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
             +     ++    G    + +++D +                        L       +
Sbjct: 287 TKLSKNKDLIVCVRGSTTGRYVVSDGEYCLGRGVC---SIRSDDSPAFANYLFKSHLNNL 343

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
             +  G+T        + N  + +PP +        +      +     E      L   
Sbjct: 344 LNLTTGSTFPSWSGPTLKNFKVVVPPQSIIGKFETIVGNLCSMMAQNTGENESLSLLRDT 403

Query: 198 KKQALVS 204
               L+S
Sbjct: 404 LLPKLLS 410


>gi|315225318|ref|ZP_07867134.1| type I restriction-modification system S subunit [Capnocytophaga
           ochracea F0287]
 gi|314944727|gb|EFS96760.1| type I restriction-modification system S subunit [Capnocytophaga
           ochracea F0287]
          Length = 258

 Score = 85.2 bits (209), Expect = 2e-14,   Method: Composition-based stats.
 Identities = 33/171 (19%), Positives = 57/171 (33%), Gaps = 8/171 (4%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQS 73
            IP  W+   +        G T   G        I ++   ++ +G      +    +  
Sbjct: 86  EIPNGWEWCRLGLIGDWGAGATPLRGNIEYYGGKIPWLKTGELNNGLIISTEEYITDKAL 145

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
           +  ++ +   G IL    G  + K  IA      +       P  +  + L  +L++   
Sbjct: 146 EECSLRLCNVGDILIAMYGATIGKLGIAGIKLTTNQACCACTPIFIYNKFLFYFLMAN-- 203

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
            Q      EG    +     + N   P+PPL EQ  I EKI      I+  
Sbjct: 204 KQSFIEQGEGGAQPNISRIKLVNYLFPLPPLKEQQHIVEKIEELIPHIEHH 254



 Score = 79.8 bits (195), Expect = 8e-13,   Method: Composition-based stats.
 Identities = 28/182 (15%), Positives = 54/182 (29%), Gaps = 13/182 (7%)

Query: 218 KDSGIEWVGLVPDHWEVKPF-----FALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
           K    E    +P+ WE         +       R N +     I  L  G +   L    
Sbjct: 77  KCIDEEIPFEIPNGWEWCRLGLIGDWGAGATPLRGNIEYYGGKIPWLKTGELNNGLIIST 136

Query: 273 MGLKPE---SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID 329
                +      + ++ + G+I+         K  +       +     A  A  P  I 
Sbjct: 137 EEYITDKALEECSLRLCNVGDILIAMYGATIGKLGIA----GIKLTTNQACCACTPIFIY 192

Query: 330 STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
           + +L + + +            G + ++    +      +PP+KEQ  I   I      I
Sbjct: 193 NKFLFYFLMANK-QSFIEQGEGGAQPNISRIKLVNYLFPLPPLKEQQHIVEKIEELIPHI 251

Query: 390 DV 391
           + 
Sbjct: 252 EH 253


>gi|302336434|ref|YP_003801641.1| restriction modification system DNA specificity domain protein
           [Olsenella uli DSM 7084]
 gi|301320274|gb|ADK68761.1| restriction modification system DNA specificity domain protein
           [Olsenella uli DSM 7084]
          Length = 478

 Score = 85.2 bits (209), Expect = 2e-14,   Method: Composition-based stats.
 Identities = 67/442 (15%), Positives = 140/442 (31%), Gaps = 73/442 (16%)

Query: 20  AIPKHWKVVPIKRFT-KLNTGRTSES-------GKDIIYIGLEDVESGTGKYLPKDGNSR 71
            +P  W+   +   +  ++TG    +        + +  +   ++ +G          + 
Sbjct: 36  DLPDGWEWARLGSISLGISTGPFGSALHKGDYVSRGVPIVNPANISNGLITPTSFVSEAT 95

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFD--GICSTQFLVLQPK---DVLPELLQG 126
           +   S+  I + G ++ G+ G   R A++ D     +C T   + +     ++   LL  
Sbjct: 96  RERLSSY-ILSLGDLVIGRRGEMGRVAVVGDECVGWLCGTGCFIARCPGGGELSSNLLSL 154

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
              S      +E    G TM +   + +G + +P+PPLAEQ  I   +      +D +  
Sbjct: 155 VFSSTYTKAFLEENAIGTTMKNLSREILGEVLVPVPPLAEQRRIVVALDELLGLVDEVER 214

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVK------------------------MKDSGI 222
            +     LL   +  ++   +   L P                           ++   +
Sbjct: 215 SQAELEGLLDRARAKVLDLAIRGRLVPQDPSDEPAEALLARVREERLLMAADGRLRRRDV 274

Query: 223 E-----WVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKP 277
           E     + G    ++E       V   +     L E    +      +    +R   +  
Sbjct: 275 EGDSVIFRGEDNSYYEKVGGAEPVCVDSELPFDLPEGWEWARLPSLFVIDPRSRQDDVAL 334

Query: 278 ESYETYQIVDPG-------------------------EIVFRFIDLQNDKRSLRSAQVME 312
            S+     +DPG                         +++F  I    + R    A+ +E
Sbjct: 335 VSFAPMASIDPGFTSHVKYEVRPWGEVKRGFTHFEEGDVLFAKISPCFENRKSFVAESLE 394

Query: 313 R---GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA--MGSGLRQSLKFEDVKRLPV 367
                  T   +     G+   +    ++S           MG+  +Q +K E +  +  
Sbjct: 395 NKHGAGTTELIVLRCICGMTPWFALCFLKSPTFIDAAKGTFMGTVGQQRVKREFIDSVLF 454

Query: 368 LVPPIKEQFDITNVINVETARI 389
            VPP+ EQ  I    +     I
Sbjct: 455 PVPPLSEQARIAKSASKLLDSI 476



 Score = 70.6 bits (171), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 40/229 (17%), Positives = 75/229 (32%), Gaps = 28/229 (12%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNRK-------NTKLIESNILSLSYGNIIQKLETRNMGL 275
           E    +PD WE     ++   ++             +   +  ++  NI   L T    +
Sbjct: 32  ELPFDLPDGWEWARLGSISLGISTGPFGSALHKGDYVSRGVPIVNPANISNGLITPTSFV 91

Query: 276 KPESYE--TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL 333
              + E  +  I+  G++V            +    V                G  S+ L
Sbjct: 92  SEATRERLSSYILSLGDLVIGRRGEMGRVAVVGDECVGWLCGTGCFIARCPGGGELSSNL 151

Query: 334 AWLMRSYDLCKVF--YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
             L+ S    K F          ++L  E +  + V VPP+ EQ  I   ++     +D 
Sbjct: 152 LSLVFSSTYTKAFLEENAIGTTMKNLSREILGEVLVPVPPLAEQRRIVVALDELLGLVDE 211

Query: 392 LVEKIEQSIV-LLKERRSSFIAAAVTGQI---------------DLRGE 424
            VE+ +  +  LL   R+  +  A+ G++                +R E
Sbjct: 212 -VERSQAELEGLLDRARAKVLDLAIRGRLVPQDPSDEPAEALLARVREE 259



 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 25/169 (14%), Positives = 61/169 (36%), Gaps = 10/169 (5%)

Query: 12  DSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSR 71
           DS + +   +P+ W+   +     ++     +    + +  +  ++ G   ++  +    
Sbjct: 301 DSELPF--DLPEGWEWARLPSLFVIDPRSRQDDVALVSFAPMASIDPGFTSHVKYEVRPW 358

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAI------IADFDGICSTQFLV-LQPKDVLPELL 124
                  + F +G +L+ K+ P            + +  G  +T+ +V      + P   
Sbjct: 359 GEVKRGFTHFEEGDVLFAKISPCFENRKSFVAESLENKHGAGTTELIVLRCICGMTPWFA 418

Query: 125 QGWLLSIDVTQRIEAICEGA-TMSHADWKGIGNIPMPIPPLAEQVLIRE 172
             +L S       +    G         + I ++  P+PPL+EQ  I +
Sbjct: 419 LCFLKSPTFIDAAKGTFMGTVGQQRVKREFIDSVLFPVPPLSEQARIAK 467


>gi|305665032|ref|YP_003861319.1| DNA-methyltransferase, type I restriction-modification enzyme
           subunit M [Maribacter sp. HTCC2170]
 gi|88709784|gb|EAR02016.1| DNA-methyltransferase, type I restriction-modification enzyme
           subunit M [Maribacter sp. HTCC2170]
          Length = 707

 Score = 85.2 bits (209), Expect = 2e-14,   Method: Composition-based stats.
 Identities = 41/291 (14%), Positives = 91/291 (31%), Gaps = 11/291 (3%)

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
              D    +E I       ++       I      L       EK+       +T+I+  
Sbjct: 410 NDNDFKDFLEKIRNKEIGKNSWIIKAHEIDENTCNLTPINPNEEKLDKILSP-NTIISAV 468

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN 248
            ++      + Q + + I +     ++ +K+ G  W            F       + K 
Sbjct: 469 SKYSMDFNSELQKIKTNIDSYLSEVNLMLKNEGGIWKEERFGDVCE--FVRGPFGGSLKK 526

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPES---YETYQIVDPGEIVFRFIDLQNDKRSL 305
           +  +E  I      + I            +          +  G+++            +
Sbjct: 527 SIFVEKGIAVYEQQHAINNQFEHVRYYINQDKFNEMKRFELKSGDLIMSCSGTMGKVAIV 586

Query: 306 RSAQVMERGIITSAYMAVKPHG-IDSTYLAWLMRSYDLCKVFYAMG-SGLRQSL-KFEDV 362
             +   E+GII  A + + P+  ID  +L + M S         +      +++   + +
Sbjct: 587 PKS--FEKGIINQALLKLSPNPSIDVNFLKYWMESKVFKLKIEELSMGAAIKNVASVKIL 644

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           K + V +PPI+ Q  I   I+      +  +      +  L++   S +  
Sbjct: 645 KEIMVPIPPIEIQKRIIQRIDSLVNSFEDAILITRNQLNHLEDLGESLLQE 695



 Score = 60.2 bits (144), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 31/194 (15%), Positives = 66/194 (34%), Gaps = 11/194 (5%)

Query: 25  WKVVPIKRFTKLNTG-------RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           WK        +   G       ++    K I     +   +   +++    N  + +   
Sbjct: 504 WKEERFGDVCEFVRGPFGGSLKKSIFVEKGIAVYEQQHAINNQFEHVRYYINQDKFNEMK 563

Query: 78  VSIFAKGQILYGKLGPYLRKAIIAD--FDGICSTQFLVLQPKDVLPELLQGWLLSID-VT 134
                 G ++    G   + AI+      GI +   L L P   +      + +      
Sbjct: 564 RFELKSGDLIMSCSGTMGKVAIVPKSFEKGIINQALLKLSPNPSIDVNFLKYWMESKVFK 623

Query: 135 QRIEAICEGATMSHA-DWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            +IE +  GA + +    K +  I +PIPP+  Q  I ++I +     +  I      + 
Sbjct: 624 LKIEELSMGAAIKNVASVKILKEIMVPIPPIEIQKRIIQRIDSLVNSFEDAILITRNQLN 683

Query: 194 LLKEKKQALVSYIV 207
            L++  ++L+    
Sbjct: 684 HLEDLGESLLQETF 697


>gi|37678998|ref|NP_933607.1| restriction endonuclease S subunit [Vibrio vulnificus YJ016]
 gi|37197740|dbj|BAC93578.1| restriction endonuclease S subunit [Vibrio vulnificus YJ016]
          Length = 433

 Score = 85.2 bits (209), Expect = 2e-14,   Method: Composition-based stats.
 Identities = 49/378 (12%), Positives = 119/378 (31%), Gaps = 25/378 (6%)

Query: 50  YIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGK----LGPYLRKAIIADFDG 105
           +  L D+      ++  + +  +    +     +G +++      +    +   + + +G
Sbjct: 61  FSTLFDITKEYVPFINTEISLDKVKEESY--CQEGDMVFADASEDIDDVGKSIELINLNG 118

Query: 106 I-----CSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMP 160
                   T     +  D++         S  + ++I+   +GA +       I NI + 
Sbjct: 119 EKLLSGLHTILARPKKSDLVKGFGGYLFKSEVMRKQIQKESQGAKVLGISASRISNIEVI 178

Query: 161 IPPLAE-QVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKD 219
            P   + Q  I + + +    I T   +        K   Q L +        P+++   
Sbjct: 179 YPIDHDEQQKIADCLSSMDDLITTNTKKLELLKLHKKGLLQKLFTA--EGKDIPELRFDG 236

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE- 278
              EW     +  E++    L++ L      +  S +L L   N+          +  E 
Sbjct: 237 FEGEW-----EEVELRKLGDLISGLTYSPDDVRASGLLVLRSSNVQNGKIVYGDNVFVEP 291

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
           + +   I +P +I+    +         +       + T            + +   L +
Sbjct: 292 NIKGANISEPDDILICVRNGSKALIGKNALIPQNVPLSTHGAFMTIFRSKYAQFTFQLFQ 351

Query: 339 SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIE 397
           +    K   A       S+  + + +    +P    E+  I   +    + +D L+    
Sbjct: 352 TNAYQKQVDADLGATINSINGKQLLKYKFKIPRSNDEKEKIVKCL----SSLDDLINAQT 407

Query: 398 QSIVLLKERRSSFIAAAV 415
             I +LKE +   +    
Sbjct: 408 DKIEVLKEYKKGLMQQLF 425



 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 28/202 (13%), Positives = 62/202 (30%), Gaps = 17/202 (8%)

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFA-------LVTELNRKNTKLIESN 255
           +S +  K L P  +++ S  EW     +                   +   KN    + +
Sbjct: 1   MSKLEFKELVP--ELRFSQTEWQKKPFNKLYTLKVTNSLSRDKLNYDDGLVKNIHYGDIH 58

Query: 256 ILSLSYGNIIQ-KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV---M 311
               +  +I +  +   N  +  +  +       G++VF       D        +    
Sbjct: 59  TKFSTLFDITKEYVPFINTEISLDKVKEESYCQEGDMVFADASEDIDDVGKSIELINLNG 118

Query: 312 ERGIITSAYMAVKPHGIDSTYLA--WLMRSYDLCKVFYAMGSGLRQ-SLKFEDVKRLPVL 368
           E+ +     +  +P   D       +L +S  + K       G +   +    +  + V+
Sbjct: 119 EKLLSGLHTILARPKKSDLVKGFGGYLFKSEVMRKQIQKESQGAKVLGISASRISNIEVI 178

Query: 369 VP-PIKEQFDITNVINVETARI 389
            P    EQ  I + ++     I
Sbjct: 179 YPIDHDEQQKIADCLSSMDDLI 200



 Score = 47.9 bits (112), Expect = 0.004,   Method: Composition-based stats.
 Identities = 35/204 (17%), Positives = 66/204 (32%), Gaps = 20/204 (9%)

Query: 20  AIPK--------HWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKD 67
            IP+         W+ V +++   L +G T          ++ +   +V++G   Y    
Sbjct: 228 DIPELRFDGFEGEWEEVELRKLGDLISGLTYSPDDVRASGLLVLRSSNVQNGKIVYGDNV 287

Query: 68  GNSRQSDTSTVSIFAKGQILYGKLG---PYLRKAIIADFDGICSTQFLVLQPKDVLPELL 124
                      +I     IL          + K  +   +   ST    +          
Sbjct: 288 FVEPNIK--GANISEPDDILICVRNGSKALIGKNALIPQNVPLSTHGAFMTIFRSKYAQF 345

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
              L   +  Q+      GAT++  + K +      IP   ++     K       +D L
Sbjct: 346 TFQLFQTNAYQKQVDADLGATINSINGKQLLKYKFKIPRSNDEKEKIVKC---LSSLDDL 402

Query: 185 ITERIRFIELLKEKKQALVSYIVT 208
           I  +   IE+LKE K+ L+  +  
Sbjct: 403 INAQTDKIEVLKEYKKGLMQQLFP 426


>gi|294780396|ref|ZP_06745763.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis PC1.1]
 gi|294452525|gb|EFG20960.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis PC1.1]
          Length = 364

 Score = 85.2 bits (209), Expect = 2e-14,   Method: Composition-based stats.
 Identities = 49/375 (13%), Positives = 132/375 (35%), Gaps = 29/375 (7%)

Query: 50  YIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAI-------IAD 102
           YI   D+ +     + ++ N         ++   G ++        +             
Sbjct: 3   YIHYGDIHTKKADKVSENSNIPNIIKKNFALLEIGDLILTDASEDYKGIATPAVIRENTS 62

Query: 103 FDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIP 162
           FD +     + L+PK++ P  L   + +    +    +  G  +       + +    IP
Sbjct: 63  FDIVAGLHTIALRPKNIDPMFLYYLIKAPTFRKYGYKVGTGMKVFGISSSKVLDFTTYIP 122

Query: 163 PLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGI 222
              E  L+   +     +ID  +    R ++ LKE K+A +  +  K      +++ +  
Sbjct: 123 KNDETKLVSSFL----EKIDYALDLHQRKLDQLKELKKAYLQLMFPKKDETVPQVRFADF 178

Query: 223 EWVGLVPDHWEVKPFFA--LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK-PES 279
           E      D W++        + +   +  +  +S +  +S  NI      + +  +  E 
Sbjct: 179 E------DDWQLCKLGDVVEIFDGTHQTPRYTDSGVKFVSVENIATLETKKYITHEAYEK 232

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
             + +    G+I+   I    D  +++  +  E          +K    +  +L++++ S
Sbjct: 233 EYSKKRAKKGDILMTRIG---DIGTMKVIETDEPLAYYVTLALLKAKETNPYFLSFIISS 289

Query: 340 YDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
            ++ +  +         + +   ++ ++ + +   +EQ  I +        +D  +   +
Sbjct: 290 PEIQRNIWKRTLHIAFPKKINLGEINQVEMKITIFEEQDKIGD----LFTNLDDAIILNQ 345

Query: 398 QSIVLLKERRSSFIA 412
             +  LK  + S++ 
Sbjct: 346 NKLNQLKSLKKSYLQ 360



 Score = 62.1 bits (149), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 21/164 (12%), Positives = 61/164 (37%), Gaps = 8/164 (4%)

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS---LRSAQ 309
              I             + N  +     + + +++ G+++           +   +    
Sbjct: 1   MKYIHYGDIHTKKADKVSENSNIPNIIKKNFALLEIGDLILTDASEDYKGIATPAVIREN 60

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVL 368
                +     +A++P  ID  +L +L+++    K  Y +G+G+    +    V      
Sbjct: 61  TSFDIVAGLHTIALRPKNIDPMFLYYLIKAPTFRKYGYKVGTGMKVFGISSSKVLDFTTY 120

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           +P   E   +++ +     +ID  ++  ++ +  LKE + +++ 
Sbjct: 121 IPKNDETKLVSSFLE----KIDYALDLHQRKLDQLKELKKAYLQ 160



 Score = 50.2 bits (118), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 28/185 (15%), Positives = 58/185 (31%), Gaps = 7/185 (3%)

Query: 24  HWKVVPIKRFTKLNTGRTSE---SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
            W++  +    ++  G       +   + ++ +E++ +   K      +       +   
Sbjct: 181 DWQLCKLGDVVEIFDGTHQTPRYTDSGVKFVSVENIATLETK--KYITHEAYEKEYSKKR 238

Query: 81  FAKGQILYGKLGPYL-RKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
             KG IL  ++G     K I  D          +L+ K+  P  L   + S ++ + I  
Sbjct: 239 AKKGDILMTRIGDIGTMKVIETDEPLAYYVTLALLKAKETNPYFLSFIISSPEIQRNIWK 298

Query: 140 ICEGATMS-HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
                      +   I  + M I    EQ  I +        I     +  +   L K  
Sbjct: 299 RTLHIAFPKKINLGEINQVEMKITIFEEQDKIGDLFTNLDDAIILNQNKLNQLKSLKKSY 358

Query: 199 KQALV 203
            Q + 
Sbjct: 359 LQNMF 363


>gi|325110948|ref|YP_004272016.1| restriction modification system DNA specificity domain protein
           [Planctomyces brasiliensis DSM 5305]
 gi|324971216|gb|ADY61994.1| restriction modification system DNA specificity domain protein
           [Planctomyces brasiliensis DSM 5305]
          Length = 436

 Score = 85.2 bits (209), Expect = 2e-14,   Method: Composition-based stats.
 Identities = 57/435 (13%), Positives = 128/435 (29%), Gaps = 42/435 (9%)

Query: 27  VVPIKRF-----TKLNTGRTSES-------GKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
              +         ++ TG               +  I + +V  G  +   K      S 
Sbjct: 6   TTTLGELLDNYGGEIKTGPFGTKLRAAEYTPTGVPVISVGEVGYGRLRLHDKTPRVDTSV 65

Query: 75  TST--VSIFAKGQILYGKLGPYLRKAIIA---DFDGICSTQFLVLQPKDVLPELLQGWLL 129
           T+     +   G I++G+ G   R A +    D   + S    V  P       +   L 
Sbjct: 66  TNRMPEYLLRYGDIVFGRKGAVDRSARVQVDQDGWFLGSDGIRVRLPSTCDSAFIAYQLQ 125

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
                  +     G+TM   +   I  IP+ +P + EQ  I   +++   +I+       
Sbjct: 126 VQAHRDWMIQHAAGSTMPSLNEGIIRRIPIVLPSIEEQRAITAVLVSLDDKIEQNRRTGA 185

Query: 190 RFIELLKEKKQALVSYI-----------VTKGLNPDVKMKDSG---IEWVGLVPDHWEVK 235
           +  EL +   +                    G+ P+   K         +G VP+ WEVK
Sbjct: 186 KLEELARAVFKGWFVDFEPVKAKAAGATAFPGMLPETFAKLPSRFVDSELGPVPEGWEVK 245

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN-------MGLKPESYETYQIVDP 288
           P   +VT            +  +          +  +          +  +      +  
Sbjct: 246 PIGDVVTVRGGGTPSTKNESFWTDGTHCWATPKDLSSLQHPVLLSTGRRITTAGVAKISS 305

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA 348
           G +    + L +       A       +   ++A++ +G  + +         + ++   
Sbjct: 306 GLLPIDTVLLSSRAPVGYLALAKVPTAVNQGFIAIECNGPLTPHYVLHWLDSSMEEIKGR 365

Query: 349 MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
                   +     + +P +VP  +         + +   +  L+  +    + L   R 
Sbjct: 366 ASGTTFAEISKSAFRPIPAIVPTSEMTQAF----DDDVKPLFDLITNLVADSMKLATMRD 421

Query: 409 SFIAAAVTGQIDLRG 423
             +   ++G + +  
Sbjct: 422 YLLPRLLSGHVRITP 436



 Score = 62.9 bits (151), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 28/207 (13%), Positives = 60/207 (28%), Gaps = 15/207 (7%)

Query: 12  DSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYI-------GLEDVESGTGKY- 63
           DS    +G +P+ W+V PI     +  G T  +  +  +          +D+ S      
Sbjct: 232 DSE---LGPVPEGWEVKPIGDVVTVRGGGTPSTKNESFWTDGTHCWATPKDLSSLQHPVL 288

Query: 64  --LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP 121
               +   +      +  +     +L     P      +A      +  F+ ++    L 
Sbjct: 289 LSTGRRITTAGVAKISSGLLPIDTVLLSSRAPV-GYLALAKVPTAVNQGFIAIECNGPL- 346

Query: 122 ELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
                        + I+    G T +         IP  +P         + +      I
Sbjct: 347 TPHYVLHWLDSSMEEIKGRASGTTFAEISKSAFRPIPAIVPTSEMTQAFDDDVKPLFDLI 406

Query: 182 DTLITERIRFIELLKEKKQALVSYIVT 208
             L+ + ++   +       L+S  V 
Sbjct: 407 TNLVADSMKLATMRDYLLPRLLSGHVR 433


>gi|172040944|ref|YP_001800658.1| type I restriction-modification system, specificity subunit
           [Corynebacterium urealyticum DSM 7109]
 gi|171852248|emb|CAQ05224.1| type I restriction-modification system, specificity subunit
           [Corynebacterium urealyticum DSM 7109]
          Length = 411

 Score = 85.2 bits (209), Expect = 2e-14,   Method: Composition-based stats.
 Identities = 54/404 (13%), Positives = 121/404 (29%), Gaps = 28/404 (6%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W+   +++ +        +S   ++ I   D      +    D   +    S      +
Sbjct: 17  EWEEKTVQQISVPVARVNPDSTAPVMMISAADGFINQSEKYSSDNAGKS--LSKYIELHQ 74

Query: 84  GQILYG----KLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           G++ Y     K+ P+     + +        +   +  +  P      L    V  ++E 
Sbjct: 75  GELAYNHGASKIRPFGSCFELRESAARVPFVYHCFRVPEEHPTFTSYSLNRKSVQSQLER 134

Query: 140 ICEGATMS----HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
           +           +  +   G +    P L EQ  I          I+    +     +  
Sbjct: 135 LVSSGARMDGLLNISFPQYGTVTAYFPTLEEQQAIGAIFTNLDAAINQHSKKHQALQQAK 194

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEW----VGLVPDHWEVKPFFALVTELNRKNTKL 251
               Q +          P+++++    EW    +G +        F       +      
Sbjct: 195 TALMQRMFPQ--EGQTVPELRLEGFDGEWKTTTLGELGSFKSGVGFPEREQGGDTGLPFY 252

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGE--IVFRFIDLQNDKRSLRSAQ 309
             S++   + GN +Q     +   + +    + I       I+F  +         R A 
Sbjct: 253 KVSDLS--APGNELQLRSANHYVTEEQIVRNHWIPVTAVPAILFAKVGAAVFLGRKRLAT 310

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
                       ++     D  +    +++ DL +      SG   SL    +      +
Sbjct: 311 DTFLLDNNLMAFSLDTKSWDVQFADTYLKTVDLTRF---TQSGALPSLNARHLAEAAATI 367

Query: 370 PP-IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           PP ++EQ  I         R+D L+    + I  LK+ +++ + 
Sbjct: 368 PPTLEEQQAIG----AVFTRLDTLIATEAKYIESLKQTKTALLQ 407


>gi|126657630|ref|ZP_01728785.1| type II restriction-modification enzyme [Cyanothece sp. CCY0110]
 gi|126621086|gb|EAZ91800.1| type II restriction-modification enzyme [Cyanothece sp. CCY0110]
          Length = 1307

 Score = 85.2 bits (209), Expect = 2e-14,   Method: Composition-based stats.
 Identities = 56/400 (14%), Positives = 131/400 (32%), Gaps = 34/400 (8%)

Query: 25   WKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
            W +  +    ++  G T           D +++ + ++         +    +    S V
Sbjct: 933  WNLYRLGDIVEVKIGGTPPRENSDYFKGDNLWVSISEMNGQIIIDTKEKITDQGVKDSNV 992

Query: 79   SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
             +  KG  L       + K  IA  D   +     L P  +    +    L      ++ 
Sbjct: 993  KLIPKGTTLLS-FKLSIGKTAIAGKDLYTNEAIAGLIP--LDKNQVLDLFLFHIFNAKLI 1049

Query: 139  AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
             +      +       G +   +      + I+E+I+     ID    +    I+  KEK
Sbjct: 1050 NLENVGLNTFGKSLNSGFLKKDVKIPLPPLEIQEEIVKACQAIDEEFEKVETMIKKEKEK 1109

Query: 199  KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
             + L +      + P  ++       +  +P +   +                  S+   
Sbjct: 1110 IEKLANQ--QYEMYPKYQLG-----NLSSMPQYGANEKAING----------NKISDYRY 1152

Query: 259  LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
            +   +I +     N     E  E   I++ G+ +F        K  L  +Q   + I   
Sbjct: 1153 IRITDINEDGSLNNDFKTAEKIEDKYILEDGDFLFARSGNTVGKTFLYQSQ-YGKAIFAG 1211

Query: 319  AYMAV--KPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQ 375
              +        I   YL  + +S    K    + +G  + ++  +    L + +P +++Q
Sbjct: 1212 YLIRFKLMQDRILPKYLEIVTKSSIYKKWIEDVQTGSSQPNINGQIYSSLEIPLPELQKQ 1271

Query: 376  FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
              I + ++    + +V +++ +  I  + +R+ S I   +
Sbjct: 1272 QKIISEVD----KCEVKIKESQTIINSIAKRKESVIYKYL 1307



 Score = 45.9 bits (107), Expect = 0.012,   Method: Composition-based stats.
 Identities = 18/185 (9%), Positives = 49/185 (26%), Gaps = 4/185 (2%)

Query: 211  LNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLET 270
            L P+ K      +W                    N    K     +        I     
Sbjct: 920  LTPNKKNITFNTKWNLYRLGDIVEVKIGGTPPRENSDYFKGDNLWVSISEMNGQIIIDTK 979

Query: 271  RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
              +  +       +++  G  +  F                   I  +  + +  + +  
Sbjct: 980  EKITDQGVKDSNVKLIPKGTTLLSFKLSIGKTAIAGKDLYTNEAI--AGLIPLDKNQVLD 1037

Query: 331  TYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKR-LPVLVPPIKEQFDITNVINVETARI 389
             +L  +  +  +      + +   +SL    +K+ + + +PP++ Q +I           
Sbjct: 1038 LFLFHIFNAKLINLENVGLNTFG-KSLNSGFLKKDVKIPLPPLEIQEEIVKACQAIDEEF 1096

Query: 390  DVLVE 394
            + +  
Sbjct: 1097 EKVET 1101


>gi|258539029|ref|YP_003173528.1| type I restriction enzyme, specificity protein [Lactobacillus
           rhamnosus Lc 705]
 gi|257150705|emb|CAR89677.1| Type I restriction enzyme, specificity protein [Lactobacillus
           rhamnosus Lc 705]
          Length = 393

 Score = 85.2 bits (209), Expect = 2e-14,   Method: Composition-based stats.
 Identities = 56/396 (14%), Positives = 109/396 (27%), Gaps = 34/396 (8%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+   +                D   + +   E   G+      N  Q      +    G
Sbjct: 20  WEQRKVSELAD---------RYDNHRVPITASERVAGRTPYYGANGIQDHVEGFT--HDG 68

Query: 85  Q-ILYGKLGPY---LRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
           + IL  + G            D     +    VLQ K+        +L++      IE  
Sbjct: 69  EFILVAEDGANDLQNYPVQYVDGKVWVNNHAHVLQAKEE--TADNKFLMNALKHTNIEPY 126

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
             G   +  +   +  I   +P L EQ+ I +            IT   R +ELLK  KQ
Sbjct: 127 LVGGGRAKLNADVMMKIDFKVPTLPEQIQIGKFFDNLDHL----ITLHQRKLELLKRLKQ 182

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS-- 258
             +  +  +      +++  G           E+       T    K             
Sbjct: 183 GYLQKLFPQNGENVPELRFKGYSDAWEKRKLGEISDIRGGGTPSTSKPEYWDGEIDWYAP 242

Query: 259 --LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
             +     +     +   L         +     I+F       +   L  +     G  
Sbjct: 243 AEIGTQRYVSGSRRQITNLGLNKSSATMLPANKTILFTSRAGIGNAAILTKS-----GAT 297

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
              + ++        Y  +        K            +  + + ++ + +P  KEQ 
Sbjct: 298 NQGFQSIVVEPATDVYFLYSEIPEIKRKAIRLAAGSTFLEISGKSLSKIQIWLPSFKEQS 357

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
            I +       +ID L+   +    LLK+ + + + 
Sbjct: 358 RIGH----LFLQIDNLIAATQHKENLLKKIKQACLQ 389



 Score = 76.0 bits (185), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 21/129 (16%), Positives = 48/129 (37%), Gaps = 5/129 (3%)

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF 346
             GE +    D  ND ++     V  +  + +    ++     +    +LM +     + 
Sbjct: 66  HDGEFILVAEDGANDLQNYPVQYVDGKVWVNNHAHVLQAKEETADN-KFLMNALKHTNIE 124

Query: 347 YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
             +  G R  L  + + ++   VP + EQ  I    +     +D L+   ++ + LLK  
Sbjct: 125 PYLVGGGRAKLNADVMMKIDFKVPTLPEQIQIGKFFD----NLDHLITLHQRKLELLKRL 180

Query: 407 RSSFIAAAV 415
           +  ++    
Sbjct: 181 KQGYLQKLF 189


>gi|325980940|ref|YP_004293342.1| restriction modification system DNA specificity domain
           [Nitrosomonas sp. AL212]
 gi|325530459|gb|ADZ25180.1| restriction modification system DNA specificity domain
           [Nitrosomonas sp. AL212]
          Length = 575

 Score = 85.2 bits (209), Expect = 2e-14,   Method: Composition-based stats.
 Identities = 69/474 (14%), Positives = 130/474 (27%), Gaps = 98/474 (20%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            +P+ W+ V       L  GR  ++       + Y+ +E ++ G  +    D    QS+ 
Sbjct: 102 ELPEGWEWVRNGFLFTLRKGRIPKNLSENNIGLPYLDIEALDRGVVRRYTDDDKCPQSNE 161

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
           S         IL    G      I+    GI  +   V+     +       L+     +
Sbjct: 162 S--------DILVVCDGSRSG-LILDGKVGIIGSTLSVIDTPVFIQS--FVRLIFKQGYE 210

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE------------------ 177
           R+ A  +GA + H D + +    +  PPLAEQ  I  K+                     
Sbjct: 211 RLNATMKGAAIPHLDTQKLAFGVIGFPPLAEQHRIVAKVDKLMTLCDQLETQHNNAAKAY 270

Query: 178 -----------------------TVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPD 214
                                    RI             +   KQ L+   V   L P 
Sbjct: 271 EKLVSHLLDTLTQSQNAEDFGANWQRIAAHFDTLFTTETSIDALKQTLLQLAVMGKLVPQ 330

Query: 215 VKMKD-------------------------------SGIEWVGLVPDHWEVKPFFALVTE 243
               +                               +  E    +P  WE      +   
Sbjct: 331 DPNDEPASELLKRIQAEKARLVAEGKIKKDKPLPPITEEEKPFKLPRGWEWVRLGTITEI 390

Query: 244 LNRKNTKL------IESNILSLSYGNIIQKLETRNMGLKPESYE----TYQIVDPGEIVF 293
              K            +  + +   ++       +     +S      +  I+   +I  
Sbjct: 391 KGGKRVSNGFQLLTQPTPHIYIRVSDMKDGSIDDSDLRYIDSEMHGKISRYIITKDDIYI 450

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY-AMGSG 352
             +     K  +   +  +  +  +A   +   GI+  +L   + S      F+      
Sbjct: 451 TIVGATIGKCGVVPEKFDQMNLTENAARLIPLRGIEKIFLYKCLDSPICQSQFFDKTKQV 510

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
             Q +    +    + +P   EQ  I   ++      D L  +I Q+  L K+ 
Sbjct: 511 GVQKMALNRLASTIIFLPSRAEQIRIITKVDELMILCDQLKSRITQASQLQKKL 564



 Score = 62.1 bits (149), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 32/200 (16%), Positives = 71/200 (35%), Gaps = 12/200 (6%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESG-------KDIIYIGLEDVESGTGKYLP-KDGNSR 71
            +P+ W+ V +   T++  G+   +G          IYI + D++ G+      +  +S 
Sbjct: 374 KLPRGWEWVRLGTITEIKGGKRVSNGFQLLTQPTPHIYIRVSDMKDGSIDDSDLRYIDSE 433

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAII----ADFDGICSTQFLVLQPKDVLPELLQGW 127
                +  I  K  I    +G  + K  +     D   +      ++  + +    L   
Sbjct: 434 MHGKISRYIITKDDIYITIVGATIGKCGVVPEKFDQMNLTENAARLIPLRGIEKIFLYKC 493

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
           L S     +     +   +       + +  + +P  AEQ+ I  K+    +  D L + 
Sbjct: 494 LDSPICQSQFFDKTKQVGVQKMALNRLASTIIFLPSRAEQIRIITKVDELMILCDQLKSR 553

Query: 188 RIRFIELLKEKKQALVSYIV 207
             +  +L K+    +V   +
Sbjct: 554 ITQASQLQKKLADVVVEQAI 573



 Score = 54.4 bits (129), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 22/187 (11%), Positives = 56/187 (29%), Gaps = 8/187 (4%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
           S  E    +P+ WE            RK       +  ++    +  +   R +  +   
Sbjct: 95  SDEEKPFELPEGWEWVR--NGFLFTLRKGRIPKNLSENNIGLPYLDIEALDRGVVRRYTD 152

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
            +     +  +I+      ++           + GII S    +       +++  + + 
Sbjct: 153 DDKCPQSNESDILVVCDGSRSGLI-----LDGKVGIIGSTLSVIDTPVFIQSFVRLIFKQ 207

Query: 340 YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
               ++   M       L  + +    +  PP+ EQ  I   ++      D L  +   +
Sbjct: 208 -GYERLNATMKGAAIPHLDTQKLAFGVIGFPPLAEQHRIVAKVDKLMTLCDQLETQHNNA 266

Query: 400 IVLLKER 406
               ++ 
Sbjct: 267 AKAYEKL 273


>gi|86146743|ref|ZP_01065063.1| type I restriction-modification system, S subunit, EcoA family
           protein [Vibrio sp. MED222]
 gi|85835393|gb|EAQ53531.1| type I restriction-modification system, S subunit, EcoA family
           protein [Vibrio sp. MED222]
          Length = 417

 Score = 85.2 bits (209), Expect = 2e-14,   Method: Composition-based stats.
 Identities = 53/428 (12%), Positives = 126/428 (29%), Gaps = 55/428 (12%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
             W    +    +L  G      K I            G       +      + V I +
Sbjct: 3   SEWIQSELGDVIELKRGYDLPKTKRI-----------DGNVPVISSSGHSGFHNEVKIKS 51

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
            G ++ G+ G   +   I +     +T   V   K   P  +  +L ++      +    
Sbjct: 52  PG-VVTGRYGTIGQVFYIEEDFWPLNTTLYVKDFKGNDPLFIYYYLKTVSYKDYTDK--- 107

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
                        ++      L +    + K+      +D  IT   +  + L++  QAL
Sbjct: 108 ----GAVPGVNRNDLHRAKVLLPKCPKYQNKLAIHLRDLDRKITLNNQINQTLEQMAQAL 163

Query: 203 --------------VSYIVTKGLNPDVKMKDSG--------IEWVGLVPDHWEVKPFFAL 240
                         ++    KG++    +K+             +GL+P+ W       +
Sbjct: 164 FKSWFVDFDPVKAKMNGAQPKGMDAPFLLKEVASLFPEKLVESELGLIPEGWSQGVIADI 223

Query: 241 VT---ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID 297
                +   K  +  + + + L+           +           +I++ G+ +   + 
Sbjct: 224 AKLNAKSWTKKNQPEQVHYVDLANTKNGVIETVTSYDFSEAPSRARRILNSGDTIVGTVR 283

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD--LCKVFYAMGSGLRQ 355
             N   +       +    ++ +  + P     T   +L  + D  + +       G   
Sbjct: 284 PGNRSFAF-IGDTEQPLTGSTGFAVLSPKEECWTSFVYLATTNDDSIDEYARLADGGAYP 342

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL--LKERRSSFIAA 413
           ++K   V   P ++P          +      +        +  +    L + R + +  
Sbjct: 343 AIKPVVVADTPCVIPTKDVAQKFWQLTEAMLKK------AHQNRLENEVLAKLRDTLLPK 396

Query: 414 AVTGQIDL 421
            ++G+IDL
Sbjct: 397 LLSGEIDL 404



 Score = 42.5 bits (98), Expect = 0.13,   Method: Composition-based stats.
 Identities = 34/193 (17%), Positives = 60/193 (31%), Gaps = 7/193 (3%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESG--KDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           +G IP+ W    I    KLN    ++    + + Y+ L + ++G  + +     S     
Sbjct: 208 LGLIPEGWSQGVIADIAKLNAKSWTKKNQPEQVHYVDLANTKNGVIETVTSYDFSEAPS- 266

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIA---DFDGICSTQFLVLQPK-DVLPELLQGWLLSI 131
               I   G  + G + P  R        +     ST F VL PK +     +     + 
Sbjct: 267 RARRILNSGDTIVGTVRPGNRSFAFIGDTEQPLTGSTGFAVLSPKEECWTSFVYLATTND 326

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
           D       + +G          + + P  IP         +   A   +      E    
Sbjct: 327 DSIDEYARLADGGAYPAIKPVVVADTPCVIPTKDVAQKFWQLTEAMLKKAHQNRLENEVL 386

Query: 192 IELLKEKKQALVS 204
            +L       L+S
Sbjct: 387 AKLRDTLLPKLLS 399


>gi|315038270|ref|YP_004031838.1| specificity determinant HsdS [Lactobacillus amylovorus GRL 1112]
 gi|312276403|gb|ADQ59043.1| putative specificity determinant HsdS [Lactobacillus amylovorus GRL
           1112]
          Length = 402

 Score = 85.2 bits (209), Expect = 2e-14,   Method: Composition-based stats.
 Identities = 55/406 (13%), Positives = 139/406 (34%), Gaps = 38/406 (9%)

Query: 24  HWKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            W+   +       +G + E           I +       GKY+ +   +  ++ +   
Sbjct: 20  DWEQRKLDDTITHKSGTSIEKYFSSKGLYKVISIGS-YGSNGKYIDQGIRAAANEKTNSH 78

Query: 80  IFAKGQILYGKLGPYLRKAI------IADFDGICSTQ--FLVLQPKDVLPELLQGWLLSI 131
           +  KG++          K I        +   + + +   + L      P+    +L   
Sbjct: 79  LIKKGELSMVLNDKTGGKIIGRVLLIEKNNQYVVNQRSEIIKLSTSLWDPQFAFTYLNGP 138

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
              +++  I +G T ++ ++  +  +   +  + EQ    ++I     ++D +I  + R 
Sbjct: 139 -FRKKVLRIMQGGTQNYVNFSSVKKLTASLTSVKEQ----KEIGTLFQKLDNIIILQQRK 193

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           ++ L++ KQ L  +++    +    ++ +G E +      W+      +      ++   
Sbjct: 194 LKELQQVKQTLSQFLLNGNTHTRPTLRLNGFEDI------WKENKLKDIAKISMGQSPSS 247

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPE--SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
              N        I    +  N G++P   + E  ++ +  +I+        +        
Sbjct: 248 NNYNKKGNGKILIQGNADIDNGGIRPRVWTTEITKLANKNDILLTVRAPVGELAITNREV 307

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
           V+ RGI             +      L++                +S+   D+K+L V +
Sbjct: 308 VIGRGIAA--------IKGNKFIYNLLVQKNKEHFWDRISSGSTFKSISSNDIKQLKVYI 359

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           P  KE+  I +V+     +ID       + I ++ + +   +    
Sbjct: 360 PSEKEETLIASVLETIKNKID----FQNERINVINKLKKYLLTNLF 401



 Score = 71.4 bits (173), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 27/209 (12%), Positives = 66/209 (31%), Gaps = 11/209 (5%)

Query: 213 PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
           P ++ K    +W     D          + +            ++S+       K   + 
Sbjct: 10  PVLRFKGFTDDWEQRKLDDTITHKSGTSIEKYFSSKGLYK---VISIGSYGSNGKYIDQG 66

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG--IITS--AYMAVKPHGI 328
           +           ++  GE+     D    K   R   + +    ++      + +     
Sbjct: 67  IRAAANEKTNSHLIKKGELSMVLNDKTGGKIIGRVLLIEKNNQYVVNQRSEIIKLSTSLW 126

Query: 329 DSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
           D  +    +      KV   M  G +  + F  VK+L   +  +KEQ +I         +
Sbjct: 127 DPQFAFTYLNGPFRKKVLRIMQGGTQNYVNFSSVKKLTASLTSVKEQKEIG----TLFQK 182

Query: 389 IDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
           +D ++   ++ +  L++ + +     + G
Sbjct: 183 LDNIIILQQRKLKELQQVKQTLSQFLLNG 211


>gi|116871899|ref|YP_848680.1| type I restriction endonuclease S subunit [Listeria welshimeri
           serovar 6b str. SLCC5334]
 gi|116740777|emb|CAK19897.1| type I restriction endonuclease S subunit domain protein [Listeria
           welshimeri serovar 6b str. SLCC5334]
          Length = 402

 Score = 85.2 bits (209), Expect = 2e-14,   Method: Composition-based stats.
 Identities = 61/401 (15%), Positives = 133/401 (33%), Gaps = 35/401 (8%)

Query: 25  WKVVP-IKRFTKLNTGRTSESG------KDIIYIGLEDVESGTG--KYLPKDGNSRQSDT 75
           W+    +        G T ++        +I +I   D+           K        +
Sbjct: 20  WEQRKVLDYAIHTYGGGTPKTNVPEYWSGEIPWIQSSDLSISNLFNIIPKKHITELAIKS 79

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
           S         I         +      F+   S  FL       +      + + + + +
Sbjct: 80  SATKFIPANSIAIVSRVGVGKLV-FMPFEYTTSQDFL-SLSNLQVDSNFGVYSIYMMLQR 137

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            +  I   +         +           EQ  I         ++D  I    R +E L
Sbjct: 138 ELNNIQGTSIKGITKSDLLEKKINKPSSREEQQKIGSF----FKQLDNTIALHQRKLEAL 193

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
           K  K+ L+  +  K  +     K    ++ G     WE +    +  E + ++       
Sbjct: 194 KLMKKGLLQQMFPK--SEADIPKIRFADFDGK----WEQRKLGDVFNERSERSA--DGEL 245

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
           I       +I+  +             Y++V  G+I +  + +        S      GI
Sbjct: 246 ISVTINSGVIKASKLEKKDNSSFDKSNYKVVKKGDIAYNSMRMWQGASGYSSY----NGI 301

Query: 316 ITSAYMAVKP-HGIDSTYLAWLMRSYDLCKVFYAMGSGLR---QSLKFEDVKRLPVLVPP 371
           ++ AY  + P   I++ ++A++ +  D+ + F     GL     +LKF  + ++ + +P 
Sbjct: 302 LSPAYTVIYPIKNINAMFIAYIFKKNDMIQTFQRNSQGLTSDTWNLKFPSLSKIKIKIPT 361

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
            +EQ  ITN++     +++      +  I  LK+ + +++ 
Sbjct: 362 NEEQIKITNLL----RKLEYTSTFHQNKIERLKKLKKAYLQ 398



 Score = 67.9 bits (164), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 16/197 (8%), Positives = 54/197 (27%), Gaps = 6/197 (3%)

Query: 218 KDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKP 277
           +  G           +                +     I  +   ++        +  K 
Sbjct: 12  RFKGFSEAWEQRKVLDYAIHTYGGGTPKTNVPEYWSGEIPWIQSSDLSISNLFNIIPKKH 71

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
            +    +      I    I + +     +   +      +  ++++    +DS +  + +
Sbjct: 72  ITELAIKSSATKFIPANSIAIVSRVGVGKLVFMPFEYTTSQDFLSLSNLQVDSNFGVYSI 131

Query: 338 RSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP-IKEQFDITNVINVETARIDVLVEKI 396
               L +    +     + +   D+    +  P   +EQ  I +       ++D  +   
Sbjct: 132 YMM-LQRELNNIQGTSIKGITKSDLLEKKINKPSSREEQQKIGSF----FKQLDNTIALH 186

Query: 397 EQSIVLLKERRSSFIAA 413
           ++ +  LK  +   +  
Sbjct: 187 QRKLEALKLMKKGLLQQ 203



 Score = 66.7 bits (161), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 31/182 (17%), Positives = 67/182 (36%), Gaps = 7/182 (3%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+   +       + R+++   ++I + +        K   KD +    D S   +  KG
Sbjct: 224 WEQRKLGDVFNERSERSADG--ELISVTINSGVIKASKLEKKDNS--SFDKSNYKVVKKG 279

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL-SIDVTQRIEAICEG 143
            I Y  +  +   +  + ++GI S  + V+ P   +  +   ++    D+ Q  +   +G
Sbjct: 280 DIAYNSMRMWQGASGYSSYNGILSPAYTVIYPIKNINAMFIAYIFKKNDMIQTFQRNSQG 339

Query: 144 AT--MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            T    +  +  +  I + IP   EQ+ I   +            +  R  +L K   Q 
Sbjct: 340 LTSDTWNLKFPSLSKIKIKIPTNEEQIKITNLLRKLEYTSTFHQNKIERLKKLKKAYLQT 399

Query: 202 LV 203
           + 
Sbjct: 400 MF 401


>gi|56419916|ref|YP_147234.1| type I restriction-modification system specificity protein
           [Geobacillus kaustophilus HTA426]
 gi|56379758|dbj|BAD75666.1| type I restriction-modification system specificity protein
           [Geobacillus kaustophilus HTA426]
          Length = 391

 Score = 84.8 bits (208), Expect = 2e-14,   Method: Composition-based stats.
 Identities = 55/406 (13%), Positives = 132/406 (32%), Gaps = 34/406 (8%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
             W+ V +    +  TG+ + +         + VE G   +      + + D      F 
Sbjct: 2   SEWREVSLGEILEFKTGKLNSN---------QAVEGGKYPFFTCSPTTLRID---RYSFD 49

Query: 83  KGQILYGKLGPYL-RKAIIADFDGICSTQFLVLQPKDVLP-ELLQGWLLSIDVTQRIEAI 140
              +L                       +  V+ PKD    +L   +     + + +   
Sbjct: 50  TEAVLLAGNNANGIYAVKYYKGKFDAYQRTYVITPKDWETVDLRYMYYQIKLIGETLTQQ 109

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
             G          + +I + +PP++ Q  I   + +   +I+  +       E+     +
Sbjct: 110 SLGTATKFLTLSLLNSIKINLPPISIQRKIATILGSIDDKIELNLKMNQTLEEMAMTLYK 169

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
               + V  G   D +  +S    +G++P  W +     +V ++N +         L   
Sbjct: 170 ---HWFVDFGPFQDGEFVES---ELGMIPKGWSICELEEIVEKINERVKAGEHLFSLPYV 223

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVD--PGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
             +++ +      G K  S     +V    G+I+F  +     K  +     + R     
Sbjct: 224 PIDVLNQKSLMINGYKHGSEAKSSLVKFYKGDILFGAMRPYFHKVCIAPFDGITRTTC-- 281

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
             +  K +   +  +A + R   +                +E + ++ V++PP+      
Sbjct: 282 FVLRPKNNDYYAFVVATIFREETIDYANSHSKGSTIPYADWETLSKMKVILPPL------ 335

Query: 379 TNVINVETAR---IDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
              +     +   +  L+ +   +   L + R   +   ++G+ID+
Sbjct: 336 -QYLKEYNEKVVPLFKLMIQNFLNNEELVKTRDYLLPRLLSGEIDV 380



 Score = 62.9 bits (151), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 40/190 (21%), Positives = 74/190 (38%), Gaps = 5/190 (2%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGK--DIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           +G IPK W +  ++   +    R         + Y+ ++ +   +               
Sbjct: 188 LGMIPKGWSICELEEIVEKINERVKAGEHLFSLPYVPIDVLNQKSLMI--NGYKHGSEAK 245

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL-LSIDVT 134
           S++  F KG IL+G + PY  K  IA FDGI  T   VL+PK+              +  
Sbjct: 246 SSLVKFYKGDILFGAMRPYFHKVCIAPFDGITRTTCFVLRPKNNDYYAFVVATIFREETI 305

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
               +  +G+T+ +ADW+ +  + + +PPL       EK++     +          ++ 
Sbjct: 306 DYANSHSKGSTIPYADWETLSKMKVILPPLQYLKEYNEKVVPLFKLMIQNFLNNEELVKT 365

Query: 195 LKEKKQALVS 204
                  L+S
Sbjct: 366 RDYLLPRLLS 375


>gi|323340692|ref|ZP_08080944.1| type I site-specific deoxyribonuclease [Lactobacillus ruminis ATCC
           25644]
 gi|323091815|gb|EFZ34435.1| type I site-specific deoxyribonuclease [Lactobacillus ruminis ATCC
           25644]
          Length = 236

 Score = 84.8 bits (208), Expect = 2e-14,   Method: Composition-based stats.
 Identities = 33/170 (19%), Positives = 59/170 (34%), Gaps = 7/170 (4%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
            IP  WK V +       +G T         G ++ ++   D+  G    +P+       
Sbjct: 66  DIPDSWKWVRLGMCGSWGSGATPSRTHPEYYGGNVPWLKTGDLNDGIITEIPEFVTELAL 125

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
           + ++V +   G +L    G  + K  I + D   +       P   +      + L    
Sbjct: 126 EKTSVRLNPVGSVLMAMYGATIGKLGILNIDATTNQACCACIPYTGIYNKYLFYYLM-AH 184

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
            +    + EG    +   + I   P  +PPLAEQ  I EK+       + 
Sbjct: 185 RRSFIKMGEGGAQPNISKEKIVITPFALPPLAEQKRIVEKLEQLLPLCER 234



 Score = 76.8 bits (187), Expect = 7e-12,   Method: Composition-based stats.
 Identities = 24/182 (13%), Positives = 52/182 (28%), Gaps = 12/182 (6%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTE-----LNRKNTKLIESNILSLSYGNIIQKLETRNMG 274
           +  E    +PD W+        +       +R + +    N+  L  G++   + T    
Sbjct: 59  TDDEKNFDIPDSWKWVRLGMCGSWGSGATPSRTHPEYYGGNVPWLKTGDLNDGIITEIPE 118

Query: 275 LKPE---SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST 331
              E      + ++   G ++         K  + +           A  A  P+     
Sbjct: 119 FVTELALEKTSVRLNPVGSVLMAMYGATIGKLGILNID----ATTNQACCACIPYTGIYN 174

Query: 332 YLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
              +                G + ++  E +   P  +PP+ EQ  I   +       + 
Sbjct: 175 KYLFYYLMAHRRSFIKMGEGGAQPNISKEKIVITPFALPPLAEQKRIVEKLEQLLPLCER 234

Query: 392 LV 393
           L 
Sbjct: 235 LK 236


>gi|331654121|ref|ZP_08355121.1| HsdS specificity protein of type I restriction-modification system
           [Escherichia coli M718]
 gi|331047503|gb|EGI19580.1| HsdS specificity protein of type I restriction-modification system
           [Escherichia coli M718]
          Length = 201

 Score = 84.8 bits (208), Expect = 2e-14,   Method: Composition-based stats.
 Identities = 26/189 (13%), Positives = 60/189 (31%), Gaps = 10/189 (5%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIV 286
             P               +  N       I  +    I +      +  K     T ++V
Sbjct: 15  WFPKSIGNSCQTFSGGTPSSTNKTYYGGEIPFIRSAEIQKYKTELYLTKKGLENSTAKMV 74

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF 346
             G+++       +   SL        G I  A + ++    ++    +L+   +   + 
Sbjct: 75  KKGDVLVALYGANSGDVSLSKI----NGAINQAILCLRHESNNAFLYQYLIHKKEW--II 128

Query: 347 YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
                G + +L  E +K + +  P   EQ  I + + V   +ID       + I ++++ 
Sbjct: 129 TTFLQGGQGNLSGEIIKSIKIFFPQPVEQQKIADFLLVLDDKIDA----QTKKIDIIRKH 184

Query: 407 RSSFIAAAV 415
           +   +    
Sbjct: 185 KKGLMQQLF 193



 Score = 58.3 bits (139), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 30/185 (16%), Positives = 57/185 (30%), Gaps = 12/185 (6%)

Query: 25  WKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           W    I    +  +G T  S      G +I +I   +++             +  + ST 
Sbjct: 15  WFPKSIGNSCQTFSGGTPSSTNKTYYGGEIPFIRSAEIQKYK---TELYLTKKGLENSTA 71

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
            +  KG +L    G       ++  +G  +   L L            +   I   + I 
Sbjct: 72  KMVKKGDVLVALYGANSGDVSLSKINGAINQAILCL---RHESNNAFLYQYLIHKKEWII 128

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
                    +   + I +I +  P   EQ  I + ++    +ID    +     +  K  
Sbjct: 129 TTFLQGGQGNLSGEIIKSIKIFFPQPVEQQKIADFLLVLDDKIDAQTKKIDIIRKHKKGL 188

Query: 199 KQALV 203
            Q L 
Sbjct: 189 MQQLF 193


>gi|295692970|ref|YP_003601580.1| type i restriction-modification system, s subunit [Lactobacillus
           crispatus ST1]
 gi|295031076|emb|CBL50555.1| Type I restriction-modification system, S subunit [Lactobacillus
           crispatus ST1]
          Length = 230

 Score = 84.8 bits (208), Expect = 2e-14,   Method: Composition-based stats.
 Identities = 31/165 (18%), Positives = 52/165 (31%), Gaps = 6/165 (3%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
            IP  W+ V +        G T         G DI ++   D+  G  +   +       
Sbjct: 54  DIPNGWEWVRLGDIGAWAAGATPSRKHSEYYGGDIPWLKTGDLNDGIVEETSEKITELGV 113

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
             S+V I   G IL    G  + K  I     + + Q                +   +  
Sbjct: 114 KNSSVKINKPGNILIAMYGATIGKLGIVGKKELVTNQACCGCTPYKGIYNQYLFYYLLSS 173

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
            +R+  +  G    +   + I     P+PP +EQ  +  KI    
Sbjct: 174 RKRLINLGSGGAQPNISKQKIEKFAFPLPPQSEQSRVTAKIEQLL 218



 Score = 72.5 bits (176), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 24/175 (13%), Positives = 55/175 (31%), Gaps = 11/175 (6%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTE-----LNRKNTKLIESNILSLSYGNIIQKLETRNMG 274
           +  E    +P+ WE      +         +RK+++    +I  L  G++   +      
Sbjct: 47  TDDEKPFDIPNGWEWVRLGDIGAWAAGATPSRKHSEYYGGDIPWLKTGDLNDGIVEETSE 106

Query: 275 LKPE---SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST 331
              E      + +I  PG I+         K  +      +  +   A     P+     
Sbjct: 107 KITELGVKNSSVKINKPGNILIAMYGATIGKLGIVG---KKELVTNQACCGCTPYKGIYN 163

Query: 332 YLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
              +        ++      G + ++  + +++    +PP  EQ  +T  I    
Sbjct: 164 QYLFYYLLSSRKRLINLGSGGAQPNISKQKIEKFAFPLPPQSEQSRVTAKIEQLL 218


>gi|78189486|ref|YP_379824.1| restriction endonuclease S subunits-like [Chlorobium
           chlorochromatii CaD3]
 gi|78171685|gb|ABB28781.1| Restriction endonuclease S subunits-like protein [Chlorobium
           chlorochromatii CaD3]
          Length = 386

 Score = 84.8 bits (208), Expect = 2e-14,   Method: Composition-based stats.
 Identities = 50/398 (12%), Positives = 129/398 (32%), Gaps = 34/398 (8%)

Query: 30  IKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYG 89
           + +   + TG+  +      Y            Y     N    D   + +   G +   
Sbjct: 6   LGKLVDIKTGK-LDVNAGTEYGKYPFFTCAKTVY---RINQYAFDNEAILVAGNGDL--- 58

Query: 90  KLGPYLRKAIIADFDGICSTQFLVLQPKD-VLPELLQGWLLSIDVTQRIEAICEGATMSH 148
                               +  V++ K+  L  +   +         +     G  + +
Sbjct: 59  -------NVKYFKGKFNAYQRTYVIENKEVNLLSMKYLYYFMETYMIHLRNGAIGGIIKY 111

Query: 149 ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVT 208
                +    +P+PPL +Q  I   +     +++ LI +R + ++ L +  +++   +  
Sbjct: 112 IKIDHLTKAEIPLPPLDDQKRIAHLL----GKVERLIAQRKQHLQQLDQLLKSVFLEMFG 167

Query: 209 KGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKL 268
              +               +  H E+        +        +    ++          
Sbjct: 168 -FFDKTYTNWTIDT-----LTSHTEIVSGITKGKKYKTDELIEVPYMRVANVQDEHFVLD 221

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH-- 326
           E + + +     + Y+++    ++    D     R       +E  I  +    V+ +  
Sbjct: 222 EIKTISVTKNEIKQYRLLAGDLLLTEGGDPDKLGRGAVWQNQIENCIHQNHIFRVRVNDK 281

Query: 327 -GIDSTYLAWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
             I+  YL+ L+ S      F+     +    S+    +K+ P+++PPI+ Q     ++ 
Sbjct: 282 SRINPDYLSALIGSPYGKSYFFRSAKQTTGIASINSTQLKKFPIVIPPIELQNRFATIVE 341

Query: 384 VETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
               +++ +    +QS+  L+   ++    A  G++DL
Sbjct: 342 ----KVESIKTHYQQSLNNLETLYNALSQKAFKGELDL 375


>gi|149369906|ref|ZP_01889757.1| type I restriction-modification system specificity determinant
           protein [unidentified eubacterium SCB49]
 gi|149356397|gb|EDM44953.1| type I restriction-modification system specificity determinant
           protein [unidentified eubacterium SCB49]
          Length = 415

 Score = 84.8 bits (208), Expect = 2e-14,   Method: Composition-based stats.
 Identities = 51/407 (12%), Positives = 115/407 (28%), Gaps = 35/407 (8%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
            +K   ++  GR  +            +  G        G  R  D S   ++    IL 
Sbjct: 5   KLKDLLEIKNGRDYK-----------HLSEGDIPVYGSGGLMRYVDES---LYQGESILL 50

Query: 89  GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSH 148
            + G       + +      T +  +  K    +    +L        +E +  G  +  
Sbjct: 51  PRKGTLSNIQYVNESFWTVDTIYYSIIDK---SKTEPYYLYRYLTLLDLEHLNSGTGVPS 107

Query: 149 ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVT 208
             +    +IP+ +P L+ Q  I + +     +I+           + K            
Sbjct: 108 MTFGAYYDIPIKLPNLSTQKQIAKVLSDLDAKIEVNNNINQELEAMAKTLYDYWFVQFDF 167

Query: 209 KGLNPDVKMKDSGIEWVGL-----VPDHWEVKPFFALVTELNRKNTKLIE--SNILSLSY 261
             +N +      G           +P+ W    F  +   +        +  +       
Sbjct: 168 PDVNGNPYKSSGGAMVFNEALKREIPEGWGDGVFEDVANIIGGSTPSKADSANFTTEDGI 227

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGE-------IVFRFIDLQNDKRSLRSAQVMERG 314
             I  K  + N G K  +   Y + + G        +    + L +       A   E  
Sbjct: 228 PWITPKDLSNNKGKKYITRGEYDVTEQGIKKSSLKLMPSGTVLLSSRAPIGYLAIARETV 287

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKE 374
                + + +P    ++   +      +  +    G    + +    +K + ++ PP   
Sbjct: 288 TTNQGFKSFEPKSYFTSEFLYYQIKNKIPLIEARSGGSTFKEVSASTLKTIKIITPP--- 344

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
              +  +       I      +E+    L E R   +   + GQ+ +
Sbjct: 345 -EKVIKIYQTTAKPIFNKQNLLEKENQKLSELRDWLLPMLMNGQVTV 390



 Score = 56.7 bits (135), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 20/126 (15%), Positives = 37/126 (29%), Gaps = 13/126 (10%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSES--------GKDIIYIGLEDVESGTGKYL----PKD 67
            IP+ W     +    +  G T              I +I  +D+ +  GK        D
Sbjct: 191 EIPEGWGDGVFEDVANIIGGSTPSKADSANFTTEDGIPWITPKDLSNNKGKKYITRGEYD 250

Query: 68  GNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW 127
              +    S++ +   G +L     P      IA      +  F   +PK         +
Sbjct: 251 VTEQGIKKSSLKLMPSGTVLLSSRAPI-GYLAIARETVTTNQGFKSFEPKSYFTSEFLYY 309

Query: 128 LLSIDV 133
            +   +
Sbjct: 310 QIKNKI 315


>gi|254426284|ref|ZP_05040000.1| Type I restriction modification DNA specificity domain protein
           [Synechococcus sp. PCC 7335]
 gi|196187698|gb|EDX82664.1| Type I restriction modification DNA specificity domain protein
           [Synechococcus sp. PCC 7335]
          Length = 409

 Score = 84.8 bits (208), Expect = 2e-14,   Method: Composition-based stats.
 Identities = 53/417 (12%), Positives = 126/417 (30%), Gaps = 32/417 (7%)

Query: 21  IPKHWKVVPIKRFTK-----LNTG---RTSESG----KDIIYIGLEDVESGTGKYLPKDG 68
           +P  WK+V +          +  G    + +              ++      +      
Sbjct: 3   LPHDWKLVSLSEIASSEKGAIRRGPFGGSLKKSMFVESGFKVYEQQNAIRDDFQIGHYFI 62

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD--FDGICSTQFLVLQP--KDVLPELL 124
           N  +             ++    G   R AI+ D    G+ +   + ++P    +L   L
Sbjct: 63  NDEKYKEMEGFSVKPRDLIISCAGTIGRIAIVPDSAEPGVINQALMRIRPDTNVILVRYL 122

Query: 125 QGWLLSIDVTQRIEAICEGATMSHAD-WKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           +  L S    + I     G+ + +      I    +P+PP+ EQ  I   +         
Sbjct: 123 KWLLESPTYQRDIFGKSAGSALKNLAAIGEIKKCKIPLPPIKEQRRIAAILDKADAVRRK 182

Query: 184 LITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTE 243
                    +LL+      +  +       +   K S  +      + +   PF + +  
Sbjct: 183 RKEAIALTEDLLRSVFLDFMESV------SNDCRKVSFKDVTLESRNSFVNGPFGSNLLT 236

Query: 244 LNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKR 303
              ++  +    I  +  G +  ++    +  +         V PG+++   +       
Sbjct: 237 SELQSEGVPVIYIRDIREG-VYNRVSQAFVTKEKAKELAACNVFPGDVLIAKVGDPPGTA 295

Query: 304 SLRSAQVMERGIITSAYMAVKPHGID--STYLAWLMRSYDLCKVFY-AMGSGLRQSLKFE 360
           ++        GI+T   + ++    +    ++A  + S          +    R      
Sbjct: 296 AIYPLSSP-NGIVTQDVVRMRLDLENATPEFIAAYINSQIGKHTLKPIIVEATRSRFPLG 354

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
             K L V +PP+++Q       + +  +I  +   +  +         S +  A  G
Sbjct: 355 AFKNLVVTLPPLEDQQRF----SKQYKKIRHIQNFLHCTCEQENNLFHSLLQRAFRG 407


>gi|225022500|ref|ZP_03711692.1| hypothetical protein CORMATOL_02540 [Corynebacterium matruchotii
           ATCC 33806]
 gi|224944739|gb|EEG25948.1| hypothetical protein CORMATOL_02540 [Corynebacterium matruchotii
           ATCC 33806]
          Length = 383

 Score = 84.8 bits (208), Expect = 2e-14,   Method: Composition-based stats.
 Identities = 50/411 (12%), Positives = 107/411 (26%), Gaps = 47/411 (11%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
             W  V +    +    R  E    I  +   D    + +Y  K       D     +  
Sbjct: 2   SEWPTVKLGEVAEQTNHRVGELDVPIYSVTKYDGFVPSSEYFKKRVF--SMDIRKYKLCT 59

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
            G   Y  +        I+      S  +   +   +                  + +  
Sbjct: 60  AGDFAYATIHLDEGSIGISPVKCGISPMYTTFRLNSLNISPDYLLRYLKSSRALTQYLTL 119

Query: 143 G----ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
           G           +  +  + +P PPL EQ  I   +   T  I +               
Sbjct: 120 GSGSAERRKSIKFTDLRKMEIPFPPLGEQNRIVGILGKTTGAISS--------------- 164

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
                   V K +    K++ S +     +         +  +     +N          
Sbjct: 165 --------VQKQIEQAKKLRSSIVGMASKMAVELRAISEYFDINPRQPRNIPDNAPTSFV 216

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV-------- 310
                      +       E  + Y   + G+I+   I    +      A++        
Sbjct: 217 PMANLDETFGISPITSRFSEHKKGYTYFENGDILLAKITPCFENGKSAIAKLSTQIGHGS 276

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCK--VFYAMGSGLRQSLKFEDVKRLPVL 368
            E  ++       +   +    +A +++     K    +  GS  ++ +    +  L V 
Sbjct: 277 TEFHVLRHKNHMHQDVCLSPLLVAAILKQPSFLKPAENFMRGSAGQKRIPVSYIASLKVP 336

Query: 369 VPPIKEQFDITN--VINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
           V          +   I+     ++ L+    + + LL+E + S    A  G
Sbjct: 337 V------LKSVDLEKIDQSLEIVEALLNLYHRKLSLLQELQKSLATRAFAG 381


>gi|229089987|ref|ZP_04221239.1| hypothetical protein bcere0021_8230 [Bacillus cereus Rock3-42]
 gi|228693334|gb|EEL47043.1| hypothetical protein bcere0021_8230 [Bacillus cereus Rock3-42]
          Length = 385

 Score = 84.8 bits (208), Expect = 3e-14,   Method: Composition-based stats.
 Identities = 55/365 (15%), Positives = 112/365 (30%), Gaps = 22/365 (6%)

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD-----FDGICSTQFLVLQPK 117
            +PK+   + S+ +   I   GQ +YGKL    +   I       ++    +    +   
Sbjct: 26  VVPKNEIYQGSEATKYYIRKAGQFIYGKLDFLHQAFGIIPDKLDGYESTLDSPAFDIADN 85

Query: 118 DVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
                 L+          +               +    +P+ +P + EQ  I +     
Sbjct: 86  LNSSFFLEHVSRKQFYLYQGTIANGSRKAKRIHSETFFEMPLIVPTMEEQKKIGDF---- 141

Query: 178 TVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPF 237
             ++D  I    + +  LK+ KQ  +  +  K      +++  G            V   
Sbjct: 142 FKKVDQTIALHQQELTTLKQTKQGFLQKMFPKDGESVPEIRFPGFTGDWEEYKFENVLNK 201

Query: 238 FALVTELNRKNTKLIESN-----ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIV 292
              +      +    E              N I         +  E +   +     E  
Sbjct: 202 QDGIRRGPFGSALKKEFFVKDSNYAVYEQQNAIYDNYETRYNITKEKFTELKNFQLSEGD 261

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAV--KPHGIDSTYLAWLMRSYDLCKVFYAM- 349
           F         R  R  + +++G+   A +         D  Y    +RS ++ +      
Sbjct: 262 FILSGAGTIGRISRVPKGIKQGVFNQALIRFKIDEDITDPEYFIQWIRSENMQRKLTGAN 321

Query: 350 -GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
            GS +   +   +VK+  V+VP   EQ  I         ++D  +   +  +  LKE + 
Sbjct: 322 PGSAITNLVPMSEVKKWDVMVPSKNEQIKIGEF----FKQLDDTITLHQSELDALKETKK 377

Query: 409 SFIAA 413
           +F+  
Sbjct: 378 AFLQK 382


>gi|15900422|ref|NP_345026.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae TIGR4]
 gi|14971981|gb|AAK74666.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae TIGR4]
          Length = 522

 Score = 84.8 bits (208), Expect = 3e-14,   Method: Composition-based stats.
 Identities = 68/441 (15%), Positives = 132/441 (29%), Gaps = 71/441 (16%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNSR 71
            IP  W+ V      ++  G +    KD        I +I + D E G           +
Sbjct: 83  DIPDTWEWVRFSTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINNVKEKIK 142

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
           +S  +      KG  L      + R  I+     I      +   ++ L +    ++LS 
Sbjct: 143 KSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYLFYILSS 202

Query: 132 D-VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
           + V  +  ++  GA + + +   + +I +P+PPL+EQ  I E I +   ++D       R
Sbjct: 203 NVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLSEQQRIVEAIESALEKVDEYAESYNR 262

Query: 191 FIELLKEKK----QALVSYIVTKG--------------LNPDVKMKDSGIEW-------- 224
             +L KE      ++++ Y +                 L      K    E         
Sbjct: 263 LEQLDKEFPDKLKKSILQYAMQGKLVEQDPNDESVEVLLEKIRAEKQKLFEEGKIKKKDL 322

Query: 225 ------------------------VGLVPDHWEVKPFFALVTELNRKNTK-----LIESN 255
                                   +  +P+ W    F +LV     K           + 
Sbjct: 323 DISIVSQGDDNSYYGNKDETTSYPIYEIPEAWRYIKFASLVNFRIGKTPPRSEATFWGTE 382

Query: 256 ILSLSYGNIIQKLETRN----MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
           I  +S  ++       N    +       +   I   G ++  F         L      
Sbjct: 383 IPWVSISDMPISGYVTNARESISKLALKSKKIDISPKGTLLMSFKLSIGKVAILDIPATH 442

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
              II+  +       I   YL   +              G  ++L    +  L + +  
Sbjct: 443 NEAIIS-IFPYANKENIIRDYLMIFLPLISTLGDSKDAIKG--KTLNSTSISELLIPISN 499

Query: 372 IKEQFDITNVINVETARIDVL 392
            +E   I   +++   ++  L
Sbjct: 500 HEEMKRIIFKVDLLFQKVSQL 520



 Score = 80.6 bits (197), Expect = 5e-13,   Method: Composition-based stats.
 Identities = 43/210 (20%), Positives = 81/210 (38%), Gaps = 12/210 (5%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
            I+    +PD WE   F  LV  +   + + I+  + S   G    K+     G K  + 
Sbjct: 77  EIDVPYDIPDTWEWVRFSTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINN 136

Query: 281 ETYQIVDPG-----EIVFRFIDLQNDKRSLRSAQVMERGIITSAY--MAVKPHGIDSTYL 333
              +I   G      +      L N     R   +   G I   +  ++   + ++  YL
Sbjct: 137 VKEKIKKSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYL 196

Query: 334 AWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            +++ S  +   F ++ SG   ++L  + V  + + +PP+ EQ  I   I     ++D  
Sbjct: 197 FYILSSNVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLSEQQRIVEAIESALEKVDEY 256

Query: 393 VEKIEQSIVLLKE----RRSSFIAAAVTGQ 418
            E   +   L KE     + S +  A+ G+
Sbjct: 257 AESYNRLEQLDKEFPDKLKKSILQYAMQGK 286



 Score = 47.5 bits (111), Expect = 0.004,   Method: Composition-based stats.
 Identities = 19/119 (15%), Positives = 43/119 (36%), Gaps = 8/119 (6%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDV-ESGTGKYLPKDGNS 70
           I  IP+ W+ +          G+T    +      +I ++ + D+  SG      +  + 
Sbjct: 347 IYEIPEAWRYIKFASLVNFRIGKTPPRSEATFWGTEIPWVSISDMPISGYVTNARESISK 406

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
               +  + I  KG +L       + K  I D     +   + + P      +++ +L+
Sbjct: 407 LALKSKKIDISPKGTLLMS-FKLSIGKVAILDIPATHNEAIISIFPYANKENIIRDYLM 464


>gi|268318424|ref|YP_003292142.1| restriction modification system DNA specificity domain protein
           [Rhodothermus marinus DSM 4252]
 gi|262335958|gb|ACY49754.1| restriction modification system DNA specificity domain protein
           [Rhodothermus marinus DSM 4252]
          Length = 237

 Score = 84.8 bits (208), Expect = 3e-14,   Method: Composition-based stats.
 Identities = 22/201 (10%), Positives = 53/201 (26%), Gaps = 9/201 (4%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK-------PES 279
            +P  W       +       +         +       + +    + L         + 
Sbjct: 36  DLPYGWHWVRLEEIFEVQQGASMSPKRRAGRNPKPFLRTKNVLWGTVDLSLIDEMDFTDK 95

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
                 + PG+++                  +         +  K   ++  +  + M++
Sbjct: 96  EIEKLRLQPGDLLVCEGGDVGRTAIWEGQLPLVLYQNHIHRLRAKDAEVEPRFFMYWMQA 155

Query: 340 YD--LCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
                     A       +L    +K     +PP+ EQ  I   +     +I  L    E
Sbjct: 156 AYQVFLAYQGAESRTAIPNLSGRRLKNFNAPLPPLSEQRRIVAHLEAVQEKIRALKAAQE 215

Query: 398 QSIVLLKERRSSFIAAAVTGQ 418
           ++   LK    + +  A  G+
Sbjct: 216 ETDEELKRLEQAILDRAFRGE 236



 Score = 75.2 bits (183), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 33/202 (16%), Positives = 64/202 (31%), Gaps = 10/202 (4%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESG-----KDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
            +P  W  V ++   ++  G +             ++  ++V  GT      D       
Sbjct: 36  DLPYGWHWVRLEEIFEVQQGASMSPKRRAGRNPKPFLRTKNVLWGTVDLSLIDEMDFTDK 95

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPE---LLQGWLLSI 131
                    G +L  + G   R AI      +   Q  + + +    E       + +  
Sbjct: 96  EIEKLRLQPGDLLVCEGGDVGRTAIWEGQLPLVLYQNHIHRLRAKDAEVEPRFFMYWMQA 155

Query: 132 DVTQR--IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
                   +       + +   + + N   P+PPL+EQ  I   + A   +I  L   + 
Sbjct: 156 AYQVFLAYQGAESRTAIPNLSGRRLKNFNAPLPPLSEQRRIVAHLEAVQEKIRALKAAQE 215

Query: 190 RFIELLKEKKQALVSYIVTKGL 211
              E LK  +QA++       L
Sbjct: 216 ETDEELKRLEQAILDRAFRGEL 237


>gi|27365369|ref|NP_760897.1| Restriction endonuclease S subunit [Vibrio vulnificus CMCP6]
 gi|27361516|gb|AAO10424.1| Restriction endonuclease S subunit [Vibrio vulnificus CMCP6]
          Length = 560

 Score = 84.8 bits (208), Expect = 3e-14,   Method: Composition-based stats.
 Identities = 61/466 (13%), Positives = 124/466 (26%), Gaps = 100/466 (21%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           +P+ W+         L  G      K           + +G++L    N     T  +  
Sbjct: 101 LPEGWQACYFGDIYSLVYGDNLPKAK----------RTESGEFLVYGSNG-SVGTHNLFS 149

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
                ++ G+ G      +      +    + ++ P  +  +     L ++ +    + I
Sbjct: 150 VGSPCLVIGRKGSAGAINLSDQPCWVTDVAYSLIPPVGISLKYCFLHLQTLGLDSLGKGI 209

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR-------------------- 180
             G      +      + + IPP  EQ  I  K+                          
Sbjct: 210 KPG-----LNRNEANALVVCIPPSDEQHRIVAKVDELMALCDQLEQQTEASIEAHQLLVT 264

Query: 181 ---------------------IDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKD 219
                                I           E + + KQ ++   V   L P     +
Sbjct: 265 TLLDTLTNSADADELMQNWARISEHFDTLFSTEESIDQLKQTILQLAVMGKLVPQDPSDE 324

Query: 220 SGIEWV-------------------------------GLVPDHWEVKPFFALVTELNRKN 248
              E +                                 +P  WE      +       +
Sbjct: 325 PAAELLKRIADEKAQLVKDKKIKKQKALPPIAEDEKPFELPSGWEWCRIQDVALFTTSGS 384

Query: 249 ----TKLIESNILSLSYGNIIQK------LETRNMGLKPESYETYQIVDPGEIVFRFIDL 298
                   +S  L ++ GN+ +          R +        +   ++  +++      
Sbjct: 385 RDWAKYYSDSGALFVTMGNLSRGSYELRLDNLRFVRPPKGGEGSRTKLEARDLLISITGD 444

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLK 358
             +   L   +  E  I     +          Y    MRS      F A   G++ S +
Sbjct: 445 VGNL-GLIPEEFGEAYINQHTCLLRFMPECQGKYFPDFMRSPLAKYQFDAPQRGIKNSFR 503

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI-EQSIVLL 403
             DV  + + +PP+ EQ  IT  ++   +  + L  ++ E  I  L
Sbjct: 504 LSDVGEMHLPLPPLNEQVRITEKVSDLLSICERLKVRLRESQITQL 549



 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 26/198 (13%), Positives = 61/198 (30%), Gaps = 10/198 (5%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSE-----SGKDIIYIGLEDVESGTGKYLPKDGNSR--- 71
            +P  W+   I+      T  + +     S    +++ + ++  G+ +    +       
Sbjct: 363 ELPSGWEWCRIQDVALFTTSGSRDWAKYYSDSGALFVTMGNLSRGSYELRLDNLRFVRPP 422

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDG--ICSTQFLVLQPKDVLPELLQGWLL 129
           +    + +      +L    G      +I +  G    +    +L+             +
Sbjct: 423 KGGEGSRTKLEARDLLISITGDVGNLGLIPEEFGEAYINQHTCLLRFMPECQGKYFPDFM 482

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
              + +      +    +      +G + +P+PPL EQV I EK+       + L     
Sbjct: 483 RSPLAKYQFDAPQRGIKNSFRLSDVGEMHLPLPPLNEQVRITEKVSDLLSICERLKVRLR 542

Query: 190 RFIELLKEKKQALVSYIV 207
                      A+V   V
Sbjct: 543 ESQITQLHLTDAIVERAV 560


>gi|325107545|ref|YP_004268613.1| type I restriction system, specificity protein HsdS [Planctomyces
           brasiliensis DSM 5305]
 gi|324967813|gb|ADY58591.1| putative type I restriction system, specificity protein HsdS
           [Planctomyces brasiliensis DSM 5305]
          Length = 199

 Score = 84.5 bits (207), Expect = 3e-14,   Method: Composition-based stats.
 Identities = 35/158 (22%), Positives = 66/158 (41%), Gaps = 12/158 (7%)

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
           + +           S E + +V  G+I +  + +      +      E  +++ AY+ + 
Sbjct: 38  VPRDSLDRKMETNLSDEEHLLVRRGDIAYNMMRMWQGASGVAH----EDCLVSPAYVVLN 93

Query: 325 P-HGIDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDITN 380
           P   IDS + ++  +     K F     G+   R  L +ED   +P  VP  +EQ  I  
Sbjct: 94  PTELIDSRFASYFFKHPHTLKQFRDFSHGIAEDRLRLYYEDFSAIPTRVPDKEEQARIAR 153

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            I    +++D+L    +Q + LL +RR       +TG+
Sbjct: 154 FIEACDSQLDLL----KQKVELLGQRREGLSNRLLTGE 187



 Score = 48.3 bits (113), Expect = 0.002,   Method: Composition-based stats.
 Identities = 19/156 (12%), Positives = 45/156 (28%), Gaps = 6/156 (3%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           +HW    +    +  + +       +  + +        +                 +  
Sbjct: 4   EHWTPRLMGELFEKRSEQ---GIAGLPIMSVTIERGLVPRDSLDRKMETNLSDEEHLLVR 60

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV---TQRIEA 139
           +G I Y  +  +   + +A  D + S  ++VL P +++      +           R  +
Sbjct: 61  RGDIAYNMMRMWQGASGVAHEDCLVSPAYVVLNPTELIDSRFASYFFKHPHTLKQFRDFS 120

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKII 175
                      ++    IP  +P   EQ  I   I 
Sbjct: 121 HGIAEDRLRLYYEDFSAIPTRVPDKEEQARIARFIE 156


>gi|153805909|ref|ZP_01958577.1| hypothetical protein BACCAC_00149 [Bacteroides caccae ATCC 43185]
 gi|149130586|gb|EDM21792.1| hypothetical protein BACCAC_00149 [Bacteroides caccae ATCC 43185]
          Length = 361

 Score = 84.5 bits (207), Expect = 3e-14,   Method: Composition-based stats.
 Identities = 44/364 (12%), Positives = 105/364 (28%), Gaps = 31/364 (8%)

Query: 30  IKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           +K F  ++TG T           D  ++  ED+++             ++  +T  I   
Sbjct: 18  LKSFADVSTGGTPSKANLEYWNGDKPWVSAEDMKNKY--VYDTCEKVTEAGYATCKIIPV 75

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
             ++Y   G       I   +   +      +  D +  +   +   +     I+ +  G
Sbjct: 76  DTLMYVCRGSI-GVMAINKIECATNQSICRAKCHDNVCNVEFLYHALMYQKDNIKKMGTG 134

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
            +    +      + + +PP  EQ+                   +   +   +       
Sbjct: 135 TSFKSLNQTSFSELKIELPPYNEQMKFVSIAQQADKSEFVGCKSQFIEMFGNQNTNDKGW 194

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
           +  + K      + K S    +G  P     + +     +            I  +S   
Sbjct: 195 TESLVK-----DEFKLS----MGKTPARNNPECWDNGTHKWVS---------ISDMSSYT 236

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
                 +  +     +    + V  G I+  F                   I+  A+   
Sbjct: 237 RYTGDTSEYITDYAIADSGIKAVPKGTIIMSFKLSIGRTAITSEDLYTNEAIM--AFAGF 294

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
                +  +L +L+ + +          G  Q+L  E +    +++PPI+ Q +  ++ N
Sbjct: 295 DEKKFNIDFLHFLIANKNWLLGAKQAVKG--QTLNKESIGNAKIIIPPIEAQEEFASIYN 352

Query: 384 VETA 387
               
Sbjct: 353 QADK 356



 Score = 37.1 bits (84), Expect = 5.5,   Method: Composition-based stats.
 Identities = 25/166 (15%), Positives = 46/166 (27%), Gaps = 10/166 (6%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDI-------IYIGLEDVESGTGK--YLPKDGNSRQS 73
           K W    +K   KL+ G+T               ++ + D+ S T       +       
Sbjct: 192 KGWTESLVKDEFKLSMGKTPARNNPECWDNGTHKWVSISDMSSYTRYTGDTSEYITDYAI 251

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
             S +    KG I+       + +  I   D   +   +     D     +      I  
Sbjct: 252 ADSGIKAVPKGTIIMS-FKLSIGRTAITSEDLYTNEAIMAFAGFDEKKFNIDFLHFLIAN 310

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
              +    +       + + IGN  + IPP+  Q            
Sbjct: 311 KNWLLGAKQAVKGQTLNKESIGNAKIIIPPIEAQEEFASIYNQADK 356


>gi|327390241|gb|EGE88584.1| type I restriction modification DNA specificity domain protein
           [Streptococcus pneumoniae GA04375]
          Length = 348

 Score = 84.5 bits (207), Expect = 3e-14,   Method: Composition-based stats.
 Identities = 57/368 (15%), Positives = 112/368 (30%), Gaps = 48/368 (13%)

Query: 26  KVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           K V +    ++ +G   +S +       +  I + DVE G            +       
Sbjct: 2   KKVKLGEVCEILSGYAFKSSQFNDNKIGLPLIRIRDVERGFSD------TYFEGTYPEEY 55

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           +   G +L    G ++ K        + + +   ++  D   +      L     + IE 
Sbjct: 56  LIKNGDLLITMDGSFILK-KWEGDLALLNQRVCKIKITDKSVDEGYISWLIPKFLKEIED 114

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
                T+ H     I +I   +P   EQ LI +K+      I  +   R    E   E  
Sbjct: 115 KTPFVTVKHLSVAKIKDISFVLPNKLEQKLIAKKLN----TISQIYDFRKIQSEKFNELV 170

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
           ++  + +    +  + + K S                +  ++T  N KN K +E      
Sbjct: 171 KSRFNEMFGDVILNEKEWKVS---------------KWNEILTIRNGKNQKQVEDADGKF 215

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
                               Y    IV    ++       N    +R             
Sbjct: 216 PIYGSGG----------IMGYAKDWIVKKNSVIIGRKGNINKPILVRENFWNVDTAFG-- 263

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
            +      I+S YL +  + Y+  K+  A+      SL   D+  + + +PP+  Q +  
Sbjct: 264 -LEPVLEKINSEYLFYFCQLYNFEKLNKAV---TIPSLTKSDLLNISIPLPPLALQNEFA 319

Query: 380 NVINVETA 387
           + +     
Sbjct: 320 DFVVQVDK 327



 Score = 49.0 bits (115), Expect = 0.001,   Method: Composition-based stats.
 Identities = 27/151 (17%), Positives = 52/151 (34%), Gaps = 15/151 (9%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           K WKV        +  G+  +            VE   GK+ P  G+      +   I  
Sbjct: 186 KEWKVSKWNEILTIRNGKNQKQ-----------VEDADGKF-PIYGSGGIMGYAKDWIVK 233

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           K  ++ G+ G   +  ++ +      T F +    + +      +   +      E + +
Sbjct: 234 KNSVIIGRKGNINKPILVRENFWNVDTAFGLEPVLEKINSEYLFYFCQLY---NFEKLNK 290

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
             T+       + NI +P+PPLA Q    + 
Sbjct: 291 AVTIPSLTKSDLLNISIPLPPLALQNEFADF 321



 Score = 44.0 bits (102), Expect = 0.040,   Method: Composition-based stats.
 Identities = 16/137 (11%), Positives = 38/137 (27%), Gaps = 6/137 (4%)

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
            +      +Y    ++  G+++            +      +  ++      +K      
Sbjct: 42  FSDTYFEGTYPEEYLIKNGDLLITMDGS-----FILKKWEGDLALLNQRVCKIKITDKSV 96

Query: 331 TYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
                        K           + L    +K +  ++P   EQ  I   +N  +   
Sbjct: 97  DEGYISWLIPKFLKEIEDKTPFVTVKHLSVAKIKDISFVLPNKLEQKLIAKKLNTISQIY 156

Query: 390 DVLVEKIEQSIVLLKER 406
           D    + E+   L+K R
Sbjct: 157 DFRKIQSEKFNELVKSR 173


>gi|293400127|ref|ZP_06644273.1| type I restriction-modification system [Erysipelotrichaceae
           bacterium 5_2_54FAA]
 gi|291306527|gb|EFE47770.1| type I restriction-modification system [Erysipelotrichaceae
           bacterium 5_2_54FAA]
          Length = 345

 Score = 84.5 bits (207), Expect = 3e-14,   Method: Composition-based stats.
 Identities = 48/361 (13%), Positives = 104/361 (28%), Gaps = 27/361 (7%)

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD-----FDGICSTQFLVLQPKD 118
              +      D S   +   G+  Y K                   G  ST ++    K 
Sbjct: 2   SYFNKTVASKDMSGYYLLKNGEFAYNKSYSVGYDFGSIKRLDRYPMGALSTLYICFVLKR 61

Query: 119 VLPELLQGWLLS-IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
              + ++ +  S     +      EGA                   L E    + KI   
Sbjct: 62  HESDFIKAYFDSLKWYREIYMISAEGARNHGLLNVPTEEFFDTKHYLPENTDEQRKIANF 121

Query: 178 TVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPF 237
            + ID  I  +   ++ LK+ K+ L++ + +                 G +     +   
Sbjct: 122 LIAIDKKIAAQQSLVDNLKKYKRGLLNKVFSN--------------INGNIYPTVYLSEV 167

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQK-LETRNMGLKPESYETYQIVDPGEIVFRFI 296
              +  L    + +  +  L L   NI    L   +     +  +    V   +++    
Sbjct: 168 ADFLQGLTYSPSDVSVAGYLVLRSSNIQNGVLSFDDCVYVDKKVDESLQVKCDDVIMCVR 227

Query: 297 DLQNDKRSLRSAQVMERGIIT--SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR 354
           +         +       + T  +  M ++    D+    +L       +VF  MG+   
Sbjct: 228 NGSKKLVGKTALIPNNMAMTTWGAFMMIIRSKLNDTYIFHYLNSQMFFSQVFKDMGTATI 287

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAA 414
             +    +    + +PP   +  I    +   +  DV ++  E  +  L E + + +   
Sbjct: 288 NQITKGILNECKLPLPPETARKQI----SKMLSSFDVKIQNAEICLTTLVELKKALLQQL 343

Query: 415 V 415
            
Sbjct: 344 F 344



 Score = 66.4 bits (160), Expect = 8e-09,   Method: Composition-based stats.
 Identities = 22/155 (14%), Positives = 51/155 (32%), Gaps = 11/155 (7%)

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK-RSLRSAQVMERGIITSAYMAVKPHG 327
              N  +  +    Y ++  GE  +           S++       G +++ Y+      
Sbjct: 2   SYFNKTVASKDMSGYYLLKNGEFAYNKSYSVGYDFGSIKRLDRYPMGALSTLYICFVLKR 61

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGS-GLRQ----SLKFEDVKRLPVLVP-PIKEQFDITNV 381
            +S ++     S    +  Y + + G R     ++  E+       +P    EQ  I N 
Sbjct: 62  HESDFIKAYFDSLKWYREIYMISAEGARNHGLLNVPTEEFFDTKHYLPENTDEQRKIANF 121

Query: 382 INVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           +      ID  +   +  +  LK+ +   +    +
Sbjct: 122 LIA----IDKKIAAQQSLVDNLKKYKRGLLNKVFS 152


>gi|13786606|ref|NP_112723.1| hypothetical protein pCD4_p4 [Plasmid pCD4]
 gi|13676629|gb|AAK38201.1|AF306799_4 HsdS [Plasmid pCD4]
          Length = 394

 Score = 84.5 bits (207), Expect = 3e-14,   Method: Composition-based stats.
 Identities = 56/409 (13%), Positives = 133/409 (32%), Gaps = 47/409 (11%)

Query: 20  AIPK--------HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSR 71
            +P+         W+    K   K +  R+    +       E ++ G            
Sbjct: 15  KVPELRFPGFTDDWEERKAKEMIKTHHFRSYL-AEPNDVGNYEVIQQGDKPIAGYANGEP 73

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
                 V++F  G        P     I  D   I S             E    +    
Sbjct: 74  FEYFYDVTLF--GDHTVSLFKPTKPFFIATDGVKIISA-----------DEFDGRYFYVT 120

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
               +  +       +    + I         +        KI     ++D  I    R 
Sbjct: 121 LERYKPASQGYKRHFTILKNEDIWFTTNKDEQV--------KIGTFFKQLDDTIALHQRK 172

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           ++LLKE+K+  +  +  K      +++ +G        D WE +    +   +   + ++
Sbjct: 173 LDLLKEQKKGYLQKMFPKNGAKVPELRFAG------FADDWEQRKLKDVTERVRSNDGRM 226

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ-V 310
               +   +    + + +  +  +  +  + Y ++  GE+ +   + +  K  +  +   
Sbjct: 227 DLPTLTMSASSGWLDQKDRFSGDISGKEKKNYTLLKKGELSYNHGNSKLAKYGVVFSLTN 286

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDL--CKVFYAMGSGLRQ----SLKFEDVKR 364
            E  ++   Y + K     S      M S  L   ++   + SG R     ++ ++D   
Sbjct: 287 YEEALVPRVYHSFKALENTSADFIEYMFSTKLPDRELGKLVSSGARMDGLLNINYDDFMN 346

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           + + +P  +EQ     +++    ++D  +   ++ + LLKE++  F+  
Sbjct: 347 IHISIPNYEEQI----LMSTFFRKLDDTIALHQRKLDLLKEQKKGFLQK 391


>gi|265982955|ref|ZP_06095690.1| LOW QUALITY PROTEIN: restriction endonuclease S [Brucella sp.
           83/13]
 gi|264661547|gb|EEZ31808.1| LOW QUALITY PROTEIN: restriction endonuclease S [Brucella sp.
           83/13]
          Length = 345

 Score = 84.5 bits (207), Expect = 3e-14,   Method: Composition-based stats.
 Identities = 51/346 (14%), Positives = 102/346 (29%), Gaps = 46/346 (13%)

Query: 88  YGKLGPYLRKAIIADFDG---ICSTQFLVLQPKDV--LPELLQGWLLSIDVTQRIEAICE 142
           +    P  ++  +   +    + ST + VL+ K    LP+ +  WL +      +E    
Sbjct: 16  FATTRPTQQRYCLIGDEYSGEVASTGYCVLRAKKDKVLPKWILHWLATTTFKTYVEENQS 75

Query: 143 GATMSHADWKGIGNIPMPIPP-------LAEQVLIREKIIAETVRIDTLITERIRFIELL 195
           G+         +    +P+P        LA Q      + A T              +LL
Sbjct: 76  GSAYPAISDAKVREFEIPVPCPDNPEKSLAIQAEFVRILDAFTELTARKKQYNYYREQLL 135

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEW--VGLVPDHWEVKPFFALVTELNRKNTKLIE 253
           +                      D  +EW  +G V +                       
Sbjct: 136 R--------------------FDDGEVEWKALGEVAELVRGNGLQKKDFTETGVPAIHYG 175

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
                                + PE     + VD G++V        +        + ER
Sbjct: 176 QIYTCYGLST-----TETKSYVSPELARRLRKVDRGDVVITNTSENIEDVGKALVYLGER 230

Query: 314 GIITSAY--MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS-LKFEDVKRLPVLVP 370
             +T  +  +    + +   Y A+  ++            G +   +   D+ ++ + VP
Sbjct: 231 QAVTGGHATILKPGNCLLGKYFAYFTQTDTFASDKRRYAKGTKVIDVSATDMAKILIPVP 290

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           P+ EQ  I  +++   A    + E +   I L K+     R   ++
Sbjct: 291 PLAEQAHIVTILDKFDALTHSISEGLPHEISLRKQQYTHYRDRLLS 336



 Score = 54.0 bits (128), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 23/202 (11%), Positives = 60/202 (29%), Gaps = 15/202 (7%)

Query: 19  GAIPKHWKVVPIKRFTKLNTG----RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           G +    +   +    +L  G    +   +   +  I    + +  G    +  +    +
Sbjct: 140 GEV----EWKALGEVAELVRGNGLQKKDFTETGVPAIHYGQIYTCYGLSTTETKSYVSPE 195

Query: 75  T-STVSIFAKGQILYGKLGPYLRKAI-----IADFDGICSTQFLVLQPKDVLPELLQGWL 128
               +    +G ++       +         + +   +      +L+P + L      + 
Sbjct: 196 LARRLRKVDRGDVVITNTSENIEDVGKALVYLGERQAVTGGHATILKPGNCLLGKYFAYF 255

Query: 129 LSID-VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
              D          +G  +       +  I +P+PPLAEQ  I   +        ++   
Sbjct: 256 TQTDTFASDKRRYAKGTKVIDVSATDMAKILIPVPPLAEQAHIVTILDKFDALTHSISEG 315

Query: 188 RIRFIELLKEKKQALVSYIVTK 209
               I L K++       +++ 
Sbjct: 316 LPHEISLRKQQYTHYRDRLLSF 337


>gi|189462165|ref|ZP_03010950.1| hypothetical protein BACCOP_02847 [Bacteroides coprocola DSM 17136]
 gi|189431138|gb|EDV00123.1| hypothetical protein BACCOP_02847 [Bacteroides coprocola DSM 17136]
          Length = 462

 Score = 84.5 bits (207), Expect = 3e-14,   Method: Composition-based stats.
 Identities = 48/382 (12%), Positives = 125/382 (32%), Gaps = 29/382 (7%)

Query: 45  GKDIIYIGLEDVESGTGKYLPKDG----NSRQSDTSTVSIFAKGQILYGKLGPYLRKAII 100
              I Y    D+ +   ++ P          +      S   KG IL   +G  +    +
Sbjct: 70  NDGIPYYRGGDIYNSFIEFSPNPLRIPRYVYELSIMRRSHLKKGDILMSIVGAIIGNISL 129

Query: 101 --ADFDGICSTQFLVLQPKDVLPELLQ-GWLLSIDVTQRIEAICEGATMSHADWKGIGNI 157
              + +  CS +  +++PK+ +       +L      Q+I+    G+  +    +    +
Sbjct: 130 VSTNNNATCSCKLAIIRPKNNISSEYLATYLRCKYGQQQIQKFRRGSGQTGIILEDFDQL 189

Query: 158 PMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKM 217
            +P      +  I   +                    L E    +  +           +
Sbjct: 190 LVPDLSNNIKEQISSFVKQSYAYSLKSRQLYSEAESYLLE-CLGMTDFAANPDAYNVKTL 248

Query: 218 KDSGIEWVGLV-----PDHWEVKPFFALVTELNR--KNTKLIESNILSLSYGNIIQKLET 270
           K+S ++          P + +        +       +   I+    +   G   + +E 
Sbjct: 249 KESFLDTGRFDAEYYLPKYEDYCRLVQSYSNGYELLGDACNIKDANYTPETGVRYKYIEL 308

Query: 271 RNMGLKPESY------------ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
            N+G   E                 ++V  G+++   I+   +  +L +    E  + ++
Sbjct: 309 ANIGKSGEIIGCDIQNGENLPTRARRMVHQGDVIVSSIEGSLESCALVTED-YEGALCST 367

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFD 377
            +  ++   ++S  L  L +S  + ++     SG    ++   ++++LP+ +   + Q +
Sbjct: 368 GFYVLQSSKMNSETLLTLFKSLPIQQLMKKGCSGTILTAISKPELEKLPIPIIRQEVQDE 427

Query: 378 ITNVINVETARIDVLVEKIEQS 399
           I   +    A     ++ +E +
Sbjct: 428 IAQHVRKSFALRKEAMKLLENA 449


>gi|308178070|ref|YP_003917476.1| type I restriction-modification system specificity subunit
           [Arthrobacter arilaitensis Re117]
 gi|307745533|emb|CBT76505.1| type I restriction-modification system specificity subunit
           [Arthrobacter arilaitensis Re117]
          Length = 417

 Score = 84.5 bits (207), Expect = 3e-14,   Method: Composition-based stats.
 Identities = 19/147 (12%), Positives = 49/147 (33%), Gaps = 7/147 (4%)

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA--WLMRS 339
           +   +  G+++F           +    +        A +           L   W +RS
Sbjct: 64  SRSQLADGDVLFSIAGALGRSTVVEPDWLPANTNQALAIIRPSRKRGLVRPLYLLWALRS 123

Query: 340 YDL-CKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
             +  ++        + +L  + V    + +P + EQ  I   ++   A +  L   + +
Sbjct: 124 PTVGKRINEINVQAAQANLSLQQVGEFEIPIPNLAEQEAIAAALDDVDALVKSLKRIVAK 183

Query: 399 SIVLLKERRSSFIAAAVTGQIDLRGES 425
            + +    +   +   +TG+  L G +
Sbjct: 184 KLDV----KQGMMQELLTGRTRLPGFT 206



 Score = 83.3 bits (204), Expect = 6e-14,   Method: Composition-based stats.
 Identities = 69/423 (16%), Positives = 142/423 (33%), Gaps = 37/423 (8%)

Query: 27  VVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS--TV 78
           V  +     +  G T  S         + ++ +E  E      + K+    +      + 
Sbjct: 8   VRALSEL--ITKGTTPTSIGRNFTANGVRFLKVETFEEDGTYVVGKEAFIDEETHRQLSR 65

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFD--GICSTQFLVLQPKDVL----PELLQGWLLSID 132
           S  A G +L+   G   R  ++         +    +++P        P  L   L S  
Sbjct: 66  SQLADGDVLFSIAGALGRSTVVEPDWLPANTNQALAIIRPSRKRGLVRPLYLLWALRSPT 125

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           V +RI  I   A  ++   + +G   +PIP LAEQ  I   +      + +L     + +
Sbjct: 126 VGKRINEINVQAAQANLSLQQVGEFEIPIPNLAEQEAIAAALDDVDALVKSLKRIVAKKL 185

Query: 193 ELLKEKKQALVS-YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           ++ +   Q L++      G   D +    G        DH       AL  E   + + L
Sbjct: 186 DVKQGMMQELLTGRTRLPGFTGDWRNVTLG--------DHVAYVRSVALSREQLDQGSPL 237

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESY--ETYQIVDPGEIVFRFI--DLQNDKRSLRS 307
              +   +     ++   T     +  S+       + PG++VF     D     +S+  
Sbjct: 238 RYLHYGDIHTRKSVRLDATSEFMPRAASHLASGAGRLIPGDLVFADASEDPDGVGKSVEI 297

Query: 308 AQVMERGIIT--SAYMAVKPHGIDSTYLAWLMRS-YDLCKVFYAMGSGLRQ-SLKFEDVK 363
           + V   G++       A     + +      ++           + +G +  +     + 
Sbjct: 298 SDVPPEGVVPGLHTIAARFDKSVLADGFKAYIQFIPAFRAALLRLAAGTKVLATTRSYIS 357

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
            L + +P   EQ  I  V+    A I+ L    E+ +   +  +   +   +TG+  L  
Sbjct: 358 SLKLPLPGADEQHAIAQVLEDADAEIEAL----ERRLESARAVKVGMMQELLTGRTRLPT 413

Query: 424 ESQ 426
           + +
Sbjct: 414 KEE 416


>gi|312115847|ref|YP_004013443.1| restriction modification system DNA specificity domain protein
           [Rhodomicrobium vannielii ATCC 17100]
 gi|311220976|gb|ADP72344.1| restriction modification system DNA specificity domain protein
           [Rhodomicrobium vannielii ATCC 17100]
          Length = 367

 Score = 84.5 bits (207), Expect = 3e-14,   Method: Composition-based stats.
 Identities = 55/398 (13%), Positives = 124/398 (31%), Gaps = 39/398 (9%)

Query: 24  HWKVVPIKRFTKLNTGRTSES-GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            W+V P+  F +L +G+  ++   +I   G+  + +G   +   +    +          
Sbjct: 4   GWEVRPLGDFIELISGQHIDAVDYNIDGHGVGYI-TGPSDFGRDEPLISKWTEKPKRFAD 62

Query: 83  KGQILYGKLGPYLRKAI-IADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            G IL    G  + K   +       S Q + ++ K +  + L   L +        ++ 
Sbjct: 63  PGDILLTVKGSGVGKINRLRRGRVAISRQIMAVRAKGIDADFLHLLLGAHG--AHFASLA 120

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            GA +     + + N+ +P+PP+ EQ  I   +      +          +   ++  + 
Sbjct: 121 NGAAIPGISREHVTNLQIPLPPMDEQTRIVAILDEAFAGLSRARANAEANLADARKLLEV 180

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
            ++  +  G                   +    +          +  +K+   + LS   
Sbjct: 181 TIAERLKSG-------------------NGDWQQCLVENSYRRTKIPSKVQCKDYLSEGR 221

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
             I+ +      G   +  +    V+   +VF         R L+              +
Sbjct: 222 YPIVSQEADFISGYWEDDAD-LVRVERPIVVFGD-----HTRHLKYIDFDFVVGADGTQL 275

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-PIKEQFDITN 380
                 I+  +  + +RS  L       G G  +      +K+  +  P  +  Q  I +
Sbjct: 276 LAPISQIEPKFYYYALRSIPL------AGKGYARHFS--HLKKETIWFPADLASQRAIAD 327

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            +      I  L          +   R S +  A +G+
Sbjct: 328 TLEEIEVHIADLARAYIAQSGSINSLRQSLLQKAFSGE 365


>gi|330957221|gb|EGH57481.1| type I restriction-modification system specificity determinant
           [Pseudomonas syringae pv. maculicola str. ES4326]
          Length = 399

 Score = 84.5 bits (207), Expect = 3e-14,   Method: Composition-based stats.
 Identities = 43/408 (10%), Positives = 112/408 (27%), Gaps = 57/408 (13%)

Query: 26  KVVPIKRFTKLNTG----RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT-STVSI 80
           +   +    +L  G    +   + K +  I    + +  G    K  +   SD    +  
Sbjct: 17  EWQALSELGELVRGSGLQKKDFTEKGVPAIHYGQIYTYYGLSTSKTKSFVSSDLARQLRK 76

Query: 81  FAKGQILYGKLGPYLRKAI-----IADFDGICSTQFLVLQPKDVLPELLQGWLLS-IDVT 134
             +G ++        +        + +   +      +L+P   L      +     +  
Sbjct: 77  VNQGDVVITNTSENFKDVGKALVYLGEQQAVTGGHATILRPGSCLLGKYFAYFTQTSEFF 136

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPP-------LAEQVLIREKIIAETVRIDTLITE 187
                  +G  +       +  I +PIP        L  Q  I   + A T     L TE
Sbjct: 137 AEKRKYAKGIKVIDVSATDMAKIRIPIPCPDNPKKSLEIQSEIVRMLDAFTELTAGLTTE 196

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK 247
               + + +++     + +++         +   +EW  L      +      V      
Sbjct: 197 LTTELSIREKQYNYYCNQLLS--------FEKQEVEWKTLENITTSIASGRNKVRATEGA 248

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
                 + ++  +                              ++   +          +
Sbjct: 249 VPVYGSTGVIGFTSEAAYSG---------------------NVLLVARVGAN---AGRVN 284

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
           A      +  +  +       +  +    +   +L +       G +  +    +K L V
Sbjct: 285 AVAGNFDVSDNTLIVRPNEAWNVRFAFHQLTHMNLNQY---AVGGGQPLVTGGLLKSLKV 341

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFI 411
            +PP+ EQ  I  +++      + + E + +   L ++     R   +
Sbjct: 342 QLPPLSEQERIATILDKFDTLTNSISEGLPRETALRQKQYQYYRDLLL 389


>gi|328947120|ref|YP_004364457.1| restriction modification system DNA specificity domain protein
           [Treponema succinifaciens DSM 2489]
 gi|328447444|gb|AEB13160.1| restriction modification system DNA specificity domain protein
           [Treponema succinifaciens DSM 2489]
          Length = 384

 Score = 84.5 bits (207), Expect = 3e-14,   Method: Composition-based stats.
 Identities = 44/406 (10%), Positives = 113/406 (27%), Gaps = 37/406 (9%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K + +K+     TG+ + +  +             G Y     +      +  +   +  
Sbjct: 4   KYIKLKKIATYPTGKLNSNAAE-----------KDGIYPFFTCSHDIYRINNYAYDGEYV 52

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT-QRIEAICEGA 144
           +L G            +       +  ++QP D      +    SI +  + +++   G 
Sbjct: 53  LLGGNNATGDFPIFYYNGKFNAYQRTYLIQPIDTNQFDTRYLFYSIGLKLKLMQSNAAGT 112

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
                    + NI +   PL  Q  I   + A    I     +         E    L  
Sbjct: 113 ATRFLTQPILDNINIEYRPLPTQQKIASILSAYDDLIQNYKKQIEALQTAASE----LYK 168

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL------- 257
               +   P  +           +P+ W +         +  K     +           
Sbjct: 169 EWFVRFRFPGWQNAKFE----NGIPEGWSICRLKDFGKVITGKTPPTEKEEYYGGDVMFV 224

Query: 258 --SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
                +GN+  +  +  +      Y+  Q +    I+   I        + +        
Sbjct: 225 KTPDMHGNMFVQSTSEYLSKLGCEYQKAQYLPENSIMVSCIGT----GGITAINAYPANT 280

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
                  +        +L + + +       +        +L     ++L V+ P     
Sbjct: 281 NQQINSIILKDKKYLPWLYFTISNMKETIEMFGNTGTTMTNLSKGKFEKLKVVKPEHS-- 338

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
             I      + + +   ++ + + I  L ++R   +   ++G++++
Sbjct: 339 --IIQTFENKVSPLFEQIKNLNKQITNLTQQRDLLLPRLMSGKLEV 382



 Score = 61.7 bits (148), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 28/191 (14%), Positives = 59/191 (30%), Gaps = 8/191 (4%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIY------IGLEDVESG-TGKYLPKDGNSRQS 73
           IP+ W +  +K F K+ TG+T  + K+  Y      +   D+      +   +  +    
Sbjct: 188 IPEGWSICRLKDFGKVITGKTPPTEKEEYYGGDVMFVKTPDMHGNMFVQSTSEYLSKLGC 247

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
           +        +  I+   +G       I  +    + Q   +  KD        + +S   
Sbjct: 248 EYQKAQYLPENSIMVSCIG-TGGITAINAYPANTNQQINSIILKDKKYLPWLYFTISNMK 306

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
                    G TM++        + +  P  +       K+     +I  L  +     +
Sbjct: 307 ETIEMFGNTGTTMTNLSKGKFEKLKVVKPEHSIIQTFENKVSPLFEQIKNLNKQITNLTQ 366

Query: 194 LLKEKKQALVS 204
                   L+S
Sbjct: 367 QRDLLLPRLMS 377


>gi|170724867|ref|YP_001758893.1| restriction modification system DNA specificity subunit [Shewanella
           woodyi ATCC 51908]
 gi|169810214|gb|ACA84798.1| restriction modification system DNA specificity domain [Shewanella
           woodyi ATCC 51908]
          Length = 612

 Score = 84.5 bits (207), Expect = 3e-14,   Method: Composition-based stats.
 Identities = 31/200 (15%), Positives = 72/200 (36%), Gaps = 5/200 (2%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
           S  E    +P  WE      +  +L +K     E   + +   N           LK   
Sbjct: 115 SEDEKPFELPKGWEWTRLQDIGHDLGQKTPD-CEFTYIDVGAINKELGFVEEPSILKASD 173

Query: 280 YETY--QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH-GIDSTYLAWL 336
             +   ++V    +++  +       ++    +    I ++A+  + P  G++S+Y+   
Sbjct: 174 APSRARKLVKRNTVIYSTVRPYLLNIAVIGNDLSPEPIASTAFAIIHPLLGMNSSYIYRY 233

Query: 337 MRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
           +RS        ++ +G+   ++  +      + +PP +EQ  I   ++      D L  +
Sbjct: 234 LRSPCFINYVESVQTGIAYPAINDKQFFNGIIAIPPTEEQHRIVAKVDELMILCDALEAQ 293

Query: 396 IEQSIVLLKERRSSFIAAAV 415
            E S    +      + A +
Sbjct: 294 TEASKSAHQTLVEILLGALL 313



 Score = 80.2 bits (196), Expect = 5e-13,   Method: Composition-based stats.
 Identities = 37/194 (19%), Positives = 73/194 (37%), Gaps = 12/194 (6%)

Query: 220 SGIEWVGLVPDHWEVKPFFAL---VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK 276
           +  E    +P+ WE   F  +   +T+      K IE  I  LS  ++            
Sbjct: 409 TDEEKPFELPNGWEWARFVDIAYLITDGAHHTPKYIEHGIPFLSVKDMSDGKLNFGDTRF 468

Query: 277 PESYETYQIVD-----PGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST 331
               +   ++       G+++   I        L +        ++ A +    + ID  
Sbjct: 469 ISEEQHKDLIKRCNPQKGDLLLTKIGTTG-VPVLINTDKEFSIFVSVALIKFSTNEIDGN 527

Query: 332 YLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
           +L+ L++S  + K       G+  ++L  + +   P+L PP+ EQ  I   ++   A  D
Sbjct: 528 FLSLLVKSPLVKKQSQEGTQGVGNKNLVLKTISNFPLLFPPLNEQHRIVAKVDELMALCD 587

Query: 391 VLVEKIE--QSIVL 402
            L  ++   Q+I L
Sbjct: 588 QLKARLSDAQTIQL 601



 Score = 72.5 bits (176), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 37/197 (18%), Positives = 65/197 (32%), Gaps = 9/197 (4%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQ--S 73
            +P  W+         L T     + K     I ++ ++D+  G   +      S +   
Sbjct: 416 ELPNGWEWARFVDIAYLITDGAHHTPKYIEHGIPFLSVKDMSDGKLNFGDTRFISEEQHK 475

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIA---DFDGICSTQFLVLQPKDVLPELLQGWLLS 130
           D        KG +L  K+G      +I    +F    S   +     ++    L   + S
Sbjct: 476 DLIKRCNPQKGDLLLTKIGTTGVPVLINTDKEFSIFVSVALIKFSTNEIDGNFLSLLVKS 535

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
             V ++ +   +G    +   K I N P+  PPL EQ  I  K+       D L      
Sbjct: 536 PLVKKQSQEGTQGVGNKNLVLKTISNFPLLFPPLNEQHRIVAKVDELMALCDQLKARLSD 595

Query: 191 FIELLKEKKQALVSYIV 207
              +      A+V   +
Sbjct: 596 AQTIQLHLTDAIVEQAI 612



 Score = 66.0 bits (159), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 34/191 (17%), Positives = 70/191 (36%), Gaps = 10/191 (5%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD--TST 77
            +PK W+   ++        +T     +  YI +  + +    ++ +    + SD  +  
Sbjct: 122 ELPKGWEWTRLQDIGHDLGQKTP--DCEFTYIDVGAI-NKELGFVEEPSILKASDAPSRA 178

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDG----ICSTQFLVLQP-KDVLPELLQGWLLSID 132
             +  +  ++Y  + PYL    +   D     I ST F ++ P   +    +  +L S  
Sbjct: 179 RKLVKRNTVIYSTVRPYLLNIAVIGNDLSPEPIASTAFAIIHPLLGMNSSYIYRYLRSPC 238

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
               +E++  G      + K   N  + IPP  EQ  I  K+    +  D L  +     
Sbjct: 239 FINYVESVQTGIAYPAINDKQFFNGIIAIPPTEEQHRIVAKVDELMILCDALEAQTEASK 298

Query: 193 ELLKEKKQALV 203
              +   + L+
Sbjct: 299 SAHQTLVEILL 309


>gi|317502424|ref|ZP_07960588.1| type I site-specific deoxyribonuclease [Lachnospiraceae bacterium
           8_1_57FAA]
 gi|316896162|gb|EFV18269.1| type I site-specific deoxyribonuclease [Lachnospiraceae bacterium
           8_1_57FAA]
          Length = 359

 Score = 84.5 bits (207), Expect = 3e-14,   Method: Composition-based stats.
 Identities = 44/358 (12%), Positives = 117/358 (32%), Gaps = 20/358 (5%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
           VP+ +F K  + R  +  +DI    + + +    +Y  K+      D +T  I  +G   
Sbjct: 6   VPLGKFIKEYSERN-KGNEDIPVYSVTNSQGFCTEYFGKE--VASQDKTTYKIVPQGYFA 62

Query: 88  YGKLGPYLRKAII--ADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV-TQRIEAICEGA 144
           Y      +        +   I S  + V    + +      + L  D+  Q I+A   G+
Sbjct: 63  YNPSRINVGSVDWQRYEKRVIVSPLYNVFSVSEGIDRQYLYYFLRSDLGRQMIKAKASGS 122

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
              +     +  + +P   + +Q      +     ++  LI  R + ++ L E  +A   
Sbjct: 123 VRDNLKLDMLKEMTIPDISVEQQKFCSSVLD----KLHKLIQMRQQELQKLDEFIKARFV 178

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
            +    ++    + ++ +  +G              +  L  K   +   ++      N 
Sbjct: 179 ELFGDPVSNSYGLPEATLPDLGEFGRGVSKHRPRNDIKLLGGKYPLIQTGDV-----ANA 233

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
              + + +        +  ++ D G +              ++A +        + +   
Sbjct: 234 GLYITSYSSTYSELGLKQSKMWDKGTLCI-----TIAANIAKTAILEFDACFPDSVVGFI 288

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
            +   +        S+    +        ++++  + +  L V+VP  ++Q    + +
Sbjct: 289 ANERTNNIFVHYWFSFFQAILESQAPESAQKNINLKILSELKVIVPEKRKQDQFASFV 346



 Score = 57.1 bits (136), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 36/173 (20%), Positives = 70/173 (40%), Gaps = 11/173 (6%)

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRF 295
           P    + E + +N    +  + S++        E     +  +   TY+IV  G   +  
Sbjct: 7   PLGKFIKEYSERNKGNEDIPVYSVTNSQGFC-TEYFGKEVASQDKTTYKIVPQGYFAYNP 65

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAV-KPHGIDSTYLAWLMRSYDLCKVFYAMGSG-L 353
             +     S+   +  +R I++  Y       GID  YL + +RS    ++  A  SG +
Sbjct: 66  SRIN--VGSVDWQRYEKRVIVSPLYNVFSVSEGIDRQYLYYFLRSDLGRQMIKAKASGSV 123

Query: 354 RQSLKFEDVKRLPVLVPPIK-EQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
           R +LK + +K + +  P I  EQ       +    ++  L++  +Q +  L E
Sbjct: 124 RDNLKLDMLKEMTI--PDISVEQQK---FCSSVLDKLHKLIQMRQQELQKLDE 171


>gi|206890601|ref|YP_002249484.1| restriction endonuclease S subunit [Thermodesulfovibrio
           yellowstonii DSM 11347]
 gi|206742539|gb|ACI21596.1| restriction endonuclease S subunit [Thermodesulfovibrio
           yellowstonii DSM 11347]
          Length = 404

 Score = 84.5 bits (207), Expect = 3e-14,   Method: Composition-based stats.
 Identities = 53/368 (14%), Positives = 106/368 (28%), Gaps = 32/368 (8%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           +P  W    +    ++   +      D     +        + +P  G + Q       I
Sbjct: 20  LPNGWVWTRLGEVVEILDNKRIPVNTDEREKRISG--KSPSELIPYYGATGQVGWIDDYI 77

Query: 81  FAKGQILYGKLG-----PYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
           F +  +L G+ G     P   KA I       +    VL+  + +               
Sbjct: 78  FDEELVLLGEDGAPFFEPTKNKAYIIRGKSWVNNHAHVLRGINGVILNSFICHYLNIFDY 137

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
                  G T    +   +  IP+P+PPL EQ  I  KI     R++  +    +    +
Sbjct: 138 H--GYVTGTTRLKLNQSSMQQIPIPLPPLNEQKRIVAKIEELFTRLEAGVEALKKVKAQI 195

Query: 196 KEKKQALVSYIVTKGLN---PDVKMKDSGI-------------EWVGLVPDHWEVKPFFA 239
           +  +QA++ Y     L         + SG                +  +P+ W       
Sbjct: 196 RRYRQAVLKYAFEGKLTNSSSCHSEQRSGEGISEIVTQPSVANNDLPELPEGWRWVKLGE 255

Query: 240 LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQ 299
               +  ++      N + +       K E   +   P     +            I L 
Sbjct: 256 AAEIIMGQSPPSKTYNTVRIGLPFYQGKAEFGLIYPIP---SKWCSKPKKIAEKNDILLS 312

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLK 358
                  +    E   I     A++  G+      +L    ++ +    +G+G    ++ 
Sbjct: 313 IRAPVGPTNICFETSCIGRGLAAIRFGGLYKFLFYYL---RNVEREISKIGTGSTFSAIS 369

Query: 359 FEDVKRLP 366
              +  L 
Sbjct: 370 KSQISNLK 377



 Score = 75.6 bits (184), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 22/190 (11%), Positives = 61/190 (32%), Gaps = 30/190 (15%)

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
            +    G +++ L+ + + +  +  E          +  +         +      E  +
Sbjct: 24  WVWTRLGEVVEILDNKRIPVNTDEREKRISGKSPSELIPYYGATGQVGWIDDYIFDEELV 83

Query: 316 I-------------TSAYMAVKPHGIDST--------------YLAWLMRSYDLCKVFYA 348
           +               AY+      +++               ++   +  +D       
Sbjct: 84  LLGEDGAPFFEPTKNKAYIIRGKSWVNNHAHVLRGINGVILNSFICHYLNIFDYHGYV-- 141

Query: 349 MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
                R  L    ++++P+ +PP+ EQ  I   I     R++  VE +++    ++  R 
Sbjct: 142 -TGTTRLKLNQSSMQQIPIPLPPLNEQKRIVAKIEELFTRLEAGVEALKKVKAQIRRYRQ 200

Query: 409 SFIAAAVTGQ 418
           + +  A  G+
Sbjct: 201 AVLKYAFEGK 210



 Score = 59.0 bits (141), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 14/90 (15%), Positives = 30/90 (33%), Gaps = 2/90 (2%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLE-DVESGTGKYLPKDGNSRQSDTS 76
           +  +P+ W+ V +    ++  G++  S K    + +      G  ++        +  + 
Sbjct: 241 LPELPEGWRWVKLGEAAEIIMGQSPPS-KTYNTVRIGLPFYQGKAEFGLIYPIPSKWCSK 299

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGI 106
              I  K  IL     P     I  +   I
Sbjct: 300 PKKIAEKNDILLSIRAPVGPTNICFETSCI 329


>gi|308190008|ref|YP_003922939.1| type I site-specific deoxyribonuclease [Mycoplasma fermentans JER]
 gi|307624750|gb|ADN69055.1| type I site-specific deoxyribonuclease [Mycoplasma fermentans JER]
          Length = 392

 Score = 84.5 bits (207), Expect = 3e-14,   Method: Composition-based stats.
 Identities = 48/402 (11%), Positives = 114/402 (28%), Gaps = 38/402 (9%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           P  ++   +K  TK+  G          +   ++              +     +   + 
Sbjct: 13  PDGYEWKDLKDITKIYVGGDLPKKS---FSETKNENFNVKILTNGSFGNNIKGYTDSYVV 69

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
               I     G         +        + +++   + P       +   +     +  
Sbjct: 70  PGNSITISARGTIGYCEYQNE------PFYPIIRLLAIHPTWHNSKFIYYFLKNLNISPS 123

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
             + +     K I NI +P+ PL  Q  I E +                 +E   ++   
Sbjct: 124 SKSGIPQLTRKHIENIKIPLIPLKIQEKIVEILERF--------RILEAELEARGKQFDF 175

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
            ++ ++        K     ++ +G        K   + V    R         I  L  
Sbjct: 176 WINKLLNFSN--FNKNNSKELQSIGCFISGLRSKNKDSFVDGNQR--------YISYLDV 225

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER------GI 315
            N  +     N  +K    E    ++ G+++F       D+    S   ++         
Sbjct: 226 FNNKEINHLPNNFVKIFDDENQNNLNYGDVIFCGSSENFDETGYASVYTIKSDEKVYLNS 285

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKE 374
            +  +           +  +     D   +     +G  R +L  E + ++ + +PP+K 
Sbjct: 286 FSFIFRFKDNELFLPKFSKYFFNCKDFRDLLLKCINGVTRFNLSKEKMSKIKIPIPPLKT 345

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVL----LKERRSSFIA 412
           Q  I ++++  +     +   +   I L     K  R   + 
Sbjct: 346 QNKIVSILDKLSEYSQEINSGLPAEIELRSKQFKYYRDQLLN 387


>gi|153807717|ref|ZP_01960385.1| hypothetical protein BACCAC_01999 [Bacteroides caccae ATCC 43185]
 gi|149129326|gb|EDM20540.1| hypothetical protein BACCAC_01999 [Bacteroides caccae ATCC 43185]
          Length = 383

 Score = 84.5 bits (207), Expect = 3e-14,   Method: Composition-based stats.
 Identities = 48/387 (12%), Positives = 120/387 (31%), Gaps = 44/387 (11%)

Query: 30  IKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           +K F  ++TG T           D  ++  ED+++             ++  +T  I   
Sbjct: 18  LKSFADVSTGGTPSKANLEYWNGDKPWVSAEDMKNKY--VYDTCEKVTEAGYATCKIIPV 75

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
             ++Y   G       I   +   +      +  D +  +   +   +     I+ +  G
Sbjct: 76  DTLMYVCRGSI-GVMAINKIECATNQSICRAKCHDNVCNVEFLYHALMYQKDNIKKMGTG 134

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
            +    +      + + +PP  EQ+                        +  K K     
Sbjct: 135 TSFKSLNQTSFSELKIELPPYNEQMKFVSI-----------------AQQADKSKFGDFK 177

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
           S  +    NP    + + ++ +G             +      K + +    +    Y  
Sbjct: 178 SQFIEMFGNPLSLNQKNELKRLGEC--CILNPRRPNIALCDTDKVSFIPMPAVSEDGYLV 235

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFID--LQNDKRSLRSAQVMERGIITSAYM 321
            +   E   +       + +   +  +++F  I   ++N K ++        G+ ++ + 
Sbjct: 236 DMTDEEYGKVK------KGFTYFENNDVLFAKITPCMENGKGAIVHGLTNGIGMGSTEFH 289

Query: 322 AVKPHG--IDSTYLAWLMRSYDLCKV--FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFD 377
            ++P        +L  L R     +       G+G ++ +    +    V +P ++EQ  
Sbjct: 290 VLRPINGISSPYWLLALTRMPIFRERAAKNMSGTGGQKRVSASYLDHFMVGLPAMEEQRR 349

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLK 404
                     + D     I++++V L 
Sbjct: 350 F----EAIYRQADKSESVIQKALVYLN 372


>gi|331266255|ref|YP_004325885.1| type I restriction-modification system S subunit, putative
           [Streptococcus oralis Uo5]
 gi|326682927|emb|CBZ00544.1| type I restriction-modification system S subunit, putative
           [Streptococcus oralis Uo5]
          Length = 358

 Score = 84.5 bits (207), Expect = 3e-14,   Method: Composition-based stats.
 Identities = 41/396 (10%), Positives = 112/396 (28%), Gaps = 49/396 (12%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
            +    K    +T  + + +              Y     N      S  +   K  +  
Sbjct: 2   KLIDVCKPKQWKTISTNELV-----------KDGYPVFGANGIIGYFSDYNH-EKPTLCI 49

Query: 89  GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSH 148
              G        +       T   +         ++  +L      +    +  G+    
Sbjct: 50  TCRGATCGTVNKSLPYSYV-TGNSMALDDLDESVIMIDFLYYFLQYRGFNDVITGSAQPQ 108

Query: 149 ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVT 208
              + +  I +P   +  Q  I + I      I     +  +  +L+             
Sbjct: 109 ITRQSLSKIIIPDFDITIQKEIAQTIYDLEHLILIRNKQIEKLADLV------------- 155

Query: 209 KGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN----ILSLSYGNI 264
                    K    E  G + ++ +             K  +L+  N     + ++  + 
Sbjct: 156 ---------KSRFNEMFGDIFENPQS-KLEDHTELNPNKREELLNFNGDVSFIPMANVSE 205

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI---ITSAYM 321
             K+         +  + +      +++   I    +         +  GI    T  ++
Sbjct: 206 NGKINLSINRNIDDVRKGFTFFKDNDVIVAKITPCFENGKGAPLFGLLNGIGFGSTEFHV 265

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKV--FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
               + +++ +L  +    +  +       GSG ++ +  + +    + +PP+  Q +  
Sbjct: 266 LRPKNTVNTVWLYHVTMLSEFRREGERKMTGSGGQRRIPKDFISNFKLNIPPLSLQNEFA 325

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
             +    A++D     I++S+  L+  + S +    
Sbjct: 326 EFV----AQVDKSQLAIQKSLEELETLKKSLMQEYF 357


>gi|298292637|ref|YP_003694576.1| Restriction endonuclease S subunits-like protein [Starkeya novella
           DSM 506]
 gi|296929148|gb|ADH89957.1| Restriction endonuclease S subunits-like protein [Starkeya novella
           DSM 506]
          Length = 506

 Score = 84.5 bits (207), Expect = 3e-14,   Method: Composition-based stats.
 Identities = 57/453 (12%), Positives = 125/453 (27%), Gaps = 56/453 (12%)

Query: 16  QWIGAIPKHWKVVPIKRFTKLN---TGRTSESGKDIIYIGLEDVESG--TGKYLPKDGNS 70
            W   +P+ W  VP+K  +       G T      +  +  + +       ++L      
Sbjct: 16  PW--ELPEGWAWVPLKMLSNFIGRGRGPTYVEAGGVPVVNQKCIRWHRLEPRHLKLTSRD 73

Query: 71  RQSDTSTVSIFAKGQILYGKLGP-YLRKAIIADFDG---ICSTQFLVLQPKDVLPELLQG 126
                        G +L+   G   + +A+I D         +   +++P  + P  L  
Sbjct: 74  AFDRLPPELYIRAGDLLWNSTGTGTIGRALIYDGSIAELTVDSHVTIVRPSSIDPAYLGH 133

Query: 127 WLLSIDVTQ-RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
           ++ +  V    ++               +  + +P+ PLAEQ  I  +I      I    
Sbjct: 134 FVETSRVQHLVVDGHVGSTNQQELPRSFVEELIVPLAPLAEQRRIVARIDGLFAEIAEGE 193

Query: 186 TERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEW--------------------- 224
                    L   ++A++   VT  L  D + ++   E                      
Sbjct: 194 AALEEARRGLDTFRRAVLKAAVTGELTKDWRERNPVAETGHDLVARMRGSMSKNKRLRTA 253

Query: 225 ------VGLVPDHWEVK--------PFFALVTELNRKNTKLIESNILSLSYGNIIQKLET 270
                 +  +PD W                    +     +     ++    + +   + 
Sbjct: 254 WTPRTDLPELPDTWAWCAVHEAGDVQLGRQRAPQHHTGAHMRPYLRVANVLEDRLDLSDV 313

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
           + M   PE +ET+  +  G+++       +        +    G      +         
Sbjct: 314 KLMNFTPEEFETFA-LKAGDVLLNEGQAPDLLGRPAMYRGEIEGCCFQKTLLRFRASELV 372

Query: 331 TY------LAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
                       M S    +   +  +     L       +   +PP  E   I   ++ 
Sbjct: 373 DENFALLVFRHYMHSGRFKR--ESRITTNIGHLTQVRFVEMEFPIPPPAEVAVILRRVSE 430

Query: 385 ETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
             A     +  ++         + S + AA  G
Sbjct: 431 ALAASADTLAMLDAEAADAARLKQSILKAAFEG 463



 Score = 69.8 bits (169), Expect = 7e-10,   Method: Composition-based stats.
 Identities = 43/213 (20%), Positives = 82/213 (38%), Gaps = 10/213 (4%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKN-TKLIESNILSLSYGNIIQKLETRNMGLKPESYE 281
           +    +P+ W   P   L   + R      +E+  + +     I+        LK  S +
Sbjct: 14  DEPWELPEGWAWVPLKMLSNFIGRGRGPTYVEAGGVPVVNQKCIRWHRLEPRHLKLTSRD 73

Query: 282 TYQIVDP------GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
            +  + P      G++++         R+L     +    + S    V+P  ID  YL  
Sbjct: 74  AFDRLPPELYIRAGDLLWNSTGTGTIGRALIYDGSIAELTVDSHVTIVRPSSIDPAYLGH 133

Query: 336 LMRSYDLCKVFYA--MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
            + +  +  +     +GS  +Q L    V+ L V + P+ EQ  I   I+   A I    
Sbjct: 134 FVETSRVQHLVVDGHVGSTNQQELPRSFVEELIVPLAPLAEQRRIVARIDGLFAEIAEGE 193

Query: 394 EKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
             +E++   L   R + + AAVTG++  +   +
Sbjct: 194 AALEEARRGLDTFRRAVLKAAVTGELT-KDWRE 225


>gi|262371155|ref|ZP_06064476.1| restriction modification system DNA specificity subunit
           [Acinetobacter johnsonii SH046]
 gi|262313885|gb|EEY94931.1| restriction modification system DNA specificity subunit
           [Acinetobacter johnsonii SH046]
          Length = 369

 Score = 84.5 bits (207), Expect = 3e-14,   Method: Composition-based stats.
 Identities = 50/395 (12%), Positives = 107/395 (27%), Gaps = 42/395 (10%)

Query: 30  IKRFTKLNTGRTSESGKD------IIYIGLEDVESG-TGKYLPKDGNSRQSDTSTVSIFA 82
           +        G T     +      I +  ++D+  G T     +  +      S  ++  
Sbjct: 8   LGELVDFKGGGTPSRNVEEYWDNSIPWATVKDLNEGITLTQTQEFISELGLKNSASNLIT 67

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           KG I+        +  I      I      V        ++           + I ++ +
Sbjct: 68  KGTIIIPTRMALGKVVISEIDVAINQDLKAVSVKDKEKLDVKYLLRFLESYKENIASMGK 127

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           GAT+       +  I +P+PPLA Q  I   +               +  +LL+      
Sbjct: 128 GATVKGITLDQLKAIKVPLPPLAAQRRIASILDQADELRQKRQQAIEKLDQLLQAT---- 183

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
               +    +P    K    + +G V   +      +   E N        S        
Sbjct: 184 ---FIDMFGDPVSNSKKWTEKTLGEV-VVFNTGKLDSNAAEENGIYPFFTCSRTPFAINT 239

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
                                      E +    +    +  ++  +        +  + 
Sbjct: 240 YAFDI----------------------EALLLAGNNAAGQYWVKHYKGKFNAYQRTYVLT 277

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
           +K       YL ++++         + GS  +  L    +K + + +PP+  Q       
Sbjct: 278 IKDSLCTYGYLRYVLQFLLGFLQRMSKGSSTKY-LTLSILKPIKIPIPPLDLQRKFIQFY 336

Query: 383 NVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
               ++  +L+      I   K    +    A  G
Sbjct: 337 ENIDSQNQLLM---RNEIEFSK-LFFTLQNQAFNG 367


>gi|313887160|ref|ZP_07820856.1| type I restriction modification DNA specificity domain protein
           [Porphyromonas asaccharolytica PR426713P-I]
 gi|312923389|gb|EFR34202.1| type I restriction modification DNA specificity domain protein
           [Porphyromonas asaccharolytica PR426713P-I]
          Length = 382

 Score = 84.1 bits (206), Expect = 4e-14,   Method: Composition-based stats.
 Identities = 56/387 (14%), Positives = 118/387 (30%), Gaps = 27/387 (6%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
             +  + +    R  ++  D +        +    ++    N+  +D S   I    Q  
Sbjct: 7   KRLGDYIQPVDIRNKDNAVDKLV-----GLTIDKAFIDSVANTIGTDLSKYKIIEAEQFA 61

Query: 88  -----YGKLGPYLRKAIIADFDGICSTQFL---VLQPKDVLPELLQGWLLSIDVTQRIEA 139
                  + G             I S  +    V+   ++LP  L  W    +  +    
Sbjct: 62  CSLMQVSRDGKMPIAMYAGGEKAILSPAYSMFEVIDKSELLPSYLMMWFRRSEFDREASF 121

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
              G       W    +  +PIP + EQ  I      +   I   I    R    L+E  
Sbjct: 122 YAVGGVRGSLLWDDFLDFRLPIPDIEEQQEIVA----QYEAITRRIALNERICANLEETA 177

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
           QAL + +  +G++PD       +  +    +    K   +   E        +     + 
Sbjct: 178 QALYNKMFVQGIDPDNLPDGWRMGAIEEFGEVVTGKTPSSRYPEHFGD---YMPFVTPAE 234

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
             G    +   R + ++       +++  G+++   I     K ++   +V+    I S 
Sbjct: 235 FQGEKFIRTAERKLSIEGVKALEKKVIREGDVMVTCIGSDMGKAAISDTEVVTNQQINS- 293

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
                     S YL + ++      +    GS     L     + + V  PP        
Sbjct: 294 --IRTYDNTFSEYLYYTLKGMKEILMGLGSGSSTMPLLSKRSFEVVEVPYPPTDL----I 347

Query: 380 NVINVETARIDVLVEKIEQSIVLLKER 406
              +     +  ++E+  +   +L+E 
Sbjct: 348 QCFSQTVKPLSTIIERKSKEKDILREM 374



 Score = 57.1 bits (136), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 26/148 (17%), Positives = 51/148 (34%), Gaps = 9/148 (6%)

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQND-KRSLRSAQVMERGIITSAYMAV--- 323
                          Y+I++  +     + +  D K  +      E+ I++ AY      
Sbjct: 37  FIDSVANTIGTDLSKYKIIEAEQFACSLMQVSRDGKMPIAMYAGGEKAILSPAYSMFEVI 96

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
               +  +YL    R  +  +        G+R SL ++D     + +P I+EQ +I    
Sbjct: 97  DKSELLPSYLMMWFRRSEFDREASFYAVGGVRGSLLWDDFLDFRLPIPDIEEQQEIVAQY 156

Query: 383 NVETARIDVLVEKIEQSIVLLKERRSSF 410
              T R    +   E+    L+E   + 
Sbjct: 157 EAITRR----IALNERICANLEETAQAL 180



 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 24/170 (14%), Positives = 61/170 (35%), Gaps = 7/170 (4%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVE-SGTGKYLPKDGNSRQS 73
           +P  W++  I+ F ++ TG+T  S      G  + ++   + +     +   +  +    
Sbjct: 194 LPDGWRMGAIEEFGEVVTGKTPSSRYPEHFGDYMPFVTPAEFQGEKFIRTAERKLSIEGV 253

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
                 +  +G ++   +G  + KA I+D + + + Q   ++  D        + L    
Sbjct: 254 KALEKKVIREGDVMVTCIGSDMGKAAISDTEVVTNQQINSIRTYDNTFSEYLYYTLKGMK 313

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
              +      +TM     +    + +P PP        + +   +  I+ 
Sbjct: 314 EILMGLGSGSSTMPLLSKRSFEVVEVPYPPTDLIQCFSQTVKPLSTIIER 363


>gi|149003726|ref|ZP_01828571.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae SP14-BS69]
 gi|147758288|gb|EDK65289.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae SP14-BS69]
          Length = 520

 Score = 84.1 bits (206), Expect = 4e-14,   Method: Composition-based stats.
 Identities = 63/415 (15%), Positives = 133/415 (32%), Gaps = 66/415 (15%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNSR 71
            IP  W+ V      ++  G +    KD        I +I + D E G           +
Sbjct: 83  DIPDTWEWVRFSTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINNVKEKIK 142

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
           +S  +      KG  L      + R  I+     I      +   ++ L +    ++LS 
Sbjct: 143 KSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYLFYILSS 202

Query: 132 D-VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
           + V  +  ++  GA + + +   + +I +P+PPL+EQ  I E I +   ++D       R
Sbjct: 203 NVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLSEQQRIIEAIESALEKVDEYAESYNR 262

Query: 191 FIELLKEKK----QALVSYIVTKGLNPDVKMKDS-------------------------- 220
             +L KE      ++++ Y +   L       +S                          
Sbjct: 263 LEQLDKEFPDKLKKSILQYAMQGKLVEQDPNDESVEVLLEKIRAEKQKLFEEGKIKKKDL 322

Query: 221 -------------GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK 267
                          E    +P+ WE      + + + R  +    +  +         +
Sbjct: 323 DISIVSQGDDNSYYEEVPCEIPESWEWVRLNDITSYIQRGKSPKYSNISIYPVIAQKCNQ 382

Query: 268 LETRNMGL-------KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA- 319
               ++ L          SY+  +++  G++++    L    R     +         A 
Sbjct: 383 WSGFSIDLARFIDPETVHSYQKERLLRDGDLMWNSTGLGTLGRLAIYHENKNPYAWAVAD 442

Query: 320 ----YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVL 368
                + V    I+  ++   + S  +  V     SG   ++ L  + +K   + 
Sbjct: 443 SHVTVIRVLSGVINCHFIYNFLSSPIVQSVIEEKASGSTKQKELLTKTIKEYLIP 497



 Score = 79.1 bits (193), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 43/210 (20%), Positives = 81/210 (38%), Gaps = 12/210 (5%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
            I+    +PD WE   F  LV  +   + + I+  + S   G    K+     G K  + 
Sbjct: 77  EIDVPYDIPDTWEWVRFSTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINN 136

Query: 281 ETYQIVDPG-----EIVFRFIDLQNDKRSLRSAQVMERGIITSAY--MAVKPHGIDSTYL 333
              +I   G      +      L N     R   +   G I   +  ++   + ++  YL
Sbjct: 137 VKEKIKKSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYL 196

Query: 334 AWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            +++ S  +   F ++ SG   ++L  + V  + + +PP+ EQ  I   I     ++D  
Sbjct: 197 FYILSSNVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLSEQQRIIEAIESALEKVDEY 256

Query: 393 VEKIEQSIVLLKE----RRSSFIAAAVTGQ 418
            E   +   L KE     + S +  A+ G+
Sbjct: 257 AESYNRLEQLDKEFPDKLKKSILQYAMQGK 286


>gi|323477546|gb|ADX82784.1| type I restriction-modification system specificity subunit
           [Sulfolobus islandicus HVE10/4]
          Length = 232

 Score = 84.1 bits (206), Expect = 4e-14,   Method: Composition-based stats.
 Identities = 40/227 (17%), Positives = 79/227 (34%), Gaps = 26/227 (11%)

Query: 217 MKDSG--IEWVGLVPDHWEVKPFFALVTELNR-------KNTKLIESNILSLSYGNIIQK 267
           MK S       G  P +WEVK    +             K+   I    L L+  +I + 
Sbjct: 1   MKMSDYVETEFGEFPKNWEVKRLSEIAELQRGLGYSGKEKSKDEIPDGYLFLTLNSIKKG 60

Query: 268 LETRNMG---LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV--------MERGII 316
              +  G   +K +  +    V  G+IV    DL ND   + S  +         E+ + 
Sbjct: 61  GGLKEDGWTWIKSDRLKERHFVREGDIVIVNTDLSNDGSLIGSPAIVHFPEWYKKEKAVF 120

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA-MGSGLRQSLKFEDV-KRLPVLVPPIKE 374
           +     +     +            +  +            +  +   + L + +PP++E
Sbjct: 121 SLDIFKLLLKVSNVDVNFLFYYLIFVQPLARKYHTGTTVWRINVDSWARDLLIPLPPLEE 180

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           Q  I  ++    + ID  +E   + +  LK  +   + A ++G+I +
Sbjct: 181 QKKIVKML----SIIDNKIEVETRYLEYLKRLKEKLLTALMSGRIRV 223



 Score = 62.9 bits (151), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 32/207 (15%), Positives = 63/207 (30%), Gaps = 21/207 (10%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSESGK--------DIIYIGLEDVESGTGKYLPKDGNS 70
           G  PK+W+V  +    +L  G      +          +++ L  ++ G G         
Sbjct: 12  GEFPKNWEVKRLSEIAELQRGLGYSGKEKSKDEIPDGYLFLTLNSIKKGGGLKEDGWTWI 71

Query: 71  RQSDTSTVSIFAKGQILY-----GKLGPYLRKA-------IIADFDGICSTQFLVLQPKD 118
           +           +G I+         G  +                 + S     L  K 
Sbjct: 72  KSDRLKERHFVREGDIVIVNTDLSNDGSLIGSPAIVHFPEWYKKEKAVFSLDIFKLLLKV 131

Query: 119 VLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGI-GNIPMPIPPLAEQVLIREKIIAE 177
              ++   +   I V         G T+   +      ++ +P+PPL EQ  I + +   
Sbjct: 132 SNVDVNFLFYYLIFVQPLARKYHTGTTVWRINVDSWARDLLIPLPPLEEQKKIVKMLSII 191

Query: 178 TVRIDTLITERIRFIELLKEKKQALVS 204
             +I+           L ++   AL+S
Sbjct: 192 DNKIEVETRYLEYLKRLKEKLLTALMS 218


>gi|293369057|ref|ZP_06615655.1| type I restriction modification DNA specificity domain protein
           [Bacteroides ovatus SD CMC 3f]
 gi|292635863|gb|EFF54357.1| type I restriction modification DNA specificity domain protein
           [Bacteroides ovatus SD CMC 3f]
          Length = 374

 Score = 84.1 bits (206), Expect = 4e-14,   Method: Composition-based stats.
 Identities = 56/365 (15%), Positives = 124/365 (33%), Gaps = 26/365 (7%)

Query: 49  IYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLR---KAIIADFDG 105
           ++I  +D++           +    D    +I+ KG +L       LR      I D + 
Sbjct: 13  LWITSKDMKFAHIADSLLKISDAALDQM--TIYGKGTLLIVTRSGILRHTFPIAILDTEA 70

Query: 106 ICSTQF-LVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPL 164
             +     +      +   L   + + +     +   +G T+   D+     + +P+PPL
Sbjct: 71  TVNQDVKAISCVLSHIHTYLYYVIKAQEQVILKDYHKDGTTVDSIDFDKFKKLIVPLPPL 130

Query: 165 AEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEW 224
           +EQ  I E+I      ID +   +      +K+ K  ++   +   L P     +S IE 
Sbjct: 131 SEQYRIVEEIEHWFALIDQIEQGKTDLQTTIKQIKGKILDLAIHGKLVPQDPNDESAIEL 190

Query: 225 VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET-- 282
           +  +   +            N      ++     L           RN+ +K +  +   
Sbjct: 191 LKRINPDFTPCDNRHYTQLPNGWAVCRLDQVADVLDNLRKPINSNERNLRIKGKQIDRLY 250

Query: 283 -------------YQIVDPGEIVFRFIDL-QNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
                          IVD   ++         DK ++++  +  +  + +    + P   
Sbjct: 251 PYYGATGQVGLIDDYIVDGHYLLLGEDGAPFLDKNAIKAYSISGKSWVNNHVHILSPKID 310

Query: 329 DSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
                 +L  S +       +    R  L   D+  + +++PP+ EQ  I   I    ++
Sbjct: 311 ----FEFLQYSLNQIDYSEYVNGSTRLKLTQTDMCSIRLMLPPLSEQKLIKAKIQTLFSQ 366

Query: 389 IDVLV 393
           +D+++
Sbjct: 367 LDMIM 371



 Score = 63.7 bits (153), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 24/176 (13%), Positives = 59/176 (33%), Gaps = 1/176 (0%)

Query: 244 LNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKR 303
           ++ +       ++   S       +    + +   + +   I   G ++           
Sbjct: 1   MDNRKYWNNAKHLWITSKDMKFAHIADSLLKISDAALDQMTIYGKGTLLIVTRSGILRHT 60

Query: 304 SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDV 362
              +    E  +               TYL +++++ +   +           S+ F+  
Sbjct: 61  FPIAILDTEATVNQDVKAISCVLSHIHTYLYYVIKAQEQVILKDYHKDGTTVDSIDFDKF 120

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           K+L V +PP+ EQ+ I   I    A ID + +        +K+ +   +  A+ G+
Sbjct: 121 KKLIVPLPPLSEQYRIVEEIEHWFALIDQIEQGKTDLQTTIKQIKGKILDLAIHGK 176



 Score = 46.7 bits (109), Expect = 0.006,   Method: Composition-based stats.
 Identities = 26/166 (15%), Positives = 56/166 (33%), Gaps = 2/166 (1%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +P  W V  + +   +          +   + ++  +    +  P  G + Q       
Sbjct: 208 QLPNGWAVCRLDQVADVLDNLRKPINSNERNLRIKGKQID--RLYPYYGATGQVGLIDDY 265

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           I     +L G+ G             I    ++      + P++   +L           
Sbjct: 266 IVDGHYLLLGEDGAPFLDKNAIKAYSISGKSWVNNHVHILSPKIDFEFLQYSLNQIDYSE 325

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
              G+T        + +I + +PPL+EQ LI+ KI     ++D ++
Sbjct: 326 YVNGSTRLKLTQTDMCSIRLMLPPLSEQKLIKAKIQTLFSQLDMIM 371


>gi|119512203|ref|ZP_01631293.1| type I site-specific deoxyribonuclease [Nodularia spumigena
           CCY9414]
 gi|119463169|gb|EAW44116.1| type I site-specific deoxyribonuclease [Nodularia spumigena
           CCY9414]
          Length = 318

 Score = 84.1 bits (206), Expect = 4e-14,   Method: Composition-based stats.
 Identities = 34/245 (13%), Positives = 76/245 (31%), Gaps = 19/245 (7%)

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKD-----SGIEWVGLVPDHWEVKPFFALVTE 243
            +  E  + ++ A +        +   K+K           +  +PD W       L   
Sbjct: 29  KQRREKWEAEQLAKMQAQGKTPKDDSWKLKYKEPVAPDTSELPELPDGWVWATLPQLGEL 88

Query: 244 LNRKNTK-------LIESNILSLSYGNIIQK---LETRNMGLKPESYETYQIVDPGEIVF 293
              K+         L       +  G++      +         E  +  ++   G +  
Sbjct: 89  NRGKSKHRPRNDPKLYGGQYPFIQTGDVRSANGVIHGYTQTYSEEGLKQSRLWSKGTLCI 148

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL 353
                  +   L         I+         +  +  ++ + +R+       YA     
Sbjct: 149 TIAANIAETAILGFDACFPDSIVG---FISNSNNCEINWIEFFIRTAKENLERYAPA-TA 204

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           ++++  E +  L V +P   EQ  I   + +  +  D L + ++ +I   +  R S +  
Sbjct: 205 QKNINVEILSDLAVPLPSWAEQSKIVEELELIFSVTDQLEKTVDTNIKRAERLRQSILKQ 264

Query: 414 AVTGQ 418
           A TGQ
Sbjct: 265 AFTGQ 269



 Score = 71.0 bits (172), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 31/216 (14%), Positives = 72/216 (33%), Gaps = 9/216 (4%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGN 69
           +  +P  W    + +  +LN G++    ++          +I   DV S  G        
Sbjct: 70  LPELPDGWVWATLPQLGELNRGKSKHRPRNDPKLYGGQYPFIQTGDVRSANGVIHGYTQT 129

Query: 70  SRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
             +       +++KG +    +   + +  I  FD       +         E+      
Sbjct: 130 YSEEGLKQSRLWSKGTLCIT-IAANIAETAILGFDACFPDSIVGFISNSNNCEINWIEFF 188

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
                + +E         + + + + ++ +P+P  AEQ  I E++       D L     
Sbjct: 189 IRTAKENLERYAPATAQKNINVEILSDLAVPLPSWAEQSKIVEELELIFSVTDQLEKTVD 248

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWV 225
             I+  +  +Q+++    T  L P     +   + +
Sbjct: 249 TNIKRAERLRQSILKQAFTGQLVPQDPNDEPAEKLL 284


>gi|309800156|ref|ZP_07694342.1| type I restriction-modification enzyme, S subunit [Streptococcus
           infantis SK1302]
 gi|308116203|gb|EFO53693.1| type I restriction-modification enzyme, S subunit [Streptococcus
           infantis SK1302]
          Length = 227

 Score = 84.1 bits (206), Expect = 4e-14,   Method: Composition-based stats.
 Identities = 19/178 (10%), Positives = 56/178 (31%), Gaps = 12/178 (6%)

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNM----GLKPESYETYQIVDPGEIVFRFIDLQND 301
                 +   I  +   N+                        IV+  +++         
Sbjct: 53  GGRESYVNEGIALIRSMNVYDGKFIFKDLAYLTNVQAEKLNNVIVESDDVLLNITGASVS 112

Query: 302 KRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA-WLMRSYDLCKVFYAMG---SGLRQSL 357
           +  +    ++   +     +      + S      L+ + +   +   +G      RQ++
Sbjct: 113 RCCIVPQIILPARVNQHVSIIRCKKHLLSPIFLNQLLITSEFKSLLQKIGESSGATRQAI 172

Query: 358 KFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
               ++ L + +PP+  Q +  + +    A++D     I++S+  L+  + S +    
Sbjct: 173 TKNQIEELTIPIPPLSLQNEFADFV----AQVDKSQLAIQKSLEELETLKKSLMQEYF 226


>gi|308189805|ref|YP_003922736.1| type I site-specific deoxyribonuclease [Mycoplasma fermentans JER]
 gi|307624547|gb|ADN68852.1| type I site-specific deoxyribonuclease [Mycoplasma fermentans JER]
          Length = 395

 Score = 84.1 bits (206), Expect = 4e-14,   Method: Composition-based stats.
 Identities = 46/411 (11%), Positives = 111/411 (27%), Gaps = 52/411 (12%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDII-----YIGLEDVESGTGKYLPKDGNSRQSDTS 76
           P  ++ V ++       G   ++ KD +     Y+   +V +            + S+  
Sbjct: 13  PNGYEWVKLENIATFINGLKCKTKKDFLDGNEHYVSYLNVFNNQEIDFLPTSKVKISNNE 72

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICS----------TQFLVLQPKDVLPELLQG 126
             +    G +++        +   A    + S                     LP+  + 
Sbjct: 73  NQNCLQIGDVIFSGSSENFEETGYASVFNLISENKIYLNSFCFAIRFNNKNLFLPKFSKY 132

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
              S     ++     G T  +       +I +P+ PL  Q  I E +     RI     
Sbjct: 133 LFNSEIFRNQLVKCINGVTRFNLSKVKFASIKVPLIPLKIQEKIVEILERF--RILEAEL 190

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
           +     EL    KQ                              ++ +K  +  +     
Sbjct: 191 KAELKAELEARGKQF-----------------------------NFWLKKIYGNIDSKYI 221

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
              + ++ NI +       +    + +    +           +     I     K    
Sbjct: 222 TKLENLDINIETGKLNANKKNENGKYLFFTCDEKPYRINEYAFDAESILISGNGSKLGHI 281

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM--GSGLRQSLKFEDVKR 364
           S    +       Y+        +    +    ++      ++  GS     +    ++ 
Sbjct: 282 SYYEGKFNAYQRTYVLTSKDVNINLKYLYYFLKHNFKDYISSIHFGSSSVPYITLPILQE 341

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL----LKERRSSFI 411
             + +PP++ Q  I ++++  +     +   +   I L     K  R   +
Sbjct: 342 YKLKLPPLEIQNKIVSILDKLSEYSQEINSGLPAEIELRSKQFKYYRDQLL 392


>gi|322379269|ref|ZP_08053655.1| methylase [Helicobacter suis HS1]
 gi|321148306|gb|EFX42820.1| methylase [Helicobacter suis HS1]
          Length = 272

 Score = 84.1 bits (206), Expect = 4e-14,   Method: Composition-based stats.
 Identities = 29/235 (12%), Positives = 71/235 (30%), Gaps = 8/235 (3%)

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNT 249
           R  +  +E   A +  +  +    +++++      +G V    +     +          
Sbjct: 37  RECKKEQEDLHARLQNLPLEKALKELRVRGVEFVELGEVCSVVDYVANGSFKILSCHVQY 96

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYE--TYQIVDPGEIVFRFIDLQNDKRSLRS 307
              E   + +   +         + +   SY       + P ++V   I        +  
Sbjct: 97  LHAEDYAILVRLKDFSNGWRPPFVYINEYSYHFLKKTKLRPNDVVMCNIGSVGVCFKVPD 156

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLP 366
                     S  +      + S ++ +  +S    K   ++ + G        D K L 
Sbjct: 157 LGQPMSLATNSILIRPCDSRLLSNFMFYFFKSKIFQKAITSITTQGAHPKFNKTDFKTLK 216

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV-----LLKERRSSFIAAAVT 416
           + +PP+  Q  I  +++  T     L  ++   +       L  R+  FI   + 
Sbjct: 217 IPLPPLFIQERIVTILDCLTELTAELTAELTAELTAELTAELTARKKHFITILMR 271


>gi|37528150|ref|NP_931495.1| Type I restriction enzyme specificity protein HsdS [Photorhabdus
           luminescens subsp. laumondii TTO1]
 gi|36787587|emb|CAE16692.1| Type I restriction enzyme specificity protein HsdS [Photorhabdus
           luminescens subsp. laumondii TTO1]
          Length = 365

 Score = 84.1 bits (206), Expect = 4e-14,   Method: Composition-based stats.
 Identities = 57/396 (14%), Positives = 132/396 (33%), Gaps = 64/396 (16%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+   +++  K+  G+              D ++     +P  G+           + + 
Sbjct: 18  WE--SLEQVAKIKHGK--------------DWKNLNAGDIPVYGSGGIMGYVDTYSYNQP 61

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLV-LQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
            +L  + G       I        T +   +  K ++P+ L  ++ +ID+     A+  G
Sbjct: 62  TVLIPRKGSITNIFYIESPFWNVDTIYYTEIDAKKIIPKFLYYFIKTIDL----LALDTG 117

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           A         +  I +PIP L  Q  I   + A T     L  E     +  +  +  L+
Sbjct: 118 AGRPSLTQAILNKIQIPIPSLNIQTEIVRILDAFTELTAKLTAELTARQKQYEYYRDQLL 177

Query: 204 SYIVTKGLNPDVKMKDSGIEW--VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
           S             +++ +EW  +G             + T     N  +++        
Sbjct: 178 S------------FEENEVEWKTLGE---------IATIGTGSRNTNEAVLDGQYPFFVR 216

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY- 320
               + +++         ++   I+  G+ V            +      +  +   AY 
Sbjct: 217 SQEPRAIDSF-------EFDETAIITAGDGV--------GVGKVFHYVSGKYALHQRAYR 261

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
           + V+    +S +L + +R+     +          SL+    ++ P+ +PP+ EQ  I  
Sbjct: 262 IVVRDDRFNSKFLFYYIRNNFAHYLTKVSVHASVTSLRKPMFEKYPIPIPPLVEQDRIVA 321

Query: 381 VINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           +++        + E + + I L ++     R   ++
Sbjct: 322 ILDKFDTLTSSISEGLPREIELRQKQYEYYRDLLLS 357



 Score = 38.2 bits (87), Expect = 2.3,   Method: Composition-based stats.
 Identities = 32/210 (15%), Positives = 64/210 (30%), Gaps = 26/210 (12%)

Query: 2   KHYKAYPQYKD---SGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVES 58
              K Y  Y+D   S  +    +    +   +     + TG  + +         E V  
Sbjct: 164 ARQKQYEYYRDQLLSFEE--NEV----EWKTLGEIATIGTGSRNTN---------EAVLD 208

Query: 59  GTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIA--DFDGICSTQFLVLQP 116
           G   +  +    R  D+     F +  I+    G  + K          +    + ++  
Sbjct: 209 GQYPFFVRSQEPRAIDS---FEFDETAIITAGDGVGVGKVFHYVSGKYALHQRAYRIVVR 265

Query: 117 KDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIA 176
            D        + +  +    +  +   A+++          P+PIPPL EQ  I   +  
Sbjct: 266 DDRFNSKFLFYYIRNNFAHYLTKVSVHASVTSLRKPMFEKYPIPIPPLVEQDRIVAILDK 325

Query: 177 E---TVRIDTLITERIRFIELLKEKKQALV 203
               T  I   +   I   +   E  + L+
Sbjct: 326 FDTLTSSISEGLPREIELRQKQYEYYRDLL 355


>gi|86137461|ref|ZP_01056038.1| type I restriction system specificity protein [Roseobacter sp.
           MED193]
 gi|85825796|gb|EAQ45994.1| type I restriction system specificity protein [Roseobacter sp.
           MED193]
          Length = 395

 Score = 84.1 bits (206), Expect = 4e-14,   Method: Composition-based stats.
 Identities = 59/402 (14%), Positives = 118/402 (29%), Gaps = 46/402 (11%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           +   +   T + TG++    K         + S  G Y   +                  
Sbjct: 17  EWKQLGELTNVKTGQSVNKNK---------IASNPGPYAVINSGREPLGFIDEWNTDDDP 67

Query: 86  ILYGKLGPYLRKAIIADFDGI-CSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
           I     G  +      +      +  + V    D   E    + L ++    I A+C   
Sbjct: 68  IGVTTRGAGVGSITWQEGKYFRGNLNYAVSIKSDAKLETRYLYHLLLEKQADIHALCTFD 127

Query: 145 TMSHADWKGIGNIPMPIPP-------LAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
            +   +   +  + +PIP        LA Q  I   + + T     L  E     +    
Sbjct: 128 GIPALNAGKLKGLVIPIPCPDDPEKSLAIQAEIVRILDSFTELTAELTAELKARKQQYNH 187

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
            +  L+S              D  +EW          K    +V   N K  + + +   
Sbjct: 188 YRDQLLS------------FDDGDVEW----------KTLGDVVDFQNAKPHEKLVTPDG 225

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG--I 315
            ++                 ++ +        ++     DL N +   ++  V E G   
Sbjct: 226 DVALLTAGYISTDGRSARFVKTTDVLTPAFKNDVAMVMSDLPNGRALAKTFFVDEDGRYA 285

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKE 374
                  ++    +S    +L    +  K      SG  +  LK + +  + V VP  +E
Sbjct: 286 ANQRVCLLRVKDPESFSSKFLHYVMNRNKQLLRYDSGYDQTHLKKDWILGVKVPVPSAEE 345

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           Q  I  +++        L E + + I L ++     R   ++
Sbjct: 346 QNRIVTILDKFNTLTASLSEGLPREIKLRQQQYEYYRDLLLS 387


>gi|313678344|ref|YP_004056084.1| type I restriction modification system, S subunit [Mycoplasma bovis
           PG45]
 gi|312950546|gb|ADR25141.1| type I restriction modification system, S subunit [Mycoplasma bovis
           PG45]
          Length = 359

 Score = 84.1 bits (206), Expect = 4e-14,   Method: Composition-based stats.
 Identities = 45/362 (12%), Positives = 100/362 (27%), Gaps = 21/362 (5%)

Query: 49  IYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADF--DGI 106
             +  +D      +Y    G +  +D     I +     Y      +    +      G+
Sbjct: 6   YSVTNKDGFVNQNEYFDDGGKAVFADKKNSLIVSINTFAYNPSRINVGSLALYKHSEMGL 65

Query: 107 CSTQFLVLQPKDVLPELLQGWLLSID-VTQRIEAICEGATMSHADWKGIGNIPMPIPPLA 165
            S  + V Q  +             +     +      +     +     +  +  P  A
Sbjct: 66  VSPIYEVFQINNNNNPDFFLLWFRSEAFKNIVSTNSNKSVRDTLNLSQFESESVNFPNFA 125

Query: 166 EQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWV 225
           EQ  I          I     + +    L       L+  +     +    ++       
Sbjct: 126 EQSKISSLFTHLDSLITLHQRKLLSLKNLKSR----LLDRMFCDEKSQFPSIRFKEFTNA 181

Query: 226 GLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI 285
                  E   F+  +     K+   +  ++               +   K ++      
Sbjct: 182 WEQEKLGECSKFYNGL-TSVSKSDFGVGKDLYIDYLNVFNNTFSQFSELKKFKNSSRQNY 240

Query: 286 VDPGEIVFRFIDLQNDKRS----LRSAQVMERGIITSAYMAVKPHG---IDSTYLAWLMR 338
           V   +++        D+ +    +      +     S  + V+ +     D  Y+ +  R
Sbjct: 241 VQFKDVILTISSETPDEVAMSSVINWKNDYKNVAFNSFCILVRFNQLEKYDVNYIGYFFR 300

Query: 339 SYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPP-IKEQFDITNVINVETARIDVLVEKI 396
           S         M  G+ R ++    +K+   L PP I EQ  I NV+      +D L+   
Sbjct: 301 SNSFRTQAMLMAQGISRFNINQTALKKTLFLFPPNIYEQQKIGNVLY----YLDSLITLH 356

Query: 397 EQ 398
           ++
Sbjct: 357 QR 358



 Score = 65.6 bits (158), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 23/158 (14%), Positives = 53/158 (33%), Gaps = 6/158 (3%)

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
               +    + + E  + G K    +    +      F +   + +  SL   +  E G+
Sbjct: 6   YSVTNKDGFVNQNEYFDDGGKAVFADKKNSLIVSINTFAYNPSRINVGSLALYKHSEMGL 65

Query: 316 ITSAY-MAVKPHGIDSTYLAWLMRSYDLCKVFY-AMGSGLRQSLKFEDVKRLPVLVPPIK 373
           ++  Y +    +  +  +     RS     +        +R +L     +   V  P   
Sbjct: 66  VSPIYEVFQINNNNNPDFFLLWFRSEAFKNIVSTNSNKSVRDTLNLSQFESESVNFPNFA 125

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
           EQ  I    +     +D L+   ++ ++ LK  +S  +
Sbjct: 126 EQSKI----SSLFTHLDSLITLHQRKLLSLKNLKSRLL 159



 Score = 41.3 bits (95), Expect = 0.32,   Method: Composition-based stats.
 Identities = 23/174 (13%), Positives = 52/174 (29%), Gaps = 19/174 (10%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDI-----IYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           W+   +   +K   G TS S  D      +YI   +V + T     +    + S      
Sbjct: 182 WEQEKLGECSKFYNGLTSVSKSDFGVGKDLYIDYLNVFNNTFSQFSELKKFKNSSRQNYV 241

Query: 80  IFAKGQILYGKLGPYLRKAII-------ADFDGICSTQFLV----LQPKDVLPELLQGWL 128
            F    ++         +  +        D+  +    F +     Q +      +  + 
Sbjct: 242 QFK--DVILTISSETPDEVAMSSVINWKNDYKNVAFNSFCILVRFNQLEKYDVNYIGYFF 299

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGN-IPMPIPPLAEQVLIREKIIAETVRI 181
            S     +   + +G +  + +   +   + +  P + EQ  I   +      I
Sbjct: 300 RSNSFRTQAMLMAQGISRFNINQTALKKTLFLFPPNIYEQQKIGNVLYYLDSLI 353


>gi|227550180|ref|ZP_03980229.1| possible type I site-specific deoxyribonuclease specificity subunit
           [Enterococcus faecium TX1330]
 gi|257897502|ref|ZP_05677155.1| type I restriction-modification system specificity subunit
           [Enterococcus faecium Com12]
 gi|227180696|gb|EEI61668.1| possible type I site-specific deoxyribonuclease specificity subunit
           [Enterococcus faecium TX1330]
 gi|257834067|gb|EEV60488.1| type I restriction-modification system specificity subunit
           [Enterococcus faecium Com12]
          Length = 209

 Score = 84.1 bits (206), Expect = 4e-14,   Method: Composition-based stats.
 Identities = 28/212 (13%), Positives = 69/212 (32%), Gaps = 12/212 (5%)

Query: 208 TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK 267
            + L P    K   + + G        +     V ++    T     +       +    
Sbjct: 1   MQKLFPKNGSKFPQLRFAGFA--DAWEQRKLGEVADIIGGGTPSTNVSEYWNGDIDWYSP 58

Query: 268 LETRNMGLKPESYETY-----QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
           +E  N     ES +       Q      +    +   +      +A + + G     + +
Sbjct: 59  VEIGNQIYIDESQKKITGLGLQKSSAHILPVGTVLFTSRAGIGNTAILAKEGCTNQGFQS 118

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
           + P+           R+ +L +     G+G     +  + + ++P+ VP I+EQ  I   
Sbjct: 119 IVPYKDLLNSYFIFSRTSELKRYGEINGAGSTFIEVSGKQMAKMPISVPSIEEQQKIGTF 178

Query: 382 INVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
                 ++D  +   ++ +  L+E +  ++  
Sbjct: 179 ----FKQLDDTITLHQRKLEKLQELKKGYLQK 206



 Score = 67.5 bits (163), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 37/191 (19%), Positives = 67/191 (35%), Gaps = 12/191 (6%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIG----LEDVESGTGKYLP---KDGNSRQSDTST 77
           W+   +     +  G T  +     + G       VE G   Y+    K         S+
Sbjct: 24  WEQRKLGEVADIIGGGTPSTNVSEYWNGDIDWYSPVEIGNQIYIDESQKKITGLGLQKSS 83

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
             I   G +L+         AI+A   G  +  F  + P   L      +  + ++ +  
Sbjct: 84  AHILPVGTVLFTSRAGIGNTAILAKE-GCTNQGFQSIVPYKDLLNSYFIFSRTSELKRYG 142

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           E    G+T      K +  +P+ +P + EQ  I         ++D  IT   R +E L+E
Sbjct: 143 EINGAGSTFIEVSGKQMAKMPISVPSIEEQQKIGTF----FKQLDDTITLHQRKLEKLQE 198

Query: 198 KKQALVSYIVT 208
            K+  +  +  
Sbjct: 199 LKKGYLQKMFC 209


>gi|323380338|gb|ADX52606.1| restriction modification system DNA specificity domain protein
           [Escherichia coli KO11]
          Length = 388

 Score = 84.1 bits (206), Expect = 4e-14,   Method: Composition-based stats.
 Identities = 61/383 (15%), Positives = 118/383 (30%), Gaps = 24/383 (6%)

Query: 28  VPIKRFTKLNTGRTS--------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           V +     ++ G +         +S   + +I + D E  +          +        
Sbjct: 2   VKLGEIFTISRGGSPRPIQDYITDSCNGVNWIMIGDTEPNSKYIRHTAKKIKFEGVKKSR 61

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV--LPELLQGWLLSIDVTQRI 137
               G +L      + R  I+ D +G     +LVL PK+     +    +L S      I
Sbjct: 62  KVYPGDLLLTNSMSFGRPYIL-DVEGCIHDGWLVLSPKNNQIHIDYFYHYLNSPTAKIII 120

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
                GA + + +   + N+ +P PP AEQV I   +                  +    
Sbjct: 121 SNKAAGAVVKNLNSDIVRNLEIPFPPFAEQVRIASTLDKADGIRQKREQAIKLADDF--- 177

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
               L +  +    +P    K   ++ +     H           + N  +  L   ++ 
Sbjct: 178 ----LRATFLEMFGDPVQNPKGWNVKPLADQIIHANNGISRRRKEDTNEGDIVLRLQDVH 233

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
               G    K   R   +  E        D    +    +     R+      +E     
Sbjct: 234 Y--SGITFDKELNRIKLVDKEKQIARVEYDDLLFIRVNGNPNYVGRTAVFKSYIEPVYHN 291

Query: 318 SAYMAVK-PHGIDSTYLAWLMRSYDLCKVF--YAMGSGLRQSLKFEDVKRLPVLVPPIKE 374
              + +K  +   S +L +L+ S    K+       S  + ++  + + +L    PPI+ 
Sbjct: 292 DHLIRIKLDNEYQSDFLCYLINSPFSRKLIAQQIKTSAGQHTISQDGILKLMFYRPPIEL 351

Query: 375 QFDITNVINVETARIDVLVEKIE 397
           Q    N I  +   I    +K E
Sbjct: 352 QEKFIN-IKNKIESIFYRKDKHE 373



 Score = 69.4 bits (168), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 27/159 (16%), Positives = 59/159 (37%), Gaps = 8/159 (5%)

Query: 245 NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
              ++    + I+        + +      +K E  +  + V PG+++            
Sbjct: 22  YITDSCNGVNWIMIGDTEPNSKYIRHTAKKIKFEGVKKSRKVYPGDLLLTNSMSFGRPYI 81

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVK 363
           L     +  G +    ++ K + I   Y    + S     +     +G   ++L  + V+
Sbjct: 82  LDVEGCIHDGWL---VLSPKNNQIHIDYFYHYLNSPTAKIIISNKAAGAVVKNLNSDIVR 138

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
            L +  PP  EQ  I + ++    + D + +K EQ+I L
Sbjct: 139 NLEIPFPPFAEQVRIASTLD----KADGIRQKREQAIKL 173



 Score = 38.6 bits (88), Expect = 1.8,   Method: Composition-based stats.
 Identities = 23/195 (11%), Positives = 50/195 (25%), Gaps = 14/195 (7%)

Query: 22  PKHWKVVPIKR-FTKLNTGRTSESGKDI----IYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           PK W V P+       N G +    +D     I + L+DV      +  +    +  D  
Sbjct: 193 PKGWNVKPLADQIIHANNGISRRRKEDTNEGDIVLRLQDVHYSGITFDKELNRIKLVDKE 252

Query: 77  TVS-IFAKGQILYGKLGPYLRKAII------ADFDGICSTQFLVLQPKDVLPELLQGWLL 129
                     +L+ ++                      +   + ++  +        +L+
Sbjct: 253 KQIARVEYDDLLFIRVNGNPNYVGRTAVFKSYIEPVYHNDHLIRIKLDNEYQSDFLCYLI 312

Query: 130 SIDV--TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
           +         + I   A        GI  +    PP+  Q                    
Sbjct: 313 NSPFSRKLIAQQIKTSAGQHTISQDGILKLMFYRPPIELQEKFINIKNKIESIFYRKDKH 372

Query: 188 RIRFIELLKEKKQAL 202
              F  +  +   ++
Sbjct: 373 EDLFASISNKLIHSI 387


>gi|307264086|ref|ZP_07545683.1| Type I restriction enzyme EcoAI specificity protein [Actinobacillus
           pleuropneumoniae serovar 13 str. N273]
 gi|306870564|gb|EFN02311.1| Type I restriction enzyme EcoAI specificity protein [Actinobacillus
           pleuropneumoniae serovar 13 str. N273]
          Length = 414

 Score = 84.1 bits (206), Expect = 4e-14,   Method: Composition-based stats.
 Identities = 44/427 (10%), Positives = 112/427 (26%), Gaps = 72/427 (16%)

Query: 27  VVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQI 86
            V ++    L  GR         +I   ++     + L              +   +G+ 
Sbjct: 2   WVRLEDIFHLQAGR---------FISASEIYGEYKESLYPCYGGNGLRGFVKTYNREGKF 52

Query: 87  -LYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
            + G+ G        A+     +   +V++       L   +     +   +        
Sbjct: 53  PIIGRQGALCGNINFAEGKFYSTEHAVVVETFSNTDTLWANYF---LIQLNLNQYATATA 109

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK----QA 201
                   I ++ +P+PPL EQ  I  KI      I+    +  +   L ++      ++
Sbjct: 110 QPGLAVNKINDVLIPLPPLNEQKRIVAKIEELLPYIEQYAEKEEKLTALHQQFPEQLKKS 169

Query: 202 LVSYIVTKGLNPDVKM-------------------------------------------- 217
           ++   +   L                                                  
Sbjct: 170 ILQAAIQGKLTEQNPNDEPASALIERIKAEKLRLIAEKKLKKPKVISEIIMRDNLPYEIV 229

Query: 218 ----KDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE---SNILSLSYGNIIQKLET 270
               +    E    +P+ W       +            +      + L  GNI      
Sbjct: 230 NGKERCIADEVPFEIPESWVWVRLGEIGETNIGLTYNPSDVASDGTIVLRSGNIQDGKID 289

Query: 271 --RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
              ++          +     +++    +    K+ +  A ++++   +           
Sbjct: 290 VSSDIVKVNLDIPENKRCYKNDLLICARN--GSKKLVGKAAIIDKDGYSFGAFMTIFRSP 347

Query: 329 DSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
            + Y+ + + S      F  + +     +   ++    + +P + EQ  I   I    + 
Sbjct: 348 FNKYIYYYLSSPLFRNDFDGINTTTINQITQSNLNNRLIPLPSLNEQLRIVEKIETLFST 407

Query: 389 IDVLVEK 395
           +  L +K
Sbjct: 408 LQNLSQK 414



 Score = 68.7 bits (166), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 20/131 (15%), Positives = 46/131 (35%), Gaps = 9/131 (6%)

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
           F  I  Q       +    +      A +       D+ +  + +   +L +      + 
Sbjct: 52  FPIIGRQGALCGNINFAEGKFYSTEHAVVVETFSNTDTLWANYFLIQLNLNQY---ATAT 108

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL-----KERR 407
            +  L    +  + + +PP+ EQ  I   I      I+    + E+ +  L     ++ +
Sbjct: 109 AQPGLAVNKINDVLIPLPPLNEQKRIVAKIEELLPYIEQY-AEKEEKLTALHQQFPEQLK 167

Query: 408 SSFIAAAVTGQ 418
            S + AA+ G+
Sbjct: 168 KSILQAAIQGK 178



 Score = 68.3 bits (165), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 34/171 (19%), Positives = 56/171 (32%), Gaps = 10/171 (5%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            IP+ W  V +    + N G T           I +   +++ G    +  D      D 
Sbjct: 243 EIPESWVWVRLGEIGETNIGLTYNPSDVASDGTIVLRSGNIQDGKID-VSSDIVKVNLDI 301

Query: 76  STVSIFAKGQILYGKLGPYL---RKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
                  K  +L            KA I D DG  S    +   +    + +  +L S  
Sbjct: 302 PENKRCYKNDLLICARNGSKKLVGKAAIIDKDGY-SFGAFMTIFRSPFNKYIYYYLSSPL 360

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
                + I    T++      + N  +P+P L EQ+ I EKI      +  
Sbjct: 361 FRNDFDGINT-TTINQITQSNLNNRLIPLPSLNEQLRIVEKIETLFSTLQN 410


>gi|300870776|ref|YP_003785647.1| putative restriction endonuclease type I S subunit [Brachyspira
           pilosicoli 95/1000]
 gi|300688475|gb|ADK31146.1| putative restriction endonuclease type I, S subunit [Brachyspira
           pilosicoli 95/1000]
          Length = 386

 Score = 84.1 bits (206), Expect = 4e-14,   Method: Composition-based stats.
 Identities = 52/401 (12%), Positives = 115/401 (28%), Gaps = 43/401 (10%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           P   +   +     +  G              +D++      +   G          +  
Sbjct: 13  PDGVEYKKLINVCDIKRGERITK---------KDIKENEMFPIISGGQFPMGMYDKFNR- 62

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            +  I     G               +   L L PK  L      +         + +  
Sbjct: 63  DENTITIASYGS-AGYVDYQTKKFWANDVCLCLYPKIKLLNK-FLYYYLKFKQDFLYSKT 120

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
             A  +H     I  + +P+PP+  Q  I   +   T             +    E ++ 
Sbjct: 121 TNAIPNHIPTDIIKELLIPLPPIEIQKEIVGILDTFTK--------YQDLLNRELELRKK 172

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
              Y   K L  +  ++   +E +               + +   K  K + S I  ++ 
Sbjct: 173 QYEYYNNKLLTFNDNVEYKTLEELCD-------------IVDYRGKTPKKVNSGIFLITA 219

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEI--VFRFIDLQNDKRSLRSAQVMERGIITSA 319
            NI +         +      Y  +    +  +   +          +    E   +   
Sbjct: 220 KNIRKGYIDYEKSKEYVDINDYPNIMHRGLPQIGDVLITTEAPLGYVAQIDRENVALAQR 279

Query: 320 YMAVKPHGID---STYLAWLMRSYDLC-KVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
            +  +P       S YL +++   +   K+      G  + +K   + +L + VPP++EQ
Sbjct: 280 VIKYRPKDKSLLSSYYLKYILLGKEFQDKLLINATGGTVKGIKGSKLHKLTIPVPPLEEQ 339

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
             I N+++   A  + +   +   I + K+     R   + 
Sbjct: 340 ERIVNILDKFDALCNDITRGLPAEIEMRKKQYEYYRDKLLT 380


>gi|160886161|ref|ZP_02067164.1| hypothetical protein BACOVA_04168 [Bacteroides ovatus ATCC 8483]
 gi|156108046|gb|EDO09791.1| hypothetical protein BACOVA_04168 [Bacteroides ovatus ATCC 8483]
          Length = 383

 Score = 84.1 bits (206), Expect = 4e-14,   Method: Composition-based stats.
 Identities = 48/387 (12%), Positives = 120/387 (31%), Gaps = 44/387 (11%)

Query: 30  IKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           +K F  ++TG T           D  ++  ED+++             ++  +T  I   
Sbjct: 18  LKSFADVSTGGTPSKANLEYWNGDKPWVSAEDMKNKY--VYDTCEKVTEAGYATCKIIPV 75

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
             ++Y   G       I   +   +      +  D +  +   +   +     I+ +  G
Sbjct: 76  DTLMYVCRGSI-GVMAINKIECATNQSICRAKCHDNVCNVEFLYHALMYQKDNIKKMGTG 134

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
            +    +      + + +PP  EQ+                        +  K K     
Sbjct: 135 TSFKSLNQTSFSELKIELPPYNEQMKFVSI-----------------AQQADKSKFGDFK 177

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
           S  +    NP    + + ++ +G             +      K + +    +    Y  
Sbjct: 178 SQFIEMFGNPLSLNQKNELKRLGEC--CILNPRRPNIALCDTDKVSFIPMPAVSEDGYLV 235

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFID--LQNDKRSLRSAQVMERGIITSAYM 321
            +   E   +       + +   +  +++F  I   ++N K ++        G+ ++ + 
Sbjct: 236 DMTDEEYGKVK------KGFTYFENNDVLFAKITPCMENGKGAIVHGLTNGIGMGSTEFH 289

Query: 322 AVKPHG--IDSTYLAWLMRSYDLCKV--FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFD 377
            ++P        +L  L R     +       G+G ++ +    +    V +P ++EQ  
Sbjct: 290 VLRPINGISSPYWLLALTRMPIFRERAAKNMSGTGGQKRVSASYLDHFMVGLPAMEEQRR 349

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLK 404
                     + D     I++++V L 
Sbjct: 350 F----EAIYRQADKSKSVIQKALVYLN 372


>gi|322387160|ref|ZP_08060770.1| type I restriction-modification system [Streptococcus infantis ATCC
           700779]
 gi|321141689|gb|EFX37184.1| type I restriction-modification system [Streptococcus infantis ATCC
           700779]
          Length = 521

 Score = 84.1 bits (206), Expect = 4e-14,   Method: Composition-based stats.
 Identities = 62/441 (14%), Positives = 127/441 (28%), Gaps = 68/441 (15%)

Query: 21  IPKHWKVVPIKRFT-----KLNTGR----------TSESGKDIIYIGLEDVESGTGKYLP 65
           IPK W +V +          +  G             +           +    T  Y  
Sbjct: 82  IPKGWAIVYLPDICALEDGSIKRGPFGSSITKSMFVPKGEHTYKVYEQGNAIRKTIDYGD 141

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAII--ADFDGICSTQFLVLQPKDVLPEL 123
                             G IL    G       I    ++G+ +   L L     + + 
Sbjct: 142 YWLKESDYIRLKNFSIKAGDILISCAGTIGEIFQIPSNYYNGVINQALLKLTLNSDIIDS 201

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGI--GNIPMPIPPLAEQVLIREKIIAETVRI 181
                +   +   ++    G+ + +          +PM +PPLAEQ  I E I +   ++
Sbjct: 202 QYFKWMFTSLINTLKEHSIGSAIKNLASIKFLKYEVPMLLPPLAEQQRIVEVIESALEKV 261

Query: 182 DTLITERIRFIELLK---------------------------------EKKQALVSYIVT 208
           D       +  +L K                                 EK +A    +  
Sbjct: 262 DEYAESYNQLQKLDKIFPDKLKKSILQYAMQGKLVEQDPNDEPVEVLLEKIRAEKQKLFE 321

Query: 209 KGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKL 268
           +G      +K S +   G    +++  P   +++ L+  +     ++I S         +
Sbjct: 322 EGKIKKKDLKISIVSQ-GDDNSYYKQLPRNWMLSTLDSVSNLYTGNSINSTEKKKYFSGV 380

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL---------------RSAQVMER 313
           +  N     +      I     I      L   K S                +   + + 
Sbjct: 381 DGINYIATKDVNFDNTINYDNGIRIPDNYLSKFKISYFNSVLLCLEGGSAGRKIGLLKQD 440

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
               +    +  +  ++ +L + ++S      F    SG+   +   ++  + + V P  
Sbjct: 441 VCFGNKLCNLSFYYGENKFLYYFLQSPQFLSDFQKNKSGIIGGVSKNNLGNILIPVLPRN 500

Query: 374 EQFDITNVINVETARIDVLVE 394
           EQ  IT  I++   ++  L E
Sbjct: 501 EQMRITQGIDLLFQKVSQLSE 521



 Score = 67.1 bits (162), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 37/176 (21%), Positives = 67/176 (38%), Gaps = 12/176 (6%)

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYE---TYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
           E        GN I+K          ES         +  G+I+        +   + S  
Sbjct: 121 EHTYKVYEQGNAIRKTIDYGDYWLKESDYIRLKNFSIKAGDILISCAGTIGEIFQIPSN- 179

Query: 310 VMERGIITSAYMAV--KPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVK-RLP 366
               G+I  A + +      IDS Y  W+  S       +++GS ++     + +K  +P
Sbjct: 180 -YYNGVINQALLKLTLNSDIIDSQYFKWMFTSLINTLKEHSIGSAIKNLASIKFLKYEVP 238

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIE--QSIVLL--KERRSSFIAAAVTGQ 418
           +L+PP+ EQ  I  VI     ++D   E     Q +  +   + + S +  A+ G+
Sbjct: 239 MLLPPLAEQQRIVEVIESALEKVDEYAESYNQLQKLDKIFPDKLKKSILQYAMQGK 294



 Score = 46.7 bits (109), Expect = 0.007,   Method: Composition-based stats.
 Identities = 32/174 (18%), Positives = 57/174 (32%), Gaps = 11/174 (6%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGK---------DIIYIGLEDVESGTGKYLPKDGNS 70
            +P++W +  +   + L TG +  S +          I YI  +DV              
Sbjct: 346 QLPRNWMLSTLDSVSNLYTGNSINSTEKKKYFSGVDGINYIATKDVNFDNTINYDNGIRI 405

Query: 71  RQSDTSTVSIFAKGQILYG-KLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
             +  S   I     +L   + G   RK  +   D     +   L       + L  +L 
Sbjct: 406 PDNYLSKFKISYFNSVLLCLEGGSAGRKIGLLKQDVCFGNKLCNLSFYYGENKFLYYFLQ 465

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           S       +    G  +       +GNI +P+ P  EQ+ I + I     ++  
Sbjct: 466 SPQFLSDFQKNKSG-IIGGVSKNNLGNILIPVLPRNEQMRITQGIDLLFQKVSQ 518


>gi|300821374|ref|ZP_07101522.1| type I restriction modification DNA specificity domain protein
           [Escherichia coli MS 119-7]
 gi|331680404|ref|ZP_08381063.1| type I restriction enzyme EcoR124II specificity protein (S
           protein)(S.EcoR124II) [Escherichia coli H591]
 gi|300526263|gb|EFK47332.1| type I restriction modification DNA specificity domain protein
           [Escherichia coli MS 119-7]
 gi|331071867|gb|EGI43203.1| type I restriction enzyme EcoR124II specificity protein (S
           protein)(S.EcoR124II) [Escherichia coli H591]
          Length = 388

 Score = 84.1 bits (206), Expect = 4e-14,   Method: Composition-based stats.
 Identities = 63/394 (15%), Positives = 116/394 (29%), Gaps = 54/394 (13%)

Query: 26  KVVPIKRFTKLNTGRTS-ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           +   +      +T +   +      ++G++++ +  G  +        +  +       G
Sbjct: 17  EWKAVGDIAGYSTTKVDADKLDATSFVGVDNLLADKGGRIDATYQPNTARLTAY---EPG 73

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQ-----FLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
            IL G + PYL+K  +A+ +G CS        L    K + PE L   L S         
Sbjct: 74  DILLGNIRPYLKKVWMAENNGGCSGDVLAIRILADCKKIISPEYLYYALSSDSFFSYSMQ 133

Query: 140 ICEGATMSHADWKGIGNIPMPIPP-------LAEQVLIREKIIAETVRIDTLITERIRFI 192
             +GA M       I N  +PIP        LA Q  I   +   T     L  E     
Sbjct: 134 HAKGAKMPRGSKDAILNYQIPIPCPSAPEKSLAIQSEIVRILDKFTALTAELTAELNMRK 193

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           +     +  L++    +G     +M+   I                              
Sbjct: 194 KQYNYYRDQLLN---LEGRENTREMRIGDI----------------YDFQYGTGNTIPKS 234

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
                      I+   +  N    P              V   I        +   Q   
Sbjct: 235 GGQYPVYGSNGIVGSHDKYNSEDSP--------------VIGHIGA--YAGIVNWGQGKH 278

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI 372
                      K   +   Y  +L+    L        S  +  + +  +    VLVPP+
Sbjct: 279 FVTYNGVICRHKSKEVLQKYAYYLLL---LQDFGSKSNSASQPFVSYNILNAPIVLVPPL 335

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
           +EQ  I  +++      + + E + + I L +++
Sbjct: 336 QEQARIVEILDKFDTLTNSITEGLPREIELRQKQ 369



 Score = 63.3 bits (152), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 19/136 (13%), Positives = 40/136 (29%), Gaps = 9/136 (6%)

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERG-IITSAYMAVKPHGIDSTYLAWLMRSYDLCK 344
            +PG+I+   I     K  +        G ++    +A     I   YL + + S     
Sbjct: 70  YEPGDILLGNIRPYLKKVWMAENNGGCSGDVLAIRILADCKKIISPEYLYYALSSDSFFS 129

Query: 345 VFYAMGSGL-RQSLKFEDVKRLPVLVP-------PIKEQFDITNVINVETARIDVLVEKI 396
                  G        + +    + +P        +  Q +I  +++  TA    L  ++
Sbjct: 130 YSMQHAKGAKMPRGSKDAILNYQIPIPCPSAPEKSLAIQSEIVRILDKFTALTAELTAEL 189

Query: 397 EQSIVLLKERRSSFIA 412
                     R   + 
Sbjct: 190 NMRKKQYNYYRDQLLN 205


>gi|189467610|ref|ZP_03016395.1| hypothetical protein BACINT_04000 [Bacteroides intestinalis DSM
           17393]
 gi|189435874|gb|EDV04859.1| hypothetical protein BACINT_04000 [Bacteroides intestinalis DSM
           17393]
          Length = 389

 Score = 84.1 bits (206), Expect = 4e-14,   Method: Composition-based stats.
 Identities = 55/417 (13%), Positives = 132/417 (31%), Gaps = 52/417 (12%)

Query: 23  KHWKVVPIKRFTKL---NTGRTSES-GKDIIYIGLEDVESGTGKYLPKDGNSRQS-DTST 77
           + WK   +           G+T     + I  I  + V++G  +   +   + +  D   
Sbjct: 2   EQWKQDRLIDILDTLIDYRGKTPNKVERGIPLITAKIVKNGRIETPTEFLPAEEYRDWMV 61

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV--LPELLQGWLLSIDVTQ 135
                 G ++     P    A + D     + + + L+ K+       L+ +L+S     
Sbjct: 62  RGYPQVGDVVLTTEAPLGEVAQLKDDKIALAQRIVCLRGKEDALDNTYLKYFLMSNIGQY 121

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
           R++A   G T++      +  + +  P    Q  I   + +   +    I    R  + L
Sbjct: 122 RLKARETGTTVTGIKQSELKEVLIDYPNYELQQKIASILSSLDSK----IELNRRINDNL 177

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
           +++ QA ++ ++ +  N                            + E+N K      ++
Sbjct: 178 EQQAQAWLNELLDRYANSTTV--------------------LIHEIAEINPKRNLSKGTS 217

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDL---QNDKRSLRSAQVME 312
              +   N+       N G   + Y        G+ +   I           +      E
Sbjct: 218 AKCIEMANLPTTGSFPN-GWIEKEYNGGMKFCNGDTLIARITPCLENGKTAFINFLDKNE 276

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLM-RSYDLCKV--FYAMGSGLRQSLKFEDVKRLPVLV 369
               ++ Y+ +      S+   + + R++D          GS  RQ +  + + +  + V
Sbjct: 277 IAYGSTEYIVISAKSNYSSSFFYFLARNHDFVDYAVKNMNGSSGRQRVSGDTISKYRIPV 336

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR-----SSFIAAAVTGQIDL 421
            P +        +   T   +  +         L+  R      + +   ++G++ +
Sbjct: 337 IPRE-------KLESFTNHAE--IALKTIKNNSLQNMRLSMTRDALLPKLMSGELKV 384


>gi|315453693|ref|YP_004073963.1| Type II restriction-modification enzyme [Helicobacter felis ATCC
            49179]
 gi|315132745|emb|CBY83373.1| Type II restriction-modification enzyme [Helicobacter felis ATCC
            49179]
          Length = 1627

 Score = 83.7 bits (205), Expect = 5e-14,   Method: Composition-based stats.
 Identities = 58/420 (13%), Positives = 129/420 (30%), Gaps = 44/420 (10%)

Query: 27   VVPIKRFTKLNTGRTSESGKD------IIYIGLEDV-ESGTGKYLPKDGNSRQSDTSTVS 79
            +V ++   K   G T            I ++ + D  E  +     +         S V 
Sbjct: 958  IVKLETCGKFLMGGTPSRKNPQYWNGTIKWLTIGDYAEYQSITDTKERITEAGLQASNVK 1017

Query: 80   IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL-SIDVTQRIE 138
            +  KG ++   +   + +  I + +   +   + + P          +++         E
Sbjct: 1018 LVPKGAVVVS-IYATIGRVGILEGEMTTNQAIVSIIPNQDFRARYLMYVIGYYKFQLLDE 1076

Query: 139  AICEGATMSHADWKGIGNIPMPIPPLAEQVLI-REKIIAETVRIDTLITERIRF------ 191
             I       +        IP P   + EQ++    K+   T  +   I            
Sbjct: 1077 VITTSQKNINLGILQNMRIPKPPLQVQEQIITECAKVEKRTQELQEGIQSYQNLILAVLG 1136

Query: 192  -----------IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFAL 240
                             K  A +   +         +K+   +      D WE+     +
Sbjct: 1137 VCGVAKDPKTPPIEQILKTLATLKLELEPTDPKLEALKNLVQDLPNPPADGWEMAKLGDI 1196

Query: 241  VTELNR------KNTKLIESNILSLSYGNIIQKLE---TRNMGLKPESYETYQIVDPGEI 291
                        K    +++        + I+         +  +         V P ++
Sbjct: 1197 CDFRRGPFGGSLKKEIFVKNGYKVYEQQHAIKNDFEIGNYFITQEKFDSMKSFEVIPNDL 1256

Query: 292  VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG--IDSTYLAWLMRSYDLCKVFYAM 349
            +            + S    ++GII  A + ++      +S  L  ++ + +      A 
Sbjct: 1257 IVSCSGTIGKIAIVPSNA--KQGIINQALLRLRLKNGRTNSKTLKIILDNLNNPFNERAH 1314

Query: 350  GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI---NVETARIDVLVEKIE-QSIVLLKE 405
            G  L+     E +K++ + +PP++ Q  I +V+     E AR+D  +  +E +   +LKE
Sbjct: 1315 GVALKNVANIEVLKQIQIPLPPLEAQEQIMSVLTQIEQEIARLDDEIASLEGKEQEILKE 1374



 Score = 78.7 bits (192), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 62/442 (14%), Positives = 139/442 (31%), Gaps = 72/442 (16%)

Query: 24   HWKVVPIKRFTKLNTGRTSESGKDIIYIGLE-------DVESGTGKYLPKDGNSRQSDTS 76
             W++  +        G    S K  I++                 +         + D+ 
Sbjct: 1187 GWEMAKLGDICDFRRGPFGGSLKKEIFVKNGYKVYEQQHAIKNDFEIGNYFITQEKFDSM 1246

Query: 77   TVSIFAKGQILYGKLGPYLRKAIIADF--DGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
                     ++    G   + AI+      GI +   L L+ K+         ++  ++ 
Sbjct: 1247 KSFEVIPNDLIVSCSGTIGKIAIVPSNAKQGIINQALLRLRLKNGRTNSKTLKIILDNLN 1306

Query: 135  QRIEAICEGATMSHA-DWKGIGNIPMPIPPLAEQVLIREKIIAETVRID----------- 182
                    G  + +  + + +  I +P+PPL  Q  I   +      I            
Sbjct: 1307 NPFNERAHGVALKNVANIEVLKQIQIPLPPLEAQEQIMSVLTQIEQEIARLDDEIASLEG 1366

Query: 183  ------------------------TLITERIRFIELLKEKKQALVSYIVTK-GLNPDVKM 217
                                     +I E++   + LKE   AL+++ + K GL P +  
Sbjct: 1367 KEQEILKEFLRLSRERERERSQKPKVILEKLERAKALKESYLALLTHALEKAGLKPTL-- 1424

Query: 218  KDSGIEWVGLVP-DHWEVKPFFALVTE-----LNRKNTKLIESNILSLSYGNIIQKLETR 271
              + ++ +   P   W++    A+         +RK  +  +   L +S   +  ++ T 
Sbjct: 1425 -ATLLDNLPTPPASGWDLVKLGAVCQILIGGTPSRKKPEYFKGTHLWVSIAEMDGQVITN 1483

Query: 272  NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS- 330
                  +       V    ++ +   L + K S+    +  + + T+  +A      +  
Sbjct: 1484 TKEKITDEAIKVSNVK---LIPKGTTLLSFKLSIGKVALAGKDLYTNEAIAGLIPKDNQV 1540

Query: 331  -TYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVK-RLPVLVPPIKEQFDITNVINVETAR 388
                 + +       +     +   +SL  + +   + + +PP++EQ  I +V       
Sbjct: 1541 LDRFLFALFKGGAINLDLKGNNAFGKSLNSQTLNDEVKIPLPPLQEQEQIVDV------- 1593

Query: 389  IDVLVEKIEQSIVLLKERRSSF 410
                + KIEQ    L+    S 
Sbjct: 1594 ----IAKIEQERTALENAMKSL 1611



 Score = 61.3 bits (147), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 20/171 (11%), Positives = 59/171 (34%), Gaps = 13/171 (7%)

Query: 240  LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY----ETYQIVDPGEIVFRF 295
            +    +RKN +     I  L+ G+  +     +   +           ++V  G +V   
Sbjct: 969  MGGTPSRKNPQYWNGTIKWLTIGDYAEYQSITDTKERITEAGLQASNVKLVPKGAVVVSI 1028

Query: 296  IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ 355
                     L             A +++ P+          +  Y   ++   + +  ++
Sbjct: 1029 YATIGRVGIL-----EGEMTTNQAIVSIIPNQDFRARYLMYVIGYYKFQLLDEVITTSQK 1083

Query: 356  SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
            ++    ++ + +  PP++ Q  I      E A+++   +++++ I   +  
Sbjct: 1084 NINLGILQNMRIPKPPLQVQEQII----TECAKVEKRTQELQEGIQSYQNL 1130



 Score = 48.6 bits (114), Expect = 0.002,   Method: Composition-based stats.
 Identities = 28/189 (14%), Positives = 59/189 (31%), Gaps = 8/189 (4%)

Query: 23   KHWKVVPIKRFTKLNTGRTSESGKDI------IYIGLEDVESGTGKYLPKDGNSRQSDTS 76
              W +V +    ++  G T    K        +++ + +++        +         S
Sbjct: 1437 SGWDLVKLGAVCQILIGGTPSRKKPEYFKGTHLWVSIAEMDGQVITNTKEKITDEAIKVS 1496

Query: 77   TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
             V +  KG  L       + K  +A  D   +     L PKD        + L       
Sbjct: 1497 NVKLIPKGTTLLS-FKLSIGKVALAGKDLYTNEAIAGLIPKDNQVLDRFLFALFKGGAIN 1555

Query: 137  IEAICEGATMSHADWKGIGN-IPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            ++     A     + + + + + +P+PPL EQ  I + I         L           
Sbjct: 1556 LDLKGNNAFGKSLNSQTLNDEVKIPLPPLQEQEQIVDVIAKIEQERTALENAMKSLKGQQ 1615

Query: 196  KEKKQALVS 204
            +   +  ++
Sbjct: 1616 EATLKKYLN 1624


>gi|90411352|ref|ZP_01219364.1| Restriction modification system, type I [Photobacterium profundum
           3TCK]
 gi|90327881|gb|EAS44212.1| Restriction modification system, type I [Photobacterium profundum
           3TCK]
          Length = 418

 Score = 83.7 bits (205), Expect = 5e-14,   Method: Composition-based stats.
 Identities = 56/388 (14%), Positives = 123/388 (31%), Gaps = 19/388 (4%)

Query: 45  GKDIIYIGLEDVESGTGKYLPKD-GNSRQSDTSTVSIFAKGQILYGKLGPYLRK----AI 99
            + +  I  E + S        +     ++         KG I++ + G           
Sbjct: 33  DEGVRVIPAEAIFSDGLNPTTFNHITLEKAQDLKRYRLQKGDIVFARRGAQACGRSALVG 92

Query: 100 IADFDGICSTQFL---VLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGN 156
             +   I  T  +   VL+   V+PE L   + S      ++    GATM + +   + +
Sbjct: 93  DKEEGSIAGTGLIYLRVLKKDLVVPEYLHLAVSSAKSLAWLKTHAIGATMPNLNNSVLCS 152

Query: 157 IPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVK 216
           +P+ +P   +QV +          I   I    +  + L+E  QA+             K
Sbjct: 153 LPLNLPSYEKQVEVVN----GYYPIIKKIRVNTKLNQTLEEITQAIFKSWFVDFDPVKAK 208

Query: 217 MKDSGIEWVGLVPDHWEVKPFFA-LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL 275
           M    +E +         +         +         S+ + ++ G  I K       +
Sbjct: 209 MNGEQLEGMDEATASLFPEKLVESEFGVIPEGWEVKAFSDWVKITKGKNITKKTIVEGDV 268

Query: 276 --KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL 333
                  +     +   +    I +     +     +    I  S    +        +L
Sbjct: 269 PVVAGGLKPAYFHNTHNVEGPAITISASGANAGFINLYYESIWASDSSYISKAATPLFFL 328

Query: 334 AWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
            ++   ++  K++       +  +   D +RL V+VP  +        +        V V
Sbjct: 329 QYVALKFNQKKIYDMQTGAAQPHIYPRDFERLMVVVPSDELCQK----LEEIFTSFFVTV 384

Query: 394 EKIEQSIVLLKERRSSFIAAAVTGQIDL 421
              +Q  + L + R + +   ++G+I+L
Sbjct: 385 SNYKQQNIELSKLRDTLLPKLLSGEIEL 412



 Score = 50.6 bits (119), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 25/186 (13%), Positives = 50/186 (26%), Gaps = 13/186 (6%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           G IP+ W+V     + K+  G+       +            G      G  + +     
Sbjct: 235 GVIPEGWEVKAFSDWVKITKGKNITKKTIV-----------EGDVPVVAGGLKPAYFHNT 283

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
                  I     G       +       S    +   K   P     ++      ++I 
Sbjct: 284 HNVEGPAITISASGANAGFINLYYESIWASDSSYI--SKAATPLFFLQYVALKFNQKKIY 341

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
            +  GA   H   +    + + +P       + E   +  V +     + I   +L    
Sbjct: 342 DMQTGAAQPHIYPRDFERLMVVVPSDELCQKLEEIFTSFFVTVSNYKQQNIELSKLRDTL 401

Query: 199 KQALVS 204
              L+S
Sbjct: 402 LPKLLS 407


>gi|310778706|ref|YP_003967039.1| restriction modification system DNA specificity domain protein
           [Ilyobacter polytropus DSM 2926]
 gi|309748029|gb|ADO82691.1| restriction modification system DNA specificity domain protein
           [Ilyobacter polytropus DSM 2926]
          Length = 500

 Score = 83.7 bits (205), Expect = 5e-14,   Method: Composition-based stats.
 Identities = 27/195 (13%), Positives = 65/195 (33%), Gaps = 3/195 (1%)

Query: 224 WVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY 283
                P  W   P    V   +R    + +        G     L           Y   
Sbjct: 1   MNDNKPIEWIKVPLIECVGIYDRYRKPISKIERDKRVSGKNCNDLFKYYGATGLAGYIDD 60

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC 343
            +++   ++               + ++      + +  +     ++ +L   +  ++  
Sbjct: 61  YLLEGEYVILGEDGAPFLDSLKSKSYLVSGKFWVNNHAHILKSYFNNKFLLHYLNQFNYK 120

Query: 344 KVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
                     R  L    +K++P++VPP+ EQ ++ + I    + +D  +E ++++   L
Sbjct: 121 NYV---SGTTRLKLNQTSMKKIPIIVPPLAEQEEVVSRIESLFSELDNGIENLKRAQKQL 177

Query: 404 KERRSSFIAAAVTGQ 418
           K  R S +  A  G+
Sbjct: 178 KLYRQSILRDAFEGK 192



 Score = 70.6 bits (171), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 55/465 (11%), Positives = 127/465 (27%), Gaps = 70/465 (15%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           P  W  VP+     +         K      +              G +  +      + 
Sbjct: 6   PIEWIKVPLIECVGIYDRYRKPISKIERDKRVSGKNCN--DLFKYYGATGLAGYIDDYLL 63

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
               ++ G+ G     ++ +    +    ++      +       +LL        +   
Sbjct: 64  EGEYVILGEDGAPFLDSLKSKSYLVSGKFWVNNHAHILKSYFNNKFLLHYLNQFNYKNYV 123

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV-----------------RIDTL 184
            G T    +   +  IP+ +PPLAEQ  +  +I +                         
Sbjct: 124 SGTTRLKLNQTSMKKIPIIVPPLAEQEEVVSRIESLFSELDNGIENLKRAQKQLKLYRQS 183

Query: 185 ITERIRFIELLKEKKQA--------------LVSYIVTKGLNPDVKMKDSGIEWVGLVPD 230
           I       +L +E +++              +    V    N   + K+   EW      
Sbjct: 184 ILRDAFEGKLTEEWRRSNPDKVEDPEVLVEKIKEARVEYYENQLEEWKERVEEWKSRGEV 243

Query: 231 HWEVKPFFALVTELNRKNTKLIESNILSLSYGNII------------------------- 265
             +      L       N          +++GN                           
Sbjct: 244 GKKPSRPSKLKEFTLSTNKMKNIQGWTWMAFGNTFTESPQNGIYKPANLYGEGTKIIRID 303

Query: 266 --------QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
                    K   +++ L  E  E Y++ +   ++ R   +    +      + E  +  
Sbjct: 304 NFYDGVINSKKTFKSLKLTEEEVEKYKLTNNNILINRVNSIDYLGKCGLCQNIDESTVFE 363

Query: 318 SAYMAVKPHGID--STYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIK 373
           S  M +     +  S ++   + S                + S+   DV  +   +  + 
Sbjct: 364 SNIMKITVDNKNIVSKFITLYLTSRIGISELRKNAKHAVNQASINQTDVSNVLAPICSLD 423

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           EQ ++  ++  + +  + L   +  S+   +  R S +  A +G+
Sbjct: 424 EQNEVIKIVEEKLSICENLERTLRSSLKRSELLRQSILNKAFSGK 468


>gi|94266803|ref|ZP_01290467.1| Restriction modification system DNA specificity domain [delta
           proteobacterium MLMS-1]
 gi|93452525|gb|EAT03114.1| Restriction modification system DNA specificity domain [delta
           proteobacterium MLMS-1]
          Length = 603

 Score = 83.7 bits (205), Expect = 5e-14,   Method: Composition-based stats.
 Identities = 26/191 (13%), Positives = 51/191 (26%), Gaps = 12/191 (6%)

Query: 229 PDHWEVKPFFALVTE-----LNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY 283
           P  W       + T        R  T+  +  I     G ++    +       E     
Sbjct: 102 PAGWAYCRLNEIGTWGSGATPKRGITEYYDGGIPWFKSGELVGDFISSAEETITERALKE 161

Query: 284 QIVD---PGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY 340
             V    PG+++         K S+             A  A  P               
Sbjct: 162 TSVRLNLPGDVLIAMYGATIGKASILKC----HATTNQAVCACTPFSGILNTYLLNFLKA 217

Query: 341 DLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
                      G + ++  E +  +   +PP+ EQ  I   ++   A  D L ++    +
Sbjct: 218 SKRHFTSMGAGGAQPNISKEKIIAVVFPLPPLAEQHRIVEKVDELMALCDRLEQQTSDQL 277

Query: 401 VLLKERRSSFI 411
              +    + +
Sbjct: 278 AAHETLVETLL 288



 Score = 82.1 bits (201), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 29/190 (15%), Positives = 57/190 (30%), Gaps = 7/190 (3%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           +P  W    +       +G T +          I +    ++         +    R   
Sbjct: 101 LPAGWAYCRLNEIGTWGSGATPKRGITEYYDGGIPWFKSGELVGDFISSAEETITERALK 160

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
            ++V +   G +L    G  + KA I       +       P   +              
Sbjct: 161 ETSVRLNLPGDVLIAMYGATIGKASILKCHATTNQAVCACTPFSGILN-TYLLNFLKASK 219

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           +   ++  G    +   + I  +  P+PPLAEQ  I EK+       D L  +    +  
Sbjct: 220 RHFTSMGAGGAQPNISKEKIIAVVFPLPPLAEQHRIVEKVDELMALCDRLEQQTSDQLAA 279

Query: 195 LKEKKQALVS 204
            +   + L+ 
Sbjct: 280 HETLVETLLD 289



 Score = 62.5 bits (150), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 24/194 (12%), Positives = 56/194 (28%), Gaps = 15/194 (7%)

Query: 218 KDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKP 277
           K S  E    +PD WE      +  +     +   +    S     +++           
Sbjct: 375 KISEEEKPFTLPDGWEWCRLGEIANQSEAGWSPKCDDVPKSGKEWGVLKVSAVTWGKFLS 434

Query: 278 ESYET---------YQIVDPGEIVFRFIDLQNDKR--SLRSAQVMERGIITSAYMAVKPH 326
           +  +             V P + +    +         +    V    I++   + ++  
Sbjct: 435 DENKRLPQHLEPRRKHEVKPNDFLISRANTAELVARSVVVPEDVPSHLIMSDKIIRIEFS 494

Query: 327 GIDSTYLAWLMR-SYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
            +       L   S      +  +  G     +++  E ++ L V +PP  EQ  I   +
Sbjct: 495 PLVFPGYINLFNASSVARAYYARVAGGTSSSMKNVSREQIQALCVPLPPYPEQLRILRKM 554

Query: 383 NVETARIDVLVEKI 396
           +      + L   +
Sbjct: 555 DKVVHLCEQLKAHL 568



 Score = 58.3 bits (139), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 35/236 (14%), Positives = 75/236 (31%), Gaps = 18/236 (7%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNT-------GRTSESGKDIIYIGL 53
           +K  K  P  K S  +    +P  W+   +      +            +SGK+   + +
Sbjct: 367 IKKTKPLP--KISEEEKPFTLPDGWEWCRLGEIANQSEAGWSPKCDDVPKSGKEWGVLKV 424

Query: 54  EDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGP---YLRKAIIADF---DGIC 107
             V  G           +  +            L  +        R  ++ +      I 
Sbjct: 425 SAVTWGKFLSDENKRLPQHLEPRRKHEVKPNDFLISRANTAELVARSVVVPEDVPSHLIM 484

Query: 108 STQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT---MSHADWKGIGNIPMPIPPL 164
           S + + ++   ++         +  V +   A   G T   M +   + I  + +P+PP 
Sbjct: 485 SDKIIRIEFSPLVFPGYINLFNASSVARAYYARVAGGTSSSMKNVSREQIQALCVPLPPY 544

Query: 165 AEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDS 220
            EQ+ I  K+       + L     R  +  +   +A+ +  +T  L  D   + +
Sbjct: 545 PEQLRILRKMDKVVHLCEQLKAHLGRASQTRQRFAEAVANNTITSCLARDSLFRQT 600


>gi|160889099|ref|ZP_02070102.1| hypothetical protein BACUNI_01520 [Bacteroides uniformis ATCC 8492]
 gi|156861566|gb|EDO54997.1| hypothetical protein BACUNI_01520 [Bacteroides uniformis ATCC 8492]
          Length = 385

 Score = 83.7 bits (205), Expect = 5e-14,   Method: Composition-based stats.
 Identities = 66/390 (16%), Positives = 133/390 (34%), Gaps = 39/390 (10%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           K WK   IK        +   SGK I  + L+ +ES TG+ + K     ++  S  S F 
Sbjct: 16  KGWKTAKIKDVAPEMPSKEQLSGK-IWLLNLDMIESNTGRIIEKVYEDVENALSVQS-FD 73

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ--GWLLSIDVTQRIEAI 140
           +G +L+ KL PYL K +I D  G+ +T+ + L+P+      +     L           I
Sbjct: 74  EGNVLFSKLRPYLNKVVIPDEPGMATTELVPLRPEPSKLHKVFLSHLLRGNQFVNYANDI 133

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
             G  M       + N    +PP+ +Q+                                
Sbjct: 134 AGGTKMPRMPLTELRNFDCILPPMDKQLEFVFIAEQVDKSKFGD---------------- 177

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
              S  +    NP    + + ++ +G             +      K + +    +    
Sbjct: 178 -FKSQFIEMFGNPLSLNQKNELKRLGEC--CILNPRRPNIALCDTDKVSFIPMPAVSEDG 234

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID--LQNDKRSLRSAQVMERGIITS 318
           Y   +   E   +       + +   +  +++F  I   ++N K ++        G+ ++
Sbjct: 235 YLVDMTDEEYGKVK------KGFTYFENNDVLFAKITPCMENGKGAIVHGLTNGIGMGST 288

Query: 319 AYMAVKPHG--IDSTYLAWLMRSYDLCKV--FYAMGSGLRQSLKFEDVKRLPVLVPPIKE 374
            +  ++P        +L  L R     +       G+G ++ +    +    V +P ++E
Sbjct: 289 EFHVLRPINGISSPYWLLALTRMPIFRERAAKNMSGTGGQKRVSASYLDHFMVGLPAMEE 348

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLK 404
           Q            + D     I++++V L 
Sbjct: 349 QRRF----EAIYRQADKSKSVIQKALVYLN 374


>gi|237807925|ref|YP_002892365.1| restriction modification system DNA specificity domain-containing
           protein [Tolumonas auensis DSM 9187]
 gi|237500186|gb|ACQ92779.1| restriction modification system DNA specificity domain protein
           [Tolumonas auensis DSM 9187]
          Length = 371

 Score = 83.7 bits (205), Expect = 5e-14,   Method: Composition-based stats.
 Identities = 51/403 (12%), Positives = 116/403 (28%), Gaps = 43/403 (10%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W +V +    +    +T  +   +         +G   Y  +  +              
Sbjct: 2   SWPIVKLHDICRPRQRKTIAASSLLDSGYSVYGANGKIGYYSEFTHEFP----------- 50

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
             ++    G       I++     +   + +   D L  +   +L    + +  E +  G
Sbjct: 51  -TLMITCRGATCGNVHISEPRSYINGNAMAIDDIDPL-IVDLKYLYYFFLKRGFEDVISG 108

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           +       +G+  + +P+PPL EQ  I   +                  E        L 
Sbjct: 109 SAQPQITGQGLTKVEIPLPPLEEQKRIAAILDKADAIRQKRQQAIELADEF-------LR 161

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
           S  +    +P   +K   +E +              +      K+       I  +  GN
Sbjct: 162 SVFLDMFGDPVTNLKGWEVESL---------SSLIHVQGGYAFKSADFGTEGIPVVKIGN 212

Query: 264 IIQKL----ETRNMGLKPESYETYQIVDPGEIVFRFIDLQN---DKRSLRSAQVMERGII 316
             +K         +            +  G+++                   +   +  +
Sbjct: 213 ANKKGFTAESIDFVQPTHPEKLKQYELFSGDLLMSLTGTVGKDDYGNITEVTEEYNKYYL 272

Query: 317 TSAY--MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ-SLKFEDVKRLPVLVPPIK 373
                 +++K   I+  YL + +    +         G+RQ ++   D+ +L V VP + 
Sbjct: 273 NQRVAKISIKSKKINKEYLKYCLSHQAMKNELIKNNRGVRQANISNSDIYQLVVPVPELN 332

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           +Q    +        I+    ++E   V   E  +S  A   +
Sbjct: 333 DQ----DFFCDIVKNIEKQKNRLEGFYVESNELFASLSAELFS 371


>gi|329963226|ref|ZP_08300963.1| type I restriction modification DNA specificity domain protein
           [Bacteroides fluxus YIT 12057]
 gi|328528922|gb|EGF55862.1| type I restriction modification DNA specificity domain protein
           [Bacteroides fluxus YIT 12057]
          Length = 407

 Score = 83.7 bits (205), Expect = 5e-14,   Method: Composition-based stats.
 Identities = 62/404 (15%), Positives = 132/404 (32%), Gaps = 42/404 (10%)

Query: 24  HWKVVPIKRFTKLNTGRTSES---GKDIIYIGLEDV-ESGTGKYLPKDGNSRQSDTS-TV 78
            W   P+  F     G   ++   G+   +I + D+  +    Y     +    D     
Sbjct: 25  EWSSQPLTDFMNFKNGLNPDAKRFGRGTKFISVMDILNNQYICYDNIRASVELQDGDIET 84

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFD-----GICSTQFLVLQPKDVLPELLQGWL-LSID 132
                G IL+ +    L     A+        I     +  + K     L   +L  S  
Sbjct: 85  YGVDYGDILFQRSSETLEDVGRANVYLDSKPAIFGGFVIRGKSKGNYNPLFFRYLLASPT 144

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
             +RI     GA   +    G+  + + IP L+EQ  I + +     RI T         
Sbjct: 145 ARKRIIVKGAGAQHFNIGQDGLSKVSLDIPRLSEQEKIGKLLQCVDARIATQ-------- 196

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
             + EK Q+L+  +    ++  + +K   +                   T          
Sbjct: 197 NKIIEKLQSLIKGL----IDDIITLKCGQLVAF-----ETLYSKAGEGGTPTTSNTEFYD 247

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPE---SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
             +I  +   ++  K  + N     E      +  ++    I++            +   
Sbjct: 248 NGSIPFIKIDDLRNKYLSANKDYITELGLKKSSAWLIPTHSIIYSNGATIGAISINKYPV 307

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVL 368
             ++GI+      V    ID  +L + M+S    K    + + G  ++   +D+  +   
Sbjct: 308 CTKQGILG----IVPNTNIDVEFLYYFMQSSYFQKEVERVVTEGTMKTAYLKDINHIKCP 363

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQS-IVLLKERRSSFI 411
           +P +  Q +I++ ++V       L E +E+  +   + ++   +
Sbjct: 364 IPDLDRQKEISHFLSVL-----SLKEDVERQLLQKYQIQKQYLL 402



 Score = 62.9 bits (151), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 31/207 (14%), Positives = 71/207 (34%), Gaps = 8/207 (3%)

Query: 213 PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
           P+++  +   EW       +                     S +  L+   I       +
Sbjct: 15  PNLRFPEFSGEWSSQPLTDFMNFKNGLNPDAKRFGRGTKFISVMDILNNQYICYDNIRAS 74

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH--GIDS 330
           + L+    ETY  VD G+I+F+      +     +  +  +  I   ++         + 
Sbjct: 75  VELQDGDIETYG-VDYGDILFQRSSETLEDVGRANVYLDSKPAIFGGFVIRGKSKGNYNP 133

Query: 331 TYLAWLMRSYDLCKVFYAMGSGLRQ-SLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
            +  +L+ S    K     G+G +  ++  + + ++ + +P + EQ  I  ++    AR 
Sbjct: 134 LFFRYLLASPTARKRIIVKGAGAQHFNIGQDGLSKVSLDIPRLSEQEKIGKLLQCVDAR- 192

Query: 390 DVLVEKIEQSIVLLKERRSSFIAAAVT 416
              +    + I  L+      I   +T
Sbjct: 193 ---IATQNKIIEKLQSLIKGLIDDIIT 216


>gi|153955213|ref|YP_001395978.1| Type I restriction enzyme, specificity subunit [Clostridium
           kluyveri DSM 555]
 gi|146348071|gb|EDK34607.1| Type I restriction enzyme, specificity subunit [Clostridium
           kluyveri DSM 555]
          Length = 382

 Score = 83.7 bits (205), Expect = 5e-14,   Method: Composition-based stats.
 Identities = 49/387 (12%), Positives = 111/387 (28%), Gaps = 44/387 (11%)

Query: 25  WKVVPIKRFTKLNTGRTS---------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           W+   +K       G            +      ++ + D+            +  +   
Sbjct: 20  WEQRKLKDVAYYIRGSFPQPYTNPDFYDEENGKPFVQVADIGFDLRLNPDTKAHISKIAE 79

Query: 76  STVSIFAKGQILYGKLGPY---LRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
                   G+I+    G     + +  I  +D       L+ +      +      +   
Sbjct: 80  PKSRFVEAGKIVVALQGSIEKSIGRTAITQYDAYFDRTILIFEEYKFPIDKQYFAQVIKK 139

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           + +  +    GAT+S    + + +  + +P + EQ  I              IT   R +
Sbjct: 140 LFEIEKERAWGATISTITKEHLNDFIIGVPKIEEQNKIGLFFRNLDNL----ITLHQRKL 195

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
             LK++K+ L+  +  K      +++  G        D WE +    +V   + ++ K +
Sbjct: 196 NHLKDEKKGLLQKMFPKKGENFPELRFPG------FTDPWEQRKLKNIVDVKSGRDYKHL 249

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
               + +             +  K +                 I +       +   +  
Sbjct: 250 SEGKIPVYGTGGYMLSVNEALSYKED----------------AIGIGRKGTIDKPYILRA 293

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI 372
                       P   ++    + +  +   K      S    SL    +  + VL+P  
Sbjct: 294 PFWTVDTLFYAVPENNNNLNFVYDI--FQNIKWKQKDESTGVPSLSKTAINNVDVLIPDY 351

Query: 373 KEQFDITNVINVETARIDVLVEKIEQS 399
           KEQ  I +        ID L+   ++ 
Sbjct: 352 KEQKQIGDF----FQDIDNLITLHQRE 374



 Score = 64.8 bits (156), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 20/207 (9%), Positives = 56/207 (27%), Gaps = 11/207 (5%)

Query: 207 VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ 266
                +P  + K   +        ++    F    T  +  + +  +  +     G  ++
Sbjct: 13  FPGFTDPWEQRKLKDV-------AYYIRGSFPQPYTNPDFYDEENGKPFVQVADIGFDLR 65

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
                   +   +    + V+ G+IV              +    +     +  +  +  
Sbjct: 66  LNPDTKAHISKIAEPKSRFVEAGKIVVALQGSIEKSIGRTAITQYDAYFDRTILIFEEYK 125

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
                     +                  ++  E +    + VP I+EQ  I        
Sbjct: 126 FPIDKQYFAQVIKKLFEIEKERAWGATISTITKEHLNDFIIGVPKIEEQNKIGLF----F 181

Query: 387 ARIDVLVEKIEQSIVLLKERRSSFIAA 413
             +D L+   ++ +  LK+ +   +  
Sbjct: 182 RNLDNLITLHQRKLNHLKDEKKGLLQK 208


>gi|254787776|ref|YP_003075205.1| type I restriction-modification system specificity subunit
           [Teredinibacter turnerae T7901]
 gi|237684679|gb|ACR11943.1| putative type I restriction-modification system specificity subunit
           [Teredinibacter turnerae T7901]
          Length = 401

 Score = 83.7 bits (205), Expect = 5e-14,   Method: Composition-based stats.
 Identities = 61/414 (14%), Positives = 129/414 (31%), Gaps = 30/414 (7%)

Query: 24  HWKVVPIKRF-TKLNTGRT---SESGKDIIYIGLEDV-ESGTGKYLPKDGNSRQSDTSTV 78
            W    +K F   +  G      +S     ++G+++V E+G+         S +      
Sbjct: 2   SWITASLKDFACTVFDGPHATPKDSESGHSFLGIKNVSENGSLDLSDPKFISDEEFPKWT 61

Query: 79  SIFA--KGQILYGKLGPYLRKAIIADFDGICST---QFLVLQPKDVLPELLQGWLLSIDV 133
                 K  +++       R AII +    C       + +    ++P  L  + LS   
Sbjct: 62  RRVKPKKNDVVFSYEATLHRYAIIPEGFDGCLGRRMGLVRVDEGKLVPRYLLYYFLSPLW 121

Query: 134 TQRIE-AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
               +  +  GAT++    K   +  +  P L  Q  I E + +    I+          
Sbjct: 122 RAYADTKVIIGATVNRLPIKDFPDFQISAPDLHHQQRIVEILASYDDLIENNRRRIQLLE 181

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           E  +   Q    ++   G     ++K       G      +             K T+  
Sbjct: 182 ESARLLYQEWFVHLRFPG---HEQVKTIDGVPEGWDKTTADKVMDVLSGGTPKTKVTEFW 238

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPE---SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
           +  I   +  +              +   S    ++     +               S  
Sbjct: 239 DGEIPFFTPKDAKGLFTYNTEKTITDLGLSKCNGRLYPKYTVFITARGT----VGKLSFA 294

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVL 368
                +  S Y  V    I   +L   +++    + F A  SG    ++  +  K +P L
Sbjct: 295 QRPMAMNQSCYALVTKGEISQEFLYSSLKAS--IEQFKARASGAVFDAIVVDTFKNIPFL 352

Query: 369 VPPIKEQFDITNVINVETARIDVL-VEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           VP    + + T  +    ++ID L ++ +      L + R   +   ++G++ +
Sbjct: 353 VPSSSLRDEFTEQVKDVFSQIDNLSIQNM-----KLAQARDLLLPKLMSGELTV 401



 Score = 46.7 bits (109), Expect = 0.007,   Method: Composition-based stats.
 Identities = 21/169 (12%), Positives = 50/169 (29%), Gaps = 8/169 (4%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           +P+ W      +   + +G T ++        +I +   +D +        K        
Sbjct: 209 VPEGWDKTTADKVMDVLSGGTPKTKVTEFWDGEIPFFTPKDAKGLFTYNTEKTITDLGLS 268

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
                ++ K  +     G   + +       + +     L  K  +      +       
Sbjct: 269 KCNGRLYPKYTVFITARGTVGKLSFAQRPMAM-NQSCYALVTKGEI-SQEFLYSSLKASI 326

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           ++ +A   GA           NIP  +P  + +    E++     +ID 
Sbjct: 327 EQFKARASGAVFDAIVVDTFKNIPFLVPSSSLRDEFTEQVKDVFSQIDN 375


>gi|148988251|ref|ZP_01819714.1| phosphoglycerate kinase [Streptococcus pneumoniae SP6-BS73]
 gi|147926715|gb|EDK77788.1| phosphoglycerate kinase [Streptococcus pneumoniae SP6-BS73]
          Length = 522

 Score = 83.7 bits (205), Expect = 5e-14,   Method: Composition-based stats.
 Identities = 69/441 (15%), Positives = 132/441 (29%), Gaps = 71/441 (16%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNSR 71
            IP  W+ V      ++  G +    KD        I +I + D E G           +
Sbjct: 83  DIPDTWEWVRFSTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINNVKEKIK 142

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
           +S  +      KG  L      + R  I+     I      +   ++ L +    ++LS 
Sbjct: 143 KSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYLFYILSS 202

Query: 132 D-VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
           + V  +  ++  GA + + +   + +I +P+PPLAEQ  I E I +   ++D       R
Sbjct: 203 NVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLAEQQRIIEAIESALEKVDEYAESYNR 262

Query: 191 FIELLKEKK----QALVSYIVTKG--------------LNPDVKMKDSGIEW-------- 224
             +L KE      ++++ Y +                 L      K    E         
Sbjct: 263 LEQLDKEFPDKLKKSILQYAMQGKLVEQDPNDESVEVLLEKIRAEKQKLFEEGKIKKKDL 322

Query: 225 ------------------------VGLVPDHWEVKPFFALVTELNRKNTK-----LIESN 255
                                   +  +P+ W    F +LV     K           + 
Sbjct: 323 DISIVSQGDDNSYYGNKDETTSYPIYEIPEAWRYIKFASLVNFRIGKTPPRSEATFWGTE 382

Query: 256 ILSLSYGNIIQKLETRN----MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
           I  +S  ++       N    +       +   I   G ++  F         L      
Sbjct: 383 IPWVSISDMPISGYVTNTRESISKLALKSKKIDISPKGTLLMSFKLSIGKVAILDIPATH 442

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
              II+  +       I   YL   +              G  ++L    +  L + +  
Sbjct: 443 NEAIIS-IFPYANKENIIRDYLMIFLPLISTLGDSKDAIKG--KTLNSTSISELLIPISN 499

Query: 372 IKEQFDITNVINVETARIDVL 392
            +E   I   +++   ++  L
Sbjct: 500 HEEMKRIIFKVDLLFQKVSQL 520



 Score = 78.7 bits (192), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 43/210 (20%), Positives = 81/210 (38%), Gaps = 12/210 (5%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
            I+    +PD WE   F  LV  +   + + I+  + S   G    K+     G K  + 
Sbjct: 77  EIDVPYDIPDTWEWVRFSTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINN 136

Query: 281 ETYQIVDPG-----EIVFRFIDLQNDKRSLRSAQVMERGIITSAY--MAVKPHGIDSTYL 333
              +I   G      +      L N     R   +   G I   +  ++   + ++  YL
Sbjct: 137 VKEKIKKSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYL 196

Query: 334 AWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            +++ S  +   F ++ SG   ++L  + V  + + +PP+ EQ  I   I     ++D  
Sbjct: 197 FYILSSNVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLAEQQRIIEAIESALEKVDEY 256

Query: 393 VEKIEQSIVLLKE----RRSSFIAAAVTGQ 418
            E   +   L KE     + S +  A+ G+
Sbjct: 257 AESYNRLEQLDKEFPDKLKKSILQYAMQGK 286



 Score = 48.3 bits (113), Expect = 0.002,   Method: Composition-based stats.
 Identities = 19/119 (15%), Positives = 43/119 (36%), Gaps = 8/119 (6%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDV-ESGTGKYLPKDGNS 70
           I  IP+ W+ +          G+T    +      +I ++ + D+  SG      +  + 
Sbjct: 347 IYEIPEAWRYIKFASLVNFRIGKTPPRSEATFWGTEIPWVSISDMPISGYVTNTRESISK 406

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
               +  + I  KG +L       + K  I D     +   + + P      +++ +L+
Sbjct: 407 LALKSKKIDISPKGTLLMS-FKLSIGKVAILDIPATHNEAIISIFPYANKENIIRDYLM 464


>gi|257880783|ref|ZP_05660436.1| type I restriction-modification system DNA specificity subunit
           [Enterococcus faecium 1,230,933]
 gi|257815011|gb|EEV43769.1| type I restriction-modification system DNA specificity subunit
           [Enterococcus faecium 1,230,933]
          Length = 217

 Score = 83.7 bits (205), Expect = 5e-14,   Method: Composition-based stats.
 Identities = 27/192 (14%), Positives = 67/192 (34%), Gaps = 11/192 (5%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLET-RNMGLKPESYE 281
           E++G      +         E   ++ +       ++  G  I K E+ + +  +     
Sbjct: 31  EFIGEDVSDGDWIQ-----KEHIHESGEYRIVQTGNIGIGRYIDKPESAKYLNQESFDEL 85

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD 341
               ++PG+I+   +     +  +      +        +        S +L   M S +
Sbjct: 86  KANEINPGDILISRLADPAGRALILPFTSSKMVTAVDVAIIRPNKNFISHFLVTRMNSSE 145

Query: 342 LCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
                    SG   + L  ++++++ + VP I+EQ  I         ++D  +   EQ +
Sbjct: 146 TLNDISKQVSGTSHKRLSRKNLEKIELNVPNIEEQEKIG----QLFKKLDEAIAGHEQKL 201

Query: 401 VLLKERRSSFIA 412
              +E + + + 
Sbjct: 202 ATYQELKKALLQ 213



 Score = 47.9 bits (112), Expect = 0.003,   Method: Composition-based stats.
 Identities = 35/200 (17%), Positives = 67/200 (33%), Gaps = 22/200 (11%)

Query: 24  HWKVVPIKRFT-------KLNTGRTSESGKDIIYIGLEDVESGTGKYLPK-----DGNSR 71
            W++  +K F                    +   +   ++  G G+Y+ K       N  
Sbjct: 23  DWELKELKEFIGEDVSDGDWIQKEHIHESGEYRIVQTGNI--GIGRYIDKPESAKYLNQE 80

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADF----DGICSTQFLVLQPKDVLPELLQGW 127
             D    +    G IL  +L     +A+I  F            ++   K+ +   L   
Sbjct: 81  SFDELKANEINPGDILISRLADPAGRALILPFTSSKMVTAVDVAIIRPNKNFISHFLVTR 140

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
           + S +    I     G +      K +  I + +P + EQ    EKI     ++D  I  
Sbjct: 141 MNSSETLNDISKQVSGTSHKRLSRKNLEKIELNVPNIEEQ----EKIGQLFKKLDEAIAG 196

Query: 188 RIRFIELLKEKKQALVSYIV 207
             + +   +E K+AL+  + 
Sbjct: 197 HEQKLATYQELKKALLQRMF 216


>gi|219855644|ref|YP_002472766.1| hypothetical protein CKR_2301 [Clostridium kluyveri NBRC 12016]
 gi|219569368|dbj|BAH07352.1| hypothetical protein [Clostridium kluyveri NBRC 12016]
          Length = 390

 Score = 83.7 bits (205), Expect = 5e-14,   Method: Composition-based stats.
 Identities = 49/387 (12%), Positives = 111/387 (28%), Gaps = 44/387 (11%)

Query: 25  WKVVPIKRFTKLNTGRTS---------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           W+   +K       G            +      ++ + D+            +  +   
Sbjct: 28  WEQRKLKDVAYYIRGSFPQPYTNPDFYDEENGKPFVQVADIGFDLRLNPDTKAHISKIAE 87

Query: 76  STVSIFAKGQILYGKLGPY---LRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
                   G+I+    G     + +  I  +D       L+ +      +      +   
Sbjct: 88  PKSRFVEAGKIVVALQGSIEKSIGRTAITQYDAYFDRTILIFEEYKFPIDKQYFAQVIKK 147

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           + +  +    GAT+S    + + +  + +P + EQ  I              IT   R +
Sbjct: 148 LFEIEKERAWGATISTITKEHLNDFIIGVPKIEEQNKIGLFFRNLDNL----ITLHQRKL 203

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
             LK++K+ L+  +  K      +++  G        D WE +    +V   + ++ K +
Sbjct: 204 NHLKDEKKGLLQKMFPKKGENFPELRFPG------FTDPWEQRKLKNIVDVKSGRDYKHL 257

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
               + +             +  K +                 I +       +   +  
Sbjct: 258 SEGKIPVYGTGGYMLSVNEALSYKED----------------AIGIGRKGTIDKPYILRA 301

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI 372
                       P   ++    + +  +   K      S    SL    +  + VL+P  
Sbjct: 302 PFWTVDTLFYAVPENNNNLNFVYDI--FQNIKWKQKDESTGVPSLSKTAINNVDVLIPDY 359

Query: 373 KEQFDITNVINVETARIDVLVEKIEQS 399
           KEQ  I +        ID L+   ++ 
Sbjct: 360 KEQKQIGDF----FQDIDNLITLHQRE 382



 Score = 64.8 bits (156), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 20/207 (9%), Positives = 56/207 (27%), Gaps = 11/207 (5%)

Query: 207 VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ 266
                +P  + K   +        ++    F    T  +  + +  +  +     G  ++
Sbjct: 21  FPGFTDPWEQRKLKDV-------AYYIRGSFPQPYTNPDFYDEENGKPFVQVADIGFDLR 73

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
                   +   +    + V+ G+IV              +    +     +  +  +  
Sbjct: 74  LNPDTKAHISKIAEPKSRFVEAGKIVVALQGSIEKSIGRTAITQYDAYFDRTILIFEEYK 133

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
                     +                  ++  E +    + VP I+EQ  I        
Sbjct: 134 FPIDKQYFAQVIKKLFEIEKERAWGATISTITKEHLNDFIIGVPKIEEQNKIGLF----F 189

Query: 387 ARIDVLVEKIEQSIVLLKERRSSFIAA 413
             +D L+   ++ +  LK+ +   +  
Sbjct: 190 RNLDNLITLHQRKLNHLKDEKKGLLQK 216


>gi|126090307|ref|YP_001041762.1| restriction modification system DNA specificity subunit [Shewanella
           baltica OS155]
 gi|125999938|gb|ABN64007.1| restriction modification system DNA specificity domain [Shewanella
           baltica OS155]
          Length = 349

 Score = 83.7 bits (205), Expect = 6e-14,   Method: Composition-based stats.
 Identities = 47/369 (12%), Positives = 115/369 (31%), Gaps = 33/369 (8%)

Query: 51  IGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQ 110
           I  E +   T  ++  +   +QSD        +G I+  + G     A+I       +  
Sbjct: 5   IRPEQINRKTEIFINDEFYHKQSD----KWLREGDIVMVQSGHVGHTAVIPPELNNIAAH 60

Query: 111 FLVLQ--PKDVLPELLQGWLLSIDVTQRIEA-ICEGATMSHADWKGIGNIPMPIPPLAEQ 167
            L++   PK+ +      +    +  +   + I  G T+ H     + +  M      EQ
Sbjct: 61  ALIMFTDPKEEVSPYFLNFQFQTENIKTKLSEITTGNTIKHILSSEMKDFEMFFTDFEEQ 120

Query: 168 VLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGL 227
             I          I+    +  +          + +   + + + P        I + G 
Sbjct: 121 TAIGNTFQKLDSLINQHQQKHDKL---------SNIKKAMLEKMFPKQGETIPEIRFKGF 171

Query: 228 VPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVD 287
             + WE K   ++      ++         S  +  +    + +N  + P  + +     
Sbjct: 172 SGE-WEEKELGSVTQITMGQSPSGENYTNNSNDFILVQGNADLKNGFVVPRVWTSEVTKT 230

Query: 288 P--GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV 345
              G ++F       +        V+ RG+              + ++   ++       
Sbjct: 231 ATQGALIFSVRAPVGEVGKTNYDVVLGRGVAA---------INANEFIFQQLKKLKSDNY 281

Query: 346 FYA-MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLK 404
           ++         ++   ++    + V    EQ  I N       ++D L+ + +Q I  L 
Sbjct: 282 WHKVSAGSTFDAISSTELDSTLIWVSSDSEQTAIGNY----FQKLDTLINQHQQQITKLN 337

Query: 405 ERRSSFIAA 413
             + + ++ 
Sbjct: 338 NIKQACLSK 346


>gi|333030655|ref|ZP_08458716.1| restriction modification system DNA specificity domain protein
           [Bacteroides coprosuis DSM 18011]
 gi|332741252|gb|EGJ71734.1| restriction modification system DNA specificity domain protein
           [Bacteroides coprosuis DSM 18011]
          Length = 386

 Score = 83.7 bits (205), Expect = 6e-14,   Method: Composition-based stats.
 Identities = 49/404 (12%), Positives = 112/404 (27%), Gaps = 53/404 (13%)

Query: 26  KVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           +   I     +  G T             I +  +ED+    G+ L        S     
Sbjct: 14  EWKTIDTLFNIKNGYTPSKKQKEFWTNGTIPWFRMEDIRI-NGRILRDSIQHVSSSAIRG 72

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGI---CSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
           ++     ++          A+I +        ++  L    K  L      +        
Sbjct: 73  NLIPANSLIMSTTATLGEHALILEPFLTNQQITSFSLKEPYKGKLNVKFLFYYFFHFGEW 132

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPP-------LAEQVLIREKIIAETVRIDTLITER 188
            I    +  +++      +    +PIP        LA Q  I   +   +     L  E 
Sbjct: 133 CINNANKNGSLAIIGVNKLKKYKIPIPCPNNPEKSLAIQQKIVGILDTFSELTAELTAEL 192

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN 248
               +  +  ++ L++             ++  +EW          KP   +      K 
Sbjct: 193 TARKKQYEYYREQLLT------------FEEDEVEW----------KPLGEVAELKRGKT 230

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
                     ++  N I        G +  +Y   +    GE +            L   
Sbjct: 231 ----------ITAKNKIDGDIPVISGGQQPAYYNAKFNRKGETITIAGSGAYAGHVLYW- 279

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVL 368
              E   ++ A+       I +T   +         ++          +  +D+++L + 
Sbjct: 280 --DEPIFVSDAFSIKPNISILNTKYVFYFLMKYQNWIYGLKKGVGVPHVYPKDLEKLFIP 337

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           +P +K Q  I  +++  +     L  ++       +  R   ++
Sbjct: 338 IPTLKIQQKIVGILDTFSELTAELTAELTARKKQYEYYRDLLLS 381


>gi|238809803|dbj|BAH69593.1| hypothetical protein [Mycoplasma fermentans PG18]
          Length = 393

 Score = 83.7 bits (205), Expect = 6e-14,   Method: Composition-based stats.
 Identities = 54/405 (13%), Positives = 116/405 (28%), Gaps = 42/405 (10%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           P  ++ V ++   ++   +          I +   +   GK+     N  Q D     IF
Sbjct: 13  PDGYEWVKLEDAVEIFDNKR---------IPIAQNKRIKGKFPYYGANGIQ-DYVNDFIF 62

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
               IL G+ G  +                    P                V +  E   
Sbjct: 63  DGEYILIGEDGSVIDGL---------------NHPILNYATGKFWVNNHSHVIKAKEEFL 107

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR-IDTLITERIRFIELLKEKKQ 200
                       I +I    PP   +  +   +I +    I   I E +    +L+ + +
Sbjct: 108 NRFIYHFLSILDISDIVRGTPPKMTKGNLLTILIPKIPLKIQEKIVEILERFRILEAELK 167

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
           A +   V          K                     +    ++     +  N   +S
Sbjct: 168 AELE--VRGKQFDFWINKLLNFTNFDKNNSKELQSIGCFISGLRSKNKDSFVNGNQRYVS 225

Query: 261 YGNIIQKLETR---NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER---- 313
           Y ++    E     N  +K    E    ++ G+++F       D+    S   ++     
Sbjct: 226 YLDVFNNKEINYLPNNFVKIFDDENQNDLNYGDVIFCGSSENFDETGYASVYTIKNDEKV 285

Query: 314 --GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVP 370
                +  +     +     +  +     D   +     +G  R +L  E + ++ + +P
Sbjct: 286 YLNSFSFIFRFKDNNLFLPKFSKYFFNCKDFRDLLLKCINGVTRFNLSKEKMSKIKIPIP 345

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVL----LKERRSSFI 411
           PI+ Q  I ++++  +     +   +   I L     K  R   +
Sbjct: 346 PIETQNKIVSILDKLSEYSQEINSGLPAEIELRSKQFKYYRDQLL 390


>gi|146294609|ref|YP_001185033.1| restriction modification system DNA specificity subunit [Shewanella
           putrefaciens CN-32]
 gi|145566299|gb|ABP77234.1| restriction modification system DNA specificity domain [Shewanella
           putrefaciens CN-32]
          Length = 420

 Score = 83.7 bits (205), Expect = 6e-14,   Method: Composition-based stats.
 Identities = 53/423 (12%), Positives = 113/423 (26%), Gaps = 35/423 (8%)

Query: 27  VVPIKRFTKLNTGR--TSES-GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF-- 81
           +  I    ++  G   T +   +   ++ +  ++ G  +       S             
Sbjct: 6   ITTIGGIAEIYDGPHATPKKLEQGPYFLSISSLDKGRLELNKSAFLSEDDFKKWTKRVTP 65

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQ----FLVLQPKDVLPELLQGWLLSIDVTQRI 137
            +G +L+         A++      C  +      + + K      L  +L         
Sbjct: 66  QEGDLLFSYETRLGEAALMPAGVRACLGRRMGLLRLNKAKVTPEYALYAYLSPAFQQTIK 125

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
                GAT+       + N P+ IPP+ EQ  + + +     +I+           + K 
Sbjct: 126 ANTLTGATVDRIALNDLPNFPIRIPPIEEQKKVAKLLSGIDKKIELNNHINAELEAMAKT 185

Query: 198 KKQALVSYIVTKGLNPDV---KMKDSGIEWVG------LVPDHWEVKPFFALVTELNRKN 248
                         +P       K SG + V        +P+ W VK    +    +   
Sbjct: 186 LYDYWFVQFDFPDDSPQRKGKPYKSSGGKMVYNPILKREIPEGWGVKKLSEIAMTGSGGT 245

Query: 249 ------TKLIESNILSLSYGNIIQKLETRNMGLKPE---SYETYQIVDPGEIVFRFIDLQ 299
                        I  ++ G +  +          E      + ++     I+       
Sbjct: 246 PLSSNPEFYENGTIPWINSGELNSQFIVSTSNFITELGLEKSSAKLCPKNTILMAMYGAT 305

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKF 359
             K S              A   + P   +               +        R +L  
Sbjct: 306 AGKVSFIDF----PATTNQAICTINPFDQEMNVYLKFTLERLYQYLINLSSGSARDNLSQ 361

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
           + +K L V++P            +  T     L+    +    L   R   +   + GQ+
Sbjct: 362 DKIKSLDVVIPAPSALTQF----HEFTKSKMELILTNLKENQELTSLRDWLLPMLMNGQV 417

Query: 420 DLR 422
            ++
Sbjct: 418 TVK 420



 Score = 82.1 bits (201), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 32/195 (16%), Positives = 58/195 (29%), Gaps = 8/195 (4%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPKDGNSRQ 72
            IP+ W V  +       +G T  S          I +I   ++ S              
Sbjct: 224 EIPEGWGVKKLSEIAMTGSGGTPLSSNPEFYENGTIPWINSGELNSQFIVSTSNFITELG 283

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
            + S+  +  K  IL    G    K    DF    +     + P D    +   + L   
Sbjct: 284 LEKSSAKLCPKNTILMAMYGATAGKVSFIDFPATTNQAICTINPFDQEMNVYLKFTLERL 343

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
               +  +  G+   +     I ++ + IP  +      E   ++   I T + E     
Sbjct: 344 YQ-YLINLSSGSARDNLSQDKIKSLDVVIPAPSALTQFHEFTKSKMELILTNLKENQELT 402

Query: 193 ELLKEKKQALVSYIV 207
            L       L++  V
Sbjct: 403 SLRDWLLPMLMNGQV 417


>gi|90579611|ref|ZP_01235420.1| putative type I restriction-modification system specificity subunit
           [Vibrio angustum S14]
 gi|90439185|gb|EAS64367.1| putative type I restriction-modification system specificity subunit
           [Vibrio angustum S14]
          Length = 363

 Score = 83.3 bits (204), Expect = 6e-14,   Method: Composition-based stats.
 Identities = 55/402 (13%), Positives = 116/402 (28%), Gaps = 48/402 (11%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGK-----DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
            W +V +        G            +  Y+ L  +      Y      +   ++ST 
Sbjct: 2   SWPIVELGSVVSFVGGSQPPKSTFKFEPEDDYVRLLQIR----DYKSDKNLTFIPESSTK 57

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID--VTQR 136
               K  ++ G+ GP + +  +   +G  +   +   P + + +    + L  D      
Sbjct: 58  KFCKKDDVMIGRYGPPVFQI-LRGLEGAYNVALMKAVPSEKVDKDYLYYFLKQDKLFRLI 116

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
                  A  S  D   + + PM +PPL EQ  I   +                      
Sbjct: 117 DSLSQRTAGQSGIDMDALKSYPMLLPPLEEQKRIAAILDKAD------------------ 158

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
               A+           D  ++   ++  G +P  +   P         +  +      +
Sbjct: 159 ----AIRQKRKQAIELADEFLRSVFLDMFGDIPAGFSKYPLV-GCRGSVKAASGKSSKGV 213

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
           +S S  +I         G   E+  +  +V  G +  +               V +  I+
Sbjct: 214 ISDSSTDIPIYGGNGINGYATEALYSKPVVIVGRVGQQCGITTLTDG---PCWVTDNAIV 270

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
                       D+ YLA  ++   L      +       +    +    + +PPI EQ 
Sbjct: 271 ---LEITDLKKYDAAYLAHALKHSPLRDSVKRLD---LPFVNQSMILDYKIPLPPISEQK 324

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
              ++       +       ++ I + ++        A +GQ
Sbjct: 325 KFGSIRKNLLKHL----SLQQKGIGISEDNFQVLSQQAFSGQ 362


>gi|319775913|ref|YP_004138401.1| putative type I restriction-modification system [Haemophilus
           influenzae F3047]
 gi|317450504|emb|CBY86721.1| Putative type I restriction-modification system [Haemophilus
           influenzae F3047]
          Length = 418

 Score = 83.3 bits (204), Expect = 6e-14,   Method: Composition-based stats.
 Identities = 45/357 (12%), Positives = 118/357 (33%), Gaps = 16/357 (4%)

Query: 56  VESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQ 115
           V+ G  K L  + +   +    V        +                  + +   +   
Sbjct: 59  VDGGNVKLLTTNESDIWTTEELVQNNISEGEIIAIPWGGNPIVQYYKGKFVTADNRIATS 118

Query: 116 PKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKII 175
               + +    +   +     I +   G+ + H     +  + +PIPPL+ Q  I + + 
Sbjct: 119 NNTKILDNKFLYYFLLSKLDVISSFYRGSGIKHPSMYHVLEMLIPIPPLSVQTEIVKILD 178

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVK 235
             T     L +E    + L +++ +     +++             +E  G V    ++ 
Sbjct: 179 TLTELTSELTSELTSELILRQKQYEYYREKLLSF----------DSLELSGGVVQWIKLI 228

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETR----NMGLKPESYETYQIVDPGEI 291
               L+     +     E+ + ++ YG I     T        + PE  +  +    G++
Sbjct: 229 DLGELIRGNGLQKKDFTETGVPAIHYGQIYTYYGTFATKTKSFVSPELAKKLKKAKYGDV 288

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI-DSTYLAWLMRSYDLCKVFYAMG 350
           +                 +      +    A +P+   ++ YL +++++    K      
Sbjct: 289 LIAGTSENLKDVMKPLGWLGSEIAFSGDMFAFRPNKRVNTKYLTYILQTERFYKFKEKYA 348

Query: 351 SGLRQ-SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
            G +   +K ++     + +P  +EQ  I ++++      + + E +  +I   ++R
Sbjct: 349 QGTKVIRVKADNFLNYEIPLPTFEEQHRIVSILDKFETLTNSITEGLPLAIEQRQKR 405



 Score = 55.2 bits (131), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 23/185 (12%), Positives = 59/185 (31%), Gaps = 7/185 (3%)

Query: 234 VKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVF 293
               F  V +  +         + S     I+     + +        T + +    I  
Sbjct: 28  WDKRFNAVEKEKQPKVIKYHYYLASELKPLIVDGGNVKLLTTNESDIWTTEELVQNNISE 87

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI--DSTYLAWLMRSYDLCKVFYAMGS 351
             I       +        + +     +A   +    D+ +L + + S       +  GS
Sbjct: 88  GEIIAIPWGGNPIVQYYKGKFVTADNRIATSNNTKILDNKFLYYFLLSKLDVISSFYRGS 147

Query: 352 GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RR 407
           G+ +      V  + + +PP+  Q +I  +++  T     L  ++   ++L ++     R
Sbjct: 148 GI-KHPSMYHVLEMLIPIPPLSVQTEIVKILDTLTELTSELTSELTSELILRQKQYEYYR 206

Query: 408 SSFIA 412
              ++
Sbjct: 207 EKLLS 211


>gi|15611482|ref|NP_223133.1| type I restriction enzyme specificity subunit [Helicobacter pylori
           J99]
 gi|4154940|gb|AAD05986.1| TYPE I RESTRICTION ENZYME (SPECIFICITY SUBUNIT) [Helicobacter
           pylori J99]
          Length = 409

 Score = 83.3 bits (204), Expect = 6e-14,   Method: Composition-based stats.
 Identities = 62/403 (15%), Positives = 114/403 (28%), Gaps = 26/403 (6%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKD------IIYIGLEDVESGTGKYLPKDGNSRQ---S 73
             W+   +K   K+  G T  +         I +I  +D+ +  G+Y+ K   S      
Sbjct: 2   SEWQTFCLKDLGKIVGGATPPTNNPKNYGNKIAWITPKDLSTLQGRYIKKGSRSISRLGF 61

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
            + +  +  K  IL+    P      IA+     +  F  + P   +      + L    
Sbjct: 62  KSCSCVLLPKHAILFSSRAPI-GYVAIAEKRLCTNQGFKSIIPNKKI-YFEFLYYLLKYY 119

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPP-LAEQVLIREKIIAETVRIDTLITERIRFI 192
              I  I  G T        +G   + IPP   EQ  I   +     +I+          
Sbjct: 120 KDNISNIGGGTTFKEVSGATLGLFQVKIPPTYYEQQKIAHTLSILDQKIENNHKINELLH 179

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKM----KDSGIEWVGLVPDHWEVKPFFALVTELNRKN 248
           ++L+   +           N         K    + +  +  +         +      +
Sbjct: 180 KILELLYEQYFVRFDFLDENNKPYQTSGGKMKFSKELNRLIPNDFKVKTLGELITWISGS 239

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS--LR 306
                 +I     G I      +N      +Y TY  +     +    D+  DK      
Sbjct: 240 QPPKSCHIYEYKEGYI---RFIQNRDYSSNNYVTYIPISKNNKICYQYDIMMDKYGEAGS 296

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRL 365
               ++     +       +     Y+   + S  + K       +  R SL    +  L
Sbjct: 297 VRFGLQGAYNVALSKISVLNQSMQEYIRSYLNSKPIKKYLSNACMASTRASLNENHIYSL 356

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
            + +PPI                I   + K  QS   L   R 
Sbjct: 357 MLPIPPINLLQK----YEKIAKNIITAIIKNNQSTQTLTALRD 395



 Score = 39.4 bits (90), Expect = 1.2,   Method: Composition-based stats.
 Identities = 25/190 (13%), Positives = 51/190 (26%), Gaps = 2/190 (1%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVE-SGTGKYLPKDGNSRQSDTSTVS 79
           IP  +KV  +       +G        I       +       Y   +  +    +    
Sbjct: 220 IPNDFKVKTLGELITWISGSQPPKSCHIYEYKEGYIRFIQNRDYSSNNYVTYIPISKNNK 279

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           I  +  I+  K G                    +      + E ++ +L S  + + +  
Sbjct: 280 ICYQYDIMMDKYGE-AGSVRFGLQGAYNVALSKISVLNQSMQEYIRSYLNSKPIKKYLSN 338

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
            C  +T +  +   I ++ +PIPP+       +        I            L     
Sbjct: 339 ACMASTRASLNENHIYSLMLPIPPINLLQKYEKIAKNIITAIIKNNQSTQTLTALRDFLL 398

Query: 200 QALVSYIVTK 209
             L+   V  
Sbjct: 399 PLLLKQQVKP 408


>gi|254447694|ref|ZP_05061160.1| type I restriction-modification system S subunit [gamma
           proteobacterium HTCC5015]
 gi|198263037|gb|EDY87316.1| type I restriction-modification system S subunit [gamma
           proteobacterium HTCC5015]
          Length = 448

 Score = 83.3 bits (204), Expect = 6e-14,   Method: Composition-based stats.
 Identities = 48/410 (11%), Positives = 113/410 (27%), Gaps = 52/410 (12%)

Query: 40  RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAI 99
           RT  +     +     + +G G +  K    + +      +     I       Y     
Sbjct: 24  RTPSAIDTYAFDCEAVLLAGNGDFNLKYYKGKFNAYQRTYVIEP--IQISLKFLYYLTVS 81

Query: 100 IADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI-------EAICEGATMSHADWK 152
             +     +    +   K     +   +L  ++   RI        A+C+      +D  
Sbjct: 82  QIERITENNRGSAIRYLKLNDILMPFVYLPPVEEQHRIVQKVDELMALCDRLEQQTSDQL 141

Query: 153 GIG-NIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGL 211
                +   +     Q     ++     R+           + + + KQA++   V   L
Sbjct: 142 EAHETLVDTLLGTLTQSENATELADNWARLAAHFDTLFTTEQSIDKLKQAILQLAVMGRL 201

Query: 212 NPDVKMKDSGIEWVGL-------------------------------VPDHWEVKPFFAL 240
                  +  +E +                                  P  W       +
Sbjct: 202 VEQEAADEPAVEVIKRAQERKSQLLSEKLIKKQKELPDITEPEKPFSTPPLWAYARLDDI 261

Query: 241 VTELNR-----KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYE------TYQIVDPG 289
            TE+       K+       I  L   NI  +    +   +  +            + PG
Sbjct: 262 CTEVTSGSTPPKSEFSEAFGIPYLKVYNIRSQRVDFDYKPQYVTENYHRTTLKRSQLLPG 321

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
           ++V   +     K ++      E     +           + ++   +++    K    +
Sbjct: 322 DVVMNIVGPPLGKTAIIPDDHPEWNCNQAIVRFRPIEIELNQFIHLYLKAGIFLKTIELI 381

Query: 350 GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
           G+  + ++     + + + +PP  EQ  I   ++   A  D L E++ Q+
Sbjct: 382 GTAGQDNISVTKSRSIVIPLPPKAEQQRIVQKVDELMALCDQLKERLNQA 431



 Score = 69.1 bits (167), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 31/196 (15%), Positives = 67/196 (34%), Gaps = 12/196 (6%)

Query: 25  WKVVPIKRFT-KLNTGRTSESGK-----DIIYIGLEDVESGTGKYLPKDGNSRQSDTS-- 76
           W    +     ++ +G T    +      I Y+ + ++ S    +  K     ++     
Sbjct: 253 WAYARLDDICTEVTSGSTPPKSEFSEAFGIPYLKVYNIRSQRVDFDYKPQYVTENYHRTT 312

Query: 77  -TVSIFAKGQILYGKLGPYLRKAII---ADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
              S    G ++   +GP L K  I      +  C+   +  +P ++         L   
Sbjct: 313 LKRSQLLPGDVVMNIVGPPLGKTAIIPDDHPEWNCNQAIVRFRPIEIELNQFIHLYLKAG 372

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           +  +   +   A   +       +I +P+PP AEQ  I +K+       D L     +  
Sbjct: 373 IFLKTIELIGTAGQDNISVTKSRSIVIPLPPKAEQQRIVQKVDELMALCDQLKERLNQAC 432

Query: 193 ELLKEKKQALVSYIVT 208
           +   +  +A+V   + 
Sbjct: 433 KTRCQLAEAVVENALN 448



 Score = 56.7 bits (135), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 13/82 (15%), Positives = 31/82 (37%)

Query: 330 STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
           S    + +    + ++         + LK  D+    V +PP++EQ  I   ++   A  
Sbjct: 71  SLKFLYYLTVSQIERITENNRGSAIRYLKLNDILMPFVYLPPVEEQHRIVQKVDELMALC 130

Query: 390 DVLVEKIEQSIVLLKERRSSFI 411
           D L ++    +   +    + +
Sbjct: 131 DRLEQQTSDQLEAHETLVDTLL 152


>gi|293388422|ref|ZP_06632930.1| restriction endonuclease S subunit [Enterococcus faecalis S613]
 gi|312908542|ref|ZP_07767486.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis DAPTO 512]
 gi|312908988|ref|ZP_07767850.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis DAPTO 516]
 gi|291082197|gb|EFE19160.1| restriction endonuclease S subunit [Enterococcus faecalis S613]
 gi|310625509|gb|EFQ08792.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis DAPTO 512]
 gi|311290688|gb|EFQ69244.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis DAPTO 516]
          Length = 398

 Score = 83.3 bits (204), Expect = 7e-14,   Method: Composition-based stats.
 Identities = 63/404 (15%), Positives = 137/404 (33%), Gaps = 32/404 (7%)

Query: 24  HWKVVPIKRFTKLNTGRTSESG----KDIIYIGLEDVESG------TGKYLPKDGNSRQS 73
           +W++  +++ T   +G T             +   +V+              +  NS   
Sbjct: 8   NWELCKLEKLTDFFSGLTYSPDNVQKDGTFVLRSSNVKDNAIISADNVYVRNEVANSEHV 67

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
               V +  +     G      + A I            +   +   P+ L   L +   
Sbjct: 68  QVGDVIVVVRN----GSRSLIGKHAPINREMPNTVIGAFMTGLRSPSPKFLNTLLDTQQF 123

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
              I     GAT++         +   +P   ++    EKI +   ++D +IT   R ++
Sbjct: 124 NVEIHKNL-GATINQITTGEFKRMHFIVPTDEDEK---EKIGSLFRQLDDIITLHQRKLD 179

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
            LKE K+A +  +         K++ +  E  G               T+ ++     + 
Sbjct: 180 QLKELKKAYLQVMFPAKDERVPKLRFADFE--GEWEQCKLGNILTERNTQQSKSKEYPLV 237

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
           S  +        ++ E   +    +S + Y++ +  +IV+   +L   K    +     +
Sbjct: 238 SFTVEDGVTPKTERYEREQLVRGDKSSKKYKVTELNDIVYNPANL---KFGAIARNHYGK 294

Query: 314 GIITSAYMAVKPHGI--DSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVL 368
            + +  Y+    +     S+Y+   +   D          G    RQS+  E++  +  L
Sbjct: 295 AVFSPIYITFIVNDKLACSSYVEVFITRKDFISYSLKYQQGTVYERQSVSPENLLNMKFL 354

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           +P  KEQ  I +       ++D      ++ I  LK  + S++ 
Sbjct: 355 LPNTKEQEFIGHF----FEKLDCNSNFHKKKITQLKNLKKSYLQ 394



 Score = 56.3 bits (134), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 21/191 (10%), Positives = 59/191 (30%), Gaps = 8/191 (4%)

Query: 225 VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLET--RNMGLKPESYET 282
                +  +++      + L      + +     L   N+         N+ ++ E   +
Sbjct: 5   FNYNWELCKLEKLTDFFSGLTYSPDNVQKDGTFVLRSSNVKDNAIISADNVYVRNEVANS 64

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
             +     IV      ++               +  A+M          +L  L+ +   
Sbjct: 65  EHVQVGDVIVVVRNGSRSLIGKHAPINREMPNTVIGAFMTGLRSP-SPKFLNTLLDTQQF 123

Query: 343 CKVFYAMGSGLRQSLKFEDVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIV 401
               +         +   + KR+  +VP    E+  I +       ++D ++   ++ + 
Sbjct: 124 NVEIHKNLGATINQITTGEFKRMHFIVPTDEDEKEKIGS----LFRQLDDIITLHQRKLD 179

Query: 402 LLKERRSSFIA 412
            LKE + +++ 
Sbjct: 180 QLKELKKAYLQ 190


>gi|192361761|ref|YP_001984091.1| type I restriction system specificity protein [Cellvibrio japonicus
           Ueda107]
 gi|190687926|gb|ACE85604.1| type I restriction system specificity protein [Cellvibrio japonicus
           Ueda107]
          Length = 398

 Score = 83.3 bits (204), Expect = 7e-14,   Method: Composition-based stats.
 Identities = 52/415 (12%), Positives = 128/415 (30%), Gaps = 35/415 (8%)

Query: 23  KHWKVVPIKR-----FTKLNTGRTSE-------SGKDIIYIGLEDVESGTGKYLPKDGNS 70
             W+   + +        L TG           S      I ++D+      +       
Sbjct: 2   SEWREFTLGKLIDDGIADLQTGPFGTMLKASEYSDVGTPVIAVQDIGENRLIHNKFVYVE 61

Query: 71  RQSDTS-TVSIFAKGQILYGKLGPYLRKAIIADFD--GICSTQFLVLQPKDVLPELLQGW 127
           +   T  +     +G I++G+ G   R+A I   +   +  +  + L+    +  +   +
Sbjct: 62  QNIVTRLSRYKVKEGDIIFGRKGAVERRARIRKDEDGWLQGSDCIRLRFNSRINSIFISY 121

Query: 128 LL-SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
              S    + +     GATM   +   +  +P+ +PP+ EQ  I + + +   +ID L  
Sbjct: 122 QFGSKSYREWMIQNSTGATMPSLNQSVLKLLPIRLPPIEEQKAIADILSSFDDKIDLLHR 181

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
           +      + +   +        +       ++   +   G         P  ++      
Sbjct: 182 QNKTLESMAETLFRQWFVEDAQEDWEEKGLLELVDLVGGG--------TPKTSINEYWCG 233

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
               L   +I +   G I +    +N+        + +++     V            L 
Sbjct: 234 DIPWLSGGDIATHHKGFISR--SEKNITQIGLENSSAKLLTKLATVISARGTVGKHCLLA 291

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLP 366
           S         + +   + P   +  Y  +L+  + + ++  A    +  ++     +   
Sbjct: 292 S-----EMTFSQSNYGILPKIKNCYYFTYLLIGHIVEELQSAAYGSVFDTITTATFRDAT 346

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
              P  +    I                  +Q I +L++ R   +   + G+I +
Sbjct: 347 FKTPSEEL---IFAF-EEVVKGYFEKKLFNQQQIHILEKIRDGLLPKLMNGEITV 397


>gi|85711748|ref|ZP_01042804.1| type I restriction-modification system, S subunit, EcoA family
           protein [Idiomarina baltica OS145]
 gi|85694363|gb|EAQ32305.1| type I restriction-modification system, S subunit, EcoA family
           protein [Idiomarina baltica OS145]
          Length = 663

 Score = 83.3 bits (204), Expect = 7e-14,   Method: Composition-based stats.
 Identities = 61/465 (13%), Positives = 154/465 (33%), Gaps = 70/465 (15%)

Query: 23  KHWKVVPIKRFT-KLNTGRTSESGK-------DIIYIGLEDVES-GTGKYLPKDGNSRQS 73
            +W  V +  +  K+ +G T + GK       +I  I  ++V + G          +  +
Sbjct: 3   SNWPKVRLGDYCIKIGSGATPKGGKKVYLDEGEISLIRSQNVYNEGFSSSGLVYITNSAA 62

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGI---CSTQ--FLVLQPKDVLPELLQGWL 128
           D        +  IL    G  + +  +A  + +    +     + + P +  P  ++ +L
Sbjct: 63  DKLRNVEVQERDILINITGDSVARVCMAPREYLPARVNQHVAIIRVDPTEFNPNFVRYFL 122

Query: 129 LSIDVTQRIEAICE-GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
            + +  + +  I   GAT +      I N+ +  P L +Q  I +++ +   +I      
Sbjct: 123 STSEQQRLLLTIASAGATRNALTKSQIENLEIIKPNLEKQAAIAQQLSSLEDKIKVNNQV 182

Query: 188 RIRFIELLKEKKQAL--------------------------------------VSYIVTK 209
                ++ +   ++                                       ++ + T 
Sbjct: 183 NQTLEQIAQAIFKSWFVDFEPVKAKINALAAGGSQEDALLAAMQAISGKDKAQLTQLQTD 242

Query: 210 GLNPDVKMKDSGI--------EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
                 +++ +            +G +P+ W ++PF  +            E   +   Y
Sbjct: 243 SPEHYNQLRTTAELFPSAMQDSELGEIPEGWFLEPFSNIARLDTTSVKPAKEPEKIWEHY 302

Query: 262 -GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
                    +    L  +       V P  I+   ++    +  L         I ++ +
Sbjct: 303 SIPAFDDGMSPAFDLGVDIKSNKYRVFPASILVSKLNPHFPRTWLPDVFDSNAAICSTEF 362

Query: 321 MAVKPHGIDSTYLAW-LMRSYDLCKVFYAM---GSGLRQSLKFEDVKRLPVLVPPIKEQF 376
           M   P   +       +++S              +G RQ  + + V  + VL+P  +E  
Sbjct: 363 MQFVPIKPNQRAFVAGVVKSESFQNGIMMRVTGSTGSRQRAQPKQVAEMEVLLPS-EELR 421

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           +I +V+     +++     I +++  L + R + +   ++G++ +
Sbjct: 422 NIYSVL--IAPQLESQASNIREALN-LADVRDTLLPKLLSGELQV 463



 Score = 45.6 bits (106), Expect = 0.014,   Method: Composition-based stats.
 Identities = 24/121 (19%), Positives = 40/121 (33%), Gaps = 14/121 (11%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKL-NTGRTSESGKDIIY--IGLEDVESGTGKYLP 65
             +DS    +G IP+ W + P     +L  T        + I+    +   + G      
Sbjct: 260 AMQDSE---LGEIPEGWFLEPFSNIARLDTTSVKPAKEPEKIWEHYSIPAFDDGMSPAFD 316

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFD----GICSTQFLVLQPKDVLP 121
              + +    S         IL  KL P+  +  + D       ICST+F+   P     
Sbjct: 317 LGVDIK----SNKYRVFPASILVSKLNPHFPRTWLPDVFDSNAAICSTEFMQFVPIKPNQ 372

Query: 122 E 122
            
Sbjct: 373 R 373


>gi|319777021|ref|YP_004136672.1| anti-codon nuclease masking agent (prrb) [Mycoplasma fermentans
           M64]
 gi|318038096|gb|ADV34295.1| Anti-codon nuclease masking agent (PrrB) [Mycoplasma fermentans
           M64]
          Length = 397

 Score = 83.3 bits (204), Expect = 7e-14,   Method: Composition-based stats.
 Identities = 57/407 (14%), Positives = 131/407 (32%), Gaps = 42/407 (10%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           P  ++ V ++   ++   +          I +   +   GK+     N  Q D     IF
Sbjct: 13  PDGYEWVKLEDAVEIFDNKR---------IPIAQNKRIKGKFPYYGANGIQ-DYVNDFIF 62

Query: 82  AKGQILYGKLGPYLRKAIIA------DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
               IL G+ G  +                + +   ++   ++ L   +  +L  +D++ 
Sbjct: 63  DGEYILIGEDGSVIDGLNHPILNYATGKFWVNNHSHVIKAKEEFLNRFIYHFLSILDISD 122

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            +       T        +  I +P  PL  Q  I E +    +    L  E    +E+ 
Sbjct: 123 IVRG-----TPPKMTKGNLLTILIPKIPLKIQEKIVEILERFRILEAELKAELKAELEVR 177

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
            ++    ++ ++          K   ++ +G        K   + V    R  + L   N
Sbjct: 178 GKQFDFWINKLLNFTNFDKNNSK--ELQSIGCFISGLRSKNKDSFVNGNQRYVSYLDVFN 235

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER-- 313
              ++Y          N  +K    E    ++ G+++F       D+    S   ++   
Sbjct: 236 NKEINY--------LPNNFVKIFDDENQNDLNYGDVIFCGSSENFDETGYASVYTIKNDE 287

Query: 314 ----GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVL 368
                  +  +     +     +  +     D   +     +G  R +L  E + ++ + 
Sbjct: 288 KVYLNSFSFIFRFKDNNLFLPKFSKYFFNCKDFRDLLLKCINGVTRFNLSKEKMSKIKIP 347

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVL----LKERRSSFI 411
           +PPI+ Q  I ++++  +     +   +   I L     K  R   +
Sbjct: 348 IPPIETQNKIVSILDKLSEYSQEINSGLPAEIELRSKQFKYYRDQLL 394


>gi|218673271|ref|ZP_03522940.1| putative type I restriction enzyme specificity subunit [Rhizobium
           etli GR56]
          Length = 239

 Score = 83.3 bits (204), Expect = 7e-14,   Method: Composition-based stats.
 Identities = 23/123 (18%), Positives = 49/123 (39%), Gaps = 1/123 (0%)

Query: 297 DLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQ 355
                K +  +++     ++           +   +L WL+ S           +G    
Sbjct: 1   ISTGLKVARVTSKDAGCLLVQRVTRFRASEFLTQDFLWWLLSSQTFLSHSLQRATGSDLP 60

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            +  +D+   P+ +PP++EQ  I   I    A+ID L E+  +++ L+     + +A A 
Sbjct: 61  HISGDDISTCPIPIPPLEEQHKIARRIESAFAKIDRLAEEARRALQLVGRLDEAILAKAF 120

Query: 416 TGQ 418
            G+
Sbjct: 121 RGE 123


>gi|223983262|ref|ZP_03633455.1| hypothetical protein HOLDEFILI_00735 [Holdemania filiformis DSM
           12042]
 gi|223964755|gb|EEF69074.1| hypothetical protein HOLDEFILI_00735 [Holdemania filiformis DSM
           12042]
          Length = 359

 Score = 83.3 bits (204), Expect = 7e-14,   Method: Composition-based stats.
 Identities = 54/391 (13%), Positives = 119/391 (30%), Gaps = 36/391 (9%)

Query: 27  VVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQI 86
           +   K    +  G+  +S           VE+  G+Y P  G+      +   +     +
Sbjct: 2   LKTFKDILIIKNGKNQKS-----------VENPEGQY-PIYGSGGIIGFANNYLCEGNTV 49

Query: 87  LYGKLGPYLRKAIIADFDGICSTQF-LVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           + G+ G       +        T F LV     ++P+ L  + L  D       + +  T
Sbjct: 50  VIGRKGSINNPIFVDKPFWNVDTAFGLVTDRSKMIPKYLYYFCLHFDF----NRLNKAVT 105

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
           +       +  I + +P L  Q  + +K+  +   I  L  ++++  + L      + + 
Sbjct: 106 LPSLTKSDLLKIEIDVPDLVVQFKVVDKL-QKVELIINLKKQQLQKFDDL------IRAR 158

Query: 206 IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII 265
            V    +     K     ++  +              E        I +  L  +     
Sbjct: 159 FVEMFGDIKSNSKKWEQVYLKDISYLISGGTPSRAKPEYFEGEIPWISTVALGKTEIGFE 218

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
             +E         S     ++    ++F                   + I++   +    
Sbjct: 219 DAIEYITKDAIENSATK--LIPANSLLFGIRVGVGKVSKNVVPMCTNQDIVS---ITNID 273

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
              +  +L +L+   +    F     G   Q +K E +K + V    +K Q D       
Sbjct: 274 DNFNLVFLKYLL--DEYLDFFNGQKRGATIQGIKSETLKNILVPKVNLKLQNDF----EQ 327

Query: 385 ETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
              ++D     ++QS+   +E   S +    
Sbjct: 328 FVNQVDKSKLAVQQSLDKTQELFDSLMQKYF 358



 Score = 55.6 bits (132), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 30/200 (15%), Positives = 60/200 (30%), Gaps = 12/200 (6%)

Query: 15  VQWIGAIPKH---WKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLP 65
           V+  G I  +   W+ V +K  + L +G T    K      +I +I    +      +  
Sbjct: 160 VEMFGDIKSNSKKWEQVYLKDISYLISGGTPSRAKPEYFEGEIPWISTVALGKTEIGFED 219

Query: 66  --KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPEL 123
             +       + S   +     +L+G +   + K          +   + +   D    L
Sbjct: 220 AIEYITKDAIENSATKLIPANSLLFG-IRVGVGKVSKNVVPMCTNQDIVSITNIDDNFNL 278

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           +    L  +          GAT+     + + NI +P   L  Q    + +         
Sbjct: 279 VFLKYLLDEYLDFFNGQKRGATIQGIKSETLKNILVPKVNLKLQNDFEQFVNQVDKSKLA 338

Query: 184 LITERIRFIELLKEKKQALV 203
           +     +  EL     Q   
Sbjct: 339 VQQSLDKTQELFDSLMQKYF 358


>gi|218514809|ref|ZP_03511649.1| type I restriction-modification system, S subunit [Rhizobium etli
           8C-3]
          Length = 283

 Score = 83.3 bits (204), Expect = 8e-14,   Method: Composition-based stats.
 Identities = 33/219 (15%), Positives = 76/219 (34%), Gaps = 11/219 (5%)

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPF---FALVTELNRKNTKLIESNILSLSY 261
           + ++              E +  +P  W          +V     K+     + I  L  
Sbjct: 65  HALSSRRGARTNTHQVNFEAIADIPTSWADGIIAIGSEMVVGFAFKSEWFRAAGIKLLRG 124

Query: 262 GNI----IQKLETRNMGLKPESYETYQIVDPGEIVFRF---IDLQNDKRSLRSAQVMERG 314
            NI    I   + + +        +  +++  +IV      +     K +  + Q     
Sbjct: 125 ANIAPGAINWSDLKCLDTSIADEFSKYLIEEDDIVLAMDRPVISTGLKVARVTCQDAGCL 184

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIK 373
           ++           +  ++L WL+ S           +G     +  +D+   P+ +PP +
Sbjct: 185 LVQRVTRFRATEFVTQSFLWWLLNSQMFLSHSLQRATGSDLPHISGDDIATCPIPIPPKE 244

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           EQ +I   I    A+ID L  + ++++ L+ +   + +A
Sbjct: 245 EQHEIVRRIESAFAKIDRLAAEAKRALELVGKLDEAILA 283


>gi|15839330|ref|NP_300018.1| type I restriction-modification system specificity determinant
           [Xylella fastidiosa 9a5c]
 gi|9107979|gb|AAF85526.1|AE004080_8 type I restriction-modification system specificity determinant
           [Xylella fastidiosa 9a5c]
          Length = 412

 Score = 83.3 bits (204), Expect = 8e-14,   Method: Composition-based stats.
 Identities = 46/366 (12%), Positives = 118/366 (32%), Gaps = 40/366 (10%)

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           ++ G+ G Y       +   +  T + ++ PK  L      + +       ++   +G+ 
Sbjct: 56  VVLGRKGAYRGVEFCHESFWVIDTAYYLV-PKTDLDMRWLYYAVKHYKLGEVD---DGSP 111

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
           +       +  + + +PP  EQ  I + +     +I+           + +   +A    
Sbjct: 112 IPSTTRAAVYMLELDVPPKHEQHAIAKILGTLDDKIELNRRTNETLEAMARALFKAWCVD 171

Query: 206 I-------------------VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
                               +   L      +    EW G +P+ W V     +   L R
Sbjct: 172 FEPVRAKLEGRWQRGESLPGLPAHLYDLFPARLIESEW-GEIPEGWRVDSLGKVAVHLRR 230

Query: 247 --KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
             + +++ +            + +     G+             GEI+F  +     K  
Sbjct: 231 SVQPSEIKDETSYIALEHMPKRCIALAEWGVANGIESNKYEFKQGEILFGKLRPYFHKVG 290

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM---RSYDLCKVFYAMGSGL-RQSLKFE 360
           +        G+ ++  + + P  I  T+  +++    S    +   A  +G       + 
Sbjct: 291 VAPVD----GVCSTDIVVIAP--ILPTWFGFVLVHVSSDAFVEYTNAGSTGTKMPRTSWS 344

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQID 420
           ++ + PV++P           I   +  I  +++  E     L + R + +   ++G++ 
Sbjct: 345 EMAQYPVVLPHEDVAVAFNQHIQALSEEI--IIKIHESR--SLVQLRDTLLPKLISGELR 400

Query: 421 LRGESQ 426
           +    +
Sbjct: 401 VPDAER 406



 Score = 68.7 bits (166), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 46/192 (23%), Positives = 72/192 (37%), Gaps = 6/192 (3%)

Query: 16  QWIGAIPKHWKVVPIKRFTKLNTGRTSES--GKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
           +W G IP+ W+V  + +           S    +  YI LE +          +      
Sbjct: 208 EW-GEIPEGWRVDSLGKVAVHLRRSVQPSEIKDETSYIALEHMPKRCIAL--AEWGVANG 264

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPE-LLQGWLLSID 132
             S    F +G+IL+GKL PY  K  +A  DG+CST  +V+ P        +   + S  
Sbjct: 265 IESNKYEFKQGEILFGKLRPYFHKVGVAPVDGVCSTDIVVIAPILPTWFGFVLVHVSSDA 324

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
             +   A   G  M    W  +   P+ +P     V   + I A +  I   I E    +
Sbjct: 325 FVEYTNAGSTGTKMPRTSWSEMAQYPVVLPHEDVAVAFNQHIQALSEEIIIKIHESRSLV 384

Query: 193 ELLKEKKQALVS 204
           +L       L+S
Sbjct: 385 QLRDTLLPKLIS 396


>gi|160939176|ref|ZP_02086527.1| hypothetical protein CLOBOL_04070 [Clostridium bolteae ATCC
           BAA-613]
 gi|158438139|gb|EDP15899.1| hypothetical protein CLOBOL_04070 [Clostridium bolteae ATCC
           BAA-613]
          Length = 375

 Score = 82.9 bits (203), Expect = 8e-14,   Method: Composition-based stats.
 Identities = 52/396 (13%), Positives = 111/396 (28%), Gaps = 27/396 (6%)

Query: 26  KVVPIKRFTKLNTGRTS---ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
             V +     +  G+         +  ++   D+++     +    +          +  
Sbjct: 2   NQVELGTILHMEKGKKPQKQSKEIEDGFLPYVDIKAFEKGIIDSYASPE-----KCVLCD 56

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
            G +L    G        A    + ST  L     D L      + +    T  +    +
Sbjct: 57  DGDLLIVCDGSRSGLTGRAIKGVVGST--LSKISADGLTREYLRYFIQSKYT-LLNTQKK 113

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           G    H + + +    + IP L EQ  I  +I      +D  +       + L   +QA+
Sbjct: 114 GTGTPHLNAQILKQSKLIIPSLPEQERIVARIEELFSELDKAVETLKTTKQQLAVYRQAV 173

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
           +    +   +            +G                    KN  L E  I +++  
Sbjct: 174 LKEAFSCA-DTFEPFGSIMTSRLGK--------------MLDKEKNVGLPEQYIRNINVR 218

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
                L                 +  G+++                  +           
Sbjct: 219 WFSFDLSDLLKMRIETKEIEKYSIKYGDLIICEGGEPGRCAVWDRNDSIFYQKALHRVRF 278

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
                           S       Y  G+G+ + L  + + ++PV +  I +Q  +   I
Sbjct: 279 KNGENPKLYMYYLWFISQTGELEKYFTGTGI-KHLTGQSLLKVPVPIISISKQNTVVLKI 337

Query: 383 NVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
             + +  + + + IEQS+   +  R S +  A  G+
Sbjct: 338 ESQLSVCNQIEKMIEQSLQQAEAMRQSILKQAFEGR 373


>gi|110644783|ref|YP_672513.1| type I restriction enzyme EcoEI specificity protein [Escherichia
           coli 536]
 gi|110346375|gb|ABG72612.1| type I restriction enzyme EcoEI specificity protein [Escherichia
           coli 536]
          Length = 568

 Score = 82.9 bits (203), Expect = 8e-14,   Method: Composition-based stats.
 Identities = 60/482 (12%), Positives = 131/482 (27%), Gaps = 96/482 (19%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT 60
           +K  K  P+   S  + +  +P+ W+ V      ++  G      K           S +
Sbjct: 83  IKKQKPLPEI--SEEEKLFELPEGWEWVRFGNIYEMEYGNNLPQEK----------RSNS 130

Query: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLR-KAIIADFDGICSTQFLVLQPKDV 119
           G+Y     N      +   I     I+ G+ G              +    +  + P  +
Sbjct: 131 GEYNVYGSNGVVGTHNEACI-KSPCIIIGRKGSAGALNLSNQPACWVTDVAYSTIPPIAM 189

Query: 120 LPELLQGWLLSIDVTQRIEAICEGATMSHADW---------------KGIGNIPMPIPPL 164
           + E +     ++ + +  + I  G   + A                   +  +      L
Sbjct: 190 VLEFVFIQFHTLGLDKLGKGIKPGLNRNDAYSLVIAIPPRSEQKAIVSKVNELMSLCDQL 249

Query: 165 AEQV---------------------LIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
            +Q                         E++     RI             +   KQ ++
Sbjct: 250 EQQSLTSLDAHQQLVETLLGTLADSQNAEELAENWARISEHFDTLFTTEASVDALKQTIL 309

Query: 204 SYIVTKGLNPDVK-------------------------------MKDSGIEWVGLVPDHW 232
              V   L P                                  +  S  E    +P+ W
Sbjct: 310 QLAVMGKLVPQDPNDEPASELLKRIAQEKAQLVKEGKIKKQKPLLPISDEEKPFELPNGW 369

Query: 233 EVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI------- 285
           E      L+  ++   +    S   +     +++    +++  +    +           
Sbjct: 370 EWCRLGELIDSIDAGWSPACSSEPAAPGEWGVLKTTAVQSLEYREYENKALPKNKAPRPQ 429

Query: 286 --VDPGEIVFRFIDLQNDKRS-LRSAQVMERGIITSAYMAVK--PHGIDSTYLAWLMRSY 340
             V  G+I+      +N            E  +I+   +        I   Y++  +   
Sbjct: 430 LEVKAGDILITRAGPKNRVGISCLVENTRENLMISDKIIRFHLISEDISEKYISLCLNYG 489

Query: 341 DLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
                     SG+   + ++  + +K  P+ +P   EQ  IT+ IN        L  +I+
Sbjct: 490 FTSTYLENSKSGMAESQMNISQDILKMAPIAIPTTHEQLKITDKINEMMDYFITLKSQIQ 549

Query: 398 QS 399
            +
Sbjct: 550 SA 551



 Score = 62.1 bits (149), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 29/192 (15%), Positives = 62/192 (32%), Gaps = 16/192 (8%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
           S  E +  +P+ WE   F  +       N    + +           +           +
Sbjct: 93  SEEEKLFELPEGWEWVRFGNIYEMEYGNNLPQEKRS--------NSGEYNVYGSNGVVGT 144

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
           +    I  P  I+ R         +L  +      +   AY  + P  +   ++     +
Sbjct: 145 HNEACIKSPCIIIGRKGSA----GALNLSNQPACWVTDVAYSTIPPIAMVLEFVFIQFHT 200

Query: 340 YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
                    +G G++  L   D   L + +PP  EQ  I + +N   +  D L ++   S
Sbjct: 201 LG----LDKLGKGIKPGLNRNDAYSLVIAIPPRSEQKAIVSKVNELMSLCDQLEQQSLTS 256

Query: 400 IVLLKERRSSFI 411
           +   ++   + +
Sbjct: 257 LDAHQQLVETLL 268



 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 26/205 (12%), Positives = 50/205 (24%), Gaps = 16/205 (7%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDII-------YIGLEDVESGTGKYLPKDGNSRQ 72
            +P  W+   +           S +             +    V+S   +        + 
Sbjct: 364 ELPNGWEWCRLGELIDSIDAGWSPACSSEPAAPGEWGVLKTTAVQSLEYREYENKALPKN 423

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIA-----DFDGICSTQFLVLQPKDVLPELLQGW 127
                      G IL  + GP  R  I         + + S + +               
Sbjct: 424 KAPRPQLEVKAGDILITRAGPKNRVGISCLVENTRENLMISDKIIRFHLISEDISEKYIS 483

Query: 128 LLSIDVTQRIE----AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           L                    +  +     +   P+ IP   EQ+ I +KI        T
Sbjct: 484 LCLNYGFTSTYLENSKSGMAESQMNISQDILKMAPIAIPTTHEQLKITDKINEMMDYFIT 543

Query: 184 LITERIRFIELLKEKKQALVSYIVT 208
           L ++     +       AL +  + 
Sbjct: 544 LKSQIQSAQQTQLHLADALTNAAIN 568


>gi|326561038|gb|EGE11403.1| putative type I restriction enzyme HindVIIP specificity protein
           [Moraxella catarrhalis 7169]
 gi|326564413|gb|EGE14641.1| putative type I restriction enzyme HindVIIP specificity protein
           [Moraxella catarrhalis 12P80B1]
 gi|326567425|gb|EGE17540.1| putative type I restriction enzyme HindVIIP specificity protein
           [Moraxella catarrhalis BC1]
 gi|326569344|gb|EGE19404.1| putative type I restriction enzyme HindVIIP specificity protein
           [Moraxella catarrhalis BC8]
          Length = 454

 Score = 82.9 bits (203), Expect = 8e-14,   Method: Composition-based stats.
 Identities = 51/459 (11%), Positives = 127/459 (27%), Gaps = 82/459 (17%)

Query: 27  VVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQI 86
              +    +LN  R  + GK   ++ +  + + +               S    F  G I
Sbjct: 5   QTRLDEIAELNPTRALKKGKMTSFVEMASLPTNSRDIENIAQKEFSGSGSK---FKNGDI 61

Query: 87  LYGKLGPYLRKA-------IIADFDGICSTQFLVLQPKDVLPELLQGWLLSI--DVTQRI 137
           L+ ++ P L          +  D     ST+F+VL  ++   +    +      +     
Sbjct: 62  LFARITPCLENGKTAKVAGLQHDEIAHGSTEFIVLSAREPEFDEDYLYYFCRLSEFRNYA 121

Query: 138 EAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           ++  EG +      W+ +       P    +    + +     +I            + +
Sbjct: 122 KSRMEGTSGRQRVSWQALAEFEFDFPDKEIRKKAADMLKIFDDKIQLNTQTNQTLEAIAQ 181

Query: 197 EKKQALVSYI-------------------------VTKGLNPDVKMKD------------ 219
              ++                              V  G +                   
Sbjct: 182 AIFKSWFVDFDPVRAKAAALSEGKSEYEANLAAMSVICGKDTSELNDTEYKALWQIAEAF 241

Query: 220 ----SGIEWVGLVPDHWEVKPFFALVTELNR---KNTKLIESNILSLSYG----NIIQKL 268
                     G VP  WE      + +  N    K+ +   S I  +  G     I+   
Sbjct: 242 PSELVENIEFGEVPKGWENTTLSEICSMQNGYAFKSNEWTGSGIPVIKIGSVKPMIVDIE 301

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
               +  + E   +  ++  G+IV        +   + +    ++ ++        P  +
Sbjct: 302 SNGFVSEENEHIRSDFLLKQGDIVVGLTGYVGEVGRIPA---GDKAMLNQRVAKFVPKKL 358

Query: 329 DSTYLAWLM-----RSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
           D     +       R     +       G  + ++   ++   P+ +  ++        +
Sbjct: 359 DHELSYYNFVYCLARQRTFKEYAELNAKGSAQANISTRELLNYPICLASLE--------V 410

Query: 383 NVETA-RIDVL---VEKIEQSIVLLKERRSSFIAAAVTG 417
           +     +I+ L   +    Q   +L++ R   +   ++G
Sbjct: 411 HKFFEIKINELLYKILTNSQESKVLEKTRDLLLPKLLSG 449



 Score = 69.1 bits (167), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 25/174 (14%), Positives = 55/174 (31%), Gaps = 11/174 (6%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           G +PK W+   +     +  G   +S +     I  I +  V+            S +++
Sbjct: 252 GEVPKGWENTTLSEICSMQNGYAFKSNEWTGSGIPVIKIGSVKPMIVDIESNGFVSEENE 311

Query: 75  -TSTVSIFAKGQILYGKLGPYLRKAIIA-DFDGICSTQFLVLQPKDVLP-----ELLQGW 127
              +  +  +G I+ G  G       I      + + +     PK +         +   
Sbjct: 312 HIRSDFLLKQGDIVVGLTGYVGEVGRIPAGDKAMLNQRVAKFVPKKLDHELSYYNFVYCL 371

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
                  +  E   +G+  ++   + + N P+ +  L        KI     +I
Sbjct: 372 ARQRTFKEYAELNAKGSAQANISTRELLNYPICLASLEVHKFFEIKINELLYKI 425


>gi|191170640|ref|ZP_03032192.1| type I restriction enzyme EcoEI specificity protein [Escherichia
           coli F11]
 gi|300992647|ref|ZP_07179961.1| type I restriction modification DNA specificity domain protein
           [Escherichia coli MS 200-1]
 gi|52420939|emb|CAH55818.1| putative restriction modification enzyme S subunit [Escherichia
           coli]
 gi|190908864|gb|EDV68451.1| type I restriction enzyme EcoEI specificity protein [Escherichia
           coli F11]
 gi|300305268|gb|EFJ59788.1| type I restriction modification DNA specificity domain protein
           [Escherichia coli MS 200-1]
 gi|324014076|gb|EGB83295.1| type I restriction modification DNA specificity domain protein
           [Escherichia coli MS 60-1]
          Length = 568

 Score = 82.9 bits (203), Expect = 8e-14,   Method: Composition-based stats.
 Identities = 60/482 (12%), Positives = 131/482 (27%), Gaps = 96/482 (19%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT 60
           +K  K  P+   S  + +  +P+ W+ V      ++  G      K           S +
Sbjct: 83  IKKQKPLPEI--SEEEKLFELPEGWEWVRFGNIYEMEYGNNLPQEK----------RSNS 130

Query: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLR-KAIIADFDGICSTQFLVLQPKDV 119
           G+Y     N      +   I     I+ G+ G              +    +  + P  +
Sbjct: 131 GEYNVYGSNGVVGTHNEACI-KSPCIIIGRKGSAGALNLSNQPACWVTDVAYSTIPPIAM 189

Query: 120 LPELLQGWLLSIDVTQRIEAICEGATMSHADW---------------KGIGNIPMPIPPL 164
           + E +     ++ + +  + I  G   + A                   +  +      L
Sbjct: 190 VLEFVFIQFHTLGLDKLGKGIKPGLNRNDAYSLVIAIPPRSEQKAIVSKVNELMSLCDQL 249

Query: 165 AEQV---------------------LIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
            +Q                         E++     RI             +   KQ ++
Sbjct: 250 EQQSLTSLDAHQQLVETLLGTLADSQNAEELAENWARISEHFDTLFTTEASVDALKQTIL 309

Query: 204 SYIVTKGLNPDVK-------------------------------MKDSGIEWVGLVPDHW 232
              V   L P                                  +  S  E    +P+ W
Sbjct: 310 QLAVMGKLVPQDPNDEPASELLKRIAQEKAQLVKEGKIKKQKPLLPISDEEKPFELPNGW 369

Query: 233 EVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI------- 285
           E      L+  ++   +    S   +     +++    +++  +    +           
Sbjct: 370 EWCRLGELIDSIDAGWSPACSSEPAAPGEWGVLKTTAVQSLEYREYENKALPKNKAPRPQ 429

Query: 286 --VDPGEIVFRFIDLQNDKRS-LRSAQVMERGIITSAYMAVK--PHGIDSTYLAWLMRSY 340
             V  G+I+      +N            E  +I+   +        I   Y++  +   
Sbjct: 430 LEVKAGDILITRAGPKNRVGISCLVENTRENLMISDKIIRFHLISEDISEKYISLCLNYG 489

Query: 341 DLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
                     SG+   + ++  + +K  P+ +P   EQ  IT+ IN        L  +I+
Sbjct: 490 FTSTYLENSKSGMAESQMNISQDILKMAPIAIPTTHEQLKITDKINEMMDYFITLKSQIQ 549

Query: 398 QS 399
            +
Sbjct: 550 SA 551



 Score = 62.1 bits (149), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 29/192 (15%), Positives = 62/192 (32%), Gaps = 16/192 (8%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
           S  E +  +P+ WE   F  +       N    + +           +           +
Sbjct: 93  SEEEKLFELPEGWEWVRFGNIYEMEYGNNLPQEKRS--------NSGEYNVYGSNGVVGT 144

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
           +    I  P  I+ R         +L  +      +   AY  + P  +   ++     +
Sbjct: 145 HNEACIKSPCIIIGRKGSA----GALNLSNQPACWVTDVAYSTIPPIAMVLEFVFIQFHT 200

Query: 340 YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
                    +G G++  L   D   L + +PP  EQ  I + +N   +  D L ++   S
Sbjct: 201 LG----LDKLGKGIKPGLNRNDAYSLVIAIPPRSEQKAIVSKVNELMSLCDQLEQQSLTS 256

Query: 400 IVLLKERRSSFI 411
           +   ++   + +
Sbjct: 257 LDAHQQLVETLL 268



 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 26/205 (12%), Positives = 50/205 (24%), Gaps = 16/205 (7%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDII-------YIGLEDVESGTGKYLPKDGNSRQ 72
            +P  W+   +           S +             +    V+S   +        + 
Sbjct: 364 ELPNGWEWCRLGELIDSIDAGWSPACSSEPAAPGEWGVLKTTAVQSLEYREYENKALPKN 423

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIA-----DFDGICSTQFLVLQPKDVLPELLQGW 127
                      G IL  + GP  R  I         + + S + +               
Sbjct: 424 KAPRPQLEVKAGDILITRAGPKNRVGISCLVENTRENLMISDKIIRFHLISEDISEKYIS 483

Query: 128 LLSIDVTQRIE----AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           L                    +  +     +   P+ IP   EQ+ I +KI        T
Sbjct: 484 LCLNYGFTSTYLENSKSGMAESQMNISQDILKMAPIAIPTTHEQLKITDKINEMMDYFIT 543

Query: 184 LITERIRFIELLKEKKQALVSYIVT 208
           L ++     +       AL +  + 
Sbjct: 544 LKSQIQSAQQTQLHLADALTNAAIN 568


>gi|327474703|gb|EGF20108.1| hypothetical protein HMPREF9391_0217 [Streptococcus sanguinis
           SK408]
          Length = 388

 Score = 82.9 bits (203), Expect = 8e-14,   Method: Composition-based stats.
 Identities = 53/411 (12%), Positives = 125/411 (30%), Gaps = 47/411 (11%)

Query: 29  PIKRFTKLNTGR---------TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
             K  +  + G+           +      Y+ + D+            +  +SD     
Sbjct: 2   RYKNLSDFSIGKGTYGISASAVGKDDNLPTYLRITDINDDGTINFASLKSVDRSDADKYR 61

Query: 80  IFAKGQILYGKLGPYLRKAIIADFD--GICSTQFLVLQ---PKDVLPELLQGWLLSIDVT 134
           +     I++ + G    ++   D          FL+     P+  +P+ ++ +  S +  
Sbjct: 62  L-QPNDIVFARTGGSTGRSYFYDGKDGEFVFAGFLIKFSIDPQKCIPKFIKYYCQSREYY 120

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             + +   G+T  + + K    +P+P  PL +Q LI + +     +I             
Sbjct: 121 NWVASFNTGSTRGNINAKTFEKMPIPDLPLEQQQLIVDILSPIDDKI------------- 167

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
             E  + +  ++V    N       S    +G + +      F +       K    I+ 
Sbjct: 168 --ENNKKINHHLVAISKNYLKIFYSSNSIKLGDIFELKSGYAFKSKDWVDEGKPVIKIKD 225

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
                     +  ++ ++   K  ++E    V   EIV         K  +        G
Sbjct: 226 IDGITIDITNLNYVKNKSQLSKASNFE----VFGKEIVMALTGATTGKIGVIPKNF--NG 279

Query: 315 IITSAYMAVKPHGIDSTYLAWLM--RSYDLCKVFYAMGSGLRQSLKFEDVKR--LPVLVP 370
            +             S  + W +  +   +  +        + +L    V    L V   
Sbjct: 280 YVNQRVGLFYAKTELSYAVLWSILQQQNIITDLIKLSSGSAQANLSPFSVNSYDLNVTFK 339

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            + E       ++   + +  L       I  L + R + +   ++G++ +
Sbjct: 340 DLIE-------LDKVLSPLYELFCFNLSEIQRLSKLRDTLLPKLLSGELSV 383



 Score = 46.7 bits (109), Expect = 0.008,   Method: Composition-based stats.
 Identities = 19/146 (13%), Positives = 51/146 (34%), Gaps = 9/146 (6%)

Query: 28  VPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA- 82
           + +    +L +G   +S     +    I ++D++  T      +    +S  S  S F  
Sbjct: 194 IKLGDIFELKSGYAFKSKDWVDEGKPVIKIKDIDGITIDITNLNYVKNKSQLSKASNFEV 253

Query: 83  -KGQILYGKLGPYLRKAIIA--DFDGICSTQFLVLQPKDVLPELLQG-WLLSIDVTQRIE 138
              +I+    G    K  +   +F+G  + +  +   K  L   +    L   ++   + 
Sbjct: 254 FGKEIVMALTGATTGKIGVIPKNFNGYVNQRVGLFYAKTELSYAVLWSILQQQNIITDLI 313

Query: 139 AICEGATMSHADWKGIGNIPMPIPPL 164
            +  G+  ++     + +  + +   
Sbjct: 314 KLSSGSAQANLSPFSVNSYDLNVTFK 339


>gi|167750090|ref|ZP_02422217.1| hypothetical protein EUBSIR_01058 [Eubacterium siraeum DSM 15702]
 gi|167656963|gb|EDS01093.1| hypothetical protein EUBSIR_01058 [Eubacterium siraeum DSM 15702]
          Length = 377

 Score = 82.9 bits (203), Expect = 8e-14,   Method: Composition-based stats.
 Identities = 55/403 (13%), Positives = 127/403 (31%), Gaps = 39/403 (9%)

Query: 30  IKRFTKLNTG----RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI----F 81
           +    +           + G     I   ++  G G+ +    +          I     
Sbjct: 3   LNDICEFIVDCPHTTAPDEGAGYPLIRTPNI--GKGRLVLNGVHRVSEKVYRQRIQRGMP 60

Query: 82  AKGQILYGKLGPYLRKAIIADFDGIC---STQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
               +++ +  P    AI+ + + +C    T  L      V P+ L  ++L+     ++ 
Sbjct: 61  QDNDLIFAREAPAGNVAIVKNGEKVCLGQRTVLLRPDKSKVCPDYLVYYILAPAQQYKLL 120

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
               GAT++H +   I N+P+ +PPL  Q ++   + A    I+       + I+LL+E 
Sbjct: 121 GTANGATVAHVNLPVIRNMPVELPPLEVQEIVAGYLSAYDNLIEN----NQKQIKLLEEA 176

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
            Q L          P  +        V  VP+ W       +      K     +     
Sbjct: 177 AQRLYKEWFVDLRFPGYE----DTPIVDGVPEGWADGTLGDIAVFKRGKTITKAQ----- 227

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
                    +   N+ +     E     +        I +     +    ++    +  S
Sbjct: 228 ---------VSDGNIPVVAGGLEPAYYHNKANTTAPLITVSASGANAGFTRLYNIDVFAS 278

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
               +  +        +     +  K+        +  +  +D+  L + VP        
Sbjct: 279 DCSYIDSNSTPFLLFVYCFLKTNAMKLNSLQKGSAQPHVYAKDLNALVLSVPSEGVLTAF 338

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
             +++    RI +L    ++   +  + R   +   ++G+I++
Sbjct: 339 CGIVSPYFERIRLL----QRENEIAAQARDRMLPKLMSGEIEV 377



 Score = 71.0 bits (172), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 22/187 (11%), Positives = 59/187 (31%), Gaps = 15/187 (8%)

Query: 232 WEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG-- 289
             +      + +          +    +   NI +     N   +       Q +  G  
Sbjct: 1   MILNDICEFIVDCPHTTAPDEGAGYPLIRTPNIGKGRLVLNGVHRVSEKVYRQRIQRGMP 60

Query: 290 ---EIVFRFIDLQNDKRSLRSAQVMERGIITS--AYMAVKPHGIDSTYLAWLMRSYDLCK 344
              +++F       +   +++    E+  +      +      +   YL + + +     
Sbjct: 61  QDNDLIFAREAPAGNVAIVKN---GEKVCLGQRTVLLRPDKSKVCPDYLVYYILAPAQQY 117

Query: 345 VFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
                 +G     +    ++ +PV +PP++ Q  +   ++      D L+E  ++ I LL
Sbjct: 118 KLLGTANGATVAHVNLPVIRNMPVELPPLEVQEIVAGYLSA----YDNLIENNQKQIKLL 173

Query: 404 KERRSSF 410
           +E     
Sbjct: 174 EEAAQRL 180



 Score = 44.0 bits (102), Expect = 0.043,   Method: Composition-based stats.
 Identities = 26/199 (13%), Positives = 55/199 (27%), Gaps = 15/199 (7%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLP 65
            +P Y+D+ +  +  +P+ W    +        G+T               +   G    
Sbjct: 189 RFPGYEDTPI--VDGVPEGWADGTLGDIAVFKRGKTITKA-----------QVSDGNIPV 235

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ 125
             G    +     +      I     G       + + D   S    +       P LL 
Sbjct: 236 VAGGLEPAYYHNKANTTAPLITVSASGANAGFTRLYNIDVFASDCSYIDSNST--PFLLF 293

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
            +        ++ ++ +G+   H   K +  + + +P           +     RI  L 
Sbjct: 294 VYCFLKTNAMKLNSLQKGSAQPHVYAKDLNALVLSVPSEGVLTAFCGIVSPYFERIRLLQ 353

Query: 186 TERIRFIELLKEKKQALVS 204
            E     +        L+S
Sbjct: 354 RENEIAAQARDRMLPKLMS 372


>gi|268592728|ref|ZP_06126949.1| type I restriction enzyme EcoEI specificity protein [Providencia
           rettgeri DSM 1131]
 gi|291311502|gb|EFE51955.1| type I restriction enzyme EcoEI specificity protein [Providencia
           rettgeri DSM 1131]
          Length = 593

 Score = 82.9 bits (203), Expect = 8e-14,   Method: Composition-based stats.
 Identities = 62/496 (12%), Positives = 131/496 (26%), Gaps = 99/496 (19%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK-DIIYIGLEDVESG 59
           +K  K  P+   S  +    +P+ W+   +     +N      + + +I ++ +  + + 
Sbjct: 83  IKKQKPLPEI--SEDEKPFELPEGWEWTSLNEIALINPKIEVTNDEQEISFVPMPCISTR 140

Query: 60  TGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKA------IIADFDGICSTQFLV 113
                 ++           + FA G I   K+ P    +       + +  G+ +T+  V
Sbjct: 141 FDGTHDQEIKKWGEVKKGYTHFADGDIALAKITPCFENSKAVIFEGLKNGVGVGTTELHV 200

Query: 114 LQPKDVLPELLQGWLL---SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLI 170
            +P      L    L       +T     +   A           N P+P PP  EQ  I
Sbjct: 201 ARPLSSELNLQYILLNIKAPHYLTIGELQMTGSAGQKRVPRSFFENYPIPFPPKTEQARI 260

Query: 171 RE-----------------------------------------KIIAETVRIDTLITERI 189
            E                                         ++     RI+       
Sbjct: 261 VETFSELMSLCDQLEQQSLTSLEAHQQLVETLLATLTDSQNEKELAENWSRINQHFDTLF 320

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWV------------------------ 225
                +   KQ ++   V   L P     +   E +                        
Sbjct: 321 TTEASIDALKQTILQLAVMGKLVPQDPNDEPASELLKRIEQEKARLVKQGKIKKQKPLPP 380

Query: 226 -------GLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE 278
                    +P  WE      L        +   E +        +++          P 
Sbjct: 381 ISDEEKPFELPQGWEWCRLGNLAHNSEAGWSPQCEVSPRVDDNWGVLKISSVTWSEFNPN 440

Query: 279 SYET---------YQIVDPGEIVFRFIDL-QNDKRSLRSAQVMERGIITSAYMA--VKPH 326
             +             V   + +    +      RS+         ++ S  +       
Sbjct: 441 ENKALPKHLEPKIEYEVKARDFLISRANTADLVARSVVVPDSPPNHLMLSDKIIRFQFSK 500

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
            +D+ Y+  +  S      +  +  G     +++    V  L V +P   EQ +I   + 
Sbjct: 501 LVDANYINLVNNSKYSRTYYSEVAGGTSSSMKNVSRIQVSSLLVALPSYNEQLNIVEKVR 560

Query: 384 VETARIDVLVEKIEQS 399
             T   + L  +++ +
Sbjct: 561 NLTLLCEHLKSRLQSA 576



 Score = 73.7 bits (179), Expect = 6e-11,   Method: Composition-based stats.
 Identities = 28/202 (13%), Positives = 60/202 (29%), Gaps = 9/202 (4%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLE---TRNMGLK 276
           S  E    +P+ WE      +     +      E  I  +    I  + +    + +   
Sbjct: 93  SEDEKPFELPEGWEWTSLNEIALINPKIEVTNDEQEISFVPMPCISTRFDGTHDQEIKKW 152

Query: 277 PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWL 336
            E  + Y     G+I    I    +       + ++ G+            + S      
Sbjct: 153 GEVKKGYTHFADGDIALAKITPCFENSKAVIFEGLKNGVGVGTTELHVARPLSSELNLQY 212

Query: 337 MR------SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
           +        Y         GS  ++ +     +  P+  PP  EQ  I    +   +  D
Sbjct: 213 ILLNIKAPHYLTIGELQMTGSAGQKRVPRSFFENYPIPFPPKTEQARIVETFSELMSLCD 272

Query: 391 VLVEKIEQSIVLLKERRSSFIA 412
            L ++   S+   ++   + +A
Sbjct: 273 QLEQQSLTSLEAHQQLVETLLA 294



 Score = 49.4 bits (116), Expect = 0.001,   Method: Composition-based stats.
 Identities = 21/205 (10%), Positives = 58/205 (28%), Gaps = 16/205 (7%)

Query: 20  AIPKHWKVVPIKRFTKLNT-------GRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
            +P+ W+   +      +          +     +   + +  V              + 
Sbjct: 389 ELPQGWEWCRLGNLAHNSEAGWSPQCEVSPRVDDNWGVLKISSVTWSEFNPNENKALPKH 448

Query: 73  SDTSTVSIFAKGQILYGKLGP---YLRKAIIAD---FDGICSTQFLVLQPKDVLPELLQG 126
            +            L  +        R  ++ D      + S + +  Q   ++      
Sbjct: 449 LEPKIEYEVKARDFLISRANTADLVARSVVVPDSPPNHLMLSDKIIRFQFSKLVDANYIN 508

Query: 127 WLLSIDVTQRIEAICEGAT---MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
            + +   ++   +   G T   M +     + ++ + +P   EQ+ I EK+   T+  + 
Sbjct: 509 LVNNSKYSRTYYSEVAGGTSSSMKNVSRIQVSSLLVALPSYNEQLNIVEKVRNLTLLCEH 568

Query: 184 LITERIRFIELLKEKKQALVSYIVT 208
           L +      +       AL    + 
Sbjct: 569 LKSRLQSAQQTQFHLADALTDAALN 593


>gi|291527176|emb|CBK92762.1| Restriction endonuclease S subunits [Eubacterium rectale M104/1]
          Length = 396

 Score = 82.9 bits (203), Expect = 8e-14,   Method: Composition-based stats.
 Identities = 49/409 (11%), Positives = 129/409 (31%), Gaps = 37/409 (9%)

Query: 28  VPIKRFTKLNTGRTSE------SGKDIIYIGLEDVESG------TGKYLPKDGNSRQSDT 75
             +K      +G          +  +  +  + D+ +         +      +S  +  
Sbjct: 3   KKLKDVCMFYSGTGFPIQYQGQTKGEYPFYKVGDIANNAIAGKIYLELCNNYISSDVAKM 62

Query: 76  STVSIFAKGQILYGKLGPYLR--KAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
               I  K  +++ K+G  L+  +  I   D +     + + PK     +   +    ++
Sbjct: 63  IKGCILPKDTVVFAKIGEALKLNRRAITSCDCLIDNNAMGIAPKLDSLRIQYFYFCMKNL 122

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
              ++ + E  T+       +    + +P L EQ    E+I  +      +I +R + + 
Sbjct: 123 K--MQTLAESTTVPSVRKTVLEKYEIEVPSLVEQ----EEIEKKLTLTQKIIEKRRQELS 176

Query: 194 LLKEKKQALVSYIV-TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
            L E  +A    +      NP    K +  E VG    +           +     + + 
Sbjct: 177 YLDEIIKARFVEMFGDPATNPFNWDKINISEVVGDKVSNGFFAKRDDYADD--GNVSVMG 234

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS---LRSAQ 309
            + I++  Y        T       E +E    V  G+++F    L  +      +    
Sbjct: 235 VAYIVNRMYSQWQDLPRTNGTDKDIEKFE----VKYGDMLFCRSSLVAEGIGKASIVPED 290

Query: 310 VMERGIITSAYMAVKPH--GIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLP 366
           V +  +     + +          Y+          +   A   +    ++  + + +  
Sbjct: 291 VPQNTLFECHVIRLPLDLSKCVPEYMQVFSTMEYFRRQIIAQSKTATMTTIGQDGILKAD 350

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           +L+PP+ +Q +    ++      +     +++++   +    S +    
Sbjct: 351 ILLPPMSKQREFYAFVHQV----NKSKVAVQKALDETQILFDSLMQKYF 395


>gi|241895463|ref|ZP_04782759.1| type I site-specific deoxyribonuclease specificity subunit
           [Weissella paramesenteroides ATCC 33313]
 gi|241871437|gb|EER75188.1| type I site-specific deoxyribonuclease specificity subunit
           [Weissella paramesenteroides ATCC 33313]
          Length = 410

 Score = 82.9 bits (203), Expect = 9e-14,   Method: Composition-based stats.
 Identities = 60/387 (15%), Positives = 129/387 (33%), Gaps = 15/387 (3%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W+   +K                        + +      P +     +  S       
Sbjct: 15  DWEKRRLKSMGDFRRVSVDPQKTPNTLFTEYSMPAYDNNKTP-NIVLGSTIHSNRLQIGD 73

Query: 84  GQILYGKLGPYLRKAIIADFDG---ICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
             +L  KL    ++       G   + S++F+    + +    L+  LLS   T+ +E I
Sbjct: 74  NVLLINKLNVRQKRVWYVKRAGNNAVSSSEFMPFTSESLKLSFLKQLLLSDKSTKFMENI 133

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
             G + S        +I   +         ++KI      +D LIT   R ++LLK+KK 
Sbjct: 134 SSGTSNSQ-KRITPLDISNYLIEKPTDAREQDKIGDFFETLDNLITVNQRKVDLLKKKKT 192

Query: 201 ALVSYIVTK--GLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
             +  +  K    NP+++ K     W          K     ++     N       I  
Sbjct: 193 GYLQKLFPKNGQNNPELRFKGFTDAWEKRRLGDVVNKVKSYSLSHDVECNESTGYKYIHY 252

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKR---SLRSAQVMERGI 315
                 I  +  +   L       Y  +   +++              ++  A   E  +
Sbjct: 253 GDIHTGIADIINKKSVLPNIKPNQYDTLSVNDLIVADASEDYQGIASPAVIQALPDENLV 312

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKE 374
                +A++P   ++T+L  L+ + +     Y  G+GL    + + ++ +    +P  KE
Sbjct: 313 AGLHTIALRPQATNATFLYHLLHTGNFKHFGYRTGTGLKVFGISWPNLSKFEFNLPSQKE 372

Query: 375 QFDITNVINVETARIDVLVEKIEQSIV 401
           Q ++ +++      +D L+   ++ + 
Sbjct: 373 QDEVVDLL----RLLDNLIVVNQRKVD 395



 Score = 65.6 bits (158), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 26/190 (13%), Positives = 62/190 (32%), Gaps = 8/190 (4%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG 289
           D WE +   ++              N L   Y             +   +  + ++    
Sbjct: 14  DDWEKRRLKSMGDFRRVSVDPQKTPNTLFTEYSMPAYDNNKTPNIVLGSTIHSNRLQIGD 73

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
            ++         KR     +     + +S +M      +  ++L  L+ S    K    +
Sbjct: 74  NVLLINKLNVRQKRVWYVKRAGNNAVSSSEFMPFTSESLKLSFLKQLLLSDKSTKFMENI 133

Query: 350 GSGL---RQSLKFEDVKRLPVLVPPIK-EQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
            SG    ++ +   D+    +  P    EQ  I +        +D L+   ++ + LLK+
Sbjct: 134 SSGTSNSQKRITPLDISNYLIEKPTDAREQDKIGDF----FETLDNLITVNQRKVDLLKK 189

Query: 406 RRSSFIAAAV 415
           +++ ++    
Sbjct: 190 KKTGYLQKLF 199


>gi|160914348|ref|ZP_02076567.1| hypothetical protein EUBDOL_00356 [Eubacterium dolichum DSM 3991]
 gi|158433821|gb|EDP12110.1| hypothetical protein EUBDOL_00356 [Eubacterium dolichum DSM 3991]
          Length = 504

 Score = 82.9 bits (203), Expect = 9e-14,   Method: Composition-based stats.
 Identities = 55/414 (13%), Positives = 130/414 (31%), Gaps = 47/414 (11%)

Query: 20  AIPKHWKVVPIKRFT-KLNTGRTSESGKD--IIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            IP +W+       + K+  G  + +     I  + + D++     +      + + +  
Sbjct: 88  EIPDNWEWKSWGEVSYKIQYGYNAPAKDTGVIKMVRITDIQDNQVLWDSVPFCNIKENEI 147

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQF-----LVLQPKDVLPELLQGWLLSI 131
              +     IL+ + G  + K+ + +     S         V    ++ P+ L+ ++ + 
Sbjct: 148 PDYLLHNFDILFARTGGTVGKSFLVENINEDSVFAGYLIRTVYNYNEINPKYLKYFMETS 207

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
               +++         + + + +  + +PIPPL EQ  I  K+      I+       + 
Sbjct: 208 LYWSQLKKGTIATAQPNCNGQTLSKMILPIPPLQEQHRIVAKLQELEPLIEKYRIAEEQL 267

Query: 192 IELL----KEKKQALVSYIVTKGLNPDVKM------------------------KDSGIE 223
            EL      + K++++ Y +   L P                            K    E
Sbjct: 268 HELNSNIKDQLKKSILQYAIEGKLVPQDPNDEPASVLLERIREEKQQLIKEGKIKKDKNE 327

Query: 224 WVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL--------SLSYGNIIQKLETRNMGL 275
            +    D+   + F      ++ +    +  N +         L+ GN+ +      + +
Sbjct: 328 SIIFRRDNSYYEKFGNTEFCIDDEIKCSVPINWILTRQKNLCWLNNGNLSKGEILPYLEV 387

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRS---LRSAQVMERGIITSAYMAVKPHGIDSTY 332
           K              ++                   ++  RG + S +  ++     +  
Sbjct: 388 KVLRGNKEAETKDSGVIVTRGTNVILVDGENSGEVMKIKYRGYMGSTFKILQTSNFVNEK 447

Query: 333 LAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
              ++   +  K  +         L  E      + +PPI EQ  I   IN+ T
Sbjct: 448 YVDIIFQCNRIKYKHNKKGAAIPHLDKELFNNTLIFLPPITEQQRILEKINLIT 501



 Score = 67.5 bits (163), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 32/215 (14%), Positives = 77/215 (35%), Gaps = 17/215 (7%)

Query: 218 KDSGIEWVGLVPDHWEVKPFFALVTELNR------KNTKLIESNILSLSYGNIIQKLETR 271
           +    E    +PD+WE K +  +  ++        K+T +I+   ++    N +      
Sbjct: 79  RCIEDELPFEIPDNWEWKSWGEVSYKIQYGYNAPAKDTGVIKMVRITDIQDNQVLWDSVP 138

Query: 272 NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA--VKPHGID 329
              +K      Y ++   +I+F        K  L    + E  +     +      + I+
Sbjct: 139 FCNIKENEIPDY-LLHNFDILFARTGGTVGKSFLVE-NINEDSVFAGYLIRTVYNYNEIN 196

Query: 330 STYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
             YL + M +            +  + +   + + ++ + +PP++EQ  I   +      
Sbjct: 197 PKYLKYFMETSLYWSQLKKGTIATAQPNCNGQTLSKMILPIPPLQEQHRIVAKLQELEPL 256

Query: 389 IDVLVEKIEQSIVLLK-----ERRSSFIAAAVTGQ 418
           I+      E+ +  L      + + S +  A+ G+
Sbjct: 257 IEKYR-IAEEQLHELNSNIKDQLKKSILQYAIEGK 290


>gi|260664492|ref|ZP_05865344.1| conserved hypothetical protein [Lactobacillus jensenii SJ-7A-US]
 gi|260561557|gb|EEX27529.1| conserved hypothetical protein [Lactobacillus jensenii SJ-7A-US]
          Length = 376

 Score = 82.9 bits (203), Expect = 9e-14,   Method: Composition-based stats.
 Identities = 68/393 (17%), Positives = 137/393 (34%), Gaps = 33/393 (8%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           WK      F+   T  ++    D   I  E++ SG GK              +   F KG
Sbjct: 14  WKNKKFLTFSSKITKNSTSDDIDFPRIEFENIVSGEGKLAQNRSKLNHIK--SGIKFDKG 71

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            IL+GKL PYL+   +A+F G+    F V++ K         +L+   + +++     G 
Sbjct: 72  DILFGKLRPYLKNWWLAEFPGVAVGDFWVIRAK--DNRYFLYYLIQAPLFEKVSNYTTGT 129

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
            M  +DW  + N    +P + EQ  I   +      +     +      L K   Q +  
Sbjct: 130 KMPRSDWNYVSNTFFKLPKIDEQEKIGRILDKVDSLLSLQQRKLELISALEKGLGQIIKQ 189

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
                G+                             +    +   ++   N L     N+
Sbjct: 190 QNNKYGIT----------------------FSLNNFLEIPPQIQARIKNKNQLLTVKLNL 227

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
                             Y I   GE++F   ++ N   +L + +  +    ++   ++K
Sbjct: 228 QGIARGVQRDTLSLGSTKYFIRHTGELIFGKQNIFNGSIALITKE-FDGLATSNDVPSLK 286

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPV-LVPPIKEQFDITNVI 382
              I+  +L +L+++ D  K    + +G   + +   D+ +L + ++P  K Q  I + +
Sbjct: 287 ISNINPQFLFYLLKNPDFWKHTELIATGTGSKRVHIHDLLKLHIKIIPDAKYQAKIVS-L 345

Query: 383 NVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           +    +I +  + I +     K+     +    
Sbjct: 346 SRNFEKIVLNQQIIVKECEKTKQF---LLQNLF 375



 Score = 59.4 bits (142), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 28/189 (14%), Positives = 63/189 (33%), Gaps = 16/189 (8%)

Query: 232 WEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK-LETRNMGLKPESYETYQIVDPGE 290
                 F   +    KN+   + +   + + NI+    +      K    ++    D G+
Sbjct: 13  PWKNKKFLTFSSKITKNSTSDDIDFPRIEFENIVSGEGKLAQNRSKLNHIKSGIKFDKGD 72

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG 350
           I+F  +        L        G+    +  ++    +  +L +L+++    KV     
Sbjct: 73  ILFGKLRPYLKNWWLAEF----PGVAVGDFWVIRAKD-NRYFLYYLIQAPLFEKVSNYTT 127

Query: 351 SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
                   +  V      +P I EQ  I  +++    ++D L+   ++ + L+       
Sbjct: 128 GTKMPRSDWNYVSNTFFKLPKIDEQEKIGRILD----KVDSLLSLQQRKLELISALEKGL 183

Query: 411 IAAAVTGQI 419
                 GQI
Sbjct: 184 ------GQI 186


>gi|326802763|ref|YP_004320581.1| type I restriction modification DNA specificity domain protein
           [Aerococcus urinae ACS-120-V-Col10a]
 gi|326650196|gb|AEA00379.1| type I restriction modification DNA specificity domain protein
           [Aerococcus urinae ACS-120-V-Col10a]
          Length = 334

 Score = 82.9 bits (203), Expect = 9e-14,   Method: Composition-based stats.
 Identities = 58/346 (16%), Positives = 114/346 (32%), Gaps = 24/346 (6%)

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
             S+     +  G+ G       +        T F +   +            +I+  + 
Sbjct: 5   NKSLSDIDAVGLGRKGTIDNPIYLKAPFWTVDTLFYITTQQQNNIMFFYYLFKTINWKKY 64

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
            EA      +     + I +I + +P   EQ     KI      +D +IT   + IE L+
Sbjct: 65  NEAS----GVPSLSKQTIYSISVKVPNTFEQ----SKISKLFYSLDRIITLEQQKIEKLE 116

Query: 197 EKKQALVSYIVTKG-LNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK-NTKLIES 254
             KQ L+  +       P V+ K    +W     +  ++       + L+ K      + 
Sbjct: 117 LLKQYLLQNMFADESGYPRVRFKGYNNKW-----ERSKLNTISDSYSGLSGKTKEDFGKG 171

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYE-TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
               + Y N+      +  G      +     V  G+ +F       ++  + S    + 
Sbjct: 172 EARYIEYKNVFDNPVAKLDGTDAIDIDYKQNEVKKGDFLFTTSSETPEEVGMSSLWDYDL 231

Query: 314 GII---TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLV 369
             I   +  +       IDS YLA+  RS +       +  G+ R ++       L + V
Sbjct: 232 NNIYLNSFCFGVRIKEKIDSYYLAYYFRSPEFRSRVMKLAQGISRYNISKNKFCELKISV 291

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           P  +E   I  ++   T     L++  E  +   K  +S  + +  
Sbjct: 292 PSYEEGVRIGRLLKSTT----DLIDLEENKLKEFKLIKSKLLQSLF 333


>gi|240172538|ref|ZP_04751197.1| type I restriction-modification system specificity determinant
           [Mycobacterium kansasii ATCC 12478]
          Length = 66

 Score = 82.9 bits (203), Expect = 9e-14,   Method: Composition-based stats.
 Identities = 26/61 (42%), Positives = 39/61 (63%)

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQID 420
            +    V+VPP  EQ  I N ++ +T ++D L+ + E+ I L +ERRS+ I A VTGQID
Sbjct: 1   MLADFDVVVPPADEQASILNYLDQQTTKVDTLIAESERFIELARERRSALITAVVTGQID 60

Query: 421 L 421
           +
Sbjct: 61  V 61


>gi|257790529|ref|YP_003181135.1| N-6 DNA methylase [Eggerthella lenta DSM 2243]
 gi|257474426|gb|ACV54746.1| N-6 DNA methylase [Eggerthella lenta DSM 2243]
          Length = 799

 Score = 82.9 bits (203), Expect = 9e-14,   Method: Composition-based stats.
 Identities = 35/200 (17%), Positives = 73/200 (36%), Gaps = 11/200 (5%)

Query: 207 VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ 266
                +P++  + S   W+G +P+ W       L    + K +      +     G + Q
Sbjct: 595 FAMLPDPEICYEASET-WLGDIPESWSALRIGDLFELRSTKVSDEDYRPLSVTKKGIVPQ 653

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
                    K +++   ++V  G+          D+R+       +  + T   +     
Sbjct: 654 LDSV----AKSDNHANRKLVKEGDFAINSRS---DRRNSCGFSPYDGSVSTITTVLFPRQ 706

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
            I S Y   L  +    + FY  G G+     +  + D+K++ +  PPI EQ  I + ++
Sbjct: 707 PIVSRYFDLLFDTPRFAEEFYRWGHGIDSDIWTTNWSDMKKIVIPCPPISEQKRIVDYLS 766

Query: 384 VETARIDVLVEKIEQSIVLL 403
            E  +I      ++  I  +
Sbjct: 767 DELKQIRSARASVQAEIENI 786



 Score = 80.6 bits (197), Expect = 4e-13,   Method: Composition-based stats.
 Identities = 31/170 (18%), Positives = 62/170 (36%), Gaps = 9/170 (5%)

Query: 17  WIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           W+G IP+ W  + I    +L +  T  S +D   + +       G     D  ++  + +
Sbjct: 611 WLGDIPESWSALRIGDLFELRS--TKVSDEDYRPLSVT----KKGIVPQLDSVAKSDNHA 664

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQG-WLLSIDVTQ 135
              +  +G                + +DG  ST   VL P+  +          +    +
Sbjct: 665 NRKLVKEGDFAINSRSDRRNSCGFSPYDGSVSTITTVLFPRQPIVSRYFDLLFDTPRFAE 724

Query: 136 RIEAICEG--ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
                  G  + +   +W  +  I +P PP++EQ  I + +  E  +I +
Sbjct: 725 EFYRWGHGIDSDIWTTNWSDMKKIVIPCPPISEQKRIVDYLSDELKQIRS 774


>gi|154490802|ref|ZP_02030743.1| hypothetical protein PARMER_00719 [Parabacteroides merdae ATCC
           43184]
 gi|154088550|gb|EDN87594.1| hypothetical protein PARMER_00719 [Parabacteroides merdae ATCC
           43184]
          Length = 384

 Score = 82.9 bits (203), Expect = 9e-14,   Method: Composition-based stats.
 Identities = 63/396 (15%), Positives = 126/396 (31%), Gaps = 39/396 (9%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           K W    +    +LN+G           +  + + +G        G     + +      
Sbjct: 20  KTWNKKTLDELVQLNSG-----------MDYKHLCNGNIPVYGTGGYMLSVNAALSY--D 66

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           K  I  G+ G   +  I+        T F  +  K         +   I          E
Sbjct: 67  KDAIGIGRKGTINKPYILKAPFWTVDTLFYAIPRKYNN----LQFCNCIFQRIDWLKYDE 122

Query: 143 GATMSHADWKGIGNIPMPI-PPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
              +       I +I +   P   EQ  I     +    I T   + +   ++     Q+
Sbjct: 123 STGVPSLSKNIINSIEVNCAPSYDEQQKIASYFQSLDSLIQTTSKKLVSLKQIKDASLQS 182

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
           +          P V+ K    EW        E  PF + + E   ++T   E  +LS + 
Sbjct: 183 MFPQ--EGETVPKVRFKGFEGEW--------EKIPFGSFLKESYERSTVENEDILLSSAI 232

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
             +    E      +  S   Y+ +    ++    +L     +       E G+I+ AY 
Sbjct: 233 TGVYLNSELFG-HQRGASNIGYKKIKKNMLILSTQNL--HLGNANVNLRFEHGLISPAYK 289

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL----RQSLKFEDVKRLPVLVPPIKEQFD 377
             +   I   +L   ++       F    +      R+++ ++D+ +  VL+P   EQ  
Sbjct: 290 VYEIVNISPLFLQQWIKMDSTKVFFLNATTAGASLCRKNIVWDDLYKQIVLIPSKNEQVK 349

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           I        + +D  +    Q +  LK+ +++ +  
Sbjct: 350 IGLF----FSNLDKQISLQTQRLEKLKQIKAACLDK 381


>gi|299137474|ref|ZP_07030656.1| restriction modification system DNA specificity domain protein
           [Acidobacterium sp. MP5ACTX8]
 gi|298600879|gb|EFI57035.1| restriction modification system DNA specificity domain protein
           [Acidobacterium sp. MP5ACTX8]
          Length = 499

 Score = 82.9 bits (203), Expect = 9e-14,   Method: Composition-based stats.
 Identities = 50/393 (12%), Positives = 119/393 (30%), Gaps = 29/393 (7%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
             +  F +   GR+                   G   P  G++         I     I+
Sbjct: 2   KQLGTFCEFKYGRSLPEKH------------RQGGNFPVYGSNGIVGWHHEPITNGPTII 49

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMS 147
            G+ G        +       T + V Q    +      ++L +     ++A+ + A + 
Sbjct: 50  IGRKGSAGALQYSSMSCCPIDTTYYVDQSCTSVNLRWLFFMLQML---DLDALNKHAAVP 106

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
             +        + +P   EQ  I   +                   L       L S  +
Sbjct: 107 GLNRNDAYEKELLLPSSDEQKKIAALLDMADALRHQRQESLQLAETL-------LRSCFL 159

Query: 208 TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK 267
               +P    K+  I  +  +   +   PF + +   + ++  +    +  +  G++   
Sbjct: 160 NIFGDPVSNSKNWPIVPLSELAVKFSDGPFGSNLKTEHYRDNGIRVWRLQDIGIGSLKNS 219

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY-MAVKPH 326
                      +   +    PG+++   +   N + ++  + + E         +  K  
Sbjct: 220 GIAYISPQHYANLPKHH-CAPGDVIVGTLGEPNLRAAIVPSTIPESLNKADCVQIRAKKG 278

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
                ++ WL+       + +++  G  R  +    ++ L V +PPI  Q + +  ++  
Sbjct: 279 VALPEFICWLLNMPGTLALAHSLVLGETRARISMGRLRTLNVPLPPIGLQREFSQTLSRI 338

Query: 386 TARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            A    L E +      +    +S    A  G+
Sbjct: 339 LA----LKELVLAQSPEVDYLFASIQQRAFRGE 367



 Score = 44.4 bits (103), Expect = 0.034,   Method: Composition-based stats.
 Identities = 44/279 (15%), Positives = 85/279 (30%), Gaps = 21/279 (7%)

Query: 23  KHWKVVPIKRFT-KLNTGRTSES-------GKDIIYIGLEDVESGTGKYLPK-DGNSRQS 73
           K+W +VP+     K + G    +          I    L+D+  G+ K       + +  
Sbjct: 170 KNWPIVPLSELAVKFSDGPFGSNLKTEHYRDNGIRVWRLQDIGIGSLKNSGIAYISPQHY 229

Query: 74  DTSTVSIFAKGQILYGKLG-PYLRKAI----IADFDGICSTQFLVLQPKDVLPELLQGWL 128
                   A G ++ G LG P LR AI    I +         +  +    LPE +   L
Sbjct: 230 ANLPKHHCAPGDVIVGTLGEPNLRAAIVPSTIPESLNKADCVQIRAKKGVALPEFICWLL 289

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
                     ++  G T +      +  + +P+PP+  Q    + +              
Sbjct: 290 NMPGTLALAHSLVLGETRARISMGRLRTLNVPLPPIGLQREFSQTLSRILAL----KELV 345

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN 248
           +     +     ++        LN +     + +E  G  P     +P      +     
Sbjct: 346 LAQSPEVDYLFASIQQRAFRGELNLNRSTLANEVESPG--PTSVPERPTAEGRFKRPGSF 403

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVD 287
               E     L   + I      ++    E +  Y+I+ 
Sbjct: 404 VAPPEIEAQMLELEDRIDYGPGDSISW-SEDFFKYRILS 441


>gi|262375746|ref|ZP_06068978.1| predicted protein [Acinetobacter lwoffii SH145]
 gi|262309349|gb|EEY90480.1| predicted protein [Acinetobacter lwoffii SH145]
          Length = 333

 Score = 82.9 bits (203), Expect = 9e-14,   Method: Composition-based stats.
 Identities = 42/344 (12%), Positives = 103/344 (29%), Gaps = 32/344 (9%)

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS---IDVTQRIEAICEGA 144
             + G     A+I +     +   L++     +P             +    IE    G 
Sbjct: 1   MVQSGHVGHAAVIPEELNNSAAHALIMFSDYKVPTNPYFLNYQLQTNNAKSAIEKFTTGN 60

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
           T+ H     +           EQ+ + E        +D  I    + +   +  K+A++ 
Sbjct: 61  TIRHILSSDMKEFLGFFTNFDEQLKVGEF----FQNLDQSIALHEKKLAQTQNFKKAMLE 116

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
            +  K  +   +++      +    + W        ++  +         +     Y  +
Sbjct: 117 KMFPKQGSKRPEIR------LNSFREDWYSSKLTDYISIKHGYAFNGEFFSDKETDYCLL 170

Query: 265 IQKLETRNMGLKPESYETY-------QIVDPGEIVFRFIDLQNDK-----RSLRSAQVME 312
                    G K E +  Y        I+   +++    DL  +       +L  +   +
Sbjct: 171 TPGNFMIGGGFKAEKFIYYKGGVPKNYILKENDLIVTMTDLSKESDTLGLPALLPSIEGK 230

Query: 313 RGIITS--AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLV 369
             +       +  +   ++  +L +L+++    K      +G   +      +      +
Sbjct: 231 ILLHNQRLGLITFENLELEKEFLFYLLQTKSYHKYIVLSATGTTVKHTSPSKILGFTCKI 290

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           P   EQ  I         +ID  +   +Q +  LK  + +F+  
Sbjct: 291 PEPTEQKKIGGF----FKKIDEKINLHQQQLQTLKNLKQAFLEK 330


>gi|146319104|ref|YP_001198816.1| Type I restriction enzyme EcoKI specificity protein (S protein)
           [Streptococcus suis 05ZYH33]
 gi|145689910|gb|ABP90416.1| Type I restriction enzyme EcoKI specificity protein (S protein)
           [Streptococcus suis 05ZYH33]
 gi|292558740|gb|ADE31741.1| Type I restriction modification DNA specificity domain protein
           [Streptococcus suis GZ1]
          Length = 442

 Score = 82.9 bits (203), Expect = 9e-14,   Method: Composition-based stats.
 Identities = 54/439 (12%), Positives = 123/439 (28%), Gaps = 66/439 (15%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDI-------IYIGLEDVESGTGKYLPKDGNSRQ 72
            IP+ W+ V +        G+    G ++        Y+ + D++ GT K          
Sbjct: 4   DIPESWEWVRLGAIVTAKGGKRIPKGYNLQEEDNGHPYLRVTDMKDGTIKPTNIKFAPDN 63

Query: 73  -SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDG---ICSTQFLVLQPKDVLPELLQGWL 128
                     +   I     G      I+ +      +      ++  + +    L   L
Sbjct: 64  VYTIIRNYTISSTDIYVTIAGTIGDVGIVPENFNNALLTENALKLMLTESINKMFLAHLL 123

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
            S  V ++ + +           +   +  +P+PPLAEQ  I  +I     +++      
Sbjct: 124 KSPLVQKQFKEVYNQVAQPKLSIRSTNSTIIPLPPLAEQKRIVAQIERALEQVEVYAESY 183

Query: 189 IRFIELLKEKK----QALVSYIVTKGLNPDVKM--------------------------- 217
            +  EL +       ++++ Y +   L                                 
Sbjct: 184 NKLQELDRAFPDKLKKSILQYAMQGKLVAQDPNDEPVEVLLEMIRAEKQKLYEEGKLKKK 243

Query: 218 --------KDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL----SLSYGNII 265
                   K       G +P +W +     + +     + K  +  I+     +  G  I
Sbjct: 244 DLAEIMVEKGDDNSPYGKIPRNWTLLSVKDIFSITTGLSYKKTDLAIIQRGVRIIRGGNI 303

Query: 266 QKLETRNMGLKPESYETYQ-----IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
           + L  + +         Y       +   ++V                       +   +
Sbjct: 304 EPLAYKLLDNDYYIESKYITSESVYLKRNQLVTPVSSSLEHIGKFARIDKNYSDTVAGGF 363

Query: 321 MA----VKPHGIDSTYLAWLMRSYDLCKVFY---AMGSGLRQSLKFEDVKRLPVLVPPIK 373
           +            S YL   + S    K       +      ++    +  L + + P +
Sbjct: 364 VFQLTPFISSDTLSNYLLLCLSSPLFYKQLQSVTKLSGQALYNIPKTKLNDLRIALAPEQ 423

Query: 374 EQFDITNVINVETARIDVL 392
           EQ  I+N +     ++++L
Sbjct: 424 EQERISNKVGQLFQKVNLL 442



 Score = 72.5 bits (176), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 36/210 (17%), Positives = 72/210 (34%), Gaps = 22/210 (10%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET---- 282
            +P+ WE     A+VT    K      +     +    ++  + ++  +KP + +     
Sbjct: 4   DIPESWEWVRLGAIVTAKGGKRIPKGYNLQEEDNGHPYLRVTDMKDGTIKPTNIKFAPDN 63

Query: 283 -YQIVDPGEI----VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
            Y I+    I    ++  I        +         +  +A   +    I+  +LA L+
Sbjct: 64  VYTIIRNYTISSTDIYVTIAGTIGDVGIVPENFNNALLTENALKLMLTESINKMFLAHLL 123

Query: 338 RSYDLCKVFY-AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
           +S  + K F        +  L         + +PP+ EQ  I   I     +    VE  
Sbjct: 124 KSPLVQKQFKEVYNQVAQPKLSIRSTNSTIIPLPPLAEQKRIVAQIERALEQ----VEVY 179

Query: 397 EQSIVLLKE--------RRSSFIAAAVTGQ 418
            +S   L+E         + S +  A+ G+
Sbjct: 180 AESYNKLQELDRAFPDKLKKSILQYAMQGK 209



 Score = 39.4 bits (90), Expect = 1.1,   Method: Composition-based stats.
 Identities = 16/87 (18%), Positives = 32/87 (36%), Gaps = 6/87 (6%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQ 72
           G IP++W ++ +K    + TG + +          +  I   ++E    K L  D     
Sbjct: 260 GKIPRNWTLLSVKDIFSITTGLSYKKTDLAIIQRGVRIIRGGNIEPLAYKLLDNDYYIES 319

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAI 99
              ++ S++ K   L   +   L    
Sbjct: 320 KYITSESVYLKRNQLVTPVSSSLEHIG 346


>gi|330833401|ref|YP_004402226.1| restriction endonuclease S subunit [Streptococcus suis ST3]
 gi|329307624|gb|AEB82040.1| restriction endonuclease S subunit [Streptococcus suis ST3]
          Length = 252

 Score = 82.9 bits (203), Expect = 9e-14,   Method: Composition-based stats.
 Identities = 28/211 (13%), Positives = 67/211 (31%), Gaps = 11/211 (5%)

Query: 207 VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ 266
                +   + K   +    +  +        +   E+   N    +      +  ++  
Sbjct: 13  FPGFTDAWKQRKLGEVADFSIKTNSLSRDKLSSYFYEVQ--NIHYGDILTKYDAILDVCN 70

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFI--DLQNDKRSLRSAQVMERGIITSAYMAVK 324
           K     +G     +    ++  G+IVF     D    K         +  +     +  +
Sbjct: 71  KELPSIIGSTISDF-ADALLSEGDIVFADAAEDSTVGKAIEVRNFKGKNVVSGLHTIVAR 129

Query: 325 PHGID-STYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
           P       YL +L+ S         +  G    S+   ++K   V+ P + EQ  I +  
Sbjct: 130 PKVSYAPYYLGYLINSTAYHNQILPLMQGTKVSSISKANLKSTTVVFPTLPEQEAIGSF- 188

Query: 383 NVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
               + +D L+   ++ +  +KE + + +  
Sbjct: 189 ---FSDLDQLITLHQRKLDDVKELKKALLQK 216



 Score = 44.8 bits (104), Expect = 0.026,   Method: Composition-based stats.
 Identities = 41/208 (19%), Positives = 81/208 (38%), Gaps = 28/208 (13%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDII---YIGLEDVESGTG------------KYLPKDGN 69
           WK   +      +  +T+   +D +   +  ++++  G              K LP    
Sbjct: 20  WKQRKLGEVADFSI-KTNSLSRDKLSSYFYEVQNIHYGDILTKYDAILDVCNKELPSIIG 78

Query: 70  SRQSDTSTVSIFAKGQILYGK---LGPYLRKAIIADFDG--ICST-QFLVLQPKDVLPEL 123
           S  SD +   + ++G I++          +   + +F G  + S    +V +PK      
Sbjct: 79  STISDFADA-LLSEGDIVFADAAEDSTVGKAIEVRNFKGKNVVSGLHTIVARPKVSYAPY 137

Query: 124 LQGWLLSI-DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
             G+L++      +I  + +G  +S      + +  +  P L EQ  I          +D
Sbjct: 138 YLGYLINSTAYHNQILPLMQGTKVSSISKANLKSTTVVFPTLPEQEAIGSF----FSDLD 193

Query: 183 TLITERIRFIELLKEKKQALVSYIVTKG 210
            LIT   R ++ +KE K+AL+  +  KG
Sbjct: 194 QLITLHQRKLDDVKELKKALLQKMFPKG 221


>gi|163756219|ref|ZP_02163334.1| hypothetical protein KAOT1_06767 [Kordia algicida OT-1]
 gi|161323831|gb|EDP95165.1| hypothetical protein KAOT1_06767 [Kordia algicida OT-1]
          Length = 553

 Score = 82.9 bits (203), Expect = 9e-14,   Method: Composition-based stats.
 Identities = 61/472 (12%), Positives = 132/472 (27%), Gaps = 81/472 (17%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSE-SGKDIIYIGLEDVESGTGKYLPKDGNSRQ------ 72
            IP+ W    I  F     G++++   K+    G   + S     +    +         
Sbjct: 84  KIPETWISKNITEFYYTIGGKSNQIKSKNYNERGKYPIVSQGKNKIDGYSDDESKLLKLA 143

Query: 73  ------SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQG 126
                  D +    F     + G  G      I+  +DGI S  F +      L      
Sbjct: 144 KPVVVFGDHTRQVKFIDFDFIIGADGTK----ILNPYDGIDSQFFYLHISFFDLSNKGYA 199

Query: 127 WLL---------------SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIR 171
                               ++ + +E + +              +       A   L  
Sbjct: 200 RHYSLLKLKAFCLPPLEEQKEIVRVVETLFKEVEQLEQLTVKRIGLKEDFVTSALHQLTT 259

Query: 172 EKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIE-------- 223
           +    E   +             +K+ ++ ++   V   L  + ++ +   E        
Sbjct: 260 KNANQEWKFLQEHFKSFFNETTNIKKLRETVLQLAVQGKLTANWRVNNPDTEDASQLLKQ 319

Query: 224 ---------------------------WVGLVPDHWEVKPFFALVTELNRK-------NT 249
                                          VP+ W    F  L T +N          +
Sbjct: 320 IQEEKAQLIAAKKIKKEKVLPPITKDEIPYEVPEGWVWVNFGDLATFINGDRGKNYPNKS 379

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI-----VDPGEIVFRFIDLQNDKRS 304
           + ++  +  ++ G+I          +   + + + I     +  G++V+        K +
Sbjct: 380 EYVDEGVAWINTGHINPDGTLSESKMNYITEDKFDILRGGKIQDGDLVYCLRGATFGKTA 439

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM-GSGLRQSLKFEDVK 363
             S    +  I +S  +        S ++   + S +  +          + +L    VK
Sbjct: 440 YVSP-FKKGAIASSLMIIRAYIQDSSGFIYRFLISPEGKRQLLRFDNGSAQPNLSANKVK 498

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
                +PP++EQ  I   +N      D L E+++QS     +   S +    
Sbjct: 499 LYAFPLPPLEEQKAIVAKVNALMELCDKLEEEVQQSQAYSTQLMQSCLREVF 550


>gi|253569685|ref|ZP_04847094.1| type I R/M system specificity subunit [Bacteroides sp. 1_1_6]
 gi|251840066|gb|EES68148.1| type I R/M system specificity subunit [Bacteroides sp. 1_1_6]
          Length = 402

 Score = 82.9 bits (203), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 58/356 (16%), Positives = 112/356 (31%), Gaps = 31/356 (8%)

Query: 24  HWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDV-ESGTGKYLPKDGNSRQSDTS 76
            W+   I     +  G T ++         I +    ++ ++       +       + S
Sbjct: 25  EWETKSINDLADVIGGGTPDTTVKSYWDGGIQWFTPSEIGKNKFVDASLRTITEDGLNNS 84

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
           +  +     IL          ++        +  F  L  K     +   + L     + 
Sbjct: 85  SAKLLPPNTILLSSRATIGECSLSLRECA-TNQGFQSLVSKKCN--VDFLYYLIQTKKKD 141

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           +     G+T        +  I + +P   EQ  I   +      ID  I  + + IE LK
Sbjct: 142 LIRKSCGSTFLEISANEVRKIQVSVPSDVEQQKIAGLL----SLIDKRIATQNKIIEDLK 197

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
           + K A+V  ++        K++D G            V+       ++            
Sbjct: 198 KLKSAIVEMLLCNQNGESFKLRDVG----------CFVRGLTYANEDVTENKAATTVIRA 247

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
            +L+YGN + K E   +   P    T QI+  G+IV    +  +      S      G  
Sbjct: 248 NNLNYGNNVDKDEVVYVNKTP---TTSQILRKGDIVICMANGSSSLVGKNSYYPFNDGQS 304

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM---GSGLRQSLKFEDVKRLPVLV 369
           T               + WLM+S    ++ Y     G+G   +L  +D+  +   +
Sbjct: 305 TIGAFCGIYRTSYPF-VKWLMQSQRYKRLVYQSLQGGNGAIANLNGDDILNMSFPL 359



 Score = 68.7 bits (166), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 20/152 (13%), Positives = 51/152 (33%), Gaps = 5/152 (3%)

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
               + I K +  +  L+  + +         +    I L +       +  +       
Sbjct: 57  WFTPSEIGKNKFVDASLRTITEDGLNNSSAKLLPPNTILLSSRATIGECSLSLRECATNQ 116

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
            + ++     +  +L +L+++     +           +   +V+++ V VP   EQ  I
Sbjct: 117 GFQSLVSKKCNVDFLYYLIQTKK-KDLIRKSCGSTFLEISANEVRKIQVSVPSDVEQQKI 175

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
                   + ID  +    + I  LK+ +S+ 
Sbjct: 176 A----GLLSLIDKRIATQNKIIEDLKKLKSAI 203


>gi|260592890|ref|ZP_05858348.1| type I restriction-modification system, S subunit [Prevotella
           veroralis F0319]
 gi|260535179|gb|EEX17796.1| type I restriction-modification system, S subunit [Prevotella
           veroralis F0319]
          Length = 506

 Score = 82.9 bits (203), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 57/432 (13%), Positives = 120/432 (27%), Gaps = 71/432 (16%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            IP+ W++                   + I + + +  +   K     G S   D     
Sbjct: 85  EIPQGWELARFGSV-------MYNRDSERIPLSVAE-RNKLTKIYDYYGASGVIDKVDKY 136

Query: 80  IFAKGQILYGKLGPYLRK-----AIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
           +F K  +L G+ G  L       A IA      +    VL   D +  +   ++     +
Sbjct: 137 LFNKDLLLIGEDGANLINRSKPIAYIATGKYWVNNHAHVL---DCIDSIFMQYICLYINS 193

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI-- 192
             +     G      + + + +I + +PP  EQ  I +K+             + R    
Sbjct: 194 ISLVDYVTGTAQPKMNQEKMNSILLVLPPHNEQKRILQKVDKIQPLYVRYEKNKSRLEAL 253

Query: 193 --ELLKEKKQALVSYIVTKGLNPDVK------------------------MKDSGI---- 222
              L    +++++   +   L P                           +K   I    
Sbjct: 254 TKTLYTNLRKSILQEAMQGKLIPQDPNDEPASVLLQRIREERLKLVKDGKLKKKDIVDSL 313

Query: 223 ----------------------EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
                                 E    +PD W       +   +  ++    +       
Sbjct: 314 IFKGDDNKYYEQVGKSITEITEEIPFSIPDSWTWSRLSGVAKIIMGQSPDGNDVFEAEKE 373

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI-ITSA 319
                          K  S       +P  I      L   +  +    +++R I I   
Sbjct: 374 DNAYEFHQGKIYFTEKYISPSGKWCKNPPRIANIGSLLVCIRAPIGDVNIVQRQIAIGRG 433

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
             A+  +    T   +         +         +++  + +K L + +PP+ EQ  I+
Sbjct: 434 LAAIIGYAKIKTDFLYYWILAHKKNLIEKGTGSTFKAITLDVLKDLIIPIPPLAEQKRIS 493

Query: 380 NVINVETARIDV 391
           + I +   +I+ 
Sbjct: 494 SRIELLYNKIEN 505



 Score = 63.7 bits (153), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 31/207 (14%), Positives = 67/207 (32%), Gaps = 17/207 (8%)

Query: 219 DSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE 278
               E    +P  WE+  F +++   +       E   LS++  N + K+          
Sbjct: 77  CIDDEIPFEIPQGWELARFGSVMYNRDS------ERIPLSVAERNKLTKIYDYYGASGVI 130

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRS--LRSAQVMERGIITSAYMAVKPHGIDSTYLAWL 336
                 + +   ++          RS  +      +  +   A++      I   Y+   
Sbjct: 131 DKVDKYLFNKDLLLIGEDGANLINRSKPIAYIATGKYWVNNHAHVLDCIDSIFMQYICLY 190

Query: 337 MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
           + S  L           +  +  E +  + +++PP  EQ  I   ++     + V  EK 
Sbjct: 191 INSISLVDYV---TGTAQPKMNQEKMNSILLVLPPHNEQKRILQKVDKI-QPLYVRYEKN 246

Query: 397 EQSIVLL-----KERRSSFIAAAVTGQ 418
           +  +  L        R S +  A+ G+
Sbjct: 247 KSRLEALTKTLYTNLRKSILQEAMQGK 273


>gi|207092914|ref|ZP_03240701.1| putative type I restriction enzyme (specificity subunit)
           [Helicobacter pylori HPKX_438_AG0C1]
          Length = 307

 Score = 82.9 bits (203), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 45/316 (14%), Positives = 104/316 (32%), Gaps = 20/316 (6%)

Query: 112 LVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIR 171
            V+     +      + L     + +E+  +G+ ++                L EQ+ I 
Sbjct: 3   FVVFENPKIDLNYLYYFLCYIEKEWLESGQQGSQVNLNVDLIKNKEVFYPKDLNEQIAIA 62

Query: 172 EKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVT-KGLNPDVKMKDSGIEWVGLVPD 230
             +      + +L    ++   + K     L+S     KG N   +    G   +G+   
Sbjct: 63  NILSDVDHYLYSLDALILKKESIKKALSFELLSQRKRLKGFNQAWQKVKLGD--IGITIS 120

Query: 231 HWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGE 290
               K     +    +         I  L+  N +    +    +K    E        +
Sbjct: 121 GLVGKTKQDFINGNAK--------YITFLNVLNNVIIDTSMLENVKIYPNEKQNSFKKYD 172

Query: 291 IVFRFIDLQNDKRSLRSA--QVMERGIITSAYM--AVKPHGIDSTYLAWLMRSYDLCKVF 346
           + F        +  + +     +++  + S      +    +D  +L++L+ S    K F
Sbjct: 173 LFFNTSSETPKEVGMCAVLLDDIDQVFLNSFCFGFRIFDKAVDGLFLSYLINSEIGRKAF 232

Query: 347 YAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
             +  G  R +L       + +++PP+ EQ  I N+++   + I  L  K  Q       
Sbjct: 233 ENLAQGSTRYNLSKSGFNNICLILPPLNEQIAIANILSALDSEIISLKNKKRQ----FDN 288

Query: 406 RRSSFIAAAVTGQIDL 421
            + +     ++ +I +
Sbjct: 289 IKKALNHDLMSAKIRV 304



 Score = 50.6 bits (119), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 35/193 (18%), Positives = 72/193 (37%), Gaps = 13/193 (6%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDII-----YIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           W+ V +       +G   ++ +D I     YI   +V +          N +       +
Sbjct: 107 WQKVKLGDIGITISGLVGKTKQDFINGNAKYITFLNVLNNVIIDTSMLENVKIYPNEKQN 166

Query: 80  IFAKGQILYGKLGPYLRKAIIA-------DFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
            F K  + +       ++  +        D   + S  F        +  L   +L++ +
Sbjct: 167 SFKKYDLFFNTSSETPKEVGMCAVLLDDIDQVFLNSFCFGFRIFDKAVDGLFLSYLINSE 226

Query: 133 V-TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
           +  +  E + +G+T  +    G  NI + +PPL EQ+ I   + A    I +L  ++ +F
Sbjct: 227 IGRKAFENLAQGSTRYNLSKSGFNNICLILPPLNEQIAIANILSALDSEIISLKNKKRQF 286

Query: 192 IELLKEKKQALVS 204
             + K     L+S
Sbjct: 287 DNIKKALNHDLMS 299


>gi|260906088|ref|ZP_05914410.1| restriction endonuclease S subunits-like protein [Brevibacterium
           linens BL2]
          Length = 383

 Score = 82.9 bits (203), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 55/356 (15%), Positives = 122/356 (34%), Gaps = 36/356 (10%)

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDG----ICSTQFLVLQPKDVLPELLQGWLLSI 131
           S+  +   G +L  K+ P++R++ +         + S++++V + +   P+ L  +L+S 
Sbjct: 50  SSKQVVQPGDVLISKIVPHIRRSAVIPKLAGRRQLASSEWIVFRNQSFDPKYLVHFLMSD 109

Query: 132 DVTQRIEAICEGATMSHAD--WKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
               +      G   S      + + +I  P+PPL EQ  I   +               
Sbjct: 110 VFHHQFLNTVAGVGGSLLRARPQYVRSIMAPLPPLDEQRRIAAILDKADAIRQKRRQATT 169

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNT 249
               L +   Q +             ++ +S    +G V      K   ++      KN 
Sbjct: 170 HLETLAQSIFQTMF----------GSRLAESSSTTIGDVAQLQGGKSLSSIDDSAATKNR 219

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYET--YQIVDPGEIVFRFIDLQNDKRSLRS 307
            L  S++ S ++     K         P+ Y          G+++    +      +   
Sbjct: 220 VLKISSVTSGTFKPWESK-------PVPDDYSPPLSHFSHKGDLLISRANTSELVGASAL 272

Query: 308 AQVMERGIITSAYMAVKPHGID--STYLAWLMRSYDLCKVFYAMG---SGLRQSLKFEDV 362
             V  +G++    +      I+    Y   L+R+  +      M     G  +++    +
Sbjct: 273 VHVEPQGLLLPDKIWRFDWLIETQPEYFFHLLRTKAIRGRISNMATGSGGSMKNISKPKL 332

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
             + +      EQ +       +  ++DVL  K ++S     +  +S  + A  G+
Sbjct: 333 LSVQIPRIESNEQREFV----KQVRKVDVLRAKFDESNA--DQLFASLQSRAFRGE 382


>gi|260655882|ref|ZP_05861351.1| putative type-I specificity determinant subunit [Jonquetella
           anthropi E3_33 E1]
 gi|260629498|gb|EEX47692.1| putative type-I specificity determinant subunit [Jonquetella
           anthropi E3_33 E1]
          Length = 415

 Score = 82.9 bits (203), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 56/401 (13%), Positives = 121/401 (30%), Gaps = 25/401 (6%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            W+   I      + G     G         I    + +        +G    +D  + +
Sbjct: 18  EWEERKINDVANFSKGNGYSKGDLKGSGTPIILYGRLYTKYQ--FEIEGVDTFADIRSGA 75

Query: 80  IFAKGQILYGKLG-----PYLRKAIIADFDGICSTQFLVLQP-KDVLPELLQGWLLSIDV 133
           +F+KG  +             R A I     +      +L P   + P  +   + +   
Sbjct: 76  VFSKGNEVIVPASGETAEDIARAAAILKSGILLGGDLNILHPFTFMNPSFVALVISNGPP 135

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            + +    +G ++ H     I  + +  P  AEQ    +KI     ++D LI    R   
Sbjct: 136 QKELARKAQGKSIVHIHNSDIQEVTVRYPDRAEQ----DKISRTFSKLDHLIALHERKYS 191

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
            L   K+ ++  +  K       ++ +G           EV    ++        TK   
Sbjct: 192 KLMNVKKFMLEKMFPKDSAKVPALRFAGFSGEWEKRKLGEVMKVTSVKRIHQSDWTKEGV 251

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
             + +       +     +     +       +  G++    + +           V   
Sbjct: 252 RFLRARDIVAASKNETINDCLFISKEKYEECSLVSGKVSINDLLVTGVGTIGVPFLVRNL 311

Query: 314 GII----TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVL 368
             I     +         ID  +L +   S  +          G   +   E  ++ P++
Sbjct: 312 APIYFKDGNIIWFKNEGKIDGEFLLYSFSSSSIQNFIATTSGLGTVGTYTIETGEKTPII 371

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
           +P I+E+  I   +    + +D L+    Q +  L+  + S
Sbjct: 372 LPSIQEEKKIGQFL----SYLDHLLSLHRQELERLQNVKKS 408



 Score = 54.4 bits (129), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 25/186 (13%), Positives = 61/186 (32%), Gaps = 8/186 (4%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL-KPESYETYQI 285
              +  ++                L  S    + YG +  K +    G+       +  +
Sbjct: 17  DEWEERKINDVANFSKGNGYSKGDLKGSGTPIILYGRLYTKYQFEIEGVDTFADIRSGAV 76

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGII--TSAYMAVKPHGIDSTYLAWLMRSYDLC 343
              G  V      +  +   R+A +++ GI+      +      ++ +++A ++ +    
Sbjct: 77  FSKGNEVIVPASGETAEDIARAAAILKSGILLGGDLNILHPFTFMNPSFVALVISNGPPQ 136

Query: 344 KVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
           K       G     +   D++ + V  P   EQ  I    +   +++D L+   E+    
Sbjct: 137 KELARKAQGKSIVHIHNSDIQEVTVRYPDRAEQDKI----SRTFSKLDHLIALHERKYSK 192

Query: 403 LKERRS 408
           L   + 
Sbjct: 193 LMNVKK 198


>gi|304310388|ref|YP_003809986.1| Type I restriction-modification system specificity subunit [gamma
           proteobacterium HdN1]
 gi|301796121|emb|CBL44327.1| Type I restriction-modification system specificity subunit [gamma
           proteobacterium HdN1]
          Length = 403

 Score = 82.9 bits (203), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 42/406 (10%), Positives = 119/406 (29%), Gaps = 23/406 (5%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            W  +P+ +   ++ GR+    ++          +I   DV+    +         ++  
Sbjct: 2   SWPKLPLDQLGYVSRGRSRHRPRNDPSLYGGSYPFIQTGDVKHANFRISDHTATYSEAGL 61

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
           +   ++ K  +    +   +    +  ++       +     +   +          + +
Sbjct: 62  AQSRLWPKDTLCIT-IAANIADTALLGYEACFPDSIIGFIADEEKADPRFVKYYFDIIQR 120

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            ++ + +GAT  +   + + +  +  PP+  Q  + E + A    I T         +  
Sbjct: 121 ELQMVSQGATQDNLSQEKLLSFGIACPPVEVQRKVAEVLSAYDDLIATNQRRIALLEDAA 180

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
           +   +    ++   G            + V        +      V     K   L E+ 
Sbjct: 181 RRLYREWFVHLRFPGHESVAVK-----DGVPEGWCKRSMTSVADFVNGFAFKPEHLGEAG 235

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
           +  +    +   + ++              +  G+++F +         L +       +
Sbjct: 236 LPVVKIPELRSGITSKTPYNLGHIVPQRNHITTGDVLFSWSATL-----LVNEWGEGPAL 290

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
           +      V P       L        + ++         Q ++   +    +LVP     
Sbjct: 291 LNQHLFKVIPRNELHKRLVRFAVEAAIPELIGHAVGATMQHIRRSALDNHLMLVPDDTTS 350

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
                  +      D ++    Q+  L K  R   +   ++GQ+D+
Sbjct: 351 VAFAAQADPMM---DAVLNLTAQNRELTKA-RDLLLPKLMSGQLDV 392



 Score = 40.2 bits (92), Expect = 0.63,   Method: Composition-based stats.
 Identities = 25/188 (13%), Positives = 56/188 (29%), Gaps = 9/188 (4%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           +P+ W    +        G   +        +  + + ++ SG     P +         
Sbjct: 205 VPEGWCKRSMTSVADFVNGFAFKPEHLGEAGLPVVKIPELRSGITSKTPYNLGHI---VP 261

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
             +    G +L+      L      +   + +     + P++ L + L  + +   + + 
Sbjct: 262 QRNHITTGDVLFSWS-ATLLVNEWGEGPALLNQHLFKVIPRNELHKRLVRFAVEAAIPEL 320

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           I     GATM H     + N  M +P     V    +       +  L  +     +   
Sbjct: 321 I-GHAVGATMQHIRRSALDNHLMLVPDDTTSVAFAAQADPMMDAVLNLTAQNRELTKARD 379

Query: 197 EKKQALVS 204
                L+S
Sbjct: 380 LLLPKLMS 387


>gi|77920514|ref|YP_358329.1| restriction endonuclease S subunit [Pelobacter carbinolicus DSM
           2380]
 gi|77546597|gb|ABA90159.1| restriction endonuclease S subunit [Pelobacter carbinolicus DSM
           2380]
          Length = 394

 Score = 82.5 bits (202), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 75/401 (18%), Positives = 134/401 (33%), Gaps = 31/401 (7%)

Query: 24  HWKVVPIKRFTKLNT--GRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
            W++V      K +    R  E+      +GLE ++        +  NS    TS    F
Sbjct: 9   GWEMVKFGEVVKNSNLVERDPEANAIERIVGLEHIDPENLHI--RRWNSVADGTSFTRKF 66

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV---LPELLQGWLLSIDVTQRIE 138
             GQ L+GK   Y RK   A+F+GICS   L  +PK+    L ELL     S        
Sbjct: 67  VPGQTLFGKRRAYQRKVAFAEFEGICSGDILTFEPKNAKILLAELLPFICQSDAFFDYAL 126

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
               G+      W+ + +   P+PPL EQ  I E + A    ++   +        ++  
Sbjct: 127 DTSVGSLSPRTSWRALKDFEFPLPPLDEQKRIAEILWAADEAVEKYASLTSDLNAYVETL 186

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
            +  ++      +        S    +G         PF +L+   + ++  +       
Sbjct: 187 IENNITSTNVTSV--LGDYCPSDGIKIG---------PFGSLLHAEDYQSEGVPVVMPAD 235

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
           +  G I ++   R    K    + Y++ +   +  R  DL   KR+L  A        T 
Sbjct: 236 IEKGVIQEEKVARISEEKALELQNYRLSENDILFPRRGDLT--KRALVLAHQENWLCGTG 293

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFD 377
                   GI+   + W + S    +            +L    +K++P  +P       
Sbjct: 294 TIRVRLKEGINPRAVFWAVTSSSTNRWLDRFSVGTTMPNLNATTIKKIPFHLPE------ 347

Query: 378 ITNVINVETARIDVLVEKIEQSI---VLLKERRSSFIAAAV 415
             +        ++        ++     L   +   I   V
Sbjct: 348 -GSKAGEFLGLLERTKSLHANAVVHHQKLVALKKHLIGNLV 387


>gi|159038424|ref|YP_001537677.1| restriction endonuclease S subunits-like protein [Salinispora
           arenicola CNS-205]
 gi|157917259|gb|ABV98686.1| Restriction endonuclease S subunits-like protein [Salinispora
           arenicola CNS-205]
          Length = 412

 Score = 82.5 bits (202), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 55/413 (13%), Positives = 126/413 (30%), Gaps = 24/413 (5%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDI----IYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           W V  +    +++ G+  +S +++     Y+G   V+ G                     
Sbjct: 5   WPVSTVGEQFEVHLGKMLDSARNVGFPKPYVGNRAVQWGWIDLSAVGVAPLTQSDIRRFR 64

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICST--QFLVLQPKDVLP-ELLQGWLLSIDVTQRI 137
              G +L  + G   R AI  D    C        ++PK+     L+   L         
Sbjct: 65  LRNGDLLVCEGGEIGRGAIWRDQLSECYYQKALHRMRPKNGYDVRLMLALLEYWSTGGVF 124

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
                  +++H        +P+P+P  AEQ  I E I      I  L     +   + + 
Sbjct: 125 PNYVTQTSIAHLPRDKFIEMPLPLPSAAEQARIGEVIQDVNDLIHALRRMIAKKQAIRQG 184

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIE-WVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
            +Q L++     G         S  E  +G    +           +      + +    
Sbjct: 185 LRQQLLT-----GRTRLPGYSGSWREVSLGRYVSYVNTVALSRAQLDGESPV-RYVHYGD 238

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFI--DLQNDKRSLRSAQVMERG 314
           +      ++                    +  G++VF  +  D     +S+    V + G
Sbjct: 239 IHARDSPMLDAAREALPRASSTLLRNAGRLKVGDLVFADVSEDPDGVGKSVEVTSVPDVG 298

Query: 315 IIT--SAYMAVKPHGIDSTYLAWLMRS-YDLCKVFYAMGSGLRQ-SLKFEDVKRLPVLVP 370
           ++       A     + +      ++      +  + +  G +  +     +  + + +P
Sbjct: 299 VVPGLHTIAARFEKAVLADGFKAYLQFVPSFRETLHRLVVGTKVLATTRSLISSITLTLP 358

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
            + EQ  I +V+          +  +   +   ++ +   +   + G+  L G
Sbjct: 359 NVDEQRAIASVLTDADRE----IAVLRVRLAKARDVKQGMMQELLAGRTRLPG 407


>gi|332366398|gb|EGJ44149.1| hypothetical protein HMPREF9389_0052 [Streptococcus sanguinis
           SK355]
          Length = 408

 Score = 82.5 bits (202), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 46/389 (11%), Positives = 122/389 (31%), Gaps = 25/389 (6%)

Query: 47  DIIYIGLED-VESGTGKYLPKDGNSRQSDTSTVS----IFAKGQILYGKLGPYLRKAIIA 101
            + +   ++ +E  +GK + +         S +     +  +  +L   +G      ++ 
Sbjct: 30  GVPFYRSKEVIEISSGKNISEQLFISSEKYSEIKSKFPVPQENDVLITAVGTIGEILVVK 89

Query: 102 DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPI 161
           D +       L+         +   +L     +   +       +         +    +
Sbjct: 90  DPNFYFKDGNLIWLRNINFDIIDIDYLYYFFKSDLFQKTIRYNNIGAVQKALTIDFLKTV 149

Query: 162 PPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDV---KMK 218
                 +  + K+I+    ID  I    +  + L+   + L  Y   +   PD      K
Sbjct: 150 KITLPSLDNQRKLISVLKSIDKKIQINSQINQELEAMAKTLYDYWFVQFDFPDQNGKPYK 209

Query: 219 DSG------IEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
            SG       E    +P+ W V+    +    + K   L  ++   +             
Sbjct: 210 SSGGKMVYHPELKREIPEGWGVEKLGDITICHDSKRVPLSSNDRELVKGEIPYYGATGIM 269

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
             +    ++   ++   +       +      +      +  +   A++           
Sbjct: 270 DYVNDYIFDGDYVLMAED----GSVMTEKGTPILQRISGKNWVNNHAHVLEPIKNHSCKL 325

Query: 333 LAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
           L  L++   + K+       ++  +  E++ ++ V   P+K  F+I   + V   +   L
Sbjct: 326 LMMLLKDVSVMKI---KTGSIQMKINQENMNKIVVPAIPLKLLFEINQKLEVIEKQQLNL 382

Query: 393 VEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           +E+ +Q    L + R   +   + GQ+ +
Sbjct: 383 IEENKQ----LTQLRDWLLPMLMNGQVKV 407


>gi|261885495|ref|ZP_06009534.1| restriction and modification enzyme CjeI [Campylobacter fetus
           subsp. venerealis str. Azul-94]
          Length = 727

 Score = 82.5 bits (202), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 56/395 (14%), Positives = 118/395 (29%), Gaps = 36/395 (9%)

Query: 26  KVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           K+V +    ++ TG T  +      G D  +    D+ +G       +    +    +  
Sbjct: 343 KLVKLGEICEILTGSTPSTQKKEFYGSDFPFYRPADLING-RNVNSSEVMVSKLGYESQR 401

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
              K  IL   +G   R  +I            +L   + + E L     +    Q +  
Sbjct: 402 ALPKKSILVSCIGTIGRVGMIEKSGIFNQQINALLPNNNYISEFLFYLFDTNFFKQLLIQ 461

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
                T+   +     NI +P+PPL  Q  I ++           + E+ + I +  E+ 
Sbjct: 462 QTHNTTVPIINKSKFSNIKIPLPPLEIQEKIAKEC--------EEVEEKFKTIRMSIEEY 513

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
           ++L+  I+ KG      + DS +E  G                +    +           
Sbjct: 514 KSLIKEILIKG----CVITDSRLEIGGGYEQDLAQIVNDLPSPQNYGLSEWESVKLTNKD 569

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
               I +++  +++     +  +  + +P   + + +       S+      +       
Sbjct: 570 FILKIGKRVLDKDLTQDGINVFSANVKEPFGKINKDLIKDFSLDSVLWGIDGDWMTG--- 626

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFY---------AMGSGLRQSLKFEDVKRLPVLVP 370
                      T    ++RS                   G   +     E +  L + +P
Sbjct: 627 -FVKANEPFYPTDHCGVLRSKSHKAKILEFALFEVGAKFGFSRQNRASIERISNLTLSLP 685

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
           P++ Q  I   I      I  L       +  L+ 
Sbjct: 686 PLEAQEKIVKAIEFCEGEISNL----NNELKTLEN 716


>gi|159027726|emb|CAO89595.1| unnamed protein product [Microcystis aeruginosa PCC 7806]
          Length = 1193

 Score = 82.5 bits (202), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 47/403 (11%), Positives = 107/403 (26%), Gaps = 42/403 (10%)

Query: 25   WKVVPIKRFTKLNTGRTS--------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            W    +K    ++ G +         E    + ++ + D +             +     
Sbjct: 761  WNTSKLKDLFNISRGGSPRPINNYLTEDDNGVNWLKIGDTKEVDKYIYKTRQKIKPEGAK 820

Query: 77   TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQ-FLVLQPKDVLPELLQGWLLSIDVTQ 135
                  +  ++      + +  I+     I                + L   L +  + Q
Sbjct: 821  FSRKVIEDDLILSNSMSFGKPFIMKITAYIHDGWLLFRSITNQASKDYLYIVLGTNLIYQ 880

Query: 136  RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF---- 191
              +    G  + + +   + +I +PIPP   Q  I  K+            E  +     
Sbjct: 881  LFKKQTIGGVVENLNIDLVKHIKVPIPPKEIQDKIVAKMDDAYAAKKQKELEAQQLLESI 940

Query: 192  -----------------IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEV 234
                               +        +S +     +P     +              +
Sbjct: 941  DDYLLGELGIELPEPEENTIKNRIFIRNLSEVSGDRFDPLYYFSNIYKSLEKSAFKLDYI 1000

Query: 235  KPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY--------ETYQIV 286
                A +        +    +   +           R        Y            I+
Sbjct: 1001 SRITAYMKTGFASGKQDQSKDDQGIIQIRPTNINNAREFVFNKNVYIPHFELLKRKEDIL 1060

Query: 287  DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH--GIDSTYLAWLMRSYDLCK 344
               EI+F   + Q          +      ++    V      ID  YLA +   Y   +
Sbjct: 1061 QKDEILFNNTNSQELVGKSILFNLEGFYFCSNHITRVGVKKGKIDPQYLAHIFNLYQHQQ 1120

Query: 345  VFYAMGS--GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
            VF+ + +    +  +  E + +L + +PP+++Q +I+  IN  
Sbjct: 1121 VFFKICTNWNNQSGVNVEVLGQLKIPLPPLEKQIEISEHINAI 1163



 Score = 59.0 bits (141), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 28/220 (12%), Positives = 68/220 (30%), Gaps = 14/220 (6%)

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK 247
             R      + +  ++   +  G     K+KD      G  P                 K
Sbjct: 737 WGRLDPHFHKIEFKMIEQQIENGKWNTSKLKDLFNISRGGSPRPINNYLTEDDNGVNWLK 796

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
                E +          + +      +KPE  +  + V   +++            ++ 
Sbjct: 797 IGDTKEVD----------KYIYKTRQKIKPEGAKFSRKVIEDDLILSNSMSFGKPFIMKI 846

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLP 366
              +  G +         +     YL  ++ +  + ++F      G+ ++L  + VK + 
Sbjct: 847 TAYIHDGWL---LFRSITNQASKDYLYIVLGTNLIYQLFKKQTIGGVVENLNIDLVKHIK 903

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
           V +PP + Q  I   ++   A       + +Q +  + + 
Sbjct: 904 VPIPPKEIQDKIVAKMDDAYAAKKQKELEAQQLLESIDDY 943


>gi|317014950|gb|ADU82386.1| typeI R-M system specificity subunit [Helicobacter pylori
           Gambia94/24]
          Length = 207

 Score = 82.5 bits (202), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 28/198 (14%), Positives = 65/198 (32%), Gaps = 11/198 (5%)

Query: 229 PDHWEVKPFFA--LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL-KPESYETYQI 285
           P  W+         + +   +  +     +   S  NI+     + +      +      
Sbjct: 13  PKAWQKVRLGDIAHIFDGTHQTPQYTHYGVAFFSVENIVSDKPVKFISQQDYLTATNQNR 72

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV 345
            +  +I+   I       S          I  +  +  +    +S YL + ++S    K 
Sbjct: 73  PEYNDILLTRIGTIG--VSKVVNWNYPFSIYVTLAVIKQSKYFNSYYLHYFIQSNFFQKE 130

Query: 346 FYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
                    +   +   ++K+  V++PP+ EQ  I NV++     I  L  K  Q     
Sbjct: 131 LKNNSLLQAIPCKINMNELKKCEVILPPLNEQIAIANVLSDVDNEIISLKNKKRQ----F 186

Query: 404 KERRSSFIAAAVTGQIDL 421
           +  + +     ++ +I +
Sbjct: 187 ENIKKALNHDLMSAKIRV 204



 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 27/190 (14%), Positives = 63/190 (33%), Gaps = 8/190 (4%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSE---SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +PK W+ V +     +  G       +   + +  +E++ S   K +           + 
Sbjct: 12  LPKAWQKVRLGDIAHIFDGTHQTPQYTHYGVAFFSVENIVSD--KPVKFISQQDYLTATN 69

Query: 78  VSIFAKGQILYGKLGPYL-RKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
            +      IL  ++G     K +  ++         V++           + +  +  Q+
Sbjct: 70  QNRPEYNDILLTRIGTIGVSKVVNWNYPFSIYVTLAVIKQSKYFNSYYLHYFIQSNFFQK 129

Query: 137 IEAICE--GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
                    A     +   +    + +PPL EQ+ I   +      I +L  ++ +F  +
Sbjct: 130 ELKNNSLLQAIPCKINMNELKKCEVILPPLNEQIAIANVLSDVDNEIISLKNKKRQFENI 189

Query: 195 LKEKKQALVS 204
            K     L+S
Sbjct: 190 KKALNHDLMS 199


>gi|303326056|ref|ZP_07356499.1| type I restriction-modification system, S subunit [Desulfovibrio
           sp. 3_1_syn3]
 gi|302863972|gb|EFL86903.1| type I restriction-modification system, S subunit [Desulfovibrio
           sp. 3_1_syn3]
          Length = 302

 Score = 82.5 bits (202), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 47/294 (15%), Positives = 91/294 (30%), Gaps = 14/294 (4%)

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
                 +V Q I    E              I   IP L EQ  + + +      +D  I
Sbjct: 11  NIKFMYEVLQTISYCTETHERHWISKFAPMPIK--IPQLREQQKVADCL----SSLDQRI 64

Query: 186 TERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN 245
                 ++ LK  K  L+  +          ++       G             L     
Sbjct: 65  NAETEKLDALKAHKNGLLKQLFPLEGETLPALRFPEFRDAGEWKKADFGNIAKFLSGGTP 124

Query: 246 RKNTK-LIESNILSLSYGNIIQKLETRN--MGLKPESYETYQIVDPGEIVFRFIDLQNDK 302
            K+       +I  +S  ++      ++     K       +I   G ++         K
Sbjct: 125 SKDVCDYWGGDIPWISASSMHNTKIEKSDCNITKLAVSNGARIAPKGTLLLLVRGSMLHK 184

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFED 361
           R L     ++          V    I   YL + + + +   +   + +G+    L  +D
Sbjct: 185 RILLGISEIDVSFNQDVKALVLNDDITELYLMYFLMASESKLLATVVQTGIGAGKLDTDD 244

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           +   P+++P   EQ  I+N +    + +D L+    Q I LLK+ +   +    
Sbjct: 245 LNNFPIMMPSPIEQQRISNCL----SSLDELIAAQTQKINLLKDHKKGLMQQLF 294



 Score = 54.0 bits (128), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 39/214 (18%), Positives = 73/214 (34%), Gaps = 24/214 (11%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESG------KDIIYIGLEDVESG 59
            +P+++D+G          WK        K  +G T           DI +I    + + 
Sbjct: 97  RFPEFRDAG---------EWKKADFGNIAKFLSGGTPSKDVCDYWGGDIPWISASSMHNT 147

Query: 60  TGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRK---AIIADFDGICSTQFLVLQP 116
             +    +        +   I  KG +L    G  L K     I++ D   +     L  
Sbjct: 148 KIEKSDCNITKLAVS-NGARIAPKGTLLLLVRGSMLHKRILLGISEIDVSFNQDVKALVL 206

Query: 117 KDVLPELLQGWL-LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKII 175
            D + EL   +  ++ +       +  G      D   + N P+ +P   EQ  I   + 
Sbjct: 207 NDDITELYLMYFLMASESKLLATVVQTGIGAGKLDTDDLNNFPIMMPSPIEQQRISNCLS 266

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVSYIVTK 209
           +        I  + + I LLK+ K+ L+  +  +
Sbjct: 267 SLDEL----IAAQTQKINLLKDHKKGLMQQLFPR 296


>gi|222036088|emb|CAP78833.1| (Q83II4) hypothetical protein [Escherichia coli LF82]
 gi|312948974|gb|ADR29801.1| type I restriction enzyme EcoEI specificity protein [Escherichia
           coli O83:H1 str. NRG 857C]
          Length = 568

 Score = 82.5 bits (202), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 60/482 (12%), Positives = 131/482 (27%), Gaps = 96/482 (19%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT 60
           +K  K  P+   S  + +  +P+ W+ V      ++  G      K           S +
Sbjct: 83  IKKQKPLPEI--SEEEKLFELPEGWEWVRFGNIYEMEYGNNLPQEK----------RSNS 130

Query: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLR-KAIIADFDGICSTQFLVLQPKDV 119
           G+Y     N      +   I     I+ G+ G              +    +  + P  +
Sbjct: 131 GEYNVYGSNGVVGTHNEACI-KSPCIIIGRKGSAGALNLSNQPACWVTDVAYSTIPPIAM 189

Query: 120 LPELLQGWLLSIDVTQRIEAICEGATMSHADW---------------KGIGNIPMPIPPL 164
           + E +     ++ + +  + I  G   + A                   +  +      L
Sbjct: 190 VLEFVFIQFHTLGLDKLGKGIKPGLNRNDAYSLVIAIPPRSEQKAIVSKVNELMSLCDQL 249

Query: 165 AEQV---------------------LIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
            +Q                         E++     RI             +   KQ ++
Sbjct: 250 EQQSLTSLDAHQQLVETLLGTLADSQNAEELAENWARISEHFDTLFTTEASVDALKQTIL 309

Query: 204 SYIVTKGLNPDVK-------------------------------MKDSGIEWVGLVPDHW 232
              V   L P                                  +  S  E    +P+ W
Sbjct: 310 QLAVMGKLVPQDPNDEPASELLKRIAQEKAQLVKEGKIKKQKPLLPISDEEKPFELPNGW 369

Query: 233 EVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI------- 285
           E      L+  ++   +    S   +     +++    +++  +    +           
Sbjct: 370 EWCRLGELIDSIDAGWSPACSSEPAAPGEWGVLKTTAVQSLEYREYENKALPKNKAPRPQ 429

Query: 286 --VDPGEIVFRFIDLQNDKRS-LRSAQVMERGIITSAYMAVK--PHGIDSTYLAWLMRSY 340
             V  G+I+      +N            E  +I+   +        I   Y++  +   
Sbjct: 430 LEVKAGDILITRAGPKNRVGISCLVENTRENLMISDKIIRFHLISEDISEKYISLCLNYG 489

Query: 341 DLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
                     SG+   + ++  + +K  P+ +P   EQ  IT+ IN        L  +I+
Sbjct: 490 FTSTYLENSKSGMAESQMNISQDILKMAPIAIPTTHEQLKITDKINEIMDYFITLKSQIQ 549

Query: 398 QS 399
            +
Sbjct: 550 SA 551



 Score = 62.1 bits (149), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 29/192 (15%), Positives = 62/192 (32%), Gaps = 16/192 (8%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
           S  E +  +P+ WE   F  +       N    + +           +           +
Sbjct: 93  SEEEKLFELPEGWEWVRFGNIYEMEYGNNLPQEKRS--------NSGEYNVYGSNGVVGT 144

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
           +    I  P  I+ R         +L  +      +   AY  + P  +   ++     +
Sbjct: 145 HNEACIKSPCIIIGRKGSA----GALNLSNQPACWVTDVAYSTIPPIAMVLEFVFIQFHT 200

Query: 340 YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
                    +G G++  L   D   L + +PP  EQ  I + +N   +  D L ++   S
Sbjct: 201 LG----LDKLGKGIKPGLNRNDAYSLVIAIPPRSEQKAIVSKVNELMSLCDQLEQQSLTS 256

Query: 400 IVLLKERRSSFI 411
           +   ++   + +
Sbjct: 257 LDAHQQLVETLL 268



 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 26/205 (12%), Positives = 50/205 (24%), Gaps = 16/205 (7%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDII-------YIGLEDVESGTGKYLPKDGNSRQ 72
            +P  W+   +           S +             +    V+S   +        + 
Sbjct: 364 ELPNGWEWCRLGELIDSIDAGWSPACSSEPAAPGEWGVLKTTAVQSLEYREYENKALPKN 423

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIA-----DFDGICSTQFLVLQPKDVLPELLQGW 127
                      G IL  + GP  R  I         + + S + +               
Sbjct: 424 KAPRPQLEVKAGDILITRAGPKNRVGISCLVENTRENLMISDKIIRFHLISEDISEKYIS 483

Query: 128 LLSIDVTQRIE----AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           L                    +  +     +   P+ IP   EQ+ I +KI        T
Sbjct: 484 LCLNYGFTSTYLENSKSGMAESQMNISQDILKMAPIAIPTTHEQLKITDKINEIMDYFIT 543

Query: 184 LITERIRFIELLKEKKQALVSYIVT 208
           L ++     +       AL +  + 
Sbjct: 544 LKSQIQSAQQTQLHLADALTNAAIN 568


>gi|258546307|ref|ZP_05706541.1| restriction modification system DNA specificity domain protein
           [Cardiobacterium hominis ATCC 15826]
 gi|258518451|gb|EEV87310.1| restriction modification system DNA specificity domain protein
           [Cardiobacterium hominis ATCC 15826]
          Length = 391

 Score = 82.5 bits (202), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 63/414 (15%), Positives = 118/414 (28%), Gaps = 52/414 (12%)

Query: 26  KVVPIKRFTKLNTGRT-SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           K+  +        G++   S  DI   G   +   + KY   +                 
Sbjct: 6   KIKFLSDLIDFKNGKSIKPSSGDIPIYGGNGILGYSEKYNYNNI---------------- 49

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            ++ G++G Y             S   +  + K         +L+       +     G+
Sbjct: 50  -LIIGRVGAYCGSIHYHKEKCWVSDNAIAGEVKSDYSIDYLYYLMKSL---NLNDRQVGS 105

Query: 145 TMSHADWKGIGNIPMPIPPL-AEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           +        + NI + I      Q  I   +      +D  I    +    L+E  + L 
Sbjct: 106 SQPLLTQGVLNNISVKIYESSQTQQSIAAVL----SALDKKIALNKQINARLEEMAKTLY 161

Query: 204 SYIVTKGLNPD---VKMKDSGIEWVG------LVPDHWEVKPFFALVTELNRKN------ 248
            Y   +   PD      K SG E V        +P  WEVK    + +  +         
Sbjct: 162 DYWFVQFDFPDANGKPYKSSGGEMVFDETLKREIPKGWEVKSLGEIASTSSGGTPTSTIQ 221

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKP---ESYETYQIVDPGEIVFRFIDLQNDKRSL 305
                 NI  ++ G +                    + ++V    I+         K SL
Sbjct: 222 EYYKGGNIPWINSGELNNNFIVHTDNFITQTGMDNSSAKLVSEKSILLAMYGATAGKTSL 281

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRL 365
            S +      I S      P  ++               +        R +L  + +KRL
Sbjct: 282 ISFKTTTNQAICSIL----PKDMNHRVYIKSYLDNMYLYLVQLSSGSARDNLSQDKIKRL 337

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
            +++P       I  + +  T      +E   +    L + R   +   + GQ+
Sbjct: 338 HLVIPESG----ILEIFSKVTEDFYKKIETNLKQSHHLTQLRDFLLPMLMNGQV 387



 Score = 80.6 bits (197), Expect = 4e-13,   Method: Composition-based stats.
 Identities = 33/212 (15%), Positives = 71/212 (33%), Gaps = 14/212 (6%)

Query: 10  YKDSGVQWI------GAIPKHWKVVPIKRFTKLNTGRTSE-------SGKDIIYIGLEDV 56
           YK SG + +        IPK W+V  +      ++G T          G +I +I   ++
Sbjct: 178 YKSSGGEMVFDETLKREIPKGWEVKSLGEIASTSSGGTPTSTIQEYYKGGNIPWINSGEL 237

Query: 57  ESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP 116
            +    +          D S+  + ++  IL    G    K  +  F    +     + P
Sbjct: 238 NNNFIVHTDNFITQTGMDNSSAKLVSEKSILLAMYGATAGKTSLISFKTTTNQAICSILP 297

Query: 117 KDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIA 176
           KD+    +       ++   +  +  G+   +     I  + + IP      +  +    
Sbjct: 298 KDMNHR-VYIKSYLDNMYLYLVQLSSGSARDNLSQDKIKRLHLVIPESGILEIFSKVTED 356

Query: 177 ETVRIDTLITERIRFIELLKEKKQALVSYIVT 208
              +I+T + +     +L       L++  V 
Sbjct: 357 FYKKIETNLKQSHHLTQLRDFLLPMLMNGQVF 388


>gi|291296825|ref|YP_003508223.1| restriction modification system DNA specificity domain-containing
           protein [Meiothermus ruber DSM 1279]
 gi|290471784|gb|ADD29203.1| restriction modification system DNA specificity domain protein
           [Meiothermus ruber DSM 1279]
          Length = 419

 Score = 82.5 bits (202), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 49/430 (11%), Positives = 117/430 (27%), Gaps = 48/430 (11%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            WK   +    +L  G                       Y+P   +S  +D    ++   
Sbjct: 4   EWKECALGEVIELKRGYDLPQQDRRP------------GYVPIVSSSGVTDYHAEAMVKG 51

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
             ++ G+ G       +       +T   V   K   P  +  +L  +D    ++     
Sbjct: 52  PGVVTGRYGTLGEVFYVEQDFWPLNTTLYVRDFKGNDPRFISYFLRGLDFFAYVDK---- 107

Query: 144 ATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           A +   +   +    + +P  + EQ  I   +     +I+           + +   ++ 
Sbjct: 108 AAVPGINRNHLHQARVIVPTDVGEQRAIAHILGTLDDKIELNRRMSETLEAMARALFKSW 167

Query: 203 VSYI-------------------VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTE 243
                                  +   L      +    E +G +P+ W VK    L   
Sbjct: 168 FVDFDPVRAKMEGRWQRGQSLPGLPAHLYDLFPDRLVDSE-LGEIPEGWGVKSIGDLAEV 226

Query: 244 LNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFR-------FI 296
           +     K   +        + +   +   + +        +I D G             +
Sbjct: 227 VGGSTPKTECAEFWDGGTHHWVTPKDLSGLSMPVLLDTERKITDAGLAQISSGLLPRGTV 286

Query: 297 DLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS 356
            L +       A       +   ++A+KP    S             ++           
Sbjct: 287 LLSSRAPIGYLAIAEVPVAVNQGFIAMKPRQGVSNLFLLRWARAAHDEILSHANGSTFLE 346

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           +     + + V+ PP      I +  +  +  +   V +       L   R + +   ++
Sbjct: 347 ISKASFRPIRVVTPPTP----IMDAFDQFSRPMYGKVVENALESRTLAALRDALLPKLIS 402

Query: 417 GQIDLRGESQ 426
           G+I ++   +
Sbjct: 403 GEIRVKDAER 412



 Score = 65.2 bits (157), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 30/203 (14%), Positives = 61/203 (30%), Gaps = 15/203 (7%)

Query: 12  DSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVESGTGKY- 63
           DS    +G IP+ W V  I    ++  G T ++       G    ++  +D+   +    
Sbjct: 205 DSE---LGEIPEGWGVKSIGDLAEVVGGSTPKTECAEFWDGGTHHWVTPKDLSGLSMPVL 261

Query: 64  --LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP 121
               +          +  +  +G +L     P      IA+     +  F+ ++P+  + 
Sbjct: 262 LDTERKITDAGLAQISSGLLPRGTVLLSSRAPI-GYLAIAEVPVAVNQGFIAMKPRQGVS 320

Query: 122 ELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
             L     +      I +   G+T           I +  PP        +       ++
Sbjct: 321 N-LFLLRWARAAHDEILSHANGSTFLEISKASFRPIRVVTPPTPIMDAFDQFSRPMYGKV 379

Query: 182 DTLITERIRFIELLKEKKQALVS 204
                E      L       L+S
Sbjct: 380 VENALESRTLAALRDALLPKLIS 402


>gi|160939419|ref|ZP_02086769.1| hypothetical protein CLOBOL_04312 [Clostridium bolteae ATCC
           BAA-613]
 gi|158437629|gb|EDP15391.1| hypothetical protein CLOBOL_04312 [Clostridium bolteae ATCC
           BAA-613]
          Length = 430

 Score = 82.5 bits (202), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 54/417 (12%), Positives = 113/417 (27%), Gaps = 38/417 (9%)

Query: 25  WKVVPIKRFTKLNTGRTSESGK-----DIIYIGLEDVESGTGKYLPKDGNSRQSDTS--- 76
           W               T    +     D++ I   DV    G  L    N+     S   
Sbjct: 25  WCSHKFSSVFSFLQNNTLSRAELDATGDVLDIHYGDVLIKYGSILDATDNTIPHIISGHE 84

Query: 77  --TVSIFAKGQILYG------KLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ-GW 127
                    G I+         +G  +    I+          +  +P      +    +
Sbjct: 85  STNYDYLQDGDIIVADTAEDETVGKTIELLNISGRKIEAGLHTVPCRPLFPFASMYLGYY 144

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNI-PMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           + +    +++  + +G  +       I          +AEQ  I   +     R      
Sbjct: 145 MNTPHYHKQLVPLMQGIKVLSISKGNISKTEISSPQTIAEQEKISRFLYLLDQRAAAQSK 204

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
                 +  +     L                   I  +G   +  +   F       N 
Sbjct: 205 IIDALKKYKRGLSDTLFDRTAQSPSCK--------IVKLGDAFELLQNNTFSRDDLTTNP 256

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKP----ESYETYQIVDPGEIVFRFIDLQNDK 302
            + + I    + + YG +    E     +KP    + +     +  G+IVF         
Sbjct: 257 SSVQNIHYGDVLVKYGAVTNISEYTPPYIKPTINLQKFVATSYLRDGDIVFADTAEDYSV 316

Query: 303 RSLRSAQVMERGIITSAYMAVKP---HGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLK 358
                        + S    +           YLA+   S    +  Y +  G    S+ 
Sbjct: 317 GKATEIAGANGLAVLSGLHTIPCRPLMKFHPMYLAYYFNSSLFRRQIYPLVQGTKVSSIS 376

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
             ++ +  V  P  +EQ  I +++      +D+ +   E+++  L   R++ +    
Sbjct: 377 KGELVKTSVYAPTEREQRRIASMLY----LLDLRITFEEKTVNALTNTRTALLQQLF 429


>gi|238921300|ref|YP_002934815.1| hypothetical protein NT01EI_3443 [Edwardsiella ictaluri 93-146]
 gi|238870869|gb|ACR70580.1| conserved hypothetical protein [Edwardsiella ictaluri 93-146]
          Length = 323

 Score = 82.5 bits (202), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 51/304 (16%), Positives = 113/304 (37%), Gaps = 16/304 (5%)

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVL-IREKIIAETVRIDTL 184
            + L  ++ QR  A   GAT++    K + N  + +P   ++ + I +K+ +    I  L
Sbjct: 27  FYQLQSNLVQRQIAETLGATINQITNKDLSNFKIAVPRNKDEYIEISDKLASIDGLIIDL 86

Query: 185 ITERIRFIELLKEKKQALVS---YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALV 241
                +   +     Q L++    +    L  D  +K      +G +P+ W ++ F  L 
Sbjct: 87  KKIVNKKQAIKTATMQQLLTGKTRLPQFALREDGTVKGYKKSELGEIPEDWSIENFSTLA 146

Query: 242 T-ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET-YQIVDPGEIVFRFIDLQ 299
           T    R N +  +   L +   +II +    N   +     +   +  P +I+F  +   
Sbjct: 147 TLRNERINPRTKDIECLCIELEHIISEYGQLNGFTETSGTSSIKNVFSPNDILFGKLRSY 206

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHGI--DSTYLAWLMRSYDLCKVFYAMGSGLRQSL 357
             K      +  + G+ ++    +K         ++   +++    +             
Sbjct: 207 LKKYW----KATQSGVCSTEIWVLKTELHKAIPEFIFQTVKTDRFVQTASEAYGTHMPRA 262

Query: 358 KFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
            ++ +K L V  P I+EQ  I  +++     I  L     Q +   ++ +   +   +TG
Sbjct: 263 DWKIIKELQVATPSIEEQIAIATILSDMDKEIQTL----HQRLDKTRQLKQGMMQELLTG 318

Query: 418 QIDL 421
           +  L
Sbjct: 319 KTRL 322



 Score = 73.3 bits (178), Expect = 8e-11,   Method: Composition-based stats.
 Identities = 54/199 (27%), Positives = 85/199 (42%), Gaps = 10/199 (5%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDI--IYIGLEDVESGTGKYLPKD 67
           YK S    +G IP+ W +        L   R +   KDI  + I LE + S  G+     
Sbjct: 125 YKKSE---LGEIPEDWSIENFSTLATLRNERINPRTKDIECLCIELEHIISEYGQL--NG 179

Query: 68  GNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV--LPELLQ 125
                  +S  ++F+   IL+GKL  YL+K   A   G+CST+  VL+ +    +PE + 
Sbjct: 180 FTETSGTSSIKNVFSPNDILFGKLRSYLKKYWKATQSGVCSTEIWVLKTELHKAIPEFIF 239

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
             + +    Q       G  M  ADWK I  + +  P + EQ+ I   +      I TL 
Sbjct: 240 QTVKTDRFVQTASEAY-GTHMPRADWKIIKELQVATPSIEEQIAIATILSDMDKEIQTLH 298

Query: 186 TERIRFIELLKEKKQALVS 204
               +  +L +   Q L++
Sbjct: 299 QRLDKTRQLKQGMMQELLT 317



 Score = 62.1 bits (149), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 14/93 (15%), Positives = 40/93 (43%), Gaps = 5/93 (5%)

Query: 331 TYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-PIKEQFDITNVINVETARI 389
            Y+ + ++S  + +            +  +D+    + VP    E  +I++ +    A I
Sbjct: 24  PYVFYQLQSNLVQRQIAETLGATINQITNKDLSNFKIAVPRNKDEYIEISDKL----ASI 79

Query: 390 DVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
           D L+  +++ +   +  +++ +   +TG+  L 
Sbjct: 80  DGLIIDLKKIVNKKQAIKTATMQQLLTGKTRLP 112


>gi|119471837|ref|ZP_01614170.1| Restriction endonuclease S subunits-like protein [Alteromonadales
           bacterium TW-7]
 gi|119445327|gb|EAW26616.1| Restriction endonuclease S subunits-like protein [Alteromonadales
           bacterium TW-7]
          Length = 440

 Score = 82.5 bits (202), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 59/404 (14%), Positives = 127/404 (31%), Gaps = 19/404 (4%)

Query: 31  KRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLP-KDGNSRQSDTSTVSIFAKGQILYG 89
               +++          + ++   D+++G   Y   K     Q++         G +L  
Sbjct: 35  GNHGEIHPKGDDFVESGVPFVMASDIKNGQINYETCKYIKPEQAEGLRKGFAKSGDVLLT 94

Query: 90  KLGPYLRKAIIADFDGICS------TQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC-E 142
                 R A++ +            T + VL   ++    L+ +  S    + +E     
Sbjct: 95  HKATIGRTALVNNKSYQYIMLTPQVTYYRVLDHNELSNLYLKYYFDSSLFQKTLELWSGS 154

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           G+T ++        +P+ +PP+ +Q  I   + A    I+           + KE  +  
Sbjct: 155 GSTRAYLGITAQHKLPVILPPIEKQKKIASTLAAYDNLIENSRKRISTIENITKEVYREW 214

Query: 203 VSYIVTKGLNPDVKMKDSGIEW----VGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
                          K     W    +G + D    K  +                 I+ 
Sbjct: 215 FVRFRFPEYKTSSFKKGIPASWEIKTLGDLCDVTSSKRIYQEDYVP-EGVPFFRSKEIIQ 273

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
            S G   + +   +     E  E +     G+I+   +        LR            
Sbjct: 274 KSNGLEPKDILYISDEKYTEIKEKFGSPKSGDILLTSVGTLGISYQLRDDDKFYFKDGNL 333

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCK-VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFD 377
            ++      ++  +L + + S      +        +Q+     +K++ VL+P I+    
Sbjct: 334 IWLKALDQEVN-KFLKFWLNSPVGKAALLETTIGSSQQAFTISGLKKVKVLLPNIEL--- 389

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           IT   N  +A +      + Q I +L   + S I   V+G+  +
Sbjct: 390 ITEF-NKFSAPLKEQCYNLHQQIKILNNTKLSLIERLVSGEQKV 432



 Score = 57.1 bits (136), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 27/181 (14%), Positives = 59/181 (32%), Gaps = 12/181 (6%)

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET----YQIVDPGEI 291
           P      E++ K    +ES +  +   +I             +  +           G++
Sbjct: 32  PLDGNHGEIHPKGDDFVESGVPFVMASDIKNGQINYETCKYIKPEQAEGLRKGFAKSGDV 91

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITS--AYMAVKPHGIDSTYLAWLMRSYDLCK--VFY 347
           +            + +       +      Y  +  + + + YL +   S    K    +
Sbjct: 92  LLTHKATIGRTALVNNKSYQYIMLTPQVTYYRVLDHNELSNLYLKYYFDSSLFQKTLELW 151

Query: 348 AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
           +     R  L      +LPV++PPI++Q  I + +    A  D L+E   + I  ++   
Sbjct: 152 SGSGSTRAYLGITAQHKLPVILPPIEKQKKIASTL----AAYDNLIENSRKRISTIENIT 207

Query: 408 S 408
            
Sbjct: 208 K 208



 Score = 47.5 bits (111), Expect = 0.004,   Method: Composition-based stats.
 Identities = 28/217 (12%), Positives = 64/217 (29%), Gaps = 26/217 (11%)

Query: 6   AYPQYKDS----GVQWIGAIPKHWKVVPIKRFTKLNTGRTSESG----KDIIYIGLEDVE 57
            +P+YK S    G      IP  W++  +     + + +         + + +   +++ 
Sbjct: 219 RFPEYKTSSFKKG------IPASWEIKTLGDLCDVTSSKRIYQEDYVPEGVPFFRSKEII 272

Query: 58  SGTGKYLPKDGNSRQSDTSTVSIFAK-------GQILYGKLGPYLRKAIIAD---FDGIC 107
             +    PKD      +    +   +       G IL   +G       + D   F    
Sbjct: 273 QKSNGLEPKDILYISDE--KYTEIKEKFGSPKSGDILLTSVGTLGISYQLRDDDKFYFKD 330

Query: 108 STQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQ 167
                +      + + L+ WL S      +     G++       G+  + + +P +   
Sbjct: 331 GNLIWLKALDQEVNKFLKFWLNSPVGKAALLETTIGSSQQAFTISGLKKVKVLLPNIELI 390

Query: 168 VLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
               +       +   L  +            + LVS
Sbjct: 391 TEFNKFSAPLKEQCYNLHQQIKILNNTKLSLIERLVS 427


>gi|324992017|gb|EGC23939.1| type I restriction enzyme specificity protein [Streptococcus
           sanguinis SK405]
          Length = 408

 Score = 82.5 bits (202), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 45/406 (11%), Positives = 115/406 (28%), Gaps = 33/406 (8%)

Query: 24  HWKVVPIKRFTKLNTGRTS-----------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
            W +  +                        S + I ++   D+++G          ++ 
Sbjct: 17  SWSIKKLSDTQTCFKDGNYGEAYPKETDLTTSTQGIPFLRGSDLDNGKLTLTNARYITKS 76

Query: 73  SDTSTVS-IFAKGQILYGKLGPYL--RKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
                VS    +  I+    G                 ++Q  +++ + +          
Sbjct: 77  KHNELVSGHLIEDDIVIAVRGSLGSLGYVSPESVGWNINSQLAIIRTRKIEIIGNYLIQF 136

Query: 130 SIDVT--QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
            +     + I +   G  +     K + NI +PIP + EQ  I          + +    
Sbjct: 137 LLSNRGGKEISSHITGTALKQLPIKQLKNIKVPIPKIDEQSAIGSLFRTLDDLLASYKVN 196

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK 247
              +  L       +          P++++     EW   + + +             ++
Sbjct: 197 LANYQSLKATMLSKMFPKAGQT--VPEIRLDGFEGEWGNAIINDYVTLLNGRAF----KQ 250

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
           +  L       +  GN     +     L+ E  +     +  ++++ +      +     
Sbjct: 251 DELLNGGKYRVVRVGNFNTNEKWYYSNLELEENK---YANKDDLLYLWATNFGPEIWKEE 307

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
             +    I    +       ID  YL + +   D  ++           +    ++    
Sbjct: 308 KIIFHYHIWKLEF---DRSIIDRNYLYYWLE-KDKKRIQQNTNGSTMVHVTKSMMENREF 363

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           L P  +EQ  I +      + +D L+   ++ I  L+  +   +  
Sbjct: 364 LFPMFREQQAIGSY----FSNLDNLINSHQEKISQLETLKKKLLQD 405



 Score = 64.8 bits (156), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 26/208 (12%), Positives = 65/208 (31%), Gaps = 11/208 (5%)

Query: 213 PDVKMKDSGIEW-VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETR 271
           P ++ K     W +  + D               ++      +  +    G+ +   +  
Sbjct: 7   PKIRFKKFNDSWSIKKLSDTQTCFKDGNYGEAYPKETDLTTSTQGIPFLRGSDLDNGKLT 66

Query: 272 NMGLKPESYETYQIVDPG-----EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
               +  +   +  +  G     +IV            +    V        A +  +  
Sbjct: 67  LTNARYITKSKHNELVSGHLIEDDIVIAVRGSLGSLGYVSPESVGWNINSQLAIIRTRKI 126

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
            I   YL   + S    K   +  +G   + L  + +K + V +P I EQ  I +     
Sbjct: 127 EIIGNYLIQFLLSNRGGKEISSHITGTALKQLPIKQLKNIKVPIPKIDEQSAIGS----L 182

Query: 386 TARIDVLVEKIEQSIVLLKERRSSFIAA 413
              +D L+   + ++   +  +++ ++ 
Sbjct: 183 FRTLDDLLASYKVNLANYQSLKATMLSK 210


>gi|269966771|ref|ZP_06180846.1| hypothetical protein VMC_22760 [Vibrio alginolyticus 40B]
 gi|269828631|gb|EEZ82890.1| hypothetical protein VMC_22760 [Vibrio alginolyticus 40B]
          Length = 371

 Score = 82.5 bits (202), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 49/362 (13%), Positives = 114/362 (31%), Gaps = 25/362 (6%)

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPE 122
           Y+    N +    S  +      ++    G       I++     +   + L   D    
Sbjct: 26  YVVYGANGKIGYYSEYTH-ENPTVMITCRGATCGNVHISEPKAYINGNAMALDDVDPE-R 83

Query: 123 LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
           +   +L    + +    +  G+       KG+  + +P+PPL  Q  I E +        
Sbjct: 84  VDINYLRYCLIDRGFRDVISGSAQPQITGKGLSKVQIPLPPLETQKQIAEVLEKADQLRK 143

Query: 183 TLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVT 242
                      L +          +    +P    K     W                VT
Sbjct: 144 DCQQMEQELNSLAQSV-------FIDMFGDPVTNPKG----WDLKPLSSLGEVKGGLQVT 192

Query: 243 ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVF--RFIDLQN 300
                N   +    ++  Y + ++  E + + +     E   +++ G+++F     +   
Sbjct: 193 SKRAANPISVPYLRVANVYRDHLELDEVKEIRVTENELE-RVLLEKGDVLFVEGHGNANE 251

Query: 301 DKRSLRSAQVMERGIITSAYMAVKPHGID-STYLAWLMRSYDLCKVFYAMGSGLR--QSL 357
             R+      + + +  +  +  +P       Y++  + S    +    M        +L
Sbjct: 252 VGRTAVWNDEVAQCVHQNHLIRFRPGADVRPEYVSAFVNSASGKRQLLKMSKTTSGLNTL 311

Query: 358 KFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV-LLKERRSSFIAAAVT 416
              ++K + VLVPP+ EQ D    +    A+     + +   +   L +  ++ +  A  
Sbjct: 312 STSNIKSIQVLVPPLLEQDDFLAFLASCKAQ-----QVVNDQLSVELDQNFNALMQKAFK 366

Query: 417 GQ 418
           G+
Sbjct: 367 GE 368



 Score = 61.0 bits (146), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 22/144 (15%), Positives = 44/144 (30%), Gaps = 9/144 (6%)

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
                     K   Y  Y   +P  ++            +   +    G    A   V P
Sbjct: 24  DGYVVYGANGKIGYYSEYTHENP-TVMITCRGATCGNVHISEPKAYINGNAM-ALDDVDP 81

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
             +D  YL + +       V        +  +  + + ++ + +PP++ Q  I  V+   
Sbjct: 82  ERVDINYLRYCLIDRGFRDVI---SGSAQPQITGKGLSKVQIPLPPLETQKQIAEVLE-- 136

Query: 386 TARIDVLVEKIEQSIVLLKERRSS 409
             + D L +  +Q    L     S
Sbjct: 137 --KADQLRKDCQQMEQELNSLAQS 158



 Score = 57.9 bits (138), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 28/204 (13%), Positives = 58/204 (28%), Gaps = 17/204 (8%)

Query: 22  PKHWKVVPIKRFTKLNTG-----RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           PK W + P+    ++  G     + + +   + Y+ + +V     +           +  
Sbjct: 171 PKGWDLKPLSSLGEVKGGLQVTSKRAANPISVPYLRVANVYRDHLELDEVKEIRVTENEL 230

Query: 77  TVSIFAKGQILY----GKLGPYLRKAIIADFDG-ICSTQFLVLQPKDVLPELLQGWLLSI 131
              +  KG +L+    G      R A+  D          L+                  
Sbjct: 231 ERVLLEKGDVLFVEGHGNANEVGRTAVWNDEVAQCVHQNHLIRFRPGADVRPEYVSAFVN 290

Query: 132 D---VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
                 Q ++     + ++      I +I + +PPL EQ      +              
Sbjct: 291 SASGKRQLLKMSKTTSGLNTLSTSNIKSIQVLVPPLLEQDDFLAFL----ASCKAQQVVN 346

Query: 189 IRFIELLKEKKQALVSYIVTKGLN 212
            +    L +   AL+       LN
Sbjct: 347 DQLSVELDQNFNALMQKAFKGELN 370


>gi|149005622|ref|ZP_01829361.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae SP18-BS74]
 gi|147762562|gb|EDK69522.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae SP18-BS74]
          Length = 522

 Score = 82.5 bits (202), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 68/441 (15%), Positives = 132/441 (29%), Gaps = 71/441 (16%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNSR 71
            IP  W+ V      ++  G +    KD        I +I + D E G           +
Sbjct: 83  DIPDTWEWVRFSTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINNVKEKIK 142

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
           +S  +      KG  L      + R  I+     I      +   ++ L +    ++LS 
Sbjct: 143 KSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYLFYILSS 202

Query: 132 D-VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
           + V  +  ++  GA + + +   + +I +P+PPL+EQ  I E I +   ++D       R
Sbjct: 203 NVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLSEQQRIIEAIESALEKVDEYAESYNR 262

Query: 191 FIELLKEKK----QALVSYIVTKG--------------LNPDVKMKDSGIEW-------- 224
             +L KE      ++++ Y +                 L      K    E         
Sbjct: 263 LEQLDKEFPDKLKKSILQYAMQGKLVEQDPNDESVEVLLEKIRAEKQKLFEEGKIKKKDL 322

Query: 225 ------------------------VGLVPDHWEVKPFFALVTELNRKNTK-----LIESN 255
                                   +  +P+ W    F +LV     K           + 
Sbjct: 323 DISIVSQGDDNSYYGNKDETTSYPIYKIPEAWRYIKFASLVNFRIGKTPPRSEATFWGTE 382

Query: 256 ILSLSYGNIIQKLETRN----MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
           I  +S  ++       N    +       +   I   G ++  F         L      
Sbjct: 383 IPWVSISDMPISGYVTNTRESISKLALKSKKIDISPKGTLLMSFKLSIGKVAILDIPATH 442

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
              II+  +       I   YL   +              G  ++L    +  L + +  
Sbjct: 443 NEAIIS-IFPYANKENIIRDYLMIFLPLISTLGDSKDAIKG--KTLNSTSISELLIPISN 499

Query: 372 IKEQFDITNVINVETARIDVL 392
            +E   I   +++   ++  L
Sbjct: 500 HEEMKRIIFKVDLLFQKVSQL 520



 Score = 78.3 bits (191), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 43/210 (20%), Positives = 81/210 (38%), Gaps = 12/210 (5%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
            I+    +PD WE   F  LV  +   + + I+  + S   G    K+     G K  + 
Sbjct: 77  EIDVPYDIPDTWEWVRFSTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINN 136

Query: 281 ETYQIVDPG-----EIVFRFIDLQNDKRSLRSAQVMERGIITSAY--MAVKPHGIDSTYL 333
              +I   G      +      L N     R   +   G I   +  ++   + ++  YL
Sbjct: 137 VKEKIKKSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYL 196

Query: 334 AWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            +++ S  +   F ++ SG   ++L  + V  + + +PP+ EQ  I   I     ++D  
Sbjct: 197 FYILSSNVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLSEQQRIIEAIESALEKVDEY 256

Query: 393 VEKIEQSIVLLKE----RRSSFIAAAVTGQ 418
            E   +   L KE     + S +  A+ G+
Sbjct: 257 AESYNRLEQLDKEFPDKLKKSILQYAMQGK 286



 Score = 48.6 bits (114), Expect = 0.002,   Method: Composition-based stats.
 Identities = 22/130 (16%), Positives = 46/130 (35%), Gaps = 17/130 (13%)

Query: 7   YPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDV-ESG 59
           YP YK         IP+ W+ +          G+T    +      +I ++ + D+  SG
Sbjct: 345 YPIYK---------IPEAWRYIKFASLVNFRIGKTPPRSEATFWGTEIPWVSISDMPISG 395

Query: 60  TGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV 119
                 +  +     +  + I  KG +L       + K  I D     +   + + P   
Sbjct: 396 YVTNTRESISKLALKSKKIDISPKGTLLMS-FKLSIGKVAILDIPATHNEAIISIFPYAN 454

Query: 120 LPELLQGWLL 129
              +++ +L+
Sbjct: 455 KENIIRDYLM 464


>gi|153807715|ref|ZP_01960383.1| hypothetical protein BACCAC_01997 [Bacteroides caccae ATCC 43185]
 gi|160886163|ref|ZP_02067166.1| hypothetical protein BACOVA_04170 [Bacteroides ovatus ATCC 8483]
 gi|160889101|ref|ZP_02070104.1| hypothetical protein BACUNI_01522 [Bacteroides uniformis ATCC 8492]
 gi|149129324|gb|EDM20538.1| hypothetical protein BACCAC_01997 [Bacteroides caccae ATCC 43185]
 gi|156108048|gb|EDO09793.1| hypothetical protein BACOVA_04170 [Bacteroides ovatus ATCC 8483]
 gi|156861568|gb|EDO54999.1| hypothetical protein BACUNI_01522 [Bacteroides uniformis ATCC 8492]
          Length = 376

 Score = 82.5 bits (202), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 71/397 (17%), Positives = 128/397 (32%), Gaps = 37/397 (9%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI--FAKGQ 85
           V      K              Y    D        + + G     D     I  F  GQ
Sbjct: 4   VKFGDVVKDVKINIDRLNNPYEYYVAGDHMDSEDLTIHRKGCFTTDDVGPAFIRVFKPGQ 63

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVL---QPKDVLPELLQGWLLSIDVTQRIEAICE 142
           ILYG    YL+K  +ADF+G+C+    V     P      LL   +LS D T    A  +
Sbjct: 64  ILYGSRRTYLKKIAVADFEGVCANTTFVFETKDPHAFEQRLLPFIMLSKDFTTWSIAKSK 123

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           G+T  +  +  + +    +PPL EQ ++ +K+ A             + +    E  ++ 
Sbjct: 124 GSTNPYVLFSDLADFEFELPPLEEQKVLVDKLWAAYRL----KEAYKKLLVATDEMVKSQ 179

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
              +     N         I   G+ P +                ++ L+ +       G
Sbjct: 180 FIEMYYNTHNKQTLESVCPIMNKGITPKYV-------------ESSSVLVINQACIHWDG 226

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG-IITSAYM 321
             +  ++  N  +        +I++ G+++          R        +    I   ++
Sbjct: 227 QRLGNIKYHNEEIPV----RKRILESGDVLLNATGNGTLGRCCVFICPSDNNTYINDGHV 282

Query: 322 AVKPHGI---DSTYLAWLMRSYDLCKVFYA---MGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
                         L   +   D     Y     GS  +  + F D+K++ V VP + EQ
Sbjct: 283 IALSTDRAVILPEVLNTYLSLNDTQAEIYRQYVTGSTNQVDIVFSDIKKMKVPVPSMDEQ 342

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
                V+     + D    +++Q I  + +   S I 
Sbjct: 343 ILFVEVL----TQADKSKFELKQCIENIDKVIKSLIN 375


>gi|29294593|ref|NP_808862.1| type I restriction/modification system specificity subunit
           [Lactococcus lactis subsp. lactis bv. diacetylactis]
 gi|29170405|emb|CAD79593.1| HsdD protein [Lactococcus lactis subsp. lactis bv. diacetylactis]
          Length = 412

 Score = 82.1 bits (201), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 52/409 (12%), Positives = 116/409 (28%), Gaps = 76/409 (18%)

Query: 20  AIPK--------HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDV----ESGTGKYLPKD 67
            +P+         W+   +   + +  G T  +     + G  D     E G  +Y+ K 
Sbjct: 62  KVPELRFKGFTDDWEERKLGELSNIVGGGTPSTSNSEYWDGDIDWYAPAEIGEQRYVSKS 121

Query: 68  GNSRQS---DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELL 124
             +        S+  I   G +L+         AI+       +  F  + P     +  
Sbjct: 122 KKTITELGLKKSSARILPVGTVLFTSRAGIGNTAILGKE-ATTNQGFQSIVPNPNKLDSY 180

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
             +  + ++ +  E    G+T      K +  + + +P L       +    +   +   
Sbjct: 181 FIYSRTNELKRYGEVTGAGSTFVEISGKQMSKMSIMVPELRFAGFADDWEERKLSSMTNY 240

Query: 185 ITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTEL 244
              +    +     K  L++      ++    +K SG               F     + 
Sbjct: 241 KNGKSHEDKQSTSGKLELIN---LNSISISGGLKHSG--------------KFIDEADDT 283

Query: 245 NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
            +K+        L +   ++        + L PE                   L      
Sbjct: 284 LQKDD-------LVMILSDVGHGDLLGRVALYPEDD--------------RFVLNQRVAL 322

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKR 364
           LR   + +   + S   A +          +                 +   + F     
Sbjct: 323 LRPNTIADPQFLFSYINAHQ---------YYFKAQGAGMSQLNISKGSVENFISF----- 368

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
             V +  I+EQ  I +       ++D  +   ++ + LLKE++  F+  
Sbjct: 369 --VPI--IEEQKKIGSF----FKQLDETIALHQRKLDLLKEQKKGFLQK 409


>gi|315038769|ref|YP_004032337.1| type I restriction-modification system S subunit [Lactobacillus
           amylovorus GRL 1112]
 gi|312276902|gb|ADQ59542.1| type I restriction-modification system S subunit [Lactobacillus
           amylovorus GRL 1112]
          Length = 361

 Score = 82.1 bits (201), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 48/377 (12%), Positives = 104/377 (27%), Gaps = 41/377 (10%)

Query: 30  IKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           +K    + TG T            DI ++  + +  G       +       +S   I  
Sbjct: 5   LKNIGTIITGNTPSKKNSKYWNSNDICFVKPDVIGDGVDNVNQSNEYISNYASSKARIVG 64

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           K  IL   +G   R  I++      + Q   + P   +      ++L      ++ A+  
Sbjct: 65  KNTILITCIGNIGRVGIVSKEKIAFNQQISAIVPNCKINFRYLAYVLLFS-KSKLNAMAN 123

Query: 143 GATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            A +   +   + N  + I   L  Q  I E +            E      L       
Sbjct: 124 SAVVPIINKTQLENFKIKIDSNLEHQAQIVEALDKIEEIKRIQDKEIKYLDTL------- 176

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
           + +  V    +P +  KD  +  +G +          A      ++     ++      +
Sbjct: 177 IKARFVEMFGDPIINTKDLSLVSLGKL------CTLKAGEFTAAKEIHANKDNINRYPCF 230

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
           G    +    N                         L   + +L     +  G   +   
Sbjct: 231 GGNGVRGYVDNYT-----------------HDGNYSLIGRQGALCGNVQLTAGKFRNTEH 273

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
           A+           WL     L K+        +  L  + + ++ + +  +  Q +  + 
Sbjct: 274 AILVKPNVQVNYYWLFMLLKLEKLNRFSSGAAQPGLAVKTLNKIFIPIADLNLQNEFASF 333

Query: 382 INVETAR--IDVLVEKI 396
                    ++ L+ K 
Sbjct: 334 AQQVDKSKVVNNLIMKY 350


>gi|254435960|ref|ZP_05049467.1| hypothetical protein NOC27_3023 [Nitrosococcus oceani AFC27]
 gi|207089071|gb|EDZ66343.1| hypothetical protein NOC27_3023 [Nitrosococcus oceani AFC27]
          Length = 339

 Score = 82.1 bits (201), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 42/310 (13%), Positives = 97/310 (31%), Gaps = 27/310 (8%)

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
             +   I    R+ A+  G  +       I ++ +P+P   EQ  I + + +        
Sbjct: 30  FIFHFLITQRLRLIALASGNLIPGLSRGDILSLKVPVPSHEEQQKIADCLSSLDAL---- 85

Query: 185 ITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVG-LVPDHWEVKPFFALVTE 243
           I  +   ++ LK  K+ L+  +  +      +++       G            F     
Sbjct: 86  IAAQTEKLDALKTHKKGLMQQLFPRAGETVPRLRFPKFRDGGRWTSKKMSDVYRFLSTNT 145

Query: 244 LNRKNTKLIESNILSLSYGNIIQKLE-----------TRNMGLKPESYETYQIVDPGEIV 292
            +R      +  + ++ YG+I  K               N     E  +       G+IV
Sbjct: 146 YSRDKLNYEKGEVKNIHYGDIHTKFSTLFDVTQEYVPYINRTESLERIKDDSYCLEGDIV 205

Query: 293 FRFIDLQNDKRS--LRSAQVMERGIITSAYMAVKPHGIDSTYLA---WLMRSYDLCKVFY 347
           F       +     +         I++  +  +     +   +    +L +S  + +   
Sbjct: 206 FADASEDVEDVGKSIEIVNTGNEKILSGLHTLLARQKNNDLVIGFGGYLFKSGLIREQIK 265

Query: 348 AMGSGLRQ-SLKFEDVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
               G +   +    + ++ V  P   +EQ  I + +    + +D L+    + I  LK 
Sbjct: 266 RESQGAKVLGISSGRLSKIKVCFPYEKREQQKIAHCL----SSLDALIAAQAEKIDALKT 321

Query: 406 RRSSFIAAAV 415
            +   +    
Sbjct: 322 HKKGLMQQLF 331



 Score = 78.3 bits (191), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 17/87 (19%), Positives = 34/87 (39%), Gaps = 5/87 (5%)

Query: 329 DSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
              ++   + +  L  +  A G+ L   L   D+  L V VP  +EQ  I + +    + 
Sbjct: 27  HGEFIFHFLITQRLRLIALASGN-LIPGLSRGDILSLKVPVPSHEEQQKIADCL----SS 81

Query: 389 IDVLVEKIEQSIVLLKERRSSFIAAAV 415
           +D L+    + +  LK  +   +    
Sbjct: 82  LDALIAAQTEKLDALKTHKKGLMQQLF 108


>gi|327540221|gb|EGF26810.1| type I restriction-modification system S subunit [Rhodopirellula
           baltica WH47]
          Length = 603

 Score = 82.1 bits (201), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 32/201 (15%), Positives = 70/201 (34%), Gaps = 10/201 (4%)

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY- 261
           + Y+ ++GL     +K    E    VP +W +     L  +++   T   + N+  +   
Sbjct: 82  IEYLKSRGLKKGKSLKPPAPEEF-QVPANWTLTHLNDLAYQVHYGYTASADENLRDVRML 140

Query: 262 ------GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
                  N++         ++ E    Y++ D  +++         K  L     +    
Sbjct: 141 RITDIQNNMVNWQTVPGCEIEEEKVAQYELAD-NDLLIARTGGTIGKTYLIQGVSVRSVF 199

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKE 374
            +     +    + + YL   +          A  +G  + ++    +K L V VPP+ E
Sbjct: 200 ASYLIRVIPSKLVCAEYLKRFLECPFYWGQLRAKSAGTGQPNVNATSLKSLIVPVPPLAE 259

Query: 375 QFDITNVINVETARIDVLVEK 395
           Q  I + +    +  D L  +
Sbjct: 260 QRRIVSKVEGLMSLCDTLESQ 280



 Score = 76.8 bits (187), Expect = 6e-12,   Method: Composition-based stats.
 Identities = 39/230 (16%), Positives = 74/230 (32%), Gaps = 19/230 (8%)

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLV---PDHWEVKPFFAL-----VTELNRKNTKL 251
           Q+L+S    K L      K S IE        P  W             V  +     + 
Sbjct: 379 QSLISE---KKLKKQW--KFSNIEDDDEPFPIPQSWAWCRILDTAERVTVGHVGSMKDEY 433

Query: 252 IESNILSLSYGN----IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
           ++  I  L   N      + L  + +  +  +      + PG+++       N   +   
Sbjct: 434 VDEGIPFLRTLNVRALRYEPLGLKFISPEFHASLAKSALAPGDVLVVRSG--NVGTTCVV 491

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
              +     +   +   P  +D  YLA  M S     V              + V  +P+
Sbjct: 492 PDSLPEANCSDLVIVKVPIAVDPNYLAIYMNSAAKVHVEAGTVGVALTHFNTKSVAAMPL 551

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
            +PP  EQ  I + ++V  +++D L  ++           ++ I   + G
Sbjct: 552 SLPPKAEQKRIVSKVSVLLSQLDELSARLRSRQSTTDALLTALIHQILEG 601



 Score = 59.4 bits (142), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 33/192 (17%), Positives = 78/192 (40%), Gaps = 8/192 (4%)

Query: 20  AIPKHWKVVPIKRFT-KLNTGRTSESGK---DIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            +P +W +  +     +++ G T+ + +   D+  + + D+++    +    G   + + 
Sbjct: 105 QVPANWTLTHLNDLAYQVHYGYTASADENLRDVRMLRITDIQNNMVNWQTVPGCEIEEEK 164

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGI----CSTQFLVLQPKDVLPELLQGWLLSI 131
                 A   +L  + G  + K  +     +     S    V+  K V  E L+ +L   
Sbjct: 165 VAQYELADNDLLIARTGGTIGKTYLIQGVSVRSVFASYLIRVIPSKLVCAEYLKRFLECP 224

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
               ++ A   G    + +   + ++ +P+PPLAEQ  I  K+       DTL ++R   
Sbjct: 225 FYWGQLRAKSAGTGQPNVNATSLKSLIVPVPPLAEQRRIVSKVEGLMSLCDTLESQRRSR 284

Query: 192 IELLKEKKQALV 203
             + +   ++++
Sbjct: 285 ESVRERASRSVL 296



 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 41/198 (20%), Positives = 73/198 (36%), Gaps = 14/198 (7%)

Query: 21  IPKHWKVVPIKRFTKLNT----GRTSES--GKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           IP+ W    I    +  T    G   +    + I ++   +V +   +Y P        +
Sbjct: 405 IPQSWAWCRILDTAERVTVGHVGSMKDEYVDEGIPFLRTLNVRA--LRYEPLGLKFISPE 462

Query: 75  TS---TVSIFAKGQILYGKLGPYLRKAIIAD--FDGICSTQFLVLQPKDVLPELLQGWLL 129
                  S  A G +L  + G      ++ D   +  CS   +V  P  V P  L  + +
Sbjct: 463 FHASLAKSALAPGDVLVVRSGNVGTTCVVPDSLPEANCSDLVIVKVPIAVDPNYLAIY-M 521

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
           +      +EA   G  ++H + K +  +P+ +PP AEQ  I  K+     ++D L     
Sbjct: 522 NSAAKVHVEAGTVGVALTHFNTKSVAAMPLSLPPKAEQKRIVSKVSVLLSQLDELSARLR 581

Query: 190 RFIELLKEKKQALVSYIV 207
                      AL+  I+
Sbjct: 582 SRQSTTDALLTALIHQIL 599


>gi|330978668|gb|EGH77949.1| restriction modification system DNA specificity domain [Pseudomonas
           syringae pv. aptata str. DSM 50252]
          Length = 603

 Score = 82.1 bits (201), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 62/473 (13%), Positives = 136/473 (28%), Gaps = 79/473 (16%)

Query: 21  IPKHWKVVPIKRF-TKLN----TGRTSESGKDIIYIGLEDVE-SGTGKYLPKDGNSRQSD 74
           +PK+W+ V +      ++    +G+ +  G  + ++   +V+  G          +   D
Sbjct: 19  LPKNWERVSLGEISANISPGFASGKHNSDGSGVPHLRPMNVDRDGQIDLSVVKSVAESKD 78

Query: 75  TSTVSIFAKGQILYGKLGP-----YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
                    G IL+                  +     S     LQ +  +        L
Sbjct: 79  VE----LKSGDILFNNTNSAELVGKTAVVSHRETGFAFSNHMTRLQLESGIASSFVARQL 134

Query: 130 SIDVTQRIEAICEGATMSHADWKG---IGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
                           ++ A          IP  +PP AEQ+ I  K+      +D  + 
Sbjct: 135 HFLWMSGYMKYRCTNHVNQASISSKTLANTIPFFLPPSAEQIRIVAKLEELLTDLDAGVA 194

Query: 187 ERIRFIELLKEKKQALVSYIVTKG-LNPDVKMKDSGIEWV-------------------- 225
           E     + LK+ +Q+L+     +G L  + + +    E                      
Sbjct: 195 ELKTAQKKLKQYRQSLLKSAGWEGMLTAEWRAQHKPTETGAQLLQRILTERRASWEAKQL 254

Query: 226 ------GLVPDHWEVKPFFALVTELNRKNTKLIESNI---------------------LS 258
                 G  P     K +            +L    +                       
Sbjct: 255 AKFKDQGKAPPKDWQKKYPEPAQANTSDLPELPAGWVWASVEQISEIQGGIQKQPSRAPK 314

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVD---------PGEIVFRFIDLQNDKRSLRSAQ 309
           ++    ++        LK +     ++            G+++    +    +    +  
Sbjct: 315 VNKYPFLRVANVARGKLKLDDIHEIELFPGELERLALVAGDVLIVEGNGSLTEIGRCALW 374

Query: 310 VM--ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR--QSLKFEDVKRL 365
                  +  +  + V+P G+ S +L   + S+        + +      +L    + ++
Sbjct: 375 DGSVTNAVHQNHLIRVRPIGVVSQFLETWLNSFGGIDKLTKLAATTSGLYTLSVGKISKV 434

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           PV + P  EQ     V+      +D   + +  S+     +R + + AA  GQ
Sbjct: 435 PVPIAPRTEQEAAMKVLVESLLALDFQEQSVSLSLKQSTAQRQNILRAAFAGQ 487



 Score = 48.3 bits (113), Expect = 0.002,   Method: Composition-based stats.
 Identities = 28/206 (13%), Positives = 69/206 (33%), Gaps = 12/206 (5%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTG-----RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           +  +P  W    +++ +++  G       +       ++ + +V  G  K          
Sbjct: 283 LPELPAGWVWASVEQISEIQGGIQKQPSRAPKVNKYPFLRVANVARGKLKLDDIHEIELF 342

Query: 73  SDTSTVSIFAKGQILY----GKLGPYLRKAIIADF--DGICSTQFLVLQPKDVLPELLQG 126
                      G +L     G L    R A+      + +     + ++P  V+ + L+ 
Sbjct: 343 PGELERLALVAGDVLIVEGNGSLTEIGRCALWDGSVTNAVHQNHLIRVRPIGVVSQFLET 402

Query: 127 WLLSIDVTQRIEAI-CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
           WL S     ++  +    + +       I  +P+PI P  EQ    + ++   + +D   
Sbjct: 403 WLNSFGGIDKLTKLAATTSGLYTLSVGKISKVPVPIAPRTEQEAAMKVLVESLLALDFQE 462

Query: 186 TERIRFIELLKEKKQALVSYIVTKGL 211
                 ++    ++Q ++       L
Sbjct: 463 QSVSLSLKQSTAQRQNILRAAFAGQL 488


>gi|217975328|ref|YP_002360079.1| restriction modification system DNA specificity domain-containing
           protein [Shewanella baltica OS223]
 gi|217500463|gb|ACK48656.1| restriction modification system DNA specificity domain protein
           [Shewanella baltica OS223]
          Length = 401

 Score = 82.1 bits (201), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 56/379 (14%), Positives = 116/379 (30%), Gaps = 29/379 (7%)

Query: 48  IIYIGLEDVESGTGKY---LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFD 104
             YI L  ++    +    L ++ +S ++ +    +   G +L   + P L    +   +
Sbjct: 29  FKYIDLGSLDKDKKEICLDLVQEISSSEAPSRARQLVKTGDVLISTVRPNLNGIAVVPKE 88

Query: 105 ---GICSTQFLVLQPKDV--LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPM 159
                 ST F VL+  +       L+ W+ S      +     GA+      K I +  +
Sbjct: 89  LDGATASTGFCVLRANEEKLDSTYLRYWVESTTFVSDMVNKSTGASYPAVSDKIINDSEL 148

Query: 160 PIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKD 219
           P+PPL  Q  I   +                   L +          +    +P    K 
Sbjct: 149 PLPPLETQKQIAAVLEKADQLRKDCKLLEQELNSLAQSV-------FIEMFGDPVTNPKG 201

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
              + +G +      K   +           L  +N+   +        +   M    + 
Sbjct: 202 WKTQMLGSISKVQLGKMLSSASKIGINSKKYLRNANVKWRNIEIH----DLLEMDFTDKE 257

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA---WL 336
            E +Q++  G+++          R       +E      A   V+ +   +T      + 
Sbjct: 258 IEKFQLI-TGDLLVCEGGEIG--RCAIWIGQVEDCYYQKALHRVRLNPDLATAEYIQEYF 314

Query: 337 MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
                L  +  +      + L  E + +L V +PPI+ Q           + I   +E  
Sbjct: 315 FWMAKLGGLISSTNEVTFKHLTAEKMNKLVVPLPPIETQRKF----KTIYSSIQSELEHN 370

Query: 397 EQSIVLLKERRSSFIAAAV 415
            + +   +    S +  A 
Sbjct: 371 AKQMAQTEMVFQSLMQKAF 389



 Score = 57.1 bits (136), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 33/200 (16%), Positives = 62/200 (31%), Gaps = 13/200 (6%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDI-----IYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           PK WK   +   +K+  G+   S   I      Y+   +V+    +              
Sbjct: 199 PKGWKTQMLGSISKVQLGKMLSSASKIGINSKKYLRNANVKWRNIEIHDLLEMDFTDKEI 258

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICST----QFLVLQPKDVLPELLQGWLLSID 132
                  G +L  + G   R AI       C        + L P     E +Q +   + 
Sbjct: 259 EKFQLITGDLLVCEGGEIGRCAIWIGQVEDCYYQKALHRVRLNPDLATAEYIQEYFFWMA 318

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
               + +     T  H   + +  + +P+PP+  Q     K       I + +    + +
Sbjct: 319 KLGGLISSTNEVTFKHLTAEKMNKLVVPLPPIETQ----RKFKTIYSSIQSELEHNAKQM 374

Query: 193 ELLKEKKQALVSYIVTKGLN 212
              +   Q+L+       LN
Sbjct: 375 AQTEMVFQSLMQKAFNDELN 394


>gi|91217330|ref|ZP_01254290.1| Restriction endonuclease S subunits [Psychroflexus torquis ATCC
           700755]
 gi|91184438|gb|EAS70821.1| Restriction endonuclease S subunits [Psychroflexus torquis ATCC
           700755]
          Length = 574

 Score = 82.1 bits (201), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 32/194 (16%), Positives = 65/194 (33%), Gaps = 6/194 (3%)

Query: 225 VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETR-NMGLKPESYETY 283
            G +        F    +   +KN +   + I  +  G+I  KL      GL        
Sbjct: 87  NGWIWSRVRDSGFTQTGSTPPKKNPENYGNYIPFIGPGDISNKLMRYPTEGLSELGISVG 146

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC 343
           +++    ++   I     K ++    V     I +    + P            +S    
Sbjct: 147 RLIPEDSLMMVCIGGSIGKCNINEIDVSCNQQINTITPILIPTIYIKAVC----QSPFFQ 202

Query: 344 -KVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
             V           +     + LP+ +PP++EQ +I  V+ +    I+ L +   + I L
Sbjct: 203 SNVLDKSSGSATPIINKGKWESLPIPIPPLEEQKEIVKVVEILFKEIEQLEQLTSERIAL 262

Query: 403 LKERRSSFIAAAVT 416
            ++  +S +    T
Sbjct: 263 KEDFVTSVLNQLST 276



 Score = 77.1 bits (188), Expect = 5e-12,   Method: Composition-based stats.
 Identities = 29/210 (13%), Positives = 70/210 (33%), Gaps = 11/210 (5%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI--------LSLSYGNIIQKLETR 271
           +  E    +P  W          ++     +               ++  G I  +    
Sbjct: 364 TEDEIPYELPVGWVWCRLGDASKQITDGEHQTPPRIASGRKLLSAKNVRDGFINYENCDY 423

Query: 272 NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST 331
              +  +        + G+++   +     + S+ +  +    + + A +  +  G++  
Sbjct: 424 ISEIHYQKSIKRCNPEIGDLLIVSVGGTIGRVSMVTKNISFALVRSVAMVKNQ--GLEPD 481

Query: 332 YLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
           YL W+M S  L  +  +    G +  L   ++K     + P++EQ  I   +N      D
Sbjct: 482 YLRWVMNSPLLKDIIESKKRGGAQPCLYLGEIKDFTFPIAPLEEQKAIVEKVNALMELCD 541

Query: 391 VLVEKIEQSIVLLKERRSSFIAAAVTGQID 420
            L +++  S    +    S +     G+I 
Sbjct: 542 GLEQEVRHSQEQSELLMKSCLREVFEGKIK 571



 Score = 68.7 bits (166), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 34/193 (17%), Positives = 72/193 (37%), Gaps = 8/193 (4%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
            +P  W    ++      TG T         G  I +IG  D+ +   +Y  +  +  + 
Sbjct: 84  DLPNGWIWSRVRDSGFTQTGSTPPKKNPENYGNYIPFIGPGDISNKLMRYPTEGLS--EL 141

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
             S   +  +  ++   +G  + K  I + D  C+ Q   + P  +    ++    S   
Sbjct: 142 GISVGRLIPEDSLMMVCIGGSIGKCNINEIDVSCNQQINTITPILIPTIYIKAVCQSPFF 201

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
              +     G+     +     ++P+PIPPL EQ  I + +      I+ L       I 
Sbjct: 202 QSNVLDKSSGSATPIINKGKWESLPIPIPPLEEQKEIVKVVEILFKEIEQLEQLTSERIA 261

Query: 194 LLKEKKQALVSYI 206
           L ++   ++++ +
Sbjct: 262 LKEDFVTSVLNQL 274



 Score = 59.8 bits (143), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 36/200 (18%), Positives = 67/200 (33%), Gaps = 8/200 (4%)

Query: 20  AIPKHWKVVPIKRFTK-LNTG--RTSES-GKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            +P  W    +   +K +  G  +T          +  ++V  G   Y   D  S     
Sbjct: 371 ELPVGWVWCRLGDASKQITDGEHQTPPRIASGRKLLSAKNVRDGFINYENCDYISEIHYQ 430

Query: 76  STVSIFAK--GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV--LPELLQGWLLSI 131
            ++       G +L   +G  + +  +   +   +    V   K+    P+ L+  + S 
Sbjct: 431 KSIKRCNPEIGDLLIVSVGGTIGRVSMVTKNISFALVRSVAMVKNQGLEPDYLRWVMNSP 490

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            +   IE+   G          I +   PI PL EQ  I EK+ A     D L  E    
Sbjct: 491 LLKDIIESKKRGGAQPCLYLGEIKDFTFPIAPLEEQKAIVEKVNALMELCDGLEQEVRHS 550

Query: 192 IELLKEKKQALVSYIVTKGL 211
            E  +   ++ +  +    +
Sbjct: 551 QEQSELLMKSCLREVFEGKI 570


>gi|239637507|ref|ZP_04678480.1| type I RM system specificity subunit HsdIB [Staphylococcus warneri
           L37603]
 gi|239596902|gb|EEQ79426.1| type I RM system specificity subunit HsdIB [Staphylococcus warneri
           L37603]
          Length = 380

 Score = 82.1 bits (201), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 57/395 (14%), Positives = 128/395 (32%), Gaps = 43/395 (10%)

Query: 24  HWKVVPIKRFTKLNTGRTSE---SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
            WK   + +   + +G +      G +     + D+ + +      D    +  T     
Sbjct: 19  EWKNNELGKLLSIISGHSPSYYSEGSEYPLYKVNDLNNNSKFQNYSDLYVEKKHTPLNKK 78

Query: 81  FAKGQILYGKLGP--YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
                I++ K G    L K  I +  G   T  + L+  DV       + +   + + + 
Sbjct: 79  V----IIFPKRGAAILLNKIRIINTPGYIDTNLMGLEFNDVNDTEFYYYAI---LREGLY 131

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
            I + +T+   + K I    +  P   E+  +         +I+    +  +  E  K  
Sbjct: 132 RIADTSTIPQINNKHILPYKIYSPSYIEKNKLGNFFSKLDQQIELEEQKLAKLEEQKKGY 191

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
            Q + S  +               +  G     WE      +   ++ K +    +   +
Sbjct: 192 MQKIFSQEMRFK------------DENGNDYPDWEETTLKNITNYISSKKSSNQYNERNN 239

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
                +   ++     L+ +  E Y  +         ++L+  K S+             
Sbjct: 240 SKGYPVYDAIQEIGKDLQYDMEEPYISILKDGAGAGRLNLRAGKSSVI-----------G 288

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-PIKEQFD 377
               ++ + +D  +L + M+  +  K            L ++D  +  +L+P    EQ  
Sbjct: 289 TMGYIQANNVDIQFLYYRMKLLNFRKFII---GSTIPHLYYKDYSKEKILIPTSNDEQKK 345

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           I + I      ID L++     +  LK+R+   + 
Sbjct: 346 IGHFI----LNIDKLIDNKTLKLDYLKQRKQGLLQ 376



 Score = 59.4 bits (142), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 20/179 (11%), Positives = 60/179 (33%), Gaps = 8/179 (4%)

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
              +   E +   L   N +               + +  ++   I+F           +
Sbjct: 35  HSPSYYSEGSEYPLYKVNDLNNNSKFQNYSDLYVEKKHTPLNKKVIIFPKRGAAILLNKI 94

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRL 365
           R       G I +  M ++ + ++ T   +   +     ++    +     +  + +   
Sbjct: 95  RIINTP--GYIDTNLMGLEFNDVNDTEFYYY--AILREGLYRIADTSTIPQINNKHILPY 150

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGE 424
            +  P   E+  + N      +++D  +E  EQ +  L+E++  ++    + ++  + E
Sbjct: 151 KIYSPSYIEKNKLGNF----FSKLDQQIELEEQKLAKLEEQKKGYMQKIFSQEMRFKDE 205


>gi|254464815|ref|ZP_05078226.1| type I site-specific deoxyribonuclease chain S [Rhodobacterales
           bacterium Y4I]
 gi|206685723|gb|EDZ46205.1| type I site-specific deoxyribonuclease chain S [Rhodobacterales
           bacterium Y4I]
          Length = 576

 Score = 82.1 bits (201), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 30/194 (15%), Positives = 62/194 (31%), Gaps = 20/194 (10%)

Query: 229 PDHWEVKPFFALVTELNRKNTKLIESN-------ILSLSYGNIIQKLETRNMG---LKPE 278
           P  W       +       + + I++        +  +  G+  +     +     +K E
Sbjct: 85  PASWHWCYLDDVAAIARGGSPRPIKAYLADGSDGVPWIKIGDSTRGSIYIDRTAERIKAE 144

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW--L 336
                ++V PG+++       +          +E  I     +   P  + S        
Sbjct: 145 GLSKSRLVVPGDLLLS----NSMSFGFPYITNIEGCIHDGWLVIRTPDQLMSKLFLHALF 200

Query: 337 MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
           +  +       A    + Q+L  + V++L V +PPI EQ  I   ++   A  D L +  
Sbjct: 201 LSEHAKQSFAEAASGAVVQNLNADKVRKLTVPLPPIAEQHRIVAKVDELMALCDRLEQVR 260

Query: 397 EQSIVLLKERRSSF 410
                  +E R   
Sbjct: 261 RSR----EELRDKL 270



 Score = 74.1 bits (180), Expect = 4e-11,   Method: Composition-based stats.
 Identities = 26/179 (14%), Positives = 49/179 (27%), Gaps = 13/179 (7%)

Query: 246 RKNTKLIESNILSLSYGNIIQK----LETRNMGLKPESYETYQIVDPGEIVFRFIDLQND 301
              +   +     L   NI        +   +  +         V   +++         
Sbjct: 391 GGKSTYADEGTPFLRSQNIYDDGLRLDDVVFINDETNKKMRRTQVKGKDLLLNITGGSIG 450

Query: 302 KRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFE 360
           + +          +     +          YL  L RS    +      +G  R  L   
Sbjct: 451 RCARIPDDFAGANVSQHVAIIRTAAAGTEDYLHLLCRSPFFQEYVIGEQTGAGRGGLPKN 510

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLV----EKIEQSIVLLKERRSSFIAAAV 415
            + R+PV +PP+ EQ  I   ++      D L           I LL     + +  A+
Sbjct: 511 RMDRIPVPLPPLTEQHRILAKVDALMTLCDRLETALTTTDTTRIRLL----DALLHEAL 565



 Score = 72.9 bits (177), Expect = 9e-11,   Method: Composition-based stats.
 Identities = 32/195 (16%), Positives = 63/195 (32%), Gaps = 9/195 (4%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTS--------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           IP  W    +     +  G +         +    + +I + D   G+          + 
Sbjct: 84  IPASWHWCYLDDVAAIARGGSPRPIKAYLADGSDGVPWIKIGDSTRGSIYIDRTAERIKA 143

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
              S   +   G +L      +    I      I     ++  P  ++ +L    L   +
Sbjct: 144 EGLSKSRLVVPGDLLLSNSMSFGFPYITNIEGCIHDGWLVIRTPDQLMSKLFLHALFLSE 203

Query: 133 V-TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
              Q       GA + + +   +  + +P+PP+AEQ  I  K+       D L   R   
Sbjct: 204 HAKQSFAEAASGAVVQNLNADKVRKLTVPLPPIAEQHRIVAKVDELMALCDRLEQVRRSR 263

Query: 192 IELLKEKKQALVSYI 206
            EL  +   A ++ +
Sbjct: 264 EELRDKLTAASLARL 278



 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 28/200 (14%), Positives = 56/200 (28%), Gaps = 12/200 (6%)

Query: 22  PKHWKVVPIKRFT-------KLNTGRTSESGKDIIYIGLEDVESGTGKYLPKD-GNSRQS 73
           P  W    +               G+++ + +   ++  +++     +       N   +
Sbjct: 368 PLGWSWARVGTIALQTGSGSTPRGGKSTYADEGTPFLRSQNIYDDGLRLDDVVFINDETN 427

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGI---CSTQF-LVLQPKDVLPELLQGWLL 129
                +      +L    G  + +      D      S    ++        + L     
Sbjct: 428 KKMRRTQVKGKDLLLNITGGSIGRCARIPDDFAGANVSQHVAIIRTAAAGTEDYLHLLCR 487

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
           S    + +     GA         +  IP+P+PPL EQ  I  K+ A     D L T   
Sbjct: 488 SPFFQEYVIGEQTGAGRGGLPKNRMDRIPVPLPPLTEQHRILAKVDALMTLCDRLETALT 547

Query: 190 RFIELLKEKKQALVSYIVTK 209
                      AL+   +  
Sbjct: 548 TTDTTRIRLLDALLHEALEP 567


>gi|257092508|ref|YP_003166149.1| Restriction endonuclease S subunits-like protein [Candidatus
           Accumulibacter phosphatis clade IIA str. UW-1]
 gi|257045032|gb|ACV34220.1| Restriction endonuclease S subunits-like protein [Candidatus
           Accumulibacter phosphatis clade IIA str. UW-1]
          Length = 403

 Score = 82.1 bits (201), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 50/410 (12%), Positives = 119/410 (29%), Gaps = 35/410 (8%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIY--------IGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           V +        G T +    +          +  ++V++         G  +        
Sbjct: 7   VELSDVAAFIRGITFKPEDVVPVDTPGAAACMRTKNVQT-ELDLCDVWGIPQSFVRREDQ 65

Query: 80  IFAKGQILYGKLGPYLRKAIIA---------DFDGICSTQFLVLQPKDVLPELLQGWLLS 130
               G +L      +                 F G  S   L   P  V P  L  W  S
Sbjct: 66  YLIPGDVLVSSANSWNLVGKCCLVPSLPWRSTFGGFIS--VLRANPAKVDPRYLFRWFAS 123

Query: 131 IDVTQRIEAI-CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
                 + +   +   +S+ +      + + +P L EQ  I E +               
Sbjct: 124 DRTQATVRSFGQQTTNISNLNVGRCLKLKLHLPALPEQRRIAEILDKADALRAKRRAALA 183

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNT 249
           +   L +          +    +P    K      +  +   +   PF + +   + + +
Sbjct: 184 QLDALTQSI-------FLDMFGDPATNPKGWPCAQLCTLGTKFSDGPFGSNLKSDHYRAS 236

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
            +    + ++  G  +             + + ++ + PG+++   +   N +  ++   
Sbjct: 237 GVRVVRLQNIGVGEFLGADAAYISEDHFRNLKKHECL-PGDVLVGTLGDPNLRACIQPRW 295

Query: 310 VMERGIITSAY-MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPV 367
           +           +        S ++ +L+      ++   +  G  R  +    ++ L +
Sbjct: 296 LSVALNKADCVQIRPDERTATSEFVCFLLNQPGTQRMAQDLMHGQTRIRISMGRLRSLAI 355

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
            VPPI  Q D       + A ++ L      ++  L    +S    A  G
Sbjct: 356 PVPPIGLQRDF----TQQVAAMETLKTAHRAALAQLDALFASLQHRAFLG 401


>gi|296121476|ref|YP_003629254.1| restriction modification system DNA specificity domain protein
           [Planctomyces limnophilus DSM 3776]
 gi|296013816|gb|ADG67055.1| restriction modification system DNA specificity domain protein
           [Planctomyces limnophilus DSM 3776]
          Length = 620

 Score = 82.1 bits (201), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 58/411 (14%), Positives = 119/411 (28%), Gaps = 32/411 (7%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           P  W    +       TG+ + +           V +G   +      + +   +    F
Sbjct: 5   PNGWTTDALSNLVTFKTGKLNSN---------AAVSNGAYPFFTCSQETLR---TNTFAF 52

Query: 82  AKGQILYGKLGPYL-RKAIIADFDGICSTQFLVLQPKDVLP-ELLQGWLLSIDVTQRIEA 139
               +L                       +  V+ P+D         +     + + +++
Sbjct: 53  DTECVLLAGNNANGIYPLKYFHGRFDAYQRTYVVTPQDCTRLNTRFLYYSMWPLLEHLQS 112

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
           I  GA         +  + +  P    Q  I   + A    I+              E  
Sbjct: 113 ISTGAATKFLTLTILNGLQLTFPSEPVQRKIAGILSAYDDLIENNTRRIAILE----EMA 168

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
           QA+          P  +        +G +P+ W+VK   ++   +    T     N    
Sbjct: 169 QAIYREWFVHFRFPGHENTLLVDSPLGKIPEGWQVKRLDSICERITSGGTPRTNVNEYWD 228

Query: 260 SYGNIIQKLETRNMGLK-PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME------ 312
                +   ET N  +   E   T + V      F          + +     +      
Sbjct: 229 GDIPWLSSGETGNTFITETEKKITQEGVTNSSTRFARSGCTVIASAGQGKTRGQTSMLCL 288

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVP- 370
              I  + +AV   G  +T              F  +     R SL  + +  L +++P 
Sbjct: 289 DCYINQSTIAVTADGKQTTDSFLFFDLVQRYDQFRQISDGSSRGSLTTKLIADLEIILPQ 348

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           P   Q       +V T  +   +E I +   +L++ R   +   ++G++D+
Sbjct: 349 PFLIQK-----FDVLTTPVVKHIENILRKNKILRKTRDLLLPKLISGELDV 394



 Score = 68.7 bits (166), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 24/204 (11%), Positives = 66/204 (32%), Gaps = 13/204 (6%)

Query: 18  IGAIPKHWKVVPIKRFTK-LNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNS 70
           +G IP+ W+V  +    + + +G T  +        DI ++   +  +       K    
Sbjct: 194 LGKIPEGWQVKRLDSICERITSGGTPRTNVNEYWDGDIPWLSSGETGNTFITETEKKITQ 253

Query: 71  RQSDTSTVSIFAKGQILYGKLGP--YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL 128
                S+      G  +    G      +  +   D   +   + +            + 
Sbjct: 254 EGVTNSSTRFARSGCTVIASAGQGKTRGQTSMLCLDCYINQSTIAVTADGKQTTDSFLFF 313

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
             +    +   I +G++           +   +  +  Q  + +K    T  +   I   
Sbjct: 314 DLVQRYDQFRQISDGSSRGSLTT----KLIADLEIILPQPFLIQKFDVLTTPVVKHIENI 369

Query: 189 IRFIELLKEKKQALVSYIVTKGLN 212
           +R  ++L++ +  L+  +++  L+
Sbjct: 370 LRKNKILRKTRDLLLPKLISGELD 393


>gi|327480085|gb|AEA83395.1| restriction modification system DNA specificity domain protein
           [Pseudomonas stutzeri DSM 4166]
          Length = 562

 Score = 82.1 bits (201), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 36/239 (15%), Positives = 81/239 (33%), Gaps = 17/239 (7%)

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEW------VGLVPDHWEVKPFFALVTEL 244
            + L +E+ + L+S   +      +  K S +        +        +     ++ + 
Sbjct: 326 MVRLRQERSEWLLSKQDSAPECKTMLRKLSSLSEASPPFPLPDSWQAVHLIDCSRMLVDC 385

Query: 245 NRKNTKLIESNILSLSYGNIIQKLETRN-----MGLKPESYETYQIVDPGEIVFRFIDLQ 299
           + K        I  +   NI  +    +          E +      +PG+I+F      
Sbjct: 386 HNKTAPYASEGIPIIRTSNIRNREFRFDDLKYVNDETYEYWSRRCPPEPGDIMFTREAPM 445

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG---SGLRQS 356
            +   +       +  +    M V+P          L+   +   +  A         + 
Sbjct: 446 GEAAIIP---DGAKFCLGQRTMLVRPMHDYIDNRYLLITLTEPHLLERASTDAIGSTVKH 502

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           L+  DV++L + +PP+ EQ  I   ++      D L  ++ Q+  L ++  S+ +  AV
Sbjct: 503 LRVGDVEQLNIPLPPLAEQHRIVAKVDQLMVLCDQLRTRLTQARQLNEQLASALVEQAV 561



 Score = 72.9 bits (177), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 30/189 (15%), Positives = 57/189 (30%), Gaps = 12/189 (6%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            +P  W    +     +  GR  +  +        + + ++      +            
Sbjct: 82  ELPAGWAWARLSNVVNVLNGRAYKKEELLDAGTPVLRVGNL------FTSNHWYHSNLTL 135

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV-LPELLQGWLLSIDVT 134
                   G +L+          I      I       L             +   ++ T
Sbjct: 136 EEDKYCNPGDLLFAWS-ASFGPFIWQGERSIYHYHIWKLDFYAQGQLSKHYLYNFLLEQT 194

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           Q I+A   G +M H   + +  + +P+PPLAEQ  I  K+       D L  ++      
Sbjct: 195 QEIKAAGHGVSMVHMTKEKMEKLVVPVPPLAEQHRIVAKVDELMALCDRLEAQQADAENA 254

Query: 195 LKEKKQALV 203
             +  QAL+
Sbjct: 255 HAQLVQALL 263



 Score = 71.7 bits (174), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 32/190 (16%), Positives = 63/190 (33%), Gaps = 13/190 (6%)

Query: 227 LVPDHWEVKPFFALVT---ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY 283
            +P  W       +V        K  +L+++    L  GN+       +  L  E  +  
Sbjct: 82  ELPAGWAWARLSNVVNVLNGRAYKKEELLDAGTPVLRVGNLFTSNHWYHSNLTLEEDK-- 139

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC 343
              +PG+++F +                ER I       +  +        +L       
Sbjct: 140 -YCNPGDLLFAWSASFGPFI-----WQGERSIYHYHIWKLDFYAQGQLSKHYLYNFLLEQ 193

Query: 344 -KVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
            +   A G G+    +  E +++L V VPP+ EQ  I   ++   A  D L  +   +  
Sbjct: 194 TQEIKAAGHGVSMVHMTKEKMEKLVVPVPPLAEQHRIVAKVDELMALCDRLEAQQADAEN 253

Query: 402 LLKERRSSFI 411
              +   + +
Sbjct: 254 AHAQLVQALL 263



 Score = 57.9 bits (138), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 38/196 (19%), Positives = 70/196 (35%), Gaps = 9/196 (4%)

Query: 21  IPKHWKVVPIKR----FTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           +P  W+ V +          +      + + I  I   ++ +   ++      + ++   
Sbjct: 366 LPDSWQAVHLIDCSRMLVDCHNKTAPYASEGIPIIRTSNIRNREFRFDDLKYVNDETYEY 425

Query: 77  TVSIF--AKGQILYGKLGPYLRKAIIADFDGIC---STQFLVLQPKDVLPELLQGWLLSI 131
                    G I++ +  P    AII D    C    T  +      +    L   L   
Sbjct: 426 WSRRCPPEPGDIMFTREAPMGEAAIIPDGAKFCLGQRTMLVRPMHDYIDNRYLLITLTEP 485

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            + +R      G+T+ H     +  + +P+PPLAEQ  I  K+    V  D L T   + 
Sbjct: 486 HLLERASTDAIGSTVKHLRVGDVEQLNIPLPPLAEQHRIVAKVDQLMVLCDQLRTRLTQA 545

Query: 192 IELLKEKKQALVSYIV 207
            +L ++   ALV   V
Sbjct: 546 RQLNEQLASALVEQAV 561


>gi|322689707|ref|YP_004209441.1| restriction-modification system specificity subunit
           [Bifidobacterium longum subsp. infantis 157F]
 gi|320461043|dbj|BAJ71663.1| restriction-modification system specificity subunit
           [Bifidobacterium longum subsp. infantis 157F]
          Length = 385

 Score = 81.8 bits (200), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 59/394 (14%), Positives = 127/394 (32%), Gaps = 35/394 (8%)

Query: 25  WKVVPIKRFTKLNTGRTSE--SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           W+   +     +  G      S  + +Y+ ++D+   +  +   D   R    + V    
Sbjct: 19  WEQRKLGEIVSIGAGAPPSAFSAGNFLYVKVDDLNESS--HFQFDSAQRVDANTAVKPIR 76

Query: 83  KGQILYGKLGP--YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
           KG I++ K G      K  +        T  + L+P+ V       +L        +  I
Sbjct: 77  KGSIIFAKRGAAILGNKVRVLGKTAYIDTNMMALEPRGVD----ADFLWLFINQTGLYRI 132

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
            + +T+   + K I   P+ IP +AEQ  I         R+D LIT   R  + L   K+
Sbjct: 133 ADTSTIPQINNKHIEPYPVDIPNMAEQQAIGTF----FSRLDDLITLHQRKYDKLVIFKK 188

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
           +++  +  K      +++ +G           E+  +      + R            L+
Sbjct: 189 SMLEKMFPKDGESVPEIRFAGFTDPWEQRKLGELFDYEQPQPYIVRGTEYDDSFPTPVLT 248

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
            G       +  +G   E            ++       +        +V    I     
Sbjct: 249 AGQ------SFVLGYTNEKQGIKMASPEHPVIIFDDFTTSSHFVDFPFKVKSSAI---KL 299

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-PIKEQFDIT 379
           + ++    D  +   ++++     V         +            L+P    E   I 
Sbjct: 300 LTLRDKNEDIHFAYQVLQNIAYTPV-------SHERHWISKFATFATLMPECKSEMQAIG 352

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           +      + +D L+   ++ + LL++ + S +  
Sbjct: 353 HF----MSNLDGLITLHQRKLELLQDIKKSLLDK 382


>gi|270157705|ref|ZP_06186362.1| putative type I restriction-modification system S subunit
           [Legionella longbeachae D-4968]
 gi|269989730|gb|EEZ95984.1| putative type I restriction-modification system S subunit
           [Legionella longbeachae D-4968]
          Length = 437

 Score = 81.8 bits (200), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 61/437 (13%), Positives = 133/437 (30%), Gaps = 56/437 (12%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           +V  +         +          +   D +  +G Y P  G S   D+    IF    
Sbjct: 6   EVKKLIDLVNFENNKRIP-------LKDSDRKKRSGIY-PYYGASGIIDSIDDFIFDGEY 57

Query: 86  ILYGKLGPYLR-----KAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
           +L  + G  L+      A  A      +    +L  K++       +L        +   
Sbjct: 58  LLISEDGENLKTRKTPIAFKACGKFWVNNHAHILSEKEI---GTLDYLKYYFSQFSVLPY 114

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
             GA       K +  I +P P    ++ I   + + T +I+           + +   +
Sbjct: 115 ITGAAQPKLSKKNLEIIEIPFPNKITRLKINAILNSLTRKIELNKKINQTLESIAQTIFK 174

Query: 201 ALVSYIVTKGLNPDV--------------------KMKDSGIEW--VGLVPDHWEVKPFF 238
           +            +                      +  S  E    GL+P  W++    
Sbjct: 175 SWFVDFDPVHAKANASSEDEYDTIAKELGISREILDLFPSEFEESDQGLIPKGWKINNLS 234

Query: 239 ALVTELNRKNTKLIESNI-----LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVF 293
             +T +  K+ K  E        ++L   +         +      Y+  Q+V PGE++ 
Sbjct: 235 NYITVVKGKSYKSSELQPSTTALVTLKSFHRGGGYRLDGLKPYTGKYKAEQLVKPGELII 294

Query: 294 RFIDLQ------NDKRSLRSAQVMERGIITSA--YMAVKPHGIDSTYLAWLMRSYDLCKV 345
            + D+            +     +E  + +     + +  +     YL    ++      
Sbjct: 295 AYTDVTQNADVIGKPAVIIKNSNIENLVASLDVGIIRIIKNHFQQGYLYNYFKTDLFQNY 354

Query: 346 FYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLK 404
                SG     L    +    +L PP      I +     +     +++   Q I +L+
Sbjct: 355 ILGYTSGTTVLHLSKNWLIDHMILTPP----SQIIDRFEKLSTHFFQMIDANFQEIEILE 410

Query: 405 ERRSSFIAAAVTGQIDL 421
           + ++  +   ++G+ID+
Sbjct: 411 KSKNELLPKLLSGEIDV 427



 Score = 50.2 bits (118), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 28/202 (13%), Positives = 54/202 (26%), Gaps = 17/202 (8%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSESGKDIIY----IGLEDVESGTGKYLPKDGNSRQSD 74
           G IPK WK+  +  +  +  G++ +S +        + L+    G G Y           
Sbjct: 222 GLIPKGWKINNLSNYITVVKGKSYKSSELQPSTTALVTLKSFHRGGG-YRLDGLKPYTGK 280

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGIC------------STQFLVLQPKDVLPE 122
                +   G+++           +I     I                 + +        
Sbjct: 281 YKAEQLVKPGELIIAYTDVTQNADVIGKPAVIIKNSNIENLVASLDVGIIRIIKNHFQQG 340

Query: 123 LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
            L  +  +      I     G T+ H     + +  +  PP        +        ID
Sbjct: 341 YLYNYFKTDLFQNYILGYTSGTTVLHLSKNWLIDHMILTPPSQIIDRFEKLSTHFFQMID 400

Query: 183 TLITERIRFIELLKEKKQALVS 204
               E     +   E    L+S
Sbjct: 401 ANFQEIEILEKSKNELLPKLLS 422


>gi|282601270|ref|ZP_06257961.1| putative HsdS [Subdoligranulum variabile DSM 15176]
 gi|282569616|gb|EFB75151.1| putative HsdS [Subdoligranulum variabile DSM 15176]
          Length = 283

 Score = 81.8 bits (200), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 54/306 (17%), Positives = 111/306 (36%), Gaps = 30/306 (9%)

Query: 123 LLQGWLLSIDVTQRIEAICEGATMSHA--DWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
           +    +      +    + +G  +              + +PP+ EQ  I   + ++   
Sbjct: 1   MFNLMMQLPHYAKLFYLMSDGVHIEKLLFKTNDWLERKLAMPPIGEQKRIAAILTSQDKF 60

Query: 181 IDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFAL 240
           ID             K   Q L+                +G + +      W+++P  ++
Sbjct: 61  IDLKEKRLAEKQRQKKYLVQQLI----------------TGKKRLPGFQGEWQLQPLRSV 104

Query: 241 VTELNRKNTKLIESNILSLSYGNIIQKLETRNMG-LKPESYETYQIVDPGEIVFRFIDLQ 299
           + E    + K +E   ++LS   I  K E  +   L     + Y+I   G+I +   +L 
Sbjct: 105 LKERKSYSPKGLEYPHVTLSTEGIFPKSERYDRDHLVKNEDKEYKITHLGDICYNPANL- 163

Query: 300 NDKRSLRSAQVMERGIITSAYMAVK-PHGIDSTYLAWLMRSYDLCKVFYAMGSGL---RQ 355
             K  +         I +  Y+  +    +   YLA  +  +D          G    R 
Sbjct: 164 --KFGVICENTFGDAIFSPIYVTFEVSDKVCKEYLANYLMRWDFINAVRKYEEGTVYERM 221

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           ++K ED  +  + +P + EQ  I  V++     ID+L + IEQ     K+++ + +   +
Sbjct: 222 AVKPEDFLKYVIRLPSLDEQNAIAKVLSTADREIDLLRQDIEQE----KQKKKALMQLLL 277

Query: 416 TGQIDL 421
           TG + +
Sbjct: 278 TGIVRV 283



 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 21/95 (22%), Positives = 38/95 (40%), Gaps = 7/95 (7%)

Query: 332 YLAWLMRSYDLCKVFYAMGSGLRQS---LKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
               +M+     K+FY M  G+       K  D     + +PPI EQ  I  ++  +   
Sbjct: 1   MFNLMMQLPHYAKLFYLMSDGVHIEKLLFKTNDWLERKLAMPPIGEQKRIAAILTSQDKF 60

Query: 389 IDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
           ID      E+ +   + ++   +   +TG+  L G
Sbjct: 61  ID----LKEKRLAEKQRQKKYLVQQLITGKKRLPG 91



 Score = 44.8 bits (104), Expect = 0.023,   Method: Composition-based stats.
 Identities = 31/189 (16%), Positives = 60/189 (31%), Gaps = 5/189 (2%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W++ P++   K     + +  +        +      +   +D   +  D     I   
Sbjct: 95  EWQLQPLRSVLKERKSYSPKGLEYPHVTLSTEGIFPKSERYDRDHLVKNEDKE-YKITHL 153

Query: 84  GQILYGKLGPYLRKAIIADF-DGICSTQFLVLQPKDVLPELLQ-GWLLSIDVTQRIEAIC 141
           G I Y              F D I S  ++  +  D + +     +L+  D    +    
Sbjct: 154 GDICYNPANLKFGVICENTFGDAIFSPIYVTFEVSDKVCKEYLANYLMRWDFINAVRKYE 213

Query: 142 EG--ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
           EG          +      + +P L EQ  I + +      ID L  +  +  +  K   
Sbjct: 214 EGTVYERMAVKPEDFLKYVIRLPSLDEQNAIAKVLSTADREIDLLRQDIEQEKQKKKALM 273

Query: 200 QALVSYIVT 208
           Q L++ IV 
Sbjct: 274 QLLLTGIVR 282


>gi|330991917|ref|ZP_08315866.1| Putative type-1 restriction enzyme MjaXP specificity protein
           [Gluconacetobacter sp. SXCC-1]
 gi|329760938|gb|EGG77433.1| Putative type-1 restriction enzyme MjaXP specificity protein
           [Gluconacetobacter sp. SXCC-1]
          Length = 423

 Score = 81.8 bits (200), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 57/431 (13%), Positives = 119/431 (27%), Gaps = 54/431 (12%)

Query: 29  PIKRFTKLNTGRTS------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            +     +  G         +S    I     +   G G +                  +
Sbjct: 2   KLADVIDIRHGFAFRGEFFSDSPTGFILATPGNFAIGGG-FRSGKAKYYNGPVPDEYCLS 60

Query: 83  KGQILYGKLGP--------YLRKAIIADFDGICSTQFLVLQPKDVLP-ELLQGWLLSIDV 133
           +G I+              Y      +    + + +   + PK  +    +   + +   
Sbjct: 61  EGDIIVTMTDLSKDADTLGYSASVPASANTFLHNQRIGKIVPKGNINLRFIYWLMRTPAY 120

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
              I A   G+T+ H     I +     P L +Q  I   +     +ID           
Sbjct: 121 RDEILASYTGSTVKHTSPSRILSFQFDCPSLEDQGRIASILDILDNKIDLNCRTNETLEA 180

Query: 194 LLKEKKQALVSYIVTKG------------LNPDVKMKDSGIEWVGLVPDHWEVKPFFALV 241
           + +   Q    + V  G            L P++             P+ W V+P   + 
Sbjct: 181 IARALFQ---DWFVGFGPTRAKMAGQAAYLAPEIWKLFPDRLDDEEKPEGWTVEPVDNVA 237

Query: 242 TELNR---KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDL 298
           + LN    +     E   L       ++   T +            +V+ G+I+F +   
Sbjct: 238 SFLNGLALQKYPAGEGAFLPAIKIAQLRSESTHSADRVSVGIPCEYVVEEGDILFSWSGS 297

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY--DLCKVFYAMGSGLRQS 356
              K         ERG +      V        ++   ++ Y  D   +  +        
Sbjct: 298 LLCK-----FWNGERGALNQHLFKVTSGRFPDWFIFEWIQHYMPDFQAIAESKA-TTMGH 351

Query: 357 LKFEDVKRLPVLVPPIKEQFD----ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           ++   +    V +P           I + I          +++  +    L E R   + 
Sbjct: 352 IQRHHLTESLVTIPSSCVMKQADLIIGSHIRK--------IKENHKESRNLSELRDLLLP 403

Query: 413 AAVTGQIDLRG 423
             ++G+I +R 
Sbjct: 404 RLMSGEIRIRD 414



 Score = 47.9 bits (112), Expect = 0.004,   Method: Composition-based stats.
 Identities = 29/188 (15%), Positives = 54/188 (28%), Gaps = 10/188 (5%)

Query: 22  PKHWKVVPIKRFTKLNTG---RTSESGKD--IIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           P+ W V P+        G   +   +G+   +  I +  + S +     +       +  
Sbjct: 225 PEGWTVEPVDNVASFLNGLALQKYPAGEGAFLPAIKIAQLRSESTHSADRVSVGIPCE-- 282

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
              +  +G IL+   G  L K       G  +     +         +  W+       +
Sbjct: 283 --YVVEEGDILFSWSGSLLCK-FWNGERGALNQHLFKVTSGRFPDWFIFEWIQHYMPDFQ 339

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
             A  +  TM H     +    + IP           I +   +I     E     EL  
Sbjct: 340 AIAESKATTMGHIQRHHLTESLVTIPSSCVMKQADLIIGSHIRKIKENHKESRNLSELRD 399

Query: 197 EKKQALVS 204
                L+S
Sbjct: 400 LLLPRLMS 407


>gi|268323492|emb|CBH37080.1| type I restriction-modification system, subunit S [uncultured
           archaeon]
 gi|268326508|emb|CBH40096.1| putative type I restriction-modification system, subunit S
           [uncultured archaeon]
          Length = 386

 Score = 81.8 bits (200), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 55/399 (13%), Positives = 120/399 (30%), Gaps = 49/399 (12%)

Query: 30  IKRFTKLNTGRT-SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS---IFAKGQ 85
           +K     N G+T   +   I  I    + +     L +       +T           G 
Sbjct: 22  LKNVVD-NRGKTCPTADSGIPLIATNCIVNNYLYPLYEKVRYVTEETYKTWFRDHPRPGD 80

Query: 86  ILYGKLGPYLRKAIIADFDGIC---STQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           +++   G   R A + D    C       +    + + P+ L   L S  + Q IE++  
Sbjct: 81  MIFVLKGTPGRIAWVPDPIDFCVAQDMVAIRADERKIFPKYLFAVLRSDSIQQEIESLHV 140

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           G+ + H       ++ +PI     Q             I     +    I+LL  + + L
Sbjct: 141 GSLIPHFKKGDFNDLIIPIVEPKLQ-----------EFIGNQYFDFSVKIDLLHRQNKTL 189

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
            +         +   +   +E      +   +     L+     K      +    +   
Sbjct: 190 EAMA-------ETLFRQWFVEEADEGWEEGRLGDVIELIYGKGLKKEIRTGTGYPVIGSS 242

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
            ++              Y +  +V+   IV            L         I T+ Y+ 
Sbjct: 243 GVVG-------------YHSEFLVEGPGIVIGRKGTLGKVIYL---WDNFFPIDTTYYIK 286

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
            K       Y  +L+++ +               L  +      + + P+++        
Sbjct: 287 SKVESAGLLYEYFLLKTLNFE---EMNSDSAVPGLNRDIALSTEIKIAPLEKLNKFNQFT 343

Query: 383 NVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           +     ID L E   + I  L++ R + +   ++G++ +
Sbjct: 344 STF---IDKLKENT-KQIRTLEKLRDTLLPKLMSGEVRI 378



 Score = 49.0 bits (115), Expect = 0.001,   Method: Composition-based stats.
 Identities = 24/189 (12%), Positives = 57/189 (30%), Gaps = 15/189 (7%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + W+   +    +L  G+  +            + +GTG   P  G+S      +  +  
Sbjct: 207 EGWEEGRLGDVIELIYGKGLKKE----------IRTGTG--YPVIGSSGVVGYHSEFLVE 254

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
              I+ G+ G   +   + D      T + +   K  +      +   +  T   E +  
Sbjct: 255 GPGIVIGRKGTLGKVIYLWDNFFPIDTTYYI---KSKVESAGLLYEYFLLKTLNFEEMNS 311

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
            + +   +     +  + I PL +     +       ++     +     +L       L
Sbjct: 312 DSAVPGLNRDIALSTEIKIAPLEKLNKFNQFTSTFIDKLKENTKQIRTLEKLRDTLLPKL 371

Query: 203 VSYIVTKGL 211
           +S  V    
Sbjct: 372 MSGEVRIQF 380


>gi|227505723|ref|ZP_03935772.1| type I restriction-modification system specificity subunit
           [Corynebacterium striatum ATCC 6940]
 gi|227197691|gb|EEI77739.1| type I restriction-modification system specificity subunit
           [Corynebacterium striatum ATCC 6940]
          Length = 382

 Score = 81.8 bits (200), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 48/408 (11%), Positives = 115/408 (28%), Gaps = 47/408 (11%)

Query: 26  KVVPIKRFTKLNTGRTSESGK---DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           K+V +K   + + G T+ + +      ++ + D+ + T  Y          +     +  
Sbjct: 3   KIVSLKEVCESDYGVTASATEQPTGTHFLRITDIVNFT-DYSGVPFVDIDDEDRRKKLLK 61

Query: 83  KGQILYGKLGPYLRKAIIAD--FDGICSTQFLVLQPKDVLPELL---QGWLLSIDVTQRI 137
           +  I+  + G  +  + +       + ++  +  +PK    + +                
Sbjct: 62  QNDIVVARTGATVGASHLFRGTEPTVFASYLVRFRPKTSDVDPVFVSYVLNSPAWKQFIF 121

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
                 +   +     + +    +P + EQ  I   + A   +I            L   
Sbjct: 122 ANAHSKSAQPNLSAAAMMDFQFSLPEIREQQKIASVLKALDDKIAANSRIIKIATHLNIN 181

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
               LV   VTK L                      ++    +    + K   L E  I 
Sbjct: 182 ----LVEKAVTKELE--------------------HLQNLADITMGSSPKGEFLNEEGIG 217

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
              +  +    E                   G+I+F        +  +    + ER  + 
Sbjct: 218 EPFFQGVRDFGELFPSERVFAEKAVRTA-QEGDILFA------VRAPIGEVNIAERPCVI 270

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFD 377
              +A          L +L++ +      Y     +   +   D+    + V        
Sbjct: 271 GRGIAAIRGKQSHLGLFYLLKGHPELWETYQSSGTVFAGINKSDLHNAVIPV------LR 324

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGES 425
            +  +  +   I        +   +L   R   +   ++G+I + GE+
Sbjct: 325 DSEKLEQQLTPIHERAMHALRENQVLARTRDELLPLLMSGRITV-GEA 371


>gi|228984124|ref|ZP_04144310.1| Type Ic restriction-modification system, HsdS subunit [Bacillus
           thuringiensis serovar tochigiensis BGSC 4Y1]
 gi|228775652|gb|EEM24032.1| Type Ic restriction-modification system, HsdS subunit [Bacillus
           thuringiensis serovar tochigiensis BGSC 4Y1]
          Length = 352

 Score = 81.8 bits (200), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 45/374 (12%), Positives = 112/374 (29%), Gaps = 28/374 (7%)

Query: 42  SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKA--I 99
           +   +++    L      T K    +              +  + +Y  +   L      
Sbjct: 2   NPKDENLELWSLTVENGLTPKTERYNREFLVKKEDKFKAVSNNEFIYNPMNMTLGAVDLN 61

Query: 100 IADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPM 159
           +       S  ++ ++ K+       G  L   +  ++  +    ++     +       
Sbjct: 62  LTGKKVAVSGYYITMKTKENYDNNYFGVWLKTPLAIKMYKLYATGSLVE-RQRVQFPTLS 120

Query: 160 PIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKD 219
            I  L   +  ++KI A   ++D  IT   + I +LK+ KQA +  +  K      +++ 
Sbjct: 121 QIKTLVPSLEEQKKIGALFKQLDDTITLHQQEITVLKQTKQAFLQKMFPKEGKSVPEVRF 180

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
            G      +    +++    L    +   +KL+++    +    +               
Sbjct: 181 PGFTGEWEL---RKIREIGDLSAGGDINKSKLVDNEKYPVLANALTNDGIVGYYDEYKIE 237

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
                I   G++        N    +R   +   G                  + +L   
Sbjct: 238 APAVTITGRGDVGHAKARHINFTPVVRLLVLKADG----------------FDVDFLENC 281

Query: 340 YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
            +   +F  + S     L    +    +  P  +EQ  I         ++D  +   +  
Sbjct: 282 INTRNIF--VESTGVPQLTVPQLGTYEISFPSFREQTKIGRF----FKQLDDTISLHQSE 335

Query: 400 IVLLKERRSSFIAA 413
           I  L++ + +F+  
Sbjct: 336 IEALQKTKKAFLQK 349


>gi|118578797|ref|YP_900047.1| restriction modification system DNA specificity subunit [Pelobacter
           propionicus DSM 2379]
 gi|118501507|gb|ABK97989.1| restriction modification system DNA specificity domain protein
           [Pelobacter propionicus DSM 2379]
          Length = 590

 Score = 81.8 bits (200), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 56/506 (11%), Positives = 128/506 (25%), Gaps = 114/506 (22%)

Query: 20  AIPKHWKVVPIKR-FTKLNTG--RTSESGK--DIIYIGLEDV------------------ 56
            +P+ W+ V +     K+  G   +  + +  D +YI  +++                  
Sbjct: 86  ELPQGWEWVRLGEAMLKITDGTHHSPPNNEKGDFLYISAKNIKDDGVLISNATYVTEEVH 145

Query: 57  ---------ESGTGKYLPKDGNSRQSDTSTVSI----------------FAKGQILYGKL 91
                    E G   Y+     +     + +                       +L+   
Sbjct: 146 DEIFSRCDPEYGNILYIKDGATTGIVTINDLKEPFSMLSSVALLKQPHQVDNRYLLFTLR 205

Query: 92  GPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADW 151
            P+    + A   G+  T+  + +  D +  L         V +  + +     +     
Sbjct: 206 SPFFYGEMRAGMTGVAITRVTLKKLHDAIIPLPPLSEQHRIVARIDQLMARCDELEKLRK 265

Query: 152 KGIGNIPMPIPPLAEQVLIREKIIA----------------------ETVRIDTLITERI 189
           +             +Q+L      +                          +     E  
Sbjct: 266 EREEKRLAVHAAAIKQLLDSNFASSRLRVSQDSSSLRAFVPSCETGGAFDFLAKHFGELY 325

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLV--------------------- 228
              E + E ++A++   V   L P         E +  +                     
Sbjct: 326 TVKENVAELRKAILQLAVMGRLVPQDPNDPPASELLREIEKEKVSREGAKTRRKETKLPP 385

Query: 229 ----------PDHWEVKPFFALVTELNRKNTK--------LIESNILSLSYGNIIQKLET 270
                     P  WE             ++                  +  G++ +   T
Sbjct: 386 IKPEKVPYQLPKGWEWVRLGDAGAFERGRSKHRPRNDKRLFEHGTYPFVQTGDVSRSKAT 445

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR-SAQVMERGIITSAYMAVKPHGID 329
            N  +   SY     +    +  +         ++  +  +     I  + +A       
Sbjct: 446 ENQIMTCTSYYNDFGLKQSRLWEKGTLCITIAANIAETGFLGMDACIPDSVVAFLGVNKS 505

Query: 330 STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
              L  +        + +   S  ++++    +  L   +PP+ EQ  I   I+   A  
Sbjct: 506 LEKLVKVFIDVAKGDLEHFAPSTAQKNINLGIINELLFPLPPLNEQHRIVARIDQLMALC 565

Query: 390 DVLVEKIEQSIVLLKERRSSFIAAAV 415
           D L    EQ I     +R+  + A +
Sbjct: 566 DTL----EQRIDAATVKRTELLGAVM 587



 Score = 76.4 bits (186), Expect = 7e-12,   Method: Composition-based stats.
 Identities = 30/190 (15%), Positives = 64/190 (33%), Gaps = 11/190 (5%)

Query: 223 EWVGLVPDHWEVKPFFA---LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
           E    +P  WE          +T+    +    E           I+            +
Sbjct: 82  EVPYELPQGWEWVRLGEAMLKITDGTHHSPPNNEKGDFLYISAKNIKDDGVLISNATYVT 141

Query: 280 YETYQIV------DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL 333
            E +  +      + G I++          ++   +     +++S  +  +PH +D+ YL
Sbjct: 142 EEVHDEIFSRCDPEYGNILYIKDGATTGIVTINDLKEP-FSMLSSVALLKQPHQVDNRYL 200

Query: 334 AWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            + +RS        A  +G     +  + +    + +PP+ EQ  I   I+   AR D L
Sbjct: 201 LFTLRSPFFYGEMRAGMTGVAITRVTLKKLHDAIIPLPPLSEQHRIVARIDQLMARCDEL 260

Query: 393 VEKIEQSIVL 402
            +  ++    
Sbjct: 261 EKLRKEREEK 270


>gi|282932598|ref|ZP_06338019.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus jensenii 208-1]
 gi|281303294|gb|EFA95475.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus jensenii 208-1]
          Length = 405

 Score = 81.8 bits (200), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 45/410 (10%), Positives = 126/410 (30%), Gaps = 34/410 (8%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTG---KYLPKDGNSRQSDTSTVS 79
           + W+   +K   +  +G + +   D  +   + +          +      +    +   
Sbjct: 12  ESWRTEKLKNIGESFSGLSGKKSSDFGHGEAKYITYLNILNNPIIDTKLTDKIEIDNKQH 71

Query: 80  IFAKGQILYGKLGPYLRKAII---------ADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
           +  KG I +       ++  +           +    S  + + +              S
Sbjct: 72  LVKKGDIFFTISSETPQEVGLSSVLDTNLNECYLNSFSFGYRLKEISMFDNLFNSYNFRS 131

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
            +  +++  + +G +  +   K + N  +  P ++EQ  I + I      +     +   
Sbjct: 132 PNFRRKMYILAQGISRYNISKKAVLNETICFPKISEQKQIGKLIKLMNSLLSLQQRKLEL 191

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
             +L K+    L S+ +T         K   +        + ++     +   +   + K
Sbjct: 192 ENKLKKQIAFYLYSFTLTP------NFKHIEV-------KNKKLGDIVDISNGIMGDSQK 238

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDL---QNDKRSLRS 307
              +  L+        K++    G   +  +  + ++ G+I++  I+          ++ 
Sbjct: 239 KSGNFKLTRIETISNGKIDLSRTGYIDQVSDEKKFLEVGDILYSNINSLTHIGKNAIVKE 298

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRL 365
             +     I    + +  + I   YL  L+          +  +    + S+   ++  L
Sbjct: 299 KHLPLVHGINLFRLHITNNQITPNYLHGLLNLPKYKWWVKSHANPAVNQASINKTELSSL 358

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            +  P +  Q  I N IN   A+   +          L + +   +    
Sbjct: 359 VIKYPDLDIQNQI-NNINYSFAQYWDI---QYSKKESLCQLKQFLLQNLF 404


>gi|154488694|ref|ZP_02029543.1| hypothetical protein BIFADO_02001 [Bifidobacterium adolescentis
           L2-32]
 gi|154082831|gb|EDN81876.1| hypothetical protein BIFADO_02001 [Bifidobacterium adolescentis
           L2-32]
          Length = 392

 Score = 81.8 bits (200), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 58/377 (15%), Positives = 116/377 (30%), Gaps = 38/377 (10%)

Query: 26  KVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKD-----GNSRQSD 74
           K V I    K  +G T  S         I +IG   +    GK+L K+            
Sbjct: 11  KKVTIGELGKTQSGGTPSSKHPEFFNGSIPWIGTTAL---NGKFLGKNDAVKLITEEAVA 67

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFL-VLQPKDVLPELLQGWLLSIDV 133
            S   I  +  I+ G +   + K  I       S   + ++   +         L     
Sbjct: 68  KSATKIVPEKSIMVG-IRVGVGKVAINAVPMCTSQDIVSIVGIDEASWNKEYISLALQYK 126

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
              + A  +GAT++    K +  I +P  P+ EQ  + + +     ++  +  +      
Sbjct: 127 APLLAAQAQGATIAGITSKTLKAIEIPAIPINEQNRVVDILRKLENQVGFVRKQLCGLDA 186

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
           L       + S  V    +    +K     W     + + +             +   I 
Sbjct: 187 L-------VKSRFVEMFGD----LKSDTNGWPIKPFETFAIIDTHMANDLTPYLDMPHIG 235

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
            + +    G +         G+    Y       P  +++  I    +K +L        
Sbjct: 236 IDSIESGTGRLSGYRTVAEDGIISGKYP----FTPEHLIYSKIRPSLNKVALPDFS---- 287

Query: 314 GIITSAYMAVKPH--GIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVP 370
           G+ +S    + P     +  YLA +MRS    +    +    +   +  + +    + +P
Sbjct: 288 GVCSSDAYPILPIAGECNRVYLAEVMRSAYFLEYILPLSGRAQMPKVNKKALSGFSMPLP 347

Query: 371 PIKEQFDITNVINVETA 387
           PI+ Q      +     
Sbjct: 348 PIELQQQFAAFVAQVDK 364


>gi|108935909|sp|P10485|T1S1_ECOLX RecName: Full=Type-1 restriction enzyme EcoR124II specificity
           protein; Short=S.EcoR124II; AltName: Full=Type I
           restriction enzyme EcoR124II specificity protein;
           Short=S protein
 gi|84310051|emb|CAB37630.2| unnamed protein product [Escherichia coli]
          Length = 404

 Score = 81.8 bits (200), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 61/400 (15%), Positives = 118/400 (29%), Gaps = 50/400 (12%)

Query: 26  KVVPIKRFTK-------LNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           + +P+   TK       L   +       I  +     ++    Y  +     Q+  + V
Sbjct: 17  EWLPLGEITKYEQPTKYLVKAKDYHDTYTIPVLTAG--KTFILGYTNETHGIYQASKAPV 74

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
            IF            +       DFD    +  + +       + L  ++     T   E
Sbjct: 75  IIF----------DDFTTANKWVDFDFKAKSSAMKMVTSCDDNKTLLKYVYYWLNTLPSE 124

Query: 139 AICEGATMSHADWKGIGNIPMPIPP-----LAEQVLIREKIIAETVRIDTLITERIRFIE 193
                             IP+P P      LA Q  I   +   T     L  E     +
Sbjct: 125 FAEGDHKRQWISNYSQKKIPIPCPDNPEKSLAIQSEIVRILDKFTALTAELTAELNMRKK 184

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEW--VGLVPDHWEVKPFFALVTELNRKNTKL 251
                +  L+S             K+  +EW  +G +        ++   T    K    
Sbjct: 185 QYNYYRDQLLS------------FKEGEVEWKTLGEI------GKWYGGGTPSKNKIEFW 226

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPES---YETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
              +I  +S  ++ + L   +     E    + + +++    I         DK  L SA
Sbjct: 227 ENGSIPWISPKDMGRTLVDSSEDYITEEAVLHSSTKLIPANSIAIVVRSSILDKV-LPSA 285

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY--AMGSGLRQSLKFEDVKRLP 366
            +     +     AV PH        + M       +        G   S+  + +    
Sbjct: 286 LIKVPATLNQDMKAVIPHENILVKYIYHMIGSRGSDILRAAKKTGGSVASIDSKKLFSFK 345

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
           + VP I EQ  I  +++      + + E + + I L +++
Sbjct: 346 IPVPNINEQQRIVEILDKFDTLTNSITEGLPREIELRQKQ 385



 Score = 43.6 bits (101), Expect = 0.062,   Method: Composition-based stats.
 Identities = 23/184 (12%), Positives = 54/184 (29%), Gaps = 11/184 (5%)

Query: 234 VKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVF 293
             P   +          +   +        ++   +T  +G   E++  YQ      I+F
Sbjct: 18  WLPLGEITKYEQPTKYLVKAKDYHDTYTIPVLTAGKTFILGYTNETHGIYQASKAPVIIF 77

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL 353
                 N            +        +   +     Y+ + + +       +A G   
Sbjct: 78  DDFTTANK---WVDFDFKAKSSAMKMVTSCDDNKTLLKYVYYWLNTLPSE---FAEGDHK 131

Query: 354 RQSLKFEDVKRLPVLVP-----PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
           RQ +     K++P+  P      +  Q +I  +++  TA    L  ++          R 
Sbjct: 132 RQWISNYSQKKIPIPCPDNPEKSLAIQSEIVRILDKFTALTAELTAELNMRKKQYNYYRD 191

Query: 409 SFIA 412
             ++
Sbjct: 192 QLLS 195


>gi|226225586|ref|YP_002759692.1| type I restriction-modification system restriction subunit
           [Gemmatimonas aurantiaca T-27]
 gi|226088777|dbj|BAH37222.1| type I restriction-modification system restriction subunit
           [Gemmatimonas aurantiaca T-27]
          Length = 445

 Score = 81.8 bits (200), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 52/442 (11%), Positives = 120/442 (27%), Gaps = 45/442 (10%)

Query: 24  HWKVVPIKRFTKLNTGRTS------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
            W+   +     +  G         +  +  I +   +   G G +              
Sbjct: 4   EWRECSLGELIDIKHGFAFQGEFIRDESRGDILLTPGNFSIGGG-FKSDKFKYFDGPVPG 62

Query: 78  VSIFAKGQILYGKLG----------PYLRKAIIADFDGICSTQ---FLVLQPKDVLPELL 124
             + A+  +L               P    A       + + +    LV   + +    L
Sbjct: 63  DFVLAEADLLVTMTDLSKQSDTLGLPAFVPARSDGRRYLHNQRLGKILVKDQQAIDSRFL 122

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
              L S D    + A   G T+ H   + I       P L EQ  I   +     +I+  
Sbjct: 123 HYLLCSADYRNEVLASATGTTVKHTSPERIKRFRFSRPLLDEQRAIAHILGTLDDKIELN 182

Query: 185 ITERIRFIELLKEKKQALVSYI--VTKGLNPDVKMKDSGIEWV----------GLVPDHW 232
                   E+ +   ++       V    +         I  +          G +P++W
Sbjct: 183 RRMSETLEEMARALFKSWFVDFDPVRAKADGRHHCLPQPIAELFPDSFEGSEMGEIPNNW 242

Query: 233 EVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI------- 285
           E+K    L   +        E               +   + +         +       
Sbjct: 243 ELKTIGDLADVVGGGTPSTKEPTFWEDGTHAWATPKDLSGLSVPVLLETERYVTSLGLSQ 302

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV 345
           +  G +    + L +       A       I   ++A+KP    S     L  S+   ++
Sbjct: 303 IGSGLLPRGTVLLSSRAPIGYLAVAETPVAINQGFIAMKPKAGVSNLFLLLWASFAHDQI 362

Query: 346 FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFD-ITNVINVETARIDVLVEKIEQSIVLLK 404
                      +   + + +P++ P        I +  +     +   +    ++   L 
Sbjct: 363 VSRANGSTFLEISKANFRPIPMVAP-----RACIMDAFDRLARPLYERIVACAKASRTLT 417

Query: 405 ERRSSFIAAAVTGQIDLRGESQ 426
             R + +   ++G++ ++   +
Sbjct: 418 ALRDTLLPKLISGELRVKDAER 439



 Score = 64.8 bits (156), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 30/196 (15%), Positives = 56/196 (28%), Gaps = 12/196 (6%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYI-------GLEDVESGTGKY---LPKDG 68
           G IP +W++  I     +  G T  + +   +          +D+   +        +  
Sbjct: 236 GEIPNNWELKTIGDLADVVGGGTPSTKEPTFWEDGTHAWATPKDLSGLSVPVLLETERYV 295

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL 128
            S         +  +G +L     P      +A+     +  F+ ++PK  +   L   L
Sbjct: 296 TSLGLSQIGSGLLPRGTVLLSSRAPI-GYLAVAETPVAINQGFIAMKPKAGVSN-LFLLL 353

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
            +     +I +   G+T           IPM  P                 RI       
Sbjct: 354 WASFAHDQIVSRANGSTFLEISKANFRPIPMVAPRACIMDAFDRLARPLYERIVACAKAS 413

Query: 189 IRFIELLKEKKQALVS 204
                L       L+S
Sbjct: 414 RTLTALRDTLLPKLIS 429


>gi|77415025|ref|ZP_00791100.1| Type I restriction modification DNA specificity domain protein
           [Streptococcus agalactiae 515]
 gi|77158925|gb|EAO70161.1| Type I restriction modification DNA specificity domain protein
           [Streptococcus agalactiae 515]
          Length = 385

 Score = 81.8 bits (200), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 29/209 (13%), Positives = 67/209 (32%), Gaps = 12/209 (5%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTK-----LIESNILSLSYGNIIQKLETRNMGL 275
            +E    +P+ W       + +  +    K         NI  ++  ++ ++   +    
Sbjct: 77  EVEVPYEIPESWNWVKLRNIGSITSGGTPKSSEPSYYGGNITWITPADMGKQQNNKFFAK 136

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRS--LRSAQVMERGIITSAYMAVKPHGIDSTYL 333
             +      +      +     +    R+       V E         ++ P  +D  +L
Sbjct: 137 SSKKITELGLQKSSAQLISKNSIVYSSRAPIGHINIVTEDYTTNQGCKSITPLLVDLIFL 196

Query: 334 AWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
            WL++ +    +         + +         + +PP+ EQ  I   I    A++D   
Sbjct: 197 YWLLQ-FRTKDIILRSSGTTFKEISASGFGDTLLPLPPLAEQKRIVAQIEKALAKVDEYA 255

Query: 394 EKIEQSIVLLKE----RRSSFIAAAVTGQ 418
           E   +   L KE     + S +  A+ G+
Sbjct: 256 ESYNKLQQLDKEFPDKLKKSILQYAMQGK 284



 Score = 71.0 bits (172), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 43/212 (20%), Positives = 79/212 (37%), Gaps = 17/212 (8%)

Query: 14  GVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDV----ESGTGKY 63
            V+    IP+ W  V ++    + +G T +S +      +I +I   D+     +     
Sbjct: 77  EVEVPYEIPESWNWVKLRNIGSITSGGTPKSSEPSYYGGNITWITPADMGKQQNNKFFAK 136

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPEL 123
             K         S+  + +K  I+Y    P     I+ +     +     + P  V   L
Sbjct: 137 SSKKITELGLQKSSAQLISKNSIVYSSRAPIGHINIVTEDY-TTNQGCKSITPLLVD--L 193

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           +  + L    T+ I     G T       G G+  +P+PPLAEQ  I  +I     ++D 
Sbjct: 194 IFLYWLLQFRTKDIILRSSGTTFKEISASGFGDTLLPLPPLAEQKRIVAQIEKALAKVDE 253

Query: 184 LITERIRFIELLKEKK----QALVSYIVTKGL 211
                 +  +L KE      ++++ Y +   L
Sbjct: 254 YAESYNKLQQLDKEFPDKLKKSILQYAMQGKL 285


>gi|56707658|ref|YP_169554.1| hypothetical protein FTT_0523 [Francisella tularensis subsp.
           tularensis SCHU S4]
 gi|110670129|ref|YP_666686.1| hypothetical protein FTF0523 [Francisella tularensis subsp.
           tularensis FSC198]
 gi|56604150|emb|CAG45156.1| conserved hypothetical protein [Francisella tularensis subsp.
           tularensis SCHU S4]
 gi|110320462|emb|CAL08539.1| conserved hypothetical protein [Francisella tularensis subsp.
           tularensis FSC198]
          Length = 408

 Score = 81.8 bits (200), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 56/388 (14%), Positives = 124/388 (31%), Gaps = 32/388 (8%)

Query: 44  SGKDIIYIGLEDVES---------GTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPY 94
           S  +I ++ ++D ES         G G Y+ +  N ++             + + K+   
Sbjct: 9   SKANIEWVKIQDKESYPILGVRGQGQGVYINRIANGKELTMKKYQKSEPYHLFFCKVRTV 68

Query: 95  LRKAI-----IADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHA 149
             +        A+     + Q+L +    +LPE L+  L    +T   +    GA   H 
Sbjct: 69  KGQWGVVYPEYANSYASSNMQYLKIDLDKILPEYLEMLLKLKKITDIWDKNAIGADGRHF 128

Query: 150 DWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL--VSYIV 207
             K +  + +P+PP+  Q  I +    +    + L     +    +++   A   +    
Sbjct: 129 PLKILLTLQIPLPPIEIQKQIVQAYEDKINLANQLEQRAEKLEAKIEKYLYAKLGIEQAQ 188

Query: 208 TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNT-------------KLIES 254
            +  +    +K    E +      +  +                                
Sbjct: 189 EQKQDKKGLLKFVRFEQLQRWDTDFFKQKEGYSSKYETVSYEDLFVSLNNGIAARNYASD 248

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
            I  L   +I       +       Y+   +++ G ++        +   L   +     
Sbjct: 249 GIRYLKVSDIKDNYINNDKPFYVNKYKESDLIEKGTLLITRKGTVGNSYYL--DKDGSFV 306

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIK 373
             +  ++      ++  YL+ +  S  + K +    +G    SL    +K + + +PP+K
Sbjct: 307 ASSEIFIIKLNDKVNGNYLSEINLSSFVKKQYREKSTGTIMPSLSQPKLKSILIPLPPLK 366

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIV 401
            Q  I   I      I  L ++ EQ+  
Sbjct: 367 IQNHIAVRIQKLKDYIKALEQQAEQNRE 394



 Score = 53.3 bits (126), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 20/141 (14%), Positives = 47/141 (33%), Gaps = 2/141 (1%)

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQ-NDKRSLRSAQVMERGIITSAYMAVKPH 326
              R    K  + + YQ  +P  + F  +         +              Y+ +   
Sbjct: 37  YINRIANGKELTMKKYQKSEPYHLFFCKVRTVKGQWGVVYPEYANSYASSNMQYLKIDLD 96

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
            I   YL  L++   +  ++     G   +    + +  L + +PPI+ Q  I      +
Sbjct: 97  KILPEYLEMLLKLKKITDIWDKNAIGADGRHFPLKILLTLQIPLPPIEIQKQIVQAYEDK 156

Query: 386 TARIDVLVEKIEQSIVLLKER 406
               + L ++ E+    +++ 
Sbjct: 157 INLANQLEQRAEKLEAKIEKY 177


>gi|330941025|gb|EGH43947.1| restriction modification system DNA specificity domain [Pseudomonas
           syringae pv. pisi str. 1704B]
          Length = 293

 Score = 81.8 bits (200), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 30/198 (15%), Positives = 64/198 (32%), Gaps = 10/198 (5%)

Query: 227 LVPDHWEVKPFFA---LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY--- 280
            +P  WE          +T+        IE  +  LS  ++       N           
Sbjct: 96  QLPATWEWARLADVAFQITDGAHHTPTYIEFGVPFLSVKDMSGGSLGFNATRYISEEAHE 155

Query: 281 --ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
                     G+++   I        +          ++   +      ++ +YL  L+ 
Sbjct: 156 QLTKRCHPQRGDLLLTKIGTTG-VPVIVDTDRPFSIFVSVGLIKAPWDHLNVSYLQLLIS 214

Query: 339 SYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
           S  + K       G+  ++L    +    + +PP+ EQ  I   ++      D L  ++ 
Sbjct: 215 SPFVKKQSLDGTEGVGNKNLVLRKIANFLIAIPPLAEQRRIVIKVDELMTLCDQLKIRLT 274

Query: 398 QSIVLLKERRSSFIAAAV 415
           Q+  L ++  S+ +  AV
Sbjct: 275 QARQLNEQLASTLVEQAV 292



 Score = 59.0 bits (141), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 36/197 (18%), Positives = 67/197 (34%), Gaps = 9/197 (4%)

Query: 20  AIPKHWKVVPIKRF-TKLNTGRTSESGK---DIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            +P  W+   +     ++  G           + ++ ++D+  G+  +      S ++  
Sbjct: 96  QLPATWEWARLADVAFQITDGAHHTPTYIEFGVPFLSVKDMSGGSLGFNATRYISEEAHE 155

Query: 76  STVSIFAK--GQILYGKLGPYLRKAII---ADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
                     G +L  K+G      I+     F    S   +      +    LQ  + S
Sbjct: 156 QLTKRCHPQRGDLLLTKIGTTGVPVIVDTDRPFSIFVSVGLIKAPWDHLNVSYLQLLISS 215

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
             V ++     EG    +   + I N  + IPPLAEQ  I  K+       D L     +
Sbjct: 216 PFVKKQSLDGTEGVGNKNLVLRKIANFLIAIPPLAEQRRIVIKVDELMTLCDQLKIRLTQ 275

Query: 191 FIELLKEKKQALVSYIV 207
             +L ++    LV   V
Sbjct: 276 ARQLNEQLASTLVEQAV 292


>gi|32455436|ref|NP_862551.1| hypothetical protein pSRQ900_03 [Lactococcus lactis]
 gi|14251234|gb|AAC98712.2| HsdS [Lactococcus lactis]
          Length = 396

 Score = 81.4 bits (199), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 56/408 (13%), Positives = 128/408 (31%), Gaps = 43/408 (10%)

Query: 20  AIPK--------HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSR 71
            +P+         W+    K   K ++ R+  +G        E ++ G    +       
Sbjct: 15  KVPELRFKGFTDEWEERKFKDILKTHSFRSYLAGVSEN-GEYEVIQQGDKPIVGYSDGEP 73

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
            +D   V++F  G        P     +  D   I S                  +L + 
Sbjct: 74  FTDYKDVTLF--GDHTVSLYKPKSPFFVATDGVKILSA-----------DNFEGNYLYTT 120

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
               + E        +    + +                 +KI +   ++D  I      
Sbjct: 121 LERYKPEPQGYKRHFTILKNQDVWFTENMEEQ--------QKIGSFFKQLDDTIALHQHK 172

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           ++LLKE+K+  +  +  K      +++ +G +      +  ++     +       N K 
Sbjct: 173 LDLLKEQKKGFLQKMFPKNGAKVPELRFAGFD---DDWEQRKLGDLAEIKDSARIPNIKW 229

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIV----DPGEIVFRFIDLQNDKRSLRS 307
            +  +  L   ++  +     + L    Y  Y  +      G+++F              
Sbjct: 230 QKEGVPYLRSSDLSSEHIKDGLFLSLADYMKYDKITGSPKKGDLIFASGGDIGLAIYKHD 289

Query: 308 AQVMERGIITSAYMAV-KPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRL 365
           +  +     +  Y+   K   +D  +L +   S  + K      +G   +    +    L
Sbjct: 290 SLPIYVQGGSILYVKTSKCENLDGLFLKYSFASPKVKKYIRNASTGTSLKHFVLKPANAL 349

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           P+  P + EQ  I +++       D  +   ++ + LLKE++  F+  
Sbjct: 350 PMSYPDLIEQEKIGSLLMQM----DRTITLHQRKLDLLKEQKKGFLQK 393


>gi|227541297|ref|ZP_03971346.1| restriction modification system DNA specificity subunit
           [Corynebacterium glucuronolyticum ATCC 51866]
 gi|227182848|gb|EEI63820.1| restriction modification system DNA specificity subunit
           [Corynebacterium glucuronolyticum ATCC 51866]
          Length = 332

 Score = 81.4 bits (199), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 52/350 (14%), Positives = 111/350 (31%), Gaps = 25/350 (7%)

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
           ++S   IF  G +L+  +   + K  I +     +     +Q  D   EL   +     +
Sbjct: 2   NSSAAKIFPAGTLLFS-IFATVGKCSILEIKAATNQAIAGIQISDSNVELPYLYHYLSYL 60

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
             +IE+  +G   ++ + K +  + +P+PPL EQ  I   +                   
Sbjct: 61  RPQIESRAKGVAQNNINLKTLKQLEIPLPPLEEQRRIATILEKANSL--------RNAPP 112

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
             +     +VS  V   L           E    + +  +++       +  +     I 
Sbjct: 113 RTEVHINNIVSQFVENRL-------LRSNEKFVKLSELCDIQSGITKGRKTKKALAAKIP 165

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
              +S      +   + + + +  E  E Y +     ++    D     R       +  
Sbjct: 166 YLAVSNVKDGYLDLSKVKEIEVTNEEIEKYALHKGDILLTEGGDPDKLGRGCLWNDEIPN 225

Query: 314 GIITSAYMAVKPHG---IDSTYLAWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVL 368
            +  +    V+      I +  L  ++ S +L   F      +    S+    +    + 
Sbjct: 226 CLHQNHIFRVRLKDKQAIPANVLMAILSSKELKSYFLKSAKQTTGIASINRTQLSNASIP 285

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           +   +    I   I+      + L+       +LL E   S  A A TG+
Sbjct: 286 ILDNET---IAE-IDCLLFMCEKLMATNTSRTLLLDELIQSLSARAFTGE 331



 Score = 47.9 bits (112), Expect = 0.003,   Method: Composition-based stats.
 Identities = 30/201 (14%), Positives = 60/201 (29%), Gaps = 19/201 (9%)

Query: 26  KVVPIKRFTKLNTGRTSESGKD------IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           K V +     + +G T            I Y+ + +V+ G             ++     
Sbjct: 136 KFVKLSELCDIQSGITKGRKTKKALAAKIPYLAVSNVKDGYLDLSKVKEIEVTNEEIEKY 195

Query: 80  IFAKGQILYGKLGP---YLRKAIIADFDGICSTQFLVLQPKDVL------PELLQGWLLS 130
              KG IL  + G      R  +  D    C  Q  + + +           L+      
Sbjct: 196 ALHKGDILLTEGGDPDKLGRGCLWNDEIPNCLHQNHIFRVRLKDKQAIPANVLMAILSSK 255

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
              +  +++  +   ++  +   + N  +PI           +I       + L+     
Sbjct: 256 ELKSYFLKSAKQTTGIASINRTQLSNASIPILD----NETIAEIDCLLFMCEKLMATNTS 311

Query: 191 FIELLKEKKQALVSYIVTKGL 211
              LL E  Q+L +   T  L
Sbjct: 312 RTLLLDELIQSLSARAFTGEL 332


>gi|224456728|ref|ZP_03665201.1| hypothetical protein FtultM_02792 [Francisella tularensis subsp.
           tularensis MA00-2987]
 gi|282158820|gb|ADA78211.1| hypothetical protein NE061598_02955 [Francisella tularensis subsp.
           tularensis NE061598]
          Length = 401

 Score = 81.4 bits (199), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 56/388 (14%), Positives = 124/388 (31%), Gaps = 32/388 (8%)

Query: 44  SGKDIIYIGLEDVES---------GTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPY 94
           S  +I ++ ++D ES         G G Y+ +  N ++             + + K+   
Sbjct: 2   SKANIEWVKIQDKESYPILGVRGQGQGVYINRIANGKELTMKKYQKSEPYHLFFCKVRTV 61

Query: 95  LRKAI-----IADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHA 149
             +        A+     + Q+L +    +LPE L+  L    +T   +    GA   H 
Sbjct: 62  KGQWGVVYPEYANSYASSNMQYLKIDLDKILPEYLEMLLKLKKITDIWDKNAIGADGRHF 121

Query: 150 DWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL--VSYIV 207
             K +  + +P+PP+  Q  I +    +    + L     +    +++   A   +    
Sbjct: 122 PLKILLTLQIPLPPIEIQKQIVQAYEDKINLANQLEQRAEKLEAKIEKYLYAKLGIEQAQ 181

Query: 208 TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNT-------------KLIES 254
            +  +    +K    E +      +  +                                
Sbjct: 182 EQKQDKKGLLKFVRFEQLQRWDTDFFKQKEGYSSKYETVSYEDLFVSLNNGIAARNYASD 241

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
            I  L   +I       +       Y+   +++ G ++        +   L   +     
Sbjct: 242 GIRYLKVSDIKDNYINNDKPFYVNKYKESDLIEKGTLLITRKGTVGNSYYL--DKDGSFV 299

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIK 373
             +  ++      ++  YL+ +  S  + K +    +G    SL    +K + + +PP+K
Sbjct: 300 ASSEIFIIKLNDKVNGNYLSEINLSSFVKKQYREKSTGTIMPSLSQPKLKSILIPLPPLK 359

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIV 401
            Q  I   I      I  L ++ EQ+  
Sbjct: 360 IQNHIAVRIQKLKDYIKALEQQAEQNRE 387



 Score = 53.3 bits (126), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 20/141 (14%), Positives = 47/141 (33%), Gaps = 2/141 (1%)

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQ-NDKRSLRSAQVMERGIITSAYMAVKPH 326
              R    K  + + YQ  +P  + F  +         +              Y+ +   
Sbjct: 30  YINRIANGKELTMKKYQKSEPYHLFFCKVRTVKGQWGVVYPEYANSYASSNMQYLKIDLD 89

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
            I   YL  L++   +  ++     G   +    + +  L + +PPI+ Q  I      +
Sbjct: 90  KILPEYLEMLLKLKKITDIWDKNAIGADGRHFPLKILLTLQIPLPPIEIQKQIVQAYEDK 149

Query: 386 TARIDVLVEKIEQSIVLLKER 406
               + L ++ E+    +++ 
Sbjct: 150 INLANQLEQRAEKLEAKIEKY 170


>gi|220932853|ref|YP_002509761.1| restriction modification system DNA specificity domain protein
           [Halothermothrix orenii H 168]
 gi|219994163|gb|ACL70766.1| restriction modification system DNA specificity domain protein
           [Halothermothrix orenii H 168]
          Length = 565

 Score = 81.4 bits (199), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 50/316 (15%), Positives = 100/316 (31%), Gaps = 17/316 (5%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVESGTGKYLP---KDGN 69
            +P+ W+ V +    ++  G T ++         +I ++   D+     KY+    ++  
Sbjct: 81  ELPESWEWVRLGNIGRIVGGGTPKTKVHAYWENGNIAWLTPADLNGLKSKYISRGRRNIT 140

Query: 70  SRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
                 S+  +  KG +L+    P      IA  D   +  F    P  +       + L
Sbjct: 141 KLGLQNSSAKLLPKGSVLFSSRAPI-GYVAIAQNDLATNQGFKSCVPYIMDMNQYIYYFL 199

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
             D  +  +    G T      K + N   P+PPL EQ  I  K+       D L     
Sbjct: 200 MYDAKRINDNA-SGTTFKEVSGKEVANFIFPLPPLNEQKRIVNKLDELMTFCDQLEVSLE 258

Query: 190 RFIELLKEKKQALVSYIV----TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN 245
           +     +   +++ + I      + L+ ++      ++ V   P++        L   + 
Sbjct: 259 KKANAKQLVSKSISNRIQKSKSKEELDKNITFIIRNLKEVYTTPENLNDLKDIILQLAIQ 318

Query: 246 RKNTKLIESNILSLSYGNIIQKLETR-NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
            K       +  +      I K + R     K    +    +   EI F         R 
Sbjct: 319 GKLVPQDPDDEPASVLIEKINKEKERLIKEKKIRKTKPLPPIKEAEIPFELPKGWEWVRL 378

Query: 305 LRSAQVMERGIITSAY 320
                + +R  +    
Sbjct: 379 GEIMIINQRNKLNDNL 394



 Score = 80.6 bits (197), Expect = 4e-13,   Method: Composition-based stats.
 Identities = 24/186 (12%), Positives = 51/186 (27%), Gaps = 7/186 (3%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
             E    +P+ WE      +   +     K              +   +   +  K  S 
Sbjct: 75  EEEIPFELPESWEWVRLGNIGRIVGGGTPKTKVHAYWENGNIAWLTPADLNGLKSKYISR 134

Query: 281 ETYQIVDPGE-------IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL 333
               I   G        +    +   +       A           + +  P+ +D    
Sbjct: 135 GRRNITKLGLQNSSAKLLPKGSVLFSSRAPIGYVAIAQNDLATNQGFKSCVPYIMDMNQY 194

Query: 334 AWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
            +    YD  ++         + +  ++V      +PP+ EQ  I N ++      D L 
Sbjct: 195 IYYFLMYDAKRINDNASGTTFKEVSGKEVANFIFPLPPLNEQKRIVNKLDELMTFCDQLE 254

Query: 394 EKIEQS 399
             +E+ 
Sbjct: 255 VSLEKK 260



 Score = 71.0 bits (172), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 32/222 (14%), Positives = 73/222 (32%), Gaps = 10/222 (4%)

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK--NTKLIESNILSL 259
           L+     +   P   +K    E    +P  WE      ++    R   N  L  S +   
Sbjct: 345 LIKEKKIRKTKPLPPIK--EAEIPFELPKGWEWVRLGEIMIINQRNKLNDNLEVSFVPMK 402

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS- 318
              +      +    L  E  + Y      ++V   I    + R     + +  G     
Sbjct: 403 LIEDGYLSKHSHKKKLWKEVKKGYTHFKENDLVVAKITPCFENRKSAIMKNLYSGYGAGT 462

Query: 319 ---AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIK 373
                +      ID  +  +++++ +      +  +G   +Q ++ + ++   + +PP+ 
Sbjct: 463 TELHVLTSYLKEIDMKFFLYIVKAKNFINQGVSTFTGTAGQQRIRKDFIENFVIGLPPLN 522

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           EQ  I   I+   A  ++L  +I ++    +    S      
Sbjct: 523 EQKQIVKKIDKLMALCNLLENQINKNRNNSELLMKSLQRKLF 564



 Score = 64.4 bits (155), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 29/216 (13%), Positives = 72/216 (33%), Gaps = 11/216 (5%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT 60
           ++  K  P  K++ + +   +PK W+ V +     +N         ++ ++ ++ +E G 
Sbjct: 351 IRKTKPLPPIKEAEIPF--ELPKGWEWVRLGEIMIINQRNKLNDNLEVSFVPMKLIEDGY 408

Query: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGP--------YLRKAIIADFDGICSTQFL 112
                      +      + F +  ++  K+ P         ++        G      L
Sbjct: 409 LSKHSHKKKLWKEVKKGYTHFKENDLVVAKITPCFENRKSAIMKNLYSGYGAGTTELHVL 468

Query: 113 VLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIR 171
               K++  +     + + +   +  +   G           I N  + +PPL EQ  I 
Sbjct: 469 TSYLKEIDMKFFLYIVKAKNFINQGVSTFTGTAGQQRIRKDFIENFVIGLPPLNEQKQIV 528

Query: 172 EKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
           +KI       + L  +  +     +   ++L   + 
Sbjct: 529 KKIDKLMALCNLLENQINKNRNNSELLMKSLQRKLF 564


>gi|126208116|ref|YP_001053341.1| putative type I restriction system specificity protein
           [Actinobacillus pleuropneumoniae L20]
 gi|126096908|gb|ABN73736.1| putative type I restriction system specificity protein
           [Actinobacillus pleuropneumoniae serovar 5b str. L20]
          Length = 413

 Score = 81.4 bits (199), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 43/413 (10%), Positives = 121/413 (29%), Gaps = 34/413 (8%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYIGLED-VESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
            +     +  G++  S  D+    + D + +G  ++     +  Q          KG +L
Sbjct: 3   KLGDIADIVMGQSPSSS-DVNMERIGDPLLNGPTEFTSFYPSPVQYTEKGKKFAEKGDLL 61

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMS 147
           +   G    +   AD           ++ K+  P      L+  D  +RI     G+T  
Sbjct: 62  FCVRGSTTGRINFADQKYAIGRGLAAIRGKNGYPT-KFIELILKDCLERILQSATGSTFP 120

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV---- 203
           +     + ++ +    L E + I + +     +I           ++ +   ++      
Sbjct: 121 NVSQAMLLDLDIGDFSLPEAIKIADILGIIDHKIHLNTQTNQTLEQIAQAIFKSWFVDFE 180

Query: 204 -SYIVTKGLNPDVKMKDSGI--EWVG-----LVPDHWEVKPFFALVTELNRKNTKLIESN 255
                 +G N  V    SG   E +         ++ ++        +   ++   +   
Sbjct: 181 PVKAKMQGGNLAVMEAISGKNSEELHRLQTENPTEYQKLWAIADAFPDEIGEDGIPVGWE 240

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIV-----------FRFIDLQNDKRS 304
            + L     I     +N+ +K      Y +     I+              +  +     
Sbjct: 241 NVYLKDVCNIVYG--KNLPIKKLQEFGYPVFGGNGIIGFYEKFLYEEPHTLVSCRGAASG 298

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKR 364
                     +  ++ +        S    ++  +  +  +        +  +   ++  
Sbjct: 299 KVMYSQPYSFVTNNSLVIEHSKSFLS--YFYIYEALRIQTLVELTTGSAQPQMTIANMNP 356

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
           + +++P       I N+   +   +   + +       L++ R   +   + G
Sbjct: 357 VQIILPT----DKIHNLYTSQVKYLYEKIYRNNLENEQLEKIRDELLPKLLNG 405



 Score = 54.0 bits (128), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 24/198 (12%), Positives = 60/198 (30%), Gaps = 18/198 (9%)

Query: 18  IGA--IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           IG   IP  W+ V +K    +  G+     K   +       +G   +  K         
Sbjct: 230 IGEDGIPVGWENVYLKDVCNIVYGKNLPIKKLQEFGYPVFGGNGIIGFYEK--------- 280

Query: 76  STVSIFAKGQILYGKLGPYLRKAII-ADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
               ++ +   L    G    K +    +  + +   ++   K  L      ++      
Sbjct: 281 ---FLYEEPHTLVSCRGAASGKVMYSQPYSFVTNNSLVIEHSKSFLS---YFYIYEALRI 334

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           Q +  +  G+         +  + + +P      L   ++     +I     E  +  ++
Sbjct: 335 QTLVELTTGSAQPQMTIANMNPVQIILPTDKIHNLYTSQVKYLYEKIYRNNLENEQLEKI 394

Query: 195 LKEKKQALVSYIVTKGLN 212
             E    L++  +   ++
Sbjct: 395 RDELLPKLLNGDLCNTMD 412


>gi|326334515|ref|ZP_08200726.1| type I restriction enzyme EcoR124II specificity protein
           [Capnocytophaga sp. oral taxon 338 str. F0234]
 gi|325693284|gb|EGD35212.1| type I restriction enzyme EcoR124II specificity protein
           [Capnocytophaga sp. oral taxon 338 str. F0234]
          Length = 395

 Score = 81.4 bits (199), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 52/398 (13%), Positives = 115/398 (28%), Gaps = 39/398 (9%)

Query: 27  VVPIKRFTKLNT-----GRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
             P+    +         ++S          L   ++    Y  +     ++  S V IF
Sbjct: 22  WKPLGEIAEYEQPTKYLVKSSNYKDIYPTPVLTAGKTFILGYTDETEGIYKASISPVIIF 81

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
                       +       DFD    +  + +       E+L  ++     T   E I 
Sbjct: 82  ----------DDFTTANKWVDFDFKAKSSAMKMITSKNEKEVLLKYIYYWLNTLPSELIE 131

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
                          IP  +PPL+ Q  I   +   T          +   +   E  + 
Sbjct: 132 GDHKRQWISNYANKKIP--LPPLSVQQEIVRILDKFTQL-----EAELDCRKRQYEYYRN 184

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
            +      G   ++  K      +G V                +                
Sbjct: 185 KLLTFNEIGGGTEIVWKT-----LGEVGTFIRGNGLQKKDLITSGVPAIHYGQIYTYYGI 239

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY- 320
                 +E     +  E+ E  + VD G+++        D      A  ++   +T  + 
Sbjct: 240 S-----VEQTISFVSRETAEGLRKVDYGDVIITNTSENIDDVGKAVAYCVKEQGVTGGHA 294

Query: 321 -MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS-LKFEDVKRLPVLVPPIKEQFDI 378
            +      I   YL +  ++ +          G +   +   D+ ++ + +PP+ EQ  I
Sbjct: 295 TIFKPSEKIIGKYLVYYTQTTEFSNQKRKYAKGTKVIDISANDLTKITIPLPPLSEQQRI 354

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
             +++     ++ + E + + I L ++     R   ++
Sbjct: 355 ATILDKFDTLVNSISEGLPKEIALRRKQYEYYRERLLS 392


>gi|294339002|emb|CAZ87347.1| putative type I restriction-modification (R-M) system HsdS
           [Thiomonas sp. 3As]
 gi|294341829|emb|CAZ90258.1| putative type I restriction-modification (R-M) system HsdS
           [Thiomonas sp. 3As]
          Length = 428

 Score = 81.4 bits (199), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 57/437 (13%), Positives = 134/437 (30%), Gaps = 51/437 (11%)

Query: 24  HWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQS-DTS 76
            W   P+    +  T     +       + + ++   +V             SR   D  
Sbjct: 4   EWVPRPLSEVAREITVGFVGTMADQYVAEGVPFLRSLNVRPFEIDLGDVKYISRDFHDRL 63

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIAD--FDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
             S    G ++  + G     A+++D   +  CS   +V   ++ L      + ++    
Sbjct: 64  RKSALRPGDVVIVRTGKPGTCAVVSDALPEANCSDVVIVRCGEE-LNPHFLSYWVNAMAA 122

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             + A   GA   H +      + +P+PPL+ Q  +   ++A   RID L         +
Sbjct: 123 SHVTAHTVGAVQQHFNVASAKLLRLPVPPLSVQDEVLAPLLAIDRRIDLLRQTNATLEAI 182

Query: 195 LKEKKQALV-----SYIVTKGLNPDVK------MKDSGIEW--VGLVPDHWEVKPFFALV 241
            +   ++            +G  P+        +  S  E   +G +P  W V+   +  
Sbjct: 183 AQALFKSWFIDFDPVRAKAEGREPEGMDAATAALFPSEFEESALGEIPKGWGVRSLDSFA 242

Query: 242 TE----LNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID 297
                   +K     +   L +     ++   T          +   IV  G+++F +  
Sbjct: 243 NYLNGLAMQKFPPESDEEYLPVIKIAQLRAGNTSGADRASSRLKPDYIVRDGDVLFSWSG 302

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC---KVFYAMGSGLR 354
                           G +      V    +      + + +       +   A  +   
Sbjct: 303 SLE-----VELWCGGNGALNQHLFKVTSSKV--PKWFYYLATKQFLPTFREIAAHKATTM 355

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL--KER---RSS 409
             ++   +    V +P  +       V++   + +   +    + I  L  +E    R +
Sbjct: 356 GHIQRVHLMEASVAMPAPE-------VLDAL-SPLMRSI-LERRVIGALHARELAAVRDA 406

Query: 410 FIAAAVTGQIDLRGESQ 426
            +   ++G++ L    +
Sbjct: 407 LLPRLISGKLRLPEAEE 423



 Score = 54.8 bits (130), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 24/144 (16%), Positives = 41/144 (28%), Gaps = 11/144 (7%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTG----RTSESGKD--IIYIGLEDVESGTGKYLPKDGNSR 71
           +G IPK W V  +  F     G    +      +  +  I +  + +G         +  
Sbjct: 226 LGEIPKGWGVRSLDSFANYLNGLAMQKFPPESDEEYLPVIKIAQLRAGN----TSGADRA 281

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
            S      I   G +L+   G  L   +    +G  +     +    V            
Sbjct: 282 SSRLKPDYIVRDGDVLFSWSGS-LEVELWCGGNGALNQHLFKVTSSKVPKWFYYLATKQF 340

Query: 132 DVTQRIEAICEGATMSHADWKGIG 155
             T R  A  +  TM H     + 
Sbjct: 341 LPTFREIAAHKATTMGHIQRVHLM 364


>gi|217033075|ref|ZP_03438541.1| hypothetical protein HPB128_179g1 [Helicobacter pylori B128]
 gi|298737197|ref|YP_003729727.1| putative type I restriction enzyme specificity subunit
           [Helicobacter pylori B8]
 gi|216945196|gb|EEC23883.1| hypothetical protein HPB128_179g1 [Helicobacter pylori B128]
 gi|298356391|emb|CBI67263.1| putative type I restriction enzyme (specificity subunit)
           [Helicobacter pylori B8]
          Length = 252

 Score = 81.4 bits (199), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 22/160 (13%), Positives = 51/160 (31%), Gaps = 5/160 (3%)

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
           N I         +K  ++    +     ++        D   L +       ++      
Sbjct: 94  NSIDIDGNLKNTMKRVNFYDNSLKQDDIVMVLSDVAHGDFLGLCAVIPSNDYVLNQRMGR 153

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNV 381
           ++        L   +      K F   G G  + +L  + ++   + +PP+ EQ  I N+
Sbjct: 154 LRIRNDCINILFLRLYINANQKYFKMQGQGSSQLNLSKKAIEDFEIPLPPLNEQIAIANI 213

Query: 382 INVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           ++     I  L  K  Q        + +     ++ +I +
Sbjct: 214 LSALDHEIASLKNKKRQ----FDNIKKALNHDLMSAKIRV 249



 Score = 49.8 bits (117), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 35/190 (18%), Positives = 69/190 (36%), Gaps = 16/190 (8%)

Query: 25  WKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVES-GTGKYLPKDGNSRQSDTSTVS 79
           W+ V +    +   G   E+      D   I L  ++  G  K   K  N   +      
Sbjct: 61  WQRVRLGDICEFGNGEAYETLIVENGDFKLISLNSIDIDGNLKNTMKRVNFYDNS----- 115

Query: 80  IFAKGQILYGKLGPYLR-----KAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
              +  I+               A+I   D + + +   L+ ++    +L   L      
Sbjct: 116 -LKQDDIVMVLSDVAHGDFLGLCAVIPSNDYVLNQRMGRLRIRNDCINILFLRLYINANQ 174

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           +  +   +G++  +   K I +  +P+PPL EQ+ I   + A    I +L  ++ +F  +
Sbjct: 175 KYFKMQGQGSSQLNLSKKAIEDFEIPLPPLNEQIAIANILSALDHEIASLKNKKRQFDNI 234

Query: 195 LKEKKQALVS 204
            K     L+S
Sbjct: 235 KKALNHDLMS 244


>gi|302331824|gb|ADL22017.1| restriction endonuclease S subunit, HsdS [Staphylococcus aureus
           subsp. aureus JKD6159]
          Length = 410

 Score = 81.4 bits (199), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 58/430 (13%), Positives = 135/430 (31%), Gaps = 60/430 (13%)

Query: 26  KVVPIKRFTKLNTGRTSES---GKDIIYIGLEDVESGTGKYLPKDG-NSRQSDTSTVSIF 81
           +   +     +++G +      G    ++  +DV           G    +         
Sbjct: 4   ETFNLTDLYTISSGLSKNRKYFGTGTPFLTFKDVFDNLILPNEFSGQVITEEKEREKYSV 63

Query: 82  AKGQILYGKLGPYLR-----KAIIADFDGICSTQFLV------LQPKDVLPELLQGWLLS 130
            KG +   +              + D+       F             +LP     +  S
Sbjct: 64  KKGDLFLTRTSEKQNELGISAVALKDYKNATFNGFTKRLRPNKYCENKLLPVFAAFYFRS 123

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
            +   ++ ++   +T +  + + I  + + IP L  Q+ I   ++A   +         +
Sbjct: 124 NNFRNQVNSMSIMSTRASLNNEMISKLKITIPSLQNQMKISHILLALLKK----EKINQK 179

Query: 191 FIELLKEKKQALVSYIVTKGLNPD---VKMKDSGIE----WVGLVPDHWEVKPFFALVTE 243
            I  L+E  Q L          PD      K SG E     +G +P  W+V      +  
Sbjct: 180 IIANLEELSQTLFKRWFVDFEFPDENGNPYKSSGGEMVDSELGKIPRSWKVDELGNYIKI 239

Query: 244 LNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKR 303
            + K                       +N   K +      I+   +IV    D   +++
Sbjct: 240 KSGKRP---------------------KNKVDKEDIENVVPIIGASKIVGYTNDYLYNEK 278

Query: 304 SLRSAQVMERGIITSAYMAVKPHGID----STYLAWLMRSYDLCKVFYAMGSGLRQSLKF 359
            +   +V   G+I        P        S + + + +               +  L  
Sbjct: 279 IIIIGRVGTHGVIQRFSTRTWPSDNTFVITSDFESIIYQVLKSIDYISLNRGSTQPLLSQ 338

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI---VLLKERRSSFIAAAVT 416
           +D+K   V++P          +++    + + +++ ++Q I     L + R + +   ++
Sbjct: 339 KDIKNTKVVMPTN------ATLLSKYQKKNNHILKMMDQKIIENKKLTQLRDTLLPKLMS 392

Query: 417 GQIDLRGESQ 426
           G+I++  + +
Sbjct: 393 GEIEIPDDIE 402



 Score = 49.8 bits (117), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 29/199 (14%), Positives = 64/199 (32%), Gaps = 15/199 (7%)

Query: 10  YKDSGVQW----IGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLP 65
           YK SG +     +G IP+ WKV  +  + K+ +G+  ++  D      ED+E+     +P
Sbjct: 209 YKSSGGEMVDSELGKIPRSWKVDELGNYIKIKSGKRPKNKVDK-----EDIEN----VVP 259

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ 125
             G S+    +   ++ +  I+ G++G +      +         F++    D    + Q
Sbjct: 260 IIGASKIVGYTNDYLYNEKIIIIGRVGTHGVIQRFSTRTWPSDNTFVI--TSDFESIIYQ 317

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
                  ++    +     +        +            Q      +     +I    
Sbjct: 318 VLKSIDYISLNRGSTQPLLSQKDIKNTKVVMPTNATLLSKYQKKNNHILKMMDQKIIENK 377

Query: 186 TERIRFIELLKEKKQALVS 204
                   LL +     + 
Sbjct: 378 KLTQLRDTLLPKLMSGEIE 396


>gi|157737949|ref|YP_001490633.1| Type I restriction-modification system specificity determinant
           [Arcobacter butzleri RM4018]
 gi|157699803|gb|ABV67963.1| Type I restriction-modification system specificity determinant
           [Arcobacter butzleri RM4018]
          Length = 448

 Score = 81.4 bits (199), Expect = 3e-13,   Method: Composition-based stats.
 Identities = 64/413 (15%), Positives = 120/413 (29%), Gaps = 33/413 (7%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           K +++V I  F K N  +      +  Y  +       G +L      +   T       
Sbjct: 30  KDFELVKIGTFLKRNKTQIIV-DDNTTYKRVTIKLYNNGVFLRDTEIGKNIGTKKQFSIK 88

Query: 83  KGQILYGKLGPYLRKAIIADFD---GICSTQFLVLQ--PKDVLPELLQGWLLSIDVTQRI 137
           +GQ L  K+        IA  +    I +  FL        + P+ L     +    Q  
Sbjct: 89  EGQFLLSKIDARNGAFGIATNEVDGAIITADFLAFDIDTSKINPDFLVLITTTKKFMQFA 148

Query: 138 EAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           ++   G T     D     N  +P+P L  Q  I E    +         +     + ++
Sbjct: 149 QSASSGTTGRQRIDESKFLNTKIPLPKLDIQKQIVENYQNKINLASEQGQKAENLEKNIE 208

Query: 197 EKKQALV-----------SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN 245
           E     +              V K +     +   G E    +           L+   N
Sbjct: 209 EYLYTELGIIKLEILTKDESSVLKFVTFKDMINCWGYENNNQIKIESTKYKVLKLINICN 268

Query: 246 RKN---------TKLIESNILSLSYGNIIQKLETRNMGLKPES---YETYQIVDPGEIVF 293
             +            I   I  +  G +   L         E        +I     ++ 
Sbjct: 269 IGSGGTPSRNYPNYYINGTIPWIKTGEVRDALILNTEESITEEALQNSNAKIYPKDSLIV 328

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL 353
                   + +    +          +         +    +LM   +  K+        
Sbjct: 329 AMYGATAGRTAKLGIEASTNQACAILHNFDLNKININFIWFYLMTQLENFKLL--TSGSA 386

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL-LKE 405
           + +L  + +K   + +PPI+ Q  I N I +    I +L E+ E++  L L+E
Sbjct: 387 QPNLNADKIKNYQIPIPPIEMQNKIANNIEILKNEIKILNEQSEKNKKLALEE 439



 Score = 53.3 bits (126), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 18/134 (13%), Positives = 39/134 (29%), Gaps = 3/134 (2%)

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
           K    +    +  G+ +   ID +N    + + +V    I              +     
Sbjct: 77  KNIGTKKQFSIKEGQFLLSKIDARNGAFGIATNEVDGAIITADFLAFDIDTSKINPDFLV 136

Query: 336 LMRSYDLCKVFY---AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
           L+ +      F    + G+  RQ +         + +P +  Q  I      +       
Sbjct: 137 LITTTKKFMQFAQSASSGTTGRQRIDESKFLNTKIPLPKLDIQKQIVENYQNKINLASEQ 196

Query: 393 VEKIEQSIVLLKER 406
            +K E     ++E 
Sbjct: 197 GQKAENLEKNIEEY 210


>gi|303253790|ref|ZP_07339925.1| Type I restriction-modification system, S subunit [Actinobacillus
           pleuropneumoniae serovar 2 str. 4226]
 gi|302647374|gb|EFL77595.1| Type I restriction-modification system, S subunit [Actinobacillus
           pleuropneumoniae serovar 2 str. 4226]
          Length = 302

 Score = 81.4 bits (199), Expect = 3e-13,   Method: Composition-based stats.
 Identities = 27/211 (12%), Positives = 62/211 (29%), Gaps = 13/211 (6%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
           S  ++   +P  W       L   +     K  E +  +      I   + + +  K  S
Sbjct: 63  SQQDFPFEIPKSWVWVRLDFLGEIIGGGTPKTNEDDNWNKGSIPWITPADMKYISGKYIS 122

Query: 280 YETYQIVDPGE-------IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
                I + G        +    I   +       A           + ++  +  +   
Sbjct: 123 KGNRNITENGLRSSSTRLLSKNSIVYSSRAPIGYIAITETELCTNQGFKSIDLYNKEIVD 182

Query: 333 LAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
             +    Y   ++         + +         + +PP+ EQ  I   I      I+  
Sbjct: 183 YLYYSLIYFTPEIQSRASGTTFKEISGTAFGNTIIPLPPLNEQKRIVAKIEELLPYIEQY 242

Query: 393 VEKIEQSIVLL-----KERRSSFIAAAVTGQ 418
             + E+ +  L     ++ + S + AA+ G+
Sbjct: 243 -AEKEEKLTALHQQFPEQLKKSILQAAIQGK 272



 Score = 78.3 bits (191), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 41/211 (19%), Positives = 79/211 (37%), Gaps = 16/211 (7%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPK---DGN 69
            IPK W  V +    ++  G T ++ +D       I +I   D++  +GKY+ K   +  
Sbjct: 70  EIPKSWVWVRLDFLGEIIGGGTPKTNEDDNWNKGSIPWITPADMKYISGKYISKGNRNIT 129

Query: 70  SRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
                +S+  + +K  I+Y    P      I + +   +  F  +   +    +   +  
Sbjct: 130 ENGLRSSSTRLLSKNSIVYSSRAPI-GYIAITETELCTNQGFKSIDLYNKE-IVDYLYYS 187

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
            I  T  I++   G T         GN  +P+PPL EQ  I  KI      I+    +  
Sbjct: 188 LIYFTPEIQSRASGTTFKEISGTAFGNTIIPLPPLNEQKRIVAKIEELLPYIEQYAEKEE 247

Query: 190 RFIELLKEKK----QALVSYIVTKGLNPDVK 216
           +   L ++      ++++   +   L     
Sbjct: 248 KLTALHQQFPEQLKKSILQAAIQGKLTKQDP 278


>gi|119510903|ref|ZP_01630026.1| type I restriction-modification system, M subunit, putative
           [Nodularia spumigena CCY9414]
 gi|119464431|gb|EAW45345.1| type I restriction-modification system, M subunit, putative
           [Nodularia spumigena CCY9414]
          Length = 471

 Score = 81.4 bits (199), Expect = 3e-13,   Method: Composition-based stats.
 Identities = 24/156 (15%), Positives = 56/156 (35%), Gaps = 10/156 (6%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKD--------IIYIGLEDVESGTG 61
            KDSG++W+G IP HW+V+ +K  TK+  G+ +   ++          +I   DV +   
Sbjct: 283 MKDSGIEWLGKIPNHWEVIKVKHLTKILRGKFTHRPRNDPRFYDGQYPFIQTGDVANANK 342

Query: 62  KYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP 121
             +       ++  +    F  G ++   +   +    I +F+       +   P  +  
Sbjct: 343 FIMEYTQTLNENGYAVSKEFPSGTLVMT-IAANIGDMAILNFNACFPDSIVGFLPSKMTD 401

Query: 122 ELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNI 157
            +   + L   + ++          +   +      
Sbjct: 402 -IFFLYHLFSSMKKQFFRTYAITLCNPLSFVSFAFF 436



 Score = 59.4 bits (142), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 44/168 (26%), Positives = 63/168 (37%), Gaps = 14/168 (8%)

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKP-------FFAL 240
           +   IE L EK+ AL+S+ VTKGL+P V MKDSGIEW+G +P+HWEV             
Sbjct: 254 QEYNIEKLDEKRTALISHAVTKGLDPSVPMKDSGIEWLGKIPNHWEVIKVKHLTKILRGK 313

Query: 241 VTELNRKNTKLIESNILSLSYG---NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID 297
            T   R + +  +     +  G   N  + +      L    Y   +    G +V     
Sbjct: 314 FTHRPRNDPRFYDGQYPFIQTGDVANANKFIMEYTQTLNENGYAVSKEFPSGTLVMTIAA 373

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV 345
              D   L         I+      +     D  +L  L  S      
Sbjct: 374 NIGDMAILNFNACFPDSIVG----FLPSKMTDIFFLYHLFSSMKKQFF 417


>gi|300114418|ref|YP_003760993.1| restriction modification system DNA specificity subunit
           [Nitrosococcus watsonii C-113]
 gi|299540355|gb|ADJ28672.1| restriction modification system DNA specificity subunit
           [Nitrosococcus watsonii C-113]
          Length = 557

 Score = 81.4 bits (199), Expect = 3e-13,   Method: Composition-based stats.
 Identities = 22/158 (13%), Positives = 57/158 (36%), Gaps = 4/158 (2%)

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
           I     R++ L     + Y++     +  R     N    +   +          ++  +
Sbjct: 338 IDGSNLRSIKLDDIEIQKYELSRNDLLCIRVNGSPNLVGRMILFKHDNVMAYCDHFIRFR 397

Query: 325 PHG--IDSTYLAWLMRSYDLCKVF--YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
                +  +Y+  L  +  + +      + S  + ++    +  L +    + EQ  I +
Sbjct: 398 FSQGVVLPSYIQMLFDTQIVRRYIELNKVSSAGQNTVSQTTISALAIPYCSLMEQKIIVS 457

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            +  +   I  +  +IE+++  L+  R S +  A +GQ
Sbjct: 458 RLEEQLTAISAVKAEIERNLQRLESLRQSILKKAFSGQ 495



 Score = 76.4 bits (186), Expect = 8e-12,   Method: Composition-based stats.
 Identities = 24/91 (26%), Positives = 43/91 (47%), Gaps = 2/91 (2%)

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
             + YL +  +S  + +     GS   ++LKF D  R+ V +PP+ EQ  I   I    +
Sbjct: 131 YLNNYLRYFYKSGKVVRY--QAGSNNLRNLKFNDYLRISVPLPPLNEQQRIVAKIEELFS 188

Query: 388 RIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            +D  +E ++ +   LK  R + +  A  G+
Sbjct: 189 ELDKGIESLKTAREQLKVYRQAVLKHAFEGK 219



 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 34/207 (16%), Positives = 66/207 (31%), Gaps = 12/207 (5%)

Query: 22  PKHWKVVPIKRFTKL-NTGRTSE---SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           P  W  + ++   +    G       SGK I  I L DV++                   
Sbjct: 295 PNGWISIQLRELFESAQNGLAKREGISGKPIPVIRLADVKNQEIDGSNLRSIKLDDIEIQ 354

Query: 78  VSIFAKGQILYGKLGPYLRKAI------IADFDGICSTQFLVLQPK-DVLPELLQGWLLS 130
               ++  +L  ++                +    C         +  VLP  +Q    +
Sbjct: 355 KYELSRNDLLCIRVNGSPNLVGRMILFKHDNVMAYCDHFIRFRFSQGVVLPSYIQMLFDT 414

Query: 131 IDVTQRIE-AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
             V + IE      A  +      I  + +P   L EQ +I  ++  +   I  +  E  
Sbjct: 415 QIVRRYIELNKVSSAGQNTVSQTTISALAIPYCSLMEQKIIVSRLEEQLTAISAVKAEIE 474

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVK 216
           R ++ L+  +Q+++    +  L P   
Sbjct: 475 RNLQRLESLRQSILKKAFSGQLVPQDP 501


>gi|158335388|ref|YP_001516560.1| type I restriction-modification system S subunit [Acaryochloris
           marina MBIC11017]
 gi|158305629|gb|ABW27246.1| type I restriction-modification system S subunit [Acaryochloris
           marina MBIC11017]
          Length = 573

 Score = 81.4 bits (199), Expect = 3e-13,   Method: Composition-based stats.
 Identities = 31/210 (14%), Positives = 69/210 (32%), Gaps = 16/210 (7%)

Query: 221 GIEWVGLVPDHWEVKP---FFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK- 276
            +E    +P  W           + +   +  K  E+   ++   +I       +   K 
Sbjct: 371 EVEQPFQIPRSWTWVRVETICTHIVDCLHRTPKYQENGYPAIRTSDIQPGKILVDQARKV 430

Query: 277 ----PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
                ++     I   G+I +      N   +       E  +            ID  +
Sbjct: 431 GIEEYQTQTQRLIPQEGDIFYSREG--NFGIAAVVPPQCEICLSQRMMQFRVASNIDPYF 488

Query: 333 LAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
            +W+M +  +        +G     +    +K+    +PP  EQ  I   ++      D 
Sbjct: 489 FSWVMNAPVIFNQALNDAAGMTVPHVNIRSLKQFVFPLPPFAEQKRIVIKVDQLMTFCDN 548

Query: 392 LVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           L   + +      + +++ +AAAV GQ+++
Sbjct: 549 LEAHLHE-----TQEKATALAAAVVGQLEV 573



 Score = 66.0 bits (159), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 32/200 (16%), Positives = 68/200 (34%), Gaps = 14/200 (7%)

Query: 227 LVPDHWEVKPFFAL---VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL-----KPE 278
            +P +W +     L   V + + K        I  +   NI  +    +          E
Sbjct: 89  DIPSNWSIAHLIDLSLLVVDCHNKTAPTTFEGIPLIRTTNIRNRQFRFHGMKYVDQDTYE 148

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
            +      +PG+I+F       +   +     +  G   +  + V    +D  ++   + 
Sbjct: 149 FWSRRCFPEPGDIIFTREAPMGEATIIPDGMKVCLG-QRTMLIRVFEQFVDRNFVLLALT 207

Query: 339 SYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
              L K   +   G   + L+ +DV+++ + +PP+ EQ  I   ++   A  D       
Sbjct: 208 EPGLIKRLASNAVGMTVKHLRVKDVEQICLPLPPLAEQKRIVAKVDELMAMCDRYEVSKC 267

Query: 398 QSIVLLKERR----SSFIAA 413
               L  + R     + + A
Sbjct: 268 DRNTLRTKMRASANDALMNA 287



 Score = 66.0 bits (159), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 39/224 (17%), Positives = 76/224 (33%), Gaps = 13/224 (5%)

Query: 20  AIPKHWKVVPIKR----FTKLNTGRTSESGKDIIYIGLEDVESGTGKY--LPKDGNSRQS 73
            IP +W +  +          +      + + I  I   ++ +   ++  +         
Sbjct: 89  DIPSNWSIAHLIDLSLLVVDCHNKTAPTTFEGIPLIRTTNIRNRQFRFHGMKYVDQDTYE 148

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGIC---STQFLVLQPKDVLPELLQGWLLS 130
             S       G I++ +  P     II D   +C    T  + +  + V    +   L  
Sbjct: 149 FWSRRCFPEPGDIIFTREAPMGEATIIPDGMKVCLGQRTMLIRVFEQFVDRNFVLLALTE 208

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
             + +R+ +   G T+ H   K +  I +P+PPLAEQ  I  K+       D     +  
Sbjct: 209 PGLIKRLASNAVGMTVKHLRVKDVEQICLPLPPLAEQKRIVAKVDELMAMCDRYEVSKCD 268

Query: 191 FIELLKEK----KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPD 230
              L  +       AL++    + LN   +      E +   P+
Sbjct: 269 RNTLRTKMRASANDALMNAETDESLNTAWEFVQEHWECLIQEPE 312



 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 34/195 (17%), Positives = 64/195 (32%), Gaps = 8/195 (4%)

Query: 20  AIPKHWKVVPIKRFTKLNTG---RTSE-SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            IP+ W  V ++           RT +        I   D++ G            +   
Sbjct: 377 QIPRSWTWVRVETICTHIVDCLHRTPKYQENGYPAIRTSDIQPGKILVDQARKVGIEEYQ 436

Query: 76  STVSIF--AKGQILYGKLGPYLRKAIIADFDGIC-STQFLVLQPKDVLPELLQGWLLS-I 131
           +        +G I Y + G +   A++     IC S + +  +    +      W+++  
Sbjct: 437 TQTQRLIPQEGDIFYSREGNFGIAAVVPPQCEICLSQRMMQFRVASNIDPYFFSWVMNAP 496

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            +  +      G T+ H + + +     P+PP AEQ  I  K+       D L       
Sbjct: 497 VIFNQALNDAAGMTVPHVNIRSLKQFVFPLPPFAEQKRIVIKVDQLMTFCDNLEAHLHET 556

Query: 192 IELLKEKKQALVSYI 206
            E       A+V  +
Sbjct: 557 QEKATALAAAVVGQL 571


>gi|121610071|ref|YP_997878.1| restriction modification system DNA specificity subunit
           [Verminephrobacter eiseniae EF01-2]
 gi|121554711|gb|ABM58860.1| restriction modification system DNA specificity domain
           [Verminephrobacter eiseniae EF01-2]
          Length = 416

 Score = 81.4 bits (199), Expect = 3e-13,   Method: Composition-based stats.
 Identities = 52/425 (12%), Positives = 122/425 (28%), Gaps = 39/425 (9%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESG------KDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
             W    I    K+  G   +           + +   +   G G  + K          
Sbjct: 3   SEWATATIGDVAKIKHGFAFKGEFFTDEVTPNVLVTPGNFAIGGGFQIGK-PKYYAGPLP 61

Query: 77  TVSIFAKGQILYGKLG------PYLRKAIIADFDGICS------TQFLVLQPKDVLPELL 124
                 +G+++                A +    G+            V   +    + L
Sbjct: 62  DDYALTEGEVVVTMTDLSKASDTLGYAAKVPSVPGVTYWHNQRIGLLQVTDKQRACKDWL 121

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
              + + +    +     G T+ H     I +    +PPL EQ  I E + +   RID L
Sbjct: 122 HYLMRTHEYRAWVVGSASGTTVKHTSPSRIESFSFKLPPLEEQRAIAETLGSLDDRIDNL 181

Query: 185 ITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTEL 244
                    +     ++   + V         M++S    +GL+P  W +  F   +  L
Sbjct: 182 RQTNATLEAIAAALFKS---WFVDFDGVSATDMRES---ELGLIPKGWRIGSFDEAIEIL 235

Query: 245 NRKNT-----KLIESNILSLSYGNIIQKLETRNMGL-KPESYETYQIVDPGEIVFRFIDL 298
                          ++   S  +     +   +   K  +    Q      +      +
Sbjct: 236 GGGTPKTSIADYWSGDVPWFSVVDAPGSGQVFVLDTEKKITALGLQNCSAKLLPEMTTII 295

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSL 357
                  + A       +  +  A++P         +   +    +    +  G    ++
Sbjct: 296 SARGTVGKVAMTGVPMAMNQSCYALRPRQQSGEAFVY-FSTLRFVEHLQRIAHGAVFDTI 354

Query: 358 KFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL-VEKIEQSIVLLKERRSSFIAAAVT 416
             +  K++   +PP +    I     +    ++ + +   + +I  L   R + +   ++
Sbjct: 355 TRDSFKQVTTCLPPDEV---IAGFAEIANPLLERIRINGQQAAI--LAALRDALLPRLIS 409

Query: 417 GQIDL 421
           GQ+ +
Sbjct: 410 GQLRV 414



 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 26/204 (12%), Positives = 58/204 (28%), Gaps = 14/204 (6%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKY 63
            ++S    +G IPK W++       ++  G T ++        D+ +  + D       +
Sbjct: 211 MRESE---LGLIPKGWRIGSFDEAIEILGGGTPKTSIADYWSGDVPWFSVVDAPGSGQVF 267

Query: 64  ---LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL 120
                K   +      +  +  +   +    G    K  +       +     L+P+   
Sbjct: 268 VLDTEKKITALGLQNCSAKLLPEMTTIISARGTV-GKVAMTGVPMAMNQSCYALRPRQQ- 325

Query: 121 PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
                 +  ++   + ++ I  GA            +   +PP        E       R
Sbjct: 326 SGEAFVYFSTLRFVEHLQRIAHGAVFDTITRDSFKQVTTCLPPDEVIAGFAEIANPLLER 385

Query: 181 IDTLITERIRFIELLKEKKQALVS 204
           I     +      L       L+S
Sbjct: 386 IRINGQQAAILAALRDALLPRLIS 409


>gi|91787818|ref|YP_548770.1| restriction endonuclease S subunits-like protein [Polaromonas sp.
           JS666]
 gi|91697043|gb|ABE43872.1| Restriction endonuclease S subunits-like protein [Polaromonas sp.
           JS666]
          Length = 451

 Score = 81.4 bits (199), Expect = 3e-13,   Method: Composition-based stats.
 Identities = 62/438 (14%), Positives = 133/438 (30%), Gaps = 44/438 (10%)

Query: 24  HWKVVPIK----RFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            W+   +K         +      + +   YI +  +++G          S +       
Sbjct: 6   SWQRQTLKAAGISLIDCDHRTPPAANEGYPYIAIPQLKNGHVSLDGVRRISPEDYLEWTK 65

Query: 80  IFAK--GQILYGKLGPYLRKAIIADFDGIC---STQFLVLQPKDVLPELLQGWLLSIDVT 134
                   ++  +       A+I          +   L    K V P+ L+  L   D  
Sbjct: 66  KLKPQTHDVIVVRRCNSGDSALIPPGLECAIGQNLVILRSDGKTVQPQFLRWLLNGPDWW 125

Query: 135 QRIEAICE-GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
           +++      GA       + I N  + IPP+ +Q  I   + A   RI  L         
Sbjct: 126 EQVSKFINVGAVFDSLRCRDIPNFELTIPPIDDQREIAIVLDALDDRIALLREINTTLEA 185

Query: 194 LLKEKKQALVSYI----------VTKGLN-PDVKMKDSGIEW--VGLVPDHWEVKPFFAL 240
           + +   ++               V +G++     +   G E   +GLVP  W V      
Sbjct: 186 IAQALFKSWFVDFDPVRAKMEGRVPEGMDEATAALFPDGFEESELGLVPRGWTVDRLDTW 245

Query: 241 VTE-----LNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRF 295
           ++        +     I   + S+   +I++  +      K  S++ +  +  G ++   
Sbjct: 246 LSVLETGRRPKGGVGGISDGVPSIGAESIVRIGQFDFGKTKYVSHDFFANMKSGALISHD 305

Query: 296 IDLQNDKRSLRSA----------QVMERGIITSAYMAVKPH-GIDSTYLAWLMRSYDLCK 344
           + L  D                    ER  I      ++     +  +L + + S  +  
Sbjct: 306 VLLYKDGGKPGVFLPRVSMFGDDFPFERCGINEHVFRMRLKAPFNQPFLYFWLWSDAVMH 365

Query: 345 VFYAMGS-GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
                G       +   DV+   + VP       + N  +   + +   +    +    L
Sbjct: 366 ELKHRGGKAAIPGINQSDVREQELSVPNAS----VLNRFDELVSPLVGRIFSNAKQAQTL 421

Query: 404 KERRSSFIAAAVTGQIDL 421
              R + +   ++GQ+ L
Sbjct: 422 ATLRDTLLPRLISGQLRL 439



 Score = 58.3 bits (139), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 30/202 (14%), Positives = 57/202 (28%), Gaps = 16/202 (7%)

Query: 218 KDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKP 277
             S + W         +             N       I  L  G++      R      
Sbjct: 1   MSSDVSWQRQTLKAAGISLIDCDHRTPPAANEGYPYIAIPQLKNGHVSLDGVRRISPEDY 60

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
             +         +++        D   +        G      +      +   +L WL+
Sbjct: 61  LEWTKKLKPQTHDVIVVRRCNSGDSALIPPGLECAIG-QNLVILRSDGKTVQPQFLRWLL 119

Query: 338 RSYDLCKVFYA--MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
              D  +          +  SL+  D+    + +PPI +Q +I  V++    R       
Sbjct: 120 NGPDWWEQVSKFINVGAVFDSLRCRDIPNFELTIPPIDDQREIAIVLDALDDR------- 172

Query: 396 IEQSIVLLKERRSSF--IAAAV 415
               I LL+E  ++   IA A+
Sbjct: 173 ----IALLREINTTLEAIAQAL 190


>gi|332076949|gb|EGI87411.1| type I restriction modification DNA specificity domain protein
           [Streptococcus pneumoniae GA17545]
          Length = 424

 Score = 81.4 bits (199), Expect = 3e-13,   Method: Composition-based stats.
 Identities = 60/423 (14%), Positives = 132/423 (31%), Gaps = 64/423 (15%)

Query: 34  TKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
            ++  G +    KD        I +I + D E G           ++S  +      KG 
Sbjct: 2   VEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINNVKEKIKKSGLNKTRFVKKGT 61

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID-VTQRIEAICEGA 144
            L      + R  I+     I      +   ++ L +    ++LS + V  +  ++  GA
Sbjct: 62  FLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYLFYILSSNVVYSQFLSLISGA 121

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK----Q 200
            + + +   + +I +P+PPL+EQ  I E I +   ++D       R  +L KE      +
Sbjct: 122 VVKNLNSDKVASILIPLPPLSEQQRIIEAIESALEKVDEYAESYNRLEQLDKEFPDKLKK 181

Query: 201 ALVSYIVTKGLNPDVKMKDS-----------------------------------GIEWV 225
           +++ Y +   L       +S                                      + 
Sbjct: 182 SILQYAMQGKLVEQDPNDESVEVLLEKIRAEKQKLFEEGKIKKKDLDISIVSQGDDNSYY 241

Query: 226 GLVPDHWEVKPFFALVTELNRKNTKLIE-------SNILSLSYGNIIQKLETRNMGLKPE 278
           G +P +W V     + +     + K  +         I+     N ++     N      
Sbjct: 242 GNIPMNWVVIKIKDIFSMNTGLSYKKGDLSINNKGVRIIRGGNINPLEFSLLDNDYYIDT 301

Query: 279 SY--ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA----VKPHGIDSTY 332
            +       +   +++                     G++   ++      +   I S +
Sbjct: 302 QFISSEQVYLKHNQLITPVSTSLEHIGKFARIDKDYDGVVAGGFIFQLTPFESSEIISKF 361

Query: 333 LAWLMRSYDLCKVFY---AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
           L + + S    K       +      ++    +  L + + P +EQ  IT  +     ++
Sbjct: 362 LLFNLSSPLFYKQLKAITKLSGQALYNIPKTTLSELLIPLAPFEEQELITQKVEKLFEKV 421

Query: 390 DVL 392
           + L
Sbjct: 422 NQL 424



 Score = 77.5 bits (189), Expect = 4e-12,   Method: Composition-based stats.
 Identities = 27/158 (17%), Positives = 59/158 (37%), Gaps = 8/158 (5%)

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
           + +      +K       + V  G  +            L     +  G +    ++   
Sbjct: 37  KYINNVKEKIKKSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLA---ISNYE 93

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
           + ++  YL +++ S  +   F ++ SG   ++L  + V  + + +PP+ EQ  I   I  
Sbjct: 94  NSLNKDYLFYILSSNVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLSEQQRIIEAIES 153

Query: 385 ETARIDVLVEKIEQSIVLLKE----RRSSFIAAAVTGQ 418
              ++D   E   +   L KE     + S +  A+ G+
Sbjct: 154 ALEKVDEYAESYNRLEQLDKEFPDKLKKSILQYAMQGK 191



 Score = 45.6 bits (106), Expect = 0.017,   Method: Composition-based stats.
 Identities = 35/182 (19%), Positives = 72/182 (39%), Gaps = 17/182 (9%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           G IP +W V+ IK    +NTG + +        K +  I   ++       L  D     
Sbjct: 242 GNIPMNWVVIKIKDIFSMNTGLSYKKGDLSINNKGVRIIRGGNINPLEFSLLDNDYYIDT 301

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIA-----DFDGICSTQFLV----LQPKDVLPEL 123
              S+  ++ K   L   +   L           D+DG+ +  F+      +  +++ + 
Sbjct: 302 QFISSEQVYLKHNQLITPVSTSLEHIGKFARIDKDYDGVVAGGFIFQLTPFESSEIISKF 361

Query: 124 LQGWLLSIDVTQRIEAICE--GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
           L   L S    ++++AI +  G  + +     +  + +P+ P  EQ LI +K+     ++
Sbjct: 362 LLFNLSSPLFYKQLKAITKLSGQALYNIPKTTLSELLIPLAPFEEQELITQKVEKLFEKV 421

Query: 182 DT 183
           + 
Sbjct: 422 NQ 423


>gi|282917066|ref|ZP_06324824.1| hypothetical protein SATG_00559 [Staphylococcus aureus subsp.
           aureus D139]
 gi|282319553|gb|EFB49905.1| hypothetical protein SATG_00559 [Staphylococcus aureus subsp.
           aureus D139]
          Length = 370

 Score = 81.4 bits (199), Expect = 3e-13,   Method: Composition-based stats.
 Identities = 52/372 (13%), Positives = 106/372 (28%), Gaps = 26/372 (6%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W+   ++   K+N+G+  +            ++ G        G           +   
Sbjct: 20  EWEEKKLESIIKVNSGKDYK-----------HLDKGDIPVYGTGGYMTSVSEP---LSEI 65

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
             +  G+ G   +  ++        T F     K+     +             +   E 
Sbjct: 66  DAVGIGRKGTINKPYLLEAPFWTVDTLFYCTPKKETDILFILSLFR----KINWKVYDES 121

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
             +     + I  I   +P   EQ  I +       +I+    +     +  K   Q + 
Sbjct: 122 TGVPSLSKQTINKINRFVPTNKEQQKIGKFFSKLDRQIELEEQKLELLQQQKKGYMQKIF 181

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
           S  +           +     +  V                  K    +ES        N
Sbjct: 182 SQELRFKDENGNDYPEWENVMLQKVLKDKTEG-IKRGPFGGALKKDIFVESGYAVYEQRN 240

Query: 264 IIQKLETRNMGLKPESYETY--QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
            I  +      +    Y+      V P +I+            +   Q   +GII  A +
Sbjct: 241 AIYDISNFRYYINENKYKEMQSFSVQPNDIIMSCSGTIGRLALIP--QNYTKGIINQALI 298

Query: 322 AVKPHGID-STYLAWLMRSYDLCKVFYAM--GSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
             + +    S +    MRS  + +       GS +   +  +++K +P  +P   EQ  I
Sbjct: 299 RFRTNHKIRSEFFLIFMRSNQMQRKILEANPGSAITNLVPVKELKLIPFPLPVKFEQDKI 358

Query: 379 TNVINVETARID 390
           +  I +   RI+
Sbjct: 359 SQFILIINRRIE 370


>gi|163844961|ref|YP_001622616.1| hypothetical protein BSUIS_B0834 [Brucella suis ATCC 23445]
 gi|163675684|gb|ABY39794.1| Hypothetical protein, conserved [Brucella suis ATCC 23445]
          Length = 391

 Score = 81.0 bits (198), Expect = 3e-13,   Method: Composition-based stats.
 Identities = 61/401 (15%), Positives = 112/401 (27%), Gaps = 48/401 (11%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +PK W+ V I +  +  + R   S  DI  + +               +    +T    
Sbjct: 4   EVPKGWREVRIGQIAREISNRNHASA-DIPVLSMTKHRGFVRSNEYFSKSVHSENTRQYK 62

Query: 80  IFAKGQILYGKLGPYLRKAII--ADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV---- 133
           +  +GQ  Y  +            +  G+ S  + V +      +               
Sbjct: 63  VVKRGQFAYATIHLDEGSIDYLRNEDAGLISPMYTVFETNSEEIDNEIALRQFKRFALSG 122

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
                +           +  +      +PPL EQ  I E + A        I +    I+
Sbjct: 123 RFDPYSNGGVNRRKSILFSDLSAFKFGLPPLTEQRAIAEVLGAAEAA----IAKTEALIK 178

Query: 194 LLKEKKQALV-SYIVTKGLNPDVKMKDSGIEWV-GLVPDHWEVKPFFALVTELNRKNTKL 251
            +++ K+AL+  Y V +  +           W+ G  P                    + 
Sbjct: 179 AIEQTKKALLKQYFVERQQSLLWSCVAKMGRWLSGGTPATA---------------AEEN 223

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETY-QIVDPGEIVFRFIDLQNDKRSLRSAQV 310
            + +I  +   +I     +  +    E       +V PG ++     +    RS+ S   
Sbjct: 224 WKGSIPWVCPKDIKGPSISSTVDHISEDAAKALGMVGPGTLLLVVRGMIL-ARSVPSTIC 282

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWL---MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
             R        A  P+   +     L   +  + L         G  +    E +   PV
Sbjct: 283 TVRCAFNQDVKAFVPNEGVAPAFLKLWLDINEHKLLGEIETATHGT-KRFPLEHLNEFPV 341

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
            V    EQ                LV   E S   L+  R 
Sbjct: 342 PVVTRDEQIR--------------LVTLAESSQERLRSERQ 368



 Score = 72.9 bits (177), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 36/195 (18%), Positives = 78/195 (40%), Gaps = 12/195 (6%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSL-SYGNIIQKLETRNMGLKPESYETYQI 285
            VP  W       +  E++ +N    +  +LS+  +   ++  E  +  +  E+   Y++
Sbjct: 4   EVPKGWREVRIGQIAREISNRNHASADIPVLSMTKHRGFVRSNEYFSKSVHSENTRQYKV 63

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH--GIDSTYLAWLMRSYDLC 343
           V  G+  +  I L     S+   +  + G+I+  Y   + +   ID+       + + L 
Sbjct: 64  VKRGQFAYATIHLDE--GSIDYLRNEDAGLISPMYTVFETNSEEIDNEIALRQFKRFALS 121

Query: 344 KVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
             F    +G    R+S+ F D+      +PP+ EQ  I  V+       +  + K E  I
Sbjct: 122 GRFDPYSNGGVNRRKSILFSDLSAFKFGLPPLTEQRAIAEVLGAA----EAAIAKTEALI 177

Query: 401 VLLKERRSSFIAAAV 415
             +++ + + +    
Sbjct: 178 KAIEQTKKALLKQYF 192


>gi|255690133|ref|ZP_05413808.1| putative type I restriction-modification system specificity
           determinant [Bacteroides finegoldii DSM 17565]
 gi|260624417|gb|EEX47288.1| putative type I restriction-modification system specificity
           determinant [Bacteroides finegoldii DSM 17565]
          Length = 379

 Score = 81.0 bits (198), Expect = 3e-13,   Method: Composition-based stats.
 Identities = 68/403 (16%), Positives = 131/403 (32%), Gaps = 46/403 (11%)

Query: 28  VPIKRFTK-LNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST---VSIFAK 83
           V  +     +NT     +   + Y+G E +ES   + L +     +  T        F K
Sbjct: 4   VKFEDVATRVNTREDRLNTSLLYYVGGEHIESN--EMLVQGCGLIKGSTIGPMFYCGFKK 61

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLV---LQPKDVLPELLQGWLLSIDVTQRIEAI 140
           G IL     P+LRKA + +FDGICS +  V      K +L E L   + S D     E  
Sbjct: 62  GDILLVSRNPHLRKASMVEFDGICSEKTFVLGTKDSKVLLQEFLALVMQSDDFWNYCEEH 121

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
             G      +W  +      +P + EQ  I +K+ +     ++     +   E++     
Sbjct: 122 KSGGVNYFLNWSTLAKYEFYLPSIQEQKEIADKVWSAYRLKESYKKLLVATDEMV----- 176

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
                            K   IE    V  + +++   +        +  + E+ I  + 
Sbjct: 177 -----------------KSQFIEMFENVESYCKLEDLVSDTFPGEWGSEPISENAIKVIR 219

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDP----GEIVFRFIDLQND---KRSLRSAQVMER 313
             N   +       +     E  ++V      G+ +        D    R +   ++ + 
Sbjct: 220 TTNFTNEGYLDLTDVVTRDIEPKKVVRKKLKQGDTILERSGGTKDNPVGRVVFFDEIGDY 279

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF----YAMGSGLRQSLKFEDVKRLPVLV 369
                  +      ++  YL + + +            A  +   Q+L   D     +++
Sbjct: 280 LPNNFTQVLRPKESVNPVYLFYALYNSYNLNKAAMRAMASQTTGIQNLSMSDFMAKFIVL 339

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           P   EQ            + D    +++Q I  + +   S I 
Sbjct: 340 PSRNEQNKF----EQIYRQADKSKFELKQCIENIDKVIKSLIN 378


>gi|210611277|ref|ZP_03288832.1| hypothetical protein CLONEX_01022 [Clostridium nexile DSM 1787]
 gi|210152041|gb|EEA83048.1| hypothetical protein CLONEX_01022 [Clostridium nexile DSM 1787]
          Length = 410

 Score = 81.0 bits (198), Expect = 3e-13,   Method: Composition-based stats.
 Identities = 57/418 (13%), Positives = 136/418 (32%), Gaps = 33/418 (7%)

Query: 26  KVVPIKRFTKLN---TGRTSE-SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           +   IK    +       T   + +  I +   ++++G   +        +     +   
Sbjct: 3   ECRTIKELCSVVVDCPHSTPTWTAEGKIVVRSNNIKNGRIDFSSPSYTDDEHFQQRIKRA 62

Query: 82  AK--GQILYGKLGPYLRKAIIADFDGICSTQ---FLVLQPKDVLPELLQGWLLSIDVTQR 136
               G I+  +  P     +I +    C  Q    L   P+      L   L S  V  +
Sbjct: 63  TPQGGDIIITREAPMGEVGMIPEGIVCCLGQRMVLLRANPEICDNYYLLYSLQSRYVQHQ 122

Query: 137 I-EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
           I  +   G T+S+     +  + +P  PL++Q  +   +     +    I +     + L
Sbjct: 123 ISWSEGTGTTVSNLRIPHLEQLKIPYLPLSKQRQVSSVLRCLEGK----IEQNRVINDNL 178

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
           +++ ++L         +  +  + +  + +         K   +           +  ++
Sbjct: 179 QQQAKSLFKKWFIDNPDAALWQEGTFSDLIEKTISGDWGKDTPSGNNTEM--VYCIRGAD 236

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ------ 309
           I  +  GN   K +     + P++Y + Q+V+   +V              +A       
Sbjct: 237 IPEVRTGN---KGKMPTRYILPKNYASKQLVNGDIVVEISGGSPTQSTGRAAAISAPLLA 293

Query: 310 -VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA--MGSGLRQSLKFEDVKRL- 365
              +  + T+   A+KP    S Y+    +      VF++   G+   ++L         
Sbjct: 294 RYDKGMVCTNFCKALKPITGYSMYVYHYWQYLYDQGVFFSYENGTTGIKNLDISGFLETE 353

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
           P+ + P      +    +     +   +         L   R + +   ++G+ID+ G
Sbjct: 354 PISIAP----EKLVKKFDTFCQAVFSKIYANGLENEQLALVRDTLLPKLMSGEIDVSG 407


>gi|160915334|ref|ZP_02077546.1| hypothetical protein EUBDOL_01342 [Eubacterium dolichum DSM 3991]
 gi|158432725|gb|EDP11014.1| hypothetical protein EUBDOL_01342 [Eubacterium dolichum DSM 3991]
          Length = 420

 Score = 81.0 bits (198), Expect = 3e-13,   Method: Composition-based stats.
 Identities = 55/414 (13%), Positives = 130/414 (31%), Gaps = 47/414 (11%)

Query: 20  AIPKHWKVVPIKRFT-KLNTGRTSESGKD--IIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            IP +W+       + K+  G  + +     I  + + D++     +      + + +  
Sbjct: 4   EIPDNWEWKSWGEVSYKIQYGYNAPAKDTGVIKMVRITDIQDNQVLWDSVPFCNIKENEI 63

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQF-----LVLQPKDVLPELLQGWLLSI 131
              +     IL+ + G  + K+ + +     S         V    ++ P+ L+ ++ + 
Sbjct: 64  PDYLLHNFDILFARTGGTVGKSFLVENINEDSVFAGYLIRTVYNYNEINPKYLKYFMETS 123

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
               +++         + + + +  + +PIPPL EQ  I  K+      I+       + 
Sbjct: 124 LYWSQLKKGTIATAQPNCNGQTLSKMILPIPPLQEQHRIVAKLQELEPLIEKYRIAEEQL 183

Query: 192 IELL----KEKKQALVSYIVTKGLNPDVKM------------------------KDSGIE 223
            EL      + K++++ Y +   L P                            K    E
Sbjct: 184 HELNSNIKDQLKKSILQYAIEGKLVPQDPNDEPASVLLERIREEKQQLIKEGKIKKDKNE 243

Query: 224 WVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL--------SLSYGNIIQKLETRNMGL 275
            +    D+   + F      ++ +    +  N +         L+ GN+ +      + +
Sbjct: 244 SIIFRRDNSYYEKFGNTEFCIDDEIKCSVPINWILTRQKNLCWLNNGNLSKGEILPYLEV 303

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRS---LRSAQVMERGIITSAYMAVKPHGIDSTY 332
           K              ++                   ++  RG + S +  ++     +  
Sbjct: 304 KVLRGNKEAETKDSGVIVTRGTNVILVDGENSGEVMKIKYRGYMGSTFKILQTSNFVNEK 363

Query: 333 LAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
              ++   +  K  +         L  E      + +PPI EQ  I   IN+ T
Sbjct: 364 YVDIIFQCNRIKYKHNKKGAAIPHLDKELFNNTLIFLPPITEQQRILEKINLIT 417



 Score = 64.4 bits (155), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 25/204 (12%), Positives = 66/204 (32%), Gaps = 13/204 (6%)

Query: 227 LVPDHWEVKPFFALVTELNRK-----NTKLIESNILSLSYGNIIQKLETRNMGLKPESYE 281
            +PD+WE K +  +  ++            +   +      +     ++       E+  
Sbjct: 4   EIPDNWEWKSWGEVSYKIQYGYNAPAKDTGVIKMVRITDIQDNQVLWDSVPFCNIKENEI 63

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY-MAVKPHGIDSTYLAWLMRSY 340
              ++   +I+F        K  L      +              + I+  YL + M + 
Sbjct: 64  PDYLLHNFDILFARTGGTVGKSFLVENINEDSVFAGYLIRTVYNYNEINPKYLKYFMETS 123

Query: 341 DLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
                      +  + +   + + ++ + +PP++EQ  I   +      I+      E+ 
Sbjct: 124 LYWSQLKKGTIATAQPNCNGQTLSKMILPIPPLQEQHRIVAKLQELEPLIEKYR-IAEEQ 182

Query: 400 IVLLK-----ERRSSFIAAAVTGQ 418
           +  L      + + S +  A+ G+
Sbjct: 183 LHELNSNIKDQLKKSILQYAIEGK 206


>gi|118475739|ref|YP_892534.1| restriction and modification enzyme CjeI [Campylobacter fetus subsp.
            fetus 82-40]
 gi|118414965|gb|ABK83385.1| restriction and modification enzyme CjeI [Campylobacter fetus subsp.
            fetus 82-40]
          Length = 1285

 Score = 81.0 bits (198), Expect = 3e-13,   Method: Composition-based stats.
 Identities = 51/389 (13%), Positives = 111/389 (28%), Gaps = 24/389 (6%)

Query: 26   KVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            K+V +    ++ TG T  +      G D  +    D+ +G       +    +    +  
Sbjct: 901  KLVKLGEICEILTGSTPSTQKKEFYGSDFPFYRPADLING-RNVNSSEVMVSKLGYESQR 959

Query: 80   IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
               K  IL   +G   R  +I            +L   + + E L     +    Q +  
Sbjct: 960  ALPKKSILVSCIGTIGRVGMIEKSGIFNQQINALLPNNNYISEFLFYLFDTNFFKQLLIQ 1019

Query: 140  ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE---TVRIDTLITERIRFIELLK 196
                 T+   +     NI +P+PPL  Q  I ++          I   I E    I+ + 
Sbjct: 1020 QTHNTTVPIINKSKFSNIKIPLPPLEAQEKIVKECEEVEEKFKTIRMSIEEYKSLIKEIL 1079

Query: 197  EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
             K   +    +  G   +  +     + +  +P            +        +++   
Sbjct: 1080 IKSCVITDASLEIGGGYEQNL----AQILNDLPSPQNYG-LSEWESVKLTNKDFILKIGK 1134

Query: 257  LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
              L        +   +  +K    +  + +     +   +   +        +  E    
Sbjct: 1135 RVLDKDLTQDGINVFSANVKEPFGKINKDLIKDFSLDSVLWGIDGDWMTGFVKANEPFYP 1194

Query: 317  TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
            T     ++     +  L + +        F       +     E +  L + +PP++ Q 
Sbjct: 1195 TDHCGVLRSKSHKAKILEFALFEVGAKFGFSR-----QNRASIERISNLTLSLPPLEAQE 1249

Query: 377  DITNVINVETARIDVLVEKIEQSIVLLKE 405
             I   I      I  L       +  L+ 
Sbjct: 1250 KIVKAIEFCEGEISNL----NNELKTLEN 1274



 Score = 63.3 bits (152), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 32/298 (10%), Positives = 86/298 (28%), Gaps = 26/298 (8%)

Query: 120  LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
                   +L+        +   +     +  +     IP  +   A    + + +   + 
Sbjct: 814  DNPEKLCFLVRRAFILNDDFEKQKLKDPYVSFSQNLQIPANLSEFAFTTPLLKCLDFTSA 873

Query: 180  RIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFA 239
            + +  I   I   +                 LNP    K   ++ +G + +         
Sbjct: 874  KFNKAINLNIASSKNGVN-------------LNPFEGSKFKLVK-LGEICE-----ILTG 914

Query: 240  LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQ 299
                  +K     +      +     + + +  + +    YE+ + +    I+   I   
Sbjct: 915  STPSTQKKEFYGSDFPFYRPADLINGRNVNSSEVMVSKLGYESQRALPKKSILVSCIGTI 974

Query: 300  NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV-FYAMGSGLRQSLK 358
                 +  + +  + I       +  +   S +L +L  +    ++      +     + 
Sbjct: 975  GRVGMIEKSGIFNQQIN----ALLPNNNYISEFLFYLFDTNFFKQLLIQQTHNTTVPIIN 1030

Query: 359  FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE--RRSSFIAAA 414
                  + + +PP++ Q  I         +   +   IE+   L+KE   +S  I  A
Sbjct: 1031 KSKFSNIKIPLPPLEAQEKIVKECEEVEEKFKTIRMSIEEYKSLIKEILIKSCVITDA 1088


>gi|315612675|ref|ZP_07887587.1| HsdS family protein [Streptococcus sanguinis ATCC 49296]
 gi|315315262|gb|EFU63302.1| HsdS family protein [Streptococcus sanguinis ATCC 49296]
          Length = 388

 Score = 81.0 bits (198), Expect = 3e-13,   Method: Composition-based stats.
 Identities = 56/410 (13%), Positives = 118/410 (28%), Gaps = 41/410 (10%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           +   +    +   G      K +            GKY  +  N      +   +   G 
Sbjct: 5   EECILGDLVEFQRGYDLPKSKFV-----------EGKYPVQSSNGILGYHNEYKVEGPG- 52

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           I  G+ G      +I +     +T   V + K    E +   L  +D+    +    G  
Sbjct: 53  ITIGRSGTVGNPHLIRENFFPHNTSLFVKEFKGNDIEYIYYLLQYLDL--GNQKSGSGVP 110

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
             + +      I        +Q  I          ID  I    +  + L+   + L  Y
Sbjct: 111 TMNRNHLHPIKIRAYRDKTCQQRTI-----KILSLIDKKIQINNQINQELEVMAKTLYDY 165

Query: 206 IVTKGLNPDV---KMKDSG------IEWVGLVPDHWEVKPFFALVTELNRK-NTKLIESN 255
              +   PD      K SG       E    +P  W V+   +L+       N       
Sbjct: 166 WFVQFDFPDQNGKPYKSSGGKMVYNPELKREIPVRWGVEKLSSLLEIGRETINPMKTPKE 225

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
                         + +  L         IV+  +++   ++   ++       + E  I
Sbjct: 226 EFKYYSIPEYDVSGSFSYELGETIRSNKFIVEKSDLLVSKLNPWFNRV---VYNLEENAI 282

Query: 316 ITSAYMAVK-PHGIDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPP 371
            ++ ++  K  +  +  +L  +  S +  +      +G     + +  + +    +    
Sbjct: 283 SSTEFIVWKTFNRFEKNFLYQVATSKEFIEYCTRFTTGTSNSHKRVSPDIMVGFQIPF-- 340

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
             E+  I       T  I   V +       L + R   +   + GQ+ +
Sbjct: 341 --EKTYI-QKFGEITDSIRTQVLQNNVQNQELTQLRDWLLPMLMNGQVKV 387



 Score = 47.5 bits (111), Expect = 0.004,   Method: Composition-based stats.
 Identities = 31/200 (15%), Positives = 62/200 (31%), Gaps = 20/200 (10%)

Query: 20  AIPKHWKVVPIKRFTKLNTG-----RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
            IP  W V  +    ++        +T +       I   DV       L +        
Sbjct: 196 EIPVRWGVEKLSSLLEIGRETINPMKTPKEEFKYYSIPEYDVSGSFSYELGETIR----- 250

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIA-DFDGICSTQFLVLQP-KDVLPELLQGWLLSID 132
            S   I  K  +L  KL P+  + +   + + I ST+F+V +         L     S +
Sbjct: 251 -SNKFIVEKSDLLVSKLNPWFNRVVYNLEENAISSTEFIVWKTFNRFEKNFLYQVATSKE 309

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
             +       G +              P   +  Q+   +  I +   I   I  ++   
Sbjct: 310 FIEYCTRFTTGTS-------NSHKRVSPDIMVGFQIPFEKTYIQKFGEITDSIRTQVLQN 362

Query: 193 ELLKEKKQALVSYIVTKGLN 212
            +  ++   L  +++   +N
Sbjct: 363 NVQNQELTQLRDWLLPMLMN 382


>gi|308182609|ref|YP_003926736.1| Type I restriction/modification specificity protein [Helicobacter
           pylori PeCan4]
 gi|308064794|gb|ADO06686.1| Type I restriction/modification specificity protein [Helicobacter
           pylori PeCan4]
          Length = 416

 Score = 81.0 bits (198), Expect = 3e-13,   Method: Composition-based stats.
 Identities = 70/413 (16%), Positives = 128/413 (30%), Gaps = 39/413 (9%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKD------IIYIGLEDVESGTGKYLPKDGNSRQ---S 73
             W+   +K   K+  G T  +         I +I  +D+ +  G+Y+ K   S      
Sbjct: 2   SEWQTFCLKDLGKIVGGATPSTNNPKNYGNKIAWITPKDLSTLQGRYIKKGSRSISRLGF 61

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
            + +  +  K  IL+    P      IA+     +  F  + P   +      + L    
Sbjct: 62  KSCSCVLLPKHAILFSSRAPI-GYVAIAEKRLCTNQGFKSIIPNKKI-YFEFLYYLLKYH 119

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPP-LAEQVLIREKIIAETVRIDTLITERIRFI 192
              I  I  G T        +    + IPP   EQ  I   +     +I+          
Sbjct: 120 KDNISNIGGGTTFKEVSGATLSLFEVKIPPTYYEQQKIARTLSVLDQKIENNHKINELLH 179

Query: 193 ELLKEKKQALVSYI-VTKGLNPDVK-----MKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
           ++L+   +          G N   +     MK S  E   L+P+ +EVK    LV   + 
Sbjct: 180 KILELLYEQYFVRFDFLDGNNKPYQTSGGKMKFS-KELNRLIPNDFEVKTLGELVDIFSG 238

Query: 247 KNTKLIESNILSLSYGNIIQK---------LETRNMGLKPESYETYQIVDPGEIVFRFID 297
            + +    +     Y  I  K           T N+   P+    Y +++P  I+     
Sbjct: 239 YSFQSNTYSNNKNDYILITNKNVQHSLVDLSITTNLLFLPKKLPKYCLLEPTNILITLTG 298

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW-LMRSYDLCKVFYAMG-SGLRQ 355
                  + S    +  I+      V P   +     + L+R+     +         +Q
Sbjct: 299 HIGRCALVFS----KNCILNQRVGVVLPKEKELNPFYYSLIRNPLFSAILQRNAIGSSQQ 354

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
           +L   D  ++ +          I    +     I  L+    Q+   L   R 
Sbjct: 355 NLSPIDTLKIQIPF-----NHKIIKQYSKTCENIIKLLVSNMQTTQTLTALRD 402



 Score = 54.0 bits (128), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 22/158 (13%), Positives = 52/158 (32%), Gaps = 8/158 (5%)

Query: 21  IPKHWKVVPIKRFTKLNTGRT------SESGKDIIYIGLEDVESGTGKY-LPKDGNSRQS 73
           IP  ++V  +     + +G +      S +  D I I  ++V+       +  +      
Sbjct: 220 IPNDFEVKTLGELVDIFSGYSFQSNTYSNNKNDYILITNKNVQHSLVDLSITTNLLFLPK 279

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV-LPELLQGWLLSID 132
                 +     IL    G   R A++   + I + +  V+ PK+  L       + +  
Sbjct: 280 KLPKYCLLEPTNILITLTGHIGRCALVFSKNCILNQRVGVVLPKEKELNPFYYSLIRNPL 339

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLI 170
            +  ++    G++  +        I +P      +   
Sbjct: 340 FSAILQRNAIGSSQQNLSPIDTLKIQIPFNHKIIKQYS 377


>gi|153805906|ref|ZP_01958574.1| hypothetical protein BACCAC_00146 [Bacteroides caccae ATCC 43185]
 gi|149130583|gb|EDM21789.1| hypothetical protein BACCAC_00146 [Bacteroides caccae ATCC 43185]
          Length = 370

 Score = 81.0 bits (198), Expect = 3e-13,   Method: Composition-based stats.
 Identities = 70/393 (17%), Positives = 137/393 (34%), Gaps = 33/393 (8%)

Query: 27  VVPIKRFTK--LNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI-FAK 83
           +V                 + K I Y+G E ++S       K      +        F  
Sbjct: 3   IVKFSEVAHRAYTREDRFNTEK-IYYVGGEHIDSCELYVTKKGVIKGSTIGPMFYCGFTA 61

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL---PELLQGWLLSIDVTQRIEAI 140
           GQIL+    P+L+K  IADFDGICS +  V++ KD      E L   + S D     E  
Sbjct: 62  GQILFVTRNPHLKKCSIADFDGICSEKTFVIETKDESILTQEYLAIIMQSDDFWNYCEEN 121

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
             G      +W  + +    +PP+ +Q+ I +K       + +    +  + +LL   ++
Sbjct: 122 KSGGVNYFLNWSTLADYEFELPPIKQQLEIAQK-------VMSAYRLKQSYKKLLDATRE 174

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
            + S  +    NP    K             W+      +  E+  K     +  +L+L 
Sbjct: 175 MVKSQFIEMFGNPVTNTK------------GWKTAKIKDVAPEMPSKEQLSGKIWLLNLD 222

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
                       +    E+  + Q  D G ++F  +    +K  +               
Sbjct: 223 MIESNTGRIIEKVYEDVENALSVQSFDEGNVLFSKLRPYLNKVVIP--DEPGMATTELVP 280

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDIT 379
           +  +P  +   +L+ L+R          +  G     +   +++    ++PP+ +Q +  
Sbjct: 281 LRPEPSKLHKVFLSHLLRGNQFVNYANDIAGGTKMPRMPLTELRNFDCILPPMDKQLEFV 340

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
                   ++D    ++ +SI  + +   S I 
Sbjct: 341 ----FIAEQVDKSEFELRKSIDAIDQVIKSLIN 369



 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 44/185 (23%), Positives = 78/185 (42%), Gaps = 8/185 (4%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           K WK   IK        +   SGK I  + L+ +ES TG+ + K     ++  S  S F 
Sbjct: 192 KGWKTAKIKDVAPEMPSKEQLSGK-IWLLNLDMIESNTGRIIEKVYEDVENALSVQS-FD 249

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ--GWLLSIDVTQRIEAI 140
           +G +L+ KL PYL K +I D  G+ +T+ + L+P+      +     L           I
Sbjct: 250 EGNVLFSKLRPYLNKVVIPDEPGMATTELVPLRPEPSKLHKVFLSHLLRGNQFVNYANDI 309

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
             G  M       + N    +PP+ +Q+           ++D    E  + I+ + +  +
Sbjct: 310 AGGTKMPRMPLTELRNFDCILPPMDKQLEFV----FIAEQVDKSEFELRKSIDAIDQVIK 365

Query: 201 ALVSY 205
           +L++ 
Sbjct: 366 SLINN 370


>gi|322387157|ref|ZP_08060767.1| type I site-specific deoxyribonuclease chain S [Streptococcus
           infantis ATCC 700779]
 gi|321141686|gb|EFX37181.1| type I site-specific deoxyribonuclease chain S [Streptococcus
           infantis ATCC 700779]
          Length = 395

 Score = 81.0 bits (198), Expect = 3e-13,   Method: Composition-based stats.
 Identities = 67/384 (17%), Positives = 123/384 (32%), Gaps = 33/384 (8%)

Query: 42  SESGKDIIYIGLEDVESGTGKYLPKDG---NSRQSDTSTVSIFAKGQILYGKLGPYLRKA 98
           ++  K   YI    ++        K+    +  Q+ +    + ++  +L+  + PYL+  
Sbjct: 13  NKPEKFFRYIDTSSIDRKKNIINYKNLQYLSPEQAPSRARKLVSQNSVLFSTVRPYLKNI 72

Query: 99  IIA---DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIG 155
            +        I ST F+VL        L   +LLS +   R+     G +    +     
Sbjct: 73  AVVRELKEYLIASTAFIVLDTLLNETYLKY-YLLSDNFINRVNNKSTGTSYPAINDYNFN 131

Query: 156 NIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK----QALVSYIVTKGL 211
            + + IPPLAEQ  I E I +   ++D       R  +L KE      ++++ Y +   L
Sbjct: 132 LLLIAIPPLAEQQRIVEVIESALEKVDEYAESYNRLEQLDKEFPDKLKKSILQYAMQGKL 191

Query: 212 NPDVKMKDS--------GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
                  +S          E   L  +    K    +       +    E    +     
Sbjct: 192 VEQDPNDESVEVLLEKIRAEKQKLFEEGKIKKKDLEISIVSQGDDNSYYEEVPNTWQLFK 251

Query: 264 IIQKLETRNMGLKPESYETYQIVD------------PGEIVFRFIDLQNDKR--SLRSAQ 309
           +   L+  N   +      Y  V              G  V     +       S     
Sbjct: 252 LKNLLQLDNGTKQQNERLIYWDVKTLRGIKDAEFKEKGNKVHSKDTVILVDGENSGELFI 311

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
           +   G + S +  +      S     L        +  +        L     K L V +
Sbjct: 312 IPHDGYMGSTFKKIHYLEAGSKKYIDLYIDSKKELLKNSKTGSAIPHLNKTLFKELIVAL 371

Query: 370 PPIKEQFDITNVINVETARIDVLV 393
           PPI+EQ  I++ I    ++I+ L+
Sbjct: 372 PPIQEQKRISSKITQIFSQINRLI 395



 Score = 71.0 bits (172), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 29/192 (15%), Positives = 66/192 (34%), Gaps = 10/192 (5%)

Query: 235 KPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY---ETYQIVDPGEI 291
               ++     +   +     I + S       +  +N+             ++V    +
Sbjct: 1   MRIKSIYWNFGQNKPEKFFRYIDTSSIDRKKNIINYKNLQYLSPEQAPSRARKLVSQNSV 60

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
           +F  +       ++     ++  +I S    V    ++ TYL + + S +         +
Sbjct: 61  LFSTVRPYLKNIAVVR--ELKEYLIASTAFIVLDTLLNETYLKYYLLSDNFINRVNNKST 118

Query: 352 GLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----R 406
           G    ++   +   L + +PP+ EQ  I  VI     ++D   E   +   L KE     
Sbjct: 119 GTSYPAINDYNFNLLLIAIPPLAEQQRIVEVIESALEKVDEYAESYNRLEQLDKEFPDKL 178

Query: 407 RSSFIAAAVTGQ 418
           + S +  A+ G+
Sbjct: 179 KKSILQYAMQGK 190



 Score = 40.9 bits (94), Expect = 0.34,   Method: Composition-based stats.
 Identities = 24/166 (14%), Positives = 54/166 (32%), Gaps = 12/166 (7%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +P  W++  +K   +L+ G   ++ + I +                 G          +
Sbjct: 242 EVPNTWQLFKLKNLLQLDNGTKQQNERLIYW-----------DVKTLRGIKDAEFKEKGN 290

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
                  +    G    +  I   DG   + F  +   +   +      +     + ++ 
Sbjct: 291 KVHSKDTVILVDGENSGELFIIPHDGYMGSTFKKIHYLEAGSKKYIDLYIDSK-KELLKN 349

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
              G+ + H +      + + +PP+ EQ  I  KI     +I+ LI
Sbjct: 350 SKTGSAIPHLNKTLFKELIVALPPIQEQKRISSKITQIFSQINRLI 395


>gi|297581880|ref|ZP_06943801.1| restriction endonuclease S subunit [Vibrio cholerae RC385]
 gi|297533974|gb|EFH72814.1| restriction endonuclease S subunit [Vibrio cholerae RC385]
          Length = 306

 Score = 81.0 bits (198), Expect = 3e-13,   Method: Composition-based stats.
 Identities = 34/202 (16%), Positives = 72/202 (35%), Gaps = 13/202 (6%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG 289
           +    KP       ++ K++  +   I  +   N +   E    G K  + E    +  G
Sbjct: 17  EEILEKPLDGNHGNIHPKSSDYVGYGIPFVMANNFVNG-EVDLSGCKFITKERADRLQKG 75

Query: 290 -----EIVFRFIDLQNDKRSLRSAQVMERGIITS--AYMAVKPHGIDSTYLAWLMRSYDL 342
                +I+            +         +      Y     + +D+ ++     S   
Sbjct: 76  FALTGDILLTHKGTVGSTAIVGELNTDYIMLTPQVTYYRVRDANRLDNRFIRHYFDSSSF 135

Query: 343 CKVFYAM-GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
             +F ++ G G R  L       LP++ PP+ EQ  I   ++      D L+  +++ IV
Sbjct: 136 QSLFASLAGGGTRAYLGIVKQLELPIVKPPVDEQRAIAQALSDV----DALLATLDEVIV 191

Query: 402 LLKERRSSFIAAAVTGQIDLRG 423
             ++ + + +   +TG+  L G
Sbjct: 192 KKRDLKQAAMQQLLTGKTRLPG 213



 Score = 53.3 bits (126), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 43/254 (16%), Positives = 84/254 (33%), Gaps = 40/254 (15%)

Query: 21  IPKHWKVVPIKRFTKL---------NTGRTSESGKD-----IIYIGLEDVESGTGKYLP- 65
           IP  W +V +K+  +          N G       D     I ++   +  +G       
Sbjct: 2   IPDDWDIVSVKQLVEEEILEKPLDGNHGNIHPKSSDYVGYGIPFVMANNFVNGEVDLSGC 61

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP--------- 116
           K     ++D         G IL    G     AI+    G  +T +++L P         
Sbjct: 62  KFITKERADRLQKGFALTGDILLTHKGTVGSTAIV----GELNTDYIMLTPQVTYYRVRD 117

Query: 117 -KDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKII 175
              +    ++ +  S        ++  G T ++        +P+  PP+ EQ  I + + 
Sbjct: 118 ANRLDNRFIRHYFDSSSFQSLFASLAGGGTRAYLGIVKQLELPIVKPPVDEQRAIAQALS 177

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVS----------YIVTKGLNPDVKMKDSGIEWV 225
                + TL    ++  +L +   Q L++            V K L+   +++  G    
Sbjct: 178 DVDALLATLDEVIVKKRDLKQAAMQQLLTGKTRLPGVSGEWVVKRLDAIAEIRSGGTPST 237

Query: 226 GLVPDHWEVKPFFA 239
           G  P  W+    + 
Sbjct: 238 GE-PSFWDGDILWC 250



 Score = 39.8 bits (91), Expect = 0.95,   Method: Composition-based stats.
 Identities = 13/78 (16%), Positives = 29/78 (37%), Gaps = 10/78 (12%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTG-KYLPKDGNSRQ---S 73
            W V  +    ++ +G T  +G+      DI++    D+ +  G KYL +          
Sbjct: 217 EWVVKRLDAIAEIRSGGTPSTGEPSFWDGDILWCTPTDITALNGHKYLRETSRLISLLGL 276

Query: 74  DTSTVSIFAKGQILYGKL 91
           + S+  +     ++    
Sbjct: 277 NASSAEMIPAQSVVMTSR 294


>gi|220930104|ref|YP_002507013.1| restriction modification system DNA specificity domain protein
           [Clostridium cellulolyticum H10]
 gi|220000432|gb|ACL77033.1| restriction modification system DNA specificity domain protein
           [Clostridium cellulolyticum H10]
          Length = 385

 Score = 81.0 bits (198), Expect = 4e-13,   Method: Composition-based stats.
 Identities = 50/397 (12%), Positives = 109/397 (27%), Gaps = 30/397 (7%)

Query: 31  KRFTKLN-TGRTSES------GKDIIYIGLEDVESGT--GKYLPKDGNSRQSDTSTVSIF 81
               +    G T  +        +I +I   D+      G    K        +S   + 
Sbjct: 2   GEMAEETYGGGTPSTLNKAYWNGNIPWIQSSDLVEHQLFGVSPRKYITESGVCSSAAKLV 61

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            +  I        + K     F    S  FL              + +   + + I+A+ 
Sbjct: 62  PENSIAIVT-RVGVGKLATMPFAFATSQDFL-SLSNLKCEIWFFAYSIYKKLQRDIDAVQ 119

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
             +       + +         + EQ  I   +      +D  IT   R ++ LK+ K  
Sbjct: 120 GTSIKGITKNELLSKSICAPSDILEQTSIGNFL----HLLDDAITLHKRKLDDLKDLKHG 175

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK-----NTKLIESNI 256
            +  +  +       ++ +G        + W+ +    +   +        N      NI
Sbjct: 176 YLQQMFPQAGESVPLVRFAG------FTEPWQKRTLGDVAEIVGGGTPDTANPAYWNGNI 229

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
              S   I  +        K                   I   +       A +      
Sbjct: 230 EWFSPTEIGTETYASISHKKISELGLKNSSAKMLTGGSTILFTSRAGIGDMAILTRPAAT 289

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
              + +++       Y  + M S                 +  +++ R+ + +P  KEQ 
Sbjct: 290 NQGFQSLEIRKTFDVYFIYSMGSKIKEYALKNASGSTFLEISGKNLGRMKLRIPTFKEQT 349

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            I N        +D  +   +Q +  LK+ + +++  
Sbjct: 350 AIGNF----FRNLDDQITAQKQKLSQLKQLKFAYLQK 382



 Score = 59.4 bits (142), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 22/186 (11%), Positives = 55/186 (29%), Gaps = 8/186 (4%)

Query: 25  WKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDV-ESGTGKYLPKDGNSRQSDTST 77
           W+   +    ++  G T ++        +I +    ++          K  +      S+
Sbjct: 200 WQKRTLGDVAEIVGGGTPDTANPAYWNGNIEWFSPTEIGTETYASISHKKISELGLKNSS 259

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
             +   G  +       +    I       +  F  L+ +     +   + +   + +  
Sbjct: 260 AKMLTGGSTILFTSRAGIGDMAILTRPAATNQGFQSLEIRKTFD-VYFIYSMGSKIKEYA 318

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
                G+T      K +G + + IP   EQ  I         +I     +  +  +L   
Sbjct: 319 LKNASGSTFLEISGKNLGRMKLRIPTFKEQTAIGNFFRNLDDQITAQKQKLSQLKQLKFA 378

Query: 198 KKQALV 203
             Q ++
Sbjct: 379 YLQKML 384


>gi|328947485|ref|YP_004364822.1| restriction modification system DNA specificity domain protein
           [Treponema succinifaciens DSM 2489]
 gi|328447809|gb|AEB13525.1| restriction modification system DNA specificity domain protein
           [Treponema succinifaciens DSM 2489]
          Length = 267

 Score = 81.0 bits (198), Expect = 4e-13,   Method: Composition-based stats.
 Identities = 34/193 (17%), Positives = 69/193 (35%), Gaps = 6/193 (3%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE-- 278
             E    +P++W       +V    +K      S I   S  N+ QKL  +   + PE  
Sbjct: 73  EDEIPFEIPENWCWCRLGEIVYNNGQKIPDKEFSYIDIGSIDNLHQKLNDKENFVSPEQA 132

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA-VKPHGIDSTYLAWLM 337
                +IV  G+I++  +        +      +  I ++ +        I++ YL + +
Sbjct: 133 PSRARKIVKKGDIIYATVRPYLHNMCIIDKDFEKEPIASTGFAVLACYPQINNQYLFYYL 192

Query: 338 RSYDLCKVFY---AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
            S                   ++  + + +  + +PP+ EQ  I   +      ID   +
Sbjct: 193 LSPSFDNYANDTENSKGVAYPAINDDKLYKGVIPLPPLAEQKRIVRALEAILPVIDEYRK 252

Query: 395 KIEQSIVLLKERR 407
           K E+   L+  R+
Sbjct: 253 KEEELARLILSRK 265



 Score = 73.3 bits (178), Expect = 6e-11,   Method: Composition-based stats.
 Identities = 42/184 (22%), Positives = 64/184 (34%), Gaps = 11/184 (5%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQS--DTST 77
            IP++W    +      N G+     K+  YI +  +++   K   K+         +  
Sbjct: 79  EIPENWCWCRLGEIV-YNNGQKIP-DKEFSYIDIGSIDNLHQKLNDKENFVSPEQAPSRA 136

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDG----ICSTQFLVLQPKDVLPELLQGWL---LS 130
             I  KG I+Y  + PYL    I D D     I ST F VL     +      +     S
Sbjct: 137 RKIVKKGDIIYATVRPYLHNMCIIDKDFEKEPIASTGFAVLACYPQINNQYLFYYLLSPS 196

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
            D         +G      +   +    +P+PPLAEQ  I   + A    ID    +   
Sbjct: 197 FDNYANDTENSKGVAYPAINDDKLYKGVIPLPPLAEQKRIVRALEAILPVIDEYRKKEEE 256

Query: 191 FIEL 194
              L
Sbjct: 257 LARL 260


>gi|83815971|ref|YP_445228.1| type I restriction-modification system, S subunit, putative
           [Salinibacter ruber DSM 13855]
 gi|83757365|gb|ABC45478.1| type I restriction-modification system, S subunit, putative
           [Salinibacter ruber DSM 13855]
          Length = 408

 Score = 81.0 bits (198), Expect = 4e-13,   Method: Composition-based stats.
 Identities = 33/194 (17%), Positives = 70/194 (36%), Gaps = 12/194 (6%)

Query: 224 WVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK----LETRNMGLKPES 279
           W+  + D   V       +       +L +   L LS  N+ +K     +   +      
Sbjct: 4   WIRRILDDLPVDFIDGDRSSRYPTRDELKDEGFLFLSTKNVTKKGLRLDDLDFVSPSKFE 63

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID--STYLAWLM 337
                 + P +I+         K +L  +   + G+I +  + ++        ++L + M
Sbjct: 64  EIKKGRLRPNDILITTRGSIG-KVALFESPKYKTGLINAQLLILRSDDESLSPSFLYYTM 122

Query: 338 RSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
           +S    K      SG  +  +   D+K + + VPP+  Q  I N++      +D  +E  
Sbjct: 123 KSSSFQKRLKNYASGSAQPQIPVRDLKEIEIEVPPLTIQHRIANILGA----LDDKIELN 178

Query: 397 EQSIVLLKERRSSF 410
            +    L+E   + 
Sbjct: 179 RRMNETLEEMAQTL 192



 Score = 74.1 bits (180), Expect = 4e-11,   Method: Composition-based stats.
 Identities = 52/416 (12%), Positives = 113/416 (27%), Gaps = 53/416 (12%)

Query: 25  WKVVPIKRF-TKLNTGRTSE--------SGKDIIYIGLEDVESGTGKYLPKDGNSRQ-SD 74
           W    +         G  S           +  +++  ++V     +    D  S    +
Sbjct: 4   WIRRILDDLPVDFIDGDRSSRYPTRDELKDEGFLFLSTKNVTKKGLRLDDLDFVSPSKFE 63

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIAD---FDGICSTQFLVLQPKDVL--PELLQGWLL 129
                      IL    G   + A+        G+ + Q L+L+  D    P  L   + 
Sbjct: 64  EIKKGRLRPNDILITTRGSIGKVALFESPKYKTGLINAQLLILRSDDESLSPSFLYYTMK 123

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
           S    +R++    G+       + +  I + +PPL  Q  I   + A   +I+       
Sbjct: 124 SSSFQKRLKNYASGSAQPQIPVRDLKEIEIEVPPLTIQHRIANILGALDDKIELNRRMNE 183

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNT 249
              E+ +          V  G        D G+E +                    R   
Sbjct: 184 TLEEMAQTLYYHYFDGSVEGG--------DIGLEELVE---------------IKPRMPV 220

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIV--FRFIDLQNDKRSLRS 307
              +  +  +   ++     +     K E     + V+   ++              +  
Sbjct: 221 PDDDEVLTYVGMADVEPNRMSVTDYGKKEYTSGRRFVNHDTLMARITPSLENGKTAFVDF 280

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLM-RSYDLCKVFYAM--GSGLRQSLKFEDVKR 364
               E    ++ +  ++     S    +   R     +   +   GS  RQ ++   +  
Sbjct: 281 LDDGEMAFGSTEFTVMRAREGTSPCFVYCCARDERFREYAISTMTGSSGRQRVQENLLGE 340

Query: 365 LPVLVPPIKE---QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
                    E   Q  + +  +     +  L+         L E R   +   ++G
Sbjct: 341 YGF------EDFDQSRM-DQFHNRVEPLFKLIRSNTSENQTLAETRDYLLPKLISG 389


>gi|261339077|ref|ZP_05966935.1| hypothetical protein ENTCAN_05289 [Enterobacter cancerogenus ATCC
           35316]
 gi|288318912|gb|EFC57850.1| type I restriction/modification specificity protein [Enterobacter
           cancerogenus ATCC 35316]
          Length = 460

 Score = 81.0 bits (198), Expect = 4e-13,   Method: Composition-based stats.
 Identities = 55/444 (12%), Positives = 135/444 (30%), Gaps = 54/444 (12%)

Query: 25  WKVVPIKRFTKLNTGR-----TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST-V 78
           W+ V +   ++                   +I   ++   + K           +     
Sbjct: 5   WREVSLGEISEKIGDGIHGTPVYNDSGKYYFINGSNLSDNSIKITDTTKRVAHDEFLKHR 64

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID-VTQRI 137
                  +L    G     A+  + D I       +  KD + +    ++LS     + I
Sbjct: 65  KELGDNTVLVSINGTIGNTALFNNEDIILGKSACYINLKDCISKYFILYILSGYLFQEYI 124

Query: 138 EAICEGATMSHADWKGIGNIPMPIPP-LAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           +    G+T+ +   K + +    +P    +Q      I     R      +     ++ +
Sbjct: 125 QRCSTGSTIKNVSLKMMRDFRFLMPESKEDQEKAVHIIQKLDERRRLNNVQNKTLEQMSQ 184

Query: 197 EKKQA-------LVSYIVTKGLNPDVKMKDS----------------------------- 220
              ++       ++   +  G NP  +   S                             
Sbjct: 185 TLFKSWFVDFDPVIDNALDAG-NPIPEALQSRAKLRQKIRNSADFKPLPADVRALFPAEF 243

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
               +G VP  W+ K    LV   +          ++ L+ G+I +         K E  
Sbjct: 244 EETELGWVPKDWQPKSMHDLVESASITYPLSKTDKVIFLNTGDIEKGSFLHQNYSKTEGL 303

Query: 281 --ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
             +  + +  G+I+F  I  +N + +    +  +  + T   +    + I+     +++ 
Sbjct: 304 PGQAKKSIKKGDILFSEIRPENKRYAFVHFESDDYVVSTKLMVLRAKNEINPLLPYFIIT 363

Query: 339 SYDLCKVFYAMG---SGLRQSLKFEDVKRLPVLVPPIKEQFDITN-VINVETARIDVLVE 394
             D  K    +    SG    + F++++ +  ++P       I    IN         + 
Sbjct: 364 LEDNTKKLQRVAELRSGTFPQITFKELEFINFIMPNND---RIMELFINNYLTPAYNKII 420

Query: 395 KIEQSIVLLKERRSSFIAAAVTGQ 418
             ++  + +   R + +   ++G+
Sbjct: 421 ATKKINMNITTLRDTLLPKLISGE 444



 Score = 48.3 bits (113), Expect = 0.002,   Method: Composition-based stats.
 Identities = 31/196 (15%), Positives = 65/196 (33%), Gaps = 10/196 (5%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTS-ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           +G +PK W+   +    +  +          +I++   D+E G+         +      
Sbjct: 248 LGWVPKDWQPKSMHDLVESASITYPLSKTDKVIFLNTGDIEKGSF-LHQNYSKTEGLPGQ 306

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADF---DGICSTQFLVLQPKDVLPELLQGWL----- 128
                 KG IL+ ++ P  ++     F   D + ST+ +VL+ K+ +  LL  ++     
Sbjct: 307 AKKSIKKGDILFSEIRPENKRYAFVHFESDDYVVSTKLMVLRAKNEINPLLPYFIITLED 366

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
            +  + +  E                 N  MP      ++ I   +     +I       
Sbjct: 367 NTKKLQRVAELRSGTFPQITFKELEFINFIMPNNDRIMELFINNYLTPAYNKIIATKKIN 426

Query: 189 IRFIELLKEKKQALVS 204
           +    L       L+S
Sbjct: 427 MNITTLRDTLLPKLIS 442


>gi|213619072|ref|ZP_03372898.1| EcoKI restriction-modification system protein HsdS [Salmonella
           enterica subsp. enterica serovar Typhi str. E98-2068]
          Length = 165

 Score = 81.0 bits (198), Expect = 4e-13,   Method: Composition-based stats.
 Identities = 35/140 (25%), Positives = 57/140 (40%), Gaps = 5/140 (3%)

Query: 277 PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP-HGIDSTYLAW 335
           PE    YQ +   +IV           S        + +  S  +  KP +     YL  
Sbjct: 29  PEDVSKYQ-LQDRDIVISRAGSVGF--SFLVQNPPSQVVFASYLIRFKPVNYFSEYYLKR 85

Query: 336 LMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
            + S D       M +G   Q++  + +  L V +PPI EQ  I   ++   A++D    
Sbjct: 86  FLESSDYWNQLSLMSAGNAVQNVNAQKLSTLTVPIPPIAEQKIIAEKLDTLLAQVDSTKA 145

Query: 395 KIEQSIVLLKERRSSFIAAA 414
           ++EQ   +LK  R + +AAA
Sbjct: 146 RLEQIPQILKRFRQAVLAAA 165



 Score = 54.0 bits (128), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 26/163 (15%), Positives = 63/163 (38%), Gaps = 3/163 (1%)

Query: 47  DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDG- 105
           D+ ++   D+  G   +          +  +        I+  + G      ++ +    
Sbjct: 3   DVKFLRTTDITKGAVDWSSVPYCMDAPEDVSKYQLQDRDIVISRAGSVGFSFLVQNPPSQ 62

Query: 106 --ICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPP 163
               S               L+ +L S D   ++  +  G  + + + + +  + +PIPP
Sbjct: 63  VVFASYLIRFKPVNYFSEYYLKRFLESSDYWNQLSLMSAGNAVQNVNAQKLSTLTVPIPP 122

Query: 164 LAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYI 206
           +AEQ +I EK+     ++D+      +  ++LK  +QA+++  
Sbjct: 123 IAEQKIIAEKLDTLLAQVDSTKARLEQIPQILKRFRQAVLAAA 165


>gi|223984080|ref|ZP_03634234.1| hypothetical protein HOLDEFILI_01526 [Holdemania filiformis DSM
           12042]
 gi|223963955|gb|EEF68313.1| hypothetical protein HOLDEFILI_01526 [Holdemania filiformis DSM
           12042]
          Length = 405

 Score = 81.0 bits (198), Expect = 4e-13,   Method: Composition-based stats.
 Identities = 57/402 (14%), Positives = 122/402 (30%), Gaps = 34/402 (8%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           WK +         + RT E  +D +   L     G        G+ R +          G
Sbjct: 26  WKSIAFGDLVHEYSDRTKEENEDTL---LSAAIEGMFLNTELFGHQRGASNKGYKKIKHG 82

Query: 85  QILYGKLGPYLRKAIIAD--FDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
            ++      +L  A +      G+ S  +          +L+  W+ S    +       
Sbjct: 83  TMVLSTQNLHLGNANVNQRFEHGMVSPAYKTYDIIGCSVDLIAQWIKSDAAKRFFYNATT 142

Query: 143 ---GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
                   + +W  +    + +P   EQ  + + +   + RI+          +  +   
Sbjct: 143 VGASVCRRNVEWDTLYEQSLYLPCRDEQEKVAKFLALLSNRINKQQQFVAALKKYKRGVI 202

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
           Q +  +   +G      ++   +                         N  +      S 
Sbjct: 203 QHIFRHSFAQGNTEWTCVRLGDV----------------FKKVSRRNTNGMVKNVITNSA 246

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS-LRSAQVMERGIITS 318
            YG + Q+           +   Y +++ G+ V+                 + E+GII+ 
Sbjct: 247 EYGLVPQREFFEKDIAVDGNTANYYVIEEGDFVYNPRKSNTAPYGPFNRYSLSEKGIISP 306

Query: 319 AY-MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS--LKFED--VKRLPVLVPPIK 373
            Y   V    I  +YLAW  +S    +  Y  GS   +   +   D  +  +PV+ P   
Sbjct: 307 LYTCLVLQADIYPSYLAWYFKSDAWHRYIYDNGSQGVRHDRVSMTDDLLMGIPVMFPDRT 366

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            Q     +++    +I+  ++  ++   LL   +   +    
Sbjct: 367 RQLIYAEMLD----KIEKRLQAAQKEYELLVSMKVGCVQQLF 404



 Score = 54.4 bits (129), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 38/212 (17%), Positives = 81/212 (38%), Gaps = 17/212 (8%)

Query: 209 KGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKL 268
            GL    K++  G +      + W+   F  LV E + +  +  E  +LS +   +    
Sbjct: 9   NGLEKCPKLRFPGFD------EPWKSIAFGDLVHEYSDRTKEENEDTLLSAAIEGMFLNT 62

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
           E      +  S + Y+ +  G +V    +L     +    Q  E G+++ AY      G 
Sbjct: 63  ELFG-HQRGASNKGYKKIKHGTMVLSTQNL--HLGNANVNQRFEHGMVSPAYKTYDIIGC 119

Query: 329 DSTYLAWLMRSYDLCKVFYAMGSGL----RQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
               +A  ++S    + FY   +      R++++++ +    + +P   EQ  +   +  
Sbjct: 120 SVDLIAQWIKSDAAKRFFYNATTVGASVCRRNVEWDTLYEQSLYLPCRDEQEKVAKFL-- 177

Query: 385 ETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
             A +   + K +Q +  LK+ +   I     
Sbjct: 178 --ALLSNRINKQQQFVAALKKYKRGVIQHIFR 207


>gi|63146890|emb|CAI79473.1| HsdS-type I specificity subunit [Lactobacillus delbrueckii subsp.
           lactis]
          Length = 387

 Score = 80.6 bits (197), Expect = 4e-13,   Method: Composition-based stats.
 Identities = 55/396 (13%), Positives = 126/396 (31%), Gaps = 35/396 (8%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W+   +    +  T  + ++ K    +  E         +  D     S  S   I  +
Sbjct: 18  DWEQRKLGDVCEPITD-SIDTQKYPNEVFAEYSMPAFDASMKPDIVLGSSMNSVRKIITR 76

Query: 84  GQILYGKLGPYLRKAII---ADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
             +L  KL    ++       + + +CS +F+ L    V    L     S   T+ +E  
Sbjct: 77  PCLLVNKLNVRKKRIWYVKKPNKNAVCSAEFIPLHSDTVDLTFLNQVAKSETFTRYLENH 136

Query: 141 CEG--ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
             G   +      + +    + IP + EQ    + I      +D  IT        L+  
Sbjct: 137 SSGSSNSQKRITPRSLMLSKLHIPTIEEQ----KLIGKIFESLDHTITLHEEKKRQLERL 192

Query: 199 KQALVSYIVTKG-LNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
           K AL+  +       P V+ +    EW        E +    +V +  +   +L +    
Sbjct: 193 KSALLQKMFADESGYPVVRFEGFSDEW--------EQRKLKDVVEKQIKGKAQLEKLAPG 244

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
            + Y +  +     N G    +     +     ++                 +       
Sbjct: 245 EVEYLDTSR----LNGGQAILTNGLKDVTLDDILILWDGSKAGTVYHGFEGALGST---- 296

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFD 377
              +       +S ++   ++ +    ++    +     ++ + +    + VP   EQ  
Sbjct: 297 ---LKAYRTSANSKFVYQYLKRHQ-DNIYNNYRTPNIPHVQKDFLNVFTISVPVSDEQEK 352

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           I +       ++D  ++  ++ + LLKE++  F+  
Sbjct: 353 IGSF----FKQLDDTIDLHQRKLDLLKEQKKGFLQK 384


>gi|68535975|ref|YP_250680.1| putative DNA restriction-modification system, specificity subunit
           [Corynebacterium jeikeium K411]
 gi|68263574|emb|CAI37062.1| putative DNA restriction-modification system, specificity subunit
           [Corynebacterium jeikeium K411]
          Length = 408

 Score = 80.6 bits (197), Expect = 4e-13,   Method: Composition-based stats.
 Identities = 75/392 (19%), Positives = 147/392 (37%), Gaps = 25/392 (6%)

Query: 46  KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPY--LRKAIIAD- 102
            ++ +I LE+V   T K         +   +  + F +G +L  K+ P     + +  D 
Sbjct: 27  DEVTFIPLENV-WPTNKADDFQIVPWEKRLTGYTPFRRGDLLLPKVTPTVTHGRTMFTDT 85

Query: 103 --FDGICSTQFLVLQPKD-VLPELLQGWLLSIDVTQRIEAICEGAT-MSHADWKGIGNIP 158
               G+ ST+   ++ +    P  L   L+  +      A  +G   +     + + +  
Sbjct: 86  ATELGVASTEVYTVRARPGTDPRWLAYLLVGTEFLGLAGASVQGTGGLKRISTQFVESYL 145

Query: 159 MPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK----QALVSYIVTKGLNPD 214
           +P     EQ  I + +  ET  ID + T+  +   LL E++    ++ +      G  P 
Sbjct: 146 LPDASSEEQRAIADYLDRETAEIDAMTTDLDKMEALLTERRATTVRSTMDRAAEFGRIPL 205

Query: 215 VKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMG 274
             +  +     G  P     K +           +    S++  +           + + 
Sbjct: 206 GYVAQT---VSGATPSTSIAKYWADSAESGIHWVSIGDMSSVPVV-------LETQKYVS 255

Query: 275 LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
            +       ++  PG ++F          S           I   +       +   +L 
Sbjct: 256 TEGRKTARLKVAGPGTVLFAMYGATLGAVSRLGVDACWNQAILGVF--PHESRLSPEFLE 313

Query: 335 WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
             + +          G+  + +L  E VK LP+ +PP++ Q  I+  ++ +TA ID ++ 
Sbjct: 314 SALIALKPSLEALHRGN-TQNNLNAEQVKGLPIPLPPLEVQEAISQELSEKTAEIDAMLA 372

Query: 395 KIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
            I +   LL ERR++ IAAAVTGQID+    +
Sbjct: 373 DITELRDLLAERRAAVIAAAVTGQIDIPAAEE 404



 Score = 60.2 bits (144), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 33/187 (17%), Positives = 70/187 (37%), Gaps = 18/187 (9%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSESG----------KDIIYIGLEDVESGTGKY-LPKD 67
           G IP       +    +  +G T  +             I ++ + D+ S        K 
Sbjct: 201 GRIP-------LGYVAQTVSGATPSTSIAKYWADSAESGIHWVSIGDMSSVPVVLETQKY 253

Query: 68  GNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW 127
            ++    T+ + +   G +L+   G  L        D   +   L + P +         
Sbjct: 254 VSTEGRKTARLKVAGPGTVLFAMYGATLGAVSRLGVDACWNQAILGVFPHESRLSPEFLE 313

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
              I +   +EA+  G T ++ + + +  +P+P+PPL  Q  I +++  +T  ID ++ +
Sbjct: 314 SALIALKPSLEALHRGNTQNNLNAEQVKGLPIPLPPLEVQEAISQELSEKTAEIDAMLAD 373

Query: 188 RIRFIEL 194
                +L
Sbjct: 374 ITELRDL 380


>gi|308179091|ref|YP_003918497.1| type I restriction-modification system specificity subunit
           [Arthrobacter arilaitensis Re117]
 gi|307746554|emb|CBT77526.1| type I restriction-modification system specificity subunit
           [Arthrobacter arilaitensis Re117]
          Length = 393

 Score = 80.6 bits (197), Expect = 4e-13,   Method: Composition-based stats.
 Identities = 52/408 (12%), Positives = 117/408 (28%), Gaps = 38/408 (9%)

Query: 29  PIKRFTK-LNTGRT---SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
            +    + +  G+    +E+   I    +E +  G            +   +   I   G
Sbjct: 5   TLGDVFERITNGKNVRQNETDGGIRITRIETISMGIVDPTRVGYAGLEHSDNEKWILRDG 64

Query: 85  QILYGKLGP---YLRKAIIAD--FDGICSTQFLVLQPKD--VLPELLQGWLLSIDVTQRI 137
            IL   +       + A+  +   + +     L L+P    V       +  +     ++
Sbjct: 65  DILMSHINSPVHVGKCALYTNDLPEMVHGMNLLRLEPNKSLVDSSYAVRYFRTPAFRAQL 124

Query: 138 EA-ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
              I +    +    K + +I + +P L EQ  I   +                   L  
Sbjct: 125 RKFINQAVNQASISVKNLKSIEIALPQLEEQRRIAGILDKADALRGKRRKAIAHLDVLG- 183

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
              Q++   +        + ++D+ + +V               V     K    + +  
Sbjct: 184 ---QSIFHEMFAGLSGDALTLRDASLRFV------SGRNMVGTGVNAHPTKKVLKVNA-- 232

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR--SAQVMERG 314
              +        + + + +  +       V+ G+++        D   +      V    
Sbjct: 233 ---ASSGEFDGSQVKPLPMNYDP-PAAHRVEVGDLIVTRASGTKDLIGVATLVDSVPSET 288

Query: 315 IITSAYM--AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVP 370
            +        V P  + + Y  +L RS    K      SG     ++    +    +++P
Sbjct: 289 YLPDKLWKAVVNPRLLLAEYFRFLTRSTTYRKYVSNAASGAAGVSNISQAKLLDFQLVLP 348

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           PI+ Q    +      A I+ L       +  L     S    A  G+
Sbjct: 349 PIESQQAFADR----MAAIESLKMTYRAQLADLDALFLSLQDRAFKGE 392


>gi|315453994|ref|YP_004074264.1| putative type I restriction-modification system [Helicobacter felis
           ATCC 49179]
 gi|315133046|emb|CBY83674.1| putative type I restriction-modification system [Helicobacter felis
           ATCC 49179]
          Length = 247

 Score = 80.6 bits (197), Expect = 4e-13,   Method: Composition-based stats.
 Identities = 33/184 (17%), Positives = 67/184 (36%), Gaps = 3/184 (1%)

Query: 221 GIEW--VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE 278
           G+EW  +G + +              +  + +L+ +      +             + PE
Sbjct: 38  GVEWVELGEIGEFVRGSGLTKADLHPDNPSGELVGAIHYGEIHTFYNTHTAQTKSFVSPE 97

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
             +  + V  G+I+               A + +  I+T  + A+  H  +  YLA+   
Sbjct: 98  LAKKLKPVYCGDIILTTTSEDLKGLCKAVAWLGDSQIVTGGHAAIFRHHQNPKYLAYWFH 157

Query: 339 SYDLCKVFYAMGSGLRQS-LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
           + D  K    +  G + + +K  D+ R  + +PP+  Q  I  +++   A    L E I 
Sbjct: 158 TKDFIKQKRKIAYGTKVTEVKPSDLARCIIPLPPLAIQAKIVEILDQFNALTTDLQEGIP 217

Query: 398 QSIV 401
             I 
Sbjct: 218 AEIE 221



 Score = 55.6 bits (132), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 27/208 (12%), Positives = 64/208 (30%), Gaps = 14/208 (6%)

Query: 22  PKHWKVVPIKRFTKLNTGR---------TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           P+  + V +    +   G           + SG+ +  I   ++ +    +  +  +   
Sbjct: 36  PQGVEWVELGEIGEFVRGSGLTKADLHPDNPSGELVGAIHYGEIHTFYNTHTAQTKSFVS 95

Query: 73  SDTSTV-SIFAKGQILYGKLGP----YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW 127
            + +        G I+            +         I +     +      P+ L  W
Sbjct: 96  PELAKKLKPVYCGDIILTTTSEDLKGLCKAVAWLGDSQIVTGGHAAIFRHHQNPKYLAYW 155

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
             + D  ++   I  G  ++      +    +P+PPLA Q  I E +         L   
Sbjct: 156 FHTKDFIKQKRKIAYGTKVTEVKPSDLARCIIPLPPLAIQAKIVEILDQFNALTTDLQEG 215

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDV 215
               IE  +++ Q  ++ ++    +   
Sbjct: 216 IPAEIEAREKQYQHYLNTLLNFKESACQ 243


>gi|240128340|ref|ZP_04741001.1| hypothetical protein NgonS_06871 [Neisseria gonorrhoeae SK-93-1035]
 gi|268686737|ref|ZP_06153599.1| conserved hypothetical protein [Neisseria gonorrhoeae SK-93-1035]
 gi|268627021|gb|EEZ59421.1| conserved hypothetical protein [Neisseria gonorrhoeae SK-93-1035]
          Length = 405

 Score = 80.6 bits (197), Expect = 4e-13,   Method: Composition-based stats.
 Identities = 66/422 (15%), Positives = 138/422 (32%), Gaps = 43/422 (10%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            H+K   I+     N       G     + +  ++    +    +  +          F 
Sbjct: 2   NHFKKQQIQNIADFNPREQLAKGALAKSVPMAMLKEFQRQITGYEIKAFNGGAK----FR 57

Query: 83  KGQILYGKLGPYLRK-------AIIADFDGICSTQFLVLQPKD-VLPELLQGWLLSIDVT 134
            G  L  K+ P L          +        ST+F+VL+ K+   PE L  + +S D  
Sbjct: 58  NGDTLLAKITPCLENGKTAFVDILDDGEVAFGSTEFIVLRAKNETNPEFLYYFAISPDFR 117

Query: 135 QRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
           +R     EG +     +   +  + +PIP    Q  I   +      +D  I    +   
Sbjct: 118 KRAIECMEGTSGRQRVNENALKTLELPIPEPQIQQSIAAVL----SALDKKIALNKQINA 173

Query: 194 LLKEKKQALVSYIVTKGLNPD---VKMKDSGIEWVG------LVPDHWEVKPFFALVTEL 244
            L+E  + L  Y   +   PD      K SG + V        +P  WEV+    +   +
Sbjct: 174 RLEEMAKTLYDYWFVQFDFPDANGKPYKSSGGDMVFDETLKREIPKGWEVRSLNQVADIV 233

Query: 245 NRKNTKLIESNILSLSYGNI--IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK 302
             ++      N+              + R   ++  +    +    G+I+        D 
Sbjct: 234 MGQSPDGASYNLEQEGTIFFQGSTDFDWRFPNVRQYTTSPTRFAQKGDILLSVRAPVGDL 293

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDV 362
                        I     A++    ++++L ++M+ +               S+  +D+
Sbjct: 294 -----NISPFECCIGRGLAALRSKSGNNSFLFYVMKYFKTVFERRNTEGTTFGSITKDDL 348

Query: 363 KRLPVLVPP---IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
             L ++ P    +++  +I        ++ D ++    Q    L + R   +   + GQ+
Sbjct: 349 HSLKLVAPADNVLEKYNEIA-------SKYDEMIFIGSQQNHQLTQLRDFLLPMLMNGQV 401

Query: 420 DL 421
            +
Sbjct: 402 SV 403



 Score = 62.5 bits (150), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 36/204 (17%), Positives = 64/204 (31%), Gaps = 8/204 (3%)

Query: 10  YKDSGV-----QWIG-AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKY 63
           YK SG      + +   IPK W+V  + +   +  G++ +     +         G+  +
Sbjct: 200 YKSSGGDMVFDETLKREIPKGWEVRSLNQVADIVMGQSPDGASYNLEQEGTIFFQGSTDF 259

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPEL 123
             +  N RQ  TS      KG IL     P      I+ F+         L+ K      
Sbjct: 260 DWRFPNVRQYTTSPTRFAQKGDILLSVRAPV-GDLNISPFECCIGRGLAALRSKSGNNSF 318

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           L  +++    T       EG T        + ++ +  P         E        I  
Sbjct: 319 LF-YVMKYFKTVFERRNTEGTTFGSITKDDLHSLKLVAPADNVLEKYNEIASKYDEMIFI 377

Query: 184 LITERIRFIELLKEKKQALVSYIV 207
              +  +  +L       L++  V
Sbjct: 378 GSQQNHQLTQLRDFLLPMLMNGQV 401


>gi|282933735|ref|ZP_06339090.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus jensenii 208-1]
 gi|281302114|gb|EFA94361.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus jensenii 208-1]
          Length = 412

 Score = 80.6 bits (197), Expect = 4e-13,   Method: Composition-based stats.
 Identities = 51/401 (12%), Positives = 117/401 (29%), Gaps = 37/401 (9%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIG----LEDVESGTGKYLPKDGNSRQS---DTST 77
           WK V +    ++  G T  +     + G        E G   YL +            S+
Sbjct: 38  WKKVKLGDVAEIIGGGTPSTSNLEYWDGNINWFTPTEVGKTIYLHESQRKLSELGLKKSS 97

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
             +   G IL+          II +     +  F  +QP   + +    + LS  + +  
Sbjct: 98  ARLLNPGAILFTSRAGIGNTGIIINPSA-TNQGFQSIQPNKNIIDSYFIFCLSSRLKRYA 156

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
                G+T +      +    + I    EQ  I   I +    +     +     +L K 
Sbjct: 157 LKHSAGSTFTEISGSEMKKAKIRICAKNEQNKISTCIKSLDSLLSLQQRKLELEKQLKKF 216

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
             Q ++S        P+++  D    W  +            ++++     TK       
Sbjct: 217 CLQNILSD---NKKCPNLRFHDFSTNWKKVKVGDIFTVTRGKVLSKDKISKTKDHIMKYP 273

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
             S   +   L         E   T+          R    +    ++    + + G + 
Sbjct: 274 VYSSQTLNNGLLGYYHDYLFEDAITWTTDGANAGTVRLRAGKFYGTNVNGVLLSKNGYVN 333

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV-PPIKEQF 376
            A        ++     +             +       L    ++ +   + P ++EQ 
Sbjct: 334 DA----NAEALNQIAWKY-------------VSKVGNPKLMNNVMQNIMFSIAPSVEEQV 376

Query: 377 DITN--VINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            I+   +++ ++ +I       + +I +  + +   +    
Sbjct: 377 IISKLFILHSKSLKI------YQANINVYTQLKQFLLQNLF 411



 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 28/209 (13%), Positives = 68/209 (32%), Gaps = 15/209 (7%)

Query: 204 SYIVTKGLNPDVKMKDSGIEW----VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
           ++   + L P V+ +     W    +G V +            E    N        +  
Sbjct: 18  THADEQRLYPKVRFRGFDEPWKKVKLGDVAEIIGGGTPSTSNLEYWDGNINWFTPTEVGK 77

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
           +      + +   +GLK     + ++++PG I+F       +   + +     +G  +  
Sbjct: 78  TIYLHESQRKLSELGLK---KSSARLLNPGAILFTSRAGIGNTGIIINPSATNQGFQS-- 132

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
                   I  +Y  + + S                 +   ++K+  + +    EQ  I+
Sbjct: 133 --IQPNKNIIDSYFIFCLSSRLKRYALKHSAGSTFTEISGSEMKKAKIRICAKNEQNKIS 190

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRS 408
             I      +D L+   ++ + L K+ + 
Sbjct: 191 TCI----KSLDSLLSLQQRKLELEKQLKK 215


>gi|320536547|ref|ZP_08036572.1| type I restriction modification DNA specificity domain protein
           [Treponema phagedenis F0421]
 gi|320146602|gb|EFW38193.1| type I restriction modification DNA specificity domain protein
           [Treponema phagedenis F0421]
          Length = 444

 Score = 80.6 bits (197), Expect = 4e-13,   Method: Composition-based stats.
 Identities = 48/366 (13%), Positives = 109/366 (29%), Gaps = 30/366 (8%)

Query: 58  SGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADF---DGICSTQFLVL 114
           +           S             G I Y      +    I          S  ++V 
Sbjct: 65  NNQTGIFDAYIESGSKIKQKYKRMENGWIAYNPYRVNIGSIGIKKKEHKYEFISPAYVVF 124

Query: 115 -QPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
                +LPE L   + ++     I     G+   +  ++ +  + +P+P L+EQ      
Sbjct: 125 SCQNSLLPEYLFLTMKTLKFNSIIRDNTTGSVRQNLSYENLKTLQIPLPTLSEQQ---AL 181

Query: 174 IIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWE 233
           I     ++           +  KE ++ L+  +  +        KDS +E+V        
Sbjct: 182 IDTYNAKLQQAEDLEKLAEQKKKEIEEYLLQELGIEEHENQSVKKDSYLEFVRFKDIERW 241

Query: 234 VKPFFALVTELNRKNTKLIES-------------------NILSLSYGNIIQKLETRNMG 274
                      +  N   +                     +I  +   +I +     +  
Sbjct: 242 DCYNNKNKGHSSFYNEVPLSKILIEKPQYGAAYKAKDKASDIRYIRITDITEDGSLTDTF 301

Query: 275 LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH--GIDSTY 332
              + ++   +++  + +         K  L   +   + I     +    +   +D  Y
Sbjct: 302 ASADQFKEQYLLNQYDFLIARSGATVGKTFLYE-EKYGKAIFAGYLIRFILNKSMVDPYY 360

Query: 333 LAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
           +    +SY   K          + ++  +     P+++PP+  Q  I   I+ +  RI  
Sbjct: 361 ILVYTKSYIYKKWIQNNMRVSGQPNINSQQYMDSPIILPPLDIQNRIVAHISEQKERIKE 420

Query: 392 LVEKIE 397
           L ++ E
Sbjct: 421 LKQQAE 426



 Score = 72.1 bits (175), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 25/186 (13%), Positives = 67/186 (36%), Gaps = 4/186 (2%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG 289
             + +      + E + K           +   N    +    +    +  + Y+ ++ G
Sbjct: 32  SRFPIVTLNEHIKEESTKYNISDPQTNYGMLGVNNQTGIFDAYIESGSKIKQKYKRMENG 91

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
            I +    +      ++  +     I  +  +    + +   YL   M++     +    
Sbjct: 92  WIAYNPYRVNIGSIGIKKKEHKYEFISPAYVVFSCQNSLLPEYLFLTMKTLKFNSIIRDN 151

Query: 350 GSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
            +G +RQ+L +E++K L + +P + EQ  + +  N +  + + L +  EQ    ++E   
Sbjct: 152 TTGSVRQNLSYENLKTLQIPLPTLSEQQALIDTYNAKLQQAEDLEKLAEQKKKEIEEY-- 209

Query: 409 SFIAAA 414
             +   
Sbjct: 210 -LLQEL 214


>gi|258654734|ref|YP_003203890.1| Restriction endonuclease S subunits-like protein [Nakamurella
           multipartita DSM 44233]
 gi|258557959|gb|ACV80901.1| Restriction endonuclease S subunits-like protein [Nakamurella
           multipartita DSM 44233]
          Length = 411

 Score = 80.6 bits (197), Expect = 4e-13,   Method: Composition-based stats.
 Identities = 26/167 (15%), Positives = 59/167 (35%), Gaps = 7/167 (4%)

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS---AQVMERGIITSA 319
           N I++     +G++         +  G+I+F        +  +R+     +   G + + 
Sbjct: 49  NEIREAGIARIGVEDAHRLRRHALREGDIIFSRRGDVGRRSLVRTREAGWLCGTGCLAAR 108

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
           + + +     +    +L  +     +      G   +L    +  LPV +P   EQ  I 
Sbjct: 109 FGSDRTTVNPAYVADYLGGTSAQAWLVDNAVGGTMPNLNTSILSALPVWLPSKLEQDRIV 168

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
             +      ID     I+  I   +  +   +   +TG+  L G ++
Sbjct: 169 AALEDVRKVIDS----IQHLIAKRQAIKQGMMQHLLTGRTRLPGFNE 211



 Score = 80.2 bits (196), Expect = 6e-13,   Method: Composition-based stats.
 Identities = 47/354 (13%), Positives = 117/354 (33%), Gaps = 25/354 (7%)

Query: 81  FAKGQILYGKLGPYLRKAIIA--DFDGICSTQFLVLQP----KDVLPELLQGWLLSIDVT 134
             +G I++ + G   R++++   +   +C T  L  +       V P  +  +L      
Sbjct: 72  LREGDIIFSRRGDVGRRSLVRTREAGWLCGTGCLAARFGSDRTTVNPAYVADYLGGTSAQ 131

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             +     G TM + +   +  +P+ +P   EQ  I   +      ID++     +   +
Sbjct: 132 AWLVDNAVGGTMPNLNTSILSALPVWLPSKLEQDRIVAALEDVRKVIDSIQHLIAKRQAI 191

Query: 195 LKEKKQALVS-YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
            +   Q L++      G N        G                 +  + L     +L  
Sbjct: 192 KQGMMQHLLTGRTRLPGFNEAWSETTLGAVARFSKGAGLPKAALTSSGSTLCIHYGELFT 251

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
                +    +  +       +  E           +++    D+     +  SA     
Sbjct: 252 FYGPEIRQ--VFSRTTPTGRVVVSEDL---------DVLMPTSDVTPRGLAKASAIHGAG 300

Query: 314 GIITSAYMAVKPH--GIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
            ++    + ++P        ++A  +R +   +V   +       L   D++   + +P 
Sbjct: 301 VVLGGDILIIRPDKAHAHGPFVAHAIRHHA-DQVLQLVRGSTVYHLYATDMRNFALSLPS 359

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGES 425
           + EQ  I   +     +++ L E++ ++    +  ++  +   +TG   L  E+
Sbjct: 360 VNEQRAIAGALLDADRQLEALEERLMKA----RAFKTGMMQRLLTGHTRLPTEA 409


>gi|60681330|ref|YP_211474.1| putative type I restriction enzyme, partial [Bacteroides fragilis
           NCTC 9343]
 gi|60492764|emb|CAH07538.1| putative type I restriction enzyme, partial [Bacteroides fragilis
           NCTC 9343]
          Length = 372

 Score = 80.6 bits (197), Expect = 4e-13,   Method: Composition-based stats.
 Identities = 60/393 (15%), Positives = 128/393 (32%), Gaps = 52/393 (13%)

Query: 24  HWKVVPIKRFTKLNTGRTSE--SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
            WK   I     + + + +   +  + I + LE +  GTG+ L    ++ Q        F
Sbjct: 26  EWKKDIIGNVISVKSEKYNPHSNRTEFICVELESISQGTGELLETFNSAEQKSIKNK--F 83

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
           + G +L+GKL PYLRK  +  F+G+CS++  V++   + P  L  ++ +           
Sbjct: 84  SPGTVLFGKLRPYLRKFYLPYFEGVCSSEIWVMRSNKIEPAFLYSFIQTPYFISLANQSS 143

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
                        G I             R KI      ID  I  + + I  L+   + 
Sbjct: 144 GSK----MPRADWGLIETSKIAYPPNSAERVKIGKFLKLIDERIATQNKIIAHLESLIKG 199

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK-NTKLIESNILSLS 260
           L + ++                       +W+      ++T    K    L E NI    
Sbjct: 200 LTNQLLI-------------------PNSNWQPTTIGQVLTINPGKDYKHLKEGNIPVYG 240

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
            G  +  +       +         ++                        +   I + +
Sbjct: 241 TGGYMLSVNDYLYDGESVCIGRKGTINK-----------------PIFLTGKFWTIDTLF 283

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
                + +   +  +L ++ D  K   A G     SL    ++++ + +P +  Q  I  
Sbjct: 284 YTSNFNSLLPRFGYYLFKTIDWLKYNEASG---VPSLSKVSIEKIHISLPSLAIQNSICR 340

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           +++    ++       E  +   + +++  +  
Sbjct: 341 LLDSIYDKL----ALEESVLNNHQTQKAFILQQ 369



 Score = 57.1 bits (136), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 19/190 (10%), Positives = 54/190 (28%), Gaps = 6/190 (3%)

Query: 228 VPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVD 287
            P+         +   ++ K+ K    +  +      ++ +      L        Q   
Sbjct: 20  FPEFSGEWKKDIIGNVISVKSEKYNPHSNRTEFICVELESISQGTGELLETFNSAEQKSI 79

Query: 288 PGEIVFRFIDLQNDKRSLRSAQVME-RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF 346
             +     +     +  LR   +    G+ +S    ++ + I+  +L   +++     + 
Sbjct: 80  KNKFSPGTVLFGKLRPYLRKFYLPYFEGVCSSEIWVMRSNKIEPAFLYSFIQTPYFISLA 139

Query: 347 YAMGSGLRQSLKFEDVKRLPVLVPPIK-EQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
                       +  ++   +  PP   E+  I   +      ID  +    + I  L+ 
Sbjct: 140 NQSSGSKMPRADWGLIETSKIAYPPNSAERVKIGKFL----KLIDERIATQNKIIAHLES 195

Query: 406 RRSSFIAAAV 415
                    +
Sbjct: 196 LIKGLTNQLL 205


>gi|154500307|ref|ZP_02038345.1| hypothetical protein BACCAP_03974 [Bacteroides capillosus ATCC
           29799]
 gi|150271039|gb|EDM98313.1| hypothetical protein BACCAP_03974 [Bacteroides capillosus ATCC
           29799]
          Length = 305

 Score = 80.6 bits (197), Expect = 5e-13,   Method: Composition-based stats.
 Identities = 39/309 (12%), Positives = 99/309 (32%), Gaps = 7/309 (2%)

Query: 114 LQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
             P D + ++         + +  + I +G    +  W+ +  I  P PP   Q  I + 
Sbjct: 3   FIPYDGISDVRFVKYCFDMLQRDCKQISQGTAQDNLSWQKLSTIEFPAPPFETQRRIADI 62

Query: 174 IIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWE 233
           + A    I+    +     E  +   +     +   G      +      W     D + 
Sbjct: 63  LSAYDDLIENNRKQIKLLEEATQRLYKEWFVDLRFPGYEHTKIVDGVPEGWKKSRADTFF 122

Query: 234 VKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG-EIV 292
                       ++     +  I  +S  ++     +  +    E      IV     IV
Sbjct: 123 NITIGKTPPRAEQQWFTDAKKGIPWVSISDM--GDTSAFIFDTSEELTADAIVKHNVTIV 180

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
                L + K ++    +    + T+  +A       S          +         S 
Sbjct: 181 PAGTVLLSFKLTVGRVSITGADMCTNEAIAHFRIADPSNREYAYCYLKNYHYDTLGSTSS 240

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           + +++  + +K +P ++P       I +  +     +   ++  +Q I+ L++ R   + 
Sbjct: 241 ISKAVNSKIIKAMPFVMPN----HAIMDEFSEHCRPLLEQIKTKQQVILNLQQARDRLLP 296

Query: 413 AAVTGQIDL 421
             ++G++++
Sbjct: 297 KLMSGEVEV 305



 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 28/198 (14%), Positives = 55/198 (27%), Gaps = 14/198 (7%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSES---------GKDIIYIGLEDV--ESGTGKYLPKDGN 69
           +P+ WK      F  +  G+T             K I ++ + D+   S       ++  
Sbjct: 109 VPEGWKKSRADTFFNITIGKTPPRAEQQWFTDAKKGIPWVSISDMGDTSAFIFDTSEELT 168

Query: 70  SRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
           +       V+I   G +L       + +  I   D   +        +   P   +    
Sbjct: 169 ADAIVKHNVTIVPAGTVLLS-FKLTVGRVSITGADMCTNEAIA--HFRIADPSNREYAYC 225

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
            +            +     + K I  +P  +P  A      E       +I T     +
Sbjct: 226 YLKNYHYDTLGSTSSISKAVNSKIIKAMPFVMPNHAIMDEFSEHCRPLLEQIKTKQQVIL 285

Query: 190 RFIELLKEKKQALVSYIV 207
              +        L+S  V
Sbjct: 286 NLQQARDRLLPKLMSGEV 303


>gi|327472744|gb|EGF18171.1| type I restriction enzyme, S subunit [Streptococcus sanguinis
           SK408]
          Length = 433

 Score = 80.6 bits (197), Expect = 5e-13,   Method: Composition-based stats.
 Identities = 50/437 (11%), Positives = 127/437 (29%), Gaps = 48/437 (10%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKD---------IIYIGLEDVESGTGKYLPKDGNSRQSD 74
            W++  +      + G++    ++            +   DV++        D       
Sbjct: 5   SWEITSLSELGAFSRGKSKHRPRNDAKLFEGGKYPLVQTGDVKAANLYITKNDSYYNDFG 64

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
                ++  G +    +   + +  I  +        +           L  +     + 
Sbjct: 65  LKQSKLWPAGTLCIT-IAANIAETAILSYPMCFPDSIVGFNANPEKSSELFVYYFFEYIK 123

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           + I+    G+   + +   +  + + +P    Q  I E +      ID  I    +  + 
Sbjct: 124 KEIQKSASGSIQDNINIDYLSKMRIKVPEKKYQDKIVELL----SSIDKKILLNNQINQE 179

Query: 195 LKEKKQALVSYIVTKGLNPDV---KMKDSGIEWVG------LVPDHWEVKPFFALVTELN 245
           LK   + L  Y   +   PD      K SG + V        +P+ W V  F + +++  
Sbjct: 180 LKAMAKTLYDYWFVQFDFPDQNGNPYKSSGGKMVYNPDLKREIPEGWGVTTFSSWISDNK 239

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPE---------SYETYQIVDPGEIVFRFI 296
             +     S        + I+  +   +    +              +++   +IV    
Sbjct: 240 TGDWGKETSQGNYTLEVDCIRGADINGLSGNGKTDMPTRFILEKNKNKLLTDFDIVIEIS 299

Query: 297 DLQNDKRSLRSAQVMERGIITSAYMAVKPHGI------DSTYLAWL------MRSYDLCK 344
                + + R   + E  +       +  +        +             +    +  
Sbjct: 300 GGSPTQSTGRIVGISENVLNRFDLPLICSNFCKAVSLKEQETFYNFVYEWKNLYDNGVLF 359

Query: 345 VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLK 404
            +    SG++  L    V    +  PPI       + ++    +I +L+    +    L 
Sbjct: 360 SWEGKTSGIKNLLFDSFVTNYHIAQPPIGLMEQFFDYVSSVDRKIQLLL----KQNQELT 415

Query: 405 ERRSSFIAAAVTGQIDL 421
           + R   +   + GQ+ +
Sbjct: 416 QLRDWLLPMLMNGQVKV 432


>gi|255322117|ref|ZP_05363264.1| type I restriction-modification system, S subunit [Campylobacter
           showae RM3277]
 gi|255300815|gb|EET80085.1| type I restriction-modification system, S subunit [Campylobacter
           showae RM3277]
          Length = 290

 Score = 80.6 bits (197), Expect = 5e-13,   Method: Composition-based stats.
 Identities = 13/88 (14%), Positives = 35/88 (39%), Gaps = 4/88 (4%)

Query: 333 LAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
           +  + ++    K           S+   ++    + +PP+ EQ  I  +++     I++ 
Sbjct: 1   MIHIFKTNTFFKQVKNDLGATINSINNGNLLNFKIPLPPLDEQKKIAEILSTWDEAINLT 60

Query: 393 VEKIEQSIVLLKERRSSFIAAAVTGQID 420
           +  IE      K+ + + +   +T +I 
Sbjct: 61  INLIESK----KQFKKALMQNLLTAKIR 84



 Score = 71.0 bits (172), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 51/290 (17%), Positives = 99/290 (34%), Gaps = 30/290 (10%)

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
               GAT++  +   + N  +P+PPL EQ  I E +      I+  I       +  K  
Sbjct: 15  KNDLGATINSINNGNLLNFKIPLPPLDEQKKIAEILSTWDEAINLTINLIESKKQFKKAL 74

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
            Q L++  +      D                 W+      ++ E   K+    E   +S
Sbjct: 75  MQNLLTAKIRFPQFKDE----------------WKETKLGKILKEHKIKSDNKSEVFSVS 118

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV-MERGIIT 317
           +  G II ++E        E    Y +V P ++V+      +    +    +     I++
Sbjct: 119 VHKG-IINQIEHLGRSFSAEDTSNYNLVKPFDLVYTKSPTGDFPFGIIKQNLNPFNVIVS 177

Query: 318 SAYMAVKP-HGIDSTYLAWLMRS-----YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP- 370
             Y   +P +    T L +   S       L  +          ++  +      +LVP 
Sbjct: 178 PLYGVFEPINKFLGTLLHYFFESSIRTNNYLKPIIQKGAKNTI-NISNDTFLSRSILVPI 236

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQID 420
            + EQ  I  V+       D  +  +   +  LK+++   +   + G+I 
Sbjct: 237 NLDEQQKIAEVLMA----CDDEINLLNLKLENLKKQKQGLMQKLLKGEIR 282



 Score = 42.1 bits (97), Expect = 0.18,   Method: Composition-based stats.
 Identities = 31/220 (14%), Positives = 73/220 (33%), Gaps = 22/220 (10%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLP 65
            +PQ+KD            WK   + +  K +  ++ ++  ++  + +        ++L 
Sbjct: 84  RFPQFKD-----------EWKETKLGKILKEHKIKS-DNKSEVFSVSVHKGIINQIEHLG 131

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD-----FDGICSTQFLVLQPKDVL 120
           +  +    DTS  ++     ++Y K         I       F+ I S  + V +P +  
Sbjct: 132 RSFS--AEDTSNYNLVKPFDLVYTKSPTGDFPFGIIKQNLNPFNVIVSPLYGVFEPINKF 189

Query: 121 PELLQGWLLSIDVT--QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
              L  +     +     ++ I +    +  +      +   I         ++      
Sbjct: 190 LGTLLHYFFESSIRTNNYLKPIIQKGAKNTINISNDTFLSRSILVPINLDEQQKIAEVLM 249

Query: 179 VRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMK 218
              D  I      +E LK++KQ L+  ++   +      K
Sbjct: 250 A-CDDEINLLNLKLENLKKQKQGLMQKLLKGEIRTCYVKK 288


>gi|118443819|ref|YP_878480.1| type I restriction-modification system specificity subunit
           [Clostridium novyi NT]
 gi|118134275|gb|ABK61319.1| type I restriction-modification system specificity subunit,
           putative [Clostridium novyi NT]
          Length = 401

 Score = 80.6 bits (197), Expect = 5e-13,   Method: Composition-based stats.
 Identities = 59/413 (14%), Positives = 123/413 (29%), Gaps = 32/413 (7%)

Query: 28  VPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGK-YLPKDGNSRQSDTSTVS 79
           + +   +++  G+    G D         YI   D+  G  K    +  + +  +T    
Sbjct: 2   IKLGEISEIKGGKRLPKGCDFVEQETKYKYIRARDIGEGKIKCDELQYIDEKTYETIKNY 61

Query: 80  IFAKGQILYGKLGPYLRKAIIA----DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
             +   +    +G  +    I     D   +      + + K+     L  +L      Q
Sbjct: 62  TVSTNDVCITIVGANIGDIGIVSEELDGANLTENAVKITKLKNYDSSFLLYYLSMDKSKQ 121

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            ++ +  GA         I  I +P   +  Q  +   I      I+  +       E  
Sbjct: 122 EMQTLAAGAAQPKLGIYKIKEILVPKVDINIQKKVVNIISKYDYLIENNLKRIKLLEESA 181

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK-LIES 254
           +   +         G            E+V  VP  W       +V+         L E 
Sbjct: 182 ELIYKEWFVNFRFPGYEKC--------EFVDGVPKGWSKVHLSEIVSTQYGFTESALNED 233

Query: 255 NILSLSYGNIIQKLETRNMG-----LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
             +    G  I K    N          ++ +    +   +I+   +     K  +    
Sbjct: 234 TGVKYLRGKDINKTSYINWSSVPWCKIEDNQKDKYALKKHDILVIRM-ADPGKVGIVEED 292

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVL 368
           +          + +    I   YL + + S    +      +G  R+S   + +  + +L
Sbjct: 293 IEAVFASYLIRININNDNIKPYYLFYFLNSDFYQQFISQSSTGATRKSANAKLITDVDIL 352

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           +P       +      +   + VL+  + Q    LKE R   I   + G+I++
Sbjct: 353 MPE----KKVIEQFETKITDLRVLLNNLLQQNQKLKEARDILIPKLIMGEIEV 401



 Score = 41.3 bits (95), Expect = 0.31,   Method: Composition-based stats.
 Identities = 23/137 (16%), Positives = 43/137 (31%), Gaps = 7/137 (5%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSE---SGKDIIYIGLEDVE-SGTGKYLPKDGNSRQSDTS 76
           +PK W  V +        G T         + Y+  +D+  +    +        + +  
Sbjct: 206 VPKGWSKVHLSEIVSTQYGFTESALNEDTGVKYLRGKDINKTSYINWSSVPWCKIEDNQK 265

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL---PELLQGWLLSIDV 133
                 K  IL  ++    +  I+ +        +L+    +     P  L  +L S   
Sbjct: 266 DKYALKKHDILVIRMADPGKVGIVEEDIEAVFASYLIRININNDNIKPYYLFYFLNSDFY 325

Query: 134 TQRIEAICEGATMSHAD 150
            Q I     GAT   A+
Sbjct: 326 QQFISQSSTGATRKSAN 342


>gi|148984625|ref|ZP_01817893.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP3-BS71]
 gi|147923016|gb|EDK74131.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP3-BS71]
 gi|301799880|emb|CBW32456.1| putative type I RM modification enzyme [Streptococcus pneumoniae
           OXC141]
          Length = 368

 Score = 80.6 bits (197), Expect = 5e-13,   Method: Composition-based stats.
 Identities = 40/339 (11%), Positives = 83/339 (24%), Gaps = 24/339 (7%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V +        G   +  +D    G E +          + N          I   G 
Sbjct: 2   KKVKLGEVATFINGYAFKP-QDWSSEGKEIIRIQNLTKTSTEINYYSGTIDKKYIVEAGD 60

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           IL    G  L          + +     +    +  +      +     Q       G+T
Sbjct: 61  ILISWSGT-LGVFQWRGRSAVLNQHIFKVVLDKIDIDKSYFKYVVEKGLQDAVKHTHGST 119

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
           M H   K   NI +P   L EQ  I  ++   +  I     +                  
Sbjct: 120 MKHLTKKYFDNIIVPYTNLGEQQRIASELDLLSKLILRRQEQLEELNL------------ 167

Query: 206 IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII 265
                L      +  G   +    D+              + +    E   L L+  N+ 
Sbjct: 168 -----LVKSRFNEMFGENKIFESIDNLFDIIDGDRGKNYPKSDELFSEEYCLFLNTKNVT 222

Query: 266 QKLETRN----MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
           +   + +    +    +       ++  +IV        +          +   I S  +
Sbjct: 223 KNGFSFDTKQFITKTKDKLLRKGKLERYDIVLTTRGTVGNVAYYDELIKYKHLRINSGMV 282

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFE 360
            ++P   +     +++           +    +  L   
Sbjct: 283 ILRPKTPNLNQ-KFIIHVLRNNNYSRVISGSAQPQLPIT 320



 Score = 54.8 bits (130), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/142 (11%), Positives = 41/142 (28%), Gaps = 10/142 (7%)

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
            +  +     + +   IV+ G+I+  +                   ++      V    I
Sbjct: 39  TSTEINYYSGTIDKKYIVEAGDILISWSGTLG-----VFQWRGRSAVLNQHIFKVVLDKI 93

Query: 329 DSTYLAW-LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           D     +  +    L            + L  +    + V    + EQ  I + ++    
Sbjct: 94  DIDKSYFKYVVEKGLQDAVKHTHGSTMKHLTKKYFDNIIVPYTNLGEQQRIASELD---- 149

Query: 388 RIDVLVEKIEQSIVLLKERRSS 409
            +  L+ + ++ +  L     S
Sbjct: 150 LLSKLILRRQEQLEELNLLVKS 171


>gi|183603438|ref|ZP_02716813.2| type I site-specific deoxyribonuclease chain S [Streptococcus
           pneumoniae CDC3059-06]
 gi|183576866|gb|EDT97394.1| type I site-specific deoxyribonuclease chain S [Streptococcus
           pneumoniae CDC3059-06]
          Length = 424

 Score = 80.6 bits (197), Expect = 5e-13,   Method: Composition-based stats.
 Identities = 61/424 (14%), Positives = 135/424 (31%), Gaps = 66/424 (15%)

Query: 34  TKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
            ++  G +    KD        I +I + D E G           ++S  +      KG 
Sbjct: 2   VEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINNVKEKIKKSGLNKTRFVKKGT 61

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID-VTQRIEAICEGA 144
            L      + R  I+     I      +   ++ L +    ++LS + V  +  ++  GA
Sbjct: 62  FLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYLFYILSSNVVYSQFLSLISGA 121

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK----Q 200
            + + +   + +I +P+PPL+EQ  I E I +   ++D       R  +L KE      +
Sbjct: 122 VVKNLNSDKVASILIPLPPLSEQQRIIEAIESALEKVDEYAESYNRLEQLDKEFPDKLKK 181

Query: 201 ALVSYIVTKGLNPDVKMKDS-----------------------------------GIEWV 225
           +++ Y +   L       +S                                      + 
Sbjct: 182 SILQYAMQGKLVEQDPNDESVEVLLEKIRAEKQKLFEEGKIKKKDLDISIVSQGDDNSYY 241

Query: 226 GLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ- 284
           G +P +W V     + +     + K  + +I +     II+    + +       + Y  
Sbjct: 242 GNIPMNWVVIKIKDIFSMNTGLSYKKGDLSINN-KGVRIIRGGNIKPLEFSLLDNDYYID 300

Query: 285 ---------IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA----VKPHGIDST 331
                     +   +++                     G++   ++      +   I S 
Sbjct: 301 TQFISSEQVYLKHNQLITPVATSLEHIGKFARIDKDYDGVVAGGFIFQLTPFESSEIISK 360

Query: 332 YLAWLMRSYDLCKVFY---AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
           +L + + S    K       +      ++    +  L + + P +EQ  IT  +     +
Sbjct: 361 FLLFNLSSPLFYKQLKAITKLSGQALYNIPKTTLSELLIPLAPFEEQELITQKVEKLFEK 420

Query: 389 IDVL 392
           ++ L
Sbjct: 421 VNQL 424



 Score = 77.5 bits (189), Expect = 4e-12,   Method: Composition-based stats.
 Identities = 27/158 (17%), Positives = 59/158 (37%), Gaps = 8/158 (5%)

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
           + +      +K       + V  G  +            L     +  G +    ++   
Sbjct: 37  KYINNVKEKIKKSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLA---ISNYE 93

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
           + ++  YL +++ S  +   F ++ SG   ++L  + V  + + +PP+ EQ  I   I  
Sbjct: 94  NSLNKDYLFYILSSNVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLSEQQRIIEAIES 153

Query: 385 ETARIDVLVEKIEQSIVLLKE----RRSSFIAAAVTGQ 418
              ++D   E   +   L KE     + S +  A+ G+
Sbjct: 154 ALEKVDEYAESYNRLEQLDKEFPDKLKKSILQYAMQGK 191



 Score = 45.2 bits (105), Expect = 0.020,   Method: Composition-based stats.
 Identities = 35/182 (19%), Positives = 73/182 (40%), Gaps = 17/182 (9%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           G IP +W V+ IK    +NTG + +        K +  I   +++      L  D     
Sbjct: 242 GNIPMNWVVIKIKDIFSMNTGLSYKKGDLSINNKGVRIIRGGNIKPLEFSLLDNDYYIDT 301

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIA-----DFDGICSTQFLV----LQPKDVLPEL 123
              S+  ++ K   L   +   L           D+DG+ +  F+      +  +++ + 
Sbjct: 302 QFISSEQVYLKHNQLITPVATSLEHIGKFARIDKDYDGVVAGGFIFQLTPFESSEIISKF 361

Query: 124 LQGWLLSIDVTQRIEAICE--GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
           L   L S    ++++AI +  G  + +     +  + +P+ P  EQ LI +K+     ++
Sbjct: 362 LLFNLSSPLFYKQLKAITKLSGQALYNIPKTTLSELLIPLAPFEEQELITQKVEKLFEKV 421

Query: 182 DT 183
           + 
Sbjct: 422 NQ 423


>gi|291547734|emb|CBL20842.1| Restriction endonuclease S subunits [Ruminococcus sp. SR1/5]
          Length = 414

 Score = 80.2 bits (196), Expect = 5e-13,   Method: Composition-based stats.
 Identities = 49/414 (11%), Positives = 111/414 (26%), Gaps = 33/414 (7%)

Query: 29  PIKRFTKLNTGRTSES-----GKDIIYIGLEDV-ESGTGKYLPKDGNSRQSDTSTVSIFA 82
            +     +  G   +        +   +   +  E G  K                 +  
Sbjct: 5   KLGEILSVKHGWAFKGEYFAEDGEQSILTPGNFFEKGGFKPNNGKERYYTGTYPKEYLCH 64

Query: 83  KGQILYGKL----GPYLRKAIIADFDGICSTQ---FLVLQPKDVLPELLQGWLLSIDVTQ 135
           KG ++        G     A++ + +     Q    +    K +         ++  V +
Sbjct: 65  KGDLIVAMTQQAEGLLGSTALVPENNKYLHNQRIGLITCDEKRLNKLFAYYLFMTKSVRE 124

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
           ++E    G  + H   + I ++ + IP +  Q  I   + +   +I           +  
Sbjct: 125 QLERSSSGTKVKHTSPEKIYDVEVEIPDVISQQKIANLLWSIDEKIANNNAINDNLEQQA 184

Query: 196 KE-KKQALVSYIVTKGLNPDVKMKDSGIEWVG----LVPDHWEVKPFFALVTEL----NR 246
           K       + +                + W       +P  W     + +   +     +
Sbjct: 185 KLLYNYWFIQFNFPDENGNPYHSSGGQLVWNKNLQQEIPQDWRSGNLYDIADYINGIACQ 244

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
           K     E + L +     +    T +      +     I+  G+I+F +           
Sbjct: 245 KYRPFDEEHSLPVVKIREMNGGITNDTERVSSTIPAKNIISSGDILFSWSASLE-----V 299

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKR 364
                    +      V P    S+   +L  S  L                +  E ++ 
Sbjct: 300 IMWYGVDAGLNQHIFKVVPKSYFSSEYVYLQLSEYLIHFIKIAEARKTTMGHITSEHLQD 359

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
             +++PP      I    +     I  + ++I      L + R   I   + GQ
Sbjct: 360 SHIILPPAN----IIKNFSEYVRPIYQMKKQIANETSELIKLRDWLIPMLMNGQ 409



 Score = 44.0 bits (102), Expect = 0.043,   Method: Composition-based stats.
 Identities = 28/192 (14%), Positives = 58/192 (30%), Gaps = 12/192 (6%)

Query: 20  AIPKHWKVVPIKRFTKLNTG------RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
            IP+ W+   +        G      R  +    +  + + ++  G      +  ++   
Sbjct: 221 EIPQDWRSGNLYDIADYINGIACQKYRPFDEEHSLPVVKIREMNGGITNDTERVSSTIP- 279

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
                +I + G IL+      L   +    D   +     + PK           LS  +
Sbjct: 280 ---AKNIISSGDILFSWS-ASLEVIMWYGVDAGLNQHIFKVVPKSYFSSEYVYLQLSEYL 335

Query: 134 TQRIE-AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
              I+ A     TM H   + + +  + +PP        E +         +  E    I
Sbjct: 336 IHFIKIAEARKTTMGHITSEHLQDSHIILPPANIIKNFSEYVRPIYQMKKQIANETSELI 395

Query: 193 ELLKEKKQALVS 204
           +L       L++
Sbjct: 396 KLRDWLIPMLMN 407


>gi|311110800|ref|ZP_07712197.1| putative type I restriction modification DNA specificity domain
           protein [Lactobacillus gasseri MV-22]
 gi|311065954|gb|EFQ46294.1| putative type I restriction modification DNA specificity domain
           protein [Lactobacillus gasseri MV-22]
          Length = 391

 Score = 80.2 bits (196), Expect = 5e-13,   Method: Composition-based stats.
 Identities = 46/385 (11%), Positives = 105/385 (27%), Gaps = 27/385 (7%)

Query: 26  KVVPIKRFTKLNTGRTSESG------KDIIYIGLEDV------ESGTGKYLPKDGNSRQS 73
           K+  +    +  +G                +  + D+                  + R  
Sbjct: 5   KIKLLGEICEFYSGTGFPKKFQGNLEGKYPFYKVGDISKSADENKNFLTKSDNYVDERIV 64

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
            T    I     I++ K+G  L+          C     VL  K     +L  ++     
Sbjct: 65  KTLKGKIVPPKTIVFAKIGEALKLNRRMITSTECLIDNNVLGIKPKNDSILAEYIFYFMK 124

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
             ++E   E  T+       +  I + +P +  Q  I   +     +ID     +   ++
Sbjct: 125 FVKLENYSESTTVPSVRKSELEKIKIRVPSIQNQQKIISIL----EKIDKTKKSKTESLK 180

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
            L E  +A    +     +   K K S IE                 +          I 
Sbjct: 181 KLNELIKARFVEMFGDPQDSKSKWKKSTIEK-------CCTLKSGKTLPRNIENEGGNIP 233

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
              +            T +     +      I   G ++F               ++ + 
Sbjct: 234 YVKVKDMNSLENTTYITTSTRFVSDKTANKSIFPVGTVIFPKRGG---AIGTNKKRLTKV 290

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
            I     +             +L   +++  +           +  +D+  L + +PP+ 
Sbjct: 291 PICADLNIMGVIPDNTRISSYYLFEYFNMVDLNTLNNGSSVPQINNKDINPLNINIPPLS 350

Query: 374 EQFDITNVINVET-ARIDVLVEKIE 397
            Q +  N ++    ++ + +V   +
Sbjct: 351 LQNEFANFVHQVDKSKFENIVYLNK 375



 Score = 61.3 bits (147), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 34/195 (17%), Positives = 70/195 (35%), Gaps = 9/195 (4%)

Query: 217 MKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK 276
           M+D  I+ +G + + +    F               +   +S S       L   +  + 
Sbjct: 1   MEDIKIKLLGEICEFYSGTGFPKKFQGNLEGKYPFYKVGDISKSADENKNFLTKSDNYVD 60

Query: 277 PESYE--TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
               +    +IV P  IVF  I         R        +I +  + +KP   DS    
Sbjct: 61  ERIVKTLKGKIVPPKTIVFAKIGEALKLN--RRMITSTECLIDNNVLGIKPKN-DSILAE 117

Query: 335 WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
           ++       K+     S    S++  +++++ + VP I+ Q  I +++     +ID   +
Sbjct: 118 YIFYFMKFVKLENYSESTTVPSVRKSELEKIKIRVPSIQNQQKIISILE----KIDKTKK 173

Query: 395 KIEQSIVLLKERRSS 409
              +S+  L E   +
Sbjct: 174 SKTESLKKLNELIKA 188



 Score = 50.9 bits (120), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 28/169 (16%), Positives = 57/169 (33%), Gaps = 6/169 (3%)

Query: 25  WKVVPIKRFTKLNTGRTSESG-----KDIIYIGLEDVES-GTGKYLPKDGNSRQSDTSTV 78
           WK   I++   L +G+T          +I Y+ ++D+ S     Y+          T+  
Sbjct: 204 WKKSTIEKCCTLKSGKTLPRNIENEGGNIPYVKVKDMNSLENTTYITTSTRFVSDKTANK 263

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           SIF  G +++ K G  +                 ++        +   +L        + 
Sbjct: 264 SIFPVGTVIFPKRGGAIGTNKKRLTKVPICADLNIMGVIPDNTRISSYYLFEYFNMVDLN 323

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
            +  G+++   + K I  + + IPPL+ Q      +          I  
Sbjct: 324 TLNNGSSVPQINNKDINPLNINIPPLSLQNEFANFVHQVDKSKFENIVY 372


>gi|295697502|ref|YP_003590740.1| restriction endonuclease S subunits [Bacillus tusciae DSM 2912]
 gi|295413104|gb|ADG07596.1| restriction endonuclease S subunits [Bacillus tusciae DSM 2912]
          Length = 206

 Score = 80.2 bits (196), Expect = 5e-13,   Method: Composition-based stats.
 Identities = 31/203 (15%), Positives = 65/203 (32%), Gaps = 7/203 (3%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY-E 281
           E    +P+ W       +     R              Y         R   L       
Sbjct: 3   EGPYKLPEGWRWVRLGEVCQCERRTVDPRRSPKATFYLYSIPAYDESQRPQRLDGSQIGS 62

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG-IITSAYM--AVKPHGIDSTYLAWLMR 338
           +  ++ PG  +F  ++ +  +  + +    +   + ++ +M     P+ +D  YL  L+ 
Sbjct: 63  SKVVIGPGVCLFSKLNPRIPRAWVVAGVPQDGMPVASTEFMPLRPNPNVLDLDYLGKLLM 122

Query: 339 SYDLCKVFYA---MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
           +              +G RQ LK   +    + +PP+ EQ  I   +     +I      
Sbjct: 123 TEWFVSQVRLDVTGATGSRQRLKPGVILNALIPLPPLDEQGRIVAHLEAVQEKIRAFKSA 182

Query: 396 IEQSIVLLKERRSSFIAAAVTGQ 418
             ++   L+    S +  A  G+
Sbjct: 183 QSETDQELRRLEQSMLDKAFRGE 205



 Score = 53.6 bits (127), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 38/206 (18%), Positives = 77/206 (37%), Gaps = 20/206 (9%)

Query: 20  AIPKHWKVVPIKRFT-----KLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
            +P+ W+ V +          ++  R+ ++   +  I   D      +            
Sbjct: 7   KLPEGWRWVRLGEVCQCERRTVDPRRSPKATFYLYSIPAYDESQRPQRLDGSQI------ 60

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAII-----ADFDGICSTQFLVLQPKDVLPELLQ--GW 127
            S+  +   G  L+ KL P + +A +      D   + ST+F+ L+P   + +L      
Sbjct: 61  GSSKVVIGPGVCLFSKLNPRIPRAWVVAGVPQDGMPVASTEFMPLRPNPNVLDLDYLGKL 120

Query: 128 LLSIDVTQRIEAICEGAT--MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
           L++     ++     GAT          I N  +P+PPL EQ  I   + A   +I    
Sbjct: 121 LMTEWFVSQVRLDVTGATGSRQRLKPGVILNALIPLPPLDEQGRIVAHLEAVQEKIRAFK 180

Query: 186 TERIRFIELLKEKKQALVSYIVTKGL 211
           + +    + L+  +Q+++       L
Sbjct: 181 SAQSETDQELRRLEQSMLDKAFRGEL 206


>gi|328947425|ref|YP_004364762.1| restriction modification system DNA specificity domain protein
           [Treponema succinifaciens DSM 2489]
 gi|328447749|gb|AEB13465.1| restriction modification system DNA specificity domain protein
           [Treponema succinifaciens DSM 2489]
          Length = 195

 Score = 80.2 bits (196), Expect = 5e-13,   Method: Composition-based stats.
 Identities = 26/183 (14%), Positives = 60/183 (32%), Gaps = 8/183 (4%)

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNI---IQKLETRNMGLKPESYETYQIVDPGEIVF 293
             A  T    K        I  +S G +         + +  K     + ++V    +V 
Sbjct: 9   LCAGATPSTSKPEYWENGTISWMSSGEVNLGQVYQTEKKITKKGFENCSTKMVPKNTVVV 68

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL 353
                   + ++   ++       S    +    +DS YL + ++S        + G G 
Sbjct: 69  ALAGQGKTRGTVAITRISL-CTNQSLCSILTKDFVDSYYLYFYLKSQYQRLRAISSGEGT 127

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSS 409
           R  L    ++   + +PP+  Q  I  +++   +  + +   +   I   K+     R  
Sbjct: 128 RGGLSLRILRDFELPLPPLSVQQRIVKILDRFDSLCNDISSGLPAEIEARKKQYEYYRDK 187

Query: 410 FIA 412
            ++
Sbjct: 188 LLS 190



 Score = 59.8 bits (143), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 21/163 (12%), Positives = 47/163 (28%), Gaps = 9/163 (5%)

Query: 30  IKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           +    +L  G T  + K        I ++   +V  G      K    +  +  +  +  
Sbjct: 3   LGEIGELCAGATPSTSKPEYWENGTISWMSSGEVNLGQVYQTEKKITKKGFENCSTKMVP 62

Query: 83  KGQILYGKLGP--YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
           K  ++    G         I       +     +  KD +      + L     +     
Sbjct: 63  KNTVVVALAGQGKTRGTVAITRISLCTNQSLCSILTKDFVDSYYLYFYLKSQYQRLRAIS 122

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
               T      + + +  +P+PPL+ Q  I + +       + 
Sbjct: 123 SGEGTRGGLSLRILRDFELPLPPLSVQQRIVKILDRFDSLCND 165


>gi|254432101|ref|ZP_05045804.1| HsdS, type I site-specific deoxyribonuclease [Cyanobium sp. PCC
           7001]
 gi|197626554|gb|EDY39113.1| HsdS, type I site-specific deoxyribonuclease [Cyanobium sp. PCC
           7001]
          Length = 361

 Score = 80.2 bits (196), Expect = 5e-13,   Method: Composition-based stats.
 Identities = 27/227 (11%), Positives = 75/227 (33%), Gaps = 7/227 (3%)

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
             +QA+++   +  L  + +           +P    +      ++     N   ++   
Sbjct: 7   RFRQAVLAAATSGELTREWREARGIESLPRKIPLGEVIHEMRNGLSPKPSLNPPGVKILR 66

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQ-NDKRSLRSAQVMERGI 315
           +       I   + R + L  +    +  ++ G+++F   +       +  +A  +    
Sbjct: 67  IGAVRPGTIDWTDHRYLELSDKDLAAF-RLEAGDLIFTRYNGTLEFVGACANATSIPDVY 125

Query: 316 ITSA---YMAVKPHGIDSTYLAWLMRSYDLCKVFYA--MGSGLRQSLKFEDVKRLPVLVP 370
           +       +          Y+     S ++          S  ++ +   D+K +   +P
Sbjct: 126 VYPDKLIRVRCDTSRALPAYVEISFSSVEIRDHIEGLVKSSAGQKGISGTDLKNIFFPLP 185

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
            I+EQ +I + +       D L  ++  +  L+     + +A A  G
Sbjct: 186 SIEEQIEIVHQVQALFTLADQLESRLSAARKLVDRLTPALLAKAFRG 232


>gi|309972662|gb|ADO95863.1| Probable DNA specificity protein of restriction modification system
           [Haemophilus influenzae R2846]
          Length = 396

 Score = 80.2 bits (196), Expect = 5e-13,   Method: Composition-based stats.
 Identities = 51/391 (13%), Positives = 130/391 (33%), Gaps = 30/391 (7%)

Query: 26  KVVPIKRFTKLNT-GRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           +  P+K+     + G+ + +  D             G Y     N +    +  + F   
Sbjct: 18  EWKPLKKVCNFISTGKLNANAMDE-----------NGIYPFFTCNEKPYKINNYA-FDME 65

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL-SIDVTQRIEAICEG 143
            IL    G  +              +  V+   D    ++  +   +  +   I    + 
Sbjct: 66  AILISGNGSQVGHLNYFKGKFNAYQRTYVIGEFDNNTLVMYLYHYLNFKLRDYITINSKK 125

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
            ++ +     +    +PIPPL+ Q+ I + + A T     L +E    + L +++ +   
Sbjct: 126 GSVPYITLPMLEKFEIPIPPLSVQIEIVKILDALTALTSELTSELTSELILRQKQYEYYR 185

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
             ++++      ++   G EW  L       +            +       I       
Sbjct: 186 EKLLSEE-----ELGKVGFEWKTLGDVAKIQRGASPRPISQYITDDPNGIPWIKIGDTSL 240

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
             + +E     +  E  E  +I+  G+ V            L+ +  +  G  +   ++ 
Sbjct: 241 DSKYIENTAQKITIEGAEKSRILKSGDFVMSNSMSYGRPYILKISGAIHDGWAS---ISN 297

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFY-AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
             + ++S +L + + S  +   +   + S    +L  + +K L + +P +  Q +I   +
Sbjct: 298 FGNILNSDFLYYYLSSNTVQSYWNGKINSSSVSNLNSDIIKSLSIPIPTLNIQIEIAKTL 357

Query: 383 NVETARIDVL-------VEKIEQSIVLLKER 406
           +      + +       +E+ ++     +E 
Sbjct: 358 DKFETLTNSITKGLPLAIEQSQKRYEYYREL 388



 Score = 61.7 bits (148), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 20/182 (10%), Positives = 56/182 (30%), Gaps = 7/182 (3%)

Query: 242 TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQND 301
            +  +K    I +  L+ +  +            KP     Y       ++       + 
Sbjct: 19  WKPLKKVCNFISTGKLNANAMDENGIYPFFTCNEKPYKINNYAFDMEAILI---SGNGSQ 75

Query: 302 KRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFED 361
              L   +        +  +    +     YL   +       +      G    +    
Sbjct: 76  VGHLNYFKGKFNAYQRTYVIGEFDNNTLVMYLYHYLNFKLRDYITINSKKGSVPYITLPM 135

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIAAAVTG 417
           +++  + +PP+  Q +I  +++  TA    L  ++   ++L ++     R   ++    G
Sbjct: 136 LEKFEIPIPPLSVQIEIVKILDALTALTSELTSELTSELILRQKQYEYYREKLLSEEELG 195

Query: 418 QI 419
           ++
Sbjct: 196 KV 197


>gi|94265772|ref|ZP_01289507.1| Restriction modification system DNA specificity domain [delta
           proteobacterium MLMS-1]
 gi|93453707|gb|EAT04088.1| Restriction modification system DNA specificity domain [delta
           proteobacterium MLMS-1]
          Length = 579

 Score = 80.2 bits (196), Expect = 6e-13,   Method: Composition-based stats.
 Identities = 67/466 (14%), Positives = 134/466 (28%), Gaps = 91/466 (19%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVE-SGTGKYLPKDGNSRQS 73
           +P  W +  ++       G      +      DI++  + D+   G  + +    N+   
Sbjct: 101 LPAGWALTNLENIGYWAVGNGFPKKEQGLSNLDILFCKVSDMNLPGNHRKIVGTANTVSK 160

Query: 74  DTSTV---SIFAKGQILYGKLG---PYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW 127
           +T+      I   G +++ K+G      ++ +IA    I +    +     +  E L  +
Sbjct: 161 ETAQKLRLHIHPPGTVIFPKIGGAIATNKRRLIARPTAIDNNCLGITPSCGITSEYLLLF 220

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK-------------- 173
           L +ID+         G ++       +G IP+ +PPLAEQ  I EK              
Sbjct: 221 LTTIDMQ----RYQVGTSVPALSQSTLGKIPVHLPPLAEQHRIVEKVDELMALCDRLEQQ 276

Query: 174 ---------------------------IIAETVRIDTLITERIRFIELLKEKKQALVSYI 206
                                      + +   R+ T           +   KQ ++   
Sbjct: 277 TSDQLAAHETLVETLLDTLTRSADATELDSNWTRLQTHFDTLFTTESSIDHLKQTILQLA 336

Query: 207 VTKGLNPDVKMK-----------------------------DSGIEWVGLVPDHWEVKPF 237
           V   L P                                   S  +    VP +W  +  
Sbjct: 337 VMGRLVPQDPNDEPASTLLKKIAAEKARLVKEGKLKKPKPLPSVGDEPFSVPANWTWQSL 396

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQKLET-RNMGLKPESYETYQIVDPGEIVFRFI 296
             L              +        I        ++    E        + G+      
Sbjct: 397 GGLGYTQTGSTPSKSNKSYFGNFIPFIKPGDIIHGHVNYTHEGLSKEGRNNLGKWAGPSS 456

Query: 297 DLQNDKRSLRSAQVMERGI-ITSAYMAVKPHGIDSTYLAWL-MRSYDLCKV-FYAMGSGL 353
            L     ++    +++R         A+ P+  D +    + + S       +    S  
Sbjct: 457 ILMVCIGTIGKCALIDRDCTFNQQINAISPYLTDMSGYLMISLSSRYFQNEAWDRSSSTT 516

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
              L     + +PV +PP+ EQ  I    +   A  + + ++I Q+
Sbjct: 517 ISILNKGKWEDIPVPIPPLAEQHRIVEKTDELMALCNQIKDRINQA 562



 Score = 72.1 bits (175), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 32/193 (16%), Positives = 64/193 (33%), Gaps = 11/193 (5%)

Query: 226 GLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY-- 283
           G    + E   ++A+     +K   L   +IL     ++      R +     +      
Sbjct: 104 GWALTNLENIGYWAVGNGFPKKEQGLSNLDILFCKVSDMNLPGNHRKIVGTANTVSKETA 163

Query: 284 -----QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
                 I  PG ++F  I       + R        I  +        GI S YL   + 
Sbjct: 164 QKLRLHIHPPGTVIFPKIGGAI-ATNKRRLIARPTAIDNNCLGITPSCGITSEYLLLFLT 222

Query: 339 SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
           + D+ +           +L    + ++PV +PP+ EQ  I   ++   A  D L ++   
Sbjct: 223 TIDMQRY---QVGTSVPALSQSTLGKIPVHLPPLAEQHRIVEKVDELMALCDRLEQQTSD 279

Query: 399 SIVLLKERRSSFI 411
            +   +    + +
Sbjct: 280 QLAAHETLVETLL 292



 Score = 65.6 bits (158), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 35/194 (18%), Positives = 61/194 (31%), Gaps = 9/194 (4%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKD------IIYIGLEDVESGTGKYLPKDGNSRQSD 74
           +P +W    +       TG T            I +I   D+  G   Y  +  +    +
Sbjct: 387 VPANWTWQSLGGLGYTQTGSTPSKSNKSYFGNFIPFIKPGDIIHGHVNYTHEGLSKEGRN 446

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL-LSIDV 133
                      IL   +G   + A+I D D   + Q   + P              S   
Sbjct: 447 NLG-KWAGPSSILMVCIGTIGKCALI-DRDCTFNQQINAISPYLTDMSGYLMISLSSRYF 504

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
                      T+S  +     +IP+PIPPLAEQ  I EK        + +     +  +
Sbjct: 505 QNEAWDRSSSTTISILNKGKWEDIPVPIPPLAEQHRIVEKTDELMALCNQIKDRINQADQ 564

Query: 194 LLKEKKQALVSYIV 207
           + +   + +    +
Sbjct: 565 IRQHLSETVAIQAL 578


>gi|307710634|ref|ZP_07647067.1| type I restriction modification DNA specificity domain protein
           [Streptococcus mitis SK564]
 gi|307618577|gb|EFN97720.1| type I restriction modification DNA specificity domain protein
           [Streptococcus mitis SK564]
          Length = 383

 Score = 80.2 bits (196), Expect = 6e-13,   Method: Composition-based stats.
 Identities = 45/395 (11%), Positives = 106/395 (26%), Gaps = 38/395 (9%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            WK   +    +          +++    +      T K    +       +        
Sbjct: 19  EWKQHKLGEVFEQTVEYVDPYEQNLELWSVTVESGLTPKEERYNREFLVKKSDKFKKLYP 78

Query: 84  GQILYGKLGPYLRKAIIAD--FDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            +I+Y  +   +      +       S  ++ ++ K           LS     R+  I 
Sbjct: 79  EEIVYNPMNITIGAVGFNNAGKKVAVSGYYVTMKMKSKFSNKFFSAWLSCPKAIRLYKIY 138

Query: 142 EGAT---MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
              +        +  + +I    P   EQ  I          + +        +   +  
Sbjct: 139 STGSLIERQRVQFPTLSDIKDYFPTFDEQSAIGSLFRTLDDLLSSY----KDNLTNYQAL 194

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
           K  ++S +  K      +++ +G E         EV    +      R    L   +I  
Sbjct: 195 KATMLSKMFPKAGQTVPEIRLNGFEEDWERKSLSEVCTINSG-----RDYKHLKNGDIPV 249

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
              G  +  +  +              +D   ++                       + +
Sbjct: 250 YGTGGYMLSVNEKLSDEDAIGIGRKGTIDKPYLL-----------------SAPFWTVDT 292

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
            +  +   G D  YL  + +     K      S    SL  + ++++    P  +EQ  I
Sbjct: 293 LFYVICKVGYDLNYLFLIFQKIRWKKFDE---STGVPSLSKKTIEKVVSKFPSYEEQCAI 349

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
                   + +D L+   ++ I  L+  +   +  
Sbjct: 350 GLY----FSDLDNLINYYQEKISQLETLKKKLLQD 380



 Score = 48.6 bits (114), Expect = 0.002,   Method: Composition-based stats.
 Identities = 26/181 (14%), Positives = 53/181 (29%), Gaps = 18/181 (9%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + W+   +     +N+GR  +            +++G        G     +     +  
Sbjct: 220 EDWERKSLSEVCTINSGRDYK-----------HLKNGDIPVYGTGGYMLSVNE---KLSD 265

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           +  I  G+ G   +  +++       T F V+            +L  I    R +   E
Sbjct: 266 EDAIGIGRKGTIDKPYLLSAPFWTVDTLFYVICKVGYD----LNYLFLIFQKIRWKKFDE 321

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
              +     K I  +    P   EQ  I          I+    +  +   L K+  Q +
Sbjct: 322 STGVPSLSKKTIEKVVSKFPSYEEQCAIGLYFSDLDNLINYYQEKISQLETLKKKLLQDM 381

Query: 203 V 203
            
Sbjct: 382 F 382


>gi|240047535|ref|YP_002960923.1| putative type-1 restriction enzyme MjaXP specificity protein
           [Mycoplasma conjunctivae HRC/581]
 gi|239985107|emb|CAT05100.1| Putative type-1 restriction enzyme MjaXP specificity protein
           [Mycoplasma conjunctivae]
          Length = 415

 Score = 80.2 bits (196), Expect = 7e-13,   Method: Composition-based stats.
 Identities = 55/404 (13%), Positives = 114/404 (28%), Gaps = 23/404 (5%)

Query: 23  KHWKVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
             WK V I    K+ TG+T ++       GK   +   +D  +   K   K       ++
Sbjct: 2   NEWKKVKISEIGKVVTGKTPKTSNSSFYGGKTPFFTPSDDWSTKYIKNTNKYLTEDGKNS 61

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
              SI  K  I    +G   + A+ +           ++  +         + +      
Sbjct: 62  VKGSIIPKNAICVSCIGSIGKVAMTSSETVTNQQINSIIVNETKYDIDFIYYAMLELGKV 121

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
                     +            +  P L EQ  I   +     +I+          +  
Sbjct: 122 LNLHSGSSTVVPIISKNTFSEYKLACPKLDEQKKISNVLSIIDKKIEINRQINDNLEKQT 181

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLV------PDHWEVKPFFALVTELNRKNT 249
           K       +       N     K SG E V         P  W ++           K  
Sbjct: 182 KLLYDYWFTQFDFPDEN-GNPYKSSGGEMVFNEELKRYIPKGWSIETLANNTISRIIKPG 240

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDP--GEIVFRFIDLQNDKRSLRS 307
             I       +  +I  K  +    +  ++ E+   + P    + F  +        +  
Sbjct: 241 VNIFKEKTYFATADINNKEISSGNKVLYQNRESRANMQPIKSSVWFAKMKNSVKHLFITD 300

Query: 308 AQVM--ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKR 364
                   GI+++ +  ++       Y++  + S         +  G  ++S+   D+  
Sbjct: 301 NMDFMINEGILSTGFCGLECEKNSFEYISSFINSSYFEMAKDILSHGATQESVNNNDLNF 360

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
           + +L+P            +  T  I   + +   S   + E R 
Sbjct: 361 INILIPD----RRTLLNFHKITKPIYEQITENICSNRKITELRD 400


>gi|34764189|ref|ZP_00145051.1| TYPE I RESTRICTION-MODIFICATION SYSTEM SPECIFICITY SUBUNIT
           [Fusobacterium nucleatum subsp. vincentii ATCC 49256]
 gi|27886037|gb|EAA23351.1| TYPE I RESTRICTION-MODIFICATION SYSTEM SPECIFICITY SUBUNIT
           [Fusobacterium nucleatum subsp. vincentii ATCC 49256]
          Length = 373

 Score = 80.2 bits (196), Expect = 7e-13,   Method: Composition-based stats.
 Identities = 46/379 (12%), Positives = 107/379 (28%), Gaps = 34/379 (8%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKY--LPKDGNSRQSDT 75
           P   +   +            +      K+I+ +   D+         +PK   +     
Sbjct: 13  PNGVEYKELGELGIFENIGVDKKINVNEKEILLLNYTDIYKNNYIDSSIPKMIVTANDKK 72

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIAD------FDGICSTQFLVL---QPKDVLPELLQG 126
                  +  I              A        +   S   +      P  V    +  
Sbjct: 73  IENCSVEECDIFITPTSETKEDIGHASVILETIPNCCYSYHIMRYRLINPNRVTASFIMY 132

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
              S D+ ++I    +G T      +   N+ +P P +  Q  I + +   T  ++ L  
Sbjct: 133 LFYSQDLKRQILKYAQGLTRYGLSKEKFSNLLIPFPNIRIQEEIVKVLDDYTKSVEELKG 192

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
           +    +   K++      Y++    N    +K      +G +      +           
Sbjct: 193 KLNEELTARKKQYSWYRDYLLKFE-NKVETVK------LGSIGKVSMCRRIL-------- 237

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
           K+   I   I     G   +K +      K   Y+         +V         +  + 
Sbjct: 238 KSETNIVGGIPFFKIGTFGKKEDAYISIEKFNEYKEKYSYPKKGMVLISTSGTIGRTIVF 297

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLP 366
             +          ++      + + YL +  ++            G  + L  E++++  
Sbjct: 298 DGKPAYYQDSNIVWIDNNEEKVLNKYLYYFYQTSPWKIDM----GGTIERLYNENIEKTI 353

Query: 367 VLVPPIKEQFDITNVINVE 385
           + +PP++ Q  I  V++  
Sbjct: 354 IPLPPLEVQKRIVGVLDNF 372



 Score = 66.4 bits (160), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 26/167 (15%), Positives = 56/167 (33%), Gaps = 10/167 (5%)

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS--LRSAQVME 312
           N   +   N I     + +    +       V+  +I         +         + + 
Sbjct: 47  NYTDIYKNNYIDSSIPKMIVTANDKKIENCSVEECDIFITPTSETKEDIGHASVILETIP 106

Query: 313 RGIITSAYMAV---KPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVL 368
               +   M      P+ + ++++ +L  S DL +       G  R  L  E    L + 
Sbjct: 107 NCCYSYHIMRYRLINPNRVTASFIMYLFYSQDLKRQILKYAQGLTRYGLSKEKFSNLLIP 166

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFI 411
            P I+ Q +I  V++  T  ++ L  K+ + +   K+     R   +
Sbjct: 167 FPNIRIQEEIVKVLDDYTKSVEELKGKLNEELTARKKQYSWYRDYLL 213


>gi|317506902|ref|ZP_07964674.1| hypothetical protein HMPREF9336_01045 [Segniliparus rugosus ATCC
           BAA-974]
 gi|316254830|gb|EFV14128.1| hypothetical protein HMPREF9336_01045 [Segniliparus rugosus ATCC
           BAA-974]
          Length = 330

 Score = 79.8 bits (195), Expect = 7e-13,   Method: Composition-based stats.
 Identities = 55/352 (15%), Positives = 111/352 (31%), Gaps = 33/352 (9%)

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ-GWLLSIDVT 134
           ST   F+   +L+GKL P L K    +F+G+CST  + ++P   L       +LL   + 
Sbjct: 2   STKFRFSPEHVLFGKLRPNLGKISRPEFEGVCSTDIIPIRPGKHLDRNYLAHFLLQPSMI 61

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
               +   GA +       +    +P+P L+EQ  I   +                    
Sbjct: 62  DYAASRTSGANLPRLSPDLLAKFLIPLPSLSEQRRIAAILDQADALRSRRRQVLNHL--- 118

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
                 A ++  V          K   ++ V  V                   +T     
Sbjct: 119 ------ATLTGSVFHDTFGGHTYKTLRLDEVAAVSSGITKGRKTNE-------STTPTPY 165

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
             +S      I+    + +       + Y + D   ++    D     R       +   
Sbjct: 166 LAVSNVQAGCIKLDLVKEIPATSAEIQRYALQDGDLVLTEGGDPDKLGRGTVWRSQLALC 225

Query: 315 IITSAYMAVKPHGI--DSTYLAWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVP 370
           +  +    V+P        YL+  + S +    F      +    S+    ++  PV +P
Sbjct: 226 LHQNHVFKVRPDKHIVLPDYLSECLASSESRAYFLRSAKQTTGIASINMTQLRAAPVPMP 285

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLL----KERRSSFIAAAVTGQ 418
           P+++Q      +  + +     +     ++  +     E  +S  + A  G+
Sbjct: 286 PMRDQLR---FLERKMS-----IASKHAALQHIMATHDELFASLQSRAFRGE 329



 Score = 43.2 bits (100), Expect = 0.077,   Method: Composition-based stats.
 Identities = 22/196 (11%), Positives = 52/196 (26%), Gaps = 11/196 (5%)

Query: 26  KVVPIKRFTKLNTG-----RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           K + +     +++G     +T+ES     Y+ + +V++G  K          S       
Sbjct: 136 KTLRLDEVAAVSSGITKGRKTNESTTPTPYLAVSNVQAGCIKLDLVKEIPATSAEIQRYA 195

Query: 81  FAKGQILYGKLGP---YLRKAIIADFDGIC--STQFLVLQPKDVLPELLQGWLLSIDVTQ 135
              G ++  + G      R  +      +C        ++P   +               
Sbjct: 196 LQDGDLVLTEGGDPDKLGRGTVWRSQLALCLHQNHVFKVRPDKHIVLPDYLSECLASSES 255

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
           R   +      +      +  +     P+         +  +   I +        +   
Sbjct: 256 RAYFLRSAKQTTGIASINMTQLRAAPVPMPPMRDQLRFLERKMS-IASKHAALQHIMATH 314

Query: 196 KEKKQALVSYIVTKGL 211
            E   +L S      L
Sbjct: 315 DELFASLQSRAFRGEL 330


>gi|294647359|ref|ZP_06724952.1| type I restriction modification DNA specificity domain protein
           [Bacteroides ovatus SD CC 2a]
 gi|294809020|ref|ZP_06767742.1| type I restriction modification DNA specificity domain protein
           [Bacteroides xylanisolvens SD CC 1b]
 gi|292637318|gb|EFF55743.1| type I restriction modification DNA specificity domain protein
           [Bacteroides ovatus SD CC 2a]
 gi|294443745|gb|EFG12490.1| type I restriction modification DNA specificity domain protein
           [Bacteroides xylanisolvens SD CC 1b]
          Length = 427

 Score = 79.8 bits (195), Expect = 7e-13,   Method: Composition-based stats.
 Identities = 58/418 (13%), Positives = 126/418 (30%), Gaps = 31/418 (7%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           +V+ I +  +  +         +I I   DVE+G                   +I  K  
Sbjct: 12  QVLKINQIVRTISETHKFDKDKLIAINTSDVENGVMGNGTLTFVDELKGQFKKTIV-KDD 70

Query: 86  ILYGKLGPYLRKAII----ADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV----TQRI 137
           IL+ ++ P  R+          D + ST+ +VL+  +   +L   +    +       + 
Sbjct: 71  ILFSEIRPANRRFAKVTTKNTKDYVVSTKLMVLRKYNEDVDLEYFYYCLTNQPFLDILQR 130

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
            A     +     +  +     PIPP++EQ  I   I     +I            + K+
Sbjct: 131 RAENRIGSFPQITFDLLSEYAFPIPPISEQKRISSVISTLDKKIALNRQINQNLEAMAKQ 190

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGI--------EWVGLVPDHWEVKPFFALVTELNRKNT 249
                         N        G         +++    +   +  +  + +    K+ 
Sbjct: 191 LYDYWFVQFDFPNENGRPYKSFGGKMVWNEKQRKYIPEYWEVKSLSNWLEIKSGFPFKSE 250

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESY-----ETYQIVDPGEIVFRFIDLQNDKRS 304
                    +     +Q  E    G    +      + Y  +  G+ +            
Sbjct: 251 TYKPIGRYKIITIKNVQDGELVTSGCDYVNDIPSRAKDYISLQIGDRLISLTGNCGRLCV 310

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVK 363
           +      E  ++      +    I   Y    + S  +  V   + +G  + +L   ++ 
Sbjct: 311 VCE----ENLLLNQRVGLLCCDAIYLEYFYNFLNSGTMRTVIDNLANGAAQANLSPVELC 366

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           +    +PPI     I    N +   I   + +  Q I  L ++R   +   + GQ+ +
Sbjct: 367 KTDCFIPPID----ILLSYNRKVNAIRKAIVQNNQEISQLAKQRDELLPLLMNGQVSV 420



 Score = 55.2 bits (131), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 29/193 (15%), Positives = 64/193 (33%), Gaps = 6/193 (3%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLP------KDGNSRQSD 74
           IP++W+V  +  + ++ +G   +S         + +     +            N   S 
Sbjct: 226 IPEYWEVKSLSNWLEIKSGFPFKSETYKPIGRYKIITIKNVQDGELVTSGCDYVNDIPSR 285

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
                    G  L    G   R  ++ + + + + +  +L    +  E    +L S  + 
Sbjct: 286 AKDYISLQIGDRLISLTGNCGRLCVVCEENLLLNQRVGLLCCDAIYLEYFYNFLNSGTMR 345

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             I+ +  GA  ++     +      IPP+   +    K+ A    I     E  +  + 
Sbjct: 346 TVIDNLANGAAQANLSPVELCKTDCFIPPIDILLSYNRKVNAIRKAIVQNNQEISQLAKQ 405

Query: 195 LKEKKQALVSYIV 207
             E    L++  V
Sbjct: 406 RDELLPLLMNGQV 418


>gi|221231341|ref|YP_002510493.1| type I restriction-modification system S protein [Streptococcus
           pneumoniae ATCC 700669]
 gi|220673801|emb|CAR68303.1| putative type I restriction-modification system S protein
           [Streptococcus pneumoniae ATCC 700669]
          Length = 426

 Score = 79.8 bits (195), Expect = 7e-13,   Method: Composition-based stats.
 Identities = 61/424 (14%), Positives = 135/424 (31%), Gaps = 66/424 (15%)

Query: 34  TKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
            ++  G +    KD        I +I + D E G           ++S  +      KG 
Sbjct: 2   VEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINNVKEKIKKSGLNKTRFVKKGT 61

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID-VTQRIEAICEGA 144
            L      + R  I+     I      +   ++ L +    ++LS + V  +  ++  GA
Sbjct: 62  FLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYLFYILSSNVVYSQFLSLISGA 121

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK----Q 200
            + + +   + +I +P+PPL+EQ  I E I +   ++D       R  +L KE      +
Sbjct: 122 VVKNLNSDKVASILIPLPPLSEQQRIIEAIESALEKVDEYAESYNRLEQLDKEFPDKLKK 181

Query: 201 ALVSYIVTKGLNPDVKMKDS-----------------------------------GIEWV 225
           +++ Y +   L       +S                                      + 
Sbjct: 182 SILQYAMQGKLVEQDPNDESVEVLLEKIRAEKQKLFEEGKIKKKDLDISIVSQGDDNSYY 241

Query: 226 GLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ- 284
           G +P +W V     + +     + K  + +I +     II+    + +       + Y  
Sbjct: 242 GNIPMNWVVIKIKDIFSMNTGLSYKKGDLSINN-KGVRIIRGGNIKPLEFSLLDNDYYID 300

Query: 285 ---------IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA----VKPHGIDST 331
                     +   +++                     G++   ++      +   I S 
Sbjct: 301 TQFISSEQVYLKHNQLITPVSTSLEHIGKFARIDKDYDGVVAGGFIFQLTPFESSEIISK 360

Query: 332 YLAWLMRSYDLCKVFY---AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
           +L + + S    K       +      ++    +  L + + P +EQ  IT  +     +
Sbjct: 361 FLLFNLSSPLFYKQLKAITKLSGQALYNIPKTTLSELLIPLAPFEEQELITQKVEKLFEK 420

Query: 389 IDVL 392
           ++ L
Sbjct: 421 VNQL 424



 Score = 77.1 bits (188), Expect = 6e-12,   Method: Composition-based stats.
 Identities = 27/158 (17%), Positives = 59/158 (37%), Gaps = 8/158 (5%)

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
           + +      +K       + V  G  +            L     +  G +    ++   
Sbjct: 37  KYINNVKEKIKKSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLA---ISNYE 93

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
           + ++  YL +++ S  +   F ++ SG   ++L  + V  + + +PP+ EQ  I   I  
Sbjct: 94  NSLNKDYLFYILSSNVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLSEQQRIIEAIES 153

Query: 385 ETARIDVLVEKIEQSIVLLKE----RRSSFIAAAVTGQ 418
              ++D   E   +   L KE     + S +  A+ G+
Sbjct: 154 ALEKVDEYAESYNRLEQLDKEFPDKLKKSILQYAMQGK 191



 Score = 45.2 bits (105), Expect = 0.019,   Method: Composition-based stats.
 Identities = 36/184 (19%), Positives = 74/184 (40%), Gaps = 17/184 (9%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           G IP +W V+ IK    +NTG + +        K +  I   +++      L  D     
Sbjct: 242 GNIPMNWVVIKIKDIFSMNTGLSYKKGDLSINNKGVRIIRGGNIKPLEFSLLDNDYYIDT 301

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIA-----DFDGICSTQFLV----LQPKDVLPEL 123
              S+  ++ K   L   +   L           D+DG+ +  F+      +  +++ + 
Sbjct: 302 QFISSEQVYLKHNQLITPVSTSLEHIGKFARIDKDYDGVVAGGFIFQLTPFESSEIISKF 361

Query: 124 LQGWLLSIDVTQRIEAICE--GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
           L   L S    ++++AI +  G  + +     +  + +P+ P  EQ LI +K+     ++
Sbjct: 362 LLFNLSSPLFYKQLKAITKLSGQALYNIPKTTLSELLIPLAPFEEQELITQKVEKLFEKV 421

Query: 182 DTLI 185
           + L 
Sbjct: 422 NQLW 425


>gi|317182159|dbj|BAJ59943.1| Type I restriction-modification system specificity subunit
           [Helicobacter pylori F57]
          Length = 396

 Score = 79.8 bits (195), Expect = 7e-13,   Method: Composition-based stats.
 Identities = 58/392 (14%), Positives = 116/392 (29%), Gaps = 31/392 (7%)

Query: 22  PKHWKVVPIKRFTKLN-------TGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           PK  +   +    + N       TG+  +       +     ++    Y  +  N  Q+ 
Sbjct: 13  PKGVEFRKLGEVLEYNQPNKYCVTGKEFDESYPTPVLTAG--KTFILGYTNEKDNIYQAS 70

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
            S+  I                   +     + S+   +L PK+    +   +       
Sbjct: 71  KSSPVIIF-DDF-------TTATQWVDFPFKVKSSAMKILLPKNPTINIRFIFFYM---Q 119

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
                I    T           I +PIPPL  Q  I + + A T     L TE     + 
Sbjct: 120 TIPYNISGEHTRQWISRYS--KITIPIPPLEIQQEIVKILDAFTELNTELNTELKARKKQ 177

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
            +  +  L+     KG+N +   KD+ I+                 V           + 
Sbjct: 178 YQYYQNMLLD---FKGINSNH--KDAKIKTYPKRLKTLLQTLAPKGVEFRKLGEVCDFQK 232

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
                       K+   + G +P  Y          I      +        S   +   
Sbjct: 233 GKSITKKAVTFGKVPVISGGRQPAYYHNEANRSGETIAISSSGVY---AGYVSYWDIPVF 289

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKE 374
           +  S  ++ K   +   YL   + +     +     +G    +  +D++   + +PP++ 
Sbjct: 290 LADSFSVSPKQKTLMPKYLFHYLTTQQ-DAIHATKSTGGIPHVYSKDLQNFLIPIPPLEI 348

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKER 406
           Q +I  +++   A    L+  I   I   K++
Sbjct: 349 QQEIVKILDQFLALTTDLLAGIPAEIEARKKQ 380



 Score = 50.2 bits (118), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 21/181 (11%), Positives = 59/181 (32%), Gaps = 18/181 (9%)

Query: 229 PDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDP 288
           P   E +    ++         +            ++   +T  +G   E    YQ    
Sbjct: 13  PKGVEFRKLGEVLEYNQPNKYCVTGKEFDESYPTPVLTAGKTFILGYTNEKDNIYQASKS 72

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG-IDSTYLAWLMRSYDLCKVFY 347
             ++       +   + +      +   ++  + +  +  I+  ++ + M++        
Sbjct: 73  SPVII----FDDFTTATQWVDFPFKVKSSAMKILLPKNPTINIRFIFFYMQTIPY----N 124

Query: 348 AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
             G   RQ +      ++ + +PP++ Q +I  +++  T       E   +    LK R+
Sbjct: 125 ISGEHTRQWISR--YSKITIPIPPLEIQQEIVKILDAFT-------ELNTELNTELKARK 175

Query: 408 S 408
            
Sbjct: 176 K 176


>gi|317179714|dbj|BAJ57502.1| Type I R-M system specificity subunit [Helicobacter pylori F30]
          Length = 197

 Score = 79.8 bits (195), Expect = 7e-13,   Method: Composition-based stats.
 Identities = 25/197 (12%), Positives = 58/197 (29%), Gaps = 17/197 (8%)

Query: 225 VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ 284
           +G +      K      T    +            ++GN      ++ + L+  +   Y 
Sbjct: 15  LGDIGKPCMCKRVMKHQTTRYGEIPFYKIG-----TFGNTADAFISKKLFLEYRT--KYS 67

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCK 344
               G+I+                   +      + +    +        +L  +Y   K
Sbjct: 68  FPKKGDILISASGT----IGKAVIYDGKPAYFQDSNIVWIDNDETLVKNDFLFYAYSNVK 123

Query: 345 VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLK 404
                       L  ++ +   + +PP+ EQ  I NV++     I  L  K  Q     +
Sbjct: 124 W--NTEHTTILRLYNDNFRNTLIPLPPLNEQSAIANVLSALDNEIISLKNKKRQ----FE 177

Query: 405 ERRSSFIAAAVTGQIDL 421
             + +     ++ +I +
Sbjct: 178 NIKKALNHDLMSAKIRV 194



 Score = 54.0 bits (128), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 33/189 (17%), Positives = 59/189 (31%), Gaps = 10/189 (5%)

Query: 21  IPKHWKVVPIKRF-----TKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           +P +W+ V +         K      +    +I +  +    +    ++ K         
Sbjct: 6   LPLNWQRVRLGDIGKPCMCKRVMKHQTTRYGEIPFYKIGTFGNTADAFISKKLFL--EYR 63

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
           +  S   KG IL    G   +  I            +V        E L           
Sbjct: 64  TKYSFPKKGDILISASGTIGKAVIYDGKPAYFQDSNIVWI---DNDETLVKNDFLFYAYS 120

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            ++   E  T+         N  +P+PPL EQ  I   + A    I +L  ++ +F  + 
Sbjct: 121 NVKWNTEHTTILRLYNDNFRNTLIPLPPLNEQSAIANVLSALDNEIISLKNKKRQFENIK 180

Query: 196 KEKKQALVS 204
           K     L+S
Sbjct: 181 KALNHDLMS 189


>gi|256841221|ref|ZP_05546728.1| conserved hypothetical protein [Parabacteroides sp. D13]
 gi|256737064|gb|EEU50391.1| conserved hypothetical protein [Parabacteroides sp. D13]
          Length = 388

 Score = 79.8 bits (195), Expect = 7e-13,   Method: Composition-based stats.
 Identities = 54/405 (13%), Positives = 120/405 (29%), Gaps = 53/405 (13%)

Query: 26  KVVPIKRFTKLNTGRTSE---SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           ++  + +   +N  R +        + +I +  V    G  +              + F 
Sbjct: 13  ELKRLGQCCIINPRRPNIALCDTDKVSFIPMPAVSED-GYLVDMADEEYGKVKKGFTYFE 71

Query: 83  KGQILYGKLGPYLRK------AIIADFDGICSTQFLVLQPKDVL--PELLQGWLLSIDVT 134
              +L+ K+ P +          + +  G+ ST+F VL+P + +  P  L          
Sbjct: 72  NNDVLFAKITPCMENGKGAIAYGLTNGIGVGSTEFHVLRPINGISSPYWLLTLTRMPIFR 131

Query: 135 QRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID-----TLITER 188
           +R      G           + +  + +P + EQ                      I   
Sbjct: 132 ERAAKNMSGTGGQKRVSASYLNHFMVGLPAIEEQRRFEAIYRQADKSKFGDFKSQFIEMF 191

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN 248
                         +                         P++WE      + +    K 
Sbjct: 192 GTVENNTHNFPIMTIGEFANCFAGATPSTSH---------PEYWENGRIRWMSSGEVHK- 241

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
                           ++  ++R   L  +S  T  +     ++   I  Q   R   + 
Sbjct: 242 --------------GHVEDTDSRITELGYKSASTRMVPIHSIVI--AIAGQGKTRGTVAI 285

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVL 368
             ++     S    V    ++ +YL   ++   L     +     R  L  + ++++PV+
Sbjct: 286 TEVDLCTNQSLCAIVPDERVNYSYLYHNLQGRYLELRGLSGDVNGRGGLNLKIIQKIPVI 345

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLK-----ERRS 408
           +PPI++Q    ++      + D     I++++V L      E R 
Sbjct: 346 LPPIEKQQQFASI----AQQADKSKSVIQKALVYLNDIQSDELRK 386


>gi|261392482|emb|CAX50031.1| putative type I restriction-modification system S protein
           [Neisseria meningitidis 8013]
          Length = 385

 Score = 79.8 bits (195), Expect = 7e-13,   Method: Composition-based stats.
 Identities = 61/378 (16%), Positives = 118/378 (31%), Gaps = 26/378 (6%)

Query: 50  YIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICST 109
           YI  +++         +   S       V+ F KG IL   + PYL+K   A FDG CS 
Sbjct: 26  YISTDNILQNKQGI--ECAASLPIQGGKVTAFKKGDILLANIRPYLKKIWYAQFDGGCSA 83

Query: 110 QFLVLQPKDVLPELLQGWL-LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQV 168
             L ++    +      +     D         +G  M   D   I    +P+     Q 
Sbjct: 84  DVLAIRANAKIDSHFLFYALFRDDFFIHAMKGSKGTKMPRGDKTQIMEFKIPVFAPQTQQ 143

Query: 169 LIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPD---VKMKDSGIEWV 225
            I   +      +D  I    +    L+E  + L  Y   +   PD      K SG E V
Sbjct: 144 SITTVL----SALDKKIALNKQINARLEEMAKTLYDYWFVQFDFPDANGKPYKSSGGEMV 199

Query: 226 GLVPDHWEVKPFFALV--TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY 283
                  E+   +  V       K    ++ +   +        ++     +   + +  
Sbjct: 200 FDETLKREIPKGWESVELQSCLAKVPSTVKISNKDIKDFGKYPVIDQSQDFICGFTDDEK 259

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC 343
            I++P +    F D     R ++              + +  +     YL + +      
Sbjct: 260 SILNPQDAHIIFGD---HTRIVKLVNFKYARGADGTQVILSNNERMPNYLFYQI-----I 311

Query: 344 KVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
                   G  +    + +K  P+++P          ++N    +I   +    +    L
Sbjct: 312 NQIDLSSYGYARHF--KFLKEFPIILPDKDISRKYYEIVNYFFIKIRNNI----KQNHHL 365

Query: 404 KERRSSFIAAAVTGQIDL 421
            + R   +   + GQ+ +
Sbjct: 366 TQLRDFLLPMLMNGQVSV 383


>gi|75909705|ref|YP_324001.1| restriction modification system DNA specificity subunit [Anabaena
           variabilis ATCC 29413]
 gi|75703430|gb|ABA23106.1| Restriction modification system DNA specificity domain protein
           [Anabaena variabilis ATCC 29413]
          Length = 405

 Score = 79.8 bits (195), Expect = 7e-13,   Method: Composition-based stats.
 Identities = 51/413 (12%), Positives = 112/413 (27%), Gaps = 48/413 (11%)

Query: 30  IKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLP-KDGNSRQSDTSTVSIFAKG 84
           +    +   G      +     I  + + ++  GT +           SD     +    
Sbjct: 8   LADTCEFINGGAWSDKEYVEAGIPVVKVTNMVDGTIETNNLSYLPLSSSDKYKKHLLFVN 67

Query: 85  QILYGKLGP--------YLRKAIIADFD--GICSTQFLVLQPKDVL---PELLQGWLLSI 131
            ++   +G           R +++         +   + ++ K      P+ L     +I
Sbjct: 68  DLVVTTVGSHPTQPGSVVGRTSVVPQHFDGAFLNQNAVCIRVKCKNLISPKFLIYISKTI 127

Query: 132 DVTQRIEAICEGA-TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
                IE+   G+          +       PPL  Q  I   + A    I+        
Sbjct: 128 LFKHHIESRARGSANQVRMALGELKKFTFKFPPLPVQKKIAAILSAYDDLIENNNRRIAI 187

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
             ++ +E  +     +   G       K          P+ WE K F             
Sbjct: 188 LEKMAEEIYREWFVRLRFPGHEQVKFNKGI--------PESWERKRFDEFCLLQRG---- 235

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
                   L    +I            ++Y     V+P  I             +     
Sbjct: 236 ------YDLPDTQVIPGQYPVIASTSIKTYHNQFKVNPPVITTGRSGSL----GIILFIN 285

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP 370
            +   + +       +G     + + ++     K+          +L    +  L + VP
Sbjct: 286 SQAWPLNTTLFVKNFYGNSPYLIYYTLK---FLKLENFNSGAGVPTLNRNHLGGLYMSVP 342

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
           P   Q +  + I +   +     E + +S   L E R   +   ++G++ +  
Sbjct: 343 PKSLQNNFNDKIAILFKQ----KELLSKSKNALIEIRDRLLTRLISGKLSVED 391



 Score = 42.9 bits (99), Expect = 0.095,   Method: Composition-based stats.
 Identities = 34/184 (18%), Positives = 57/184 (30%), Gaps = 16/184 (8%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           IP+ W+      F  L  G      + I            G+Y P   ++          
Sbjct: 217 IPESWERKRFDEFCLLQRGYDLPDTQVIP-----------GQY-PVIASTSIKTYHNQFK 264

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
                I  G+ G       I       +T   V       P L+   L  + +    E  
Sbjct: 265 VNPPVITTGRSGSLGIILFINSQAWPLNTTLFVKNFYGNSPYLIYYTLKFLKL----ENF 320

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
             GA +   +   +G + M +PP + Q    +KI     + + L   +   IE+      
Sbjct: 321 NSGAGVPTLNRNHLGGLYMSVPPKSLQNNFNDKIAILFKQKELLSKSKNALIEIRDRLLT 380

Query: 201 ALVS 204
            L+S
Sbjct: 381 RLIS 384


>gi|256810495|ref|YP_003127864.1| N-6 DNA methylase [Methanocaldococcus fervens AG86]
 gi|256793695|gb|ACV24364.1| N-6 DNA methylase [Methanocaldococcus fervens AG86]
          Length = 1068

 Score = 79.8 bits (195), Expect = 7e-13,   Method: Composition-based stats.
 Identities = 43/423 (10%), Positives = 123/423 (29%), Gaps = 47/423 (11%)

Query: 27   VVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS--- 76
            +  + +   +  G               I  I +++++         +      +     
Sbjct: 640  ITTLGKIAHVFDGPFGSELKNEEYVDSGIPLIRVQNIKDNRLVLTRDNTVYISVEKHQKL 699

Query: 77   TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQF----LVLQPKDVLPELLQGWLLSID 132
              S    G ++  K G     A++ +     + +     + ++ +++ PE L  ++ S  
Sbjct: 700  KRSEVLPGDVVVTKTGWLGNAAVVPEEVKKANIRADIAGIRIKSEEISPEYLAIYISSNI 759

Query: 133  VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKI------------------ 174
              +    +  G+T      + +  + + +PP   Q  I + +                  
Sbjct: 760  GKKLCYRLSSGSTRDRIIIENLRKLKIIVPPKDIQEKIVQIMENAYKLKKQKEKEAEELL 819

Query: 175  ----IAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPD 230
                      +   I E       + +    + +  +    N +           G    
Sbjct: 820  NSIDDYVLKELGIEIPEIEESKIFIVDFNDIIKNKRLDAEFNQEKYKILMDAVEKGKYKT 879

Query: 231  HWEVKPFFALVTELNRKNTKLIESNILSLSYGN------IIQKLETRNMGLKPESYETYQ 284
                K F  +   +   +    +  I  +   +        +  + +      +  +   
Sbjct: 880  VEVGKVFKYIKKGIEVGSNAYTKEGIPFIRVSDIDDYKIHFENADKKINPKLYKELKDKY 939

Query: 285  IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCK 344
                G++++               +     II+   + +K     + Y   ++ S  L K
Sbjct: 940  KPQVGDLLYSKDGTIGF---CVMVEEDRDFIISGGILRLKVKDNINPYYIKVILSTKLLK 996

Query: 345  VF--YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
                      + + L+  + K+L + +PP + Q  I   +     +   L ++ ++ I  
Sbjct: 997  TLAEQRSIGAVIKHLREVEFKKLKIPLPPKEIQDKIAEEVKRRIKKAQQLKKESKKVIEE 1056

Query: 403  LKE 405
             K+
Sbjct: 1057 AKK 1059


>gi|95929208|ref|ZP_01311952.1| restriction modification system DNA specificity domain
           [Desulfuromonas acetoxidans DSM 684]
 gi|95134706|gb|EAT16361.1| restriction modification system DNA specificity domain
           [Desulfuromonas acetoxidans DSM 684]
          Length = 474

 Score = 79.8 bits (195), Expect = 7e-13,   Method: Composition-based stats.
 Identities = 67/468 (14%), Positives = 142/468 (30%), Gaps = 86/468 (18%)

Query: 24  HWKVVPIKRFT-----KLNTGRTSESGKDIIYI-----GLEDVESGTGKYLPKDGNSRQS 73
            W+V  +          + TG          Y+      +  +  G  +   +       
Sbjct: 12  SWEVATLGDVCRRGGGDVQTGPFGSQLHAADYVPVGIPSIMPMNIGDNRISEEGIARITP 71

Query: 74  DTS---TVSIFAKGQILYGKLGPYLRKAIIADFD--GICSTQFLVLQP---KDVLPELLQ 125
           + +   +  +   G I+Y + G   R+A++ + +   +C T  L ++      V P    
Sbjct: 72  EDARRLSKYLVRTGDIVYSRRGDVERRALVREPEDGWLCGTGCLRVRFGEKSVVHPPYAA 131

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
            +L    V + I    +GATM + +   +  +P  +P + EQ  +   + A   +I+   
Sbjct: 132 YYLGHPSVREWIVRHAQGATMPNLNTSILSALPFVLPSIEEQEQVASVLTALDDKIELNR 191

Query: 186 TERIRFIELLKEKKQALV---------SYIVTKGLNPDVKMKD--SG------------- 221
                  ++ +   ++                 G +P+       SG             
Sbjct: 192 QINQTLEQIAQTIFKSWFIDFEPVKAKIEAKAAGRDPERAAMCAISGKLEPELDQLPPEQ 251

Query: 222 ----------------IEWVGLVPDHWEVKPFFALVTELNR----KNTKLIESNILSLSY 261
                              +GL+P  WEVK    +   LN     K     E++ L +  
Sbjct: 252 YQQLAATAALFPDALVESELGLIPVGWEVKSLDQVANYLNGLALQKFPPESETDWLPVIK 311

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
              ++K +T          +   IVD G+++F +                 +G +     
Sbjct: 312 IAQLKKGDTEGADRASSKLKPVYIVDDGDVLFSWSGSLT-----VDIWTGGQGALNQHLF 366

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITN 380
            V        +     + +       A         ++ + +     + P         +
Sbjct: 367 KVTSVNYPKWFYLHWTKFHLARFQNIAADKAVTMGHIQRKHLTEALCVAPEK-------S 419

Query: 381 VINVETARIDVLVEKIEQSIVL------LKERRSSFIAAAVTGQ--ID 420
            I+   +    L+    Q I L      L   R + +   ++G+  ID
Sbjct: 420 GIDSFDSLFSSLLA---QEIELRIVSRSLSFLRDTLLPKLLSGELCID 464



 Score = 56.3 bits (134), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 22/138 (15%), Positives = 41/138 (29%), Gaps = 11/138 (7%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTG----RTSESGKD--IIYIGLEDVESGTGKYLPKDGNSR 71
           +G IP  W+V  + +      G    +     +   +  I +  ++ G      +  +  
Sbjct: 271 LGLIPVGWEVKSLDQVANYLNGLALQKFPPESETDWLPVIKIAQLKKGD----TEGADRA 326

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
            S    V I   G +L+   G  L   I     G  +     +   +        W    
Sbjct: 327 SSKLKPVYIVDDGDVLFSWSGS-LTVDIWTGGQGALNQHLFKVTSVNYPKWFYLHWTKFH 385

Query: 132 DVTQRIEAICEGATMSHA 149
               +  A  +  TM H 
Sbjct: 386 LARFQNIAADKAVTMGHI 403


>gi|91205219|ref|YP_537574.1| restriction endonuclease S subunits [Rickettsia bellii RML369-C]
 gi|157827443|ref|YP_001496507.1| restriction endonuclease S subunits [Rickettsia bellii OSU 85-389]
 gi|91068763|gb|ABE04485.1| Restriction endonuclease S subunits [Rickettsia bellii RML369-C]
 gi|157802747|gb|ABV79470.1| Restriction endonuclease S subunits [Rickettsia bellii OSU 85-389]
          Length = 245

 Score = 79.8 bits (195), Expect = 7e-13,   Method: Composition-based stats.
 Identities = 45/269 (16%), Positives = 93/269 (34%), Gaps = 32/269 (11%)

Query: 159 MPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMK 218
           MP+PPL EQ  I   +          I +    I L ++    L   ++   LNP     
Sbjct: 1   MPLPPLPEQQKIANILRVWDKA----IEKVSTLISLNEKFFNNLAKKLLKNCLNPQYLAW 56

Query: 219 DSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE 278
                 +G +           +       +               I++K   +      +
Sbjct: 57  CP--VTLGEIFTERRETTLNKMELLSITGSE-------------GIVKKDSLKKRDTSNK 101

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG--IDSTYLAWL 336
               Y ++ PG++ +  + +      + S      GI++ AY    P+   I++ ++ +L
Sbjct: 102 DKSKYLLIYPGDLGYNTMRMWQGVCGISSLS----GIVSPAYTICIPNSSAINTQFIYFL 157

Query: 337 MRSYDLCKVFYAMGSGLRQ---SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
            +   +   FY    GL      LKF     + + +P I+ Q    N++          +
Sbjct: 158 FKLPKMINEFYRYSQGLVDDTLGLKFSYFAEIKINIPTIEYQNQTANIL----LNYKNQI 213

Query: 394 EKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
            K +     L+ ++   I   +TG+  ++
Sbjct: 214 SKYKNYKKALQSQKQGLIQKLLTGEWRVK 242



 Score = 60.2 bits (144), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 24/184 (13%), Positives = 49/184 (26%), Gaps = 7/184 (3%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W  V +          T    + +   G E +         K  ++   D S   +   G
Sbjct: 56  WCPVTLGEIFTERRETTLNKMELLSITGSEGIVKKDS---LKKRDTSNKDKSKYLLIYPG 112

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            + Y  +  +     I+   GI S  + +  P          + L        E      
Sbjct: 113 DLGYNTMRMWQGVCGISSLSGIVSPAYTICIPNSSAINTQFIYFLFKLPKMINEFYRYSQ 172

Query: 145 TMSH----ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
            +        +     I + IP +  Q      ++    +I      +       +   Q
Sbjct: 173 GLVDDTLGLKFSYFAEIKINIPTIEYQNQTANILLNYKNQISKYKNYKKALQSQKQGLIQ 232

Query: 201 ALVS 204
            L++
Sbjct: 233 KLLT 236


>gi|322691669|ref|YP_004221239.1| hypothetical protein BLLJ_1480 [Bifidobacterium longum subsp.
           longum JCM 1217]
 gi|320456525|dbj|BAJ67147.1| conserved hypothetical protein [Bifidobacterium longum subsp.
           longum JCM 1217]
          Length = 363

 Score = 79.8 bits (195), Expect = 7e-13,   Method: Composition-based stats.
 Identities = 40/404 (9%), Positives = 98/404 (24%), Gaps = 64/404 (15%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W+   +   T L  G                 +   G       +      ST +    
Sbjct: 2   SWRETTLGEITDLKRGFDLPKS-----------QRLQGDVPVYSSSGITGSNSTAA-VEG 49

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
             ++ G+ G               +T     +     P  +   L +I            
Sbjct: 50  PCVITGRYGTIGEVFFSGGPCWPLNTALYSTEFNGNNPRFIYYLLQTIPWQ----GYTTA 105

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           + +   +   +   P+ IP  A Q  I E + +   +I            L         
Sbjct: 106 SAVPGVNRNHVNLCPVKIPDRATQDAIVEVLDSIVDKIALNNRLNDYLANLC-------- 157

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
                              E +     +        +  ++         +    +S  +
Sbjct: 158 -------------------ETIASRYCNDRNSRLRDICYQVADHVDYDNANQETYVSTES 198

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
           ++Q    R +     +         G+ +   I     K      +    G  +   +  
Sbjct: 199 LMQNKGGRQLASSLPATGKITRYKAGDTLISNIRPYFKKIWYAPFE----GTCSGDVIVF 254

Query: 324 KPHGIDSTYLAW-LMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNV 381
           + +   +       +R             G        + +    V            + 
Sbjct: 255 RANDPSNAPYLHACLRQDSFFDYVMQGAKGTKMPRGDKKQMMEFKV-----------ASS 303

Query: 382 INVET-ARIDVLVEK---IEQSIVLLKERRSSFIAAAVTGQIDL 421
            + +    +D  +++    +   V L+  R + +   ++G+ID+
Sbjct: 304 CSTKDLILLDSAIKQRSDNDSETVKLQALRDTLLPKLMSGEIDV 347


>gi|255601534|ref|XP_002537701.1| conserved hypothetical protein [Ricinus communis]
 gi|223515425|gb|EEF24682.1| conserved hypothetical protein [Ricinus communis]
          Length = 265

 Score = 79.8 bits (195), Expect = 8e-13,   Method: Composition-based stats.
 Identities = 45/278 (16%), Positives = 101/278 (36%), Gaps = 29/278 (10%)

Query: 157 IPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVK 216
           + + +PP+ EQ  I + +       D  I    R     +++K+AL++ ++         
Sbjct: 1   MKIALPPVQEQRRIADIL----STWDQAIIVTERLCANSQQRKRALMTSLL--------- 47

Query: 217 MKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK 276
              SG        D W    F ++ + + RKN+    + +       +I + +  N  + 
Sbjct: 48  ---SGRRRFPSFEDKWRYVDFDSIFSRVLRKNSSNNNNVLTISGEHGLISQRDYFNKSVA 104

Query: 277 PESYETYQIVDPGEIVFRFIDLQNDK-RSLRSAQVMERGIITSAYMAVKPHGI---DSTY 332
             +   Y  +   +  +           +++     E GI++S Y+  +       D  +
Sbjct: 105 GANLTGYTFLQRFDFAYNKSYSSGYPLGAIKPLLAYETGIVSSLYLCFRLREDVDADFDF 164

Query: 333 LAWLMRSYDLCKVFYAMGS-GLRQ----SLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
                 +  + +    +   G R     ++   D  +L + +P  +EQ  I  VINV  A
Sbjct: 165 FRHYFEAGFMNQEIEGIAQEGARNHGLLNVSVNDFFKLRLHIPSAQEQRRIAEVINVAEA 224

Query: 388 RIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGES 425
                 ++ E  +  L   + + +   +TG+  +    
Sbjct: 225 E----QKRHEAQLQSLCLEKLALMQQLLTGKRCVSPPE 258


>gi|303255270|ref|ZP_07341341.1| putative type I RM modification enzyme [Streptococcus pneumoniae
           BS455]
 gi|301801717|emb|CBW34423.1| putative type I RM modification enzyme [Streptococcus pneumoniae
           INV200]
 gi|302597739|gb|EFL64814.1| putative type I RM modification enzyme [Streptococcus pneumoniae
           BS455]
          Length = 368

 Score = 79.8 bits (195), Expect = 8e-13,   Method: Composition-based stats.
 Identities = 45/366 (12%), Positives = 97/366 (26%), Gaps = 24/366 (6%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V + +      G   +  +D    G E +         K  N          I   G 
Sbjct: 2   KKVKLGQVATFINGYAFKP-QDWSSEGKEIIRIQNLTKTSKGINYYSGTIDKKYIVEAGD 60

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           IL    G  L          + +     +    +  +      +     Q       G+T
Sbjct: 61  ILISWSGT-LGVFQWCGRSAVLNQHIFKVVFDKIDIDKSYFKYVVEKGLQDAVKHTHGST 119

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
           M H   K   NI +P   L EQ  I  ++   +  I     +                  
Sbjct: 120 MKHLTKKYFDNIIVPYTNLGEQQRIASELDLLSKLILRRQEQLEELNL------------ 167

Query: 206 IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII 265
                L      +  G   +    D+              + +    E   L L+  N+ 
Sbjct: 168 -----LVKSRFNEMFGENKIFESIDNLFDIIDGDRGKNYPKSDELFSEEYCLFLNTKNVT 222

Query: 266 QKLETRN----MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
           +   + +    +    +       ++  +IV        +          +   I S  +
Sbjct: 223 KNGFSFDTKQFITKTKDKLLRKGKLERYDIVLTTRGTVGNVAYYDELIKYKHLRINSGMV 282

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
            ++P   +     +++           +    +  L    +K++ + +PP+  Q +  + 
Sbjct: 283 ILRPKTPNLNQ-KFIIHVLRNNNYSRVISGSAQPQLPITKLKKILLPLPPLALQNEFADF 341

Query: 382 INVETA 387
           +     
Sbjct: 342 VAQVDK 347



 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/142 (11%), Positives = 42/142 (29%), Gaps = 10/142 (7%)

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
            ++ +     + +   IV+ G+I+  +                   ++      V    I
Sbjct: 39  TSKGINYYSGTIDKKYIVEAGDILISWSGTLG-----VFQWCGRSAVLNQHIFKVVFDKI 93

Query: 329 DSTYLAW-LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           D     +  +    L            + L  +    + V    + EQ  I + ++    
Sbjct: 94  DIDKSYFKYVVEKGLQDAVKHTHGSTMKHLTKKYFDNIIVPYTNLGEQQRIASELD---- 149

Query: 388 RIDVLVEKIEQSIVLLKERRSS 409
            +  L+ + ++ +  L     S
Sbjct: 150 LLSKLILRRQEQLEELNLLVKS 171


>gi|224023387|ref|ZP_03641753.1| hypothetical protein BACCOPRO_00080 [Bacteroides coprophilus DSM
           18228]
 gi|224016609|gb|EEF74621.1| hypothetical protein BACCOPRO_00080 [Bacteroides coprophilus DSM
           18228]
          Length = 404

 Score = 79.8 bits (195), Expect = 8e-13,   Method: Composition-based stats.
 Identities = 50/410 (12%), Positives = 117/410 (28%), Gaps = 29/410 (7%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K   +     +   +          +     ++  G Y P  G     D     IF    
Sbjct: 5   KTYKLGDIVNVLDYKRIP-------LSSTQRQNKKGIY-PYYGAQGIIDYIDDYIFDGEY 56

Query: 86  ILYGKLGPYLR-----KAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
           +L  + G  L+      A IA      +    +++   +       ++  +     +   
Sbjct: 57  LLIAEDGENLKSQKQHVAQIATGKYWVNNHAHIVESNGLCD---IRYVCYLLNRMDLSGY 113

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
             G+     +   +  I + +P L EQ  I E +     +I+          +  +   +
Sbjct: 114 ITGSAQPKLNQANLLKIEIKLPSLKEQYKIAEFLHLFDGKIELNRRINENLEQQAQALFK 173

Query: 201 ALVSYIVTKGLNPD------VKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
           +                   +  K+  I ++G +P   E               +   E+
Sbjct: 174 SWFVDFEPFKNGKFVDSELGMIPKELNIRYIGDIPHTIECGRRPKGGATDKGVPSIGAEN 233

Query: 255 NILSLSYGNIIQKLETRNMGLKPE--SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
                 Y     K   +   L         Y+++   +       + N           E
Sbjct: 234 IKGLGIYDYSKTKYIPKEFALTTNRGKINGYELLIYKDGGKPGYFIPNYTIFGDGFPFDE 293

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPP 371
             I    +     +   + +  + M++  +     ++G       +  +DV+ LP+    
Sbjct: 294 MFINEHVFKLNLLNKEYNIFAYFYMQTPFIMNQLNSIGGKAAIPGINTKDVESLPIF--- 350

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
             E   I    N+    I   + K  +    L + R   +   ++G++ +
Sbjct: 351 SYENNKIKEFGNIVLPMIKR-ILKNCRENARLAQLRDILLPKLMSGELKI 399



 Score = 61.3 bits (147), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 21/180 (11%), Positives = 63/180 (35%), Gaps = 11/180 (6%)

Query: 231 HWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGE 290
           + +      +V  L+ K   L  +   +          +     +    ++   ++   +
Sbjct: 3   NIKTYKLGDIVNVLDYKRIPLSSTQRQNKKGIYPYYGAQGIIDYIDDYIFDGEYLLIAED 62

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG 350
                 +L++ K+ +      +  +   A++       D  Y+ +L+   DL        
Sbjct: 63  ----GENLKSQKQHVAQIATGKYWVNNHAHIVESNGLCDIRYVCYLLNRMDLSGYI---T 115

Query: 351 SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
              +  L   ++ ++ + +P +KEQ+ I   ++      D  +E   +    L+++  + 
Sbjct: 116 GSAQPKLNQANLLKIEIKLPSLKEQYKIAEFLH----LFDGKIELNRRINENLEQQAQAL 171


>gi|319951809|ref|YP_004163076.1| restriction modification system DNA specificity domain protein
           [Cellulophaga algicola DSM 14237]
 gi|319420469|gb|ADV47578.1| restriction modification system DNA specificity domain protein
           [Cellulophaga algicola DSM 14237]
          Length = 507

 Score = 79.8 bits (195), Expect = 8e-13,   Method: Composition-based stats.
 Identities = 54/369 (14%), Positives = 123/369 (33%), Gaps = 17/369 (4%)

Query: 58  SGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPK 117
           S  G+Y     + + +  +    F +  +++G  G         +     ++   + + K
Sbjct: 24  STKGEYPFLTSSQKITKRTDSPQFFEECLVFGNGGS--ANIHYLNEPFATTSHCYIAERK 81

Query: 118 DVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
           D    +   +         +E   +GA + +   K I  + +PI P+  Q  I   +   
Sbjct: 82  DKKVNIRFVYYYLSGNLHILERGFKGAGLKNISSKYIATLDIPILPIENQNKIVALLDKA 141

Query: 178 TVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPF 237
           +  +        +  EL       L +  +    +P +  K   +E +       ++ PF
Sbjct: 142 SALVQKREKSIAQLDEL-------LRAQFLDMFGDPVMANKHDSVE-LKFYLKKIQIGPF 193

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID 297
            + +   +     +   N +++    I    E      K  S   Y + + G+I+     
Sbjct: 194 GSQLHRKDYIKGGIPLVNPVNIIDNKIFPDNEITLTEEKYNSLPNYHLTE-GDIIMARRG 252

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQS 356
                  +   +        S Y+    +   S +L   +  ++  +       G   ++
Sbjct: 253 EMGRCGLITEIENNWFCGTGSLYLRP-KNIEHSVFLLLALTEFNTIEYLNRNAKGVTMKN 311

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           L    +  +P++     E   I    N     I    E + QS   L++  +S +  A  
Sbjct: 312 LNKTIISNIPII---KCEDHLILEF-NSIYYSIQAQKETLIQSRTELEDLLNSLLQEAFK 367

Query: 417 GQIDLRGES 425
           G+I++  E 
Sbjct: 368 GKIEVSKEE 376


>gi|26554275|ref|NP_758209.1| type I restriction-modification system S subunit [Mycoplasma
           penetrans HF-2]
 gi|26454284|dbj|BAC44613.1| type I restriction-modification system S subunit [Mycoplasma
           penetrans HF-2]
          Length = 519

 Score = 79.8 bits (195), Expect = 8e-13,   Method: Composition-based stats.
 Identities = 61/439 (13%), Positives = 123/439 (28%), Gaps = 69/439 (15%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESG----KDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            IP +W  V +K  + LN G   ES       I  + + D +               S  
Sbjct: 83  EIPNNWTWVRLKNISNLNGGYAFESNLFLSHGIRVVRISDFDDKGILENEIKRTKYFSRL 142

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICS--TQFLVLQPKDVLPELLQGWLLSIDV 133
               I     IL    G  + K  I ++    S   Q +      +L       +L+   
Sbjct: 143 DPYKI-ELNDILMCMTGGTVGKNCIIEYINEDSYINQRIAKITSIILNSKFLHHVLNSSY 201

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
              I    + +T  +     I    +P PP+  Q  I   I   +  I+     + +   
Sbjct: 202 IISIINNSKTSTNDNISMDLIKEFLIPCPPIFTQNKIVNFIGQISSFIEKYSELKNKLQT 261

Query: 194 LLKEKKQALVSYIV---------------------------------------------- 207
           L ++ K +L + I                                               
Sbjct: 262 LDQKFKLSLKNSIFKYAIEGKLVKQNLNDEPASELVKKIYEEKQKLISEGKIKKDKNESY 321

Query: 208 -----TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
                          +   I+    +P  W       +   +  K  K   +   + +  
Sbjct: 322 IFKDNNCYYEKVSNFEPKKIDVPFGIPKTWHWIKLSNICELILGKTPKRSINTNWNSNDI 381

Query: 263 NIIQKLETRNMGLKPESYE---------TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
           N +   + +++G    + E          +  +   E +     L   + S+     +  
Sbjct: 382 NWVTISDMKDLGKIFSTKEYITNEAFKNEFTRISKKESLLMSFKLTIGRTSILEIDAVHN 441

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
             I +             +L + + ++       +   G   ++  E +  + V +PPI 
Sbjct: 442 EAIVTINPYYDKDYAIRDFLFYTLGTFVSFIEKTSAIKGS--TINKEKMINMLVSLPPIN 499

Query: 374 EQFDITNVINVETARIDVL 392
           EQ  I   I+   + I+ +
Sbjct: 500 EQRRIIKSISKIHSLINSI 518



 Score = 69.4 bits (168), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 26/194 (13%), Positives = 65/194 (33%), Gaps = 6/194 (3%)

Query: 222 IEWVGLVPDHWEVKPFFALVTELNR---KNTKLIESNILSLSYGNIIQKLETRNMGLKPE 278
           IE    +P++W       +         ++   +   I  +   +   K    N   + +
Sbjct: 78  IEVPFEIPNNWTWVRLKNISNLNGGYAFESNLFLSHGIRVVRISDFDDKGILENEIKRTK 137

Query: 279 SYET--YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWL 336
            +       ++  +I+         K  +    + E   I      +    ++S +L  +
Sbjct: 138 YFSRLDPYKIELNDILMCMTGGTVGKNCIIEY-INEDSYINQRIAKITSIILNSKFLHHV 196

Query: 337 MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
           + S  +  +     +    ++  + +K   +  PPI  Q  I N I   ++ I+   E  
Sbjct: 197 LNSSYIISIINNSKTSTNDNISMDLIKEFLIPCPPIFTQNKIVNFIGQISSFIEKYSELK 256

Query: 397 EQSIVLLKERRSSF 410
            +   L ++ + S 
Sbjct: 257 NKLQTLDQKFKLSL 270


>gi|260660507|ref|ZP_05861422.1| restriction modification system DNA specificity subunit
           [Lactobacillus jensenii 115-3-CHN]
 gi|260548229|gb|EEX24204.1| restriction modification system DNA specificity subunit
           [Lactobacillus jensenii 115-3-CHN]
          Length = 388

 Score = 79.8 bits (195), Expect = 8e-13,   Method: Composition-based stats.
 Identities = 47/398 (11%), Positives = 115/398 (28%), Gaps = 31/398 (7%)

Query: 25  WKVVPIKRFTKLNTGRTSESG----KDIIYIGLEDVESGTGKYLPKDGNSRQ--SDTSTV 78
           WK V + +   +  G               I  +++E+GT  +      S++   + +  
Sbjct: 14  WKKVKLGQIADVRDGTHESPKYVSQNGYPLITSKNLENGTINFDDISYISKKDYEEINKR 73

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           S+  K  IL+G +G     AI+           L+    ++    L   + S    +   
Sbjct: 74  SLVEKNDILFGMIGTIGNVAIVKKSGFAIKNVALIKSNSEIPSINLIQIIQSDIFKKYTN 133

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
            +  G +        I      +   +E +LI +        +     +     +L K  
Sbjct: 134 RLNSGNSQKFISLGDIRKFDFKMASKSENMLISKLFKKVDTLLSLQQRKLELEKQLKKFC 193

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
            Q ++S        P+++  D    W  +            ++++     TK        
Sbjct: 194 LQNILSD---NKKCPNLRFHDFSTNWKKVKVGDIFTVTRGKVLSKDKISKTKDHIMKYPV 250

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
            S   +   L         E   T+          R    +    ++    + + G +  
Sbjct: 251 YSSQTLNNGLLGYYHDYLFEDAITWTTDGANAGTVRLRAGKFYGTNVNGVLLSKNGYVND 310

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV-PPIKEQFD 377
           A        ++     +             +       L    ++ +   + P ++EQ  
Sbjct: 311 A----NAEALNQIAWKY-------------VSKVGNPKLMNNVMQNIMFSIAPSVEEQV- 352

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
              +I+         ++  + +I +  + +   +    
Sbjct: 353 ---IISKLFILHSKSLKIYQANINVYTQLKQFLLQNLF 387


>gi|319778989|ref|YP_004129902.1| Type I restriction-modification system, specificity subunit S
           [Taylorella equigenitalis MCE9]
 gi|317109013|gb|ADU91759.1| Type I restriction-modification system, specificity subunit S
           [Taylorella equigenitalis MCE9]
          Length = 387

 Score = 79.8 bits (195), Expect = 9e-13,   Method: Composition-based stats.
 Identities = 51/406 (12%), Positives = 128/406 (31%), Gaps = 45/406 (11%)

Query: 30  IKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYG 89
           +    ++  G+  +            V S  G  +P  G       +T +++ K  +L G
Sbjct: 8   LSELAEIKYGKNQKK-----------VLSEDGN-IPIYGTGGLFGYATTALYDKPSVLIG 55

Query: 90  KLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHA 149
           + G   +   +        T F  +   D++      +++S+          EG T+   
Sbjct: 56  RKGTIRKVKYVEHPFWTVDTLFYTIINTDIVIPKYLYYVMSL---IDFNNYDEGTTIPSL 112

Query: 150 DWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTK 209
             + +  +   IP   EQ ++   +     +++          + +K    A +S     
Sbjct: 113 RTETLNRLEFDIPSKEEQEIVLSCLNPIDEKVELNNAINNNLEQQIKTICTAWLSA---- 168

Query: 210 GLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLE 269
                        + +        +      V   + K T+L ESNI   +  N  +K  
Sbjct: 169 --------CAPSSDVILEGWSKISLSSIADFVGGYSYKRTELTESNIAMATIKNFDRKGG 220

Query: 270 TRNMGLK----PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM---- 321
            +  G K        +  Q  +  + +    DL  +   + +A+++      S  +    
Sbjct: 221 FKLDGYKEIVPSNKLKDSQYAELFDTLVAHTDLTQNAEIIGNAELVMNTNGYSDIVFSMD 280

Query: 322 ----AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVP-PIKEQ 375
                     +    +A +++            +G     L  + +    + +P  +   
Sbjct: 281 LVKVVPNKKHVSKFLIAAILQDKKFKAHCLGYVNGTTVLHLSKKALPEYQLYLPADLS-- 338

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
             +   ++     +   +    +    L+  R + +   ++G+ID+
Sbjct: 339 --VLKPLDELVTALYQRISANIEETTKLETLRDTLLPKLMSGEIDV 382


>gi|218247750|ref|YP_002373121.1| restriction modification system DNA specificity domain-containing
           protein [Cyanothece sp. PCC 8801]
 gi|218168228|gb|ACK66965.1| restriction modification system DNA specificity domain protein
           [Cyanothece sp. PCC 8801]
          Length = 238

 Score = 79.5 bits (194), Expect = 9e-13,   Method: Composition-based stats.
 Identities = 27/216 (12%), Positives = 79/216 (36%), Gaps = 11/216 (5%)

Query: 215 VKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK-LETRNM 273
            + KDS +  + +  +   +             +       I  L   N++   ++  ++
Sbjct: 21  HQFKDSVLGRIPVEWEVKLLDKLLIEKRYGISTSLSEDPKGIPVLRMNNLVDGEVDFTDI 80

Query: 274 GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV---KPHGIDS 330
                +      ++ G+++F   +  +        +   + +  ++Y+         +D 
Sbjct: 81  KYSERNDAKKLTLNKGDVLFNRTNSVDYVGRTAIYRDSNKVVSFASYLVRLVTDNAMLDP 140

Query: 331 TYLAWLMRSYDLCKVFYAMGS-GLRQ-SLKFEDVKRLPVLVPP-IKEQFDITNVINVETA 387
            YL   +   +       + + G++Q ++   ++ RL + +P  I EQ  I   I+  T 
Sbjct: 141 EYLNLWLNDKNNQIRVKQLATIGVQQANVNPTNLGRLLLAIPKKITEQKKIVKKISSCTN 200

Query: 388 RIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
            +     K + ++  L+  +   +   +TG++ +  
Sbjct: 201 FL----HKTQTNLTKLRSIKIGLMQDLLTGKVRVTE 232



 Score = 53.3 bits (126), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 44/213 (20%), Positives = 83/213 (38%), Gaps = 18/213 (8%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPI-KRFTKLNTGRTSESGKD---IIYIGLEDVESGTGKYL 64
           Q+KDS    +G IP  W+V  + K   +   G ++   +D   I  + + ++  G   + 
Sbjct: 22  QFKDS---VLGRIPVEWEVKLLDKLLIEKRYGISTSLSEDPKGIPVLRMNNLVDGEVDFT 78

Query: 65  PKDGNSRQSDTSTVSIFAKGQILYGKLGP---YLRKAIIADFDGICSTQFL----VLQPK 117
               + R    +      KG +L+ +        R AI  D + + S        V    
Sbjct: 79  DIKYSERND--AKKLTLNKGDVLFNRTNSVDYVGRTAIYRDSNKVVSFASYLVRLVTDNA 136

Query: 118 DVLPELLQGWLLSIDVTQRIEAICE-GATMSHADWKGIGNIPMPIP-PLAEQVLIREKII 175
            + PE L  WL   +   R++ +   G   ++ +   +G + + IP  + EQ  I +KI 
Sbjct: 137 MLDPEYLNLWLNDKNNQIRVKQLATIGVQQANVNPTNLGRLLLAIPKKITEQKKIVKKIS 196

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVSYIVT 208
           + T  +    T   +   +     Q L++  V 
Sbjct: 197 SCTNFLHKTQTNLTKLRSIKIGLMQDLLTGKVR 229


>gi|197336491|ref|YP_002157416.1| restriction modification system S subunit [Vibrio fischeri MJ11]
 gi|197315194|gb|ACH64642.1| restriction modification system S subunit [Vibrio fischeri MJ11]
          Length = 426

 Score = 79.5 bits (194), Expect = 9e-13,   Method: Composition-based stats.
 Identities = 66/430 (15%), Positives = 141/430 (32%), Gaps = 43/430 (10%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
            + PI    + N  RT + G  + +I +  + +           + +      + F  G 
Sbjct: 4   DIAPITTLVEFNPSRTIKKGTVVPFIEMASLPTSHRDI---GIIAEKEFNGGGAKFKNGD 60

Query: 86  ILYGKLGPYLRKAIIADF-------DGICSTQFLVLQPKDVLPELLQGWL--LSIDVTQR 136
            L+ ++ P L     A          G  ST+F+V+  K    +    +      +    
Sbjct: 61  TLFARITPCLENGKTAQVQGLPEGTFGFGSTEFIVMSAKLPEYDKDYVYYLARLPEFRIY 120

Query: 137 IEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            +   EG +      W+ +       PP   +      +     +I +         ++ 
Sbjct: 121 AQTHMEGTSGRQRVPWQSLAKFEYRFPPKEGRKSAASFLKMLDKKIASNTAMNQTLEKIA 180

Query: 196 KEKKQALVSYIVT----------KGLNPDVK-MKDSGIEW--VGLVPDHWEVKPFFALVT 242
               ++                  GL+P+++ +  S  E   VG++P  W+V+       
Sbjct: 181 LRIFKSWFIDFDPVKANKEGVAFDGLSPEIQALFPSEFEESEVGVIPKGWKVQSLSKTAN 240

Query: 243 E----LNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDL 298
                  +K   + + + L +     ++   T+       +  +  I+  G+ +F +   
Sbjct: 241 FLNGLACQKYPPVSQDDALPVIKIAEMRSGYTQKTNEASSTVNSKYIIKSGDFLFSWSGS 300

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV-FYAMGSGLRQSL 357
                          GI+      V        + A  +  +    +   A  +     +
Sbjct: 301 LTT-----CYWGHSIGILNQHLFKVTSDIYPQWFYAHWVNYHLGEFIRIAADKATTMGHI 355

Query: 358 KFEDVKRLPVLVPPIKEQFDITNVINVETA-RIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           K   +    VLVP      DI    +   A  I+ L++  E +  L+ + R  F+   ++
Sbjct: 356 KRGHLDEAKVLVPS----QDILVAGSRVIAPLINKLIQNQENTRSLI-DIRDRFLPKLIS 410

Query: 417 GQIDLRGESQ 426
           GQI + GE+Q
Sbjct: 411 GQITV-GEAQ 419



 Score = 59.4 bits (142), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 35/208 (16%), Positives = 62/208 (29%), Gaps = 14/208 (6%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRT------SESGKDIIYIGLEDVESGTGK 62
           ++++S V   G IPK WKV  + +      G              +  I + ++ SG   
Sbjct: 217 EFEESEV---GVIPKGWKVQSLSKTANFLNGLACQKYPPVSQDDALPVIKIAEMRSGY-- 271

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPE 122
              +  N   S  ++  I   G  L+   G  L         GI +     +        
Sbjct: 272 --TQKTNEASSTVNSKYIIKSGDFLFSWSGS-LTTCYWGHSIGILNQHLFKVTSDIYPQW 328

Query: 123 LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
               W+          A  +  TM H     +    + +P     V     I     ++ 
Sbjct: 329 FYAHWVNYHLGEFIRIAADKATTMGHIKRGHLDEAKVLVPSQDILVAGSRVIAPLINKLI 388

Query: 183 TLITERIRFIELLKEKKQALVSYIVTKG 210
                    I++       L+S  +T G
Sbjct: 389 QNQENTRSLIDIRDRFLPKLISGQITVG 416


>gi|227544651|ref|ZP_03974700.1| type I site-specific restriction-modification system, S
           (specificity) subunit [Lactobacillus reuteri CF48-3A]
 gi|300909432|ref|ZP_07126893.1| type I restriction/modification specificity protein [Lactobacillus
           reuteri SD2112]
 gi|227185376|gb|EEI65447.1| type I site-specific restriction-modification system, S
           (specificity) subunit [Lactobacillus reuteri CF48-3A]
 gi|300893297|gb|EFK86656.1| type I restriction/modification specificity protein [Lactobacillus
           reuteri SD2112]
          Length = 385

 Score = 79.5 bits (194), Expect = 9e-13,   Method: Composition-based stats.
 Identities = 55/402 (13%), Positives = 116/402 (28%), Gaps = 40/402 (9%)

Query: 29  PIKRFTKLN---TGRTSES--------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
            +     +     G+T +           DI+ +  +++++G    L K      +  + 
Sbjct: 5   RLGDVLTIIMDYRGKTPKKLGLDWTEDKNDIVALSAKNLKNGELINLDKSHYGNSALYNK 64

Query: 78  VSI---FAKGQILYGKLGPYLRKAIIADFD-GICSTQFLVLQPKDVL--PELLQGWLLSI 131
                  + G IL     P     ++      I S +  +L+P + +  P  L  ++ S 
Sbjct: 65  WMKDGDISVGDILMTSEAPLGELFLVDKPIKAILSQRIFLLRPNNSIVLPWYLYFYMSSK 124

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
           +   R+     G T+     K + NI + +P L+ Q  I  K++     I   I      
Sbjct: 125 NFQNRLNGHATGTTVIGIKQKELRNIEIELPSLSIQKSIVRKLVP----ISKKIEINKEI 180

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
              L E    + S       N     K +     G  P       + + +  +   +   
Sbjct: 181 NANLLELITLIWSRYSQNISNKVPLKKIAKDIVTGKTPSTKIKANYGSDIPFVKIPDMHN 240

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
                              +++ L     +  + +    I+   I          S    
Sbjct: 241 KVFI-----------DETLQSLSLLGADSQKNKYLPANSIMVSCIGTPGLVSLTGSIAQT 289

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
            + I +              ++   +RS          G    ++L   D  +L V+VP 
Sbjct: 290 NQQINSLVL-----DEKFIYWVFLELRSLSNKIGNLGSGGTTIKNLNKSDFSKLEVVVPD 344

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
                 + +  N     I   +         L + +   +  
Sbjct: 345 NDI---LLDKFNSIAKPIFESIHTNSFETNKLNQLKKRLLHK 383


>gi|315634180|ref|ZP_07889469.1| conserved hypothetical protein [Aggregatibacter segnis ATCC 33393]
 gi|315477430|gb|EFU68173.1| conserved hypothetical protein [Aggregatibacter segnis ATCC 33393]
          Length = 475

 Score = 79.5 bits (194), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 61/411 (14%), Positives = 129/411 (31%), Gaps = 40/411 (9%)

Query: 31  KRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPK-DGNSRQSDTSTVSIFA 82
           K    +  G+    G D       I YI  ED+++G   Y      +             
Sbjct: 48  KNIIVVKGGKRLPEGHDFLNNKSGIPYIRAEDIKNGFVDYTNSPTISLLTHREIKAYQTE 107

Query: 83  KGQILYGKLGPYLRKAIIADFD---GICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
              +L   +G  +    I  F+      +   + L  K + PE L  +L S      IE 
Sbjct: 108 YNDVLMTIVGNSIGDIGIVKFNLDICNLTENAVRLITKKIKPEYLFSFLESKFGQNYIER 167

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK- 198
              G        + I  I +PI     Q  I   + +   ++            LL +  
Sbjct: 168 NKVGTAQPKLSIERIRKIKIPIVSSEFQDEIESLVSSAFEKLQKSKETYQAAQNLLLDHL 227

Query: 199 --------KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
                    QA+     +       ++     E+     + +  K           +   
Sbjct: 228 GLKDFNPPAQAVNVKSFSDSFGRSGRL---DAEFYQEKYEGYLKKIQAYPYGCEPIRTAC 284

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPE------------SYETYQIVDPGEIVFRFIDL 298
            ++    +       Q +E  N+G   E                 + V   +++   ++ 
Sbjct: 285 KLKDANYTPKDNQTYQYIELSNIGNLGEITGASLDLGCNLPSRARRKVSKNDVIVSSVEG 344

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSL 357
                ++ S +   + + ++ +  V    I+S  L  L +S  + ++     SG    ++
Sbjct: 345 SLASCAIVS-EQYHQALCSTGFYVVSSEKINSETLLILFKSESIQQLLKQGCSGTILTAI 403

Query: 358 KFEDVKRLPVLVPPIKEQFDITNVINV---ETARIDVLVEKIEQSIVLLKE 405
             ++   +P+ +     Q  I ++I        +   L+EK ++++ L  E
Sbjct: 404 NKDEFLNIPLPLVDANIQTQIADLIRQSNYLRIKSKGLLEKAKKAVELAIE 454


>gi|217034275|ref|ZP_03439692.1| hypothetical protein HP9810_885g6 [Helicobacter pylori 98-10]
 gi|216943247|gb|EEC22712.1| hypothetical protein HP9810_885g6 [Helicobacter pylori 98-10]
          Length = 197

 Score = 79.5 bits (194), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 24/197 (12%), Positives = 59/197 (29%), Gaps = 17/197 (8%)

Query: 225 VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ 284
           +G +      K      T    +            ++GN      ++ + L+ ++   Y 
Sbjct: 15  LGDIGKPCMCKRVMKHQTTRYGEIPFYKIG-----TFGNTADAFISKKLFLEYKT--KYS 67

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCK 344
               G+I+                   +      + +    +        +L  +Y   K
Sbjct: 68  FPKKGDILISASGT----IGKAVIYDGKPAYFQDSNIVWIDNDETLVKNDFLFYAYSNVK 123

Query: 345 VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLK 404
                       L  ++ +   + +PP+ EQ  I N+++     I  L  K  Q     +
Sbjct: 124 W--NTEHTTILRLYNDNFRNTLIPLPPLNEQSAIANILSALDNEITSLKNKKRQ----FE 177

Query: 405 ERRSSFIAAAVTGQIDL 421
             + +     ++ +I +
Sbjct: 178 NIKKALNHDLMSTKIRV 194



 Score = 54.8 bits (130), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 33/189 (17%), Positives = 59/189 (31%), Gaps = 10/189 (5%)

Query: 21  IPKHWKVVPIKRF-----TKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           +P +W+ V +         K      +    +I +  +    +    ++ K         
Sbjct: 6   LPLNWQRVRLGDIGKPCMCKRVMKHQTTRYGEIPFYKIGTFGNTADAFISKKLFL--EYK 63

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
           +  S   KG IL    G   +  I            +V        E L           
Sbjct: 64  TKYSFPKKGDILISASGTIGKAVIYDGKPAYFQDSNIVWI---DNDETLVKNDFLFYAYS 120

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            ++   E  T+         N  +P+PPL EQ  I   + A    I +L  ++ +F  + 
Sbjct: 121 NVKWNTEHTTILRLYNDNFRNTLIPLPPLNEQSAIANILSALDNEITSLKNKKRQFENIK 180

Query: 196 KEKKQALVS 204
           K     L+S
Sbjct: 181 KALNHDLMS 189


>gi|237744714|ref|ZP_04575195.1| type I restriction-modification system specificity subunit
           [Fusobacterium sp. 7_1]
 gi|229431943|gb|EEO42155.1| type I restriction-modification system specificity subunit
           [Fusobacterium sp. 7_1]
          Length = 346

 Score = 79.5 bits (194), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 44/369 (11%), Positives = 107/369 (28%), Gaps = 39/369 (10%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVE--SGTGKYLPKDGNSRQS 73
             WK + +     L  G+T            +  +I + D+        +  +       
Sbjct: 7   SEWKKIKLGDIFILQMGKTPLRENKLYWDKGNYNWISISDMNFSEKYISFTKEKITDFAI 66

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
             S + I  K  ++       + K  I + D   +   +   PK+ +         S+  
Sbjct: 67  KKSGIKIIPKNTVIMS-FKLSIGKVKIVNEDIYSNEAIMAFIPKEDIFIDENFLYHSLKS 125

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            +  E I +       +   I    + +P L  Q  I   +      +            
Sbjct: 126 VRWNEGINKAVKGLTLNKNLISQKEIFLPDLTTQKEITNNLDTIDNLL------------ 173

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
              E ++  ++Y+   G +  V    +GIE          +     +    +  +     
Sbjct: 174 ---ELRKKQLNYLKELGKSLFVTFNKNGIEK--------RLDDIADISMGQSPLSQSYNI 222

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
                  Y    +  +              +IV+  +I+        D          ++
Sbjct: 223 DKKGLPFYQGKTEFGDIYIKEPIIYCNSPIKIVEKNDILMSVRAPVGD-----VNIATQK 277

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
             I     +++   +D  YL +L++     K+         +++   ++  L + +  + 
Sbjct: 278 SCIGRGLASIRAKKVDYLYLFYLLK-ERKIKIEKMGVGSTFKAINKNNISSLQIPIIEMS 336

Query: 374 EQFDITNVI 382
           +Q  I   +
Sbjct: 337 KQNRIKKYL 345



 Score = 57.1 bits (136), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 33/190 (17%), Positives = 59/190 (31%), Gaps = 15/190 (7%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ----KLETRNMGLKPESYETYQI 285
             W+      +      K               N I         + +    E    + I
Sbjct: 7   SEWKKIKLGDIFILQMGKTPLRENKLYWDKGNYNWISISDMNFSEKYISFTKEKITDFAI 66

Query: 286 VDPGEIVF--RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH---GIDSTYLAWLMRSY 340
              G  +     + +       +   V E      A MA  P     ID  +L   ++S 
Sbjct: 67  KKSGIKIIPKNTVIMSFKLSIGKVKIVNEDIYSNEAIMAFIPKEDIFIDENFLYHSLKSV 126

Query: 341 DLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
              +       GL  +L    + +  + +P +  Q +ITN ++     ID L+E  ++ +
Sbjct: 127 RWNEGINKAVKGL--TLNKNLISQKEIFLPDLTTQKEITNNLDT----IDNLLELRKKQL 180

Query: 401 VLLKERRSSF 410
             LKE   S 
Sbjct: 181 NYLKELGKSL 190


>gi|298384310|ref|ZP_06993870.1| type I restriction-modification system, S subunit [Bacteroides sp.
           1_1_14]
 gi|298262589|gb|EFI05453.1| type I restriction-modification system, S subunit [Bacteroides sp.
           1_1_14]
          Length = 329

 Score = 79.5 bits (194), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 42/315 (13%), Positives = 98/315 (31%), Gaps = 33/315 (10%)

Query: 111 FLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA-TMSHADWKGIGNIPMPIPPLAEQVL 169
            ++L+P ++  +       S           +G             ++ +P+PPL EQ  
Sbjct: 1   MVILRPINIYAKFYLYLFKSQWYIDEGTKYFKGVVGQQRVHKGIFTDLHIPLPPLVEQQR 60

Query: 170 IREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVP 229
           I  +I      ID +   ++     +K+ K  ++   +   L P     +  IE +  + 
Sbjct: 61  IVTEIEKWFALIDQIEQGKVNLQTTIKQIKSKILDLAIHGKLVPQDPNDEPSIELLQRIN 120

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL-------------- 275
             +          ++  +      +++ S        K    +                 
Sbjct: 121 PDFTPCDNGHYPFDVPNEWKWCKMNDLCSFLSRGKSPKYSEDDKTYPVFAQKCNLKEGGI 180

Query: 276 -----------KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV---MERGII--TSA 319
                          +++   +  G+++          R+    +        ++  +  
Sbjct: 181 SLEQAKFLDPSTINKWDSKYKLQTGDVLVNSTGTGTVGRTRLFDESCLGKYPFVVPDSHV 240

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVF--YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFD 377
            +      I+S Y+   M S  + +       GS  ++ L    ++ L   +PPIKEQ  
Sbjct: 241 SVVRTYEEINSEYVFAYMSSQLIQQYIEDNLAGSTNQKELYIGVLENLYFPLPPIKEQQR 300

Query: 378 ITNVINVETARIDVL 392
           I   I    + +D +
Sbjct: 301 IVQKIEKLFSILDNI 315



 Score = 59.4 bits (142), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 20/101 (19%), Positives = 41/101 (40%), Gaps = 2/101 (1%)

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFD 377
            + ++P  I + +  +L +S            G+  +Q +       L + +PP+ EQ  
Sbjct: 1   MVILRPINIYAKFYLYLFKSQWYIDEGTKYFKGVVGQQRVHKGIFTDLHIPLPPLVEQQR 60

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           I   I    A ID + +        +K+ +S  +  A+ G+
Sbjct: 61  IVTEIEKWFALIDQIEQGKVNLQTTIKQIKSKILDLAIHGK 101



 Score = 45.9 bits (107), Expect = 0.012,   Method: Composition-based stats.
 Identities = 29/181 (16%), Positives = 63/181 (34%), Gaps = 17/181 (9%)

Query: 20  AIPKHWKVVPIKRFTKL-NTGRTSESGKDIIYIGLE----DVESGTGKYLPKDGN--SRQ 72
            +P  WK   +       + G++ +  +D     +     +++ G            S  
Sbjct: 134 DVPNEWKWCKMNDLCSFLSRGKSPKYSEDDKTYPVFAQKCNLKEGGISLEQAKFLDPSTI 193

Query: 73  SDTSTVSIFAKGQILYGKLGP-------YLRKAIIADFDGIC--STQFLVLQPKDVLPEL 123
           +   +      G +L    G           ++ +  +  +   S   +V   +++  E 
Sbjct: 194 NKWDSKYKLQTGDVLVNSTGTGTVGRTRLFDESCLGKYPFVVPDSHVSVVRTYEEINSEY 253

Query: 124 LQGWLLSIDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
           +  ++ S  + Q IE    G+T         + N+  P+PP+ EQ  I +KI      +D
Sbjct: 254 VFAYMSSQLIQQYIEDNLAGSTNQKELYIGVLENLYFPLPPIKEQQRIVQKIEKLFSILD 313

Query: 183 T 183
            
Sbjct: 314 N 314


>gi|307704328|ref|ZP_07641245.1| type I restriction modification DNA specificity domain protein
           [Streptococcus mitis SK597]
 gi|307622088|gb|EFO01108.1| type I restriction modification DNA specificity domain protein
           [Streptococcus mitis SK597]
          Length = 390

 Score = 79.5 bits (194), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 57/405 (14%), Positives = 111/405 (27%), Gaps = 33/405 (8%)

Query: 20  AIPK--------HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSR 71
            IPK         W    I    K++ G   +  K         + +       K     
Sbjct: 5   DIPKIRFYSYQGSWTENRIADIVKISAGGDVDKVKLKESGKYPVIANA---LTNKGIVGF 61

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
             D           +     G         +          +   K  +           
Sbjct: 62  YED----YKVKAPAVTVTGRGDVGYAVARHENFTPIVRLLTLQSEKIDVD-------YLE 110

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
           +    +  + E   +       +GN  +  P + EQ  I          + +        
Sbjct: 111 NQINSMRILNESTGVPQLTAPQLGNYKVYYPEIEEQSAIGSLFRTLDDLLASY----KDN 166

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           +   +  K  ++S +  K      +++ +G +    V    E+  F              
Sbjct: 167 LANYQSLKATMLSKMFPKDGQTVPEIRLNGFDGEWEVQSLKELARFSKGNGYTKSDLVNS 226

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
               IL        Q + +       E+ E   I   GE+V        +  S  S    
Sbjct: 227 GNEIILYGQLYTNYQTVISMVNTFVLETREKSVISKGGEVVVPASGESAEDISRASVIEK 286

Query: 312 ERGIITSAYMAVKP--HGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVL 368
              II      + P  + +DS +LA  + +    K       G     L+  D++++ + 
Sbjct: 287 SGVIIGGDLNIIYPDENKVDSIFLALTISNGSQQKELIKRAQGKSVVHLRNNDLEKVVLH 346

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            P I+EQ  I        + +D L    ++ I  L+  +   +  
Sbjct: 347 YPSIEEQQAIGAY----FSNLDNLFNFHQEKISQLETLKKKLLQD 387


>gi|260910285|ref|ZP_05916960.1| type I restriction-modification system [Prevotella sp. oral taxon
           472 str. F0295]
 gi|260635587|gb|EEX53602.1| type I restriction-modification system [Prevotella sp. oral taxon
           472 str. F0295]
          Length = 446

 Score = 79.5 bits (194), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 69/423 (16%), Positives = 125/423 (29%), Gaps = 53/423 (12%)

Query: 20  AIPKHWKVVPIKRFTK-LNTGRTSE-SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
            IP+ W  V +      L+ G+T +   + I+ I  +        Y+ +   S       
Sbjct: 24  EIPESWCFVRLGDICNYLHRGKTPKYGNQKILPIIAQKCNHWNQLYIDRCLFSDTDYILK 83

Query: 78  VS---IFAKGQILYGKLGPYLRKAIIADFDGIC---------STQFLVLQPKDVLPELLQ 125
                   KG I+    G           D +          S   +V   K V    + 
Sbjct: 84  YKEEQFLQKGDIIINSTGGGTVGRTGYIDDSVFDKFDKFVADSHVTVVRSTKLVSHRYIY 143

Query: 126 GWLLSIDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
            +LLS  +   IE  C G+T         I +  +PIPP+ EQ  I +K+ +    +   
Sbjct: 144 LYLLSPYIQIGIEERCTGSTNQIELRTTTISDYLVPIPPVEEQKRIVKKVESMLPIVTRY 203

Query: 185 ITERIRFIELLKEKK----QALVSYIVTKGLNPDVKMKDSG------------------- 221
              +     L         ++++   +   L P     +                     
Sbjct: 204 QKLQSNLEHLNSTLFPLIKKSILQEAIQGKLVPQDPNDEPASVLLQRIKEEKQRLVKEGK 263

Query: 222 ---------IEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
                    + + G    ++E     A+  E +       E   LS     +  + +  N
Sbjct: 264 LKKKDVVDSVIYKGDDNKYYEQVDGIAVPIESDYDFPSTWEVVRLSHICRLMDGEKKEGN 323

Query: 273 MGLKPESY----ETYQIVDPGEIV--FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
                  Y     T   +D G+ V     I L + + S     V   G + S +  +   
Sbjct: 324 HVCLDAKYLRGKSTGTYLDKGKFVAKGNNIILVDGENSGEVFTVPHDGYMGSTFKQLWVS 383

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
                     +  +    +  +        L  +    L + +PP +EQ  I N I    
Sbjct: 384 SRMYLPYVLYIIQFYKNLLRNSKKGAAIPHLNKDIFYSLLIGIPPYQEQERIANAIGELY 443

Query: 387 ARI 389
           A +
Sbjct: 444 APL 446



 Score = 70.6 bits (171), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 29/219 (13%), Positives = 67/219 (30%), Gaps = 20/219 (9%)

Query: 219 DSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL-------SLSYGNIIQKLETR 271
               E    +P+ W       +   L+R  T    +  +          +  +       
Sbjct: 16  CIDEEIPFEIPESWCFVRLGDICNYLHRGKTPKYGNQKILPIIAQKCNHWNQLYIDRCLF 75

Query: 272 NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR----SAQVMERGIITSAY-MAVKPH 326
           +       Y+  Q +  G+I+          R+           ++ +  S   +     
Sbjct: 76  SDTDYILKYKEEQFLQKGDIIINSTGGGTVGRTGYIDDSVFDKFDKFVADSHVTVVRSTK 135

Query: 327 GIDSTYLAWLMRSYDLCKVFYA--MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
            +   Y+   + S  +         GS  +  L+   +    V +PP++EQ  I   +  
Sbjct: 136 LVSHRYIYLYLLSPYIQIGIEERCTGSTNQIELRTTTISDYLVPIPPVEEQKRIVKKVES 195

Query: 385 ETARIDVLVEKIEQSIVLLKE-----RRSSFIAAAVTGQ 418
               I    +K++ ++  L        + S +  A+ G+
Sbjct: 196 ML-PIVTRYQKLQSNLEHLNSTLFPLIKKSILQEAIQGK 233


>gi|227365079|ref|ZP_03849108.1| restriction modification system DNA specificity subunit
           [Lactobacillus reuteri MM2-3]
 gi|227069883|gb|EEI08277.1| restriction modification system DNA specificity subunit
           [Lactobacillus reuteri MM2-3]
          Length = 338

 Score = 79.5 bits (194), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 49/365 (13%), Positives = 116/365 (31%), Gaps = 36/365 (9%)

Query: 27  VVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQI 86
           +V +K       G ++   KD+         + +G+Y P  G +          + +  +
Sbjct: 2   IVKLKDVC--IKGTSNIRQKDV---------NDSGRY-PVYGAAGPVGFMNSFQYDEPYV 49

Query: 87  LYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATM 146
              K G  + +A     +         L PK  +      + +S      +E    GAT+
Sbjct: 50  GVVKDGAGIGRATYLPSNSSIIGTMQALIPKKNVLPKYLYYAVSS---MHLEKYYSGATI 106

Query: 147 SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYI 206
            H  +K   +    +    EQ      II     ++ +I+ + + +  L E  +A     
Sbjct: 107 PHIYFKNYKHERFVLVSKKEQEQ----IIWRFSLLEKMISNKQQQLLKLDELIKA---RF 159

Query: 207 VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ 266
           V    +P    K      +  + D                      +  I  +   N+  
Sbjct: 160 VEMFGDPISNKKSWKKRLLNDLVDKIGS------GATPKGGKESYQDHGISFIRSMNVHD 213

Query: 267 KLETRN----MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS-AYM 321
                     +        +  IV   ++          +  +    ++   +    + +
Sbjct: 214 GYFNYKDLAYINSTQAKQLSNVIVQSQDVFINITGASVARSCIVPDDILPARVNQHVSII 273

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYA---MGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
             K   ++  ++  L  +    ++  +    G   RQ++  + ++ L +++PPI  Q + 
Sbjct: 274 RCKSDVLNPIFINNLFLNDSFKRILLSIGLSGGATRQAITKKQLEMLKIILPPISLQNEY 333

Query: 379 TNVIN 383
            N ++
Sbjct: 334 ANFVH 338



 Score = 48.6 bits (114), Expect = 0.002,   Method: Composition-based stats.
 Identities = 17/153 (11%), Positives = 43/153 (28%), Gaps = 26/153 (16%)

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD 341
            +      +  +  +          +       II +    +    +   YL + + S  
Sbjct: 37  GFMNSFQYDEPYVGVVKDGAGIGRATYLPSNSSIIGTMQALIPKKNVLPKYLYYAVSSMH 96

Query: 342 LCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
           L K +          + F++ K    ++   KEQ  I        + ++ ++   +Q ++
Sbjct: 97  LEKYY---SGATIPHIYFKNYKHERFVLVSKKEQEQII----WRFSLLEKMISNKQQQLL 149

Query: 402 LLKER-------------------RSSFIAAAV 415
            L E                    +   +   V
Sbjct: 150 KLDELIKARFVEMFGDPISNKKSWKKRLLNDLV 182


>gi|242280198|ref|YP_002992327.1| restriction modification system DNA specificity domain protein
           [Desulfovibrio salexigens DSM 2638]
 gi|242123092|gb|ACS80788.1| restriction modification system DNA specificity domain protein
           [Desulfovibrio salexigens DSM 2638]
          Length = 415

 Score = 79.5 bits (194), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 42/392 (10%), Positives = 100/392 (25%), Gaps = 30/392 (7%)

Query: 51  IGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADF-DGICST 109
           I L   +   G       +      +   +   G I  G+ G  +     +D      +T
Sbjct: 22  IDLPQSQRRVGDIPILGSSGVTGYHNESKVAGPG-ITVGRSGASIGVVTYSDIDFWPLNT 80

Query: 110 QFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVL 169
              V   +   P     +L   D          G+     +   +    + IPPL  Q  
Sbjct: 81  ALYVKDFRGNHPRFAYYFLKQFDFK----RYNSGSAQPSLNRNFVHPTKIRIPPLKTQQA 136

Query: 170 IREKIIAETVRIDTLITERIRFIELLKEKKQALV------------SYIVTKGLNPDVKM 217
           I   +     +ID           + +   ++                 V          
Sbjct: 137 IAHILGTIDEKIDLNRRMNETLEAMAQAIFKSWFVDFDPVKAKARGEQPVGMDAETAALF 196

Query: 218 KDSGI-EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETR----- 271
            DS     +G +P  W V      V                           +       
Sbjct: 197 PDSFEPSGLGEIPRGWRVSEVGKEVIVKGGATPSTKNPLFWDGGSFCWATPKDLSALESP 256

Query: 272 --NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID 329
                 +  + E    +    +    + + +       A       +   ++A++     
Sbjct: 257 VLLDTARKITEEGVNRISSKLLPKGTLLMSSRAPVGYLAIAEIDTAVNQGFIAMECSKSL 316

Query: 330 STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
           +          ++  +         Q +  ++ K + ++VP  +E   + N      + +
Sbjct: 317 NCMYMLFWCKENMETIKSNANGSTFQEISKKNFKPISIIVP--EE--LVLNKFESAISPL 372

Query: 390 DVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
              +    +    L   R + +   ++G++ +
Sbjct: 373 YRKIVSNLKERQTLTSLRDTLLPNLISGELSV 404



 Score = 64.4 bits (155), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 35/207 (16%), Positives = 69/207 (33%), Gaps = 15/207 (7%)

Query: 8   PQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIG----------LEDVE 57
             ++ SG   +G IP+ W+V  + +   +  G T  +   + + G          L  +E
Sbjct: 198 DSFEPSG---LGEIPRGWRVSEVGKEVIVKGGATPSTKNPLFWDGGSFCWATPKDLSALE 254

Query: 58  SGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPK 117
           S       +       +  +  +  KG +L     P      IA+ D   +  F+ ++  
Sbjct: 255 SPVLLDTARKITEEGVNRISSKLLPKGTLLMSSRAPV-GYLAIAEIDTAVNQGFIAMECS 313

Query: 118 DVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
             L   +       +  + I++   G+T      K    I + +P           I   
Sbjct: 314 KSLN-CMYMLFWCKENMETIKSNANGSTFQEISKKNFKPISIIVPEELVLNKFESAISPL 372

Query: 178 TVRIDTLITERIRFIELLKEKKQALVS 204
             +I + + ER     L       L+S
Sbjct: 373 YRKIVSNLKERQTLTSLRDTLLPNLIS 399


>gi|159897810|ref|YP_001544057.1| restriction modification system DNA specificity subunit
           [Herpetosiphon aurantiacus ATCC 23779]
 gi|159890849|gb|ABX03929.1| restriction modification system DNA specificity domain
           [Herpetosiphon aurantiacus ATCC 23779]
          Length = 398

 Score = 79.5 bits (194), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 55/198 (27%), Positives = 85/198 (42%), Gaps = 4/198 (2%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGK---DIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            IP  W  V +      + G   +      D   + LED+E  T   L +     +   S
Sbjct: 74  QIPPSWIWVSLDDIVVYDAGSKHDPNNLDPDSWLLELEDIEKNTSVILGQFLVKERKPKS 133

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL-PELLQGWLLSIDVTQ 135
             + F K  ILYGKL PYL K I+A   G C+T+ +VL+PK  L P  +Q +L S     
Sbjct: 134 NKASFQKNDILYGKLRPYLNKVIVAHTSGFCTTEIVVLRPKLELSPFYIQNFLKSPFFVS 193

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            +     G  M            +P+PPLAEQ  I  K+       D L  ++     L 
Sbjct: 194 YVNQHSYGTKMPRLGTLDGKKASIPLPPLAEQQRIVAKVAQLMALCDQLEQQQTSREALR 253

Query: 196 KEKKQALVSYIVTKGLNP 213
           ++ +Q+ +  ++++   P
Sbjct: 254 QQVQQSAIKQLLSELARP 271



 Score = 71.0 bits (172), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 29/229 (12%), Positives = 73/229 (31%), Gaps = 9/229 (3%)

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNT 249
             +     K+Q +++  V   +N +         W+ +  D       +   ++ +  N 
Sbjct: 45  YNMFKPLIKEQQMLNIDVRSSINKEHTKFQIPPSWIWVSLDDIV---VYDAGSKHDPNNL 101

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
                 +           +  + +  + +           +I++  +    +K  +    
Sbjct: 102 DPDSWLLELEDIEKNTSVILGQFLVKERKPKSNKASFQKNDILYGKLRPYLNKVIVAHTS 161

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAW-LMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPV 367
               G  T+  + ++P    S +     ++S            G     L   D K+  +
Sbjct: 162 ----GFCTTEIVVLRPKLELSPFYIQNFLKSPFFVSYVNQHSYGTKMPRLGTLDGKKASI 217

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
            +PP+ EQ  I   +    A  D L ++      L ++ + S I   ++
Sbjct: 218 PLPPLAEQQRIVAKVAQLMALCDQLEQQQTSREALRQQVQQSAIKQLLS 266


>gi|294670044|ref|ZP_06735001.1| type I restriction system specificity protein [Neisseria elongata
           subsp. glycolytica ATCC 29315]
 gi|291308165|gb|EFE49408.1| type I restriction system specificity protein [Neisseria elongata
           subsp. glycolytica ATCC 29315]
          Length = 394

 Score = 79.5 bits (194), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 52/386 (13%), Positives = 116/386 (30%), Gaps = 39/386 (10%)

Query: 26  KVVPIKR---FTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           +  P+        + TG+     K         + +  G Y   +               
Sbjct: 20  EWKPLGGENGIAIIKTGQAVSKQK---------ISNNIGSYPVINSGKEPLGYIDEWNTE 70

Query: 83  KGQILYGKLGPYLRKAIIADFDGI-CSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
              I     G  +      +      +  + V        ++   + + ++  Q I A+C
Sbjct: 71  NDPIGITTRGAGVGSITWQEGRYFRGNLNYAVTIKDRTELDVRFLYHILLEFEQEIHALC 130

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
               +   +   +  + +PIPPL  Q  I + +   T    TL       ++L K++   
Sbjct: 131 TFTGIPALNASNLKKLLIPIPPLEIQQKIVKILDKFTELEATLEATLEAELQLRKQQYNY 190

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
              +++      DV  K                     +    N K  +   S       
Sbjct: 191 YRDFLLNFAGREDVLFK-----------------KLSEVTNFQNGKGHEKDISESGKFIV 233

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT---- 317
            N   K  + N  +   S +    +   +I+    DL N K   ++  V +    T    
Sbjct: 234 VN--SKFISTNGQVLKYSDKQLVPLFEDDILIVMSDLPNGKVLSKTYLVKQNNKFTLNQR 291

Query: 318 -SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
                      +   ++++ +        +       + +L+ E +  + + +PP+ EQ 
Sbjct: 292 IGRITVKNKSELLPKFVSYFLDRTRQLTKYDNKVD--QTNLRKEQILEVFIPIPPLSEQA 349

Query: 377 DITNVINVETARIDVLVEKIEQSIVL 402
            I  +++        L + + + I L
Sbjct: 350 RIVAILDKFDTLTTSLSDGLPREIAL 375



 Score = 70.2 bits (170), Expect = 6e-10,   Method: Composition-based stats.
 Identities = 29/189 (15%), Positives = 64/189 (33%), Gaps = 10/189 (5%)

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID 297
           +  +   N          +      N I      N G +P  Y      +   I      
Sbjct: 21  WKPLGGENGIAIIKTGQAVSKQKISNNIGSYPVINSGKEPLGYIDEWNTENDPIGITTRG 80

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQS 356
                 + +  +   RG +  A        +D  +L  ++   +  +  +A+ +     +
Sbjct: 81  AGVGSITWQEGRYF-RGNLNYAVTIKDRTELDVRFLYHIL--LEFEQEIHALCTFTGIPA 137

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           L   ++K+L + +PP++ Q  I  +++  T     L   +E  + L K+     R   + 
Sbjct: 138 LNASNLKKLLIPIPPLEIQQKIVKILDKFTELEATLEATLEAELQLRKQQYNYYRDFLLN 197

Query: 413 AAVTGQIDL 421
               G+ D+
Sbjct: 198 --FAGREDV 204


>gi|257413933|ref|ZP_04744714.2| phosphoribosylformylglycinamidine synthase [Roseburia intestinalis
           L1-82]
 gi|257201766|gb|EEV00051.1| phosphoribosylformylglycinamidine synthase [Roseburia intestinalis
           L1-82]
          Length = 463

 Score = 79.1 bits (193), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 54/419 (12%), Positives = 123/419 (29%), Gaps = 59/419 (14%)

Query: 20  AIPKHWKVVPIKRFT-KLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
            +P+ W    +   T  +  G       +   +           Y     N      +  
Sbjct: 52  EVPEGWCWCRLPVITTDIFAGGDKPDVYET-CLTESC---KIPIYSNGMENEGLYGYTNK 107

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
               +  I     G      +             +   K++             V + + 
Sbjct: 108 PRVTEPSITISARGTIGFCCVRETPFVPIVRLITITPSKEIN------LYYLKTVFESLI 161

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
              EG+++      GI    +PIPP+ EQ+ ++ K+      I  +  E+     LL+  
Sbjct: 162 ETGEGSSIPQLTVPGIKPKLIPIPPVNEQIRLQNKLNQILNYIVNISFEKDELQNLLQIV 221

Query: 199 KQALVSYIVTKGLNPDVK----------------------------------MKDSGIEW 224
           K  +++  +   L P                                      K     +
Sbjct: 222 KSKILNLAIRGKLVPQNPNDEPASVLLNRIHDEKEELIKQGNIKRDKKESVIFKGDDNSY 281

Query: 225 VGLVPDHWEVKPFFALVTELNRKNTKL----IESNILSLSYGNIIQKLETRNMGLKPESY 280
            G+             ++      +       E  +  LS  N+       N   +  + 
Sbjct: 282 YGISLPTGWSWTILKDISFSISDGSHNPPSNKEFGVPLLSAANVNNNSILINNASRWITN 341

Query: 281 ETYQI------VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
           E ++I      ++ G+++   +        +   +  E   +  +   +KP  I   YL 
Sbjct: 342 EEWEIENQRTDIEIGDVLLTIVGSIGRSAVV---ETNEHFALQRSVAVIKPCLISPFYLM 398

Query: 335 WLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            + ++  + K       G  ++ +    +  + V +PP+ EQ  I   I++   ++D++
Sbjct: 399 RIFQAPQIQKWINDNSKGTAQKGIYLNALSIMTVPIPPLDEQLRIVKQISIFFEQLDLI 457



 Score = 55.2 bits (131), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 30/231 (12%), Positives = 67/231 (29%), Gaps = 12/231 (5%)

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVK--MKDSGIEWVGLVPDHWEVKPFFALVTELNRK 247
                   + Q L+++I            +K    E    VP+ W       + T++   
Sbjct: 13  CMDSTFYFQWQYLITHINNLHYEKFQDGTVKCIEDEIPFEVPEGWCWCRLPVITTDIFAG 72

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
             K                K+   + G++ E    Y            I  +        
Sbjct: 73  GDKPDVYETCLTESC----KIPIYSNGMENEGLYGYTNKPRVTEPSITISARGTIGFCCV 128

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
            +     I+    +             + +++     +           L    +K   +
Sbjct: 129 RETPFVPIVRLITITPSKEINL-----YYLKT-VFESLIETGEGSSIPQLTVPGIKPKLI 182

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            +PP+ EQ  + N +N     I  +  + ++   LL+  +S  +  A+ G+
Sbjct: 183 PIPPVNEQIRLQNKLNQILNYIVNISFEKDELQNLLQIVKSKILNLAIRGK 233


>gi|323497666|ref|ZP_08102682.1| HsdA [Vibrio sinaloensis DSM 21326]
 gi|323317249|gb|EGA70244.1| HsdA [Vibrio sinaloensis DSM 21326]
          Length = 443

 Score = 79.1 bits (193), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 50/445 (11%), Positives = 120/445 (26%), Gaps = 62/445 (13%)

Query: 28  VPIKRFTKLNTG-------RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           V I     L+ G       +       +  + + D+ +GT     +     +    T  I
Sbjct: 5   VSIGDVVSLSQGFAVNSKSKHLMGDSGLPLLRITDLINGT-----EAQYLTKETAPTKCI 59

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL--LSIDVTQRIE 138
             K +I++ + G      +    +G+       + P + L      +       + +   
Sbjct: 60  AQKHEIIFTRTGQVG--LVFRGREGVVHNNCFKVIPNEDLVTHDYIYWTLKQPHIIKLAN 117

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
           ++  G+     +     +I + + P   Q    + +     ++           ++ +  
Sbjct: 118 SVASGSVQKDLNHSAFKSIDIDLIPKTVQEQNCQILNRIEEKLILNTQINQTLEQMAQVL 177

Query: 199 KQA-------LVSYIVTKG--------------------------LNPDVKMKDSGIEWV 225
            ++       ++   +  G                           +   ++  S  E  
Sbjct: 178 FKSWFVDFDPVIDNALDAGSDIPEVFESRVERRKAVRESADFKPLPDDVRRLFPSEFEES 237

Query: 226 --GLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY 283
             G VP  WE       +T            +       N     +  +   K     + 
Sbjct: 238 ESGWVPKGWETSTAGQELTVKGGSTPSTKNPDFWDGGNINWTSPKDLSDNDTKIMFETSR 297

Query: 284 QIVDPGEIVFR-------FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWL 336
           +I D G             + + +       A       I   Y+A+      S      
Sbjct: 298 KITDAGLAKITSGLLPRETVLMSSRAPVGYLALTKIPVAINQGYIAIPESRRLSQEYILY 357

Query: 337 MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
                +  +    G      +  +  K + +LVPP      I    +         +   
Sbjct: 358 WLDSQMDMIKGLSGGTTFAEISKKTFKSISILVPPCP----IVEAFSKNVEVYLNKISSN 413

Query: 397 EQSIVLLKERRSSFIAAAVTGQIDL 421
                LL   +SS +   ++G++++
Sbjct: 414 VGESSLLATVQSSLLPKLISGELEI 438



 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 23/196 (11%), Positives = 55/196 (28%), Gaps = 12/196 (6%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYLPKDGNSR 71
           G +PK W+     +   +  G T  +         +I +   +D+     K + +     
Sbjct: 240 GWVPKGWETSTAGQELTVKGGSTPSTKNPDFWDGGNINWTSPKDLSDNDTKIMFETSRKI 299

Query: 72  QSDTSTVS---IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL 128
                      +  +  +L     P      +       +  ++ +     L        
Sbjct: 300 TDAGLAKITSGLLPRETVLMSSRAPV-GYLALTKIPVAINQGYIAIPESRRL-SQEYILY 357

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
                   I+ +  G T +    K   +I + +PP        + +     +I + + E 
Sbjct: 358 WLDSQMDMIKGLSGGTTFAEISKKTFKSISILVPPCPIVEAFSKNVEVYLNKISSNVGES 417

Query: 189 IRFIELLKEKKQALVS 204
                +       L+S
Sbjct: 418 SLLATVQSSLLPKLIS 433


>gi|228475404|ref|ZP_04060123.1| Sau1hsdS1 [Staphylococcus hominis SK119]
 gi|228270587|gb|EEK12019.1| Sau1hsdS1 [Staphylococcus hominis SK119]
          Length = 394

 Score = 79.1 bits (193), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 62/406 (15%), Positives = 119/406 (29%), Gaps = 47/406 (11%)

Query: 23  KHWKVVPIKRFTKL-NTGRT---SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           + W    I    K+  +G +   S +   +  I   ++++            ++      
Sbjct: 18  EDWNERTISDSIKILKSGLSRELSTTDIGLPVIRANNLQNYNLVLDDIKYWFKEDPKGAK 77

Query: 79  ---SIFAKGQILYG------KLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
                  K  IL        K+G           D I +T  L    K+           
Sbjct: 78  TENYYLEKNDILVNFINSEAKMGTSCIIKSDFKRDTIYTTNILRYVTKETYDSYFHYIYT 137

Query: 130 SIDVTQRIEAICEGA--TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
                ++   I        +         IP  IP   EQ  I +       ++D  I  
Sbjct: 138 QTYNYKKWIKIITKPAVNQASFTTVDFKKIPYYIPEFNEQKKIGDF----FSKLDRQIEL 193

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK 247
             + ++LL+++K+  +  I ++ L           +  G     WE+K    +       
Sbjct: 194 EEKKLDLLEQQKKGYMQKIFSQEL--------RFKDENGNDYPEWEIKKLMQIAKVKTGS 245

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
                        + +           L    ++   I+ PGE            + L  
Sbjct: 246 KNVQDNIQDGKYKFFDR----SVEVKYLNTFDFDETAIIYPGE----------GSKFLPR 291

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
               +  +   AY     +  ++    +   S               +SL+     +L V
Sbjct: 292 YFSGKYSLHQRAYSIYDININNNYLYYY--LSLQNNHFLKYAVGSTVKSLRMSGFDKLKV 349

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           +VP   EQ  I +        +D  +EK    + LLK+R+ SF+  
Sbjct: 350 MVPKNSEQEKIGSF----FKNLDEFIEKQANKVELLKKRKQSFLQK 391



 Score = 67.5 bits (163), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 24/150 (16%), Positives = 59/150 (39%), Gaps = 9/150 (6%)

Query: 280 YETYQIVDPGEIVFRFIDL---QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWL 336
                 ++  +I+  FI+          ++S    +    T+    V     DS +    
Sbjct: 77  KTENYYLEKNDILVNFINSEAKMGTSCIIKSDFKRDTIYTTNILRYVTKETYDSYFHYIY 136

Query: 337 MRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
            ++Y+  K    +      + S    D K++P  +P   EQ  I +      +++D  +E
Sbjct: 137 TQTYNYKKWIKIITKPAVNQASFTTVDFKKIPYYIPEFNEQKKIGDF----FSKLDRQIE 192

Query: 395 KIEQSIVLLKERRSSFIAAAVTGQIDLRGE 424
             E+ + LL++++  ++    + ++  + E
Sbjct: 193 LEEKKLDLLEQQKKGYMQKIFSQELRFKDE 222


>gi|228472518|ref|ZP_04057278.1| type I restriction modification DNA specificity domain protein
           [Capnocytophaga gingivalis ATCC 33624]
 gi|228275931|gb|EEK14687.1| type I restriction modification DNA specificity domain protein
           [Capnocytophaga gingivalis ATCC 33624]
          Length = 233

 Score = 79.1 bits (193), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 27/173 (15%), Positives = 60/173 (34%), Gaps = 3/173 (1%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLET--RNMGLKPESYETYQ 284
            +P+ W       ++  +  +     + N + ++  +  Q   T  + + +        +
Sbjct: 60  KLPEGWVWCQGNQILNTMKSQKPSGEKFNYIDIASIDNRQNKITEVKTIAVTEAPSRASR 119

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCK 344
            V  G+ +F  +       +    +       T  Y+      +   YL +LM S  + +
Sbjct: 120 KVKFGDTLFSMVRPYLKNIAFVDEEYSNCIASTGFYVCSPNETLFPKYLFYLMVSDYVVQ 179

Query: 345 VFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
                  G    S+  ED+      +PP+ EQ  I   I    A  D + +++
Sbjct: 180 GLNKHMKGDNSPSINNEDITNFIFPLPPLAEQHRIVEKIESFFASFDQIEKEL 232



 Score = 67.1 bits (162), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 40/169 (23%), Positives = 65/169 (38%), Gaps = 6/169 (3%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLP-KDGNSRQSDTSTV 78
            +P+ W      +       +     K   YI +  +++   K    K     ++ +   
Sbjct: 60  KLPEGWVWCQGNQILNTMKSQKPSGEK-FNYIDIASIDNRQNKITEVKTIAVTEAPSRAS 118

Query: 79  SIFAKGQILYGKLGPYLRKAIIADF---DGICSTQFLVLQPKDVL-PELLQGWLLSIDVT 134
                G  L+  + PYL+     D    + I ST F V  P + L P+ L   ++S  V 
Sbjct: 119 RKVKFGDTLFSMVRPYLKNIAFVDEEYSNCIASTGFYVCSPNETLFPKYLFYLMVSDYVV 178

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           Q +    +G      + + I N   P+PPLAEQ  I EKI +     D 
Sbjct: 179 QGLNKHMKGDNSPSINNEDITNFIFPLPPLAEQHRIVEKIESFFASFDQ 227


>gi|254037299|ref|ZP_04871376.1| conserved hypothetical protein [Escherichia sp. 1_1_43]
 gi|226840405|gb|EEH72407.1| conserved hypothetical protein [Escherichia sp. 1_1_43]
          Length = 273

 Score = 79.1 bits (193), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 27/156 (17%), Positives = 52/156 (33%), Gaps = 10/156 (6%)

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS--LRSAQVMERGIITS 318
           + N     E  ++    +       V  G++          +      + Q  E      
Sbjct: 40  FYNYFTPDELGDLVQSNDKERENCSVKRGDVFLTRTSETMHELGMSCVALQDYENATFNG 99

Query: 319 AYMAVKPHGID---STYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPPIKE 374
               ++PH        Y+ + +RS    +   A  +   R SL  E + RL +  PP +E
Sbjct: 100 FCKRLRPHQNSELVPEYVGYYLRSTKFRQSMLAFSTMSTRASLNNEMIGRLEISYPPEEE 159

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
           Q +I  V+      +D  +    Q    L++   + 
Sbjct: 160 QIEIARVL----KNLDDKITLNRQINQTLEQMAQAL 191



 Score = 53.6 bits (127), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 25/197 (12%), Positives = 64/197 (32%), Gaps = 13/197 (6%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGK---DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +WK   +     + +G +  +        ++  +DV              + +D    +
Sbjct: 3   SNWKTTKLLDHYDIRSGLSKPAKDFGSGHPFLTFKDVFYNYFTPDELGDLVQSNDKEREN 62

Query: 80  I-FAKGQILYGKLGPYLR-----KAIIADFDGICSTQFLV----LQPKDVLPELLQGWLL 129
               +G +   +    +         + D++      F       Q  +++PE +  +L 
Sbjct: 63  CSVKRGDVFLTRTSETMHELGMSCVALQDYENATFNGFCKRLRPHQNSELVPEYVGYYLR 122

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
           S    Q + A    +T +  + + IG + +  PP  EQ+ I   +     +I        
Sbjct: 123 STKFRQSMLAFSTMSTRASLNNEMIGRLEISYPPEEEQIEIARVLKNLDDKITLNRQINQ 182

Query: 190 RFIELLKEKKQALVSYI 206
              ++ +   ++     
Sbjct: 183 TLEQMAQALFKSWFVDF 199


>gi|260913245|ref|ZP_05919727.1| conserved hypothetical protein [Pasteurella dagmatis ATCC 43325]
 gi|260632832|gb|EEX51001.1| conserved hypothetical protein [Pasteurella dagmatis ATCC 43325]
          Length = 238

 Score = 79.1 bits (193), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 37/190 (19%), Positives = 75/190 (39%), Gaps = 13/190 (6%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG 289
             W+ K    L +E ++KNT        +   G I  +L  +++    ++   Y++V P 
Sbjct: 23  SGWDKKILGELFSERSKKNTPEKTVLAATQDRGVIPYELMEKSVIRDRKNLSGYKLVLPK 82

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA-WLMRSYDLCKVF-Y 347
           + V      +              GII+ AY+ + P      Y      +     +    
Sbjct: 83  DFVISLRSFEG-----GFEYSEYEGIISPAYVVLYPKIKICNYFFRIYFKQERFIQQIQN 137

Query: 348 AMGSGLR--QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
           ++ + LR  +S+ ++    L + +P I EQ  I + +    + +D L+E  EQ +  LK+
Sbjct: 138 SLNNSLRDGKSISYKQASTLSIALPEITEQQKIADCL----SSLDELIELQEQKLAALKQ 193

Query: 406 RRSSFIAAAV 415
            +   +    
Sbjct: 194 HKKGLMQQLF 203



 Score = 55.6 bits (132), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 26/203 (12%), Positives = 66/203 (32%), Gaps = 14/203 (6%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKY--LPKDGNSRQSDTSTVSI 80
             W    +       + + +        +     + G   Y  + K     + + S   +
Sbjct: 23  SGWDKKILGELFSERSKKNTPEKT----VLAATQDRGVIPYELMEKSVIRDRKNLSGYKL 78

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQG-WLLSIDVTQRIEA 139
                 +   L  +      ++++GI S  ++VL PK  +       +       Q+I+ 
Sbjct: 79  VLPKDFVIS-LRSFEGGFEYSEYEGIISPAYVVLYPKIKICNYFFRIYFKQERFIQQIQN 137

Query: 140 ICEGATMS--HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
               +        +K    + + +P + EQ  I + + +        I  + + +  LK+
Sbjct: 138 SLNNSLRDGKSISYKQASTLSIALPEITEQQKIADCLSSLDEL----IELQEQKLAALKQ 193

Query: 198 KKQALVSYIVTKGLNPDVKMKDS 220
            K+ L+  +     +     + S
Sbjct: 194 HKKGLMQQLFPSHNDLQASKQAS 216


>gi|87309190|ref|ZP_01091327.1| probable type I restriction modification system methylase
           [Blastopirellula marina DSM 3645]
 gi|87288181|gb|EAQ80078.1| probable type I restriction modification system methylase
           [Blastopirellula marina DSM 3645]
          Length = 460

 Score = 79.1 bits (193), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 51/457 (11%), Positives = 135/457 (29%), Gaps = 58/457 (12%)

Query: 23  KHWKVVPIKRFTKLNTGRTSES---GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
             WK   +     +++G +  +   G    ++  +DV              + +      
Sbjct: 3   SEWKTAFLTDLYDISSGLSKSAKFFGSGHPFVAFKDVMYNYFLPNELSQLVQSTKEEQQK 62

Query: 80  I-FAKGQILYGKLGPYLR------KAIIADFDGICSTQFLVLQPKDV---LPELLQGWLL 129
               +G +   +    +        A+    D   +     L+PK     +PE +  +L 
Sbjct: 63  CSVNRGDVFLTRTSETMNELGMSSVAVKDYEDATFNGFTKRLRPKPDTTIVPEFVAYYLR 122

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
           S      + A    +T +  + + I  + +  P + EQ +I   +     +I+       
Sbjct: 123 SPKFRSEMRAFSTMSTRASLNNEMISRLKISFPSVLEQRVIGGVLKTLDDKIELNRQMNE 182

Query: 190 RFIELLKEKKQA-------LVSYIVTKG---------------------------LNPDV 215
               + +   Q+       ++   +  G                           +    
Sbjct: 183 TLESMARALFQSWFVDFDPVIDKALAAGNPIPEPLQARAETRRALANSTQPLPAHIQKLF 242

Query: 216 KMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL 275
                  E +G +P+ W+V P    +T   R +  L +  +        +         +
Sbjct: 243 PDAFQFDEEMGWIPEGWKVTPVGEAITINPRVS--LKKGAVAKYVDMKSLPTSGFAINEV 300

Query: 276 KPESYETYQIVDPGEIVFRFIDL---QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
             + +         +++   I           +      E G  ++ ++ ++P     T 
Sbjct: 301 IEKEFSGGAKFLNADVLMARITPCLENGKAGVVDYLDDDEPGFGSTEFIVLRPKNEIGTP 360

Query: 333 LAWLMRSYDLCK---VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
               +   +  +   V   +GS  RQ ++        + +P       +    +   +  
Sbjct: 361 FIAALVRDENFRAHCVSNMVGSSGRQRVQNSCFDSYFLCLPSKP---PLLTSYHKTCSTF 417

Query: 390 DVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
              + K++     L + R + +   ++G+I +    +
Sbjct: 418 FARITKLKLETNSLTKLRDTLLPKLLSGEIRIPDAEK 454



 Score = 47.9 bits (112), Expect = 0.003,   Method: Composition-based stats.
 Identities = 25/133 (18%), Positives = 51/133 (38%), Gaps = 12/133 (9%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           G IP+ WKV P+     +N   + + G    Y+ ++ + +             + + S  
Sbjct: 253 GWIPEGWKVTPVGEAITINPRVSLKKGAVAKYVDMKSLPTSGFAINE----VIEKEFSGG 308

Query: 79  SIFAKGQILYGKLGPYLRK-------AIIADFDGICSTQFLVLQPKDVL-PELLQGWLLS 130
           + F    +L  ++ P L          +  D  G  ST+F+VL+PK+ +    +   +  
Sbjct: 309 AKFLNADVLMARITPCLENGKAGVVDYLDDDEPGFGSTEFIVLRPKNEIGTPFIAALVRD 368

Query: 131 IDVTQRIEAICEG 143
            +      +   G
Sbjct: 369 ENFRAHCVSNMVG 381


>gi|291460947|ref|ZP_06026048.2| putative type I restriction modification DNA specificity domain
           protein [Fusobacterium periodonticum ATCC 33693]
 gi|291379863|gb|EFE87381.1| putative type I restriction modification DNA specificity domain
           protein [Fusobacterium periodonticum ATCC 33693]
          Length = 487

 Score = 79.1 bits (193), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 59/460 (12%), Positives = 132/460 (28%), Gaps = 87/460 (18%)

Query: 21  IPKHWKVVPIKRFTK-LNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           IP +W  V +K  +K +  G      K   +  ++  ++    +            +  +
Sbjct: 34  IPSNWVWVGLKYISKKIFAGG----DKPENFSKMKTDKNIFPIFSNGIDKDGLYGYTDEA 89

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
              +  +     G      I            ++      + +    +       +    
Sbjct: 90  KVLEKALTISARGTIGFTKIREANFTPIIRLIVI------ILKDRILYEFLDYYFKYNSL 143

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
              G+++       +    +P+ PL EQ  I EK+     +              ++ +K
Sbjct: 144 EGVGSSIPQLTVPIVNEKIIPLSPLEEQKRIVEKLDFLFEKTKKAKEIIEEIKIDIENRK 203

Query: 200 QALVSYIVTKGLNPDVKM--KDSGIEWV-------------------------------- 225
            +++       L    +   K S ++ +                                
Sbjct: 204 ISILDRAFKGTLTSKWRNENKTSDVKELLKSINEEKIKKWEKDCLQAEKDGNKKPKKPII 263

Query: 226 --------------GLVPDHWEVKPFFAL-----VTELNRKNTKLIESNILSLSYG---- 262
                           +PD W       +      +    K    ++ NI     G    
Sbjct: 264 KEVKDMIVPVDKQPYKLPDSWVWVRLGEISKLSGGSGFPEKYQGFLDKNIPFYKVGSLKN 323

Query: 263 ---NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
              N   +     +     +    ++     I+F  I      R  R A + E   I + 
Sbjct: 324 IDDNFYIENSENYIDDDILTEIKAKLFPANTIIFAKIG--EAIRLNRRAILKENSCIDNN 381

Query: 320 YMAVKPHG-IDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
            MA+  +      Y+ + ++  DL K   A       S++   ++ L   +PP++EQ +I
Sbjct: 382 LMALVSNSSCYFRYVYFWLKKEDLYKYAQA---TTVPSIRQSTLEELEFPLPPLEEQEEI 438

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
              ++      + + E +E+SI          +  A  G+
Sbjct: 439 VRALDEVLENENKVKELLEKSI----------LHKAFKGE 468



 Score = 59.4 bits (142), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 24/172 (13%), Positives = 56/172 (32%), Gaps = 15/172 (8%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
            +P  W  V +   +KL+ G            K+I +  +  +++    +  ++  +   
Sbjct: 279 KLPDSWVWVRLGEISKLSGGSGFPEKYQGFLDKNIPFYKVGSLKNIDDNFYIENSENYID 338

Query: 74  D----TSTVSIFAKGQILYGKLGPYLR--KAIIADFDGICSTQFLVLQPKDVLPELLQGW 127
           D         +F    I++ K+G  +R  +  I   +       + L            +
Sbjct: 339 DDILTEIKAKLFPANTIIFAKIGEAIRLNRRAILKENSCIDNNLMALVS---NSSCYFRY 395

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
           +      + +    +  T+       +  +  P+PPL EQ  I   +     
Sbjct: 396 VYFWLKKEDLYKYAQATTVPSIRQSTLEELEFPLPPLEEQEEIVRALDEVLE 447


>gi|189423706|ref|YP_001950883.1| restriction modification system DNA specificity domain [Geobacter
           lovleyi SZ]
 gi|189419965|gb|ACD94363.1| restriction modification system DNA specificity domain [Geobacter
           lovleyi SZ]
          Length = 422

 Score = 79.1 bits (193), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 61/424 (14%), Positives = 126/424 (29%), Gaps = 35/424 (8%)

Query: 25  WKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQ--SDTSTV 78
           W+ V  + +    T  T ++ +        I  + ++     +      + +  ++ +  
Sbjct: 6   WQYVRGENYCSKVTDGTHDTPEQVERGKYLITSKHIKGDEIDFDSAYFITEEDFNEINKR 65

Query: 79  SIFAKGQILYGKLGPYLRKAIIA---DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
           S   +  ++   +G Y     I    D D       L     ++  + L  +L S     
Sbjct: 66  SKVDQWDVIISMIGAYCGFCFIESNSDIDYAIKNVGLFKTGNEINAKWLYYYLNSSVGKA 125

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
            ++A   G+T  +     +  +P+  P     +  I   + +    ID  I    R    
Sbjct: 126 HLDAAKSGSTQPYIALGALRELPILTPKDEITKKKIVNVLDS----IDKKIRNNNRINAE 181

Query: 195 LKEKKQALVSYIVTKGLNPD---VKMKDSGIEWVG------LVPDHWEVKPFFALVTELN 245
           L+   + L  Y   +   PD      K SG + V        +P  W       L   + 
Sbjct: 182 LEAMAKTLYDYWFVQFDFPDATGKPYKSSGGKMVYNTTLKREIPVGWNDGTLDDLGQIVG 241

Query: 246 RKNT-KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG-------EIVFRFID 297
                   ESN  +     I     + N G K  +     + D G       +     + 
Sbjct: 242 GSTPSTKKESNFTASGTPWITPNDLSDNQGYKFITRGAQDVSDSGIKDASLKKYPAGTVL 301

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSL 357
           L +       A   E       + +  P    S+   +      L  +         + +
Sbjct: 302 LSSRAPIGYMAIAREELTTNQGFKSFIPTNDYSSAFIYYTLKNSLKTIVQHASGSTFKEV 361

Query: 358 KFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
               +K + + +P       +        A      + +EQ    L + R   +   + G
Sbjct: 362 SGAVLKTVKICLPASG----VVEQFTNAVAPTFKRQDLLEQENQHLTQLRDWLLPMLMNG 417

Query: 418 QIDL 421
           Q+ +
Sbjct: 418 QVTV 421



 Score = 50.6 bits (119), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 19/126 (15%), Positives = 40/126 (31%), Gaps = 12/126 (9%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTG-KYLPK---DG 68
            IP  W    +    ++  G T  + K+         +I   D+    G K++ +   D 
Sbjct: 223 EIPVGWNDGTLDDLGQIVGGSTPSTKKESNFTASGTPWITPNDLSDNQGYKFITRGAQDV 282

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL 128
           +      +++  +  G +L     P    AI  +     +  F    P +        + 
Sbjct: 283 SDSGIKDASLKKYPAGTVLLSSRAPIGYMAIAREEL-TTNQGFKSFIPTNDYSSAFIYYT 341

Query: 129 LSIDVT 134
           L   + 
Sbjct: 342 LKNSLK 347


>gi|291320527|ref|YP_003515791.1| type I R/M system specificity subunit [Mycoplasma agalactiae]
 gi|290752862|emb|CBH40837.1| Type I R/M system specificity subunit [Mycoplasma agalactiae]
          Length = 508

 Score = 79.1 bits (193), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 52/350 (14%), Positives = 123/350 (35%), Gaps = 26/350 (7%)

Query: 80  IFAKGQILYGKLGPYLRKAII-----ADFDGICSTQFLVLQPKDVL--PELLQGWLLSID 132
           +       Y +     +   +        +G+ S  ++  + K+      +   +    D
Sbjct: 2   LIKNDDFAYNRSISGEKIFGVIRKLENYENGVISPVYIAFRLKNKHVTDSVFLQYYYLTD 61

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           +  +                 I +       ++   L + +I      +D+LI    R +
Sbjct: 62  IWHKEAKNIVFKGARQLLNVSINDFFDMKLIISPNYLEQHRIGRLLSNLDSLIALHQRKL 121

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
             LK  K  L+  +     +    ++           + WE +    L   +  KNT   
Sbjct: 122 SSLKNLKNRLLDKMFCDEKSQFPSIRFK------EFTNAWEQEKLKNLTDRIIEKNTHSQ 175

Query: 253 ESNILSLSYG-NIIQKLETRNMGLKPESYETYQIVDPGEIVFRF-IDLQNDKRSLRSAQV 310
            S +L++S    +I + +  N  +  ++ + Y ++   +  +   I  +     +R  + 
Sbjct: 176 SSRVLTISQHQGLIDQNDFFNHRVASKNLKNYLLIKNDDFAYNRSISGEKIFGVIRKLEN 235

Query: 311 MERGIITSAYMAV---KPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQ--SLKFEDVKR 364
            E G+I+  Y+A      H  DS +L +   +    K    +   G RQ  ++   D   
Sbjct: 236 YENGVISPVYIAFRLKNKHVTDSVFLQYYYLTDIWHKEAKNIVFKGARQLLNVSINDFFD 295

Query: 365 LPVLV-PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           + +++ P   EQ  I  ++    + +D L+   ++ +  LK  ++  +  
Sbjct: 296 MKLIISPNYLEQHRIGRLL----SNLDSLIALHQRKLSSLKNLKNRLLDK 341



 Score = 61.0 bits (146), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 24/138 (17%), Positives = 55/138 (39%), Gaps = 12/138 (8%)

Query: 284 QIVDPGEIVFRF-IDLQNDKRSLRSAQVMERGIITSAYMAV---KPHGIDSTYLAWLMRS 339
            ++   +  +   I  +     +R  +  E G+I+  Y+A      H  DS +L +   +
Sbjct: 1   MLIKNDDFAYNRSISGEKIFGVIRKLENYENGVISPVYIAFRLKNKHVTDSVFLQYYYLT 60

Query: 340 YDLCKVFYAMG-SGLRQ--SLKFEDVKRLPVLV-PPIKEQFDITNVINVETARIDVLVEK 395
               K    +   G RQ  ++   D   + +++ P   EQ  I  ++    + +D L+  
Sbjct: 61  DIWHKEAKNIVFKGARQLLNVSINDFFDMKLIISPNYLEQHRIGRLL----SNLDSLIAL 116

Query: 396 IEQSIVLLKERRSSFIAA 413
            ++ +  LK  ++  +  
Sbjct: 117 HQRKLSSLKNLKNRLLDK 134



 Score = 53.6 bits (127), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 45/382 (11%), Positives = 102/382 (26%), Gaps = 37/382 (9%)

Query: 25  WKVVPIKRFTK-LNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           W+   +K  T  +    T      ++ I           +   +      +     +   
Sbjct: 155 WEQEKLKNLTDRIIEKNTHSQSSRVLTISQHQGLIDQNDFF--NHRVASKNLKNYLLIKN 212

Query: 84  GQILYGKLGPYLRKAII-----ADFDGICSTQFLVLQPKDVL--PELLQGWLLSIDVTQR 136
               Y +     +   +        +G+ S  ++  + K+      +   +    D+  +
Sbjct: 213 DDFAYNRSISGEKIFGVIRKLENYENGVISPVYIAFRLKNKHVTDSVFLQYYYLTDIWHK 272

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
                            I +       ++   L + +I      +D+LI    R +  LK
Sbjct: 273 EAKNIVFKGARQLLNVSINDFFDMKLIISPNYLEQHRIGRLLSNLDSLIALHQRKLSSLK 332

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
             K  L+  +     +    ++                      V +L +     I  ++
Sbjct: 333 NLKNRLLDKMFCDEKSQFPSIRFKEFTNAWEQ----------WKVGDLIKSAKVNICRSV 382

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
           +      +I++      G    + ET        ++F    L   K            I 
Sbjct: 383 VKYGKYEVIEQGIQSVFGYSNNTNETPYWDYEPIVLFGDHTLSIYKPK------SPFFIA 436

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
           +    A      +  YL + +  Y      Y   S   +SL     +          EQ 
Sbjct: 437 SDGVKAYYSLRTNGYYLFYSLERYKPLSDGYKRYSSTLKSLNMWITEN-------DVEQS 489

Query: 377 DITNVINVETARIDVLVEKIEQ 398
            I    +     +D L+   ++
Sbjct: 490 KI----SSLFTLLDSLITLHQR 507


>gi|321222502|gb|EFX47574.1| Type I restriction-modification system, specificity subunit S
           [Salmonella enterica subsp. enterica serovar Typhimurium
           str. TN061786]
          Length = 199

 Score = 79.1 bits (193), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 32/170 (18%), Positives = 58/170 (34%), Gaps = 6/170 (3%)

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
            +                     E  + +      +++F  I    +       +    G
Sbjct: 18  FMPMAGVPTTYLGKCNFETKKWSEVKKGFTQFQNDDVIFAKITPCFENGKAVVIKEFPNG 77

Query: 315 IITS----AYMAVKPHGIDSTYLAWLMRSYDL--CKVFYAMGSGLRQSLKFEDVKRLPVL 368
                     +      I+  +L  L+++ D          GS   + +  E ++   V 
Sbjct: 78  YGAGSTEYYVLRSINGLINPHWLFALVKTKDFLTNGALNMSGSVGHKRVTKEFLENYGVP 137

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           VPP+ EQ  I   ++   A++D    ++EQ   +LK  R S I AAV GQ
Sbjct: 138 VPPLAEQKVIAEKLDTLLAQVDSTKARLEQIPQILKRFRQSVIVAAVNGQ 187


>gi|260436989|ref|ZP_05790805.1| type I restriction-modification system, S subunit [Butyrivibrio
           crossotus DSM 2876]
 gi|292810610|gb|EFF69815.1| type I restriction-modification system, S subunit [Butyrivibrio
           crossotus DSM 2876]
          Length = 266

 Score = 79.1 bits (193), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 32/209 (15%), Positives = 74/209 (35%), Gaps = 11/209 (5%)

Query: 218 KDSGIEWVGLVPDHWEVKPFFA--LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL 275
           K    E    VP+ W      +   V +        ++  I  ++  N+++     +   
Sbjct: 12  KCIEEEIPFEVPEGWAWCRLNSIVDVRDGTHDTPTYVDKGIPLITSKNLVEGGIDYSNVK 71

Query: 276 KPESYETYQI-----VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
                +   I     V+ G+I+F  I    +   +    ++   I   A          S
Sbjct: 72  YISEKDAISINERSGVNIGDILFAMIGTIGNPSMVTEDILI--SIKNVALFKFTFSKNLS 129

Query: 331 TYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
            +       Y    +      GL+  +    ++   V VPP++EQ  I +++     +I 
Sbjct: 130 NHFVMYFLDYAQEDMKNKPSGGLQPFVSLNFLRTYLVPVPPVEEQQRIVSILADSINKIR 189

Query: 391 VLVEKIEQSIVL-LKERRSSFIAAAVTGQ 418
             ++ ++  +   +K+ +S  +  A+ G+
Sbjct: 190 N-IDILKNELTASVKKAKSKILDLAIRGK 217



 Score = 73.3 bits (178), Expect = 6e-11,   Method: Composition-based stats.
 Identities = 29/203 (14%), Positives = 59/203 (29%), Gaps = 6/203 (2%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSES---GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            +P+ W    +     +  G         K I  I  +++  G   Y      S +   S
Sbjct: 21  EVPEGWAWCRLNSIVDVRDGTHDTPTYVDKGIPLITSKNLVEGGIDYSNVKYISEKDAIS 80

Query: 77  --TVSIFAKGQILYGKLGPYLRKAIIADFDGI-CSTQFLVLQPKDVLPELLQGWLLSIDV 133
               S    G IL+  +G     +++ +   I      L                     
Sbjct: 81  INERSGVNIGDILFAMIGTIGNPSMVTEDILISIKNVALFKFTFSKNLSNHFVMYFLDYA 140

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            + ++    G          +    +P+PP+ EQ  I   +     +I  +   +     
Sbjct: 141 QEDMKNKPSGGLQPFVSLNFLRTYLVPVPPVEEQQRIVSILADSINKIRNIDILKNELTA 200

Query: 194 LLKEKKQALVSYIVTKGLNPDVK 216
            +K+ K  ++   +   L P   
Sbjct: 201 SVKKAKSKILDLAIRGKLVPQDP 223


>gi|302879961|ref|YP_003848525.1| restriction modification system DNA specificity domain [Gallionella
           capsiferriformans ES-2]
 gi|302582750|gb|ADL56761.1| restriction modification system DNA specificity domain [Gallionella
           capsiferriformans ES-2]
          Length = 401

 Score = 79.1 bits (193), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 54/374 (14%), Positives = 123/374 (32%), Gaps = 21/374 (5%)

Query: 26  KVVPIKRFTKLNTGRTSES---GKDIIYIGLEDVES-GTGKYLPKDGNSRQSDTSTVSIF 81
           ++  +    +  TG  + +       IY+ +  V++     +  ++     + +    + 
Sbjct: 3   ELATLGAVVEKTTGTRNPTKAPNDSFIYVDVAAVDNTQKIIFGARNILGNAAPSRARKLI 62

Query: 82  AKGQILYGKLGPYLRKAIIA--DFDG-ICSTQFLV-LQPKDVLPELLQGWLLSIDVTQRI 137
             G IL   + P L    +   D DG I ST F V      VLPE L  +++S      +
Sbjct: 63  RTGDILVSTVRPNLNAVALVTADLDGQIASTGFCVLRATTKVLPEYLFYFVISRKFVDAL 122

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
            ++  GA         +    +P+P + EQ  I + +      +        +  EL+  
Sbjct: 123 SSLVAGALYPAVSDSQVLAQSLPLPSIVEQRRIVDILSRAGGIVKLRREAEKKSAELIPA 182

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
                    +    +P    K   +  +  V  +      +    +   + +      + 
Sbjct: 183 L-------FLDMFGDPATNPKGWPVVMLPDVLAYPFKNGLYLPKEKYAPEESGEGVEMVH 235

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS--LRSAQVMERGI 315
                    K       L  E       +   +++     L  D  +         E  +
Sbjct: 236 MSDAFYGEVKRGGLRRVLAEEKQIRDYGLSKNDLLVARRSLTYDGAAKLCGIPASDEPLL 295

Query: 316 ITSAYMAVKPH--GIDSTYLAWLMRSYDLCK--VFYAMGSGLRQSLKFEDVKRLPVLVPP 371
             S+++ + P    + + YL + +   +  +  V   +       +    + ++PV+VPP
Sbjct: 296 FESSFIRLIPDSGKVRTEYLLYYLNDENTRRAHVLSRISGITISGINQAAMNQIPVMVPP 355

Query: 372 IKEQFDITNVINVE 385
           + +Q D    ++  
Sbjct: 356 LPKQGDFVERVSEV 369



 Score = 56.7 bits (135), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 19/135 (14%), Positives = 50/135 (37%), Gaps = 11/135 (8%)

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
            +++  G+I+   +    +  +L +A +  +   T   +      +   YL + + S   
Sbjct: 59  RKLIRTGDILVSTVRPNLNAVALVTADLDGQIASTGFCVLRATTKVLPEYLFYFVISRKF 118

Query: 343 CKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
                ++ +G    ++    V    + +P I EQ  I ++++         + K+ +   
Sbjct: 119 VDALSSLVAGALYPAVSDSQVLAQSLPLPSIVEQRRIVDILSRAGG-----IVKLRREAE 173

Query: 402 LLKERRSS-FIAAAV 415
                +S+  I A  
Sbjct: 174 K----KSAELIPALF 184


>gi|169823775|ref|YP_001691386.1| type I restriction-modification enzyme specificity subunit
           [Finegoldia magna ATCC 29328]
 gi|167830580|dbj|BAG07496.1| type I restriction-modification enzyme specificity subunit
           [Finegoldia magna ATCC 29328]
          Length = 375

 Score = 79.1 bits (193), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 59/408 (14%), Positives = 121/408 (29%), Gaps = 46/408 (11%)

Query: 22  PKHWKVVPIKRF-TKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           PK W+ V +     ++  G      +              GK     G    +       
Sbjct: 5   PKDWEEVKLVDIPIQIKKGDLITKKE-----------IANGKIPVIAGGKSPAYYCNRYN 53

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
                I     G       +       S    + + +    E    + L     + I  +
Sbjct: 54  REGTTITVSASGANAGYVNLFYGQIFASDCSTIEEDRSYCIE--YIYYLMAKEQENIYKL 111

Query: 141 CEGATMSHADWKGIGNIPMPI-PPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
             G    H   K I  + +     + EQ  I E ++     I+         +E L EKK
Sbjct: 112 QTGGAQPHVHPKDIKKLEIIYSRNIEEQKSIAETLMTFDRHIEN--------LEKLIEKK 163

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEW----VGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
           + +    V   +    ++     EW    +G +      K  F+  T  N K        
Sbjct: 164 KMIRDGAVEDLMTGKTRLDGFDGEWEKLLLGDIFKINMCKRVFSYQTVKNGK-------- 215

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYET-YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
           I     G   +K +          Y+  Y     G+ +         K  + + +     
Sbjct: 216 IPFFKIGTFGKKADAYISEELFNQYKHLYPYPSKGDSLISASGSIG-KIVVYNGENSYYQ 274

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-PIK 373
                ++    + +D ++L + +R++              + L    +    + +P  IK
Sbjct: 275 DSNIVWLKTNLNIVDKSFLYFYLRTFPWKI----TEGTTIKRLYNNIILETEINLPTDIK 330

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           EQ  I +++      I+ L ++  +   +        +   +TG++ L
Sbjct: 331 EQQAIASILTSMDEEIENLEKEKAKIEKIKA----GAMDDLLTGRVRL 374


>gi|148549813|ref|YP_001269915.1| restriction modification system DNA specificity subunit
           [Pseudomonas putida F1]
 gi|148513871|gb|ABQ80731.1| restriction modification system DNA specificity domain [Pseudomonas
           putida F1]
          Length = 561

 Score = 79.1 bits (193), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 57/485 (11%), Positives = 112/485 (23%), Gaps = 95/485 (19%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            +P  W    I        G   +           I ++++     ++     N  + + 
Sbjct: 82  ELPDGWAWCRIVDTGNYINGLAFKPSDWSSTGRPIIRIQNLSGRNAEF-----NRTEREV 136

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDG-------------ICSTQFLVLQPK----- 117
               +   G IL       L   I     G             I S Q+L    K     
Sbjct: 137 DASVVVNPGDILVSWS-ATLDTFIWRGEQGVLNQHIFRVTPSKIVSVQYLYWLLKWAIKV 195

Query: 118 DVLPELLQGWLLSIDVTQRIEAICEG------ATMSHADWKGIGNIPMPIPPLA------ 165
               E   G +++        A   G                +  +   +          
Sbjct: 196 LADSEHAHGLVMAHINRGPFLAQPIGLPPLTEQNKIVVKIAELMALCDRLEARQADADSA 255

Query: 166 ------------EQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNP 213
                        Q            R+             +   KQ L+   V   L P
Sbjct: 256 HAQLVQALLGSLTQASDAADFAQSWQRLAEHFHTLFTTESSIDALKQTLLQLAVMGKLVP 315

Query: 214 DVKMKDSGIEWVGLVPDHWEV-------KPFFALVTELNRKNTKLIESNILSLSYGNIIQ 266
                +   E +  V +           K    L           +  N      G I  
Sbjct: 316 QDSRDEPASELLKRVSEEKARLVAEGKLKKQKPLGDVAISDIPFDVPDNWAWSRIGEIAL 375

Query: 267 KLETRNMGLKPESYETYQIVDPGEI------------------------------VFRFI 296
             E        +  +   ++  G+I                              ++   
Sbjct: 376 NTEYGLSEKTFDLQDGVPVLKMGDIQEGRVLLGGQMAVSKNTEGLPGLYLETEDLLYNRT 435

Query: 297 DLQNDKRSLRSAQVMERGIITSAY---MAVKPHGIDSTYLAWLMRSYDLCKVFYA---MG 350
           +                    ++Y   +          YL   M +    +         
Sbjct: 436 NSAELVGKTGVFLGQAGEYSFASYLIRIRCLKELFSPLYLNISMNAPGFRETQINPHLKQ 495

Query: 351 SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
              + ++    +K + V VPP+ EQ  I   ++   A  + L  ++ Q++ + +   S+ 
Sbjct: 496 QCGQANVNGTIMKNMLVSVPPLPEQHRIVAKVDQLMALCEQLKTRLNQALQVHEHLASAL 555

Query: 411 IAAAV 415
           +  AV
Sbjct: 556 VEQAV 560



 Score = 68.3 bits (165), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 30/200 (15%), Positives = 65/200 (32%), Gaps = 12/200 (6%)

Query: 217 MKDSGIEWVGLVPDHWEVKPFFALVTELNR---KNTKLIESNILSLSYGNIIQKLETRNM 273
           M+ +  E    +PD W           +N    K +    +    +   N+  +    N 
Sbjct: 72  MEVADSEQPFELPDGWAWCRIVDTGNYINGLAFKPSDWSSTGRPIIRIQNLSGRNAEFNR 131

Query: 274 GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL 333
                  +   +V+PG+I+  +    +           E+G++      V P  I S   
Sbjct: 132 --TEREVDASVVVNPGDILVSWSATLDTFI-----WRGEQGVLNQHIFRVTPSKIVSVQY 184

Query: 334 AWLMRSYDLCKVFYA-MGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
            + +  + +  +  +    G +   +        P+ +PP+ EQ  I   I    A  D 
Sbjct: 185 LYWLLKWAIKVLADSEHAHGLVMAHINRGPFLAQPIGLPPLTEQNKIVVKIAELMALCDR 244

Query: 392 LVEKIEQSIVLLKERRSSFI 411
           L  +   +     +   + +
Sbjct: 245 LEARQADADSAHAQLVQALL 264


>gi|315030633|gb|EFT42565.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX4000]
          Length = 385

 Score = 79.1 bits (193), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 47/391 (12%), Positives = 118/391 (30%), Gaps = 23/391 (5%)

Query: 34  TKLNTGRTSES----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYG 89
              + G          +    I    + +     +       +       +   G+++  
Sbjct: 2   ASFSKGNGYSKADLIEEGHPLILYGRLYTKYETIIESVDTFAKL-QDKSILSKGGEVIVP 60

Query: 90  KLGPYLR---KAIIADFDGIC--STQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
             G       +A + D  G+       ++    ++ P  L   + +    + +    +G 
Sbjct: 61  SSGESAEDISRASVVDVAGVVLGGDLNIIKTNSELNPTFLALTISNGSQQKEMSKRAQGK 120

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
           ++ H     +  I +  P + EQ+ I          I+    +  +  EL K   Q +  
Sbjct: 121 SIVHLHNSDLKEINLLYPKIEEQIYIGLFFKKLEDTINLHQRKLDQLKELKKAYLQVMF- 179

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
             V     P ++  D   EW     + +      +       K     E+ +  +   ++
Sbjct: 180 -PVKDERAPKLRFADFEGEWEQCKLEDYATYRRGSFPQPYGNKKWYDGENAMPFVQVIDV 238

Query: 265 IQKLETRNMGLKPESY---ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
            ++L       +  S         V  G++V             +    ++R ++     
Sbjct: 239 TEQLSLVKDTKQKISKLAQSKSVFVSAGKVVVTLQGSIGRVAITQYNSYIDRTLL---VF 295

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
                  D  + A+ ++             G  +++  E +    V  P  +EQ    N 
Sbjct: 296 ESYEKETDEYFWAYTIQQ-KFEIEKRKAPGGTIKTITKEALSSFEVNFPEYEEQQKNGNF 354

Query: 382 INVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           +      +D ++   ++ +  LK  + S++ 
Sbjct: 355 L----KNLDNILTLDQKKLDQLKSLKKSYLQ 381



 Score = 49.0 bits (115), Expect = 0.001,   Method: Composition-based stats.
 Identities = 19/189 (10%), Positives = 50/189 (26%), Gaps = 10/189 (5%)

Query: 24  HWKVVPIKRFTKLNTGRTS---------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
            W+   ++ +     G            +    + ++ + DV               +  
Sbjct: 197 EWEQCKLEDYATYRRGSFPQPYGNKKWYDGENAMPFVQVIDVTEQLSLVKDTKQKISKLA 256

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
            S     + G+++    G   R   I  ++       LV +  +   +            
Sbjct: 257 QSKSVFVSAGKVVVTLQGSIGR-VAITQYNSYIDRTLLVFESYEKETDEYFWAYTIQQKF 315

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           +  +    G T+     + + +  +  P   EQ      +      +     +  +   L
Sbjct: 316 EIEKRKAPGGTIKTITKEALSSFEVNFPEYEEQQKNGNFLKNLDNILTLDQKKLDQLKSL 375

Query: 195 LKEKKQALV 203
            K   Q + 
Sbjct: 376 KKSYLQNMF 384


>gi|255690849|ref|ZP_05414524.1| HsdS, type I site-specific deoxyribonuclease [Bacteroides
           finegoldii DSM 17565]
 gi|260623570|gb|EEX46441.1| HsdS, type I site-specific deoxyribonuclease [Bacteroides
           finegoldii DSM 17565]
          Length = 271

 Score = 78.7 bits (192), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 36/211 (17%), Positives = 73/211 (34%), Gaps = 10/211 (4%)

Query: 218 KDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN--ILSLSYGNIIQKLETRNMGL 275
           K    E    +P  WE      L+       +K    +  +  L  GNI       +  +
Sbjct: 11  KCIDEEIPFEIPQGWEWCRLSLLIYPPKYGTSKKSVPSGLLPVLRMGNIQDGEIVFDKLV 70

Query: 276 KPESYE--TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL 333
                +     ++  G+++F   +           +     I     + ++P  I+S YL
Sbjct: 71  YSNDLDDNKKLLLQYGDLLFNRTNSAELVGKTAIFRGQRNAIFAGYLILLRPIFINSEYL 130

Query: 334 AWLMRSYDLCKVFYAMGS-GLRQ-SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
             L+ +         + + G++Q ++  E +  L + VP + E   I   +      I  
Sbjct: 131 NLLLNTPYARDYCNEVKTIGVQQCNINAEKISNLLIPVPNLHETVAIVEKVKNIALPIIK 190

Query: 392 LVEKIEQSIVLLKER----RSSFIAAAVTGQ 418
             E  ++   L +E     R S +  A+ G+
Sbjct: 191 YGEFYQKLKHLNRELPIIIRKSILQEAIQGK 221



 Score = 61.3 bits (147), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 36/218 (16%), Positives = 77/218 (35%), Gaps = 13/218 (5%)

Query: 20  AIPKHWKVVPIKRFT---KLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            IP+ W+   +       K  T + S     +  + + +++ G   +  K   S   D +
Sbjct: 20  EIPQGWEWCRLSLLIYPPKYGTSKKSVPSGLLPVLRMGNIQDGEIVF-DKLVYSNDLDDN 78

Query: 77  TVSIFAKGQILYGKLGP---YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
              +   G +L+ +        + AI           +L+L     +       LL+   
Sbjct: 79  KKLLLQYGDLLFNRTNSAELVGKTAIFRGQRNAIFAGYLILLRPIFINSEYLNLLLNTPY 138

Query: 134 --TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
                 E    G    + + + I N+ +P+P L E V I EK+    + I        + 
Sbjct: 139 ARDYCNEVKTIGVQQCNINAEKISNLLIPVPNLHETVAIVEKVKNIALPIIKYGEFYQKL 198

Query: 192 IELLKE----KKQALVSYIVTKGLNPDVKMKDSGIEWV 225
             L +E     +++++   +   L P +  + +  E +
Sbjct: 199 KHLNRELPIIIRKSILQEAIQGKLVPQIAEEGTARELL 236


>gi|225619349|ref|YP_002720575.1| type1 restriction modification enzyme [Brachyspira hyodysenteriae
           WA1]
 gi|225214168|gb|ACN82902.1| type1 restriction modification enzyme [Brachyspira hyodysenteriae
           WA1]
          Length = 479

 Score = 78.7 bits (192), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 53/425 (12%), Positives = 120/425 (28%), Gaps = 53/425 (12%)

Query: 29  PIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
            +  +  + +G   +S       I  I + ++                 D  +  +  K 
Sbjct: 45  KLGEYFDIFSGFAFKSEDYIEDGIPVIRISNISDNFNINNMVFVPDEYLDKYSNFVLKKN 104

Query: 85  QILYGKLGPYLRK--AIIADFDGICSTQFLVLQPKDVLPELLQGW--LLSIDVTQRIEAI 140
            IL    G    K   +  D   + + +   L+    +  L   +       V ++    
Sbjct: 105 DILVSLTGDGKLKSDLVFEDNKYLLNQRVGCLRSIKEVNILFFYYVINYCNLVDKQFYWF 164

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK- 199
             G T  +       NI +P+    +Q  I   I     +I +L    I   +++ E   
Sbjct: 165 SNGKTQLNISPFDFLNIKIPLIDKQKQDEIVSLIEPIENKIKSLKETIIPEQKIINEVFA 224

Query: 200 ---------------------QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFF 238
                                Q   +               S I        +   K   
Sbjct: 225 REFGFDENLYNEFGKGMTAGTQIADNKTFKVFNTDFSDFSKSDIMRFSTRFHNTPTKKLM 284

Query: 239 ALVTELN--------------RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ 284
            ++ +++               +     E  I  +   N+       N        E   
Sbjct: 285 NILNDIDTIKVKNIIFEYEKGIQPNYNTEGEIHVIKIQNLKNSYIDFNDSEYILEGEYNL 344

Query: 285 IVD----PGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY 340
           I D      + +   +  +     +      E  I T     ++    +  +  +  RS 
Sbjct: 345 ISDSKKLKYDDIILCVTGKISLGKIDLYNYEEDAITTVDNFIIRITNYNKLFFVYFFRSI 404

Query: 341 DLCKVFYA--MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA---RIDVLVEK 395
                      G+  +  L++++++   +   P+K+Q +I + I+ +     +I++ +EK
Sbjct: 405 LGYFQIERDFTGTTNQIHLRWKEIENFKIPNIPLKKQQEIVDEIDNKIKEQQKINIQIEK 464

Query: 396 IEQSI 400
               I
Sbjct: 465 ERNKI 469



 Score = 50.2 bits (118), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 29/172 (16%), Positives = 55/172 (31%), Gaps = 15/172 (8%)

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY---ETYQIVDPGEIVFR 294
           F + +    K+   IE  I  +   NI       NM   P+ Y    +  ++   +I+  
Sbjct: 50  FDIFSGFAFKSEDYIEDGIPVIRISNISDNFNINNMVFVPDEYLDKYSNFVLKKNDILVS 109

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-L 353
                  K  L               +          +   +     + K FY   +G  
Sbjct: 110 LTGDGKLKSDLVFEDNKYLLNQRVGCLRSIKEVNILFFYYVINYCNLVDKQFYWFSNGKT 169

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
           + ++   D   + + +   ++Q +I +           L+E IE  I  LKE
Sbjct: 170 QLNISPFDFLNIKIPLIDKQKQDEIVS-----------LIEPIENKIKSLKE 210


>gi|187736396|ref|YP_001878508.1| restriction modification system DNA specificity domain [Akkermansia
           muciniphila ATCC BAA-835]
 gi|187426448|gb|ACD05727.1| restriction modification system DNA specificity domain [Akkermansia
           muciniphila ATCC BAA-835]
          Length = 386

 Score = 78.7 bits (192), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 54/398 (13%), Positives = 116/398 (29%), Gaps = 50/398 (12%)

Query: 25  WKVVPIKRFTKLNTGRTSE----SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           W+   +    +   G T      S   I  +   +++  +   L +D    +     + +
Sbjct: 19  WERRKLGDLAEFRRGLTYSPRDISTSGIRVLRSSNIDEDSF-VLAEDDVYVKETAVCIPL 77

Query: 81  FAKGQILY----GKLGPYLRKAIIADFDG-ICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
             KG IL     G      + A+I D  G +    F++L         +   + +   + 
Sbjct: 78  VEKGDILITAANGSSRLVGKHALIIDDKGKMVHGGFMLLAHPYTHSAFVNALMHAPWYSS 137

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            I     G   +  +          I   +EQ    E+I +    +D LIT   R  E L
Sbjct: 138 FIRTNVAGGNGAIGNLNKSDLEEQDIAATSEQEQ--ERIGSLFASLDHLITLHQRKYEKL 195

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
              K++++  +  K      +++ +G        +  ++      V       +   +  
Sbjct: 196 LNIKKSMLDKMFPKNGELFPEVRFAG---FTDAWERQKLGDLVESVPFKQYIASPEPDGK 252

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
              +  G   + +     G+  E Y    I     +                       +
Sbjct: 253 FEIIQQG--SEPIIGYGNGIPCEDYAKITIFGDHTVSIYK-------------PQKPFFV 297

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV----LVPP 371
            T     +    +D  +  +L+  Y      Y                 + +      P 
Sbjct: 298 ATDGTRLLTARVLDGDFFYFLLERYKPIPEGYKRHYT------------ILIERYGCFPS 345

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
            +EQ  I          ID L+   ++ +  L+  + +
Sbjct: 346 HREQKLIAIF----FRNIDHLITLHQRKLEKLQNIKKA 379



 Score = 67.1 bits (162), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 22/147 (14%), Positives = 54/147 (36%), Gaps = 8/147 (5%)

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG-IITSAYMAVKPHGID 329
            +     E+     +V+ G+I+    +  +      +  + ++G ++   +M +      
Sbjct: 63  EDDVYVKETAVCIPLVEKGDILITAANGSSRLVGKHALIIDDKGKMVHGGFMLLAHPYTH 122

Query: 330 STYLAWLMRSYDLCKVFY---AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
           S ++  LM +           A G+G   +L   D++   +     +EQ  I +      
Sbjct: 123 SAFVNALMHAPWYSSFIRTNVAGGNGAIGNLNKSDLEEQDIAATSEQEQERIGS----LF 178

Query: 387 ARIDVLVEKIEQSIVLLKERRSSFIAA 413
           A +D L+   ++    L   + S +  
Sbjct: 179 ASLDHLITLHQRKYEKLLNIKKSMLDK 205


>gi|327183902|gb|AEA32349.1| restriction modification system DNA specificity domain-containing
           protein [Lactobacillus amylovorus GRL 1118]
          Length = 370

 Score = 78.7 bits (192), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 44/378 (11%), Positives = 109/378 (28%), Gaps = 17/378 (4%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           +   +K   ++  G++ +S              G   +       R   +    +  K  
Sbjct: 2   EYKHLKNIAQITMGQSPKSETYNNKKEGLPFFQGNADFGEISPKVRIWCSVPKKVAHKND 61

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           IL     P      IAD +         +  +++       +      ++ ++    G+T
Sbjct: 62  ILISVRAPI-GALNIADTECCIGRGLAAISVRNIKDRD-YIFNALKAKSEYLKNRGTGST 119

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
               +   + ++ +PI    ++ +  + +               +  E    K   L+  
Sbjct: 120 FKAINKNILEDVEIPIVSTEKRDIEIKVLNKL--------NIVKKQKEKELSKLDTLIKA 171

Query: 206 IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII 265
              +        K+   + +  + +          V E   + T      + +    N  
Sbjct: 172 RFVEMFGDIKNNKNYNYKPISDLTNVVSGGTPKRDVKEYWDRGTI---PWVKTTELKNNK 228

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
                  +        + ++V    I+         +    +A + +      A   + P
Sbjct: 229 VNSTEEYITKTGLQNSSAKLVPSHTILIAMYGQGKTRG--MTAYLEKEAATNQACACILP 286

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
               ++   W        ++      G + +L    +K  P+L PPI  Q    + I+  
Sbjct: 287 SSKINSEYLWQYLIMSYEELRNLAKGGNQPNLNSRMIKDFPILDPPISLQNKFVSFIHQV 346

Query: 386 TAR--IDVLVEKIEQSIV 401
                ++ L+ K   SI 
Sbjct: 347 DKSKVVNNLIMKYIISID 364


>gi|303267739|ref|ZP_07353550.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae BS457]
 gi|303270111|ref|ZP_07355814.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae BS458]
 gi|302640356|gb|EFL70800.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae BS458]
 gi|302642728|gb|EFL73064.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae BS457]
          Length = 268

 Score = 78.7 bits (192), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 43/210 (20%), Positives = 81/210 (38%), Gaps = 12/210 (5%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
            I+    +PD WE   F  LV  +   + + I+  + S   G    K+     G K  + 
Sbjct: 13  EIDVPYDIPDTWEWVRFSTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINN 72

Query: 281 ETYQIVDPG-----EIVFRFIDLQNDKRSLRSAQVMERGIITSAY--MAVKPHGIDSTYL 333
              +I   G      +      L N     R   +   G I   +  ++   + ++  YL
Sbjct: 73  VKEKIKKSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYL 132

Query: 334 AWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            +++ S  +   F ++ SG   ++L  + V  + + +PP+ EQ  I   I     ++D  
Sbjct: 133 FYILSSNVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLAEQQRIIEAIESALEKVDEY 192

Query: 393 VEKIEQSIVLLKE----RRSSFIAAAVTGQ 418
            E   +   L KE     + S +  A+ G+
Sbjct: 193 AESYNRLEQLDKEFPDKLKKSILQYAMQGK 222



 Score = 72.1 bits (175), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 44/214 (20%), Positives = 82/214 (38%), Gaps = 13/214 (6%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNSR 71
            IP  W+ V      ++  G +    KD        I +I + D E G           +
Sbjct: 19  DIPDTWEWVRFSTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINNVKEKIK 78

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
           +S  +      KG  L      + R  I+     I      +   ++ L +    ++LS 
Sbjct: 79  KSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYLFYILSS 138

Query: 132 D-VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
           + V  +  ++  GA + + +   + +I +P+PPLAEQ  I E I +   ++D       R
Sbjct: 139 NVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLAEQQRIIEAIESALEKVDEYAESYNR 198

Query: 191 FIELLKEKK----QALVSYIVTKGLNPDVKMKDS 220
             +L KE      ++++ Y +   L       +S
Sbjct: 199 LEQLDKEFPDKLKKSILQYAMQGKLVEQDPNDES 232


>gi|317182737|dbj|BAJ60521.1| Type I R-M system specificity subunit [Helicobacter pylori F57]
          Length = 193

 Score = 78.7 bits (192), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 25/197 (12%), Positives = 57/197 (28%), Gaps = 17/197 (8%)

Query: 225 VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ 284
           +G V      K      T    +            ++GN      ++ + L+ ++   Y 
Sbjct: 11  LGDVGKPCMCKRVMKHQTTRYGEVPFYKIG-----TFGNTADAFISKKLFLEYKT--KYS 63

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCK 344
               G+I+                   +      + +    +        +L  +Y   K
Sbjct: 64  FPKKGDILISASGTIGRAVI----YDGKPAYFQDSNIVWIDNDETLVKNDFLFYAYSNVK 119

Query: 345 VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLK 404
                       L   + +   + +PP+ EQ  I N+++     I  L  K  Q     +
Sbjct: 120 W--NTEHTTILRLYNNNFRNTLIPLPPLNEQSAIANILSGLDNEIASLKNKKRQ----FE 173

Query: 405 ERRSSFIAAAVTGQIDL 421
             + +     +  +I +
Sbjct: 174 NIKKALNHDLMNAKIRV 190



 Score = 54.4 bits (129), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 31/189 (16%), Positives = 58/189 (30%), Gaps = 10/189 (5%)

Query: 21  IPKHWKVVPIKRF-----TKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           +P +W+ V +         K      +    ++ +  +    +    ++ K         
Sbjct: 2   LPLNWQRVRLGDVGKPCMCKRVMKHQTTRYGEVPFYKIGTFGNTADAFISKKLFL--EYK 59

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
           +  S   KG IL    G   R  I            +V        E L           
Sbjct: 60  TKYSFPKKGDILISASGTIGRAVIYDGKPAYFQDSNIVWI---DNDETLVKNDFLFYAYS 116

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            ++   E  T+         N  +P+PPL EQ  I   +      I +L  ++ +F  + 
Sbjct: 117 NVKWNTEHTTILRLYNNNFRNTLIPLPPLNEQSAIANILSGLDNEIASLKNKKRQFENIK 176

Query: 196 KEKKQALVS 204
           K     L++
Sbjct: 177 KALNHDLMN 185


>gi|301055838|ref|YP_003794049.1| type I restriction modification enzyme protein S [Bacillus
           anthracis CI]
 gi|300378007|gb|ADK06911.1| type I restriction modification enzyme protein S [Bacillus cereus
           biovar anthracis str. CI]
          Length = 369

 Score = 78.7 bits (192), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 48/398 (12%), Positives = 120/398 (30%), Gaps = 47/398 (11%)

Query: 26  KVVPIKRFTKLNTGRTSESG---KDIIYIGLEDVESGTGKYLPKDGNSRQS--DTSTVSI 80
           ++   +    +  G              +  +++++G       +  S +     +  S 
Sbjct: 11  ELKKCEDIIDVRDGTHDSPKYVENGYPLVTSKNIKNGKLDLENINYISTEDFQKVNKRSK 70

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQ---FLVLQPKDVLPELLQGWLLSIDVTQRI 137
             KG ++   +G      ++             F     K +  +    +LLS    +++
Sbjct: 71  VDKGDVIMPMIGTIGNPLLVETDREFAIKNVALFKFQDNKFIFNKFFYYFLLSDLCKKQL 130

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
                G T S    + + N+ +P+PPL +Q  I   +      I+       +  EL   
Sbjct: 131 NGSKRGGTQSFVSLRDLRNLKVPLPPLEQQKEIVMVLDKVQGLIEKRKEAIAKLDEL--- 187

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
               + S       NP    K      +  +                  +      + ++
Sbjct: 188 ----IESVFYDMFGNPITNPKKWETTRLDNIVVLQRGYDLPIKSRNEMGEVEIWGSNGVV 243

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
            +                          +  G IV        +          +   + 
Sbjct: 244 GVH---------------------NEAKIIGGGIVTGRSGSIGNVYYTYK----DFWALN 278

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFD 377
           +   + + +G +  YL +L++ ++L +           +L    + +  +   P+ +Q +
Sbjct: 279 TTLFSKETYGNNIVYLKYLLQYFNLKRFLN---GTGVPTLNRNVIHKEQIYKIPLNKQEE 335

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
              +I     +I+    + E S++ L+E  S+ +  A 
Sbjct: 336 FAGII----KQIERTKSQFESSLIRLEESFSALVQRAF 369



 Score = 75.2 bits (183), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 30/191 (15%), Positives = 68/191 (35%), Gaps = 13/191 (6%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK-----LETRNMGLKP 277
           + +  +    +       V +    + K +E+    ++  NI                  
Sbjct: 3   DNIMEIRYELKKCEDIIDVRDGTHDSPKYVENGYPLVTSKNIKNGKLDLENINYISTEDF 62

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID-STYLAWL 336
           +       VD G+++   I    +   L      E  I   A    + +    + +  + 
Sbjct: 63  QKVNKRSKVDKGDVIMPMIGTIGNP--LLVETDREFAIKNVALFKFQDNKFIFNKFFYYF 120

Query: 337 MRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
           + S    K        G +  +   D++ L V +PP+++Q +I  V++    ++  L+EK
Sbjct: 121 LLSDLCKKQLNGSKRGGTQSFVSLRDLRNLKVPLPPLEQQKEIVMVLD----KVQGLIEK 176

Query: 396 IEQSIVLLKER 406
            +++I  L E 
Sbjct: 177 RKEAIAKLDEL 187


>gi|313500656|gb|ADR62022.1| HsdS [Pseudomonas putida BIRD-1]
          Length = 576

 Score = 78.7 bits (192), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 66/496 (13%), Positives = 137/496 (27%), Gaps = 103/496 (20%)

Query: 20  AIPKHWKVVPIKRFTK---------LNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNS 70
            +P  W                   L  G   +    + ++ + D++     + P+   S
Sbjct: 83  ELPTTWIWTSFDDLINPEYPIAYGVLVPG--PDVADGVPFVRIADLDLVAPPHKPEKSIS 140

Query: 71  RQSDTS-TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQ--FLVLQPKDVLPELLQGW 127
            + D     +    G+IL G +G   +  I  +     +       + P   + +    W
Sbjct: 141 PEVDRQYERTRIRGGEILMGVVGSIGKLGIAPESWAGANIARAICRVVPSVHVSKDYIIW 200

Query: 128 LLSID-VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK------------- 173
           LL  D + ++             +   I +   P+PPLAEQ  I  K             
Sbjct: 201 LLQSDLMRKQFLGDTRTLAQPTLNVGLIRSAAAPLPPLAEQHRIVAKVEELMALCDRLEA 260

Query: 174 ----------------IIAETVRID------------TLITERIRFIELLKEKKQALVSY 205
                           + + T  ID                        +   K+ L+  
Sbjct: 261 QQADAESAHVQLVQAMLDSLTQAIDAADFATSWQRLAEHFHTLFTNEFAIDALKKTLLQL 320

Query: 206 IVTKGLNPDVKMKDSGIEWV-------------------------------GLVPDHWEV 234
            V   L P     +S  E +                                 +P  W+ 
Sbjct: 321 AVMGKLVPQDVTDESASELLKRIEGEKQRLVDEGLMKKQKPLVESTSGQIKPALPSSWKW 380

Query: 235 KPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY----------Q 284
            P   + T ++   +     N         + K     +    +                
Sbjct: 381 VPLLDITTGMDSGWSPACLGNCSPSDDVWGVLKTTAVQVMSYLQHENKELPSHLEPRPEA 440

Query: 285 IVDPGEIVFRFIDLQNDKRS-LRSAQVMERGIITSAYMAVKPHG--IDSTYLAWLMRSYD 341
               G+I+F      N             + +I+   +   P    +   ++A  + + +
Sbjct: 441 ETKVGDILFTRAGPMNRVGISCLVESTRPKLMISDKIIRFHPVELGVYGRFVALCLNAGE 500

Query: 342 LCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
             K      SG+   + ++  E ++  P+ + P++EQ  I   ++      D L ++I  
Sbjct: 501 TAKYLEQAKSGMAASQVNISQEKLRLAPIPLAPLREQHRIVKKVDQLMKLCDTLKQQINV 560

Query: 399 SIVLLKERRSSFIAAA 414
           +     E   + +A  
Sbjct: 561 ARSKQTELLDTLMAQV 576


>gi|225351803|ref|ZP_03742826.1| hypothetical protein BIFPSEUDO_03404 [Bifidobacterium
           pseudocatenulatum DSM 20438]
 gi|225157050|gb|EEG70389.1| hypothetical protein BIFPSEUDO_03404 [Bifidobacterium
           pseudocatenulatum DSM 20438]
          Length = 151

 Score = 78.7 bits (192), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 25/150 (16%), Positives = 59/150 (39%), Gaps = 8/150 (5%)

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH- 326
             +   G    S  +Y+ +  G+I F     +              GI++  +  ++P  
Sbjct: 3   FNSTGNGADESSLPSYKRLRLGDIAFEGHANKEFAYGRFVLNDAGNGIMSPRFTCLRPIV 62

Query: 327 GIDSTYLAWLMRSYDLCK--VFYAMGSGLRQS-LKFEDVKRLPVLVPPIKEQFDITNVIN 383
             + ++  + + S ++ +  +  +  SG   + L  +D     +LVP + EQ  I    +
Sbjct: 63  EQEYSFWKYFIHSEEVMRPILVNSTKSGTMMNELVVKDFLEQEILVPSLPEQRQIGAFFD 122

Query: 384 VETARIDVLVEKIEQSIVLLKERRSSFIAA 413
                +D L+   ++ + LL+  + S +  
Sbjct: 123 C----LDSLITLHQRKLELLRNIKKSMLDK 148


>gi|237723419|ref|ZP_04553900.1| type I restriction enzyme EcoAI specificity protein [Bacteroides
           sp. D4]
 gi|229438209|gb|EEO48286.1| type I restriction enzyme EcoAI specificity protein [Bacteroides
           dorei 5_1_36/D4]
          Length = 242

 Score = 78.7 bits (192), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 37/199 (18%), Positives = 77/199 (38%), Gaps = 7/199 (3%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIES--NILSLSYGNIIQKLETRNMGLKPESYET-- 282
            VP+ W       +V EL    ++   S   I  L  GNI          L   S +   
Sbjct: 13  EVPESWVWCRLDDIVCELKYGTSEKSSSVGKIAVLRMGNITNVGTIDYSNLVYSSNDEDI 72

Query: 283 -YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD 341
               ++  +++F   +           +  +  I     + +KP  I   YL  +M S  
Sbjct: 73  EQYSLEKNDLLFNRTNSSEWVGKTAIYKEEQPAIYAGYLIRIKPLLISPDYLNTVMNSGY 132

Query: 342 LCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
                Y + +    + ++  + + +L + +PP+KEQ  I   ++   + ID++       
Sbjct: 133 YRDWCYDVKTDAVNQSNINAQKLSQLMIPIPPLKEQERIVAEMDKWISLIDIVKNGKGDL 192

Query: 400 IVLLKERRSSFIAAAVTGQ 418
           + ++K+ +S  +  A+ G+
Sbjct: 193 LTVIKQAKSKILDLAIHGK 211



 Score = 73.7 bits (179), Expect = 5e-11,   Method: Composition-based stats.
 Identities = 34/230 (14%), Positives = 82/230 (35%), Gaps = 10/230 (4%)

Query: 20  AIPKHWKVVPIKRF-TKLNTGRTSESGK--DIIYIGLEDVES-GTGKYLPKDGNSRQSDT 75
            +P+ W    +     +L  G + +S     I  + + ++ + GT  Y     +S   D 
Sbjct: 13  EVPESWVWCRLDDIVCELKYGTSEKSSSVGKIAVLRMGNITNVGTIDYSNLVYSSNDEDI 72

Query: 76  STVSIFAKGQILYGKLGP---YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
              S+  K  +L+ +        + AI  +        +L+     ++       +++  
Sbjct: 73  EQYSL-EKNDLLFNRTNSSEWVGKTAIYKEEQPAIYAGYLIRIKPLLISPDYLNTVMNSG 131

Query: 133 VT--QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
                  +   +    S+ + + +  + +PIPPL EQ  I  ++      ID +   +  
Sbjct: 132 YYRDWCYDVKTDAVNQSNINAQKLSQLMIPIPPLKEQERIVAEMDKWISLIDIVKNGKGD 191

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFAL 240
            + ++K+ K  ++   +   L P     +  IE +  +   +        
Sbjct: 192 LLTVIKQAKSKILDLAIHGKLVPQDPNDEPAIELLKRINSDFTPCDNGHY 241


>gi|183603427|ref|ZP_02964389.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae CDC0288-04]
 gi|183575012|gb|EDT95540.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae CDC0288-04]
          Length = 432

 Score = 78.7 bits (192), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 27/158 (17%), Positives = 59/158 (37%), Gaps = 8/158 (5%)

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
           + +      +K       + V  G  +            L     +  G +    ++   
Sbjct: 42  KYINNVKEKIKKSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLA---ISNYE 98

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
           + ++  YL +++ S  +   F ++ SG   ++L  + V  + + +PP+ EQ  I   I  
Sbjct: 99  NSLNKDYLFYILSSNVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLSEQQRIVEAIES 158

Query: 385 ETARIDVLVEKIEQSIVLLKE----RRSSFIAAAVTGQ 418
              ++D   E   +   L KE     + S +  A+ G+
Sbjct: 159 ALEKVDEYAESYNRLEQLDKEFPDKLKKSILQYAMQGK 196



 Score = 71.0 bits (172), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 63/432 (14%), Positives = 128/432 (29%), Gaps = 71/432 (16%)

Query: 29  PIKRFTKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
                 ++  G +    KD        I +I + D E G           ++S  +    
Sbjct: 2   RFSTLVEIIRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINNVKEKIKKSGLNKTRF 61

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID-VTQRIEA 139
             KG  L      + R  I+     I      +   ++ L +    ++LS + V  +  +
Sbjct: 62  VKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYLFYILSSNVVYSQFLS 121

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
           +  GA + + +   + +I +P+PPL+EQ  I E I +   ++D       R  +L KE  
Sbjct: 122 LISGAVVKNLNSDKVASILIPLPPLSEQQRIVEAIESALEKVDEYAESYNRLEQLDKEFP 181

Query: 200 ----QALVSYIVTKGLNPDVKMKDSGIEWV------------------------------ 225
               ++++ Y +   L       +S    +                              
Sbjct: 182 DKLKKSILQYAMQGKLVEQDPNDESVEVLLEKIRAEKQKLFEEGKIKKKDLDISIVSQGD 241

Query: 226 ----------------GLVPDHWEVKPFFALVTELNRKNTK-----LIESNILSLSYGNI 264
                             +P+ W    F +LV     K           + I  +S  ++
Sbjct: 242 DNSYYGNKDETTSYPIYEIPEAWRYIKFASLVNFRIGKTPPRSEATFWGTEIPWVSISDM 301

Query: 265 IQKLETRN----MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
                  N    +       +   I   G ++  F         L         II+  +
Sbjct: 302 PISGYVTNTRESISKLALKSKKIDISPKGTLLMSFKLSIGKVAILDIPATHNEAIIS-IF 360

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
                  I   YL   +              G  ++L    +  L + +   +E   I +
Sbjct: 361 PYANKENIIRDYLMIFLPLISTLGDSKDAIKG--KTLNSTSISELLIPISNHEEMKRIIS 418

Query: 381 VINVETARIDVL 392
            +++   ++  L
Sbjct: 419 KVDLLFQKVSQL 430



 Score = 48.3 bits (113), Expect = 0.003,   Method: Composition-based stats.
 Identities = 19/119 (15%), Positives = 43/119 (36%), Gaps = 8/119 (6%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDV-ESGTGKYLPKDGNS 70
           I  IP+ W+ +          G+T    +      +I ++ + D+  SG      +  + 
Sbjct: 257 IYEIPEAWRYIKFASLVNFRIGKTPPRSEATFWGTEIPWVSISDMPISGYVTNTRESISK 316

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
               +  + I  KG +L       + K  I D     +   + + P      +++ +L+
Sbjct: 317 LALKSKKIDISPKGTLLMS-FKLSIGKVAILDIPATHNEAIISIFPYANKENIIRDYLM 374


>gi|89898852|ref|YP_521323.1| restriction modification system DNA specificity subunit [Rhodoferax
           ferrireducens T118]
 gi|89343589|gb|ABD67792.1| restriction modification system DNA specificity domain [Rhodoferax
           ferrireducens T118]
          Length = 447

 Score = 78.7 bits (192), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 53/455 (11%), Positives = 123/455 (27%), Gaps = 62/455 (13%)

Query: 23  KHWKVVPIKRFTK-----LNTGRTSES--GKDIIYIGLEDVESGT--GKYLPKDGNSRQS 73
             W    +          L  G    +   KD +  G+  +      G+++  D     +
Sbjct: 2   SEWIETTVGEIAASSRNALVGGPFGSNLVSKDYVDQGVPVIRGQNMGGRWVAGDFACVST 61

Query: 74  DTS---TVSIFAKGQILYGKLGPYLRKAIIADFDGIC-----STQFLVLQPKDVLPELLQ 125
           + +   + +    G I++ + G   + A++ D          S   L + P+      L 
Sbjct: 62  EKAAALSANTARPGDIVFTQRGTLGQVALVPDSPYETYVVSQSQMKLTVDPEKADSLFLY 121

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPP-LAEQVLIREKIIAETVRIDTL 184
               S    + I        + H +   + + P+ +P  +  Q  I  ++     +I+  
Sbjct: 122 YLFSSPIQQEYIRQNSIQVGVPHTNLGILRDTPVVLPKSVDVQKDIARQLGTLDDKIELN 181

Query: 185 ITERIRFIELLKEKKQALVSYI----------------VTKGLNPDV---KMKDSGIEWV 225
                    + +   Q+                        GL P +            +
Sbjct: 182 RRMNETLEAMARAIFQSWFVDFDPVRAKASGESADSICQRLGLTPKLLALFPDSFEDSEL 241

Query: 226 GLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI 285
           G +P  W +     L            E               +   +          ++
Sbjct: 242 GEIPSGWMIGSIGTLANVTGGSTPNTKEPKYWDDGVHCWATPKDLSRLSSPVLLETERKV 301

Query: 286 VDPGEIVFRF-------IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
            D G             + L +               +   ++A+ P+   S Y      
Sbjct: 302 SDDGLAQIGSGLLKPGAVLLSSRAPIGYRVINEVPVAVNQGFIAMTPNSGVSKYFLLYWA 361

Query: 339 SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL------ 392
            +   ++           +   + + +PV+ P            +    + D        
Sbjct: 362 EWAHDEIVSRANGSTFLEISKANFRPIPVVRPT-----------DALFEKFDQYVGPLYK 410

Query: 393 -VEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
            +   EQ   LL  +R S +   ++G++ +  E +
Sbjct: 411 RIVSNEQEKQLLVAQRDSLLPKLLSGEVMVAAEEE 445



 Score = 64.8 bits (156), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 29/210 (13%), Positives = 64/210 (30%), Gaps = 19/210 (9%)

Query: 8   PQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYI-------GLEDVESGT 60
             ++DS    +G IP  W +  I     +  G T  + +   +          +D+   +
Sbjct: 234 DSFEDSE---LGEIPSGWMIGSIGTLANVTGGSTPNTKEPKYWDDGVHCWATPKDLSRLS 290

Query: 61  GKYLPKDGNSRQSDT---STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPK 117
              L +       D        +   G +L     P   +  I +     +  F+ + P 
Sbjct: 291 SPVLLETERKVSDDGLAQIGSGLLKPGAVLLSSRAPIGYRV-INEVPVAVNQGFIAMTPN 349

Query: 118 DVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
             + +    +         I +   G+T           I    P +     + EK    
Sbjct: 350 SGVSKYFLLYWAEWA-HDEIVSRANGSTFLEISKANFRPI----PVVRPTDALFEKFDQY 404

Query: 178 TVRIDTLITERIRFIELLKEKKQALVSYIV 207
              +   I    +  +LL  ++ +L+  ++
Sbjct: 405 VGPLYKRIVSNEQEKQLLVAQRDSLLPKLL 434


>gi|237807984|ref|YP_002892424.1| restriction modification system DNA specificity domain-containing
           protein [Tolumonas auensis DSM 9187]
 gi|237500245|gb|ACQ92838.1| restriction modification system DNA specificity domain protein
           [Tolumonas auensis DSM 9187]
          Length = 437

 Score = 78.7 bits (192), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 55/396 (13%), Positives = 119/396 (30%), Gaps = 32/396 (8%)

Query: 45  GKDIIYIGLEDVESGTGKYLPKDG-NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD- 102
              +  +   ++          D     ++D    SI  +G I+    G   + +II++ 
Sbjct: 37  SSGVPVLKGGNLHGAYVDDSDCDFLTEEKADELKSSIAFEGDIVITHRGTIGQVSIISED 96

Query: 103 ---FDGICSTQF--LVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADW--KGIG 155
                 + S     + L  K V P  +  +L S     ++ +      +         + 
Sbjct: 97  AKYPRYVVSQSQLKISLDRKKVNPYYVNYYLRSHLGQHQLLSFASQVGVPAIAQASTSVK 156

Query: 156 NIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS-----YIVTKG 210
            I +P PPL  Q  I E I +   +I           ++ +   ++             G
Sbjct: 157 QIRVPCPPLDIQNKIVEFIRSVDKKIANNTQTNQTLEQMAQAIFKSWFVDFDPVKAKMNG 216

Query: 211 LNPDVKMKDSG--------IEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
             P+   + +            +GL+P+ W ++P   +   +N +  K  E         
Sbjct: 217 EQPEGMDEATAALFPDKLVESELGLIPEGWNIQPLSDVSRVINGRAYKNSEFREKGTPIV 276

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
            I                   +++D G+++F +                 + I       
Sbjct: 277 RIQNLTGAGKTVYSDIDLPQDKLIDHGDLIFAWSATFG-----PYLWRGPKSIYHYHIWK 331

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
           ++            M    L +     G+G +   L    ++   ++VP          V
Sbjct: 332 MEVDENKFGKYLLFMHLARLTEYLKNQGTGSIFTHLTKGIMESQKLVVPFEGVVQAFAKV 391

Query: 382 INVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
           +     +ID L     +    L+  R   +   ++G
Sbjct: 392 VTPLFVQIDAL----HKQNKTLESLREILLPKLLSG 423



 Score = 61.0 bits (146), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 26/191 (13%), Positives = 68/191 (35%), Gaps = 11/191 (5%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESG----KDIIYIGLEDVESGTGKYLPKDGNSRQS 73
           +G IP+ W + P+   +++  GR  ++     K    + ++++ +G GK +  D      
Sbjct: 239 LGLIPEGWNIQPLSDVSRVINGRAYKNSEFREKGTPIVRIQNL-TGAGKTVYSDI----- 292

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
           D     +   G +++          +      I       ++  +        ++    +
Sbjct: 293 DLPQDKLIDHGDLIFAWS-ATFGPYLWRGPKSIYHYHIWKMEVDENKFGKYLLFMHLARL 351

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
           T+ ++    G+  +H     + +  + +P         + +    V+ID L  +      
Sbjct: 352 TEYLKNQGTGSIFTHLTKGIMESQKLVVPFEGVVQAFAKVVTPLFVQIDALHKQNKTLES 411

Query: 194 LLKEKKQALVS 204
           L +     L+S
Sbjct: 412 LREILLPKLLS 422


>gi|325686955|gb|EGD28979.1| type I restriction/modification specificity protein [Streptococcus
           sanguinis SK72]
          Length = 382

 Score = 78.7 bits (192), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 52/406 (12%), Positives = 112/406 (27%), Gaps = 40/406 (9%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTG---KYLPKDGNSRQSDTSTVSIFAKG 84
           + +    +++  +     +   + G+   +  T      +  D           S   KG
Sbjct: 4   IRLGEIGRISMCKRILKSQTNEFSGIPFYKISTFGGTPTVYIDEKVYHEYKEKYSYPKKG 63

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            IL    G   +  I    D       +V          +    L   +         G+
Sbjct: 64  DILISAAGTIGKTVIFDGEDSYFQDSNIVWIEN--DESKVTNQFLYYFLQTNPFITTNGS 121

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
           T+       + +  +P  P  +Q     KI      +D  I    +  + L+   + L  
Sbjct: 122 TIKRLYNDNLRDTTIPNVPSIQQQ---NKITDILGTLDKKIQINNQINQELEAMAKTLYD 178

Query: 205 YIVTKGLNPDV---KMKDSG------IEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
           Y   +   PD      K SG       E    +P+ W V+     +T  N K+ K ++  
Sbjct: 179 YCFVQFDFPDQNGKPYKSSGGKMVYSPELKREIPEGWGVEKLSHFLTIKNGKDHKHLQDG 238

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
             ++     I +  T                   + ++    +   ++   +  +     
Sbjct: 239 KFAVYGSGGIMRTVT-------------------DYLYSGESILFPRKGTLNNVMYVNEK 279

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
             +           +    ++  S                S+    +  L ++VP     
Sbjct: 280 FWTVDTMFYSEVNKNNSALYVFYSVKDIDFNKLNTGTGVPSMTSSILYDLNIIVPEAN-- 337

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
             I    N    R    ++        L + R   +   + GQ+ +
Sbjct: 338 --ILEKFNTIVKRNYETIKLNNIQNQELTQLRDWLLPMLMNGQVKV 381



 Score = 40.9 bits (94), Expect = 0.37,   Method: Composition-based stats.
 Identities = 27/184 (14%), Positives = 55/184 (29%), Gaps = 22/184 (11%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            IP+ W V  +  F  +  G+  +  +D  +                 G+     T T  
Sbjct: 210 EIPEGWGVEKLSHFLTIKNGKDHKHLQDGKF--------------AVYGSGGIMRTVTDY 255

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           +++   IL+ + G       + +      T F     K+     +   +  ID       
Sbjct: 256 LYSGESILFPRKGTLNNVMYVNEKFWTVDTMFYSEVNKNNSALYVFYSVKDIDF----NK 311

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
           +  G  +         +I   +  +  +  I EK      R    I       + L + +
Sbjct: 312 LNTGTGVPSMTS----SILYDLNIIVPEANILEKFNTIVKRNYETIKLNNIQNQELTQLR 367

Query: 200 QALV 203
             L+
Sbjct: 368 DWLL 371


>gi|219872006|ref|YP_002476381.1| type I site-specific deoxyribonuclease S subunit, restriction
           modification system [Haemophilus parasuis SH0165]
 gi|219692210|gb|ACL33433.1| type I site-specific deoxyribonuclease S subunit, restriction
           modification system [Haemophilus parasuis SH0165]
          Length = 332

 Score = 78.7 bits (192), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 39/372 (10%), Positives = 111/372 (29%), Gaps = 50/372 (13%)

Query: 53  LEDVESGTGKYLPKDGNSRQSDTS----TVSIFAKGQILYGKLGPYLRKAIIADFDG--I 106
           + ++       L  D       ++      +      IL        +   I +  G   
Sbjct: 1   MTNLNRNGITLLLDDLKFVNIQSNSADGKRTSLQANDILISITTELGKIGFIPENFGEAY 60

Query: 107 CSTQ--FLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPL 164
            +     + + P     + +   L S  + + I ++ +    +  +   I  + + +P +
Sbjct: 61  INQHTALIRIDPNKAHAKFIAYVLSSATMNKTINSLNDAGAKAGLNLPTIKALSLKLPSI 120

Query: 165 AEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEW 224
            EQ+ I E +       D  I    + +E  +++K+AL+  ++                 
Sbjct: 121 EEQIQIAETL----STWDNAIQTTEKLLENSRQQKKALMQRLL----------------- 159

Query: 225 VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ 284
                              +  K ++L ++ +       +I      +      + E++ 
Sbjct: 160 -----KGNNWLQTDLAELAVISKGSQLNKNTLSDNGQYAVINGGIEPSGYTDKFNTESHT 214

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCK 344
           I             +            E+        A+  +   +    + +  Y+   
Sbjct: 215 I----------TISEGGNSCGYIGFQKEKFWCGGHCYAL-SNLRINCLFLYQLLKYNEEN 263

Query: 345 VFYAMGSGLRQSLKFEDVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
           +          +++ + ++   +  P  I EQ  I  +++     I+ L    ++ +  L
Sbjct: 264 IMRLRVGSGLPNIQKKALESFSLSYPQDISEQQKIAEILSTADQEIETL----QRKLECL 319

Query: 404 KERRSSFIAAAV 415
           K  + + +    
Sbjct: 320 KLEKGALMQRVF 331



 Score = 76.8 bits (187), Expect = 7e-12,   Method: Composition-based stats.
 Identities = 18/137 (13%), Positives = 54/137 (39%), Gaps = 5/137 (3%)

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD 341
               +   +I+            +            +A + + P+   + ++A+++ S  
Sbjct: 29  KRTSLQANDILISITTELGKIGFIPENFGEAYINQHTALIRIDPNKAHAKFIAYVLSSAT 88

Query: 342 LCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
           + K   ++  +G +  L    +K L + +P I+EQ  I   ++      D  ++  E+ +
Sbjct: 89  MNKTINSLNDAGAKAGLNLPTIKALSLKLPSIEEQIQIAETLSTW----DNAIQTTEKLL 144

Query: 401 VLLKERRSSFIAAAVTG 417
              ++++ + +   + G
Sbjct: 145 ENSRQQKKALMQRLLKG 161


>gi|320352394|ref|YP_004193733.1| hypothetical protein Despr_0256 [Desulfobulbus propionicus DSM
           2032]
 gi|320120896|gb|ADW16442.1| hypothetical protein Despr_0256 [Desulfobulbus propionicus DSM
           2032]
          Length = 113

 Score = 78.7 bits (192), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 28/110 (25%), Positives = 46/110 (41%), Gaps = 12/110 (10%)

Query: 5   KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTK--LNTGRTSES---GKDIIYIGLEDVESG 59
            AYP+YKDSGVQW+G +P+HW++ PIK      +  G         + + ++  E + +G
Sbjct: 4   PAYPRYKDSGVQWLGEVPEHWEIRPIKAIVSTPVTDGPHETPEIFDEGVPFVSAEAISNG 63

Query: 60  TGKYLPKDGNSRQSDTSTV---SIFAKGQI----LYGKLGPYLRKAIIAD 102
              +    G     D            G I    ++  L    R A++  
Sbjct: 64  KINFNKIRGYISAEDHRKYSRKYRPEFGDIQSSAIFTWLNLVQRPAVLRW 113


>gi|271968781|ref|YP_003342977.1| Restriction endonuclease S subunits-like protein [Streptosporangium
           roseum DSM 43021]
 gi|270511956|gb|ACZ90234.1| Restriction endonuclease S subunits-like protein [Streptosporangium
           roseum DSM 43021]
          Length = 402

 Score = 78.7 bits (192), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 63/420 (15%), Positives = 127/420 (30%), Gaps = 40/420 (9%)

Query: 22  PKHWKVVPIKRFT----KLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           P+ W ++ + +              E+     YI + ++  G          S       
Sbjct: 2   PRGWPLLELSKVGVQVHDCEHRTPPEAETGYPYIAIPNIVDGRLDLTQVRLISTSDLEEW 61

Query: 78  VSIFAK--GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
                     ++  + G     A+I D       Q LV+     +    +    ++    
Sbjct: 62  NRRTKPIADDVIITRRGRVGDSAVIPDDLECAIGQNLVILRSSGMDVNQKYLRWAVRGKY 121

Query: 136 RI----EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
                   I  G+     + + I  + +P+PP+  Q++I E + A   +I          
Sbjct: 122 WESEVERLINVGSIFDSLNVRDIARMRIPVPPMQFQLVIAEVLGALDDKIAANKRTAATA 181

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWV-GLVPDHWEVKPFFALVTELNRKNTK 250
           +EL   K     S       +      D+   W+ G  P   E                 
Sbjct: 182 LELASAKY----SAAAAMSADWCTVTLDAAARWLSGGTPKTSE---------------PD 222

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPE--SYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
               +I  +S  ++       +     E  +    +IV  G ++F               
Sbjct: 223 YWNGDIPWISALSLKSPWIDDSDRKLTEVGARSGTRIVPSGSVIFVVRGSSLKTEFRVGI 282

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRS--YDLCKVFYAMGSGLRQSLKFEDVKRLP 366
              E          +    IDS  L   +RS   ++  +      G    L  + + +L 
Sbjct: 283 TQREVAFGQDCKALIAAESIDSHVLFHAIRSRTPEIMAMVDETSIGA-GRLSTDLISKLD 341

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
           + VP  K Q    N    E   +D +  + ++   +L   R + +   ++G++ +R   Q
Sbjct: 342 IRVP--KHQK---NKTADELRSLDEVAARCQKESRILAALRDTLLPQLMSGKLCVRDAEQ 396


>gi|168485836|ref|ZP_02710344.1| putative type I restriction-modification system, S subunit
           [Streptococcus pneumoniae CDC1087-00]
 gi|183571015|gb|EDT91543.1| putative type I restriction-modification system, S subunit
           [Streptococcus pneumoniae CDC1087-00]
          Length = 373

 Score = 78.3 bits (191), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 41/396 (10%), Positives = 117/396 (29%), Gaps = 31/396 (7%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V +     L  G+ +    +   +    ++    +       +   + +         
Sbjct: 2   KKVKLGEVLSLKKGKKATVLAEQTTLSQRYIQIDDLRNNNNLKFTESLNMTEAL---PDD 58

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW--LLSIDVTQRIEAICEG 143
           IL    G             + ST  ++ + +    +++  +  +     +Q +     G
Sbjct: 59  ILIAWDGANAGTVGYGLSGAVGSTITVLKKNERYKEKIISDYLGVFLESKSQYLRDHSTG 118

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           AT+ H +   + ++ + +  + EQ  I   +      I     +                
Sbjct: 119 ATIPHLNKNILLDLQLELLGIEEQENIICILNTIKRLITKRKFQLDELNL---------- 168

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
                  L      +  G   +    D+              + +    E   L L+  N
Sbjct: 169 -------LVKSRFNEMFGENKIFESIDNLFDIIDGDRGKNYPKSDELFSEEYCLFLNTKN 221

Query: 264 IIQKLETRN----MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
           + +   + +    +    +       ++  +IV        +          +   I S 
Sbjct: 222 VTKNGFSFDTKQFITKTKDKLLRKGKLERYDIVLTTRGTVGNVAYYDELIKYKHLRINSG 281

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
            + ++P   +     +++           +    +  L    +K++ + +PP+  Q +  
Sbjct: 282 MVILRPKTPNLNQ-KFIIHVLRNNNYSRVISGSAQPQLPITKLKKILLPLPPLALQNEFA 340

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           + +    A++D     I++S+  L+  + S +    
Sbjct: 341 DFV----AQVDKSQLAIQKSLEELETLKKSLMQEYF 372


>gi|262165310|ref|ZP_06033047.1| type I restriction-modification system specificity subunit S
           [Vibrio mimicus VM223]
 gi|262025026|gb|EEY43694.1| type I restriction-modification system specificity subunit S
           [Vibrio mimicus VM223]
          Length = 498

 Score = 78.3 bits (191), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 22/183 (12%), Positives = 61/183 (33%), Gaps = 4/183 (2%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNTKLI---ESNILSLSYGN-IIQKLETRNMGLKPE 278
           +++  +P  W  +    +               E+ I  L   N    K++  ++    +
Sbjct: 96  DYLFDIPSGWSWERLGNVGETNIGLTYSPKDAGETGIPVLRSANIQKGKIDLSDLVRVQK 155

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
             +   +V+ G+++    +         +     +  +             + Y+   + 
Sbjct: 156 EVKYSVLVEVGDLLICARNGSKALVGKTAQICELKEPMAFGAFMAIFRSCINDYIEVFLN 215

Query: 339 SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
           S    K    + +     +   +++     +PP++EQ  I   ++   A  D L ++ E 
Sbjct: 216 SPVYRKNLEGVSTTTINQITQSNLRSTICPIPPVEEQHRIVAKVDELMALCDQLEQQTED 275

Query: 399 SIV 401
           S+ 
Sbjct: 276 SLD 278



 Score = 66.7 bits (161), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 28/192 (14%), Positives = 63/192 (32%), Gaps = 11/192 (5%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            IP  W    +    + N G T          I  +   +++ G           ++   
Sbjct: 100 DIPSGWSWERLGNVGETNIGLTYSPKDAGETGIPVLRSANIQKGKIDLSDLVRVQKEVKY 159

Query: 76  STVSIFAKGQILYGKLGP----YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
           S   +   G +L            + A I +     +    +   +  + + ++ +L S 
Sbjct: 160 S--VLVEVGDLLICARNGSKALVGKTAQICELKEPMAFGAFMAIFRSCINDYIEVFLNSP 217

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
              + +E +    T++      + +   PIPP+ EQ  I  K+       D L  +    
Sbjct: 218 VYRKNLEGVST-TTINQITQSNLRSTICPIPPVEEQHRIVAKVDELMALCDQLEQQTEDS 276

Query: 192 IELLKEKKQALV 203
           ++  +   + L+
Sbjct: 277 LDAHQVLVETLL 288



 Score = 64.0 bits (154), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 15/118 (12%), Positives = 34/118 (28%), Gaps = 8/118 (6%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD----IIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            +P+ W+            G+  +  K+    + Y+   +V+              +   
Sbjct: 384 ELPEGWEWCRFGDVAISRLGKMLDKSKNLGNPLPYLRNTNVQWHRFDLEDIKRMKIEDAE 443

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
               +   G +L  + G   R AI  D     ST+    +        +  +    + 
Sbjct: 444 KEEFLVLPGDLLICEGGEPGRCAIWKDD----STEMYFQKAYIEQEHWVAAYPSIYNF 497


>gi|145589315|ref|YP_001155912.1| restriction modification system DNA specificity subunit
           [Polynucleobacter necessarius subsp. asymbioticus
           QLW-P1DMWA-1]
 gi|145047721|gb|ABP34348.1| restriction modification system DNA specificity domain protein
           [Polynucleobacter necessarius subsp. asymbioticus
           QLW-P1DMWA-1]
          Length = 556

 Score = 78.3 bits (191), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 40/193 (20%), Positives = 73/193 (37%), Gaps = 5/193 (2%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESG-----TGKYLPKDGNSRQSDT 75
           +P  W    ++   +++TG+T ++     YIG              + L  D    +   
Sbjct: 74  VPSGWVWKSLREVGRVSTGKTPDTRNSNFYIGTTPFIGPGQLSMNHRILKSDKFISKEAE 133

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
              SI   G IL   +G  + K+ IA      + Q   +Q  D   E +   L +    +
Sbjct: 134 LNTSIALPGSILMVCIGGSIGKSAIATHRVAFNQQINAIQTTDCNVEFIHMCLRAKFFLE 193

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
           R+  +  G+     +     NI +PIPP+ +Q  I EK+ A     D L  + ++     
Sbjct: 194 RVHQLSSGSATPIINKSRWENIQIPIPPIGQQNKIVEKVNALMQLCDQLERDALKKEIFH 253

Query: 196 KEKKQALVSYIVT 208
                  +S ++ 
Sbjct: 254 DNLVIHFMSLLLR 266



 Score = 76.4 bits (186), Expect = 8e-12,   Method: Composition-based stats.
 Identities = 30/196 (15%), Positives = 58/196 (29%), Gaps = 14/196 (7%)

Query: 219 DSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI-----------IQK 267
            S  + +  +P+ W       L +  N   +K   S    ++ G             I  
Sbjct: 349 QSDKKGLHQIPESWSWIRLSELASFENGDRSKNYPSRDQFVAAGMAFINAGHLQEEGIDY 408

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
                + ++         +  G+I+F           +++ +     I +S  +      
Sbjct: 409 SNMNFIDVETYDNLRSGKIKEGDILFCLRGSLGKFAIVKNGETG--AIASSLVIIRPFAP 466

Query: 328 IDSTYLAWLMRSYDLCKVFYAM-GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
               YL     S               + +L   D+    V +PP+ EQ  I   +    
Sbjct: 467 EIVDYLGIYFSSTLAKDQILKFDNGTAQPNLAGADLGHFQVPLPPLSEQKAIVASLKRLL 526

Query: 387 ARIDVLVEKIEQSIVL 402
           A  D L E   ++  L
Sbjct: 527 ALCDQLSESFSKARQL 542



 Score = 71.7 bits (174), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 32/202 (15%), Positives = 66/202 (32%), Gaps = 17/202 (8%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDII-----------YIGLEDVESGTGKYLPKD- 67
            IP+ W  + +        G   +  K+             +I    ++     Y   + 
Sbjct: 357 QIPESWSWIRLSELASFENG---DRSKNYPSRDQFVAAGMAFINAGHLQEEGIDYSNMNF 413

Query: 68  GNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFD--GICSTQFLVLQPKDVLPELLQ 125
            +    D        +G IL+   G   + AI+ + +   I S+  ++      + + L 
Sbjct: 414 IDVETYDNLRSGKIKEGDILFCLRGSLGKFAIVKNGETGAIASSLVIIRPFAPEIVDYLG 473

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
            +  S     +I     G    +     +G+  +P+PPL+EQ  I   +       D L 
Sbjct: 474 IYFSSTLAKDQILKFDNGTAQPNLAGADLGHFQVPLPPLSEQKAIVASLKRLLALCDQLS 533

Query: 186 TERIRFIELLKEKKQALVSYIV 207
               +  +L      + V   +
Sbjct: 534 ESFSKARQLECMLADSFVDQAL 555



 Score = 71.7 bits (174), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 31/216 (14%), Positives = 68/216 (31%), Gaps = 21/216 (9%)

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLV--------PDHWEVKPFFALVTELNRK-----N 248
           ++   V+  L        S  E +           P  W  K    +      K     N
Sbjct: 40  ILQLAVSGRLTTAANSLRSANENLSDQSKAEPFIVPSGWVWKSLREVGRVSTGKTPDTRN 99

Query: 249 TKLIESNILSLSYGN--IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
           +         +  G   +  ++   +  +  E+     I  PG I+   I     K ++ 
Sbjct: 100 SNFYIGTTPFIGPGQLSMNHRILKSDKFISKEAELNTSIALPGSILMVCIGGSIGKSAIA 159

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRL 365
                 R        A++    +  ++   +R+    +  + + SG     +     + +
Sbjct: 160 ----THRVAFNQQINAIQTTDCNVEFIHMCLRAKFFLERVHQLSSGSATPIINKSRWENI 215

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLV-EKIEQSI 400
            + +PPI +Q  I   +N      D L  + +++ I
Sbjct: 216 QIPIPPIGQQNKIVEKVNALMQLCDQLERDALKKEI 251


>gi|323441772|gb|EGA99415.1| hypothetical protein SAO46_2327 [Staphylococcus aureus O46]
          Length = 227

 Score = 78.3 bits (191), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 24/218 (11%), Positives = 69/218 (31%), Gaps = 14/218 (6%)

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
             Q + S  +      D    D   + +G + +        ++            ++  +
Sbjct: 17  YMQKIFSQELRFKDENDEDYPDWKEKKLGDITE-------QSMYGIGASATRFDSKNIYI 69

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL-RSAQVMERGII 316
            ++  +   +         P+       +   +I+F        K  + +  + +     
Sbjct: 70  RITDIDEKSRKLNYQNLTTPDELNNKYKLKRNDILFARTGASTGKSYIHKEEKDIYNYYF 129

Query: 317 TSAYMAVKPHGIDSTYLAWLMR--SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKE 374
               +  +    ++    +     S     V        +  +  E+  +LP+++P   E
Sbjct: 130 AGFLIKFEIDEQNNPLFIYQFTLTSKYNKWVKVMSVRSGQPGINSEEYAKLPLVLPNKLE 189

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           Q  I   ++    R D  +E  +Q I +L++++   + 
Sbjct: 190 QQKIAEFLD----RFDQQIELEKQKIEILQQQKKGLLQ 223



 Score = 60.6 bits (145), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 25/190 (13%), Positives = 66/190 (34%), Gaps = 11/190 (5%)

Query: 24  HWKVVPIKRFTKLNT---GRTSES-GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            WK   +   T+ +    G ++       IYI + D++  + K   ++  +     +   
Sbjct: 38  DWKEKKLGDITEQSMYGIGASATRFDSKNIYIRITDIDEKSRKLNYQNLTTPDELNNKYK 97

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFL------VLQPKDVLPELLQGWLLSIDV 133
           +  +  IL+ + G    K+ I   +      +           +   P  +  + L+   
Sbjct: 98  L-KRNDILFARTGASTGKSYIHKEEKDIYNYYFAGFLIKFEIDEQNNPLFIYQFTLTSKY 156

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            + ++ +   +     + +    +P+ +P   EQ  I E +     +I+    +     +
Sbjct: 157 NKWVKVMSVRSGQPGINSEEYAKLPLVLPNKLEQQKIAEFLDRFDQQIELEKQKIEILQQ 216

Query: 194 LLKEKKQALV 203
             K   Q++ 
Sbjct: 217 QKKGLLQSMF 226


>gi|150391749|ref|YP_001321798.1| restriction modification system DNA specificity subunit
           [Alkaliphilus metalliredigens QYMF]
 gi|149951611|gb|ABR50139.1| restriction modification system DNA specificity domain
           [Alkaliphilus metalliredigens QYMF]
          Length = 383

 Score = 78.3 bits (191), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 54/395 (13%), Positives = 115/395 (29%), Gaps = 28/395 (7%)

Query: 30  IKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYG 89
           IK   K   G T  + + +  I               +  +  SD    +I     ++  
Sbjct: 14  IKNIYKRVKG-TPITAEKMHKIKSATGTIRVFAGGATEIKANVSDLPNANIINVPVVIVQ 72

Query: 90  KLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHA 149
             G      I  +       +                + L  +V     A    ++ S  
Sbjct: 73  SRGVI--DFIYCNEPCTFKNEMWGYTSAGAYEVKFLFYYLKHNVDYFRNAGDGRSSFSQI 130

Query: 150 DWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTK 209
                    +P+ P  EQ  I   +      I          +  L EKK+A+    +  
Sbjct: 131 SLPVTEEYKIPLIPSNEQQAIASVLSDFDEHITN--------LTELIEKKKAIRDGALED 182

Query: 210 GLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLE 269
            ++   ++     EW                       +        + L     I  + 
Sbjct: 183 LVSGRTRLDGFDGEW--------VNVKLSDFAQINPS-SPLPESFKYVDLESVKGISLVN 233

Query: 270 TRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID 329
            R    +       ++   G+I F+ +        L   ++ ++  + S   A      +
Sbjct: 234 WRVESKETAPSRAKRLAQHGDIFFQTVRPYQRNNYL--YELPDKDFVFSTGYAQIRTENN 291

Query: 330 STYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVP-PIKEQFDITNVINVETA 387
           + +L  L+R            +G    ++    +  + + VP  I EQ  I +++     
Sbjct: 292 AGFLFLLLRQDVFVNEVIDNCTGTSYPAINPSKLADINIYVPVDICEQQAIASILTSMDE 351

Query: 388 RIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
            I+ L  +  + I    + R   +   +TG++ L+
Sbjct: 352 EIESLETEKSKMI----QIREGAMDELLTGRVRLK 382



 Score = 42.1 bits (97), Expect = 0.18,   Method: Composition-based stats.
 Identities = 35/192 (18%), Positives = 75/192 (39%), Gaps = 8/192 (4%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W  V +  F ++N   +S   +   Y+ LE V+ G      +  +   + +    +   
Sbjct: 196 EWVNVKLSDFAQINP--SSPLPESFKYVDLESVK-GISLVNWRVESKETAPSRAKRLAQH 252

Query: 84  GQILYGKLGPYLRKAIIA---DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
           G I +  + PY R   +    D D + ST +  ++ +      L   L        +   
Sbjct: 253 GDIFFQTVRPYQRNNYLYELPDKDFVFSTGYAQIRTE-NNAGFLFLLLRQDVFVNEVIDN 311

Query: 141 CEGATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
           C G +    +   + +I + +P  + EQ  I   + +    I++L TE+ + I++ +   
Sbjct: 312 CTGTSYPAINPSKLADINIYVPVDICEQQAIASILTSMDEEIESLETEKSKMIQIREGAM 371

Query: 200 QALVSYIVTKGL 211
             L++  V   +
Sbjct: 372 DELLTGRVRLKI 383


>gi|313123733|ref|YP_004033992.1| restriction endonuclease s subunits-like protein [Lactobacillus
           delbrueckii subsp. bulgaricus ND02]
 gi|312280296|gb|ADQ61015.1| Restriction endonuclease S subunits-like protein [Lactobacillus
           delbrueckii subsp. bulgaricus ND02]
          Length = 381

 Score = 78.3 bits (191), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 57/394 (14%), Positives = 126/394 (31%), Gaps = 28/394 (7%)

Query: 31  KRFTKLNTG----RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQI 86
                 + G    ++   G     I    + +     + ++ +S     S       G++
Sbjct: 2   GDVANFSKGTGYSKSDLKGTGSPIILYGRLYTKYETII-RNVDSFVVPKSGSVFSKGGEV 60

Query: 87  LYGKLGPYLRKAII---ADFDGIC--STQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
           +    G       I    +  GI       ++    D+ P  L   + +      +    
Sbjct: 61  IVPGSGETAEDISIASVVEPAGILLGGDLNIIYPNSDLDPTFLAITISNGKPHFDMARRA 120

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
           +G ++ H     + +I +  P L+EQ  I +        I     ++ +   L     Q 
Sbjct: 121 QGKSIVHLHNADLKHISLKTPNLSEQKRISKIFEVLDQTITLHEEKKQQLKCLKSALLQK 180

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
           + +     G +PDV+ K     W          +     +   N K T       + L  
Sbjct: 181 MFANKNKSG-DPDVRFKGFDERW---------ERHILNDLAIFNPKGTLPTSFEYVDLGS 230

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
              ++ +  + +          ++   G++ ++ +        L      +   + S   
Sbjct: 231 VIGVEMISHKTISKFDAPSRAQRLAQVGDLFYQTVRPYQQNNYL--FDNKDNAYVFSTGY 288

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVP-PIKEQFDIT 379
           A     ID  +L  L+++    +      +G    ++  +D+ ++ V +P   KEQ  I 
Sbjct: 289 AQLRPLIDGYFLLCLVQTKSFVRKVMNACTGTSYPAINSQDLAQIGVNIPINSKEQRLIG 348

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           N        ID L+   +Q +  L   + S +  
Sbjct: 349 N----LYKVIDNLITLYQQKLDDLNTIKQSLLQK 378


>gi|303255883|ref|ZP_07341922.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae BS455]
 gi|302597154|gb|EFL64261.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae BS455]
          Length = 264

 Score = 78.3 bits (191), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 43/210 (20%), Positives = 81/210 (38%), Gaps = 12/210 (5%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
            I+    +PD WE   F  LV  +   + + I+  + S   G    K+     G K  + 
Sbjct: 3   EIDVPYDIPDTWEWVRFSTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINN 62

Query: 281 ETYQIVDPG-----EIVFRFIDLQNDKRSLRSAQVMERGIITSAY--MAVKPHGIDSTYL 333
              +I   G      +      L N     R   +   G I   +  ++   + ++  YL
Sbjct: 63  VKEKIKKSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYL 122

Query: 334 AWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            +++ S  +   F ++ SG   ++L  + V  + + +PP+ EQ  I   I     ++D  
Sbjct: 123 FYILSSNVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLAEQQRIIEAIESALEKVDEY 182

Query: 393 VEKIEQSIVLLKE----RRSSFIAAAVTGQ 418
            E   +   L KE     + S +  A+ G+
Sbjct: 183 AESYNRLEQLDKEFPDKLKKSILQYAMQGK 212



 Score = 71.4 bits (173), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 44/214 (20%), Positives = 82/214 (38%), Gaps = 13/214 (6%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNSR 71
            IP  W+ V      ++  G +    KD        I +I + D E G           +
Sbjct: 9   DIPDTWEWVRFSTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINNVKEKIK 68

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
           +S  +      KG  L      + R  I+     I      +   ++ L +    ++LS 
Sbjct: 69  KSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYLFYILSS 128

Query: 132 D-VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
           + V  +  ++  GA + + +   + +I +P+PPLAEQ  I E I +   ++D       R
Sbjct: 129 NVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLAEQQRIIEAIESALEKVDEYAESYNR 188

Query: 191 FIELLKEKK----QALVSYIVTKGLNPDVKMKDS 220
             +L KE      ++++ Y +   L       +S
Sbjct: 189 LEQLDKEFPDKLKKSILQYAMQGKLVEQDPNDES 222


>gi|251771131|gb|EES51714.1| DNA polymerase, beta domain protein region [Leptospirillum
           ferrodiazotrophum]
          Length = 545

 Score = 78.3 bits (191), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 56/444 (12%), Positives = 136/444 (30%), Gaps = 42/444 (9%)

Query: 13  SGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESG---KDIIYIGLEDVESGTGKY-LPKDG 68
           SG++W   IP  ++ V +     +  G    S    +    I + ++      Y +P   
Sbjct: 106 SGMEW-QKIP--FERVLLG---PIRNGIYKPSNFHGRGTKIINMGELFKYPRMYSVPMKR 159

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIA------DFDGICSTQFLVLQPKDVLPE 122
                     S   KG +++ +       A                +  + ++P      
Sbjct: 160 VDLSLSEGDRSNILKGDLIFARRSLVPAGAGKCSIVLEVQEPTTFESSIIRVRPDQTKSH 219

Query: 123 --LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
              L  +  S      ++ I     +S    K +  + +P PPL+EQ  I   +     +
Sbjct: 220 SLFLFYYFNSPVGLHSLDTIRRQVAVSGITGKDLARLEVPNPPLSEQRAIAHILGTLDDK 279

Query: 181 IDTLITERIRFIELLKEKKQALVSYIVT---------KGLNPDV---KMKDSGIEWVGLV 228
           I+           + +   ++                 GL  ++            +G +
Sbjct: 280 IELNRRMNETLEAMAQAIFKSWFVDFDPVRAKMEGRETGLPKEIEDLFPDSFEDSELGEI 339

Query: 229 PDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDP 288
           P  W V+           +     +++          Q   +         + +      
Sbjct: 340 PRGWRVRSTGEAFELNPSEKLSKGKNSPYLDMSAIPTQG--SWPESPIYRPFVSGSKFRN 397

Query: 289 GEIVFRFIDL---QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM---RSYDL 342
           G+ +F  I           ++  +  + G  ++ ++ ++P         +L+    ++  
Sbjct: 398 GDTLFARITPCLENGKTAYIQCLEEEQVGWGSTEFIVIRPKAPFPKEFGYLLARDNAFRE 457

Query: 343 CKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
             +    G+  RQ ++ + +    +L P       I     V   +   L++   + I  
Sbjct: 458 HAIQSMSGTSGRQRVQLDSIAAFKILQPE----ARILKAFEVIIRQWFELIKVNSEFIAG 513

Query: 403 LKERRSSFIAAAVTGQIDLRGESQ 426
             + R + +   +TG+I + G  +
Sbjct: 514 FNQMRDALLPKLLTGEIRVSGPEK 537



 Score = 63.7 bits (153), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 33/207 (15%), Positives = 69/207 (33%), Gaps = 17/207 (8%)

Query: 213 PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
              K   SG+EW  +  +   + P    +     K +         ++ G + +     +
Sbjct: 99  KMWKKLGSGMEWQKIPFERVLLGPIRNGI----YKPSNFHGRGTKIINMGELFKYPRMYS 154

Query: 273 MGLKPESYE----TYQIVDPGEIVFRFIDLQNDKRSLRSA--QVMERGIITSAYMAVKPH 326
           + +K             +  G+++F    L        S   +V E     S+ + V+P 
Sbjct: 155 VPMKRVDLSLSEGDRSNILKGDLIFARRSLVPAGAGKCSIVLEVQEPTTFESSIIRVRPD 214

Query: 327 GI--DSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
                S +L +   S         +        +  +D+ RL V  PP+ EQ  I +++ 
Sbjct: 215 QTKSHSLFLFYYFNSPVGLHSLDTIRRQVAVSGITGKDLARLEVPNPPLSEQRAIAHILG 274

Query: 384 VETARIDVLVEKIEQSIVLLKERRSSF 410
                +D  +E   +    L+    + 
Sbjct: 275 T----LDDKIELNRRMNETLEAMAQAI 297


>gi|323358028|ref|YP_004224424.1| restriction endonuclease S subunits [Microbacterium testaceum
           StLB037]
 gi|323274399|dbj|BAJ74544.1| restriction endonuclease S subunits [Microbacterium testaceum
           StLB037]
          Length = 392

 Score = 78.3 bits (191), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 53/412 (12%), Positives = 126/412 (30%), Gaps = 41/412 (9%)

Query: 25  WKVVPIKRFTKLNTGRTSESG-------KDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           W+ VP+    +   G T + G         +  +  ++++S T                 
Sbjct: 3   WETVPLGEVARFVRGVTYKPGDVVANGADGVACLRTKNIQS-TLDLTDLVCVRSDLKHRV 61

Query: 78  VSIFAKGQILYGKLGPY---LRKA-IIADFDGICSTQFL---VLQPKDVLPELLQGWLLS 130
                +  +L      +    R     AD +G+    F+     +P+D+ P     W  S
Sbjct: 62  EQRVQEDDVLVSSANSWHLVGRAVQAGADAEGMLIGGFIGGLRFKPEDISPRYGYYWFSS 121

Query: 131 IDVTQRIEAI-CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
             +  ++ +   +   +S+ +      +P+P+PPL EQ  I   +        T +T   
Sbjct: 122 PVIQAKVRSFGQQTTNISNLNVDRTLRLPIPLPPLPEQRRIVAILDEADALRTTAVTATE 181

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNT 249
           R  +             + + L P      + I  +     +                  
Sbjct: 182 RVDDARA---------ALFEHLFPSAGEDLTTIGALIESTQYGTSGK--------AGGTG 224

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA- 308
           +     + +L+    I   + + + +  +  E Y +V  G+++F   +            
Sbjct: 225 RFPILRMGNLTARGRIDLRDMKYIDIPDQEVEKY-LVRKGDVLFNRTNSAELVGKTAVYR 283

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLP 366
           + + R                + Y+A  + S    +    M   +    ++   +V+ + 
Sbjct: 284 EDVPRAYAGYLVRLRASDEFIAEYIAGYLNSVHGKRTLRRMAKSIVGMANINAREVQTIR 343

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           +  P  ++       ++   +       + E     L    +S    A  G+
Sbjct: 344 LPAPSAEKMHAYKAFVDESWSN----TARFESRARELDSLFASLQHRAFRGE 391


>gi|260903739|ref|ZP_05912061.1| type i restriction enzyme EcoR124II specificity protein
           [Brevibacterium linens BL2]
          Length = 395

 Score = 78.3 bits (191), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 52/390 (13%), Positives = 113/390 (28%), Gaps = 23/390 (5%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
            P+      N G    + K     G   +    G     D           +I     I+
Sbjct: 19  RPLGSLGTRNKGTAMTASKMKTIGGGGPIRVFAGGQTVADVAEDA--IPAKNIVRVPSII 76

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMS 147
               G          F          +    V  + +  +LL+     ++ A      + 
Sbjct: 77  VKSRGHIGFSYYERPFTHKTELWSYTIDAPGVDQKFVYYYLLTQVEKLQVLARATSVKLP 136

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
               +    + +P+PP   Q  I   +   T     L  E              L     
Sbjct: 137 QLSVRDTDTLNVPMPPFEVQREIVRVLDKFTQLEAELEAELDARRTQYDYYAGEL----- 191

Query: 208 TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK 267
              L  D  ++   I  V  +      +P    +T        +   ++ +       + 
Sbjct: 192 ---LTIDEGVRRVRIGDVATIVRGASPRPIQKFITSDPEGVPWIKIGDVPADG-----KY 243

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
           + +    +  E     + V PG+ V             +    +  G +    ++     
Sbjct: 244 ITSTAQRVTIEGAAKSRRVLPGDFVLSNSMSFGRPYVSQIEGCIHDGWLA---ISAFEDS 300

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
            +  YL +L+RS  + + F      G  ++L  + V+ + + VPP  EQ  + ++++   
Sbjct: 301 FERDYLYYLLRSTPVQEEFARRAGAGTVKNLNADIVRSVVIPVPPRAEQKRVIDLLDHFD 360

Query: 387 ARIDVLV----EKIEQSIVLLKERRSSFIA 412
           A ++ +      ++       +  R   + 
Sbjct: 361 ALVNDIRIGLPAELAARRKQYEYYRDRLLT 390



 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 22/198 (11%), Positives = 60/198 (30%), Gaps = 9/198 (4%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTS--------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           I +  + V I     +  G +            + + +I + DV +              
Sbjct: 194 IDEGVRRVRIGDVATIVRGASPRPIQKFITSDPEGVPWIKIGDVPADGKYITSTAQRVTI 253

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW-LLSI 131
              +       G  +      + R  +      I      +   +D        + L S 
Sbjct: 254 EGAAKSRRVLPGDFVLSNSMSFGRPYVSQIEGCIHDGWLAISAFEDSFERDYLYYLLRST 313

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            V +         T+ + +   + ++ +P+PP AEQ  + + +      ++ +       
Sbjct: 314 PVQEEFARRAGAGTVKNLNADIVRSVVIPVPPRAEQKRVIDLLDHFDALVNDIRIGLPAE 373

Query: 192 IELLKEKKQALVSYIVTK 209
           +   +++ +     ++T 
Sbjct: 374 LAARRKQYEYYRDRLLTF 391


>gi|148544103|ref|YP_001271473.1| restriction modification system DNA specificity subunit
           [Lactobacillus reuteri DSM 20016]
 gi|184153473|ref|YP_001841814.1| hypothetical protein LAR_0818 [Lactobacillus reuteri JCM 1112]
 gi|325682357|ref|ZP_08161874.1| restriction modification system DNA specificity subunit
           [Lactobacillus reuteri MM4-1A]
 gi|148531137|gb|ABQ83136.1| restriction modification system DNA specificity domain
           [Lactobacillus reuteri DSM 20016]
 gi|183224817|dbj|BAG25334.1| conserved hypothetical protein [Lactobacillus reuteri JCM 1112]
 gi|324978196|gb|EGC15146.1| restriction modification system DNA specificity subunit
           [Lactobacillus reuteri MM4-1A]
          Length = 375

 Score = 78.3 bits (191), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 44/398 (11%), Positives = 112/398 (28%), Gaps = 40/398 (10%)

Query: 30  IKRFTKLNTGRTSESGKDI-------IYIGLEDVESGTGKYLPKDGN-SRQSDTSTVSIF 81
           +    ++  G+    G  +        Y+ + D +  +              +  +    
Sbjct: 6   LGDIAEIKGGKRMPKGTRLQQEKNQHPYLRITDYDGKSFDRNSIRYVPDEVFEKISNYTV 65

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICS---TQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
            +G I    +G       I       +       ++  + V  + +  +L S+   +++ 
Sbjct: 66  TEGDIFLSIVGTIGIATTIDKEYDNANLTENAVKIIPDESVNSKYILYFLQSMLGQRQMN 125

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
            +  G+T      K I  I + +P L  Q  +   +     +I            LL   
Sbjct: 126 ELSVGSTQKKLPIKNIKKIKILLPNLEIQNKVVSNLQILDKKIALNNQINDNLDALLTNI 185

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
            +  +                      G    +      +     + +      E ++  
Sbjct: 186 FKKYM-------------------INDGFEKSNLTQIANYKNGLAMQKYRPNSNEESLPV 226

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
           L    + Q     +      + +   IV+ G+I+F +         L      ++  +  
Sbjct: 227 LKIKELNQGNTDDSSDRCSANLDNSVIVNTGDIIFSWSGTL-----LVKNWTGDKAGLNQ 281

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPPIKEQFD 377
               V  +   + ++    + + L     A G       +K  D+K   V +P       
Sbjct: 282 HLFKVTSNKYPAWFIYEWTKYHLLRFQAIAAGKATTMGHIKRSDLKSSLVYIPS----QL 337

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
               ++ + A I      + +    L + + + +    
Sbjct: 338 FLAKMDSQLAPIYSQRLNLIKENQQLSKLKQTLLKKYF 375



 Score = 40.2 bits (92), Expect = 0.70,   Method: Composition-based stats.
 Identities = 23/189 (12%), Positives = 58/189 (30%), Gaps = 10/189 (5%)

Query: 21  IPKHWKVVPIKRFTKLNTG------RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           I   ++   + +      G      R + + + +  + ++++  G         +   ++
Sbjct: 191 INDGFEKSNLTQIANYKNGLAMQKYRPNSNEESLPVLKIKELNQGN---TDDSSDRCSAN 247

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
                I   G I++   G  L K    D  G  +     +         +  W     + 
Sbjct: 248 LDNSVIVNTGDIIFSWSGTLLVKNWTGDKAG-LNQHLFKVTSNKYPAWFIYEWTKYHLLR 306

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
            +  A  +  TM H     + +  + IP       +  ++     +   LI E  +  +L
Sbjct: 307 FQAIAAGKATTMGHIKRSDLKSSLVYIPSQLFLAKMDSQLAPIYSQRLNLIKENQQLSKL 366

Query: 195 LKEKKQALV 203
            +   +   
Sbjct: 367 KQTLLKKYF 375


>gi|331671459|ref|ZP_08372257.1| putative toxin-antitoxin system, toxin component [Escherichia coli
           TA280]
 gi|331071304|gb|EGI42661.1| putative toxin-antitoxin system, toxin component [Escherichia coli
           TA280]
          Length = 457

 Score = 78.3 bits (191), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 44/449 (9%), Positives = 117/449 (26%), Gaps = 57/449 (12%)

Query: 25  WKVVPIKRFTKLNTGR-----TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST-V 78
           W  V +   ++          T  +  +  +I   ++   + K           +     
Sbjct: 5   WIEVSLGEISEKIGDGIHGTPTYNNSGNYYFINGSNLIDNSIKITETTKCVDHDEYLKHR 64

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID-VTQRI 137
              +   +L    G     A+  + + I       +  KD + +    ++LS     + I
Sbjct: 65  KKLSNNTVLVSINGTIGNTALYNNENIILGKSACYINLKDNISKHFILYVLSGYLFQEYI 124

Query: 138 EAICEGATMSHADWKGIGNIPMPIPP-LAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           +    G+T+ +   K + +    +P    EQ  +   I            +     ++ +
Sbjct: 125 QRCSTGSTIKNVSLKMMRDFRFLMPESKEEQEKVVRIIQKIDELKRLNNAQNQTLEQMSQ 184

Query: 197 EKKQA-------LVSYIVTKGLNPDVKMKDSGIE-------------------------- 223
              ++       ++   +  G NP  +   S  E                          
Sbjct: 185 ALFKSWFVDFDPVIDNALDAG-NPIPETLQSRAELRQNVRNSTDFKPLPAEIRSLFPSEF 243

Query: 224 ---WVGLVPDHWEVKPFFALVT------ELNRKNTKLIESNILSLSYGNIIQKLETRNMG 274
               +G VP  WE + F +           +RK T   +   +       ++     +  
Sbjct: 244 EETELGWVPKGWESETFDSFCDLIQSGGTPSRKETSFWDGGTIKWLSSGEVKGKIILDTK 303

Query: 275 LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
            K                +  +       +     + ++     A   +        +  
Sbjct: 304 EKITDIGLLNSSSKLWEKYTTVVAMYGATAGEVCIIGDKMAANQACCGLYSKIF--PFFV 361

Query: 335 WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
           +        ++        +Q+L    +     + P       I  +       + +   
Sbjct: 362 YNFVCNKANELASKATGSAQQNLNKLIISTTKFICPSND----IITIFEDNVTPLFMKWF 417

Query: 395 KIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
                   L   R + +   ++G++ +  
Sbjct: 418 SNSSENNTLIALRDTLLPKLISGELSVED 446



 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 23/195 (11%), Positives = 55/195 (28%), Gaps = 11/195 (5%)

Query: 18  IGAIPKHWKVVPIKRFTK-LNTGRTSESGK-------DIIYIGLEDVESGTGKYLPKDGN 69
           +G +PK W+      F   + +G T    +        I ++   +V+        +   
Sbjct: 248 LGWVPKGWESETFDSFCDLIQSGGTPSRKETSFWDGGTIKWLSSGEVKGKIILDTKEKIT 307

Query: 70  SRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
                 S+  ++ K   +    G    +  I       +     L  K         +  
Sbjct: 308 DIGLLNSSSKLWEKYTTVVAMYGATAGEVCIIGDKMAANQACCGLYSKIF---PFFVYNF 364

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
             +    + +   G+   + +   I       P      +  + +    ++  +  +E  
Sbjct: 365 VCNKANELASKATGSAQQNLNKLIISTTKFICPSNDIITIFEDNVTPLFMKWFSNSSENN 424

Query: 190 RFIELLKEKKQALVS 204
             I L       L+S
Sbjct: 425 TLIALRDTLLPKLIS 439


>gi|282881941|ref|ZP_06290586.1| type I restriction-modification system methyltransferase subunit
           [Peptoniphilus lacrimalis 315-B]
 gi|281298216|gb|EFA90667.1| type I restriction-modification system methyltransferase subunit
           [Peptoniphilus lacrimalis 315-B]
          Length = 983

 Score = 77.9 bits (190), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 48/394 (12%), Positives = 111/394 (28%), Gaps = 39/394 (9%)

Query: 26  KVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           ++V +        G +             +  I     ++    +  K     +S     
Sbjct: 602 EMVKLGNIATFIRGISFPKKAQKDQADDLLNVITTRAAQADGIDF-KKVVYIEKSYAKPD 660

Query: 79  SIFAKGQILYGKLGP---YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
            +  K  IL           R   + +     +    +   +    ++   +L  I  + 
Sbjct: 661 KMVFKEDILISLANSLELVGRVTYVDENYKDATFGAFMGVIRVNYQKVHPMYLFHILNSI 720

Query: 136 RIEAICE-----GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
             +            +S+  ++ +GN+ +P+P L  Q+ I +++      I         
Sbjct: 721 EAKKYFRAVAKTTTNISNITFEDLGNLVLPLPRLDYQLKIIDELNRYQEMIVGAKKIVNN 780

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
           ++  L   +  + + +    L   +          G  P             +    +  
Sbjct: 781 YLPKLPSYEIVVSTSLNDSELFEIMS---------GGTPSTKNP--------DYWGGDIS 823

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
            I    L             R +  K     + +++  G IV            ++    
Sbjct: 824 WITLADLPQEDYVTTIDKSVRTITKKGLDNSSAKMLPVGAIVVSTRATIGRVGIVKHPLA 883

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP 370
             +G      +  KP  +   +LA L++       F A      + +   +  ++ V +P
Sbjct: 884 TNQGFKN--VIIKKPDVVIPEFLALLLKEKTEEMEFLA-SGATFKEISKFNFGKIKVELP 940

Query: 371 PIKEQFDITNVI---NVETARIDVLVEKIEQSIV 401
            + EQ  I   I            ++E  E  I 
Sbjct: 941 SLDEQKRILVKIHEEESFVKPAKKVIEVFEDKID 974



 Score = 52.9 bits (125), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 22/144 (15%), Positives = 52/144 (36%), Gaps = 6/144 (4%)

Query: 266 QKLETRNMGLKPESYET-YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY---M 321
             ++ + +    +SY    ++V   +I+    +       +       +     A+   +
Sbjct: 642 DGIDFKKVVYIEKSYAKPDKMVFKEDILISLANSLELVGRVTYVDENYKDATFGAFMGVI 701

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDIT 379
            V    +   YL  ++ S +  K F A+        ++ FED+  L + +P +  Q  I 
Sbjct: 702 RVNYQKVHPMYLFHILNSIEAKKYFRAVAKTTTNISNITFEDLGNLVLPLPRLDYQLKII 761

Query: 380 NVINVETARIDVLVEKIEQSIVLL 403
           + +N     I    + +   +  L
Sbjct: 762 DELNRYQEMIVGAKKIVNNYLPKL 785


>gi|300865293|ref|ZP_07110106.1| hypothetical protein OSCI_1610001 [Oscillatoria sp. PCC 6506]
 gi|300336694|emb|CBN55256.1| hypothetical protein OSCI_1610001 [Oscillatoria sp. PCC 6506]
          Length = 304

 Score = 77.9 bits (190), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 31/228 (13%), Positives = 76/228 (33%), Gaps = 15/228 (6%)

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN- 255
            +KQ L+       ++    ++      +G     WE K    L    N  N        
Sbjct: 78  RRKQELLQTYKRGVMHKIFSLEIRFKGAIGSEFPDWEEKRLDELGEFKNGFNADKSSFGD 137

Query: 256 -ILSLSYGNIIQKLETRNMGLKPESYETY----QIVDPGEIVFRFIDLQNDKRS--LRSA 308
            +  ++  +I  K E + + L+     +       +  G+++F    ++ +         
Sbjct: 138 GVEFVNLMDIFGKSEIKKIPLERVQISSKQVEQYKIKKGDVLFVRSSVKREGVGQPCLVN 197

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLA--WLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRL 365
              E  + +   +  +    +  +L   +   S +  K   ++  S    ++  E +  +
Sbjct: 198 DDFEDTVYSGFIIRFREKSSELCHLYKKYCFSSLEFRKELLSLATSSANTNINQESLSAI 257

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            +  P  KEQ  IT  +     +I+ L     + I   ++ +   +  
Sbjct: 258 ILFYPCKKEQEKITGFLTAMDRKIETL----SRQIDQTEQFKKGLLQK 301



 Score = 56.3 bits (134), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 16/106 (15%), Positives = 43/106 (40%), Gaps = 6/106 (5%)

Query: 320 YMAVKPHGIDSTYLAWLMRS--YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFD 377
           ++  +        + + +R     L ++    G+G  ++L  ++   L + +P I EQ  
Sbjct: 3   FLPKQNRASLKFVILFFLRERGKYLLELASPGGAGRNKTLGQQNFAGLEITLPKIAEQEK 62

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
           I + +     R+     ++ +   LL+  +   +    + +I  +G
Sbjct: 63  IASFLGAVDRRL----AQLRRKQELLQTYKRGVMHKIFSLEIRFKG 104



 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 27/196 (13%), Positives = 70/196 (35%), Gaps = 16/196 (8%)

Query: 24  HWKVVPIKRFTKLNTGRTSES---GKDIIYIGLEDVESG-TGKYLPKDGNSRQSDTSTVS 79
            W+   +    +   G  ++    G  + ++ L D+      K +P +     S      
Sbjct: 112 DWEEKRLDELGEFKNGFNADKSSFGDGVEFVNLMDIFGKSEIKKIPLERVQISSKQVEQY 171

Query: 80  IFAKGQILYGKL-----GPYLRKAIIADFDGICSTQFLVLQ---PKDVLPELLQGWLLSI 131
              KG +L+ +      G      +  DF+    + F++       ++     +    S+
Sbjct: 172 KIKKGDVLFVRSSVKREGVGQPCLVNDDFEDTVYSGFIIRFREKSSELCHLYKKYCFSSL 231

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
           +  + + ++   +  ++ + + +  I +  P   EQ  I   +      +D  I    R 
Sbjct: 232 EFRKELLSLATSSANTNINQESLSAIILFYPCKKEQEKITGFL----TAMDRKIETLSRQ 287

Query: 192 IELLKEKKQALVSYIV 207
           I+  ++ K+ L+  + 
Sbjct: 288 IDQTEQFKKGLLQKMF 303


>gi|295091337|emb|CBK77444.1| Restriction endonuclease S subunits [Clostridium cf.
           saccharolyticum K10]
          Length = 397

 Score = 77.9 bits (190), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 45/406 (11%), Positives = 109/406 (26%), Gaps = 58/406 (14%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT---STV 78
           P   +   +     ++ G+               ++   G+Y      +           
Sbjct: 13  PDGVEYRKVGDIANISRGKVMSKDF---------LKENAGEYPVYSSQTENEGKLGSINT 63

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
            ++    + +   G               +    V+       ++   + +     +   
Sbjct: 64  YMYDGEYLTWTTDGANAGTVFFRSGKFSVTNVCGVIDNTSEDVDIKYLYYVLN--REAPS 121

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
            +  G          +  I +P+PPL  Q  I   + + T+    L  E     +  +  
Sbjct: 122 YVNSGMGNPKLMSNVMARISLPVPPLEIQREIVRVLDSFTLLTAELTAELTARKKQYEFY 181

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
           +  L+S     G         +  E +G   +    K   +       + ++        
Sbjct: 182 RDKLLS--FDIG---------TRFEKLGDTCNMKAGKAILSA------RISEKPSKITPY 224

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
             +G    +    ++    E              F  I  Q       +    +      
Sbjct: 225 KCFGGNGVRGYVSDVSHHGE--------------FPIIGRQGALCGNVNYATGDFYATEH 270

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
           A +          +L  L+ + +L +       G +  L  ++++ L   VP +  Q  +
Sbjct: 271 AVVVESKGAYLQRFLYHLLTAMNLNQY---KSQGAQPGLAVKNLENLIAPVPKLDVQERL 327

Query: 379 TNVINVETARIDVL-------VEKIEQSIVLLKERRSSFIAAAVTG 417
             V++   +    L       +E  ++        R   +  A TG
Sbjct: 328 VRVLDNFESICTDLNIGLPAEIEARQKQYEY---YRDLLLTFAETG 370


>gi|295135270|ref|YP_003585946.1| hypothetical protein ZPR_3434 [Zunongwangia profunda SM-A87]
 gi|294983285|gb|ADF53750.1| conserved hypothetical protein [Zunongwangia profunda SM-A87]
          Length = 383

 Score = 77.9 bits (190), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 56/380 (14%), Positives = 114/380 (30%), Gaps = 44/380 (11%)

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKL---GPYLRKAII--ADFDGICSTQFLVL---Q 115
           +P   N   ++ S   I   GQ    ++     Y     +   +   I S  + V     
Sbjct: 1   MPSVANVVGTNLSRYLIVEPGQFACNRMHVGRDYRIPVALSEKEKPFIVSPAYDVFEIKD 60

Query: 116 PKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKII 175
           P  +LPE L  W    +  +      +        W    +I +P+P + +Q  I     
Sbjct: 61  PSILLPEYLMMWFRRAEFDRNAWFYTDADVRGGLAWDAFCSIELPVPSIEKQREIAR--- 117

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDS---------GIEWVG 226
            E   +   I       + L+E  QAL  +       P+ + K             E   
Sbjct: 118 -EYNVVKNRIKLNEEINQKLEETAQALYKHWFVDFEFPNTEGKPYKSFGGKLIYNEELDR 176

Query: 227 LVPDHWEVKPFFALVTELNR-------KNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
            +P+ W       +    +        K  +  +           + K           +
Sbjct: 177 EIPEGWIASSIDEICDIQDGDRGKNYPKKEEFSDDGYCLFLNAGNVTKSGFDFSNNSFVN 236

Query: 280 YETYQIVDPG-----EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
            E  +++  G     ++V        +          E   I S  + ++ +   S +L 
Sbjct: 237 KEKDELLRKGKLKRKDVVMTTRGTVGNIGYYNDKLDFENVRINSGMVILR-NPKISFFLY 295

Query: 335 WLMRSYDLCKVFYAM-GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR---ID 390
             M+S ++  +         +  L   D+KR+   +P        +N+I    ++   + 
Sbjct: 296 TKMKSAEMKDLIMNHLSGSAQPQLPITDIKRMEFPLP-----RKGSNLIEKFNSKVTPLQ 350

Query: 391 VLVEKIEQSIVLLKERRSSF 410
             ++     I  L +   S 
Sbjct: 351 NSIDDKNLQIRYLNQL-QSL 369



 Score = 52.9 bits (125), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 23/200 (11%), Positives = 60/200 (30%), Gaps = 15/200 (7%)

Query: 20  AIPKHWKVVPIKRFTKLN---TGRTSESGKDI------IYIGLEDVESGTGKYLPKDGNS 70
            IP+ W    I     +     G+     ++       +++   +V      +      +
Sbjct: 177 EIPEGWIASSIDEICDIQDGDRGKNYPKKEEFSDDGYCLFLNAGNVTKSGFDFSNNSFVN 236

Query: 71  RQSDTSTVS-IFAKGQILYGKLGPYLRKAIIADFDGICSTQF---LVLQPKDVLPELLQG 126
           ++ D         +  ++    G         D     + +    +V+     +   L  
Sbjct: 237 KEKDELLRKGKLKRKDVVMTTRGTVGNIGYYNDKLDFENVRINSGMVILRNPKISFFLYT 296

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
            + S ++   I     G+         I  +  P+P       + EK  ++   +   I 
Sbjct: 297 KMKSAEMKDLIMNHLSGSAQPQLPITDIKRMEFPLPRKGS--NLIEKFNSKVTPLQNSID 354

Query: 187 ERIRFIELLKEKKQALVSYI 206
           ++   I  L + +   +S +
Sbjct: 355 DKNLQIRYLNQLQSLFLSKM 374


>gi|110639720|ref|YP_679930.1| type I site-specific deoxyribonuclease S subunit [Cytophaga
           hutchinsonii ATCC 33406]
 gi|110282401|gb|ABG60587.1| type I site-specific deoxyribonuclease S subunit [Cytophaga
           hutchinsonii ATCC 33406]
          Length = 354

 Score = 77.9 bits (190), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 54/392 (13%), Positives = 113/392 (28%), Gaps = 60/392 (15%)

Query: 23  KHWKVVPIKRFTKLNTGR--TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           + W+   +    ++  G+  ++   K+  + GL     G G        +     S    
Sbjct: 8   EEWEEKTLGEICEMQAGKFVSASEIKEQHFDGLFPCYGGNGLRGYTKSYNYDGKYS---- 63

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
                 L G+ G        A+     +   +V+ P + +  +   +LL+      +   
Sbjct: 64  ------LIGRQGALCGNVNFANGKFHATEHAVVVTPLNGINTVWMFYLLTNL---NLNQF 114

Query: 141 CEGATMSHADWKGIGNIPMPIPP-LAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
             G        + +  +   IP  + EQ  I   +     RI T          L+K   
Sbjct: 115 ATGMAQPGLSVQNLEKVESTIPKAIDEQEKIASFLTLIDGRISTQNKIIKELELLIKSIS 174

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
           Q +                            H       +L +    K  + I S++LS 
Sbjct: 175 QIIFHG-------------------------HRYKFKKASLGSICTIKKGEQINSSVLSE 209

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
           S           N G+ P  Y +        I                    +       
Sbjct: 210 S-----GLYAVMNGGITPSGYYSQYNCVGNTISISEGGNS---CGYVQFNDKKFWSGGHC 261

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
           Y   + +   S    +    +    +          +++ +D+++  V  P I +Q+ I+
Sbjct: 262 YTLSEINAEISNKYLYYFMKFSENLIMSLRVGSGLPNIQKKDLEKFNVAFPEINQQYQIS 321

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
             +++ T +I          +   K  ++S I
Sbjct: 322 KFLDLLTEKI---------QVE--KSLKTSLI 342


>gi|148998186|ref|ZP_01825655.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae SP11-BS70]
 gi|147755829|gb|EDK62873.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae SP11-BS70]
          Length = 364

 Score = 77.9 bits (190), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 43/210 (20%), Positives = 81/210 (38%), Gaps = 12/210 (5%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
            I+    +PD WE   F  LV  +   + + I+  + S   G    K+     G K  + 
Sbjct: 77  EIDVPYDIPDTWEWVRFSTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINN 136

Query: 281 ETYQIVDPG-----EIVFRFIDLQNDKRSLRSAQVMERGIITSAY--MAVKPHGIDSTYL 333
              +I   G      +      L N     R   +   G I   +  ++   + ++  YL
Sbjct: 137 VKEKIKKSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYL 196

Query: 334 AWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            +++ S  +   F ++ SG   ++L  + V  + + +PP+ EQ  I   I     ++D  
Sbjct: 197 FYILSSNVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLAEQQRIIEAIESALEKVDEY 256

Query: 393 VEKIEQSIVLLKE----RRSSFIAAAVTGQ 418
            E   +   L KE     + S +  A+ G+
Sbjct: 257 AESYNRLEQLDKEFPDKLKKSILQYAMQGK 286



 Score = 71.4 bits (173), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 44/214 (20%), Positives = 82/214 (38%), Gaps = 13/214 (6%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNSR 71
            IP  W+ V      ++  G +    KD        I +I + D E G           +
Sbjct: 83  DIPDTWEWVRFSTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINNVKEKIK 142

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
           +S  +      KG  L      + R  I+     I      +   ++ L +    ++LS 
Sbjct: 143 KSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYLFYILSS 202

Query: 132 D-VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
           + V  +  ++  GA + + +   + +I +P+PPLAEQ  I E I +   ++D       R
Sbjct: 203 NVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLAEQQRIIEAIESALEKVDEYAESYNR 262

Query: 191 FIELLKEKK----QALVSYIVTKGLNPDVKMKDS 220
             +L KE      ++++ Y +   L       +S
Sbjct: 263 LEQLDKEFPDKLKKSILQYAMQGKLVEQDPNDES 296


>gi|57242480|ref|ZP_00370418.1| Type I restriction modification DNA specificity domain, putative
           [Campylobacter upsaliensis RM3195]
 gi|57016765|gb|EAL53548.1| Type I restriction modification DNA specificity domain, putative
           [Campylobacter upsaliensis RM3195]
          Length = 185

 Score = 77.9 bits (190), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 23/162 (14%), Positives = 56/162 (34%), Gaps = 5/162 (3%)

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPES-YETYQIVDPGEIVFRFIDLQNDKRSLRS 307
                 N + ++  +    +  +   LK +      Q V  G+++   +       ++  
Sbjct: 18  DNYEFMNYIDIASVSKEIGVIEKMKFLKSDFPSRARQRVFKGDLLISSLSGSQKAIAIVK 77

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLP 366
                    T  ++          +L  L+R++   ++     SG    S+  ++   L 
Sbjct: 78  NDEKNLIASTGFFIISNAADCLKEFLMDLLRTHFFQELLMRESSGAIMASINQKEFLNLK 137

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
           + +PP+ EQ  I   I+   A         +++  LL+  + 
Sbjct: 138 IPLPPLTEQERIAKEISQRKA---NAKALKQEAKELLENAKK 176



 Score = 47.5 bits (111), Expect = 0.004,   Method: Composition-based stats.
 Identities = 39/181 (21%), Positives = 68/181 (37%), Gaps = 5/181 (2%)

Query: 28  VPIKRFTKLNTGR-TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQI 86
           V +    ++NT     ++ + + YI +  V    G             +       KG +
Sbjct: 2   VRLGEIARVNTKLENIDNYEFMNYIDIASVSKEIGVIEKMKFLKSDFPSRARQRVFKGDL 61

Query: 87  LYGKLGPYLRKAIIADFDG---ICSTQ-FLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           L   L    +   I   D    I ST  F++    D L E L   L +    + +     
Sbjct: 62  LISSLSGSQKAIAIVKNDEKNLIASTGFFIISNAADCLKEFLMDLLRTHFFQELLMRESS 121

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           GA M+  + K   N+ +P+PPL EQ  I ++I         L  E    +E  K++ + +
Sbjct: 122 GAIMASINQKEFLNLKIPLPPLTEQERIAKEISQRKANAKALKQEAKELLENAKKEVEQI 181

Query: 203 V 203
           +
Sbjct: 182 I 182


>gi|167767087|ref|ZP_02439140.1| hypothetical protein CLOSS21_01605 [Clostridium sp. SS2/1]
 gi|167711062|gb|EDS21641.1| hypothetical protein CLOSS21_01605 [Clostridium sp. SS2/1]
          Length = 425

 Score = 77.9 bits (190), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 47/403 (11%), Positives = 111/403 (27%), Gaps = 21/403 (5%)

Query: 30  IKRFTKLNTGRTSES---GKDIIYIGLEDVESGTGKYLPK-DGNSRQSDTSTVSIFAKGQ 85
           +     +++G +S     G    ++  + V +         D                G 
Sbjct: 25  LSELYDMSSGISSTKEQSGHGAPFVSFKTVFNNYFLPEELPDLMDTNEKEQETYSIKMGD 84

Query: 86  ILYGKLGPYLR-----KAIIADFDGICSTQFLVL----QPKDVLPELLQGWLLSIDVTQR 136
           +   +    +         + ++ G   + F+        + V P+ +  +  S    + 
Sbjct: 85  VFITRTSETIDELAMSCVAVKNYPGATYSGFIKRLRPKTARIVYPKYMAFYFRSELFRKA 144

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           +         +  +      + + +P   EQV I + + +   +I           E+  
Sbjct: 145 VTNNAFMTLRASFNKDIFTFLDIYLPDYHEQVKIGDMLYSIECKIQKNKKINDYLEEMAN 204

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
                          N     K SG E       +  +   +   +  N       +   
Sbjct: 205 TIYDYWFVQFDFPDEN-GRPYKSSGGEMTFCKELNQNIPQNWGYTSVGNITVCFDSDRIP 263

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ-VMERGI 315
           LS      ++             Y    I     ++        D       Q +     
Sbjct: 264 LSNHQRQEMKGTIPYYGATGIMDYVNCAIFSGDFVLLAEDGSVMDDNGNPILQRISGDVW 323

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
           I +    ++P    S  L +L+       +       ++  +   ++    +L  P   +
Sbjct: 324 INNHTHVLQPVNGYSCRLLYLLLKDIPVSMIK--TGSIQMKINQANLNSYNILNIPDGIR 381

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
               N I      ID  + +I++    LK+ R+  +   + GQ
Sbjct: 382 SRFINQIE----PIDTKIIQIQKENDNLKQIRNWLLPMLMNGQ 420


>gi|315222637|ref|ZP_07864526.1| type I restriction modification DNA specificity domain protein
           [Streptococcus anginosus F0211]
 gi|315188323|gb|EFU22049.1| type I restriction modification DNA specificity domain protein
           [Streptococcus anginosus F0211]
          Length = 357

 Score = 77.9 bits (190), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 63/389 (16%), Positives = 123/389 (31%), Gaps = 46/389 (11%)

Query: 27  VVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQI 86
            V +                 I  +GLE +            ++     S    F+KG +
Sbjct: 5   TVKLGDIAIEAKSSNKGDKTGIRIVGLEHLTPSNVTLSSWSDDTEN---SFTKEFSKGDV 61

Query: 87  LYGKLGPYLRKAIIADFDGICSTQFLVLQP--KDVLPELLQGWLLSIDVTQRIEAICEGA 144
           L+G+   YL+KA +A FDGICS    V++     V P+LL   + +  +         G+
Sbjct: 62  LFGRRRAYLKKAAVAPFDGICSGDITVIRAIEDKVDPDLLPFIIQNDFLFDFAVGKSAGS 121

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
                 W  +    + +P + EQ  + E + +     +       +  EL+         
Sbjct: 122 LSPRVKWTHLKEFAIELPSMPEQSKLAETLWSINETKNAYEDLINKTDELV--------- 172

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
                        K   IEW G   +  E+     +          ++E ++  ++ G  
Sbjct: 173 -------------KSQFIEWFGNEKNTAELGECAFIEKGKIITRDNVVEGDVPVVAAG-- 217

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
                     ++P  Y        G I             +    +       +  +   
Sbjct: 218 ----------IEPSCYHNESNRMAGIITVSASGAN--AGYVNYWNMPIFASDCNTVLTKD 265

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
            + +D  +L   +R+          GSG +  +  +D++ + V VP +  Q   +     
Sbjct: 266 TNKLDEVFLYHRLRTMQEEIFLMQRGSG-QPHVYAKDLEHIIVPVPNMDAQIRFSAFAEQ 324

Query: 385 ETARIDVLVEKIEQSIVLLKERRSSFIAA 413
                D     ++++I  L       IA 
Sbjct: 325 S----DKSKFALQEAIKDLDALSKKIIAE 349


>gi|26991425|ref|NP_746850.1| type I restriction-modification system, S subunit [Pseudomonas
           putida KT2440]
 gi|24986497|gb|AAN70314.1|AE016672_5 type I restriction-modification system, S subunit [Pseudomonas
           putida KT2440]
          Length = 576

 Score = 77.9 bits (190), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 68/496 (13%), Positives = 141/496 (28%), Gaps = 103/496 (20%)

Query: 20  AIPKHWKVVPIKRFTK---------LNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNS 70
            +P  W                   L  G   +    + ++ + D++     + P+   S
Sbjct: 83  ELPTTWIWTSFDDLINPEYPIAYGVLVPG--PDVADGVPFVRIADLDLVAPPHKPEKSIS 140

Query: 71  RQSDTS-TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQ--FLVLQPKDVLPELLQGW 127
            + D     +    G+IL G +G   +  I  +     +       + P   + +    W
Sbjct: 141 PEVDRQYERTRIRGGEILMGVVGSIGKLGIAPESWAGANIARAICRVVPSVHVSKDYIIW 200

Query: 128 LLSID-VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK------------- 173
           LL  D + ++             +   I +   P+PPLAEQ  I  K             
Sbjct: 201 LLQSDLMRKQFLGDTRTLAQPTLNVGLIRSAAAPLPPLAEQHRIVAKVEELMALCDRLEA 260

Query: 174 ----------------IIAETVRID------------TLITERIRFIELLKEKKQALVSY 205
                           + + T  ID                        +   K+ L+  
Sbjct: 261 QQADAESAHVQLVQAMLDSLTQAIDAADFATSWQRLAEHFHTLFTNEFAIDALKKTLLQL 320

Query: 206 IVTKGLNPDVKMKDSGIEWV-------------------------------GLVPDHWEV 234
            V   L P     +S  E +                                 +P  W+ 
Sbjct: 321 AVMGKLVPQDVTDESASELLKRIEGEKQRLVNEGLMKKQKPLVESTSGQIKPALPSSWKW 380

Query: 235 KPFFALVTELNRKNTK---------LIESNILSLSYGNIIQKLETRNMGLKPESYET-YQ 284
            P   + T ++   +               +L  +   ++  L+  N  L          
Sbjct: 381 VPLLDITTGMDSGWSPACLGNSSPSDDVWGVLKTTAVQVMSYLQHENKELPSHLEPRPEA 440

Query: 285 IVDPGEIVFRFIDLQNDKRS-LRSAQVMERGIITSAYMAVKPHG--IDSTYLAWLMRSYD 341
               G+I+F      N             + +I+   +   P    +   ++A  + + +
Sbjct: 441 ETKVGDILFTRAGPMNRVGISCLVESTRPKLMISDKIIRFHPVELGVYGRFVALCLNAGE 500

Query: 342 LCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
             K      SG+   + ++  E ++  P+ + P++EQ  I   ++      D L ++I  
Sbjct: 501 TAKYLEQAKSGMAASQVNISQEKLRLAPIPLAPLREQHRIVTKVDQLMKLCDTLKQQINV 560

Query: 399 SIVLLKERRSSFIAAA 414
           +     E   + +A  
Sbjct: 561 ARSKQTELLDTLMAQV 576


>gi|329114036|ref|ZP_08242800.1| Putative type-1 restriction enzyme MjaXP specificity protein
           [Acetobacter pomorum DM001]
 gi|326696575|gb|EGE48252.1| Putative type-1 restriction enzyme MjaXP specificity protein
           [Acetobacter pomorum DM001]
          Length = 439

 Score = 77.9 bits (190), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 55/431 (12%), Positives = 129/431 (29%), Gaps = 38/431 (8%)

Query: 25  WKVVPIKRFTKLNTGR--TSES-GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           W +  I     +  G   T ++     I++G++ ++ G          + +         
Sbjct: 12  WPLSTISAVADVFDGPHATPKTIDHGAIFLGIDSLDHGRLNLSSTRHVTNEDFKKWTKRV 71

Query: 82  AK--GQILYGKLGPYLRKAIIADFDGICST---QFLVLQPKDVLPELLQGWLLSIDVTQR 136
               G I++         AII +    C       +      +  +    + +S    ++
Sbjct: 72  KPEAGDIVFSYETRLGEVAIIPEGLVCCLGRRMALIRTDRSVLNEKFFLYYFMSPQFQEQ 131

Query: 137 IEAI-CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
           I      GAT+     K   +  + +PPL EQ  I   + +   +ID           + 
Sbjct: 132 IRKNTINGATVDRIPLKEFPSFKLELPPLDEQHTIASILGSLDDKIDLNRRTNETLEAMA 191

Query: 196 KEKKQALV-----SYIVTKGLNPD--VKMKDSGIEWVGL--VPDHWEVKPFFA-LVTELN 245
           +   +        +     G  P    ++ +   + +     P+ W+  P     +   +
Sbjct: 192 RALFRDWFVDFGPTRAKMAGEAPYLAPELWELFPDRLDDEGNPEGWQSWPLADLAILSKS 251

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
             N                  K    ++    E       V    I+   ++ +  +  +
Sbjct: 252 SINPAQFSDEYFLHFSLPAFDKGMMPDLVKGEEIKSGKFSVSSNSILLSKLNPETPRVWM 311

Query: 306 RSAQVMERG-IITSAYMAVKPHGIDSTYLAWL-MRSYDLCKVFYAMGSGLRQSLKFEDVK 363
            +A       I ++ +M + P   D   L +    S    +    M +G  +S +     
Sbjct: 312 VTAHEEPYQRICSTEFMVLNPLQKDWLALIYCACLSQPFRETLQGMVTGTSKSHQRVQ-- 369

Query: 364 RLPVLVPPIKE-QFDITNVINVETARID-------VLVEKIEQSIVLLKERRSSFIAAAV 415
                  P+   Q  + +  ++   + D         +         L + R   +   +
Sbjct: 370 -------PLAVMQTHLLHATDILMRQFDLTAQPLLAKMNFNRNESNTLAQLRDLLLPKLM 422

Query: 416 TGQIDLRGESQ 426
           +G+I +R   +
Sbjct: 423 SGEISIRDAEK 433



 Score = 37.1 bits (84), Expect = 4.9,   Method: Composition-based stats.
 Identities = 29/151 (19%), Positives = 55/151 (36%), Gaps = 13/151 (8%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSE---SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           P+ W+  P+     L+    +    S +  ++  L   + G    L K    +    S  
Sbjct: 234 PEGWQSWPLADLAILSKSSINPAQFSDEYFLHFSLPAFDKGMMPDLVKGEEIKSGKFS-- 291

Query: 79  SIFAKGQILYGKLGPYLRKAII-----ADFDGICSTQFLVLQPKDVLP-ELLQGWLLSID 132
              +   IL  KL P   +  +       +  ICST+F+VL P       L+    LS  
Sbjct: 292 --VSSNSILLSKLNPETPRVWMVTAHEEPYQRICSTEFMVLNPLQKDWLALIYCACLSQP 349

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPP 163
             + ++ +  G + SH   + +  +   +  
Sbjct: 350 FRETLQGMVTGTSKSHQRVQPLAVMQTHLLH 380


>gi|29349951|ref|NP_813454.1| putative type I restriction enzyme specificity protein [Bacteroides
           thetaiotaomicron VPI-5482]
 gi|29341862|gb|AAO79648.1| putative type I restriction enzyme specificity protein [Bacteroides
           thetaiotaomicron VPI-5482]
          Length = 381

 Score = 77.9 bits (190), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 31/194 (15%), Positives = 70/194 (36%), Gaps = 10/194 (5%)

Query: 223 EWVGLVPDHWEVKPFFALV---TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
           E+ G   +H   +          +  R  + L   +++ +    +I     R      E 
Sbjct: 11  EFSGEWEEHTLSEYLEFKNGLNPDAKRIGSGLPFISVMDILSEGVINYDNIRGKVNATEK 70

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH--GIDSTYLAWLM 337
                 V  G+++F+      +     +  +  R  I   ++         D  +  +L+
Sbjct: 71  EIECFGVKDGDLLFQRSSETLEDVGRANVYMDNRTAIYGGFVIRGRKIGNYDPLFFKYLL 130

Query: 338 RSYDLCKVFYAMGSGLRQ-SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
            +    K    MG+G +  ++  E + ++ +  P I+EQ  I   +    + ID  +   
Sbjct: 131 ATPLARKRTCRMGAGAQHFNIGQEGLSKISLYFPSIEEQRKIAEFL----SLIDERIATQ 186

Query: 397 EQSIVLLKERRSSF 410
            + I  LK+ +S+ 
Sbjct: 187 NKIIEDLKKLKSAI 200



 Score = 75.6 bits (184), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 44/401 (10%), Positives = 107/401 (26%), Gaps = 48/401 (11%)

Query: 24  HWKVVPIKRFTKLNTGRTSES---GKDIIYIGLEDV-ESGTGKYLPKDGNSRQ-SDTSTV 78
            W+   +  + +   G   ++   G  + +I + D+   G   Y    G           
Sbjct: 15  EWEEHTLSEYLEFKNGLNPDAKRIGSGLPFISVMDILSEGVINYDNIRGKVNATEKEIEC 74

Query: 79  SIFAKGQILYGKLGPY----LRKAIIADFDGICSTQFLVLQPK--DVLPELLQGWLLSID 132
                G +L+ +         R  +  D        F++   K  +  P   +  L +  
Sbjct: 75  FGVKDGDLLFQRSSETLEDVGRANVYMDNRTAIYGGFVIRGRKIGNYDPLFFKYLLATPL 134

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
             +R   +  GA   +   +G+  I +  P + EQ  I E +     RI T         
Sbjct: 135 ARKRTCRMGAGAQHFNIGQEGLSKISLYFPSIEEQRKIAEFLSLIDERIATQNKIIEDLK 194

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           +L       ++        +   + K   I  +G            + +    +K+    
Sbjct: 195 KLKSAISLNVLHS------DKWEQFKIKDIAQIG-------RGRVISSIEIGQQKSPTY- 240

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
                  S       +         E                              +  +
Sbjct: 241 ----PVYSSQTSNDGIMGYLDDYMFEGEYISW------------TTDGANAGTVFYRNGK 284

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI 372
                   +       D+ +++ ++       V   + +     L    +  + + +P +
Sbjct: 285 FNCTNVCGLLKLRKEFDTHFVSLVLAEATKKYVSINLAN---PKLMNNTMGNIQIRLPKL 341

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           +EQ  I    ++    +  L       +    ++    ++ 
Sbjct: 342 EEQKRI----SIVFRVLQRLWTVHNSLLTEYTKQEQYLLSQ 378


>gi|193070100|ref|ZP_03051046.1| HsdS protein [Escherichia coli E110019]
 gi|218561524|ref|YP_002394437.1| type I restriction-modification system (hsdS-like) [Escherichia
           coli S88]
 gi|4210350|emb|CAA10700.1| HsdS protein [Escherichia coli]
 gi|192956553|gb|EDV87010.1| HsdS protein [Escherichia coli E110019]
 gi|218368293|emb|CAR06111.1| type I restriction-modification system (hsdS-like) [Escherichia
           coli S88]
          Length = 463

 Score = 77.9 bits (190), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 58/445 (13%), Positives = 126/445 (28%), Gaps = 50/445 (11%)

Query: 20  AIPKHWKVVPIKRFTK---LNTGRTSES---GKDIIYIGLEDVESGTGKYLPK-DGNSRQ 72
            +P  W    +   TK   ++ G           I  I + ++++G          +   
Sbjct: 7   KLPLGWNCKKLVDCTKEGNISYGIVQPGQHQEDGIGIIRVNNIQNGNIYIDDVLKVSHEI 66

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIAD--FDGICSTQFLVLQPKDVLPELLQGWLLS 130
                 +    G++L   +G     AI          +    V++P D +        L 
Sbjct: 67  ESKFAKTRLEGGEVLLTLVGSTGISAITTKALQGWNVARAVAVIKPCDEISAEWIHICLQ 126

Query: 131 IDVTQRI-EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
              T+   ++          + K +  IP+PIPP  E+V + +       RI+  I    
Sbjct: 127 SPFTKYFLDSRANTTVQKTLNLKDVKEIPLPIPPHEERVSLEKIYFNFENRINLNIKINK 186

Query: 190 RFIELLKEKKQALVSYI---VTKGLNPDVK------------------------------ 216
              E+ +   ++        V   L+                                  
Sbjct: 187 ILEEMSQNLFKSWFVDFDPVVDNALDAGNPIPEALQSRAELRQKVRNSADFKPLPAEIRS 246

Query: 217 MKDSGIEW--VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMG 274
           +  S  E   +G +P  W++K    +    N    +      +   Y  +++  + R   
Sbjct: 247 LFPSEFEETELGWMPKGWQIKSLDHIANFQNGLALQKFRPKNMEDDYLPVLKIADLRAGQ 306

Query: 275 LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA-YMAVKPHGIDSTYL 333
           +  +      I D  ++    +        +          +    Y         S Y 
Sbjct: 307 ITNDERARTDISDSCKVYDGDMIFSWSGTLMIDIWTGGNAALNQHLYKVTSKKYPQSFYF 366

Query: 334 AWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
            W ++     +      +     +K  D+     L+P         N++    A+I    
Sbjct: 367 MWTIQHLSRFQHIAEAKAVTMGHIKKGDLSNSFCLIPTSSLITKYDNIVGGYLAKIKNQR 426

Query: 394 EKIEQSIVLLKERRSSFIAAAVTGQ 418
               Q    +   R + +   ++G+
Sbjct: 427 LLNNQ----MTALRDTLLPKLISGE 447



 Score = 59.4 bits (142), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 24/194 (12%), Positives = 54/194 (27%), Gaps = 12/194 (6%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVESGTGKYLPKDGNS 70
           +G +PK W++  +        G   +           +  + + D+ +G       +   
Sbjct: 257 LGWMPKGWQIKSLDHIANFQNGLALQKFRPKNMEDDYLPVLKIADLRAGQI----TNDER 312

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
            ++D S       G +++   G  +        +   +     +  K         W + 
Sbjct: 313 ARTDISDSCKVYDGDMIFSWSGTLMIDI-WTGGNAALNQHLYKVTSKKYPQSFYFMWTIQ 371

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
                +  A  +  TM H     + N    IP  +        +     +I        +
Sbjct: 372 HLSRFQHIAEAKAVTMGHIKKGDLSNSFCLIPTSSLITKYDNIVGGYLAKIKNQRLLNNQ 431

Query: 191 FIELLKEKKQALVS 204
              L       L+S
Sbjct: 432 MTALRDTLLPKLIS 445


>gi|282933739|ref|ZP_06339094.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus jensenii 208-1]
 gi|281302118|gb|EFA94365.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus jensenii 208-1]
          Length = 401

 Score = 77.9 bits (190), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 50/398 (12%), Positives = 134/398 (33%), Gaps = 18/398 (4%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           WK V ++  ++   G  +++  ++  + +        +     G+         ++  KG
Sbjct: 14  WKKVKLEEISERVNG--NDNRFNLPVLTISAKTGWMTQEDRFSGDISGKQKKNYTLLHKG 71

Query: 85  QILYG----KLGPYLRKAIIADFDGICSTQFLVLQ--PKDVLPELLQGWLLSIDVTQRIE 138
           ++ Y     K+  Y     + ++               K+  P  ++ +    DV +++ 
Sbjct: 72  ELSYNHGNSKVAKYGAVFSLQNYSEALIPHVYHSFKIIKETTPVFIENFFKKKDVNKQLR 131

Query: 139 AICEGATMSH-ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
                +            +       +++++   ++I      +++L++ + R +EL+K+
Sbjct: 132 KYISSSARMDGLLNISYSDFMKVHLFISQKISETKQIDKIFEILNSLLSLQQRKLELMKQ 191

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
             + L+  + T+  +P++ +K +   W  +              T   R N   I    +
Sbjct: 192 LYRYLLENLNTEKKHPNIFIKGNYSHWNKVKLSDLGEIRTGKTPTPSVRSNYTNIGMPFV 251

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
           + +    +    T +  +     +  QI   G I+   I        +      E+    
Sbjct: 252 TPTEIVDLYNYNT-SRFISNSGLKKAQIAPKGSILVTCIASIGKNTCVFK----EKVAFN 306

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFD 377
               AV P+  + +            ++     +   Q +  +D   +  +VP + EQ D
Sbjct: 307 QQINAVTPNSFNDSTFLAFKSLQWSKRIDCLTANTAMQIINKKDFSNIETMVPNLNEQKD 366

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           I+ +     +    L  K   +  L+   +   +    
Sbjct: 367 ISKIWLKSYS----LTYKYSDAKKLIIRLKKFLLQNLF 400



 Score = 61.7 bits (148), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 37/186 (19%), Positives = 60/186 (32%), Gaps = 6/186 (3%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESG--KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS- 79
            HW  V +    ++ TG+T       +   IG+  V       L     SR    S +  
Sbjct: 216 SHWNKVKLSDLGEIRTGKTPTPSVRSNYTNIGMPFVTPTEIVDLYNYNTSRFISNSGLKK 275

Query: 80  --IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
             I  KG IL   +    +   +       + Q   + P          +  S+  ++RI
Sbjct: 276 AQIAPKGSILVTCIASIGKNTCVFKEKVAFNQQINAVTPNSFNDSTFLAFK-SLQWSKRI 334

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           + +     M   + K   NI   +P L EQ  I +  +            +   I L K 
Sbjct: 335 DCLTANTAMQIINKKDFSNIETMVPNLNEQKDISKIWLKSYSLTYKYSDAKKLIIRLKKF 394

Query: 198 KKQALV 203
             Q L 
Sbjct: 395 LLQNLF 400


>gi|169350755|ref|ZP_02867693.1| hypothetical protein CLOSPI_01528 [Clostridium spiroforme DSM 1552]
 gi|169292618|gb|EDS74751.1| hypothetical protein CLOSPI_01528 [Clostridium spiroforme DSM 1552]
          Length = 647

 Score = 77.9 bits (190), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 49/386 (12%), Positives = 105/386 (27%), Gaps = 37/386 (9%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIY-IGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            W+   +   T L+  +   +     Y I  E       K   + G  + +D    +I +
Sbjct: 188 DWEQRKLGDCTFLSGKKNKNNLNLEPYAITNEHGFIPQNKAHDEFGYMKDTDRRAYNIVS 247

Query: 83  KGQILYGKLGPYLRKAIIAD--FDGICSTQFLVLQP-KDVLPELLQGWLLSIDVTQRIEA 139
           K    Y      +          + I S+ + V Q    V    L  W  + D    I  
Sbjct: 248 KNSFAYNPARINIGSIGYYKGTENVIISSLYEVFQTVDSVYDPFLWQWFKTKDFQNWIIR 307

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
           + EG+   +  +  +    + +P L EQ+ I     A    I     + +   + +    
Sbjct: 308 LQEGSVRLYFYYDKLCECIIRMPKLEEQIKIANYFEALDNLITLHQWKCMISRKNIVYAW 367

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
                                    +G +    +           +      +    + +
Sbjct: 368 ---------------------EQRKLGKIFVSMQNNTLSRADLSYDSGVAMNVHYGDILV 406

Query: 260 SYGNIIQKLETRNMGLKPE---SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
            +G ++     R   +  E          +  G+I+                  +    +
Sbjct: 407 KFGEVLDIKSERLPMIVDETVLDKYKSSFLKNGDIIIADTAEDETVGKCTEIAGLSDEYV 466

Query: 317 TSAYMAVKPHGIDST---YLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVP-P 371
            S    +    +      YL + M S         +  G+   S+    ++   ++ P  
Sbjct: 467 ISGLHTIPYRPLQKFAFGYLGYYMNSTSYHNQLLPLMQGIKVTSISKVSLQNTVIIYPKS 526

Query: 372 IKEQFDITNVINVETARIDVLVEKIE 397
             EQ  I          +D L+   +
Sbjct: 527 KVEQAAIGKY----FYNLDNLITLHQ 548



 Score = 65.6 bits (158), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 43/385 (11%), Positives = 100/385 (25%), Gaps = 48/385 (12%)

Query: 25  WKVVPIKRFTKLNTGRTSES-----GKDIIYIGLEDVE--SGTGKYLPKDGNSRQSDTST 77
           W+   +      ++G    +      + I +  + D+       +    +    +   + 
Sbjct: 5   WEQRKLGEIGSASSGVGFPNSEQGGKEGIPFYKVSDMNLEGNEIEMTVSNNYVTKEQIAR 64

Query: 78  VSIFAKGQI---LYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
                   +    + K+G  +                  +            +  +    
Sbjct: 65  KKWSPLNDVPAMYFAKVGAAVMLNRKRLCRFPFLFDNNTMAYSLNKEYWDINFAKAEFAK 124

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             +  + +   +   +   + +I + IP L EQ  I          I     + +     
Sbjct: 125 IDLTKLVQVGALPSYNANDVESIKIMIPSLFEQSKIGNYFDELDRLITLHQRKIL----- 179

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
                           L+      D     +G             L  + N+ N  L   
Sbjct: 180 ----------------LDKYFLTIDWEQRKLGD---------CTFLSGKKNKNNLNLEPY 214

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
            I +        K       +K      Y IV      +     + +  S+   +  E  
Sbjct: 215 AITNEHGFIPQNKAHDEFGYMKDTDRRAYNIVSKNSFAYNP--ARINIGSIGYYKGTENV 272

Query: 315 IITSAYMAVKPHGIDSTYLAW-LMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPI 372
           II+S Y   +          W   ++ D       +    +R    ++ +    + +P +
Sbjct: 273 IISSLYEVFQTVDSVYDPFLWQWFKTKDFQNWIIRLQEGSVRLYFYYDKLCECIIRMPKL 332

Query: 373 KEQFDITNVINVETARIDVLVEKIE 397
           +EQ  I N        +D L+   +
Sbjct: 333 EEQIKIANYFEA----LDNLITLHQ 353



 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 24/148 (16%), Positives = 52/148 (35%), Gaps = 15/148 (10%)

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
             +  +    G + E   +   V   +I  +     ND  ++  A+V    ++    +  
Sbjct: 35  FYKVSDMNLEGNEIEMTVSNNYVTKEQIARKKWSPLNDVPAMYFAKVGAAVMLNRKRLCR 94

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYA-----------MGSGLRQSLKFEDVKRLPVLVPPI 372
            P   D+  +A+ +        F             +  G   S    DV+ + +++P +
Sbjct: 95  FPFLFDNNTMAYSLNKEYWDINFAKAEFAKIDLTKLVQVGALPSYNANDVESIKIMIPSL 154

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSI 400
            EQ  I N  +     +D L+   ++ I
Sbjct: 155 FEQSKIGNYFD----ELDRLITLHQRKI 178


>gi|126452645|ref|YP_001064383.1| restriction endonuclease S subunits [Burkholderia pseudomallei
           1106a]
 gi|242315787|ref|ZP_04814803.1| type I site-specific deoxyribonuclease [Burkholderia pseudomallei
           1106b]
 gi|126226287|gb|ABN89827.1| : Restriction endonuclease S subunits [Burkholderia pseudomallei
           1106a]
 gi|242139026|gb|EES25428.1| type I site-specific deoxyribonuclease [Burkholderia pseudomallei
           1106b]
          Length = 315

 Score = 77.9 bits (190), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 44/307 (14%), Positives = 102/307 (33%), Gaps = 30/307 (9%)

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
               G++    +   +    +   P  EQ  I E +      I   +    +        
Sbjct: 11  RNAVGSSYPALNDSDVRRFLIFAAPYREQEKIAEILDTLDTAIRETVVIIAKLKL----V 66

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIE--------WVGLVPDHWEVKPFFALVTELNRKNTK 250
           K+ L+  ++T+G++ + +++    E         +G +P  WEV    ++++EL +  + 
Sbjct: 67  KRGLLHDLLTRGIDNNGELRPPPSEAPDLYIQSSLGWMPKEWEVVRLESVLSELGQGWSP 126

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQI---------VDPGEIVFRFIDLQND 301
              +     +   I++       G      +   I         V  G+I+       N 
Sbjct: 127 DCPAESAGANEWGILKTTSIVWDGYNENENKRLPISLKPRPALEVASGDILITRAGPMNR 186

Query: 302 KRSLRSAQVMER--GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL---RQS 356
              +       +   I    Y         S Y A  + S           SG+   + +
Sbjct: 187 VGVVAHVFGTRKKLMISDKMYRLRLLKSEVSAYFALALASTYAQDAISRTISGMAESQTN 246

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           +    ++ L +  P   EQ +I   + +   R+         S+  L++++S  +   + 
Sbjct: 247 ISQSVIRNLAIFRPKATEQGEIVERVRILDERL----AGEALSLHKLQKQKSGLVDDLLL 302

Query: 417 GQIDLRG 423
           G++ +  
Sbjct: 303 GRVRVTP 309



 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/80 (18%), Positives = 29/80 (36%), Gaps = 4/80 (5%)

Query: 337 MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
           M S    +           +L   DV+R  +   P +EQ  I  +++     +D  + + 
Sbjct: 1   MSSAVTAQAVRNAVGSSYPALNDSDVRRFLIFAAPYREQEKIAEILDT----LDTAIRET 56

Query: 397 EQSIVLLKERRSSFIAAAVT 416
              I  LK  +   +   +T
Sbjct: 57  VVIIAKLKLVKRGLLHDLLT 76



 Score = 44.0 bits (102), Expect = 0.043,   Method: Composition-based stats.
 Identities = 17/96 (17%), Positives = 32/96 (33%), Gaps = 7/96 (7%)

Query: 18  IGAIPKHWKVVPIKRF-TKLNTGRTSE------SGKDIIYIGLEDVESGTGKYLPKDGNS 70
           +G +PK W+VV ++   ++L  G + +         +   +    +              
Sbjct: 101 LGWMPKEWEVVRLESVLSELGQGWSPDCPAESAGANEWGILKTTSIVWDGYNENENKRLP 160

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGI 106
                      A G IL  + GP  R  ++A   G 
Sbjct: 161 ISLKPRPALEVASGDILITRAGPMNRVGVVAHVFGT 196


>gi|218510288|ref|ZP_03508166.1| putative Type I restriction enzyme ecoeispecificity protein
           [Rhizobium etli Brasil 5]
          Length = 472

 Score = 77.9 bits (190), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 32/244 (13%), Positives = 63/244 (25%), Gaps = 54/244 (22%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG------NIIQKLETRNMGLKPESY 280
             P  W       +    N   +K   S    +S G        +        G+   S 
Sbjct: 83  EEPKGWCWVTANDVWEFENGDRSKNYPSRDHFISDGVPFVNAGHLMNERVSFDGMNYISE 142

Query: 281 ETYQIV-----DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
           E +  +       G+ ++              +      I +S  +          +L  
Sbjct: 143 EKFNNLSGGKLRKGDQIYCLRGSLGKHA--VYSFDRPAAIASSLVILRPMLSESVPFLKL 200

Query: 336 LMRSYDLCKVFYAM-GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
            + S     +         + +L   ++K   + +PP+ EQ+ I   ++   A  D L  
Sbjct: 201 YLSSDIAFSMLKRYDNGTAQPNLSSANLKLFEIPLPPLAEQYRIVAKVDELMALCDELEA 260

Query: 395 ---KIEQSIVLL-------------------------------------KERRSSFIAAA 414
              + E     L                                     K+ R + +  A
Sbjct: 261 ARTEREAKRDRLAASSVARLNNPDPETFRDDARFALDALQALTARPNQIKQLRQTILNLA 320

Query: 415 VTGQ 418
           V G+
Sbjct: 321 VRGK 324



 Score = 55.6 bits (132), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 27/173 (15%), Positives = 55/173 (31%), Gaps = 11/173 (6%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSES--------GKDIIYIGLEDVESGTGKYLP-KDGNSRQ 72
           PK W  V      +   G  S++           + ++    + +    +      +  +
Sbjct: 85  PKGWCWVTANDVWEFENGDRSKNYPSRDHFISDGVPFVNAGHLMNERVSFDGMNYISEEK 144

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAII--ADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
            +  +     KG  +Y   G   + A+        I S+  ++          L+ +L S
Sbjct: 145 FNNLSGGKLRKGDQIYCLRGSLGKHAVYSFDRPAAIASSLVILRPMLSESVPFLKLYLSS 204

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
                 ++    G    +     +    +P+PPLAEQ  I  K+       D 
Sbjct: 205 DIAFSMLKRYDNGTAQPNLSSANLKLFEIPLPPLAEQYRIVAKVDELMALCDE 257



 Score = 43.2 bits (100), Expect = 0.069,   Method: Composition-based stats.
 Identities = 10/77 (12%), Positives = 24/77 (31%), Gaps = 4/77 (5%)

Query: 21  IPKHWKVVPIKRFTKLN----TGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           IP  W    +           + ++  S   +  + + +++ G+  +         SD  
Sbjct: 373 IPSSWTWGRVGDAVLFTQYGTSQKSHVSQSGVPVLTMGNIQDGSVIWGNDKRIPESSDDL 432

Query: 77  TVSIFAKGQILYGKLGP 93
                 K  +LY +   
Sbjct: 433 PALYLKKFDLLYNRTNS 449


>gi|254416678|ref|ZP_05030429.1| Type I restriction modification DNA specificity domain protein
           [Microcoleus chthonoplastes PCC 7420]
 gi|196176644|gb|EDX71657.1| Type I restriction modification DNA specificity domain protein
           [Microcoleus chthonoplastes PCC 7420]
          Length = 272

 Score = 77.9 bits (190), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 41/165 (24%), Positives = 71/165 (43%), Gaps = 2/165 (1%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRT-SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
            +P  W+ V       + +     ES  +  +I  + +E GTG+ L  +       TS  
Sbjct: 83  ELPYGWEWVRFDSVATIQSNLVKPESYSNYPHIAPDKIEKGTGRLLDCNTIQEDGVTSPK 142

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
             F  GQILY K+ P L KA++ DF+G+CS     ++   +    L  ++L+    + + 
Sbjct: 143 HFFFSGQILYSKIRPNLSKAVVIDFEGLCSADMYPIKA-YIYTRYLHFYILTGTFLELVV 201

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
                  +   + + + N  +P+PPL EQ  I  K+       D 
Sbjct: 202 GYDNRLAIPKVNQQQLNNTVVPVPPLPEQHRIVAKVDRLMSFCDE 246



 Score = 68.3 bits (165), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 32/189 (16%), Positives = 61/189 (32%), Gaps = 10/189 (5%)

Query: 223 EWVGLVPDHWEVKPFFALVTEL---NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
           E    +P  WE   F ++ T      +  +     +I          +L   N   +   
Sbjct: 79  EMPFELPYGWEWVRFDSVATIQSNLVKPESYSNYPHIAPDKIEKGTGRLLDCNTIQEDGV 138

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
                    G+I++  I     K  +   +    G+ ++    +K +        +++  
Sbjct: 139 TSPKHFFFSGQILYSKIRPNLSKAVVIDFE----GLCSADMYPIKAYIYTRYLHFYILTG 194

Query: 340 YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
             L  V           +  + +    V VPP+ EQ  I   ++   +  D L  K+ QS
Sbjct: 195 TFLELVVGYDNRLAIPKVNQQQLNNTVVPVPPLPEQHRIVAKVDRLMSFCDELEAKLTQS 254

Query: 400 I---VLLKE 405
           I     L E
Sbjct: 255 ISDREKLME 263


>gi|331002082|ref|ZP_08325601.1| hypothetical protein HMPREF0491_00463 [Lachnospiraceae oral taxon
           107 str. F0167]
 gi|330411176|gb|EGG90592.1| hypothetical protein HMPREF0491_00463 [Lachnospiraceae oral taxon
           107 str. F0167]
          Length = 375

 Score = 77.9 bits (190), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 39/375 (10%), Positives = 103/375 (27%), Gaps = 44/375 (11%)

Query: 31  KRFTKLNTGRTSESGKDIIYIGLED-------VESGTGKYLPKDGNSRQSDTSTVSIFAK 83
                +  G T  +  +  + G  D        E     +  +         S+  +   
Sbjct: 2   GEVANIVGGGTPSTSNEKYWDGNIDWYAPAEIGEQIYAFWSIRKITEEGLKHSSAKLLPA 61

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
            + +       +    +   DG  +  F  +   D L      + +   + ++ E +  G
Sbjct: 62  FKTVLFTSRAGIGNMAVLQKDGATNQGFQSIVCNDCL-VPYFVFSMGFQIKKKAERVAAG 120

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           +T S    K + ++ + +    EQ+ I     +    I    ++                
Sbjct: 121 STFSEISGKQLCDLEIMVTTDKEQLKIGSYFQSLDHLITLHQSKS--------------- 165

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
                  ++            +G +      +  F        K+       I     GN
Sbjct: 166 --FKCFFVDVACCTLSWEQRKLGEIGSVAMCRRIF--------KHQTTESGEIPFFKIGN 215

Query: 264 IIQKLETRNMGLKPESYE-TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
                +        E ++  Y   + G ++                    +   ++    
Sbjct: 216 FGGTPDAFISKDLFEDFKAKYPYPEKGAVLISASGSIGRTVVFTGKDEYFQD--SNIVWL 273

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
              + I +++L  L        +         + L  +++ +   ++P + EQ  I++ +
Sbjct: 274 KHDNSITNSFLYHLYSIVRWVGIE----GTTIKRLYNDNILKTEAIIPLVSEQQKISDYL 329

Query: 383 NVETARIDVLVEKIE 397
           +      D L+   +
Sbjct: 330 DAV----DHLITLHQ 340



 Score = 49.4 bits (116), Expect = 0.001,   Method: Composition-based stats.
 Identities = 20/152 (13%), Positives = 44/152 (28%), Gaps = 4/152 (2%)

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
           N K  + NI   +   I +++       K                F+ +   +       
Sbjct: 17  NEKYWDGNIDWYAPAEIGEQIYAFWSIRKITEEGLKHSSAKLLPAFKTVLFTSRAGIGNM 76

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
           A + + G     + ++  +     Y  + M      K            +  + +  L +
Sbjct: 77  AVLQKDGATNQGFQSIVCNDCLVPYFVFSMGFQIKKKAERVAAGSTFSEISGKQLCDLEI 136

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
           +V   KEQ  I +        +D L+   +  
Sbjct: 137 MVTTDKEQLKIGSY----FQSLDHLITLHQSK 164



 Score = 49.4 bits (116), Expect = 0.001,   Method: Composition-based stats.
 Identities = 31/194 (15%), Positives = 54/194 (27%), Gaps = 12/194 (6%)

Query: 24  HWKVVPIKRFTKLNTGRTS-----ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
            W+   +     +   R           +I +  + +       ++ KD    +   +  
Sbjct: 179 SWEQRKLGEIGSVAMCRRIFKHQTTESGEIPFFKIGNFGGTPDAFISKDLF--EDFKAKY 236

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
               KG +L    G   R  +    D       +V    D        + L   V     
Sbjct: 237 PYPEKGAVLISASGSIGRTVVFTGKDEYFQDSNIVWLKHDNSITNSFLYHLYSIVRWVG- 295

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
              EG T+       I      IP ++EQ  I + + A    I     E    I      
Sbjct: 296 --IEGTTIKRLYNDNILKTEAIIPLVSEQQKISDYLDAVDHLITLHQLEPYYLIFKAIAY 353

Query: 199 KQALVSYIVTKGLN 212
           +  ++ Y   K  N
Sbjct: 354 R--IIDYAEYKFFN 365


>gi|331650404|ref|ZP_08351476.1| type I restriction-modification system, S subunit, EcoA family
           [Escherichia coli M605]
 gi|331040798|gb|EGI12956.1| type I restriction-modification system, S subunit, EcoA family
           [Escherichia coli M605]
          Length = 440

 Score = 77.9 bits (190), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 57/444 (12%), Positives = 114/444 (25%), Gaps = 66/444 (14%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
             W    +  F  L  G      K            G    +   G S   D     +  
Sbjct: 3   SEWINTTLGEFITLKRGYDLPKSKR---------NDGNIPVISSSGYSGTHDVP---MVK 50

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI-C 141
              ++ G+ G       + D     +T   V   K   P  +   L +ID     +    
Sbjct: 51  GPGVVTGRYGTIGEVFYVVDDFWPINTTLYVSDFKGNSPLFVYYLLQTIDFHAYSDKAAV 110

Query: 142 EGATMSHADWKGIG---------NIPMPIPPLAEQVLIREKIIAETVRIDTLITER---- 188
            G   +H     I           I   +  + +++ + +KI     ++   I +     
Sbjct: 111 PGINRNHVHMANIRVPKSVLEQEKIASILKKIEDRIHVNQKINDILEQMAQAIFKSWFVD 170

Query: 189 -------------IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWV---------- 225
                            E       A++S   TK L        +    +          
Sbjct: 171 YEPVNAKLDVLESGGSEEEALCAAMAVISGKDTKALTAFKDEHPNEYSELKTIANLFPDA 230

Query: 226 ------GLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
                 G +P  W +      V  +        E    S          +  N   K  +
Sbjct: 231 MTESEFGSIPLGWYLSEIGNEVKVVGGATPSTKEPAFWSNGSIFWATPKDLSNKKDKVLN 290

Query: 280 YETYQIVDPGEIVF-------RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
               +I   G             I L +       A       I   Y+A++ + +    
Sbjct: 291 TTERKITSLGVSKISSGVQPENTIILSSRAPVGYLAITKIPVAINQGYIAMQCNKVLPPE 350

Query: 333 LAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
                 ++ + ++           +  ++ + + V+VP  +            T +I   
Sbjct: 351 FVLQWATHSMQEITIRSSGSTFAEISKKNFRTINVVVPSSELLMLYGKY----TRKIYDQ 406

Query: 393 VEKIEQSIVLLKERRSSFIAAAVT 416
           +         LKE ++S +   ++
Sbjct: 407 INSKINESSKLKELKNSLLPKLLS 430



 Score = 53.3 bits (126), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 32/199 (16%), Positives = 64/199 (32%), Gaps = 12/199 (6%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKY---LPKDG 68
           G+IP  W +  I    K+  G T  + +        I +   +D+ +   K      +  
Sbjct: 237 GSIPLGWYLSEIGNEVKVVGGATPSTKEPAFWSNGSIFWATPKDLSNKKDKVLNTTERKI 296

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL 128
            S      +  +  +  I+     P      I       +  ++ +Q   VLP       
Sbjct: 297 TSLGVSKISSGVQPENTIILSSRAPV-GYLAITKIPVAINQGYIAMQCNKVLPPEFVLQW 355

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
            +  + +       G+T +    K    I + +P     +L  +       +I++ I E 
Sbjct: 356 ATHSMQEITIRS-SGSTFAEISKKNFRTINVVVPSSELLMLYGKYTRKIYDQINSKINES 414

Query: 189 IRFIELLKEKKQALVSYIV 207
            +  EL       L+S   
Sbjct: 415 SKLKELKNSLLPKLLSNAF 433


>gi|9507688|ref|NP_053007.1| hypothetical protein pNZ4000_02 [Lactococcus lactis subsp.
           cremoris]
 gi|2895543|gb|AAC64329.1| unknown [Lactococcus lactis subsp. cremoris]
          Length = 310

 Score = 77.9 bits (190), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 22/170 (12%), Positives = 61/170 (35%), Gaps = 6/170 (3%)

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
                  ++  +    GN +   +           E+ Q  D   +    I +  +    
Sbjct: 41  HGTPNYSDNGDVFFINGNNLVNGKIVITKETKLVTESNQSKDDKLLNMDTILMSINGTIG 100

Query: 306 RSAQ-VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF-YAMGSGLRQSLKFEDVK 363
             A    ER ++  +   +     D  ++   +++  +   F   +     ++L  + ++
Sbjct: 101 NLAWYNNERVMLGKSAAYLTVSNFDKKFIFSYLQTSTIKNYFLNNLTGTTIKNLGLKTIR 160

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
              + VP ++EQ  I +       ++D  +   ++ + LLKE++  ++  
Sbjct: 161 DTTLFVPTLEEQQKIGSF----FKQLDDTIALHQRKLDLLKEQKKGYLQK 206


>gi|194397904|ref|YP_002037176.1| Type I restriction modification DNA specificity domain
           [Streptococcus pneumoniae G54]
 gi|194357571|gb|ACF56019.1| Type I restriction modification DNA specificity domain
           [Streptococcus pneumoniae G54]
          Length = 364

 Score = 77.9 bits (190), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 42/210 (20%), Positives = 80/210 (38%), Gaps = 12/210 (5%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
            I+    +PD WE      LV  +   + + I+  + S   G    K+     G K  + 
Sbjct: 77  EIDVPYDIPDTWEWVRISTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINN 136

Query: 281 ETYQIVDPG-----EIVFRFIDLQNDKRSLRSAQVMERGIITSAY--MAVKPHGIDSTYL 333
              +I   G      +      L N     R   +   G I   +  ++   + ++  YL
Sbjct: 137 VKEKIKKSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYL 196

Query: 334 AWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            +++ S  +   F ++ SG   ++L  + V  + + +PP+ EQ  I   I     ++D  
Sbjct: 197 FYILSSNVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLSEQQRIIEAIESALEKVDEY 256

Query: 393 VEKIEQSIVLLKE----RRSSFIAAAVTGQ 418
            E   +   L KE     + S +  A+ G+
Sbjct: 257 AESYNRLEQLDKEFPDKLKKSILQYAMQGK 286



 Score = 71.4 bits (173), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 44/214 (20%), Positives = 83/214 (38%), Gaps = 13/214 (6%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNSR 71
            IP  W+ V I    ++  G +    KD        I +I + D E G           +
Sbjct: 83  DIPDTWEWVRISTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINNVKEKIK 142

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
           +S  +      KG  L      + R  I+     I      +   ++ L +    ++LS 
Sbjct: 143 KSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYLFYILSS 202

Query: 132 D-VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
           + V  +  ++  GA + + +   + +I +P+PPL+EQ  I E I +   ++D       R
Sbjct: 203 NVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLSEQQRIIEAIESALEKVDEYAESYNR 262

Query: 191 FIELLKEKK----QALVSYIVTKGLNPDVKMKDS 220
             +L KE      ++++ Y +   L       +S
Sbjct: 263 LEQLDKEFPDKLKKSILQYAMQGKLVEQDPNDES 296


>gi|237753063|ref|ZP_04583543.1| conserved hypothetical protein [Helicobacter winghamensis ATCC
           BAA-430]
 gi|229375330|gb|EEO25421.1| conserved hypothetical protein [Helicobacter winghamensis ATCC
           BAA-430]
          Length = 466

 Score = 77.9 bits (190), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 51/441 (11%), Positives = 120/441 (27%), Gaps = 65/441 (14%)

Query: 29  PIKRFTKLNTGRTSESGKDI-------IYIGLEDVESGTGKYLPKDGNSRQSDTST---V 78
           P+K F K+ +G+    G+          Y+ ++D++S   +       S   D  T    
Sbjct: 33  PLKNFVKIKSGKRIPKGRSYANTTTAYKYLRVDDLDSEILEIDIDKLKSIDKDIFTLLER 92

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
                 ++     G   +  I  +     + + ++ +    L          + +  +  
Sbjct: 93  YEIYNDEVALSIAGTIGKVFIFHN---ATNNRVILTENCVKLQAQDNLLPKFLSLILKTN 149

Query: 139 AICEGATMSHADWKGIGN--------IPMPIPPLAEQVLIREKIIAETVRIDT------- 183
            +       +                    IPPL+ Q  I + +                
Sbjct: 150 FLQSQMKRQYIQTTIPKLAIERIKELQIPSIPPLSTQQHIIDLMDKAYKAKQEKENKAKE 209

Query: 184 --------------LITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVP 229
                         +I        L      A +S +     + +   K        L+ 
Sbjct: 210 LLDSIDSYLLEELGIILPLRANNTLDSRIYTAKISALSGSRFDANYHQKYYRDLEKSLLS 269

Query: 230 DHWEVKPFFALVTELNRK-----NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ 284
             + +    +L+    +      +       I  +   +I       +   K  S   ++
Sbjct: 270 SPYPLVNLASLINNFKKGIEVGSSEYSQNKEIPFIRVSDITNNGIDFDNVQKFISASLFE 329

Query: 285 IVDPGEIVFRF--IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
            +   +                   A V    II+   + ++            +    +
Sbjct: 330 NLKAYKPKQNELLYSKDGTVGICLEADVSRDYIISGGILRLELKAEVDKDFLCFLLGSYM 389

Query: 343 CKVFYAMGS--GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
             VF    S   + + L   +  +L + +PP+  Q  I N +  ++++   L  + E   
Sbjct: 390 INVFANRVSIGAVIKHLNIGEFLKLKIPLPPLAIQTQIANRL--KSSKFQALSLEKEA-- 445

Query: 401 VLLKERRSSFIAAAVTGQIDL 421
                     +  A   +ID+
Sbjct: 446 -------KEILHKA---KIDV 456


>gi|311033110|ref|ZP_07711200.1| putative restriction-modification enzyme type I S subunit [Bacillus
           sp. m3-13]
          Length = 393

 Score = 77.5 bits (189), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 59/405 (14%), Positives = 134/405 (33%), Gaps = 50/405 (12%)

Query: 25  WKVVPIKRFT-------KLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           W+   +            +      +   +I  +                     ++ + 
Sbjct: 20  WEQRKLGDLLAYEQPTKYIVKSTYYDDSFEIPVLTAG----------QSFILGYTNEENG 69

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
           +   +    +            +     + S+   +L  K    +    +    ++    
Sbjct: 70  IKEVSDEDPVIIFDDFTTGSHYVDFPFKVKSSAMKLLSLKSGDEDFYFIYNTLKNIKYVP 129

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           ++              + ++ +P            KI     + D LIT   R ++LL E
Sbjct: 130 QSHE----RHWISKFSLFDVAVPSSDEQ------AKIGGYFKQFDNLITLHQRNLKLLNE 179

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
            K++L+  +      P        I + G   D WE +    ++ E   K     E  +L
Sbjct: 180 TKKSLLQKMF-----PKDGANVPEIRFEGFT-DAWEQRRLDKILKERKVKQKITEEFPLL 233

Query: 258 SLSYGNII-----QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
           + + G  +     +K   R+   K  + +TY +    +IV+      N K          
Sbjct: 234 AFASGQGVIDRSERKTNNRDFLTKDATKKTYLLTKYDDIVYN---PSNLKYGAIDRNKHG 290

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLV 369
           +G+I+  Y+  +   I  +++  +++S +  +       G    RQ++K E +  L V++
Sbjct: 291 QGVISPIYVTFETDEI-PSFIELIVKSKNFKQRALQYEEGTVTKRQAVKPEHLLCLNVVL 349

Query: 370 P-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           P    EQ  I N       ++D ++   ++ +  LK  + S +  
Sbjct: 350 PNSKDEQIKIGNF----FKQLDDMITLHQRELHSLKNLKKSLLQQ 390


>gi|311113526|ref|YP_003984748.1| type I restriction modification enzyme protein S [Rothia
           dentocariosa ATCC 17931]
 gi|310945020|gb|ADP41314.1| type I restriction modification enzyme protein S [Rothia
           dentocariosa ATCC 17931]
          Length = 367

 Score = 77.5 bits (189), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 53/369 (14%), Positives = 112/369 (30%), Gaps = 24/369 (6%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYIGLE-DVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
            +    KL  GR      +    G    ++    +   K             +     ++
Sbjct: 2   RLGDLVKLYKGRKPLEIVNEPIEGYRRSLQISDLRPGAKPRYCPADKKE--LLAVPNDVI 59

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMS 147
               G             + ST  ++   ++ L +              + A  +GAT+ 
Sbjct: 60  IAWDGANAGTTSHGLKGSVGSTLMVLRIQQEELIDTAYLGHFIASKQSYLRAKTKGATIP 119

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
           H D   + ++ +P+PPL EQ  I   +        ++   R   +  L E   +      
Sbjct: 120 HLDRVILESLDVPLPPLEEQKRIVAILDKA----KSIQEAREHQLTTLDELLISFFKDSF 175

Query: 208 TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK 267
                P   +K+      G  P         + V E    N + +    L    G     
Sbjct: 176 HAEDYPHKPLKEIATVLSGGTP--------RSSVQEYWNGNIEWVTPADLGQHEGIYFSS 227

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
              +          +  ++  G ++                    +G  +     V    
Sbjct: 228 SSRKITD-TGLKNSSAVLLPIGSVMMSSRAPIGHLAINTVPMATNQGFKS----IVPGEE 282

Query: 328 IDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
           I + YL + ++S+   K   ++G     + +    V+ + V VPPI++Q   +  ++   
Sbjct: 283 ITNLYLLFWLKSH--MKYIQSLGVGATFKEISKRGVENIKVPVPPIRKQNRFSRKVSKII 340

Query: 387 ARIDVLVEK 395
           ++   L+ K
Sbjct: 341 SQ-QTLIHK 348



 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 22/126 (17%), Positives = 42/126 (33%), Gaps = 12/126 (9%)

Query: 288 PGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY 347
           P +++  +        +         G         +   ID+ YL   + S        
Sbjct: 55  PNDVIIAWDGAN--AGTTSHGLKGSVGSTLMVLRIQQEELIDTAYLGHFIASK--QSYLR 110

Query: 348 AMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
           A   G     L    ++ L V +PP++EQ  I  +++    +   + E  E  +  L E 
Sbjct: 111 AKTKGATIPHLDRVILESLDVPLPPLEEQKRIVAILD----KAKSIQEAREHQLTTLDEL 166

Query: 407 RSSFIA 412
               I+
Sbjct: 167 ---LIS 169



 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 32/191 (16%), Positives = 65/191 (34%), Gaps = 15/191 (7%)

Query: 28  VPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYL---PKDGNSRQSDTSTV 78
            P+K    + +G T  S        +I ++   D+    G Y     +         S+ 
Sbjct: 183 KPLKEIATVLSGGTPRSSVQEYWNGNIEWVTPADLGQHEGIYFSSSSRKITDTGLKNSSA 242

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
            +   G ++     P      I       +  F  + P + +   L          + I+
Sbjct: 243 VLLPIGSVMMSSRAPI-GHLAINTVPMATNQGFKSIVPGEEITN-LYLLFWLKSHMKYIQ 300

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
           ++  GAT      +G+ NI +P+PP+ +Q         +  +I +  T   + +E  K  
Sbjct: 301 SLGVGATFKEISKRGVENIKVPVPPIRKQNRFSR----KVSKIISQQTLIHKSLENDKSL 356

Query: 199 KQALVSYIVTK 209
             ++ S     
Sbjct: 357 FLSIQSRFFNY 367


>gi|149189421|ref|ZP_01867706.1| restriction modification system DNA specificity domain [Vibrio
           shilonii AK1]
 gi|148836779|gb|EDL53731.1| restriction modification system DNA specificity domain [Vibrio
           shilonii AK1]
          Length = 589

 Score = 77.5 bits (189), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 30/185 (16%), Positives = 65/185 (35%), Gaps = 13/185 (7%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESN---ILSLSYGNIIQKLETRNMGLKPESYETY 283
            +P  W +     L T+L   +    +         S  N+  +        +    + Y
Sbjct: 105 ELPQSWAIARLGNLCTKLTDGSHNPAKDFGSGYPMFSSQNVHFRSIDFTSPSRYVDEDNY 164

Query: 284 QI------VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
                   ++P +++   +      R+          ++  +   ++    DS +L + +
Sbjct: 165 LKEHARTQIEPRDVLLTIVGTLG--RAAVVPNDAPEFVLQRSVAVLQTKI-DSDFLTYFL 221

Query: 338 RSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
            S    K F   G G  ++ +    +  +PV VP ++EQ  I   ++      D L ++ 
Sbjct: 222 ASPTCIKYFEENGKGTAQKGIYLGKLSLMPVFVPSLEEQHRIVAKVDELMTLCDQLEQQT 281

Query: 397 EQSIV 401
           E SI 
Sbjct: 282 EASIA 286



 Score = 63.7 bits (153), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 46/467 (9%), Positives = 110/467 (23%), Gaps = 89/467 (19%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD----IIYIGLEDVESGTGKYLP---KDGNSRQ 72
            +P+ W +  +       T  +    KD          ++V   +  +            
Sbjct: 105 ELPQSWAIARLGNLCTKLTDGSHNPAKDFGSGYPMFSSQNVHFRSIDFTSPSRYVDEDNY 164

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL-LSI 131
                 +      +L   +G   R A++ +       Q  V   +  +      +   S 
Sbjct: 165 LKEHARTQIEPRDVLLTIVGTLGRAAVVPNDAPEFVLQRSVAVLQTKIDSDFLTYFLASP 224

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID--------- 182
              +  E   +G          +  +P+ +P L EQ  I  K+       D         
Sbjct: 225 TCIKYFEENGKGTAQKGIYLGKLSLMPVFVPSLEEQHRIVAKVDELMTLCDQLEQQTEAS 284

Query: 183 --------------------------------TLITERIRFIELLKEKKQALVSYIVTKG 210
                                                     E + + KQ ++   V   
Sbjct: 285 IAAHQVLVTTLLGTLTNSANAEELMQNWQLVAEHFDTLFTTEESIDQLKQTILQLAVMGK 344

Query: 211 LNPDVKMKDSGIEWV----------------------------GLVPDHWEVKPFFALVT 242
           L P  +  +   + +                                +      +  L  
Sbjct: 345 LVPQDQNDEPASKLLERIAEEKAQLIKEKKIKKQKALPPIADDEKPFELPSGWEWCRLGD 404

Query: 243 ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG------EIVFRFI 296
                 +          S G    + +             Y  +         ++    +
Sbjct: 405 LCKLVTSGSRGWKEYYASSGATFIRSQDIKYDRLDFDERAYVQLPKSTEGKRTKVDVGNL 464

Query: 297 DLQNDKRSLRSAQVMER----GIITSA--YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG 350
            +     ++    V+E       ++     + +    +      WL  S     +     
Sbjct: 465 LMTITGANVGKVAVVEDPIEEAYVSQHVALIKLIDDVLIDYLHVWLTGSMGGRGLLLQSS 524

Query: 351 SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
            G +  L  +++  L + +P + E   +   +    A  + L + I+
Sbjct: 525 YGAKPGLNLQNINELLIPLPTMLELNRVVLKVREMLAISEQLKDYIK 571



 Score = 59.4 bits (142), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 28/198 (14%), Positives = 61/198 (30%), Gaps = 10/198 (5%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRT-----SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
            +P  W+   +    KL T  +       +     +I  +D++     +  +        
Sbjct: 392 ELPSGWEWCRLGDLCKLVTSGSRGWKEYYASSGATFIRSQDIKYDRLDFDERAYVQLPKS 451

Query: 75  TSTVS-IFAKGQILYGKLGPYLRKAIIAD---FDGICSTQF-LVLQPKDVLPELLQGWLL 129
           T         G +L    G  + K  + +    +   S    L+    DVL + L  WL 
Sbjct: 452 TEGKRTKVDVGNLLMTITGANVGKVAVVEDPIEEAYVSQHVALIKLIDDVLIDYLHVWLT 511

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
                + +            + + I  + +P+P + E   +  K+       + L     
Sbjct: 512 GSMGGRGLLLQSSYGAKPGLNLQNINELLIPLPTMLELNRVVLKVREMLAISEQLKDYIK 571

Query: 190 RFIELLKEKKQALVSYIV 207
            +        +A+V   +
Sbjct: 572 SYQTTQLYLTEAIVEQAI 589


>gi|301633597|gb|ADK87151.1| type I restriction modification DNA specificity domain protein
           [Mycoplasma pneumoniae FH]
          Length = 373

 Score = 77.5 bits (189), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 47/382 (12%), Positives = 101/382 (26%), Gaps = 38/382 (9%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K   IK   +++ G+            ++D       Y     N+ +             
Sbjct: 4   KTYKIKDICEISRGKAITKKY------IKDNPGQYPVYSSTTANNGEIGRIKDYDLDGEY 57

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           + +   G Y       +     S    V   K    E+   +L      +  + +     
Sbjct: 58  VTWTTDGIYAGTVFYRNEKFNASQHCGV--LKLKNNEISAKFLTYALGMEAPKFVNNACP 115

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
           + + +      I +  PPL  Q  I   +   T     L   + ++              
Sbjct: 116 IPNLNLSRTEEIELDFPPLQIQQKIATILDTFTELSAELRERKKQYAFYRDYL------- 168

Query: 206 IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFA-LVTELNRKNTKLIESNILSLSYGNI 264
                LN +   K  G           ++                   E+ + S +  N 
Sbjct: 169 -----LNQENIRKIYGANIPFETFQVKDICEIRRGRAITKAYIRNNPGENPVYSAATTND 223

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
            +    ++     E                     N    +   +  +        +   
Sbjct: 224 GELGRIKDCDFDGEYI---------------TWTTNGYAGVVFYRNGKFNASQDCGVLKV 268

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
            +    T     +   +  K  + + S  R  L  + +  + +  PP++ Q  I +++  
Sbjct: 269 KNKKICTKFLSFLLKIEAPKFVHNLAS--RPKLSQKVMAEIELSFPPLEIQEKIADILFA 326

Query: 385 ETARIDVLVEKIEQSIVLLKER 406
                + LVE I   I L K++
Sbjct: 327 FEKLCNDLVEGIPAEIELRKKQ 348



 Score = 41.7 bits (96), Expect = 0.22,   Method: Composition-based stats.
 Identities = 14/174 (8%), Positives = 44/174 (25%), Gaps = 4/174 (2%)

Query: 240 LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQ 299
            +     K+   I                +         +      +   ++   ++   
Sbjct: 2   QIKTYKIKDICEISRGKAITKKYIKDNPGQYPVYSSTTANNGEIGRIKDYDLDGEYVTWT 61

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKF 359
            D     +          S +  V     +     +L  +  +    +   +    +L  
Sbjct: 62  TDGIYAGTVFYRNEKFNASQHCGVLKLKNNEISAKFLTYALGMEAPKFVNNACPIPNLNL 121

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
              + + +  PP++ Q  I  +++  T     L  ++ +        R   +  
Sbjct: 122 SRTEEIELDFPPLQIQQKIATILDTFTE----LSAELRERKKQYAFYRDYLLNQ 171


>gi|319758540|gb|ADV70482.1| type I restriction-modification system, S subunit [Streptococcus
           suis JS14]
          Length = 299

 Score = 77.5 bits (189), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 28/212 (13%), Positives = 66/212 (31%), Gaps = 20/212 (9%)

Query: 222 IEWVGLVPDHWEVKPFFALVTELNRKNTK-----LIESNILSLSYGNIIQKLETRNMGLK 276
           +E    +PD WE      L    +    K       + NI  ++  ++ ++   +     
Sbjct: 78  VEVPYEIPDSWEWVRLRNLGVITSGGTPKSSESTYYDGNITWITPADMGKQQNNKLFATS 137

Query: 277 PESYETYQIVDPGEIVFRFIDLQNDKRS--LRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
            +      +      +     +    R+       V           +V P  ++  ++ 
Sbjct: 138 SKKITELGVQKSSAQLISKNSIVYSSRAPIGHINIVNYDFTTNQGCKSVTPILVNLDFMY 197

Query: 335 WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
           W+++ +    +         + +         + +PP+ EQ  I   I     +    VE
Sbjct: 198 WILQ-FRTKDIILRSSGTTFKEISASGFGDTLLPLPPLAEQKRIVAHIERALEQ----VE 252

Query: 395 KIEQSIVLLKE--------RRSSFIAAAVTGQ 418
              +S   L+E         + S +  A+ G+
Sbjct: 253 VYAESYNKLQELDRAFPDKLKKSILQYAMQGK 284



 Score = 71.4 bits (173), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 44/226 (19%), Positives = 81/226 (35%), Gaps = 24/226 (10%)

Query: 5   KAYPQY-----KDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGL 53
           K Y +      K   V +   IP  W+ V ++    + +G T +S +      +I +I  
Sbjct: 65  KPYEKLADGTVKKVEVPY--EIPDSWEWVRLRNLGVITSGGTPKSSESTYYDGNITWITP 122

Query: 54  EDV----ESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICST 109
            D+     +       K         S+  + +K  I+Y    P      I ++D   + 
Sbjct: 123 ADMGKQQNNKLFATSSKKITELGVQKSSAQLISKNSIVYSSRAPI-GHINIVNYDFTTNQ 181

Query: 110 QFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVL 169
               + P  V   L   + +    T+ I     G T       G G+  +P+PPLAEQ  
Sbjct: 182 GCKSVTPILVN--LDFMYWILQFRTKDIILRSSGTTFKEISASGFGDTLLPLPPLAEQKR 239

Query: 170 IREKIIAETVRIDTLITERIRFIELLKEKK----QALVSYIVTKGL 211
           I   I     +++       +  EL +       ++++ Y +   L
Sbjct: 240 IVAHIERALEQVEVYAESYNKLQELDRAFPDKLKKSILQYAMQGKL 285


>gi|301794018|emb|CBW36416.1| putative type I RM modification enzyme [Streptococcus pneumoniae
           INV104]
          Length = 373

 Score = 77.5 bits (189), Expect = 4e-12,   Method: Composition-based stats.
 Identities = 41/396 (10%), Positives = 116/396 (29%), Gaps = 31/396 (7%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V +     L  G+ +    +   +    ++    +       +   + +         
Sbjct: 2   KKVKLGEVLSLKKGKKATVLAEQTTLSQRYIQIDDLRNNNNLKFTESLNMTEAL---PDD 58

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW--LLSIDVTQRIEAICEG 143
           IL    G             + ST  ++ + +    +++  +  +     +Q +     G
Sbjct: 59  ILIAWDGANAGTVGYGLSGAVGSTITVLKKNERYKEKIISDYLGVFLESKSQYLREHSTG 118

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           AT+ H +   + ++ + +  + EQ  I   +      I     +                
Sbjct: 119 ATIPHLNKNILLDLQLELLGIEEQENIICILNTIKRLITKRKLQLDELNL---------- 168

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
                  L      +  G   +    D+              + +    E   L L+  N
Sbjct: 169 -------LVKSRFNEMFGENKIFESIDNLFDIIDGDRGKNYPKSDELFSEEYCLFLNTKN 221

Query: 264 IIQKLETRN----MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
           + +   + +    +    +       ++  +IV        +          +   I S 
Sbjct: 222 VTKNGFSFDTKQFITKTKDKLLRKGKLERYDIVLTTRGTVGNVAYYDELIKYKHLRINSG 281

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
            + ++P   +     +++           +    +  L    +K++ + +PP+  Q +  
Sbjct: 282 MVILRPKTPNLNQ-KFIIHVLRNNNYSRVISGSAQPQLPITKLKKILLPLPPLALQNEFA 340

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           + +    A +D     I++S+  L+  + S +    
Sbjct: 341 DFV----ALVDKSQLAIQKSLEELETLKKSLMQEYF 372


>gi|152986197|ref|YP_001351360.1| type I restriction-modification system subunit S [Pseudomonas
           aeruginosa PA7]
 gi|150961355|gb|ABR83380.1| type I restriction-modification system, S subunit, putative
           [Pseudomonas aeruginosa PA7]
          Length = 547

 Score = 77.5 bits (189), Expect = 4e-12,   Method: Composition-based stats.
 Identities = 28/192 (14%), Positives = 69/192 (35%), Gaps = 3/192 (1%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLET-RNMGLKPESYE 281
           E    VP +WE     A+  +  +K      + I   +  N   ++   + +  +     
Sbjct: 78  EKPFDVPTNWEWVRVAAVGHDWGQKTPDKAFTYIDVGAVDNAAGRISAPQVLMAEDAPSR 137

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS-TYLAWLMRSY 340
             ++V PG +++  I       ++      +  I ++A+  + P+      Y    +RS 
Sbjct: 138 ARKVVRPGTVIYSTIRPYLLNVAVIEEAYEQEPIASTAFAIIHPYLEMPARYFLCYLRSP 197

Query: 341 DLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
              +   ++  G+   ++         + +PP+ EQ  I   ++   A  D L  +   +
Sbjct: 198 VFVRYVESVQMGIAYPAINDGQFFSGLIPLPPLAEQHRIVAKVDELMALCDRLEARQADA 257

Query: 400 IVLLKERRSSFI 411
                +   + +
Sbjct: 258 DSAHAQLVQALL 269



 Score = 71.7 bits (174), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 38/190 (20%), Positives = 74/190 (38%), Gaps = 8/190 (4%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYL-PKDGNSRQSDTSTV 78
            +P +W+ V +         +T +      YI +  V++  G+   P+   +  + +   
Sbjct: 82  DVPTNWEWVRVAAVGHDWGQKTPDKA--FTYIDVGAVDNAAGRISAPQVLMAEDAPSRAR 139

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDG----ICSTQFLVLQPKDVLPELLQ-GWLLSIDV 133
            +   G ++Y  + PYL    + +       I ST F ++ P   +P      +L S   
Sbjct: 140 KVVRPGTVIYSTIRPYLLNVAVIEEAYEQEPIASTAFAIIHPYLEMPARYFLCYLRSPVF 199

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            + +E++  G      +     +  +P+PPLAEQ  I  K+       D L   +     
Sbjct: 200 VRYVESVQMGIAYPAINDGQFFSGLIPLPPLAEQHRIVAKVDELMALCDRLEARQADADS 259

Query: 194 LLKEKKQALV 203
              +  QAL+
Sbjct: 260 AHAQLVQALL 269



 Score = 63.7 bits (153), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 19/119 (15%), Positives = 42/119 (35%), Gaps = 3/119 (2%)

Query: 297 DLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS 356
           +L N    +      +  +   A++          Y+     + DL           +  
Sbjct: 431 NLINRSTPIAFMARGKYWVNNHAHVLDGVSEALLLYVQLYFNAIDLKPYV---TGTAQPK 487

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           +    +  + +L+PP  EQ  I   ++   A  D L  ++ Q+  + +   S+ +  AV
Sbjct: 488 MNQAKMNSIVLLLPPEAEQHRIVAKVDQLMALCDQLKARLNQARQVHEHLASALVEQAV 546



 Score = 46.7 bits (109), Expect = 0.007,   Method: Composition-based stats.
 Identities = 41/201 (20%), Positives = 66/201 (32%), Gaps = 20/201 (9%)

Query: 12  DSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSR 71
           D+ V     +P  W +  +   T    G      + I     E    G  K     G S 
Sbjct: 361 DTEVT----VPAGWSLSTVGEVTICRDG------ERIPVSQAE--REGRAKTYDYYGASG 408

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRK-----AIIADFDGICSTQFLVLQPKDVLPELLQG 126
             D     +F K  +L G+ G  L       A +A      +    VL   D + E L  
Sbjct: 409 VIDKIDGYLFDKPLLLVGEDGANLINRSTPIAFMARGKYWVNNHAHVL---DGVSEALLL 465

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           ++        ++    G      +   + +I + +PP AEQ  I  K+       D L  
Sbjct: 466 YVQLYFNAIDLKPYVTGTAQPKMNQAKMNSIVLLLPPEAEQHRIVAKVDQLMALCDQLKA 525

Query: 187 ERIRFIELLKEKKQALVSYIV 207
              +  ++ +    ALV   V
Sbjct: 526 RLNQARQVHEHLASALVEQAV 546


>gi|48243740|gb|AAT40844.1| putative type I restiction/modification specificity protein
           [Haemophilus influenzae]
          Length = 371

 Score = 77.5 bits (189), Expect = 4e-12,   Method: Composition-based stats.
 Identities = 59/387 (15%), Positives = 118/387 (30%), Gaps = 42/387 (10%)

Query: 26  KVVPIKRFTKLNT-----GRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           K +P+               ++    +     L   ++    Y  +D     +  S V I
Sbjct: 7   KWIPLGDVADYEQPTKYLVNSTVYNDNYPTPVLTAGKTFILGYTNEDEGIYFASKSPVII 66

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
           F            +       DFD    +  + +         L  ++     T      
Sbjct: 67  F----------DDFTTANKWVDFDFKAKSSAMKMITSKNEKFALLKYIYYWLNTLPNNQT 116

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
                           IP  IPPL+ Q  I + + A T     L +E I   +  +  ++
Sbjct: 117 DGDHKRQWISNYANKLIP--IPPLSVQTEIVKILDALTTLTSELTSELILRQKQYEYYRE 174

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
            L++             + + +  +G V      K           KN      +I    
Sbjct: 175 KLLN-----------IDEMNKVTELGDVGPVRMCKRIL--------KNQTANSGDIPFYK 215

Query: 261 YGNIIQKLETRNMGLKPESYE-TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
            G   +K +        + Y+  Y     G+I+                   E      +
Sbjct: 216 IGTFGKKPDAYISNELFQEYKQKYSYPKKGDILISASGTIGRTVIF----DGENSYFQDS 271

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
            +    +        +L   Y + K   A G G  Q L  +++K++ + +PP+KEQ  I 
Sbjct: 272 NIVWIDNDETLVLNKYLYHFYKIAKWGIAEG-GTIQRLYNDNLKKVKISIPPLKEQHRIV 330

Query: 380 NVINVETARIDVLVEKIEQSIVLLKER 406
           ++++      + + E +  +I   ++R
Sbjct: 331 SILDKFETLTNSITEGLPLAIEQSQKR 357


>gi|325066641|ref|ZP_08125314.1| type I restriction/modification specificity protein [Actinomyces
           oris K20]
          Length = 287

 Score = 77.5 bits (189), Expect = 4e-12,   Method: Composition-based stats.
 Identities = 36/309 (11%), Positives = 83/309 (26%), Gaps = 32/309 (10%)

Query: 108 STQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQ 167
            T F     + + P+    +  ++     +E + +   +     + +  + +P PP++ Q
Sbjct: 2   DTIFYTQIGEQLEPKFFYYYFQTL----HLERMNQAGGVPSLTQRTLNELKIPTPPISIQ 57

Query: 168 VLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGL 227
             I + +   T     L  E     +         +++  T   N   +        +  
Sbjct: 58  WEIVKILDQFTELEAELEAELGVRKQQYSH----YLNHFFTSNANTRTR-------TLRD 106

Query: 228 VPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVD 287
           V      K      T                 +           +  L  E  E Y    
Sbjct: 107 VGPVRMCKRITKNQTSQQGGVPFYKIRTFGGTA-------DAYISRELYNEYKEQYHFPK 159

Query: 288 PGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY 347
           PG I+                   +      + +    +        +L   Y +     
Sbjct: 160 PGSILISAAGTIGR----AVPYDGKDAYFQDSNIVWIENDETLVLNRYLFYFYKVANW-- 213

Query: 348 AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV----LL 403
               G  + L  + +    + +PP+ EQ  I + ++     ++ L   +   I       
Sbjct: 214 KTDDGTIKRLYNDRLLNTAIPIPPLSEQHRIVDCLDKFDTLVNDLTSGLPAEIEARRRQY 273

Query: 404 KERRSSFIA 412
           +  R   + 
Sbjct: 274 EYYRDRLLT 282



 Score = 42.1 bits (97), Expect = 0.18,   Method: Composition-based stats.
 Identities = 24/188 (12%), Positives = 52/188 (27%), Gaps = 10/188 (5%)

Query: 27  VVPIKRFTKLNTGRTSESGK-----DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
              ++    +   +     +      + +  +         Y+ ++              
Sbjct: 101 TRTLRDVGPVRMCKRITKNQTSQQGGVPFYKIRTFGGTADAYISREL--YNEYKEQYHFP 158

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
             G IL    G   R       D       +V        E L          +      
Sbjct: 159 KPGSILISAAGTIGRAVPYDGKDAYFQDSNIVWI---ENDETLVLNRYLFYFYKVANWKT 215

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
           +  T+       + N  +PIPPL+EQ  I + +      ++ L +     IE  + + + 
Sbjct: 216 DDGTIKRLYNDRLLNTAIPIPPLSEQHRIVDCLDKFDTLVNDLTSGLPAEIEARRRQYEY 275

Query: 202 LVSYIVTK 209
               ++T 
Sbjct: 276 YRDRLLTF 283


>gi|208435397|ref|YP_002267063.1| typeI R-M system specificity subunit [Helicobacter pylori G27]
 gi|208433326|gb|ACI28197.1| typeI R-M system specificity subunit [Helicobacter pylori G27]
          Length = 212

 Score = 77.5 bits (189), Expect = 4e-12,   Method: Composition-based stats.
 Identities = 15/130 (11%), Positives = 43/130 (33%), Gaps = 6/130 (4%)

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID--STYLAWLMRSYDLCKVFYAMGS 351
             I +     +        +         + P+     + +L + ++         +  +
Sbjct: 59  NTITIAQYGTAGYVNFQKNKFWANDVCFCIYPNKDIIKNIFLYYFLKVNQNYLYEISNRN 118

Query: 352 GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
               S+  + +    + +PP+ EQ  I N+++     I  L  K  Q     +  + +  
Sbjct: 119 ATPYSISKDKILDFEIPLPPLNEQIAIANILSDVDHEIISLKNKKRQ----FENIKKALN 174

Query: 412 AAAVTGQIDL 421
              ++ +I +
Sbjct: 175 HDLMSAKIRV 184



 Score = 59.4 bits (142), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 34/209 (16%), Positives = 66/209 (31%), Gaps = 11/209 (5%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           P +W+ V +    ++  G      +  ++     V  G G     +  +R          
Sbjct: 7   PSNWQRVRLGDICEIKRGVRITKNELDVFGKYPVVSGGVGFLGYTNNFNR---------- 56

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            +  I   + G         +        F +   KD++  +   + L ++     E   
Sbjct: 57  YENTITIAQYGTAGYVNFQKNKFWANDVCFCIYPNKDIIKNIFLYYFLKVNQNYLYEISN 116

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
             AT        I +  +P+PPL EQ+ I   +      I +L  ++ +F  + K     
Sbjct: 117 RNATPYSISKDKILDFEIPLPPLNEQIAIANILSDVDHEIISLKNKKRQFENIKKALNHD 176

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPD 230
           L+S    + L      K          P 
Sbjct: 177 LMS-AKIRVLKKLTPQKSRTNPLHKETPK 204


>gi|228994624|ref|ZP_04154448.1| hypothetical protein bpmyx0001_53020 [Bacillus pseudomycoides DSM
           12442]
 gi|228765109|gb|EEM13839.1| hypothetical protein bpmyx0001_53020 [Bacillus pseudomycoides DSM
           12442]
          Length = 405

 Score = 77.5 bits (189), Expect = 4e-12,   Method: Composition-based stats.
 Identities = 65/381 (17%), Positives = 141/381 (37%), Gaps = 29/381 (7%)

Query: 25  WKVVPIKRFTKLNTGRTSESG---KDIIYIGLEDVESGTGKYLP--KDGNSRQSDTSTVS 79
           W  + +    + N G  ++     K   +I + D+ +         K      + T   +
Sbjct: 15  WSSIKLDELLEFNNGINADKNSYGKGRKFINVLDILNNEHIVYENIKGSVEVDAKTENNN 74

Query: 80  IFAKGQILYGKLGPY-----LRKAIIADFDGICSTQFLVLQPK--DVLPELLQGWLLSID 132
               G IL+ +              + + +      F++   K  +  P  L+  L +  
Sbjct: 75  KVEYGDILFLRSSETREDVGKCSVYLDEKEYCLFGGFVIRGKKIAEYEPYFLKLNLETPL 134

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           +  +I +   G+T  +     + ++ + IP + EQ  I + +       +  I  + + I
Sbjct: 135 IRHQIGSKSGGSTRFNVSQSILSSVEIKIPSINEQKKISKFMD----LFNKKIQLQQQKI 190

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           +LL+E+K+  +  +  K      +++ +G        D WE + F  ++TE   K     
Sbjct: 191 DLLQEQKKGFLQKMFPKAGEKQPQVRFAG------FTDDWEQREFGEIITERREKTKIEN 244

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
           E  +LS +   +    E      +  S   Y  +   +++    +L     +    Q  E
Sbjct: 245 EDTLLSSAIDGMYLNSELF-SHFRGASNIGYLKIRKNDMILSAQNL--HLGNCNINQRFE 301

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM----GSGLRQSLKFEDVKRLPVL 368
            GII+ AY       +D+ ++   ++     + F        S  R+++++  +    + 
Sbjct: 302 HGIISPAYKVYSLVNVDAAFMHAWIKKDSTKQFFEKATTEGASVCRKNIEWGTLYSQKIY 361

Query: 369 VPPIKEQFDITNVINVETARI 389
           +P   EQ  I  + NV   RI
Sbjct: 362 IPIYSEQQKIGELFNVLDKRI 382



 Score = 74.4 bits (181), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 25/163 (15%), Positives = 57/163 (34%), Gaps = 8/163 (4%)

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
           N+L +     I     +         E    V+ G+I+F       +     S  + E+ 
Sbjct: 45  NVLDILNNEHIVYENIKGSVEVDAKTENNNKVEYGDILFLRSSETREDVGKCSVYLDEKE 104

Query: 315 IITSAYMAVKPHGIDSTYLAWL---MRSYDLCKVF-YAMGSGLRQSLKFEDVKRLPVLVP 370
                   ++   I      +L   + +  +        G   R ++    +  + + +P
Sbjct: 105 YCLFGGFVIRGKKIAEYEPYFLKLNLETPLIRHQIGSKSGGSTRFNVSQSILSSVEIKIP 164

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            I EQ  I+  ++      +  ++  +Q I LL+E++  F+  
Sbjct: 165 SINEQKKISKFMD----LFNKKIQLQQQKIDLLQEQKKGFLQK 203



 Score = 47.5 bits (111), Expect = 0.004,   Method: Composition-based stats.
 Identities = 27/185 (14%), Positives = 50/185 (27%), Gaps = 8/185 (4%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W+             +T    +D +     D      +      + R +         K
Sbjct: 223 DWEQREFGEIITERREKTKIENEDTLLSSAIDGMYLNSELF---SHFRGASNIGYLKIRK 279

Query: 84  GQILYGKLGPYLRKAIIAD--FDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
             ++      +L    I      GI S  + V    +V    +  W+      Q  E   
Sbjct: 280 NDMILSAQNLHLGNCNINQRFEHGIISPAYKVYSLVNVDAAFMHAWIKKDSTKQFFEKAT 339

Query: 142 E---GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
                    + +W  + +  + IP  +EQ  I E       RI     +     +  K  
Sbjct: 340 TEGASVCRKNIEWGTLYSQKIYIPIYSEQQKIGELFNVLDKRIQLQQQKLELLQKQKKGF 399

Query: 199 KQALV 203
            Q + 
Sbjct: 400 MQQMF 404


>gi|257440125|ref|ZP_05615880.1| ribosomal protein L10 [Faecalibacterium prausnitzii A2-165]
 gi|257197477|gb|EEU95761.1| ribosomal protein L10 [Faecalibacterium prausnitzii A2-165]
          Length = 387

 Score = 77.5 bits (189), Expect = 4e-12,   Method: Composition-based stats.
 Identities = 61/414 (14%), Positives = 125/414 (30%), Gaps = 50/414 (12%)

Query: 29  PIKRFTK--LNTGRTSESGKDIIYIGLEDVESGTGKYLPK-DGNSRQSDTSTVSIFAKGQ 85
            +    K  L+T    E    I Y+    +  G    +        +  +      + G 
Sbjct: 2   RLGDCGKTNLHTYSDKEKWSLIRYLDTGSITEGRIDEIQTLYPGVDKIPSRARRKASVGD 61

Query: 86  ILYGKLGPYLRKAIIAD---FDGICSTQFLVLQPKDVL--PELLQGWLLSIDVTQRIEAI 140
           IL+  + P  +   I +    + + ST F V+     +  P  +  +L    V + ++AI
Sbjct: 62  ILFSTVRPNQKHYGIIEAGTENLLVSTGFTVVTVDTTIADPYFIYYYLTQSSVIESLQAI 121

Query: 141 --CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
                +T        I +I + +P L  Q  I   +     +    I       + L  +
Sbjct: 122 AEQSTSTYPSIKPSDIEDIELDLPELETQKKIGSTLRMLDRK----IALNEEINDNLYAQ 177

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTE-----LNRKNTKLIE 253
            +A+                      +  +P  W       +        + +   +  E
Sbjct: 178 AKAIFDNHFI---------------NIDAIPAGWRKGNLLDIANYLNGLAMQKFRPQGHE 222

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
             +  L    + Q     +  L   S +   I+  G++VF +         L        
Sbjct: 223 IGLPVLKIKELRQGSCDDSSELCSLSIKPEYIIHNGDVVFSWSGSL-----LVDIWCGGT 277

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPP 371
             +      V     D  +  +L  ++ L +        +     +K E++ +  VL+P 
Sbjct: 278 CGLNQHLFKVTSDVYD-KWFYYLWTAHHLARFIAIAADKATTMGHIKREELAKAEVLIPC 336

Query: 372 IKEQFDITNV--INVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
            +      +    N     I  L+         L   R   +   +TG+ID+  
Sbjct: 337 EE------DYTSFNSIMQPIFELIISNRIESRKLAALRDELLPKLMTGEIDISD 384



 Score = 50.6 bits (119), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 24/190 (12%), Positives = 50/190 (26%), Gaps = 10/190 (5%)

Query: 21  IPKHWKVVPIKRFTKLNTG----RTSESGKDI--IYIGLEDVESGTGKYLPKDGNSRQSD 74
           IP  W+   +        G    +    G +I    + ++++  G+     +        
Sbjct: 192 IPAGWRKGNLLDIANYLNGLAMQKFRPQGHEIGLPVLKIKELRQGSCDDSSE---LCSLS 248

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
                I   G +++   G  L         G  +     +            W       
Sbjct: 249 IKPEYIIHNGDVVFSWSGSLLVDIWCGGTCG-LNQHLFKVTSDVYDKWFYYLWTAHHLAR 307

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
               A  +  TM H   + +    + IP   +       +      I +   E  +   L
Sbjct: 308 FIAIAADKATTMGHIKREELAKAEVLIPCEEDYTSFNSIMQPIFELIISNRIESRKLAAL 367

Query: 195 LKEKKQALVS 204
             E    L++
Sbjct: 368 RDELLPKLMT 377


>gi|91773783|ref|YP_566475.1| restriction modification system DNA specificity subunit
           [Methanococcoides burtonii DSM 6242]
 gi|91712798|gb|ABE52725.1| Restriction modification system DNA specificity subunit
           [Methanococcoides burtonii DSM 6242]
          Length = 391

 Score = 77.5 bits (189), Expect = 4e-12,   Method: Composition-based stats.
 Identities = 47/398 (11%), Positives = 108/398 (27%), Gaps = 41/398 (10%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
             +         +  +   +   I          +   +D + +Q+  +  +     Q  
Sbjct: 20  KKLGEVFIEVNEKVGQRNLETYSITAGQGFVSQKEKFGRDISGQQN--AKYTALQVNQFA 77

Query: 88  YGKLGPYLRKAII-----ADFDGICSTQFLVL------QPKDVLPELLQGWLLSIDVTQR 136
           Y K      K         D        F+               +L +   L   + Q 
Sbjct: 78  YNKGNSKKYKYGCVYLNTTDKQIAVPNVFISFKLIDNEMSSVFYAKLFENHYLDKGLRQI 137

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           I +      + + + K    + + +P   EQ  I   + +   ++  L  ++    +  K
Sbjct: 138 ISSSARMDGLLNVNKKYFFQLKIIVPTTPEQHKIAIFLTSVDEKLQALKKKKELLEQYKK 197

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
              Q L S  +    +      D   + +G +          A       K + +     
Sbjct: 198 GAMQKLFSQELRFKQDDGSAFPDWEEKKLGDI------FDIKAGGDIDKSKVSDIKTGLY 251

Query: 257 LSLSYGN-IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
               Y N   +K           S +   +   G +       +N    +R   ++ +  
Sbjct: 252 RYPIYSNSEKEKGLFGYSNSYSISEKCLTVTGRGRLGIAHARFENFYPIVRLLVLIPKIP 311

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
                               +     + ++ +A+ S     L    +    V  P   EQ
Sbjct: 312 ANV-----------------VFYENIINQLNFAIESTGVPQLTSPQISSYKVHYPSFTEQ 354

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
             I + +    + ID  +E + + I   +E +   +  
Sbjct: 355 EKIADFL----SSIDGSIENVGKQIEASQEWKKGLLQK 388



 Score = 66.4 bits (160), Expect = 8e-09,   Method: Composition-based stats.
 Identities = 22/189 (11%), Positives = 60/189 (31%), Gaps = 12/189 (6%)

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRF 295
               +  E+N K  +         +    + + E     +  +    Y  +   +  +  
Sbjct: 21  KLGEVFIEVNEKVGQRNLETYSITAGQGFVSQKEKFGRDISGQQNAKYTALQVNQFAYNK 80

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKP---HGIDSTYLAWLMRSYDLCKVFYAMGSG 352
            + +  K         ++ I             + + S + A L  ++ L K    + S 
Sbjct: 81  GNSKKYKYGCVYLNTTDKQIAVPNVFISFKLIDNEMSSVFYAKLFENHYLDKGLRQIISS 140

Query: 353 LRQ-----SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
             +     ++  +   +L ++VP   EQ  I   +     ++  L    ++   LL++ +
Sbjct: 141 SARMDGLLNVNKKYFFQLKIIVPTTPEQHKIAIFLTSVDEKLQAL----KKKKELLEQYK 196

Query: 408 SSFIAAAVT 416
              +    +
Sbjct: 197 KGAMQKLFS 205


>gi|195867489|ref|ZP_03079493.1| restriction-modification enzyme subunit s3a [Ureaplasma urealyticum
           serovar 9 str. ATCC 33175]
 gi|195660965|gb|EDX54218.1| restriction-modification enzyme subunit s3a [Ureaplasma urealyticum
           serovar 9 str. ATCC 33175]
          Length = 405

 Score = 77.5 bits (189), Expect = 4e-12,   Method: Composition-based stats.
 Identities = 49/398 (12%), Positives = 123/398 (30%), Gaps = 20/398 (5%)

Query: 32  RFTKLNTGRTSESGKD----------IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
             +++ +GR  ++ K+          I ++ ++++ + +     +  N  +   S V + 
Sbjct: 10  DISEIISGRGPKNVKNLQDFASQHGKINWLLVKNLINNSINNDFEKYNLDEEKHSLVKL- 68

Query: 82  AKGQILYGKLGPYLRKAIIADFDG-ICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
            K +++Y         AI   +D    +  F  + P + +      +   I       ++
Sbjct: 69  NKNELVYSMYATPGIVAINEFYDNLYINQSFCKIIPNENICLKKFLFYWLIKNKNYALSL 128

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL---ITERIRFIELLKE 197
             G T S+ +   I N  + +PP+ EQ  I   I             +            
Sbjct: 129 SSGTTQSNLNINKIRNFVIYLPPIEEQNAIISIIEPHEKLFIKYSNLVDISSVENTKKDV 188

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN--TKLIESN 255
                +   + K +     ++     ++    +        A + E + K+         
Sbjct: 189 DNLISIIEPLEKSIKTINLLQTKIGLFIEKTFNFINNNLANADLIEFSLKDLLNIKRGLP 248

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
           I      N        +   K      Y      +     I +  +   +          
Sbjct: 249 ITEKDLLNNPGNYPLISASSKNNGIFGYFNDYMYDGKNITISMNGNAGCIFYQIGKFSAN 308

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
                ++     + +    + +      ++        R  L    +++  VL+P ++ Q
Sbjct: 309 SDVLVLSNSNKNLTNIDYIYYLLKTKEKEIQNLAIGTTRFRLGNSVIEKFKVLLPNMEIQ 368

Query: 376 FDITNVINVETARIDVLVEKIEQSIV--LLKERRSSFI 411
            + + ++      +   V KIE+++   LLK  +   I
Sbjct: 369 KEFSKIVEPLL-NLSTKVNKIEKNLNECLLKIVKKLII 405


>gi|29349948|ref|NP_813451.1| putative typeI restriction enzyme MjaXP specificity protein
           [Bacteroides thetaiotaomicron VPI-5482]
 gi|29341859|gb|AAO79645.1| putative Type I restriction enzyme MjaXP specificity protein
           [Bacteroides thetaiotaomicron VPI-5482]
          Length = 428

 Score = 77.5 bits (189), Expect = 4e-12,   Method: Composition-based stats.
 Identities = 56/406 (13%), Positives = 127/406 (31%), Gaps = 42/406 (10%)

Query: 24  HWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDV-ESGTGKYLPKDGNSRQSDTS 76
            W    I     +  G T ++      G DI +    ++ ++    +  +       D S
Sbjct: 50  EWNKYTINDLATVVGGGTPDTTVKSYWGGDIQWFTPSEIGKNKYVDFSKRTITRDGLDNS 109

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
           +  +     IL          +I ++     +  F  L  K     +   + L     + 
Sbjct: 110 SAKLLPLHTILLSSRATVGECSIASNEC-TTNQGFQSLIAKQCN--IDFLYYLIQTKKKD 166

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           +     G+T        I  I + +P   EQ  I + +      ID  I  + + I+ LK
Sbjct: 167 LIRNACGSTFLEISANEIRKIKVAVPVQNEQEQIAKLL----SLIDERIATQNKIIDKLK 222

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
              + L   +   GL                       K   + V    ++    + +  
Sbjct: 223 SLIKGLPHKMAEIGLQK-----------------GCWEKVLLSTVLVERKELNSELYTVH 265

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI- 315
                  +I ++E        +    Y +   G+I++      +    +     +E+ + 
Sbjct: 266 SVSVSEGVINQIEYLGRSFAAKDTSNYHVARYGDIIYTKSPTGDFPYGIVKQSYIEQPVA 325

Query: 316 ITSAYMAVKPHGIDS--TYLAWLMRSYDLCKVFY-AMGSGLRQSLKFED--VKRLPVLVP 370
           I+  Y    P   ++      + M S       Y  +  G + ++   +       + +P
Sbjct: 326 ISPLYGVYSPTSFETGVYLHYYFMSSVLAKNYLYPLIQKGAKNTINISNQRFLENRIALP 385

Query: 371 PIKE-QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
             +  + +I   +     ++D  +EK   ++  L ++RS  +    
Sbjct: 386 LKQTDRHNIARALITIQKKLD--IEKC--AMDSLTKQRSYLLQQLF 427


>gi|315148960|gb|EFT92976.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX4244]
          Length = 387

 Score = 77.5 bits (189), Expect = 4e-12,   Method: Composition-based stats.
 Identities = 60/399 (15%), Positives = 118/399 (29%), Gaps = 42/399 (10%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + W++  +    +    R   S     +I +  +        P    S   DT T  +  
Sbjct: 18  EDWELCKLSTEFEKVNERNDGSLGKEHWISVAKMYFQN----PDKVQSNNIDTRTY-VMR 72

Query: 83  KGQILY----GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
            G I +     K   + R        G+ S  F + + K           + I+      
Sbjct: 73  TGDIAFEGHPNKEFKFGRFVANDIGTGVVSELFPIYRHKQEYDNYYWKNAIQIERVMGPI 132

Query: 139 AICE----GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
                   G + +  D        + IP L EQ  I   +     +IDT I    R ++ 
Sbjct: 133 FAKSITSSGNSSNKLDPNHFLRQQVFIPKLEEQSKIGLFL----KKIDTTIALHQRKLDQ 188

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
           LKE K+A +  +         K++ +  E        WE      +      K       
Sbjct: 189 LKELKKAYLQVMFPVKDERVPKLRLADFEG------EWEQCKLGDITKISTGKLDANAM- 241

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
                        +E           + Y+I  P           N            + 
Sbjct: 242 -------------VENGKYDFYTSGIKKYRIDVPAFEGPAITIAGNGATVGYMHLADNKF 288

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-PIK 373
                   ++   +D ++L   + +    K+     +G    +  + +  L + +P    
Sbjct: 289 NAYQRTYVLQEFVVDRSFLFSEVGNKLPKKINQEARTGNIPYIVMDMLTELKLSIPQDEA 348

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           EQ  I +       +ID  +   +  +  LK+ ++S++ 
Sbjct: 349 EQSKIGSF----FKQIDKTIALHQNKLEQLKDLKTSYLQ 383


>gi|303255274|ref|ZP_07341345.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae BS455]
 gi|302597743|gb|EFL64818.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae BS455]
          Length = 300

 Score = 77.5 bits (189), Expect = 4e-12,   Method: Composition-based stats.
 Identities = 26/202 (12%), Positives = 67/202 (33%), Gaps = 15/202 (7%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
           S  +++        +      +    +     IE     +   N I++L T+      E 
Sbjct: 107 SKSQYLRDHSTGATIPHLNKNILLDLQLELLGIEEQENIICILNTIKRLITKRKFQLDE- 165

Query: 280 YETYQIVDPGEIVFRFIDLQNDKR--SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
                 V+ G+++   ++            A   +   +      V  +   +    W +
Sbjct: 166 ----HKVEIGDVIISRMNTSELVGAAGYVWAINSDNIYLPDRLWKVILNDRVNPVFLWKL 221

Query: 338 ----RSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
               ++    K   +  SG  +++    + ++ V  PP+  Q +  + +    A +D   
Sbjct: 222 ITNEKTKLKIKRISSGTSGSMKNISKSQLLQIRVPFPPLALQNEFADFV----ALVDKSQ 277

Query: 394 EKIEQSIVLLKERRSSFIAAAV 415
             I++S+  L+  + S +    
Sbjct: 278 LAIQKSLEELETLKKSLMQEYF 299



 Score = 41.3 bits (95), Expect = 0.27,   Method: Composition-based stats.
 Identities = 29/253 (11%), Positives = 73/253 (28%), Gaps = 8/253 (3%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V +     L  G+ +    +   +    ++    +       +   + +         
Sbjct: 2   KKVKLGEVLSLKKGKKATVLAEQTTLSQRYIQIDDLRNNNNLKFTESLNMTEAL---PDD 58

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW--LLSIDVTQRIEAICEG 143
           IL    G             + ST  ++ + +    +++  +  +     +Q +     G
Sbjct: 59  ILIAWDGANAGTVGYGLSGAVGSTITVLKKNERYKEKIISDYLGVFLESKSQYLRDHSTG 118

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           AT+ H +   + ++ + +  + EQ  I   +      I      + +  E   E    ++
Sbjct: 119 ATIPHLNKNILLDLQLELLGIEEQENIICILNTIKRLITK---RKFQLDEHKVEIGDVII 175

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
           S + T  L        +       +PD          V  +        E   L +   +
Sbjct: 176 SRMNTSELVGAAGYVWAINSDNIYLPDRLWKVILNDRVNPVFLWKLITNEKTKLKIKRIS 235

Query: 264 IIQKLETRNMGLK 276
                  +N+   
Sbjct: 236 SGTSGSMKNISKS 248


>gi|3335668|gb|AAC78319.1| restriction-modification enzyme MpuUVI S subunit [Mycoplasma
           pulmonis]
          Length = 399

 Score = 77.1 bits (188), Expect = 4e-12,   Method: Composition-based stats.
 Identities = 45/370 (12%), Positives = 110/370 (29%), Gaps = 19/370 (5%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDII-YIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           ++  + +   L  G++  + K +   IG+ ++ S   K     G     D +        
Sbjct: 2   EIYKLGQILNLEKGKSKYNAKYVSQNIGIYNLYSSKTKDQGIFGKINSYDFNGEY----- 56

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            IL    G Y       +     ++   +L+  + + +      L +   +    +  G+
Sbjct: 57  -ILITTHGAYAGTVKYVNEKFSTTSNCFILKVDENIAKTKFLSYLLLLQEKTFNDMAIGS 115

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
              +     I +  + +P L  Q  I + I  +               E   +K  +++ 
Sbjct: 116 AYGYLKNYNINDFEVNLPNLKTQSAIIKIIEPKEDLFFRHKNLVRIDSEENTKKDLSILI 175

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
            I+   L   +   D  I        H+    F                  I  +  G I
Sbjct: 176 KIIEP-LEKQINAFDELILSEQKSLQHYLNYFFGKFYQIEPSLFHDYKLEKIAKIRRGKI 234

Query: 265 IQKLETRNM---------GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
           I   + +             K      Y      +  +  I               +  I
Sbjct: 235 INSFDLKENPGDYPVISSNTKNNGIFGYLNSYMYDGEYITISADGAYAGTVFLNNGKFSI 294

Query: 316 ITSAYMAVKPHGID--STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
               ++ +    ++  + +L + ++  +      ++    R S++   +  + + +P ++
Sbjct: 295 TNVCFILLLNDKVNLLTKFLFYYLKKNENIIQKKSIVGSSRPSVREYTLSEIAIKIPSLE 354

Query: 374 EQFDITNVIN 383
            Q  I  +I 
Sbjct: 355 IQSAILGIIE 364


>gi|325989582|ref|YP_004249281.1| type I restriction-modification system, specificity protein,
           probable fragment [Mycoplasma suis KI3806]
 gi|323574667|emb|CBZ40320.1| Type I restriction-modification system, specificity protein,
           probable fragment [Mycoplasma suis]
          Length = 390

 Score = 77.1 bits (188), Expect = 4e-12,   Method: Composition-based stats.
 Identities = 55/409 (13%), Positives = 112/409 (27%), Gaps = 36/409 (8%)

Query: 25  WKVVPIKRFTKLNTGRTSESGK---------DIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           W++V + +  +++ G                 +  IG ++V       L  + N      
Sbjct: 5   WELVTLDKLGRISKGIQKHKPNHDKKLFCFGKVPLIGCKEVSDSRLTVLKSNRNYNFYGL 64

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL---SID 132
               +F K  +   + G  +  + +  F+   S+      P   +              +
Sbjct: 65  LQSKLFPKNTVCVVETGSLVTDSALLKFEACLSSDLYGFIPFSKISTPTFIKYCLDAPKN 124

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
             +         T  H     +  +  P PPL  Q  I E +    + +D    +     
Sbjct: 125 KRKLKNLASLYITQPHLTLSKLFQVKFPKPPLEIQQKIGEILSRYDLILDNHERQIELLK 184

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
            L      +L      K   PD +   S       +P+ W    F  L      K     
Sbjct: 185 NLKA----SLFKEWFIKLRFPDYEKYSSE----NGIPEGWRKIRFGDLTEIQIGKKPASH 236

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
              +  L                         +V  G                      +
Sbjct: 237 SELLDGLGKYPFFTCSTKTKNSYTFSYDFPSLLVSAG------------GAYHCKFYDGK 284

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI 372
               T   ++       S  +   +    L K+     S   ++L  + +K + +L+P  
Sbjct: 285 FEASTHVLVSKLKFRKFSYLILEALNLVHLPKLQRFTFSVAIKNLSPQKLKEIEILIPD- 343

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
                I    N     I   +EK+E  +   +E +   + +  + +I +
Sbjct: 344 ---QKILEKFNNFWKNIHSKIEKLELKMQKYEEIKKKLLDSLFSQEIQV 389



 Score = 43.6 bits (101), Expect = 0.059,   Method: Composition-based stats.
 Identities = 31/203 (15%), Positives = 64/203 (31%), Gaps = 16/203 (7%)

Query: 3   HYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGK 62
            +  Y +Y  S       IP+ W+ +     T++  G+   S  +++     D       
Sbjct: 199 RFPDYEKY-SSE----NGIPEGWRKIRFGDLTEIQIGKKPASHSELL-----DGLGKYPF 248

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPE 122
           +            S    +    +L    G Y       D     ST  LV + K     
Sbjct: 249 FTCSTKTKNSYTFS----YDFPSLLVSAGGAY--HCKFYDGKFEASTHVLVSKLKFRKFS 302

Query: 123 LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
            L    L++    +++       + +   + +  I + IP                 +I+
Sbjct: 303 YLILEALNLVHLPKLQRFTFSVAIKNLSPQKLKEIEILIPDQKILEKFNNFWKNIHSKIE 362

Query: 183 TLITERIRFIELLKEKKQALVSY 205
            L  +  ++ E+ K+   +L S 
Sbjct: 363 KLELKMQKYEEIKKKLLDSLFSQ 385


>gi|265759583|ref|ZP_06090997.1| type I restriction enzyme EcoAI specificity protein [Bacteroides
           sp. 3_1_33FAA]
 gi|263233385|gb|EEZ19059.1| type I restriction enzyme EcoAI specificity protein [Bacteroides
           sp. 3_1_33FAA]
          Length = 237

 Score = 77.1 bits (188), Expect = 4e-12,   Method: Composition-based stats.
 Identities = 38/197 (19%), Positives = 74/197 (37%), Gaps = 7/197 (3%)

Query: 229 PDHWEVKPFFALVTELNRKNTK--LIESNILSLSYGNIIQKLETRNMGLKPESYE---TY 283
           P+ WE      +V EL    ++  L    I  L  GNI          L   S       
Sbjct: 11  PNGWEWCNLEDIVCELKYGTSEKSLSVGKIAVLRMGNITNVGTIDYSNLVYSSNNEDIKL 70

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC 343
             ++  +++F   +           +  +  I     + ++P  I S YL  +M S    
Sbjct: 71  YSLEKDDLLFNRTNSSEWVGKTAIYKKEQPAIYAGYLIRIRPILIFSDYLNTVMNSSYYR 130

Query: 344 KVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
              Y + +    + ++  + + +L + +PP+KEQ  I   +    + ID +    E    
Sbjct: 131 NWCYNVKTDAVNQSNINAQKLSQLMIPIPPLKEQERIVVEVAKWISLIDTIKNSKEDLQT 190

Query: 402 LLKERRSSFIAAAVTGQ 418
            +K+ +S  +  A+ G+
Sbjct: 191 TIKQAKSKILNLAIHGK 207



 Score = 64.4 bits (155), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 35/214 (16%), Positives = 80/214 (37%), Gaps = 10/214 (4%)

Query: 21  IPKHWKVVPIKRF-TKLNTGRTSESGK--DIIYIGLEDVES-GTGKYLPKDGNSRQSDTS 76
           +P  W+   ++    +L  G + +S     I  + + ++ + GT  Y     +S   D  
Sbjct: 10  LPNGWEWCNLEDIVCELKYGTSEKSLSVGKIAVLRMGNITNVGTIDYSNLVYSSNNEDIK 69

Query: 77  TVSIFAKGQILYGKLGP---YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
             S+  K  +L+ +        + AI           +L+     ++       +++   
Sbjct: 70  LYSL-EKDDLLFNRTNSSEWVGKTAIYKKEQPAIYAGYLIRIRPILIFSDYLNTVMNSSY 128

Query: 134 TQRIEAICEGA--TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            +      +      S+ + + +  + +PIPPL EQ  I  ++      IDT+   +   
Sbjct: 129 YRNWCYNVKTDAVNQSNINAQKLSQLMIPIPPLKEQERIVVEVAKWISLIDTIKNSKEDL 188

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWV 225
              +K+ K  +++  +   L P     +  IE +
Sbjct: 189 QTTIKQAKSKILNLAIHGKLVPQDPNDEPAIELL 222


>gi|308184242|ref|YP_003928375.1| Type I restriction/modification specificity protein [Helicobacter
           pylori SJM180]
 gi|308060162|gb|ADO02058.1| Type I restriction/modification specificity protein [Helicobacter
           pylori SJM180]
          Length = 413

 Score = 77.1 bits (188), Expect = 4e-12,   Method: Composition-based stats.
 Identities = 58/410 (14%), Positives = 116/410 (28%), Gaps = 35/410 (8%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGT-GKYLPKDGNSRQSDT 75
             W+   +K   K+ TG+T ++          ++I   D+         P+  +     +
Sbjct: 2   SEWQTFCLKDLGKIVTGKTPKTSNLDFFNGKYMFITPNDLHGTYRIIKTPRTLSDSGLKS 61

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
              +      IL G +G      +  D     + Q   +            +    +  +
Sbjct: 62  IQNNTIDNTSILVGCIGDVGMVRMCFDKCA-TNQQINSITDIKDFCNPYYLYYYLSNKKE 120

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI--- 192
             + I     +          I + +P +  Q  I   +     +I+             
Sbjct: 121 LFKNIALSTVVPIIPKTIFQEIEVLLPNIETQQKIARTLSVLDQKIENNHKINELLHKIL 180

Query: 193 ---ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNT 249
                    +   +            KMK S  E   L+P+ +EVK    LV   +  + 
Sbjct: 181 ELLYEQYFVRFDFLDENNKPYQTSGGKMKFS-KELNRLIPNDFEVKTLGELVDIFSGYSF 239

Query: 250 KLIESNILSLSYGNIIQK---------LETRNMGLKPESYETYQIVDPGEIVFRFIDLQN 300
           +    +     Y  I  K           T N+   P+    Y +++P  I+        
Sbjct: 240 QSNTYSNNKNDYILITNKNVQHSLVDLSVTTNLLFLPKKLPKYCLLEPTNILITLTGHIG 299

Query: 301 DKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW-LMRSYDLCKVFYAMG-SGLRQSLK 358
               + S    +  I+      V P   +     + L+R+     +         +Q+L 
Sbjct: 300 RCALVFS----KNCILNQRVGVVLPKEKELNPFYYSLIRNPLFSAILQRNAIGSSQQNLS 355

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
             D  ++ +          I    +     I  L+    QS   L   R 
Sbjct: 356 PIDTLKIQIPF-----NHKIIKQYSKTCENIIKLLVSNMQSTQTLTALRD 400



 Score = 53.3 bits (126), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 21/158 (13%), Positives = 51/158 (32%), Gaps = 8/158 (5%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTS------ESGKDIIYIGLEDVESGTGKY-LPKDGNSRQS 73
           IP  ++V  +     + +G +        +  D I I  ++V+       +  +      
Sbjct: 218 IPNDFEVKTLGELVDIFSGYSFQSNTYSNNKNDYILITNKNVQHSLVDLSVTTNLLFLPK 277

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV-LPELLQGWLLSID 132
                 +     IL    G   R A++   + I + +  V+ PK+  L       + +  
Sbjct: 278 KLPKYCLLEPTNILITLTGHIGRCALVFSKNCILNQRVGVVLPKEKELNPFYYSLIRNPL 337

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLI 170
            +  ++    G++  +        I +P      +   
Sbjct: 338 FSAILQRNAIGSSQQNLSPIDTLKIQIPFNHKIIKQYS 375


>gi|206603919|gb|EDZ40399.1| Putative Type I Restriction modification system, S subunit
           [Leptospirillum sp. Group II '5-way CG']
          Length = 360

 Score = 77.1 bits (188), Expect = 4e-12,   Method: Composition-based stats.
 Identities = 66/395 (16%), Positives = 131/395 (33%), Gaps = 39/395 (9%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W  VP++                + ++ LE +E  TG  L K+ +   +  S+   F  G
Sbjct: 3   WPAVPLREIAPPKASTQPFPDSFVWHLSLEQIEGDTGAVLAKNYDYSGNVGSSTFYFDTG 62

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFL--VLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
            +LY KL PYL K ++ D  GI +T+ +     PK + P  L  +L S +  ++      
Sbjct: 63  NVLYSKLRPYLNKVVVPDEPGIATTELIPLRPDPKVLNPRYLAFYLRSPNFVKQASHHVA 122

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           G  M            +P+PPL+EQ  I E +        +      +   ++      +
Sbjct: 123 GTKMPRVVMDWFWKHKIPLPPLSEQKRIVEILDEADRIRRSRREANQKAERIIPALFLKM 182

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
               V+                    P  W  K F  +  +    N KL     L     
Sbjct: 183 FGDPVSN-------------------PKGWPTKLFADIFRDTTAGNKKLQSKQFLEFGRI 223

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
            ++ + +++  G   +    Y+   P       + +  D   +         +       
Sbjct: 224 AVVDQGQSQIAGYTDDVALAYKGTFP-------VIVFGDHTRIFKFVDHPFVLGADGVRV 276

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
           +      +   A+       C++     +G  +    + +K    + P    Q    N  
Sbjct: 277 LITKPRYNPLFAYW-----HCQLLNMPIAGYSRHF--KFLKEKFFICPDKGLQDRFANFA 329

Query: 383 NVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
           ++ T++    +   E +   ++   S  +  A +G
Sbjct: 330 SIVTSQ----ISVFENAADRVERLFSVMLDRAFSG 360


>gi|171920601|ref|ZP_02931852.1| restriction-modification enzyme MpuUVI S subunit [Ureaplasma
           urealyticum serovar 13 str. ATCC 33698]
 gi|171903311|gb|EDT49600.1| restriction-modification enzyme MpuUVI S subunit [Ureaplasma
           urealyticum serovar 13 str. ATCC 33698]
          Length = 409

 Score = 77.1 bits (188), Expect = 4e-12,   Method: Composition-based stats.
 Identities = 48/392 (12%), Positives = 122/392 (31%), Gaps = 24/392 (6%)

Query: 29  PIKRFTKLNTGRTSESGKD----------IIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
            I   +++ +GR  ++ K+          I ++ ++++ + +     +  N  +   S V
Sbjct: 7   KILDISEIISGRGPKNVKNLQDFASQHGKINWLLVKNLINNSINNDFEKYNLDEEKHSLV 66

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDG-ICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
            +  K +++Y         AI   +D    +  F  + P + +      +   I      
Sbjct: 67  KL-NKNELVYSMYATPGIVAINEFYDNLYINQSFCKIIPNENICLKKFLFYWLIKNKNYA 125

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL---ITERIRFIEL 194
            ++  G T S+ +   I N  + +PP+ EQ  I   I             +         
Sbjct: 126 LSLSSGTTQSNLNINKIRNFVIYLPPIEEQNAIISIIEPHEKLFIKYSNLVDISSVENTK 185

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN--TKLI 252
                   +   + K +N    +K      +    D        +   +    +  T   
Sbjct: 186 KDVDNLISIIEPIEKVINNIKNIKIKIESLINKYFDFLYSDLEDSNFKKYILGDLFTINR 245

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
              I S    N I      +   K      Y      +  F  I            Q  +
Sbjct: 246 GQIINSKYIYNNIGPYPVVSSNTKNNGIFGYINSYMYDGEFITISADGAYAGTVFLQNGK 305

Query: 313 RGIITSAYMAVKPHG----IDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVL 368
             I    ++ +K        ++ ++ ++++         +     R +++   +K + + 
Sbjct: 306 FSITNVCFILMKNKDIDFKFNNKFVYYILKKEQEINRLKSQVGSSRPAVREYSLKEIKIN 365

Query: 369 VPPIKEQF---DITNVINVETARIDVLVEKIE 397
           +P ++ Q     I   +   + + + + + + 
Sbjct: 366 LPNMEIQEEFSKIVEPLLNLSTKANRIEKILN 397


>gi|189499173|ref|YP_001958643.1| N-6 DNA methylase [Chlorobium phaeobacteroides BS1]
 gi|189494614|gb|ACE03162.1| N-6 DNA methylase [Chlorobium phaeobacteroides BS1]
          Length = 775

 Score = 77.1 bits (188), Expect = 5e-12,   Method: Composition-based stats.
 Identities = 50/364 (13%), Positives = 108/364 (29%), Gaps = 53/364 (14%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W +V +    ++  G                  +  G      G    +     S   +G
Sbjct: 453 WPMVELVEVAEILKGSAITKKD-----------TKHGNIPVIAGGQEPAYYHNKS-NREG 500

Query: 85  QIL-YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
            ++     G Y             S    +    + +      + +     + I    +G
Sbjct: 501 DVITVSASGAYAGFVNYFTIPIFASDCSTIQTKDENIVSTRYLFSILKAKQEDIYEFQQG 560

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET------VRIDTLITERIRFIELLKE 197
               H   K +  I +P+PPL  Q  I  ++           +I      +I      ++
Sbjct: 561 GGQPHVYPKDLKTIKIPLPPLEIQEQIVAELDGYAGIIAGAKQIAQNWKPKIEIDPEWEK 620

Query: 198 KKQALVSYIVTKGLNPD---VKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
            K   +S  VTKG  P     + ++SGI ++                             
Sbjct: 621 VKLGEISDRVTKGTTPTTNGFQFQESGINFI----------------------------- 651

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
            I S+  G    + +  ++  +         +   +I+F          S+ S+ +    
Sbjct: 652 KIESIDDGGYFIREKLAHINQECNESLKRSQLKENDILFSIAGALGRVASIESSILPAN- 710

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIK 373
              +  +      +DS YL  ++RS  +    + +  G  + +L    V    + +P ++
Sbjct: 711 TNQALAIISPKKELDSKYLEQVLRSDLIQNQIFGLKVGVAQSNLSLAQVSDFEIPLPSLE 770

Query: 374 EQFD 377
            +  
Sbjct: 771 IKNK 774



 Score = 59.4 bits (142), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 19/166 (11%), Positives = 47/166 (28%), Gaps = 2/166 (1%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
           S I   G      +        T       +L+E   +        +  +  N+ +    
Sbjct: 427 SKIAENGDYNLSGDRYRVATDYTNAKWPMVELVEVAEILKGSAITKKDTKHGNIPVIAGG 486

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
            E     +        I +                I  S    ++    +     +L   
Sbjct: 487 QEPAYYHNKSNREGDVITVSASGAYAGFVNYFTIPIFASDCSTIQTKDENIVSTRYLFSI 546

Query: 340 YDLCK--VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
               +  ++     G +  +  +D+K + + +PP++ Q  I   ++
Sbjct: 547 LKAKQEDIYEFQQGGGQPHVYPKDLKTIKIPLPPLEIQEQIVAELD 592



 Score = 54.0 bits (128), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 28/157 (17%), Positives = 54/157 (34%), Gaps = 12/157 (7%)

Query: 20  AIPKHWKVVPIKRFTK-LNTGRTSESG------KDIIYIGLEDVESGTGKYLPKDGNSRQ 72
            I   W+ V +   +  +  G T  +         I +I +E ++ G      K  +  Q
Sbjct: 613 EIDPEWEKVKLGEISDRVTKGTTPTTNGFQFQESGINFIKIESIDDGGYFIREKLAHINQ 672

Query: 73  SDTSTVSI--FAKGQILYGKLGPYLRKAIIADF--DGICSTQFLVLQPKDVLPELLQGWL 128
               ++      +  IL+   G   R A I         +    ++ PK  L       +
Sbjct: 673 ECNESLKRSQLKENDILFSIAGALGRVASIESSILPANTNQALAIISPKKELDSKYLEQV 732

Query: 129 LSID-VTQRIEAICEGATMSHADWKGIGNIPMPIPPL 164
           L  D +  +I  +  G   S+     + +  +P+P L
Sbjct: 733 LRSDLIQNQIFGLKVGVAQSNLSLAQVSDFEIPLPSL 769


>gi|323971896|gb|EGB67120.1| type I restriction modification DNA specificity domain-containing
           protein [Escherichia coli TA007]
          Length = 390

 Score = 77.1 bits (188), Expect = 5e-12,   Method: Composition-based stats.
 Identities = 48/395 (12%), Positives = 106/395 (26%), Gaps = 54/395 (13%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYL-----PKDGNSRQSDTSTVSI 80
           +   + +  K   G    +G+      ++ +                      D     I
Sbjct: 17  EWQTLGKVLKRTKGTKITAGQ------MKALHKDNAPLKIFAGGKTVAFVDFKDIPEKDI 70

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
             +  I+    G    +    D       +       +    +   +          + I
Sbjct: 71  NREPSIIVKSRGII--EFEYYDKPFSHKNEMWSYHSNNDAISIKYIYYFLKINEGYFQKI 128

Query: 141 CEGATMSHADWKGIGNIPMPIPP-------LAEQVLIREKIIAETVRIDTLITERIRFIE 193
                M            +PIP        LA Q  I   +   T     L  E    + 
Sbjct: 129 GGKMQMPQIATPDTDKFEVPIPCPDNPEKSLAIQSEIVRILDKFTALTAELTAELTAELN 188

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEW--VGLVPDHWEVKPFFALVTELNRKNTKL 251
           + K++       +++         K+  +EW  +G V           + T  +     +
Sbjct: 189 MRKKQYNYYRDQLLS--------FKEGEVEWKTLGEV---------AVIGTGNHDTQDAI 231

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
                +  + G    KL   +                                +      
Sbjct: 232 EHGKYIFYARGREPLKLNVFDFDETA---------------IITAGDGAGVGKVFHYAKG 276

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
           +  +   AY  V    ++  ++   + +Y    +  A  S    SL+     + P+ VPP
Sbjct: 277 KYALHQRAYRIVPNAFMNPRFVYHYITAYFFTYIQKASVSSSVTSLRRPMFLKFPIPVPP 336

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
            +EQ  I  +++      + + E + + I L +++
Sbjct: 337 SEEQARIVEILDKFDTLTNSITEGLPREIELRQKQ 371


>gi|227510762|ref|ZP_03940811.1| possible type I site-specific deoxyribonuclease specificity subunit
           [Lactobacillus brevis subsp. gravesensis ATCC 27305]
 gi|227189764|gb|EEI69831.1| possible type I site-specific deoxyribonuclease specificity subunit
           [Lactobacillus brevis subsp. gravesensis ATCC 27305]
          Length = 304

 Score = 77.1 bits (188), Expect = 5e-12,   Method: Composition-based stats.
 Identities = 21/103 (20%), Positives = 42/103 (40%), Gaps = 8/103 (7%)

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL----RQSLKFEDVKRLPVLVPPI 372
           +  Y   + H +D  YL     S    +     G       R ++K +D  ++P+ +P +
Sbjct: 2   SPLYYIFRAHNVDGMYLEKYFSSTKWHRFMELNGDTGARADRFAIKDKDFVQMPIPLPNL 61

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           +EQ  I   +       D L+   ++ + LLKE +  ++    
Sbjct: 62  EEQSKIARFLENV----DNLIAANQRKLDLLKELKQGYLQKLF 100



 Score = 69.1 bits (167), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 46/298 (15%), Positives = 98/298 (32%), Gaps = 20/298 (6%)

Query: 108 STQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT---MSHADWKGIGNIPMPIPPL 164
           S  + + +  +V    L+ +  S    + +E   +            K    +P+P+P L
Sbjct: 2   SPLYYIFRAHNVDGMYLEKYFSSTKWHRFMELNGDTGARADRFAIKDKDFVQMPIPLPNL 61

Query: 165 AEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEW 224
            EQ  I   +          I    R ++LLKE KQ  +  +  +  +   +++ +G   
Sbjct: 62  EEQSKIARFLENVDNL----IAANQRKLDLLKELKQGYLQKLFPQNGSKFPQLRFAGFAD 117

Query: 225 VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE---SYE 281
                   +V       T           +           Q+  +++     E      
Sbjct: 118 AWEPRKLGDVANIVGGGTPSTSILEYWNGNIDWYAPAEIGEQRYVSKSQKTITELGLKKS 177

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD 341
           +  I+  G I+F           L S     R      + ++ P             +  
Sbjct: 178 SATILPVGTILFTSRAGIGKTAILAS-----RAATNQGFQSIVPRTEMLNSYFIFSETSK 232

Query: 342 LCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
           L K     G+G     +  + ++++P+++P +KEQ  I         ++D L+   ++
Sbjct: 233 LKKYGEITGAGSTFVEVSGKQMEKMPIILPILKEQEIIGKF----FKQLDKLIAANQR 286



 Score = 62.1 bits (149), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 34/186 (18%), Positives = 65/186 (34%), Gaps = 8/186 (4%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDV----ESGTGKYLPKDGNSRQS---DTST 77
           W+   +     +  G T  +     + G  D     E G  +Y+ K   +        S+
Sbjct: 119 WEPRKLGDVANIVGGGTPSTSILEYWNGNIDWYAPAEIGEQRYVSKSQKTITELGLKKSS 178

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
            +I   G IL+       + AI+A      +  F  + P+  +      +  +  + +  
Sbjct: 179 ATILPVGTILFTSRAGIGKTAILA-SRAATNQGFQSIVPRTEMLNSYFIFSETSKLKKYG 237

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           E    G+T      K +  +P+ +P L EQ +I +        I     +  +  EL K 
Sbjct: 238 EITGAGSTFVEVSGKQMEKMPIILPILKEQEIIGKFFKQLDKLIAANQRKVEKLKELKKG 297

Query: 198 KKQALV 203
             Q + 
Sbjct: 298 YMQKMF 303


>gi|331018717|gb|EGH98773.1| type I restriction-modification system specificity determinant
           [Pseudomonas syringae pv. lachrymans str. M302278PT]
          Length = 347

 Score = 77.1 bits (188), Expect = 5e-12,   Method: Composition-based stats.
 Identities = 47/337 (13%), Positives = 112/337 (33%), Gaps = 26/337 (7%)

Query: 107 CSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAE 166
            S  +  +    ++P  L  +  S+D   +++A+   +T +         + + +PP+  
Sbjct: 12  TSLTYYRVDQTKLIPLYLAAFFSSVDFQNQLKAVMGLSTRNQVPITAQRKLNVVVPPIEN 71

Query: 167 QVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS-----YIVTKGLNPDVK----- 216
           Q  I + +     RI  L         + +   ++            +GL P+       
Sbjct: 72  QRYIADTLGTLDDRISMLREINTTLEAIAQALFKSWFVDFDPVRAKAEGLEPEGMDAATA 131

Query: 217 --MKDSGIE-WVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNM 273
               DS  E  +GLVP  W       +     ++                 I +      
Sbjct: 132 ALFPDSFEELELGLVPSGWGCGVLGDVADTTRKQIQPSAMKAETLYVGLEHIPRQSLGLD 191

Query: 274 GLKPES--YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST 331
                          + G+I+F  +     K  +        G+ ++  +       D  
Sbjct: 192 SWASTDGLESAKSCFEKGDILFGKLRPYFHKIVIAPF----AGVCSTDILVCNAKVADYY 247

Query: 332 YLA-WLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
                 + S +L      + +G     + ++D+    +++PP++   + ++V++    +I
Sbjct: 248 GFVAMQLFSTELVAYADRLSNGAKMPRVNWKDLSDYALVIPPVEVAAEYSDVVHPLFEQI 307

Query: 390 DVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
                  E     L + R + +   ++GQ+ L  E++
Sbjct: 308 TA--NVHEAK--TLGQLRDTLLPRLISGQLRL-PEAE 339



 Score = 68.7 bits (166), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 47/190 (24%), Positives = 75/190 (39%), Gaps = 5/190 (2%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSES--GKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           +G +P  W    +         +   S    + +Y+GLE +   +         S     
Sbjct: 143 LGLVPSGWGCGVLGDVADTTRKQIQPSAMKAETLYVGLEHIPRQSLGLDS--WASTDGLE 200

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPE-LLQGWLLSIDVT 134
           S  S F KG IL+GKL PY  K +IA F G+CST  LV   K       +   L S ++ 
Sbjct: 201 SAKSCFEKGDILFGKLRPYFHKIVIAPFAGVCSTDILVCNAKVADYYGFVAMQLFSTELV 260

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
              + +  GA M   +WK + +  + IPP+       + +     +I   + E     +L
Sbjct: 261 AYADRLSNGAKMPRVNWKDLSDYALVIPPVEVAAEYSDVVHPLFEQITANVHEAKTLGQL 320

Query: 195 LKEKKQALVS 204
                  L+S
Sbjct: 321 RDTLLPRLIS 330


>gi|148927731|ref|ZP_01811170.1| restriction modification system DNA specificity domain [candidate
           division TM7 genomosp. GTL1]
 gi|147886922|gb|EDK72453.1| restriction modification system DNA specificity domain [candidate
           division TM7 genomosp. GTL1]
          Length = 335

 Score = 77.1 bits (188), Expect = 5e-12,   Method: Composition-based stats.
 Identities = 42/323 (13%), Positives = 95/323 (29%), Gaps = 13/323 (4%)

Query: 100 IADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPM 159
                 +   +  V     +L      ++         ++   G T    +   +  I +
Sbjct: 20  YKSKAYLVQGKIWVNNHAHILLARNNKYVKYALNYVDYQSYVTGTTRLKLNQSALKRIII 79

Query: 160 PIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKD 219
           P P   EQ  I  KI      ID   +         K  +Q+++  +  K       ++ 
Sbjct: 80  PFPDENEQKRIVAKIEELFSEIDNAESAITTASGYYKSYEQSIIDSLFAKYEAEAEMVEF 139

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
             I  +              +      +   + +           +   E + + +  E 
Sbjct: 140 GDIAEIKGGITKGRKLRGMPIGETPYLRVANVQD---------GYLYLDEIKTINVTAEE 190

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH--GIDSTYLAWLM 337
              Y +++   +     D     R       +E  I  +     +         Y+++  
Sbjct: 191 LRKYSLMNGDILFTEGGDKDKLGRGTIWHGEIELCIHQNHIFRARVDSGQFVPEYISYAT 250

Query: 338 RSYDLCKVFYAMGSGLR--QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
           ++      F +         SL    +K L +   P+ +Q +I   I  + + I    ++
Sbjct: 251 KTTRARDYFLSKAKQTTNLASLNMTSLKNLQLPSIPLAQQKEIVESIVTKLSEIKSARKE 310

Query: 396 IEQSIVLLKERRSSFIAAAVTGQ 418
           +  +    K  R S +A A  G+
Sbjct: 311 LIVAHHRSKALRQSILAKAFKGE 333



 Score = 48.6 bits (114), Expect = 0.002,   Method: Composition-based stats.
 Identities = 31/200 (15%), Positives = 69/200 (34%), Gaps = 14/200 (7%)

Query: 26  KVVPIKRFTKLNTGRTSESG------KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           ++V      ++  G T           +  Y+ + +V+ G          +  ++     
Sbjct: 135 EMVEFGDIAEIKGGITKGRKLRGMPIGETPYLRVANVQDGYLYLDEIKTINVTAEELRKY 194

Query: 80  IFAKGQILYGKLGP---YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
               G IL+ + G      R  I      +C  Q  + + +    + +  ++     T R
Sbjct: 195 SLMNGDILFTEGGDKDKLGRGTIWHGEIELCIHQNHIFRARVDSGQFVPEYISYATKTTR 254

Query: 137 IEAIC-----EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
                     +   ++  +   + N+ +P  PLA+Q  I E I+ +   I +   E I  
Sbjct: 255 ARDYFLSKAKQTTNLASLNMTSLKNLQLPSIPLAQQKEIVESIVTKLSEIKSARKELIVA 314

Query: 192 IELLKEKKQALVSYIVTKGL 211
               K  +Q++++      L
Sbjct: 315 HHRSKALRQSILAKAFKGEL 334


>gi|71906941|ref|YP_284528.1| restriction modification system DNA specificity subunit
           [Dechloromonas aromatica RCB]
 gi|71846562|gb|AAZ46058.1| Restriction modification system DNA specificity domain
           [Dechloromonas aromatica RCB]
          Length = 285

 Score = 77.1 bits (188), Expect = 5e-12,   Method: Composition-based stats.
 Identities = 38/288 (13%), Positives = 86/288 (29%), Gaps = 17/288 (5%)

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
              A+ ++     +G + + +P + +Q  I   +      I+              E  +
Sbjct: 3   HGAASQANVSPSQVGGLEIVLPNIEQQRRIASILSTYDDLIENNTRRIAILE----EMAR 58

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR------KNTKLIES 254
            +          P  +         G++P+ W++         +        K+    + 
Sbjct: 59  RIYEEWFVHFRFPLHEQVKMVESEFGVIPEGWKITSLGEAFNIVLGGTPSRNKSEYWDQG 118

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
            I  ++ G +     T       +                 I +        S    E  
Sbjct: 119 TIPWINSGKVNDLRITTPSEYITDLGLKKSAAKLMPAATTVIAITGATLGQVSYLCTEMS 178

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKE 374
              S        G  S Y+  L+++  +  +      G +Q +  E V  + +++PP   
Sbjct: 179 ANQSVVGVFDASGKYSEYIYRLIQN-RIMAIIQHASGGAQQHINKEIVNDVVLVLPPDD- 236

Query: 375 QFDITNVINVETAR-IDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
                  +   TA  I  L+  +      L+  R   +   V+G++D+
Sbjct: 237 ----VLSLFNNTALPIGELINTLLHKNANLRTTRDLLLPKLVSGELDV 280



 Score = 63.3 bits (152), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 28/201 (13%), Positives = 57/201 (28%), Gaps = 12/201 (5%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYLPKDGNSR 71
           G IP+ WK+  +     +  G T    K        I +I    V         +     
Sbjct: 84  GVIPEGWKITSLGEAFNIVLGGTPSRNKSEYWDQGTIPWINSGKVNDLRITTPSEYITDL 143

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
               S   +      +    G  L +      +   +    V             + L  
Sbjct: 144 GLKKSAAKLMPAATTVIAITGATLGQVSYLCTEMSANQSV-VGVFDASGKYSEYIYRLIQ 202

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
           +    I     G    H + + + ++ + +PP      +        + I  LI   +  
Sbjct: 203 NRIMAIIQHASGGAQQHINKEIVNDVVLVLPP----DDVLSLFNNTALPIGELINTLLHK 258

Query: 192 IELLKEKKQALVSYIVTKGLN 212
              L+  +  L+  +V+  L+
Sbjct: 259 NANLRTTRDLLLPKLVSGELD 279



 Score = 53.6 bits (127), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 14/60 (23%), Positives = 31/60 (51%), Gaps = 4/60 (6%)

Query: 347 YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
            A G+  + ++    V  L +++P I++Q  I ++++      D L+E   + I +L+E 
Sbjct: 1   MAHGAASQANVSPSQVGGLEIVLPNIEQQRRIASILST----YDDLIENNTRRIAILEEM 56


>gi|332969663|gb|EGK08679.1| restriction modification system DNA specificity protein [Desmospora
           sp. 8437]
          Length = 241

 Score = 77.1 bits (188), Expect = 5e-12,   Method: Composition-based stats.
 Identities = 32/181 (17%), Positives = 60/181 (33%), Gaps = 17/181 (9%)

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
              I S +   +  +    +         E  + Y   +  +++F  I    +   +  A
Sbjct: 21  DDNICSFVPMAAVDDFTGSISVLEKRPFGEVKKGYTYFEENDVLFAKITPCMENGKVAVA 80

Query: 309 ----QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDV 362
                    G      +      I    +  L+RS    K   A+ +G   +Q +    +
Sbjct: 81  KGLINNFGFGTTEFHVIRCSHLNIHPRLVYHLVRSDFFRKQAKAVMTGAVGQQRVPKLFL 140

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ----SIV-LLKERRSSFIAAAVTG 417
           +  P  VPP  EQ +I  V++      D+L+ + E      I   L     S +  A  G
Sbjct: 141 EGYPFPVPPFDEQEEIVKVVD------DLLMHEYETFTTLEIEGHLNSLTQSILTQAFRG 194

Query: 418 Q 418
           +
Sbjct: 195 E 195



 Score = 63.3 bits (152), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 30/210 (14%), Positives = 69/210 (32%), Gaps = 14/210 (6%)

Query: 29  PIKRFTKLNTGR----TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
            +   T +N G+             ++ +  V+  TG     +           + F + 
Sbjct: 2   RLGELTVINPGKPRKLEYPDDNICSFVPMAAVDDFTGSISVLEKRPFGEVKKGYTYFEEN 61

Query: 85  QILYGKLGPYLRKAIIADFDGICST--------QFLVLQPKDVLPELLQGWLLSIDVTQR 136
            +L+ K+ P +    +A   G+ +           +     ++ P L+   + S    ++
Sbjct: 62  DVLFAKITPCMENGKVAVAKGLINNFGFGTTEFHVIRCSHLNIHPRLVYHLVRSDFFRKQ 121

Query: 137 IEAICEG-ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            +A+  G           +   P P+PP  EQ  I + +    +      T       L 
Sbjct: 122 AKAVMTGAVGQQRVPKLFLEGYPFPVPPFDEQEEIVKVVDDLLMHEYETFTTLEIEGHL- 180

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWV 225
               Q++++      L      ++S +E +
Sbjct: 181 NSLTQSILTQAFRGELGTHDPAEESALELL 210


>gi|227487584|ref|ZP_03917900.1| restriction-modification system specificity determinant
           [Corynebacterium glucuronolyticum ATCC 51867]
 gi|227092402|gb|EEI27714.1| restriction-modification system specificity determinant
           [Corynebacterium glucuronolyticum ATCC 51867]
          Length = 384

 Score = 77.1 bits (188), Expect = 5e-12,   Method: Composition-based stats.
 Identities = 48/402 (11%), Positives = 102/402 (25%), Gaps = 28/402 (6%)

Query: 23  KHWKVVPIKRFTKLNTGR-TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           + W  V +                +D  ++ L+ +  G                    I 
Sbjct: 4   EQWPTVKLGTLLSPVGVAERITQPEDETFVTLK-LHGGGAVPRNIGAGKTPKPFIGFRI- 61

Query: 82  AKGQILYGKLGPYLRKAIIADF---DGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR-- 136
              Q +Y ++        I        + S  F V    +++      +  +    ++  
Sbjct: 62  RTNQFIYSRIDARNGAFAIVPKALDGAVVSKDFPVFSIGELVESRYLAYFCTTPSFEKLV 121

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
                              ++ +P+PPL EQ  I  K+      I  +            
Sbjct: 122 QVKSSGATNRQRIKEDLFLSLEIPLPPLEEQRRIARKLSLNQSTILRIQKSIEMLENFRV 181

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
           +    +        L             +G   D +               +  L+    
Sbjct: 182 QSAVRMFESARQTLL-------------LGDFCDTFGGTSLPTESPFKGEDSGILLMRVS 228

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
              S GN +    T +        +   +   G  +             R A        
Sbjct: 229 DMNSVGNELFINSTVSWSDDDSFMKRNFVAPAGSTILPKRGASISTNKKRLAVRPTYLDP 288

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
               +      +    + +  +++DL  +           L  +D+  L + +P    Q 
Sbjct: 289 NLMGVLPDSTVLKGVCMYYWFKTFDLNSI---TSGSSVPQLNKKDLTPLQIPIPDPNTQD 345

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
                      +   +   ++Q I L +E +SS    A TG+
Sbjct: 346 MFV----KLFNQTLAIERHLQQQIALARELQSSLSTRAFTGE 383


>gi|257463920|ref|ZP_05628306.1| restriction endonuclease S subunit [Fusobacterium sp. D12]
 gi|317061447|ref|ZP_07925932.1| type I restriction-modification enzyme [Fusobacterium sp. D12]
 gi|313687123|gb|EFS23958.1| type I restriction-modification enzyme [Fusobacterium sp. D12]
          Length = 392

 Score = 77.1 bits (188), Expect = 5e-12,   Method: Composition-based stats.
 Identities = 40/198 (20%), Positives = 72/198 (36%), Gaps = 5/198 (2%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
           S  E    +PD W     F    E   K  K + S   +   G I     T  +G   + 
Sbjct: 19  SKEEQPYEIPDSWVWGYMFFAFAECLDKYRKPVNSAERANRIGKIPYYGATGQVGWIDDF 78

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
               ++V  GE    F+DL  +K  +    +  +  + +    +K        L +L+  
Sbjct: 79  LTDDELVLVGEDGAPFLDLLKNKAYM----IQGKAWVNNHAHILKSFYGHFGNL-YLLNY 133

Query: 340 YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
            ++      +    R  L    +  +P+ +PP KEQ  I   I+    +     E I++ 
Sbjct: 134 LNIFDFSKYVNGTTRLKLTQSKLAEIPIPIPPKKEQQRIVEKIDSLFEKTKKAKELIQEV 193

Query: 400 IVLLKERRSSFIAAAVTG 417
              ++ R+ S +  A  G
Sbjct: 194 KEEIEMRKISILNKAFRG 211



 Score = 42.9 bits (99), Expect = 0.11,   Method: Composition-based stats.
 Identities = 10/116 (8%), Positives = 27/116 (23%), Gaps = 6/116 (5%)

Query: 20  AIPKHWKVVPIKRFTKLNTG---RTSESGK--DIIYIGLEDVESGTGKYLPKDGNSRQSD 74
            IP  WK V ++    +       T +  +  +  +I   ++                ++
Sbjct: 277 KIPDTWKWVKLENIITILGDGLHGTPKYNENGEYYFINGSNLSFKNIVINSSTKKVSTAE 336

Query: 75  TSTVSI-FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
                    +  I     G   +     +   I       +   +   +       
Sbjct: 337 YKKYKKNLNERTIFLSINGTLGKTGFYNNEKIILGKSVCYINLCNNCNKKFYSLFF 392


>gi|23452745|gb|AAN33143.1| putative type I specificity subunit HsdS [Campylobacter jejuni]
          Length = 404

 Score = 77.1 bits (188), Expect = 5e-12,   Method: Composition-based stats.
 Identities = 51/409 (12%), Positives = 111/409 (27%), Gaps = 35/409 (8%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESG--TGKYLPKDGNSRQSDT 75
           P   +   +    +L+     +      K++  +   DV +     K +P    +     
Sbjct: 13  PNGVEFKNLWEIGELSNTGVDKKIRENQKEVFLLNFLDVMNNHYINKNIPSMKVTASEAE 72

Query: 76  STVSIFAKGQILYGKLGPYLRKAII--------ADFDGICSTQFLVLQPKDVLPELLQGW 127
                  K  +        + +            +           +  + + P  L+  
Sbjct: 73  IQKCNILKNDLFITPSSENINEIGFASVAIEDMPNVCYSYHIMRFRIFNRQINPYFLRYC 132

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
             S ++ ++I    +G T          N+ +PIPPL  Q  I + +   T     L  E
Sbjct: 133 FDSENLRKQILKNAQGITRFGLTQPKWKNLQIPIPPLEIQEEIVKILDTFTELEAELEAE 192

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK 247
                   +  +  L+S                  E++      +E+K    +       
Sbjct: 193 LEARRRQYEYYRNKLLS-----------------FEYLKTNGGGYELKMLGEICERQKGI 235

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
           N    E   +++  G+I      +            Q +     +        D      
Sbjct: 236 NITAGEMEKIAIQNGDIRIFAGGKTFIDTKMELLQEQNILKKTSIIVKSRGYVDFEYYAK 295

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
               +  + + +               +L    +  +      +     L   D  R  +
Sbjct: 296 PFTHKNELWSYSLNPDTKDINLKFIFYYLKNKVEYFQKIARANAVKIPQLAVADTDRFQI 355

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
            +PP+  Q  I N+++   A    L   I   I   K+     R+  + 
Sbjct: 356 PIPPLATQEKIVNILDQFHALTTDLQSGIPAEIEARKKQYEYYRNQLLT 404


>gi|313678341|ref|YP_004056081.1| type I restriction modification system, S subunit [Mycoplasma bovis
           PG45]
 gi|312950575|gb|ADR25170.1| putative type I restriction modification system, S subunit
           [Mycoplasma bovis PG45]
          Length = 385

 Score = 77.1 bits (188), Expect = 5e-12,   Method: Composition-based stats.
 Identities = 48/393 (12%), Positives = 113/393 (28%), Gaps = 33/393 (8%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+   ++     ++     S                GK+   D N     T     F   
Sbjct: 19  WEQKKLRNVVSYHSSVMIASD-----------VKKYGKFDVYDPNKIVGKTDAE-PFRSD 66

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            I   K G   R  ++     I ST   +       P  +      ++    +     G+
Sbjct: 67  YISIVKDGDAGRIRLLPKNTMILST---MGALIAKDPFKIDFLYYMLNAINDLARERNGS 123

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
            + H  +K  G     +P   EQ  I          I     + +    L          
Sbjct: 124 IIPHIYFKDYGQNIYNLPSTPEQSKISSLFTRLDSLITLHQRKLLSLKNLKSRL------ 177

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
            +     +   +      +      + W+V        E  +++ +      ++      
Sbjct: 178 -LDRMFCDEKSQFPSIRFKEFTNTWEQWKVGDLITERIEFTKESNEFPLMAFVANEGVVA 236

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY-MAV 323
             +   R+  ++    + Y++   G+ ++   +L    R    A       I+  Y +  
Sbjct: 237 KGERYDRSSLVRDIYNKIYKVTKYGDFIYSSNNLD---RGSIGANKYGNACISPVYSIFK 293

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDITN 380
             +  D  ++  ++  +           G+   +  +       + +  P I EQ  I  
Sbjct: 294 CTNSSDHNFIKNILSRHSFVNKLLKYRQGVVYGQLKIHESIFLNINLNSPSILEQNKIGK 353

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           +       +D L+   ++ +  LK  +++ +  
Sbjct: 354 I----FYNLDSLITLHQRKLNSLKNIKNTLLDK 382


>gi|194398404|ref|YP_002037175.1| type I restriction-modification system subunit S [Streptococcus
           pneumoniae G54]
 gi|194358071|gb|ACF56519.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae G54]
          Length = 432

 Score = 77.1 bits (188), Expect = 5e-12,   Method: Composition-based stats.
 Identities = 27/158 (17%), Positives = 59/158 (37%), Gaps = 8/158 (5%)

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
           + +      +K       + V  G  +            L     +  G +    ++   
Sbjct: 42  KYINNVKEKIKKSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLA---ISNYE 98

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
           + ++  YL +++ S  +   F ++ SG   ++L  + V  + + +PP+ EQ  I   I  
Sbjct: 99  NSLNKDYLFYILSSNVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLSEQQRIIEAIES 158

Query: 385 ETARIDVLVEKIEQSIVLLKE----RRSSFIAAAVTGQ 418
              ++D   E   +   L KE     + S +  A+ G+
Sbjct: 159 ALEKVDEYAESYNRLEQLDKEFPDKLKKSILQYAMQGK 196



 Score = 68.3 bits (165), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 63/428 (14%), Positives = 128/428 (29%), Gaps = 71/428 (16%)

Query: 33  FTKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
             ++  G +    KD        I +I + D E G           ++S  +      KG
Sbjct: 6   LVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINNVKEKIKKSGLNKTRFVKKG 65

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID-VTQRIEAICEG 143
             L      + R  I+     I      +   ++ L +    ++LS + V  +  ++  G
Sbjct: 66  TFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYLFYILSSNVVYSQFLSLISG 125

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK---- 199
           A + + +   + +I +P+PPL+EQ  I E I +   ++D       R  +L KE      
Sbjct: 126 AVVKNLNSDKVASILIPLPPLSEQQRIIEAIESALEKVDEYAESYNRLEQLDKEFPDKLK 185

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWV---------------------------------- 225
           ++++ Y +   L       +S    +                                  
Sbjct: 186 KSILQYAMQGKLVEQDPNDESVEVLLEKIRAEKQKLFEEGKIKKKDLDISIVSQGDDNSY 245

Query: 226 ------------GLVPDHWEVKPFFALVTELNRKNTK-----LIESNILSLSYGNIIQKL 268
                         +P+ W    F +LV     K           + I  +S  ++    
Sbjct: 246 YGNKDETTSYPIYEIPEAWRYIKFASLVNFRIGKTPPRSEATFWGTEIPWVSISDMPISG 305

Query: 269 ETRN----MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
              N    +       +   I   G ++  F         L         II+  +    
Sbjct: 306 YVTNTRESISKLALKSKKIDISPKGTLLMSFKLSIGKVAILDIPATHNEAIIS-IFPYAN 364

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
              I   YL   +              G  ++L    +  L + +   +E   I + +++
Sbjct: 365 KENIIRDYLMIFLPLISTLGDSKDAIKG--KTLNSTSISELLIPISNHEEMKRIISKVDL 422

Query: 385 ETARIDVL 392
              ++  L
Sbjct: 423 LFQKVSQL 430



 Score = 48.3 bits (113), Expect = 0.003,   Method: Composition-based stats.
 Identities = 19/119 (15%), Positives = 43/119 (36%), Gaps = 8/119 (6%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDV-ESGTGKYLPKDGNS 70
           I  IP+ W+ +          G+T    +      +I ++ + D+  SG      +  + 
Sbjct: 257 IYEIPEAWRYIKFASLVNFRIGKTPPRSEATFWGTEIPWVSISDMPISGYVTNTRESISK 316

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
               +  + I  KG +L       + K  I D     +   + + P      +++ +L+
Sbjct: 317 LALKSKKIDISPKGTLLMS-FKLSIGKVAILDIPATHNEAIISIFPYANKENIIRDYLM 374


>gi|157415312|ref|YP_001482568.1| hypothetical protein C8J_0992 [Campylobacter jejuni subsp. jejuni
            81116]
 gi|157386276|gb|ABV52591.1| hypothetical protein C8J_0992 [Campylobacter jejuni subsp. jejuni
            81116]
 gi|315932187|gb|EFV11130.1| type I restriction modification DNA specificity domain protein
            [Campylobacter jejuni subsp. jejuni 327]
          Length = 1190

 Score = 77.1 bits (188), Expect = 5e-12,   Method: Composition-based stats.
 Identities = 46/404 (11%), Positives = 125/404 (30%), Gaps = 31/404 (7%)

Query: 27   VVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGT-GKYLPKDGNSRQSDTSTVS 79
            +V +K       G T           DI ++ + D  +        +         S   
Sbjct: 801  LVKLKICGDFFMGGTPSRKNINYWNGDIKWLTISDYSNHQVIMDTKEKITREGFKNSNAK 860

Query: 80   IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
            +  KG ++   +   + +  I   D   +   + + P +        + +      ++  
Sbjct: 861  MIQKGAVVVS-IYATIGRVGILGEDMTTNQAIVAIIPNEEFINKYLMYAI-DYFKFQLYN 918

Query: 140  ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
                 +  + +   + N+ +P PPL  Q  I  +      + +TL      +  L+K   
Sbjct: 919  EVITTSQQNINLGILQNMVIPKPPLEIQKQIVAECEKIEEQYNTLSLSIKEYQNLIKAML 978

Query: 200  QA--LVSYIVTKGLNP------DVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
            Q   ++       LN       ++   +   E++       +       + +L+     L
Sbjct: 979  QKCGIIEDNQEYELNSILDKINNLCKINLDSEFLSSFNKTIKEYALSNPIFKLSIGKRVL 1038

Query: 252  IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
                + +         +      +  E  + Y      + V   ID       +   +  
Sbjct: 1039 NNELLENGQIPVYSANVLEVFGFVNKEILQDY----DNDSVLWGIDGDWMVGFIPKNKKF 1094

Query: 312  ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
                             ++ Y+++++      + F       +     + +K L V +P 
Sbjct: 1095 YPTDHCGVLRVDDTKI-NAKYISFILNEAGKKQGFSR-----KLRASIDRIKALRVKLPS 1148

Query: 372  IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            ++ Q  I ++I+    +I+  + + +  +  L++ +   +   +
Sbjct: 1149 LEFQDQIADIID----KIEKKINEYKIELDRLEKEKEKILQKYL 1188


>gi|303270059|ref|ZP_07355777.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae BS458]
 gi|302640405|gb|EFL70834.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae BS458]
          Length = 195

 Score = 77.1 bits (188), Expect = 5e-12,   Method: Composition-based stats.
 Identities = 20/161 (12%), Positives = 56/161 (34%), Gaps = 11/161 (6%)

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKR--SLRSAQVMERGIITS 318
             +     E +N+ +     +    V+ G+++   ++            A   +   +  
Sbjct: 39  SYDYFNSSEVKNLPIDYIPLDE-HKVEIGDVIISRMNTSELVGAAGYVWAINSDNIYLPD 97

Query: 319 AYMAVKPHGIDSTYLAWLM----RSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKE 374
               V  +   +    W +    ++    K   +  SG  +++    + ++ V  PP+  
Sbjct: 98  RLWKVILNDRVNPVFLWKLITNEKTKLKIKRISSGTSGSMKNISKSQLLQIRVPFPPLAL 157

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           Q +  + +    A +D     I++S+  L+  + S +    
Sbjct: 158 QNEFADFV----ALVDKSQLAIQKSLEELETLKKSLMQEYF 194


>gi|84489291|ref|YP_447523.1| hypothetical protein Msp_0480 [Methanosphaera stadtmanae DSM 3091]
 gi|84372610|gb|ABC56880.1| HsdS [Methanosphaera stadtmanae DSM 3091]
          Length = 405

 Score = 77.1 bits (188), Expect = 5e-12,   Method: Composition-based stats.
 Identities = 43/401 (10%), Positives = 99/401 (24%), Gaps = 51/401 (12%)

Query: 24  HWKVVPIKRFTK-LNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            W    +      +     +   K  + I  +       ++  K   S+        +  
Sbjct: 42  EWITYKLCDVVTRIIRKNKNLETKRPLTISAKYGLIDQIEFFDKYVASKNLK--GYYLLK 99

Query: 83  KGQILYGKLGPYLRKAIIAD-----FDGICSTQFLVLQPKDVLPELL-QGWLLSIDVTQR 136
           KG+  Y K                   G  ST ++  +  + +     + +  S    + 
Sbjct: 100 KGEFAYNKSYSNGFPYGAVKRLDLYNQGAISTLYICFEITNKINSNFLKIYFDSNKWNKE 159

Query: 137 IEAICEGATMSH----ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           +  I      +H           N     P ++EQ  I + + A   +I  +  E  +  
Sbjct: 160 MYKIAVEGARNHGLLNIPINDFFNTKHLFPSISEQEKIADFLSAIDKKIGFMEKEINKQS 219

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           +                       MK      +    D+        +      K     
Sbjct: 220 K----------------------YMKKIRENILNDNSDNSNKVQLKEICIINKGKQLNKT 257

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
                         K    N G  P  +     V    I               +  V +
Sbjct: 258 NMI--------NDGKYYVLNGGKTPSGFTNSWNVPENTISISEGGNS---CGFVNYNVQK 306

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI 372
                  Y            L +     +  K+          +++ +D+++  + +P  
Sbjct: 307 FYCGGHCYYLTNISDEIDPLLLYHCLKMNENKIMNLRVGSGLPNIQKKDLEKYKLYIPTK 366

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
                    I      I++ ++  ++ +  LK+ +   +  
Sbjct: 367 NH-----EKITYLLNNINLKIDLNKEKLNHLKQFKKGLLQK 402



 Score = 67.9 bits (164), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 36/207 (17%), Positives = 71/207 (34%), Gaps = 8/207 (3%)

Query: 215 VKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS-YGNIIQKLETRNM 273
              K+            W       +VT + RKN  L     L++S    +I ++E  + 
Sbjct: 26  QCNKNIPELRFPEFEGEWITYKLCDVVTRIIRKNKNLETKRPLTISAKYGLIDQIEFFDK 85

Query: 274 GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER--GIITSAYMAVKPHGIDST 331
            +  ++ + Y ++  GE  +                 +     I T        + I+S 
Sbjct: 86  YVASKNLKGYYLLKKGEFAYNKSYSNGFPYGAVKRLDLYNQGAISTLYICFEITNKINSN 145

Query: 332 YLAWLMRSYDLCKVFYAMG-SGLRQ----SLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
           +L     S    K  Y +   G R     ++   D      L P I EQ  I + ++   
Sbjct: 146 FLKIYFDSNKWNKEMYKIAVEGARNHGLLNIPINDFFNTKHLFPSISEQEKIADFLSAID 205

Query: 387 ARIDVLVEKIEQSIVLLKERRSSFIAA 413
            +I  + ++I +    +K+ R + +  
Sbjct: 206 KKIGFMEKEINKQSKYMKKIRENILND 232


>gi|297519230|ref|ZP_06937616.1| specificity determinant for hsdM and hsdR [Escherichia coli OP50]
          Length = 278

 Score = 77.1 bits (188), Expect = 5e-12,   Method: Composition-based stats.
 Identities = 25/149 (16%), Positives = 50/149 (33%), Gaps = 6/149 (4%)

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
                          V P +++       N      +    E  ++      ++      
Sbjct: 66  NTSTYYSGQIPEGYWVYPEDLIVGMDGDFN-----ATIWCSEPALLNQRVCKIEVQEDKY 120

Query: 331 TYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
               +            A  S    + L    ++   + +PP+ EQ  I   ++   A++
Sbjct: 121 NKRFFYHALPGYLSAINANTSSVTVKHLSSRTLQDTLLPLPPLAEQKIIAEKLDTLLAQV 180

Query: 390 DVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           D    ++EQ   +LK  R + +AAAVTG+
Sbjct: 181 DSTKARLEQIPQILKRFRQAVLAAAVTGR 209


>gi|331087341|ref|ZP_08336409.1| hypothetical protein HMPREF0987_02712 [Lachnospiraceae bacterium
           9_1_43BFAA]
 gi|330408367|gb|EGG87842.1| hypothetical protein HMPREF0987_02712 [Lachnospiraceae bacterium
           9_1_43BFAA]
          Length = 410

 Score = 77.1 bits (188), Expect = 5e-12,   Method: Composition-based stats.
 Identities = 46/413 (11%), Positives = 115/413 (27%), Gaps = 59/413 (14%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           P   ++  ++    L   +     K      +  Y G   ++     Y+           
Sbjct: 13  PDGVEIHYLEDCCNLLDKKRKPITKAFREAGEYPYYGANGIQDYVANYIFDG-------- 64

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
            T  +  +   +  K G        A      +    +++ K+ +   +  +L     T 
Sbjct: 65  -TYVLVGEDGSVITKEGT--PVVTWAKGKIWVNNHAHIIEEKEGV---MLRYLYHYLQTI 118

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            + ++  G  +          + + +PPL  Q  I   + + T+    L  E     +  
Sbjct: 119 DVTSLIHG-NIPKLTGGDFKALKIAVPPLEVQREIVRVLDSFTLLTAELTAELTARKKQY 177

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
              +  L++                     G    +  +K     +           ++ 
Sbjct: 178 NFYRDKLLT--------------------FGKDTLNCRLKEICD-ICLGLTATPNYTDAG 216

Query: 256 ILSLSYGNIIQKLETRNMGLK-----PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
           +  +S  N        N          E   +      G+++F  +        +     
Sbjct: 217 VKFISAQNTSNDFLDLNNVKYISEADFEKATSNAKPQKGDLLFTRVGSNLGHPVVVETDE 276

Query: 311 MERGIITSAYMAVKPHGI-DSTYLAWLMRSYDLCKVFYAMGSGLRQ-SLKFEDVKRLPVL 368
                ++  ++ ++        YL   M +            G  + +L    +K   + 
Sbjct: 277 DLCIFVSLGFLRIRNKEQVIIGYLKHWMNTDLFWSQVRKNVHGAAKVNLNTGWLKEFNIS 336

Query: 369 VPPIKEQFDITNVINVETARIDVL-------VEKIEQSIVLLKERRSSFIAAA 414
           +PP++ Q  I +V++   +    L       +E  ++        R   +  A
Sbjct: 337 LPPLETQERIVHVLDNFESICTDLNIGLPAEIEARQKQYEY---YRDLLLTFA 386



 Score = 64.4 bits (155), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 28/190 (14%), Positives = 54/190 (28%), Gaps = 9/190 (4%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET 282
           E +           +      L  K  K I                  ++         T
Sbjct: 6   ELIREYCPDGVEIHYLEDCCNLLDKKRKPITKAFREAGEYPYYGANGIQDYVANYIFDGT 65

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
           Y +V     V           +          +   A++  +  G+   YL   +++ D+
Sbjct: 66  YVLVGEDGSVITKEGTPVVTWAKGKIW-----VNNHAHIIEEKEGVMLRYLYHYLQTIDV 120

Query: 343 CKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
             + +    G    L   D K L + VPP++ Q +I  V++  T     L  ++      
Sbjct: 121 TSLIH----GNIPKLTGGDFKALKIAVPPLEVQREIVRVLDSFTLLTAELTAELTARKKQ 176

Query: 403 LKERRSSFIA 412
               R   + 
Sbjct: 177 YNFYRDKLLT 186


>gi|19698526|gb|AAL93190.1| type I restriction enzyme S protein [Campylobacter jejuni]
          Length = 409

 Score = 77.1 bits (188), Expect = 5e-12,   Method: Composition-based stats.
 Identities = 51/409 (12%), Positives = 111/409 (27%), Gaps = 35/409 (8%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESG--TGKYLPKDGNSRQSDT 75
           P   +   +    +L+     +      K++  +   DV +     K +P    +     
Sbjct: 13  PNGVEFKNLWEIGELSNTGVDKKIRENQKEVFLLNFLDVMNNHYINKNIPSMKVTASEAE 72

Query: 76  STVSIFAKGQILYGKLGPYLRKAII--------ADFDGICSTQFLVLQPKDVLPELLQGW 127
                  K  +        + +            +           +  + + P  L+  
Sbjct: 73  IQKCNILKNDLFITPSSENINEIGFASVAIEDMPNVCYSYHIMRFRIFNRQINPYFLRYC 132

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
             S ++ ++I    +G T          N+ +PIPPL  Q  I + +   T     L  E
Sbjct: 133 FDSENLRKQILKNAQGITRFGLTQPKWKNLQIPIPPLEIQEEIVKILDTFTELEAELEAE 192

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK 247
                   +  +  L+S                  E++      +E+K    +       
Sbjct: 193 LEARRRQYEYYRNKLLS-----------------FEYLKTNGGGYELKMLGEICERQKGI 235

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
           N    E   +++  G+I      +            Q +     +        D      
Sbjct: 236 NITAGEMEKIAIQNGDIRIFAGGKTFIDTKMELLQEQNILKKTSIIVKSRGYVDFEYYAK 295

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
               +  + + +               +L    +  +      +     L   D  R  +
Sbjct: 296 PFTHKNELWSYSLNPDTKDINLKFIFYYLKNKVEYFQKIARANAVKIPQLAVADTDRFQI 355

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
            +PP+  Q  I N+++   A    L   I   I   K+     R+  + 
Sbjct: 356 PIPPLATQEKIVNILDQFHALTTDLQSGIPAEIEARKKQYEYYRNQLLT 404


>gi|301801396|emb|CBW34082.1| putative type I restriction-modification system S protein
           [Streptococcus pneumoniae INV200]
          Length = 432

 Score = 77.1 bits (188), Expect = 6e-12,   Method: Composition-based stats.
 Identities = 27/158 (17%), Positives = 59/158 (37%), Gaps = 8/158 (5%)

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
           + +      +K       + V  G  +            L     +  G +    ++   
Sbjct: 42  KYINNVKEKIKKSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLA---ISNYE 98

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
           + ++  YL +++ S  +   F ++ SG   ++L  + V  + + +PP+ EQ  I   I  
Sbjct: 99  NSLNKDYLFYILSSNVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLAEQQRIIEAIES 158

Query: 385 ETARIDVLVEKIEQSIVLLKE----RRSSFIAAAVTGQ 418
              ++D   E   +   L KE     + S +  A+ G+
Sbjct: 159 ALEKVDEYAESYNRLEQLDKEFPDKLKKSILQYAMQGK 196



 Score = 69.4 bits (168), Expect = 9e-10,   Method: Composition-based stats.
 Identities = 64/432 (14%), Positives = 127/432 (29%), Gaps = 71/432 (16%)

Query: 29  PIKRFTKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
                 ++  G +    KD        I +I + D E G           ++S  +    
Sbjct: 2   RFSTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINNVKEKIKKSGLNKTRF 61

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID-VTQRIEA 139
             KG  L      + R  I+     I      +   ++ L +    ++LS + V  +  +
Sbjct: 62  VKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYLFYILSSNVVYSQFLS 121

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
           +  GA + + +   + +I +P+PPLAEQ  I E I +   ++D       R  +L KE  
Sbjct: 122 LISGAVVKNLNSDKVASILIPLPPLAEQQRIIEAIESALEKVDEYAESYNRLEQLDKEFP 181

Query: 200 ----QALVSYIVTKGLNPDVKMKDSGIEWV------------------------------ 225
               ++++ Y +   L       +S    +                              
Sbjct: 182 DKLKKSILQYAMQGKLVEQDPNDESVEVLLEKIRAEKQKLFEEGKIKKKDLDISIVSQGD 241

Query: 226 ----------------GLVPDHWEVKPFFALVTELNRKNTK-----LIESNILSLSYGNI 264
                             +P  W    F +LV     K           + I  +S  ++
Sbjct: 242 DNSYYGNKDETTSYPIYEIPKAWRYIKFASLVNFRIGKTPPRSEATFWGTEIPWVSISDM 301

Query: 265 IQKLETRN----MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
                  N    +       +   I   G ++  F         L         II+  +
Sbjct: 302 PISGYVTNTRESISKLALKSKKIDISPKGTLLMSFKLSIGKVAILDIPATHNEAIIS-IF 360

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
                  I   YL   +              G  ++L    +  L + +   +E   I +
Sbjct: 361 PYANKENIIRDYLMIFLPLISTLGDSKDAIKG--KTLNSTSISELLIPISNHEEMKRIIS 418

Query: 381 VINVETARIDVL 392
            +++   ++  L
Sbjct: 419 KVDLLFQKVSQL 430



 Score = 47.1 bits (110), Expect = 0.005,   Method: Composition-based stats.
 Identities = 20/119 (16%), Positives = 43/119 (36%), Gaps = 8/119 (6%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDV-ESGTGKYLPKDGNS 70
           I  IPK W+ +          G+T    +      +I ++ + D+  SG      +  + 
Sbjct: 257 IYEIPKAWRYIKFASLVNFRIGKTPPRSEATFWGTEIPWVSISDMPISGYVTNTRESISK 316

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
               +  + I  KG +L       + K  I D     +   + + P      +++ +L+
Sbjct: 317 LALKSKKIDISPKGTLLMS-FKLSIGKVAILDIPATHNEAIISIFPYANKENIIRDYLM 374


>gi|303262771|ref|ZP_07348709.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP14-BS292]
 gi|302636093|gb|EFL66590.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP14-BS292]
          Length = 197

 Score = 76.8 bits (187), Expect = 6e-12,   Method: Composition-based stats.
 Identities = 20/161 (12%), Positives = 56/161 (34%), Gaps = 11/161 (6%)

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKR--SLRSAQVMERGIITS 318
             +     E +N+ +     +    V+ G+++   ++            A   +   +  
Sbjct: 41  SYDYFNSSEVKNLPIDYIPLDE-HKVEIGDVIISRMNTSELVGAAGYVWAINSDNIYLPD 99

Query: 319 AYMAVKPHGIDSTYLAWLM----RSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKE 374
               V  +   +    W +    ++    K   +  SG  +++    + ++ V  PP+  
Sbjct: 100 RLWKVILNDRVNPVFLWKLITNEKTKLKIKRISSGTSGSMKNISKSQLLQIRVPFPPLAL 159

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           Q +  + +    A +D     I++S+  L+  + S +    
Sbjct: 160 QNEFADFV----ALVDKSQLAIQKSLEELETLKKSLMQEYF 196


>gi|148927367|ref|ZP_01810898.1| restriction modification system DNA specificity domain [candidate
           division TM7 genomosp. GTL1]
 gi|147887266|gb|EDK72727.1| restriction modification system DNA specificity domain [candidate
           division TM7 genomosp. GTL1]
          Length = 335

 Score = 76.8 bits (187), Expect = 6e-12,   Method: Composition-based stats.
 Identities = 42/323 (13%), Positives = 94/323 (29%), Gaps = 13/323 (4%)

Query: 100 IADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPM 159
                 +   +  V     +L      ++         +    G T    +   +  I +
Sbjct: 20  YKSKAYLVQGKIWVNNHAHILLARNNKYVKYALNYVDYQRYVTGTTRLKLNQSALKRIII 79

Query: 160 PIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKD 219
           P P   EQ  I  KI      ID   +         K  +Q+++  +  K       ++ 
Sbjct: 80  PFPDENEQKRIVAKIEELFSEIDNAESAITTASGYYKSYEQSIIDSLFAKYEAEAEMVEF 139

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
             I  +              +      +   + +           +   E + + +  E 
Sbjct: 140 GDIAEIKGGITKGRKLRGMPIGETPYLRVANVQD---------GYLYLDEIKTINVTAEE 190

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH--GIDSTYLAWLM 337
              Y +++   +     D     R       +E  I  +     +         Y+++  
Sbjct: 191 LRKYSLMNGDILFTEGGDKDKLGRGTIWHGEIELCIHQNHIFRARVDSGQFVPEYISYAT 250

Query: 338 RSYDLCKVFYAMGSGLR--QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
           ++      F +         SL    +K L +   P+ +Q +I   I  + + I    ++
Sbjct: 251 KTTRARDYFLSKAKQTTNLASLNMTSLKNLQLPSIPLAQQKEIVESIVTKLSEIKSARKE 310

Query: 396 IEQSIVLLKERRSSFIAAAVTGQ 418
           +  +    K  R S +A A  G+
Sbjct: 311 LIVAHHRSKALRQSILAKAFKGE 333



 Score = 48.6 bits (114), Expect = 0.002,   Method: Composition-based stats.
 Identities = 31/200 (15%), Positives = 69/200 (34%), Gaps = 14/200 (7%)

Query: 26  KVVPIKRFTKLNTGRTSESG------KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           ++V      ++  G T           +  Y+ + +V+ G          +  ++     
Sbjct: 135 EMVEFGDIAEIKGGITKGRKLRGMPIGETPYLRVANVQDGYLYLDEIKTINVTAEELRKY 194

Query: 80  IFAKGQILYGKLGP---YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
               G IL+ + G      R  I      +C  Q  + + +    + +  ++     T R
Sbjct: 195 SLMNGDILFTEGGDKDKLGRGTIWHGEIELCIHQNHIFRARVDSGQFVPEYISYATKTTR 254

Query: 137 IEAIC-----EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
                     +   ++  +   + N+ +P  PLA+Q  I E I+ +   I +   E I  
Sbjct: 255 ARDYFLSKAKQTTNLASLNMTSLKNLQLPSIPLAQQKEIVESIVTKLSEIKSARKELIVA 314

Query: 192 IELLKEKKQALVSYIVTKGL 211
               K  +Q++++      L
Sbjct: 315 HHRSKALRQSILAKAFKGEL 334


>gi|265763427|ref|ZP_06091995.1| type I restriction endonuclease S subunit [Bacteroides sp. 2_1_16]
 gi|263256035|gb|EEZ27381.1| type I restriction endonuclease S subunit [Bacteroides sp. 2_1_16]
          Length = 355

 Score = 76.8 bits (187), Expect = 6e-12,   Method: Composition-based stats.
 Identities = 60/391 (15%), Positives = 139/391 (35%), Gaps = 51/391 (13%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
           V ++    +N  ++       IYI LE VE G  + + ++    ++ +    +     IL
Sbjct: 2   VSLQDIATINP-KSDPLQNTFIYIDLEAVEKGELRKI-QEIMREEAPSRAQRVIDNNDIL 59

Query: 88  YGKLGPYLRKAIIA------DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
           +  + PY +   I       +   + ST +  ++  + LP  +   L + +  +++   C
Sbjct: 60  FQCVRPYQKNNYIHRILNTSNQQWVASTGYAQIRTTE-LPNYIYHLLNTDEFNRKVMVRC 118

Query: 142 EGATMSHADWKGIGNIPMPI-PPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
            G++    + + +  I +   P   EQ+ I   +     RI T         +L     +
Sbjct: 119 TGSSYPAINSEDLATIHLYYTPDKKEQLKISRLLDLLDKRIATQNKIIEDLKKLKSAISE 178

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
            L              +K S +           +     +V         L +S    + 
Sbjct: 179 RLF-----------KSVKGSTV----------LLSDLCDIVKGKQINGENLSDSGNYYVM 217

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDP-GEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
            G         N  ++  +    +  +  G + F      +         + ++      
Sbjct: 218 NGGTEPSGYYDNYNVEASTISISEGGNSCGYVQFNTSPFWSGGHCYSIQNIADK------ 271

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
                   +D+ YL   ++S +   +   +GSGL  +++ +D+    ++VP I+ Q  I+
Sbjct: 272 --------VDNMYLYHYLKSNEDAIMKLRIGSGL-PNIQKKDLAMFKIIVPKIEWQIKIS 322

Query: 380 NVINVET--ARIDVLVEK--IEQSIVLLKER 406
             ++     A I+  ++    +Q + LL++ 
Sbjct: 323 TFLSSLERKAEIEERIQNVMQKQKLYLLQQM 353



 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 23/180 (12%), Positives = 64/180 (35%), Gaps = 7/180 (3%)

Query: 234 VKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVF 293
           +     + T   + +        + L      +  + + +  +       +++D  +I+F
Sbjct: 1   MVSLQDIATINPKSDPLQNTFIYIDLEAVEKGELRKIQEIMREEAPSRAQRVIDNNDILF 60

Query: 294 RFIDLQNDKRSL-RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
           + +        + R      +  + S   A         Y+  L+ + +  +      +G
Sbjct: 61  QCVRPYQKNNYIHRILNTSNQQWVASTGYAQIRTTELPNYIYHLLNTDEFNRKVMVRCTG 120

Query: 353 LR-QSLKFEDVKRLPVLV-PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
               ++  ED+  + +   P  KEQ  I+ +++     +D  +    + I  LK+ +S+ 
Sbjct: 121 SSYPAINSEDLATIHLYYTPDKKEQLKISRLLD----LLDKRIATQNKIIEDLKKLKSAI 176


>gi|307353815|ref|YP_003894866.1| restriction modification system DNA specificity domain-containing
           protein [Methanoplanus petrolearius DSM 11571]
 gi|307157048|gb|ADN36428.1| restriction modification system DNA specificity domain protein
           [Methanoplanus petrolearius DSM 11571]
          Length = 413

 Score = 76.8 bits (187), Expect = 6e-12,   Method: Composition-based stats.
 Identities = 64/355 (18%), Positives = 128/355 (36%), Gaps = 28/355 (7%)

Query: 81  FAKGQILYGKLGPYLRKAIIA--DFDGICSTQFL--VLQPKDVLPELLQGWLLSIDVTQR 136
                ++    G   + +II   D  GI S   L   +  K +LP+ L+ +  + +    
Sbjct: 73  IKTDDLIISCSGTLGKVSIIQKNDPSGIISQALLLLRVDKKKILPKYLKYFFNTKEGYNA 132

Query: 137 IEAICEGATMSHADWK-GIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
           I +   G+   +   +  I  IP+ +PPL  Q  I + I      +D  I    R  ++L
Sbjct: 133 IVSRSSGSVQVNISKRADIEQIPIRLPPLIIQTKIVDII----SALDNKIELNTRMNKVL 188

Query: 196 KEKKQALVSYIVTKGLNPD---VKMKDSGIE----WVGLVPDHWEVKPFFALVTELNRKN 248
           ++   AL      +   PD      K SG +     +G VP+ WE   F   +   N K+
Sbjct: 189 EDIAHALFHRWFVEFEFPDAEGKPYKSSGGKMVGSEMGSVPEGWESLSFKDFLKIRNEKS 248

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
                      + G  I   + +       S    +I+   ++VF       +   ++  
Sbjct: 249 NDPAIPEYSVTNLG--IYPRDEKYKKKLSSSSSKNKIIHKFDLVFGMSREILNWGVMKDE 306

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRSY--DLCKVFYAMGSGLRQSLKFEDVKRLP 366
                G+ ++  + +    ++  +L   M+SY      +        +  +    +    
Sbjct: 307 IG---GVSSAYNVFIIDKEVNPLFLESFMKSYLPYFKDIIKPSAREGQ-GIDKAALFSKN 362

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           + +PP      I +        I  +V   E+    L E R + +   ++G+I++
Sbjct: 363 IYLPPKD----ILDQYYDMENTILSVVRNFEKENENLIEIRDTLLPKLMSGEIEV 413



 Score = 62.9 bits (151), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 17/139 (12%), Positives = 50/139 (35%), Gaps = 4/139 (2%)

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYET--YQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
           I      + I +       +  E +++     +   +++            ++       
Sbjct: 41  IPVYEQQHAISESRDFRFFISEEKFQSMRRFAIKTDDLIISCSGTLGKVSIIQKNDPSGI 100

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKF-EDVKRLPVLVPP 371
                  + V    I   YL +   + +      +  SG ++ ++    D++++P+ +PP
Sbjct: 101 ISQALLLLRVDKKKILPKYLKYFFNTKEGYNAIVSRSSGSVQVNISKRADIEQIPIRLPP 160

Query: 372 IKEQFDITNVINVETARID 390
           +  Q  I ++I+    +I+
Sbjct: 161 LIIQTKIVDIISALDNKIE 179



 Score = 48.6 bits (114), Expect = 0.002,   Method: Composition-based stats.
 Identities = 24/127 (18%), Positives = 49/127 (38%), Gaps = 8/127 (6%)

Query: 10  YKDSGVQWIGA----IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLP 65
           YK SG + +G+    +P+ W+ +  K F K+   ++++    I    + ++  G      
Sbjct: 213 YKSSGGKMVGSEMGSVPEGWESLSFKDFLKIRNEKSNDPA--IPEYSVTNL--GIYPRDE 268

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ 125
           K      S +S   I  K  +++G     L   ++ D  G  S+ + V      +  L  
Sbjct: 269 KYKKKLSSSSSKNKIIHKFDLVFGMSREILNWGVMKDEIGGVSSAYNVFIIDKEVNPLFL 328

Query: 126 GWLLSID 132
              +   
Sbjct: 329 ESFMKSY 335


>gi|182683453|ref|YP_001835200.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae CGSP14]
 gi|225856227|ref|YP_002737738.1| type I restriction enzyme [Streptococcus pneumoniae P1031]
 gi|225858346|ref|YP_002739856.1| type I restriction enzyme [Streptococcus pneumoniae 70585]
 gi|182628787|gb|ACB89735.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae CGSP14]
 gi|225722066|gb|ACO17920.1| type I restriction enzyme [Streptococcus pneumoniae 70585]
 gi|225726255|gb|ACO22107.1| type I restriction enzyme [Streptococcus pneumoniae P1031]
          Length = 516

 Score = 76.8 bits (187), Expect = 6e-12,   Method: Composition-based stats.
 Identities = 33/206 (16%), Positives = 72/206 (34%), Gaps = 10/206 (4%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
            I+    +PD WE     ++     +   +     I + S       +  +N+       
Sbjct: 77  EIDVPYDIPDTWEWVRIKSIYWNFGQNKPEKSFRYIDTSSIDRKKNIINYKNLQYLSPEQ 136

Query: 281 ---ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
                 ++V    ++F  +       ++     ++  +I S    V    ++ TYL + +
Sbjct: 137 APSRARKLVSQNSVLFSTVRPYLKNIAVVR--ELKEYLIASTAFIVLDTLLNETYLKYYL 194

Query: 338 RSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
            S +         +G    ++   +   L + +PP+ EQ  I   I     ++D   E  
Sbjct: 195 LSDNFINRVNNKSTGTSYPAINDYNFNLLLIALPPLSEQQRIVEAIESALEKVDEYAESY 254

Query: 397 EQSIVLLKE----RRSSFIAAAVTGQ 418
            +   L KE     + S +  A+ G+
Sbjct: 255 NRLEQLDKEFPDKLKKSILQYAMQGK 280



 Score = 73.7 bits (179), Expect = 6e-11,   Method: Composition-based stats.
 Identities = 68/436 (15%), Positives = 128/436 (29%), Gaps = 67/436 (15%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLP-KDGNSRQSDTSTV 78
            IP  W+ V IK           E     I     D +     Y   +  +  Q+ +   
Sbjct: 83  DIPDTWEWVRIKSIYWNFGQNKPEKSFRYIDTSSIDRKKNIINYKNLQYLSPEQAPSRAR 142

Query: 79  SIFAKGQILYGKLGPYLRKAIIA---DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
            + ++  +L+  + PYL+   +        I ST F+VL        L   +LLS +   
Sbjct: 143 KLVSQNSVLFSTVRPYLKNIAVVRELKEYLIASTAFIVLDTLLNETYLKY-YLLSDNFIN 201

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
           R+     G +    +      + + +PPL+EQ  I E I +   ++D       R  +L 
Sbjct: 202 RVNNKSTGTSYPAINDYNFNLLLIALPPLSEQQRIVEAIESALEKVDEYAESYNRLEQLD 261

Query: 196 KEKK----QALVSYIVTKG--------------LNPDVKMKDSGIEW------------- 224
           KE      ++++ Y +                 L      K    E              
Sbjct: 262 KEFPDKLKKSILQYAMQGKLVEQDPNDESVEVLLEKIRAEKQKLFEEGKIKKKDLDISIV 321

Query: 225 -------------------VGLVPDHWEVKPFFALVTELNRKNTK-----LIESNILSLS 260
                              +  +P+ W    F +LV     K           + I  +S
Sbjct: 322 SQGDDNSYYGNKDETTSYPIYEIPEAWRYIKFASLVNFRIGKTPPRSEATFWGTEIPWVS 381

Query: 261 YGNIIQKLETRN----MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
             ++       N    +       +   I   G ++  F         L         II
Sbjct: 382 ISDMPISGYVTNTRESISKLALKSKKIDISPKGTLLMSFKLSIGKVAILDIPATHNEAII 441

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
           +  +       I   YL   +              G  ++L    +  L + +   +E  
Sbjct: 442 S-IFPYANKENIIRDYLMIFLPLISTLGDSKDAIKG--KTLNSTSISELLIPISNHEEMK 498

Query: 377 DITNVINVETARIDVL 392
            I + +++   ++  L
Sbjct: 499 RIISKVDLLFQKVSQL 514



 Score = 48.3 bits (113), Expect = 0.002,   Method: Composition-based stats.
 Identities = 19/119 (15%), Positives = 43/119 (36%), Gaps = 8/119 (6%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDV-ESGTGKYLPKDGNS 70
           I  IP+ W+ +          G+T    +      +I ++ + D+  SG      +  + 
Sbjct: 341 IYEIPEAWRYIKFASLVNFRIGKTPPRSEATFWGTEIPWVSISDMPISGYVTNTRESISK 400

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
               +  + I  KG +L       + K  I D     +   + + P      +++ +L+
Sbjct: 401 LALKSKKIDISPKGTLLMS-FKLSIGKVAILDIPATHNEAIISIFPYANKENIIRDYLM 458


>gi|78484678|ref|YP_390603.1| restriction modification system DNA specificity subunit
           [Thiomicrospira crunogena XCL-2]
 gi|78362964|gb|ABB40929.1| Type I restriction enzyme, S subunit [Thiomicrospira crunogena
           XCL-2]
          Length = 371

 Score = 76.8 bits (187), Expect = 6e-12,   Method: Composition-based stats.
 Identities = 54/399 (13%), Positives = 123/399 (30%), Gaps = 38/399 (9%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           KV+ + +   L  G+  ++  +    G+  +    G     + N+            +  
Sbjct: 4   KVIELSKALNLKNGKALKNTSN----GIYQIFGSNGVIGTTELNN-----------NENA 48

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           ++ G++G Y     ++      S   +V +PK   P+ +  +      +  +     GA 
Sbjct: 49  LIIGRVGAYCGSIELSQEKFWASDNTIVAEPK---PDNVLHYWYYRLKSFPLRKFAGGAA 105

Query: 146 MSHADWKGIGNIPMPIPPLA-EQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
                   +  + +       EQ  I   +      I+          E  +   Q    
Sbjct: 106 QPLLTQNTLKPLKIAAHTDYLEQDKIANILKVYDDLIENNNRRIALLEESARLLYQEWFV 165

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK-NTKLIESNILSLSYGN 263
           ++   G              +  VP+ WE      L+ E+    N + I+S    +   +
Sbjct: 166 HLRFPGHEHCKI--------IDGVPEGWERTRLEDLIEEIKEAVNPESIDSETPYIGLEH 217

Query: 264 IIQKLETRNMGLKPESY-ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
           + ++  T +     E           G+I+F  I     K       + +    + A + 
Sbjct: 218 MPRRSITLSEWETVEKVTSKKYRYYSGDIIFGKIRPYFHKVGFA---ITDGVTSSDAVVV 274

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
                 +  YL   + S     +               ++ +    V VP        ++
Sbjct: 275 RSKDISNYQYLLMYLSSDFFISLASKTVKEGSKMPRADWKYLMTTDVQVPSDFLLKSFSD 334

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
            ++    ++  L  + +Q    LK+ R   +   + G+I
Sbjct: 335 SVDKILKQLKTLSVQNKQ----LKKARDILLPRLMNGEI 369



 Score = 62.5 bits (150), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 37/188 (19%), Positives = 74/188 (39%), Gaps = 6/188 (3%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSES--GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           +P+ W+   ++   +      +      +  YIGLE +   +         + +  TS  
Sbjct: 181 VPEGWERTRLEDLIEEIKEAVNPESIDSETPYIGLEHMPRRSITLSE--WETVEKVTSKK 238

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR-- 136
             +  G I++GK+ PY  K   A  DG+ S+  +V++ KD+         LS D      
Sbjct: 239 YRYYSGDIIFGKIRPYFHKVGFAITDGVTSSDAVVVRSKDISNYQYLLMYLSSDFFISLA 298

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
            + + EG+ M  ADWK +    + +P         + +     ++ TL  +  +  +   
Sbjct: 299 SKTVKEGSKMPRADWKYLMTTDVQVPSDFLLKSFSDSVDKILKQLKTLSVQNKQLKKARD 358

Query: 197 EKKQALVS 204
                L++
Sbjct: 359 ILLPRLMN 366


>gi|327390251|gb|EGE88592.1| type I restriction modification DNA specificity domain protein
           [Streptococcus pneumoniae GA04375]
          Length = 427

 Score = 76.8 bits (187), Expect = 6e-12,   Method: Composition-based stats.
 Identities = 27/158 (17%), Positives = 59/158 (37%), Gaps = 8/158 (5%)

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
           + +      +K       + V  G  +            L     +  G +    ++   
Sbjct: 37  KYINNVKEKIKKSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLA---ISNYE 93

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
           + ++  YL +++ S  +   F ++ SG   ++L  + V  + + +PP+ EQ  I   I  
Sbjct: 94  NSLNKDYLFYILSSNVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLAEQQRIIEAIES 153

Query: 385 ETARIDVLVEKIEQSIVLLKE----RRSSFIAAAVTGQ 418
              ++D   E   +   L KE     + S +  A+ G+
Sbjct: 154 ALEKVDEYAESYNRLEQLDKEFPDKLKKSILQYAMQGK 191



 Score = 66.7 bits (161), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 64/427 (14%), Positives = 128/427 (29%), Gaps = 71/427 (16%)

Query: 34  TKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
            ++  G +    KD        I +I + D E G           ++S  +      KG 
Sbjct: 2   VEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINNVKEKIKKSGLNKTRFVKKGT 61

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID-VTQRIEAICEGA 144
            L      + R  I+     I      +   ++ L +    ++LS + V  +  ++  GA
Sbjct: 62  FLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYLFYILSSNVVYSQFLSLISGA 121

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK----Q 200
            + + +   + +I +P+PPLAEQ  I E I +   ++D       R  +L KE      +
Sbjct: 122 VVKNLNSDKVASILIPLPPLAEQQRIIEAIESALEKVDEYAESYNRLEQLDKEFPDKLKK 181

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWV----------------------------------- 225
           +++ Y +   L       +S    +                                   
Sbjct: 182 SILQYAMQGKLVEQDPNDESVEVLLEKIRAEKQKLFEEGKIKKKDLDISIVSQGDDNSYY 241

Query: 226 -----------GLVPDHWEVKPFFALVTELNRKNTK-----LIESNILSLSYGNIIQKLE 269
                        +P+ W    F +LV     K           + I  +S  ++     
Sbjct: 242 GNKDETTSYPIYEIPEAWRYIKFASLVNFRIGKTPPRSEATFWGTEIPWVSISDMPISGY 301

Query: 270 TRN----MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
             N    +       +   I   G ++  F         L         II+  +     
Sbjct: 302 VTNTRESISKLALKSKKIDISPKGTLLMSFKLSIGKVAILDIPATHNEAIIS-IFPYANK 360

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
             I   YL   +              G  ++L    +  L + +   +E   I + +++ 
Sbjct: 361 ENIIRDYLMIFLPLISTLGDSKDAIKG--KTLNSTSISELLIPISNHEEMKRIISKVDLL 418

Query: 386 TARIDVL 392
             ++  L
Sbjct: 419 FQKVSQL 425



 Score = 47.9 bits (112), Expect = 0.003,   Method: Composition-based stats.
 Identities = 19/119 (15%), Positives = 43/119 (36%), Gaps = 8/119 (6%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDV-ESGTGKYLPKDGNS 70
           I  IP+ W+ +          G+T    +      +I ++ + D+  SG      +  + 
Sbjct: 252 IYEIPEAWRYIKFASLVNFRIGKTPPRSEATFWGTEIPWVSISDMPISGYVTNTRESISK 311

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
               +  + I  KG +L       + K  I D     +   + + P      +++ +L+
Sbjct: 312 LALKSKKIDISPKGTLLMS-FKLSIGKVAILDIPATHNEAIISIFPYANKENIIRDYLM 369


>gi|283782191|ref|YP_003372946.1| restriction modification system DNA specificity subunit [Pirellula
           staleyi DSM 6068]
 gi|283440644|gb|ADB19086.1| restriction modification system DNA specificity subunit [Pirellula
           staleyi DSM 6068]
          Length = 517

 Score = 76.8 bits (187), Expect = 6e-12,   Method: Composition-based stats.
 Identities = 65/413 (15%), Positives = 135/413 (32%), Gaps = 43/413 (10%)

Query: 25  WKVVPIKRFTKLNTGRTSE---SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           W+ + +       TG  +      +      +   ++G  + L           S+  I 
Sbjct: 3   WRRIKVGDLLARKTGTVNPDKSPSERFSLYSIPAFDNGAPEEL-----LGSEIGSSKQIL 57

Query: 82  AKGQILYGKLGPYLRKAIIAD-----FDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
             G +L  K+ P++R+  +          I S +++V +   V    L   L+  +  + 
Sbjct: 58  QPGDVLLSKIVPHIRRCWVVGKTLSTHRMIGSGEWIVFRTHRVDAGYLSKVLVGDEFHKA 117

Query: 137 IEAICEGA--TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
                 G   ++  A    +  I +P+PPL EQ  I   +             R   ++L
Sbjct: 118 FLQTVAGVGGSLKRARPAAVAEIEIPVPPLDEQRRIAAVLDKADALRRQ----RQESLQL 173

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
            ++  Q++   +    +     +    +E +  +                 R +      
Sbjct: 174 TEKLLQSVFLSMFGDPVGNPKNLPTDDLENLAKLERGKFTPR--------PRNDPSYYSG 225

Query: 255 NILSLSYGNIIQ---KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
           +   +  G+I +   ++      L  +     +   PG +V   +     + ++    V 
Sbjct: 226 DFPFIQTGDITRSKGRITGWTQTLNEKGIRVSREFQPGTVVIAIVGATLGETAIVETPVY 285

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
               I    +   P    S +L +L+R +    +        R +L  E ++ LP L P 
Sbjct: 286 CPDSIIG--VTPYPTKATSEFLEFLLRLWKPR-LKELAPDAARANLNLERLRPLPALAPE 342

Query: 372 IKEQF---DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           +  Q     I   +   T  +D           LL +  SS    A  G++DL
Sbjct: 343 LDLQQEFSRIARDLRQLT--LDKTENG-----KLLDKLFSSLQQRAFRGELDL 388


>gi|254448613|ref|ZP_05062072.1| type I restriction-modification system, endonuclease S subunit
           [gamma proteobacterium HTCC5015]
 gi|198261802|gb|EDY86088.1| type I restriction-modification system, endonuclease S subunit
           [gamma proteobacterium HTCC5015]
          Length = 379

 Score = 76.8 bits (187), Expect = 6e-12,   Method: Composition-based stats.
 Identities = 65/396 (16%), Positives = 133/396 (33%), Gaps = 36/396 (9%)

Query: 23  KHWKVVPIKRFT-KLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI- 80
             WK++        ++      +  + IY+GLE +E    ++L  +      D     + 
Sbjct: 11  SGWKLLRFGDLARNISKREDPATTDEKIYVGLEHIE---PRHLRVNRFGSPGDVIGQKLK 67

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLV--LQPKDVLPELLQGWLLSIDVTQRIE 138
           F  G I++GK   Y RKA +A+F GICS   +V     + + P  L   + +        
Sbjct: 68  FNAGDIIFGKRRAYQRKAAVANFSGICSAHAMVLRENNEFIFPGFLIHLMHTDVFMNTAI 127

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
            I EG+      WK +     P+PP   Q  + + +  +   I++ I             
Sbjct: 128 RISEGSLSPTIKWKILAEQKFPVPPKNIQSTLLDSL-TKIEEIESSIF------------ 174

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
                   VT  LN  +    S    +       +++     +TE     +    +  ++
Sbjct: 175 -------AVTSSLNTLLASYKSKHMPIRAKAKQAKIEKIGNFLTESKIPGSTGDVAKKIT 227

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
           +              G        Y +  PG+ ++  +D  N   ++   ++      T 
Sbjct: 228 VKL---YGLGAIAKDGASGSVNTKYFLRKPGQFIYSKLDFLNGAFAIIPEELEGYESTTD 284

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR--QSLKFEDVKRLPVLVPPIKEQF 376
                    + + +L   +   +  + F     G R  + +  +            + Q 
Sbjct: 285 LPCFDVKDTLHAEWLLHFVDRTEFYESFTHSAKGGRKAKRISPQAFLSCEFPYVGPETQS 344

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           +  + I         L+EK ++ +  L+E     I+
Sbjct: 345 EHLSAIKKIVTE-KHLMEKKQKIMFRLREM---LIS 376


>gi|146319105|ref|YP_001198817.1| type I restriction-modification system, S subunit [Streptococcus
           suis 05ZYH33]
 gi|253752153|ref|YP_003025294.1| type I restriction-modification system S protein [Streptococcus
           suis SC84]
 gi|253753979|ref|YP_003027120.1| type I restriction-modification system S protein [Streptococcus
           suis P1/7]
 gi|253755914|ref|YP_003029054.1| type I restriction-modification system S protein [Streptococcus
           suis BM407]
 gi|145689911|gb|ABP90417.1| type I restriction-modification system, S subunit [Streptococcus
           suis 05ZYH33]
 gi|251816442|emb|CAZ52078.1| type I restriction-modification system S protein [Streptococcus
           suis SC84]
 gi|251818378|emb|CAZ56206.1| type I restriction-modification system S protein [Streptococcus
           suis BM407]
 gi|251820225|emb|CAR46645.1| type I restriction-modification system S protein [Streptococcus
           suis P1/7]
 gi|292558741|gb|ADE31742.1| type I restriction-modification system, S subunit [Streptococcus
           suis GZ1]
          Length = 522

 Score = 76.8 bits (187), Expect = 6e-12,   Method: Composition-based stats.
 Identities = 70/461 (15%), Positives = 142/461 (30%), Gaps = 78/461 (16%)

Query: 5   KAYPQY-----KDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGL 53
           K Y +      K   V +   IP  W+ V ++    + +G T +S +      +I +I  
Sbjct: 65  KPYEKLADGTVKKVEVPY--EIPDSWEWVRLRNLGVITSGGTPKSSESTYYDGNITWITP 122

Query: 54  EDV----ESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICST 109
            D+     +       K         S+  + +K  I+Y    P      I ++D   + 
Sbjct: 123 ADMGKQQNNKLFATSSKKITELGVQKSSAQLISKNSIVYSSRAPI-GHINIVNYDFTTNQ 181

Query: 110 QFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVL 169
               + P  V   L   + +    T+ I     G T       G G+  +P+PPLAEQ  
Sbjct: 182 GCKSVTPILVN--LDFMYWILQFRTKDIILRSSGTTFKEISASGFGDTLLPLPPLAEQKR 239

Query: 170 IREKIIAETVRIDTLITERIRFIELLKEKK----QALVSYIVTKGLNPDVKMKDS----- 220
           I   I     +++       +  EL +       ++++ Y +   L       +      
Sbjct: 240 IVAHIERALEQVEVYAESYNKLQELDRAFPDKLKKSILQYAMQGKLVAQDPNDEPVEVLL 299

Query: 221 -------------------------------------GIEWVG-------LVPDHWEVKP 236
                                                  E +G        +P  W    
Sbjct: 300 EMIRAEKQKLYEEGKLKKKDLAEIMVEKGDDNSPYGKNKENIGFSNSTLFKLPSSWCYVK 359

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNI-IQKLETRNMGLKPESYETYQIVDPGEIVFRF 295
           F  LV     K     E N        + I  +       K + Y +   ++  ++    
Sbjct: 360 FGGLVLFNIGKTPPRSEPNYWGDDIPWVSISDMSNNGHIFKTKEYLSDFAINQKKVKIAS 419

Query: 296 IDL--QNDKRSLRSAQVMERGIITSAYMAVKPH-GIDSTYLAWLMRSYDLCKVFYAMGSG 352
                 + K ++    +        A +++ P+   ++    +LMR   L          
Sbjct: 420 AGTLLMSFKLTIGKVALEVPASHNEAIISIFPYGDKENIIRDYLMRFLPLISTTGNSKDA 479

Query: 353 LR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
           ++ ++L    +  L + +   +E  DI   +++   ++  L
Sbjct: 480 IKGKTLNSTSISGLLIPISNYREMKDIVTKVDLLFEKVAQL 520



 Score = 75.2 bits (183), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 28/212 (13%), Positives = 66/212 (31%), Gaps = 20/212 (9%)

Query: 222 IEWVGLVPDHWEVKPFFALVTELNRKNTK-----LIESNILSLSYGNIIQKLETRNMGLK 276
           +E    +PD WE      L    +    K       + NI  ++  ++ ++   +     
Sbjct: 78  VEVPYEIPDSWEWVRLRNLGVITSGGTPKSSESTYYDGNITWITPADMGKQQNNKLFATS 137

Query: 277 PESYETYQIVDPGEIVFRFIDLQNDKRS--LRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
            +      +      +     +    R+       V           +V P  ++  ++ 
Sbjct: 138 SKKITELGVQKSSAQLISKNSIVYSSRAPIGHINIVNYDFTTNQGCKSVTPILVNLDFMY 197

Query: 335 WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
           W+++ +    +         + +         + +PP+ EQ  I   I     +    VE
Sbjct: 198 WILQ-FRTKDIILRSSGTTFKEISASGFGDTLLPLPPLAEQKRIVAHIERALEQ----VE 252

Query: 395 KIEQSIVLLKE--------RRSSFIAAAVTGQ 418
              +S   L+E         + S +  A+ G+
Sbjct: 253 VYAESYNKLQELDRAFPDKLKKSILQYAMQGK 284


>gi|254422455|ref|ZP_05036173.1| Type I restriction modification DNA specificity domain protein
           [Synechococcus sp. PCC 7335]
 gi|196189944|gb|EDX84908.1| Type I restriction modification DNA specificity domain protein
           [Synechococcus sp. PCC 7335]
          Length = 430

 Score = 76.8 bits (187), Expect = 6e-12,   Method: Composition-based stats.
 Identities = 49/415 (11%), Positives = 116/415 (27%), Gaps = 27/415 (6%)

Query: 27  VVPIKRFTKLNTG--RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF--- 81
             P+ +     T    ++        I + +     G+ +  + +    +T    I    
Sbjct: 18  TKPLSKLCHSITDCHHSTPKYTSAGKIVIRNFNIKNGRLILDNVSFTDEETYQARIARSK 77

Query: 82  -AKGQILYGKLGPYLRKAIIADFDGIC--STQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
              G ++  +  P     II +    C      L+   ++++      + +  +  Q+  
Sbjct: 78  PEPGDLIITREAPMGEICIIPEGIECCLGQRMVLIKPDENIIDNNYLLYAILSEYVQKQI 137

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
                     ++ +      + IP    Q  I   + A   +ID           + K  
Sbjct: 138 LKSNNTGSIVSNLRIPDLEDLQIPIKEPQSQIAGILSALDAKIDLNNRINAELEAMAKTI 197

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVG------LVPDHWEVKPFFALVTELNRKNT--- 249
                        N     K SG + V        +P+ W+      L   +        
Sbjct: 198 YDYWFVQFDFPDEN-GKPYKSSGGKMVYNKTLRREIPEKWKAGTLEDLGKIVGGSTPSTK 256

Query: 250 ---KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVF--RFIDLQNDKRS 304
                 E+ I  ++  ++   +  + +           I D    ++    + L +    
Sbjct: 257 VEANFSENGIPWIAPNDLSNNVGNKYITKGSLDVTLEGIKDASLKLYPKGTVLLSSRAPI 316

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKR 364
              A    +      + +  P+   ST   +      +  +         + +    +K 
Sbjct: 317 GYMAIARNKLTTNQGFKSFIPNNKFSTEFVFYAVKNSMKAIIQYASGSTFKEVSGTILKT 376

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
           + V +PP      I +             + +EQ    L + R   +   + GQ+
Sbjct: 377 INVCLPPPD----IADGYTNHMRSTFSRQDFLEQENQQLTQLRDWLLPMLMNGQV 427



 Score = 56.7 bits (135), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 37/210 (17%), Positives = 73/210 (34%), Gaps = 21/210 (10%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSE-------SGKDIIYIGLEDVESGTG-KYLPK---DG 68
            IP+ WK   ++   K+  G T         S   I +I   D+ +  G KY+ K   D 
Sbjct: 231 EIPEKWKAGTLEDLGKIVGGSTPSTKVEANFSENGIPWIAPNDLSNNVGNKYITKGSLDV 290

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL 128
                  +++ ++ KG +L     P    AI  +     +  F    P +        + 
Sbjct: 291 TLEGIKDASLKLYPKGTVLLSSRAPIGYMAIARNKL-TTNQGFKSFIPNNKFSTEFVFYA 349

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
           +   +   I     G+T        +  I + +PP        +     T  + +  + +
Sbjct: 350 VKNSMKAII-QYASGSTFKEVSGTILKTINVCLPPP-------DIADGYTNHMRSTFSRQ 401

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMK 218
               +  ++  Q L  +++   +N  V MK
Sbjct: 402 DFLEQENQQLTQ-LRDWLLPMLMNGQVTMK 430


>gi|332076950|gb|EGI87412.1| type I restriction modification DNA specificity domain protein
           [Streptococcus pneumoniae GA17545]
          Length = 516

 Score = 76.8 bits (187), Expect = 6e-12,   Method: Composition-based stats.
 Identities = 33/206 (16%), Positives = 72/206 (34%), Gaps = 10/206 (4%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
            I+    +PD WE     ++     +   +     I + S       +  +N+       
Sbjct: 77  EIDVPYDIPDTWEWVRIKSIYWNFGQNKPEKSFRYIDTSSIDRKKNIINYKNLQYLSPEQ 136

Query: 281 ---ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
                 ++V    ++F  +       ++     ++  +I S    V    ++ TYL + +
Sbjct: 137 APSRARKLVSQNSVLFSTVRPYLKNIAVVR--ELKEYLIASTAFIVLDTLLNETYLKYYL 194

Query: 338 RSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
            S +         +G    ++   +   L + +PP+ EQ  I   I     ++D   E  
Sbjct: 195 LSDNFINRVNNKSTGTSYPAINDYNFNLLLIALPPLSEQQRIVEAIESALEKVDEYAESY 254

Query: 397 EQSIVLLKE----RRSSFIAAAVTGQ 418
            +   L KE     + S +  A+ G+
Sbjct: 255 NRLEQLDKEFPDKLKKSILQYAMQGK 280



 Score = 69.8 bits (169), Expect = 9e-10,   Method: Composition-based stats.
 Identities = 68/436 (15%), Positives = 127/436 (29%), Gaps = 67/436 (15%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLP-KDGNSRQSDTSTV 78
            IP  W+ V IK           E     I     D +     Y   +  +  Q+ +   
Sbjct: 83  DIPDTWEWVRIKSIYWNFGQNKPEKSFRYIDTSSIDRKKNIINYKNLQYLSPEQAPSRAR 142

Query: 79  SIFAKGQILYGKLGPYLRKAIIA---DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
            + ++  +L+  + PYL+   +        I ST F+VL        L   +LLS +   
Sbjct: 143 KLVSQNSVLFSTVRPYLKNIAVVRELKEYLIASTAFIVLDTLLNETYLKY-YLLSDNFIN 201

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
           R+     G +    +      + + +PPL+EQ  I E I +   ++D       R  +L 
Sbjct: 202 RVNNKSTGTSYPAINDYNFNLLLIALPPLSEQQRIVEAIESALEKVDEYAESYNRLEQLD 261

Query: 196 KEKK----QALVSYIVTKG--------------LNPDVKMKDSGIEW------------- 224
           KE      ++++ Y +                 L      K    E              
Sbjct: 262 KEFPDKLKKSILQYAMQGKLVEQDPNDESVEVLLEKIRAEKQKLFEEGKIKKKDLDISIV 321

Query: 225 -------------------VGLVPDHWEVKPFFALVTELNRKNTK-----LIESNILSLS 260
                              +  +P+ W    F +LV     K           + I  +S
Sbjct: 322 SQGDDNSYYGNKDETTSYPIYKIPEAWRYIKFASLVNFRIGKTPPRSEATFWGTEIPWVS 381

Query: 261 YGNIIQKLETRN----MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
             ++       N    +       +   I   G ++  F         L         II
Sbjct: 382 ISDMPISGYVTNTRESISKLALKSKKIDISPKGTLLMSFKLSIGKVAILDIPATHNEAII 441

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
           +  +       I   YL   +              G  ++L    +  L + +   +E  
Sbjct: 442 S-IFPYANKENIIRDYLMIFLPLISTLGDSKDAIKG--KTLNSTSISELLIPISNHEEMK 498

Query: 377 DITNVINVETARIDVL 392
            I   +++   ++  L
Sbjct: 499 RIIFKVDLLFQKVSQL 514



 Score = 48.6 bits (114), Expect = 0.002,   Method: Composition-based stats.
 Identities = 22/130 (16%), Positives = 46/130 (35%), Gaps = 17/130 (13%)

Query: 7   YPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDV-ESG 59
           YP YK         IP+ W+ +          G+T    +      +I ++ + D+  SG
Sbjct: 339 YPIYK---------IPEAWRYIKFASLVNFRIGKTPPRSEATFWGTEIPWVSISDMPISG 389

Query: 60  TGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV 119
                 +  +     +  + I  KG +L       + K  I D     +   + + P   
Sbjct: 390 YVTNTRESISKLALKSKKIDISPKGTLLMS-FKLSIGKVAILDIPATHNEAIISIFPYAN 448

Query: 120 LPELLQGWLL 129
              +++ +L+
Sbjct: 449 KENIIRDYLM 458


>gi|315639045|ref|ZP_07894214.1| type I specificity subunit HsdS [Campylobacter upsaliensis JV21]
 gi|315480873|gb|EFU71508.1| type I specificity subunit HsdS [Campylobacter upsaliensis JV21]
          Length = 470

 Score = 76.8 bits (187), Expect = 6e-12,   Method: Composition-based stats.
 Identities = 51/441 (11%), Positives = 118/441 (26%), Gaps = 65/441 (14%)

Query: 29  PIKRFTKLNTGRTSESG-------KDIIYIGLEDVESGTGKYLPKDGNSRQSDTST---V 78
           P+K F K+ +G+    G           Y+ ++D++S   +       S   D  T    
Sbjct: 33  PLKNFVKIKSGKRIPKGRSYANTTTTYKYLRVDDLDSEILEIDIDKLKSIDKDIFTLLER 92

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
                 ++     G   +  I  +     S + ++ +    L          + +  + +
Sbjct: 93  YEIHNDEVALSIAGTIGKVFIFHN---TTSNRVILTENCVKLQAQDNLLPKFLSLILKTD 149

Query: 139 AICEGATMSHADWKGIGN--------IPMPIPPLAEQVLIREKIIAETVRIDT------- 183
            +       +                    IPPL+ Q  I + +                
Sbjct: 150 FLQSQMKRQYIQTTIPKLAIERIKELQIPSIPPLSTQQHIIDLMDKAYKAKQEKENKAKE 209

Query: 184 --------------LITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVP 229
                         +I        L        +S +     + +   K        L+ 
Sbjct: 210 LLDSIDSYLLEELGIILPLRANNTLDSRIYTQKISALSGSRFDANYHQKYYRDLEKSLLS 269

Query: 230 DHWEVKPFFALVTELNRK-----NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ 284
             + +    +L+    +      +       I  +   +I       +   K  S   ++
Sbjct: 270 SPYPLVNLASLINNFKKGIEVGSSEYSQNKEIPFIRVSDITNNGIDFDNVQKFISASLFE 329

Query: 285 IVDPGEIVFRF--IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
            +   +                   A V    II+   + ++            +    +
Sbjct: 330 NLKAYKPKQNELLYSKDGTVGICLEADVSRDYIISGGILRLELKAEVDKDFLCFLLGSYM 389

Query: 343 CKVFYAMGS--GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
             VF    S   + + L   +   L + +PP+  Q  I N +  ++++   L  + E   
Sbjct: 390 INVFANRVSIGAVIKHLNIGEFLNLKIPLPPLAIQTQIANRL--KSSKFQALSLEKEA-- 445

Query: 401 VLLKERRSSFIAAAVTGQIDL 421
                     +  A   +ID+
Sbjct: 446 -------KEILNKA---KIDV 456


>gi|331678990|ref|ZP_08379662.1| putative type I restriction-modification system specificity subunit
           [Escherichia coli H591]
 gi|331073055|gb|EGI44378.1| putative type I restriction-modification system specificity subunit
           [Escherichia coli H591]
          Length = 360

 Score = 76.8 bits (187), Expect = 7e-12,   Method: Composition-based stats.
 Identities = 55/391 (14%), Positives = 118/391 (30%), Gaps = 45/391 (11%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
           V +     ++ G+  ++         + V +G+       G     D    ++ +   I+
Sbjct: 6   VKLGDVINVHYGKALKAD--------QRVSNGSVHVFGSSGIVGNHD---KTLCSYPTII 54

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMS 147
            G+ G         D   I  T + V        +L   +L  I     +       ++ 
Sbjct: 55  IGRKGSVGAITWAPDGGWIIDTAYYVEI--KDNNKLDLRYLFYILSGIDLTKKTITTSIP 112

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
             +   + +  + +PP  EQ  I + +  +   I     + I+  +       A +    
Sbjct: 113 GLNRDDLYDTFIKLPPFEEQKRIVDLLD-KAEGIRQKREQAIKLADDFLRATFATM---- 167

Query: 208 TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK 267
               NP    K   +  +G + +                K+  + E     +    I   
Sbjct: 168 --YGNPITNPKKWPVHLMGEIIEFK--------GGNQPPKSDFIFEPKQGYIRLVQIRDF 217

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
              +     P+      I +  +++            +        G    A M   P  
Sbjct: 218 KSDKYATYIPQEKAKR-IFEVDDVMIARYGPP-----VFQILRGLSGSYNVALMKASPKE 271

Query: 328 IDSTYL-AWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
                   +L++  +   V       +  +  +  E + +  V +PPI  Q +I   +  
Sbjct: 272 NIRKGFIFYLLQLPEYHDVVVKNSERTAGQTGVNLELLNKFNVPLPPIYYQDEILARL-- 329

Query: 385 ETARIDVLVEKIEQSIVLLK----ERRSSFI 411
             ARI+   EKIE S+  L+      +   +
Sbjct: 330 --ARIEKFKEKIEISLNHLEMQFLSLQKRLM 358



 Score = 43.2 bits (100), Expect = 0.083,   Method: Composition-based stats.
 Identities = 22/185 (11%), Positives = 56/185 (30%), Gaps = 4/185 (2%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVE-SGTGKYLPKDGNSRQSDTSTVSI 80
           PK W V  +    +   G        I       +       +      +         I
Sbjct: 175 PKKWPVHLMGEIIEFKGGNQPPKSDFIFEPKQGYIRLVQIRDFKSDKYATYIPQEKAKRI 234

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR--IE 138
           F    ++  + GP + +  +    G  +   +   PK+ + +    +LL +       ++
Sbjct: 235 FEVDDVMIARYGPPVFQI-LRGLSGSYNVALMKASPKENIRKGFIFYLLQLPEYHDVVVK 293

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
                A  +  + + +    +P+PP+  Q  I  ++       + +              
Sbjct: 294 NSERTAGQTGVNLELLNKFNVPLPPIYYQDEILARLARIEKFKEKIEISLNHLEMQFLSL 353

Query: 199 KQALV 203
           ++ L+
Sbjct: 354 QKRLM 358


>gi|301633326|gb|ADK86880.1| type I restriction modification DNA specificity domain protein
           [Mycoplasma pneumoniae FH]
          Length = 429

 Score = 76.8 bits (187), Expect = 7e-12,   Method: Composition-based stats.
 Identities = 49/411 (11%), Positives = 108/411 (26%), Gaps = 38/411 (9%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K   IK    +  GR           G+  V S       + G     D         G+
Sbjct: 4   KTYKIKDICDIKRGRVISKLDIKKDPGVFPVYSAATNNDGEFGRINSYDFD-------GE 56

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
            +      Y       +     +    +L+ K+            + +            
Sbjct: 57  YVTWTADGYGGAVFYRNGKFSITNLCGLLKVKNKEISSKY-LAHILKLEAPKFTNRVFKN 115

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT-----------------LITER 188
                 K +  IP+  PPL  Q  I   +   T                           
Sbjct: 116 RPKLTHKTMAEIPIDFPPLKIQEKIATILDTFTELSAELSAELSAELSAELSAELSAELS 175

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGI--EWVGLVPDHWEVKPFFALVTELNR 246
                 L  +  A +S  ++  L+ ++  + S    E       + +       + ++  
Sbjct: 176 AELSAELSAELSAELSAELSAELSAELSAELSAELRERRKQYDFYRDYLLNQENIRKIYG 235

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID--------- 297
            N       I  +   N  +++  + +   P  +  Y        +   I+         
Sbjct: 236 ANIPFETFQIRDICEINRGREINEKYLRENPGEFPVYSSATTNGGLIGKINDYDFHGEYV 295

Query: 298 --LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ 355
                   +       E+   +     ++    +     +L  +  L    +   +    
Sbjct: 296 TWTTGGAHAGNVFYRNEKFSCSQNCGLLEVKNKNKFSSKFLCFALKLQSKKFVNYASAIP 355

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
            L  + +  + +  PP++ Q  I +++       + L E I   I L K++
Sbjct: 356 VLTIKRIAEIELSFPPLEIQEKIADILFAFEKLCNDLTEGIPAEIELRKKQ 406



 Score = 37.9 bits (86), Expect = 2.9,   Method: Composition-based stats.
 Identities = 24/190 (12%), Positives = 53/190 (27%), Gaps = 16/190 (8%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV---SIFA 82
           +   I+   ++N GR          I  + +    G++      +             F 
Sbjct: 241 ETFQIRDICEINRGRE---------INEKYLRENPGEFPVYSSATTNGGLIGKINDYDFH 291

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
              + +   G +       +    CS    +L+ K+      +    ++ +  +      
Sbjct: 292 GEYVTWTTGGAHAGNVFYRNEKFSCSQNCGLLEVKNKNKFSSKFLCFALKLQSKKFVNYA 351

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKI---IAETVRIDTLITERIRFIELLKEKK 199
              +     K I  I +  PPL  Q  I + +         +   I   I   +   +  
Sbjct: 352 S-AIPVLTIKRIAEIELSFPPLEIQEKIADILFAFEKLCNDLTEGIPAEIELRKKQLDYY 410

Query: 200 QALVSYIVTK 209
           Q  +   V  
Sbjct: 411 QNFLFNWVQN 420


>gi|91775529|ref|YP_545285.1| restriction modification system DNA specificity subunit
           [Methylobacillus flagellatus KT]
 gi|91709516|gb|ABE49444.1| restriction modification system DNA specificity domain
           [Methylobacillus flagellatus KT]
          Length = 408

 Score = 76.8 bits (187), Expect = 7e-12,   Method: Composition-based stats.
 Identities = 40/247 (16%), Positives = 87/247 (35%), Gaps = 19/247 (7%)

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
           ++   +++L+E K+A +  + ++GL  + +        +GL+P+ W  +    L    + 
Sbjct: 153 QQSSLLDMLQELKRATLGELFSRGLRAEAQK----ETEIGLMPESWSPRTILELCEIWSG 208

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
              +   +   +     +  K   R        + +   V+ G  +     +    R + 
Sbjct: 209 GTPRKSVTEYWNGDIPWVSGKDLKRPALDDAIDHVSAAGVEAGSRLAPEGAVLLLVRGMG 268

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAW---LMRS------YDLCKVFYAMGSGLRQSL 357
            A+ +   +I  A    +      T   +    +RS        L         G   +L
Sbjct: 269 LAKDLPVAVINRAMAFNQDVKALVTRGEYSGQFLRSAIYAGKERLLSQIVPSAHGTM-TL 327

Query: 358 KFEDVKRLPVLVPP-IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
              DV+   V  P    E  DI  +++    +ID      +    +L+E   S +   +T
Sbjct: 328 NLNDVETFKVACPSDPDEAKDIVTILHTLDRKID----LHQTKCEVLEELFESLLRKLMT 383

Query: 417 GQIDLRG 423
           G+I +  
Sbjct: 384 GEIAVSD 390



 Score = 42.5 bits (98), Expect = 0.13,   Method: Composition-based stats.
 Identities = 28/205 (13%), Positives = 63/205 (30%), Gaps = 15/205 (7%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYL 64
           K++    IG +P+ W    I    ++ +G T           DI ++  +D++       
Sbjct: 183 KETE---IGLMPESWSPRTILELCEIWSGGTPRKSVTEYWNGDIPWVSGKDLKRPALD-D 238

Query: 65  PKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRK---AIIADFDGICSTQFLVLQPKDVLP 121
             D  S     +   +  +G +L    G  L K     + +     +     L  +    
Sbjct: 239 AIDHVSAAGVEAGSRLAPEGAVLLLVRGMGLAKDLPVAVINRAMAFNQDVKALVTRGEYS 298

Query: 122 ELLQGWLLSIDVTQRIEAI-CEGATMSHADWKGIGNIPMPIPPLAEQ-VLIREKIIAETV 179
                  +     + +  I          +   +    +  P   ++   I   +     
Sbjct: 299 GQFLRSAIYAGKERLLSQIVPSAHGTMTLNLNDVETFKVACPSDPDEAKDIVTILHTLDR 358

Query: 180 RIDTLITERIRFIELLKEKKQALVS 204
           +ID   T+     EL +   + L++
Sbjct: 359 KIDLHQTKCEVLEELFESLLRKLMT 383


>gi|15645090|ref|NP_207260.1| type I restriction enzyme S protein (hsdS) [Helicobacter pylori
           26695]
 gi|2313566|gb|AAD07524.1| type I restriction enzyme S protein (hsdS) [Helicobacter pylori
           26695]
          Length = 365

 Score = 76.8 bits (187), Expect = 7e-12,   Method: Composition-based stats.
 Identities = 55/403 (13%), Positives = 115/403 (28%), Gaps = 56/403 (13%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKD------IIYIGLEDVESGTGKYLPKDGNSRQ---S 73
             W+   +K   K+  G T  +         I +I  +D+ +  G+Y+ K   S      
Sbjct: 2   SEWQTFCLKDLGKIVGGATPPTNNPKNYGNKISWITPKDLSTLQGRYIKKGSRSISRLGF 61

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
            + +  +  K  IL+    P      IA+     +  F  + P   +      + L    
Sbjct: 62  KSCSCVLLPKHAILFSSRAPI-GYVAIAEKRLCTNQGFKSIIPNKKI-YFEFLYYLLKYH 119

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPP-LAEQVLIREKIIAETVRIDTLITERIRFI 192
                 + EG T+       +G   + IPP   EQ  I   +     +I+          
Sbjct: 120 KNNFINMGEGTTIKGIYNIALGLFKVKIPPTYYEQQKIARTLSILDQKIENNHKINELL- 178

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
                                                 H      +    +   KN KL 
Sbjct: 179 --------------------------------------HTLAYKIYEYYFKYKPKNAKLE 200

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
           +  I +     +++  +         +     +  P  I+       N   +      + 
Sbjct: 201 QIIIENPKSNIMVKNAQKTQDKYPFFTSGDNILSYPKAIIDGRNCFLNTGGNAGIKFYVG 260

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI 372
           +   ++    +  +   S YL  L+ S               + L+   +K+ P+ +P +
Sbjct: 261 KASYSTDTWCICANEF-SDYLYLLLSSIKNHINQSFFQGTSLKHLQKNLLKKYPIYMPSV 319

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            E        N     +  L+    ++   L++ R   +   +
Sbjct: 320 HEIKKF----NQIMMPLLTLISINTRTSKKLEQIRDFLLPLLL 358


>gi|307747955|gb|ADN91225.1| Type I restriction modification enzyme [Campylobacter jejuni subsp.
            jejuni M1]
          Length = 1279

 Score = 76.8 bits (187), Expect = 7e-12,   Method: Composition-based stats.
 Identities = 46/404 (11%), Positives = 125/404 (30%), Gaps = 31/404 (7%)

Query: 27   VVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGT-GKYLPKDGNSRQSDTSTVS 79
            +V +K       G T           DI ++ + D  +        +         S   
Sbjct: 890  LVKLKICGDFFMGGTPSRKNINYWNGDIKWLTISDYSNHQVIMDTKEKITREGFKNSNAK 949

Query: 80   IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
            +  KG ++   +   + +  I   D   +   + + P +        + +      ++  
Sbjct: 950  MIQKGAVVVS-IYATIGRVGILGEDMTTNQAIVAIIPNEEFINKYLMYAI-DYFKFQLYN 1007

Query: 140  ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
                 +  + +   + N+ +P PPL  Q  I  +      + +TL      +  L+K   
Sbjct: 1008 EVITTSQQNINLGILQNMVIPKPPLEIQKQIVAECEKIEEQYNTLSLSIKEYQNLIKAML 1067

Query: 200  QA--LVSYIVTKGLNP------DVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
            Q   ++       LN       ++   +   E++       +       + +L+     L
Sbjct: 1068 QKCGIIEDNQEYELNSILDKINNLCKINLDSEFLSSFNKTIKEYALSNPIFKLSIGKRVL 1127

Query: 252  IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
                + +         +      +  E  + Y      + V   ID       +   +  
Sbjct: 1128 NNELLENGQIPVYSANVLEVFGFVNKEILQDY----DNDSVLWGIDGDWMVGFIPKNKKF 1183

Query: 312  ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
                             ++ Y+++++      + F       +     + +K L V +P 
Sbjct: 1184 YPTDHCGVLRVDDTKI-NAKYISFILNEAGKKQGFSR-----KLRASIDRIKALRVKLPS 1237

Query: 372  IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            ++ Q  I ++I+    +I+  + + +  +  L++ +   +   +
Sbjct: 1238 LEFQDQIADIID----KIEKKINEYKIELDRLEKEKEKILQKYL 1277


>gi|256833460|ref|YP_003162187.1| restriction modification system DNA specificity domain-containing
           protein [Jonesia denitrificans DSM 20603]
 gi|256686991|gb|ACV09884.1| restriction modification system DNA specificity domain protein
           [Jonesia denitrificans DSM 20603]
          Length = 384

 Score = 76.8 bits (187), Expect = 7e-12,   Method: Composition-based stats.
 Identities = 21/158 (13%), Positives = 52/158 (32%), Gaps = 5/158 (3%)

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
           ++S+G  +          K E+  +      G++++           L   + +     +
Sbjct: 41  NMSHGRFVSGDFVYVSQEKFEADLSRNSAQGGDLIYTQRGTLGQVALLPPGKELHVISQS 100

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQF 376
              + +     D  Y+ +   S            S     +    +  L + +P I EQ 
Sbjct: 101 QMRLRIDEAKADPLYVYYASTSPHFLWQIDNRAISTGVPHINLGILGDLEIPLPSIAEQR 160

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAA 414
            I   +      +D  +E   +++ + ++   +  AAA
Sbjct: 161 AIAATLGA----LDDKIESNRRAVTIAEQLGDALFAAA 194



 Score = 61.7 bits (148), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 53/392 (13%), Positives = 116/392 (29%), Gaps = 56/392 (14%)

Query: 46  KDIIYIGLEDVESG---TGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD 102
             +  I   ++  G   +G ++       ++D S  S    G ++Y + G   + A++  
Sbjct: 32  SGVPVIRGANMSHGRFVSGDFVYVSQEKFEADLSRNS-AQGGDLIYTQRGTLGQVALLPP 90

Query: 103 FDGIC----STQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIP 158
              +     S   L +      P  +     S     +I+       + H +   +G++ 
Sbjct: 91  GKELHVISQSQMRLRIDEAKADPLYVYYASTSPHFLWQIDNRAISTGVPHINLGILGDLE 150

Query: 159 MPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMK 218
           +P+P +AEQ  I   + A   +I++         +L      A  S         D+ M 
Sbjct: 151 IPLPSIAEQRAIAATLGALDDKIESNRRAVTIAEQLGDALFAAAASESRLLSDVADITM- 209

Query: 219 DSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE 278
                  G  P   ++      +                            TR+ G++  
Sbjct: 210 -------GSSPKGADLNEDGDGLPFYQG-----------------------TRDFGVRFP 239

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
           S   +              +          +      I     A+       + L + MR
Sbjct: 240 SLRVWTTAPVRTAAKSDTLMSVRAPVGELNRASADCCIGRGVAAIHSDTH-PSTLYYAMR 298

Query: 339 SYDLCKVFYAMGSGLRQSLKFEDVKRLPV------LVPPIKEQFDITNVINVETARIDVL 392
           S       +     +  S+   DV    +       +  ++        +  +   ID  
Sbjct: 299 SSSSAWEKFQGEGTVFASVNKTDVHGAEIRWVGDGAL--LE--------LEDKLRAIDAR 348

Query: 393 VEKIEQSIVLLKERRSSFIAAAVTGQIDLRGE 424
           +E +E     L   R + +   ++G++ +  E
Sbjct: 349 IESLESETQRLTALRDALLPELLSGRMRVPAE 380


>gi|145641327|ref|ZP_01796906.1| putative type I restriction enzyme HindVIIP specificity protein
           [Haemophilus influenzae R3021]
 gi|145273870|gb|EDK13737.1| putative type I restriction enzyme HindVIIP specificity protein
           [Haemophilus influenzae 22.4-21]
          Length = 428

 Score = 76.8 bits (187), Expect = 7e-12,   Method: Composition-based stats.
 Identities = 63/438 (14%), Positives = 126/438 (28%), Gaps = 75/438 (17%)

Query: 23  KHWKVVPIKRFTKLNTGRTSE-------SGKDIIYIGLEDVES-GTGKYLPKDGNSRQSD 74
             WK   +K    + TG+T         S   + ++  +D+    T     +  +    D
Sbjct: 2   SDWKCYQLKNLGVIKTGKTPPSSCKDAFSNTGVPFVTPKDMNGVKTIFKTERYLSKIGLD 61

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
                +  K  I    +G  + KA +   D + + Q   L            +     + 
Sbjct: 62  LVKNYLVPKNSIAVSCIGSDMGKAYLLSEDSVTNQQINTLIVNK-NHNFEFIYYKLSIMQ 120

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             +++I  G+     +      I + +P L  Q    EK+     +I           ++
Sbjct: 121 DYLKSIAGGSATPILNKSHFSEIEIELPDLDTQNNFVEKLKYLDKKIQLNTQINQTLEQI 180

Query: 195 LKEKKQALV---------SYIVTKGL---------------------------------- 211
            +   ++              ++ GL                                  
Sbjct: 181 AQALFKSWFVDFDPVCAKVQALSDGLSLEQAELAAMQAISGKTPEELTALSQTQPERYAE 240

Query: 212 --NPDVKMKDSGIEWVG-LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKL 268
                       +E  G   P  WE  PF   + E   K   L  +   S++   II + 
Sbjct: 241 LAETAKAFPCEMVEVDGVEAPKGWETIPFKDFIKEKKEKVGSLKNTPEYSVTNNGIIPRS 300

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
           +  N  L     +   ++   ++VF       +   +    V + G ++SAY        
Sbjct: 301 QKFNKQLSKNPEKNK-LLHKTDLVFGMSREILNWGIM----VDDIGSVSSAYHVYSIDKN 355

Query: 329 DSTYLA---WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINV- 384
              +L     +M  +          S   QS   E +K   V+VP         N +   
Sbjct: 356 VINHLYLKMMMMNKFQYFNELIRPSSREGQSFDKELLKEKTVIVPS--------NFLLDH 407

Query: 385 ---ETARIDVLVEKIEQS 399
              +   ++  +  I++ 
Sbjct: 408 FLYKLELLNHQINTIKKK 425



 Score = 59.0 bits (141), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 21/199 (10%), Positives = 46/199 (23%), Gaps = 18/199 (9%)

Query: 212 NPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETR 271
               ++K+ G+   G  P       F                  I              R
Sbjct: 4   WKCYQLKNLGVIKTGKTPPSSCKDAFSNTGVPFVTPKDMNGVKTIFK----------TER 53

Query: 272 NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST 331
            +           +V    I    I     K  L    + E  +       +  +   + 
Sbjct: 54  YLSKIGLDLVKNYLVPKNSIAVSCIGSDMGKAYL----LSEDSVTNQQINTLIVNKNHNF 109

Query: 332 YLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
              +   S     +    G      L       + + +P +  Q +    +      +D 
Sbjct: 110 EFIYYKLSIMQDYLKSIAGGSATPILNKSHFSEIEIELPDLDTQNNFVEKL----KYLDK 165

Query: 392 LVEKIEQSIVLLKERRSSF 410
            ++   Q    L++   + 
Sbjct: 166 KIQLNTQINQTLEQIAQAL 184



 Score = 57.1 bits (136), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 21/173 (12%), Positives = 52/173 (30%), Gaps = 5/173 (2%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           PK W+ +P K F K    +         Y       +G      K       +     + 
Sbjct: 261 PKGWETIPFKDFIKEKKEKVGSLKNTPEY---SVTNNGIIPRSQKFNKQLSKNPEKNKLL 317

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            K  +++G     L   I+ D  G  S+ + V      +   L   ++ ++  Q    + 
Sbjct: 318 HKTDLVFGMSREILNWGIMVDDIGSVSSAYHVYSIDKNVINHLYLKMMMMNKFQYFNELI 377

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             ++     +     +      +     + +  + +   ++  I    +  + 
Sbjct: 378 RPSSREGQSFDKE--LLKEKTVIVPSNFLLDHFLYKLELLNHQINTIKKKQKH 428


>gi|3335660|gb|AAC78315.1| restriction-modification enzyme MpuUII S subunit [Mycoplasma
           pulmonis]
          Length = 369

 Score = 76.8 bits (187), Expect = 7e-12,   Method: Composition-based stats.
 Identities = 44/365 (12%), Positives = 108/365 (29%), Gaps = 19/365 (5%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDII-YIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           ++  + +   L  G++  + K +   IG+ ++ S   K     G     D +        
Sbjct: 2   EIYKLGQILNLEKGKSKYNAKYVSQNIGIYNLYSSKTKDQGIFGKINSYDFNGEY----- 56

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            IL    G Y       +     ++   +L+  + + +      L +   +    +  G+
Sbjct: 57  -ILITTHGAYAGTVKYVNEKFSTTSNCFILKVDENIAKTKFLSYLLLLQEKTFNDMAIGS 115

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
              +     I +  + +P L  Q  I + I  +               E   +K  +++ 
Sbjct: 116 AYGYLKNYNINDFEVNLPNLKTQSAIIKIIEPKEDLFFRHKNLVRIDSEENTKKDLSILI 175

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
            I+   L   +   D  I        H+    F                  I  +  G I
Sbjct: 176 KIIEP-LEKQINAFDELILSEQKSLQHYLNYFFGKFYQIEPSLFHDYKLEKIAKIRRGKI 234

Query: 265 IQKLETRNM---------GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
           I   + +             K      Y      +  +  I               +  I
Sbjct: 235 INSFDLKENPGDYPVISSNTKNNGIFGYLNSYMYDGEYITISADGAYAGTVFLNNGKFSI 294

Query: 316 ITSAYMAVKPHGID--STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
               ++ +    ++  + +L + ++  +      ++    R S++   +  + + +P ++
Sbjct: 295 TNVCFILLLNDKVNLLTKFLFYYLKKNENIIQKKSIVGSSRPSVREYTLSEIAIKIPSLE 354

Query: 374 EQFDI 378
            Q  I
Sbjct: 355 IQSAI 359


>gi|237739317|ref|ZP_04569798.1| predicted protein [Fusobacterium sp. 2_1_31]
 gi|229422925|gb|EEO37972.1| predicted protein [Fusobacterium sp. 2_1_31]
          Length = 504

 Score = 76.8 bits (187), Expect = 7e-12,   Method: Composition-based stats.
 Identities = 59/458 (12%), Positives = 136/458 (29%), Gaps = 72/458 (15%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           IP +W            + +  +  ++  Y+   ++   +       G S   +      
Sbjct: 34  IPSNWVWTRYDVLFSDIS-KNEKKIEEKNYLENGEIAIVSQGKDKIVGYSDILEVKPYKE 92

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
                ++    G +       +F        + +     +      + L  ++       
Sbjct: 93  ELP--LII--FGDHTLNVKYIEFPFYIGADGVKVLKTTDIIIPKFLFYLLNNLKTFSLIN 148

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
                        +  +  P+ PL EQ  I EK+     +I             ++ +K 
Sbjct: 149 TGYRRHYPI----LKKLFFPLSPLNEQKRIVEKLDFLFEKIKRAKEIIEEIKIDIENRKI 204

Query: 201 ALVSYIVTKGLNPDVK--MKDSGIEWV--------------------------------- 225
           +++       L    +   K S ++ +                                 
Sbjct: 205 SILDRAFKGTLTSKWRSENKISDVKELLKSINEEKIKKWEEDCLQAEKDGNKKPKKPTIT 264

Query: 226 -------------GLVPDHWEVKPFFALVTELNRKNTKLIE-----SNILSLSYGNIIQK 267
                          +PD W       +V     K    I+       I   +      +
Sbjct: 265 EVKDMIVPVDEQPYKLPDSWVWVRLGDIVEINPNKIKINIDENELVDFIPMKNVSENSPE 324

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFID--LQNDKRSLRSAQVMERGIITSAYMAVKP 325
           +   N        + Y      +I+F  I   ++N K ++ S    + G  ++ +  ++ 
Sbjct: 325 IIENNFEKFKNLQKGYSQFIENDILFAKITPCMENGKTAIVSNLKEKIGYGSTEFHVLRS 384

Query: 326 HGIDSTYLAW-LMRSYDLCK--VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
             I S  L +  ++     K   +   GS   + +  E ++  P  +PP++EQ +I  V+
Sbjct: 385 TKIISNKLLYNFLKQQRFRKDAKYNMTGSVGFRRVPTEFMRSYPFPLPPLEEQQEIVRVL 444

Query: 383 NVETARIDVLVEK--IEQSIVLLKERRSSFIAAAVTGQ 418
           +      + + E   +E+ I +L+    S +  A  G+
Sbjct: 445 DEVLENENKVKELLELEERIDILE---KSILHKAFKGE 479



 Score = 66.0 bits (159), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 35/217 (16%), Positives = 83/217 (38%), Gaps = 12/217 (5%)

Query: 20  AIPKHWKVVPIKRFTKLNTGR---TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            +P  W  V +    ++N  +     +  + + +I +++V   + + +  +    ++   
Sbjct: 279 KLPDSWVWVRLGDIVEINPNKIKINIDENELVDFIPMKNVSENSPEIIENNFEKFKNLQK 338

Query: 77  TVSIFAKGQILYGKLGPYLRKA------IIADFDGICSTQFLV-LQPKDVLPELLQGWLL 129
             S F +  IL+ K+ P +          + +  G  ST+F V    K +  +LL  +L 
Sbjct: 339 GYSQFIENDILFAKITPCMENGKTAIVSNLKEKIGYGSTEFHVLRSTKIISNKLLYNFLK 398

Query: 130 SIDVTQRIEAICEGA-TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
                +  +    G+        + + + P P+PPL EQ  I   +       +  + E 
Sbjct: 399 QQRFRKDAKYNMTGSVGFRRVPTEFMRSYPFPLPPLEEQQEIVRVLDEVLEN-ENKVKEL 457

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWV 225
           +   E +   +++++       L       +S +E +
Sbjct: 458 LELEERIDILEKSILHKAFKGELGTQNSSDESAMELL 494



 Score = 49.0 bits (115), Expect = 0.001,   Method: Composition-based stats.
 Identities = 32/195 (16%), Positives = 73/195 (37%), Gaps = 10/195 (5%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET 282
           E    +P +W    +  L +++++   K+ E N L      I+ + + + +G        
Sbjct: 29  EQPYTIPSNWVWTRYDVLFSDISKNEKKIEEKNYLENGEIAIVSQGKDKIVGYSDILEVK 88

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
               +   I+F    L      ++  +           +      I   +L +L+ +   
Sbjct: 89  PYKEELPLIIFGDHTLN-----VKYIEFPFYIGADGVKVLKTTDIIIPKFLFYLLNNLKT 143

Query: 343 CKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
             +     +G R+   +  +K+L   + P+ EQ  I   ++    +I    E IE+  + 
Sbjct: 144 FSLIN---TGYRRH--YPILKKLFFPLSPLNEQKRIVEKLDFLFEKIKRAKEIIEEIKID 198

Query: 403 LKERRSSFIAAAVTG 417
           ++ R+ S +  A  G
Sbjct: 199 IENRKISILDRAFKG 213


>gi|294793171|ref|ZP_06758317.1| putative toxin-antitoxin system, toxin component [Veillonella sp.
           6_1_27]
 gi|294456116|gb|EFG24480.1| putative toxin-antitoxin system, toxin component [Veillonella sp.
           6_1_27]
          Length = 374

 Score = 76.4 bits (186), Expect = 8e-12,   Method: Composition-based stats.
 Identities = 50/407 (12%), Positives = 116/407 (28%), Gaps = 49/407 (12%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W +  +K     N   +   G     IG++ ++     +            S  + F  
Sbjct: 3   EWVMKKLKDIADFNPRESLAKGTVAKKIGMDKLQ----PFCRDVLGYDLEQFSGGTKFRN 58

Query: 84  GQILYGKLGPYLRK-------AIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
           G  +  ++ P L          +     G  ST+++V + K+ + E    +L+   + + 
Sbjct: 59  GDTIMARITPCLENGKTAKVSILDDGEVGFGSTEYIVFRAKNSVDEDFIYYLVCSPLVRE 118

Query: 137 I--EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
              +++   +         + N+ + +P   EQ  I   + +   +I           + 
Sbjct: 119 PAIKSMVGSSGRQRVQTDVVQNLEIMVPDYEEQRRISGLLKSLDDKIALNNAINNNLAQQ 178

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
            K   Q      +                  G  P  W+      +    + K      +
Sbjct: 179 AKTIYQTWFEKFILS---------------NGSCPPTWKRGILADIANITSGKRPPKKST 223

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
                +   I     T  +G   E+  T +I+  G +          + +          
Sbjct: 224 KK--QNGFEIPLLGATSIVGFTNEANYTNKILVIGRV---GTHGIVQRINFPCWASDNTL 278

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKE 374
           +ITS                +  +               +  +   D+ ++ +L+P    
Sbjct: 279 VITSEL------------YEYTFQILQKINYHAMNRGSTQPLITQADMNKVDILIPD--- 323

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
              I         ++    E        L E R   +   ++G++D+
Sbjct: 324 -NQILTEFESIVGQLMKKYETNLMENTKLAELRDYLLPCLLSGELDV 369


>gi|331017720|gb|EGH97776.1| restriction modification system DNA specificity domain protein
           [Pseudomonas syringae pv. lachrymans str. M302278PT]
          Length = 381

 Score = 76.4 bits (186), Expect = 8e-12,   Method: Composition-based stats.
 Identities = 56/194 (28%), Positives = 85/194 (43%), Gaps = 5/194 (2%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGR--TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           +G +PK WK   +    +  T +   SE    + Y+GLE +   +   +  +        
Sbjct: 176 LGQVPKGWKFGILGDIAQTVTRKATVSEFNDQLNYVGLEHIPRKSLSLI--NWGCADGLA 233

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPE-LLQGWLLSIDVT 134
           S+ S+F+K  IL+GKL PY  K +IA  DG+CST  LV QPK      ++   L S  + 
Sbjct: 234 SSKSVFSKTDILFGKLRPYFHKVVIAPIDGVCSTDVLVCQPKVNDYYGIVLMHLFSESLI 293

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
                +  GA M    WK +   PM IPP    +     I+     I + I +    I+L
Sbjct: 294 SYANRLSNGAKMPRVSWKDLAAYPMCIPPSDIAMSFNSVILPMVGEIISNIEQIQTVIQL 353

Query: 195 LKEKKQALVSYIVT 208
            +     L+S  V 
Sbjct: 354 RETLLPKLISGEVR 367



 Score = 71.7 bits (174), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 51/365 (13%), Positives = 119/365 (32%), Gaps = 28/365 (7%)

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP---ELLQGWLLSIDV 133
           + +    G++L   +G   + A+ +      +    V     +     E +   L S   
Sbjct: 12  SRTRLKGGEVLLTLVGSVGQVAVASKKLKGFNVARAVAVIHPIDSVEAEWIALCLRSPLS 71

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
              + +       +  + K +  +P+P PP +E+  I   + A    I  L         
Sbjct: 72  KHLLGSRANTTVQTTINLKDLRELPIPFPPESERKEITAALGALDSCIAVLHETNATLQS 131

Query: 194 LLKEKKQALV-----------SYIVTKGLNPDVKMKDSGIEW--VGLVPDHWEVKPFFAL 240
           + +   ++             S   +        +  +  E   +G VP  W+      +
Sbjct: 132 IAQTIFKSWFVDFNPVHAKSESRAPSYIDTGTADLFPNDFESSALGQVPKGWKFGILGDI 191

Query: 241 VTELNRK--NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDL 298
              + RK   ++  +            + L   N G       +  +    +I+F  +  
Sbjct: 192 AQTVTRKATVSEFNDQLNYVGLEHIPRKSLSLINWGCADGLASSKSVFSKTDILFGKLRP 251

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWL-MRSYDLCKVFYAMGSGL-RQS 356
              K  +        G+ ++  +  +P   D   +  + + S  L      + +G     
Sbjct: 252 YFHKVVIAPID----GVCSTDVLVCQPKVNDYYGIVLMHLFSESLISYANRLSNGAKMPR 307

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           + ++D+   P+ +PP        +VI      I   +  IE  I  + + R + +   ++
Sbjct: 308 VSWKDLAAYPMCIPPSDIAMSFNSVILPMVGEI---ISNIE-QIQTVIQLRETLLPKLIS 363

Query: 417 GQIDL 421
           G++ L
Sbjct: 364 GEVRL 368



 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/134 (11%), Positives = 56/134 (41%), Gaps = 6/134 (4%)

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
           ++  +   +  GE++   +       ++ S ++    +  +  +      +++ ++A  +
Sbjct: 8   DAKYSRTRLKGGEVLLTLVGSVGQ-VAVASKKLKGFNVARAVAVIHPIDSVEAEWIALCL 66

Query: 338 RSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
           RS     +  +  +   + ++  +D++ LP+  PP  E+ +IT  +      +D  +  +
Sbjct: 67  RSPLSKHLLGSRANTTVQTTINLKDLRELPIPFPPESERKEITAALGA----LDSCIAVL 122

Query: 397 EQSIVLLKERRSSF 410
            ++   L+    + 
Sbjct: 123 HETNATLQSIAQTI 136


>gi|255690847|ref|ZP_05414522.1| type I restriction-modification system, S subunit [Bacteroides
           finegoldii DSM 17565]
 gi|260623571|gb|EEX46442.1| type I restriction-modification system, S subunit [Bacteroides
           finegoldii DSM 17565]
          Length = 251

 Score = 76.4 bits (186), Expect = 8e-12,   Method: Composition-based stats.
 Identities = 25/173 (14%), Positives = 54/173 (31%), Gaps = 12/173 (6%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIE----------SNILSLSYGNIIQKLETRNMGLK 276
             P +W       +       +    E             +     +   ++   N    
Sbjct: 80  ETPKNWVWTRLSHIANIYTGNSISETEKKSKFTDVIGRYYIGTKDVDFNNRIIYDNGIAI 139

Query: 277 PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWL 336
           P+ YE    + P   +   I+  +  R +      +     +      P      Y+ + 
Sbjct: 140 PKQYEPDFRLAPNNSILMCIEGGSAGRKIAILN--QDVCFGNKLCCFSPFVGIGKYMYYY 197

Query: 337 MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
           ++S    ++F    +G+   +    VK + + +PPIKEQ  I   I     ++
Sbjct: 198 LQSPSFFELFNLNKTGIIGGVSIAKVKEILIPLPPIKEQQRIVAQIEKLFEQL 250



 Score = 61.3 bits (147), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 29/171 (16%), Positives = 53/171 (30%), Gaps = 11/171 (6%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGK---------DIIYIGLEDVESGTGKYLPKDGNSRQ 72
           PK+W    +     + TG +    +            YIG +DV+              +
Sbjct: 82  PKNWVWTRLSHIANIYTGNSISETEKKSKFTDVIGRYYIGTKDVDFNNRIIYDNGIAIPK 141

Query: 73  SDTSTVSIFAKGQILYGKL-GPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
                  +     IL     G   RK  I + D     +     P   + + +  +L S 
Sbjct: 142 QYEPDFRLAPNNSILMCIEGGSAGRKIAILNQDVCFGNKLCCFSPFVGIGKYMYYYLQSP 201

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
              +       G  +       +  I +P+PP+ EQ  I  +I     ++ 
Sbjct: 202 SFFELFNLNKTG-IIGGVSIAKVKEILIPLPPIKEQQRIVAQIEKLFEQLR 251


>gi|317013880|gb|ADU81316.1| Type I restriction/modification specificity protein [Helicobacter
           pylori Gambia94/24]
          Length = 414

 Score = 76.4 bits (186), Expect = 8e-12,   Method: Composition-based stats.
 Identities = 57/409 (13%), Positives = 117/409 (28%), Gaps = 33/409 (8%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGT-GKYLPKDGNSRQSDT 75
             W+   +K   K+ TG+T ++          ++I   D+         P+  +     +
Sbjct: 2   SEWQTFCLKDLGKIVTGKTPKTSNLDFFNGKYMFITPNDLHGTYRIIKTPRTLSDSGLKS 61

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
              +      IL G +G      +  D     + Q   +            +    +  +
Sbjct: 62  IQNNTIDNISILVGCIGDVGMVRMCFDKCA-TNQQINSITDIKDFCNPYYLYYYLSNKKE 120

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
             + I     +          I + +P +  Q  I   +     +I+          ++L
Sbjct: 121 LFKNIALSTVVPIIPKTIFQEIEVLLPNIETQQKIARTLSILDQKIENNHKINELLHKIL 180

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSG-----IEWVGLVPDHWEVKPFFALVTELNRKNTK 250
           +   +           N        G      E   L+P+ +EVK    LV   +  + +
Sbjct: 181 ELLYEQYFVRFDFSDENNKPYQTSGGKMKFSKELNRLIPNDFEVKTLGELVDIFSGYSFQ 240

Query: 251 LIESNILSLSYGNIIQK---------LETRNMGLKPESYETYQIVDPGEIVFRFIDLQND 301
               +     Y  I  K           T N+   P+    Y +++P  I+         
Sbjct: 241 SNTYSNNKNDYILITNKNVQHSLIDLSITTNLLFLPKKLPKYCLLEPTNILITLTGHIGR 300

Query: 302 KRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW-LMRSYDLCKVFYAMG-SGLRQSLKF 359
              + S    +  I+      V P   +     + L+R+     +         +Q+L  
Sbjct: 301 CALVFS----KNCILNQRVGVVLPKEKELNPFYYSLIRNPLFSAILQRNAIGSSQQNLSP 356

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
            D  ++ +          I    +     I  L+    QS   L   R 
Sbjct: 357 IDTLKIQIPF-----NHKIIKQYSKTCENIIKLLVSNMQSTQTLTALRD 400



 Score = 54.0 bits (128), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 21/158 (13%), Positives = 51/158 (32%), Gaps = 8/158 (5%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTS------ESGKDIIYIGLEDVESGTGKY-LPKDGNSRQS 73
           IP  ++V  +     + +G +        +  D I I  ++V+       +  +      
Sbjct: 218 IPNDFEVKTLGELVDIFSGYSFQSNTYSNNKNDYILITNKNVQHSLIDLSITTNLLFLPK 277

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV-LPELLQGWLLSID 132
                 +     IL    G   R A++   + I + +  V+ PK+  L       + +  
Sbjct: 278 KLPKYCLLEPTNILITLTGHIGRCALVFSKNCILNQRVGVVLPKEKELNPFYYSLIRNPL 337

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLI 170
            +  ++    G++  +        I +P      +   
Sbjct: 338 FSAILQRNAIGSSQQNLSPIDTLKIQIPFNHKIIKQYS 375


>gi|108563200|ref|YP_627516.1| putative type I restriction-modification enzyme specificity subunit
           S [Helicobacter pylori HPAG1]
 gi|107836973|gb|ABF84842.1| putative type I restriction-modification enzyme specificity subunit
           S [Helicobacter pylori HPAG1]
          Length = 444

 Score = 76.4 bits (186), Expect = 8e-12,   Method: Composition-based stats.
 Identities = 46/434 (10%), Positives = 122/434 (28%), Gaps = 58/434 (13%)

Query: 22  PKHWKVVPIKRFTKL-------NTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           PK  +   +    +         T +  +       +                     ++
Sbjct: 13  PKGVEFRKLGEVLEYDQPNQYCVTSKEFDKSYPTPVLTAG----------KTFILGYTNE 62

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
              +   +K   +            +     + S+   +L  K+    +   +       
Sbjct: 63  KDNIYQASKNAPVIIFDDFTTATQWVDFPFKVKSSAMKILFSKNPTINIRFIFFYM---Q 119

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR-----------IDT 183
                I                + +PIPPL  Q  I + + A T             ++T
Sbjct: 120 IIPYNIGGEHARQWISRYSQ--LEVPIPPLEIQQEIVKILDAFTELNTELNTELNTELNT 177

Query: 184 LITERIRFIELLKEKKQALVSYIVTKGLN-------PDVKMKDSGIEWVGLVPDHWEVKP 236
            +   ++  +   E  Q ++        N            K        L P   E + 
Sbjct: 178 ELNTELKARKKQYEYYQNMLLDFNDINSNHKDAKMSAKPYPKRLKTLLQTLAPKGVEFRK 237

Query: 237 FFALVTELNR-------KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG 289
              +               ++  +  +  ++  N  Q        ++    E    +  G
Sbjct: 238 LGDIGEFYGGLVGKSKKSFSQGNKFYVPYINVFNNPQLDLNALESVQIGDKEKQNTIQLG 297

Query: 290 EIVFRFID------LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC 343
           +++F            +   + +  + +        +     +  + ++L   +R Y+  
Sbjct: 298 DVLFTGSSENLEDCAMSCVVTQKIEKDIYLNSFCFGFRFFDKNLFNPSFLKHFLRDYNFR 357

Query: 344 KVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
           K    + +G  R ++  + + ++ + +PP++ Q +I  +++  +A    L+  I   I  
Sbjct: 358 KNISKVANGVTRFNVSKQLLSQITIPIPPLEIQQEIVKILDQFSALTTDLLAGIPAEIKA 417

Query: 403 LKE----RRSSFIA 412
            K+     R   + 
Sbjct: 418 RKKQYEYYREKLLT 431


>gi|257784005|ref|YP_003179222.1| restriction modification system DNA specificity domain-containing
           protein [Atopobium parvulum DSM 20469]
 gi|257472512|gb|ACV50631.1| restriction modification system DNA specificity domain protein
           [Atopobium parvulum DSM 20469]
          Length = 386

 Score = 76.4 bits (186), Expect = 8e-12,   Method: Composition-based stats.
 Identities = 53/398 (13%), Positives = 106/398 (26%), Gaps = 31/398 (7%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           + V +  F     G+ ++  K      + +                  +     +  +G 
Sbjct: 10  ERVRLTSFVS-AAGKRNKGAKCTDVYSVTNSHGFVPSTEYFSKEVFSKELEAYRLVERGM 68

Query: 86  ILYGKLGPYLRKAIIAD--FDGICSTQFLVLQPKDVL--PELLQGWLLSIDVTQRIEAIC 141
           + Y      +    + +     + S  ++V         P  L  +L S     +I    
Sbjct: 69  LAYNPSRINVGSIALQESADRVVVSPLYVVFSVDTRHLAPGYLLRFLKSKPGLNQIAFRS 128

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            G   S+  +  +  + MP+P +  Q      +     +I+           L+K +   
Sbjct: 129 SGTVRSNLKFDALSLLEMPLPSIDVQEKRLVVLSRLEKQIEARGEFIASLDTLVKSRFIE 188

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
           +    +    N   ++        G  P                RK  +     I  +  
Sbjct: 189 MFGDPIALNSNKKSRLDSFAKIITGNTPS---------------RKKPEYYGDYIEWIKT 233

Query: 262 GNIIQKLETRN--MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
            NI            L  +     +I   G ++   I          +            
Sbjct: 234 DNITSTPVLTKAAESLSEDGASAGRIAPSGSVLMSCIAGSVKSIGKVAIADRPVAFNQQI 293

Query: 320 YMAVKPHGIDSTYLAWLMR--SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFD 377
              +   GI + YL W++      LC        G+   L    + R    VPP   Q +
Sbjct: 294 NAIIPADGILTEYLYWMLSLSKDYLCSDINMQLKGI---LNKTALSRKMFCVPPPSLQQE 350

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
               +     ++D L    E+    L+    S      
Sbjct: 351 FATFV----RQVDKLRVVAEEQKKKLQTLYDSLAQEYF 384


>gi|94970783|ref|YP_592831.1| restriction modification system S subunit [Candidatus Koribacter
           versatilis Ellin345]
 gi|94552833|gb|ABF42757.1| restriction modification system S subunit [Candidatus Koribacter
           versatilis Ellin345]
          Length = 436

 Score = 76.4 bits (186), Expect = 8e-12,   Method: Composition-based stats.
 Identities = 60/410 (14%), Positives = 124/410 (30%), Gaps = 42/410 (10%)

Query: 45  GKDIIYIGLEDVESGTGKYLP-KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD- 102
            + + +I   D+++    +      N       T  I A G IL    G   + A++ D 
Sbjct: 36  KRGVAFIRAADMDASDVLFDTASRINDVARKRITKGIGAPGDILLSHKGTVGKVALVPDD 95

Query: 103 -FDGICSTQ--FLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMS--HADWKGIGNI 157
               +CS Q  F      D L        L      +  A   G T    +        +
Sbjct: 96  APPFVCSPQTTFWRTLKGDRLDRRYLHAYLRSPYFHQQLASRAGETDMAPYVSLTSQRGL 155

Query: 158 PMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVT---KGLNPD 214
            + +P +  Q  I   + A   +I      +    ++ +   Q+          K L   
Sbjct: 156 HVLMPDIDIQRRIGSIVGALDAKISVERKIKGTLADIARALFQSWFVDFDPVRAKSLGSS 215

Query: 215 VKMKDS---------GIEWVGLVPDHWEVKPFFALVTELNR---KNTKLIESNILSLSYG 262
             +  S             +G +P  W V     +   LN    +     E+  L +   
Sbjct: 216 SSLPASLESLFPDTFEESELGQIPSGWTVGSLDQIAHFLNGLALQRFPPNENGSLPVIKI 275

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
             ++   T    L   + +   IV  G+++F +                 +G +      
Sbjct: 276 AQLKAGNTEGADLASPNLDPGYIVQDGDVLFSWSGSLECVV-----WSGGKGALNQHLFK 330

Query: 323 VKPHGIDSTYLAWLM-RSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
           V        +    + R  D  +   A  +     ++   +    +L+P          +
Sbjct: 331 VTSKDYPKWFFYLWIHRHLDEFRRIAAAKATTMGHIQRYHLSEAKILLP-----HK--KL 383

Query: 382 INVETARIDVLVEKI-----EQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
           ++     I  L+E I     +  I  L   R   +   ++G++ +  +++
Sbjct: 384 LDAADRIIGPLIESINVRAVQSKI--LGRIRDLLLPKLISGELAIEDDAE 431



 Score = 59.4 bits (142), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 27/192 (14%), Positives = 53/192 (27%), Gaps = 10/192 (5%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRT-----SESGKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           +G IP  W V  + +      G             +  I +  +++G      +  +   
Sbjct: 235 LGQIPSGWTVGSLDQIAHFLNGLALQRFPPNENGSLPVIKIAQLKAGN----TEGADLAS 290

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
            +     I   G +L+   G  L   + +   G  +     +  KD        W+    
Sbjct: 291 PNLDPGYIVQDGDVLFSWSGS-LECVVWSGGKGALNQHLFKVTSKDYPKWFFYLWIHRHL 349

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
              R  A  +  TM H     +    + +P           I      I+    +     
Sbjct: 350 DEFRRIAAAKATTMGHIQRYHLSEAKILLPHKKLLDAADRIIGPLIESINVRAVQSKILG 409

Query: 193 ELLKEKKQALVS 204
            +       L+S
Sbjct: 410 RIRDLLLPKLIS 421


>gi|32455758|ref|NP_862217.1| restriction modification system subunit S [Lactobacillus
           delbrueckii subsp. lactis]
 gi|6469512|gb|AAF13313.1|AF109691_6 type I S-subunit [Lactobacillus delbrueckii subsp. lactis]
          Length = 389

 Score = 76.4 bits (186), Expect = 8e-12,   Method: Composition-based stats.
 Identities = 52/394 (13%), Positives = 124/394 (31%), Gaps = 33/394 (8%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+   +    +  T  + ++ K    +  E         +  D     S  S   I  + 
Sbjct: 21  WEQRKLGDVCEPITD-SIDTQKYPNEVFAEYSMPAFDASMKPDIVLGSSMNSVRKIITRP 79

Query: 85  QILYGKLGPYLRKAII---ADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            +L  KL    ++       + + +CS +F+ L    V    L     S   T+ +E   
Sbjct: 80  CLLVNKLNVRKKRIWYVKKPNKNAVCSAEFIPLYSDTVDLTFLNQVAKSETFTRYLENHS 139

Query: 142 EG--ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
            G   +      + +    + IP + EQ LI +   +    I     ++ +   L     
Sbjct: 140 SGSSNSQKRITPRSLMLSKLHIPTIEEQKLIGKIFESLDHTITLHEEKKRQLECLKSALL 199

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
           Q + +    K   P V+ +     W        E +    +V +  +   +L +     +
Sbjct: 200 QKMFAD---KSGYPVVRFEGFDKAW--------EERKLKDVVEKQIKGKAQLEKLAPGEV 248

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
            Y +  +     N G    +     +     ++                 +         
Sbjct: 249 EYLDTSR----LNGGQAILTNGLKDVTLDDILILWDGSKAGTVYHGFEGALGST------ 298

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
            +       +S ++   ++ +    ++    +     ++ + +    + VP   EQ  I 
Sbjct: 299 -LKAYRTSANSKFVYQYLKRHQ-DNIYNNYRTPNIPHVQKDFLNVFTISVPVSDEQEKIG 356

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           +       ++D  +   ++ + LLKE++  F+  
Sbjct: 357 SF----FKQLDDTIAFHQRKLDLLKEQKKGFLQK 386


>gi|226223150|ref|YP_002757257.1| specificity determinant HsdS [Listeria monocytogenes Clip81459]
 gi|225875612|emb|CAS04315.1| Putative specificity determinant HsdS [Listeria monocytogenes
           serotype 4b str. CLIP 80459]
          Length = 400

 Score = 76.4 bits (186), Expect = 8e-12,   Method: Composition-based stats.
 Identities = 33/184 (17%), Positives = 67/184 (36%), Gaps = 7/184 (3%)

Query: 232 WEVKPFFALVTELNRKNTKLIESNILSLSYGNII--QKLETRNMGLKPESYETYQIVDPG 289
           WE +    LV +   K +   +  +L+ S    I  Q+    N  +  E+   Y ++  G
Sbjct: 19  WEQRKLGDLVVDYVEKTSVQNQFPMLTSSQQKGIVLQEDYFANRQVTTENNIGYFVLPRG 78

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
              FR     ND        +++RGII+  Y        DS +    + +    ++    
Sbjct: 79  YFTFRSRS-DNDVFVFNRNDIIDRGIISYFYPVFTLKSADSDFFLRRINNGIQRQLSIQA 137

Query: 350 GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
               +  L  +  K +  + P   EQ  I +       ++D  +   ++ +  LK+ +  
Sbjct: 138 EGTGQHVLSLKKFKNIVAMFPSEGEQKKIGSF----FKQLDDTIALHQRKLDTLKQMKKG 193

Query: 410 FIAA 413
            +  
Sbjct: 194 LLQQ 197



 Score = 76.0 bits (185), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 49/398 (12%), Positives = 114/398 (28%), Gaps = 30/398 (7%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+   +         +TS   +  +    +       +    +      +     +  +G
Sbjct: 19  WEQRKLGDLVVDYVEKTSVQNQFPMLTSSQQKGIVLQEDYFANRQVTTENNIGYFVLPRG 78

Query: 85  QILYGKLGPYLRKAIIADF---DGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
              +             +     GI S  + V   K           ++  + +++    
Sbjct: 79  YFTFRSRSDNDVFVFNRNDIIDRGIISYFYPVFTLKSA-DSDFFLRRINNGIQRQLSIQA 137

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
           EG        K   NI    P   EQ  I         ++D  I    R ++ LK+ K+ 
Sbjct: 138 EGTGQHVLSLKKFKNIVAMFPSEGEQKKIGSF----FKQLDDTIALHQRKLDTLKQMKKG 193

Query: 202 LVSYIVTKGLN--PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
           L+  +  K     P ++  D   EW        E +           K   +  + +  +
Sbjct: 194 LLQQMFPKSEEDVPKIRFADFDEEWY-QRKLGEEFEKINERNDGSFGKTHWISVAKMYFV 252

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
                       N  L         ++  G+I F      + K     A  +  GI++  
Sbjct: 253 EP----------NKVLSNNIDTRTYVMRKGDIAFEGHSNTDFKFGRFVANDIGPGIVSEL 302

Query: 320 YMAVKPH-GIDSTYLAWLMRSYDLCKVFYAMGSGLRQS----LKFEDVKRLPVLVPPIKE 374
           +   +     D+ Y    ++   +    Y+       +    L  +      + +   +E
Sbjct: 303 FPVYRHKTNYDNNYWKNAIQLEHIMAPIYSKSITSSGNSSNKLDSKHFLNQKIYIADFEE 362

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           Q  I ++      ++D  +   +  +      + +++ 
Sbjct: 363 QEKIGSI----FKQLDNTIILYQNKLNKFDILKKAYLQ 396



 Score = 37.9 bits (86), Expect = 3.6,   Method: Composition-based stats.
 Identities = 22/189 (11%), Positives = 52/189 (27%), Gaps = 9/189 (4%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + W    +    +    R   S     +I +  +      ++  +     +  +   +  
Sbjct: 216 EEWYQRKLGEEFEKINERNDGSFGKTHWISVAKMY-----FVEPNKVLSNNIDTRTYVMR 270

Query: 83  KGQILY----GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           KG I +         + R        GI S  F V + K           + ++      
Sbjct: 271 KGDIAFEGHSNTDFKFGRFVANDIGPGIVSELFPVYRHKTNYDNNYWKNAIQLEHIMAPI 330

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
                 +  ++  K      +           +EKI +   ++D  I      +      
Sbjct: 331 YSKSITSSGNSSNKLDSKHFLNQKIYIADFEEQEKIGSIFKQLDNTIILYQNKLNKFDIL 390

Query: 199 KQALVSYIV 207
           K+A +  + 
Sbjct: 391 KKAYLQTMF 399


>gi|307268430|ref|ZP_07549808.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX4248]
 gi|306515237|gb|EFM83774.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX4248]
          Length = 389

 Score = 76.4 bits (186), Expect = 9e-12,   Method: Composition-based stats.
 Identities = 47/402 (11%), Positives = 129/402 (32%), Gaps = 37/402 (9%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDII------YIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +W++   +R  +     +     +        YI   D+ +     + ++ N        
Sbjct: 8   NWELCKFERIFEKVKSYSLSREVETNEFTGMKYIHYGDIHTKKADKVSENSNIPNIIKKN 67

Query: 78  VSIFAKGQILYGKLGPYLRKAI-------IADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
            ++   G ++        +             FD +     + L+PK++ P  L   + +
Sbjct: 68  FALLEIGDLILTDASEDYKGIATPAVIRENTSFDIVAGLHTIALRPKNIDPMFLYYLIKA 127

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
               +    +  G  +       + +    IP   E  L+   +     +ID  +    R
Sbjct: 128 PTFRKYGYKVGTGMKVFGISSSKVLDFTTYIPKNDETKLVSSFL----EKIDYALDLHQR 183

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
            ++ LKE K+A +  +  K      +++ +  E    +           ++ +  +   K
Sbjct: 184 KLDQLKELKKAYLQLMFPKKDETVPQVRFANFEENWEL------CKLENIIEKQIKGKAK 237

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
           +      S+ Y +       R  G KP   +    V   +I+  +   +  K        
Sbjct: 238 VENLCNGSVEYLDA-----NRLNGGKPIYTKALPDVSERDIIILWDGSKAGKVYY----- 287

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP 370
             +G++ S   A +     ++   +     +   ++    +     +        P+ + 
Sbjct: 288 GFKGVLGSTLKAYQLKECANSQFIYQQLLDNQNNIYNNYRTPNIPHVVKNFSSIFPIWMT 347

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
             +EQ  + +++    + +D  +   +     +   + S++ 
Sbjct: 348 SFEEQSQMADIL----SNLDNRIILQQNLTDTMISLKKSYLQ 385



 Score = 40.5 bits (93), Expect = 0.51,   Method: Composition-based stats.
 Identities = 26/184 (14%), Positives = 59/184 (32%), Gaps = 15/184 (8%)

Query: 23  KHWKVVPIKRFTKL-NTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI- 80
           ++W++  ++   +    G+            +E++ +G+ +YL  +  +      T ++ 
Sbjct: 217 ENWELCKLENIIEKQIKGKAK----------VENLCNGSVEYLDANRLNGGKPIYTKALP 266

Query: 81  -FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
             ++  I+    G    K     F G+  +     Q K+        +   +D    I  
Sbjct: 267 DVSERDIIILWDGSKAGKVYY-GFKGVLGSTLKAYQLKECANS-QFIYQQLLDNQNNIYN 324

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
                 + H         P+ +    EQ  + + +     RI          I L K   
Sbjct: 325 NYRTPNIPHVVKNFSSIFPIWMTSFEEQSQMADILSNLDNRIILQQNLTDTMISLKKSYL 384

Query: 200 QALV 203
           Q + 
Sbjct: 385 QNMF 388


>gi|258651343|ref|YP_003200499.1| restriction modification system DNA specificity domain-containing
           protein [Nakamurella multipartita DSM 44233]
 gi|258554568|gb|ACV77510.1| restriction modification system DNA specificity domain protein
           [Nakamurella multipartita DSM 44233]
          Length = 400

 Score = 76.4 bits (186), Expect = 9e-12,   Method: Composition-based stats.
 Identities = 52/401 (12%), Positives = 114/401 (28%), Gaps = 36/401 (8%)

Query: 37  NTGRT-SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST---VSIFAKGQILYGKLG 92
           N GR+     +    I    V+  +   + ++       T      S    G I++   G
Sbjct: 19  NRGRSCPTEAEGFPLIATNCVKDDSLYPVFENVRYVSQATYRDWFRSHPEPGDIVFVCKG 78

Query: 93  PYLRKAIIADF-DGICSTQFLVLQPKDVLPELLQGWL--LSIDVTQRIEAICEGATMSHA 149
              R A++ D      +   + L+    +      +    + +V  RIE +  G  + H 
Sbjct: 79  SPGRIAMVPDPVPFCIAQDMVALRANSRIVNPHYLYYALKNQEVRARIENMHVGTMIPHF 138

Query: 150 DWKGIGNIPMPIP-PLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVT 208
                G + + +   L++Q+ I E + A   +I           EL  E         + 
Sbjct: 139 KKGDFGKLHLDVHVRLSDQMAIAEVLGALDDKIAGNSKMASTAGELATE---CFRDVSID 195

Query: 209 KGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKL 268
              +     K + I   G            +              +     +      + 
Sbjct: 196 ATFDETTFEKVAAIGGGGTP----------STKVPGYWDGPIAWATPTDLTALPGPYLER 245

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
             R++ L         +   G I+               A       +   ++ V P   
Sbjct: 246 TARSITLSGLDNCASALFPRGAILMTSRATIG-----AFAIAQRPVAVNQGFIVVVPEDP 300

Query: 329 DSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
              +  +      + +            L     + LPV VP          V+     R
Sbjct: 301 QMKWWLFHTMRDRVDEFISHANGATFLELSRGRFRSLPVRVPA-------GRVLRAFDER 353

Query: 389 IDVLVEKIEQSI---VLLKERRSSFIAAAVTGQIDLRGESQ 426
           ++ +      ++     L E R + +   ++G++ ++   +
Sbjct: 354 VEAIHAVARHALVENTELAELRDTLLPHLMSGRLRVKDAEK 394


>gi|88854448|ref|ZP_01129115.1| type I restriction-modification system specificity determinant
           [marine actinobacterium PHSC20C1]
 gi|88816256|gb|EAR26111.1| type I restriction-modification system specificity determinant
           [marine actinobacterium PHSC20C1]
          Length = 388

 Score = 76.4 bits (186), Expect = 9e-12,   Method: Composition-based stats.
 Identities = 45/396 (11%), Positives = 109/396 (27%), Gaps = 47/396 (11%)

Query: 30  IKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF-AKG 84
           +     +  G+           +  I   ++ +  G    +  +    D +    F   G
Sbjct: 21  LGDVGTVVRGKRFVKDDMQDAGVPCIHYGEIYTKYGVSATESFSFVSEDRAKTLRFAEPG 80

Query: 85  QILYGKLGP----YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
            ++    G       +       + I            + P  +  +  S     +I   
Sbjct: 81  DVILVSAGEAIEDIGKSVAWLGDEPIAIHDACYAFSSAMDPRFVSYFFASRGFRDQIRQK 140

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
              + +S    + + +  +P+PPL  Q  I   +   T     L  E     E       
Sbjct: 141 ISSSKISSISTRAVASARIPVPPLEVQREISRILDDFTELEAELEAELEARREQYVAYSG 200

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
            L++               SG      + +  E +   A+     +     + +N    S
Sbjct: 201 TLLN------------FGHSGQVRRAPMGEVAEFRRGSAITARQTKPGVIPVVANGPKPS 248

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
             + +                         +V            L S       +  +  
Sbjct: 249 LFHNVSNRTGET------------------VVIARSGAY---AGLVSYWDQPIFLTDAFS 287

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
           +      +   ++   +R+          G+G+   ++ ++V++  + VP I EQ  I  
Sbjct: 288 IHPDLEILRPRFVYHWLRTEQASLHSMKKGAGV-PHVRVKEVEQRFIPVPTIAEQVRILE 346

Query: 381 VINVETARIDVLV----EKIEQSIVLLKERRSSFIA 412
           +++   A ++ L      ++       +  R   + 
Sbjct: 347 ILDNFDALVNDLSIGLPAELAARRTQYEYYRDKLLT 382



 Score = 57.1 bits (136), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 23/166 (13%), Positives = 55/166 (33%), Gaps = 5/166 (3%)

Query: 226 GLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKL----ETRNMGLKPESYE 281
           G    H  +     +V         + ++ +  + YG I  K           +  +  +
Sbjct: 13  GREVQHMALGDVGTVVRGKRFVKDDMQDAGVPCIHYGEIYTKYGVSATESFSFVSEDRAK 72

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD 341
           T +  +PG+++        +      A + +  I            +D  ++++   S  
Sbjct: 73  TLRFAEPGDVILVSAGEAIEDIGKSVAWLGDEPIAIHDACYAFSSAMDPRFVSYFFASRG 132

Query: 342 LCKVFYAMGSGLRQSLKFED-VKRLPVLVPPIKEQFDITNVINVET 386
                    S  + S      V    + VPP++ Q +I+ +++  T
Sbjct: 133 FRDQIRQKISSSKISSISTRAVASARIPVPPLEVQREISRILDDFT 178


>gi|261491603|ref|ZP_05988186.1| putative type I restiction/modification specificity protein
           [Mannheimia haemolytica serotype A2 str. BOVINE]
 gi|261312729|gb|EEY13849.1| putative type I restiction/modification specificity protein
           [Mannheimia haemolytica serotype A2 str. BOVINE]
          Length = 197

 Score = 76.4 bits (186), Expect = 9e-12,   Method: Composition-based stats.
 Identities = 30/162 (18%), Positives = 54/162 (33%), Gaps = 10/162 (6%)

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYE-TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
           I     G   +K          E Y+  Y     G I+                   E  
Sbjct: 37  IPFYKIGTFGKKPNAYISRELFEDYKQKYSYPRKGNILISASGTIGRTVIF----DGEDS 92

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKE 374
               + +    +        +L   Y +     A G G  Q L  +++K+L + VPP+ E
Sbjct: 93  YFQDSNIVWIENDESQVLDKFLFYLYQIADWNIAEG-GTIQRLYNDNLKKLKIPVPPLSE 151

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           Q  I N+++   +  + + E + + I L +E     R   + 
Sbjct: 152 QQKIVNILDKFDSLTNSITEGLPKEIKLRREQYGYYREQLLN 193



 Score = 49.4 bits (116), Expect = 0.001,   Method: Composition-based stats.
 Identities = 28/188 (14%), Positives = 56/188 (29%), Gaps = 9/188 (4%)

Query: 27  VVPIKRFTKLNTGRTSESGK-----DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
              +    +    +     +     DI +  +         Y+ ++    +      S  
Sbjct: 11  WKSLGEIGEARMCKRILKEQTSNVGDIPFYKIGTFGKKPNAYISRELF--EDYKQKYSYP 68

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            KG IL    G   R  I    D       +V          +    L          I 
Sbjct: 69  RKGNILISASGTIGRTVIFDGEDSYFQDSNIVWIEN--DESQVLDKFLFYLYQIADWNIA 126

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
           EG T+       +  + +P+PPL+EQ  I   +       +++     + I+L +E+   
Sbjct: 127 EGGTIQRLYNDNLKKLKIPVPPLSEQQKIVNILDKFDSLTNSITEGLPKEIKLRREQYGY 186

Query: 202 LVSYIVTK 209
               ++  
Sbjct: 187 YREQLLNF 194


>gi|149007168|ref|ZP_01830832.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP18-BS74]
 gi|225856551|ref|YP_002738062.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae P1031]
 gi|147761206|gb|EDK68173.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP18-BS74]
 gi|225725686|gb|ACO21538.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae P1031]
          Length = 373

 Score = 76.4 bits (186), Expect = 9e-12,   Method: Composition-based stats.
 Identities = 40/396 (10%), Positives = 116/396 (29%), Gaps = 31/396 (7%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V +     L  G+ +    +   +    ++    +       +   + +         
Sbjct: 2   KKVKLGEVLSLKKGKKATVLAEQTTLSQRYIQIDDLRNNNNLKFTESLNMTEAL---PDD 58

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW--LLSIDVTQRIEAICEG 143
           IL    G             + ST  ++ + +    +++  +  +     +Q +     G
Sbjct: 59  ILIAWDGANAGTVGYGLSGAVGSTITVLKKNERYKEKIISDYLGVFLESKSQYLREHSTG 118

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           AT+ H +   + ++ + +  + EQ  I   +      I     +                
Sbjct: 119 ATIPHLNKNILLDLQLELLGIEEQENIICILNTIKGLITKRKLQLDELNL---------- 168

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
                  L      +  G   +    D+              + +    E   L L+  N
Sbjct: 169 -------LVKSRFNEMFGENKIFESIDNLFDIIDGDRGKNYPKSDELFSEEYCLFLNTKN 221

Query: 264 IIQKLETRN----MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
           + +   + +    +    +       ++  +IV        +          +   I S 
Sbjct: 222 VTKNGFSFDTKQFITKTKDKLLRKGKLERYDIVLTTRGTVGNVAYYDELIKYKHLRINSG 281

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
            + ++P   +     +++           +    +  L    +K++ + +PP+  Q +  
Sbjct: 282 MVILRPKTPNLNQ-KFIIHVLRNNNYSRVISGSAQPQLPITKLKKILLPLPPLALQNEFA 340

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           + +     ++D     I++S+  L+  + S +    
Sbjct: 341 DFVV----QVDKSQLAIQKSLEELETLKKSLMQEYF 372


>gi|321310235|ref|YP_004192564.1| type I restriction-modification system, S subunit [Mycoplasma
           haemofelis str. Langford 1]
 gi|319802079|emb|CBY92725.1| type I restriction-modification system, S subunit [Mycoplasma
           haemofelis str. Langford 1]
          Length = 216

 Score = 76.4 bits (186), Expect = 9e-12,   Method: Composition-based stats.
 Identities = 22/177 (12%), Positives = 57/177 (32%), Gaps = 8/177 (4%)

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQK--LETRNMGLKPESYETYQIVDPGEIVFRF 295
             +      KN+   +S    +   NI     +        P+++   +++  G+IV   
Sbjct: 22  CEMHLGTAFKNSFYRDSGFPIVKTSNIQGGLVITDNLKYCNPDNHLDSEVIKYGDIVMAK 81

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LR 354
                    +      +     S  +   P               +       M  G   
Sbjct: 82  DGSCGK---VGINLTSQEFFFDSHVVKFVPDEEILIGGYLYHCLLNFQSEIEGMAKGSTI 138

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
           + ++  +++RL + VP ++ Q  I   ++        L ++++Q +   +E +   +
Sbjct: 139 RGIRKSELERLKIPVPSLETQTRIAETLDKFQELKQELKQELKQELK--QELKQELL 193


>gi|268603246|ref|ZP_06137413.1| type I restriction enzyme EcoR124II specificity protein [Neisseria
           gonorrhoeae PID1]
 gi|268587377|gb|EEZ52053.1| type I restriction enzyme EcoR124II specificity protein [Neisseria
           gonorrhoeae PID1]
          Length = 398

 Score = 76.4 bits (186), Expect = 9e-12,   Method: Composition-based stats.
 Identities = 49/395 (12%), Positives = 103/395 (26%), Gaps = 29/395 (7%)

Query: 26  KVVPIKRF------TKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           +  P+         TK+  G+  E  KD   + +      T   +  D      D     
Sbjct: 11  EWKPLGEVLVRTKGTKITAGQMKEMHKDNAPLKIFAG-GKTFALVDFD------DVPDKD 63

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           I  +  I+    G    +    D       +       +    +   +            
Sbjct: 64  IHREPSIIVKSRGII--EFEYYDKPFSHKNEMWSYHSVNKHIYIKYVYYFLKTQENYFRN 121

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
           I     M         N  +PIP L  Q  I + +   T    TL       + L K + 
Sbjct: 122 IGSKMQMPQIATPDTDNYKIPIPSLETQQKIVKILDKFTELEATLEATLEAELALRKRQY 181

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
           +     +    L+ D ++     +       +   K    +      +      +    +
Sbjct: 182 RYYRDLL----LDFDNQIGGGIADGYQCRLKNVVWKTLGEVAEYSKNRICSDKLNEHNYV 237

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
              N++Q  E + +     S          +I+   I     K           G +   
Sbjct: 238 GVDNLLQNREGKKLSGYVPSEGKMTEYIVNDILIGNIRPYLKKIWQADCTGGTNGDV--L 295

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDI 378
            + V    ++  YL  ++              G          + +  + +PP+ EQ  I
Sbjct: 296 VIRVTDEKVNPKYLYQVLADDKFFAFNMKHAKGAKMPRGSKAAIMQYKIPIPPLPEQEKI 355

Query: 379 TNVINVETARIDVL-------VEKIEQSIVLLKER 406
             ++         +       +    +     +E+
Sbjct: 356 VAILGKFDTLTHSVSEGLPHEIALRRKQYEYYREQ 390



 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/126 (13%), Positives = 44/126 (34%), Gaps = 6/126 (4%)

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP--HGIDSTYLAWLMRSYDLC 343
           V   +I      +   +  +      +     +   +       I   Y+ + +++ +  
Sbjct: 59  VPDKDIHREPSIIVKSRGIIEFEYYDKPFSHKNEMWSYHSVNKHIYIKYVYYFLKTQE-- 116

Query: 344 KVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
             F  +GS ++   +   D     + +P ++ Q  I  +++  T     L   +E  + L
Sbjct: 117 NYFRNIGSKMQMPQIATPDTDNYKIPIPSLETQQKIVKILDKFTELEATLEATLEAELAL 176

Query: 403 LK-ERR 407
            K + R
Sbjct: 177 RKRQYR 182


>gi|227431499|ref|ZP_03913543.1| possible type I site-specific deoxyribonuclease specificity subunit
           [Leuconostoc mesenteroides subsp. cremoris ATCC 19254]
 gi|227352745|gb|EEJ42927.1| possible type I site-specific deoxyribonuclease specificity subunit
           [Leuconostoc mesenteroides subsp. cremoris ATCC 19254]
          Length = 209

 Score = 76.4 bits (186), Expect = 9e-12,   Method: Composition-based stats.
 Identities = 21/167 (12%), Positives = 60/167 (35%), Gaps = 6/167 (3%)

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
           N +  + +I   +    I +    +   K  +    +      +    +   +      +
Sbjct: 45  NPEYWDGDIDWYAPA-EIGEQSYVSKSKKTITELGLKKSSARILPVGTVLFTSRAGIGNT 103

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLP 366
           A + +       + ++ P            R+ +L +     G+G     +  + + ++ 
Sbjct: 104 AILAKEATTNQGFQSIVPDQNKLDSYFIFSRTNELKRYGEVTGAGSTFVEVSGKQMSKMS 163

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           ++VP + EQ  I +       ++D  +   ++ + LLKE++  F+  
Sbjct: 164 IMVPELSEQQKIGSF----FKQLDDTIALHQRKLDLLKEQKKGFLQK 206



 Score = 66.0 bits (159), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 36/203 (17%), Positives = 72/203 (35%), Gaps = 20/203 (9%)

Query: 20  AIPK--------HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDV----ESGTGKYLPKD 67
            +P+         W+   +   + +  G T  +     + G  D     E G   Y+ K 
Sbjct: 11  KVPELRFKGFTDDWEERKLGELSNIVGGGTPSTSNPEYWDGDIDWYAPAEIGEQSYVSKS 70

Query: 68  GNSRQS---DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELL 124
             +        S+  I   G +L+         AI+A      +  F  + P     +  
Sbjct: 71  KKTITELGLKKSSARILPVGTVLFTSRAGIGNTAILAKE-ATTNQGFQSIVPDQNKLDSY 129

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
             +  + ++ +  E    G+T      K +  + + +P L+EQ  I         ++D  
Sbjct: 130 FIFSRTNELKRYGEVTGAGSTFVEVSGKQMSKMSIMVPELSEQQKIGSF----FKQLDDT 185

Query: 185 ITERIRFIELLKEKKQALVSYIV 207
           I    R ++LLKE+K+  +  + 
Sbjct: 186 IALHQRKLDLLKEQKKGFLQKMF 208


>gi|254518117|ref|ZP_05130173.1| type I restriction-modification system specificity subunit
           [Clostridium sp. 7_2_43FAA]
 gi|226911866|gb|EEH97067.1| type I restriction-modification system specificity subunit
           [Clostridium sp. 7_2_43FAA]
          Length = 377

 Score = 76.4 bits (186), Expect = 9e-12,   Method: Composition-based stats.
 Identities = 52/401 (12%), Positives = 115/401 (28%), Gaps = 34/401 (8%)

Query: 28  VPIKRFTKLNTGRTSES---GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
             +   T+L     S        I+ I  + +             S++   +      +G
Sbjct: 4   KKVSEVTELIKRGVSPKYVEDDGILVINQKCIRDNRVDLSLARLTSKEKKITEEKFLNEG 63

Query: 85  QILYGKLGP----YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
            IL    G        +    +      T   +++P   +     G+ + ++ +      
Sbjct: 64  DILINSTGTGTLGRTAQINNINESITVDTHITIMRPSKDVNAKFLGYFIRLNESLITSMG 123

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
                        + NI + +P    Q  I + + A    I+  +       +  +   +
Sbjct: 124 KGATNQIELSATDLANIEIYLPGKNIQDKIVKILSAYDNLIENNLKRIKLLEKSAELLYK 183

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
                    G            E++  VP+ W+ K    L+ +  RK+    E + L   
Sbjct: 184 EWFINFRFPG--------YEEYEFLNGVPNGWKKKKVGELILKFKRKSKVKKE-DYLEAG 234

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
              II + ++   G         + V         I   + +           G   +  
Sbjct: 235 EIPIIDQSKSFIGGYTDNEDAKEESVP------AIIFGDHTRIVKYIDFPFASGADGTQL 288

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
           +      +   Y  W +++ DL    Y           F+ +K   + +P        + 
Sbjct: 289 IYSNSTEVSQQYFYWAIKNIDLSNYSYTR--------HFKYLKDEEIYIPSKTVMEKFSE 340

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           ++     +I  L          L E R   +   + G+I++
Sbjct: 341 IVGYNFKQITNL----RNQNNKLIEARDILLPKLIIGEIEV 377


>gi|57242479|ref|ZP_00370417.1| putative type I specificity subunit HsdS [Campylobacter upsaliensis
           RM3195]
 gi|57016764|gb|EAL53547.1| putative type I specificity subunit HsdS [Campylobacter upsaliensis
           RM3195]
          Length = 467

 Score = 76.4 bits (186), Expect = 9e-12,   Method: Composition-based stats.
 Identities = 49/441 (11%), Positives = 116/441 (26%), Gaps = 65/441 (14%)

Query: 29  PIKRFTKLNTGRTSESGKDI-------IYIGLEDVESGTGKYLPKDGNSRQSDTST---V 78
           P+K F K+ +G+    G+          Y+ ++D++S   +       S   D  T    
Sbjct: 33  PLKNFVKIKSGKRIPKGRSYANTTTAYKYLRVDDLDSEILEIDIDKLKSIDKDIFTLLER 92

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
                 ++     G   +  I  +     + + ++ +    L          + +  +  
Sbjct: 93  YEIYNDEVALSIAGTIGKVFIFHN---ATNNRVILTENCVKLQAQDNLLPKFLSLILKTN 149

Query: 139 AICEGATMSHADWKGIGN--------IPMPIPPLAEQVLIREKIIAETVRIDT------- 183
            +       +                    IPPL+ Q  I + +                
Sbjct: 150 FLQSQMKRQYIQTTIPKLAIERIKELQIPSIPPLSTQQHIIDLMDKAYKAKQEKENKAKE 209

Query: 184 --------------LITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVP 229
                         +I        L      A +S +     + +   K        L  
Sbjct: 210 LLDSIDSYLLEELGIILPLRANNTLETRIYTAKISALSGSRFDANYHQKYYRDLEKSLFS 269

Query: 230 DHWEVKPFFALVTELNRK-----NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ 284
             + +    +L+    +      +       I  +   +I       +   K  S   ++
Sbjct: 270 SPYPLVNLASLINNFKKGIEVGSSEYSQNKEIPFIRVSDITNNGIDFSNVQKFISASLFE 329

Query: 285 IVDPGEIVFRF--IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
            +   +                   A      II+   + ++            +    +
Sbjct: 330 NLKAYKPKENELLYSKDGTVGICLEADTSCDYIISGGILRLELKAEVDKDFLCFLLGSYI 389

Query: 343 CKVFYAMGS--GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
             VF    S   + + L   +   L + +PP+  Q  I + +  + ++   L  + E   
Sbjct: 390 MNVFANRVSIGAVIKHLNIGEFLNLKIPLPPLALQTQIASRL--KNSKFQALSLEKEA-- 445

Query: 401 VLLKERRSSFIAAAVTGQIDL 421
                     +  A   +ID+
Sbjct: 446 -------KEILHKA---KIDV 456


>gi|297516523|ref|ZP_06934909.1| specificity determinant for hsdM and hsdR [Escherichia coli OP50]
          Length = 151

 Score = 76.4 bits (186), Expect = 9e-12,   Method: Composition-based stats.
 Identities = 19/99 (19%), Positives = 44/99 (44%), Gaps = 1/99 (1%)

Query: 321 MAVKPHGIDSTYLAWLMRSYDLC-KVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
           ++ +   I   +L   + S  +   +  +     R++L  +D+K   V +P I+EQ +I 
Sbjct: 10  ISPEYKIIVPMFLHIWLSSPVMQTWLVQSSKEVARKTLNLKDLKNAFVPLPSIEEQHEIV 69

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
             +    A  D + +++  ++  +     S +A A  G+
Sbjct: 70  RRVEQLFAYADSIEKQVNNALARVNNLTQSILAKAFRGE 108


>gi|313898078|ref|ZP_07831617.1| conserved domain protein [Clostridium sp. HGF2]
 gi|312957106|gb|EFR38735.1| conserved domain protein [Clostridium sp. HGF2]
          Length = 376

 Score = 76.4 bits (186), Expect = 9e-12,   Method: Composition-based stats.
 Identities = 61/387 (15%), Positives = 118/387 (30%), Gaps = 45/387 (11%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTG-KYLPKDGNSRQSDTSTVSIFAKGQI 86
             I    +L    +      I  + ++DV      K   +      +DTS   +      
Sbjct: 6   CRIGDCVELYNEVS-----GIPNLTVDDVSGVNREKEFFEPSKQVGNDTSKYKVVPPNYF 60

Query: 87  LYGKLGPYLRKA-----IIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
               +     K           +   S  + V   K+  P L   + + +   +R     
Sbjct: 61  ACNLMHVGRDKVLPIAMNHTKLNKYVSPAYTVFCIKENTPLLKDYFFMMLKSEERDRYFW 120

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
                S  D             L E  L ++     T       +      +L       
Sbjct: 121 FHTDSSVRDGMTWDAFCDLEFSLPELELQQKYSDIYTAMCLNQQSYEAGLEDL------- 173

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
               +V  G             ++  +            ++  NRKN  L    + S+  
Sbjct: 174 ---QVVCHG-------------YIDELRKTLVHHKLGNYISLCNRKNANLK-FGVESVRG 216

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVF-RFIDLQNDKRSLRSAQVMERGIITSAY 320
            +I +K       +   S + Y I++P E  +        +K SL      E  I +S+Y
Sbjct: 217 ISIEKKFIQTKADMSGVSLKPYTIIEPDEFAYVTVTSRNGEKISLAHNNSDETFICSSSY 276

Query: 321 MAVKPHGID---STYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQF 376
           +  + +  +    +YLA L    +  +          R++  + ++  + + +P +  Q 
Sbjct: 277 VVFRVNDKNVLLPSYLAMLFGRGEFDRYARFHSWGSTRETFDWNEMCDVEIPIPDVSIQR 336

Query: 377 DITNVINVETARIDVLV--EKIEQSIV 401
           DI N+     A ID     EK++  I 
Sbjct: 337 DIVNIYE---AYIDRREINEKLKAQIQ 360


>gi|295426378|ref|ZP_06819031.1| possible type I restriction enzyme S protein [Lactobacillus
           amylolyticus DSM 11664]
 gi|295063937|gb|EFG54892.1| possible type I restriction enzyme S protein [Lactobacillus
           amylolyticus DSM 11664]
          Length = 393

 Score = 76.4 bits (186), Expect = 9e-12,   Method: Composition-based stats.
 Identities = 48/401 (11%), Positives = 112/401 (27%), Gaps = 23/401 (5%)

Query: 28  VPIKRFTKLNTGRTSES------GKDIIYIGLED--VESGTGKYLPKDGNSRQSDTSTVS 79
           V I+   K+ TG+T  +      G+   +I   D  ++ G  KY  +    +  ++   +
Sbjct: 3   VKIENIGKVVTGKTPSTSNSANFGEGYSFITPADLHIDDGVVKYTKRTITQKGFNSIKNN 62

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQF-LVLQPKDVLPELLQGWLLSIDVTQRIE 138
             +   IL G +G  +    + +     + Q   +      L      +         + 
Sbjct: 63  TISGLSILVGCIGWDMGNVALVNGKCATNQQINSITDINYELYNPYYIYYWLKLHKNFLF 122

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
            +               NI + IP +  Q      +      ID+ I       + L+  
Sbjct: 123 KLANVTRTPILKKSDFENIEIEIPNIKVQNTTAGLL----RTIDSKIANNNAISKELESM 178

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
            + + +Y   +   PD   K     +          +     + E    NT         
Sbjct: 179 AKTIYNYWFLQFEFPDKDGKP----YKSNGGKMVWNEQLKQEIPEGWEVNTLKEILKENI 234

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
            S   + +  E   +           +  P                ++          ++
Sbjct: 235 KSKVKVKEAAEIGKVPFFTSGEAILFVDKPIVSGLNCYLNTGGNAGIK--WFYGDASYST 292

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
              ++         L ++++  +             + L+   ++   + +P        
Sbjct: 293 DTWSLTCDSDMKYLLPFILKGIEPSMDKKFFQGTGLKHLQKNLLRNYIITIPDKNTIDRF 352

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
             ++N    +   L  +  Q    LK  R   +   + GQ+
Sbjct: 353 KKIVNNSFKQQSKLFNENLQ----LKSMRDFLLPMLMNGQV 389


>gi|30250415|ref|NP_842485.1| restriction modification system, type I [Nitrosomonas europaea ATCC
           19718]
 gi|30181210|emb|CAD86408.1| Restriction modification system, type I [Nitrosomonas europaea ATCC
           19718]
          Length = 547

 Score = 76.4 bits (186), Expect = 9e-12,   Method: Composition-based stats.
 Identities = 46/409 (11%), Positives = 114/409 (27%), Gaps = 37/409 (9%)

Query: 28  VPIKRFTKLNTGRTSESGKDI-----IYIGLEDVESGTGKYLPKDGNSRQSDT---STVS 79
            P+++   ++ G+ +    +       ++    ++                +T     + 
Sbjct: 7   TPLRQLAIVSAGQAAPKSDEFSDYGTPFVRAGSLDRLLSGEPESGLELVSEETARRRKLK 66

Query: 80  IFAKGQILYGKLG--PYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
            + +G +L+ K G      +  +        +    L PK         +L         
Sbjct: 67  TYPRGTVLFAKSGMSATKDRVYVLQNPAHVVSHLATLIPKSG---THIDYLRLALKHFPP 123

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPL-AEQVLIREKIIAETVRIDTLITERIRFIELLK 196
            ++ +           I +  +P P     Q+ I   +      I        +  +L  
Sbjct: 124 SSLIKDPAYPAIGLGDIEDFKIPTPDSSDAQIRIAHLLGKVEGLIAQRKQHLQQLDDL-- 181

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
                L S  +    +P         E     P            T    ++       I
Sbjct: 182 -----LKSVFLEMFGDPVRN------EKGWDKPALTAFGKISTGNTPPRSESVNYDGDFI 230

Query: 257 LSLSYGNIIQK---LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
             +   NI      +      L        + V  G ++   I    +     +      
Sbjct: 231 EWIKTDNITGDAVCVTPSTEHLSEIGARKARTVTSGALLVACIAGSVESIGRAALTDRTV 290

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPPI 372
                         ++  YL  L +         +  + G+++ L   D +++ ++ P  
Sbjct: 291 SFNQQINAIQPGKDVNPLYLYGLFKLS--RSYIQSHATKGMKKILTKGDFEKITMIKPSF 348

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           + Q     +      +++ +  + +QS+  L+    +    A  G++DL
Sbjct: 349 EMQNRFAVI----FEKVESIKSRYKQSLADLETLYGALSQQAFKGELDL 393



 Score = 43.6 bits (101), Expect = 0.063,   Method: Composition-based stats.
 Identities = 27/200 (13%), Positives = 59/200 (29%), Gaps = 15/200 (7%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDII-------YIGLEDVESGTGKYLPKDGNSRQSDT 75
           K W    +  F K++TG T    + +        +I  +++        P   +  +   
Sbjct: 198 KGWDKPALTAFGKISTGNTPPRSESVNYDGDFIEWIKTDNITGDAVCVTPSTEHLSEIGA 257

Query: 76  STVSIFAKGQILYGKLG---PYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
                   G +L   +      + +A + D     + Q   +QP   +   L  + L   
Sbjct: 258 RKARTVTSGALLVACIAGSVESIGRAALTDRTVSFNQQINAIQPGKDVN-PLYLYGLFKL 316

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
               I++                 I M  P    Q            +++++ +   + +
Sbjct: 317 SRSYIQSHATKGMKKILTKGDFEKITMIKPSFEMQNRFA----VIFEKVESIKSRYKQSL 372

Query: 193 ELLKEKKQALVSYIVTKGLN 212
             L+    AL        L+
Sbjct: 373 ADLETLYGALSQQAFKGELD 392


>gi|301156218|emb|CBW15689.1| unnamed protein product [Haemophilus parainfluenzae T3T1]
          Length = 450

 Score = 76.4 bits (186), Expect = 9e-12,   Method: Composition-based stats.
 Identities = 49/458 (10%), Positives = 121/458 (26%), Gaps = 74/458 (16%)

Query: 23  KHWKVVPIKRFTKLNTGRTS-------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
             WK         ++ G +          G+ + ++ + D      +++       +   
Sbjct: 2   SDWKEYKFSELCDISRGASPRPIHEYITDGEGMPWVKIADATKSNSRFIEDTAERIKLSG 61

Query: 76  STVSI-FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
              S+   +G ++            +A    I     L+   K         + L ++  
Sbjct: 62  VKKSVEVFEGDLILSNSATPGLPKFMAINACIHDGWMLLRNFK--NITKEFAYWLLLNER 119

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             +     G    +     + N  + IP + EQ  I   +     +I           ++
Sbjct: 120 NNLVKQGTGTVFINLKTDILRNHIVKIPSIEEQNKIVSILNGIEDKIQLNTQINQTLEQI 179

Query: 195 LKEKKQALV---------SYIVTKGL---------------------------------- 211
            +   ++              ++ GL                                  
Sbjct: 180 AQALFKSWFVDFDPVRAKVQALSDGLSLEQAELAAMQAISGKTPEELTALSQTQPDRYAE 239

Query: 212 -------NPDVKMKDSGIEWV-----GLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
                   P   ++  G+E +       +     +K   +     +  + K +    +S 
Sbjct: 240 LVEIAKAFPCEMVEVDGVEVLKGWEVKELGSLMTIKRGGSPRPIKDFISDKGLNWVKISD 299

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
           +       L +    +K E      +++ G ++            L     ++  I    
Sbjct: 300 ATAEDNPFLFSTKEYIKSEGLSKTVLLNKGSLILSNSATP----GLPRFLELDACIHDGW 355

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
                   +   YL +   +     +       +  +LK + VK    +VP       + 
Sbjct: 356 LYFSDIKSLTQEYLYFFFLNIR-NDLVAQGNGSVFTNLKTDIVKAQKAIVPD----ERVI 410

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
              + +   I  L+     + + LKE R   +   + G
Sbjct: 411 YYFDKQVKSIMNLIRYNTANSISLKETRDLLLPKLLNG 448



 Score = 49.8 bits (117), Expect = 9e-04,   Method: Composition-based stats.
 Identities = 25/204 (12%), Positives = 57/204 (27%), Gaps = 17/204 (8%)

Query: 14  GVQWIGAIPKHWKVVPIKRFTKLNTGRTSE------SGKDIIYIGLEDVE-SGTGKYLPK 66
           GV+ +    K W+V  +     +  G +        S K + ++ + D            
Sbjct: 256 GVEVL----KGWEVKELGSLMTIKRGGSPRPIKDFISDKGLNWVKISDATAEDNPFLFST 311

Query: 67  DGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQG 126
               +    S   +  KG ++            +     I          K +       
Sbjct: 312 KEYIKSEGLSKTVLLNKGSLILSNSATPGLPRFLELDACIHDGWLYFSDIKSL--TQEYL 369

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           +   +++   + A   G+  ++     +      +P       +      +   I  LI 
Sbjct: 370 YFFFLNIRNDLVAQGNGSVFTNLKTDIVKAQKAIVPDE----RVIYYFDKQVKSIMNLIR 425

Query: 187 ERIRFIELLKEKKQALVSYIVTKG 210
                   LKE +  L+  ++  G
Sbjct: 426 YNTANSISLKETRDLLLPKLLNGG 449


>gi|15900770|ref|NP_345374.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae TIGR4]
 gi|149010479|ref|ZP_01831850.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP19-BS75]
 gi|14972361|gb|AAK75014.1| putative type I restriction-modification system, S subunit
           [Streptococcus pneumoniae TIGR4]
 gi|147764960|gb|EDK71889.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP19-BS75]
          Length = 373

 Score = 76.4 bits (186), Expect = 9e-12,   Method: Composition-based stats.
 Identities = 40/396 (10%), Positives = 116/396 (29%), Gaps = 31/396 (7%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V +     L  G+ +    +   +    ++    +       +   + +         
Sbjct: 2   KKVKLGEVLSLKKGKKATVLAEQTTLSQRYIQIDDLRNNNNLKFTESLNMTEAL---PDD 58

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW--LLSIDVTQRIEAICEG 143
           IL    G             + ST  ++ + +    +++  +  +     +Q +     G
Sbjct: 59  ILIAWDGANAGTVGYGLSGAVGSTITVLKKNERYKEKIISDYLGVFLESKSQYLRDHSTG 118

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           AT+ H +   + ++ + +  + EQ  I   +      I     +                
Sbjct: 119 ATIPHLNKNILLDLQLELLGIEEQENIICILNTIKRLITKRKFQLDELNL---------- 168

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
                  L      +  G   +    D+              + +    E   L L+  N
Sbjct: 169 -------LVKSRFNEMFGENKIFESIDNLFDIIDGDRGKNYPKSDELFSEEYCLFLNTKN 221

Query: 264 IIQKLETRN----MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
           + +   + +    +    +       ++  +IV        +          +   I S 
Sbjct: 222 VTKNGFSFDTKQFITKTKDKLLRKGKLERYDIVLTTRGTVGNVAYYDELIKYKHLRINSG 281

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
            + ++P   +     +++           +    +  L    +K++ + +PP+  Q +  
Sbjct: 282 MVILRPKTPNLNQ-KFIIHVLRNNNYSRVISGSAQPQLPITKLKKILLPLPPLALQNEFA 340

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           + +     ++D     I++S+  L+  + S +    
Sbjct: 341 DFVV----QVDKSQLAIQKSLEELETLKKSLMQEYF 372


>gi|15829150|ref|NP_326510.1| restriction-modification enzyme subunit S1B [Mycoplasma pulmonis
           UAB CTIP]
 gi|14090094|emb|CAC13852.1| RESTRICTION-MODIFICATION ENZYME SUBUNIT S1B [Mycoplasma pulmonis]
          Length = 369

 Score = 76.4 bits (186), Expect = 9e-12,   Method: Composition-based stats.
 Identities = 44/365 (12%), Positives = 108/365 (29%), Gaps = 19/365 (5%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDII-YIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           ++  + +   L  G++  + K +   IG+ ++ S   K     G     D +        
Sbjct: 2   EIYKLGQILNLEKGKSKYNAKYVSQNIGIYNLYSSKTKDQGIFGKINSYDFNGEY----- 56

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            IL    G Y       +     ++   +L+  + + +      L +   +    +  G+
Sbjct: 57  -ILITTHGAYAGTVKYVNEKFSTTSNCFILKVNENIVKTKFLSYLLLLQEKTFNDMAIGS 115

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
              +     I +  + +P L  Q  I + I  +               E   +K  +++ 
Sbjct: 116 AYGYLKNYNINDFEVNLPNLKIQSAIIKIIEPKEDLFFRHKNLVRIDSEENTKKDLSILI 175

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
            I+   L   +   D  I        H+    F                  I  +  G I
Sbjct: 176 KIIEP-LEKQINAFDELILSEQKSLQHYLNYFFGKFYQIEPSLFHDYKLEKIAKIRRGKI 234

Query: 265 IQKLETRNM---------GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
           I   + +             K      Y      +  +  I               +  I
Sbjct: 235 INSFDLKENPGDYPVISSNTKNNGIFGYLNSYMYDGEYITISADGAYAGTVFLNNGKFSI 294

Query: 316 ITSAYMAVKPHGID--STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
               ++ +    ++  + +L + ++  +      ++    R S++   +  + + +P ++
Sbjct: 295 TNVCFILLLNDKVNLLTKFLFYYLKKNENIIQKKSIVGSSRPSVREYTLSEIAIKIPSLE 354

Query: 374 EQFDI 378
            Q  I
Sbjct: 355 IQSAI 359


>gi|237753062|ref|ZP_04583542.1| type I restriction/modification specificity protein [Helicobacter
           winghamensis ATCC BAA-430]
 gi|229375329|gb|EEO25420.1| type I restriction/modification specificity protein [Helicobacter
           winghamensis ATCC BAA-430]
          Length = 185

 Score = 76.4 bits (186), Expect = 9e-12,   Method: Composition-based stats.
 Identities = 25/162 (15%), Positives = 59/162 (36%), Gaps = 5/162 (3%)

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPES-YETYQIVDPGEIVFRFIDLQNDKRSLRS 307
                 N + ++  +    +  +   LK +      Q V  G+++   +       ++  
Sbjct: 18  DNYEFMNYIDIASVSKEIGVIEKMKFLKSDFPSRARQRVFKGDLLISSLSGSQKAIAIVE 77

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLP 366
           +        T  ++          +L  L+R++   ++     SG    S+  ++   L 
Sbjct: 78  SDEKNLIASTGFFIISNVANCLKEFLMDLLRTHFFQELLMRESSGAIMASINQKEFLNLK 137

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
           + +PP+ EQ  I   I+   AR   L ++ +    LL+  + 
Sbjct: 138 IPLPPLIEQERIAKEISQRKARAKALKQEAK---ELLESAKK 176



 Score = 47.1 bits (110), Expect = 0.006,   Method: Composition-based stats.
 Identities = 38/181 (20%), Positives = 70/181 (38%), Gaps = 5/181 (2%)

Query: 28  VPIKRFTKLNTGR-TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQI 86
           V +    ++NT     ++ + + YI +  V    G             +       KG +
Sbjct: 2   VRLGEVARVNTKLENIDNYEFMNYIDIASVSKEIGVIEKMKFLKSDFPSRARQRVFKGDL 61

Query: 87  LYGKLGPYLRKAII---ADFDGICSTQ-FLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           L   L    +   I    + + I ST  F++    + L E L   L +    + +     
Sbjct: 62  LISSLSGSQKAIAIVESDEKNLIASTGFFIISNVANCLKEFLMDLLRTHFFQELLMRESS 121

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           GA M+  + K   N+ +P+PPL EQ  I ++I     R   L  E    +E  K++ + +
Sbjct: 122 GAIMASINQKEFLNLKIPLPPLIEQERIAKEISQRKARAKALKQEAKELLESAKKEVEHI 181

Query: 203 V 203
           +
Sbjct: 182 I 182


>gi|225351807|ref|ZP_03742830.1| hypothetical protein BIFPSEUDO_03408 [Bifidobacterium
           pseudocatenulatum DSM 20438]
 gi|225157054|gb|EEG70393.1| hypothetical protein BIFPSEUDO_03408 [Bifidobacterium
           pseudocatenulatum DSM 20438]
          Length = 199

 Score = 76.4 bits (186), Expect = 9e-12,   Method: Composition-based stats.
 Identities = 24/170 (14%), Positives = 52/170 (30%), Gaps = 13/170 (7%)

Query: 245 NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
             +N  L       L  GN           L+ E          G++++ +         
Sbjct: 39  YSQNELLSSGKYPVLRVGNFYTNDSWYYSNLELEDKN---YAYEGDLLYTWSATFGPHI- 94

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKR 364
                   + I       V+         A+ +   D  ++           +    ++ 
Sbjct: 95  ----WHGNKVIYHYHIWKVQLEAALEKLFAFQLLERDKERILSDKNGSTMVHITKTGIEN 150

Query: 365 LPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
             VL+P  ++EQ  I    +    R+D L+   ++ + LL+  + S +  
Sbjct: 151 TSVLMPCSVEEQRRIGAFFD----RLDSLITLHQRKLELLRNIKKSMLDK 196



 Score = 54.8 bits (130), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 26/183 (14%), Positives = 50/183 (27%), Gaps = 6/183 (3%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+   +        GR     + +       +  G   Y          +    +   +G
Sbjct: 22  WEQRKLGEVAHFINGRAYSQNELLSSGKYPVLRVGNF-YTNDSWYYSNLELEDKNYAYEG 80

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            +LY          I      I       +Q +  L +L    LL  D  + +       
Sbjct: 81  DLLYTWS-ATFGPHIWHGNKVIYHYHIWKVQLEAALEKLFAFQLLERDKERILSDKNGST 139

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
            +            +    + EQ  I              IT   R +ELL+  K++++ 
Sbjct: 140 MVHITKTGIENTSVLMPCSVEEQRRIGAFFDRLDSL----ITLHQRKLELLRNIKKSMLD 195

Query: 205 YIV 207
            + 
Sbjct: 196 KMF 198


>gi|240169984|ref|ZP_04748643.1| polypeptide HsdS [Mycobacterium kansasii ATCC 12478]
          Length = 409

 Score = 76.0 bits (185), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 63/405 (15%), Positives = 126/405 (31%), Gaps = 23/405 (5%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKD-----IIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           +W+V  +    +   G+  + GK      + Y+   +V+ G              D    
Sbjct: 2   NWQVRQLGEIAETALGKMLDKGKQKGLPQVPYLRNVNVQWGRVDTDDLLTMELADDERER 61

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICST--QFLVLQPKDVLPELLQGWLLSIDVTQR 136
              + G +L  + G   R AI        +       ++P   L      +LL       
Sbjct: 62  FGVSAGDLLVCEGGEIGRSAIWHGQADYIAYQKALHRIRPGKSLDVRFLRYLLEHYSLNG 121

Query: 137 IEA-ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
             A +  G+T++H   + +  +P+P+PPL EQ  I + I     R++            L
Sbjct: 122 TLAGLATGSTIAHLPQQQLRRVPVPVPPLNEQCRIVDLIEDHLSRLEAGQRWLSVGERKL 181

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
           +    A +S            +  +    +G V +    K       ++      L   N
Sbjct: 182 EAFWLAALSA-------SRRALVGAQFRTIGDVAETTLGKML-DAKRQVGSPTPYLRNIN 233

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
           +    +      L    +    +S      V PG+++                       
Sbjct: 234 VRWGEF-----DLSDVQLTPLTDSEVQRFDVRPGDVMACEGGEPGRCAVWCRPVGEVAFQ 288

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLC--KVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
                + V+  G   T    LM    +   +          + L  E ++ + + VP + 
Sbjct: 289 KALHRIRVRNPGEVLTSFLALMLEEAIRSGRCNRMFTGTTIKHLPQEKLRVIEIPVPALH 348

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            Q    + +       + L   +  +   +   RSS + AA +G+
Sbjct: 349 TQRQAVDCLAELVGAQERLRAALANAAARIAAMRSSLLTAAFSGR 393


>gi|25026814|ref|NP_736868.1| putative restriction enzyme subunit S [Corynebacterium efficiens
           YS-314]
 gi|23492093|dbj|BAC17068.1| putative restriction enzyme subunit S [Corynebacterium efficiens
           YS-314]
          Length = 409

 Score = 76.0 bits (185), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 58/424 (13%), Positives = 130/424 (30%), Gaps = 45/424 (10%)

Query: 21  IPKHWKVVPIKR-FTKLNTGRTSE-------SGKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           +P  W  V ++   TK  TG +         S  +   +    V     +          
Sbjct: 8   VPDGWTQVHVRDLITKKFTGPSPTCDERPIASDDEWGLLKTTAVTWDGWREEAHKVPPAS 67

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIA-----DFDGICSTQFLVLQPKD--VLPELLQ 125
              +       G +L  K GP  R  ++          + S + + L+P+   VLP++L 
Sbjct: 68  YWGNESIEVRAGDVLITKAGPRHRVGVVVHVRSTRPHLMVSGKMVGLRPRTSVVLPQILA 127

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPI--PPLAEQVLIREKIIAETVRIDT 183
           G L +  V + + A   G   S  ++     +   +  P + EQ+ I   + A   +I  
Sbjct: 128 GLLSTKVVQEYLNARTTGMAESQTNFADEALLSAELVLPTMPEQLRIARILDAIDEQIAA 187

Query: 184 LITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTE 243
                 +     +     LV  +      P   +  + I                     
Sbjct: 188 SRRILSKLRLEAEGVLDRLVQELSPADFVPLADLCTADI-----------------CYGI 230

Query: 244 LNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKR 303
           +           +L++   +   +          ++      V PG+++           
Sbjct: 231 VQSGVFVPGGVPVLAIRDLDGDFETGVHLTSRSIDAQYRRSRVAPGDVLLSIKGTIGKVG 290

Query: 304 SLRSAQVMERGIITSAYMAVKPHGIDSTYL--AWLMRSYDLCKVFYAMGSGLRQSLKFED 361
            +        G I+     ++            +L+      ++  A+    R  +    
Sbjct: 291 IVP---DTYNGNISREIARIRFSARTDPAFARYYLLSREAQRRLDLAVVGTTRAEVSIHV 347

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ-SIVLLKERRSSFIAAAVTGQID 420
           +K+     P I+ Q ++  V+     R     ++ E+ ++  L+  R       ++G++ 
Sbjct: 348 LKKFAFPSPAIQYQRNVARVMTALQER-----QESERIALTKLQAMRRGLFEDLLSGRVR 402

Query: 421 LRGE 424
           +  E
Sbjct: 403 VPAE 406


>gi|332674318|gb|AEE71135.1| type I R-M system specificity subunit [Helicobacter pylori 83]
          Length = 179

 Score = 76.0 bits (185), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 26/164 (15%), Positives = 60/164 (36%), Gaps = 11/164 (6%)

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
           S+       +++  ++       +T  I D   I           R L      +  I++
Sbjct: 27  SVEQITQQGEIKVYDVNNFIGYTDTTFISDKPYISIVKDGSVGRVRILPP----KTNILS 82

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFD 377
           +    +  H   + +L +L+ ++D           +   + F+D K   + +PP+ EQ  
Sbjct: 83  TMGALIANHRTTTEFLFYLLSNFDFKNF---TSGSIIPHIYFKDYKEKTIFLPPLNEQNA 139

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           I N+++     I  L  K  Q     +  + +     ++ +I +
Sbjct: 140 IANILSDLDNEIASLKNKKRQ----FENIKKALNHDLMSAKIRV 179



 Score = 45.6 bits (106), Expect = 0.016,   Method: Composition-based stats.
 Identities = 39/184 (21%), Positives = 66/184 (35%), Gaps = 15/184 (8%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           +P +W+ V +       T +          + +E + +  G+    D N+    T T  I
Sbjct: 6   LPLNWQRVRLGDIANYLTSK----------LSVEQI-TQQGEIKVYDVNNFIGYTDTTFI 54

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
             K  I   K G   R  I+     I ST   ++       E L   L + D        
Sbjct: 55  SDKPYISIVKDGSVGRVRILPPKTNILSTMGALIANHRTTTEFLFYLLSNFDFK----NF 110

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
             G+ + H  +K      + +PPL EQ  I   +      I +L  ++ +F  + K    
Sbjct: 111 TSGSIIPHIYFKDYKEKTIFLPPLNEQNAIANILSDLDNEIASLKNKKRQFENIKKALNH 170

Query: 201 ALVS 204
            L+S
Sbjct: 171 DLMS 174


>gi|139438849|ref|ZP_01772309.1| Hypothetical protein COLAER_01313 [Collinsella aerofaciens ATCC
           25986]
 gi|133775560|gb|EBA39380.1| Hypothetical protein COLAER_01313 [Collinsella aerofaciens ATCC
           25986]
          Length = 493

 Score = 76.0 bits (185), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 56/201 (27%), Positives = 84/201 (41%), Gaps = 6/201 (2%)

Query: 21  IPKHWKVVPIKRFTKLNTGRT-SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           IP+ W          +          +D  +I  ++++ GTGK L           S   
Sbjct: 50  IPESWAWARFSEVIGIAARLVDPLKYQDFPHIAPDNIQKGTGKLLFCHSVKADEVKSANH 109

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           +F+ GQILY K+ P LRKA+IA FDG+CS     L  K   PE +   LLS   T+    
Sbjct: 110 LFSAGQILYSKIRPALRKAVIAPFDGLCSADMYPLNTKLQ-PEYVLTVLLSNFFTEETLK 168

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE----LL 195
                 M   + K +  I +P+PPLAEQ  I E++      ++          E    L 
Sbjct: 169 GDTRVKMPKTNQKSLNVILVPVPPLAEQRRIVERVNELMPLVEEYGELEDAREELDAALP 228

Query: 196 KEKKQALVSYIVTKGLNPDVK 216
              +++++   V  GL P   
Sbjct: 229 GRLRKSVLQLAVQGGLVPQDP 249



 Score = 64.4 bits (155), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 34/208 (16%), Positives = 67/208 (32%), Gaps = 13/208 (6%)

Query: 218 KDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ---KLETRNMG 274
           K    E    +P+ W    F  ++    R    L   +   ++  NI +   KL   +  
Sbjct: 40  KCIADEVPFGIPESWAWARFSEVIGIAARLVDPLKYQDFPHIAPDNIQKGTGKLLFCHSV 99

Query: 275 LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
              E      +   G+I++  I     K  +        G+ ++    +         L 
Sbjct: 100 KADEVKSANHLFSAGQILYSKIRPALRKAVIAPFD----GLCSADMYPLNTKLQPEYVLT 155

Query: 335 WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
            L+ ++   +               + +  + V VPP+ EQ  I   +N     ++    
Sbjct: 156 VLLSNFFTEETLKGDTRVKMPKTNQKSLNVILVPVPPLAEQRRIVERVNELMPLVEEY-G 214

Query: 395 KIEQSIVLLKE-----RRSSFIAAAVTG 417
           ++E +   L        R S +  AV G
Sbjct: 215 ELEDAREELDAALPGRLRKSVLQLAVQG 242



 Score = 64.4 bits (155), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 25/185 (13%), Positives = 53/185 (28%), Gaps = 14/185 (7%)

Query: 219 DSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI---ESNILSLSYGNIIQKLETRNMGL 275
               E    +P+ WE     ++ T + R  +      E   +     N            
Sbjct: 308 CIEDEIPFEIPESWEWARLESVTTYIQRGKSPKYSTVEKYPVIAQKCNQWSGFSVEKARF 367

Query: 276 KP----ESYETYQIVDPGEIVFRFIDLQN---DKRSLRSAQVMERGIITSAY--MAVKPH 326
                   Y   +I+  G++++    L           +       +  S    +  +  
Sbjct: 368 IDPATVSKYADERILKDGDLLWNSTGLGTLGRMAVYDSAKNRYGWAVADSHVTVIRTRED 427

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
            +D  +         +        SG   ++ L  E V+   + VPP+ EQ  I   ++ 
Sbjct: 428 WLDHRFAFAYFAGPSVQSEIEDQASGSTKQKELAQETVRNYLIPVPPLAEQRRIVYEVDW 487

Query: 385 ETARI 389
               +
Sbjct: 488 LFKIL 492



 Score = 55.6 bits (132), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 30/176 (17%), Positives = 61/176 (34%), Gaps = 17/176 (9%)

Query: 20  AIPKHWKVVPIKRFTK-LNTGRTSESG--KDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            IP+ W+   ++  T  +  G++ +    +    I  +     +G  + K      +  S
Sbjct: 316 EIPESWEWARLESVTTYIQRGKSPKYSTVEKYPVIAQKC-NQWSGFSVEKARFIDPATVS 374

Query: 77  TV---SIFAKGQILYGKLG-PYLRKAIIAD------FDGICSTQFLVLQPKDV--LPELL 124
                 I   G +L+   G   L +  + D         +  +   V++ ++        
Sbjct: 375 KYADERILKDGDLLWNSTGLGTLGRMAVYDSAKNRYGWAVADSHVTVIRTREDWLDHRFA 434

Query: 125 QGWLLSIDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
             +     V   IE    G+T       + + N  +P+PPLAEQ  I  ++     
Sbjct: 435 FAYFAGPSVQSEIEDQASGSTKQKELAQETVRNYLIPVPPLAEQRRIVYEVDWLFK 490


>gi|161507539|ref|YP_001577493.1| Type I restriction-modification system specificity subunit
           [Lactobacillus helveticus DPC 4571]
 gi|160348528|gb|ABX27202.1| Type I restriction-modification system specificity subunit
           [Lactobacillus helveticus DPC 4571]
          Length = 356

 Score = 76.0 bits (185), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 48/390 (12%), Positives = 101/390 (25%), Gaps = 56/390 (14%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
             W+   +  F  + +G+  +            + SG+       G     D    ++  
Sbjct: 19  NDWEERKLGDFIDVKSGKDYK-----------HLNSGSIPVYGTGGYMLSVD---RALSD 64

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
              I  G+ G   +  ++        T F  + PK  +      + LSI      +   E
Sbjct: 65  IDAIGIGRKGTIDKPYLLKAPFWTVDTLFYAV-PKQNID---LQFSLSIFKKINWKKFDE 120

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
              +       I ++   +P   EQ  I          I     +   F     E  + L
Sbjct: 121 STGVPSLSKTVINSVGASVPSYEEQQKIGSFFKQLDKTIALHQRKLESFQFTYHEIIRRL 180

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
                   L     +                      +      +     E  +L  +  
Sbjct: 181 FLKKAKWQLTKLSDL----------------------VTILDKNRKPVKKEDRLLGDTPY 218

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
                ++    G              GE +    D  N         V  +  + +    
Sbjct: 219 YGANGIQDYISGFT----------HKGEFILIAEDGANSLTEYPIYFVKGQIWVNNHAHV 268

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
           +K +   S    +L  +              R  L  +D++ + + +P   EQ  I    
Sbjct: 269 LKVNRDVSP--LFLALALKQINYSKYTVGSSRNKLNLKDLENIAIFIPDNNEQQKIGQFY 326

Query: 383 NVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           +     +       ++ I  +K+ +   + 
Sbjct: 327 SNYLNYLR----INKKRIQYMKQFKQFLLQ 352


>gi|240117543|ref|ZP_04731605.1| Type I restriction-modification system specificity determinant
           [Neisseria gonorrhoeae PID1]
          Length = 407

 Score = 76.0 bits (185), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 49/395 (12%), Positives = 103/395 (26%), Gaps = 29/395 (7%)

Query: 26  KVVPIKRF------TKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           +  P+         TK+  G+  E  KD   + +      T   +  D      D     
Sbjct: 20  EWKPLGEVLVRTKGTKITAGQMKEMHKDNAPLKIFAG-GKTFALVDFD------DVPDKD 72

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           I  +  I+    G    +    D       +       +    +   +            
Sbjct: 73  IHREPSIIVKSRGII--EFEYYDKPFSHKNEMWSYHSVNKHIYIKYVYYFLKTQENYFRN 130

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
           I     M         N  +PIP L  Q  I + +   T    TL       + L K + 
Sbjct: 131 IGSKMQMPQIATPDTDNYKIPIPSLETQQKIVKILDKFTELEATLEATLEAELALRKRQY 190

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
           +     +    L+ D ++     +       +   K    +      +      +    +
Sbjct: 191 RYYRDLL----LDFDNQIGGGIADGYQCRLKNVVWKTLGEVAEYSKNRICSDKLNEHNYV 246

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
              N++Q  E + +     S          +I+   I     K           G +   
Sbjct: 247 GVDNLLQNREGKKLSGYVPSEGKMTEYIVNDILIGNIRPYLKKIWQADCTGGTNGDV--L 304

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDI 378
            + V    ++  YL  ++              G          + +  + +PP+ EQ  I
Sbjct: 305 VIRVTDEKVNPKYLYQVLADDKFFAFNMKHAKGAKMPRGSKAAIMQYKIPIPPLPEQEKI 364

Query: 379 TNVINVETARIDVL-------VEKIEQSIVLLKER 406
             ++         +       +    +     +E+
Sbjct: 365 VAILGKFDTLTHSVSEGLPHEIALRRKQYEYYREQ 399



 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/126 (13%), Positives = 44/126 (34%), Gaps = 6/126 (4%)

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP--HGIDSTYLAWLMRSYDLC 343
           V   +I      +   +  +      +     +   +       I   Y+ + +++ +  
Sbjct: 68  VPDKDIHREPSIIVKSRGIIEFEYYDKPFSHKNEMWSYHSVNKHIYIKYVYYFLKTQE-- 125

Query: 344 KVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
             F  +GS ++   +   D     + +P ++ Q  I  +++  T     L   +E  + L
Sbjct: 126 NYFRNIGSKMQMPQIATPDTDNYKIPIPSLETQQKIVKILDKFTELEATLEATLEAELAL 185

Query: 403 LK-ERR 407
            K + R
Sbjct: 186 RKRQYR 191


>gi|168464570|ref|ZP_02698473.1| restriction modification system DNA specificity domain [Salmonella
           enterica subsp. enterica serovar Newport str. SL317]
 gi|195632638|gb|EDX51092.1| restriction modification system DNA specificity domain [Salmonella
           enterica subsp. enterica serovar Newport str. SL317]
          Length = 464

 Score = 76.0 bits (185), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 24/152 (15%), Positives = 54/152 (35%), Gaps = 7/152 (4%)

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
           G+I  + +   +     +     +   G+IVF           +    + E+ I++ + M
Sbjct: 50  GDIFSESDFVFVSPDKANELQRNMAFRGDIVFTQRGTLGQVALIPEDSLYEKYIVSQSQM 109

Query: 322 A--VKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
              V P   D+ ++    R+ +   +       G    +    +K   + +PP+ EQ  I
Sbjct: 110 KLTVNPKQADAYFIYTYFRTNEAKALIENNAIVGGVPHINLGILKEFKLRLPPLSEQKRI 169

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
               +  +  ID  +    Q    L++   + 
Sbjct: 170 ----SEVSKSIDNKINLNRQINQTLEQMSQTL 197



 Score = 70.2 bits (170), Expect = 6e-10,   Method: Composition-based stats.
 Identities = 55/455 (12%), Positives = 134/455 (29%), Gaps = 72/455 (15%)

Query: 25  WKVVPIKRF-----TKLNTGRTSES-------GKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           W  V I             G    S          +  I   ++      +   D     
Sbjct: 5   WTTVSINDIKLPEKYSCVGGPFGSSLSQKHYVDSGVPVIRGTNLAGDI--FSESDFVFVS 62

Query: 73  SDTST---VSIFAKGQILYGKLGPYLRKAIIAD----FDGICSTQFL--VLQPKDVLPEL 123
            D +     ++  +G I++ + G   + A+I +       I S   +   + PK      
Sbjct: 63  PDKANELQRNMAFRGDIVFTQRGTLGQVALIPEDSLYEKYIVSQSQMKLTVNPKQADAYF 122

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           +  +  + +    IE       + H +   +    + +PPL+EQ  I E   +   +I+ 
Sbjct: 123 IYTYFRTNEAKALIENNAIVGGVPHINLGILKEFKLRLPPLSEQKRISEVSKSIDNKINL 182

Query: 184 LITERIRFIELLKEKKQA-------LVSYIVTKGLNPDVKMKDSGIE------------- 223
                    ++ +   ++       ++   +  G NP  +   S  E             
Sbjct: 183 NRQINQTLEQMSQTLFKSWFVDFDPVIDNALDAG-NPIPEALQSRAELRQKVRNSADFKP 241

Query: 224 ----------------WVGLVPDHWEVKPFFALVTELNR--KNTKLIESNILSLSYGNII 265
                            +G VP  W ++ F  +   +    K+  +              
Sbjct: 242 LPADIRTLFPAEFEETELGWVPKGWRIESFSEIAQLVKENVKSEDISSEVHYVGLEHLER 301

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK- 324
           + +   N G   +        + G+++F  +     K ++        GI ++  +  + 
Sbjct: 302 KHIFITNYGNGRDVSSNKSAFNKGDLLFGKLRPYFHKVAITPFS----GICSTDILVFRA 357

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
                 + +A  + + +          G R    + +D+ +  +++P      +I     
Sbjct: 358 KEKYYKSLMAMYVFTDEFVAYANLRSIGTRMPRAEAKDLLKYRIVLPN----KNILEKFE 413

Query: 384 VETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           +         +        L   R + +   ++G+
Sbjct: 414 LLLKNYWSKGQLNNDESKHLTTLRDTLLPKLISGE 448



 Score = 69.4 bits (168), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 44/190 (23%), Positives = 73/190 (38%), Gaps = 5/190 (2%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESG--KDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           +G +PK W++       +L            ++ Y+GLE +E     ++   GN R   +
Sbjct: 259 LGWVPKGWRIESFSEIAQLVKENVKSEDISSEVHYVGLEHLERKHI-FITNYGNGR-DVS 316

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPEL-LQGWLLSIDVT 134
           S  S F KG +L+GKL PY  K  I  F GICST  LV + K+   +  +  ++ + +  
Sbjct: 317 SNKSAFNKGDLLFGKLRPYFHKVAITPFSGICSTDILVFRAKEKYYKSLMAMYVFTDEFV 376

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
                   G  M  A+ K +    + +P           +     +      E      L
Sbjct: 377 AYANLRSIGTRMPRAEAKDLLKYRIVLPNKNILEKFELLLKNYWSKGQLNNDESKHLTTL 436

Query: 195 LKEKKQALVS 204
                  L+S
Sbjct: 437 RDTLLPKLIS 446


>gi|330684146|gb|EGG95895.1| type I restriction modification DNA specificity domain protein
           [Staphylococcus epidermidis VCU121]
          Length = 388

 Score = 76.0 bits (185), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 61/393 (15%), Positives = 126/393 (32%), Gaps = 41/393 (10%)

Query: 30  IKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           +      + G+           I +I   ++ +     + K  +    D + + + +K +
Sbjct: 25  LGSIACFSKGKLGSKKDISQNGIPFILYGELYTKYNAIIEKVYSKIAIDKNNLKVASKNE 84

Query: 86  ILYGKLGPY-----LRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
           +L    G           I  + +        +L PK+ +        L+      +   
Sbjct: 85  VLIPSSGETSIDIATASCIDINEEVAIGGDINILTPKN-VDGRFISLSLNGVNKLELSKY 143

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
            +G T+ H     I  + + +P   E+    +KI     ++D  I    R +ELL+++K+
Sbjct: 144 AQGKTVVHLYNNDIKKLKLSLPINFEEQ---QKIGDFFSKLDHQIELEERKLELLEQQKK 200

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
             +  I ++ L           +  G     WE+K    +      +             
Sbjct: 201 GYMQKIFSQEL--------RFKDENGNNYPEWEIKELMQIAKVKTGRKNVQDNIQDGKYK 252

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
           + +           L    ++   I+ PGE            + L      +  +   AY
Sbjct: 253 FFDR----SVEVKYLNTFDFDETAIIYPGE----------GSKFLPRYFSGKYSLHQRAY 298

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
                +  ++    +   S               +SL+     +L V+VP   EQ  I +
Sbjct: 299 SIYDININNNYLYYY--LSLQNNHFLKYAVGSTVKSLRMSGFDKLKVMVPKNSEQEKIGS 356

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
                   +D  +EK    + LLK R+ SF+  
Sbjct: 357 F----FKNLDEFIEKQSDKVELLKLRKQSFLQK 385



 Score = 54.4 bits (129), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 25/196 (12%), Positives = 72/196 (36%), Gaps = 12/196 (6%)

Query: 237 FFALVTELNRK---NTKLIESNILSLSYGNIIQKLETRNMGLKPE---SYETYQIVDPGE 290
             ++      K      + ++ I  + YG +  K       +  +        ++    E
Sbjct: 25  LGSIACFSKGKLGSKKDISQNGIPFILYGELYTKYNAIIEKVYSKIAIDKNNLKVASKNE 84

Query: 291 IVFRFIDLQNDKRSLRS-AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
           ++       +   +  S   + E   I      + P  +D  +++  +   +  ++    
Sbjct: 85  VLIPSSGETSIDIATASCIDINEEVAIGGDINILTPKNVDGRFISLSLNGVNKLELSKYA 144

Query: 350 GSGLRQSLKFEDVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
                  L   D+K+L + +P   +EQ  I +      +++D  +E  E+ + LL++++ 
Sbjct: 145 QGKTVVHLYNNDIKKLKLSLPINFEEQQKIGDF----FSKLDHQIELEERKLELLEQQKK 200

Query: 409 SFIAAAVTGQIDLRGE 424
            ++    + ++  + E
Sbjct: 201 GYMQKIFSQELRFKDE 216


>gi|304570622|ref|YP_830484.2| restriction modification system DNA specificity subunit
           [Arthrobacter sp. FB24]
          Length = 412

 Score = 76.0 bits (185), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 61/411 (14%), Positives = 137/411 (33%), Gaps = 37/411 (9%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           HW +V      +L  G+          +       G+      +G +   D+    +F  
Sbjct: 24  HWPLVRSSELFELRYGKA---------LVASGRRPGSVPVYGTNGQTGSHDSP---LFRG 71

Query: 84  GQILYGKLGP-YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
             ++ G+ G  +L      +   +  T + +    DV  +     +  + +      +  
Sbjct: 72  PGLILGRKGAGHLGVHWTDNDYWVIDTAYSLSPRDDVDLKFAYYLIKHVGL----NHLKH 127

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           G +         G    P+PP+A Q  I   +      +D +I    R I+LL+E   A+
Sbjct: 128 GTSNPSLTRDAFGAQYFPLPPVATQGAIATTL----SALDDMIDSNRRKIDLLEELGAAI 183

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
           V   +   L+     +      +G V    E           +   + ++     S+   
Sbjct: 184 VEQRLH--LDAYGFPEYERGRRLGDVLRVLETGSRPKGGAAPSG--SGVVSLGAESIQSA 239

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRF-----IDLQNDKRSLRSAQVMERGIIT 317
            +      +++  +  +      ++  +++         +      +      +E   I 
Sbjct: 240 GVCTTNVFKHIPEEFAARMKRGHLEEEDVLVYKDGGRPGNFIPHVSAFGYGFPVEEAAIN 299

Query: 318 SA-YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQ 375
              Y      GI    L WL+RS  + +     G+G     L   + + LP+ +  + E 
Sbjct: 300 EHVYRVRSSDGISQALLYWLLRSPWMDQEMRKRGTGVAIPGLNSSNFRDLPLPI--LTET 357

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
                V+N   + +   + ++      L   R+  +   +TG+I +  E++
Sbjct: 358 D--VEVLNDRLSPVLASMLRLGTESGRLAALRNVLLPELLTGRIRV-PEAE 405


>gi|238918946|ref|YP_002932460.1| type I restriction-modification system, S subunit [Edwardsiella
           ictaluri 93-146]
 gi|238868514|gb|ACR68225.1| type I restriction-modification system, S subunit [Edwardsiella
           ictaluri 93-146]
          Length = 461

 Score = 76.0 bits (185), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 48/449 (10%), Positives = 124/449 (27%), Gaps = 61/449 (13%)

Query: 27  VVPIKRFTKLN---TGRTSE-SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
              +    +L       T E +    I +  +++ +G          ++    + +    
Sbjct: 7   TTKLADLCELVVDCPHSTPEWTDSGFIVLRNQNIRNGVLDLSSPSFTNKDGFLNRIKRAK 66

Query: 83  K--GQILYGKLGPYLRKAIIADFDGIC-STQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
              G ++  +  P     +I      C   + ++L+P+  +      W L     Q   +
Sbjct: 67  PQEGDLVITREAPMGEVCLIPAGLECCLGQRQVLLRPRKGVSGYYLFWALQSPYVQHQIS 126

Query: 140 ICEGATMSHADWKGIGNIPMPIPPL-AEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
             EG   + ++ +      + IP L   +  +   + +   +I           ++ +  
Sbjct: 127 WNEGTGTTVSNIRIPILKELNIPRLLDSEDAVASCLNSLANKITLNRQINQTLEQMAQAL 186

Query: 199 KQALVSYI---VTKGLNPDVKMKDSGIEW------------------------------- 224
            ++        V   L+     ++S +                                 
Sbjct: 187 FKSWFVDFDPVVDNALDAGFFEQNSELSEELLRRAEQRKAVREQPDFKPLPAETRQLFPA 246

Query: 225 ------------VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
                        G VP  W      A       ++      N +         K +   
Sbjct: 247 AFEACEEPSLGLGGWVPKGWSGSSVGAEFNLTMGQSPASSTYNDIGDGIPFFQGKTDF-- 304

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
            G +  S   Y              +             ++  I     A +      ++
Sbjct: 305 -GFRFPSNRIYCSSPKRMANKHDTLVSVRAPVGDINLAADKCAIGRGVAAARHGSGSVSF 363

Query: 333 LAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
             + +++       +     +  S+  +D K +PV+         +    ++  A +D  
Sbjct: 364 TYYTLKNLSKYFSVFNGEGTVFGSINQKDFKSIPVV----SVTTRLVAEFDLFCAHLDSR 419

Query: 393 VEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           +E  E  ++ L   R + +   ++G++ L
Sbjct: 420 IEVNENEVIALSNLRDTLLPKLISGELRL 448


>gi|226198243|ref|ZP_03793814.1| type I restriction-modification system specificity determinant
           protein [Burkholderia pseudomallei Pakistan 9]
 gi|225929763|gb|EEH25779.1| type I restriction-modification system specificity determinant
           protein [Burkholderia pseudomallei Pakistan 9]
          Length = 277

 Score = 76.0 bits (185), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 24/209 (11%), Positives = 68/209 (32%), Gaps = 12/209 (5%)

Query: 225 VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNM-------GLKP 277
           +G +P  W V     +   +        E      +  +     +   +         + 
Sbjct: 66  LGEIPKGWAVSTVGRVAQCVGGGTPSTKEQKFWEPAIHHWTTPKDLSGIAAPVLLDTERR 125

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
            S      V  G +    + + +       A       +   Y+A+ P G  +    +  
Sbjct: 126 LSDAGLAKVSSGLLPVGTLLMSSRAPIGYLAISQIPLAVNQGYIAMLPGGQLAPEYLYFW 185

Query: 338 RSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
              ++  +           +     + +P+++P  +    +        A+I   + + E
Sbjct: 186 CQSNMDAIKQKANGSTFMEISKTAFRPIPIVLPSSE----VAACFADLAAKIFERISEGE 241

Query: 398 QSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
           +  + L+E R++ +   ++G++ L  E++
Sbjct: 242 RQRIHLEEIRNTLLPRLISGKLRL-PEAE 269



 Score = 61.0 bits (146), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 29/197 (14%), Positives = 56/197 (28%), Gaps = 12/197 (6%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIG----------LEDVESGTGKYLPKD 67
           +G IPK W V  + R  +   G T  + +   +            L  + +       + 
Sbjct: 66  LGEIPKGWAVSTVGRVAQCVGGGTPSTKEQKFWEPAIHHWTTPKDLSGIAAPVLLDTERR 125

Query: 68  GNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW 127
            +       +  +   G +L     P      I+      +  ++ + P   L      +
Sbjct: 126 LSDAGLAKVSSGLLPVGTLLMSSRAPI-GYLAISQIPLAVNQGYIAMLPGGQL-APEYLY 183

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
                    I+    G+T           IP+ +P         +       RI     +
Sbjct: 184 FWCQSNMDAIKQKANGSTFMEISKTAFRPIPIVLPSSEVAACFADLAAKIFERISEGERQ 243

Query: 188 RIRFIELLKEKKQALVS 204
           RI   E+       L+S
Sbjct: 244 RIHLEEIRNTLLPRLIS 260


>gi|116609660|gb|ABK02384.1| restriction modification system DNA specificity domain protein
           [Arthrobacter sp. FB24]
          Length = 390

 Score = 76.0 bits (185), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 61/411 (14%), Positives = 137/411 (33%), Gaps = 37/411 (9%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           HW +V      +L  G+          +       G+      +G +   D+    +F  
Sbjct: 2   HWPLVRSSELFELRYGKA---------LVASGRRPGSVPVYGTNGQTGSHDSP---LFRG 49

Query: 84  GQILYGKLGP-YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
             ++ G+ G  +L      +   +  T + +    DV  +     +  + +      +  
Sbjct: 50  PGLILGRKGAGHLGVHWTDNDYWVIDTAYSLSPRDDVDLKFAYYLIKHVGL----NHLKH 105

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           G +         G    P+PP+A Q  I   +      +D +I    R I+LL+E   A+
Sbjct: 106 GTSNPSLTRDAFGAQYFPLPPVATQGAIATTL----SALDDMIDSNRRKIDLLEELGAAI 161

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
           V   +   L+     +      +G V    E           +   + ++     S+   
Sbjct: 162 VEQRLH--LDAYGFPEYERGRRLGDVLRVLETGSRPKGGAAPSG--SGVVSLGAESIQSA 217

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRF-----IDLQNDKRSLRSAQVMERGIIT 317
            +      +++  +  +      ++  +++         +      +      +E   I 
Sbjct: 218 GVCTTNVFKHIPEEFAARMKRGHLEEEDVLVYKDGGRPGNFIPHVSAFGYGFPVEEAAIN 277

Query: 318 SA-YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQ 375
              Y      GI    L WL+RS  + +     G+G     L   + + LP+ +  + E 
Sbjct: 278 EHVYRVRSSDGISQALLYWLLRSPWMDQEMRKRGTGVAIPGLNSSNFRDLPLPI--LTET 335

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
                V+N   + +   + ++      L   R+  +   +TG+I +  E++
Sbjct: 336 D--VEVLNDRLSPVLASMLRLGTESGRLAALRNVLLPELLTGRIRV-PEAE 383


>gi|225858684|ref|YP_002740194.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae 70585]
 gi|225721300|gb|ACO17154.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae 70585]
          Length = 373

 Score = 76.0 bits (185), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 40/396 (10%), Positives = 116/396 (29%), Gaps = 31/396 (7%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V +     L  G+ +    +   +    ++    +       +   + +         
Sbjct: 2   KKVKLGEVLSLKKGKKATVLAEQTTLSQRYIQIDDLRNNNNLKFTESLNMTEAL---PDD 58

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW--LLSIDVTQRIEAICEG 143
           IL    G             + ST  ++ + +    +++  +  +     +Q +     G
Sbjct: 59  ILIAWDGANAGTVGYGLSGAVGSTITVLKKNERYKEKIISDYLGVFLESKSQYLRDHSTG 118

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           AT+ H +   + ++ + +  + EQ  I   +      I     +                
Sbjct: 119 ATIPHLNKNILLDLQLELLGIEEQENIICILNTIKRLITKRKLQLDELNL---------- 168

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
                  L      +  G   +    D+              + +    E   L L+  N
Sbjct: 169 -------LVKSRFNEMFGENKIFESIDNLFDIIDGDRGKNYPKSDELFSEEYCLFLNTKN 221

Query: 264 IIQKLETRN----MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
           + +   + +    +    +       ++  +IV        +          +   I S 
Sbjct: 222 VTKNGFSFDTKQFITKTKDKLLRKGKLERYDIVLTTRGTVGNVAYYDELIKYKHLRINSG 281

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
            + ++P   +     +++           +    +  L    +K++ + +PP+  Q +  
Sbjct: 282 MVILRPKTPNLNQ-KFIIHVLRNNNYSRVISGSAQPQLPITKLKKILLPLPPLALQNEFA 340

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           + +     ++D     I++S+  L+  + S +    
Sbjct: 341 DFVV----QVDKSQLAIQKSLEELETLKKSLMQEYF 372


>gi|254463147|ref|ZP_05076563.1| hypothetical protein RB2083_3738 [Rhodobacterales bacterium
           HTCC2083]
 gi|206679736|gb|EDZ44223.1| hypothetical protein RB2083_3738 [Rhodobacteraceae bacterium
           HTCC2083]
          Length = 443

 Score = 76.0 bits (185), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 45/385 (11%), Positives = 105/385 (27%), Gaps = 22/385 (5%)

Query: 42  SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAII- 100
                ++  + +       G   P+D          +     G +++ K+        I 
Sbjct: 57  FSPDTEVTLLTIR----FDGSIEPRDPTRICDVKGKLFRVHPGDVVFSKIDVRNGAIGIA 112

Query: 101 ---ADFDGICS--TQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIG 155
                   + S    ++V Q K     +   +     +      I   +         + 
Sbjct: 113 PNDIKNMCVTSEFPVYIVNQDKTDPDYIKLLFRTDAFMKLLNSMISGASGRKRIQPSQLE 172

Query: 156 NIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK--------QALVSYIV 207
              +P+P  + QV + +      V  + L+ +       L +          Q+  S   
Sbjct: 173 KAKVPLPSNSAQVKVADYWRTGDVAKNALVLKLESLTRDLGKWMEGQTVDFTQSCKSRFF 232

Query: 208 TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK 267
             G     +           +  + +         E         E       YG   + 
Sbjct: 233 VAGYEATQQWDMKAGRAAHFLLSNPDFVRLGDYTEECTESVKPWDEPEKKFPVYGVNNKN 292

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
               N      ++            F      N     +  QV    I +  Y   +  G
Sbjct: 293 GVFLNKYQTGNTFNAPYKRIEKNWFFHNPTRANVGSLGKVPQVSNEAITSPEYQVWRLTG 352

Query: 328 -IDSTYLAWLMRSYDLCKVF-YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
                ++A L+R+     +  +    G++Q + + ++  + + + P+KEQ  +       
Sbjct: 353 GFLPEFMALLIRTDYFLSLVDFNRVGGVKQRMYYSNLADIRLPMVPLKEQQRVAEDYTKL 412

Query: 386 TARIDVLVEKIEQSIVLLKERRSSF 410
            A I     + +  +  L+  +   
Sbjct: 413 LAEI--AEARSDLKLRKLEIEKMIL 435


>gi|256853726|ref|ZP_05559091.1| predicted protein [Enterococcus faecalis T8]
 gi|256710669|gb|EEU25712.1| predicted protein [Enterococcus faecalis T8]
          Length = 186

 Score = 76.0 bits (185), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 21/120 (17%), Positives = 46/120 (38%), Gaps = 8/120 (6%)

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW-LMRSYDLCKVFYAMGSGL 353
            I  + +     S       I  ++ +        +    + ++ SY L K       G 
Sbjct: 71  TISARGEGTGTPSYVKAPVWITGNSMVINVEDFDINKKFLYAMLLSYSLKKYI---TGGA 127

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           +  L  + + ++P+++P   EQF I         ++D  +   ++ + LLKE +  F+  
Sbjct: 128 QPQLTRDVLLKVPIIIPSYNEQFKIGTF----FKQLDDTIALQQRKLDLLKETKKGFLQK 183



 Score = 41.7 bits (96), Expect = 0.22,   Method: Composition-based stats.
 Identities = 26/196 (13%), Positives = 55/196 (28%), Gaps = 26/196 (13%)

Query: 20  AIPK--------HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSR 71
            +P+         W+   +    K+    T    + +              Y     N  
Sbjct: 8   KVPEIRFPGFTGDWEQCKLGDIAKMYQPPTISGSELL-----------DTGYPVFGANGY 56

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
               S  +     Q+     G               +   +V+  +D        + + +
Sbjct: 57  IGFYSKSNHLE-DQVTISARGEGTGTPSYVKAPVWITGNSMVINVEDFDINKKFLYAMLL 115

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
                ++    G          +  +P+ IP   EQ  I         ++D  I  + R 
Sbjct: 116 SY--SLKKYITGGAQPQLTRDVLLKVPIIIPSYNEQFKIGTF----FKQLDDTIALQQRK 169

Query: 192 IELLKEKKQALVSYIV 207
           ++LLKE K+  +  + 
Sbjct: 170 LDLLKETKKGFLQKMF 185


>gi|91217496|ref|ZP_01254455.1| specificity determinant HsdS-like protein [Psychroflexus torquis
           ATCC 700755]
 gi|91184381|gb|EAS70765.1| specificity determinant HsdS-like protein [Psychroflexus torquis
           ATCC 700755]
          Length = 347

 Score = 76.0 bits (185), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 30/163 (18%), Positives = 66/163 (40%), Gaps = 6/163 (3%)

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG--IITSAYMAV 323
            K  +R+  ++  + +    +   +IV    D+ N K   +   + E     +     A+
Sbjct: 35  SKFISRDGKVRKNTRKQMFPLFEEDIVMVMSDVPNGKALAKCYIIEENNKYSLNQRICAI 94

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
           +    +  +L + +  +     F    +  + +L+  D+   P+  PP+ EQ  I  +++
Sbjct: 95  RTTEFNIGFLYYQLNRHSYFLAFNNGEN--QSNLRKGDILNCPLWKPPLSEQKQIVAILD 152

Query: 384 VETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
                I+     IE++IV  KE   S + A  + + D  G  +
Sbjct: 153 KAFTAIEQAKANIEKNIVNAKELFQSKLNAIFSQKGD--GWEE 193



 Score = 75.6 bits (184), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 44/358 (12%), Positives = 106/358 (29%), Gaps = 24/358 (6%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           ++  +    K   G+  E   D+             K++ +DG  R++    +    +  
Sbjct: 4   EMTTLGESCKFFNGKAHEKDIDVE----GAFVVVNSKFISRDGKVRKNTRKQMFPLFEED 59

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ---GWLLSIDVTQRIEAICE 142
           I+         KA+   +    + ++ + Q    +             ++      A   
Sbjct: 60  IVMVMSDVPNGKALAKCYIIEENNKYSLNQRICAIRTTEFNIGFLYYQLNRHSYFLAFNN 119

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           G   S+     I N P+  PPL+EQ  I   +      I+       + I   KE  Q+ 
Sbjct: 120 GENQSNLRKGDILNCPLWKPPLSEQKQIVAILDKAFTAIEQAKANIEKNIVNAKELFQSK 179

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
           ++ I ++  +   + +   I                +  T    +++       L  S  
Sbjct: 180 LNAIFSQKGDGWEERQIKDI-----------TTKIGSGATPRGGQSSYKESGISLIRSMN 228

Query: 263 NIIQKLETRNMGLKPESYETY---QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
                   + +    +          ++  +++         +  +     +   +    
Sbjct: 229 VHDDGFRDKKLAFIDDEQANKLSNVTIEENDVLLNITGASVARCCIVDKHFLPARVNQHV 288

Query: 320 YMAVKPHGIDSTYLAWL-MRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKE 374
            +     GI S       + S +   +   +G     RQ++    ++   +  P I E
Sbjct: 289 SIIRLKEGIMSNKFLHFALTSKETKSLLLGIGEQGATRQAITKVQIENFKIAFPSIIE 346



 Score = 39.8 bits (91), Expect = 0.95,   Method: Composition-based stats.
 Identities = 17/116 (14%), Positives = 37/116 (31%), Gaps = 11/116 (9%)

Query: 24  HWKVVPIKRF-TKLNTGRTSE------SGKDIIYIGLEDV-ESGTGKYLPKDGNSRQSDT 75
            W+   IK   TK+ +G T            I  I   +V + G         +  Q++ 
Sbjct: 190 GWEERQIKDITTKIGSGATPRGGQSSYKESGISLIRSMNVHDDGFRDKKLAFIDDEQANK 249

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGI---CSTQFLVLQPKDVLPELLQGWL 128
            +     +  +L    G  + +  I D   +    +    +++ K+ +        
Sbjct: 250 LSNVTIEENDVLLNITGASVARCCIVDKHFLPARVNQHVSIIRLKEGIMSNKFLHF 305


>gi|330937290|gb|EGH41301.1| restriction modification system DNA specificity domain protein
           [Pseudomonas syringae pv. pisi str. 1704B]
          Length = 381

 Score = 76.0 bits (185), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 60/214 (28%), Positives = 90/214 (42%), Gaps = 15/214 (7%)

Query: 8   PQYKDSGVQWI----------GAIPKHWKVVPIKRFTKLNTGR--TSESGKDIIYIGLED 55
           P Y D+G   +          G +PK WK   +    +  T +   SE    + Y+GLE 
Sbjct: 156 PSYIDTGTADLFPNDFESSAVGQVPKGWKFGILGDIAQTVTRKATVSEFNDQLNYVGLEH 215

Query: 56  VESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQ 115
           +   +   +  +        S+ S+F+K  IL+GKL PY  K +IA  DG+CST  LV Q
Sbjct: 216 IPRKSLSLI--NWGCADGLASSKSVFSKTDILFGKLRPYFHKVVIAPIDGVCSTDVLVCQ 273

Query: 116 PKDVLPE-LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKI 174
           PK      ++   L S  +      +  GA M    WK +   PM IPP    +     I
Sbjct: 274 PKVNDYYGIVLMHLFSESLISYANRLSNGAKMPRVSWKDLAAYPMCIPPSDIAMSFNSVI 333

Query: 175 IAETVRIDTLITERIRFIELLKEKKQALVSYIVT 208
           +     I + I +    I+L +     L+S  V 
Sbjct: 334 LPMVGEIISNIEQIQTVIQLRETLLPKLISGEVR 367



 Score = 69.8 bits (169), Expect = 7e-10,   Method: Composition-based stats.
 Identities = 52/365 (14%), Positives = 119/365 (32%), Gaps = 28/365 (7%)

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP---ELLQGWLLSIDV 133
           + +    G++L   +G   + A+ +      +    V     +     E +   L S   
Sbjct: 12  SRTRLKGGEVLLTLVGSVGQVAVASKKLKGFNVARAVAVIHPIDSVEAEWIALCLRSPLS 71

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
              + +       +  + K +  +P+P PP +E+  I   + A    I  L         
Sbjct: 72  KHLLGSRANTTVQTTINLKDLRELPIPFPPESERKEITAALGALDSCIAVLHETNATLQS 131

Query: 194 LLKEKKQALV-----------SYIVTKGLNPDVKMKDSGIEW--VGLVPDHWEVKPFFAL 240
           + +   ++             S   +        +  +  E   VG VP  W+      +
Sbjct: 132 IAQTIFKSWFVDFNPVHAKSESRAPSYIDTGTADLFPNDFESSAVGQVPKGWKFGILGDI 191

Query: 241 VTELNRK--NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDL 298
              + RK   ++  +            + L   N G       +  +    +I+F  +  
Sbjct: 192 AQTVTRKATVSEFNDQLNYVGLEHIPRKSLSLINWGCADGLASSKSVFSKTDILFGKLRP 251

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWL-MRSYDLCKVFYAMGSGL-RQS 356
              K  +        G+ ++  +  +P   D   +  + + S  L      + +G     
Sbjct: 252 YFHKVVIAPID----GVCSTDVLVCQPKVNDYYGIVLMHLFSESLISYANRLSNGAKMPR 307

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           + ++D+   P+ +PP        +VI      I   +  IE  I  + + R + +   ++
Sbjct: 308 VSWKDLAAYPMCIPPSDIAMSFNSVILPMVGEI---ISNIE-QIQTVIQLRETLLPKLIS 363

Query: 417 GQIDL 421
           G++ L
Sbjct: 364 GEVRL 368



 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/134 (11%), Positives = 56/134 (41%), Gaps = 6/134 (4%)

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
           ++  +   +  GE++   +       ++ S ++    +  +  +      +++ ++A  +
Sbjct: 8   DAKYSRTRLKGGEVLLTLVGSVGQ-VAVASKKLKGFNVARAVAVIHPIDSVEAEWIALCL 66

Query: 338 RSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
           RS     +  +  +   + ++  +D++ LP+  PP  E+ +IT  +      +D  +  +
Sbjct: 67  RSPLSKHLLGSRANTTVQTTINLKDLRELPIPFPPESERKEITAALGA----LDSCIAVL 122

Query: 397 EQSIVLLKERRSSF 410
            ++   L+    + 
Sbjct: 123 HETNATLQSIAQTI 136


>gi|20090947|ref|NP_617022.1| type I site-specific deoxyribonuclease [Methanosarcina acetivorans
           C2A]
 gi|19916030|gb|AAM05502.1| type I site-specific deoxyribonuclease [Methanosarcina acetivorans
           C2A]
          Length = 290

 Score = 76.0 bits (185), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 47/302 (15%), Positives = 96/302 (31%), Gaps = 20/302 (6%)

Query: 122 ELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
                +   + + + IE      T+ H   K +  I +P+PPL  Q  I   +       
Sbjct: 1   MPDFAYRSLVKILKDIEDRTAFVTVKHLSAKQLNTIKIPVPPLETQQKIVSILKKAEET- 59

Query: 182 DTLITERIRFIELLKEKKQALVSY-IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFAL 240
                   +      E  Q L+    +    +P V  K+     +  V +   +      
Sbjct: 60  -------KKLRAQADELTQKLLQSVFLEMFGDPVVNPKNWKEIKLKDVSE---IVSGVTK 109

Query: 241 VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQN 300
             +L  K T  +    ++      +   E + + + P   E Y +     ++    D   
Sbjct: 110 GRKLAGKPTVFVPYLRVANVQDGYLDLTEIKEIEVLPSDVEKYALQGGDILLTEGGDPDK 169

Query: 301 DKRSLRSAQVMERGIITSAYMAVKPHGID--STYLAWLMRSYDLCKVFYAMG--SGLRQS 356
             R     + +   I  +    V+ +       YL+ L+ S      F      +    S
Sbjct: 170 LGRGAVWNRQIPTCIHQNHIFRVRVNRECLVPEYLSMLIGSTYGKMYFLKSAKQTTGIAS 229

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           +    +K  P L+  +  Q     +++    +I+      +QS   +     S +  A T
Sbjct: 230 INSTQLKNFPALIASLDLQLRFAEMVH----QIEKTTVSQQQSSFKINNLFDSLMQKAFT 285

Query: 417 GQ 418
           G+
Sbjct: 286 GE 287



 Score = 60.2 bits (144), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 28/205 (13%), Positives = 61/205 (29%), Gaps = 18/205 (8%)

Query: 22  PKHWKVVPIKRFTKLNTGRTS------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           PK+WK + +K  +++ +G T       +    + Y+ + +V+ G                
Sbjct: 89  PKNWKEIKLKDVSEIVSGVTKGRKLAGKPTVFVPYLRVANVQDGYLDLTEIKEIEVLPSD 148

Query: 76  STVSIFAKGQILYGKLGP----YLRKAIIADFDGICSTQ--FLVLQPKDVLPELLQGWLL 129
                   G IL  + G                        F V   ++ L       L+
Sbjct: 149 VEKYALQGGDILLTEGGDPDKLGRGAVWNRQIPTCIHQNHIFRVRVNRECLVPEYLSMLI 208

Query: 130 SIDVTQRI--EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
                +    ++  +   ++  +   + N P  I  L  Q+   E       +I+     
Sbjct: 209 GSTYGKMYFLKSAKQTTGIASINSTQLKNFPALIASLDLQLRFAE----MVHQIEKTTVS 264

Query: 188 RIRFIELLKEKKQALVSYIVTKGLN 212
           + +    +     +L+    T  L 
Sbjct: 265 QQQSSFKINNLFDSLMQKAFTGELF 289


>gi|315930741|gb|EFV09751.1| type I restriction modification DNA specificity domain protein
           [Campylobacter jejuni subsp. jejuni 305]
          Length = 782

 Score = 76.0 bits (185), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 46/404 (11%), Positives = 124/404 (30%), Gaps = 31/404 (7%)

Query: 27  VVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGT-GKYLPKDGNSRQSDTSTVS 79
           +V +K       G T           DI ++ + D  +        +         S   
Sbjct: 393 LVKLKICGDFFMGGTPSRKNINYWNGDIKWLTISDYSNRQVIMDTKEKITREGFKNSNAK 452

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           +  KG ++   +   + +  I   D   +   + + P +        + +      ++  
Sbjct: 453 MIQKGAVVVS-IYATIGRVGILGEDMTTNQAIVAIIPNEEFINKYLMYAI-DYFKFQLYN 510

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
                +  + +   + N+ +P PPL  Q  I  +      + +TL      +  L+K   
Sbjct: 511 EVITTSQQNINLGILQNMVIPKPPLEIQKQIVAECEKIEEQYNTLSLSIKEYQNLIKAML 570

Query: 200 QA--LVSYIVTKGLNP------DVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           Q   ++       LN       ++   +   E++       +       + +L+     L
Sbjct: 571 QKCGIIEDNQEYELNSILDKINNLCKINLDSEFLSSFNKTIKEYALSNPIFKLSIGKRVL 630

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
               + +         +      +  E  + Y      + V   ID       +   +  
Sbjct: 631 NNELLENGQIPVYSANVLEVFGFVNKEILQDY----DNDSVLWGIDGDWMVGFIPKNKKF 686

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
                            ++ Y+++++      + F       +     + +K L V +P 
Sbjct: 687 YPTDHCGVLRVDDTKI-NAKYISFILNEAGKKQGFSR-----KLRASIDRIKALRVKLPS 740

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           ++ Q  I ++    T +I+  + + +  +  L++ +   +   +
Sbjct: 741 LEFQDQIADI----TDKIEKKINEYKIELDRLEKEKEKILQKYL 780


>gi|269978348|gb|ACZ55908.1| putative type I restriction-modification system specificity subunit
           S [Helicobacter pylori]
          Length = 409

 Score = 76.0 bits (185), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 50/402 (12%), Positives = 111/402 (27%), Gaps = 29/402 (7%)

Query: 22  PKHWKVVPIKRFTKL-------NTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           PK  +   +    +         T +  +       +     ++    Y  +  N  Q+ 
Sbjct: 13  PKGVEFRKLGEVLEYDQPNQYCVTSKEFDKSYPTPVLTAG--KTFILGYTNEKDNIYQAS 70

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
            S+  I                   +     + S+   +L  K+    +   +       
Sbjct: 71  KSSPVIIF-DDF-------TTATQWVDFPFKVKSSAMKILFSKNPTINIRFIFFYM---Q 119

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
                I    T           + +PIPPL  Q  I + + A T     L TE    +  
Sbjct: 120 TIPYNISGEHTRQWISRYSQ--LEVPIPPLEIQQEIVKILDAFTELNTELNTELNTELNA 177

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
            K++ Q   +  +                          ++       E  +        
Sbjct: 178 RKKQYQYYQNMFLDFNDINQNHKDAKMSAKPYPKRLKTLLQTLAPKGVEFRKLGEVCDFQ 237

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
              S++   +         G +  +Y   +    GE +   I          S   +   
Sbjct: 238 KGKSITKKAVTFGKVPVISGGRQPAYYHNEANRSGETI--AISSSGVYAGYVSYWDIPVF 295

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKE 374
           +  S  ++ K   +   YL   + +            G+   +  +D++   + +PP++ 
Sbjct: 296 LADSFPVSPKQKTLMPKYLFHYLTTQQDAIHATKSAGGI-PHVYSKDLQNFLIPIPPLEI 354

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           Q +I  +++  +     L+  I   I   K+     R   + 
Sbjct: 355 QQEIVKILDQFSLLTTDLLAGIPAEIEARKKQYEYYREKLLT 396


>gi|281177458|dbj|BAI53788.1| conserved hypothetical protein [Escherichia coli SE15]
          Length = 415

 Score = 75.6 bits (184), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 52/417 (12%), Positives = 113/417 (27%), Gaps = 31/417 (7%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF-AKGQIL 87
            IK       G      + I       V     +    D        S+   F  +  I+
Sbjct: 7   KIKDVCDFVGGSQPPKSQFIYVSKPGYVRLIQTRDYKTDAFPTYIPISSTKKFCDEFDIM 66

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID--VTQRIEAICEGAT 145
            G+ GP + +       G  +   L + PK+ +      + L  D       +       
Sbjct: 67  IGRYGPPIFQIC-RGLKGAYNVALLKVIPKEGVSRDFLYYFLKQDSVFQYVDKLSARTGG 125

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
            +  D   +   P+ IP   E    +EK++     ID  I    R    L+   + L  Y
Sbjct: 126 QTGVDLVSLKEYPVRIPEEIE---CQEKLVTILSVIDKKIALNNRINTELEAMAKTLYDY 182

Query: 206 IVTKGLNPD---VKMKDSGIEW------VGLVPDHWEVKPFFALVTELNR--------KN 248
              +   PD      K SG +          +P  W        +             + 
Sbjct: 183 WFVQFDFPDANGKPYKTSGGKMEYNATLKREIPAGWNDSILGKFIELDRGVTYSKEDVRT 242

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPES--YETYQIVDPGEIVFRFIDLQNDKRSLR 306
               ++  +  +       ++  ++   P S       +     ++      +       
Sbjct: 243 QDDKDTIGILRATNVTGNNVDIDDLVFIPSSRVNVNQMLNKFDILIVMSSGSKEHVGKNG 302

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRL 365
                ++    +    + P      ++   ++S            G    +L    +   
Sbjct: 303 VYYFEKKHAFGAFCSKITPVRKYRYFINTFLQSKWFKSYINNQCLGTNINNLTNTHITNC 362

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
            ++ P       +  +   +   I   +    Q    L + R   +   + GQ+ ++
Sbjct: 363 EIICPTPD----VVALFENKMMPIYNKLASNTQENSHLIQLRDWLLPLLMNGQVTVK 415



 Score = 41.3 bits (95), Expect = 0.31,   Method: Composition-based stats.
 Identities = 26/188 (13%), Positives = 47/188 (25%), Gaps = 14/188 (7%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSES--------GKDIIYIGLEDVESGTGKYLPKDGNSR 71
            IP  W    + +F +L+ G T              I  +   +V               
Sbjct: 213 EIPAGWNDSILGKFIELDRGVTYSKEDVRTQDDKDTIGILRATNVTGNNVDIDDLVFIPS 272

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAI-----IADFDGICSTQFLVLQPKDVLPELLQG 126
                   +  K  IL                   +           + P       +  
Sbjct: 273 SRVNVN-QMLNKFDILIVMSSGSKEHVGKNGVYYFEKKHAFGAFCSKITPVRKYRYFINT 331

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           +L S      I   C G  +++     I N  +  P      L   K++    ++ +   
Sbjct: 332 FLQSKWFKSYINNQCLGTNINNLTNTHITNCEIICPTPDVVALFENKMMPIYNKLASNTQ 391

Query: 187 ERIRFIEL 194
           E    I+L
Sbjct: 392 ENSHLIQL 399


>gi|261494963|ref|ZP_05991432.1| putative type I restiction/modification specificity protein
           [Mannheimia haemolytica serotype A2 str. OVINE]
 gi|261309372|gb|EEY10606.1| putative type I restiction/modification specificity protein
           [Mannheimia haemolytica serotype A2 str. OVINE]
          Length = 184

 Score = 75.6 bits (184), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 25/161 (15%), Positives = 53/161 (32%), Gaps = 8/161 (4%)

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
           I     G   +K          E Y+          +         +  +   +      
Sbjct: 24  IPFYKIGTFGKKPNAYISRELFEDYKQKYSYPRKGNILISASGTIGRTVIFDGEDSYFQD 83

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
               ++      +   +L +L +  D          G  Q L  +++K+L + VPP+ EQ
Sbjct: 84  SNIVWIENDESQVLDKFLFYLYQIADW----NIAEGGTIQRLYNDNLKKLKIPVPPLSEQ 139

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
             I N+++   +  + + E + + I L +E     R   + 
Sbjct: 140 QKIVNILDKFDSLTNSITEGLPKEIKLRREQYGYYREQLLN 180



 Score = 44.4 bits (103), Expect = 0.037,   Method: Composition-based stats.
 Identities = 28/167 (16%), Positives = 53/167 (31%), Gaps = 4/167 (2%)

Query: 43  ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD 102
            +  DI +  +         Y+ ++    +      S   KG IL    G   R  I   
Sbjct: 19  SNVGDIPFYKIGTFGKKPNAYISRELF--EDYKQKYSYPRKGNILISASGTIGRTVIFDG 76

Query: 103 FDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIP 162
            D       +V          +    L          I EG T+       +  + +P+P
Sbjct: 77  EDSYFQDSNIVWIEN--DESQVLDKFLFYLYQIADWNIAEGGTIQRLYNDNLKKLKIPVP 134

Query: 163 PLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTK 209
           PL+EQ  I   +       +++     + I+L +E+       ++  
Sbjct: 135 PLSEQQKIVNILDKFDSLTNSITEGLPKEIKLRREQYGYYREQLLNF 181


>gi|330879394|gb|EGH13543.1| type I restriction-modification system subunit S [Pseudomonas
           syringae pv. morsprunorum str. M302280PT]
          Length = 782

 Score = 75.6 bits (184), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 25/189 (13%), Positives = 66/189 (34%), Gaps = 5/189 (2%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY--Q 284
            VP +WE     A+  +  +K         + +   +      +    L  E   +   +
Sbjct: 82  EVPTNWEWVRVAAVGHDWGQKTPD-QAFTYIDVGAVDNAAGTISTPQVLMAEDAPSRARK 140

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS-TYLAWLMRSYDLC 343
           +V  G +++  I       ++      +  I+++A+  + P+      Y    +RS    
Sbjct: 141 VVRSGTVIYSTIRPYLLNVAVIDKAYEQEPIVSTAFAIIHPYLEMPARYFLCYLRSPVFV 200

Query: 344 KVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
           +   ++  G+   ++         + +PP+ EQ  I   ++   A  + L  +   +   
Sbjct: 201 RYVESVQIGIAYPAINDGQFFSGLIPLPPLAEQHRIVAKVDELMALCERLEAQQADADSA 260

Query: 403 LKERRSSFI 411
             +   + +
Sbjct: 261 HTQLVQALL 269



 Score = 71.4 bits (173), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 38/191 (19%), Positives = 74/191 (38%), Gaps = 8/191 (4%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKY-LPKDGNSRQSDTSTV 78
            +P +W+ V +         +T +      YI +  V++  G    P+   +  + +   
Sbjct: 82  EVPTNWEWVRVAAVGHDWGQKTPDQA--FTYIDVGAVDNAAGTISTPQVLMAEDAPSRAR 139

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDG----ICSTQFLVLQPKDVLPELLQ-GWLLSIDV 133
            +   G ++Y  + PYL    + D       I ST F ++ P   +P      +L S   
Sbjct: 140 KVVRSGTVIYSTIRPYLLNVAVIDKAYEQEPIVSTAFAIIHPYLEMPARYFLCYLRSPVF 199

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            + +E++  G      +     +  +P+PPLAEQ  I  K+       + L  ++     
Sbjct: 200 VRYVESVQIGIAYPAINDGQFFSGLIPLPPLAEQHRIVAKVDELMALCERLEAQQADADS 259

Query: 194 LLKEKKQALVS 204
              +  QAL+ 
Sbjct: 260 AHTQLVQALLD 270



 Score = 65.2 bits (157), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 27/201 (13%), Positives = 68/201 (33%), Gaps = 14/201 (6%)

Query: 229 PDHWEVKPFFALVTELNR---KNTKLIESNILSL--SYGNIIQKLETRNMGLKPESY--- 280
           P+ WE      L++  +     +    +S    +  + GN  +K   R+ G + + Y   
Sbjct: 367 PEAWEWCRVSDLISIKHGYAFSSAYFCDSASPYVLTTPGNFHEKGGFRDRGSRTKYYRGP 426

Query: 281 -ETYQIVDPGEIVFRFI--DLQNDKRSLRSAQVMERGIITSAY--MAVKPHGIDSTYLAW 335
            +    ++ G+++                     +  +       +      + S Y+  
Sbjct: 427 VDKEFALEAGDLIVAMTEQAAGLLGSPAIVPNDGKVYLHNQRLGKIIFDSEIVFSRYIFH 486

Query: 336 LMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
              +  L        +G+  +      +  +   +PP+ EQ  I   ++      D L  
Sbjct: 487 YFNTAYLRTCVADSSTGMKVKHTSPGKIGAVFFPIPPLAEQHRIAAKVDQLMDLCDELKT 546

Query: 395 KIEQSIVLLKERRSSFIAAAV 415
           ++ Q+  L ++  S+ +  A+
Sbjct: 547 RLIQARQLNEKLASTMVEHAL 567



 Score = 56.3 bits (134), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 34/204 (16%), Positives = 63/204 (30%), Gaps = 17/204 (8%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           +P+ W+   +     +  G    S           V +  G +  K G   +   +    
Sbjct: 366 VPEAWEWCRVSDLISIKHGYAFSSAYFCDSAS-PYVLTTPGNFHEKGGFRDRGSRTKYYR 424

Query: 81  --------FAKGQILYGKL---GPYLRKAIIADFDGICSTQF-----LVLQPKDVLPELL 124
                      G ++          L    I   DG           ++   + V    +
Sbjct: 425 GPVDKEFALEAGDLIVAMTEQAAGLLGSPAIVPNDGKVYLHNQRLGKIIFDSEIVFSRYI 484

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
             +  +  +   +     G  + H     IG +  PIPPLAEQ  I  K+       D L
Sbjct: 485 FHYFNTAYLRTCVADSSTGMKVKHTSPGKIGAVFFPIPPLAEQHRIAAKVDQLMDLCDEL 544

Query: 185 ITERIRFIELLKEKKQALVSYIVT 208
            T  I+  +L ++    +V + + 
Sbjct: 545 KTRLIQARQLNEKLASTMVEHALD 568


>gi|320536227|ref|ZP_08036273.1| type I restriction modification DNA specificity domain protein
           [Treponema phagedenis F0421]
 gi|320146929|gb|EFW38499.1| type I restriction modification DNA specificity domain protein
           [Treponema phagedenis F0421]
          Length = 637

 Score = 75.6 bits (184), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 49/409 (11%), Positives = 118/409 (28%), Gaps = 32/409 (7%)

Query: 27  VVPIKRFTKLNTGRTSESGK-DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
              I        G    +GK   ++     V    G     D   +        I  K  
Sbjct: 212 WDTIGNICTRQKGINITAGKMKELHKDGAPVRIFAGGSTFADIEIKDIGEEN--IIRKNS 269

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           I+    G    +    +F           +    L      + L  +V    +    G  
Sbjct: 270 IIVKSRGNIDFEFYEKEFSHKNEMWSYSSKDDKELNIKFLYYYLKNNVKYFRDNAITG-K 328

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
           +         N  +P P +  Q  I + +      +          I   +++ +     
Sbjct: 329 LPQISIGVTDNYKIPKPHIFVQNQIVKVLDKFQELLTNTTGLLPEEISKRQKQYEYYRER 388

Query: 206 IV----------------------TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTE 243
           ++                            +   K  G+E           +        
Sbjct: 389 LLTFNSKSDNTHTHTHTHTHTLGNHFFDTLNEAAKIVGVELESKAEWKTLGEIGIFTNGF 448

Query: 244 LNRKNTKLIESNILSLSYGNIIQKLETR----NMGLKPESYETYQIVDPGEIVFRFIDLQ 299
              K+   +   + ++ YG+I  K         + +  E+    + V  G++V       
Sbjct: 449 GMPKSMFDVNGEVGAIHYGHIYTKYNQFVLKPIVKISKENALKLKQVTHGDLVIARTSEN 508

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR-SYDLCKVFYAMGSGLRQ-SL 357
            +        +     +T  + AV  H  +  Y++++   +         +  G++   +
Sbjct: 509 IEDVMKTIVYLGNDNAVTGGHAAVYSHNQNPKYMSYVFNGASYFINQKNKLARGVKVIEI 568

Query: 358 KFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
              D+ ++ + +P I  Q  + ++++   A I+ + E + + I L +++
Sbjct: 569 STTDMNKIKIPLPSIFVQEHVVSILDKFDALINNISEGLPKEIELRQKQ 617



 Score = 67.5 bits (163), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 47/394 (11%), Positives = 111/394 (28%), Gaps = 34/394 (8%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           +   +    K+   +     KD                 P  G +   D     IF    
Sbjct: 16  EWKELGEVVKILDSQRKPISKD----------KREAGNYPYYGANGILDYVNDYIFDGVF 65

Query: 86  ILYGKLGPYLRK-----AIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
           +L G+ G  + K        A+     +    VL     +  L   +     +T    + 
Sbjct: 66  LLMGEDGSVINKDKSPVLHWAEGKIWVNNHAHVLAENKEIVLLRFVYFF---LTTTDVST 122

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
               T    + + + +I +PIP L  Q  I + +   T  +  L  +    ++   ++  
Sbjct: 123 IVRGTPPKINQQSLRSIQIPIPSLETQEKIVKILDQFTNYVTELQVKLRTELQARTKQYN 182

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN-TKLIESNILSL 259
                +    L+ +   K S    +              + T     N T      +   
Sbjct: 183 YYRDML----LSEEYLNKLSEKIDLLEDKKEIVWDTIGNICTRQKGINITAGKMKELHKD 238

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
                I    +    ++ +      I+    I+ +     + +   +            +
Sbjct: 239 GAPVRIFAGGSTFADIEIKDIGEENIIRKNSIIVKSRGNIDFEFYEKEFSHKNEMW---S 295

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
           Y +     ++  +L + +++ ++        +G    +         +  P I  Q  I 
Sbjct: 296 YSSKDDKELNIKFLYYYLKN-NVKYFRDNAITGKLPQISIGVTDNYKIPKPHIFVQNQIV 354

Query: 380 NVINVETARIDVL-------VEKIEQSIVLLKER 406
            V++     +          + K ++     +ER
Sbjct: 355 KVLDKFQELLTNTTGLLPEEISKRQKQYEYYRER 388



 Score = 56.7 bits (135), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 15/195 (7%), Positives = 58/195 (29%), Gaps = 11/195 (5%)

Query: 26  KVVPIKRFTKLNTG-RTSES----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS-TVS 79
           +   +        G    +S      ++  I    + +   +++ K       + +  + 
Sbjct: 434 EWKTLGEIGIFTNGFGMPKSMFDVNGEVGAIHYGHIYTKYNQFVLKPIVKISKENALKLK 493

Query: 80  IFAKGQILYGKLGPYLR-----KAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
               G ++  +    +         + + + +      V         +   +  +    
Sbjct: 494 QVTHGDLVIARTSENIEDVMKTIVYLGNDNAVTGGHAAVYSHNQNPKYMSYVFNGASYFI 553

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
            +   +  G  +       +  I +P+P +  Q  +   +      I+ +     + IEL
Sbjct: 554 NQKNKLARGVKVIEISTTDMNKIKIPLPSIFVQEHVVSILDKFDALINNISEGLPKEIEL 613

Query: 195 LKEKKQALVSYIVTK 209
            +++ +    +++  
Sbjct: 614 RQKQYEYYREHLLNF 628



 Score = 53.3 bits (126), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 15/158 (9%), Positives = 49/158 (31%), Gaps = 14/158 (8%)

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
           GN         +    +       +  GE       + N  +S        +  + +   
Sbjct: 42  GNYPYYGANGILDYVNDYIFDGVFLLMGE----DGSVINKDKSPVLHWAEGKIWVNNHAH 97

Query: 322 A--VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
                   +   ++ + + + D+  +      G    +  + ++ + + +P ++ Q  I 
Sbjct: 98  VLAENKEIVLLRFVYFFLTTTDVSTIVR----GTPPKINQQSLRSIQIPIPSLETQEKIV 153

Query: 380 NVINVETARIDVLVEKIEQSIVLLKE----RRSSFIAA 413
            +++  T  +  L  K+   +    +     R   ++ 
Sbjct: 154 KILDQFTNYVTELQVKLRTELQARTKQYNYYRDMLLSE 191


>gi|171920127|ref|ZP_02931536.1| type I restriction enzyme S protein [Ureaplasma parvum serovar 1
           str. ATCC 27813]
 gi|171902492|gb|EDT48781.1| type I restriction enzyme S protein [Ureaplasma parvum serovar 1
           str. ATCC 27813]
          Length = 299

 Score = 75.6 bits (184), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 29/198 (14%), Positives = 71/198 (35%), Gaps = 9/198 (4%)

Query: 229 PDHWEVKPFFAL---VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI 285
           P++W       +   ++  + K++K   S I  +   +   K    N  +  E  E +  
Sbjct: 33  PNNWIWVKLNNISNVISGYSFKSSKYTSSGIRIIRISDFDSKEVDNNEPIFYEYNEKFNS 92

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV 345
                                  +      +      ++   ++  Y+ +L+ +  +  +
Sbjct: 93  YKIENNDIILAMTGGTVGKNIIIKKANDYYLNQRVARIRTFNVNYNYIYYLINTTYIQGL 152

Query: 346 FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
                +    ++  +D+  L + +PP+ EQ  I + IN+    I    ++IEQ +  L+ 
Sbjct: 153 INDSKNSTNDNISLKDINNLLIPLPPLDEQQRIVDKINLLEFFIKQY-DEIEQKLSKLEN 211

Query: 406 -----RRSSFIAAAVTGQ 418
                 + S +  A+ G+
Sbjct: 212 EFPEKLKKSVLQYAMQGK 229



 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 41/266 (15%), Positives = 82/266 (30%), Gaps = 6/266 (2%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           IP +W  V +   + + +G + +S K     I  I + D +S                 +
Sbjct: 32  IPNNWIWVKLNNISNVISGYSFKSSKYTSSGIRIIRISDFDSKEVDNNEPIFYEYNEKFN 91

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL-LSIDVTQ 135
           +  I     I+    G  + K II            V + +         +  ++    Q
Sbjct: 92  SYKI-ENNDIILAMTGGTVGKNIIIKKANDYYLNQRVARIRTFNVNYNYIYYLINTTYIQ 150

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            +    + +T  +   K I N+ +P+PPL EQ  I +KI      I        +  +L 
Sbjct: 151 GLINDSKNSTNDNISLKDINNLLIPLPPLDEQQRIVDKINLLEFFIKQYDEIEQKLSKLE 210

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
            E  + L   ++   +   +  +D   + +  +      +          +K        
Sbjct: 211 NEFPEKLKKSVLQYAMQGKLIKQDPNDDSIKDLLKQIHKEKQKLYKEGKLKKKDLEESII 270

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYE 281
             S       +        LK   + 
Sbjct: 271 YKSDDKSYYEKIGNNEPKKLKNLPFN 296


>gi|320177259|gb|EFW52266.1| Type I restriction-modification system, specificity subunit S
           [Shigella dysenteriae CDC 74-1112]
          Length = 360

 Score = 75.6 bits (184), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 55/386 (14%), Positives = 118/386 (30%), Gaps = 41/386 (10%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
           V +     ++ G+  ++         + V +G+       G     D    ++ +   I+
Sbjct: 6   VKLGDVINVHYGKALKAD--------QRVSNGSVHVFGSSGIVGNHD---KTLCSYPTII 54

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMS 147
            G+ G             I  T + V        +L   +L  I     +       ++ 
Sbjct: 55  IGRKGSVGAITWAPSGGWIIDTAYYVEI--KDNNKLDLRYLFYILSGIDLTKKTITTSIP 112

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
             +   + +  + +PP  EQ  I + +  +   I     + I+  +       A +    
Sbjct: 113 GLNRDDLYDTFIKLPPFEEQKRIVDLLD-KAEGIRQKREQSIKLADDFLRATFATM---- 167

Query: 208 TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK 267
               NP    K   +  +G + +                K+  + E     +    I   
Sbjct: 168 --YGNPITNPKKWPVHLMGEIIEFK--------GGNQPPKSDFIFEPKQGYIRLVQIRDF 217

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
              +     P+      I +  +++            +        G    A M   P  
Sbjct: 218 KSDKYATYIPQEKAKR-IFEVDDVMIARYGPP-----VFQILRGLSGSYNVALMKASPKE 271

Query: 328 IDSTYL-AWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
                   +L++  +   V       +  +  +  E + +  V +PPI  Q +I + +  
Sbjct: 272 NIRKGFIFYLLQLPEYHDVVVKNSERTAGQTGVNLELLNKFNVPLPPIYYQDEILDRL-- 329

Query: 385 ETARIDVLVEKIEQSIVLLKERRSSF 410
             ARI+   EKIE S+  L+ +  S 
Sbjct: 330 --ARIEKFKEKIEISLNHLEIQFLSL 353



 Score = 42.9 bits (99), Expect = 0.11,   Method: Composition-based stats.
 Identities = 22/185 (11%), Positives = 57/185 (30%), Gaps = 4/185 (2%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVE-SGTGKYLPKDGNSRQSDTSTVSI 80
           PK W V  +    +   G        I       +       +      +         I
Sbjct: 175 PKKWPVHLMGEIIEFKGGNQPPKSDFIFEPKQGYIRLVQIRDFKSDKYATYIPQEKAKRI 234

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR--IE 138
           F    ++  + GP + +  +    G  +   +   PK+ + +    +LL +       ++
Sbjct: 235 FEVDDVMIARYGPPVFQI-LRGLSGSYNVALMKASPKENIRKGFIFYLLQLPEYHDVVVK 293

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
                A  +  + + +    +P+PP+  Q  I +++       + +              
Sbjct: 294 NSERTAGQTGVNLELLNKFNVPLPPIYYQDEILDRLARIEKFKEKIEISLNHLEIQFLSL 353

Query: 199 KQALV 203
           ++ L+
Sbjct: 354 QKRLM 358


>gi|90961893|ref|YP_535809.1| Type I restriction-modification system specificity subunit
           [Lactobacillus salivarius UCC118]
 gi|90821087|gb|ABD99726.1| Type I restriction-modification system specificity subunit
           [Lactobacillus salivarius UCC118]
          Length = 372

 Score = 75.6 bits (184), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 60/375 (16%), Positives = 117/375 (31%), Gaps = 46/375 (12%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+   +    K+N+GR  +            + SG+       G           +    
Sbjct: 23  WERKELNNILKINSGRDYKQ-----------LNSGSIPVYGTGGYMLSV---NDKLSDTD 68

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            +  G+ G   +   +        T F     ++   + +      I+  +  E+     
Sbjct: 69  AVGIGRKGTIDKPLYLKAPFWTVDTLFYCTSKENSDVKFIYLLFQIINWKRYDES----T 124

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
            +       I NI   +P + EQ    + I      +D  +    R  E L   K+AL+ 
Sbjct: 125 GVPSLSKNTISNIKTYVPKIKEQ----DYISKLFFSLDNTLQLHERKYEELTLIKKALLQ 180

Query: 205 YIVT--KGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
            +     G  P+V+ K+    W          +     +   + K  K I     +    
Sbjct: 181 KLFPKKDGFKPEVRYKNFNDAWEQRKLGEVVERFDNLRIPVTSSKREKGITPYYGANGIQ 240

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
           + +Q                      GE V    D  ND ++     V  +  + +    
Sbjct: 241 DYVQGYT-----------------HDGEFVLVAEDGANDLQNYPVHYVNGKVWVNNHAHV 283

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
           ++        L +L+ +    K+   +  G R  L  + + +LP+ VP   EQ  +    
Sbjct: 284 LQGKNKMVDNL-FLVNAIKQIKIETYLVGGSRAKLNADVMMKLPIKVPTFNEQQRLGKY- 341

Query: 383 NVETARIDVLVEKIE 397
               AR+D L+   +
Sbjct: 342 ---FARLDSLITLHQ 353



 Score = 61.3 bits (147), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 15/104 (14%), Positives = 34/104 (32%), Gaps = 7/104 (6%)

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
               + + +        D  ++  L +  +  +      S    SL    +  +   VP 
Sbjct: 87  PFWTVDTLFYCTSKENSDVKFIYLLFQIINWKRYDE---STGVPSLSKNTISNIKTYVPK 143

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           IKEQ    + I+     +D  ++  E+    L   + + +    
Sbjct: 144 IKEQ----DYISKLFFSLDNTLQLHERKYEELTLIKKALLQKLF 183


>gi|34540359|ref|NP_904838.1| hypothetical protein PG0545 [Porphyromonas gingivalis W83]
 gi|34396671|gb|AAQ65737.1| hypothetical protein PG_0545 [Porphyromonas gingivalis W83]
          Length = 701

 Score = 75.6 bits (184), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 52/397 (13%), Positives = 129/397 (32%), Gaps = 27/397 (6%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQS-DTSTVSIFAKG 84
           KVV  K    +N G  S+SG  + ++ + +++             R   D +  +   + 
Sbjct: 38  KVVR-KGIFNVNAGNFSDSG--VPFVRISNLKGMKINTTDIVCIPRAIHDDNHKTALVRN 94

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQ--PKDVLPELLQGWLLSIDVTQRIEAICE 142
            I+  K        +  D          V       +    L  +L +    ++++    
Sbjct: 95  DIILSKTAIPAASIVSIDECNTSQDTVAVKLALNSKLNSPYLVTFLNTKYGMEQMKKRFS 154

Query: 143 GATMSHADWKGIGN-IPMPIPPLAEQVLIREKIIAETVRIDTLITER-----IRFIELLK 196
           G    H +     N + +P+     Q+ ++E       +    I+            L  
Sbjct: 155 GNVQMHLNLDECRNELLVPVLSAEIQMQVKELFELSMQKSTEGISLYSSAESYLLACLGM 214

Query: 197 EKKQALVSYIVTKGL----------NPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
           +   A +     K L          + +  +         +      V P   + T  + 
Sbjct: 215 QDFVANIDAYNVKTLKESFLESGRIDAEYYLPKYEDYINAVSAYTGGVAPLGEVCTIKDS 274

Query: 247 KNTKLIESNILSLSYGNIIQKLETR---NMGLKPESYETYQIVDPGEIVFRFIDLQNDKR 303
             T   +     +   NI +  +         +       +IV  G+++   I+      
Sbjct: 275 NYTPECDMKYRYIELANIGKSGDITGCLYENGEDLPTRARRIVTQGDVIVSSIEGSLSSC 334

Query: 304 SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDV 362
           +L +    ++ + ++ +  V+ + I+   L  L +S  + ++     SG     +  ++ 
Sbjct: 335 ALIT-DDYDQSLCSTGFYVVRSNQINPETLLTLFKSLPIQQLLKKACSGTILTGIGKQEF 393

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
           +++P+ +   + Q +I   +    A      E +E++
Sbjct: 394 EKIPIPLIRPEVQEEIAQHVQRSFALRKEASELLEKA 430



 Score = 65.2 bits (157), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 63/441 (14%), Positives = 137/441 (31%), Gaps = 70/441 (15%)

Query: 27  VVPIKRFTKLN-TGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           V P+     +  +  T E      YI L ++            N     T    I  +G 
Sbjct: 262 VAPLGEVCTIKDSNYTPECDMKYRYIELANIGKSGDITGCLYENGEDLPTRARRIVTQGD 321

Query: 86  ILYGKL-GPYLRKAIIADFD--GICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           ++   + G     A+I D     +CST F V++   + PE L     S+ + Q ++  C 
Sbjct: 322 VIVSSIEGSLSSCALITDDYDQSLCSTGFYVVRSNQINPETLLTLFKSLPIQQLLKKACS 381

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT-----LITERIRFIELLKE 197
           G  ++    +    IP+P+     Q  I + +                 +      +   
Sbjct: 382 GTILTGIGKQEFEKIPIPLIRPEVQEEIAQHVQRSFALRKEASELLEKAKLSVEYAIETG 441

Query: 198 KKQALV------SYIVTKGLNPDVKMKDSGI----------------------------- 222
              +L+      +    + L   + +K+ GI                             
Sbjct: 442 GGNSLIYSGLLNTLAKYERLAMWLLLKELGIVDESPNRQRVVTTEKRLSESFFTSGRLDA 501

Query: 223 -------EWVGLVPDHWEVKPFFALVTELNR---KNTKLIESNILSLSYGNIIQ-KLETR 271
                  +++         K    +V         +    E+ I  +   ++ +  +ET 
Sbjct: 502 EYYQPKYDYLDAQFSSIPTKRLGDIVNIHKSIEPGSDAYQENGIPFVRVADLSKFGIETS 561

Query: 272 NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP---HGI 328
           ++ L   +Y T        I+            +      +  IITS  +         +
Sbjct: 562 SICLDSSTYSTAPRPRKNTILLSKDGS----VGIAYKMEEDADIITSGAILHLSMKGKEL 617

Query: 329 DSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET- 386
              YL  ++ S  +         G + Q  K  ++ ++ + + P+  Q  ++++++    
Sbjct: 618 LPDYLTLVLNSPIVRMQAERDAGGSIIQHWKPSEISQVIIPMLPVYIQQKLSDLVSKSFA 677

Query: 387 ------ARIDVLVEKIEQSIV 401
                 A ++     +EQ+I 
Sbjct: 678 FRRESKALLERAKAMVEQAIE 698


>gi|223938811|ref|ZP_03630699.1| N-6 DNA methylase [bacterium Ellin514]
 gi|223892509|gb|EEF58982.1| N-6 DNA methylase [bacterium Ellin514]
          Length = 811

 Score = 75.6 bits (184), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 56/387 (14%), Positives = 104/387 (26%), Gaps = 52/387 (13%)

Query: 27  VVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQI 86
           VV +K    L  G  S +            ++  G Y           +S   I   G+ 
Sbjct: 448 VVRLKDVCSLTKGTHSST------------KTQRGPYPLIVTAKEPLSSSDYEI--DGEA 493

Query: 87  LYGKL-------GPYLRKAIIADFDGICSTQFLVLQPKDVLP-ELLQGWLLSIDVTQRIE 138
           +   +          L +   A      +    VLQPKD         +L+      ++ 
Sbjct: 494 VCVPMISSTGHGRATLSRIHFASGKFAVANLLAVLQPKDADVLITRFLYLVLDLQKDKVA 553

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
            + +GA       + +    +P+P LA Q  I                       L  E 
Sbjct: 554 ELMKGAANVSMKVEDLAEFQIPLPSLATQKEIV----------------------LEIEG 591

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
            Q +++      L+          +W     D                       + + +
Sbjct: 592 YQKVINGA-RAVLDHYRPHITIHPDWPICCLDDVASLRSGTTPDTTRGDYYVGDVNFVKT 650

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
               N I      ++  +        +   G ++         +  +    V      T 
Sbjct: 651 SEINNCIINSSVTHISREAVRDYGLTVFPKGTVLMAMYGQGKTRGQVAYLNVP--ACTTQ 708

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFD 377
              A+ P+      L   +            G  G    L    +K   + +PP+  Q  
Sbjct: 709 NAAAITPNEC-VEPLYLYLYFLGQYDRLRKHGIDGHISHLNLTYLKTFEIPLPPLATQQA 767

Query: 378 ITNVINVETARI---DVLVEKIEQSIV 401
           I + I  E A +     L+ + E+ I 
Sbjct: 768 IVSEIEAEQALVAANRELITRFEKKIQ 794



 Score = 60.2 bits (144), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 34/197 (17%), Positives = 72/197 (36%), Gaps = 13/197 (6%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
            W +  +     L +G T ++ +      D+ ++   ++ +          +        
Sbjct: 615 DWPICCLDDVASLRSGTTPDTTRGDYYVGDVNFVKTSEINNCIINSSVTHISREAVRDYG 674

Query: 78  VSIFAKGQILYGKLGP--YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
           +++F KG +L    G      +    +     +     + P + + E L  +L  +    
Sbjct: 675 LTVFPKGTVLMAMYGQGKTRGQVAYLNVPACTTQNAAAITPNECV-EPLYLYLYFLGQYD 733

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
           R+        +SH +   +    +P+PPLA Q  I  +I AE   +          I   
Sbjct: 734 RLRKHGIDGHISHLNLTYLKTFEIPLPPLATQQAIVSEIEAEQALVAA----NRELITRF 789

Query: 196 KEKKQALVSYIVTKGLN 212
           ++K QA ++ I  +G N
Sbjct: 790 EKKIQATLARIWGEGDN 806


>gi|2581811|gb|AAC25973.1| specificity (S) subunit homolog [Mycoplasma pulmonis]
          Length = 369

 Score = 75.6 bits (184), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 44/365 (12%), Positives = 108/365 (29%), Gaps = 19/365 (5%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDII-YIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           ++  + +   L  G++  + K +   IG+ ++ S   K     G     D +        
Sbjct: 2   EIYKLGQILNLEKGKSKYNAKYVSQNIGIYNLYSSKTKDQGIFGKINSYDFNGEY----- 56

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            IL    G Y       +     ++   +L+  + + +      L +   +    +  G+
Sbjct: 57  -ILITTHGAYAGTVKYINEKFSTTSNCFILKVDENIAKTKFLSYLLLLQEKTFNDMAIGS 115

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
              +     I +  + +P L  Q  I + I  +               E   +K  +++ 
Sbjct: 116 RYGYLKNYNINDFEVNLPNLKIQSAIIKIIEPKEDLFFRHKNLVRIDSEENTKKDLSILI 175

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
            I+   L   +   D  I        H+    F                  I  +  G I
Sbjct: 176 KIIEP-LEKQINAFDELILSEQKSLQHYLNYFFGKFYQIEPSLFHDYKLEKIAKIRRGKI 234

Query: 265 IQKLETRNM---------GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
           I   + +             K      Y      +  +  I               +  I
Sbjct: 235 INSFDLKENPGDYPVISSNTKNNGIFGYLNSYMYDGEYITISADGAYAGTVFLNNGKFSI 294

Query: 316 ITSAYMAVKPHGID--STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
               ++ +    ++  + +L + ++  +      ++    R S++   +  + + +P ++
Sbjct: 295 TNVCFILLLNDKVNLLTKFLFYYLKKNENIIQKKSIVGSSRPSVREYTLSEIAIKIPSLE 354

Query: 374 EQFDI 378
            Q  I
Sbjct: 355 IQSAI 359


>gi|240016162|ref|ZP_04722702.1| Type I restriction-modification system specificity determinant
           [Neisseria gonorrhoeae FA6140]
          Length = 411

 Score = 75.6 bits (184), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 49/395 (12%), Positives = 102/395 (25%), Gaps = 25/395 (6%)

Query: 26  KVVPIKRF------TKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           +  P+         TK+  G+  E  KD   + +      T   +  D      D     
Sbjct: 20  EWKPLGEVLVRTKGTKITAGQMKEMHKDNAPLKIFAG-GKTFALVDFD------DVPDKD 72

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           I  +  I+    G    +    D       +       +    +   +            
Sbjct: 73  IHREPSIIVKSRGII--EFEYYDKPFSHKNEMWSYHSVNKHIYIKYVYYFLKTQENYFRN 130

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
           I     M         N  +PIP L  Q  I + +   T    TL       +E     +
Sbjct: 131 IGSKMQMPQIATPDTDNYKIPIPSLETQQKIVKILDKFTELEATLEATLEATLEAELALR 190

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
           +    Y     L+ D ++     +       +   K    +      +      +    +
Sbjct: 191 KRQYRYYRDLLLDFDNQIGGGIADGYQCRLKNVVWKTLGEVAEYSKNRICSDKLNEHNYV 250

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
              N++Q  E + +     S          +I+   I     K           G +   
Sbjct: 251 GVDNLLQNREGKKLSGYVPSEGKMTEYIVNDILIGNIRPYLKKIWQADCTGGTNGDV--L 308

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDI 378
            + V    ++  YL  ++              G          + +  + +PP+ EQ  I
Sbjct: 309 VIRVTDEKVNPKYLYQVLADDKFFAFNMKHAKGAKMPRGSKAAIMQYKIPIPPLPEQEKI 368

Query: 379 TNVINVETARIDVL-------VEKIEQSIVLLKER 406
             ++         +       +    +     +E+
Sbjct: 369 VAILGKFDTLTHSVSEGLPHEIALRRKQYEYYREQ 403



 Score = 55.2 bits (131), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/127 (11%), Positives = 42/127 (33%), Gaps = 5/127 (3%)

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP--HGIDSTYLAWLMRSYDLC 343
           V   +I      +   +  +      +     +   +       I   Y+ + +++ +  
Sbjct: 68  VPDKDIHREPSIIVKSRGIIEFEYYDKPFSHKNEMWSYHSVNKHIYIKYVYYFLKTQE-- 125

Query: 344 KVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
             F  +GS ++   +   D     + +P ++ Q  I  +++  T     L   +E ++  
Sbjct: 126 NYFRNIGSKMQMPQIATPDTDNYKIPIPSLETQQKIVKILDKFTELEATLEATLEATLEA 185

Query: 403 LKERRSS 409
               R  
Sbjct: 186 ELALRKR 192


>gi|329118871|ref|ZP_08247567.1| type I site-specific deoxyribonuclease [Neisseria bacilliformis
           ATCC BAA-1200]
 gi|327465062|gb|EGF11351.1| type I site-specific deoxyribonuclease [Neisseria bacilliformis
           ATCC BAA-1200]
          Length = 484

 Score = 75.6 bits (184), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 64/467 (13%), Positives = 126/467 (26%), Gaps = 75/467 (16%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVES-GTGKYLP------------- 65
            +P  W+ + +    K+  G+T      +  I   D+ S  TGK+               
Sbjct: 11  KLPSGWQFIRLGDIAKI-NGKTLTKKSALTDIRYIDISSTSTGKFEEPTLIKIEDAPSRA 69

Query: 66  -----KDGNSRQSDTSTVSIF----AKGQILYGKLGPYLRKA----IIADFDGICSTQFL 112
                 +     +    +  F      G  L    G  +  A    +      + ++   
Sbjct: 70  KRTLTNNDIIISTVRPNLKQFAFIEEAGSNLIASTGFCVISADSEKLAWYLYALITSDIF 129

Query: 113 VLQPKDVLPELLQGWLLSIDVTQ---------------------RIEAICEGATMSHADW 151
                 V           I++                         +      T    + 
Sbjct: 130 TAHLVAVADGAAYPAFNPIEIEDAVIALPPENYLDVIVDVTRAIHKKIHLNTQTNQTLEQ 189

Query: 152 KGIGNIPMPIPPLAEQVLIREKI-------IAETVRIDTLITERIRFIELLKEKKQALVS 204
                                 +        AET  +  L       +  L  +  A   
Sbjct: 190 TAQALYKSWFVDFEPTRAKAAVLAAGGSQEEAETAAMSALSGHPPAALAALARQNPARHQ 249

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE-----SNILSL 259
            + T  L          I+  G VP  WEVK    +   +  K+ K  E     + +++L
Sbjct: 250 QLAT--LAAAFPSALVSIDSYGEVPAGWEVKKVGDIAKVIKGKSYKSSELESSKTALVTL 307

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQ------NDKRSLRSAQVMER 313
              N         +     +Y+  Q V  G+++  + D+            + S    E 
Sbjct: 308 KSFNRGGGYRLDGLKEYTGTYKPEQEVFAGDLIIAYTDVTQAADVIGKPAMVMSDNRYEH 367

Query: 314 GIITSAYMAVKPHGIDSTYLAWLM-RSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPP 371
            II+     V+P+     Y  + M  +        +  +G     L  + V    + VP 
Sbjct: 368 LIISLDVGVVRPNNSVYKYFLYCMAMTVAFQAHTQSFCTGTTVLHLGKDAVPSFEIAVPN 427

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
                    +     A+I+  +    +  V L+  R + +   + G+
Sbjct: 428 EFLLKKFAEISESIFAKINENI----KQSVRLQNVRDTLLPKLLNGE 470



 Score = 71.4 bits (173), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 27/201 (13%), Positives = 59/201 (29%), Gaps = 16/201 (7%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSESGKDIIY----IGLEDVESGTGKYLPKDGNSRQSD 74
           G +P  W+V  +    K+  G++ +S +        + L+    G G Y           
Sbjct: 269 GEVPAGWEVKKVGDIAKVIKGKSYKSSELESSKTALVTLKSFNRGGG-YRLDGLKEYTGT 327

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFL-----------VLQPKDVLPEL 123
                    G ++           +I     + S               V     V    
Sbjct: 328 YKPEQEVFAGDLIIAYTDVTQAADVIGKPAMVMSDNRYEHLIISLDVGVVRPNNSVYKYF 387

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           L    +++      ++ C G T+ H     + +  + +P         E   +   +I+ 
Sbjct: 388 LYCMAMTVAFQAHTQSFCTGTTVLHLGKDAVPSFEIAVPNEFLLKKFAEISESIFAKINE 447

Query: 184 LITERIRFIELLKEKKQALVS 204
            I + +R   +       L++
Sbjct: 448 NIKQSVRLQNVRDTLLPKLLN 468


>gi|237751855|ref|ZP_04582335.1| restriction modification system DNA specificity subunit
           [Helicobacter winghamensis ATCC BAA-430]
 gi|229376753|gb|EEO26844.1| restriction modification system DNA specificity subunit
           [Helicobacter winghamensis ATCC BAA-430]
          Length = 203

 Score = 75.6 bits (184), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 17/156 (10%), Positives = 57/156 (36%), Gaps = 8/156 (5%)

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDL-----QNDKRSLRSAQ 309
            I+ +             +           ++  G+I+                 +   +
Sbjct: 42  PIIKIKNVANGDVNLNDVVFYPYSKQLEKFLIKYGDILVSLTGNHPQAQSQVVGQISKYK 101

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPV 367
             +  ++      +     +  +L +L+++  +  +  +  SG   + ++  +D++ L +
Sbjct: 102 YKQFALLNQRVAKIVTKDAEQDFLYYLLKTNKIHNILASHSSGSANQANISSKDIENLTI 161

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
            +PP+  Q  I  +++    +ID L+ +  +++  L
Sbjct: 162 PLPPLTIQQKIAEILSSFDDKID-LLHRQNKTLESL 196



 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 30/190 (15%), Positives = 64/190 (33%), Gaps = 19/190 (10%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGK--------DIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           + W+ V +    ++  G   +S +         +  I +++V +G               
Sbjct: 8   EQWQEVRLGEVAEIVNGYAFKSKEFLNIQQRDSLPIIKIKNVANGDVNLNDVVFYPYSKQ 67

Query: 75  TSTVSIFAKGQILYGKLGPYLRK---------AIIADFDGICSTQFLVLQPKDVLPELLQ 125
                +   G IL    G + +                  + + +   +  KD   + L 
Sbjct: 68  LEK-FLIKYGDILVSLTGNHPQAQSQVVGQISKYKYKQFALLNQRVAKIVTKDAEQDFLY 126

Query: 126 GWLLSIDVTQRIEAICEGA-TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
             L +  +   + +   G+   ++   K I N+ +P+PPL  Q  I E + +   +ID L
Sbjct: 127 YLLKTNKIHNILASHSSGSANQANISSKDIENLTIPLPPLTIQQKIAEILSSFDDKIDLL 186

Query: 185 ITERIRFIEL 194
             +      L
Sbjct: 187 HRQNKTLESL 196


>gi|209554488|ref|YP_002284453.1| restriction-modification enzyme subunit s3a [Ureaplasma urealyticum
           serovar 10 str. ATCC 33699]
 gi|209541989|gb|ACI60218.1| restriction-modification enzyme subunit s3a [Ureaplasma urealyticum
           serovar 10 str. ATCC 33699]
          Length = 372

 Score = 75.6 bits (184), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 55/393 (13%), Positives = 122/393 (31%), Gaps = 43/393 (10%)

Query: 32  RFTKLNTGRTSESGKD----------IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
             +++ +GR  ++ K+          I ++ ++++ + +     +  N  +   S V + 
Sbjct: 10  DISEIISGRGPKNVKNLQDFASQHGKINWLLVKNLINNSINNDFEKYNLDEEKHSLVKL- 68

Query: 82  AKGQILYGKLGPYLRKAIIADFDG-ICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
            K +++Y         AI   +D    +  F  + P + +      +   I       ++
Sbjct: 69  NKNELVYSMYATPGIVAINEFYDNLYINQSFCKIIPNENICLKKFLFYWLIKNKNYALSL 128

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
             G T S+ +   I N  + +PP+ EQ  I   I      I   I      I L  EK  
Sbjct: 129 SSGTTQSNLNINKIRNFVIYLPPIEEQNAIISIIEPLEKSI-KTINLLQTKIGLFIEKTF 187

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
             ++  +      +  +KD      GL                            I    
Sbjct: 188 NFINNNLANADLIEFSLKDLLNIKRGLP---------------------------ITEKD 220

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
             N        +   K      Y      +     I +  +   +               
Sbjct: 221 LLNNPGNYPLISASSKNNGIFGYFNDYMYDGKNITISMNGNAGCIFYQIGKFSANSDVLV 280

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
           ++     + +    + +      ++        R  L    +++  VL+P ++ Q + + 
Sbjct: 281 LSNSNKNLTNIDYIYYLLKTKEKEIQNLAIGTTRFRLGNSVIEKFKVLLPNMEIQKEFSK 340

Query: 381 VINVETARIDVLVEKIEQSIV--LLKERRSSFI 411
           ++      +   V KIE+++   LLK  +   I
Sbjct: 341 IVEPLL-NLSTKVNKIEKNLNECLLKIVKKLII 372


>gi|57505322|ref|ZP_00371251.1| anti-codon nuclease masking agent (prrB) [Campylobacter upsaliensis
           RM3195]
 gi|57016458|gb|EAL53243.1| anti-codon nuclease masking agent (prrB) [Campylobacter upsaliensis
           RM3195]
          Length = 396

 Score = 75.6 bits (184), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 47/400 (11%), Positives = 118/400 (29%), Gaps = 37/400 (9%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           P   +   +    +    +  +S             +G   +   + +    D       
Sbjct: 20  PNGVEFKELGELWE----KAPKSKMGANQAKNLSKNNGNICFTSGETHYFIDDY-----L 70

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
             G+ L+  L       I  +      T  +       +      + L        +   
Sbjct: 71  VDGEFLF--LNDGGTADIKYNSGKAYYTDHIFAFTSQKICVKFLYYFLKDKQEAINKTCF 128

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
           +G  + +     I   P+P+PPL  Q  I E + A T     L  E    +E   ++ + 
Sbjct: 129 QGTGLKNLQKNKIEKFPIPLPPLEIQYKIVEILDAFTELEAELEAELEAELETRLKQYEY 188

Query: 202 LVSYIVTKGLNPDVKMKDSGI---EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
             +++++     +   K + I   + +G +          A   +   K      + I  
Sbjct: 189 YRNFLLSYDELENRTAKLNEILKFKTLGELGIRNAGTKITAHQMQALHK----ENAPIRI 244

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
            + G+ I  ++ R+             +   +++ +   +   +  +      +     S
Sbjct: 245 FAGGSTIADVDYRD-------------LPKKDVIDKPSIICKVRGYIGFEYYDKPFSHKS 291

Query: 319 AYMAVKPHGIDSTYLAWLM--RSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
            + +       +    +       +  +      S     LK ++     + +PP+  Q 
Sbjct: 292 EFWSYTIEKNANQKFIYYFLVNQQEYFQQIAKANSVKIPQLKVKNTDNFQIPLPPLAVQN 351

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           +I  +++      + L   I   I   K+     R   ++
Sbjct: 352 EIVEILDKFDTLTNDLTNGIPAEIEARKKQYEYYRERLLS 391


>gi|299144867|ref|ZP_07037935.1| putative type I restriction enzyme S protein [Bacteroides sp.
           3_1_23]
 gi|298515358|gb|EFI39239.1| putative type I restriction enzyme S protein [Bacteroides sp.
           3_1_23]
          Length = 420

 Score = 75.6 bits (184), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 53/416 (12%), Positives = 120/416 (28%), Gaps = 29/416 (6%)

Query: 31  KRFTKLNTGRTSESG---KDIIYIGLEDVESGTGKYLPKDGNSRQS-----DTSTVSIFA 82
                +  G +        +  YI L            K+  S+ +     D  +  +  
Sbjct: 2   GEILDVTRGASLSGEYYATEGEYIRLTCGNFDYQNNCFKENKSKDNLYYVGDFKSEFLME 61

Query: 83  KGQIL-------YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
           +G I+        G LG          +        ++ +   +  +     + S  V Q
Sbjct: 62  EGDIITPLTEQAIGLLGSTAIIPESGKYIQSQDVAKIICKEDLLDKDFAFYLISSALVKQ 121

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
           ++ A  +   + H     I +  + IP L+EQ  I + + +   +I+           ++
Sbjct: 122 QLSAAAQQTKIRHTSPDKIKDCTVWIPELSEQKRIGKLLRSIDRKIELNRAINQNLEAMM 181

Query: 196 KEKKQALVSYI--VTKGLNPDVK---MKDSGIEWVGLVPDHWEVKPFFALVTELNR---K 247
           K            + +G  P            E    +P  W            +    K
Sbjct: 182 KLLYDYWFVQFDFLNEGGKPYKASGGKMVWNEELKREIPQGWGNMSIGDYAPCKSGYAFK 241

Query: 248 NTKLIESNILSLSYGNIIQKLETR--NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
           +       +  +  GNI +       +        +T  +    ++V         K ++
Sbjct: 242 SKDFGCKGLPVIKIGNIQENYTLDMADSQCIDLFNKTLFLAKRYDLVIAMTGATIGKFAI 301

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRL 365
                     +    +   P          L + Y   ++F       + ++  E +  +
Sbjct: 302 SQRNYWVNQRVGRFDLGDSPLLRLGFLFNSLKQEYFREQIFQIACGCAQPNISGEQIDSI 361

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            +L P       + N  N     +  L  +    I  L ++R+  +   + GQ+ +
Sbjct: 362 LLLKPN----NTVLNQFNKICKSLLELQSENYLQIEELTKQRNELLPLLMNGQVSV 413



 Score = 46.3 bits (108), Expect = 0.010,   Method: Composition-based stats.
 Identities = 29/211 (13%), Positives = 63/211 (29%), Gaps = 14/211 (6%)

Query: 10  YKDSG--VQWIGA----IPKHWKVVPIKRFTKLNTGRTSESG----KDIIYIGLEDVESG 59
           YK SG  + W       IP+ W  + I  +    +G   +S     K +  I + +++  
Sbjct: 202 YKASGGKMVWNEELKREIPQGWGNMSIGDYAPCKSGYAFKSKDFGCKGLPVIKIGNIQEN 261

Query: 60  TGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVL---QP 116
                  D         T+ +  +  ++    G  + K  I+  +   + +         
Sbjct: 262 YT-LDMADSQCIDLFNKTLFLAKRYDLVIAMTGATIGKFAISQRNYWVNQRVGRFDLGDS 320

Query: 117 KDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIA 176
             +    L   L      ++I  I  G    +   + I +I +  P         +   +
Sbjct: 321 PLLRLGFLFNSLKQEYFREQIFQIACGCAQPNISGEQIDSILLLKPNNTVLNQFNKICKS 380

Query: 177 ETVRIDTLITERIRFIELLKEKKQALVSYIV 207
                     +     +   E    L++  V
Sbjct: 381 LLELQSENYLQIEELTKQRNELLPLLMNGQV 411


>gi|256617144|ref|ZP_05473990.1| conserved hypothetical protein [Enterococcus faecalis ATCC 4200]
 gi|256596671|gb|EEU15847.1| conserved hypothetical protein [Enterococcus faecalis ATCC 4200]
 gi|295113428|emb|CBL32065.1| Restriction endonuclease S subunits [Enterococcus sp. 7L76]
          Length = 186

 Score = 75.6 bits (184), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 20/120 (16%), Positives = 46/120 (38%), Gaps = 8/120 (6%)

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW-LMRSYDLCKVFYAMGSGL 353
            I  + +     S       I  ++ +        +    + ++ SY + K       G 
Sbjct: 71  TISARGEGTGTPSYVKAPVWITGNSMVINVEDFDINKKFLYAMLLSYSIKKYI---TGGA 127

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           +  L  + + ++P+++P   EQF I         ++D  +   ++ + LLKE +  F+  
Sbjct: 128 QPQLTRDVLLKVPIIIPSYNEQFKIGTF----FKQLDDTIALQQRKLDLLKETKKGFLQK 183



 Score = 41.7 bits (96), Expect = 0.23,   Method: Composition-based stats.
 Identities = 27/196 (13%), Positives = 55/196 (28%), Gaps = 26/196 (13%)

Query: 20  AIPK--------HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSR 71
            +P+         W+   +    K+    T    + +              Y     N  
Sbjct: 8   KVPEIRFPGFTGDWEQCKLGDIAKMYQPPTISGSELL-----------DTGYPVFGANGY 56

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
               S  +     Q+     G               +   +V+  +D        + + +
Sbjct: 57  IGFYSKSNHLE-DQVTISARGEGTGTPSYVKAPVWITGNSMVINVEDFDINKKFLYAMLL 115

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
                I+    G          +  +P+ IP   EQ  I         ++D  I  + R 
Sbjct: 116 SY--SIKKYITGGAQPQLTRDVLLKVPIIIPSYNEQFKIGTF----FKQLDDTIALQQRK 169

Query: 192 IELLKEKKQALVSYIV 207
           ++LLKE K+  +  + 
Sbjct: 170 LDLLKETKKGFLQKMF 185


>gi|324994848|gb|EGC26761.1| hypothetical protein HMPREF9392_1664 [Streptococcus sanguinis
           SK678]
          Length = 387

 Score = 75.2 bits (183), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 63/413 (15%), Positives = 130/413 (31%), Gaps = 46/413 (11%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            +WK V +    + N   T   G     I +E +E  T      +      +    + F 
Sbjct: 2   NNWKKVKLSDIIEFNPRETLSKGAIAKKIAMEKLEPFTRDIPEFEY----LEYRGGTKFR 57

Query: 83  KGQILYGKLGPYLRKAII-------ADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
            G  L  ++ P L             D  G  ST+F+V++ K+ + +    + L I  + 
Sbjct: 58  NGDTLMARITPSLENGKTSKVNLLDEDEVGFGSTEFIVVRAKENISDENFVYYLMIAPSI 117

Query: 136 R---IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           R   I+++   +         + N  +  PPL EQ+ I + + A   +I           
Sbjct: 118 REVAIKSMVGTSGRQRVQLDVVKNHEILCPPLKEQIRIGKILKALDDKI----------- 166

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
               E  + +  ++V    N       S    +G + +      F +       K    I
Sbjct: 167 ----ENNKKINHHLVAISKNYLKIFYSSNSIKLGDIFELKSGYAFKSKDWVDEGKPVIKI 222

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
           +           +  ++ ++   K  ++E    V   EIV         K  +       
Sbjct: 223 KDIDGITIDITNLNYVKNKSQLSKASNFE----VFGKEIVMALTGATTGKIGVIPKNF-- 276

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLM--RSYDLCKVFYAMGSGLRQSLKFEDVKR--LPVL 368
            G +             S  + W +  +   +  +        + +L    V    L V 
Sbjct: 277 NGYVNQRVGLFYAKTELSYAVLWSILQQQNIITDLIKLSSGSAQANLSPFSVNSYDLNVT 336

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
              + E       ++   + +  L       I  L + R + +   ++G++ +
Sbjct: 337 FKDLIE-------LDKVLSPLYELFCFNLSEIQRLSKLRDTLLPKLLSGELSV 382


>gi|261837871|gb|ACX97637.1| type I restriction enzyme S protein [Helicobacter pylori 51]
          Length = 365

 Score = 75.2 bits (183), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 58/408 (14%), Positives = 114/408 (27%), Gaps = 56/408 (13%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKD------IIYIGLEDVESGTGKYLPKDGNSRQ---S 73
             W+   +K   K+  G T  +         I +I  +D+ +  G Y+ K   S      
Sbjct: 2   SEWQTFCLKDLGKIVGGATPSTNNPKNYGNKIAWITPKDLSTLQGCYIKKGNRSISRLGF 61

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
            + +  +  K  IL+    P      IA      +  F  + P   +      + L    
Sbjct: 62  KSCSCVLLPKHAILFSSRAPI-GYVAIAKKRLCTNQGFKSIIPNKKI-YFEFLYYLLKYH 119

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPP-LAEQVLIREKIIAETVRIDTLITERIRFI 192
              I  I  G T        +G   + IPP   EQ  I   +     +I+          
Sbjct: 120 KDNISNIGGGTTFKEVSGATLGLFKVKIPPTYYEQQKIARTLSILDQKIENNHKINELL- 178

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
                                                 H      +    +   KN KL 
Sbjct: 179 --------------------------------------HTLAYKIYEYYFKYKPKNAKLE 200

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
           +  I +     +++  +         +     +  P  I+       N   +      + 
Sbjct: 201 QIIIENPKSSIMVKNAQKTQDKYLFFTSGDNILSYPQAIIDGRNCFLNTGGNADIKFYVG 260

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI 372
           +   ++    +  +   S YL  L+ S               + L+   +K+ P+ +P  
Sbjct: 261 KASYSTDTWCICANEF-SDYLYLLLSSIKTHINQSFFQGTSLKHLQKNLLKKYPIYMPSA 319

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQID 420
            E      +I         L+    ++   L++ R   +   +T Q+ 
Sbjct: 320 HEIKKFNQIIMPLL----TLISINTRTSKKLEQIRDFLLPLLLTQQVK 363


>gi|320185255|gb|EFW60032.1| Type I restriction-modification system, specificity subunit S
           [Shigella flexneri CDC 796-83]
          Length = 360

 Score = 75.2 bits (183), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 55/386 (14%), Positives = 118/386 (30%), Gaps = 41/386 (10%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
           V +     ++ G+  ++         + V +G+       G     D    ++ +   I+
Sbjct: 6   VKLGDVINVHYGKALKAD--------QRVSNGSVHVFGSSGIVGNHD---KTLCSYPTII 54

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMS 147
            G+ G             I  T + V        +L   +L  I     +       ++ 
Sbjct: 55  IGRKGSVGAITWAPSGGWIIDTAYYVEI--KDNNKLDLRYLFYILSGIDLTKKTITTSIP 112

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
             +   + +  + +PP  EQ  I + +  +   I     + I+  +       A +    
Sbjct: 113 GLNRDDLYDTFIKLPPFEEQKRIVDLLD-KAEGIRQKREQSIKLADDFLRATFATM---- 167

Query: 208 TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK 267
               NP    K   +  +G + +                K+  + E     +    I   
Sbjct: 168 --YGNPITNPKKWPVHLMGEIIEFK--------GGNQPPKSDFIFEPKQGYIRLVQIRDF 217

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
              +     P+      I +  +++            +        G    A M   P  
Sbjct: 218 KSDKYATYIPQEKAKR-IFEVDDVMIARYGPP-----VFQILRGLSGSYNVALMKASPKE 271

Query: 328 IDSTYL-AWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
                   +L++  +   V       +  +  +  E + +  V +PPI  Q +I + +  
Sbjct: 272 NIRKGFIFYLLQLPEYHDVVVKNSERTAGQTGVNLELLNKFNVPLPPIYYQDEILDRL-- 329

Query: 385 ETARIDVLVEKIEQSIVLLKERRSSF 410
             ARI+   EKIE S+  L+ +  S 
Sbjct: 330 --ARIEKFKEKIEISLNHLEIQFLSL 353



 Score = 43.2 bits (100), Expect = 0.072,   Method: Composition-based stats.
 Identities = 22/185 (11%), Positives = 57/185 (30%), Gaps = 4/185 (2%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVE-SGTGKYLPKDGNSRQSDTSTVSI 80
           PK W V  +    +   G        I       +       +      +         I
Sbjct: 175 PKKWPVHLMGEIIEFKGGNQPPKSDFIFEPKQGYIRLVQIRDFKSDKYATYIPQEKAKRI 234

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR--IE 138
           F    ++  + GP + +  +    G  +   +   PK+ + +    +LL +       ++
Sbjct: 235 FEVDDVMIARYGPPVFQI-LRGLSGSYNVALMKASPKENIRKGFIFYLLQLPEYHDVVVK 293

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
                A  +  + + +    +P+PP+  Q  I +++       + +              
Sbjct: 294 NSERTAGQTGVNLELLNKFNVPLPPIYYQDEILDRLARIEKFKEKIEISLNHLEIQFLSL 353

Query: 199 KQALV 203
           ++ L+
Sbjct: 354 QKRLI 358


>gi|257090553|ref|ZP_05584914.1| conserved hypothetical protein [Enterococcus faecalis CH188]
 gi|307290748|ref|ZP_07570647.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX0411]
 gi|312903691|ref|ZP_07762865.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX0635]
 gi|256999365|gb|EEU85885.1| conserved hypothetical protein [Enterococcus faecalis CH188]
 gi|306498196|gb|EFM67714.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX0411]
 gi|310632883|gb|EFQ16166.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX0635]
 gi|315030977|gb|EFT42909.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX4000]
 gi|315578705|gb|EFU90896.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX0630]
          Length = 198

 Score = 75.2 bits (183), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 21/120 (17%), Positives = 46/120 (38%), Gaps = 8/120 (6%)

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW-LMRSYDLCKVFYAMGSGL 353
            I  + +     S       I  ++ +        +    + ++ SY L K       G 
Sbjct: 83  TISARGEGTGTPSYVKAPVWITGNSMVINVEDFDINKKFLYAMLLSYSLKKYI---TGGA 139

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           +  L  + + ++P+++P   EQF I         ++D  +   ++ + LLKE +  F+  
Sbjct: 140 QPQLTRDVLLKVPIIIPSYNEQFKIGTF----FKQLDDTIALQQRKLDLLKETKKGFLQK 195



 Score = 41.3 bits (95), Expect = 0.30,   Method: Composition-based stats.
 Identities = 26/196 (13%), Positives = 55/196 (28%), Gaps = 26/196 (13%)

Query: 20  AIPK--------HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSR 71
            +P+         W+   +    K+    T    + +              Y     N  
Sbjct: 20  KVPEIRFPGFTGDWEQCKLGDIAKMYQPPTISGSELL-----------DTGYPVFGANGY 68

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
               S  +     Q+     G               +   +V+  +D        + + +
Sbjct: 69  IGFYSKSNHLE-DQVTISARGEGTGTPSYVKAPVWITGNSMVINVEDFDINKKFLYAMLL 127

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
                ++    G          +  +P+ IP   EQ  I         ++D  I  + R 
Sbjct: 128 SY--SLKKYITGGAQPQLTRDVLLKVPIIIPSYNEQFKIGTF----FKQLDDTIALQQRK 181

Query: 192 IELLKEKKQALVSYIV 207
           ++LLKE K+  +  + 
Sbjct: 182 LDLLKETKKGFLQKMF 197


>gi|187731881|ref|YP_001882947.1| putative type I restriction-modification system specificity subunit
           [Shigella boydii CDC 3083-94]
 gi|187428873|gb|ACD08147.1| putative type I restriction-modification system specificity subunit
           [Shigella boydii CDC 3083-94]
          Length = 360

 Score = 75.2 bits (183), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 56/386 (14%), Positives = 115/386 (29%), Gaps = 41/386 (10%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
           V +     ++ G+  ++         + V +G+       G     D    ++ +   I+
Sbjct: 6   VKLGDVINVHYGKALKAD--------QRVSNGSVHVFGSSGIVGNHD---KTLCSYPTII 54

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMS 147
            G+ G             I  T + V        +L   +L  I     +       ++ 
Sbjct: 55  IGRKGSVGAITWAPSGGWIIDTAYYVEI--KDNNKLDLRYLFYILSGIDLTKKTITTSIP 112

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
             +   + +  + +PP  EQ  I + +  +   I     + I+  +       A +    
Sbjct: 113 GLNRDDLYDTFIKLPPFEEQKRIVDLLD-KAEGIRQKREQSIKLADDFLRATFATM---- 167

Query: 208 TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK 267
               NP    K          P H               K+  + E     +    I   
Sbjct: 168 --YGNPITNPKKW--------PVHLMGDIIEFKGGNQPPKSDFIFEPKQGYIRLVQIRDF 217

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
              +     P+      I +  +++            +        G    A M   P  
Sbjct: 218 KSDKYATYIPQEKAKR-IFEVDDVMIARYGPP-----VFQILRGLSGSYNVALMKASPKE 271

Query: 328 IDSTYL-AWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
                   +L++  +   V       +  +  +  E + +  V +PPI  Q +I + +  
Sbjct: 272 NIRKGFIFYLLQLPEYHDVVVKNSERTAGQTGVNLELLNKFNVPLPPIYYQDEILDRL-- 329

Query: 385 ETARIDVLVEKIEQSIVLLKERRSSF 410
             ARI+   EKIE S+  L+ +  S 
Sbjct: 330 --ARIEKFKEKIEISLNHLEIQFLSL 353



 Score = 43.2 bits (100), Expect = 0.077,   Method: Composition-based stats.
 Identities = 22/185 (11%), Positives = 57/185 (30%), Gaps = 4/185 (2%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVE-SGTGKYLPKDGNSRQSDTSTVSI 80
           PK W V  +    +   G        I       +       +      +         I
Sbjct: 175 PKKWPVHLMGDIIEFKGGNQPPKSDFIFEPKQGYIRLVQIRDFKSDKYATYIPQEKAKRI 234

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR--IE 138
           F    ++  + GP + +  +    G  +   +   PK+ + +    +LL +       ++
Sbjct: 235 FEVDDVMIARYGPPVFQI-LRGLSGSYNVALMKASPKENIRKGFIFYLLQLPEYHDVVVK 293

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
                A  +  + + +    +P+PP+  Q  I +++       + +              
Sbjct: 294 NSERTAGQTGVNLELLNKFNVPLPPIYYQDEILDRLARIEKFKEKIEISLNHLEIQFLSL 353

Query: 199 KQALV 203
           ++ L+
Sbjct: 354 QKRLM 358


>gi|261367887|ref|ZP_05980770.1| type I restriction-modification enzyme, S subunit, EcoA family
           [Subdoligranulum variabile DSM 15176]
 gi|282570698|gb|EFB76233.1| type I restriction-modification enzyme, S subunit, EcoA family
           [Subdoligranulum variabile DSM 15176]
          Length = 380

 Score = 75.2 bits (183), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 42/354 (11%), Positives = 102/354 (28%), Gaps = 26/354 (7%)

Query: 73  SDTSTVSIFAKGQILYGKLGPYLR-----KAIIADFDGICSTQFLVLQPKDVLPELLQGW 127
            D     IF    +L  + G  L+      A IA      +    ++Q  +        +
Sbjct: 43  IDYVNDYIFDGTYLLIAEDGENLKSQKQNIAQIAKGKFWVNNHAHIVQTNERCD---LRY 99

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
           L  +  +  +     G+         +  + + +P + EQ      + A   +I+     
Sbjct: 100 LHYLINSMDLSGYITGSAQPKLSQANLNAVTLQLPIIDEQEKTVAILGALDDKIELNNKI 159

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK 247
                + +K     +         N     +   I      P                  
Sbjct: 160 NDNLQKQVKAIYHVMFVDTPNAARNTCRADECFDISIGKTPPRKEPEWF----------- 208

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
           +    +   +S+S           +     +       +    +V     L + K ++  
Sbjct: 209 SECSKDCVWVSISDMGASGLYIADSSEYLTQDAVQKFNIR---VVPDNTVLLSFKLTVGR 265

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
             + +  + T+  +A                            S +  ++  + +K +P 
Sbjct: 266 VAITDGEVTTNEAIAHFKTDKPEINEYLYCYLKAFNFETMGSTSSIATAVNSKIIKAMPF 325

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           ++P  KE        +   A    L+++ ++    L + R + +   ++G+IDL
Sbjct: 326 VIPDDKE----LEKFHAIAAPCFALIKENQRENKRLAKIRDNLLPKLMSGEIDL 375


>gi|307262545|ref|ZP_07544185.1| hypothetical protein appser12_20800 [Actinobacillus
           pleuropneumoniae serovar 12 str. 1096]
 gi|306867757|gb|EFM99593.1| hypothetical protein appser12_20800 [Actinobacillus
           pleuropneumoniae serovar 12 str. 1096]
          Length = 160

 Score = 75.2 bits (183), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 24/149 (16%), Positives = 45/149 (30%), Gaps = 1/149 (0%)

Query: 244 LNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKR 303
              +        I  L  G++   + T       E       V    +    I +     
Sbjct: 10  NRHEPKYYENGTIPWLKTGDLNDGIITEIPEYITELAIEKTSVKLNPVGSVLIAMYGATI 69

Query: 304 SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVK 363
                  +E     +    +   GI + YL + + S        + GSG + ++  E + 
Sbjct: 70  GKLGILNIEATTNQACCACIPYTGIYNKYLFYYLMSQKTELQKRSEGSG-QPNISKEKIV 128

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVL 392
                +PP+ EQ  I   I    + +  L
Sbjct: 129 NYLFPLPPLNEQKCIVEKIETLFSTLQNL 157



 Score = 62.1 bits (149), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 27/139 (19%), Positives = 50/139 (35%), Gaps = 1/139 (0%)

Query: 45  GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFD 104
              I ++   D+  G    +P+       + ++V +   G +L    G  + K  I + +
Sbjct: 19  NGTIPWLKTGDLNDGIITEIPEYITELAIEKTSVKLNPVGSVLIAMYGATIGKLGILNIE 78

Query: 105 GICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPL 164
              +       P   +      + L    T+  +   EG+   +   + I N   P+PPL
Sbjct: 79  ATTNQACCACIPYTGIYNKYLFYYLMSQKTELQKRS-EGSGQPNISKEKIVNYLFPLPPL 137

Query: 165 AEQVLIREKIIAETVRIDT 183
            EQ  I EKI      +  
Sbjct: 138 NEQKCIVEKIETLFSTLQN 156


>gi|281422289|ref|ZP_06253288.1| putative type I restriction modification DNA specificity domain
            protein [Prevotella copri DSM 18205]
 gi|281403610|gb|EFB34290.1| putative type I restriction modification DNA specificity domain
            protein [Prevotella copri DSM 18205]
          Length = 1297

 Score = 75.2 bits (183), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 53/377 (14%), Positives = 112/377 (29%), Gaps = 52/377 (13%)

Query: 47   DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDG- 105
            D  YI + D+          D     ++     I  +G +L+ + G    KA     +  
Sbjct: 964  DYRYIRITDINEDG---TLNDDWKTVAEVEKQYILKEGDVLFARSGATAGKAFYYKNEYG 1020

Query: 106  -ICSTQFLVLQ---PKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPI 161
                  +L+        V+P  +   L S +    +E    G    + + +   +  +P+
Sbjct: 1021 KALYAGYLIRFRFDESKVIPLFVYNLLCSKEYNDWVEKTKGGTARQNINSQQYCSFEIPL 1080

Query: 162  PPLAEQVLIR---EKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMK 218
            PP+  Q  I    EK+    V +   I         L E  Q+  +  +   L+  V   
Sbjct: 1081 PPMDIQKKIVEECEKVNNRMVELLQQIQYNEERKLHLFEDAQSKANRALR--LDSAVFNI 1138

Query: 219  DSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE 278
              G   +            ++     +   ++    N  S                    
Sbjct: 1139 SIGRRVLKKEVVDTGRFDIYSANVFESFGKSEHSVLNDFSQPS----------------- 1181

Query: 279  SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
                         V   ID       +   Q+            +  + + S YL + ++
Sbjct: 1182 -------------VLWGIDGDWMVNFIGKDQLFCPTDHCGVIRVLNENEVLSRYLVYPLQ 1228

Query: 339  SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
                 + F             E ++ L + VP I+ Q ++   +    ++ID  + K +Q
Sbjct: 1229 KEGEKQRFSRANRA-----STERIRSLIIQVPSIEVQKEVVEKL----SKIDEEISKAKQ 1279

Query: 399  SIVLLKERRSSFIAAAV 415
             +      + + +   +
Sbjct: 1280 YVANASSAKQAILDKYL 1296



 Score = 72.9 bits (177), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 20/156 (12%), Positives = 50/156 (32%), Gaps = 6/156 (3%)

Query: 254  SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
             +   +   +I +     +        E   I+  G+++F        K      +  + 
Sbjct: 963  MDYRYIRITDINEDGTLNDDWKTVAEVEKQYILKEGDVLFARSGATAGKAFYYKNEYGKA 1022

Query: 314  GIITSAY-MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPP 371
                           +   ++  L+ S +          G  RQ++  +      + +PP
Sbjct: 1023 LYAGYLIRFRFDESKVIPLFVYNLLCSKEYNDWVEKTKGGTARQNINSQQYCSFEIPLPP 1082

Query: 372  IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
            +  Q  I      E  +++  + ++ Q I   +ER+
Sbjct: 1083 MDIQKKIVE----ECEKVNNRMVELLQQIQYNEERK 1114


>gi|331681326|ref|ZP_08381963.1| putative type I restriction-modification system, S subunit
           [Escherichia coli H299]
 gi|331081547|gb|EGI52708.1| putative type I restriction-modification system, S subunit
           [Escherichia coli H299]
          Length = 465

 Score = 75.2 bits (183), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 51/435 (11%), Positives = 115/435 (26%), Gaps = 59/435 (13%)

Query: 38  TGRTSESGKDI------IYIGLEDVESGTGKYLPK-DGNSRQSDTSTVSIFAKGQILYGK 90
            G+      D       +++  ++V     ++      N  +           G I+   
Sbjct: 20  RGKNYPKHNDFMENGYCLFLSAKNVTKSGFQFQETLFINETKDRELRAGKLKYGDIVLTT 79

Query: 91  LGPYLRKAIIADF----DGICSTQFLVLQ--PKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            G     A   +         ++  ++++   K   P+ L   L S  + ++I  +  G+
Sbjct: 80  RGTVGNVAYYDNNNPYKHIRINSGMIIIRADNKLWNPKFLYFILKSELLKEQIINLISGS 139

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA--- 201
            +     + I    +P+   + Q  I   I     +++  I       ++ +   ++   
Sbjct: 140 AVPQLPARDIRKFILPVINRSLQNKITNIISDINDKVNLNIEINQTLEKMSQTLFKSWFV 199

Query: 202 ----LVSYIVTKGLNPDVKMKDSGIE-----------------------------WVGLV 228
               ++   +  G NP  +   S  E                              +G V
Sbjct: 200 DFDPVIDNALDAG-NPIPEALQSRAELRQKVRNCADFKPLPAEIRSLFPSEFEETELGWV 258

Query: 229 PDHWEVKPFFALVTELNRK-----NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY 283
           P  W           +  K     N      + L +   ++  K+   N   K     + 
Sbjct: 259 PKGWSFTALKNFGKIICGKTPTKSNKNYYGEDFLFIKIPDMHGKVFVTNSHDKLSKLGSE 318

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC 343
              +                 L S    +          V        YL + M      
Sbjct: 319 SQSNKIIPHGSICVSCIATVGLVSINAQDCHTNQQINSIVPNSPHYRNYLYFSMLEKYKI 378

Query: 344 KVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
               A G     ++       +  L+P       +    +  T      +   E  +  L
Sbjct: 379 FHDLASGGSATLNMNTSVFSNIATLMPN----NLVLKQFHKITEPWFEAILLNEYKLTSL 434

Query: 404 KERRSSFIAAAVTGQ 418
              R + +   ++G+
Sbjct: 435 ASLRDTLLPKLISGE 449



 Score = 61.0 bits (146), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 28/179 (15%), Positives = 66/179 (36%), Gaps = 9/179 (5%)

Query: 239 ALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI----VDPGEIVFR 294
                  + N  +     L LS  N+ +        L     +  ++    +  G+IV  
Sbjct: 19  DRGKNYPKHNDFMENGYCLFLSAKNVTKSGFQFQETLFINETKDRELRAGKLKYGDIVLT 78

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVK--PHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
                 +     +    +   I S  + ++      +  +L ++++S  L +    + SG
Sbjct: 79  TRGTVGNVAYYDNNNPYKHIRINSGMIIIRADNKLWNPKFLYFILKSELLKEQIINLISG 138

Query: 353 -LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL-KERRSS 409
                L   D+++  + V     Q  ITN+I+    ++++ +E I Q++  + +    S
Sbjct: 139 SAVPQLPARDIRKFILPVINRSLQNKITNIISDINDKVNLNIE-INQTLEKMSQTLFKS 196



 Score = 59.4 bits (142), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 31/194 (15%), Positives = 57/194 (29%), Gaps = 8/194 (4%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSR 71
           +G +PK W    +K F K+  G+T         G+D ++I + D+          D  S+
Sbjct: 255 LGWVPKGWSFTALKNFGKIICGKTPTKSNKNYYGEDFLFIKIPDMHGKVFVTNSHDKLSK 314

Query: 72  QSDTS-TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
               S +  I   G I    +   +    I   D   + Q   + P          + + 
Sbjct: 315 LGSESQSNKIIPHGSICVSCI-ATVGLVSINAQDCHTNQQINSIVPNSPHYRNYLYFSML 373

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
                  +    G+   + +     NI   +P         +        I     +   
Sbjct: 374 EKYKIFHDLASGGSATLNMNTSVFSNIATLMPNNLVLKQFHKITEPWFEAILLNEYKLTS 433

Query: 191 FIELLKEKKQALVS 204
              L       L+S
Sbjct: 434 LASLRDTLLPKLIS 447


>gi|328947970|ref|YP_004365307.1| restriction modification system DNA specificity domain protein
           [Treponema succinifaciens DSM 2489]
 gi|328448294|gb|AEB14010.1| restriction modification system DNA specificity domain protein
           [Treponema succinifaciens DSM 2489]
          Length = 212

 Score = 75.2 bits (183), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 34/217 (15%), Positives = 70/217 (32%), Gaps = 19/217 (8%)

Query: 214 DVKMKDSGIEWVGLVPDH---WEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLET 270
               K   +E  G  P     W+VK      T  N  N    E+ +  L       K   
Sbjct: 1   MNIFKSEFVEMFGENPVESGKWKVKKLGDCGTFKNGMNYSPSENGVDILCLNVSDFKDNY 60

Query: 271 RNMGLK-------PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG--IITSAYM 321
           +    K        E   +   +   +IVF   +          A        + +   +
Sbjct: 61  KIQDCKTLSSISLNEEPSSEYYLQNDDIVFVRSNGNKKLVGRCVALYPNDCKVLFSGFCI 120

Query: 322 AVKP--HGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
             +     +++ +L   +++    +     G+ ++ +L  + +  L + VPP+  Q    
Sbjct: 121 RFRKSTDNLNTDFLLHFLKTDLTREQLKGKGANIQ-NLNQQILANLHLPVPPLDLQNQFA 179

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
             +     +ID     ++Q I  L+E   S +    +
Sbjct: 180 AFV----QQIDKSKFVVKQQITDLQELLDSKMQEYFS 212



 Score = 56.3 bits (134), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 31/204 (15%), Positives = 61/204 (29%), Gaps = 14/204 (6%)

Query: 15  VQWIGAIPKH---WKVVPIKRFTKLNTGRTSESGK---DIIYIGLEDVESGTGKYLPKDG 68
           V+  G  P     WKV  +        G      +   DI+ + + D +        K  
Sbjct: 9   VEMFGENPVESGKWKVKKLGDCGTFKNGMNYSPSENGVDILCLNVSDFKDNYKIQDCKTL 68

Query: 69  NSRQ--SDTSTVSIFAKGQILYGKLGPYLRKAIIA------DFDGICSTQFLVLQPKDVL 120
           +S     + S+        I++ +     +           D   + S   +  +     
Sbjct: 69  SSISLNEEPSSEYYLQNDDIVFVRSNGNKKLVGRCVALYPNDCKVLFSGFCIRFRKSTDN 128

Query: 121 PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
                          R +   +GA + + + + + N+ +P+PPL  Q      +      
Sbjct: 129 LNTDFLLHFLKTDLTREQLKGKGANIQNLNQQILANLHLPVPPLDLQNQFAAFVQQIDKS 188

Query: 181 IDTLITERIRFIELLKEKKQALVS 204
              +  +     ELL  K Q   S
Sbjct: 189 KFVVKQQITDLQELLDSKMQEYFS 212


>gi|332704541|ref|ZP_08424629.1| restriction modification system protein with DNA specificity domain
           [Desulfovibrio africanus str. Walvis Bay]
 gi|332554690|gb|EGJ51734.1| restriction modification system protein with DNA specificity domain
           [Desulfovibrio africanus str. Walvis Bay]
          Length = 442

 Score = 75.2 bits (183), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 62/409 (15%), Positives = 131/409 (32%), Gaps = 33/409 (8%)

Query: 44  SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST----VSIFAKGQILYGKLGPYLRKAI 99
               I  I   ++    G+ L +D      +        +I  +G +++   G   +  +
Sbjct: 36  QSTGIPLIRGSNLSEAVGQRLVEDEYVFMPEEKAAEFPRAIAIRGDLVFTCWGTIGQVGL 95

Query: 100 IAD----FDGICSTQFLVLQPKDV--LPELLQGWLLSIDVTQRIEAICEGATMSHADWKG 153
           I         + S + + L P         L     S  +   I+ +  G+++   +   
Sbjct: 96  IDKRARFDRYLVSNKQMKLSPDPAKADSLFLYYLFSSPQIRATIKNLGIGSSVPGFNLGQ 155

Query: 154 IGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS-----YIVT 208
           + +I  P+PPL+EQ  I   + A   +I+           L +    A            
Sbjct: 156 LRSIRFPLPPLSEQSRISRVLGALDDKIEQNQQAVRALERLAQAIFCAWFVDFEPIKAKV 215

Query: 209 KGLNPDVKMKDSGIE---------WVGLVPDHWEVKPFFALVT-ELNRKNTKLIESNILS 258
            G      M     +          +G VP+ W+V     L T    +   +     +  
Sbjct: 216 AGATSFPSMPQPVFDALSIRLIDSKIGPVPEGWKVGTVSDLATLSKTQIKPQDYPDELFD 275

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
                     +   + L         +V  G ++   ++ +  +  L      +R I ++
Sbjct: 276 YFSIPAFDTGKRAFLELGKAIKSNKFVVVEGCVLLSKLNPRIPRIWLPPPPNGKRQITST 335

Query: 319 AYMAVKPHG-IDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKE 374
            ++   P   ID  YL    +     +      SG     Q ++  D+    V+VPP   
Sbjct: 336 EFLVFVPCSSIDRHYLYCQFQQSSFRENLAQGASGTSSSHQRVRPNDLLGKAVIVPPKPI 395

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
           + +  ++I+   +               L E R   +   ++G++ +R 
Sbjct: 396 RMEFAHLIDPLFSFA----SACLLESTKLAEMRDYLLPKLLSGEVTMRD 440



 Score = 54.8 bits (130), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 33/202 (16%), Positives = 64/202 (31%), Gaps = 14/202 (6%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSE---SGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           IG +P+ WKV  +     L+  +        +   Y  +   ++G   +L      +   
Sbjct: 241 IGPVPEGWKVGTVSDLATLSKTQIKPQDYPDELFDYFSIPAFDTGKRAFLELGKAIK--- 297

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDG----ICSTQFLVLQPKDVLPELL-QGWLL 129
            S   +  +G +L  KL P + +  +         I ST+FLV  P   +          
Sbjct: 298 -SNKFVVVEGCVLLSKLNPRIPRIWLPPPPNGKRQITSTEFLVFVPCSSIDRHYLYCQFQ 356

Query: 130 SIDVTQRIEAICEGA--TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
                + +     G   +        +    + +PP   ++     I          + E
Sbjct: 357 QSSFRENLAQGASGTSSSHQRVRPNDLLGKAVIVPPKPIRMEFAHLIDPLFSFASACLLE 416

Query: 188 RIRFIELLKEKKQALVSYIVTK 209
             +  E+       L+S  VT 
Sbjct: 417 STKLAEMRDYLLPKLLSGEVTM 438


>gi|227326888|ref|ZP_03830912.1| putative restriction modification system DNA specificity domain
           [Pectobacterium carotovorum subsp. carotovorum WPP14]
          Length = 522

 Score = 74.8 bits (182), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 42/398 (10%), Positives = 110/398 (27%), Gaps = 27/398 (6%)

Query: 34  TKLNTGRTSESGKDIIYIGLEDVESGTGKYLP-KDGNSRQSDTSTVSIFAKGQILYGKLG 92
            +   G        I Y+  +++  G   +      + +  D    S+   G ++  + G
Sbjct: 62  FEFLRGIQFNHTSGIPYVRTQNLMDGYIDFSDGIYVDLKCKDMVAKSLCETGDLIVCRKG 121

Query: 93  PYLRKAII--ADFDGICSTQFLVLQPKDVLPELLQ-GWLLSIDVTQRIEAICEGATMSHA 149
                + +         S      +            +L S     R      G      
Sbjct: 122 KVGAASAVSADIHGAAISENVTRFRLDKSYDADFLATFLNSNHGRMRFLREATGVIQKWI 181

Query: 150 DWKGIGNIP---------MPIPPLAEQVLI----REKIIAETVRIDTLITERIRFIELLK 196
           + + +  I            I     Q        +++      ++  I      +    
Sbjct: 182 NNEKLRQIRVIRIDSSAEKYIGGKVRQAEKLRAWAKRLEVRLALLENKIPISKHVVRE-A 240

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
           +  +A +SY+    L+           +     D   +    +            + ++ 
Sbjct: 241 KHSKATLSYLTENRLDARYYANKHLDLYAQFTDDFESLGSICSKFKYGASIAANYVNTDG 300

Query: 257 LSLSYGN-----IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
           L    GN      I K +   +    E       ++  +I+            + S    
Sbjct: 301 LPFIRGNALSPNRINKDDIVYLNRSLEDEGNNYCIEEDDILITRSGTVGVAAHVTSEYAK 360

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ-SLKFEDVKRLPVLVP 370
                      +        Y++W + S+   + F  + +G  Q ++  E++  + +   
Sbjct: 361 YWYGSFIIKCTLSNKLYLPAYVSWYLNSWVGQQQFRRLENGAVQLNINIEELSSIAIWKA 420

Query: 371 PIKEQFDITNVINVETA--RIDVLVEKIEQSI-VLLKE 405
             + Q +I  ++  + +   +  L+    +++   L E
Sbjct: 421 SQEFQNEIQQLLFEQISAVNLYKLLANTAKALVEALIE 458


>gi|254372941|ref|ZP_04988430.1| conserved hypothetical protein [Francisella tularensis subsp.
           novicida GA99-3549]
 gi|151570668|gb|EDN36322.1| conserved hypothetical protein [Francisella novicida GA99-3549]
          Length = 445

 Score = 74.8 bits (182), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 43/383 (11%), Positives = 115/383 (30%), Gaps = 27/383 (7%)

Query: 42  SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIA 101
            +  K+   +G+     G G Y+ ++               +  + + K+        + 
Sbjct: 53  IKDSKEYKILGVR--TYGKGVYINREVYGSSLKMRVYQKAKENHLFWCKVDTKNGAFGVV 110

Query: 102 -----DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGI-- 154
                +     +  F  +    +  + LQ +  S +  + +++   G T           
Sbjct: 111 KKEQSNSIASSNMAFAEIDITKIDMDFLQLFFKSEEFQKYLDSFVVGTTNRKYIKFDELL 170

Query: 155 GNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL--VSYIVTKGLN 212
             + +P+PP+  Q  I +    +    + L     +    +++   A   +   + +  +
Sbjct: 171 HKVEIPLPPIEVQKQIVQAYEDKINLANQLEQRAEKLEAKIEKYLYAKLGIQQALEQKQD 230

Query: 213 PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNT-------------KLIESNILSL 259
               ++    E +      +  +                                 I  L
Sbjct: 231 KKGLLRFVRFEQLQRWDTDFFKQKEGYSSKYETVSYEDLFVSLNNGIAARNYASDGIRYL 290

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
              +I       +       Y+   +++ G ++        +       +       +  
Sbjct: 291 KVSDIKDNYINNDKPFYVNKYKESDLIEKGTLLITRKGTVGNSYYF--DKEGSFVASSEI 348

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDI 378
           ++      I+  YL+ +  S  + K +    +G    SL    +K + + +PP++ Q  I
Sbjct: 349 FIIKLNDKINGNYLSEINLSSFVKKQYREKSTGTIMPSLSQPKLKSILIPLPPLEIQNHI 408

Query: 379 TNVINVETARIDVLVEKIEQSIV 401
              I      I +L ++ EQ+  
Sbjct: 409 AMRIQKLKDYIKILKQQAEQNRE 431



 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 22/143 (15%), Positives = 56/143 (39%), Gaps = 4/143 (2%)

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS-AYMAVKPH 326
              R +         YQ      + +  +D +N    +   +       ++ A+  +   
Sbjct: 72  YINREVYGSSLKMRVYQKAKENHLFWCKVDTKNGAFGVVKKEQSNSIASSNMAFAEIDIT 131

Query: 327 GIDSTYLAWLMRSYDLCKVFYAM--GSGLRQSLKFEDVK-RLPVLVPPIKEQFDITNVIN 383
            ID  +L    +S +  K   +   G+  R+ +KF+++  ++ + +PPI+ Q  I     
Sbjct: 132 KIDMDFLQLFFKSEEFQKYLDSFVVGTTNRKYIKFDELLHKVEIPLPPIEVQKQIVQAYE 191

Query: 384 VETARIDVLVEKIEQSIVLLKER 406
            +    + L ++ E+    +++ 
Sbjct: 192 DKINLANQLEQRAEKLEAKIEKY 214


>gi|325270621|ref|ZP_08137219.1| type I restriction-modification system specificity determinant
           [Prevotella multiformis DSM 16608]
 gi|324987016|gb|EGC19001.1| type I restriction-modification system specificity determinant
           [Prevotella multiformis DSM 16608]
          Length = 401

 Score = 74.8 bits (182), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 54/402 (13%), Positives = 113/402 (28%), Gaps = 31/402 (7%)

Query: 29  PIKRFTKLNTGR-TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
            + +  +    + +S       Y+  + +     K       +       ++ + KG +L
Sbjct: 2   KLSQIAEYVEDKISSSQITLEEYVTTDSILQN--KQGKAVATNLPPTVCPLTHYLKGDVL 59

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELL-QGWLLSIDVTQRIEAICEGATM 146
              + PYL+K   A+ +G  S   LV + K           LL            +G+ M
Sbjct: 60  VANIRPYLKKVWYANINGGASADVLVFRAKQGNDSTFLYALLLQDSFFAYAMKGAKGSKM 119

Query: 147 SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYI 206
              D   I    +P   L EQ  I + II  T ++            + K+         
Sbjct: 120 PRGDKDQIMRYELPTFTLHEQKNIGKLIIDITNKLSLNRAVNHNLEAMAKQLYDYWFVQF 179

Query: 207 VTKGLNPDVKMKDSGIEWVG------LVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
                N     K SG +          +P  W+       +     K             
Sbjct: 180 DFPDEN-GKPYKSSGGKMGWNEKLKREIPQGWKDCKIKDFMRIFTGKKDVSKAVP----- 233

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
                     +     PE+  + + +  G  V    +     R +   +        +  
Sbjct: 234 -------GNYKFFSCAPEAITSNEYIYDGYAVLVSGNGSYTGR-VGFYRGKFDLYQRTYA 285

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
             +     + ++  + +R                  +   D+           E   I  
Sbjct: 286 CVLDEEVRNVSFFYYTLRYLFQPIYSGGKHGSSIPYIVLGDLADFRFAF---NE--TICK 340

Query: 381 -VINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
             ++  T   D  + +++  I  L ++R   +   + GQ+ +
Sbjct: 341 KFVDTVTPMFDEQLLRLQ-EIEKLTKQRDELLPLLMNGQVKV 381



 Score = 41.7 bits (96), Expect = 0.20,   Method: Composition-based stats.
 Identities = 24/160 (15%), Positives = 46/160 (28%), Gaps = 20/160 (12%)

Query: 10  YKDSG--VQWIG----AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKY 63
           YK SG  + W       IP+ WK   IK F ++ TG+             +DV       
Sbjct: 189 YKSSGGKMGWNEKLKREIPQGWKDCKIKDFMRIFTGK-------------KDVSKAVPGN 235

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL-PE 122
                 + ++ TS   I+    +L    G Y  +            +       + +   
Sbjct: 236 YKFFSCAPEAITSNEYIYDGYAVLVSGNGSYTGRVGFYRGKFDLYQRTYACVLDEEVRNV 295

Query: 123 LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIP 162
               + L             G+++ +     + +      
Sbjct: 296 SFFYYTLRYLFQPIYSGGKHGSSIPYIVLGDLADFRFAFN 335


>gi|299142940|ref|ZP_07036066.1| type I restriction-modification enzyme, S subunit, EcoA family
           [Prevotella oris C735]
 gi|298575556|gb|EFI47436.1| type I restriction-modification enzyme, S subunit, EcoA family
           [Prevotella oris C735]
          Length = 384

 Score = 74.8 bits (182), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 58/393 (14%), Positives = 137/393 (34%), Gaps = 44/393 (11%)

Query: 24  HWKVVPIKRFTKLNTGRTSESG----KDIIYIGLEDVESGT-GKYLPKDGNSRQSDTSTV 78
            W+   +     L+ G               I   ++ +    + + +  +    D + +
Sbjct: 9   EWQEKRLSDIADLSKGIGISKDQLSADGEPCILYGELYTKYKSETIKEVISKTNIDNTKL 68

Query: 79  SIFAKGQILYGKLGPYLRKA----IIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
                  ++    G    +      +   D +      +++           + L+    
Sbjct: 69  VKSKANDVIIPCSGETAEEIATARCVLKDDILLGGDLNIIRLHG-YDGSFMSYQLNGKRK 127

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             I  + +G ++ H   + + NI    P L EQ  I   +     RI T      +    
Sbjct: 128 YDIAKVAQGVSVVHLYGEHLKNIKTINPSLNEQKKIANLLSLLDERISTQNKIIDKL--- 184

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
                Q+L+  I  + L  D  M                      ++ E + +  K  + 
Sbjct: 185 -----QSLIKGISNRLLYADNSM----------------SIRIEEMLIERSERTKKNNQY 223

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
            +LS +   I  + +  +  +  ++   Y+I+   +IV    +L     ++      + G
Sbjct: 224 EVLSSTVNGIFSQRDYFSKDIASDNNVGYKIIHLHDIVLSPQNLWM--GNINFNDKFDIG 281

Query: 315 IITSAYMAV-KPHGIDSTYLAWLMRS----YDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
           I++ +Y       G D  Y+A L+++    Y+   V     S +R++L +E  ++L   +
Sbjct: 282 IVSPSYKVFSIADGFDKKYVAALLKTHHALYNYMLVSEQGASIVRRNLNYEAFEQLVFKI 341

Query: 370 PPIKEQFDITNVINVETARIDV---LVEKIEQS 399
           P + +Q +I + I++  +R++    L++     
Sbjct: 342 PSLNKQREIGHAISLLKSRLENANLLIKTYNSQ 374



 Score = 65.2 bits (157), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 15/155 (9%), Positives = 48/155 (30%), Gaps = 4/155 (2%)

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
           Y     +     +                +++        ++ +     + +  ++    
Sbjct: 46  YTKYKSETIKEVISKTNIDNTKLVKSKANDVIIPCSGETAEEIATARCVLKDDILLGGDL 105

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
             ++ HG D +++++ +       +           L  E +K +  + P + EQ  I N
Sbjct: 106 NIIRLHGYDGSFMSYQLNGKRKYDIAKVAQGVSVVHLYGEHLKNIKTINPSLNEQKKIAN 165

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           ++    + +D  +    + I  L+          +
Sbjct: 166 LL----SLLDERISTQNKIIDKLQSLIKGISNRLL 196


>gi|256826765|ref|YP_003150724.1| hypothetical protein Ccur_03150 [Cryptobacterium curtum DSM 15641]
 gi|256582908|gb|ACU94042.1| hypothetical protein Ccur_03150 [Cryptobacterium curtum DSM 15641]
          Length = 182

 Score = 74.8 bits (182), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 37/183 (20%), Positives = 68/183 (37%), Gaps = 12/183 (6%)

Query: 230 DHWEVKPFFALVTELNRKNTK--LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVD 287
             WE +      ++   KN      E+   S   G + Q     +     ES   Y +V+
Sbjct: 3   SPWEQRKLGDFASKKTSKNNSLAFSETFTNSAERGVVSQLDYFDHDVTNAESIGGYYVVE 62

Query: 288 PGEIVFR-FIDLQNDKRSLRSAQVMERGIITSAYMAV-KPHGIDSTYLAWLMRSYDLCKV 345
           P + V+   I +      +   ++   G+++  Y        +D  YL    R+    K 
Sbjct: 63  PDDFVYNPRISVTAPVGPINRNRLGRTGVMSPLYTVFETDESVDKCYLEHFFRTRIWHKF 122

Query: 346 FYAMGSGL----RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
            +  G+      R S+  E    +P+  P  +EQ  I + +      ID L+   ++ + 
Sbjct: 123 MFLEGNSGARSDRFSIGDETFFEMPIACPLFEEQRAIASYLES----IDSLITLHQRKLK 178

Query: 402 LLK 404
           LLK
Sbjct: 179 LLK 181



 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 16/167 (9%), Positives = 37/167 (22%), Gaps = 11/167 (6%)

Query: 25  WKVVPIKRFTKLNTGRTSESG-KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           W+   +  F    T + +     +      E        Y   D            +   
Sbjct: 5   WEQRKLGDFASKKTSKNNSLAFSETFTNSAERGVVSQLDYFDHDVT-NAESIGGYYVVEP 63

Query: 84  GQILYGKLGPYLRKAIIADFD-----GICSTQFLVLQPKDVLPELLQGWLL----SIDVT 134
              +Y             + +     G+ S  + V +  + + +                
Sbjct: 64  DDFVYNPRISVTAPVGPINRNRLGRTGVMSPLYTVFETDESVDKCYLEHFFRTRIWHKFM 123

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
                    +       +    +P+  P   EQ  I   + +    I
Sbjct: 124 FLEGNSGARSDRFSIGDETFFEMPIACPLFEEQRAIASYLESIDSLI 170


>gi|496156|gb|AAA65631.1| restriction modification enzyme subunit S1A [Mycoplasma pulmonis]
 gi|3335658|gb|AAC78314.1| restriction-modification enzyme MpuUI S subunit [Mycoplasma
           pulmonis]
          Length = 401

 Score = 74.8 bits (182), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 45/374 (12%), Positives = 115/374 (30%), Gaps = 25/374 (6%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDII-YIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           ++  + +   L  G++  + K +   IG+ ++ S   K     G     D +        
Sbjct: 2   EIYKLGQILNLEKGKSKYNAKYVSQNIGIYNLYSSKTKDQGIFGKINSYDFNGEY----- 56

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            IL    G Y       +     ++   +L+  + + +      L +   +    +  G+
Sbjct: 57  -ILITTHGAYAGTVKYVNEKFSTTSNCFILKVNENIVKTKFLSYLLLLQEKTFNDMAIGS 115

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL-- 202
              +     I +  + +P L  Q  I + I  +               E   +K  ++  
Sbjct: 116 AYGYLKNYNINDFEVNLPNLKIQSAIIKIIEPKEDLFFRHKNLVRIDSEENTKKDLSILI 175

Query: 203 -VSYIVTKGLNPDVKMKDSGIEWVGLV------------PDHWEVKPFFALVTELNRKNT 249
            +   + K +N   ++  S  + +               P  ++      +   L+ K  
Sbjct: 176 KIIEPLEKQINAFDELILSEQKSLQHYLNYFLNKLASINPSIFKNYKLGEIAKILSGKTP 235

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
              +  +                +  +  ++    I   G I+F           L +  
Sbjct: 236 STAKKELWKKEIPFFGPGDLDNMVPKRFITFNEKMIKRSGTILFSSAATIGKVGILDNLS 295

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
              + I +   +    + +   +L +L++       F      +  ++K +  +   + +
Sbjct: 296 WFNQQITS---IEANNNYVMDKFLFFLLKKISSKIKFENSSGTIFPTIKKKYFENFTLEI 352

Query: 370 PPIKEQFDITNVIN 383
           P +K Q  I  +I 
Sbjct: 353 PNLKTQSAILGIIE 366



 Score = 44.4 bits (103), Expect = 0.035,   Method: Composition-based stats.
 Identities = 27/183 (14%), Positives = 58/183 (31%), Gaps = 14/183 (7%)

Query: 29  PIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            +    K+ +G+T  +       K+I + G  D+++     +PK   +            
Sbjct: 222 KLGEIAKILSGKTPSTAKKELWKKEIPFFGPGDLDN----MVPKRFITFNEKMIK----R 273

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
            G IL+       +  I+ +          +    + + +    +LL    ++       
Sbjct: 274 SGTILFSSAATIGKVGILDNLSWFNQQITSIEANNNYVMDKFLFFLLKKISSKIKFENSS 333

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           G        K   N  + IP L  Q  I   I     +I+ L  ++    +     +  L
Sbjct: 334 GTIFPTIKKKYFENFTLEIPNLKTQSAILGIIEPLHKKINLLKQKKKLLEKRFIYYQNHL 393

Query: 203 VSY 205
           +  
Sbjct: 394 IKE 396


>gi|329903167|ref|ZP_08273389.1| Type I restriction-modification system, specificity subunit S
           [Oxalobacteraceae bacterium IMCC9480]
 gi|327548462|gb|EGF33134.1| Type I restriction-modification system, specificity subunit S
           [Oxalobacteraceae bacterium IMCC9480]
          Length = 441

 Score = 74.8 bits (182), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 55/405 (13%), Positives = 131/405 (32%), Gaps = 29/405 (7%)

Query: 45  GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFD 104
              I  I   ++            +  +S   + +I   G +++ + G   + +I+    
Sbjct: 35  DYGIPVIRGANMGEKWVGGDFVYVSREKSIQLSQNIAKPGDLVFTQRGTLGQVSIVPKHK 94

Query: 105 GIC-----STQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPM 159
             C     S   L + P     + L     S +  + I        + H +   +   P+
Sbjct: 95  HDCYVVSQSQMKLTVDPLKADVDFLYYLFKSPEQLEYIRNAAIQTGVPHTNLGILKKTPI 154

Query: 160 PIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYI----------VTK 209
            IP L  Q      + A   RI  L         + +   ++               V +
Sbjct: 155 KIPALLVQQQAAFILSALDDRITLLRETNTTLEAIAQALFKSWFVDFDPVRAKQEGRVPE 214

Query: 210 GLNPDVK--MKDSGIE-WVGLVPDHWEVKPFFALVTELNRKNTKLIESN-ILSLSYGNII 265
           G++        DS  E  +GL+P  W       L        T  +    +L +   N  
Sbjct: 215 GMDAATAALFPDSFEESELGLLPRGWSFGTLADLAELNPESWTTKVHPKTVLYIDLANTK 274

Query: 266 QKLETRNMGLKPESYETY--QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
                       +   +   +++  G+ +   +    ++      +       ++ +  +
Sbjct: 275 NNEIDVTTEYVFDEAPSRARRVLRTGDSIIGTVRP-GNRSFAYIYRAARNLTGSTGFAVL 333

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
           +P  I +    ++  + +    + A     G   +++ E V  + + VP  +    I   
Sbjct: 334 RPKVIKNAEFIFIAATQNSSIDYLAHIADGGAYPAVRPEVVANIELTVPHEEV---IAAF 390

Query: 382 INVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
            +   A +  ++ + + +I  L   R + +   ++GQ+ L  E++
Sbjct: 391 -HDIVAPLSSMIGENQLTIQTLVTLRDTLLPRLISGQLRL-PEAE 433



 Score = 63.3 bits (152), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 22/168 (13%), Positives = 54/168 (32%), Gaps = 9/168 (5%)

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYE---TYQIVDPGEIVFRFIDLQNDKRS 304
           +   ++  I  +   N+ +K    +            +  I  PG++VF           
Sbjct: 30  SKDYVDYGIPVIRGANMGEKWVGGDFVYVSREKSIQLSQNIAKPGDLVFTQRGTLGQVSI 89

Query: 305 LRSAQVMERGIITSAY-MAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDV 362
           +   +     +  S   + V P   D  +L +L +S +  +                  +
Sbjct: 90  VPKHKHDCYVVSQSQMKLTVDPLKADVDFLYYLFKSPEQLEYIRNAAIQTGVPHTNLGIL 149

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
           K+ P+ +P +  Q      I    + +D  +  + ++   L+    + 
Sbjct: 150 KKTPIKIPALLVQQQ-AAFI---LSALDDRITLLRETNTTLEAIAQAL 193



 Score = 47.1 bits (110), Expect = 0.006,   Method: Composition-based stats.
 Identities = 30/193 (15%), Positives = 60/193 (31%), Gaps = 7/193 (3%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSES--GKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           +G +P+ W    +    +LN    +     K ++YI L + ++       +        +
Sbjct: 233 LGLLPRGWSFGTLADLAELNPESWTTKVHPKTVLYIDLANTKNNEIDVTTEYVFDEA-PS 291

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDG---ICSTQFLVLQPKDVLP-ELLQGWLLSI 131
               +   G  + G + P  R              ST F VL+PK +   E +       
Sbjct: 292 RARRVLRTGDSIIGTVRPGNRSFAYIYRAARNLTGSTGFAVLRPKVIKNAEFIFIAATQN 351

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
                +  I +G        + + NI + +P         + +   +  I          
Sbjct: 352 SSIDYLAHIADGGAYPAVRPEVVANIELTVPHEEVIAAFHDIVAPLSSMIGENQLTIQTL 411

Query: 192 IELLKEKKQALVS 204
           + L       L+S
Sbjct: 412 VTLRDTLLPRLIS 424


>gi|315222640|ref|ZP_07864529.1| type I restriction modification DNA specificity domain protein
           [Streptococcus anginosus F0211]
 gi|315188326|gb|EFU22052.1| type I restriction modification DNA specificity domain protein
           [Streptococcus anginosus F0211]
          Length = 339

 Score = 74.8 bits (182), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 55/357 (15%), Positives = 110/357 (30%), Gaps = 33/357 (9%)

Query: 34  TKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGP 93
                 +         Y+GLE ++S +        +          I  KG +L+GK   
Sbjct: 11  FNSTEKKKPVDEDKHTYLGLEHLDSDSIYITRYGADVAPKG--DKLIMKKGDVLFGKRRA 68

Query: 94  YLRKAIIADFDGICSTQFLVLQPKDVLPELLQ--GWLLSIDVTQRIEAICEGATMSHADW 151
           Y +K  IA FDGI S   +VL+PK+ + +      ++ S         I  G+     +W
Sbjct: 69  YQKKVAIAPFDGIFSAHGMVLRPKEDVIDKDFFPMFIKSDYFLDAAIKISVGSLSPTINW 128

Query: 152 KGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGL 211
           + +  +   +P L EQ  + E +      I  +  +  + I    E  ++    + T   
Sbjct: 129 RDLKELKFELPSLEEQRKLAEVLW----AIYDMKDKYKKLILATDELVKSQFIEMFTD-- 182

Query: 212 NPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETR 271
                + D     +G  PD          +     K                     +  
Sbjct: 183 VKKGILSDMATIIMGQSPDGKTYNDTGDGMAFYQGKTEF-----------------GDLY 225

Query: 272 NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST 331
                  +    +I    +++              +    E   I     A++P    +T
Sbjct: 226 IREATTWTTAPSRIAIANDVLMSVRAPVG-----STNIATEECCIGRGLAAIRPIEEKTT 280

Query: 332 YLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
            +  +     +      MG     +++  + V +LP+ +  I+ Q     +      
Sbjct: 281 TMFIIYAMRVIEDTIANMGVGSTFKAINKDQVHKLPIPLANIELQNQFVELAEQSDK 337



 Score = 61.7 bits (148), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 23/184 (12%), Positives = 58/184 (31%), Gaps = 15/184 (8%)

Query: 241 VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQN 300
                +K     + +            +     G          I+  G+++F       
Sbjct: 11  FNSTEKKKPVDEDKHTYLGLEHLDSDSIYITRYGADVAPKGDKLIMKKGDVLFGKRRAYQ 70

Query: 301 DKRSLRSAQVMERGIITSAYMAVKPHGI--DSTYLAWLMRSYDLCKV-FYAMGSGLRQSL 357
            K ++        GI ++  M ++P     D  +    ++S              L  ++
Sbjct: 71  KKVAIAPFD----GIFSAHGMVLRPKEDVIDKDFFPMFIKSDYFLDAAIKISVGSLSPTI 126

Query: 358 KFEDVKRLPVLVPPIKEQFDITNVI---NVETARIDVLV----EKIEQS-IVLLKERRSS 409
            + D+K L   +P ++EQ  +  V+        +   L+    E ++   I +  + +  
Sbjct: 127 NWRDLKELKFELPSLEEQRKLAEVLWAIYDMKDKYKKLILATDELVKSQFIEMFTDVKKG 186

Query: 410 FIAA 413
            ++ 
Sbjct: 187 ILSD 190


>gi|241762570|ref|ZP_04760644.1| DNA polymerase beta domain protein region [Zymomonas mobilis subsp.
           mobilis ATCC 10988]
 gi|241372831|gb|EER62528.1| DNA polymerase beta domain protein region [Zymomonas mobilis subsp.
           mobilis ATCC 10988]
          Length = 527

 Score = 74.8 bits (182), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 52/424 (12%), Positives = 128/424 (30%), Gaps = 33/424 (7%)

Query: 25  WKVVPIKRFT----KLNTGRTSESGK---DIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           W  V +        +++ G      +    +  + + DV  G  K   K     Q   ++
Sbjct: 109 WPSVRLDSILVPTERISYGVVQPGKESLNGVPIVRVSDVRDGMIK-TEKPLKISQEVENS 167

Query: 78  V--SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP---ELLQGWLLSID 132
              +    G++L   +G     AI+ +     +    + +           +Q  L +  
Sbjct: 168 YLRTRLTGGELLLSIVGTVGETAIVPESLKGWNIARAIARIPVREDIGARWVQLALKTET 227

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           + Q I +          + + +  +P+P P   ++  I   + +   +ID          
Sbjct: 228 IKQLINSKLNTTVQPTLNLRDVFELPVPFPSKEKRSSILNILGSLDDKIDLNRRTNETLE 287

Query: 193 ELLKEKKQALV-----SYIVTKGLNPD--VKMKDSGIEWVGLV--PDHWEVKPFFALVTE 243
            + +   +        +     G  P    ++ +   + +     P+ W+          
Sbjct: 288 AMARALFRDWFVDFGPTRAKMAGEAPYLAPELWELFPDRLDDEGKPEGWKNSQIGKQFDI 347

Query: 244 LNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKR 303
              ++      N+          K +   +      Y       P  + + F  L + + 
Sbjct: 348 TMGQSPPGYTYNLDGNGKPFYQGKADFGTIFPTRRMYCAA----PNRMAYTFDSLVSVRA 403

Query: 304 SLRSAQVM-ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDV 362
            +    +  E   I     A++       Y   +M+S       +     +  S+  +  
Sbjct: 404 PVGEVNLSAEECCIGRGLAAIRHPQNLPYYTYLVMKSLRKIFFSFEDNGTVFGSINKKQF 463

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
           ++L V    ++    + NV       I   +   E     L + R   +   ++G+I +R
Sbjct: 464 EKLGV----LE--SKVENVFEKRVDPIFKKIITNEAESYTLAQLRDLLLPKLMSGEISIR 517

Query: 423 GESQ 426
              +
Sbjct: 518 NAEK 521


>gi|194336314|ref|YP_002018108.1| restriction modification system DNA specificity domain [Pelodictyon
           phaeoclathratiforme BU-1]
 gi|194308791|gb|ACF43491.1| restriction modification system DNA specificity domain [Pelodictyon
           phaeoclathratiforme BU-1]
          Length = 412

 Score = 74.8 bits (182), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 50/416 (12%), Positives = 123/416 (29%), Gaps = 33/416 (7%)

Query: 26  KVVPIKRF-TKLNTGRTSESGKDII------YIGLEDV-ESGTGKYLPKDGNSRQSDTST 77
           K V ++   +K+ +G T   G ++       ++  +++ +    +      N +Q++   
Sbjct: 3   KFVKLRSITSKIGSGATPRGGNNVYSEQGVAFVRSQNILDMSFSEKGLVFINDQQAEKLK 62

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGI---CSTQFLVLQPKDVLPELLQGWLLSIDVT 134
                   IL    G  + ++ I     +    S    +++ KD        + L     
Sbjct: 63  GVTVENDDILLNITGDSIARSCIVPTTILPARVSQHVSIIRCKDRKSAPYVNYYLHYLKP 122

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             ++    G T +    + + N+ + +P                  +D  I    R    
Sbjct: 123 HLLQICRVGGTRNALTKEAVENLYINLPCDYNARAKV------LSALDAKIECNNRINAE 176

Query: 195 LKEKKQALVSYIVTKGLNPDV---KMKDSGIEWVG------LVPDHWEVKPFFALVTELN 245
           L+   + L  Y   +   PD      K SG + V        +P  W         T   
Sbjct: 177 LEAMAKTLYDYWFVQFNFPDHNGHPYKSSGGKMVYNPTLKRQIPAGWHYSTIGETFTTHL 236

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI---VDPGEIVFRFIDLQNDK 302
                  +    +    N +   E     +         +     P +++ +   + +  
Sbjct: 237 GGTPSRDKDEYWTPCEVNWLSSAENPGTFVVDPDERISYLGLQNSPAKLLPQGTVILSIV 296

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDV 362
           R LR++ +        + + +    +      +     ++ ++        +  +    +
Sbjct: 297 RHLRASILGIEAATNQSVVGIVETSMFKHCFIYPYLVREIPRLMVLRTGAQQPHINKGVL 356

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
               + VP       I        A + + ++   Q    L + R   +   + GQ
Sbjct: 357 DESLLAVPDKST---IEAY-TRLAAPLFLQMKNYHQQNRELTQLRDWLLPILMNGQ 408



 Score = 42.5 bits (98), Expect = 0.13,   Method: Composition-based stats.
 Identities = 25/212 (11%), Positives = 59/212 (27%), Gaps = 24/212 (11%)

Query: 10  YKDSGVQWIGA----------IPKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIG 52
           YK SG    G           IP  W    I      + G T    KD       + ++ 
Sbjct: 202 YKSSG----GKMVYNPTLKRQIPAGWHYSTIGETFTTHLGGTPSRDKDEYWTPCEVNWLS 257

Query: 53  LEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFL 112
             +          +  +      S   +  +G ++   +     +A I   +   +    
Sbjct: 258 SAENPGTFVVDPDERISYLGLQNSPAKLLPQGTVILSIVRHL--RASILGIEAATNQSV- 314

Query: 113 VLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIRE 172
           V   +  + +    +   +    R+  +  GA   H +   +    + +P  +       
Sbjct: 315 VGIVETSMFKHCFIYPYLVREIPRLMVLRTGAQQPHINKGVLDESLLAVPDKSTIEAYTR 374

Query: 173 KIIAETVRIDTLITERIRFIELLKEKKQALVS 204
                 +++     +     +L       L++
Sbjct: 375 LAAPLFLQMKNYHQQNRELTQLRDWLLPILMN 406


>gi|161870102|ref|YP_001599272.1| hypothetical protein NMCC_1141 [Neisseria meningitidis 053442]
 gi|161595655|gb|ABX73315.1| conserved hypothetical protein [Neisseria meningitidis 053442]
          Length = 385

 Score = 74.8 bits (182), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 61/378 (16%), Positives = 114/378 (30%), Gaps = 26/378 (6%)

Query: 50  YIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICST 109
           YI  +++         +   S       V+ F KG IL   + PYL+K   A FDG CS 
Sbjct: 26  YISTDNILQNKQGI--ECAASLPIQGGKVTAFKKGDILLANIRPYLKKIWYAQFDGGCSA 83

Query: 110 QFLVLQPKDVLPELLQGWL-LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQV 168
             L ++           +     D         +G  M   D   I    +P+  L  Q 
Sbjct: 84  DVLAIRANAKTDSHFLFYALFRDDFFIHAMKGAKGTKMPRGDKTQIMEFKIPVFDLKTQQ 143

Query: 169 LIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPD---VKMKDSGIEWV 225
            I   +      +D  I    +    L+E  + L  Y   +   PD      K SG + V
Sbjct: 144 SIAAVL----SALDKKIALNKQINARLEEMAKTLYDYWFVQFDFPDANGKPYKSSGGDMV 199

Query: 226 GLVPDHWEVKPFFALV--TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY 283
                  E+   +  +       K     +     +        ++     +   + +  
Sbjct: 200 FDETLKREIPKGWGSIELQSCLAKIPNTTKILNKDIKDFGKYPVVDQSQDFICGFTNDEK 259

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC 343
            I++P +    F D     R ++              + +  +     YL + +      
Sbjct: 260 SILNPQDAHIIFGD---HTRIVKLVNFQYARGADGTQVILSNNERMPNYLFYQI-----I 311

Query: 344 KVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
                   G  +    + +K   +++P       I+   N       V V    +    L
Sbjct: 312 NQIDLSSYGYARHF--KFLKEFKIILPSKD----ISQKYNEIANTFFVKVRNNLKQNHHL 365

Query: 404 KERRSSFIAAAVTGQIDL 421
            + R   +   + GQ+ +
Sbjct: 366 TQLRDFLLPMLMNGQVSV 383


>gi|82546468|ref|YP_410415.1| type I restriction-modification system specificity subunit
           [Shigella boydii Sb227]
 gi|81247879|gb|ABB68587.1| putative type I restriction-modification system specificity subunit
           [Shigella boydii Sb227]
          Length = 356

 Score = 74.8 bits (182), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 55/386 (14%), Positives = 118/386 (30%), Gaps = 41/386 (10%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
           V +     ++ G+  ++         + V +G+       G     D    ++ +   I+
Sbjct: 2   VKLGDVINVHYGKALKAD--------QRVSNGSVHVFGSSGIVGNHD---KTLCSYPTII 50

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMS 147
            G+ G             I  T + V        +L   +L  I     +       ++ 
Sbjct: 51  IGRKGSVGAITWAPSGGWIIDTAYYVEI--KDNNKLDLRYLFYILSGIDLTKKTITTSIP 108

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
             +   + +  + +PP  EQ  I + +  +   I     + I+  +       A +    
Sbjct: 109 GLNRDDLYDTFIKLPPFEEQKRIVDLLD-KAEGIRQKREQSIKLADDFLRATFATM---- 163

Query: 208 TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK 267
               NP    K   +  +G + +                K+  + E     +    I   
Sbjct: 164 --YGNPITNPKKWPVHLMGEIIEFK--------GGNQPPKSDFIFEPKQGYIRLVQIRDF 213

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
              +     P+      I +  +++            +        G    A M   P  
Sbjct: 214 KSDKYATYIPQEKAKR-IFEVDDVMIARYGPP-----VFQILRGLSGSYNVALMKASPKE 267

Query: 328 IDSTYL-AWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
                   +L++  +   V       +  +  +  E + +  V +PPI  Q +I + +  
Sbjct: 268 NIRKGFIFYLLQLPEYHDVVVKNSERTAGQTGVNLELLNKFNVPLPPIYYQDEILDRL-- 325

Query: 385 ETARIDVLVEKIEQSIVLLKERRSSF 410
             ARI+   EKIE S+  L+ +  S 
Sbjct: 326 --ARIEKFKEKIEISLNHLEIQFLSL 349



 Score = 43.2 bits (100), Expect = 0.077,   Method: Composition-based stats.
 Identities = 22/185 (11%), Positives = 57/185 (30%), Gaps = 4/185 (2%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVE-SGTGKYLPKDGNSRQSDTSTVSI 80
           PK W V  +    +   G        I       +       +      +         I
Sbjct: 171 PKKWPVHLMGEIIEFKGGNQPPKSDFIFEPKQGYIRLVQIRDFKSDKYATYIPQEKAKRI 230

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR--IE 138
           F    ++  + GP + +  +    G  +   +   PK+ + +    +LL +       ++
Sbjct: 231 FEVDDVMIARYGPPVFQI-LRGLSGSYNVALMKASPKENIRKGFIFYLLQLPEYHDVVVK 289

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
                A  +  + + +    +P+PP+  Q  I +++       + +              
Sbjct: 290 NSERTAGQTGVNLELLNKFNVPLPPIYYQDEILDRLARIEKFKEKIEISLNHLEIQFLSL 349

Query: 199 KQALV 203
           ++ L+
Sbjct: 350 QKRLI 354


>gi|149185163|ref|ZP_01863480.1| hypothetical protein ED21_18957 [Erythrobacter sp. SD-21]
 gi|148831274|gb|EDL49708.1| hypothetical protein ED21_18957 [Erythrobacter sp. SD-21]
          Length = 388

 Score = 74.8 bits (182), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 43/395 (10%), Positives = 106/395 (26%), Gaps = 39/395 (9%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
             +  +   +  +       +  + +   +    +                 +   G I 
Sbjct: 10  RKLSHYFTHSKRK---GRAGLPLMSVTMHDGLVRRDSLDRKTDSALKDEEHLLVEPGDIA 66

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID---VTQRIEAICEGA 144
           Y  +  +     +AD     S  + V++PK+ +           D         +     
Sbjct: 67  YNMMRMWQGALGLADEAANVSPAYGVMRPKNTVDPRFAKHWFKSDRGLYMLWAFSYGLTE 126

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
                       IP+  P   +Q+   + +     +I+ LI    R       + +AL+ 
Sbjct: 127 DRLRLYPAEFLEIPVSWPEFLDQIQTADALD----QIERLILLSHRLAGAKGRRYRALIQ 182

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
            + +       +                        V   ++K +       + L     
Sbjct: 183 RLSSNHAGARTE--------------------LGDFVARSSQKASVDSAPTSIELDNVEG 222

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
                        E           +I++  +    +K     A            +   
Sbjct: 223 QSGR-LIGATPTKELQGARATFQTADILYCKLRPYLNK--FHYADRPGLASTEFWVLRAD 279

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
               +  +L  L+++++                 +E V+  P+ +P   EQ    N++  
Sbjct: 280 RDVCEQRFLFHLIQTHEFAAEANRPTGSRMPRADWEVVQGAPLPLPSKDEQ---ANLLLP 336

Query: 385 ETARIDVLVEKIEQSIVLLKERRSSFIAAAV--TG 417
             A     + +I +   LL+ ++ S +   +  TG
Sbjct: 337 LDAAHSDWLAEIRRG-ELLQIKKRSLMQRLLPDTG 370


>gi|119715343|ref|YP_922308.1| restriction modification system DNA specificity subunit
           [Nocardioides sp. JS614]
 gi|119536004|gb|ABL80621.1| restriction modification system DNA specificity domain
           [Nocardioides sp. JS614]
          Length = 225

 Score = 74.8 bits (182), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 26/180 (14%), Positives = 67/180 (37%), Gaps = 5/180 (2%)

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETR----NMGLKPESYETYQIVDPGEI 291
                +          ++S + S+ YG I     T     +  ++PE   + ++  PG++
Sbjct: 23  QLGEFIRGRRFTKADYVDSGLGSIHYGEIYTDYGTTASSVHRFVRPELKGSLRLARPGDL 82

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
           V         +     A + +  +       +  H +D T++++  ++    +    + S
Sbjct: 83  VIAATGENVQEVCKAVAWLGDEEVAIHDDCYIFRHQMDPTFVSYFFQTAHFHEQKARLAS 142

Query: 352 -GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
                 +   ++ R+    PP++ Q +I +V++   A    L  ++E      +  R + 
Sbjct: 143 ESKLARVSGANLARIVAPAPPLEVQREIVSVLDKFRALEAELKAELEARREQYRYYRDAL 202



 Score = 47.1 bits (110), Expect = 0.006,   Method: Composition-based stats.
 Identities = 24/191 (12%), Positives = 57/191 (29%), Gaps = 11/191 (5%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKYLPKDG-NSRQSDTS 76
           P+   ++P+ +  +   GR           +  I   ++ +  G          R     
Sbjct: 13  PQGVPLMPLGQLGEFIRGRRFTKADYVDSGLGSIHYGEIYTDYGTTASSVHRFVRPELKG 72

Query: 77  TVSIFAKGQILYGKLGP-----YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
           ++ +   G ++    G          A + D +        + +   + P  +  +  + 
Sbjct: 73  SLRLARPGDLVIAATGENVQEVCKAVAWLGDEEVAIHDDCYIFR-HQMDPTFVSYFFQTA 131

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
              ++   +   + ++      +  I  P PPL  Q  I   +         L  E    
Sbjct: 132 HFHEQKARLASESKLARVSGANLARIVAPAPPLEVQREIVSVLDKFRALEAELKAELEAR 191

Query: 192 IELLKEKKQAL 202
            E  +  + AL
Sbjct: 192 REQYRYYRDAL 202


>gi|283834998|ref|ZP_06354739.1| type I restriction enzyme EcoAI specificity protein [Citrobacter
           youngae ATCC 29220]
 gi|291069285|gb|EFE07394.1| type I restriction enzyme EcoAI specificity protein [Citrobacter
           youngae ATCC 29220]
          Length = 571

 Score = 74.8 bits (182), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 57/491 (11%), Positives = 119/491 (24%), Gaps = 81/491 (16%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKL--NTGRTSESGKD----IIYIGLE 54
           +K  K  P+   S  +    +P  W+ V +    ++     +     +       Y G  
Sbjct: 83  IKKTKPLPEI--SEEEKPFELPVGWEWVRLGEIVEVLDYMRKPISKDERTQGIYPYYGAS 140

Query: 55  DVESGTGKYL-PKDGNSRQSDTSTVSIFAKGQILYG-KLGPYLRKAIIADFDGICSTQFL 112
            +      Y+          D +      K       K        ++  F  I + +FL
Sbjct: 141 GIVDHVSDYIFDDKLVLVGEDGAKWRKGDKTAFCISGKSWVNNHAHVLKVFKSIITNEFL 200

Query: 113 VLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQ----- 167
           V                   + Q                  I      +  L +Q     
Sbjct: 201 VNYLTISDLAHFITGTTVPKLNQAKLISIPVIISPIKTQININAKIEQLMSLCDQLEQHS 260

Query: 168 --------------------VLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
                                   +++     RI             +   KQ ++   V
Sbjct: 261 LTSLDAHQQLVETLLTTLTGSQNADELAENWARISEHFDTLFTTEASIDALKQTILQLAV 320

Query: 208 TKGLNPDVKMKD-------------------------------SGIEWVGLVPDHWEVKP 236
              L P     +                               S  E    +P  WE   
Sbjct: 321 MGKLVPQDPNDEPASELLKRIAQEKTQLVKDGKIKKQKPLPPISDEEKPFELPSGWEWCR 380

Query: 237 FFALVTELNR---KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYE----TYQIVDPG 289
             ++   LN    K+     + +  L   NI   +      +   +         ++   
Sbjct: 381 LGSIFNFLNGYAFKSEWFSPAGLRLLRNANIAHGVTNWKDVVYIPNEMRDDFENYVLSEN 440

Query: 290 EIVFR----FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV 345
           +IV       I+      ++R + +    +   A      + + +T+L   ++SY     
Sbjct: 441 DIVISLDRPIINTGLKYATIRKSDLPCLLLQRVAKFKNYANTVSNTFLTTWLKSYFFINS 500

Query: 346 FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV----EKIEQSIV 401
                S     +  + ++     +    EQ  I +  N   +  + L        +  + 
Sbjct: 501 IDPGRSNGVPHISTKQLEMTLFPLLSQSEQDRIISKANELISICEKLKYHIQTTQQTQLH 560

Query: 402 LLKERRSSFIA 412
           L      + I 
Sbjct: 561 LADALTDAAIN 571


>gi|86158750|ref|YP_465535.1| type I restriction-modification system specificity subunit
           [Anaeromyxobacter dehalogenans 2CP-C]
 gi|85775261|gb|ABC82098.1| type I restriction-modification system specificity subunit
           [Anaeromyxobacter dehalogenans 2CP-C]
          Length = 404

 Score = 74.8 bits (182), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 56/383 (14%), Positives = 113/383 (29%), Gaps = 23/383 (6%)

Query: 46  KDIIYIGLEDV-ESGTGKYLPKDGNSRQSDTSTVSIFAK--GQILYGKLGPYLRKAIIAD 102
           +  +++G+ +V E G          +               G +++       R AII +
Sbjct: 31  EGPVFLGISNVTEDGHLDLSSIRHIAEDDFPKWTRRVEPRAGDLVFTYEATLNRYAIIPN 90

Query: 103 -FDGICSTQFLVLQPK--DVLPELLQGWLLSIDVTQRIEAIC-EGATMSHADWKGIGNIP 158
            F G    +  +++P    V P  L  +  + +  + +      GAT+           P
Sbjct: 91  GFRGCLGRRMALIRPNLARVDPRFLHYYFFTPEWREVVRKNTLAGATVDRLPLTKFPEFP 150

Query: 159 MPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMK 218
           + +P L+EQ  I   + A    ID                 +AL          P  +  
Sbjct: 151 VRVPSLSEQRRIARVLAAYDGLIDNSKRRIGVLE----RMARALYREWFVLFRYPGAQTT 206

Query: 219 DSGIEWVGLVPDHWEVKP---FFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL 275
                 +G VP  W ++       +      K+    E +        I      R+   
Sbjct: 207 SRMSTRIGRVPRDWVLRSPKEIAEVQYGFPFKSALFSEDSAAGTPVVRIRDIPVGRSETY 266

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
             E   +   +  G+++       +            R +        +P G  S     
Sbjct: 267 TTEPAASRYEIQNGDVLVGMDGDFHMCI-----WSSGRALQNQRVARFRPSGEWSALHLL 321

Query: 336 LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
           L  +  +  +  A+       L    ++ + +  PP      +          I   +  
Sbjct: 322 LALTAPVQALNRAIIGTTVAHLGDSHIRGILLGEPPPP----VLARAKEVFEPIGREIAT 377

Query: 396 IEQSIVLLKERRSSFIAAAVTGQ 418
           ++Q I  L+  R   +   + GQ
Sbjct: 378 LQQRIRNLRATRDLLLPRLMAGQ 400



 Score = 44.4 bits (103), Expect = 0.034,   Method: Composition-based stats.
 Identities = 15/107 (14%), Positives = 35/107 (32%), Gaps = 14/107 (13%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTG-------RTSESGKDIIYIGLEDVESGTGKYLPKDGNS 70
           IG +P+ W +   K   ++  G        + +S      + + D+  G      +    
Sbjct: 213 IGRVPRDWVLRSPKEIAEVQYGFPFKSALFSEDSAAGTPVVRIRDIPVG------RSETY 266

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPK 117
                ++      G +L G  G +    I +    + + +    +P 
Sbjct: 267 TTEPAASRYEIQNGDVLVGMDGDF-HMCIWSSGRALQNQRVARFRPS 312


>gi|327390254|gb|EGE88595.1| type I restriction modification DNA specificity domain protein
           [Streptococcus pneumoniae GA04375]
          Length = 345

 Score = 74.8 bits (182), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 58/345 (16%), Positives = 113/345 (32%), Gaps = 58/345 (16%)

Query: 106 ICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLA 165
           I ST F+VL        L   +LLS +   R+     G +    +      + + +PPL+
Sbjct: 2   IASTAFIVLDTLLNETYLKY-YLLSDNFINRVNNKSTGTSYPAINDYNFNLLLIALPPLS 60

Query: 166 EQVLIREKIIAETVRIDTLITERIRFIELLKEKK----QALVSYIVTKGLNPDVKMKDS- 220
           EQ  I E I +   ++D       R  +L KE      ++++ Y +   L       +S 
Sbjct: 61  EQQRIIEAIESALEKVDEYAESYNRLEQLDKEFPDKLKKSILQYAMQGKLVEQDPNDESV 120

Query: 221 --------------------------------------GIEWVGLVPDHWEVKPFFALVT 242
                                                   E    +P+ WE      + +
Sbjct: 121 EVLLEKIRAEKQKLFEEGKIKKKDLDISIVSQGDDNSYYEEVPCEIPESWEWVRLNDITS 180

Query: 243 ELNRKNTKLIESNILSLSYGNIIQKLETRNMGL-------KPESYETYQIVDPGEIVFRF 295
            + R  +    +  +         +    ++ L          SY+  +++  G++++  
Sbjct: 181 YIQRGKSPKYSNIPIYPVIAQKCNQWSGFSIDLARFIDPETVHSYQKERLLRDGDLMWNS 240

Query: 296 IDLQNDKRSLRSAQVMERGIITSA-----YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG 350
             L    R     +         A      + V    I+  ++   + S  +  V     
Sbjct: 241 TGLGTLGRLAIYHENKNPYAWAVADSHVTVIRVLSGVINCHFIYNFLSSPIVQSVIEEKA 300

Query: 351 SGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
           SG   ++ L  + +K   + +PP+ EQ  I + I    A ID L+
Sbjct: 301 SGSTKQKELLTKTIKEYLIPLPPLPEQSRIVDKIEQFFAHIDALI 345



 Score = 64.8 bits (156), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 23/109 (21%), Positives = 43/109 (39%), Gaps = 5/109 (4%)

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIK 373
           +I S    V    ++ TYL + + S +         +G    ++   +   L + +PP+ 
Sbjct: 1   MIASTAFIVLDTLLNETYLKYYLLSDNFINRVNNKSTGTSYPAINDYNFNLLLIALPPLS 60

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIAAAVTGQ 418
           EQ  I   I     ++D   E   +   L KE     + S +  A+ G+
Sbjct: 61  EQQRIIEAIESALEKVDEYAESYNRLEQLDKEFPDKLKKSILQYAMQGK 109



 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 29/181 (16%), Positives = 50/181 (27%), Gaps = 15/181 (8%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT-----GKYLPKDGNSRQSD 74
            IP+ W+ V +   T       S    +I    +   +                      
Sbjct: 165 EIPESWEWVRLNDITSYIQRGKSPKYSNIPIYPVIAQKCNQWSGFSIDLARFIDPETVHS 224

Query: 75  TSTVSIFAKGQILYGKL--GPYLRKAIIADF-----DGICSTQFLVLQPKDVLPELLQGW 127
                +   G +++     G   R AI  +        +  +   V++    +      +
Sbjct: 225 YQKERLLRDGDLMWNSTGLGTLGRLAIYHENKNPYAWAVADSHVTVIRVLSGVINCHFIY 284

Query: 128 LLSIDVTQR---IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
                   +    E             K I    +P+PPL EQ  I +KI      ID L
Sbjct: 285 NFLSSPIVQSVIEEKASGSTKQKELLTKTIKEYLIPLPPLPEQSRIVDKIEQFFAHIDAL 344

Query: 185 I 185
           I
Sbjct: 345 I 345


>gi|194246615|ref|YP_002004254.1| Type I restriction-modification system methyltransferase subunit
           [Candidatus Phytoplasma mali]
 gi|193806972|emb|CAP18407.1| Type I restriction-modification system methyltransferase subunit
           [Candidatus Phytoplasma mali]
          Length = 925

 Score = 74.8 bits (182), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 53/396 (13%), Positives = 120/396 (30%), Gaps = 34/396 (8%)

Query: 28  VPIKRFTKLNTGRTSESGKD------IIYIGLEDVESGTGKY--LPKDGNSRQSDTSTVS 79
           + +     +  G      +       I +  + D+     K            +  +T+ 
Sbjct: 540 IKLSDVVNIQKGNNPPKDEKAYIEGKIPFFKVSDIAKFHIKLNLSESVHKINPAYKTTLK 599

Query: 80  IFAKGQILYGKLGPYLR---KAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
           +F K  +L    G   +   +A+I+    + ST   +        ++L  +L    +   
Sbjct: 600 LFKKNSLLIPTTGESCKLNHRALISKDSYVAST---ITVLTCDENKILPLFLFYCLLFVD 656

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           +    +       D +   NI +P+P + EQ  I + +I     I+        +     
Sbjct: 657 MGNFVKNDFYPGVDSQMFKNILIPLPTIKEQEKIIKNLIPYNKIIEQSKKIYANWRP--- 713

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
                   + V K     +++K+      G+    +                 + I+S  
Sbjct: 714 --------HFVIKKEWKSLRLKEISSIIQGVSIKKFISFEIDNTKKIDKENKVEFIKSGQ 765

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG-- 314
           +       ++K    N  LK    +   ++   +++     +    R       +     
Sbjct: 766 VRGLDKFNLKKRHYSNENLKIPENK---LLQNEDLILNKQGIGTAGRICFFKSSLFNNST 822

Query: 315 --IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVP 370
                   +      I+  YL + M         + M  G   +  +    ++ L +  P
Sbjct: 823 TINTCGYIIRANKQIINPRYLLYFMSGIIGFSELHNMAIGTTGQIQIPITKIENLIIKFP 882

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
            ++EQ  I   +NVE   I    + I      +K+ 
Sbjct: 883 SLEEQEKIIQSLNVEYELIKNQKKIIHILNQKIKQY 918



 Score = 42.9 bits (99), Expect = 0.094,   Method: Composition-based stats.
 Identities = 25/206 (12%), Positives = 59/206 (28%), Gaps = 24/206 (11%)

Query: 21  IPKHWKVVPIKRFTKLNTG--------------RTSESGKDIIYIGLEDVES-GTGKYLP 65
           I K WK + +K  + +  G              +  +    + +I    V          
Sbjct: 717 IKKEWKSLRLKEISSIIQGVSIKKFISFEIDNTKKIDKENKVEFIKSGQVRGLDKFNLKK 776

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGK--LGPYLRKAIIADFDGICST-----QFLVLQPKD 118
           +  ++         +     ++  K  +G   R           ST      +++   K 
Sbjct: 777 RHYSNENLKIPENKLLQNEDLILNKQGIGTAGRICFFKSSLFNNSTTINTCGYIIRANKQ 836

Query: 119 VLPELLQGWLL--SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIA 176
           ++      + +   I  ++                  I N+ +  P L EQ  I + +  
Sbjct: 837 IINPRYLLYFMSGIIGFSELHNMAIGTTGQIQIPITKIENLIIKFPSLEEQEKIIQSLNV 896

Query: 177 ETVRIDTLITERIRFIELLKEKKQAL 202
           E   I           + +K+  +++
Sbjct: 897 EYELIKNQKKIIHILNQKIKQYCESI 922


>gi|17231117|ref|NP_487665.1| hypothetical protein alr3625 [Nostoc sp. PCC 7120]
 gi|17132758|dbj|BAB75324.1| alr3625 [Nostoc sp. PCC 7120]
          Length = 353

 Score = 74.8 bits (182), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 30/190 (15%), Positives = 58/190 (30%), Gaps = 11/190 (5%)

Query: 220 SGIEWVGLVPDHWEVKPF---FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK 276
           +  E    +P+ W           +T+      K  E   + LS  N+       N    
Sbjct: 145 TQNEIEYTIPNTWCWARLANICEFITDGTHYTPKYTEHGRIFLSSQNVKPFSFMPNNHKF 204

Query: 277 PESYETYQIVDPG-----EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST 331
                    +        +I+   +     + ++   ++     ++   +      ID  
Sbjct: 205 VSEEAYQGYIKNRKPEFEDILLTRVGAGIGEAAVIDQKLEFAIYVSLGLLRPFKEFIDPY 264

Query: 332 YLAWLMRSYDLCKVFYAMGSG---LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
           YL   + S    K       G    + +L    ++   V VPP+ EQ  I    +     
Sbjct: 265 YLVIWLNSPIGTKHSQKNTYGKGVSQGNLNLGLIRGFVVSVPPLAEQKRIVEKCDRLMFL 324

Query: 389 IDVLVEKIEQ 398
            D L  K++Q
Sbjct: 325 CDTLEAKLKQ 334



 Score = 50.6 bits (119), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 34/174 (19%), Positives = 56/174 (32%), Gaps = 12/174 (6%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTS--ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD---- 74
           IP  W    +    +  T  T       +   I L         ++P +      +    
Sbjct: 153 IPNTWCWARLANICEFITDGTHYTPKYTEHGRIFLSSQNVKPFSFMPNNHKFVSEEAYQG 212

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIAD----FDGICSTQFLVLQPKDVLPELLQGWLLS 130
                      IL  ++G  + +A + D    F    S   L    + + P  L  WL S
Sbjct: 213 YIKNRKPEFEDILLTRVGAGIGEAAVIDQKLEFAIYVSLGLLRPFKEFIDPYYLVIWLNS 272

Query: 131 IDVTQRIEA--ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
              T+  +     +G +  + +   I    + +PPLAEQ  I EK        D
Sbjct: 273 PIGTKHSQKNTYGKGVSQGNLNLGLIRGFVVSVPPLAEQKRIVEKCDRLMFLCD 326



 Score = 44.4 bits (103), Expect = 0.033,   Method: Composition-based stats.
 Identities = 9/42 (21%), Positives = 19/42 (45%)

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
           +    V  + V +PP+ EQ  I    +   +  D + ++ +Q
Sbjct: 2   ISGGKVYPIVVCLPPLTEQKRIVEKCDRLLSTCDEIEKRQQQ 43


>gi|15829147|ref|NP_326507.1| restriction modification enzyme subunit S1A [Mycoplasma pulmonis
           UAB CTIP]
 gi|14090091|emb|CAC13849.1| RESTRICTION MODIFICATION ENZYME SUBUNIT S1A [Mycoplasma pulmonis]
          Length = 368

 Score = 74.8 bits (182), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 44/359 (12%), Positives = 110/359 (30%), Gaps = 28/359 (7%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDII-YIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           ++  + +   L  G++  + K +   IG+ ++ S   K     G     D +        
Sbjct: 2   EIYKLGQILNLEKGKSKYNAKYVSQNIGIYNLYSSKTKDQGIFGKINSYDFNGEY----- 56

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            IL    G Y       +     ++   +L+  + + +      L +   +    +  G+
Sbjct: 57  -ILITTHGAYAGTVKYVNEKFSTTSNCFILKVNENIVKTKFLSYLLLLQEKTFNDMAIGS 115

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
              +     I +  + +P L  Q  I + I     +I+      +          Q  + 
Sbjct: 116 AYGYLKNYNINDFEVNLPNLKIQSAIIKIIEPLEKQINAFDELILSE--------QKSLQ 167

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
           + +   LN    +           P  ++      +   L+ K     +  +        
Sbjct: 168 HYLNYFLNKLASI----------NPSIFKNYKLGEIAKILSGKTPSTAKKELWKKEIPFF 217

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
                   +  +  ++    I   G I+F           L +     + I +   +   
Sbjct: 218 GPGDLDNMVPKRFITFNEKMIKRSGTILFSSAATIGKVGILDNLSWFNQQITS---IEAN 274

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
            + +   +L +L++       F      +  ++K +  +   + +P +K Q  I  +I 
Sbjct: 275 NNYVMDKFLFFLLKKISSKIKFENSSGTIFPTIKKKYFENFTLEIPNLKTQSAILGIIE 333



 Score = 44.4 bits (103), Expect = 0.032,   Method: Composition-based stats.
 Identities = 27/183 (14%), Positives = 58/183 (31%), Gaps = 14/183 (7%)

Query: 29  PIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            +    K+ +G+T  +       K+I + G  D+++     +PK   +            
Sbjct: 189 KLGEIAKILSGKTPSTAKKELWKKEIPFFGPGDLDN----MVPKRFITFNEKMIK----R 240

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
            G IL+       +  I+ +          +    + + +    +LL    ++       
Sbjct: 241 SGTILFSSAATIGKVGILDNLSWFNQQITSIEANNNYVMDKFLFFLLKKISSKIKFENSS 300

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           G        K   N  + IP L  Q  I   I     +I+ L  ++    +     +  L
Sbjct: 301 GTIFPTIKKKYFENFTLEIPNLKTQSAILGIIEPLHKKINLLKQKKKLLEKRFIYYQNHL 360

Query: 203 VSY 205
           +  
Sbjct: 361 IKE 363



 Score = 41.3 bits (95), Expect = 0.29,   Method: Composition-based stats.
 Identities = 16/142 (11%), Positives = 35/142 (24%), Gaps = 3/142 (2%)

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
               +   K +              +  I               +    ++ ++      
Sbjct: 31  YNLYSSKTKDQGIFGKINSYDFNGEYILITTHGAYAGTVKYVNEKFSTTSNCFILKVNEN 90

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           I  T     +                   LK  ++    V +P +K Q  I  +I     
Sbjct: 91  IVKTKFLSYLLLLQEKTFNDMAIGSAYGYLKNYNINDFEVNLPNLKIQSAIIKIIEPLEK 150

Query: 388 RI---DVLVEKIEQSIVLLKER 406
           +I   D L+   ++S+      
Sbjct: 151 QINAFDELILSEQKSLQHYLNY 172


>gi|332880948|ref|ZP_08448618.1| type I restriction modification DNA specificity domain protein
           [Capnocytophaga sp. oral taxon 329 str. F0087]
 gi|332681122|gb|EGJ54049.1| type I restriction modification DNA specificity domain protein
           [Capnocytophaga sp. oral taxon 329 str. F0087]
          Length = 977

 Score = 74.4 bits (181), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 58/399 (14%), Positives = 128/399 (32%), Gaps = 49/399 (12%)

Query: 26  KVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVE-SGTGKYLPKDGNSRQSDTSTV 78
           ++V       +  G   +           I +  +++  SG  + + +    +    +  
Sbjct: 600 EIVDFSDIATITRGVNYQRAQQTTYKTSNIILPADNITLSGELEVIKEIYIDQSIILAPE 659

Query: 79  SIFAKGQILYGKLGPYLRKAII-------ADFDGICSTQFLVLQPKDVLPELLQGWL-LS 130
               +G I                       +        +       LP+ L  +L  S
Sbjct: 660 KQLRQGDIFICMSSGSKEHVGKVAFIDQDTKYYAGGFMGIIRTSTSRCLPQYLFFYLLKS 719

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
           +   + I+ + +GA +++     I +I +P+P +  Q  I +++      I    +    
Sbjct: 720 LKYREEIKLLTQGANINNISS-TINSIKIPLPSVEVQQKIVDELDGYRKIIFGAQSIVSN 778

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
           +   L + K   +             +K S I  +            F++  E       
Sbjct: 779 YEPHLPKFKTGNI-------------VKLSDICEINR----------FSVNPEREYGEES 815

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
               +I S++ G        +  G K       + ++ G+I+   +       S      
Sbjct: 816 FTYIDISSVTSGTGKVDTSQKIKG-KDAPSRARRGMNKGDILMSTVRPNLKAFSYVDFDT 874

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY-AMGSGLRQSLKFEDVKRLPVLV 369
               + ++ +  + P  ++  YL + +    +      AM   +  S+   D++ L ++ 
Sbjct: 875 KG-FVASTGFAVLTPKNVNGKYLLYALLDDFVGNQLSDAMSKAMYPSVNKSDLENLDIIC 933

Query: 370 PPIKEQFDITNVINVETARIDVLVE-------KIEQSIV 401
           P I+EQ +    I  E + I    E       KIEQ I 
Sbjct: 934 PSIEEQNEAVIQIERELSFIKSSEEIVSIFTKKIEQKIN 972


>gi|322510788|gb|ADX06102.1| putative type I restriction modification DNA specificity domain
           protein [Organic Lake phycodnavirus 1]
          Length = 316

 Score = 74.4 bits (181), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 55/326 (16%), Positives = 115/326 (35%), Gaps = 40/326 (12%)

Query: 79  SIFAKGQILYGKLGPYLRKAIIAD--FDGICSTQFLVLQPKD-VLPELLQGWLLSIDVTQ 135
               KG IL    G    K  I +  +    + +   +  K  V+ + +  W L  D+  
Sbjct: 2   FEIQKGNILIALSGATTGKIGIYNLEYKSYLNQRVGKITEKTGVIQKYIYYWYLCCDIES 61

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            +  + +G    +     I NI +PIPPL +Q  I + +     + +    E+I+ ++ L
Sbjct: 62  TVLKMAQGTAQPNISTNNISNIKIPIPPLEKQEEIVKYLDFIYEKANKTSQEKIKELKTL 121

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
            E             LN      ++ ++ +G V          + +    R +    E  
Sbjct: 122 NEFC-----------LNTQKMFGENVVKTLGEV---------CSRIKGEKRNSKDGKEIG 161

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
           +  L Y +I+  L         E            I+    +                G 
Sbjct: 162 LYPLYYCSILGYLYLDTFDYTGEG-----------IIINKTNGSGKAMIYFGNDKYNVGK 210

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
            T  + +     I      +L+ +  L + ++      ++S+  ED+ ++ + +PP++ Q
Sbjct: 211 TTLHFKSKSNIIITKYIYYYLLHNIPLIEKYFK--GANQKSIVEEDLFKIKIPIPPLETQ 268

Query: 376 FDITNVINVETARIDVLVEKIEQSIV 401
            +I           D L++++E+ I 
Sbjct: 269 QEIVEY----CEYNDTLIKQLEKEIE 290



 Score = 70.2 bits (170), Expect = 6e-10,   Method: Composition-based stats.
 Identities = 13/120 (10%), Positives = 40/120 (33%)

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV 345
           +  G I+         K  + + +           +  K   I      W +       V
Sbjct: 4   IQKGNILIALSGATTGKIGIYNLEYKSYLNQRVGKITEKTGVIQKYIYYWYLCCDIESTV 63

Query: 346 FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
                   + ++   ++  + + +PP+++Q +I   ++    + +   ++  + +  L E
Sbjct: 64  LKMAQGTAQPNISTNNISNIKIPIPPLEKQEEIVKYLDFIYEKANKTSQEKIKELKTLNE 123


>gi|15828902|ref|NP_326262.1| restriction modification enzyme subunit S2A [Mycoplasma pulmonis
           UAB CTIP]
 gi|14089845|emb|CAC13604.1| RESTRICTION MODIFICATION ENZYME SUBUNIT S2A [Mycoplasma pulmonis]
          Length = 395

 Score = 74.4 bits (181), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 49/365 (13%), Positives = 105/365 (28%), Gaps = 15/365 (4%)

Query: 27  VVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQI 86
           +  +    K+  G +  + K I+     + +        K  N+          + KG I
Sbjct: 3   IYKLGEIAKIVGGNSKFTEKYIL-----NNQGIYSVISSKTSNNGIYGCINTFQYEKG-I 56

Query: 87  LYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATM 146
              K G Y       +     ++    L+  +        +    +  + I++I  G+T 
Sbjct: 57  TISKDGVYAGTIFYQEKPFSITSHAFYLEITNKNVLEKYLFYFLKNKQEHIQSITYGSTR 116

Query: 147 SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYI 206
                    +  + IP L  Q  I + I  +               E   +K  +++  I
Sbjct: 117 DSLTKTDFSDFVVSIPSLETQSAIIKIIEPKEDLFFRHKNLVRIDSEENTKKDLSILIKI 176

Query: 207 VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN--- 263
           +   L   +   D  I        H+       L +            +I  +  GN   
Sbjct: 177 IEP-LEKQINAFDELIFSEQKSLQHYLNYFLNKLASINPSIFKNYKLGDITKIVSGNPKF 235

Query: 264 ---IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG--IITS 318
               I+K E     +   S+            +      +   S+ +         I  S
Sbjct: 236 TKSYIEKNEGVYPVISSSSFNNGVYGYINTFDYEKGITISKDGSVGNIFYQSNCFSINAS 295

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
           A +      +      + +       +       + + +   D+ ++ V +P +K Q  I
Sbjct: 296 AMLIQPVENMILEKYLFYLLRSKEKNIKQVFSGSVIKHIYPRDIVKIKVDLPTLKTQSAI 355

Query: 379 TNVIN 383
             +I 
Sbjct: 356 LGIIE 360


>gi|86151110|ref|ZP_01069326.1| type II restriction-modification enzyme [Campylobacter jejuni subsp.
            jejuni 260.94]
 gi|85842280|gb|EAQ59526.1| type II restriction-modification enzyme [Campylobacter jejuni subsp.
            jejuni 260.94]
          Length = 1279

 Score = 74.4 bits (181), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 46/404 (11%), Positives = 124/404 (30%), Gaps = 31/404 (7%)

Query: 27   VVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGT-GKYLPKDGNSRQSDTSTVS 79
            +V +K       G T           DI ++ + D  +        +         S   
Sbjct: 890  LVKLKICGDFFMGGTPSRKNINYWNGDIKWLTISDYSNRQVIMDTKEKITREGFKNSNAK 949

Query: 80   IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
            +  KG ++   +   + +  I   D   +   + + P +        + +      ++  
Sbjct: 950  MIQKGAVVVS-IYATIGRVGILGEDMTTNQAIVAIIPNEEFINKYLMYAI-DYFKFQLYN 1007

Query: 140  ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
                 +  + +   + N+ +P PPL  Q  I  +      + +TL      +  L+K   
Sbjct: 1008 EVITTSQQNINLGILQNMVIPKPPLEIQKQIVAECEKIEEQYNTLSLSIKEYQNLIKAML 1067

Query: 200  QA--LVSYIVTKGLNP------DVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
            Q   ++       LN       ++   +   E++       +       + +L+     L
Sbjct: 1068 QKCGIIEDNQEYELNSILDKINNLCKINLDSEFLSSFNKTIKEYALSNPIFKLSIGKRVL 1127

Query: 252  IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
                + +         +      +  E  + Y      + V   ID       +   +  
Sbjct: 1128 NNELLENGQIPVYSANVLEVFGFVNKEILQDY----DNDSVLWGIDGDWMVGFIPKNKKF 1183

Query: 312  ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
                             ++ Y+++++      + F       +     + +K L V +P 
Sbjct: 1184 YPTDHCGVLRVDDTKI-NAKYISFILNEAGKKQGFSR-----KLRASIDRIKALRVKLPS 1237

Query: 372  IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            ++ Q  I ++    T +I+  + + +  +  L++ +   +   +
Sbjct: 1238 LEFQDQIADI----TDKIEKKINEYKIELDRLEKEKEKILQKYL 1277


>gi|297380618|gb|ADI35505.1| type I R-M system specificity subunit [Helicobacter pylori v225d]
          Length = 204

 Score = 74.4 bits (181), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 27/200 (13%), Positives = 64/200 (32%), Gaps = 12/200 (6%)

Query: 229 PDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI------IQKLETRNMGLKPESYET 282
           P +W+      +       + + IE+     +  N+           +R +    +    
Sbjct: 7   PLNWQRVRLGDIAEIKRGASPRPIENPKWFCANSNVGWVRISDISKNSRFLYKTAQKLSK 66

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
             I     +    + +       +         I   ++  +   ID  YL + +  Y  
Sbjct: 67  KGIEKSRLVKQNSLIMSMCATIGKPIITKIDTCIHDGFVVFENPKIDLNYLYYFL-CYIE 125

Query: 343 CKVFYAMGSGLRQSLKFEDVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIV 401
            +   +   G + +L  + +K   V  P  + EQ  I N+++     I  L  K  Q   
Sbjct: 126 KEWLESGQQGSQVNLNVDLIKNKEVFYPKDLNEQIAIANILSALDNEITSLKNKKRQ--- 182

Query: 402 LLKERRSSFIAAAVTGQIDL 421
             +  + +     ++ +I +
Sbjct: 183 -FENIKKALNHDLMSAKIRV 201



 Score = 60.2 bits (144), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 24/194 (12%), Positives = 61/194 (31%), Gaps = 13/194 (6%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSES---------GKDIIYIGLEDVESGTGKYLPKDGNSR 71
           +P +W+ V +    ++  G +              ++ ++ + D+   +           
Sbjct: 6   LPLNWQRVRLGDIAEIKRGASPRPIENPKWFCANSNVGWVRISDISKNSRFLYKTAQKLS 65

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
           +       +  +  ++        +  I      I     +   PK  L      +    
Sbjct: 66  KKGIEKSRLVKQNSLIMSMCATIGKPIITKIDTCIHDGFVVFENPKIDLN---YLYYFLC 122

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRIDTLITERIR 190
            + +      +  +  + +   I N  +  P  L EQ+ I   + A    I +L  ++ +
Sbjct: 123 YIEKEWLESGQQGSQVNLNVDLIKNKEVFYPKDLNEQIAIANILSALDNEITSLKNKKRQ 182

Query: 191 FIELLKEKKQALVS 204
           F  + K     L+S
Sbjct: 183 FENIKKALNHDLMS 196


>gi|317181779|dbj|BAJ59563.1| Type I restriction enzyme specificity subunit [Helicobacter pylori
           F57]
          Length = 390

 Score = 74.4 bits (181), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 60/395 (15%), Positives = 116/395 (29%), Gaps = 29/395 (7%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKD------IIYIGLEDVESGTGKYLPKDGNSRQ---S 73
             W+   +K   K+  G T  +         I +I  +D+ +  G+Y+ K   S      
Sbjct: 2   SEWQTFCLKDLGKIVGGATPSTNNPKNYGNKIAWITPKDLSTLQGRYIKKGSRSISRLGF 61

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
            + +  +  K  IL+    P      IA      +  F  + P   +      + L    
Sbjct: 62  KSCSCVLLPKHAILFSSRAPI-GYVAIAKKRLCTNQGFKSIIPNKKI-YFEFLYYLLKYH 119

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
              I  +  G T        +G   + IPP   +    +KI      +D  I    +  E
Sbjct: 120 KDNISNMGVGTTFKDISKPALGLFKVKIPPTYYEQ---QKIARTLSILDQKIENNHKINE 176

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
           LL +  + L      +    D   K        +       +                ++
Sbjct: 177 LLHKILELLYEQYFVRFDFLDENNKPYQTSGGKMKFSKELNRLIPNDFEVKTLGELTQLK 236

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
               + ++ +   K         P   ETYQ      I+    +               +
Sbjct: 237 VGNKNANHSSNQGKYPFFTCSNNPLRCETYQFEGKHIIISGNGNFY-------VTHYDGK 289

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
                   AV P+  +   L +L        +       + + +   D++ + +++P +K
Sbjct: 290 FDAYQRTYAVSPNNPNHYVLIYLFVKSYTNYLKLQSRGSIIKFITKSDIENIKIVLPNLK 349

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
                 NV+         ++E   QS   L   R 
Sbjct: 350 TYAKWNNVL--------KMIENNNQSTQTLTALRD 376


>gi|160939417|ref|ZP_02086767.1| hypothetical protein CLOBOL_04310 [Clostridium bolteae ATCC
           BAA-613]
 gi|158437627|gb|EDP15389.1| hypothetical protein CLOBOL_04310 [Clostridium bolteae ATCC
           BAA-613]
          Length = 174

 Score = 74.4 bits (181), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 18/133 (13%), Positives = 44/133 (33%), Gaps = 8/133 (6%)

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
                 G+ +      +            E+  I   +M+++ +   ++   + + +  L
Sbjct: 49  RCYAYKGDTLLVC---KGSGSGAVVRLTQEKAHIARQFMSLRANEKMTSDFCYYL-TGFL 104

Query: 343 CKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
                   +GL + +    V    V +PP+ EQ  I        +++D  +   E  +  
Sbjct: 105 SDRIKRNATGLIEGIDRGTVLNQTVFLPPLHEQKKIARF----FSKLDFTITAHENMLDT 160

Query: 403 LKERRSSFIAAAV 415
           L   R+  +    
Sbjct: 161 LINERTGLMQRLF 173


>gi|223983260|ref|ZP_03633453.1| hypothetical protein HOLDEFILI_00733 [Holdemania filiformis DSM
           12042]
 gi|223964753|gb|EEF69072.1| hypothetical protein HOLDEFILI_00733 [Holdemania filiformis DSM
           12042]
          Length = 342

 Score = 74.4 bits (181), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 51/367 (13%), Positives = 107/367 (29%), Gaps = 46/367 (12%)

Query: 29  PIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLP--KDGNSRQSDTSTVSI 80
            +    ++ +G T  +        DI +I   ++   T       +    +    + +  
Sbjct: 6   KLGDICEIVSGTTPNTSCSKYWNGDINWITPAELSDDTIIINESVRKITRQAVIDTGLKS 65

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
           F  G ++     P   K  IA  +  C+  F  L   + +  +   +      TQ + ++
Sbjct: 66  FPPGTVILSSRAPI-GKVAIAGREMYCNQGFKNLICSERINNI-YLYWFLKRNTQYLNSL 123

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
             GAT        + +I + +P + EQ+   E +     +   +I  R R +  L +  +
Sbjct: 124 GRGATFKEISKSIVSDIQISLPLIEEQIKRAENL----RKCWNVIILRKRELCKLDDLIK 179

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
           A     V    NP    K+  ++ V  V                N        + I+   
Sbjct: 180 A---RFVEMFGNPITNNKNFVVKKVIEVVKLQRGHDLPIQNRIQNSTIPVWGSNGIVGYH 236

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
                                       G++ +          +L S       II    
Sbjct: 237 NEAKSNSGIITGRSGTL-----------GKVYYYAHPFWPLNTTLYSINTYNNNII---- 281

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
                      YL +L+  Y+L +           +L   +     ++  P+  Q +  +
Sbjct: 282 -----------YLKYLLEFYELQRF---ASGTGVPTLNRNEFHNEMIIDVPLDLQNEFAD 327

Query: 381 VINVETA 387
            +     
Sbjct: 328 FVKQVDK 334



 Score = 50.2 bits (118), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 11/161 (6%), Positives = 44/161 (27%), Gaps = 4/161 (2%)

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
           +K    +I  ++   +       N  ++  + +              + L +     + A
Sbjct: 24  SKYWNGDINWITPAELSDDTIIINESVRKITRQAVIDTGLKSFPPGTVILSSRAPIGKVA 83

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVL 368
                      +  +      +    +     +   +         + +    V  + + 
Sbjct: 84  IAGREMYCNQGFKNLICSERINNIYLYWFLKRNTQYLNSLGRGATFKEISKSIVSDIQIS 143

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
           +P I+EQ      +     +   ++   ++ +  L +   +
Sbjct: 144 LPLIEEQIKRAENL----RKCWNVIILRKRELCKLDDLIKA 180


>gi|291559576|emb|CBL38376.1| Restriction endonuclease S subunits [butyrate-producing bacterium
           SSC/2]
          Length = 422

 Score = 74.4 bits (181), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 53/415 (12%), Positives = 116/415 (27%), Gaps = 32/415 (7%)

Query: 30  IKRFTKLNTGRTSES---GKDIIYIGLEDVESGTGKYLPK-DGNSRQSDTSTVSIFAKGQ 85
           +     +++G +S     G    ++  + V +         D                G 
Sbjct: 9   LSELYDMSSGISSTKEQSGHGAPFVSFKTVFNNYFLPEELPDLMDTNEKEQETYSIKMGD 68

Query: 86  ILYGKLGPYLR-----KAIIADFDGICSTQFLVL----QPKDVLPELLQGWLLSIDVTQR 136
           +   +    +         + ++ G   + F+        + V P+ +  +  S    + 
Sbjct: 69  VFITRTSETIDELAMSCVAVKNYPGATYSGFIKRLRPKTARIVYPKYMAFYFRSELFRKA 128

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           +         +  +      + + +P   EQV I + + +   +I           E L+
Sbjct: 129 VTNNAFMTLRASFNKDIFTFLDIYLPDYHEQVKIGDMLYSIECKIQKNKKINDYLEEQLQ 188

Query: 197 EKKQALVSYIVTKGLN-----PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR----- 246
                  +       +         +         ++P  W+VKP   + +  N      
Sbjct: 189 LLYDYWFTQFNFPDDDGQPYKASNGLMVWNENINHIIPAGWQVKPMGTICSFRNGINYNK 248

Query: 247 ---KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKR 303
               NT     N+ ++S   +       +    P        V    I+     +    R
Sbjct: 249 NVEGNTTYKIINVRNISSSTLFLDESNFDEICLPRQQGDKYCVSDESIIIARSGIPGATR 308

Query: 304 SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVK 363
            L +       I     +   P+         L             G  + +++  E +K
Sbjct: 309 ILCNPSS--NIIFCGFIICCTPYNNTLQNYLTLYLKQFEGSSATQTGGSILKNVSQETLK 366

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            L V +PP      + N  N   + I  L+    +  V L   R   +   + GQ
Sbjct: 367 NLLVPIPP----QSLLNQFNDSVSHIYNLIIGNIKENVQLTTLRDWLLPMLMNGQ 417



 Score = 50.6 bits (119), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 26/191 (13%), Positives = 55/191 (28%), Gaps = 7/191 (3%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKD----IIYIGLEDVESGTGKYLPKDGNSR--QSD 74
           IP  W+V P+        G       +       I + ++ S T      + +       
Sbjct: 225 IPAGWQVKPMGTICSFRNGINYNKNVEGNTTYKIINVRNISSSTLFLDESNFDEICLPRQ 284

Query: 75  TSTVSIFAKGQILYGKLG-PYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
                  +   I+  + G P   + +      I    F++              L     
Sbjct: 285 QGDKYCVSDESIIIARSGIPGATRILCNPSSNIIFCGFIICCTPYNNTLQNYLTLYLKQF 344

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
                    G+ + +   + + N+ +PIPP +      + +      I   I E ++   
Sbjct: 345 EGSSATQTGGSILKNVSQETLKNLLVPIPPQSLLNQFNDSVSHIYNLIIGNIKENVQLTT 404

Query: 194 LLKEKKQALVS 204
           L       L++
Sbjct: 405 LRDWLLPMLMN 415


>gi|317178236|dbj|BAJ56025.1| Type I R-M system specificity subunit [Helicobacter pylori F16]
          Length = 178

 Score = 74.4 bits (181), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 28/164 (17%), Positives = 61/164 (37%), Gaps = 11/164 (6%)

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
           S+       K++  ++       +T  I D   I           R L      +  I++
Sbjct: 23  SVEQITQQGKIKVYDVNNFIGYTDTTFISDKPYISIVKDGSVGRVRILPP----KTNILS 78

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFD 377
           +    +  H   + +L +L+ ++D         S +   + F+D K   + +PP+ EQ  
Sbjct: 79  TMGALIANHRTTTEFLFYLLSNFDFKNF---TSSSIIPHIYFKDYKEKTIFLPPLNEQSA 135

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           I N+++     I  L  K  Q     +  + +     ++ +I +
Sbjct: 136 IANILSALDNEIISLKNKKRQ----FENIKKALNHDLMSAKIRV 175



 Score = 42.1 bits (97), Expect = 0.18,   Method: Composition-based stats.
 Identities = 40/184 (21%), Positives = 65/184 (35%), Gaps = 15/184 (8%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           +P +W+ V +       T            + +E + +  GK    D N+    T T  I
Sbjct: 2   LPLNWQRVRLGDIANYLTSN----------LSVEQI-TQQGKIKVYDVNNFIGYTDTTFI 50

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
             K  I   K G   R  I+     I ST   ++       E L   L + D        
Sbjct: 51  SDKPYISIVKDGSVGRVRILPPKTNILSTMGALIANHRTTTEFLFYLLSNFDFK----NF 106

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
              + + H  +K      + +PPL EQ  I   + A    I +L  ++ +F  + K    
Sbjct: 107 TSSSIIPHIYFKDYKEKTIFLPPLNEQSAIANILSALDNEIISLKNKKRQFENIKKALNH 166

Query: 201 ALVS 204
            L+S
Sbjct: 167 DLMS 170


>gi|308183007|ref|YP_003927134.1| type I R-M system S protein [Helicobacter pylori PeCan4]
 gi|308065192|gb|ADO07084.1| type I R-M system S protein [Helicobacter pylori PeCan4]
          Length = 406

 Score = 74.4 bits (181), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 50/404 (12%), Positives = 110/404 (27%), Gaps = 35/404 (8%)

Query: 22  PKHWKVVPIKRFTKL-------NTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           PK      +    +         T +  +       +     ++    Y  +  N  Q+ 
Sbjct: 13  PKGVGFRKLGEVLEYDQPNKYCVTSKEFDKSYPTPVLTAG--KTFILGYTNEKDNIYQAS 70

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
            S+  I                   +     + S+   +L PK+    +   +       
Sbjct: 71  KSSPVIIF-DDF-------TTATQWVDFPFKVKSSAMKILLPKNPTINIRFIFFYM---Q 119

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
                I                + +PIPPL  Q  I + + A T     L TE     + 
Sbjct: 120 TIPYNIGGEHARHWISRYSQ--LEVPIPPLEIQQEIVKILDAFTELNTELNTELNTRKKQ 177

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
            +  +  L+        N   +      E +   P    +K     +        KL E 
Sbjct: 178 YQYYQNMLLD------FNDINQSHKDAKEKLAQKPYPKRLKTLLQTLAPKGVGFRKLGEV 231

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFI--DLQNDKRSLRSAQVME 312
                      + +    + +     +     +        I            S   + 
Sbjct: 232 CDFQKGKSITKKAVTFGKVPVISGGRQPAYYHNEANRSGETIAISSSGVYAGYVSYWDIP 291

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI 372
             +  S  ++ K   +   YL   + +     +     +G    +  +D++   + +PP+
Sbjct: 292 VFLADSFSVSPKQKTLMPKYLFHYLTTQQ-DAIHATKSTGGIPHVYSKDLQNFLIPIPPL 350

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           + Q +I  +++  +     L+  I   I   K+     R   + 
Sbjct: 351 EIQQEIVKILDQFSLLTTDLLAGIPAEIKARKKQYEYYREKLLT 394


>gi|309804934|ref|ZP_07698993.1| conserved domain protein [Lactobacillus iners LactinV 09V1-c]
 gi|308165747|gb|EFO67971.1| conserved domain protein [Lactobacillus iners LactinV 09V1-c]
          Length = 376

 Score = 74.4 bits (181), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 52/385 (13%), Positives = 109/385 (28%), Gaps = 47/385 (12%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
            +    +L T   S+       +    +   T + +P   N + +D S   +    + ++
Sbjct: 7   KLGELIELVTETNSDLKYQENDVRGMTI---TKEIIPTKANVKNTDLSKFLVVHPNEFIF 63

Query: 89  GKL--------GPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
                      G               +        K  LP+ L       +  +     
Sbjct: 64  NPRTHGKKIGFGYNNSNKAFLISWNNIAFSLSEYGRKLALPKYLFLHFNRSEWDRAACFS 123

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
             G++     W  + ++ + +P LA Q        A                        
Sbjct: 124 SWGSSTEVFSWNALCDMDIDLPSLAIQQKYVNVYNAMVSN-------------------- 163

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
                   +GL       D+ IE +          P  ++   ++  N    E+    + 
Sbjct: 164 ---QKAYERGLEDLKLTCDAYIEDL------RRQIPCESIGPYIDSVNENNSENAYTHVQ 214

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
                         ++      Y +V  G I +    +     S+      E  +++  Y
Sbjct: 215 GVESGGSFIDTRANMQGVDIGKYTVVRKGNIAYNPSRINI--GSIALYNSDEPCVVSPMY 272

Query: 321 MAVKPHGID---STYLAWLMRSYDLCKV-FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
              K    D     YL       +  +  +Y     +R +  F  ++ +   +P I+ Q 
Sbjct: 273 SVFKVTDTDKVSPEYLMLWFNRTEFQRYTWYYAAGSVRDTFDFNLMQEVEFPIPSIETQK 332

Query: 377 DITNVINVETARIDVLVEKIEQSIV 401
           DI N++     R   + EK++  I 
Sbjct: 333 DIVNILTAYNKR-KSINEKLKAQIK 356


>gi|52548299|gb|AAU82148.1| conserved hypothetical protein [uncultured archaeon GZfos11A10]
          Length = 411

 Score = 74.4 bits (181), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 64/420 (15%), Positives = 127/420 (30%), Gaps = 38/420 (9%)

Query: 24  HWKVVPIKRF-----TKLNTGRTSE-------SGKDIIYIGLEDVESGTGKYLPKDGNSR 71
            W+ V +  F       + TG           + K    I + +V  G  +    +    
Sbjct: 2   SWRKVQLAEFLDDGGIDIRTGPFGTQLKAADYTPKGTPVINVRNVGYGDLRPEKLEFVPD 61

Query: 72  QSDTS-TVSIFAKGQILYGKLGPYLRKAIIAD---FDGICSTQFLVLQPKDVLPELL--Q 125
           Q  +     I     I++G+ G   R   +++        S    +    D +       
Sbjct: 62  QVVSRLPKHILETRDIVFGRKGAVDRHLFVSESETGWMQGSDCIRLRVLTDAIHPAFLSF 121

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
              L       +      ATM+  +   IG IP+ +P  A Q  I   + A    I+   
Sbjct: 122 ALRLPSHKQWMLTQCSNKATMASLNQDVIGRIPINLPDPATQDEIATILSAYDDLIENNR 181

Query: 186 TERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN 245
                  +  +   +    ++   G           +     VP+ WE K    +   + 
Sbjct: 182 RRIQLLEQAARLLYREWFVHLRFPG--------HEHVAITDGVPEGWEKKKIAEVCETVG 233

Query: 246 R-----KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQN 300
                 K ++  E +I  +   +I +      +  + +  E        ++V     L  
Sbjct: 234 GGTPSTKVSEYWEGDITWIVPSDITKNDCLALLDSERKITEMGLRKSSAKMVPAETILMT 293

Query: 301 DKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKF 359
            + S+    +M+  + T+          D   +  L           +   G     +  
Sbjct: 294 SRASVGFFALMDFEVCTNQGFISIIPHEDELRMYLLFNLMSRVTEIRSNAKGTTYPEISK 353

Query: 360 EDVKRLPVLVPPI---KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
              + + V+VP      E     + I  +  R+  L  ++E +  LL  R    +  AVT
Sbjct: 354 GRFRGMDVVVPSKPLVSEFMRFASDIIQQVRRLKRLTLQLEAARNLLLPR---LMNGAVT 410



 Score = 67.9 bits (164), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 26/196 (13%), Positives = 57/196 (29%), Gaps = 11/196 (5%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESG------KDIIYIGLEDVESGT---GKYLPKDGNSR 71
           +P+ W+   I    +   G T  +        DI +I   D+            +     
Sbjct: 216 VPEGWEKKKIAEVCETVGGGTPSTKVSEYWEGDITWIVPSDITKNDCLALLDSERKITEM 275

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
               S+  +     IL       +    + DF+   +  F+ + P +    +   + L  
Sbjct: 276 GLRKSSAKMVPAETILMTS-RASVGFFALMDFEVCTNQGFISIIPHEDELRMYLLFNLMS 334

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            VT+ I +  +G T           + + +P                 ++  L    ++ 
Sbjct: 335 RVTE-IRSNAKGTTYPEISKGRFRGMDVVVPSKPLVSEFMRFASDIIQQVRRLKRLTLQL 393

Query: 192 IELLKEKKQALVSYIV 207
                     L++  V
Sbjct: 394 EAARNLLLPRLMNGAV 409


>gi|30248401|ref|NP_840471.1| restriction modification system, type I [Nitrosomonas europaea ATCC
           19718]
 gi|30138287|emb|CAD84295.1| Restriction modification system, type I [Nitrosomonas europaea ATCC
           19718]
          Length = 446

 Score = 74.4 bits (181), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 56/436 (12%), Positives = 134/436 (30%), Gaps = 43/436 (9%)

Query: 25  WKVVPIKRFT-KLNTGRTSES-------GKDIIYIGLEDVESGTGKYLPKD-GNSRQSDT 75
           W    ++    K+  G    S          I  I  + +          +      +D+
Sbjct: 5   WPYKRVEEIALKVAMGPFGSSIKVETFTDTGIPIISGQHLRDAELTDSEFNFITEEHADS 64

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADF----DGICSTQ--FLVLQPKDVLPELLQGWLL 129
              +   +G +++   G   + A I +       + S +  +L      +LPE +  +  
Sbjct: 65  LKNANVQRGDVIFTHAGNIGQVAFIPNHSKYQRYVISQRQFYLRCDTSIILPEFVVYYFK 124

Query: 130 SIDVTQRIEAICEGATMSHA--DWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
           S +   ++ A      +         +  I +P+P + EQ ++   I A  V+I      
Sbjct: 125 SPEGQHKLLANANQVGVPSIARPSSYLKTIEVPVPSIEEQQVVVRNIKALDVKIRANRRI 184

Query: 188 RIRFIELLKEKKQALVSY---------IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFF 238
                 + +   ++              + +G +P      +      L  D    +   
Sbjct: 185 NQTLEAMAQAVFKSWFVDFDPVKARIAAIEQGQDPLRAAMRAISGKTDLELDQMPREHHD 244

Query: 239 ALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDL 298
            L          + ES + ++  G  ++++         ++ ++    +    V+    +
Sbjct: 245 QLAATAALFPDTMQESELGAIPKGWQVKRVGDLIELAYGKALKSTDRQEGAVPVYGSGGI 304

Query: 299 QNDK----RSLRSAQVMERGIITSAYMAVKPHGIDSTYLA---------WLMRSYDLCKV 345
                       +  V  +G + S Y    P     T            +   +     +
Sbjct: 305 TGCHNEALVPHGAIIVGRKGTVGSLYWEDDPFYPIDTTFYVKPKAVPMTYCFYAMQTLGL 364

Query: 346 FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
                      L  E+V RL ++ P       + N  +   A+I   ++  E +   L E
Sbjct: 365 NKMNTDAAVPGLNRENVYRLELVKPSTP----VLNAFDGLVAQIRKTMQANETTGQSLAE 420

Query: 406 RRSSFIAAAVTGQIDL 421
            R + +   ++G++ +
Sbjct: 421 LRDTLLPKLLSGELSV 436



 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 28/194 (14%), Positives = 56/194 (28%), Gaps = 21/194 (10%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +GAIPK W+V  +    +L  G+          +   D + G    +P  G+   +    
Sbjct: 262 LGAIPKGWQVKRVGDLIELAYGKA---------LKSTDRQEGA---VPVYGSGGITGCHN 309

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
            ++   G I+ G+ G         D      T F V      +                 
Sbjct: 310 EALVPHGAIIVGRKGTVGSLYWEDDPFYPIDTTFYVKPKAVPMTYCFYAMQTLGLNKMNT 369

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           +A   G    +            +  +     +         +I   +       + L E
Sbjct: 370 DAAVPGLNRENVYR---------LELVKPSTPVLNAFDGLVAQIRKTMQANETTGQSLAE 420

Query: 198 KKQALVSYIVTKGL 211
            +  L+  +++  L
Sbjct: 421 LRDTLLPKLLSGEL 434


>gi|219851731|ref|YP_002466163.1| restriction modification system DNA specificity domain protein
           [Methanosphaerula palustris E1-9c]
 gi|219545990|gb|ACL16440.1| restriction modification system DNA specificity domain protein
           [Methanosphaerula palustris E1-9c]
          Length = 205

 Score = 74.4 bits (181), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 28/199 (14%), Positives = 66/199 (33%), Gaps = 21/199 (10%)

Query: 225 VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ 284
           +G  P+ W    F   +      +    E +   +            + G+K    E+  
Sbjct: 26  IGCYPERWREGRFDEFILLQRGYDITKDEQHDGIVPV--------VSSSGIKSFHNESRA 77

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCK 344
              PG ++ R   L             +     ++       G +  ++ +L+ + +L  
Sbjct: 78  N-GPGVVIGRKGTLGKVFYVDCPYWPHD-----TSLWVKDFKGNNPKFVYYLLTTLNLKS 131

Query: 345 VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLK 404
           +          +L    V  L + +P I++Q  I  ++    + ID      +     L+
Sbjct: 132 L---DTGTSNPTLNRNYVHALKIAMPNIEDQKIIVEIL----SSIDKKTATEQSRKEALE 184

Query: 405 ERRSSFIAAAVTGQIDLRG 423
              +S +   +T +I ++ 
Sbjct: 185 ILFASLLHDLMTVKIRVKN 203


>gi|218281983|ref|ZP_03488301.1| hypothetical protein EUBIFOR_00870 [Eubacterium biforme DSM 3989]
 gi|218217039|gb|EEC90577.1| hypothetical protein EUBIFOR_00870 [Eubacterium biforme DSM 3989]
          Length = 383

 Score = 74.4 bits (181), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 45/399 (11%), Positives = 113/399 (28%), Gaps = 49/399 (12%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           + W    I    +L++G T  + +        I +I   ++++    +            
Sbjct: 17  EDWCTSTIGENFRLSSGLTPSTKEKAYFNNGIIPWINSGELKNKYISFTENKLTLDAVKK 76

Query: 76  STVSIFAKGQILYGKLG----PYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
             ++I+    ++    G        KA I   D   S   +       +      ++   
Sbjct: 77  HNLTIYPMDTMVIAIYGLEAAGVRGKASITKMDSTISQSCMAFNSLGNVLTQFMYYVYKK 136

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
           +         +G    +     + +  +  P   EQ+ I   +     +I+T       +
Sbjct: 137 EAQILGTRYAQGTKQQNLSSDLLSSYKLLYPSKEEQLKIVNFLSLIDEKIETQSKIINDY 196

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
             L K   ++ +                S I  +G            +      +KN   
Sbjct: 197 KLLKKYITKSFIKQ-------KGTSYLLSEIAELG-------RGRVISSAEISKQKNPIY 242

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
              +  + + G +         G                  +               +  
Sbjct: 243 PVYSSQTSNNGVMGYLDNYDYEGE-----------------YITWTTDGANAGTVYYRNG 285

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
           +        +    +G D+ Y++ ++  Y    V   + +     L    +  + + +P 
Sbjct: 286 KFNCTNVCGILKIKNGYDAYYISNILNCYTKKYVSTNLAN---PKLMNNVMANIKINLPS 342

Query: 372 IKEQFDITNVINVETA--RIDVLV--EKIEQSIVLLKER 406
           I+ Q   +N++       +I+  +    ++Q + LLK  
Sbjct: 343 IERQKYFSNILKAIEYRVKIEQDIKLNLVKQKVFLLKNM 381



 Score = 63.3 bits (152), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 26/179 (14%), Positives = 56/179 (31%), Gaps = 8/179 (4%)

Query: 234 VKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ---IVDPGE 290
                + +T   ++        I  ++ G +  K  +                 I     
Sbjct: 27  NFRLSSGLTPSTKEKAYFNNGIIPWINSGELKNKYISFTENKLTLDAVKKHNLTIYPMDT 86

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG 350
           +V     L+      +++       I+ + MA    G   T   + +   +   +     
Sbjct: 87  MVIAIYGLEAAGVRGKASITKMDSTISQSCMAFNSLGNVLTQFMYYVYKKEAQILGTRYA 146

Query: 351 SGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
            G  +Q+L  + +    +L P  +EQ  I N +    + ID  +E   + I   K  + 
Sbjct: 147 QGTKQQNLSSDLLSSYKLLYPSKEEQLKIVNFL----SLIDEKIETQSKIINDYKLLKK 201


>gi|297379659|gb|ADI34546.1| type I restriction enzyme S protein (hsdS) [Helicobacter pylori
           v225d]
          Length = 363

 Score = 74.4 bits (181), Expect = 4e-11,   Method: Composition-based stats.
 Identities = 42/400 (10%), Positives = 105/400 (26%), Gaps = 52/400 (13%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKY-LPKDGNSRQSDT 75
             W+   +K   K+ TG+T ++          ++I   D+         P+  +     +
Sbjct: 2   SEWQTFCLKDLGKIVTGKTPKTSNLDFFNGKYMFITPNDLHGTYRVIKTPRTLSDSGLKS 61

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
              +      IL G +G      +  D     + Q   +            +    +  +
Sbjct: 62  IQNNTIDNTSILVGCIGDVGMVRMCFDKCA-TNQQINSITDIKDFCNPYYLYYYLSNKKE 120

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
             + I     +          I + +P +  Q  I   +     +I+             
Sbjct: 121 LFKNIALSTVVPIIPKTTFQEIEVLLPNIETQQKIARTLSILDQKIENNHKINELL---- 176

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
                                              H      +    +   KN  L +  
Sbjct: 177 -----------------------------------HTLAYKIYEYYFKYKPKNANLEQII 201

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
           I +     +++  +         +     +  P  I+       N   +      + +  
Sbjct: 202 IENPKSSIMVKNAQKTQDKYPFFTSGDNILFYPKAIIDGRNCFLNTGGNAGIKFYVGKAS 261

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
            ++    +  +   S YL  L+ +               + L+   +K+ P+ +P + E 
Sbjct: 262 YSTDTWCICANEF-SDYLYLLLSNIKTHINQSFFQGTSLKHLQKNLLKKYPIYMPSVHEI 320

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
                +I         L+    ++   L++ R   +   +
Sbjct: 321 KKFNQIIMPLL----TLISINTRTSKKLEQIRDFLLPLLL 356


>gi|308189188|ref|YP_003933319.1| type I restriction-modification system specificty subunit [Pantoea
           vagans C9-1]
 gi|308059698|gb|ADO11870.1| type I restriction-modification system specificty subunit [Pantoea
           vagans C9-1]
          Length = 378

 Score = 74.1 bits (180), Expect = 4e-11,   Method: Composition-based stats.
 Identities = 57/409 (13%), Positives = 120/409 (29%), Gaps = 54/409 (13%)

Query: 20  AIPK--------HWKVVPIKRFTKLNTGRTSESGK-----DIIYIGLEDVESGTGKYLPK 66
            +P+         W+ + +     +   +     +     D+ +  +         ++ K
Sbjct: 6   KVPEIFFKRFGREWENLTLGDLGSVAMNKRIFKHQTTIAGDVPFFKIGTFGKQPDAFISK 65

Query: 67  DGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQG 126
                    +       G +L    G   R       +       +V    D        
Sbjct: 66  --ALFNEYKAKYPYPVAGDLLLSASGSIGRVVEYKGEEHYYQDSNIVWLKHDGKINNSFL 123

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
            +    V     +  EG+T+     K I +  +  P   EQ+ I         ++DTLI 
Sbjct: 124 KVFYSMVKW---SGLEGSTIQRLYNKNILDTEISTPERQEQIAIGNY----FQKLDTLIN 176

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLN--PDVKMKDSGIEWVGLVPDHWEVKPFFALVTEL 244
           +  +  + L   K+AL+  +  K     P+++ K    EW  +                L
Sbjct: 177 QHQQKHDKLSSIKKALLEKMFPKEGETIPEIRFKGFSGEWKEVTLSSVIDVRSGKDYKHL 236

Query: 245 NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
            + N  +  +     S  + +   +      +  + +   I+                  
Sbjct: 237 GKGNIPVYGTGGYMHSVDSALSNDKDAIGIGRKGTIDKPYILRA---------------- 280

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKR 364
                      + + + AV     +  +L  L +  D  K      S    SL    +  
Sbjct: 281 -------PFWTVDTLFYAVPLTSFNLDFLFCLFQKIDWKKHDE---STGVPSLSKIAINN 330

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           +PV      EQ  I N       ++D L+ + +Q I  L   + + ++ 
Sbjct: 331 VPVYATNELEQTAIGNY----FQKLDALINQHQQQITKLNNIKQACLSK 375


>gi|156932819|ref|YP_001436735.1| hypothetical protein ESA_00615 [Cronobacter sakazakii ATCC BAA-894]
 gi|156531073|gb|ABU75899.1| hypothetical protein ESA_00615 [Cronobacter sakazakii ATCC BAA-894]
          Length = 483

 Score = 74.1 bits (180), Expect = 4e-11,   Method: Composition-based stats.
 Identities = 62/479 (12%), Positives = 136/479 (28%), Gaps = 81/479 (16%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDI----IYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
             WK V +  F     G+  +  K+      Y+G  +V  G   +        +      
Sbjct: 3   SEWKQVRLGDFIDSCLGKMLDQKKNKGAFHPYLGNSNVRWGEFDFSNLAEMKFEDTEHER 62

Query: 79  SIFAKGQILYGKLGPYLRKAIIADF--DGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
               KG ++  + G   R AI  D   +         ++    L      +   +     
Sbjct: 63  YALKKGDLVVCEGGEPGRCAIWEDEIPNMKIQKALHRIRTLPGLVTKYLYYWFLLAGKTG 122

Query: 137 I-EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
             E    G T+ H   + + ++ + +PP+  +      + +   +I           ++ 
Sbjct: 123 SLEPYFTGTTIKHLTGRSLADLTITLPPVKHKEKCALVLGSLDRKITHNKKINQTLEQMA 182

Query: 196 KEKKQALV------------------------------------SYIVTKGLNPDVK--M 217
           +   ++                                      +  V +  +P+    +
Sbjct: 183 QALFKSWFVDFEPVKAKMTVLEAGGSQEDATLAAMSAISGKDADTLAVFEREHPEQYAEL 242

Query: 218 KDS--------GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLE 269
           K +            +G +P+ WE +PF  L++     +    ES+        II+  +
Sbjct: 243 KATAELFPSAMQESELGEIPEGWEFQPFGELLSHTIGGDWGKDESDDKHKMPVRIIRGTD 302

Query: 270 TRNMG----------LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI---- 315
             N+              E     + ++ G+IV         + + RS  V    +    
Sbjct: 303 IPNIKSCQDSNVPFRYVEEKKLKTRSLNAGDIVIEVSGGSPTQPTGRSIYVTNEILKRLS 362

Query: 316 -----ITSAYMAVKPHGIDSTYLAWLMRSYD--LCKVFYAMGSGLRQSLKFEDV-KRLPV 367
                 +   +           L   +           Y   S    + + +   +   V
Sbjct: 363 LPVEPASFCRLFRPKSKELGMVLGLYLERIYQDGKTWLYQNQSTGISNFQTKVFLENEMV 422

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
            V P +    I  +    T     L+       + L + R + +   ++G+I L    Q
Sbjct: 423 AVAPSE----ILKLFYKTTLPFVKLM--HSSENIKLTQLRDTLLPKLLSGEITLPEAEQ 475



 Score = 44.8 bits (104), Expect = 0.027,   Method: Composition-based stats.
 Identities = 12/99 (12%), Positives = 24/99 (24%), Gaps = 13/99 (13%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDV-ESGTGKYLPKDGN 69
           +G IP+ W+  P         G      +        +  I   D+    + +       
Sbjct: 258 LGEIPEGWEFQPFGELLSHTIGGDWGKDESDDKHKMPVRIIRGTDIPNIKSCQDSNVPFR 317

Query: 70  SRQSDTSTVSIFAKGQILY-----GKLGPYLRKAIIADF 103
             +           G I+          P  R   + + 
Sbjct: 318 YVEEKKLKTRSLNAGDIVIEVSGGSPTQPTGRSIYVTNE 356


>gi|110834690|ref|YP_693549.1| type I restriction-modification system, S subunit [Alcanivorax
           borkumensis SK2]
 gi|110647801|emb|CAL17277.1| type I restriction-modification system, S subunit [Alcanivorax
           borkumensis SK2]
          Length = 391

 Score = 74.1 bits (180), Expect = 4e-11,   Method: Composition-based stats.
 Identities = 23/128 (17%), Positives = 55/128 (42%), Gaps = 7/128 (5%)

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY 340
            +   ++P +++   I     +  +   +   R I +  ++  +       +L     S 
Sbjct: 52  SSKNCIEPRDVLLSKIVPHIRRCWVVPEKGGYRQIGSGEWIIFRDERFYPGFLKHYFTSE 111

Query: 341 DLCKVFYAMGSGLRQSL---KFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
              + F    +G+  SL   +   V+R+ + +PP++EQ  I  +++    + D +  K +
Sbjct: 112 LFHRQFMNTVAGVGGSLVRARPAGVERIEIPLPPLEEQKRIATILD----KADAIRRKRQ 167

Query: 398 QSIVLLKE 405
           Q+I L +E
Sbjct: 168 QAIQLAEE 175



 Score = 60.6 bits (145), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 56/378 (14%), Positives = 130/378 (34%), Gaps = 34/378 (8%)

Query: 24  HWKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            W +VP      +  G +        +    + +   +    + L           S+ +
Sbjct: 2   SWPLVPASEIM-VKRGGSLNPAKFPDETFELLSIPAFDKNKPEIL-----KGAEIGSSKN 55

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDG----ICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
                 +L  K+ P++R+  +    G    I S ++++ + +   P  L+ +  S    +
Sbjct: 56  CIEPRDVLLSKIVPHIRRCWVVPEKGGYRQIGSGEWIIFRDERFYPGFLKHYFTSELFHR 115

Query: 136 RIEAICEGATMSHAD--WKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
           +      G   S       G+  I +P+PPL EQ  I   +         +  +R + I+
Sbjct: 116 QFMNTVAGVGGSLVRARPAGVERIEIPLPPLEEQKRIATILDKADA----IRRKRQQAIQ 171

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
           L +E  +A+    +    +P    K   ++ +  + +           +EL+     L  
Sbjct: 172 LAEEFLRAV---FLDMFGDPVTNPKGWKVKKIDDLCEVQGGLQVSKKRSELSISAPYLRV 228

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVF--RFIDLQNDKRSLRSAQVM 311
           +N+L     N +   E + + L    Y+    +   +++      +     RS      +
Sbjct: 229 ANVL----RNRLYLGEIKEINLTQAEYD-RVRLKRDDVLIVEGHGNPNEIGRSALWTGEI 283

Query: 312 ERGIITSAYMAVK--PHGIDSTYLAWLMRSYDLCKVFYAMGSGLR--QSLKFEDVKRLPV 367
           +  +  +  + V+     I   ++   + S           +      ++    VK   +
Sbjct: 284 DGMVHQNHLIRVRVKSKEIRPRFVNDYINSPGGRVQMMKASNTTSGLNTISTGIVKSTEI 343

Query: 368 LVPPIKEQFDITNVINVE 385
           +VPPI  Q    +V++  
Sbjct: 344 IVPPIYLQDKYMSVVSKF 361



 Score = 42.1 bits (97), Expect = 0.17,   Method: Composition-based stats.
 Identities = 28/204 (13%), Positives = 61/204 (29%), Gaps = 18/204 (8%)

Query: 22  PKHWKVVPIKRFTKLNTG-----RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           PK WKV  I    ++  G     + SE      Y+ + +V             +      
Sbjct: 192 PKGWKVKKIDDLCEVQGGLQVSKKRSELSISAPYLRVANVLRNRLYLGEIKEINLTQAEY 251

Query: 77  TVSIFAKGQILY----GKLGPYLRKAIIA-DFDGICSTQFLVL---QPKDVLPELLQGWL 128
                 +  +L     G      R A+   + DG+     L+    + K++ P  +  ++
Sbjct: 252 DRVRLKRDDVLIVEGHGNPNEIGRSALWTGEIDGMVHQNHLIRVRVKSKEIRPRFVNDYI 311

Query: 129 LSIDVT-QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
            S     Q ++A    + ++      + +  + +PP+  Q      +      +      
Sbjct: 312 NSPGGRVQMMKASNTTSGLNTISTGIVKSTEIIVPPIYLQDKYMSVVSKFEDVLVKSRMH 371

Query: 188 RIRFIELLKEKKQALVSYIVTKGL 211
                        +L+       L
Sbjct: 372 EGGID----SSLFSLIKKAFKGNL 391


>gi|145221398|ref|YP_001132076.1| restriction modification system DNA specificity subunit
           [Mycobacterium gilvum PYR-GCK]
 gi|145213884|gb|ABP43288.1| restriction modification system DNA specificity domain
           [Mycobacterium gilvum PYR-GCK]
          Length = 368

 Score = 74.1 bits (180), Expect = 4e-11,   Method: Composition-based stats.
 Identities = 59/400 (14%), Positives = 119/400 (29%), Gaps = 41/400 (10%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W  VPI  F +              +  +   +     Y     N +    ST +     
Sbjct: 3   WPEVPIDSFCR-----------PKQWPTISQSQLTPTGYPVYGANGQIGWYSTYNH-ESE 50

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            +L    G       ++       T   +         +   +L+ +   +R+     G+
Sbjct: 51  TVLITCRGATCGTVNVSPPKSYV-TGNAMALDSLDEARIHLRYLVHVLTPERLRRSITGS 109

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
                  + +  I +P+PPLA+Q  I   +               R+ EL +    ++ +
Sbjct: 110 AQPQITRESLKAITVPLPPLADQRRIAAILDQADRLRSHRHGLLRRYSELKRAGFASMFA 169

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
            I + G              +G   +               R++  L    +   +    
Sbjct: 170 GISSSG-------------KLGDYGEVQGGLQVSRK-----RESLPLERPYLRVANIYRG 211

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM--ERGIITSAYMA 322
              L         E+      ++PG+++F       ++    +         +  +  + 
Sbjct: 212 KLDLGEVKTIRVTEAESMRVRLEPGDLLFVEGHANPNEVGRVAEWNGSVPDCLHQNHLIR 271

Query: 323 VKPHG--IDSTYLAWLMRSYDLCKVFYAMGSGLR--QSLKFEDVKRLPVLVPPIKEQFDI 378
           V+     ++ TY      S D    F   G       ++    ++  P+ VPPI  Q + 
Sbjct: 272 VRLDRSAVEPTYAEAWFNSRDGSMHFQRAGKTTSGLNTINASQLRAAPLPVPPISLQREY 331

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
             V N     ID  +        L+ E   S  + A +GQ
Sbjct: 332 VTVANA----IDNHLRDQTMQSELVDELFVSLQSRAFSGQ 367


>gi|262166149|ref|ZP_06033886.1| type I restriction-modification system specificity subunit S
           [Vibrio mimicus VM223]
 gi|262025865|gb|EEY44533.1| type I restriction-modification system specificity subunit S
           [Vibrio mimicus VM223]
          Length = 423

 Score = 74.1 bits (180), Expect = 4e-11,   Method: Composition-based stats.
 Identities = 46/406 (11%), Positives = 102/406 (25%), Gaps = 29/406 (7%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W    I       +        ++  + +       G         +            
Sbjct: 20  DWTQQRIGSILTDISRPVQLLDNELYQL-VTVKRRNEGVVPRSVVKGKNILVKNYFAIKA 78

Query: 84  GQILYGKLGPYLRKAIIADF---DGICSTQFLVLQPKDVLP-ELLQGWLLSIDVTQRIEA 139
           G  L  K         I      + + S ++LV+     +  +         ++ +    
Sbjct: 79  GDFLISKRQVVHGANGIVPESLDNAVVSNEYLVVTDNQKITAKFWSTISKRPEIKKLYFI 138

Query: 140 ICEGATMSHA--DWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
              G  +     D        + IP L EQ  I +        +D  I         L++
Sbjct: 139 SSYGVDIEKLVFDITDWKERYILIPELNEQQKITDF----FQNLDQQIELHQDKHRKLQQ 194

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN---------RKN 248
            K+A++  +  +      +++ +G +      D  E+  +    +              N
Sbjct: 195 LKKAMLDKMFPRAGKKVPELRFAGFDSDWETKDFQEIFIYIRNNSLSRAELNDDAGLGMN 254

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
               +  +      +   +                  +  G+IVF               
Sbjct: 255 VHYGDVLVKFGEILDFTLEKVPFITNGGAVEKMMPNRLQDGDIVFADAAEDLTVGKCCEI 314

Query: 309 QVMERGIITSAYM---AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKR 364
             +    + +                YL + + S         +  G    S+    +K 
Sbjct: 315 NKLGSQPLFAGLHTIAVRPKKAFAPKYLGYFLNSNLYHDQLLTLIQGTKVSSISKSSIKE 374

Query: 365 LPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
             V  P    EQ  I          ++ L+   +Q I  L+  + +
Sbjct: 375 TQVYYPKDAAEQAKIGEY----FHNLERLIVIQQQKINKLENIKQA 416



 Score = 62.1 bits (149), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 17/141 (12%), Positives = 51/141 (36%), Gaps = 7/141 (4%)

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
           K    + Y  +  G+ +     + +    +    +    +     +      I + + + 
Sbjct: 66  KNILVKNYFAIKAGDFLISKRQVVHGANGIVPESLDNAVVSNEYLVVTDNQKITAKFWST 125

Query: 336 LMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
           + +  ++ K+++    G+   +      D K   +L+P + EQ  IT+        +D  
Sbjct: 126 ISKRPEIKKLYFISSYGVDIEKLVFDITDWKERYILIPELNEQQKITDF----FQNLDQQ 181

Query: 393 VEKIEQSIVLLKERRSSFIAA 413
           +E  +     L++ + + +  
Sbjct: 182 IELHQDKHRKLQQLKKAMLDK 202


>gi|56418879|ref|YP_146197.1| type I restriction-modification system S subunit [Geobacillus
           kaustophilus HTA426]
 gi|56378721|dbj|BAD74629.1| type I restriction-modification system S subunit [Geobacillus
           kaustophilus HTA426]
          Length = 346

 Score = 74.1 bits (180), Expect = 4e-11,   Method: Composition-based stats.
 Identities = 47/363 (12%), Positives = 114/363 (31%), Gaps = 26/363 (7%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
           V +     + TG+   +  D             GKY     +       T S +    +L
Sbjct: 4   VSLGSLVNIRTGKLDANASDP-----------EGKYPFFTCSRETLKIDTYS-YDCECVL 51

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMS 147
               G    K     FD      +++      +  +   +        ++  +  G  + 
Sbjct: 52  VAGNGDLNVKYYNGKFDAY-QRTYIIESIDKNILNVKYLYYFMQLYVSKLRQMSIGGVIK 110

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
           +     + +  +P+P + +Q  I + +      ID    +     +L K       S  +
Sbjct: 111 YIKLNYLTDAKIPLPNIEKQNKIVKVLEKAQELIDKRKAQIKALDQLTK-------SLFL 163

Query: 208 TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK 267
               +      +  I  +G V    +  P  +            + + I +      ++ 
Sbjct: 164 EMFGDLKNNRYNWPIAELGDVCISIKDGPHVSPKYTQKGIPFISVNNIINNKWDFTNVKY 223

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
           +   +     E +      + G+I++         + +    +     +  A +    + 
Sbjct: 224 ISETD----YEIFAKRCKPEKGDILYTKGGTTGFAKYI-DIDIKFMNWVHLAVLKYDKNI 278

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGLRQS-LKFEDVKRLPVLVPPIKEQFDITNVINVET 386
           +D  +L  ++ S+           G+    L    +K++ VLVPP++ Q    +++    
Sbjct: 279 MDGIFLTHMLNSHFCYAQSQKYTRGIANRDLVLSQMKKIKVLVPPLERQKKFVSIVEKVP 338

Query: 387 ARI 389
           +RI
Sbjct: 339 SRI 341



 Score = 58.3 bits (139), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 14/106 (13%), Positives = 36/106 (33%), Gaps = 4/106 (3%)

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKR 364
           ++           +  +      I +    +      + K+      G+ + +K   +  
Sbjct: 60  VKYYNGKFDAYQRTYIIESIDKNILNVKYLYYFMQLYVSKLRQMSIGGVIKYIKLNYLTD 119

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
             + +P I++Q  I  V+     +   L++K +  I  L +   S 
Sbjct: 120 AKIPLPNIEKQNKIVKVLE----KAQELIDKRKAQIKALDQLTKSL 161


>gi|15645467|ref|NP_207641.1| type I restriction enzyme S protein (hsdS) [Helicobacter pylori
           26695]
 gi|2313983|gb|AAD07897.1| type I restriction enzyme S protein (hsdS) [Helicobacter pylori
           26695]
          Length = 298

 Score = 74.1 bits (180), Expect = 4e-11,   Method: Composition-based stats.
 Identities = 46/296 (15%), Positives = 104/296 (35%), Gaps = 14/296 (4%)

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
                ++++   I++   G  +       +  I +PIPPL  Q  I + + A T     L
Sbjct: 1   MFCFENLNIQNDIKSKSFGGIVKSISMNDLQQITIPIPPLEIQQEIVKILDAFTELNTEL 60

Query: 185 ITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEW----VGLVPDHWEVKPFFAL 240
            TE     +  +  +  L+ +      + D K+K            L P   E +    +
Sbjct: 61  NTELKARKKQYEYYQNMLLDFNDINQNHKDAKIKTYPKRLKTLLHTLAPKGVEFRKLGEV 120

Query: 241 VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQN 300
               N+K  K+ E + +       +        G   +        + GE +      + 
Sbjct: 121 CESTNKKTLKISEVSEVKNKGMYPVINSGRDLYGYYHDFN------NDGENITIASRGEY 174

Query: 301 DKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFE 360
                   +    G +   Y     + + + +L + +++ ++  +   +  G   +L   
Sbjct: 175 AGFINYFNEKFFAGGLCYPYKVKDTNELLTKFLYFYLKTNEIQIMENLVFRGSIPALNKA 234

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           D++ L + +PP++ Q +I  +++  +A    L+  I   I   K+     R   + 
Sbjct: 235 DIETLTIPIPPLEIQQEIVKILDQFSALTTDLLAGIPAEIKARKKQYEYYREKLLT 290



 Score = 43.2 bits (100), Expect = 0.088,   Method: Composition-based stats.
 Identities = 21/164 (12%), Positives = 50/164 (30%), Gaps = 15/164 (9%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGK--DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           PK  +   +    +    +T +  +  ++   G+  V +          +      +   
Sbjct: 109 PKGVEFRKLGEVCESTNKKTLKISEVSEVKNKGMYPVINSGRDLYGYYHDFNNDGEN--- 165

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFL---VLQPKDVLPELLQGWLLSIDVTQR 136
                 I     G Y       +             V    ++L + L  +L + ++   
Sbjct: 166 ------ITIASRGEYAGFINYFNEKFFAGGLCYPYKVKDTNELLTKFLYFYLKTNEIQIM 219

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
              +  G ++   +   I  + +PIPPL  Q  I + +   +  
Sbjct: 220 ENLVFRG-SIPALNKADIETLTIPIPPLEIQQEIVKILDQFSAL 262


>gi|184200170|ref|YP_001854377.1| type I restriction enzyme S protein [Kocuria rhizophila DC2201]
 gi|183580400|dbj|BAG28871.1| type I restriction enzyme S protein [Kocuria rhizophila DC2201]
          Length = 398

 Score = 74.1 bits (180), Expect = 4e-11,   Method: Composition-based stats.
 Identities = 19/122 (15%), Positives = 49/122 (40%), Gaps = 1/122 (0%)

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR-SYD 341
             I++  +++F           +R + +        A +   P  +D  YL + +R +  
Sbjct: 68  RSILEQDDLLFSIAGTIGRVARVRPSDLPGNTNQAVAIIRPNPEKVDRDYLYYCLRDTER 127

Query: 342 LCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
           + +    +   ++Q+L   +V  + + +P + EQ  I   +     +I+      E++  
Sbjct: 128 IARARTRVVQSVQQNLSLAEVSNIELPLPSLPEQRAIAATLGALDDKIESNRRLAERASA 187

Query: 402 LL 403
           L+
Sbjct: 188 LI 189



 Score = 61.3 bits (147), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 51/387 (13%), Positives = 126/387 (32%), Gaps = 40/387 (10%)

Query: 45  GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS--TVSIFAKGQILYGKLGPYLRKAIIA- 101
              I ++ +E +         K     +   +    SI  +  +L+   G   R A +  
Sbjct: 33  SSGINFVKVESITEAGTLNHSKLAFIDEQTHAMLARSILEQDDLLFSIAGTIGRVARVRP 92

Query: 102 -DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE--GATMSHADWKGIGNIP 158
            D  G  +    +++P     +    +    D  +   A      +   +     + NI 
Sbjct: 93  SDLPGNTNQAVAIIRPNPEKVDRDYLYYCLRDTERIARARTRVVQSVQQNLSLAEVSNIE 152

Query: 159 MPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMK 218
           +P+P L EQ  I   + A   +I++      R   L+      L++   T+ L P   + 
Sbjct: 153 LPLPSLPEQRAIAATLGALDDKIESNRRLAERASALIDASASQLLARTSTEVL-PLADL- 210

Query: 219 DSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE 278
              +E+  L  +                          + ++  +  Q    + +     
Sbjct: 211 ---VEFNRLSVNPHSTDTLR-----------------YIDIASVSSGQIDSVQELTWNEA 250

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID-STYLAWLM 337
                + V  G++++  +   N   +L         + ++ +  + P     S+ L  ++
Sbjct: 251 PSRARRGVSDGDVIYSTVRPGNRAFALIV-DPTPGSVASTGFAVMSPSVRLGSSMLTSVV 309

Query: 338 RSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPP---IKEQFDITNVINVETARIDVLV 393
            ++   +   ++  G    ++  + +    V+VP    + EQ         +T  +   V
Sbjct: 310 GAHKFAEYLESVAHGSAYPAVGIQAMGNYSVVVPKEAVVAEQ------FEADTMPLRRRV 363

Query: 394 EKIEQSIVLLKERRSSFIAAAVTGQID 420
            +       L   R + +   ++G++ 
Sbjct: 364 AQARAESERLAALRDTLLPELLSGRVR 390


>gi|289422996|ref|ZP_06424816.1| type I restriction system specificity protein [Peptostreptococcus
           anaerobius 653-L]
 gi|289156570|gb|EFD05215.1| type I restriction system specificity protein [Peptostreptococcus
           anaerobius 653-L]
          Length = 200

 Score = 74.1 bits (180), Expect = 4e-11,   Method: Composition-based stats.
 Identities = 25/185 (13%), Positives = 68/185 (36%), Gaps = 9/185 (4%)

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNIIQKL----ETRNMGLKPESYETYQIVDPGEIV 292
              +V   N +    IE+    + YG +        +     +  E +   +I   G+IV
Sbjct: 12  IATIVRGGNFQKKDFIENGRPCIHYGQMYTHFGIAADKTLTFVNEEVFAKSKIAKSGDIV 71

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
                   +     +A + +  I  S + A+  H  +  +L++   S         +  G
Sbjct: 72  MAVTSENVEDVCSCTAWIGDEDIAISGHTAIISHNQNPKFLSYYFHSVMFFNQKKKLAHG 131

Query: 353 LRQ-SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RR 407
            +   +    +  + +++P I++Q  + ++++   +  + + E +   I   ++     R
Sbjct: 132 TKVIEVTPSKLGDIVIMLPTIEKQNRMVSILDRFDSLCNSISEGLPAEIEARQKQYEFYR 191

Query: 408 SSFIA 412
              ++
Sbjct: 192 DKLLS 196



 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 22/166 (13%), Positives = 49/166 (29%), Gaps = 11/166 (6%)

Query: 28  VPIKRFTKLNTGRTSESGKDI----IYIGLEDVESGTGKYLPKDGNSRQSD-TSTVSIFA 82
           V +     +  G   +    I      I    + +  G    K       +  +   I  
Sbjct: 7   VKLGEIATIVRGGNFQKKDFIENGRPCIHYGQMYTHFGIAADKTLTFVNEEVFAKSKIAK 66

Query: 83  KGQILYGKLGP-----YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
            G I+               A I D D   S    +    +  P+ L  +  S+    + 
Sbjct: 67  SGDIVMAVTSENVEDVCSCTAWIGDEDIAISGHTAI-ISHNQNPKFLSYYFHSVMFFNQK 125

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           + +  G  +       +G+I + +P + +Q  +   +       ++
Sbjct: 126 KKLAHGTKVIEVTPSKLGDIVIMLPTIEKQNRMVSILDRFDSLCNS 171


>gi|86750171|ref|YP_486667.1| restriction modification system DNA specificity subunit
           [Rhodopseudomonas palustris HaA2]
 gi|86573199|gb|ABD07756.1| Restriction modification system DNA specificity domain
           [Rhodopseudomonas palustris HaA2]
          Length = 411

 Score = 74.1 bits (180), Expect = 4e-11,   Method: Composition-based stats.
 Identities = 55/415 (13%), Positives = 127/415 (30%), Gaps = 57/415 (13%)

Query: 26  KVVPIKRFTKLN-TGRTSESGKDIIYIGLEDVESGTGKYLP-KDGNSRQSDTSTVSIFAK 83
           +  P+   T+     + S++     YI L  V+  T +     +  +  + +    +  +
Sbjct: 17  EWEPLGEVTQPTANIKWSQADGVYQYIDLTSVDIKTKRVTEASEITAETAPSRAQKLVKE 76

Query: 84  GQILYGKLGPYLRKAIIADFD---GICSTQFLVLQPKDV--LPELLQGWLLSIDVTQRIE 138
             +++    P  ++  + D +    + ST + VL+ K    LP+ +  WL + +    +E
Sbjct: 77  NDVIFATTRPAQQRYCLIDSELAGNVASTGYCVLRAKKDQVLPKWILHWLGTTEFKNYVE 136

Query: 139 AICEGATMSHADWKGIGNIPMPIPP-------LAEQVLIREKIIAETVRIDTLITERIRF 191
               GA         +    +PIP        LA Q  I   +   T     L       
Sbjct: 137 ENQSGAAYPAISDGKVKAFKIPIPCPDDPEKSLAIQGEIVRILDTFTELTAELTAGLAAE 196

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           +   K++       ++T   +         +EW                   +++   + 
Sbjct: 197 LAQRKKQYSHYRDQLLTFNED--------EVEW-----KTLGDIATLRRGRVMSKGYLRD 243

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
                   S       +  +      +          GE V    D  N        +  
Sbjct: 244 NAGVYPVYSSQTANNGMIGQIDTFDFD----------GEYVSWTTDGANAGTVFYRNEKF 293

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRL------ 365
               +           +D  +L++ + +     V+  MG+     L    V+++      
Sbjct: 294 SITNVCGVIKENGTCPLDLKFLSFWLSTEAKKHVYSGMGN---PKLMSHQVEKIPIPIPF 350

Query: 366 ----PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
                +    ++ Q  +  +++   A    L E + + I L ++     R   ++
Sbjct: 351 PDDPKI---SLEAQKRVAAILDKLDALTTSLTEILPREIELREKQYAYYRDQLLS 402


>gi|239906158|ref|YP_002952897.1| type I restriction enzyme S protein [Desulfovibrio magneticus RS-1]
 gi|239796022|dbj|BAH75011.1| type I restriction enzyme S protein [Desulfovibrio magneticus RS-1]
          Length = 427

 Score = 74.1 bits (180), Expect = 4e-11,   Method: Composition-based stats.
 Identities = 61/422 (14%), Positives = 128/422 (30%), Gaps = 32/422 (7%)

Query: 23  KHWKVVP----IKRFTK---LNTGRTSESGKDIIYI-GLEDVESGTGKYLPKDGNSRQ-- 72
             W V      +             T E   D  ++   +D+ +G          + +  
Sbjct: 14  SEWAVRRRWFCLAELADGIFDCPHSTPELTADGPFLVRSQDIRTGFVDISKLAHVAEKTF 73

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKA--IIADFDGICSTQFLVLQPKDV--LPELLQGWL 128
            D  + +   +G ILY + G Y   A  I          + ++++PK        L+ WL
Sbjct: 74  LDRVSKATPEEGDILYSREGTYFGIAAEIPKGLRVCLGQRMVLIRPKRSRLASRFLRYWL 133

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
            S  +++ +    +G      +   I  IP+P  PL EQ  I   + +   +ID      
Sbjct: 134 NSGILSRHLHGFRDGTVAERLNMPTIRAIPVPDFPLKEQQAIAAILGSLDDKIDLNRRIN 193

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN 248
                + +   +    + V  G  P     +    ++     +            +    
Sbjct: 194 ETLEAMARAIFK---DWFVDFG--PTRAKMEGRAPYLAQEIWNLFPDALDDEGKPV--GW 246

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKP----ESYETYQIVDPGEIVFRFIDLQNDKRS 304
                 +   L  G  ++K +    G  P         Y      +     +        
Sbjct: 247 EYRPVGDFAELRGGKQLEKEKIAACGAIPVFGGAGIMGYTDSYNADGFVIAVGRVGAYCG 306

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKR 364
              A      I  +A +  +    +  +L   +R  D+  +        +  +   DV  
Sbjct: 307 QFFAHRGRAWINNNASLIRQRDQCNGEWLYCALRHADIDVIKK---GAAQPFVSNTDVAN 363

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGE 424
           LP++ P         + ++     + V  E     I  L + R   +   ++G+I ++  
Sbjct: 364 LPIIWPG----HATLSTLSKILVPLMVKAEHNNAEIDSLAQTRDFLLPKLMSGEIRVKDA 419

Query: 425 SQ 426
            +
Sbjct: 420 EK 421



 Score = 37.9 bits (86), Expect = 2.9,   Method: Composition-based stats.
 Identities = 31/183 (16%), Positives = 56/183 (30%), Gaps = 14/183 (7%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           P  W+  P+  F +L  G+  E  K I   G   V  G G     D  +           
Sbjct: 243 PVGWEYRPVGDFAELRGGKQLEKEK-IAACGAIPVFGGAGIMGYTDSYNADGFV------ 295

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
               I  G++G Y  +          +    +++ +D          L       I+   
Sbjct: 296 ----IAVGRVGAYCGQFFAHRGRAWINNNASLIRQRDQCNGEWLYCALRHADIDVIKK-- 349

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            GA         + N+P+  P  A    + + ++   V+ +    E     +        
Sbjct: 350 -GAAQPFVSNTDVANLPIIWPGHATLSTLSKILVPLMVKAEHNNAEIDSLAQTRDFLLPK 408

Query: 202 LVS 204
           L+S
Sbjct: 409 LMS 411


>gi|254374066|ref|ZP_04989548.1| predicted protein [Francisella novicida GA99-3548]
 gi|151571786|gb|EDN37440.1| predicted protein [Francisella novicida GA99-3548]
          Length = 417

 Score = 74.1 bits (180), Expect = 4e-11,   Method: Composition-based stats.
 Identities = 64/419 (15%), Positives = 131/419 (31%), Gaps = 46/419 (10%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
             +  + +  + +  E     +        S T +++P   N+  +D S   I  KGQ  
Sbjct: 6   KKLGNYIQQVSIKNKELEVSNLL-----GVSITKEFIPSIANTVGTDMSKYKIVQKGQFA 60

Query: 88  Y----GKLGPYLRKAIIADFDGICSTQFLVLQPKDV---LPELLQGWLLSIDVTQRIEAI 140
           Y     + G  +  A++ D   I ST + V +  D    LPE L  W    +  +    +
Sbjct: 61  YGPVTSRNGDKISVALLEDDSAIVSTSYTVFEIIDKTKLLPEYLMMWFRREEFDRYARYM 120

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
             G+T     W+ + ++ +PIP + +Q  I      E   I   I    +  + L+E  Q
Sbjct: 121 SHGSTREVFGWEEMCDVELPIPSIEKQREIVA----EYYAITNRIKLNEQLNQKLEETAQ 176

Query: 201 ALVSYIVTKGLNPD---VKMKDSGIEWVG------LVPDHWEVKPFFALVTELNR---KN 248
           A+          PD      K +G E V        +P  W+V      +        K+
Sbjct: 177 AIYKEWFVDFEFPDENGKPYKSNGGEMVWCEELEKEIPKGWKVSKVGDEICYKKGYAFKS 236

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYE-----TYQIVDPGEIVFRFIDLQ---- 299
            +  E+ +  +   N+  K    +                  +   +I+   +       
Sbjct: 237 AEYSENGVGIVRVSNLTDKSVDISDCYYINEKNLTSKYEQHRLKTNDIIIATVGSWASNP 296

Query: 300 ---NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL--R 354
                K            +  +A            YL   + +    +   +   G   +
Sbjct: 297 ASVVGKVVKVPVIANNFLLNQNAVCIRTKDYRIQEYLHQHLITKKYSEYVVSGAQGSANQ 356

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            S+    +     ++P       I +      + ++ ++    Q    L   +   ++ 
Sbjct: 357 ASVTLNHLFEYKFIIPD----SVIIDKACDTFSMVNKIINNFAQENSYLHGLKEILLSK 411



 Score = 42.5 bits (98), Expect = 0.14,   Method: Composition-based stats.
 Identities = 12/81 (14%), Positives = 26/81 (32%), Gaps = 6/81 (7%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSE----SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            IPK WKV  +        G   +    S   +  + + ++   +         + ++ T
Sbjct: 212 EIPKGWKVSKVGDEICYKKGYAFKSAEYSENGVGIVRVSNLTDKSVDISDCYYINEKNLT 271

Query: 76  STV--SIFAKGQILYGKLGPY 94
           S           I+   +G +
Sbjct: 272 SKYEQHRLKTNDIIIATVGSW 292


>gi|315225321|ref|ZP_07867136.1| conserved hypothetical protein [Capnocytophaga ochracea F0287]
 gi|314944715|gb|EFS96749.1| conserved hypothetical protein [Capnocytophaga ochracea F0287]
          Length = 260

 Score = 74.1 bits (180), Expect = 5e-11,   Method: Composition-based stats.
 Identities = 29/171 (16%), Positives = 56/171 (32%), Gaps = 8/171 (4%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD------IIYIGLEDVESGTGKYLPKDGNSRQS 73
            IPK W+ V + +      G T            I+++   ++ +G      +    +  
Sbjct: 92  EIPKDWRWVRMGQIGDWGAGSTPPRSNPNYYNGKILWLKTGELNNGIVFDTEEKITEKAF 151

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
              ++ I   G +L    G  + K  IAD +   +       P  +       +   +  
Sbjct: 152 QECSLRINKVGNVLIAMYGATIGKLAIADKELTTNQACCGCSPYLINN--WYLFYFLMAS 209

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
            ++     EG    +     +    +P+PPL EQ  I   I      I+  
Sbjct: 210 REQFIKRGEGGAQPNISRVKLVEHLIPLPPLYEQQRIVNTIQNIFRCIEKN 260



 Score = 69.4 bits (168), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 26/181 (14%), Positives = 51/181 (28%), Gaps = 13/181 (7%)

Query: 219 DSGIEWVGLVPDHWEVKPFFALVTE-----LNRKNTKLIESNILSLSYGNIIQKLETRNM 273
               E    +P  W       +          R N       IL L  G +   +     
Sbjct: 84  CIDEEIPFEIPKDWRWVRMGQIGDWGAGSTPPRSNPNYYNGKILWLKTGELNNGIVFDTE 143

Query: 274 GLKPESYETYQIV---DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
               E       +     G ++         K ++   ++        A     P+ I++
Sbjct: 144 EKITEKAFQECSLRINKVGNVLIAMYGATIGKLAIADKELT----TNQACCGCSPYLINN 199

Query: 331 TYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
            YL + + +            G + ++    +    + +PP+ EQ  I N I      I+
Sbjct: 200 WYLFYFLMASREQ-FIKRGEGGAQPNISRVKLVEHLIPLPPLYEQQRIVNTIQNIFRCIE 258

Query: 391 V 391
            
Sbjct: 259 K 259


>gi|121608536|ref|YP_996343.1| restriction modification system DNA specificity subunit
           [Verminephrobacter eiseniae EF01-2]
 gi|121553176|gb|ABM57325.1| restriction modification system DNA specificity domain
           [Verminephrobacter eiseniae EF01-2]
          Length = 403

 Score = 74.1 bits (180), Expect = 5e-11,   Method: Composition-based stats.
 Identities = 41/237 (17%), Positives = 76/237 (32%), Gaps = 24/237 (10%)

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
           +E K+A +  + T+GL  + +        +GLVP+ W    F  L   +        + +
Sbjct: 162 QELKRAAMRELFTRGLRGEAQK----ETEIGLVPESWVEVVFAELGEIVTGTTPPTKDRD 217

Query: 256 ILSLSYGNIIQKLETRN--------MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
                    I   +  +          +        + +  G      I     K     
Sbjct: 218 YYDDGTIPFISPGDIDHGFPIASTQKHITDSGLAVSRALPAGTTCVVCIGSTIGKVG--R 275

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
             V+           V   G D  YL+ L+ +Y    V  A        L     ++L +
Sbjct: 276 TTVVSSATNQQINAIVPGVGYDPNYLSHLL-TYRADIVRNAASPSPVPILSKGTFEKLML 334

Query: 368 LV---PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
                P   EQ +I  +++     +D  +    Q   +L+E   S +   +TG I +
Sbjct: 335 FTSTNP--DEQTEIAAILDT----LDRKIALHRQKRAVLEELFKSLLHKLMTGAIRV 385



 Score = 55.6 bits (132), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 28/206 (13%), Positives = 57/206 (27%), Gaps = 12/206 (5%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKY 63
           K++    IG +P+ W  V      ++ TG T  +          I +I   D++ G    
Sbjct: 183 KETE---IGLVPESWVEVVFAELGEIVTGTTPPTKDRDYYDDGTIPFISPGDIDHG-FPI 238

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPEL 123
                +   S  +       G      +G  + K          + Q +      V  + 
Sbjct: 239 ASTQKHITDSGLAVSRALPAGTTCVVCIGSTIGKVGRTTVVSSATNQQINAIVPGVGYDP 298

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAE-QVLIREKIIAETVRID 182
                L       +      + +          + +      + Q  I   +     +I 
Sbjct: 299 NYLSHLLTYRADIVRNAASPSPVPILSKGTFEKLMLFTSTNPDEQTEIAAILDTLDRKIA 358

Query: 183 TLITERIRFIELLKEKKQALVSYIVT 208
               +R    EL K     L++  + 
Sbjct: 359 LHRQKRAVLEELFKSLLHKLMTGAIR 384


>gi|261496173|ref|ZP_05992579.1| DNA methylase-type I restriction-modification system [Mannheimia
           haemolytica serotype A2 str. OVINE]
 gi|261308125|gb|EEY09422.1| DNA methylase-type I restriction-modification system [Mannheimia
           haemolytica serotype A2 str. OVINE]
          Length = 478

 Score = 74.1 bits (180), Expect = 5e-11,   Method: Composition-based stats.
 Identities = 49/414 (11%), Positives = 113/414 (27%), Gaps = 43/414 (10%)

Query: 30  IKRFTKLNTGRTSES-----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI---F 81
           +   + + +G T         + ++ +   D+ +               D +   I    
Sbjct: 45  LNEVSLIKSGTTPTDRDDNLKEGVVLLKTNDIRNNLLNKYSSVDYFISEDINEKMISSQL 104

Query: 82  AKGQILYGKLGPYLRKAIIADF------DGICSTQFLV-----LQPKDVLPELLQGWLLS 130
            +G +L   +G  L       +          +             K++LP  L  +L S
Sbjct: 105 KEGDVLVNIVGATLEVVGRVAYVSSTFPKANITQAMSFVRLKSKYNKELLPTYLFAFLQS 164

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
                +I          + + + +G I +P+  L  Q  + + I      +         
Sbjct: 165 SYGKIQINRNARPTGQYNLNNEELGAIKVPLIDLETQKQVDKIIKQSNDFVQKSTQSYQE 224

Query: 191 FIELLKEK--------------KQALVSYIVTKG-LNPDVKMKDSGIEWVGLVPDHWEVK 235
              LL E                ++L    +  G L+ +         W  +    +   
Sbjct: 225 AETLLLENLGLRAFQADSNPVNVKSLKESFLQTGRLDAEYYQTKYEQYWNLIQSQDYVFI 284

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE-SYETYQIVDPGEIVFR 294
                +    + +        + +   NI       N     E           G+I+  
Sbjct: 285 R-DEYLHITQKPDWTKPMYQYIEIGDVNIGDGSYQTNWIETQELPANAKTQAQTGDILIS 343

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG--IDSTYLAWLMRSYDLCKVFYAMGSG 352
            +       ++      +  +  +  +  +      ++  L  L+RS            G
Sbjct: 344 TVRPYRGAVTIIGENDQDLVVSGAFTVLRRKENSVFNNEVLKVLLRSELYKDWLLQFNVG 403

Query: 353 LR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
                +K  D+  LP+     + Q  I   I     + + L ++ +  +   K 
Sbjct: 404 TSYPVIKDNDILNLPIPKISGEIQEKIAEYI----RQSNDLRQQAQNLLAQAKN 453


>gi|308179939|ref|YP_003924067.1| type I restriction-modification system specificity subunit
           [Lactobacillus plantarum subsp. plantarum ST-III]
 gi|308045430|gb|ADN97973.1| type I restriction-modification system specificity subunit
           [Lactobacillus plantarum subsp. plantarum ST-III]
          Length = 297

 Score = 73.7 bits (179), Expect = 5e-11,   Method: Composition-based stats.
 Identities = 46/293 (15%), Positives = 105/293 (35%), Gaps = 23/293 (7%)

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
            +L  +   + +  I + +T+   + K I    + +P L EQ  + + +I  +  I    
Sbjct: 18  YFLYFLISEENLSKIADTSTIPQINNKHIIPYTIYLPCLMEQQRLGKVLILLSNLIAANE 77

Query: 186 TERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN 245
            +  +   L K   Q + S         + + K     W       +        +  + 
Sbjct: 78  DKLEQLKTLKKLMMQKIFSQ--------EWRFKGFTDPWEQRKLKWFLRVSKLKNIDGIF 129

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
            KN+ L            ++ ++  +      +S   Y I+D  ++V+    L+++   +
Sbjct: 130 DKNSVLS-----VSGEFGVVNQIAFQGRSFAGKSILNYGILDHNDVVYTKSPLKSNPYGI 184

Query: 306 RSAQVMERGIITSAYMAVKP-HGIDSTYLAWLMRSY-DLCKVFYAMGSGLRQS---LKFE 360
               + + G++++ Y    P   + S  L +       +      + +   ++   ++ E
Sbjct: 185 IKTNLGKAGVVSTLYAVYAPLKTVYSPILGYYFNLDTRVNNYLRPLVNKGAKNDMKVRDE 244

Query: 361 DVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
            V    V +P  I+ Q  I N      + ID L+   E  +  LKE +   + 
Sbjct: 245 AVLEGKVCIPDSIETQKRICN----LFSLIDNLIAANEDKLNQLKELKKYLMQ 293



 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/103 (14%), Positives = 37/103 (35%), Gaps = 7/103 (6%)

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
             + +  MA+ P   D  +L +L+   +L K+     +     +  + +    + +P + 
Sbjct: 1   MFMDTNMMALTPVETDLYFLYFLISEENLSKIAD---TSTIPQINNKHIIPYTIYLPCLM 57

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           EQ      +      +  L+   E  +  LK  +   +    +
Sbjct: 58  EQQR----LGKVLILLSNLIAANEDKLEQLKTLKKLMMQKIFS 96



 Score = 37.1 bits (84), Expect = 5.0,   Method: Composition-based stats.
 Identities = 29/190 (15%), Positives = 59/190 (31%), Gaps = 8/190 (4%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS-TVSIFAK 83
           W+   +K F +++  +  +   D   +     E G    +   G S    +     I   
Sbjct: 108 WEQRKLKWFLRVSKLKNIDGIFDKNSVLSVSGEFGVVNQIAFQGRSFAGKSILNYGILDH 167

Query: 84  GQILYG----KLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT--QRI 137
             ++Y     K  PY          G+ ST + V  P   +   + G+  ++D      +
Sbjct: 168 NDVVYTKSPLKSNPYGIIKTNLGKAGVVSTLYAVYAPLKTVYSPILGYYFNLDTRVNNYL 227

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
             +      +    +    +   +         +         ID LI      +  LKE
Sbjct: 228 RPLVNKGAKNDMKVRDEAVLEGKVCIPDSIETQKRICN-LFSLIDNLIAANEDKLNQLKE 286

Query: 198 KKQALVSYIV 207
            K+ L+  + 
Sbjct: 287 LKKYLMQNMF 296


>gi|258509975|ref|YP_003175638.1| HsdS [Lactobacillus rhamnosus Lc 705]
 gi|257152816|emb|CAR91787.1| Restriction modification system DNA specificity domain
           [Lactobacillus rhamnosus Lc 705]
          Length = 199

 Score = 73.7 bits (179), Expect = 5e-11,   Method: Composition-based stats.
 Identities = 20/127 (15%), Positives = 49/127 (38%), Gaps = 5/127 (3%)

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF 346
             GE +    D  ND ++     V  +  + +    ++     +    +LM +     + 
Sbjct: 75  HNGEFILVAEDGANDLKNYPIQYVNGKAWVNNHAHVLQGKKTITDN-KFLMNAIKNFNIE 133

Query: 347 YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
             +  G R  L  + + +L +L+P   EQ  I +      + +D  +   ++ +  L+E 
Sbjct: 134 PFLVGGGRAKLNADVMMKLNILLPTFVEQEKIGS----LFSLLDKTIALHQRKLEKLQEL 189

Query: 407 RSSFIAA 413
           +  ++  
Sbjct: 190 KKGYLQK 196


>gi|114566066|ref|YP_753220.1| type I restriction-modification system (specificity subunit)
           [Syntrophomonas wolfei subsp. wolfei str. Goettingen]
 gi|114337001|gb|ABI67849.1| type I restriction-modification system (specificity subunit)
           [Syntrophomonas wolfei subsp. wolfei str. Goettingen]
          Length = 263

 Score = 73.7 bits (179), Expect = 5e-11,   Method: Composition-based stats.
 Identities = 27/255 (10%), Positives = 79/255 (30%), Gaps = 23/255 (9%)

Query: 161 IPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDS 220
             PL  Q  I + +   +  +  L  +      L       + +       +P    K  
Sbjct: 25  YRPLETQKQIAKTLDTVSELLAILKQQLAELDNL-------IKTTFYDMFGDPVTNEKGW 77

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
            I+ +  + +          ++  +  +    +     +   +I       +  + P   
Sbjct: 78  EIKTIAEIAE--------QKLSYGSGASAIEYDGITRYIRITDINDNGSLNDDIVSPSET 129

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG--IDSTYLAWLMR 338
                ++ G+I+F        K +LR  +   R I     + + P    +   Y+ +  +
Sbjct: 130 SAKYNLNDGDILFARSGATVGK-TLRYRRSFGRCIYAGYLIRLVPKKALVLPDYIYYFTK 188

Query: 339 SYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
           +        +      + ++  +      + VPP+  Q     ++     + +     ++
Sbjct: 189 TDYYKGFIESNMKTVAQPNINAQQYGTFKICVPPLNLQTQFAEIV----TKTEEQKALVQ 244

Query: 398 QSIVLLKERRSSFIA 412
           ++I   +    S ++
Sbjct: 245 KAINETQYLFDSLMS 259



 Score = 54.8 bits (130), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 31/161 (19%), Positives = 57/161 (35%), Gaps = 13/161 (8%)

Query: 23  KHWKVVPIKRFTK----LNTGRTSESGKDI-IYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           K W++  I    +      +G ++     I  YI + D+                S+TS 
Sbjct: 75  KGWEIKTIAEIAEQKLSYGSGASAIEYDGITRYIRITDINDNGSLNDDIVS---PSETSA 131

Query: 78  VSIFAKGQILYGKLGPYLRKAIIAD---FDGICSTQFLVLQPKD--VLPELLQGWLLSID 132
                 G IL+ + G  + K +         I +   + L PK   VLP+ +  +  +  
Sbjct: 132 KYNLNDGDILFARSGATVGKTLRYRRSFGRCIYAGYLIRLVPKKALVLPDYIYYFTKTDY 191

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
               IE+  +     + + +  G   + +PPL  Q    E 
Sbjct: 192 YKGFIESNMKTVAQPNINAQQYGTFKICVPPLNLQTQFAEI 232


>gi|332829958|gb|EGK02586.1| hypothetical protein HMPREF9455_00836 [Dysgonomonas gadei ATCC
           BAA-286]
          Length = 657

 Score = 73.7 bits (179), Expect = 5e-11,   Method: Composition-based stats.
 Identities = 28/191 (14%), Positives = 61/191 (31%), Gaps = 3/191 (1%)

Query: 231 HWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGE 290
             +       +  + R      +     ++       +  R      +      IV  G+
Sbjct: 1   MAKEYFIKDFLKRIKRPIELNGDEEYKLVTIKMNHNGVILRERKKGCDIKSNMYIVHEGD 60

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG 350
            +   ID +N    +    +    +    +       I S  L   + S          G
Sbjct: 61  FILSGIDARNGAFGIIPPGLDGAIVTNDFWYFDLEEDIISKELFLEITSTGWFDEICKKG 120

Query: 351 S-GLRQSLK--FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
           S G  Q ++   +      + +P   EQ  I   I    ++  +L ++IE    LL++ +
Sbjct: 121 SDGTTQRIRLQKDKFFNQKIWLPEKDEQKIILEKIRSFKSKFKILSKQIEYQQELLQKFK 180

Query: 408 SSFIAAAVTGQ 418
            + +  A+ G+
Sbjct: 181 QAILQDAIQGK 191



 Score = 71.0 bits (172), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 58/439 (13%), Positives = 125/439 (28%), Gaps = 56/439 (12%)

Query: 30  IKRFTK-LNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
           IK F K +         ++   + ++   +G      K G       S + I  +G  + 
Sbjct: 7   IKDFLKRIKRPIELNGDEEYKLVTIKMNHNGVILRERKKGCDI---KSNMYIVHEGDFIL 63

Query: 89  GKLGPYLRKAIIADF---DGICSTQFLVLQPKDVLPELLQGWLLSI--DVTQRIEAICEG 143
             +        I        I +  F     ++ +        ++      +  +   +G
Sbjct: 64  SGIDARNGAFGIIPPGLDGAIVTNDFWYFDLEEDIISKELFLEITSTGWFDEICKKGSDG 123

Query: 144 ATMS-HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
            T           N  + +P   EQ +I EKI +   +   L  +     ELL++ KQA+
Sbjct: 124 TTQRIRLQKDKFFNQKIWLPEKDEQKIILEKIRSFKSKFKILSKQIEYQQELLQKFKQAI 183

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGL----------------------------------- 227
           +   +   L  D + ++  +E                                       
Sbjct: 184 LQDAIQGKLTADWREQNPDVESASELLKRIKAEKTKLIKEKKIKKEKPLPPIKGDKISYA 243

Query: 228 VPDHWEVKPFFALV------TELNRKNTKLIESNILSLSYGNIIQKL-ETRNMGLKPESY 280
           +P+ W       +       +      +    S I  +   N+        ++    ES 
Sbjct: 244 LPEDWTWCYLGDICSKTGSGSTPRGGKSVYTSSGIKFIRSQNVYDSSLILEDIVFISEST 303

Query: 281 ETYQ---IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
                   V   +++         +         E  I     +      I ++ +  ++
Sbjct: 304 HKSMSGTKVIANDLLLNITGGSIGRCCQVPNDFDEANINQHVAIIRVIQPILNSIIHMII 363

Query: 338 RSYDLC-KVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
            S     K+  A     R+ L    +  +P+ +PP  EQ  I   +     + + L  +I
Sbjct: 364 CSPYFQNKIIEAQTGAGREGLPKNKMDIIPIPLPPFIEQQIIVEKVESLLGKCNQLSVEI 423

Query: 397 EQSIVLLKERRSSFIAAAV 415
           E      +  + +      
Sbjct: 424 ENQRKYSQYLQKALFNEVF 442



 Score = 58.3 bits (139), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 30/199 (15%), Positives = 69/199 (34%), Gaps = 12/199 (6%)

Query: 21  IPKHWKVVPIKRFTKL-------NTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
           +P+ W    +               G++  +   I +I  ++V   +         S  +
Sbjct: 244 LPEDWTWCYLGDICSKTGSGSTPRGGKSVYTSSGIKFIRSQNVYDSSLILEDIVFISEST 303

Query: 74  DTS-TVSIFAKGQILYGKLGPYLRKAIIADFD---GICSTQF-LVLQPKDVLPELLQGWL 128
             S + +      +L    G  + +      D      +    ++   + +L  ++   +
Sbjct: 304 HKSMSGTKVIANDLLLNITGGSIGRCCQVPNDFDEANINQHVAIIRVIQPILNSIIHMII 363

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
            S     +I     GA         +  IP+P+PP  EQ +I EK+ +   + + L  E 
Sbjct: 364 CSPYFQNKIIEAQTGAGREGLPKNKMDIIPIPLPPFIEQQIIVEKVESLLGKCNQLSVEI 423

Query: 189 IRFIELLKEKKQALVSYIV 207
               +  +  ++AL + + 
Sbjct: 424 ENQRKYSQYLQKALFNEVF 442


>gi|298375509|ref|ZP_06985466.1| restriction endonuclease S subunit [Bacteroides sp. 3_1_19]
 gi|298268009|gb|EFI09665.1| restriction endonuclease S subunit [Bacteroides sp. 3_1_19]
          Length = 267

 Score = 73.7 bits (179), Expect = 5e-11,   Method: Composition-based stats.
 Identities = 44/225 (19%), Positives = 73/225 (32%), Gaps = 14/225 (6%)

Query: 10  YKDSGVQ--WIG----AIPKHWKVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDV 56
           YK SG +  W       IPK W +  IK F    +G T +S         +I +I   ++
Sbjct: 31  YKSSGGEMVWNKKLKREIPKGWNISLIKDFATTYSGGTPKSTNIEYYNNGEIAWINSGEL 90

Query: 57  ESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP 116
            S               + S+  ++    IL    G    K  +  F+   +     + P
Sbjct: 91  NSPIITKTTNYITKCGLENSSAKLYPSNSILVAMYGATAGKVSLLTFEACSNQAVCGIIP 150

Query: 117 KDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIA 176
             +   L   +     +      +  G+   +     I NI +PIP      L  EKI +
Sbjct: 151 -TIENMLYYVYFHISSLYSHFITLSTGSARDNISQNTIKNILLPIPTRNILKLFDEKIGS 209

Query: 177 ETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSG 221
               I     +         E    L++  V+   +  V  K  G
Sbjct: 210 IYQMIVNNYQQIDSLAMQRDELLPLLMNGQVSVNSDLSVYKKRRG 254



 Score = 67.5 bits (163), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 34/250 (13%), Positives = 73/250 (29%), Gaps = 26/250 (10%)

Query: 190 RFIELLKEKKQALVSYIVTKGLNPD---VKMKDSGIEWVG------LVPDHWEVKPFFAL 240
              + L    + L  Y   +   P+      K SG E V        +P  W +      
Sbjct: 1   MLNQNLTAMAKQLYDYWFVQFDFPNEEGKPYKSSGGEMVWNKKLKREIPKGWNISLIKDF 60

Query: 241 VTELNRKN------TKLIESNILSLSYGNIIQKLETRNMGLKPE---SYETYQIVDPGEI 291
            T  +                I  ++ G +   + T+      +      + ++     I
Sbjct: 61  ATTYSGGTPKSTNIEYYNNGEIAWINSGELNSPIITKTTNYITKCGLENSSAKLYPSNSI 120

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
           +         K SL + +         A   + P   +  Y  +   S            
Sbjct: 121 LVAMYGATAGKVSLLTFE----ACSNQAVCGIIPTIENMLYYVYFHISSLYSHFITLSTG 176

Query: 352 GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
             R ++    +K + + +P      +I  + + +   I  ++    Q I  L  +R   +
Sbjct: 177 SARDNISQNTIKNILLPIPT----RNILKLFDEKIGSIYQMIVNNYQQIDSLAMQRDELL 232

Query: 412 AAAVTGQIDL 421
              + GQ+ +
Sbjct: 233 PLLMNGQVSV 242


>gi|91201732|emb|CAJ74792.1| unknown protein [Candidatus Kuenenia stuttgartiensis]
          Length = 137

 Score = 73.7 bits (179), Expect = 5e-11,   Method: Composition-based stats.
 Identities = 21/132 (15%), Positives = 44/132 (33%), Gaps = 1/132 (0%)

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCK 344
           I+   +IV         K  L     +     +     +    I   YL + + S +  +
Sbjct: 3   ILSENDIVIARTGGTIGKSFLIKDIPVRSLFASYLIRVIPSKNIFPEYLKYFLESPEYWE 62

Query: 345 VFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
             Y       + ++    +  L V + P+ EQ  I   ++   A I  L +++ +     
Sbjct: 63  QLYDAAWGAGQPNVNGTSLSNLIVSLSPLAEQQAIVERVDKLMAMIGELEKQVSERKEQS 122

Query: 404 KERRSSFIAAAV 415
           +    S +  A 
Sbjct: 123 EMLMQSVLREAF 134



 Score = 47.1 bits (110), Expect = 0.005,   Method: Composition-based stats.
 Identities = 28/136 (20%), Positives = 58/136 (42%), Gaps = 4/136 (2%)

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFD----GICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
           +I ++  I+  + G  + K+ +           S    V+  K++ PE L+ +L S +  
Sbjct: 2   TILSENDIVIARTGGTIGKSFLIKDIPVRSLFASYLIRVIPSKNIFPEYLKYFLESPEYW 61

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           +++     GA   + +   + N+ + + PLAEQ  I E++      I  L  +     E 
Sbjct: 62  EQLYDAAWGAGQPNVNGTSLSNLIVSLSPLAEQQAIVERVDKLMAMIGELEKQVSERKEQ 121

Query: 195 LKEKKQALVSYIVTKG 210
            +   Q+++     KG
Sbjct: 122 SEMLMQSVLREAFAKG 137


>gi|327390066|gb|EGE88410.1| type I restriction modification DNA specificity domain protein
           [Streptococcus pneumoniae GA04375]
          Length = 220

 Score = 73.7 bits (179), Expect = 5e-11,   Method: Composition-based stats.
 Identities = 26/186 (13%), Positives = 59/186 (31%), Gaps = 10/186 (5%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG 289
           + +          ++++ N  L   N  +                     Y    IV   
Sbjct: 44  EMFGDVILNEKEWKVSKWNEILTIRNGKNQKQVEDADGKFPIYGSGGIMGYAKDWIVKKN 103

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
            ++       N    +R              +      I+S YL +  + Y+  K+  A+
Sbjct: 104 SVIIGRKGNINKPILVRENFWNVDTAFG---LEPVLEKINSEYLFYFCQLYNFEKLNKAV 160

Query: 350 GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
                 SL   D+  + + +PP+  Q +  + +     ++D     I++S+  L+  + S
Sbjct: 161 ---TIPSLTKSDLLNISIPLPPLALQNEFADFVV----QVDKSQLAIQKSLEELETLKKS 213

Query: 410 FIAAAV 415
            +    
Sbjct: 214 LMQEYF 219



 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 27/151 (17%), Positives = 52/151 (34%), Gaps = 15/151 (9%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           K WKV        +  G+  +            VE   GK+ P  G+      +   I  
Sbjct: 54  KEWKVSKWNEILTIRNGKNQKQ-----------VEDADGKF-PIYGSGGIMGYAKDWIVK 101

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           K  ++ G+ G   +  ++ +      T F +    + +      +   +      E + +
Sbjct: 102 KNSVIIGRKGNINKPILVRENFWNVDTAFGLEPVLEKINSEYLFYFCQLY---NFEKLNK 158

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
             T+       + NI +P+PPLA Q    + 
Sbjct: 159 AVTIPSLTKSDLLNISIPLPPLALQNEFADF 189


>gi|288937352|ref|YP_003441411.1| restriction modification system DNA specificity domain protein
           [Klebsiella variicola At-22]
 gi|288892061|gb|ADC60379.1| restriction modification system DNA specificity domain protein
           [Klebsiella variicola At-22]
          Length = 430

 Score = 73.7 bits (179), Expect = 5e-11,   Method: Composition-based stats.
 Identities = 45/430 (10%), Positives = 122/430 (28%), Gaps = 56/430 (13%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W    +  F +L  G                   G+   +   G +   D     +    
Sbjct: 5   WIECELGDFIELKRGYDLPKSTR---------NEGSIPIISSSGFT---DFHDKPMVKGP 52

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA----- 139
            ++ G+ G         +     +T   V+  K      +   L +I      +      
Sbjct: 53  GVVTGRYGTIGEVFYSEEDFWPLNTTLYVVDFKGNDRLFVYYLLQTISYADYTDKAAVPG 112

Query: 140 -----ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL---------- 184
                + +              +   +  L ++V + ++I     ++             
Sbjct: 113 VNRNHLHKAKVKVPISLDIQQKVAAQLYQLEKRVALSKQINQTLEQMSQTLFKSWFVDFD 172

Query: 185 --ITERIRFIELLKEKKQA-------LVSYIVTKGLNPDV---KMKDSGIEWVGLVPDHW 232
             I   +     + E  Q+       + +    K L  D+      D     +G +P +W
Sbjct: 173 PVIDNALDAGNSIPEALQSRAELRQKVRNNADFKPLPADIRALFPDDFEETELGWIPKNW 232

Query: 233 EVKPFFAL--VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGE 290
            ++ F  +  + + N K+  + +            + +   + G   +        + G+
Sbjct: 233 HIRDFSDIAVLIKNNIKSDDICDDIHYIGLEHLERKHIFITSYGNGSDVSSNKSAFNKGD 292

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK-PHGIDSTYLAWLMRSYDLCKVFYAM 349
           ++F  +     K ++        GI ++  +  +       + +A    + +        
Sbjct: 293 LLFGKLRPYFHKVAITPFS----GICSTDILVFRAKEKFYKSLMAMYSFTDEFVAYANLR 348

Query: 350 GSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
            +G R    + +D+ +  +++P       I     +         +        L   R 
Sbjct: 349 STGTRMPRAEAKDLLKYKIILPNKD----ILEKFELLLEDYWAKGQLNNNENDHLTALRD 404

Query: 409 SFIAAAVTGQ 418
           + +   ++G+
Sbjct: 405 TLLPKLISGE 414



 Score = 69.8 bits (169), Expect = 7e-10,   Method: Composition-based stats.
 Identities = 45/190 (23%), Positives = 67/190 (35%), Gaps = 5/190 (2%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESG--KDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           +G IPK+W +        L            DI YIGLE +E            +    +
Sbjct: 225 LGWIPKNWHIRDFSDIAVLIKNNIKSDDICDDIHYIGLEHLERKHIFITSYG--NGSDVS 282

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPEL-LQGWLLSIDVT 134
           S  S F KG +L+GKL PY  K  I  F GICST  LV + K+   +  +  +  + +  
Sbjct: 283 SNKSAFNKGDLLFGKLRPYFHKVAITPFSGICSTDILVFRAKEKFYKSLMAMYSFTDEFV 342

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
                   G  M  A+ K +    + +P           +     +      E      L
Sbjct: 343 AYANLRSTGTRMPRAEAKDLLKYKIILPNKDILEKFELLLEDYWAKGQLNNNENDHLTAL 402

Query: 195 LKEKKQALVS 204
                  L+S
Sbjct: 403 RDTLLPKLIS 412


>gi|119510902|ref|ZP_01630025.1| putative type I restriction enzyme specificity protein [Nodularia
           spumigena CCY9414]
 gi|119464430|gb|EAW45344.1| putative type I restriction enzyme specificity protein [Nodularia
           spumigena CCY9414]
          Length = 60

 Score = 73.7 bits (179), Expect = 5e-11,   Method: Composition-based stats.
 Identities = 26/54 (48%), Positives = 36/54 (66%)

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
           +PP  EQ  IT+ +N E  +I     KI+++I LLKE R+S I  AVTG+ID+R
Sbjct: 2   IPPFNEQLQITDFLNKEMQKIYQQKAKIKEAIELLKEYRTSLITNAVTGKIDVR 55


>gi|146321306|ref|YP_001201017.1| type I restriction-modification system, S subunit [Streptococcus
           suis 98HAH33]
 gi|145692112|gb|ABP92617.1| type I restriction-modification system, S subunit [Streptococcus
           suis 98HAH33]
          Length = 253

 Score = 73.7 bits (179), Expect = 5e-11,   Method: Composition-based stats.
 Identities = 36/210 (17%), Positives = 72/210 (34%), Gaps = 22/210 (10%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET---- 282
            +P+ WE     A+VT    K      +     +    ++  + ++  +KP + +     
Sbjct: 4   DIPESWEWVRLGAIVTAKGGKRIPKGYNLQEEDNGHPYLRVTDMKDGTIKPTNIKFAPDN 63

Query: 283 -YQIVDPGEI----VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
            Y I+    I    ++  I        +         +  +A   +    I+  +LA L+
Sbjct: 64  VYTIIRNYTISSTDIYVTIAGTIGDVGIVPENFNNALLTENALKLMLTESINKMFLAHLL 123

Query: 338 RSYDLCKVFY-AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
           +S  + K F        +  L         + +PP+ EQ  I   I     +    VE  
Sbjct: 124 KSPLVQKQFKEVYNQVAQPKLSIRSTNSTIIPLPPLAEQKRIVAQIERALEQ----VEVY 179

Query: 397 EQSIVLLKE--------RRSSFIAAAVTGQ 418
            +S   L+E         + S +  A+ G+
Sbjct: 180 AESYNKLQELDRAFPDKLKKSILQYAMQGK 209



 Score = 60.2 bits (144), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 31/207 (14%), Positives = 68/207 (32%), Gaps = 15/207 (7%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDI-------IYIGLEDVESGTGKYLPKDGNSRQ 72
            IP+ W+ V +        G+    G ++        Y+ + D++ GT K          
Sbjct: 4   DIPESWEWVRLGAIVTAKGGKRIPKGYNLQEEDNGHPYLRVTDMKDGTIKPTNIKFAPDN 63

Query: 73  -SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDG---ICSTQFLVLQPKDVLPELLQGWL 128
                     +   I     G      I+ +      +      ++  + +    L   L
Sbjct: 64  VYTIIRNYTISSTDIYVTIAGTIGDVGIVPENFNNALLTENALKLMLTESINKMFLAHLL 123

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
            S  V ++ + +           +   +  +P+PPLAEQ  I  +I     +++      
Sbjct: 124 KSPLVQKQFKEVYNQVAQPKLSIRSTNSTIIPLPPLAEQKRIVAQIERALEQVEVYAESY 183

Query: 189 IRFIELLKEKK----QALVSYIVTKGL 211
            +  EL +       ++++ Y +   L
Sbjct: 184 NKLQELDRAFPDKLKKSILQYAMQGKL 210


>gi|332202401|gb|EGJ16470.1| type I restriction modification DNA specificity domain protein
           [Streptococcus pneumoniae GA41317]
          Length = 286

 Score = 73.7 bits (179), Expect = 5e-11,   Method: Composition-based stats.
 Identities = 40/199 (20%), Positives = 75/199 (37%), Gaps = 9/199 (4%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNSR 71
            IP  W+ V      ++  G +    KD        I +I + D E G           +
Sbjct: 83  DIPDTWEWVRFSTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINNVKEKIK 142

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
           +S  +      KG  L      + R  I+     I      +   ++ L +    ++LS 
Sbjct: 143 KSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYLFYILSS 202

Query: 132 D-VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
           + V  +  ++  GA + + +   + +I +P+PPL+EQ  I E I +   ++D       R
Sbjct: 203 NVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLSEQQRIVEAIESALEKVDEYAESYNR 262

Query: 191 FIELLKEKKQALVSYIVTK 209
             +L K+    L +     
Sbjct: 263 LEQLDKKFPDKLKNLFFNM 281



 Score = 70.6 bits (171), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 39/201 (19%), Positives = 75/201 (37%), Gaps = 15/201 (7%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
            I+    +PD WE   F  LV  +   + + I+  + S   G    K+     G K  + 
Sbjct: 77  EIDVPYDIPDTWEWVRFSTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINN 136

Query: 281 ETYQIVDPG-----EIVFRFIDLQNDKRSLRSAQVMERGIITSAY--MAVKPHGIDSTYL 333
              +I   G      +      L N     R   +   G I   +  ++   + ++  YL
Sbjct: 137 VKEKIKKSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYL 196

Query: 334 AWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV- 391
            +++ S  +   F ++ SG   ++L  + V  + + +PP+ EQ  I   I     ++D  
Sbjct: 197 FYILSSNVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLSEQQRIVEAIESALEKVDEY 256

Query: 392 ------LVEKIEQSIVLLKER 406
                 L +  ++    LK  
Sbjct: 257 AESYNRLEQLDKKFPDKLKNL 277


>gi|296277302|ref|ZP_06859809.1| type I restriction-modification enzyme, S subunit [Staphylococcus
           aureus subsp. aureus MR1]
          Length = 212

 Score = 73.7 bits (179), Expect = 5e-11,   Method: Composition-based stats.
 Identities = 32/212 (15%), Positives = 67/212 (31%), Gaps = 4/212 (1%)

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
           L+       +      +    +  G     W  K    ++   N++     E  +L+ S 
Sbjct: 2   LLQQQKKCYIQKIFSQELRFKDEEGNYYKGWNKKQLKDVLEFSNKRTINENEYPVLTSSR 61

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
             +I + +                + P   +       +         +++ GII+  Y 
Sbjct: 62  QGLILQSDYYKDRKTFAESNIGYFILPKNHITYRSRSDDGIFKFNLNLMIDVGIISKYYP 121

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
             K    +  YL   +      +         +  L  +D++ +   +P  +EQ  I + 
Sbjct: 122 VFKGIDANQYYLTLHLNYQLKKEYIKYATGTSQLVLSQKDLQNIKTKLPSYEEQQKIGDF 181

Query: 382 INVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
                + ID LVEK    +  LK R+   +  
Sbjct: 182 ----FSEIDRLVEKQSSKVGRLKVRKKELLQK 209



 Score = 49.0 bits (115), Expect = 0.002,   Method: Composition-based stats.
 Identities = 29/184 (15%), Positives = 53/184 (28%), Gaps = 5/184 (2%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           K W    +K   + +  RT    +  +             Y  KD  +         I  
Sbjct: 30  KGWNKKQLKDVLEFSNKRTINENEYPVLTSSRQGLILQSDY-YKDRKTFAESNIGYFILP 88

Query: 83  KGQILY---GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           K  I Y      G +     +    GI S ++  +       +      L+  + +    
Sbjct: 89  KNHITYRSRSDDGIFKFNLNLMIDVGIIS-KYYPVFKGIDANQYYLTLHLNYQLKKEYIK 147

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
              G +      K + NI   +P   EQ  I +        ++   ++  R     KE  
Sbjct: 148 YATGTSQLVLSQKDLQNIKTKLPSYEEQQKIGDFFSEIDRLVEKQSSKVGRLKVRKKELL 207

Query: 200 QALV 203
           Q + 
Sbjct: 208 QKMF 211


>gi|319428579|gb|ADV56653.1| restriction modification system DNA specificity domain protein
           [Shewanella putrefaciens 200]
          Length = 383

 Score = 73.7 bits (179), Expect = 6e-11,   Method: Composition-based stats.
 Identities = 67/372 (18%), Positives = 123/372 (33%), Gaps = 25/372 (6%)

Query: 26  KVVPIKRFTKLN--TGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           + V      +    T +   +     YIGLE ++SG+ K + + G   + + S   +F K
Sbjct: 5   QTVKFGDICREVKLTTKDPIADGYERYIGLEHLDSGSLK-IKRWGVIAEDNPSFTRVFKK 63

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP--ELLQGWLLSIDVTQRIEAIC 141
           G IL+GK  PYL+KA IA+FDGICS   +V++P +      L+   + S  + +      
Sbjct: 64  GHILFGKRRPYLKKAAIAEFDGICSGDIIVMEPTNSFIAASLIPNIVQSELMWEWAIKTS 123

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            G+      +K +  + + +   AEQ+   +                     +     + 
Sbjct: 124 SGSLSPRTKFKLLAELDITLMSNAEQIRKIKVFNKFDDVERLQYDVGDSLNLVWNTLYRE 183

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR-KNTKLIESNILSLS 260
             S               S I   G + D   V      V   +       I    +S  
Sbjct: 184 FYS--------------SSDIAPNGKLRDVIHVLQPGKSVKSASTAARKTQIGVLKVSAV 229

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
            G   +  E + +  + E  +     D  +++    +           Q     + T   
Sbjct: 230 SGGFYKPSENKLVTQESEIEKLQICPDKSDLLITRANTPQLVGDSCIVQDKFENVFTPDK 289

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCK--VFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQ 375
           +              L     L K  +   + +G     +++    +  + V +P   EQ
Sbjct: 290 IWRAQVVPGVDKYWLLQLLQYLRKSGMLGKVATGTSNSMKNISQSKMLDIDVYIPTALEQ 349

Query: 376 FDITNVINVETA 387
             I  VI     
Sbjct: 350 EKIGRVIKCLMQ 361


>gi|217033266|ref|ZP_03438697.1| hypothetical protein HP9810_9g19 [Helicobacter pylori 98-10]
 gi|216944207|gb|EEC23632.1| hypothetical protein HP9810_9g19 [Helicobacter pylori 98-10]
          Length = 390

 Score = 73.7 bits (179), Expect = 6e-11,   Method: Composition-based stats.
 Identities = 59/395 (14%), Positives = 116/395 (29%), Gaps = 29/395 (7%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKD------IIYIGLEDVESGTGKYLPKDGNSRQ---S 73
             W+   +K   K+  G T  +         I +I  +D+ +  G+Y+ K   S      
Sbjct: 2   SEWQTFCLKDLGKIVGGATPSTNNPKNYGNKIAWITPKDLSTLQGRYIKKGSRSISRLGF 61

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
            + +  +  K  IL+    P      IA      +  F  + P   +      + L    
Sbjct: 62  KSCSCVLLPKHAILFSSRAPI-GYVAIAKKRLCTNQGFKSIIPNKKI-YFEFLYYLLKYH 119

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
              I  I  G T        +G   + IPP   +    +KI      +D  I    +  E
Sbjct: 120 KDNISNIGGGTTFKEVSGATLGLFKVKIPPTYYEQ---QKIARTLSILDQKIENNHKINE 176

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
           LL +  + L      +    D   K        +       +                ++
Sbjct: 177 LLHKILELLYEQYFVRFDFLDENNKPYQTSGGKMKFSKELNRLIPNDFEVKTLGELTQLK 236

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
               + ++ +   K         P   ETYQ      I+    +        +       
Sbjct: 237 VGNKNANHSSNQGKYPFFTCSNNPLRCETYQFEGKHIIISGNGNFYVTHYDGKFDAYQRT 296

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
            ++        P+  +   L +L        +       + + +   D++ + +++P +K
Sbjct: 297 YVVN-------PNNPNHYVLIYLFVKSYTNYLKLQSRGSIIKFITKSDIENIKIVLPNLK 349

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
                 NV+         ++E   QS   L   R 
Sbjct: 350 TYAKWNNVL--------KMIENNNQSTQTLTALRD 376


>gi|315639046|ref|ZP_07894215.1| type I restriction modification DNA specificity domain protein
           [Campylobacter upsaliensis JV21]
 gi|315480874|gb|EFU71509.1| type I restriction modification DNA specificity domain protein
           [Campylobacter upsaliensis JV21]
          Length = 191

 Score = 73.7 bits (179), Expect = 6e-11,   Method: Composition-based stats.
 Identities = 24/165 (14%), Positives = 58/165 (35%), Gaps = 7/165 (4%)

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYE--TYQIVDPGEIVFRFIDLQNDKRSL 305
            T       + +   +  + +   +     ES++      V   +IVF  I     K +L
Sbjct: 21  YTYKKGRAYIRIKDLSFKEDISLNSAVFIDESFKPTNEVRVKENDIVFATIGATIGKANL 80

Query: 306 RSAQVMERGIITSAYMAVKPHG-IDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVK 363
            + ++    I  +       +      +  ++ +S    +      +   +  +  + + 
Sbjct: 81  VTQELAGSFISNNTSKFSIFNQLAYPAFCTYIFQSNFFQEFIKQNTTITAQPKITNKCIL 140

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
            L + +PP+ EQ  I   I+   AR   L ++ +    LL+  + 
Sbjct: 141 NLKIPLPPLTEQERIAKEISQRKARAKALKQEAK---ELLESAKK 182



 Score = 45.9 bits (107), Expect = 0.012,   Method: Composition-based stats.
 Identities = 30/187 (16%), Positives = 59/187 (31%), Gaps = 11/187 (5%)

Query: 28  VPIKRFT-----KLNTGRTSESGKDIIYIGLEDVESG-TGKYLPKDGNSRQSDTSTVSIF 81
           V +          L + +     K   YI ++D+                    +     
Sbjct: 2   VRLGEVGIMQNGSLISEKLYTYKKGRAYIRIKDLSFKEDISLNSAVFIDESFKPTNEVRV 61

Query: 82  AKGQILYGKLGPYLRKAIIA-----DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
            +  I++  +G  + KA +            +T    +  +   P        S    + 
Sbjct: 62  KENDIVFATIGATIGKANLVTQELAGSFISNNTSKFSIFNQLAYPAFCTYIFQSNFFQEF 121

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           I+             K I N+ +P+PPL EQ  I ++I     R   L  E    +E  K
Sbjct: 122 IKQNTTITAQPKITNKCILNLKIPLPPLTEQERIAKEISQRKARAKALKQEAKELLESAK 181

Query: 197 EKKQALV 203
           ++ + ++
Sbjct: 182 KEVEHII 188


>gi|301162157|emb|CBW21702.1| putative type I restriction enzyme specificity protein [Bacteroides
           fragilis 638R]
          Length = 368

 Score = 73.7 bits (179), Expect = 6e-11,   Method: Composition-based stats.
 Identities = 48/395 (12%), Positives = 109/395 (27%), Gaps = 47/395 (11%)

Query: 24  HWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDV-ESGTGKYLPKDGNSRQSDTS 76
            W+   I     +  G T ++         I +    ++ ++       +       + S
Sbjct: 9   EWETKSINDLADVIGGGTPDTTVKSYWDGGIQWFTPSEIGKNKFVDASLRTITEDGLNNS 68

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
           +  +     IL          ++        +  F  L  K+    +   + L     + 
Sbjct: 69  SAKLLPPNTILLSSRATIGECSLSLRECA-TNQGFQSLVSKNCN--VDFLYYLIQTKKKD 125

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           +     G+T        +  I + +P   EQ  I E +      ID  I  + + IE LK
Sbjct: 126 LIRKSCGSTFLEISANEVRKIQVSVPSDVEQQKIAELL----SLIDKRIATQNKIIEDLK 181

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
             K A+   ++  G     + K   I  +G            + +    +KN        
Sbjct: 182 LLKSAISLNVLHSG--TWKQFKIKDIAQIG-------RGRVISSIEISQQKNPTY----- 227

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
              S       +         E                              +  +    
Sbjct: 228 PVYSSQTSNDGIMGYLDDYMFEGEYISW------------TTDGANAGTVFYRDGKFNCT 275

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
               +    +G D T+   L+ +    K            L    +  + + +P  +EQ 
Sbjct: 276 NVCGLLKLLNGFD-THFVSLILAEATKKYVSINL--ANPKLMNNIMGNIQICLPEFEEQK 332

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
            I    ++   ++  L++  +  +    +++   +
Sbjct: 333 RI----SIVFKKLQELLDVQKILLNQYSKQKQCLL 363


>gi|213616106|ref|ZP_03371932.1| EcoKI restriction-modification system protein HsdS [Salmonella
           enterica subsp. enterica serovar Typhi str. E98-2068]
          Length = 126

 Score = 73.7 bits (179), Expect = 6e-11,   Method: Composition-based stats.
 Identities = 14/81 (17%), Positives = 33/81 (40%)

Query: 338 RSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
              +   +         + L  + +   P+ VPP++EQ +I   +    A  D + +++ 
Sbjct: 3   NDSNNISLSQLFTGTTIKHLTGKALANYPIRVPPLEEQHEIVRRVEQLFAWADTIEKQVN 62

Query: 398 QSIVLLKERRSSFIAAAVTGQ 418
            ++  +     S +A A  G+
Sbjct: 63  NALNRVNSLTQSILAKAFRGE 83


>gi|288870250|ref|ZP_06409683.1| putative type II restriction-modification enzyme [Clostridium
           hathewayi DSM 13479]
 gi|288867882|gb|EFD00181.1| putative type II restriction-modification enzyme [Clostridium
           hathewayi DSM 13479]
          Length = 889

 Score = 73.7 bits (179), Expect = 6e-11,   Method: Composition-based stats.
 Identities = 54/395 (13%), Positives = 117/395 (29%), Gaps = 48/395 (12%)

Query: 28  VPIKRFTKLNTGRTSESGK------DIIYIGLEDV-ESGTGKYLPKDGNSRQSDTSTVSI 80
           V +    ++  G T           + + +  +++  SG    + K              
Sbjct: 520 VRLGELVQIIKGVTYSKEDQVYNETNNVILTADNITNSGDFDVVKKVFLRADLTIDGTKK 579

Query: 81  FAKGQILYG----KLGPYLRKAIIADFDGICSTQFL---VLQPKDVLPELLQGWLLSIDV 133
             +  I             + A I+      +  F+     + +DV  + L   L S   
Sbjct: 580 LKQNDIFMCFSSGSKSHVGKSAYISYNTEYFAGGFMGVLRCKSEDVSMKYLWAILSSNQF 639

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
              I     G  +++     + +I +P+PPL  Q  I  +I         +I +      
Sbjct: 640 RHIISQESTGININNLS-ANLADIKIPLPPLDVQKKIVAEIEEIDREESYIIEQVDALRY 698

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
                    +   V  G                       ++    + +    + +    
Sbjct: 699 S--------ILSAVKNGA------------------AGEPLEKLGVVASYSQDRISCAEL 732

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
           S+   +   N++Q +E +          T      G I+   I     K  L        
Sbjct: 733 SSDTYVGVDNLLQNMEGKGSSQFVPKSGTAIAYSKGNILLSNIRPYLKKIWLADNDGGSS 792

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPI 372
           G +    + +    I S YL +L+ + +  +       G+         V    V +P +
Sbjct: 793 GDV--LVLKMDDTKISSKYLYYLLATDEFFEYEMQHIKGVKMPRADKASVLNYNVPIPSL 850

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
            +Q +I   I     +I+  +   +  +  LK+++
Sbjct: 851 FKQQEIVAEIE----KIESEITTRKMRLEDLKKQK 881



 Score = 58.3 bits (139), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 17/141 (12%), Positives = 43/141 (30%), Gaps = 14/141 (9%)

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM---AVKPHGIDSTYLAW 335
           + +  + +   +I   F           +            +M     K   +   YL  
Sbjct: 573 TIDGTKKLKQNDIFMCFSSGSKSHVGKSAYISYNTEYFAGGFMGVLRCKSEDVSMKYLWA 632

Query: 336 LMRSYDLCKVFYAMGSGLRQSLK--FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
           ++ S     +     +G+  ++     ++  + + +PP+  Q  I   I       +  +
Sbjct: 633 ILSSNQFRHIISQESTGI--NINNLSANLADIKIPLPPLDVQKKIVAEIEEIDRE-ESYI 689

Query: 394 EKIEQSIVLLKERRSSFIAAA 414
                 I  +   R S ++A 
Sbjct: 690 ------IEQVDALRYSILSAV 704


>gi|153811192|ref|ZP_01963860.1| hypothetical protein RUMOBE_01584 [Ruminococcus obeum ATCC 29174]
 gi|149832690|gb|EDM87774.1| hypothetical protein RUMOBE_01584 [Ruminococcus obeum ATCC 29174]
          Length = 380

 Score = 73.7 bits (179), Expect = 6e-11,   Method: Composition-based stats.
 Identities = 63/385 (16%), Positives = 125/385 (32%), Gaps = 43/385 (11%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
                 +L   + +            +++      +P  GN  + D S   +       Y
Sbjct: 7   KFGELIELTNEKNANGLYGEDDAIGVNIDK---IIMPMRGNLEKKDFSNFHLVPPRHFAY 63

Query: 89  GKLGPYLRKAIIAD----FDGICSTQFLVLQ---PKDVLPELLQGWLLSIDVTQRIEAIC 141
              G         D    F    +     ++    K +L   L  +L   +  +  E I 
Sbjct: 64  NPRGSRKLGIGFNDTEKTFIITFNDNVFRIKETAKKKILDTYLFMYLCRKEWDRYAEFIS 123

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            G++    DW       + +PP+  Q    +   A                         
Sbjct: 124 WGSSTEVFDWNIFCEEEIFLPPIQIQQKYVDVYNAMLEN--------------------- 162

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
                  +GL+    + D+ IE +     H         +   + KN  L+   + ++  
Sbjct: 163 --QKSYERGLDDLKLVCDAYIEELRKELPHK---KLGNYIALCDEKNDDLV-YGLDAVRG 216

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVF-RFIDLQNDKRSLRSAQVMERGIITSAY 320
            +I ++       ++  S + Y +V P E  +        +K SL      E  I +S+Y
Sbjct: 217 ISIEKRFIYTKANMEGVSLKPYAVVKPDEFAYVTVTSRNGEKISLARNNSDETYICSSSY 276

Query: 321 MAVKPHGID---STYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQF 376
           +  K    +     YL+ L    +  +          R++  +E++K + + +P I+ Q 
Sbjct: 277 IVFKVDDTNTLLPAYLSMLFERSEFNRYSRFNSWGSARETFDWEEMKNVLIPIPNIEIQQ 336

Query: 377 DITNVINVETARIDVLVEKIEQSIV 401
           DI N+      R D + EK++  I 
Sbjct: 337 DIVNIFEAYNTRRD-INEKLKAQIK 360


>gi|326572828|gb|EGE22813.1| type I restriction modification DNA specificity protein [Moraxella
           catarrhalis CO72]
          Length = 221

 Score = 73.7 bits (179), Expect = 6e-11,   Method: Composition-based stats.
 Identities = 19/184 (10%), Positives = 57/184 (30%), Gaps = 11/184 (5%)

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE---SYETYQIVDPGEIV 292
              +  T             I  L    +             E      + + +    ++
Sbjct: 37  KISSGGTPKTGIPEYYNNGEIPWLRTQEVNFNDIYDTGVKITEPGVKNSSAKWIPANCVI 96

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
                    +  +    +       +  + V     +  Y+ + + +    +   ++G+G
Sbjct: 97  IAMYGATVGRVGINKIPMTTNQACAN--IEVNEEIAEYRYVYYCLANQY--EYIKSLGTG 152

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRS 408
            + ++  + VK+L + +PP+  Q  I  +++        + E + + I L ++     R 
Sbjct: 153 SQTNINAQIVKKLKIPIPPLSIQSQIVAILDTFDTLTQSISEGLPKEIKLRQKQYEYYRE 212

Query: 409 SFIA 412
             + 
Sbjct: 213 QLLN 216



 Score = 69.4 bits (168), Expect = 9e-10,   Method: Composition-based stats.
 Identities = 20/192 (10%), Positives = 68/192 (35%), Gaps = 9/192 (4%)

Query: 26  KVVPIKRFTK-LNTGRTSE-------SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +   +    K +++G T +       +  +I ++  ++V                   S+
Sbjct: 27  EWRALGEVAKKISSGGTPKTGIPEYYNNGEIPWLRTQEVNFNDIYDTGVKITEPGVKNSS 86

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
                   ++    G  + +  I       +     ++  + + E    +    +  + I
Sbjct: 87  AKWIPANCVIIAMYGATVGRVGINKIPMTTNQACANIEVNEEIAEYRYVYYCLANQYEYI 146

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           +++  G + ++ + + +  + +PIPPL+ Q  I   +        ++     + I+L ++
Sbjct: 147 KSLGTG-SQTNINAQIVKKLKIPIPPLSIQSQIVAILDTFDTLTQSISEGLPKEIKLRQK 205

Query: 198 KKQALVSYIVTK 209
           + +     ++  
Sbjct: 206 QYEYYREQLLNF 217


>gi|153869116|ref|ZP_01998801.1| conserved hypothetical protein [Beggiatoa sp. PS]
 gi|152074332|gb|EDN71197.1| conserved hypothetical protein [Beggiatoa sp. PS]
          Length = 472

 Score = 73.3 bits (178), Expect = 6e-11,   Method: Composition-based stats.
 Identities = 44/403 (10%), Positives = 106/403 (26%), Gaps = 31/403 (7%)

Query: 35  KLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPY 94
                +     K+  Y+ + +V      Y   + +          +     I+   + P 
Sbjct: 54  SFVNIKNLSLNKNFNYLEISNVSLAGLGYTTNEIDYLNIPDRATYVLKNHDIVISTVRPN 113

Query: 95  LRKAII--ADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWK 152
                +       + ++ F VL+   +    +  +  +      +               
Sbjct: 114 RNAVALIRQGKRLVGTSGFTVLRIDKLSSYYVFAFCKTKYFITHLMRKNTATMYPAVSDN 173

Query: 153 GIGNIPMPIPPLAEQVLIREKIIAET-----VRIDTLITERIRFIELLKEKKQALVSYIV 207
            + N  + +P    Q  I   +          +I     E +   EL  +  Q  +    
Sbjct: 174 DVLNSIILVPSATFQAKIESIVKLAYQKLEKSQILYTQAESLLLQELGLDNWQPPILETT 233

Query: 208 TKGLNPDVKMKDSG-IEWVGLVPDHWEVKPFFALVTELNRK---------------NTKL 251
              L+  ++   +  I+       +             +                     
Sbjct: 234 ELKLSQILEDNPTFRIDSEYFQTKYLHNIRLIKSYPNGSITLGEVIKSITGGATPLGANY 293

Query: 252 IESNILSLS----YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
            E  I  L       N I   +   +  K ++      +   +++F       +   +  
Sbjct: 294 FEKGIPFLRVQNIKPNYIDDSDLVYISKKDDAKLKRSKLKENDVLFSITGSYGNAAVVTK 353

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLP 366
                     S  + +        + A  + S            G  R +L +E +K+  
Sbjct: 354 EFAGCNINQHSVKLTLTGKTFSPYFFAVFLNSRVGRLQSDKYIVGITRPALDYESIKKFE 413

Query: 367 VLVPPIKEQFDITNVINVETARIDV---LVEKIEQSIVLLKER 406
           + + P K Q  I ++I            L+E  + ++ L  E+
Sbjct: 414 IPLVPYKFQRKIEDLIKAAYKNSKAGKMLLELAKHAVELAIEQ 456



 Score = 50.9 bits (120), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 29/162 (17%), Positives = 55/162 (33%), Gaps = 10/162 (6%)

Query: 28  VPIKRFTKLNTGRTSESG-----KDIIYIGLEDVESGTGKYLPKDGNSRQSD-TSTVSIF 81
           + +    K  TG  +  G     K I ++ +++++            S++ D     S  
Sbjct: 273 ITLGEVIKSITGGATPLGANYFEKGIPFLRVQNIKPNYIDDSDLVYISKKDDAKLKRSKL 332

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFL----VLQPKDVLPELLQGWLLSIDVTQRI 137
            +  +L+   G Y   A++      C+         L  K   P     +L S     + 
Sbjct: 333 KENDVLFSITGSYGNAAVVTKEFAGCNINQHSVKLTLTGKTFSPYFFAVFLNSRVGRLQS 392

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
           +    G T    D++ I    +P+ P   Q  I + I A   
Sbjct: 393 DKYIVGITRPALDYESIKKFEIPLVPYKFQRKIEDLIKAAYK 434


>gi|5712706|gb|AAD47617.1| HsdS variable domain [Lactococcus lactis]
          Length = 166

 Score = 73.3 bits (178), Expect = 6e-11,   Method: Composition-based stats.
 Identities = 25/153 (16%), Positives = 54/153 (35%), Gaps = 8/153 (5%)

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
            N+   + +I  +  G I        +        + ++V  G+I++      + +  + 
Sbjct: 22  GNSSYYKGDIPFIRSGEINSDKTELFLTEAGLKSSSAKMVSVGDILYALYGATSGEVGIS 81

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLP 366
                  G I  A +A+KP    +++           K+      G + +L    VK L 
Sbjct: 82  QI----NGAINQAILAIKPCDGYNSHFLMQWLKLKKQKIIDQYLQGGQGNLSGSIVKNLV 137

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
           + VP  +EQ  I         ++D  +   ++ 
Sbjct: 138 LKVPNFEEQKKIGAF----FKQLDDTITLHQRK 166



 Score = 72.9 bits (177), Expect = 8e-11,   Method: Composition-based stats.
 Identities = 29/164 (17%), Positives = 57/164 (34%), Gaps = 10/164 (6%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
            W+   +   T   +G T  +G       DI +I   ++ S   +    +   +    S+
Sbjct: 1   DWEERKLGELTTSFSGGTPSAGNSSYYKGDIPFIRSGEINSDKTELFLTEAGLKS---SS 57

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
             + + G ILY   G    +  I+  +G  +   L ++P D          L +   + I
Sbjct: 58  AKMVSVGDILYALYGATSGEVGISQINGAINQAILAIKPCDGYNSHFLMQWLKLKKQKII 117

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
           +   +G    +     + N+ + +P   EQ  I          I
Sbjct: 118 DQYLQG-GQGNLSGSIVKNLVLKVPNFEEQKKIGAFFKQLDDTI 160


>gi|262279999|ref|ZP_06057784.1| type-1 restriction enzyme EcoEI specificity protein [Acinetobacter
           calcoaceticus RUH2202]
 gi|262260350|gb|EEY79083.1| type-1 restriction enzyme EcoEI specificity protein [Acinetobacter
           calcoaceticus RUH2202]
          Length = 815

 Score = 73.3 bits (178), Expect = 6e-11,   Method: Composition-based stats.
 Identities = 30/200 (15%), Positives = 62/200 (31%), Gaps = 6/200 (3%)

Query: 218 KDSGIEWVGLVPDHWEVKPFFALVT---ELNRKNTKLIESNILSLSYGNIIQKLETRNMG 274
             S  E   ++P  W       +V+   +         E+  L    GN +         
Sbjct: 93  MISEDEKPFIIPPSWSWSRLNWIVSILGDGIHGTPIYEENTGLYFVNGNNLNNGNIIIKH 152

Query: 275 LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT--SAYMAVKPHGIDSTY 332
                 +     +  ++  R I +  +      A      II   SA            +
Sbjct: 153 ETKTVSQESFNKNKKDLNLRSILVSINGTIGNVAFYNNEPIILGKSACYFNLIEPNSMAF 212

Query: 333 LAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
           +  ++ S    +      +G   ++L    + + PV +PP++EQ  I   ++      D 
Sbjct: 213 MKIVLNSPYFYQYANKEATGSTIKNLSLASMNKFPVPLPPLEEQKSIVAKVDELMQLCDQ 272

Query: 392 LVEKIEQSIVLLKERRSSFI 411
           L ++   S     +   + I
Sbjct: 273 LEKQQSLSSEAHDQLVDTLI 292



 Score = 69.4 bits (168), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 52/488 (10%), Positives = 123/488 (25%), Gaps = 94/488 (19%)

Query: 21  IPKHWKVVPIKRFTKLNTGRT-----SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           IP  W    +     +           E    + ++   ++ +G      +     Q   
Sbjct: 103 IPPSWSWSRLNWIVSILGDGIHGTPIYEENTGLYFVNGNNLNNGNIIIKHETKTVSQESF 162

Query: 76  STVSI-FAKGQILYGKLGPYLRKAIIADFDGICS-TQFLVLQPKDVLPELLQGWLLSIDV 133
           +          IL    G     A   +   I   +       +      ++  L S   
Sbjct: 163 NKNKKDLNLRSILVSINGTIGNVAFYNNEPIILGKSACYFNLIEPNSMAFMKIVLNSPYF 222

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMP----------------IPPLAEQVLIREKIIAE 177
            Q       G+T+ +     +   P+P                +  L +Q+  ++ + +E
Sbjct: 223 YQYANKEATGSTIKNLSLASMNKFPVPLPPLEEQKSIVAKVDELMQLCDQLEKQQSLSSE 282

Query: 178 -------------------------TVRIDTLITERIRFIELLKEKKQALVSYIVTKGLN 212
                                       I             +++ KQ ++   V   L 
Sbjct: 283 AHDQLVDTLIKVLINSSDVDEFQQNWQSISENFDLLFTTEYSVEQLKQTILQLAVMGKLV 342

Query: 213 PDVKMKDSGIEWVGLVPD------------------------------------HWEVKP 236
                 +   E +  + +                                    +  +  
Sbjct: 343 KQDTNDEPASELLEKIAEKKAKLVQEGTITKKAKTYSLQIADINLPRNWSLVNINQIIWD 402

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI--VDPGEIVFR 294
             A  +              +  +                PE         +  G+I+  
Sbjct: 403 LDAGWSPACHPYPAGSNKWGVLKTTFVQCNYFIENENKELPEELSPRVESELKSGDILVT 462

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL---CKVFYAMGS 351
                N          +   ++ S  +    +   + +  ++  S +            S
Sbjct: 463 RAGPYNRVGVACYIDNIRPKLMISDKIIRISYDKVNLFGPFIALSINFGITKIYLKDNQS 522

Query: 352 GL---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLK-ERR 407
           G+   + ++  + ++  P+L+PP+ EQ  I   +N     I+ L + ++  +   K    
Sbjct: 523 GMAESQVNISQDKLRSAPILLPPLSEQKRIVEKVNQLFFMIEQL-QILQGKLQRTKLHLA 581

Query: 408 SSFIAAAV 415
            S IA A+
Sbjct: 582 DSLIANAL 589


>gi|257078399|ref|ZP_05572760.1| type IC HsdS subunit [Enterococcus faecalis JH1]
 gi|256986429|gb|EEU73731.1| type IC HsdS subunit [Enterococcus faecalis JH1]
          Length = 383

 Score = 73.3 bits (178), Expect = 6e-11,   Method: Composition-based stats.
 Identities = 24/157 (15%), Positives = 67/157 (42%), Gaps = 11/157 (7%)

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS-LRSAQVMERGIITSAYM 321
             + + +  +  +  +  + Y ++   E+ +   + +  K   + S +  E  ++   Y 
Sbjct: 27  GWLNQKDRFSGNIAGKEQKNYTLLLKNELSYNHGNSKLAKYGAVFSLKTYEEALVPRVYH 86

Query: 322 AVKP-HGIDSTYLAWLMRSYDLCKVF-YAMGSGLRQ----SLKFEDVKRLPVLVPPIKEQ 375
           + K     D  +L ++  +    K     + SG R     ++ ++D   + + +P + EQ
Sbjct: 87  SFKSTKNSDPDFLEYIFATKKPDKELGKLVSSGARMDGLLNINYDDFSNIKINIPHVHEQ 146

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
             I+N++     +ID  +   ++ +  LKE + +++ 
Sbjct: 147 KKISNLL----RKIDDTIALHQRKLDQLKELKKAYLQ 179



 Score = 73.3 bits (178), Expect = 7e-11,   Method: Composition-based stats.
 Identities = 52/397 (13%), Positives = 137/397 (34%), Gaps = 34/397 (8%)

Query: 31  KRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYG- 89
           K  T+   G  ++   D+  + +   +    +     GN    +    ++  K ++ Y  
Sbjct: 2   KEITERVKG--NDGRMDLPTLTISASQGWLNQKDRFSGNIAGKEQKNYTLLLKNELSYNH 59

Query: 90  ---KLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE------AI 140
              KL  Y     +  ++     +           +      +        E      + 
Sbjct: 60  GNSKLAKYGAVFSLKTYEEALVPRVYHSFKSTKNSDPDFLEYIFATKKPDKELGKLVSSG 119

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
                + + ++    NI + IP + EQ  I   +     +ID  I    R ++ LKE K+
Sbjct: 120 ARMDGLLNINYDDFSNIKINIPHVHEQKKISNLL----RKIDDTIALHQRKLDQLKELKK 175

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFA--LVTELNRKNTKLIESNILS 258
           A +  +  K      +++ +  E      D W++        + +   +  +  +S +  
Sbjct: 176 AYLQLMFPKKDETVPQVRFADFE------DDWQLCKLGDVVEIFDGTHQTPRYTDSGVKF 229

Query: 259 LSYGNIIQKLETRNMGLK-PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
           +S  NI      + +  +  E   + +    G+I+   I    D  +++  +  E     
Sbjct: 230 VSVENIATLETKKYITHEAYEKEYSKKRAKKGDILMTRIG---DIGTMKVIETDEPLAYY 286

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQ 375
                +K    +  +L++++ S ++ +  +         + +   ++ ++ + +   +EQ
Sbjct: 287 VTLALLKAKETNPYFLSFIISSPEIQRNIWKRTLHIAFPKKINLGEINQVEMKITIFEEQ 346

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
             I +        +D  +   +  +  LK  + S++ 
Sbjct: 347 DKIGD----LFTNLDDAIILNQNKLNQLKSLKKSYLQ 379



 Score = 50.6 bits (119), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 28/185 (15%), Positives = 58/185 (31%), Gaps = 7/185 (3%)

Query: 24  HWKVVPIKRFTKLNTGRTSE---SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
            W++  +    ++  G       +   + ++ +E++ +   K      +       +   
Sbjct: 200 DWQLCKLGDVVEIFDGTHQTPRYTDSGVKFVSVENIATLETK--KYITHEAYEKEYSKKR 257

Query: 81  FAKGQILYGKLGPYL-RKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
             KG IL  ++G     K I  D          +L+ K+  P  L   + S ++ + I  
Sbjct: 258 AKKGDILMTRIGDIGTMKVIETDEPLAYYVTLALLKAKETNPYFLSFIISSPEIQRNIWK 317

Query: 140 ICEGATMS-HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
                      +   I  + M I    EQ  I +        I     +  +   L K  
Sbjct: 318 RTLHIAFPKKINLGEINQVEMKITIFEEQDKIGDLFTNLDDAIILNQNKLNQLKSLKKSY 377

Query: 199 KQALV 203
            Q + 
Sbjct: 378 LQNMF 382


>gi|213023061|ref|ZP_03337508.1| EcoKI restriction-modification system protein HsdS [Salmonella
           enterica subsp. enterica serovar Typhi str. 404ty]
          Length = 121

 Score = 73.3 bits (178), Expect = 6e-11,   Method: Composition-based stats.
 Identities = 14/76 (18%), Positives = 32/76 (42%)

Query: 343 CKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
             +         + L  + +   P+ VPP++EQ +I   +    A  D + +++  ++  
Sbjct: 3   ISLSQLFTGTTIKHLTGKALANYPIRVPPLEEQHEIVRRVEQLFAWADTIEKQVNNALNR 62

Query: 403 LKERRSSFIAAAVTGQ 418
           +     S +A A  G+
Sbjct: 63  VNSLTQSILAKAFRGE 78


>gi|326559471|gb|EGE09894.1| type I restriction modification DNA specificity protein [Moraxella
           catarrhalis 7169]
          Length = 221

 Score = 73.3 bits (178), Expect = 6e-11,   Method: Composition-based stats.
 Identities = 19/184 (10%), Positives = 57/184 (30%), Gaps = 11/184 (5%)

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE---SYETYQIVDPGEIV 292
              +  T             I  L    +             E      + + +    ++
Sbjct: 37  KISSSGTPKTGIPEYYNNGEIPWLRTQEVNFNDIYDTGVKITEPGVKNSSAKWIPANCVI 96

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
                    +  +    +       +  + V     +  Y+ + + +    +   ++G+G
Sbjct: 97  IAMYGATVGRVGINKIPMTTNQACAN--IEVNEEIAEYRYVYYCLANQY--EYIKSLGTG 152

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRS 408
            + ++  + VK+L + +PP+  Q  I  +++        + E + + I L ++     R 
Sbjct: 153 SQTNINAQIVKKLKIPIPPLSIQSQIVAILDTFDTLTQSISEGLPKEIKLRQKQYEYYRE 212

Query: 409 SFIA 412
             + 
Sbjct: 213 QLLN 216



 Score = 66.7 bits (161), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 19/192 (9%), Positives = 67/192 (34%), Gaps = 9/192 (4%)

Query: 26  KVVPIKRFTK-LNTGRTSE-------SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +   +    K +++  T +       +  +I ++  ++V                   S+
Sbjct: 27  EWRALGEVAKKISSSGTPKTGIPEYYNNGEIPWLRTQEVNFNDIYDTGVKITEPGVKNSS 86

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
                   ++    G  + +  I       +     ++  + + E    +    +  + I
Sbjct: 87  AKWIPANCVIIAMYGATVGRVGINKIPMTTNQACANIEVNEEIAEYRYVYYCLANQYEYI 146

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           +++  G + ++ + + +  + +PIPPL+ Q  I   +        ++     + I+L ++
Sbjct: 147 KSLGTG-SQTNINAQIVKKLKIPIPPLSIQSQIVAILDTFDTLTQSISEGLPKEIKLRQK 205

Query: 198 KKQALVSYIVTK 209
           + +     ++  
Sbjct: 206 QYEYYREQLLNF 217


>gi|238651120|ref|YP_002916978.1| putative type I restriction enzyme S subunit [Rickettsia peacockii
           str. Rustic]
 gi|238625218|gb|ACR47924.1| putative type I restriction enzyme S subunit [Rickettsia peacockii
           str. Rustic]
          Length = 311

 Score = 73.3 bits (178), Expect = 7e-11,   Method: Composition-based stats.
 Identities = 41/331 (12%), Positives = 89/331 (26%), Gaps = 30/331 (9%)

Query: 88  YGKLGPYLRKAIIADFDG------ICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI- 140
             K G    K    D         + +    + +   +    L   L S  +  +I    
Sbjct: 1   MCKDGALTGKVCFVDDKILPQIGVMVNEHVYIFRGNIIHQSYLFYCLNSDIIQNQINKNL 60

Query: 141 -CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
                     + + I +I +P+  L +Q  I E++ +    I+        +    +  K
Sbjct: 61  AYNKGAQPGLNREHINSIYIPLLSLEKQQKIIEELNSYQKIIEGAKQIIDNWHPYFEINK 120

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
           Q  +       +N       S         +H E                  I+ +I  +
Sbjct: 121 QWEIVKFGDIVINKLKSNILS--------LEHKEYTTLIVGKKGKMININTAIKGDIPVI 172

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
           + G                                 I                       
Sbjct: 173 ASGLGFSPYSHNQYNFNGN--------------IITISSSGAYAGYIWYHNSPMWTSDCN 218

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
            +      +  T   + +       ++       +  +  +D++ L + +PP++EQ  + 
Sbjct: 219 VIYSINEKLLLTKYLYYILKSQQNIIYQMQAGSGQPHVYLKDLEDLQIPIPPLEEQQKMV 278

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSF 410
             ++   ++ID L   I+Q    LK   +S 
Sbjct: 279 TELDNNQSKIDNLKNYIKQFENKLKTTLNSL 309



 Score = 47.9 bits (112), Expect = 0.003,   Method: Composition-based stats.
 Identities = 32/195 (16%), Positives = 56/195 (28%), Gaps = 10/195 (5%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSR-------- 71
            I K W++V               S +   Y  L   + G    +               
Sbjct: 117 EINKQWEIVKFGDIVINKLKSNILSLEHKEYTTLIVGKKGKMININTAIKGDIPVIASGL 176

Query: 72  --QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
                +     F    I     G Y       +     S   ++    + L      + +
Sbjct: 177 GFSPYSHNQYNFNGNIITISSSGAYAGYIWYHNSPMWTSDCNVIYSINEKLLLTKYLYYI 236

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
                  I  +  G+   H   K + ++ +PIPPL EQ  +  ++     +ID L     
Sbjct: 237 LKSQQNIIYQMQAGSGQPHVYLKDLEDLQIPIPPLEEQQKMVTELDNNQSKIDNLKNYIK 296

Query: 190 RFIELLKEKKQALVS 204
           +F   LK    +L  
Sbjct: 297 QFENKLKTTLNSLWQ 311


>gi|212691987|ref|ZP_03300115.1| hypothetical protein BACDOR_01482 [Bacteroides dorei DSM 17855]
 gi|212665379|gb|EEB25951.1| hypothetical protein BACDOR_01482 [Bacteroides dorei DSM 17855]
          Length = 394

 Score = 73.3 bits (178), Expect = 7e-11,   Method: Composition-based stats.
 Identities = 65/406 (16%), Positives = 142/406 (34%), Gaps = 43/406 (10%)

Query: 24  HWKVVPIKRFTKLNTGRTSES---GKDIIYIGLEDV-ESGTGKYLPKDGNSR-QSDTSTV 78
            W+  P+  F     G   ++   G    +I + D+  +    Y     +   Q      
Sbjct: 9   EWEKYPLTDFMSFKNGMNPDAKRFGSGTKFISVMDILNNQYICYDNIRASVELQEGDLDT 68

Query: 79  SIFAKGQILYGKLGPYLR-----KAIIADFDGICSTQFLVLQPKDVLPELLQGW-LLSID 132
                G I++ +    L         +     I     +  + K     L   + L S  
Sbjct: 69  YGVNYGDIVFQRSSETLEDVGQANVYLDCKPAIFGGFVIRGKSKGNYNPLFLRYLLASPT 128

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
             +RI     GA   +    G+  + + +P + EQ  + + +      ID  I  + + I
Sbjct: 129 ARKRIIVKGAGAQHFNISQDGLSKVVIDVPNIDEQEKVGKLLQC----IDERIATQNKII 184

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           + L+     ++   + KGLN                 + W++     L+TE   KN+   
Sbjct: 185 DKLQSLISGIIQNAIQKGLND----------------NTWKMIYLSKLLTERKEKNSNGY 228

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS-AQVM 311
           E N +S+S G +I ++E             Y +V  G+IV+      N    +   +   
Sbjct: 229 EVNSVSVSEG-VINQIEYLGRSFAASDTSKYNVVRYGDIVYTKSPTGNFPYGIIKQSFQK 287

Query: 312 ERGIITSAYMAVKPHGIDSTYL--AWLMRSYDLCKVFY-AMGSGLRQSLKFED--VKRLP 366
               ++  Y   +P+  ++      + + S          +  G + ++   +       
Sbjct: 288 HPVAVSPLYGVYEPYSNEAGCFLHYYFLSSIVTTNYLSPLIQKGAKNTINISNQTFLNNM 347

Query: 367 VLVPPIKEQFD-ITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
           V  P  +     I  ++     +++  +E++  S+VLL+++++  +
Sbjct: 348 VPYPKEEVGIRPIAALLRNVQIKLN--IERL--SLVLLEQQKTYLL 389



 Score = 64.8 bits (156), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 29/191 (15%), Positives = 65/191 (34%), Gaps = 7/191 (3%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIV 286
             P    +     +  +  R  +     +++ +     I     R      E       V
Sbjct: 12  KYPLTDFMSFKNGMNPDAKRFGSGTKFISVMDILNNQYICYDNIRASVELQEGDLDTYGV 71

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH--GIDSTYLAWLMRSYDLCK 344
           + G+IVF+      +     +  +  +  I   ++         +  +L +L+ S    K
Sbjct: 72  NYGDIVFQRSSETLEDVGQANVYLDCKPAIFGGFVIRGKSKGNYNPLFLRYLLASPTARK 131

Query: 345 VFYAMGSGLRQ-SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
                G+G +  ++  + + ++ + VP I EQ  +  ++      ID  +    + I  L
Sbjct: 132 RIIVKGAGAQHFNISQDGLSKVVIDVPNIDEQEKVGKLLQC----IDERIATQNKIIDKL 187

Query: 404 KERRSSFIAAA 414
           +   S  I  A
Sbjct: 188 QSLISGIIQNA 198


>gi|238852889|ref|ZP_04643292.1| putative restriction-modification enzyme [Lactobacillus gasseri
           202-4]
 gi|238834481|gb|EEQ26715.1| putative restriction-modification enzyme [Lactobacillus gasseri
           202-4]
          Length = 907

 Score = 73.3 bits (178), Expect = 7e-11,   Method: Composition-based stats.
 Identities = 39/374 (10%), Positives = 100/374 (26%), Gaps = 15/374 (4%)

Query: 31  KRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG----QI 86
              T     +T    K  I      + S   K+                   +      I
Sbjct: 542 GNITDYGNEKTIPLHKIAILKNGTSITSSKIKHGNI-PVIAGGREPAYYHNEENRSEPTI 600

Query: 87  LYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATM 146
              + G Y       D     S  F +    +     L  + L     ++I +   G+  
Sbjct: 601 TVSQSGAYAGFVSYHDKPIFASDCFTITAKPNSGYSTLDLYYLLKKKQKQIYSFATGSIQ 660

Query: 147 SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYI 206
            H   K + +  +P      Q      +       ++ +  + +    L E +Q+L S I
Sbjct: 661 KHVYAKDMEDFKIPDKGQELQ-----VVNNLIASFESEVQRQRQLENELTELQQSLFSDI 715

Query: 207 VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ 266
                N     +   +     +      K                        ++   ++
Sbjct: 716 DKVYKNSQKVDQSISMLEDNELVKVMGGKRIPKEYDRAPFPTCHYYPGVKDFENFTINLK 775

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
             +  +  +         ++   ++                 +     +  +A+      
Sbjct: 776 TSDCIDDVVF--EKIKRYVLKENDVFVSAAGTIGKVGMAPKVKGGTISLTENAHRIRVID 833

Query: 327 GI--DSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
                  +L ++++S  +     ++ +      L  E +K + + +  I EQ ++    +
Sbjct: 834 QTKLIPRFLMYILKSQSIQDAMNSLVTKTGTPKLSIESLKNIEIPILKITEQQELIKKWD 893

Query: 384 VETARIDVLVEKIE 397
               +I+ +  +I 
Sbjct: 894 QLNTKINDIYSQIN 907


>gi|326572177|gb|EGE22173.1| type I restriction modification DNA specificity protein [Moraxella
           catarrhalis BC7]
          Length = 221

 Score = 73.3 bits (178), Expect = 7e-11,   Method: Composition-based stats.
 Identities = 19/184 (10%), Positives = 57/184 (30%), Gaps = 11/184 (5%)

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE---SYETYQIVDPGEIV 292
              +  T             I  L    +             E      + + +    ++
Sbjct: 37  KISSGGTPKTGIPEYYNNGEIPWLRTQEVNFNDIYDTGVKIIEPGVKNSSARWIPANCVI 96

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
                    +  +    +       +  + V     +  Y+ + + +    +   ++G+G
Sbjct: 97  IAMYGATVGRVGINKIPMTTNQACAN--IEVNEEIAEYRYVYYCLANQY--EYIKSLGTG 152

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRS 408
            + ++  + VK+L + +PP+  Q  I  +++        + E + + I L ++     R 
Sbjct: 153 SQTNINAQIVKKLKIPIPPLSIQSQIVAILDTFDTLTQSISEGLPKEIKLRQKQYEYYRE 212

Query: 409 SFIA 412
             + 
Sbjct: 213 QLLN 216



 Score = 67.9 bits (164), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 20/192 (10%), Positives = 68/192 (35%), Gaps = 9/192 (4%)

Query: 26  KVVPIKRFTK-LNTGRTSE-------SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +   +    K +++G T +       +  +I ++  ++V                   S+
Sbjct: 27  EWRALGEVAKKISSGGTPKTGIPEYYNNGEIPWLRTQEVNFNDIYDTGVKIIEPGVKNSS 86

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
                   ++    G  + +  I       +     ++  + + E    +    +  + I
Sbjct: 87  ARWIPANCVIIAMYGATVGRVGINKIPMTTNQACANIEVNEEIAEYRYVYYCLANQYEYI 146

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           +++  G + ++ + + +  + +PIPPL+ Q  I   +        ++     + I+L ++
Sbjct: 147 KSLGTG-SQTNINAQIVKKLKIPIPPLSIQSQIVAILDTFDTLTQSISEGLPKEIKLRQK 205

Query: 198 KKQALVSYIVTK 209
           + +     ++  
Sbjct: 206 QYEYYREQLLNF 217


>gi|251791790|ref|YP_003006511.1| Restriction endonuclease S subunits-like protein [Dickeya zeae
           Ech1591]
 gi|247540411|gb|ACT09032.1| Restriction endonuclease S subunits-like protein [Dickeya zeae
           Ech1591]
          Length = 436

 Score = 73.3 bits (178), Expect = 7e-11,   Method: Composition-based stats.
 Identities = 46/320 (14%), Positives = 99/320 (30%), Gaps = 30/320 (9%)

Query: 112 LVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIR 171
           L + P       +  +L SI + +   +                      P  A Q+ I 
Sbjct: 85  LWVDPALADTRYVYYYLRSIQIKEAGYSRHFKFLKEV---DIPIPFKDGSPDFAYQIRIV 141

Query: 172 EKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTK--GLNPDVKMKDSGIEWVGLVP 229
             +      I        +  +LLK     +    V    G +     K       G  P
Sbjct: 142 HLLGKVEELITQRKHHLQQLDDLLKSVFLEMFGDPVRNEKGWDKIPFSKLLADIESGKSP 201

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY-ETYQIVDP 288
                +              +  E  +L L      +  ET N  L  +    T   V  
Sbjct: 202 KCEARQ-------------AESNEWGVLKLGAVTRCKFDETENKALPNDVIPSTRDEVKA 248

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSA----YMAVKPHGIDSTYLAWLMRSYDLCK 344
           G+++F   +      +          ++       ++  +   I+  ++  L+      K
Sbjct: 249 GDLLFSRKNTYELVAACAYVFSTRPKLLMPDLIFRFIFKQDVDINPIFMWKLLTCDSQRK 308

Query: 345 VFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
              ++ +G      ++   ++K + +  PP+  Q     ++     +++ +  + +QS+ 
Sbjct: 309 AIQSLAAGAAGSMPNISKTNLKSVRLPKPPLSLQNQFATIVE----KVESIKSRYQQSLA 364

Query: 402 LLKERRSSFIAAAVTGQIDL 421
            L+   SS    A  G++DL
Sbjct: 365 DLEVLYSSLSQRAFKGELDL 384



 Score = 40.2 bits (92), Expect = 0.60,   Method: Composition-based stats.
 Identities = 30/207 (14%), Positives = 59/207 (28%), Gaps = 21/207 (10%)

Query: 23  KHWKVVPIKRF-TKLNTGRTSE------SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           K W  +P  +    + +G++ +         +   + L  V                   
Sbjct: 181 KGWDKIPFSKLLADIESGKSPKCEARQAESNEWGVLKLGAVTRCKFDETENKALPNDVIP 240

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGI--------CSTQFLVLQPKDVLPELLQGW 127
           ST      G +L+ +   Y   A  A                +F+  Q  D+ P  +   
Sbjct: 241 STRDEVKAGDLLFSRKNTYELVAACAYVFSTRPKLLMPDLIFRFIFKQDVDINPIFMWKL 300

Query: 128 LLSIDVTQRIEAICEGAT--MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
           L      + I+++  GA   M +     + ++ +P PPL+ Q      +           
Sbjct: 301 LTCDSQRKAIQSLAAGAAGSMPNISKTNLKSVRLPKPPLSLQNQFATIVEKVESIKSRYQ 360

Query: 186 TERIRFIELLKEKKQALVSYIVTKGLN 212
                   L      +L        L+
Sbjct: 361 QSLADLEVLYS----SLSQRAFKGELD 383


>gi|315036578|gb|EFT48510.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX0027]
          Length = 207

 Score = 73.3 bits (178), Expect = 8e-11,   Method: Composition-based stats.
 Identities = 23/203 (11%), Positives = 65/203 (32%), Gaps = 11/203 (5%)

Query: 213 PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY---GNIIQKLE 269
           P ++ +    +W              +       K     E+++  +     G+ ++ +E
Sbjct: 9   PRLRFRGFSEDWELCKLGQVANYRRGSFPQPYGNKEWYDGENSMPFVQVVDVGDNLRLVE 68

Query: 270 TRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID 329
                +   +      V  G++V             +    ++R ++           +D
Sbjct: 69  DTKQKISELAQPKSVFVKEGKVVVTLQGSIGRVAITQYPAYVDRTLL---IFESYKAEMD 125

Query: 330 STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
             Y A++++             G  +++  E +    +  P I+EQ      +     ++
Sbjct: 126 EYYFAYVIQQL-FEYEKTRAPGGTIKTVTKEALSDFTISFPSIEEQKK----LGKFFEQL 180

Query: 390 DVLVEKIEQSIVLLKERRSSFIA 412
           D  +   +  +  L E + S++ 
Sbjct: 181 DDTITLHQNKLEQLNELKKSYLQ 203



 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 22/194 (11%), Positives = 60/194 (30%), Gaps = 14/194 (7%)

Query: 23  KHWKVVPIKRFTKLNTGRTS---------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
           + W++  + +      G            +    + ++ + DV               + 
Sbjct: 18  EDWELCKLGQVANYRRGSFPQPYGNKEWYDGENSMPFVQVVDVGDNLRLVEDTKQKISEL 77

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
                    +G+++    G   R   I  +        L+ +      +      +   +
Sbjct: 78  AQPKSVFVKEGKVVVTLQGSIGR-VAITQYPAYVDRTLLIFESYKAEMDEYYFAYVIQQL 136

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            +  +    G T+     + + +  +  P + EQ    +K+     ++D  IT     +E
Sbjct: 137 FEYEKTRAPGGTIKTVTKEALSDFTISFPSIEEQ----KKLGKFFEQLDDTITLHQNKLE 192

Query: 194 LLKEKKQALVSYIV 207
            L E K++ +  + 
Sbjct: 193 QLNELKKSYLQNMF 206


>gi|269978338|gb|ACZ55903.1| putative type I restriction-modification system specificity subunit
           S [Helicobacter pylori]
          Length = 412

 Score = 73.3 bits (178), Expect = 8e-11,   Method: Composition-based stats.
 Identities = 46/403 (11%), Positives = 113/403 (28%), Gaps = 28/403 (6%)

Query: 22  PKHWKVVPIKRFTKL-------NTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           PK  +   +    +         T +  +       +     ++    Y  +  N  Q+ 
Sbjct: 13  PKGVEFRKLGEVLEYDQPNKYCVTSKEFDKSYPTPVLTAG--KTFILGYTNEKDNIYQAS 70

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
            S+ +I                   +     + S+   +L  K+    +   +       
Sbjct: 71  KSSPAIIFDD--------FTTATQWVDFPFKVKSSAMKILFSKNPTINIRFIFFYM---Q 119

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
                I                + +PIPPL  Q  I + + A T     L TE    +  
Sbjct: 120 TIPYNIGGEHARHWISRYSQ--LEVPIPPLEIQQEIVKILDAFTELNTELNTELNTELNT 177

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
               ++    Y     L+ +    +     +   P   +      L  +           
Sbjct: 178 ELNARKKQYQYYQNMLLDFNDINSNHKDAKIKSYPKRLKTL-LHTLAPKGVEFRKLGEVC 236

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
            I+        + L+     +          ++        I +     +       ++ 
Sbjct: 237 EIIRGKRVTKKEILDKGKYPVVSGGIGFMGYLNEYNREENTITIAQYGTAGFVNWQNQKF 296

Query: 315 IITSAYMAVKPHGID-STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
                  +V P     + YL +++ +        +  S +  S+   ++ ++ + +PP++
Sbjct: 297 WANDVCFSVIPKETLINRYLYYVLTNMQNYLYSISNRSAIPYSISSNNIMQITIPIPPLE 356

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
            Q +I  +++  +     L+  I   I   K+     R   + 
Sbjct: 357 IQQEIVKILDQFSLLTTDLLAGIPAEIKARKKQYEYYREKLLT 399


>gi|325832827|ref|ZP_08165558.1| type I restriction modification DNA specificity domain protein
           [Eggerthella sp. HGA1]
 gi|325485825|gb|EGC88287.1| type I restriction modification DNA specificity domain protein
           [Eggerthella sp. HGA1]
          Length = 397

 Score = 73.3 bits (178), Expect = 8e-11,   Method: Composition-based stats.
 Identities = 30/175 (17%), Positives = 62/175 (35%), Gaps = 10/175 (5%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSE----SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            IP+ W+   +     + +  T +    +   ++++ ++++  G          SR++  
Sbjct: 223 EIPEGWEWARLGSLLSVISDGTHKTPEYTNDGVLFLSVQNISKGFFDLSRVKHISRETHK 282

Query: 76  STVSIFAK--GQILYGKLGPYLRKAII---ADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
                     G IL  ++G   +  I+    +F    S   L    + +   ++      
Sbjct: 283 GLCKRVRPQNGDILLCRIGTLGKPIIVDVDYEFSIFVSLGLLRPINRSLAEWIVNCLDSP 342

Query: 131 IDVTQRIE-AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
           +      E  +  G      +   I +  +PIPPL EQ  I E+I    V I   
Sbjct: 343 MGFNWIQEVKVGGGTHTFKINLGDIPSFLVPIPPLVEQRRIAERISELDVLITNQ 397



 Score = 71.4 bits (173), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 62/394 (15%), Positives = 111/394 (28%), Gaps = 79/394 (20%)

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDG----ICSTQFLVLQPKDVL-PELLQGWLLS 130
                   G +LY  + PYL    I D       I ST F  +   D +    L  +L+S
Sbjct: 10  RARKPVKLGDVLYSTVRPYLHNMCIVDRKFSLPPIASTGFAAMVCLDGISNGYLLNYLMS 69

Query: 131 IDVTQRIEA--ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
            D           +G      + K +    +P+PPLAEQ  I E++      +       
Sbjct: 70  PDFDTYANRTDNSKGVAYPAINDKHLYAALVPVPPLAEQRRIAERVSELMPLVGEHGKLE 129

Query: 189 IRFI----ELLKEKKQALVSYIVTKGLNPDVK---------------------------- 216
                    L +  +++++   V   L P                               
Sbjct: 130 DEREALDASLPERLRKSVLQMAVEGKLVPQDPSEEPASVLLDRIREERAHLIKEKKIKAP 189

Query: 217 -----------------------MKDSGIEWVGLVPDHWEVKPFFA---LVTELNRKNTK 250
                                        E    +P+ WE     +   ++++   K  +
Sbjct: 190 KGGESVIYLGSDGRRYEKRGKGEPVCIDDEIPFEIPEGWEWARLGSLLSVISDGTHKTPE 249

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDP-----GEIVFRFIDLQNDKRSL 305
                +L LS  NI +     +            +        G+I+   I        +
Sbjct: 250 YTNDGVLFLSVQNISKGFFDLSRVKHISRETHKGLCKRVRPQNGDILLCRIGTLGKPIIV 309

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY--AMGSGLRQ-SLKFEDV 362
                 E  I  S  +    +   + ++   + S           +G G     +   D+
Sbjct: 310 DV--DYEFSIFVSLGLLRPINRSLAEWIVNCLDSPMGFNWIQEVKVGGGTHTFKINLGDI 367

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
               V +PP+ EQ  I   I    + +DVL+   
Sbjct: 368 PSFLVPIPPLVEQRRIAERI----SELDVLITNQ 397



 Score = 60.6 bits (145), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 26/142 (18%), Positives = 52/142 (36%), Gaps = 10/142 (7%)

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP-HGIDSTYLAWLMRSYDLCK 344
           V  G++++  +        +   +     I ++ + A+    GI + YL   + S D   
Sbjct: 15  VKLGDVLYSTVRPYLHNMCIVDRKFSLPPIASTGFAAMVCLDGISNGYLLNYLMSPDFDT 74

Query: 345 VFYA--MGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
                    G+   ++  + +    V VPP+ EQ  I   ++     +     K+E    
Sbjct: 75  YANRTDNSKGVAYPAINDKHLYAALVPVPPLAEQRRIAERVSELMPLVGEH-GKLEDERE 133

Query: 402 LL-----KERRSSFIAAAVTGQ 418
            L     +  R S +  AV G+
Sbjct: 134 ALDASLPERLRKSVLQMAVEGK 155


>gi|317012277|gb|ADU82885.1| type I restriction enzyme specificity subunit [Helicobacter pylori
           Lithuania75]
          Length = 390

 Score = 72.9 bits (177), Expect = 8e-11,   Method: Composition-based stats.
 Identities = 59/395 (14%), Positives = 117/395 (29%), Gaps = 29/395 (7%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKD------IIYIGLEDVESGTGKYLPKDGNSRQ---S 73
             W+   +K   K+  G T  +         I +I  +D+ +  G+Y+ K   +      
Sbjct: 2   SEWQTFCLKDLGKIVGGATPPTNNPKNYGNKIAWITPKDLSTLQGRYIKKGSRNISRLGL 61

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
            + +  +  K  IL+    P      IA+     +  F  + P   +      + L    
Sbjct: 62  KSCSCVLLPKHAILFSSRAPI-GYVAIAEKRLCTNQGFKSIIPNKKI-YFEFLYYLLKYH 119

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
              I  I  G T        +G   + IPP   +    +KI      +D  I    +  E
Sbjct: 120 KDNISNIGGGTTFKEVSGATLGLFQVKIPPTYYEQ---QKIARTLSILDQKIENNHKINE 176

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
           LL +  + L      +    D   K        +       +                ++
Sbjct: 177 LLHKILELLYEQYFVRFDFLDENNKPYQTSGGKMKFSKELNRLIPNDFEVKTLGELIQLK 236

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
               + ++ +   K         P   ETYQ      IV    +        +       
Sbjct: 237 VGNKNANHSSNQGKYPFFTCSNNPLKCETYQFEGKHIIVSGNGNFYVTHYDGKFDAYQRT 296

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
            ++        P+  +   L +L        +       + + +   D++ + +++P +K
Sbjct: 297 YVVN-------PNNPNHYVLIYLFVKSYTNYLKLQSRGSIIKFITKSDIENIKIVLPNLK 349

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
                 NV+         ++E   QS   L   R 
Sbjct: 350 TYTKWNNVL--------KMIENNMQSTQTLTALRD 376


>gi|291044249|ref|ZP_06569958.1| type I restriction-modification system specificity determinant
           [Neisseria gonorrhoeae DGI2]
 gi|291011143|gb|EFE03139.1| type I restriction-modification system specificity determinant
           [Neisseria gonorrhoeae DGI2]
          Length = 354

 Score = 72.9 bits (177), Expect = 8e-11,   Method: Composition-based stats.
 Identities = 40/342 (11%), Positives = 87/342 (25%), Gaps = 16/342 (4%)

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
            D     I  +  I+    G    +    D       +       +    +   +     
Sbjct: 13  DDVPDKDIHREPSIIVKSRGII--EFEYYDKPFSHKNEMWSYHSVNKHIYIKYVYYFLKT 70

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
                  I     M         N  +PIP L  Q  I + +   T    TL       +
Sbjct: 71  QENYFRNIGSKMQMPQIATPDTDNYKIPIPSLETQQKIVKILDKFTELEATLEATLEAEL 130

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
            L K + +     +    L+ D ++     +       +   K    +      +     
Sbjct: 131 ALRKRQYRYYRDLL----LDFDNQIGGGIADGYQCRLKNVVWKTLGEVAEYSKNRICSDK 186

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
            +    +   N++Q  E + +     S          +I+   I     K          
Sbjct: 187 LNEHNYVGVDNLLQNREGKKLSGYVPSEGKMTEYIVNDILIGNIRPYLKKIWQADCTGGT 246

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPP 371
            G +    + V    ++  YL  ++              G          + +  + +PP
Sbjct: 247 NGDV--LVIRVTDEKVNPKYLYQVLADDKFFAFNMKHAKGAKMPRGSKAAIMQYKIPIPP 304

Query: 372 IKEQFDITNVINVETARIDVL-------VEKIEQSIVLLKER 406
           + EQ  I  ++         +       +    +     +E+
Sbjct: 305 LPEQEKIVAILGKFDTLTHSVSEGLPHEIALRRKQYEYYREQ 346



 Score = 55.6 bits (132), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/126 (13%), Positives = 44/126 (34%), Gaps = 6/126 (4%)

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP--HGIDSTYLAWLMRSYDLC 343
           V   +I      +   +  +      +     +   +       I   Y+ + +++ +  
Sbjct: 15  VPDKDIHREPSIIVKSRGIIEFEYYDKPFSHKNEMWSYHSVNKHIYIKYVYYFLKTQE-- 72

Query: 344 KVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
             F  +GS ++   +   D     + +P ++ Q  I  +++  T     L   +E  + L
Sbjct: 73  NYFRNIGSKMQMPQIATPDTDNYKIPIPSLETQQKIVKILDKFTELEATLEATLEAELAL 132

Query: 403 LK-ERR 407
            K + R
Sbjct: 133 RKRQYR 138


>gi|257440745|ref|ZP_05616500.1| type I restriction-modification system specificity subunit
           [Faecalibacterium prausnitzii A2-165]
 gi|257196806|gb|EEU95090.1| type I restriction-modification system specificity subunit
           [Faecalibacterium prausnitzii A2-165]
          Length = 128

 Score = 72.9 bits (177), Expect = 8e-11,   Method: Composition-based stats.
 Identities = 24/128 (18%), Positives = 44/128 (34%), Gaps = 2/128 (1%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDG 68
           + KDS ++WIG IP+ W+VV  K        +   S   ++    +       +      
Sbjct: 3   KMKDSAIEWIGEIPEGWEVVKAKYLFAQRNEK-GNSALVLLSPTQKYGVIPQSQLEGVVQ 61

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL 128
               +D  T      G  +   L  +      ++++G+CS  + VL     L        
Sbjct: 62  VKENTDLRTFKTIHIGDFVIS-LRSFQGGFEFSNYEGVCSPAYQVLHATKDLSNDFFRLS 120

Query: 129 LSIDVTQR 136
             I    +
Sbjct: 121 FQIRWFYQ 128


>gi|294780398|ref|ZP_06745765.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis PC1.1]
 gi|294452527|gb|EFG20962.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis PC1.1]
          Length = 371

 Score = 72.9 bits (177), Expect = 8e-11,   Method: Composition-based stats.
 Identities = 24/157 (15%), Positives = 67/157 (42%), Gaps = 11/157 (7%)

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS-LRSAQVMERGIITSAYM 321
             + + +  +  +  +  + Y ++   E+ +   + +  K   + S +  E  ++   Y 
Sbjct: 27  GWLNQKDRFSGNIAGKEQKNYTLLLKNELSYNHGNSKLAKYGAVFSLKTYEEALVPRVYH 86

Query: 322 AVKP-HGIDSTYLAWLMRSYDLCKVF-YAMGSGLRQ----SLKFEDVKRLPVLVPPIKEQ 375
           + K     D  +L ++  +    K     + SG R     ++ ++D   + + +P + EQ
Sbjct: 87  SFKSTKNSDPDFLEYIFATKKPDKELGKLVSSGARMDGLLNINYDDFSNIKINIPHVHEQ 146

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
             I+N++     +ID  +   ++ +  LKE + +++ 
Sbjct: 147 KKISNLL----RKIDDTIALHQRKLDQLKELKKAYLQ 179



 Score = 54.4 bits (129), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 48/392 (12%), Positives = 125/392 (31%), Gaps = 36/392 (9%)

Query: 31  KRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYG- 89
           K  T+   G  ++   D+  + +   +    +     GN    +    ++  K ++ Y  
Sbjct: 2   KEITERVKG--NDGRMDLPTLTISASQGWLNQKDRFSGNIAGKEQKNYTLLLKNELSYNH 59

Query: 90  ---KLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE------AI 140
              KL  Y     +  ++     +           +      +        E      + 
Sbjct: 60  GNSKLAKYGAVFSLKTYEEALVPRVYHSFKSTKNSDPDFLEYIFATKKPDKELGKLVSSG 119

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
                + + ++    NI + IP + EQ  I   +     +ID  I    R ++ LKE K+
Sbjct: 120 ARMDGLLNINYDDFSNIKINIPHVHEQKKISNLL----RKIDDTIALHQRKLDQLKELKK 175

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
           A +  +  K      +++ +  E    +           ++ +  +   K+      S+ 
Sbjct: 176 AYLQLMFPKKDETVPQVRFANFEENWEL------CKLENIIEKQIKGKAKVENLCNGSVE 229

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
           Y +       R  G KP   +    V   +I+  +   +  K          +G++ S  
Sbjct: 230 YLDA-----NRLNGGKPIYTKALPDVSERDIIILWDGSKAGKVYY-----GFKGVLGSTL 279

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
            A +     ++   +     +   ++    +     +        P+ +   +EQ  + +
Sbjct: 280 KAYQLKECANSQFIYQQLLDNQNNIYNNYRTPNIPHVVKNFSSIFPIWMTSFEEQSQMAD 339

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           ++    + +D  +   +     +   + S++ 
Sbjct: 340 IL----SNLDNRIILQQNLTDTMISLKKSYLQ 367



 Score = 41.3 bits (95), Expect = 0.28,   Method: Composition-based stats.
 Identities = 26/184 (14%), Positives = 59/184 (32%), Gaps = 15/184 (8%)

Query: 23  KHWKVVPIKRFTKL-NTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI- 80
           ++W++  ++   +    G+            +E++ +G+ +YL  +  +      T ++ 
Sbjct: 199 ENWELCKLENIIEKQIKGKAK----------VENLCNGSVEYLDANRLNGGKPIYTKALP 248

Query: 81  -FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
             ++  I+    G    K     F G+  +     Q K+        +   +D    I  
Sbjct: 249 DVSERDIIILWDGSKAGKVYY-GFKGVLGSTLKAYQLKECANS-QFIYQQLLDNQNNIYN 306

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
                 + H         P+ +    EQ  + + +     RI          I L K   
Sbjct: 307 NYRTPNIPHVVKNFSSIFPIWMTSFEEQSQMADILSNLDNRIILQQNLTDTMISLKKSYL 366

Query: 200 QALV 203
           Q + 
Sbjct: 367 QNMF 370


>gi|262377419|ref|ZP_06070642.1| predicted protein [Acinetobacter lwoffii SH145]
 gi|262307649|gb|EEY88789.1| predicted protein [Acinetobacter lwoffii SH145]
          Length = 457

 Score = 72.9 bits (177), Expect = 9e-11,   Method: Composition-based stats.
 Identities = 55/451 (12%), Positives = 136/451 (30%), Gaps = 66/451 (14%)

Query: 30  IKRFTKLNTGRTSES-------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDT----STV 78
           +    K+  G+             D  YI + D+     +YLP++G     D      + 
Sbjct: 6   LGDIVKIKGGKRLPKSSQLQVIKNDHPYIRVRDMGE---RYLPRNGLEYVPDNVFPSISR 62

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICS---TQFLVLQPKDVLPELLQGWLLSIDVTQ 135
            I     ++   +G     +I+ ++    S       +    +   + L  +LLS    +
Sbjct: 63  YIVNTNDLILSIVGTVGLVSIVDEYFNNASLTENCVKLTGLDEKDAKYLYYYLLSQYGKE 122

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            I+A   GA         I  I +       +  I   +     +I            + 
Sbjct: 123 EIKARTVGAVQPKLPLYNIEKIQIRWFDKLIREKIVTCLSTLDDKIQLNNQTNQTLESIA 182

Query: 196 KEKKQALVSY---------IVTKGLNPDV------------KMKDSGIE----------- 223
           +   ++                 G +P++             +K    E           
Sbjct: 183 QAIFKSWFIDFEPVRAKIAAKQNGEDPEIAAMCVISGKSEEDLKKMAEEDFAELQATAAL 242

Query: 224 --------WVGLVPDHWEVKPFF---ALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
                    +G VP  W          L  +   K     +   + LS        +T  
Sbjct: 243 FPDELVESELGEVPRGWFKTDLSILADLNVQSWTKKNCPEKVTYVDLSNTKWGVIQQTEE 302

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
              +       +++  G+ +   +   N   +       E    ++ +  + P   +   
Sbjct: 303 FIFEKAPSRARRVLKIGDTIVGTVRPANGSYA---FIQRENLTGSTGFAVLSPKHKNYAE 359

Query: 333 LAWLMRSYD--LCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
             +++ +    + ++ +    G   ++ ++ V   P ++P I+ +  + N+ +       
Sbjct: 360 FIYIVATDKENIKRLAHLADGGAYPAVSYDTVLNTPCILP-IENKDGVLNLFHKNVKEFY 418

Query: 391 VLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           +L     +   +L   R + +   ++G++D+
Sbjct: 419 LLSASKFEENNILASIRDTLLPKLLSGELDV 449



 Score = 39.8 bits (91), Expect = 0.80,   Method: Composition-based stats.
 Identities = 24/149 (16%), Positives = 52/149 (34%), Gaps = 5/149 (3%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESG--KDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           +G +P+ W    +     LN    ++    + + Y+ L + + G  +   +    +    
Sbjct: 252 LGEVPRGWFKTDLSILADLNVQSWTKKNCPEKVTYVDLSNTKWGVIQQTEEFIFEKAPS- 310

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGIC-STQFLVLQPKDVLP-ELLQGWLLSIDV 133
               +   G  + G + P          + +  ST F VL PK     E +       + 
Sbjct: 311 RARRVLKIGDTIVGTVRPANGSYAFIQRENLTGSTGFAVLSPKHKNYAEFIYIVATDKEN 370

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIP 162
            +R+  + +G       +  + N P  +P
Sbjct: 371 IKRLAHLADGGAYPAVSYDTVLNTPCILP 399


>gi|253567533|ref|ZP_04844964.1| restriction modification system DNA specificity subunit
           [Bacteroides sp. 3_2_5]
 gi|251943647|gb|EES84242.1| restriction modification system DNA specificity subunit
           [Bacteroides sp. 3_2_5]
          Length = 233

 Score = 72.9 bits (177), Expect = 9e-11,   Method: Composition-based stats.
 Identities = 39/211 (18%), Positives = 68/211 (32%), Gaps = 14/211 (6%)

Query: 10  YKDSG--VQWIG----AIPKHWKVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDV 56
           YK SG  + W       IP+ W +  IK      +G T +S         +I +I   ++
Sbjct: 23  YKSSGGKMVWNEKLKREIPEGWDISLIKDIATTYSGGTPKSTNIEYYDNGEIAWINSGEL 82

Query: 57  ESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP 116
            S               + S+  ++    IL    G    K  +  F+   +     + P
Sbjct: 83  NSPIITKTTNYITKCGLENSSAKLYPSNSILVAMYGATAGKVSLLTFEACSNQAVCGVIP 142

Query: 117 KDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIA 176
             +   L   +     +      +  G+   +     I NI +PIP      L  EKI +
Sbjct: 143 -TIENMLYYVYFHISSLYSHFITLSTGSARDNISQDTIKNILLPIPTRNILKLFDEKIGS 201

Query: 177 ETVRIDTLITERIRFIELLKEKKQALVSYIV 207
               I     +     +   E    L++  V
Sbjct: 202 IYQTIVNNYQQIDSLTKQRDELLPLLMNGQV 232



 Score = 67.9 bits (164), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 26/202 (12%), Positives = 63/202 (31%), Gaps = 17/202 (8%)

Query: 227 LVPDHWEVKPFFALVTELNRKN------TKLIESNILSLSYGNIIQKLETRNMGLKPE-- 278
            +P+ W++     + T  +                I  ++ G +   + T+      +  
Sbjct: 39  EIPEGWDISLIKDIATTYSGGTPKSTNIEYYDNGEIAWINSGELNSPIITKTTNYITKCG 98

Query: 279 -SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
               + ++     I+         K SL + +         A   V P   +  Y  +  
Sbjct: 99  LENSSAKLYPSNSILVAMYGATAGKVSLLTFE----ACSNQAVCGVIPTIENMLYYVYFH 154

Query: 338 RSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
            S              R ++  + +K + + +P      +I  + + +   I   +    
Sbjct: 155 ISSLYSHFITLSTGSARDNISQDTIKNILLPIPT----RNILKLFDEKIGSIYQTIVNNY 210

Query: 398 QSIVLLKERRSSFIAAAVTGQI 419
           Q I  L ++R   +   + GQ+
Sbjct: 211 QQIDSLTKQRDELLPLLMNGQV 232


>gi|218441049|ref|YP_002379378.1| restriction modification system DNA specificity domain protein
           [Cyanothece sp. PCC 7424]
 gi|218173777|gb|ACK72510.1| restriction modification system DNA specificity domain protein
           [Cyanothece sp. PCC 7424]
          Length = 238

 Score = 72.9 bits (177), Expect = 9e-11,   Method: Composition-based stats.
 Identities = 16/160 (10%), Positives = 56/160 (35%), Gaps = 4/160 (2%)

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
             +   +   +    E     ++     ++    D     R       +   I  +    
Sbjct: 78  GYLDLSDVYQIEATEEEINKLKLQFGDLLLTEGGDPDKLGRGSFWKNKISECIHQNHIYR 137

Query: 323 VKPHG--IDSTYLAWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
           V+ +       +++  + S      F A    +    ++  + +K  P++ P ++ Q  I
Sbjct: 138 VRFNFDEFYPPFISAQIGSPYGKSYFLAHAKQTTGIATINQQVLKNFPLMNPSLEIQKQI 197

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            + +  +   ++ L + +++ +  + +  ++ +  A  G+
Sbjct: 198 ASTLTEQMQEVERLTQSLQEQLDTINKLPAALLKRAFNGE 237



 Score = 61.7 bits (148), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 22/202 (10%), Positives = 65/202 (32%), Gaps = 14/202 (6%)

Query: 24  HWKVVPIKRFTKLNTG------RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +W++  +     +  G       +  + + + Y+ + +V+ G              +   
Sbjct: 37  NWEIKKLGDVGNIVAGIPLGNRDSKINTRSVPYLRVANVKDGYLDLSDVYQIEATEEEIN 96

Query: 78  VSIFAKGQILYGKLGP---YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
                 G +L  + G      R +   +    C  Q  + + +    E    ++ +   +
Sbjct: 97  KLKLQFGDLLLTEGGDPDKLGRGSFWKNKISECIHQNHIYRVRFNFDEFYPPFISAQIGS 156

Query: 135 QRIEAIC-----EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
              ++       +   ++  + + + N P+  P L  Q  I   +  +   ++ L     
Sbjct: 157 PYGKSYFLAHAKQTTGIATINQQVLKNFPLMNPSLEIQKQIASTLTEQMQEVERLTQSLQ 216

Query: 190 RFIELLKEKKQALVSYIVTKGL 211
             ++ + +   AL+       L
Sbjct: 217 EQLDTINKLPAALLKRAFNGEL 238


>gi|306815460|ref|ZP_07449609.1| restriction modification system, type I [Escherichia coli NC101]
 gi|305851122|gb|EFM51577.1| restriction modification system, type I [Escherichia coli NC101]
          Length = 443

 Score = 72.9 bits (177), Expect = 9e-11,   Method: Composition-based stats.
 Identities = 52/415 (12%), Positives = 124/415 (29%), Gaps = 41/415 (9%)

Query: 38  TGRTSESGKDI------IYIGLEDVESGTGKYLPK-DGNSRQSDTSTVSIFAKGQILYGK 90
            G+      D       +++  ++V     ++      N  +           G I+   
Sbjct: 20  RGKNYPKHNDFMENGYCLFLSAKNVTKSGFQFQETLFINETKDRELRAGKLKYGDIVLTT 79

Query: 91  LGPYLRKAIIADF----DGICSTQFLVLQ--PKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            G     A   +         ++  ++++   K   P+ L   L S  + ++I  +  G+
Sbjct: 80  RGTVGNVAYYDNNNPYKHIRINSGMIIIRADNKLWNPKFLYFILKSELLKEQIINLISGS 139

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA--- 201
            +     + I    +P+   + Q  I   I     +++  I       ++ +   ++   
Sbjct: 140 AVPQLPARDIRKFILPVINRSLQNKITNIISDINDKVNLNIEINQTLEKMSQTLFKSWFV 199

Query: 202 ----LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
               ++   +  G NP  +   +  E    V +  + KP  A +  L    ++  E+ + 
Sbjct: 200 DFDPVIDNALDAG-NPIPEALQARAELRQKVRNSTDFKPLPAEIRSLF--PSEFEETELG 256

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQN----DKRSLRSAQVMER 313
            +  G    +LE        ++ +  + ++    V+    +               V  +
Sbjct: 257 WVPGGWETNRLENILELAYGKALKKTERIEGDYPVYGSGGVDGSHNEFLVKGPGIIVGRK 316

Query: 314 GIITSAYMAVKPHGIDSTYLA----------WLMRSYDLCKVFYAMGSGLRQSLKFEDVK 363
           G + S Y   K      T             +  +      +           L   +  
Sbjct: 317 GTVGSLYWENKDFYPIDTVFYVKPKKYFSLVYCYQLLKTLGLENMNTDAAVPGLNRNNAY 376

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           RL V+ P    Q  I              ++     I  L   R + +   ++G+
Sbjct: 377 RLDVITPT---QTIIAQY-TNIVQTFRYKMDSNNNEIDNLTNLRDTLLPKLISGE 427



 Score = 61.7 bits (148), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 28/179 (15%), Positives = 66/179 (36%), Gaps = 9/179 (5%)

Query: 239 ALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI----VDPGEIVFR 294
                  + N  +     L LS  N+ +        L     +  ++    +  G+IV  
Sbjct: 19  DRGKNYPKHNDFMENGYCLFLSAKNVTKSGFQFQETLFINETKDRELRAGKLKYGDIVLT 78

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVK--PHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
                 +     +    +   I S  + ++      +  +L ++++S  L +    + SG
Sbjct: 79  TRGTVGNVAYYDNNNPYKHIRINSGMIIIRADNKLWNPKFLYFILKSELLKEQIINLISG 138

Query: 353 -LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL-KERRSS 409
                L   D+++  + V     Q  ITN+I+    ++++ +E I Q++  + +    S
Sbjct: 139 SAVPQLPARDIRKFILPVINRSLQNKITNIISDINDKVNLNIE-INQTLEKMSQTLFKS 196



 Score = 46.3 bits (108), Expect = 0.008,   Method: Composition-based stats.
 Identities = 26/187 (13%), Positives = 53/187 (28%), Gaps = 16/187 (8%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +G +P  W+   ++   +L  G+  +  + I            G Y P  G+     +  
Sbjct: 255 LGWVPGGWETNRLENILELAYGKALKKTERI-----------EGDY-PVYGSGGVDGSHN 302

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
             +     I+ G+ G                T F V   K         +   +  T  +
Sbjct: 303 EFLVKGPGIIVGRKGTVGSLYWENKDFYPIDTVFYVKPKKY----FSLVYCYQLLKTLGL 358

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           E +   A +   +      + +  P           +     ++D+   E      L   
Sbjct: 359 ENMNTDAAVPGLNRNNAYRLDVITPTQTIIAQYTNIVQTFRYKMDSNNNEIDNLTNLRDT 418

Query: 198 KKQALVS 204
               L+S
Sbjct: 419 LLPKLIS 425


>gi|223984081|ref|ZP_03634235.1| hypothetical protein HOLDEFILI_01527 [Holdemania filiformis DSM
           12042]
 gi|223963956|gb|EEF68314.1| hypothetical protein HOLDEFILI_01527 [Holdemania filiformis DSM
           12042]
          Length = 211

 Score = 72.9 bits (177), Expect = 9e-11,   Method: Composition-based stats.
 Identities = 33/188 (17%), Positives = 64/188 (34%), Gaps = 13/188 (6%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG 289
           D WE      L T ++ K    +    +    G + +    R +     +  TY+ V   
Sbjct: 30  DTWEEMIISDLFTPISDKGHSDLTVLTIVQGTGTLPRDSVDRRISYDKSNTNTYKRVVEN 89

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW-LMRSYDLC-KVFY 347
           + +      +              GI++ AY  ++     S    +   RSY        
Sbjct: 90  DFILHLRSFEG-----GLEIANSEGIVSPAYTILRASRKISPKFYYAYFRSYWFISNKLR 144

Query: 348 AMGSGLR--QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
               G+R  +S+  +    + +  P + EQ  I   + V    ID+ +   E+++  L  
Sbjct: 145 IAVEGIRDGKSINMDTFWNIKIPYPSLSEQIQIAEYLQV----IDLKLTNAEKTLENLMN 200

Query: 406 RRSSFIAA 413
            RS  +  
Sbjct: 201 IRSGLMQQ 208


>gi|298484572|ref|ZP_07002694.1| type I restriction-modification enzyme, S subunit [Bacteroides sp.
           D22]
 gi|298269273|gb|EFI10912.1| type I restriction-modification enzyme, S subunit [Bacteroides sp.
           D22]
          Length = 184

 Score = 72.9 bits (177), Expect = 9e-11,   Method: Composition-based stats.
 Identities = 14/170 (8%), Positives = 54/170 (31%), Gaps = 9/170 (5%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN------IIQKLETRNMGLKPESY 280
              +  +++   + +       + + E    ++ + N             + +  K  + 
Sbjct: 2   EEYNRIKIQHICSNICSGGTPKSTIAEYYGGNIPWLNTKEINFCRIYGTEKTITDKGLNN 61

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY 340
            + + +    ++         K ++    +       +  +             +     
Sbjct: 62  SSAKWIPTDSVIVAMYGATAGKTAIAKIPLTTNQACCNLTIDSAKADY---RFVYYALCN 118

Query: 341 DLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
           D   +      G +Q+L  + +K   +  P ++EQ  I ++++   ++I+
Sbjct: 119 DYAYLASLANGGAQQNLNAQQIKEFEIPFPSLEEQKRIADILSSLDSKIE 168


>gi|153815635|ref|ZP_01968303.1| hypothetical protein RUMTOR_01871 [Ruminococcus torques ATCC 27756]
 gi|145847066|gb|EDK23984.1| hypothetical protein RUMTOR_01871 [Ruminococcus torques ATCC 27756]
          Length = 342

 Score = 72.9 bits (177), Expect = 9e-11,   Method: Composition-based stats.
 Identities = 40/355 (11%), Positives = 108/355 (30%), Gaps = 28/355 (7%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
           V +    +   G ++        + L DV    G++     +                + 
Sbjct: 3   VKLGDVCE--RGTSN--------LKLSDVSEKNGEFSVFGASGYIGSVDFYQQGYP-YVA 51

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMS 147
             K G  + +A++             L PKD +      +++       +E    GAT+ 
Sbjct: 52  VVKDGAGIGRAMLCPGKTSVIGTMQYLLPKDNILPKYLFYVVK---YMNLEKYFTGATIP 108

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
           H  +K   N          QV I   +     + + +I    + ++LL +  +A    + 
Sbjct: 109 HIYFKDYKNEEFNFDFWERQVEIVSVL----SKCEKVIDLCKQELQLLDKLIKARFVELF 164

Query: 208 TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK 267
              ++    + ++ +  +G              +  L  K   +   ++      N    
Sbjct: 165 GDPVSNSYGLPEATLPDLGEFGRGVSKHRPRNDIKLLGGKYPLIQTGDV-----ANAGLY 219

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
           + + +        +  ++ D G +              ++A +        + +    + 
Sbjct: 220 ITSYSSTYSELGLKQSKMWDKGTLCI-----TIAANIAKTAILEFDACFPDSVVGFIANE 274

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
             +        S+    +        ++++  + +  L V+VP  ++Q    + +
Sbjct: 275 RTNNIFVHYWFSFFQAILESQAPESAQKNINLKILSELKVIVPEKRKQDQFASFV 329



 Score = 39.8 bits (91), Expect = 0.79,   Method: Composition-based stats.
 Identities = 16/111 (14%), Positives = 41/111 (36%), Gaps = 7/111 (6%)

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLK 358
                        +  +I +    +    I   YL ++++  +L K F          + 
Sbjct: 55  DGAGIGRAMLCPGKTSVIGTMQYLLPKDNILPKYLFYVVKYMNLEKYF---TGATIPHIY 111

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
           F+D K         + Q +I +V+    ++ + +++  +Q + LL +   +
Sbjct: 112 FKDYKNEEFNFDFWERQVEIVSVL----SKCEKVIDLCKQELQLLDKLIKA 158


>gi|145630829|ref|ZP_01786607.1| type I restriction/modification specificity protein [Haemophilus
           influenzae R3021]
 gi|144983711|gb|EDJ91171.1| type I restriction/modification specificity protein [Haemophilus
           influenzae R3021]
          Length = 445

 Score = 72.9 bits (177), Expect = 9e-11,   Method: Composition-based stats.
 Identities = 54/432 (12%), Positives = 126/432 (29%), Gaps = 68/432 (15%)

Query: 47  DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFD-G 105
           + I I  E+      K          ++        KG IL   +G  + +  I + + G
Sbjct: 19  ETISINSENKYPDYSKISKFVSKDTYNNWFRKGHPKKGDILISTVGANIGRVSIMNENRG 78

Query: 106 ICSTQFL--VLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPP 163
             +   +      + ++P+ L  +L+       + ++  G+         + NI + +P 
Sbjct: 79  CIAQNLIGLRTDKEKLVPDYLYYFLIKKSTQHTLSSLNIGSAQPSIKVPHLLNILINVPN 138

Query: 164 LAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS---------YIVTKGLN-- 212
           +  Q  I   + +   +I+          ++ +   ++              ++ GLN  
Sbjct: 139 IQRQEEIANILSSLDEKIEINTQINQTLEQIAQALFKSWFVDFDPVRAKVQALSDGLNLE 198

Query: 213 ----------------------------------PDVKMKDSGIEWVG-LVPDHWEVKPF 237
                                                      +E  G  VP  WE+K  
Sbjct: 199 QAELAAMQAISGKTPEELTALSQTQPDRYAELAETAKAFPCEMVEVDGVEVPKGWEMKAL 258

Query: 238 FALVTELNRK-----NTKLIESNILSLSYGNIIQKL----ETRNMGLKPESYETYQIVDP 288
             L   +  K     N +     +  +   ++  +      T N+ L   + ++ + + P
Sbjct: 259 SDLGQIICGKTPSKSNKEFYGDEVPFIKIPDMHNQAFITQTTDNLSLSGANSQSKKYIPP 318

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA 348
             I    I                + I +     +      S +L   ++   + K    
Sbjct: 319 KSICVSCIATVGLVSMTSKPSHTNQQINS----IIPNDEQTSEFLYLSLKQPSMTKYLKD 374

Query: 349 MGSGLRQ--SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
           + SG     +L      ++ ++ P      +I ++ + +       V         L E 
Sbjct: 375 LASGGSATLNLNTSTFSKIEIMTPS----KEIIDIFHNKVVYAFEKVLSNSIENKRLAEI 430

Query: 407 RSSFIAAAVTGQ 418
           R   +   + G+
Sbjct: 431 RDLLLPNLLNGE 442



 Score = 65.6 bits (158), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 23/173 (13%), Positives = 57/173 (32%), Gaps = 10/173 (5%)

Query: 242 TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQND 301
             L      +   +I S +      K+          ++        G+I+   +     
Sbjct: 9   HYLINGYELIETISINSENKYPDYSKISKFVSKDTYNNWFRKGHPKKGDILISTVGANIG 68

Query: 302 KRSLRSAQVMERGIITSAYM--AVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLK 358
           + S+ +     RG I    +        +   YL + +          ++     + S+K
Sbjct: 69  RVSIMNEN---RGCIAQNLIGLRTDKEKLVPDYLYYFLIKKSTQHTLSSLNIGSAQPSIK 125

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETAR--IDVLVEKIEQSIVLLKERRSS 409
              +  + + VP I+ Q +I N+++    +  I+  + +  + I   +    S
Sbjct: 126 VPHLLNILINVPNIQRQEEIANILSSLDEKIEINTQINQTLEQIA--QALFKS 176



 Score = 50.9 bits (120), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 14/131 (10%), Positives = 45/131 (34%), Gaps = 7/131 (5%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESG-TGKYLPKDGNSRQ 72
            +PK W++  +    ++  G+T         G ++ +I + D+ +         + +   
Sbjct: 248 EVPKGWEMKALSDLGQIICGKTPSKSNKEFYGDEVPFIKIPDMHNQAFITQTTDNLSLSG 307

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
           +++ +        I    +      ++ +           ++   +   E L   L    
Sbjct: 308 ANSQSKKYIPPKSICVSCIATVGLVSMTSKPSHTNQQINSIIPNDEQTSEFLYLSLKQPS 367

Query: 133 VTQRIEAICEG 143
           +T+ ++ +  G
Sbjct: 368 MTKYLKDLASG 378


>gi|292558144|gb|ADE31145.1| putative HsdS [Streptococcus suis GZ1]
          Length = 301

 Score = 72.9 bits (177), Expect = 9e-11,   Method: Composition-based stats.
 Identities = 39/309 (12%), Positives = 94/309 (30%), Gaps = 27/309 (8%)

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
              + + I+    G+   + +   +  + + +P    Q  I   +      ID  I    
Sbjct: 1   MNSIKKEIQKTSSGSIQDNINIDYLTKLKLKVPNKDYQDRIVNLL----STIDKKILINN 56

Query: 190 RFIELLKEKKQALVSYIVTKGLNPD---VKMKDSGIEWVG------LVPDHWEVKPFFAL 240
           +  E L+   + L  Y   +   PD      K SG + V        +P+ W VK    +
Sbjct: 57  QINEELEAMAKTLYDYWFVQFDFPDENGKPYKSSGGKMVYNDQLKREIPEGWGVKQLGEI 116

Query: 241 VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYE--------TYQIVDPGEIV 292
               N  N +  E+        N+     +       +              +V    I+
Sbjct: 117 CEFRNGINYEKSETGDTLSKIVNVRNISNSSTFVTTHDLDSITLDRRRIESYLVTDRTIL 176

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
                +    R +    +    I +   +      ++  Y  +         +       
Sbjct: 177 ITRSGIPGATRIVS--DIPVNTIYSGFIIGATVANLNLFYYVFYHLKNIEMLMSNQSAGT 234

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           + +++    +  + +++P  + Q   +N +         ++E   +    L + R   + 
Sbjct: 235 IMKNISQTTLSEIRIVIPNKEIQKVFSNEVRSLL----DVIENNLKQNQELTQLRDWLLP 290

Query: 413 AAVTGQIDL 421
             + GQ+ +
Sbjct: 291 MLMNGQVKV 299



 Score = 60.2 bits (144), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 26/195 (13%), Positives = 61/195 (31%), Gaps = 7/195 (3%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIG----LEDVESGTGKYLPKDGNSRQSDT 75
            IP+ W V  +    +   G   E  +    +     + ++ + +      D +S   D 
Sbjct: 103 EIPEGWGVKQLGEICEFRNGINYEKSETGDTLSKIVNVRNISNSSTFVTTHDLDSITLDR 162

Query: 76  S--TVSIFAKGQILYGKLGPYLRKAIIADFD-GICSTQFLVLQPKDVLPELLQGWLLSID 132
                 +     IL  + G      I++D       + F++      L      +    +
Sbjct: 163 RRIESYLVTDRTILITRSGIPGATRIVSDIPVNTIYSGFIIGATVANLNLFYYVFYHLKN 222

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           +   +     G  M +     +  I + IP    Q +   ++ +    I+  + +     
Sbjct: 223 IEMLMSNQSAGTIMKNISQTTLSEIRIVIPNKEIQKVFSNEVRSLLDVIENNLKQNQELT 282

Query: 193 ELLKEKKQALVSYIV 207
           +L       L++  V
Sbjct: 283 QLRDWLLPMLMNGQV 297


>gi|329963223|ref|ZP_08300960.1| type I restriction modification DNA specificity domain protein
           [Bacteroides fluxus YIT 12057]
 gi|328528919|gb|EGF55859.1| type I restriction modification DNA specificity domain protein
           [Bacteroides fluxus YIT 12057]
          Length = 389

 Score = 72.9 bits (177), Expect = 9e-11,   Method: Composition-based stats.
 Identities = 46/415 (11%), Positives = 114/415 (27%), Gaps = 68/415 (16%)

Query: 24  HWKVVPIKRFTKLN-------------TGRTSESGKDIIYIGLE---DVESGTGKYLPKD 67
            W+ + +                     G+       +I+ G+    DV   +  Y+ ++
Sbjct: 15  EWETIKVSELLDFYSTNSLSWEQLDYSNGKIKNLHYGLIHKGVPTMVDVACDSLPYIKEE 74

Query: 68  GNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLV---------LQPKD 118
                    + ++F +G + +            A     C  Q +V              
Sbjct: 75  SM-----LKSFTLFKEGDVAFADASEDTNDVAKAIEVVNCDNQQIVSGLHTIHGRDNSNR 129

Query: 119 VLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
            +         S    ++I  I +G  +     +      + IP   EQ  I + +I   
Sbjct: 130 TVIGYKGYAFASDSFHKQIRRIAQGTKVFSISVRNFDEAYIGIPSKEEQTQIAKLLITID 189

Query: 179 VRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFF 238
            RI T         +L     ++ ++ ++   +     ++   I                
Sbjct: 190 KRIATQNKIIEDLKKL-----KSAITDLLFHSIADAHTIRLGKI------------AHIT 232

Query: 239 ALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDL 298
               ++   NT+  E           ++   T +   +   Y                  
Sbjct: 233 NGAGDVQDANTEHQEDWYPFFDRSEELKWFPTYSFDKEAVIY-----------------A 275

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLK 358
              +         +  +    Y              +   +                SL+
Sbjct: 276 GEGQSFYPRYYNGKFALHQRCYAITDFASCIIPKYCYHFMNTLNSYFVRNSVGSTVPSLR 335

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            +  +++ + +PPI +Q  I  +I+    ++    E  ++ I +L+E +   ++ 
Sbjct: 336 MDIFQKVEIRLPPIPKQQHICKIIDAFYTKL----EVEQRGISILQELKQFLLSQ 386


>gi|296114042|ref|YP_003627980.1| type I restriction modification DNA specificity protein [Moraxella
           catarrhalis RH4]
 gi|295921736|gb|ADG62087.1| type I restriction modification DNA specificity protein [Moraxella
           catarrhalis RH4]
 gi|326566110|gb|EGE16267.1| type I restriction modification DNA specificity protein [Moraxella
           catarrhalis BC1]
          Length = 209

 Score = 72.9 bits (177), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 19/184 (10%), Positives = 57/184 (30%), Gaps = 11/184 (5%)

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE---SYETYQIVDPGEIV 292
              +  T             I  L    +             E      + + +    ++
Sbjct: 25  KISSSGTPKTGIPEYYNNGEIPWLRTQEVNFNDIYDTGVKITEPGVKNSSAKWIPANCVI 84

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
                    +  +    +       +  + V     +  Y+ + + +    +   ++G+G
Sbjct: 85  IAMYGATVGRVGINKIPMTTNQACAN--IEVNEEIAEYRYVYYCLANQY--EYIKSLGTG 140

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRS 408
            + ++  + VK+L + +PP+  Q  I  +++        + E + + I L ++     R 
Sbjct: 141 SQTNINAQIVKKLKIPIPPLSIQSQIVAILDTFDTLTQSISEGLPKEIKLRQKQYEYYRE 200

Query: 409 SFIA 412
             + 
Sbjct: 201 QLLN 204



 Score = 66.4 bits (160), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 19/192 (9%), Positives = 67/192 (34%), Gaps = 9/192 (4%)

Query: 26  KVVPIKRFTK-LNTGRTSE-------SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +   +    K +++  T +       +  +I ++  ++V                   S+
Sbjct: 15  EWRALGEVAKKISSSGTPKTGIPEYYNNGEIPWLRTQEVNFNDIYDTGVKITEPGVKNSS 74

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
                   ++    G  + +  I       +     ++  + + E    +    +  + I
Sbjct: 75  AKWIPANCVIIAMYGATVGRVGINKIPMTTNQACANIEVNEEIAEYRYVYYCLANQYEYI 134

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           +++  G + ++ + + +  + +PIPPL+ Q  I   +        ++     + I+L ++
Sbjct: 135 KSLGTG-SQTNINAQIVKKLKIPIPPLSIQSQIVAILDTFDTLTQSISEGLPKEIKLRQK 193

Query: 198 KKQALVSYIVTK 209
           + +     ++  
Sbjct: 194 QYEYYREQLLNF 205


>gi|326567813|gb|EGE17917.1| type I restriction modification DNA specificity protein [Moraxella
           catarrhalis 12P80B1]
 gi|326573728|gb|EGE23686.1| type I restriction modification DNA specificity protein [Moraxella
           catarrhalis O35E]
          Length = 221

 Score = 72.9 bits (177), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 19/184 (10%), Positives = 57/184 (30%), Gaps = 11/184 (5%)

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE---SYETYQIVDPGEIV 292
              +  T             I  L    +             E      + + +    ++
Sbjct: 37  KISSGGTPKTGIPEYYNNGEIPWLRTQEVNFNDIYDTGVKIIEPGVKNSSAKWIPANCVI 96

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
                    +  +    +       +  + V     +  Y+ + + +    +   ++G+G
Sbjct: 97  IAMYGATVGRVGINKIPMTTNQACAN--IEVNEEIAEYRYVYYCLANQY--EYIKSLGTG 152

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRS 408
            + ++  + VK+L + +PP+  Q  I  +++        + E + + I L ++     R 
Sbjct: 153 SQTNINAQIVKKLKIPIPPLSIQSQIVAILDTFDTLTQSISEGLPKEIKLRQKQYEYYRE 212

Query: 409 SFIA 412
             + 
Sbjct: 213 QLLN 216



 Score = 68.7 bits (166), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 20/192 (10%), Positives = 68/192 (35%), Gaps = 9/192 (4%)

Query: 26  KVVPIKRFTK-LNTGRTSE-------SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +   +    K +++G T +       +  +I ++  ++V                   S+
Sbjct: 27  EWRALGEVAKKISSGGTPKTGIPEYYNNGEIPWLRTQEVNFNDIYDTGVKIIEPGVKNSS 86

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
                   ++    G  + +  I       +     ++  + + E    +    +  + I
Sbjct: 87  AKWIPANCVIIAMYGATVGRVGINKIPMTTNQACANIEVNEEIAEYRYVYYCLANQYEYI 146

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           +++  G + ++ + + +  + +PIPPL+ Q  I   +        ++     + I+L ++
Sbjct: 147 KSLGTG-SQTNINAQIVKKLKIPIPPLSIQSQIVAILDTFDTLTQSISEGLPKEIKLRQK 205

Query: 198 KKQALVSYIVTK 209
           + +     ++  
Sbjct: 206 QYEYYREQLLNF 217


>gi|239621711|ref|ZP_04664742.1| HsdS variable domain-containing protein [Bifidobacterium longum
           subsp. infantis CCUG 52486]
 gi|239515586|gb|EEQ55453.1| HsdS variable domain-containing protein [Bifidobacterium longum
           subsp. infantis CCUG 52486]
          Length = 232

 Score = 72.9 bits (177), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 21/160 (13%), Positives = 58/160 (36%), Gaps = 8/160 (5%)

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
            N+      I  +    I       ++ +   +  + ++VD G +++      + + ++ 
Sbjct: 76  GNSAYYGGEIPFIRSAEIDCDSTELSLTVAGLNNSSAKLVDKGMVLYAMYGATSGEVAIS 135

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLP 366
                 +G I  A +A+    + +              +      G + +L    +K L 
Sbjct: 136 KI----KGAINQAILAMDASDMAANRFIAYWLRRQKKSITETFLQGGQGNLSGAIIKELG 191

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
           +  P + EQ  I +      + +D L+   ++  + +++R
Sbjct: 192 IPQPSLDEQRQIGSF----FSNLDDLITLHQRKRLSIRQR 227



 Score = 69.1 bits (167), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 28/180 (15%), Positives = 54/180 (30%), Gaps = 10/180 (5%)

Query: 25  WKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           W+   +       +G T  +G       +I +I   +++                + S+ 
Sbjct: 56  WEQRKLGELALTYSGGTPSAGNSAYYGGEIPFIRSAEID---CDSTELSLTVAGLNNSSA 112

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
            +  KG +LY   G    +  I+   G  +   L +   D+       + L        E
Sbjct: 113 KLVDKGMVLYAMYGATSGEVAISKIKGAINQAILAMDASDMAANRFIAYWLRRQKKSITE 172

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
              +G    +     I  + +P P L EQ  I          I     +R+   +     
Sbjct: 173 TFLQG-GQGNLSGAIIKELGIPQPSLDEQRQIGSFFSNLDDLITLHQRKRLSIRQRSPVW 231


>gi|326561268|gb|EGE11627.1| type I restriction modification DNA specificity protein [Moraxella
           catarrhalis 46P47B1]
          Length = 217

 Score = 72.9 bits (177), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 19/184 (10%), Positives = 57/184 (30%), Gaps = 11/184 (5%)

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE---SYETYQIVDPGEIV 292
              +  T             I  L    +             E      + + +    ++
Sbjct: 33  KISSSGTPKTGIPEYYNNGEIPWLRTQEVNFNDIYDTGVKITEPGVKNSSAKWIPANCVI 92

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
                    +  +    +       +  + V     +  Y+ + + +    +   ++G+G
Sbjct: 93  IAMYGATVGRVGINKIPMTTNQACAN--IEVNEEIAEYRYVYYCLANQY--EYIKSLGTG 148

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRS 408
            + ++  + VK+L + +PP+  Q  I  +++        + E + + I L ++     R 
Sbjct: 149 SQTNINAQIVKKLKIPIPPLSIQSQIVAILDTFDTLTQSISEGLPKEIKLRQKQYEYYRE 208

Query: 409 SFIA 412
             + 
Sbjct: 209 QLLN 212



 Score = 66.4 bits (160), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 19/192 (9%), Positives = 67/192 (34%), Gaps = 9/192 (4%)

Query: 26  KVVPIKRFTK-LNTGRTSE-------SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +   +    K +++  T +       +  +I ++  ++V                   S+
Sbjct: 23  EWRALGEVAKKISSSGTPKTGIPEYYNNGEIPWLRTQEVNFNDIYDTGVKITEPGVKNSS 82

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
                   ++    G  + +  I       +     ++  + + E    +    +  + I
Sbjct: 83  AKWIPANCVIIAMYGATVGRVGINKIPMTTNQACANIEVNEEIAEYRYVYYCLANQYEYI 142

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           +++  G + ++ + + +  + +PIPPL+ Q  I   +        ++     + I+L ++
Sbjct: 143 KSLGTG-SQTNINAQIVKKLKIPIPPLSIQSQIVAILDTFDTLTQSISEGLPKEIKLRQK 201

Query: 198 KKQALVSYIVTK 209
           + +     ++  
Sbjct: 202 QYEYYREQLLNF 213


>gi|323157625|gb|EFZ43731.1| type I restriction enzyme EcoAI specificity [Escherichia coli
           EPECa14]
          Length = 399

 Score = 72.9 bits (177), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 28/204 (13%), Positives = 66/204 (32%), Gaps = 16/204 (7%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI-----ESNILSLSYGNIIQKLETRNMG 274
           S  E    +P+ WE      L           +     +  IL     ++  +   + + 
Sbjct: 93  SEEEKPFELPEGWEWTRLINLGIWALGSGFPNVVQGSTDKEILMCKVSDMNLEGNEKFIF 152

Query: 275 LKPESYETY-------QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
               +           +I +PG I+F  I       + R   V +  I  +         
Sbjct: 153 STKNTISKDLADEYKIKISEPGTIIFPKIGGAI-ATNKRRILVQDTAIDNNCLGIKPCDA 211

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           I   +   ++ + D+ K           ++    +  +P+ +P +K Q  I + +    +
Sbjct: 212 ISGEWFYLILNTLDMSKY---QSGTSIPAINQSVIGSIPIALPSLKMQEKIVSYVITLMS 268

Query: 388 RIDVLVEKIEQSIVLLKERRSSFI 411
             D L ++   S+   ++   + +
Sbjct: 269 LCDQLEQQSLTSLDAHQQLVETLL 292



 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 37/216 (17%), Positives = 81/216 (37%), Gaps = 19/216 (8%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLE 54
           +K  K  P+   S  +    +P+ W+   +        G    +       K+I+   + 
Sbjct: 83  IKKQKPLPEI--SEEEKPFELPEGWEWTRLINLGIWALGSGFPNVVQGSTDKEILMCKVS 140

Query: 55  DVE-SGTGKYLPKDGNSRQSDTS---TVSIFAKGQILYGKLG---PYLRKAIIADFDGIC 107
           D+   G  K++    N+   D +    + I   G I++ K+G      ++ I+     I 
Sbjct: 141 DMNLEGNEKFIFSTKNTISKDLADEYKIKISEPGTIIFPKIGGAIATNKRRILVQDTAID 200

Query: 108 STQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQ 167
           +    +     +  E     L ++D    +     G ++   +   IG+IP+ +P L  Q
Sbjct: 201 NNCLGIKPCDAISGEWFYLILNTLD----MSKYQSGTSIPAINQSVIGSIPIALPSLKMQ 256

Query: 168 VLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
             I   +I      D L  + +  ++  ++  + L+
Sbjct: 257 EKIVSYVITLMSLCDQLEQQSLTSLDAHQQLVETLL 292


>gi|148825870|ref|YP_001290623.1| type I restriction/modification specificity protein [Haemophilus
           influenzae PittEE]
 gi|229846818|ref|ZP_04466925.1| type I restriction/modification specificity protein [Haemophilus
           influenzae 7P49H1]
 gi|148716030|gb|ABQ98240.1| type I restriction/modification specificity protein [Haemophilus
           influenzae PittEE]
 gi|229810307|gb|EEP46026.1| type I restriction/modification specificity protein [Haemophilus
           influenzae 7P49H1]
 gi|309973015|gb|ADO96216.1| Type I restriction enzyme HindVIIP, S protein [Haemophilus
           influenzae R2846]
          Length = 467

 Score = 72.9 bits (177), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 57/470 (12%), Positives = 138/470 (29%), Gaps = 84/470 (17%)

Query: 26  KVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQS--DTSTVS 79
           + +P   F  L T  T +S K     +  +  +++  G          S     + +  S
Sbjct: 5   EFIPASEFCDLVTDGTHDSPKKTEFGVKLVTSKNIVGGKLDLTSAYFISESDAQNINKRS 64

Query: 80  IFAKGQILYGKLGPYLRKAIIADFD-GICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
                 +L   +G     A+I      +     L+        + L  +L S      I+
Sbjct: 65  QVHINDVLLSMIGTVGEVALIEKEPDFVIKNVGLLKNSDPKKAKWLYYYLKSPITQNLIK 124

Query: 139 AICEGATMSHADWKGIGNIPM-------PIPPLAEQVLIREK---IIAETVRIDTLITER 188
               G T  +     + N+P+        +    EQ+   +K   +  +  +    I + 
Sbjct: 125 DRLRGTTQQYIPLGELRNLPILKPNSEEHLQNTIEQLSSLDKKIQLNTQINQTLEQIAQA 184

Query: 189 IRFIELLKEKKQALVSYIVTKGL------------------------------------- 211
           +     +           ++ GL                                     
Sbjct: 185 LFKSWFVDFDPVRTKVQALSDGLSLEQAELAAMQTISGKTPEELTALSQTQPEHYAELAE 244

Query: 212 ----NPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK--------NTKLIESNILSL 259
                P   ++  G++ V  VP  WE      L + +++         ++   +  +  +
Sbjct: 245 TAKAFPCEMVEVDGVDGV-EVPKGWECFSLRELSSVVSKGTTPKKSSLSSCDSKETVPFI 303

Query: 260 SYGNIIQKLETRNMGL------KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
              +I +  +     +         +     I+   +I+            + +      
Sbjct: 304 KVKDISESGQILINQVEQIPEKISSTELKRSILHKNDILISIAGTIGRVAIVPNELENAN 363

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
                +++ +    +      +L    +   +   +  G++ ++  E V+ + + +P   
Sbjct: 364 TNQAISFIRLYNDNLVGIISTFLKSRKNQKDILSKVIQGVQANISLEVVRNIKIFLP--- 420

Query: 374 EQFDITNVINVETARIDVLVEK--IEQSIVLLKER-RSSFIAAAVTGQID 420
                 N  +      + L+ K  I Q   LL E+ R   +   ++G+ID
Sbjct: 421 -----INFDHKAILIFNSLLNKQLINQKENLLTEKSRDLLLPQLLSGEID 465



 Score = 60.6 bits (145), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 23/191 (12%), Positives = 57/191 (29%), Gaps = 12/191 (6%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESG---------KDIIYIGLEDVESGTGKYLPKDG-- 68
            +PK W+   ++  + + +  T+            + + +I ++D+       + +    
Sbjct: 263 EVPKGWECFSLRELSSVVSKGTTPKKSSLSSCDSKETVPFIKVKDISESGQILINQVEQI 322

Query: 69  -NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW 127
                S     SI  K  IL    G   R AI+ +     +T   +   +     L+   
Sbjct: 323 PEKISSTELKRSILHKNDILISIAGTIGRVAIVPNELENANTNQAISFIRLYNDNLVGII 382

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
              +   +  + I             +  +      L      +  +I  ++    LI +
Sbjct: 383 STFLKSRKNQKDILSKVIQGVQANISLEVVRNIKIFLPINFDHKAILIFNSLLNKQLINQ 442

Query: 188 RIRFIELLKEK 198
           +   +      
Sbjct: 443 KENLLTEKSRD 453


>gi|313668372|ref|YP_004048656.1| Type I restriction-modification system DNA methylase [Neisseria
           lactamica ST-640]
 gi|313005834|emb|CBN87289.1| putative Type I restriction-modification system DNA methylase
           [Neisseria lactamica 020-06]
          Length = 395

 Score = 72.9 bits (177), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 58/414 (14%), Positives = 124/414 (29%), Gaps = 43/414 (10%)

Query: 27  VVPIKRFTKLNTGRTSESG--KDIIYIGLEDVESGTGKYLPK-DGNSRQSDTSTVSIFAK 83
            + I    ++N    ++    ++I+Y+   ++       +   +    +  +        
Sbjct: 4   QIKIGEIAEINANSLTQKDMFQEIMYLDTGNITRNEIDNIQILNITMDKIPSRAKRKVKD 63

Query: 84  GQILYGKLGPYLRKAIIADF---DGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
             I+Y  + P        +    + I ST F  +   D   +    + L           
Sbjct: 64  KTIIYSTVRPNQEHYGFLENPSDNFIVSTGFSTIDVYDDNTDEKFIYYLLTQKHITDYLH 123

Query: 141 CEGAT----MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
             G          +   I N+   +P L  Q  I   +      +D  I    +    L+
Sbjct: 124 TIGENSVSSYPSINPDDIANLKFTVPDLKTQQSIAAVL----SALDKKIALNKQINARLE 179

Query: 197 EKKQALVSYIVTKGLNPD---VKMKDSGIEWVG------LVPDHWEVKPFFALVTELNRK 247
           E  + L  Y   +   PD      K SG E V        +P  W+      LVT    K
Sbjct: 180 EMAKTLYDYWFVQFDFPDANSKPYKSSGGEMVFDETLKREIPKGWKPFKLSELVTLSTGK 239

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
                 +      +         + +     S++T  I+  G   F              
Sbjct: 240 EDANFATEQGIYPFFTC----SEKILKCDVYSFDTQAILLAGNGTFSVKRFTG------- 288

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
                R         ++P   +   + + +   ++ K        + + +   D++ + V
Sbjct: 289 -----RFNAYQRTYVLEPKSKNLYPIVYFVIIDNVIKFTSGSRGSIIKFITRGDIEHIDV 343

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           ++P   E    + V+     +     E +E+    L + R   +   + GQ+ +
Sbjct: 344 VLPNDIENMRFSEVLYTYLLQA----ELLEKQNYQLTQLRDFLLPMLMNGQVSV 393


>gi|289810317|ref|ZP_06540946.1| EcoKI restriction-modification system protein HsdS [Salmonella
           enterica subsp. enterica serovar Typhi str. AG3]
          Length = 111

 Score = 72.9 bits (177), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 14/68 (20%), Positives = 31/68 (45%)

Query: 351 SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
               + L  + +   P+ VPP++EQ +I   +    A  D + +++  ++  +     S 
Sbjct: 1   GTTIKHLTGKALANYPIRVPPLEEQHEIVRRVEQLFAWADTIEKQVNNALNRVNSLTQSI 60

Query: 411 IAAAVTGQ 418
           +A A  G+
Sbjct: 61  LAKAFRGE 68


>gi|317480921|ref|ZP_07940002.1| type I restriction modification DNA specificity domain-containing
           protein [Bacteroides sp. 4_1_36]
 gi|316903006|gb|EFV24879.1| type I restriction modification DNA specificity domain-containing
           protein [Bacteroides sp. 4_1_36]
          Length = 373

 Score = 72.5 bits (176), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 21/163 (12%), Positives = 62/163 (38%), Gaps = 7/163 (4%)

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
           ++ +   + I     R         +    V+ G+++F+      +     +  + +R  
Sbjct: 47  VMDILNNDFITYDCIRTSVEITPEEQVAFAVEKGDMLFQRSSETLEDVGRANVYMDDRPA 106

Query: 316 ITSAYMAVKPHG--IDSTYLAWLMRSYDLCKVFYAMGSGLRQ-SLKFEDVKRLPVLVPPI 372
           +   ++         +  +  +L+ S    K    MG+G +  ++  + + ++ +  P +
Sbjct: 107 VFGGFVIRGKKKAEYNPMFFRYLLASPYARKKVIPMGAGAQHFNIGQDGLSKVKLHFPIL 166

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           +EQ  I +++      I+  +    + I  LK+ +S+      
Sbjct: 167 QEQQKIADLL----RLINERISTQNKIIEDLKKLKSAISKQVF 205



 Score = 54.0 bits (128), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 32/309 (10%), Positives = 79/309 (25%), Gaps = 32/309 (10%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGK---DIIYIGLEDVESGTGKYLP--KDGNSRQSDTST 77
           + W+   +  +     G    + K    I +I + D+ +         +       +   
Sbjct: 14  EEWEEHYLAEYLDFKNGLNPSANKFGSGIKFISVMDILNNDFITYDCIRTSVEITPEEQV 73

Query: 78  VSIFAKGQILYGKLGPYLR-----KAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
                KG +L+ +    L         + D   +     +  + K     +   +LL+  
Sbjct: 74  AFAVEKGDMLFQRSSETLEDVGRANVYMDDRPAVFGGFVIRGKKKAEYNPMFFRYLLASP 133

Query: 133 V-TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
              +++  +  GA   +    G+  + +  P L EQ  I + +     RI T        
Sbjct: 134 YARKKVIPMGAGAQHFNIGQDGLSKVKLHFPILQEQQKIADLLRLINERISTQNKIIEDL 193

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
            +L     + + +                  E  G            A  T  +      
Sbjct: 194 KKLKSAISKQVFAQ-----------------EPNGWSRLDTLFSKGKAGGTPTSTNKEYY 236

Query: 252 IESN----ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
                   I  ++      +    ++        +  +V    ++               
Sbjct: 237 NGEIPFLSINDITKQGKYVRYTENHLSQSGLENSSAWVVPKYSLIMSMYASVGLVTINEI 296

Query: 308 AQVMERGII 316
                + + 
Sbjct: 297 PITTSQAMF 305


>gi|42525884|ref|NP_970982.1| type I restriction-modification system, S subunit, putative
           [Treponema denticola ATCC 35405]
 gi|41815934|gb|AAS10863.1| type I restriction-modification system, S subunit, putative
           [Treponema denticola ATCC 35405]
          Length = 562

 Score = 72.5 bits (176), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 51/375 (13%), Positives = 108/375 (28%), Gaps = 41/375 (10%)

Query: 52  GLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGP--YLRKAIIADFDGICST 109
              ++       + K       D S  S+     IL G  G         I       + 
Sbjct: 2   SSGELNLKRIYSVDKMITQAGFDNSATSLIPPQCILVGLAGQGKTRGTVGINYLSLCINQ 61

Query: 110 QFLVLQPKDVLPELLQGWLL-SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQV 168
               + P   +      +   +       E           + + I N P+ +PPL+EQ 
Sbjct: 62  SICAILPNTNILSSEYLYQYLNSKYLDLRELSMGNGGRGGLNLQLIKNFPILLPPLSEQR 121

Query: 169 LIREKIIAETVRIDTLITERIRFIELLKEKKQALVS-YIVTKGLNPDVKMKDSGIEWVGL 227
            I E +      I +L     +   + +   Q L++      G N +   K  G      
Sbjct: 122 CIAEVLSDTDTYISSLKKLITKKEAIKQGIMQELLTGKKRLPGFNGEWIEKRLGELLEYE 181

Query: 228 VPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVD 287
            P                     ++ +         ++   ++  +G   E    Y    
Sbjct: 182 QPQ------------------QYIVVNTKYFTQGIPVLTAGKSFILGYTSERAGVYNNPP 223

Query: 288 PGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY 347
               +  F D   + + +       +   ++  +       +   +  LM+         
Sbjct: 224 ----IILFDDFTTESKLV---DFKFKVKSSAIKILKNTGICNIRIVFELMQMIKFESKD- 275

Query: 348 AMGSGLRQSLKFEDVKRLPVLVPP-IKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
                  Q        ++ V +PP + EQ  I N+++     I+ L    ++ +  ++  
Sbjct: 276 ------HQRFWISIFNKIRVKIPPTLAEQTAIANILSDMDQEIEAL----KKKLKKVESI 325

Query: 407 RSSFIAAAVTGQIDL 421
           +   +   +TG I L
Sbjct: 326 KQGMMQKLLTGDIRL 340



 Score = 71.4 bits (173), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 28/145 (19%), Positives = 56/145 (38%), Gaps = 4/145 (2%)

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
                 ++ P  I+         + ++    +      +   +    + + S YL   + 
Sbjct: 24  DNSATSLIPPQCILVGLAGQGKTRGTVGINYLSLCINQSICAILPNTNILSSEYLYQYLN 83

Query: 339 SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
           S  L     +MG+G R  L  + +K  P+L+PP+ EQ  I  V++     I  L + I +
Sbjct: 84  SKYLDLRELSMGNGGRGGLNLQLIKNFPILLPPLSEQRCIAEVLSDTDTYISSLKKLITK 143

Query: 399 SIVLLKERRSSFIAAAVTGQIDLRG 423
                +  +   +   +TG+  L G
Sbjct: 144 K----EAIKQGIMQELLTGKKRLPG 164


>gi|315652287|ref|ZP_07905279.1| type I restriction system specificity protein [Eubacterium
           saburreum DSM 3986]
 gi|315485410|gb|EFU75800.1| type I restriction system specificity protein [Eubacterium
           saburreum DSM 3986]
          Length = 182

 Score = 72.5 bits (176), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 25/178 (14%), Positives = 73/178 (41%), Gaps = 10/178 (5%)

Query: 245 NRKNTKLIESNILSLSYGNIIQKLETRN----MGLKPESYETYQIVDPGEIVFRFIDLQN 300
             K     +  + ++ YG+I  +         +G+  +  E  + V+ G++V        
Sbjct: 1   MPKTMFKDDGEVGAIHYGHIYTRYNMFIDKPVVGISTKDAEKLKKVNKGDLVIARTSENI 60

Query: 301 DKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR-SYDLCKVFYAMGSGLRQ-SLK 358
           D      A + E+ ++   +  +  H  +  YL++++  +    K    M  G++   L 
Sbjct: 61  DDVMKTVAYLGEKTVVAGGHSTIFRHKENPKYLSYVLNGADYAIKQKNKMARGVKVIELS 120

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
             D++++ + +P ++ Q  I ++++     ++ +   + + I   ++     R   ++
Sbjct: 121 TADMEKIKIPLPSLQVQEYIVSILDKFDTLVNDIKSGLPKEIEERQKQYEYYRERLLS 178



 Score = 44.0 bits (102), Expect = 0.051,   Method: Composition-based stats.
 Identities = 16/174 (9%), Positives = 55/174 (31%), Gaps = 6/174 (3%)

Query: 42  SESGKDIIYIGLEDVESGTGKYLPKDGNSRQ-SDTSTVSIFAKGQILYGKLGPYLRKA-- 98
            +   ++  I    + +    ++ K        D   +    KG ++  +    +     
Sbjct: 6   FKDDGEVGAIHYGHIYTRYNMFIDKPVVGISTKDAEKLKKVNKGDLVIARTSENIDDVMK 65

Query: 99  ---IIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIG 155
               + +   +      + + K+    L      +    ++   +  G  +       + 
Sbjct: 66  TVAYLGEKTVVAGGHSTIFRHKENPKYLSYVLNGADYAIKQKNKMARGVKVIELSTADME 125

Query: 156 NIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTK 209
            I +P+P L  Q  I   +      ++ + +   + IE  +++ +     +++ 
Sbjct: 126 KIKIPLPSLQVQEYIVSILDKFDTLVNDIKSGLPKEIEERQKQYEYYRERLLSF 179


>gi|317488603|ref|ZP_07947147.1| type I restriction modification DNA specificity domain-containing
           protein [Eggerthella sp. 1_3_56FAA]
 gi|316912297|gb|EFV33862.1| type I restriction modification DNA specificity domain-containing
           protein [Eggerthella sp. 1_3_56FAA]
          Length = 445

 Score = 72.5 bits (176), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 30/175 (17%), Positives = 62/175 (35%), Gaps = 10/175 (5%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSE----SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            IP+ W+   +     + +  T +    +   ++++ ++++  G          SR++  
Sbjct: 271 EIPEGWEWARLGSLLSVISDGTHKTPEYTNDGVLFLSVQNISKGFFDLSRVKHISRETHK 330

Query: 76  STVSIFAK--GQILYGKLGPYLRKAII---ADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
                     G IL  ++G   +  I+    +F    S   L    + +   ++      
Sbjct: 331 GLCKRVRPQNGDILLCRIGTLGKPIIVDVDYEFSIFVSLGLLRPINRSLAEWIVNCLDSP 390

Query: 131 IDVTQRIE-AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
           +      E  +  G      +   I +  +PIPPL EQ  I E+I    V I   
Sbjct: 391 MGFNWIQEVKVGGGTHTFKINLGDIPSFLVPIPPLVEQRRIAERISELDVLITNQ 445



 Score = 66.0 bits (159), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 36/234 (15%), Positives = 68/234 (29%), Gaps = 17/234 (7%)

Query: 174 IIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWE 233
           +         LI E+        E    L S           +      E    +P+ WE
Sbjct: 218 LDRIREERAHLIKEKKIKAPKGGESVIYLGSDGRRYEKRGKGEPVCIDDEIPFEIPEGWE 277

Query: 234 VKPFFA---LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDP-- 288
                +   ++++   K  +     +L LS  NI +     +            +     
Sbjct: 278 WARLGSLLSVISDGTHKTPEYTNDGVLFLSVQNISKGFFDLSRVKHISRETHKGLCKRVR 337

Query: 289 ---GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV 345
              G+I+   I        +      E  I  S  +    +   + ++   + S      
Sbjct: 338 PQNGDILLCRIGTLGKPIIVDV--DYEFSIFVSLGLLRPINRSLAEWIVNCLDSPMGFNW 395

Query: 346 FY--AMGSGLRQ-SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
                +G G     +   D+    V +PP+ EQ  I   I    + +DVL+   
Sbjct: 396 IQEVKVGGGTHTFKINLGDIPSFLVPIPPLVEQRRIAERI----SELDVLITNQ 445



 Score = 63.3 bits (152), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 29/151 (19%), Positives = 52/151 (34%), Gaps = 11/151 (7%)

Query: 279 SYETYQIVDPGEIVFRFIDLQN---DKRSLRSAQVMERGIITSAY--MAVKPHGIDSTYL 333
           SY   +++  G++++    L           +       +  S    +   P  +   Y 
Sbjct: 53  SYAEERLLVDGDLLWNSTGLGTLGRMAVYDSNQNPYGWAVADSHVTVIRTVPDWLRYEYA 112

Query: 334 AWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVET---AR 388
                   +  V     SG   ++ L  E VKR  + VPP+ EQ  I   ++        
Sbjct: 113 FLYFAGPSVQSVIEDQASGSTKQKELAQETVKRYLIPVPPLAEQRRIAERVSELMPLVGE 172

Query: 389 IDVLVEKIEQSIVLL-KERRSSFIAAAVTGQ 418
              L ++ E     L +  R S +  AV G+
Sbjct: 173 YGKLEDEREALDASLPERLRKSVLQMAVEGK 203


>gi|326568185|gb|EGE18267.1| type I restriction modification DNA specificity protein [Moraxella
           catarrhalis BC8]
          Length = 221

 Score = 72.5 bits (176), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 19/184 (10%), Positives = 57/184 (30%), Gaps = 11/184 (5%)

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE---SYETYQIVDPGEIV 292
              +  T             I  L    +             E      + + +    ++
Sbjct: 37  KISSGGTPKTGIPEYYNNGEIPWLRTQEVNFNDIYDTGVKIIEPGVKNSSAKWIPANCVI 96

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
                    +  +    +       +  + V     +  Y+ + + +    +   ++G+G
Sbjct: 97  IAMYGATVGRVGINKIPMTTNQACAN--IEVNEEIAEYRYVYYCLANQY--EYIKSLGTG 152

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRS 408
            + ++  + VK+L + +PP+  Q  I  +++        + E + + I L ++     R 
Sbjct: 153 SQTNINAQIVKKLKIPIPPLSVQSQIVAILDTFDTLTQSISEGLPKEIKLRQKQYEYYRE 212

Query: 409 SFIA 412
             + 
Sbjct: 213 QLLN 216



 Score = 69.1 bits (167), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 20/192 (10%), Positives = 68/192 (35%), Gaps = 9/192 (4%)

Query: 26  KVVPIKRFTK-LNTGRTSE-------SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +   +    K +++G T +       +  +I ++  ++V                   S+
Sbjct: 27  EWRALGEVAKKISSGGTPKTGIPEYYNNGEIPWLRTQEVNFNDIYDTGVKIIEPGVKNSS 86

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
                   ++    G  + +  I       +     ++  + + E    +    +  + I
Sbjct: 87  AKWIPANCVIIAMYGATVGRVGINKIPMTTNQACANIEVNEEIAEYRYVYYCLANQYEYI 146

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           +++  G + ++ + + +  + +PIPPL+ Q  I   +        ++     + I+L ++
Sbjct: 147 KSLGTG-SQTNINAQIVKKLKIPIPPLSVQSQIVAILDTFDTLTQSISEGLPKEIKLRQK 205

Query: 198 KKQALVSYIVTK 209
           + +     ++  
Sbjct: 206 QYEYYREQLLNF 217


>gi|15828905|ref|NP_326265.1| restriction modification enzyme subunit S2B [Mycoplasma pulmonis
           UAB CTIP]
 gi|14089848|emb|CAC13607.1| RESTRICTION MODIFICATION ENZYME SUBUNIT S2B [Mycoplasma pulmonis]
          Length = 336

 Score = 72.5 bits (176), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 43/356 (12%), Positives = 104/356 (29%), Gaps = 34/356 (9%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDII-YIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           ++  + +   L  G++  + K +   IG+ ++ S   K     G     D +        
Sbjct: 2   EIYKLGQILNLEKGKSKYNAKYVSQNIGIYNLYSSKTKDQGIFGKINSYDFNGEY----- 56

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            IL    G Y       +     ++   +L+  + + +      L +   +    +  G+
Sbjct: 57  -ILITTHGAYAGTVKYVNEKFSTTSNCFILKVDENIAKTKFLSYLLLLQEKTFNDMAIGS 115

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
              +     I +  + +P L  Q  I + I     +    I      I   ++  Q  ++
Sbjct: 116 AYGYLKNYNINDFEVNLPNLKTQSAIIKIIEPLEKQ----INAFDELILSEQKSLQHYLN 171

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
           Y            K   IE     P  +       +      K        I S      
Sbjct: 172 YFFG---------KFYQIE-----PSLFHDYKLEKIAKIRRGK-------IINSFDLKEN 210

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
                  +   K      Y      +  +  I               +  I    ++ + 
Sbjct: 211 PGDYPVISSNTKNNGIFGYLNSYMYDGEYITISADGAYAGTVFLNNGKFSITNVCFILLL 270

Query: 325 PHGID--STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
              ++  + +L + ++  +      ++    R S++   +  + + +P ++ Q  I
Sbjct: 271 NDKVNLLTKFLFYYLKKNENIIQKKSIVGSSRPSVREYTLSEIAIKIPSLEIQSAI 326



 Score = 41.3 bits (95), Expect = 0.32,   Method: Composition-based stats.
 Identities = 16/142 (11%), Positives = 35/142 (24%), Gaps = 3/142 (2%)

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
               +   K +              +  I               +    ++ ++      
Sbjct: 31  YNLYSSKTKDQGIFGKINSYDFNGEYILITTHGAYAGTVKYVNEKFSTTSNCFILKVDEN 90

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           I  T     +                   LK  ++    V +P +K Q  I  +I     
Sbjct: 91  IAKTKFLSYLLLLQEKTFNDMAIGSAYGYLKNYNINDFEVNLPNLKTQSAIIKIIEPLEK 150

Query: 388 RI---DVLVEKIEQSIVLLKER 406
           +I   D L+   ++S+      
Sbjct: 151 QINAFDELILSEQKSLQHYLNY 172


>gi|298482623|ref|ZP_07000807.1| type I restriction enzyme EcoAI specificity protein [Bacteroides
           sp. D22]
 gi|298271086|gb|EFI12663.1| type I restriction enzyme EcoAI specificity protein [Bacteroides
           sp. D22]
          Length = 324

 Score = 72.5 bits (176), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 41/265 (15%), Positives = 84/265 (31%), Gaps = 8/265 (3%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +P+ W+ VP+     LN          + +I +  V  G       +    +       
Sbjct: 18  EVPEGWQSVPVSELFCLNPKSEITDATSVGFIPMACVNDGFSGNHQFEERIWKEVKKGYC 77

Query: 80  IFAKGQILYGKLGPYLRKA------IIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
            F  G I   K+ P            + +  G  +T+ ++L+P ++  +       S   
Sbjct: 78  HFQNGDIGIAKISPCFENLKSTIFQNLPNNYGAGTTELVILRPLNIHAKFYLYLFKSQWY 137

Query: 134 TQRIEAICEG-ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
                   +G             ++ +P+PPLAEQ  I  +I      ID +   +    
Sbjct: 138 ISEGTKYFKGVVGQQRVHKGIFTDLQIPLPPLAEQYRIVAEIEKWFALIDQIEQGKTGLQ 197

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
            ++ + K  ++   +   L P     +   E +  +   +            +       
Sbjct: 198 TIVMQTKSKILDLAIHGKLVPQDPNDEPAFELLKRINPDFTPCDNGHYTQLPDG-WAVAP 256

Query: 253 ESNILSLSYGNIIQKLETRNMGLKP 277
              + SL  G     +E  N+ +K 
Sbjct: 257 MQMLCSLIDGEKQNGIERINLDVKY 281



 Score = 70.6 bits (171), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 31/174 (17%), Positives = 57/174 (32%), Gaps = 6/174 (3%)

Query: 227 LVPDHWEVKPFFALVTELNRK--NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ 284
            VP+ W+  P   L     +           I      +           +  E  + Y 
Sbjct: 18  EVPEGWQSVPVSELFCLNPKSEITDATSVGFIPMACVNDGFSGNHQFEERIWKEVKKGYC 77

Query: 285 IVDPGEIVFRFIDLQ--NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
               G+I    I     N K ++        G  T+  + ++P  I + +  +L +S   
Sbjct: 78  HFQNGDIGIAKISPCFENLKSTIFQNLPNNYGAGTTELVILRPLNIHAKFYLYLFKSQWY 137

Query: 343 CKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
                    G+  +Q +       L + +PP+ EQ+ I   I    A ID + +
Sbjct: 138 ISEGTKYFKGVVGQQRVHKGIFTDLQIPLPPLAEQYRIVAEIEKWFALIDQIEQ 191


>gi|13541295|ref|NP_110983.1| restriction endonuclease S subunit fragment [Thermoplasma volcanium
           GSS1]
 gi|14324678|dbj|BAB59605.1| hypothetical protein [Thermoplasma volcanium GSS1]
          Length = 152

 Score = 72.5 bits (176), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 30/121 (24%), Positives = 53/121 (43%), Gaps = 1/121 (0%)

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
           +         K  +   +V      + A   V    +   YL + ++S    ++   +G 
Sbjct: 1   MIALNGQGKTKGMVGILKVESTCNQSLAAFNVNERTLHYRYLYYFLKS-KYKQMRGLVGD 59

Query: 352 GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
            LR  L    ++ L + VP ++EQF I+N  + +   I  ++ K E+ I LLKE R+S I
Sbjct: 60  DLRDGLSLSVLRELRIPVPSLQEQFAISNYSDNQIHVIKNMISKQEKMIELLKEHRASLI 119

Query: 412 A 412
            
Sbjct: 120 T 120


>gi|315148957|gb|EFT92973.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX4244]
          Length = 328

 Score = 72.5 bits (176), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 46/268 (17%), Positives = 100/268 (37%), Gaps = 16/268 (5%)

Query: 149 ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVT 208
            +    G        +      +EKI +   ++D +I    R ++ LKE K+A +  +  
Sbjct: 69  INQITTGEFKRMHFTVPIDEDEKEKIGSLFRQLDDIIALHQRKLDQLKELKKAYLQVMFP 128

Query: 209 KGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKL 268
                  K++ +  E        WE   FF +  + + +N +L  S+   LS   + +  
Sbjct: 129 VKDERVPKLRLADFEG------EWEQCKFFDMWEKSSDRNKELKYSSKDVLSVAKMTKNP 182

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH-G 327
             RN     E  +TY I+  G+I F     ++          ++ GI++  ++  KP   
Sbjct: 183 VERNS--SDEYMKTYNILHYGDIAFEGNKSKDYSFGRFVLNNLQDGIVSHVFIVFKPKVK 240

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGLRQSL---KFEDVKRLPVLVPPIKEQFDITNVINV 384
           +D  ++   + +    K      +     +     +D+ +  + +P + EQ  I      
Sbjct: 241 MDIDFMKVYINNEYFMKHHLVKATTKTLMMTTLNVQDMNKQKLRIPSLNEQERIGKF--- 297

Query: 385 ETARIDVLVEKIEQSIVLLKERRSSFIA 412
               +D  +   +  +  L   + S++ 
Sbjct: 298 -FKELDHAITLHQNKLTQLNSLKKSYLQ 324



 Score = 56.7 bits (135), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 15/124 (12%), Positives = 38/124 (30%), Gaps = 3/124 (2%)

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA 348
           G+++    +         +    E                   +L  L+ +       + 
Sbjct: 4   GDVIVVVRNGSRSLIGKHAPINREMPNTVIGAFMTGLRSPSPKFLKALLDTQQFNVEIHK 63

Query: 349 MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
                   +   + KR+   VP I E       I     ++D ++   ++ +  LKE + 
Sbjct: 64  NLGATINQITTGEFKRMHFTVP-IDEDEK--EKIGSLFRQLDDIIALHQRKLDQLKELKK 120

Query: 409 SFIA 412
           +++ 
Sbjct: 121 AYLQ 124


>gi|238854453|ref|ZP_04644793.1| type IC HsdS subunit [Lactobacillus jensenii 269-3]
 gi|238832946|gb|EEQ25243.1| type IC HsdS subunit [Lactobacillus jensenii 269-3]
          Length = 387

 Score = 72.5 bits (176), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 44/402 (10%), Positives = 122/402 (30%), Gaps = 34/402 (8%)

Query: 31  KRFTKLNTGRTSESGKDIIYIGLEDVESGTG---KYLPKDGNSRQSDTSTVSIFAKGQIL 87
           K   +  +G + +   D  +   + +          +      +    +   +  KG I 
Sbjct: 2   KNIGESFSGLSGKKSSDFGHGEAKYITYLNILNNPIIDTKLTDKIEIDNKQHLVKKGDIF 61

Query: 88  YGKLGPYLRKAII---------ADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           +       ++  +           +    S  + + +              S +  +++ 
Sbjct: 62  FTISSETPQEVGLSSVLDTNLNECYLNSFSFGYRLKEISMFDNLFNSYNFRSPNFRRKMY 121

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
            + +G +  +   K + N  +  P ++EQ  I + I      +     +     +L K+ 
Sbjct: 122 ILAQGISRYNISKKAVLNETICFPKISEQKQIGKLIKLMNSLLSLQQRKLELENKLKKQI 181

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
              L S+ +T         K   +        + ++     +   +   + K   +  L+
Sbjct: 182 AFYLYSFTLTP------NFKHIEV-------KNKKLGDIVDISNGIMGDSQKKSGNFKLT 228

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDL---QNDKRSLRSAQVMERGI 315
                   K++    G   +  +  + ++ G+I++  I+          ++   +     
Sbjct: 229 RIETISNGKIDLSRTGYIDQVSDEKKFLEVGDILYSNINSLTHIGKNAIVKEKHLPLVHG 288

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIK 373
           I    + +  + I   YL  L+          +  +    + S+   ++  L +  P + 
Sbjct: 289 INLFRLHITNNQITPNYLHGLLNLPKYKWWVKSHANPAVNQASINKTELSSLVIKYPDLD 348

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            Q  I N IN   A+   +          L + +   +    
Sbjct: 349 IQNQI-NNINYSFAQYWDI---QYSKKESLCQLKQFLLQNLF 386



 Score = 41.7 bits (96), Expect = 0.22,   Method: Composition-based stats.
 Identities = 20/187 (10%), Positives = 51/187 (27%), Gaps = 9/187 (4%)

Query: 28  VPIKRFTKL---NTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
             +     +     G + +   +     +E + +G           + SD         G
Sbjct: 202 KKLGDIVDISNGIMGDSQKKSGNFKLTRIETISNGKIDLSRTGYIDQVSDE--KKFLEVG 259

Query: 85  QILYGKLGP---YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            ILY  +       + AI+ +          + +      ++   +L  +    + +   
Sbjct: 260 DILYSNINSLTHIGKNAIVKEKHLPLVHGINLFRLHITNNQITPNYLHGLLNLPKYKWWV 319

Query: 142 EGATMSHADWKGIGNIP-MPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
           +       +   I       +      + I+ +I             +    E L + KQ
Sbjct: 320 KSHANPAVNQASINKTELSSLVIKYPDLDIQNQINNINYSFAQYWDIQYSKKESLCQLKQ 379

Query: 201 ALVSYIV 207
            L+  + 
Sbjct: 380 FLLQNLF 386


>gi|187476894|ref|YP_784918.1| restriction modification system, specificity subunit [Bordetella
           avium 197N]
 gi|115421480|emb|CAJ47988.1| restriction modification system, specificity subunit [Bordetella
           avium 197N]
          Length = 412

 Score = 72.5 bits (176), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 65/421 (15%), Positives = 120/421 (28%), Gaps = 50/421 (11%)

Query: 3   HYKAYPQYKDSGVQWIGAIPKHWKVVPIKRF-TKLNTGRTSESGKDIIYIGLEDVESGTG 61
            +KAY +            P  W    I     +       E  +    I ++      G
Sbjct: 13  RFKAYSE------------P--WAEEKIGDVLAEKRRPIVLEDDQRYELITVK--RRNEG 56

Query: 62  KYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFD---GICSTQFLVLQPKD 118
                    R       +    G  +  K         I        I S ++LV    +
Sbjct: 57  VVSRGHLLGRDILVKNYAQLKAGDFVISKRQVVHGATGIVPPALDGAIVSNEYLVAVDSE 116

Query: 119 VLPELLQGWLLS-IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
            L       + S   + ++      G  +    +         IP    +      I   
Sbjct: 117 RLRTEFLTIVASLPAMRRKFVLSSYGVDIEKLFFDAADWKKRDIPIPCTKEQTD--ISGY 174

Query: 178 TVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSG------IEWVGLVPDH 231
              +  +I    +    ++  KQAL+  +  +      +++  G      IE +G V   
Sbjct: 175 FQALKHIIEFHQQKHGKIQALKQALLQKMFPRSGAATPELRFKGFSGNWAIERLGQVGRT 234

Query: 232 WEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEI 291
                F                  I  +S      ++ T N  +     +  + V  G++
Sbjct: 235 QSGIGFPDTEQGGKVGTPFFK---ISDMSLAGNENEMLTANNYVNDAQLQRNRWVPIGDV 291

Query: 292 ---VFRFID---LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV 345
              VF  +    + N KR +RS  +++     +A   +     D  +   L  +  L K 
Sbjct: 292 PAVVFAKVGAALMLNRKRMVRSPFLID----NNAMAYIFDSTWDEDFGKALFDTIYLPKY 347

Query: 346 FYAMGSGLRQSLKFEDVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLK 404
                 G   S    D++ + V  P    EQ  I          +D L+ K    +  LK
Sbjct: 348 AQV---GALPSYNGSDIEGITVHRPKDRLEQKQIGGF----FKLLDTLISKHATQLHKLK 400

Query: 405 E 405
           +
Sbjct: 401 Q 401



 Score = 53.3 bits (126), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 18/136 (13%), Positives = 48/136 (35%), Gaps = 7/136 (5%)

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY 340
           + Y  +  G+ V     + +    +    +    +     +AV    + + +L  +    
Sbjct: 71  KNYAQLKAGDFVISKRQVVHGATGIVPPALDGAIVSNEYLVAVDSERLRTEFLTIVASLP 130

Query: 341 DLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
            + + F     G+   +      D K+  + +P  KEQ DI+         +  ++E  +
Sbjct: 131 AMRRKFVLSSYGVDIEKLFFDAADWKKRDIPIPCTKEQTDISGY----FQALKHIIEFHQ 186

Query: 398 QSIVLLKERRSSFIAA 413
           Q    ++  + + +  
Sbjct: 187 QKHGKIQALKQALLQK 202


>gi|323700561|ref|ZP_08112473.1| restriction modification system DNA specificity domain
           [Desulfovibrio sp. ND132]
 gi|323460493|gb|EGB16358.1| restriction modification system DNA specificity domain
           [Desulfovibrio desulfuricans ND132]
          Length = 394

 Score = 72.5 bits (176), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 45/396 (11%), Positives = 105/396 (26%), Gaps = 32/396 (8%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
             W+   +    ++ +    +  K   Y+   +         P       +D  T+    
Sbjct: 22  SGWEEAFLGDLVEIVS--PPKKIKTSRYLR--EGRFPIIDQSPDVQCGWTNDVDTLIDNP 77

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
              I++   G +     + +         + +      P     +         +E+   
Sbjct: 78  LPLIVF---GDHTCVLKLINRPFAQGADGIKIFKPKRTPSTEFLYHFLCAHPLEMESYKR 134

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
             ++        G         AEQ  I   +      +D  I   +  +E+L++ K  L
Sbjct: 135 HFSILK------GAQIFYPEVEAEQKKIANCL----SSLDEFIANEVSKLEVLRDHKCGL 184

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK---LIESNILSL 259
           +  +  +      +++             W       LV+  + K+     L        
Sbjct: 185 MQQLFPQEGQTQPRLRFPEFRNKP----GWSKCKLGDLVSISSGKSPSQYALSSDGRYPF 240

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
                +       +  +    +   +V  G ++F       +   +R   V         
Sbjct: 241 IKVEDLNNCTKYQVNSREYCNDAKGVVSEGALLFPKRGAAIELNKIRITSVGILFDTNLM 300

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
            +       D+T L +L        +     +     +  + +    V  P   EQ  I 
Sbjct: 301 AIIPH----DATELEFLFYYLSCVGLSQIADTSTIPQINNKHIIPFIVYKPLRLEQQKIA 356

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           + +       D  +   E  I  LK  +   +    
Sbjct: 357 DCLTA----TDDSIAAQEAMIDALKTHKRGLMQQLF 388


>gi|225352848|ref|ZP_03743871.1| hypothetical protein BIFPSEUDO_04482 [Bifidobacterium
           pseudocatenulatum DSM 20438]
 gi|225156319|gb|EEG69888.1| hypothetical protein BIFPSEUDO_04482 [Bifidobacterium
           pseudocatenulatum DSM 20438]
          Length = 158

 Score = 72.5 bits (176), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 34/157 (21%), Positives = 65/157 (41%), Gaps = 13/157 (8%)

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
             I    E+        S   Y+IV  G++V+  + +               GI++ AY+
Sbjct: 7   NGIYPASESDRETNPGASLANYKIVHFGDVVYNSMRMWQGAVDASRYD----GIVSPAYV 62

Query: 322 AVKPH-GIDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVP-PIKEQF 376
             +P+  + + + A L+R   L K +  +  G     Q LKF+D   + + +P    EQ 
Sbjct: 63  VARPNSEVYARFFARLLRQPMLLKQYQQVSQGNSKDTQVLKFDDFASIGISMPASENEQR 122

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            I    +    R+D L+   ++ + LL+  + S +  
Sbjct: 123 QIGGFFD----RLDSLITLHQRKLELLRNIKKSMLDK 155



 Score = 45.6 bits (106), Expect = 0.017,   Method: Composition-based stats.
 Identities = 24/159 (15%), Positives = 52/159 (32%), Gaps = 11/159 (6%)

Query: 56  VESGTGKYLPKDGNSRQS---DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFL 112
           V    G Y   + +   +     +   I   G ++Y  +  +      + +DGI S  ++
Sbjct: 3   VSVANGIYPASESDRETNPGASLANYKIVHFGDVVYNSMRMWQGAVDASRYDGIVSPAYV 62

Query: 113 VLQPKDVLPELLQG---WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIP-PLAEQV 168
           V +P   +             +    +  +           +    +I + +P    EQ 
Sbjct: 63  VARPNSEVYARFFARLLRQPMLLKQYQQVSQGNSKDTQVLKFDDFASIGISMPASENEQR 122

Query: 169 LIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
            I              IT   R +ELL+  K++++  + 
Sbjct: 123 QIGGFFDRLDSL----ITLHQRKLELLRNIKKSMLDKMF 157


>gi|111656907|ref|ZP_01407733.1| hypothetical protein SpneT_02001847 [Streptococcus pneumoniae
           TIGR4]
          Length = 290

 Score = 72.1 bits (175), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 30/185 (16%), Positives = 67/185 (36%), Gaps = 14/185 (7%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL------- 275
           E    +P+ WE      + + + R  +    +  +         +    ++ L       
Sbjct: 106 EVPCEIPESWEWVRLNDITSYIQRGKSPKYSNIPIYPVIAQKCNQWSGFSIDLARFIDPE 165

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKR-SLRSAQVMERGIITSA----YMAVKPHGIDS 330
              SY+  +++  G++++    L    R ++        G   +      + V    I+ 
Sbjct: 166 TVHSYQKERLLRDGDLMWNSTGLGTLGRLAIYHENKNPYGWAVADSHVTVIRVLSGVINC 225

Query: 331 TYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
            ++   + S  +  V     SG   ++ L  + +K   + +PP+ EQ  I + I    A 
Sbjct: 226 HFIYNFLSSPIVQSVIEEKASGSTKQKELLTKTIKEYLIPLPPLPEQSRIVDKIEQFFAH 285

Query: 389 IDVLV 393
           ID L+
Sbjct: 286 IDALI 290



 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 29/181 (16%), Positives = 50/181 (27%), Gaps = 15/181 (8%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT-----GKYLPKDGNSRQSD 74
            IP+ W+ V +   T       S    +I    +   +                      
Sbjct: 110 EIPESWEWVRLNDITSYIQRGKSPKYSNIPIYPVIAQKCNQWSGFSIDLARFIDPETVHS 169

Query: 75  TSTVSIFAKGQILYGKL--GPYLRKAIIADF-----DGICSTQFLVLQPKDVLPELLQGW 127
                +   G +++     G   R AI  +        +  +   V++    +      +
Sbjct: 170 YQKERLLRDGDLMWNSTGLGTLGRLAIYHENKNPYGWAVADSHVTVIRVLSGVINCHFIY 229

Query: 128 LLSIDVTQR---IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
                   +    E             K I    +P+PPL EQ  I +KI      ID L
Sbjct: 230 NFLSSPIVQSVIEEKASGSTKQKELLTKTIKEYLIPLPPLPEQSRIVDKIEQFFAHIDAL 289

Query: 185 I 185
           I
Sbjct: 290 I 290



 Score = 45.9 bits (107), Expect = 0.011,   Method: Composition-based stats.
 Identities = 14/54 (25%), Positives = 23/54 (42%), Gaps = 4/54 (7%)

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIAAAVTGQ 418
           +PP+ EQ  I   I     ++D   E   +   L KE     + S +  A+ G+
Sbjct: 1   LPPLSEQQRIVEAIESALEKVDEYAESYNRLEQLDKEFPDKLKKSILQYAMQGK 54


>gi|302553243|ref|ZP_07305585.1| conserved hypothetical protein [Streptomyces viridochromogenes DSM
           40736]
 gi|302470861|gb|EFL33954.1| conserved hypothetical protein [Streptomyces viridochromogenes DSM
           40736]
          Length = 495

 Score = 72.1 bits (175), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 29/204 (14%), Positives = 67/204 (32%), Gaps = 12/204 (5%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLI----ESNILSLSYGNIIQKLETRNMGLKPESYET 282
            VP HW V     +   +   ++       E   + +     I+  +     LK  S + 
Sbjct: 213 KVPAHWTVVSLDEITELIEYGSSTKTSESAEVGGVPVLRMGNIKDGKVDPRVLKYISADH 272

Query: 283 ----YQIVDPGEIVFRFIDLQNDKRSLRSA-QVMERGIITSAYMAVKPHG-IDSTYLAWL 336
                  +  G+++F   +                     S  +  +    +D+ ++  +
Sbjct: 273 PDAVRYRLQEGDLLFNRTNSFELVGKSAVYRDKFGPMAFASYLIRCRFLPGVDTDWVNLV 332

Query: 337 MRSYDLCKVFYAMGSG--LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
           + S    +   ++ +    + ++    +  +P+ +PP  EQ  I +V+    A    L  
Sbjct: 333 INSSIGRRYVRSVATQQVGQANVNGTKLAAMPIPLPPEGEQRRILDVVETHQAAALRLES 392

Query: 395 KIEQSIVLLKERRSSFIAAAVTGQ 418
            I Q        R + +  A  G+
Sbjct: 393 GIRQQGAKATRLRRALLTQAFAGR 416



 Score = 60.6 bits (145), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 29/205 (14%), Positives = 72/205 (35%), Gaps = 13/205 (6%)

Query: 20  AIPKHWKVVPIKRFTKLN-TGRTSESGK-----DIIYIGLEDVESGTGKYLPKDGNSRQS 73
            +P HW VV +   T+L   G ++++ +      +  + + +++ G          S   
Sbjct: 213 KVPAHWTVVSLDEITELIEYGSSTKTSESAEVGGVPVLRMGNIKDGKVDPRVLKYISADH 272

Query: 74  DTSTVSIFAKGQILYGKLGP---YLRKAIIADFDG---ICSTQFLVLQPKDVLPELLQGW 127
             +      +G +L+ +        + A+  D  G     S          V  + +   
Sbjct: 273 PDAVRYRLQEGDLLFNRTNSFELVGKSAVYRDKFGPMAFASYLIRCRFLPGVDTDWVNLV 332

Query: 128 LLSIDVTQRIEA-ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           + S    + + +   +    ++ +   +  +P+P+PP  EQ  I + +         L +
Sbjct: 333 INSSIGRRYVRSVATQQVGQANVNGTKLAAMPIPLPPEGEQRRILDVVETHQAAALRLES 392

Query: 187 ERIRFIELLKEKKQALVSYIVTKGL 211
              +        ++AL++      L
Sbjct: 393 GIRQQGAKATRLRRALLTQAFAGRL 417



 Score = 57.9 bits (138), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 14/113 (12%), Positives = 42/113 (37%), Gaps = 6/113 (5%)

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS----AYMAVKPHGIDSTYLAWLMRSY 340
           +V PG+++F   +   +     ++      ++T       + V    +   ++A+     
Sbjct: 32  LVLPGDLLFTRYNGNPEFVGACTSVPDSAPLLTYPDKLIRVRVDRRVVLPEFVAYAFSWE 91

Query: 341 DLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
                          +  +   ++K++ + VP + EQ  I   +  + ++I+ 
Sbjct: 92  GTRARVREYVKTTAGQAGISGGELKKIELPVPSLAEQRRIVAALEEQISKIES 144


>gi|237750332|ref|ZP_04580812.1| restriction endonuclease S [Helicobacter bilis ATCC 43879]
 gi|229374226|gb|EEO24617.1| restriction endonuclease S [Helicobacter bilis ATCC 43879]
          Length = 233

 Score = 72.1 bits (175), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 24/168 (14%), Positives = 62/168 (36%), Gaps = 4/168 (2%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKL--ETRNMGLKPESY 280
           E    +P+ W     + +   ++    +      + +   +   K     + +  K  S 
Sbjct: 59  EAPFEIPNSWAWVKGYDIFLPIDNTEPQGDFFKYIDIDSIDNKNKKVKSPKTIETKNASS 118

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY 340
              + +  G+++F  +    +  +L    + +  I ++ +     + +DS +L +LM S 
Sbjct: 119 RARRPLKYGDVLFSMVRPYLENIALIDEALAD-CIASTGFFVCGTNILDSRFLYYLMTSP 177

Query: 341 DLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
            +     +   G    S+  +D+      +PP+ EQ  I   ++    
Sbjct: 178 YVVYGLNSFMKGDNSPSIVKDDILNFNYPLPPLCEQEHIVQTLDTLFT 225



 Score = 71.0 bits (172), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 37/165 (22%), Positives = 58/165 (35%), Gaps = 5/165 (3%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKY-LPKDGNSRQSDTSTV 78
            IP  W  V       L    T   G    YI ++ +++   K   PK   ++ + +   
Sbjct: 63  EIPNSWAWVKGYDIF-LPIDNTEPQGDFFKYIDIDSIDNKNKKVKSPKTIETKNASSRAR 121

Query: 79  SIFAKGQILYGKLGPYLRKAIIADF---DGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
                G +L+  + PYL    + D    D I ST F V     +    L   + S  V  
Sbjct: 122 RPLKYGDVLFSMVRPYLENIALIDEALADCIASTGFFVCGTNILDSRFLYYLMTSPYVVY 181

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
            + +  +G          I N   P+PPL EQ  I + +      
Sbjct: 182 GLNSFMKGDNSPSIVKDDILNFNYPLPPLCEQEHIVQTLDTLFTL 226


>gi|3335662|gb|AAC78316.1| restriction-modification enzyme MpuUIII S subunit [Mycoplasma
           pulmonis]
          Length = 366

 Score = 72.1 bits (175), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 44/361 (12%), Positives = 106/361 (29%), Gaps = 34/361 (9%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDII-YIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           ++  + +   L  G++  + K +   IG+ ++ S   K     G     D +        
Sbjct: 2   EIYKLGQILNLEKGKSKYNAKYVSQNIGIYNLYSSKTKDQGIFGKINSYDFNGEY----- 56

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            IL    G Y       +     ++   +L+  + + +      L +   +    +  G+
Sbjct: 57  -ILITTHGAYAGTVKYVNEKFSTTSNCFILKVNENIVKTKFLSYLLLLQEKTFNDMAIGS 115

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
              +     I +  + +P L  Q  I + I     +    I      I   ++  Q  ++
Sbjct: 116 AYGYLKNYNINDFEVNLPNLKIQSAIIKIIEPLEKQ----INAFDELILSEQKSLQHYLN 171

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
           Y            K   IE     P  +       +      K        I S      
Sbjct: 172 YFFG---------KFYQIE-----PSLFHDYKLEKIAKIRRGK-------IINSFDLKEN 210

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
                  +   K      Y      +  +  I               +  I    ++ + 
Sbjct: 211 PGDYPVISSNTKNNGIFGYLNSYMYDGEYITISADGAYAGTVFLNNGKFSITNVCFILLL 270

Query: 325 PHGID--STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
              ++  + +L + ++  +      ++    R S++   +  + + +P ++ Q  I  +I
Sbjct: 271 NDKVNLLTKFLFYYLKKNENIIQKKSIVGSSRPSVREYTLSEIAIKIPSLEIQSAILGII 330

Query: 383 N 383
            
Sbjct: 331 E 331



 Score = 41.3 bits (95), Expect = 0.27,   Method: Composition-based stats.
 Identities = 16/142 (11%), Positives = 35/142 (24%), Gaps = 3/142 (2%)

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
               +   K +              +  I               +    ++ ++      
Sbjct: 31  YNLYSSKTKDQGIFGKINSYDFNGEYILITTHGAYAGTVKYVNEKFSTTSNCFILKVNEN 90

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           I  T     +                   LK  ++    V +P +K Q  I  +I     
Sbjct: 91  IVKTKFLSYLLLLQEKTFNDMAIGSAYGYLKNYNINDFEVNLPNLKIQSAIIKIIEPLEK 150

Query: 388 RI---DVLVEKIEQSIVLLKER 406
           +I   D L+   ++S+      
Sbjct: 151 QINAFDELILSEQKSLQHYLNY 172


>gi|327459320|gb|EGF05666.1| type I restriction enzyme, S subunit [Streptococcus sanguinis SK1]
          Length = 319

 Score = 72.1 bits (175), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 40/318 (12%), Positives = 99/318 (31%), Gaps = 27/318 (8%)

Query: 120 LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
                 G++ ++     +      +         +  I + +P LA Q      +     
Sbjct: 11  NENHNNGYVSNLLSMMNLAQYQGQSAQPGLSVSTLSKIIIKLPDLATQEQCFNVLN---- 66

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDV---KMKDSG------IEWVGLVPD 230
            ID  I    +    L++  + L  Y   +   PD      K SG       E    +P+
Sbjct: 67  LIDQKIQINNQINRELEDMAKTLYDYWFVQFDFPDQNGKPYKSSGGKMVYNPELKREIPE 126

Query: 231 HWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ--------KLETRNMGLKPESYET 282
            W V+    +    N  N +   S    +   N+               +         T
Sbjct: 127 GWRVEKLGDVAKFKNGINYEKTSSGSEKIKIINVRNISSSTIFVNQTDLDEISLENDKST 186

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
             IV+ G I+     +    R +   ++  + + +   +A + + +    L +       
Sbjct: 187 NFIVNEGMILITRSGIPGATRLVS--ELEAKTVYSGFIIASEVNDLIFKNLIFYYLKNVE 244

Query: 343 CKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
             +       + +++    +  + + +PP        ++I+    +    ++ +++    
Sbjct: 245 EVLKNQSAGTIMKNISQSVLTDMVISLPPQNVLLKFNSIIDNLLEQ----MKNVQRQNQE 300

Query: 403 LKERRSSFIAAAVTGQID 420
           L + R   +   + GQ+ 
Sbjct: 301 LTQLRDWLLPMLMNGQVK 318



 Score = 68.7 bits (166), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 32/195 (16%), Positives = 72/195 (36%), Gaps = 7/195 (3%)

Query: 20  AIPKHWKVVPIKRFTKLNTG----RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQ--S 73
            IP+ W+V  +    K   G    +TS   + I  I + ++ S T      D +     +
Sbjct: 123 EIPEGWRVEKLGDVAKFKNGINYEKTSSGSEKIKIINVRNISSSTIFVNQTDLDEISLEN 182

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDG-ICSTQFLVLQPKDVLPELLQGWLLSID 132
           D ST  I  +G IL  + G      ++++ +     + F++    + L      +    +
Sbjct: 183 DKSTNFIVNEGMILITRSGIPGATRLVSELEAKTVYSGFIIASEVNDLIFKNLIFYYLKN 242

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           V + ++    G  M +     + ++ + +PP    +     I     ++  +  +     
Sbjct: 243 VEEVLKNQSAGTIMKNISQSVLTDMVISLPPQNVLLKFNSIIDNLLEQMKNVQRQNQELT 302

Query: 193 ELLKEKKQALVSYIV 207
           +L       L++  V
Sbjct: 303 QLRDWLLPMLMNGQV 317


>gi|303267712|ref|ZP_07353532.1| type I site-specific deoxyribonuclease chain S [Streptococcus
           pneumoniae BS457]
 gi|303270082|ref|ZP_07355794.1| type I site-specific deoxyribonuclease chain S [Streptococcus
           pneumoniae BS458]
 gi|302640384|gb|EFL70819.1| type I site-specific deoxyribonuclease chain S [Streptococcus
           pneumoniae BS458]
 gi|302642756|gb|EFL73083.1| type I site-specific deoxyribonuclease chain S [Streptococcus
           pneumoniae BS457]
          Length = 184

 Score = 72.1 bits (175), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 29/181 (16%), Positives = 65/181 (35%), Gaps = 14/181 (7%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL-------KPES 279
            +P+ WE      + + + R  +    +  +         +    ++ L          S
Sbjct: 4   EIPESWEWVRLNDITSYIQRGKSPKYSNIPIYPVIAQKCNQWSGFSIDLARFIDPETVHS 63

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA-----YMAVKPHGIDSTYLA 334
           Y+  +++  G++++    L    R     +     +   A      + V    I+  ++ 
Sbjct: 64  YQKERLLRDGDLMWNSTGLGTLGRLAIYHENKNPYVWAVADSHVTVIRVLSGVINCHFIY 123

Query: 335 WLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
             + S  +  V     SG   ++ L  + +K   + +PP+ EQ  I + I    A ID L
Sbjct: 124 NFLSSPIVQSVIEEKASGSTKQKELLTKTIKEYLIPLPPLPEQSRIVDKIEQFFAHIDAL 183

Query: 393 V 393
           +
Sbjct: 184 I 184



 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 29/181 (16%), Positives = 50/181 (27%), Gaps = 15/181 (8%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT-----GKYLPKDGNSRQSD 74
            IP+ W+ V +   T       S    +I    +   +                      
Sbjct: 4   EIPESWEWVRLNDITSYIQRGKSPKYSNIPIYPVIAQKCNQWSGFSIDLARFIDPETVHS 63

Query: 75  TSTVSIFAKGQILYGKL--GPYLRKAIIADF-----DGICSTQFLVLQPKDVLPELLQGW 127
                +   G +++     G   R AI  +        +  +   V++    +      +
Sbjct: 64  YQKERLLRDGDLMWNSTGLGTLGRLAIYHENKNPYVWAVADSHVTVIRVLSGVINCHFIY 123

Query: 128 LLSIDVTQR---IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
                   +    E             K I    +P+PPL EQ  I +KI      ID L
Sbjct: 124 NFLSSPIVQSVIEEKASGSTKQKELLTKTIKEYLIPLPPLPEQSRIVDKIEQFFAHIDAL 183

Query: 185 I 185
           I
Sbjct: 184 I 184


>gi|313668696|ref|YP_004048980.1| restriction modification system DNA specificity domain [Neisseria
           lactamica ST-640]
 gi|313006158|emb|CBN87620.1| putative restriction modification system DNA specificity domain
           [Neisseria lactamica 020-06]
          Length = 219

 Score = 72.1 bits (175), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 28/169 (16%), Positives = 61/169 (36%), Gaps = 12/169 (7%)

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMG----LKPESYETYQIVDPGEIVFRFIDLQNDK 302
           +     ES + ++ YG I      +       + PE  E  + VD G++V        + 
Sbjct: 37  QKKDFTESGVPAIHYGQIYTYYGNQTDKTLSFVSPELAEKLKKVDKGDVVITNTSENIED 96

Query: 303 RSLRSAQVMERGIITSAY--MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS-LKF 359
                  + E   +T  +  +      I   +  +  ++    K       G +   +  
Sbjct: 97  VGKALLYLGEEQAVTGGHATIFKPSKEIVGKFFVYFTQTEIFDKAKRKFAKGTKVIDVSA 156

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLK-ERR 407
            D+ ++ + +PP++ Q  I  +++  T     L   +E  + L K + R
Sbjct: 157 TDMAKIQIPIPPLETQKKIVKILDKFTE----LEATLEAELALRKRQYR 201



 Score = 54.8 bits (130), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/166 (11%), Positives = 47/166 (28%), Gaps = 11/166 (6%)

Query: 26  KVVPIKRFTKLNTG----RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT-STVSI 80
           +  P+     L  G    +   +   +  I    + +  G    K  +    +    +  
Sbjct: 20  EWKPLGEVGLLVRGNGLQKKDFTESGVPAIHYGQIYTYYGNQTDKTLSFVSPELAEKLKK 79

Query: 81  FAKGQILYGKLGPYLRKAI-----IADFDGICSTQFLVLQPKDVLPELLQGWLLSID-VT 134
             KG ++       +         + +   +      + +P   +      +    +   
Sbjct: 80  VDKGDVVITNTSENIEDVGKALLYLGEEQAVTGGHATIFKPSKEIVGKFFVYFTQTEIFD 139

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
           +      +G  +       +  I +PIPPL  Q  I + +   T  
Sbjct: 140 KAKRKFAKGTKVIDVSATDMAKIQIPIPPLETQKKIVKILDKFTEL 185


>gi|305431931|ref|ZP_07401098.1| type I restriction-modification system [Campylobacter coli JV20]
 gi|304445015|gb|EFM37661.1| type I restriction-modification system [Campylobacter coli JV20]
          Length = 477

 Score = 72.1 bits (175), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 57/425 (13%), Positives = 141/425 (33%), Gaps = 55/425 (12%)

Query: 29  PIKRFTKLNTGR----TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
            +     +N  +           + ++ ++++ SG   +  ++        +  + FA+ 
Sbjct: 53  KLSNIADINPSKAEINNFSKDAIVTFLSMQNLGSGFIHH--REQGQIVEFENGYTYFAEN 110

Query: 85  QILYGKLGPYLRKAII------ADFDGICSTQFLVLQPK--DVLPELLQGWLLSIDVTQR 136
            IL  K+ P +            +  G  ST+F V + +    L E +  +L    + + 
Sbjct: 111 DILIAKITPCMEHGKCAIATDLYNGIGFGSTEFNVFRIRDPRFLTEFVFCYLNRDSIRKI 170

Query: 137 IEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
                 G +            +P+PI P+  Q+ I+  +      ++       +  E+L
Sbjct: 171 ATDNMVGTSGRQRVPTAFYEKLPIPILPIEFQLEIQNLVKDSHKALEESKELYKKAEEIL 230

Query: 196 KEK--------KQALVSYIVTKGLN----PDVKMKDSGIEWVGLVPDHWEVKPFFALVTE 243
             +         Q+L++       N        +K+S ++   L  ++++ K        
Sbjct: 231 YNELGLDPKNPLQSLLNSKTNNSTNSPNISIRTLKESFLKTGRLDSEYYQSKYEDIEKFI 290

Query: 244 LNRKNTKLIESNILSLSYGNIIQKLETRNMGL-------------------KPESYETYQ 284
            +  N      NI++    N   K       +                   K       +
Sbjct: 291 KSYSNGYDSFLNIINNKDTNFTPKNNENYNYIELANIGNNGNINEPISDLGKNLPTRARR 350

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCK 344
           IV  G+++   I+      +L + +  ++ ++++ +  +    ++S  L  + +S    +
Sbjct: 351 IVSNGDVIISSIEGSLSSCALITQE-FDKHLVSTGFFVLNSKLLNSETLLVMFKSQIFQE 409

Query: 345 VFYAMGSGLRQ-SLKFEDVKRLPVLVPPIKEQFDITNVINVET-------ARIDVLVEKI 396
                 SG    ++  E++ ++ +       Q  I   I             +D    K+
Sbjct: 410 YLKKFPSGTILCAINKEELSKIFIPKIDPTTQEKIAKYIQESFNLRKKSKQLLDNAKIKV 469

Query: 397 EQSIV 401
           E+ I 
Sbjct: 470 EEQIQ 474



 Score = 45.9 bits (107), Expect = 0.011,   Method: Composition-based stats.
 Identities = 28/181 (15%), Positives = 62/181 (34%), Gaps = 7/181 (3%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLET-RNMGLKPESYETYQIVDP 288
            + ++     +       N    ++ +  LS  N+       R  G   E    Y     
Sbjct: 50  SYEKLSNIADINPSKAEINNFSKDAIVTFLSMQNLGSGFIHHREQGQIVEFENGYTYFAE 109

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL----AWLMRSYDLCK 344
            +I+   I    +      A  +  GI   +         D  +L       +    + K
Sbjct: 110 NDILIAKITPCMEHGKCAIATDLYNGIGFGSTEFNVFRIRDPRFLTEFVFCYLNRDSIRK 169

Query: 345 VF--YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
           +     +G+  RQ +     ++LP+ + PI+ Q +I N++      ++   E  +++  +
Sbjct: 170 IATDNMVGTSGRQRVPTAFYEKLPIPILPIEFQLEIQNLVKDSHKALEESKELYKKAEEI 229

Query: 403 L 403
           L
Sbjct: 230 L 230


>gi|148976554|ref|ZP_01813250.1| hypothetical protein VSWAT3_11331 [Vibrionales bacterium SWAT-3]
 gi|145964130|gb|EDK29387.1| hypothetical protein VSWAT3_11331 [Vibrionales bacterium SWAT-3]
          Length = 427

 Score = 72.1 bits (175), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 58/428 (13%), Positives = 131/428 (30%), Gaps = 42/428 (9%)

Query: 29  PIKRFTKLNTGRTSES---GKDIIYIGLEDVESGTGKYLPK-DGNSRQSDTSTVSIFAKG 84
                  +++G +S     G    ++    V +         D     +         KG
Sbjct: 8   RFSDLYSMSSGISSTKEQAGHGAPFLSFSAVFNNYFVPDELADLMDASAKQQETYSIKKG 67

Query: 85  QILYGKLGPY-----LRKAIIADFDGICSTQFLVL----QPKDVLPELLQGWLLSIDVTQ 135
            I   +         +      D+     + FL      Q     P+ +  +L S    +
Sbjct: 68  DIFLTRTSEVVDELAMSSVATQDYPRATYSGFLKRLRPTQNDISYPKYMAFYLRSSLFRK 127

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            +         +  +      + + +P    QV + + +      ID  I    R    L
Sbjct: 128 TMTNNAVMTLRASLNEDIFSYLDLLLPDFDTQVKVGDLL----YAIDQKIEVNARINHEL 183

Query: 196 KEKKQALVSYIVTKGLNPD---VKMKDSGIEWVG------LVPDHWEVKPFFALVTE--- 243
               + L  Y   +   P+      K SG + +        +P  WE +   ++++    
Sbjct: 184 GLMTKTLYDYWFVQFDFPNADGKPYKASGGQMLYNKTLKRDIPVDWEARNLDSILSRSGT 243

Query: 244 --LNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDP------GEIVFRF 295
               R N KL E +   ++  +I       +      S E+  I++       G+++F  
Sbjct: 244 GLNPRSNFKLGEGSNYYVTIKSIDNGKINLDDKCDRISDESLTIINNRSDLKVGDVLFTS 303

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV-FYAMGSGLR 354
           I    +   ++          +   +      + S Y   L+   ++      +    + 
Sbjct: 304 IQPVGETYFIQEKPTNWNINESVFTLRADTEQVTSEYFYMLLSGQEMKAYTKQSSAGSIH 363

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAA 414
           + ++   +K   +         +IT   +   + I      IE+   +L E R   +   
Sbjct: 364 KGIRHGVLKEFILPFGG----KEITKEFSKVLSPILKKQALIEKENRVLSETRDWLLPML 419

Query: 415 VTGQIDLR 422
           + GQ+ ++
Sbjct: 420 MNGQVTVK 427



 Score = 44.4 bits (103), Expect = 0.035,   Method: Composition-based stats.
 Identities = 25/190 (13%), Positives = 51/190 (26%), Gaps = 19/190 (10%)

Query: 10  YKDSGVQWI------GAIPKHWKVVPIKRFTKLN-TGRTSESG-----KDIIYIGLEDVE 57
           YK SG Q +        IP  W+   +      + TG    S          Y+ ++ ++
Sbjct: 208 YKASGGQMLYNKTLKRDIPVDWEARNLDSILSRSGTGLNPRSNFKLGEGSNYYVTIKSID 267

Query: 58  SGTGKYLPKDGNSRQSD---TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQ---- 110
           +G      K            +  S    G +L+  + P      I +     +      
Sbjct: 268 NGKINLDDKCDRISDESLTIINNRSDLKVGDVLFTSIQPVGETYFIQEKPTNWNINESVF 327

Query: 111 FLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLI 170
            L    + V  E     L   ++    +    G+         +    +P          
Sbjct: 328 TLRADTEQVTSEYFYMLLSGQEMKAYTKQSSAGSIHKGIRHGVLKEFILPFGGKEITKEF 387

Query: 171 REKIIAETVR 180
            + +     +
Sbjct: 388 SKVLSPILKK 397


>gi|308061790|gb|ADO03678.1| type I restriction enzyme specificity subunit [Helicobacter pylori
           Cuz20]
          Length = 390

 Score = 72.1 bits (175), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 60/367 (16%), Positives = 112/367 (30%), Gaps = 35/367 (9%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKD------IIYIGLEDVESGTGKYLPKDGNSRQ---S 73
             W+   +K   K+  G T  +         I +I  +D+ +  G+Y+ K   S      
Sbjct: 2   SEWQTFCLKDLGKIVGGATPSTNNPKNYGNKIAWITPKDLSTLQGRYIKKGSRSISRLGF 61

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
            + +  +  K  IL+    P      IA      +  F  + P   +      + L    
Sbjct: 62  KSCSCVLLPKHAILFSSRAPI-GYVAIAKKRLCTNQGFKSIIPNKKI-YFEFLYYLLKYH 119

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPP-LAEQVLIREKIIAETVRIDTLITERIRFI 192
              I  I  G T        +G   + IPP   EQ  I   +     +I+          
Sbjct: 120 KDNISNIGGGTTFKEVSGATLGLFKVKIPPTYYEQQKIARTLSVLDQKIENNHKINELLH 179

Query: 193 ELLKEKKQALVSYI-VTKGLNPDVK-----MKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
           ++L+   +          G N   +     MK S  E   L+P+ +EVK    L      
Sbjct: 180 KILELLYEQYFVRFDFLDGNNKPYQTSGGKMKFS-KELNRLIPNDFEVKTLGELTQLKVG 238

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
                        S           N  L+ E+Y+     +   I+              
Sbjct: 239 NKNANHS------SNQGKYPFFTCSNNPLRCETYQ----FEGKHIIISGNGNFYVTHYDG 288

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLP 366
                +R  + S      P+  +   L +L        +       + + +   D++ + 
Sbjct: 289 KFDAYQRTYVVS------PNNPNHYVLIYLFVKSYTNYLKLQSRGSIIKFITKSDIENIK 342

Query: 367 VLVPPIK 373
           +++P +K
Sbjct: 343 IVLPNLK 349



 Score = 53.6 bits (127), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 22/166 (13%), Positives = 52/166 (31%), Gaps = 9/166 (5%)

Query: 245 NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
           N  N     +     +      K  +R++        +  ++    I+F           
Sbjct: 28  NYGNKIAWITPKDLSTLQGRYIKKGSRSISRLGFKSCSCVLLPKHAILFSSRAPIGYVA- 86

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKR 364
                  +R      + ++ P+        + +  Y    +    G    + +    +  
Sbjct: 87  ----IAKKRLCTNQGFKSIIPNKKIYFEFLYYLLKYHKDNISNIGGGTTFKEVSGATLGL 142

Query: 365 LPVLVPP-IKEQFDITNVINVETARID---VLVEKIEQSIVLLKER 406
             V +PP   EQ  I   ++V   +I+    + E + + + LL E+
Sbjct: 143 FKVKIPPTYYEQQKIARTLSVLDQKIENNHKINELLHKILELLYEQ 188


>gi|148983888|ref|ZP_01817207.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae SP3-BS71]
 gi|147924035|gb|EDK75147.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae SP3-BS71]
          Length = 305

 Score = 72.1 bits (175), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 30/185 (16%), Positives = 67/185 (36%), Gaps = 14/185 (7%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL------- 275
           E    +P+ WE      + + + R  +    +  +         +    ++ L       
Sbjct: 121 EVPCEIPESWEWVRLNDITSYIQRGKSPKYSNIPIYPVIAQKCNQWSGFSIDLARFIDPE 180

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKR-SLRSAQVMERGIITSA----YMAVKPHGIDS 330
              SY+  +++  G++++    L    R ++        G   +      + V    I+ 
Sbjct: 181 TVHSYQKERLLRDGDLMWNSTGLGTLGRLAIYHENKNPYGWAVADSHVTVIRVLSGVINC 240

Query: 331 TYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
            ++   + S  +  V     SG   ++ L  + +K   + +PP+ EQ  I + I    A 
Sbjct: 241 HFIYNFLSSPIVQSVIEEKASGSTKQKELLTKTIKEYLIPLPPLPEQSRIVDKIEQFFAH 300

Query: 389 IDVLV 393
           ID L+
Sbjct: 301 IDALI 305



 Score = 61.0 bits (146), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 16/69 (23%), Positives = 30/69 (43%), Gaps = 4/69 (5%)

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSS 409
            ++L  + V  + + +PP+ EQ  I   I     ++D   E   +   L KE     + S
Sbjct: 1   MKNLNSDKVASILIPLPPLSEQQRIVEAIESALEKVDEYAESYNRLEQLDKEFPDKLKKS 60

Query: 410 FIAAAVTGQ 418
            +  A+ G+
Sbjct: 61  ILQYAMQGK 69



 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 29/181 (16%), Positives = 50/181 (27%), Gaps = 15/181 (8%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT-----GKYLPKDGNSRQSD 74
            IP+ W+ V +   T       S    +I    +   +                      
Sbjct: 125 EIPESWEWVRLNDITSYIQRGKSPKYSNIPIYPVIAQKCNQWSGFSIDLARFIDPETVHS 184

Query: 75  TSTVSIFAKGQILYGKL--GPYLRKAIIADF-----DGICSTQFLVLQPKDVLPELLQGW 127
                +   G +++     G   R AI  +        +  +   V++    +      +
Sbjct: 185 YQKERLLRDGDLMWNSTGLGTLGRLAIYHENKNPYGWAVADSHVTVIRVLSGVINCHFIY 244

Query: 128 LLSIDVTQR---IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
                   +    E             K I    +P+PPL EQ  I +KI      ID L
Sbjct: 245 NFLSSPIVQSVIEEKASGSTKQKELLTKTIKEYLIPLPPLPEQSRIVDKIEQFFAHIDAL 304

Query: 185 I 185
           I
Sbjct: 305 I 305


>gi|325578337|ref|ZP_08148472.1| restriction endonuclease, S subunits [Haemophilus parainfluenzae
           ATCC 33392]
 gi|325160073|gb|EGC72202.1| restriction endonuclease, S subunits [Haemophilus parainfluenzae
           ATCC 33392]
          Length = 378

 Score = 72.1 bits (175), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 51/388 (13%), Positives = 113/388 (29%), Gaps = 49/388 (12%)

Query: 26  KVVPIKRFTKLNT-----GRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           K +P+               ++    +     L   ++    Y  +D     +  S V I
Sbjct: 18  KWIPLGDVADYEQPTKYLVNSTVYNDNYPTPVLTAGKTFILGYTNEDEGIYFASKSPVII 77

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
           F            +       DFD    +  + +         L  ++     T     I
Sbjct: 78  F----------DDFTTANKWVDFDFKAKSSAMKMITSKNEKFALLKYIYYWLNTLPNNQI 127

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
                           IP  IPPL+ Q  I + + A T     L +E     +  +  ++
Sbjct: 128 DGDHKRQWISNYANKLIP--IPPLSVQTEIVKILDALTALTSELTSELTLRRKQYEYYRE 185

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
            L+S                  E +G V   W+     +   +  RK           ++
Sbjct: 186 KLLSE-----------------EELGKVGFEWKTLDQISENLDSKRK----------PIT 218

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS--LRSAQVMERGIITS 318
            G                 Y    I D   ++          R+  +  +   +  +   
Sbjct: 219 SGLRTSGKIPYYGASGIVDYVEDYIFDGDFLLISEDGANLLARNTPIAFSATGKIWVNNH 278

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
           A++       +  ++ + +   DL           +  L  +++  + + +P I +Q  I
Sbjct: 279 AHILKFNSYEERRFIEFYLNKIDLTPYI---SGAAQPKLNKKNLNSIKIPIPSIPKQQHI 335

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKER 406
            ++++      + + E +  +I   ++R
Sbjct: 336 VSILDKFETLTNSITEGLPLAIEQSQKR 363



 Score = 49.8 bits (117), Expect = 0.001,   Method: Composition-based stats.
 Identities = 19/186 (10%), Positives = 51/186 (27%), Gaps = 8/186 (4%)

Query: 234 VKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVF 293
             P   +          +  +         ++   +T  +G   E    Y       I+F
Sbjct: 19  WIPLGDVADYEQPTKYLVNSTVYNDNYPTPVLTAGKTFILGYTNEDEGIYFASKSPVIIF 78

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL 353
                 N            +        +         Y+ + + +    ++      G 
Sbjct: 79  DDFTTANK---WVDFDFKAKSSAMKMITSKNEKFALLKYIYYWLNTLPNNQI-----DGD 130

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            +     +     + +PP+  Q +I  +++  TA    L  ++       +  R   ++ 
Sbjct: 131 HKRQWISNYANKLIPIPPLSVQTEIVKILDALTALTSELTSELTLRRKQYEYYREKLLSE 190

Query: 414 AVTGQI 419
              G++
Sbjct: 191 EELGKV 196


>gi|261492678|ref|ZP_05989228.1| type I restriction-modification system, S subunit, putative
           [Mannheimia haemolytica serotype A2 str. BOVINE]
 gi|261495897|ref|ZP_05992321.1| type I restriction-modification system, S subunit, putative
           [Mannheimia haemolytica serotype A2 str. OVINE]
 gi|261308441|gb|EEY09720.1| type I restriction-modification system, S subunit, putative
           [Mannheimia haemolytica serotype A2 str. OVINE]
 gi|261311664|gb|EEY12817.1| type I restriction-modification system, S subunit, putative
           [Mannheimia haemolytica serotype A2 str. BOVINE]
          Length = 111

 Score = 72.1 bits (175), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 20/104 (19%), Positives = 36/104 (34%), Gaps = 4/104 (3%)

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA 348
           G ++         K  +            +       +GI + +L + + S        +
Sbjct: 12  GSVLIAMYGATIGKLGILKIAATTNQACCACI---PFNGIYNKFLFYYLMSQKAEFQKKS 68

Query: 349 MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            GSG + ++  E +      +PPI EQ  I   I    A I+ L
Sbjct: 69  EGSG-QPNISKEKIINYLFPLPPIHEQHRIVQKIEQLFAEIEKL 111


>gi|222444447|ref|ZP_03606962.1| hypothetical protein METSMIALI_00058 [Methanobrevibacter smithii
           DSM 2375]
 gi|222434012|gb|EEE41177.1| hypothetical protein METSMIALI_00058 [Methanobrevibacter smithii
           DSM 2375]
          Length = 186

 Score = 72.1 bits (175), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 28/168 (16%), Positives = 68/168 (40%), Gaps = 4/168 (2%)

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
            + +K  +     +              G   +  ++  +   G+++FR    Q      
Sbjct: 18  SRYSKKYDGEKQKIDVLYCKVDEFYTREGDIAKDIDSKYLTQNGDVIFRLSSPQVAISIS 77

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRL 365
            ++++ E  +++S ++ +KP  ++  +LA L+ S            G+ + +K  DV RL
Sbjct: 78  ENSEIPEGVVVSSKFVIIKPRDVNPDFLAELLNSNIARNQIQKFSEGIIKQIKKNDVARL 137

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
              +P ++EQ +    IN+    I +  + ++++I      +   I  
Sbjct: 138 KFEIPSLEEQKEYVEYINLINKEIKLQKQLLKENID----LKEGIIQK 181


>gi|326565155|gb|EGE15346.1| type I restriction modification DNA specificity protein [Moraxella
           catarrhalis 103P14B1]
 gi|326574649|gb|EGE24585.1| type I restriction modification DNA specificity protein [Moraxella
           catarrhalis 101P30B1]
          Length = 209

 Score = 72.1 bits (175), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 19/184 (10%), Positives = 57/184 (30%), Gaps = 11/184 (5%)

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE---SYETYQIVDPGEIV 292
              +  T             I  L    +             E      + + +    ++
Sbjct: 25  KISSGGTPKTGIPEYYNNGEIPWLRTQEVNFNDIYDTGVKIIEPGVKNSSAKWIPANCVI 84

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
                    +  +    +       +  + V     +  Y+ + + +    +   ++G+G
Sbjct: 85  IAMYGATVGRVGINKIPMTTNQACAN--IEVNEEIAEYRYVYYCLANQY--EYIKSLGTG 140

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRS 408
            + ++  + VK+L + +PP+  Q  I  +++        + E + + I L ++     R 
Sbjct: 141 SQTNINAQIVKKLKIPIPPLSVQSQIVAILDTFDTLTQSISEGLPKEIKLRQKQYEYYRE 200

Query: 409 SFIA 412
             + 
Sbjct: 201 QLLN 204



 Score = 68.3 bits (165), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 20/192 (10%), Positives = 68/192 (35%), Gaps = 9/192 (4%)

Query: 26  KVVPIKRFTK-LNTGRTSE-------SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +   +    K +++G T +       +  +I ++  ++V                   S+
Sbjct: 15  EWRALGEVAKKISSGGTPKTGIPEYYNNGEIPWLRTQEVNFNDIYDTGVKIIEPGVKNSS 74

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
                   ++    G  + +  I       +     ++  + + E    +    +  + I
Sbjct: 75  AKWIPANCVIIAMYGATVGRVGINKIPMTTNQACANIEVNEEIAEYRYVYYCLANQYEYI 134

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           +++  G + ++ + + +  + +PIPPL+ Q  I   +        ++     + I+L ++
Sbjct: 135 KSLGTG-SQTNINAQIVKKLKIPIPPLSVQSQIVAILDTFDTLTQSISEGLPKEIKLRQK 193

Query: 198 KKQALVSYIVTK 209
           + +     ++  
Sbjct: 194 QYEYYREQLLNF 205


>gi|237822120|ref|ZP_04597965.1| type I site-specific deoxyribonuclease chain S [Streptococcus
           pneumoniae CCRI 1974M2]
          Length = 186

 Score = 72.1 bits (175), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 30/185 (16%), Positives = 65/185 (35%), Gaps = 14/185 (7%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL------- 275
           E    +P+ WE      + + + R  +    +  +         +    ++ L       
Sbjct: 2   EVPCEIPESWEWVRLNDITSYIQRGKSPKYSNISIYPVIAQKCNQWSGFSIDLARFIDPE 61

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA-----YMAVKPHGIDS 330
              SY+  +++  G++++    L    R     +         A      + V    I+ 
Sbjct: 62  TVHSYQKERLLRDGDLMWNSTGLGTLGRLAIYHENKNPYAWAVADSHVTVIRVLSGVINC 121

Query: 331 TYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
            ++   + S  +  V     SG   ++ L  + +K   + +PP+ EQ  I + I    A 
Sbjct: 122 HFIYNFLSSPIVQSVIEEKASGSTKQKELLTKTIKEYLIPLPPLPEQSRIVDKIEQFFAH 181

Query: 389 IDVLV 393
           ID L+
Sbjct: 182 IDALI 186



 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 30/181 (16%), Positives = 57/181 (31%), Gaps = 15/181 (8%)

Query: 20  AIPKHWKVVPIKRFTK-LNTGRTSE--SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            IP+ W+ V +   T  +  G++ +  +      I  +  +              ++  S
Sbjct: 6   EIPESWEWVRLNDITSYIQRGKSPKYSNISIYPVIAQKCNQWSGFSIDLARFIDPETVHS 65

Query: 77  --TVSIFAKGQILYGKL--GPYLRKAIIADF-----DGICSTQFLVLQPKDVLPELLQGW 127
                +   G +++     G   R AI  +        +  +   V++    +      +
Sbjct: 66  YQKERLLRDGDLMWNSTGLGTLGRLAIYHENKNPYAWAVADSHVTVIRVLSGVINCHFIY 125

Query: 128 LLSIDVTQR---IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
                   +    E             K I    +P+PPL EQ  I +KI      ID L
Sbjct: 126 NFLSSPIVQSVIEEKASGSTKQKELLTKTIKEYLIPLPPLPEQSRIVDKIEQFFAHIDAL 185

Query: 185 I 185
           I
Sbjct: 186 I 186


>gi|310831004|ref|YP_003969647.1| putative DNA N6-adenine methyltransferase [Cafeteria roenbergensis
           virus BV-PW1]
 gi|309386188|gb|ADO67048.1| putative DNA N6-adenine methyltransferase [Cafeteria roenbergensis
           virus BV-PW1]
          Length = 913

 Score = 72.1 bits (175), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 51/392 (13%), Positives = 107/392 (27%), Gaps = 39/392 (9%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG- 84
           +   +        G      + I            GKY    G     +  T      G 
Sbjct: 554 EWKKLGDICDFKRGERITKKEHI----------DNGKYYVIGGGDETKNFKTNKFNRSGF 603

Query: 85  QILYGKLGPYLRKAIIADF--DGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ-RIEAIC 141
                + G   +  I        +    F +      L      + L   +         
Sbjct: 604 NCRIARYGGSEKNFIKITNFDYWLHDNAFTLQVKNKDLNIKYISYYLLNYIKNNYYYKKL 663

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
             +     D+ G   + +PIP L  Q     KI      I ++        +  KE  + 
Sbjct: 664 NNSVPPALDFDGFTKLKIPIPSLEIQEETVNKIELFDGLIKSM----EDLNKKHKEGMKI 719

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
            +  ++ K ++     K   +  +              +    +R   +  E N L +S 
Sbjct: 720 YMEIMLKKYIDEIEWKKLGDVCEI-------------KIGGTPSRNKEEYWEGNNLWVSV 766

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
             +   +         +       V    ++ +   L + K S+    +  + + T+  +
Sbjct: 767 RELNNNIINDTKEKISDLGVNKSNVK---LIPKDTILMSFKLSIGKMGITGKDLYTNEAI 823

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
           A                  +   +    G+    SL    +K + + VP ++ Q      
Sbjct: 824 AGLITNKLIDKKYLYYYLQNNLIINNNDGAMGNGSLNISKLKIIKIPVPSLETQNKTVEQ 883

Query: 382 INVETARIDVLVEKIEQSIVLLKE-RRSSFIA 412
           +N     ID ++ +    I   K+  +   I 
Sbjct: 884 LNF----IDQIISENNNMIKNYKQNIKDILIQ 911



 Score = 48.6 bits (114), Expect = 0.002,   Method: Composition-based stats.
 Identities = 21/188 (11%), Positives = 58/188 (30%), Gaps = 10/188 (5%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
             E + L             + +  R      + +I +  Y  I    ET+N        
Sbjct: 541 DEEMLKLQEKANCEWKKLGDICDFKRGERITKKEHIDNGKYYVIGGGDETKNF------- 593

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL--AWLMR 338
                 +      R       +++       +  +  +A+     +   +      +L+ 
Sbjct: 594 -KTNKFNRSGFNCRIARYGGSEKNFIKITNFDYWLHDNAFTLQVKNKDLNIKYISYYLLN 652

Query: 339 SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
                  +  + + +  +L F+   +L + +P ++ Q +  N I +    I  + +  ++
Sbjct: 653 YIKNNYYYKKLNNSVPPALDFDGFTKLKIPIPSLEIQEETVNKIELFDGLIKSMEDLNKK 712

Query: 399 SIVLLKER 406
               +K  
Sbjct: 713 HKEGMKIY 720


>gi|496159|gb|AAA65634.1| restriction-modification enzyme subunit S1B [Mycoplasma pulmonis]
 gi|3335666|gb|AAC78318.1| restriction-modification enzyme MpuUV S subunit [Mycoplasma
           pulmonis]
          Length = 336

 Score = 72.1 bits (175), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 43/356 (12%), Positives = 104/356 (29%), Gaps = 34/356 (9%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDII-YIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           ++  + +   L  G++  + K +   IG+ ++ S   K     G     D +        
Sbjct: 2   EIYKLGQILNLEKGKSKYNAKYVSQNIGIYNLYSSKTKDQGIFGKINSYDFNGEY----- 56

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            IL    G Y       +     ++   +L+  + + +      L +   +    +  G+
Sbjct: 57  -ILITTHGAYAGTVKYVNEKFSTTSNCFILKVNENIVKTKFLSYLLLLQEKTFNDMAIGS 115

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
              +     I +  + +P L  Q  I + I     +    I      I   ++  Q  ++
Sbjct: 116 AYGYLKNYNINDFEVNLPNLKIQSAIIKIIEPLEKQ----INAFDELILSEQKSLQHYLN 171

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
           Y            K   IE     P  +       +      K        I S      
Sbjct: 172 YFFG---------KFYQIE-----PSLFHDYKLEKIAKIRRGK-------IINSFDLKEN 210

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
                  +   K      Y      +  +  I               +  I    ++ + 
Sbjct: 211 PGDYPVISSNTKNNGIFGYLNSYMYDGEYITISADGAYAGTVFLNNGKFSITNVCFILLL 270

Query: 325 PHGID--STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
              ++  + +L + ++  +      ++    R S++   +  + + +P ++ Q  I
Sbjct: 271 NDKVNLLTKFLFYYLKKNENIIQKKSIVGSSRPSVREYTLSEIAIKIPSLEIQSAI 326



 Score = 41.7 bits (96), Expect = 0.20,   Method: Composition-based stats.
 Identities = 16/142 (11%), Positives = 35/142 (24%), Gaps = 3/142 (2%)

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
               +   K +              +  I               +    ++ ++      
Sbjct: 31  YNLYSSKTKDQGIFGKINSYDFNGEYILITTHGAYAGTVKYVNEKFSTTSNCFILKVNEN 90

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           I  T     +                   LK  ++    V +P +K Q  I  +I     
Sbjct: 91  IVKTKFLSYLLLLQEKTFNDMAIGSAYGYLKNYNINDFEVNLPNLKIQSAIIKIIEPLEK 150

Query: 388 RI---DVLVEKIEQSIVLLKER 406
           +I   D L+   ++S+      
Sbjct: 151 QINAFDELILSEQKSLQHYLNY 172


>gi|298229904|ref|ZP_06963585.1| type I site-specific deoxyribonuclease chain S [Streptococcus
           pneumoniae str. Canada MDR_19F]
          Length = 198

 Score = 72.1 bits (175), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 30/185 (16%), Positives = 65/185 (35%), Gaps = 14/185 (7%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL------- 275
           E    +P+ WE      + + + R  +    +  +         +    ++ L       
Sbjct: 14  EVPCEIPESWEWVRLNDITSYIQRGKSPKYSNIPIYPVIAQKCNQWSGFSIDLARFIDPE 73

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA-----YMAVKPHGIDS 330
              SY+  +++  G++++    L    R     +         A      + V    I+ 
Sbjct: 74  TVHSYQKERLLRDGDLMWNSTGLGTLGRLAIYHENKNPYAWAVADSHVTVIRVLSGVINC 133

Query: 331 TYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
            ++   + S  +  V     SG   ++ L  + +K   + +PP+ EQ  I + I    A 
Sbjct: 134 HFIYNFLSSPIVQSVIEEKASGSTKQKELLTKTIKEYLIPLPPLPEQSRIVDKIEQFFAH 193

Query: 389 IDVLV 393
           ID L+
Sbjct: 194 IDALI 198



 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 29/181 (16%), Positives = 50/181 (27%), Gaps = 15/181 (8%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT-----GKYLPKDGNSRQSD 74
            IP+ W+ V +   T       S    +I    +   +                      
Sbjct: 18  EIPESWEWVRLNDITSYIQRGKSPKYSNIPIYPVIAQKCNQWSGFSIDLARFIDPETVHS 77

Query: 75  TSTVSIFAKGQILYGKL--GPYLRKAIIADF-----DGICSTQFLVLQPKDVLPELLQGW 127
                +   G +++     G   R AI  +        +  +   V++    +      +
Sbjct: 78  YQKERLLRDGDLMWNSTGLGTLGRLAIYHENKNPYAWAVADSHVTVIRVLSGVINCHFIY 137

Query: 128 LLSIDVTQR---IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
                   +    E             K I    +P+PPL EQ  I +KI      ID L
Sbjct: 138 NFLSSPIVQSVIEEKASGSTKQKELLTKTIKEYLIPLPPLPEQSRIVDKIEQFFAHIDAL 197

Query: 185 I 185
           I
Sbjct: 198 I 198


>gi|282851966|ref|ZP_06261326.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus gasseri 224-1]
 gi|282556975|gb|EFB62577.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus gasseri 224-1]
          Length = 675

 Score = 72.1 bits (175), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 39/374 (10%), Positives = 101/374 (27%), Gaps = 15/374 (4%)

Query: 31  KRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG----QI 86
              T     +T    K  I      + S   K+                   +      I
Sbjct: 308 GNITDYGNEKTIPLHKIAILKNGTSITSSKIKHGNI-PVIAGGREPAYYHNEENRSEPTI 366

Query: 87  LYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATM 146
              + G Y       D     S  F +    +     L  + L     ++I +   G+  
Sbjct: 367 TVSQSGAYAGFVSYHDKPIFASDCFTITAKPNSGYSTLDLYYLLKKKQKQIYSFATGSIQ 426

Query: 147 SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYI 206
            H   K + +  +P      Q      +       ++ +  + +    L E +Q+L S I
Sbjct: 427 KHVYAKDMEDFKVPDKGQELQ-----VVNNLIAGFESEVQRQRQSENELTELQQSLFSDI 481

Query: 207 VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ 266
                N     +   +     +      K                        ++   ++
Sbjct: 482 DKVYKNSQKVDQSISMLEDNELVKVMGGKRIPKEYDRAPFPTCHYYPGVKDFENFTINLK 541

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
             +  +  +         ++   ++                 +     +  +A+      
Sbjct: 542 TSDCIDDVVF--EKIKRYVLKENDVFVSAAGTIGKVGMAPKVKGGTISLTENAHRIRVID 599

Query: 327 GI--DSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
                  +L ++++S ++     ++ +      L  E +K + + +  I EQ ++    +
Sbjct: 600 QTKLIPRFLMYILKSQNIQNAMNSLVTKTGTPKLSIESLKNIEIPILKITEQQELIKKWD 659

Query: 384 VETARIDVLVEKIE 397
               +I+ +  +I 
Sbjct: 660 QLNTKINDIYSQIN 673


>gi|307287469|ref|ZP_07567521.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX0109]
 gi|306501515|gb|EFM70814.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX0109]
          Length = 286

 Score = 72.1 bits (175), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 28/186 (15%), Positives = 60/186 (32%), Gaps = 14/186 (7%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY--QIVD 287
           D WE +     V  +  ++            Y  +    + +N  + P  + T   +  +
Sbjct: 16  DDWEERKLGDEVRIVMGQSPNSENYTDDPNDYILVQGNADMKNGRVFPRVWTTQVTKQAE 75

Query: 288 PGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY 347
             +++        D        V+ RG+             +      L +         
Sbjct: 76  KDDLILSVRAPVGDIGKTAYDVVIGRGVAA--------IKGNEFIFQNLGKMKSDGYWTR 127

Query: 348 AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
                  +S+   D+K   + VP I+EQ  I +       ++D  +   ++ + LLKE +
Sbjct: 128 YSTGSTFESINSTDIKEAIISVPTIEEQNKIGSF----FKQLDNTIALHQRKLDLLKETK 183

Query: 408 SSFIAA 413
             F+  
Sbjct: 184 KGFLQK 189



 Score = 54.8 bits (130), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 36/281 (12%), Positives = 78/281 (27%), Gaps = 14/281 (4%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W+   +    ++  G++  S           +  G           R   T       K
Sbjct: 17  DWEERKLGDEVRIVMGQSPNSENYTDDPNDYILVQGNADMKNGRVFPRVWTTQVTKQAEK 76

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
             ++     P         +D +       ++  + +       L  +           G
Sbjct: 77  DDLILSVRAPV-GDIGKTAYDVVIGRGVAAIKGNEFI----FQNLGKMKSDGYWTRYSTG 131

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           +T    +   I    + +P + EQ  I         ++D  I    R ++LLKE K+  +
Sbjct: 132 STFESINSTDIKEAIISVPTIEEQNKIGSF----FKQLDNTIALHQRKLDLLKETKKGFL 187

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
             +  K      +++  G           ++ P          K++K   + +  +   N
Sbjct: 188 QKMFPKNGAKVPEIRFPGFTEDWEERKLGDIAPLR---GGFAFKSSKFRNTGVPIVRISN 244

Query: 264 IIQKLET--RNMGLKPESYETYQIVDPGEIVFRFIDLQNDK 302
           I+   E          +  +   I+     V         K
Sbjct: 245 ILSSGEVGGDFAYYDEQDKDDKYILPDKSAVLAMSGATTGK 285



 Score = 45.2 bits (105), Expect = 0.022,   Method: Composition-based stats.
 Identities = 11/79 (13%), Positives = 24/79 (30%), Gaps = 5/79 (6%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           + W+   +     L  G   +S K     +  + + ++ S +G+         + D    
Sbjct: 208 EDWEERKLGDIAPLRGGFAFKSSKFRNTGVPIVRISNILS-SGEVGGDFAYYDEQDKDDK 266

Query: 79  SIFAKGQILYGKLGPYLRK 97
            I      +    G    K
Sbjct: 267 YILPDKSAVLAMSGATTGK 285


>gi|87310395|ref|ZP_01092525.1| putative specificity protein s [Blastopirellula marina DSM 3645]
 gi|87286894|gb|EAQ78798.1| putative specificity protein s [Blastopirellula marina DSM 3645]
          Length = 396

 Score = 72.1 bits (175), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 45/394 (11%), Positives = 117/394 (29%), Gaps = 28/394 (7%)

Query: 56  VESGTGKYLPKDGNSRQ--SDTSTVSIFAKGQILYGKLGPYLRKAIIA-DFDGICSTQFL 112
           +++G          +     + +  ++  +  ++  +       A +            +
Sbjct: 1   MQNGRIDVATARKITESDFFEWTKKALPQENDVILSRRCNPGETAFVDSKLKCALGQNLV 60

Query: 113 VLQPKDVLPELLQGWLLSIDVTQRIE---AICEGATMSHADWKGIGNIPMPIPPLAEQVL 169
           +L+    L        L        +    I  GA         +    +PIPPL EQ  
Sbjct: 61  LLRADGELVYPPFLRWLVRSPHWWNQVGTFINVGAVFDSLRCADVPKFRLPIPPLPEQKA 120

Query: 170 IREKIIAETVRIDTLITERIRFIELLKEKKQALVSYI--VTKGLNPDVKMKDSG------ 221
           I   + A   +I+           + +   ++       V   ++       S       
Sbjct: 121 IASILGALDDKIELNRRMNETLEAMARALFKSWFVDFDPVRAKMDGRQPPGMSADVAALF 180

Query: 222 ----IEWVGL-VPDHWEVKPFFALVTEL---NRKNTKLIESNILSLSYGNIIQKLETRNM 273
               +   G  VP+ W+V     L        R N        + ++  +  +      M
Sbjct: 181 PDKLVHVNGELVPEGWKVGRLGDLCRINSNTVRANEVSGMIEYVDIASVSEGRSSGPTAM 240

Query: 274 GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL 333
                     + +  G+ ++  +   N +  L      E  I ++ +  + P+ +   YL
Sbjct: 241 DFNSAPSRARRKISHGDTIWSCVRP-NRRSFLFVHSPPENRIASTGFAVISPNLLTPCYL 299

Query: 334 AWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            + + +++               +++ +      +L P +     I    +         
Sbjct: 300 HYAITTHEFTSYLTNCADGSAYPAVRPDHFSDAELLEPDL---QTIEAF-DEVVWSFRNQ 355

Query: 393 VEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
           +   E +  +L E R + +   ++G++ +    +
Sbjct: 356 IAVNEGASNILAELRDALLPKLLSGELRVADAEK 389



 Score = 50.6 bits (119), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 26/142 (18%), Positives = 52/142 (36%), Gaps = 7/142 (4%)

Query: 19  GA-IPKHWKVVPIKRFTKLNT--GRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           G  +P+ WKV  +    ++N+   R +E    I Y+ +  V  G     P   +   + +
Sbjct: 189 GELVPEGWKVGRLGDLCRINSNTVRANEVSGMIEYVDIASVSEGRSS-GPTAMDFNSAPS 247

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIAD---FDGICSTQFLVLQPKDVLPELLQGWLLSID 132
                 + G  ++  + P  R  +       + I ST F V+ P  + P  L   + + +
Sbjct: 248 RARRKISHGDTIWSCVRPNRRSFLFVHSPPENRIASTGFAVISPNLLTPCYLHYAITTHE 307

Query: 133 VTQRIEAICEGATMSHADWKGI 154
            T  +    +G+          
Sbjct: 308 FTSYLTNCADGSAYPAVRPDHF 329


>gi|23466324|ref|NP_696927.1| truncated type I restriction system specificity protein
           [Bifidobacterium longum NCC2705]
 gi|23327079|gb|AAN25563.1| truncated type I restriction system specificity protein
           [Bifidobacterium longum NCC2705]
          Length = 189

 Score = 72.1 bits (175), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 21/160 (13%), Positives = 58/160 (36%), Gaps = 8/160 (5%)

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
            N+      I  +    I       ++ +   +  + ++VD G +++      + + ++ 
Sbjct: 33  GNSAYYGGEIPFIRSAEIDCDSTELSLTVAGLNNSSAKLVDKGMVLYAMYGATSGEVAIS 92

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLP 366
                 +G I  A +A+    + +              +      G + +L    +K L 
Sbjct: 93  KI----KGAINQAILAMDASDMAANRFIAYWLRRQKKSITETFLQGGQGNLSGAIIKELG 148

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
           +  P + EQ  I +      + +D L+   ++  + +++R
Sbjct: 149 IPQPSLDEQRQIGSF----FSNLDDLITLHQRKRLSIRQR 184



 Score = 68.3 bits (165), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 28/180 (15%), Positives = 54/180 (30%), Gaps = 10/180 (5%)

Query: 25  WKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           W+   +       +G T  +G       +I +I   +++                + S+ 
Sbjct: 13  WEQRKLGELALTYSGGTPSAGNSAYYGGEIPFIRSAEID---CDSTELSLTVAGLNNSSA 69

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
            +  KG +LY   G    +  I+   G  +   L +   D+       + L        E
Sbjct: 70  KLVDKGMVLYAMYGATSGEVAISKIKGAINQAILAMDASDMAANRFIAYWLRRQKKSITE 129

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
              +G    +     I  + +P P L EQ  I          I     +R+   +     
Sbjct: 130 TFLQG-GQGNLSGAIIKELGIPQPSLDEQRQIGSFFSNLDDLITLHQRKRLSIRQRSPVW 188


>gi|325104013|ref|YP_004273667.1| hypothetical protein Pedsa_1278 [Pedobacter saltans DSM 12145]
 gi|324972861|gb|ADY51845.1| hypothetical protein Pedsa_1278 [Pedobacter saltans DSM 12145]
          Length = 397

 Score = 71.7 bits (174), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 58/405 (14%), Positives = 123/405 (30%), Gaps = 34/405 (8%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
             +  + +    + +   +D+    L  V   T K +P   N+  +D S   I  KGQ  
Sbjct: 4   KKLGDYIQ----QVNNRNRDLQVETLLGVSI-TKKLIPSIANTVGTDMSAYKIVEKGQFA 58

Query: 88  YGKLGPYLR-----KAIIADFDGICSTQFLVL---QPKDVLPELLQGWLLSIDVTQRIEA 139
           YG +                   + S  ++V        +LPE L  W    +  +    
Sbjct: 59  YGTITSRNGDKISIALADEYDKALVSQIYIVFEVIDTNLLLPEYLMMWFSRPEFDRYARY 118

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
              G+T    DW+ +  + +PIP + +Q  I      +   ++  I    +  E L+   
Sbjct: 119 HSHGSTREAFDWEDLCEVELPIPSIEKQREIVA----QYQAVENKIKVNEQICEQLEATA 174

Query: 200 QALVSYIVTKGLNPD---VKMKDSG------IEWVGLVPDHWEVKPFFALVTELNRKNTK 250
           Q L          P+      K SG       E    +P+ WEV     ++   + K   
Sbjct: 175 QTLYKQWFVDFEFPNENGEPYKSSGGIMVFNEELEKEIPEGWEVGKLEDIIYYSDTKIAL 234

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
              +    +S  +++ + +               + + G+I+   I     K    +   
Sbjct: 235 KNLTTDNYISTESMLPEKKGVEFISNVPEGNNVTVFEKGDILISNIRPYLKKIWFAN--- 291

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLV 369
            + G             +   +   ++ +            G        + +    +L+
Sbjct: 292 KKGGCSNDVLCIRSKEIVYQFFALNILFNDQFFDYVMQGAKGTKMPRGDKDWILEYKILL 351

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAA 414
           P      +I    + +   +  +          L + +S  +   
Sbjct: 352 PK----KEILATFSKDIELVSRVKISKTIQNQKLTQLQSFLLNRL 392



 Score = 52.9 bits (125), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 34/173 (19%), Positives = 68/173 (39%), Gaps = 16/173 (9%)

Query: 10  YKDSG------VQWIGAIPKHWKVVPIKRFTKLNTGR-TSESGKDIIYIGLEDV--ESGT 60
           YK SG       +    IP+ W+V  ++     +  +   ++     YI  E +  E   
Sbjct: 195 YKSSGGIMVFNEELEKEIPEGWEVGKLEDIIYYSDTKIALKNLTTDNYISTESMLPEKKG 254

Query: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL 120
            +++         + + V++F KG IL   + PYL+K   A+  G CS   L ++ K+++
Sbjct: 255 VEFISNVP-----EGNNVTVFEKGDILISNIRPYLKKIWFANKKGGCSNDVLCIRSKEIV 309

Query: 121 PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
                  L  +   Q  + + +GA  +         I      L ++ ++   
Sbjct: 310 --YQFFALNILFNDQFFDYVMQGAKGTKMPRGDKDWILEYKILLPKKEILATF 360


>gi|124265199|ref|YP_001019203.1| restriction modification system, type I [Methylibium petroleiphilum
           PM1]
 gi|124257974|gb|ABM92968.1| restriction modification system, type I [Methylibium petroleiphilum
           PM1]
          Length = 412

 Score = 71.7 bits (174), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 46/368 (12%), Positives = 106/368 (28%), Gaps = 31/368 (8%)

Query: 81  FAKGQILYGKLGPYLRKAIIAD--FDGICSTQFLVLQPKDVLPELLQGWLLSID----VT 134
            +   +++   G      I+ +     + S+  + L            +           
Sbjct: 45  LSPNDLVFPHRGAIGEVGIVPEDGERYVLSSSLMKLTCDVARAHPDFVYYFFKSAIGRFE 104

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
               +   G          +  I + +PP+ EQV I   + A   RI  L         +
Sbjct: 105 LLKNSSQVGTPGIGQPLTSLKQIKLRLPPVGEQVAIAAALRALDDRIALLRDTNATLEAI 164

Query: 195 LKEKKQALVS-----YIVTKGLNPDVK------MKDSGIEW--VGLVPDHWEVKPFFALV 241
            +   ++           ++GL P         +   G+E   +G VP  W         
Sbjct: 165 AQALFKSWFVDFDPVRAKSQGLAPAGMDEATAALFPEGVEESALGPVPRGWRAATLAETF 224

Query: 242 TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQND 301
                ++             G         ++ ++   + +      G+ +   I    +
Sbjct: 225 EINPSRSLPKDSEAKYLEMAGVPTTGHCAESIAVRA--FGSGTKFRNGDTLLARITPCLE 282

Query: 302 KRSLRSAQV---MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF---YAMGSGLRQ 355
                        E G  ++ ++ ++P      Y A+L+  +   + F      G+  RQ
Sbjct: 283 NGKTAFVDFLVEDEIGWGSTEFIVLRPKAPLPDYFAYLLCRHAPFREFAERSMSGTSGRQ 342

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            ++ + +    + VPP      +          +   +         L   R + +   +
Sbjct: 343 RVQNDVLATYRIAVPP----SAVAEAFGALINPLRHAITSNHARGATLGALRDALLPRLI 398

Query: 416 TGQIDLRG 423
           +GQ+ L  
Sbjct: 399 SGQLRLPD 406



 Score = 58.3 bits (139), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 19/173 (10%), Positives = 58/173 (33%), Gaps = 15/173 (8%)

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYE----TYQIVDPGEIVFRFIDLQNDK 302
           K+   +++ +  +   N+          +     +        + P ++VF       + 
Sbjct: 2   KSDCYVDAGVRVVRGTNLTGGRSFSGEFVFITPEKAVELNSANLSPNDLVFPHRGAIGEV 61

Query: 303 RSLRSAQVMERGIITSAYMAVKPH--GIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKF 359
             +   +  ER +++S+ M +          ++ +  +S           S +    +  
Sbjct: 62  GIVP--EDGERYVLSSSLMKLTCDVARAHPDFVYYFFKSAIGRFELLKNSSQVGTPGIGQ 119

Query: 360 --EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
               +K++ + +PP+ EQ  I   +      +D  +  +  +   L+    + 
Sbjct: 120 PLTSLKQIKLRLPPVGEQVAIAAALRA----LDDRIALLRDTNATLEAIAQAL 168



 Score = 47.9 bits (112), Expect = 0.003,   Method: Composition-based stats.
 Identities = 35/196 (17%), Positives = 65/196 (33%), Gaps = 13/196 (6%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +G +P+ W+   +    ++N  R+     +  Y+ +  V   T  +  +    R     +
Sbjct: 208 LGPVPRGWRAATLAETFEINPSRSLPKDSEAKYLEMAGV--PTTGHCAESIAVRAFG--S 263

Query: 78  VSIFAKGQILYGKLGPYLRK-------AIIADFDGICSTQFLVLQPKDVLPELL-QGWLL 129
            + F  G  L  ++ P L          ++ D  G  ST+F+VL+PK  LP+        
Sbjct: 264 GTKFRNGDTLLARITPCLENGKTAFVDFLVEDEIGWGSTEFIVLRPKAPLPDYFAYLLCR 323

Query: 130 SIDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
                +  E    G +         +    + +PP A        I      I +     
Sbjct: 324 HAPFREFAERSMSGTSGRQRVQNDVLATYRIAVPPSAVAEAFGALINPLRHAITSNHARG 383

Query: 189 IRFIELLKEKKQALVS 204
                L       L+S
Sbjct: 384 ATLGALRDALLPRLIS 399


>gi|254505201|ref|ZP_05117352.1| hypothetical protein SADFL11_5241 [Labrenzia alexandrii DFL-11]
 gi|222441272|gb|EEE47951.1| hypothetical protein SADFL11_5241 [Labrenzia alexandrii DFL-11]
          Length = 279

 Score = 71.7 bits (174), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 44/297 (14%), Positives = 87/297 (29%), Gaps = 29/297 (9%)

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
              + +     GA+      K +    +P+PPL EQ  I   +                 
Sbjct: 1   MFVKDMVGKSTGASYPAVSDKIVKASSIPLPPLDEQRRISAILDKADSLRQKRKQAIALL 60

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
             L     Q++   +     +P    K          P +  +     + + + +     
Sbjct: 61  DSLT----QSIFLEMFG---DPVSNPKGW--------PQNNSLSDIADIASGITKGRKLR 105

Query: 252 IESN--ILSLSYGNIIQK----LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
            E    +  L+  N+  K       + +         Y++     ++    D     R  
Sbjct: 106 GEPTRTVPYLAVANVQDKTLKLDIVKTIEATEAEIGRYRLQVDDLLLTEGGDPDKLGRGS 165

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLA--WLMRSYDLCKVFYAMG--SGLRQSLKFED 361
                +   I  +    V+    +   L   WL+ S    + F      +    S+    
Sbjct: 166 LWRGELHEAIHQNHIFRVRLTSNNVHPLYAMWLIGSDYGKRYFLKSAKQTTGIASINKTQ 225

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           +  LP L+PP K Q +  +       ++D L+        L     SS    A +G+
Sbjct: 226 LSNLPFLLPPKKLQQEFADQAQAVKTKLDKLLTCE----DLTNSLFSSLQHRAFSGE 278



 Score = 43.6 bits (101), Expect = 0.065,   Method: Composition-based stats.
 Identities = 17/166 (10%), Positives = 43/166 (25%), Gaps = 15/166 (9%)

Query: 22  PKHW-KVVPIKRFTKLNTGRTS------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           PK W +   +     + +G T       E  + + Y+ + +V+  T K            
Sbjct: 79  PKGWPQNNSLSDIADIASGITKGRKLRGEPTRTVPYLAVANVQDKTLKLDIVKTIEATEA 138

Query: 75  TSTVSIFAKGQILYGKLGP----YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL- 129
                      +L  + G             +         +               +  
Sbjct: 139 EIGRYRLQVDDLLLTEGGDPDKLGRGSLWRGELHEAIHQNHIFRVRLTSNNVHPLYAMWL 198

Query: 130 ---SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIRE 172
                     +++  +   ++  +   + N+P  +PP   Q    +
Sbjct: 199 IGSDYGKRYFLKSAKQTTGIASINKTQLSNLPFLLPPKKLQQEFAD 244


>gi|254777458|ref|ZP_05218974.1| Type I restriction-modification system (specificity subunit)
           [Mycobacterium avium subsp. avium ATCC 25291]
          Length = 392

 Score = 71.7 bits (174), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 51/400 (12%), Positives = 125/400 (31%), Gaps = 33/400 (8%)

Query: 26  KVVPIKRFTKLNTGRT-SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           + V +     L       E   +   IG+     G G +  +     +         A G
Sbjct: 4   ERVRVGDVLSLQRRSVDIEPFTEYSLIGVYSF--GKGIFHREPRRGSELGDYRFFSIAPG 61

Query: 85  QILYGKLGPYLRKAIIADFD--GICSTQ---FLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
            ++   +  +      A     G   T      V +   V     + + LS    + I  
Sbjct: 62  DLVLSNIQAWEGAIACAQERDAGTIGTHRFLTYVSRDGQVDTAWAKWFFLSEPGMELIRK 121

Query: 140 ICEGATMSH--ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
              G T+ +          + +P+PP+ EQ  +  ++   +  +      R     L + 
Sbjct: 122 AAPGTTIRNRTLAIDRFEALEIPLPPIDEQRQVASQLDRLSEVVQLASERRRHGETLFRA 181

Query: 198 KKQALVSYIVTK-GLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
              +  S ++   G       + + +  +   P         A                +
Sbjct: 182 LTDSRESKLIAGLGKTGVPARRLADVAEINPRPTRLAADTLVAF---------------V 226

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
              +       +    +    E    Y+    G+++F  I               + G+ 
Sbjct: 227 PMAAVDADTGSVSDAEVRSVAELGAGYKQFRRGDVIFARITPCMQNGKSAVFSDRDYGLG 286

Query: 317 TSAYMAVKP-HGIDSTYLAWLMRSYDLCKVF--YAMGSGLRQSLKFEDVKRLPVLVPPIK 373
           ++ +  V+P + + + Y+  ++R+  +      +  G+  +Q +  + ++ L V +P  +
Sbjct: 287 STEFHVVRPGNEVSAEYIHRILRTRAVRLNATEHFTGTAGQQRVPADFLRELLVPIPSRE 346

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           +Q +I   ++   A         +++  L +    S + A
Sbjct: 347 DQQEIVASLDALRASAGEFRALNQKASALAR----SLLPA 382


>gi|258517328|ref|YP_003193550.1| hypothetical protein Dtox_4260 [Desulfotomaculum acetoxidans DSM
           771]
 gi|257781033|gb|ACV64927.1| hypothetical protein Dtox_4260 [Desulfotomaculum acetoxidans DSM
           771]
          Length = 287

 Score = 71.7 bits (174), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 26/204 (12%), Positives = 67/204 (32%), Gaps = 9/204 (4%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN-MGLKPESYE 281
           E     P+ W +     L+  +      +       +   +  + L  +  +       +
Sbjct: 17  ERCEKYPNDWVIAKLGNLLERVRMPVKVIANCEYQEIGIRSHGKGLFYKEPIKGSDLGNK 76

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD 341
           +   ++   ++   +       ++ +A+           M      I+  YL     +  
Sbjct: 77  SVFWIEADCLIINIVFAWEQAVAITTAREKGMIASHRFPMWKSKGNIELNYLLKFFLTPF 136

Query: 342 LCKVFYAMGSGL---RQSLKFEDVKRLPVLVPP-IKEQFDITNVINVETARIDVLVEKIE 397
              +      G     ++L  ++  ++ V +P  I+EQ  I  +        D  +E  E
Sbjct: 137 GKNLLELASPGGAGRNKTLGQDEFNKILVCIPSNIEEQQKIVKIFTTW----DKAIELKE 192

Query: 398 QSIVLLKERRSSFIAAAVTGQIDL 421
           + I+  K ++   +   +TG+  L
Sbjct: 193 KLILEKKNQKKWLMQNLLTGKKRL 216



 Score = 37.5 bits (85), Expect = 4.1,   Method: Composition-based stats.
 Identities = 20/189 (10%), Positives = 55/189 (29%), Gaps = 4/189 (2%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           P  W +  +    +       +   +  Y  +     G G +  +          +V   
Sbjct: 23  PNDWVIAKLGNLLERVRMPV-KVIANCEYQEIGIRSHGKGLFYKEPIKGSDLGNKSVFWI 81

Query: 82  AKGQILYGKLGPYLRKAII---ADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
               ++   +  + +   I    +   I S +F + + K  +              + + 
Sbjct: 82  EADCLIINIVFAWEQAVAITTAREKGMIASHRFPMWKSKGNIELNYLLKFFLTPFGKNLL 141

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
            +            G       +  +   +  ++KI+      D  I  + + I   K +
Sbjct: 142 ELASPGGAGRNKTLGQDEFNKILVCIPSNIEEQQKIVKIFTTWDKAIELKEKLILEKKNQ 201

Query: 199 KQALVSYIV 207
           K+ L+  ++
Sbjct: 202 KKWLMQNLL 210


>gi|332292348|ref|YP_004430957.1| restriction modification system DNA specificity domain protein
           [Krokinobacter diaphorus 4H-3-7-5]
 gi|332170434|gb|AEE19689.1| restriction modification system DNA specificity domain protein
           [Krokinobacter diaphorus 4H-3-7-5]
          Length = 465

 Score = 71.7 bits (174), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 56/391 (14%), Positives = 110/391 (28%), Gaps = 22/391 (5%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
                         ++G            +  G Y     ++  S    V    +  +++
Sbjct: 5   KFDELFDFAKKSKIKAGDG----------NKEGLYPFYTSSAILSKRIDVFQEERVSLIF 54

Query: 89  GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP-ELLQGWLLSIDVTQRIEAICEGATMS 147
           G  G     A   D     ST  +V   K+         +         +E   +GA + 
Sbjct: 55  GTGG--KASAHYVDEQFSTSTDCIVAYKKEDKDLNEKFVFYYLFGNIHILERGFKGAGLK 112

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
           H   K I N+ +PI P+  Q  I   +   +  +           ELL+ +   +     
Sbjct: 113 HISKKYIQNLDIPILPIETQNKIVALLDKASALVQKREESIALLDELLRAQFLKMFGKAN 172

Query: 208 TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK 267
            +          S +       +     PF + +          +    +  +  N  + 
Sbjct: 173 PQFSVWADVQIKSLVL---DRKNSMRTGPFGSNLKHSEFVEDGPVAVLGIDNAVKNTFEW 229

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
            E R +  +         V P +++   +        +             A +++ P  
Sbjct: 230 KERRFITNEKYEELKRYTVFPRDVIITIMGTVGRSAVIPENIPTAINTKHLACLSLDPKK 289

Query: 328 IDSTYLAWLMRSYDLCKVFYAM--GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
            +  YLA+ + S               +   L    +K L +   PI+ Q          
Sbjct: 290 CNPYYLAYSIHSNPYLSFQMKAREKGAIMAGLNLTIIKDLKLKDVPIELQNKF----EDI 345

Query: 386 TARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
              I V  E + QS   L    +S +  A +
Sbjct: 346 YHNIQVQKETLTQSKNELDNLYNSLLQRAFS 376



 Score = 37.9 bits (86), Expect = 3.3,   Method: Composition-based stats.
 Identities = 24/174 (13%), Positives = 58/174 (33%), Gaps = 10/174 (5%)

Query: 45  GKDIIYIGLEDVESGTGKYLPKD-GNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADF 103
              +  +G+++    T ++  +    + + +           ++   +G   R A+I + 
Sbjct: 211 DGPVAVLGIDNAVKNTFEWKERRFITNEKYEELKRYTVFPRDVIITIMGTVGRSAVIPEN 270

Query: 104 DGIC----STQFLVLQPKDVLPEL-LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIP 158
                       L L PK   P         +  ++ +++A  +GA M+  +   I ++ 
Sbjct: 271 IPTAINTKHLACLSLDPKKCNPYYLAYSIHSNPYLSFQMKAREKGAIMAGLNLTIIKDLK 330

Query: 159 MPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLN 212
           +   P+  Q     K       I        +    L     +L+    ++ LN
Sbjct: 331 LKDVPIELQ----NKFEDIYHNIQVQKETLTQSKNELDNLYNSLLQRAFSEQLN 380


>gi|307067138|ref|YP_003876104.1| restriction endonuclease S subunit [Streptococcus pneumoniae AP200]
 gi|306408675|gb|ADM84102.1| Restriction endonuclease S subunit [Streptococcus pneumoniae AP200]
          Length = 240

 Score = 71.7 bits (174), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 30/185 (16%), Positives = 67/185 (36%), Gaps = 14/185 (7%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL------- 275
           E    +P+ WE      + + + R  +    +  +         +    ++ L       
Sbjct: 56  EVPCEIPESWEWVRLNDITSYIQRGKSPKYSNIPIYPVIAQKCNQWSGFSIDLARFIDPE 115

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKR-SLRSAQVMERGIITSA----YMAVKPHGIDS 330
              SY+  +++  G++++    L    R ++        G   +      + V    I+ 
Sbjct: 116 TVHSYQKERLLRDGDLMWNSTGLGTLGRLAIYHENKNPYGWAVADSHVTVIRVLSGVINC 175

Query: 331 TYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
            ++   + S  +  V     SG   ++ L  + +K   + +PP+ EQ  I + I    A 
Sbjct: 176 HFIYNFLSSPIVQSVIEEKASGSTKQKELLTKTIKEYLIPLPPLPEQSRIVDKIEQFFAH 235

Query: 389 IDVLV 393
           ID L+
Sbjct: 236 IDALI 240



 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 29/181 (16%), Positives = 50/181 (27%), Gaps = 15/181 (8%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT-----GKYLPKDGNSRQSD 74
            IP+ W+ V +   T       S    +I    +   +                      
Sbjct: 60  EIPESWEWVRLNDITSYIQRGKSPKYSNIPIYPVIAQKCNQWSGFSIDLARFIDPETVHS 119

Query: 75  TSTVSIFAKGQILYGKL--GPYLRKAIIADF-----DGICSTQFLVLQPKDVLPELLQGW 127
                +   G +++     G   R AI  +        +  +   V++    +      +
Sbjct: 120 YQKERLLRDGDLMWNSTGLGTLGRLAIYHENKNPYGWAVADSHVTVIRVLSGVINCHFIY 179

Query: 128 LLSIDVTQR---IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
                   +    E             K I    +P+PPL EQ  I +KI      ID L
Sbjct: 180 NFLSSPIVQSVIEEKASGSTKQKELLTKTIKEYLIPLPPLPEQSRIVDKIEQFFAHIDAL 239

Query: 185 I 185
           I
Sbjct: 240 I 240


>gi|294155918|ref|YP_003560302.1| type I restriction-modification system, specificity protein
           [Mycoplasma crocodyli MP145]
 gi|291600326|gb|ADE19822.1| type I restriction-modification system, specificity protein
           [Mycoplasma crocodyli MP145]
          Length = 417

 Score = 71.7 bits (174), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 50/394 (12%), Positives = 118/394 (29%), Gaps = 22/394 (5%)

Query: 26  KVVPIKRFTKL-NTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQ----SDTSTVSI 80
            +  +   T      +  +  K    I    +E+ T K L  +G   +       S  + 
Sbjct: 16  NIKKLWEVTYWDKKFKNIDKSKQPKTIKYRYLEASTLKDLIVEGGDVKILSTGKFSAYTT 75

Query: 81  FAK-GQIL-----YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
             K G  L         G         +     +   ++      +      +     + 
Sbjct: 76  KEKAGDFLAYGEVVSIPGGGSAIIKYTNGYFCTTDNRIMTSRNKDILNNKFLYFYLKLIN 135

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           Q +E    GA++ H + + I ++ +PIP +  Q  I E +         L  E    +  
Sbjct: 136 QDVENTYRGASIKHPEMRRILDLKIPIPQIEIQNKIVEILDKFEELEAELTAELTAELTA 195

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
             ++       ++          KD  ++ +  V    +         +      + +E+
Sbjct: 196 RYKQYNYYKQLLLDF-----SNRKDVEVKKLWEVTYWDKKFKNIDKSKQPKTIKYRYLEA 250

Query: 255 NILS--LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
           + L   +  G  ++ L T          +    +  GE+V     +     ++       
Sbjct: 251 STLKDLIVEGGDVKILSTGKFSAYTTKEKAGDFLAYGEVV----SIPGGGSAIIKYTNGY 306

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI 372
                +  M  +   I +    +         V  A      +    + +    + +P I
Sbjct: 307 FCTTDNRIMTSRNKDILNNKFLYFYLKLINKDVGNAYRGAGIKHPDMKTILEFKIPIPSI 366

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
           +EQ  I  +++      + + E +   + L K++
Sbjct: 367 EEQNKIVEILDKFEIYSNSINEGLPLELELRKKQ 400


>gi|253569551|ref|ZP_04846961.1| LOW QUALITY PROTEIN: conserved hypothetical protein [Bacteroides
           sp. 1_1_6]
 gi|251841570|gb|EES69651.1| LOW QUALITY PROTEIN: conserved hypothetical protein [Bacteroides
           sp. 1_1_6]
          Length = 326

 Score = 71.7 bits (174), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 56/349 (16%), Positives = 110/349 (31%), Gaps = 38/349 (10%)

Query: 51  IGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQ 110
           +GLE +     K+   D ++  + T     F KGQIL+G+   YL+KA IADFDGICS  
Sbjct: 1   VGLEHLIPQEIKFSGYDVDTENTFT---KTFKKGQILFGRRRAYLKKAAIADFDGICSGD 57

Query: 111 FLVL--QPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQV 168
             V+   P  V P LL   + +        +   G       W+ + +    +PP+ EQ 
Sbjct: 58  ITVIEAIPGKVDPLLLPFIIQNDKFFDYAVSRSAGGLSPRVKWEHLKDYEFDLPPIEEQR 117

Query: 169 LIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLV 228
           ++ +K+ A                          +     K L    +M  S    +   
Sbjct: 118 ILADKLWAAYR-----------------------LKESYKKLLTATQEMVKSQFIEIFYG 154

Query: 229 PDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIV-- 286
            +   VK +                + +  +   N     +     +   S E  ++V  
Sbjct: 155 METTPVKDYIDDSFPGEWGTEDKDGNGVKVIRTTNFTNSGKLNLADVVTRSIEDRKVVRK 214

Query: 287 --DPGEIVFRFIDLQ--NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY----LAWLMR 338
                + +         N    +   +     +  +    ++   +D  +    L +  +
Sbjct: 215 QIKKYDTILERSGGTADNPVGRVVLFEEDNLFLCNNFTQVLRFKDVDPRFAFYALYYFYQ 274

Query: 339 SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           +           +   Q+L       + +     ++Q     +      
Sbjct: 275 TNRTAIRSMGSKTTGIQNLNMSKYLEIGIPNASDEDQKAFVTIAEQADK 323



 Score = 54.0 bits (128), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 27/143 (18%), Positives = 55/143 (38%), Gaps = 8/143 (5%)

Query: 269 ETRNMGLKPESYETYQI-VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
           E +  G   ++  T+      G+I+F        K ++     +  G IT   +   P  
Sbjct: 10  EIKFSGYDVDTENTFTKTFKKGQILFGRRRAYLKKAAIADFDGICSGDIT--VIEAIPGK 67

Query: 328 IDSTYLAWLMRSYDLCKV-FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
           +D   L +++++             GL   +K+E +K     +PPI+EQ  + + +    
Sbjct: 68  VDPLLLPFIIQNDKFFDYAVSRSAGGLSPRVKWEHLKDYEFDLPPIEEQRILADKLWAAY 127

Query: 387 ARIDVLVEKIEQSIVLLKERRSS 409
                L E  ++ +   +E   S
Sbjct: 128 ----RLKESYKKLLTATQEMVKS 146


>gi|157164035|ref|YP_001466968.1| type I restriction modification DNA specificity domain-containing
           protein [Campylobacter concisus 13826]
 gi|112800945|gb|EAT98289.1| type I restriction enzyme [Campylobacter concisus 13826]
          Length = 382

 Score = 71.7 bits (174), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 45/383 (11%), Positives = 103/383 (26%), Gaps = 36/383 (9%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           P+  K   +    K     T +    +            G Y   + +            
Sbjct: 13  PEGVKFDELGVICKSLAKGTLKQEDLV----------DKGAYPVVNSSRDYYGFYDKYNN 62

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP--ELLQGWLLSIDVTQRIEA 139
                     G Y       D              KD          + L     + ++ 
Sbjct: 63  EANAFTIASRGEYAGFVKFIDCKFWAGGLCYPYASKDEDYVLTKFIFYFLKSIEKKNMDI 122

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
           +    ++   +      + +P+PP+  Q  I   + + T   +          EL   KK
Sbjct: 123 LVARGSIPALNKSDFDKVKIPVPPMEVQREIARIMDSFTSLTEE--LMAKLTEELTARKK 180

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
           Q           +   K     ++ +G +          A       K +K  +      
Sbjct: 181 QYEFYRDFLLSFDELDKNGGCELKTLGEI------CDLIAGRDISKDKVSKEKDIKFKFP 234

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
            Y N I          +P        V    +               + ++     I   
Sbjct: 235 IYSNGIGDNALYGFTDEP-------RVMKQCVTISARGT----IGYCALRLDPFYPIVRL 283

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
             A+    I + +L + + +  +     ++ +     L    V ++ + VP ++ Q  + 
Sbjct: 284 ICAIPKSNITAQFLKYFLDTQKI-----SVPTSGIPQLTIPMVAKIKIPVPSLQTQQKVV 338

Query: 380 NVINVETARIDVLVEKIEQSIVL 402
           ++++     ++ + E + + I L
Sbjct: 339 DILDKFDTLVNSITEGLPREIEL 361



 Score = 69.4 bits (168), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 17/145 (11%), Positives = 51/145 (35%), Gaps = 5/145 (3%)

Query: 272 NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST 331
           N       +      +                     +    G+    Y +     + + 
Sbjct: 48  NSSRDYYGFYDKYNNEANAFTIASRGEYAGFVKFIDCKFWAGGLCYP-YASKDEDYVLTK 106

Query: 332 YLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
           ++ + ++S +   +   +  G   +L   D  ++ + VPP++ Q +I  +++  T+  + 
Sbjct: 107 FIFYFLKSIEKKNMDILVARGSIPALNKSDFDKVKIPVPPMEVQREIARIMDSFTSLTEE 166

Query: 392 LVEKIEQSIVLLKE----RRSSFIA 412
           L+ K+ + +   K+     R   ++
Sbjct: 167 LMAKLTEELTARKKQYEFYRDFLLS 191


>gi|260887977|ref|ZP_05899240.1| type I restriction enzyme EcoR124II specificity protein
           [Selenomonas sputigena ATCC 35185]
 gi|260862228|gb|EEX76728.1| type I restriction enzyme EcoR124II specificity protein
           [Selenomonas sputigena ATCC 35185]
          Length = 124

 Score = 71.7 bits (174), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 17/122 (13%), Positives = 42/122 (34%), Gaps = 8/122 (6%)

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR 354
                  K ++    +       +  + +     +  Y+   + S    K   A G G +
Sbjct: 1   MYGATAAKVAINRIPLTTNQACCN--LKINEEMAEHRYVYHWLCSQY--KTLKAKGQGSQ 56

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSF 410
            ++    +++ P+ VPP+  Q  I ++++      + L   +   I   K+     R   
Sbjct: 57  SNINKNIIEKYPIPVPPLDVQQKIVSILDRFDTLCNDLTSGLPAEIAARKKQYEHYRDRL 116

Query: 411 IA 412
           + 
Sbjct: 117 LT 118


>gi|218283420|ref|ZP_03489439.1| hypothetical protein EUBIFOR_02028 [Eubacterium biforme DSM 3989]
 gi|218215893|gb|EEC89431.1| hypothetical protein EUBIFOR_02028 [Eubacterium biforme DSM 3989]
          Length = 201

 Score = 71.7 bits (174), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 29/178 (16%), Positives = 61/178 (34%), Gaps = 8/178 (4%)

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFI 296
                     K + L++S       G +I                      PG++V+  I
Sbjct: 28  MQRPFVWATSKVSDLMDSLYKGYPVGYLIIWKNPDVKLKNGTLSSGKFRFRPGDVVYGKI 87

Query: 297 DLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQ 355
           + Q  K    S   +       AY+    +GI   +L  L+++ D  K   ++       
Sbjct: 88  NPQLGKYFYASVDGLTSA---DAYVFNGKNGISQKFLFSLLQTADFFKYSVSVSKRSGMP 144

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            +  +++     L P  +EQ  I + +      +D L+   ++ +  L+  + S +  
Sbjct: 145 KINRDELNAYSFLAPNAEEQNKIGDFL----LELDHLITLHQRELKKLQNIKKSMLEK 198



 Score = 42.9 bits (99), Expect = 0.089,   Method: Composition-based stats.
 Identities = 35/199 (17%), Positives = 65/199 (32%), Gaps = 23/199 (11%)

Query: 15  VQWI--GAI-------PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLP 65
           + WI  G I       P  W    +          +   G  + Y+    +         
Sbjct: 15  ISWINSGEIAIPEMQRPFVWATSKVSDLMD-----SLYKGYPVGYL----IIWKNPDVKL 65

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELL- 124
           K+G      +S    F  G ++YGK+ P L K   A  DG+ S    V   K+ + +   
Sbjct: 66  KNGTL----SSGKFRFRPGDVVYGKINPQLGKYFYASVDGLTSADAYVFNGKNGISQKFL 121

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
              L + D  +   ++ + + M   +   +       P   EQ  I + ++     I   
Sbjct: 122 FSLLQTADFFKYSVSVSKRSGMPKINRDELNAYSFLAPNAEEQNKIGDFLLELDHLITLH 181

Query: 185 ITERIRFIELLKEKKQALV 203
             E  +   + K   + + 
Sbjct: 182 QRELKKLQNIKKSMLEKMF 200


>gi|325973137|ref|YP_004250201.1| type I restriction-modification system specificity subunit
           [Mycoplasma suis str. Illinois]
 gi|323651739|gb|ADX97821.1| type I restriction-modification system specificity subunit
           [Mycoplasma suis str. Illinois]
          Length = 295

 Score = 71.7 bits (174), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 19/142 (13%), Positives = 48/142 (33%), Gaps = 10/142 (7%)

Query: 272 NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY-MAVKPHGIDS 330
           N           ++     +            +L      E  + +  Y           
Sbjct: 56  NRNYNFYGLLQSKLFPKNTVCVVETGSLVTDSALLKF---EACLSSDLYGFIPFSKISTP 112

Query: 331 TYLAWLMRSYDLCKVFYAMGS--GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
           T++ + + +    +    + S    +  L    + ++    PP++ Q  I  ++    +R
Sbjct: 113 TFIKYCLDAPKNKRKLKNLASLYITQPHLTLSKLFQVKFPKPPLEIQQKIGEIL----SR 168

Query: 389 IDVLVEKIEQSIVLLKERRSSF 410
            D++++  E+ I LLK  ++S 
Sbjct: 169 YDLILDNHERQIELLKNLKASL 190



 Score = 47.5 bits (111), Expect = 0.004,   Method: Composition-based stats.
 Identities = 38/280 (13%), Positives = 73/280 (26%), Gaps = 20/280 (7%)

Query: 25  WKVVPIKRFTKLNTGRTSESGK---------DIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           W++V + +  +++ G                 +  IG ++V       L  + N      
Sbjct: 5   WELVTLDKLGRISKGIQKHKPNHDKKLFCFGKVPLIGCKEVSDSRLTVLKSNRNYNFYGL 64

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL---SID 132
               +F K  +   + G  +  + +  F+   S+      P   +              +
Sbjct: 65  LQSKLFPKNTVCVVETGSLVTDSALLKFEACLSSDLYGFIPFSKISTPTFIKYCLDAPKN 124

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
             +         T  H     +  +  P PPL  Q  I E +    + +D    +     
Sbjct: 125 KRKLKNLASLYITQPHLTLSKLFQVKFPKPPLEIQQKIGEILSRYDLILDNHERQIELLK 184

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
            L      +L      K   PD +   S       +P+ W    F  L      K     
Sbjct: 185 NLKA----SLFKEWFIKLRFPDYEKYSSE----NGIPEGWRKIRFGDLTEIQIGKKPASH 236

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIV 292
              +  L                         +V  G  +
Sbjct: 237 SELLDGLGKYPFFTCSTKTKNSYTFSYDFPSLLVSAGGAI 276



 Score = 37.9 bits (86), Expect = 3.7,   Method: Composition-based stats.
 Identities = 9/47 (19%), Positives = 20/47 (42%), Gaps = 5/47 (10%)

Query: 3   HYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDII 49
            +  Y +Y  S       IP+ W+ +     T++  G+   S  +++
Sbjct: 199 RFPDYEKY-SSE----NGIPEGWRKIRFGDLTEIQIGKKPASHSELL 240


>gi|268610088|ref|ZP_06143815.1| hypothetical protein RflaF_11404 [Ruminococcus flavefaciens FD-1]
          Length = 385

 Score = 71.7 bits (174), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 51/397 (12%), Positives = 119/397 (29%), Gaps = 35/397 (8%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
                 +  + + +E    +  I    +E G    +P   N +Q+  +   I      +Y
Sbjct: 6   KFSELIEEISEQNTELKYGLDDIVGVTIEKG---LIPTIANLQQTALNKFYIVKPDTFVY 62

Query: 89  G------KLGPYLRKAIIADFDGICSTQFLVLQ--PKDVLPELLQGWLLSIDVTQRIEAI 140
                  +LG    K          +  F V     + + PE L  +    +  +     
Sbjct: 63  NPRTHGVRLGMGFNKTNYTYITSWNNIAFKVKDDALRILNPEYLWLYFNRSEWDRETNYH 122

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
             G++     W    N+ + IP  + Q    + ++ +   I   I  + R  + L+    
Sbjct: 123 AWGSSTIVFSWNTFLNLEIQIPEKSYQ----DNLVRQYNAIKRRIALKQRINDNLEATLM 178

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
            +    V           +S I     +    +           +  N+     ++  + 
Sbjct: 179 TVYKDKVAD---------NSEITTTSPLGSLCKQITDGKHGDCESEDNSGYFFVSVKDII 229

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
            G I  K   +              ++ G+I+F           + S+          + 
Sbjct: 230 NGCIEYKNARQITRADFSDANKRTNLEVGDILFTNSGTLGRMALITSSYYANITTFQKSV 289

Query: 321 MAVKPH-GIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
             +KP     S+   +L  SY+  K+        +++L   D++   +  P         
Sbjct: 290 AILKPDTKKISSIFMYLSLSYNKSKIIEFAHGSAQKNLLLSDIRGFEIKYPS-------A 342

Query: 380 NV---INVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
                I+     +   ++   + ++ L+E     ++ 
Sbjct: 343 EYRNGIDDLIKPLFERIQNNNEELIKLRELSRILLSQ 379


>gi|60681333|ref|YP_211477.1| putative type IC restriction-modification system specificity
           subunit, partial [Bacteroides fragilis NCTC 9343]
 gi|60492767|emb|CAH07541.1| putative type IC restriction-modification system specificity
           subunit, partial [Bacteroides fragilis NCTC 9343]
          Length = 376

 Score = 71.7 bits (174), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 18/150 (12%), Positives = 48/150 (32%), Gaps = 4/150 (2%)

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
           Y     ++            +        +++           S       +  ++    
Sbjct: 46  YTTYKSEVINDVQSKTDIDAKNLVRSKENDVIIPSSGETAIDISTARCVPYDDVLLGGDL 105

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
             ++ +  D  +L++ +       +           L  E +K L V +P +KEQ  I +
Sbjct: 106 NIIRLYQNDGRFLSYQLNGVRKLDIARVAQGSSVIHLYGESIKSLSVSLPALKEQQKIVS 165

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSF 410
           ++    + ID  +    + I   K+ +++ 
Sbjct: 166 LL----SLIDERIATQNKIIEEYKKLKNAL 191



 Score = 48.6 bits (114), Expect = 0.002,   Method: Composition-based stats.
 Identities = 51/399 (12%), Positives = 112/399 (28%), Gaps = 43/399 (10%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESG------TGKYLPKDGNSRQSDTST 77
            WK   I+   ++  G      +  ++ G   +  G        + +    +    D   
Sbjct: 9   EWKKYFIRDIAEVTKGAGISKEQRSLF-GTPCILYGELYTTYKSEVINDVQSKTDIDAKN 67

Query: 78  VSIFAKGQILYGKLGPY---LRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
           +    +  ++    G     +  A    +D +     L +            + L+    
Sbjct: 68  LVRSKENDVIIPSSGETAIDISTARCVPYDDVLLGGDLNIIRLYQNDGRFLSYQLNGVRK 127

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             I  + +G+++ H   + I ++ + +P L EQ  I   +      ID  I  + + IE 
Sbjct: 128 LDIARVAQGSSVIHLYGESIKSLSVSLPALKEQQKIVSLL----SLIDERIATQNKIIEE 183

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
            K+ K AL               K      +G + D    +   ++     +    L   
Sbjct: 184 YKKLKNALAELFFA---------KSIEYTSIGEMCDVVMGQSPSSVAYNYTKNGLPL--- 231

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
                     IQ       G+      T  I    +     I L         A+     
Sbjct: 232 ----------IQGNLDIFEGVTSPRMWTSDITKQCD--IGDIILTVRAPVGDVAKSNMIA 279

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKE 374
            +     A+K      +   +    Y   K           ++   D+  + + V     
Sbjct: 280 CVGRGVCAIKVKESGCSEYVYQYLLYFKAKWGSIEQGSTFSAISRNDILNINIPVITK-- 337

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
              I    +   A  D  +     ++ +  +++   +  
Sbjct: 338 -RLIVA--SHLLALFDSEISIEALNLNVYTKQKQYLLTK 373


>gi|298484558|ref|ZP_07002686.1| type I restriction enzyme EcoEI specificity protein [Bacteroides
           sp. D22]
 gi|298269286|gb|EFI10919.1| type I restriction enzyme EcoEI specificity protein [Bacteroides
           sp. D22]
          Length = 167

 Score = 71.7 bits (174), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 26/169 (15%), Positives = 63/169 (37%), Gaps = 8/169 (4%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ-KLETRNMGLKPESYETYQI 285
            +P  W       +    N +  K  +     L    I      + +    P++YE+  +
Sbjct: 2   QLPKGWTTIKVGDVAIYTNGRAFKPEDWMHEGLPIIRIQNLNDNSASYNRTPKTYESKYL 61

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI-DSTYLAWLMRSYDLCK 344
           +  G+++F +                 +  +      V P+      YL  + ++     
Sbjct: 62  IHNGDLLFAWAASLGTYI-----WNGGKAWLNQHIFKVDPYPFAQKQYLYHVFKAMITEF 116

Query: 345 VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
              + GSG+   +  +  + + +L+PP++EQ  I   +   + ++DV++
Sbjct: 117 YTQSHGSGMV-HITKKQFENIKLLLPPLEEQKRIVQTLEQISTKLDVIM 164



 Score = 61.3 bits (147), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 27/163 (16%), Positives = 53/163 (32%), Gaps = 3/163 (1%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +PK W  + +        GR  +  +D ++ GL  +            N       +  
Sbjct: 2   QLPKGWTTIKVGDVAIYTNGRAFKP-EDWMHEGLPIIRIQNLNDNSASYNRTPKTYESKY 60

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           +   G +L+      L   I        +     + P     +    + +   +      
Sbjct: 61  LIHNGDLLFA-WAASLGTYIWNGGKAWLNQHIFKVDP-YPFAQKQYLYHVFKAMITEFYT 118

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
              G+ M H   K   NI + +PPL EQ  I + +   + ++D
Sbjct: 119 QSHGSGMVHITKKQFENIKLLLPPLEEQKRIVQTLEQISTKLD 161


>gi|294339299|emb|CAZ87655.1| Putative Restriction modification system protein [Thiomonas sp.
           3As]
          Length = 407

 Score = 71.7 bits (174), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 60/425 (14%), Positives = 124/425 (29%), Gaps = 54/425 (12%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
             W+   +  F +L  G             L  +E   G                     
Sbjct: 3   SDWRQSNLGEFVRLQRGHD-----------LTSLEQRPGNVPVMGSAGPNGTHDVARATG 51

Query: 83  KGQILYGKLGPYLRKAIIAD-FDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            G ++ G+ G  + +   +       +T   V       P      L ++D+        
Sbjct: 52  PG-VVIGRSGASIGRVHFSSSDYWPHNTCLYVTDFCGNNPRFAYYLLSTLDL----AKYN 106

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            G+     +   I ++P+ IP   EQ  I E +     RID L         + +   ++
Sbjct: 107 SGSAQPSLNRNFIYSMPVEIPGRREQDEIVEVLQTIDDRIDLLRQTNATLEAIAQALFKS 166

Query: 202 LVS-----YIVTKGLNPDVK------MKDSGIEW--VGLVPDHWEVKPFFALVTELNR-- 246
                       +G  P+        +  S  E   +G +P  W V    +  T LN   
Sbjct: 167 WFVDFDPVRAKAEGREPEGMDAETAALFPSEFEESELGAIPKGWRVGALDSFATYLNGLA 226

Query: 247 --KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
             K         L +     ++   T +        +   IV  G+++F +         
Sbjct: 227 LQKYPPESAEEYLPVIKIAQLRAGHTNSADKASAQLKPEYIVRDGDVLFSWSGSLE---- 282

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL--CKVFYAMGSGLRQSLKFEDV 362
                    G +      V        +  +L   + L   +   A  +     ++   +
Sbjct: 283 -VELWCGGVGALNQHLFKVTS-CKVPKWFYYLATKHFLPGFRDIAAHKATTMGHIQRRHL 340

Query: 363 KRLPVLVPPIKEQFDITNVINVETAR----IDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
               + +P +        V++  +      +D  V    Q+  L+   R S +   ++G+
Sbjct: 341 AEARLAMPAL-------AVLDELSPLMGPLLDRRVNGGLQARELV-AIRDSLLPRLISGK 392

Query: 419 IDLRG 423
           + ++ 
Sbjct: 393 LPVKE 397



 Score = 44.8 bits (104), Expect = 0.028,   Method: Composition-based stats.
 Identities = 26/147 (17%), Positives = 46/147 (31%), Gaps = 14/147 (9%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRT-----SESGKDI-IYIGLEDVESGTGK 62
           ++++S    +GAIPK W+V  +  F     G        ES ++    I +  + +G   
Sbjct: 197 EFEESE---LGAIPKGWRVGALDSFATYLNGLALQKYPPESAEEYLPVIKIAQLRAG--- 250

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPE 122
                 +   +      I   G +L+   G  L   +     G  +     +    V   
Sbjct: 251 -HTNSADKASAQLKPEYIVRDGDVLFSWSGS-LEVELWCGGVGALNQHLFKVTSCKVPKW 308

Query: 123 LLQGWLLSIDVTQRIEAICEGATMSHA 149
                        R  A  +  TM H 
Sbjct: 309 FYYLATKHFLPGFRDIAAHKATTMGHI 335


>gi|308513224|ref|YP_003933627.1| hypothetical protein HMPREF0868_1373 [Clostridiales genomosp. BVAB3
           str. UPII9-5]
 gi|307346930|gb|ADN43914.1| conserved hypothetical protein [Clostridiales genomosp. BVAB3 str.
           UPII9-5]
          Length = 165

 Score = 71.4 bits (173), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 19/163 (11%), Positives = 54/163 (33%), Gaps = 5/163 (3%)

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
                 Y +           +  +  +  ++    +IV        +     +A +    
Sbjct: 1   MHYGQMYTHFGIYATEPLKYISEDVAKKSKMAVKNDIVMAVTSENVEDVCKCTAWLGNEN 60

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ-SLKFEDVKRLPVLVPPIK 373
           I  S + A+  H  ++ YL++   +         +  G +   +    +  + + +P + 
Sbjct: 61  IAVSGHTAIIHHNQNAKYLSYYFHTAMFFAQKKRLAHGTKVIEVTPNALNDIVIPLPSLA 120

Query: 374 EQFDITNVINVETARIDVLV----EKIEQSIVLLKERRSSFIA 412
           +Q  I ++++   A  + L      +IE      +  R   ++
Sbjct: 121 DQERIVSILDRFDALCNDLSRGLPAEIEARRKQYEYYRDKLLS 163


>gi|332202400|gb|EGJ16469.1| type I restriction modification DNA specificity domain protein
           [Streptococcus pneumoniae GA41317]
          Length = 240

 Score = 71.4 bits (173), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 30/185 (16%), Positives = 67/185 (36%), Gaps = 14/185 (7%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL------- 275
           E    +P+ WE      + + + R  +    +  +         +    ++ L       
Sbjct: 56  EVPCEIPESWEWVRLNDITSYIQRGKSPKYSNISIYPVIAQKCNQWSGFSIDLARFIDPE 115

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKR-SLRSAQVMERGIITSA----YMAVKPHGIDS 330
              SY+  +++  G++++    L    R ++        G   +      + V    I+ 
Sbjct: 116 TVHSYQKERLLRDGDLMWNSTGLGTLGRLAIYHENKNPYGWAVADSHVTVIRVLSGVINC 175

Query: 331 TYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
            ++   + S  +  V     SG   ++ L  + +K   + +PP+ EQ  I + I    A 
Sbjct: 176 HFIYNFLSSPIVQSVIEEKASGSTKQKELLTKTIKEYLIPLPPLPEQSRIVDKIEQFFAH 235

Query: 389 IDVLV 393
           ID L+
Sbjct: 236 IDALI 240



 Score = 50.6 bits (119), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 31/181 (17%), Positives = 58/181 (32%), Gaps = 15/181 (8%)

Query: 20  AIPKHWKVVPIKRFTK-LNTGRTSESGKDIIYIGL-EDVESGTGKYLPKDGNSRQSDTST 77
            IP+ W+ V +   T  +  G++ +     IY  + +     +G  +            +
Sbjct: 60  EIPESWEWVRLNDITSYIQRGKSPKYSNISIYPVIAQKCNQWSGFSIDLARFIDPETVHS 119

Query: 78  VS---IFAKGQILYGKL--GPYLRKAIIADF-----DGICSTQFLVLQPKDVLPELLQGW 127
                +   G +++     G   R AI  +        +  +   V++    +      +
Sbjct: 120 YQKERLLRDGDLMWNSTGLGTLGRLAIYHENKNPYGWAVADSHVTVIRVLSGVINCHFIY 179

Query: 128 LLSIDVTQR---IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
                   +    E             K I    +P+PPL EQ  I +KI      ID L
Sbjct: 180 NFLSSPIVQSVIEEKASGSTKQKELLTKTIKEYLIPLPPLPEQSRIVDKIEQFFAHIDAL 239

Query: 185 I 185
           I
Sbjct: 240 I 240


>gi|15902489|ref|NP_358039.1| type I restriction-modification system S subunit [Streptococcus
           pneumoniae R6]
 gi|116515880|ref|YP_815958.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae D39]
 gi|15458013|gb|AAK99249.1| type I restriction enzyme [Streptococcus pneumoniae R6]
 gi|116076456|gb|ABJ54176.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae D39]
          Length = 426

 Score = 71.4 bits (173), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 29/192 (15%), Positives = 66/192 (34%), Gaps = 7/192 (3%)

Query: 232 WEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEI 291
             +K  +    +   + +             NII     + +  +       ++V    +
Sbjct: 1   MRIKSIYWNFGQNKPEKSFRYIDTSSIDRKKNIINYKNLQYLSPEQAPSRARKLVSQNSV 60

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
           +F  +       ++     ++  +I S    V    ++ TYL + + S +         +
Sbjct: 61  LFSTVRPYLKNIAVVR--ELKEYLIASTAFIVLDTLLNETYLKYYLLSDNFINRVNNKST 118

Query: 352 GLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----R 406
           G    ++   +   L + +PP+ EQ  I   I     ++D   E   +   L KE     
Sbjct: 119 GTSYPAINDYNFNLLLIALPPLSEQQRIVEAIESALEKVDEYAESYNRLEQLDKEFPDKL 178

Query: 407 RSSFIAAAVTGQ 418
           + S +  A+ G+
Sbjct: 179 KKSILQYAMQGK 190



 Score = 55.2 bits (131), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 61/416 (14%), Positives = 123/416 (29%), Gaps = 69/416 (16%)

Query: 42  SESGKDIIYIGLEDVESGTGKYLPKDG---NSRQSDTSTVSIFAKGQILYGKLGPYLRKA 98
           ++  K   YI    ++        K+    +  Q+ +    + ++  +L+  + PYL+  
Sbjct: 13  NKPEKSFRYIDTSSIDRKKNIINYKNLQYLSPEQAPSRARKLVSQNSVLFSTVRPYLKNI 72

Query: 99  IIA---DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIG 155
            +        I ST F+VL        L   +LLS +   R+     G +    +     
Sbjct: 73  AVVRELKEYLIASTAFIVLDTLLNETYLKY-YLLSDNFINRVNNKSTGTSYPAINDYNFN 131

Query: 156 NIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK----QALVSYIVTKGL 211
            + + +PPL+EQ  I E I +   ++D       R  +L KE      ++++ Y +   L
Sbjct: 132 LLLIALPPLSEQQRIVEAIESALEKVDEYAESYNRLEQLDKEFPDKLKKSILQYAMQGKL 191

Query: 212 NPDVKMKDSGIEWV---------------------------------------------- 225
                  +S    +                                              
Sbjct: 192 VEQDPNDESVEVLLEKIRAEKQKLFEEGKIKKKDLDISIVSQGDDNSYYGNKDETTSYPI 251

Query: 226 GLVPDHWEVKPFFALVTELNRKNTK-----LIESNILSLSYGNIIQKLETRN----MGLK 276
             +P+ W    F +LV     K           + I  +S  ++       N    +   
Sbjct: 252 YEIPEAWRYIKFASLVNFRIGKTPPRSEATFWGTEIPWVSISDMPISGYVTNTRESISKL 311

Query: 277 PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWL 336
               +   I   G ++  F         L         II+  +       I   YL   
Sbjct: 312 ALKSKKIDISPKGTLLMSFKLSIGKVAILDIPATHNEAIIS-IFPYANKENIIRDYLMIF 370

Query: 337 MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
           +              G  ++L    +  L + +   +E   I   +++   ++  L
Sbjct: 371 LPLISTLGDSKDAIKG--KTLNSTSISELLIPISNHEEMKRIIFKVDLLFQKVSQL 424



 Score = 47.9 bits (112), Expect = 0.003,   Method: Composition-based stats.
 Identities = 19/119 (15%), Positives = 43/119 (36%), Gaps = 8/119 (6%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDV-ESGTGKYLPKDGNS 70
           I  IP+ W+ +          G+T    +      +I ++ + D+  SG      +  + 
Sbjct: 251 IYEIPEAWRYIKFASLVNFRIGKTPPRSEATFWGTEIPWVSISDMPISGYVTNTRESISK 310

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
               +  + I  KG +L       + K  I D     +   + + P      +++ +L+
Sbjct: 311 LALKSKKIDISPKGTLLMS-FKLSIGKVAILDIPATHNEAIISIFPYANKENIIRDYLM 368


>gi|315445329|ref|YP_004078208.1| restriction endonuclease S subunit [Mycobacterium sp. Spyr1]
 gi|315263632|gb|ADU00374.1| restriction endonuclease S subunit [Mycobacterium sp. Spyr1]
          Length = 420

 Score = 71.4 bits (173), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 48/420 (11%), Positives = 114/420 (27%), Gaps = 41/420 (9%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTS---ESGKDIIYIGLEDV--ESGTGKYLPKDGNSRQSDT 75
           +P +W   P+        G        G    ++ L DV   +           S     
Sbjct: 18  LPANWDEAPLAEIGGFKNGINKGADSFGHGFPFVNLMDVFGITRIRDTTTLGLISSSEVE 77

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDG------ICSTQFLVLQPKDVL-PELLQGWL 128
                  +G +L+ +         +A          + S   L  +  D L         
Sbjct: 78  RRNYNLREGDVLFVRSSVKPSGVGLATLIARSLPDTVFSGFLLRFRSNDRLANSFKAYLF 137

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLA-EQVLIREKI---IAETVRIDTL 184
                  R+      +  ++ + + +G++ +  P    EQ  I + +         ++ L
Sbjct: 138 SDAGFRNRVIGASTVSANTNINQRTLGSLSVRFPQSRLEQESIAQALSDADLLIETLERL 197

Query: 185 ITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTEL 244
           I ++      + +++ AL S                     G       V  F +  T  
Sbjct: 198 IAKKKAIKHGMMQQQFALPSMA-------------------GECATLGSVANFMSGGTPD 238

Query: 245 NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
                    +     +      ++ T    +   +      + P       +        
Sbjct: 239 RSNAEHWSGNIPWISATTLRQVEVSTSEQHVTSRAVRAGSKMAPLGSTLMLVRGSALHSE 298

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG--LRQSLKFEDV 362
           +R++ V+          A+ P               +  ++   + S       L  + +
Sbjct: 299 IRASLVIAPVCFNQDVKALVPLPRMVPKFLTYSIHANTDRLLRLVTSAGNTAGVLDTKVL 358

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
           K   + VP    Q  + +V +  T  +      +   +  ++  +   +   +TG+  L 
Sbjct: 359 KAFELWVPRRDVQEHVVSVFDAVTTEL----ALLTAKLEKVRATKQGMMQELLTGRTRLP 414


>gi|149003722|ref|ZP_01828567.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP14-BS69]
 gi|149025495|ref|ZP_01836431.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP23-BS72]
 gi|147758284|gb|EDK65285.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP14-BS69]
 gi|147929445|gb|EDK80441.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP23-BS72]
          Length = 426

 Score = 71.4 bits (173), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 29/192 (15%), Positives = 66/192 (34%), Gaps = 7/192 (3%)

Query: 232 WEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEI 291
             +K  +    +   + +             NII     + +  +       ++V    +
Sbjct: 1   MRIKSIYWNFGQNKPEKSFRYIDTSSIDRKKNIINYKNLQYLSPEQAPSRARKLVSQNSV 60

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
           +F  +       ++     ++  +I S    V    ++ TYL + + S +         +
Sbjct: 61  LFSTVRPYLKNIAVVR--ELKEYLIASTAFIVLDTLLNETYLKYYLLSDNFINRVNNKST 118

Query: 352 GLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----R 406
           G    ++   +   L + +PP+ EQ  I   I     ++D   E   +   L KE     
Sbjct: 119 GTSYPAINDYNFNLLLIALPPLSEQQRIVEAIESALEKVDEYAESYNRLEQLDKEFPDKL 178

Query: 407 RSSFIAAAVTGQ 418
           + S +  A+ G+
Sbjct: 179 KKSILQYAMQGK 190



 Score = 57.9 bits (138), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 61/416 (14%), Positives = 124/416 (29%), Gaps = 69/416 (16%)

Query: 42  SESGKDIIYIGLEDVESGTGKYLPKDG---NSRQSDTSTVSIFAKGQILYGKLGPYLRKA 98
           ++  K   YI    ++        K+    +  Q+ +    + ++  +L+  + PYL+  
Sbjct: 13  NKPEKSFRYIDTSSIDRKKNIINYKNLQYLSPEQAPSRARKLVSQNSVLFSTVRPYLKNI 72

Query: 99  IIA---DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIG 155
            +        I ST F+VL        L   +LLS +   R+     G +    +     
Sbjct: 73  AVVRELKEYLIASTAFIVLDTLLNETYLKY-YLLSDNFINRVNNKSTGTSYPAINDYNFN 131

Query: 156 NIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK----QALVSYIVTKGL 211
            + + +PPL+EQ  I E I +   ++D       R  +L KE      ++++ Y +   L
Sbjct: 132 LLLIALPPLSEQQRIVEAIESALEKVDEYAESYNRLEQLDKEFPDKLKKSILQYAMQGKL 191

Query: 212 NPDVKMKDSGIEWV---------------------------------------------- 225
                  +S    +                                              
Sbjct: 192 VEQDPNDESVEVLLEKIRAEKQKLFEEDKIKKKDLDISIVSQGDDNSYYGNKDETTSYPI 251

Query: 226 GLVPDHWEVKPFFALVTELNRKNTK-----LIESNILSLSYGNIIQKLETRN----MGLK 276
             +P+ W    F +LV     K           + I  +S  ++       N    +   
Sbjct: 252 YEIPEAWRYIKFASLVNFRIGKTPPRSEATFWGTEIPWVSISDMPISGYVTNTRESISKL 311

Query: 277 PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWL 336
               +   I   G ++  F         L         II+  +       I   YL   
Sbjct: 312 ALKSKKIDISPKGTLLMSFKLSIGKVAILDIPATHNEAIIS-IFPYANKENIIRDYLMIF 370

Query: 337 MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
           +              G  ++L    +  L + +   +E   I + +++   ++  L
Sbjct: 371 LPLISTLGDSKDAIKG--KTLNSTSISELLIPISNHEEMKRIISKVDLLFQKVSQL 424



 Score = 47.9 bits (112), Expect = 0.003,   Method: Composition-based stats.
 Identities = 19/119 (15%), Positives = 43/119 (36%), Gaps = 8/119 (6%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDV-ESGTGKYLPKDGNS 70
           I  IP+ W+ +          G+T    +      +I ++ + D+  SG      +  + 
Sbjct: 251 IYEIPEAWRYIKFASLVNFRIGKTPPRSEATFWGTEIPWVSISDMPISGYVTNTRESISK 310

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
               +  + I  KG +L       + K  I D     +   + + P      +++ +L+
Sbjct: 311 LALKSKKIDISPKGTLLMS-FKLSIGKVAILDIPATHNEAIISIFPYANKENIIRDYLM 368


>gi|260641864|ref|ZP_05413806.2| type I restriction-modification system, S subunit [Bacteroides
           finegoldii DSM 17565]
 gi|260624415|gb|EEX47286.1| type I restriction-modification system, S subunit [Bacteroides
           finegoldii DSM 17565]
          Length = 353

 Score = 71.4 bits (173), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 64/384 (16%), Positives = 122/384 (31%), Gaps = 59/384 (15%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           K WK   IK        +   SGK I  + L+ +ES TG+ + K     ++  S  S F 
Sbjct: 16  KGWKTAKIKDVAPEMPSKEQLSGK-IWLLNLDMIESNTGRIIEKVYEDVENALSVQS-FD 73

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ--GWLLSIDVTQRIEAI 140
           +G +L+ KL PYL K +I D  G+ +T+ + L+P+      +     L           I
Sbjct: 74  EGNVLFSKLRPYLNKVVIPDEPGMATTELVPLRPEPSKLHKVFLSHLLRGNQFVNYANDI 133

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
             G  M       + N    +PP+ +Q+                                
Sbjct: 134 AGGTKMPRMPLTELRNFDCILPPMDKQLEFVFIAEQVDK--------------------- 172

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
                      +     K   IE  G +           +            E       
Sbjct: 173 -----------SKFGDFKSQFIEMFGGLCQDTPWSDVVTITNGKAYPEEYQEEGAYPICG 221

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
            G I+   E +             + +    +       N+   + S   +     +   
Sbjct: 222 SGGIMCYGEKK-------------LCNGNTTILGRKGNINNPIFMESGYWIVDTAFS--- 265

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
           + V    +   +  +    YD  K+      G+  SL  +D++++ + +P +++Q    +
Sbjct: 266 IDVDKAKLHPKFFYYWCCQYDFTKLNK---QGVLPSLTRKDLEKVKMAIPQMRDQLKFVS 322

Query: 381 VINVETARIDVLVEKIEQSIVLLK 404
           +        D     I++++V L 
Sbjct: 323 IAEQA----DKSKSVIQKALVYLN 342



 Score = 47.5 bits (111), Expect = 0.004,   Method: Composition-based stats.
 Identities = 22/171 (12%), Positives = 53/171 (30%), Gaps = 6/171 (3%)

Query: 221 GIEWVGLV---PDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKP 277
            IE  G        W+      +  E+  K     +  +L+L             +    
Sbjct: 4   FIEMFGNPVTNTKGWKTAKIKDVAPEMPSKEQLSGKIWLLNLDMIESNTGRIIEKVYEDV 63

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
           E+  + Q  D G ++F  +    +K  +               +  +P  +   +L+ L+
Sbjct: 64  ENALSVQSFDEGNVLFSKLRPYLNKVVIP--DEPGMATTELVPLRPEPSKLHKVFLSHLL 121

Query: 338 RSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           R          +  G     +   +++    ++PP+ +Q +   +      
Sbjct: 122 RGNQFVNYANDIAGGTKMPRMPLTELRNFDCILPPMDKQLEFVFIAEQVDK 172


>gi|331007826|ref|ZP_08330929.1| Type I restriction-modification system, specificity subunit S
           [gamma proteobacterium IMCC1989]
 gi|330418368|gb|EGG92931.1| Type I restriction-modification system, specificity subunit S
           [gamma proteobacterium IMCC1989]
          Length = 604

 Score = 71.4 bits (173), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 28/204 (13%), Positives = 64/204 (31%), Gaps = 9/204 (4%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI---IQKLETRNMGLK 276
           S  E    + ++  V      + E+  +N    +  +  +    I         + +   
Sbjct: 102 SDEEKPFKLLNNGWVWTQLGEIAEIAPRNALDDDMEVGFVPMPRITTSYDGSHEQEVRPW 161

Query: 277 PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS----AYMAVKPHGIDSTY 332
               + Y     G+I    I    +       + ++ G                 ++  Y
Sbjct: 162 GTIKKGYTHFSNGDIALAKITPCFENSKAAVFRGLKNGYGAGTTELHIARPIQDTVNPLY 221

Query: 333 LAWLMRSYDL--CKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
           +   +++            GS  ++ +        P+ +PP+KEQ  I   +N      D
Sbjct: 222 ILLYLKAPMFLEKGKSKMTGSAGQKRIPNSYFSGNPLPLPPLKEQHRIVTKVNELMTLCD 281

Query: 391 VLVEKIEQSIVLLKERRSSFIAAA 414
            L ++ E SI   +    + ++A 
Sbjct: 282 QLEQQQETSITAHQTLVETLLSAL 305



 Score = 70.6 bits (171), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 58/479 (12%), Positives = 121/479 (25%), Gaps = 98/479 (20%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
             W    +    ++      +   ++ ++ +  + +       ++     +     + F+
Sbjct: 113 NGWVWTQLGEIAEIAPRNALDDDMEVGFVPMPRITTSYDGSHEQEVRPWGTIKKGYTHFS 172

Query: 83  KGQILY--------GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV- 133
            G I                 R        G             V P  +  +L +    
Sbjct: 173 NGDIALAKITPCFENSKAAVFRGLKNGYGAGTTELHIARPIQDTVNPLYILLYLKAPMFL 232

Query: 134 -------------TQRIEAICEGATMSHADWKGIGNIPMPIPPLA--------------- 165
                         +   +   G  +     K    I   +  L                
Sbjct: 233 EKGKSKMTGSAGQKRIPNSYFSGNPLPLPPLKEQHRIVTKVNELMTLCDQLEQQQETSIT 292

Query: 166 -EQVLIREKIIAETV------------RIDTLITERIRFIELLKEKKQALVSYIVTKGLN 212
             Q L+   + A T             RI             + + K++++   V   L 
Sbjct: 293 AHQTLVETLLSALTNSADNKCFEQAWTRIAENFDTLFTTEHSIDQLKKSILQLAVMGKLV 352

Query: 213 PD---------------------------VKMKDSGIEWVGLVPDHWEVKPFFALVT--- 242
           P                             K K  G      +P        +  +    
Sbjct: 353 PQDSSNEPAEILLQNIAKEKEYLIENKKIRKAKLRGATIEYELPFEVSGNSIWTTIDKIS 412

Query: 243 ---------ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDP----- 288
                    E      + ++  +  L+   I      R+  +K  S E +  +       
Sbjct: 413 LRVIDGNYGESYPTKNEFLDEGVPFLTSAAIGLSGNIRHDKVKYISKEKHAELRKAQSST 472

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAY--MAVKPHGIDSTYLAWLMRSYDLCKVF 346
            +I+      +     L    + +   I      +      +D  YL   M++    K  
Sbjct: 473 NDILLTNRGARAGAVGLLEDAIYKDCNIGPQLTSIRCLDQYVDPNYLLIYMQTNVFIKFL 532

Query: 347 YAMGSGLRQS-LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ-SIVLL 403
               SG   + +       LPV++ P+KEQ  I + +    +  D+L E+I+   I  L
Sbjct: 533 NEANSGSAMNFVNLAKTVALPVVLHPLKEQKRIVSKVGDLFSLCDLLKEQIKNSQISQL 591


>gi|323698909|ref|ZP_08110821.1| restriction modification system DNA specificity domain
           [Desulfovibrio sp. ND132]
 gi|323458841|gb|EGB14706.1| restriction modification system DNA specificity domain
           [Desulfovibrio desulfuricans ND132]
          Length = 532

 Score = 71.4 bits (173), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 60/407 (14%), Positives = 130/407 (31%), Gaps = 29/407 (7%)

Query: 25  WKVVPIKRFTKLN-TGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           W    +      + T R  +    I+ I + D      +   K   SR  DT+   I  +
Sbjct: 3   WGFRTLDALLDKSGTDRAGKQDLPILSITMSDGLVDQSEKFKKRVASR--DTTKYRIAHR 60

Query: 84  GQILYG-KLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQG---WLLSIDVTQRIEA 139
            +++ G  +   +         GI S  + + + K      +     +L S    Q   +
Sbjct: 61  NELVVGFPIDEGVLGFQTKYPAGIVSPAYDIWKLKSPNDTFIPYLERYLRSNQARQIYAS 120

Query: 140 ICEGA--TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
             +GA              + +P P   +Q  I   +      I        +  +L   
Sbjct: 121 KMKGAVARRRSLSKVDFLGLEIPFPSFDDQKRIAHLLGKVEGLIARRKQHLQQLDDL--- 177

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
               L S  +    +P         E +G +             +   R + K       
Sbjct: 178 ----LKSVFLKMFGDPVRNEMGWETELLGEL-----ATIERGRFSPRPRNDPKFYNGAYP 228

Query: 258 SLSYGNIIQ---KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
            +  G+I +   +L      L     +  +  D G IV   +     + ++         
Sbjct: 229 FIQTGDISRSNGRLREYTQTLNELGIKVSKKFDVGTIVIAIVGATIGETAILQIPTYAPD 288

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKE 374
            +            +S ++ +L+R +    +        R ++  E ++ LPV+ P  K+
Sbjct: 289 SVIGITPKSATKETESVFIEFLLRFWKPV-LRARAPEAARANINIETLRPLPVICPLDKD 347

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           +     ++     +++ L  + +QS+  ++    +    A  G++DL
Sbjct: 348 RERFATIVE----KVEDLKSRYQQSLADMEYLYGALSQKAFNGELDL 390



 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 24/199 (12%), Positives = 52/199 (26%), Gaps = 14/199 (7%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            W+   +     +  GR S   ++          +I   D+    G+         +   
Sbjct: 195 GWETELLGELATIERGRFSPRPRNDPKFYNGAYPFIQTGDISRSNGRLREYTQTLNELGI 254

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPK--DVLPELLQGWLLSIDV 133
                F  G I+   +G  + +  I           + + PK      E +    L    
Sbjct: 255 KVSKKFDVGTIVIAIVGATIGETAILQIPTYAPDSVIGITPKSATKETESVFIEFLLRFW 314

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
              + A    A  ++ + + +  +P+  P   ++      +                   
Sbjct: 315 KPVLRARAPEAARANINIETLRPLPVICPLDKDRERFATIVEKVEDLKSRYQQSLADMEY 374

Query: 194 LLKEKKQALVSYIVTKGLN 212
           L      AL        L+
Sbjct: 375 LYG----ALSQKAFNGELD 389


>gi|307246970|ref|ZP_07529034.1| Type I restriction-modification system S subunit [Actinobacillus
           pleuropneumoniae serovar 1 str. 4074]
 gi|306852112|gb|EFM84353.1| Type I restriction-modification system S subunit [Actinobacillus
           pleuropneumoniae serovar 1 str. 4074]
          Length = 244

 Score = 71.4 bits (173), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 23/184 (12%), Positives = 60/184 (32%), Gaps = 15/184 (8%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVT-----ELNRKNTKLIESNILSLSYGNIIQKLETRNMG 274
           +  ++   +P+ W       +       +         ++ I  +S  +   K       
Sbjct: 63  TEQDFPFEIPESWVWVRLEDVCQEISDIDHKMPQEYKGKNGIPYISPKDFYDKNGIDFAN 122

Query: 275 LKPESYETYQIV------DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
            K  S E Y ++         +I+F         R +       + +++ +   ++   I
Sbjct: 123 AKKVSEEDYFLLSKKFAPQKNDIIFPRYGTIGVVRIIEENI---KLLVSYSCACIRVEYI 179

Query: 329 DSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           +  Y+   + S           +   + ++  + +K+  + +PP+ EQ  I   I     
Sbjct: 180 NMQYVVAYLNSELAKLEIKKYTNKTTQPNVGLKSIKKFIIPLPPLNEQKRIVAKIEELLP 239

Query: 388 RIDV 391
            I+ 
Sbjct: 240 YIEQ 243



 Score = 64.4 bits (155), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 33/175 (18%), Positives = 59/175 (33%), Gaps = 10/175 (5%)

Query: 20  AIPKHWKVVPIKRFTKLNTG------RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
            IP+ W  V ++   +  +       +  +    I YI  +D     G          + 
Sbjct: 70  EIPESWVWVRLEDVCQEISDIDHKMPQEYKGKNGIPYISPKDFYDKNGIDFANAKKVSEE 129

Query: 74  DT---STVSIFAKGQILYGKLGPYLRKAIIADFDG-ICSTQFLVLQPKDVLPELLQGWLL 129
           D    S      K  I++ + G      II +    + S     ++ + +  + +  +L 
Sbjct: 130 DYFLLSKKFAPQKNDIIFPRYGTIGVVRIIEENIKLLVSYSCACIRVEYINMQYVVAYLN 189

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
           S      I+      T  +   K I    +P+PPL EQ  I  KI      I+  
Sbjct: 190 SELAKLEIKKYTNKTTQPNVGLKSIKKFIIPLPPLNEQKRIVAKIEELLPYIEQY 244


>gi|291526090|emb|CBK91677.1| Restriction endonuclease S subunits [Eubacterium rectale DSM 17629]
          Length = 367

 Score = 71.4 bits (173), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 53/368 (14%), Positives = 115/368 (31%), Gaps = 28/368 (7%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
           V ++   +   G ++        I   D+   +G Y P  G S  +         +  + 
Sbjct: 3   VKLEDVCE--RGSSN--------IKQSDIIKMSGNY-PIYGASGLAGKVNFYHQEQPYVA 51

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMS 147
             K G  + +  +             L PK  +      +++S      +E    GAT+ 
Sbjct: 52  VVKDGAGIGRTTLNPAKSSVIGTMQYLIPKKNVLPEYLFYVVS---YMHLEKYYTGATIP 108

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
           H  +K   N    +  + +Q+ I + +     R   +I  R + +  L    +A    + 
Sbjct: 109 HIYFKDYKNKEFNLDNIEKQLEIIDVL----GRCKKVIEARKQELVELDSLTKARFVELF 164

Query: 208 --TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII 265
              +  N    +K S    +G                 +++         I  L  G   
Sbjct: 165 GDIRCNNKLPLVKLSEFVNIG-------SSKRIYANEYVDKGVPFYRSKEIRELGTGMKP 217

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
                       E  E Y +   G+I+   I        +            +  +    
Sbjct: 218 SVELYIKQERYDEIKEKYGVPKKGDILIAAIGATIGYSWIVDTDTPFYYKDGNLIILSIK 277

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
           + ++  +L + MR          +    + +L  E ++++ V+ P IK Q    + ++  
Sbjct: 278 NNVNPIFLNYTMRILIEDFKNKDVAGSAQLALTIEKLEKMMVVNPDIKLQNQFADFVHQV 337

Query: 386 T-ARIDVL 392
             ++ D +
Sbjct: 338 NKSKFDTM 345



 Score = 36.7 bits (83), Expect = 6.9,   Method: Composition-based stats.
 Identities = 13/75 (17%), Positives = 28/75 (37%), Gaps = 4/75 (5%)

Query: 335 WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
           +L        +           + F+D K     +  I++Q +I +V+     R   ++E
Sbjct: 88  YLFYVVSYMHLEKYYTGATIPHIYFKDYKNKEFNLDNIEKQLEIIDVLG----RCKKVIE 143

Query: 395 KIEQSIVLLKERRSS 409
             +Q +V L     +
Sbjct: 144 ARKQELVELDSLTKA 158


>gi|218550409|ref|YP_002384200.1| restriction modification system DNA specificity domain [Escherichia
           fergusonii ATCC 35469]
 gi|218357950|emb|CAQ90594.1| putative restriction modification system DNA specificity domain
           [Escherichia fergusonii ATCC 35469]
          Length = 524

 Score = 71.4 bits (173), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 50/370 (13%), Positives = 98/370 (26%), Gaps = 32/370 (8%)

Query: 68  GNSRQSDTSTVSIFAKGQILYGKLGPYLRKAII---ADFDGICSTQFLVL--QPKDVLPE 122
            N    +    S    G +L    G    K+ +          S   +     PK V   
Sbjct: 91  INDEDDEKLKRSRLVDGDVLLTITGAKFGKSAVVSAKHLPANISQHSVRFKPDPKKVDAY 150

Query: 123 LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
            L  +L S      I     GAT    D+  + ++ +P      Q  I +K+        
Sbjct: 151 FLVAYLNSKTGQVAIWKEAYGATRPAIDFPSVRSLAVPKVLPLAQKYIGDKVRQAEQLRV 210

Query: 183 TLITERIRFIELLKEKKQ-------------------ALVSYIVTKGLNPDVKMKDSGIE 223
                       +    +                   +L       G        +    
Sbjct: 211 WAKRLNSVLQSQIHSVFKGDPKPEKRIGKVISIQQLSSLRLEAEYYGDLELWAELEIKNS 270

Query: 224 WVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKL----ETRNMGLKPES 279
                P                   +    S I  +   N+I       +   +  +  +
Sbjct: 271 PFPNKPLGELSSRIKDGPGGWAVSTSDYRPSGIPVIRSVNLIDGRCELEDCVFISKEKHN 330

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
                 V PG ++              S +     +  +         I+  YLA  + S
Sbjct: 331 DLRSHQVKPGGLLLSVRGTIGRAAVFDSEKYSTASLNAAVVTIDCKPTINPYYLAAFLNS 390

Query: 340 YDLCKVFYAMGSGLRQ-SLKFEDVKRLPVLVPPIKEQFDITN-VINVETARI--DVLVEK 395
                    + +G  Q ++  ++     +++PPI  Q  I    ++   A I  ++L++ 
Sbjct: 391 EVGRIQSNRIANGAVQLNMNLKETASNLIVIPPINLQETIAATFLSKNRAIILANLLIQS 450

Query: 396 IEQSIVLLKE 405
            +  +  L E
Sbjct: 451 AKTLVEALIE 460


>gi|126208661|ref|YP_001053886.1| putative type I restriction-modification system, S subunit
           [Actinobacillus pleuropneumoniae L20]
 gi|126097453|gb|ABN74281.1| putative type I restriction-modification system, S subunit
           [Actinobacillus pleuropneumoniae serovar 5b str. L20]
          Length = 404

 Score = 71.4 bits (173), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 24/197 (12%), Positives = 60/197 (30%), Gaps = 7/197 (3%)

Query: 217 MKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK 276
           M  + I++     +  +         +    ++             N     +   +  +
Sbjct: 1   MVVNYIKFNDTEIEFIDGDRGIHYPKKEEFSSSGYCVFLNTGNVTSNGFNFNDLDFITKE 60

Query: 277 PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG--IDSTYLA 334
            +       V P +IV        +   +   ++ +   I S  + ++      +  +L 
Sbjct: 61  KDELLRKGRVIPHDIVLTTRGTVGNVAYVSENELYKNIRINSGMVIIRSDCSKYEPYFLY 120

Query: 335 WLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
              RS    K     GSG  +  L    +K +      ++ Q  I  V++     +D  +
Sbjct: 121 SFFRSELFKKQCEYNGSGSAQPQLPISALKNISFPNFNLETQQKIAQVLST----LDRKI 176

Query: 394 EKIEQSIVLLKERRSSF 410
              +Q    L++   + 
Sbjct: 177 ALNQQISAKLEKMAKTL 193



 Score = 70.6 bits (171), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 52/402 (12%), Positives = 115/402 (28%), Gaps = 36/402 (8%)

Query: 38  TGRTSESGKDII------YIGLEDVESGTGKYLPKDGNSRQSDTSTVS-IFAKGQILYGK 90
            G      ++        ++   +V S    +   D  +++ D            I+   
Sbjct: 20  RGIHYPKKEEFSSSGYCVFLNTGNVTSNGFNFNDLDFITKEKDELLRKGRVIPHDIVLTT 79

Query: 91  LGPYLRKAIIADFDGICSTQF------LVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            G     A +++ +   + +       +        P  L  +  S    ++ E    G+
Sbjct: 80  RGTVGNVAYVSENELYKNIRINSGMVIIRSDCSKYEPYFLYSFFRSELFKKQCEYNGSGS 139

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
                    + NI  P   L  Q  I + +      +D  I    +    L++  + L  
Sbjct: 140 AQPQLPISALKNISFPNFNLETQQKIAQVL----STLDRKIALNQQISAKLEKMAKTLYD 195

Query: 205 YIVTKGLNPD---VKMKDSGIEWVGLVPDHWEVKPFFALVTELNR--KNTKLIESNILSL 259
           Y   +   PD      K SG E V       +V   +      N   K     +     +
Sbjct: 196 YWFVQFDFPDENGNPYKSSGGEMVYNPELKRDVPKGWECDFVENYLDKVPNTDKIPSKEI 255

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
                I  ++     +   +     +++P +    F D     R ++             
Sbjct: 256 QVKGQIPVIDQSQDYICGFTDNENALLEPIDAHIIFGD---HTRVVKLVNFPYARGADGT 312

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
            + +  +     +L + M              G  +   ++ +K   VL+P       I 
Sbjct: 313 QIIISNNKKLPNFLFYQM-----IAKIDLSNYGYARH--YKFLKESKVLIPT----EYIA 361

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
              +        L +   +    L + R   +   + GQ+++
Sbjct: 362 QKYHQTVKPYFDLWKTNLKETQKLTQLRDFLLPMLMNGQVEV 403


>gi|312872265|ref|ZP_07732335.1| conserved domain protein [Lactobacillus iners LEAF 2062A-h1]
 gi|311092088|gb|EFQ50462.1| conserved domain protein [Lactobacillus iners LEAF 2062A-h1]
          Length = 378

 Score = 71.4 bits (173), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 60/388 (15%), Positives = 127/388 (32%), Gaps = 47/388 (12%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
            +    +L     ++    I  +      +   K +    +    +     I   G+  +
Sbjct: 7   KLGELIELLGNTNNDLQYGIEDVR---GVNNLKKMMSTKADLNGRNLGKFQIVYPGEFFF 63

Query: 89  GKLGPYLR-----KAIIADFDGICSTQFLVLQPKDV-----LPELLQGWLLSIDVTQRIE 138
                                 IC+  ++V + K +     L E L  +    +  + + 
Sbjct: 64  NHRTSRNGSKFSITYNYESNPIICTEDYVVFRLKKICENILLKEWLYMYFNRSEFDRFVI 123

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
               G++    +W  + +I + +PPLA Q        A                      
Sbjct: 124 TNSWGSSTEFYNWSDVCDIELHLPPLAIQQKYVNVYNAMVAN------------------ 165

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
                     +GL       D+ IE +    +         + + + R + +  ++ + +
Sbjct: 166 -----QKAYERGLEDLKLTCDAYIEDLRRKYE------LQEIGSYIERIDERNKDNQLTN 214

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
           +    + +        L   S   Y+IV  G+I +     +N  R L      E  +I+S
Sbjct: 215 VKGLTVYKHFIDTKANLTNVSITNYKIVRVGDIGYVPTTNRNGDR-LACGLCNEDCLISS 273

Query: 319 AYMAVKPHGID--STYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQ 375
            Y  ++P      S YL    R  +  +          R++  F D++   + +PP++ Q
Sbjct: 274 IYEVIRPDNSKLRSDYLFLWFRRSEFDRYVRYCSWGSARETFDFRDMEEFSIPIPPLEIQ 333

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLL 403
             I ++  V T R D + EK++  I  +
Sbjct: 334 NSIADIYKVYTERKD-INEKLKAQIKAI 360


>gi|237650526|ref|ZP_04524778.1| type I site-specific deoxyribonuclease chain S [Streptococcus
           pneumoniae CCRI 1974]
          Length = 184

 Score = 71.4 bits (173), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 29/181 (16%), Positives = 64/181 (35%), Gaps = 14/181 (7%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL-------KPES 279
            +P+ WE      + + + R  +    +  +         +    ++ L          S
Sbjct: 4   EIPESWEWVRLNDITSYIQRGKSPKYSNISIYPVIAQKCNQWSGFSIDLARFIDPETVHS 63

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA-----YMAVKPHGIDSTYLA 334
           Y+  +++  G++++    L    R     +         A      + V    I+  ++ 
Sbjct: 64  YQKERLLRDGDLMWNSTGLGTLGRLAIYHENKNPYAWAVADSHVTVIRVLSGVINCHFIY 123

Query: 335 WLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
             + S  +  V     SG   ++ L  + +K   + +PP+ EQ  I + I    A ID L
Sbjct: 124 NFLSSPIVQSVIEEKASGSTKQKELLTKTIKEYLIPLPPLPEQSRIVDKIEQFFAHIDAL 183

Query: 393 V 393
           +
Sbjct: 184 I 184



 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 30/181 (16%), Positives = 57/181 (31%), Gaps = 15/181 (8%)

Query: 20  AIPKHWKVVPIKRFTK-LNTGRTSE--SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            IP+ W+ V +   T  +  G++ +  +      I  +  +              ++  S
Sbjct: 4   EIPESWEWVRLNDITSYIQRGKSPKYSNISIYPVIAQKCNQWSGFSIDLARFIDPETVHS 63

Query: 77  --TVSIFAKGQILYGKL--GPYLRKAIIADF-----DGICSTQFLVLQPKDVLPELLQGW 127
                +   G +++     G   R AI  +        +  +   V++    +      +
Sbjct: 64  YQKERLLRDGDLMWNSTGLGTLGRLAIYHENKNPYAWAVADSHVTVIRVLSGVINCHFIY 123

Query: 128 LLSIDVTQR---IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
                   +    E             K I    +P+PPL EQ  I +KI      ID L
Sbjct: 124 NFLSSPIVQSVIEEKASGSTKQKELLTKTIKEYLIPLPPLPEQSRIVDKIEQFFAHIDAL 183

Query: 185 I 185
           I
Sbjct: 184 I 184


>gi|237750518|ref|ZP_04580998.1| type I restriction-modification system S subunit [Helicobacter
           bilis ATCC 43879]
 gi|229374048|gb|EEO24439.1| type I restriction-modification system S subunit [Helicobacter
           bilis ATCC 43879]
          Length = 356

 Score = 71.4 bits (173), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 23/181 (12%), Positives = 62/181 (34%), Gaps = 10/181 (5%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIV 286
            +P+ W       +       +    E         + +  + T+++           I 
Sbjct: 176 EIPNSWAWVKLGDICEIFTGDSINATEKEKNFTHQTSGLNYIATKDLANDTSITYENGIK 235

Query: 287 DPGEIVFRF---------IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
            P E +  F         + ++      +   + E     +     +     S ++ + +
Sbjct: 236 IPDEFLPSFKIAKANSTLLCIEGGSAGRKVGFLKENVCFGNKLCCFENIFAFSKFVFYFL 295

Query: 338 RSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV-LVEKI 396
           +S +  K F +  +G+   +K E ++   + +PP+KEQ +I   +++     +   + K 
Sbjct: 296 QSGEFSKEFNSNINGIIGGVKKESIRHFLIPLPPLKEQQEIVKKLDLLVTLANDFAITKE 355

Query: 397 E 397
            
Sbjct: 356 N 356



 Score = 66.7 bits (161), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 27/172 (15%), Positives = 55/172 (31%), Gaps = 12/172 (6%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGK----------DIIYIGLEDVESGTGKYLPKDGN 69
            IP  W  V +    ++ TG +  + +           + YI  +D+ + T         
Sbjct: 176 EIPNSWAWVKLGDICEIFTGDSINATEKEKNFTHQTSGLNYIATKDLANDTSITYENGIK 235

Query: 70  SRQSDTSTVSIFAKGQILYGKL-GPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL 128
                  +  I      L     G   RK      +     +    +      + +  +L
Sbjct: 236 IPDEFLPSFKIAKANSTLLCIEGGSAGRKVGFLKENVCFGNKLCCFENIFAFSKFVFYFL 295

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
            S + ++   +   G  +     + I +  +P+PPL EQ  I +K+      
Sbjct: 296 QSGEFSKEFNSNING-IIGGVKKESIRHFLIPLPPLKEQQEIVKKLDLLVTL 346


>gi|329733095|gb|EGG69432.1| type I restriction modification DNA specificity domain protein
           [Staphylococcus aureus subsp. aureus 21193]
          Length = 204

 Score = 71.4 bits (173), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 31/191 (16%), Positives = 63/191 (32%), Gaps = 4/191 (2%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET 282
           +  G     W  K    ++   N++     E  +L+ S   +I + +             
Sbjct: 15  DEEGNYYKGWNKKQLKDVLEFSNKRTINENEYPVLTSSRQGLILQSDYYKDRKTFAESNI 74

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
              + P   +       +         +++ GII+  Y   K    +  YL   +     
Sbjct: 75  GYFILPKNHITYRSRSDDGIFKFNLNLMIDVGIISKYYPVFKGIDANQYYLTLHLNYQLK 134

Query: 343 CKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
            +         +  L  +D++ +   +P  +EQ  I +      + ID LVEK    +  
Sbjct: 135 KEYIKYATGTSQLVLSQKDLQNIKTKLPSYEEQQKIGDF----FSEIDRLVEKQSSKVGR 190

Query: 403 LKERRSSFIAA 413
           LK R+   +  
Sbjct: 191 LKVRKKELLQK 201



 Score = 49.0 bits (115), Expect = 0.002,   Method: Composition-based stats.
 Identities = 29/184 (15%), Positives = 53/184 (28%), Gaps = 5/184 (2%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           K W    +K   + +  RT    +  +             Y  KD  +         I  
Sbjct: 22  KGWNKKQLKDVLEFSNKRTINENEYPVLTSSRQGLILQSDY-YKDRKTFAESNIGYFILP 80

Query: 83  KGQILY---GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           K  I Y      G +     +    GI S ++  +       +      L+  + +    
Sbjct: 81  KNHITYRSRSDDGIFKFNLNLMIDVGIIS-KYYPVFKGIDANQYYLTLHLNYQLKKEYIK 139

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
              G +      K + NI   +P   EQ  I +        ++   ++  R     KE  
Sbjct: 140 YATGTSQLVLSQKDLQNIKTKLPSYEEQQKIGDFFSEIDRLVEKQSSKVGRLKVRKKELL 199

Query: 200 QALV 203
           Q + 
Sbjct: 200 QKMF 203


>gi|111224381|ref|YP_715175.1| Type I restriction-modification system, S subunit [Frankia alni
           ACN14a]
 gi|111151913|emb|CAJ63634.1| Type I restriction-modification system, S subunit [Frankia alni
           ACN14a]
          Length = 443

 Score = 71.4 bits (173), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 47/410 (11%), Positives = 116/410 (28%), Gaps = 33/410 (8%)

Query: 25  WKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYL----PKDGNSRQSD 74
           W    +        G      +      DI +  + D+                 SR   
Sbjct: 31  WTTTSLGSIVTFWPGYAFPEVEQGKISGDIPFFKVGDMSRPGNDVALNSAEHYVTSRTCR 90

Query: 75  TSTVSIFAKGQILYGKLGP---YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
                    G + + K+G      R+ +I     + +    V     +    L   + +I
Sbjct: 91  FFGWKPCPAGAVAFAKVGAALLKNRRRLITQDTLLDNNMLAVAPRPGISSRYLYWLMQTI 150

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
           D         +   +   +   IG+  + I PL+EQ  I E +      + +      + 
Sbjct: 151 DF----SRFVQDGAVPSVNQNQIGSYKVAIAPLSEQQKITEVLDTVDEAVRSTERLIAKL 206

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEW--VGLVPDHWEVKPFFALVTELNRKNT 249
                   Q  +    ++  +         + W  +G +            +      N 
Sbjct: 207 YIERAGIIQERLGEWESRHADNSDGS-SRDVRWVQLGDI---VRETLLGTPLRGRKDGNI 262

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQ--NDKRSLRS 307
            L++   +S    N+  +           S   +  +  G+++F   +      K ++  
Sbjct: 263 LLVKMGNISGGMLNM--EHTEHISRSIVGSSIGHLELQHGDLLFNTRNTPDLVGKTAVWP 320

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRL 365
             +       +         +   ++   M           + +G     ++ + D+ + 
Sbjct: 321 KNLPPAICDNNILRIRFQPEVLPEFVNAYMSWGLGRNRLARLATGTTSVAAIYWRDLCKF 380

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           P+ VP I EQ  + + I+   +R+       +  +      +   +   +
Sbjct: 381 PIPVPAISEQRRLVSGIDYSGSRL----SCEQVELEKFLLIKQGLMDDLL 426


>gi|2408222|gb|AAB70708.1| HsdS [Klebsiella pneumoniae]
          Length = 439

 Score = 71.4 bits (173), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 63/443 (14%), Positives = 130/443 (29%), Gaps = 73/443 (16%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           WK   +  F +L  G                   G+   +   G +   D     +    
Sbjct: 5   WKECELGDFIELKRGYDLPKSTR---------NEGSIPIISSSGFT---DFHDKPMVKGP 52

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI-CEG 143
            ++ G+ G         +     +T   V+  K   P  +   L +I      +     G
Sbjct: 53  GVVTGRYGTIGEVFYSEEDFWPLNTTLYVVDFKGNDPLFVYYLLQTISYADYTDKAAVPG 112

Query: 144 ATMSHADW--KGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK-EKKQ 200
              +H       +         +A Q+   EK +    +I+  + +  + +         
Sbjct: 113 VNRNHLHKAKVKVPIYLDIQQKVAAQLYQLEKRVTLGKQINQTLEQMSQTLFKSWFVDFD 172

Query: 201 ALVSYIVTKGLNPDVKMKDSGIE-----------------------------WVGLVPDH 231
            ++   +  G NP  +   S  E                              +G VP  
Sbjct: 173 PVIDNALDAG-NPIPEALQSRAELRQKVRSSADFKPLPADIRALFPAEFEETELGWVPKD 231

Query: 232 WEVKPFFALVTELNRKNTKLIESNILSLS------------YGNIIQKLETRNMGLKPES 279
           W  K    + T    K     +    S               GN    ++  +  L  ++
Sbjct: 232 WYHKNAEEIATISIGKTPPRNQKECFSHKKDSNYTWVSIKDLGNCNVFIKESSEYLTTDA 291

Query: 280 YETYQ--IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
              Y   IV  G ++  F           S       I   A+     HG++  YL   +
Sbjct: 292 VNNYNVKIVPKGAVLLSFKLTIGRIAIAESILTTNEAI---AHFYNMKHGVNKEYLYSYL 348

Query: 338 RSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKE--QFDITNVINVETARIDVLVEK 395
           + +D   +     S +  ++  + ++++P+L+P      Q+ I+      T  I   +  
Sbjct: 349 QHFDYNTL--GSTSSIATAVNSKIIRKIPILLPDTDILHQYKIS------TDIIFKRISF 400

Query: 396 IEQSIVLLKERRSSFIAAAVTGQ 418
             ++   L   R + +   ++G+
Sbjct: 401 NNRNTYDLTALRDTLLPKLISGE 423



 Score = 50.6 bits (119), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 25/199 (12%), Positives = 54/199 (27%), Gaps = 14/199 (7%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTS----------ESGKDIIYIGLEDVESGT--GKYLP 65
           +G +PK W     +    ++ G+T           +   +  ++ ++D+ +     K   
Sbjct: 225 LGWVPKDWYHKNAEEIATISIGKTPPRNQKECFSHKKDSNYTWVSIKDLGNCNVFIKESS 284

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ 125
           +   +   +   V I  KG +L       + +  IA+     +                 
Sbjct: 285 EYLTTDAVNNYNVKIVPKGAVLLS-FKLTIGRIAIAESILTTNEAIAHFYNMKHGVNKEY 343

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
            +                   +  + K I  IP+ +P        +        RI    
Sbjct: 344 LYSYLQHFDYNTLGSTSSIA-TAVNSKIIRKIPILLPDTDILHQYKISTDIIFKRISFNN 402

Query: 186 TERIRFIELLKEKKQALVS 204
                   L       L+S
Sbjct: 403 RNTYDLTALRDTLLPKLIS 421


>gi|293363458|ref|ZP_06610215.1| type I restriction modification DNA specificity domain protein
           [Mycoplasma alligatoris A21JP2]
 gi|292552978|gb|EFF41731.1| type I restriction modification DNA specificity domain protein
           [Mycoplasma alligatoris A21JP2]
          Length = 398

 Score = 71.4 bits (173), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 48/397 (12%), Positives = 115/397 (28%), Gaps = 26/397 (6%)

Query: 22  PKHWKVVPIKRFTKL--NTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           P   +   ++       +   T ++ K      +  + SG    L     +     S+  
Sbjct: 13  PNGVEFKKMETLLDYEHSNKYTVKNIKYSNQFKIPVLTSGKTFLLGYTDETENIFFSSKV 72

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
              K  IL+      +++          S+   +L  K+    L   +    ++  +   
Sbjct: 73  ---KPIILFDDFTANVKRVDFNFKLK--SSAIKILILKNPNNNLKYFFYWLANLKYKPTE 127

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
                       K      +P+PP+  Q  I E +   T     L  E    +   +++ 
Sbjct: 128 HARQWI------KVYSQFDIPMPPIEIQNKIVEILDNFTELTAELTAELTAELTARQKQY 181

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
           +   + ++    N  +  K    E      +H  +           +K  +L +   +  
Sbjct: 182 KYFRNMLMDYDNNDSLFNKIINKETNKDCREHNFINKDILKNIVSIKKGAQLNKDKFIKG 241

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
           SY          N G+K   +     VD   I+       +    +              
Sbjct: 242 SYP-------VFNGGVKESGWHNEYNVDENTIIISQGGSLS--GYVNYIDQKFWASAHCF 292

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
           Y+  K +        +        ++  +        L    ++ L + +P +  Q  I 
Sbjct: 293 YIECKNNSPIINRYLYHFLKNKQKELMNSKEGAGIPGLGKNILEELEIFIPSVYVQEKIV 352

Query: 380 NVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           ++++        +   +   I L ++     R+  ++
Sbjct: 353 DILDKMEIYTKDIKTGLPLEIELRQKQYEYYRNLLLS 389


>gi|262374260|ref|ZP_06067536.1| predicted protein [Acinetobacter junii SH205]
 gi|262310818|gb|EEY91906.1| predicted protein [Acinetobacter junii SH205]
          Length = 433

 Score = 71.4 bits (173), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 57/399 (14%), Positives = 125/399 (31%), Gaps = 32/399 (8%)

Query: 36  LNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQI---LYGKL- 91
           L  G+T++       + +  +  G+ +++     S+  +     +            ++ 
Sbjct: 40  LENGKTAKVEN----LPVGCIAHGSTEFIVLSAKSKDDEDFVYYLARLPDFRSYAISRME 95

Query: 92  GPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADW 151
           G   R+ +        + +      +  + ++L+     I +  +I    E    +    
Sbjct: 96  GTSGRQRVSWQALAEFNLRLPEKGKRKKIGKILKSLDDKIHLNNQINQTLESIAQTIFKS 155

Query: 152 KGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGL 211
             I   P+     A+Q     ++ A          E  +  +    + QA  +      L
Sbjct: 156 WFIDFDPVRAKIAAKQEGKDAELAAMCAISGKSEAEVEQMAKEDFAELQATAT------L 209

Query: 212 NPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK------LIESNILSLSYGNII 265
            PD  +       +G VP  WE+    A+   +    T            I  LS G   
Sbjct: 210 FPDELV----ESELGEVPKGWEITNINAVTASIFSGGTPSTKEVTYWNGEIPWLSSGETR 265

Query: 266 QKLETRNMGLKPESYETYQIVDP---GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
            K+         E+            G+I+      Q   R   S   +E  I  S    
Sbjct: 266 NKIIVSTEKSITETAVKKSSTKLAIFGDILIASAG-QGHTRGQTSFNAIECYINQSIVAL 324

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
                +   +L + +          +     R SL  + +  +PV++P    Q  + +  
Sbjct: 325 RANDKVSPYWLYYCLEPRYDEMRSVSDSHSSRGSLTTKLLASMPVILPT---QKLVVSF- 380

Query: 383 NVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           +     +     K  + I +L + R + +   ++G I++
Sbjct: 381 DKVIKPMLAQQVKNAKEIKMLADTRDALLPKLISGDIEV 419



 Score = 70.6 bits (171), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 25/196 (12%), Positives = 59/196 (30%), Gaps = 9/196 (4%)

Query: 18  IGAIPKHWKVVPIKRF-TKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNS 70
           +G +PK W++  I      + +G T  + +      +I ++   +  +       K    
Sbjct: 219 LGEVPKGWEITNINAVTASIFSGGTPSTKEVTYWNGEIPWLSSGETRNKIIVSTEKSITE 278

Query: 71  RQSDTSTVSIFAKGQILYGKL--GPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL 128
                S+  +   G IL      G    +      +   +   + L+  D +      + 
Sbjct: 279 TAVKKSSTKLAIFGDILIASAGQGHTRGQTSFNAIECYINQSIVALRANDKVSPYWLYYC 338

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
           L     +        ++      K + ++P+ +P     V   + I     +      E 
Sbjct: 339 LEPRYDEMRSVSDSHSSRGSLTTKLLASMPVILPTQKLVVSFDKVIKPMLAQQVKNAKEI 398

Query: 189 IRFIELLKEKKQALVS 204
               +        L+S
Sbjct: 399 KMLADTRDALLPKLIS 414


>gi|307253725|ref|ZP_07535589.1| Type I restriction-modification system S subunit [Actinobacillus
           pleuropneumoniae serovar 6 str. Femo]
 gi|306858801|gb|EFM90850.1| Type I restriction-modification system S subunit [Actinobacillus
           pleuropneumoniae serovar 6 str. Femo]
          Length = 272

 Score = 71.4 bits (173), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 21/178 (11%), Positives = 51/178 (28%), Gaps = 5/178 (2%)

Query: 218 KDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKP 277
           +    E    +P+ W       +      ++             G    + ++       
Sbjct: 100 RCIADEVPFEIPESWVWVRLSEISKITMGQSPDNK----YLGKEGIEFHQGKSFFSEYII 155

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
           ES + Y  +         I L                 I     ++ P  +++ +L + +
Sbjct: 156 ESSDIYCSLPNKLATPNSILLCVRAPVGIVNITNRELCIGRGLASIDPIYVNTIFLYYAL 215

Query: 338 RSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
             Y              +++  + +    + +PP+ EQ  I   I    + +  L +K
Sbjct: 216 FCYKNY-YERKSTGSTFKAISKDIIDNTIIPIPPLNEQIRIVEKIETLFSTLQNLSQK 272



 Score = 61.7 bits (148), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 36/167 (21%), Positives = 57/167 (34%), Gaps = 10/167 (5%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT---S 76
            IP+ W  V +   +K+  G++ ++     Y+G E +E   GK    +     SD     
Sbjct: 109 EIPESWVWVRLSEISKITMGQSPDNK----YLGKEGIEFHQGKSFFSEYIIESSDIYCSL 164

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
              +     IL     P      I + +         + P  V    +  +         
Sbjct: 165 PNKLATPNSILLCVRAPV-GIVNITNRELCIGRGLASIDPIYVN--TIFLYYALFCYKNY 221

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
            E    G+T        I N  +PIPPL EQ+ I EKI      +  
Sbjct: 222 YERKSTGSTFKAISKDIIDNTIIPIPPLNEQIRIVEKIETLFSTLQN 268


>gi|260767611|ref|ZP_05876547.1| type I restriction-modification system specificity subunit S
           [Vibrio furnissii CIP 102972]
 gi|260617511|gb|EEX42694.1| type I restriction-modification system specificity subunit S
           [Vibrio furnissii CIP 102972]
          Length = 374

 Score = 71.4 bits (173), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 40/402 (9%), Positives = 106/402 (26%), Gaps = 33/402 (8%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W    +     L  G                  +     +P   +S  +     +    
Sbjct: 2   SWVECQLGDILTLKRGYDLP------------HSARKSGSVPVVSSSGITGYHNTAKVEG 49

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW-LLSIDVTQRIEAICE 142
             ++ G+ G       +       +T   V   K   P+ +  +    +   Q  +A   
Sbjct: 50  PAVVTGRYGTLGEVYYVEGECWPLNTSLYVQDFKGNRPKFVYYFLQSVLKGMQSDKAAVP 109

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           G   +    + +            QV + + I      I+          E  +   Q  
Sbjct: 110 GVNRNDLHARKVKCTKDH----DVQVAVEKIISPYDDLIENNRRRIQLLEESARLLYQEW 165

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
             ++   G           +  V  +P+ W+      +         K  +  I  +   
Sbjct: 166 FVHLRFPG--------HEQVNIVDGLPEGWKNMQLTDIAKVNQASLKKGFDEKIEYIDIS 217

Query: 263 NIIQKLETRNMGLKPESY--ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
            +     +     +         +IV   +I++  +       +L   +  +R I ++ +
Sbjct: 218 CVSTHSISDTTWYEFIDAPGRARRIVQHCDILWSCVRPNRRSHALVW-EPHDRLIASTGF 276

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDIT 379
             +    +   +L   + + +          G    ++     +    LVP         
Sbjct: 277 AVISATEVSPLFLYQSLTTNEYVGYLTNRAGGAAYPAVTARVFEESSTLVPTKNL----V 332

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
                +       +  +    + L + R   +   ++G++ +
Sbjct: 333 EQYERQVQDTYTQINILRTQNIKLAQARDLLLPKLMSGELTV 374



 Score = 37.9 bits (86), Expect = 2.9,   Method: Composition-based stats.
 Identities = 25/134 (18%), Positives = 43/134 (32%), Gaps = 5/134 (3%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSES-GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           +P+ WK + +    K+N     +   + I YI +  V + +            +      
Sbjct: 183 LPEGWKNMQLTDIAKVNQASLKKGFDEKIEYIDISCVSTHSISDT-TWYEFIDAPGRARR 241

Query: 80  IFAKGQILYGKLGPYLRK---AIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
           I     IL+  + P  R            I ST F V+   +V P  L   L + +    
Sbjct: 242 IVQHCDILWSCVRPNRRSHALVWEPHDRLIASTGFAVISATEVSPLFLYQSLTTNEYVGY 301

Query: 137 IEAICEGATMSHAD 150
           +     GA      
Sbjct: 302 LTNRAGGAAYPAVT 315


>gi|329123769|ref|ZP_08252328.1| type I restriction system specificity protein [Haemophilus
           aegyptius ATCC 11116]
 gi|327469672|gb|EGF15140.1| type I restriction system specificity protein [Haemophilus
           aegyptius ATCC 11116]
          Length = 199

 Score = 71.4 bits (173), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 22/183 (12%), Positives = 63/183 (34%), Gaps = 13/183 (7%)

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNIIQKLETR----NMGLKPESYETYQIVDPGEIV 292
              L+     +     E+ + ++ YG I     T        + PE  +  +    G+++
Sbjct: 11  LGELIRGNGLQKKDFTETGVPAIHYGQIYTYYGTFATKTKSFVSPELAKKLKKAKYGDVL 70

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI-DSTYLAWLMRSYDLCKVFYAMGS 351
                            +      +    A +P+   ++ YL +++++    K       
Sbjct: 71  IAGTSENLKDVMKPLGWLGSEIAFSGDMFAFRPNKRVNTKYLTYILQTERFYKFKEKYAQ 130

Query: 352 GLRQ-SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL-------VEKIEQSIVLL 403
           G +   +K ++     + +P  +EQ  I ++++      + +       +E+ ++     
Sbjct: 131 GTKVIRVKADNFLNYEIPLPTFEEQHRIVSILDKFETLTNSITEGLPLAIEQRQKRYEYY 190

Query: 404 KER 406
           +E 
Sbjct: 191 REL 193


>gi|257785026|ref|YP_003180243.1| hypothetical protein Apar_1225 [Atopobium parvulum DSM 20469]
 gi|257473533|gb|ACV51652.1| hypothetical protein Apar_1225 [Atopobium parvulum DSM 20469]
          Length = 459

 Score = 71.0 bits (172), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 54/385 (14%), Positives = 113/385 (29%), Gaps = 46/385 (11%)

Query: 58  SGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFD---GICSTQFLVL 114
           S             +       +   G + Y      +    I   +   G  S  ++V 
Sbjct: 65  SNKIGMFDASIKKGKKIKQKYHVVKDGWLAYNPYRINVGSIGIKTPELQGGYISPAYVVF 124

Query: 115 QPKDVL-PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
             KD L PE L   + S      I     G+      +  + +I  PIP + EQ  I  +
Sbjct: 125 SCKDTLLPEYLWLMMKSDYFNALINDSTTGSVRQTLRFDKLASIKAPIPTVDEQKEILAQ 184

Query: 174 IIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKG---------LNPDVKMKDSGIE- 223
             A     +  I++   F + L    Q+ VS +             + P      S  E 
Sbjct: 185 YHATLAEAEKNISDGNSFSDGLLFDIQSKVSDLEKDESAAEKPSSIIQPVPFAAMSRWEV 244

Query: 224 -------------WVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLET 270
                             P     +     +  L+ K +   ES ++ +   + I   E 
Sbjct: 245 AYTLKKGKLERVYGSFKCPFKSISELTKESLFGLSLKASLKQESGMIPILRMSNIVNGEI 304

Query: 271 RNMGLKPESYET--------YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
               LK   Y++          ++  G+ +    + +          +       S  + 
Sbjct: 305 DCSSLKYLPYKSAVTPREPDKWLLRKGDFLINRTNSKELVGKSAVFNLDGDYTYASYIIR 364

Query: 323 VKPHG--IDSTYLAWLMRSYDLCKVF--YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
            +     +   Y+  +     +       +  +  + ++   ++  + + +P I EQ  I
Sbjct: 365 YRFDTSVVLPEYVNIMFMLPLVRIQIDTMSRQTAGQCNINSGEIGSIRIPIPSIPEQQAI 424

Query: 379 TNVI-------NVETARIDVLVEKI 396
            +         +   A+ + L +K 
Sbjct: 425 IDKYYSTKDGADAFYAKAEELKQKT 449


>gi|108797004|ref|YP_637201.1| type I restriction-modification system specificity subunit
           [Mycobacterium sp. MCS]
 gi|119866088|ref|YP_936040.1| type I restriction-modification system specificity subunit
           [Mycobacterium sp. KMS]
 gi|108767423|gb|ABG06145.1| type I restriction-modification system specificity subunit
           [Mycobacterium sp. MCS]
 gi|119692177|gb|ABL89250.1| type I restriction-modification system specificity subunit
           [Mycobacterium sp. KMS]
          Length = 411

 Score = 71.0 bits (172), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 63/428 (14%), Positives = 127/428 (29%), Gaps = 65/428 (15%)

Query: 25  WKVVPIKRFTKLNT----GRTSESG--KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           W+   +       T    G+ +       + ++  ++V       + K G     D    
Sbjct: 4   WRESVLGDLCTRVTVGHVGKMATEYVPDGVPFLRSQNVR---PFVIDKRGLLYIGDDFNA 60

Query: 79  SI----FAKGQILYGKLGPYLRKAIIADF--DGICSTQFLVLQPKDVLPELLQGWLLSID 132
            +       G ++  + G     A++ +      C+   ++     + P +L     S+ 
Sbjct: 61  KLRKSALTAGDVVIVRTGYPGTAAVVPEDLDGSNCADLVVITPSDALNPHVLAALFNSVY 120

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
               + +   G+   H +      + + +P  AEQ  I   +      I+ LI    R +
Sbjct: 121 GQHAVSSQLVGSAQQHFNVGSAKTMRVRLPDRAEQDHIAAVL----CSINDLIENNRRRV 176

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR---KNT 249
           E+L+   + +      K   P  +        +G  P  WEV   F           K+ 
Sbjct: 177 EVLEGMARTIYREWFVKFRYPGNEGVPLVDSALGPAPKGWEVANLFDAADVGFGYSFKSP 236

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
           +   S    +     I    +R      E+ +    V   +++       +         
Sbjct: 237 RFSNSGPFQVIRIRDIPVGISR--TYTDEAADPRYAVYDDDVLIGMDGDFHMTV-----W 289

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
             E   +      ++P    S     L     +     A+       L  + ++ + VLV
Sbjct: 290 TGEDAWLNQRVTRLRPRLGLSALHLLLAIEEQIKDWNRAIVGTTVAHLGKKHLQLVNVLV 349

Query: 370 PPIKEQFDITNVINV--ETARIDVLVEKIEQSIVLLKERRSSFIA--------------A 413
           P           I+     A I             ++ERR + I                
Sbjct: 350 PND------AVRIDASVVFAPI-------------MEERR-ALIQSSRRLAALRDLLLPK 389

Query: 414 AVTGQIDL 421
            V+GQID+
Sbjct: 390 LVSGQIDV 397



 Score = 44.4 bits (103), Expect = 0.031,   Method: Composition-based stats.
 Identities = 37/208 (17%), Positives = 63/208 (30%), Gaps = 19/208 (9%)

Query: 6   AYPQYKDSGVQW----IGAIPKHWKVVPIKRFTKLNTGRTSES-----GKDIIYIGLEDV 56
            YP   + GV      +G  PK W+V  +     +  G + +S           I + D+
Sbjct: 195 RYPG--NEGVPLVDSALGPAPKGWEVANLFDAADVGFGYSFKSPRFSNSGPFQVIRIRDI 252

Query: 57  ESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP 116
             G  +                       +L G  G +         D   + +   L+P
Sbjct: 253 PVGISR------TYTDEAADPRYAVYDDDVLIGMDGDFHMTV-WTGEDAWLNQRVTRLRP 305

Query: 117 KDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIA 176
           +  L  L     +   +     AI  G T++H   K +  + + +P  A ++        
Sbjct: 306 RLGLSALHLLLAIEEQIKDWNRAIV-GTTVAHLGKKHLQLVNVLVPNDAVRIDASVVFAP 364

Query: 177 ETVRIDTLITERIRFIELLKEKKQALVS 204
                  LI    R   L       LVS
Sbjct: 365 IMEERRALIQSSRRLAALRDLLLPKLVS 392


>gi|32455521|ref|NP_862273.1| hypothetical protein pRV500_p05 [Lactobacillus sakei]
 gi|24461248|gb|AAN61995.1|AF438419_5 HsdS [Lactobacillus sakei]
          Length = 374

 Score = 71.0 bits (172), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 55/393 (13%), Positives = 109/393 (27%), Gaps = 29/393 (7%)

Query: 28  VPIKRFTKLNTGRTSE-SGKDIIYIGLEDVE-SGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           V +  +  L T +    +  +  Y+  E+++ +  G   P          +   +   G 
Sbjct: 4   VKLGDYVSLQTHKVDNLTAVNTSYVSTENLQPNRNGVLFPAASVPSSGKVNFYDV---GD 60

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL--LSIDVTQRIEAICEG 143
           IL   + PY +K  +A   G  S   L  + K         ++   S      +    +G
Sbjct: 61  ILVSNIRPYFKKIWMAINPGTHSGDVLNFRTKSPKLTQEYLYIVLESDSFFDYVTLTSKG 120

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
             M   D   I +    +P L  Q  +   I+A   +I          +EL     +   
Sbjct: 121 TKMPRGDKDAIMDFEFSLPSLDVQQKLSNTIMALERKILMSKQVNDNLLELADATFKKNY 180

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
              V       +     G       P          L      KN      ++  +    
Sbjct: 181 EQQVGNQKLETLATVKGGKRLPKGAPLTEVKTQHPYLRITDYSKNGVPSVQSMQYI---- 236

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
                       +     +  +++ GE+    +        L   ++    +  +A    
Sbjct: 237 ----------TEEVFDKISRYVINEGEVFLSIVGTIG-IVDLIDERLDNASLTENAVKIH 285

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPI-KEQFDITNV 381
                 + YL   +RS +      +      ++ L    +K   V V      Q      
Sbjct: 286 AQTTAMAHYLYLYLRSDEGRHEIDSRTVGTTQKKLAITRIKDFDVGVISETDLQE----- 340

Query: 382 INVETARIDVLVEKIEQSIVLLKERRSSFIAAA 414
                + +  +V      I  L + R S +   
Sbjct: 341 FERTVSPLINMVLANRSEIDTLVQIRDSLLQEL 373



 Score = 47.1 bits (110), Expect = 0.006,   Method: Composition-based stats.
 Identities = 24/174 (13%), Positives = 43/174 (24%), Gaps = 11/174 (6%)

Query: 232 WEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDP-GE 290
                    V+    K   L   N   +S  N+                         G+
Sbjct: 1   MTKVKLGDYVSLQTHKVDNLTAVNTSYVSTENLQPNRNGVLFPAASVPSSGKVNFYDVGD 60

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG 350
           I+   I     K  +        G + +     K   +   YL  ++ S           
Sbjct: 61  ILVSNIRPYFKKIWMAINPGTHSGDVLN--FRTKSPKLTQEYLYIVLESDSFFDYVTLTS 118

Query: 351 SGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI-------DVLVEKI 396
            G        + +      +P +  Q  ++N I     +I       D L+E  
Sbjct: 119 KGTKMPRGDKDAIMDFEFSLPSLDVQQKLSNTIMALERKILMSKQVNDNLLELA 172


>gi|75677298|ref|YP_319719.1| hypothetical protein Nwi_3120 [Nitrobacter winogradskyi Nb-255]
 gi|74422168|gb|ABA06367.1| hypothetical protein Nwi_3120 [Nitrobacter winogradskyi Nb-255]
          Length = 233

 Score = 71.0 bits (172), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 34/215 (15%), Positives = 71/215 (33%), Gaps = 15/215 (6%)

Query: 211 LNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLET 270
           LNP    KD  ++ +              L         +  + N        +      
Sbjct: 27  LNPGPVPKDWQVKTI------AREWKLRCLGEITRELTWRHNDRNFGRELVMGVTNSRGI 80

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA--VKPHGI 328
             M         Y+I+ P    +  +       S+   ++    +++  Y+     P  +
Sbjct: 81  VPMQTIGSDLTRYKILLPRAFAYNPMR--IKVGSIARLRLPSEVLVSPDYVLFECVPGKL 138

Query: 329 DSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           D  +L  L +S+       A GSG +R    ++D+  L + +P   EQ  I+ ++N    
Sbjct: 139 DPDFLNHLRQSHFWDHYINAGGSGSVRMRAYYDDLAALRLKLPGFAEQHRISAMLNTAQG 198

Query: 388 RIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
                +  +   I  L  +    +    TG+  ++
Sbjct: 199 E----IALVATEIETLTRQTRGLMQKLPTGERRVK 229



 Score = 40.5 bits (93), Expect = 0.56,   Method: Composition-based stats.
 Identities = 31/195 (15%), Positives = 60/195 (30%), Gaps = 14/195 (7%)

Query: 19  GAIPKHWKVV------PIKRFTKLNTGRT-SESGKDIIYIGLEDVESGTGKYLPKDGNSR 71
           G +PK W+V        ++   ++    T   + ++     +  V +  G    +   S 
Sbjct: 30  GPVPKDWQVKTIAREWKLRCLGEITRELTWRHNDRNFGRELVMGVTNSRGIVPMQTIGS- 88

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAI--IADFDGICSTQF--LVLQPKDVLPELLQGW 127
             D +   I       Y  +   +          + + S  +      P  + P+ L   
Sbjct: 89  --DLTRYKILLPRAFAYNPMRIKVGSIARLRLPSEVLVSPDYVLFECVPGKLDPDFLNHL 146

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
             S      I A   G+    A +  +  + + +P  AEQ  I   +      I  + TE
Sbjct: 147 RQSHFWDHYINAGGSGSVRMRAYYDDLAALRLKLPGFAEQHRISAMLNTAQGEIALVATE 206

Query: 188 RIRFIELLKEKKQAL 202
                   +   Q L
Sbjct: 207 IETLTRQTRGLMQKL 221


>gi|269978336|gb|ACZ55902.1| putative type I restriction-modification system specificity subunit
           S [Helicobacter pylori]
          Length = 408

 Score = 71.0 bits (172), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 48/403 (11%), Positives = 116/403 (28%), Gaps = 32/403 (7%)

Query: 22  PKHWKVVPIKRFTKL-------NTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           PK  +   +    +         T +  +       +     ++    Y  +  N  Q+ 
Sbjct: 13  PKGVEFRKLGEVLEYDQPNKYCVTSKEFDKSYPTPVLTAG--KTFILGYTNEKDNIYQAS 70

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
            S+ +I                   +     + S+   +L  K+    +   +       
Sbjct: 71  KSSPAIIFDD--------FTTATQWVDFPFKVKSSAMKILFSKNPTINIRFIFFYM---Q 119

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
                I                + +PIPPL  Q  I + + A T     L TE    +  
Sbjct: 120 TIPYNIGGEHARHWISRYSQ--LEVPIPPLEIQQEIVKILDAFTELNTELNTELNTELNA 177

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
            K++ Q     ++    + +   KD+ I+                L  +           
Sbjct: 178 RKKQYQ-YYQNMLLDFNDINSNHKDAKIKSYPKRLKTL----LHTLAPKGVEFRKLGEVC 232

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
            I+        + L+     +          ++        I +     +       ++ 
Sbjct: 233 EIIRGKRVTKKEILDKGKYPVVSGGIGFMGYLNEYNREENTITIAQYGTAGFVNWQNQKF 292

Query: 315 IITSAYMAVKPHGID-STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
                  +V P     + YL +++ +        +  S +  S+   ++ ++ + +PP++
Sbjct: 293 WANDVCFSVIPKETLINRYLYYVLTNMQNYLYSISNRSAIPYSISSNNIMQITIPIPPLE 352

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
            Q +I  +++  +     L+  I   I   K+     R   + 
Sbjct: 353 IQQEIVKILDQFSLLTTDLLAGIPAEIKARKKQYEYYREKLLT 395


>gi|269978332|gb|ACZ55900.1| putative type I restriction-modification system specificity subunit
           S [Helicobacter pylori]
          Length = 408

 Score = 71.0 bits (172), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 48/403 (11%), Positives = 116/403 (28%), Gaps = 32/403 (7%)

Query: 22  PKHWKVVPIKRFTKL-------NTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           PK  +   +    +         T +  +       +     ++    Y  +  N  Q+ 
Sbjct: 13  PKGVEFRKLGEVLEYDQPNKYCVTSKEFDKSYPTPVLTAG--KTFILGYTNEKDNIYQAS 70

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
            S+ +I                   +     + S+   +L  K+    +   +       
Sbjct: 71  KSSPAIIFDD--------FTTATQWVDFPFKVKSSAMKILFSKNPTINIRFIFFYM---Q 119

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
                I                + +PIPPL  Q  I + + A T     L TE    +  
Sbjct: 120 TIPYNIGGEHARHWISRYSQ--LEVPIPPLEIQQEIVKILDAFTELNTELNTELNTELNA 177

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
            K++ Q     ++    + +   KD+ I+                L  +           
Sbjct: 178 RKKQYQ-YYQNMLLDFNDINSNHKDAKIKSYPKRLKTL----LHTLAPKGVEFRKLGEVC 232

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
            I+        + L+     +          ++        I +     +       ++ 
Sbjct: 233 EIIRGKRVTKKEILDKGKYPVVSGGIGFMGYLNEYNREENTITIAQYGTAGFVNWQNQKF 292

Query: 315 IITSAYMAVKPHGID-STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
                  +V P     + YL +++ +        +  S +  S+   ++ ++ + +PP++
Sbjct: 293 WANDVCFSVIPKETLINRYLYYVLTNMQNYLYSISNRSAIPYSISSNNIMQITIPIPPLE 352

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
            Q +I  +++  +     L+  I   I   K+     R   + 
Sbjct: 353 IQQEIVKILDQFSLLTTDLLAGIPAEIKARKKQYEYYREKLLT 395


>gi|325681556|ref|ZP_08161080.1| hypothetical protein CUS_4505 [Ruminococcus albus 8]
 gi|324106755|gb|EGC01047.1| hypothetical protein CUS_4505 [Ruminococcus albus 8]
          Length = 61

 Score = 71.0 bits (172), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 30/58 (51%)

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            L   +PP++EQ  I   I+    R + ++   +Q I  ++E + S I   VTG+ ++
Sbjct: 2   ELLYPMPPVEEQQAIVEHIDSVLERTNAIIADKKQQIETIEEYKKSLIFEYVTGKKEV 59


>gi|284108609|ref|ZP_06386427.1| restriction modification system DNA specificity domain [Candidatus
           Poribacteria sp. WGA-A3]
 gi|283829889|gb|EFC34178.1| restriction modification system DNA specificity domain [Candidatus
           Poribacteria sp. WGA-A3]
          Length = 264

 Score = 71.0 bits (172), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 13/107 (12%), Positives = 35/107 (32%), Gaps = 4/107 (3%)

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKE 374
                + ++      S    + +      ++           +   DV  + + +P   E
Sbjct: 150 CTNQGFKSLVCKDGVSNEFLYYLLLTLKPQMIERAIGSTFLEIGKRDVTSIELCIPTYAE 209

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           Q  I  V++   A     +  +E+     +  +   +   +TG++ L
Sbjct: 210 QCAIATVLSDMDAE----IAVLERRRDKTRAVKQGMMQQLLTGRVRL 252



 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 33/194 (17%), Positives = 64/194 (32%), Gaps = 11/194 (5%)

Query: 24  HWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKY---LPKDGNSRQSD 74
            W+   +     +  G T  +         I +    D+ +  GKY     +   +    
Sbjct: 60  EWETTTVGEVADIRNGATPSTQIGAYWNGPIPWCTPTDITATPGKYLCATERSITAMGLA 119

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
               S+   G +L       + +  IA      +  F  L  KD +      + L + + 
Sbjct: 120 NCAASLLPVGALLLCS-RATIGEIKIAVSSVCTNQGFKSLVCKDGVSN-EFLYYLLLTLK 177

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
            ++     G+T      + + +I + IP  AEQ  I   +      I  L   R +   +
Sbjct: 178 PQMIERAIGSTFLEIGKRDVTSIELCIPTYAEQCAIATVLSDMDAEIAVLERRRDKTRAV 237

Query: 195 LKEKKQALVSYIVT 208
            +   Q L++  V 
Sbjct: 238 KQGMMQQLLTGRVR 251



 Score = 44.8 bits (104), Expect = 0.028,   Method: Composition-based stats.
 Identities = 11/61 (18%), Positives = 23/61 (37%), Gaps = 4/61 (6%)

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGE 424
             + +PP  EQ  I   ++     +  L   I +     +  + + +   +T +  L G 
Sbjct: 2   FQIPLPPPSEQRAIAEALSDVDGLLAALEALIAKK----RAIKQATMQQLLTSKTRLPGF 57

Query: 425 S 425
           S
Sbjct: 58  S 58


>gi|260102293|ref|ZP_05752530.1| type I restriction-modification system specificity subunit
           [Lactobacillus helveticus DSM 20075]
 gi|260083890|gb|EEW68010.1| type I restriction-modification system specificity subunit
           [Lactobacillus helveticus DSM 20075]
          Length = 194

 Score = 71.0 bits (172), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 24/185 (12%), Positives = 61/185 (32%), Gaps = 16/185 (8%)

Query: 232 WEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ--IVDPG 289
           WE +           ++            Y  +    + +N  + P  + T      +  
Sbjct: 20  WEQRKLGEEAQLTMGQSPNSENYTKNPDDYILVQGNADMKNGRVVPRVWTTQITKKAEKS 79

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
           +++        D        V+ RG+              + ++   +    L   +   
Sbjct: 80  DLILSVRAPVGDIGKTDYDVVLGRGVAA---------IKGNEFIFQQLGKMKLTGYWTRY 130

Query: 350 GSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
            +G   +S+   D+K   ++VP  +EQ  I +       ++D L+   ++ +  L+E + 
Sbjct: 131 STGSTFESINSNDIKDAKIMVPVEEEQQKIGSF----FQQLDHLITLHQRKLEKLQELKK 186

Query: 409 SFIAA 413
            ++  
Sbjct: 187 GYLQK 191



 Score = 44.0 bits (102), Expect = 0.052,   Method: Composition-based stats.
 Identities = 25/179 (13%), Positives = 49/179 (27%), Gaps = 5/179 (2%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+   +    +L  G++  S           +  G           R   T       K 
Sbjct: 20  WEQRKLGEEAQLTMGQSPNSENYTKNPDDYILVQGNADMKNGRVVPRVWTTQITKKAEKS 79

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            ++     P        D+D +       ++  + +       L  + +T        G+
Sbjct: 80  DLILSVRAPV-GDIGKTDYDVVLGRGVAAIKGNEFI----FQQLGKMKLTGYWTRYSTGS 134

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           T    +   I +  + +P   EQ  I          I     +  +  EL K   Q + 
Sbjct: 135 TFESINSNDIKDAKIMVPVEEEQQKIGSFFQQLDHLITLHQRKLEKLQELKKGYLQKMF 193


>gi|167855557|ref|ZP_02478318.1| putative type I restriction enzyme HindVIIP specificity protein
           [Haemophilus parasuis 29755]
 gi|167853303|gb|EDS24556.1| putative type I restriction enzyme HindVIIP specificity protein
           [Haemophilus parasuis 29755]
          Length = 458

 Score = 71.0 bits (172), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 53/462 (11%), Positives = 127/462 (27%), Gaps = 79/462 (17%)

Query: 29  PIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF- 81
            +  F ++  G   +S +       +  I + ++  G+   L    +           F 
Sbjct: 3   KLGDFVRVQGGYAFKSSELSDDKTGVPVIKIGNITGGSFVDLSNYQSVSFQLFEKTKSFA 62

Query: 82  -AKGQILYGKLGPYLRK---AIIADFDGICSTQFLVLQPKDVLPE---LLQGWLLSIDVT 134
                IL    G  + K     +     + + +      K+  P     +   + S    
Sbjct: 63  TKDNDILIAMTGANVGKTSRVPVNSDAYLINQRVGRFLLKEDCPYTSDFIYYVVSSKQAY 122

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           Q    + +GA   +   K I ++  P         I   + +   +I           ++
Sbjct: 123 QYFSRVADGAAQPNISGKTIEDLEFPNIDSRCANKIGNILKSLDDKIQLNTQINQTLEQI 182

Query: 195 LKEKKQALVSYI--------------------------------------------VTKG 210
            +   ++                                                   + 
Sbjct: 183 AQTIFKSWFIDFDPVHAKANALASGQTAEQATQAAMAVISGKNTQELHRLQTANPEQYQQ 242

Query: 211 LNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR---KNTKLIESNILSLSYGNIIQK 267
           L    +   SG +  G VP  WE      + +  N    K++   E  I  +  G++   
Sbjct: 243 LWEITEAFPSGFDEEG-VPRGWEQTTLSEVCSMKNGYAFKSSDWTEEGIPVIKIGSVKPM 301

Query: 268 L-ETRNMGLKPESYE---TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
           + E    G   E +    +  ++  G+IV        +   +         ++       
Sbjct: 302 IVEVDGNGFVDEEHSVLHSEFLLTEGDIVVGLTGYVGEVGRIP---QGRTAMLNQRVAKF 358

Query: 324 KPHGIDSTYLAWLM-----RSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFD 377
            P+ ++     +       R             G  + ++  +++    +++   + Q  
Sbjct: 359 IPNKLNEQQDYYSFVYCLVRDKSFKAFAETNAKGSAQANISTKELLNYSIILASPEIQMK 418

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
             ++I     +I  LV         L + R   +   ++G+I
Sbjct: 419 FESLIKPLLDKI--LVNSGNN--EYLSKVRDLLLPNLLSGEI 456



 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 21/172 (12%), Positives = 50/172 (29%), Gaps = 11/172 (6%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESG----KDIIYIGLEDVESGTGKYLPKDGNSRQ-SDT 75
           +P+ W+   +     +  G   +S     + I  I +  V+    +         + S  
Sbjct: 259 VPRGWEQTTLSEVCSMKNGYAFKSSDWTEEGIPVIKIGSVKPMIVEVDGNGFVDEEHSVL 318

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFD-GICSTQFLVLQPK-----DVLPELLQGWLL 129
            +  +  +G I+ G  G       I      + + +     P            +   + 
Sbjct: 319 HSEFLLTEGDIVVGLTGYVGEVGRIPQGRTAMLNQRVAKFIPNKLNEQQDYYSFVYCLVR 378

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
                   E   +G+  ++   K + N  + +     Q+     I     +I
Sbjct: 379 DKSFKAFAETNAKGSAQANISTKELLNYSIILASPEIQMKFESLIKPLLDKI 430


>gi|257463921|ref|ZP_05628307.1| hypothetical protein FuD12_08734 [Fusobacterium sp. D12]
 gi|317061448|ref|ZP_07925933.1| predicted protein [Fusobacterium sp. D12]
 gi|313687124|gb|EFS23959.1| predicted protein [Fusobacterium sp. D12]
          Length = 124

 Score = 71.0 bits (172), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 18/92 (19%), Positives = 40/92 (43%), Gaps = 6/92 (6%)

Query: 330 STYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
             ++ +  R+ +         +G   +++    V+   + +PP++EQ +I  V+     +
Sbjct: 13  KNFILYFFRTMNFINYIIKFATGSTIKNVSLNTVRESYIPLPPLEEQQEIVRVLEEVLEK 72

Query: 389 IDVLVEKI--EQSIVLLKERRSSFIAAAVTGQ 418
              + E I  E+ I LL+    S +  A  G+
Sbjct: 73  EKKVKELIDLEEKIDLLE---KSILDKAFRGK 101


>gi|317505565|ref|ZP_07963476.1| type I restriction-modification system [Prevotella salivae DSM
           15606]
 gi|315663313|gb|EFV03069.1| type I restriction-modification system [Prevotella salivae DSM
           15606]
          Length = 435

 Score = 71.0 bits (172), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 64/423 (15%), Positives = 121/423 (28%), Gaps = 53/423 (12%)

Query: 20  AIPKHWKVVPIKRFTK-LNTGRTSESGKD-IIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
            +P  W    +      L+ G++   G D I+ I  +        Y  +   S ++    
Sbjct: 11  EVPSSWGWCRLGTICNYLHRGKSPRYGNDKILPIMAQKCNQWDRIYTDRCLFSDKAFIEK 70

Query: 78  VS---IFAKGQILYGKLGPYLRKAIIADFDGIC---------STQFLVLQPKDVLPELLQ 125
                    G ++    G             +          S   +V   K V    + 
Sbjct: 71  YKEEQYLQVGDVIVNSTGGGTVGRTGYIEKYVFEKYTKFVADSHVTVVRTNKLVSSRYIY 130

Query: 126 GWLLSIDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
            +L+S  +   +E  C G+T         I N  +P+PP AEQ  I EKI      ++  
Sbjct: 131 YYLISPFIQIGLEERCSGSTNQIELGTASIYNNIIPLPPYAEQKRIIEKIAEVIPVVNRF 190

Query: 185 ITERIRFIELLK----EKKQALVSYIVTKGLNPDVKMK---------------------- 218
             ++    +L +       ++++   +   L P                           
Sbjct: 191 GEKQDFLEKLNQGLKPSLHKSILQEAIQGRLVPQDPNDEPASALLDKIQAEKVRLVKKGI 250

Query: 219 ------DSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
                  + I + G    ++E     +   E +       E   L+     I  +    N
Sbjct: 251 LKKKDLQTSIIYKGENNKYYEQVGGTSQQIETDYDFPNHWEVVRLAHICRLIDGEKREGN 310

Query: 273 MGLKPESY----ETYQIVDPGEIVFRFIDLQNDKR--SLRSAQVMERGIITSAYMAVKPH 326
                  Y     T  ++  G+ V    ++       S     V   G + S +  +   
Sbjct: 311 FVCLDAKYLRGKSTGNLLCKGKFVRTGDNIILVDGENSGEVFPVPCDGYMGSTFKQLWVS 370

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
                        +    +  +        L  E    L + +PP KEQ  I   + + T
Sbjct: 371 EAMHLPYVLYFIQFYKDLLRNSKKGAAVPHLNKEIFYSLVIGIPPCKEQMRIAKQVKLLT 430

Query: 387 ARI 389
            +I
Sbjct: 431 DKI 433


>gi|313159677|gb|EFR59034.1| type I restriction modification DNA specificity domain protein
           [Alistipes sp. HGB5]
          Length = 335

 Score = 71.0 bits (172), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 28/215 (13%), Positives = 76/215 (35%), Gaps = 18/215 (8%)

Query: 218 KDSGIEWVGLVPDHWEVKPFFALVT---ELNRKNTKLIESNILSLSYGNIIQKLE----- 269
           K    E    +P  WE     ++V+   +      +  E   +    GN +   +     
Sbjct: 77  KCIDEEIPFEIPATWEWCRLLSIVSLLGDGIHGTPEYSEGGSVYFINGNNLFDGQILIKP 136

Query: 270 TRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID 329
                 K E+ +  ++++   ++        +        V+   +  SA      +GI+
Sbjct: 137 DTKTVSKEEAVKHSRLLNESTVLVSINGTIGNIAFYSGENVI---LGKSACYFNLLNGIE 193

Query: 330 STYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
             Y+  ++++    +    + +G   +++    ++ + + +PP  EQ  I + ++     
Sbjct: 194 RKYIKIVLQTDYFLEYTKRVATGSTIKNVPLSGMRNVLIPIPPKDEQQVIIDKLSSLKLL 253

Query: 389 IDVLVEKIEQSIVLLKE-----RRSSFIAAAVTGQ 418
           I+      +  +  L        + S +  A+ G+
Sbjct: 254 IEKF-NIEQSQLNKLNAELRSVLKKSILQEAIQGK 287



 Score = 53.6 bits (127), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 32/217 (14%), Positives = 79/217 (36%), Gaps = 11/217 (5%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRT-----SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
            IP  W+   +     L             G  + +I   ++  G     P      + +
Sbjct: 86  EIPATWEWCRLLSIVSLLGDGIHGTPEYSEGGSVYFINGNNLFDGQILIKPDTKTVSKEE 145

Query: 75  TST-VSIFAKGQILYGKLGPYLRKAIIADFDGICS-TQFLVLQPKDVLPELLQGWLLSID 132
                 +  +  +L    G     A  +  + I   +         +  + ++  L +  
Sbjct: 146 AVKHSRLLNESTVLVSINGTIGNIAFYSGENVILGKSACYFNLLNGIERKYIKIVLQTDY 205

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
             +  + +  G+T+ +    G+ N+ +PIPP  EQ +I +K+ +  + I+    E+ +  
Sbjct: 206 FLEYTKRVATGSTIKNVPLSGMRNVLIPIPPKDEQQVIIDKLSSLKLLIEKFNIEQSQLN 265

Query: 193 ELLKEKK----QALVSYIVTKGLNPDVKMKDSGIEWV 225
           +L  E +    ++++   +   L P +  + +  E +
Sbjct: 266 KLNAELRSVLKKSILQEAIQGKLLPQITEEGTAQELL 302


>gi|221195889|ref|ZP_03568941.1| HsdS specificity protein of type I restriction-modification system
           [Atopobium rimae ATCC 49626]
 gi|221184236|gb|EEE16631.1| HsdS specificity protein of type I restriction-modification system
           [Atopobium rimae ATCC 49626]
          Length = 191

 Score = 71.0 bits (172), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 29/195 (14%), Positives = 57/195 (29%), Gaps = 16/195 (8%)

Query: 228 VPDHWEVKPFFALVTELNRK------NTKLIESNILSLSYGNIIQKLETRNMGLKPES-- 279
           +P  WE +    ++            N       I  L   +I  +          E   
Sbjct: 1   MPSSWEQRKLGEIIQLGGSGGTPSATNPNYYGGEIPFLGIADIEGRDIAHTAKTLTEEGL 60

Query: 280 -YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
                 IV  G +             +R      +       M  +   I       L +
Sbjct: 61  RNSAAWIVPAGAVSLAMYASVGKVGIIRQDTATSQAFYN---MVFEDVAIRDFVFTRLEK 117

Query: 339 SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
           +    +    + +G +++L  + VK   + VP  +E   I        A +D L+   ++
Sbjct: 118 ADAGFEWEPYISTGTQRNLNADKVKAFAIAVPSSREAAKIGRY----FANLDTLITLHQR 173

Query: 399 SIVLLKERRSSFIAA 413
               LK+ + S +  
Sbjct: 174 KSEKLKQLKQSMLEK 188



 Score = 62.5 bits (150), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 35/193 (18%), Positives = 65/193 (33%), Gaps = 11/193 (5%)

Query: 22  PKHWKVVPIKRFTKLN-TGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           P  W+   +    +L  +G T  +      G +I ++G+ D+E     +  K        
Sbjct: 2   PSSWEQRKLGEIIQLGGSGGTPSATNPNYYGGEIPFLGIADIEGRDIAHTAKTLTEEGLR 61

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
            S   I   G +         +  II          + ++     + + +   L   D  
Sbjct: 62  NSAAWIVPAGAVSLAMYASVGKVGIIRQDTATSQAFYNMVFEDVAIRDFVFTRLEKADAG 121

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
              E      T  + +   +    + +P   E      KI      +DTLIT   R  E 
Sbjct: 122 FEWEPYISTGTQRNLNADKVKAFAIAVPSSRE----AAKIGRYFANLDTLITLHQRKSEK 177

Query: 195 LKEKKQALVSYIV 207
           LK+ KQ+++  + 
Sbjct: 178 LKQLKQSMLEKMF 190


>gi|332362407|gb|EGJ40207.1| hypothetical protein HMPREF9393_0205 [Streptococcus sanguinis
           SK1056]
          Length = 146

 Score = 71.0 bits (172), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 20/142 (14%), Positives = 50/142 (35%), Gaps = 2/142 (1%)

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD 341
               V  G+I+            +                 V  H +    + +      
Sbjct: 5   KNFSVVSGDILLTTRGTIGRIAIVPKDYFEGVLHPCLMKFRVDSHIVQPKLIKYFFNDIT 64

Query: 342 LCKVFYA--MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
             K        S     +   ++K + + + P++EQ+ I   ++ + + +D L++  ++ 
Sbjct: 65  FVKEQLKFLSNSTTIDVIYSYNLKNIIIPIIPMEEQYGIVEYLDKQCSNVDALIKVKQEQ 124

Query: 400 IVLLKERRSSFIAAAVTGQIDL 421
           I  + ++R + I   VTG+  +
Sbjct: 125 IKNINKQRQTLIYDYVTGKRRV 146


>gi|315152756|gb|EFT96772.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX0031]
          Length = 197

 Score = 71.0 bits (172), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 26/163 (15%), Positives = 59/163 (36%), Gaps = 8/163 (4%)

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVF----RFIDLQNDKRSLRSAQ 309
             ++S+    +  K   +N+          ++V  GE+      +  +     RSL   +
Sbjct: 39  YKVISIGSYGLDSKYVDQNIRAVSNEVTDSRVVRNGELTMVLNDKTANGTIIGRSLLIEE 98

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
             +  I     +       DS +   ++       V   +  G +  + +  V  L + +
Sbjct: 99  DNKYVINQRTEIISPKENFDSNFAYTILNGPFRESVKRIVQGGTQIYVNYPAVSNLVLKL 158

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           P ++EQ  I         ++D  +   ++ + LLKE +  F+ 
Sbjct: 159 PDVEEQKKIGLF----FKQLDDTIALQQRKLDLLKETKKGFLQ 197



 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 29/192 (15%), Positives = 72/192 (37%), Gaps = 14/192 (7%)

Query: 23  KHWKVVPIKRFTKLNTGRTSES--GKDIIYIGLEDVESG-TGKYLPKDGNSRQSDTSTVS 79
           + W+   +        G   E    +D  Y  +     G   KY+ ++  +  ++ +   
Sbjct: 10  EDWEERKLSEVANHRGGTAIEKYFKEDGKYKVISIGSYGLDSKYVDQNIRAVSNEVTDSR 69

Query: 80  IFAKGQI--LYGKLGPYLRKAII-----ADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
           +   G++  +                   D   + + +  ++ PK+         +L+  
Sbjct: 70  VVRNGELTMVLNDKTANGTIIGRSLLIEEDNKYVINQRTEIISPKENFDSNFAYTILNGP 129

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
             + ++ I +G T  + ++  + N+ + +P + EQ  I         ++D  I  + R +
Sbjct: 130 FRESVKRIVQGGTQIYVNYPAVSNLVLKLPDVEEQKKIGLF----FKQLDDTIALQQRKL 185

Query: 193 ELLKEKKQALVS 204
           +LLKE K+  + 
Sbjct: 186 DLLKETKKGFLQ 197


>gi|167912944|ref|ZP_02500035.1| restriction modification system DNA specificity domain
           [Burkholderia pseudomallei 112]
          Length = 367

 Score = 71.0 bits (172), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 26/193 (13%), Positives = 62/193 (32%), Gaps = 10/193 (5%)

Query: 228 VPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLE--TRNMGLKPESYETYQI 285
             ++  ++   +    L     ++ E  +L L   NI        +++    +      +
Sbjct: 25  EWENKPLRTLGSFFRGLTYSADEVSEEGLLVLRSSNIQDGSLVLDKDLVFVDKPCPDDLL 84

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV 345
           +  G++     +         +          +             +   + ++    K 
Sbjct: 85  LQDGDVAICMSNGSKALVGKSAEFQNNYDGQLTVGAFCSIFRPSLEFAKLIFQTPRYSKF 144

Query: 346 FY-AMGSGLRQSLKFEDVKRLPVLVP--PIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
              A+G G  ++LK  D++     VP  P+ EQ  I + +    A +D L+    Q +  
Sbjct: 145 VSIAIGGGNIKNLKNSDLEEFEHPVPRMPL-EQQKIADCL----AFLDELISAENQKLST 199

Query: 403 LKERRSSFIAAAV 415
           LK  +   +    
Sbjct: 200 LKAHKKGMLQQLF 212



 Score = 60.6 bits (145), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 41/360 (11%), Positives = 106/360 (29%), Gaps = 39/360 (10%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSE----SGKDIIYIGLEDVESGTG 61
            +P+++++G          W+  P++       G T      S + ++ +   +++ G+ 
Sbjct: 16  RFPEFREAG---------EWENKPLRTLGSFFRGLTYSADEVSEEGLLVLRSSNIQDGSL 66

Query: 62  KYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAI-------IADFDGICSTQFLVL 114
             L KD            +   G +                      D          + 
Sbjct: 67  -VLDKDLVFVDKPCPDDLLLQDGDVAICMSNGSKALVGKSAEFQNNYDGQLTVGAFCSIF 125

Query: 115 QPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLA-EQVLIREK 173
           +P     +L+                  G  + +     +     P+P +  EQ  I + 
Sbjct: 126 RPSLEFAKLIFQTPRYSKFVSI---AIGGGNIKNLKNSDLEEFEHPVPRMPLEQQKIADC 182

Query: 174 IIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWE 233
           +          I+   + +  LK  K+ ++  +  +      +++       G       
Sbjct: 183 LAFLDEL----ISAENQKLSTLKAHKKGMLQQLFPREGEVVPRLRFPAFRKAGAWAKVAA 238

Query: 234 VKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVF 293
            + F        +       +    L     + +                + V  G+I +
Sbjct: 239 GQLFSNRTERGEQGLPIYSVTMTEGLVPRASLDRRIDDI-----AEAGANKAVRRGDIAY 293

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH-GIDSTYLAWLMRSYDLCKVFYAMGSG 352
             + +      +      E  +++ AY+ ++P  G+D  +  +L++  +  +V  A   G
Sbjct: 294 NMMRMWQGALGVAP----EDCMVSPAYIVLEPQAGVDPVFFYFLLKRPETLQVLTAHSRG 349


>gi|315918352|ref|ZP_07914592.1| type I restriction system specificity protein [Fusobacterium
           gonidiaformans ATCC 25563]
 gi|313692227|gb|EFS29062.1| type I restriction system specificity protein [Fusobacterium
           gonidiaformans ATCC 25563]
          Length = 241

 Score = 70.6 bits (171), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 32/168 (19%), Positives = 71/168 (42%), Gaps = 6/168 (3%)

Query: 245 NRKNTKLIESNILSLSYGNIIQKLETR----NMGLKPESYETYQIVDPGEIVFRFIDLQN 300
             K        +L++ YG+I  K         + +  E+ +  + V  G +V        
Sbjct: 59  MPKTMFDNHGEVLAIHYGHIYTKYNIFVKEPIVKVSMENAKNLKKVKKGNLVIAKTSENL 118

Query: 301 DKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR-SYDLCKVFYAMGSGLRQ-SLK 358
           D      A + E  ++T  + A+  HG +  YL+++   +    K    +  G++   L 
Sbjct: 119 DDVMKTVAYLGEDEVVTGGHSAIFRHGANPKYLSYVFNGADYFIKQKNKLAHGVKVIELS 178

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
             D+++  +L+PPI  Q  I ++++      + L + + + I L +++
Sbjct: 179 TTDMEKFQILIPPIHIQEYIVSILDKFDMLTNDLTQGLPREIELRQKQ 226



 Score = 54.0 bits (128), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 18/194 (9%), Positives = 57/194 (29%), Gaps = 11/194 (5%)

Query: 27  VVPIKRFTKLNTGR-----TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT-STVSI 80
              +    +   G        ++  +++ I    + +    ++ +       +    +  
Sbjct: 44  WKRLGEVGRFENGTGMPKTMFDNHGEVLAIHYGHIYTKYNIFVKEPIVKVSMENAKNLKK 103

Query: 81  FAKGQILYGKL----GPYLRKAIIADFDGICSTQFLVLQPKDVLPEL-LQGWLLSIDVTQ 135
             KG ++  K        ++       D + +     +      P+     +  +    +
Sbjct: 104 VKKGNLVIAKTSENLDDVMKTVAYLGEDEVVTGGHSAIFRHGANPKYLSYVFNGADYFIK 163

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
           +   +  G  +       +    + IPP+  Q  I   +    +  + L     R IEL 
Sbjct: 164 QKNKLAHGVKVIELSTTDMEKFQILIPPIHIQEYIVSILDKFDMLTNDLTQGLPREIELR 223

Query: 196 KEKKQALVSYIVTK 209
           +++ +     +   
Sbjct: 224 QKQYEYYREKLFDF 237


>gi|217033243|ref|ZP_03438677.1| hypothetical protein HPB128_149g1 [Helicobacter pylori B128]
 gi|216945022|gb|EEC23753.1| hypothetical protein HPB128_149g1 [Helicobacter pylori B128]
          Length = 228

 Score = 70.6 bits (171), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 20/175 (11%), Positives = 64/175 (36%), Gaps = 11/175 (6%)

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID------LQNDK 302
           ++  +  +  ++  N  Q        ++    E    +  G+++F            +  
Sbjct: 46  SQGNKFYVPYINVFNNPQLDLNALESVQIGDKEKQNTIQLGDVLFTGSSENLEDCAMSCV 105

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFED 361
            + +  + +        +     +  + ++L   +R Y+  K    + +G  R ++  + 
Sbjct: 106 VTQKIEKDIYLNSFCFGFRFFDENLFNPSFLKHFLRDYNFRKNISKVANGVTRFNVSKQL 165

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           + ++ + +PP++ Q +I  +++  +     L+  I   I   K+     R   + 
Sbjct: 166 LSKITIPIPPLEIQQEIVKILDQFSILTTDLLAGIPAEIKARKKQYEYYREKLLT 220



 Score = 50.6 bits (119), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 26/171 (15%), Positives = 54/171 (31%), Gaps = 15/171 (8%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGK-----DIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           PK  +   +    +   G   ++ K     +  Y+   +V +     L    + +  D  
Sbjct: 19  PKGVEFRKLGDIGEFYGGLVGKNKKSFSQGNKFYVPYINVFNNPQLDLNALESVQIGDKE 78

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIAD----------FDGICSTQFLVLQPKDVLPELLQG 126
             +    G +L+      L    ++           +       F         P  L+ 
Sbjct: 79  KQNTIQLGDVLFTGSSENLEDCAMSCVVTQKIEKDIYLNSFCFGFRFFDENLFNPSFLKH 138

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
           +L   +  + I  +  G T  +   + +  I +PIPPL  Q  I + +   
Sbjct: 139 FLRDYNFRKNISKVANGVTRFNVSKQLLSKITIPIPPLEIQQEIVKILDQF 189


>gi|317014806|gb|ADU82242.1| type I R-M system specificity subunit [Helicobacter pylori
           Gambia94/24]
          Length = 185

 Score = 70.6 bits (171), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 17/130 (13%), Positives = 44/130 (33%), Gaps = 6/130 (4%)

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID--STYLAWLMRSYDLCKVFYAMGS 351
             I +     +        +         V P+     + +L + ++         +  +
Sbjct: 57  NTITIAQYGTAGYVNFQKNKFWANDICFCVYPNKDVIKNIFLYYFLKVNQNYLYEISNRN 116

Query: 352 GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
               S+  + +    +L+PP+ EQ  I N+++     I  L  K  Q     +  + +  
Sbjct: 117 ATPYSISKDKILDFEILLPPLNEQAAIANILSDVDHEIISLKNKKRQ----FENVKKALN 172

Query: 412 AAAVTGQIDL 421
              ++ +I +
Sbjct: 173 HDLMSAKIRV 182



 Score = 52.9 bits (125), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 32/182 (17%), Positives = 60/182 (32%), Gaps = 10/182 (5%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           ++WK V +    ++  G      +  ++     V  G G     +  +R           
Sbjct: 6   QNWKKVRLGDIAEIKRGVRITKNELDVFGKYPVVSGGVGFLGYTNNFNR----------Y 55

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           +  I   + G         +        F V   KDV+  +   + L ++     E    
Sbjct: 56  ENTITIAQYGTAGYVNFQKNKFWANDICFCVYPNKDVIKNIFLYYFLKVNQNYLYEISNR 115

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
            AT        I +  + +PPL EQ  I   +      I +L  ++ +F  + K     L
Sbjct: 116 NATPYSISKDKILDFEILLPPLNEQAAIANILSDVDHEIISLKNKKRQFENVKKALNHDL 175

Query: 203 VS 204
           +S
Sbjct: 176 MS 177


>gi|327467254|gb|EGF12758.1| type Ic restriction-modification system [Streptococcus sanguinis
           SK330]
          Length = 406

 Score = 70.6 bits (171), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 45/396 (11%), Positives = 104/396 (26%), Gaps = 27/396 (6%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W    I     ++ G   +  +         + +       K       D          
Sbjct: 28  WVEKRIADIVNISAGGDVDKERLKESGKYPVIANA---LTNKGIVGFYDD----YKVKAP 80

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            +     G         +          +      +           +    +  + E  
Sbjct: 81  AVTVTGRGDVGYAVARHENFTPIVRLLTLQSENIDVD-------YLENQINSMRILNEST 133

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
            +       +GN  +  P + EQ  I          + +       +          +  
Sbjct: 134 GVPQLTAPQLGNYKVYHPEIDEQSAIGSLFRTLDDFLASYKDNLANYQSFKATMLSKMFP 193

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
                   P++++     EW  +       +    L  EL+  +  L      ++S GN+
Sbjct: 194 KAGQS--VPEIRLDGFEGEWRIIKLGDVLSELKSGLSRELSNDDIGLPVIRANNISDGNL 251

Query: 265 IQKLETRNMGLKPES--YETYQIVDPGEIVFRFID--LQNDKRSLRSAQVMERGIITSAY 320
               + +    +           V   +I+  FI+   +    ++ S +     I T+  
Sbjct: 252 NLDRDIKYWFKEDPKGANTANYFVKENDILVNFINSEAKMGTAAIVSREPDRETIYTTNI 311

Query: 321 MAVKPHGIDSTYLAWLMRS-YDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFD 377
           + +        Y  +LM           ++      + S    D K+   L P  +EQ  
Sbjct: 312 LKLTVKEDYYPYFIYLMTFVQSYQNYIKSITKPAVNQASFTTVDFKKYEFLCPAFQEQQS 371

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           I        + +D L+   ++ I  L+  +   +  
Sbjct: 372 IGTY----FSNLDSLIAAHQEKISQLETLKKKLLHD 403


>gi|148983885|ref|ZP_01817204.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP3-BS71]
 gi|147924032|gb|EDK75144.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP3-BS71]
 gi|301799573|emb|CBW32125.1| putative type I restriction-modification system S protein
           [Streptococcus pneumoniae OXC141]
          Length = 424

 Score = 70.6 bits (171), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 59/411 (14%), Positives = 128/411 (31%), Gaps = 61/411 (14%)

Query: 42  SESGKDIIYIGLEDVESGTGKYLPKDG---NSRQSDTSTVSIFAKGQILYGKLGPYLRKA 98
           ++  K   YI    ++        K+    +  Q+ +    + ++  +L+  + PYL+  
Sbjct: 13  NKPEKSFRYIDTSSIDRKKNIINYKNLQYLSPEQAPSRARKLVSQNSVLFSTVRPYLKNI 72

Query: 99  IIA---DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIG 155
            +        I ST F+VL        L   +LLS +   R+     G +    +     
Sbjct: 73  AVVRELKEYLIASTAFIVLDTLLNETYLKY-YLLSDNFINRVNNKSTGTSYPAINDYNFN 131

Query: 156 NIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK----QALVSYIVTKGL 211
            + +P+PPL+EQ  I E I +   ++D       R  +L KE      ++++ Y +   L
Sbjct: 132 LLLIPLPPLSEQQRIVEAIESALEKVDEYAESYNRLEQLDKEFPDKLKKSILQYAMQGKL 191

Query: 212 NPDVKMKDS-----------------------------------GIEWVGLVPDHWEVKP 236
                  +S                                      + G +P +W V  
Sbjct: 192 VEQDPNDESVEVLLEKIRAEKQKLFEEGKIKKKDLDISIVSQGDDNSYYGNIPMNWVVIK 251

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY--------ETYQIVDP 288
              + +     + K  + +I           ++     L    Y             +  
Sbjct: 252 IKDIFSINTGLSYKKGDLSINKGVRIIRGGNIKPLEFSLLDNDYYIDTQFISSEQVYLKH 311

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA----VKPHGIDSTYLAWLMRSYDLCK 344
            +++                     G++   ++      +   I S +L + + S    K
Sbjct: 312 NQLITPVSTSLEHIGKFARIDKDYDGVVAGGFIFQLTPFESSEIISKFLLFNLSSPLFYK 371

Query: 345 VFY---AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
                  +      ++    +  L + + P +EQ  IT  +     +++ L
Sbjct: 372 QLKAITKLSGQALYNIPKTTLSELLIPLAPFEEQELITQKVEKLFEKVNQL 422



 Score = 53.6 bits (127), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 29/192 (15%), Positives = 66/192 (34%), Gaps = 7/192 (3%)

Query: 232 WEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEI 291
             +K  +    +   + +             NII     + +  +       ++V    +
Sbjct: 1   MRIKSIYWNFGQNKPEKSFRYIDTSSIDRKKNIINYKNLQYLSPEQAPSRARKLVSQNSV 60

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
           +F  +       ++     ++  +I S    V    ++ TYL + + S +         +
Sbjct: 61  LFSTVRPYLKNIAVVR--ELKEYLIASTAFIVLDTLLNETYLKYYLLSDNFINRVNNKST 118

Query: 352 GLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----R 406
           G    ++   +   L + +PP+ EQ  I   I     ++D   E   +   L KE     
Sbjct: 119 GTSYPAINDYNFNLLLIPLPPLSEQQRIVEAIESALEKVDEYAESYNRLEQLDKEFPDKL 178

Query: 407 RSSFIAAAVTGQ 418
           + S +  A+ G+
Sbjct: 179 KKSILQYAMQGK 190



 Score = 47.5 bits (111), Expect = 0.004,   Method: Composition-based stats.
 Identities = 36/183 (19%), Positives = 74/183 (40%), Gaps = 16/183 (8%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSES-----GKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
           G IP +W V+ IK    +NTG + +       K +  I   +++      L  D      
Sbjct: 241 GNIPMNWVVIKIKDIFSINTGLSYKKGDLSINKGVRIIRGGNIKPLEFSLLDNDYYIDTQ 300

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIA-----DFDGICSTQFLV----LQPKDVLPELL 124
             S+  ++ K   L   +   L           D+DG+ +  F+      +  +++ + L
Sbjct: 301 FISSEQVYLKHNQLITPVSTSLEHIGKFARIDKDYDGVVAGGFIFQLTPFESSEIISKFL 360

Query: 125 QGWLLSIDVTQRIEAICE--GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
              L S    ++++AI +  G  + +     +  + +P+ P  EQ LI +K+     +++
Sbjct: 361 LFNLSSPLFYKQLKAITKLSGQALYNIPKTTLSELLIPLAPFEEQELITQKVEKLFEKVN 420

Query: 183 TLI 185
            L 
Sbjct: 421 QLW 423


>gi|291530636|emb|CBK96221.1| Restriction endonuclease S subunits [Eubacterium siraeum 70/3]
          Length = 379

 Score = 70.6 bits (171), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 55/390 (14%), Positives = 108/390 (27%), Gaps = 48/390 (12%)

Query: 25  WKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDV-ESGTGKYLPKDGNSRQSDTST 77
           W    +    ++  G T ++        DI +    +V          +         S+
Sbjct: 22  WSTYHLSDIAEVVGGGTPDTTVSSLWNGDIQWFTPTEVGHQKYVSKSARTITQLGLQKSS 81

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
                 G IL       + +  IA  +   +  F  L PK         +L         
Sbjct: 82  AKKLPAGSILLSS-RATIGECSIAQRECTTNQGFQNLIPKKDTNNEFLYYLAQTK-KHHF 139

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
                G+T        I      +P   EQ  I   + A   RI            L KE
Sbjct: 140 IKYASGSTFLEISNSEIKKTKCTVPGTEEQTQIAAFLSALDDRIAVQNKIIEDLKVLKKE 199

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
              +L+  I+                                ++      N  +     +
Sbjct: 200 LNYSLIGRIINGK---------------------SSNCKIEDVIDYEQPTNYIVKSDKYI 238

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
                 ++   +   +G   E+   Y   +  + +       + K      ++    I  
Sbjct: 239 ENGETPVLTANKAFLLGYTIENEGVY---NKSDCIILDDFTLDFKYVNFPFKIKSSAI-- 293

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFD 377
              +      I+  Y    +       +F  + S   +     +V  LP+ +P I EQ +
Sbjct: 294 --KILTAKKDIELRYFYEYL-------LFLGLTSHEHKRHYISEVAPLPLYLPSIDEQRN 344

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERR 407
             +V+N  + +    ++  E  I  LK ++
Sbjct: 345 ALSVLNSISKK----IKVEENYISALKAQK 370



 Score = 61.0 bits (146), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 16/129 (12%), Positives = 36/129 (27%), Gaps = 8/129 (6%)

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL 353
             I L +       +           +  + P    +    + +                
Sbjct: 88  GSILLSSRATIGECSIAQRECTTNQGFQNLIPKKDTNNEFLYYLAQTKKHHFIKYASGST 147

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS----S 409
              +   ++K+    VP  +EQ  I   ++     +D  +    + I  LK  +     S
Sbjct: 148 FLEISNSEIKKTKCTVPGTEEQTQIAAFLSA----LDDRIAVQNKIIEDLKVLKKELNYS 203

Query: 410 FIAAAVTGQ 418
            I   + G+
Sbjct: 204 LIGRIINGK 212


>gi|330941026|gb|EGH43948.1| restriction modification system DNA specificity subunit
           [Pseudomonas syringae pv. pisi str. 1704B]
          Length = 280

 Score = 70.6 bits (171), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 30/218 (13%), Positives = 64/218 (29%), Gaps = 9/218 (4%)

Query: 206 IVTKGLNPDVKMKDSGIE-WVGLVPDHWEVKPFFALVTELNRKN--TKLIESNILSLSYG 262
            V   +     + + G E     +P  W+      +     R      L  S +     G
Sbjct: 60  AVEGKIKKKKPLAEVGEEAEPFELPAGWKWSSLAQVAFVNPRNAAADSLEVSFVPMTFIG 119

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS---- 318
                   +   L  E  + +     G+I    I    +         +  G+       
Sbjct: 120 TRFDDQHGQEPRLWGELKQGFTHFAEGDIGVAKITPCFENSKACVFSNLLNGLGAGTTEL 179

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLC--KVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
             +      +D  Y+   ++S            G+  ++ L  + V+  P  +PP+ EQ 
Sbjct: 180 HIVRPITGTLDPRYVLAYLKSPQFLLVGETKMTGTAGQKRLPKDFVEANPFPLPPLAEQH 239

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAA 414
            I   ++   A  D L  +   +     +   + + + 
Sbjct: 240 RIVAKVDELMALCDRLEAQQADAESAHTQLVQALLDSL 277



 Score = 53.3 bits (126), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 31/196 (15%), Positives = 63/196 (32%), Gaps = 9/196 (4%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +P  WK   + +   +N    +    ++ ++ +  + +       ++           +
Sbjct: 82  ELPAGWKWSSLAQVAFVNPRNAAADSLEVSFVPMTFIGTRFDDQHGQEPRLWGELKQGFT 141

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICST--------QFLVLQPKDVLPELLQGWLLSI 131
            FA+G I   K+ P    +    F  + +           +      + P  +  +L S 
Sbjct: 142 HFAEGDIGVAKITPCFENSKACVFSNLLNGLGAGTTELHIVRPITGTLDPRYVLAYLKSP 201

Query: 132 DVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
                 E    G           +   P P+PPLAEQ  I  K+       D L  ++  
Sbjct: 202 QFLLVGETKMTGTAGQKRLPKDFVEANPFPLPPLAEQHRIVAKVDELMALCDRLEAQQAD 261

Query: 191 FIELLKEKKQALVSYI 206
                 +  QAL+  +
Sbjct: 262 AESAHTQLVQALLDSL 277


>gi|319758538|gb|ADV70480.1| Type I restriction enzyme EcoKI specificity protein (S protein)
           [Streptococcus suis JS14]
          Length = 429

 Score = 70.6 bits (171), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 28/166 (16%), Positives = 54/166 (32%), Gaps = 17/166 (10%)

Query: 266 QKLETRNMGLKPESYETYQIVDPGEI----VFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
           +    +   +K      Y I+    I    ++  I        +         +  +A  
Sbjct: 35  KDGTIKPTNIKFAPDNVYTIIRNYTISSTDIYVTIAGTIGDVGIVPENFNNALLTENALK 94

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFY-AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
            +    I+  +LA L++S  + K F        +  L         + +PP+ EQ  I  
Sbjct: 95  LMLTESINKMFLAHLLKSPLVQKQFKEVYNQVAQPKLSIRSTNSTIIPLPPLAEQKRIVA 154

Query: 381 VINVETARIDVLVEKIEQSIVLLKE--------RRSSFIAAAVTGQ 418
            I     +    VE   +S   L+E         + S +  A+ G+
Sbjct: 155 QIERALEQ----VEVYAESYNKLQELDRAFPDKLKKSILQYAMQGK 196



 Score = 60.6 bits (145), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 50/428 (11%), Positives = 116/428 (27%), Gaps = 66/428 (15%)

Query: 31  KRFTKLNTGRTSESGKDI-------IYIGLEDVESGTGKYLPKDGNSRQ-SDTSTVSIFA 82
                   G+    G ++        Y+ + D++ GT K                    +
Sbjct: 2   GAIVTAKGGKRIPKGYNLQEEDNGHPYLRVTDMKDGTIKPTNIKFAPDNVYTIIRNYTIS 61

Query: 83  KGQILYGKLGPYLRKAIIADFDG---ICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
              I     G      I+ +      +      ++  + +    L   L S  V ++ + 
Sbjct: 62  STDIYVTIAGTIGDVGIVPENFNNALLTENALKLMLTESINKMFLAHLLKSPLVQKQFKE 121

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
           +           +   +  +P+PPLAEQ  I  +I     +++       +  EL +   
Sbjct: 122 VYNQVAQPKLSIRSTNSTIIPLPPLAEQKRIVAQIERALEQVEVYAESYNKLQELDRAFP 181

Query: 200 ----QALVSYIVTKGLNPDVKM-----------------------------------KDS 220
               ++++ Y +   L                                         K  
Sbjct: 182 DKLKKSILQYAMQGKLVAQDPNDEPVEVLLEMIRAEKQKLYEEGKLKKKDLAEIMVEKGD 241

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL----SLSYGNIIQKLETRNMGLK 276
                G +P +W +     + +     + K  +  I+     +  G  I+ L  + +   
Sbjct: 242 DNSPYGKIPRNWTLLSVKDIFSITTGLSYKKTDLAIIQRGVRIIRGGNIEPLAYKLLDND 301

Query: 277 PESYETYQ-----IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA----VKPHG 327
                 Y       +   ++V                       +   ++          
Sbjct: 302 YYIESKYITSESVYLKRNQLVTPVSSSLEHIGKFARIDKNYSDTVAGGFVFQLTPFISSD 361

Query: 328 IDSTYLAWLMRSYDLCKVFY---AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
             S YL   + S    K       +      ++    +  L + + P +EQ  I+N +  
Sbjct: 362 TLSNYLLLCLSSPLFYKQLQSVTKLSGQALYNIPKTKLNDLRIALAPEQEQERISNKVGQ 421

Query: 385 ETARIDVL 392
              ++++L
Sbjct: 422 LFQKVNLL 429



 Score = 39.8 bits (91), Expect = 0.86,   Method: Composition-based stats.
 Identities = 16/87 (18%), Positives = 32/87 (36%), Gaps = 6/87 (6%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQ 72
           G IP++W ++ +K    + TG + +          +  I   ++E    K L  D     
Sbjct: 247 GKIPRNWTLLSVKDIFSITTGLSYKKTDLAIIQRGVRIIRGGNIEPLAYKLLDNDYYIES 306

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAI 99
              ++ S++ K   L   +   L    
Sbjct: 307 KYITSESVYLKRNQLVTPVSSSLEHIG 333


>gi|258542518|ref|YP_003187951.1| type I DNA specificity S subunit [Acetobacter pasteurianus IFO
           3283-01]
 gi|256633596|dbj|BAH99571.1| type I DNA specificity S subunit [Acetobacter pasteurianus IFO
           3283-01]
 gi|256636655|dbj|BAI02624.1| type I DNA specificity S subunit [Acetobacter pasteurianus IFO
           3283-03]
 gi|256639708|dbj|BAI05670.1| type I DNA specificity S subunit [Acetobacter pasteurianus IFO
           3283-07]
 gi|256642764|dbj|BAI08719.1| type I DNA specificity S subunit [Acetobacter pasteurianus IFO
           3283-22]
 gi|256645819|dbj|BAI11767.1| type I DNA specificity S subunit [Acetobacter pasteurianus IFO
           3283-26]
 gi|256648872|dbj|BAI14813.1| type I DNA specificity S subunit [Acetobacter pasteurianus IFO
           3283-32]
 gi|256654916|dbj|BAI20843.1| type I DNA specificity S subunit [Acetobacter pasteurianus IFO
           3283-12]
          Length = 194

 Score = 70.6 bits (171), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 25/152 (16%), Positives = 54/152 (35%), Gaps = 10/152 (6%)

Query: 272 NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST 331
           N G+ P  Y        G I                    E+        +V+   +   
Sbjct: 50  NGGITPSGYTNEANRAAGTITISEGGNS----CGYVDYQREKFWCGGHCYSVERPTLFID 105

Query: 332 YLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-PIKEQFDITNVINVETARID 390
           +L   ++      +   +GSGL  +++ + ++ LP+  P    EQ  I  V+        
Sbjct: 106 FLYQTLKFLQPKIMRLRVGSGL-PNIQKKALETLPLYHPIATNEQKAIAAVLTTADEE-- 162

Query: 391 VLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
             +  IE  +  L++ + + +   +TG+  ++
Sbjct: 163 --IAAIESDLSRLRQEKKALMQQLLTGKRRVK 192


>gi|60681332|ref|YP_211476.1| putative type I restriction-modification system specificity system,
           partial [Bacteroides fragilis NCTC 9343]
 gi|60492766|emb|CAH07540.1| putative type I restriction-modification system specificity system,
           partial [Bacteroides fragilis NCTC 9343]
          Length = 209

 Score = 70.6 bits (171), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 38/204 (18%), Positives = 84/204 (41%), Gaps = 10/204 (4%)

Query: 214 DVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY--GNIIQKLETR 271
               K   +  +  +   WE      +V    R+N   I+  + S++   G + Q  +  
Sbjct: 9   YYPKKSQELLKLKGLNSKWEQCFLKDVVENFCRRNKSHIQYPMYSVTNDLGFVPQSEKFE 68

Query: 272 NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI-DS 330
              +  E   +Y++++ G+  +     + +  S+   +     +I+S Y+  +P     S
Sbjct: 69  ERTMMGEDISSYKVINKGDFAYNP--ARINVGSIAKYEGDNPCMISSLYVCFRPKYNISS 126

Query: 331 TYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
            +L  L++S  +   +   G  G+R  L F +  R+ + +PP++EQ  I  VI+     I
Sbjct: 127 EWLQHLLKSQRMIYNYNLFGEGGVRIYLFFPNFGRIKISIPPLEEQKKIAAVIST----I 182

Query: 390 DVLVEKIEQSIVLLKERRSSFIAA 413
           +  +      +  L  ++S  +  
Sbjct: 183 EQKISVENFILDKLNTQKSFLLTK 206



 Score = 46.3 bits (108), Expect = 0.008,   Method: Composition-based stats.
 Identities = 29/160 (18%), Positives = 51/160 (31%), Gaps = 3/160 (1%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+   +K   +    R     +  +Y    D+         ++      D S+  +  KG
Sbjct: 27  WEQCFLKDVVENFCRRNKSHIQYPMYSVTNDLGFVPQSEKFEERTMMGEDISSYKVINKG 86

Query: 85  QILYGKLGPYLRKAIIA--DFDGICSTQFLVLQPKDVLPELLQ-GWLLSIDVTQRIEAIC 141
              Y      +        D   + S+ ++  +PK  +        L S  +        
Sbjct: 87  DFAYNPARINVGSIAKYEGDNPCMISSLYVCFRPKYNISSEWLQHLLKSQRMIYNYNLFG 146

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
           EG    +  +   G I + IPPL EQ  I   I     +I
Sbjct: 147 EGGVRIYLFFPNFGRIKISIPPLEEQKKIAAVISTIEQKI 186


>gi|302381020|ref|ZP_07269481.1| type I restriction modification DNA specificity domain protein
           [Finegoldia magna ACS-171-V-Col3]
 gi|302311241|gb|EFK93261.1| type I restriction modification DNA specificity domain protein
           [Finegoldia magna ACS-171-V-Col3]
          Length = 378

 Score = 70.6 bits (171), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 48/401 (11%), Positives = 100/401 (24%), Gaps = 49/401 (12%)

Query: 22  PKHWKVVPIKRFTKL-----NTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           P   +   I+             ++++     +   L   ++    Y  +     Q+   
Sbjct: 13  PDGVEYKKIEEVANYEQPSKYIVKSTKYDDSYVTPVLTAGQTFILGYTNETDGIFQASKD 72

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
              I             +       DF     +  + +         L+           
Sbjct: 73  NPVII---------FDDFTGAFKWVDFPFKIKSSAMKIITIKENNMPLRYL-----FHIM 118

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
                +              + +P+PPL  Q  I   + + T+    L  E     +  +
Sbjct: 119 GNLGFKSDEHKRLWISIYSQLKIPVPPLEVQREIVRILDSFTLLTAELTAELTARKKQYE 178

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
             +  L+        +   +MK S +                         + +L E   
Sbjct: 179 YYEHNLL------FDDKYKRMKLSDL--------------CTVNQGLQIPISKRLKEPRE 218

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
               Y  +       +     E+ +   I    +I+                   E    
Sbjct: 219 NCYRYITVQFLKNNEDEQYYIENPDKNVICKEDDILVTRTGSTGVIVYGV-----EGCFH 273

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYD-LCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
            + +       I   Y+ +L+RS     K+  A   G    L  +    L V VP I EQ
Sbjct: 274 NNFFKVTPNELIHKKYMYFLLRSKYMYNKMLTAASGGTVPDLPHKKFYALEVPVPTIDEQ 333

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
             I  ++         +   +   I   ++     R   + 
Sbjct: 334 KHIVEMLEKFNELSKDVSIGLPAEIEARQKQYEYYRDKLLT 374


>gi|291457410|ref|ZP_06596800.1| type I restriction system specificity protein [Bifidobacterium
           breve DSM 20213]
 gi|291381245|gb|EFE88763.1| type I restriction system specificity protein [Bifidobacterium
           breve DSM 20213]
          Length = 215

 Score = 70.6 bits (171), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 23/114 (20%), Positives = 39/114 (34%), Gaps = 6/114 (5%)

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
               E   I     A+       ++  +LMR        Y     +  S+  + +K L V
Sbjct: 11  NVAFENCCIGRGLAAIHSET--PSFALYLMRFLKPQLEAYNGEGTVFGSINGKALKSLEV 68

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            +P   E            A ID L+   E     L   R+  +   ++G+ID+
Sbjct: 69  ALPSHNE----VMQFESFAAPIDALIRSNENETRKLNNLRNYLLPKLMSGEIDV 118


>gi|313678681|ref|YP_004056421.1| type I restriction-modification system, S subunit [Mycoplasma bovis
           PG45]
 gi|312950662|gb|ADR25257.1| putative type I restriction-modification system, S subunit
           [Mycoplasma bovis PG45]
          Length = 505

 Score = 70.6 bits (171), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 64/440 (14%), Positives = 132/440 (30%), Gaps = 57/440 (12%)

Query: 7   YPQYKDSGVQWIG---AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKY 63
           Y +++D   + I     IP +W+ V I    +       +      Y     +       
Sbjct: 68  YEKFEDGREEKIEVPFEIPDNWRWVRINCAYQYIPTGVKKYSGSKKYFSTGSINYDNIT- 126

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDG--ICSTQFLVLQPKDVLP 121
             ++       T    I    QI+  ++    +  II +     + ST F   Q      
Sbjct: 127 PEQECLFNGRPTRANRIVYYNQIIEARMINTNKATIIDERLDGQLVSTGFFCYQVVLGEI 186

Query: 122 ELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
           E L+    S    +   ++C G T    + + +  I +P+ PL EQ  I E I      I
Sbjct: 187 EYLKIIFDSHYFKKTKNSLCTGTTQKSINDENLSKILVPLAPLEEQRRIVELIHKLDSLI 246

Query: 182 DTL----ITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDH------ 231
                  I       EL  + ++++++Y +   L    +  DS    +  +         
Sbjct: 247 GKYSKFEIELSELEEELPTKLEKSIINYAMKGKLVKQDQNNDSVDNLINEIYKEKQKLVE 306

Query: 232 -------------WEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK----------- 267
                                   E       +   NI  L  G+ I K           
Sbjct: 307 QGKLKKADLNNLIIYKNDNDNSYYENQSTKPYIKLGNIAELYTGDSINKTFKKKFLSAFS 366

Query: 268 ---------------LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
                          +   N    PE+++    + P   +   I  +      + A    
Sbjct: 367 ELSYISTKDVGFDKEISYDNGVWIPENFKNEYKIAPKNSILLCI--EGGSAGRKMAITKR 424

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI 372
                +    +  + + + +L++  +      +F +   G+   +   ++K + + +   
Sbjct: 425 DVAFGNKLCCINSNNLSNKFLSYFFQCDTFKNMFNSKTKGIISGISLSNLKSIEIPIFSG 484

Query: 373 KEQFDITNVINVETARIDVL 392
             Q  + N +N+    I  L
Sbjct: 485 TYQEKLINKLNLIGTIIKKL 504



 Score = 61.3 bits (147), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 32/207 (15%), Positives = 78/207 (37%), Gaps = 16/207 (7%)

Query: 222 IEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLE-TRNMGLKPESY 280
           IE    +PD+W           +     K   S     +       +   +         
Sbjct: 79  IEVPFEIPDNWRWVRINCAYQYIPTGVKKYSGSKKYFSTGSINYDNITPEQECLFNGRPT 138

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY 340
              +IV   +I+   +   N    +   + ++  ++++ +   +    +  YL  +  S+
Sbjct: 139 RANRIVYYNQIIEARMINTNKATII--DERLDGQLVSTGFFCYQVVLGEIEYLKIIFDSH 196

Query: 341 DLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
              K   ++ +G  ++S+  E++ ++ V + P++EQ  I  +I+    ++D L+ K  + 
Sbjct: 197 YFKKTKNSLCTGTTQKSINDENLSKILVPLAPLEEQRRIVELIH----KLDSLIGKYSKF 252

Query: 400 IVLL--------KERRSSFIAAAVTGQ 418
            + L         +   S I  A+ G+
Sbjct: 253 EIELSELEEELPTKLEKSIINYAMKGK 279


>gi|145637386|ref|ZP_01793046.1| type I restriction/modification specificity protein [Haemophilus
           influenzae PittHH]
 gi|145269478|gb|EDK09421.1| type I restriction/modification specificity protein [Haemophilus
           influenzae PittHH]
          Length = 277

 Score = 70.6 bits (171), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 46/281 (16%), Positives = 92/281 (32%), Gaps = 27/281 (9%)

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           ++     T                      IP  IPPL+ Q  I + + A T     L +
Sbjct: 9   YIYYWLNTLPNNQTDGDHKRQWISNYANKLIP--IPPLSVQTEIVKILDALTTLTSELTS 66

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
           E I   +  +  ++ L++             + + +  +G V      K           
Sbjct: 67  ELILRQKQYEYYREKLLN-----------IDEMNKVTELGDVGPVRMCKRIL-------- 107

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYE-TYQIVDPGEIVFRFIDLQNDKRSL 305
           KN      +I     G   +K +        + Y+  Y     G+I+             
Sbjct: 108 KNQTANSGDIPFYKIGTFGKKPDAYISNELFQEYKQKYSYPKKGDILISASGTIGRTVIF 167

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRL 365
                 E      + +    +        +L   Y + K   A G G  Q L  +++K++
Sbjct: 168 ----DGENSYFQDSNIVWIDNDETLVLNKYLYHFYKIAKWGIAEG-GTIQRLYNDNLKKV 222

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
            + +PP+KEQ  I ++++      + + E +  +I   ++R
Sbjct: 223 KISIPPLKEQHRIVSILDKFETLTNSITEGLPLAIEQSQKR 263



 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 38/218 (17%), Positives = 66/218 (30%), Gaps = 14/218 (6%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK-----DIIYIGLED 55
           +   K Y  Y+    + +  I +  KV  +     +   +     +     DI +  +  
Sbjct: 69  ILRQKQYEYYR----EKLLNIDEMNKVTELGDVGPVRMCKRILKNQTANSGDIPFYKIGT 124

Query: 56  VESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQ 115
                  Y+  +    Q      S   KG IL    G   R  I    +       +V  
Sbjct: 125 FGKKPDAYISNELF--QEYKQKYSYPKKGDILISASGTIGRTVIFDGENSYFQDSNIVWI 182

Query: 116 PKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKII 175
                  L+    L          I EG T+       +  + + IPPL EQ  I   + 
Sbjct: 183 DN--DETLVLNKYLYHFYKIAKWGIAEGGTIQRLYNDNLKKVKISIPPLKEQHRIVSILD 240

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNP 213
            +   +   ITE +       +K+      ++    NP
Sbjct: 241 -KFETLTNSITEGLPLAIEQSQKRYEYYRELLLNFHNP 277



 Score = 39.4 bits (90), Expect = 1.3,   Method: Composition-based stats.
 Identities = 9/85 (10%), Positives = 28/85 (32%), Gaps = 8/85 (9%)

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
             +     Y+ + + +            G  +     +     + +PP+  Q +I  +++
Sbjct: 1   MKNLALLKYIYYWLNTLP-----NNQTDGDHKRQWISNYANKLIPIPPLSVQTEIVKILD 55

Query: 384 VETARIDVLVEKI---EQSIVLLKE 405
             T     L  ++   ++     +E
Sbjct: 56  ALTTLTSELTSELILRQKQYEYYRE 80


>gi|237726583|ref|ZP_04557064.1| type I restriction-modification system [Bacteroides sp. D4]
 gi|229435109|gb|EEO45186.1| type I restriction-modification system [Bacteroides dorei
           5_1_36/D4]
          Length = 189

 Score = 70.6 bits (171), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 28/187 (14%), Positives = 61/187 (32%), Gaps = 16/187 (8%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL---------KP 277
            VP+ W       L + L+R  +     +  +         L+   + L           
Sbjct: 2   DVPNGWNWCKLNDLCSFLSRGKSPKYSEDDKTYPVFAQKCNLKEGGISLEQARFLDPSTI 61

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM---ERGII--TSAYMAVKPHGIDSTY 332
             +++   +  G+++          R+    +        ++  +   +      I+S Y
Sbjct: 62  NKWDSKYKLQTGDVLVNSTGTGTVGRTRLFDESYLGKYPFVVPDSHVAVVRTYEEINSEY 121

Query: 333 LAWLMRSYDLCKVF--YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
           +   M S  + +       GS  ++ L    ++ L    PPI EQ  I   I    + +D
Sbjct: 122 VFAYMSSQLIQQYIEDNLAGSTNQKELYIGVLENLYFPFPPINEQQRIVQKIEELFSVLD 181

Query: 391 VLVEKIE 397
            +   +E
Sbjct: 182 NIQNALE 188



 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 28/181 (15%), Positives = 61/181 (33%), Gaps = 17/181 (9%)

Query: 20  AIPKHWKVVPIKRFTKL-NTGRTSESGKDIIYIGLE----DVESGTGKYLPKDGN--SRQ 72
            +P  W    +       + G++ +  +D     +     +++ G            S  
Sbjct: 2   DVPNGWNWCKLNDLCSFLSRGKSPKYSEDDKTYPVFAQKCNLKEGGISLEQARFLDPSTI 61

Query: 73  SDTSTVSIFAKGQILYGKLGP-------YLRKAIIADFDGIC--STQFLVLQPKDVLPEL 123
           +   +      G +L    G           ++ +  +  +   S   +V   +++  E 
Sbjct: 62  NKWDSKYKLQTGDVLVNSTGTGTVGRTRLFDESYLGKYPFVVPDSHVAVVRTYEEINSEY 121

Query: 124 LQGWLLSIDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
           +  ++ S  + Q IE    G+T         + N+  P PP+ EQ  I +KI      +D
Sbjct: 122 VFAYMSSQLIQQYIEDNLAGSTNQKELYIGVLENLYFPFPPINEQQRIVQKIEELFSVLD 181

Query: 183 T 183
            
Sbjct: 182 N 182


>gi|313894106|ref|ZP_07827672.1| type I restriction modification DNA specificity domain protein
           [Veillonella sp. oral taxon 158 str. F0412]
 gi|313441670|gb|EFR60096.1| type I restriction modification DNA specificity domain protein
           [Veillonella sp. oral taxon 158 str. F0412]
          Length = 401

 Score = 70.6 bits (171), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 42/423 (9%), Positives = 119/423 (28%), Gaps = 50/423 (11%)

Query: 26  KVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           +   +K   K  TG+ + +      +  +           +Y            +     
Sbjct: 2   EYRKLKTLAKYPTGKLNSNAAVEDGEYPFFTCAHDIYRIDQYSYDGEYVLLGGNNA---- 57

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
             G                 +       +  ++QP     +    +        +++A  
Sbjct: 58  -SGDF----------PIFYYNGKFDAYQRTYLIQPLSEDTDTKYLYYSIGLKLHQMKANA 106

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            G          + NI +    + EQ  I + + A    I+       + ++LL++  ++
Sbjct: 107 SGTATKFLTQPILNNINIEYRDIEEQKRIADILSAYDNLIEN----NNKRMKLLEQMAES 162

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
           L      +   P  +  +     +G +P  + +     ++           E + L    
Sbjct: 163 LYKEWFVRFRFPGYEDVEFVGSSLGKLPSTFNIVKIGTVIEYYIGGGWGEEELSELFPEE 222

Query: 262 GNIIQKLETRNMGL----------KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
             +++  +  N+               S    +     +I F        +   RS  + 
Sbjct: 223 AYVVRGTDFPNVKYGILDSCPLRYHKSSNYNQRAFKVNDIAFEVSGGTQKQPVGRSILIT 282

Query: 312 ER----------GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFED 361
           ER                 +      +   Y    ++     ++           + F+ 
Sbjct: 283 ERQLDRFNNRLICASFCKLIRCNIKKVSPRYFYHWLQYLYETRIIEQYQLQSTGIINFKF 342

Query: 362 ---VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
              +++  +++PP      I +        I   ++ + +    L  +R   +   ++G+
Sbjct: 343 EYFLRKCNLMIPPKD----IMDKFTESVKPIYDEIDNLAEQNSKLIAQRDMLLPRLMSGK 398

Query: 419 IDL 421
           +++
Sbjct: 399 LEV 401


>gi|25028884|ref|NP_738938.1| putative type I restriction-modification system subunit S
           [Corynebacterium efficiens YS-314]
 gi|259507946|ref|ZP_05750846.1| type I restriction-modification system subunit S [Corynebacterium
           efficiens YS-314]
 gi|23494171|dbj|BAC19138.1| putative type I restriction-modification system subunit S
           [Corynebacterium efficiens YS-314]
 gi|259164441|gb|EEW48995.1| type I restriction-modification system subunit S [Corynebacterium
           efficiens YS-314]
          Length = 385

 Score = 70.6 bits (171), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 59/413 (14%), Positives = 121/413 (29%), Gaps = 52/413 (12%)

Query: 27  VVPIKRFTKL---NTGRT-SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS--- 79
              +         N GRT   S   I  I    V+      + +        T       
Sbjct: 6   QRRLTDLLSFIVDNRGRTCPTSETGIPLIATNCVKDDELYPVFEKVRFVDETTYETWFRA 65

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGIC---STQFLVLQPKDVLPELLQGWLLSIDVTQR 136
               G IL+   G   R A++ D    C       L + P  V    L   L S     +
Sbjct: 66  HPEPGDILFVCKGSPGRTALVPDPVSFCIAQDMVALRVDPTVVNNRYLYYMLQSQKTRHQ 125

Query: 137 IEAICEGATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
           IE +  G  + H        + + +   L EQ  I E + A   +I           E L
Sbjct: 126 IENMHVGTMIPHFKKGDFPKLVLSVHADLGEQQAIAEVLGALDDKIAANSACIRLIDEHL 185

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
             + +  +                  +E +G             ++ E + K    + + 
Sbjct: 186 AAEYERTLQQGEV-------------VEELG-------------VIAEFHNKRRIPLSAK 219

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
                 G +     +   G   E+     +V    +V     + N   +     +     
Sbjct: 220 QRDERPGAVPYYGASGVFGYVNEAIFDEPLV----LVGEDGSVINSDGTPVIQYIWGPSW 275

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
           + +   A+K   + +  L + +R   +  +       ++  +   ++KRL + +P  +  
Sbjct: 276 VNNHAHALKGKLVSTELLYYAIRRSQVSTLV---TGAVQPKINMGNLKRLQLALPAPE-- 330

Query: 376 FDITNVINVETARIDVLVEKI--EQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
               +  + E      +  K         L   R + +   ++G + ++   +
Sbjct: 331 ----SRTSTEAIIAAEVAAKRAFTTENRTLVATRDALLPQLMSGNLRVKDAEK 379


>gi|42528240|ref|NP_973338.1| type I restriction-modification system, S subunit, truncation
           [Treponema denticola ATCC 35405]
 gi|41819510|gb|AAS13257.1| type I restriction-modification system, S subunit, truncation
           [Treponema denticola ATCC 35405]
          Length = 162

 Score = 70.6 bits (171), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 20/162 (12%), Positives = 43/162 (26%), Gaps = 2/162 (1%)

Query: 233 EVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIV 292
                  + +    ++ +    +  S        K+      ++  +  T+ I       
Sbjct: 1   MWCRLGEICSITMGQSPESSFISNNSDGMEFHQGKIHFTEKYIQKANNYTFNITKIA--P 58

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
              I L                 I     +V P     +   +                 
Sbjct: 59  KNAILLCVRAPVGVVNITEREICIGRGLCSVYPKYRIQSEFWFYWLQCQKDTFEQKSTGT 118

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
             Q++  E +K + + +PP  EQ  I   I    A++D +  
Sbjct: 119 TFQAISIELIKNILIPLPPSSEQKRIVAKIEELFAQLDSITA 160



 Score = 55.6 bits (132), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 29/158 (18%), Positives = 48/158 (30%), Gaps = 3/158 (1%)

Query: 27  VVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNS-RQSDTSTVSIFAKGQ 85
              +     +  G++ ES          +   G   +  K          +   I  K  
Sbjct: 2   WCRLGEICSITMGQSPESSFISNNSDGMEFHQGKIHFTEKYIQKANNYTFNITKIAPKNA 61

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           IL     P      I + +         + PK  +      + L        E    G T
Sbjct: 62  ILLCVRAPV-GVVNITEREICIGRGLCSVYPKYRIQSEFWFYWLQCQ-KDTFEQKSTGTT 119

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
                 + I NI +P+PP +EQ  I  KI     ++D+
Sbjct: 120 FQAISIELIKNILIPLPPSSEQKRIVAKIEELFAQLDS 157


>gi|269978356|gb|ACZ55912.1| putative type I restriction-modification system specificity subunit
           S [Helicobacter pylori]
          Length = 226

 Score = 70.6 bits (171), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 20/175 (11%), Positives = 64/175 (36%), Gaps = 11/175 (6%)

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID------LQNDK 302
           ++  +  +  ++  N  Q        ++    E    +  G+++F            +  
Sbjct: 40  SQGNKFYVPYVNVFNNPQLDLNALESVQIGDKEKQNTIQLGDVLFTGSSENLEDCAMSCV 99

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFED 361
            + +  + +        +     +  + ++L   +R Y+  K    + +G  R ++  + 
Sbjct: 100 VTQKIEKDIYLNSFCFGFRFFDKNLFNPSFLKHFLRDYNFRKNISKVANGVTRFNVSKQL 159

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           + ++ + +PP++ Q +I  +++  +     L+  I   I   K+     R   + 
Sbjct: 160 LSQITIPIPPLEIQQEIVKILDQFSLLTTDLLAGIPAEIKARKKQYEYYREKLLT 214



 Score = 48.3 bits (113), Expect = 0.002,   Method: Composition-based stats.
 Identities = 27/171 (15%), Positives = 53/171 (30%), Gaps = 15/171 (8%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGK-----DIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           PK      +    +   G   +S K     +  Y+   +V +     L    + +  D  
Sbjct: 13  PKGVGFRKLGDIGEFYGGLVGKSKKSFSQGNKFYVPYVNVFNNPQLDLNALESVQIGDKE 72

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIAD----------FDGICSTQFLVLQPKDVLPELLQG 126
             +    G +L+      L    ++           +       F         P  L+ 
Sbjct: 73  KQNTIQLGDVLFTGSSENLEDCAMSCVVTQKIEKDIYLNSFCFGFRFFDKNLFNPSFLKH 132

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
           +L   +  + I  +  G T  +   + +  I +PIPPL  Q  I + +   
Sbjct: 133 FLRDYNFRKNISKVANGVTRFNVSKQLLSQITIPIPPLEIQQEIVKILDQF 183


>gi|331085646|ref|ZP_08334729.1| hypothetical protein HMPREF0987_01032 [Lachnospiraceae bacterium
           9_1_43BFAA]
 gi|330406569|gb|EGG86074.1| hypothetical protein HMPREF0987_01032 [Lachnospiraceae bacterium
           9_1_43BFAA]
          Length = 375

 Score = 70.2 bits (170), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 48/374 (12%), Positives = 98/374 (26%), Gaps = 23/374 (6%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
           V +   T  + G        I            G+Y+  +G    S   T S      I 
Sbjct: 3   VKLSDITHYSKGSQINREDLI----------DNGEYIYLNGGINPSGRWTASNVDANTIT 52

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMS 147
             + G              C      L       +    +       +R+ AI  GA M 
Sbjct: 53  ISEGGNSSGYINYITEPFWCGAHCYYLFDGPKNTK--YLYYALKSQQERLFAIRSGACMP 110

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
           +     +G          ++      +++ T  I     + +  ++ L   +   +   V
Sbjct: 111 NIKKADLGKFEFEFDYDEKKQDEIVSVLSSTENIINNRKKELEKLDELIRARFIELFGDV 170

Query: 208 TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK 267
             G+      K   +  VG                 +         + I  L+ G     
Sbjct: 171 GTGVFNYETYKLGDVAKVG-------SSHRVFTTEFVESGIPFYRGTEIGELANGQKPSD 223

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
               +                G+++   I  +     + + +           ++     
Sbjct: 224 PYYISEEHYVRLASDDTEPKVGDLLMPSICNKGQVWLVDTEEPFYYKDGRVLCISPDRTV 283

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINV--- 384
            +S +L + MR   L +             K   +K + VLVPPI+ Q    +       
Sbjct: 284 FNSKFLQYFMREKTLIEYPKMGSGSTFAEFKIFLLKDMDVLVPPIELQEQFADFAQATDK 343

Query: 385 -ETARIDVLVEKIE 397
            +  + +  +    
Sbjct: 344 SKFQKYNATILSHN 357



 Score = 50.6 bits (119), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 21/141 (14%), Positives = 46/141 (32%), Gaps = 12/141 (8%)

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
               N G+ P    T   VD   I            S     + E     +    +    
Sbjct: 28  YIYLNGGINPSGRWTASNVDANTITISEGGNS----SGYINYITEPFWCGAHCYYLFDGP 83

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKE--QFDITNVINVE 385
            ++ YL + ++S    ++F         ++K  D+ +         E  Q +I +V+   
Sbjct: 84  KNTKYLYYALKSQQ-ERLFAIRSGACMPNIKKADLGKFEFEF-DYDEKKQDEIVSVL--- 138

Query: 386 TARIDVLVEKIEQSIVLLKER 406
            +  + ++   ++ +  L E 
Sbjct: 139 -SSTENIINNRKKELEKLDEL 158


>gi|270296268|ref|ZP_06202468.1| type I restriction-modification system S subunit [Bacteroides sp.
           D20]
 gi|270273672|gb|EFA19534.1| type I restriction-modification system S subunit [Bacteroides sp.
           D20]
          Length = 96

 Score = 70.2 bits (170), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 16/95 (16%), Positives = 37/95 (38%)

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR 354
            + ++      + A + +     +      P      Y+ + ++S    ++F    +G+ 
Sbjct: 1   MMCIEGGSAGRKIAILNQDVCFGNKLCCFSPFVGIGKYMYYYLQSPSFFELFNLNKTGII 60

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
             +    VK + + +PPIKEQ  I   I     ++
Sbjct: 61  GGVSIAKVKEILIPLPPIKEQQRIVAQIEKLFEQL 95


>gi|254369302|ref|ZP_04985314.1| type I site-specific deoxyribonuclease [Francisella tularensis
           subsp. holarctica FSC022]
 gi|157122252|gb|EDO66392.1| type I site-specific deoxyribonuclease [Francisella tularensis
           subsp. holarctica FSC022]
          Length = 776

 Score = 70.2 bits (170), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 23/153 (15%), Positives = 52/153 (33%), Gaps = 3/153 (1%)

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
                 I  L   +I       +       Y+   +++ G ++        +   L   +
Sbjct: 612 NYASDGIRYLKVSDIKDNYINNDKPFYVNKYKESDLIEKGTLLITRKGTVGNSYYL--DK 669

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVL 368
                  +  ++      ++  YL+ +  S  + K +    +G    SL    +K + + 
Sbjct: 670 DGSFVASSEIFIIKLNDKVNGNYLSEINLSSFVKKQYREKSTGTIMPSLSQPKLKSILIP 729

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
           +PP++ Q  I   I      I  L ++ EQ+  
Sbjct: 730 LPPLEIQNHIAVRIQKLKDYIKALEQQAEQNRE 762



 Score = 45.9 bits (107), Expect = 0.012,   Method: Composition-based stats.
 Identities = 30/175 (17%), Positives = 61/175 (34%), Gaps = 7/175 (4%)

Query: 33  FTKLNTGRTSES--GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGK 90
           F  LN G  + +     I Y+ + D++     Y+  D     +      +  KG +L  +
Sbjct: 601 FVSLNNGIAARNYASDGIRYLKVSDIKDN---YINNDKPFYVNKYKESDLIEKGTLLITR 657

Query: 91  LGPYLRKAIIA-DFDGICSTQFLVLQPKDVLPELLQGWLLSIDV-TQRIEAICEGATMSH 148
            G       +  D   + S++  +++  D +       +       ++      G  M  
Sbjct: 658 KGTVGNSYYLDKDGSFVASSEIFIIKLNDKVNGNYLSEINLSSFVKKQYREKSTGTIMPS 717

Query: 149 ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
                + +I +P+PPL  Q  I  +I      I  L  +  +  E      +A +
Sbjct: 718 LSQPKLKSILIPLPPLEIQNHIAVRIQKLKDYIKALEQQAEQNRENALRNFEAEI 772


>gi|327460987|gb|EGF07320.1| type I restriction-modification system specificity determinant
           [Streptococcus sanguinis SK1057]
          Length = 352

 Score = 70.2 bits (170), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 53/394 (13%), Positives = 106/394 (26%), Gaps = 54/394 (13%)

Query: 30  IKRFTKLNTGR-TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
           + + +   + R   +      Y+  E++ S  G              S    F KG IL 
Sbjct: 6   LSQVSSYVSERIRIDEVNLDNYVSTENMISERGGVTKATKLPSGKTISA---FQKGDILI 62

Query: 89  GKLGPYLRKAIIADFDGICSTQFLVLQPKDVL-PELLQGWLLSIDVTQRIEAICEGATMS 147
             + PY +K  +A   G CS   LV++  + +    L   L S +         +G  M 
Sbjct: 63  SNIRPYFKKIWLAGKSGGCSNDVLVVRANEKISNRFLYYVLSSDNFFDYAVGTSKGTKMP 122

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
             D K I    +PI  L EQ  I E + A   +I                          
Sbjct: 123 RGDKKAIMKYEVPIYSLVEQEKIAEVLRAFDKKII------------------------- 157

Query: 208 TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK 267
                            +    +H   +   ++  E   K     +              
Sbjct: 158 -----------------LNKQINHHLEQIALSIFKEEFSKKEVTNKLGDFFPVITGKKDA 200

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
              +       S                  L              +         + P+ 
Sbjct: 201 NIAKGGEYPFFSCSQNISYTDNYSFDARAILLAGNGDFNVKIFNGKFEAYQRTYVLIPNN 260

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
            +     +    Y L  +       + + +    ++   + +   KE       + +  +
Sbjct: 261 DEHFGYLYYAIKYFLKDITSGHRGSVIKFITKGQIEHFDIFMTSNKE------KLFLFNS 314

Query: 388 RIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            ++  + K  + I  L   R + +   ++G+I +
Sbjct: 315 FVEN-IAKNNKEIDKLTNIRDTLLPKLLSGEISV 347


>gi|253569682|ref|ZP_04847091.1| conserved hypothetical protein [Bacteroides sp. 1_1_6]
 gi|251840063|gb|EES68145.1| conserved hypothetical protein [Bacteroides sp. 1_1_6]
          Length = 393

 Score = 70.2 bits (170), Expect = 6e-10,   Method: Composition-based stats.
 Identities = 59/406 (14%), Positives = 123/406 (30%), Gaps = 40/406 (9%)

Query: 24  HWKVVPIKRFTKLNTGRTSESG-KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            WK   +  F +    +   +  K  + I  +        +  K       + S   +  
Sbjct: 9   EWKESVLSDFVERVKRKNKNNLCKLPLTISAQYGLVDQISFFNKVIA--SENMSNYYLLH 66

Query: 83  KGQILYGKLGPYLRKAI-----IADFDGICSTQFLVLQPKDVLPELL--QGWLLSIDVTQ 135
           KG   Y K                   G  S+ ++  +P   +        +  S     
Sbjct: 67  KGDFAYNKSYSSEYPWGAIKRLDCYEQGTLSSLYICFKPYSHVSSDFLTHYFETSKWHQG 126

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
             E   EGA        GI +       L + +L +EKI      I+  I  + + IE  
Sbjct: 127 ISEIAVEGARNHGLLNVGIQDFFETRHCLPQSLLEQEKIAKFLNLIEERIATQNKIIEKY 186

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
           +   QA++      G+                    W+      ++ E   KNT      
Sbjct: 187 ESLIQAIIYQKKAAGIRKG----------------DWQKTELSNVLKERIEKNTNGYIIC 230

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS-AQVMERG 314
            +S+S G +I ++E        +    Y +V  G+IV+      +    +   + + +  
Sbjct: 231 SVSVSQG-VINQIEYLGRSFAAKETLHYNVVKYGDIVYTKSPTGDFPYGIVKRSYIKDDV 289

Query: 315 IITSAYMAVKP-HGIDSTYLAWLMRSY-----DLCKVFYAMGSGLRQSLKFEDVKRLPVL 368
            ++  Y    P +      L +           L  +          ++  E   +  + 
Sbjct: 290 AVSPLYGVYMPVNDYIGVILHFYFMQPSNAFNYLHPLIQKGAKNTI-NITNERFLKNSIP 348

Query: 369 VPPIK-EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           +P  + E   I N +     +ID      ++ +   ++ +   ++ 
Sbjct: 349 LPKTENEAIYIANTLISIQKKID----MEKKMLWSYEKEKQYLLSK 390


>gi|188524184|ref|ZP_03004248.1| restriction-modification enzyme MpuUVI S subunit [Ureaplasma
           urealyticum serovar 12 str. ATCC 33696]
 gi|195660056|gb|EDX53436.1| restriction-modification enzyme MpuUVI S subunit [Ureaplasma
           urealyticum serovar 12 str. ATCC 33696]
          Length = 392

 Score = 70.2 bits (170), Expect = 6e-10,   Method: Composition-based stats.
 Identities = 42/390 (10%), Positives = 112/390 (28%), Gaps = 11/390 (2%)

Query: 27  VVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQI 86
           +V I    K+  G T  +  + ++   +++   +   L  +  SR           +  I
Sbjct: 3   IVNIGSICKIIGGSTPSTKNNNLW--KKEIPFYSLADLLINVASRYISIENNKFIDEPAI 60

Query: 87  LYGKLGPYLRKAIIADFDGICST-QFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           L+           + +        +  + +  +VL      +    +         +G+ 
Sbjct: 61  LFSSTATIGNVCYVEEKCWFNDQIKAFISKDSNVLNTKYLYYWFLNNKHIIKSQANKGSV 120

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL---ITERIRFIELLKEKKQAL 202
            S    K + N+ + +P + EQ  I   I             +                 
Sbjct: 121 FSSIGIKELVNMKINLPSIEEQNAIISIIEPHEKLFVKYSNLVDISSVENAKKDVDNLIS 180

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
           +   + K +     ++     ++    +        + + E + K+   I+  +   +  
Sbjct: 181 IIEPIEKSIKTINLLQTKIGLFIEKTFNFINDNLVNSDLIEFSLKDLLNIKRGLPITAKD 240

Query: 263 --NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
             N        +   K      Y      +     I +  +   +               
Sbjct: 241 LLNNPGSYPLISASSKNNGIFGYFNDYMYDGQNITISMNGNAGCIFYQIGKFSANSDVLV 300

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
           ++     + +    + +      ++        R  L    +++  VL+P I+ Q   + 
Sbjct: 301 LSNSNKNLTNIDYIYYLLKTKEKEIQNLAIGTTRFRLGNSVIEKFKVLLPNIEIQEKFSK 360

Query: 381 VINVETARIDVLVEKIEQSIV--LLKERRS 408
           ++      +     KIE+++   LLK  + 
Sbjct: 361 IVEPLL-NLSTKANKIEKNLNECLLKIVKK 389


>gi|331666163|ref|ZP_08367044.1| type I restriction enzyme EcoAI specificity protein (S
           protein)(S.EcoAI) [Escherichia coli TA271]
 gi|331066374|gb|EGI38251.1| type I restriction enzyme EcoAI specificity protein (S
           protein)(S.EcoAI) [Escherichia coli TA271]
          Length = 405

 Score = 70.2 bits (170), Expect = 6e-10,   Method: Composition-based stats.
 Identities = 32/201 (15%), Positives = 63/201 (31%), Gaps = 9/201 (4%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLE---TRNMGLK 276
           S  E    +PD WE      +     + +    E  I  +    I  K +      +   
Sbjct: 93  SEEEKPFELPDGWEWTTLTRIAEINPKIDVSDDEQEISFIPMPLISTKFDGSHEFEIKKW 152

Query: 277 PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS----AYMAVKPHGIDSTY 332
            +  + Y     G+I    I    +         ++ GI                I+  Y
Sbjct: 153 KDVKKGYTHFANGDIAIAKITPCFENSKAAIFSGLKNGIGVGTTELHVARPFSDIINRKY 212

Query: 333 LAWLMRSYDLCK--VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
           L    +S +  K       GS  ++ +     +  P+  PP++EQ  I        +  D
Sbjct: 213 LLLNFKSPNFLKSGESQMTGSAGQKRVPRFFFENNPIPFPPLQEQERIIIRFTQLMSLCD 272

Query: 391 VLVEKIEQSIVLLKERRSSFI 411
            L ++   S+   ++   + +
Sbjct: 273 QLEQQSLTSLDAHQQLVETLL 293



 Score = 61.3 bits (147), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 33/213 (15%), Positives = 72/213 (33%), Gaps = 12/213 (5%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK-DIIYIGLEDVESG 59
           +K  K  P+   S  +    +P  W+   + R  ++N        + +I +I +  + + 
Sbjct: 83  IKKQKPLPEI--SEEEKPFELPDGWEWTTLTRIAEINPKIDVSDDEQEISFIPMPLISTK 140

Query: 60  TGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRK------AIIADFDGICSTQFLV 113
                  +    +      + FA G I   K+ P          + + +  G+ +T+  V
Sbjct: 141 FDGSHEFEIKKWKDVKKGYTHFANGDIAIAKITPCFENSKAAIFSGLKNGIGVGTTELHV 200

Query: 114 LQPKDVLPELLQ---GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLI 170
            +P   +         +     +      +   A           N P+P PPL EQ  I
Sbjct: 201 ARPFSDIINRKYLLLNFKSPNFLKSGESQMTGSAGQKRVPRFFFENNPIPFPPLQEQERI 260

Query: 171 REKIIAETVRIDTLITERIRFIELLKEKKQALV 203
             +        D L  + +  ++  ++  + L+
Sbjct: 261 IIRFTQLMSLCDQLEQQSLTSLDAHQQLVETLL 293


>gi|296277174|ref|ZP_06859681.1| type I restriction-modification system S subunit [Staphylococcus
           aureus subsp. aureus MR1]
          Length = 210

 Score = 70.2 bits (170), Expect = 6e-10,   Method: Composition-based stats.
 Identities = 35/216 (16%), Positives = 81/216 (37%), Gaps = 14/216 (6%)

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
           L+       +      +    +  G     WE       + E N ++       +     
Sbjct: 2   LLQQQKKGYMQKIFSQELRFKDENGEDYPDWENSKIEKYLKERNERSD--KGQMLSVTIN 59

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
             II+  E        +    Y++V   +I +  + +        +      GI++ AY 
Sbjct: 60  SGIIKFSELDRKDNSSKDKSNYKVVRKNDIAYNSMRMWQGASGKSNY----NGIVSPAYT 115

Query: 322 AVKPHGIDSTYL-AWLMRSYDLCKVFYAMGSGLR---QSLKFEDVKRLPVLVPPIKEQFD 377
            + P    S+    +  +++ +   F     GL     +LK++ +K + + +P ++EQ  
Sbjct: 116 VLYPTQNTSSLFIGYKFKTHRMIHKFKINSQGLTSDTWNLKYKQLKNINIDIPVLEEQEK 175

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           I +       ++D+L+ K +  I +L++ + SF+  
Sbjct: 176 IGDF----FKKMDILISKQKMKIEILEKEKQSFLQK 207



 Score = 53.6 bits (127), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 30/183 (16%), Positives = 62/183 (33%), Gaps = 7/183 (3%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W+   I+++ K    R+ +     + I    ++           ++   D S   +  K
Sbjct: 31  DWENSKIEKYLKERNERSDKGQMLSVTINSGIIKFSELD----RKDNSSKDKSNYKVVRK 86

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
             I Y  +  +   +  ++++GI S  + VL P      L  G+            I   
Sbjct: 87  NDIAYNSMRMWQGASGKSNYNGIVSPAYTVLYPTQNTSSLFIGYKFKTHRMIHKFKINSQ 146

Query: 144 ---ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
              +   +  +K + NI + IP L EQ  I +      + I     +     +  +   Q
Sbjct: 147 GLTSDTWNLKYKQLKNINIDIPVLEEQEKIGDFFKKMDILISKQKMKIEILEKEKQSFLQ 206

Query: 201 ALV 203
            + 
Sbjct: 207 KMF 209


>gi|301793726|emb|CBW36113.1| type I restriction-modification system M protein [Streptococcus
           pneumoniae INV104]
          Length = 425

 Score = 70.2 bits (170), Expect = 6e-10,   Method: Composition-based stats.
 Identities = 59/413 (14%), Positives = 131/413 (31%), Gaps = 64/413 (15%)

Query: 42  SESGKDIIYIGLEDVESGTGKYLPKDG---NSRQSDTSTVSIFAKGQILYGKLGPYLRKA 98
           ++  K   YI    ++        K+    +  Q+ +    + ++  +L+  + PYL+  
Sbjct: 13  NKPEKSFRYIDTSSIDRKKNIINYKNLQYLSPEQAPSRARKLVSQNSVLFSTVRPYLKNI 72

Query: 99  IIA---DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIG 155
            +        I ST F+VL        L   +LLS +   R+     G +    +     
Sbjct: 73  AVVRELKEYLIASTAFIVLDTLLNETYLKY-YLLSDNFINRVNNKSTGTSYPAINDYNFN 131

Query: 156 NIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK----QALVSYIVTKGL 211
            + + +PPL+EQ  I E I +   ++D       R  +L KE      ++++ Y +   L
Sbjct: 132 LLLIALPPLSEQQRIIEAIESALEKVDEYAESYNRLEQLDKEFPDKLKKSILQYAMQGKL 191

Query: 212 NPDVKMKDS-----------------------------------GIEWVGLVPDHWEVKP 236
                  +S                                      + G +P +W V  
Sbjct: 192 VEQDPNDESVEVLLEKIRAEKQKLFEEGKIKKKDLDISIVSQGDDNSYYGNIPMNWVVIK 251

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ----------IV 286
              + +     + K  + +I +     II+    + +       + Y            +
Sbjct: 252 IKDIFSINTGLSYKKGDLSINN-KGVRIIRGGNIKPLEFSLLDNDYYIDTQFISSEQVYL 310

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA----VKPHGIDSTYLAWLMRSYDL 342
              +++                     G++   ++      +   I S +L + + S   
Sbjct: 311 KHNQLITPVSTSLEHIGKFARIDKDYDGVVAGGFIFQLTPFESSEIISKFLLFNLSSPLF 370

Query: 343 CKVFY---AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            K       +      ++    +  L + + P +EQ  IT  +     +++ L
Sbjct: 371 YKQLKAITKLSGQALYNIPKTTLSELLIPLAPFEEQELITQKVEKLFEKVNQL 423



 Score = 69.8 bits (169), Expect = 8e-10,   Method: Composition-based stats.
 Identities = 29/192 (15%), Positives = 66/192 (34%), Gaps = 7/192 (3%)

Query: 232 WEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEI 291
             +K  +    +   + +             NII     + +  +       ++V    +
Sbjct: 1   MRIKSIYWNFGQNKPEKSFRYIDTSSIDRKKNIINYKNLQYLSPEQAPSRARKLVSQNSV 60

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
           +F  +       ++     ++  +I S    V    ++ TYL + + S +         +
Sbjct: 61  LFSTVRPYLKNIAVVR--ELKEYLIASTAFIVLDTLLNETYLKYYLLSDNFINRVNNKST 118

Query: 352 GLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----R 406
           G    ++   +   L + +PP+ EQ  I   I     ++D   E   +   L KE     
Sbjct: 119 GTSYPAINDYNFNLLLIALPPLSEQQRIIEAIESALEKVDEYAESYNRLEQLDKEFPDKL 178

Query: 407 RSSFIAAAVTGQ 418
           + S +  A+ G+
Sbjct: 179 KKSILQYAMQGK 190



 Score = 47.5 bits (111), Expect = 0.004,   Method: Composition-based stats.
 Identities = 36/184 (19%), Positives = 74/184 (40%), Gaps = 17/184 (9%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           G IP +W V+ IK    +NTG + +        K +  I   +++      L  D     
Sbjct: 241 GNIPMNWVVIKIKDIFSINTGLSYKKGDLSINNKGVRIIRGGNIKPLEFSLLDNDYYIDT 300

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIA-----DFDGICSTQFLV----LQPKDVLPEL 123
              S+  ++ K   L   +   L           D+DG+ +  F+      +  +++ + 
Sbjct: 301 QFISSEQVYLKHNQLITPVSTSLEHIGKFARIDKDYDGVVAGGFIFQLTPFESSEIISKF 360

Query: 124 LQGWLLSIDVTQRIEAICE--GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
           L   L S    ++++AI +  G  + +     +  + +P+ P  EQ LI +K+     ++
Sbjct: 361 LLFNLSSPLFYKQLKAITKLSGQALYNIPKTTLSELLIPLAPFEEQELITQKVEKLFEKV 420

Query: 182 DTLI 185
           + L 
Sbjct: 421 NQLW 424


>gi|184154001|ref|YP_001842342.1| type I restriction-modification system S subunit [Lactobacillus
           reuteri JCM 1112]
 gi|183225345|dbj|BAG25862.1| type I restriction-modification system S subunit [Lactobacillus
           reuteri JCM 1112]
          Length = 342

 Score = 70.2 bits (170), Expect = 6e-10,   Method: Composition-based stats.
 Identities = 60/389 (15%), Positives = 126/389 (32%), Gaps = 49/389 (12%)

Query: 27  VVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQI 86
           +V +K       G ++   KD+         + +G+Y P  G +          + +  +
Sbjct: 2   IVKLKDVC--IKGTSNIRQKDV---------NDSGRY-PVYGAAGPVGFMNSFQYDEPYV 49

Query: 87  LYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATM 146
              K G  + +A     +         L PK  +      + +S      +E    GAT+
Sbjct: 50  GVVKDGAGIGRATYLPSNSSIIGTMQALIPKKNVLPKYLYYAVSS---MHLEKYYSGATI 106

Query: 147 SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYI 206
            H  +K   +    +    EQ      II     ++ +I+ + + +  L E  +A     
Sbjct: 107 PHIYFKNYKHERFVLVSKKEQEQ----IIWRFSLLEKMISNKQQQLLKLDELIKA---RF 159

Query: 207 VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ 266
           V    +P +  K+   + +G +             T   + +      N      GN I+
Sbjct: 160 VEMFGDPIINNKNIKKKKLGDI-----CLLKAGDFTPSKKISPVKTSINKYPCFGGNGIR 214

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
                       S    Q    G + F     +N + ++  +  +E              
Sbjct: 215 GYVDNYTHQGNYSLIGRQGALCGNVKFATGKFRNTEHAILVSPNIE-------------- 260

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
            I+S +L  L+    L K+        +  L  + +  + V V  +  Q +  N +    
Sbjct: 261 -INSRWLFELLN---LEKLNRFRSGAAQPGLAVKTLNEIIVPVADLNSQNEYANFV---- 312

Query: 387 ARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            ++D     I++S+   ++   S +    
Sbjct: 313 QQVDKSKVVIQKSLDETQKLYDSLMQEYF 341


>gi|313158258|gb|EFR57660.1| conserved hypothetical protein [Alistipes sp. HGB5]
          Length = 95

 Score = 70.2 bits (170), Expect = 6e-10,   Method: Composition-based stats.
 Identities = 16/94 (17%), Positives = 37/94 (39%)

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ 355
           + ++      + A + +     +      P      Y+ + ++S    ++F    +G+  
Sbjct: 1   MCIEGGSAGRKIAILNQDVCFGNKLCCFSPFVGIGKYMYYYLQSPSFFELFNLNKTGIIG 60

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
            +    VK + + +PPIKEQ  I   I     ++
Sbjct: 61  GVSIAKVKEILIPLPPIKEQQRIVAQIEKLFEQL 94


>gi|139438845|ref|ZP_01772305.1| Hypothetical protein COLAER_01309 [Collinsella aerofaciens ATCC
           25986]
 gi|133775556|gb|EBA39376.1| Hypothetical protein COLAER_01309 [Collinsella aerofaciens ATCC
           25986]
          Length = 520

 Score = 70.2 bits (170), Expect = 6e-10,   Method: Composition-based stats.
 Identities = 30/203 (14%), Positives = 59/203 (29%), Gaps = 13/203 (6%)

Query: 227 LVPDHWEVKPFF--ALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ 284
            +P+ W            +   K      S +  ++  NI Q              E   
Sbjct: 92  ELPEGWAWARLETVYNFIDYRGKTPHKSPSGVRLMTASNIRQGYIDYTREEYISEDEYAT 151

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG----IDSTYLAWLMRSY 340
            +  GE     +    +      A    +       +    +      D+     ++ S 
Sbjct: 152 RLSRGETHRGDLLFTTEAPMGYCAICEMKRCSCGQRVITLQNYGTVGPDNALFCQIILSP 211

Query: 341 DLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
                     +G   + +K   +K L + +PP+ EQ  I   +N     ++    ++E +
Sbjct: 212 LFQIQVKDHATGTTAKGIKAAVLKELFLPIPPLAEQRRIVERVNELMPLVEEY-GELEDA 270

Query: 400 IVLLKE-----RRSSFIAAAVTG 417
              L        R S +  AV G
Sbjct: 271 REELDAALPGRLRKSVLQLAVQG 293



 Score = 69.1 bits (167), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 38/209 (18%), Positives = 73/209 (34%), Gaps = 12/209 (5%)

Query: 20  AIPKHWKVVPIKRFTKLN--TGRTS-ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            +P+ W    ++         G+T  +S   +  +   ++  G   Y  ++  S     +
Sbjct: 92  ELPEGWAWARLETVYNFIDYRGKTPHKSPSGVRLMTASNIRQGYIDYTREEYISEDEYAT 151

Query: 77  TVSI--FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPK---DVLPELLQGWLLSI 131
            +S     +G +L+    P    AI       C  + + LQ          L    +LS 
Sbjct: 152 RLSRGETHRGDLLFTTEAPMGYCAICEMKRCSCGQRVITLQNYGTVGPDNALFCQIILSP 211

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
               +++    G T        +  + +PIPPLAEQ  I E++      ++         
Sbjct: 212 LFQIQVKDHATGTTAKGIKAAVLKELFLPIPPLAEQRRIVERVNELMPLVEEYGELEDAR 271

Query: 192 IE----LLKEKKQALVSYIVTKGLNPDVK 216
            E    L    +++++   V  GL P   
Sbjct: 272 EELDAALPGRLRKSVLQLAVQGGLVPQDP 300



 Score = 60.6 bits (145), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 32/135 (23%), Positives = 52/135 (38%), Gaps = 8/135 (5%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYL-PKDGNSRQSDTSTV 78
            IP+ W+   +     LN G+     +   YI +  +++   K       N+  + +   
Sbjct: 367 EIPESWEWRRLGSLV-LNRGQKRPEAR-FAYIDISSIDNVNQKLGQETVINAADAPSRAR 424

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDG----ICSTQFLV-LQPKDVLPELLQGWLLSIDV 133
            + AK  +LY  + PYL  A I D D     I ST F V       LP  L  +L+S   
Sbjct: 425 KLVAKNDVLYATVRPYLHNACIVDKDFNIKPIASTGFAVLSCLDGFLPSFLLYFLVSPSF 484

Query: 134 TQRIEAICEGATMSH 148
                A      +++
Sbjct: 485 DSYANANENAKGVAY 499


>gi|306826263|ref|ZP_07459597.1| type I restriction enzyme specificity protein HsdS [Streptococcus
           sp. oral taxon 071 str. 73H25AP]
 gi|304431539|gb|EFM34521.1| type I restriction enzyme specificity protein HsdS [Streptococcus
           sp. oral taxon 071 str. 73H25AP]
          Length = 398

 Score = 70.2 bits (170), Expect = 6e-10,   Method: Composition-based stats.
 Identities = 50/400 (12%), Positives = 113/400 (28%), Gaps = 56/400 (14%)

Query: 26  KVVPIKRFTKLNT-----GRTSESGKDIIYI---------GLEDVESGTGKYLPKDGNSR 71
           +   +       T     G  + + K++ YI            D++SG         +  
Sbjct: 13  EWKELWEVCDTVTDFTAAGSFASNAKNVKYIQEASFAQLVRTTDLKSGFKGNNFVYVDEH 72

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFD-----GICSTQFLVLQPKDVLPELLQG 126
             +        +  ++   +G       I   +      +     L+++        L  
Sbjct: 73  AFNYLYRVNLDQESLVMPNVGNCGEIYYIEPENLPYENNVLGPNALLVRSSKENNRYLFH 132

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
              S      +  I      +  +   +  I +PIPP   Q  I + +   T  +  L +
Sbjct: 133 LFQSGQFQNELAKITSNTGQTKYNKTNLKKIRIPIPPQEIQEKIVQILDKFTDYVTELTS 192

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
           E     +     +  L+S+           +KD      G                   +
Sbjct: 193 ELTSRKKQYSFYRDKLLSFEDEVYQVEWKVLKDVATLKNG-------------------K 233

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
               L    I     G  +            E    +    P  ++ R   + N     +
Sbjct: 234 DWKTLPSGEIPVYGSGGEMG-----------EFVADHSYDKPTVLIPRKGSISNLFYLEK 282

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLP 366
           +   ++       Y  +    I   Y  + + +    K+     +  R SL    + ++ 
Sbjct: 283 AFWNVDTVY----YTEIDDEQIIPKYFYYYLTT---VKLEEMATNPTRPSLTQAILDKIR 335

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
           + VP ++ Q  I  V++      + L   + +   L +++
Sbjct: 336 IPVPSLEIQSRIVQVLDNFDKVCNDLNIGLPRENELRQKQ 375



 Score = 69.8 bits (169), Expect = 7e-10,   Method: Composition-based stats.
 Identities = 18/150 (12%), Positives = 51/150 (34%), Gaps = 2/150 (1%)

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV-MERGIITSAYMAV 323
            +      +     +Y     +D   +V   +    +   +    +  E  ++    + V
Sbjct: 61  FKGNNFVYVDEHAFNYLYRVNLDQESLVMPNVGNCGEIYYIEPENLPYENNVLGPNALLV 120

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
           +    ++ YL  L +S         + S   +      ++K++ + +PP + Q  I  ++
Sbjct: 121 RSSKENNRYLFHLFQSGQFQNELAKITSNTGQTKYNKTNLKKIRIPIPPQEIQEKIVQIL 180

Query: 383 NVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           +  T  +  L  ++          R   ++
Sbjct: 181 DKFTDYVTELTSELTSRKKQYSFYRDKLLS 210


>gi|296277375|ref|ZP_06859882.1| type I restriction-modification enzyme, S subunit [Staphylococcus
           aureus subsp. aureus MR1]
          Length = 196

 Score = 70.2 bits (170), Expect = 6e-10,   Method: Composition-based stats.
 Identities = 23/182 (12%), Positives = 51/182 (28%), Gaps = 6/182 (3%)

Query: 214 DVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK----LE 269
             +++  G E          +             +       I  L   NI        +
Sbjct: 1   MPELRFPGFEGEWEEKKLGNLTTKIGSGKTPKGGSENYTNKGIPFLRSQNIRNGKLNLND 60

Query: 270 TRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID 329
              +    +          G+++         + ++ S       +     +        
Sbjct: 61  LVYISKDIDDEMKNSRTYYGDVLLNITGASIGRTAINSIVETHANLNQHVCIIRLKKEYY 120

Query: 330 STYLA-WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI-KEQFDITNVINVETA 387
             +   +L+      K+F A   G R+ L F+++  L +  P I +EQ  I    +    
Sbjct: 121 YNFFGQYLLSRKGKRKIFLAQSGGSREGLNFKEIANLKIFTPTIFEEQQKIGQFFSKLDQ 180

Query: 388 RI 389
           +I
Sbjct: 181 QI 182



 Score = 54.4 bits (129), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 28/171 (16%), Positives = 61/171 (35%), Gaps = 13/171 (7%)

Query: 24  HWKVVPIKRFT-KLNTGRTSE------SGKDIIYIGLEDVESGTGKYLP-KDGNSRQSDT 75
            W+   +   T K+ +G+T +      + K I ++  +++ +G          +    D 
Sbjct: 12  EWEEKKLGNLTTKIGSGKTPKGGSENYTNKGIPFLRSQNIRNGKLNLNDLVYISKDIDDE 71

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIA---DFDGICSTQ-FLVLQPKDVLPELLQGWLLSI 131
              S    G +L    G  + +  I    +     +    ++   K+        +LLS 
Sbjct: 72  MKNSRTYYGDVLLNITGASIGRTAINSIVETHANLNQHVCIIRLKKEYYYNFFGQYLLSR 131

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLA-EQVLIREKIIAETVRI 181
              ++I     G +    ++K I N+ +  P +  EQ  I +       +I
Sbjct: 132 KGKRKIFLAQSGGSREGLNFKEIANLKIFTPTIFEEQQKIGQFFSKLDQQI 182


>gi|319428171|gb|ADV56245.1| restriction modification system DNA specificity domain protein
           [Shewanella putrefaciens 200]
          Length = 396

 Score = 70.2 bits (170), Expect = 6e-10,   Method: Composition-based stats.
 Identities = 41/406 (10%), Positives = 105/406 (25%), Gaps = 55/406 (13%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           +   +        G+     +          ++          ++  + ++         
Sbjct: 17  EWKELGNSINFQRGKRLVKSQLEESGEYAVFQNSMTPLGYYHESNVSAKSA--------- 67

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
            +    G         D        +   Q + +  +    +   +    +I +    A+
Sbjct: 68  FVIC-AGAAGEIGFSDDSFWAADDVYYAEQSEILNSK--YLYHFLLTQKHKIASQVRRAS 124

Query: 146 MSHADWKGIGNIPMPIPP-------LAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
           +       I  + +PIP        LA Q  I   + A T     L  E     +     
Sbjct: 125 IPRLSKSAIEKLIVPIPCPDNPEKSLAIQAEIVRILDAFTAMTAELTAELNMRKKQYNYY 184

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
           +  L+S             ++  +EW          +    +      + +     +   
Sbjct: 185 RDQLLS------------FEEGEVEW----------RALSEMAEYSKARISYTELDDSNY 222

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
           +   +++Q    +    +          +P +I+   I     K           G +  
Sbjct: 223 VGVESLLQNRAGKIDSTRTPDSGNLTQYNPDDILIGNIRPYLKKIWHADRVGGTNGDV-- 280

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVP------- 370
             +      I+  YL  ++      +       G          +    V +P       
Sbjct: 281 LVVHPTDTAINPRYLYQVLADDKFFEYNMQHAKGAKMPRGNKPKIMEYLVPIPFASNREK 340

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
            + EQ  I  +++        + E + + I L ++     R   ++
Sbjct: 341 SLSEQERIVTILDKFDTLTSSITEGLPREIELRQKQYEYYRDLLLS 386



 Score = 52.9 bits (125), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 44/219 (20%), Positives = 74/219 (33%), Gaps = 26/219 (11%)

Query: 1   MKHYKAYPQYKD---SGVQWIGAIPKHWKVVPIKRFTKLNT-GRTSESGKDIIYIGLEDV 56
           M+  K Y  Y+D   S  +  G +    +   +    + +    +     D  Y+G+E +
Sbjct: 176 MRK-KQYNYYRDQLLSFEE--GEV----EWRALSEMAEYSKARISYTELDDSNYVGVESL 228

Query: 57  ESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP 116
                  +         + +         IL G + PYL+K   AD  G  +   LV+ P
Sbjct: 229 LQNRAGKIDSTRTPDSGNLTQY---NPDDILIGNIRPYLKKIWHADRVGGTNGDVLVVHP 285

Query: 117 KD--VLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPP-------LAEQ 167
            D  + P  L   L      +      +GA M   +   I    +PIP        L+EQ
Sbjct: 286 TDTAINPRYLYQVLADDKFFEYNMQHAKGAKMPRGNKPKIMEYLVPIPFASNREKSLSEQ 345

Query: 168 VLIREKIIAE---TVRIDTLITERIRFIELLKEKKQALV 203
             I   +      T  I   +   I   +   E  + L+
Sbjct: 346 ERIVTILDKFDTLTSSITEGLPREIELRQKQYEYYRDLL 384


>gi|256854681|ref|ZP_05560045.1| predicted protein [Enterococcus faecalis T8]
 gi|256710241|gb|EEU25285.1| predicted protein [Enterococcus faecalis T8]
          Length = 211

 Score = 70.2 bits (170), Expect = 6e-10,   Method: Composition-based stats.
 Identities = 32/189 (16%), Positives = 69/189 (36%), Gaps = 11/189 (5%)

Query: 231 HWEVKPFFALVTELNRKNTK--LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDP 288
           +WE+     +  ++  KN      E+   S  YG I Q++          +  +Y +V  
Sbjct: 23  YWELCKLSDISDKVKEKNKHGKFTETLTNSAEYGIINQRVFFDKDISNVNNLNSYYVVQN 82

Query: 289 GEIVFR-FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY 347
            + V+   I        ++  ++   G+++  Y   + H ID+ YL     +        
Sbjct: 83  DDFVYNPRISNFAPVGPIKRNRLGRTGVMSPLYYVFRTHSIDNNYLEKYFDTVYWHHFME 142

Query: 348 AMGSGL----RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
             G       R ++K      +P+  P  +EQ  I         ++D  +   +  +  L
Sbjct: 143 LNGDTGARADRFAIKDSIFVEMPIPYPSTEEQQKIGIF----FKKLDQSITLYKNKLNQL 198

Query: 404 KERRSSFIA 412
           K  + +++ 
Sbjct: 199 KALKKAYLQ 207



 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 21/189 (11%), Positives = 59/189 (31%), Gaps = 8/189 (4%)

Query: 25  WKVVPIKRFTKLNTGRTSESG-KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           W++  +   +     +       + +    E        +  KD ++  +  ++  +   
Sbjct: 24  WELCKLSDISDKVKEKNKHGKFTETLTNSAEYGIINQRVFFDKDISNVNN-LNSYYVVQN 82

Query: 84  GQILYGKLGPYLRKAIIADFD-----GICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
              +Y               +     G+ S  + V +   +    L+ +  ++     +E
Sbjct: 83  DDFVYNPRISNFAPVGPIKRNRLGRTGVMSPLYYVFRTHSIDNNYLEKYFDTVYWHHFME 142

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
              +    +        +I + +P        ++KI     ++D  IT     +  LK  
Sbjct: 143 LNGDTGARADRFAIK-DSIFVEMPIPYPSTEEQQKIGIFFKKLDQSITLYKNKLNQLKAL 201

Query: 199 KQALVSYIV 207
           K+A +  + 
Sbjct: 202 KKAYLQNMF 210


>gi|321310233|ref|YP_004192562.1| type I restriction-modification system, S subunit [Mycoplasma
           haemofelis str. Langford 1]
 gi|319802077|emb|CBY92723.1| type I restriction-modification system, S subunit [Mycoplasma
           haemofelis str. Langford 1]
          Length = 199

 Score = 70.2 bits (170), Expect = 6e-10,   Method: Composition-based stats.
 Identities = 21/183 (11%), Positives = 50/183 (27%), Gaps = 7/183 (3%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG 289
           +                +++      I ++    I             +   +  I+ P 
Sbjct: 16  EDICKVQNGYSFASGKYRDSGHPIIRIGNIQDVGIQVDDFIYFWDEDYKEDLSRFILKPN 75

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
           ++V         K +L               +   P  +D  YL   +   +   +    
Sbjct: 76  DLVITARGSCCGKVALNQTNRSFYLNQGVWRLDPNPEFLDKEYLFHFLLDSNFDFIVVK- 134

Query: 350 GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
             G    L     K++ + VP +  Q +I + +N     I+  +   ++     +     
Sbjct: 135 --GTIPRLNVNQFKKIKIPVPSLFTQREIASRLNK-FREIEREINLRDKQYEYYRNY--- 188

Query: 410 FIA 412
            I 
Sbjct: 189 LIN 191



 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 24/180 (13%), Positives = 54/180 (30%), Gaps = 11/180 (6%)

Query: 27  VVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSDTS--TVSI 80
              ++   K+  G +  SGK        I + +++    +         +      +  I
Sbjct: 12  ECSLEDICKVQNGYSFASGKYRDSGHPIIRIGNIQDVGIQVDDFIYFWDEDYKEDLSRFI 71

Query: 81  FAKGQILYGKLGPYLRKAIIA--DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
                ++    G    K  +   +     +     L P     +    +   +D     +
Sbjct: 72  LKPNDLVITARGSCCGKVALNQTNRSFYLNQGVWRLDPNPEFLDKEYLFHFLLD--SNFD 129

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
            I    T+   +      I +P+P L  Q  I  ++  +   I+  I  R +  E  +  
Sbjct: 130 FIVVKGTIPRLNVNQFKKIKIPVPSLFTQREIASRLN-KFREIEREINLRDKQYEYYRNY 188


>gi|307579266|gb|ADN63235.1| type I restriction-modification system specificity determinant
           [Xylella fastidiosa subsp. fastidiosa GB514]
          Length = 101

 Score = 70.2 bits (170), Expect = 6e-10,   Method: Composition-based stats.
 Identities = 19/86 (22%), Positives = 38/86 (44%), Gaps = 5/86 (5%)

Query: 339 SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP-IKEQFDITNVINVETARIDVLVEKIE 397
           ++    +      G +Q+L  E V+ L    PP   EQ +I ++I+    +ID       
Sbjct: 2   TWRYEDIRSLAHGGQQQNLNLEMVRDLLFATPPSHAEQDEIVSIIDAIDRKID----LHR 57

Query: 398 QSIVLLKERRSSFIAAAVTGQIDLRG 423
           +   +L++   S +   +TG+I +  
Sbjct: 58  RKRHVLEDMSKSLLHKLMTGEISVSD 83


>gi|291320530|ref|YP_003515794.1| type I R/M system specificity subunit [Mycoplasma agalactiae]
 gi|290752865|emb|CBH40840.1| Type I R/M system specificity subunit [Mycoplasma agalactiae]
          Length = 395

 Score = 70.2 bits (170), Expect = 7e-10,   Method: Composition-based stats.
 Identities = 46/393 (11%), Positives = 109/393 (27%), Gaps = 23/393 (5%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIY-IGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           W+    +        +  ++   I Y +  ++      ++  + G +  +D     I + 
Sbjct: 19  WEQWKARGILLPYRQKNDKNLTLISYSVSNKEGFVDQKEFFDEGGKAVYADKKNSLIISF 78

Query: 84  GQILYGKLGPYLRKAIIADF--DGICSTQFLVLQPKDV-LPELLQGWLLSIDVTQRIEAI 140
               Y      +    +     +G+ S  + V +      P+ +  W  S    + +   
Sbjct: 79  DTFAYNPSRINVGSIALFKNTINGLVSPIYEVFKVSANSNPDFIYLWFKSECFNKIVANN 138

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
              +     + K   +  + +P L EQ  I +   +    I     +      L      
Sbjct: 139 SNKSVRDTLNLKQFEDNLLNLPVLQEQNKIAKLFSSLDSLITLHQRKHSSLKNLKNR--- 195

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
            L+  +     +    ++               +           +K  +L +       
Sbjct: 196 -LLDKMFCDEKSQFPSIRFKEFTNAWEQEKLGNLTILNRFPQISAQKLWELNQYFGEVFL 254

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
                      N      S E   +++ GE++          R+     V    I +  +
Sbjct: 255 LP-----SSDNNNWKCKYSKEIANLINTGEVI-----TIGRARNPNVKYVNGTFISSQNH 304

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
           +                    + K FY   S         D        P + EQ  I  
Sbjct: 305 IIESKTTDTLLNKFLYFFITKVGKKFYGFES-TYPMFTKIDFLNTKFSFPIVSEQIKIIK 363

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            I++    +D L+   ++ +  LK  +++ +  
Sbjct: 364 TIDI----LDSLITLHQRKLNSLKNIKNTLLEK 392



 Score = 63.7 bits (153), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 26/190 (13%), Positives = 67/190 (35%), Gaps = 7/190 (3%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG-NIIQKLETRNMGLKPESYETYQI 285
              + WE      ++    +KN K +     S+S     + + E  + G K    +    
Sbjct: 14  EFTNAWEQWKARGILLPYRQKNDKNLTLISYSVSNKEGFVDQKEFFDEGGKAVYADKKNS 73

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY-MAVKPHGIDSTYLAWLMRSYDLCK 344
           +      F +   + +  S+   +    G+++  Y +       +  ++    +S    K
Sbjct: 74  LIISFDTFAYNPSRINVGSIALFKNTINGLVSPIYEVFKVSANSNPDFIYLWFKSECFNK 133

Query: 345 VF-YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
           +        +R +L  +  +   + +P ++EQ  I        + +D L+   ++    L
Sbjct: 134 IVANNSNKSVRDTLNLKQFEDNLLNLPVLQEQNKIA----KLFSSLDSLITLHQRKHSSL 189

Query: 404 KERRSSFIAA 413
           K  ++  +  
Sbjct: 190 KNLKNRLLDK 199


>gi|332074782|gb|EGI85255.1| type I restriction modification DNA specificity domain protein
           [Streptococcus pneumoniae GA17570]
          Length = 240

 Score = 70.2 bits (170), Expect = 7e-10,   Method: Composition-based stats.
 Identities = 29/185 (15%), Positives = 67/185 (36%), Gaps = 14/185 (7%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL------- 275
           E    +P+ WE      + + + R  +    +  +         +    ++ L       
Sbjct: 56  EVPCEIPESWEWVRLNDITSYIQRGKSPKYSNIPIYPVIAQKCNQWSGFSIDLARFIDPE 115

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKR-SLRSAQVMERGIITSA----YMAVKPHGIDS 330
              SY+  +++  G++++    L    R ++        G   +      + V    I+ 
Sbjct: 116 TVHSYQKERLLRDGDLMWNSTGLGTLGRLAIYHENKNPYGWAVADSHVTVIRVLSGVINC 175

Query: 331 TYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
            ++   + S  +  V     SG   ++ L  + +K   + +PP+ EQ  I + I    A 
Sbjct: 176 HFIYNFLSSPIVQSVIEEKASGSTKQKELLTKTIKEYLIPLPPLPEQSRIVDKIEQFFAH 235

Query: 389 IDVLV 393
           I+ L+
Sbjct: 236 INALI 240



 Score = 50.9 bits (120), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 28/181 (15%), Positives = 50/181 (27%), Gaps = 15/181 (8%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT-----GKYLPKDGNSRQSD 74
            IP+ W+ V +   T       S    +I    +   +                      
Sbjct: 60  EIPESWEWVRLNDITSYIQRGKSPKYSNIPIYPVIAQKCNQWSGFSIDLARFIDPETVHS 119

Query: 75  TSTVSIFAKGQILYGKL--GPYLRKAIIADF-----DGICSTQFLVLQPKDVLPELLQGW 127
                +   G +++     G   R AI  +        +  +   V++    +      +
Sbjct: 120 YQKERLLRDGDLMWNSTGLGTLGRLAIYHENKNPYGWAVADSHVTVIRVLSGVINCHFIY 179

Query: 128 LLSIDVTQR---IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
                   +    E             K I    +P+PPL EQ  I +KI      I+ L
Sbjct: 180 NFLSSPIVQSVIEEKASGSTKQKELLTKTIKEYLIPLPPLPEQSRIVDKIEQFFAHINAL 239

Query: 185 I 185
           I
Sbjct: 240 I 240


>gi|229547240|ref|ZP_04435965.1| type I site-specific deoxyribonuclease specificity subunit
           [Enterococcus faecalis TX1322]
 gi|229307637|gb|EEN73624.1| type I site-specific deoxyribonuclease specificity subunit
           [Enterococcus faecalis TX1322]
          Length = 225

 Score = 70.2 bits (170), Expect = 7e-10,   Method: Composition-based stats.
 Identities = 32/189 (16%), Positives = 69/189 (36%), Gaps = 11/189 (5%)

Query: 231 HWEVKPFFALVTELNRKNTK--LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDP 288
           +WE+     +  ++  KN      E+   S  YG I Q++          +  +Y +V  
Sbjct: 37  YWELCKLSDISDKVKEKNKHGKFTETLTNSAEYGIINQRVFFDKDISNVNNLNSYYVVQN 96

Query: 289 GEIVFR-FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY 347
            + V+   I        ++  ++   G+++  Y   + H ID+ YL     +        
Sbjct: 97  DDFVYNPRISNFAPVGPIKRNRLGRTGVMSPLYYVFRTHSIDNNYLEKYFDTVYWHHFME 156

Query: 348 AMGSGL----RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
             G       R ++K      +P+  P  +EQ  I         ++D  +   +  +  L
Sbjct: 157 LNGDTGARADRFAIKDSIFVEMPIPYPSTEEQQKIGIF----FKKLDQSITLYKNKLNQL 212

Query: 404 KERRSSFIA 412
           K  + +++ 
Sbjct: 213 KALKKAYLQ 221



 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 21/189 (11%), Positives = 59/189 (31%), Gaps = 8/189 (4%)

Query: 25  WKVVPIKRFTKLNTGRTSESG-KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           W++  +   +     +       + +    E        +  KD ++  +  ++  +   
Sbjct: 38  WELCKLSDISDKVKEKNKHGKFTETLTNSAEYGIINQRVFFDKDISNVNN-LNSYYVVQN 96

Query: 84  GQILYGKLGPYLRKAIIADFD-----GICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
              +Y               +     G+ S  + V +   +    L+ +  ++     +E
Sbjct: 97  DDFVYNPRISNFAPVGPIKRNRLGRTGVMSPLYYVFRTHSIDNNYLEKYFDTVYWHHFME 156

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
              +    +        +I + +P        ++KI     ++D  IT     +  LK  
Sbjct: 157 LNGDTGARADRFAIK-DSIFVEMPIPYPSTEEQQKIGIFFKKLDQSITLYKNKLNQLKAL 215

Query: 199 KQALVSYIV 207
           K+A +  + 
Sbjct: 216 KKAYLQNMF 224


>gi|291542120|emb|CBL15230.1| Restriction endonuclease S subunits [Ruminococcus bromii L2-63]
          Length = 169

 Score = 70.2 bits (170), Expect = 7e-10,   Method: Composition-based stats.
 Identities = 26/163 (15%), Positives = 57/163 (34%), Gaps = 9/163 (5%)

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI-VDPGEIVFRFIDLQNDKRS 304
           +            ++Y N+           +    +  Q  V  G++ F       D+  
Sbjct: 11  KTKDDFGHGEAKFITYMNVFSNPIADLTMTESIEIDKKQKSVKAGDVFFTTSSETPDEVG 70

Query: 305 LRSA--QVMERGIITSAYMAVKP-HGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFE 360
           + S   +  +   + S     +P    D  YLA+++R+    K    +  G+ R ++   
Sbjct: 71  MSSVMPEDADNIYLNSFCFGYRPTEKFDLNYLAYVLRADSFRKEMTFLAQGISRYNISKN 130

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
            V  + + VP I+EQ  +          +D L+   ++    +
Sbjct: 131 KVMEVCIPVPTIEEQTKVGRY----FRNLDHLITLHQRKQERI 169


>gi|323965458|gb|EGB60913.1| type I restriction modification DNA specificity domain-containing
           protein [Escherichia coli M863]
 gi|327250265|gb|EGE61984.1| type I restriction modification DNA specificity domain protein
           [Escherichia coli STEC_7v]
          Length = 438

 Score = 69.8 bits (169), Expect = 7e-10,   Method: Composition-based stats.
 Identities = 56/433 (12%), Positives = 115/433 (26%), Gaps = 54/433 (12%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKD------IIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           W+ V +   TK ++G T    +D      I +I    +E G      K   +     +  
Sbjct: 5   WETVRLGDLTKWSSGGTPNKSEDSYWNGTIPWISASSME-GHLYSDSKLKITEDGLINGS 63

Query: 79  SIFAKGQILYGKLGPYLRK---AIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
            +     IL    G  L +     +A      +     L   + + +     L      Q
Sbjct: 64  RLAPANSILLLVRGSILHQKIQVGLATKAVAFNQDVKCLIVNNDMIDPWYLLLWFKAKEQ 123

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            +  I E   +          +  P+    +   I+E I      I   IT        L
Sbjct: 124 DLLKIVESTGIGAGKLDTKLLMDYPVEIPPK--EIKEYIRFLGKAIFDKITLNENINYNL 181

Query: 196 KEKKQALVSYIVTKGLNPDVK----------------------------MKDSGIEWVGL 227
           ++  Q L         +P +                              K    E   L
Sbjct: 182 EKMSQTLFKSWFVD-FDPVIDNALDVGNQIPEALQARAELRQKVRNSADFKPLPTEIRSL 240

Query: 228 VPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI-- 285
            P  +E      +         + +          +  + +    +        T+ I  
Sbjct: 241 FPSEFEETELGWVPKGWEIGKLQDLLILQRGFDLPSTQRNIGLHPIIAASGYNGTHDIAM 300

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV 345
           V    IV     +  +   +    + +   + +     +       Y   L++  D    
Sbjct: 301 VKAPGIVTGRSGVLGNVFLI----LEDFWPLNTTLWVKELKHATPCYGYELLKMIDFSSF 356

Query: 346 FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
               G     +L    +  L  L+PP            + +  +   V + ++    L  
Sbjct: 357 ---NGGSAVPTLNRNHIHNLDYLLPPRNL----IEKFELFSMSLYRQVHEFKKQAQTLTA 409

Query: 406 RRSSFIAAAVTGQ 418
            R + +   ++G+
Sbjct: 410 LRDTLLPKLISGE 422



 Score = 47.9 bits (112), Expect = 0.003,   Method: Composition-based stats.
 Identities = 29/187 (15%), Positives = 57/187 (30%), Gaps = 16/187 (8%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +G +PK W++  ++    L  G    S                    P    S  + T  
Sbjct: 250 LGWVPKGWEIGKLQDLLILQRGFDLPST------------QRNIGLHPIIAASGYNGTHD 297

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
           +++     I+ G+ G      +I +     +T   V + K   P      L  ID     
Sbjct: 298 IAMVKAPGIVTGRSGVLGNVFLILEDFWPLNTTLWVKELKHATPCYGYELLKMIDF---- 353

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
            +   G+ +   +   I N+   +PP           ++   ++     +      L   
Sbjct: 354 SSFNGGSAVPTLNRNHIHNLDYLLPPRNLIEKFELFSMSLYRQVHEFKKQAQTLTALRDT 413

Query: 198 KKQALVS 204
               L+S
Sbjct: 414 LLPKLIS 420


>gi|197104448|ref|YP_002129825.1| type I restriction-modification system, S subunit [Phenylobacterium
           zucineum HLK1]
 gi|196477868|gb|ACG77396.1| type I restriction-modification system, S subunit [Phenylobacterium
           zucineum HLK1]
          Length = 487

 Score = 69.8 bits (169), Expect = 7e-10,   Method: Composition-based stats.
 Identities = 51/415 (12%), Positives = 114/415 (27%), Gaps = 53/415 (12%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           P+ W    +        G+           GL+  +      +P  G++     ++V + 
Sbjct: 64  PRGWLRARVGDLLDFQYGK-----------GLKASDREDAGPIPVYGSNGVVGFTSVPLT 112

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            +  I+ G+ G      +           + +  P       L   L ++D+    + + 
Sbjct: 113 RQPSIIVGRKGSAGALNLCTVPSWTTDVAYFIEVPSYFDFNYLFHALTALDLGTLGKGVK 172

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            G             + + +PP+ EQ  I  KI       D L   R            A
Sbjct: 173 PG-----LSRSDAYALVLAVPPVGEQRRIVAKIDELMALCDELEAARTAREAARDRLAAA 227

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVK-------------------------- 235
            ++ + T             ++ +  +                                 
Sbjct: 228 SLARLNTPNPGTFQADARFALDALPALTARPGQIAQLRNTILSLAVRGGLSGNPAWSRQA 287

Query: 236 ----PFFALVTELNRKNTKLIESNILSLSYGNI----IQKLETRNMGLKPESYETYQIVD 287
                F +L      K+    +S    +   N+    +   +   +            ++
Sbjct: 288 VRLGDFASLQNGYAFKSEWFSKSGTRLVRNANVGHGSLNWSDEVRLPDTMIHEFERFRLN 347

Query: 288 PGEIVFR---FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCK 344
            G+IV        +   K +  + + +   ++      V    +D++YL   + S     
Sbjct: 348 EGDIVLSLDRPFIVSGTKVARVAKEDLPALLLQRVGRFVLSKELDASYLFLWINSPHFSA 407

Query: 345 VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
                 S     +  + V+   + +PP  EQ  I   +       D L   +  +
Sbjct: 408 QIDPGRSNGVPHISSKQVETAEIYLPPPAEQRRIAAEVERLMTICDELEASLTAA 462


>gi|209525707|ref|ZP_03274244.1| type I restriction-modification enzyme S subunit [Arthrospira
           maxima CS-328]
 gi|209493876|gb|EDZ94194.1| type I restriction-modification enzyme S subunit [Arthrospira
           maxima CS-328]
          Length = 125

 Score = 69.8 bits (169), Expect = 7e-10,   Method: Composition-based stats.
 Identities = 14/111 (12%), Positives = 42/111 (37%), Gaps = 8/111 (7%)

Query: 315 IITSAYMAVKPHGIDSTYLAWL--MRSYDLCKVFYAM--GSGLRQSLKFEDVKRLPVLVP 370
           +  +A +    +    T       ++  +       +  G+  + ++  +++    V +P
Sbjct: 14  LNQNAIIIRSKNFSQETQFFLYNSLKKPEYINHIEKIFRGNANQANITVKELLEFTVAIP 73

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           P+ EQ  I +V++         +  +E+     +  +   +   +TG+  L
Sbjct: 74  PLAEQKAIASVLSYMDKE----IAALEKRRAKTEWIKKGMMQELLTGRKRL 120


>gi|70730331|ref|YP_260070.1| type I restriction-modification system, S subunit [Pseudomonas
           fluorescens Pf-5]
 gi|68344630|gb|AAY92236.1| type I restriction-modification system, S subunit, putative
           [Pseudomonas fluorescens Pf-5]
          Length = 551

 Score = 69.8 bits (169), Expect = 7e-10,   Method: Composition-based stats.
 Identities = 59/409 (14%), Positives = 130/409 (31%), Gaps = 38/409 (9%)

Query: 21  IPKHWKVVPIKRFTKLNTG-RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           +P  WK V +    +LN   +  E    + +     +   TG  L     +    +    
Sbjct: 3   LPPSWKEVGLLDVCELNPRIQRPEPETPVTFFPKSLITELTGPSLNSSIQAYGETSRQGV 62

Query: 80  IFAKGQILYGKLGPYLRKA----IIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
           +F  G +L    G    +A     +    G+      +     + P  L  ++    V +
Sbjct: 63  LFKNGDVLIATRGRDAMQATIVSGLVTELGLAQYFLALRAGPQIRPAFLLHFIQQPWVQK 122

Query: 136 RIEAICEG-ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
                  G  +          N+ +P+PPL EQ  + + +          +      +  
Sbjct: 123 AALNTNRGTQSQLSIPLSFFKNLSIPVPPLQEQDYLIQLLQ------KASLEPYQDALNK 176

Query: 195 LKEKKQALVSYIVTKGLNP--DVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           + +   AL   ++  G       ++K S I                +      +K     
Sbjct: 177 VIDLSDALALQLLVSGEKAQAWPRVKLSSICEF-------------SPAGAHPKKYQGPS 223

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
            + + S    + I            E   T   V   +++F        +    +    E
Sbjct: 224 RTELFSPRSFDHITGQVEPQRLKLEELPPTCAEVQADDVLFTLNQSFRSRGIAFAVTPDE 283

Query: 313 RG--IITSAYMAVKPHGI--DSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPV 367
               + ++A+  ++P+     + YLA  +R   L +   A     +   +     +RL +
Sbjct: 284 YATPLASAAFQVLRPNTKVLLADYLACFIRLSWLRQHVPASVLRSIPGRIYRSFFERLEL 343

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
            +PP+ +Q  I N++          +E+I  ++   +    + +  A +
Sbjct: 344 PLPPLDQQKPIVNLLRKVP------IERINDALETARRLGEAMLTEAFS 386


>gi|240047679|ref|YP_002961067.1| putative type-1 restriction enzyme specificity [Mycoplasma
           conjunctivae HRC/581]
 gi|239985251|emb|CAT05264.1| Putative type-1 restriction enzyme specificity [Mycoplasma
           conjunctivae]
          Length = 387

 Score = 69.8 bits (169), Expect = 7e-10,   Method: Composition-based stats.
 Identities = 47/397 (11%), Positives = 113/397 (28%), Gaps = 41/397 (10%)

Query: 25  WKVVPIKRFTKLNTGRTSESG-------KDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           W+   +     +  G T  +        K ++++ + D++S       K  +++    + 
Sbjct: 19  WRHRKLFEIGTIIAGNTPSTKIAEYYAKKGLMWVNILDIKSDITIDTQKKLSTK--GVAV 76

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
             +     IL   +    R  +I +   + +     L P          ++ S + T+ +
Sbjct: 77  AKVVPANSILCSVVAILGRNTLILEKSAL-NQALTALTPSKFYD-PYFLYIDSFNWTKSM 134

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           + +  G+     +     NI   +P L EQ LI              I    +      E
Sbjct: 135 QNLGAGSLFQIVNKTDFSNITTLVPDLEEQQLIGNFFRKL-----NRILNTYQAKITKLE 189

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
             + ++       LN       +         +        A +  + +         + 
Sbjct: 190 SIKNIL-------LNKMFVQPTNQPLIRFKDYNSLWKINILAELASIKKGEQVNRNDFVK 242

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
           +  Y          N G++P  Y      +   I+                   ++   +
Sbjct: 243 NGKYPVW-------NGGIEPSGYYNKFNTEENTILIAEGGSTGFV------NFSKQKFWS 289

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV-PPIKEQF 376
             +     +    TY  +         +          +L+   + R+ +      +EQ 
Sbjct: 290 GGHNYTLQNVKLDTYFLFYNLKNQQDFITSLKLGTALTNLQKHRLSRVFISFSRDFEEQQ 349

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            I          ID L+   E  +  ++  ++S +  
Sbjct: 350 KIA----KLFKNIDNLLNLYELKLQKIEIIKTSLLDK 382


>gi|254360725|ref|ZP_04976873.1| type I site-specific deoxyribonuclease, specificity subunit
           [Mannheimia haemolytica PHL213]
 gi|1685099|gb|AAC44667.1| HSDS [Mannheimia haemolytica]
 gi|153091295|gb|EDN73269.1| type I site-specific deoxyribonuclease, specificity subunit
           [Mannheimia haemolytica PHL213]
          Length = 442

 Score = 69.8 bits (169), Expect = 8e-10,   Method: Composition-based stats.
 Identities = 62/443 (13%), Positives = 127/443 (28%), Gaps = 65/443 (14%)

Query: 30  IKRFTKLNTGRTSESG-KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
                +L + +      K   YI  +++    G     +     +   + + FAK  IL+
Sbjct: 8   FSDIVELISEKIKIKDLKKENYISTDNMLPNFGGITLAENLPNSA---SCNRFAKKDILF 64

Query: 89  GKLGPYLRKAIIADFDGICSTQFLVLQPKDVL---PELLQGWLLSIDVTQRIEAICEGAT 145
             +  Y +K  +A+F G CS   LV++ K+      E L   + S D          GA 
Sbjct: 65  SNIRTYFKKVWLAEFSGGCSPDVLVMRSKNTDILLNEYLFLLIRSDDFINFTVISANGAK 124

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV-- 203
           M   D   +      IP +  Q        A   +I            + +   ++    
Sbjct: 125 MPRGDKNAMKGFIFNIPSIEYQKKCIANYFAFDQKIQLNTQTNQTLEAIAQAIFKSWFVD 184

Query: 204 ---------------------------------SYIVTKGLNPDVKMKDSGIEWVGLV-- 228
                                            S +         ++ ++     G    
Sbjct: 185 FDPVRAKAAALSEGKSEHEANLAAMSVICGKDTSELNDTEYKALWQIAEAFPSEFGDEGL 244

Query: 229 PDHWEVKPFFALVTELNRKNTKLIE-----------SNILSLSYGNIIQKLETRNMGLKP 277
           P  W+      L      K     E             I     GN    +   +  LK 
Sbjct: 245 PIGWKFNQADNLFDVGIGKTPPRKESEWFSDNANDTEWISIKDMGNQGLFITESSEYLKA 304

Query: 278 ESYETYQI--VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
           E+ +T+ I  +    ++  F                   I  + +       + S +L  
Sbjct: 305 EAVDTFNIKRIPENTVILSFKLTVGRVSITTKETTTNEAI--AHFKIPSSSNLSSEFLYC 362

Query: 336 LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
            ++++D   +     S +  ++  + +K + +L P +         I     +I   + +
Sbjct: 363 YLKNFDFNNL--GSTSSIATAVNSKMIKEMEILEPSVLVINHFNEYIEGIFNKIKENIIQ 420

Query: 396 IEQSIVLLKERRSSFIAAAVTGQ 418
                  L + R   +   ++G+
Sbjct: 421 NNN----LSKIRDKLLPKLLSGE 439



 Score = 43.6 bits (101), Expect = 0.056,   Method: Composition-based stats.
 Identities = 20/195 (10%), Positives = 53/195 (27%), Gaps = 12/195 (6%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGK---------DIIYIGLEDVESGTGKYLPKDGNSR 71
           +P  WK         +  G+T    +         D  +I ++D+ +            +
Sbjct: 244 LPIGWKFNQADNLFDVGIGKTPPRKESEWFSDNANDTEWISIKDMGNQGLFITESSEYLK 303

Query: 72  QS--DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
               DT  +    +  ++       + +  I   +   +      +         +    
Sbjct: 304 AEAVDTFNIKRIPENTVILS-FKLTVGRVSITTKETTTNEAIAHFKIPSSSNLSSEFLYC 362

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
            +            +  +  + K I  + +  P +       E I     +I   I +  
Sbjct: 363 YLKNFDFNNLGSTSSIATAVNSKMIKEMEILEPSVLVINHFNEYIEGIFNKIKENIIQNN 422

Query: 190 RFIELLKEKKQALVS 204
              ++  +    L+S
Sbjct: 423 NLSKIRDKLLPKLLS 437


>gi|238855188|ref|ZP_04645509.1| HsdS [Lactobacillus jensenii 269-3]
 gi|238832217|gb|EEQ24533.1| HsdS [Lactobacillus jensenii 269-3]
          Length = 373

 Score = 69.8 bits (169), Expect = 8e-10,   Method: Composition-based stats.
 Identities = 44/369 (11%), Positives = 100/369 (27%), Gaps = 46/369 (12%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIY-IGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           WK V + R  K    +      +I   I  +        +  +       + +   +  +
Sbjct: 38  WKKVKLGRNVKRIRRKNKNLETNIPLTISAQFGLVDQRDFFGR--VVASENLANYILLKR 95

Query: 84  GQILYGKLGPYLRKAIIAD-----FDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           G+  Y K                  +G  ST ++   P+++  + L+ +  +      I 
Sbjct: 96  GEFAYNKSYSKEAPYGSIKRLEKYNEGALSTLYIAFTPENINSDFLKAFFDTTKWYSHIV 155

Query: 139 AICEGATMSH----ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
            +      +H       +    + + IP   EQ  I          +     +     ++
Sbjct: 156 QVSTEGARNHGLLNISPQDFFEMSITIPKSDEQNNISRIYNLMNSLLSLQQRKLELEKQI 215

Query: 195 LKEKKQALVSY-IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
               K  + +  +   G    +K K   +      P+            ++   N     
Sbjct: 216 FYALKTHIFAKDLFFNGQKDMIKYKLKDVS-NMYQPETITATQMSTNGYKVFGAN----- 269

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
                  Y         ++  +                            +     V   
Sbjct: 270 ------GYIGHYYNFNHKDDAIT----------------ICARGASTGAVNFVPGPVWIT 307

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
           G   S  + +    I+  Y  + + + +L K       G +  L  E +  + V + PI 
Sbjct: 308 G--NSMVVDIDSKLINQLYFYYYLTTLNLKKYI---TGGAQPQLTKEILNGINVNLIPIN 362

Query: 374 EQFDITNVI 382
            Q  + N++
Sbjct: 363 IQIKVANIL 371



 Score = 55.6 bits (132), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 33/214 (15%), Positives = 82/214 (38%), Gaps = 19/214 (8%)

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS-YG 262
           ++   + L P V+ +     W        +       V  + RKN  L  +  L++S   
Sbjct: 18  THADEQRLYPKVRFRGFDEPW--------KKVKLGRNVKRIRRKNKNLETNIPLTISAQF 69

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS-LRSAQVMERGIITSAYM 321
            ++ + +     +  E+   Y ++  GE  +     +      ++  +    G +++ Y+
Sbjct: 70  GLVDQRDFFGRVVASENLANYILLKRGEFAYNKSYSKEAPYGSIKRLEKYNEGALSTLYI 129

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQ----SLKFEDVKRLPVLVPPIKEQF 376
           A  P  I+S +L     +         + + G R     ++  +D   + + +P   EQ 
Sbjct: 130 AFTPENINSDFLKAFFDTTKWYSHIVQVSTEGARNHGLLNISPQDFFEMSITIPKSDEQN 189

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
           +I+ + N+     + L+   ++ + L K+   + 
Sbjct: 190 NISRIYNLM----NSLLSLQQRKLELEKQIFYAL 219


>gi|282934312|ref|ZP_06339582.1| type I restriction-modification system subunit [Lactobacillus
           jensenii 208-1]
 gi|281301596|gb|EFA93870.1| type I restriction-modification system subunit [Lactobacillus
           jensenii 208-1]
          Length = 372

 Score = 69.8 bits (169), Expect = 8e-10,   Method: Composition-based stats.
 Identities = 44/369 (11%), Positives = 100/369 (27%), Gaps = 46/369 (12%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIY-IGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           WK V + R  K    +      +I   I  +        +  +       + +   +  +
Sbjct: 38  WKKVKLGRNVKRIRRKNKNLETNIPLTISAQFGLVDQRDFFGR--VVASENLANYILLKR 95

Query: 84  GQILYGKLGPYLRKAIIAD-----FDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           G+  Y K                  +G  ST ++   P+++  + L+ +  +      I 
Sbjct: 96  GEFAYNKSYSKEAPYGSIKRLEKYNEGALSTLYIAFTPENINSDFLKAFFDTTKWYSHIV 155

Query: 139 AICEGATMSH----ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
            +      +H       +    + + IP   EQ  I          +     +     ++
Sbjct: 156 QVSTEGARNHGLLNISPQDFFEMSITIPKSDEQNNISRIYNLMNSLLSLQQRKLELEKQI 215

Query: 195 LKEKKQALVSY-IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
               K  + +  +   G    +K K   +      P+            ++   N     
Sbjct: 216 FYALKTHIFAKDLFFNGQKDMIKYKLKDVS-NMYQPETITATQMSTNGYKVFGAN----- 269

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
                  Y         ++  +                            +     V   
Sbjct: 270 ------GYIGHYYNFNHKDDAIT----------------ICARGASTGAVNFVPGPVWIT 307

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
           G   S  + +    I+  Y  + + + +L K       G +  L  E +  + V + PI 
Sbjct: 308 G--NSMVVDIDSKLINQLYFYYYLTTLNLKKYI---TGGAQPQLTKEILNGINVNLIPIN 362

Query: 374 EQFDITNVI 382
            Q  + N++
Sbjct: 363 IQIKVANIL 371



 Score = 55.6 bits (132), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 33/214 (15%), Positives = 82/214 (38%), Gaps = 19/214 (8%)

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS-YG 262
           ++   + L P V+ +     W        +       V  + RKN  L  +  L++S   
Sbjct: 18  THADEQRLYPKVRFRGFDEPW--------KKVKLGRNVKRIRRKNKNLETNIPLTISAQF 69

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS-LRSAQVMERGIITSAYM 321
            ++ + +     +  E+   Y ++  GE  +     +      ++  +    G +++ Y+
Sbjct: 70  GLVDQRDFFGRVVASENLANYILLKRGEFAYNKSYSKEAPYGSIKRLEKYNEGALSTLYI 129

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQ----SLKFEDVKRLPVLVPPIKEQF 376
           A  P  I+S +L     +         + + G R     ++  +D   + + +P   EQ 
Sbjct: 130 AFTPENINSDFLKAFFDTTKWYSHIVQVSTEGARNHGLLNISPQDFFEMSITIPKSDEQN 189

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
           +I+ + N+     + L+   ++ + L K+   + 
Sbjct: 190 NISRIYNLM----NSLLSLQQRKLELEKQIFYAL 219


>gi|225860523|ref|YP_002742032.1| type I restriction enzyme specificity protein [Streptococcus
           pneumoniae Taiwan19F-14]
 gi|225728021|gb|ACO23872.1| type I restriction enzyme specificity protein [Streptococcus
           pneumoniae Taiwan19F-14]
          Length = 426

 Score = 69.8 bits (169), Expect = 8e-10,   Method: Composition-based stats.
 Identities = 29/192 (15%), Positives = 66/192 (34%), Gaps = 7/192 (3%)

Query: 232 WEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEI 291
             +K  +    +   + +             NII     + +  +       ++V    +
Sbjct: 1   MRIKSIYWNFGQNKPEKSFRYIDTSSIDRKKNIINYKNLQYLSPEQAPSRARKLVSQNSV 60

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
           +F  +       ++     ++  +I S    V    ++ TYL + + S +         +
Sbjct: 61  LFSTVRPYLKNIAVVR--ELKEYLIASTAFIVLDTLLNETYLKYYLLSDNFINRVNNKST 118

Query: 352 GLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----R 406
           G    ++   +   L + +PP+ EQ  I   I     ++D   E   +   L KE     
Sbjct: 119 GTSYPAINDYNFNLLLIALPPLSEQQRIIEAIESALEKVDEYAESYNRLEQLDKEFPDKL 178

Query: 407 RSSFIAAAVTGQ 418
           + S +  A+ G+
Sbjct: 179 KKSILQYAMQGK 190



 Score = 57.1 bits (136), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 61/416 (14%), Positives = 124/416 (29%), Gaps = 69/416 (16%)

Query: 42  SESGKDIIYIGLEDVESGTGKYLPKDG---NSRQSDTSTVSIFAKGQILYGKLGPYLRKA 98
           ++  K   YI    ++        K+    +  Q+ +    + ++  +L+  + PYL+  
Sbjct: 13  NKPEKSFRYIDTSSIDRKKNIINYKNLQYLSPEQAPSRARKLVSQNSVLFSTVRPYLKNI 72

Query: 99  IIA---DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIG 155
            +        I ST F+VL        L   +LLS +   R+     G +    +     
Sbjct: 73  AVVRELKEYLIASTAFIVLDTLLNETYLKY-YLLSDNFINRVNNKSTGTSYPAINDYNFN 131

Query: 156 NIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK----QALVSYIVTKGL 211
            + + +PPL+EQ  I E I +   ++D       R  +L KE      ++++ Y +   L
Sbjct: 132 LLLIALPPLSEQQRIIEAIESALEKVDEYAESYNRLEQLDKEFPDKLKKSILQYAMQGKL 191

Query: 212 NPDVKMKDSGIEWV---------------------------------------------- 225
                  +S    +                                              
Sbjct: 192 VEQDPNDESVEVLLEKIRAEKQKLFEEGKIKKKDLDISIVSQGDDNSYYGNKDETTSYPI 251

Query: 226 GLVPDHWEVKPFFALVTELNRKNTK-----LIESNILSLSYGNIIQKLETRN----MGLK 276
             +P+ W    F +LV     K           + I  +S  ++       N    +   
Sbjct: 252 YEIPEAWRYIKFASLVNFRIGKTPPRSEATFWGTEIPWVSISDMPISGYVTNTRESISKL 311

Query: 277 PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWL 336
               +   I   G ++  F         L         II+  +       I   YL   
Sbjct: 312 ALKSKKIDISPKGTLLMSFKLSIGKVAILDIPATHNEAIIS-IFPYANKENIIRDYLMIF 370

Query: 337 MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
           +              G  ++L    +  L + +   +E   I + +++   ++  L
Sbjct: 371 LPLISTLGDSKDAIKG--KTLNSTSISELLIPISNHEEMKRIISKVDLLFQKVSQL 424



 Score = 47.9 bits (112), Expect = 0.003,   Method: Composition-based stats.
 Identities = 19/119 (15%), Positives = 43/119 (36%), Gaps = 8/119 (6%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDV-ESGTGKYLPKDGNS 70
           I  IP+ W+ +          G+T    +      +I ++ + D+  SG      +  + 
Sbjct: 251 IYEIPEAWRYIKFASLVNFRIGKTPPRSEATFWGTEIPWVSISDMPISGYVTNTRESISK 310

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
               +  + I  KG +L       + K  I D     +   + + P      +++ +L+
Sbjct: 311 LALKSKKIDISPKGTLLMS-FKLSIGKVAILDIPATHNEAIISIFPYANKENIIRDYLM 368


>gi|281420897|ref|ZP_06251896.1| type I restriction-modification system, S subunit [Prevotella copri
           DSM 18205]
 gi|281405189|gb|EFB35869.1| type I restriction-modification system, S subunit [Prevotella copri
           DSM 18205]
          Length = 373

 Score = 69.8 bits (169), Expect = 8e-10,   Method: Composition-based stats.
 Identities = 59/403 (14%), Positives = 127/403 (31%), Gaps = 34/403 (8%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            WK   +    ++  G+  +   D  Y              P  G+          ++  
Sbjct: 2   EWKEDVLGNVLEVKYGKDHKKLADGQY--------------PVYGSGGLMRYVDSILYDG 47

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
             IL  + G       +        T F  +   D +      + +     +   ++  G
Sbjct: 48  PSILIPRKGTLNNIMFVDSPFWTVDTMFWSIINTDKVDPKFLFYSIC---KRDFASMNVG 104

Query: 144 ATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           + +       + +I +  P  +++Q  I   +      +D  I    +    L+E  QA+
Sbjct: 105 SAVPSMTVNILNDIQISYPKNISDQRRIASIL----SSLDRKIELNNKINADLEEMAQAI 160

Query: 203 V-SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
             ++ V      D K  DS +  +           +  +V     K+ K  ++    L  
Sbjct: 161 FKNWFVDFEPFKDGKFVDSELGMIPEGWKVGSPYEYVKVVYGAPYKSAKFNDNGE-GLPL 219

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
             I    +       PE     + V+ G+IV        D   +        G++     
Sbjct: 220 IRIRDLKDCNPQFYTPEILPQTEYVNMGDIV-----AGMDAEFVPHIWKGNTGLLNQRVC 274

Query: 322 AVKPHGID-STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
            + P     S      +   +L  V           L   D+ +  V++PP++   + + 
Sbjct: 275 KLMPQQTSISNLFVLYLMKPELEFVQSYKTGTTVSHLGKADIDKFVVVLPPLEVVEECSK 334

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
           +++    RI  +    E  I  L   R + +   ++G+I++  
Sbjct: 335 ILDSILQRIKNI--STESRI--LSTLRDTLLPRLMSGEIEVPE 373



 Score = 55.6 bits (132), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 36/199 (18%), Positives = 71/199 (35%), Gaps = 16/199 (8%)

Query: 12  DSGVQWIGAIPKHWKVVPIKRFTKLNTG------RTSESGKDIIYIGLEDVESGTGKYLP 65
           DS    +G IP+ WKV     + K+  G      + +++G+ +  I + D++    ++  
Sbjct: 178 DSE---LGMIPEGWKVGSPYEYVKVVYGAPYKSAKFNDNGEGLPLIRIRDLKDCNPQFYT 234

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ 125
            +   +            G I+   +       I     G+ + +   L P+      L 
Sbjct: 235 PEILPQTE------YVNMGDIV-AGMDAEFVPHIWKGNTGLLNQRVCKLMPQQTSISNLF 287

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
              L     + +++   G T+SH     I    + +PPL       + + +   RI  + 
Sbjct: 288 VLYLMKPELEFVQSYKTGTTVSHLGKADIDKFVVVLPPLEVVEECSKILDSILQRIKNIS 347

Query: 186 TERIRFIELLKEKKQALVS 204
           TE      L       L+S
Sbjct: 348 TESRILSTLRDTLLPRLMS 366


>gi|325680252|ref|ZP_08159814.1| type I restriction modification DNA specificity domain protein
           [Ruminococcus albus 8]
 gi|324108069|gb|EGC02323.1| type I restriction modification DNA specificity domain protein
           [Ruminococcus albus 8]
          Length = 366

 Score = 69.8 bits (169), Expect = 9e-10,   Method: Composition-based stats.
 Identities = 36/392 (9%), Positives = 86/392 (21%), Gaps = 50/392 (12%)

Query: 25  WKVVPIKR-FTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQ--SDTSTVSIF 81
           W+   +     ++  G   +  K         VE+G          +             
Sbjct: 19  WEQRKLGDEAIEILAGGDIDKSKT--------VENGKYPIYANALTNDGVVGYYDDYYRV 70

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
               +     G                   +V                +I+  + +    
Sbjct: 71  KAPAVTVTGRGEVGFAQARM-----VDFTPVVRLLAIRSNHDCYFLENAINNHKVVVES- 124

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            G            NI  P   + E+  I E +      I     +  +           
Sbjct: 125 TGVPQLTVPQLSSYNIFFP-KNVEEETRIGEFLHNLDSLITLHQRKLDK----------- 172

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
            ++ +    L        + +  V         +                   +   +  
Sbjct: 173 -LNKVKISMLGKMFPKNGADVPEVRFKGFTDSWEQRKLEEVITVGNGMDYKHLSEGDIPV 231

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
             +   + + +  L  +                 I +       +   +           
Sbjct: 232 YGMGGYMLSVDKALSYDKD--------------AIGIGRKGTIDKPYVLKAPFWTVDTLF 277

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
              P    S    + +  +          S    SL   ++    V VP + EQ  I   
Sbjct: 278 YCIPKEDYSLDFVYCI--FQNVNWKEKDESTGVPSLSKVNINSTDVKVPALAEQEKIGAY 335

Query: 382 INVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
                +++D L+   ++ +  L+  + S +  
Sbjct: 336 ----FSKLDDLITLHQRKLEKLRNIKKSMLEK 363


>gi|332877051|ref|ZP_08444802.1| type I restriction modification DNA specificity domain protein
           [Capnocytophaga sp. oral taxon 329 str. F0087]
 gi|332684941|gb|EGJ57787.1| type I restriction modification DNA specificity domain protein
           [Capnocytophaga sp. oral taxon 329 str. F0087]
          Length = 203

 Score = 69.8 bits (169), Expect = 9e-10,   Method: Composition-based stats.
 Identities = 37/187 (19%), Positives = 77/187 (41%), Gaps = 10/187 (5%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSY--GNIIQKLETRNMGLKPESYETYQIVD 287
           + W       +    NR+N       + S++   G   Q        +K E    Y+I++
Sbjct: 19  EQWREMNLGDITENFNRRNKDRSSYPMYSVTNTSGFSPQNEIFDGKEIKDEDISIYKIIE 78

Query: 288 PGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP-HGIDSTYLAWLMRSYDLCKVF 346
            GE  +     + +  S+      +  +I+S Y+  +P   IDS +L  L++S  +   +
Sbjct: 79  KGEFAYNP--ARINVGSIGRYDNEDLCMISSLYICFRPSENIDSDWLLHLLKSDHMIYQY 136

Query: 347 YAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
              G  G+R  L + +  R+ V +PP++ Q  I N +N      D  +      +   ++
Sbjct: 137 GLYGEGGVRIYLFYPNFSRIKVSLPPLEVQKRIANTLN----LFDKKICLETNLLNKFQK 192

Query: 406 RRSSFIA 412
           ++   ++
Sbjct: 193 QKKHLLS 199



 Score = 49.8 bits (117), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 30/189 (15%), Positives = 64/189 (33%), Gaps = 9/189 (4%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGN-SRQSDTSTVSIF 81
           + W+ + +   T+    R  +         + +    + +    DG   +  D S   I 
Sbjct: 19  EQWREMNLGDITENFNRRNKDRSS-YPMYSVTNTSGFSPQNEIFDGKEIKDEDISIYKII 77

Query: 82  AKGQILYGKLGPYLRKAIIADFD--GICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
            KG+  Y      +      D +   + S+ ++  +P + +       LL  D       
Sbjct: 78  EKGEFAYNPARINVGSIGRYDNEDLCMISSLYICFRPSENIDSDWLLHLLKSDHMIYQYG 137

Query: 140 IC-EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
           +  EG    +  +     I + +PPL  Q  I   +       D  I      +   +++
Sbjct: 138 LYGEGGVRIYLFYPNFSRIKVSLPPLEVQKRIANTLN----LFDKKICLETNLLNKFQKQ 193

Query: 199 KQALVSYIV 207
           K+ L+S + 
Sbjct: 194 KKHLLSMMF 202


>gi|229822391|ref|YP_002883917.1| Restriction endonuclease S subunit [Beutenbergia cavernae DSM
           12333]
 gi|229568304|gb|ACQ82155.1| Restriction endonuclease S subunit [Beutenbergia cavernae DSM
           12333]
          Length = 405

 Score = 69.8 bits (169), Expect = 9e-10,   Method: Composition-based stats.
 Identities = 55/388 (14%), Positives = 130/388 (33%), Gaps = 38/388 (9%)

Query: 44  SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS---TVSIFAKGQILYGKLGPYLRKAII 100
           +   +  +  +D+  G GK+  + G     +T+     S+  +G +++   G      +I
Sbjct: 35  TESGVPVLRGQDI--GVGKHPQRSGTFVAPETARRLARSLVREGDLVFPHRGAIGEVGLI 92

Query: 101 ADFDGICSTQFL---VLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNI 157
            D + + S+  +   V + K     L+  +         + A   G          +  I
Sbjct: 93  GDDEFLLSSSMMKLTVDRSKAEPAFLMYYFRGPGRRELMMRASTVGTPGIAQPLASLREI 152

Query: 158 PMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKM 217
            + +P L EQ  I E + A   +I            L        +S  V    +   + 
Sbjct: 153 DLALPSLGEQRAIAEVLGALDDKIAANTKLAATADALA-------MSLFVRSLGSETREY 205

Query: 218 KDSGIEWV---GLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMG 274
           + S +  +   G+ P + +      +V                    G  +     R   
Sbjct: 206 EISEVADLVTRGITPSYVDGGSDATMVLGQR-------------CVRGQRVDLGPARWTD 252

Query: 275 LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
             P   ++ +++ PG+++     + +  R  R     E  + +   +      + +T  A
Sbjct: 253 --PARVKSEKLLSPGDVLINSTGMGSLGRVGRWTYAREATVDSHVTLVRFNDAVVNTTFA 310

Query: 335 -WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
            + +   +      A GS  +  L    + R+ + VP  +    +   ++   A    + 
Sbjct: 311 GFALLRLEREIEVLAEGSTGQTELPRGSLARMKICVPSNENALPLAETLDALVA----MA 366

Query: 394 EKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           E++      L   R + +   ++G++ +
Sbjct: 367 EQVRNEKQALAATRDALLPQLMSGKLTV 394


>gi|240948007|ref|ZP_04752425.1| hypothetical protein AM305_04463 [Actinobacillus minor NM305]
 gi|240297677|gb|EER48151.1| hypothetical protein AM305_04463 [Actinobacillus minor NM305]
          Length = 376

 Score = 69.8 bits (169), Expect = 9e-10,   Method: Composition-based stats.
 Identities = 57/388 (14%), Positives = 115/388 (29%), Gaps = 46/388 (11%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKD-GNSRQSDTSTVSIFAKGQIL 87
            +    +           +I  + L+DV                  DTS   I       
Sbjct: 4   KLGDLIE-----PYTKSCNIHNLTLDDVSGINRDKEFFSPAKQIGVDTSKYKIVPPNYFA 58

Query: 88  YGKLGPYLRKA-----IIADFDGICSTQFLVLQPKDV---LPELLQGWLLSIDVTQRIEA 139
              +               + D I S  + + + KD    L E L  WL S +  +    
Sbjct: 59  CNLMHVGRDIVLPISLNTTNKDKIVSPAYTIFKVKDETLLLSEYLFIWLKSDEKDRYFWL 118

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
             + +      W+ + NI + +PP+  Q        A                       
Sbjct: 119 FTDSSIRDGLSWEDMCNIELDLPPIEIQQKYVAVYQALLAN------------------- 159

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
                     GL     + D  IE +     H                N K  +  +  +
Sbjct: 160 ----QRAYETGLEDLKLVCDGYIEHL----QHHTELQRIGNYLNKEEINNKNGKYTLNDV 211

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQN-DKRSLRSAQVMERGIITS 318
              +I +K       ++  S + Y +V P    +  +  +N +K ++         +++S
Sbjct: 212 KGISIQKKFIETKANMENVSLKPYLLVKPEYFAYVTVTSRNSEKITIAHNNSGNTYLVSS 271

Query: 319 AYMAVKPH--GIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQ 375
           +Y     +   +   YLA      +  +          R+   + D+  + + +P +  Q
Sbjct: 272 SYEVFSVNKAQLLPEYLALFFNRSEFDRYARFHSWGSAREVFSWADLCEVKIPIPELPVQ 331

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLL 403
             I ++  V   R   + E+++Q I  +
Sbjct: 332 QAIVDIYKVLLER-RQINEQLKQQIKQI 358


>gi|261417778|ref|YP_003251460.1| N-6 DNA methylase [Geobacillus sp. Y412MC61]
 gi|319767409|ref|YP_004132910.1| N-6 DNA methylase [Geobacillus sp. Y412MC52]
 gi|261374235|gb|ACX76978.1| N-6 DNA methylase [Geobacillus sp. Y412MC61]
 gi|317112275|gb|ADU94767.1| N-6 DNA methylase [Geobacillus sp. Y412MC52]
          Length = 634

 Score = 69.4 bits (168), Expect = 9e-10,   Method: Composition-based stats.
 Identities = 18/130 (13%), Positives = 52/130 (40%), Gaps = 4/130 (3%)

Query: 272 NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST 331
           +  +   +     +V  G+++         K ++      +  I  +         +D  
Sbjct: 484 SYEITNNAKIESYLVQEGDVIISVRGA-GIKIAVIPPHEGDILISHNFIGIRPHRHVDPF 542

Query: 332 YLAWLMRSYDLCKVFYAMGSGLRQSL-KFEDVKRLPVLVPPIKEQFDIT-NVINVETARI 389
           YL   + S     +  +  +G   ++   +D++ +P+ V P +EQ +I  + +  +   I
Sbjct: 543 YLKIFLESPVGQYLLLSKQAGTNVTILNMKDLENIPIPVRPFEEQKEIIMSYLEEQ-KHI 601

Query: 390 DVLVEKIEQS 399
             +++++E+ 
Sbjct: 602 QDMMKQLEKQ 611



 Score = 53.6 bits (127), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 33/177 (18%), Positives = 67/177 (37%), Gaps = 12/177 (6%)

Query: 27  VVPIKRFTKLNTGRTSE------SGKDIIYIGLEDVESGT--GKYLPKDGNSRQSDTSTV 78
           V P+KR      G                 I L DV++G      L     +  +   + 
Sbjct: 437 VQPLKRIGTFYRGINISAKDAETENGPYKVIKLSDVQNGEVLIDQLASYEITNNAKIESY 496

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDG--ICSTQFLVLQPKDVLPELL-QGWLLSIDVTQ 135
            +  +G ++    G  ++ A+I   +G  + S  F+ ++P   +     + +L S     
Sbjct: 497 -LVQEGDVIISVRGAGIKIAVIPPHEGDILISHNFIGIRPHRHVDPFYLKIFLESPVGQY 555

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
            + +   G  ++  + K + NIP+P+ P  EQ  I    + E   I  ++ +  +  
Sbjct: 556 LLLSKQAGTNVTILNMKDLENIPIPVRPFEEQKEIIMSYLEEQKHIQDMMKQLEKQR 612


>gi|154499003|ref|ZP_02037381.1| hypothetical protein BACCAP_02995 [Bacteroides capillosus ATCC
           29799]
 gi|150271843|gb|EDM99069.1| hypothetical protein BACCAP_02995 [Bacteroides capillosus ATCC
           29799]
          Length = 376

 Score = 69.4 bits (168), Expect = 9e-10,   Method: Composition-based stats.
 Identities = 49/364 (13%), Positives = 98/364 (26%), Gaps = 44/364 (12%)

Query: 62  KYLPKDGNSRQSDTSTVSIFAKGQILYGKL----GPYLRKAII-ADFDGICSTQFLVLQP 116
           +++P   N   +D S   + +KG      +       L  A+   D   I S  + + + 
Sbjct: 35  EFMPSVANVIGTDLSRYKLISKGLFACNPMHVGRDERLPIALYEKDSPAIVSPAYFMFEI 94

Query: 117 KDVL---PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
            D      E L  W    +  +    + +G+      W  +  I +P+P  A Q  I E 
Sbjct: 95  IDRDVLNEEYLMMWFRRPEFDRECWFMTDGSVRGGITWDDLCRIKLPVPSYARQCEIVES 154

Query: 174 IIAETVRIDTLITERIRFIELLKEKKQALV--SYIVTKGLNPDVKMKDSGIEWVGLVPDH 231
             A T RI     E       ++   +     +  +T  L     M+    E     P  
Sbjct: 155 YRAITDRIALKRAENDNLAAQMRAYFKEYTANNASITGKLKDYSVMQYGYTETATTEPVG 214

Query: 232 WEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEI 291
            +      +       N                             E      ++  G++
Sbjct: 215 PKFLRITDIAQNYIDWNGVPYCP---------------------ISEGNHEKYVLSEGDV 253

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
           V            +    + +    +              Y    + S +          
Sbjct: 254 VVARTGATVGYAKMVGRNIPDSVFASFLVRIRPIDDEYRYYFGLAITSSEFLDFVQTNAG 313

Query: 352 G-LRQSLKFEDVKRLPVLVP---PIKEQF-DITNVINVETARIDVLVEKIEQSIVLLKER 406
           G  +       +    + +P    + E    I++ +         ++E  E  I  L E 
Sbjct: 314 GSAQPQANPPLLGEFELSIPNKQSLPEFNTKISSFLG--------VIESNETEISKLHEV 365

Query: 407 RSSF 410
           + + 
Sbjct: 366 KDTM 369



 Score = 43.2 bits (100), Expect = 0.069,   Method: Composition-based stats.
 Identities = 23/184 (12%), Positives = 58/184 (31%), Gaps = 7/184 (3%)

Query: 29  PIKRFTKLNTGRTSESGKDI---IYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
            +K ++ +  G T  +  +     ++ + D+      +                + ++G 
Sbjct: 193 KLKDYSVMQYGYTETATTEPVGPKFLRITDIAQNYIDWNGVPYCPISEGNHEKYVLSEGD 252

Query: 86  ILYGKLGPYLRKAIIADFDG----ICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
           ++  + G  +  A +   +       S    +    D         + S +    ++   
Sbjct: 253 VVVARTGATVGYAKMVGRNIPDSVFASFLVRIRPIDDEYRYYFGLAITSSEFLDFVQTNA 312

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            G+    A+   +G   + IP          KI +    I++  TE  +  E+     + 
Sbjct: 313 GGSAQPQANPPLLGEFELSIPNKQSLPEFNTKISSFLGVIESNETEISKLHEVKDTMVKM 372

Query: 202 LVSY 205
           L S 
Sbjct: 373 LSSR 376


>gi|313896459|ref|ZP_07830010.1| conserved hypothetical protein [Selenomonas sp. oral taxon 137 str.
           F0430]
 gi|312974883|gb|EFR40347.1| conserved hypothetical protein [Selenomonas sp. oral taxon 137 str.
           F0430]
          Length = 459

 Score = 69.4 bits (168), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 44/421 (10%), Positives = 111/421 (26%), Gaps = 47/421 (11%)

Query: 27  VVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQI 86
           V P+ +     T +   S        +  V +  G +        +           G +
Sbjct: 35  VEPLGKHLIHQTEKIQLSDYPDEDCTILGVSNKVGMF-DAGVKKGKKIKQKYHRVESGWL 93

Query: 87  LYGKLGPYLRKAIIAD---FDGICSTQFLVL-QPKDVLPELLQGWLLSIDVTQRIEAICE 142
            Y      +    I          S  ++V    + ++P+ L   + S      I+    
Sbjct: 94  AYNPYRINVGSIGIKTADLKGDYISPAYVVFSCMETLIPQFLWLMMRSEYFNTLIKDSTT 153

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           G+      ++ +  I  PIPP+ EQ  I +   A     +  +++   F   L    Q+ 
Sbjct: 154 GSVRQTLSYEKLAAIEAPIPPIPEQEQILKVYHATIAAAEKSMSDGDDFSSGLLFDIQST 213

Query: 203 VSYIVTK-------------------------------GLNPDVKMKDSGIEWVGLVPDH 231
           VS +  +                                L+       S I  +  +   
Sbjct: 214 VSDLKEQDVSTATTSSILQIISYSSVSRWEVAFGLKEGKLDKVYNSFKSPIHTIAELTKE 273

Query: 232 WEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEI 291
                              ++    +     ++                    ++  G+ 
Sbjct: 274 SLFGLSIKASPTQKTGMIPMLRMPNIVDGALDLDDLKYLPRKTATTAREPDKWLLRKGDF 333

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH--GIDSTYLAWLMRSYDLCKVF--Y 347
           +    + +          +       S  +  +     +   Y+  L     +       
Sbjct: 334 LINRTNSKELVGKSAVFNLDGDYTYASYVIRYRFDTSIVLPEYVNILFMLPLVRFQIDTM 393

Query: 348 AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
           +  +  + ++  +++  + + +P I EQ +I         +     +  ++     +E R
Sbjct: 394 SRQTAGQCNINSDEIGSIRIPIPSISEQEEII-------KKYYSTKDGADKFYTKAEELR 446

Query: 408 S 408
            
Sbjct: 447 K 447


>gi|315127912|ref|YP_004069915.1| restriction modification system DNA specificity subunit
           [Pseudoalteromonas sp. SM9913]
 gi|315016426|gb|ADT69764.1| restriction modification system DNA specificity subunit
           [Pseudoalteromonas sp. SM9913]
          Length = 437

 Score = 69.4 bits (168), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 53/449 (11%), Positives = 127/449 (28%), Gaps = 71/449 (15%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           +W    +  +     G++                  T   +P  G++   D    S    
Sbjct: 2   NWIETTVGEYCPFVYGKSLPKT------------QRTEGDIPVFGSNGCVDYHNKSYVNG 49

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI-EAICE 142
             I+ G+ G      +  +      T F V +      +     L S+ +     ++   
Sbjct: 50  PGIIIGRKGSVGAVHLSVEPFWPIDTSFYVEKESIDELKFTYYLLKSLGLKGMNSDSAVP 109

Query: 143 GATMSH-----ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER--------- 188
           G    +                 +         + ++  +T +    I +          
Sbjct: 110 GLNRENAHALPIRIPEKIQDREKLGQWISVYDSKIELNRQTNQTLEQIAQAIFKSWFVDF 169

Query: 189 ---------IRFIELLKEKKQALVSYIVTKGLNPD-------------------VKMKDS 220
                        E  +    A++S      L+                       + DS
Sbjct: 170 DPVRAKIAANTAGENAQRAAIAVISGKNQAALDQLEQQYPAQYQQLQATADLFPDNLIDS 229

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLE------TRNMG 274
           G+  +    +    K       +   K     ES I  L   ++           ++ + 
Sbjct: 230 GLGEIPDGWEVVGFKDIIRKYIDNRGKTPPTAESGIPLLEVKHLPDGSIKPSLNTSKYVD 289

Query: 275 LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
           ++  +      ++  +I+   +     +  +    V          M  +   +   ++ 
Sbjct: 290 IETFNSWFRAHLEAEDILISTVGTIG-RICMVPKGVKVAIAQNLLGMRFQREKVSPYFMY 348

Query: 335 WLMRSYDLCKVFYA-MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
           + M S        A +   ++ S+K +D++ + +L PP+  Q +   +I          +
Sbjct: 349 YQMDSLRFRHDIDARLVVTVQASIKRKDLETIDLLAPPVALQNEFEKLILPFIE-----I 403

Query: 394 EKIEQSIVLLKERRSSFIAAAVTGQ--ID 420
            +  QSI  L   R + +   ++G+  ID
Sbjct: 404 LQSNQSIE-LASTRDALLPKLLSGELSID 431



 Score = 62.9 bits (151), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 34/183 (18%), Positives = 65/183 (35%), Gaps = 13/183 (7%)

Query: 12  DSGVQWIGAIPKHWKVVPIKRFTKL---NTGRTSESGK-DIIYIGLEDVESGTGKYLPKD 67
           DSG   +G IP  W+VV  K   +    N G+T  + +  I  + ++ +  G+ K     
Sbjct: 228 DSG---LGEIPDGWEVVGFKDIIRKYIDNRGKTPPTAESGIPLLEVKHLPDGSIKPSLNT 284

Query: 68  GNSRQSDTSTVS---IFAKGQILYGKLGPYLRKAIIADFDGIC---STQFLVLQPKDVLP 121
                 +T             IL   +G   R  ++     +    +   +  Q + V P
Sbjct: 285 SKYVDIETFNSWFRAHLEAEDILISTVGTIGRICMVPKGVKVAIAQNLLGMRFQREKVSP 344

Query: 122 ELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
             +   + S+     I+A       +    K +  I +  PP+A Q    + I+     +
Sbjct: 345 YFMYYQMDSLRFRHDIDARLVVTVQASIKRKDLETIDLLAPPVALQNEFEKLILPFIEIL 404

Query: 182 DTL 184
            + 
Sbjct: 405 QSN 407


>gi|229523505|ref|ZP_04412910.1| type I restriction-modification system specificity subunit S
           [Vibrio cholerae bv. albensis VL426]
 gi|229337086|gb|EEO02103.1| type I restriction-modification system specificity subunit S
           [Vibrio cholerae bv. albensis VL426]
          Length = 179

 Score = 69.4 bits (168), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 29/164 (17%), Positives = 60/164 (36%), Gaps = 8/164 (4%)

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPE--SYETYQIVDPGEIVFRFIDLQNDKR 303
           +K        I   S  ++  ++         E    ++   V P   +     +   K 
Sbjct: 22  KKIADYWGGTIPWASVKDLKSRVLLNTEDSITELGVVKSATNVIPKGTIIVPTRMALGKV 81

Query: 304 SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVK 363
           ++    +     +  A + V    I+  YLA  + S          G    + +  + +K
Sbjct: 82  AITGCDMAINQDL-KALIIVDNKQINQCYLARFLESKSSFIESEGKG-ATVKGITLDFLK 139

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
            L + +PP+ EQ  I  +++    + D + +K +Q+I L  E R
Sbjct: 140 SLEIPLPPLDEQKRIAAILD----KADAIRQKRKQAISLADEFR 179



 Score = 61.3 bits (147), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 27/162 (16%), Positives = 52/162 (32%), Gaps = 6/162 (3%)

Query: 24  HWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
            W+V  +     +  G T         G  I +  ++D++S                 S 
Sbjct: 2   SWQVKTLGELVTIKGGGTPSKKIADYWGGTIPWASVKDLKSRVLLNTEDSITELGVVKSA 61

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
            ++  KG I+        + AI      I      ++   +               +  I
Sbjct: 62  TNVIPKGTIIVPTRMALGKVAITGCDMAINQDLKALIIVDNKQINQCYLARFLESKSSFI 121

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
           E+  +GAT+       + ++ +P+PPL EQ  I   +     
Sbjct: 122 ESEGKGATVKGITLDFLKSLEIPLPPLDEQKRIAAILDKADA 163


>gi|210611274|ref|ZP_03288829.1| hypothetical protein CLONEX_01019 [Clostridium nexile DSM 1787]
 gi|210152038|gb|EEA83045.1| hypothetical protein CLONEX_01019 [Clostridium nexile DSM 1787]
          Length = 231

 Score = 69.4 bits (168), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 29/234 (12%), Positives = 69/234 (29%), Gaps = 16/234 (6%)

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
             + L+++ QAL   +  +  +P+   ++  I  +G V                  K   
Sbjct: 10  INDNLEQQAQALFQELFIENADPEW--REGTISDLGTVVGGSTPSK---------SKPEY 58

Query: 251 LIESNILSLSYGN-IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
             E  I  ++  +  + K +    G    +    +      +    +   +       A 
Sbjct: 59  YTEHGIAWITPKDLSVNKSKFITHGENDITELGLKNSSASIMPEGTVLFSSRAPIGYIAI 118

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
                     + +V P     T   +      L  +         + +    +K +P  +
Sbjct: 119 AAGEVTTNQGFKSVIPRSAIGTPFVYYFLKNALPTIEGMASGSTFKEVSGSTMKIVPAFI 178

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
           P  +             + I    + +E+    L   R S +   ++G+ID+  
Sbjct: 179 PDDET----LARFTEFCSPIFEQQQMLERQNQSLAALRDSLLPKLMSGEIDVSD 228



 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 29/169 (17%), Positives = 53/169 (31%), Gaps = 13/169 (7%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYL---PKDGNSR 71
           P+ W+   I     +  G T    K        I +I  +D+     K++     D    
Sbjct: 32  PE-WREGTISDLGTVVGGSTPSKSKPEYYTEHGIAWITPKDLSVNKSKFITHGENDITEL 90

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
               S+ SI  +G +L+    P      IA  +   +  F  + P+  +      +    
Sbjct: 91  GLKNSSASIMPEGTVLFSSRAPI-GYIAIAAGEVTTNQGFKSVIPRSAI-GTPFVYYFLK 148

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
           +    IE +  G+T        +  +P  IP         E       +
Sbjct: 149 NALPTIEGMASGSTFKEVSGSTMKIVPAFIPDDETLARFTEFCSPIFEQ 197


>gi|311742872|ref|ZP_07716680.1| type I restriction enzyme StySJI specificity protein [Aeromicrobium
           marinum DSM 15272]
 gi|311313552|gb|EFQ83461.1| type I restriction enzyme StySJI specificity protein [Aeromicrobium
           marinum DSM 15272]
          Length = 382

 Score = 69.4 bits (168), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 56/397 (14%), Positives = 113/397 (28%), Gaps = 27/397 (6%)

Query: 30  IKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYG 89
           I         +    G +   + L +      +           D S   +  + +I + 
Sbjct: 4   IGDLLVEFKEQ-PGKGDEPTVLTLTERNGFVRQADRFSKRLATEDVSKYKVVRRNEIAFN 62

Query: 90  KLGPYLRKAIIADF--DGICSTQFLVLQPKD-VLPELLQGWLLSIDVTQRIEAICEG--A 144
               +           +GI S  +   + +D   P  +   LL+  +    + I  G   
Sbjct: 63  PYLLWAGAVAQNTIVDEGIISPLYPTFRVRDGHDPRYVARLLLTPQLIGAYDGIAFGSVP 122

Query: 145 TMSHADWKGIGNIP-MPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
               +      N+P   +PPL EQ  I   +                   L     Q++ 
Sbjct: 123 RRRRSSVHDFLNLPLANVPPLPEQRRIAAILDHADALRAKRRQALSHLNFLT----QSIF 178

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
           S + T+  +P V + D      G                   R               G 
Sbjct: 179 SEMFTREPHPVVALGDIARIRGGKRLPKGASYAIGPTHHPYVRVTDL----------RGG 228

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
            IQ      +  + +       +D G+++           ++ +          +A +  
Sbjct: 229 AIQSSNLCFLTPEVQRQIARYTIDEGDVIISIAGSIGLTAAVPATLAGANLTENAAKIVP 288

Query: 324 KP-HGIDSTYLAWLMRSYDLCKVFY-AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
           K       ++LA +++S  L       +G      L    +++L V +PP   Q +    
Sbjct: 289 KDGQAYIGSWLARMLQSRSLQDQIAGKVGQVTIGKLALFRIEQLEVPLPPRALQEEFVER 348

Query: 382 INVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
                AR++ +     Q         +S  + A  G+
Sbjct: 349 ----AARVEAVTAVARQESAAEDLLFASLQSRAFRGE 381


>gi|294790583|ref|ZP_06755741.1| type I restriction-modification system, S subunit [Scardovia
           inopinata F0304]
 gi|294458480|gb|EFG26833.1| type I restriction-modification system, S subunit [Scardovia
           inopinata F0304]
          Length = 410

 Score = 69.4 bits (168), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 66/385 (17%), Positives = 120/385 (31%), Gaps = 27/385 (7%)

Query: 25  WKVVPIKR-FTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           W+   +     +     T           +    +   +    D        ST      
Sbjct: 24  WEQRKLGDAMLEKVESVTPLRRNSYALWSVPAYTNSKPELATGDKIQ-----STKQRILD 78

Query: 84  GQILYGKLGPYLRKAIIADFDG------ICSTQFLVLQP--KDVLPELLQGWLLSIDVTQ 135
           G IL  K+ P + +  + D         I S ++++ +   K +  + L  +L S     
Sbjct: 79  GDILLCKINPRINRVWVVDTGNLDTSSPIASLEWIIFRTSGKSMDRQFLVDFLSSPKFRN 138

Query: 136 RIEAICEGAT--MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            + +   G T          +      +P LAEQ  I E        +D LI    R  E
Sbjct: 139 FLLSETIGVTGSQKRVQRNSVKEFMFHLPSLAEQSRIGE----LFKTLDNLIAATERKKE 194

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
           LL++KKQA +  I ++ L      K      +G V + +    F             L  
Sbjct: 195 LLQKKKQAYLQLIFSQHLRFKGFTKPWEQRKLGDVGNLYSGYAFPNSEQGGKNGILFLKV 254

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
           S++        I K +      +   Y    ++D   I+F  +         R       
Sbjct: 255 SDMNLAGNELEITKAKNYVTNKQIAIYGWKPVIDLPAIIFAKVGAAIMLNRKRICTKPFL 314

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
               +   +  P  +D  Y      + D   +      G   S+   D+ +L   VP + 
Sbjct: 315 LDNNTMAYSPNPMNLDIAYTVSYFHTIDFSSLTRI---GAVPSIAGSDIAKLVAPVPCMS 371

Query: 374 EQFDITNVINVETARIDVLVEKIEQ 398
           EQ  +          +D L++  ++
Sbjct: 372 EQSRVGE----LFKTLDELIKANDR 392


>gi|170718764|ref|YP_001783948.1| N-6 DNA methylase [Haemophilus somnus 2336]
 gi|168826893|gb|ACA32264.1| N-6 DNA methylase [Haemophilus somnus 2336]
          Length = 1110

 Score = 69.4 bits (168), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 23/187 (12%), Positives = 55/187 (29%), Gaps = 7/187 (3%)

Query: 223  EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET 282
            E +G +  H E     +        +                ++    + + L       
Sbjct: 910  EIIGKIAPHIESGKRPSGGVGFIS-SGAYSLGGEHIHKDNGHLELKNIKFVPLTFFHEAE 968

Query: 283  YQIVDPGEIVFRFIDLQNDKRSLRSAQVME--RGIITSAYMAVKPHGIDSTYLAWLMRSY 340
               +  G+I+         K +L   ++ +    +    ++          YL  ++ S 
Sbjct: 969  KGKIQKGDILLCKDGALTGKVALVRDELNDIFAMVNEHVFVIRCSQPETQQYLFHVLHSA 1028

Query: 341  DLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV---LVEKI 396
               K+  A  +G  +  L   ++K + + +PP+  Q  I           +     +E  
Sbjct: 1029 MGQKLLKANTTGAAQGGLNSSNLKNIRIPLPPLAIQQQIIAECQKIDQEYETSRMAIETY 1088

Query: 397  EQSIVLL 403
               I  +
Sbjct: 1089 RAKIAQI 1095



 Score = 44.4 bits (103), Expect = 0.031,   Method: Composition-based stats.
 Identities = 35/193 (18%), Positives = 62/193 (32%), Gaps = 23/193 (11%)

Query: 30   IKRFT-KLNTGRTSESGKDIIY-----IGLEDVESGTGKYLPKDGNSRQSD---TSTVSI 80
            I +    + +G+    G   I      +G E +    G    K+           +    
Sbjct: 912  IGKIAPHIESGKRPSGGVGFISSGAYSLGGEHIHKDNGHLELKNIKFVPLTFFHEAEKGK 971

Query: 81   FAKGQILYGKLGPYLRKAI-----IADFDGICSTQFLVLQPKDVLPELL-QGWLLSIDVT 134
              KG IL  K G    K       + D   + +    V++      +      L S    
Sbjct: 972  IQKGDILLCKDGALTGKVALVRDELNDIFAMVNEHVFVIRCSQPETQQYLFHVLHSAMGQ 1031

Query: 135  QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
            + ++A   GA     +   + NI +P+PPLA Q  I  +           I +      +
Sbjct: 1032 KLLKANTTGAAQGGLNSSNLKNIRIPLPPLAIQQQIIAEC--------QKIDQEYETSRM 1083

Query: 195  LKEKKQALVSYIV 207
              E  +A ++ I 
Sbjct: 1084 AIETYRAKIAQIF 1096


>gi|314934936|ref|ZP_07842295.1| probable specificity determinant HsdS [Staphylococcus caprae C87]
 gi|313652866|gb|EFS16629.1| probable specificity determinant HsdS [Staphylococcus caprae C87]
          Length = 145

 Score = 69.4 bits (168), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 27/148 (18%), Positives = 58/148 (39%), Gaps = 9/148 (6%)

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
           + L   N G+  +    +  VD   ++  F         ++        I    +   K 
Sbjct: 4   KYLYKGNKGITEKGASKHVKVDKDTLIMSFKLTLGKLAIVKEPIYTNEAIC---HFVWKE 60

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
             +++ Y+ + + S ++         G+  +L  + +  + V +P I+EQ  I       
Sbjct: 61  SNVNTEYMYYYLNSINISTFGAQAVKGV--TLNNDAINSIIVKLPVIQEQNKIAYF---- 114

Query: 386 TARIDVLVEKIEQSIVLLKERRSSFIAA 413
             ++D L+EK    + LLK+R+  F+  
Sbjct: 115 FNKLDKLIEKQSSKVELLKQRKQGFLQK 142


>gi|301048308|ref|ZP_07195339.1| type I restriction modification DNA specificity domain protein
           [Escherichia coli MS 185-1]
 gi|300299816|gb|EFJ56201.1| type I restriction modification DNA specificity domain protein
           [Escherichia coli MS 185-1]
          Length = 439

 Score = 69.4 bits (168), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 32/201 (15%), Positives = 63/201 (31%), Gaps = 9/201 (4%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLE---TRNMGLK 276
           S  E    +PD WE      +     + +    E  I  +    I  K +      +   
Sbjct: 93  SEEEKPFELPDGWEWTTLTRIAEINPKIDVSDDEQEISFIPMPLISTKFDGSHEFEIKKW 152

Query: 277 PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS----AYMAVKPHGIDSTY 332
            +  + Y     G+I    I    +         ++ GI                I+  Y
Sbjct: 153 KDVKKGYTHFANGDIAIAKITPCFENSKAAIFSGLKNGIGVGTTELHVARPFSDIINRKY 212

Query: 333 LAWLMRSYDLCK--VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
           L    +S +  K       GS  ++ +     +  P+  PP++EQ  I        +  D
Sbjct: 213 LLLNFKSPNFLKSGESQMTGSAGQKRVPRFFFENNPIPFPPLQEQERIIIRFTQLMSLCD 272

Query: 391 VLVEKIEQSIVLLKERRSSFI 411
            L ++   S+   ++   + +
Sbjct: 273 QLEQQSLTSLDAHQQLVETLL 293



 Score = 60.6 bits (145), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 33/213 (15%), Positives = 72/213 (33%), Gaps = 12/213 (5%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK-DIIYIGLEDVESG 59
           +K  K  P+   S  +    +P  W+   + R  ++N        + +I +I +  + + 
Sbjct: 83  IKKQKPLPEI--SEEEKPFELPDGWEWTTLTRIAEINPKIDVSDDEQEISFIPMPLISTK 140

Query: 60  TGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRK------AIIADFDGICSTQFLV 113
                  +    +      + FA G I   K+ P          + + +  G+ +T+  V
Sbjct: 141 FDGSHEFEIKKWKDVKKGYTHFANGDIAIAKITPCFENSKAAIFSGLKNGIGVGTTELHV 200

Query: 114 LQPKDVLPELLQ---GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLI 170
            +P   +         +     +      +   A           N P+P PPL EQ  I
Sbjct: 201 ARPFSDIINRKYLLLNFKSPNFLKSGESQMTGSAGQKRVPRFFFENNPIPFPPLQEQERI 260

Query: 171 REKIIAETVRIDTLITERIRFIELLKEKKQALV 203
             +        D L  + +  ++  ++  + L+
Sbjct: 261 IIRFTQLMSLCDQLEQQSLTSLDAHQQLVETLL 293



 Score = 38.6 bits (88), Expect = 1.7,   Method: Composition-based stats.
 Identities = 4/26 (15%), Positives = 9/26 (34%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESG 45
            +P+ W+   +        G   +S 
Sbjct: 389 ELPEGWEWCRLGSIYNFLNGYAFKSE 414


>gi|146321309|ref|YP_001201020.1| type I restriction-modification system, S subunit [Streptococcus
           suis 98HAH33]
 gi|145692115|gb|ABP92620.1| type I restriction-modification system, S subunit [Streptococcus
           suis 98HAH33]
          Length = 284

 Score = 69.4 bits (168), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 43/213 (20%), Positives = 75/213 (35%), Gaps = 20/213 (9%)

Query: 5   KAYPQY-----KDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGL 53
           K Y +      K   V +   IP  W+ V ++    + +G T +S +      +I +I  
Sbjct: 65  KPYEKLADGTVKKVEVPY--EIPDSWEWVRLRNLGVITSGGTPKSSESTYYDGNITWITP 122

Query: 54  EDVESGTGKYL----PKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICST 109
            D+       +     K         S+  + +K  I+Y    P      I ++D   + 
Sbjct: 123 ADMGKQQNDKVFATSSKKITELGVQKSSAQLISKNSIVYSSRAPI-GHINIVNYDFTTNQ 181

Query: 110 QFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVL 169
               + P  V   L   + +    T+ I     G T       G G+  +P+PPLAEQ  
Sbjct: 182 GCKSVTPILVN--LDFMYWILQFRTKDIILRSSGTTFKEISASGFGDTLLPLPPLAEQKR 239

Query: 170 IREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           I   I     +++       +  EL +     L
Sbjct: 240 IVAHIERALEQVEVYAESYNKLQELDRAFPDKL 272



 Score = 68.7 bits (166), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 25/192 (13%), Positives = 59/192 (30%), Gaps = 12/192 (6%)

Query: 222 IEWVGLVPDHWEVKPFFALVTELNRKNTK-----LIESNILSLSYGNIIQKLETRNMGLK 276
           +E    +PD WE      L    +    K       + NI  ++  ++ ++   +     
Sbjct: 78  VEVPYEIPDSWEWVRLRNLGVITSGGTPKSSESTYYDGNITWITPADMGKQQNDKVFATS 137

Query: 277 PESYETYQIVDPGEIVFRFIDLQNDKRS--LRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
            +      +      +     +    R+       V           +V P  ++  ++ 
Sbjct: 138 SKKITELGVQKSSAQLISKNSIVYSSRAPIGHINIVNYDFTTNQGCKSVTPILVNLDFMY 197

Query: 335 WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
           W+++ +    +         + +         + +PP+ EQ  I   I     +    VE
Sbjct: 198 WILQ-FRTKDIILRSSGTTFKEISASGFGDTLLPLPPLAEQKRIVAHIERALEQ----VE 252

Query: 395 KIEQSIVLLKER 406
              +S   L+E 
Sbjct: 253 VYAESYNKLQEL 264


>gi|94263484|ref|ZP_01287296.1| Restriction modification system DNA specificity domain [delta
           proteobacterium MLMS-1]
 gi|93456122|gb|EAT06265.1| Restriction modification system DNA specificity domain [delta
           proteobacterium MLMS-1]
          Length = 439

 Score = 69.4 bits (168), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 36/202 (17%), Positives = 65/202 (32%), Gaps = 14/202 (6%)

Query: 12  DSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKY-- 63
           DS    +G IP  W V P+    +L  G T ++      G +I +  + D  S    +  
Sbjct: 227 DSE---LGEIPVGWGVKPLSDIIELVGGGTPKTKVPEYWGGNIPWFSVVDAPSDFDVWVI 283

Query: 64  -LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPE 122
              K       D S+  I   G  +    G   R A++     + +     +QPK     
Sbjct: 284 ETEKHVTKLGVDNSSTKILPIGTTIISARGTVGRCALVGKPMAM-NQSCYGVQPKR-NYG 341

Query: 123 LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
            L    +  D    ++    G+  +         I +        +L  E +     +I 
Sbjct: 342 PLFINHMLRDQITSLQRSGHGSVFNTITRSTFKTIKIVDCGDRLSMLFDETVEPLLSKIL 401

Query: 183 TLITERIRFIELLKEKKQALVS 204
             + E    ++        L+S
Sbjct: 402 ENLRENKVLMKTRDTLLPKLIS 423



 Score = 64.4 bits (155), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 59/412 (14%), Positives = 118/412 (28%), Gaps = 64/412 (15%)

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLR-----KAIIADFDGICSTQFLVLQPKD 118
            P  G S   D     IF    +L  + G  LR      A +A+     +    VLQ  D
Sbjct: 35  YPYYGASGIVDWVDSYIFDGSYLLLAEDGENLRTKSTPIAFLAEGKFWVNNHAHVLQGSD 94

Query: 119 VLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
            L      + L +     I++   G+T        +  IP+  P    +  I   +    
Sbjct: 95  DLDTRFFCYALMVA---DIDSYISGSTRPKITQGDMKRIPLYAPEKEIRHAIAHILGTLD 151

Query: 179 VRIDTLITERIRFIELLKEKKQALV-------SYIVTKGL---------------NPDVK 216
            +I+          +L +   ++            V  G                NP+++
Sbjct: 152 DKIELNRQMNRTLEQLAQALFKSWFIDFDPVVYNAVQAGHPVPERFQATAERYRQNPEIQ 211

Query: 217 --------MKDSGIE--WVGLVPDHWEVKPFFALVT-----ELNRKNTKLIESNILSLSY 261
                   +  S  E   +G +P  W VKP   ++          K  +    NI   S 
Sbjct: 212 TLPQHILDLFPSHFEDSELGEIPVGWGVKPLSDIIELVGGGTPKTKVPEYWGGNIPWFSV 271

Query: 262 GNIIQKLE-TRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
            +     +       K  +           +      +       R A V +   +  + 
Sbjct: 272 VDAPSDFDVWVIETEKHVTKLGVDNSSTKILPIGTTIISARGTVGRCALVGKPMAMNQSC 331

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
             V+P           M    +  +  +    +  ++     K +            I +
Sbjct: 332 YGVQPKRNYGPLFINHMLRDQITSLQRSGHGSVFNTITRSTFKTI-----------KIVD 380

Query: 381 VINVETARIDVLVE-KIEQSIVLLKE------RRSSFIAAAVTGQIDLRGES 425
             +  +   D  VE  + + +  L+E       R + +   ++G++ +    
Sbjct: 381 CGDRLSMLFDETVEPLLSKILENLRENKVLMKTRDTLLPKLISGELRIPDAE 432


>gi|301633697|gb|ADK87251.1| type I restriction modification DNA specificity domain protein
           [Mycoplasma pneumoniae FH]
          Length = 361

 Score = 69.4 bits (168), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 48/381 (12%), Positives = 95/381 (24%), Gaps = 40/381 (10%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K   IK    +  GR           G+  V S       + G     D         G+
Sbjct: 4   KTYKIKDICDITRGRVISKLDIKKDPGVFPVYSAATNNDGEFGRINSYDFD-------GE 56

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
            +      Y       +     +    +L+ K+            + +            
Sbjct: 57  YVTWTADGYGGAVFYRNGKFSITNLCGLLKVKNKEISSKY-LAHILKLEAPKFTNRVFKN 115

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
                 K +  IP+  PPL  Q  I   +   T               LL ++    +  
Sbjct: 116 RPKLTHKTMAEIPIDFPPLKIQEKIATILDTFTELRARKKQYAFYRDYLLNQENIRKIYG 175

Query: 206 IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII 265
                                 +P           +          I +N       +  
Sbjct: 176 A--------------------NIPFETFQVKDICEIRRGRAITKAYIRNNPGENPVYSAA 215

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
              +     +K   ++   I              N    +   +  +        +    
Sbjct: 216 TTNDGELGHIKDCDFDGEYI----------TWTTNGYAGVVFYRNGKFNASQDCGVLKVK 265

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
           +    T    L+   +  K  + + S  R  L  + +  + +  PP++ Q  I +++   
Sbjct: 266 NKKICTKFLSLLLKIEAPKFVHNLAS--RPKLSQKVMAEIELSFPPLEIQEKIADILFAF 323

Query: 386 TARIDVLVEKIEQSIVLLKER 406
               + LVE I   I L K++
Sbjct: 324 EKLCNDLVEGIPAEIELRKKQ 344


>gi|325990097|ref|YP_004249796.1| hypothetical protein Msui07530 [Mycoplasma suis KI3806]
 gi|323575182|emb|CBZ40846.1| hypothetical protein Msui07530 [Mycoplasma suis]
          Length = 206

 Score = 69.4 bits (168), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 22/188 (11%), Positives = 66/188 (35%), Gaps = 8/188 (4%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET 282
           + +G +         +    +L+ K+   +   +  +    +      R+  L   S + 
Sbjct: 2   DKLGKISSGKPYDRKYEFNPKLHEKSIPFVG--VKEVGQSRLHILESDRHCFLNNLSKKG 59

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
            ++     +          + +L  +        +    +   +  +  ++ + + S   
Sbjct: 60  NKLFSKNTVCISIYGSYPGESALLKSDAF--LSTSVFAFSHYENISNPKFIKYCLDSQRK 117

Query: 343 CKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
                +  + +R++L    +  +    PP +EQ  I + ++      D L+E  E+ I +
Sbjct: 118 TFSSISATTTIRKALPTYQLLSIKFPCPPQEEQERIGDTLSA----YDELIENNERQIEV 173

Query: 403 LKERRSSF 410
           L+  R++ 
Sbjct: 174 LQGVRTAI 181


>gi|217425678|ref|ZP_03457169.1| type I restriction modification DNA specificity domain protein
           [Burkholderia pseudomallei 576]
 gi|217391354|gb|EEC31385.1| type I restriction modification DNA specificity domain protein
           [Burkholderia pseudomallei 576]
          Length = 267

 Score = 69.4 bits (168), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 42/284 (14%), Positives = 83/284 (29%), Gaps = 26/284 (9%)

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
           M+  +   +    +P P + EQ  I   +      + +L     +  ++ +   Q L   
Sbjct: 1   MASLNQGVLARAKIPFPQIPEQSAIATALSDVDALLSSLEALIAKKHDIKQAAMQQL--- 57

Query: 206 IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII 265
                L    ++     EW  +                  +   +            N  
Sbjct: 58  -----LTGKTRLPGFEGEWRHISAGELGYFRGGTGFPIAFQGEREGTYPFYKVSDMNNEG 112

Query: 266 QKLETRNMGLKPESYETYQI----VDPGEIVFRFIDLQ---NDKRSLRSAQVMERGIITS 318
            K                 I      PG IVF  +        KR L     ++  +  +
Sbjct: 113 NKTFMVAANNWVSDDARRVIGATVFAPGSIVFAKVGAAVFLERKRILSKPSCIDNNM--A 170

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP-IKEQFD 377
           AY+  +         A L+      +    + +    SL  + +  +P+ VP  I EQ  
Sbjct: 171 AYVIDETKASVPFIHAQLLA----KRFGDLVATTALPSLNGKVLAAMPLYVPSSIAEQIA 226

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           I  V++   A +      +E      +  +   +   +TG+  L
Sbjct: 227 IAEVLSDMDAEL----AALEARRDKTRLLKQGMMQELLTGKTRL 266



 Score = 61.3 bits (147), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 15/72 (20%), Positives = 26/72 (36%), Gaps = 4/72 (5%)

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
             SL    + R  +  P I EQ  I   ++   A +  L   I +        + + +  
Sbjct: 1   MASLNQGVLARAKIPFPQIPEQSAIATALSDVDALLSSLEALIAKKHD----IKQAAMQQ 56

Query: 414 AVTGQIDLRGES 425
            +TG+  L G  
Sbjct: 57  LLTGKTRLPGFE 68


>gi|167854667|ref|ZP_02477447.1| restriction modification system DNA specificity domain [Haemophilus
           parasuis 29755]
 gi|167854204|gb|EDS25438.1| restriction modification system DNA specificity domain [Haemophilus
           parasuis 29755]
          Length = 164

 Score = 69.1 bits (167), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 15/140 (10%), Positives = 48/140 (34%), Gaps = 9/140 (6%)

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRS--LRSAQVMERGIITSAYMAVKPHGIDSTYLAWL 336
            Y    I +   ++          R+  +  +   +  +    ++       +  ++ + 
Sbjct: 25  DYVKDYIFEGDYLLVSEDGANLLARNTPIAFSISGKNWVNNHVHVLKFNTYTERRFVEFY 84

Query: 337 MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
           + + DL           +  L   ++  + +  PP +EQ  I  +++      + + E +
Sbjct: 85  LNNIDLTPYI---SGASQPKLNKNNLSNIKIPAPPFEEQQRIVTILDKFETLTNSIAEGL 141

Query: 397 EQSIVLLKE----RRSSFIA 412
            + I L ++     R   ++
Sbjct: 142 PKEIELRRKQYEYYREKLLS 161


>gi|256832725|ref|YP_003161452.1| restriction modification system DNA specificity domain-containing
           protein [Jonesia denitrificans DSM 20603]
 gi|256686256|gb|ACV09149.1| restriction modification system DNA specificity domain protein
           [Jonesia denitrificans DSM 20603]
          Length = 398

 Score = 69.1 bits (167), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 17/110 (15%), Positives = 42/110 (38%), Gaps = 1/110 (0%)

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
           E  +    +  G+++F           +               +  +P  I+S +L +++
Sbjct: 75  EVIQRRSKLQAGDVLFSGTGTIGRTALVDQLPGDWNIKEGVYALTPRPDLIESRFLIYVL 134

Query: 338 RSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
            S  +     A        S+    ++R+ + VPP++ Q +I  +++  T
Sbjct: 135 HSSLVRNRILAQADGSTVASISMATLRRIRIPVPPLEVQREIVRILDQFT 184



 Score = 62.5 bits (150), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 55/410 (13%), Positives = 117/410 (28%), Gaps = 49/410 (11%)

Query: 22  PKHWKVVPIKRFTK-LNTGRTSESGKDIIYIGLEDVESGTGKY----------LPKDGNS 70
           P   ++  I      L TG    +   +   G  +      +             +  ++
Sbjct: 13  PVGVELREIGDVITALRTGLNPRTNFKLNTPGSANFYVTVRELGGFVIRCSDKTDRVDDA 72

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQ----FLVLQPKDVLPELLQG 126
                   S    G +L+   G   R A++    G  + +     L  +P  +    L  
Sbjct: 73  GLEVIQRRSKLQAGDVLFSGTGTIGRTALVDQLPGDWNIKEGVYALTPRPDLIESRFLIY 132

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
            L S  V  RI A  +G+T++      +  I +P+PPL  Q  I   +   T     L  
Sbjct: 133 VLHSSLVRNRILAQADGSTVASISMATLRRIRIPVPPLEVQREIVRILDQFTELEAELEA 192

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
           E    +E  K +       ++                  G   +  E      + T    
Sbjct: 193 ELEAELEARKRQYTHYRYSLI-----------------FGDTDNARERVRLKDVSTFKRG 235

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
                               +      G +P +Y      D   +V              
Sbjct: 236 TA---------FTKRQARKGQYPVVANGPEPIAYHDEFNRDGEFLVIARSGAY---AGAV 283

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLP 366
           +       +  +  +   P  +D  Y   L+ +          GSG+   ++  +++   
Sbjct: 284 TYWHGPTFLTDAFSIHPDPQHLDLRYAYHLLTAMQTELHGMKAGSGV-PHVRVREIEEQQ 342

Query: 367 VLVPPIKEQFDITNVINVETARIDVLV----EKIEQSIVLLKERRSSFIA 412
           V +P +  Q +++  ++     ++ +      ++       +  R   + 
Sbjct: 343 VAIPSLIVQQNVSARLDDFDRLVNDISVGLPAELAARRKQYEYYRDKLLT 392


>gi|309809680|ref|ZP_07703536.1| conserved hypothetical protein [Lactobacillus iners SPIN 2503V10-D]
 gi|308170040|gb|EFO72077.1| conserved hypothetical protein [Lactobacillus iners SPIN 2503V10-D]
          Length = 164

 Score = 69.1 bits (167), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 19/158 (12%), Positives = 51/158 (32%), Gaps = 5/158 (3%)

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
            Y +           +  +  +  +I    +IV        +     +A +    I  S 
Sbjct: 1   MYTHFGIYATEPLKYISEDVAKKSKIAVKNDIVMAVTSENVEDVCKCTAWLGNENIAVSG 60

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ-SLKFEDVKRLPVLVPPIKEQFDI 378
           + A+  H  ++ YL++   +         +  G +   +    +  + + +P + EQ  I
Sbjct: 61  HTAIIHHNQNAKYLSYYFHTAMFFAQKKRLAHGTKVIEVTPNALNDIIIPLPSLAEQKRI 120

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
             +++      + +   +   I   K+     R   + 
Sbjct: 121 VGILDRFDDFCNDISTGLPAEIEARKKQYEYYRDKLLN 158


>gi|270594534|ref|ZP_06221501.1| type I restriction-modification system S subunit [Haemophilus
           influenzae HK1212]
 gi|270318347|gb|EFA29502.1| type I restriction-modification system S subunit [Haemophilus
           influenzae HK1212]
          Length = 131

 Score = 69.1 bits (167), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 32/95 (33%), Positives = 48/95 (50%), Gaps = 8/95 (8%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSE-----SGKDIIYIGLEDVESGTGKYLP 65
           KDSGV+WIG +P+HW+VV +KR  K ++G         +  +I ++ + D      KY+ 
Sbjct: 32  KDSGVEWIGQVPEHWEVVSMKRVVKEHSGNGFPIDLQGNNGNIPFLKVSDFSENQDKYIF 91

Query: 66  KDGNSRQSDTSTVS---IFAKGQILYGKLGPYLRK 97
           K  NS  +         I  K  I+  K+G  LRK
Sbjct: 92  KWNNSVTNKVIKQKKWNIVPKNSIVTAKIGEALRK 126



 Score = 44.0 bits (102), Expect = 0.043,   Method: Composition-based stats.
 Identities = 41/121 (33%), Positives = 57/121 (47%), Gaps = 10/121 (8%)

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
              + I LLKE KQ L+   VT+GLNPDV +KDSG+EW+G VP+HWEV     +V E + 
Sbjct: 1   MAEKQIALLKEHKQILIQNAVTRGLNPDVPLKDSGVEWIGQVPEHWEVVSMKRVVKEHSG 60

Query: 247 --------KNTKLIESNILSLSYGNIIQKLETRNMGLKPE--SYETYQIVDPGEIVFRFI 296
                    N   I    +S    N  + +   N  +  +    + + IV    IV   I
Sbjct: 61  NGFPIDLQGNNGNIPFLKVSDFSENQDKYIFKWNNSVTNKVIKQKKWNIVPKNSIVTAKI 120

Query: 297 D 297
            
Sbjct: 121 G 121


>gi|281424438|ref|ZP_06255351.1| type I restriction enzyme EcoAI specificity protein [Prevotella
           oris F0302]
 gi|281401437|gb|EFB32268.1| type I restriction enzyme EcoAI specificity protein [Prevotella
           oris F0302]
          Length = 308

 Score = 69.1 bits (167), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 39/279 (13%), Positives = 84/279 (30%), Gaps = 18/279 (6%)

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           E +             I  +P+P+P LAEQ  I  +I   +V IDT+   +      +K+
Sbjct: 34  ENLAGSTNQKELYIGVIERLPLPLPSLAEQQRIVSEIERWSVLIDTIEQGKENLETSIKQ 93

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
            K  ++   +   L P     +   E +  +    E+        +L+ K       N +
Sbjct: 94  AKNKILDLAIHGKLVPQDPNDEPASELLKRINPKAEIACDNEHSRKLHSKGWVQCILNDV 153

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV------- 310
                       + N     E ++        +++       +  +  +   +       
Sbjct: 154 FTIIMGQSPDGNSINEKNGIEFHQGKLFFSQKKLLKSPFYTTSPIKIAKPNSLVLCVRAP 213

Query: 311 -------MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVK 363
                    +  I      ++P+   +   A+         +         +S+    + 
Sbjct: 214 VGDINTLDRKICIGRGLCNLQPNSALNLDFAYYSMIQHKVSLENKATGSTFKSVSKNIIC 273

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
           +    +PP+ EQ  I   I         L+  IE  +  
Sbjct: 274 KELFYLPPLAEQKRIVRKIKDLF----TLINLIEIELDK 308



 Score = 54.4 bits (129), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 20/91 (21%), Positives = 40/91 (43%), Gaps = 2/91 (2%)

Query: 330 STYLAWLMRSYDLCKVF--YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           S Y+   + S            GS  ++ L    ++RLP+ +P + EQ  I + I   + 
Sbjct: 16  SEYVYAYVSSLSTQLYLEENLAGSTNQKELYIGVIERLPLPLPSLAEQQRIVSEIERWSV 75

Query: 388 RIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            ID + +  E     +K+ ++  +  A+ G+
Sbjct: 76  LIDTIEQGKENLETSIKQAKNKILDLAIHGK 106



 Score = 48.3 bits (113), Expect = 0.002,   Method: Composition-based stats.
 Identities = 32/160 (20%), Positives = 47/160 (29%), Gaps = 2/160 (1%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           K W    +     +  G++ +        G+E  +        K   S    TS + I  
Sbjct: 143 KGWVQCILNDVFTIIMGQSPDGNSINEKNGIEFHQGKLFFSQKKLLKSPFYTTSPIKIAK 202

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
              ++     P        D           LQP   L  L   +   I     +E    
Sbjct: 203 PNSLVLCVRAPV-GDINTLDRKICIGRGLCNLQPNSALN-LDFAYYSMIQHKVSLENKAT 260

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
           G+T        I      +PPLAEQ  I  KI      I+
Sbjct: 261 GSTFKSVSKNIICKELFYLPPLAEQKRIVRKIKDLFTLIN 300


>gi|332289030|ref|YP_004419882.1| Type I restriction modification DNA specificity domain protein
           [Gallibacterium anatis UMN179]
 gi|330431926|gb|AEC16985.1| Type I restriction modification DNA specificity domain protein
           [Gallibacterium anatis UMN179]
          Length = 361

 Score = 69.1 bits (167), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 52/375 (13%), Positives = 117/375 (31%), Gaps = 31/375 (8%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+   ++ F ++ TG+   +           V  G   +        + +      F   
Sbjct: 16  WEKCKLENFVEITTGKLDANAM---------VNDGKYDFYTSGIKKFKINIPA---FTGP 63

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            I     G  +    +AD +     +  VL            + + I + ++I A     
Sbjct: 64  AITIAGNGATVGFMHLADGEFNAYQRTYVLTKFSNSIREFLFYEIGIKLPRKISAEARTG 123

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
            + +     + N+ +  P + EQ  I          I     +    I L     +AL+ 
Sbjct: 124 NIPYIVMDMLTNLDVFTPTVPEQQKIGNLFKQLDRLITLHKRKWDDVILLK----KALLQ 179

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
            +  K  +   +++           D WE       +  +N K+T     N + L     
Sbjct: 180 KMFPKNGSDFPEIRFP------EFTDAWEKCKLGE-IATINPKSTLPQTFNYVDLESVVG 232

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
            +    +   L        ++   G+I ++ +        L      E  + ++ Y  ++
Sbjct: 233 TEMRSYKIEKLYSAPSRAQRLAKYGDIFYQTVRPYQKNNYLFELD-DENYVFSTGYAQIR 291

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIK-EQFDITNVI 382
                  +L  L+++           +G    ++   D+K + + +     EQ  I N  
Sbjct: 292 SKIY-PYFLFTLIQNDRFVNEVLDNCTGTSYPAINATDLKNITIFISNNPIEQQKIGN-- 348

Query: 383 NVETARIDVLVEKIE 397
                ++D L+   +
Sbjct: 349 --LFKQLDRLITLHK 361



 Score = 56.3 bits (134), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 16/146 (10%), Positives = 39/146 (26%), Gaps = 4/146 (2%)

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
            + +         +    +         I               E       Y+  K   
Sbjct: 39  NDGKYDFYTSGIKKFKINIPAFTGPAITIAGNGATVGFMHLADGEFNAYQRTYVLTKFSN 98

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
               +L + +      K+     +G    +  + +  L V  P + EQ  I N       
Sbjct: 99  SIREFLFYEIGIKLPRKISAEARTGNIPYIVMDMLTNLDVFTPTVPEQQKIGN----LFK 154

Query: 388 RIDVLVEKIEQSIVLLKERRSSFIAA 413
           ++D L+   ++    +   + + +  
Sbjct: 155 QLDRLITLHKRKWDDVILLKKALLQK 180


>gi|317490765|ref|ZP_07949219.1| hypothetical protein HMPREF1023_02919 [Eggerthella sp. 1_3_56FAA]
 gi|316910133|gb|EFV31788.1| hypothetical protein HMPREF1023_02919 [Eggerthella sp. 1_3_56FAA]
          Length = 457

 Score = 69.1 bits (167), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 37/211 (17%), Positives = 75/211 (35%), Gaps = 12/211 (5%)

Query: 219 DSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE 278
               E    +P+ WE      +V +  +       S I   S  N  Q+L ++   ++ +
Sbjct: 9   CIDDEIPFDIPEGWEWARLGNIVYQRAQLKPTSAFSYIDIGSIDNAHQRLSSKETLIEAD 68

Query: 279 SYETYQI--VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP-HGIDSTYLAW 335
              +     V  G++++  +        +   +     I ++ + A+    GI + YL  
Sbjct: 69  KAPSRARKPVKLGDVLYSTVRPYLHNMCIVDRKFSLPPIASTGFAAMVCLDGISNGYLLN 128

Query: 336 LMRSYDLCKVFYA--MGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            + S D            G+   ++  + +    V VPP+ EQ  I   ++     +   
Sbjct: 129 YLMSPDFDTYANRTDNSKGVAYPAINDKHLYAALVPVPPLAEQRRIAERVSELMPLVGEH 188

Query: 393 VEKIEQSIVLL-----KERRSSFIAAAVTGQ 418
             K+E     L     +  R S +  AV G+
Sbjct: 189 -GKLEDEREALDASLPERLRKSVLQMAVEGK 218



 Score = 64.0 bits (154), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 39/210 (18%), Positives = 69/210 (32%), Gaps = 15/210 (7%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD--TST 77
            IP+ W+   +             S     YI +  +++   +   K+         +  
Sbjct: 17  DIPEGWEWARLGNIVYQRAQLKPTSA--FSYIDIGSIDNAHQRLSSKETLIEADKAPSRA 74

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDG----ICSTQFLVLQPKDVL-PELLQGWLLSID 132
                 G +LY  + PYL    I D       I ST F  +   D +    L  +L+S D
Sbjct: 75  RKPVKLGDVLYSTVRPYLHNMCIVDRKFSLPPIASTGFAAMVCLDGISNGYLLNYLMSPD 134

Query: 133 VTQRIEA--ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
                      +G      + K +    +P+PPLAEQ  I E++      +         
Sbjct: 135 FDTYANRTDNSKGVAYPAINDKHLYAALVPVPPLAEQRRIAERVSELMPLVGEHGKLEDE 194

Query: 191 FI----ELLKEKKQALVSYIVTKGLNPDVK 216
                  L +  +++++   V   L P   
Sbjct: 195 REALDASLPERLRKSVLQMAVEGKLVPQDP 224



 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 28/175 (16%), Positives = 49/175 (28%), Gaps = 14/175 (8%)

Query: 219 DSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL---SYGNIIQKLETRNMGL 275
               E    +P+ WE      + T + R  +                N            
Sbjct: 283 CIDGEIPFEIPEGWEWARLEGITTYIQRGKSPKYSLEKKYPVVAQKCNQWSGFSLERAKF 342

Query: 276 KP----ESYETYQIVDPGEIVFRFIDLQN---DKRSLRSAQVMERGIITSAY--MAVKPH 326
                  SY   +++  G++++    L           +       +  S    +   P 
Sbjct: 343 VDPNSVASYAEERLLVDGDLLWNSTGLGTLGRMAVYDSNQNPYGWAVADSHVTVIRTVPD 402

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDIT 379
            +   Y         +  V     SG   ++ L  E VKR  + VPP+ EQ  I 
Sbjct: 403 WLRYEYAFLYFAGPSVQSVIEDQASGSTKQKELAQETVKRYLIPVPPLAEQRRIA 457



 Score = 44.0 bits (102), Expect = 0.041,   Method: Composition-based stats.
 Identities = 15/124 (12%), Positives = 39/124 (31%), Gaps = 14/124 (11%)

Query: 20  AIPKHWKVVPIKRFTK-LNTGRTSESG--KDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            IP+ W+   ++  T  +  G++ +    K    +  +     +G  L +      +  +
Sbjct: 291 EIPEGWEWARLEGITTYIQRGKSPKYSLEKKYPVVAQKC-NQWSGFSLERAKFVDPNSVA 349

Query: 77  TV---SIFAKGQILYGKL--GPYLRKAIIADF-----DGICSTQFLVLQPKDVLPELLQG 126
           +     +   G +L+     G   R A+           +  +   V++           
Sbjct: 350 SYAEERLLVDGDLLWNSTGLGTLGRMAVYDSNQNPYGWAVADSHVTVIRTVPDWLRYEYA 409

Query: 127 WLLS 130
           +L  
Sbjct: 410 FLYF 413


>gi|126463983|ref|YP_001045096.1| restriction modification system DNA specificity subunit
           [Rhodobacter sphaeroides ATCC 17029]
 gi|126105794|gb|ABN78324.1| restriction modification system DNA specificity domain [Rhodobacter
           sphaeroides ATCC 17029]
          Length = 575

 Score = 69.1 bits (167), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 22/140 (15%), Positives = 47/140 (33%), Gaps = 4/140 (2%)

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVF-RFIDLQNDKRSLRSAQVMERGIITSA 319
           Y N I     +   L+    + + +     +V           R       +E+ +  + 
Sbjct: 407 YRNRIDLTNLKKFELQDGEVDKFGLQPFDILVVEGNGSATEIGRCAMWEGQIEQCVHQNH 466

Query: 320 YMAVKPHGID-STYLAWLMRSYDLCKVF--YAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
            +  +P   + S Y    + S          A+ S    +L    +  +P+ +PP+ EQ 
Sbjct: 467 LIRCRPIDPNLSRYALLYLNSPLGMDEMTELAITSAGLYNLSVGKISTVPLPLPPLAEQH 526

Query: 377 DITNVINVETARIDVLVEKI 396
            I   ++     +D L   +
Sbjct: 527 RIVAKVDALMRLLDDLEAAL 546



 Score = 66.4 bits (160), Expect = 8e-09,   Method: Composition-based stats.
 Identities = 22/122 (18%), Positives = 44/122 (36%), Gaps = 4/122 (3%)

Query: 278 ESYETYQIVDPGEIVFRFIDLQ--NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
           E  + Y     G++    I     N K ++        G  T+    V+P  +   Y+  
Sbjct: 134 EIKKGYTHFAEGDVGLAKITPCFENGKSAVFRGLTGGFGAGTTELHIVRPIFVSPDYILT 193

Query: 336 LMRSYDLCK--VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
            ++S    +  +    G+  ++ +  E     P  +PP+ EQ  I   +    A +D + 
Sbjct: 194 YLKSPQFIENGIPRMTGTAGQKRVPTEYFIGTPFPLPPLAEQHRIVAKVEELMALLDRIE 253

Query: 394 EK 395
             
Sbjct: 254 AA 255



 Score = 47.5 bits (111), Expect = 0.004,   Method: Composition-based stats.
 Identities = 32/199 (16%), Positives = 56/199 (28%), Gaps = 13/199 (6%)

Query: 22  PKHWKVVPIKRFTKLNTG--RTS---ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           P  W+   ++    +  G  +T           Y+G+ +V               Q    
Sbjct: 367 PPRWRWTNLECLFAITGGIQKTPGRMPKANAFPYLGVGNVYRNRIDLTNLKKFELQDGEV 426

Query: 77  TVSIFAKGQILY----GKLGPYLRKAIIAD--FDGICSTQFLVLQPKDVLPELL--QGWL 128
                    IL     G      R A+        +     +  +P D            
Sbjct: 427 DKFGLQPFDILVVEGNGSATEIGRCAMWEGQIEQCVHQNHLIRCRPIDPNLSRYALLYLN 486

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
             + + +  E     A + +     I  +P+P+PPLAEQ  I  K+ A    +D L    
Sbjct: 487 SPLGMDEMTELAITSAGLYNLSVGKISTVPLPLPPLAEQHRIVAKVDALMRLLDDLEAAL 546

Query: 189 IRFIELLKEKKQALVSYIV 207
                       A +   +
Sbjct: 547 SASSTTRARLLDATLRAAL 565



 Score = 42.1 bits (97), Expect = 0.19,   Method: Composition-based stats.
 Identities = 31/200 (15%), Positives = 66/200 (33%), Gaps = 7/200 (3%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           +P +W    I     ++    +E      ++ +  + +        +    +      + 
Sbjct: 82  LPANWAWSNIASLGSVSPRNEAEDDAMASFVPMTLIPTEIRAANGHEPRHWREIKKGYTH 141

Query: 81  FAKGQILYGKLGPYLRKA------IIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
           FA+G +   K+ P            +    G  +T+  +++P  V P+ +  +L S    
Sbjct: 142 FAEGDVGLAKITPCFENGKSAVFRGLTGGFGAGTTELHIVRPIFVSPDYILTYLKSPQFI 201

Query: 135 QRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
           +       G         +     P P+PPLAEQ  I  K+      +D +   R    E
Sbjct: 202 ENGIPRMTGTAGQKRVPTEYFIGTPFPLPPLAEQHRIVAKVEELMALLDRIEAARAGREE 261

Query: 194 LLKEKKQALVSYIVTKGLNP 213
                  A ++ +     + 
Sbjct: 262 TRNRLTAATLARLTDPKADA 281


>gi|85716901|ref|ZP_01047866.1| putative specificity protein s [Nitrobacter sp. Nb-311A]
 gi|85696281|gb|EAQ34174.1| putative specificity protein s [Nitrobacter sp. Nb-311A]
          Length = 451

 Score = 69.1 bits (167), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 58/425 (13%), Positives = 118/425 (27%), Gaps = 56/425 (13%)

Query: 44  SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY-----GKLGPYLRKA 98
            G D   +   DV S   +Y+PK         +       G IL       K  P  R  
Sbjct: 35  RGTDFSAVRYGDVSSAPVRYIPKKA-------ADRKTLRPGDILIETAGGTKDQPTGRTV 87

Query: 99  IIA-------DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADW 151
            +        D    C++    L+    L +    +     +             +    
Sbjct: 88  YLNQRVFDMLDMPATCASFARFLRVNRELVDPNYLYWYLQSIYSTGAMFPYHIQHTGVAR 147

Query: 152 KGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL-VSYIVTKG 210
               +              +  I A    +D  I    R  E L+   QA+ + + V  G
Sbjct: 148 FQYTDFAAQWRVPVPDREHQLAIAALLSSLDDKIELNRRTNETLEAMAQAIFLDWFVDFG 207

Query: 211 --------------------LNPDVKMKDS--GIEWVGLV--PDHWEVKPFFALVTELNR 246
                                +PD   K +      +G    P+ W              
Sbjct: 208 PTRRKIDGATDPVEVMGGLVNDPDRARKLAALFPSELGEDGLPEGWSEGDLGHYAFLNPE 267

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLK---PESYETYQIVDPGEIVFRFIDLQNDKR 303
             +     + +        +        +           +IV  G+ +   +   N   
Sbjct: 268 SWSVRNAPHAIEYVDLANTKWGTIELTTVYRWSDAPSRARRIVRGGDTIVGTVRPGN--- 324

Query: 304 SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM-RSYDLCKVFYAMG-SGLRQSLKFED 361
              S   ++    ++ + A++P       L +L   S +  +    +   G   +++ + 
Sbjct: 325 GSYSYVGIDGLTASTGFAALRPKEKTMAPLVYLAATSVENIERLDKLADGGAYPAVRPDV 384

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           V    + + P+     I +      A +   VE  ++   +L   R   +   ++G+I L
Sbjct: 385 VLATNMPIVPLD----IVDGFASVCAPLITKVEHNKKENRILAATRDLLLPKLMSGEIRL 440

Query: 422 RGESQ 426
           R   +
Sbjct: 441 RDAER 445


>gi|218516410|ref|ZP_03513250.1| Putative restriction-modification enzyme [Rhizobium etli 8C-3]
          Length = 112

 Score = 69.1 bits (167), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 17/105 (16%), Positives = 33/105 (31%), Gaps = 6/105 (5%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           +P+ W    +    + ++G T         G DI ++   D+E       P+        
Sbjct: 4   LPRGWVETTLGEIGEWSSGGTPSRARPDYYGGDIPWVKTGDLEDRVLLDTPEKITQAGLR 63

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV 119
            S+  +F  G +L    G  + K  +       +       P   
Sbjct: 64  NSSAKLFPSGTLLIAMYGATIGKTALLGIPAATNQACAAFVPSYH 108


>gi|319776232|ref|YP_004138720.1| putative type-1 restriction enzyme HindVIIP specificity protein
           [Haemophilus influenzae F3047]
 gi|329123369|ref|ZP_08251933.1| type I restriction/modification specificity protein [Haemophilus
           aegyptius ATCC 11116]
 gi|317450823|emb|CBY87045.1| Putative type-1 restriction enzyme HindVIIP specificity protein
           [Haemophilus influenzae F3047]
 gi|327470951|gb|EGF16406.1| type I restriction/modification specificity protein [Haemophilus
           aegyptius ATCC 11116]
          Length = 448

 Score = 69.1 bits (167), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 53/459 (11%), Positives = 116/459 (25%), Gaps = 78/459 (16%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
             WK   +        GR  ++G+        + ++++ +G GK +  D    ++     
Sbjct: 2   SDWKEYKLGELATFYNGRAYKNGEFKTSGTPIVRIQNL-TGEGKTVYSDLQLDEN----- 55

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
                G ++Y          I      I       +   + + +    +     ++  ++
Sbjct: 56  KYIENGDLIYAWS-ATFGPYIWRGEKSIYHYHIWKIVCNEKIIDKFYFYYKLKLISDSLK 114

Query: 139 AICEGATMSHADWKGIGNIPM--------------------------------------- 159
               G+   H     + N  +                                       
Sbjct: 115 DNGNGSIFIHITKSFMENFKIKIPSLEKQKYISNILSNLDKKIRFNTQINQTLEQIAQAL 174

Query: 160 ---PIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVK 216
                          + +          +           E+  AL              
Sbjct: 175 FKSWFVDFDPVRAKVQALSEGMSLEQAELAAMQAISGKTPEELTALSQTQPDCYAELAET 234

Query: 217 MKDSGIEWVG----LVPDHWEVKPFFALVTELNRKNTKLIE-----------SNILSLSY 261
            K    E V      VP  WE KP   L      K     E             I     
Sbjct: 235 AKAFPCEMVEVDGVEVPKGWEYKPADELFDIGIGKTPLRKETEWFSTNPDDMQWISIKDM 294

Query: 262 GNIIQKLETRNMGLKPESYETYQI--VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
           GN    +   +  L  ++ + + I  +    ++  F                   I  + 
Sbjct: 295 GNSGVFITESSEFLTNQAVDKFNIRKIPENTVLLSFKLTIGRVSITTCETTTNEAI--AH 352

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
           +       + + YL    + +D   +     S +  ++  + +K + +L+P  +      
Sbjct: 353 FKITDKSFLTTEYLYLFFQQFDFNSL--GSTSSIATAVNSKTIKGIEILIPNEELIKAFQ 410

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
             I+   A+I  L  + +     L E R   +   + G+
Sbjct: 411 MKISNIFAQIKNLTIENKN----LVETRDLLLPRLLNGE 445



 Score = 44.4 bits (103), Expect = 0.034,   Method: Composition-based stats.
 Identities = 22/175 (12%), Positives = 50/175 (28%), Gaps = 12/175 (6%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTS---------ESGKDIIYIGLEDVESGTGKYLPKDG-- 68
            +PK W+  P      +  G+T           +  D+ +I ++D+ +            
Sbjct: 249 EVPKGWEYKPADELFDIGIGKTPLRKETEWFSTNPDDMQWISIKDMGNSGVFITESSEFL 308

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL 128
            ++  D   +    +  +L       + +  I   +   +      +  D      +   
Sbjct: 309 TNQAVDKFNIRKIPENTVLLS-FKLTIGRVSITTCETTTNEAIAHFKITDKSFLTTEYLY 367

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           L              +  +  + K I  I + IP        + KI     +I  
Sbjct: 368 LFFQQFDFNSLGSTSSIATAVNSKTIKGIEILIPNEELIKAFQMKISNIFAQIKN 422


>gi|304373163|ref|YP_003856372.1| Restriction endonuclease S subunits [Mycoplasma hyorhinis HUB-1]
 gi|304309354|gb|ADM21834.1| Restriction endonuclease S subunits [Mycoplasma hyorhinis HUB-1]
          Length = 355

 Score = 69.1 bits (167), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 39/367 (10%), Positives = 109/367 (29%), Gaps = 26/367 (7%)

Query: 50  YIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQI--LYGKLGPYLRKAIIADFDGIC 107
           ++   ++++  GKY      +  + T       K  +  L      Y       +     
Sbjct: 9   FVSKYEIQNNPGKYPVYSSQTTNNGTMGYISSYKYDLECLTWTTRGYAGVVFYRNEKFSV 68

Query: 108 STQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQ 167
           S   L++  ++++               ++  I +  T  +     +  +   +   +  
Sbjct: 69  SNSGLLIFKRNIIYNYRYFL-----FVFQMADIQKSMTAGNIPQFTVEMMKEAVLTYSNN 123

Query: 168 VLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGL 227
           +  + KI      +D +I+   R + LL++ ++AL S I     N    ++         
Sbjct: 124 LNEQRKISQLFYTLDKIISLYERKMSLLEKLQKALFSNIFVLNANNKPLIRFKSFFEFWE 183

Query: 228 VPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVD 287
             +  ++       ++      +         S     + +         +         
Sbjct: 184 KNNISDLCKINRGNSKYTINYIQQNVGKFPVYSSQTQNEGISGNISTYDYDGE------- 236

Query: 288 PGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY 347
                +    +        S +  +  + +S  +A   +   +T   +L     L  +  
Sbjct: 237 -----YITWTMDGVNAGTVSYRNGKFNVSSSGVLAPNSNKNINT--KFLFYVLKLMNLNQ 289

Query: 348 AMGSGLRQSLKFEDVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
                         + +L +      +EQ  I +      + ID    ++++ + L+K  
Sbjct: 290 ENIGETIPHFTGSMMNKLEITFVKNRQEQNKIAD----LFSNIDSTHAQLKRKLNLIKNI 345

Query: 407 RSSFIAA 413
           + S +  
Sbjct: 346 QKSVLNK 352


>gi|306826264|ref|ZP_07459598.1| type I restriction-modification system [Streptococcus sp. oral
           taxon 071 str. 73H25AP]
 gi|304431540|gb|EFM34522.1| type I restriction-modification system [Streptococcus sp. oral
           taxon 071 str. 73H25AP]
          Length = 191

 Score = 69.1 bits (167), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 26/165 (15%), Positives = 61/165 (36%), Gaps = 7/165 (4%)

Query: 246 RKNTKLIESNILSLSYGN---IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK 302
            K     E  I  +  G+     + +      +     E  ++V  G+ +          
Sbjct: 19  SKFITESEKGIPWIKIGDVEKDSKYVSKTKERITQAGSEKSRLVYKGDFIMSNSMSFGRP 78

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFED 361
             L     +  G ++   ++         YL   + +  +  +     S G  Q+L  E 
Sbjct: 79  YILDIDGCIHDGWLS---ISSFEDLCSPDYLYHYLLTDTMQHMMRKNASNGTVQNLNAEI 135

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
           V++L +++PP+ +Q    +V++      + L E + + I L +++
Sbjct: 136 VRQLIIVLPPLSQQSQAVSVLDNFDTLTNSLSEGLPKEIELRQKQ 180



 Score = 62.9 bits (151), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 29/189 (15%), Positives = 65/189 (34%), Gaps = 9/189 (4%)

Query: 30  IKRFTKLNTGRTS--------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
                K+  G +         ES K I +I + DVE  +           Q+ +    + 
Sbjct: 3   FGAMAKIVRGASPRPISKFITESEKGIPWIKIGDVEKDSKYVSKTKERITQAGSEKSRLV 62

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQF-LVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
            KG  +      + R  I+     I      +        P+ L  +LL+  +   +   
Sbjct: 63  YKGDFIMSNSMSFGRPYILDIDGCIHDGWLSISSFEDLCSPDYLYHYLLTDTMQHMMRKN 122

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
               T+ + + + +  + + +PPL++Q      +       ++L     + IEL +++ +
Sbjct: 123 ASNGTVQNLNAEIVRQLIIVLPPLSQQSQAVSVLDNFDTLTNSLSEGLPKEIELRQKQYE 182

Query: 201 ALVSYIVTK 209
                +   
Sbjct: 183 YWREQLFKF 191


>gi|304440529|ref|ZP_07400416.1| type I restriction-modification enzyme s subunit [Peptoniphilus
           duerdenii ATCC BAA-1640]
 gi|304371007|gb|EFM24626.1| type I restriction-modification enzyme s subunit [Peptoniphilus
           duerdenii ATCC BAA-1640]
          Length = 383

 Score = 69.1 bits (167), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 43/383 (11%), Positives = 105/383 (27%), Gaps = 39/383 (10%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYI--GLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           +   I    ++      +  K   Y+  GL  +     K +    N   +          
Sbjct: 14  EWKKIGDIKEIKVISPIKKIKKKEYLDEGLYPIIDQGQKLIVGYTNDENATFEKSKYVIF 73

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
           G                 +       QF+       + +  + +L S  +   I    E 
Sbjct: 74  GD--------------HTESVKYIDFQFVQGADGIKVLKTNEEYLNSRYLYHAILNFYEM 119

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
                  +  +    +PIP +  Q  I + +   T  +  L  E    ++  +  +  ++
Sbjct: 120 KGNYMRHFSLLKKTEIPIPSIETQEKIVKILDNFTEYVTELQVELQARVKQYEYYRDQIL 179

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
           S                  E++    +        +      +    +     L  S   
Sbjct: 180 SR-----------------EYLCKTSEKIFNNYNNSFEKIKLKDIATITRGRRLVRSDLE 222

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
              +       LKP  Y         +          D          +       ++  
Sbjct: 223 EKGRFPVFQNSLKPLGYYHMNNFSGDKTCLISAGAAGD----IFYAEEDFWAADDVFVID 278

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
               ++     +L+   ++ K      S     +  +++K++ +LVP I+ Q  I  +++
Sbjct: 279 SSSVVNKYIYYYLLNKQNMIKSKVRKAS--IPRISRDEIKKIEILVPTIELQKKIVEILD 336

Query: 384 VETARIDVLVEKIEQSIVLLKER 406
              + +      + Q I   +++
Sbjct: 337 KFQSLVSETKGLLPQEIEQRQKQ 359



 Score = 45.2 bits (105), Expect = 0.022,   Method: Composition-based stats.
 Identities = 14/93 (15%), Positives = 36/93 (38%), Gaps = 8/93 (8%)

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
            +      ++S YL   + ++   K  Y           F  +K+  + +P I+ Q  I 
Sbjct: 96  VLKTNEEYLNSRYLYHAILNFYEMKGNYMR--------HFSLLKKTEIPIPSIETQEKIV 147

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
            +++  T  +  L  +++  +   +  R   ++
Sbjct: 148 KILDNFTEYVTELQVELQARVKQYEYYRDQILS 180


>gi|227893574|ref|ZP_04011379.1| type I site-specific deoxyribonuclease specificity subunit
           [Lactobacillus ultunensis DSM 16047]
 gi|227864626|gb|EEJ72047.1| type I site-specific deoxyribonuclease specificity subunit
           [Lactobacillus ultunensis DSM 16047]
          Length = 373

 Score = 69.1 bits (167), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 57/390 (14%), Positives = 125/390 (32%), Gaps = 32/390 (8%)

Query: 35  KLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPY 94
           ++N    S      + I  +        +  K       +     +  KG   Y K    
Sbjct: 2   RINRKNESLESTLPLTISAQYGLVKQNSFFNK--QVASKNLKNYILLRKGDFAYNKSYSK 59

Query: 95  LRKAI-----IADFDGICSTQFLVLQPKDVLPEL-LQGWLLSIDVTQRIEAICEGATMSH 148
                          G+ S+ ++  +P  +  +     +       +  +   EGA    
Sbjct: 60  DSPYGAIKRLNCYPKGVISSLYIAFKPNGINSKFLEIYYESDKWYKEIYKRAAEGARNHG 119

Query: 149 ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVT 208
                  +    +  ++     +EKI      ++ LI  + R +  L++ KQAL  YI  
Sbjct: 120 LLNISPHDFFDTLLKISTSKKEQEKIGILLSYVEKLILLQQRKLNDLEQIKQALEDYIFP 179

Query: 209 KGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKL 268
                         E   L+ +  + K          R      E+ +       ++   
Sbjct: 180 D-----------NNENRKLIFNKNKWKHKKIKDIFEERNIRDGKENLLTVSISKGVVPFN 228

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
             +           Y++V  G+I +  + +      +        GI++ AY  ++    
Sbjct: 229 SMKREINSSSDKSNYKVVKIGDIAYNSMRMWQGACGVSKYD----GIVSPAYTVIRAKEH 284

Query: 329 DSTYLA-WLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVP-PIKEQFDITNVIN 383
           ++     +  ++  +  +F     GL     +LKF  +KR+ VL P   KEQ      ++
Sbjct: 285 ENALFYFYYFKNERMKFIFQKNSQGLTSDTWNLKFPLLKRITVLTPENEKEQIR----VS 340

Query: 384 VETARIDVLVEKIEQSIVLLKERRSSFIAA 413
               ++ ++V++  + I  L   +   +  
Sbjct: 341 KLFNKVSLIVKQTGKEIAYLNLVKKFLLQK 370



 Score = 50.6 bits (119), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 21/156 (13%), Positives = 50/156 (32%), Gaps = 7/156 (4%)

Query: 32  RFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKL 91
              +    R  +     + I    V   + K       +  SD S   +   G I Y  +
Sbjct: 201 DIFEERNIRDGKENLLTVSISKGVVPFNSMK----REINSSSDKSNYKVVKIGDIAYNSM 256

Query: 92  GPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL---SIDVTQRIEAICEGATMSH 148
             +     ++ +DGI S  + V++ K+    L   +      +    +  +    +   +
Sbjct: 257 RMWQGACGVSKYDGIVSPAYTVIRAKEHENALFYFYYFKNERMKFIFQKNSQGLTSDTWN 316

Query: 149 ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
             +  +  I +  P   ++ +   K+  +   I   
Sbjct: 317 LKFPLLKRITVLTPENEKEQIRVSKLFNKVSLIVKQ 352


>gi|167740612|ref|ZP_02413386.1| putative restriction modification system specificity subunit
           [Burkholderia pseudomallei 14]
          Length = 392

 Score = 69.1 bits (167), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 24/158 (15%), Positives = 58/158 (36%), Gaps = 9/158 (5%)

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
             + ++E         S + Y++V+ G++V+    L+     +  A   + GI+++ Y  
Sbjct: 68  GCVNQIEHLGRSYAGASVKEYRVVETGDLVYTKSPLKKSPFGVVKANKGKAGIVSTLYAI 127

Query: 323 VKPHGI-DSTYLAWLMRS-YDLCKVFYAMGSGLRQS---LKFEDVKRLPVLVPPIKEQFD 377
            +P     S Y  +     + L      +     ++   +    V    V+ P ++EQ  
Sbjct: 128 YRPKEGAHSAYFDYYFSLDHRLNAYLQPLVKKGAKNDMKVNNGVVLSGNVVAPKLEEQKR 187

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           I + +      +D  +      +  LK ++   +    
Sbjct: 188 IADCL----TSLDERIAVESSKLDTLKVQKKGLMQRLF 221



 Score = 61.7 bits (148), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 49/383 (12%), Positives = 123/383 (32%), Gaps = 39/383 (10%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSE---SGKDIIYIGLEDVESGTGK 62
            +P+++ +G         +W++  +  F      R  +   + +D++ +  E       +
Sbjct: 24  RFPEFRKAG---------NWEIKKLSEFLIETKQRNRDLKYTPQDVLSVSGELGCVNQIE 74

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGKL----GPYLRKAIIADFDGICSTQFLVLQPKD 118
           +L +             +   G ++Y K      P+          GI ST + + +PK+
Sbjct: 75  HLGRSYAGASVKE--YRVVETGDLVYTKSPLKKSPFGVVKANKGKAGIVSTLYAIYRPKE 132

Query: 119 VLPELLQGWLLSIDVTQRIEA----ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKI 174
                   +  S+D                     +   + +  +  P L EQ  I + +
Sbjct: 133 GAHSAYFDYYFSLDHRLNAYLQPLVKKGAKNDMKVNNGVVLSGNVVAPKLEEQKRIADCL 192

Query: 175 IAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEV 234
                 +D  I      ++ LK +K+ L+  +  +      +++       G     W+ 
Sbjct: 193 ----TSLDERIAVESSKLDTLKVQKKGLMQRLFPREGETVPRLRFPEFRDAGE----WQS 244

Query: 235 KPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN-MGLKPESYETYQIVDPGEIVF 293
           +   +L+       +   E     +   +    +  +  +  K    +    V+    V 
Sbjct: 245 RKISSLLVRSVSPVSVDAEEVYQEIGIRSHGNGVFHKELVHGKALGDKRVFWVEENAFVV 304

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI---DSTYLAWLMRSYDLCKV--FYA 348
             +       ++      E+G+I S    +        D  ++ +   + +  ++    +
Sbjct: 305 NIVFAWEQ--AVAVTSEAEKGMIASHRFPMYKAKDGASDVNFIKYFFLTKEGKELLGIAS 362

Query: 349 MGSGLRQS-LKFEDVKRLPVLVP 370
            G   R   L  ++ + L  L P
Sbjct: 363 PGGAGRNRTLGQKEFENLEFLSP 385


>gi|148993497|ref|ZP_01822988.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae SP9-BS68]
 gi|147927866|gb|EDK78887.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae SP9-BS68]
          Length = 273

 Score = 69.1 bits (167), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 38/188 (20%), Positives = 74/188 (39%), Gaps = 9/188 (4%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNSR 71
            IP  W+ V      ++  G +    KD        I +I + D E G           +
Sbjct: 83  DIPDTWEWVRFSTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINNVKEKIK 142

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
           +S  +      KG  L      + R  I+     I      +   ++ L +    ++LS 
Sbjct: 143 KSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYLFYILSS 202

Query: 132 D-VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
           + V  +  ++  GA + + +   + +I +P+PPLAEQ  I E I +   +++ +    I 
Sbjct: 203 NVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLAEQQRIIEAIESALEKVNNIAGRLIY 262

Query: 191 FIELLKEK 198
           +  L++  
Sbjct: 263 YKMLMRNF 270



 Score = 67.1 bits (162), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 35/180 (19%), Positives = 70/180 (38%), Gaps = 8/180 (4%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
            I+    +PD WE   F  LV  +   + + I+  + S   G    K+     G K  + 
Sbjct: 77  EIDVPYDIPDTWEWVRFSTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINN 136

Query: 281 ETYQIVDPG-----EIVFRFIDLQNDKRSLRSAQVMERGIITSAY--MAVKPHGIDSTYL 333
              +I   G      +      L N     R   +   G I   +  ++   + ++  YL
Sbjct: 137 VKEKIKKSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYL 196

Query: 334 AWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            +++ S  +   F ++ SG   ++L  + V  + + +PP+ EQ  I   I     +++ +
Sbjct: 197 FYILSSNVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLAEQQRIIEAIESALEKVNNI 256


>gi|332087067|gb|EGI92201.1| type I restriction modification DNA specificity domain protein
           [Shigella boydii 3594-74]
          Length = 334

 Score = 69.1 bits (167), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 50/371 (13%), Positives = 110/371 (29%), Gaps = 41/371 (11%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
           V +     ++ G+  ++         + V +G+       G     D    ++ +   I+
Sbjct: 2   VKLGDVINVHYGKALKAD--------QRVSNGSVHVFGSSGIVGNHD---KTLCSYPTII 50

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMS 147
            G+ G             I  T + V        +L   +L  I     +       ++ 
Sbjct: 51  IGRKGSVGAITWAPSGGWIIDTAYYVEI--KDNNKLDLRYLFYILSGIDLTKKTITTSIP 108

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
             +   + +  + +PP  EQ  I + +  +   I     + I+  +       A +    
Sbjct: 109 GLNRDDLYDTFIKLPPFEEQKRIVDLLD-KAEGIRQKREQSIKLADDFLRATFATM---- 163

Query: 208 TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK 267
               NP    K   +  +G + +                K+  + E     +    I   
Sbjct: 164 --YGNPITNPKKWPVHLMGEIIEFK--------GGNQPPKSDFIFEPKQGYIRLVQIRDF 213

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
              +     P+      I +  +++            +        G    A M   P  
Sbjct: 214 KSDKYATYIPQEKAKR-IFEVDDVMIARYGPP-----VFQILRGLSGSYNVALMKASPKE 267

Query: 328 IDSTYL-AWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
                   +L++  +   V       +  +  +  E + +  V +PPI  Q +I + +  
Sbjct: 268 NIRKGFIFYLLQLPEYHDVVVKNSERTAGQTGVNLELLNKFNVPLPPIYYQDEILDRL-- 325

Query: 385 ETARIDVLVEK 395
             ARI+   EK
Sbjct: 326 --ARIEKFKEK 334



 Score = 57.1 bits (136), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 19/110 (17%), Positives = 39/110 (35%), Gaps = 4/110 (3%)

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
           +  I +               G I      V+    +   L +L        +     + 
Sbjct: 46  YPTIIIGRKGSVGAITWAPSGGWIIDTAYYVEIKDNNKLDLRYLFYILSGIDLTKKTITT 105

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
               L  +D+    + +PP +EQ  I ++++    + + + +K EQSI L
Sbjct: 106 SIPGLNRDDLYDTFIKLPPFEEQKRIVDLLD----KAEGIRQKREQSIKL 151



 Score = 40.9 bits (94), Expect = 0.43,   Method: Composition-based stats.
 Identities = 21/156 (13%), Positives = 51/156 (32%), Gaps = 4/156 (2%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVE-SGTGKYLPKDGNSRQSDTSTVSI 80
           PK W V  +    +   G        I       +       +      +         I
Sbjct: 171 PKKWPVHLMGEIIEFKGGNQPPKSDFIFEPKQGYIRLVQIRDFKSDKYATYIPQEKAKRI 230

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR--IE 138
           F    ++  + GP + +  +    G  +   +   PK+ + +    +LL +       ++
Sbjct: 231 FEVDDVMIARYGPPVFQI-LRGLSGSYNVALMKASPKENIRKGFIFYLLQLPEYHDVVVK 289

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKI 174
                A  +  + + +    +P+PP+  Q  I +++
Sbjct: 290 NSERTAGQTGVNLELLNKFNVPLPPIYYQDEILDRL 325


>gi|307067139|ref|YP_003876105.1| restriction endonuclease S subunit [Streptococcus pneumoniae AP200]
 gi|306408676|gb|ADM84103.1| Restriction endonuclease S subunit [Streptococcus pneumoniae AP200]
          Length = 249

 Score = 69.1 bits (167), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 36/167 (21%), Positives = 64/167 (38%), Gaps = 9/167 (5%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNSR 71
            IP  W+ V      ++  G +    KD        I +I + D E G           +
Sbjct: 83  DIPDTWEWVRFSTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINNVKEKIK 142

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
           +S  +      KG  L      + R  I+     I      +   ++ L +    ++LS 
Sbjct: 143 KSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYLFYILSS 202

Query: 132 D-VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
           + V  +  ++  GA + + +   + +I +P+PPLAEQ  I E I   
Sbjct: 203 NVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLAEQQRIIEAIDQL 249



 Score = 64.8 bits (156), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 35/173 (20%), Positives = 67/173 (38%), Gaps = 8/173 (4%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
            I+    +PD WE   F  LV  +   + + I+  + S   G    K+     G K  + 
Sbjct: 77  EIDVPYDIPDTWEWVRFSTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINN 136

Query: 281 ETYQIVDPG-----EIVFRFIDLQNDKRSLRSAQVMERGIITSAY--MAVKPHGIDSTYL 333
              +I   G      +      L N     R   +   G I   +  ++   + ++  YL
Sbjct: 137 VKEKIKKSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYL 196

Query: 334 AWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
            +++ S  +   F ++ SG   ++L  + V  + + +PP+ EQ  I   I+  
Sbjct: 197 FYILSSNVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLAEQQRIIEAIDQL 249


>gi|171920743|ref|ZP_02931952.1| restriction-modification enzyme subunit s3b [Ureaplasma urealyticum
           serovar 13 str. ATCC 33698]
 gi|195867369|ref|ZP_03079373.1| restriction-modification enzyme subunit s3b [Ureaplasma urealyticum
           serovar 9 str. ATCC 33175]
 gi|171903490|gb|EDT49779.1| restriction-modification enzyme subunit s3b [Ureaplasma urealyticum
           serovar 13 str. ATCC 33698]
 gi|195660845|gb|EDX54098.1| restriction-modification enzyme subunit s3b [Ureaplasma urealyticum
           serovar 9 str. ATCC 33175]
          Length = 373

 Score = 68.7 bits (166), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 48/392 (12%), Positives = 118/392 (30%), Gaps = 42/392 (10%)

Query: 28  VPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           + +K       G T  S +          I      +G   Y+               ++
Sbjct: 3   IKLKDIIYAKRGSTITSNEFKINPGSYPLISASAQNNGVFGYI------------NYYMY 50

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ-RIEAI 140
             G I     G         D     S   ++    + +      +         +I+++
Sbjct: 51  EGGHITISMNGNAGCVFYQKDKFSANSDVLVLSNIDNKISNNKFIFYWLKKHENTKIKSL 110

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
           C+G T        + N+ + +PP+ EQ  I   I      I  L T + +          
Sbjct: 111 CKGTTRLRLSNDDVLNLEINLPPIEEQNAIISIIEPIERIIKNLKTIKYKLET------- 163

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
            +++            + ++          +           + N  ++ +   N + + 
Sbjct: 164 -IMNNFFV-----VFYLFNNEENSNKYKLRNIGKFKGGISTLDKNNYDSGINFINYMDIY 217

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
              +I       +    E      IV  G+++        ++ +  S  +  +  I + +
Sbjct: 218 KNFVINDDIKLRLYNASEKDIKSYIVSYGDLLLTASSEIKEEIAFSSVYLSNKQAIFNGF 277

Query: 321 MAVKPHGID---STYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQF 376
             +  +  +     Y A+  RS    K    + +G  R +L  +D K + + +   + Q 
Sbjct: 278 SKIYKYDQNILLPIYAAFYFRSEFFRKEVIKLATGYTRFNLSIKDAKNIEISINNFEFQK 337

Query: 377 DITNV------INVETARIDVLVEKIEQSIVL 402
             + +      ++ +  +I+ ++      I  
Sbjct: 338 KFSKIVEPLLNLSTKANKIEKILNDSLLKITK 369


>gi|124010604|ref|ZP_01695218.1| type I restriction-modification system specificity subunit
           [Microscilla marina ATCC 23134]
 gi|123982204|gb|EAY23809.1| type I restriction-modification system specificity subunit
           [Microscilla marina ATCC 23134]
          Length = 362

 Score = 68.7 bits (166), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 31/204 (15%), Positives = 68/204 (33%), Gaps = 11/204 (5%)

Query: 225 VGLVPDHWEVKPFFALVTELNRK-------NTKLIESNILSLSYGNIIQKLETRNMGLKP 277
           +  +P+ W       LV ++              +E  I  ++  +I       +  +  
Sbjct: 108 LPNLPEGWGWMKMGNLVKKIQIGPFGSQLHKHDYVEQGIPIINPKHIKDGYIFPSECITK 167

Query: 278 ESYET--YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
              ++    I++  +I+            + S +        S Y+    +  ++   A 
Sbjct: 168 AKVDSLPQYILNMNDIILGRRGEMGRAALISSKENGWFCGTGSLYIRFT-NFFEAKLYAL 226

Query: 336 LMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
           ++    +       GSG    +L    +  LP+ V P+ EQ  I   I    +  D +  
Sbjct: 227 ILGERRVIHYLEKKGSGTTMTNLNLGILNNLPIQVIPLPEQHQIVQEIESRLSVCDQVEA 286

Query: 395 KIEQSIVLLKERRSSFIAAAVTGQ 418
            I+  +   +  R S +  A  G+
Sbjct: 287 SIQTGLAKAEALRQSILKKAFEGR 310



 Score = 66.0 bits (159), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 33/205 (16%), Positives = 72/205 (35%), Gaps = 12/205 (5%)

Query: 18  IGAIPKHWKVVPIKRFT-KLNTGRTSES-------GKDIIYIGLEDVESGTGKYLPKDGN 69
           +  +P+ W  + +     K+  G             + I  I  + ++ G   +  +   
Sbjct: 108 LPNLPEGWGWMKMGNLVKKIQIGPFGSQLHKHDYVEQGIPIINPKHIKDGYI-FPSECIT 166

Query: 70  SRQSDTSTVSIFAKGQILYGKLGPYLRKAII---ADFDGICSTQFLVLQPKDVLPELLQG 126
             + D+    I     I+ G+ G   R A+I    +     +    +        +L   
Sbjct: 167 KAKVDSLPQYILNMNDIILGRRGEMGRAALISSKENGWFCGTGSLYIRFTNFFEAKLYAL 226

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
            L    V   +E    G TM++ +   + N+P+ + PL EQ  I ++I +     D +  
Sbjct: 227 ILGERRVIHYLEKKGSGTTMTNLNLGILNNLPIQVIPLPEQHQIVQEIESRLSVCDQVEA 286

Query: 187 ERIRFIELLKEKKQALVSYIVTKGL 211
                +   +  +Q+++       L
Sbjct: 287 SIQTGLAKAEALRQSILKKAFEGRL 311


>gi|326202975|ref|ZP_08192842.1| restriction modification system DNA specificity domain [Clostridium
           papyrosolvens DSM 2782]
 gi|325987052|gb|EGD47881.1| restriction modification system DNA specificity domain [Clostridium
           papyrosolvens DSM 2782]
          Length = 479

 Score = 68.7 bits (166), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 24/176 (13%), Positives = 58/176 (32%), Gaps = 5/176 (2%)

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYE----TYQIVDPGEI 291
                      K        I  +   ++          ++    +        V PG++
Sbjct: 43  KVVDGPFGTQLKVEDYRSEGIPVIRVSDVKTGEIPDEGLVRISPDKQRELKRSRVLPGDV 102

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
           +           ++   +++E  I + +      + I+ +YL  +++S    K  Y  G+
Sbjct: 103 ILTKAGAILGYSAVFPERLVEGNITSHSVTIRCKNNINPSYLKHILKSTIGNKQIYRWGN 162

Query: 352 -GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
              R  L   +VKR+ + VP +  Q +I  +++             +Q +  +   
Sbjct: 163 KSTRPELNTGEVKRILIPVPDLDIQNEIVALMDSAHVSRKSKENDAQQLLASIDNY 218



 Score = 65.2 bits (157), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 57/411 (13%), Positives = 125/411 (30%), Gaps = 50/411 (12%)

Query: 44  SGKDIIYIGLEDVESGTGKYLP-KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD 102
             + I  I + DV++G          +  +      S    G ++  K G  L  + +  
Sbjct: 59  RSEGIPVIRVSDVKTGEIPDEGLVRISPDKQRELKRSRVLPGDVILTKAGAILGYSAVFP 118

Query: 103 FD----GICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIP 158
                  I S    +    ++ P  L+  L S    ++I      +T    +   +  I 
Sbjct: 119 ERLVEGNITSHSVTIRCKNNINPSYLKHILKSTIGNKQIYRWGNKSTRPELNTGEVKRIL 178

Query: 159 MPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV--------SYIVTKG 210
           +P+P L  Q  I   + +  V   +   +  + +  +     + +           + + 
Sbjct: 179 IPVPDLDIQNEIVALMDSAHVSRKSKENDAQQLLASIDNYVLSQLGIQLPQPKENTLAER 238

Query: 211 LNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNT--------------------- 249
                  K +G  +       +    F A+ +    K                       
Sbjct: 239 TFFTPFKKVTGSRFDPKKYSKFYQDLFAAVESCALDKAELRVLITHQASGDWGLDTKEVT 298

Query: 250 ---KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI----VDPGEIVFRFIDLQND- 301
                 E  ++  +  +    L  RN  +K       ++    V  G+++       +D 
Sbjct: 299 NPNDYTECTVIRATEFDNQYNLNLRNDRIKLRCINNRKLGRMDVQKGDLLIEKSGGSDDQ 358

Query: 302 ---KRSLRSAQVMERGII---TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-- 353
              +  +    ++  G I      +       +DS Y+   +++    K+  AM S    
Sbjct: 359 PVGRIGIIDTDILGVGNIAYSNFVHKIRIRDDVDSRYIFQFLKTMHNNKLTDAMQSQTNG 418

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLK 404
            ++L   +     + +P   +Q +I   +    AR   L  +  Q I   K
Sbjct: 419 IRNLIMSEYLHQLIPLPLRSKQEEIAEHVADIRARAKSLQLEAAQEIEEAK 469


>gi|238854456|ref|ZP_04644796.1| type I restriction-modification system, S subunit [Lactobacillus
           jensenii 269-3]
 gi|282932601|ref|ZP_06338022.1| type I restriction-modification system, S subunit [Lactobacillus
           jensenii 208-1]
 gi|313472060|ref|ZP_07812552.1| type I restriction-modification system, S subunit [Lactobacillus
           jensenii 1153]
 gi|238832949|gb|EEQ25246.1| type I restriction-modification system, S subunit [Lactobacillus
           jensenii 269-3]
 gi|239530089|gb|EEQ69090.1| type I restriction-modification system, S subunit [Lactobacillus
           jensenii 1153]
 gi|281303297|gb|EFA95478.1| type I restriction-modification system, S subunit [Lactobacillus
           jensenii 208-1]
          Length = 388

 Score = 68.7 bits (166), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 54/397 (13%), Positives = 124/397 (31%), Gaps = 29/397 (7%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           WK V +   ++  T + + S      +     E G          +   +T    +    
Sbjct: 14  WKKVKLGEISEKITQKNNNSCSQFPVLTNSA-EYGIVYQKDFFDKNIAINTDNYYVVHTE 72

Query: 85  QILYGKL----GPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
             +Y        PY    +     G+ S  + + + KD        +L   +   +    
Sbjct: 73  DFVYNPRISKQAPYGPIRVNHLKTGVMSPLYYIFKIKDDFNIGFFEFLFIGNKWHKFMYQ 132

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
              +      +     +   +P    Q +  +K+I E   I+  I   +   +   E   
Sbjct: 133 NGDSGARSDRYAIKDKVFNKLPIYIPQKIEEQKLIFE---INHKINSLLYLQQRKLELIS 189

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
           AL               K  G         +         +    +   ++   N L   
Sbjct: 190 AL--------------EKGLGQIIKQQNNKYGITFSLNNFLEIPPQIQARIKNKNQLLTV 235

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
             N+                  Y I   GE++F   ++ N   +L + +  +    ++  
Sbjct: 236 KLNLQGLARGVQRDTLSLGSTKYFIRHTGELIFGKQNIFNGSIALITKE-FDGLATSNDV 294

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPV-LVPPIKEQFDI 378
            ++K   I+  +L +L+++ D  K    + +G   + +   D+ +L + ++P  K Q  I
Sbjct: 295 PSLKISNINPQFLFYLLKNPDFWKHTELIATGTGSKRVHIHDLLKLHIKIIPDAKYQAKI 354

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            + ++    +I +  + I +     K+     +    
Sbjct: 355 VS-LSRNFEKIVLNQQIIVKECEKTKQF---LLQNLF 387


>gi|224418075|ref|ZP_03656081.1| restriction modification enzyme [Helicobacter canadensis MIT 98-5491]
 gi|253827404|ref|ZP_04870289.1| restriction-modification enzyme [Helicobacter canadensis MIT 98-5491]
 gi|313141612|ref|ZP_07803805.1| restriction modification enzyme [Helicobacter canadensis MIT 98-5491]
 gi|253510810|gb|EES89469.1| restriction-modification enzyme [Helicobacter canadensis MIT 98-5491]
 gi|313130643|gb|EFR48260.1| restriction modification enzyme [Helicobacter canadensis MIT 98-5491]
          Length = 1322

 Score = 68.7 bits (166), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 39/419 (9%), Positives = 122/419 (29%), Gaps = 52/419 (12%)

Query: 26   KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
            ++V ++   K+   +T         I  +++    G Y     N      +  +     +
Sbjct: 898  ELVKLESICKMYQPKT---------ITAKEILEK-GDYKVYGANGVIGFYNQYNH-KDSE 946

Query: 86   ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
            +     G         + +   +   +++ P +      +  +  + +   I+++  G+ 
Sbjct: 947  VAMTCRGATCGAINYTEPNSWITGNAMIITPLEKNLISKKFLVYILPL-SNIKSVITGSA 1005

Query: 146  MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID-------------TLITERIRFI 192
                    +  + +P+PPL  Q  I  +  +   + +               I       
Sbjct: 1006 QPQITRNNLATLKIPLPPLEIQKQIVAECESLESQCNTIEQSIKAYQELIKAILWHCGIT 1065

Query: 193  ELLKEKKQALVSYI--VTKGLNPDVKMKDSG------------IEWVGLVPDHWEV---- 234
                +   +++  +  +   L+ ++  K               +  +   P +       
Sbjct: 1066 TESTKDFDSILMSLAELESKLDFELLGKTKQDSKAFLQNLTNTLNTLPTPPSNGWEKAKL 1125

Query: 235  KPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY--QIVDPGEIV 292
                 +  E    +    E   + +            N  +      T   +I     ++
Sbjct: 1126 CKICNINQETYNPSNDEGEMLYIDIDSIEKGTGKINFNDKISCRKLPTRARRIARADSVI 1185

Query: 293  FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWL---MRSYDLCKVFYAM 349
               +       +    ++ +    T   +      +  +   +         + ++   M
Sbjct: 1186 ISTVRPYLKGFAYLKNEIKDSIFSTGFAILQGKENLVKSQFVYYCFMFSDDLMQQMKIKM 1245

Query: 350  GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
                  S+  ED++   + +PP++ Q  I   I      I   +  ++ ++ LL+ ++ 
Sbjct: 1246 PKSSYPSINTEDLESFTIPLPPLEIQTKIAQSIET----IQSQISFLDSALPLLQSQKQ 1300



 Score = 63.7 bits (153), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 32/304 (10%), Positives = 76/304 (25%), Gaps = 25/304 (8%)

Query: 108  STQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQ 167
              + +    K  + E    ++ +              + +             I     Q
Sbjct: 781  GQEGIHYFMKSGVVENNINYIDTPLFNPNNRFCVNSISFAILSHFVKYLDSKDIDANFLQ 840

Query: 168  VLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGL 227
              +R++   +                   E  +A+        LNP     +S ++    
Sbjct: 841  QFLRQEKNNKNNEFLESARLIDMIDFEKVEFNKAI-------SLNPHSNDSNS-VQSNPF 892

Query: 228  VPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVD 287
                +E+    ++      K     E              +         +  E      
Sbjct: 893  ANSKYELVKLESICKMYQPKTITAKEILEKGDYKVYGANGVIGFYNQYNHKDSE------ 946

Query: 288  PGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY 347
               +                        IT   M + P   +     +L+    L  +  
Sbjct: 947  ---VAMTCRGAT----CGAINYTEPNSWITGNAMIITPLEKNLISKKFLVYILPLSNIKS 999

Query: 348  AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
             +    +  +   ++  L + +PP++ Q  I        ++ +     IEQSI   +E  
Sbjct: 1000 VITGSAQPQITRNNLATLKIPLPPLEIQKQIVAECESLESQCNT----IEQSIKAYQELI 1055

Query: 408  SSFI 411
             + +
Sbjct: 1056 KAIL 1059



 Score = 53.6 bits (127), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 36/201 (17%), Positives = 77/201 (38%), Gaps = 9/201 (4%)

Query: 23   KHWKVVPIKRFTKLNTGRTSESGK--DIIYIGLEDVESGTGKY-LPKDGNSRQSDTSTVS 79
              W+   + +   +N    + S    +++YI ++ +E GTGK       + R+  T    
Sbjct: 1118 NGWEKAKLCKICNINQETYNPSNDEGEMLYIDIDSIEKGTGKINFNDKISCRKLPTRARR 1177

Query: 80   IFAKGQILYGKLGPYLRKAIIADFDG---ICSTQFLVLQPKDVLPELLQGWLLSI---DV 133
            I     ++   + PYL+       +    I ST F +LQ K+ L +    +   +   D+
Sbjct: 1178 IARADSVIISTVRPYLKGFAYLKNEIKDSIFSTGFAILQGKENLVKSQFVYYCFMFSDDL 1237

Query: 134  TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
             Q+++     ++    + + + +  +P+PPL  Q  I + I     +I  L +       
Sbjct: 1238 MQQMKIKMPKSSYPSINTEDLESFTIPLPPLEIQTKIAQSIETIQSQISFLDSALPLLQS 1297

Query: 194  LLKEKKQALVSYIVTKGLNPD 214
              +E  +  +           
Sbjct: 1298 QKQEVLKKYLFKTFLDRFTKQ 1318


>gi|269978334|gb|ACZ55901.1| putative type I restriction-modification system specificity subunit
           S [Helicobacter pylori]
          Length = 420

 Score = 68.7 bits (166), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 48/414 (11%), Positives = 116/414 (28%), Gaps = 42/414 (10%)

Query: 22  PKHWKVVPIKRFTKL-------NTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           PK  +   +    +         T +  +       +     ++    Y  +  N  Q+ 
Sbjct: 13  PKGVEFRKLGEVLEYDQPNKYCVTSKEFDKSYPTPVLTAG--KTFILGYTNEKDNIYQAS 70

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
            S+ +I                   +     + S+   +L  K+    +   +       
Sbjct: 71  KSSPAIIFDD--------FTTATQWVDFPFKVKSSAMKILFSKNPTINIRFIFFYM---Q 119

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
                I                + +PIPPL  Q  I + + A T     L TE    +  
Sbjct: 120 TIPYNIGGEHARHWISRYSQ--LEVPIPPLEIQQEIVKILDAFTELNTELNTELNTELNT 177

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
               +                +   + +     +  + +     +    L      L   
Sbjct: 178 ELNTELNTELNA----RKKQYQYYQNMLLDFNDINSNHKDAKIKSYPKRLKTLLHTLAPK 233

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVF-----------RFIDLQNDKR 303
            +     G + + +  + +  K    +    V  G I F             I +     
Sbjct: 234 GVEFRKLGEVCEIIRGKRVTKKEILDKGKYPVVSGGIGFMGYLNEYNREENTITIAQYGT 293

Query: 304 SLRSAQVMERGIITSAYMAVKPHGID-STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDV 362
           +       ++        +V P     + YL +++ +        +  S +  S+   ++
Sbjct: 294 AGFVNWQNQKFWANDVCFSVIPKETLINRYLYYVLTNMQNYLYSISNRSAIPYSISSNNI 353

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
            ++ + +PP++ Q +I  +++  +     L+  I   I   K+     R   + 
Sbjct: 354 MQITIPIPPLEIQQEIVKILDQFSLLTTDLLAGIPAEIKARKKQYEYYREKLLT 407


>gi|282877247|ref|ZP_06286081.1| type I restriction modification DNA specificity domain protein
           [Prevotella buccalis ATCC 35310]
 gi|281300633|gb|EFA92968.1| type I restriction modification DNA specificity domain protein
           [Prevotella buccalis ATCC 35310]
          Length = 242

 Score = 68.7 bits (166), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 30/210 (14%), Positives = 67/210 (31%), Gaps = 6/210 (2%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            IP+ W+   ++       GR  +  + +     + +  G   +          + S   
Sbjct: 14  EIPQGWEWCRMQDVITFVNGRAYKKEELLSRGKYKVLRVGNF-FTNNQWYYSDLELSEDK 72

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
               G +LY          I      I       ++    +      +   +    ++ A
Sbjct: 73  YCYHGDLLYAWS-ASFGPQIWNGDKTIFHYHIWNVKFDTKVLFREYLYYFFLFDKTQVRA 131

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK- 198
              G+TM H   + +    +PIPP+ EQ  I   +      ++     + R   L     
Sbjct: 132 STTGSTMVHVSMENMKPRLIPIPPIDEQKRIVCGVERVLPYVEKYELSQSRKDILDANIK 191

Query: 199 ---KQALVSYIVTKGLNPDVKMKDSGIEWV 225
              K++++   +   L P +  + +  E +
Sbjct: 192 ESLKKSILQEAIQGKLVPQIVREGTAHELL 221



 Score = 67.5 bits (163), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 28/207 (13%), Positives = 63/207 (30%), Gaps = 11/207 (5%)

Query: 218 KDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKP 277
           K    E    +P  WE      ++T +N +  K  E           +    T N     
Sbjct: 5   KCIDDEVPFEIPQGWEWCRMQDVITFVNGRAYKKEELLSRGKYKVLRVGNFFTNNQWYYS 64

Query: 278 E-SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWL 336
           +      +    G++++ +      +       +    I            +      + 
Sbjct: 65  DLELSEDKYCYHGDLLYAWSASFGPQIWNGDKTIFHYHIWN----VKFDTKVLFREYLYY 120

Query: 337 MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
              +D  +V  +        +  E++K   + +PPI EQ  I   +      ++   E  
Sbjct: 121 FFLFDKTQVRASTTGSTMVHVSMENMKPRLIPIPPIDEQKRIVCGVERVLPYVEKY-ELS 179

Query: 397 EQSIVLL-----KERRSSFIAAAVTGQ 418
           +    +L     +  + S +  A+ G+
Sbjct: 180 QSRKDILDANIKESLKKSILQEAIQGK 206


>gi|163798236|ref|ZP_02192168.1| putative Type I restriction enzyme MjaXP specificity protein [alpha
           proteobacterium BAL199]
 gi|159176484|gb|EDP61067.1| putative Type I restriction enzyme MjaXP specificity protein [alpha
           proteobacterium BAL199]
          Length = 310

 Score = 68.7 bits (166), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 50/326 (15%), Positives = 106/326 (32%), Gaps = 28/326 (8%)

Query: 106 ICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLA 165
             + Q   +       +    + L       I+ +     +   +     ++  P PPL 
Sbjct: 2   ATNQQINAVICDPRKADSAFVYYLLDMRAVAIKRLAGAQAVPIVNKSTFEDVTAPFPPLP 61

Query: 166 EQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWV 225
           EQ  I E +       D  I +     +   +++  + S++             +G   +
Sbjct: 62  EQRKIAEIL----RTWDEAIEKLEALRKANLQRRIWMRSHLF------------TGRTRL 105

Query: 226 GLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI 285
                 W       ++TE   + T   E   +S+  G +I ++E             Y  
Sbjct: 106 PGYRGEWREVTLGEVLTEHGLQGTGAEEVFSVSVHKG-LINQIEHLGRSFAAAETGHYNR 164

Query: 286 VDPGEIVFRFIDLQNDKRSLRS-AQVMERGIITSAYMAVKP-HGIDSTYLAWLMRSYD-L 342
           V PG+IV+      +    +   +++ ++ I++  Y    P        L  L  S   +
Sbjct: 165 VLPGDIVYTKSPTGDFPLGIIKQSKISQQVIVSPLYGVFTPATQALGVILDALFESPIAV 224

Query: 343 CKVFYAMGSGLRQS---LKFEDVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQ 398
               + +     ++   +         + +P    EQ  I  V+ V  A +      IE 
Sbjct: 225 RNYLHPLVQKGAKNTIAITNRRFLEGKLHLPMEPAEQAAIAEVVEVSQAEL----TAIEA 280

Query: 399 SIVLLKERRSSFIAAAVTGQIDLRGE 424
            I  L  ++   +   +TG+  +  E
Sbjct: 281 EIEALTRQKRGLMQKLLTGEWRVTPE 306


>gi|55821636|ref|YP_140078.1| type I restriction-modification system specificty subunit,
           truncated [Streptococcus thermophilus LMG 18311]
 gi|55737621|gb|AAV61263.1| type I restriction-modification system specificty subunit,
           truncated [Streptococcus thermophilus LMG 18311]
          Length = 101

 Score = 68.7 bits (166), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 21/104 (20%), Positives = 47/104 (45%), Gaps = 7/104 (6%)

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
           + E   + +  MA++P GID  Y    +    L K+     +     +  + ++   +L+
Sbjct: 2   LGEDSYMDTNMMALEPKGIDPEYRYTFINKTGLYKIED---TSTIPQINNKHIEPYLLLI 58

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           P ++EQ  I +       ++D  +   ++ + LLKE++  F+  
Sbjct: 59  PSLEEQHKIGSF----FKQLDETIALHQRKLDLLKEQKKGFLQK 98


>gi|296448297|ref|ZP_06890190.1| restriction modification system DNA specificity domain
           [Methylosinus trichosporium OB3b]
 gi|296254212|gb|EFH01346.1| restriction modification system DNA specificity domain
           [Methylosinus trichosporium OB3b]
          Length = 393

 Score = 68.7 bits (166), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 22/108 (20%), Positives = 44/108 (40%), Gaps = 7/108 (6%)

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDV 362
           R +      +  +   A++      +D  +L  ++ +YDL           R  L  +D 
Sbjct: 76  RGVAYRIEGKSWVNNHAHVLRPKPFMDIRFLCRVLENYDLRPFI---TGSTRAKLTKKDA 132

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
           +R+ + VPP+ EQ  I  +++      D L  K  ++I  L +  +  
Sbjct: 133 ERIVIPVPPLDEQRRIAAILDQA----DDLRRKRREAIAKLAKLSTGL 176



 Score = 50.6 bits (119), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 43/313 (13%), Positives = 86/313 (27%), Gaps = 19/313 (6%)

Query: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLG-----PYLRKAIIADFDGICSTQFLVLQ 115
           G Y     N  Q       IF +  +L  + G     P    A   +     +    VL+
Sbjct: 38  GPYPYYGANGLQGWIDG-FIFDEPLLLLAEDGGHFDDPDRGVAYRIEGKSWVNNHAHVLR 96

Query: 116 PKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKII 175
           PK  +       +L       +     G+T +    K    I +P+PPL EQ  I   + 
Sbjct: 97  PKPFMDIRFLCRVLENY---DLRPFITGSTRAKLTKKDAERIVIPVPPLDEQRRIAAILD 153

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVK 235
                         +  +L            V     P +    S I  +G +       
Sbjct: 154 QADDLRRKRREAIAKLAKLSTGL-------FVELFGTPWISSASSSISDLGSISVFENGD 206

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRF 295
                 +  +  ++ +   +  ++    +           K  S  +     P +++   
Sbjct: 207 RSSNYPSGDDILSSGIPFLSTKNIVDDKLDLGSLLFISSSKFASL-SRGKARPHDLIITL 265

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-R 354
                    +         I     +      I   +L   +    + +    +G+G   
Sbjct: 266 RGTLGS-CCIFDGPFSTAFINAQMMIIRPKTDISPVFLHAYLTLPAIKEHLQQIGNGAAV 324

Query: 355 QSLKFEDVKRLPV 367
             L  + +  LP+
Sbjct: 325 PQLTAKQLAGLPI 337


>gi|257091255|ref|ZP_05585616.1| type I restriction-modification system specificity subunit
           [Enterococcus faecalis CH188]
 gi|312905314|ref|ZP_07764429.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX0635]
 gi|257000067|gb|EEU86587.1| type I restriction-modification system specificity subunit
           [Enterococcus faecalis CH188]
 gi|310631338|gb|EFQ14621.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX0635]
 gi|315162493|gb|EFU06510.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX0645]
 gi|315578593|gb|EFU90784.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX0630]
          Length = 380

 Score = 68.7 bits (166), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 54/396 (13%), Positives = 121/396 (30%), Gaps = 37/396 (9%)

Query: 25  WKVVPIKRFTKLNTGRTS-----ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           W+   +     +   +           DI +  +    +    ++ ++            
Sbjct: 10  WEQCKLGDLGSVAMNKRIFKEQTSESGDIPFYKIGTFGATADAFISRELFET--YKKKYP 67

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
               G +L    G   R       D       +V    D     L        V      
Sbjct: 68  YPKIGDLLISASGSIGRVVEYKGNDEYFQDSNIVWLKHDDRINNLFLKQFYSIVKWHGL- 126

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
             EG+T+     K I    + +P   EQ    EKI     ++D +IT   R +E LKE K
Sbjct: 127 --EGSTIKRLYNKNILETTIHLPVFDEQ----EKIGTLFKQLDDIITLHQRKLEQLKELK 180

Query: 200 QALVSYIVTK---GLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
           +A +  +        N   K++ +  E    +           ++ +  +   K+     
Sbjct: 181 KAYLQAMFVPTNVQNNKVPKLRFANFEGNWEL------CKLENVIDKQIKGKVKVENLCN 234

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
            S+ Y +       R  G KP   +    V   +I+  +   +  K          +G++
Sbjct: 235 GSVEYLDA-----NRLNGGKPIYTKALPDVSERDIIILWDGSKAGKVY-----YGFKGVL 284

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
            S   A +     ++   +     +   ++    +     +        P+ +   +EQ 
Sbjct: 285 GSTLKAYQLKECANSQFIYQQLLDNQNNIYNNYRTPNIPHVVKNFSSIFPIWMTSFEEQS 344

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
            + +++    + +D  +   +     +   + S++ 
Sbjct: 345 QMADIL----SNLDNRIILQQNLTDTMISLKKSYLQ 376



 Score = 66.4 bits (160), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 18/168 (10%), Positives = 50/168 (29%), Gaps = 11/168 (6%)

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET-YQIVDPGEIVFRFIDLQNDKRSL 305
           K       +I     G      +        E+Y+  Y     G+++             
Sbjct: 29  KEQTSESGDIPFYKIGTFGATADAFISRELFETYKKKYPYPKIGDLLISASGSIGRVV-- 86

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRL 365
                        + +       D       ++ +     ++ +     + L  +++   
Sbjct: 87  --EYKGNDEYFQDSNIVWLK--HDDRINNLFLKQFYSIVKWHGLEGSTIKRLYNKNILET 142

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            + +P   EQ  I         ++D ++   ++ +  LKE + +++ A
Sbjct: 143 TIHLPVFDEQEKIG----TLFKQLDDIITLHQRKLEQLKELKKAYLQA 186



 Score = 38.6 bits (88), Expect = 1.9,   Method: Composition-based stats.
 Identities = 26/183 (14%), Positives = 58/183 (31%), Gaps = 15/183 (8%)

Query: 24  HWKVVPIKRFTKL-NTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI-- 80
           +W++  ++        G+          + +E++ +G+ +YL  +  +      T ++  
Sbjct: 209 NWELCKLENVIDKQIKGK----------VKVENLCNGSVEYLDANRLNGGKPIYTKALPD 258

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
            ++  I+    G    K     F G+  +     Q K+        +   +D    I   
Sbjct: 259 VSERDIIILWDGSKAGKVYY-GFKGVLGSTLKAYQLKECANS-QFIYQQLLDNQNNIYNN 316

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
                + H         P+ +    EQ  + + +     RI          I L K   Q
Sbjct: 317 YRTPNIPHVVKNFSSIFPIWMTSFEEQSQMADILSNLDNRIILQQNLTDTMISLKKSYLQ 376

Query: 201 ALV 203
            + 
Sbjct: 377 NMF 379


>gi|257467223|ref|ZP_05631534.1| type I restriction system specificity protein [Fusobacterium
           gonidiaformans ATCC 25563]
          Length = 183

 Score = 68.7 bits (166), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 32/168 (19%), Positives = 71/168 (42%), Gaps = 6/168 (3%)

Query: 245 NRKNTKLIESNILSLSYGNIIQKLETR----NMGLKPESYETYQIVDPGEIVFRFIDLQN 300
             K        +L++ YG+I  K         + +  E+ +  + V  G +V        
Sbjct: 1   MPKTMFDNHGEVLAIHYGHIYTKYNIFVKEPIVKVSMENAKNLKKVKKGNLVIAKTSENL 60

Query: 301 DKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR-SYDLCKVFYAMGSGLRQ-SLK 358
           D      A + E  ++T  + A+  HG +  YL+++   +    K    +  G++   L 
Sbjct: 61  DDVMKTVAYLGEDEVVTGGHSAIFRHGANPKYLSYVFNGADYFIKQKNKLAHGVKVIELS 120

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
             D+++  +L+PPI  Q  I ++++      + L + + + I L +++
Sbjct: 121 TTDMEKFQILIPPIHIQEYIVSILDKFDMLTNDLTQGLPREIELRQKQ 168



 Score = 44.0 bits (102), Expect = 0.049,   Method: Composition-based stats.
 Identities = 17/174 (9%), Positives = 54/174 (31%), Gaps = 6/174 (3%)

Query: 42  SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT-STVSIFAKGQILYGKL----GPYLR 96
            ++  +++ I    + +    ++ +       +    +    KG ++  K        ++
Sbjct: 6   FDNHGEVLAIHYGHIYTKYNIFVKEPIVKVSMENAKNLKKVKKGNLVIAKTSENLDDVMK 65

Query: 97  KAIIADFDGICSTQFLVLQPKDVLPEL-LQGWLLSIDVTQRIEAICEGATMSHADWKGIG 155
                  D + +     +      P+     +  +    ++   +  G  +       + 
Sbjct: 66  TVAYLGEDEVVTGGHSAIFRHGANPKYLSYVFNGADYFIKQKNKLAHGVKVIELSTTDME 125

Query: 156 NIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTK 209
              + IPP+  Q  I   +    +  + L     R IEL +++ +     +   
Sbjct: 126 KFQILIPPIHIQEYIVSILDKFDMLTNDLTQGLPREIELRQKQYEYYREKLFDF 179


>gi|255690850|ref|ZP_05414525.1| type I restriction-modification system, S subunit [Bacteroides
           finegoldii DSM 17565]
 gi|260623482|gb|EEX46353.1| type I restriction-modification system, S subunit [Bacteroides
           finegoldii DSM 17565]
          Length = 331

 Score = 68.7 bits (166), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 30/209 (14%), Positives = 74/209 (35%), Gaps = 13/209 (6%)

Query: 218 KDSGIEWVGLVPDHWEVKPFFALVTELNRKN--TKLIESNILSLSYGNIIQKLETRNMGL 275
           K    E    +P  WE      ++  L+ ++   +   S+   + Y      +   N+ +
Sbjct: 77  KCIDEESPFEIPKGWEWSKLSNVIELLSGQDFIPEKYNSSNQGIPYITGASNIVNGNLAI 136

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
              +     I   G+++         K  + +       I  +  + +  +  ++  L++
Sbjct: 137 NRWTETPTVIGKLGDLLIVCKGSGVGKMCICNVDK----IHIARQIQIIRNFSNAISLSY 192

Query: 336 LMRSYDLCKV-FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
           +    +       +   G+   +  E +  L + +PP  EQ++I   +      ID    
Sbjct: 193 VKSVVEANLQTIISNAQGVIPGISREHILNLLIPLPPTNEQYEIDKKLQEILPFIDRY-A 251

Query: 395 KIEQSIVLLK-----ERRSSFIAAAVTGQ 418
           K ++++  L        + S +  AV G+
Sbjct: 252 KSQEALDKLNVELLGNLKKSILQEAVQGR 280



 Score = 54.0 bits (128), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 33/196 (16%), Positives = 65/196 (33%), Gaps = 4/196 (2%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            IPK W+   +    +L +G+     K           +G    +  +    +   +   
Sbjct: 86  EIPKGWEWSKLSNVIELLSGQDFIPEKYNSSNQGIPYITGASNIVNGNLAINRWTETPTV 145

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           I   G +L    G  + K  I + D I   + + +         L      ++   +   
Sbjct: 146 IGKLGDLLIVCKGSGVGKMCICNVDKIHIARQIQIIRNFSNAISLSYVKSVVEANLQTII 205

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE-- 197
                 +     + I N+ +P+PP  EQ  I +K+      ID     +    +L  E  
Sbjct: 206 SNAQGVIPGISREHILNLLIPLPPTNEQYEIDKKLQEILPFIDRYAKSQEALDKLNVELL 265

Query: 198 --KKQALVSYIVTKGL 211
              K++++   V   L
Sbjct: 266 GNLKKSILQEAVQGRL 281


>gi|198277089|ref|ZP_03209620.1| hypothetical protein BACPLE_03297 [Bacteroides plebeius DSM 17135]
 gi|198269587|gb|EDY93857.1| hypothetical protein BACPLE_03297 [Bacteroides plebeius DSM 17135]
          Length = 157

 Score = 68.7 bits (166), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 21/155 (13%), Positives = 49/155 (31%), Gaps = 8/155 (5%)

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIV---DPGEIVFR 294
           +   +   R N       IL L  G +   +         +       +     G+++  
Sbjct: 7   WGAGSTPQRGNVNYYNGKILWLKTGELNNGIVYDTEEKITQKAFQDCSLRMNKIGDVLIA 66

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR 354
                  K ++    V +      A     P+ I + Y+ + + +            G +
Sbjct: 67  MYGATIGKLAI----VGKELTTNQACCGCTPYLIYNWYIFYFLMASR-DSFIKKGEGGAQ 121

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
            ++    +    + +PP+KEQ+ I   I     ++
Sbjct: 122 PNISRVKLVEHLIPLPPLKEQYRIVAQIEKLFEQL 156



 Score = 55.6 bits (132), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/146 (13%), Positives = 45/146 (30%), Gaps = 2/146 (1%)

Query: 37  NTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLR 96
             G  +     I+++   ++ +G      +    +     ++ +   G +L    G  + 
Sbjct: 14  QRGNVNYYNGKILWLKTGELNNGIVYDTEEKITQKAFQDCSLRMNKIGDVLIAMYGATIG 73

Query: 97  KAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGN 156
           K  I   +   +       P  +       +   +          EG    +     +  
Sbjct: 74  KLAIVGKELTTNQACCGCTPYLIYN--WYIFYFLMASRDSFIKKGEGGAQPNISRVKLVE 131

Query: 157 IPMPIPPLAEQVLIREKIIAETVRID 182
             +P+PPL EQ  I  +I     ++ 
Sbjct: 132 HLIPLPPLKEQYRIVAQIEKLFEQLR 157


>gi|328676720|gb|AEB27590.1| Type I restriction-modification system, specificity subunit S
           [Francisella cf. novicida Fx1]
          Length = 384

 Score = 68.3 bits (165), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 49/396 (12%), Positives = 125/396 (31%), Gaps = 33/396 (8%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTG--KYLPKDGNSRQSDTSTVSIFAKGQ 85
             +  + +    R +++     ++ +E++       +++P   N   +D S   +  K Q
Sbjct: 6   KKLGSYIQQVKKRNADN-----FLTVENLRGININKEFMPSVANVTGTDLSKYKVVEKNQ 60

Query: 86  ILYGKL-----GPYLRKAIIADFDGICSTQFLVLQP---KDVLPELLQGWLLSIDVTQRI 137
             Y  +     G      +  +   I S  +++ +    + +LPE L  W    +  +  
Sbjct: 61  FAYNPMHVGRDGVLPISMLELEQKVIVSPAYVIFEIVDKQILLPEYLMMWFRRSEFDRNA 120

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
               + +     +W     + +PIP + +Q  I      E   I   I    +  + L+E
Sbjct: 121 WFTTDSSVRGGFNWDDFCELELPIPSIEKQREIVA----EYYAITNRIKLNEQLNQKLEE 176

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
             QA+          PD   K     +     +    +     + +     +      +L
Sbjct: 177 TAQAIYKEWFVDFEFPDEDGKP----YKSNGGEMVWCEELEKEIPKGWGVVSLDE---VL 229

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
           ++ YG   + LE  N+ L         +    + ++    +   ++   +  +       
Sbjct: 230 TIRYGKDYKNLENGNIPLYGSGGIMGYV---NDYLYSGKAILIPRKGSLNNIIYLNQSFW 286

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFD 377
           +           S+Y  +L         +         S+  + +  L +L P       
Sbjct: 287 TVDTMFYSIAKSSSYNQYLFHILKSMDFYSLNVGSAVPSMTTKLLNSLRILKPK----DT 342

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           + +              +  + I +L+  + + ++ 
Sbjct: 343 VLDKFEKNITTFFDYKNEKVKEINILELLKETLLSK 378



 Score = 46.3 bits (108), Expect = 0.008,   Method: Composition-based stats.
 Identities = 19/116 (16%), Positives = 35/116 (30%), Gaps = 14/116 (12%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            IPK W VV +     +  G+  +           ++E+G        G+          
Sbjct: 215 EIPKGWGVVSLDEVLTIRYGKDYK-----------NLENGNIPL---YGSGGIMGYVNDY 260

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
           +++   IL  + G       +        T F  +       + L   L S+D   
Sbjct: 261 LYSGKAILIPRKGSLNNIIYLNQSFWTVDTMFYSIAKSSSYNQYLFHILKSMDFYS 316


>gi|325973650|ref|YP_004250714.1| type I restriction-modification system specificity subunit
           [Mycoplasma suis str. Illinois]
 gi|323652252|gb|ADX98334.1| type I restriction-modification system specificity subunit
           [Mycoplasma suis str. Illinois]
          Length = 254

 Score = 68.3 bits (165), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 15/150 (10%), Positives = 47/150 (31%), Gaps = 8/150 (5%)

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
           N   ++ + +     +     ++     +        +   ++          +      
Sbjct: 47  NSNLRILSCDRHYNSKGLSQSKLFPKNTVCIVEGGNSSTDTAILKYSSCLSADLHG--FN 104

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
                 D  ++ +      + +    +   +  +  L    +  +    PP +EQ  I +
Sbjct: 105 SFEGISDPRFIKYCFDYPKMKEKLMKLAKSTTAQPHLTLSRLLSVKFPCPPQEEQERIGD 164

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSF 410
            ++      D L+E  E+ I +L+  R++ 
Sbjct: 165 TLSA----YDELIENNEKQIGVLQAIRTAI 190


>gi|55823564|ref|YP_142005.1| type I restriction-modification system specificty subunit,
           truncated [Streptococcus thermophilus CNRZ1066]
 gi|55739549|gb|AAV63190.1| type I restriction-modification system specificty subunit,
           truncated [Streptococcus thermophilus CNRZ1066]
          Length = 107

 Score = 68.3 bits (165), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 21/104 (20%), Positives = 47/104 (45%), Gaps = 7/104 (6%)

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
           + E   + +  MA++P GID  Y    +    L K+     +     +  + ++   +L+
Sbjct: 2   LGEDSYMDTNMMALEPKGIDPEYSYTFINKTGLYKIAD---TSTIPQINNKHIEPYLLLI 58

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           P ++EQ  I +       ++D  +   ++ + LLKE++  F+  
Sbjct: 59  PSLEEQHKIGSF----FKQLDETIALHQRKLDLLKEQKKGFLQK 98


>gi|302062748|ref|ZP_07254289.1| restriction modification system DNA specificity subunit
           [Pseudomonas syringae pv. tomato K40]
          Length = 148

 Score = 68.3 bits (165), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 20/149 (13%), Positives = 48/149 (32%), Gaps = 10/149 (6%)

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
           +  R   +   +  T  +    +I+     ++           +    +    MA++   
Sbjct: 1   INQRLPNVTKWTKRTANVSKAEDILIT---VKGSGVGEIWYSTLPEIAMGRQLMAIRSKS 57

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
             S ++   +++      F  +GSG +   L    +  L    P + EQ  I + +    
Sbjct: 58  GASRFMFQFLQTK--KNHFKDLGSGNMIPGLSRAVILELEASFPNLPEQQRIADCL---- 111

Query: 387 ARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
             +D L+    Q    L+  +   +    
Sbjct: 112 TSLDDLIAAQTQKHEALETYKMGLMQQLF 140


>gi|148544648|ref|YP_001272018.1| restriction modification system DNA specificity subunit
           [Lactobacillus reuteri DSM 20016]
 gi|148531682|gb|ABQ83681.1| restriction modification system DNA specificity domain
           [Lactobacillus reuteri DSM 20016]
          Length = 340

 Score = 68.3 bits (165), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 59/387 (15%), Positives = 124/387 (32%), Gaps = 49/387 (12%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
            +K       G ++   KD+         + +G+Y P  G +          + +  +  
Sbjct: 2   KLKDVC--IKGTSNIRQKDV---------NDSGRY-PVYGAAGPVGFMNSFQYDEPYVGV 49

Query: 89  GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSH 148
            K G  + +A     +         L PK  +      + +S      +E    GAT+ H
Sbjct: 50  VKDGAGIGRATYLPSNSSIIGTMQALIPKKNVLPKYLYYAVSS---MHLEKYYSGATIPH 106

Query: 149 ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVT 208
             +K   +    +    EQ      II     ++ +I+ + + +  L E  +A     V 
Sbjct: 107 IYFKNYKHERFVLVSKKEQEQ----IIWRFSLLEKMISNKQQQLLKLDELIKA---RFVE 159

Query: 209 KGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKL 268
              +P +  K+   + +G +             T   + +      N      GN I+  
Sbjct: 160 MFGDPIINNKNIKKKKLGDI-----CLLKAGDFTPSKKISPVKTSINKYPCFGGNGIRGY 214

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
                     S    Q    G + F     +N + ++  +  +E               I
Sbjct: 215 VDNYTHQGNYSLIGRQGALCGNVKFATGKFRNTEHAILVSPNIE---------------I 259

Query: 329 DSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
           +S +L  L+    L K+        +  L  + +  + V V  +  Q +  N +     +
Sbjct: 260 NSRWLFELLN---LEKLNRFRSGAAQPGLAVKTLNEIIVPVADLNSQNEYANFV----QQ 312

Query: 389 IDVLVEKIEQSIVLLKERRSSFIAAAV 415
           +D     I++S+   ++   S +    
Sbjct: 313 VDKSKVVIQKSLDETQKLYDSLMQEYF 339


>gi|87300612|ref|ZP_01083454.1| type I restriction system specificity protein [Synechococcus sp. WH
           5701]
 gi|87284483|gb|EAQ76435.1| type I restriction system specificity protein [Synechococcus sp. WH
           5701]
          Length = 351

 Score = 68.3 bits (165), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 45/343 (13%), Positives = 100/343 (29%), Gaps = 35/343 (10%)

Query: 106 ICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLA 165
             S  F+       +      ++L  +          G T     +       + +PPL 
Sbjct: 2   ATSQDFVNWVCGPNIDPHFLKYVLLAENEALWR-FASGTTHQTIYYPEAKAFHVCLPPLP 60

Query: 166 EQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYI--VTKGLN----------- 212
           EQ  I   + A   +I+          ++ +   Q+       V   L+           
Sbjct: 61  EQKAIAAVLGALDDKIELNRRMNATLEKMARALFQSWFVDFDPVRAKLDGQQPVGLDMST 120

Query: 213 PDVKMKDSGIEWVGLVPDHWEVKPFFALV----------TELNRKNTKLIESNILSLSYG 262
             +  +      +G  P  WEV    +++            ++   + +      S+   
Sbjct: 121 AALFPEHLEDSPLGKKPKGWEVTTLESVLAVLETGGRPKGGVSGITSGVPSIGAESIVSV 180

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID-----LQNDKRSLRSAQVMERGIIT 317
            +    +T+ + ++         ++  +++           +            E   I 
Sbjct: 181 GVFDFGKTKFVPVEFYEGMKRGHIESHDVLLYKDGGRPGEFEPHVSMFGDGFPFEECSIN 240

Query: 318 SAYMAVKPHGIDS-TYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQ 375
                ++ +G+ S  YL + M S          G+G     L    V+ L VLVPP    
Sbjct: 241 EHVYRLRSNGLLSQEYLYFWMSSEFALAEMRIKGTGVAIPGLNSTAVRSLGVLVPPKPVM 300

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
                    + A +   +    +    L   R + +   ++G+
Sbjct: 301 EAF----TKQVAPLVTQILSNAKQSRTLAILRDTLLPKLLSGE 339



 Score = 39.8 bits (91), Expect = 0.87,   Method: Composition-based stats.
 Identities = 27/205 (13%), Positives = 60/205 (29%), Gaps = 18/205 (8%)

Query: 18  IGAIPKHWKVVPIKRF-TKLNTGRTSESG-----KDIIYIGLEDVESGTGKYLPKDGNSR 71
           +G  PK W+V  ++     L TG   + G       +  IG E + S       K     
Sbjct: 133 LGKKPKGWEVTTLESVLAVLETGGRPKGGVSGITSGVPSIGAESIVSVGVFDFGKTKFVP 192

Query: 72  QSDTSTVSI--FAKGQILYGKLGPYLRKA---------IIADFDGICSTQFLVLQPKDVL 120
                 +         +L  K G    +               +   +     L+   +L
Sbjct: 193 VEFYEGMKRGHIESHDVLLYKDGGRPGEFEPHVSMFGDGFPFEECSINEHVYRLRSNGLL 252

Query: 121 PELLQGWLLSIDV-TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
            +    + +S +     +     G  +   +   + ++ + +PP        +++     
Sbjct: 253 SQEYLYFWMSSEFALAEMRIKGTGVAIPGLNSTAVRSLGVLVPPKPVMEAFTKQVAPLVT 312

Query: 180 RIDTLITERIRFIELLKEKKQALVS 204
           +I +   +      L       L+S
Sbjct: 313 QILSNAKQSRTLAILRDTLLPKLLS 337


>gi|67920382|ref|ZP_00513902.1| Restriction modification system DNA specificity domain
           [Crocosphaera watsonii WH 8501]
 gi|67857866|gb|EAM53105.1| Restriction modification system DNA specificity domain
           [Crocosphaera watsonii WH 8501]
          Length = 193

 Score = 68.3 bits (165), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 33/192 (17%), Positives = 72/192 (37%), Gaps = 11/192 (5%)

Query: 217 MKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK 276
           M     EW+ L P     +         ++          LS+S  N  + +      + 
Sbjct: 1   MTLYNSEWI-LKPLSELCEIVIGRTPSRSKPEYWGKGYEWLSISDMNEKKYISVTKETIT 59

Query: 277 PE--SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
            E  S    +++    +VF F         L +       I+        P  + + YL 
Sbjct: 60  DEGASLCKDKLLSINTVVFSFKLSIGKVSILDAPMYTNEAIV--GLPIKDPSLLYTDYLY 117

Query: 335 WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
           +++++ D+         G   +L  + ++++ + +PP++EQ  I  +++    + D +  
Sbjct: 118 YVLKTLDVSSKTDRAVMGA--TLNKKKLEQIKIPLPPLEEQKRIAKILD----KADEIRH 171

Query: 395 KIEQSIVLLKER 406
           K ++SI L  E 
Sbjct: 172 KRKESIRLTDEL 183



 Score = 53.3 bits (126), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 23/164 (14%), Positives = 49/164 (29%), Gaps = 8/164 (4%)

Query: 23  KHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVES-GTGKYLPKDGNSRQSDT 75
             W + P+    ++  GRT         GK   ++ + D+          +      +  
Sbjct: 6   SEWILKPLSELCEIVIGRTPSRSKPEYWGKGYEWLSISDMNEKKYISVTKETITDEGASL 65

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
               + +   +++      + K  I D     +   + L  KD            +    
Sbjct: 66  CKDKLLSINTVVFS-FKLSIGKVSILDAPMYTNEAIVGLPIKDPSLLYTDYLYYVLKTLD 124

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
                      +  + K +  I +P+PPL EQ  I + +     
Sbjct: 125 VSSKTDRAVMGATLNKKKLEQIKIPLPPLEEQKRIAKILDKADE 168


>gi|88856339|ref|ZP_01130998.1| hypothetical protein A20C1_00325 [marine actinobacterium PHSC20C1]
 gi|88814423|gb|EAR24286.1| hypothetical protein A20C1_00325 [marine actinobacterium PHSC20C1]
          Length = 395

 Score = 68.3 bits (165), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 59/406 (14%), Positives = 118/406 (29%), Gaps = 38/406 (9%)

Query: 23  KHWKVVPIKRF-TKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           + W+V  +     ++N        + + Y G+       G YL +  +        ++  
Sbjct: 3   EGWRV--LGDVLAQVNRSVVVADVESVPYAGVRW--YAGGVYLREVADPEGVKAKQLARI 58

Query: 82  AKGQILYGKLGPYLRKAIIAD---FDGICSTQFLVLQPKDVLPELLQG--WLLSIDVTQR 136
            +G ++Y ++        IA       + +  F   +    L  +      L + D    
Sbjct: 59  REGDVIYNRMWATRASFGIARADVDGCLVTNDFPTFETNTDLALVDFIGLILQTKDFQAE 118

Query: 137 IEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
                 G T       K   +I   +P L EQ  I + + A    I           E  
Sbjct: 119 AALRASGTTERRRLKEKDFLSIETWLPSLPEQCRIVDLMGALDEAI-------AVADESH 171

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
           +    A ++ +         + + S +                      +R N       
Sbjct: 172 EAASFAYIAALQDFDGPRHPRREISEV------------LKKAKAGGTPSRLNLDNFGGA 219

Query: 256 ILSLSYGNIIQKLETRNMGLKPE---SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
           I  L  G +             E   S  +  I   G  V       + K +    +   
Sbjct: 220 IPWLKSGEVNNDNIHTADESLSEFGLSGSSAWIAPAGSTVVAMYGQGDTKGTAGFLRAPM 279

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI 372
                   +  +   I+   L   +RS        A+G   + +L    V    + VPP 
Sbjct: 280 SMNQAVIALVPETTLIEPRLLMHAIRSRTGSLRARAIG-AAQPNLSKSIVLSEAIAVPPR 338

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            +Q  I + ++       +L          L+  R++ + A ++G+
Sbjct: 339 DDQASIADYLDAFL----LLCSDAGSYASALRCLRTNLLTALLSGE 380


>gi|294788778|ref|ZP_06754019.1| type I restriction/modification specificity protein [Simonsiella
           muelleri ATCC 29453]
 gi|294483260|gb|EFG30946.1| type I restriction/modification specificity protein [Simonsiella
           muelleri ATCC 29453]
          Length = 466

 Score = 68.3 bits (165), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 22/159 (13%), Positives = 53/159 (33%), Gaps = 3/159 (1%)

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
                    I+ L+ GN I      +     E    +     G+I+   +        + 
Sbjct: 30  GIPFFRSKEIIELNSGNEITTELFISKERFLEIKNKFGTPSYGDILLTSVGTLGVPYFVN 89

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRL 365
             +          +     + + S YL +   S    K    +     + +L    +K L
Sbjct: 90  YKEEFYFKDGNLTWFRKFNNILRSKYLYYWFSSPVGRKALKEITIGSTQPALTITGLKSL 149

Query: 366 PVLVPPIKEQFDITNVINVETARI--DVLVEKIEQSIVL 402
            + +P ++EQ  I  +++  +++I  +  + +  + I  
Sbjct: 150 TIHLPTLEEQDYIIEILDHLSSKIHLNTQINQTLEQIAQ 188



 Score = 66.4 bits (160), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 54/419 (12%), Positives = 120/419 (28%), Gaps = 74/419 (17%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDV---ESGTGKYLPKDGNSRQSDT 75
            +WK   +    ++ + +     +     I +   +++    SG         +  +   
Sbjct: 2   SNWKEYKLGELVEITSSKRIMRSEYQEDGIPFFRSKEIIELNSGNEITTELFISKERFLE 61

Query: 76  STVSIFAK--GQILYGKLGPYLRKAII-ADFDGICSTQFLVLQPKDVL---PELLQGWLL 129
                     G IL   +G       +    +       L    K       + L  W  
Sbjct: 62  IKNKFGTPSYGDILLTSVGTLGVPYFVNYKEEFYFKDGNLTWFRKFNNILRSKYLYYWFS 121

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
           S    + ++ I  G+T       G+ ++ + +P L EQ  I E +   + +I        
Sbjct: 122 SPVGRKALKEITIGSTQPALTITGLKSLTIHLPTLEEQDYIIEILDHLSSKIHLNTQINQ 181

Query: 190 RFIELLKEKKQALVSYI-------------------------VTKGLNPDVKMKDSG--- 221
              ++ +   ++                              V  G  P+     S    
Sbjct: 182 TLEQIAQAMFKSWFVDFDPVHAKVQALSNGLSLEQAELAAMQVISGKTPEELTALSQTQP 241

Query: 222 -----------------IEWVG-LVPDHWEVKPFFALVTELNR---KNTKLIESNILSLS 260
                            +E  G  VP  W+      +    N    K+++  +S I  + 
Sbjct: 242 DRYAELAETAKAFPCEMVEVDGIEVPKGWKQTALSEICEMQNGYAFKSSEWTDSGIPVIK 301

Query: 261 YGNIIQKL----ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
            G+I  K+        +     S  +  +++ G+IV         K     A   +R ++
Sbjct: 302 IGSIQSKILTVEGNGFVSEDNLSLRSNFVLNDGDIVIGLTGAYVGKVGRMPAN--KRAML 359

Query: 317 TSAYMAVKPHGID-STYLAWLMRSYDLCKVFYAM-----GSGLRQSLKFEDVKRLPVLV 369
                      I+ S      +    + + F            + ++  +D+ + P+L+
Sbjct: 360 NQRVAKFLAKQINESETFYSFIYMNVIQEEFKNFVDFTAQGSAQPNISTKDILKYPLLL 418



 Score = 62.5 bits (150), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 21/173 (12%), Positives = 54/173 (31%), Gaps = 12/173 (6%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSR-QSD 74
            +PK WK   +    ++  G   +S +     I  I +  ++S           S     
Sbjct: 265 EVPKGWKQTALSEICEMQNGYAFKSSEWTDSGIPVIKIGSIQSKILTVEGNGFVSEDNLS 324

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIA--DFDGICSTQFLVLQPKDVL-----PELLQGW 127
             +  +   G I+ G  G Y+ K      +   + + +      K +         +   
Sbjct: 325 LRSNFVLNDGDIVIGLTGAYVGKVGRMPANKRAMLNQRVAKFLAKQINESETFYSFIYMN 384

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
           ++  +    ++   +G+   +   K I   P+ +      +   + +     +
Sbjct: 385 VIQEEFKNFVDFTAQGSAQPNISTKDILKYPLLLANNDVHLAFEKLLNKILDK 437


>gi|282878879|ref|ZP_06287644.1| conserved hypothetical protein [Prevotella buccalis ATCC 35310]
 gi|281299001|gb|EFA91405.1| conserved hypothetical protein [Prevotella buccalis ATCC 35310]
          Length = 257

 Score = 68.3 bits (165), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 41/220 (18%), Positives = 71/220 (32%), Gaps = 22/220 (10%)

Query: 218 KDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKP 277
           K    E    +P  WE      L           +  ++        I+  E +N   K 
Sbjct: 5   KCIDDEVPFEIPQGWEWCRLNDLAMYRKGPFGSSLTKSMFVTKSTQSIKVYEQKNAIQKN 64

Query: 278 ESYETYQI------------VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
            +   Y I            V P +I+        +   L S   +  GII  A M V  
Sbjct: 65  HTLGDYYISPKKFETMQSFVVKPNDIIVSCAGTIGEIYLLPSDASI--GIINQALMRVSL 122

Query: 326 HGIDS-TYLAWLMRSYDLCKVFYAMGSGLRQSLK-FEDVKRLPVLVPPIKEQFDITNVIN 383
             ++   Y         L +          +++  FE +K + V +PP+ EQ  +    N
Sbjct: 123 FDLNMAEYWQIYFAYMLLNEAQMKGAGSAIKNIPPFEYLKAVLVPIPPLSEQNRLVERYN 182

Query: 384 VETARIDVLVEKIEQSIVLLKE-----RRSSFIAAAVTGQ 418
           +  + ID   E     +  L +      + S +  A+ G+
Sbjct: 183 IILSLIDKY-ELEANKLNRLNQNIYDKLKKSVLQEAIQGK 221



 Score = 62.1 bits (149), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 28/228 (12%), Positives = 72/228 (31%), Gaps = 17/228 (7%)

Query: 20  AIPKHWKVVPIKRFTKLNTGR----------TSESGKDIIYIGLEDVESGTGKYLPKDGN 69
            IP+ W+   +        G            ++S + I     ++             +
Sbjct: 14  EIPQGWEWCRLNDLAMYRKGPFGSSLTKSMFVTKSTQSIKVYEQKNAIQKNHTLGDYYIS 73

Query: 70  SRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADF--DGICSTQFLVLQPKDVLPELLQGW 127
            ++ +T    +     I+    G      ++      GI +   + +   D+        
Sbjct: 74  PKKFETMQSFVVKPNDIIVSCAGTIGEIYLLPSDASIGIINQALMRVSLFDLNMAEYWQI 133

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGI-GNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
             +  +    +    G+ + +         + +PIPPL+EQ  + E+       ID    
Sbjct: 134 YFAYMLLNEAQMKGAGSAIKNIPPFEYLKAVLVPIPPLSEQNRLVERYNIILSLIDKYEL 193

Query: 187 ERIRFIELLKEKK----QALVSYIVTKGLNPDVKMKDSGIEWVGLVPD 230
           E  +   L +       ++++   +   L P +  + +  E +  + +
Sbjct: 194 EANKLNRLNQNIYDKLKKSVLQEAIQGKLVPQIDSEGTAQELLEQIKE 241


>gi|307256318|ref|ZP_07538101.1| Type i restriction enzyme EcoR124II specificity protein
           [Actinobacillus pleuropneumoniae serovar 10 str. D13039]
 gi|306865144|gb|EFM97044.1| Type i restriction enzyme EcoR124II specificity protein
           [Actinobacillus pleuropneumoniae serovar 10 str. D13039]
          Length = 353

 Score = 68.3 bits (165), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 45/383 (11%), Positives = 103/383 (26%), Gaps = 38/383 (9%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNS 70
           KD  V+W            +     + T  T  +   +  +  E+               
Sbjct: 8   KDCKVEW----------KSLGEIL-IRTKGTKITAGQMKELHKENAPVKIFAGGRTVAFV 56

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
             +D     I  +  I+    G    +    D       +      K+    +   +   
Sbjct: 57  DFNDIPQKDINNEPSIIVKSRGII--EFEYYDKSFSHKNEMWSYHSKNENINIKFVYYFL 114

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
                  + I     M            +PIPPL  Q  I + +   T            
Sbjct: 115 KQNEPHFQNIGSKMQMPQIATPDTDKYKIPIPPLEIQEKIVKTLDIFTKL--------EA 166

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
            + L  ++     + ++T G +         +EW  L      +              + 
Sbjct: 167 ELSLRVKQYDYYRNELLTFGDD---------VEWKTLGDVAMIIDSLHQTPKYTEYGKSM 217

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
                +  +  G +      +        +         +IV   +    +   +     
Sbjct: 218 ---VRVTDIKGGVLNLLNTLKVDDETFAIFTKKYTPQKEDIVMSRVGSYGNVSLVPET-- 272

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM-GSGLRQSLKFEDVKRLPVLV 369
               +       V    I++ YL  ++ S  +        G G +++L  + +K++PV +
Sbjct: 273 --GSVCMGQNTVVINPFINNKYLYHILTSNFVKDFIEKNIGGGNQKTLSLKAIKQIPVPI 330

Query: 370 PPIKEQFDITNVINVETARIDVL 392
                Q  I ++++      + +
Sbjct: 331 VNDCLQQKIVDILDKFDRLTNSI 353


>gi|295110202|emb|CBL24155.1| Restriction endonuclease S subunits [Ruminococcus obeum A2-162]
          Length = 354

 Score = 67.9 bits (164), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 55/365 (15%), Positives = 113/365 (30%), Gaps = 29/365 (7%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
            ++       G +S        +   DV   TG+Y          +           I  
Sbjct: 4   KLEDVC--VRGSSS--------LKQSDVIDKTGEYPIYGAAGYIGNVDFYHQDQP-YIAV 52

Query: 89  GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSH 148
            K G  + +  +             L PK+ +      +++       +E    GAT+ H
Sbjct: 53  VKDGAGIGRTSLYPAKSSVIGTMQYLLPKENVLPEYLCYVVK---YMHLEKYFTGATIPH 109

Query: 149 ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV- 207
             +K        +  L  Q  I   +     RI+ +I+ R + ++ L E  +A    +  
Sbjct: 110 IYFKDYKKEEFNLDILDRQKEIVNIL----GRIECVISSRQQELQKLDELIKARFVEMFG 165

Query: 208 TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK 267
              +NP    K    + V + P +   KP    VT+        I+       Y  ++  
Sbjct: 166 DPYVNPLKWKKLKIKDAVTIEPQNGLYKPQSDYVTDGTGIPILRIDGF-----YDGMVTD 220

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII---TSAYMAVK 324
             +       E+     ++   +IV   ++           + +    +       M   
Sbjct: 221 FASLKRLKCSETERQRYLLLEDDIVINRVNSIEYLGKCAHIKELLEDTVYESNMMRMHFD 280

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
           P   +  Y+  L+ S  +          S  + S+  +DV    +  PP+  Q +  + +
Sbjct: 281 PEYYNPVYICKLLCSQFIYDQIVNHAKKSVNQASINQKDVLDFNIYQPPLDLQNEFADFV 340

Query: 383 NVETA 387
           +    
Sbjct: 341 HQVNK 345



 Score = 41.7 bits (96), Expect = 0.23,   Method: Composition-based stats.
 Identities = 18/111 (16%), Positives = 41/111 (36%), Gaps = 7/111 (6%)

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLK 358
                   S    +  +I +    +    +   YL ++++   L K F          + 
Sbjct: 55  DGAGIGRTSLYPAKSSVIGTMQYLLPKENVLPEYLCYVVKYMHLEKYF---TGATIPHIY 111

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
           F+D K+    +  +  Q +I N++     RI+ ++   +Q +  L E   +
Sbjct: 112 FKDYKKEEFNLDILDRQKEIVNILG----RIECVISSRQQELQKLDELIKA 158


>gi|90961895|ref|YP_535811.1| Type I restriction-modification system specificity subunit
           [Lactobacillus salivarius UCC118]
 gi|90821089|gb|ABD99728.1| Type I restriction-modification system specificity subunit
           [Lactobacillus salivarius UCC118]
          Length = 384

 Score = 67.9 bits (164), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 51/383 (13%), Positives = 110/383 (28%), Gaps = 41/383 (10%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGK-----DIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
             W+   +     ++  +     +     +I +  +         ++ +           
Sbjct: 18  NDWERKKLGEIGSVSMNKRIFKDETSTIGEIPFYKIGTFGGKADAFITRKKYEEYKKKYP 77

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
                KG +L    G   R       +       +V          +    L        
Sbjct: 78  YP--QKGNLLISASGSIGRIIEYNGEEAYYQDSNIVW---LDHDNTILDVFLKPTYEIIK 132

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
               EG T+     K I N  +  P + EQ     KI    + ++  I    R  E L  
Sbjct: 133 WDGIEGTTIKRLYNKNILNTVIYKPTIDEQ----RKIGKLFIILNNTIQLHERKYEELTL 188

Query: 198 KKQALVSYIVT--KGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
            K+AL+  +     G  P+V+ K+    W        E +    ++   ++         
Sbjct: 189 IKKALLQKLFPKKDGFKPEVRYKNFNDAW--------EQRKLGEVIISEHKGK------V 234

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
              +  GN          G   +  +    V   +++  +           +      G 
Sbjct: 235 KSIMKGGNTNYLETNYLNGGTAQKVDAIADVSKDDVLILWDGS-----KAGTIYHGFEGA 289

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
           + S   A  P    S    + +   +  K++ +  +     +     ++  V +P I EQ
Sbjct: 290 LGSTLKAYVPKY--SGDFLYQILKKNQDKIYQSYRTPNIPHVIKNFTEKFNVSIPTIIEQ 347

Query: 376 FDITNVINVETARIDVLVEKIEQ 398
            +I +       ++D L+    +
Sbjct: 348 QEIGDF----FKQLDSLITLHRR 366



 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 19/170 (11%), Positives = 44/170 (25%), Gaps = 11/170 (6%)

Query: 247 KNTKLIESNILSLSYGNIIQKLE-TRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
           K+       I     G    K +         E  + Y     G ++             
Sbjct: 39  KDETSTIGEIPFYKIGTFGGKADAFITRKKYEEYKKKYPYPQKGNLLISASGSIGRII-- 96

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRL 365
                 E      + +       D+T L   ++       +  +     + L  +++   
Sbjct: 97  --EYNGEEAYYQDSNIVWL--DHDNTILDVFLKPTYEIIKWDGIEGTTIKRLYNKNILNT 152

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            +  P I EQ  I          ++  ++  E+    L   + + +    
Sbjct: 153 VIYKPTIDEQRKIG----KLFIILNNTIQLHERKYEELTLIKKALLQKLF 198


>gi|291515465|emb|CBK64675.1| Restriction endonuclease S subunits [Alistipes shahii WAL 8301]
          Length = 353

 Score = 67.9 bits (164), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 52/389 (13%), Positives = 102/389 (26%), Gaps = 63/389 (16%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + W    I     +  GR  +            +  G        G     +     ++ 
Sbjct: 23  ERWDTYRIADILCIGNGRDYK-----------HLSKGDIPVFGTGGYMTSVNEC---LYE 68

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
                 G+ G   +            T F     K V+P+ +     +I+         E
Sbjct: 69  GETTFIGRKGTINKPFYYNGKFWTVDTLFYTHSFKRVIPKFVYCLFQTIN----WLRYNE 124

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
            + +       I  I + IP L EQ  I + +     RI T      +   L+K   Q +
Sbjct: 125 ASGVPSLSKDTIEKIKVRIPQLDEQKKIAKLLSLLDERIATQNKIIEKLQSLIKGIAQNI 184

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
           V                           +  +       +   +++  L           
Sbjct: 185 VHR----------------------NKPNVRISQCLECSSSTLQESDVLECGAYPVYGAN 222

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
            ++  L+  N      S E   I+  G                 S    +     +  + 
Sbjct: 223 GVVGFLDNYNT-----SNEAIYIIKDGS-----------GVGAVSYVAGKCSATGTLNIL 266

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
               G    YL +L+  ++       M       + F+D  +  +  P   EQ      +
Sbjct: 267 QAKKGFSLRYLYYLLNIFNFEPYKTGMA---IPHIYFKDYGKAQIFCPSYSEQLKYAKFL 323

Query: 383 NVETARIDVLVEKIEQSIVLLKERRSSFI 411
               A ID  +   +  ++ L   +   +
Sbjct: 324 ----ATIDDKLLTEQNVLINLSLLKQYLL 348


>gi|26554274|ref|NP_758208.1| type I restriction-modification system S subunit [Mycoplasma
           penetrans HF-2]
 gi|26454283|dbj|BAC44612.1| type I restriction-modification system S subunit [Mycoplasma
           penetrans HF-2]
          Length = 415

 Score = 67.9 bits (164), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 31/254 (12%), Positives = 82/254 (32%), Gaps = 13/254 (5%)

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
            +  +    +     +   + K           L +Q L  E +     +I     + I 
Sbjct: 149 DEYDELNINLINLDKIFKLNLKKSIIQYAIEGKLVKQDLNSETVSELVKKISEEKQKLIS 208

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
             ++ K+K ++ +              K   IE    +P++W       +    N  +  
Sbjct: 209 EGKIKKDKNESFIFEDNNCYYEKINNGKPQNIEVPFEIPENWSWVRLKTISEIYNGNSIS 268

Query: 251 LIE----------SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQN 300
             E           + +     N    +   N    P + + ++I    +I+        
Sbjct: 269 KEEKEKKYTKCSGYDYIGTKDINFDFSINYDNGVYIPLNEKNFKIAPKNKILLCIEGGS- 327

Query: 301 DKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFE 360
                +     +     +  + +     ++ YL + ++SY    +F  + +G+   +  +
Sbjct: 328 --AGKKIGITSKDVCFGNKLVCINDFLSNNLYLFYFLQSYYFKNIFNQLTTGIIGGISIQ 385

Query: 361 DVKRLPVLVPPIKE 374
           ++K + + +PP +E
Sbjct: 386 NLKNIMIPLPPKRE 399



 Score = 56.7 bits (135), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 31/172 (18%), Positives = 54/172 (31%), Gaps = 10/172 (5%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSE---------SGKDIIYIGLEDVESGTGKYLPKDGNS 70
            IP++W  V +K  +++  G +                 YIG +D+          +G  
Sbjct: 245 EIPENWSWVRLKTISEIYNGNSISKEEKEKKYTKCSGYDYIGTKDINFDFSINYD-NGVY 303

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
              +     I  K +IL    G    K I      +C    LV     +   L   + L 
Sbjct: 304 IPLNEKNFKIAPKNKILLCIEGGSAGKKIGITSKDVCFGNKLVCINDFLSNNLYLFYFLQ 363

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
               + I        +     + + NI +P+PP  E   I +        + 
Sbjct: 364 SYYFKNIFNQLTTGIIGGISIQNLKNIMIPLPPKRECEKIIKITHKIISLLR 415



 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 22/144 (15%), Positives = 45/144 (31%), Gaps = 8/144 (5%)

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
             +    +   + V         K +L   +        +         ++S +L +L +
Sbjct: 42  KEKNKINLKLNDFVIPARGASIGKITLIKDETAT--CTQTTMYMKPFSIVNSKFLFFLFK 99

Query: 339 SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
           S +     +      +  +   +     + +PP  EQ  I   I +    +D   E    
Sbjct: 100 SIE--SYLFQSSGSAQPQITVNETIEKLIPIPPSNEQNSIYQKIIILNKSVDEYDELNIN 157

Query: 399 SIVLLK----ERRSSFIAAAVTGQ 418
            I L K      + S I  A+ G+
Sbjct: 158 LINLDKIFKLNLKKSIIQYAIEGK 181


>gi|182414825|ref|YP_001819891.1| restriction endonuclease S subunits-like protein [Opitutus terrae
           PB90-1]
 gi|177842039|gb|ACB76291.1| Restriction endonuclease S subunits-like protein [Opitutus terrae
           PB90-1]
          Length = 388

 Score = 67.9 bits (164), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 51/351 (14%), Positives = 100/351 (28%), Gaps = 34/351 (9%)

Query: 76  STVSIFAKGQILYGKLGPYLRKAII----ADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
           ST      G +L  K+ P++R+A +         I S++++V +   + P  ++  L+  
Sbjct: 61  STKQAVETGDVLLSKIVPHIRRAWVVGASRGRRMIASSEWIVFRNARIFPGYIRHLLVED 120

Query: 132 DVTQRIEAICEGATMSHAD--WKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
               +  +   G   S        +  I +P+PPLAEQ  I E +               
Sbjct: 121 RFHAKFMSTVSGVGGSLLRARPAHVARIRVPLPPLAEQRRIAEVLDRAEALRAKRRATLA 180

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNT 249
           +   L +          +    +P    K      +G              V        
Sbjct: 181 QLDSLTQCL-------FLDLFGDPATNPKGWPKTVLGE---------IIEFVGGSQPPRE 224

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
                          I+  ++             +  +  +++            +    
Sbjct: 225 TFTYEPSPDTIRLVQIRDFKSDEFKTYIPRRLARRFFNEDDVMIGRYGPP-----VFQIL 279

Query: 310 VMERGIITSAYMAVKPHGIDSTYL-AWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLP 366
               G    A M   P    S      L++   L     A    +  +  +  E +++ P
Sbjct: 280 RGLCGSYNVALMKALPKDEVSKDFVFHLLQEQRLHSYVVARSERTAGQTGVNLELLEKYP 339

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
              PP   Q +    +    A ++ L      S+  L    +S    A  G
Sbjct: 340 AFRPPASLQREFARRV----AAVEKLKTTQRASLAELDALFASLQHRAFRG 386



 Score = 39.0 bits (89), Expect = 1.4,   Method: Composition-based stats.
 Identities = 12/104 (11%), Positives = 30/104 (28%), Gaps = 2/104 (1%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVE-SGTGKYLPKDGNSRQSDTSTVSI 80
           PK W    +    +   G              + +       +   +  +          
Sbjct: 201 PKGWPKTVLGEIIEFVGGSQPPRETFTYEPSPDTIRLVQIRDFKSDEFKTYIPRRLARRF 260

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELL 124
           F +  ++ G+ GP + +  +    G  +   +   PKD + +  
Sbjct: 261 FNEDDVMIGRYGPPVFQI-LRGLCGSYNVALMKALPKDEVSKDF 303


>gi|148544646|ref|YP_001272016.1| restriction modification system DNA specificity subunit
           [Lactobacillus reuteri DSM 20016]
 gi|184153999|ref|YP_001842340.1| restriction endonuclease S subunit [Lactobacillus reuteri JCM 1112]
 gi|148531680|gb|ABQ83679.1| restriction modification system DNA specificity domain
           [Lactobacillus reuteri DSM 20016]
 gi|183225343|dbj|BAG25860.1| restriction endonuclease S subunit [Lactobacillus reuteri JCM 1112]
          Length = 372

 Score = 67.9 bits (164), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 44/388 (11%), Positives = 107/388 (27%), Gaps = 37/388 (9%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           +           T   ++  KD      +++    GK        RQ             
Sbjct: 2   EYKKFTALFTDVTKTGTKIPKDEYLTTGKNIIIDQGKDSIAGYTDRQKGIFEEVPV---- 57

Query: 86  ILYGKLGPYLRKAIIADFDGICS-TQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
           I++   G + R     D           VL+ K+        +                 
Sbjct: 58  IVF---GDHTRIVKYIDKPFFLGADGVKVLKSKEKESNYKYLYYALKAAHIPNTGYNRHF 114

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
                    +  I M  P L EQ  I + + + T  I           + L    + + +
Sbjct: 115 K-------WLKQINMNYPDLNEQKNIVDILDSLTRII-------KVRQKELAFFDKLIKA 160

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
             V    +P    K      +  + D                      +  I  +   N+
Sbjct: 161 RFVEMFGDPISNKKSWKKRLLNDLVDKIGS------GATPKGGKESYQDHGISFIRSMNV 214

Query: 265 IQKLETRN----MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS-A 319
                       +        +  IV   ++          +  +    ++   +    +
Sbjct: 215 HDGYFNYKDLAYINSTQAKQLSNVIVQSQDVFINITGASVARSCIVPDDILPARVNQHVS 274

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYA---MGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
            +  K   ++  ++  L  +    ++  +    G   RQ++  + ++ L +++PPI  Q 
Sbjct: 275 IIRCKSDVLNPIFINNLFLNDSFKRILLSIGLSGGATRQAITKKQLEMLKIILPPISLQN 334

Query: 377 DITNVINVET-ARIDVLVEKIEQSIVLL 403
           +  N ++    ++ + +V   +  +  +
Sbjct: 335 EYANFVHQVDKSKFENIVYLNKTLLNKI 362



 Score = 38.6 bits (88), Expect = 1.8,   Method: Composition-based stats.
 Identities = 22/163 (13%), Positives = 49/163 (30%), Gaps = 21/163 (12%)

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
            +   +    +S   Y     G      + +  D   +         +       +K   
Sbjct: 29  GKNIIIDQGKDSIAGYTDRQKGIFEEVPVIVFGDHTRIVKYIDKPFFLGADGVKVLKSKE 88

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
            +S Y           K  +   +G  +  K+  +K++ +  P + EQ +I ++++  T 
Sbjct: 89  KESNYKYLY----YALKAAHIPNTGYNRHFKW--LKQINMNYPDLNEQKNIVDILDSLTR 142

Query: 388 RI----------DVLVEKIEQS-----IVLLKERRSSFIAAAV 415
            I          D L++          I   K  +   +   V
Sbjct: 143 IIKVRQKELAFFDKLIKARFVEMFGDPISNKKSWKKRLLNDLV 185


>gi|301299372|ref|ZP_07205653.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus salivarius ACS-116-V-Col5a]
 gi|300853026|gb|EFK80629.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus salivarius ACS-116-V-Col5a]
          Length = 186

 Score = 67.9 bits (164), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 25/163 (15%), Positives = 53/163 (32%), Gaps = 11/163 (6%)

Query: 241 VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES-----YETYQIVDPGEIVFRF 295
           V +    + K I      L+  N+       +                  VD  +I+   
Sbjct: 12  VRDGTHDSPKYINEGYPLLTSKNVGDGYINYDDVKYVSENDYVQINKRSKVDVNDILMGM 71

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ 355
           I    +   +R  +  +  I   A +    +         L  S    ++   M  G ++
Sbjct: 72  IGTIGNLALIR--EEPDFAIKNVALIKHTSNFDYQFLFQELQTSAISKELLSGMDGGTQK 129

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
            +  + ++ L V++P   EQ  I + +     R D L+   ++
Sbjct: 130 FVSLKKIRNLSVMLPSENEQKKIGSYLM----RFDSLIALHQR 168



 Score = 65.6 bits (158), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 29/185 (15%), Positives = 59/185 (31%), Gaps = 6/185 (3%)

Query: 25  WKVVPIKRFTKLNTGRTSES---GKDIIYIGLEDVESGTGKYLPKDGNSRQSD--TSTVS 79
           W+   +     +  G         +    +  ++V  G   Y      S       +  S
Sbjct: 1   WEQRRLGEVADVRDGTHDSPKYINEGYPLLTSKNVGDGYINYDDVKYVSENDYVQINKRS 60

Query: 80  IFAKGQILYGKLGPYLRKAIIADFD-GICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
                 IL G +G     A+I +          L+    +   + L   L +  +++ + 
Sbjct: 61  KVDVNDILMGMIGTIGNLALIREEPDFAIKNVALIKHTSNFDYQFLFQELQTSAISKELL 120

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
           +  +G T      K I N+ + +P   EQ  I   ++     I     +  +  +L K  
Sbjct: 121 SGMDGGTQKFVSLKKIRNLSVMLPSENEQKKIGSYLMRFDSLIALHQRKLEKLKQLKKFL 180

Query: 199 KQALV 203
            Q + 
Sbjct: 181 LQNMF 185


>gi|154173663|ref|YP_001408732.1| type I restriction-modification system S subunit [Campylobacter
           curvus 525.92]
 gi|153792995|gb|EAT99440.2| type I restriction-modification system S subunit [Campylobacter
           curvus 525.92]
          Length = 323

 Score = 67.9 bits (164), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 20/237 (8%), Positives = 65/237 (27%), Gaps = 14/237 (5%)

Query: 161 IPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDS 220
           +     +    E ++ +  +    + +  +       +    +    +       + +  
Sbjct: 85  LVEQNLEDESVEILLQKIGQEKQRLVKDKKLKADKFPQSTIFIGEDNSPYEKIGKETRCI 144

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE-----------SNILSLSYGNIIQKLE 269
             E    +P  W       +       +    +              ++    +    ++
Sbjct: 145 EDEIPFEIPSSWAWVRLGEICQIYTGDSINQTQKLTKYTNLEDGRCYIATKDVDFDGSID 204

Query: 270 TRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID 329
             N    P +   ++I     ++             +   +       +      P  I+
Sbjct: 205 YENGVKIPFNESRFKIAPKNSVLLCVEGGS---AGKKIGYLDCDVCFGNKLCCFNPLLIE 261

Query: 330 STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
             ++ + ++S      F    SG+   +    +K + + +PP+ EQ  I   I +  
Sbjct: 262 PKFIYYYLQSQIFIYSFMQKMSGIISGISLNSIKTIVIAIPPLPEQKRIVEKIELLL 318



 Score = 62.9 bits (151), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 38/174 (21%), Positives = 60/174 (34%), Gaps = 13/174 (7%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDII----------YIGLEDVESGTGKYLPKDGN 69
            IP  W  V +    ++ TG +    + +           YI  +DV+   G    ++G 
Sbjct: 151 EIPSSWAWVRLGEICQIYTGDSINQTQKLTKYTNLEDGRCYIATKDVDFD-GSIDYENGV 209

Query: 70  SRQSDTSTVSIFAKGQILYG-KLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL 128
               + S   I  K  +L   + G   +K    D D     +     P  + P+ +  +L
Sbjct: 210 KIPFNESRFKIAPKNSVLLCVEGGSAGKKIGYLDCDVCFGNKLCCFNPLLIEPKFIYYYL 269

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
            S            G  +S      I  I + IPPL EQ  I EKI      + 
Sbjct: 270 QSQIFIYSFMQKMSG-IISGISLNSIKTIVIAIPPLPEQKRIVEKIELLLPLLK 322



 Score = 57.9 bits (138), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 15/83 (18%), Positives = 31/83 (37%), Gaps = 6/83 (7%)

Query: 341 DLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
              +     G      +    +  +P+ +PP+ EQ  I + +      I+   E  E+ +
Sbjct: 3   KWIEQNKVGGGTHTFKINLGSMYSIPLPLPPLSEQKRIVDKLEEILQLIEKYKEDKEK-L 61

Query: 401 VLLK-----ERRSSFIAAAVTGQ 418
             L      + + S +  AV G+
Sbjct: 62  DELNLSFPSKLKKSILDYAVKGK 84


>gi|262039558|ref|ZP_06012857.1| type-1 restriction enzyme EcoR124II specificity protein
           [Leptotrichia goodfellowii F0264]
 gi|261746436|gb|EEY33976.1| type-1 restriction enzyme EcoR124II specificity protein
           [Leptotrichia goodfellowii F0264]
          Length = 392

 Score = 67.9 bits (164), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 36/388 (9%), Positives = 103/388 (26%), Gaps = 30/388 (7%)

Query: 26  KVVPIKRFTK-------LNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           +   +            +      +       +                     ++   +
Sbjct: 14  EWKKLGEVIDYEQPTKYIVNSTQYDDKFKTPVLTAG----------QTFILGYTNEIEGI 63

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
              +K   +            +     + S+   +L+PK+    L   +       + I 
Sbjct: 64  YKASKEDPVIIFDDFTASNHWVDFEFKVKSSAMKILKPKNQFVNLRYCYH----YIKTIN 119

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
                             + +PI  L  Q  I + +   T  +  L +E     +     
Sbjct: 120 FDVTEHKRIWIS--KYSQLEVPILSLEIQEKIVKILDKFTNYVTELQSELQSRTKQYNYY 177

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
           +  L+S    + LN   +  D   +    +      +     + +   K     +  +  
Sbjct: 178 RDKLLSE---QYLNKISEKIDKFEDKEYKLRVTTLGEIGEIKMCKRILKEQTSTKGTVPF 234

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
              G   +K ++       E Y+          V         +  +   +         
Sbjct: 235 YKIGTFGKKADSFISREIFEEYKKKYSYPKKGEVLISASGTIGRTVIFDGEDCYFQDSNI 294

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
            +++     + + YL +  +  +          G  + +   ++  + + +PPI+ Q  +
Sbjct: 295 VWLSHNESKVLNKYLYYYYQIVNW----NPSSGGTIKRMYNYNLVNMKIFLPPIEIQDKV 350

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKER 406
             V++     +      + Q I   +++
Sbjct: 351 VKVLDKFQELLKDTKGLLPQEIEQRQKQ 378



 Score = 44.8 bits (104), Expect = 0.024,   Method: Composition-based stats.
 Identities = 16/184 (8%), Positives = 54/184 (29%), Gaps = 10/184 (5%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG 289
           +  E K    ++         +  +         ++   +T  +G   E    Y+     
Sbjct: 11  EKVEWKKLGEVIDYEQPTKYIVNSTQYDDKFKTPVLTAGQTFILGYTNEIEGIYKASKED 70

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
            ++       ++       +V    +     +  K   ++  Y    +++ +        
Sbjct: 71  PVIIFDDFTASNHWVDFEFKVKSSAM---KILKPKNQFVNLRYCYHYIKTINFD------ 121

Query: 350 GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
                + +      +L V +  ++ Q  I  +++  T  +  L  +++         R  
Sbjct: 122 -VTEHKRIWISKYSQLEVPILSLEIQEKIVKILDKFTNYVTELQSELQSRTKQYNYYRDK 180

Query: 410 FIAA 413
            ++ 
Sbjct: 181 LLSE 184


>gi|294782724|ref|ZP_06748050.1| type I restriction modification DNA specificity family protein
           [Fusobacterium sp. 1_1_41FAA]
 gi|294481365|gb|EFG29140.1| type I restriction modification DNA specificity family protein
           [Fusobacterium sp. 1_1_41FAA]
          Length = 387

 Score = 67.9 bits (164), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 51/401 (12%), Positives = 124/401 (30%), Gaps = 35/401 (8%)

Query: 30  IKRFTKLNTGRTSESGK--DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
           +K   K+  G+  ++ K   I   G   + +  G++L  D +                IL
Sbjct: 5   LKELIKIKNGKDYKTCKLGSIPVYGTGGIINYVGEFLYNDES----------------IL 48

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMS 147
             + G       +        T +     K+++      + L +     + +   G+T+ 
Sbjct: 49  LPRKGSLSNIRYVNQPFWTVDTMYWTCVNKELVLPKYLYFYLKLL---DLSSRDSGSTLP 105

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
              +     + + IP + +Q  I + +     +I             +        +   
Sbjct: 106 SMTFDAYYELEVEIPRIKKQKKILDLLNPIEEKIMINNKINDNLFSQISIIYNYWFTQYE 165

Query: 208 TKGLNPDVKMKDSGIEWVG-----LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
               N      ++G  +        +P +W V+   +       K    +    +  +  
Sbjct: 166 FPNTNGKSYKSNNGELYYNNIVKKDIPKNWVVETLASNSLSEIIKPGVDLFEEKIYYTTA 225

Query: 263 NIIQKLETRNMGLKPESYETYQIVDP--GEIVFRFIDLQNDKRSLRSA--QVMERGIITS 318
           +I+ K  T    +   + E    + P    + F  +        L      ++E  I+++
Sbjct: 226 DIVNKNITNGSIVSYNTKEDRANMQPIPYSVWFAKMKNTIKHLFLAPNMKFIIENSILST 285

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFD 377
               +K   I   Y++  +           +  G  ++++  +D+  + ++VP       
Sbjct: 286 GLCGLKCKEIAFEYISSYILHPYFENHKDVLSHGATQEAVNNDDLNYIYIIVPE----EK 341

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           I    +  T  I   + +       L   R   +   + GQ
Sbjct: 342 ILRQYHNLTKSIFKKIAENMCENKELITIRDFLLPLLMNGQ 382



 Score = 36.3 bits (82), Expect = 9.7,   Method: Composition-based stats.
 Identities = 26/193 (13%), Positives = 64/193 (33%), Gaps = 10/193 (5%)

Query: 20  AIPKHWKVVPI--KRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
            IPK+W V  +     +++      +  ++ IY    D+ +           + + D + 
Sbjct: 190 DIPKNWVVETLASNSLSEIIKPGV-DLFEEKIYYTTADIVNKNITNGSIVSYNTKEDRAN 248

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGIC------STQFLVLQPKDVLPELLQGWLLSI 131
           +       + + K+   ++   +A            ST    L+ K++  E +  ++L  
Sbjct: 249 MQPI-PYSVWFAKMKNTIKHLFLAPNMKFIIENSILSTGLCGLKCKEIAFEYISSYILHP 307

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
                 + +  GAT    +   +  I + +P             +   +I   + E    
Sbjct: 308 YFENHKDVLSHGATQEAVNNDDLNYIYIIVPEEKILRQYHNLTKSIFKKIAENMCENKEL 367

Query: 192 IELLKEKKQALVS 204
           I +       L++
Sbjct: 368 ITIRDFLLPLLMN 380


>gi|10717100|gb|AAG22014.1|AF288037_3 putative HsdS [Streptococcus thermophilus]
          Length = 402

 Score = 67.9 bits (164), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 41/410 (10%), Positives = 108/410 (26%), Gaps = 28/410 (6%)

Query: 28  VPIKRFTKLNTGRTSESGKDI----IYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           + +    K++  +     +       +  +         Y+ +       +  +     K
Sbjct: 4   IRLGEIGKISMCKRILKSQTNEFRNPFYKISTFGGTPTVYIDEKIYREYKEKYSYPK-KK 62

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
              L    G   +  I    D       +V          +    L   +         G
Sbjct: 63  VIFLISAAGTIGKTVIFDGEDSYFQDSNIVWIEN--DESKVTNQFLYYFLQTNPFITTNG 120

Query: 144 ATMSHADWKGIGNI-PMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           +T+       + +     +P + +Q  I + +     +I            + K      
Sbjct: 121 STIKRLYNDNLRDTKIPNVPSIQQQNQITDILGTLDKKIQINNQINQELEAMAKTLYDYW 180

Query: 203 VSYIVTKGLNPDVKMKDSG------IEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
                    N     K SG       E    +P+ W  +   +L+             N 
Sbjct: 181 FVQFDFPDQN-GKPYKSSGGKMVYNPELKREIPEGWGAEKLSSLLKIGKETTNPKKFPNE 239

Query: 257 LSLSYGNIIQKLETRNMGLKPESYE-TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
               Y              + ES +     V+  +++   ++   ++       + E  I
Sbjct: 240 EFKYYSIPEFDTTGTYSLERGESIKSNKFKVEKNDLLVSKLNPWFNRV---IYNLEENAI 296

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRS-YDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPP 371
            ++ ++  K          + + +  +  +      +G     + +  + +    +    
Sbjct: 297 ASTEFIVWKTFNRFEKNFLYQVATGKEFIEYCTRFATGTSNSHKRVSPDIMVGFQIPFEK 356

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
              Q     +I+     I   V +  +    L + R   +   + GQ+ +
Sbjct: 357 THIQ-KFGEIIDS----IRTQVLQNNEQNQELTQLRDWILPMLMNGQVKV 401



 Score = 54.8 bits (130), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 32/195 (16%), Positives = 63/195 (32%), Gaps = 12/195 (6%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSES---GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            IP+ W    +    K+    T+      ++  Y  + + ++ TG Y  + G S     S
Sbjct: 210 EIPEGWGAEKLSSLLKIGKETTNPKKFPNEEFKYYSIPEFDT-TGTYSLERGESI---KS 265

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIA-DFDGICSTQFLVLQP-KDVLPELLQGWLLSIDVT 134
                 K  +L  KL P+  + I   + + I ST+F+V +         L       +  
Sbjct: 266 NKFKVEKNDLLVSKLNPWFNRVIYNLEENAIASTEFIVWKTFNRFEKNFLYQVATGKEFI 325

Query: 135 QRIEAICEG--ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           +       G   +        +    +P      Q    E I +   ++     +     
Sbjct: 326 EYCTRFATGTSNSHKRVSPDIMVGFQIPFEKTHIQ-KFGEIIDSIRTQVLQNNEQNQELT 384

Query: 193 ELLKEKKQALVSYIV 207
           +L       L++  V
Sbjct: 385 QLRDWILPMLMNGQV 399


>gi|300113976|ref|YP_003760551.1| restriction modification system DNA specificity domain-containing
           protein [Nitrosococcus watsonii C-113]
 gi|299539913|gb|ADJ28230.1| restriction modification system DNA specificity domain protein
           [Nitrosococcus watsonii C-113]
          Length = 497

 Score = 67.9 bits (164), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 55/473 (11%), Positives = 134/473 (28%), Gaps = 83/473 (17%)

Query: 26  KVVPIKRFTK----LNTGRTSES-------GKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           +   +         + TG             +    I +E +     ++L     S    
Sbjct: 18  QEKKLSELCVGKSGIQTGPFGSQLHKYDYVEQGTPIITVEHLGDNRIEHLNTPYVSDADR 77

Query: 75  TS-TVSIFAKGQILYGKLGPYLRKAII--ADFDGICSTQFLVLQPKDVLPELLQ--GWLL 129
              +     +G I++ ++G   R+A++   +   + S + L ++ ++ L +      +  
Sbjct: 78  HRLSKYQIKEGDIVFSRVGSVDRRALVRKQEDGWLFSGRCLRVRVENELIDPAYLSYFFG 137

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRIDTLITER 188
                  I +I  GATM   + K + ++P+     L EQ  I + ++    +I       
Sbjct: 138 LETFKSYIRSIAVGATMPSINTKILSDLPIYYCSDLEEQKEIAKLLLTLDDKIQLNHQIN 197

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEW------------------------ 224
               ++ +   ++               +K  G E                         
Sbjct: 198 QTLEQMAQAIFKSWFVD-FEPVKAKIAALKAGGSEEDALLAAMQAISGKSSEQLTRLQAE 256

Query: 225 -----------------------VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
                                  +G +P+ W V     L  ++    T            
Sbjct: 257 QPEQYAELRATAEPFPSAMQESELGEIPEGWGVGALQDLCLKVESGGTPKRNIPEYWGGE 316

Query: 262 GNIIQKLETRN---------MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
              +   E R+         +        + ++      V         +  L    + +
Sbjct: 317 IKWLASGEVRDVIAFGTKEKITKSGLENSSAKLWPKYSTVVAMYGATAGQVCL----LAD 372

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI 372
                 A   + P   ++    ++     +  +        +Q+L    V R   L+PP 
Sbjct: 373 TMTTNQACCGLIPKE-NNKAFLFITARNSVSSLADKASGSAQQNLNKGLVSRHASLLPPE 431

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGES 425
                +    ++    I   ++   + +  L E R S +   ++G++ +    
Sbjct: 432 NV---LLAYESITFPLIHAWIQNTHECVQ-LTELRDSLLPKLLSGELSISDAE 480



 Score = 60.6 bits (145), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 26/201 (12%), Positives = 66/201 (32%), Gaps = 13/201 (6%)

Query: 18  IGAIPKHWKVVPIKRFT-KLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNS 70
           +G IP+ W V  ++    K+ +G T +       G +I ++   +V         +    
Sbjct: 280 LGEIPEGWGVGALQDLCLKVESGGTPKRNIPEYWGGEIKWLASGEVRDVIAFGTKEKITK 339

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
              + S+  ++ K   +    G    +  +       +     L PK+        ++ +
Sbjct: 340 SGLENSSAKLWPKYSTVVAMYGATAGQVCLLADTMTTNQACCGLIPKE--NNKAFLFITA 397

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
            +    +     G+   + +   +      +PP    +            I   I     
Sbjct: 398 RNSVSSLADKASGSAQQNLNKGLVSRHASLLPPENVLLAYESI---TFPLIHAWIQNTHE 454

Query: 191 FIELLKEKKQALVSYIVTKGL 211
            ++L  E + +L+  +++  L
Sbjct: 455 CVQL-TELRDSLLPKLLSGEL 474


>gi|225854393|ref|YP_002735905.1| type I restriction-modification enzyme 1, S subunit [Streptococcus
           pneumoniae JJA]
 gi|225724268|gb|ACO20121.1| type I restriction-modification enzyme 1, S subunit [Streptococcus
           pneumoniae JJA]
          Length = 338

 Score = 67.9 bits (164), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 34/364 (9%), Positives = 97/364 (26%), Gaps = 38/364 (10%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V +     L  G+ +    +   +    ++    +       +   + +         
Sbjct: 2   KKVKLGEVLSLKKGKKATVLAEQTTLSQRYIQIDDLRNNNNLKFTESLNMTEAL---PDD 58

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW--LLSIDVTQRIEAICEG 143
           IL    G             + ST  ++ + +    +++  +  +     +Q +     G
Sbjct: 59  ILIAWDGANAGTVGYGLSGAVGSTITVLKKNERYKEKIISDYLGVFLESKSQYLREHSTG 118

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           AT+ H +   + ++ + +  + EQ  I   +      I     +      L       + 
Sbjct: 119 ATIPHLNKNILLDLQLELLGIEEQENIICILNTIKGLITKRKLQLDELNLL-------VK 171

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
           S       +P    K   ++  G     +    F      +         + I       
Sbjct: 172 SRFNEMFGDPLNNNKKFAVKT-GQQCFKFSSGKFLDKHDRVFEGYPAYGGNGIAW----- 225

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
                                ++D   I+   +                +  I+   + +
Sbjct: 226 ----------------KSRKYLIDNPTIIIGRVGA----YCGNVRTTHGKVWISDNAIYI 265

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
           K        L +L+    +           +  +  + ++    ++PP+  Q +  + + 
Sbjct: 266 KEFKNSDFNLVFLLELMKVIDFSKFADFSGQPKITQKPLENQKYILPPLALQNEFADFVA 325

Query: 384 VETA 387
           +   
Sbjct: 326 LVDK 329


>gi|315146003|gb|EFT90019.1| conserved hypothetical protein [Enterococcus faecalis TX2141]
          Length = 74

 Score = 67.9 bits (164), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 18/78 (23%), Positives = 36/78 (46%), Gaps = 7/78 (8%)

Query: 336 LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
           ++ SY L K       G +  L  + + ++P+++P   EQF I         ++D  +  
Sbjct: 1   MLLSYSLKKYI---TGGAQPQLTRDVLLKVPIIIPSYNEQFKIGTF----FKQLDDTIAL 53

Query: 396 IEQSIVLLKERRSSFIAA 413
            ++ + LLKE +  F+  
Sbjct: 54  QQRKLDLLKETKKGFLQK 71


>gi|167892259|ref|ZP_02479661.1| restriction modification system DNA specificity domain
           [Burkholderia pseudomallei 7894]
 gi|167917016|ref|ZP_02504107.1| restriction modification system DNA specificity domain
           [Burkholderia pseudomallei BCC215]
          Length = 576

 Score = 67.5 bits (163), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 38/198 (19%), Positives = 68/198 (34%), Gaps = 14/198 (7%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGK---------DIIYIGLEDVESGTGKYL---PKDG 68
           +P  WK V +     +  G T  S            + ++   D+      Y+    +D 
Sbjct: 84  LPSSWKWVRLADVGAIVGGGTPPSEDVDNFTAAGGGVAWVTPADLGKHGSLYVSRGSRDL 143

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL 128
             +    S+ ++  KG +L+    P    AI  +     +  F  + P  +        +
Sbjct: 144 TEKGLKASSATVMPKGAVLFTSRAPIGYTAIALNE-ISTNQGFKSVVP-YISDCARYVAI 201

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
                T  IE    G T      K +  +P P+PPLAEQ+ I  K+       D L    
Sbjct: 202 YLQAFTPWIEGKASGTTFREVSGKTVSGLPFPLPPLAEQLRIVAKVDELLAMCDQLEAAN 261

Query: 189 IRFIELLKEKKQALVSYI 206
               +   +  +A +  +
Sbjct: 262 AEREKSRDQLVRASLQQL 279



 Score = 64.8 bits (156), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 30/175 (17%), Positives = 64/175 (36%), Gaps = 12/175 (6%)

Query: 229 PDHWEVKPF---FALVTELNRKNTKLIESNILSLSYGNIIQK-LETRNMGLKPESYET-- 282
           P  W        F ++T+ + +     E+ +  L+ GN+    L+  N    P+ Y    
Sbjct: 373 PSGWAWSRLASLFKVITDGDHQPPPRAETGVAFLTIGNVTTGQLDFSNCRFVPQEYFDAI 432

Query: 283 --YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP-HGIDSTYLAWLMRS 339
             ++    G+ ++  +     + +L          +      +KP   ID  YL  L+ S
Sbjct: 433 APHRRPTKGDFLYTVVGATYGRPALV--DTDRPFCVQRHIGILKPVSEIDLGYLHLLLSS 490

Query: 340 YDLCKVF-YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
             + +    ++    + ++    ++     +PP+ EQ  I   +    A  D L 
Sbjct: 491 PFVYEQATRSLTGTAQPTIPLRPLRNFLAPLPPLAEQHRIVAKVGALMALCDQLE 545



 Score = 61.3 bits (147), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 23/152 (15%), Positives = 51/152 (33%), Gaps = 6/152 (3%)

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
            +G++     +R++  K     +  ++  G ++F             +A  +        
Sbjct: 130 KHGSLYVSRGSRDLTEKGLKASSATVMPKGAVLFTSRAPIGY-----TAIALNEISTNQG 184

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
           + +V P+  D      +        +         + +  + V  LP  +PP+ EQ  I 
Sbjct: 185 FKSVVPYISDCARYVAIYLQAFTPWIEGKASGTTFREVSGKTVSGLPFPLPPLAEQLRIV 244

Query: 380 NVINVETARIDVLV-EKIEQSIVLLKERRSSF 410
             ++   A  D L     E+     +  R+S 
Sbjct: 245 AKVDELLAMCDQLEAANAEREKSRDQLVRASL 276



 Score = 56.3 bits (134), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 30/172 (17%), Positives = 56/172 (32%), Gaps = 9/172 (5%)

Query: 21  IPKHWKVVPIKRFTKLNTGRT----SESGKDIIYIGLEDVESGTGKYLPKDGNSRQ--SD 74
           +P  W    +    K+ T         +   + ++ + +V +G   +       ++    
Sbjct: 372 LPSGWAWSRLASLFKVITDGDHQPPPRAETGVAFLTIGNVTTGQLDFSNCRFVPQEYFDA 431

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAII--ADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
            +      KG  LY  +G    +  +   D          +L+P   +       LLS  
Sbjct: 432 IAPHRRPTKGDFLYTVVGATYGRPALVDTDRPFCVQRHIGILKPVSEIDLGYLHLLLSSP 491

Query: 133 V-TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
              ++      G        + + N   P+PPLAEQ  I  K+ A     D 
Sbjct: 492 FVYEQATRSLTGTAQPTIPLRPLRNFLAPLPPLAEQHRIVAKVGALMALCDQ 543


>gi|325661851|ref|ZP_08150472.1| hypothetical protein HMPREF0490_01208 [Lachnospiraceae bacterium
           4_1_37FAA]
 gi|325471829|gb|EGC75046.1| hypothetical protein HMPREF0490_01208 [Lachnospiraceae bacterium
           4_1_37FAA]
          Length = 325

 Score = 67.5 bits (163), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 46/356 (12%), Positives = 116/356 (32%), Gaps = 45/356 (12%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
             +   ++  GR  +            VE+  G+Y P  G+      +   I     ++ 
Sbjct: 2   RFEDVLEIKNGRNQK-----------AVENPGGQY-PIYGSGGIMGYANDYICDAQTVII 49

Query: 89  GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSH 148
           G+ G       + +      T F +   +DVL      +          + + +  T+  
Sbjct: 50  GRKGNINSPIFVEEAFWNVDTAFGLSANRDVLLPRYLYYFCK---KFDFKRLNKTVTIPS 106

Query: 149 ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVT 208
                +  I + +P L +Q  + +++    V+I+ +IT R + +E L E  +A     + 
Sbjct: 107 LTKSDLLKIEIDLPDLEKQHDVVDQL----VKIERIITLRKQELEFLDELIKA---RFIE 159

Query: 209 KGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKL 268
              +P +  K    + +        +             +     +         +   +
Sbjct: 160 MFGDPIINSKHLETKEL----KDVLMLKAGDFTAASEISDDMSEINQYPCYGGNGVRGYV 215

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
              N   +         +  G + F     +N + +L    ++E               +
Sbjct: 216 SKYNQDGEYSIIGRQGALS-GNVQFASGKFKNTEHALLVTPIVE---------------M 259

Query: 329 DSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
           ++ +L  L+ + DL +         +  L  ++++ + ++  PI +Q    + +  
Sbjct: 260 NNIWLNQLLINLDLKRY---QTGAAQPGLSVKNLQEIEIIYVPIDKQNQFASFVEQ 312



 Score = 55.2 bits (131), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/130 (13%), Positives = 51/130 (39%), Gaps = 10/130 (7%)

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
           Y    I D   ++       N    +   +     + T+  ++     +   YL +  + 
Sbjct: 36  YANDYICDAQTVIIGRKGNINSPIFV---EEAFWNVDTAFGLSANRDVLLPRYLYYFCKK 92

Query: 340 YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
           +D  ++     +    SL   D+ ++ + +P +++Q D+ + +     +I+ ++   +Q 
Sbjct: 93  FDFKRLNK---TVTIPSLTKSDLLKIEIDLPDLEKQHDVVDQLV----KIERIITLRKQE 145

Query: 400 IVLLKERRSS 409
           +  L E   +
Sbjct: 146 LEFLDELIKA 155


>gi|302347048|ref|YP_003815346.1| type I restriction modification DNA specificity domain protein
           [Prevotella melaninogenica ATCC 25845]
 gi|302150486|gb|ADK96747.1| type I restriction modification DNA specificity domain protein
           [Prevotella melaninogenica ATCC 25845]
          Length = 407

 Score = 67.5 bits (163), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 15/151 (9%), Positives = 48/151 (31%), Gaps = 4/151 (2%)

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
           Y     +     +                +++        ++ +     + +  ++    
Sbjct: 62  YTKYKSETIKEVISKTNIDNTKLVKSKANDVIIPCSGETAEEIATARCVLKDDVLLGGDL 121

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
             ++ HG D +++++ +       +           L  E +K +  + P + EQ  I N
Sbjct: 122 NIIRLHGYDGSFMSYQLNGKRKYDIAKVAQGVSVVHLYGEHLKNIKTINPSLNEQKKIAN 181

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSFI 411
           ++    + +D  +    + I  L+      +
Sbjct: 182 LL----SLLDERISTQNKIIDKLESLIKGIM 208



 Score = 59.0 bits (141), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 46/363 (12%), Positives = 113/363 (31%), Gaps = 39/363 (10%)

Query: 24  HWKVVPIKRFTKLNTGRTSESG----KDIIYIGLEDVESGT-GKYLPKDGNSRQSDTSTV 78
            W+   +     ++ G               I   ++ +    + + +  +    D + +
Sbjct: 25  EWQEERLSDIADISKGIGISKDQLSADGEPCILYGELYTKYKSETIKEVISKTNIDNTKL 84

Query: 79  SIFAKGQILYGKLGPYLRKA----IIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
                  ++    G    +      +   D +      +++           + L+    
Sbjct: 85  VKSKANDVIIPCSGETAEEIATARCVLKDDVLLGGDLNIIRLHG-YDGSFMSYQLNGKRK 143

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             I  + +G ++ H   + + NI    P L EQ  I   +      +D  I+ + + I+ 
Sbjct: 144 YDIAKVAQGVSVVHLYGEHLKNIKTINPSLNEQKKIANLL----SLLDERISTQNKIIDK 199

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
           L+   + ++  +  +G N                  +W       ++ E + +NT L + 
Sbjct: 200 LESLIKGIMVELQKQGQNKG----------------NWRNVLLSKVLKERDERNTNLYQV 243

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM-ER 313
             +S+S G +I +++             Y +V  G++V+           +       E 
Sbjct: 244 FSVSVSQG-VINQVDYLGRSYAARDTSKYNVVHYGDLVYTKSPTGAYPYGIVKQNFNQEN 302

Query: 314 GIITSAYMAVKPHGID-STYLAWLMRS-----YDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
             ++  Y    P+ +    YL    RS       L  +          ++  +      V
Sbjct: 303 VAVSPLYGVYIPNSLSVGRYLHEYFRSEINTHNYLHPLIQKGAKNTI-NITNQRFLENSV 361

Query: 368 LVP 370
            +P
Sbjct: 362 PIP 364


>gi|210134990|ref|YP_002301429.1| type I R-M system S protein [Helicobacter pylori P12]
 gi|210132958|gb|ACJ07949.1| type I R-M system S protein [Helicobacter pylori P12]
          Length = 432

 Score = 67.5 bits (163), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 50/425 (11%), Positives = 114/425 (26%), Gaps = 52/425 (12%)

Query: 22  PKHWKVVPIKRFTKL-------NTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           PK      +    +         T +  +       +     ++    Y  +  N  Q+ 
Sbjct: 13  PKGVGFRKLGEILEYDQPNQYCVTSKEFDKSYPTPVLTAG--KTFILGYTNEKDNIYQAS 70

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
            S+  I                   +     + S+   +L  K+    +   +       
Sbjct: 71  KSSPVIIF-DDF-------TTATQWVDFPFKVKSSAMKILFSKNPTINIRFIFFCM---Q 119

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
                I                + +PIPPL  Q  I + + A T     L TE    ++ 
Sbjct: 120 TIPYNIGGEHARHWISRYSQ--LEVPIPPLEIQQEIVKILDAFTELNTELNTELNTELKA 177

Query: 195 LKEKKQALVSYIVTK------------GLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVT 242
            K++ +   + ++               L      K        L P   E K    +  
Sbjct: 178 RKKQYEYYQNMLLDFNDINSNHKDAKEKLTQKTYPKRLKTLLQTLAPKGVEFKTLEEVFE 237

Query: 243 ELNRKNTKLIESNILSLSYGNIIQKLETRNMG---------LKPESYETYQIVDPGEIVF 293
             N                    +  + R  G         + P++ +  ++     I+ 
Sbjct: 238 IRNGYTPSKNNPEFWKNGTIPWFRMEDLRENGRILKDSIQHITPKALKGKKLFPKNSIII 297

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF--YAMGS 351
                  +   L    +  +      +++ K +   +  + +      L   +    +  
Sbjct: 298 STTATIGEHALLIVDSLANQQFT---FLSKKANCDLALDMKFFFYQCFLLGEWCKNNINV 354

Query: 352 GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RR 407
               S+     K+    +PP++ Q +I  +++  +     L+  I   I   K+     R
Sbjct: 355 SGFASVDMSAFKKYKFPIPPLEIQQEIVKILDQFSLLTTDLLAGIPAEIKARKKQYEYYR 414

Query: 408 SSFIA 412
              + 
Sbjct: 415 EKLLT 419


>gi|307312950|ref|ZP_07592578.1| restriction modification system DNA specificity domain protein
           [Escherichia coli W]
 gi|306907118|gb|EFN37625.1| restriction modification system DNA specificity domain protein
           [Escherichia coli W]
 gi|315063581|gb|ADT77908.1| hypothetical protein ECW_m4636 [Escherichia coli W]
          Length = 355

 Score = 67.5 bits (163), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 58/346 (16%), Positives = 107/346 (30%), Gaps = 18/346 (5%)

Query: 57  ESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP 116
            S   ++  K         S       G +L      + R  I+ D +G     +LVL P
Sbjct: 8   NSKYIRHTAKKIKFEGVKKSRK--VYPGDLLLTNSMSFGRPYIL-DVEGCIHDGWLVLSP 64

Query: 117 KDV--LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKI 174
           K+     +    +L S      I     GA + + +   + N+ +P PP AEQV I   +
Sbjct: 65  KNNQIHIDYFYHYLNSPTAKIIISNKAAGAVVKNLNSDIVRNLEIPFPPFAEQVRIASTL 124

Query: 175 IAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEV 234
                             +        L +  +    +P    K   ++ +     H   
Sbjct: 125 DKADGIRQKREQAIKLADDF-------LRATFLEMFGDPVQNPKGWNVKPLADQIIHANN 177

Query: 235 KPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFR 294
                   + N  +  L   ++     G    K   R   +  E        D    +  
Sbjct: 178 GISRRRKEDTNEGDIVLRLQDVHY--SGITFDKELNRIKLVDKEKQIARVEYDDLLFIRV 235

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVK-PHGIDSTYLAWLMRSYDLCKVF--YAMGS 351
             +     R+      +E        + +K  +   S +L +L+ S    K+       S
Sbjct: 236 NGNPNYVGRTAVFKSYIEPVYHNDHLIRIKLDNEYQSDFLCYLINSPFSRKLIAQQIKTS 295

Query: 352 GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
             + ++  + + +L    PPI+ Q    N I  +   I    +K E
Sbjct: 296 AGQHTISQDGILKLMFYRPPIELQEKFIN-IKNKIESIFYRKDKHE 340



 Score = 67.5 bits (163), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 26/140 (18%), Positives = 54/140 (38%), Gaps = 8/140 (5%)

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
             + +      +K E  +  + V PG+++            L     +  G +    ++ 
Sbjct: 8   NSKYIRHTAKKIKFEGVKKSRKVYPGDLLLTNSMSFGRPYILDVEGCIHDGWL---VLSP 64

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVI 382
           K + I   Y    + S     +     +G   ++L  + V+ L +  PP  EQ  I + +
Sbjct: 65  KNNQIHIDYFYHYLNSPTAKIIISNKAAGAVVKNLNSDIVRNLEIPFPPFAEQVRIASTL 124

Query: 383 NVETARIDVLVEKIEQSIVL 402
           +    + D + +K EQ+I L
Sbjct: 125 D----KADGIRQKREQAIKL 140



 Score = 38.6 bits (88), Expect = 1.7,   Method: Composition-based stats.
 Identities = 23/195 (11%), Positives = 50/195 (25%), Gaps = 14/195 (7%)

Query: 22  PKHWKVVPIKR-FTKLNTGRTSESGKDI----IYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           PK W V P+       N G +    +D     I + L+DV      +  +    +  D  
Sbjct: 160 PKGWNVKPLADQIIHANNGISRRRKEDTNEGDIVLRLQDVHYSGITFDKELNRIKLVDKE 219

Query: 77  TVS-IFAKGQILYGKLGPYLRKAII------ADFDGICSTQFLVLQPKDVLPELLQGWLL 129
                     +L+ ++                      +   + ++  +        +L+
Sbjct: 220 KQIARVEYDDLLFIRVNGNPNYVGRTAVFKSYIEPVYHNDHLIRIKLDNEYQSDFLCYLI 279

Query: 130 SIDV--TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
           +         + I   A        GI  +    PP+  Q                    
Sbjct: 280 NSPFSRKLIAQQIKTSAGQHTISQDGILKLMFYRPPIELQEKFINIKNKIESIFYRKDKH 339

Query: 188 RIRFIELLKEKKQAL 202
              F  +  +   ++
Sbjct: 340 EDLFASISNKLIHSI 354


>gi|260905624|ref|ZP_05913946.1| type I restriction-modification system, S subunit, putative
           [Brevibacterium linens BL2]
          Length = 403

 Score = 67.5 bits (163), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 59/396 (14%), Positives = 130/396 (32%), Gaps = 42/396 (10%)

Query: 44  SGKDIIYIGLEDVESG---TGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAII 100
           S   +  I + ++  G    GK  P+         S   +  +G ++ G+ G   R A+I
Sbjct: 31  SENGVPLISVGEIGDGRLSIGKKTPRVSEETTERLSEY-LLWRGDVVIGRKGAVERSALI 89

Query: 101 ---ADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNI 157
               D   + S    V     +    +     S  V + + +   G TM+  +   +  +
Sbjct: 90  NEDQDGYFLGSDGMRVRFGDSINSTFMAYQFRSDAVRRWLISHASGTTMASMNQAILSKL 149

Query: 158 PMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTK-GLNPDVK 216
           P+ +PP   Q  I E + A   +I                  Q+L+       GL+    
Sbjct: 150 PILVPPNRTQQAIAEVLGALDDKIAANERLSSGA--------QSLLQEHFAMLGLDRF-- 199

Query: 217 MKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK 276
                                   + E+N + ++ +      L   ++     T +    
Sbjct: 200 -------------ADTGPFLTVNDLFEVNPRTSRKVTGQSPYLGMKDLPDTSMTVSSWST 246

Query: 277 PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER---GIITSAYMAVKPHGIDSTYL 333
            E+    + V+ G+++   I    +         +E    GI ++ ++ V+      + +
Sbjct: 247 REAKSGARFVN-GDVLLARITPCLENGKAGYVDFLENAEIGIGSTEFIVVRARDPLLSVV 305

Query: 334 AWLM-RSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
            + + +S            G   RQ L   DV    +      E   +     + T+ ++
Sbjct: 306 PFFLTKSERFRDFAIRHMQGTSGRQRLAASDVAGYQLA---EVEDERLNRFGELSTSLLE 362

Query: 391 VLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
            +   + +S   L   R   +   ++G+I ++   +
Sbjct: 363 RVRTAVAES-QGLAHTRDELLPLLMSGKISVKDAEK 397


>gi|293498315|ref|ZP_06666169.1| hypothetical protein SCAG_00888 [Staphylococcus aureus subsp.
           aureus 58-424]
 gi|291097246|gb|EFE27504.1| hypothetical protein SCAG_00888 [Staphylococcus aureus subsp.
           aureus 58-424]
          Length = 209

 Score = 67.5 bits (163), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 34/195 (17%), Positives = 77/195 (39%), Gaps = 14/195 (7%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET 282
           +       HWE       + E N ++       +       II+  E        +    
Sbjct: 22  DENSEDYPHWENSKIEKYLKERNERSD--KGQMLSVTINSGIIKFSELDRKDNSSKDKSN 79

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL-AWLMRSYD 341
           Y++V   +I +  + +          +    GI++ AY  + P    S+    +  +++ 
Sbjct: 80  YKVVRKNDIAYNSMRMWQGASG----RSNYNGIVSPAYTVLYPTQNTSSLFIGYKFKTHR 135

Query: 342 LCKVFYAMGSGLR---QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
           +   F     GL     +LK++ +K + + +P ++EQ  I +       ++D+L+ K + 
Sbjct: 136 MIHKFKINSQGLTSDTWNLKYKQLKNINIDIPVLEEQEKIGDF----FKKMDILISKQKI 191

Query: 399 SIVLLKERRSSFIAA 413
            I +L++ + SF+  
Sbjct: 192 KIEILEKEKQSFLQK 206



 Score = 54.4 bits (129), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 31/183 (16%), Positives = 63/183 (34%), Gaps = 7/183 (3%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           HW+   I+++ K    R+ +     + I    ++           ++   D S   +  K
Sbjct: 30  HWENSKIEKYLKERNERSDKGQMLSVTINSGIIKFSELD----RKDNSSKDKSNYKVVRK 85

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
             I Y  +  +   +  ++++GI S  + VL P      L  G+            I   
Sbjct: 86  NDIAYNSMRMWQGASGRSNYNGIVSPAYTVLYPTQNTSSLFIGYKFKTHRMIHKFKINSQ 145

Query: 144 ---ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
              +   +  +K + NI + IP L EQ  I +      + I     +     +  +   Q
Sbjct: 146 GLTSDTWNLKYKQLKNINIDIPVLEEQEKIGDFFKKMDILISKQKIKIEILEKEKQSFLQ 205

Query: 201 ALV 203
            + 
Sbjct: 206 KMF 208


>gi|329730679|gb|EGG67060.1| type I restriction modification DNA specificity domain protein
           [Staphylococcus aureus subsp. aureus 21193]
          Length = 200

 Score = 67.5 bits (163), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 34/195 (17%), Positives = 77/195 (39%), Gaps = 14/195 (7%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET 282
           +       HWE       + E N ++       +       II+  E        +    
Sbjct: 13  DENSEDYPHWESSKIEKYLKERNERSD--KGQMLSVTINSGIIKFSELDRKDNSSKDKSN 70

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL-AWLMRSYD 341
           Y++V   +I +  + +        +      GI++ AY  + P    S+    +  +++ 
Sbjct: 71  YKVVRKNDIAYNSMRMWQGASGKSNY----NGIVSPAYTVLYPTQNTSSLFIGYKFKTHR 126

Query: 342 LCKVFYAMGSGLR---QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
           +   F     GL     +LK++ +K + + +P ++EQ  I +       ++D+L+ K + 
Sbjct: 127 MIHKFKINSQGLTSDTWNLKYKQLKNINIDIPVLEEQEKIGDF----FKKMDILISKQKM 182

Query: 399 SIVLLKERRSSFIAA 413
            I +L++ + SF+  
Sbjct: 183 KIEILEKEKQSFLQK 197



 Score = 54.4 bits (129), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 31/183 (16%), Positives = 63/183 (34%), Gaps = 7/183 (3%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           HW+   I+++ K    R+ +     + I    ++           ++   D S   +  K
Sbjct: 21  HWESSKIEKYLKERNERSDKGQMLSVTINSGIIKFSELD----RKDNSSKDKSNYKVVRK 76

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
             I Y  +  +   +  ++++GI S  + VL P      L  G+            I   
Sbjct: 77  NDIAYNSMRMWQGASGKSNYNGIVSPAYTVLYPTQNTSSLFIGYKFKTHRMIHKFKINSQ 136

Query: 144 ---ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
              +   +  +K + NI + IP L EQ  I +      + I     +     +  +   Q
Sbjct: 137 GLTSDTWNLKYKQLKNINIDIPVLEEQEKIGDFFKKMDILISKQKMKIEILEKEKQSFLQ 196

Query: 201 ALV 203
            + 
Sbjct: 197 KMF 199


>gi|217032124|ref|ZP_03437624.1| hypothetical protein HPB128_16g84 [Helicobacter pylori B128]
 gi|216946272|gb|EEC24880.1| hypothetical protein HPB128_16g84 [Helicobacter pylori B128]
          Length = 297

 Score = 67.5 bits (163), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 24/203 (11%), Positives = 58/203 (28%), Gaps = 15/203 (7%)

Query: 229 PDHWEVKPFFA----LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYE-TY 283
           P +W+           + +   K+       I     G      +          Y+  Y
Sbjct: 7   PSNWQRVRLGDIGKPCMCKRVMKHQTTRYGEIPFYKIGTFGNTADAFISKKLFLEYKTKY 66

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC 343
                G+I+                   +      + +    +        +L  +Y   
Sbjct: 67  SFPKKGDILISASGTIGRAVI----YDGKPAYFQDSNIVWIDNDETLVKNDFLFYTYSHV 122

Query: 344 KVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
           K            L  ++ +   + +PP+ EQ  I N+++     +  L   I +     
Sbjct: 123 KW--NTEHTTILRLYNDNFRNTLIPLPPLNEQIAIANILSDVDRYLYNLDALILKK---- 176

Query: 404 KERRSSFIAAAVTGQIDLRGESQ 426
           +  + +     ++ +  L+G +Q
Sbjct: 177 EGVKKALSFELLSQRKRLKGFNQ 199



 Score = 56.3 bits (134), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 31/190 (16%), Positives = 56/190 (29%), Gaps = 10/190 (5%)

Query: 21  IPKHWKVVPIKRF-----TKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           +P +W+ V +         K      +    +I +  +    +    ++ K         
Sbjct: 6   LPSNWQRVRLGDIGKPCMCKRVMKHQTTRYGEIPFYKIGTFGNTADAFISKKLFL--EYK 63

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
           +  S   KG IL    G   R  I            +V        E L           
Sbjct: 64  TKYSFPKKGDILISASGTIGRAVIYDGKPAYFQDSNIVWI---DNDETLVKNDFLFYTYS 120

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            ++   E  T+         N  +P+PPL EQ+ I   +      +  L    ++   + 
Sbjct: 121 HVKWNTEHTTILRLYNDNFRNTLIPLPPLNEQIAIANILSDVDRYLYNLDALILKKEGVK 180

Query: 196 KEKKQALVSY 205
           K     L+S 
Sbjct: 181 KALSFELLSQ 190



 Score = 40.9 bits (94), Expect = 0.42,   Method: Composition-based stats.
 Identities = 11/106 (10%), Positives = 28/106 (26%), Gaps = 11/106 (10%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+ V +    ++  G      +  ++     V  G G     +  +R           + 
Sbjct: 201 WQKVRLGDIAEIKRGVRITKNELDVFGKYPVVSGGVGFLGYTNNFNR----------YEN 250

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
            I   + G               +     + P   + + +  +L  
Sbjct: 251 TITIAQYG-TAGYVNFQKNKFWANDVCFCIYPNKDIIKNIFLYLFF 295


>gi|329728696|gb|EGG65125.1| type I restriction modification DNA specificity domain protein
           [Staphylococcus aureus subsp. aureus 21193]
          Length = 189

 Score = 67.5 bits (163), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 21/150 (14%), Positives = 45/150 (30%), Gaps = 6/150 (4%)

Query: 246 RKNTKLIESNILSLSYGNIIQK----LETRNMGLKPESYETYQIVDPGEIVFRFIDLQND 301
             +       I  L   NI        +   +    +          G+++         
Sbjct: 25  GGSENYTNKGIPFLRSQNIRNGKLNLNDLVYISKDIDDEMKNSRTYYGDVLLNITGASIG 84

Query: 302 KRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA-WLMRSYDLCKVFYAMGSGLRQSLKFE 360
           + ++ S       +     +          +   +L+      K+F A   G R+ L F+
Sbjct: 85  RTAINSIVETHANLNQHVCIIRLKKEYYYNFFGQYLLSRKGKRKIFLAQSGGSREGLNFK 144

Query: 361 DVKRLPVLVPPI-KEQFDITNVINVETARI 389
           ++  L +  P I +EQ  I    +    +I
Sbjct: 145 EIANLKIFTPTIFEEQQKIGQFFSKLDQQI 174



 Score = 53.3 bits (126), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 28/171 (16%), Positives = 61/171 (35%), Gaps = 13/171 (7%)

Query: 24  HWKVVPIKRFT-KLNTGRTSE------SGKDIIYIGLEDVESGTGKYLP-KDGNSRQSDT 75
            W+   +   T K+ +G+T +      + K I ++  +++ +G          +    D 
Sbjct: 4   EWEEKKLGNLTTKIGSGKTPKGGSENYTNKGIPFLRSQNIRNGKLNLNDLVYISKDIDDE 63

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIA---DFDGICSTQ-FLVLQPKDVLPELLQGWLLSI 131
              S    G +L    G  + +  I    +     +    ++   K+        +LLS 
Sbjct: 64  MKNSRTYYGDVLLNITGASIGRTAINSIVETHANLNQHVCIIRLKKEYYYNFFGQYLLSR 123

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLA-EQVLIREKIIAETVRI 181
              ++I     G +    ++K I N+ +  P +  EQ  I +       +I
Sbjct: 124 KGKRKIFLAQSGGSREGLNFKEIANLKIFTPTIFEEQQKIGQFFSKLDQQI 174


>gi|261364422|ref|ZP_05977305.1| putative type I restriction modification DNA specificity domain
           protein [Neisseria mucosa ATCC 25996]
 gi|288567329|gb|EFC88889.1| putative type I restriction modification DNA specificity domain
           protein [Neisseria mucosa ATCC 25996]
          Length = 472

 Score = 67.5 bits (163), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 56/423 (13%), Positives = 117/423 (27%), Gaps = 57/423 (13%)

Query: 28  VPIKRFT-KLNTGRTSES--------GKDIIYIGLED------VESGTGKYLPKDGNSRQ 72
             +K F   + +G T  +           I  + +++      VE    KY+ +D     
Sbjct: 49  KRLKDFALSMGSGATPSTTNPEFYSDKNGIPLLRVQNLTLNSTVELNNLKYITEDV---H 105

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAI---IADFDGICSTQFLVLQPKDVLPELLQ-GWL 128
            +    S      +L    G            +F G  +   +V++       L    +L
Sbjct: 106 ENMLKRSQVTDQDLLVKITGVGRMAVAAVPPKEFSGNVNQHIVVVRTGSREKSLYLANYL 165

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPM----PIPPLAEQVLIREKIIAETVRIDTL 184
               + +       G T    D+  + +IP+        L        ++  +   +   
Sbjct: 166 NLDVIEKLASRRVTGGTRPALDYPALRSIPIIEDIDFSILENAKKQANQLKQQAKTLLNS 225

Query: 185 ITER--IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVT 242
           I           L E   +L S + T      V+M + G+  +               + 
Sbjct: 226 INSYLLGELGITLPETDNSLNSRMFT------VQMSEVGVGRLDSFTYQPRFTKLAETLE 279

Query: 243 ELNR------------------KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ 284
           +                     +N        L ++  +      +    +         
Sbjct: 280 QCRYAVASLAKVATDIKNGVEIRNYVEEGFRYLRVTDLSEHGLNHSSPKFVDVHGVPEKI 339

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH--GIDSTYLAWLMRSYDL 342
            ++P  ++            +   + ++  I++S    V+     I   YL    R    
Sbjct: 340 RLNPNCLLIARSGSLGLVNVV--TEDIKDAILSSHIFKVELDTTQIYPEYLEAFARCPIG 397

Query: 343 CKVFYA-MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
            + F      G+   +    +K   V +P    Q  I   I    A+   L  + EQ + 
Sbjct: 398 QEQFKQLNNGGVIPEINQSALKTFKVALPDKSTQQKIIAHIRAIKAQAATLQAEAEQLLS 457

Query: 402 LLK 404
             K
Sbjct: 458 QAK 460



 Score = 39.0 bits (89), Expect = 1.3,   Method: Composition-based stats.
 Identities = 18/150 (12%), Positives = 48/150 (32%), Gaps = 24/150 (16%)

Query: 269 ETRNMGLKPESYETYQI----VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
           E  N+    E      +    V   +++ +   +     +    +     +     +   
Sbjct: 93  ELNNLKYITEDVHENMLKRSQVTDQDLLVKITGVGRMAVAAVPPKEFSGNVNQHIVVVRT 152

Query: 325 PHGIDSTYLAWLMRSYDLCKV-FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
                S YLA  +    + K+    +  G R +L +  ++ +P++               
Sbjct: 153 GSREKSLYLANYLNLDVIEKLASRRVTGGTRPALDYPALRSIPII--------------- 197

Query: 384 VETARID-VLVEKIEQSIVLLKERRSSFIA 412
                ID  ++E  ++    LK++  + + 
Sbjct: 198 ---EDIDFSILENAKKQANQLKQQAKTLLN 224


>gi|148927587|ref|ZP_01811058.1| hypothetical protein TM7_0305 [candidate division TM7 genomosp.
           GTL1]
 gi|147887063|gb|EDK72560.1| hypothetical protein TM7_0305 [candidate division TM7 genomosp.
           GTL1]
          Length = 298

 Score = 67.5 bits (163), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 17/87 (19%), Positives = 28/87 (32%), Gaps = 3/87 (3%)

Query: 329 DSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
           ++ Y+ + +   D            R  L    +KR+ +  P   EQ  I   I    + 
Sbjct: 18  NNKYVKYALNYVDYQSYV---TGTTRLKLNQSALKRIIIPFPDENEQKRIVAKIEELFSE 74

Query: 389 IDVLVEKIEQSIVLLKERRSSFIAAAV 415
           ID     I  +    K    S I +  
Sbjct: 75  IDNAESAITTASGYYKSYEQSIIDSLF 101



 Score = 39.8 bits (91), Expect = 0.81,   Method: Composition-based stats.
 Identities = 17/142 (11%), Positives = 39/142 (27%), Gaps = 9/142 (6%)

Query: 26  KVVPIKRFTKLNTGRTSESG------KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           ++V      ++  G T           +  Y+ + +V+ G          +  ++     
Sbjct: 109 EMVEFGDIAEIKGGITKGRKLRGMPIGETPYLRVANVQDGYLYLDEIKTINVTAEELRKY 168

Query: 80  IFAKGQILYGKLGP---YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
               G IL+ + G      R  I      +C  Q  + + +    + +  ++     T R
Sbjct: 169 SLMNGDILFTEGGDKDKLGRGTIWHGEIELCIHQNHIFRARVDSGQFVPEYISYATKTTR 228

Query: 137 IEAICEGATMSHADWKGIGNIP 158
                               I 
Sbjct: 229 ARDYLSLHLALKVMNCCAKKIW 250


>gi|224457361|ref|ZP_03665834.1| type I restriction-modification system, subunit S [Francisella
           tularensis subsp. tularensis MA00-2987]
 gi|254370730|ref|ZP_04986735.1| predicted protein [Francisella tularensis subsp. tularensis FSC033]
 gi|151568973|gb|EDN34627.1| predicted protein [Francisella tularensis subsp. tularensis FSC033]
 gi|282159469|gb|ADA78860.1| type I restriction-modification system, subunit S [Francisella
           tularensis subsp. tularensis NE061598]
          Length = 225

 Score = 67.5 bits (163), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 9/61 (14%), Positives = 23/61 (37%)

Query: 346 FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
              +     + +     + + + +PP+ EQ  I   ++     +D  +E  +Q+I     
Sbjct: 1   MNNLHGVGMKHITKGKFENIQIPLPPLAEQKRIVAKLDSLFENVDKAIELHQQNITNANT 60

Query: 406 R 406
            
Sbjct: 61  L 61



 Score = 57.1 bits (136), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 37/240 (15%), Positives = 67/240 (27%), Gaps = 17/240 (7%)

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
                G  M H       NI +P+PPLAEQ  I  K+ +    +D  I    + I     
Sbjct: 1   MNNLHGVGMKHITKGKFENIQIPLPPLAEQKRIVAKLDSLFENVDKAIELHQQNITNANT 60

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
              + +              K    E+  +            LV + N+K        ++
Sbjct: 61  LMASTLDKTF----------KKLEGEYSKIALLDVMKISNKTLVPDDNQKYNY-----VV 105

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
             +      +L         E   +      G +++  +    +K        +    I 
Sbjct: 106 LENIEGNTGRLIDFCETQGKEIKSSKVEFKKGMVLYGKLRPYLNKVWFSEFDDVATTEIL 165

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVK--RLPVLVPPIKEQ 375
             Y              + + S  L +V           L    +K     + +PP+  Q
Sbjct: 166 PFYPIDNTRLNMIFVKYYFLSSSYLQRVMRNCSGSRMPRLTTAFLKSEEAYIPLPPLPIQ 225



 Score = 48.6 bits (114), Expect = 0.002,   Method: Composition-based stats.
 Identities = 33/125 (26%), Positives = 56/125 (44%), Gaps = 4/125 (3%)

Query: 30  IKRFTKLNTGR-TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
           +    K++      +  +   Y+ LE++E  TG+ +       +   S+   F KG +LY
Sbjct: 82  LLDVMKISNKTLVPDDNQKYNYVVLENIEGNTGRLIDFCETQGKEIKSSKVEFKKGMVLY 141

Query: 89  GKLGPYLRKAIIADFDGICSTQFLVLQPKDV---LPELLQGWLLSIDVTQRIEAICEGAT 145
           GKL PYL K   ++FD + +T+ L   P D        ++ + LS    QR+   C G+ 
Sbjct: 142 GKLRPYLNKVWFSEFDDVATTEILPFYPIDNTRLNMIFVKYYFLSSSYLQRVMRNCSGSR 201

Query: 146 MSHAD 150
           M    
Sbjct: 202 MPRLT 206


>gi|114568716|ref|YP_755396.1| restriction modification system DNA specificity subunit [Maricaulis
           maris MCS10]
 gi|114339178|gb|ABI64458.1| restriction modification system DNA specificity domain [Maricaulis
           maris MCS10]
          Length = 383

 Score = 67.5 bits (163), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 61/405 (15%), Positives = 116/405 (28%), Gaps = 45/405 (11%)

Query: 30  IKRFTKLNTGR------TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           +    KL  GR      ++ +   + YI +++V         KD ++             
Sbjct: 7   LGDIVKLRKGRKAQEVLSAAAAGALPYIQIDEVRGVAPTKYAKDPSAVD--------VGP 58

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKD--VLPELLQGWLLSIDVTQRIEAIC 141
             +     G             I ST   +            +   L         +A  
Sbjct: 59  DDLCIVWDGANAGTVGYGLSGAIGSTVARIRFSDHGQWDAAFVGRLLQGKFRQLNDQAQA 118

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            GAT+ H D   +  + +P   L EQ  I   +         +  +R   + L  +  ++
Sbjct: 119 RGATIPHVDKSKLEQLAIPRIDLDEQRRIAAILDKADA----IRRKREEALALADDFLKS 174

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
               +    L P+     S I+    +     +        +       L+       S 
Sbjct: 175 TFLEMFGDPLAPEPHGSISTIDTECDLFAGNSLPRGEEFRGQDRG---CLLLKVSDLNSE 231

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
           GN  Q + ++      E      +   G IVF          + +   +    ++    M
Sbjct: 232 GNETQIVSSKLWVPPNEKLRASMVAPAGSIVFPKRG--GAISTNKKRVLSRPAVLDPNLM 289

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-PIKEQFDITN 380
            V P    S    +L   ++L  +           L  +DV  L ++VP P+        
Sbjct: 290 GVAPKSGSSISFRYLRNWFELLDLVTISSGSTVPQLNKKDVGPLRIVVPTPVD------- 342

Query: 381 VINVETARIDVLVEKIEQSIVLLKE-------RRSSFIAAAVTGQ 418
                  R D + E+  +    L+          +S    A  G+
Sbjct: 343 -----LERFDNIYERSAKLREKLRSAWDSSAHLFASLSQRAFRGE 382


>gi|207859651|ref|YP_002246302.1| type I restriction-modification system specificity subunit M
           [Salmonella enterica subsp. enterica serovar Enteritidis
           str. P125109]
 gi|1679867|emb|CAA68058.1| Sty SBLI [Salmonella enterica]
 gi|206711454|emb|CAR35838.1| putative Type I restriction-modification system specificity subunit
           M [Salmonella enterica subsp. enterica serovar
           Enteritidis str. P125109]
          Length = 434

 Score = 67.5 bits (163), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 31/196 (15%), Positives = 64/196 (32%), Gaps = 11/196 (5%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKY---LPKDG 68
           +G +PK W         +L  G T ++        DI +  + D  S +  Y     K  
Sbjct: 223 LGWMPKGWITTSFNDLIELIGGGTPKTSVEEFWNGDIPWFSVVDAPSESDVYVLTTEKKI 282

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL 128
                + S+  +  KG  +    G   + A++A    +  + + V+   ++  E    + 
Sbjct: 283 TIEGLNNSSAKLLRKGTTIISARGTVGKCAMVAVPMAMNQSCYGVIGKNNISDE--YIYF 340

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
              +  Q ++ +  G+  +        NI +P             +     +I     + 
Sbjct: 341 QLKNAVQTLQQMGHGSVFNTITRDTFKNIKVPFCNEELTNSYSLLVKNYFSKILNNNYQN 400

Query: 189 IRFIELLKEKKQALVS 204
           I    L       L+S
Sbjct: 401 IALTNLRDTLLPKLIS 416



 Score = 59.8 bits (143), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 48/440 (10%), Positives = 123/440 (27%), Gaps = 73/440 (16%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K +P+  F  L  G      K ++           G              +   + A G 
Sbjct: 5   KTIPLNEFITLQRGFDLPQDKRVM-----------GDIPVVASTGVVGYHNEEKVLAPG- 52

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           ++ G+ G       I       +T   V   K   P  +   L SID          G+ 
Sbjct: 53  VVIGRSGSIGGGQYITTNFWPLNTTLWVKDFKGHHPRFVYYLLRSIDF----SQFNVGSG 108

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA---- 201
           +   +   +  I +     + +    + I     +I           ++ +   ++    
Sbjct: 109 VPTLNRNHLSGILVADTSYSYEKEASDIIGILDDKIKLNKELNHTLEQISQTLFKSWFVD 168

Query: 202 ---LVSYIVTKGLNPDVKMKDSGIE-----------------------------WVGLVP 229
              ++   +  G NP  +   S  E                              +G +P
Sbjct: 169 FDPVIDNALDAG-NPIPEALQSRAELRQKIRNSADFKPLPADIRALFPAEFEETELGWMP 227

Query: 230 DHWEVKPFFALVTELNRKN-----TKLIESNILSLSYGNIIQKLE------TRNMGLKPE 278
             W    F  L+  +          +    +I   S  +   + +       + + ++  
Sbjct: 228 KGWITTSFNDLIELIGGGTPKTSVEEFWNGDIPWFSVVDAPSESDVYVLTTEKKITIEGL 287

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
           +  + +++  G  +            +         +  S Y  +  + I   Y+ + ++
Sbjct: 288 NNSSAKLLRKGTTIISARGTVGKCAMVAVPM----AMNQSCYGVIGKNNISDEYIYFQLK 343

Query: 339 SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
           +  +  +       +  ++  +  K + V         ++TN  ++        +     
Sbjct: 344 N-AVQTLQQMGHGSVFNTITRDTFKNIKVPFCN----EELTNSYSLLVKNYFSKILNNNY 398

Query: 399 SIVLLKERRSSFIAAAVTGQ 418
             + L   R + +   ++G+
Sbjct: 399 QNIALTNLRDTLLPKLISGE 418


>gi|312126615|ref|YP_003991489.1| restriction modification system DNA specificity domain-containing
           protein [Caldicellulosiruptor hydrothermalis 108]
 gi|311776634|gb|ADQ06120.1| restriction modification system DNA specificity domain protein
           [Caldicellulosiruptor hydrothermalis 108]
          Length = 481

 Score = 67.5 bits (163), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 54/436 (12%), Positives = 125/436 (28%), Gaps = 57/436 (13%)

Query: 25  WKVV-PIKRFTK-LNTGRTSESG------KDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           WK    +++    +  G+            D  YI + +++   G++  +D    + +  
Sbjct: 38  WKESFKLRQIVSRIRNGKDFSKKVYADYETDTCYIRVNNLK-PMGEFTGEDIIFLRDEEI 96

Query: 77  TVSI---FAKGQILYGKLGPYLRK----------AIIADFDGICSTQFLVLQPKDVLPEL 123
                    +G  L  + G                I            ++        E 
Sbjct: 97  EKFFNLFIDEGDFLITRSGTVGIAFKFIRHDLPEYIRDKNFMPAGYIIVIKVHNLFDDEY 156

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIR-----EKIIAET 178
           L+ +L S    +  EA+  G +  +     +G   +P+  L    +       ++I    
Sbjct: 157 LKYFLYSSISRRYFEALACGKSQQNISQADLGKWLVPLQILKNIPVNEIKEKEQEISKLK 216

Query: 179 VRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFF 238
            +I               +      S +  K +  +     S    +         +  F
Sbjct: 217 TQIKEPKIIVSEVFGKYFKLDLKQYSDLEKKHIFEENLFNLSRATQLRSSLKFHHPRSDF 276

Query: 239 ALVTELNRKN-----------------TKLIESNILSLSYGNIIQ-KLETRNMGLKPESY 280
            L      K                      E  ++ +   N+    ++   +      +
Sbjct: 277 VLGKLKEFKTVKLKQLLREPVRRGVQPEYKEEGEVMVVKTANLKNSYIDLSEVEYVSSEF 336

Query: 281 ETYQIVDPG----EIVFRFIDLQNDKRSLRSAQVMERGIITSAY--MAVKPHGIDSTYLA 334
                   G    +++            +   +  E  ++      + V    ++  YL 
Sbjct: 337 FQKNKKKAGIKYLDVLIASTG-TGSIGKVDIWESDEEALVDGHISILRVDQDKVNPRYLT 395

Query: 335 WLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVET---ARI 389
           + +RS        A  SG+  +  +   D+++  +L+P    Q  I   I  +     +I
Sbjct: 396 YYLRSLFGYSQIEANFSGMSNQIEIYPNDIEKFDILLPDKTIQEQIVKEIETKLNAQKKI 455

Query: 390 DVLVEKIEQSIVLLKE 405
              +E+++Q I  L E
Sbjct: 456 AEQIERLKQEIDNLIE 471


>gi|260436988|ref|ZP_05790804.1| type I restriction-modification system, S subunit [Butyrivibrio
           crossotus DSM 2876]
 gi|292810611|gb|EFF69816.1| type I restriction-modification system, S subunit [Butyrivibrio
           crossotus DSM 2876]
          Length = 257

 Score = 67.5 bits (163), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 35/201 (17%), Positives = 63/201 (31%), Gaps = 4/201 (1%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRT----SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            IP +W    +      NTG+     +  GK + YI   +V     +             
Sbjct: 14  EIPNNWVWCNLGLLFNHNTGKALNSANSEGKALTYITTSNVYWNRFELNDLKSMPFTDSE 73

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
                  KG +L  + G   R AI    + I     L         +    + +      
Sbjct: 74  IEKCTIKKGDLLVCEGGDIGRAAIWNFDNEIRIQNHLHRLRAYDYIQTAFYYYVLYAFKL 133

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
             +    G  +       + NI +P+PP+ EQ  I   I    + ID + + +      +
Sbjct: 134 SGKISGNGIGLQGLSSNALHNIIVPVPPIEEQKNIVMSIEKLMLSIDNIESHKNILAICI 193

Query: 196 KEKKQALVSYIVTKGLNPDVK 216
           +  K  ++   +   L P   
Sbjct: 194 ENTKAKILELAIRGKLVPQDP 214



 Score = 64.0 bits (154), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 30/208 (14%), Positives = 65/208 (31%), Gaps = 11/208 (5%)

Query: 218 KDSGIEWVGLVPDHWEVKPFFALVTELNRK------NTKLIESNILSLSYGNIIQKLETR 271
           K    E    +P++W       L      K      +     + I + +      +L   
Sbjct: 5   KLCDFESDYEIPNNWVWCNLGLLFNHNTGKALNSANSEGKALTYITTSNVYWNRFELNDL 64

Query: 272 NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST 331
                 +S      +  G+++                       I +    ++ +    T
Sbjct: 65  KSMPFTDSEIEKCTIKKGDLLVCEGGDIGRAAIW---NFDNEIRIQNHLHRLRAYDYIQT 121

Query: 332 YLAWL-MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
              +  + ++ L       G GL+  L    +  + V VPPI+EQ +I   I      ID
Sbjct: 122 AFYYYVLYAFKLSGKISGNGIGLQ-GLSSNALHNIIVPVPPIEEQKNIVMSIEKLMLSID 180

Query: 391 VLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            +        + ++  ++  +  A+ G+
Sbjct: 181 NIESHKNILAICIENTKAKILELAIRGK 208


>gi|126661659|ref|ZP_01732673.1| type I restriction-modification system specificity subunit
           [Cyanothece sp. CCY0110]
 gi|126617057|gb|EAZ87912.1| type I restriction-modification system specificity subunit
           [Cyanothece sp. CCY0110]
          Length = 383

 Score = 67.5 bits (163), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 61/395 (15%), Positives = 131/395 (33%), Gaps = 29/395 (7%)

Query: 30  IKRFTKLN----TGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK-- 83
           ++   +L                  I   ++  G+         S ++            
Sbjct: 7   LEDVCELIVDCEHKTAPTQETGYPSIRTPNIGRGSLILDKVKRVSEETYKKWTRRAIPTT 66

Query: 84  GQILYGKLGPYLRKAIIADFDGIC---STQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
             ++  +  P    AII     +C    T  +      V P  L   LL  ++  +  ++
Sbjct: 67  DDLILAREAPVGNVAIIPSNLKVCLGQRTVLIRANKNKVFPRYLCYLLLGDEIQGKFFSL 126

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
             GAT+ H + K    I     P    +  ++KI +     D LI    + I++L+E  Q
Sbjct: 127 SNGATVHHLNVKD---IRNLELPKLPPLPTQKKIASILSTYDDLIENNTKRIKILEEMAQ 183

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
            +      K   P  +        +GL+P+ WEVK    + +    K             
Sbjct: 184 TIYKEWFVKFRFPGHEQVKMVESELGLIPEGWEVKKLGRIASFKTGKLNSNAAKPDGIYP 243

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
           +    Q++   +      S++T  IV  G           +          +  +    Y
Sbjct: 244 FFTCSQQIFRTDTY----SFDTECIVLAGN--------NANGIFHIKYFNGKFDVYQRTY 291

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDIT 379
           +        ++         +  ++  ++ +G   + L  + +  + ++V   + Q   +
Sbjct: 292 VIQTLDKQTASNYYLYFAIKEQLELLKSISTGAATKFLTIKILNNINIIVNSNQIQEQFS 351

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAA 414
           +VI+   ++ID+L EK +     L++ R   +   
Sbjct: 352 DVISTVFSQIDILQEKNQN----LRKTRDLLLPKL 382



 Score = 45.2 bits (105), Expect = 0.021,   Method: Composition-based stats.
 Identities = 27/188 (14%), Positives = 55/188 (29%), Gaps = 14/188 (7%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +G IP+ W+V  + R     TG+ + +                G Y     + +   T T
Sbjct: 208 LGLIPEGWEVKKLGRIASFKTGKLNSNA-----------AKPDGIYPFFTCSQQIFRTDT 256

Query: 78  VSIFAKGQILY--GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
            S F    I+                    +    +++             +    +  +
Sbjct: 257 YS-FDTECIVLAGNNANGIFHIKYFNGKFDVYQRTYVIQTLDKQTASNYYLYFAIKEQLE 315

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            +++I  GA       K + NI + +     Q    + I     +ID L  +     +  
Sbjct: 316 LLKSISTGAATKFLTIKILNNINIIVNSNQIQEQFSDVISTVFSQIDILQEKNQNLRKTR 375

Query: 196 KEKKQALV 203
                 L+
Sbjct: 376 DLLLPKLI 383


>gi|317483692|ref|ZP_07942647.1| type I restriction modification DNA specificity domain-containing
           protein [Bifidobacterium sp. 12_1_47BFAA]
 gi|316914864|gb|EFV36331.1| type I restriction modification DNA specificity domain-containing
           protein [Bifidobacterium sp. 12_1_47BFAA]
          Length = 172

 Score = 67.5 bits (163), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 22/153 (14%), Positives = 55/153 (35%), Gaps = 6/153 (3%)

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
           +  ++  IL ++  ++ Q        +  E       + P + +         + ++  A
Sbjct: 24  SNYVDGKILWVTSQDVKQHYIENTTTMISEKGAATLTLYPSDSIVIVARSGILRHTIPVA 83

Query: 309 QVMERGIITSAY--MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLP 366
           ++ +   +      +        S  L + + S       Y       +S+ F  +K   
Sbjct: 84  KLRKPATVNQDIKVIQTVDSCDSSWLLQYFIASNKTLLREYGKTGTTVESIDFAKMKSTA 143

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
           ++VP I+EQ  I +      +R+D L+   ++ 
Sbjct: 144 LMVPYIEEQQAIGSF----FSRLDNLITLHQRK 172



 Score = 48.6 bits (114), Expect = 0.002,   Method: Composition-based stats.
 Identities = 23/168 (13%), Positives = 54/168 (32%), Gaps = 13/168 (7%)

Query: 25  WKVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           W+   ++       G T             I+++  +DV+    +      + + +  +T
Sbjct: 1   WEQRKLENLASFGGGHTPSMADASNYVDGKILWVTSQDVKQHYIENTTTMISEKGA--AT 58

Query: 78  VSIFAKGQILYGKLGPYLR---KAIIADFDGICSTQFLVLQP-KDVLPELLQGWLLSIDV 133
           ++++    I+       LR              +    V+Q         L  + ++ + 
Sbjct: 59  LTLYPSDSIVIVARSGILRHTIPVAKLRKPATVNQDIKVIQTVDSCDSSWLLQYFIASNK 118

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
           T   E    G T+   D+  + +  + +P + EQ  I          I
Sbjct: 119 TLLREYGKTGTTVESIDFAKMKSTALMVPYIEEQQAIGSFFSRLDNLI 166


>gi|291543146|emb|CBL16256.1| Restriction endonuclease S subunits [Ruminococcus bromii L2-63]
          Length = 370

 Score = 67.5 bits (163), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 52/386 (13%), Positives = 120/386 (31%), Gaps = 48/386 (12%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
            I         R +   +D   I +        +++P   N+   D     +  K + +Y
Sbjct: 7   KIGDLITTVDERNTIGIRDFYGINI------NKEFMPTVANTEGLDERKYKVVRKNRFVY 60

Query: 89  GKLGPYLRKAIIA-----DFDGICSTQFL---VLQPKDVLPELLQGWLLSIDVTQRIEAI 140
             +     + I       D   + S  ++   V     VLP       L+ +  +     
Sbjct: 61  SGMQTGRDECIRISMYTKDKPILVSPAYVTFEVTALSTVLPLYFFLRFLTKEKDRYGAFC 120

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
            +G+  S+ DW+   ++ + +P +  Q    +   A                        
Sbjct: 121 SDGSIRSNLDWEVFCDMNIELPSIEIQQKYVDVYNAMLAN-------------------- 160

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
                    GL+      D+ IE +       ++  + +   E N      +   + ++ 
Sbjct: 161 ---QQSYEHGLDDLKLTCDAYIEELRRKTPCEKIGKYLSECNERN-----NVGLTVNNVR 212

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIV-FRFIDLQNDKRSLRSAQVMERGIITSA 319
                ++       +   S   Y+++ P EI        + DK SL      E  +++S 
Sbjct: 213 GIATSKEFIDTKANMDGVSLSNYKMIHPNEIAYISDTSRRGDKISLAMNSSDEMYLVSSI 272

Query: 320 --YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQF 376
                     +   YL       +  +          R++  + D+  + + +P I  Q 
Sbjct: 273 STVFRTNKEHLLPEYLFLFYSRTEFDRYARFNSWGSARETFNWNDMCDVKIPIPDITIQK 332

Query: 377 DITN--VINVETARIDVLVEKIEQSI 400
            I    ++  +  +I+  ++   ++I
Sbjct: 333 SIAEMYMVYNKRKKINEQLKVQIKNI 358


>gi|205355246|ref|YP_002229047.1| type I restriction-modification system specificity subunit M
           [Salmonella enterica subsp. enterica serovar Gallinarum
           str. 287/91]
 gi|205275027|emb|CAR40113.1| putative Type I restriction-modification system specificity subunit
           M [Salmonella enterica subsp. enterica serovar
           Gallinarum str. 287/91]
 gi|326630409|gb|EGE36752.1| putative Type I restriction-modification system specificity subunit
           M [Salmonella enterica subsp. enterica serovar
           Gallinarum str. 9]
          Length = 434

 Score = 67.5 bits (163), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 31/196 (15%), Positives = 64/196 (32%), Gaps = 11/196 (5%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKY---LPKDG 68
           +G +PK W         +L  G T ++        DI +  + D  S +  Y     K  
Sbjct: 223 LGWMPKGWITTSFNDLIELIGGGTPKTSVEEFWNGDIPWFSVVDAPSESDVYVLTTEKKI 282

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL 128
                + S+  +  KG  +    G   + A++A    +  + + V+   ++  E    + 
Sbjct: 283 TIEGLNNSSAKLLRKGTTIISARGTVGKCAMVAVPMAMNQSCYGVIGKNNISDE--YIYF 340

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
              +  Q ++ +  G+  +        NI +P             +     +I     + 
Sbjct: 341 QLKNAVQTLQQMGHGSVFNTITRDTFKNIKVPFCNEELTNSYSLLVKNYFSKILNNNYQN 400

Query: 189 IRFIELLKEKKQALVS 204
           I    L       L+S
Sbjct: 401 IALTNLRDTLLPKLIS 416



 Score = 59.0 bits (141), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 48/435 (11%), Positives = 125/435 (28%), Gaps = 63/435 (14%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K +P+  F  L  G      K ++           G              +   + A G 
Sbjct: 5   KTIPLNEFITLQRGFDLPQDKRVM-----------GDIPVVASTGVVGYHNEEKVLAPG- 52

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI-------- 137
           ++ G+ G       I       +T   V   K   P  +   L SI  +Q          
Sbjct: 53  VVIGRSGSIGGGQYITTNFWPLNTTLWVKDFKGHHPRFVYYLLRSIYFSQFNVGSGVPTL 112

Query: 138 -EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT---------- 186
                 G  ++   +         I  L +++ + +++     +I   +           
Sbjct: 113 NRNHLSGILVADTSYSYEKEASDIIGILDDKIKLNKELNHTLEQISQTLFKSWFVDFDPV 172

Query: 187 ---------ERIRFIELLKEKKQALVSYIVTKGLNPDV---KMKDSGIEWVGLVPDHWEV 234
                         ++   E +Q + +    K L  D+      +     +G +P  W  
Sbjct: 173 IDNALDAGTPIPEALQSRAELRQKIRNSADFKPLPADIRALFPAEFEETELGWMPKGWIT 232

Query: 235 KPFFALVTELNRKN-----TKLIESNILSLSYGNIIQKLE------TRNMGLKPESYETY 283
             F  L+  +          +    +I   S  +   + +       + + ++  +  + 
Sbjct: 233 TSFNDLIELIGGGTPKTSVEEFWNGDIPWFSVVDAPSESDVYVLTTEKKITIEGLNNSSA 292

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC 343
           +++  G  +            +         +  S Y  +  + I   Y+ + +++  + 
Sbjct: 293 KLLRKGTTIISARGTVGKCAMVAVPM----AMNQSCYGVIGKNNISDEYIYFQLKN-AVQ 347

Query: 344 KVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
            +       +  ++  +  K + V         ++TN  ++        +       + L
Sbjct: 348 TLQQMGHGSVFNTITRDTFKNIKVPFCN----EELTNSYSLLVKNYFSKILNNNYQNIAL 403

Query: 404 KERRSSFIAAAVTGQ 418
              R + +   ++G+
Sbjct: 404 TNLRDTLLPKLISGE 418


>gi|291288563|ref|YP_003505379.1| hypothetical protein Dacet_2666 [Denitrovibrio acetiphilus DSM
           12809]
 gi|290885723|gb|ADD69423.1| conserved hypothetical protein [Denitrovibrio acetiphilus DSM
           12809]
          Length = 429

 Score = 67.5 bits (163), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 69/428 (16%), Positives = 139/428 (32%), Gaps = 55/428 (12%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
             I  + +L      +   D+    L  +      ++P   N   SD S   I  KGQ  
Sbjct: 6   KKIGNYIQLVD----KRNNDLKVNTLLGLTVDKI-FIPSVANIVGSDMSKYKIIKKGQFA 60

Query: 88  YGKL-----GPYLRKAIIADFDGICSTQFLVLQP---KDVLPELLQGWLLSIDVTQRIEA 139
              +     G      +    + I S  + V +     ++LPE L  W+   +  +    
Sbjct: 61  CSLMQVRRDGKIPVALLTDFDEAIISQAYPVFKIIDDCELLPEYLMMWMSRSEFDREACF 120

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
              G      +W+   NI +P+P   +Q  I +    E   I   I    +  + L+E  
Sbjct: 121 YAVGGVRGSLEWEDFCNIELPVPNPDKQQQIVD----EYNTIVNRIKLNEQLSQKLEETA 176

Query: 200 QALVSYIVTKGLNPD---------------VKMKDSGIEWVG------LVPDHWEVKPFF 238
           Q L  +       P                   + SG + V        VPD W+     
Sbjct: 177 QTLYKHWFVDFEFPITAEYAQSIGKPELEGKPYRSSGGKMVWNNDLDQDVPDEWKYDTLS 236

Query: 239 ALVT------ELNRKNTKLIESNILSLSYGNIIQKLETR----NMGLKPESYETYQIVDP 288
              T            +   +S I  +   N+            +     +      V  
Sbjct: 237 NRCTKIGSGSTPCGGKSAYKKSGISLIRSLNVHDYNFQYRDLAFIDSTQATKLDNVEVKE 296

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITS-AYMAVKPHGIDSTYLAWLMRSYDLCKVF- 346
            +++     +   +     + V+   +    + + V+P  + S+YL + + S    +   
Sbjct: 297 KDVLLNITGVSVARCCRVPSNVLPARVNQHVSIVRVEPEKLSSSYLLFTLCSAIYKQKLL 356

Query: 347 -YAMGSGLRQSLKFEDVKRLPVLVP---PIKEQFDITNVINVETARIDVLVE-KIEQSIV 401
             +     RQ++   D++   +L+P    +K   +IT+ +      +    E  ++  I+
Sbjct: 357 GSSEAGSTRQAITKGDIEEFEILIPKNDSMKSFEEITDSLICYKENLSAQSEYLLKARIL 416

Query: 402 LLKERRSS 409
           LL++   +
Sbjct: 417 LLQKMIKA 424



 Score = 55.6 bits (132), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 30/142 (21%), Positives = 54/142 (38%), Gaps = 9/142 (6%)

Query: 274 GLKPESYETYQIVDPGEIVFRFIDLQND-KRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
            +       Y+I+  G+     + ++ D K  +      +  II+ AY   K        
Sbjct: 42  NIVGSDMSKYKIIKKGQFACSLMQVRRDGKIPVALLTDFDEAIISQAYPVFKIIDDCELL 101

Query: 333 LAWLM----RSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
             +LM    RS    +  +    G+R SL++ED   + + VP   +Q  I +  N    R
Sbjct: 102 PEYLMMWMSRSEFDREACFYAVGGVRGSLEWEDFCNIELPVPNPDKQQQIVDEYNTIVNR 161

Query: 389 IDVLVEKIEQSIVLLKERRSSF 410
               ++  EQ    L+E   + 
Sbjct: 162 ----IKLNEQLSQKLEETAQTL 179


>gi|167856384|ref|ZP_02479110.1| type I restriction-modification system specificity determinant
           [Haemophilus parasuis 29755]
 gi|167852490|gb|EDS23778.1| type I restriction-modification system specificity determinant
           [Haemophilus parasuis 29755]
          Length = 166

 Score = 67.1 bits (162), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 25/160 (15%), Positives = 51/160 (31%), Gaps = 9/160 (5%)

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
            +S  N++          K  + E        +I+   I     K           G   
Sbjct: 11  YISTENLLSDYGGVTASNKLPTTEKVTAYKKNDILVSNIRPYLKKV---WQADKNGGASN 67

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVP-PIKEQ 375
              +      I+ ++L++ +++ D          G+         +   PV VP   KEQ
Sbjct: 68  DIIIIRAKPSINISFLSFAIKNDDFIDYMMKGAKGVKMPRGDLNLISIFPVAVPTSPKEQ 127

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
             I + +    + +D L+ +  + I  LK  +   +    
Sbjct: 128 QAIADCL----SSLDNLINEQNERIGRLKTHKKGLMQQLF 163



 Score = 46.3 bits (108), Expect = 0.009,   Method: Composition-based stats.
 Identities = 32/157 (20%), Positives = 55/157 (35%), Gaps = 5/157 (3%)

Query: 49  IYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICS 108
            YI  E++ S  G     +        +      K  IL   + PYL+K   AD +G  S
Sbjct: 10  NYISTENLLSDYGGVTASNKLPTTEKVTAYK---KNDILVSNIRPYLKKVWQADKNGGAS 66

Query: 109 TQFLVLQPKDVLPELLQGW-LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPP-LAE 166
              ++++ K  +      + + + D    +    +G  M   D   I   P+ +P    E
Sbjct: 67  NDIIIIRAKPSINISFLSFAIKNDDFIDYMMKGAKGVKMPRGDLNLISIFPVAVPTSPKE 126

Query: 167 QVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           Q  I + + +    I+       R     K   Q L 
Sbjct: 127 QQAIADCLSSLDNLINEQNERIGRLKTHKKGLMQQLF 163


>gi|254875064|ref|ZP_05247774.1| restriction modification system DNA specificity subunit
           [Francisella tularensis subsp. tularensis MA00-2987]
 gi|254841063|gb|EET19499.1| restriction modification system DNA specificity subunit
           [Francisella tularensis subsp. tularensis MA00-2987]
          Length = 222

 Score = 67.1 bits (162), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 9/54 (16%), Positives = 22/54 (40%)

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
             + +     + + + +PP+ EQ  I   ++     +D  +E  +Q+I      
Sbjct: 5   GMKHITKGKFENIQIPLPPLAEQKRIVAKLDSLFENVDKAIELHQQNITNANTL 58



 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 37/237 (15%), Positives = 67/237 (28%), Gaps = 17/237 (7%)

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
             G  M H       NI +P+PPLAEQ  I  K+ +    +D  I    + I        
Sbjct: 1   MHGVGMKHITKGKFENIQIPLPPLAEQKRIVAKLDSLFENVDKAIELHQQNITNANTLMA 60

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
           + +              K    E+  +            LV + N+K        ++  +
Sbjct: 61  STLDKTF----------KKLEGEYSKIALLDVMKISNKTLVPDDNQKYNY-----VVLEN 105

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
                 +L         E   +      G +++  +    +K        +    I   Y
Sbjct: 106 IEGNTGRLIDFCETQGKEIKSSKVEFKKGMVLYGKLRPYLNKVWFSEFDDVATTEILPFY 165

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVK--RLPVLVPPIKEQ 375
                         + + S  L +V           L    +K     + +PP+  Q
Sbjct: 166 PIDNTRLNMIFVKYYFLSSSYLQRVMRNCSGSRMPRLTTAFLKSEEAYIPLPPLPIQ 222



 Score = 48.6 bits (114), Expect = 0.002,   Method: Composition-based stats.
 Identities = 33/125 (26%), Positives = 56/125 (44%), Gaps = 4/125 (3%)

Query: 30  IKRFTKLNTGR-TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
           +    K++      +  +   Y+ LE++E  TG+ +       +   S+   F KG +LY
Sbjct: 79  LLDVMKISNKTLVPDDNQKYNYVVLENIEGNTGRLIDFCETQGKEIKSSKVEFKKGMVLY 138

Query: 89  GKLGPYLRKAIIADFDGICSTQFLVLQPKDV---LPELLQGWLLSIDVTQRIEAICEGAT 145
           GKL PYL K   ++FD + +T+ L   P D        ++ + LS    QR+   C G+ 
Sbjct: 139 GKLRPYLNKVWFSEFDDVATTEILPFYPIDNTRLNMIFVKYYFLSSSYLQRVMRNCSGSR 198

Query: 146 MSHAD 150
           M    
Sbjct: 199 MPRLT 203


>gi|317481753|ref|ZP_07940783.1| type I restriction modification DNA specificity domain-containing
           protein [Bifidobacterium sp. 12_1_47BFAA]
 gi|316916801|gb|EFV38193.1| type I restriction modification DNA specificity domain-containing
           protein [Bifidobacterium sp. 12_1_47BFAA]
          Length = 165

 Score = 67.1 bits (162), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 22/153 (14%), Positives = 55/153 (35%), Gaps = 6/153 (3%)

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
           +  ++  IL ++  ++ Q        +  E       + P + +         + ++  A
Sbjct: 11  SNYVDGKILWVTSQDVKQHYIENTTTMISEKGAATLTLYPSDSIVIVARSGILRHTIPVA 70

Query: 309 QVMERGIITSAY--MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLP 366
           ++ +   +      +        S  L + + S       Y       +S+ F  +K   
Sbjct: 71  KLRKPATVNQDIKVIQTVDSCDSSWLLQYFIASNKTLLREYGKTGTTVESIDFAKMKSTA 130

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
           ++VP I+EQ  I +      +R+D L+   ++ 
Sbjct: 131 LMVPYIEEQQAIGSF----FSRLDNLITLHQRK 159


>gi|15645993|ref|NP_208174.1| restriction modification system S subunit [Helicobacter pylori
           26695]
 gi|2314551|gb|AAD08423.1| restriction modification system S subunit [Helicobacter pylori
           26695]
          Length = 160

 Score = 67.1 bits (162), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 16/123 (13%), Positives = 43/123 (34%), Gaps = 4/123 (3%)

Query: 304 SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVK 363
            +    + E       + ++ P    +    + +      K+           +    +K
Sbjct: 6   GVILVILKEIATTNQGFQSLIPLEKINNEFLYYLILTLKNKLLKLASGSTFLEVSPNKIK 65

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
            L + +PP+ EQ  I N+++     +  L   I +     +  + +     ++ +  L+G
Sbjct: 66  NLLIPLPPLNEQIAIANILSDLDRYLYNLDALILKK----ESVKKALSFELLSQRKRLKG 121

Query: 424 ESQ 426
            +Q
Sbjct: 122 FNQ 124


>gi|167761883|ref|ZP_02434010.1| hypothetical protein BACSTE_00226 [Bacteroides stercoris ATCC
           43183]
 gi|167700253|gb|EDS16832.1| hypothetical protein BACSTE_00226 [Bacteroides stercoris ATCC
           43183]
          Length = 402

 Score = 67.1 bits (162), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 51/411 (12%), Positives = 119/411 (28%), Gaps = 32/411 (7%)

Query: 26  KVVPIKRFTKLNTGRTSESG---KDIIYIGLEDVESGTGKYLPKDGNSRQS-----DTST 77
           K   +     +  G +        +  YI L            K+  S+ +     D   
Sbjct: 4   KKYKLGEILDVTRGASLSGEFYATEGKYIRLTCGNFDYQNNCFKENKSKDNLYYIGDFKP 63

Query: 78  VSIFAKGQIL-------YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
             +  +G ++        G LG          +        ++ + + +  +     + S
Sbjct: 64  EFLMEEGDVITPLTEQAIGLLGSTAIIPESGKYIQSQDVAKIICKEELLDKDFAFYLISS 123

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
             V Q++ A  +   + H     I +  + IP L EQ  I + + +   +I+        
Sbjct: 124 TLVKQQLSAAAQQTKIRHTSPDKIRDCTVWIPELTEQKRIGKLLRSLDRKIELNRAINQN 183

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
              ++K+                    K SG E           +     + +     T 
Sbjct: 184 LEAMVKQLYDYWFVQ-FDFPNEEGKPYKSSGGE-------MVWNEKLKRFIPKGWESTTL 235

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPES--YETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
             E  +       + +  E+    +   +     Y   +            N   ++   
Sbjct: 236 GNECQMYQPKTLGLSELDESAKYKVYGANGVIGKYHTYNHENSEIAMACRGNSCGTVNRT 295

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVL 368
                    +  + +    I + Y+   ++      +  A+    +  L  E++  + + 
Sbjct: 296 APFSWITGNAMVIKMIDDLIHNEYIKQALQ---YANIDGAISGSGQPQLTRENLNSIKLC 352

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
            P  +    I    + + + I  +  + E +I  L  +R   +   V GQI
Sbjct: 353 KPTREL---IICF-SEQVSNIIKMYLQNESNIEELTRQRDELLPLLVNGQI 399



 Score = 36.7 bits (83), Expect = 7.8,   Method: Composition-based stats.
 Identities = 26/194 (13%), Positives = 55/194 (28%), Gaps = 19/194 (9%)

Query: 10  YKDSGVQ--WIGA----IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKY 63
           YK SG +  W       IPK W+   +    ++   +T         +GL +++  + KY
Sbjct: 209 YKSSGGEMVWNEKLKRFIPKGWESTTLGNECQMYQPKT---------LGLSELDE-SAKY 258

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPEL 123
                N       T +     +I     G               +   +V   K +   +
Sbjct: 259 KVYGANGVIGKYHTYNH-ENSEIAMACRGNSCGTVNRTAPFSWITGNAMV--IKMIDDLI 315

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
              ++        I+    G+       + + +I +  P     +   E++         
Sbjct: 316 HNEYIKQALQYANIDGAISGSGQPQLTRENLNSIKLCKPTRELIICFSEQVSNIIKMYLQ 375

Query: 184 LITERIRFIELLKE 197
             +          E
Sbjct: 376 NESNIEELTRQRDE 389


>gi|307245105|ref|ZP_07527198.1| Type I restriction enzyme EcoR124II specificity protein
           [Actinobacillus pleuropneumoniae serovar 1 str. 4074]
 gi|307254060|ref|ZP_07535907.1| Type I restriction enzyme EcoR124II specificity protein
           [Actinobacillus pleuropneumoniae serovar 9 str.
           CVJ13261]
 gi|307258516|ref|ZP_07540253.1| Type I restriction enzyme EcoR124II specificity protein
           [Actinobacillus pleuropneumoniae serovar 11 str. 56153]
 gi|306853994|gb|EFM86206.1| Type I restriction enzyme EcoR124II specificity protein
           [Actinobacillus pleuropneumoniae serovar 1 str. 4074]
 gi|306862985|gb|EFM94932.1| Type I restriction enzyme EcoR124II specificity protein
           [Actinobacillus pleuropneumoniae serovar 9 str.
           CVJ13261]
 gi|306867420|gb|EFM99271.1| Type I restriction enzyme EcoR124II specificity protein
           [Actinobacillus pleuropneumoniae serovar 11 str. 56153]
          Length = 375

 Score = 67.1 bits (162), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 45/392 (11%), Positives = 109/392 (27%), Gaps = 41/392 (10%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNS 70
           KD  V+W            +     + T  T  +   +  +  E+               
Sbjct: 8   KDCKVEW----------KSLGEIL-IRTKGTKITAGQMKELHKENAPVKIFAGGRTVAFV 56

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
             +D     I  +  I+    G    +    D       +      K+    +   +   
Sbjct: 57  DFNDIPQKDINNEPSIIVKSRGII--EFEYYDKSFSHKNEMWSYHSKNENINIKFVYYFL 114

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
                  + I     M            +PIPPL  Q  I + +   T    TL      
Sbjct: 115 KQNEPHFQNIGSKMQMPQIATPDTDKYKIPIPPLEIQEKIVKTLDIFTKLEATLEATLEA 174

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
            + L  ++     + ++T   + +    D   E +                     K+  
Sbjct: 175 ELSLRVKQYDYYRNELLTFDDDVEFITLDKISENLN--------------SMRKPIKSGL 220

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
             +  I       I+  +E           E   I + G  +            +  + +
Sbjct: 221 REKGRIPYYGASGIVDYVEDYIF-----DDEILLISEDGANLIARNTP------IAFSVL 269

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP 370
            +  +   A++      ++  ++ + + + DL           +  L  +++ ++P+   
Sbjct: 270 GKCWVNNHAHVLKFKTDVERKFVEFYLNNLDLSPFI---SGAAQPKLNKQNLNKIPIPNI 326

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
               Q  I ++++      + + + + + I L
Sbjct: 327 TFATQQKIVDILDKFDRLTNSISDGLPKEIEL 358


>gi|167571301|ref|ZP_02364175.1| restriction modification system DNA specificity domain
           [Burkholderia oklahomensis C6786]
          Length = 398

 Score = 67.1 bits (162), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 55/362 (15%), Positives = 106/362 (29%), Gaps = 31/362 (8%)

Query: 81  FAKGQILYGKLGP-----YLRKAIIADFDGICSTQFLVLQPKDVLPELLQ--GWLLSIDV 133
              G +L    G                    +   ++++    L        WL   D 
Sbjct: 33  LQDGDVLLNITGDGVTFGRGCLVPSHVLPACVNQHVMLIRTDSTLCHSGYLAAWLALQDS 92

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
              IE+   G +        I +  +P+PPL  Q  I +   A   RI+ L         
Sbjct: 93  KAYIESFNAGGSRRAITKGHIESFNVPLPPLDIQQGIADLAAALNGRIELLRQTNATLES 152

Query: 194 LLKEKKQALV-----SYIVTKGLNPDVK----MKDSGIEW----VGLVPDHWEVKPFFAL 240
           + +   ++             G  P+       K    E+    +G +P  W+V   + +
Sbjct: 153 IAQALFKSWFIDFDPVRAKVGGREPECMDAAVAKLFPAEFHESAMGRIPKGWKVGDVYEV 212

Query: 241 VTELNRKN--TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDL 298
                     +KL  S    L    I    +       PE +     + PG+IV      
Sbjct: 213 AQVTYGAPFASKLFNSEGDGLPLVRIRDLKDEAPGVWTPEVHPKGYRLRPGDIVVGMDGE 272

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLK 358
                        E   +       KP    S        +  L  +     +     L 
Sbjct: 273 FR-----AYLWGGEEAWMNQRICVFKPVNGHSAAFVRCAIAAPLAHIEATETATTVIHLG 327

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
             D+ R  ++VPP      + +  +  +  +   +   +Q+   L + R + +   ++G+
Sbjct: 328 KGDIDRFRIVVPPPD----VASAFSAISEPLYERIVAGKQNARTLSKLRDALLPRLISGK 383

Query: 419 ID 420
           + 
Sbjct: 384 LR 385



 Score = 50.6 bits (119), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 31/192 (16%), Positives = 53/192 (27%), Gaps = 14/192 (7%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGR------TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           G IPK WKV  +    ++  G        +  G  +  + + D++          G    
Sbjct: 198 GRIPKGWKVGDVYEVAQVTYGAPFASKLFNSEGDGLPLVRIRDLKD------EAPGVWTP 251

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
                      G I+ G  G + R  +    +   + +  V +P +              
Sbjct: 252 EVHPKGYRLRPGDIVVGMDGEF-RAYLWGGEEAWMNQRICVFKPVNG-HSAAFVRCAIAA 309

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
               IEA     T+ H     I    + +PP                RI           
Sbjct: 310 PLAHIEATETATTVIHLGKGDIDRFRIVVPPPDVASAFSAISEPLYERIVAGKQNARTLS 369

Query: 193 ELLKEKKQALVS 204
           +L       L+S
Sbjct: 370 KLRDALLPRLIS 381


>gi|268609387|ref|ZP_06143114.1| putative specificity protein S [Ruminococcus flavefaciens FD-1]
          Length = 183

 Score = 67.1 bits (162), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 20/128 (15%), Positives = 42/128 (32%), Gaps = 7/128 (5%)

Query: 277 PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWL 336
            +      ++  G+IVF  +    D+ S   +                 + I   YL + 
Sbjct: 56  DKERLNKYVLSDGDIVFSRVGSV-DRCSYVDSNHSGWMFSGRCLRVRPYNAIYPLYLYYF 114

Query: 337 MRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
                  +    +       S+  + +  + V VP I  Q  I  +++    +I+     
Sbjct: 115 FCMESTKRFVRNIAVGATMPSINTKLMGEIEVSVPSIDTQKRIAAILSSIDDKIE----- 169

Query: 396 IEQSIVLL 403
           +  +I LL
Sbjct: 170 LNTAINLL 177



 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 25/166 (15%), Positives = 60/166 (36%), Gaps = 15/166 (9%)

Query: 30  IKRFTKLNTGRTSES-------GKDIIYIGLEDVESGTGKYLPKD---GNSRQSDTSTVS 79
           +     + TG                  + +E +  G   +  ++    +    +     
Sbjct: 6   LGSIADIQTGPFGSQLHKEDYVQDGTPIVTVEHL--GNRVFTEQNLPMVSDADKERLNKY 63

Query: 80  IFAKGQILYGKLGPYLRKAIIADFD--GICSTQFLVLQP-KDVLPELLQGWLLSIDVTQR 136
           + + G I++ ++G   R + +       + S + L ++P   + P  L  +       + 
Sbjct: 64  VLSDGDIVFSRVGSVDRCSYVDSNHSGWMFSGRCLRVRPYNAIYPLYLYYFFCMESTKRF 123

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
           +  I  GATM   + K +G I + +P +  Q  I   + +   +I+
Sbjct: 124 VRNIAVGATMPSINTKLMGEIEVSVPSIDTQKRIAAILSSIDDKIE 169


>gi|306815514|ref|ZP_07449663.1| restriction modification system DNA specificity domain protein
           [Escherichia coli NC101]
 gi|305851176|gb|EFM51631.1| restriction modification system DNA specificity domain protein
           [Escherichia coli NC101]
          Length = 300

 Score = 67.1 bits (162), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 25/197 (12%), Positives = 68/197 (34%), Gaps = 20/197 (10%)

Query: 217 MKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKL----ETRN 272
           +K   +EW+        +      +     +   L++S   ++ YG I  +     +   
Sbjct: 11  LKGCDVEWI-------SLGNIGKFIRGNGLQKKDLVDSGFPAIHYGQIYTRYGLSADRTF 63

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
             + PE     +     +++       ++      A + ++  I+   M  +    ++ Y
Sbjct: 64  NYVSPELANKLRKAQKNDLLLATTSENDEDVVKPLAWLGDKVAISGDMMLFRHEQ-NAKY 122

Query: 333 LAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVP-------PIKEQFDITNVINV 384
           LA   +S           +G   + +   D+ ++ + +P        +  Q +I  +++ 
Sbjct: 123 LAHFFQSKIFQAQKMKYITGAKVRRVSSGDLAKITIPIPCPDNPEKSLSIQSEIVRILDK 182

Query: 385 ETARIDVLVEKIEQSIV 401
            TA    L  ++   + 
Sbjct: 183 FTALTAELTAELTAELT 199



 Score = 47.9 bits (112), Expect = 0.003,   Method: Composition-based stats.
 Identities = 29/230 (12%), Positives = 57/230 (24%), Gaps = 27/230 (11%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKRFTKLNTG----RTSESGKDIIYIGLEDVESGTGKYLPK 66
           K   V+WI           +    K   G    +          I    + +  G    +
Sbjct: 12  KGCDVEWI----------SLGNIGKFIRGNGLQKKDLVDSGFPAIHYGQIYTRYGLSADR 61

Query: 67  DGNSRQSDTSTV-SIFAKGQILYGKLGPYLRKA----IIADFDGICSTQFLVLQPKDVLP 121
             N    + +       K  +L                        S   ++ +  +   
Sbjct: 62  TFNYVSPELANKLRKAQKNDLLLATTSENDEDVVKPLAWLGDKVAISGDMMLFR-HEQNA 120

Query: 122 ELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPP-------LAEQVLIREKI 174
           + L  +  S     +      GA +       +  I +PIP        L+ Q  I   +
Sbjct: 121 KYLAHFFQSKIFQAQKMKYITGAKVRRVSSGDLAKITIPIPCPDNPEKSLSIQSEIVRIL 180

Query: 175 IAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEW 224
              T     L  E    +      +  +         +  +  K+  +EW
Sbjct: 181 DKFTALTAELTAELTAELTAELTAELTMRKKQYNYYRDQLLSFKEGEVEW 230


>gi|283797287|ref|ZP_06346440.1| type I restriction-modification system, S subunit [Clostridium sp.
           M62/1]
 gi|291074955|gb|EFE12319.1| type I restriction-modification system, S subunit [Clostridium sp.
           M62/1]
          Length = 448

 Score = 67.1 bits (162), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 39/219 (17%), Positives = 72/219 (32%), Gaps = 20/219 (9%)

Query: 219 DSGIEWVGLVPDHWEVKPFFALVT--ELNRKNTKLIESNILSLSYGNIIQKLETRNMGL- 275
               E    +PD WE      LV       K+ K      + +       KL   ++ L 
Sbjct: 13  CIADEVPFEIPDSWEWARLKNLVIKEIKRGKSPKYASDGSVYVFAQKCNVKLGEIDISLA 72

Query: 276 ------KPESYETYQIVDPGEIVFRFID--LQNDKRSLRSAQVMERGII---TSAYMAVK 324
                   E Y   + +   +I+               R +  +   II   +   +   
Sbjct: 73  KFLDMRIFEKYPVEEYMVDEDIIINSTGNGTLGRIGMFRDSDRINDSIIVPDSHVTIIRA 132

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
            + +   YL ++++ Y         GS  +  L+   +  L + +PPIKEQ  I   +  
Sbjct: 133 CNQLKKDYLFYVLKYYQPFLEKLGEGSTNQTELRPSTIAELFIPIPPIKEQEQIVTKLLE 192

Query: 385 ETARIDVLVEKIEQSIVLLKE-----RRSSFIAAAVTGQ 418
               +D L  K E ++           + S +  A+ G+
Sbjct: 193 VIPMVD-LYGKKENALQAYNTDFPTRLKKSILQEAIQGK 230



 Score = 54.0 bits (128), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 30/219 (13%), Positives = 70/219 (31%), Gaps = 25/219 (11%)

Query: 20  AIPKHWKVVPIKRFT--KLNTGRTSESGKDIIY--------IGLEDVESGTGKYLPKDGN 69
            IP  W+   +K     ++  G++ +   D           + L +++    K+L     
Sbjct: 21  EIPDSWEWARLKNLVIKEIKRGKSPKYASDGSVYVFAQKCNVKLGEIDISLAKFLDMRIF 80

Query: 70  SRQSDTSTVSIFAKGQILYGKLGP-YLRKAIIADFDGICSTQFLVLQPKDVLPELL---- 124
            +        +  +  I+    G   L +  +       +   +V      +        
Sbjct: 81  EKYPVEE--YMVDE-DIIINSTGNGTLGRIGMFRDSDRINDSIIVPDSHVTIIRACNQLK 137

Query: 125 --QGWLLSIDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
               + +       +E + EG+T  +      I  + +PIPP+ EQ  I  K++     +
Sbjct: 138 KDYLFYVLKYYQPFLEKLGEGSTNQTELRPSTIAELFIPIPPIKEQEQIVTKLLEVIPMV 197

Query: 182 D----TLITERIRFIELLKEKKQALVSYIVTKGLNPDVK 216
           D         +    +     K++++   +   L P   
Sbjct: 198 DLYGKKENALQAYNTDFPTRLKKSILQEAIQGKLVPQDP 236



 Score = 40.9 bits (94), Expect = 0.39,   Method: Composition-based stats.
 Identities = 10/76 (13%), Positives = 26/76 (34%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            IP  W  + +     +N          + ++ +  ++ G       +    ++  S  +
Sbjct: 295 DIPDSWAWIRMGSLLAVNPRNAVSDDTVVGFMPMPLLQDGFNNDHTFEEKLWKNVKSGFT 354

Query: 80  IFAKGQILYGKLGPYL 95
            FA   ++  K+ P  
Sbjct: 355 HFANNDVVIAKITPCF 370


>gi|323189850|gb|EFZ75128.1| type I restriction enzyme specificity protein [Escherichia coli
           RN587/1]
          Length = 376

 Score = 67.1 bits (162), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 48/390 (12%), Positives = 114/390 (29%), Gaps = 58/390 (14%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           +   + +  K+ TG+ +            +     G+Y+        S            
Sbjct: 17  EWKTLGQTCKIETGKLN-----------ANAAVDDGEYMFFTTAKETSKIDKFRW-DTEA 64

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           +L                       +++    + +      ++LS  + + +E     A 
Sbjct: 65  LLIAGNANVGEVKHYIGKFEAYQRTYVLTNFDENVSVRFLYFVLSHSLKKYLEERTNSAA 124

Query: 146 MSHADWKGIGNIPMPIPP-------LAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
           M++     + N P+PIP        LA Q  I   +   T     L  E     +     
Sbjct: 125 MTYIVLSTLENFPIPIPCPGNPQKSLAIQSEIVRILDKFTAVTAELTAELDMRKKQYNYY 184

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEW--VGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
           +  L+S             K+  +EW  +G V                     +     I
Sbjct: 185 RDQLLS------------FKEGEVEWKTLGEVAQFKRGTAITQ---------KQTTPGEI 223

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
             ++ G I     + +                  IV              S       + 
Sbjct: 224 PVVANGPIPTYFHSESNR------------QGETIVIARSGAY---AGYVSFWNQPIFLT 268

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
            +  +      +   ++  ++++          G+G+   ++ ++ +   + +PPI EQ 
Sbjct: 269 DAFSVHSDLKIVKPKFIYHVLQNKQEHIHAMKKGAGV-PHVRVKEFETYDIPIPPITEQD 327

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKER 406
            I ++++      + + E + + I L +++
Sbjct: 328 RIVSILDKFDTLTNSITEGLPREIELRQKQ 357



 Score = 54.4 bits (129), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 34/212 (16%), Positives = 72/212 (33%), Gaps = 22/212 (10%)

Query: 1   MKHYKAYPQYKD---SGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVE 57
           M+  K Y  Y+D   S  +  G +    +   +    +   G      +      +  V 
Sbjct: 176 MRK-KQYNYYRDQLLSFKE--GEV----EWKTLGEVAQFKRGTAITQKQTTP-GEIPVVA 227

Query: 58  SGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPK 117
           +G         ++RQ +           I+  + G Y       +     +  F V    
Sbjct: 228 NGPIPTYFHSESNRQGE----------TIVIARSGAYAGYVSFWNQPIFLTDAFSV-HSD 276

Query: 118 DVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
             + +    + +  +  + I A+ +GA + H   K      +PIPP+ EQ  I   +   
Sbjct: 277 LKIVKPKFIYHVLQNKQEHIHAMKKGAGVPHVRVKEFETYDIPIPPITEQDRIVSILDKF 336

Query: 178 TVRIDTLITERIRFIELLKEKKQALVSYIVTK 209
               +++     R IEL +++ +     + + 
Sbjct: 337 DTLTNSITEGLPREIELRQKQYEYYRDLLFSF 368



 Score = 53.3 bits (126), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 15/124 (12%), Positives = 36/124 (29%), Gaps = 8/124 (6%)

Query: 297 DLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY-AMGSGLRQ 355
              N         + +       Y+        S    + + S+ L K       S    
Sbjct: 67  IAGNANVGEVKHYIGKFEAYQRTYVLTNFDENVSVRFLYFVLSHSLKKYLEERTNSAAMT 126

Query: 356 SLKFEDVKRLPVLVP-------PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
            +    ++  P+ +P        +  Q +I  +++  TA    L  +++         R 
Sbjct: 127 YIVLSTLENFPIPIPCPGNPQKSLAIQSEIVRILDKFTAVTAELTAELDMRKKQYNYYRD 186

Query: 409 SFIA 412
             ++
Sbjct: 187 QLLS 190


>gi|315038771|ref|YP_004032339.1| type I restriction-modification system subunit S [Lactobacillus
           amylovorus GRL 1112]
 gi|312276904|gb|ADQ59544.1| type I restriction-modification system subunit S [Lactobacillus
           amylovorus GRL 1112]
          Length = 241

 Score = 67.1 bits (162), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 22/215 (10%), Positives = 67/215 (31%), Gaps = 5/215 (2%)

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
           + +  V    +P +  +++ +  +  V +       F               + I  L+ 
Sbjct: 32  IKARFVEMFGDPGLVHRENKVCNLENVAEVRSSHRIFTR-EFTKSGVPFYRGTEISLLAN 90

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
           G         +     E  +       G+++   I  +     + +++           +
Sbjct: 91  GKEPIHSYYISKARYDEITKNDSKPKIGDLLMPSICDKGQIWLVNTSKPFYYKDGRVLCI 150

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
           +      ++ +    M+     +             K   +K+L + +PP+K Q +  + 
Sbjct: 151 SPNREKFNTIFFHQYMKMKSQIEYLKIGSGSTFAEFKIFQLKKLKINIPPLKLQNEFASF 210

Query: 382 INVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           +     ++D     I++S+   +    S +    +
Sbjct: 211 V----QQVDKSKVAIQKSLDETQTLFDSLMQKYFS 241


>gi|158521274|ref|YP_001529144.1| N-6 DNA methylase [Desulfococcus oleovorans Hxd3]
 gi|158510100|gb|ABW67067.1| N-6 DNA methylase [Desulfococcus oleovorans Hxd3]
          Length = 1362

 Score = 67.1 bits (162), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 19/131 (14%), Positives = 42/131 (32%), Gaps = 3/131 (2%)

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
             + K  +       E  +    +  G+++            + +  V          + 
Sbjct: 519 GQVTKGTSWISEKAIELVKASWKLRAGDVLISKSGTIGKVGIVCNGAVGAVAASGLYVLR 578

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFY-AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
            K   ID  +L   + S +           G+   L    ++ LPV +PP++ Q  + + 
Sbjct: 579 PKDGRIDPHFLVAYLDSNECRAWLKDRASGGVINHLNKRAIENLPVPIPPLQIQHRVADE 638

Query: 382 INVETARIDVL 392
                 ++D L
Sbjct: 639 FREH--KVDAL 647



 Score = 59.8 bits (143), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 34/208 (16%), Positives = 80/208 (38%), Gaps = 12/208 (5%)

Query: 30  IKRFTKLNTGRTSESG-----KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI-FAK 83
           +    + + G           + + YI ++D+E G         + +  +    S     
Sbjct: 485 LGAIKEESMGEKQPGSLSLTIEPVPYIRIKDIEKGQVTKGTSWISEKAIELVKASWKLRA 544

Query: 84  GQILYGKLGPYLRKAIIADF--DGICSTQFLVLQPK--DVLPELLQGWLLSIDVTQRIEA 139
           G +L  K G   +  I+ +     + ++   VL+PK   + P  L  +L S +    ++ 
Sbjct: 545 GDVLISKSGTIGKVGIVCNGAVGAVAASGLYVLRPKDGRIDPHFLVAYLDSNECRAWLKD 604

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE--TVRIDTLITERIRFIELLKE 197
              G  ++H + + I N+P+PIPPL  Q  + ++            ++    +  + + E
Sbjct: 605 RASGGVINHLNKRAIENLPVPIPPLQIQHRVADEFREHKVDALNYLMVILSGKGHDSIAE 664

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWV 225
             +  +  + +   N    +  S ++ +
Sbjct: 665 WIEKTIKKLPSDMENKRFPLDLSLLDQL 692


>gi|254369156|ref|ZP_04985168.1| predicted protein [Francisella tularensis subsp. holarctica FSC022]
 gi|157122106|gb|EDO66246.1| predicted protein [Francisella tularensis subsp. holarctica FSC022]
          Length = 225

 Score = 67.1 bits (162), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 9/61 (14%), Positives = 23/61 (37%)

Query: 346 FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
              +     + +     + + + +PP+ EQ  I   ++     +D  +E  +Q+I     
Sbjct: 1   MNNLHGVGMKHITKGKFENIQIPLPPLAEQKRIVAKLDSLFENVDKAIELHQQNITNANT 60

Query: 406 R 406
            
Sbjct: 61  L 61



 Score = 58.3 bits (139), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 38/240 (15%), Positives = 71/240 (29%), Gaps = 17/240 (7%)

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
                G  M H       NI +P+PPLAEQ  I  K+ +    +D  I    + I     
Sbjct: 1   MNNLHGVGMKHITKGKFENIQIPLPPLAEQKRIVAKLDSLFENVDKAIELHQQNITNANT 60

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
              + +     K      K+    +  +               +   + +    +    +
Sbjct: 61  LMASTLDKTFKKLEGEYSKIALLDVMKI-----------SNKTLVPDDNQKYNYVGLENI 109

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
             + G +I   ET+   +K    E       G +++  + L  +K        +    I 
Sbjct: 110 EGNTGRLIDFCETQGKEIKSSKVE----FKKGIVLYGKLRLYLNKVWFSEFDDVATTEIL 165

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVK--RLPVLVPPIKEQ 375
             Y              + + S  L +V           L    +K     + +PP+  Q
Sbjct: 166 PFYPIDNTRLNMIFVKYYFLSSSYLQRVMRNYSGSRMPRLTTAFLKSEEAYIPLPPLPIQ 225



 Score = 46.7 bits (109), Expect = 0.007,   Method: Composition-based stats.
 Identities = 32/125 (25%), Positives = 55/125 (44%), Gaps = 4/125 (3%)

Query: 30  IKRFTKLNTGR-TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
           +    K++      +  +   Y+GLE++E  TG+ +       +   S+   F KG +LY
Sbjct: 82  LLDVMKISNKTLVPDDNQKYNYVGLENIEGNTGRLIDFCETQGKEIKSSKVEFKKGIVLY 141

Query: 89  GKLGPYLRKAIIADFDGICSTQFLVLQPKDV---LPELLQGWLLSIDVTQRIEAICEGAT 145
           GKL  YL K   ++FD + +T+ L   P D        ++ + LS    QR+     G+ 
Sbjct: 142 GKLRLYLNKVWFSEFDDVATTEILPFYPIDNTRLNMIFVKYYFLSSSYLQRVMRNYSGSR 201

Query: 146 MSHAD 150
           M    
Sbjct: 202 MPRLT 206


>gi|89256323|ref|YP_513685.1| hypothetical protein FTL_0976 [Francisella tularensis subsp.
           holarctica LVS]
 gi|115314771|ref|YP_763494.1| type I site-specific deoxyribonuclease [Francisella tularensis
           subsp. holarctica OSU18]
 gi|167010846|ref|ZP_02275777.1| type I site-specific deoxyribonuclease [Francisella tularensis
           subsp. holarctica FSC200]
 gi|254367657|ref|ZP_04983678.1| hypothetical protein FTHG_00927 [Francisella tularensis subsp.
           holarctica 257]
 gi|89144154|emb|CAJ79415.1| conserved hypothetical protein [Francisella tularensis subsp.
           holarctica LVS]
 gi|115129670|gb|ABI82857.1| type I site-specific deoxyribonuclease [Francisella tularensis
           subsp. holarctica OSU18]
 gi|134253468|gb|EBA52562.1| hypothetical protein FTHG_00927 [Francisella tularensis subsp.
           holarctica 257]
          Length = 775

 Score = 67.1 bits (162), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 22/138 (15%), Positives = 50/138 (36%), Gaps = 3/138 (2%)

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
           I+     N       Y+   +++ G ++        +   L   +       +  ++   
Sbjct: 626 IKDNYINNKPFYVNKYKESDLIEKGTLLITRKGTVGNSYYL--DKDGSFVASSEIFIIKL 683

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
              ++  YL+ +  S  + K +    +G    SL    +K + + +PP++ Q  I   I 
Sbjct: 684 NDKVNGNYLSEINLSSFVKKQYREKSTGTIMPSLSQPKLKSILIPLPPLEIQNHIAVRIQ 743

Query: 384 VETARIDVLVEKIEQSIV 401
                I  L ++ EQ+  
Sbjct: 744 KLKDYIKALEQQAEQNRE 761



 Score = 46.7 bits (109), Expect = 0.007,   Method: Composition-based stats.
 Identities = 30/175 (17%), Positives = 60/175 (34%), Gaps = 8/175 (4%)

Query: 33  FTKLNTGRTSES--GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGK 90
           F  LN G  + +     I Y+ + D++       P   N  +       +  KG +L  +
Sbjct: 601 FVSLNNGIAARNYASDGIRYLKVSDIKDNYINNKPFYVNKYKESD----LIEKGTLLITR 656

Query: 91  LGPYLRKAIIA-DFDGICSTQFLVLQPKDVLPELLQGWLLSIDV-TQRIEAICEGATMSH 148
            G       +  D   + S++  +++  D +       +       ++      G  M  
Sbjct: 657 KGTVGNSYYLDKDGSFVASSEIFIIKLNDKVNGNYLSEINLSSFVKKQYREKSTGTIMPS 716

Query: 149 ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
                + +I +P+PPL  Q  I  +I      I  L  +  +  E      +A +
Sbjct: 717 LSQPKLKSILIPLPPLEIQNHIAVRIQKLKDYIKALEQQAEQNRENALRNFEAEI 771


>gi|332983074|ref|YP_004464515.1| restriction modification system DNA specificity domain-containing
           protein [Mahella australiensis 50-1 BON]
 gi|332700752|gb|AEE97693.1| restriction modification system DNA specificity domain protein
           [Mahella australiensis 50-1 BON]
          Length = 215

 Score = 67.1 bits (162), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 28/198 (14%), Positives = 67/198 (33%), Gaps = 13/198 (6%)

Query: 228 VPDHWEVKPFFALVTELNRKNTKLIES----NILSLSYGNIIQKLETR----NMGLKPES 279
            PD  E +    + T     N +  +      +  + YG I              +  E+
Sbjct: 12  CPDGVEYRKLGDVATISRGGNFQKKDCVADGEVPCIHYGQIHTYYNLFVDKTISYISKET 71

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
            +  +  +  +IV        D      A + +  I    + A+  H ++  YL + + S
Sbjct: 72  AKKQKFAETNDIVMAVTSENIDDVCKCIAWLGKGKIAVGGHTAIIHHLLNPKYLVYFLSS 131

Query: 340 YDLCKVFYAMGSGLRQ-SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
               +    +  G +   +  + +  + + VPP+  Q +I  +++  T     L   +  
Sbjct: 132 SLFYQQKVKLAHGTKVIEVTPDKLVDIIIPVPPLPVQQEIVRILDNFTELTTELTTDLTA 191

Query: 399 SIVLLKE----RRSSFIA 412
            +   ++     R   ++
Sbjct: 192 ELTARQKQYEYYRDKLLS 209



 Score = 57.1 bits (136), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 24/198 (12%), Positives = 62/198 (31%), Gaps = 10/198 (5%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGK-----DIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           P   +   +     ++ G   +        ++  I    + +    ++ K  +    +T+
Sbjct: 13  PDGVEYRKLGDVATISRGGNFQKKDCVADGEVPCIHYGQIHTYYNLFVDKTISYISKETA 72

Query: 77  TVSIF-AKGQILYG----KLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
               F     I+       +    +         I       +    + P+ L  +L S 
Sbjct: 73  KKQKFAETNDIVMAVTSENIDDVCKCIAWLGKGKIAVGGHTAIIHHLLNPKYLVYFLSSS 132

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
              Q+   +  G  +       + +I +P+PPL  Q  I   +   T     L T+    
Sbjct: 133 LFYQQKVKLAHGTKVIEVTPDKLVDIIIPVPPLPVQQEIVRILDNFTELTTELTTDLTAE 192

Query: 192 IELLKEKKQALVSYIVTK 209
           +   +++ +     +++ 
Sbjct: 193 LTARQKQYEYYRDKLLSF 210


>gi|124009162|ref|ZP_01693844.1| type I site-specific deoxyribonuclease [Microscilla marina ATCC
           23134]
 gi|123985260|gb|EAY25187.1| type I site-specific deoxyribonuclease [Microscilla marina ATCC
           23134]
          Length = 491

 Score = 67.1 bits (162), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 58/433 (13%), Positives = 129/433 (29%), Gaps = 55/433 (12%)

Query: 27  VVPIKRFTKLNTGRTSESGKD--------IIYIGLEDVE--SGTGKYLPKDGNSRQSDTS 76
           V  +    K   GR     ++          +I   D+   S +   +       +   +
Sbjct: 48  VYKLLDVIKTQRGRFGHRPRNDPAFYGGKYPFIQTGDIVKASQSDGKVVYSQTLNEKGVN 107

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
           T  +F    +L   +   +    I D+        + L PKD    +    +    +   
Sbjct: 108 TSRLFQPN-VLVMTIAANIGDTAILDYPACFPDSLIALYPKDKRLNINYLNVYFKFIKPY 166

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI---- 192
           +E +   +   + + + + +IP+ +PP   Q  I  K           + +  + +    
Sbjct: 167 LEKLAPQSAQKNINIQQLSSIPIIVPPEDRQRQICLKYDKVVHVKQQKLEQAQQLLVGIN 226

Query: 193 -----------ELLKEKKQALV----SYIVTKG-LNPDVKMKDSGIEWVGLVPDHWEVKP 236
                             Q+ +       V+ G  +P    K+       +  + ++   
Sbjct: 227 HYLLKELGIVLPKKDTSLQSRIFTVPMRAVSGGRFDPKRYDKNVKDLKGAIEGNRFDSTK 286

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNI-----IQKLETRNMGLKPESYETYQI------ 285
              L+      +    E+      Y         +     N+ LK    +   I      
Sbjct: 287 LKTLIVSSRAGDWGKDENTNPGSEYCRCLVVRATEFDNVYNLKLKNNRVKHRLIHQEKIK 346

Query: 286 ---VDPGEIVFRFIDLQ-----NDKRSLRSAQVMERGIITSAYM---AVKPHGIDSTYLA 334
              + P +++                 LR   +++  I  S ++    V    +   YL 
Sbjct: 347 EIDIRPNDLLIEKSGGSQDQPVGRVAILREELLVKEQICYSNFIHKIRVNSQKVLPEYLF 406

Query: 335 WLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
             +++    K+  AM S     ++L   D     + +P + +Q  I   I     R   L
Sbjct: 407 CFLKTVHHIKLTDAMQSQTNGIRNLIMPDYLEQTIPLPNLAKQSAIVAHIQDLRDRAKQL 466

Query: 393 VEKIEQSIVLLKE 405
             +  Q++   K+
Sbjct: 467 QAEANQALAQAKQ 479



 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/167 (8%), Positives = 51/167 (30%), Gaps = 8/167 (4%)

Query: 241 VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQN 300
                R +          +  G+I++  ++    +  ++     +          + +  
Sbjct: 62  FGHRPRNDPAFYGGKYPFIQTGDIVKASQSDGKVVYSQTLNEKGVNTSRLFQPNVLVMTI 121

Query: 301 DKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKF 359
                 +A +        + +A+ P           +    +      +     ++++  
Sbjct: 122 AANIGDTAILDYPACFPDSLIALYPKDKRLNINYLNVYFKFIKPYLEKLAPQSAQKNINI 181

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
           + +  +P++VPP   Q  I         + D +V   +Q +   ++ 
Sbjct: 182 QQLSSIPIIVPPEDRQRQI-------CLKYDKVVHVKQQKLEQAQQL 221


>gi|225854394|ref|YP_002735906.1| type I restriction enzyme [Streptococcus pneumoniae JJA]
 gi|303260414|ref|ZP_07346383.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP-BS293]
 gi|303265060|ref|ZP_07350974.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae BS397]
 gi|225722976|gb|ACO18829.1| type I restriction enzyme [Streptococcus pneumoniae JJA]
 gi|302638449|gb|EFL68915.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP-BS293]
 gi|302645420|gb|EFL75653.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae BS397]
          Length = 195

 Score = 66.7 bits (161), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 20/161 (12%), Positives = 49/161 (30%), Gaps = 19/161 (11%)

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
            ++ +     + +   IV+ G+I+  +                   ++      V    I
Sbjct: 39  TSKGINYYSGTIDKKYIVEAGDILISWSGTLG-----VFQWCGRSAVLNQHIFKVVFDKI 93

Query: 329 DSTYLAW-LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           D     +  +    L            + L  +    + V    + EQ  I + +++ + 
Sbjct: 94  DIDKSYFKYVVEKGLQDAVKHTHGSTMKHLTKKYFDNIIVPYTNLGEQQRIASELDLLSK 153

Query: 388 RI----DVLVEK---------IEQSIVLLKERRSSFIAAAV 415
            I    + L E          I++S+  L+  + S +    
Sbjct: 154 LILRRQEQLEELNLLVKSQLAIQKSLEELETLKKSLMQEYF 194



 Score = 63.7 bits (153), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 29/169 (17%), Positives = 46/169 (27%), Gaps = 2/169 (1%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V + +      G   +  +D    G E +         K  N          I   G 
Sbjct: 2   KKVKLGQVATFINGYAFKP-QDWSSEGKEIIRIQNLTKTSKGINYYSGTIDKKYIVEAGD 60

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           IL    G  L          + +     +    +  +      +     Q       G+T
Sbjct: 61  ILISWSGT-LGVFQWCGRSAVLNQHIFKVVFDKIDIDKSYFKYVVEKGLQDAVKHTHGST 119

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           M H   K   NI +P   L EQ  I  ++   +  I     +      L
Sbjct: 120 MKHLTKKYFDNIIVPYTNLGEQQRIASELDLLSKLILRRQEQLEELNLL 168


>gi|332877500|ref|ZP_08445247.1| type I restriction modification DNA specificity domain protein
           [Capnocytophaga sp. oral taxon 329 str. F0087]
 gi|332684606|gb|EGJ57456.1| type I restriction modification DNA specificity domain protein
           [Capnocytophaga sp. oral taxon 329 str. F0087]
          Length = 373

 Score = 66.7 bits (161), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 52/392 (13%), Positives = 97/392 (24%), Gaps = 38/392 (9%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W    +     +               G   V+  T            +  +T S   + 
Sbjct: 8   WLSCTLDSVCDIQ-------------FGTRIVKKQTEAGQYYVYGGGGATFTTKSYNREN 54

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            I   +           +     +   L L PK  L            +  +I ++  GA
Sbjct: 55  AITVSRFALSKECTRFIEGKFFLNDSGLTLHPKTNLLLFQFLKWHVFALNDKIYSLARGA 114

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
              + D K    + + +P   EQ  I  ++      +  +I      I  L    Q++  
Sbjct: 115 AQKNLDVKRFSKLLIKLPKNNEQCTIATELD----TLQKMIDGYKAQIADLDVLAQSIFV 170

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
                    D       +  +G   +                          LS      
Sbjct: 171 DTFGNVAVNDKCWDIIQMGQLGNFKNGLNYSKGEIGKPLKIIGVGDFQNIKCLS------ 224

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQND--KRSLRSAQVMERGIITSAYMA 322
                     +  E      ++   +IVF   +   +   R L           +   + 
Sbjct: 225 ---SFDNISYINIEDISQEYLLHNEDIVFVRSNGNKNLVGRCLEVFPNSTEVTFSGFCIR 281

Query: 323 VKPHGIDSTYLAWLMRSYDLCK--VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
            +              +    K            Q++  + +  LP+ VPPI  Q     
Sbjct: 282 FRKSVEIINKYLIATLTDIGFKNTHILKSNGIGIQNINQKLLSSLPIPVPPIGMQKKYAA 341

Query: 381 VINVETARIDVLVEKIEQSI----VLLKERRS 408
            +      I+   E I Q +     L+KER  
Sbjct: 342 QVEA----IEKQKELIRQQLADAETLMKERMQ 369


>gi|156502396|ref|YP_001428461.1| putative N-6 DNA methylase [Francisella tularensis subsp.
           holarctica FTNF002-00]
 gi|290952883|ref|ZP_06557504.1| putative N-6 DNA methylase [Francisella tularensis subsp.
           holarctica URFT1]
 gi|295313928|ref|ZP_06804493.1| putative N-6 DNA methylase [Francisella tularensis subsp.
           holarctica URFT1]
 gi|156252999|gb|ABU61505.1| putative N-6 DNA methylase [Francisella tularensis subsp.
           holarctica FTNF002-00]
          Length = 775

 Score = 66.7 bits (161), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 22/138 (15%), Positives = 50/138 (36%), Gaps = 3/138 (2%)

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
           I+     N       Y+   +++ G ++        +   L   +       +  ++   
Sbjct: 626 IKDNYINNKPFYVNKYKESDLIEKGTLLITRKGTVGNSYYL--DKDGSFVASSEIFIIKL 683

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
              ++  YL+ +  S  + K +    +G    SL    +K + + +PP++ Q  I   I 
Sbjct: 684 NDKVNGNYLSEINLSSFVKKQYREKSTGTIMPSLSQPKLKSILIPLPPLEIQNHIAVRIQ 743

Query: 384 VETARIDVLVEKIEQSIV 401
                I  L ++ EQ+  
Sbjct: 744 KLKDYIKALEQQAEQNRE 761



 Score = 46.3 bits (108), Expect = 0.008,   Method: Composition-based stats.
 Identities = 30/175 (17%), Positives = 60/175 (34%), Gaps = 8/175 (4%)

Query: 33  FTKLNTGRTSES--GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGK 90
           F  LN G  + +     I Y+ + D++       P   N  +       +  KG +L  +
Sbjct: 601 FVSLNNGIAARNYASDGIRYLKVSDIKDNYINNKPFYVNKYKESD----LIEKGTLLITR 656

Query: 91  LGPYLRKAIIA-DFDGICSTQFLVLQPKDVLPELLQGWLLSIDV-TQRIEAICEGATMSH 148
            G       +  D   + S++  +++  D +       +       ++      G  M  
Sbjct: 657 KGTVGNSYYLDKDGSFVASSEIFIIKLNDKVNGNYLSEINLSSFVKKQYREKSTGTIMPS 716

Query: 149 ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
                + +I +P+PPL  Q  I  +I      I  L  +  +  E      +A +
Sbjct: 717 LSQPKLKSILIPLPPLEIQNHIAVRIQKLKDYIKALEQQAEQNRENALRNFEAEI 771


>gi|269978342|gb|ACZ55905.1| putative type I restriction-modification system specificity subunit
           S [Helicobacter pylori]
          Length = 374

 Score = 66.7 bits (161), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 50/396 (12%), Positives = 109/396 (27%), Gaps = 67/396 (16%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           P+  +   ++   ++  G T        +      ++GT  +   +           SI 
Sbjct: 13  PEGVEFKTLEEVFEIKNGYTPSKNNPEFW------KNGTIPWFRMEDIRENGRILKDSI- 65

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
                                                        +     + +  +   
Sbjct: 66  --------------------------------------------QFYQCFLLGEWCKKNT 81

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
             +  +  D         PIPPL  Q  I + + A T     L TE    ++  K++ Q 
Sbjct: 82  NVSGFASVDMTAFKKYKFPIPPLEIQQEIVKILDAFTELNTELNTELNTELKARKKQYQ- 140

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLV---------PDHWEVKPFFALVTELNRKNTKLI 252
               ++    + +   KD+ I+              P   E K    L       N    
Sbjct: 141 YYQNMLLDFNDINSNHKDAKIKSYPKRLKTLLQTLAPKGVEFKKVGELFKRNKGINITAA 200

Query: 253 ESNILSLSYGN-IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
           +   L    G   I         +  +      I++   ++ +       +   +     
Sbjct: 201 QMKELHSEIGKVRIFAGGATKADINYKDISKKDIINCESVIIKSRGNIGFEYYNQPFSHK 260

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVP 370
                 S+    K + +   +L + + +        A  S ++   L   D     V +P
Sbjct: 261 NEIWSYSS----KTNQMLVKFLYYYLSNNQDYFQKLAQSSSVKLPQLSVSDTDEYEVPIP 316

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
           P++ Q +I  +++  +     L+  I   I   K++
Sbjct: 317 PLEIQQEIVKILDQFSILTTDLLAGIPAEIKARKKQ 352


>gi|158522736|ref|YP_001530606.1| restriction modification system DNA specificity subunit
           [Desulfococcus oleovorans Hxd3]
 gi|158511562|gb|ABW68529.1| restriction modification system DNA specificity domain
           [Desulfococcus oleovorans Hxd3]
          Length = 500

 Score = 66.7 bits (161), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 56/396 (14%), Positives = 122/396 (30%), Gaps = 30/396 (7%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
            +            ++G  +            GKY     +  Q+          G +++
Sbjct: 5   KLNNLFDFLPKSKVKAGDGL----------EDGKYPFYTSSENQAKYLDEFQHEPGCLVF 54

Query: 89  GKLGPYLRKAIIADFDGICSTQFLVLQPKDV-LPELLQGWLLSIDVTQRIEAICEGATMS 147
           G  G               ST  + ++PK     +    +       Q +E+  +GA + 
Sbjct: 55  GTGG--KASVHFTTSRFATSTDCITIRPKPNAKIDASYVFQYFKGNIQVLESGFKGAGLK 112

Query: 148 HADWKGIGNIPMPIPP-LAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYI 206
           H     + +I +P P  + +Q  I   +      I        +  +L       L S  
Sbjct: 113 HISKTYLSDILIPFPKEIDDQKRIAHLLGKVEGLIAQRKQNLQQLDDL-------LKSVF 165

Query: 207 VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ 266
           +    +P    K    E +  +      +  F+     + K    +   I +        
Sbjct: 166 LEMFGDPVRNEKGWETERLVEIAS--IERGRFSPRPRNDPKYYNGVHPFIQTGDINRSNG 223

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
           +L      L     +  +    G IV   +     + ++          +          
Sbjct: 224 RLREYTQTLNELGIKVSKEFKVGTIVIAIVGATIGETAILEIPTYAPDSVIGITPKGNNS 283

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
             +S ++ +++R      +  A      R ++  E ++ LPV+ P       I    +V 
Sbjct: 284 AAESIFIEYILR--FWKPILRAKAPEAARANINIETLRPLPVIRPQSD--DRI--KFSVI 337

Query: 386 TARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           + +I+ +    +QS+  L+    +    A  G++DL
Sbjct: 338 STKIEGIKSSYQQSLAELENLYGALSQKAFKGELDL 373



 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 28/200 (14%), Positives = 63/200 (31%), Gaps = 14/200 (7%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNSRQSD 74
           K W+   +     +  GR S   ++          +I   D+    G+         +  
Sbjct: 177 KGWETERLVEIASIERGRFSPRPRNDPKYYNGVHPFIQTGDINRSNGRLREYTQTLNELG 236

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP--ELLQGWLLSID 132
                 F  G I+   +G  + +  I +         + + PK      E +    +   
Sbjct: 237 IKVSKEFKVGTIVIAIVGATIGETAILEIPTYAPDSVIGITPKGNNSAAESIFIEYILRF 296

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
               + A    A  ++ + + +     P+P +  Q   R K    + +I+ + +   + +
Sbjct: 297 WKPILRAKAPEAARANINIETL----RPLPVIRPQSDDRIKFSVISTKIEGIKSSYQQSL 352

Query: 193 ELLKEKKQALVSYIVTKGLN 212
             L+    AL        L+
Sbjct: 353 AELENLYGALSQKAFKGELD 372


>gi|218282510|ref|ZP_03488760.1| hypothetical protein EUBIFOR_01342 [Eubacterium biforme DSM 3989]
 gi|218216497|gb|EEC90035.1| hypothetical protein EUBIFOR_01342 [Eubacterium biforme DSM 3989]
          Length = 365

 Score = 66.7 bits (161), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 46/379 (12%), Positives = 112/379 (29%), Gaps = 27/379 (7%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
           V +   TK+ TG+              +  S  GKY     +      ++ S +    +L
Sbjct: 3   VKVGEITKIKTGKLD-----------ANASSADGKYPFFTCSKDPLRINSYS-YDCECVL 50

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMS 147
               G    K     FD      +++    + L  +   +         +     G  + 
Sbjct: 51  VAGNGDLNVKYYNGKFDAY-QRTYIIEDNSNGLLYMPYLYHFLEGYIGELRKQSIGGVIK 109

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
           +     + ++ + +P + EQ  I   +      I+       +   L       + +  +
Sbjct: 110 YIKLGNLTDVLVELPSIVEQKYIVNLMNISLELIELRKKTIDKLDSL-------VKARFI 162

Query: 208 TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK 267
               +P           +            +   ++     + +    I     G +   
Sbjct: 163 EMFGDPYTNPLKWEKLKIKDAVTVEPQNGLYKPQSDYVTDRSGIPILRIDGFYDGIVTDF 222

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK--P 325
              + +       + Y +++   ++ R   ++   +      ++E  +  S  M +   P
Sbjct: 223 ASLKRLKCSETEKQKYLLLEDDIVINRVNSIEYLGKCAHIKGLLEDTVYESNMMRMHFDP 282

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
              +S Y+  L+ S  +             + S+  +DV    +  PPI  Q    + I 
Sbjct: 283 ETYNSVYICKLLCSQFIYDQIVNHAKKAVNQASINQKDVLDFNIYQPPIDLQNQFADFIQ 342

Query: 384 VETAR---IDVLVEKIEQS 399
                   I   + ++E+ 
Sbjct: 343 QVDKSRFDIKKSIIELERE 361



 Score = 41.3 bits (95), Expect = 0.33,   Method: Composition-based stats.
 Identities = 15/105 (14%), Positives = 40/105 (38%), Gaps = 4/105 (3%)

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKR 364
           ++           +  +    +G+      +      + ++      G+ + +K  ++  
Sbjct: 59  VKYYNGKFDAYQRTYIIEDNSNGLLYMPYLYHFLEGYIGELRKQSIGGVIKYIKLGNLTD 118

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
           + V +P I EQ  I N++N+       L+E  +++I  L     +
Sbjct: 119 VLVELPSIVEQKYIVNLMNISLE----LIELRKKTIDKLDSLVKA 159


>gi|253730781|ref|ZP_04864946.1| EcoA family type I restriction-modification enzyme, S subunit
           [Staphylococcus aureus subsp. aureus USA300_TCH959]
 gi|253725494|gb|EES94223.1| EcoA family type I restriction-modification enzyme, S subunit
           [Staphylococcus aureus subsp. aureus USA300_TCH959]
          Length = 347

 Score = 66.7 bits (161), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 49/352 (13%), Positives = 105/352 (29%), Gaps = 32/352 (9%)

Query: 24  HWKVVPIKRFTKLNTG--RTSE-SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
            W+   +    K+  G  +T + + + I ++ +E++++       K  +    +      
Sbjct: 20  EWEEKKLGEVAKIYDGTHQTPKYTNEGIKFLSVENIKTLNS---SKYISEEAFEKEFKIR 76

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR--IE 138
              G IL  ++G      I++  +       L L     L       L+     Q     
Sbjct: 77  PEFGDILMTRIGDIGTPNIVSSNEKFAYYVSLALLKTKNLNSYFLKNLILSSSIQNELWR 136

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
                A     +   IG I +  P   EQ  I +       +I+    +     +  K  
Sbjct: 137 KTLHVAFPKKINKNEIGKIKINYPKKQEQQKIGQFFSKLDRQIELEEQKLELLQQQKKGY 196

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
            Q + S  +               +  G     WE + F  +    N+    + E+  + 
Sbjct: 197 MQKIFSQELRFK------------DENGNDYPEWEERRFADIFKFHNKLRKPIKENLRVK 244

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR-SAQVMERGIIT 317
            SY                  Y    I D   ++          RS      V  +  + 
Sbjct: 245 GSYPYYGATGII--------DYVDDFIFDGNYLLIGEDGANIITRSAPLVYLVNGKFWVN 296

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
           +    + P   +   + +L +  +L           +  L  +++K + V++
Sbjct: 297 NHAHILSPLNGN---IQYLYQVAELVNYEKYNTGTAQPKLNIQNLKIISVVI 345



 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 22/151 (14%), Positives = 52/151 (34%), Gaps = 5/151 (3%)

Query: 241 VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQN 300
           + +   +  K     I  LS  NI     ++ +  +    E     + G+I+   I    
Sbjct: 32  IYDGTHQTPKYTNEGIKFLSVENIKTLNSSKYISEEAFEKEFKIRPEFGDILMTRIGDIG 91

Query: 301 DKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG--SGLRQSLK 358
               + S    E+     +   +K   ++S +L  L+ S  +    +         + + 
Sbjct: 92  TPNIVSSN---EKFAYYVSLALLKTKNLNSYFLKNLILSSSIQNELWRKTLHVAFPKKIN 148

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARI 389
             ++ ++ +  P  +EQ  I    +    +I
Sbjct: 149 KNEIGKIKINYPKKQEQQKIGQFFSKLDRQI 179


>gi|229547175|ref|ZP_04435900.1| restriction modification system DNA specificity domain protein
           [Enterococcus faecalis TX1322]
 gi|229307705|gb|EEN73692.1| restriction modification system DNA specificity domain protein
           [Enterococcus faecalis TX1322]
          Length = 174

 Score = 66.7 bits (161), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 30/170 (17%), Positives = 56/170 (32%), Gaps = 8/170 (4%)

Query: 231 HWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGE 290
                   A   E + KN  L  ++I   S   I  KL + N+ +      +  I+  G+
Sbjct: 12  DHFEYGLNASAIEYDGKNKYLRITDIDDSSRKFIQNKLTSPNINV---EEASNYILTVGD 68

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG 350
           I+F        K      +  +         A      DS ++ W   +         M 
Sbjct: 69  ILFARTGASVGKTYRYDIKDGKVYFAGFLIRARIKDSFDSEFVYWTTLTDRYNTFIKIMS 128

Query: 351 S-GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
               +  +  ++     +L+P IKEQ  I   +     +ID  +   ++ 
Sbjct: 129 QRSGQPGINAKEYSSFNILIPNIKEQQKIGAFL----KKIDDTIALHQRK 174



 Score = 56.7 bits (135), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 23/168 (13%), Positives = 50/168 (29%), Gaps = 10/168 (5%)

Query: 24  HWKVVPIKRFTKLN----TGRTSESGKDIIYIGLEDVESGTGKYLPKDGNS--RQSDTST 77
            W++  +                E      Y+ + D++  + K++     S     + ++
Sbjct: 1   DWELCKLGDVADHFEYGLNASAIEYDGKNKYLRITDIDDSSRKFIQNKLTSPNINVEEAS 60

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFD----GICSTQFLVLQPKDVLPELLQGWLLSIDV 133
             I   G IL+ + G  + K    D                       E +    L+   
Sbjct: 61  NYILTVGDILFARTGASVGKTYRYDIKDGKVYFAGFLIRARIKDSFDSEFVYWTTLTDRY 120

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
              I+ + + +     + K   +  + IP + EQ  I   +      I
Sbjct: 121 NTFIKIMSQRSGQPGINAKEYSSFNILIPNIKEQQKIGAFLKKIDDTI 168


>gi|166366728|ref|YP_001659001.1| type I restriction-modification system [Microcystis aeruginosa
           NIES-843]
 gi|166089101|dbj|BAG03809.1| type I restriction-modification system [Microcystis aeruginosa
           NIES-843]
          Length = 240

 Score = 66.7 bits (161), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 35/192 (18%), Positives = 65/192 (33%), Gaps = 9/192 (4%)

Query: 222 IEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYE 281
           I      P    V      V   + +    I   I      +I   + T  +    E   
Sbjct: 40  IGEFEQQPLGNFVDVVSRSVNPRSSRYAGQIFEYIDLREVDDIYGYILTLKLNQGNEIGS 99

Query: 282 TYQIVDPGEIVFRFI--DLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR- 338
           T       +I+F  I   L N K +L +  V    + ++ ++ ++        L +L R 
Sbjct: 100 TKHRFQKNDILFAKIMPSLANKKIALVTQDVT-NAVASTEFIVLRKKSQAEINLYYLFRA 158

Query: 339 --SYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
             S    +   A  +G   RQ +    +  L ++VPP + Q  I + +  E   +  L  
Sbjct: 159 LRSDHFTRQATANVTGATGRQRISPSRLLELQIIVPPEEIQTQIGDAVEQEFT-LRTLAA 217

Query: 395 KIEQSIVLLKER 406
           +  +    L + 
Sbjct: 218 EQSKKADDLAQL 229



 Score = 45.6 bits (106), Expect = 0.014,   Method: Composition-based stats.
 Identities = 38/169 (22%), Positives = 60/169 (35%), Gaps = 14/169 (8%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDI-----IYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           +  P+  F  + +   +            YI L +V+   G  L    N      ST   
Sbjct: 44  EQQPLGNFVDVVSRSVNPRSSRYAGQIFEYIDLREVDDIYGYILTLKLNQGNEIGSTKHR 103

Query: 81  FAKGQILYGKLGPYLRKAII-----ADFDGICSTQFLVLQPKDV---LPELLQGWLLSID 132
           F K  IL+ K+ P L    I        + + ST+F+VL+ K         L   L S  
Sbjct: 104 FQKNDILFAKIMPSLANKKIALVTQDVTNAVASTEFIVLRKKSQAEINLYYLFRALRSDH 163

Query: 133 VTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
            T++  A   GAT         +  + + +PP   Q  I + +  E   
Sbjct: 164 FTRQATANVTGATGRQRISPSRLLELQIIVPPEEIQTQIGDAVEQEFTL 212


>gi|332074786|gb|EGI85259.1| type I restriction modification DNA specificity domain protein
           [Streptococcus pneumoniae GA17570]
          Length = 191

 Score = 66.7 bits (161), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 23/149 (15%), Positives = 53/149 (35%), Gaps = 11/149 (7%)

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
           + +      +K       + V  G  +            L     +  G +    ++   
Sbjct: 37  KYINNVKEKIKKSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLA---ISNYE 93

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
           + ++  YL +++ S  +   F ++ SG   ++L  + V  + + +PP+ EQ  I   I  
Sbjct: 94  NSLNKDYLFYILSSNVVYSQFLSLISGAVVKNLNSDKVASILIPLPPLAEQQRIIEAIES 153

Query: 385 ETARIDV-------LVEKIEQSIVLLKER 406
              ++D        L +  ++    LK  
Sbjct: 154 ALEKVDEYAESYNRLEQLDKKFPDKLKNL 182



 Score = 53.3 bits (126), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 37/185 (20%), Positives = 70/185 (37%), Gaps = 9/185 (4%)

Query: 34  TKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
            ++  G +    KD        I +I + D E G           ++S  +      KG 
Sbjct: 2   VEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINNVKEKIKKSGLNKTRFVKKGT 61

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID-VTQRIEAICEGA 144
            L      + R  I+     I      +   ++ L +    ++LS + V  +  ++  GA
Sbjct: 62  FLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYLFYILSSNVVYSQFLSLISGA 121

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
            + + +   + +I +P+PPLAEQ  I E I +   ++D       R  +L K+    L +
Sbjct: 122 VVKNLNSDKVASILIPLPPLAEQQRIIEAIESALEKVDEYAESYNRLEQLDKKFPDKLKN 181

Query: 205 YIVTK 209
                
Sbjct: 182 LFFNM 186


>gi|188518460|ref|ZP_03003947.1| restriction-modification enzyme MpuUVI S subunit [Ureaplasma
           urealyticum serovar 11 str. ATCC 33695]
 gi|188997991|gb|EDU67088.1| restriction-modification enzyme MpuUVI S subunit [Ureaplasma
           urealyticum serovar 11 str. ATCC 33695]
          Length = 391

 Score = 66.7 bits (161), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 47/399 (11%), Positives = 116/399 (29%), Gaps = 38/399 (9%)

Query: 28  VPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           + +K       G T  S +          I      +G   Y+               ++
Sbjct: 3   IKLKDIIYAKRGSTITSNEFKINPGSYPLISASAQNNGVFGYINS------------YMY 50

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR-IEAI 140
             G I     G         D     S   ++    + +      +          I+++
Sbjct: 51  EGGHITISMNGNAGCVFYQKDKFSANSDVLVLSNIDNKISNNKFIFYWLKKHENTKIKSL 110

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
           C+G T        + N+ + +PP+ EQ  I   I                      +K  
Sbjct: 111 CKGTTRLRLSNDDVLNLEINLPPIEEQNAIISIIEPHEKLFVKYSNLVDISSVENAKKDV 170

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
             +  I+         +K+  I++      +      ++ + + N K   L +   ++  
Sbjct: 171 DNLISIIEPIEKVINNIKN--IKFKIESLVNKYFDFLYSNLEDSNFKKYILGDLFTINRG 228

Query: 261 YGNIIQKLETRNMGL-------KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
                + +E+            K      Y      +  F  I            Q    
Sbjct: 229 QIINSKYIESNIGSYPVISSNTKNNGVFGYINSYMYDGEFITISADGAYAGTVFLQNGRF 288

Query: 314 GIITSAYMAVKPHGID----STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
            I    ++ +K + ID    + ++ ++++         +     R +++   +K + + +
Sbjct: 289 SITNVCFILIKNNDIDFKFSNKFVYYILKKEQEVNKLKSQVGSSRPAVREYSLKEIKINL 348

Query: 370 PPIKEQFDITNV------INVETARIDVLVEKIEQSIVL 402
           P I+ Q   + +      ++ +  +I+ ++      I  
Sbjct: 349 PNIEIQEKFSKIVEPLLNLSTKANKIEKILNDSLLKITK 387


>gi|312278975|gb|ADQ63632.1| type I restriction-modification system specificty subunit
           [Streptococcus thermophilus ND03]
          Length = 94

 Score = 66.7 bits (161), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 19/96 (19%), Positives = 42/96 (43%), Gaps = 7/96 (7%)

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFD 377
           +  M ++P GID  Y    +    L K+     +     +  + ++   +L+P ++EQ  
Sbjct: 3   TNMMVLEPKGIDPEYRYTFINKTGLYKIAD---TSTIPQINNKHIEPYLLLIPSLEEQHK 59

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           I +        +D  +   ++ + LLKE++  F+  
Sbjct: 60  IGSF----FKHLDETIALHQRKLDLLKEQKKGFLQK 91


>gi|148377831|ref|YP_001256707.1| hypothetical protein MAG_5680 [Mycoplasma agalactiae PG2]
 gi|148291877|emb|CAL59268.1| Hypothetical protein MAG5680 [Mycoplasma agalactiae PG2]
          Length = 377

 Score = 66.7 bits (161), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 18/170 (10%), Positives = 54/170 (31%), Gaps = 11/170 (6%)

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPES---YETYQIVDPGEIVFRFIDLQNDKRS 304
                   I  +   + + K          E+     +  +     I+F       +   
Sbjct: 39  KKYYENGTIPFIKVEDTVNKYIENGKYFITENGLINSSAWLAPENSIIFTNGATIGNVAI 98

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVK 363
            +     ++GI+      +     D  ++ +L+ S +         + G    +   ++ 
Sbjct: 99  NKIKTATKQGILG----IIPKQKYDVEFIYYLLSSKNFQNEVNRKITIGTFAMITLSNLD 154

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           ++ V +P    +      I+   + +D L+   ++ +  LK  ++  +  
Sbjct: 155 KIKVNLPNYDIERA---KISSLFSHLDSLITLHQRKLSSLKNLKNRLLDK 201



 Score = 59.0 bits (141), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 50/386 (12%), Positives = 104/386 (26%), Gaps = 37/386 (9%)

Query: 25  WKVVPIKRFTKLNT-GRTSES-------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           W+        +  + G T  +          I +I +ED  +   +             S
Sbjct: 16  WEQEKFANIYQFASEGGTPSTSIKKYYENGTIPFIKVEDTVNKYIENGKYFITENGLINS 75

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP-ELLQGWLLSIDVTQ 135
           +  +  +  I++   G  +    I           L + PK     E +   L S +   
Sbjct: 76  SAWLAPENSIIFTN-GATIGNVAINKIKTATKQGILGIIPKQKYDVEFIYYLLSSKNFQN 134

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            +       T +      +  I + +P    +      +      +D+LIT   R +  L
Sbjct: 135 EVNRKITIGTFAMITLSNLDKIKVNLPNYDIERAKISSL---FSHLDSLITLHQRKLSSL 191

Query: 196 KEKKQALVSYIVTKG--LNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
           K  K  L+  +        P ++ K+    W               +V + N  + +  E
Sbjct: 192 KNLKNRLLDKMFCDEKSQFPSIRFKEFTNAWEQWKIGDMFSVGRGYVVPKKNIYSNRQGE 251

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
                 S   +   L          +                    +   +         
Sbjct: 252 YIYPIYSSQTVNDGLLGYYNKYLTTN--------------SITWTTDGANAGTVFYRKGL 297

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP-I 372
              T+    +     +      L  S    K    +G+     L    +  + + +   I
Sbjct: 298 FYATNVCGILSQKQFEPNIYLALALSRVSHKHVTKVGN---PKLMNNAMANIDLQITSDI 354

Query: 373 KEQFDITNVINVETARIDVLVEKIEQ 398
           KEQ  I    +     +D L+   ++
Sbjct: 355 KEQSKI----SSLFYHLDSLITLHQR 376


>gi|88596084|ref|ZP_01099321.1| type II restriction-modification enzyme [Campylobacter jejuni subsp.
            jejuni 84-25]
 gi|88190925|gb|EAQ94897.1| type II restriction-modification enzyme [Campylobacter jejuni subsp.
            jejuni 84-25]
          Length = 1365

 Score = 66.7 bits (161), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 54/472 (11%), Positives = 137/472 (29%), Gaps = 86/472 (18%)

Query: 26   KVVPIKRF------TKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT---- 75
            ++V +K F       K  +G   +     + +G E +++ +G     +      +     
Sbjct: 896  ELVRLKDFVLDIQTAKRPSGGVGKYENGALSLGGEHIDNKSGYIKLDNPKYVPIEFYESF 955

Query: 76   --STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP------KDVLPELLQGW 127
                  I  +  IL  K G    K  +   + I  +  +               + L   
Sbjct: 956  ALQDKGIVKQFDILICKDGALTGKIAMVRNEFIRKSAMINEHIFLLRCDNIAKQKYLFYI 1015

Query: 128  LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK-------------- 173
            L S    Q +++   G+     +   + +I +P      Q  I  +              
Sbjct: 1016 LHSYSGQQALKSKITGSAQGGINKTNLESILIPNADFEIQKQIVAECEKVEEQYNTIRMS 1075

Query: 174  IIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEW--------- 224
            I      I  ++ +     +    +  +++  +       D  +  S IE          
Sbjct: 1076 IEEYQNLIKAILQKCGIIDDGGGYELNSILENLQKLEFKLDFNLLLSLIEEQISHSEVLV 1135

Query: 225  ----------------------------VGLVPDHWE--------VKPFFALVTELNRKN 248
                                        +   P                     +   K 
Sbjct: 1136 EETQSKERKQDFNAFKNFSKTIQELLQTLSTPPKDGWKRISLKNEQYMELNPSKKEISKL 1195

Query: 249  TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
             + +  + + ++  +    ++++      E  + Y      +I+   I    +      A
Sbjct: 1196 DENMLVSFIEMASVSDKGYIQSKIDRSLNEVRKGYTYFIENDILIAKITPCMENGKCAIA 1255

Query: 309  QVMERGI---ITSAYMAVKPHGIDSTYLAWLMRSYDLCKV--FYAMGSGLRQSLKFEDVK 363
            + +   I    T  ++     G+DS++L + +   ++ +       G+   + +     +
Sbjct: 1256 KNLTNNIGFGSTEFHIFRAKTGLDSSFLFYNLNQQNIREKAALAMTGASGHKRVPISFYE 1315

Query: 364  RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
             L + +PP++ Q  I   I +   +ID L       +  L++ +   +   +
Sbjct: 1316 NLTIPLPPLEIQEKIVQNIELVEQQIDFL----NLKLEFLEKEKEKILQKYL 1363



 Score = 36.7 bits (83), Expect = 6.6,   Method: Composition-based stats.
 Identities = 34/196 (17%), Positives = 64/196 (32%), Gaps = 19/196 (9%)

Query: 24   HWKVVPIKRFTKLNTGRTSESGK--------DIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
             WK + +K   +          +         + +I +  V S  G    K   S     
Sbjct: 1171 GWKRISLKN--EQYMELNPSKKEISKLDENMLVSFIEMASV-SDKGYIQSKIDRSLNEVR 1227

Query: 76   STVSIFAKGQILYGKLGPYLRKAII------ADFDGICSTQFLVLQPKDVLPELLQGWLL 129
               + F +  IL  K+ P +            +  G  ST+F + + K  L      + L
Sbjct: 1228 KGYTYFIENDILIAKITPCMENGKCAIAKNLTNNIGFGSTEFHIFRAKTGLDSSFLFYNL 1287

Query: 130  SIDVTQRI--EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
            +    +     A+   +           N+ +P+PPL  Q  I + I     +ID L  +
Sbjct: 1288 NQQNIREKAALAMTGASGHKRVPISFYENLTIPLPPLEIQEKIVQNIELVEQQIDFLNLK 1347

Query: 188  RIRFIELLKEKKQALV 203
                 +  ++  Q  +
Sbjct: 1348 LEFLEKEKEKILQKYL 1363


>gi|218667559|ref|YP_002425174.1| type I restriction-modification system, S subunit, putative
           [Acidithiobacillus ferrooxidans ATCC 23270]
 gi|218519772|gb|ACK80358.1| type I restriction-modification system, S subunit, putative
           [Acidithiobacillus ferrooxidans ATCC 23270]
          Length = 561

 Score = 66.7 bits (161), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 37/206 (17%), Positives = 69/206 (33%), Gaps = 15/206 (7%)

Query: 18  IGA------IPKHWKVVPIKRFT-KLNTGRTSES---GKDIIYIGLEDVESGTGKYLPKD 67
           IG       +P+ W+       + ++  G         + I ++ ++D+ +G   +    
Sbjct: 356 IGEGEKPHPLPRSWEWARFGDISYQITDGAHHTPTYVNEGIPFLSVKDMSAGRLDFSDTR 415

Query: 68  GNSRQ--SDTSTVSIFAKGQILYGKLGPYLRKAIIA---DFDGICSTQFLVLQPKDVLPE 122
             SR+   +        +G +L  K+G      ++    +F    S   +      +   
Sbjct: 416 FISREQHEELIKRCFPQRGDLLLTKVGTTGIPILVDTDEEFSIFVSVALIKFPLNHIHGR 475

Query: 123 LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
            L   + S  V ++ E   EG    +   + I    + IPPLAEQ  I  K+       D
Sbjct: 476 YLSLLVSSPLVKRQSEEGTEGIGNKNLVLRKIAAFVLAIPPLAEQHRIVAKVDELMALCD 535

Query: 183 TLITERIRFIELLKEKKQALVSYIVT 208
            L                A+V   V 
Sbjct: 536 ALKVRLADAQTTQLHLADAIVERAVC 561



 Score = 66.4 bits (160), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 53/440 (12%), Positives = 116/440 (26%), Gaps = 68/440 (15%)

Query: 21  IPKHWKVVPIKRF-TKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQ------- 72
           +P  W+ V +      ++   +      I   G   V     +Y+    +          
Sbjct: 100 LPLCWEWVRLPEIYLSISPSGSKLLSSAIKDAGTFPVVDQGQRYIAGYTDDAALLINLPG 159

Query: 73  -----SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICST-------------QFLVL 114
                 D +T   +     + G  G  + + I+ D                     F VL
Sbjct: 160 PVIVFGDHTTERKYIDFDFVAGADGVKILRPILQDEHFFFRQLQGYRLEERGYARHFKVL 219

Query: 115 QPKDV-LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
                 LP + +   +   V + +    +              +   +     +V  +++
Sbjct: 220 NDNLYALPPIEEQHRIVAKVDELMALGDQLEQQQTDSLAAHQTLVETLLGTLTRVGSQQE 279

Query: 174 IIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKM---------------- 217
             A   RI +           + + KQ ++   V   L P                    
Sbjct: 280 FSAAWTRIASHFDTLFTTEASIDQLKQTILQLAVMGKLVPQDPNDEPASVLLGKIAKEKT 339

Query: 218 ---------KDSGIEWVGLVPDHWEVKPFFAL---------VTELNRKNTKLIESNILSL 259
                    K   +  +G       +   +           +T+        +   I  L
Sbjct: 340 RLFSAGEIRKQKSLFEIGEGEKPHPLPRSWEWARFGDISYQITDGAHHTPTYVNEGIPFL 399

Query: 260 SYGNIIQKLETRNMGLKP-----ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
           S  ++       +          E          G+++   +        L         
Sbjct: 400 SVKDMSAGRLDFSDTRFISREQHEELIKRCFPQRGDLLLTKVGTTGIPI-LVDTDEEFSI 458

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIK 373
            ++ A +    + I   YL+ L+ S  + +       G+  ++L    +    + +PP+ 
Sbjct: 459 FVSVALIKFPLNHIHGRYLSLLVSSPLVKRQSEEGTEGIGNKNLVLRKIAAFVLAIPPLA 518

Query: 374 EQFDITNVINVETARIDVLV 393
           EQ  I   ++   A  D L 
Sbjct: 519 EQHRIVAKVDELMALCDALK 538



 Score = 47.5 bits (111), Expect = 0.004,   Method: Composition-based stats.
 Identities = 32/192 (16%), Positives = 64/192 (33%), Gaps = 15/192 (7%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
           S  E    +P  WE      +   ++   +KL+ S I       ++ + +    G   + 
Sbjct: 92  SEEEKPYALPLCWEWVRLPEIYLSISPSGSKLLSSAIKDAGTFPVVDQGQRYIAGYTDD- 150

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
                I  PG ++         K           G+       ++P   D  +    ++ 
Sbjct: 151 -AALLINLPGPVIVFGDHTTERKYIDFDFVAGADGV-----KILRPILQDEHFFFRQLQG 204

Query: 340 YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
           Y L +  YA          F+ +      +PPI+EQ  I   ++   A  D L ++   S
Sbjct: 205 YRLEERGYAR--------HFKVLNDNLYALPPIEEQHRIVAKVDELMALGDQLEQQQTDS 256

Query: 400 IVLLKERRSSFI 411
           +   +    + +
Sbjct: 257 LAAHQTLVETLL 268


>gi|198282971|ref|YP_002219292.1| restriction modification system DNA specificity protein
           [Acidithiobacillus ferrooxidans ATCC 53993]
 gi|198247492|gb|ACH83085.1| restriction modification system DNA specificity domain
           [Acidithiobacillus ferrooxidans ATCC 53993]
          Length = 563

 Score = 66.7 bits (161), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 37/206 (17%), Positives = 69/206 (33%), Gaps = 15/206 (7%)

Query: 18  IGA------IPKHWKVVPIKRFT-KLNTGRTSES---GKDIIYIGLEDVESGTGKYLPKD 67
           IG       +P+ W+       + ++  G         + I ++ ++D+ +G   +    
Sbjct: 358 IGEGEKPHPLPRSWEWARFGDISYQITDGAHHTPTYVNEGIPFLSVKDMSAGRLDFSDTR 417

Query: 68  GNSRQ--SDTSTVSIFAKGQILYGKLGPYLRKAIIA---DFDGICSTQFLVLQPKDVLPE 122
             SR+   +        +G +L  K+G      ++    +F    S   +      +   
Sbjct: 418 FISREQHEELIKRCFPQRGDLLLTKVGTTGIPILVDTDEEFSIFVSVALIKFPLNHIHGR 477

Query: 123 LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
            L   + S  V ++ E   EG    +   + I    + IPPLAEQ  I  K+       D
Sbjct: 478 YLSLLVSSPLVKRQSEEGTEGIGNKNLVLRKIAAFVLAIPPLAEQHRIVAKVDELMALCD 537

Query: 183 TLITERIRFIELLKEKKQALVSYIVT 208
            L                A+V   V 
Sbjct: 538 ALKVRLADAQTTQLHLADAIVERAVC 563



 Score = 66.4 bits (160), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 53/440 (12%), Positives = 116/440 (26%), Gaps = 68/440 (15%)

Query: 21  IPKHWKVVPIKRF-TKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQ------- 72
           +P  W+ V +      ++   +      I   G   V     +Y+    +          
Sbjct: 102 LPLCWEWVRLPEIYLSISPSGSKLLSSAIKDAGTFPVVDQGQRYIAGYTDDAALLINLPG 161

Query: 73  -----SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICST-------------QFLVL 114
                 D +T   +     + G  G  + + I+ D                     F VL
Sbjct: 162 PVIVFGDHTTERKYIDFDFVAGADGVKILRPILQDEHFFFRQLQGYRLEERGYARHFKVL 221

Query: 115 QPKDV-LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
                 LP + +   +   V + +    +              +   +     +V  +++
Sbjct: 222 NDNLYALPPIEEQHRIVAKVDELMALGDQLEQQQTDSLAAHQTLVETLLGTLTRVGSQQE 281

Query: 174 IIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKM---------------- 217
             A   RI +           + + KQ ++   V   L P                    
Sbjct: 282 FSAAWTRIASHFDTLFTTEASIDQLKQTILQLAVMGKLVPQDPNDEPASVLLGKIAKEKT 341

Query: 218 ---------KDSGIEWVGLVPDHWEVKPFFAL---------VTELNRKNTKLIESNILSL 259
                    K   +  +G       +   +           +T+        +   I  L
Sbjct: 342 RLFSAGEIRKQKSLFEIGEGEKPHPLPRSWEWARFGDISYQITDGAHHTPTYVNEGIPFL 401

Query: 260 SYGNIIQKLETRNMGLKP-----ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
           S  ++       +          E          G+++   +        L         
Sbjct: 402 SVKDMSAGRLDFSDTRFISREQHEELIKRCFPQRGDLLLTKVGTTGIPI-LVDTDEEFSI 460

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIK 373
            ++ A +    + I   YL+ L+ S  + +       G+  ++L    +    + +PP+ 
Sbjct: 461 FVSVALIKFPLNHIHGRYLSLLVSSPLVKRQSEEGTEGIGNKNLVLRKIAAFVLAIPPLA 520

Query: 374 EQFDITNVINVETARIDVLV 393
           EQ  I   ++   A  D L 
Sbjct: 521 EQHRIVAKVDELMALCDALK 540



 Score = 47.5 bits (111), Expect = 0.004,   Method: Composition-based stats.
 Identities = 32/192 (16%), Positives = 64/192 (33%), Gaps = 15/192 (7%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
           S  E    +P  WE      +   ++   +KL+ S I       ++ + +    G   + 
Sbjct: 94  SEEEKPYALPLCWEWVRLPEIYLSISPSGSKLLSSAIKDAGTFPVVDQGQRYIAGYTDD- 152

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
                I  PG ++         K           G+       ++P   D  +    ++ 
Sbjct: 153 -AALLINLPGPVIVFGDHTTERKYIDFDFVAGADGV-----KILRPILQDEHFFFRQLQG 206

Query: 340 YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
           Y L +  YA          F+ +      +PPI+EQ  I   ++   A  D L ++   S
Sbjct: 207 YRLEERGYAR--------HFKVLNDNLYALPPIEEQHRIVAKVDELMALGDQLEQQQTDS 258

Query: 400 IVLLKERRSSFI 411
           +   +    + +
Sbjct: 259 LAAHQTLVETLL 270


>gi|15603403|ref|NP_246477.1| HsdA [Pasteurella multocida subsp. multocida str. Pm70]
 gi|12721927|gb|AAK03622.1| HsdA [Pasteurella multocida subsp. multocida str. Pm70]
          Length = 435

 Score = 66.7 bits (161), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 49/445 (11%), Positives = 117/445 (26%), Gaps = 73/445 (16%)

Query: 32  RFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKL 91
                   +          +  ++ E+  G Y P  G S   D     IF    +L  + 
Sbjct: 3   DIVNFLNAKRKP-------LSAKERENRKGIY-PYYGASDIVDYIDDYIFDGRYLLISED 54

Query: 92  GPYLR-----KAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATM 146
           G  L+      A IA+     +    ++  K    +    +L        +     GA  
Sbjct: 55  GENLKTRKTPIAFIAEGKFWVNNHAHIISGK---DDQTIDYLKYYFSNFDLMPFLTGAVQ 111

Query: 147 SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYI 206
                  +  I +  P   ++  + + + +   +ID          ++ +   ++     
Sbjct: 112 PKLSKGILEKIEIDFPCYEKRKRVNQFLGSLDNKIDLNTQTNQTLEQIAQAIFKSWFVDF 171

Query: 207 V--------------------------------------------TKGLNPDVKMKDSG- 221
                                                         K L  +  +  S  
Sbjct: 172 DPVKAKVDVLANGGSQADAERAAMQVISGKTDAELTQMQQTQPDAYKTLEKNTALFPSEM 231

Query: 222 -IEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKP--- 277
               +G VP  W V      V  +             S  + +     +  +   K    
Sbjct: 232 VESELGNVPKGWGVSTIGDSVQTVGGATPSTTNEEFWSNGHIHWTTPKDLSSAKDKILLN 291

Query: 278 ----ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL 333
                +    + +  G +    + L +       A       I   Y+ +      S Y 
Sbjct: 292 TDRKITEAGLKKISSGLLPINTVLLSSRAPVGYLALTRIPVAINQGYIGIICSDKLSCYY 351

Query: 334 AWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
                  +L ++           +  +  + + VL+P      ++  V +++  ++   +
Sbjct: 352 VLQWCQANLDEIKGRASGTTFAEINKKTFREMRVLIPN----NELIKVYDLQVEKLYKKI 407

Query: 394 EKIEQSIVLLKERRSSFIAAAVTGQ 418
            +       L+  R + +   ++G+
Sbjct: 408 TENIIESKALENIRDALLPKLLSGE 432



 Score = 53.6 bits (127), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 27/197 (13%), Positives = 55/197 (27%), Gaps = 12/197 (6%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKY---LPKD 67
           +G +PK W V  I    +   G T  +  +       I +   +D+ S   K      + 
Sbjct: 236 LGNVPKGWGVSTIGDSVQTVGGATPSTTNEEFWSNGHIHWTTPKDLSSAKDKILLNTDRK 295

Query: 68  GNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW 127
                    +  +     +L     P      +       +  ++ +   D L       
Sbjct: 296 ITEAGLKKISSGLLPINTVLLSSRAPV-GYLALTRIPVAINQGYIGIICSDKL-SCYYVL 353

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
                    I+    G T +  + K    + + IP      +   ++     +I   I E
Sbjct: 354 QWCQANLDEIKGRASGTTFAEINKKTFREMRVLIPNNELIKVYDLQVEKLYKKITENIIE 413

Query: 188 RIRFIELLKEKKQALVS 204
                 +       L+S
Sbjct: 414 SKALENIRDALLPKLLS 430


>gi|257094683|ref|YP_003168324.1| type I restriction-modification enzyme, specificity subunit
           [Candidatus Accumulibacter phosphatis clade IIA str.
           UW-1]
 gi|257047207|gb|ACV36395.1| type I restriction-modification enzyme, specificity subunit
           [Candidatus Accumulibacter phosphatis clade IIA str.
           UW-1]
          Length = 383

 Score = 66.4 bits (160), Expect = 8e-09,   Method: Composition-based stats.
 Identities = 18/131 (13%), Positives = 51/131 (38%), Gaps = 7/131 (5%)

Query: 277 PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY--MAVKPHGIDSTYLA 334
             +Y+++  ++ G+ V           + R ++  +   ++  +         +D+ +L 
Sbjct: 50  DTTYKSFHRLNAGDFVISSPKAWEGAVA-RISEEFDGWFLSPVFPTFRADAEKLDTRFLD 108

Query: 335 WLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
           W  +   + +       G+   R+S+  +    + V +PP+ EQ  I   ++    +   
Sbjct: 109 WYCKRDAVWRQLQGKAKGMGARRESVSPDQFLSIEVPLPPLAEQQAIVARLDALAEKTRQ 168

Query: 392 LVEKIEQSIVL 402
            VE  + ++  
Sbjct: 169 -VEAHQDAVEH 178



 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 46/358 (12%), Positives = 101/358 (28%), Gaps = 37/358 (10%)

Query: 59  GTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFD---GICSTQF--LV 113
           G G +         +   +      G  +      +         +      S  F    
Sbjct: 37  GRGLFKRGPIMPLDTTYKSFHRLNAGDFVISSPKAWEGAVARISEEFDGWFLSPVFPTFR 96

Query: 114 LQPKDVLPELLQGWLLSIDVTQRIEAICEGAT--MSHADWKGIGNIPMPIPPLAEQVLIR 171
              + +    L  +     V ++++   +G              +I +P+PPLAEQ  I 
Sbjct: 97  ADAEKLDTRFLDWYCKRDAVWRQLQGKAKGMGARRESVSPDQFLSIEVPLPPLAEQQAIV 156

Query: 172 EKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDH 231
            ++ A   +   +                      V       + ++             
Sbjct: 157 ARLDALAEKTRQVEAH----------------QDAVEHDAEHLLALRFRDAIANAATRTM 200

Query: 232 WEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEI 291
            EV P       ++   +                  L    +G K         ++PG++
Sbjct: 201 AEVAPLVRREPSIDLNGSYPELGIRSFGKGTFHKPPLSGSEVGTK-----RLYCIEPGDL 255

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL----AWLMRSYDLCKVFY 347
           +F   ++   + ++  AQ  + G   S          D T +     + +    + K+  
Sbjct: 256 LFS--NVFAWEGAIAIAQPEDAGRFGSHRFITCQVHPDLTTVAFLRYYFLTDEGMLKIGE 313

Query: 348 AMGSGLRQS--LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
           A   G  ++  L  E +  + V +P +  Q    + +  E A +      I ++   L
Sbjct: 314 ASPGGAGRNRTLGLEKLMAIEVPLPTLTTQQAF-DRLQAEVAGLKAKHAAIRRASTAL 370


>gi|257438275|ref|ZP_05614030.1| type I restriction-modification enzyme, S subunit, EcoA family
           [Faecalibacterium prausnitzii A2-165]
 gi|257199237|gb|EEU97521.1| type I restriction-modification enzyme, S subunit, EcoA family
           [Faecalibacterium prausnitzii A2-165]
          Length = 271

 Score = 66.4 bits (160), Expect = 8e-09,   Method: Composition-based stats.
 Identities = 21/176 (11%), Positives = 65/176 (36%), Gaps = 9/176 (5%)

Query: 244 LNRKNTKLIESNILSLSYGNIIQKLETRN----MGLKPESYETYQIVDPGEIVFRFIDLQ 299
            +          I  +   NI     + N    +  +     +   + P +I+       
Sbjct: 34  PHGGKEAYCLEGISFVRSQNIGDFSFSANGLAHINNEQAKKLSNVELKPNDILLNITGDS 93

Query: 300 NDKRSLRSAQVMERGIITS-AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLK 358
             +  +  ++ +   +    A +  K   + S+YL + ++      +  A     R +L 
Sbjct: 94  VARTCIIDSEYLPARVNQHVAIIRGKKDIVLSSYLLYFLQWKKKYLLQLASAGATRNALT 153

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAA 414
              +++L + +P I++Q  I   ++    +I   ++  ++    L+++ ++  ++ 
Sbjct: 154 KSMIEQLEIELPTIEQQRKIAGALD----KIQEKIKLNQKINDNLEQQAAALFSSL 205


>gi|240146117|ref|ZP_04744718.1| type I restriction-modification system, S subunit [Roseburia
           intestinalis L1-82]
 gi|257201770|gb|EEV00055.1| type I restriction-modification system, S subunit [Roseburia
           intestinalis L1-82]
          Length = 330

 Score = 66.4 bits (160), Expect = 8e-09,   Method: Composition-based stats.
 Identities = 30/202 (14%), Positives = 66/202 (32%), Gaps = 14/202 (6%)

Query: 218 KDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN-ILSLSYGNIIQKLETRNMGLK 276
           K    E    VP+ W       +   L  K+    +                  R    +
Sbjct: 78  KCIEDEIPFEVPEGWCWCRLRDICMMLAGKSKPADQIKSEYFEGSYPCFGGNGIRGYVDE 137

Query: 277 PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWL 336
                T+ IV     +   I+      +       E  ++T+ ++ +     +     ++
Sbjct: 138 YNQDGTFSIVGRQGALCGNIN-----VATGKFYATEHAVVTTLFVGIDFKWSN-----YI 187

Query: 337 MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
           + +  L K         +  L   ++  + V +PP +EQ  I N I+     I+V+ ++ 
Sbjct: 188 LEALRLNKY---ATGAAQPGLSVANILNVFVPIPPTQEQDRIGNNIDKSLKIIEVIEQEK 244

Query: 397 EQSIVLLKERRSSFIAAAVTGQ 418
                 +   +S  +  A+ G+
Sbjct: 245 TDLQKNIITAKSKILDLAIRGK 266



 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 30/196 (15%), Positives = 61/196 (31%), Gaps = 13/196 (6%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +P+ W    ++    +  G++  + +    I  E  E     +          + +   
Sbjct: 87  EVPEGWCWCRLRDICMMLAGKSKPADQ----IKSEYFEGSYPCFGGNGIRGYVDEYN--- 139

Query: 80  IFAKGQI-LYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
               G   + G+ G       +A      +   +V      +      ++L      R+ 
Sbjct: 140 --QDGTFSIVGRQGALCGNINVATGKFYATEHAVVTTLFVGIDFKWSNYILEAL---RLN 194

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
               GA         I N+ +PIPP  EQ  I   I      I+ +  E+    + +   
Sbjct: 195 KYATGAAQPGLSVANILNVFVPIPPTQEQDRIGNNIDKSLKIIEVIEQEKTDLQKNIITA 254

Query: 199 KQALVSYIVTKGLNPD 214
           K  ++   +   L P 
Sbjct: 255 KSKILDLAIRGKLVPQ 270


>gi|261366731|ref|ZP_05979614.1| putative type I restriction modification system methylase
           [Subdoligranulum variabile DSM 15176]
 gi|282571558|gb|EFB77093.1| putative type I restriction modification system methylase
           [Subdoligranulum variabile DSM 15176]
          Length = 350

 Score = 66.4 bits (160), Expect = 8e-09,   Method: Composition-based stats.
 Identities = 49/361 (13%), Positives = 102/361 (28%), Gaps = 55/361 (15%)

Query: 62  KYLPKDGNSRQSDTSTVSIFAKGQILYGKL----GPYLRKAII-ADFDGICSTQFLVLQP 116
           +++P   N   +D S   + +KG      +       L  A+   D   I S  + + + 
Sbjct: 35  EFMPSVANVIGTDLSRYKLISKGLFACNPMHVGRDERLPIALYEKDNAAIVSPAYFMFEI 94

Query: 117 KDVL---PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
            D      E L  W    +  +    + +G+      W  +  I +P+PP   Q+ + E 
Sbjct: 95  IDRDVLNEEYLMMWFRRPEFDRECWFMTDGSVRGGISWDDLCRIQLPVPPYERQLDVVES 154

Query: 174 IIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWE 233
             A T RI                         V    +  +       E          
Sbjct: 155 YRAITRRIAMKKEINDNL-------------EAVLAASHSKMFFSKDTSE---------- 191

Query: 234 VKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVF 293
                 L+T  N K+    +  I       ++   +  N+                 ++ 
Sbjct: 192 HSKLGELMTFGNGKSRPKTDGPIPVYGGNGVLSYTDHHNI--------------ENAVLI 237

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL 353
             +                   ++   +  K       +  + +       +F       
Sbjct: 238 GRVGA----YCGSVYLEQGICWVSDNAIFAKSKITKDEFFDYFL--LKRLNLFNHHVGTG 291

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           +Q L  E +  + V  P + EQ +   + N +   I   +    + I+ L+E     ++ 
Sbjct: 292 QQLLTQEILNNIEVPKP-VTEQIE---LFNRKATSIFETIFTNSREIIRLQELSDLLLSR 347

Query: 414 A 414
            
Sbjct: 348 L 348



 Score = 36.3 bits (82), Expect = 8.6,   Method: Composition-based stats.
 Identities = 25/179 (13%), Positives = 46/179 (25%), Gaps = 25/179 (13%)

Query: 29  PIKRFTKLNTGRT-SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
            +        G++  ++   I       V  G G     D ++            +  +L
Sbjct: 194 KLGELMTFGNGKSRPKTDGPIP------VYGGNGVLSYTDHHNI-----------ENAVL 236

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMS 147
            G++G Y     +       S   +  + K    E    +   +     +     G    
Sbjct: 237 IGRVGAYCGSVYLEQGICWVSDNAIFAKSKITKDEFFDYF---LLKRLNLFNHHVGTGQQ 293

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYI 206
                    I   I          E    +   I   I    R I  L+E    L+S +
Sbjct: 294 LLTQ----EILNNIEVPKPVTEQIELFNRKATSIFETIFTNSREIIRLQELSDLLLSRL 348


>gi|322517064|ref|ZP_08069949.1| hypothetical protein HMPREF9425_1226 [Streptococcus vestibularis
           ATCC 49124]
 gi|322124324|gb|EFX95832.1| hypothetical protein HMPREF9425_1226 [Streptococcus vestibularis
           ATCC 49124]
          Length = 381

 Score = 66.4 bits (160), Expect = 8e-09,   Method: Composition-based stats.
 Identities = 76/405 (18%), Positives = 145/405 (35%), Gaps = 39/405 (9%)

Query: 29  PIKRFTKLNTGRTSESGKDII-YIGLEDV-ESGTGKYLPKDGNSRQSDTSTVSIFAKGQI 86
            +   +   T + S    DI  YI  +++ ++  G+ +     + +  T  V+ F K  I
Sbjct: 3   KLSNVSCYVTEKISVDSIDISEYITTDNLLQNKKGRVI-----AEKLPTQKVTRFKKNDI 57

Query: 87  LYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL-LSIDVTQRIEAICEGAT 145
           L   + PYL+K   AD DG  S+  LV++P DV+      +        + +    +G  
Sbjct: 58  LIANIRPYLKKIWQADIDGGASSDVLVVRPNDVIDYNFLYYALTQDSFFEYVMKGSKGTK 117

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
           M   D   I N  +P   + EQ+ I + +      ID  I    +  + L+   + L  Y
Sbjct: 118 MPRGDKSQIMNFVIPDLEIDEQIKIGKLL----KSIDQKIQINNQINQELEAMAKTLYDY 173

Query: 206 IVTKGLNPDV---KMKDSG------IEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
              +   PD      K SG       E    +P+ W V+     + +   K  K+  ++I
Sbjct: 174 WFVQFDFPDQNGKPYKSSGGKMVYNPELKREIPEGWGVESVGN-LLDKVTKAEKIENNSI 232

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
             +    +I + +    G              G ++F        +          RG  
Sbjct: 233 EFIGEIPVIDQSQKFIAGFTNNE-NALLQAQDGHVIFGDHT----RVVKYINFDYARGAD 287

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
            +  +      I +  L  ++  +DL    YA          F+ +K   V+VP      
Sbjct: 288 GTQVLISNNENISNVLLYHMIEDFDLSNYGYAR--------HFKFLKEKTVIVPD----K 335

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           ++++    +   I   ++        L + R   +   + GQ+ +
Sbjct: 336 EVSSKFETQANVIYEKIKNNIFENQELTQLRDWLLPMLMNGQVKV 380


>gi|289644884|ref|ZP_06476932.1| restriction modification system DNA specificity domain protein
           [Frankia symbiont of Datisca glomerata]
 gi|289505313|gb|EFD26364.1| restriction modification system DNA specificity domain protein
           [Frankia symbiont of Datisca glomerata]
          Length = 211

 Score = 66.4 bits (160), Expect = 8e-09,   Method: Composition-based stats.
 Identities = 25/204 (12%), Positives = 59/204 (28%), Gaps = 16/204 (7%)

Query: 225 VGLVPDHWEVKPFFALVTELNRKN----------TKLIESNILSLSYGNIIQKLETRNMG 274
           +G VPD W               +          +  +          + I       + 
Sbjct: 5   IGPVPDTWHRLLLGDACQVQAGPSGATFRPADRASHGVRMVTPKSIQDDRIVADGCVTIR 64

Query: 275 LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
            +         +  G+IV   +     + +L   +     +  +         +   YL 
Sbjct: 65  PEAADRMKRYALREGDIVCTRVG-NGRRHALAGPEHTGWLLGGACLFLRPHAAVLPRYLN 123

Query: 335 WLMRSYDLCKVF-YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
             +R   +       +   +  ++    +  LP+ +PP + Q  I ++++     +D  +
Sbjct: 124 HYLRQPMVQDWLAQRVTGAVVPTVTAGTLGDLPLALPPWETQHAIADLLDA----LDEKI 179

Query: 394 EKIEQSIVLLKERRSSFIAAAVTG 417
                 I   +E       A +TG
Sbjct: 180 SAHHAIIRSTEELGRVLAPALLTG 203



 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 35/201 (17%), Positives = 69/201 (34%), Gaps = 11/201 (5%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVESGTGK-YLPKDGN 69
           IG +P  W  + +    ++  G +  +          +  +  + ++             
Sbjct: 5   IGPVPDTWHRLLLGDACQVQAGPSGATFRPADRASHGVRMVTPKSIQDDRIVADGCVTIR 64

Query: 70  SRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFD--GICSTQFLVLQPK-DVLPELLQG 126
              +D        +G I+  ++G   R A+        +     L L+P   VLP  L  
Sbjct: 65  PEAADRMKRYALREGDIVCTRVGNGRRHALAGPEHTGWLLGGACLFLRPHAAVLPRYLNH 124

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           +L    V   +     GA +       +G++P+ +PP   Q  I + + A   +I     
Sbjct: 125 YLRQPMVQDWLAQRVTGAVVPTVTAGTLGDLPLALPPWETQHAIADLLDALDEKISAHHA 184

Query: 187 ERIRFIELLKEKKQALVSYIV 207
                 EL +    AL++  V
Sbjct: 185 IIRSTEELGRVLAPALLTGAV 205


>gi|312867160|ref|ZP_07727370.1| type I restriction modification DNA specificity domain protein
           [Streptococcus parasanguinis F0405]
 gi|311097289|gb|EFQ55523.1| type I restriction modification DNA specificity domain protein
           [Streptococcus parasanguinis F0405]
          Length = 381

 Score = 66.4 bits (160), Expect = 8e-09,   Method: Composition-based stats.
 Identities = 52/392 (13%), Positives = 117/392 (29%), Gaps = 44/392 (11%)

Query: 18  IGAI---PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           +  I   P  WK +  K   KL+ G+            LE+ +     Y  +  N+ +  
Sbjct: 4   LEEIQNCPVEWKELGDKNVAKLSRGKVMSKQF------LEENKGEFPVYSSQTANNGEIG 57

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
             +   +    I +   G               +    +++      +LL  ++      
Sbjct: 58  RISSFEYDGEYITWTTDGANAGTVFYRKGKFSITNVCGLVEINS--NQLLTKFVYYYLTI 115

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
              + +  G          +G I +PI PL  Q  I + +   T  +  L +E    +  
Sbjct: 116 STKKYVSSGMGNPKLMSNVMGKIKIPILPLEIQEKIVQILDKMTEYVTELTSELTSELTS 175

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
            K++       +++                 G +              +  +    L   
Sbjct: 176 RKKQYSFYRDKLLSFE---------------GEIYQVEWKVLKDVATLKNGKDWKALSSG 220

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
            I     G  +            E    Y    P  ++ R   + N     ++   ++  
Sbjct: 221 EIPVYGSGGEMG-----------EFVSDYSYDKPTVLIPRKGSISNLFYLEKAFWNVDTI 269

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKE 374
                Y  +    +   Y  + + +    K+     +  R SL    + ++ + VP ++ 
Sbjct: 270 Y----YTEIDEKLVIPKYFYYYLTT---VKLEEMATNPTRPSLTQAILDKIRIPVPSLEI 322

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKER 406
           Q  I  V++      + L   + + I L +++
Sbjct: 323 QSRIIQVLDNFETVCNDLNIGLPKEIELRQKQ 354


>gi|301633427|gb|ADK86981.1| type I restriction modification DNA specificity domain protein
           [Mycoplasma pneumoniae FH]
          Length = 379

 Score = 66.4 bits (160), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 57/384 (14%), Positives = 109/384 (28%), Gaps = 32/384 (8%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT---STVSIFA 82
           K   IK   + + GR          I  + +    G Y      +             F 
Sbjct: 4   KTYKIKDICEASHGRE---------INTKYLRENQGIYPVYSSATSNEGEMGRIKTYDFD 54

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
              + +     Y       +     S+   +   K +  E+   +L      +  + +  
Sbjct: 55  GEYVTWTTRWSYAGSIYYRNGKFSASSNCGI--LKVLNKEINPKFLAYALKKEAKKFVNT 112

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
            + +     + +  IP+  PPL  Q  I   +   T              EL  E    L
Sbjct: 113 TSAIPILRTQKVVEIPIDFPPLQIQEKIATILDTFTELSAE--LSAELSAELSAELSAEL 170

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
                      D  +           P +W+ +  +  + E+ +K     E         
Sbjct: 171 RERKKQYAFYRDYLL----------NPKNWKEENKYYKLGEIAQKVLVGGEKPADFSKEK 220

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
           N + K    +   K E +  Y      E     +  +    ++          ++     
Sbjct: 221 NEVYKYPILSNNSKAEEFLVYSKTFRVEEKSITVSARGTIGAVFYRDFAYLPAVSLICFV 280

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
                 D  +L   +R+    K   A G      L     K   + VP +K+Q +I  ++
Sbjct: 281 P-KEEFDIRFLFHALRAIKFKKQGSATGQ-----LTVAQFKEYGIHVPSLKKQKEIAAIL 334

Query: 383 NVETARIDVLVEKIEQSIVLLKER 406
           +   +    L E I   I L K++
Sbjct: 335 DPLYSFFTDLNEGIPAEIELCKKQ 358


>gi|260910284|ref|ZP_05916959.1| type I restriction-modification system S subunit [Prevotella sp.
           oral taxon 472 str. F0295]
 gi|260635586|gb|EEX53601.1| type I restriction-modification system S subunit [Prevotella sp.
           oral taxon 472 str. F0295]
          Length = 279

 Score = 66.4 bits (160), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 30/233 (12%), Positives = 77/233 (33%), Gaps = 19/233 (8%)

Query: 174 IIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVG------- 226
           +      +   I    + +    + K++ ++  V    + +   +  G   +        
Sbjct: 49  LEGTAQELHEQIKSEKQSLVKEGKLKKSALTDSVIFKGDDNKYYEQVGKNCIDITDKIPF 108

Query: 227 LVPDHWEVKPFFALVTELNR----------KNTKLIESNILSLSYGNIIQKLETRNMGLK 276
            +P++W       +                K T ++  N +         K+   N    
Sbjct: 109 EIPNNWVWTRLSDVADIYTGNSISETEKNAKYTNVVGRNYIGTKDVGFDNKVFYNNGVAI 168

Query: 277 PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWL 336
           P+ YE    +     +   + ++      + A + +     +    + P      Y+ + 
Sbjct: 169 PKEYEQNFRIALKNSIL--MCIEGGSAGRKVAILNQDVCFGNKLCCLSPFIEIGKYIYFY 226

Query: 337 MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
           ++S     +F    +G+   +    VK + + +PP+KEQ  I + +    AR+
Sbjct: 227 LQSPSFIGMFNQNKAGIIGGVSIAKVKDILIPLPPLKEQCRIIHRLEELYARL 279



 Score = 66.4 bits (160), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 33/172 (19%), Positives = 55/172 (31%), Gaps = 11/172 (6%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDI---------IYIGLEDVESGTGKYLPKDGNS 70
            IP +W    +     + TG +    +            YIG +DV      +       
Sbjct: 109 EIPNNWVWTRLSDVADIYTGNSISETEKNAKYTNVVGRNYIGTKDVGFDNKVFYNNGVAI 168

Query: 71  RQSDTSTVSIFAKGQILYGKL-GPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
            +       I  K  IL     G   RK  I + D     +   L P   + + +  +L 
Sbjct: 169 PKEYEQNFRIALKNSILMCIEGGSAGRKVAILNQDVCFGNKLCCLSPFIEIGKYIYFYLQ 228

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
           S            G  +       + +I +P+PPL EQ  I  ++     R+
Sbjct: 229 SPSFIGMFNQNKAG-IIGGVSIAKVKDILIPLPPLKEQCRIIHRLEELYARL 279


>gi|325973653|ref|YP_004250717.1| type I restriction-modification system specificity subunit
           [Mycoplasma suis str. Illinois]
 gi|323652255|gb|ADX98337.1| type I restriction-modification system specificity subunit
           [Mycoplasma suis str. Illinois]
          Length = 395

 Score = 66.4 bits (160), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 19/141 (13%), Positives = 53/141 (37%), Gaps = 8/141 (5%)

Query: 272 NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST 331
                    ++ ++     +    +     K +L   +      +   + +  P   D+ 
Sbjct: 60  KRHFNYRGLKSNKLFPKNTVCIVRVGGSVGKTALLKRESCLTEHV--YFFSSYPKISDNK 117

Query: 332 YLAWLMRSYDLCKVF--YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
           ++ + +   ++ +     +  S  +  L  + +K +    PP +EQ  I + ++      
Sbjct: 118 FIKYCLNFSNISEKIICLSKSSTAQPVLSLQKLKIIKFPCPPQEEQERIGDTLSA----Y 173

Query: 390 DVLVEKIEQSIVLLKERRSSF 410
           D L+E  E+ I +L+  R++ 
Sbjct: 174 DELIENNERQIEVLQGIRTAI 194



 Score = 60.2 bits (144), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 49/402 (12%), Positives = 114/402 (28%), Gaps = 40/402 (9%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSE----------SGKDIIYIGLEDVESGTGKYLPKDGNS 70
           I   WK+V I +  ++ +G+                 I  +  E V +          + 
Sbjct: 4   ISNEWKLVTIDQLGRVESGKPLPCRVEDSHLLFEDGFIPLVDGEAVSNSNLYIRKCKRHF 63

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
                 +  +F K  +   ++G  + K  +   +   +           + +        
Sbjct: 64  NYRGLKSNKLFPKNTVCIVRVGGSVGKTALLKRESCLTEHVYFFSSYPKISDNKFIKYCL 123

Query: 131 IDVTQRIEAIC---EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
                  + IC             + +  I  P PP  EQ  I + + A    I+    +
Sbjct: 124 NFSNISEKIICLSKSSTAQPVLSLQKLKIIKFPCPPQEEQERIGDTLSAYDELIENNERQ 183

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLV--PDHWEVKPFFALVTELN 245
                 +      A+          P+    ++  E       PD W+ +    + T   
Sbjct: 184 IEVLQGIRT----AIFKEWFVNFGFPNYLTYEAERERERESSLPDSWQYQKIEEIATITK 239

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
            + +  +        +    +K   R      ++           I   +      +   
Sbjct: 240 GEKSAKLSVKDGKYPFFTSSEKSPERINEYSWDAES---------IFINYTGNFVAQLYR 290

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRL 365
                 +   +            +  +L  L+ +      F++      + L+   +  L
Sbjct: 291 GKFDASDNCWV--------IIPKNKKFLYLLLETIIYSLPFFSSNCFGMKVLRSNLLFGL 342

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
            VL+P IK         N     I + +E ++++I  L++ +
Sbjct: 343 NVLIPDIKT----LEKFNNICEFIQLKIENLQKNIERLEKIK 380


>gi|315173019|gb|EFU17036.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX1346]
          Length = 171

 Score = 66.4 bits (160), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 22/170 (12%), Positives = 53/170 (31%), Gaps = 11/170 (6%)

Query: 235 KPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFR 294
              F    E  +             +  +   +            Y+ Y       IV  
Sbjct: 13  FKGFTDEWEERKLGEVYNFQYGQFNNNPDNGGQYPIYGANGIIGGYDEYN--SENAIVIG 70

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR 354
            +        +  A+                  ++S +  +L+ S ++ K+        +
Sbjct: 71  HMGA--YAGHVLWAEGKHFVTYNGTMGIADKSILNSNFGYYLVVSVNVPKL---TAGSGQ 125

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLK 404
             + + D+  + +L+P I+EQ  I +       ++D  +   ++ + LLK
Sbjct: 126 PFVSYSDLNGIKILIPTIEEQQKIGSF----FKQLDNTITLHQRKLDLLK 171



 Score = 45.6 bits (106), Expect = 0.015,   Method: Composition-based stats.
 Identities = 23/173 (13%), Positives = 49/173 (28%), Gaps = 30/173 (17%)

Query: 20  AIPK--------HWKVVPIKRFTKLNTGR---TSESGKDIIYIGLEDVESGTGKYLPKDG 68
            +P+         W+   +        G+     ++G      G   +  G  +Y  ++ 
Sbjct: 7   KVPELRFKGFTDEWEERKLGEVYNFQYGQFNNNPDNGGQYPIYGANGIIGGYDEYNSENA 66

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL 128
                            I+ G +G Y    + A+     +    +      +     G+ 
Sbjct: 67  -----------------IVIGHMGAYAGHVLWAEGKHFVTYNGTMGIADKSILNSNFGYY 109

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
           L + V      +  G+      +  +  I + IP + EQ  I          I
Sbjct: 110 LVVSVNVP--KLTAGSGQPFVSYSDLNGIKILIPTIEEQQKIGSFFKQLDNTI 160


>gi|38234848|ref|NP_940615.1| putative type I restriction/modification system DNA specificity
           protein [Corynebacterium diphtheriae NCTC 13129]
 gi|38201112|emb|CAE50836.1| Putative type I restriction/modification system DNA specificity
           protein [Corynebacterium diphtheriae]
          Length = 414

 Score = 66.4 bits (160), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 20/144 (13%), Positives = 51/144 (35%), Gaps = 9/144 (6%)

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV---K 324
            ++  +  + +     + V  G++V            +         + +     +   +
Sbjct: 48  SDSEFVDQRFDKAIGRKTVRLGDVVITTKGTVGRVAEVSKVPNAGLAVYSPQVCYLRSLQ 107

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSG--LRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
           P  +   YL +L+ S           S   +   L   D K + V +P +++Q  I +V+
Sbjct: 108 PSILHQRYLKYLLMSPATKYSISTFASSSDMAPYLSLSDFKSMVVDLPSLEDQRAIADVL 167

Query: 383 NVETARIDVLVEKIEQSIVLLKER 406
                 +D  + + ++ I L ++ 
Sbjct: 168 GA----LDDKIAENQRVIQLSEQL 187



 Score = 61.0 bits (146), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 51/402 (12%), Positives = 116/402 (28%), Gaps = 38/402 (9%)

Query: 33  FTKLNTGRTSESGK----DIIYIGLEDV-ESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
             +L  G  ++  +        +   DV E G      +  + R            G ++
Sbjct: 13  VLELGDGYRTKRSELSQFGYAIVRAGDVVEIGVTASDSEFVDQRFDKAIGRKTVRLGDVV 72

Query: 88  YGKLGPYLRKAIIADFD----GICSTQ--FLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
               G   R A ++        + S Q  +L      +L +    +LL    T+   +  
Sbjct: 73  ITTKGTVGRVAEVSKVPNAGLAVYSPQVCYLRSLQPSILHQRYLKYLLMSPATKYSISTF 132

Query: 142 EGATMS--HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
             ++    +       ++ + +P L +Q  I + + A   +I           +L     
Sbjct: 133 ASSSDMAPYLSLSDFKSMVVDLPSLEDQRAIADVLGALDDKIAENQRVIQLSEQLAMTFY 192

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
           ++      T+     +   D    + G  P       +   +      +   ++   L  
Sbjct: 193 RS------TEKSESSLTFADVAGIYGGGTPSTKNPDFWDGEIRWATPTDITALKGPWLC- 245

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
                      R++  +  S  +  +   G I+            +              
Sbjct: 246 --------GTARSITEEGLSKSSGSLHPEGSILMTSRATVGHVAFI-----DAPTTTNQG 292

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
           ++ + P      +L + ++      + +A G      L     K+LP       E     
Sbjct: 293 FINLVPQEAYRYWLYFQLKQRTSEFIAWANG-ATFLELSRGTFKKLPFQACAETE----L 347

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
              N   A +   V K ++   +L   R   +   + G+I +
Sbjct: 348 EKFNSVVAPLMKRVLKAQKENQVLAATRDELLPLLMNGKITV 389


>gi|227529080|ref|ZP_03959129.1| possible restriction modification system DNA specificity subunit
           [Lactobacillus vaginalis ATCC 49540]
 gi|227351005|gb|EEJ41296.1| possible restriction modification system DNA specificity subunit
           [Lactobacillus vaginalis ATCC 49540]
          Length = 217

 Score = 66.4 bits (160), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 19/163 (11%), Positives = 54/163 (33%), Gaps = 9/163 (5%)

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
           R  T    +  + ++  +I + +   +     +   +   V P + V         K ++
Sbjct: 56  RNWTNDKRNGHIWITPTDINKSIIIDSERYLSDKGWSKARVVPKDSVLITSIASIGKNAI 115

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRL 365
            + +      I +  +       +++Y   +  + +  +     G      +    +   
Sbjct: 116 NAIEAAFNQQINALII-----QNNNSYFVLMAMTREKQRFEALAGQTATPIINKSTLSSF 170

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
            + +P  KEQ  I N       ++D L+   +  +  L + + 
Sbjct: 171 TIKLPSKKEQDKIGNF----FKQLDSLITLHQCKLNQLSKMKK 209



 Score = 56.3 bits (134), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 25/191 (13%), Positives = 51/191 (26%), Gaps = 15/191 (7%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGK----------DIIYIGLEDVESGTGKYLPKDGNSRQ 72
           + W    +    K+ TG T  +              I+I   D+         +  + + 
Sbjct: 31  ETWDQRKLSELGKVFTGNTPSTKDVRNWTNDKRNGHIWITPTDINKSIIIDSERYLSDKG 90

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
              S   +  K  +L   +    + AI A           +              +    
Sbjct: 91  W--SKARVVPKDSVLITSIASIGKNAINAIEAAFNQQ---INALIIQNNNSYFVLMAMTR 145

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
             QR EA+         +   + +  + +P   EQ  I          I     +  +  
Sbjct: 146 EKQRFEALAGQTATPIINKSTLSSFTIKLPSKKEQDKIGNFFKQLDSLITLHQCKLNQLS 205

Query: 193 ELLKEKKQALV 203
           ++ K   Q + 
Sbjct: 206 KMKKFYLQKMF 216


>gi|209554404|ref|YP_002284454.1| restriction-modification enzyme subunit s3b [Ureaplasma urealyticum
           serovar 10 str. ATCC 33699]
 gi|209541905|gb|ACI60134.1| restriction-modification enzyme subunit s3b [Ureaplasma urealyticum
           serovar 10 str. ATCC 33699]
          Length = 406

 Score = 66.4 bits (160), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 53/412 (12%), Positives = 120/412 (29%), Gaps = 49/412 (11%)

Query: 28  VPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           + +K       G T  S +          I      +G   Y+               ++
Sbjct: 3   IKLKDIIYAKRGSTITSNEFKINPGSYPLISASAQNNGVFGYI------------NYYMY 50

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ-RIEAI 140
             G I     G         D     S   ++    + +      +         +I+++
Sbjct: 51  EGGHITISMNGNAGCVFYQKDKFSANSDVLVLSNIDNKISNNKFIFYWLKKHENTKIKSL 110

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK- 199
           C+G T        + N+ + +PP+ EQ  I   I                      +K  
Sbjct: 111 CKGTTRLRLSNDDVLNLEINLPPIEEQNAIISIIEPHEKLFIKYSNLVDISSVENTKKDV 170

Query: 200 -----------------QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVT 242
                            +A+   + T   N  V       E          +  F   ++
Sbjct: 171 DNLISIIEPIERIIKNLKAIKYKLETIMNNFFVVFYLFNNEENSNKYKLRNIGKFKGGIS 230

Query: 243 ELNRKNTK--LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQN 300
            L++ N    +   N + +    +I       +    E      IV  G+++        
Sbjct: 231 TLDKNNYDSGINFINYMDIYKNFVINDDIKLRLYNASEKDIKSYIVSYGDLLLTASSETK 290

Query: 301 DKRSLRSAQVMERGIITSAYMAVKPHGID---STYLAWLMRSYDLCKVFYAMGSG-LRQS 356
           ++ +  S  +  +  I + +  +  +  +     Y A+  RS    K    + +G  R +
Sbjct: 291 EEIAFSSVYLSNKQAIFNGFSKIYKYDQNILLPIYAAFYFRSEFFRKEVIKLATGYTRFN 350

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNV------INVETARIDVLVEKIEQSIVL 402
           L  +D K + + +   + Q   + +      ++ +  +I+ ++      I  
Sbjct: 351 LSIKDAKNIEISINNFEFQKKFSKIVEPLLNLSTKANKIEKILNDSLLKITK 402


>gi|218960818|ref|YP_001740593.1| Restriction modification system DNA specificity domain:N-6 DNA
           methylase:Type I restriction-modification system, M
           subunit [Candidatus Cloacamonas acidaminovorans]
 gi|167729475|emb|CAO80386.1| Restriction modification system DNA specificity domain:N-6 DNA
           methylase:Type I restriction-modification system, M
           subunit [Candidatus Cloacamonas acidaminovorans]
          Length = 837

 Score = 66.4 bits (160), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 48/387 (12%), Positives = 108/387 (27%), Gaps = 59/387 (15%)

Query: 26  KVVPIKRFT----KLNTGRTS-ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
             V +        +  +G    +   +  YI + D++      L  +     S  +   +
Sbjct: 484 DTVRLDEICVKKAQYGSGAAKTDYDGETRYIRITDIDDDG--NLKDNDIVSPSVINEKYL 541

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQ---PKDVLPELLQGWLLSIDVTQRI 137
             +  +L+ + G   R  I           +L+         LP  +     S      I
Sbjct: 542 LNEDDLLFARSGSVGRVYIHRQKGRFIFAGYLIRFVLDKNKALPRFIFYLTKSEYYANWI 601

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
               +  T+S+ + +   ++ +P+PPL+ Q  I  ++                       
Sbjct: 602 IKQSKTGTISNINAQQYSSLRIPLPPLSVQEEIVAELD---------------------- 639

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
             Q ++              K     W   +    E   +              I+++  
Sbjct: 640 SYQKIIDGA-----------KQVVDNWKPHIDIDPEWDSYPYKEIFTTLTAPMKIQTSEY 688

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
           S S    I       +    +       ++   ++F     +    S    Q  +     
Sbjct: 689 SSSGAYPIIDQSMHEIAGWTDDERALVRIEKPVVIFGDHTCRIKYISKNFCQGAD----- 743

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFD 377
              +      +   YL + + ++ +    Y           F  +    + +P +  Q  
Sbjct: 744 GIKILSTTENVIPKYLYYYLLAFPITPQGYNR--------HFSKLVEKEISIPELDVQQI 795

Query: 378 ITNVINVETARID---VLVEKIEQSIV 401
           I + I  E   ++    L+   EQ I 
Sbjct: 796 IVSRIESEQKLVEANRKLIALFEQKIK 822


>gi|94986115|ref|YP_605479.1| restriction modification system DNA specificity subunit
           [Deinococcus geothermalis DSM 11300]
 gi|94556396|gb|ABF46310.1| restriction modification system DNA specificity domain [Deinococcus
           geothermalis DSM 11300]
          Length = 417

 Score = 66.4 bits (160), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 47/428 (10%), Positives = 121/428 (28%), Gaps = 46/428 (10%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W    +      + G+           GL + E      +P  G++        ++   
Sbjct: 4   EWIDTTVGEIAPFSYGK-----------GLPERERKQTGSVPVYGSNGIVGFHDSALTGG 52

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
             I+ G+ G                T F V      L       L S+ +    E +   
Sbjct: 53  PTIVIGRKGTVGAVHYSPIPCWPIDTTFFVSDSDRSLVRYSYYLLKSLGL----ENMNAD 108

Query: 144 ATMSHADWKGIG-NIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           + +   +       I +     AEQ  I   +     +I+    +      + +   +A 
Sbjct: 109 SAVPGLNRDAAHARIVLIPRDKAEQRAIAHILGTLDDKIELNRKQSETLEAMARALFKAW 168

Query: 203 VSYI-------------------VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTE 243
                                  +   L      +    E +G +P+ W V  F  +  +
Sbjct: 169 FVDFEPVRAKMEGRWQRGQSLPGLPAHLYDLFPDRLVDSE-LGEIPEGWRVFAFGDVAQQ 227

Query: 244 LNRKNTKLIESNILSLSYG-NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK 302
                        L   Y           ++            V  G ++   ++    +
Sbjct: 228 GKGVVNPGNSPQDLFTHYSLPAFDSAHCPSIEPGHAIKSNKTPVPDGAVLVSKLNPHIPR 287

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM-RSYDLCKVFYAMGSGL---RQSLK 358
                       + ++ ++   P    ++   + +  S +     + + +G     Q +K
Sbjct: 288 VW-HVGTAGPNAVCSTEFIVWAPKAPANSAFLYCLASSPEFSGAMHQLVTGTSNSHQRVK 346

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            + ++ + V       +  I        + ++ +++  +QS   L + R + +   ++G+
Sbjct: 347 PDQLREIRVF---AATENAIEAFSEWVRSPLEKILQNRQQSRT-LAQLRDALLPRLISGE 402

Query: 419 IDLRGESQ 426
           + +    +
Sbjct: 403 LRIADAEK 410



 Score = 54.0 bits (128), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 31/199 (15%), Positives = 61/199 (30%), Gaps = 10/199 (5%)

Query: 12  DSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSR 71
           DS    +G IP+ W+V       +   G  +             + +    + P      
Sbjct: 206 DSE---LGEIPEGWRVFAFGDVAQQGKGVVNPGNSPQDLFTHYSLPAFDSAHCP-SIEPG 261

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDG---ICSTQFLVLQPKDVLPELL-QGW 127
            +  S  +    G +L  KL P++ +       G   +CST+F+V  PK           
Sbjct: 262 HAIKSNKTPVPDGAVLVSKLNPHIPRVWHVGTAGPNAVCSTEFIVWAPKAPANSAFLYCL 321

Query: 128 LLSIDVTQRIEAICEG--ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
             S + +  +  +  G   +        +  I +            E + +   +I    
Sbjct: 322 ASSPEFSGAMHQLVTGTSNSHQRVKPDQLREIRVFAATENAIEAFSEWVRSPLEKILQNR 381

Query: 186 TERIRFIELLKEKKQALVS 204
            +     +L       L+S
Sbjct: 382 QQSRTLAQLRDALLPRLIS 400


>gi|302347049|ref|YP_003815347.1| hypothetical protein HMPREF0659_A7328 [Prevotella melaninogenica
           ATCC 25845]
 gi|302150605|gb|ADK96866.1| conserved hypothetical protein [Prevotella melaninogenica ATCC
           25845]
          Length = 382

 Score = 66.4 bits (160), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 45/346 (13%), Positives = 93/346 (26%), Gaps = 42/346 (12%)

Query: 76  STVSIFAKGQILYGK----LGPYLRKAIIADFDG---ICSTQFLVLQPKDV--LPELLQG 126
               +  +G I +           +     + +G   IC    +  +      +      
Sbjct: 55  KNYELCQEGDIAFADASEDTNEVAKAVEFYNLNGKDVICGLHTIHGRDNQHKTIVGYKGY 114

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
              S    Q+I  I +G  +   + K      + IP   EQ  I   +     RI T   
Sbjct: 115 AFSSTAFHQQIRRIAQGTKIYSINSKNFSECYIGIPSKGEQKKIATLLRLIDERISTQNK 174

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
              +   L+K         +        ++++D   E                    L  
Sbjct: 175 IIDKLESLIKGICNNYFLKLSHSQEMKSIRLRDILKERNEYCCKDGTFVHGTLSKDGLFP 234

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
           K  +                        L  E  + Y+I    +I +   +L   K  + 
Sbjct: 235 KTERW-------------------NRDFLVKEENKKYKITHLDDICYNPANL---KFGVI 272

Query: 307 SAQVMERGIITSAYMAV-KPHGIDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDV 362
              +    I +  Y+       ++  ++   + + +  +       G    R S+  ED 
Sbjct: 273 CRNIYGDLIFSPIYVTFEISKKVNIGFIELYLTNRNFIEKIRKFEQGTVYERMSVSPEDF 332

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
               + +P + EQ            +I  L    +  +  L   + 
Sbjct: 333 LSYKIRIPSLSEQT-------FFYQKIQRLKNCSQNELEHLNLYKK 371



 Score = 54.8 bits (130), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/136 (13%), Positives = 41/136 (30%), Gaps = 10/136 (7%)

Query: 281 ETYQIVDPGEIVFRFI--DLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW--- 335
           + Y++   G+I F     D     +++    +  + +I   +          T + +   
Sbjct: 55  KNYELCQEGDIAFADASEDTNEVAKAVEFYNLNGKDVICGLHTIHGRDNQHKTIVGYKGY 114

Query: 336 LMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
              S    +    +  G    S+  ++     + +P   EQ  I          ID  + 
Sbjct: 115 AFSSTAFHQQIRRIAQGTKIYSINSKNFSECYIGIPSKGEQKKIA----TLLRLIDERIS 170

Query: 395 KIEQSIVLLKERRSSF 410
              + I  L+      
Sbjct: 171 TQNKIIDKLESLIKGI 186


>gi|332877050|ref|ZP_08444801.1| hypothetical protein HMPREF9074_00527 [Capnocytophaga sp. oral
           taxon 329 str. F0087]
 gi|332684940|gb|EGJ57786.1| hypothetical protein HMPREF9074_00527 [Capnocytophaga sp. oral
           taxon 329 str. F0087]
          Length = 394

 Score = 66.4 bits (160), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 28/196 (14%), Positives = 66/196 (33%), Gaps = 11/196 (5%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY-ETYQI 285
            + + +          +      K +   ++      ++         +K ES  ++Y +
Sbjct: 17  ELLEFYSTNSLSWEQLDYGNGIIKNLHYGLIHKGLPTMVDISSDLLPYIKSESMPKSYTL 76

Query: 286 VDPGEIVFRFI--DLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW---LMRSY 340
              G++ F     D  +  +++      E+ I++  +        D T + +      S 
Sbjct: 77  FLNGDVAFADASEDTNDVAKAVEIVNCDEQQIVSGLHTIHGRDKSDLTVIGYKGYAFASD 136

Query: 341 DLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
              K    +  G    S+   +   + V +P   EQ  I  ++      ID+ +    + 
Sbjct: 137 SFHKQIRRIAQGTKVFSINVRNFDEVRVGIPSKDEQIKIAKLLRA----IDLRIATQNKI 192

Query: 400 IVLLKERRSSFIAAAV 415
           I  LK+ +S+ I    
Sbjct: 193 IEDLKKLKSAIIDKLF 208



 Score = 63.7 bits (153), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 61/395 (15%), Positives = 122/395 (30%), Gaps = 61/395 (15%)

Query: 24  HWKVVPIKRFTKLNT-----------GRTSESGKDIIYI-----GLEDVESGTGKYLPKD 67
            WK+V +    +  +           G           I      + D+ S    Y+  +
Sbjct: 9   EWKIVKVSELLEFYSTNSLSWEQLDYGNGIIKNLHYGLIHKGLPTMVDISSDLLPYIKSE 68

Query: 68  GNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPE----- 122
              +     + ++F  G + +            A     C  Q +V     +        
Sbjct: 69  SMPK-----SYTLFLNGDVAFADASEDTNDVAKAVEIVNCDEQQIVSGLHTIHGRDKSDL 123

Query: 123 ----LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
                      S    ++I  I +G  +   + +    + + IP   EQ+ I + +    
Sbjct: 124 TVIGYKGYAFASDSFHKQIRRIAQGTKVFSINVRNFDEVRVGIPSKDEQIKIAKLL---- 179

Query: 179 VRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFF 238
             ID  I  + + IE LK+ K A++  +           ++                   
Sbjct: 180 RAIDLRIATQNKIIEDLKKLKSAIIDKLFDNLEGERCTYRELF----------------- 222

Query: 239 ALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDL 298
             +     K+    +    S  YG + +      +     S  TY+I+  G+ V      
Sbjct: 223 -QIVNDRNKDFHFNKVIAASQEYGMVERDTLNLKVQFDESSINTYKIIRTGDYVVYLRSF 281

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY--LAWLMRSYDLCKVFYAMGSGLR-- 354
           Q        A     GI + AY+ ++P+    +Y  L +   S         +  G+R  
Sbjct: 282 QG-----GFAFSELDGICSPAYIILRPNTRILSYGFLRYYFVSQPFINSLRLVTYGIRDG 336

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
           +S+  E+   +P+ +P    Q  I   I     ++
Sbjct: 337 RSINVEEWMDMPISIPDKSIQDQILKTIQSIDNKL 371


>gi|154492483|ref|ZP_02032109.1| hypothetical protein PARMER_02117 [Parabacteroides merdae ATCC
           43184]
 gi|254881868|ref|ZP_05254578.1| type I restriction-modification system specificity protein
           [Bacteroides sp. 4_3_47FAA]
 gi|154087708|gb|EDN86753.1| hypothetical protein PARMER_02117 [Parabacteroides merdae ATCC
           43184]
 gi|254834661|gb|EET14970.1| type I restriction-modification system specificity protein
           [Bacteroides sp. 4_3_47FAA]
          Length = 248

 Score = 66.4 bits (160), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 40/233 (17%), Positives = 92/233 (39%), Gaps = 12/233 (5%)

Query: 192 IELLKEKKQALV-SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
            + L+++ QAL  S+ V      D +  DS    +G++P  W V     +  ++  K   
Sbjct: 20  NDNLEQQAQALFKSWFVDFEPFKDGEFVDS---ELGMIPKGWRVVCLGEVTKQVTEKVGN 76

Query: 251 LIESNILS-LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
             +  +LS ++ G ++   E     +  ++   Y IV+P  + F +   + +  S+   +
Sbjct: 77  REDVTVLSPVNSGELVLSEEYFTKQVFSKNLSKYLIVNP--LSFAYNPARINIGSIGLNE 134

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVL 368
               G ++  Y+  K       +  +  R+             G+RQSL ++D   +  +
Sbjct: 135 YDFVGCVSPVYVVFKCEPNYHYFFDFYKRTAVFKDEVALRAIGGVRQSLGYDDFSLIKTI 194

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            P       +    N    ++  ++ + +     L   R S +   ++G++ +
Sbjct: 195 YPTPD----VVAEFNNLYLKMKEVITRNDIQNNKLTTLRDSLLPKLMSGELKI 243



 Score = 60.2 bits (144), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 31/204 (15%), Positives = 64/204 (31%), Gaps = 14/204 (6%)

Query: 12  DSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSR 71
           DS    +G IPK W+VV +   TK  T +     +D+  +    V SG      +    +
Sbjct: 48  DSE---LGMIPKGWRVVCLGEVTKQVTEKVGNR-EDVTVLSP--VNSGELVLSEEYFTKQ 101

Query: 72  --QSDTSTVSIFAKGQILYGKLGPYLRKAII--ADFDGICSTQFLVLQPKDVLPELLQGW 127
               + S   I       Y      +    +   DF G  S  ++V + +         +
Sbjct: 102 VFSKNLSKYLIVNPLSFAYNPARINIGSIGLNEYDFVGCVSPVYVVFKCEPNYHYFFDFY 161

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
             +      +     G       +         I  +     +  +     +++  +IT 
Sbjct: 162 KRTAVFKDEVALRAIGGVRQSLGYDDF----SLIKTIYPTPDVVAEFNNLYLKMKEVITR 217

Query: 188 RIRFIELLKEKKQALVSYIVTKGL 211
                  L   + +L+  +++  L
Sbjct: 218 NDIQNNKLTTLRDSLLPKLMSGEL 241


>gi|167752727|ref|ZP_02424854.1| hypothetical protein ALIPUT_00987 [Alistipes putredinis DSM 17216]
 gi|167659796|gb|EDS03926.1| hypothetical protein ALIPUT_00987 [Alistipes putredinis DSM 17216]
          Length = 372

 Score = 66.4 bits (160), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 50/368 (13%), Positives = 114/368 (30%), Gaps = 46/368 (12%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V +  + +    R   +   I  I      S +  ++    N       +  + A   
Sbjct: 7   KWVRLGDYIEQCDERNHSNKYGIEAIK---GISTSKTFIDTKANLDGVPLQSYKLVAPRY 63

Query: 86  ILY----GKLGPYLRKAIIADFD-GICSTQFLVLQPKDVL---PELLQGWLLSIDVTQRI 137
             Y     + G  +  A        + S+ + V +   +    PE L  + L  +  +  
Sbjct: 64  FAYVPDTSRRGDKVALAFNDSSCTYLISSIYCVFKVSVLDKLSPEYLYLFFLRPEFDRYA 123

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
                G+      W  + N  +P+P + EQ  +             +  +       L +
Sbjct: 124 RYNSWGSAREVFSWGNMCNTMIPLPTITEQQKVVN----AWKAFREIKEQNEAKAAPLMQ 179

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
             Q+ +  +  K            ++ +G   +  + +     V          +     
Sbjct: 180 VCQSYIQELKHKY----------PLQEIGPYIEECDERNVDLSVRLSQGIANTKVFQAPK 229

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
            ++  +   K                 IV  G+  +     +N ++   + +      ++
Sbjct: 230 QVALNSKSDK-----------------IVRTGQFGYNRATTRNGEKISIAYRTGADCTVS 272

Query: 318 SAYMAVKPHGID---STYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIK 373
           SAY   K    D     +L   +   +  +    M  G   +  +F+++ R+ + +PPI+
Sbjct: 273 SAYGVFKITNEDIIEPYFLWMWVSRPEFDRYARYMSKGSAHEFFEFDEMCRVKIPLPPIE 332

Query: 374 EQFDITNV 381
            Q  I N+
Sbjct: 333 IQRAIVNI 340



 Score = 49.4 bits (116), Expect = 0.001,   Method: Composition-based stats.
 Identities = 27/187 (14%), Positives = 60/187 (32%), Gaps = 15/187 (8%)

Query: 231 HWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGE 290
           + +       + + + +N    +  I ++   +  +        L     ++Y++V P  
Sbjct: 5   NVKWVRLGDYIEQCDERN-HSNKYGIEAIKGISTSKTFIDTKANLDGVPLQSYKLVAPRY 63

Query: 291 IVFR-FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID---STYLAWLMRSYDLCKVF 346
             +      + DK +L         +I+S Y   K   +D     YL       +  +  
Sbjct: 64  FAYVPDTSRRGDKVALAFNDSSCTYLISSIYCVFKVSVLDKLSPEYLYLFFLRPEFDRYA 123

Query: 347 YAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV--------LVEKIE 397
                   R+   + ++    + +P I EQ  + N        I          L++  +
Sbjct: 124 RYNSWGSAREVFSWGNMCNTMIPLPTITEQQKVVNAW-KAFREIKEQNEAKAAPLMQVCQ 182

Query: 398 QSIVLLK 404
             I  LK
Sbjct: 183 SYIQELK 189


>gi|312898353|ref|ZP_07757743.1| type I restriction modification DNA specificity domain protein
           [Megasphaera micronuciformis F0359]
 gi|310620272|gb|EFQ03842.1| type I restriction modification DNA specificity domain protein
           [Megasphaera micronuciformis F0359]
          Length = 185

 Score = 66.4 bits (160), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 29/166 (17%), Positives = 60/166 (36%), Gaps = 12/166 (7%)

Query: 25  WKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLP---KDGNSRQSDT 75
           W+   +     +  G T  +        DI +     VE G+ +Y+    +       + 
Sbjct: 19  WEQRKLGEVADIIGGGTPSTSFADYWDGDIDWYSP--VEIGSNRYVSDSIRKITKLGLEK 76

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
           S+  I   G +L+         AI+    G  +  F  + P+  + +    + L+  + +
Sbjct: 77  SSTKILPVGTVLFTSRAGIGNTAILRKE-GCTNQGFQSIIPRKNILDTYFLYTLTPQLKR 135

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
             E +  G+T      + +  +P+ IP L EQ  + +        I
Sbjct: 136 YGELMGAGSTFVEVSGRQMEKMPLNIPSLEEQKKVGKLFEILDDSI 181



 Score = 55.2 bits (131), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/151 (12%), Positives = 46/151 (30%), Gaps = 10/151 (6%)

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
               I+         N       R +        + +I+  G ++F       +   LR 
Sbjct: 44  WDGDIDWYSPVEIGSNRYVSDSIRKITKLGLEKSSTKILPVGTVLFTSRAGIGNTAILRK 103

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLP 366
                 G     + ++ P             +  L +    MG+G     +    ++++P
Sbjct: 104 -----EGCTNQGFQSIIPRKNILDTYFLYTLTPQLKRYGELMGAGSTFVEVSGRQMEKMP 158

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIE 397
           + +P ++EQ  +          +D  +   +
Sbjct: 159 LNIPSLEEQKKVG----KLFEILDDSITLHQ 185


>gi|77415160|ref|ZP_00791180.1| Type I restriction modification DNA specificity domain protein
           [Streptococcus agalactiae 515]
 gi|77158789|gb|EAO70080.1| Type I restriction modification DNA specificity domain protein
           [Streptococcus agalactiae 515]
          Length = 271

 Score = 66.0 bits (159), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 44/159 (27%), Positives = 72/159 (45%), Gaps = 5/159 (3%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGK---DIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           IPK W+ V +   + LN   +    K   D   + +ED+E  TG+ + K+  + +S   +
Sbjct: 110 IPKSWEWVRLGNISSLNFFSSISGDKIPNDSWVLDMEDIEKETGRLVRKNYKTEKSSYKS 169

Query: 78  VSI-FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
             I F+K  ILY KL P L+K II+D +G  +T+ L ++    +      + +       
Sbjct: 170 NKISFSKDTILYAKLRPNLKKVIISDENGFATTELLPIKVFGNISLDYIRYCMISPFYYF 229

Query: 137 I-EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKI 174
                  G  M       + +  +P+PPL EQ  I  KI
Sbjct: 230 NIIQSVYGVKMPRVSSGFLNSTLLPLPPLTEQQRIVSKI 268



 Score = 48.3 bits (113), Expect = 0.003,   Method: Composition-based stats.
 Identities = 28/208 (13%), Positives = 62/208 (29%), Gaps = 12/208 (5%)

Query: 181 IDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFA- 239
           +   I    + +    + K+  +  +V    + +   K    E    +P  WE       
Sbjct: 67  LLEKIKAEKQKLYEEGKLKKKDLEELVVTKGDDNSPYK----EVPYNIPKSWEWVRLGNI 122

Query: 240 ----LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRF 295
                 + ++          +          +L  +N   +  SY++ +I    + +   
Sbjct: 123 SSLNFFSSISGDKIPNDSWVLDMEDIEKETGRLVRKNYKTEKSSYKSNKISFSKDTILYA 182

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-R 354
               N K+ + S +       T          I   Y+ + M S            G+  
Sbjct: 183 KLRPNLKKVIISDENG--FATTELLPIKVFGNISLDYIRYCMISPFYYFNIIQSVYGVKM 240

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVI 382
             +    +    + +PP+ EQ  I + I
Sbjct: 241 PRVSSGFLNSTLLPLPPLTEQQRIVSKI 268



 Score = 41.3 bits (95), Expect = 0.27,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 22/53 (41%), Gaps = 4/53 (7%)

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIAAAVTGQ 418
           PP+ EQ  I   I    A++    E   +   L KE     + S +  A+ G+
Sbjct: 1   PPLXEQKRIVAQIEKALAKVXEYAESYNKLXQLDKEFPDKLKKSILQYAMQGK 53


>gi|269978358|gb|ACZ55913.1| truncated putative type I restriction-modification system
           specificity subunit S [Helicobacter pylori]
          Length = 327

 Score = 66.0 bits (159), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 44/315 (13%), Positives = 87/315 (27%), Gaps = 12/315 (3%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPKDGNSRQSD 74
           PK  +   ++   ++  G T             I +  +ED+            +     
Sbjct: 13  PKGVEFKTLEEVFEIKNGYTPSKNNPEFWKNGTIPWFRMEDIRENGRILKDSIQHITPKA 72

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP---ELLQGWLLSI 131
                +F K  I+          A++   D + + QF  L  K       ++   +    
Sbjct: 73  LKGKKLFPKNSIIISTTATIGEHALLI-VDSLANQQFTFLSKKANCDLALDMKFFFYQCF 131

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            + +  +     +  +  D         PIPPL  Q  I + + A T     L TE    
Sbjct: 132 LLGEWCKKNTNVSGFASVDMTAFKKYKFPIPPLEIQQEIVKILDAFTELNTELNTELNTE 191

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
           ++  K++ +     ++    + +   KD+ I+                 V          
Sbjct: 192 LKARKKQYE-YYQNMLLDFNDINQNHKDAKIKSYPKRLKTLLQTLAPKGVEFRKLGEVCE 250

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
           I  N       N  +       G           +  G+ V    D     ++       
Sbjct: 251 ILDNRRIPIAKNKRKPGIYPYYGANGIQDYIDSYIFDGDFVLVGEDGSVINKNNTPVVNW 310

Query: 312 ERGIITSAYMAVKPH 326
             G I    M +  +
Sbjct: 311 ASGKIWVIIMLMCFN 325



 Score = 58.3 bits (139), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 19/177 (10%), Positives = 53/177 (29%), Gaps = 11/177 (6%)

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNIIQKL---ETRNMGLKPESYETYQIVDPGEIVF 293
                T             I      +I +     +     + P++ +  ++     I+ 
Sbjct: 27  IKNGYTPSKNNPEFWKNGTIPWFRMEDIRENGRILKDSIQHITPKALKGKKLFPKNSIII 86

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-- 351
                  +   L    +  +      +++ K +   +  + +      L   +    +  
Sbjct: 87  STTATIGEHALLIVDSLANQQFT---FLSKKANCDLALDMKFFFYQCFLLGEWCKKNTNV 143

Query: 352 GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
               S+     K+    +PP++ Q +I  +++  T     L  ++      LK R+ 
Sbjct: 144 SGFASVDMTAFKKYKFPIPPLEIQQEIVKILDAFTELNTELNTELNTE---LKARKK 197


>gi|292491019|ref|YP_003526458.1| restriction modification system DNA specificity domain protein
           [Nitrosococcus halophilus Nc4]
 gi|291579614|gb|ADE14071.1| restriction modification system DNA specificity domain protein
           [Nitrosococcus halophilus Nc4]
          Length = 545

 Score = 66.0 bits (159), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 23/215 (10%), Positives = 59/215 (27%), Gaps = 21/215 (9%)

Query: 224 WVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS----------LSYGNIIQKLETRNM 273
            +G +P  W V     L+ EL   +                    ++        +T+ +
Sbjct: 334 ELGEIPVGWRVGKLEELIDELETGSRPKGGVGQFFEGVPSIGAESITRIGEYDYSKTKFV 393

Query: 274 GLKPESYETYQIVDPGEIVFRFID-----LQNDKRSLRSAQVMERGIITSAYMA-VKPHG 327
             +        I+   +++                        E   +            
Sbjct: 394 PKEYFEKMRRGIIKDRDVLIYKDGGQPGRFDARISMFGGGFPYETACLNEHVFRLQAKKP 453

Query: 328 IDSTYLAWLMRSYDLCKVFY-AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
               YL   + SY + +             +   D+K L  L    +       VI    
Sbjct: 454 TYQNYLYLWLSSYPVIEELRFRGAKAAIPGINSGDIKELDFLFMDEEVLEKFDEVIEPLF 513

Query: 387 ARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           +++     +  + + +L + R + +   ++G++ +
Sbjct: 514 SKL----LQNSREMAVLGKLRDTLLPKLMSGELRV 544



 Score = 62.1 bits (149), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 34/183 (18%), Positives = 66/183 (36%), Gaps = 15/183 (8%)

Query: 239 ALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYE--TYQIVDPGEIVFRFI 296
                   K     E+N + ++ GN       +   LK    E     ++  G+++    
Sbjct: 16  KHGYAFPGKEITTKETNDVLVTPGNFEIGGGFKASKLKYFEGEVPEEYVLAEGDLIVTMT 75

Query: 297 DLQNDK-----RSLRSAQVMERGIITS--AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
           DL  D       +L      +R +       + VK   + S +L WLMRS +        
Sbjct: 76  DLSRDGDTLGYSALVPKFDGKRLLHNQRIGLVLVKSDEVSSAFLHWLMRSREYRFYVLGS 135

Query: 350 GSG-LRQSLKFEDVKRLPVLVPP-IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
            +G   +    E +K++ + +P   KEQ  I  ++    + +D  +E   +    L+   
Sbjct: 136 ATGSTVRHTSPERIKQIELEIPSDPKEQEAIAEIL----SSLDEKIELNRKQNRTLEAIA 191

Query: 408 SSF 410
            + 
Sbjct: 192 QAL 194



 Score = 47.5 bits (111), Expect = 0.004,   Method: Composition-based stats.
 Identities = 32/206 (15%), Positives = 56/206 (27%), Gaps = 20/206 (9%)

Query: 18  IGAIPKHWKVVPIKRFT-KLNTGRTSESG-----KDIIYIGLEDVESGTGKYLPKDGNSR 71
           +G IP  W+V  ++    +L TG   + G     + +  IG E + +  G+Y        
Sbjct: 335 LGEIPVGWRVGKLEELIDELETGSRPKGGVGQFFEGVPSIGAESI-TRIGEYDYSKTKFV 393

Query: 72  QSDTSTVS---IFAKGQILYGKLGPYLRKA---------IIADFDGICSTQFLV-LQPKD 118
             +        I     +L  K G    +                   +         K 
Sbjct: 394 PKEYFEKMRRGIIKDRDVLIYKDGGQPGRFDARISMFGGGFPYETACLNEHVFRLQAKKP 453

Query: 119 VLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
                L  WL S  V + +      A +   +   I  +              E I    
Sbjct: 454 TYQNYLYLWLSSYPVIEELRFRGAKAAIPGINSGDIKELDFLFMDEEVLEKFDEVIEPLF 513

Query: 179 VRIDTLITERIRFIELLKEKKQALVS 204
            ++     E     +L       L+S
Sbjct: 514 SKLLQNSREMAVLGKLRDTLLPKLMS 539


>gi|323340762|ref|ZP_08081014.1| hypothetical protein HMPREF0542_11445 [Lactobacillus ruminis ATCC
           25644]
 gi|323091885|gb|EFZ34505.1| hypothetical protein HMPREF0542_11445 [Lactobacillus ruminis ATCC
           25644]
          Length = 188

 Score = 66.0 bits (159), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 15/149 (10%), Positives = 56/149 (37%), Gaps = 9/149 (6%)

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
            + + +     S  +   +   +I+F ++    +   ++        +  +         
Sbjct: 43  DDVKYIDGSNFSKLSRSKLFINDIMFTYVGTVGEVAIIKENDRFY--LAPNVSRIRVKSD 100

Query: 328 IDSTYLAWLMRSYDLCK--VFYAMGSGLRQSLKFEDVKRLPVLVP-PIKEQFDITNVINV 384
               +++  MR+ +     +F  + +  + +L  E++++  + +P   +EQ    + +  
Sbjct: 101 DSPKFISHYMRTDNFKNKVIFPLIATSSQPALSMENIRKFTINIPINREEQ----DCLAK 156

Query: 385 ETARIDVLVEKIEQSIVLLKERRSSFIAA 413
               +D L+   ++ I  +K  + + +  
Sbjct: 157 YFDSLDHLITLHQRKIDKIKNMKKAMLDQ 185


>gi|218133859|ref|ZP_03462663.1| hypothetical protein BACPEC_01748 [Bacteroides pectinophilus ATCC
           43243]
 gi|217991234|gb|EEC57240.1| hypothetical protein BACPEC_01748 [Bacteroides pectinophilus ATCC
           43243]
          Length = 357

 Score = 66.0 bits (159), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 50/358 (13%), Positives = 112/358 (31%), Gaps = 49/358 (13%)

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGKL----GPYLRKAIIADF-DGICSTQFL---VL 114
           ++P   N   +D S   +  KG+     +       L  A+  +    I S  +    V+
Sbjct: 36  FMPSVANVIGTDLSKYKLITKGKFACNPMHVGRDERLPVALYDEEKPAIVSPAYFMFEVI 95

Query: 115 QPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKI 174
               +  + L  W    +  +      +G+      W  I  + +PIPP+  Q+ I    
Sbjct: 96  DNSILNEDYLMMWFRRPEFDRICWLHTDGSVRGGITWDDICRLELPIPPIENQLEIVN-- 153

Query: 175 IAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEV 234
                 I   I  + +  + L +  Q L         +     + +  + + L   H   
Sbjct: 154 --SYKAITERIALKQKINDNLDDTAQTLYQKYFESNSDKSSWKQGTVGDVLQLQRGH--- 208

Query: 235 KPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFR 294
                             +     ++ G       T  +G   E      ++  G    R
Sbjct: 209 ------------------DLPRTEMTGGKYPVAGSTGTIGYHDEFTAEAPVIVMG----R 246

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR 354
             ++ N +  L +          ++    + +  +  ++ +L+++ +        G    
Sbjct: 247 SGNIGNPRLYLCNCWT-----HNTSLYVKQIYEAEPLWVFYLLKNLNYDGFV---GGSAV 298

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
            +L   DV    + +PP++ Q    +      + I    E +   I  L+E +   + 
Sbjct: 299 PTLNRNDVHAYGIAIPPLELQK---SFSQKVMSLIYCKEENL-SEIEKLQELQKIILT 352



 Score = 54.8 bits (130), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 23/147 (15%), Positives = 55/147 (37%), Gaps = 9/147 (6%)

Query: 274 GLKPESYETYQIVDPGEIVFRFIDLQNDKRS-LRSAQVMERGIITSAYMAV---KPHGID 329
            +       Y+++  G+     + +  D+R  +      +  I++ AY          ++
Sbjct: 42  NVIGTDLSKYKLITKGKFACNPMHVGRDERLPVALYDEEKPAIVSPAYFMFEVIDNSILN 101

Query: 330 STYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
             YL    R  +  ++ +      +R  + ++D+ RL + +PPI+ Q +I N     T R
Sbjct: 102 EDYLMMWFRRPEFDRICWLHTDGSVRGGITWDDICRLELPIPPIENQLEIVNSYKAITER 161

Query: 389 IDVLVEKIEQSIVLLKERRSSFIAAAV 415
               +   ++    L +   +      
Sbjct: 162 ----IALKQKINDNLDDTAQTLYQKYF 184


>gi|290957397|ref|YP_003488579.1| type I restriction protein fragment [Streptomyces scabiei 87.22]
 gi|260646923|emb|CBG70022.1| putative type I restriction enzyme fragment [Streptomyces scabiei
           87.22]
          Length = 220

 Score = 66.0 bits (159), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 23/145 (15%), Positives = 54/145 (37%), Gaps = 7/145 (4%)

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
           ++     +  PG+++F  +     K        +     T  ++     G+DS ++  ++
Sbjct: 77  DAISLKAVFRPGDVLFGKLRAYLRKFWFADVAGL---CTTEIWVLRARPGVDSRFVRSIV 133

Query: 338 RSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
            +    +              +  V+ L V +PP  EQ  I +V+    A ID  +  + 
Sbjct: 134 ETERFIEAASGAYGTHMPRSDWGTVRSLSVDIPPHDEQRAIASVL----ADIDREISILH 189

Query: 398 QSIVLLKERRSSFIAAAVTGQIDLR 422
             +   ++ +   +   +TG+  L 
Sbjct: 190 ARLAKARDVKQGMMQQLLTGRTRLP 214



 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 41/159 (25%), Positives = 74/159 (46%), Gaps = 6/159 (3%)

Query: 49  IYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICS 108
             + LE VESG+G+ + K  +      S  ++F  G +L+GKL  YLRK   AD  G+C+
Sbjct: 55  PLVELEQVESGSGRLVGK--SQAADAISLKAVFRPGDVLFGKLRAYLRKFWFADVAGLCT 112

Query: 109 TQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQV 168
           T+  VL+ +  +       ++  +      +   G  M  +DW  + ++ + IPP  EQ 
Sbjct: 113 TEIWVLRARPGVDSRFVRSIVETERFIEAASGAYGTHMPRSDWGTVRSLSVDIPPHDEQR 172

Query: 169 LIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
            I   +      ID  I+     +   ++ KQ ++  ++
Sbjct: 173 AIASVL----ADIDREISILHARLAKARDVKQGMMQQLL 207


>gi|328947981|ref|YP_004365318.1| restriction modification system DNA specificity domain protein
           [Treponema succinifaciens DSM 2489]
 gi|328448305|gb|AEB14021.1| restriction modification system DNA specificity domain protein
           [Treponema succinifaciens DSM 2489]
          Length = 185

 Score = 66.0 bits (159), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 20/168 (11%), Positives = 51/168 (30%), Gaps = 9/168 (5%)

Query: 234 VKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES----YETYQIVDPG 289
                       +   +  E  + S    N  +  +  N+    +            + G
Sbjct: 21  CNKLVDGDHNPPKSVEEQTEYIMASSRNINYDRLDDLENVRYLSKEVFKIENNRTKAEKG 80

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
           +I F  +               +  I     + V    I++ +L +   S          
Sbjct: 81  DIFFTSVGTIGR----SCIYSGDYNICFQRSVTVLNTNINNQFLKYFFDSNFFQTYVIEH 136

Query: 350 GSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
            +G  +     +++   P+ +PP+ EQ  I + ++    ++D +   +
Sbjct: 137 STGTAQMGFYLKEMANSPIAIPPMHEQARIVDKVSELFYQLDQIQNNL 184



 Score = 59.4 bits (142), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 32/173 (18%), Positives = 61/173 (35%), Gaps = 9/173 (5%)

Query: 20  AIPKHWKVVPIKRFT-KLNTG-----RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
            IP  W+ V +     KL  G     ++ E   + I     ++       L       + 
Sbjct: 7   EIPDSWRWVKLTSICNKLVDGDHNPPKSVEEQTEYIMASSRNINYDRLDDLENVRYLSKE 66

Query: 74  D---TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
                +  +   KG I +  +G   R  I +    IC  + + +   ++  + L+ +  S
Sbjct: 67  VFKIENNRTKAEKGDIFFTSVGTIGRSCIYSGDYNICFQRSVTVLNTNINNQFLKYFFDS 126

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
                 +     G        K + N P+ IPP+ EQ  I +K+     ++D 
Sbjct: 127 NFFQTYVIEHSTGTAQMGFYLKEMANSPIAIPPMHEQARIVDKVSELFYQLDQ 179


>gi|295087090|emb|CBK68613.1| Restriction endonuclease S subunits [Bacteroides xylanisolvens
           XB1A]
          Length = 414

 Score = 66.0 bits (159), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 19/132 (14%), Positives = 48/132 (36%), Gaps = 9/132 (6%)

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
            F  +  Q       + +  +      A +    + I S ++     + +L +      +
Sbjct: 42  HFAIVGRQGALCGCLNIESGKFYATEHAVVVNSYNIISSLFIYHFFTALNLNQY---ATA 98

Query: 352 GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL-----KER 406
             +  L   ++  + + +PP+ EQ  I + I      +    E+ +  +  L     ++ 
Sbjct: 99  TAQPGLAVSNIMEVFIPLPPLSEQHRIVSKIEELL-PLVKTYERAQNGLNTLNVSLNEQL 157

Query: 407 RSSFIAAAVTGQ 418
           R S +  A+ G+
Sbjct: 158 RKSILQEAIQGR 169



 Score = 61.7 bits (148), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 27/181 (14%), Positives = 52/181 (28%), Gaps = 20/181 (11%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQS 73
            +PK WK   +K    + TG T +  +       I  +   ++     K    D    + 
Sbjct: 236 DLPKGWKWCRLKDICSIFTGATFKKEEATITKQGIRILRGGNISPFELKIKDDDIFLAKD 295

Query: 74  DTSTVSIFAKGQIL------------YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP 121
                 +  +  IL              ++   +    +  F  I     +       + 
Sbjct: 296 KIKEAILLKENDILTPAVTSLENIGKMARVDSDMPDTTVGGFVFIIRLHLINQWFSKYI- 354

Query: 122 ELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
            L       +    R      G    +   + +    +PIPPL EQ  I  +I     ++
Sbjct: 355 -LCLLSSPFMIDFMRSITNKSGQAFYNIGKERLSTALLPIPPLVEQHRIVAQIEKLFEQL 413

Query: 182 D 182
            
Sbjct: 414 R 414



 Score = 59.4 bits (142), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 26/231 (11%), Positives = 68/231 (29%), Gaps = 22/231 (9%)

Query: 181 IDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSG-------IEWVGLVPDHWE 233
           +   I      +    + K++ +S  V    + +   +  G        E    +P  W+
Sbjct: 183 LIEQIRLEKLQLVKEGKLKKSALSNSVIYKGDDNKYYEQVGKNINEITEEIAFDLPKGWK 242

Query: 234 VKPFFALVTELNRKNTKLIESNILSL--------SYGNIIQKLETRNMGLKPESYETYQI 285
                 + +       K  E+ I           +      K++  ++ L  +  +   +
Sbjct: 243 WCRLKDICSIFTGATFKKEEATITKQGIRILRGGNISPFELKIKDDDIFLAKDKIKEAIL 302

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA----VKPHGIDSTYLAWLMRSY- 340
           +   +I+   +    +   +              ++        +   S Y+  L+ S  
Sbjct: 303 LKENDILTPAVTSLENIGKMARVDSDMPDTTVGGFVFIIRLHLINQWFSKYILCLLSSPF 362

Query: 341 --DLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
             D  +           ++  E +    + +PP+ EQ  I   I     ++
Sbjct: 363 MIDFMRSITNKSGQAFYNIGKERLSTALLPIPPLVEQHRIVAQIEKLFEQL 413


>gi|317180667|dbj|BAJ58453.1| Type I restriction-modification system specificity subunit
           [Helicobacter pylori F32]
          Length = 377

 Score = 66.0 bits (159), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 62/384 (16%), Positives = 121/384 (31%), Gaps = 26/384 (6%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDV-ESGTGKYLPKDGNSRQSDTSTVSIFAKGQI 86
             ++ +  L    T +S +   YI  +++ ++  G    K+ N  Q    +   F K  +
Sbjct: 3   KTLQDYATLIND-TIQSNEINHYITTDNMCQNLGGIDTFKNINIPQGKVRS---FQKDDV 58

Query: 87  LYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATM 146
           L   +  Y RK   A   G CS+  LV + K +    L   L S   T    +  +G+ M
Sbjct: 59  LLSNIRLYFRKVYRAKQKGGCSSDVLVFRAKRIDSATLFAILSSQIFTDYACSGSQGSKM 118

Query: 147 SHADWKGIGNIPMPIPPLAEQVLIREKIIAE--TVRIDTLITERIRFIELLKEKKQALVS 204
              +   + +  +P        +            +I+ L+ + +  +      +   + 
Sbjct: 119 PRGNKTHMMDFKIPTINFTIAKIFNSIQNKIENNHKINELLHKILELLYEQYFVRFDFLD 178

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
                      KMK S  E   L+P  W V+     +    +  T        S SY   
Sbjct: 179 ENNKPYQTSGGKMKFS-KELNRLIPSGWSVRFLNHKIVSTYQPKTISKTLLNDSYSYSVY 237

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
                             + I   G+    ++ L     +             +  +   
Sbjct: 238 GGGGIIGRFTEYNHEQSEFIISCRGQCGISYLTLPKSWITG-----------NAMVIRPT 286

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
                 TYL   ++ Y L          ++  +  +++  +P+L+P         N  N 
Sbjct: 287 KSYTSKTYLYHTIKKYKLTNYI---TGSVQPQITRQNLSTMPILIPK----RKTLNKWNN 339

Query: 385 ETARIDVLVEKIEQSIVLLKERRS 408
            ++ +  L+    QS   L   R 
Sbjct: 340 ISSLLWNLIHNNMQSTQTLTALRD 363


>gi|319744172|gb|EFV96542.1| type I restriction/modification specificity protein [Streptococcus
           agalactiae ATCC 13813]
          Length = 164

 Score = 66.0 bits (159), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 16/109 (14%), Positives = 44/109 (40%), Gaps = 3/109 (2%)

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV 345
               +I++  I  +N + +            T   +    + +   YL  +++S  +   
Sbjct: 53  FQKNDILYSEIRPKNRRFAYIDFDSDNYVASTKLMVIRANNRVLPQYLYQILKSEKVINQ 112

Query: 346 FYAMG---SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
             ++    SG    + F ++ ++ V +P + EQ +I + + +   +I+ 
Sbjct: 113 LQSLAESRSGTFPQITFSELAQIDVYIPELSEQKEIADFLKLFDDKIEN 161



 Score = 45.2 bits (105), Expect = 0.021,   Method: Composition-based stats.
 Identities = 32/162 (19%), Positives = 64/162 (39%), Gaps = 7/162 (4%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
            +       +    ++ + ++ I   DV  G         N         + F K  ILY
Sbjct: 2   KLGDVCDSVSVTFDKTKQQVVLINTSDVLEGEVTNHILVDNKGLKGQFKKT-FQKNDILY 60

Query: 89  GKLGPYLRKAIIADF---DGICSTQFLVLQPKDV-LPELLQGWLLSIDVTQRIEAI--CE 142
            ++ P  R+    DF   + + ST+ +V++  +  LP+ L   L S  V  +++++    
Sbjct: 61  SEIRPKNRRFAYIDFDSDNYVASTKLMVIRANNRVLPQYLYQILKSEKVINQLQSLAESR 120

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
             T     +  +  I + IP L+EQ  I + +     +I+  
Sbjct: 121 SGTFPQITFSELAQIDVYIPELSEQKEIADFLKLFDDKIENN 162


>gi|304320737|ref|YP_003854380.1| hypothetical protein PB2503_05837 [Parvularcula bermudensis
           HTCC2503]
 gi|303299639|gb|ADM09238.1| hypothetical protein PB2503_05837 [Parvularcula bermudensis
           HTCC2503]
          Length = 204

 Score = 66.0 bits (159), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 21/132 (15%), Positives = 49/132 (37%), Gaps = 9/132 (6%)

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV---KPHGIDSTYLAW 335
           S  T   +   +++F     +     +       R +    +  +   +P  +   +LAW
Sbjct: 61  SKRTPDWLSGDDVIFSARGTRTLAYPI--NDPPARAVCAPQFYVIKVKRPEKLLPAFLAW 118

Query: 336 LMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR---IDV 391
            +        F    +G   Q+++ + ++ LP+ +PP+ EQ  I             ++ 
Sbjct: 119 QINQKPAQDYFSRTATGSYIQNIRRKALENLPLAIPPVHEQQVIVEFWRAAQRERAVLNQ 178

Query: 392 LVEKIEQSIVLL 403
           L++   Q +  L
Sbjct: 179 LIQNRNQQLDAL 190


>gi|281357556|ref|ZP_06244043.1| restriction modification system DNA specificity domain protein
           [Victivallis vadensis ATCC BAA-548]
 gi|281315813|gb|EFA99839.1| restriction modification system DNA specificity domain protein
           [Victivallis vadensis ATCC BAA-548]
          Length = 174

 Score = 66.0 bits (159), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 27/173 (15%), Positives = 51/173 (29%), Gaps = 5/173 (2%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG 289
            + +++           K +          S  N++             + +    V P 
Sbjct: 2   KNNQLEKLSDYADYSKAKISIAEIDTKCYFSTENMLPNKGGVTEAAGLPTQDNVTKVLPE 61

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
            ++   I     K    +      G        V  +G    YL +L+ S        A 
Sbjct: 62  NVLVSNIRPYFKKIYFANELA---GASNDVLCFVAKNGCLPRYLYYLLSSDSFFDYMMAG 118

Query: 350 GSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
             G          +   PV VP   EQ  I +V++    +I+  + KI  ++ 
Sbjct: 119 AKGTKMPRGDKGQIMNFPVWVPAQNEQSRIVSVLSALDEKIEN-ISKINHNLE 170


>gi|329575631|gb|EGG57164.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX1467]
          Length = 321

 Score = 66.0 bits (159), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 23/132 (17%), Positives = 57/132 (43%), Gaps = 11/132 (8%)

Query: 288 PGEIVFRFIDLQNDKRS-LRSAQVMERGIITSAYMAVKP-HGIDSTYLAWLMRSYDLCKV 345
             E+ +   + +  K   + S +  E  ++   Y + K     D  +L ++  +    K 
Sbjct: 2   KNELSYNHGNSKLAKYGAVFSLKTYEEALVPRVYHSFKSTKNSDPDFLEYIFATKKPDKE 61

Query: 346 F-YAMGSGLRQ----SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
               + SG R     ++ ++D   + + +P + EQ  I+N++     +ID  +   ++ +
Sbjct: 62  LGKLVSSGARMDGLLNINYDDFSNIKINIPHVHEQKKISNLL----RKIDDTIALHQRKL 117

Query: 401 VLLKERRSSFIA 412
             LKE + +++ 
Sbjct: 118 DQLKELKKAYLQ 129



 Score = 45.6 bits (106), Expect = 0.014,   Method: Composition-based stats.
 Identities = 36/265 (13%), Positives = 92/265 (34%), Gaps = 24/265 (9%)

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
           + ++    NI + IP + EQ  I   +     +ID  I    R ++ LKE K+A +  + 
Sbjct: 77  NINYDDFSNIKINIPHVHEQKKISNLL----RKIDDTIALHQRKLDQLKELKKAYLQLMF 132

Query: 208 TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK 267
            K      +++ +  E    +           ++ +  +   K+      S+ Y +    
Sbjct: 133 PKKDETVPQVRFANFEENWEL------CKLENIIEKQIKGKAKVENLCNGSVEYLDA--- 183

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
              R  G KP   +    V   +I+  +   +  K          +G++ S   A +   
Sbjct: 184 --NRLNGGKPIYTKALPDVSERDIIILWDGSKAGKVYY-----EFKGVLGSTLKAYQLKE 236

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
             ++   +     +   ++    +     +        P+ +   +EQ  + +++    +
Sbjct: 237 CANSQFIYQQLLDNQNNIYNNYRTPNIPHVVKNFSSIFPIWMTSFEEQSQMADIL----S 292

Query: 388 RIDVLVEKIEQSIVLLKERRSSFIA 412
            +D  +   +     +   + S++ 
Sbjct: 293 NLDNRIILQQNLTDTMISLKKSYLQ 317



 Score = 41.3 bits (95), Expect = 0.33,   Method: Composition-based stats.
 Identities = 26/184 (14%), Positives = 60/184 (32%), Gaps = 15/184 (8%)

Query: 23  KHWKVVPIKRFTKL-NTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI- 80
           ++W++  ++   +    G+            +E++ +G+ +YL  +  +      T ++ 
Sbjct: 149 ENWELCKLENIIEKQIKGKAK----------VENLCNGSVEYLDANRLNGGKPIYTKALP 198

Query: 81  -FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
             ++  I+    G    K    +F G+  +     Q K+        +   +D    I  
Sbjct: 199 DVSERDIIILWDGSKAGKVYY-EFKGVLGSTLKAYQLKECANS-QFIYQQLLDNQNNIYN 256

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
                 + H         P+ +    EQ  + + +     RI          I L K   
Sbjct: 257 NYRTPNIPHVVKNFSSIFPIWMTSFEEQSQMADILSNLDNRIILQQNLTDTMISLKKSYL 316

Query: 200 QALV 203
           Q + 
Sbjct: 317 QNMF 320


>gi|288804029|ref|ZP_06409441.1| type I restriction-modification system, S subunit [Prevotella
           melaninogenica D18]
 gi|288333494|gb|EFC71957.1| type I restriction-modification system, S subunit [Prevotella
           melaninogenica D18]
          Length = 168

 Score = 66.0 bits (159), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 22/132 (16%), Positives = 44/132 (33%), Gaps = 5/132 (3%)

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
           + +++    L        ++V  G      I        L    + E          +  
Sbjct: 41  RFVDSSAEYLSEAGKAISRVVPIGSTAVCCIGSIGKAGYL----IKEGTTNQQINCVIPS 96

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
             +DS +L +L  S    +    + S      +    ++ + V +PPI+EQ  I + I  
Sbjct: 97  EAVDSVFLYYLCTSPLFYQELITLSSAVTISIINKSKMENIIVPLPPIEEQKRIVSKIED 156

Query: 385 ETARIDVLVEKI 396
               I  + E +
Sbjct: 157 LFGFIKTIEESL 168



 Score = 53.6 bits (127), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 27/161 (16%), Positives = 51/161 (31%), Gaps = 5/161 (3%)

Query: 27  VVPIKRFTKLNTGRTSESGKDIIYIG----LEDVESGTGKYLPKDGNSRQSDTST-VSIF 81
           +  +K  + + TG T        Y G     + ++   G+++                + 
Sbjct: 2   LCKLKNISLIITGSTPSKSNSAYYGGKVPFYKPIDLDAGRFVDSSAEYLSEAGKAISRVV 61

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
             G      +G   +   +            V+  + V    L     S    Q +  + 
Sbjct: 62  PIGSTAVCCIGSIGKAGYLIKEGTTNQQINCVIPSEAVDSVFLYYLCTSPLFYQELITLS 121

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
              T+S  +   + NI +P+PP+ EQ  I  KI      I 
Sbjct: 122 SAVTISIINKSKMENIIVPLPPIEEQKRIVSKIEDLFGFIK 162


>gi|332829721|gb|EGK02367.1| hypothetical protein HMPREF9455_01637 [Dysgonomonas gadei ATCC
           BAA-286]
          Length = 183

 Score = 66.0 bits (159), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 33/173 (19%), Positives = 73/173 (42%), Gaps = 8/173 (4%)

Query: 242 TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQND 301
                K+ +      ++   G I Q        +  E   +Y+I++ G+  +     + +
Sbjct: 13  FSFRNKSQEQYPKYSITNDLGFIPQSERFEERNMIYEDISSYKIINKGDFAYNP--ARIN 70

Query: 302 KRSLRSAQVMERGIITSAYMAVKPH-GIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKF 359
             S+   +     +I+S Y+  +P   + S +L  +++S  +   +   G  G+R  L F
Sbjct: 71  VGSIAKYEGDNPCMISSLYVCFRPKPNMSSEWLKHVLKSKRMIYNYNLFGEGGVRIYLFF 130

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
            +  R+ + VPP++EQ  I  +I+     ID  +      +  L  ++S  ++
Sbjct: 131 PNFGRIKINVPPLEEQERIAIIIST----IDQKISIESLMLNKLNTQKSFLLS 179



 Score = 40.5 bits (93), Expect = 0.46,   Method: Composition-based stats.
 Identities = 28/155 (18%), Positives = 49/155 (31%), Gaps = 3/155 (1%)

Query: 30  IKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYG 89
           +K      + R     +   Y    D+         ++ N    D S+  I  KG   Y 
Sbjct: 6   LKDVVINFSFRNKSQEQYPKYSITNDLGFIPQSERFEERNMIYEDISSYKIINKGDFAYN 65

Query: 90  KLGPYLRKAIIA--DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC-EGATM 146
                +        D   + S+ ++  +PK  +       +L          +  EG   
Sbjct: 66  PARINVGSIAKYEGDNPCMISSLYVCFRPKPNMSSEWLKHVLKSKRMIYNYNLFGEGGVR 125

Query: 147 SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
            +  +   G I + +PPL EQ  I   I     +I
Sbjct: 126 IYLFFPNFGRIKINVPPLEEQERIAIIISTIDQKI 160


>gi|60680964|ref|YP_211108.1| putative type I restriction enzyme specificity protein [Bacteroides
           fragilis NCTC 9343]
 gi|60492398|emb|CAH07167.1| putative type I restriction enzyme specificity protein [Bacteroides
           fragilis NCTC 9343]
          Length = 447

 Score = 66.0 bits (159), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 41/286 (14%), Positives = 94/286 (32%), Gaps = 27/286 (9%)

Query: 158 PMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV----SYIVTKGLNP 213
                 L +Q    E        I     + ++  ++ K+K ++++         + +  
Sbjct: 13  WAIQGKLVQQDPNDEPASVLLEHIREEKAKLVKEKKIKKDKNESIIYRGDDNSYYEKIIA 72

Query: 214 DVKMKDSGIEWVGLVPDHWEVKPFFALVT----------ELNRKNTKLIESNILSLSYGN 263
             ++K    E    +P+ WE +    +            +   K      + I  +   N
Sbjct: 73  TGEVKCIDEEIPFEIPNGWEWERVGNIFFVTKLAGFEYTKFFTKEAISAFNPIPIVRAQN 132

Query: 264 IIQKLETRNMGLKPESYETYQI----VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
           +       N         + Q+    ++   ++  FI        +  A+         A
Sbjct: 133 VRMGFFEENKNEAISEMLSNQLKRSALNKKCLLMTFIGAGIGDTCIFPAERKNHLAPNVA 192

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYA-MGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
            +      I   Y  + + S    +   A   S  + SL  E +++L + +PP KEQ  I
Sbjct: 193 KIEPLDDSIFLDYAVFALMSPCGQRGVNAIKKSTAQPSLSMETIRKLLIPIPPFKEQKCI 252

Query: 379 TNVINVET------ARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           +  ++         +++  +  +I   I +L     S +  A+ G+
Sbjct: 253 SLKLSEVLPLVEKYSKVQKVQNQINDEINIL--LSKSILQEAIRGK 296



 Score = 49.0 bits (115), Expect = 0.001,   Method: Composition-based stats.
 Identities = 38/347 (10%), Positives = 103/347 (29%), Gaps = 29/347 (8%)

Query: 20  AIPKHWKVVPIKRFT-----------KLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDG 68
            IP  W+   +               K  T     +   I  +  ++V  G  +    + 
Sbjct: 86  EIPNGWEWERVGNIFFVTKLAGFEYTKFFTKEAISAFNPIPIVRAQNVRMGFFEENKNEA 145

Query: 69  NSRQSDTS-TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW 127
            S         S   K  +L   +G  +    I   +        V + + +   +   +
Sbjct: 146 ISEMLSNQLKRSALNKKCLLMTFIGAGIGDTCIFPAERKNHLAPNVAKIEPLDDSIFLDY 205

Query: 128 L----LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
                +S    + + AI +         + I  + +PIPP  EQ  I  K+      ++ 
Sbjct: 206 AVFALMSPCGQRGVNAIKKSTAQPSLSMETIRKLLIPIPPFKEQKCISLKLSEVLPLVEK 265

Query: 184 LITERIRFIELLKEKK----QALVSYIVTKGLNPDVKMKDSGIEWVGLVP-DHWEVKPFF 238
               +    ++  E      ++++   +   L P +  + +  + +  +  +   +    
Sbjct: 266 YSKVQKVQNQINDEINILLSKSILQEAIRGKLVPQIAEEGTADKLLAEIHKEKERLVKEG 325

Query: 239 ALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDL 298
            L   +   +      +          +   +  +  +     ++  +     +    DL
Sbjct: 326 KLKKAILTDSVIYKGDDNKYYERVGKSEIDISDEIPFEIPQSWSWCRLSSVITLLSGRDL 385

Query: 299 QNDKR--------SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
             D+          +  A     G+ ++  ++   +   + Y  +L+
Sbjct: 386 TPDRYNSEENGIPYITGASNFYNGVSSTLAVSNIRNRTYTNYEVYLI 432


>gi|302520833|ref|ZP_07273175.1| restriction modification system DNA specificity subunit protein
           [Streptomyces sp. SPB78]
 gi|302429728|gb|EFL01544.1| restriction modification system DNA specificity subunit protein
           [Streptomyces sp. SPB78]
          Length = 278

 Score = 66.0 bits (159), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 27/157 (17%), Positives = 47/157 (29%), Gaps = 9/157 (5%)

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
                + +       E Y+++    ++    D     R       +   I  +    V+ 
Sbjct: 114 DLSTVKEIAASVAEIERYKLLSEDLLLTEGGDPDKLGRGTLWRDELPVCIHQNHVFRVRV 173

Query: 326 HGI---DSTYLAWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
                 D  YL W+M S      F      +    S+    +   P+ VPPI  Q D  +
Sbjct: 174 KTRAEVDPLYLNWVMSSSYGKGYFLRTAKQTTGIASINKTQLGEFPLPVPPIARQKDFRS 233

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
            I           +     +  L E  +S    A +G
Sbjct: 234 RIESVQES----QQAHRTHLATLDELFTSLQHRAFSG 266



 Score = 56.3 bits (134), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 19/66 (28%), Positives = 34/66 (51%), Gaps = 4/66 (6%)

Query: 348 AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
             GSG ++ +    ++ L V VPP+ EQ  I  +++    ++D L  K  ++I LL +  
Sbjct: 1   MTGSGGQRRVPESYLRSLSVPVPPLAEQRHIATLLD----QVDTLRAKRREAIALLDDLA 56

Query: 408 SSFIAA 413
           SS  + 
Sbjct: 57  SSLFSD 62


>gi|302035527|ref|YP_003795849.1| hypothetical protein NIDE0137 [Candidatus Nitrospira defluvii]
 gi|300603591|emb|CBK39921.1| protein of unknown function, putative Type I restriction
           endonuclease, S subunit [Candidatus Nitrospira defluvii]
          Length = 389

 Score = 66.0 bits (159), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 55/404 (13%), Positives = 126/404 (31%), Gaps = 46/404 (11%)

Query: 29  PIKRFTKLNTG-----RTSESG-KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           P+     +++G     +T ES   ++ Y+ + +V+ G          +     +      
Sbjct: 8   PLSDVADISSGITLGRKTKESELTEVPYLRVANVQDGHLLLGDLKMIAATRREAEKWALK 67

Query: 83  KGQILYGKLGPY---LRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
            G +L  + G      R A   +   +C  Q  + + +         ++     +   +A
Sbjct: 68  DGDLLLTEGGDLDKLGRGACWREQLPLCIHQNHIFRVRLPADRYDADFVSFQIGSPYGKA 127

Query: 140 IC-----EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
                  +   ++  + + +G  P+  PP+AEQ  I  ++ A+   +D         +  
Sbjct: 128 YFLAHAKKTTGIASINQRVLGAFPLVSPPIAEQHRIAVRLKAQLAEVDRARQAAQAQLRE 187

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
           +     ++V   + +  N    +     E                            I +
Sbjct: 188 VARLADSIVLNSIRQHPNDRHDLGSVLNE------------------------VKNGIGA 223

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
                      +           +    Y+   PG + +  + +     +         G
Sbjct: 224 AWAEYRVLGATRDGLAPAKEPPGKHAPKYKPAFPGTVFYNPMRILIGSIAFVD-DDDAPG 282

Query: 315 IITSAYMA--VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPP 371
           I +  Y+A   K   +DS +  + +RS    +   ++  G  R+ + F  +    + +P 
Sbjct: 283 ITSPDYVALTGKSDKVDSRWFYYWLRSPLGAQCIISLARGAVRERMLFNRLSEGEIELPR 342

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
              Q    +V   E   +   +E     I  L +R    +A A 
Sbjct: 343 YPVQQR-ASVALKELKPLRQAIECQLAEIERLPQR---LLAQAF 382


>gi|331266259|ref|YP_004325889.1| type I restriction-modification system, putative [Streptococcus
           oralis Uo5]
 gi|326682931|emb|CBZ00548.1| type I restriction-modification system, putative [Streptococcus
           oralis Uo5]
          Length = 213

 Score = 66.0 bits (159), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 20/179 (11%), Positives = 56/179 (31%), Gaps = 9/179 (5%)

Query: 218 KDSGIEWVGLVPDHWEVKPFFALVTE------LNRKNTKLIESNILSLSYGNIIQKLETR 271
           K    E  G    +        L              + +  S +  +   +I +    +
Sbjct: 14  KSRFNEMFGDPVFNEMRWRRCKLKDISVEKLAYGSGASAIDFSGLRYIRITDIDECGNLK 73

Query: 272 NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG--ID 329
                P  YE   +++ G+I+F        K  L S +     +     + + P+   ++
Sbjct: 74  PDKKSPNHYEEKYLLNTGDILFARSGATVGKTFLYSKEKYGPALFAGYLIRLIPNLSLVN 133

Query: 330 STYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
             ++     +    +    + +   + ++  +    L  ++PP+  Q +  + +     
Sbjct: 134 PVFVYHFTNTKFYKEFIAKVQNTVAQPNINAKQYSELDFILPPLALQNEFADFVAQVDK 192



 Score = 52.9 bits (125), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 26/160 (16%), Positives = 55/160 (34%), Gaps = 15/160 (9%)

Query: 25  WKVVPIKRFTKLN----TGRTSESGKDIIYIGLEDVES-GTGKYLPKDGNSRQSDTSTVS 79
           W+   +K  +       +G ++     + YI + D++  G  K   K  N  +       
Sbjct: 31  WRRCKLKDISVEKLAYGSGASAIDFSGLRYIRITDIDECGNLKPDKKSPNHYEE----KY 86

Query: 80  IFAKGQILYGKLGPYLRKAIIADF----DGICSTQFLVLQPK--DVLPELLQGWLLSIDV 133
           +   G IL+ + G  + K  +         + +   + L P    V P  +  +  +   
Sbjct: 87  LLNTGDILFARSGATVGKTFLYSKEKYGPALFAGYLIRLIPNLSLVNPVFVYHFTNTKFY 146

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
            + I  +       + + K    +   +PPLA Q    + 
Sbjct: 147 KEFIAKVQNTVAQPNINAKQYSELDFILPPLALQNEFADF 186


>gi|198273274|ref|ZP_03205810.1| restriction-modification enzyme subunit s3a [Ureaplasma urealyticum
           serovar 4 str. ATCC 27816]
 gi|198249794|gb|EDY74574.1| restriction-modification enzyme subunit s3a [Ureaplasma urealyticum
           serovar 4 str. ATCC 27816]
          Length = 382

 Score = 66.0 bits (159), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 44/384 (11%), Positives = 109/384 (28%), Gaps = 14/384 (3%)

Query: 27  VVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQI 86
           +V I    K+  G T  +  + ++   +++   +   L  +  SR           +  I
Sbjct: 3   IVNIGSICKIIGGSTPSTKNNNLW--KKEIPFYSLADLLINVASRYISIENNKFIDEPAI 60

Query: 87  LYGKLGPYLRKAIIADFDGICST-QFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           L+           + +        +  + +  +VL      +    +         +G+ 
Sbjct: 61  LFSSTATIGNVCYVEEKCWFNDQIKAFISKDSNVLNTKYLYYWFLNNKHIIKSQANKGSV 120

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK----QA 201
            S    K + N+ + +P + EQ  I   I                      +K      +
Sbjct: 121 FSSIGIKELVNMKINLPSIEEQNAIISIIEPHEKLFVKYSNLVDISSVENAKKDVDNLIS 180

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWE-VKPFFALVTELNRKNTKLIESNILSLS 260
           ++  +       +          + +   +       F        K          S  
Sbjct: 181 IIEPLDILENKINKLKTVLKKLLINIYDKNCNSHVNLFENNKIYTNKYLNQNLYCDTSCI 240

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
               I   +  N+ L+ +       +    I+F  +  +N           E  + ++ +
Sbjct: 241 GELEINFSKMINISLEDKPSRADLSIKNNSIIFSKLLGENKVYC---FLNNENIVFSTGF 297

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDIT 379
             +K +  ++  L   + S D       + +G     +   D+ ++    P +    +I 
Sbjct: 298 FNIKSNDENNDDLLSFLLSSDFKNQKSMLANGTTMIGINNSDLTKVRCKAPFLN--SNIY 355

Query: 380 NVINVETARIDVLVEKIEQSIVLL 403
                +   I+  +      IV L
Sbjct: 356 FTFFNKLNEIENKITLARNKIVNL 379



 Score = 53.3 bits (126), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 19/152 (12%), Positives = 52/152 (34%), Gaps = 2/152 (1%)

Query: 232 WEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEI 291
             +    ++   +         +N+               N+  +  S E  + +D   I
Sbjct: 1   MSIVNIGSICKIIGGSTPSTKNNNLWKKEIPFYSLADLLINVASRYISIENNKFIDEPAI 60

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
           +F       +   +         I   A+++   + +++ YL +   +        A   
Sbjct: 61  LFSSTATIGNVCYVEEKCWFNDQI--KAFISKDSNVLNTKYLYYWFLNNKHIIKSQANKG 118

Query: 352 GLRQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
            +  S+  +++  + + +P I+EQ  I ++I 
Sbjct: 119 SVFSSIGIKELVNMKINLPSIEEQNAIISIIE 150


>gi|19881312|gb|AAM00902.1|AF486570_3 3' truncated HsdS [Campylobacter jejuni subsp. jejuni ATCC 33560]
          Length = 221

 Score = 66.0 bits (159), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 25/163 (15%), Positives = 56/163 (34%), Gaps = 5/163 (3%)

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
           N L +   + I K          E+      +   ++         ++    S  + +  
Sbjct: 47  NFLDVMNNHYINKNIPSMKVTASEAEIQKCNILKNDLFITPSSENINEIGFASVAIEDMP 106

Query: 315 IITSAYMAV----KPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLV 369
            +  +Y  +        I+  +L +   S +L K       G  R  L     K L + +
Sbjct: 107 NVCYSYHIMRFRIFNRQINPYFLRYCFDSENLRKQILKNAQGITRFGLTQPKWKNLQIPI 166

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           PP++ Q +I  +++  T     L  ++E      +  R+  ++
Sbjct: 167 PPLEIQEEIVKILDTFTELEAELEAELEARRRQYEYYRNKLLS 209


>gi|304387859|ref|ZP_07370033.1| type I restriction enzyme EcoprrI specificity protein [Neisseria
           meningitidis ATCC 13091]
 gi|304338124|gb|EFM04260.1| type I restriction enzyme EcoprrI specificity protein [Neisseria
           meningitidis ATCC 13091]
          Length = 198

 Score = 65.6 bits (158), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 20/171 (11%), Positives = 50/171 (29%), Gaps = 4/171 (2%)

Query: 235 KPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY---ETYQIVDPGEI 291
                  T            +I      +I +     +  LK  S    +  ++     I
Sbjct: 10  FDLKNGYTPSKSNKEYWENGSIPWFRMEDIRENSRILDNSLKHISKSAVKGGKLFPAKSI 69

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
           +        +   ++   +  + +            +D  +  +               S
Sbjct: 70  MMSTTATIGEHALIKVNYISNQQLTNFTIKDEFKDALDINFAFYYFFIIAEQSKKLINTS 129

Query: 352 GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
            L   +  +++K+L + +PP+ EQ  I  +++        + E +   I L
Sbjct: 130 SL-PIISMKELKKLKIPIPPLPEQEKIAAILDKFDTLTHSISEGLPHEIAL 179



 Score = 54.4 bits (129), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 23/192 (11%), Positives = 57/192 (29%), Gaps = 9/192 (4%)

Query: 27  VVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
              +     L  G T             I +  +ED+   +        +  +S      
Sbjct: 3   WKTLGEVFDLKNGYTPSKSNKEYWENGSIPWFRMEDIRENSRILDNSLKHISKSAVKGGK 62

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICST--QFLVLQPKDVLPELLQGWLLSIDVTQRI 137
           +F    I+          A+I            F +        ++   +     + ++ 
Sbjct: 63  LFPAKSIMMSTTATIGEHALIKVNYISNQQLTNFTIKDEFKDALDINFAFYYFFIIAEQS 122

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           + +   +++     K +  + +PIPPL EQ  I   +        ++       I L ++
Sbjct: 123 KKLINTSSLPIISMKELKKLKIPIPPLPEQEKIAAILDKFDTLTHSISEGLPHEIALRRK 182

Query: 198 KKQALVSYIVTK 209
           + +     ++  
Sbjct: 183 QYEYYREQLLAF 194


>gi|313620385|gb|EFR91788.1| restriction modification system DNA specificity subunit [Listeria
           innocua FSL S4-378]
          Length = 201

 Score = 65.6 bits (158), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 31/183 (16%), Positives = 63/183 (34%), Gaps = 8/183 (4%)

Query: 232 WEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEI 291
           WE +    +   ++ KN   +     S   G I +     N+    +S + Y++V PG+ 
Sbjct: 21  WEQRKAGNIFMTISDKNHAHLPVLSASQELGMIRRDNIGINIKYNEKSLKNYKLVKPGQF 80

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
           V      Q          +         Y   + +   S +   ++ S    K    +  
Sbjct: 81  VIHLRSFQGGFAWSYITGITSPAYTILDYKEPQKNV--SKFWKEVLTSPIFIKRLETITY 138

Query: 352 GLR--QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
           G+R  +S+ F D   L    P + EQ  I+        ++D      +  +  L   + +
Sbjct: 139 GIRDGRSISFADFSTLKFSAPSVDEQRKISAF----FQQLDNNTTIQQNKLEKLISLKEA 194

Query: 410 FIA 412
           ++ 
Sbjct: 195 YLQ 197



 Score = 40.5 bits (93), Expect = 0.57,   Method: Composition-based stats.
 Identities = 21/185 (11%), Positives = 51/185 (27%), Gaps = 9/185 (4%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLE-DVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            W+           + +       +  +    ++       +  +    +       +  
Sbjct: 20  EWEQRKAGNIFMTISDKNHA---HLPVLSASQELGMIRRDNIGINIKYNEKSLKNYKLVK 76

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLV---LQPKDVLPELLQGWLLSIDVTQRIEA 139
            GQ +   L  +      +   GI S  + +    +P+  + +  +  L S    +R+E 
Sbjct: 77  PGQFVI-HLRSFQGGFAWSYITGITSPAYTILDYKEPQKNVSKFWKEVLTSPIFIKRLET 135

Query: 140 ICEGATM-SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
           I  G        +     +    P + EQ  I                +  + I L +  
Sbjct: 136 ITYGIRDGRSISFADFSTLKFSAPSVDEQRKISAFFQQLDNNTTIQQNKLEKLISLKEAY 195

Query: 199 KQALV 203
            Q + 
Sbjct: 196 LQNMF 200


>gi|322514822|ref|ZP_08067841.1| type I restriction-modification system [Actinobacillus ureae ATCC
           25976]
 gi|322119204|gb|EFX91345.1| type I restriction-modification system [Actinobacillus ureae ATCC
           25976]
          Length = 449

 Score = 65.6 bits (158), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 52/379 (13%), Positives = 112/379 (29%), Gaps = 26/379 (6%)

Query: 58  SGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIA---DFDGICSTQFLVL 114
                      +  +           G I Y      +    +          S  ++V 
Sbjct: 69  DNKVGIFDAYISKGKEINQPYKKMETGFIAYNPYRINVGSIGLKTEKHQHQYISPAYVVF 128

Query: 115 QPKDVL-PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQ------ 167
             +  L PE L     +    + I     G+   +  +  +  + +P+P +  Q      
Sbjct: 129 SCQTTLLPEYLFLVFKTNFYNRIIRENTTGSVRQNLSFDNLIKMQIPLPDINTQKALAQA 188

Query: 168 ----VLIREKIIAETVRIDTLITER-----IRFIELLKEKKQALVSYIVTKGLNPDVKMK 218
               +   +++  +  +ID+ I +         I+  ++ +   + ++  + LN    + 
Sbjct: 189 YQDKMAKADELEKQANQIDSDIEQYLFEQLGIEIQQTQKVQTGKLQFVNFRDLNLWGVVS 248

Query: 219 DSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE 278
              I    +   +           E+N          I  +   N+       ++  K  
Sbjct: 249 QDAITAETIFKSNQFKNKPITNFFEINPTTQIPSNQIISFIPMANVSDIYGEISIYDKQT 308

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS----AYMAVKPHGIDSTYLA 334
               Y      ++++  I    +      A  +E G          +  K        L 
Sbjct: 309 LKPNYTKFKENDLIWAKITPCMENGKSAIASNLENGFGFGSTEFHVLRAKNKDFSIHLLH 368

Query: 335 WLMRSYDLCKV--FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVIN-VETARIDV 391
            L+R+  L K+   Y  GS  +Q +    +K L + V  ++ Q  I   I   +  + D 
Sbjct: 369 SLLRTSHLRKIATQYFTGSAGQQRVPKSFLKALTLPVLNLEIQTKILTYIQTQKQQQKDS 428

Query: 392 LVEKIEQSIVLLKERRSSF 410
           L       I  L E   + 
Sbjct: 429 LATASAYRIEALMEFEKAI 447



 Score = 59.0 bits (141), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 27/204 (13%), Positives = 71/204 (34%), Gaps = 4/204 (1%)

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
              Q    + V      +  +K      +     +++++     + E N K         
Sbjct: 4   SNFQTAFLHFVDFSQFNNWNVKQYVNTNLLK--SNFKIEFLAEHLIEQNNKIKPFDFPEK 61

Query: 257 LSLSYGNIIQKLETRNMGLKPESYET-YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
                G   +         K +     Y+ ++ G I +    +      L++ +   + I
Sbjct: 62  DFAILGVDNKVGIFDAYISKGKEINQPYKKMETGFIAYNPYRINVGSIGLKTEKHQHQYI 121

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKE 374
             +  +      +   YL  + ++    ++     +G +RQ+L F+++ ++ + +P I  
Sbjct: 122 SPAYVVFSCQTTLLPEYLFLVFKTNFYNRIIRENTTGSVRQNLSFDNLIKMQIPLPDINT 181

Query: 375 QFDITNVINVETARIDVLVEKIEQ 398
           Q  +      + A+ D L ++  Q
Sbjct: 182 QKALAQAYQDKMAKADELEKQANQ 205


>gi|257440123|ref|ZP_05615878.1| type I restriction system specificity protein [Faecalibacterium
           prausnitzii A2-165]
 gi|257197475|gb|EEU95759.1| type I restriction system specificity protein [Faecalibacterium
           prausnitzii A2-165]
          Length = 228

 Score = 65.6 bits (158), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 30/240 (12%), Positives = 69/240 (28%), Gaps = 20/240 (8%)

Query: 185 ITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDS---GIEWVGLVPDHWEVKPFFALV 241
           +       + L+++ Q+    +     +P+         G    G  P   + + +    
Sbjct: 1   MRVIQTVNDNLEQQAQSYFQELFVDNADPEWTTGTISDLGTVVGGSTPSKAKPEYYTESG 60

Query: 242 TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQND 301
                        +       N I +L  RN         +  I+  G ++F        
Sbjct: 61  IAWITPKDLSNNKSKFVSHGENDITELGLRN--------SSASIMPEGTVLFSSRAPIGY 112

Query: 302 KRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFED 361
                 A           + +V P     T   +      L  +         + +    
Sbjct: 113 -----IAIAAGEVTTNQGFKSVVPKPEIGTPFVYFFLKNTLPVIEGMASGSTFKEVSGST 167

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           +K +P ++P  +     ++      A I      +E+    L   R + +   ++G+ID+
Sbjct: 168 MKNVPAVIPDAETLAKFSDF----CAPIFAQQRILEEQNQSLATLRDNLLPKLMSGEIDV 223



 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 30/169 (17%), Positives = 54/169 (31%), Gaps = 13/169 (7%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYL---PKDGNSR 71
           P+ W    I     +  G T    K        I +I  +D+ +   K++     D    
Sbjct: 29  PE-WTTGTISDLGTVVGGSTPSKAKPEYYTESGIAWITPKDLSNNKSKFVSHGENDITEL 87

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
               S+ SI  +G +L+    P      IA  +   +  F  + PK  +      +    
Sbjct: 88  GLRNSSASIMPEGTVLFSSRAPI-GYIAIAAGEVTTNQGFKSVVPKPEI-GTPFVYFFLK 145

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
           +    IE +  G+T        + N+P  IP         +       +
Sbjct: 146 NTLPVIEGMASGSTFKEVSGSTMKNVPAVIPDAETLAKFSDFCAPIFAQ 194


>gi|17230969|ref|NP_487517.1| type I restriction-modification enzyme S subunit [Nostoc sp. PCC
           7120]
 gi|17132610|dbj|BAB75176.1| type I restriction-modification enzyme S subunit [Nostoc sp. PCC
           7120]
          Length = 383

 Score = 65.6 bits (158), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 36/319 (11%), Positives = 90/319 (28%), Gaps = 18/319 (5%)

Query: 92  GPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG-ATMSHAD 150
            P +   +++   G  +   +       LP  L        + ++ + +      +    
Sbjct: 52  SPIIVDYLLSSATGTANQANIGANTLRELPFPLPPLAEQKRIVEKCDRLLSICDEIEKRH 111

Query: 151 WKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER---IRFIELLKEKKQALVSYIV 207
            +   +I         Q+L  +           +           E + + +QA++   V
Sbjct: 112 QQRQESIVRMNESAIAQLLSSQNPDDFRQHWQRICNNFDLLYSIPETIPKLRQAILQLAV 171

Query: 208 TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN---- 263
              L             +  + D  +V  + +++     K+T  I   I  L   N    
Sbjct: 172 QGKLTNQSSK------EIKKISDTHKVSDYVSILNGYAFKSTWFINDGIRLLRNANVGHG 225

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFR----FIDLQNDKRSLRSAQVMERGIITSA 319
            ++  +   +  +         +D  +IV       I        +    +    +    
Sbjct: 226 DLRWDDVATISEERAQEFQRFKLDIDDIVISLDRPIISTGLKVARITKNDLPCLLLQRVG 285

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
               K   +   +    ++S           S     +  + ++ +    P  +EQ  I 
Sbjct: 286 KFEFKTDKVIPDFFFLWLQSPIFINAIDPGRSNGVPHISSKSIEAILFNPPSREEQKRIV 345

Query: 380 NVINVETARIDVLVEKIEQ 398
              +   +  D L  K++Q
Sbjct: 346 EKCDRLMSLCDTLEAKLKQ 364


>gi|256826763|ref|YP_003150722.1| hypothetical protein Ccur_03130 [Cryptobacterium curtum DSM 15641]
 gi|256582906|gb|ACU94040.1| hypothetical protein Ccur_03130 [Cryptobacterium curtum DSM 15641]
          Length = 208

 Score = 65.6 bits (158), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 21/137 (15%), Positives = 50/137 (36%), Gaps = 11/137 (8%)

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK-PHGIDSTYLAWLMRS 339
           + Y+     +IV+   +L   K    +   +   + +  Y+          +++  ++  
Sbjct: 76  KKYKETRLDDIVYNPANL---KFGAIARNTLRNAVFSPIYVTFNVDETAAPSFIEKVVTR 132

Query: 340 YDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
               +       G    R S+  E++  L V +P + EQ  I +        +D L+   
Sbjct: 133 SRFIQGALRYQQGTVYERMSVSPEELCDLNVTLPYLDEQQYIGSY----FTNLDHLITLH 188

Query: 397 EQSIVLLKERRSSFIAA 413
           ++    LK+ + S +  
Sbjct: 189 QRKCDKLKQLKQSLLEK 205



 Score = 46.7 bits (109), Expect = 0.008,   Method: Composition-based stats.
 Identities = 24/190 (12%), Positives = 50/190 (26%), Gaps = 12/190 (6%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLED---VESGTGKYLPKDGNSRQSDTSTVSIF 81
           W+   +         + +   +D   +       V   T +Y  +               
Sbjct: 23  WEQRKLGDVLTERNIQRA-QSEDFPLVSFTVENGVTPKTERYDREQLVRGDRAAKKYKET 81

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP--KDVLPELLQGWLLSIDVTQRIEA 139
               I+Y                    +   V     +   P  ++  +      Q    
Sbjct: 82  RLDDIVYNPANLKFGAIARNTLRNAVFSPIYVTFNVDETAAPSFIEKVVTRSRFIQGALR 141

Query: 140 ICEG--ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
             +G          + + ++ + +P L EQ  I              IT   R  + LK+
Sbjct: 142 YQQGTVYERMSVSPEELCDLNVTLPYLDEQQYIGSYFTNLDHL----ITLHQRKCDKLKQ 197

Query: 198 KKQALVSYIV 207
            KQ+L+  + 
Sbjct: 198 LKQSLLEKMF 207


>gi|331681144|ref|ZP_08381781.1| type I restriction-modification system specificity determinant
           [Escherichia coli H299]
 gi|331081365|gb|EGI52526.1| type I restriction-modification system specificity determinant
           [Escherichia coli H299]
          Length = 434

 Score = 65.6 bits (158), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 50/431 (11%), Positives = 123/431 (28%), Gaps = 64/431 (14%)

Query: 30  IKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYG 89
           I     +  G++S S             + TG+Y P  G++     S      +  I+ G
Sbjct: 10  IGEHLLIRNGKSSPS------------RAITGEY-PVYGSNGIIGYSDEYNANENTIIIG 56

Query: 90  KLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHA 149
           ++G Y     I+      +   ++   K    E    +   +     +     G+     
Sbjct: 57  RVGSYCGSVYISGKKCWVTDNAIIGTAK---NENESHFWFYLLKKIDLNNYSTGSGQPLI 113

Query: 150 DWKGIGNIPMPIPPLAEQVLIR-EKIIAETVRIDTLITERIRFIELLKEKKQA------- 201
           +   I  I + IP L+E+ +     +     +I+  +       ++ +   ++       
Sbjct: 114 NQTIINTISVTIPKLSEKRVSIGHFLRHFDQKINLSLNINQSLEQMSQTLFKSWFVDFDP 173

Query: 202 LVSYIVTKG--------------------------LNPDVKMKDSGIEW--VGLVPDHWE 233
           ++   +  G                          L     +  S  E   +G VP  W 
Sbjct: 174 VIDNALDAGNPIPEALQSRAELRQKVRSSADFKPLLVEIRSLFPSEFEETELGWVPKGWT 233

Query: 234 VKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVF 293
           +K     +           +            Q     ++  KP  Y         + +F
Sbjct: 234 LKSVAKSININPSIKLPKNKIAKYVDMKSLPTQGYSISDIIEKP--YSGGAKFQNNDTLF 291

Query: 294 RFIDL---QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM---RSYDLCKVFY 347
             I           +      E    ++ ++ ++            +    ++ L  +  
Sbjct: 292 ARITPCLENGKTGFVDFLDEKETAFGSTEFIVMRGTPQVHYLYVACLARENNFRLHAIQN 351

Query: 348 AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
            +GS  RQ ++        + +P       + ++ + + +     +         L   R
Sbjct: 352 MVGSSGRQRVQNSCFDSFYIAIPTP----AVMSLFSGKVSSYFDKMYFCNLENKSLTALR 407

Query: 408 SSFIAAAVTGQ 418
            + +   ++G+
Sbjct: 408 DTLLPKLISGE 418



 Score = 38.2 bits (87), Expect = 2.6,   Method: Composition-based stats.
 Identities = 27/196 (13%), Positives = 62/196 (31%), Gaps = 13/196 (6%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +G +PK W +  + +   +N        K   Y+ ++ + +          +  +   S 
Sbjct: 225 LGWVPKGWTLKSVAKSININPSIKLPKNKIAKYVDMKSLPTQG----YSISDIIEKPYSG 280

Query: 78  VSIFAKGQILYGKLGPYLRK-------AIIADFDGICSTQFLVLQ--PKDVLPELLQGWL 128
            + F     L+ ++ P L          +        ST+F+V++  P+     +     
Sbjct: 281 GAKFQNNDTLFARITPCLENGKTGFVDFLDEKETAFGSTEFIVMRGTPQVHYLYVACLAR 340

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
            +      I+ +   +           +  + IP  A   L   K+ +   ++     E 
Sbjct: 341 ENNFRLHAIQNMVGSSGRQRVQNSCFDSFYIAIPTPAVMSLFSGKVSSYFDKMYFCNLEN 400

Query: 189 IRFIELLKEKKQALVS 204
                L       L+S
Sbjct: 401 KSLTALRDTLLPKLIS 416


>gi|3806000|gb|AAC69262.1| type I restriction-modification enzyme S subunit homolog
           [Helicobacter pylori]
          Length = 159

 Score = 65.6 bits (158), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 21/137 (15%), Positives = 44/137 (32%), Gaps = 1/137 (0%)

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
           N I         +K  ++    +     ++        D   L +       ++      
Sbjct: 18  NSIDIDGNLKNTMKRVNFYDNSLKQDDIVMVLSDVAHGDFLGLCAVIPSNDYVLNQRMGR 77

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNV 381
           ++        L   +      K F   G G  + +L  + ++   + +PP+ EQ  I N+
Sbjct: 78  LRIRNDCINILFLRLYINANQKYFKMQGQGSSQLNLSKKAIEDFEIPLPPLNEQAAIANI 137

Query: 382 INVETARIDVLVEKIEQ 398
           ++     I  L  K  Q
Sbjct: 138 LSDVDNEIISLKNKKRQ 154


>gi|321310230|ref|YP_004192559.1| type I restriction-modification system, S subunit [Mycoplasma
           haemofelis str. Langford 1]
 gi|319802074|emb|CBY92720.1| type I restriction-modification system, S subunit [Mycoplasma
           haemofelis str. Langford 1]
          Length = 207

 Score = 65.6 bits (158), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 22/162 (13%), Positives = 53/162 (32%), Gaps = 4/162 (2%)

Query: 226 GLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN--MGLKPESYETY 283
           G    ++++     + T ++ K+    +S    +   NI       +      PESY   
Sbjct: 7   GSDLKYFKLGDVCEVCTGVDFKSCSYRDSGFPIIKVRNIQDGQIVTDSLNYCDPESYRDA 66

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC 343
           +IV  G++V         K  +                      +   YL   + S    
Sbjct: 67  EIVKYGDVVMARAGSSG-KVGINLLDQEFFFDGNLFKFIPNTEMLIGRYLYHFLLS-RQE 124

Query: 344 KVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
           ++   +       ++   +++L + +P ++ Q  I   ++  
Sbjct: 125 EIQSLVKGSTIPVIRKSALEKLRIPIPSLEVQESIAQTLDKF 166



 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 24/184 (13%), Positives = 60/184 (32%), Gaps = 6/184 (3%)

Query: 29  PIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
            +    ++ TG   +S          I + +++ G                    I   G
Sbjct: 14  KLGDVCEVCTGVDFKSCSYRDSGFPIIKVRNIQDGQI-VTDSLNYCDPESYRDAEIVKYG 72

Query: 85  QILYGKLGPYLRK-AIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
            ++  + G   +    + D +           P   +      +   +   + I+++ +G
Sbjct: 73  DVVMARAGSSGKVGINLLDQEFFFDGNLFKFIPNTEMLIGRYLYHFLLSRQEEIQSLVKG 132

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           +T+       +  + +PIP L  Q  I + +         +  E  R I L  ++ +   
Sbjct: 133 STIPVIRKSALEKLRIPIPSLEVQESIAQTLDKFREIEREIEREIEREISLRDKQYEYYR 192

Query: 204 SYIV 207
           +Y++
Sbjct: 193 NYLI 196


>gi|332829720|gb|EGK02366.1| hypothetical protein HMPREF9455_01636 [Dysgonomonas gadei ATCC
           BAA-286]
          Length = 363

 Score = 65.6 bits (158), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 17/162 (10%), Positives = 54/162 (33%), Gaps = 4/162 (2%)

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
            +  E+ I ++      +  +    G  P       +    + ++    +   ++   + 
Sbjct: 21  EEWSETEIKNILKIGSGRDYKHLETGNIPVFGTGGYMTSINDFLYDGESVCIGRKGTINK 80

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVL 368
               +G   +       +   +    +L   ++         +    SL    ++++ + 
Sbjct: 81  PFYLKGKFWTVDTLFYTYSYKNIQPKFLFYIFEQINWLKYNEASGVPSLSKSTIEKILIA 140

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
           +P  +EQ  I   +    + ID  +E   + I   K+ +++ 
Sbjct: 141 IPKKEEQDKIATFL----SLIDERIETQNKIIEEYKKLKNAL 178



 Score = 60.6 bits (145), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 55/390 (14%), Positives = 111/390 (28%), Gaps = 51/390 (13%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + W    IK   K+ +GR  +            +E+G        G           ++ 
Sbjct: 21  EEWSETEIKNILKIGSGRDYK-----------HLETGNIPVFGTGGYMTSI---NDFLYD 66

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
              +  G+ G   +   +        T F     K++ P+ L                 E
Sbjct: 67  GESVCIGRKGTINKPFYLKGKFWTVDTLFYTYSYKNIQPKFLFYIFE----QINWLKYNE 122

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
            + +       I  I + IP   EQ  I   +      ID  I  + + IE  K+ K AL
Sbjct: 123 ASGVPSLSKSTIEKILIAIPKKEEQDKIATFL----SLIDERIETQNKIIEEYKKLKNAL 178

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
                              + + G    +  V     ++   +  +      N       
Sbjct: 179 ------------------AVFFFGTSVKYTSVGEICDVIMGQSPSSAAYNYVNNGLPLIQ 220

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
             +   E         S  T Q  + G+I+                  + RGI       
Sbjct: 221 GNLDISEGTTSPRMWTSEITKQ-CEIGDIILTVRAPVGVVAKSNMIACVGRGIC----AI 275

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
                  S Y+   ++ Y   K           ++  +++  L + +P I ++  + + I
Sbjct: 276 KVKESKCSEYVYQYLQ-YFKNKWISIEQGSTFSAISRDNI--LSISIPSITKRLTVASHI 332

Query: 383 NVETARIDVLVEKIEQSIVLLKERRSSFIA 412
               A  D  +      + + + ++   ++
Sbjct: 333 ---LALFDNKINAEISFLKMYRSQKQFLLS 359


>gi|171920617|ref|ZP_02695518.2| restriction-modification enzyme MpuUVI S subunit [Ureaplasma
           urealyticum serovar 13 str. ATCC 33698]
 gi|171903331|gb|EDT49620.1| restriction-modification enzyme MpuUVI S subunit [Ureaplasma
           urealyticum serovar 13 str. ATCC 33698]
          Length = 358

 Score = 65.6 bits (158), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 44/392 (11%), Positives = 104/392 (26%), Gaps = 44/392 (11%)

Query: 27  VVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT---STVSIFAK 83
           +  +     +  G T         I  + ++   G Y      + ++          + K
Sbjct: 4   IYKLGSLVNIYKGST--------LITKKYIDENQGIYPVISSKTTENGIYGFINRYDYEK 55

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA--IC 141
            +I    +G         + +   +    V      +    +   +++   +      I 
Sbjct: 56  NKITMSLIGENAGTFFWQEKNFSLTNNACVFISNKNINYNYKYLFITLKKHEYKIKEFIV 115

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            G+         +  + + +P +  Q  I   I      I   I      I L  EK   
Sbjct: 116 IGSARPMISSNHLKLVDVNLPSIEIQDAIISIIEPLEKSI-KTINLLQTKIGLFIEKTFN 174

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
            ++  +      +  +KD      GL                            I     
Sbjct: 175 FINNNLANADLIEFSLKDLLNIKRGLP---------------------------ITEKDL 207

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
            N        +   K      Y      +     I +  +   +               +
Sbjct: 208 LNNPGNYPLISASSKNNGIFGYFNDYMYDGKNITISMNGNAGCIFYQIGKFSANSDVLVL 267

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
           +     + +    + +      ++        R  L    +++  VL+P ++ Q + + +
Sbjct: 268 SNSNKNLTNIDYIYYLLKTKEKEIQNLAIGTTRFRLGNSVIEKFKVLLPNMEIQKEFSKI 327

Query: 382 INVETARIDVLVEKIEQSIV--LLKERRSSFI 411
           +      +   V KIE+++   LLK  +   I
Sbjct: 328 VEPLL-NLSTKVNKIEKNLNECLLKIVKKLII 358


>gi|315149123|gb|EFT93139.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX0012]
          Length = 314

 Score = 65.6 bits (158), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 18/123 (14%), Positives = 44/123 (35%), Gaps = 6/123 (4%)

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
           ++  +D  N    +   ++        +        +DS +    +      K    + +
Sbjct: 1   MYGKLDFLNQAFGIVPIELDGYESTVDSPSFDFKPLVDSVFFLEYVSLEKFYKYQGNIAN 60

Query: 352 GLRQ--SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
           G R+   +  E    +P+  P  KEQ  I         ++D  +   ++ +  LKE + +
Sbjct: 61  GSRKAKRIHVETFFNMPLPTPSYKEQQKIG----TLFKQLDDTITLHQRKLEQLKELKKA 116

Query: 410 FIA 412
           ++ 
Sbjct: 117 YLQ 119



 Score = 41.3 bits (95), Expect = 0.28,   Method: Composition-based stats.
 Identities = 28/241 (11%), Positives = 73/241 (30%), Gaps = 17/241 (7%)

Query: 172 EKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDH 231
           +KI     ++D  IT   R +E LKE K+A +  +       + K+            + 
Sbjct: 87  QKIGTLFKQLDDTITLHQRKLEQLKELKKAYLQLMFVPTNTKNNKVPKLRFANFEENWEL 146

Query: 232 WEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEI 291
            +++       +   K   L   ++  L    +          L   S     I+  G  
Sbjct: 147 CKLENIIEKQIKGKAKVENLCNGSVEYLDANRLNGGKPIYTKALSDVSERDIIILWDGS- 205

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
                                +G++ S   A +     ++   +     +   ++    +
Sbjct: 206 ------------KAGKVYYGFKGVLGSTLKAYQLKEYANSQFIYQQLLDNQNNIYNNYRT 253

Query: 352 GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
                +        P+ +   +EQ  + +++    + +D  +   +     +   + S++
Sbjct: 254 PNIPHVVKNFSSIFPIWMTSFEEQSQMADIL----SNLDNRIILQQNLTDTMISLKKSYL 309

Query: 412 A 412
            
Sbjct: 310 Q 310



 Score = 40.9 bits (94), Expect = 0.36,   Method: Composition-based stats.
 Identities = 27/184 (14%), Positives = 59/184 (32%), Gaps = 15/184 (8%)

Query: 23  KHWKVVPIKRFTKL-NTGRTSESGKDIIYIGLEDVESGTGKYLPKD--GNSRQSDTSTVS 79
           ++W++  ++   +    G+            +E++ +G+ +YL  +     +   T  +S
Sbjct: 142 ENWELCKLENIIEKQIKGKAK----------VENLCNGSVEYLDANRLNGGKPIYTKALS 191

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
             ++  I+    G    K     F G+  +     Q K+        +   +D    I  
Sbjct: 192 DVSERDIIILWDGSKAGKVYY-GFKGVLGSTLKAYQLKEYANS-QFIYQQLLDNQNNIYN 249

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
                 + H         P+ +    EQ  + + +     RI          I L K   
Sbjct: 250 NYRTPNIPHVVKNFSSIFPIWMTSFEEQSQMADILSNLDNRIILQQNLTDTMISLKKSYL 309

Query: 200 QALV 203
           Q + 
Sbjct: 310 QNMF 313


>gi|57865902|ref|YP_190014.1| type I restriction-modification system S subunit [Staphylococcus
           epidermidis RP62A]
 gi|57636560|gb|AAW53348.1| type I restriction-modification system, S subunit, EcoA family
           [Staphylococcus epidermidis RP62A]
          Length = 381

 Score = 65.6 bits (158), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 51/355 (14%), Positives = 110/355 (30%), Gaps = 33/355 (9%)

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPE 122
            + K+   + S  +   I   GQ++YGKL        +   +       +     D +  
Sbjct: 53  IVEKESIFKGSSNTQYYIRKAGQLMYGKLDFLNCAFGLVPTELNNFESTIDSPSFDFIKG 112

Query: 123 LLQGWLLSIDVTQRIEAI----CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
             +  L  I +    +               +     ++P+  P + EQ  I +      
Sbjct: 113 DKKFLLERIKMKSFYKKYGDLANGSRKAKRINQNTFLSMPLYAPTINEQKKIGDFFSKLD 172

Query: 179 VRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFF 238
            +I+    +     +  +   Q + S  +               +  G     W  K F 
Sbjct: 173 RQIELEEKKLELLEQQKRGYMQKIFSQQLRFK------------DEKGNDYPKWIFKKFE 220

Query: 239 ALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDL 298
            +   +  K  ++  S I   +   +I + +   +G      + +       ++      
Sbjct: 221 EIFKVVPSKKYQIKSSEIEDNASIPVIDQGQNLILGFSNNKEKVFNDFK--NVIIYGDHT 278

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLK 358
              KRS +   +   G+     +       D +YL   ++       F     G ++   
Sbjct: 279 TVIKRSDKPFIIGGDGV----KLLTSKVDSDISYLYNALQ------YFNVKSEGYKRHFS 328

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
               K   +    I+EQ  I N+      ++D  +EK    + LLK+R+   +  
Sbjct: 329 ILKNKDFYIST-SIEEQKRIANI----FNKLDKYIEKQFAKVELLKQRKQGLLQK 378



 Score = 46.7 bits (109), Expect = 0.006,   Method: Composition-based stats.
 Identities = 21/128 (16%), Positives = 45/128 (35%), Gaps = 3/128 (2%)

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
             + +  +    K  S   Y I   G++++  +D  N    L   ++      T    + 
Sbjct: 49  WGKGIVEKESIFKGSSNTQYYIRKAGQLMYGKLDFLNCAFGLVPTEL-NNFESTIDSPSF 107

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ--SLKFEDVKRLPVLVPPIKEQFDITNV 381
                D  +L   ++     K +  + +G R+   +       +P+  P I EQ  I + 
Sbjct: 108 DFIKGDKKFLLERIKMKSFYKKYGDLANGSRKAKRINQNTFLSMPLYAPTINEQKKIGDF 167

Query: 382 INVETARI 389
            +    +I
Sbjct: 168 FSKLDRQI 175


>gi|139438176|ref|ZP_01771729.1| Hypothetical protein COLAER_00717 [Collinsella aerofaciens ATCC
           25986]
 gi|133776373|gb|EBA40193.1| Hypothetical protein COLAER_00717 [Collinsella aerofaciens ATCC
           25986]
          Length = 116

 Score = 65.6 bits (158), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 20/91 (21%), Positives = 37/91 (40%), Gaps = 5/91 (5%)

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPV 367
              +  + +  +   +    D  YLA+++RS  +      +  G+ R ++    V  L V
Sbjct: 8   DQDDVYLNSFCFGYRQDSTFDPHYLAYMLRSSSIRSDLTLLAQGISRFNISKNKVMELSV 67

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
            VP   EQ  I        AR+D L+   ++
Sbjct: 68  PVPSAAEQKQIGQY----FARLDSLITLHQR 94


>gi|88811759|ref|ZP_01127013.1| type I restriction-modification system specificity determinant
           XF2741 [Nitrococcus mobilis Nb-231]
 gi|88791150|gb|EAR22263.1| type I restriction-modification system specificity determinant
           XF2741 [Nitrococcus mobilis Nb-231]
          Length = 421

 Score = 65.6 bits (158), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 55/419 (13%), Positives = 129/419 (30%), Gaps = 32/419 (7%)

Query: 32  RFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKL 91
                N     E GK++ +I +  +                   S    F  G  L  K+
Sbjct: 5   EIVAFNPTTPLEKGKELPFIEMAALPISERDIPTFQYRVAGGSGSK---FRNGDTLLAKI 61

Query: 92  GPYLR-------KAIIADFDGICSTQFLVLQPKDVLPELL-QGWLLSIDVTQRIEAICEG 143
            P L        + +  D  G  ST+F+V++ ++   E          +  +       G
Sbjct: 62  TPCLENGKGGQVRGLPGDGVGHGSTEFIVMRARERSDEQFVYYLSRLPEFRKFAIQQMTG 121

Query: 144 AT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
            +     +W+ + N  +       +  I   +     +I+           + +   +  
Sbjct: 122 TSGRQRVNWQSLTNFDVADLDGELRESIGATLGVLDDKIELNRRMNETLEAMARAIFKDW 181

Query: 203 V-----SYIVTKGLNPDVKMKDSGI---EWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
                 +    +G  P +      +      G       +    + + E NR+ +    S
Sbjct: 182 FIDFGPTRAKAEGRAPYLAPDVWDLFAGTLDGEHKPARWLVRPASDLFEFNRRESLRKGS 241

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
               L    +       +     E Y++      G+ +F  I    +         +   
Sbjct: 242 EAPYLDMAALPTIGPVPDAPSIRE-YKSGSKFRDGDTLFARITPCLENGKTAYVFGLGDE 300

Query: 315 II---TSAYMAVKPHGIDSTYLAWLM-RSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVL 368
           +I   ++ ++ ++         ++++ R            +G   RQ +  E +++ P++
Sbjct: 301 VIGAGSTEFIVIRSRPPLPLPASYVLARDPGFRAHAERSMTGTSGRQRVNAEALRQYPIV 360

Query: 369 VPPIK-EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
            P        + ++I+     I   +    +S  L +  R   +   +TG+I LR   +
Sbjct: 361 APSDSRLWKALGDLIDPMMGGI---IANALESRTLART-RDLLLPKLLTGEIRLRDAEK 415



 Score = 40.5 bits (93), Expect = 0.57,   Method: Composition-based stats.
 Identities = 23/130 (17%), Positives = 41/130 (31%), Gaps = 12/130 (9%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           P  W V P     + N   +   G +  Y+ +  + +      P        +  + S F
Sbjct: 217 PARWLVRPASDLFEFNRRESLRKGSEAPYLDMAALPT----IGPVPDAPSIREYKSGSKF 272

Query: 82  AKGQILYGKLGPYLRKAII-------ADFDGICSTQFLVLQPKDVLP-ELLQGWLLSIDV 133
             G  L+ ++ P L             +  G  ST+F+V++ +  LP             
Sbjct: 273 RDGDTLFARITPCLENGKTAYVFGLGDEVIGAGSTEFIVIRSRPPLPLPASYVLARDPGF 332

Query: 134 TQRIEAICEG 143
               E    G
Sbjct: 333 RAHAERSMTG 342


>gi|284007654|emb|CBA73343.1| restriction modification system DNA specificity domain
           [Arsenophonus nasoniae]
          Length = 363

 Score = 65.6 bits (158), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 27/184 (14%), Positives = 59/184 (32%), Gaps = 13/184 (7%)

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN-MGLKPESYETYQIVD----PGE 290
              +     N       +  +  +   N+    +  N  G    S E    +      G+
Sbjct: 12  SIISGPFGSNIGQRFFQDVGVPVIRGNNLTTDFKKFNDEGFVFLSEEKANELKADAIRGD 71

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIIT--SAYMAVKPHGIDSTYLAWLMRSYDLCK-VFY 347
           I+F           +  +   +R +I+     + + P   D  Y+ + + S  + K +  
Sbjct: 72  ILFTAAGTIGQVGMIPQSSKYDRYVISNKQLRLRIDPEKADPNYVYYWLASPWIYKTIVD 131

Query: 348 AMGSGLRQSLKFEDVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
                    +    +K LP+++P  I EQ  I    +   + ID  ++        L+  
Sbjct: 132 RNTGSTVPLINLGIIKTLPIVLPEDIFEQKKI----SKIFSLIDKKIDLNNHINTELEAM 187

Query: 407 RSSF 410
             + 
Sbjct: 188 AKTL 191



 Score = 47.5 bits (111), Expect = 0.004,   Method: Composition-based stats.
 Identities = 18/139 (12%), Positives = 38/139 (27%), Gaps = 15/139 (10%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPKDGNSRQ 72
            IP+ W +  +   TK+  G T  +  D       I ++   +  S       +      
Sbjct: 225 EIPEGWGISRVGSVTKIELGGTPSTKVDSYWENANIPWLSSTETASFPVVSAEQMVTQSG 284

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIA--------DFDGICSTQFLVLQPKDVLPELL 124
            D S  ++  KG ++   +        +             +    F V      L  + 
Sbjct: 285 IDNSAATLLPKGTVVISIVRYIRPSIFVMVNKFCRRSKRHFLVHDIFDVALNNQSLNGVD 344

Query: 125 QGWLLSIDVTQRIEAICEG 143
                  +     + I + 
Sbjct: 345 NNCKTEYNFQLHRQQIDDS 363



 Score = 44.4 bits (103), Expect = 0.035,   Method: Composition-based stats.
 Identities = 42/300 (14%), Positives = 88/300 (29%), Gaps = 29/300 (9%)

Query: 37  NTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK--GQILYGKLGPY 94
           N G+       +  I   ++ +   K+  +       + +         G IL+   G  
Sbjct: 21  NIGQRFFQDVGVPVIRGNNLTTDFKKFNDEGFVFLSEEKANELKADAIRGDILFTAAGTI 80

Query: 95  LRKAIIAD----FDGICS--TQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSH 148
            +  +I         + S     L + P+   P  +  WL S  + + I     G+T+  
Sbjct: 81  GQVGMIPQSSKYDRYVISNKQLRLRIDPEKADPNYVYYWLASPWIYKTIVDRNTGSTVPL 140

Query: 149 ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVT 208
            +   I  +P+ +P    +    +KI      ID  I         L+   + L  Y   
Sbjct: 141 INLGIIKTLPIVLPEDIFEQ---KKISKIFSLIDKKIDLNNHINTELEAMAKTLYDYWFV 197

Query: 209 KGLNPD---VKMKDSGIEWVG------LVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
           +   PD      K SG + V        +P+ W +    ++              +    
Sbjct: 198 QFDFPDANGKPYKTSGGKMVYNSILKREIPEGWGISRVGSVTKIELGGTPSTKVDSYWEN 257

Query: 260 SYGNIIQKLETRNMGLKP---------ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
           +    +   ET +  +                  ++  G +V   +        +   + 
Sbjct: 258 ANIPWLSSTETASFPVVSAEQMVTQSGIDNSAATLLPKGTVVISIVRYIRPSIFVMVNKF 317


>gi|329921180|ref|ZP_08277695.1| hypothetical protein HMPREF9210_0068 [Lactobacillus iners SPIN
           1401G]
 gi|328934718|gb|EGG31214.1| hypothetical protein HMPREF9210_0068 [Lactobacillus iners SPIN
           1401G]
          Length = 197

 Score = 65.6 bits (158), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 24/193 (12%), Positives = 55/193 (28%), Gaps = 7/193 (3%)

Query: 231 HWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGE 290
            W       +      ++      N   +       + E    G +  +   Y       
Sbjct: 9   DWIEGSLSDIANITMGQSPSGSSYNEDGIGTIFFQGRAEF---GFRFPTIRLYTTEPKRM 65

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG 350
                I +                 I     A+       +++ + M S       +   
Sbjct: 66  AYANDILMSVRAPVGDLNVSHNDCCIGRGLAAIHSKTNHQSFVLYTMFSLKKQFNVFNGE 125

Query: 351 SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
             +  S+    +  +P+L+P   EQ +      +  A +D  +      I  L+  R S 
Sbjct: 126 GTVFGSINRNSLNDMPILIPD-DEQIE---KFELIVAPMDATIRNNYDEICCLQAVRDSL 181

Query: 411 IAAAVTGQIDLRG 423
           +   ++G++D+  
Sbjct: 182 LPRLMSGELDVSD 194



 Score = 46.3 bits (108), Expect = 0.009,   Method: Composition-based stats.
 Identities = 20/181 (11%), Positives = 43/181 (23%), Gaps = 2/181 (1%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W    +     +  G++                 G  ++  +    R   T    +   
Sbjct: 9   DWIEGSLSDIANITMGQSPSGSSYNEDGIGTIFFQGRAEFGFRFPTIRLYTTEPKRMAYA 68

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
             IL     P      ++  D         +  K    +    + +     Q      EG
Sbjct: 69  NDILMSVRAPV-GDLNVSHNDCCIGRGLAAIHSKT-NHQSFVLYTMFSLKKQFNVFNGEG 126

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
                 +   + ++P+ IP   +       +      I     E      +       L+
Sbjct: 127 TVFGSINRNSLNDMPILIPDDEQIEKFELIVAPMDATIRNNYDEICCLQAVRDSLLPRLM 186

Query: 204 S 204
           S
Sbjct: 187 S 187


>gi|312886111|ref|ZP_07745732.1| restriction modification system DNA specificity domain protein
           [Mucilaginibacter paludis DSM 18603]
 gi|311301410|gb|EFQ78458.1| restriction modification system DNA specificity domain protein
           [Mucilaginibacter paludis DSM 18603]
          Length = 185

 Score = 65.6 bits (158), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 21/133 (15%), Positives = 50/133 (37%), Gaps = 6/133 (4%)

Query: 274 GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL 333
            L  E      ++  G+++F     +N      +         +   + +    + + YL
Sbjct: 46  DLMAEGISEKHLLKNGDVLFAAKGTKNFAAVFENHNEASVASTSFFVIRLTGETLLAEYL 105

Query: 334 AWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
           A  + SY    +  A   G    S+  + ++ L + VP ++ Q  I  +      ++   
Sbjct: 106 ALFLNSYTTQTILKAQAIGTSMPSISKQVLENLEITVPGLEIQKAILQI-----NKLRNK 160

Query: 393 VEKIEQSIVLLKE 405
            + ++  I +L+E
Sbjct: 161 EKVLKNKIEVLRE 173



 Score = 39.0 bits (89), Expect = 1.5,   Method: Composition-based stats.
 Identities = 28/170 (16%), Positives = 57/170 (33%), Gaps = 8/170 (4%)

Query: 30  IKRFTKLNTGRT--SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
           IK  T + TG         +++Y+  +  +           +      S   +   G +L
Sbjct: 5   IKDITNIQTGLFAKPSGIGEVVYLQSKHFDEYGQLLSILHPDLMAEGISEKHLLKNGDVL 64

Query: 88  YGKLGPYLRKAIIADFD----GICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
           +   G     A+  + +       S   + L  + +L E L  +L S      ++A   G
Sbjct: 65  FAAKGTKNFAAVFENHNEASVASTSFFVIRLTGETLLAEYLALFLNSYTTQTILKAQAIG 124

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLI--REKIIAETVRIDTLITERIRF 191
            +M     + + N+ + +P L  Q  I    K+  +   +   I      
Sbjct: 125 TSMPSISKQVLENLEITVPGLEIQKAILQINKLRNKEKVLKNKIEVLREK 174


>gi|283795956|ref|ZP_06345109.1| putative type I restriction-modification system specificity protein
           [Clostridium sp. M62/1]
 gi|291076601|gb|EFE13965.1| putative type I restriction-modification system specificity protein
           [Clostridium sp. M62/1]
          Length = 332

 Score = 65.2 bits (157), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 39/315 (12%), Positives = 101/315 (32%), Gaps = 21/315 (6%)

Query: 120 LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
             + L   L S+ + ++IE    G  + H        + +PIP +  Q +I +   A + 
Sbjct: 25  YNKYLLSVLRSVKIQKQIEQTSVGDVIPHFKKSFFDQLLIPIPSMEIQKIIGDYYFAFSE 84

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFA 239
           +I+             +   ++              +++    E +    + +  K    
Sbjct: 85  KIEINKKINDNLERQAQLLFKSWFVDFEPFNGTMPSELEVVPFEKIVDFQNGYAFKS--K 142

Query: 240 LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQ 299
            +      +   +         G  I          +  S     ++  G+I+    D++
Sbjct: 143 ELLNEPSSDCYQVFKQGHIARGGGFIPDGTKSWYPKRLASKLGKFVLKKGDILMAMTDMK 202

Query: 300 NDKRSLRSAQV---MERGIITS--AYMAVKPHGIDSTYLAWLM-RSYDLCKVFYAMG-SG 352
           ++   L +  +       I+      +    +   +    +L+  S D      +   SG
Sbjct: 203 DNVAILGNTAIMPIDNEYIVNQRVGLLRTNGYKGITYPFIYLLTNSKDFLIDLRSRANSG 262

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI----DVLVEKIEQSIVLLKERRS 408
           ++ +L   ++K    ++P           +N   + I       +   +     L + R 
Sbjct: 263 VQVNLSSAEIKASRTILPS--------EKVNTAFSEITLPMFEAIISNQLENQRLAQLRD 314

Query: 409 SFIAAAVTGQIDLRG 423
           + +   ++G+ID+  
Sbjct: 315 TLLPRLMSGEIDVSD 329



 Score = 49.4 bits (116), Expect = 0.001,   Method: Composition-based stats.
 Identities = 16/102 (15%), Positives = 37/102 (36%), Gaps = 5/102 (4%)

Query: 307 SAQVMERGIITSAYMAVKPH-GIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKR 364
               ++  I             + + YL  ++RS  + K       G +    K     +
Sbjct: 2   VPDPIDFCIAQDMVALRVNDAKVYNKYLLSVLRSVKIQKQIEQTSVGDVIPHFKKSFFDQ 61

Query: 365 LPVLVPPIKEQFDITNVINVETARID---VLVEKIEQSIVLL 403
           L + +P ++ Q  I +     + +I+    + + +E+   LL
Sbjct: 62  LLIPIPSMEIQKIIGDYYFAFSEKIEINKKINDNLERQAQLL 103



 Score = 36.7 bits (83), Expect = 6.4,   Method: Composition-based stats.
 Identities = 29/207 (14%), Positives = 54/207 (26%), Gaps = 21/207 (10%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNS 70
           G +P   +VVP ++      G   +S +                 +  G G       + 
Sbjct: 116 GTMPSELEVVPFEKIVDFQNGYAFKSKELLNEPSSDCYQVFKQGHIARGGGFIPDGTKSW 175

Query: 71  RQS---DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGI-CSTQFLVLQ---------PK 117
                       +  KG IL          AI+ +   +    +++V Q          K
Sbjct: 176 YPKRLASKLGKFVLKKGDILMAMTDMKDNVAILGNTAIMPIDNEYIVNQRVGLLRTNGYK 235

Query: 118 DVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
            +    +     S D    + +        +     I      +P         E  +  
Sbjct: 236 GITYPFIYLLTNSKDFLIDLRSRANSGVQVNLSSAEIKASRTILPSEKVNTAFSEITLPM 295

Query: 178 TVRIDTLITERIRFIELLKEKKQALVS 204
              I +   E  R  +L       L+S
Sbjct: 296 FEAIISNQLENQRLAQLRDTLLPRLMS 322


>gi|225351809|ref|ZP_03742832.1| hypothetical protein BIFPSEUDO_03410 [Bifidobacterium
           pseudocatenulatum DSM 20438]
 gi|225157056|gb|EEG70395.1| hypothetical protein BIFPSEUDO_03410 [Bifidobacterium
           pseudocatenulatum DSM 20438]
          Length = 166

 Score = 65.2 bits (157), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 22/136 (16%), Positives = 52/136 (38%), Gaps = 8/136 (5%)

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH- 326
             +   G    S  +Y+ +  G+I F     +              GI++  +  ++P  
Sbjct: 3   FNSTGNGADESSLPSYKRLRLGDIAFEGHANKEFAYGRFVLNDAGNGIMSPRFTCLRPIV 62

Query: 327 GIDSTYLAWLMRSYDLCK--VFYAMGSGLRQS-LKFEDVKRLPVLVPPIKEQFDITNVIN 383
             + ++  + + S ++ +  +  +  SG   + L  +D     +LVP + EQ  I    +
Sbjct: 63  EQEYSFWKYFIHSEEVMRPILVNSTKSGTMMNELVVKDFLEQEILVPSLPEQRQIGAFFD 122

Query: 384 VETARIDVLVEKIEQS 399
                +D L+   ++ 
Sbjct: 123 C----LDSLITLHQRK 134


>gi|327184404|gb|AEA32849.1| N-6 DNA methylase [Lactobacillus amylovorus GRL 1118]
          Length = 609

 Score = 65.2 bits (157), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 30/372 (8%), Positives = 105/372 (28%), Gaps = 12/372 (3%)

Query: 44  SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADF 103
           S   II         G   Y   +     +  S+++   K  I+      +    + +  
Sbjct: 221 SKDAIIENRFNRFRYGDITYTKGESAFISNAISSLNQTGKAVIVVSDGPLFQGGKVASFR 280

Query: 104 DGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPP 163
             +     +          L    +    +            +   +             
Sbjct: 281 KFLVDHDLIETVIALPSSLLSYSIIPINILIINKNKTDSKGQIQFINANQNEWYQTDKHG 340

Query: 164 LAE----QVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKD 219
                   +    ++      ++                 +  +     +  N    +  
Sbjct: 341 KRILSTLGIQKIVELYHSRASVEGKSAIFANTDYKGTLGIKQYILPSEVQLDNSTYHINR 400

Query: 220 SGIEWVG--LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKP 277
           S ++ +    + +   +K  + +      K  + + + +  ++  + I       + +K 
Sbjct: 401 SALQNLNTVQLQELVNIKRGYNVTRRNEDKKGRYLTAKVTDITTDHHINDSNLTRINIKT 460

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP---HGIDSTYLA 334
            +     +++  +I+            + + +         A + VK    + ++  +L 
Sbjct: 461 NAES--YLIENNDILISTRGTIGKVAFVNNIKQCTVPNANLAILRVKSSKLNTVNMIWLM 518

Query: 335 WLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
             + S     +   + +G    ++  +D+ ++P+ V P++ Q           A+++   
Sbjct: 519 LYLASPLGQFMIQQVATGTAISTISTKDLGKIPIPVLPLEAQNKAVQQFQTVQAKLNAEK 578

Query: 394 EKIEQSIVLLKE 405
             +++ I   +E
Sbjct: 579 AALQKKIEANQE 590



 Score = 43.6 bits (101), Expect = 0.055,   Method: Composition-based stats.
 Identities = 25/191 (13%), Positives = 61/191 (31%), Gaps = 12/191 (6%)

Query: 26  KVVPIKRFTKLNTG-----RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
             V ++    +  G     R  +     +   + D+ +                 +   +
Sbjct: 407 NTVQLQELVNIKRGYNVTRRNEDKKGRYLTAKVTDITTDHHINDSNLTRINIKTNAESYL 466

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGIC----STQFLVLQPKDVLPELLQG---WLLSIDV 133
                IL    G   + A + +         +   L ++   +    +     +L S   
Sbjct: 467 IENNDILISTRGTIGKVAFVNNIKQCTVPNANLAILRVKSSKLNTVNMIWLMLYLASPLG 526

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
              I+ +  G  +S    K +G IP+P+ PL  Q    ++      +++       + IE
Sbjct: 527 QFMIQQVATGTAISTISTKDLGKIPIPVLPLEAQNKAVQQFQTVQAKLNAEKAALQKKIE 586

Query: 194 LLKEKKQALVS 204
             +E+  + ++
Sbjct: 587 ANQEELYSSMN 597


>gi|134294390|ref|YP_001118125.1| restriction endonuclease S subunits-like protein [Burkholderia
           vietnamiensis G4]
 gi|134137547|gb|ABO53290.1| Restriction endonuclease S subunits-like protein [Burkholderia
           vietnamiensis G4]
          Length = 424

 Score = 65.2 bits (157), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 44/343 (12%), Positives = 98/343 (28%), Gaps = 34/343 (9%)

Query: 47  DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFD-- 104
             IY  +     G G Y  +  +   +     +      ++  K+        +   +  
Sbjct: 20  GTIYRQIGVRLWGEGAYERESIDGADTKYPNFNRIEADDLVVNKIWARNGSVAVVTTELS 79

Query: 105 -GICSTQFLVLQPK--DVLPELLQGWLLSIDVTQRIEAICEGAT-MSHADWKGIGNIPMP 160
            G  ST+F     K   +LP  ++         Q  +   +G +  +         I +P
Sbjct: 80  GGYVSTEFPAYTLKGERILPAWMRLVTKWRGFWQACDEKAQGTSGKNRIKPGEFLAIEIP 139

Query: 161 IPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDS 220
           +PPL EQ  I  K+   + +   L               ++ +                 
Sbjct: 140 LPPLPEQRAIVAKLDELSDKTTQLNAYLDTVEADADALIRSYM----------------- 182

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES- 279
                G   + +E +    LV+  +                 +  + +    +    +  
Sbjct: 183 ----FGEQANGYEKRKMSELVSLRSTDVAVDNTQEYRFAGVYSFGRGVFASAVKSGSDFA 238

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI--DSTYLAWLM 337
           YE    V  G+  +  +        +   +  +  +++  +     +        L    
Sbjct: 239 YERLSTVKAGDFTYPKLMAWEGALGVVPPEC-DGMVVSPEFPVFTVNTDAVLPEVLDIYF 297

Query: 338 RSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFD 377
           R+  +     A+  G    R+ L+  D     + VPP+  Q  
Sbjct: 298 RTPSVWPELAALSGGTNLRRRRLQPSDFLEYEMSVPPMPVQTK 340



 Score = 59.0 bits (141), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 16/129 (12%), Positives = 49/129 (37%), Gaps = 5/129 (3%)

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH- 326
            E  ++      Y  +  ++  ++V   I  +N   ++ + ++   G +++ + A     
Sbjct: 36  YERESIDGADTKYPNFNRIEADDLVVNKIWARNGSVAVVTTELSG-GYVSTEFPAYTLKG 94

Query: 327 -GIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
             I   ++  + +     +       G   +  +K  +   + + +PP+ EQ  I   ++
Sbjct: 95  ERILPAWMRLVTKWRGFWQACDEKAQGTSGKNRIKPGEFLAIEIPLPPLPEQRAIVAKLD 154

Query: 384 VETARIDVL 392
             + +   L
Sbjct: 155 ELSDKTTQL 163


>gi|241763495|ref|ZP_04761548.1| restriction modification system DNA specificity domain protein
           [Acidovorax delafieldii 2AN]
 gi|241367336|gb|EER61667.1| restriction modification system DNA specificity domain protein
           [Acidovorax delafieldii 2AN]
          Length = 325

 Score = 65.2 bits (157), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 44/323 (13%), Positives = 93/323 (28%), Gaps = 31/323 (9%)

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           +L    +   IE+   G +        I +  +P+PPLA Q  I   +     RI  L  
Sbjct: 3   YLTHPTIKSYIESFNAGGSRRAITKAHIESFVVPLPPLATQRAIAALLGGIDDRITLLRE 62

Query: 187 ERIRFIELLKEKKQALVS-----YIVTKGLNPDVK------MKDSGIE--WVGLVPDHWE 233
                  + +   ++            +G  P+        +   G E   +G VP  W 
Sbjct: 63  TNATLEAIAQALFKSWFVDFDPVRAKMEGRTPEGMDEATAALFPDGFETSELGEVPRGWR 122

Query: 234 VKPFFALV-------TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY---ETY 283
           V     +        T    K     +  I     G        +       +     + 
Sbjct: 123 VGCIDDICSTVTNGGTPSRSKTEYWEQGTIPWFKTGEFHDGFLLQPSERITNAALIGSSV 182

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC 343
           +++    ++          R      ++E      A   +        +  +        
Sbjct: 183 KLLPKDAVLMAIYAAPTVGR---LGILVEPATFNQACTGMVARNEVGPWFLFWTLLNGRD 239

Query: 344 KVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
                     +Q++    V     ++PP      + +  N+  + I   +    +  + L
Sbjct: 240 WFNSRANGAAQQNISKAIVSAYLTVIPPNP----VLDSFNLVASGIHEAIRMNTEKAMTL 295

Query: 404 KERRSSFIAAAVTGQIDLRGESQ 426
              R + +   ++GQ+ L  E+Q
Sbjct: 296 STLRDTLLPRLISGQLRL-PEAQ 317



 Score = 62.9 bits (151), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 25/196 (12%), Positives = 53/196 (27%), Gaps = 10/196 (5%)

Query: 18  IGAIPKHWKVVPIKRFTK-LNTGRTSESGK-------DIIYIGLEDVESGTGKYLPKDGN 69
           +G +P+ W+V  I      +  G T    K        I +    +   G      +   
Sbjct: 114 LGEVPRGWRVGCIDDICSTVTNGGTPSRSKTEYWEQGTIPWFKTGEFHDGFLLQPSERIT 173

Query: 70  SRQSDTSTVSIFAKGQILYGKL-GPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL 128
           +     S+V +  K  +L      P + +  I       +     +  ++ +      + 
Sbjct: 174 NAALIGSSVKLLPKDAVLMAIYAAPTVGRLGILVEPATFNQACTGMVARNEV-GPWFLFW 232

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
             ++      +   GA   +     +      IPP                 I     + 
Sbjct: 233 TLLNGRDWFNSRANGAAQQNISKAIVSAYLTVIPPNPVLDSFNLVASGIHEAIRMNTEKA 292

Query: 189 IRFIELLKEKKQALVS 204
           +    L       L+S
Sbjct: 293 MTLSTLRDTLLPRLIS 308


>gi|332673348|gb|AEE70165.1| possible type I R-M system S protein [Helicobacter pylori 83]
          Length = 236

 Score = 65.2 bits (157), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 24/166 (14%), Positives = 49/166 (29%), Gaps = 11/166 (6%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPKDGNSRQSD 74
           PK  +   ++   ++  G T             I +  +ED+            +     
Sbjct: 35  PKGVEFKTLEEIFEIKNGYTPSKNNPEFWEKGTIPWFRMEDIRENGRILKDSIQHITPKA 94

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP---ELLQGWLLSI 131
                +F K  I+          A++   D + + QF  L  K       ++   +    
Sbjct: 95  LKGKKLFPKNSIIISTTATIGEHALLI-VDSLANQQFTFLSKKANCDLALDMKFFFYQCF 153

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
            + +  +     +  +  D         PIPPL  Q  I + +   
Sbjct: 154 LLGEWCKKNTNVSGFASVDMTAFKKYKFPIPPLEIQQEIVKILDQF 199



 Score = 59.4 bits (142), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 21/189 (11%), Positives = 56/189 (29%), Gaps = 14/189 (7%)

Query: 229 PDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMG---------LKPES 279
           P   E K    +    N                    +  + R  G         + P++
Sbjct: 35  PKGVEFKTLEEIFEIKNGYTPSKNNPEFWEKGTIPWFRMEDIRENGRILKDSIQHITPKA 94

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
            +  ++     I+        +   L    +  +      +++ K +   +  + +    
Sbjct: 95  LKGKKLFPKNSIIISTTATIGEHALLIVDSLANQQFT---FLSKKANCDLALDMKFFFYQ 151

Query: 340 YDLCKVFYAMGS--GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
             L   +    +      S+     K+    +PP++ Q +I  +++  +     L+  I 
Sbjct: 152 CFLLGEWCKKNTNVSGFASVDMTAFKKYKFPIPPLEIQQEIVKILDQFSILTTDLLAGIP 211

Query: 398 QSIVLLKER 406
             I   K++
Sbjct: 212 AEIEARKKQ 220


>gi|59801123|ref|YP_207835.1| hypothetical protein NGO0699 [Neisseria gonorrhoeae FA 1090]
 gi|194098762|ref|YP_002001824.1| hypothetical protein NGK_1199 [Neisseria gonorrhoeae NCCP11945]
 gi|239999056|ref|ZP_04718980.1| hypothetical protein Ngon3_06205 [Neisseria gonorrhoeae 35/02]
 gi|240113035|ref|ZP_04727525.1| hypothetical protein NgonM_05611 [Neisseria gonorrhoeae MS11]
 gi|240115792|ref|ZP_04729854.1| hypothetical protein NgonPID1_06034 [Neisseria gonorrhoeae PID18]
 gi|240125826|ref|ZP_04738712.1| hypothetical protein NgonSK_06367 [Neisseria gonorrhoeae SK-92-679]
 gi|260440390|ref|ZP_05794206.1| hypothetical protein NgonDG_04756 [Neisseria gonorrhoeae DGI2]
 gi|268594900|ref|ZP_06129067.1| conserved hypothetical protein [Neisseria gonorrhoeae 35/02]
 gi|291043687|ref|ZP_06569403.1| conserved hypothetical protein [Neisseria gonorrhoeae DGI2]
 gi|293398985|ref|ZP_06643150.1| type I restriction enzyme, S subunit [Neisseria gonorrhoeae F62]
 gi|59718018|gb|AAW89423.1| hypothetical protein NGO0699 [Neisseria gonorrhoeae FA 1090]
 gi|193934052|gb|ACF29876.1| Conserved hypothetical protein [Neisseria gonorrhoeae NCCP11945]
 gi|268548289|gb|EEZ43707.1| conserved hypothetical protein [Neisseria gonorrhoeae 35/02]
 gi|291012150|gb|EFE04139.1| conserved hypothetical protein [Neisseria gonorrhoeae DGI2]
 gi|291610399|gb|EFF39509.1| type I restriction enzyme, S subunit [Neisseria gonorrhoeae F62]
 gi|317164348|gb|ADV07889.1| hypothetical protein NGTW08_0921 [Neisseria gonorrhoeae
           TCDC-NG08107]
          Length = 400

 Score = 65.2 bits (157), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 61/415 (14%), Positives = 127/415 (30%), Gaps = 38/415 (9%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            H+K   I+     N       G     + +  ++    +    +  +          F 
Sbjct: 2   NHFKKQQIQNIADFNPREQLAKGALAKSVPMAMLKEFQRQITGYEIKAFNGGAK----FR 57

Query: 83  KGQILYGKLGPYLRK-------AIIADFDGICSTQFLVLQPKD-VLPELLQGWLLSIDVT 134
            G  L  K+ P L          +        ST+F+VL+ K+   PE L  + +S D  
Sbjct: 58  NGDTLLAKITPCLENGKTAFVDILDDGEVAFGSTEFIVLRAKNETNPEFLYYFAISPDFR 117

Query: 135 QRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
           +R     EG +     +   +  + +PIP    Q  I   +      +D  I    +   
Sbjct: 118 KRAIECMEGTSGRQRVNENALKTLELPIPEPQIQQSIAAVL----SALDKKIALNKQINA 173

Query: 194 LLKEKKQALVSYIVTKGLNPD---VKMKDSGIEWVGLVPDHWEVKPFFALV--TELNRKN 248
            L+E  + L  Y   +   PD      K SG + V       E+   +  +       K 
Sbjct: 174 RLEEMAKTLYDYWFVQFDFPDANGKPYKSSGGDMVFDETLKREIPKGWGSIELQSCLAKI 233

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
               +     +        ++     +   + +   I++P +    F D     R ++  
Sbjct: 234 PNTTKILNKDIKDFGKYPVVDQSQDFICGFTNDEKSILNPQDAHIIFGD---HTRIVKLV 290

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVL 368
                       + +  +     YL + +              G  +    + +K   ++
Sbjct: 291 NFQYARGADGTQVILSNNERMPNYLFYQI-----INQIDLSSYGYARHF--KFLKEFKII 343

Query: 369 VPPIKEQFDITNVINVETARI-DVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
           +P          + N    ++ + L +        L + R   +   + GQ+ +R
Sbjct: 344 LPSKDISQKYNEIANTFFVKVRNNLKQNH-----HLTQLRDFLLPMLMNGQVSVR 393


>gi|188585422|ref|YP_001916967.1| N-6 DNA methylase [Natranaerobius thermophilus JW/NM-WN-LF]
 gi|179350109|gb|ACB84379.1| N-6 DNA methylase [Natranaerobius thermophilus JW/NM-WN-LF]
          Length = 621

 Score = 65.2 bits (157), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 27/189 (14%), Positives = 64/189 (33%), Gaps = 8/189 (4%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLET----RNMGLK 276
             E          +  F+  +     K  K        L   N+           +   K
Sbjct: 417 DYENNTETVSLKSLGTFYRGLNTHAYKTQKSESPTHKILQLSNVENGEIFLENADSYNAK 476

Query: 277 PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI-DSTYLAW 335
                +   V PG+++            +   + +E  +++  ++  +P+   D  ++ +
Sbjct: 477 ELKNPSSYEVQPGDVIISSRGNSIKIAVIP--EEIENTLLSHNFIGFRPNDNVDPYFIKY 534

Query: 336 LMRSYDLCKVFYAMGSGLRQS-LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
            M S    K       G   S LK +D++++ +    ++EQ  I+N +      +   ++
Sbjct: 535 FMESPIGIKYLSLYQKGSAVSVLKVKDIEKIYIPKVSLEEQKAISNKLRNADLTLQRKIQ 594

Query: 395 KIEQSIVLL 403
           K ++    L
Sbjct: 595 KAKEEHKQL 603



 Score = 49.0 bits (115), Expect = 0.001,   Method: Composition-based stats.
 Identities = 31/180 (17%), Positives = 67/180 (37%), Gaps = 11/180 (6%)

Query: 26  KVVPIKRFTKLNTG------RTSESGKDI-IYIGLEDVESGTGKYLPKDG-NSRQSDTST 77
           + V +K       G      +T +S       + L +VE+G       D  N+++    +
Sbjct: 423 ETVSLKSLGTFYRGLNTHAYKTQKSESPTHKILQLSNVENGEIFLENADSYNAKELKNPS 482

Query: 78  VSIFAKGQILYGKLGPYLRKAIIAD--FDGICSTQFLVLQPKDVLPELLQGWLLSIDV-T 134
                 G ++    G  ++ A+I +   + + S  F+  +P D +      + +   +  
Sbjct: 483 SYEVQPGDVIISSRGNSIKIAVIPEEIENTLLSHNFIGFRPNDNVDPYFIKYFMESPIGI 542

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           + +    +G+ +S    K I  I +P   L EQ  I  K+    + +   I +     + 
Sbjct: 543 KYLSLYQKGSAVSVLKVKDIEKIYIPKVSLEEQKAISNKLRNADLTLQRKIQKAKEEHKQ 602


>gi|240014033|ref|ZP_04720946.1| hypothetical protein NgonD_05193 [Neisseria gonorrhoeae DGI18]
 gi|240016473|ref|ZP_04723013.1| hypothetical protein NgonFA_04764 [Neisseria gonorrhoeae FA6140]
 gi|240080595|ref|ZP_04725138.1| hypothetical protein NgonF_04672 [Neisseria gonorrhoeae FA19]
 gi|240118088|ref|ZP_04732150.1| hypothetical protein NgonPID_06461 [Neisseria gonorrhoeae PID1]
 gi|240121599|ref|ZP_04734561.1| hypothetical protein NgonPI_07513 [Neisseria gonorrhoeae PID24-1]
 gi|240123642|ref|ZP_04736598.1| hypothetical protein NgonP_06839 [Neisseria gonorrhoeae PID332]
 gi|268596720|ref|ZP_06130887.1| conserved hypothetical protein [Neisseria gonorrhoeae FA19]
 gi|268550508|gb|EEZ45527.1| conserved hypothetical protein [Neisseria gonorrhoeae FA19]
          Length = 400

 Score = 65.2 bits (157), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 61/415 (14%), Positives = 127/415 (30%), Gaps = 38/415 (9%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            H+K   I+     N       G     + +  ++    +    +  +          F 
Sbjct: 2   NHFKKQQIQNIADFNPREQLAKGALAKSVPMAMLKEFQRQITGYEIKAFNGGAK----FR 57

Query: 83  KGQILYGKLGPYLRK-------AIIADFDGICSTQFLVLQPKD-VLPELLQGWLLSIDVT 134
            G  L  K+ P L          +        ST+F+VL+ K+   PE L  + +S D  
Sbjct: 58  NGDTLLAKITPCLENGKTAFVDILDDGEVAFGSTEFIVLRAKNETNPEFLYYFAISPDFR 117

Query: 135 QRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
           +R     EG +     +   +  + +PIP    Q  I   +      +D  I    +   
Sbjct: 118 KRAIECMEGTSGRQRVNENALKTLELPIPEPQIQQSIAAVL----SALDKKIALNKQINT 173

Query: 194 LLKEKKQALVSYIVTKGLNPD---VKMKDSGIEWVGLVPDHWEVKPFFALV--TELNRKN 248
            L+E  + L  Y   +   PD      K SG + V       E+   +  +       K 
Sbjct: 174 RLEEMAKTLYDYWFVQFDFPDANGKPYKSSGGDMVFDETLKREIPKGWGSIELQSCLAKI 233

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
               +     +        ++     +   + +   I++P +    F D     R ++  
Sbjct: 234 PNTTKILNKDIKDFGKYPVVDQSQDFICGFTNDEKSILNPQDAHIIFGD---HTRIVKLV 290

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVL 368
                       + +  +     YL + +              G  +    + +K   ++
Sbjct: 291 NFQYARGADGTQVILSNNERMPNYLFYQI-----INQIDLSSYGYARHF--KFLKEFKII 343

Query: 369 VPPIKEQFDITNVINVETARI-DVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
           +P          + N    ++ + L +        L + R   +   + GQ+ +R
Sbjct: 344 LPSKDISQKYNEIANTFFVKVRNNLKQNH-----HLTQLRDFLLPMLMNGQVSVR 393


>gi|42528243|ref|NP_973341.1| type I restriction-modification system, S subunit, truncation
           [Treponema denticola ATCC 35405]
 gi|41819513|gb|AAS13260.1| type I restriction-modification system, S subunit, truncation
           [Treponema denticola ATCC 35405]
          Length = 175

 Score = 65.2 bits (157), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 34/163 (20%), Positives = 55/163 (33%), Gaps = 16/163 (9%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           IP+ W          +  G+               VE  TG+Y P  G+      +   I
Sbjct: 23  IPESWTWCHFGDVADVINGKNQSQ-----------VEDDTGEY-PIYGSGGIMGYANDYI 70

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
             K   + G+ G       + +      T F +     VLP  L  +  S D T    ++
Sbjct: 71  CPKNCTIIGRKGSINNPIFVEEKFWNVDTAFGLAPSSIVLPRYLFYFCKSFDFT----SL 126

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
               T+       I +I  P+PP   Q  I +KI     +++ 
Sbjct: 127 DSSTTLPSLTKTSIRSILFPLPPFVAQQRILDKIDELFSQLEK 169



 Score = 64.0 bits (154), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 24/187 (12%), Positives = 60/187 (32%), Gaps = 17/187 (9%)

Query: 206 IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII 265
           +++        + ++ +E    +P+ W    F  +   +N KN   +E +          
Sbjct: 1   MLSCYYEKFGDVTETAVEMFSAIPESWTWCHFGDVADVINGKNQSQVEDDTGEYPIYGSG 60

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
                         Y    I      +       N+   +      +   + +A+     
Sbjct: 61  G----------IMGYANDYICPKNCTIIGRKGSINNPIFV----EEKFWNVDTAFGLAPS 106

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
             +   YL +  +S+D   +     S    SL    ++ +   +PP   Q  I + I+  
Sbjct: 107 SIVLPRYLFYFCKSFDFTSL---DSSTTLPSLTKTSIRSILFPLPPFVAQQRILDKIDEL 163

Query: 386 TARIDVL 392
            ++++ +
Sbjct: 164 FSQLEKI 170


>gi|319775885|ref|YP_004138373.1| Restriction modification enzyme [Haemophilus influenzae F3047]
 gi|329123734|ref|ZP_08252294.1| type I restriction-modification system [Haemophilus aegyptius ATCC
           11116]
 gi|317450476|emb|CBY86693.1| Restriction modification enzyme [Haemophilus influenzae F3047]
 gi|327469933|gb|EGF15398.1| type I restriction-modification system [Haemophilus aegyptius ATCC
           11116]
          Length = 138

 Score = 65.2 bits (157), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 17/138 (12%), Positives = 46/138 (33%), Gaps = 5/138 (3%)

Query: 277 PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWL 336
                  + +  G+I+          R        +  + +   +      +   +  + 
Sbjct: 3   DNFIIDERKLQKGDILINSTGEGTAGRVTLFGLDGDFVVDSHITIFRPNEKVLPKFAMYS 62

Query: 337 MRSYDLCKVFY-AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
           +       +   A G+  +  L    +  +  LVP + EQ  I N IN     I+  + +
Sbjct: 63  LAHIGFKTIERMATGASGQIELNLSTIGNISFLVPDLNEQQSIVNQIN----EIETQISE 118

Query: 396 IEQSIVLLKERRSSFIAA 413
           +E+ +   ++ + + +  
Sbjct: 119 LEKVLENSRQEKKAVLDK 136


>gi|307067135|ref|YP_003876101.1| restriction endonuclease S subunit [Streptococcus pneumoniae AP200]
 gi|306408672|gb|ADM84099.1| Restriction endonuclease S subunit [Streptococcus pneumoniae AP200]
          Length = 297

 Score = 65.2 bits (157), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 23/109 (21%), Positives = 43/109 (39%), Gaps = 5/109 (4%)

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIK 373
           +I S    V    ++ TYL + + S +         +G    ++   +   L + +PP+ 
Sbjct: 1   MIASTAFIVLDTLLNETYLKYYLLSDNFINRVNNKSTGTSYPAINDYNFNLLLIALPPLS 60

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIAAAVTGQ 418
           EQ  I   I     ++D   E   +   L KE     + S +  A+ G+
Sbjct: 61  EQQRIVEAIESALEKVDEYAESYNRLEQLDKEFPDKLKKSILQYAMQGK 109



 Score = 48.3 bits (113), Expect = 0.002,   Method: Composition-based stats.
 Identities = 21/128 (16%), Positives = 44/128 (34%), Gaps = 17/128 (13%)

Query: 7   YPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDV-ESG 59
           YP YK         IP+ W+ +          G+T    +      +I ++ + D+  SG
Sbjct: 168 YPIYK---------IPEAWRYIKFASLVNFRIGKTPPRSEATFWGTEIPWVSISDMPISG 218

Query: 60  TGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV 119
                 +  +     +  + I  KG +L       + K  I D     +   + + P   
Sbjct: 219 YVTNTRESISKLALKSKKIDISPKGTLLMS-FKLSIGKVAILDIPATHNEAIISIFPYAN 277

Query: 120 LPELLQGW 127
              +++ +
Sbjct: 278 KENIIRDY 285


>gi|325973634|ref|YP_004250698.1| type I restriction-modification system specificity subunit
           [Mycoplasma suis str. Illinois]
 gi|325990086|ref|YP_004249785.1| Restriction modification system DNA (specificity subunit), probably
           fragment [Mycoplasma suis KI3806]
 gi|323575171|emb|CBZ40833.1| Restriction modification system DNA (specificity subunit), probably
           fragment [Mycoplasma suis]
 gi|323652236|gb|ADX98318.1| type I restriction-modification system specificity subunit
           [Mycoplasma suis str. Illinois]
          Length = 251

 Score = 65.2 bits (157), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 30/192 (15%), Positives = 61/192 (31%), Gaps = 15/192 (7%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET 282
           + +G           F +   LN+                  I   +  +    P   + 
Sbjct: 39  DKLGSFETGNPWNSKFDISHSLNKNKGIPFVDGGTISQSKLHILGDKFYDPKYLPSKIK- 97

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV--KPHGIDSTYLAWLMRSY 340
             I     + F  +     + S+    +   G I++   A     +     +  + +   
Sbjct: 98  --IFPKDTVCFVCVGSYPGESSI----LKTNGCISNNIYAFNSCENISFPKFFKYSLDFS 151

Query: 341 DLCKVFYAMGSGLRQS--LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
           D+ K  +   S       L    +  +    PP+ EQ+ I N ++      D L+E  E+
Sbjct: 152 DIKKKIFISSSTTTPRKALSRHKLLSIKFPCPPLNEQYLIGNTLSA----YDELIENNER 207

Query: 399 SIVLLKERRSSF 410
            I +L+  R+S 
Sbjct: 208 QIEVLQGIRTSI 219



 Score = 56.3 bits (134), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 29/198 (14%), Positives = 56/198 (28%), Gaps = 13/198 (6%)

Query: 22  PKHWKVVPIKRFTKLNTGR----------TSESGKDIIYIGLEDVESGTGKYLPKDGNSR 71
           P  W+ V + +     TG           +    K I ++    +       L       
Sbjct: 30  PPRWEWVTLDKLGSFETGNPWNSKFDISHSLNKNKGIPFVDGGTISQSKLHILGDKFYDP 89

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL--- 128
           +   S + IF K  + +  +G Y  ++ I   +G  S         + +           
Sbjct: 90  KYLPSKIKIFPKDTVCFVCVGSYPGESSILKTNGCISNNIYAFNSCENISFPKFFKYSLD 149

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
            S    +   +              + +I  P PPL EQ LI   + A    I+    + 
Sbjct: 150 FSDIKKKIFISSSTTTPRKALSRHKLLSIKFPCPPLNEQYLIGNTLSAYDELIENNERQI 209

Query: 189 IRFIELLKEKKQALVSYI 206
                +     +     +
Sbjct: 210 EVLQGIRTSIFKEWFVNL 227


>gi|299822018|ref|ZP_07053905.1| type I restriction-modification system specificity subunit
           [Listeria grayi DSM 20601]
 gi|299816646|gb|EFI83883.1| type I restriction-modification system specificity subunit
           [Listeria grayi DSM 20601]
          Length = 203

 Score = 65.2 bits (157), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 24/129 (18%), Positives = 44/129 (34%), Gaps = 5/129 (3%)

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF 346
             GE V    D  ND  +     V E+  + +    ++     S    +LM +     + 
Sbjct: 79  HKGEYVLIAEDGANDLINYPVQYVNEKIWVNNHAHVIQGIDRVSDN-KFLMNAIKSINIE 137

Query: 347 YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
             +  G R  L    + +LPV +P   EQ  I         ++D  +      I  L   
Sbjct: 138 PFLVGGGRAKLTSNTLMKLPVKIPTFLEQKKIGTF----FQQLDNTITLHHSKIEKLTTL 193

Query: 407 RSSFIAAAV 415
           + +++    
Sbjct: 194 KKAYLKNLF 202


>gi|229826014|ref|ZP_04452083.1| hypothetical protein GCWU000182_01378 [Abiotrophia defectiva ATCC
           49176]
 gi|229789756|gb|EEP25870.1| hypothetical protein GCWU000182_01378 [Abiotrophia defectiva ATCC
           49176]
          Length = 345

 Score = 65.2 bits (157), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 41/397 (10%), Positives = 102/397 (25%), Gaps = 62/397 (15%)

Query: 27  VVPIKRFTKLN--------TGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           +V +++  K             + E  +D       + E   G Y        +      
Sbjct: 2   IVKLEKVCKRIYAGGDVPKDRYSKEKTEDYKVPIFANAEKDEGLYGYTYEAREKEL---- 57

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
                  I     G      I  +          V+   + + E    + L     +  +
Sbjct: 58  ------SITVAARGTIGYTVIRREPFFPVVRLITVVPDLEKVSERYLFYAL-----KNCK 106

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
               G ++       I    + +  + EQ  I +++      I     E  +  EL    
Sbjct: 107 PQSSGTSIPQLTVPDIKKNTLNLLDIVEQESIADRLDKLNGIIKLRTEEISKLDEL---- 162

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
                             +K   +E  G V  + ++    +              +N+L 
Sbjct: 163 ------------------IKARFVEMFGDVIRNDKLWKTDSW-------------NNLLR 191

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
           +  G   + +E+ +                  +      +   K ++    +M       
Sbjct: 192 IVNGKNQRAIESNDGEYVICGSGGIMGKARDYLTKENSVIVGRKGNINKPILMREKYWNV 251

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
                     +   + +L              +    SL   D+  + + VP +  Q   
Sbjct: 252 DTAFGIEPNNNHICVEYLYMFCLFFDFNRLNKAVTIPSLTKADLLNIEMPVPDLNIQKRF 311

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
              ++    ++D     +++++   +    S +    
Sbjct: 312 ATFVH----QVDKSKVAVQKALDETQTLFDSLMQKYF 344


>gi|224538861|ref|ZP_03679400.1| hypothetical protein BACCELL_03757 [Bacteroides cellulosilyticus
           DSM 14838]
 gi|224519536|gb|EEF88641.1| hypothetical protein BACCELL_03757 [Bacteroides cellulosilyticus
           DSM 14838]
          Length = 186

 Score = 65.2 bits (157), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 21/163 (12%), Positives = 57/163 (34%), Gaps = 9/163 (5%)

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI----VDPGEIVFRFIDLQND 301
                 +  N   +   N+I      N        + + +    V  G+++         
Sbjct: 23  GGKESYLGGNTSLIRSQNVIDFGFLYNGLALINDEQAHGLDNVTVMTGDVLLNITGDSVA 82

Query: 302 KRSLRSAQVMERGIITS-AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFE 360
           +     + ++   +    A +    + + S Y+ + ++      +  + G   R +L  +
Sbjct: 83  RCCKVPSNILPARVNQHVAIIRGDNNIVISDYILYYLQYKKPYLLSLSQGGATRNALTKK 142

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
            ++ + + +P I EQ  I +++    + ID  +E   +    L
Sbjct: 143 MIEDIKIPLPSISEQRHIIDLL----SSIDNKIELNRRINDNL 181


>gi|321310224|ref|YP_004192553.1| type I restriction-modification system, S subunit [Mycoplasma
           haemofelis str. Langford 1]
 gi|319802068|emb|CBY92714.1| type I restriction-modification system, S subunit [Mycoplasma
           haemofelis str. Langford 1]
          Length = 206

 Score = 65.2 bits (157), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 26/180 (14%), Positives = 61/180 (33%), Gaps = 5/180 (2%)

Query: 230 DHWEVKPFFALVTELNRKN-TKLIESNILSLSYGNIIQKL--ETRNMGLKPESYETYQIV 286
              +      +   +  K  T      +  L  GNII     +   +    E +     V
Sbjct: 11  KDVKHLKLKDVCKIIAGKRFTPYTSEGMPVLRSGNIIDGYVVDEDFVYCDREKHPRVDTV 70

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF 346
             G+I+            +             +  +     +   YL   + S       
Sbjct: 71  KYGDILIVRFGSAG-VVGMNLINREFFLDANLSKFSPDSKILHKQYLYHFLLSRQEEIKG 129

Query: 347 YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
           +A G  +  +++  D++ L + VP +++Q  I + ++        L  ++++ ++L KE+
Sbjct: 130 WARG-AVIPAIRKSDLEELMIPVPSLEQQQTIASKLDKLVELKRELKRELKRELILRKEQ 188



 Score = 56.7 bits (135), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 27/181 (14%), Positives = 56/181 (30%), Gaps = 4/181 (2%)

Query: 29  PIKRFTKLNTGR--TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQI 86
            +K   K+  G+  T  + + +  +   ++  G            +     V     G I
Sbjct: 17  KLKDVCKIIAGKRFTPYTSEGMPVLRSGNIIDGYV-VDEDFVYCDREKHPRVDTVKYGDI 75

Query: 87  LYGKLGPYLRKAI-IADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           L  + G      + + + +           P   +      +   +   + I+    GA 
Sbjct: 76  LIVRFGSAGVVGMNLINREFFLDANLSKFSPDSKILHKQYLYHFLLSRQEEIKGWARGAV 135

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
           +       +  + +P+P L +Q  I  K+         L  E  R + L KE+       
Sbjct: 136 IPAIRKSDLEELMIPVPSLEQQQTIASKLDKLVELKRELKRELKRELILRKEQHSYYRKQ 195

Query: 206 I 206
           I
Sbjct: 196 I 196


>gi|5712710|gb|AAD47619.1| HsdS variable domain [Lactococcus lactis]
          Length = 170

 Score = 65.2 bits (157), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 28/165 (16%), Positives = 53/165 (32%), Gaps = 8/165 (4%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDV----ESGTGKYLPKDGNSRQS---DTS 76
            W+   +     +  G T  +     + G  D     E G   Y+ K   +        S
Sbjct: 1   DWEERKLGELANIVGGGTPSTSNPEYWDGDIDWYAPAEIGEQSYVSKSKKTITELGLKNS 60

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
           +  I   G +L+         AI+A      +  F  + P     +    +  + ++ + 
Sbjct: 61  SARILPVGTVLFTSRAGIGNTAILAKE-ATTNQGFQSIVPDQNKLDSYFIFSRTNELKRY 119

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
            E    G+T      K +  + + +P L+EQ  I          I
Sbjct: 120 GEVTGAGSTFVEVSGKQMSKMSIMVPELSEQQKIGSFFKQLDETI 164



 Score = 59.8 bits (143), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 16/153 (10%), Positives = 51/153 (33%), Gaps = 6/153 (3%)

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
           N +  + +I   +    I +    +   K  +    +      +    +   +      +
Sbjct: 23  NPEYWDGDIDWYAPA-EIGEQSYVSKSKKTITELGLKNSSARILPVGTVLFTSRAGIGNT 81

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLP 366
           A + +       + ++ P            R+ +L +     G+G     +  + + ++ 
Sbjct: 82  AILAKEATTNQGFQSIVPDQNKLDSYFIFSRTNELKRYGEVTGAGSTFVEVSGKQMSKMS 141

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
           ++VP + EQ  I +       ++D  +   ++ 
Sbjct: 142 IMVPELSEQQKIGSF----FKQLDETITLHQRK 170


>gi|300866160|ref|ZP_07110879.1| hypothetical protein OSCI_2700005 [Oscillatoria sp. PCC 6506]
 gi|300335839|emb|CBN56039.1| hypothetical protein OSCI_2700005 [Oscillatoria sp. PCC 6506]
          Length = 238

 Score = 65.2 bits (157), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 39/230 (16%), Positives = 77/230 (33%), Gaps = 25/230 (10%)

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
           SY +   L P+ + K       G  P       +   +  L  K       ++   +   
Sbjct: 10  SYWLCGTLEPNPEGKLITYVDSGGTPSTKNDSYWDGEIPWLTPKEITGFTDSVYVSNTER 69

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
            I +L   N   K        ++  G ++                    +G +       
Sbjct: 70  TITQLGLNNSAAK--------LLPTGTVMLTKRAPVGAVAINAIPMATNQGFLN----FQ 117

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
               I   YLA+  R+  +     A GS     L   D+    + VPP++EQ  I +VI+
Sbjct: 118 CGSKIRPLYLAYWFRTNRVYLDMVANGS-TYPELYKSDLFEFQIAVPPLEEQDAILSVIS 176

Query: 384 ------------VETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
                        ++A     + K+++    L++ R + +   ++G +D+
Sbjct: 177 AVQYVSLLGLPLEQSASTPESMIKMQEQNRRLRDIRDAILPNLLSGNLDI 226


>gi|317012655|gb|ADU83263.1| putative type I restriction-modification enzyme specificity subunit
           S [Helicobacter pylori Lithuania75]
          Length = 129

 Score = 65.2 bits (157), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 16/117 (13%), Positives = 47/117 (40%), Gaps = 5/117 (4%)

Query: 301 DKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKF 359
              + +  + +        +     +  + ++L   +R Y+  K    + +G  R ++  
Sbjct: 3   CVVTQKIEKDIYLNSFCFGFRFFDKNLFNPSFLKHFLRDYNFRKNISKVANGVTRFNVSK 62

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           + + ++ + +PP++ Q +I  +++  +A    L+  I   I   K+     R   + 
Sbjct: 63  QLLSKITIPIPPLEIQQEIVKILDQFSALTTDLLAGIPAEIKARKKQYEYYREKLLT 119


>gi|260171384|ref|ZP_05757796.1| putative type I restriction endonuclease specificity subunit,
           partial [Bacteroides sp. D2]
 gi|315919697|ref|ZP_07915937.1| conserved hypothetical protein [Bacteroides sp. D2]
 gi|313693572|gb|EFS30407.1| conserved hypothetical protein [Bacteroides sp. D2]
          Length = 400

 Score = 64.8 bits (156), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 24/197 (12%), Positives = 65/197 (32%), Gaps = 11/197 (5%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY-ETYQI 285
            + D +          E      + +   ++ +    +I   + +   +K  +  + +++
Sbjct: 17  ELLDFYSTNSLCWEQLEYETNTVQNLHYGLIHVGLPTMIDLSKDKLPNIKEGNMPKNFEL 76

Query: 286 VDPGEIVFRFI--DLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA---WLMRSY 340
              G+I F     D     +++    + E+ ++   +        D T +    +   S 
Sbjct: 77  CKNGDIAFADASEDTNEVAKAVEFYDLDEKDVVCGLHTIHGRDNADRTVIGFKGYAFSSD 136

Query: 341 DLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
                   +  G    S+  ++     + +P  +EQ  I          I+  +    + 
Sbjct: 137 TFHHQIRRIAQGTKVFSISTKNFSECYIGIPSKEEQTKIV----TLLRLINERIATQNKI 192

Query: 400 IVLLKERRSSFIAAAVT 416
           I  LK+ +S+  A   +
Sbjct: 193 IEDLKKLKSAISAKLFS 209



 Score = 47.5 bits (111), Expect = 0.004,   Method: Composition-based stats.
 Identities = 46/415 (11%), Positives = 119/415 (28%), Gaps = 49/415 (11%)

Query: 23  KHWKVVPIKRFTKLNTGRTS--------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           + W++  +       +  +          +    ++ GL  V   T   L KD      +
Sbjct: 8   EEWEIYKVSELLDFYSTNSLCWEQLEYETNTVQNLHYGLIHVGLPTMIDLSKDKLPNIKE 67

Query: 75  T---STVSIFAKGQILYGKLGPYLRKAI-------IADFDGICSTQFL--VLQPKDVLPE 122
                   +   G I +        +         + + D +C    +         +  
Sbjct: 68  GNMPKNFELCKNGDIAFADASEDTNEVAKAVEFYDLDEKDVVCGLHTIHGRDNADRTVIG 127

Query: 123 LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
                  S     +I  I +G  +     K      + IP   EQ  I   +      I+
Sbjct: 128 FKGYAFSSDTFHHQIRRIAQGTKVFSISTKNFSECYIGIPSKEEQTKIVTLL----RLIN 183

Query: 183 TLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVT 242
             I  + + IE LK+ K A+ + + ++      ++    I+           K F+    
Sbjct: 184 ERIATQNKIIEDLKKLKSAISAKLFSQEPIVWNRLNSYFIKGKAGGTPTSTNKKFYDGDI 243

Query: 243 ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK 302
                N    +   +  +  +I Q               +  IV    ++          
Sbjct: 244 PFLSINDITKQGKYIWQTENHISQNGL---------DNSSAWIVPKHSLIMSMYASVGLV 294

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDV 362
              +      + + +   +  +       Y     +   + K      +G + ++  + V
Sbjct: 295 TINQVPIATSQAMFS-MLLKDESLLDYLYYYLSYFKRRHIHKYLE---TGTQSNINADIV 350

Query: 363 KRLPVLVPPIKEQF--DITNVINVETARIDV--LVEKIEQSIVLLKERRSSFIAA 413
               +++P  + +    I +++     ++D   L+      +    +++   ++ 
Sbjct: 351 CG--IMIPDYEYRHNIKIASMLQSIDVKLDNESLI------LNQYNQQKQYLLSQ 397


>gi|313113288|ref|ZP_07798894.1| type I restriction modification DNA specificity domain protein
           [Faecalibacterium cf. prausnitzii KLE1255]
 gi|310624398|gb|EFQ07747.1| type I restriction modification DNA specificity domain protein
           [Faecalibacterium cf. prausnitzii KLE1255]
          Length = 207

 Score = 64.8 bits (156), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 25/140 (17%), Positives = 53/140 (37%), Gaps = 5/140 (3%)

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
             G ++Q+    +  +  ++   Y ++  G   +R      D        ++++GII+  
Sbjct: 58  QQGIVLQEDYFADRQVTTDNNVGYYVLPKGYFTYRSRS-DTDVFVFNRNNIVDKGIISYY 116

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
           Y    P   DS +L   +      ++  A     ++ L     K + V VP   EQ  I 
Sbjct: 117 YPVFAPKSCDSNFLLRRLNHGIKKQLSMAAEGTGQKVLAHAKFKNMVVDVPSQSEQEKIG 176

Query: 380 NVINVETARIDVLVEKIEQS 399
            ++      +D L+   ++ 
Sbjct: 177 TILE----ELDTLITLHQRE 192


>gi|307243985|ref|ZP_07526106.1| type I restriction modification DNA specificity domain protein
           [Peptostreptococcus stomatis DSM 17678]
 gi|306492635|gb|EFM64667.1| type I restriction modification DNA specificity domain protein
           [Peptostreptococcus stomatis DSM 17678]
          Length = 347

 Score = 64.8 bits (156), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 59/398 (14%), Positives = 131/398 (32%), Gaps = 70/398 (17%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
             + ++ +    R +E  ++ +        S   +Y+P   N+  +D +   +  KGQ  
Sbjct: 6   KRLGQYIRQVDVRNTEGKEENLL-----GVSVQKRYIPSIANTVGTDFTKYKVVKKGQFT 60

Query: 88  Y----GKLGPYLRKAIIADFD-GICSTQFLVL---QPKDVLPELLQGWLLSIDVTQRIEA 139
           Y     + G  +  A++ D+D G+ S  + V      K ++P+ L  W    +  +    
Sbjct: 61  YIPDTSRRGDKIGIALLEDYDEGLVSNVYTVFEVIDKKQLIPQYLMLWFSRPEFDRFARF 120

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
              G+     DW  + N+ +P+P   +Q+ I          I   I  + +  + L+E+ 
Sbjct: 121 KSHGSVREVMDWDEMCNVELPVPTYEKQLEIVN----SYKAIMERIDLKQKINDNLEEQV 176

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
            AL   +     +P+   +       G  P   E+                        +
Sbjct: 177 YALYKQLTQSH-DPNTVFESIATVQSGKRPVSNEIGT-------------------YPLV 216

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
             G I+  +   N              D   I+   +            +   +   +  
Sbjct: 217 GAGGIMNYINDYN-------------FDEQIIITGRVGTHG-----VIQRFFSKCWASDN 258

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
            + +K +     +    ++S D   +        +  +   D+K LP+ +P I E     
Sbjct: 259 TLVIKSNYY--EFSYHFLKSVDWDLLNR---GSTQPLVTQTDIKNLPLYLPDISE----- 308

Query: 380 NVINVETARIDVLVEKIE---QSIVLLKERRSSFIAAA 414
             +    A  + +++      + I  L + +   I + 
Sbjct: 309 --LTAFEATAEKIMKHQRVLLKEIESLNQLKDMIITSL 344


>gi|94266712|ref|ZP_01290384.1| hypothetical protein MldDRAFT_4054 [delta proteobacterium MLMS-1]
 gi|93452632|gb|EAT03198.1| hypothetical protein MldDRAFT_4054 [delta proteobacterium MLMS-1]
          Length = 122

 Score = 64.8 bits (156), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 14/85 (16%), Positives = 33/85 (38%), Gaps = 2/85 (2%)

Query: 336 LMRSYDLCKVFY--AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
           ++ S  L       A  +    ++   ++K +   +PP++ Q  I   ++   ++I  L 
Sbjct: 2   ILNSPTLRAKIEREARSTSGVHNINSSEIKAITFDLPPVEVQAKIIERVDEHMSKIGHLE 61

Query: 394 EKIEQSIVLLKERRSSFIAAAVTGQ 418
              +  +      R S +  A  G+
Sbjct: 62  AWCQTELTRSAALRQSILKDAFAGR 86


>gi|135208|sp|P19705|T1SE_ECOLX RecName: Full=Type-1 restriction enzyme EcoEI specificity protein;
           Short=S.EcoEI; AltName: Full=Type I restriction enzyme
           EcoEI specificity protein; Short=S protein
 gi|146400|gb|AAA23986.1| EcoE type I restriction modification enzyme S subunit [Escherichia
           coli]
          Length = 594

 Score = 64.8 bits (156), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 33/205 (16%), Positives = 65/205 (31%), Gaps = 9/205 (4%)

Query: 217 MKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLE---TRNM 273
           ++ S  E    +P+ WE      + T   +      E  I  +    I  + +    + +
Sbjct: 90  LRISEDEKPFELPEGWEWITLSEIATINPKIEVTDDEQEISFVPMPCISTRFDGAHDQEI 149

Query: 274 GLKPESYETYQIVDPGEIVFRFIDLQ--NDKRSLRSAQVMERGIITSAYMAVKPHGIDST 331
               E  + Y     G+I    I     N K  +        G+ T+     +P   +  
Sbjct: 150 KKWGEVKKGYTHFADGDIALAKITPCFENSKAVIFKGLKGGVGVGTTELHVARPISSELN 209

Query: 332 YLAWLMR----SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
               L+      Y         GS  ++ +     +  P+  PP  EQ  I    +    
Sbjct: 210 LQYILLNIKSPHYLSMGESMMTGSAGQKRVPRSFFENYPIPFPPNTEQARIVGTFSKLMF 269

Query: 388 RIDVLVEKIEQSIVLLKERRSSFIA 412
             D L ++   S+   ++   + +A
Sbjct: 270 LCDQLEQQSLTSLDAHQQLVETLLA 294



 Score = 57.9 bits (138), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 46/478 (9%), Positives = 110/478 (23%), Gaps = 98/478 (20%)

Query: 20  AIPKHWKVVPIKRFT---------------------------------------KLNTGR 40
            +P+ W+ + +                                           ++  G 
Sbjct: 100 ELPEGWEWITLSEIATINPKIEVTDDEQEISFVPMPCISTRFDGAHDQEIKKWGEVKKGY 159

Query: 41  TSESGKDIIYIGLE-DVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ-------ILYGKLG 92
           T  +  DI    +    E+                T+ + +            IL     
Sbjct: 160 THFADGDIALAKITPCFENSKAVIFKGLKGGVGVGTTELHVARPISSELNLQYILLNIKS 219

Query: 93  PYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID----VTQRIEAICEGATMSH 148
           P+      +   G    + +     +  P                ++ +    +    S 
Sbjct: 220 PHYLSMGESMMTGSAGQKRVPRSFFENYPIPFPPNTEQARIVGTFSKLMFLCDQLEQQSL 279

Query: 149 ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVT 208
                   +   +          E++     RI             +   KQ ++   V 
Sbjct: 280 TSLDAHQQLVETLLATLTDSQNAEELAENWARISQYFDTLFTTEASIDALKQTILQLAVM 339

Query: 209 KGLNPDVKMKD-------------------------------SGIEWVGLVPDHWEVKPF 237
             L       +                               S  E    +P  WE    
Sbjct: 340 GKLVSQDPNDEPASELLKRVEQEKVQLVKEGKIKKQKPLPPVSDDEKPFELPIGWEWCRI 399

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET----------YQIVD 287
             ++  ++   +               + K          E                 V 
Sbjct: 400 GEIIANMDAGWSPACSPEPSPNEDIWGVLKTTAVQSLEYREQENKTLPNSKLPRPQYEVH 459

Query: 288 PGEIVFRFIDLQNDKRS-LRSAQVMERGIITSAYMAVK--PHGIDSTYLAWLMRSYDLCK 344
            G+I+      +N         +   + +I+   +        I + Y++  +       
Sbjct: 460 DGDILVTRAGPKNRVGVSCLVEKTRSKLMISDKIIRFHLISDDISAKYISLCLNRGVTAD 519

Query: 345 VFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
              A  SG+   + ++  E+++  P+ +PP   Q  + + I       D L  +++ +
Sbjct: 520 YLEASKSGMAESQMNISQENLRSAPIALPPTAIQLKVISTIEDFFKVCDQLKSRLQSA 577



 Score = 44.8 bits (104), Expect = 0.027,   Method: Composition-based stats.
 Identities = 26/206 (12%), Positives = 52/206 (25%), Gaps = 17/206 (8%)

Query: 20  AIPKHWKVVPIKR-FTKLNTGRT------SESGKDII-YIGLEDVESGTGKYLPKDGNSR 71
            +P  W+   I      ++ G +          +DI   +    V+S   +         
Sbjct: 389 ELPIGWEWCRIGEIIANMDAGWSPACSPEPSPNEDIWGVLKTTAVQSLEYREQENKTLPN 448

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIA-----DFDGICSTQFLVLQPKDVLPELLQG 126
                       G IL  + GP  R  +           + S + +              
Sbjct: 449 SKLPRPQYEVHDGDILVTRAGPKNRVGVSCLVEKTRSKLMISDKIIRFHLISDDISAKYI 508

Query: 127 WLLSIDVTQRIE----AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
            L                    +  +   + + + P+ +PP A Q+ +   I       D
Sbjct: 509 SLCLNRGVTADYLEASKSGMAESQMNISQENLRSAPIALPPTAIQLKVISTIEDFFKVCD 568

Query: 183 TLITERIRFIELLKEKKQALVSYIVT 208
            L +      +       AL    + 
Sbjct: 569 QLKSRLQSAQQTQLHLADALTDAALN 594


>gi|238923274|ref|YP_002936789.1| putative restriction and modification system specificity protein
           [Eubacterium rectale ATCC 33656]
 gi|238874948|gb|ACR74655.1| putative restriction and modification system specificity protein
           [Eubacterium rectale ATCC 33656]
          Length = 173

 Score = 64.8 bits (156), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 17/160 (10%), Positives = 51/160 (31%), Gaps = 12/160 (7%)

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVD----PGEIVFRFIDLQNDKRS--LRS 307
                ++  NI          L+       Q+++     G+++F    ++ +        
Sbjct: 10  HGFPFINLQNIFGNNVIDVNKLELADATEKQLLEYSLLKGDVLFVRSSVKLEGVGEAALV 69

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLA-WLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRL 365
            + +E    +   +  +     +     ++  +  +     A  +    +++    ++ L
Sbjct: 70  PETLENTTYSGFIIRFRDEYGLNNDFKKYIFGTQKVRNQIMAQATNSANKNISQGVLENL 129

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
              VP   EQ  I        + +D L+   ++     K+
Sbjct: 130 TFEVPSFDEQAKIGEH----FSNLDHLITLHQRQTDFYKK 165


>gi|332083323|gb|EGI88554.1| type I restriction enzyme EcoAI specificity [Shigella boydii
           5216-82]
 gi|332083684|gb|EGI88902.1| type I restriction enzyme EcoAI specificity [Shigella dysenteriae
           155-74]
          Length = 388

 Score = 64.8 bits (156), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 28/207 (13%), Positives = 70/207 (33%), Gaps = 12/207 (5%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDV 56
           +K  K  P+   S  +    +P+ W+ V +    ++  GR  +  +        + + ++
Sbjct: 83  IKKQKPLPEI--SEEEKPFELPEGWEWVRVADLMEVINGRAYKKHEMLQTGTPLLRVGNL 140

Query: 57  ESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP 116
                 +   +                G ++Y     +       +        + +   
Sbjct: 141 ------FTSNEWYYSDLQLDENKYINNGDLIYAWSASFGPFIWTGEKVIYHYHIWKLNLF 194

Query: 117 KDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIA 176
            +            + +T +I++   G  M H   + +    + +PP+ EQ  I  KI  
Sbjct: 195 AEEYSNKYFIHDFLLSITDKIKSQGNGIAMLHMTKEKMEQQIIALPPINEQQQIVRKIRE 254

Query: 177 ETVRIDTLITERIRFIELLKEKKQALV 203
            TV  D L  + +  ++  ++  + L+
Sbjct: 255 LTVLCDQLEQQSLTSLDAHQQLVETLL 281



 Score = 64.8 bits (156), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 26/193 (13%), Positives = 63/193 (32%), Gaps = 5/193 (2%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
           S  E    +P+ WE      L+  +N +  K  E          +     +         
Sbjct: 93  SEEEKPFELPEGWEWVRVADLMEVINGRAYKKHEMLQTGTPLLRVGNLFTSNEWYYSDLQ 152

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
            +  + ++ G++++ +              +    I             +  ++   + S
Sbjct: 153 LDENKYINNGDLIYAWSASFGPFIWTGEKVIYHYHIW--KLNLFAEEYSNKYFIHDFLLS 210

Query: 340 YDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
             +     + G+G     +  E +++  + +PPI EQ  I   I   T   D L ++   
Sbjct: 211 --ITDKIKSQGNGIAMLHMTKEKMEQQIIALPPINEQQQIVRKIRELTVLCDQLEQQSLT 268

Query: 399 SIVLLKERRSSFI 411
           S+   ++   + +
Sbjct: 269 SLDAHQQLVETLL 281


>gi|47459120|ref|YP_015982.1| restriction-modification enzyme mpuUVIII s subunit [Mycoplasma
           mobile 163K]
 gi|47458449|gb|AAT27771.1| restriction-modification enzyme mpuUVIII s subunit [Mycoplasma
           mobile 163K]
          Length = 380

 Score = 64.8 bits (156), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 50/394 (12%), Positives = 104/394 (26%), Gaps = 43/394 (10%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           +V+   +  ++N GR+  S KDI      D       Y  K  N+          +    
Sbjct: 17  EVIKTDKIFEINKGRSKISKKDI-----SDNHGIYPVYSSKTTNNGILGWINRYDYNDEL 71

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL--PELLQGWLLSIDVTQRIEAICEG 143
           I     G         +     +    VL+ K+          + L  +           
Sbjct: 72  ITLTSEGYAGTAFYHINEKFNVTGDSFVLKVKNKDITNTKFMFYFLQKEAKNPSNLNLLN 131

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
                     +  I +P+PP+  Q  I   +   +  +  L  E     +  +  +  L 
Sbjct: 132 NFSGTLTKSNLSKIEIPLPPIQYQDEIVRILNNFSEILLDLKKEFELRKKQYEYYRNKLF 191

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTEL--NRKNTKLIESNILSLSY 261
                                     ++  +   F +        K        I  +  
Sbjct: 192 --------------------LFSEQTEYVSIDKIFEINKGKSKISKKDISDNPGIYPVYS 231

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
                      +    + YE   I                          ++  +T    
Sbjct: 232 SKTTNNGILGWINRYEDQYEDELI----------TITVGGYAGTVFYHDNKKINVTEGSW 281

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
            +K    ++  + ++  + ++    Y   S     LK   ++++ + +P I+ Q  I   
Sbjct: 282 ILKAFDKNNVNIKFVFYALEIIAKKYVTKSSTMLELKKSSIEKIKIPLPSIEIQNKIVKN 341

Query: 382 INVETARIDVLVEKIEQSIVLLKE----RRSSFI 411
           +N     I    E +   I L K+     R   +
Sbjct: 342 LNFFEILIKDFKEGLPSEINLRKKQYEYYRDKLL 375


>gi|330997667|ref|ZP_08321512.1| conserved domain protein [Paraprevotella xylaniphila YIT 11841]
 gi|329570195|gb|EGG51935.1| conserved domain protein [Paraprevotella xylaniphila YIT 11841]
          Length = 464

 Score = 64.8 bits (156), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 49/425 (11%), Positives = 131/425 (30%), Gaps = 51/425 (12%)

Query: 30  IKRFTKLNTGRTSES---GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQI 86
           + +   +N   + +     +++ +I +E ++   G         R  +    + F +G +
Sbjct: 37  LGQLVYINPPVSFDGISDNEEMSFIPMESIDEHNGTIKTLK-TIRFREIKGFTKFQEGDL 95

Query: 87  LYGKLGPYLRK------AIIADFDGICSTQFLVLQPKDVLP---ELLQGWLLSIDVTQRI 137
           L+ K+ P ++         + +  G  ST+F VL+PK        +         +    
Sbjct: 96  LWAKITPCMQNGKSAIACKLKNGFGCGSTEFFVLRPKSDNILIEYIHYILRDKRVLKSAQ 155

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIRE------------------KIIAETV 179
            +    A         + ++ +P+ P+  Q  I +                   + +   
Sbjct: 156 NSFGGSAGQQRVSSSYLKSVKIPLLPIDIQKQIIKQYIQAQEAKQKKDEEAKSLLDSIDS 215

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVK-------MKDSGIEWVGLVPDHW 232
            +   +   +   ++  +     +S ++    +P           K         +    
Sbjct: 216 FVLKNMGVALPSKDIYAKVNVVSLSQLIGNRYDPYYHNEYFEEAFKHLKETSNYKLVRLS 275

Query: 233 EVKPFFALVTELNRKNTKLI--ESNILSLSYGNIIQKLETRNMGLKP------ESYETYQ 284
           ++                    E  +  +  GNI    E     L         +     
Sbjct: 276 DITVLITSGITPKSGGDDYTDSEHGVAFIRSGNIDIMGEVDFDNLLYIRRNVHNTRMKSS 335

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCK 344
            V  G+I+   +     +  +  +   E  I  +  +     G +  Y+  +++S     
Sbjct: 336 KVQNGDIMIAIVGATIGQVGIYHSSR-EANINQAIALVRLKDGYNPEYIKEVIKSSIGQL 394

Query: 345 VFYAMGS-GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
               +     R ++  E++  + + VP I+ Q ++   +     +   L    ++ + LL
Sbjct: 395 NLDRLKRPVARANINLEEISSMLIPVPEIEIQNEMVKSVVSIRQQAKQL---QKEGVKLL 451

Query: 404 KERRS 408
           +  + 
Sbjct: 452 ESTKQ 456



 Score = 53.6 bits (127), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 24/189 (12%), Positives = 63/189 (33%), Gaps = 16/189 (8%)

Query: 228 VPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVD 287
            P     +  +          +   E + + +   +           ++    + +    
Sbjct: 32  YPSFDLGQLVYINPPVSFDGISDNEEMSFIPMESIDEHNGTIKTLKTIRFREIKGFTKFQ 91

Query: 288 PGEIVFRFID--LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS--TYLAWLMRSYDLC 343
            G++++  I   +QN K ++        G  ++ +  ++P   +    Y+ +++R   + 
Sbjct: 92  EGDLLWAKITPCMQNGKSAIACKLKNGFGCGSTEFFVLRPKSDNILIEYIHYILRDKRVL 151

Query: 344 K--VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
           K       GS  +Q +    +K + + + PI  Q  I          I   ++  E    
Sbjct: 152 KSAQNSFGGSAGQQRVSSSYLKSVKIPLLPIDIQKQI----------IKQYIQAQEAKQK 201

Query: 402 LLKERRSSF 410
             +E +S  
Sbjct: 202 KDEEAKSLL 210


>gi|260437998|ref|ZP_05791814.1| type I restriction-modification system, S subunit [Butyrivibrio
           crossotus DSM 2876]
 gi|292809595|gb|EFF68800.1| type I restriction-modification system, S subunit [Butyrivibrio
           crossotus DSM 2876]
          Length = 272

 Score = 64.8 bits (156), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 32/195 (16%), Positives = 62/195 (31%), Gaps = 14/195 (7%)

Query: 217 MKDSGIEWVGLVPDHWEVKPF------FALVTELNRKNTKLIESNILSLSYGNI--IQKL 268
            K     +   +P +W               T          +S I  L   NI    KL
Sbjct: 78  FKGDDNSYYQDLPSNWINIRLSAISEIITKGTTPRGGKIAYRQSGIGFLRAENIAGYDKL 137

Query: 269 ETRNMGLKPES----YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
           +  N+    E     Y    I+   +I+            +    +        A + + 
Sbjct: 138 DLSNLNYVDEESHKNYLKRSILKENDILITIAGTLGRTAIVPQHALPLNSNQAVAIVRLV 197

Query: 325 PHG-IDSTYLAWLMRSYDLC-KVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
            +  I+  YLA+ + S  +   +          +L  +++    + +PP+ EQ  I   I
Sbjct: 198 NNKLINVKYLAYTLNSPIIKSDLLAKSVDMAIPNLSLDNIAECNISLPPLAEQKRIVEAI 257

Query: 383 NVETARIDVLVEKIE 397
               A +D +  ++E
Sbjct: 258 EKIFATLDDIANQVE 272



 Score = 49.8 bits (117), Expect = 0.001,   Method: Composition-based stats.
 Identities = 34/180 (18%), Positives = 63/180 (35%), Gaps = 17/180 (9%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESG-------KDIIYIGLEDVESGTGKYLPKDGNSRQ 72
            +P +W  + +   +++ T  T+  G         I ++  E++ +G  K    + N   
Sbjct: 88  DLPSNWINIRLSAISEIITKGTTPRGGKIAYRQSGIGFLRAENI-AGYDKLDLSNLNYVD 146

Query: 73  SDTSTVS----IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP-----EL 123
            ++        I  +  IL    G   R AI+       ++   V   + V       + 
Sbjct: 147 EESHKNYLKRSILKENDILITIAGTLGRTAIVPQHALPLNSNQAVAIVRLVNNKLINVKY 206

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           L   L S  +   + A      + +     I    + +PPLAEQ  I E I      +D 
Sbjct: 207 LAYTLNSPIIKSDLLAKSVDMAIPNLSLDNIAECNISLPPLAEQKRIVEAIEKIFATLDD 266


>gi|229547243|ref|ZP_04435968.1| type I restriction enzyme, specificity subunit [Enterococcus
           faecalis TX1322]
 gi|229307640|gb|EEN73627.1| type I restriction enzyme, specificity subunit [Enterococcus
           faecalis TX1322]
          Length = 222

 Score = 64.8 bits (156), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 26/209 (12%), Positives = 65/209 (31%), Gaps = 11/209 (5%)

Query: 207 VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ 266
           V     P ++  D   EW     + +      +       K     E+ +  +   ++ +
Sbjct: 18  VKDERAPKLRFADFEGEWEQCKLEDYATYRRGSFPQPYGNKKWYDGENAMPFVQVIDVTE 77

Query: 267 KLETRNMGLKPESY---ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
           +L       +  S         V  G++V             +    ++R ++       
Sbjct: 78  QLSLVKDTKQKISKLAQSKSVFVSAGKVVVTLQGSIGRVAITQYNSYIDRTLL---VFES 134

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
                D  + A+ ++             G  +++  E +    V  P  +EQ    N + 
Sbjct: 135 YEKETDEYFWAYTIQQ-KFEIEKRKAPGGTIKTITKEALSSFEVNFPEYEEQQKNGNFL- 192

Query: 384 VETARIDVLVEKIEQSIVLLKERRSSFIA 412
                +D ++   ++ +  LK  + S++ 
Sbjct: 193 ---KNLDNILTLDQKKLDQLKSLKKSYLQ 218



 Score = 48.3 bits (113), Expect = 0.003,   Method: Composition-based stats.
 Identities = 19/189 (10%), Positives = 50/189 (26%), Gaps = 10/189 (5%)

Query: 24  HWKVVPIKRFTKLNTGRTS---------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
            W+   ++ +     G            +    + ++ + DV               +  
Sbjct: 34  EWEQCKLEDYATYRRGSFPQPYGNKKWYDGENAMPFVQVIDVTEQLSLVKDTKQKISKLA 93

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
            S     + G+++    G   R   I  ++       LV +  +   +            
Sbjct: 94  QSKSVFVSAGKVVVTLQGSIGR-VAITQYNSYIDRTLLVFESYEKETDEYFWAYTIQQKF 152

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           +  +    G T+     + + +  +  P   EQ      +      +     +  +   L
Sbjct: 153 EIEKRKAPGGTIKTITKEALSSFEVNFPEYEEQQKNGNFLKNLDNILTLDQKKLDQLKSL 212

Query: 195 LKEKKQALV 203
            K   Q + 
Sbjct: 213 KKSYLQNMF 221


>gi|296270472|ref|YP_003653104.1| restriction modification system DNA specificity domain-containing
           protein [Thermobispora bispora DSM 43833]
 gi|296093259|gb|ADG89211.1| restriction modification system DNA specificity domain protein
           [Thermobispora bispora DSM 43833]
          Length = 401

 Score = 64.8 bits (156), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 63/404 (15%), Positives = 137/404 (33%), Gaps = 36/404 (8%)

Query: 34  TKLNTGRTSESGKDIIY-IGLEDVESGTGKYL--PKDGNSRQSDTSTVSIFAKGQILYGK 90
            +  T   +  G +  Y +G   +++G        +   +     +  ++  K  I+  +
Sbjct: 17  CEHKTAPAAPRGTEYGYSVGTPCIKNGRLLLDAAKRVDRATYEKWTARAVPQKDDIILTR 76

Query: 91  LGPYLRKAIIADFDGIC---STQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMS 147
             P    A++     +C    T  L   P  + P  L   LLS  + +R+    EG+T+ 
Sbjct: 77  EAPVGEAALLDGNSRVCLGQRTVLLRPDPLKIDPRFLHYLLLSPALQERMRIRAEGSTVP 136

Query: 148 HADWKGIGNIP-MPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYI 206
           H +   I ++    +PPL EQ +    + A   +I       + +  LL+ + + L    
Sbjct: 137 HLNVGDIRSLQLGELPPLREQHVTAAILGALDDKIAVNERIAVTYESLLRLRFEELR--- 193

Query: 207 VTKGLNPDVKMKDSG-IEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII 265
           V     P   +  S  IE+   VP        +  ++ +     ++ E +      G   
Sbjct: 194 VDVEPAPGEGVAVSELIEFNPSVPAPRTTDAVYLDMSSVPTSTARVREWSRREPKSGTRF 253

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
              +T    + P                           +   +  E GI ++ ++ ++ 
Sbjct: 254 ANNDTVMARITP------------------CLENGKTAFIDFMEDGETGIGSTEFIVMRA 295

Query: 326 HGIDSTYLAWLM-RSYDLCKV--FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
                 +L + + RS           +GS  RQ +    +    V +P            
Sbjct: 296 RAGVPVHLPYFLARSPRFRSYAIQNMVGSSGRQRVSASQLAGFTVRLPDPTSMAAFGEAA 355

Query: 383 NVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
           +   A +  L  + +     L + R + +   ++G++ +R   +
Sbjct: 356 SAAFAHMKSLDAESKN----LAQLRDTLLPKLISGELRVRDAEK 395


>gi|260495160|ref|ZP_05815288.1| LOW QUALITY PROTEIN: type I restriction enzyme specificity protein
           [Fusobacterium sp. 3_1_33]
 gi|260197217|gb|EEW94736.1| LOW QUALITY PROTEIN: type I restriction enzyme specificity protein
           [Fusobacterium sp. 3_1_33]
          Length = 200

 Score = 64.8 bits (156), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 21/143 (14%), Positives = 54/143 (37%), Gaps = 7/143 (4%)

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
            I  +     G      +TY       ++ R   + N     +    ++    T  Y  +
Sbjct: 51  NIGNIPVYGSGGIINYIDTYIYDKESVLIPRKGSIGNLFYVDKPFWTVD----TIFYTVI 106

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
               +   Y+ + +   +L K+     +G   SL    + ++ + +PP++EQ  I ++++
Sbjct: 107 DKDIVIPKYVYYYLSKVNLEKL---NTAGGVPSLTQTVLNKILIPLPPLEEQQRIVDILD 163

Query: 384 VETARIDVLVEKIEQSIVLLKER 406
                 + + E +   I   +++
Sbjct: 164 RFDKLCNDISEGLPAEIEARQKQ 186



 Score = 43.6 bits (101), Expect = 0.053,   Method: Composition-based stats.
 Identities = 20/154 (12%), Positives = 44/154 (28%), Gaps = 17/154 (11%)

Query: 30  IKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYG 89
           +    K+  G   +                    +P  G+    +     I+ K  +L  
Sbjct: 35  LGEILKIKNGSDYKK--------------FNIGNIPVYGSGGIINYIDTYIYDKESVLIP 80

Query: 90  KLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHA 149
           + G       +        T F  +  K     ++  ++        +E +     +   
Sbjct: 81  RKGSIGNLFYVDKPFWTVDTIFYTVIDK---DIVIPKYVYYYLSKVNLEKLNTAGGVPSL 137

Query: 150 DWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
               +  I +P+PPL EQ  I + +       + 
Sbjct: 138 TQTVLNKILIPLPPLEEQQRIVDILDRFDKLCND 171


>gi|302878447|ref|YP_003847011.1| restriction modification system DNA specificity domain [Gallionella
           capsiferriformans ES-2]
 gi|302581236|gb|ADL55247.1| restriction modification system DNA specificity domain [Gallionella
           capsiferriformans ES-2]
          Length = 410

 Score = 64.8 bits (156), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 48/406 (11%), Positives = 120/406 (29%), Gaps = 36/406 (8%)

Query: 30  IKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG----Q 85
           +           +    +   I + + +   G+ +    + R   ++ +S   K      
Sbjct: 8   LSDLVTYLNRGVAPKYVETGGIRVYNQKCIRGQRVSDGPSRRTQASARLSQVDKELRLFD 67

Query: 86  ILYGKLG----PYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
           +L    G      + +    D      +   +++P     + L    +       IE + 
Sbjct: 68  VLINSTGVGTLGRVGQIFGLDEPATADSHLTIVRPDPQKVDPLFLGYVLKAYEPEIERLG 127

Query: 142 EGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
           EG+T  +      +G + +P+     Q      +      ID  +    R  E +    +
Sbjct: 128 EGSTGQTELSRAKLGELEIPLISRDAQKSASAFL----YAIDKRLNLLRRISEDIDVFAR 183

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
            L       G + D                    +        L      +   N+ S+ 
Sbjct: 184 TLFREWFGAGNSEDWPTARLDQHL-------TAHRGLSYKGAGLCESGEGVPMHNLNSVY 236

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKR-----SLRSAQVMERGI 315
            G   +    +        ++   ++ PG+I+    +  ++ R     ++  +   + GI
Sbjct: 237 EGGGYKYPGIK---YYKGEFKERHVLKPGDIIVTNTEQGHEHRLIGFPAVVPSIFGDNGI 293

Query: 316 ITSAYMAVKPHGIDS---TYLAWLMRSYDLCKVFYAMGSGLRQS-LKFEDVKRLPVLVPP 371
            +     + P         ++ +L+ +  +        +G   + L    ++     +PP
Sbjct: 294 FSQHIYRIVPLDSSYLGREFIYYLLMAGHVRDQIIGSTNGSTVNMLAISGLQDSTFSLPP 353

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
                DI          +  + E+ E+    L + R   +   + G
Sbjct: 354 ----QDIVEKFTATVRPLWEMAERNEKESRDLIKLRDLLLPMLIAG 395



 Score = 41.3 bits (95), Expect = 0.34,   Method: Composition-based stats.
 Identities = 23/166 (13%), Positives = 46/166 (27%), Gaps = 16/166 (9%)

Query: 23  KHWKVVPIKRFTKLNTGRTSE------SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           + W    + +    + G + +      SG+ +    L  V  G G Y        + +  
Sbjct: 196 EDWPTARLDQHLTAHRGLSYKGAGLCESGEGVPMHNLNSVYEGGG-YKYPGIKYYKGEFK 254

Query: 77  TVSIFAKGQILYGK---------LGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW 127
              +   G I+            +G       I   +GI S     + P D      +  
Sbjct: 255 ERHVLKPGDIIVTNTEQGHEHRLIGFPAVVPSIFGDNGIFSQHIYRIVPLDSSYLGREFI 314

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
              +      + I      S  +   I  +      L  Q ++ + 
Sbjct: 315 YYLLMAGHVRDQIIGSTNGSTVNMLAISGLQDSTFSLPPQDIVEKF 360


>gi|163743542|ref|ZP_02150919.1| Restriction modification system, type I [Phaeobacter gallaeciensis
           2.10]
 gi|161383127|gb|EDQ07519.1| Restriction modification system, type I [Phaeobacter gallaeciensis
           2.10]
          Length = 415

 Score = 64.8 bits (156), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 59/420 (14%), Positives = 118/420 (28%), Gaps = 35/420 (8%)

Query: 30  IKRFTK----LNTGRT---SESGKDIIYIGLEDVESGTGKYLP-KDGNSRQSDTSTVSIF 81
           +  F +    +  G           + +I   DV  G       +  ++  S+    +I 
Sbjct: 4   LSEFCEPGSPITYGVVQPGPTDPNGVKFIRGGDVSDGKIAESELRTISAEVSNQYKRTIL 63

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICS---TQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
             G++L   +G     A++       +      +V     +  + L  +L+S      + 
Sbjct: 64  RGGELLVSLVGNPGEVALVPSHMAGLNIARQVAMVRLSNQINSKFLMYFLMSPMGRSALG 123

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
           A   G+  S  + + +  + +P    + Q  I E +      +D  I    R  E L+E 
Sbjct: 124 AQAIGSVQSVINLRDLKRVEVPNIERSTQDKIAEIL----GTLDDKIELNRRMNETLEEM 179

Query: 199 KQALV-SYIVTKGLNP-DVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
            +AL   + V  G     + MK+ GI             P  A             +   
Sbjct: 180 ARALFRDWFVEFGPTRRQMAMKEKGIATDPAAIMGHAFPPEKAATLAPLFPTKLGDDGLP 239

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS---AQVMER 313
                 ++   L            +  +   P  +            +L       V  +
Sbjct: 240 EGWETRDLRSALTLNYGKSLT---KKARRPGPFNVFGSGGISGTHDTALAKGPSIIVGRK 296

Query: 314 GIITSAYMAVKPHGIDSTYLA--------WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRL 365
           G + S Y   +      T           +  R  +   +           L  ++  R 
Sbjct: 297 GTVGSLYWTREDFYAIDTVFYVTSDYPMVYCHRLLETLGLETMNTDAAVPGLNRDNAYRQ 356

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGES 425
                           +   T + D      +Q    L E R   +   ++G+I L+   
Sbjct: 357 EFAFGGDALIHAYAEFVGNLTEKSDA----NQQENQTLAEMRDLLLPKLMSGEIRLKDAE 412



 Score = 39.8 bits (91), Expect = 0.90,   Method: Composition-based stats.
 Identities = 25/189 (13%), Positives = 49/189 (25%), Gaps = 20/189 (10%)

Query: 18  IGA--IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           +G   +P+ W+   ++    LN G++                   G +            
Sbjct: 233 LGDDGLPEGWETRDLRSALTLNYGKSLTKKARRP-----------GPFNVFGSGGISGTH 281

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
            T  +     I+ G+ G         +      T F V        +    +   +  T 
Sbjct: 282 DTA-LAKGPSIIVGRKGTVGSLYWTREDFYAIDTVFYVT------SDYPMVYCHRLLETL 334

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            +E +   A +   +              A      E +   T + D    E     E+ 
Sbjct: 335 GLETMNTDAAVPGLNRDNAYRQEFAFGGDALIHAYAEFVGNLTEKSDANQQENQTLAEMR 394

Query: 196 KEKKQALVS 204
                 L+S
Sbjct: 395 DLLLPKLMS 403


>gi|262383639|ref|ZP_06076775.1| type I restriction-modification system specificity determinant
           [Bacteroides sp. 2_1_33B]
 gi|262294537|gb|EEY82469.1| type I restriction-modification system specificity determinant
           [Bacteroides sp. 2_1_33B]
          Length = 388

 Score = 64.8 bits (156), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 21/162 (12%), Positives = 48/162 (29%), Gaps = 9/162 (5%)

Query: 21  IPKHWKVVPIKRFTKL-NTGRTSESGKD-------IIYIGLEDVESGTGKYLPKDGNSRQ 72
           +P+ W++  I  F K   +G T               ++   +V +       +  +   
Sbjct: 200 LPEGWRMGTIGEFCKETKSGGTPNRSNPKYWDKHHYRWLKSGEVANNIIFDTEEYISREG 259

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
              S+  I   G ++    G    +    D D   +     +       E    +   + 
Sbjct: 260 LKGSSAKIIPSGTVVMAMYGATASQVTYLDCDTTTNQACCNMLTATFE-EAAYLYFHCLY 318

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKI 174
             + I+ +  G    +   + I   P+ I        +  K+
Sbjct: 319 QQENIKRLANGGAQENLSQELICAQPILICENTHIYDVFSKL 360



 Score = 62.9 bits (151), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 44/319 (13%), Positives = 94/319 (29%), Gaps = 24/319 (7%)

Query: 62  KYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLR-----KAIIADFDGICSTQFLVLQP 116
           +++    N+  +D ST  I    Q  Y  +               +   I S  ++V + 
Sbjct: 42  QFITSIANTTGTDMSTYKIVQPRQFGYVPVTSRNGDKITIALYEGESPCIISQAYVVFEV 101

Query: 117 KDV---LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
            D    LPE L  W    +  +       G+     +W  +    +P+  + EQ  I   
Sbjct: 102 IDETELLPEYLMMWFRRPEFDRYARFKSHGSAREVFEWSEMCEFLLPVSSIDEQRKIVA- 160

Query: 174 IIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWE 233
              E   I+  I    R I  ++E  QA+   +    ++ +   +   +  +G      +
Sbjct: 161 ---EYQAIERRIENNRRLIATIEETAQAIYRKMFVDDIDVENLPEGWRMGTIGEFCKETK 217

Query: 234 VKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY---ETYQIVDPGE 290
                +  T          + +   L  G +   +                + +I+  G 
Sbjct: 218 -----SGGTPNRSNPKYWDKHHYRWLKSGEVANNIIFDTEEYISREGLKGSSAKIIPSGT 272

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG 350
           +V         + +             +   A            +    Y    +     
Sbjct: 273 VVMAMYGATASQVTYLDCDTTTNQACCNMLTATFEE----AAYLYFHCLYQQENIKRLAN 328

Query: 351 SGLRQSLKFEDVKRLPVLV 369
            G +++L  E +   P+L+
Sbjct: 329 GGAQENLSQELICAQPILI 347



 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 27/150 (18%), Positives = 52/150 (34%), Gaps = 9/150 (6%)

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRF-IDLQNDKRSLRSAQVMERGIITSAYMAV- 323
           ++  T           TY+IV P +  +        DK ++   +     II+ AY+   
Sbjct: 41  KQFITSIANTTGTDMSTYKIVQPRQFGYVPVTSRNGDKITIALYEGESPCIISQAYVVFE 100

Query: 324 --KPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITN 380
                 +   YL    R  +  +       G  R+  ++ ++    + V  I EQ  I  
Sbjct: 101 VIDETELLPEYLMMWFRRPEFDRYARFKSHGSAREVFEWSEMCEFLLPVSSIDEQRKIV- 159

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSF 410
               E   I+  +E   + I  ++E   + 
Sbjct: 160 ---AEYQAIERRIENNRRLIATIEETAQAI 186


>gi|171057996|ref|YP_001790345.1| restriction modification system DNA specificity subunit [Leptothrix
           cholodnii SP-6]
 gi|170775441|gb|ACB33580.1| restriction modification system DNA specificity domain [Leptothrix
           cholodnii SP-6]
          Length = 578

 Score = 64.8 bits (156), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 29/199 (14%), Positives = 61/199 (30%), Gaps = 16/199 (8%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
           S  E     P  WE+     LV       +     +     +  +++          PE+
Sbjct: 92  SDEEISFDAPRGWELVRLGDLVNASEAGWSPSCAGSPRRAGHWGVLKVSAVSWGKFDPEA 151

Query: 280 YET---------YQIVDPGEIVFRFIDLQNDK-RSLRSAQVMERGIITSAYMAVKPHGID 329
            +             V  G+ +    + +    RS+    V  R +++   + +      
Sbjct: 152 NKELPADLQPKPEYEVRSGDFLLSRANTEELVARSVVVGAVDPRLMLSDKIIRLDVANPI 211

Query: 330 STYLAWLMRSYD-LCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
                    +       + A  SG     +++  E V  LP+ +PP+ EQ  I   +   
Sbjct: 212 HRGFLNFCNNEKSARTHYAANASGTSSSMKNVSREVVLNLPIALPPLAEQSRIVTRVEEL 271

Query: 386 TARIDVLVEKIEQSIVLLK 404
               D L    ++ +   +
Sbjct: 272 MRLCDALES--QRQLETAQ 288



 Score = 49.0 bits (115), Expect = 0.001,   Method: Composition-based stats.
 Identities = 30/187 (16%), Positives = 69/187 (36%), Gaps = 9/187 (4%)

Query: 220 SGIEWVGLVPDHWEVKPF---FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK 276
           S  + +  +P+ W V        LV+  +    +  E     + Y     +   ++    
Sbjct: 386 SDKDGLDDLPEGWVVVRLGAIMELVSGQHLGPAEYAEGLDSGIPYLTGPAEFGPQSPSPT 445

Query: 277 PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWL 336
             + E   I   G+I+     ++       +        I+   MAV+  G++  +L  +
Sbjct: 446 RSTVERRAIAIWGDILIT---VKGSGVGKLNVVAHSEIAISRQLMAVRSIGVNDAFLFIV 502

Query: 337 MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK- 395
           +++ ++     ++G      +  EDV    + +PP+ EQ  I   +    +    L ++ 
Sbjct: 503 LKTLEIKFQMQSVGI-AIPGIGREDVSHSILGLPPLAEQARIVARVTQLRSHCADLRQRL 561

Query: 396 -IEQSIV 401
              Q+I 
Sbjct: 562 SARQAIQ 568



 Score = 45.2 bits (105), Expect = 0.018,   Method: Composition-based stats.
 Identities = 34/193 (17%), Positives = 74/193 (38%), Gaps = 16/193 (8%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVESGTGKYLPKDGNS 70
           +  +P+ W VV +    +L +G+              I Y+       G  ++ P+  + 
Sbjct: 391 LDDLPEGWVVVRLGAIMELVSGQHLGPAEYAEGLDSGIPYLT------GPAEFGPQSPSP 444

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKA-IIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
            +S     +I   G IL    G  + K  ++A  +   S Q + ++   V    L   L 
Sbjct: 445 TRSTVERRAIAIWGDILITVKGSGVGKLNVVAHSEIAISRQLMAVRSIGVNDAFLFIVLK 504

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
           ++++  +++++  G  +     + + +  + +PPLAEQ  I  ++         L     
Sbjct: 505 TLEIKFQMQSV--GIAIPGIGREDVSHSILGLPPLAEQARIVARVTQLRSHCADLRQRLS 562

Query: 190 RFIELLKEKKQAL 202
               +     +AL
Sbjct: 563 ARQAIQSHLAEAL 575



 Score = 39.0 bits (89), Expect = 1.4,   Method: Composition-based stats.
 Identities = 25/191 (13%), Positives = 54/191 (28%), Gaps = 15/191 (7%)

Query: 22  PKHWKVVPIKRFTK-LNTG------RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           P+ W++V +         G       +         + +  V  G               
Sbjct: 101 PRGWELVRLGDLVNASEAGWSPSCAGSPRRAGHWGVLKVSAVSWGKFDPEANKELPADLQ 160

Query: 75  TSTVSIFAKGQILYGKLG-----PYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
                    G  L  +                D   + S + + L   + +      +  
Sbjct: 161 PKPEYEVRSGDFLLSRANTEELVARSVVVGAVDPRLMLSDKIIRLDVANPIHRGFLNFCN 220

Query: 130 SIDVTQRIEAIC---EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           +    +   A       ++M +   + + N+P+ +PPLAEQ  I  ++       D L +
Sbjct: 221 NEKSARTHYAANASGTSSSMKNVSREVVLNLPIALPPLAEQSRIVTRVEELMRLCDALES 280

Query: 187 ERIRFIELLKE 197
           +R        +
Sbjct: 281 QRQLETAQHAQ 291


>gi|261839285|gb|ACX99050.1| type I restriction enzyme specificity subunit [Helicobacter pylori
           52]
          Length = 390

 Score = 64.8 bits (156), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 64/362 (17%), Positives = 118/362 (32%), Gaps = 18/362 (4%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDV-ESGTGKYLPKDGNSRQSDTSTVSIFAKGQI 86
             ++ +  L    T +S +   YI  +++ ++  G    K+ N  Q    +   F K  +
Sbjct: 3   KTLQDYATLIND-TIQSNEINHYITTDNMCQNLGGIDTLKNINIPQEKVRS---FQKDDV 58

Query: 87  LYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATM 146
           L   +  Y RK   A   G CS+  LV + K +    L   L S   T    +  +G+ M
Sbjct: 59  LLSNIRLYFRKVYRAKQKGGCSSDVLVFRAKHIDSATLFAILSSQIFTDYACSGSQGSKM 118

Query: 147 SHADWKGIGNIPMPIPPLAEQVLIREKIIAE--TVRIDTLITERIRFIELLKEKKQALVS 204
              +   + +  +P        +            +I+ L+ + +  +      +   + 
Sbjct: 119 PRGNKTHMMDFKIPTINFTIAKIFNSIQNKIENNHKINELLHKILELLYEQYFVRFDFLD 178

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
                      KMK S  E   L+P+ +EVK    L+      +      +I     G I
Sbjct: 179 ENNKPYQTSGGKMKFS-KELNRLIPNDFEVKTLGELI-TWISGSQPPKSCHIYEHKEGYI 236

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS--LRSAQVMERGIITSAYMA 322
                 +N       Y TY  +     +    D+  DK          ++     +    
Sbjct: 237 ---RFIQNRDYSSNDYITYIPISKNNKICYQYDIMIDKYGEAGAVRFGLQGAYNVALSKI 293

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIK-EQF--DI 378
              +     Y+   + S  + K       +  R SL    +  L + +PPI   Q    I
Sbjct: 294 SVINQSMQEYIRSYLNSKPIKKYLSNACMASTRSSLNENHIYSLMLPIPPINLLQKYEKI 353

Query: 379 TN 380
             
Sbjct: 354 AK 355



 Score = 38.2 bits (87), Expect = 2.8,   Method: Composition-based stats.
 Identities = 24/147 (16%), Positives = 49/147 (33%), Gaps = 4/147 (2%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVE-SGTGKYLPKDGNSRQSDTSTVS 79
           IP  ++V  +       +G        I       +       Y   D  +    +    
Sbjct: 201 IPNDFEVKTLGELITWISGSQPPKSCHIYEHKEGYIRFIQNRDYSSNDYITYIPISKNNK 260

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQF-LVLQPKDVLPELLQGWLLSIDVTQRIE 138
           I  +  I+  K G     A+     G  +     +      + E ++ +L S  + + + 
Sbjct: 261 ICYQYDIMIDKYGEAG--AVRFGLQGAYNVALSKISVINQSMQEYIRSYLNSKPIKKYLS 318

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLA 165
             C  +T S  +   I ++ +PIPP+ 
Sbjct: 319 NACMASTRSSLNENHIYSLMLPIPPIN 345


>gi|257467465|ref|ZP_05631776.1| type I restriction-modification system DNA specificity subunit
           [Fusobacterium gonidiaformans ATCC 25563]
 gi|315918590|ref|ZP_07914830.1| conserved hypothetical protein [Fusobacterium gonidiaformans ATCC
           25563]
 gi|313692465|gb|EFS29300.1| conserved hypothetical protein [Fusobacterium gonidiaformans ATCC
           25563]
          Length = 205

 Score = 64.8 bits (156), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 25/194 (12%), Positives = 65/194 (33%), Gaps = 7/194 (3%)

Query: 226 GLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI 285
           G  P  W+      + T + +     +     +++ GN+I   +     +  +    Y  
Sbjct: 18  GKKPLAWKATTLGNVTTNIRKNIGDKVYPVFSAVNSGNLIFSDDYFTKQVYSKKLNKYIE 77

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV 345
           VD     +    +      +    ++  G ++  Y+         ++  +  +       
Sbjct: 78  VDTWNFAYNPARINIGSIGINEHNII--GCVSPVYVVFSVQKEYHSFFRFYFKQNFFNLH 135

Query: 346 FYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLK 404
                SG +RQ+L ++D   + V+ P      +     +         + +++     L 
Sbjct: 136 CKTKASGSVRQTLSYKDFSLIDVVYPN----NEYALKFDTLWKSFYQKILRLKAENKYLS 191

Query: 405 ERRSSFIAAAVTGQ 418
           E R S +   ++G+
Sbjct: 192 ELRDSLLPKLMSGE 205


>gi|229521081|ref|ZP_04410502.1| type I restriction enzyme EcoR124II specificity protein (S protein)
           (S.EcoR124II) [Vibrio cholerae TM 11079-80]
 gi|229341966|gb|EEO06967.1| type I restriction enzyme EcoR124II specificity protein (S protein)
           (S.EcoR124II) [Vibrio cholerae TM 11079-80]
          Length = 384

 Score = 64.8 bits (156), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 28/305 (9%), Positives = 78/305 (25%), Gaps = 13/305 (4%)

Query: 120 LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKI--IAE 177
            P ++     + +     +   + + M            +         L  + I    +
Sbjct: 72  NPVIIFDDFTTANKWVDFDFKAKSSAMKMIKSSDESKFMLKYVYYWMNTLPSDLIEGDHK 131

Query: 178 TVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPF 237
              I     + I        +K   +   + + L+    M       + L    +     
Sbjct: 132 RQWISNYCAKNIPIPCPDNPEKSLAIQAEIVRILDAFTAMTAELTAELNLRKKQYNYYR- 190

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE----SYETYQIVDPGEIVF 293
             L++    +        I  ++ G    ++              +   Y  +   E   
Sbjct: 191 DQLLSFEEGEVEWKALGKIAEINTGQKPSEILDTEAEFDYINAGTTRSGYCALSNCEGDT 250

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAY--MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
                +            +   +      +    + +      + +       +      
Sbjct: 251 VTTPSRGQGGIGFVGYQNKSFWLGPLCYKIRSIDNKVLINKYLFYILQSKNQLLLGLKKE 310

Query: 352 GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RR 407
           G   ++   D+ +L V VP + EQ  I  +++        + E +   I L ++     R
Sbjct: 311 GGVPAVNKSDLSKLEVPVPSVTEQERIVEILDKFDTLTTSIQEGLPCEIELRQKQYEYYR 370

Query: 408 SSFIA 412
              ++
Sbjct: 371 DLLLS 375


>gi|160946889|ref|ZP_02094092.1| hypothetical protein PEPMIC_00850 [Parvimonas micra ATCC 33270]
 gi|158447273|gb|EDP24268.1| hypothetical protein PEPMIC_00850 [Parvimonas micra ATCC 33270]
          Length = 186

 Score = 64.8 bits (156), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 25/178 (14%), Positives = 66/178 (37%), Gaps = 7/178 (3%)

Query: 241 VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQN 300
           + +   +  K +   +  +S  + I+ +   N  +  E Y  +++      VF       
Sbjct: 7   IYDGTHQTPKYVNIGVPFVSVQD-IKNIYGTNKYITIEEYNKFKVKPRKNDVFMTRIGDI 65

Query: 301 DKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG--SGLRQSLK 358
              ++          +T A +      + S +L +L+ S    K        +     + 
Sbjct: 66  GTCAIVKNDDDLAYYVTLALIRPSNDIVLSKFLKYLIESNQGKKELSKRILHNATPIKIN 125

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
             ++ +L   +P IK Q  I ++++   A ++ + + + + I L ++     R   ++
Sbjct: 126 LGEIGKLKFFIPSIKVQEHIVSILDKFNAIVNNISKGLPKEIELRQKQYEYYREKLLS 183



 Score = 37.5 bits (85), Expect = 4.4,   Method: Composition-based stats.
 Identities = 25/185 (13%), Positives = 64/185 (34%), Gaps = 10/185 (5%)

Query: 32  RFTKLNTGRTSESGK---DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
            F ++  G           + ++ ++D+++    Y      + +          K  +  
Sbjct: 3   DFAEIYDGTHQTPKYVNIGVPFVSVQDIKN---IYGTNKYITIEEYNKFKVKPRKNDVFM 59

Query: 89  GKLGPYLRKAIIADFD---GICSTQFLVLQPKDVLPELLQGWLLSIDVTQR-IEAICEGA 144
            ++G     AI+ + D      +   +      VL + L+  + S    +   + I   A
Sbjct: 60  TRIGDIGTCAIVKNDDDLAYYVTLALIRPSNDIVLSKFLKYLIESNQGKKELSKRILHNA 119

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
           T    +   IG +   IP +  Q  I   +      ++ +     + IEL +++ +    
Sbjct: 120 TPIKINLGEIGKLKFFIPSIKVQEHIVSILDKFNAIVNNISKGLPKEIELRQKQYEYYRE 179

Query: 205 YIVTK 209
            +++ 
Sbjct: 180 KLLSF 184


>gi|34581062|ref|ZP_00142542.1| hypothetical type I restriction enzyme S subunit [Rickettsia
           sibirica 246]
 gi|28262447|gb|EAA25951.1| hypothetical type I restriction enzyme S subunit [Rickettsia
           sibirica 246]
          Length = 216

 Score = 64.8 bits (156), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 32/217 (14%), Positives = 71/217 (32%), Gaps = 5/217 (2%)

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK--NTKLIE 253
               Q ++       ++      +   +W  +      +    + +  L  K   T ++ 
Sbjct: 1   MNSYQKIIEGAKQI-IDNWHPYFEINKQWEIVKFGDIVINKLKSNILSLEHKEYTTLIVG 59

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
                ++    I+         +   Y   Q    G I+                  M  
Sbjct: 60  KKGKMININTAIKGDIPVIASGRVSPYSHNQYNFNGNIITISSSGAYAGYIWYHNSPMWT 119

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
                 Y       + + YL ++++S          GSG +  +  +D++ L + +PP++
Sbjct: 120 SDCNVIYSIN-EKLLLTKYLYYILKSQQNIIYQKQAGSG-QPHVYLKDLEDLQIPIPPLE 177

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
           EQ  +   ++   ++ID L   I+Q    LK   +S 
Sbjct: 178 EQQKMVTELDNNQSKIDNLKNYIKQFENKLKTTLNSL 214



 Score = 47.1 bits (110), Expect = 0.005,   Method: Composition-based stats.
 Identities = 33/194 (17%), Positives = 55/194 (28%), Gaps = 9/194 (4%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESG---------TGKYLPKDGNS 70
            I K W++V               S +   Y  L   + G          G         
Sbjct: 23  EINKQWEIVKFGDIVINKLKSNILSLEHKEYTTLIVGKKGKMININTAIKGDIPVIASGR 82

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
               +     F    I     G Y       +     S   ++    + L      + + 
Sbjct: 83  VSPYSHNQYNFNGNIITISSSGAYAGYIWYHNSPMWTSDCNVIYSINEKLLLTKYLYYIL 142

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
                 I     G+   H   K + ++ +PIPPL EQ  +  ++     +ID L     +
Sbjct: 143 KSQQNIIYQKQAGSGQPHVYLKDLEDLQIPIPPLEEQQKMVTELDNNQSKIDNLKNYIKQ 202

Query: 191 FIELLKEKKQALVS 204
           F   LK    +L  
Sbjct: 203 FENKLKTTLNSLWQ 216


>gi|167851481|ref|ZP_02476989.1| restriction modification system DNA specificity domain
           [Burkholderia pseudomallei B7210]
          Length = 387

 Score = 64.8 bits (156), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 26/184 (14%), Positives = 57/184 (30%), Gaps = 12/184 (6%)

Query: 229 PDHWEVKPFFALVTELNRKNTKLIESN--ILSLSYGNIIQKLETRNMGLKPES---YETY 283
           P+ W       L  + +   ++       +  L  GNI +     +              
Sbjct: 175 PNGWAWTRLAQLGEKFDYGTSQKTGDGAGVPVLRMGNIQRGQVVFDSMKYLHDQLGELPD 234

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV---KPHGIDSTYLAWLMRSY 340
             +  G+++F   +                    ++Y+      P+  +  Y+   M S 
Sbjct: 235 LYLREGDLLFNRTNSYELVGKTGLFSAESNRFSFASYLIRVRLIPNLTNPRYVNLYMNSI 294

Query: 341 DLCKVF---YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE-KI 396
              +       +    + +     +K + V +PP+ EQ  I   +    A  D L +  +
Sbjct: 295 VCRRTQIEPQIVQQNGQANFNGSKLKHICVPLPPLAEQARIVARVEELRALCDGLRKRLV 354

Query: 397 EQSI 400
           +Q I
Sbjct: 355 DQQI 358



 Score = 58.3 bits (139), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 30/198 (15%), Positives = 65/198 (32%), Gaps = 12/198 (6%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKD---IIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +P  W    + +  +     TS+   D   +  + + +++ G   +        Q     
Sbjct: 174 LPNGWAWTRLAQLGEKFDYGTSQKTGDGAGVPVLRMGNIQRGQVVFDSMKYLHDQLGELP 233

Query: 78  VSIFAKGQILYGKLGPY------LRKAIIADFDGICSTQFLVL-QPKDVLPELLQGWLLS 130
                +G +L+ +   Y         +  ++     S    V   P    P  +  ++ S
Sbjct: 234 DLYLREGDLLFNRTNSYELVGKTGLFSAESNRFSFASYLIRVRLIPNLTNPRYVNLYMNS 293

Query: 131 IDVTQRIE--AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
           I   +      I +    ++ +   + +I +P+PPLAEQ  I  ++       D L    
Sbjct: 294 IVCRRTQIEPQIVQQNGQANFNGSKLKHICVPLPPLAEQARIVARVEELRALCDGLRKRL 353

Query: 189 IRFIELLKEKKQALVSYI 206
           +           A+V   
Sbjct: 354 VDQQICQSRFATAMVQQA 371



 Score = 50.2 bits (118), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 12/60 (20%), Positives = 24/60 (40%), Gaps = 1/60 (1%)

Query: 337 MRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
           + S  + K    +  G+ R+ L    + +  + +PP  EQ  I   ++      D L  +
Sbjct: 2   LISAHVQKTVMDVQVGVSREGLSMAKLGQFVIPLPPRSEQARIVAKVDELMRLCDELEAR 61


>gi|325911637|ref|ZP_08174045.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus iners UPII 143-D]
 gi|325476623|gb|EGC79781.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus iners UPII 143-D]
          Length = 417

 Score = 64.8 bits (156), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 53/420 (12%), Positives = 138/420 (32%), Gaps = 32/420 (7%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDV-ESGTGKYLPKDGNSRQSDTS 76
           +G I        I        G+++   K I ++  +++ +    K      + +Q+   
Sbjct: 6   LGKI-----TKKIGSGFTPKGGKSTYCSKGIAFVRSQNILDMQFSKDGLVYISDKQAAKL 60

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGI---CSTQFLVLQPKDVLPELLQGWLLSIDV 133
             +      +L    G  + +A I D   +    +    +++      +          +
Sbjct: 61  KNASIESDDVLLNITGDSVARACIMDSKYLPARVNQHVSIIRCDPNKIKSQYLLYYLQYL 120

Query: 134 TQRIEAICE-GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
            + +  +   G+T      + I  + + +P + +Q  I   + +    +   +    +  
Sbjct: 121 KKHLLKMASVGSTRKALTKEEISGLLVELPSIEKQKEITLLLES----VRHKMQINRQIN 176

Query: 193 ELLKEKKQALVSYIVTKGLNPD---VKMKDSGIEWVGLV------PDHWEVKPFFALVTE 243
           + L    + +  Y   +   PD      K SG + V         P  W V+        
Sbjct: 177 DNLAAMIKTIYEYWFIQFEFPDENGKPYKSSGGKMVWNEQLKRTIPQGWSVESIINTPLC 236

Query: 244 LNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDP--GEIVFRFIDLQND 301
              K      S    L+  ++I         +  E+ E+   + P    + F  +     
Sbjct: 237 YPIKPGIKPFSEKTYLATADVIGTSIGTGNPINYETRESRANMQPEINSVWFAKMKSSIK 296

Query: 302 KRSLRSA--QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLK 358
              L S+    +   I+++ +  ++       Y+A  + +     +   +  G  ++++ 
Sbjct: 297 HLFLSSSMHDFIHSSILSTGFQGLQCTERSFEYIASFIGNDYFETLKDQLAHGATQEAVN 356

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            +D+K + +L+P         ++ +  + +   L+         L+  R   +   + GQ
Sbjct: 357 NDDLKGVKILIPD----NRTLDLYHSASRQNYQLIGSALIENKHLESLRDWLLPMLMNGQ 412


>gi|325973648|ref|YP_004250712.1| type I restriction-modification system specificity subunit
           [Mycoplasma suis str. Illinois]
 gi|323652250|gb|ADX98332.1| type I restriction-modification system specificity subunit
           [Mycoplasma suis str. Illinois]
          Length = 246

 Score = 64.8 bits (156), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 22/191 (11%), Positives = 67/191 (35%), Gaps = 8/191 (4%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
           + ++ +G +         +    +L+ K+   +   +  +    +      R+  L   S
Sbjct: 10  TTLDKLGKISSGKPYDRKYEFNPKLHEKSIPFVG--VKEVGQSRLHILESDRHCFLNNLS 67

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
            +  ++     +          + +L  +        +    +   +  +  ++ + + S
Sbjct: 68  KKGNKLFSKNTVCISIYGSYPGESALLKSDAF--LSTSVFAFSHYENISNPKFIKYCLDS 125

Query: 340 YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
                   +  + +R++L    +  +    PP  EQ  I + ++      D L+E  E+ 
Sbjct: 126 QRKTFSSISATTTIRKALPTYQLFSIKFPCPPQGEQERIGDTLSA----YDELIENNERQ 181

Query: 400 IVLLKERRSSF 410
           I +L+  R++ 
Sbjct: 182 IEVLQGVRTAI 192



 Score = 49.0 bits (115), Expect = 0.001,   Method: Composition-based stats.
 Identities = 28/201 (13%), Positives = 65/201 (32%), Gaps = 13/201 (6%)

Query: 25  WKVVPIKRFTKLNTGRTSESG---------KDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           W++  + +  K+++G+  +           K I ++G+++V       L  D +   ++ 
Sbjct: 7   WELTTLDKLGKISSGKPYDRKYEFNPKLHEKSIPFVGVKEVGQSRLHILESDRHCFLNNL 66

Query: 76  STV--SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
           S     +F+K  +     G Y  ++ +   D   ST        + +             
Sbjct: 67  SKKGNKLFSKNTVCISIYGSYPGESALLKSDAFLSTSVFAFSHYENISNPKFIKYCLDSQ 126

Query: 134 TQRIEAIC-EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
            +   +I              + +I  P PP  EQ  I + + A    I+    +     
Sbjct: 127 RKTFSSISATTTIRKALPTYQLFSIKFPCPPQGEQERIGDTLSAYDELIENNERQIEVLQ 186

Query: 193 ELLKEKKQ-ALVSYIVTKGLN 212
            +     +   ++      L 
Sbjct: 187 GVRTAIFKEWFINLRFPNYLT 207


>gi|281424437|ref|ZP_06255350.1| type I restriction enzyme EcoR124II specificity protein [Prevotella
           oris F0302]
 gi|281401706|gb|EFB32537.1| type I restriction enzyme EcoR124II specificity protein [Prevotella
           oris F0302]
          Length = 272

 Score = 64.8 bits (156), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 34/207 (16%), Positives = 68/207 (32%), Gaps = 15/207 (7%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILS--------LSYGNIIQKLETRNMGLKPE 278
            VP+ W       + T L+R  +                 L  G I  K          +
Sbjct: 4   EVPEGWVWITLGEICTFLSRGKSPKYSEERKFPIFAQKCNLKEGGISLKQARFLDPSTID 63

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII-----TSAYMAVKPHGIDSTYL 333
            ++    +  G+I+          R+    +            +   +      I S Y+
Sbjct: 64  KWDESYKLKTGDILINSTGTGTAGRTRLFDESFLGAYPFAVPDSHVSVVRTSTKIVSEYV 123

Query: 334 AWLMRSYDLCKVF--YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
              + S            GS  ++ L    ++RLP+ +P + EQ  I + I   +  ID 
Sbjct: 124 YAYVSSLSTQLYLEENLAGSTNQKELYIGVIERLPLPLPSLAEQQRIVSEIERWSVLIDT 183

Query: 392 LVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           + +  E     +K+ ++  +  A+ G+
Sbjct: 184 IEQGKENLETSIKQAKNKILDLAIHGK 210



 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 39/262 (14%), Positives = 91/262 (34%), Gaps = 22/262 (8%)

Query: 20  AIPKHWKVVPIKRFTKL-NTGRTSESGKDIIY--------IGLEDVESGTGKYLPKDGNS 70
            +P+ W  + +       + G++ +  ++  +        +    +     ++L      
Sbjct: 4   EVPEGWVWITLGEICTFLSRGKSPKYSEERKFPIFAQKCNLKEGGISLKQARFLDPSTID 63

Query: 71  RQSDTSTVSIFAKGQILYGKLGP-YLRKAIIADFDGICSTQFLVLQPK--------DVLP 121
           +  ++        G IL    G     +  + D   + +  F V             ++ 
Sbjct: 64  KWDES---YKLKTGDILINSTGTGTAGRTRLFDESFLGAYPFAVPDSHVSVVRTSTKIVS 120

Query: 122 ELLQGWLLSIDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
           E +  ++ S+     +E    G+T         I  +P+P+P LAEQ  I  +I   +V 
Sbjct: 121 EYVYAYVSSLSTQLYLEENLAGSTNQKELYIGVIERLPLPLPSLAEQQRIVSEIERWSVL 180

Query: 181 IDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFAL 240
           IDT+   +      +K+ K  ++   +   L P     +   E +  +    E+      
Sbjct: 181 IDTIEQGKENLETSIKQAKNKILDLAIHGKLVPQDPNDEPASELLKRINPKAEIACDNEH 240

Query: 241 VTELNRKNTKLIESNILSLSYG 262
             +L +  + +   ++  L  G
Sbjct: 241 YAQLPKGWSVISMQDVCKLKDG 262


>gi|168575546|ref|ZP_02721482.1| type I restriction enzyme EcoEI specificity protein [Streptococcus
           pneumoniae MLV-016]
 gi|307067540|ref|YP_003876506.1| restriction endonuclease S subunit [Streptococcus pneumoniae AP200]
 gi|183578530|gb|EDT99058.1| type I restriction enzyme EcoEI specificity protein [Streptococcus
           pneumoniae MLV-016]
 gi|306409077|gb|ADM84504.1| Restriction endonuclease S subunit [Streptococcus pneumoniae AP200]
          Length = 195

 Score = 64.8 bits (156), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 20/161 (12%), Positives = 49/161 (30%), Gaps = 19/161 (11%)

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
            ++ +     + +   IV+ G+I+  +                   ++      V    I
Sbjct: 39  TSKGINYYSGTIDKKYIVEAGDILISWSGTLG-----VFQWCGRSAVLNQHIFKVVFDKI 93

Query: 329 DSTYLAW-LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           D     +  +    L            + L  +    + V    + EQ  I + +++ + 
Sbjct: 94  DIDKSYFKYVVEKGLQDAVKHTHGSTMKHLTKKYFDNIMVSYTNLGEQQRIASELDLLSK 153

Query: 388 RI----DVLVEK---------IEQSIVLLKERRSSFIAAAV 415
            I    + L E          I++S+  L+  + S +    
Sbjct: 154 LILRRQEQLEELNLLVKSQLAIQKSLEELETLKKSLMQEYF 194



 Score = 64.0 bits (154), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 28/169 (16%), Positives = 45/169 (26%), Gaps = 2/169 (1%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V + +      G   +  +D    G E +         K  N          I   G 
Sbjct: 2   KKVKLGQVATFINGYAFKP-QDWSSEGKEIIRIQNLTKTSKGINYYSGTIDKKYIVEAGD 60

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           IL    G  L          + +     +    +  +      +     Q       G+T
Sbjct: 61  ILISWSGT-LGVFQWCGRSAVLNQHIFKVVFDKIDIDKSYFKYVVEKGLQDAVKHTHGST 119

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           M H   K   NI +    L EQ  I  ++   +  I     +      L
Sbjct: 120 MKHLTKKYFDNIMVSYTNLGEQQRIASELDLLSKLILRRQEQLEELNLL 168


>gi|227511528|ref|ZP_03941577.1| possible type I restriction-modification system specificity subunit
           [Lactobacillus buchneri ATCC 11577]
 gi|227085173|gb|EEI20485.1| possible type I restriction-modification system specificity subunit
           [Lactobacillus buchneri ATCC 11577]
          Length = 255

 Score = 64.4 bits (155), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 39/278 (14%), Positives = 81/278 (29%), Gaps = 28/278 (10%)

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           ++   +  G+T +    K    I + IP    +     K+      +D  I      +E 
Sbjct: 2   KKANKLASGSTFTEISGKSTAKITLYIPNEHSEKEKIAKL---FFNLDNRIAANQSKLEQ 58

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
           LK  K+ L+  I     N + + K     W                +   + K       
Sbjct: 59  LKRLKKLLMQKIF----NQEWRFKGFTDPWEQRKLKQLVKSRDKDRIPIESGKRQAGKYP 114

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
              +    + ++        L               ++        D+    S  V  R 
Sbjct: 115 YYGATGIVDYVKDYIFEGTYL---------------LLAEDGANILDRTHPISYVVNGRF 159

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKE 374
            + +     +      T L +L  S +            +  L  + V ++ VL P   E
Sbjct: 160 WVNNHAHTFQSSQ--GTDLTFLAESLERIHYQRYNTGTAQPKLNAKVVGKIEVLCPTSNE 217

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           Q      +   +  I+VL+   ++ +  L+  +   + 
Sbjct: 218 QRK----LGKLSYLINVLIAANQRRLDQLQSLKKYLMQ 251



 Score = 42.9 bits (99), Expect = 0.091,   Method: Composition-based stats.
 Identities = 7/74 (9%), Positives = 20/74 (27%), Gaps = 5/74 (6%)

Query: 343 CKVFYAMGSGLRQSLKFEDVKRLPVLVPPI-KEQFDITNVINVETARIDVLVEKIEQSIV 401
            K            +  +   ++ + +P    E+  I          +D  +   +  + 
Sbjct: 2   KKANKLASGSTFTEISGKSTAKITLYIPNEHSEKEKIA----KLFFNLDNRIAANQSKLE 57

Query: 402 LLKERRSSFIAAAV 415
            LK  +   +    
Sbjct: 58  QLKRLKKLLMQKIF 71



 Score = 37.1 bits (84), Expect = 5.9,   Method: Composition-based stats.
 Identities = 29/184 (15%), Positives = 51/184 (27%), Gaps = 18/184 (9%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+   +K+             +D   I +E  +   GKY P  G +   D     IF   
Sbjct: 84  WEQRKLKQLV---------KSRDKDRIPIESGKRQAGKY-PYYGATGIVDYVKDYIFEGT 133

Query: 85  QILYGKLGP-----YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
            +L  + G          + + +     +      Q           +L         + 
Sbjct: 134 YLLLAEDGANILDRTHPISYVVNGRFWVNNHAHTFQSSQGTD---LTFLAESLERIHYQR 190

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
              G      + K +G I +  P   EQ  + +      V I        +   L K   
Sbjct: 191 YNTGTAQPKLNAKVVGKIEVLCPTSNEQRKLGKLSYLINVLIAANQRRLDQLQSLKKYLM 250

Query: 200 QALV 203
           Q + 
Sbjct: 251 QNMF 254


>gi|15893271|ref|NP_360985.1| putative type I restriction enzyme S subunit [Rickettsia conorii
           str. Malish 7]
 gi|15620492|gb|AAL03886.1| type I restriction enzyme S subunit-like protein [Rickettsia
           conorii str. Malish 7]
          Length = 216

 Score = 64.4 bits (155), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 32/217 (14%), Positives = 72/217 (33%), Gaps = 5/217 (2%)

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK--NTKLIE 253
               Q ++       ++      +   +W  +      +    + +  L  K   T ++ 
Sbjct: 1   MNSYQKIIEGAKQI-IDNWHPYFEINKQWEIVKFGDIVINKLKSNILSLEHKEYTTLIVG 59

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
                ++    I+         +   Y   Q    G I+                  M  
Sbjct: 60  KKGKMININTAIKGDIPVIASGRVSPYSHNQYNFNGNIITISSSGAYAGYIWYHNSPMWT 119

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
                 Y       + + YL ++++S         +GSG +  +  +D++ L + +PP++
Sbjct: 120 SDCNVIYSIN-EKLLLTKYLYYILKSQQNIIYQKQVGSG-QPHVYLKDLEDLQIPIPPLE 177

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
           EQ  +   ++   ++ID L   I+Q    LK   +S 
Sbjct: 178 EQQKMVTELDNNQSKIDNLKNYIKQFENKLKTTLNSL 214



 Score = 47.1 bits (110), Expect = 0.006,   Method: Composition-based stats.
 Identities = 33/194 (17%), Positives = 55/194 (28%), Gaps = 9/194 (4%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESG---------TGKYLPKDGNS 70
            I K W++V               S +   Y  L   + G          G         
Sbjct: 23  EINKQWEIVKFGDIVINKLKSNILSLEHKEYTTLIVGKKGKMININTAIKGDIPVIASGR 82

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
               +     F    I     G Y       +     S   ++    + L      + + 
Sbjct: 83  VSPYSHNQYNFNGNIITISSSGAYAGYIWYHNSPMWTSDCNVIYSINEKLLLTKYLYYIL 142

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
                 I     G+   H   K + ++ +PIPPL EQ  +  ++     +ID L     +
Sbjct: 143 KSQQNIIYQKQVGSGQPHVYLKDLEDLQIPIPPLEEQQKMVTELDNNQSKIDNLKNYIKQ 202

Query: 191 FIELLKEKKQALVS 204
           F   LK    +L  
Sbjct: 203 FENKLKTTLNSLWQ 216


>gi|256854684|ref|ZP_05560048.1| predicted protein [Enterococcus faecalis T8]
 gi|256710244|gb|EEU25288.1| predicted protein [Enterococcus faecalis T8]
          Length = 219

 Score = 64.4 bits (155), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 26/209 (12%), Positives = 65/209 (31%), Gaps = 11/209 (5%)

Query: 207 VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ 266
           V     P ++  D   EW     + +      +       K     E+ +  +   ++ +
Sbjct: 15  VKDERAPKLRFADFEGEWEQCKLEDYATYRRGSFPQPYGNKKWYDGENAMPFVQVIDVTE 74

Query: 267 KLETRNMGLKPESY---ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
           +L       +  S         V  G++V             +    ++R ++       
Sbjct: 75  QLSLVKDTKQKISKLAQSKSVFVSAGKVVVTLQGSIGRVAITQYNSYIDRTLL---VFES 131

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
                D  + A+ ++             G  +++  E +    V  P  +EQ    N + 
Sbjct: 132 YEKETDEYFWAYTIQQ-KFEIEKRKAPGGTIKTITKEALSSFEVNFPEYEEQQKNGNFL- 189

Query: 384 VETARIDVLVEKIEQSIVLLKERRSSFIA 412
                +D ++   ++ +  LK  + S++ 
Sbjct: 190 ---KNLDNILTLDQKKLDQLKSLKKSYLQ 215



 Score = 47.9 bits (112), Expect = 0.003,   Method: Composition-based stats.
 Identities = 19/189 (10%), Positives = 50/189 (26%), Gaps = 10/189 (5%)

Query: 24  HWKVVPIKRFTKLNTGRTS---------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
            W+   ++ +     G            +    + ++ + DV               +  
Sbjct: 31  EWEQCKLEDYATYRRGSFPQPYGNKKWYDGENAMPFVQVIDVTEQLSLVKDTKQKISKLA 90

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
            S     + G+++    G   R   I  ++       LV +  +   +            
Sbjct: 91  QSKSVFVSAGKVVVTLQGSIGR-VAITQYNSYIDRTLLVFESYEKETDEYFWAYTIQQKF 149

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           +  +    G T+     + + +  +  P   EQ      +      +     +  +   L
Sbjct: 150 EIEKRKAPGGTIKTITKEALSSFEVNFPEYEEQQKNGNFLKNLDNILTLDQKKLDQLKSL 209

Query: 195 LKEKKQALV 203
            K   Q + 
Sbjct: 210 KKSYLQNMF 218


>gi|160893878|ref|ZP_02074659.1| hypothetical protein CLOL250_01430 [Clostridium sp. L2-50]
 gi|156864459|gb|EDO57890.1| hypothetical protein CLOL250_01430 [Clostridium sp. L2-50]
          Length = 215

 Score = 64.4 bits (155), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 16/130 (12%), Positives = 42/130 (32%), Gaps = 4/130 (3%)

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL 353
               +                 I     A+       +++ + M S       +     +
Sbjct: 87  NDTLMSVRAPVGDLNVAHTDCCIGRGLAAIHSKSNHQSFVLYTMFSLKKQLDVFNGEGTV 146

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
             S+    +  +P+L+P       I +      A +D+ +      I  L++ R + +  
Sbjct: 147 FGSINRNSLNDMPILIPSDD----ILDEFERIVAPMDLTIRNNYDEICRLQDIRDTLLPR 202

Query: 414 AVTGQIDLRG 423
            ++G++D+  
Sbjct: 203 LMSGELDVSD 212



 Score = 42.9 bits (99), Expect = 0.10,   Method: Composition-based stats.
 Identities = 21/182 (11%), Positives = 45/182 (24%), Gaps = 2/182 (1%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
             W    +     +  G++                 G  ++  +  + R   T    +  
Sbjct: 26  SDWAEGTLSDIADITIGQSPSGSSYNEDGTGTIFFQGRAEFGFRFPSVRLYTTEPKRMAR 85

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
               L     P      +A  D         +  K    +    + +     Q      E
Sbjct: 86  SNDTLMSVRAPV-GDLNVAHTDCCIGRGLAAIHSKS-NHQSFVLYTMFSLKKQLDVFNGE 143

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           G      +   + ++P+ IP           +    + I     E  R  ++       L
Sbjct: 144 GTVFGSINRNSLNDMPILIPSDDILDEFERIVAPMDLTIRNNYDEICRLQDIRDTLLPRL 203

Query: 203 VS 204
           +S
Sbjct: 204 MS 205


>gi|321310218|ref|YP_004192547.1| type I restriction-modification system, S subunit [Mycoplasma
           haemofelis str. Langford 1]
 gi|319802062|emb|CBY92708.1| type I restriction-modification system, S subunit [Mycoplasma
           haemofelis str. Langford 1]
          Length = 207

 Score = 64.4 bits (155), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 20/160 (12%), Positives = 54/160 (33%), Gaps = 9/160 (5%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNM--GLKPESYETYQIVD 287
            H  ++    + + ++ + +    S I  +  GN+     T +       E +    I+ 
Sbjct: 14  KHLLLEEVCEICSGISFQGSFRRGSGIPVIKAGNVQDDQITEDNLDYFDSEDHPKAAIIK 73

Query: 288 PGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI--DSTYLAWLMRSYDLCKV 345
            G++V            +      +    +S      P      S YL   + S    + 
Sbjct: 74  YGDVVIVRKGSPGK---VGINLTDQEFFFSSEIFKFVPKEEVLISRYLYHFLLSQ--QEE 128

Query: 346 FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
                 G+   ++  ++ ++ + +P ++ Q  I + ++  
Sbjct: 129 IKKGARGIIPGIRKSELGKMRIPIPSLETQERIAHTLDKF 168


>gi|84624914|ref|YP_452286.1| hypothetical protein XOO_3257 [Xanthomonas oryzae pv. oryzae MAFF
           311018]
 gi|84368854|dbj|BAE70012.1| hypothetical protein [Xanthomonas oryzae pv. oryzae MAFF 311018]
          Length = 177

 Score = 64.4 bits (155), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 20/143 (13%), Positives = 51/143 (35%), Gaps = 5/143 (3%)

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID-STYLAWLMRSY 340
             + +  G+++     +    R  +   + E  ++ S    V+       TYL       
Sbjct: 30  EERKIQFGDVLVNSTGVGTLGRVAQVLSLDEPTVVDSHVTVVRAGQRLRHTYLGQWFSDK 89

Query: 341 DLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
                    GS  +  L    +  +P+L+P    Q  + +  +   + ++  +   + S 
Sbjct: 90  QSEIQTMGEGSTGQTELSRLKLAHMPILIPS---QKLLADF-DAIVSPLNSKIALADSSS 145

Query: 401 VLLKERRSSFIAAAVTGQIDLRG 423
             L   R + +   +TG++ ++ 
Sbjct: 146 RSLATLRDALLPKLITGELRVQD 168


>gi|325973248|ref|YP_004250312.1| type I restriction-modification system specificity subunit
           [Mycoplasma suis str. Illinois]
 gi|323651850|gb|ADX97932.1| type I restriction-modification system specificity subunit
           [Mycoplasma suis str. Illinois]
          Length = 227

 Score = 64.4 bits (155), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 20/142 (14%), Positives = 49/142 (34%), Gaps = 10/142 (7%)

Query: 272 NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY-MAVKPHGIDS 330
                 +     ++   G+I+F             S    +  +  + Y  +      D 
Sbjct: 55  KKFYNLKGLRQSKLFSKGKILFIRSGNS---AGDSSFLNFDSCLTQNLYSFSSFKEISDP 111

Query: 331 TYLAWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
            ++ +     +L      +      + +L    + ++    PP+  Q  I  ++    +R
Sbjct: 112 KFVKYCFNFQNLKTKLIVLSKLQTAQPNLTLTKLFQVKFPKPPLDIQQKIGEIL----SR 167

Query: 389 IDVLVEKIEQSIVLLKERRSSF 410
            D++++  E+ I LLK  + S 
Sbjct: 168 YDLILDNNEKQIQLLKNLKISL 189



 Score = 42.9 bits (99), Expect = 0.089,   Method: Composition-based stats.
 Identities = 30/189 (15%), Positives = 59/189 (31%), Gaps = 11/189 (5%)

Query: 23  KHWKVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVESGTGKYLPKDGNSRQSD- 74
           + W+ V + +   +  GR +         G +I  IG E+V        P+         
Sbjct: 3   EKWEWVTLDKLGNIEAGRQASKLDNSLFEGGNIPLIGGEEVSKSRFSVNPEVKKFYNLKG 62

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPEL---LQGWLLSI 131
                +F+KG+IL+ + G     +   +FD   +           + +       +    
Sbjct: 63  LRQSKLFSKGKILFIRSGNSAGDSSFLNFDSCLTQNLYSFSSFKEISDPKFVKYCFNFQN 122

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
             T+ I          +     +  +  P PPL  Q  I E +    + +D    +    
Sbjct: 123 LKTKLIVLSKLQTAQPNLTLTKLFQVKFPKPPLDIQQKIGEILSRYDLILDNNEKQIQLL 182

Query: 192 IELLKEKKQ 200
             L     +
Sbjct: 183 KNLKISLFK 191


>gi|317177249|dbj|BAJ55038.1| Type I restriction-modification system specificity subunit
           [Helicobacter pylori F16]
          Length = 412

 Score = 64.4 bits (155), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 54/382 (14%), Positives = 113/382 (29%), Gaps = 23/382 (6%)

Query: 43  ESGKDIIYIGLEDVESGTGK-YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIA 101
           ++ K + Y+  +++ +     +L  D    +  +      +   I+Y  + P  R   I 
Sbjct: 24  DNYKKVCYLDTDNITNNRINAFLKIDLTKEKLPSRAKRKCSLNSIIYSSVRPNQRHFGII 83

Query: 102 DF---DGICSTQFLVLQP---KDVLPELLQGWLLSIDVTQRIEAI--CEGATMSHADWKG 153
                + + ST F+V+     + + P  L  ++    +T  ++ I  C  ++        
Sbjct: 84  KEIPKNFLVSTAFIVIDIIDLEKLDPNYLYYYITQDKITHYLQRIAECGTSSYPSITPLD 143

Query: 154 IGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNP 213
             NI + +  L  Q  I   +     +I+          ++L+   +           N 
Sbjct: 144 FLNIKIKLYLLETQQKIARTLSILDQKIENNHKINELLHKILELLYEQYFVRFDFLDENN 203

Query: 214 DVKM----KDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLE 269
                   K    + +  +  +         +      +      +I     G I     
Sbjct: 204 KPYQTSGGKMKFSKELNRLIPNDFEVKTLGELITWISGSQPPKSCHIYEHKEGYI---RF 260

Query: 270 TRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP--HG 327
            +N       Y TY  +     +    D+  DK     A         +  ++     + 
Sbjct: 261 IQNRDYSSNDYITYIPISKNNKICYQYDIMIDKYGEAGAVRFGLQGSYNVALSKISVLNQ 320

Query: 328 IDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
               Y+   + S  + K       +  R SL    +  L + +PPI              
Sbjct: 321 SMQEYIRSYLNSKPIKKYLSNACMASTRSSLNENHIYSLMLPIPPINLLQK----YEKIA 376

Query: 387 ARIDVLVEKIEQSIVLLKERRS 408
             I   + K  QS   L   R 
Sbjct: 377 KNIITAIIKNNQSTQTLTALRD 398



 Score = 49.0 bits (115), Expect = 0.002,   Method: Composition-based stats.
 Identities = 21/178 (11%), Positives = 68/178 (38%), Gaps = 13/178 (7%)

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID 297
                E N K    ++++ ++ +  N   K++     L   +     +     I++  + 
Sbjct: 18  NNYTKEDNYKKVCYLDTDNITNNRINAFLKIDLTKEKLPSRAKRKCSL---NSIIYSSVR 74

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKP---HGIDSTYLAWLMRSYDLCKVFYAM---GS 351
                  +   ++ +  ++++A++ +       +D  YL + +    +      +   G+
Sbjct: 75  PNQRHFGIIK-EIPKNFLVSTAFIVIDIIDLEKLDPNYLYYYITQDKITHYLQRIAECGT 133

Query: 352 GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID---VLVEKIEQSIVLLKER 406
               S+   D   + + +  ++ Q  I   +++   +I+    + E + + + LL E+
Sbjct: 134 SSYPSITPLDFLNIKIKLYLLETQQKIARTLSILDQKIENNHKINELLHKILELLYEQ 191



 Score = 38.6 bits (88), Expect = 2.0,   Method: Composition-based stats.
 Identities = 28/191 (14%), Positives = 55/191 (28%), Gaps = 4/191 (2%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVE-SGTGKYLPKDGNSRQSDTSTVS 79
           IP  ++V  +       +G        I       +       Y   D  +    +    
Sbjct: 223 IPNDFEVKTLGELITWISGSQPPKSCHIYEHKEGYIRFIQNRDYSSNDYITYIPISKNNK 282

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQF-LVLQPKDVLPELLQGWLLSIDVTQRIE 138
           I  +  I+  K G     A+     G  +     +      + E ++ +L S  + + + 
Sbjct: 283 ICYQYDIMIDKYGEAG--AVRFGLQGSYNVALSKISVLNQSMQEYIRSYLNSKPIKKYLS 340

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
             C  +T S  +   I ++ +PIPP+       +        I            L    
Sbjct: 341 NACMASTRSSLNENHIYSLMLPIPPINLLQKYEKIAKNIITAIIKNNQSTQTLTALRDFL 400

Query: 199 KQALVSYIVTK 209
              L+   V  
Sbjct: 401 LPLLLKQQVKP 411


>gi|296314122|ref|ZP_06864063.1| type I restriction enzyme EcoR124II specificity protein [Neisseria
           polysaccharea ATCC 43768]
 gi|296839223|gb|EFH23161.1| type I restriction enzyme EcoR124II specificity protein [Neisseria
           polysaccharea ATCC 43768]
          Length = 219

 Score = 64.4 bits (155), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 20/161 (12%), Positives = 50/161 (31%), Gaps = 4/161 (2%)

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
           N          +   +           L     +  ++     I+               
Sbjct: 45  NGIYPFCRTSDVGRVHHSINFYQIQDKLNDIGIKGLRLFKKETILLPKSGASTLLNHRVM 104

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
             +        A +      + + YL + +  +D+ ++          SLK  ++ ++ +
Sbjct: 105 LTIDSYVSSHLATIYRNEKIVLAKYLFYFLSQFDVNELIPDKSY---PSLKVTEIAKIKI 161

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLK-ERR 407
            +PP++ Q  I  +++  T     L   +E  + L K + R
Sbjct: 162 PIPPLETQKKIVKILDKFTELEATLEATLEAELALRKRQYR 202



 Score = 44.8 bits (104), Expect = 0.028,   Method: Composition-based stats.
 Identities = 27/194 (13%), Positives = 58/194 (29%), Gaps = 12/194 (6%)

Query: 26  KVVPIKRFTKLNTGRTSESGKD------IIYIGLEDVES--GTGKYLPKDGNSRQSDTST 77
           +  P+    +++ G ++             +    DV     +  +              
Sbjct: 20  EWKPLGEIAEVSAGNSAPQNSAFFENGIYPFCRTSDVGRVHHSINFYQIQDKLNDIGIKG 79

Query: 78  VSIFAKGQILYGKLGPY--LRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
           + +F K  IL  K G    L   ++   D   S+    +   + +      +        
Sbjct: 80  LRLFKKETILLPKSGASTLLNHRVMLTIDSYVSSHLATIYRNEKIVLAKYLFYFLSQF-- 137

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            +  +    +        I  I +PIPPL  Q  I + +   T    TL       + L 
Sbjct: 138 DVNELIPDKSYPSLKVTEIAKIKIPIPPLETQKKIVKILDKFTELEATLEATLEAELALR 197

Query: 196 KEKKQALVSYIVTK 209
           K + +    +++  
Sbjct: 198 KRQYRYYRDFLLDF 211


>gi|14518366|ref|NP_116849.1| putative hsds of type i restriction-modification system
           [Microscilla sp. PRE1]
 gi|14485001|gb|AAK62883.1| MS161, putative HsdS of type I restriction-modification system
           [Microscilla sp. PRE1]
          Length = 227

 Score = 64.4 bits (155), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 22/172 (12%), Positives = 59/172 (34%), Gaps = 10/172 (5%)

Query: 228 VPDHWEVKPFFA-----LVTELNRKNTKLIESNILSLSYGNIIQKL-ETRNMGLKPESYE 281
           +P +W+            V  +     + ++  +  L   NI     +  N+    E + 
Sbjct: 1   MPQNWKKYKLENVSERVTVGFVGSMAQEYVDKGVPMLRSQNIKPFSLDFDNVKFISEKFH 60

Query: 282 ---TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
              +   +   ++            ++   ++ +        +    + I+  +L +   
Sbjct: 61  AKISKSSLKADDVAIVRTGTPGTACAI-PERIGQMNCSDLVIVTPNLNLINPHFLCYYFY 119

Query: 339 SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
           S     V   +   ++Q       K++ +L+P +KEQ  I +V+     +I+
Sbjct: 120 SIASHYVNSQLVGAVQQHFNVGSAKKMEILLPSLKEQDTIVDVLKSIIDKIE 171



 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 24/194 (12%), Positives = 63/194 (32%), Gaps = 9/194 (4%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQS-D 74
           P++WK   ++  ++  T     S       K +  +  ++++  +  +      S +   
Sbjct: 2   PQNWKKYKLENVSERVTVGFVGSMAQEYVDKGVPMLRSQNIKPFSLDFDNVKFISEKFHA 61

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDG--ICSTQFLVLQPKDVLPELLQGWLLSID 132
             + S      +   + G       I +  G   CS   +V    +++      +     
Sbjct: 62  KISKSSLKADDVAIVRTGTPGTACAIPERIGQMNCSDLVIVTPNLNLINPHFLCYYFYSI 121

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
            +  + +   GA   H +      + + +P L EQ  I + + +   +I+  +       
Sbjct: 122 ASHYVNSQLVGAVQQHFNVGSAKKMEILLPSLKEQDTIVDVLKSIIDKIELNLQMNRTLE 181

Query: 193 ELLKEKKQALVSYI 206
           E+     +      
Sbjct: 182 EMAMTLYKHWFVDF 195


>gi|210135042|ref|YP_002301481.1| type I R-M system S protein [Helicobacter pylori P12]
 gi|210133010|gb|ACJ08001.1| type I R-M system S protein [Helicobacter pylori P12]
          Length = 177

 Score = 64.4 bits (155), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 16/114 (14%), Positives = 41/114 (35%), Gaps = 5/114 (4%)

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ 355
           I          S   +   +  S  ++ K   +   YL   + +     +     +G   
Sbjct: 68  ISSSGVYAGYVSYWDIPVFLADSFSVSPKQKTLMPKYLFHYLTTQQ-DAIHATKSTGGIP 126

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
            +  +D++   + +PP++ Q +I  +++  T     L  ++   +  LK    +
Sbjct: 127 HVYSKDLQNFLIPIPPLEIQQEIVKILDAFTE----LNTELNTELKALKSIIKA 176



 Score = 49.8 bits (117), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 28/162 (17%), Positives = 46/162 (28%), Gaps = 12/162 (7%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           PK  +   +        G++    K + +  +  +  G       +  +R  +       
Sbjct: 13  PKGVEFRKLGEVCDFQKGKSITK-KAVTFGKVPVISGGRQPAYYHNEANRSGE------- 64

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
               I     G Y       D     +  F V  PK         +         I A  
Sbjct: 65  ---TIAISSSGVYAGYVSYWDIPVFLADSFSV-SPKQKTLMPKYLFHYLTTQQDAIHATK 120

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
               + H   K + N  +PIPPL  Q  I + + A T     
Sbjct: 121 STGGIPHVYSKDLQNFLIPIPPLEIQQEIVKILDAFTELNTE 162


>gi|295090948|emb|CBK77055.1| Restriction endonuclease S subunits [Clostridium cf.
           saccharolyticum K10]
          Length = 332

 Score = 64.4 bits (155), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 39/315 (12%), Positives = 100/315 (31%), Gaps = 21/315 (6%)

Query: 120 LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
             + L   L S+ + ++IE    G  + H        + +PIP +  Q +I +   A + 
Sbjct: 25  YNKYLLSVLRSVKIQKQIEQTSVGDVIPHFKKSFFDQLLIPIPSMEIQKIIGDYYFAFSE 84

Query: 180 RIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFA 239
           +I+             +   ++              + +    E +    + +  K    
Sbjct: 85  KIEINKKINDNLERQAQLLFKSWFVDFEPFNGTMPSEWEVVPFEKIVDFQNGYAFKS--K 142

Query: 240 LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQ 299
            +      +   +         G  I          +  S     ++  G+I+    D++
Sbjct: 143 ELLNEPSSDCYQVFKQGHIARGGGFIPDGTKSWYPKRLASKLGKFVLKKGDILMAMTDMK 202

Query: 300 NDKRSLRSAQV---MERGIITS--AYMAVKPHGIDSTYLAWLM-RSYDLCKVFYAMG-SG 352
           ++   L +  +       I+      +    +   +    +L+  S D      +   SG
Sbjct: 203 DNVAILGNTAIMPIDNEYIVNQRVGLLRTNGYKGITYPFIYLLTNSKDFLIDLRSRANSG 262

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI----DVLVEKIEQSIVLLKERRS 408
           ++ +L   ++K    ++P           +N   + I       +   +     L + R 
Sbjct: 263 VQVNLSSAEIKASRTILPS--------EKVNTAFSEITLPMFEAIISNQLENQRLAQLRD 314

Query: 409 SFIAAAVTGQIDLRG 423
           + +   ++G+ID+  
Sbjct: 315 TLLPRLMSGEIDVSD 329



 Score = 48.6 bits (114), Expect = 0.002,   Method: Composition-based stats.
 Identities = 16/102 (15%), Positives = 37/102 (36%), Gaps = 5/102 (4%)

Query: 307 SAQVMERGIITSAYMAVKPH-GIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKR 364
               ++  I             + + YL  ++RS  + K       G +    K     +
Sbjct: 2   VPDPIDFCIAQDMVALRVNDAKVYNKYLLSVLRSVKIQKQIEQTSVGDVIPHFKKSFFDQ 61

Query: 365 LPVLVPPIKEQFDITNVINVETARID---VLVEKIEQSIVLL 403
           L + +P ++ Q  I +     + +I+    + + +E+   LL
Sbjct: 62  LLIPIPSMEIQKIIGDYYFAFSEKIEINKKINDNLERQAQLL 103



 Score = 44.8 bits (104), Expect = 0.030,   Method: Composition-based stats.
 Identities = 30/207 (14%), Positives = 55/207 (26%), Gaps = 21/207 (10%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNS 70
           G +P  W+VVP ++      G   +S +                 +  G G       + 
Sbjct: 116 GTMPSEWEVVPFEKIVDFQNGYAFKSKELLNEPSSDCYQVFKQGHIARGGGFIPDGTKSW 175

Query: 71  RQS---DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGI-CSTQFLVLQ---------PK 117
                       +  KG IL          AI+ +   +    +++V Q          K
Sbjct: 176 YPKRLASKLGKFVLKKGDILMAMTDMKDNVAILGNTAIMPIDNEYIVNQRVGLLRTNGYK 235

Query: 118 DVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
            +    +     S D    + +        +     I      +P         E  +  
Sbjct: 236 GITYPFIYLLTNSKDFLIDLRSRANSGVQVNLSSAEIKASRTILPSEKVNTAFSEITLPM 295

Query: 178 TVRIDTLITERIRFIELLKEKKQALVS 204
              I +   E  R  +L       L+S
Sbjct: 296 FEAIISNQLENQRLAQLRDTLLPRLMS 322


>gi|237742976|ref|ZP_04573457.1| restriction modification system DNA specificity subunit
           [Fusobacterium sp. 7_1]
 gi|229433638|gb|EEO43850.1| restriction modification system DNA specificity subunit
           [Fusobacterium sp. 7_1]
          Length = 337

 Score = 64.4 bits (155), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 51/365 (13%), Positives = 109/365 (29%), Gaps = 35/365 (9%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           + + +K   +       ++ + +            GKY     +  Q+       ++   
Sbjct: 2   EYIKVKDILEFKKKSKIKASEGL----------KIGKYNFYTSSREQNKFLDYYEYSNEA 51

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELL---QGWLLSIDVTQRIEAICE 142
           ++ G        A I    G  S        ++   +       +   +     IE    
Sbjct: 52  LIIG----TGGNANIHHSYGKFSVSTDCFVLENKANKFFLLEYIYKYLLKNIHIIENGFR 107

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           GA + H   + + NI +PI  L +Q    +K+I     IDT I +  +    L    ++L
Sbjct: 108 GAGLKHISKEYLENIKIPIISLEKQ----KKLIKNLKNIDTFIDKNKQIKNELNFLNKSL 163

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
            + +     N     K   ++                     + K    +++        
Sbjct: 164 FTRMFGDIRNNSFNWKQVKLQ--------DVCSSIVRGPFGSSLKKEFFVKNGYKVYEQK 215

Query: 263 NIIQKLETRNMGLKPESYET---YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
           N I++          E             G+I+             +  +  E+GII  A
Sbjct: 216 NAIKQSANLGEYYIDEKKFKELQRFECKVGDIIMSCSGTVGKL--FQLPENSEKGIINQA 273

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
                 +    +   +L     +       GSG++       +K++ + +PPI+ Q    
Sbjct: 274 LCKFSLNNKIKST-YFLKYLEKVIGNIELNGSGIKNISSVSYIKKIDINLPPIELQNKFA 332

Query: 380 NVINV 384
             +  
Sbjct: 333 ERVEK 337



 Score = 43.6 bits (101), Expect = 0.054,   Method: Composition-based stats.
 Identities = 16/149 (10%), Positives = 42/149 (28%), Gaps = 8/149 (5%)

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
           G  I K        +   +  Y       ++       N   S     V     +     
Sbjct: 23  GLKIGKYNFYTSSREQNKFLDYYEYSNEALIIGTGGNANIHHSYGKFSVSTDCFVLEN-- 80

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
                 +      +L+++  + +          + +  E ++ + + +  +++Q      
Sbjct: 81  KANKFFLLEYIYKYLLKNIHIIE--NGFRGAGLKHISKEYLENIKIPIISLEKQKK---- 134

Query: 382 INVETARIDVLVEKIEQSIVLLKERRSSF 410
           +      ID  ++K +Q    L     S 
Sbjct: 135 LIKNLKNIDTFIDKNKQIKNELNFLNKSL 163


>gi|317056089|ref|YP_004104556.1| restriction modification system DNA specificity domain-containing
           protein [Ruminococcus albus 7]
 gi|315448358|gb|ADU21922.1| restriction modification system DNA specificity domain protein
           [Ruminococcus albus 7]
          Length = 167

 Score = 64.4 bits (155), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 26/158 (16%), Positives = 55/158 (34%), Gaps = 13/158 (8%)

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
             G I +    RN+     S  TY++V   + +      +              GI++ A
Sbjct: 16  GQGTIPRDESDRNISYNKASIPTYKLVKENDFIMHLRPFE-----WGLEIATREGIVSPA 70

Query: 320 YMAVKPHGIDSTYLA-WLMRSYDLC-KVFYAMGSGLR--QSLKFEDVKRLPVLVPPIKEQ 375
           Y  ++           +  RS     +    +  G+R  +S+  +D   L +  P I EQ
Sbjct: 71  YTILRNKVELVPEFYRYYFRSSSFIVEKLTGITEGIRDGRSINMDDFWLLEIPYPSIPEQ 130

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
             I   ++     I+  ++  +  +  +K  +   +  
Sbjct: 131 RKIGQFMD----LINRQIQIEKDKLQAIKLVKKGLLQQ 164



 Score = 38.6 bits (88), Expect = 1.8,   Method: Composition-based stats.
 Identities = 24/164 (14%), Positives = 55/164 (33%), Gaps = 12/164 (7%)

Query: 51  IGLEDVESGTGKY----LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGI 106
           + L  +  G G        ++ +  ++   T  +  +   +   L P+     IA  +GI
Sbjct: 8   LRLTSIIQGQGTIPRDESDRNISYNKASIPTYKLVKENDFIM-HLRPFEWGLEIATREGI 66

Query: 107 CSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSH---ADWKGIGNIPMPIPP 163
            S  + +L+ K  L      +          +       +      +      + +P P 
Sbjct: 67  VSPAYTILRNKVELVPEFYRYYFRSSSFIVEKLTGITEGIRDGRSINMDDFWLLEIPYPS 126

Query: 164 LAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
           + EQ  I + +      I+  I      ++ +K  K+ L+  + 
Sbjct: 127 IPEQRKIGQFMD----LINRQIQIEKDKLQAIKLVKKGLLQQMF 166


>gi|260587528|ref|ZP_05853441.1| type I restriction-modification system, S subunit [Blautia hansenii
           DSM 20583]
 gi|260541793|gb|EEX22362.1| type I restriction-modification system, S subunit [Blautia hansenii
           DSM 20583]
          Length = 297

 Score = 64.4 bits (155), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 29/244 (11%), Positives = 76/244 (31%), Gaps = 12/244 (4%)

Query: 175 IAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEV 234
           I    ++    T  I   +   +   +L       G      +K    E    +P  W  
Sbjct: 12  IRICEKLRYGNTGWILLCKKYSKTFYSLHYEKFADG-----SVKYIEEEIPFELPKGWAW 66

Query: 235 KPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFR 294
             F A+    + +   +  S    ++       +  +   +    ++   ++   +    
Sbjct: 67  TRFSAITINRDSERKPISSSQRTDVAKIYDYYGVSGKIDKIDKYIFDERLLLIGED---- 122

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR 354
             +L    + +      +  +   A+           YL + + +  L K         +
Sbjct: 123 GANLVTRSKPIAFFAEGQYWVNNHAHCIDATDKFILEYLCFYINAISLEKYV---TGSAQ 179

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAA 414
             +  +++  + + +PP  EQ  ++  +N     +D +         L  + +S  +  A
Sbjct: 180 PKMTQDNMNSILIPLPPYSEQKRMSQRLNEVMYTVDNIEIGKAAIRELASKAKSKILDLA 239

Query: 415 VTGQ 418
           + GQ
Sbjct: 240 IRGQ 243



 Score = 49.8 bits (117), Expect = 9e-04,   Method: Composition-based stats.
 Identities = 32/202 (15%), Positives = 63/202 (31%), Gaps = 16/202 (7%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +PK W               T     +   I      +   K     G S + D     
Sbjct: 59  ELPKGWAWTRFSAI-------TINRDSERKPISSSQ-RTDVAKIYDYYGVSGKIDKIDKY 110

Query: 80  IFAKGQILYGKLGPYL-----RKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
           IF +  +L G+ G  L       A  A+     +     +       + +  +L      
Sbjct: 111 IFDERLLLIGEDGANLVTRSKPIAFFAEGQYWVNNHAHCIDAT---DKFILEYLCFYINA 167

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             +E    G+         + +I +P+PP +EQ  + +++      +D +   +    EL
Sbjct: 168 ISLEKYVTGSAQPKMTQDNMNSILIPLPPYSEQKRMSQRLNEVMYTVDNIEIGKAAIREL 227

Query: 195 LKEKKQALVSYIVTKGLNPDVK 216
             + K  ++   +   L P   
Sbjct: 228 ASKAKSKILDLAIRGQLVPQNP 249


>gi|332673286|gb|AEE70103.1| type I R-M system S protein [Helicobacter pylori 83]
          Length = 419

 Score = 64.4 bits (155), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 61/391 (15%), Positives = 125/391 (31%), Gaps = 34/391 (8%)

Query: 43  ESGKDIIYIGLEDVESGTGK-YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIA 101
           ++ K + Y+  +++ +     +L  D    +  +      +   I+Y  + P  R   I 
Sbjct: 24  DNYKKVCYLDTDNITNNRINAFLKIDLTKEKLPSRAKRKCSLNSIIYSSVRPNQRHFGII 83

Query: 102 DF---DGICSTQFLVLQP---KDVLPELLQGWLLSIDVTQRIEAI--CEGATMSHADWKG 153
                + + ST F+V+     + + P  L  ++    +T  ++ I  C  ++        
Sbjct: 84  KEIPKNFLVSTAFIVIDIIDLEKLDPNYLYYYITQDKITHYLQRIAECGTSSYPSITPLD 143

Query: 154 IGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNP 213
             NI + + PL  Q  I   +     +I+          ++L+   +           N 
Sbjct: 144 FLNIKIKLYPLETQQKIARTLSILDQKIENNHKINELLHKILELLYEQYFVRFDFLDENN 203

Query: 214 DVKMKDSG-----IEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK- 267
                  G      E   L+P+ +EVK    LV   +  + +    +     Y  I  K 
Sbjct: 204 KPYQTSGGKMKFSKELNRLIPNDFEVKTLGELVDIFSGYSFQSNTYSNNKNDYILITNKN 263

Query: 268 --------LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
                     T N+   P+    Y +++P  I+            + S    +  I+   
Sbjct: 264 VQHSLVDLSITTNLLFLPKKLPKYCLLEPTNILITLTGHIGRCALVFS----KNCILNQR 319

Query: 320 YMAVKPHGIDSTYLAW-LMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFD 377
              V P   +     + L+R+     +         +Q+L   D  ++ +          
Sbjct: 320 VGVVLPKEKELNPFYYSLIRNPLFSAILQRKAIGSSQQNLSPIDTLKIQIPF-----NHK 374

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRS 408
           I    +     I  L+    QS   L   R 
Sbjct: 375 IIKHYSKTCENIIKLLVSNMQSTQTLTALRD 405



 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 22/178 (12%), Positives = 69/178 (38%), Gaps = 13/178 (7%)

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID 297
                E N K    ++++ ++ +  N   K++     L   +     +     I++  + 
Sbjct: 18  NNYTKEDNYKKVCYLDTDNITNNRINAFLKIDLTKEKLPSRAKRKCSL---NSIIYSSVR 74

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKP---HGIDSTYLAWLMRSYDLCKVFYAM---GS 351
                  +   ++ +  ++++A++ +       +D  YL + +    +      +   G+
Sbjct: 75  PNQRHFGIIK-EIPKNFLVSTAFIVIDIIDLEKLDPNYLYYYITQDKITHYLQRIAECGT 133

Query: 352 GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID---VLVEKIEQSIVLLKER 406
               S+   D   + + + P++ Q  I   +++   +I+    + E + + + LL E+
Sbjct: 134 SSYPSITPLDFLNIKIKLYPLETQQKIARTLSILDQKIENNHKINELLHKILELLYEQ 191



 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 21/158 (13%), Positives = 51/158 (32%), Gaps = 8/158 (5%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTS------ESGKDIIYIGLEDVESGTGKY-LPKDGNSRQS 73
           IP  ++V  +     + +G +        +  D I I  ++V+       +  +      
Sbjct: 223 IPNDFEVKTLGELVDIFSGYSFQSNTYSNNKNDYILITNKNVQHSLVDLSITTNLLFLPK 282

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV-LPELLQGWLLSID 132
                 +     IL    G   R A++   + I + +  V+ PK+  L       + +  
Sbjct: 283 KLPKYCLLEPTNILITLTGHIGRCALVFSKNCILNQRVGVVLPKEKELNPFYYSLIRNPL 342

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLI 170
            +  ++    G++  +        I +P      +   
Sbjct: 343 FSAILQRKAIGSSQQNLSPIDTLKIQIPFNHKIIKHYS 380


>gi|303267751|ref|ZP_07353556.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae BS457]
 gi|302642716|gb|EFL73058.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae BS457]
          Length = 175

 Score = 64.4 bits (155), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 29/169 (17%), Positives = 46/169 (27%), Gaps = 2/169 (1%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V + +      G   +  +D    G E +         K  N          I   G 
Sbjct: 8   KKVKLGQVATFINGYAFKP-QDWSSEGKEIIRIQNLTKTSKGINYYSGTIDKKYIVEAGD 66

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           IL    G  L          + +     +    +  +      +     Q       G+T
Sbjct: 67  ILISWSG-TLGVFQWCGRSAVLNQHIFKVVFDKIDIDKSYFKYVVEKGLQDAVKHTHGST 125

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           M H   K   NI +P   L EQ  I  ++   +  I     +      L
Sbjct: 126 MKHLTKKYFDNIIVPYTNLGEQQRIASELDLLSKLILRRQEQLEELNLL 174



 Score = 56.3 bits (134), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 15/139 (10%), Positives = 41/139 (29%), Gaps = 10/139 (7%)

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
            ++ +     + +   IV+ G+I+  +                   ++      V    I
Sbjct: 45  TSKGINYYSGTIDKKYIVEAGDILISWSGTLG-----VFQWCGRSAVLNQHIFKVVFDKI 99

Query: 329 DSTYLAW-LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           D     +  +    L            + L  +    + V    + EQ  I + ++    
Sbjct: 100 DIDKSYFKYVVEKGLQDAVKHTHGSTMKHLTKKYFDNIIVPYTNLGEQQRIASELD---- 155

Query: 388 RIDVLVEKIEQSIVLLKER 406
            +  L+ + ++ +  L   
Sbjct: 156 LLSKLILRRQEQLEELNLL 174


>gi|86150444|ref|ZP_01068669.1| dna methylase-type I restriction-modification system [Campylobacter
           jejuni subsp. jejuni CF93-6]
 gi|85839039|gb|EAQ56303.1| dna methylase-type I restriction-modification system [Campylobacter
           jejuni subsp. jejuni CF93-6]
          Length = 471

 Score = 64.4 bits (155), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 53/419 (12%), Positives = 128/419 (30%), Gaps = 53/419 (12%)

Query: 30  IKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV-SIFAKGQILY 88
           +    K N+  +     +        ++    +Y+  +    ++  S    I  K  +L 
Sbjct: 56  LGDNMKFNSRYSQPKYDE-----TSKIKVINSQYIRNEYIDYENAKSGYGKIVPKESVLI 110

Query: 89  GKLG-PYLRKAIIA--DFDGICSTQF--LVLQPKDVLPELLQGWLLSIDV--TQRIEAIC 141
              G   L +  I   DFD    +    +V++ K  L        L       Q I    
Sbjct: 111 NATGVGTLGRVFINILDFDFSIDSHINVIVVKNKTYLNPYFLAIFLQSYYGQIQIIRYYS 170

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK----- 196
             +       +      +PI P+  Q+ I+  +      ++       +  E L      
Sbjct: 171 GTSGQIEIYPRDFNYFKIPIFPMEFQLEIQNLVKDSHKALEESKELYKKAEETLYLELGL 230

Query: 197 -------EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNT 249
                      + + + +         +K+S ++   L  ++++ K         +  N 
Sbjct: 231 DPKNPLQSLLDSKIDHSIKSLNISIRTLKESFLKTGRLDSEYYQSKYEDIEKFIKSYPNG 290

Query: 250 KLIESNILSLSYGNIIQKLETRNMGL-------------------KPESYETYQIVDPGE 290
               S+I++    N   K       +                   K       +IV  G+
Sbjct: 291 YDSFSSIINNKDTNFTPKNNENYSYIELANIGNNGNISEPISDLGKNLPTRARRIVSKGD 350

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG 350
           ++   I+      +L + +  ++ ++++ +  +    ++   L  + +S    +      
Sbjct: 351 VIISSIEGSLSSCALITQE-FDKHLVSTGFFVLNSKLLNGETLLVMFKSQIFQEYLKKFP 409

Query: 351 SGLRQ-SLKFEDVKRLPVLVPPIKEQFDITNVINVET-------ARIDVLVEKIEQSIV 401
           SG    ++  E++ ++ +       Q  I   I             +D    K+E+ I 
Sbjct: 410 SGTILCAINKEELSKILIPKIDSTTQEKIAKYIQESFNLRKKSKQLLDNAKIKVEEQIQ 468



 Score = 48.6 bits (114), Expect = 0.002,   Method: Composition-based stats.
 Identities = 23/171 (13%), Positives = 61/171 (35%), Gaps = 6/171 (3%)

Query: 239 ALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ--IVDPGEIVFRFI 296
             + +  + N++  +      S   +I     RN  +  E+ ++    IV    ++    
Sbjct: 54  EYLGDNMKFNSRYSQPKYDETSKIKVINSQYIRNEYIDYENAKSGYGKIVPKESVLINAT 113

Query: 297 DLQNDKRSLRSAQVMERGIIT--SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL- 353
            +    R   +    +  I +  +  +      ++  +LA  ++SY          SG  
Sbjct: 114 GVGTLGRVFINILDFDFSIDSHINVIVVKNKTYLNPYFLAIFLQSYYGQIQIIRYYSGTS 173

Query: 354 -RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
            +  +   D     + + P++ Q +I N++      ++   E  +++   L
Sbjct: 174 GQIEIYPRDFNYFKIPIFPMEFQLEIQNLVKDSHKALEESKELYKKAEETL 224



 Score = 47.1 bits (110), Expect = 0.006,   Method: Composition-based stats.
 Identities = 27/166 (16%), Positives = 56/166 (33%), Gaps = 3/166 (1%)

Query: 41  TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAII 100
           T ++ ++  YI L ++ +      P     +   T    I +KG ++   +   L    +
Sbjct: 306 TPKNNENYSYIELANIGNNGNISEPISDLGKNLPTRARRIVSKGDVIISSIEGSLSSCAL 365

Query: 101 ADFDG---ICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNI 157
              +    + ST F VL  K +  E L     S    + ++    G  +   + + +  I
Sbjct: 366 ITQEFDKHLVSTGFFVLNSKLLNGETLLVMFKSQIFQEYLKKFPSGTILCAINKEELSKI 425

Query: 158 PMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
            +P      Q  I + I                    ++E+ Q  +
Sbjct: 426 LIPKIDSTTQEKIAKYIQESFNLRKKSKQLLDNAKIKVEEQIQGKI 471


>gi|325696151|gb|EGD38042.1| type I restriction modification DNA specificity family protein
           [Streptococcus sanguinis SK160]
          Length = 193

 Score = 64.4 bits (155), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 35/179 (19%), Positives = 63/179 (35%), Gaps = 12/179 (6%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLP---KDGNSRQS 73
             WK V +     +  G T  + K      DI +I  +D+ +   +Y+    ++      
Sbjct: 15  SDWKKVKLSELGTIVGGGTPSTKKEEYYGGDIPWITPKDLANFGERYIEHGSRNITLAGL 74

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
           + S+  I   G IL+    P      IA  +   +  F  + P   +   L  + L    
Sbjct: 75  ENSSAKILPVGSILFSSRAPI-GYIAIASNNVSTNQGFKSIIPNSDVDS-LFLYYLLKFN 132

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRIDTLITERIRF 191
             +IE +  G T        + +I + IP  + EQ  I   + A   +I+         
Sbjct: 133 KDKIENMGSGTTFKEVSASIMKSIEVFIPTEIVEQRKISAILGAIDDKIENNKKINHHL 191



 Score = 56.7 bits (135), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 16/147 (10%), Positives = 47/147 (31%), Gaps = 2/147 (1%)

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNM-GLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
           K  +    +I  ++  ++    E     G +  +    +      +    I   +     
Sbjct: 37  KKEEYYGGDIPWITPKDLANFGERYIEHGSRNITLAGLENSSAKILPVGSILFSSRAPIG 96

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRL 365
             A           + ++ P+    +   + +  ++  K+         + +    +K +
Sbjct: 97  YIAIASNNVSTNQGFKSIIPNSDVDSLFLYYLLKFNKDKIENMGSGTTFKEVSASIMKSI 156

Query: 366 PVLVPP-IKEQFDITNVINVETARIDV 391
            V +P  I EQ  I+ ++     +I+ 
Sbjct: 157 EVFIPTEIVEQRKISAILGAIDDKIEN 183


>gi|57168922|ref|ZP_00368052.1| type I restriction modification enzyme [Campylobacter coli RM2228]
 gi|57019758|gb|EAL56444.1| type I restriction modification enzyme [Campylobacter coli RM2228]
          Length = 1343

 Score = 64.4 bits (155), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 48/459 (10%), Positives = 122/459 (26%), Gaps = 78/459 (16%)

Query: 26   KVVPIKRFTKLNTGRTSESGKDI-----IYIGLEDVESGTGKYLPKDGNSRQSDTSTVS- 79
            ++V +     L  G   +    +     + I + ++                 + +    
Sbjct: 892  ELVRLGEVCDLFNGYAFKKTDYVEKSNTLLIRMGNIRPNGEFDAEHKIQYLPDNFNNKYK 951

Query: 80   --IFAKGQILYGKLGPYLRKAII---------ADFDGICSTQF--LVLQPKDVLPELLQG 126
              +   G ++           I+          + + + + +   L    + ++ + L+ 
Sbjct: 952  DYLLNDGDVIIAMTDMGNAMNILGVPTIVKNKNNRNFLLNQRVGKLFNFSEKIIVQYLKY 1011

Query: 127  WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK------------- 173
             L S +V ++ +    G    +     I +  +P+PPL  Q  I  +             
Sbjct: 1012 ALSSNEVKKQFKLQGYGGLQINLGKTQILSTKIPLPPLEIQKQIVAECEKVEEQYNTLSL 1071

Query: 174  -IIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWV------- 225
             I      I  ++ +     +  + K  +++  +       D  +  S I+         
Sbjct: 1072 SIEEYQKLIKAILQKCGIIEDDQEYKLNSILENLQKLESKLDFNLLFSFIDDFTNARQED 1131

Query: 226  ------------------------GLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
                                    G   +              +RK  +    NI  +  
Sbjct: 1132 LKKFKEFVKNIKAILGTFSTPPKQGWNKEKLNEIVSIQSGGTPDRKVKEYWNGNINWVKS 1191

Query: 262  GNIIQKLETRNMGLKPESY-----ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
                          +  +       + +++     +   +     K    + +      I
Sbjct: 1192 EVCQNCYIYDYQVKEKITELGLQKSSAKLLKKETTLIALVGATIGKIGFLTFESATNQNI 1251

Query: 317  TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
            T  Y     +               L   F  +G           +K L + +PP++ Q 
Sbjct: 1252 TGLY---PKNLKILNTKYLYYACMGLYGQFRKLGDFAMA--NSNFIKNLTISLPPLEIQE 1306

Query: 377  DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
             I   I +   +ID L       +  L++ +   +   +
Sbjct: 1307 KIVQNIELVEQQIDFL----NLKLEFLEKEKEKILQKYL 1341



 Score = 63.3 bits (152), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 29/210 (13%), Positives = 70/210 (33%), Gaps = 12/210 (5%)

Query: 212  NPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETR 271
            +     K+S  E V L         +    T+   K+  L+         G    + + +
Sbjct: 881  DELNPFKNSKFELVRLGEVCDLFNGYAFKKTDYVEKSNTLLIRMGNIRPNGEFDAEHKIQ 940

Query: 272  NMGLKPESYETYQIVDPGEIVFRFIDLQND-----KRSLRSAQVMERGIITSAY--MAVK 324
             +     +     +++ G+++    D+ N        ++   +     ++      +   
Sbjct: 941  YLPDNFNNKYKDYLLNDGDVIIAMTDMGNAMNILGVPTIVKNKNNRNFLLNQRVGKLFNF 1000

Query: 325  PHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
               I   YL + + S ++ K F   G  GL+ +L    +    + +PP++ Q  I     
Sbjct: 1001 SEKIIVQYLKYALSSNEVKKQFKLQGYGGLQINLGKTQILSTKIPLPPLEIQKQIVAECE 1060

Query: 384  VETARIDVLVEKIEQSIVLLKERRSSFIAA 413
                + + L      SI   ++   + +  
Sbjct: 1061 KVEEQYNTL----SLSIEEYQKLIKAILQK 1086



 Score = 48.6 bits (114), Expect = 0.002,   Method: Composition-based stats.
 Identities = 27/190 (14%), Positives = 65/190 (34%), Gaps = 12/190 (6%)

Query: 23   KHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKY--LPKDGNSRQSD 74
            + W    +     + +G T +         +I ++  E  ++       + +        
Sbjct: 1155 QGWNKEKLNEIVSIQSGGTPDRKVKEYWNGNINWVKSEVCQNCYIYDYQVKEKITELGLQ 1214

Query: 75   TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKD-VLPELLQGWLLSIDV 133
             S+  +  K   L   +G  + K     F+   +     L PK+  +      +   + +
Sbjct: 1215 KSSAKLLKKETTLIALVGATIGKIGFLTFESATNQNITGLYPKNLKILNTKYLYYACMGL 1274

Query: 134  TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
              +   + +    + A+   I N+ + +PPL  Q  I + I     +ID L  +     +
Sbjct: 1275 YGQFRKLGD---FAMANSNFIKNLTISLPPLEIQEKIVQNIELVEQQIDFLNLKLEFLEK 1331

Query: 194  LLKEKKQALV 203
              ++  Q  +
Sbjct: 1332 EKEKILQKYL 1341


>gi|315609172|ref|ZP_07884134.1| type I restriction-modification system S subunit [Prevotella buccae
           ATCC 33574]
 gi|315249141|gb|EFU29168.1| type I restriction-modification system S subunit [Prevotella buccae
           ATCC 33574]
          Length = 254

 Score = 64.4 bits (155), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 28/215 (13%), Positives = 67/215 (31%), Gaps = 20/215 (9%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL-------SLSYGNIIQKLETRNMGL 275
           E    +P+ W       +   L+R  T    +  +          +  +       +   
Sbjct: 2   EIPFEIPESWCFVRLGDICNYLHRGKTPKYGNQKILPIIAQKCNHWNQLYIDRCLFSDID 61

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLR----SAQVMERGIITSAY-MAVKPHGIDS 330
               Y+  Q +  G+I+          R+           ++ +  S   +      +  
Sbjct: 62  YILKYKEEQFLQKGDIIINSTGGGTVGRTGYIDDSVFDKFDKFVADSHVTVVRSTKLVSH 121

Query: 331 TYLAWLMRSYDLCKVFYA--MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
            Y+   + S  +         GS  +  L+   +    V +PP++EQ  +   +      
Sbjct: 122 RYIYLYLLSPYIQIGIEERCTGSTNQIELRTTTISDYLVPIPPVEEQKRLVKKVESML-P 180

Query: 389 IDVLVEKIEQSIVLLKE-----RRSSFIAAAVTGQ 418
           I    +K++ ++  L        + S +  A+ G+
Sbjct: 181 IVTRYQKLQSNLEHLNSTLFPLIKKSILQEAIQGK 215



 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 39/216 (18%), Positives = 70/216 (32%), Gaps = 19/216 (8%)

Query: 20  AIPKHWKVVPIKRFTK-LNTGRTSE-SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
            IP+ W  V +      L+ G+T +   + I+ I  +        Y+ +   S       
Sbjct: 6   EIPESWCFVRLGDICNYLHRGKTPKYGNQKILPIIAQKCNHWNQLYIDRCLFSDIDYILK 65

Query: 78  VS---IFAKGQILYGKLGPYLRKAIIADFDGIC---------STQFLVLQPKDVLPELLQ 125
                   KG I+    G           D +          S   +V   K V    + 
Sbjct: 66  YKEEQFLQKGDIIINSTGGGTVGRTGYIDDSVFDKFDKFVADSHVTVVRSTKLVSHRYIY 125

Query: 126 GWLLSIDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
            +LLS  +   IE  C G+T         I +  +PIPP+ EQ  + +K+ +    +   
Sbjct: 126 LYLLSPYIQIGIEERCTGSTNQIELRTTTISDYLVPIPPVEEQKRLVKKVESMLPIVTRY 185

Query: 185 ITERIRFIELLKEKK----QALVSYIVTKGLNPDVK 216
              +     L         ++++   +   L P   
Sbjct: 186 QKLQSNLEHLNSTLFPLIKKSILQEAIQGKLVPQDP 221


>gi|317012656|gb|ADU83264.1| type I restriction-modification methylase [Helicobacter pylori
           Lithuania75]
          Length = 235

 Score = 64.4 bits (155), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 18/144 (12%), Positives = 42/144 (29%), Gaps = 6/144 (4%)

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
             +    N G+    Y      D  +I+              +    +       Y    
Sbjct: 41  YGEYPVMNGGIHASGYWNEYNTDYPKIIISQGGAS---AGYVNYMTSKFWAGAHCYAIEL 97

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
                +    +         +  +       +L   D++ L + +PP++ Q +I  +++ 
Sbjct: 98  NSEKLNYKFLYYFLKNSQTILMKSQFGAGIPALNKADIETLTIPIPPLEIQQEIVKILDA 157

Query: 385 ETARIDVLVEKIEQSIVLLKERRS 408
            T     L  ++      LK R+ 
Sbjct: 158 FTELNTELNTELNTE---LKARKK 178



 Score = 50.2 bits (118), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 26/188 (13%), Positives = 54/188 (28%), Gaps = 10/188 (5%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           PK  +   +     +  G+       + Y     +  G   +     N   +D       
Sbjct: 13  PKGVEFRKLGEVINIFKGKQLNKELLLDYGEYPVMNGGI--HASGYWNEYNTDYPK---- 66

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
               I+  + G                     ++           +    +    +    
Sbjct: 67  ----IIISQGGASAGYVNYMTSKFWAGAHCYAIELNSEKLNYKFLYYFLKNSQTILMKSQ 122

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            GA +   +   I  + +PIPPL  Q  I + + A T     L TE    ++  K++ Q 
Sbjct: 123 FGAGIPALNKADIETLTIPIPPLEIQQEIVKILDAFTELNTELNTELNTELKARKKQYQY 182

Query: 202 LVSYIVTK 209
             + ++  
Sbjct: 183 YQNMLLDF 190


>gi|268599119|ref|ZP_06133286.1| restriction endonuclease S [Neisseria gonorrhoeae MS11]
 gi|268601470|ref|ZP_06135637.1| restriction endonuclease S [Neisseria gonorrhoeae PID18]
 gi|268684425|ref|ZP_06151287.1| restriction endonuclease S [Neisseria gonorrhoeae SK-92-679]
 gi|268583250|gb|EEZ47926.1| restriction endonuclease S [Neisseria gonorrhoeae MS11]
 gi|268585601|gb|EEZ50277.1| restriction endonuclease S [Neisseria gonorrhoeae PID18]
 gi|268624709|gb|EEZ57109.1| restriction endonuclease S [Neisseria gonorrhoeae SK-92-679]
          Length = 375

 Score = 64.0 bits (154), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 56/376 (14%), Positives = 118/376 (31%), Gaps = 34/376 (9%)

Query: 62  KYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRK-------AIIADFDGICSTQFLVL 114
           ++  +         +  + F  G  L  K+ P L          +        ST+F+VL
Sbjct: 12  EFQRQITGYEIKAFNGGAKFRNGDTLLAKITPCLENGKTAFVDILDDGEVAFGSTEFIVL 71

Query: 115 QPKD-VLPELLQGWLLSIDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIRE 172
           + K+   PE L  + +S D  +R     EG +     +   +  + +PIP    Q  I  
Sbjct: 72  RAKNETNPEFLYYFAISPDFRKRAIECMEGTSGRQRVNENALKTLELPIPEPQIQQSIAA 131

Query: 173 KIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPD---VKMKDSGIEWVGLVP 229
            +      +D  I    +    L+E  + L  Y   +   PD      K SG + V    
Sbjct: 132 VL----SALDKKIALNKQINARLEEMAKTLYDYWFVQFDFPDANGKPYKSSGGDMVFDET 187

Query: 230 DHWEVKPFFALV--TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVD 287
              E+   +  +       K     +     +        ++     +   + +   I++
Sbjct: 188 LKREIPKGWGSIELQSCLAKIPNTTKILNKDIKDFGKYPVVDQSQDFICGFTNDEKSILN 247

Query: 288 PGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY 347
           P +    F D     R ++              + +  +     YL + +          
Sbjct: 248 PQDAHIIFGD---HTRIVKLVNFQYARGADGTQVILSNNERMPNYLFYQI-----INQID 299

Query: 348 AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI-DVLVEKIEQSIVLLKER 406
               G  +    + +K   +++P          + N    ++ + L +        L + 
Sbjct: 300 LSSYGYARHF--KFLKEFKIILPSKDISQKYNEIANTFFVKVRNNLKQNH-----HLTQL 352

Query: 407 RSSFIAAAVTGQIDLR 422
           R   +   + GQ+ +R
Sbjct: 353 RDFLLPMLMNGQVSVR 368



 Score = 62.9 bits (151), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 22/153 (14%), Positives = 57/153 (37%), Gaps = 10/153 (6%)

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII----TSA 319
           ++++ + +  G + +++        G+ +   I    +        +++ G +    T  
Sbjct: 9   MLKEFQRQITGYEIKAFNGGAKFRNGDTLLAKITPCLENGKTAFVDILDDGEVAFGSTEF 68

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFY--AMGSGLRQSLKFEDVKRLPVLVPPIKEQFD 377
            +    +  +  +L +   S D  K       G+  RQ +    +K L + +P  + Q  
Sbjct: 69  IVLRAKNETNPEFLYYFAISPDFRKRAIECMEGTSGRQRVNENALKTLELPIPEPQIQQS 128

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
           I  V++     +D  +   +Q    L+E   + 
Sbjct: 129 IAAVLSA----LDKKIALNKQINARLEEMAKTL 157


>gi|312875148|ref|ZP_07735162.1| conserved hypothetical protein [Lactobacillus iners LEAF 2053A-b]
 gi|325913058|ref|ZP_08175430.1| hypothetical protein HMPREF0523_0355 [Lactobacillus iners UPII
           60-B]
 gi|311089326|gb|EFQ47756.1| conserved hypothetical protein [Lactobacillus iners LEAF 2053A-b]
 gi|325477640|gb|EGC80780.1| hypothetical protein HMPREF0523_0355 [Lactobacillus iners UPII
           60-B]
          Length = 227

 Score = 64.0 bits (154), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 27/208 (12%), Positives = 68/208 (32%), Gaps = 16/208 (7%)

Query: 226 GLVPDHWEVKPFFALVTELNRKNTK------LIESNILSLSYGNIIQKLETRNMGLKPES 279
           G+ P   +  P   L   + +  T          + I  +   +I+      +       
Sbjct: 19  GIQPSEMQFIPLQELCKVVTKGTTPTTLGKSFTSTGINFIKAESILDNHSIDSSKFAFID 78

Query: 280 YE-----TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
            E        ++   +IVF           + ++ +        A +      +   YL 
Sbjct: 79  EETNALLKRSVIKANDIVFTIAGTLGRFAMVDNSVLPANTNQAVAIIRPDETKVTPAYLY 138

Query: 335 WLMRSYDLCKVFYA-MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
                    + +   +   ++ +L    +K LP+ V  +K      N  +   + +  L+
Sbjct: 139 SFFIGNWHNEYYSKRIQQAVQANLSLTTIKSLPIAV--LK--NTTMNNYDKLVSPLFALM 194

Query: 394 EKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           +  E+    L + R + +   ++G++D+
Sbjct: 195 KSNEEENRRLSKLRDTLLPRLMSGELDV 222



 Score = 45.6 bits (106), Expect = 0.016,   Method: Composition-based stats.
 Identities = 23/200 (11%), Positives = 57/200 (28%), Gaps = 9/200 (4%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           P   + +P++   K+ T  T+ +          I +I  E +         K     +  
Sbjct: 22  PSEMQFIPLQELCKVVTKGTTPTTLGKSFTSTGINFIKAESILDNHSIDSSKFAFIDEET 81

Query: 75  TS--TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
            +    S+     I++   G   R A++ +     +T   V   +    ++   +L S  
Sbjct: 82  NALLKRSVIKANDIVFTIAGTLGRFAMVDNSVLPANTNQAVAIIRPDETKVTPAYLYSFF 141

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           +                           +P    +             +  L+       
Sbjct: 142 IGNWHNEYYSKRIQQAVQANLSLTTIKSLPIAVLKNTTMNNYDKLVSPLFALMKSNEEEN 201

Query: 193 ELLKEKKQALVSYIVTKGLN 212
             L + +  L+  +++  L+
Sbjct: 202 RRLSKLRDTLLPRLMSGELD 221


>gi|303269976|ref|ZP_07355710.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae BS458]
 gi|302640493|gb|EFL70906.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae BS458]
          Length = 197

 Score = 64.0 bits (154), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 30/178 (16%), Positives = 50/178 (28%), Gaps = 2/178 (1%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V + +      G   +  +D    G E +         K  N          I   G 
Sbjct: 8   KKVKLGQVATFINGYAFKP-QDWSSEGKEIIRIQNLTKTSKGINYYSGTIDKKYIVEAGD 66

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           IL    G  L          + +     +    +  +      +     Q       G+T
Sbjct: 67  ILISWSG-TLGVFQWCGRSAVLNQHIFKVVFDKIDIDKSYFKYVVEKGLQDAVKHTHGST 125

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           M H   K   NI +P   L EQ  I  ++   +  I     +      L+K +    +
Sbjct: 126 MKHLTKKYFDNIIVPYTNLGEQQRIASELDLLSKLILRRQEQLEELNLLVKSQFACEI 183



 Score = 55.6 bits (132), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 16/142 (11%), Positives = 42/142 (29%), Gaps = 10/142 (7%)

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
            ++ +     + +   IV+ G+I+  +                   ++      V    I
Sbjct: 45  TSKGINYYSGTIDKKYIVEAGDILISWSGTLG-----VFQWCGRSAVLNQHIFKVVFDKI 99

Query: 329 DSTYLAW-LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           D     +  +    L            + L  +    + V    + EQ  I + ++    
Sbjct: 100 DIDKSYFKYVVEKGLQDAVKHTHGSTMKHLTKKYFDNIIVPYTNLGEQQRIASELD---- 155

Query: 388 RIDVLVEKIEQSIVLLKERRSS 409
            +  L+ + ++ +  L     S
Sbjct: 156 LLSKLILRRQEQLEELNLLVKS 177


>gi|298253898|ref|ZP_06977485.1| restriction endonuclease S subunit [Gardnerella vaginalis 5-1]
 gi|297532041|gb|EFH71016.1| restriction endonuclease S subunit [Gardnerella vaginalis 5-1]
          Length = 380

 Score = 64.0 bits (154), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 59/385 (15%), Positives = 116/385 (30%), Gaps = 52/385 (13%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYIGLED-VESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
            +    +    +            +ED +  G  +          +DTS  ++F K   +
Sbjct: 16  KLGELIEQRREKN---------CNIEDLIIRGVSREGFIKPKQIDADTSIYNVFYKKDFV 66

Query: 88  YGKLGPYLRKAIIA--DFDGICSTQF---LVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           +      L    +       ICS+ +    V +   +LPE L   +   +  +R      
Sbjct: 67  FNPARMELNSIALNLNFEKAICSSLYEVFYVTRTDVLLPEYLNLIIKRDEFARRCWFEAI 126

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           G+  ++     +    + +PPLA Q        A                          
Sbjct: 127 GSARNYFRVANLSEFYIDLPPLAIQQKYVNVYNAMVAN---------------------- 164

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
                 +GL+      D+ IE +       +       +    ++N +   +      + 
Sbjct: 165 -QKAYERGLDDLKLTCDAYIEDL----STCDWHKIGNYIKRNRKRNQEKKFTKAGVKGFN 219

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
           N    L    M L      T++I+   + V+        K+        E  I++ AY +
Sbjct: 220 N--DGLFIEPMRLFSGDISTFKIITKNDFVYNSRINSTIKKLSIVINEAEDVIVSPAYES 277

Query: 323 VKPH------GIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
                          YL     S+    +F + GS       F+D+  + + +P   EQ 
Sbjct: 278 FYIEKGKELLYPFYLYLLLQRESFARKVLFNSFGSSTIV-FGFDDLSEIEIPIPSFSEQV 336

Query: 377 DITNVINVETARIDVLVEKIEQSIV 401
            I N +         + EK++  I 
Sbjct: 337 AIAN-LYKVYKERWSINEKLKAQIK 360


>gi|254493840|ref|ZP_05107011.1| restriction endonuclease S [Neisseria gonorrhoeae 1291]
 gi|268603803|ref|ZP_06137970.1| restriction endonuclease S [Neisseria gonorrhoeae PID1]
 gi|268682271|ref|ZP_06149133.1| restriction endonuclease S [Neisseria gonorrhoeae PID332]
 gi|226512880|gb|EEH62225.1| restriction endonuclease S [Neisseria gonorrhoeae 1291]
 gi|268587934|gb|EEZ52610.1| restriction endonuclease S [Neisseria gonorrhoeae PID1]
 gi|268622555|gb|EEZ54955.1| restriction endonuclease S [Neisseria gonorrhoeae PID332]
          Length = 375

 Score = 64.0 bits (154), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 56/376 (14%), Positives = 118/376 (31%), Gaps = 34/376 (9%)

Query: 62  KYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRK-------AIIADFDGICSTQFLVL 114
           ++  +         +  + F  G  L  K+ P L          +        ST+F+VL
Sbjct: 12  EFQRQITGYEIKAFNGGAKFRNGDTLLAKITPCLENGKTAFVDILDDGEVAFGSTEFIVL 71

Query: 115 QPKD-VLPELLQGWLLSIDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIRE 172
           + K+   PE L  + +S D  +R     EG +     +   +  + +PIP    Q  I  
Sbjct: 72  RAKNETNPEFLYYFAISPDFRKRAIECMEGTSGRQRVNENALKTLELPIPEPQIQQSIAA 131

Query: 173 KIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPD---VKMKDSGIEWVGLVP 229
            +      +D  I    +    L+E  + L  Y   +   PD      K SG + V    
Sbjct: 132 VL----SALDKKIALNKQINTRLEEMAKTLYDYWFVQFDFPDANGKPYKSSGGDMVFDET 187

Query: 230 DHWEVKPFFALV--TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVD 287
              E+   +  +       K     +     +        ++     +   + +   I++
Sbjct: 188 LKREIPKGWGSIELQSCLAKIPNTTKILNKDIKDFGKYPVVDQSQDFICGFTNDEKSILN 247

Query: 288 PGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY 347
           P +    F D     R ++              + +  +     YL + +          
Sbjct: 248 PQDAHIIFGD---HTRIVKLVNFQYARGADGTQVILSNNERMPNYLFYQI-----INQID 299

Query: 348 AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI-DVLVEKIEQSIVLLKER 406
               G  +    + +K   +++P          + N    ++ + L +        L + 
Sbjct: 300 LSSYGYARHF--KFLKEFKIILPSKDISQKYNEIANTFFVKVRNNLKQNH-----HLTQL 352

Query: 407 RSSFIAAAVTGQIDLR 422
           R   +   + GQ+ +R
Sbjct: 353 RDFLLPMLMNGQVSVR 368



 Score = 62.9 bits (151), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 22/153 (14%), Positives = 57/153 (37%), Gaps = 10/153 (6%)

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII----TSA 319
           ++++ + +  G + +++        G+ +   I    +        +++ G +    T  
Sbjct: 9   MLKEFQRQITGYEIKAFNGGAKFRNGDTLLAKITPCLENGKTAFVDILDDGEVAFGSTEF 68

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFY--AMGSGLRQSLKFEDVKRLPVLVPPIKEQFD 377
            +    +  +  +L +   S D  K       G+  RQ +    +K L + +P  + Q  
Sbjct: 69  IVLRAKNETNPEFLYYFAISPDFRKRAIECMEGTSGRQRVNENALKTLELPIPEPQIQQS 128

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
           I  V++     +D  +   +Q    L+E   + 
Sbjct: 129 IAAVLSA----LDKKIALNKQINTRLEEMAKTL 157


>gi|290953273|ref|ZP_06557894.1| type I restriction-modification system, subunit S [Francisella
           tularensis subsp. holarctica URFT1]
 gi|295313479|ref|ZP_06804075.1| type I restriction-modification system, subunit S [Francisella
           tularensis subsp. holarctica URFT1]
          Length = 225

 Score = 64.0 bits (154), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 9/61 (14%), Positives = 23/61 (37%)

Query: 346 FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
              +     + +     + + + +PP+ EQ  I   ++     +D  +E  +Q+I     
Sbjct: 1   MNNLHGVGMKHITKGKFENIQIPLPPLAEQKCIVAKLDSLFENVDKAIELHQQNITNANT 60

Query: 406 R 406
            
Sbjct: 61  L 61



 Score = 58.3 bits (139), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 37/240 (15%), Positives = 70/240 (29%), Gaps = 17/240 (7%)

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
                G  M H       NI +P+PPLAEQ  I  K+ +    +D  I    + I     
Sbjct: 1   MNNLHGVGMKHITKGKFENIQIPLPPLAEQKCIVAKLDSLFENVDKAIELHQQNITNANT 60

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
              + +     K      K+    +  +               +   + +    +    +
Sbjct: 61  LMASTLDKTFKKLEGEYSKIALLDVMKI-----------SNKTLVPDDNQKYNYVGLENI 109

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
             + G +I   ET+   +K    E       G +++  +    +K        +    I 
Sbjct: 110 EGNTGRLIDFCETQGKEIKSSKVE----FKKGIVLYGKLRPYLNKVWFSEFDDVATTEIL 165

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVK--RLPVLVPPIKEQ 375
             Y              + + S  L +V           L    +K     + +PP+  Q
Sbjct: 166 PFYPIDNTRLNMIFVKYYFLSSSYLQRVMRNYSGSRIPRLTTAFLKSEEAYIPLPPLPIQ 225



 Score = 47.9 bits (112), Expect = 0.003,   Method: Composition-based stats.
 Identities = 32/125 (25%), Positives = 56/125 (44%), Gaps = 4/125 (3%)

Query: 30  IKRFTKLNTGR-TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
           +    K++      +  +   Y+GLE++E  TG+ +       +   S+   F KG +LY
Sbjct: 82  LLDVMKISNKTLVPDDNQKYNYVGLENIEGNTGRLIDFCETQGKEIKSSKVEFKKGIVLY 141

Query: 89  GKLGPYLRKAIIADFDGICSTQFLVLQPKDV---LPELLQGWLLSIDVTQRIEAICEGAT 145
           GKL PYL K   ++FD + +T+ L   P D        ++ + LS    QR+     G+ 
Sbjct: 142 GKLRPYLNKVWFSEFDDVATTEILPFYPIDNTRLNMIFVKYYFLSSSYLQRVMRNYSGSR 201

Query: 146 MSHAD 150
           +    
Sbjct: 202 IPRLT 206


>gi|257458639|ref|ZP_05623773.1| type I restriction-modification system, S subunit [Treponema
           vincentii ATCC 35580]
 gi|257443961|gb|EEV19070.1| type I restriction-modification system, S subunit [Treponema
           vincentii ATCC 35580]
          Length = 258

 Score = 64.0 bits (154), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 30/201 (14%), Positives = 61/201 (30%), Gaps = 9/201 (4%)

Query: 218 KDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKP 277
           KD   E    VP+ W       ++  +        +  I+     +    +   + G++ 
Sbjct: 14  KDIEDELPFAVPEGWAWCRLPNILISIFAGG----DRPIICEKTQSDKCNIPIYSNGIEN 69

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
                +       +    I  +               I+    +      ID  +L    
Sbjct: 70  NGLYGFTNKPVVNVSSITISARGTIGFSCIRYEPFVPIVRLITIIPFTKYIDLVFLKIAF 129

Query: 338 RSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
            +     +F          L    +K+  + +PPI EQ  I   I     +ID+L     
Sbjct: 130 DT-----LFSFSEGSSIPQLTVPTIKQFLIPLPPIAEQKRIVTAIETIFTQIDILETNKA 184

Query: 398 QSIVLLKERRSSFIAAAVTGQ 418
                +K+ +S  +  A+ G+
Sbjct: 185 DLQTAVKQAKSKILDLAIHGK 205



 Score = 44.4 bits (103), Expect = 0.032,   Method: Composition-based stats.
 Identities = 29/197 (14%), Positives = 58/197 (29%), Gaps = 10/197 (5%)

Query: 21  IPKHWKVVPIKRF-TKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           +P+ W    +      +  G      + II    +  +     Y     N+     +   
Sbjct: 24  VPEGWAWCRLPNILISIFAGG----DRPIICEKTQSDKCNIPIYSNGIENNGLYGFTNKP 79

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           +     I     G      I  +          ++     +  +               +
Sbjct: 80  VVNVSSITISARGTIGFSCIRYEPFVPIVRLITIIPFTKYIDLVFLKIAFDTLF-----S 134

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
             EG+++       I    +P+PP+AEQ  I   I     +ID L T +      +K+ K
Sbjct: 135 FSEGSSIPQLTVPTIKQFLIPLPPIAEQKRIVTAIETIFTQIDILETNKADLQTAVKQAK 194

Query: 200 QALVSYIVTKGLNPDVK 216
             ++   +   L P   
Sbjct: 195 SKILDLAIHGKLVPQDP 211


>gi|257467463|ref|ZP_05631774.1| putative type I restriction enzyme [Fusobacterium gonidiaformans
           ATCC 25563]
 gi|315918588|ref|ZP_07914828.1| type I restriction-modification system specificity subunit
           [Fusobacterium gonidiaformans ATCC 25563]
 gi|313692463|gb|EFS29298.1| type I restriction-modification system specificity subunit
           [Fusobacterium gonidiaformans ATCC 25563]
          Length = 227

 Score = 64.0 bits (154), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 17/170 (10%), Positives = 48/170 (28%), Gaps = 6/170 (3%)

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
               +    +   ++        +     ++ +  ++  GEI+   +     +  L    
Sbjct: 63  YQEPNYAYFVRNTDLKSGTFEVFVDEHSYNFLSKSVLYGGEIIISNVGDVG-RVFLCPKL 121

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVL 368
                +  +  +          YL    +      +   +  G  +      D K LP+ 
Sbjct: 122 NKPMTLGNNIILLRPEQDNLQYYLYIWFKWLYGQSLIQGIKGGSAQPKFNKTDFKNLPIY 181

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           +PP           +     +  L+ +       L   R++ +   + G+
Sbjct: 182 LPPDDLLQRF----HQSVQPMFELIAENIVENQRLSALRNTLLPKLMNGE 227



 Score = 42.1 bits (97), Expect = 0.17,   Method: Composition-based stats.
 Identities = 25/159 (15%), Positives = 55/159 (34%), Gaps = 6/159 (3%)

Query: 49  IYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIA--DFDGI 106
            ++   D++SGT +    +      +  + S+   G+I+   +G   R  +    +    
Sbjct: 70  YFVRNTDLKSGTFEVFVDEH---SYNFLSKSVLYGGEIIISNVGDVGRVFLCPKLNKPMT 126

Query: 107 CSTQFLVLQPKDVLPELL-QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLA 165
                ++L+P+    +     W   +     I+ I  G+     +     N+P+ +PP  
Sbjct: 127 LGNNIILLRPEQDNLQYYLYIWFKWLYGQSLIQGIKGGSAQPKFNKTDFKNLPIYLPPDD 186

Query: 166 EQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
                 + +      I   I E  R   L       L++
Sbjct: 187 LLQRFHQSVQPMFELIAENIVENQRLSALRNTLLPKLMN 225


>gi|239828718|ref|YP_002951341.1| N-6 DNA methylase [Geobacillus sp. WCH70]
 gi|239809011|gb|ACS26075.1| N-6 DNA methylase [Geobacillus sp. WCH70]
          Length = 629

 Score = 64.0 bits (154), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 25/155 (16%), Positives = 51/155 (32%), Gaps = 6/155 (3%)

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
            +  ++  K  S     ++  G+++         K ++         +  +         
Sbjct: 475 DDLSSIRFKRNSRIDMYLLRKGDVIVSNRGTTI-KVAVVPENEGNLILSHNFLGIRCKDD 533

Query: 328 IDSTYLAWLMRSYDLCKV-FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
           ID  YL   + S         +       ++  +D+K +PV +  + EQ  I N I    
Sbjct: 534 IDPYYLKAYLESPVGMYYLINSQVGTNILTINPKDLKEIPVKLTSLDEQRKIANEIREAV 593

Query: 387 ARIDVLVEKIEQSIV--LLKERRSSFIAAAVTGQI 419
                 + + EQ     LLK      I++    +I
Sbjct: 594 ITYKEKIRQAEQERNASLLKAYEKMGISSLF--KI 626



 Score = 46.3 bits (108), Expect = 0.008,   Method: Composition-based stats.
 Identities = 32/179 (17%), Positives = 67/179 (37%), Gaps = 11/179 (6%)

Query: 26  KVVPIKRFTK-LNTGRTSESGK------DIIYIGLEDVESGTGKYLP-KDGNSRQSDTST 77
            + P+K+ T+ +  G    S        +   + L DV+ G            +++    
Sbjct: 430 NIYPLKKLTEKIFRGMNVSSNSIEEGTGEFKLVKLSDVQDGEILLDDLSSIRFKRNSRID 489

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDG--ICSTQFLVLQPKDVLPELLQG-WLLSIDVT 134
           + +  KG ++    G  ++ A++ + +G  I S  FL ++ KD +       +L S    
Sbjct: 490 MYLLRKGDVIVSNRGTTIKVAVVPENEGNLILSHNFLGIRCKDDIDPYYLKAYLESPVGM 549

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
             +     G  +   + K +  IP+ +  L EQ  I  +I    +     I +  +   
Sbjct: 550 YYLINSQVGTNILTINPKDLKEIPVKLTSLDEQRKIANEIREAVITYKEKIRQAEQERN 608


>gi|269115097|ref|YP_003302860.1| Type I restriction enzyme specificity protein [Mycoplasma hominis]
 gi|268322722|emb|CAX37457.1| Type I restriction enzyme specificity protein [Mycoplasma hominis
           ATCC 23114]
          Length = 404

 Score = 64.0 bits (154), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 36/344 (10%), Positives = 98/344 (28%), Gaps = 10/344 (2%)

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQ-FLVLQPKDVLPELLQGWLLSID 132
                  F +  IL    G  +    I +       + +++L+    +      + L  +
Sbjct: 63  KLIDEYAFDEMAILISGNGSKVGHVNIYNGKFNAYQRTYILLKINHFVLWKYAYFYLKSN 122

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           +   I      + + +     + N  +PIP ++ Q  I E +         + +     I
Sbjct: 123 LKNYINVYKLDSGIPYITLPMLQNFVIPIPHISIQNKIVEILDKLETYTKDIQSGLPLEI 182

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           +  K++ +     ++         +  + I  +  + +       +  + E+     K  
Sbjct: 183 DQRKKQYEYYRDKLLDFKDLAGGVLSKNYILLLNELYEKIINIIEYKRINEVTINLKKET 242

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
                 L+ G        + +      Y        G  +                    
Sbjct: 243 LEKNKLLNNGKYQVINSGKEIYGTYNQYNN-----EGNAITIAARGAYAGFINYMNDKFW 297

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI 372
            G +   Y +       + Y+ + ++  +       +  G   +L   D+    + +P I
Sbjct: 298 AGGLCYPYRSKNETSFLTKYIYYWLKYNEEKISNELVAKGSIPALNKIDIDNFFIPIPHI 357

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
             Q  I  +++        +   +   I   ++     R+  + 
Sbjct: 358 SIQNKIVEILDKLETYTKDIQSGLPLEIDQRRKQYEYYRNKLLN 401


>gi|332995831|gb|AEF05886.1| type I restriction-modification enzyme, specificity subunit
           [Alteromonas sp. SN2]
          Length = 378

 Score = 64.0 bits (154), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 53/372 (14%), Positives = 122/372 (32%), Gaps = 41/372 (11%)

Query: 61  GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFD---GICSTQF--LVLQ 115
           G ++ +  +  +   + ++    G  +Y +L  +     +          S +F    L 
Sbjct: 32  GPFIRETKSGSEISAAKLNKVKAGDFIYSRLFAWQGSFGLVPEVMDGCYVSNEFPLYELD 91

Query: 116 PKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNI---PMPIPPLAEQVLIRE 172
              V+PE L  W     V + +EA C G+T    +           + +P + +Q  I +
Sbjct: 92  TSKVIPEYLVYWFGLPHVQKMVEADCSGSTPGTRNRFKEIFFERLDIELPSIEQQKSIVK 151

Query: 173 KIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHW 232
            I     +    I         +    QA++S    K +                  +  
Sbjct: 152 SIQLLEQKRSAFI----DLRSTVLADAQAMLSSAFHKII------------------EGA 189

Query: 233 EVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE-SYETYQIVDPGEI 291
             KP   +   + R+    ++     L   +  + +  +   +  E  ++    V  G++
Sbjct: 190 VYKPISEVAPIVRRQIEITVDGEYPELGARSFGKGIFHKPTLIGAELDWQKLYTVHSGDL 249

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG--IDSTYLAWLMRSYDLCKVFYAM 349
           V   I       +        R + +  Y+   P      + +LA+ + + +  +   A 
Sbjct: 250 VLSNIKAWEGAIAAAGDNDHGR-VGSHRYITCVPAEGVTTANFLAFYLLTQEGIEQVQAA 308

Query: 350 GSGLRQS---LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
             G       L  + ++++ V VP   +Q       N     ++ + +   ++   L+  
Sbjct: 309 SPGSADRNRTLAMKRLEKIKVPVPDYDKQL----WFNQLQNYVEKIKQAQSENATELEAL 364

Query: 407 RSSFIAAAVTGQ 418
             S +  A  G+
Sbjct: 365 MPSILDKAFKGE 376


>gi|325122266|gb|ADY81789.1| type I restriction-modification system methyltransferase subunit
           [Acinetobacter calcoaceticus PHEA-2]
          Length = 1313

 Score = 64.0 bits (154), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 21/99 (21%), Positives = 36/99 (36%), Gaps = 1/99 (1%)

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
           Y +Y  + PG+I+            +  A            +    + +DS YL   + S
Sbjct: 530 YNSYMNLQPGDILISRSGTIGKNAIVSEAAAGALAGQGLYVIRPDKNYLDSDYLLAYINS 589

Query: 340 YDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFD 377
                 F A   G   Q++  + V +LP+ V P+  Q  
Sbjct: 590 RACQNWFSAHARGTAIQNINRDTVLKLPIPVLPLPIQRR 628



 Score = 47.9 bits (112), Expect = 0.003,   Method: Composition-based stats.
 Identities = 25/169 (14%), Positives = 54/169 (31%), Gaps = 14/169 (8%)

Query: 30  IKRFTKLNTGRT---------SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           +   + +  GRT           + +   YI + D+  G    + +         ++   
Sbjct: 477 LSTISSIFLGRTIKAVDLTSAPHNDQAKGYIRISDLAHGKIVRMSRWLKPDA-PYNSYMN 535

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQ----FLVLQPKDVLPELLQGWLLSIDVTQR 136
              G IL  + G   + AI+++             +      +  + L  ++ S      
Sbjct: 536 LQPGDILISRSGTIGKNAIVSEAAAGALAGQGLYVIRPDKNYLDSDYLLAYINSRACQNW 595

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
             A   G  + + +   +  +P+P+ PL  Q     +       I T I
Sbjct: 596 FSAHARGTAIQNINRDTVLKLPIPVLPLPIQRRAVARYQQSGTDILTFI 644


>gi|319744168|gb|EFV96540.1| type I restriction modification DNA specificity family protein
           [Streptococcus agalactiae ATCC 13813]
          Length = 216

 Score = 64.0 bits (154), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 18/179 (10%), Positives = 48/179 (26%), Gaps = 5/179 (2%)

Query: 246 RKNTKLIESNILSLSYGN-IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
           +K       +I  LS  +  +        G    +   Y+      +    I   +    
Sbjct: 42  KKVDDYWNGDIPWLSPKDLSLNPAMFTGRGQNSITELGYKKSSAKLMPRNSILFSSRAPI 101

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKR 364
                          + ++ P         + +   +   +  +      + +    +K 
Sbjct: 102 GYITIAENDISTNQGFKSIIPKPEYPYTFVYELLKQETPSLESSASGSTFKEVSGTHLKN 161

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
             + +P       I    +     +   +   E+ I  L E R   +   ++G+I +  
Sbjct: 162 HEIRIPSHS---AIIKF-HESVKPLFKTINLNEKEIQKLIEVRDLLLPTLMSGEISVSD 216


>gi|293603339|ref|ZP_06685767.1| type I restriction-modification enzyme [Achromobacter piechaudii
           ATCC 43553]
 gi|292818249|gb|EFF77302.1| type I restriction-modification enzyme [Achromobacter piechaudii
           ATCC 43553]
          Length = 243

 Score = 64.0 bits (154), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 37/243 (15%), Positives = 86/243 (35%), Gaps = 18/243 (7%)

Query: 181 IDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFAL 240
           +D LI+E ++ +  LK  K  L+  +         K++ S      L  D W+ +    L
Sbjct: 3   LDELISEEVQKLSALKIYKNGLMQQLFPHEGEAVPKLRLSKY----LKADDWKKRKVSDL 58

Query: 241 VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL-KPESYETYQIVDPGEIVFRFIDLQ 299
           +T   +     +E+    +   +  + +  +     K    +    V+P  +V   +   
Sbjct: 59  LTRSTKPVDVEVEAAYREIGIRSHGKGIFHKGAVRGKSLGDKRVFWVEPSALVVNIVFAW 118

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHG---IDSTYLAWLMRSYDLCKVF---YAMGSGL 353
               ++      E+G+I S    +        D  ++ +   +    ++       G+G 
Sbjct: 119 EQ--AIAVTSKAEKGMIASHRFPMYKEKVGKCDVNFIKYFFLTKKGKELLGVASPGGAGR 176

Query: 354 RQSLKFEDVKRLPVLVPP-IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
            ++L  +  + L    P  ++EQ +I   +       D  +    + I  L+ +R   + 
Sbjct: 177 NKTLGQKSFESLEFFTPDCVEEQAEIARCLLSV----DETIAIQTERIDALRSQRKGLMQ 232

Query: 413 AAV 415
              
Sbjct: 233 HLF 235


>gi|269978350|gb|ACZ55909.1| putative type I restriction-modification system specificity subunit
           S [Helicobacter pylori]
          Length = 220

 Score = 64.0 bits (154), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 24/166 (14%), Positives = 49/166 (29%), Gaps = 11/166 (6%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPKDGNSRQSD 74
           PK  +   ++   ++  G T             I +  +ED+            +     
Sbjct: 13  PKGVEFKTLEEVFEIKNGYTPSKNNPEFWKNGTIPWFRMEDIRENGRVLKDSIQHITPKA 72

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP---ELLQGWLLSI 131
                +F K  I+          A++   D + + QF  L  K       ++   +    
Sbjct: 73  LKGKKLFPKNSIIISTTATIGEHALLI-VDSLANQQFTFLSKKANCDLALDMKFFFYQCF 131

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
            + +  +     +  +  D         PIPPL  Q  I + +   
Sbjct: 132 LLGEWCKKNTNVSGFASVDMTAFKKYKFPIPPLEIQQEIVKILDQF 177



 Score = 58.3 bits (139), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 19/185 (10%), Positives = 54/185 (29%), Gaps = 12/185 (6%)

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNIIQKL---ETRNMGLKPESYETYQIVDPGEIVF 293
                T             I      +I +     +     + P++ +  ++     I+ 
Sbjct: 27  IKNGYTPSKNNPEFWKNGTIPWFRMEDIRENGRVLKDSIQHITPKALKGKKLFPKNSIII 86

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-- 351
                  +   L    +  +      +++ K +   +  + +      L   +    +  
Sbjct: 87  STTATIGEHALLIVDSLANQQFT---FLSKKANCDLALDMKFFFYQCFLLGEWCKKNTNV 143

Query: 352 GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RR 407
               S+     K+    +PP++ Q +I  +++  +     L+  I   I   K+     R
Sbjct: 144 SGFASVDMTAFKKYKFPIPPLEIQQEIVKILDQFSILTTDLLAGIPAEIKARKKQYEYYR 203

Query: 408 SSFIA 412
              + 
Sbjct: 204 EKLLT 208


>gi|323494430|ref|ZP_08099539.1| type I restriction-modification enzyme, specificity subunit [Vibrio
           brasiliensis LMG 20546]
 gi|323311360|gb|EGA64515.1| type I restriction-modification enzyme, specificity subunit [Vibrio
           brasiliensis LMG 20546]
          Length = 373

 Score = 64.0 bits (154), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 49/404 (12%), Positives = 120/404 (29%), Gaps = 54/404 (13%)

Query: 29  PIKRFTKLNTGRTSESGKD---IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
            I+ F  L  G +     +      +   D    +  +        Q D   V I     
Sbjct: 8   KIRDFCDLVKGNSPTLKTEPGEYPLVVTADFRRSSNDF--------QFDVEAVCIP---- 55

Query: 86  ILYGKLG----PYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE-AI 140
            L    G       R    +    + +    ++     L      + L       +   +
Sbjct: 56  -LVSSTGHGNAAIHRVHYQSGKFALANIMVALIPNNLELCYPKYLYYLLQSSKDHVLVPL 114

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
            +G +      K I  + + +P L  Q+    KI     +++ + + R   I       Q
Sbjct: 115 MKGTSNVSLKVKDIAEVELYLPTLENQIEAVSKIDEALAKVNEVKSLRHSLIMESNAFLQ 174

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
           ++   ++                      +  + +    +   + RK    I+     L 
Sbjct: 175 SVFQKVI----------------------EGADYQKMEDVAPVVRRKVEIDIDGEYPELG 212

Query: 261 YGNIIQKLETR-NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
             +  + +  +  +      ++    V  G++V   I       +    +   R + +  
Sbjct: 213 ARSFGKGIFHKPTLNGFELDWQKLYAVHDGDLVISNIKAWEGAIAAAGPKDHGR-VGSHR 271

Query: 320 YMAVKPHG--IDSTYLAWLMRSYDLCKVFYAMGSGLRQS---LKFEDVKRLPVLVPPIKE 374
           Y+   P      + +L++ + S        A   G       L  + ++++ V +P    
Sbjct: 272 YLTCLPKPGVTTAKFLSFYLLSNQGIAKVQAASPGSADRNRTLAIKRLEKIEVPIPDFDT 331

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           Q   + +++    +I  + E     +  L     + +  A+ G+
Sbjct: 332 QLWFSQLLDGV-EQIKQVQESNRLELEALVP---AILDKAIKGK 371


>gi|326386411|ref|ZP_08208034.1| putative Type I restriction enzyme MjaXP specificity protein
           [Novosphingobium nitrogenifigens DSM 19370]
 gi|326209072|gb|EGD59866.1| putative Type I restriction enzyme MjaXP specificity protein
           [Novosphingobium nitrogenifigens DSM 19370]
          Length = 255

 Score = 64.0 bits (154), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 35/203 (17%), Positives = 73/203 (35%), Gaps = 12/203 (5%)

Query: 231 HWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGE 290
           HW       ++TE    +T   E   +S+  G +I ++E         S + Y  V PG+
Sbjct: 54  HWREVQLSDVLTEHGEASTGTEEVYSVSVHKG-LINQIEHLGRSFAAASTDHYNRVLPGD 112

Query: 291 IVFRFIDLQNDKRSLRS-AQVMERGIITSAYMAVKPHGIDSTYLA--WLMRSYDLCKVFY 347
           IV+      +    +   +QV    I++  Y    P   +   L          +     
Sbjct: 113 IVYTKSPTGDFPLGIIKQSQVKHPVIVSPLYGVFTPIRRELGVLLEAHFEAPLAVKNYLN 172

Query: 348 AMGSGLRQS---LKFEDVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
            +     ++   +  +      + +P   KEQ  I  +I      +D     I++ I  L
Sbjct: 173 PLVQKGAKNTIAITNKRFLEGKLHLPLDPKEQKAIAAIIETSRRELDA----IDREIAAL 228

Query: 404 KERRSSFIAAAVTGQIDLRGESQ 426
             ++   +   +TG+  ++ + +
Sbjct: 229 TRQKRGLMQKLLTGEWAVQPDLE 251



 Score = 44.8 bits (104), Expect = 0.024,   Method: Composition-based stats.
 Identities = 11/55 (20%), Positives = 21/55 (38%), Gaps = 4/55 (7%)

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGES 425
           P+ EQ  I  ++      ++ L    +      +  R+      VTG+  L G +
Sbjct: 2   PLPEQRKIAAILRTWDLGLEKLSALRKAK----ERLRNWLRTQVVTGKRRLPGFA 52



 Score = 39.8 bits (91), Expect = 0.88,   Method: Composition-based stats.
 Identities = 16/98 (16%), Positives = 31/98 (31%), Gaps = 8/98 (8%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           HW+ V +        G  S   +++  + +        ++L +   +  +D    +    
Sbjct: 54  HWREVQLSDVLTE-HGEASTGTEEVYSVSVHKGLINQIEHLGRSFAAASTDH--YNRVLP 110

Query: 84  GQILYGKLGPYLRKAIIA-----DFDGICSTQFLVLQP 116
           G I+Y K         I          I S  + V  P
Sbjct: 111 GDIVYTKSPTGDFPLGIIKQSQVKHPVIVSPLYGVFTP 148


>gi|315222591|ref|ZP_07864480.1| type I restriction modification DNA specificity domain protein
           [Streptococcus anginosus F0211]
 gi|315188277|gb|EFU22003.1| type I restriction modification DNA specificity domain protein
           [Streptococcus anginosus F0211]
          Length = 537

 Score = 64.0 bits (154), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 19/155 (12%), Positives = 47/155 (30%), Gaps = 1/155 (0%)

Query: 245 NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
           NRK+       +   + G       + +   + +   T  I+  G+++            
Sbjct: 370 NRKDPNGSIGVVNISNIGEYEIDYSSLDHLDEEDRKITNYILQTGDLLIPARGTAIRIAI 429

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVK 363
                           +      + + YL     S    K+      G    ++ ++++ 
Sbjct: 430 FEEQTYPCIASSNVIVIRATDESLSTIYLKLFFDSPLGRKMLVTRQQGTAVMNISYKELN 489

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
            + + +P I+EQ  I      E       +++ E 
Sbjct: 490 NIEIPLPSIEEQKSIAEEYTKELEAYKKAIQEAEN 524



 Score = 55.6 bits (132), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 35/196 (17%), Positives = 67/196 (34%), Gaps = 15/196 (7%)

Query: 23  KHW------KVVP--IKRFTKLNTGRTSESGKDIIYIGLEDVES---GTGKYLPKDGNSR 71
           + W       V    +     +  G+          IG+ ++ +       Y   D    
Sbjct: 342 EDWIKFQESNVKKQELGTVASIFRGKAINRKDPNGSIGVVNISNIGEYEIDYSSLDHLDE 401

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIAD--FDGICSTQFLVLQPKDVLPELLQ--GW 127
           +    T  I   G +L    G  +R AI  +  +  I S+  +V++  D     +    +
Sbjct: 402 EDRKITNYILQTGDLLIPARGTAIRIAIFEEQTYPCIASSNVIVIRATDESLSTIYLKLF 461

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
             S    + +    +G  + +  +K + NI +P+P + EQ  I E+   E       I E
Sbjct: 462 FDSPLGRKMLVTRQQGTAVMNISYKELNNIEIPLPSIEEQKSIAEEYTKELEAYKKAIQE 521

Query: 188 RIRFIELLKEKKQALV 203
                     + QA +
Sbjct: 522 AENRWSSTLSRLQARI 537


>gi|195867487|ref|ZP_03079491.1| restriction-modification enzyme MpuUVI S subunit [Ureaplasma
           urealyticum serovar 9 str. ATCC 33175]
 gi|195660963|gb|EDX54216.1| restriction-modification enzyme MpuUVI S subunit [Ureaplasma
           urealyticum serovar 9 str. ATCC 33175]
          Length = 362

 Score = 64.0 bits (154), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 37/383 (9%), Positives = 103/383 (26%), Gaps = 48/383 (12%)

Query: 27  VVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT---STVSIFAK 83
           +  +     +  G T         I  + ++   G Y      + ++          + K
Sbjct: 4   IYKLGSLVNIYKGST--------LITKKYIDENQGIYPVISSKTTENGIYGFINRYDYEK 55

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA--IC 141
            +I    +G         + +   +    V      +    +   +++   +      I 
Sbjct: 56  NKITMSLIGENAGTFFWQEKNFSLTNNACVFISNKNINYNYKYLFITLKKHEYKIKEFIV 115

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            G+         +  + + +P +  Q  I   I      I+ +   +I+   L+ +    
Sbjct: 116 IGSARPMISSNHLKLVDVNLPSIEIQDAIISIIEPIEKVINNIKNIKIKIESLINKYFDF 175

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
           L S +        +      I                                 I S   
Sbjct: 176 LYSDLEDSNFKKYILGDLFTI----------------------------NRGQIINSKYI 207

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
            N I      +   K      Y      +  F  I            Q  +  I    ++
Sbjct: 208 YNNIGPYPVVSSNTKNNGIFGYINSYMYDGEFITISADGAYAGTVFLQNGKFSITNVCFI 267

Query: 322 AVKPHG----IDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF- 376
            +K        ++ ++ ++++         +     R +++   +K + + +P ++ Q  
Sbjct: 268 LMKNKDIDFKFNNKFVYYILKKEQEINRLKSQVGSSRPAVREYSLKEIKINLPNMEIQEE 327

Query: 377 --DITNVINVETARIDVLVEKIE 397
              I   +   + + + + + + 
Sbjct: 328 FSKIVEPLLNLSTKANRIEKILN 350


>gi|157415305|ref|YP_001482561.1| hypothetical protein C8J_0985 [Campylobacter jejuni subsp. jejuni
           81116]
 gi|157386269|gb|ABV52584.1| hypothetical protein C8J_0985 [Campylobacter jejuni subsp. jejuni
           81116]
 gi|307747948|gb|ADN91218.1| Putative uncharacterized protein [Campylobacter jejuni subsp.
           jejuni M1]
 gi|315932180|gb|EFV11123.1| type I restriction modification DNA specificity domain protein
           [Campylobacter jejuni subsp. jejuni 327]
          Length = 481

 Score = 64.0 bits (154), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 51/432 (11%), Positives = 120/432 (27%), Gaps = 61/432 (14%)

Query: 28  VPIKR-FTKLNTGRTS---ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
             I     K   G +    E G  I    + D+++    +  K       +         
Sbjct: 50  KKIGECLLKSQYGISINMNEEGDGIPIYRMNDIDNMLCNFEVKKYALIDKNELQTFRLNY 109

Query: 84  GQILYGKLGPY-----LRKAIIADFDGICSTQFLVLQPKDVLPELLQ---GWLLSIDVTQ 135
           G +L+ +   Y              + + ++  + L     +             I   +
Sbjct: 110 GDVLFNRTNSYEFVGRTGIFYNNRENFVFASYLVRLVCNKEILLPEYLTVFLNTHIGKKE 169

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT----LITERIRF 191
                      ++ + + +  I +PI P+  Q+ I+  +      ++             
Sbjct: 170 IRRRARPSINQANVNPEELKEIKIPIFPMEFQLEIQNLVKDSHKALEESKELYKKAEETL 229

Query: 192 IELLKEKKQALVSYIVTKGLN--------PDVKMKDSGIEWVGLVPDHWEVKPFFALVTE 243
              L    +  +  ++    N            +K+S ++   L  ++++ K        
Sbjct: 230 YLELGLDPKNPLQSLLDSKTNNPTKSLNISIHTLKESFLKTGRLDSEYYQSKYEDIEKMI 289

Query: 244 LNRK--------------------NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY 283
            + K                    +    +   L L   N I+        +     E Y
Sbjct: 290 RSYKDGFCNLKDLVNDISSGFAFSSDDYQDVGELVLIRINNIKNATLDLSNVIYLKNEAY 349

Query: 284 QI-----VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
            +     +  G+I+            +R        ++    + +     +S  L  L+ 
Sbjct: 350 NLSPKDKIKKGDILISMSGSIGLSCVVRDDIS---AMVNQRILKISIKNFNSDVLVLLLN 406

Query: 339 SYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET-------ARI 389
           S+     F  +G   G++ +L   D++ + +       Q  I   I             +
Sbjct: 407 SFICKMQFERIGTTGGVQTNLSSIDMQNILIPKIDSTTQEKIAKYIQESFNLRKKSKQLL 466

Query: 390 DVLVEKIEQSIV 401
           D    K+E+ I 
Sbjct: 467 DNAKIKVEEQIQ 478



 Score = 54.4 bits (129), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 20/197 (10%), Positives = 63/197 (31%), Gaps = 6/197 (3%)

Query: 212 NPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETR 271
           +    MK      +        +      ++    +               N++   E +
Sbjct: 34  DSFWTMKLIYNNKLNYKKIGECLLKSQYGISINMNE-EGDGIPIYRMNDIDNMLCNFEVK 92

Query: 272 NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA---VKPHGI 328
              L  ++      ++ G+++F   +                  + ++Y+         +
Sbjct: 93  KYALIDKNELQTFRLNYGDVLFNRTNSYEFVGRTGIFYNNRENFVFASYLVRLVCNKEIL 152

Query: 329 DSTYLAWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
              YL   + ++   K        S  + ++  E++K + + + P++ Q +I N++    
Sbjct: 153 LPEYLTVFLNTHIGKKEIRRRARPSINQANVNPEELKEIKIPIFPMEFQLEIQNLVKDSH 212

Query: 387 ARIDVLVEKIEQSIVLL 403
             ++   E  +++   L
Sbjct: 213 KALEESKELYKKAEETL 229



 Score = 46.3 bits (108), Expect = 0.010,   Method: Composition-based stats.
 Identities = 28/185 (15%), Positives = 60/185 (32%), Gaps = 9/185 (4%)

Query: 28  VPIKRFT-KLNTGRTSESGK-----DIIYIGLEDVESGTGKYLP-KDGNSRQSDTSTVSI 80
             +K     +++G    S       +++ I + ++++ T          +   + S    
Sbjct: 297 CNLKDLVNDISSGFAFSSDDYQDVGELVLIRINNIKNATLDLSNVIYLKNEAYNLSPKDK 356

Query: 81  FAKGQILYGKLGPYL-RKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
             KG IL    G       +  D   + + + L +  K+   ++L   L S     + E 
Sbjct: 357 IKKGDILISMSGSIGLSCVVRDDISAMVNQRILKISIKNFNSDVLVLLLNSFICKMQFER 416

Query: 140 I-CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
           I   G   ++     + NI +P      Q  I + I                    ++E+
Sbjct: 417 IGTTGGVQTNLSSIDMQNILIPKIDSTTQEKIAKYIQESFNLRKKSKQLLDNAKIKVEEQ 476

Query: 199 KQALV 203
            Q  +
Sbjct: 477 IQGKI 481


>gi|148997025|ref|ZP_01824679.1| type I restriction enzyme EcoEI specificity protein [Streptococcus
           pneumoniae SP11-BS70]
 gi|194397487|ref|YP_002037528.1| Type I restriction modification DNA specificity domain
           [Streptococcus pneumoniae G54]
 gi|147756725|gb|EDK63765.1| type I restriction enzyme EcoEI specificity protein [Streptococcus
           pneumoniae SP11-BS70]
 gi|194357154|gb|ACF55602.1| Type I restriction modification DNA specificity domain
           [Streptococcus pneumoniae G54]
          Length = 191

 Score = 63.7 bits (153), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 29/178 (16%), Positives = 49/178 (27%), Gaps = 2/178 (1%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V + +      G   +  +D    G E +         K  N          I   G 
Sbjct: 2   KKVKLGQVATFINGYAFKP-QDWSSEGKEIIRIQNLTKTSKGINYYSGTIDKKYIVEAGD 60

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           IL    G  L          + +     +    +  +      +     Q       G+T
Sbjct: 61  ILISWSGT-LGVFQWCGRSAVLNQHIFKVVFDKIDIDKSYFKYVVEKGLQDAVKHTHGST 119

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           M H   K   NI +    L EQ  I  ++   +  I     +      L+K +    +
Sbjct: 120 MKHLTKKYFDNIMVSYTNLGEQQRIASELDLLSKLILRRQEQLEELNLLVKSQFACEI 177



 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/142 (11%), Positives = 42/142 (29%), Gaps = 10/142 (7%)

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
            ++ +     + +   IV+ G+I+  +                   ++      V    I
Sbjct: 39  TSKGINYYSGTIDKKYIVEAGDILISWSGTLG-----VFQWCGRSAVLNQHIFKVVFDKI 93

Query: 329 DSTYLAW-LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           D     +  +    L            + L  +    + V    + EQ  I + ++    
Sbjct: 94  DIDKSYFKYVVEKGLQDAVKHTHGSTMKHLTKKYFDNIMVSYTNLGEQQRIASELD---- 149

Query: 388 RIDVLVEKIEQSIVLLKERRSS 409
            +  L+ + ++ +  L     S
Sbjct: 150 LLSKLILRRQEQLEELNLLVKS 171


>gi|258513096|ref|YP_003189352.1| type I DNA specificity S subunit [Acetobacter pasteurianus IFO
           3283-01]
 gi|256634999|dbj|BAI00973.1| type I DNA specificity S subunit [Acetobacter pasteurianus IFO
           3283-01]
 gi|256638054|dbj|BAI04021.1| type I DNA specificity S subunit [Acetobacter pasteurianus IFO
           3283-03]
 gi|256641108|dbj|BAI07068.1| type I DNA specificity S subunit [Acetobacter pasteurianus IFO
           3283-07]
 gi|256644163|dbj|BAI10116.1| type I DNA specificity S subunit [Acetobacter pasteurianus IFO
           3283-22]
 gi|256647218|dbj|BAI13164.1| type I DNA specificity S subunit [Acetobacter pasteurianus IFO
           3283-26]
 gi|256650271|dbj|BAI16210.1| type I DNA specificity S subunit [Acetobacter pasteurianus IFO
           3283-32]
 gi|256653262|dbj|BAI19194.1| type I DNA specificity S subunit [Acetobacter pasteurianus IFO
           3283-01-42C]
 gi|256656315|dbj|BAI22240.1| type I DNA specificity S subunit [Acetobacter pasteurianus IFO
           3283-12]
          Length = 236

 Score = 63.7 bits (153), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 21/167 (12%), Positives = 51/167 (30%), Gaps = 9/167 (5%)

Query: 249 TKLIESNILSLSYGNIIQ-KLETRNMGLKPESYETY---QIVDPGEIVFRFIDLQNDKRS 304
           +  + S +  +   +II  K+ T  +    E          +   +I++           
Sbjct: 18  SDYVTSGVPCIMPQDIIDGKISTGKIAYISEENANRLSNFRLAQNDIIYPRRGDITKHAL 77

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVK 363
           + S +           + +    I   YL + +    + +             L    V 
Sbjct: 78  ITSRENGWLCGTGCLRIRLNTSSILPQYLYYYLTLPHVKEWISQNSVGATMPHLNTSLVG 137

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
           ++ V  P   EQ  I +++      +D  +E   ++   L+    + 
Sbjct: 138 QISVSYPTYDEQHTIASILGS----LDDKIELNRRTNETLEAMARAL 180


>gi|288929353|ref|ZP_06423198.1| putative restriction modification system specificity subunit
           [Prevotella sp. oral taxon 317 str. F0108]
 gi|288329455|gb|EFC68041.1| putative restriction modification system specificity subunit
           [Prevotella sp. oral taxon 317 str. F0108]
          Length = 388

 Score = 63.7 bits (153), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 61/407 (14%), Positives = 125/407 (30%), Gaps = 43/407 (10%)

Query: 24  HWKVVPIKRFTKLNTGRTSE---SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
            W    +  +   +  R  +   +  D++ +  +       + L +             I
Sbjct: 5   EWVASRLSEYLNESKERNKKGHFNKTDVLSVSGDFGIVNQIELLGRSFAGAS--VLPYHI 62

Query: 81  FAKGQILYGKL----GPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
              G I+Y K      PY         DGI ST + V   KD        +  S+     
Sbjct: 63  VRLGNIVYTKSPLKEYPYGIVKANTGKDGIVSTLYAVYSVKDNANYKFIEYYFSLANRAN 122

Query: 137 IEAIC----EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
                              + +    +  P + EQ  I   +      ID  I+ + + I
Sbjct: 123 RYFKPIVRIGAKHDMKIGNQEVLANQVIFPTVKEQEKIAGFL----SLIDDRISNQNKII 178

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           E LK+ K A++  ++    +  +++ D GI   GL                    N  + 
Sbjct: 179 EDLKKLKCAIIENVLNNCHDNKMRLGDVGIYIRGLT----------------YSSNDVVE 222

Query: 253 ESNILSLSYGNIIQK---LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
           +   + +   NI+         N+    +     Q +  G+IV    +  +      S  
Sbjct: 223 QKGTIVMRSNNIVSGGLLDYCNNVVRVNKQILQEQQLQNGDIVICMANGSSALVGKTSFY 282

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM---GSGLRQSLKFEDVKRLP 366
             +     +       +        WL ++    +  +     G+G   +L  ED+ R+ 
Sbjct: 283 DGKCLSPITVGAFCGIYRSKMPITKWLFQTNRYHRYIWNSLQGGNGAIANLNGEDILRMS 342

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
              P       I + I    + +D+L+E       +  +++   +  
Sbjct: 343 FPTPDKST---IGHCI-KLLSSLDLLIENNVSLCSMFSQQKEYLLQQ 385


>gi|307126719|ref|YP_003878750.1| type I restriction enzyme EcoKI specificity protein [Streptococcus
           pneumoniae 670-6B]
 gi|306483781|gb|ADM90650.1| type I restriction enzyme EcoKI specificity protein [Streptococcus
           pneumoniae 670-6B]
          Length = 324

 Score = 63.7 bits (153), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 17/91 (18%), Positives = 35/91 (38%), Gaps = 5/91 (5%)

Query: 333 LAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
           + + + S +         +G    ++   +   L + +PP+ EQ  I   I     ++D 
Sbjct: 1   MKYYLLSDNFINRVNNKSTGTSYPAINDYNFNLLLIALPPLSEQQRIVEAIESALEKVDE 60

Query: 392 LVEKIEQSIVLLKE----RRSSFIAAAVTGQ 418
             E   +   L KE     + S +  A+ G+
Sbjct: 61  YAESYNRLEQLDKEFPDKLKKSILQYAMQGK 91



 Score = 53.6 bits (127), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 43/325 (13%), Positives = 100/325 (30%), Gaps = 57/325 (17%)

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           ++ +LLS +   R+     G +    +      + + +PPL+EQ  I E I +   ++D 
Sbjct: 1   MKYYLLSDNFINRVNNKSTGTSYPAINDYNFNLLLIALPPLSEQQRIVEAIESALEKVDE 60

Query: 184 LITERIRFIELLKEKK----QALVSYIVTKGLNPDVKMKDS------------------- 220
                 R  +L KE      ++++ Y +   L       +S                   
Sbjct: 61  YAESYNRLEQLDKEFPDKLKKSILQYAMQGKLVEQDPNDESVEVLLEKIRAEKQKLFEEG 120

Query: 221 ----------------GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
                              + G +P +W V     + +     + K  + +I +     I
Sbjct: 121 KIKKKDLDISIVSQGDDNSYYGNIPMNWVVIKIKDIFSMNTGLSYKKGDLSINN-KGVRI 179

Query: 265 IQKLETRNMGLKPESYETYQ----------IVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
           I+    + +       + Y            +   +++                     G
Sbjct: 180 IRGGNIKPLEFSLLDNDYYIDTQFISSEQVYLKHNQLITPVSTSLEHIGKFARIDKDYDG 239

Query: 315 IITSAYMA----VKPHGIDSTYLAWLMRSYDLCKVFY---AMGSGLRQSLKFEDVKRLPV 367
           ++   ++      +   I S +L + + S    K       +      ++    +  L +
Sbjct: 240 VVAGGFIFQLTPFESSEIISKFLLFNLSSPLFYKQLKAITKLSGQALYNIPKTTLSELLI 299

Query: 368 LVPPIKEQFDITNVINVETARIDVL 392
            + P +EQ  IT  +     +++ L
Sbjct: 300 PLAPFEEQELITQKVEKLFEKVNQL 324



 Score = 45.6 bits (106), Expect = 0.015,   Method: Composition-based stats.
 Identities = 35/182 (19%), Positives = 73/182 (40%), Gaps = 17/182 (9%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           G IP +W V+ IK    +NTG + +        K +  I   +++      L  D     
Sbjct: 142 GNIPMNWVVIKIKDIFSMNTGLSYKKGDLSINNKGVRIIRGGNIKPLEFSLLDNDYYIDT 201

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIA-----DFDGICSTQFLV----LQPKDVLPEL 123
              S+  ++ K   L   +   L           D+DG+ +  F+      +  +++ + 
Sbjct: 202 QFISSEQVYLKHNQLITPVSTSLEHIGKFARIDKDYDGVVAGGFIFQLTPFESSEIISKF 261

Query: 124 LQGWLLSIDVTQRIEAICE--GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
           L   L S    ++++AI +  G  + +     +  + +P+ P  EQ LI +K+     ++
Sbjct: 262 LLFNLSSPLFYKQLKAITKLSGQALYNIPKTTLSELLIPLAPFEEQELITQKVEKLFEKV 321

Query: 182 DT 183
           + 
Sbjct: 322 NQ 323


>gi|329955589|ref|ZP_08296497.1| type I restriction modification DNA specificity domain protein
           [Bacteroides clarus YIT 12056]
 gi|328525992|gb|EGF53016.1| type I restriction modification DNA specificity domain protein
           [Bacteroides clarus YIT 12056]
          Length = 405

 Score = 63.7 bits (153), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 50/410 (12%), Positives = 108/410 (26%), Gaps = 35/410 (8%)

Query: 26  KVVPIKRFTKL-NTGRTSESGKDIIYIGLEDVESGTGKY-------LPKDGNSRQSDTST 77
           K   +    K+  +G   +S      + L +       +             S +     
Sbjct: 4   KKYKLGDIAKIEISGVDKKSVDGETPVRLCNFVDVYRNWAITQKLSENFMIASAKETEIA 63

Query: 78  VSIFAKGQILYGK----LGPYLRKAIIADFDGICSTQFLVLQPKDVLP----ELLQGWLL 129
                KGQ+   K           A IAD        +              + L  ++ 
Sbjct: 64  KCSIHKGQVAITKDSETRDDIGIPAYIADDFDNVLLGYHCALITPNDDVLDGKYLNAFMH 123

Query: 130 SIDVTQRIEAICEGATMSH-ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
           +  + +  E    G+   +    + I  IP+ +P L  Q  I   +      ID  I   
Sbjct: 124 TRYIQKYFENNASGSGQRYTLSNETIFQIPILLPSLEVQKAIGNLL----SNIDRKIELN 179

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN 248
            +  + L++  + L  Y   +   P+           G           +    +     
Sbjct: 180 RQINDNLEKMAKQLYDYWFVQFDFPN---------ENGRPYKSSGGAMVWNEKLKREIPK 230

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
                +    L   N        N G+ P      +I      ++    +   ++   + 
Sbjct: 231 EWDNCTLEYYLIIKNGRDHKHLGN-GIYPVYGSGGEIRKVDSFIYSGESILMPRKGSLNN 289

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVL 368
            +       S                ++  S                S+    +  + ++
Sbjct: 290 IMYVNDAFWSVDTMFYSEMKQPHCAKYVFYSIKDIDFTRWDSGTGVPSMTSSTLYSILLV 349

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            P            +     + ++++K E  IV L ++R   +   + GQ
Sbjct: 350 KPDADS----LAKFDEIITPLFLMIKKNEMQIVELTKQRDDLLPLLMNGQ 395



 Score = 39.8 bits (91), Expect = 0.85,   Method: Composition-based stats.
 Identities = 24/133 (18%), Positives = 40/133 (30%), Gaps = 20/133 (15%)

Query: 10  YKDSG--VQWIG----AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKY 63
           YK SG  + W       IPK W    ++ +  +  GR  +               G G Y
Sbjct: 211 YKSSGGAMVWNEKLKREIPKEWDNCTLEYYLIIKNGRDHK-------------HLGNGIY 257

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPEL 123
                        +  I++   IL  + G       + D      T F     +    + 
Sbjct: 258 PVYGSGGEIRKVDS-FIYSGESILMPRKGSLNNIMYVNDAFWSVDTMFYSEMKQPHCAKY 316

Query: 124 LQGWLLSIDVTQR 136
           +   +  ID T+ 
Sbjct: 317 VFYSIKDIDFTRW 329


>gi|56697573|ref|YP_167941.1| type I restriction-modification system, S subunit [Ruegeria
           pomeroyi DSS-3]
 gi|56679310|gb|AAV95976.1| type I restriction-modification system, S subunit [Ruegeria
           pomeroyi DSS-3]
          Length = 434

 Score = 63.7 bits (153), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 55/441 (12%), Positives = 124/441 (28%), Gaps = 53/441 (12%)

Query: 27  VVPIKRFTKLNTGRTSESG--------KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
            + I        G +               + +   +++ G   +               
Sbjct: 6   TIRIGDLADGIRGVSYRPEHLQEDFGRDRTVLLRSTNIQDGQLDFTSIQIVPSYLVKPAQ 65

Query: 79  SIFAKGQILYGKLGP----YLRKAIIADFDG---ICSTQFLVLQPKDVLPELLQ-GWLLS 130
           S   +G ++            + A      G          V  PK              
Sbjct: 66  S-VGEGDLVVCMSNGSKALVGKAARYKGEYGAPLTVGAFCSVFHPKTESDSAFLRHVFQG 124

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
               + I+ I  G+ +++     +  I +      E+  I + +      ID  I E   
Sbjct: 125 EQFRRSIDIILSGSAINNLKNSDVEGISIRAHSPTERATIADILD----AIDDAILETDT 180

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSG-IEWVGLVPDHWEVKPFFALVTELNRKNT 249
            IE L    Q LV  + T GL+   +++ +  +E             +         K+ 
Sbjct: 181 VIEKLLLVHQGLVHDLTTLGLSKSGEIRRADQLEEFHETDLGPLPHSWCVKSIGRMAKDL 240

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIV-------------FRFI 296
            L  +   +    + ++ L+  N+G       T +++D   +V             F   
Sbjct: 241 ALGTAARGANDGQDQLRLLKMGNLGWDALDTSTCELIDVDRVVHWKDALLLDGDLLFNTR 300

Query: 297 DLQNDKRSLRSAQVMERGIITSAYM---AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL 353
           +         +    ++  +    +         +D  + A  M +         + +G 
Sbjct: 301 NTPELVGKTAAYDQDDQRTVCDNNILRIRFPSEEMDGRFAAAYMANGRGKSRLMTLATGT 360

Query: 354 --RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV---LLKERRS 408
               ++ + D++   + VPP +              R+ V  + I +       L   R 
Sbjct: 361 TSVAAIYWRDLRDFQLPVPPRE-------EREEIVRRLQVSRDTIRREKESRVKLSNLRE 413

Query: 409 SFIAAAVTGQIDL---RGESQ 426
                 +TG+  +   R  ++
Sbjct: 414 GLRDDLLTGRKPVVAIREAAE 434


>gi|259500492|ref|ZP_05743394.1| conserved hypothetical protein [Lactobacillus iners DSM 13335]
 gi|259168105|gb|EEW52600.1| conserved hypothetical protein [Lactobacillus iners DSM 13335]
          Length = 227

 Score = 63.7 bits (153), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 27/208 (12%), Positives = 67/208 (32%), Gaps = 16/208 (7%)

Query: 226 GLVPDHWEVKPFFALVTELNRKNTK------LIESNILSLSYGNIIQKLETRNMGLKPES 279
           G+ P   +  P   L   + +  T          + I  +   +I+      +       
Sbjct: 19  GIQPSEMQFIPLQELCKVVTKGTTPTTLGKSFTSTGINFIKAESILDNHSIDSSKFAFID 78

Query: 280 YE-----TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
            E        ++   +IVF           + ++ +        A +      +   YL 
Sbjct: 79  EETNALLKRSVIKANDIVFTIAGTLGRFAMVDNSVLPANTNQAVAIIRPDETKVTPAYLY 138

Query: 335 WLMRSYDLCKVFYA-MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
                    + +   +   ++ +L    +K LP+ V  +K      N      + +  L+
Sbjct: 139 SFFIGNWHNEYYSKRIQQAVQANLSLTTIKSLPIAV--LK--NTTMNNYEKLVSPLFALM 194

Query: 394 EKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           +  E+    L + R + +   ++G++D+
Sbjct: 195 KNNEEENRRLSKLRDTLLPRLMSGELDV 222



 Score = 45.6 bits (106), Expect = 0.015,   Method: Composition-based stats.
 Identities = 26/196 (13%), Positives = 60/196 (30%), Gaps = 13/196 (6%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           P   + +P++   K+ T  T+ +          I +I  E +         K     +  
Sbjct: 22  PSEMQFIPLQELCKVVTKGTTPTTLGKSFTSTGINFIKAESILDNHSIDSSKFAFIDEET 81

Query: 75  TS--TVSIFAKGQILYGKLGPYLRKAIIADFDGICST----QFLVLQPKDVLPELLQGWL 128
            +    S+     I++   G   R A++ +     +T      +      V P  L  + 
Sbjct: 82  NALLKRSVIKANDIVFTIAGTLGRFAMVDNSVLPANTNQAVAIIRPDETKVTPAYLYSFF 141

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
           +     +      + A  ++     I ++P+ +          + +      +     E 
Sbjct: 142 IGNWHNEYYSKRIQQAVQANLSLTTIKSLPIAVLKNTTMNNYEKLVSPLFALMKNNEEEN 201

Query: 189 IRFIELLKEKKQALVS 204
            R  +L       L+S
Sbjct: 202 RRLSKLRDTLLPRLMS 217


>gi|229542844|ref|ZP_04431904.1| Restriction endonuclease S subunits-like protein [Bacillus
           coagulans 36D1]
 gi|229327264|gb|EEN92939.1| Restriction endonuclease S subunits-like protein [Bacillus
           coagulans 36D1]
          Length = 379

 Score = 63.7 bits (153), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 53/391 (13%), Positives = 112/391 (28%), Gaps = 37/391 (9%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+   + +  K          +       E ++ G          +   +   V++F  G
Sbjct: 21  WEQRKLGKVVK-THQFRPYLAEPNAEGDFEVIQQGDRPVAGYTNGTPFENYRDVTLF--G 77

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
                   P     I  D   I S   L         E    + L        +      
Sbjct: 78  DHTVSLYKPTKPFFIATDGVKILSADGL---------EGDFLFSLLERYKPEPQGYKRHF 128

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
           T           I   +    +     + +          IT     +E +K  K A +S
Sbjct: 129 T---ILKNQGAWITKNVEEQVKIGAFFKNLDHL-------ITLHQCKLEKMKTLKSAYLS 178

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
            +         K + +G          WE +     V E N K         + L     
Sbjct: 179 EMFPAEGERVPKRRFAG------FTQAWEQRKLGD-VAEFNPKEELPEIFEYVDLESVVG 231

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
            + +  R +  +       ++   G++ ++ +        L         + ++ Y  ++
Sbjct: 232 TELIAHRKVRKEKAPSRAQRLARKGDLFYQTVRPYQKNNYLFEKPC-NNYVFSTGYAQLR 290

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPI-KEQFDITNVI 382
           P   D  +L  L+++    K      +G    ++   D+  + V VP    EQ  I    
Sbjct: 291 P-YGDGYFLLSLVQTEQFVKAVLDRCTGTSYPAINSNDLANMEVYVPSRGDEQILIGR-- 347

Query: 383 NVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
                 +D L+   ++ +  L+  + +++  
Sbjct: 348 --LFKSVDHLITLHQRKLEKLQNIKEAYLNE 376


>gi|15617467|ref|NP_258262.1| putative type I S-subunit protein [Lactococcus lactis]
 gi|15553738|gb|AAL02008.1|AF409136_1 putative type I S-subunit protein [Lactococcus lactis]
          Length = 217

 Score = 63.7 bits (153), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 21/158 (13%), Positives = 53/158 (33%), Gaps = 9/158 (5%)

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
                 ++        M          Q+ +         +       + +A  ++R  I
Sbjct: 53  PFYKVSDMNNPGNEVVMMNANNYASDSQLKENKWNPINPQNSGVVFAKVGAAIFLDRKRI 112

Query: 317 TSAYMAVKPHGI----DSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPP 371
                 +  + +    DS++  +  ++             G   S    DV+ + V++P 
Sbjct: 113 VDTSFLIDNNMMSYLFDSSWNRYFGKTLFEKLRLSIFAQVGALPSFNGSDVEDIKVMIPE 172

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
             EQ  I +       ++D ++   ++ + LLKE++ +
Sbjct: 173 ESEQKMIGD----MFEKLDDIIALHQRKLDLLKEQKKA 206


>gi|15611852|ref|NP_223503.1| type I restrictionenzyme (specificity subunit) [Helicobacter pylori
           J99]
 gi|4155365|gb|AAD06377.1| TYPE I RESTRICTIONENZYME (SPECIFICITY SUBUNIT) [Helicobacter pylori
           J99]
          Length = 207

 Score = 63.7 bits (153), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 25/180 (13%), Positives = 62/180 (34%), Gaps = 9/180 (5%)

Query: 229 PDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDP 288
           P     +    +    N+K  K+ E + +       +        G   +        + 
Sbjct: 13  PKGVGFRKLGEVCESTNKKTLKISEVSEVKNKGMYPVINSGRELYGYYHDFN------ND 66

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA 348
           GE +      +         +    G +   Y     + + + +L + +++ +   +   
Sbjct: 67  GENITIASRGEYAGFINYFNEKFFAGGLCYPYKVKDTNELLTKFLYFYLKTNETQIMENL 126

Query: 349 MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
           +  G   +L   D++ L + +PP++ Q +I  +++  +A    L   I   I   K R+ 
Sbjct: 127 VFRGSIPALNKADIETLTIPIPPLEIQQEIVTILDQFSALTTDLQAGIPAEI---KARKK 183



 Score = 42.1 bits (97), Expect = 0.19,   Method: Composition-based stats.
 Identities = 21/164 (12%), Positives = 48/164 (29%), Gaps = 15/164 (9%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGK--DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           PK      +    +    +T +  +  ++   G+  V +   +      +      +   
Sbjct: 13  PKGVGFRKLGEVCESTNKKTLKISEVSEVKNKGMYPVINSGRELYGYYHDFNNDGEN--- 69

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFL---VLQPKDVLPELLQGWLLSIDVTQR 136
                 I     G Y       +             V    ++L + L  +L + +    
Sbjct: 70  ------ITIASRGEYAGFINYFNEKFFAGGLCYPYKVKDTNELLTKFLYFYLKTNETQIM 123

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
              +  G ++   +   I  + +PIPPL  Q  I   +   +  
Sbjct: 124 ENLVFRG-SIPALNKADIETLTIPIPPLEIQQEIVTILDQFSAL 166


>gi|304409996|ref|ZP_07391615.1| restriction modification system DNA specificity domain protein
           [Shewanella baltica OS183]
 gi|307302291|ref|ZP_07582049.1| restriction modification system DNA specificity domain protein
           [Shewanella baltica BA175]
 gi|304351405|gb|EFM15804.1| restriction modification system DNA specificity domain protein
           [Shewanella baltica OS183]
 gi|306914329|gb|EFN44750.1| restriction modification system DNA specificity domain protein
           [Shewanella baltica BA175]
          Length = 373

 Score = 63.7 bits (153), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 20/132 (15%), Positives = 47/132 (35%), Gaps = 2/132 (1%)

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL-C 343
           ++    ++   I  Q   R   +   +      + +  +     +  +L   M+S     
Sbjct: 240 LLPSKSVLIAMIG-QGKTRGQSAILEIPATTNQNCFAVMPNDTWEPDFLYLWMKSSYQDL 298

Query: 344 KVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
           +   +   G + +L    +  L V  P   EQ  +   I      IDVL +  + ++  +
Sbjct: 299 RDLSSDRGGNQSALNGALLNALEVPAPSKPEQQKLVARIQTALTEIDVLEQSSKAALADI 358

Query: 404 KERRSSFIAAAV 415
           ++  +  +A A 
Sbjct: 359 EKLPARILAKAF 370



 Score = 47.9 bits (112), Expect = 0.003,   Method: Composition-based stats.
 Identities = 21/192 (10%), Positives = 55/192 (28%), Gaps = 10/192 (5%)

Query: 28  VPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
             +       +G T   G        +I ++   +V         +  ++      ++ +
Sbjct: 181 KRLGEHAPTTSGSTPSRGNKQYWQPAEIAWVKTGEVAFAPITATEEAISNLALAECSLKL 240

Query: 81  FAKGQILYGKLGP--YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ-RI 137
                +L   +G      ++ I +     +     + P D          +       R 
Sbjct: 241 LPSKSVLIAMIGQGKTRGQSAILEIPATTNQNCFAVMPNDTWEPDFLYLWMKSSYQDLRD 300

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
            +   G   S  +   +  + +P P   EQ  +  +I      ID L       +  +++
Sbjct: 301 LSSDRGGNQSALNGALLNALEVPAPSKPEQQKLVARIQTALTEIDVLEQSSKAALADIEK 360

Query: 198 KKQALVSYIVTK 209
               +++     
Sbjct: 361 LPARILAKAFEN 372



 Score = 37.1 bits (84), Expect = 5.2,   Method: Composition-based stats.
 Identities = 14/121 (11%), Positives = 38/121 (31%), Gaps = 9/121 (7%)

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR 354
           +I   +  R ++              +       +  +L   ++S  L +  Y   S   
Sbjct: 60  YIVFGDHTRIVKFIDFSFVVGADGVRLYKASEKYEPEFLYLFLKSSKLPEDGYGRHS--- 116

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAA 414
                + +K L V     ++Q  I   +  +   ++   +  +  +   +  R+  +  A
Sbjct: 117 -----KYLKELFVPEISKEKQRQIAARLKAQLGEVETARQAAKVQLSDARLLRTRML-KA 170

Query: 415 V 415
            
Sbjct: 171 F 171


>gi|319945006|ref|ZP_08019268.1| restriction modification system [Lautropia mirabilis ATCC 51599]
 gi|319741576|gb|EFV94001.1| restriction modification system [Lautropia mirabilis ATCC 51599]
          Length = 420

 Score = 63.7 bits (153), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 53/411 (12%), Positives = 122/411 (29%), Gaps = 47/411 (11%)

Query: 46  KDIIYIGLEDVESGTGKYLP--KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD- 102
             I  +  + V++     +   +  ++            +G I+     P      I D 
Sbjct: 9   SGIPVLSAKHVKTDGLVDVQSMRYASTEMYKKWMTVEVQEGDIILTSEAPMGEVFYIQDD 68

Query: 103 FDGICSTQFL--VLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMP 160
              +   +       P+ + P+ L  WL S +  ++I A   G+T+       +  + + 
Sbjct: 69  KKYVLGQRVFGLRPNPRLINPKYLAAWLASSEGQRQITARASGSTVQGIRQVELLKLEVD 128

Query: 161 IPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY---------IVTKGL 211
           +P   EQ  I     + T +I            +++   ++              + +G 
Sbjct: 129 LPSKEEQERIANVRFSLTDKIILNRCINQTLEAMVQAIFKSWFVDFDPVKAKIAAIEQGQ 188

Query: 212 NPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETR 271
           +P      +         D    +    L          + ES + ++  G  ++++   
Sbjct: 189 DPLRAAMRAISGKTDAELDQMPREHHDELAATAELFPDAMEESKLGNIPNGWEVKRVGDL 248

Query: 272 NMGLKPESYETYQIVDPGEIVFRFIDLQNDK----RSLRSAQVMERGIITSAYMAVKPHG 327
                 ++ ++         V+    +            +  V  +G + S Y    P  
Sbjct: 249 IELAYGKALKSTDRKQGSVPVYGSGGVTGYHNEALVPHGAIIVGRKGTVGSLYWEDGPFF 308

Query: 328 IDSTYLA---------WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
              T            +   +     +           L  E+V RL ++ P I      
Sbjct: 309 PIDTTFYVKPKVLPMTYCFYAMQTLGLDKMNTDAAVPGLNRENVYRLELVKPSIS----- 363

Query: 379 TNVINVETARIDVLVEKIEQSIVL-------LKERRSSFIAAAVTGQ--ID 420
                   +  D L+ +  +++         L E R S +   ++G+  ID
Sbjct: 364 ------VLSAFDGLIGQTRKAMRANTIASRSLAELRDSLLPKLLSGELAID 408



 Score = 54.8 bits (130), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 20/134 (14%), Positives = 38/134 (28%), Gaps = 12/134 (8%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +G IP  W+V  +    +L  G+          +   D + G+   +P  G+   +    
Sbjct: 233 LGNIPNGWEVKRVGDLIELAYGKA---------LKSTDRKQGS---VPVYGSGGVTGYHN 280

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
            ++   G I+ G+ G                T F V      +                 
Sbjct: 281 EALVPHGAIIVGRKGTVGSLYWEDGPFFPIDTTFYVKPKVLPMTYCFYAMQTLGLDKMNT 340

Query: 138 EAICEGATMSHADW 151
           +A   G    +   
Sbjct: 341 DAAVPGLNRENVYR 354


>gi|260589480|ref|ZP_05855393.1| putative type I restriction-modification system, specificity
           determinant [Blautia hansenii DSM 20583]
 gi|260540048|gb|EEX20617.1| putative type I restriction-modification system, specificity
           determinant [Blautia hansenii DSM 20583]
          Length = 414

 Score = 63.7 bits (153), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 44/356 (12%), Positives = 108/356 (30%), Gaps = 27/356 (7%)

Query: 57  ESGTGKYLPKDGNSRQSDTSTVS-IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQ 115
           E+GT K L    +   +D    + + ++G+I+    G             I     +   
Sbjct: 59  ENGTVKILTTSISDLWADEEKTADVLSEGEIVCIPWGGNP-VVQYYKGKFITGDNRIATS 117

Query: 116 PKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKII 175
                      +    +    I +   G+ + H D   + ++ +P+PP+  Q  I   + 
Sbjct: 118 LDVKRLSNKYLYYCMQNRLVDISSYYRGSGIKHPDMSKVLDLVIPVPPIEVQSEIVRILD 177

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVK 235
             T     L  E    +    ++ +   + ++T   +    +    +  +   P      
Sbjct: 178 NFTELTAELTAELTAELTARNKQFEYYRTQLLTFS-DEVEMLTLEDVCQIVDCP------ 230

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRF 295
                       + K  E+ +  +   N++      +     +  E    +   E     
Sbjct: 231 ----------HTSPKWKENGVPVIRNYNLVNGQIDTSNLSYVDEDEYLTRIKRIEPQEND 280

Query: 296 IDLQNDKRSLRSAQVMERGIITSA----YMAVKPHGIDSTYLAWLMRSYDLCKVFYAM-- 349
           I    +        +              +      I   YL  +++   +     ++  
Sbjct: 281 ILFSREAPIGNVGIIPANFKCCQGQRVVLLRPDQDIIYPRYLMHILQGEIVRNQISSVEG 340

Query: 350 GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID-VLVEKIEQSIVLLK 404
                 +    D+++L   VP  K Q  + + ++   A+++  + E +   I L K
Sbjct: 341 KGATVSNFNISDLRKLKFQVPDKKVQLYLIDKLD-IFAKLNGDIKEGLPAEIKLRK 395



 Score = 54.4 bits (129), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 28/203 (13%), Positives = 61/203 (30%), Gaps = 22/203 (10%)

Query: 228 VPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG--------------NIIQKLETRNM 273
            P+     P +++     + NT   E     + Y                 ++ L T   
Sbjct: 12  CPEGVAYMPIWSITAWDKKFNTVAKEKQKTIVKYNYFLAADLKKLESENGTVKILTTSIS 71

Query: 274 GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL 333
            L  +  +T  ++  GEIV          +  +   +     I ++    +     S   
Sbjct: 72  DLWADEEKTADVLSEGEIVCIPWGGNPVVQYYKGKFITGDNRIATSLDVKR----LSNKY 127

Query: 334 AWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
            +      L  +         +      V  L + VPPI+ Q +I  +++  T     L 
Sbjct: 128 LYYCMQNRLVDISSYYRGSGIKHPDMSKVLDLVIPVPPIEVQSEIVRILDNFTELTAELT 187

Query: 394 EKIEQSIVLLKE----RRSSFIA 412
            ++   +    +     R+  + 
Sbjct: 188 AELTAELTARNKQFEYYRTQLLT 210


>gi|323491152|ref|ZP_08096340.1| hypothetical protein VIBR0546_04497 [Vibrio brasiliensis LMG 20546]
 gi|323314617|gb|EGA67693.1| hypothetical protein VIBR0546_04497 [Vibrio brasiliensis LMG 20546]
          Length = 472

 Score = 63.7 bits (153), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 29/193 (15%), Positives = 64/193 (33%), Gaps = 12/193 (6%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
           G EW+      +       ++ +   K          ++ +G     L+        +  
Sbjct: 2   GSEWIDAKLGDYIDSCLGKMLDKNKNKGEFYSYLGNSNVRWGAF--DLDELAQMKFEDHE 59

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP-HGIDSTYLAWLMRS 339
                +  G+++          R       +    I  A   V+   G+DS +L +    
Sbjct: 60  HVRYGIKAGDLIVCEGG--EPGRCAIWEDDLPNMKIQKALHRVRTIDGLDSEFLYYWFLF 117

Query: 340 YDLCKVFYAM-GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
               K+  A       + L  + +K +P+ +PP+K Q  +  ++     +I     KI +
Sbjct: 118 AGKNKLLDAYFTGTTIKHLTGKALKEIPIKIPPLKHQKHVAVLLRGFDKKI-----KINR 172

Query: 399 SI-VLLKERRSSF 410
            I   L++   + 
Sbjct: 173 QINQTLEQMAQTL 185



 Score = 61.7 bits (148), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 56/463 (12%), Positives = 137/463 (29%), Gaps = 76/463 (16%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKD----IIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
             W    +  +     G+  +  K+      Y+G  +V  G            +      
Sbjct: 3   SEWIDAKLGDYIDSCLGKMLDKNKNKGEFYSYLGNSNVRWGAFDLDELAQMKFEDHEHVR 62

Query: 79  SIFAKGQILYGKLGPYLRKAIIAD--FDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
                G ++  + G   R AI  D   +         ++  D L      +        +
Sbjct: 63  YGIKAGDLIVCEGGEPGRCAIWEDDLPNMKIQKALHRVRTIDGLDSEFLYYWFLFAGKNK 122

Query: 137 -IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            ++A   G T+ H   K +  IP+ IPPL  Q  +   +     +I           ++ 
Sbjct: 123 LLDAYFTGTTIKHLTGKALKEIPIKIPPLKHQKHVAVLLRGFDKKIKINRQINQTLEQMA 182

Query: 196 KEKKQA-------LVSYIVTKG--------------------------LNPDVKMKDSGI 222
           +   ++       ++   +  G                           +   ++     
Sbjct: 183 QTLFKSWFVDFDPVIDNALDAGSPIPEVFEARVERRKAVRESADFKPLPDDVRQLFPREF 242

Query: 223 E--WVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMG------ 274
           E   +G VP  W    F  L+ +    +      +        II+  +  ++       
Sbjct: 243 EESELGWVPKGWSFTKFGDLLDKTIGGDWGKDVPDEKHTEQVKIIRGTDIPDLNAGGISS 302

Query: 275 ----LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER------GIITSAYMAVK 324
                        + ++  +IV         + + RS  +         G++  A    +
Sbjct: 303 APTRWVESKKLKTRKLEHADIVIEVSGGSPKQPTGRSLLITNDVLSRLGGVVEPASFCRR 362

Query: 325 PHGID-------STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLP-VLVPPIKEQF 376
              ++       S +L ++  +  + +      S    + + +       V++P  +   
Sbjct: 363 FKPVNEKVGLLASEHLKFIYAAGKMWEYQN--QSTGIANFQTKFFLEAEYVMIPNTE--- 417

Query: 377 DITNVINVETARIDVLVEKIEQSIVL-LKERRSSFIAAAVTGQ 418
               V+    + +   +EK + S  + L++ R + +   ++G+
Sbjct: 418 ----VLEHYFSFVMSWIEKRQSSTSIGLEKLRDTLLPKLISGE 456



 Score = 39.4 bits (90), Expect = 1.1,   Method: Composition-based stats.
 Identities = 27/215 (12%), Positives = 54/215 (25%), Gaps = 29/215 (13%)

Query: 4   YKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDII---------YIGLE 54
           +    ++++S    +G +PK W             G   + GKD+           I   
Sbjct: 238 FPR--EFEESE---LGWVPKGWSFTKFGDLLDKTIGG--DWGKDVPDEKHTEQVKIIRGT 290

Query: 55  DVESGT-GKYLPKDGNSRQSDTSTVSIFAKGQILY-----GKLGPYLRKAIIADFD---- 104
           D+     G          +S            I+          P  R  +I +      
Sbjct: 291 DIPDLNAGGISSAPTRWVESKKLKTRKLEHADIVIEVSGGSPKQPTGRSLLITNDVLSRL 350

Query: 105 -GICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPP 163
            G+        + K V  ++       +        + E    S             +  
Sbjct: 351 GGVVEPASFCRRFKPVNEKVGLLASEHLKFIYAAGKMWEYQNQS--TGIANFQTKFFLEA 408

Query: 164 LAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
               +   E +      + + I +R     +  EK
Sbjct: 409 EYVMIPNTEVLEHYFSFVMSWIEKRQSSTSIGLEK 443


>gi|317178850|dbj|BAJ56638.1| Type I R-M system S protein [Helicobacter pylori F30]
          Length = 257

 Score = 63.7 bits (153), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 15/103 (14%), Positives = 38/103 (36%), Gaps = 1/103 (0%)

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ 355
           I          S   +   +  S  ++ K   +   YL   + +     +     +G   
Sbjct: 68  ISSSGVYAGYVSYWDIPVFLADSFSVSPKQKTLMPKYLFHYLTTQQ-DAIHATKSTGGIP 126

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
            +  +D++   + +PP++ Q +I  +++  T     L  + +Q
Sbjct: 127 HVYSKDLQNFLIPIPPLEIQQEIVKILDAFTELNTELKARKKQ 169



 Score = 49.0 bits (115), Expect = 0.001,   Method: Composition-based stats.
 Identities = 28/162 (17%), Positives = 46/162 (28%), Gaps = 12/162 (7%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           PK  +   +        G++    K + +  +  +  G       +  +R  +       
Sbjct: 13  PKGVEFRKLGEVCDFQKGKSITK-KAVTFGKVPVISGGRQPAYYHNEVNRSGE------- 64

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
               I     G Y       D     +  F V  PK         +         I A  
Sbjct: 65  ---TIAISSSGVYAGYVSYWDIPVFLADSFSV-SPKQKTLMPKYLFHYLTTQQDAIHATK 120

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
               + H   K + N  +PIPPL  Q  I + + A T     
Sbjct: 121 STGGIPHVYSKDLQNFLIPIPPLEIQQEIVKILDAFTELNTE 162


>gi|311110802|ref|ZP_07712199.1| putative type I restriction modification DNA specificity domain
           protein [Lactobacillus gasseri MV-22]
 gi|311065956|gb|EFQ46296.1| putative type I restriction modification DNA specificity domain
           protein [Lactobacillus gasseri MV-22]
          Length = 288

 Score = 63.7 bits (153), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 37/265 (13%), Positives = 96/265 (36%), Gaps = 19/265 (7%)

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
               +   ++      T  +  +K +  I +  P    Q  I   +     +++ +I  +
Sbjct: 10  NYRYLYYALKNAHIPNTGYNRHFKWLKEITINYPDKNRQNDIVNILD----KLEYIIKMK 65

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN 248
            + ++   E  +A     V    +P++K KD  ++ +  +      K       +  R  
Sbjct: 66  SQELDKFDELIKA---RFVEMFGDPEIKNKDKSLKKLCDICLVNPDKR------KDPRLT 116

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID--LQNDKRSLR 306
              +E + + +S  +    ++T N+ L  E  + +      +++F  I   ++N K ++ 
Sbjct: 117 NNDLEVSFVPMSAVSENGDIDTTNIKLYSEVRKGFTYFSSNDVLFAKITPCMENGKGAIA 176

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWL----MRSYDLCKVFYAMGSGLRQSLKFEDV 362
                + G  ++ +  ++P    S            S+         GS  ++ +  + +
Sbjct: 177 QNLKNDIGFGSTEFHVLRPLENLSNPYWLYVLTTFDSFRKVAEINMTGSAGQKRVPVKFL 236

Query: 363 KRLPVLVPPIKEQFDITNVINVETA 387
           +   V +PP+  Q +  N +     
Sbjct: 237 ENYKVNIPPLSLQNEFANFVQQVDK 261



 Score = 43.6 bits (101), Expect = 0.057,   Method: Composition-based stats.
 Identities = 26/175 (14%), Positives = 54/175 (30%), Gaps = 15/175 (8%)

Query: 27  VVPIKRFTKLNTGRTSE-----SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           +  +     +N  +  +     +  ++ ++ +  V    G     +           + F
Sbjct: 96  LKKLCDICLVNPDKRKDPRLTNNDLEVSFVPMSAVSE-NGDIDTTNIKLYSEVRKGFTYF 154

Query: 82  AKGQILYGKLGPYLRKA------IIADFDGICSTQFLVLQP--KDVLPELLQGWLLSIDV 133
           +   +L+ K+ P +          + +  G  ST+F VL+P      P  L         
Sbjct: 155 SSNDVLFAKITPCMENGKGAIAQNLKNDIGFGSTEFHVLRPLENLSNPYWLYVLTTFDSF 214

Query: 134 TQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
            +  E    G+        K + N  + IPPL+ Q      +          I  
Sbjct: 215 RKVAEINMTGSAGQKRVPVKFLENYKVNIPPLSLQNEFANFVQQVDKSKVANIVY 269


>gi|255022639|ref|ZP_05294625.1| hypothetical protein LmonocyFSL_02371 [Listeria monocytogenes FSL
           J1-208]
          Length = 261

 Score = 63.7 bits (153), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 24/168 (14%), Positives = 58/168 (34%), Gaps = 10/168 (5%)

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
           KN    +  I      NI ++      G   E+Y +  +++ G+++F             
Sbjct: 10  KNVHYGDVLIKYPCILNIKKEEIPYITGGCLEAYNS-NLLENGDLIFADAAEDETVGKAV 68

Query: 307 SAQVMERGIITSAYMAVKPHGIDS---TYLAWLMRSYDLCKVFYAMGSGLRQS-LKFEDV 362
               +    + S    +           +L + + S    +    +  G + S +   ++
Sbjct: 69  EVNGITNENLVSGLHTIVARATTQKAKYFLGYYINSDIYHRQLLRLMQGSKVSAISKGNL 128

Query: 363 KRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
           ++  V  P  I+EQ  I +       ++D  +   +  +  LK+ +  
Sbjct: 129 QKTDVSFPKDIEEQQKIGSY----FKKLDSTIALHQHKLDTLKQMKKG 172


>gi|257083314|ref|ZP_05577675.1| predicted protein [Enterococcus faecalis Fly1]
 gi|256991344|gb|EEU78646.1| predicted protein [Enterococcus faecalis Fly1]
          Length = 374

 Score = 63.7 bits (153), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 46/393 (11%), Positives = 115/393 (29%), Gaps = 40/393 (10%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W++  +    +            +   G            P  G +   D     IF   
Sbjct: 13  WELCKLGELIESFDSERIPIDSSLRISGQ----------YPYYGATGIIDYIDSYIFDGE 62

Query: 85  QILYGKLGPYL-----RKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
            +L  + G  +       A +       +    +++           +L+ I        
Sbjct: 63  YVLLAEDGANIIMRNYPVAYLTQGKFWLNNHAHIMRMVKGDN----QFLVQILEKMNYSK 118

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
              G      +   +  I + +P   EQ  I          I     +  +  +L K   
Sbjct: 119 YNTGTAQPKLNSNIVKRINLRVPIPEEQQKIGTLFKQLDDTITLHQRKLDQLKKLKKAYL 178

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
           QA+    V+     +   K    ++ G     W++     ++ +  +   K+      S+
Sbjct: 179 QAM---FVSMNTKKNKVPKLRFTDFKGE----WKLCKLENIIEKQIKGKAKVENLCNGSV 231

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
            Y +       R  G KP   +    V   +I+  +   +  K          +G++ S 
Sbjct: 232 EYLDA-----NRLNGGKPIYTKALPDVSERDIIILWDGSKAGKVY-----YGFKGVLGST 281

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
             A +     ++   +     +   ++    +     +        P+ +   +EQ  + 
Sbjct: 282 LKAYQLKECANSQFIYQQLLDNQNNIYNNYRTPNIPHVVKNFSSIFPIWMTSFEEQSQMA 341

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           +++    + +D  +   +  I  +   + S++ 
Sbjct: 342 DIL----SNLDNRIILQQNLIDTMISLKKSYLQ 370


>gi|57237937|ref|YP_179185.1| type II restriction-modification enzyme [Campylobacter jejuni RM1221]
 gi|57166741|gb|AAW35520.1| type II restriction-modification enzyme [Campylobacter jejuni RM1221]
 gi|315058494|gb|ADT72823.1| Type I restriction-modification system, DNA-methyltransferase subunit
            M / Type I restriction-modification system, specificity
            subunit S [Campylobacter jejuni subsp. jejuni S3]
          Length = 1343

 Score = 63.7 bits (153), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 48/459 (10%), Positives = 122/459 (26%), Gaps = 78/459 (16%)

Query: 26   KVVPIKRFTKLNTGRTSESGKDI-----IYIGLEDVESGTGKYLPKDGNSRQSDTSTVS- 79
            ++V +     L  G   +    +     + I + ++                 + +    
Sbjct: 892  ELVRLGEVCDLFNGYAFKKTDYVEKSNTLLIRMGNIRPNGEFDAEHKIQYLPDNFNNKYK 951

Query: 80   --IFAKGQILYGKLGPYLRKAII---------ADFDGICSTQF--LVLQPKDVLPELLQG 126
              +   G ++           I+          + + + + +   L    + ++ + L+ 
Sbjct: 952  DYLLNDGDVIIAMTDMGNAMNILGVPTIVKNKNNRNFLLNQRVGKLFNFSEKIIVQYLKY 1011

Query: 127  WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK------------- 173
             L S +V ++ +    G    +     I +  +P+PPL  Q  I  +             
Sbjct: 1012 ALSSNEVKKQFKLQGYGGLQINLGKTQILSTKIPLPPLEIQKQIVAECEKVEEQYNTLSL 1071

Query: 174  -IIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWV------- 225
             I      I  ++ +     +  + K  +++  +       D  +  S I+         
Sbjct: 1072 SIEEYQKLIKAILQKCGIIEDDQEYKLNSILENLQKLESKLDFNLLFSFIDDFTNARQED 1131

Query: 226  ------------------------GLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
                                    G   +              +RK  +    NI  +  
Sbjct: 1132 LKKFKEFVKNIKAILGTFSTPPKQGWNKEKLNEIVSIQSGGTPDRKVKEYWNGNINWVKS 1191

Query: 262  GNIIQKLETRNMGLKPESY-----ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
                          +  +       + +++     +   +     K    + +      I
Sbjct: 1192 EVCQNCYVYDYQVKEKITELGLQKSSAKLLKKETTLIALVGATIGKIGFLTFESATNQNI 1251

Query: 317  TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
            T  Y     +               L   F  +G           +K L + +PP++ Q 
Sbjct: 1252 TGLY---PKNLKILNTKYLYYACMGLYGQFRKLGDFAMA--NSNFIKNLTISLPPLEIQE 1306

Query: 377  DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
             I   I +   +ID L       +  L++ +   +   +
Sbjct: 1307 KIVQNIELVEQQIDFL----NLKLEFLEKEKEKILQKYL 1341



 Score = 63.3 bits (152), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 29/210 (13%), Positives = 70/210 (33%), Gaps = 12/210 (5%)

Query: 212  NPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETR 271
            +     K+S  E V L         +    T+   K+  L+         G    + + +
Sbjct: 881  DELNPFKNSKFELVRLGEVCDLFNGYAFKKTDYVEKSNTLLIRMGNIRPNGEFDAEHKIQ 940

Query: 272  NMGLKPESYETYQIVDPGEIVFRFIDLQND-----KRSLRSAQVMERGIITSAY--MAVK 324
             +     +     +++ G+++    D+ N        ++   +     ++      +   
Sbjct: 941  YLPDNFNNKYKDYLLNDGDVIIAMTDMGNAMNILGVPTIVKNKNNRNFLLNQRVGKLFNF 1000

Query: 325  PHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
               I   YL + + S ++ K F   G  GL+ +L    +    + +PP++ Q  I     
Sbjct: 1001 SEKIIVQYLKYALSSNEVKKQFKLQGYGGLQINLGKTQILSTKIPLPPLEIQKQIVAECE 1060

Query: 384  VETARIDVLVEKIEQSIVLLKERRSSFIAA 413
                + + L      SI   ++   + +  
Sbjct: 1061 KVEEQYNTL----SLSIEEYQKLIKAILQK 1086



 Score = 47.5 bits (111), Expect = 0.004,   Method: Composition-based stats.
 Identities = 27/190 (14%), Positives = 65/190 (34%), Gaps = 12/190 (6%)

Query: 23   KHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKY--LPKDGNSRQSD 74
            + W    +     + +G T +         +I ++  E  ++       + +        
Sbjct: 1155 QGWNKEKLNEIVSIQSGGTPDRKVKEYWNGNINWVKSEVCQNCYVYDYQVKEKITELGLQ 1214

Query: 75   TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKD-VLPELLQGWLLSIDV 133
             S+  +  K   L   +G  + K     F+   +     L PK+  +      +   + +
Sbjct: 1215 KSSAKLLKKETTLIALVGATIGKIGFLTFESATNQNITGLYPKNLKILNTKYLYYACMGL 1274

Query: 134  TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
              +   + +    + A+   I N+ + +PPL  Q  I + I     +ID L  +     +
Sbjct: 1275 YGQFRKLGD---FAMANSNFIKNLTISLPPLEIQEKIVQNIELVEQQIDFLNLKLEFLEK 1331

Query: 194  LLKEKKQALV 203
              ++  Q  +
Sbjct: 1332 EKEKILQKYL 1341


>gi|261401231|ref|ZP_05987356.1| type I restriction modification DNA specificity family protein
           [Neisseria lactamica ATCC 23970]
 gi|269208819|gb|EEZ75274.1| type I restriction modification DNA specificity family protein
           [Neisseria lactamica ATCC 23970]
          Length = 432

 Score = 63.7 bits (153), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 57/435 (13%), Positives = 125/435 (28%), Gaps = 48/435 (11%)

Query: 27  VVPIKRFTKLNTGRTSESG--KDIIYIGLEDVESGTGKYLPK-DGNSRQSDTSTVSIFAK 83
            + I    ++N    ++    ++I+Y+   ++       +   +    +  +        
Sbjct: 4   QIKIGEIAEINANSLTQKDMFQEIMYLDTGNITRNEIDNIQILNITMDKIPSRAKRKVKD 63

Query: 84  GQILYGKLGPYLRKAIIADF---DGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
             I+Y  + P        +    + I ST F  +   D   +    + L           
Sbjct: 64  KTIIYSTVRPNQEHYGFLENPSDNFIVSTGFSTIDVYDDNTDEKFIYYLLTQKHVTDYLH 123

Query: 141 CEGAT----MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
             G          +   I N+   +P L  Q  I   +      +D  I    +    L+
Sbjct: 124 TIGENSVSSYPSINPDDIANLKFTVPYLKTQQSIAAVL----SALDKKIALNKQINARLE 179

Query: 197 EKKQALVSYIVTKGLNPD---VKMKDSGIEWVGLV------PDHWEVKPFFALVTELNRK 247
           E  + L  Y   +   PD      K SG E V         P  WEVK     +      
Sbjct: 180 EMAKTLYDYWFVQFDFPDANGKSYKSSGGEMVFDETLKRKIPKGWEVKQISHWIKADKSG 239

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESY---------ETYQIVDPGEIVFRFIDL 298
           +    +         N ++  +   +  +               ++++ P + V      
Sbjct: 240 DWGKEQQEGNYTVKVNCVRGADINAINSQGNIEAPIRFILAKNEHKLLSPFDFVVEISGG 299

Query: 299 QNDKRSLR-------SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG- 350
              + + R            +  +I S +         S +  +     D+ K     G 
Sbjct: 300 SPTQSTGRLAPISQYVLDRFDLPLICSNFCKAISLKDTSYFYQFAFMWSDIYKNNILFGW 359

Query: 351 ---SGLRQSLKFEDVKRLPV-LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
              +   ++L F++         PP +       +I+          + + +    L + 
Sbjct: 360 EGKTSGIKNLLFDNFVNGYFECFPPKEIAEQFFKIIDKNHQE----QQLLLKQNHQLTQL 415

Query: 407 RSSFIAAAVTGQIDL 421
           R   +   + GQ+ +
Sbjct: 416 RDFLLPMLMNGQVSV 430


>gi|37678451|ref|NP_933060.1| type I restriction-modification enzyme, specificity subunit [Vibrio
           vulnificus YJ016]
 gi|37197191|dbj|BAC93031.1| type I restriction-modification enzyme, specificity subunit [Vibrio
           vulnificus YJ016]
          Length = 380

 Score = 63.7 bits (153), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 51/405 (12%), Positives = 118/405 (29%), Gaps = 40/405 (9%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K   ++    +          D  Y  +    +G G  L  +       T    + +  Q
Sbjct: 2   KEYTLRDVL-IRQKEAITVEDDAEYKRITIKMNGNGVLLRDEVIGDAIGTKRQFLVSSDQ 60

Query: 86  ILYGKLGPYLRKAIIADFD---GICSTQFLVLQPKDVLPELLQ--GWLLSIDVTQRIEAI 140
            +  K+        I        I +  F        L ++        + +        
Sbjct: 61  FVLSKIDARNGAFGIVPKSCDGAIITGNFWAFDVNSELADVKYLDFMSKTPEFKDFCIVA 120

Query: 141 CEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
            EG T   + D     +  + +P LAEQ  +  KI+    +I+     R   +  L    
Sbjct: 121 SEGTTNRKYLDENKFLDKRILLPELAEQKKVVAKILKFKNKIELARKIRNEILSDLYVLL 180

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
            +    ++                      +    KP   +     RK    + +    L
Sbjct: 181 NSTFHKLI----------------------EGAVYKPMSKVAPLERRKVEIDVNAEYPEL 218

Query: 260 SYGNIIQKLETR-NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
                      +  +       +    + PG++VF  +       ++   +   R + + 
Sbjct: 219 GVRCFGNGTFHKPILNGMDVGTKKLYQMVPGDLVFSNVFAWEGAIAVVKKEDEGR-VGSH 277

Query: 319 AYMAVKPH--GIDSTYLAWLMRSYDLCKVFYAMGSGLRQS---LKFEDVKRLPVLVPPIK 373
            ++   P    + + +L +   + +  +   A   G       L  + ++ + V VP   
Sbjct: 278 RFITCLPKSGVVTADFLCFYFLTTEGLEKIQAASPGGAGRNRTLGLKKLENIEVPVPDYD 337

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           +Q       N   + ++ + +   ++   L+    S +  A  G+
Sbjct: 338 KQL----WFNQLQSYVEKIKQAQSENATELEALMPSILDKAFKGE 378


>gi|167854666|ref|ZP_02477446.1| HP0790-like protein [Haemophilus parasuis 29755]
 gi|167854203|gb|EDS25437.1| HP0790-like protein [Haemophilus parasuis 29755]
          Length = 199

 Score = 63.7 bits (153), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 15/134 (11%), Positives = 42/134 (31%), Gaps = 5/134 (3%)

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
           Y            +                  +  +  +      +D  Y+   +  +  
Sbjct: 55  YHNEYNRNGKTITVAGSGAYAGFIMYWEEPIFVSDAFSIKSDETLLDLKYVYHFLLQHQQ 114

Query: 343 CKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
                  GSG+   +  +D+  L + +PP+  Q +I  +++  T+    L  ++   +  
Sbjct: 115 KIYGMKKGSGV-PHVYPKDLSTLVIPIPPLDVQQEIVRILDAFTSLTAELTAELTAELTS 173

Query: 403 LKER----RSSFIA 412
            +++    R   + 
Sbjct: 174 RQKQYQYFRDKLLN 187



 Score = 52.9 bits (125), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 31/184 (16%), Positives = 62/184 (33%), Gaps = 12/184 (6%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           +   +   T++  G+T         I  +D   G    +   G  + +            
Sbjct: 17  EFKSLGDVTEMKRGKT---------ITAKDASGGDIPVIS--GGQKPAYYHNEYNRNGKT 65

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           I     G Y    +  +     S  F +   + +L  L   +   +   Q+I  + +G+ 
Sbjct: 66  ITVAGSGAYAGFIMYWEEPIFVSDAFSIKSDETLLD-LKYVYHFLLQHQQKIYGMKKGSG 124

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
           + H   K +  + +PIPPL  Q  I   + A T     L  E    +   +++ Q     
Sbjct: 125 VPHVYPKDLSTLVIPIPPLDVQQEIVRILDAFTSLTAELTAELTAELTSRQKQYQYFRDK 184

Query: 206 IVTK 209
           ++  
Sbjct: 185 LLNF 188


>gi|147920565|ref|YP_685638.1| type I restriction modification system, specificity subunit
           (fragment) [uncultured methanogenic archaeon RC-I]
 gi|110621034|emb|CAJ36312.1| type I restriction modification system, specificity subunit
           (fragment) [uncultured methanogenic archaeon RC-I]
          Length = 194

 Score = 63.7 bits (153), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 29/198 (14%), Positives = 65/198 (32%), Gaps = 16/198 (8%)

Query: 226 GLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLET----RNMGLKPESYE 281
             +P         ++ + ++   T   +  +  ++  ++            + +K     
Sbjct: 4   NEIPKMSIGNLVVSVKSGISSYYTNGGDLVVPMVNIKDLQDGNIITRSVDKVKIKDTKLL 63

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD 341
              I+   +IV   I  QN K ++  ++     I ++         I    +   + S  
Sbjct: 64  AKNILSKDDIVVS-IKGQNYKAAVAGSEHEGYAISSNLIAFTLNDRILPEIVEAYLNSPY 122

Query: 342 LCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVI---NVETARIDVLVEKIE 397
             +   A  SG     L    +  + V VPP  +Q  I   +         +D      E
Sbjct: 123 GQRELRARASGSTMPGLNTRTLLEVAVPVPPPDKQASIAGYLRLARERRKLLDR-----E 177

Query: 398 QSIVLLKERRSSFIAAAV 415
           Q I  L++ +++ I   +
Sbjct: 178 QMI--LEQLKNTIIGDVM 193



 Score = 43.2 bits (100), Expect = 0.083,   Method: Composition-based stats.
 Identities = 31/164 (18%), Positives = 65/164 (39%), Gaps = 13/164 (7%)

Query: 20  AIPKHWKVVPIKR-FTKLNTGRT--SESGKD--IIYIGLEDVESGTGKYLPKDGNSRQS- 73
            IPK    + I      + +G +    +G D  +  + ++D++ G       D    +  
Sbjct: 5   EIPK----MSIGNLVVSVKSGISSYYTNGGDLVVPMVNIKDLQDGNIITRSVDKVKIKDT 60

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAI---IADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
                +I +K  I+    G   + A+     +   I S          +LPE+++ +L S
Sbjct: 61  KLLAKNILSKDDIVVSIKGQNYKAAVAGSEHEGYAISSNLIAFTLNDRILPEIVEAYLNS 120

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKI 174
               + + A   G+TM   + + +  + +P+PP  +Q  I   +
Sbjct: 121 PYGQRELRARASGSTMPGLNTRTLLEVAVPVPPPDKQASIAGYL 164


>gi|218562667|ref|YP_002344446.1| restriction modification enzyme [Campylobacter jejuni subsp. jejuni
            NCTC 11168]
 gi|112360373|emb|CAL35169.1| restriction modification enzyme [Campylobacter jejuni subsp. jejuni
            NCTC 11168]
 gi|315927941|gb|EFV07263.1| type I restriction modification DNA specificity domain protein
            [Campylobacter jejuni subsp. jejuni DFVF1099]
          Length = 1339

 Score = 63.7 bits (153), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 47/384 (12%), Positives = 115/384 (29%), Gaps = 24/384 (6%)

Query: 52   GLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAI--IADFDGICST 109
               +++   GK++  + +       +  IF    IL    G  L K       FD     
Sbjct: 958  RYANIKKHKGKFVSANNHILSVKDKSKIIFDFLYILLEICGQKLYKQGQQYPQFDTNIFY 1017

Query: 110  QFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVL 169
             F +  P   + + +      I+      ++               +  +      E   
Sbjct: 1018 SFKIPLPPLEIQKQIVAECEKIEEQHNTLSLSIKEYQKLIKAMLQKSGIIEDNQEYELNS 1077

Query: 170  IREKI---------IAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKM--K 218
            I E +               I+  I+     +E  + K++               ++   
Sbjct: 1078 ILENLQKLESKLDFNLLLSLIEEQISHSEVLVEETQSKERKQDFNAFKNFSKTIQELLQT 1137

Query: 219  DSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLET--RNMGLK 276
             S     G      + + +  L       +       +  +   ++  K     +     
Sbjct: 1138 LSTPPKDGWKRISLKNEQYMELNPSKKEISKLDENMLVSFIEMASVSDKGYIQSKIDRSL 1197

Query: 277  PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI---ITSAYMAVKPHGIDSTYL 333
             E  + Y      +I+   I    +      A+ +   I    T  ++     G+DS++L
Sbjct: 1198 NEVRKGYTYFIENDILIAKITPCMENGKCAIAKNLTNNIGFGSTEFHIFRAKTGLDSSFL 1257

Query: 334  AWLMRSYDLCKV--FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
             + +   ++ +       G+   + +     + L + +PP++ Q  I   I +   +ID+
Sbjct: 1258 FYNLNQQNIREKAALAMTGASGHKRVPISFYENLTIPLPPLEIQEKIVQNIELVEQQIDL 1317

Query: 392  LVEKIEQSIVLLKERRSSFIAAAV 415
            L       +  L++ +   +   +
Sbjct: 1318 L----NLKLEFLEKEKEKILQKYL 1337


>gi|162453797|ref|YP_001616164.1| subunit S of type I restriction-modification system [Sorangium
           cellulosum 'So ce 56']
 gi|161164379|emb|CAN95684.1| subunit S of type I restriction-modification system [Sorangium
           cellulosum 'So ce 56']
          Length = 440

 Score = 63.7 bits (153), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 56/390 (14%), Positives = 110/390 (28%), Gaps = 34/390 (8%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           G +P+ W    +       +G +      +        E   G+Y               
Sbjct: 3   GPLPEGWAETTLASICSHRSGSSKLIKGKL------HAEQRPGRYQGFSAAGPDVWCDG- 55

Query: 79  SIFAKGQ-ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
               +G+ I+   +G    KA  A           V+ P +   ++   +L   D     
Sbjct: 56  -WEHEGEAIVVSAVGTRCGKAFKARGRWSAIANTHVVWPDERAIDVGYLFLHLNDEGFWA 114

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           +    G+       +     P  +PPL EQ  I  K  A    +D       R   LL+ 
Sbjct: 115 KG---GSAQPFVKVRETLERPFALPPLPEQRRIVAKAEALLGEVDAAKARLARSSLLLRR 171

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVG--------------------LVPDHWEVKPF 237
            +QA+++   +  L  D++   +     G                      P+    + +
Sbjct: 172 LRQAVLAAACSGRLTEDLRAPGAAAPAAGPAEPPPRCSTSAPAAPGASSDGPERPLPRSW 231

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID 297
                     N       + S                   +S + Y       ++     
Sbjct: 232 VRCPFGSLVDNHDGRRVPVSSAVRARRRGPYPYYGASGVIDSIDGYLFDGEYLLIAEDGA 291

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSL 357
               + +  +     R  + +    V+P       L +L    +   + + +    +  L
Sbjct: 292 NLLSRNTRVAFAASGRFWVNNHAHVVQPKA--GVVLGYLELLLNSLDLQHHVTGSAQPKL 349

Query: 358 KFEDVKRLPVLVPPIKEQFDITNVINVETA 387
               +  +PV VPP +EQ +I        A
Sbjct: 350 TQAALNGIPVPVPPAEEQAEIVRRAQALFA 379



 Score = 45.2 bits (105), Expect = 0.020,   Method: Composition-based stats.
 Identities = 26/168 (15%), Positives = 52/168 (30%), Gaps = 11/168 (6%)

Query: 226 GLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI 285
           G +P+ W      + +      ++KLI+  + +       Q        +  + +E    
Sbjct: 3   GPLPEGWAETTLAS-ICSHRSGSSKLIKGKLHAEQRPGRYQGFSAAGPDVWCDGWE---- 57

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV 345
              GE +          ++   A+     I  +  +      ID  YL   +        
Sbjct: 58  -HEGEAIVVSAVGTRCGKAF-KARGRWSAIANTHVVWPDERAIDVGYLFLHLNDEGF--- 112

Query: 346 FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
            +A G   +  +K  +    P  +PP+ EQ  I          +D   
Sbjct: 113 -WAKGGSAQPFVKVRETLERPFALPPLPEQRRIVAKAEALLGEVDAAK 159


>gi|293400126|ref|ZP_06644272.1| type I restriction-modification system, specificity subunit
           [Erysipelotrichaceae bacterium 5_2_54FAA]
 gi|291306526|gb|EFE47769.1| type I restriction-modification system, specificity subunit
           [Erysipelotrichaceae bacterium 5_2_54FAA]
          Length = 204

 Score = 63.7 bits (153), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 46/179 (25%), Positives = 76/179 (42%), Gaps = 7/179 (3%)

Query: 30  IKRFTKLNTGR-TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
                +    + + +SG +   I LE +E GTG+ L    ++ QS   T      G +L+
Sbjct: 14  FSEIARRRKEKYSPDSGVEYPCIELEHIEQGTGRLLGNVSSTTQSSIKTA--ARSGDVLF 71

Query: 89  GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSH 148
           GKL PYLRK   A+ D +CS++     P + +      +L+  +   R+  I  G  M  
Sbjct: 72  GKLRPYLRKFAFAEQDIVCSSEIWAFIPSEYVIPKYLYYLVQTEHFLRVANISSGTKMPR 131

Query: 149 ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
           A+W  I   P  IP +  Q  I   +      ID  I      + +L   ++ L+  + 
Sbjct: 132 AEWANIEKEPFDIPCILIQEKIVSIL----EAIDKKICTSGDSLRMLINFREGLLQQLF 186



 Score = 59.4 bits (142), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 17/129 (13%), Positives = 47/129 (36%), Gaps = 7/129 (5%)

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF 346
             G+++F  +     K +     ++     +  +  +    +   YL +L+++    +V 
Sbjct: 65  RSGDVLFGKLRPYLRKFAFAEQDIV---CSSEIWAFIPSEYVIPKYLYYLVQTEHFLRVA 121

Query: 347 YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
                      ++ ++++ P  +P I  Q  I +++      ID  +     S+ +L   
Sbjct: 122 NISSGTKMPRAEWANIEKEPFDIPCILIQEKIVSILEA----IDKKICTSGDSLRMLINF 177

Query: 407 RSSFIAAAV 415
           R   +    
Sbjct: 178 REGLLQQLF 186


>gi|257457140|ref|ZP_05622317.1| putative DNA methylase-type I restriction-modification system
           [Treponema vincentii ATCC 35580]
 gi|257445519|gb|EEV20585.1| putative DNA methylase-type I restriction-modification system
           [Treponema vincentii ATCC 35580]
          Length = 440

 Score = 63.7 bits (153), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 41/383 (10%), Positives = 104/383 (27%), Gaps = 33/383 (8%)

Query: 45  GKDIIY-IGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADF 103
            KD  Y +   D+E+       K  +    +  + S    G++L  K+G   R  I+   
Sbjct: 30  EKDYAYMVRTTDLETNNFSDNVKYVSKSTYEFLSKSKVFGGEVLINKIGSPGRTYIMPKL 89

Query: 104 DGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPP 163
           D   S    +   +     + +  L     +   + I +                  +  
Sbjct: 90  DMPISLGMNLFLLRLKGDVIDENTLYLFLNSTVGKNIIQRKVNGTVPLTIDKKAIRSLYV 149

Query: 164 LAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVK------- 216
                  R+++      ++              + +  L+S +  K  NP  +       
Sbjct: 150 PVFSHEFRKRLNYLMSDLNN---ASKEANTKYTQAENLLISELGLKNFNPSNEKVSIKTL 206

Query: 217 -------------MKDSGIEWVGLVPDHWEVKPFFALVTELNRKN-----TKLIESNILS 258
                              E      ++  V+    + + +N              +I  
Sbjct: 207 KESFLRTGRIDSEYYQPKYEIFDEKINNIGVEKLENICSLINYGTVPTSPYVKNNKSIPY 266

Query: 259 LSYGNIIQKLETRNMGLK--PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
           +   N+       +       E  +        +I+   +    D   +   Q       
Sbjct: 267 IKGMNLKNCFIVGDFDEIENTEDLQDKFFTKENDIIISQMGTVGDIGVVTKEQENYLFAS 326

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM--GSGLRQSLKFEDVKRLPVLVPPIKE 374
            +    +     +  ++   +++       +     + +RQ+     +K +P+ +   + 
Sbjct: 327 FTIRARLNDERFNPYFVGAYIQNVAKDFYLHRNIAQASVRQNTDLPTIKNMPIPLVKKEV 386

Query: 375 QFDITNVINVETARIDVLVEKIE 397
           Q +I + I           E +E
Sbjct: 387 QDEIASYIKQSMEYSKKAKELLE 409



 Score = 46.3 bits (108), Expect = 0.009,   Method: Composition-based stats.
 Identities = 15/148 (10%), Positives = 43/148 (29%), Gaps = 8/148 (5%)

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
              + +      + +   V  GE++   I        +    +     +    + +K   
Sbjct: 49  DNVKYVSKSTYEFLSKSKVFGGEVLINKIGSPGRTYIMPKLDMPISLGMNLFLLRLKGDV 108

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGLRQ-SLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
           ID   L   + S     +     +G    ++  + ++ L V V       +    +N   
Sbjct: 109 IDENTLYLFLNSTVGKNIIQRKVNGTVPLTIDKKAIRSLYVPVFS----HEFRKRLNYLM 164

Query: 387 ARIDVLVEKIEQSIVLLKERRSSFIAAA 414
           + ++   ++        +      I+  
Sbjct: 165 SDLNNASKEANTKYTQAENL---LISEL 189


>gi|270292638|ref|ZP_06198849.1| type I restriction-modification enzyme, S subunit, EcoA family
           [Streptococcus sp. M143]
 gi|270278617|gb|EFA24463.1| type I restriction-modification enzyme, S subunit, EcoA family
           [Streptococcus sp. M143]
          Length = 228

 Score = 63.3 bits (152), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 21/177 (11%), Positives = 54/177 (30%), Gaps = 13/177 (7%)

Query: 244 LNRKNTKLIESNILSLSYGNIIQKLETRNM----GLKPESYETYQIVDPGEIVFRFIDLQ 299
                   +   I  +   N+                        IV+  +++       
Sbjct: 56  PRGGRESYVNEGIALIRSMNVYDGKFIFKDLAYLTNVQAEKLNNVIVESDDVLLNITGAS 115

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA-WLMRSYDLCKVFYAMG---SGLRQ 355
             +  +    ++   +     +      + S      L+ + +   +   +G      RQ
Sbjct: 116 VSRCCIVPQNILPARVNQHVSIIRCKKHLLSPIFLNQLLITSEFKSLLLKIGESSGATRQ 175

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE-RRSSFI 411
           ++    ++ L + +PP+  Q +  + +    A++D      E  I L +   +SS I
Sbjct: 176 AITKNQIEELYIPLPPLSLQNEFADFV----AQVDKSQFACEIVIKLWRNSLKSSII 228


>gi|238810192|dbj|BAH69982.1| hypothetical protein [Mycoplasma fermentans PG18]
          Length = 225

 Score = 63.3 bits (152), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 30/192 (15%), Positives = 66/192 (34%), Gaps = 9/192 (4%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQS 73
            IP++W+V  I    K+  G T  +        +I ++   +V +       K  N +  
Sbjct: 34  KIPENWEVKKIAEICKIFLGGTPSTKNREYWNGEINWLNSGEVANFPIIDSEKTINEKGL 93

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
             S   +  KG ++    G      +  D    C  Q +V   ++ L ++   +    + 
Sbjct: 94  KNSNTKLLKKGTVVISITGNIRVSYLAIDS---CINQSIVGIEENELLKIGYLYPFLKNK 150

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            + +     G    H +   I N+ + +PP     +          +I  +     + I+
Sbjct: 151 IEFLIRSSTGNCQKHINKNFIENLKIVLPPKNVLDIFNNLTQNIYAKISQISLMTKKLIK 210

Query: 194 LLKEKKQALVSY 205
              +    L++ 
Sbjct: 211 FKNKLLPLLINQ 222



 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 30/234 (12%), Positives = 82/234 (35%), Gaps = 19/234 (8%)

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVG-LVPDHWEVKPFFALVTELNR-----KN 248
           ++   QA+ +    +  +     K    E +   +P++WEVK    +           KN
Sbjct: 1   MQVMGQAIFNRWFLQFEHFKKDNKFKYNEDLNLKIPENWEVKKIAEICKIFLGGTPSTKN 60

Query: 249 TKLIESNILSLSYG---NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
            +     I  L+ G   N       + +  K       +++  G +V           ++
Sbjct: 61  REYWNGEINWLNSGEVANFPIIDSEKTINEKGLKNSNTKLLKKGTVVISITG------NI 114

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRL 365
           R + +     I  + + ++ + +      +      +  +  +     ++ +    ++ L
Sbjct: 115 RVSYLAIDSCINQSIVGIEENELLKIGYLYPFLKNKIEFLIRSSTGNCQKHINKNFIENL 174

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
            +++PP     ++ ++ N  T  I   + +I      L + ++  +   +  QI
Sbjct: 175 KIVLPP----KNVLDIFNNLTQNIYAKISQISLMTKKLIKFKNKLLPLLINQQI 224


>gi|225854058|ref|YP_002735570.1| type I restriction enzyme [Streptococcus pneumoniae JJA]
 gi|225722826|gb|ACO18679.1| type I restriction enzyme [Streptococcus pneumoniae JJA]
          Length = 326

 Score = 63.3 bits (152), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 17/91 (18%), Positives = 35/91 (38%), Gaps = 5/91 (5%)

Query: 333 LAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
           + + + S +         +G    ++   +   L + +PP+ EQ  I   I     ++D 
Sbjct: 1   MKYYLLSDNFINRVNNKSTGTSYPAINDYNFNLLLIALPPLSEQQRIVEAIESALEKVDE 60

Query: 392 LVEKIEQSIVLLKE----RRSSFIAAAVTGQ 418
             E   +   L KE     + S +  A+ G+
Sbjct: 61  YAESYNRLEQLDKEFPDKLKKSILQYAMQGK 91



 Score = 52.9 bits (125), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 43/325 (13%), Positives = 100/325 (30%), Gaps = 57/325 (17%)

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           ++ +LLS +   R+     G +    +      + + +PPL+EQ  I E I +   ++D 
Sbjct: 1   MKYYLLSDNFINRVNNKSTGTSYPAINDYNFNLLLIALPPLSEQQRIVEAIESALEKVDE 60

Query: 184 LITERIRFIELLKEKK----QALVSYIVTKGLNPDVKMKDS------------------- 220
                 R  +L KE      ++++ Y +   L       +S                   
Sbjct: 61  YAESYNRLEQLDKEFPDKLKKSILQYAMQGKLVEQDPNDESVEVLLEKIRAEKQKLFEEG 120

Query: 221 ----------------GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
                              + G +P +W V     + +     + K  + +I +     I
Sbjct: 121 KIKKKDLDISIVSQGDDNSYYGNIPMNWVVIKIKDIFSMNTGLSYKKGDLSINN-KGVRI 179

Query: 265 IQKLETRNMGLKPESYETYQ----------IVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
           I+    + +       + Y            +   +++                     G
Sbjct: 180 IRGGNIKPLEFSLLDNDYYIDTQFISSEQVYLKHNQLITPVSTSLEHIGKFARIDKDYDG 239

Query: 315 IITSAYMA----VKPHGIDSTYLAWLMRSYDLCKVFY---AMGSGLRQSLKFEDVKRLPV 367
           ++   ++      +   I S +L + + S    K       +      ++    +  L +
Sbjct: 240 VVAGGFIFQLTPFESSEIISKFLLFNLSSPLFYKQLKAITKLSGQALYNIPKTTLSELLI 299

Query: 368 LVPPIKEQFDITNVINVETARIDVL 392
            + P +EQ  IT  +     +++ L
Sbjct: 300 PLAPFEEQELITQKVEKLFEKVNQL 324



 Score = 45.6 bits (106), Expect = 0.016,   Method: Composition-based stats.
 Identities = 36/184 (19%), Positives = 74/184 (40%), Gaps = 17/184 (9%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           G IP +W V+ IK    +NTG + +        K +  I   +++      L  D     
Sbjct: 142 GNIPMNWVVIKIKDIFSMNTGLSYKKGDLSINNKGVRIIRGGNIKPLEFSLLDNDYYIDT 201

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIA-----DFDGICSTQFLV----LQPKDVLPEL 123
              S+  ++ K   L   +   L           D+DG+ +  F+      +  +++ + 
Sbjct: 202 QFISSEQVYLKHNQLITPVSTSLEHIGKFARIDKDYDGVVAGGFIFQLTPFESSEIISKF 261

Query: 124 LQGWLLSIDVTQRIEAICE--GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
           L   L S    ++++AI +  G  + +     +  + +P+ P  EQ LI +K+     ++
Sbjct: 262 LLFNLSSPLFYKQLKAITKLSGQALYNIPKTTLSELLIPLAPFEEQELITQKVEKLFEKV 321

Query: 182 DTLI 185
           + L 
Sbjct: 322 NQLW 325


>gi|303262775|ref|ZP_07348713.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP14-BS292]
 gi|302636097|gb|EFL66594.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP14-BS292]
          Length = 191

 Score = 63.3 bits (152), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 30/178 (16%), Positives = 50/178 (28%), Gaps = 2/178 (1%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V + +      G   +  +D    G E +         K  N          I   G 
Sbjct: 2   KKVKLGQVATFINGYAFKP-QDWSSEGKEIIRIQNLTKTSKGINYYSGTIDKKYIVEAGD 60

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           IL    G  L          + +     +    +  +      +     Q       G+T
Sbjct: 61  ILISWSGT-LGVFQWCGRSAVLNQHIFKVVFDKIDIDKSYFKYVVEKGLQDAVKHTHGST 119

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           M H   K   NI +P   L EQ  I  ++   +  I     +      L+K +    +
Sbjct: 120 MKHLTKKYFDNIIVPYTNLGEQQRIASELDLLSKLILRRQEQLEELNLLVKSQFACEI 177



 Score = 54.8 bits (130), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/142 (11%), Positives = 42/142 (29%), Gaps = 10/142 (7%)

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
            ++ +     + +   IV+ G+I+  +                   ++      V    I
Sbjct: 39  TSKGINYYSGTIDKKYIVEAGDILISWSGTLG-----VFQWCGRSAVLNQHIFKVVFDKI 93

Query: 329 DSTYLAW-LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           D     +  +    L            + L  +    + V    + EQ  I + ++    
Sbjct: 94  DIDKSYFKYVVEKGLQDAVKHTHGSTMKHLTKKYFDNIIVPYTNLGEQQRIASELD---- 149

Query: 388 RIDVLVEKIEQSIVLLKERRSS 409
            +  L+ + ++ +  L     S
Sbjct: 150 LLSKLILRRQEQLEELNLLVKS 171


>gi|281421787|ref|ZP_06252786.1| type I restriction-modification system, S subunit [Prevotella copri
           DSM 18205]
 gi|281404164|gb|EFB34844.1| type I restriction-modification system, S subunit [Prevotella copri
           DSM 18205]
          Length = 296

 Score = 63.3 bits (152), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 24/153 (15%), Positives = 56/153 (36%), Gaps = 4/153 (2%)

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
           K+       + +   T      G+I++  +    +K  +      +    T         
Sbjct: 40  KIIQHLNKNERKINGTRHKFQKGQILYSKLRTYLNKVLVAPN---DGFCTTEIMAFGSYG 96

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
            + + Y+ +++RS          G G+    L   D     + +PP+ EQ  I N I   
Sbjct: 97  ILSNNYICYVLRSLYFLDYTLQCGYGVKMPRLSTTDACNGLIPLPPLAEQERIVNEIQRL 156

Query: 386 TARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            + ID++    +     +++ ++  +  A+ G+
Sbjct: 157 FSIIDIVENGKDGLQTAIQQAKNKILDHAIHGK 189



 Score = 60.6 bits (145), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 45/203 (22%), Positives = 76/203 (37%), Gaps = 4/203 (1%)

Query: 27  VVPIKRFTKL---NTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
              +   T        +  +       + LED+E  T K +     + +    T   F K
Sbjct: 2   WTTVGEITNYGDSVNVQVEDIDNSDWVLELEDIEKDTAKIIQHLNKNERKINGTRHKFQK 61

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL-LSIDVTQRIEAICE 142
           GQILY KL  YL K ++A  DG C+T+ +      +L      ++  S+           
Sbjct: 62  GQILYSKLRTYLNKVLVAPNDGFCTTEIMAFGSYGILSNNYICYVLRSLYFLDYTLQCGY 121

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           G  M         N  +P+PPLAEQ  I  +I      ID +   +      +++ K  +
Sbjct: 122 GVKMPRLSTTDACNGLIPLPPLAEQERIVNEIQRLFSIIDIVENGKDGLQTAIQQAKNKI 181

Query: 203 VSYIVTKGLNPDVKMKDSGIEWV 225
           + + +   L P     +   E +
Sbjct: 182 LDHAIHGKLVPQDPNDEPASELL 204


>gi|308190351|ref|YP_003923282.1| hypothetical protein MFE_08370 [Mycoplasma fermentans JER]
 gi|307625093|gb|ADN69398.1| hypothetical protein MFE_08370 [Mycoplasma fermentans JER]
          Length = 222

 Score = 63.3 bits (152), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 30/192 (15%), Positives = 66/192 (34%), Gaps = 9/192 (4%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQS 73
            IP++W+V  I    K+  G T  +        +I ++   +V +       K  N +  
Sbjct: 31  KIPENWEVKKIAEICKIFLGGTPSTKNREYWNGEINWLNSGEVANFPIIDSEKTINEKGL 90

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
             S   +  KG ++    G      +  D    C  Q +V   ++ L ++   +    + 
Sbjct: 91  KNSNTKLLKKGTVVISITGNIRVSYLAIDS---CINQSIVGIEENELLKIGYLYPFLKNK 147

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            + +     G    H +   I N+ + +PP     +          +I  +     + I+
Sbjct: 148 IEFLIRSSTGNCQKHINKNFIENLKIVLPPKNVLDIFNNLTQNIYAKISQISLMTKKLIK 207

Query: 194 LLKEKKQALVSY 205
              +    L++ 
Sbjct: 208 FKNKLLPLLINQ 219



 Score = 55.2 bits (131), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 30/231 (12%), Positives = 80/231 (34%), Gaps = 19/231 (8%)

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVG-LVPDHWEVKPFFALVTELNR-----KNTKL 251
             QA+ +    +  +     K    E +   +P++WEVK    +           KN + 
Sbjct: 1   MGQAIFNRWFLQFEHFKKDNKFKYNEDLNLKIPENWEVKKIAEICKIFLGGTPSTKNREY 60

Query: 252 IESNILSLSYG---NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
               I  L+ G   N       + +  K       +++  G +V           ++R +
Sbjct: 61  WNGEINWLNSGEVANFPIIDSEKTINEKGLKNSNTKLLKKGTVVISITG------NIRVS 114

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVL 368
            +     I  + + ++ + +      +      +  +  +     ++ +    ++ L ++
Sbjct: 115 YLAIDSCINQSIVGIEENELLKIGYLYPFLKNKIEFLIRSSTGNCQKHINKNFIENLKIV 174

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
           +PP     ++ ++ N  T  I   + +I      L + ++  +   +  QI
Sbjct: 175 LPP----KNVLDIFNNLTQNIYAKISQISLMTKKLIKFKNKLLPLLINQQI 221


>gi|32263453|gb|AAP78481.1| S.AhdI [Aeromonas hydrophila]
          Length = 227

 Score = 63.3 bits (152), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 24/131 (18%), Positives = 53/131 (40%), Gaps = 8/131 (6%)

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP--HGIDSTYLAWLM 337
               +I   G+I+F  +  + +K  L   +  E GI +  ++ + P    +++ Y+  ++
Sbjct: 86  KSRSKIFGLGDILFGRLRPELNKVYLVDGEPSE-GICSGEFIVLAPITSRVNARYVRHII 144

Query: 338 RSYDLCKVFYA-MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
            S  + K             +  +D+  + V VPP++ Q  I   +      +  L  ++
Sbjct: 145 ASPFVTKFIEKFRVGASLPRIAADDLLGIKVPVPPLEVQEQIARRLAEMDQELRGLRLRV 204

Query: 397 E----QSIVLL 403
           E    Q +  L
Sbjct: 205 EELPSQQLEAL 215



 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 46/161 (28%), Positives = 74/161 (45%), Gaps = 8/161 (4%)

Query: 30  IKRFTKLNTGRTSESGKD---IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQI 86
           +++      G      +    I Y+GLE+V S TG+ +  +  +  S  S   IF  G I
Sbjct: 38  LRQLVSEKKGAIDPQKQGERQISYLGLENVRSQTGELVGFEPRAASSIKSRSKIFGLGDI 97

Query: 87  LYGKLGPYLRKAIIADF---DGICSTQFLVLQP--KDVLPELLQGWLLSIDVTQRIEAIC 141
           L+G+L P L K  + D    +GICS +F+VL P    V    ++  + S  VT+ IE   
Sbjct: 98  LFGRLRPELNKVYLVDGEPSEGICSGEFIVLAPITSRVNARYVRHIIASPFVTKFIEKFR 157

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
            GA++       +  I +P+PPL  Q  I  ++      + 
Sbjct: 158 VGASLPRIAADDLLGIKVPVPPLEVQEQIARRLAEMDQELR 198


>gi|148927588|ref|ZP_01811059.1| restriction modification system DNA specificity domain [candidate
           division TM7 genomosp. GTL1]
 gi|147887064|gb|EDK72561.1| restriction modification system DNA specificity domain [candidate
           division TM7 genomosp. GTL1]
          Length = 200

 Score = 63.3 bits (152), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 24/160 (15%), Positives = 54/160 (33%), Gaps = 4/160 (2%)

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
             +   E + + +  E    Y +++   +     D     R       +E  I  +    
Sbjct: 39  GYLYLDEIKTINVTAEELRKYSLMNGDILFTEGGDKDKLGRGTIWHGEIELCIHQNHIFR 98

Query: 323 VKPH--GIDSTYLAWLMRSYDLCKVFYAMGSGLR--QSLKFEDVKRLPVLVPPIKEQFDI 378
            +         Y+++  ++      F +         SL    +K L +   P+ +Q +I
Sbjct: 99  ARVDSGQFVPEYISYATKTTRARDYFLSKAKQTTNLASLNMTSLKNLQLPSIPLAQQKEI 158

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
              I  + + I    +++  +    K  R S +A A  G+
Sbjct: 159 VESIVTKLSEIKSARKELIVAHHRSKALRQSILAKAFKGE 198



 Score = 48.3 bits (113), Expect = 0.003,   Method: Composition-based stats.
 Identities = 31/198 (15%), Positives = 67/198 (33%), Gaps = 14/198 (7%)

Query: 28  VPIKRFTKLNTGRTSESG------KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           V      ++  G T           +  Y+ + +V+ G          +  ++       
Sbjct: 2   VEFGDIAEIKGGITKGRKLRGMPIGETPYLRVANVQDGYLYLDEIKTINVTAEELRKYSL 61

Query: 82  AKGQILYGKLGP---YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
             G IL+ + G      R  I      +C  Q  + + +    + +  ++     T R  
Sbjct: 62  MNGDILFTEGGDKDKLGRGTIWHGEIELCIHQNHIFRARVDSGQFVPEYISYATKTTRAR 121

Query: 139 AIC-----EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
                   +   ++  +   + N+ +P  PLA+Q  I E I+ +   I +   E I    
Sbjct: 122 DYFLSKAKQTTNLASLNMTSLKNLQLPSIPLAQQKEIVESIVTKLSEIKSARKELIVAHH 181

Query: 194 LLKEKKQALVSYIVTKGL 211
             K  +Q++++      L
Sbjct: 182 RSKALRQSILAKAFKGEL 199


>gi|307262547|ref|ZP_07544187.1| Type I restriction enzyme EcoAI specificity protein [Actinobacillus
           pleuropneumoniae serovar 12 str. 1096]
 gi|306867759|gb|EFM99595.1| Type I restriction enzyme EcoAI specificity protein [Actinobacillus
           pleuropneumoniae serovar 12 str. 1096]
          Length = 74

 Score = 63.3 bits (152), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 10/63 (15%), Positives = 23/63 (36%)

Query: 331 TYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
            Y+ + + S      F  + +     +   ++    + +PP+ EQ  I   I    + + 
Sbjct: 10  QYIYYYLSSPLFRNDFDGINTTTINQITQNNLNNRLIPLPPLNEQKRIVEKIEKLFSTLQ 69

Query: 391 VLV 393
            L 
Sbjct: 70  NLE 72


>gi|260440925|ref|ZP_05794741.1| Type I restriction-modification system specificity determinant
           [Neisseria gonorrhoeae DGI2]
          Length = 253

 Score = 63.3 bits (152), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 28/251 (11%), Positives = 68/251 (27%), Gaps = 14/251 (5%)

Query: 164 LAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIE 223
           +  Q  I + +   T    TL       + L K + +     +    L+ D ++     +
Sbjct: 1   METQQKIVKILDKFTELEATLEATLEAELALRKRQYRYYRDLL----LDFDNQIGGGIAD 56

Query: 224 WVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY 283
                  +   K    +      +      +    +   N++Q  E + +     S    
Sbjct: 57  GYQCRLKNVVWKTLGEVAEYSKNRICSDKLNEHNYVGVDNLLQNREGKKLSGYVPSEGKM 116

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC 343
                 +I+   I     K           G +    + V    ++  YL  ++      
Sbjct: 117 TEYIVNDILIGNIRPYLKKIWQADCTGGTNGDV--LVIRVTDEKVNPKYLYQVLADDKFF 174

Query: 344 KVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL-------VEK 395
                   G          + +  + +PP+ EQ  I  ++         +       +  
Sbjct: 175 AFNMKHAKGAKMPRGSKAAIMQYKIPIPPLPEQEKIVAILGKFDTLTHSVSEGLPHEIAL 234

Query: 396 IEQSIVLLKER 406
             +     +E+
Sbjct: 235 RRKQYEYYREQ 245



 Score = 48.6 bits (114), Expect = 0.002,   Method: Composition-based stats.
 Identities = 40/187 (21%), Positives = 70/187 (37%), Gaps = 8/187 (4%)

Query: 27  VVPIKRFTKLNTGRT-SESGKDIIYIGLEDV-ESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
              +    + +  R  S+   +  Y+G++++ ++  GK L   G        T  I    
Sbjct: 67  WKTLGEVAEYSKNRICSDKLNEHNYVGVDNLLQNREGKKLS--GYVPSEGKMTEYIV--N 122

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQP--KDVLPELLQGWLLSIDVTQRIEAICE 142
            IL G + PYL+K   AD  G  +   LV++   + V P+ L   L             +
Sbjct: 123 DILIGNIRPYLKKIWQADCTGGTNGDVLVIRVTDEKVNPKYLYQVLADDKFFAFNMKHAK 182

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           GA M       I    +PIPPL EQ  I   +        ++       I L +++ +  
Sbjct: 183 GAKMPRGSKAAIMQYKIPIPPLPEQEKIVAILGKFDTLTHSVSEGLPHEIALRRKQYEYY 242

Query: 203 VSYIVTK 209
              ++  
Sbjct: 243 REQLLAF 249


>gi|329955586|ref|ZP_08296494.1| type I restriction modification DNA specificity domain protein
           [Bacteroides clarus YIT 12056]
 gi|328525989|gb|EGF53013.1| type I restriction modification DNA specificity domain protein
           [Bacteroides clarus YIT 12056]
          Length = 333

 Score = 63.3 bits (152), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 29/148 (19%), Positives = 55/148 (37%), Gaps = 11/148 (7%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYL---PKDGNS 70
            IP  W+V  +  FT++  G T  +      G DI++I  +D+     K++    ++   
Sbjct: 49  EIPIDWQVKNLIDFTEIKNGATPSTADEANYGGDIVWITPKDLSDQQSKFVYQGERNITK 108

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
           +  D+ + S+     +L     P      IA  D   +  F    PK +    +  +   
Sbjct: 109 QGFDSCSTSMLPINSVLMSSRAPI-GLVSIAKNDVCTNQGFKSFIPKKMEDS-IYLYYYI 166

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIP 158
               ++IE +  G T        +   P
Sbjct: 167 KHHIKQIEQLGSGTTFKEVSRDDLCKFP 194



 Score = 44.8 bits (104), Expect = 0.030,   Method: Composition-based stats.
 Identities = 22/206 (10%), Positives = 61/206 (29%), Gaps = 25/206 (12%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKL------ETRNMGLKPESY 280
            +P  W+VK         N       +          I  K       +    G +  + 
Sbjct: 49  EIPIDWQVKNLIDFTEIKNGATPSTADEANYGGDIVWITPKDLSDQQSKFVYQGERNITK 108

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY 340
           + +       +    + + +       +           + +  P  ++ +   +    +
Sbjct: 109 QGFDSCSTSMLPINSVLMSSRAPIGLVSIAKNDVCTNQGFKSFIPKKMEDSIYLYYYIKH 168

Query: 341 DLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKE--------QFDITNVINVETARIDVL 392
            + ++         + +  +D+ + P+LV   KE        Q  I    + +       
Sbjct: 169 HIKQIEQLGSGTTFKEVSRDDLCKFPILVVGAKESYRQWAELQNGIA---DKQF------ 219

Query: 393 VEKIEQSIVLLKERRSSFIAAAVTGQ 418
              +++ I +L ++R   +   + GQ
Sbjct: 220 --VLQKEIAILTKQRDELLPLLMNGQ 243


>gi|218263899|ref|ZP_03477847.1| hypothetical protein PRABACTJOHN_03537 [Parabacteroides johnsonii
           DSM 18315]
 gi|218222410|gb|EEC95060.1| hypothetical protein PRABACTJOHN_03537 [Parabacteroides johnsonii
           DSM 18315]
          Length = 234

 Score = 63.3 bits (152), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 54/247 (21%), Positives = 99/247 (40%), Gaps = 21/247 (8%)

Query: 27  VVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQI 86
           VV +    + +  + ++S +D+  +GLE +     ++   D N+   D +    F KGQ+
Sbjct: 3   VVKLGDVARESRLKWTKSKQDVPIVGLEHLIPDEIRFDAYDINT---DNTFSKRFVKGQV 59

Query: 87  LYGKLGPYLRKAIIADFDGICSTQFLVLQPK--DVLPELLQGWLLSIDVTQRIEAICEGA 144
           L+G+   Y RKA IA+FDGICS    V+Q     +LPELL   + +            G+
Sbjct: 60  LFGRRRAYQRKAAIAEFDGICSGDITVIQAIEGKMLPELLPFIIQTPVFFDYANRGSAGS 119

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
                 W+ + +    +PPL EQ ++ +K+             +  + +LL    + + S
Sbjct: 120 LSPRVKWEHLADYEFELPPLEEQKILADKL-------WAAYRLKEAYKKLLVATDEMVKS 172

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
             +    +P    K    + +                  L  K  ++ +   + L  GNI
Sbjct: 173 QFIEMVGDPRNNPKGWPTKRLSE---------LAEYSIGLTYKPEQICDDGTIVLRSGNI 223

Query: 265 IQKLETR 271
                + 
Sbjct: 224 QDGKISF 230



 Score = 50.2 bits (118), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 15/136 (11%), Positives = 45/136 (33%), Gaps = 3/136 (2%)

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
                + ++  +   ++I      +           +    G+++F        K ++  
Sbjct: 16  KWTKSKQDVPIVGLEHLIPDEIRFDAYDINTDNTFSKRFVKGQVLFGRRRAYQRKAAIAE 75

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA-MGSGLRQSLKFEDVKRLP 366
              +  G IT   +      +    L +++++              L   +K+E +    
Sbjct: 76  FDGICSGDIT--VIQAIEGKMLPELLPFIIQTPVFFDYANRGSAGSLSPRVKWEHLADYE 133

Query: 367 VLVPPIKEQFDITNVI 382
             +PP++EQ  + + +
Sbjct: 134 FELPPLEEQKILADKL 149



 Score = 36.3 bits (82), Expect = 9.9,   Method: Composition-based stats.
 Identities = 7/46 (15%), Positives = 16/46 (34%), Gaps = 4/46 (8%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKY 63
           PK W    +    + + G T +         I +   +++ G   +
Sbjct: 185 PKGWPTKRLSELAEYSIGLTYKPEQICDDGTIVLRSGNIQDGKISF 230


>gi|886052|gb|AAC44216.1| restriction modification system S subunit [Spiroplasma citri]
          Length = 294

 Score = 63.3 bits (152), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 49/300 (16%), Positives = 92/300 (30%), Gaps = 18/300 (6%)

Query: 111 FLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLI 170
           F +             +LL     + +       T  +   K I      IP L EQ  I
Sbjct: 3   FSMEINNLYFSTEYLYYLLLKFKKKELNKFIIKQTQPNLSKKIINQFIFKIPSLQEQTKI 62

Query: 171 REKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV-TKGLNPDVKMKDSGIEWVGLVP 229
                     ID  I      + LL+++KQ  ++ +   +   P ++ K    EW     
Sbjct: 63  VNF----FSIIDRKIELIKEQLSLLEKQKQYYLNNMFANEKSYPKIRFKGFNDEWKSKKI 118

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG 289
                       +  N KN       I         + L      +   + +   IV   
Sbjct: 119 KELGNIKTGKTPSTKNEKNWLNDVLWITIPDM--TKKYLTNSKKKISLMASKKNPIVKEK 176

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
            I+F  I    +     +     + I +           D     + +  Y+  K+    
Sbjct: 177 SILFSCIGTIGNIGITTTITSFNQQINS------ISSIKDGVEYVYYLFQYNTEKIKSYS 230

Query: 350 GSGLRQSLKFEDVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
            +     +     + + + V    KEQ  I N      + ID  +E I++ + LL++++ 
Sbjct: 231 SAQTLPMINKNYFENIEIFVSLNYKEQTKIANF----FSIIDRKIELIKEQLSLLEKQKQ 286



 Score = 49.8 bits (117), Expect = 9e-04,   Method: Composition-based stats.
 Identities = 34/190 (17%), Positives = 68/190 (35%), Gaps = 14/190 (7%)

Query: 24  HWKVVPIKRFTKLNTGRTSESG------KDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
            WK   IK    + TG+T  +        D+++I + D+         K  +   S  + 
Sbjct: 112 EWKSKKIKELGNIKTGKTPSTKNEKNWLNDVLWITIPDMTKKYLTNSKKKISLMASKKNP 171

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
             I  +  IL+  +G      I      I S    +     +   +   + L    T++I
Sbjct: 172 --IVKEKSILFSCIGTIGNIGITTT---ITSFNQQINSISSIKDGVEYVYYLFQYNTEKI 226

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           ++     T+   +     NI + +    ++     KI      ID  I      + LL++
Sbjct: 227 KSYSSAQTLPMINKNYFENIEIFVSLNYKEQ---TKIANFFSIIDRKIELIKEQLSLLEK 283

Query: 198 KKQALVSYIV 207
           +KQ  ++ + 
Sbjct: 284 QKQYYLNNMF 293


>gi|167972319|ref|ZP_02554596.1| restriction-modification enzyme MpuUVI S subunit [Ureaplasma
           urealyticum serovar 5 str. ATCC 27817]
 gi|184209400|gb|EDU06443.1| restriction-modification enzyme MpuUVI S subunit [Ureaplasma
           urealyticum serovar 5 str. ATCC 27817]
          Length = 393

 Score = 63.3 bits (152), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 43/392 (10%), Positives = 122/392 (31%), Gaps = 26/392 (6%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
            +    ++ T    ++  +I   GL  +            N+         ++    I  
Sbjct: 6   KLSSVFEIITTGKQKNTFNINLEGLYPL------ISASTANNGIMGYVDNYLYDGQNITI 59

Query: 89  GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ-GWLLSIDVTQRIEAICEGATMS 147
            ++G             +    F++ +    + ++    +LL ++  ++I +I  G T  
Sbjct: 60  SRVGNAGTTFYHEGKISLTDNCFILSKINKKIAKVKYVFYLLKLNEDKKIRSISHGTTRK 119

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
             +   + N+ + +P +  Q  I   I                      +K    +  I+
Sbjct: 120 IINKTDLDNLIIYLPSIEIQNAIISIIEPHEKLFVKYSNLVDISSVENAKKDVDNLISII 179

Query: 208 TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK 267
                    +K+  I++      +      ++ + + N K   L +   ++       + 
Sbjct: 180 EPIEKVINNIKN--IKFKIESLVNKYFDFLYSNLEDSNFKKYILGDLFTINRGQIINSKY 237

Query: 268 LETRNMGL-------KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
           +E+            K      Y      +  F  I            Q     I    +
Sbjct: 238 IESNIGSYPVISSNTKNNGVFGYINSYMYDGEFITISADGAYAGTVFLQNGRFSITNVCF 297

Query: 321 MAVKPHGID----STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
           + +K + ID    + ++ ++++         +     R +++   +K + + +P I+ Q 
Sbjct: 298 ILIKNNDIDFKFSNKFVYYILKKEQEVNKLKSQVGSSRPAVREYSLKEIKINLPNIEIQE 357

Query: 377 DITNV------INVETARIDVLVEKIEQSIVL 402
             + +      ++ +  +I+ ++      I  
Sbjct: 358 KFSKIVEPLLNLSTKANKIEKILNDSLLKITK 389


>gi|219870606|ref|YP_002474981.1| Type I restriction-modification system, S subunit/Type I
           restriction modification DNA specificity
           domain-containing protein [Haemophilus parasuis SH0165]
 gi|219690810|gb|ACL32033.1| Type I restriction-modification system, S subunit/Type I
           restriction modification DNA specificity
           domain-containing protein [Haemophilus parasuis SH0165]
          Length = 454

 Score = 63.3 bits (152), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 31/233 (13%), Positives = 80/233 (34%), Gaps = 21/233 (9%)

Query: 189 IRFIELLKEKKQAL--VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
            R      E+ Q L  ++    +G + +   +   I  +            + +V   + 
Sbjct: 241 HRLQTANPEQYQQLWEIAEAFPRGFDEEGVPRGWEITTIDEN---------YNVVMGQSP 291

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
           K     E +  +L Y    +    R    +  + +  +I     I+        D     
Sbjct: 292 KGETYNEESNGTLFYQGRAEFG-WRYPEPRLYTTDPKRIAKKSNILMSVRAPVGDL---- 346

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLP 366
               +E   I     A+       ++  + +++       +     +  S+  +D+K + 
Sbjct: 347 -NVALEDCCIGRGLAALSHKSNSLSFGLYQIKNLQNEFDVFNGEGTVFGSINQKDLKSIR 405

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
           V+ P       I  + +   +  D+L+E + + I+ L++ R   +   ++G++
Sbjct: 406 VINPS----SKIIKLFDDVCSTNDLLIENLSREILSLRKIRDELLPMLLSGEV 454


>gi|238910688|ref|ZP_04654525.1| putative type I restriction-modification system, S subunit
           [Salmonella enterica subsp. enterica serovar Tennessee
           str. CDC07-0191]
          Length = 404

 Score = 63.3 bits (152), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 31/199 (15%), Positives = 61/199 (30%), Gaps = 16/199 (8%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTE---------LNRKNTKLIESNILSLSYGNIIQKLET 270
           S  E    +P  WE      L T          +   + K I    +S       +K   
Sbjct: 93  SEEEKPFELPVGWEWTRLINLGTWALGSGFPNVVQGNSDKEILMCKVSDMNLEGNEKFIV 152

Query: 271 RNMGLKPESYETYQIVD---PGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
             +    +       +    PG I+F  I       + R   V E  I  +       + 
Sbjct: 153 STINTISKDLADEYKIKTSEPGTIIFPKIGGAI-ATNKRRILVQETAIDNNCLGIKPCNA 211

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           I   +   ++ + D+ K           ++    +  +P+ +P +K Q  I + +    +
Sbjct: 212 ISGEWFYLILSALDMSKY---QSGTSIPAINQSVIGSIPIALPSLKMQEKILSYVITLMS 268

Query: 388 RIDVLVEKIEQSIVLLKER 406
             D L      S+   ++ 
Sbjct: 269 LCDQLELHSLTSLDAHQQL 287



 Score = 54.4 bits (129), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 36/210 (17%), Positives = 74/210 (35%), Gaps = 19/210 (9%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSE------SGKDIIYIGLE 54
           +K  K  P+   S  +    +P  W+   +        G          S K+I+   + 
Sbjct: 83  IKKQKPLPEI--SEEEKPFELPVGWEWTRLINLGTWALGSGFPNVVQGNSDKEILMCKVS 140

Query: 55  DVE-SGTGKYLPKDGNSRQSDTSTVSIFA---KGQILYGKLG---PYLRKAIIADFDGIC 107
           D+   G  K++    N+   D +          G I++ K+G      ++ I+     I 
Sbjct: 141 DMNLEGNEKFIVSTINTISKDLADEYKIKTSEPGTIIFPKIGGAIATNKRRILVQETAID 200

Query: 108 STQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQ 167
           +    +     +  E     L ++D    +     G ++   +   IG+IP+ +P L  Q
Sbjct: 201 NNCLGIKPCNAISGEWFYLILSALD----MSKYQSGTSIPAINQSVIGSIPIALPSLKMQ 256

Query: 168 VLIREKIIAETVRIDTLITERIRFIELLKE 197
             I   +I      D L    +  ++  ++
Sbjct: 257 EKILSYVITLMSLCDQLELHSLTSLDAHQQ 286


>gi|237738544|ref|ZP_04569025.1| restriction modification system DNA specificity subunit
           [Fusobacterium sp. 2_1_31]
 gi|229424211|gb|EEO39258.1| restriction modification system DNA specificity subunit
           [Fusobacterium sp. 2_1_31]
          Length = 203

 Score = 63.3 bits (152), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 32/202 (15%), Positives = 72/202 (35%), Gaps = 11/202 (5%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK--LETRNMGLKPE 278
            I+      +  +++ +  ++     KN     + I  +  GNI       T  + +K  
Sbjct: 4   DIKTNNKNWEIVKLEKYINIIGGYAFKNIDFKSTGIPLIRIGNINSGQFKSTNLVFIKEN 63

Query: 279 SYETYQIVDPGEIVFRFIDLQND----KRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
                  V P +I+                +      E  +            I+  +  
Sbjct: 64  KKFEKFKVFPNDILISLTGTVGKDDYGNACILGNSYSEYYLNQRNAKIEIIDKINKNFFL 123

Query: 335 WLMRSYDLCKVFYAMGSGLRQ-SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
            +++  ++ K    +  G+RQ ++  +D+  L + +PPI+ Q      +     +I+ L 
Sbjct: 124 EIIKIKEVKKKLTGISRGIRQANISNKDIYNLSIPLPPIELQNKFAERVE----KIEKLK 179

Query: 394 EKIEQSIVLLKERRSSFIAAAV 415
            +IE+SI + +    S I+   
Sbjct: 180 FEIEKSIEIAQNLYDSLISKYF 201



 Score = 44.8 bits (104), Expect = 0.030,   Method: Composition-based stats.
 Identities = 26/195 (13%), Positives = 61/195 (31%), Gaps = 13/195 (6%)

Query: 23  KHWKVVPIKRFTKLNTGRTSE----SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           K+W++V ++++  +  G   +        I  I + ++ SG  K                
Sbjct: 10  KNWEIVKLEKYINIIGGYAFKNIDFKSTGIPLIRIGNINSGQFKSTNLVFIKENKKFEKF 69

Query: 79  SIFAKGQILYGKLGPYLR-------KAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
            +F    IL    G   +           +  +   + +   ++  D + +     ++ I
Sbjct: 70  KVF-PNDILISLTGTVGKDDYGNACILGNSYSEYYLNQRNAKIEIIDKINKNFFLEIIKI 128

Query: 132 DVTQRIE-AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
              ++    I  G   ++   K I N+ +P+PP+  Q    E++         +      
Sbjct: 129 KEVKKKLTGISRGIRQANISNKDIYNLSIPLPPIELQNKFAERVEKIEKLKFEIEKSIEI 188

Query: 191 FIELLKEKKQALVSY 205
              L           
Sbjct: 189 AQNLYDSLISKYFDN 203


>gi|304373000|ref|YP_003856209.1| Restriction endonuclease S subunits [Mycoplasma hyorhinis HUB-1]
 gi|304309191|gb|ADM21671.1| Restriction endonuclease S subunits [Mycoplasma hyorhinis HUB-1]
          Length = 381

 Score = 63.3 bits (152), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 41/392 (10%), Positives = 112/392 (28%), Gaps = 34/392 (8%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV--SIFA 82
           W    ++    ++TG +         +  + ++   GKY      +  +       +   
Sbjct: 18  WIQGKVEELFFIDTGNSK--------LTKQYIKQNLGKYPVYSSQTENNGIIGYINTYDF 69

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
            G+ +         K    +     S   +       L    +  L  + +      + +
Sbjct: 70  DGEFITWTQDGNAGKVFYRNGRFNASNSGI-----LTLNFPSKYNLKFLFLALIFLNLTK 124

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
                         +   I  + +  + +EKI +    +D +I+   R + LL++ ++AL
Sbjct: 125 LQIGGTVPHFTASMMRKVIFLIPKNKVEQEKISSIFFTLDKIISLYERKMSLLEKLQKAL 184

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
            S I     N    ++           +  ++       ++      +         S  
Sbjct: 185 FSNIFVLNANNKPLIRFKSFFEFWEKNNISDLCKINRGNSKYTINYIQQNVGKFPVYSSQ 244

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
              + +         +              +    +        S +  +  + +S  +A
Sbjct: 245 TQNEGISGNISTYDYDGE------------YITWTMDGVNAGTVSYRNGKFNVSSSGVLA 292

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-PIKEQFDITNV 381
              +   +T   +L     L  +                + +L +      +EQ  I + 
Sbjct: 293 PNSNKNINT--KFLFYVLKLMNLNQENIGETIPHFTGSMMNKLEITFVKNRQEQNKIAD- 349

Query: 382 INVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
                + ID    ++++ + L+K  + S +  
Sbjct: 350 ---LFSNIDSTHAQLKRKLNLIKNIQKSVLNK 378


>gi|254779130|ref|YP_003057235.1| Type I restriction/modification specificity protein [Helicobacter
           pylori B38]
 gi|254001041|emb|CAX28985.1| Type I restriction/modification specificity protein [Helicobacter
           pylori B38]
          Length = 419

 Score = 63.3 bits (152), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 60/391 (15%), Positives = 122/391 (31%), Gaps = 34/391 (8%)

Query: 43  ESGKDIIYIGLEDVESGTGK-YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIA 101
           ++ K + Y+  +++ +     +L  D    +  +      +   I+Y  + P  R   I 
Sbjct: 24  DNYKKVCYLDTDNITNNRINAFLKIDLTKEKLPSRAKRKCSINSIIYSSVRPNQRHFGII 83

Query: 102 DF---DGICSTQFLVLQP---KDVLPELLQGWLLSIDVTQRIEAI--CEGATMSHADWKG 153
                + + ST F+V+     K + P  L  ++    +T  ++ I  C  ++        
Sbjct: 84  KEIPKNFLVSTAFIVIDIIDLKKLDPNYLYYYITQDKITHYLQRIAECGTSSYPSITPLD 143

Query: 154 IGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNP 213
             NI + + PL  Q  I   +     +I+          ++L+   +           N 
Sbjct: 144 FLNIKIKLYPLETQQKIARTLSVLDQKIENNHKINELLHKILELLYEQYFVRFDFLDENN 203

Query: 214 DVKMKDSGI-----EWVGLVPDHWEVKPFFALVTEL---------NRKNTKLIESNILSL 259
                  G      E   L+P+ +EVK    LV               N           
Sbjct: 204 KPYQTSGGKMKFSKELNRLIPNDFEVKTLGELVDIFSGYSFQSNTYSNNKNDYMLITNKN 263

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
              ++I    T N+   P+    Y +++P  I+            + S    +  I+   
Sbjct: 264 VQHSLIDLSITTNLLFLPKKLPKYCLLEPTNILITLTGHIGRCALVFS----KNCILNQR 319

Query: 320 YMAVKPHGIDSTYLAW-LMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFD 377
              V P   +     + L+R+     +         +Q+L   D  ++ +          
Sbjct: 320 VGVVLPKEKELNPFYYSLIRNPLFSAILQRNAIGSSQQNLSPIDTLKIQIPF-----NHK 374

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRS 408
           I    +     I  L+    Q+   L   R 
Sbjct: 375 IIKQYSKTCENIIKLLVSNMQATQTLTTLRD 405



 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 24/178 (13%), Positives = 69/178 (38%), Gaps = 13/178 (7%)

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID 297
                E N K    ++++ ++ +  N   K++     L   +     I     I++  + 
Sbjct: 18  NNYTKEDNYKKVCYLDTDNITNNRINAFLKIDLTKEKLPSRAKRKCSI---NSIIYSSVR 74

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKP---HGIDSTYLAWLMRSYDLCKVFYAM---GS 351
                  +   ++ +  ++++A++ +       +D  YL + +    +      +   G+
Sbjct: 75  PNQRHFGIIK-EIPKNFLVSTAFIVIDIIDLKKLDPNYLYYYITQDKITHYLQRIAECGT 133

Query: 352 GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID---VLVEKIEQSIVLLKER 406
               S+   D   + + + P++ Q  I   ++V   +I+    + E + + + LL E+
Sbjct: 134 SSYPSITPLDFLNIKIKLYPLETQQKIARTLSVLDQKIENNHKINELLHKILELLYEQ 191



 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 20/158 (12%), Positives = 51/158 (32%), Gaps = 8/158 (5%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTS------ESGKDIIYIGLEDVESGTGKY-LPKDGNSRQS 73
           IP  ++V  +     + +G +        +  D + I  ++V+       +  +      
Sbjct: 223 IPNDFEVKTLGELVDIFSGYSFQSNTYSNNKNDYMLITNKNVQHSLIDLSITTNLLFLPK 282

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV-LPELLQGWLLSID 132
                 +     IL    G   R A++   + I + +  V+ PK+  L       + +  
Sbjct: 283 KLPKYCLLEPTNILITLTGHIGRCALVFSKNCILNQRVGVVLPKEKELNPFYYSLIRNPL 342

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLI 170
            +  ++    G++  +        I +P      +   
Sbjct: 343 FSAILQRNAIGSSQQNLSPIDTLKIQIPFNHKIIKQYS 380


>gi|322689711|ref|YP_004209445.1| hypothetical protein BLIF_1529 [Bifidobacterium longum subsp.
           infantis 157F]
 gi|320461047|dbj|BAJ71667.1| conserved hypothetical protein [Bifidobacterium longum subsp.
           infantis 157F]
          Length = 147

 Score = 62.9 bits (151), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 20/145 (13%), Positives = 51/145 (35%), Gaps = 6/145 (4%)

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
           + ++  ++ Q        +  E       + P + +         + ++  A++ +   +
Sbjct: 1   MWVTSQDVKQHYIENTTTMISEKGAATLTLYPSDSIVIVARSGILRHTIPVAKLRKPATV 60

Query: 317 TSAY--MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKE 374
                 +        S  L + + S       Y       +S+ F  +K   ++VP I+E
Sbjct: 61  NQDIKVIQTVDSCDSSWLLQYFIASNKTLLREYGKTGTTVESIDFAKMKSTALMVPYIEE 120

Query: 375 QFDITNVINVETARIDVLVEKIEQS 399
           Q  I +      +R+D L+   ++ 
Sbjct: 121 QQAIGSF----FSRLDNLITLHQRK 141


>gi|3335664|gb|AAC78317.1| restriction-modification enzyme MpuUIV S subunit [Mycoplasma
           pulmonis]
          Length = 398

 Score = 62.9 bits (151), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 42/368 (11%), Positives = 103/368 (27%), Gaps = 16/368 (4%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDII-YIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           ++  + +   L  G++  + K +   IG+ ++ S   K     G     D +        
Sbjct: 2   EIYKLGQILNLEKGKSKYNAKYVSQNIGIYNLYSSKTKDQGIFGKINSYDFNGEY----- 56

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            IL    G Y       +     ++   +L+  + + +      L +   +    +  G+
Sbjct: 57  -ILITTHGAYAGTVKYVNEKFSTTSNCFILKVDENIAKTKFLSYLLLLQEKTFNDMAIGS 115

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL-- 202
              +     I +  + +P L  Q  I + I  +               E   +K  ++  
Sbjct: 116 AYGYLKNYNINDFEVNLPNLKTQSAIIKIIEPKEDLFFRHKNLVRIDSEENTKKDLSILI 175

Query: 203 -VSYIVTKGLNPDVKMKDSGIEWVGLVPDHW------EVKPFFALVTELNRKNTKLIESN 255
            +   + K +N   ++  S  + +    +++           F         N +  +S 
Sbjct: 176 KIIEPLEKQINAFDELILSEQKSLQHYLNYFLNKLASINPSIFKNYKLGQILNLEKGKSK 235

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
             +      I      +   + +              +  I               +   
Sbjct: 236 YNAKYVSQNIGIYNLYSSKTRDQGIFGKINSYDFNGEYILITTHGAYAGTVKYVNEKFST 295

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
            ++ ++      I  T     +                   LK  ++    V +P +K Q
Sbjct: 296 TSNCFILKVNENIVKTKFLSYLLLLQEKTFNDMAIGSAYGYLKNYNINDFEVNLPNLKIQ 355

Query: 376 FDITNVIN 383
             I  +I 
Sbjct: 356 SAILGIIE 363


>gi|268611922|ref|ZP_06145649.1| hypothetical protein RflaF_20746 [Ruminococcus flavefaciens FD-1]
          Length = 177

 Score = 62.9 bits (151), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 22/143 (15%), Positives = 60/143 (41%), Gaps = 10/143 (6%)

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS-LRSAQVMERGIITSAYM 321
             + + +  +  +  +  E Y ++  GE+ +   + +  K   + S +  E  ++   Y 
Sbjct: 13  GWLDQKDRFSANIAGKEQENYTLLHKGELSYNHGNSKLAKYGAVFSLRTYEEALVPRVYH 72

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVF-YAMGSGLRQ----SLKFEDVKRLPVLVPPIKEQF 376
           + K    D+ Y+ +L  +    K     + SG R     ++ +++   + + +P I+EQ 
Sbjct: 73  SFKVIEADADYIEYLFATKLPDKELGKLISSGARMDGLLNINYDEFMGISISMPSIEEQK 132

Query: 377 DITNVINVETARIDVLVEKIEQS 399
            I++ +      +D ++   +  
Sbjct: 133 KISSYL----RSLDSIITLHQHK 151


>gi|228475536|ref|ZP_04060254.1| restriction modification system DNA specificity domain protein
           [Staphylococcus hominis SK119]
 gi|228270318|gb|EEK11753.1| restriction modification system DNA specificity domain protein
           [Staphylococcus hominis SK119]
          Length = 171

 Score = 62.9 bits (151), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 43/172 (25%), Positives = 86/172 (50%), Gaps = 6/172 (3%)

Query: 217 MKDSGIEWVGLVPDHWEVKPFFALVTELNRK-NTKLIESNILSLSYGNIIQKLETRNMGL 275
           MK+SGI+W+G +P +W+V                   + + LSL+   +I++ +  + GL
Sbjct: 5   MKNSGIDWIGEIPKNWKVIKTKHAFKSKKNIVKENAKKYDRLSLTMNGVIKRDKEDSHGL 64

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
           +PE +ETYQI+   E++F+ IDL+N    + +++    GI++  Y+ +  +  ++ Y  +
Sbjct: 65  QPEHFETYQIIYKDELIFKLIDLEN----ISTSRGNYTGIVSPVYIRLI-NPDETKYGYY 119

Query: 336 LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
              +     +F  + SG+R SL   ++  +  L  P  E+  I  ++     
Sbjct: 120 YFYNMWCQHIFNFLSSGVRSSLTANNLLNVSYLKIPFDEKEKIIKILEKRFK 171



 Score = 59.8 bits (143), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 31/171 (18%), Positives = 57/171 (33%), Gaps = 3/171 (1%)

Query: 9   QYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDG 68
           + K+SG+ WIG IPK+WKV+  K   K       E+ K    + L  +     +      
Sbjct: 4   EMKNSGIDWIGEIPKNWKVIKTKHAFKSKKNIVKENAKKYDRLSLT-MNGVIKRDKEDSH 62

Query: 69  NSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL 128
             +     T  I  K ++++  +          ++ GI S  ++ L   +        + 
Sbjct: 63  GLQPEHFETYQIIYKDELIFKLIDLENISTSRGNYTGIVSPVYIRLI--NPDETKYGYYY 120

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
                 Q I         S      + N+     P  E+  I + +     
Sbjct: 121 FYNMWCQHIFNFLSSGVRSSLTANNLLNVSYLKIPFDEKEKIIKILEKRFK 171


>gi|324990376|gb|EGC22314.1| EcoA family type I restriction-modification system [Streptococcus
           sanguinis SK353]
          Length = 175

 Score = 62.9 bits (151), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 33/175 (18%), Positives = 67/175 (38%), Gaps = 12/175 (6%)

Query: 232 WEVKPFFALVTELNRKNTKLIESNILSLS-YGNIIQKLETRNMGLKPESYETYQIVDPGE 290
           WE +    +   + RKN  L     L++S    +I +    N  +  +    Y ++  GE
Sbjct: 4   WEQRKLGEVAERVTRKNKNLESELPLTISAQHGLINQETFFNKKVASKDVSGYYLLKKGE 63

Query: 291 IVFRF-IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
             +           +++     E G++++ Y+  +P+ IDS +LA    S    K     
Sbjct: 64  FAYNKSYSSDYPWGAVKRLNNYEMGVLSTLYIVFRPNSIDSDFLAVYYDSPKWHKEVSMR 123

Query: 350 GS-GLRQ----SLKFEDVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQ 398
            + G R     ++  +D     ++ P    EQ  I +        +D L+   ++
Sbjct: 124 AAEGARNHGLLNISPQDFFDTELIFPVNHPEQAAIGSF----FQELDHLITLQQR 174



 Score = 54.8 bits (130), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 22/168 (13%), Positives = 45/168 (26%), Gaps = 13/168 (7%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIY-IGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           W+   +    +  T +      ++   I  +        +  K       D S   +  K
Sbjct: 4   WEQRKLGEVAERVTRKNKNLESELPLTISAQHGLINQETFFNKK--VASKDVSGYYLLKK 61

Query: 84  GQILYGKLGPYLRKAIIAD-----FDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           G+  Y K                   G+ ST ++V +P  +  + L  +  S    + + 
Sbjct: 62  GEFAYNKSYSSDYPWGAVKRLNNYEMGVLSTLYIVFRPNSIDSDFLAVYYDSPKWHKEVS 121

Query: 139 AICEGATMSH----ADWKGIGNIPMPIPPLAE-QVLIREKIIAETVRI 181
                   +H       +   +  +  P     Q  I          I
Sbjct: 122 MRAAEGARNHGLLNISPQDFFDTELIFPVNHPEQAAIGSFFQELDHLI 169


>gi|210610697|ref|ZP_03288578.1| hypothetical protein CLONEX_00768 [Clostridium nexile DSM 1787]
 gi|210152330|gb|EEA83336.1| hypothetical protein CLONEX_00768 [Clostridium nexile DSM 1787]
          Length = 189

 Score = 62.9 bits (151), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 22/191 (11%), Positives = 55/191 (28%), Gaps = 7/191 (3%)

Query: 228 VPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVD 287
           +P+ W       +      ++      N     Y        + + G    +   Y    
Sbjct: 1   MPESWTQGVLADIANITMGQSPSGESFNTQGNGYPFYQG---STDFGTIFPAKRMYTDKP 57

Query: 288 PGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY 347
                     L             E   I     ++     ++ ++ +L+++        
Sbjct: 58  SRYAAVFDTLLSVRAPVGSLNIAYENCCIGRGLASIHGKYDNNIFVRYLLKNNKWYFDNI 117

Query: 348 AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
                   S+  + +  +PV++P       I      +++ I+  + + EQ    L+  R
Sbjct: 118 NNNGTTFGSITKDYLFEMPVVIPDG---KSIAMF-EQKSSLIERQIYENEQQTRKLQNLR 173

Query: 408 SSFIAAAVTGQ 418
              +   + GQ
Sbjct: 174 DWLLPMLMNGQ 184


>gi|302336435|ref|YP_003801642.1| restriction modification system DNA specificity domain protein
           [Olsenella uli DSM 7084]
 gi|301320275|gb|ADK68762.1| restriction modification system DNA specificity domain protein
           [Olsenella uli DSM 7084]
          Length = 176

 Score = 62.9 bits (151), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 26/170 (15%), Positives = 52/170 (30%), Gaps = 6/170 (3%)

Query: 222 IEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYE 281
           IE    VPD W      ++                + +   + ++        L      
Sbjct: 2   IEVPFDVPDSWAWVRLSSICQPQGSHRPTGKLFRYIDIDSIDNVRCKIIEPKLLSTADAP 61

Query: 282 TYQI--VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK--PHGIDSTYLAWLM 337
           +     V  G ++F  +       +L      +  + ++ +         IDS +L   M
Sbjct: 62  SRARRAVAKGSVLFSMVRPYLRNIALA-FDEHDGCVASTGFYVCTASSDSIDSEWLFLCM 120

Query: 338 RSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
           +S            G    S++ +D+  + V +PP  EQ  I   +    
Sbjct: 121 KSDYFVNAINVHMRGDNSPSVRKDDMDEMLVPIPPQPEQNRIVREVARLL 170



 Score = 61.3 bits (147), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 35/169 (20%), Positives = 63/169 (37%), Gaps = 7/169 (4%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYL-PKDGNSRQSDTSTV 78
            +P  W  V +    +   G    +GK   YI ++ +++   K + PK  ++  + +   
Sbjct: 7   DVPDSWAWVRLSSICQPQ-GSHRPTGKLFRYIDIDSIDNVRCKIIEPKLLSTADAPSRAR 65

Query: 79  SIFAKGQILYGKLGPYLRKAII---ADFDGICSTQFLVLQ--PKDVLPELLQGWLLSIDV 133
              AKG +L+  + PYLR   +        + ST F V       +  E L   + S   
Sbjct: 66  RAVAKGSVLFSMVRPYLRNIALAFDEHDGCVASTGFYVCTASSDSIDSEWLFLCMKSDYF 125

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
              I     G          +  + +PIPP  EQ  I  ++    + + 
Sbjct: 126 VNAINVHMRGDNSPSVRKDDMDEMLVPIPPQPEQNRIVREVARLLLLLQ 174


>gi|319777297|ref|YP_004136948.1| hypothetical protein MfeM64YM_0573 [Mycoplasma fermentans M64]
 gi|318038372|gb|ADV34571.1| Conserved Hypothetical Protein [Mycoplasma fermentans M64]
          Length = 332

 Score = 62.9 bits (151), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 39/311 (12%), Positives = 83/311 (26%), Gaps = 16/311 (5%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGN-SRQSDTSTV 78
            IP++W  V      ++  G      K I +     +     +   ++ N          
Sbjct: 4   EIPENWAWVRHNNIFEIIGGSQPPKSKFIEHEKQGYIRLYQIRDYGENPNPVYIPSKFAF 63

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLV--LQPKDVLPELLQGWLLSIDVTQR 136
               K  IL  + G  + K   A+          V  +   D + +          + Q 
Sbjct: 64  KQSEKNDILLARYGASIGKVFFAENGAYNVALAKVKKMFINDWINKEFMFIFYKSSIYQT 123

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           +      +  +  +   + N+ MPIP L E   I  K       I+    +  +  +L  
Sbjct: 124 LVKNNSRSAQAGFNKDDLKNLFMPIPSLNESSRIVSKWNDLNKLINEYENKENQLFKLDS 183

Query: 197 EK----KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           +     +++++ Y +   L                 P    ++       EL ++     
Sbjct: 184 KIKDKLQKSILQYAIQGKLVKQDP---------NDEPASKLLEAIQIEKNELIKEGKIKK 234

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
           +     +  G      E     +   + E    +       RF ++ N            
Sbjct: 235 DKQESFIFQGEDKNYYEKIGSKVINITNEIPFEIPINWAWTRFKNIANLVLGKSPETNNI 294

Query: 313 RGIITSAYMAV 323
                      
Sbjct: 295 NYWKNGVINWF 305



 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 26/199 (13%), Positives = 58/199 (29%), Gaps = 8/199 (4%)

Query: 227 LVPDHWEVKP---FFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY 283
            +P++W        F ++       +K IE           I+        +   S   +
Sbjct: 4   EIPENWAWVRHNNIFEIIGGSQPPKSKFIEHEKQGYIRLYQIRDYGENPNPVYIPSKFAF 63

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC 343
           +  +  +I+         K             +           I+  ++    +S    
Sbjct: 64  KQSEKNDILLARYGASIGKVFFAE-NGAYNVALAKVKKMFINDWINKEFMFIFYKSSIYQ 122

Query: 344 KVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
            +        +     +D+K L + +P + E   I +  N     I+    K  Q   L 
Sbjct: 123 TLVKNNSRSAQAGFNKDDLKNLFMPIPSLNESSRIVSKWNDLNKLINEYENKENQLFKLD 182

Query: 404 KERR----SSFIAAAVTGQ 418
            + +     S +  A+ G+
Sbjct: 183 SKIKDKLQKSILQYAIQGK 201


>gi|223934050|ref|ZP_03626002.1| restriction modification system DNA specificity subunit
           [Streptococcus suis 89/1591]
 gi|302024400|ref|ZP_07249611.1| restriction modification system DNA specificity subunit
           [Streptococcus suis 05HAS68]
 gi|223897277|gb|EEF63686.1| restriction modification system DNA specificity subunit
           [Streptococcus suis 89/1591]
          Length = 156

 Score = 62.9 bits (151), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 27/141 (19%), Positives = 55/141 (39%), Gaps = 12/141 (8%)

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
           G I +     ++    E+   Y+ V PG+ V      Q        A     G+ + AY 
Sbjct: 25  GMIRRDEIGIDIKYDKEAVANYKRVLPGQFVIHLRSFQG-----GFAWSEIEGLTSPAYT 79

Query: 322 AVKPHGIDSTYLA-WLMRSYDLCKVFYAMGSGLR--QSLKFEDVKRLPVLVPPIKEQFDI 378
            +     +S+     ++ S +  K    +  G+R  +S+ + D   L  ++P + EQ  I
Sbjct: 80  ILDFKEENSSKFWRNVLTSPNFIKKLETVTYGIRDGRSISYSDFSTLNFVIPTLPEQEAI 139

Query: 379 TNVINVETARIDVLVEKIEQS 399
            +      + +D L+   ++ 
Sbjct: 140 GSF----FSDLDQLITLHQRK 156



 Score = 36.3 bits (82), Expect = 9.1,   Method: Composition-based stats.
 Identities = 17/153 (11%), Positives = 39/153 (25%), Gaps = 7/153 (4%)

Query: 32  RFTKLNTGRTSESGKDIIYIGLE-DVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGK 90
              K  + +      D+  +    ++       +  D    +   +       GQ +   
Sbjct: 2   EIFKFVSDK---GYADLPILSASQELGMIRRDEIGIDIKYDKEAVANYKRVLPGQFVI-H 57

Query: 91  LGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQG--WLLSIDVTQRIEAICEGATMSH 148
           L  +      ++ +G+ S  + +L  K+                + +             
Sbjct: 58  LRSFQGGFAWSEIEGLTSPAYTILDFKEENSSKFWRNVLTSPNFIKKLETVTYGIRDGRS 117

Query: 149 ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
             +     +   IP L EQ  I          I
Sbjct: 118 ISYSDFSTLNFVIPTLPEQEAIGSFFSDLDQLI 150


>gi|188024412|ref|ZP_02997072.1| restriction-modification enzyme MpuUVI S subunit [Ureaplasma
           urealyticum serovar 7 str. ATCC 27819]
 gi|198273451|ref|ZP_03205987.1| restriction-modification enzyme MpuUVI S subunit [Ureaplasma
           urealyticum serovar 4 str. ATCC 27816]
 gi|225551146|ref|ZP_03772092.1| restriction-modification enzyme MpuUVI S subunit [Ureaplasma
           urealyticum serovar 8 str. ATCC 27618]
 gi|188018697|gb|EDU56737.1| restriction-modification enzyme MpuUVI S subunit [Ureaplasma
           urealyticum serovar 7 str. ATCC 27819]
 gi|198249971|gb|EDY74751.1| restriction-modification enzyme MpuUVI S subunit [Ureaplasma
           urealyticum serovar 4 str. ATCC 27816]
 gi|225378961|gb|EEH01326.1| restriction-modification enzyme MpuUVI S subunit [Ureaplasma
           urealyticum serovar 8 str. ATCC 27618]
          Length = 358

 Score = 62.9 bits (151), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 48/392 (12%), Positives = 111/392 (28%), Gaps = 57/392 (14%)

Query: 28  VPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           + +K       G T  S +          I      +G   Y+               ++
Sbjct: 3   IKLKDIIYAKRGSTITSNEFKINPGSYPLISASAQNNGVFGYINS------------YMY 50

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR-IEAI 140
             G I     G         D     S   ++    + +      +          I+++
Sbjct: 51  EGGHITISMNGNAGCVFYQKDKFSANSDVLVLSNIDNKISNNKFIFYWLKKHENTKIKSL 110

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
           C+G T        + N+ + +PP+ EQ  I   I      I+ +   + +   L+ +   
Sbjct: 111 CKGTTRLRLSNDDVLNLEINLPPIEEQNAIISIIEPIEKVINNIKNIKFKIESLVNKYFD 170

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
            L S +        +         +G +                    T      I S  
Sbjct: 171 FLYSNLEDSNFKKYI---------LGDLF-------------------TINRGQIINSKY 202

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
             + I      +   K      Y      +  F  I            Q     I    +
Sbjct: 203 IESNIGSYPVISSNTKNNGVFGYINSYMYDGEFITISADGAYAGTVFLQNGRFSITNVCF 262

Query: 321 MAVKPHGID----STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
           + +K + ID    + ++ ++++         +     R +++   +K + + +P I+ Q 
Sbjct: 263 ILIKNNDIDFKFSNKFVYYILKKEQEVNKLKSQVGSSRPAVREYSLKEIKINLPNIEIQE 322

Query: 377 DITNV------INVETARIDVLVEKIEQSIVL 402
             + +      ++ +  +I+ ++      I  
Sbjct: 323 KFSKIVEPLLNLSTKANKIEKILNDSLLKITK 354



 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 22/160 (13%), Positives = 57/160 (35%), Gaps = 4/160 (2%)

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
           K+    +      S    I       +    ++   +  ++        I +  +  +  
Sbjct: 6   KDIIYAKRGSTITSNEFKINPGSYPLISASAQNNGVFGYINSYMYEGGHITISMNGNAGC 65

Query: 307 SAQVMERGIITSAYMA---VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVK 363
                ++    S  +    +     ++ ++ + ++ ++  K+        R  L  +DV 
Sbjct: 66  VFYQKDKFSANSDVLVLSNIDNKISNNKFIFYWLKKHENTKIKSLCKGTTRLRLSNDDVL 125

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
            L + +PPI+EQ  I ++I      I+  ++ I+  I  L
Sbjct: 126 NLEINLPPIEEQNAIISIIEPIEKVINN-IKNIKFKIESL 164


>gi|260061348|ref|YP_003194428.1| type I restriction system specificity protein [Robiginitalea
           biformata HTCC2501]
 gi|88785480|gb|EAR16649.1| type I restriction system specificity protein [Robiginitalea
           biformata HTCC2501]
          Length = 275

 Score = 62.9 bits (151), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 31/206 (15%), Positives = 71/206 (34%), Gaps = 14/206 (6%)

Query: 12  DSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLP 65
           DS    +G IPK W+V  I     L +G T ++      G ++ ++  +D+ +    Y+ 
Sbjct: 63  DSE---LGPIPKGWEVKGILEVADLLSGGTPKTRVSEYWGGNLNWVSAKDIGNEGTIYIS 119

Query: 66  KDGNSRQS---DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPE 122
           +          + S+  I  +  ++    G   +  II+    +  + + +    +    
Sbjct: 120 ETEKKISYLGLNNSSAKILPENTVIVVARGSVGKFGIISSPMAMNQSCYGLYSTSEF--S 177

Query: 123 LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
               +L+  ++ +  +    G+              +  P         + +      I 
Sbjct: 178 QGTIYLIISNLIEEFKRKSYGSVFDTITTSTFKTTSVIYPQEKIIFYFNQIVDPLFKMIR 237

Query: 183 TLITERIRFIELLKEKKQALVSYIVT 208
           + +TE I   +L       L+S  V 
Sbjct: 238 SKVTENIMLSDLRDTLLPKLISGEVR 263



 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 44/263 (16%), Positives = 83/263 (31%), Gaps = 14/263 (5%)

Query: 171 REKIIAETVRIDTLITERIRFIELLKEKKQALVSY-IVTKGLNPDVKMKDSGIEWVGLVP 229
              I      ID  I   +   + L+E   AL  +  V  G   D +  DS    +G +P
Sbjct: 14  ANDIAGVLSAIDDKIENNLAMNQTLEEMAMALYKHWFVDFGPFQDGEFVDS---ELGPIP 70

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG 289
             WEVK    +   L+    K   S     +   +  K       +     E        
Sbjct: 71  KGWEVKGILEVADLLSGGTPKTRVSEYWGGNLNWVSAKDIGNEGTIYISETEKKISYLGL 130

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID------STYLAWLMRSYDLC 343
                 I  +N    +    V + GII+S     +           S    +L+ S  + 
Sbjct: 131 NNSSAKILPENTVIVVARGSVGKFGIISSPMAMNQSCYGLYSTSEFSQGTIYLIISNLIE 190

Query: 344 KVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
           +        +  ++     K   V+ P    Q  I    N     +  ++       ++L
Sbjct: 191 EFKRKSYGSVFDTITTSTFKTTSVIYP----QEKIIFYFNQIVDPLFKMIRSKVTENIML 246

Query: 404 KERRSSFIAAAVTGQIDLRGESQ 426
            + R + +   ++G++ L+   +
Sbjct: 247 SDLRDTLLPKLISGEVRLKEFRE 269


>gi|257093458|ref|YP_003167099.1| restriction modification system DNA specificity protein-containing
           protein [Candidatus Accumulibacter phosphatis clade IIA
           str. UW-1]
 gi|257045982|gb|ACV35170.1| restriction modification system DNA specificity domain protein
           [Candidatus Accumulibacter phosphatis clade IIA str.
           UW-1]
          Length = 444

 Score = 62.9 bits (151), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 55/442 (12%), Positives = 137/442 (30%), Gaps = 43/442 (9%)

Query: 18  IGAIPKHWKVVPIKRFT---KLNTGRTSESG---KDIIYIGLEDVESGTGKYLPK-DGNS 70
           + A+P+ W    ++       ++ G           +  I + +                
Sbjct: 5   LPALPEGWVYSSLEDCARANSISYGVVQPGSPVTGGVPIIRVNNFRGTRIDLSETMRVAP 64

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD--FDGICSTQFLVLQPKDVLPELLQGWL 128
                   +  A G++L   +G   + A++ D       +    V+ P   +        
Sbjct: 65  EIEAKYARTRLAGGEVLLTLVGSVGQVAVVPDALKGFNVARAVAVIDPLQHVSAEWIALC 124

Query: 129 LSIDVTQRIE-AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
           L   ++Q +  +       +  + K +  +P+P+PP AE+  I + + A   RI  L   
Sbjct: 125 LRSPLSQHLLTSRANTTVQTTINLKDVRALPIPMPPAAERQTITKMVSALDDRITLLRET 184

Query: 188 RIRFIELLKEKKQALVS-----YIVTKGLNPDVKMKDS--------GIEWVGLVPDHWEV 234
                 + +   ++            +G  P+   + +            +GLVP  W  
Sbjct: 185 NATLEAIAQALFKSWFVDFDPVRAKQEGRAPEGMDEATAALFPDEFEESELGLVPRGWRS 244

Query: 235 KPFFALVTELNRKNTK-----LIESNILSLSYGNIIQKLETR-NMGLKPESYETYQIVDP 288
             F   +T +     K         +I   S  +     +      +K  + +  +    
Sbjct: 245 CSFIETITVIGGGTPKTSIREYWNGHIPWFSVVDAPAVTDVFVIDTVKHITEQGLRNSST 304

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA 348
             +      +       R A V     +  +   ++    D         +Y + +    
Sbjct: 305 SLLPLGTTIISARGTVGRLALVGREMAMNQSCYGLRGKASD--DYFTYFNTYRIVETLKQ 362

Query: 349 MGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE---QSIVLLK 404
              G +  ++  + +  + V+ P           I      +  ++E+++   +    L 
Sbjct: 363 RTHGSVFDTITRDTLAGVCVVYPN-------GAFITAFERTVSPVMERVKENLKQAQTLA 415

Query: 405 ERRSSFIAAAVTGQIDLRGESQ 426
             R + +   ++G++ L  E++
Sbjct: 416 TLRDTLLPRLISGKLRLS-EAE 436


>gi|302190884|ref|ZP_07267138.1| restriction endonuclease S subunit [Lactobacillus iners AB-1]
          Length = 234

 Score = 62.9 bits (151), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 27/208 (12%), Positives = 67/208 (32%), Gaps = 16/208 (7%)

Query: 226 GLVPDHWEVKPFFALVTELNRKNTK------LIESNILSLSYGNIIQKLETRNMGLKPES 279
           G+ P   +  P   L   + +  T          + I  +   +I+      +       
Sbjct: 26  GIQPSEMQFIPLQELCKVVTKGTTPTTLGKSFTSTGINFIKAESILDNHSIDSSKFAFID 85

Query: 280 YE-----TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
            E        ++   +IVF           + ++ +        A +      +   YL 
Sbjct: 86  EETNALLKRSVIKANDIVFTIAGTLGRFAMVDNSVLPANTNQAVAIIRPDETKVTPAYLY 145

Query: 335 WLMRSYDLCKVFYA-MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
                    + +   +   ++ +L    +K LP+ V  +K      N      + +  L+
Sbjct: 146 SFFIGNWHNEYYSKRIQQAVQANLSLTTIKSLPIAV--LK--NTTMNNYEKLVSPLFALM 201

Query: 394 EKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           +  E+    L + R + +   ++G++D+
Sbjct: 202 KNNEEENRRLSKLRDTLLPRLMSGELDV 229



 Score = 45.2 bits (105), Expect = 0.022,   Method: Composition-based stats.
 Identities = 26/196 (13%), Positives = 60/196 (30%), Gaps = 13/196 (6%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           P   + +P++   K+ T  T+ +          I +I  E +         K     +  
Sbjct: 29  PSEMQFIPLQELCKVVTKGTTPTTLGKSFTSTGINFIKAESILDNHSIDSSKFAFIDEET 88

Query: 75  TS--TVSIFAKGQILYGKLGPYLRKAIIADFDGICST----QFLVLQPKDVLPELLQGWL 128
            +    S+     I++   G   R A++ +     +T      +      V P  L  + 
Sbjct: 89  NALLKRSVIKANDIVFTIAGTLGRFAMVDNSVLPANTNQAVAIIRPDETKVTPAYLYSFF 148

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
           +     +      + A  ++     I ++P+ +          + +      +     E 
Sbjct: 149 IGNWHNEYYSKRIQQAVQANLSLTTIKSLPIAVLKNTTMNNYEKLVSPLFALMKNNEEEN 208

Query: 189 IRFIELLKEKKQALVS 204
            R  +L       L+S
Sbjct: 209 RRLSKLRDTLLPRLMS 224


>gi|332076171|gb|EGI86637.1| type I restriction modification DNA specificity domain protein
           [Streptococcus pneumoniae GA41301]
          Length = 332

 Score = 62.9 bits (151), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 33/351 (9%), Positives = 94/351 (26%), Gaps = 27/351 (7%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V +     L  G+ +    +   +    ++    +       +   + +         
Sbjct: 2   KKVKLGEILSLKKGKKATVLAEQTTLSQRYIQIDDLRNNNNLKFTESLNMTEAL---PDD 58

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW--LLSIDVTQRIEAICEG 143
           IL    G             + ST  ++ + +    +++  +  +     +Q +     G
Sbjct: 59  ILIAWDGANAGTVGYGLSGAVGSTITVLKKNERYKEKIISDYLGVFLESKSQYLRDHSTG 118

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           AT+ H +   + ++ + +  + EQ  I   +      I     +                
Sbjct: 119 ATIPHLNKNILLDLQLELLGIEEQENIICILNTIKRLITKRKFQLDELNL---------- 168

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
                  L      +  G   +    D+              + +    E   L L+  N
Sbjct: 169 -------LVKSRFNEMFGENKIFESIDNLFDIIDGDRGKNYPKSDELFSEEYCLFLNTKN 221

Query: 264 IIQKLETRN----MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
           + +   + +    +    +       ++  +IV        +          +   I S 
Sbjct: 222 VTKNGFSFDTKQFITKTKDKLLRKGKLERYDIVLTTRGTVGNVAYYDELIKYKHLRINSG 281

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP 370
            + ++P   +     +++           +    +  L    +K+     P
Sbjct: 282 MVILRPKTPNLNQ-KFIIHVLRNNNYSRVISGSAQPQLPITKLKKYFSPSP 331


>gi|255023374|ref|ZP_05295360.1| type I restriction endonuclease S subunit [Listeria monocytogenes
           FSL J1-208]
          Length = 221

 Score = 62.9 bits (151), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 23/170 (13%), Positives = 53/170 (31%), Gaps = 4/170 (2%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+   +       + R+++   ++I + +        K   KD +    D S   +  KG
Sbjct: 35  WEQRKLGEVFNERSERSADG--ELISVTINSGVIKASKLEKKDNS--SFDKSNYKVVKKG 90

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            I Y  +  +   +  + +DGI S  + V+ P+  +  +   ++       +        
Sbjct: 91  DIAYNSMRMWQGASGYSSYDGILSPAYTVIYPRKDIDXIFIAYMFKKIDMIQTFQRNSQG 150

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             S        ++      +       +          T I  + R   L
Sbjct: 151 LTSDTWNLKFPSLSTIKIKIPANDEQIKITNLFQKLEYTSILHQNRIEML 200



 Score = 55.6 bits (132), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 31/159 (19%), Positives = 62/159 (38%), Gaps = 12/159 (7%)

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
           I       +I+  +             Y++V  G+I +  + +        S      GI
Sbjct: 57  ISVTINSGVIKASKLEKKDNSSFDKSNYKVVKKGDIAYNSMRMWQGASGYSSYD----GI 112

Query: 316 ITSAYMAVKP-HGIDSTYLAWLMRSYDLCKVFYAMGSGLR---QSLKFEDVKRLPVLVPP 371
           ++ AY  + P   ID  ++A++ +  D+ + F     GL     +LKF  +  + + +P 
Sbjct: 113 LSPAYTVIYPRKDIDXIFIAYMFKKIDMIQTFQRNSQGLTSDTWNLKFPSLSTIKIKIPA 172

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
             EQ  ITN       +++      +  I +LK+ +   
Sbjct: 173 NDEQIKITN----LFQKLEYTSILHQNRIEMLKKVKKDL 207


>gi|283956448|ref|ZP_06373928.1| LOW QUALITY PROTEIN: hypothetical protein C1336_000250331
            [Campylobacter jejuni subsp. jejuni 1336]
 gi|283792168|gb|EFC30957.1| LOW QUALITY PROTEIN: hypothetical protein C1336_000250331
            [Campylobacter jejuni subsp. jejuni 1336]
          Length = 1080

 Score = 62.9 bits (151), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 24/176 (13%), Positives = 61/176 (34%), Gaps = 5/176 (2%)

Query: 238  FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID 297
            F +    +RKN      +I  L+  +   +    +   K  + E ++  +   I    + 
Sbjct: 899  FFMGGTPSRKNINYWNGDIKWLTISDYSNRQVIMDAKEK-ITREGFKNSNAKMIQKGAVV 957

Query: 298  LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSL 357
            +       R   + E      A +A+ P+             Y   +++  +    +Q++
Sbjct: 958  VSIYATIGRVGILGEDMTTNQAIVAIIPNKEFINKYLMYAIDYFKFQLYNEVIITSQQNI 1017

Query: 358  KFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
                ++ + +  PP++ Q  I      E  +++     I  SI   ++   + +  
Sbjct: 1018 NLGILQNMVIPKPPLEIQKQIV----AECEKVEEQYNTIRMSIEEYQKLIKAILQK 1069



 Score = 47.5 bits (111), Expect = 0.004,   Method: Composition-based stats.
 Identities = 24/181 (13%), Positives = 56/181 (30%), Gaps = 9/181 (4%)

Query: 27   VVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGT-GKYLPKDGNSRQSDTSTVS 79
            +V +K       G T           DI ++ + D  +        +         S   
Sbjct: 890  LVKLKICGDFFMGGTPSRKNINYWNGDIKWLTISDYSNRQVIMDAKEKITREGFKNSNAK 949

Query: 80   IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
            +  KG ++   +   + +  I   D   +   + + P          +        ++  
Sbjct: 950  MIQKGAVVVS-IYATIGRVGILGEDMTTNQAIVAIIPNKEFINKYLMYA-IDYFKFQLYN 1007

Query: 140  ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
                 +  + +   + N+ +P PPL  Q  I  +      + +T+      + +L+K   
Sbjct: 1008 EVIITSQQNINLGILQNMVIPKPPLEIQKQIVAECEKVEEQYNTIRMSIEEYQKLIKAIL 1067

Query: 200  Q 200
            Q
Sbjct: 1068 Q 1068


>gi|116620728|ref|YP_822884.1| hypothetical protein Acid_1608 [Candidatus Solibacter usitatus
           Ellin6076]
 gi|116223890|gb|ABJ82599.1| hypothetical protein Acid_1608 [Candidatus Solibacter usitatus
           Ellin6076]
          Length = 169

 Score = 62.9 bits (151), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 17/90 (18%), Positives = 36/90 (40%), Gaps = 2/90 (2%)

Query: 331 TYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
            +L + +   +  +       G+  + ++  E  + L V VP  +EQ +I   +    A 
Sbjct: 16  QFLKYALLEGESLRRIIMETRGIVGQSNISLEQCRSLIVSVPSSQEQREIIRRVEAFFAL 75

Query: 389 IDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            D L  +   +   + +   S ++ A  GQ
Sbjct: 76  ADRLEARCTNAKAHVDKLTQSILSKAFRGQ 105


>gi|13508024|ref|NP_109973.1| type I restriction enzyme ecokI specificity protein [Mycoplasma
           pneumoniae M129]
 gi|12229982|sp|P75492|T1SG_MYCPN RecName: Full=Putative type-1 restriction enzyme specificity
           protein MPN_285; AltName: Full=S.MpnORFGP; AltName:
           Full=Type I restriction enzyme specificity protein
           MPN_285; Short=S protein
 gi|1674248|gb|AAB96198.1| type I restriction enzyme ecokI specificity protein [Mycoplasma
           pneumoniae M129]
          Length = 306

 Score = 62.9 bits (151), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 20/180 (11%), Positives = 54/180 (30%), Gaps = 11/180 (6%)

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID 297
              + ++   N       I  +   N  +++  + +   P  +  Y        +   I+
Sbjct: 104 QENIRKIYGANIPFETFQIRDICEINRGREINEKYLRENPGEFPVYSSATTNGGLIGKIN 163

Query: 298 -----------LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF 346
                            +       E+   +     ++    +     +L  +  L    
Sbjct: 164 DYDFHGEYVTWTTGGAHAGNVFYRNEKFSCSQNCGLLEVKNKNKFSSKFLCFALKLQSKK 223

Query: 347 YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
           +   +     L  + +  + +  PP++ Q  I +++       + L E I   I L K++
Sbjct: 224 FVNYASAIPVLTIKRIAEIELSFPPLEIQEKIADILFAFEKLCNDLTEGIPAEIELRKKQ 283



 Score = 39.4 bits (90), Expect = 1.1,   Method: Composition-based stats.
 Identities = 24/190 (12%), Positives = 53/190 (27%), Gaps = 16/190 (8%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV---SIFA 82
           +   I+   ++N GR          I  + +    G++      +             F 
Sbjct: 118 ETFQIRDICEINRGRE---------INEKYLRENPGEFPVYSSATTNGGLIGKINDYDFH 168

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
              + +   G +       +    CS    +L+ K+      +    ++ +  +      
Sbjct: 169 GEYVTWTTGGAHAGNVFYRNEKFSCSQNCGLLEVKNKNKFSSKFLCFALKLQSKKFVNYA 228

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKI---IAETVRIDTLITERIRFIELLKEKK 199
              +     K I  I +  PPL  Q  I + +         +   I   I   +   +  
Sbjct: 229 S-AIPVLTIKRIAEIELSFPPLEIQEKIADILFAFEKLCNDLTEGIPAEIELRKKQLDYY 287

Query: 200 QALVSYIVTK 209
           Q  +   V  
Sbjct: 288 QNFLFNWVQN 297



 Score = 38.2 bits (87), Expect = 2.5,   Method: Composition-based stats.
 Identities = 8/39 (20%), Positives = 18/39 (46%)

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
           +  +P+  PP+K Q  I  +++  T     L  ++   +
Sbjct: 1   MAEIPIDFPPLKIQEKIATILDTFTELSAELSAELSAEL 39


>gi|291516262|emb|CBK69878.1| Restriction endonuclease S subunits [Bifidobacterium longum subsp.
           longum F8]
          Length = 265

 Score = 62.9 bits (151), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 34/291 (11%), Positives = 83/291 (28%), Gaps = 48/291 (16%)

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           +  +  GAT+SH +   I N+P+ +P   EQ  + E +     +ID           L  
Sbjct: 1   MLRLANGATVSHINVADIRNMPVQLPSRGEQSKVAELLNVLDDKIDLNNRLNDYLANLC- 59

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
                                     E +     +        +  ++         +  
Sbjct: 60  --------------------------ETIASRYCNDRNSRLRDICYQVADHVDYDNANQE 93

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
             +S  +++Q    R +     +         G+ +   I     K      +    G  
Sbjct: 94  TYVSTESLMQNKGGRQLASSLPTTGKITRYKAGDTLISNIRPYFKKIWYAPFE----GTC 149

Query: 317 TSAYMAVKPHGIDSTYLAW-LMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKE 374
           +   +  + +   +       +R             G        + +    V       
Sbjct: 150 SGDVIVFRANDPSNAPYLHACLRQDSFFDYVMQGAKGTKMPRGDKKQMMEFKV------- 202

Query: 375 QFDITNVINVET-ARIDVLVEK---IEQSIVLLKERRSSFIAAAVTGQIDL 421
                +  + E    +D ++++    +  I  L++ R + +   ++G+ID+
Sbjct: 203 ----ASSCSAEDLILLDSVIKQRSDNDSEITKLQKLRDTLLPKLMSGEIDV 249



 Score = 40.2 bits (92), Expect = 0.72,   Method: Composition-based stats.
 Identities = 19/131 (14%), Positives = 34/131 (25%), Gaps = 5/131 (3%)

Query: 29  PIKRFTKLNTGRT-SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
            ++            ++     Y+  E +    G              +       G  L
Sbjct: 73  RLRDICYQVADHVDYDNANQETYVSTESLMQNKGGRQLASSLPTTGKITRYK---AGDTL 129

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL-LSIDVTQRIEAICEGATM 146
              + PY +K   A F+G CS   +V +  D                   +    +G  M
Sbjct: 130 ISNIRPYFKKIWYAPFEGTCSGDVIVFRANDPSNAPYLHACLRQDSFFDYVMQGAKGTKM 189

Query: 147 SHADWKGIGNI 157
              D K +   
Sbjct: 190 PRGDKKQMMEF 200


>gi|282882445|ref|ZP_06291069.1| HsdA [Peptoniphilus lacrimalis 315-B]
 gi|281297710|gb|EFA90182.1| HsdA [Peptoniphilus lacrimalis 315-B]
          Length = 207

 Score = 62.9 bits (151), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 24/211 (11%), Positives = 68/211 (32%), Gaps = 11/211 (5%)

Query: 211 LNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLET 270
           L  D     S     G +PD W +     ++   + K   L  +    +          +
Sbjct: 3   LYKDWFFDFSPFSTEGNLPDSWRIGTVGDIIQFHDSKRVPLSGAERDKMEKIYPYYGATS 62

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
               +    ++   ++   +       + N    +      +  +   A++         
Sbjct: 63  LMDYVDNYLFDGIYLLLGED----GTVVDNLGFPILQYVYGQFWVNNHAHIITGKEDFSV 118

Query: 331 TYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
             L  L R   L  +   +   ++Q +  +++K++P ++P  +         +     I 
Sbjct: 119 EELYLLFR---LTNIKSIVTGAVQQKVSQQNLKKVPAIIPSKES----LRTFDDLIQPIF 171

Query: 391 VLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
             +  +      L + R + +   ++G++D+
Sbjct: 172 AQIRNLRDENTRLADLRDTLLPRLMSGELDV 202


>gi|295401869|ref|ZP_06811833.1| N-6 DNA methylase [Geobacillus thermoglucosidasius C56-YS93]
 gi|312110990|ref|YP_003989306.1| N-6 DNA methylase [Geobacillus sp. Y4.1MC1]
 gi|294976123|gb|EFG51737.1| N-6 DNA methylase [Geobacillus thermoglucosidasius C56-YS93]
 gi|311216091|gb|ADP74695.1| N-6 DNA methylase [Geobacillus sp. Y4.1MC1]
          Length = 643

 Score = 62.9 bits (151), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 37/187 (19%), Positives = 71/187 (37%), Gaps = 13/187 (6%)

Query: 26  KVVPIKRFTKLNTGRTSES--------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
            +V I    ++  G    S        G+    I + D+E+G  ++   D    Q+    
Sbjct: 446 NLVQIGDIAEVIRGVNLPSRRQIENTDGELFPVIQIRDIENGEIRFETIDEFPIQTRDVQ 505

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGIC--STQFLV---LQPKDVLPELLQGWLLSID 132
                 G IL    G   + A++ ++DG+   S  F++      K+V P  ++ +L S  
Sbjct: 506 RVTAQPGDILVSSRGTQQKIAVVPEYDGMILVSNMFIIIRLHSTKEVDPVYVKRFLESPI 565

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
                EA   G+  +      I +I +P+ P+ +Q  +  ++      I     ER +  
Sbjct: 566 GQYFFEAHQSGSIATVLTPNDIRSIELPLLPIEQQQEMIRQLEEADELIRKAYEERKKKY 625

Query: 193 ELLKEKK 199
               +K 
Sbjct: 626 FDAYQKF 632



 Score = 49.8 bits (117), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 26/178 (14%), Positives = 56/178 (31%), Gaps = 6/178 (3%)

Query: 225 VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ 284
           +G + +        +     N          I  +  G I  + ET +            
Sbjct: 450 IGDIAEVIRGVNLPSRRQIENTDGELFPVIQIRDIENGEI--RFETIDEFPIQTRDVQRV 507

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA--VKPHGIDSTYLAWLMRSYDL 342
              PG+I+      Q  K ++         +     +        +D  Y+   + S   
Sbjct: 508 TAQPGDILVSSRGTQ-QKIAVVPEYDGMILVSNMFIIIRLHSTKEVDPVYVKRFLESPIG 566

Query: 343 CKVFYAMGSGLRQS-LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
              F A  SG   + L   D++ + + + PI++Q ++   +      I    E+ ++ 
Sbjct: 567 QYFFEAHQSGSIATVLTPNDIRSIELPLLPIEQQQEMIRQLEEADELIRKAYEERKKK 624


>gi|188577904|ref|YP_001914833.1| hypothetical protein PXO_02076 [Xanthomonas oryzae pv. oryzae
           PXO99A]
 gi|188522356|gb|ACD60301.1| conserved hypothetical protein [Xanthomonas oryzae pv. oryzae
           PXO99A]
          Length = 292

 Score = 62.9 bits (151), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 14/87 (16%), Positives = 36/87 (41%), Gaps = 2/87 (2%)

Query: 336 LMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
            + S         +   +    +L    ++ +PV +PP++EQ  I   ++   A  D   
Sbjct: 5   YLNSPVGMAHMRRLAITTSGLFNLSVGKIRSIPVALPPLEEQSRIVAKVDQLMALCDQFK 64

Query: 394 EKIEQSIVLLKERRSSFIAAAVTGQID 420
            ++ ++  + +   ++ I  A+ G+  
Sbjct: 65  SRLSEARRVHEHLANALIGQALNGEKK 91


>gi|149200914|ref|ZP_01877889.1| Restriction modification system DNA specificity domain [Roseovarius
           sp. TM1035]
 gi|149145247|gb|EDM33273.1| Restriction modification system DNA specificity domain [Roseovarius
           sp. TM1035]
          Length = 294

 Score = 62.9 bits (151), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 19/90 (21%), Positives = 37/90 (41%), Gaps = 5/90 (5%)

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQ 375
            +A +    + +D+ YL + +R             G  +  L    ++ +    PP  EQ
Sbjct: 14  NAAKLTDISNDVDARYLMYFLRGATGQAAMANQTGGTSQPKLALYRIEEIRFPCPPRGEQ 73

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKE 405
             I ++++      D L+E   + I LL+E
Sbjct: 74  QAIVSILSA----YDDLIENNRRRIALLEE 99



 Score = 45.2 bits (105), Expect = 0.022,   Method: Composition-based stats.
 Identities = 20/115 (17%), Positives = 38/115 (33%), Gaps = 14/115 (12%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           +P+ W+     R  +LN G+  ++            E+      P  G+S Q  T   ++
Sbjct: 126 LPEGWERRDFGRVAQLNYGKALKA------------ENRVDGPFPVYGSSGQVGTHDKAL 173

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
                I+ G+ G         +      T + +   K+     L   L +I    
Sbjct: 174 VEAPAIVVGRKGNVGSVYWCPENFWPIDTAYFI--SKEQSDYWLYLTLPNIGFQN 226



 Score = 40.2 bits (92), Expect = 0.69,   Method: Composition-based stats.
 Identities = 40/314 (12%), Positives = 77/314 (24%), Gaps = 33/314 (10%)

Query: 108 STQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQ 167
           +   L     DV    L  +L        +     G +        I  I  P PP  EQ
Sbjct: 14  NAAKLTDISNDVDARYLMYFLRGATGQAAMANQTGGTSQPKLALYRIEEIRFPCPPRGEQ 73

Query: 168 VLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGL 227
             I   + A    I+       R I LL+E  + L          P  +      + +  
Sbjct: 74  QAIVSILSAYDDLIEN----NRRRIALLEEAARLLYREWFVHFRFPGHE-HVPLTDGLPE 128

Query: 228 VPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVD 287
             +  +      L      K    ++           +                      
Sbjct: 129 GWERRDFGRVAQLNYGKALKAENRVDGPFPVYGSSGQVG-------------------TH 169

Query: 288 PGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY 347
              +V     +   K ++ S                        +L   + +        
Sbjct: 170 DKALVEAPAIVVGRKGNVGSVYWCPENFWPIDTAYFISKEQSDYWLYLTLPNIGFQN--- 226

Query: 348 AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
                    L  +      V+VP  K + +    +     +I +L    ++    L + R
Sbjct: 227 --TDSGVPGLNRDFAYSRKVIVPSEKLRREFNLSVQPMLEQIQLLGSYNQK----LAQAR 280

Query: 408 SSFIAAAVTGQIDL 421
              +   + G+I +
Sbjct: 281 DLLLPRLMNGEIAV 294


>gi|157829186|ref|YP_001495428.1| hypothetical protein A1G_07405 [Rickettsia rickettsii str. 'Sheila
           Smith']
 gi|165933913|ref|YP_001650702.1| type I restriction-modification system specificity subunit
           [Rickettsia rickettsii str. Iowa]
 gi|157801667|gb|ABV76920.1| hypothetical protein A1G_07405 [Rickettsia rickettsii str. 'Sheila
           Smith']
 gi|165909000|gb|ABY73296.1| type I restriction-modification system specificity subunit
           [Rickettsia rickettsii str. Iowa]
          Length = 84

 Score = 62.9 bits (151), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 20/83 (24%), Positives = 42/83 (50%), Gaps = 1/83 (1%)

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           + + YL ++++S          GSG +  +  +D++ L + +PP++EQ  +   ++   +
Sbjct: 1   MLTKYLYYILKSQQNIIYQKQAGSG-QPHVYLKDLEDLQIPIPPLEEQQKMVTELDNNQS 59

Query: 388 RIDVLVEKIEQSIVLLKERRSSF 410
           +ID L   I+Q    LK   +S 
Sbjct: 60  KIDNLKNYIKQFENKLKTTLNSL 82


>gi|291613558|ref|YP_003523715.1| restriction modification system DNA specificity domain protein
           [Sideroxydans lithotrophicus ES-1]
 gi|291583670|gb|ADE11328.1| restriction modification system DNA specificity domain protein
           [Sideroxydans lithotrophicus ES-1]
          Length = 815

 Score = 62.9 bits (151), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 56/383 (14%), Positives = 110/383 (28%), Gaps = 51/383 (13%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
           P +    L  G +    +              G Y     N          +     I+ 
Sbjct: 462 PFESVCTLEYGSSLPKSE-----------RRDGPYPVLGSNGITG-YHNKFLIEGPAIVI 509

Query: 89  GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSH 148
           G+ G       +A+      T + V        ++   + +   +         GA +  
Sbjct: 510 GRKGSAGEVTYVAENCFPIDTTYYVKPVNPEASDIRYLYQVLKTLKLTDLK--GGAGIPG 567

Query: 149 ADWKGIGN-IPMPIPPLAEQVLIREKIIAETVRI---DTLITERIRFIELLKEKKQALVS 204
            + K +     +P+PPLA Q  I E+I      I     ++      I L ++     + 
Sbjct: 568 LNRKDVYEAHQIPLPPLAIQKEIVEEIEGYQKIIDGARQVVENYRPSINLQRDWPVVALG 627

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
            +VT G       K     WVG +P                      ++  +        
Sbjct: 628 EVVTTGSG-GTPSKQEANFWVGNIP--------------WVSPKDMKVDFLV-------- 664

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
                  ++     S    ++V  G ++           +   A            +A++
Sbjct: 665 ---DTEDHISEAAISSSATKLVPSGTLLCVVRSGILQH-TFPVALTTRPMAFNQDIVAIQ 720

Query: 325 PH--GIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
                +D  YL ++ ++     +   +  G   QS      K   + +P ++ Q  I   
Sbjct: 721 SDGGKLDIRYLFYIFKAKSNEILAAGIKPGVTVQSFHSGFFKAYQLPLPDLQTQRTIVAE 780

Query: 382 INVETARID---VLVEKIEQSIV 401
           I  E   I+    L+ + E  I 
Sbjct: 781 IEAEQTLINANKQLIARFEAKIQ 803



 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 25/172 (14%), Positives = 49/172 (28%), Gaps = 11/172 (6%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
            W VV +       +G T    +      +I ++  +D++           +     +S 
Sbjct: 620 DWPVVALGEVVTTGSGGTPSKQEANFWVGNIPWVSPKDMKVDFLVDTEDHISEAAISSSA 679

Query: 78  VSIFAKGQILYGKLGPYL---RKAIIADFDGICSTQFLVLQPK--DVLPELLQGWLLSID 132
             +   G +L       L       +       +   + +Q     +    L     +  
Sbjct: 680 TKLVPSGTLLCVVRSGILQHTFPVALTTRPMAFNQDIVAIQSDGGKLDIRYLFYIFKAKS 739

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
                  I  G T+            +P+P L  Q  I  +I AE   I+  
Sbjct: 740 NEILAAGIKPGVTVQSFHSGFFKAYQLPLPDLQTQRTIVAEIEAEQTLINAN 791


>gi|319896579|ref|YP_004134772.1| restriction modification enzyme [Haemophilus influenzae F3031]
 gi|317432081|emb|CBY80431.1| Restriction modification enzyme [Haemophilus influenzae F3031]
          Length = 166

 Score = 62.5 bits (150), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 19/138 (13%), Positives = 48/138 (34%), Gaps = 10/138 (7%)

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS----AYMAVKPHGIDSTYLAWLM 337
           +Y      +++   I    +      A  +  GI              + +   +L + +
Sbjct: 31  SYTYFRENDVIIAKITPCMENGKCALAIGLSNGIGMGSSEFHVFRANENKVFPFFLFYSL 90

Query: 338 RSYDLCKVF--YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
               + K       GS   + +     + L + +P + EQ  I N IN     I+  + +
Sbjct: 91  NRESIRKEAERNMTGSSGHRRVPISFYEDLEISLPDLNEQQSIVNQIN----EIETQISE 146

Query: 396 IEQSIVLLKERRSSFIAA 413
           +E+ +   ++ + + +  
Sbjct: 147 LEKVLENSRQEKKAVLDK 164



 Score = 36.3 bits (82), Expect = 9.0,   Method: Composition-based stats.
 Identities = 27/169 (15%), Positives = 67/169 (39%), Gaps = 13/169 (7%)

Query: 48  IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRK------AIIA 101
           + ++ +  V +        D         + + F +  ++  K+ P +          ++
Sbjct: 2   VSFVEMSSVSNFGFIENKIDKTLGSLRKGSYTYFRENDVIIAKITPCMENGKCALAIGLS 61

Query: 102 DFDGICSTQFLVLQPKDV--LPELLQGWLLSIDVTQRIEAICEGAT-MSHADWKGIGNIP 158
           +  G+ S++F V +  +    P  L   L    + +  E    G++           ++ 
Sbjct: 62  NGIGMGSSEFHVFRANENKVFPFFLFYSLNRESIRKEAERNMTGSSGHRRVPISFYEDLE 121

Query: 159 MPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
           + +P L EQ  I  +I      I+T I+E  + +E  +++K+A++   +
Sbjct: 122 ISLPDLNEQQSIVNQINE----IETQISELEKVLENSRQEKKAVLDKWL 166


>gi|308190350|ref|YP_003923281.1| type I site-specific deoxyribonuclease [Mycoplasma fermentans JER]
 gi|319777747|ref|YP_004137398.1| type i restriction enzyme specificity protein [Mycoplasma
           fermentans M64]
 gi|307625092|gb|ADN69397.1| type I site-specific deoxyribonuclease [Mycoplasma fermentans JER]
 gi|318038822|gb|ADV35021.1| Type I restriction enzyme specificity protein [Mycoplasma
           fermentans M64]
          Length = 362

 Score = 62.5 bits (150), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 43/398 (10%), Positives = 118/398 (29%), Gaps = 41/398 (10%)

Query: 27  VVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQI 86
           +V +K       GR     +         V  G       +      + +       G +
Sbjct: 2   LVKLKDIVTFINGRAYSQPELQDKGKYRIVRVGNFS-GKNEWFYSDMELNEDKYCENGDL 60

Query: 87  LYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATM 146
           LY K        I      I       ++  +   + +  + L + +T    +   G+ M
Sbjct: 61  LY-KWACNFGPEIWKSEKTIFHYHIWKIKWDEKRVDKMFLYYLLMYMTPYWLSSTNGSIM 119

Query: 147 SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYI 206
            H   + +    + +PPL  Q  I + +     +I+  +    R   + +      ++  
Sbjct: 120 IHITKETMEEKIVDLPPLKTQKKISKILENLDKQIEKNLHIVKRLQVMGQAIFDMFLNNA 179

Query: 207 VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ 266
                                  D+  ++    ++     K   ++  N+ +        
Sbjct: 180 K----------------------DYENIESLCKIIWGQCPKGNNILSENVSNNLMLYASG 217

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
             +  N  +            P +I+       +   ++    + ++ I     M    +
Sbjct: 218 AGDLENNKILIS--PKAFTDKPIKIIDNRTICMSIAGTVGKIGISDKNIAIGRAMVGFYN 275

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
                 L + + +     +       +++ +    +  + V +           + N + 
Sbjct: 276 EK-KFGLIYFILNKYSSFLKRQSIGAIQKIINKNHLNIVNVPI-----------LTNEKN 323

Query: 387 ARIDVLVE---KIEQSIVLLKERRSSFIAAAVTGQIDL 421
             ++ L+    K+E++ + L + +   I   + GQI++
Sbjct: 324 NLLNELITKCMKLEKNTLSLIKLKEKLIPLLINGQIEI 361


>gi|262369880|ref|ZP_06063207.1| sty SBLI [Acinetobacter johnsonii SH046]
 gi|262314919|gb|EEY95959.1| sty SBLI [Acinetobacter johnsonii SH046]
          Length = 434

 Score = 62.5 bits (150), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 55/442 (12%), Positives = 123/442 (27%), Gaps = 73/442 (16%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
           VP+  F  L  G        I           +G              +   + A G ++
Sbjct: 7   VPLNEFILLQRGFDLPQSDRI-----------SGDIPVVASTGVAGFHNEYKVDAPG-VV 54

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMS 147
            G+ G       I +     +T   V   K      +   L SID          G  + 
Sbjct: 55  IGRSGSIGGGQYIKEKFWPLNTTLWVKDFKGHDARYVYYLLKSIDFH----RFNVGTGVP 110

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY-- 205
             +   + ++ +       + +I + +     +I            + +   ++      
Sbjct: 111 TLNRNHLSSVLVKNLGYINEKVIAKTLGDLDDKIHLNNQINQTLESIAQALFKSWFIDFD 170

Query: 206 -------IVTKGLNPDVKMKD-----SGIE--------------------------WVGL 227
                     +G NP+          S +E                           +G 
Sbjct: 171 PVRAKIVAKQEGNNPEFAAMCVISGKSEVELQQMAEDDLAELRATAALFPDELVESELGE 230

Query: 228 VPDHWEVKP---FFALVTELNRKNTKLIESNILSLSYGN------IIQKLETRNMGLKPE 278
           VP  WEV           +   K   +    I  L   +             + + L+  
Sbjct: 231 VPKGWEVTRFSNIVEKYIDNRGKTPPIQSEGIPLLEVKHLPEFSLNPDLNTDKKVSLETF 290

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
           +      +   +++   +     +  +  A            +  K + ++  ++ + M 
Sbjct: 291 NTWFRAHLQENDLIMSTVGTIG-RLCIVPANRTLAIAQNILGLRFKLNKVNPLFMYYQMN 349

Query: 339 SYDLCKVFYA-MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
           S        A +   ++ S+K +D++ + +L P IK Q      I          + +  
Sbjct: 350 SAKFRNDVDARLVITVQSSIKRKDLETIDLLQPDIKIQNIFAEKIKPFV------LSQQS 403

Query: 398 QSIVLLKERRSSFIAAAVTGQI 419
              + L + R + +   ++G+I
Sbjct: 404 DESLKLIDIRDALLPKLLSGEI 425



 Score = 60.2 bits (144), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 26/170 (15%), Positives = 54/170 (31%), Gaps = 10/170 (5%)

Query: 18  IGAIPKHWKVVPIKRFTKL---NTGRTSE-SGKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
           +G +PK W+V       +    N G+T     + I  + ++ +   +             
Sbjct: 228 LGEVPKGWEVTRFSNIVEKYIDNRGKTPPIQSEGIPLLEVKHLPEFSLNPDLNTDKKVSL 287

Query: 74  DTSTVS---IFAKGQILYGKLGPYLRKAIIA-DFDGICSTQF--LVLQPKDVLPELLQGW 127
           +T          +  ++   +G   R  I+  +     +     L  +   V P  +   
Sbjct: 288 ETFNTWFRAHLQENDLIMSTVGTIGRLCIVPANRTLAIAQNILGLRFKLNKVNPLFMYYQ 347

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
           + S      ++A       S    K +  I +  P +  Q +  EKI   
Sbjct: 348 MNSAKFRNDVDARLVITVQSSIKRKDLETIDLLQPDIKIQNIFAEKIKPF 397


>gi|238810193|dbj|BAH69983.1| hypothetical protein [Mycoplasma fermentans PG18]
          Length = 363

 Score = 62.5 bits (150), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 43/398 (10%), Positives = 118/398 (29%), Gaps = 41/398 (10%)

Query: 27  VVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQI 86
           +V +K       GR     +         V  G       +      + +       G +
Sbjct: 3   LVKLKDIVTFINGRAYSQPELQDKGKYRIVRVGNFS-GKNEWFYSDMELNEDKYCENGDL 61

Query: 87  LYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATM 146
           LY K        I      I       ++  +   + +  + L + +T    +   G+ M
Sbjct: 62  LY-KWACNFGPEIWKSEKTIFHYHIWKIKWDEKRVDKMFLYYLLMYMTPYWLSSTNGSIM 120

Query: 147 SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYI 206
            H   + +    + +PPL  Q  I + +     +I+  +    R   + +      ++  
Sbjct: 121 IHITKETMEEKIVDLPPLKTQKKISKILENLDKQIEKNLHIVKRLQVMGQAIFDMFLNNA 180

Query: 207 VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ 266
                                  D+  ++    ++     K   ++  N+ +        
Sbjct: 181 K----------------------DYENIESLCKIIWGQCPKGNNILSENVSNNLMLYASG 218

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
             +  N  +            P +I+       +   ++    + ++ I     M    +
Sbjct: 219 AGDLENNKILIS--PKAFTDKPIKIIDNRTICMSIAGTVGKIGISDKNIAIGRAMVGFYN 276

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
                 L + + +     +       +++ +    +  + V +           + N + 
Sbjct: 277 EK-KFGLIYFILNKYSSFLKRQSIGAIQKIINKNHLNIVNVPI-----------LTNEKN 324

Query: 387 ARIDVLVE---KIEQSIVLLKERRSSFIAAAVTGQIDL 421
             ++ L+    K+E++ + L + +   I   + GQI++
Sbjct: 325 NLLNELITKCMKLEKNTLSLIKLKEKLIPLLINGQIEI 362



 Score = 50.2 bits (118), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 16/161 (9%), Positives = 48/161 (29%), Gaps = 5/161 (3%)

Query: 232 WEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE-SYETYQIVDPGE 290
             +     +VT +N +     E           +     +N     +      +  + G+
Sbjct: 1   MMLVKLKDIVTFINGRAYSQPELQDKGKYRIVRVGNFSGKNEWFYSDMELNEDKYCENGD 60

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG 350
           +++++      +       +    I    +              + +  Y       +  
Sbjct: 61  LLYKWACNFGPEIWKSEKTIFHYHI----WKIKWDEKRVDKMFLYYLLMYMTPYWLSSTN 116

Query: 351 SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
             +   +  E ++   V +PP+K Q  I+ ++     +I+ 
Sbjct: 117 GSIMIHITKETMEEKIVDLPPLKTQKKISKILENLDKQIEK 157


>gi|293572023|ref|ZP_06683035.1| type I restriction-modification system specificity subunit
           [Enterococcus faecium E980]
 gi|291607885|gb|EFF37195.1| type I restriction-modification system specificity subunit
           [Enterococcus faecium E980]
          Length = 187

 Score = 62.5 bits (150), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 18/118 (15%), Positives = 41/118 (34%), Gaps = 1/118 (0%)

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
              S      ++  +I+         K  L      E    +          + S Y+  
Sbjct: 67  ISNSKLVDLRLEENDILIARTGGTMGKSFLVKEISEESVFASYLIRIRLVEKLLSEYVYC 126

Query: 336 LMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            + S    K+   +  G  + ++   ++ +L + +PP++EQ  +T  I +    I  +
Sbjct: 127 FLDSPLYWKLLEKISYGTGQPNVNGTNLSKLLIPLPPLEEQQRMTTKIEMIRRSIRRI 184



 Score = 53.6 bits (127), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 29/164 (17%), Positives = 62/164 (37%), Gaps = 7/164 (4%)

Query: 27  VVPIKRFT-KLNTGRTSESGK--DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            V +   + K+  G T  + K  ++ ++ + D++ G   +         +         +
Sbjct: 20  WVYLGSISTKIQYGYTDSAKKQGNVKFLRITDIQEGRVNWSSVPYCDISNSKLVDLRLEE 79

Query: 84  GQILYGKLGPYLRKAI----IADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
             IL  + G  + K+     I++     S    +   + +L E +  +L S    + +E 
Sbjct: 80  NDILIARTGGTMGKSFLVKEISEESVFASYLIRIRLVEKLLSEYVYCFLDSPLYWKLLEK 139

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           I  G    + +   +  + +P+PPL EQ  +  KI      I  
Sbjct: 140 ISYGTGQPNVNGTNLSKLLIPLPPLEEQQRMTTKIEMIRRSIRR 183


>gi|332073217|gb|EGI83696.1| type I restriction modification DNA specificity domain protein
           [Streptococcus pneumoniae GA17570]
          Length = 332

 Score = 62.5 bits (150), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 33/351 (9%), Positives = 94/351 (26%), Gaps = 27/351 (7%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V +     L  G+ +    +   +    ++    +       +   + +         
Sbjct: 2   KKVKLGEVLSLKKGKKATVLAEQTTLSQRYIQIDDLRNNNNLKFTESLNMTEAL---PDD 58

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW--LLSIDVTQRIEAICEG 143
           IL    G             + ST  ++ + +    +++  +  +     +Q +     G
Sbjct: 59  ILIAWDGANAGTVGYGLSGAVGSTITVLKKNERYKEKIISDYLGVFLESKSQYLREHSTG 118

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           AT+ H +   + ++ + +  + EQ  I   +      I     +                
Sbjct: 119 ATIPHLNKNILLDLQLELLGIEEQENIICILNTIKRLITKRKLQLDELNL---------- 168

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
                  L      +  G   +    D+              + +    E   L L+  N
Sbjct: 169 -------LVKSRFNEMFGENKIFESIDNLFDIIDGDRGKNYPKSDELFSEEYCLFLNTKN 221

Query: 264 IIQKLETRN----MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
           + +   + +    +    +       ++  +IV        +          +   I S 
Sbjct: 222 VTKNGFSFDTKQFITKTKDKLLRKGKLERYDIVLTTRGTVGNVAYYDELIKYKHLRINSG 281

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP 370
            + ++P   +     +++           +    +  L    +K+     P
Sbjct: 282 MVILRPKTPNLNQ-KFIIHVLRNNNYSRVISGSAQPQLPITKLKKYFSPSP 331


>gi|327404777|ref|YP_004345615.1| restriction modification system DNA specificity domain-containing
           protein [Fluviicola taffensis DSM 16823]
 gi|327320285|gb|AEA44777.1| restriction modification system DNA specificity domain protein
           [Fluviicola taffensis DSM 16823]
          Length = 397

 Score = 62.5 bits (150), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 54/319 (16%), Positives = 97/319 (30%), Gaps = 15/319 (4%)

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLR-----KAIIADFDGICSTQFLVLQPK 117
           ++P   N   +D ST  +  K Q  YG +            +    + I S  + V + K
Sbjct: 36  FMPSIANIIGTDMSTYKLIRKKQFAYGPVTSRNGDKISIAILDDLDEAIVSQAYTVFEIK 95

Query: 118 DV---LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKI 174
           D     PE L  W    +  +       G+     DW  +    +P+P + +Q  I    
Sbjct: 96  DFNELDPEYLMMWFRRPEFDRYARFKSHGSAREIFDWTEMSETELPVPNIEKQREIVR-- 153

Query: 175 IAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPD---VKMKDSGIEWVGLVPDH 231
             E   I   I+   + I+ L+E  QA+      +   P       K SG + V      
Sbjct: 154 --EYNTIVNRISLNEQLIQKLEETAQAIYKQWFVEFEFPYENGKPYKSSGGKMVWCEELE 211

Query: 232 WEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEI 291
            E+   + + T  N           LS       + +      +    Y    I D   +
Sbjct: 212 KEIPRGWEVKTLDNFCECLDNLRKPLSGIQRGTKKGVYPYFGAMSIIDYIDSYIYDGVFL 271

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
           +             R A     G       A    GI+     ++          + +  
Sbjct: 272 LVSEDGANVVDEFGRPATQYVWGKFWLNNHAHILKGINPYSTEFIKLGLSFINASHLVTG 331

Query: 352 GLRQSLKFEDVKRLPVLVP 370
             +  +   ++  + +L P
Sbjct: 332 AAQPKINQNNLMSIELLKP 350



 Score = 58.3 bits (139), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 26/142 (18%), Positives = 52/142 (36%), Gaps = 9/142 (6%)

Query: 274 GLKPESYETYQIVDPGEIVFRF-IDLQNDKRSLRSAQVMERGIITSAYMAV---KPHGID 329
            +      TY+++   +  +        DK S+     ++  I++ AY        + +D
Sbjct: 42  NIIGTDMSTYKLIRKKQFAYGPVTSRNGDKISIAILDDLDEAIVSQAYTVFEIKDFNELD 101

Query: 330 STYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
             YL    R  +  +       G  R+   + ++    + VP I++Q +I    N    R
Sbjct: 102 PEYLMMWFRRPEFDRYARFKSHGSAREIFDWTEMSETELPVPNIEKQREIVREYNTIVNR 161

Query: 389 IDVLVEKIEQSIVLLKERRSSF 410
               +   EQ I  L+E   + 
Sbjct: 162 ----ISLNEQLIQKLEETAQAI 179



 Score = 36.7 bits (83), Expect = 6.8,   Method: Composition-based stats.
 Identities = 33/191 (17%), Positives = 56/191 (29%), Gaps = 24/191 (12%)

Query: 6   AYPQ---YKDSG--VQWIGA----IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDV 56
            Y     YK SG  + W       IP+ W+V  +  F +           D +   L  +
Sbjct: 190 PYENGKPYKSSGGKMVWCEELEKEIPRGWEVKTLDNFCECL---------DNLRKPLSGI 240

Query: 57  ESGTGK-YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPY----LRKAIIADFDGICSTQF 111
           + GT K   P  G     D     I+    +L  + G        +       G      
Sbjct: 241 QRGTKKGVYPYFGAMSIIDYIDSYIYDGVFLLVSEDGANVVDEFGRPATQYVWGKFWLNN 300

Query: 112 LVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIR 171
                K + P   +   L +        +  GA     +   + +I +  P  +  V   
Sbjct: 301 HAHILKGINPYSTEFIKLGLSFIN-ASHLVTGAAQPKINQNNLMSIELLKPGKSVLVEFN 359

Query: 172 EKIIAETVRID 182
           + I     +I 
Sbjct: 360 KLIKPLFNQIM 370


>gi|75675445|ref|YP_317866.1| Type I restriction enzyme EcoAI specificity protein [Nitrobacter
           winogradskyi Nb-255]
 gi|74420315|gb|ABA04514.1| Type I restriction enzyme EcoAI specificity protein [Nitrobacter
           winogradskyi Nb-255]
          Length = 597

 Score = 62.5 bits (150), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 25/125 (20%), Positives = 46/125 (36%), Gaps = 4/125 (3%)

Query: 278 ESYETYQIVDPGEIVFRFIDLQ--NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
           E  + Y     G++    I     N K ++        G  T+    V+P  +D  Y+  
Sbjct: 139 EIKKGYTHFAEGDVGLAKITPCFENGKSTVFRNLTGGIGTGTTELHIVRPLFVDQDYILL 198

Query: 336 LMRSYDLCK--VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
            ++S    +  +    G+  ++ +  E     P  +PP+ EQ  I   ++      D L 
Sbjct: 199 FLKSPHFIETGIPRMTGTAGQKRVPTEYFAHSPFPLPPLAEQHRIVAKVDALMGLCDRLK 258

Query: 394 EKIEQ 398
              EQ
Sbjct: 259 TAREQ 263



 Score = 43.6 bits (101), Expect = 0.062,   Method: Composition-based stats.
 Identities = 34/200 (17%), Positives = 69/200 (34%), Gaps = 7/200 (3%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           IP +W+   +     L+    +    +  ++ +  + +  G     +           + 
Sbjct: 87  IPSNWRWSQLAEIGVLSPRNEAPDTLEASFVPMPLIAAEYGVANQHEIRPWGEIKKGYTH 146

Query: 81  FAKGQILYGKLGPYLRKA------IIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
           FA+G +   K+ P            +    G  +T+  +++P  V  + +  +L S    
Sbjct: 147 FAEGDVGLAKITPCFENGKSTVFRNLTGGIGTGTTELHIVRPLFVDQDYILLFLKSPHFI 206

Query: 135 QRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
           +       G         +   + P P+PPLAEQ  I  K+ A     D L T R +   
Sbjct: 207 ETGIPRMTGTAGQKRVPTEYFAHSPFPLPPLAEQHRIVAKVDALMGLCDRLKTAREQRET 266

Query: 194 LLKEKKQALVSYIVTKGLNP 213
           +      A ++ +      P
Sbjct: 267 VRDRLAAASLARLNAPDPEP 286



 Score = 43.2 bits (100), Expect = 0.078,   Method: Composition-based stats.
 Identities = 27/188 (14%), Positives = 69/188 (36%), Gaps = 6/188 (3%)

Query: 212 NPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETR 271
            PD       +EW     ++  +           + +  +      ++  G + ++    
Sbjct: 384 TPDELNMPIPVEWAVQSFENLFLF-IDYRGNTPPKTDEGIPLITAKNIRMGYLNREPREF 442

Query: 272 NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH-GIDS 330
                 +++ T    + G++ F     +    ++    + E   +    +  +P+  ID+
Sbjct: 443 ISKATFKTWMTRGFPEIGDLFFT---TEAPLANVCLNDIEEPFALAQRAICFQPYAKIDT 499

Query: 331 TYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
            +L + + S  +  +     +G   + +K   +K LP+ +PP+ EQ  I   ++   A  
Sbjct: 500 KFLMFALMSDVMQSLIDKHATGMTAKGIKAAKLKPLPIPIPPLAEQHRIVAKVDELMALC 559

Query: 390 DVLVEKIE 397
           D L   + 
Sbjct: 560 DRLEASLT 567


>gi|313143599|ref|ZP_07805792.1| restriction modification enzyme [Helicobacter cinaedi CCUG 18818]
 gi|313128630|gb|EFR46247.1| restriction modification enzyme [Helicobacter cinaedi CCUG 18818]
          Length = 1211

 Score = 62.5 bits (150), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 38/349 (10%), Positives = 84/349 (24%), Gaps = 17/349 (4%)

Query: 63   YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPE 122
            +       +  ++           L         +AI  D     S  F         P 
Sbjct: 855  FKETSDYKKLVESKAYKDSKDKDTLTHNAFLAYARAIEKDKLLYFSLSFNQAPIIIKAPN 914

Query: 123  LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
              +     +          EG             +         Q     K+     +  
Sbjct: 915  DNKEQKRFLGYEWSNRKGDEG-----LKELNSPYLSPLFERDNPQNE--NKLAHLIRQAF 967

Query: 183  TLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVT 242
              I+  I         K  L+  +    ++ +  +  + I   G        +     + 
Sbjct: 968  LEISSPIPQDLSPYAFKAKLIDMLDFSKVDFNKAISLNPINSQGEGKAQNPFENCKYELV 1027

Query: 243  ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK 302
            +L           I +       Q       G+    +         E+           
Sbjct: 1028 KLESVCKMYQPQTITAKEILEQGQYKVYGANGVI--GFYDKYNHKDAEVAMTCRGAT--- 1082

Query: 303  RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDV 362
                         IT   M + P   +     +L+    L  +   +    +  +   ++
Sbjct: 1083 -CGTINFTEPESWITGNAMIITPLEKNLILKKFLIYILPLSNIKSVITGAAQPQITRTNL 1141

Query: 363  KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
             +L + +PP++ Q  I      E  +++     I  SI   +E   + +
Sbjct: 1142 SQLKIPLPPLEIQTQIV----AECEKVEEQYNTIRMSIEKYQELIKAIL 1186


>gi|167631093|ref|YP_001681592.1| type i restriction modification DNA specificity domain protein
           [Heliobacterium modesticaldum Ice1]
 gi|167593833|gb|ABZ85581.1| type i restriction modification DNA specificity domain protein
           [Heliobacterium modesticaldum Ice1]
          Length = 205

 Score = 62.5 bits (150), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 31/183 (16%), Positives = 70/183 (38%), Gaps = 7/183 (3%)

Query: 28  VPIKRFTKLNTGRTSESGKDII----YIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           V +K   ++  G++             + + +++ G   Y   +    +           
Sbjct: 22  VKLKDMAEVFRGKSVLKKDIKPGRIAVLNISNIDDGEINYTDLETIDEEERKVKRYELVD 81

Query: 84  GQILYGKLGPYLRKAII--ADFDGICSTQFLVLQP-KDVLPELLQGWLLSIDVTQRIEAI 140
           G ++    G  ++ AI    D   I S   +V++P K+VL E ++ +  S   T  I++ 
Sbjct: 82  GDLVLTCRGTTIKVAIFRQQDRLIIASANVIVIRPQKEVLSEYIKLFFESPVGTSLIKSY 141

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
             G T+ + +   I  + +P+ PL +Q  + +    E       + +  +     +E   
Sbjct: 142 QRGTTIMNLNHSDIAEMEIPLAPLEQQRQMIDAYRREQTLYRQALQQAEQRWREAREDIY 201

Query: 201 ALV 203
           A +
Sbjct: 202 AKM 204



 Score = 48.3 bits (113), Expect = 0.002,   Method: Composition-based stats.
 Identities = 19/170 (11%), Positives = 48/170 (28%), Gaps = 8/170 (4%)

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGN--IIQKLETRNMGLKPESYE----TYQIVDPG 289
               +      K+    +     ++  N   I   E     L+    E        +  G
Sbjct: 23  KLKDMAEVFRGKSVLKKDIKPGRIAVLNISNIDDGEINYTDLETIDEEERKVKRYELVDG 82

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
           ++V             R    +         +  +   + S Y+     S     +  + 
Sbjct: 83  DLVLTCRGTTIKVAIFRQQDRLIIASANVIVIRPQ-KEVLSEYIKLFFESPVGTSLIKSY 141

Query: 350 G-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
                  +L   D+  + + + P+++Q  + +    E       +++ EQ
Sbjct: 142 QRGTTIMNLNHSDIAEMEIPLAPLEQQRQMIDAYRREQTLYRQALQQAEQ 191


>gi|268323780|emb|CBH37368.1| hypothetical protein BSM_08450 [uncultured archaeon]
          Length = 134

 Score = 62.5 bits (150), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 17/91 (18%), Positives = 34/91 (37%), Gaps = 1/91 (1%)

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
           ++  +L   ++S           SG  +  L    +K   + +PP   Q  I N I    
Sbjct: 1   MEPDFLINYIQSPIFILQHKQKKSGTAQPQLPVGTLKEFEIPLPPKDIQQKINNEIARRI 60

Query: 387 ARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
           +  + +   ++ S+   +  R S +  A  G
Sbjct: 61  SICNNIQSTVKDSLQKSEALRQSILKRAFEG 91


>gi|224437132|ref|ZP_03658113.1| type II restriction-modification enzyme [Helicobacter cinaedi CCUG
            18818]
          Length = 1171

 Score = 62.5 bits (150), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 38/349 (10%), Positives = 84/349 (24%), Gaps = 17/349 (4%)

Query: 63   YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPE 122
            +       +  ++           L         +AI  D     S  F         P 
Sbjct: 815  FKETSDYKKLVESKAYKDSKDKDTLTHNAFLAYARAIEKDKLLYFSLSFNQAPIIIKAPN 874

Query: 123  LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
              +     +          EG             +         Q     K+     +  
Sbjct: 875  DNKEQKRFLGYEWSNRKGDEG-----LKELNSPYLSPLFERDNPQNE--NKLAHLIRQAF 927

Query: 183  TLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVT 242
              I+  I         K  L+  +    ++ +  +  + I   G        +     + 
Sbjct: 928  LEISSPIPQDLSPYAFKAKLIDMLDFSKVDFNKAISLNPINSQGEGKAQNPFENCKYELV 987

Query: 243  ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK 302
            +L           I +       Q       G+    +         E+           
Sbjct: 988  KLESVCKMYQPQTITAKEILEQGQYKVYGANGVI--GFYDKYNHKDAEVAMTCRGAT--- 1042

Query: 303  RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDV 362
                         IT   M + P   +     +L+    L  +   +    +  +   ++
Sbjct: 1043 -CGTINFTEPESWITGNAMIITPLEKNLILKKFLIYILPLSNIKSVITGAAQPQITRTNL 1101

Query: 363  KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
             +L + +PP++ Q  I      E  +++     I  SI   +E   + +
Sbjct: 1102 SQLKIPLPPLEIQTQIV----AECEKVEEQYNTIRMSIEKYQELIKAIL 1146


>gi|219883432|ref|YP_002478592.1| hypothetical protein Cyan7425_5291 [Cyanothece sp. PCC 7425]
 gi|219867578|gb|ACL47914.1| hypothetical protein Cyan7425_5291 [Cyanothece sp. PCC 7425]
          Length = 555

 Score = 62.5 bits (150), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 45/417 (10%), Positives = 118/417 (28%), Gaps = 38/417 (9%)

Query: 30  IKRFTKLNTGRT----SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS---TVSIFA 82
           +K   +  T  T        K + ++   +++  +  +   +  S               
Sbjct: 42  LKDLCEFITDGTHVTPKYQQKGVKFLSSTNIDPFSIDFDNTNHISESEHLKLGQQKCNPE 101

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
            G IL  K G     A+  D    CS    V   +      +       + +        
Sbjct: 102 PGDILISKNGRIGTVAVYRDSHQSCSLFVSVALLRYRGNVDIDFITAFSNSSGGWYQFTR 161

Query: 143 GATMSHADWKGIGNIPMPI---------PPLAEQVLIREKIIAETVRIDTLIT------E 187
            A         +  I   +           + ++V   E++   +  + + I        
Sbjct: 162 SAKTGVITNLHLEEIREVLVPEPFKAVQTYIGDKVRQAERLRERSKELASRIQALVQPLH 221

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK 247
               ++    K   L    +   L+       S         +   +      V+     
Sbjct: 222 IQNALKTPDSKYNRLEGKELQHRLDAKYYNHRSMEVLDACKDESKAINNLMISVSNGFEH 281

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
            T + E             +L+  ++   P+S E              +   +   +++ 
Sbjct: 282 RTFVDEGQPYITVSEVSSGRLDLTSVPKIPDSVEVPDKALINSNCVLVVRTGSIGIAVKV 341

Query: 308 AQVMERGIITSAYMAVKPHGIDS-TYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRL 365
            +  E   I+S  + ++     +   +A  + S     + + +  G  +  +  +++  L
Sbjct: 342 HEEDEGASISSHLIRLEFQEESTAAAVAAFLNSAAGECLLHKISYGAVQPQVGQDELLNL 401

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS---FIAAAVTGQI 419
           P+          I  +++  +  I   +   E +I   +   ++    +   + G+I
Sbjct: 402 PIP--------RI--ILDN-SEEILQCMNLQEMAIRSAERLTTAAKLLVEGLIEGKI 447


>gi|313668695|ref|YP_004048979.1| restriction modification system DNA specificity domain [Neisseria
           lactamica ST-640]
 gi|313006157|emb|CBN87619.1| putative restriction modification system DNA specificity domain
           [Neisseria lactamica 020-06]
          Length = 205

 Score = 62.5 bits (150), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 21/174 (12%), Positives = 47/174 (27%), Gaps = 3/174 (1%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG 289
                K    +      +      +    +   N++Q  E + +     S          
Sbjct: 18  KDVVWKTLGEVAEYSKNRICSDKLNEHNYVGVDNLLQNREGKKLSGYVPSEGKMTEYIVN 77

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
           +I+   I     K           G +    + V    ++  YL  ++            
Sbjct: 78  DILIGNIRPYLKKIWQADCTGGTNGDV--LVIRVTDEKVNPKYLYQVLADDKFFAFNMKH 135

Query: 350 GSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
             G          + +  + +PP+ EQ  I  +++        + E +   I L
Sbjct: 136 AKGAKMPRGSKTAIMQYKIPIPPLSEQEKIVAILDKFDTLTHSVSEGLPHEIAL 189



 Score = 49.4 bits (116), Expect = 0.001,   Method: Composition-based stats.
 Identities = 40/187 (21%), Positives = 71/187 (37%), Gaps = 8/187 (4%)

Query: 27  VVPIKRFTKLNTGRT-SESGKDIIYIGLEDV-ESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
              +    + +  R  S+   +  Y+G++++ ++  GK L   G        T  I    
Sbjct: 22  WKTLGEVAEYSKNRICSDKLNEHNYVGVDNLLQNREGKKLS--GYVPSEGKMTEYIV--N 77

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQP--KDVLPELLQGWLLSIDVTQRIEAICE 142
            IL G + PYL+K   AD  G  +   LV++   + V P+ L   L             +
Sbjct: 78  DILIGNIRPYLKKIWQADCTGGTNGDVLVIRVTDEKVNPKYLYQVLADDKFFAFNMKHAK 137

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           GA M       I    +PIPPL+EQ  I   +        ++       I L +++ +  
Sbjct: 138 GAKMPRGSKTAIMQYKIPIPPLSEQEKIVAILDKFDTLTHSVSEGLPHEIALRRKQYEYY 197

Query: 203 VSYIVTK 209
              ++  
Sbjct: 198 CEQLLAF 204


>gi|294101455|ref|YP_003553313.1| restriction modification system DNA specificity domain protein
           [Aminobacterium colombiense DSM 12261]
 gi|293616435|gb|ADE56589.1| restriction modification system DNA specificity domain protein
           [Aminobacterium colombiense DSM 12261]
          Length = 505

 Score = 62.5 bits (150), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 28/166 (16%), Positives = 65/166 (39%), Gaps = 7/166 (4%)

Query: 28  VPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           V +K   ++  G++         ++  + + +++ G   Y   D    +         + 
Sbjct: 322 VKLKNVAEVFRGKSILKKDLGPGNVAVLNISNIKDGEIDYHDLDTIDEEEHKIKRYELSS 381

Query: 84  GQILYGKLGPYLRKAII--ADFDGICSTQFLVLQPKDVLP-ELLQGWLLSIDVTQRIEAI 140
           G ++    G  ++ A+    D   I S   +V++PK+ +  E ++ +L S      I++ 
Sbjct: 382 GDVVLSCRGTSIKSAVFEAQDKTIIASANLVVIRPKEKVKGEFIKIFLESPVGQAMIQSF 441

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
             G  + + ++  I  + +P  P+ EQ  + E    E       I 
Sbjct: 442 QRGTILMNINYADIMEMEIPFLPIYEQQKMIETYCQEFKTYKEAIN 487



 Score = 49.0 bits (115), Expect = 0.002,   Method: Composition-based stats.
 Identities = 13/123 (10%), Positives = 32/123 (26%), Gaps = 2/123 (1%)

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
           + E       +  G++V              +             +  K       ++  
Sbjct: 369 EEEHKIKRYELSSGDVVLSCRGTSIKSAVFEAQDKTIIASANLVVIRPKEKVK-GEFIKI 427

Query: 336 LMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
            + S     +  +   G    ++ + D+  + +   PI EQ  +      E       + 
Sbjct: 428 FLESPVGQAMIQSFQRGTILMNINYADIMEMEIPFLPIYEQQKMIETYCQEFKTYKEAIN 487

Query: 395 KIE 397
             E
Sbjct: 488 LAE 490


>gi|148827016|ref|YP_001291769.1| putative type I restriction enzyme HindVIIP specificity protein
           [Haemophilus influenzae PittGG]
 gi|148718258|gb|ABQ99385.1| putative type I restriction enzyme HindVIIP specificity protein
           [Haemophilus influenzae PittGG]
          Length = 459

 Score = 62.1 bits (149), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 51/470 (10%), Positives = 128/470 (27%), Gaps = 92/470 (19%)

Query: 29  PIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF- 81
            +  +  +  G   +S         +  I + +V  G+   L       +     V  F 
Sbjct: 3   KLGNYISVQNGYAFKSKDFIKNLSGMPVIKIGNVTGGSFIDLSSYDTISEEIARKVKSFQ 62

Query: 82  -AKGQILYGKLGPYLRKA---IIADFDGICSTQFLVLQPKDVLPE---LLQGWLLSIDVT 134
                IL    G  + K           + + +   L  K+  P     +   + S    
Sbjct: 63  TKDDDILIAMTGANVGKVSRIAKGTQPCLINQRVGRLILKEDCPYSSDFIYYLVSSNKSF 122

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           Q      +GA   +   K I ++  P           + +     +I           ++
Sbjct: 123 QYFSNTADGAAQPNISGKLIEDLEFPDISPKSANKAGKHLKVLDEKIQLNTQINQTLEQI 182

Query: 195 LKEKKQALVS---------YIVTKG-------LNPDVKMKDSGIEWV------------- 225
            +   ++              +++G       L     +     E +             
Sbjct: 183 AQALFKSWFVDFDPVRAKVQALSEGMSLEQAELAAMQTISGKTPEELTALSQTQPDRYAE 242

Query: 226 -----------------GLVPDHWEVKPFFALVTELNR---KNTKLIESNILSLSYGNII 265
                            G VP  WE      +    N    K+   +E  I  +  G++ 
Sbjct: 243 LAETAKAFPCEMVEVDGGEVPKGWEKTTLSEICEMQNGYAFKSFDWMEQGIPVIKIGSVK 302

Query: 266 QKL-ETRNMGLKPESYET---YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
             + E    G   E Y       ++   +I+        +   + + ++    ++     
Sbjct: 303 PIIVEVEGNGFVSEDYSKLKPDFLLTSSDILVGLTGYVGEVGRIPTGKI---AMLNQRVA 359

Query: 322 AVKPHGIDSTYLAW-LMRSYDLCKVFYAMG-----SGLRQSLKFEDVKRLPVLVPPIKEQ 375
              P  ID  +  +  +        F            + ++  +++ + P++       
Sbjct: 360 KFLPKEIDKNHCFYNYIYCLARQSQFKEFAEINAKGSAQANISTKELLKFPIIKAN---- 415

Query: 376 FDITNVINVETARIDVLVEKIEQSI------VLLKERRSSFIAAAVTGQI 419
               + +++     + + E +E+ +        L + R   +   + G++
Sbjct: 416 ----DKLHILFE--NRVKELLERILWNSQNAETLAKTRDLLLPRLLNGEV 459



 Score = 59.8 bits (143), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 27/202 (13%), Positives = 56/202 (27%), Gaps = 15/202 (7%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           G +PK W+   +    ++  G   +S     + I  I +  V+        +       D
Sbjct: 260 GEVPKGWEKTTLSEICEMQNGYAFKSFDWMEQGIPVIKIGSVK--PIIVEVEGNGFVSED 317

Query: 75  TSTVS---IFAKGQILYGKLGPYLRKAIIA-DFDGICSTQFLVLQPK-----DVLPELLQ 125
            S +    +     IL G  G       I      + + +     PK           + 
Sbjct: 318 YSKLKPDFLLTSSDILVGLTGYVGEVGRIPTGKIAMLNQRVAKFLPKEIDKNHCFYNYIY 377

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
                    +  E   +G+  ++   K +   P+        +L   ++     RI    
Sbjct: 378 CLARQSQFKEFAEINAKGSAQANISTKELLKFPIIKANDKLHILFENRVKELLERILWNS 437

Query: 186 TERIRFIELLKEKKQALVSYIV 207
                  +        L++  V
Sbjct: 438 QNAETLAKTRDLLLPRLLNGEV 459


>gi|302560832|ref|ZP_07313174.1| conserved hypothetical protein [Streptomyces griseoflavus Tu4000]
 gi|302478450|gb|EFL41543.1| conserved hypothetical protein [Streptomyces griseoflavus Tu4000]
          Length = 321

 Score = 62.1 bits (149), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 52/349 (14%), Positives = 97/349 (27%), Gaps = 43/349 (12%)

Query: 81  FAKGQILYGKLGPYLRKAIIADFDG---ICSTQFLVL--QPKDVLPELLQGWLLSIDVTQ 135
              GQI+  KL  +     +   D      S ++ V     K      ++  L    +  
Sbjct: 4   LKTGQIVMSKLNAWEGGLAVVGEDFSDTYVSPEYPVFSVDEKRAQSAYVKHLLAWPRLWG 63

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
           R+                     +P+P   EQ  I  ++ A   RI  +   +     L+
Sbjct: 64  RLTPRGSMVQRKRTTPATFLATCVPLPDPVEQNRIAGRLDAAMHRIAQVDYLKGTSNNLI 123

Query: 196 KEKKQAL---VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
            +   AL   +           V  K   +E     P          L+     + +   
Sbjct: 124 LQYADALFRSIKQTAPLAEVLLVDDKFVDVESDSTYPVTGICSFGRDLIRRPVIQGSGTA 183

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
                                      Y  +  +  G+IV   ++      ++      +
Sbjct: 184 ---------------------------YTRFVQIQAGQIVMSKLNAWEGALAVVGGDFAD 216

Query: 313 RGIITSAYMAV--KPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLV 369
              ++  Y          DS YL  L+   +L       GS  R +      +    V +
Sbjct: 217 T-YVSPEYPVFSLIESAADSEYLEHLLAWPELWARLTPRGSMFRRKRTTPATLLATEVPL 275

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           P + EQ  I   +         + E     +  L   R + + AA +G+
Sbjct: 276 PSLSEQRRIAKQL----TLARRVAEGSAAQVEQLATLRRALLDAAFSGR 320


>gi|225550745|ref|ZP_03771694.1| restriction-modification enzyme MpuUVI S subunit [Ureaplasma
           urealyticum serovar 2 str. ATCC 27814]
 gi|225379899|gb|EEH02261.1| restriction-modification enzyme MpuUVI S subunit [Ureaplasma
           urealyticum serovar 2 str. ATCC 27814]
          Length = 354

 Score = 62.1 bits (149), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 51/390 (13%), Positives = 105/390 (26%), Gaps = 50/390 (12%)

Query: 28  VPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           + +K       G T  S +          I      +G   Y+               ++
Sbjct: 3   IKLKDIIYAKRGSTITSNEFKINPGSYPLISASAQNNGVFGYINS------------YMY 50

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ-RIEAI 140
             G I     G         D     S   ++    + +      +         +I+++
Sbjct: 51  EGGHITISMNGNAGCVFYQKDKFSANSDVLVLSNIDNKISNNKFIFYWLKKHENTKIKSL 110

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
           C+G T        + N+ + +PP+ EQ  I   I      I   I      I L  EK  
Sbjct: 111 CKGTTRLRLSNDDVLNLEINLPPIEEQNAIISIIEPIEKSI-KTINLLQTKIGLFIEKTF 169

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
             ++  +      +  +KD      GL                            I +  
Sbjct: 170 NFINDNLVNSDLIEFSLKDLLNIKRGLP---------------------------ITAKD 202

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
             N        +   K      Y      +     I +  +   +               
Sbjct: 203 LLNNPGSYPLISASSKNNGIFGYFNDYMYDGKNITISMNGNAGCIFYQIGKFSANSDVLV 262

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
           ++     + +    + +      ++        R  L    +++  VL+P I+ Q   + 
Sbjct: 263 LSNSNKNLTNIDYIYYLLKTKEKEIQNLAIGTTRFRLGNSVIEKFKVLLPNIEIQEKFSK 322

Query: 381 VINVETARIDVLVEKIEQSIV--LLKERRS 408
           ++      +     KIE+++   LLK  + 
Sbjct: 323 IVEPLL-NLSTKANKIEKNLNECLLKIVKK 351


>gi|325474568|gb|EGC77754.1| type I restriction-modification system [Treponema denticola F0402]
          Length = 157

 Score = 62.1 bits (149), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 25/147 (17%), Positives = 55/147 (37%), Gaps = 13/147 (8%)

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID--------LQNDKRSLRS 307
                +G++   +  +N     +    Y I   G I+    D        +   K S+ +
Sbjct: 9   WTWSHFGDVADVINGKNQSQVEDDTGEYPIYGSGGIMGYANDYICPENCTIIGRKGSINN 68

Query: 308 AQVMER--GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRL 365
              +E     + +A+       +   YL +  +S+D   +     S    SL    ++R+
Sbjct: 69  PIFVEEKLWNVDTAFGLAPSSIVLPRYLFYFCKSFDFTSL---DSSTTLPSLTKTSIQRI 125

Query: 366 PVLVPPIKEQFDITNVINVETARIDVL 392
              +PP+  Q  I + I+   +++D +
Sbjct: 126 LFPLPPLAAQKRILDKIDELFSQLDKI 152



 Score = 62.1 bits (149), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 36/163 (22%), Positives = 56/163 (34%), Gaps = 16/163 (9%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           IP+ W          +  G+               VE  TG+Y P  G+      +   I
Sbjct: 5   IPESWTWSHFGDVADVINGKNQSQ-----------VEDDTGEY-PIYGSGGIMGYANDYI 52

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
             +   + G+ G       + +      T F +     VLP  L  +  S D T    ++
Sbjct: 53  CPENCTIIGRKGSINNPIFVEEKLWNVDTAFGLAPSSIVLPRYLFYFCKSFDFT----SL 108

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
               T+       I  I  P+PPLA Q  I +KI     ++D 
Sbjct: 109 DSSTTLPSLTKTSIQRILFPLPPLAAQKRILDKIDELFSQLDK 151


>gi|321310227|ref|YP_004192556.1| type I restriction-modification system, S subunit [Mycoplasma
           haemofelis str. Langford 1]
 gi|319802071|emb|CBY92717.1| type I restriction-modification system, S subunit [Mycoplasma
           haemofelis str. Langford 1]
          Length = 199

 Score = 62.1 bits (149), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 18/184 (9%), Positives = 58/184 (31%), Gaps = 8/184 (4%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN--MGLKPESYETYQ 284
               ++ +         ++ K++   +     +   NI                +++   
Sbjct: 11  ENVRYFRLGDVCKTYAGISFKSSFYRDRGFPIIKTRNIQDNQIVTGDLNYCDLANHKDAM 70

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID--STYLAWLMRSYDL 342
           I+  G++V            +      E  +  S  +   P+       YL   + S   
Sbjct: 71  IIKHGDVVMAKDGS--CCGKIGINLTDEEFLFDSHVLQFIPNEKLLIKRYLYHFLLSCQD 128

Query: 343 CKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
                A+GS     ++  +++++ + V  ++ Q  + + ++     I+  +   ++    
Sbjct: 129 KIRELAVGS-AIPGIRKSELEKIKIPVSSLEVQEKVASTLDK-FREIEREISLRDKQYEY 186

Query: 403 LKER 406
            +  
Sbjct: 187 YRNY 190



 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 24/176 (13%), Positives = 55/176 (31%), Gaps = 8/176 (4%)

Query: 29  PIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
            +    K   G + +S     +    I   +++         +     +      I   G
Sbjct: 17  RLGDVCKTYAGISFKSSFYRDRGFPIIKTRNIQDNQIVTGDLNYCDLAN-HKDAMIIKHG 75

Query: 85  QILYGKLGPYLRKAIIA--DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
            ++  K G    K  I   D + +  +  L   P + L      +   +    +I  +  
Sbjct: 76  DVVMAKDGSCCGKIGINLTDEEFLFDSHVLQFIPNEKLLIKRYLYHFLLSCQDKIRELAV 135

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
           G+ +       +  I +P+  L  Q  +   +  +   I+  I+ R +  E  +  
Sbjct: 136 GSAIPGIRKSELEKIKIPVSSLEVQEKVASTLD-KFREIEREISLRDKQYEYYRNY 190


>gi|297571612|ref|YP_003697386.1| restriction modification system DNA specificity domain protein
           [Arcanobacterium haemolyticum DSM 20595]
 gi|296931959|gb|ADH92767.1| restriction modification system DNA specificity domain protein
           [Arcanobacterium haemolyticum DSM 20595]
          Length = 249

 Score = 62.1 bits (149), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 35/184 (19%), Positives = 57/184 (30%), Gaps = 15/184 (8%)

Query: 229 PDHWEVKPFFALVTELNRKNTKLIESNI------LSLSYGNIIQKLETRNMGLKPESYET 282
           PD W    F  LV     K  K  E           +S  ++ Q     +          
Sbjct: 68  PDSWRWIRFGDLVEFRMGKTPKRAEQKYWLRGSVPWVSISDMAQGETITSTRESVSDEAI 127

Query: 283 YQIV-----DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
                      G ++  F         L    V    II+  +  V    I  +YLA+ +
Sbjct: 128 SDAFGGVVSPAGTLIMSFKLTIGRCSFLGVDAVHNEAIIS-VFPIVDTWEILPSYLAYAL 186

Query: 338 RSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
             +       A   G   +L    +  + V +PP+ EQ  I   ++     ID L  ++E
Sbjct: 187 PIFSSHGDAKAAMKG--NTLNSTSLNLMMVSLPPLAEQERIVAKLDEVLPLIDQL-AELE 243

Query: 398 QSIV 401
           +   
Sbjct: 244 RERE 247



 Score = 57.1 bits (136), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 31/185 (16%), Positives = 65/185 (35%), Gaps = 23/185 (12%)

Query: 18  IGA------IPKHWKVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYL 64
           IG       +P  W+ +      +   G+T +  +        + ++ + D+  G     
Sbjct: 58  IGENDDPFVLPDSWRWIRFGDLVEFRMGKTPKRAEQKYWLRGSVPWVSISDMAQGETITS 117

Query: 65  PKDGNSRQ--SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP----KD 118
            ++  S +  SD     +   G ++       + +      D + +   + + P     +
Sbjct: 118 TRESVSDEAISDAFGGVVSPAGTLIMS-FKLTIGRCSFLGVDAVHNEAIISVFPIVDTWE 176

Query: 119 VLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
           +LP  L   L         +A  +G T    +   +  + + +PPLAEQ  I  K+    
Sbjct: 177 ILPSYLAYALPIFSSHGDAKAAMKGNT---LNSTSLNLMMVSLPPLAEQERIVAKLDEVL 233

Query: 179 VRIDT 183
             ID 
Sbjct: 234 PLIDQ 238


>gi|261380923|ref|ZP_05985496.1| HsdS protein [Neisseria subflava NJ9703]
 gi|284796176|gb|EFC51523.1| HsdS protein [Neisseria subflava NJ9703]
          Length = 223

 Score = 62.1 bits (149), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 36/241 (14%), Positives = 71/241 (29%), Gaps = 24/241 (9%)

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLN--PDVKMKDSGIEWVGLVPDHWE 233
               R+D+ I E    +E  ++ K+A+++ +        P ++ K    EW         
Sbjct: 1   MFFSRLDSQIAESRAVLEKSRQLKKAMLAKMFPANGEKIPKIRFKGFEGEWETYQICDLF 60

Query: 234 VKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVF 293
                 ++   N  + K  +      S     + L         E+  T+          
Sbjct: 61  RITRGNVLATTNLVDNKNEDYCYPVYSSQTKNKGLMGYWKHYLFENAITWTTDGANAGDV 120

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL 353
            F   +    ++    + E G        +      S                       
Sbjct: 121 NFRSGKFYCTNVCGVLINEEGFANQGIAEILNLVTHSYVSY-----------------VG 163

Query: 354 RQSLKFEDVKRLPVLVPP-IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
              L    +  +P+L+PP IKEQ  I N       ++D  +      +  L + +   +A
Sbjct: 164 NPKLMNNVMAEIPILIPPTIKEQTAIGNF----FRQLDETIALQSAEVEKLNQLKKGLLA 219

Query: 413 A 413
           A
Sbjct: 220 A 220


>gi|3335670|gb|AAC78320.1| restriction-modification enzyme MpuUVIII S subunit [Mycoplasma
           pulmonis]
          Length = 365

 Score = 62.1 bits (149), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 44/359 (12%), Positives = 106/359 (29%), Gaps = 31/359 (8%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDII-YIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           ++  + +   L  G++  + K +   IG+ ++ S   K     G     D +        
Sbjct: 2   EIYKLGQILNLEKGKSKYNAKYVSQNIGIYNLYSSKTKDQGIFGKINSYDFNGEY----- 56

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            IL    G Y       +     ++   +L+  + + +      L +   +    +  G+
Sbjct: 57  -ILITTHGAYAGTVKYVNEKFSTTSNCFILKVDENIAKTKFLSYLLLLQEKTFNDMAIGS 115

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
              +     I +  + +P L  Q  I + I     +I+      +          Q  + 
Sbjct: 116 AYGYLKNYNINDFEVNLPNLKTQSAIIKIIEPLEKQINAFDELILSE--------QKSLQ 167

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
           + +   LN    +  S       +  ++++     L    ++ N K +  NI   +  + 
Sbjct: 168 HYLNYFLNKLASINPS-------IFKNYKLGQILNLEKGKSKYNAKYVSQNIGIYNLYSS 220

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
             + +     +    +    I+         I               +    ++ ++   
Sbjct: 221 KTRDQGIFGKINSYDFNGEYIL---------ITTHGAYAGTVKYVNEKFSTTSNCFILKV 271

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
              I  T     +                   LK  ++    V +P +K Q  I  +I 
Sbjct: 272 NENIVKTKFLSYLLLLQEKTFNDMAIGSAYGYLKNYNINDFEVNLPNLKIQSAILGIIE 330



 Score = 40.5 bits (93), Expect = 0.53,   Method: Composition-based stats.
 Identities = 16/142 (11%), Positives = 35/142 (24%), Gaps = 3/142 (2%)

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
               +   K +              +  I               +    ++ ++      
Sbjct: 31  YNLYSSKTKDQGIFGKINSYDFNGEYILITTHGAYAGTVKYVNEKFSTTSNCFILKVDEN 90

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           I  T     +                   LK  ++    V +P +K Q  I  +I     
Sbjct: 91  IAKTKFLSYLLLLQEKTFNDMAIGSAYGYLKNYNINDFEVNLPNLKTQSAIIKIIEPLEK 150

Query: 388 RI---DVLVEKIEQSIVLLKER 406
           +I   D L+   ++S+      
Sbjct: 151 QINAFDELILSEQKSLQHYLNY 172


>gi|261492676|ref|ZP_05989226.1| type I site-specific deoxyribonuclease specificity subunit
           [Mannheimia haemolytica serotype A2 str. BOVINE]
 gi|261495899|ref|ZP_05992323.1| type I site-specific deoxyribonuclease specificity subunit
           [Mannheimia haemolytica serotype A2 str. OVINE]
 gi|261308443|gb|EEY09722.1| type I site-specific deoxyribonuclease specificity subunit
           [Mannheimia haemolytica serotype A2 str. OVINE]
 gi|261311662|gb|EEY12815.1| type I site-specific deoxyribonuclease specificity subunit
           [Mannheimia haemolytica serotype A2 str. BOVINE]
          Length = 124

 Score = 62.1 bits (149), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 16/114 (14%), Positives = 34/114 (29%), Gaps = 1/114 (0%)

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
                  I D   I+          +   +  V  +    +    +        Y  + +
Sbjct: 11  IDKVASYIFDGKFILIGEDGGNFFTKKDVAFIVEGKFWANNHVHVLSVDFNLEKYFCYYL 70

Query: 338 RSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
            + +L  +    G      L   ++  + + +PPI EQ  I   I    + I+ 
Sbjct: 71  NALNLPSMGLINGI-AVPKLNQRNLNSILIAIPPISEQHRIVEKIEKLFSEIEK 123


>gi|315225320|ref|ZP_07867135.1| type I restriction enzyme, S subunit [Capnocytophaga ochracea
           F0287]
 gi|314944714|gb|EFS96748.1| type I restriction enzyme, S subunit [Capnocytophaga ochracea
           F0287]
          Length = 183

 Score = 62.1 bits (149), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 23/183 (12%), Positives = 55/183 (30%), Gaps = 15/183 (8%)

Query: 224 WVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLE--------TRNMGL 275
            +  +P  W       +V        K  E ++ S+    +               ++ L
Sbjct: 1   MLLDLPVGWRWCRLKDIVFIFTGATFKKEEVSVESIDIRILRGGNIQPFRLTNRVDDIFL 60

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA----VKPHGIDST 331
             +  +   ++   +IV   +    +   +   +          ++        + I S 
Sbjct: 61  PKDKVKENILLKKNDIVTPAVTSLENIGKMARVEFDLESTTVGGFVFILRQFYCNDIVSK 120

Query: 332 YLAWLMRSYDLCKVFYA---MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
           YL  L+ S  L     +          ++    ++   + +PP+ EQ  I   I+     
Sbjct: 121 YLLALLSSPVLIDYIKSITNKSGQAFYNISKNRLEMTLLPLPPLAEQQRIVESIDAIFRC 180

Query: 389 IDV 391
           I+ 
Sbjct: 181 IEN 183



 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 27/184 (14%), Positives = 53/184 (28%), Gaps = 24/184 (13%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQS 73
            +P  W+   +K    + TG T +  +      DI  +   +++         D    + 
Sbjct: 4   DLPVGWRWCRLKDIVFIFTGATFKKEEVSVESIDIRILRGGNIQPFRLTNRVDDIFLPKD 63

Query: 74  DTSTVSIFAKGQIL---------YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELL 124
                 +  K  I+          GK+     +               +L+       + 
Sbjct: 64  KVKENILLKKNDIVTPAVTSLENIGKMA----RVEFDLESTTVGGFVFILRQFYCNDIVS 119

Query: 125 QGW-----LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
           +          +    +      G    +     +    +P+PPLAEQ  I E I A   
Sbjct: 120 KYLLALLSSPVLIDYIKSITNKSGQAFYNISKNRLEMTLLPLPPLAEQQRIVESIDAIFR 179

Query: 180 RIDT 183
            I+ 
Sbjct: 180 CIEN 183


>gi|282883024|ref|ZP_06291625.1| type I restriction enzyme, HsdS subunit [Peptoniphilus lacrimalis
           315-B]
 gi|281297081|gb|EFA89576.1| type I restriction enzyme, HsdS subunit [Peptoniphilus lacrimalis
           315-B]
          Length = 230

 Score = 62.1 bits (149), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 18/149 (12%), Positives = 53/149 (35%), Gaps = 4/149 (2%)

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
           ++  G +                     VD  +++F  I    +   +          I 
Sbjct: 70  NVKNGEVNFDNSYYISEQDYLEINKRSKVDIYDLLFTMIGTIGEVAQITEEA---NYAIK 126

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVF-YAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
           +  +    + I S YL + ++S  +          G +  +    ++ + +++P  + Q 
Sbjct: 127 NVGLIKTNNKILSRYLFYYLKSEKIRNYISENKSKGSQVFISLGKLRNMEIILPCQEVQE 186

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKE 405
            I ++++     ++ + E + + I L ++
Sbjct: 187 YIVSILDKFEKLVNDVNEGLPKEIDLRQK 215



 Score = 46.7 bits (109), Expect = 0.006,   Method: Composition-based stats.
 Identities = 22/187 (11%), Positives = 60/187 (32%), Gaps = 6/187 (3%)

Query: 29  PIKRFTKLNTGRTSESGK---DIIYIGLEDVESGTGKYLPKDGNSRQS--DTSTVSIFAK 83
            +     +  G  +   +       +  ++V++G   +      S Q   + +  S    
Sbjct: 41  KLDAICDVRDGTHNSPKRQLHGKYLVTSKNVKNGEVNFDNSYYISEQDYLEINKRSKVDI 100

Query: 84  GQILYGKLGPYLRKAIIADF-DGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
             +L+  +G     A I +  +       L+     +L   L  +L S  +   I     
Sbjct: 101 YDLLFTMIGTIGEVAQITEEANYAIKNVGLIKTNNKILSRYLFYYLKSEKIRNYISENKS 160

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
             +        + N+ + +P    Q  I   +      ++ +     + I+L +++ +  
Sbjct: 161 KGSQVFISLGKLRNMEIILPCQEVQEYIVSILDKFEKLVNDVNEGLPKEIDLRQKEYEYY 220

Query: 203 VSYIVTK 209
              ++  
Sbjct: 221 REKLLDF 227


>gi|256851079|ref|ZP_05556468.1| type I R/M system specificity subunit [Lactobacillus jensenii
           27-2-CHN]
 gi|256616141|gb|EEU21329.1| type I R/M system specificity subunit [Lactobacillus jensenii
           27-2-CHN]
          Length = 199

 Score = 62.1 bits (149), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 28/163 (17%), Positives = 50/163 (30%), Gaps = 8/163 (4%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIG----LEDVESGTGKYLPKDGNSRQS---DTST 77
           WK V +    ++  G T  +     + G        E G   YL +            S+
Sbjct: 38  WKKVKLGDVAEIIGGGTPSTSNLEYWDGNINWFTPTEVGKTIYLHESQRKLSELGLKKSS 97

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
             +   G IL+          II +     +  F  +QP   + +    + LS  + +  
Sbjct: 98  ARLLNPGAILFTSRAGIGNTGIIINPSA-TNQGFQSIQPNKNIIDSYFIFCLSSRLKRYA 156

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
                G+T +      +    + I    EQ  I   I +    
Sbjct: 157 LKHSAGSTFTEISGSEMKKAKIRICAKNEQNKISTCIKSLDSL 199



 Score = 45.9 bits (107), Expect = 0.012,   Method: Composition-based stats.
 Identities = 24/188 (12%), Positives = 58/188 (30%), Gaps = 11/188 (5%)

Query: 204 SYIVTKGLNPDVKMKDSGIEW----VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
           ++   + L P V+ +     W    +G V +            E    N        +  
Sbjct: 18  THADEQRLYPKVRFRGFDEPWKKVKLGDVAEIIGGGTPSTSNLEYWDGNINWFTPTEVGK 77

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
           +      + +   +GLK     + ++++PG I+F       +   + +     +G  +  
Sbjct: 78  TIYLHESQRKLSELGLK---KSSARLLNPGAILFTSRAGIGNTGIIINPSATNQGFQS-- 132

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
                   I  +Y  + + S                 +   ++K+  + +    EQ  I+
Sbjct: 133 --IQPNKNIIDSYFIFCLSSRLKRYALKHSAGSTFTEISGSEMKKAKIRICAKNEQNKIS 190

Query: 380 NVINVETA 387
             I    +
Sbjct: 191 TCIKSLDS 198


>gi|160894144|ref|ZP_02074922.1| hypothetical protein CLOL250_01698 [Clostridium sp. L2-50]
 gi|156864177|gb|EDO57608.1| hypothetical protein CLOL250_01698 [Clostridium sp. L2-50]
          Length = 231

 Score = 62.1 bits (149), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 23/209 (11%), Positives = 62/209 (29%), Gaps = 20/209 (9%)

Query: 226 GLVPDHWEVKPFFA------LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
           G  PD W                  + K ++    N   ++  ++   +   +       
Sbjct: 29  GTKPDDWSDGTIDDLGTEIICGKTPSTKKSEYYGGNTPFITIPDMHGCVYIVSTERYLSD 88

Query: 280 ----YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
                +  + + P  +    I        +       + I +     +   GI   Y+  
Sbjct: 89  AGVASQPKKTLPPNTVCVSCIGTAGLVTLVSEESQSNQQINS----IIPKEGISVYYIYL 144

Query: 336 LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP-IKEQFDITNVINVETARIDVLVE 394
           LM++                +L      ++ V++P  +  Q       +     +   + 
Sbjct: 145 LMQTLADTINKLGQSGSTIVNLNKTQFGKIQVMIPSELVLQD-----FDSLCRPLFDTIL 199

Query: 395 KIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
             ++  + L E R + +   ++G++D+  
Sbjct: 200 SNQKENINLSELRDALLPKLMSGELDVSD 228


>gi|238923275|ref|YP_002936790.1| restriction modification system DNA specificity domain protein
           [Eubacterium rectale ATCC 33656]
 gi|238874949|gb|ACR74656.1| restriction modification system DNA specificity domain protein
           [Eubacterium rectale ATCC 33656]
          Length = 173

 Score = 62.1 bits (149), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 22/135 (16%), Positives = 47/135 (34%), Gaps = 8/135 (5%)

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
             +      ++PE     + V PG+++            +     +  G +    +    
Sbjct: 37  NYITQTAEKIRPEGLSKTREVHPGDLILSNSMSFGRPYIMAIDGCIHDGWLA---IRDTK 93

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
              D  +L  L+ +  +   + AM +G    +L  E V    V  P ++EQ  I +    
Sbjct: 94  KNFDLKFLCTLLGTDGMLNQYKAMAAGSTVNNLNKELVGGTTVAFPMVEEQIKIGDY--- 150

Query: 385 ETARIDVLVEKIEQS 399
               +D L+   ++ 
Sbjct: 151 -FTTLDHLITLHQRQ 164



 Score = 43.6 bits (101), Expect = 0.057,   Method: Composition-based stats.
 Identities = 21/165 (12%), Positives = 50/165 (30%), Gaps = 9/165 (5%)

Query: 34  TKLNTGRTSES--------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
             +  G +              + ++ + D               R    S       G 
Sbjct: 2   VTIERGGSPRPIDKFITNDENGLNWVKIGDAPEQGNYITQTAEKIRPEGLSKTREVHPGD 61

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP-ELLQGWLLSIDVTQRIEAICEGA 144
           ++      + R  I+A    I      +   K     + L   L +  +  + +A+  G+
Sbjct: 62  LILSNSMSFGRPYIMAIDGCIHDGWLAIRDTKKNFDLKFLCTLLGTDGMLNQYKAMAAGS 121

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
           T+++ + + +G   +  P + EQ+ I +        I     +  
Sbjct: 122 TVNNLNKELVGGTTVAFPMVEEQIKIGDYFTTLDHLITLHQRQHK 166


>gi|189467612|ref|ZP_03016397.1| hypothetical protein BACINT_04002 [Bacteroides intestinalis DSM
           17393]
 gi|189435876|gb|EDV04861.1| hypothetical protein BACINT_04002 [Bacteroides intestinalis DSM
           17393]
          Length = 186

 Score = 62.1 bits (149), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 15/146 (10%), Positives = 47/146 (32%), Gaps = 3/146 (2%)

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
                     I+    G  +      +     E    + +   G+++   +        +
Sbjct: 29  SGIPFFRGKEIIEKQKGESVSTELYISKSRYDEIKNKFGVPKEGDMLLTSVGTLGIPYIV 88

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKR 364
           ++     +    +         I+S +L +   S        A      +++L  + + +
Sbjct: 89  KNETFYFKD--GNLTWFTDFKEINSKFLYYWFLSPIAKNAINAKAIGSTQKALTIDALSK 146

Query: 365 LPVLVPPIKEQFDITNVINVETARID 390
             + +P I  Q  I ++++   ++I+
Sbjct: 147 FEIDIPNIDTQNRIVSILSSLDSKIE 172



 Score = 48.3 bits (113), Expect = 0.002,   Method: Composition-based stats.
 Identities = 25/171 (14%), Positives = 54/171 (31%), Gaps = 11/171 (6%)

Query: 23  KHWKVVPIKRFTKLNTGRTS----ESGKDIIYIGLEDV---ESGTGKYLPKDGNSRQSDT 75
           + WK   I     +++ +           I +   +++   + G         +  + D 
Sbjct: 2   EEWKTYKIGNLCSISSSKRIFAKEYQSSGIPFFRGKEIIEKQKGESVSTELYISKSRYDE 61

Query: 76  STVS--IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP--KDVLPELLQGWLLSI 131
                 +  +G +L   +G      I+ +         L      K++  + L  W LS 
Sbjct: 62  IKNKFGVPKEGDMLLTSVGTLGIPYIVKNETFYFKDGNLTWFTDFKEINSKFLYYWFLSP 121

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
                I A   G+T        +    + IP +  Q  I   + +   +I+
Sbjct: 122 IAKNAINAKAIGSTQKALTIDALSKFEIDIPNIDTQNRIVSILSSLDSKIE 172


>gi|256851080|ref|ZP_05556469.1| restriction modification DNA specificity domain-containing protein
           [Lactobacillus jensenii 27-2-CHN]
 gi|256616142|gb|EEU21330.1| restriction modification DNA specificity domain-containing protein
           [Lactobacillus jensenii 27-2-CHN]
          Length = 216

 Score = 62.1 bits (149), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 30/193 (15%), Positives = 75/193 (38%), Gaps = 11/193 (5%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLS-YGNIIQKLETRNMGLKPESYETYQIVDP 288
           + W+       V  + RKN  L  +  L++S    ++ + +     +  E+   Y ++  
Sbjct: 27  EPWKKVKLGRNVKRIRRKNKNLETNIPLTISAQFGLVDQRDFFGRVVASENLANYILLKR 86

Query: 289 GEIVFRFIDLQNDKRS-LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY 347
           GE  +     +      ++  +    G +++ Y+A  P  I+S +L     +        
Sbjct: 87  GEFAYNKSYSKEAPYGSIKRLEKYNEGALSTLYIAFTPENINSDFLKAFFDTTKWYSHIV 146

Query: 348 AMGS-GLRQ----SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
            + + G R     ++  +D   + + +P   EQ +I+ + N+     + L+   +Q I  
Sbjct: 147 QVSTEGARNHGLLNISPQDFFEMSITIPKSDEQNNISRIYNLM----NSLLSLQQQDINT 202

Query: 403 LKERRSSFIAAAV 415
            ++ +   +    
Sbjct: 203 TQQLKQFLLQNLF 215



 Score = 40.2 bits (92), Expect = 0.65,   Method: Composition-based stats.
 Identities = 25/189 (13%), Positives = 55/189 (29%), Gaps = 12/189 (6%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIY-IGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           WK V + R  K    +      +I   I  +        +  +       + +   +  +
Sbjct: 29  WKKVKLGRNVKRIRRKNKNLETNIPLTISAQFGLVDQRDFFGR--VVASENLANYILLKR 86

Query: 84  GQILYGKLGPYLRKAIIAD-----FDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           G+  Y K                  +G  ST ++   P+++  + L+ +  +      I 
Sbjct: 87  GEFAYNKSYSKEAPYGSIKRLEKYNEGALSTLYIAFTPENINSDFLKAFFDTTKWYSHIV 146

Query: 139 AICEGATMSH----ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
            +      +H       +    + + IP   EQ  I          +     +     +L
Sbjct: 147 QVSTEGARNHGLLNISPQDFFEMSITIPKSDEQNNISRIYNLMNSLLSLQQQDINTTQQL 206

Query: 195 LKEKKQALV 203
            +   Q L 
Sbjct: 207 KQFLLQNLF 215


>gi|297590649|ref|ZP_06949287.1| type I restriction-modification system specificity subunit
           [Staphylococcus aureus subsp. aureus MN8]
 gi|297575535|gb|EFH94251.1| type I restriction-modification system specificity subunit
           [Staphylococcus aureus subsp. aureus MN8]
 gi|312437728|gb|ADQ76799.1| type I restriction-modification system specificity subunit
           [Staphylococcus aureus subsp. aureus TCH60]
          Length = 208

 Score = 62.1 bits (149), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 20/170 (11%), Positives = 56/170 (32%), Gaps = 6/170 (3%)

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
           K  +    +I  +   ++           K  S  + ++     I    I +       +
Sbjct: 43  KIKEFWNGDIPWIQSSDVKVNDLILRQCNKFISKNSIELSSAKLIPANSIAIVTRVGVGK 102

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLP 366
              V      +  ++++     D  Y  + +  Y + K+   +     + +  +++    
Sbjct: 103 LCLVEFDYATSQDFLSLSSLKYDKLYSLYSLL-YTMKKISANLQGTSIKGITKKELLDSI 161

Query: 367 VLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           + +P  ++EQ  I +       +ID  +   +  I +LK  +   +    
Sbjct: 162 IKIPHNLEEQQKIGD----LFYKIDKYISFNKCKIEILKSLKQGLLQKIF 207



 Score = 43.6 bits (101), Expect = 0.066,   Method: Composition-based stats.
 Identities = 38/193 (19%), Positives = 67/193 (34%), Gaps = 15/193 (7%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYL--PKDGNSRQSD 74
           +W+   I+       G  + + K       DI +I   DV+          K  +    +
Sbjct: 21  NWEEKKIEDIASQVYGGGTPNTKIKEFWNGDIPWIQSSDVKVNDLILRQCNKFISKNSIE 80

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
            S+  +     I        + K  + +FD   S  FL L         L      +   
Sbjct: 81  LSSAKLIPANSIAIVT-RVGVGKLCLVEFDYATSQDFLSLSSLKYD--KLYSLYSLLYTM 137

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           ++I A  +G ++     K    +   I  +   +  ++KI     +ID  I+     IE+
Sbjct: 138 KKISANLQGTSIKGITKKE---LLDSIIKIPHNLEEQQKIGDLFYKIDKYISFNKCKIEI 194

Query: 195 LKEKKQALVSYIV 207
           LK  KQ L+  I 
Sbjct: 195 LKSLKQGLLQKIF 207


>gi|145635505|ref|ZP_01791205.1| putative type I site-specific restriction-modification system, S
          subunit [Haemophilus influenzae PittAA]
 gi|145267270|gb|EDK07274.1| putative type I site-specific restriction-modification system, S
          subunit [Haemophilus influenzae PittAA]
          Length = 59

 Score = 62.1 bits (149), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 13/34 (38%), Positives = 21/34 (61%)

Query: 5  KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNT 38
          + Y  YKDSGV+W+G +P HW++  +K+      
Sbjct: 2  RRYESYKDSGVEWLGEVPSHWELKRLKQLFVEKN 35


>gi|13508246|ref|NP_110195.1| type I restriction enzyme ecokI specificity protein (hsdS)-like
           protein [Mycoplasma pneumoniae M129]
 gi|12229976|sp|P75279|T1SB_MYCPN RecName: Full=Putative type-1 restriction enzyme specificity
           protein MPN_507; AltName: Full=S.MpnORFBP; AltName:
           Full=Type I restriction enzyme specificity protein
           MPN_507; Short=S protein
 gi|1674010|gb|AAB95983.1| type I restriction enzyme ecokI specificity protein [Mycoplasma
           pneumoniae M129]
          Length = 363

 Score = 62.1 bits (149), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 55/387 (14%), Positives = 112/387 (28%), Gaps = 49/387 (12%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV--SIFAKGQI 86
            IK    +  GR          I  E +++ +GKY      +  +       +    G+ 
Sbjct: 7   KIKDICDIQRGR---------GITKEYIKNNSGKYPVYSAATTNNGELGFINTYDFAGEY 57

Query: 87  LYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATM 146
           +      Y       +     S    V   K    E+   +L      +  + +    + 
Sbjct: 58  VTWTTNGYAGVVFYRNGKFSASQDCGV--LKVRNKEINAQFLAFALSLKTPQFVHNLGSR 115

Query: 147 SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYI 206
              + K +  I +  PPL  Q  I   + +       L  E I+  +        L++  
Sbjct: 116 PKLNRKVVAEISLDFPPLEVQEKIAHFLKSFNELSSQLKAELIKRQKQYAFYSDYLLN-- 173

Query: 207 VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ 266
                      K S  E   L             + ++ +K     E         + + 
Sbjct: 174 ----------PKHSQGEEYKLF-----------KLKDIAKKILVGGEKPSDFQKEKDQVY 212

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
           K    +   K + +  Y            +  +    ++          ++      KP 
Sbjct: 213 KYPILSNSRKADDFLGYSKTFRIAEKSITVSARGTIGAVFYRDFSYLPAVSLICFIPKPE 272

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE- 385
             +  +L   +++    K     GSG    L     K   V +P +K+Q +I   ++   
Sbjct: 273 F-NINFLFHALKATKFHKQ----GSGT-GQLTMAQFKEYQVYIPSLKKQQEIAATLDPLY 326

Query: 386 --TAR----IDVLVEKIEQSIVLLKER 406
              A     I   +E  ++ +   +ER
Sbjct: 327 YIFANSNWGIYKEIELRKKQMQYYQER 353



 Score = 44.0 bits (102), Expect = 0.049,   Method: Composition-based stats.
 Identities = 20/166 (12%), Positives = 48/166 (28%), Gaps = 16/166 (9%)

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQ-------IVDPGEIVFRFIDLQNDKR 303
               +I  +  G  I K   +N   K   Y            ++  +    ++    +  
Sbjct: 6   YKIKDICDIQRGRGITKEYIKNNSGKYPVYSAATTNNGELGFINTYDFAGEYVTWTTNGY 65

Query: 304 SLRSAQVMERGIITSAY-MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDV 362
           +        +   +    +    +   +        S    +  + +GS  R  L  + V
Sbjct: 66  AGVVFYRNGKFSASQDCGVLKVRNKEINAQFLAFALSLKTPQFVHNLGS--RPKLNRKVV 123

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
             + +  PP++ Q  I + +         L         L+K ++ 
Sbjct: 124 AEISLDFPPLEVQEKIAHFLKSFNELSSQLKA------ELIKRQKQ 163


>gi|229826009|ref|ZP_04452078.1| hypothetical protein GCWU000182_01373 [Abiotrophia defectiva ATCC
           49176]
 gi|229789751|gb|EEP25865.1| hypothetical protein GCWU000182_01373 [Abiotrophia defectiva ATCC
           49176]
          Length = 345

 Score = 62.1 bits (149), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 48/365 (13%), Positives = 117/365 (32%), Gaps = 38/365 (10%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
           V ++       G ++        I   DV   TG Y     +    +            +
Sbjct: 3   VKLEEVC--VRGTSN--------IKQVDVTDKTGDYPIYGASGYIGNVDFYHQENPYVAV 52

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMS 147
                   R  +      +  T   ++  +++LP+ L   +  + +    E    GAT+ 
Sbjct: 53  IKDGAGIGRTTLHPAKSSVIGTMQYLIPKENILPKYLFYVVRYMKL----EKYYTGATIP 108

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
           H  +K        +  +  Q  I + +     + + +I  R + I  L    +A     V
Sbjct: 109 HIYFKDYKREEFNLESIEIQAKIVDIL----GKCEKIIEARRKEIISLDNLIKA---RFV 161

Query: 208 TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ- 266
               + ++  K    + +G +           +     R     +  ++  +  G++   
Sbjct: 162 EMFGDININDKKWYSQPLGEL--------CTIVRGGSPRPIESYLGGDVPWIKIGDVTDG 213

Query: 267 ---KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
               L +    +  E  +  ++V  G ++F    +      + +      G I   ++A+
Sbjct: 214 ESIYLNSTKEHIIKEGVKKSRLVKAGSLIFANCGVSLGFARIITFD----GCIHDGWLAM 269

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
           +        +  L     + + F A+  +G + +L    +K    ++PP++ Q +     
Sbjct: 270 EDIDERIDKVFLLQALNQMTEHFRAIAPAGTQPNLNTAIMKAYKQIIPPMELQKEFIGFC 329

Query: 383 NVETA 387
                
Sbjct: 330 KQVDK 334



 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 32/174 (18%), Positives = 57/174 (32%), Gaps = 9/174 (5%)

Query: 15  VQWIGAIPKH---WKVVPIKRFTKLNTGRTSES-----GKDIIYIGLEDVESGTGKYLP- 65
           V+  G I  +   W   P+     +  G +        G D+ +I + DV  G   YL  
Sbjct: 161 VEMFGDININDKKWYSQPLGELCTIVRGGSPRPIESYLGGDVPWIKIGDVTDGESIYLNS 220

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ 125
              +  +       +   G +++   G  L  A I  FDG     +L ++  D   + + 
Sbjct: 221 TKEHIIKEGVKKSRLVKAGSLIFANCGVSLGFARIITFDGCIHDGWLAMEDIDERIDKVF 280

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
                  +T+   AI    T  + +   +      IPP+  Q            
Sbjct: 281 LLQALNQMTEHFRAIAPAGTQPNLNTAIMKAYKQIIPPMELQKEFIGFCKQVDK 334



 Score = 44.4 bits (103), Expect = 0.038,   Method: Composition-based stats.
 Identities = 12/76 (15%), Positives = 28/76 (36%), Gaps = 4/76 (5%)

Query: 334 AWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
            +L       K+           + F+D KR    +  I+ Q  I +++     + + ++
Sbjct: 87  KYLFYVVRYMKLEKYYTGATIPHIYFKDYKREEFNLESIEIQAKIVDILG----KCEKII 142

Query: 394 EKIEQSIVLLKERRSS 409
           E   + I+ L     +
Sbjct: 143 EARRKEIISLDNLIKA 158


>gi|284926281|gb|ADC28633.1| restriction modification enzyme [Campylobacter jejuni subsp. jejuni
            IA3902]
          Length = 1364

 Score = 62.1 bits (149), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 53/449 (11%), Positives = 129/449 (28%), Gaps = 82/449 (18%)

Query: 26   KVVPIKRF------TKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT---- 75
            ++V +K F       K  +G   +     + +G E +++ +G     +            
Sbjct: 895  ELVRLKDFVLDIQTAKRPSGGVGKYENGALSLGGEHIDNKSGYIKLDNPKYVPIKFYESF 954

Query: 76   --STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP------KDVLPELLQGW 127
                  I  +  IL  K G    K  +   + I  +  +               + L   
Sbjct: 955  ALQDKGIVKQFDILICKDGALTGKIAMVRNEFIRKSAMINEHIFLLRCDNIAKQKYLFYI 1014

Query: 128  LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK-------------- 173
            L S    Q +++   G+     +   + +I +P      Q  I  +              
Sbjct: 1015 LHSYSGQQALKSKITGSAQGGINKTNLESILIPNADFEIQKQIVAECEKVEEQYNTIRMS 1074

Query: 174  IIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEW--------- 224
            I      I  ++ +     +    +  +++  +       D  +  S IE          
Sbjct: 1075 IEEYQNLIKAILQKCGIIDDGGGYELNSILENLQKLEFKLDFNLLLSLIEEQISHSEVLV 1134

Query: 225  ----------------------------VGLVPDHWE--------VKPFFALVTELNRKN 248
                                        +   P                     +   K 
Sbjct: 1135 EETQSKERKQDFNAFKNFSKTIQELLQTLSTPPKDGWKRISLKNEQYMELNPSKKEISKL 1194

Query: 249  TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
             + +  + + ++  +    ++++      E  + Y      +I+   I    +      A
Sbjct: 1195 DENMLVSFIEMASVSDKGYIQSKIDRSLNEVRKGYTYFIENDILIAKITPCMENGKCAIA 1254

Query: 309  QVMERGI---ITSAYMAVKPHGIDSTYLAWLMRSYDLCKV--FYAMGSGLRQSLKFEDVK 363
            + +   I    T  ++     G+DS++L + +   ++ +       G+   + +     +
Sbjct: 1255 KNLTNNIGFGSTEFHIFRAKTGLDSSFLFYNLNQQNIREKAALAMTGASGHKRVPISFYE 1314

Query: 364  RLPVLVPPIKEQFDITNVINVETARIDVL 392
             L + +PP++ Q  I   I +   +ID L
Sbjct: 1315 NLTIPLPPLEIQEKIVQNIELVEQQIDFL 1343



 Score = 57.1 bits (136), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 18/164 (10%), Positives = 52/164 (31%), Gaps = 7/164 (4%)

Query: 253  ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
            E       Y  +           +  + +   IV   +I+         K ++   + + 
Sbjct: 929  EHIDNKSGYIKLDNPKYVPIKFYESFALQDKGIVKQFDILICKDGALTGKIAMVRNEFIR 988

Query: 313  R--GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLV 369
            +   I    ++    +     YL +++ SY   +   +  +G  +  +   +++ + +  
Sbjct: 989  KSAMINEHIFLLRCDNIAKQKYLFYILHSYSGQQALKSKITGSAQGGINKTNLESILIPN 1048

Query: 370  PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
               + Q  I      E  +++     I  SI   +    + +  
Sbjct: 1049 ADFEIQKQIV----AECEKVEEQYNTIRMSIEEYQNLIKAILQK 1088



 Score = 37.5 bits (85), Expect = 4.8,   Method: Composition-based stats.
 Identities = 34/196 (17%), Positives = 64/196 (32%), Gaps = 19/196 (9%)

Query: 24   HWKVVPIKRFTKLNTGRTSESGK--------DIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
             WK + +K   +          +         + +I +  V S  G    K   S     
Sbjct: 1170 GWKRISLKN--EQYMELNPSKKEISKLDENMLVSFIEMASV-SDKGYIQSKIDRSLNEVR 1226

Query: 76   STVSIFAKGQILYGKLGPYLRKAII------ADFDGICSTQFLVLQPKDVLPELLQGWLL 129
               + F +  IL  K+ P +            +  G  ST+F + + K  L      + L
Sbjct: 1227 KGYTYFIENDILIAKITPCMENGKCAIAKNLTNNIGFGSTEFHIFRAKTGLDSSFLFYNL 1286

Query: 130  SIDVTQRI--EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
            +    +     A+   +           N+ +P+PPL  Q  I + I     +ID L  +
Sbjct: 1287 NQQNIREKAALAMTGASGHKRVPISFYENLTIPLPPLEIQEKIVQNIELVEQQIDFLNLK 1346

Query: 188  RIRFIELLKEKKQALV 203
                 +  ++  Q  +
Sbjct: 1347 LELLEKEKEKILQKYL 1362


>gi|193067080|ref|ZP_03048049.1| N-6 DNA methylase [Escherichia coli E110019]
 gi|192959670|gb|EDV90104.1| N-6 DNA methylase [Escherichia coli E110019]
          Length = 923

 Score = 62.1 bits (149), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 20/99 (20%), Positives = 36/99 (36%), Gaps = 1/99 (1%)

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
           Y ++  + PG+I+            +  A            +    + +DS YL   + S
Sbjct: 138 YNSHVNLQPGDILISRSGTIGKNAVVSEAATGALAGHGLYVIRPDKNYLDSDYLLAYINS 197

Query: 340 YDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFD 377
                 F A   G   Q++  + V +LP+ V P+  Q  
Sbjct: 198 RACQNWFSAHARGTAIQNINRDTVLKLPIPVLPLPIQRR 236



 Score = 42.9 bits (99), Expect = 0.096,   Method: Composition-based stats.
 Identities = 28/169 (16%), Positives = 61/169 (36%), Gaps = 14/169 (8%)

Query: 30  IKRFTKLNTGRTSESGKDII---------YIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           +   + +  GRT ++    +         YI + D+  G    + +         S V++
Sbjct: 85  LSTMSSIFAGRTIKAIDLTLAPHDVQAKGYIRISDLAHGRIVRVSRWLKPDVPYNSHVNL 144

Query: 81  FAKGQILYGKLGPYLRKAIIAD--FDGICSTQFLVLQP--KDVLPELLQGWLLSIDVTQR 136
              G IL  + G   + A++++     +      V++P    +  + L  ++ S      
Sbjct: 145 -QPGDILISRSGTIGKNAVVSEAATGALAGHGLYVIRPDKNYLDSDYLLAYINSRACQNW 203

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
             A   G  + + +   +  +P+P+ PL  Q     +       I T I
Sbjct: 204 FSAHARGTAIQNINRDTVLKLPIPVLPLPIQRRAVARYQQSGTDILTFI 252


>gi|84387340|ref|ZP_00990360.1| putative restriction-modification system methyltransferase [Vibrio
           splendidus 12B01]
 gi|84377789|gb|EAP94652.1| putative restriction-modification system methyltransferase [Vibrio
           splendidus 12B01]
          Length = 1303

 Score = 61.7 bits (148), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 26/180 (14%), Positives = 55/180 (30%), Gaps = 10/180 (5%)

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY--------ETYQIVDP 288
              +      K+ +  E   +   YG I  +        K  ++         ++  +  
Sbjct: 471 LSKVAQINTGKSIRSTEQTEIENPYGYIRIRDIENFRIQKVTTWLQDDLARAYSHNQLYK 530

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA 348
           G I+            +               + +    + S YL + + +        +
Sbjct: 531 GNILISKTGTIGKLALVDDRNEGAFAGNNFNVLRINSAKVSSEYLLYYLSTSFCQDWLDS 590

Query: 349 MGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVE-TARIDVLVEKIEQSIVLLKER 406
              G  +Q +  + +K LP+L+P ++ Q           T  I  L E  +Q+     ER
Sbjct: 591 RKRGAVQQHINTDVIKALPILLPSMEMQKRAVAQFEQHGTDVITFLKENSKQADEKAIER 650



 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 30/158 (18%), Positives = 60/158 (37%), Gaps = 10/158 (6%)

Query: 30  IKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           + +  ++NTG++  S +         YI + D+E+   + +        +   + +   K
Sbjct: 471 LSKVAQINTGKSIRSTEQTEIENPYGYIRIRDIENFRIQKVTTWLQDDLARAYSHNQLYK 530

Query: 84  GQILYGKLGPYLRKAIIAD--FDGICSTQFLVLQPK--DVLPELLQGWLLSIDVTQRIEA 139
           G IL  K G   + A++ D          F VL+     V  E L  +L +      +++
Sbjct: 531 GNILISKTGTIGKLALVDDRNEGAFAGNNFNVLRINSAKVSSEYLLYYLSTSFCQDWLDS 590

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
              GA   H +   I  +P+ +P +  Q     +    
Sbjct: 591 RKRGAVQQHINTDVIKALPILLPSMEMQKRAVAQFEQH 628


>gi|167768053|ref|ZP_02440106.1| hypothetical protein CLOSS21_02597 [Clostridium sp. SS2/1]
 gi|167710382|gb|EDS20961.1| hypothetical protein CLOSS21_02597 [Clostridium sp. SS2/1]
          Length = 373

 Score = 61.7 bits (148), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 49/342 (14%), Positives = 102/342 (29%), Gaps = 39/342 (11%)

Query: 51  IGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLR-----KAIIADFDG 105
           I +   +   GKY     N  Q D     IF    +L  + G          A       
Sbjct: 21  IPITASDRKEGKYPYYGANGIQ-DYVNDYIFDDELVLLAEDGGNFGSKEKPIAYRVSGKC 79

Query: 106 ICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLA 165
             +    VL+PK+ +      + L      +++ +  GAT        +  + +P+  + 
Sbjct: 80  WVNNHAHVLKPKEEIDVDYLCYSLMFY---KVDGMINGATRKKLTQTAMKKMKIPLRNIV 136

Query: 166 EQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWV 225
           EQ  I +++     +I  +  +  + + LL    QA     V    +P    K   IE +
Sbjct: 137 EQKKIVQQLN----KIIEIREKAKKELNLLDNLIQA---RFVEMFGDPITNSKLLPIEKI 189

Query: 226 GLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI 285
                        A +T         ++       YG    +    N+  +         
Sbjct: 190 EER------YFLKAGITTKAEDIHDYLKDKYEIPCYGGNGIRGYVENLSYEG-------- 235

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV 345
                  +  I  Q            +      A +       ++ ++ ++++  DL + 
Sbjct: 236 ------CYPIIGRQGALCGNVQYATGKFHATEHAVLVSTLKNDNTMWVYYMLKLMDLYRY 289

Query: 346 FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
                   +  L  + +  + V+V  I  Q      ++    
Sbjct: 290 ---HTGAAQPGLAVKKLNTIDVIVADINLQNQFAAFVHQINK 328



 Score = 57.1 bits (136), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 26/161 (16%), Positives = 52/161 (32%), Gaps = 6/161 (3%)

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
             L    I   +      K          +    Y   D   ++         K    + 
Sbjct: 14  EILDSMRIPITASDRKEGKYPYYGANGIQDYVNDYIFDDELVLLAEDGGNFGSKEKPIAY 73

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVL 368
           +V  +  + +    +KP       + +L  S    KV   +    R+ L    +K++ + 
Sbjct: 74  RVSGKCWVNNHAHVLKPKEEI--DVDYLCYSLMFYKVDGMINGATRKKLTQTAMKKMKIP 131

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
           +  I EQ  I   +N    +I  + EK ++ + LL     +
Sbjct: 132 LRNIVEQKKIVQQLN----KIIEIREKAKKELNLLDNLIQA 168


>gi|160945579|ref|ZP_02092805.1| hypothetical protein FAEPRAM212_03108 [Faecalibacterium prausnitzii
           M21/2]
 gi|158443310|gb|EDP20315.1| hypothetical protein FAEPRAM212_03108 [Faecalibacterium prausnitzii
           M21/2]
          Length = 393

 Score = 61.7 bits (148), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 47/386 (12%), Positives = 110/386 (28%), Gaps = 37/386 (9%)

Query: 45  GKDIIYIGLEDVESGT-GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAII--- 100
              +  +   ++E  +  +   +     ++D+   +   +G I+    G   +   I   
Sbjct: 31  DSGVPVLNGSNLEGFSLSEKAFRYVTEEKADSLNKANAHRGDIVITHRGTLGQIVFIPQD 90

Query: 101 --ADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHA--DWKGIGN 156
              D   I  +QF V     VLPE L  +  +     ++ +      +            
Sbjct: 91  SRYDRYVISQSQFRVRCNDKVLPEYLVYYFHTPIGQYKLLSNASQVGVPALARPSSTFQQ 150

Query: 157 IPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVK 216
           I + +P L+ Q  + E I      I   I       + L+++  AL S +  +       
Sbjct: 151 IEVTLPELSIQKRVVEII----TTIQRKIENNQELNDNLEQQAAALFSSLYNRSNTEVRY 206

Query: 217 MKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK 276
                I   G  P   E   +   +     K+             G     +  + +  +
Sbjct: 207 TDLIQI-LGGGTPKTGETAYWNGNIAFFTPKD------------VGTPYTFITEKTITEE 253

Query: 277 PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWL 336
             S+   ++     +                       +  S Y  V         L + 
Sbjct: 254 GLSHCNSRLYPVNTVFVTARGTVGKVGLSGIPM----AMNQSCYALVGKETH--QLLVYF 307

Query: 337 MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR-IDVLVEK 395
                + ++ +     +  ++   D     ++     +      V        ++  +E 
Sbjct: 308 YTLKAVDRLKHKASGAVFDAITTRDFDSEQIMKLSDDDAKAFLCVAEPMFQEMLNNSIEN 367

Query: 396 IEQSIVLLKERRSSFIAAAVTGQIDL 421
           +      L   R   +   ++G+ID+
Sbjct: 368 LR-----LSTLRDFLLPKLMSGEIDV 388


>gi|332524591|ref|ZP_08400794.1| restriction endonuclease S subunits-like protein [Rubrivivax
           benzoatilyticus JA2]
 gi|332107903|gb|EGJ09127.1| restriction endonuclease S subunits-like protein [Rubrivivax
           benzoatilyticus JA2]
          Length = 381

 Score = 61.7 bits (148), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 20/143 (13%), Positives = 51/143 (35%), Gaps = 4/143 (2%)

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
              ++     + + +R      +      +V   +++   ID +N    +   ++    +
Sbjct: 28  YHEVTIKLWGKGIVSRGKVRGSDVVSARNVVRHNQLILSKIDARNGAIGMVPPELDGAIV 87

Query: 316 ITSA--YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPP 371
                 +    P   +  ++ WL+RS    ++  +   G   R  +K E      + +PP
Sbjct: 88  SNDFPSFEFRDPGRCNPAFIGWLVRSAPFVELCRSASEGTTNRVRIKEERFLAQEIALPP 147

Query: 372 IKEQFDITNVINVETARIDVLVE 394
           +  Q  I   ++  T +I  +  
Sbjct: 148 LSHQHAIAASLDALTDKIRQVEA 170



 Score = 57.1 bits (136), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 48/370 (12%), Positives = 104/370 (28%), Gaps = 37/370 (10%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W  V I    + +     E    + Y  +     G G  + +         S  ++    
Sbjct: 4   WPKVSIGDLLRRSDEPA-EIDAAVEYHEVTIKLWGKG-IVSRGKVRGSDVVSARNVVRHN 61

Query: 85  QILYGKLGPYLRKAIIADFD---GICSTQFL---VLQPKDVLPELLQGWLLSIDVTQRIE 138
           Q++  K+        +   +    I S  F       P    P  +   + S    +   
Sbjct: 62  QLILSKIDARNGAIGMVPPELDGAIVSNDFPSFEFRDPGRCNPAFIGWLVRSAPFVELCR 121

Query: 139 AICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           +  EG T       +      + +PPL+ Q  I   + A T +I  +            +
Sbjct: 122 SASEGTTNRVRIKEERFLAQEIALPPLSHQHAIAASLDALTDKIRQVEAHLDAADAASAD 181

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
                    +         ++   +  +  V +       +  V           ++ I 
Sbjct: 182 LL-----LSLHHQHAAGRSVRLGDVMDLHEVDEPITPAGTYPQVGVRGFGGGLFAKAAI- 235

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
                                +Y  +  +  G IV   +       +   A +     ++
Sbjct: 236 ----------------SGTDTTYRAFHKLYEGAIVLSQVKGWEGALARCPADLAG-WFVS 278

Query: 318 SAY--MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPI 372
             Y     +P    S YL  ++R+    +       G+   R+  + E    + + +P +
Sbjct: 279 PEYRTFRCRPDRAHSEYLGEIVRTQWFWQKLQDATRGVGARRERTRPEQFLNIEMTMPSL 338

Query: 373 KEQFDITNVI 382
            +Q  I  V+
Sbjct: 339 DDQRRIVEVL 348


>gi|265752103|ref|ZP_06087896.1| restriction modification system DNA specificity subunit
           [Bacteroides sp. 3_1_33FAA]
 gi|263236895|gb|EEZ22365.1| restriction modification system DNA specificity subunit
           [Bacteroides sp. 3_1_33FAA]
          Length = 173

 Score = 61.7 bits (148), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 32/166 (19%), Positives = 54/166 (32%), Gaps = 4/166 (2%)

Query: 22  PKHWKVVPIKRFTKLNTGR--TSESGKDII--YIGLEDVESGTGKYLPKDGNSRQSDTST 77
           P  W    +      NTG+   S + + I   Y+   +V      +        +     
Sbjct: 1   PVGWIETILGELFSHNTGKALNSSNKEGIFKDYLTTSNVYWNKFDFTAIKQMPFKESELN 60

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
                KG +L  + G   R AI      IC    +      +   +   +     + +  
Sbjct: 61  KCTVTKGDLLVCEGGDIGRSAIWNYDYDICIQNHIHRLRPKIDLCVPFYYYTFAYLKENN 120

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
               +G  +       +  I MP+PPLAEQ  I +KI      +D 
Sbjct: 121 LIGGKGIGLLGLSSNALHKIEMPLPPLAEQQRIVQKIEELFSVLDN 166



 Score = 60.2 bits (144), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 22/151 (14%), Positives = 42/151 (27%), Gaps = 4/151 (2%)

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
           K     +    S  Y N       + M  K ES      V  G+++              
Sbjct: 26  KEGIFKDYLTTSNVYWNKFDFTAIKQMPFK-ESELNKCTVTKGDLLVCEGGDIGRSAIW- 83

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLP 366
                    I +    ++P         +   +Y                L    + ++ 
Sbjct: 84  --NYDYDICIQNHIHRLRPKIDLCVPFYYYTFAYLKENNLIGGKGIGLLGLSSNALHKIE 141

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIE 397
           + +PP+ EQ  I   I    + +D +   +E
Sbjct: 142 MPLPPLAEQQRIVQKIEELFSVLDNIQNALE 172


>gi|303236699|ref|ZP_07323280.1| type I restriction modification DNA specificity domain protein
           [Prevotella disiens FB035-09AN]
 gi|302483203|gb|EFL46217.1| type I restriction modification DNA specificity domain protein
           [Prevotella disiens FB035-09AN]
          Length = 445

 Score = 61.7 bits (148), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 41/399 (10%), Positives = 114/399 (28%), Gaps = 34/399 (8%)

Query: 27  VVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQI 86
           +VP++           +   D +   +E +   TGK + +D  +       +    +G +
Sbjct: 37  LVPLRELIAPKKNVIKKEEYDGLLPIVEKIVFKTGKVVFRDKKATGM---NLYSLQQGDL 93

Query: 87  LYGKLGPYLRKAIIADFDGI-CSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           L   +  +     +  F  I  ST +        L ++   +L+ +  +    +I  G  
Sbjct: 94  LISNINFHQGATALNTFGEIAASTHYQPYSIN--LNKVDPEFLVMVLRSSYFLSIISGKK 151

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
                 +   N           +  + KI+A                E  ++   + +  
Sbjct: 152 AQGIKNESGYNFIGSFSIPLPTLKEQRKIVALYKAKMENAENSASKAEQAEQAINSYLLD 211

Query: 206 IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES----------- 254
           ++  G   +         +  +   H +    + +  E +   ++L +            
Sbjct: 212 VLDIGKGNEDGEDILSNAYKYMRFVHRKNISRWDVYNEKSIVKSRLYKHTNLLNVVIDKP 271

Query: 255 -------------NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQND 301
                         +  +   +I +        +  + Y  + ++   + +         
Sbjct: 272 QYGAAYSSQVFDGKMRYIRITDINEDGSLNEEKVSAKGYSDHYLLKENDFLIARSGNTVG 331

Query: 302 KRSLRSAQVMERGIITSAYMAVKPHGI--DSTYLAWLMRSYDLCKVFYAMGS-GLRQSLK 358
           K  L   +   + I     +  K         YL    +     +          + ++ 
Sbjct: 332 KTFLYKNKFG-KAIFAGYLIRFKLDETKVIPEYLLAYTKCALYKEWIKGNMRVSAQPNIN 390

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
            +     P+++P +  Q  I   +  +   I+ L +  +
Sbjct: 391 SQQYLDSPIILPSLDVQSKIVEYVGKQKDEINTLRQLAQ 429



 Score = 49.0 bits (115), Expect = 0.001,   Method: Composition-based stats.
 Identities = 17/122 (13%), Positives = 43/122 (35%), Gaps = 2/122 (1%)

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV 345
           +  G+++   I+      +L +   +        Y     + +D  +L  ++RS     +
Sbjct: 88  LQQGDLLISNINFHQGATALNTFGEIAASTHYQPYSINL-NKVDPEFLVMVLRSSYFLSI 146

Query: 346 FY-AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLK 404
                  G++    +  +    + +P +KEQ  I  +   +    +    K EQ+   + 
Sbjct: 147 ISGKKAQGIKNESGYNFIGSFSIPLPTLKEQRKIVALYKAKMENAENSASKAEQAEQAIN 206

Query: 405 ER 406
             
Sbjct: 207 SY 208


>gi|282878312|ref|ZP_06287105.1| type I restriction modification DNA specificity domain protein
           [Prevotella buccalis ATCC 35310]
 gi|281299567|gb|EFA91943.1| type I restriction modification DNA specificity domain protein
           [Prevotella buccalis ATCC 35310]
          Length = 195

 Score = 61.7 bits (148), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 27/186 (14%), Positives = 58/186 (31%), Gaps = 14/186 (7%)

Query: 218 KDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL---SYGNIIQKLETRNMG 274
           +    E    +P +W       + + ++R  +                N           
Sbjct: 9   QCIAEEIPFEIPVNWAWVRLDDICSFIHRGKSPKYSLIKKYPVVAQKCNQWSGFSLEKAK 68

Query: 275 LKP----ESYETYQIVDPGEIVFRFIDLQN---DKRSLRSAQVMERGIITSAYMAVKPHG 327
                   SY+   I+   ++++    L          +     +  +  S    ++P+ 
Sbjct: 69  FIEPQSISSYKEEYILQDEDLMWNSTGLGTLGRMAIYYKKLNPYKLAVADSHVTVIRPYK 128

Query: 328 ID--STYLAWLMRSYDLCKVF--YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
               S YL +   S  +  V    + GS  ++ L  + VK   V +PP++EQ  I   + 
Sbjct: 129 QHIVSEYLYYYFASNTVQSVIEDKSDGSTKQKELSTKTVKSYLVPLPPMEEQKRIVEKVK 188

Query: 384 VETARI 389
                +
Sbjct: 189 ELMQLL 194



 Score = 43.2 bits (100), Expect = 0.084,   Method: Composition-based stats.
 Identities = 27/179 (15%), Positives = 53/179 (29%), Gaps = 17/179 (9%)

Query: 20  AIPKHWKVVPIKRFTKLN-TGRTSESG--KDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            IP +W  V +         G++ +    K    +  +     +G  L K         S
Sbjct: 18  EIPVNWAWVRLDDICSFIHRGKSPKYSLIKKYPVVAQKC-NQWSGFSLEKAKFIEPQSIS 76

Query: 77  TVS---IFAKGQILYGKL--GPYLRKAIIAD-----FDGICSTQFLVLQPKDVLPELLQG 126
           +     I     +++     G   R AI           +  +   V++P          
Sbjct: 77  SYKEEYILQDEDLMWNSTGLGTLGRMAIYYKKLNPYKLAVADSHVTVIRPYKQHIVSEYL 136

Query: 127 WLLSIDVTQR---IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
           +      T +    +             K + +  +P+PP+ EQ  I EK+      + 
Sbjct: 137 YYYFASNTVQSVIEDKSDGSTKQKELSTKTVKSYLVPLPPMEEQKRIVEKVKELMQLLK 195


>gi|269978354|gb|ACZ55911.1| putative type I restriction-modification system specificity subunit
           S [Helicobacter pylori]
          Length = 205

 Score = 61.7 bits (148), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 15/117 (12%), Positives = 45/117 (38%), Gaps = 2/117 (1%)

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID-STYLAWLMRSYDLCKVFYAMGSG 352
             I +     +       ++        ++ P     + YL +++ +        +  S 
Sbjct: 65  NTITIAQYGTAGFVNWQNQKFWANDVCFSLIPKETLINRYLYYVLTNMQNHLYSISNRSA 124

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI-VLLKERRS 408
           +  S+   ++ ++ + +PP++ Q +I  +++  T     L  ++   +   LK R+ 
Sbjct: 125 IPYSISSNNIMQITIPIPPLEIQQEIVKILDAFTELNTELNTELNTELNTELKARKK 181



 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 26/162 (16%), Positives = 44/162 (27%), Gaps = 11/162 (6%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           PK  +   +    ++  G+     + +            GKY    G             
Sbjct: 13  PKGVEFRKLGEVCEIIRGKRVTKKEIL----------DKGKYPVVSGGIGFMGYLNEYNR 62

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            +  I   + G         +     +     L PK+ L      ++L+           
Sbjct: 63  EENTITIAQYG-TAGFVNWQNQKFWANDVCFSLIPKETLINRYLYYVLTNMQNHLYSISN 121

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
             A         I  I +PIPPL  Q  I + + A T     
Sbjct: 122 RSAIPYSISSNNIMQITIPIPPLEIQQEIVKILDAFTELNTE 163


>gi|301633575|gb|ADK87129.1| type I restriction modification DNA specificity domain protein
           [Mycoplasma pneumoniae FH]
          Length = 363

 Score = 61.7 bits (148), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 54/387 (13%), Positives = 111/387 (28%), Gaps = 49/387 (12%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV--SIFAKGQI 86
            IK    +  GR          I  E +++ +GKY      +  +       +    G+ 
Sbjct: 7   KIKDICDIQRGR---------GITKEYIKNNSGKYPVYSAATTNNGELGFINTYDFAGEY 57

Query: 87  LYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATM 146
           +      Y       +     S    V   K    E+   +L      +  + +    + 
Sbjct: 58  VTWTTNGYAGVVFYRNGKFSASQDCGV--LKVRNKEINAQFLAFALSLKTPQFVHNLGSR 115

Query: 147 SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYI 206
              +   +  I +  PPL  Q  I   + +       L  E I+  +        L++  
Sbjct: 116 PKLNRNVVAEISLDFPPLEVQEKIAHFLKSFNELSSQLKAELIKRQKQYAFYSDYLLN-- 173

Query: 207 VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ 266
                      K S  E   L             + ++ +K     E         + + 
Sbjct: 174 ----------PKHSQGEEYKLF-----------KLKDIAKKILVGGEKPSDFQKEKDQVY 212

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
           K    +   K + +  Y            +  +    ++          ++      KP 
Sbjct: 213 KYPILSNSRKADDFLGYSKTFRIAEKSITVSARGTIGAVFYRDFSYLPAVSLICFIPKPE 272

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE- 385
             +  +L   +++    K     GSG    L     K   V +P +K+Q +I   ++   
Sbjct: 273 F-NIKFLFHALKATKFHKQ----GSGT-GQLTMAQFKEYQVYIPSLKKQQEIAATLDPLY 326

Query: 386 --TAR----IDVLVEKIEQSIVLLKER 406
              A     I   +E  ++ +   +ER
Sbjct: 327 YIFANSNWGIYKEIELRKKQMQYYQER 353



 Score = 43.6 bits (101), Expect = 0.068,   Method: Composition-based stats.
 Identities = 20/166 (12%), Positives = 47/166 (28%), Gaps = 16/166 (9%)

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQ-------IVDPGEIVFRFIDLQNDKR 303
               +I  +  G  I K   +N   K   Y            ++  +    ++    +  
Sbjct: 6   YKIKDICDIQRGRGITKEYIKNNSGKYPVYSAATTNNGELGFINTYDFAGEYVTWTTNGY 65

Query: 304 SLRSAQVMERGIITSAY-MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDV 362
           +        +   +    +    +   +        S    +  + +GS  R  L    V
Sbjct: 66  AGVVFYRNGKFSASQDCGVLKVRNKEINAQFLAFALSLKTPQFVHNLGS--RPKLNRNVV 123

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
             + +  PP++ Q  I + +         L         L+K ++ 
Sbjct: 124 AEISLDFPPLEVQEKIAHFLKSFNELSSQLKA------ELIKRQKQ 163


>gi|190606538|ref|YP_001974823.1| hypothetical protein -pVEF3_p54 [Enterococcus faecium]
 gi|190350308|emb|CAP62660.1| hypothetical protein [Enterococcus faecium]
          Length = 382

 Score = 61.7 bits (148), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 53/388 (13%), Positives = 111/388 (28%), Gaps = 44/388 (11%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           +   +   TK+  G+     K           SG  ++    G         +S      
Sbjct: 16  EYKNLVEITKVLRGKRLTRDK----------LSGDERFPVFHGGLDPLGYYGLSNRPANS 65

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           ++   +G        +D +   S     +Q  D+L      +   I     + +    A 
Sbjct: 66  VMIINVGASAGTVGYSDVEFWSSDGCYCIQHSDLLDNK-FLYYFLIGQQHLLRSKVRFAG 124

Query: 146 MSHADWKGIGNIPMPIPP-------LAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
           +   D   I  I +PIP        L  Q  I   +   T     L  E    +   K++
Sbjct: 125 IPTLDANVIEKIKIPIPCPDNPEKSLEIQAEIVRILDTFTELTAELTAELTAELTARKKQ 184

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
                  ++T         +   +EW          KP   +          +  +N   
Sbjct: 185 YNYYREQLLT--------FEKGEVEW----------KPLGKIADYEQPTKYLVKSTNYSD 226

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
                ++   +T  +G   E    Y       I+F      N            +     
Sbjct: 227 NFDTPVLTAGKTFILGYTDEISGIYSASKSPVIIFDDFTTANK---WVDFDFKAKSSAMK 283

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
              +     +   Y+ + + +     +      G  +     +     + +PP+ EQ  I
Sbjct: 284 MITSKNESKVLLKYIYYWINTLPNDLIV-----GDHKRQWISNYSNKLIPIPPLGEQTRI 338

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKER 406
            ++++   A    + E + + I L +++
Sbjct: 339 VSILDKFEALTSSITEGLPREIELRQKQ 366


>gi|111657645|ref|ZP_01408377.1| hypothetical protein SpneT_02001155 [Streptococcus pneumoniae
           TIGR4]
          Length = 231

 Score = 61.7 bits (148), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 26/147 (17%), Positives = 52/147 (35%), Gaps = 9/147 (6%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNSR 71
            IP  W+ V      ++  G +    KD        I +I + D E G           +
Sbjct: 83  DIPDTWEWVRFSTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINNVKEKIK 142

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
           +S  +      KG  L      + R  I+     I      +   ++ L +    ++LS 
Sbjct: 143 KSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYLFYILSS 202

Query: 132 D-VTQRIEAICEGATMSHADWKGIGNI 157
           + V  +  ++  GA + + +   + +I
Sbjct: 203 NVVYSQFLSLISGAVVKNLNSDKVASI 229



 Score = 37.5 bits (85), Expect = 3.8,   Method: Composition-based stats.
 Identities = 29/155 (18%), Positives = 58/155 (37%), Gaps = 8/155 (5%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
            I+    +PD WE   F  LV  +   + + I+  + S   G    K+     G K  + 
Sbjct: 77  EIDVPYDIPDTWEWVRFSTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINN 136

Query: 281 ETYQIVDPG-----EIVFRFIDLQNDKRSLRSAQVMERGIITSAY--MAVKPHGIDSTYL 333
              +I   G      +      L N     R   +   G I   +  ++   + ++  YL
Sbjct: 137 VKEKIKKSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYL 196

Query: 334 AWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPV 367
            +++ S  +   F ++ SG   ++L  + V  + +
Sbjct: 197 FYILSSNVVYSQFLSLISGAVVKNLNSDKVASILI 231


>gi|268610918|ref|ZP_06144645.1| type I restriction/modification specificity protein [Ruminococcus
           flavefaciens FD-1]
          Length = 238

 Score = 61.7 bits (148), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 19/186 (10%), Positives = 53/186 (28%), Gaps = 12/186 (6%)

Query: 240 LVTELNRKNTKLIESNILSLSYGNIIQKL----ETRNMGLKPESYETYQIVDPGEIVFRF 295
                + K  +     +  ++  ++   +      R++       ++ + +    I    
Sbjct: 56  CGKTPSTKKKEYYGDYMPFITIPDMHNNVYVIATERSLSKMGSDSQSKKTLPANSICVSC 115

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ 355
           I        +       + I +     +        Y+  LM+++               
Sbjct: 116 IGTAGLVTLVAVNSQTNQQINS----IIPKERYSPYYIFLLMQTFSEKINRLGQSGSTIV 171

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           +L       +  LVP I +  D     +     +   +   +     L   R + +   +
Sbjct: 172 NLNKAQFGLMEALVPSINDMNDF----DTTVKPLFERILANQYENQRLAALRDTLLPKLM 227

Query: 416 TGQIDL 421
            G+ID+
Sbjct: 228 NGEIDV 233



 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 26/191 (13%), Positives = 59/191 (30%), Gaps = 9/191 (4%)

Query: 22  PKHWKVVPIKRFT-KLNTGRTSESGK------DIIYIGLEDVESGTGKY-LPKDGNSRQS 73
           P  W +  I   +  +  G+T  + K       + +I + D+ +        +  +   S
Sbjct: 39  PDDWSIGTISDLSRDIICGKTPSTKKKEYYGDYMPFITIPDMHNNVYVIATERSLSKMGS 98

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
           D+ +        I    +G       +   +   + Q   + PK+         L+    
Sbjct: 99  DSQSKKTLPANSICVSCIGT-AGLVTLVAVNSQTNQQINSIIPKERYSPYYIFLLMQTFS 157

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            +       G+T+ + +    G +   +P + +       +     RI     E  R   
Sbjct: 158 EKINRLGQSGSTIVNLNKAQFGLMEALVPSINDMNDFDTTVKPLFERILANQYENQRLAA 217

Query: 194 LLKEKKQALVS 204
           L       L++
Sbjct: 218 LRDTLLPKLMN 228


>gi|167768810|ref|ZP_02440863.1| hypothetical protein ANACOL_00127 [Anaerotruncus colihominis DSM
           17241]
 gi|167668982|gb|EDS13112.1| hypothetical protein ANACOL_00127 [Anaerotruncus colihominis DSM
           17241]
          Length = 291

 Score = 61.7 bits (148), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 28/174 (16%), Positives = 56/174 (32%), Gaps = 4/174 (2%)

Query: 227 LVPDHWEVKPFFALVTEL----NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET 282
            +PD WE   F  + T       R      +  I+  S   +   ++  ++     +   
Sbjct: 117 ELPDGWEWCNFSMIGTTNLGLTYRPTDIEPDGVIVLRSCNIVNDPIDLSDLVRVKTTIRK 176

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
            Q     +I+    +         +         +              Y+   +RS   
Sbjct: 177 NQYAQKNDILICARNGSRVLVGKCALISNLGEAASFGAFMAIYRTEYFEYIVQHLRSSFF 236

Query: 343 CKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
             VF    S     L  + +KR  V +PP  EQ  IT +I+     ++ + +++
Sbjct: 237 RSVFDDSNSTAINQLTQDMLKRAVVPLPPASEQRRITEMIDATLFELNQMEKRL 290



 Score = 46.7 bits (109), Expect = 0.007,   Method: Composition-based stats.
 Identities = 25/173 (14%), Positives = 51/173 (29%), Gaps = 11/173 (6%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESG----KDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            +P  W+          N G T          +I +   ++ +        D    ++  
Sbjct: 117 ELPDGWEWCNFSMIGTTNLGLTYRPTDIEPDGVIVLRSCNIVNDPIDL--SDLVRVKTTI 174

Query: 76  STVSIFAKGQILYGKLGP----YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
                  K  IL            + A+I++     S    +   +    E +   L S 
Sbjct: 175 RKNQYAQKNDILICARNGSRVLVGKCALISNLGEAASFGAFMAIYRTEYFEYIVQHLRSS 234

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
                 +       ++      +    +P+PP +EQ  I E I A    ++ +
Sbjct: 235 FFRSVFDDS-NSTAINQLTQDMLKRAVVPLPPASEQRRITEMIDATLFELNQM 286


>gi|304436279|ref|ZP_07396260.1| 50S ribosomal protein L10 [Selenomonas sp. oral taxon 149 str.
           67H29BP]
 gi|304370727|gb|EFM24371.1| 50S ribosomal protein L10 [Selenomonas sp. oral taxon 149 str.
           67H29BP]
          Length = 212

 Score = 61.7 bits (148), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 24/205 (11%), Positives = 61/205 (29%), Gaps = 19/205 (9%)

Query: 225 VGLVPDHWEVKPFFALVTE-----LNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
           +  +P  W+      +        + +   +  + ++  L    + Q     N       
Sbjct: 14  ISDIPKGWQEGYLTDIAEYLNGLAMQKFRPQNEQESLPVLKIKELRQGQCDINSERCSLD 73

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
            +   I+  G+++F +         L          +      V           +   +
Sbjct: 74  IKPQYIIHDGDVIFSWSGSL-----LVDFWCGGICGLNQHLFKVHSKQYAP--WLYYSWT 126

Query: 340 YDLCKVFYAMGS---GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
                 F AM +        +K + ++   VL+P   +   I      +   +   +   
Sbjct: 127 KYYLAEFVAMAADKATTMGHIKRDALENARVLIPCSDDYLKI----EEQLQPLYDAIIAH 182

Query: 397 EQSIVLLKERRSSFIAAAVTGQIDL 421
              I  L   R++ +   ++G+ID+
Sbjct: 183 RVEIRKLSTLRNTLLPRLMSGEIDV 207



 Score = 53.6 bits (127), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 32/193 (16%), Positives = 57/193 (29%), Gaps = 10/193 (5%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTG------RTSESGKDIIYIGLEDVESGTGKYLPKDGNSR 71
           I  IPK W+   +    +   G      R     + +  + ++++  G      +     
Sbjct: 14  ISDIPKGWQEGYLTDIAEYLNGLAMQKFRPQNEQESLPVLKIKELRQGQCDINSERC--- 70

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
             D     I   G +++   G  L         G  +     +  K   P L   W    
Sbjct: 71  SLDIKPQYIIHDGDVIFSWSGSLLVDFWCGGICG-LNQHLFKVHSKQYAPWLYYSWTKYY 129

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
                  A  +  TM H     + N  + IP   + + I E++      I     E  + 
Sbjct: 130 LAEFVAMAADKATTMGHIKRDALENARVLIPCSDDYLKIEEQLQPLYDAIIAHRVEIRKL 189

Query: 192 IELLKEKKQALVS 204
             L       L+S
Sbjct: 190 STLRNTLLPRLMS 202


>gi|32455520|ref|NP_862272.1| HsdS' [Lactobacillus sakei]
 gi|24461247|gb|AAN61994.1|AF438419_4 HsdS' [Lactobacillus sakei]
          Length = 151

 Score = 61.7 bits (148), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 13/113 (11%), Positives = 38/113 (33%), Gaps = 7/113 (6%)

Query: 277 PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWL 336
            + +     V    ++                   +   + +        G D  ++ + 
Sbjct: 34  YDGFHDAAKVQGPGVITGRSGTLGSVY----FNTTDFWPLNTTLFVSNFKGNDPLFVYYY 89

Query: 337 MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
           +++ DL +           +L    + ++ V +P + +Q +I N +N+   +I
Sbjct: 90  LKTMDLGRY---ATGTTVPTLNRNHLDQIKVNIPDLAQQREIANKLNLFDEKI 139


>gi|217032123|ref|ZP_03437623.1| hypothetical protein HPB128_16g83 [Helicobacter pylori B128]
 gi|216946271|gb|EEC24879.1| hypothetical protein HPB128_16g83 [Helicobacter pylori B128]
          Length = 83

 Score = 61.7 bits (148), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 14/85 (16%), Positives = 33/85 (38%), Gaps = 4/85 (4%)

Query: 337 MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
           M+         +  +    S+  + +    +L+PP+ EQ  I N+++     I  L  K 
Sbjct: 1   MKVNQNYLYEISNRNATPYSISKDKILDFEILLPPLNEQIAIANILSALDNEIISLKNKK 60

Query: 397 EQSIVLLKERRSSFIAAAVTGQIDL 421
            Q     +  + +     ++ +I +
Sbjct: 61  RQ----FENIKKALNHDLMSAKIRV 81


>gi|324994851|gb|EGC26764.1| hypothetical protein HMPREF9392_1667 [Streptococcus sanguinis
           SK678]
          Length = 216

 Score = 61.7 bits (148), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 20/171 (11%), Positives = 56/171 (32%), Gaps = 4/171 (2%)

Query: 225 VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET-- 282
           +GL   +            ++       ++    L   +I          LK        
Sbjct: 10  LGLRYKNLSDFSIGKGTYGISASAVGKDDNLPTYLRITDINDDGTINFASLKSVDRSDAD 69

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY-MAVKPHGIDSTYLAWLMRSYD 341
              + P +IVF        +      +  E          ++ P      ++ +  +S +
Sbjct: 70  KYRLQPNDIVFARTGGSTGRSYFYDGKDGEFVFAGFLIKFSIDPQKCIPKFIKYYCQSRE 129

Query: 342 LCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
                 +  +G  R ++  +  +++P+   P+++Q  I ++++    +I+ 
Sbjct: 130 YYNWVASFNTGSTRGNINAKTFEKMPIPDLPLEQQQLIVDILSPIDDKIEN 180



 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 23/177 (12%), Positives = 60/177 (33%), Gaps = 15/177 (8%)

Query: 29  PIKRFTKLNTGR---------TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
             K  +  + G+           +      Y+ + D+            +  +SD     
Sbjct: 13  RYKNLSDFSIGKGTYGISASAVGKDDNLPTYLRITDINDDGTINFASLKSVDRSDADKYR 72

Query: 80  IFAKGQILYGKLGPYLRKAIIADFD---GICSTQFLVL--QPKDVLPELLQGWLLSIDVT 134
           +     I++ + G    ++   D      + +   +     P+  +P+ ++ +  S +  
Sbjct: 73  L-QPNDIVFARTGGSTGRSYFYDGKDGEFVFAGFLIKFSIDPQKCIPKFIKYYCQSREYY 131

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
             + +   G+T  + + K    +P+P  PL +Q LI + +     +I+         
Sbjct: 132 NWVASFNTGSTRGNINAKTFEKMPIPDLPLEQQQLIVDILSPIDDKIENNKKINHHL 188


>gi|313678683|ref|YP_004056423.1| type I restriction modification system, S subunit [Mycoplasma bovis
           PG45]
 gi|312950104|gb|ADR24699.1| type I restriction modification system, S subunit [Mycoplasma bovis
           PG45]
          Length = 438

 Score = 61.7 bits (148), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 39/242 (16%), Positives = 74/242 (30%), Gaps = 16/242 (6%)

Query: 164 LAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV---SYIVTKGLNPDVKMKDS 220
           L +Q    + +      I     + +   +L K     L+   +             ++ 
Sbjct: 200 LVKQDQNNDSVDNLINEIYKEKQKLVEQGKLKKADLNNLIIYKNDNDNSYYEKFENGREE 259

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTK-----LIESNILSLSYGNIIQKLETRNMGL 275
            IE    +P +W    F  +V     K             I  +S  ++I+  + ++   
Sbjct: 260 KIEVPFEIPYNWIWSRFNKVVNFKIGKTPPTNDLSFWNGKIPWVSISDMIKNSKIKSTKK 319

Query: 276 KPE-----SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
                   SY    +V    ++  F         L    V   GII+      K +    
Sbjct: 320 FISKKALSSYFNNNLVKKETLIMSFKLTVGKTSILGIDAVHNEGIISIYPYFDKNNLFRD 379

Query: 331 TYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
             + +L           A+  G    L  + + +L + +PP+KEQ  I   I      + 
Sbjct: 380 FLMLFLPIFSQFGDKKEAIKGGT---LNTKSLSKLLIPIPPLKEQQRIVENITKIQKLLK 436

Query: 391 VL 392
            L
Sbjct: 437 NL 438



 Score = 44.8 bits (104), Expect = 0.027,   Method: Composition-based stats.
 Identities = 29/172 (16%), Positives = 60/172 (34%), Gaps = 8/172 (4%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLED-VESGTGKYLPKDGNSRQ 72
            IP +W      +      G+T  +         I ++ + D +++   K   K  + + 
Sbjct: 266 EIPYNWIWSRFNKVVNFKIGKTPPTNDLSFWNGKIPWVSISDMIKNSKIKSTKKFISKKA 325

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL-SI 131
             +   +   K + L       + K  I   D + +   + + P      L + +L+  +
Sbjct: 326 LSSYFNNNLVKKETLIMSFKLTVGKTSILGIDAVHNEGIISIYPYFDKNNLFRDFLMLFL 385

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
            +  +     E       + K +  + +PIPPL EQ  I E I      +  
Sbjct: 386 PIFSQFGDKKEAIKGGTLNTKSLSKLLIPIPPLKEQQRIVENITKIQKLLKN 437


>gi|268609384|ref|ZP_06143111.1| putative type I restriction-modification system specificity subunit
           [Ruminococcus flavefaciens FD-1]
          Length = 367

 Score = 61.7 bits (148), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 49/401 (12%), Positives = 108/401 (26%), Gaps = 43/401 (10%)

Query: 23  KHWKVVPIKRFTK-LNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
             WK   +      L++G+  +            + S T +Y    GN  +  TS  + F
Sbjct: 3   SEWKEYELGNICSRLSSGKGIK----------AAMISDTAEYAVYGGNGIRGYTSDYN-F 51

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
                + G+ G Y             +   ++             ++L+      +  + 
Sbjct: 52  EGDCAIIGRQGAYCGNVRYFSGKAYMTEHAVIACANSEHNTRYLSYVLTA---MDLGRLS 108

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
             +       K +    + +P L  Q  I   I      ++  I       E L+++ QA
Sbjct: 109 GQSAQPGISVKTLSIQKVKMPSLNLQRKIVAVI----SSLEEKIELNAAINENLEQQAQA 164

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
           L   +++             +   G  P     + +   +     K+             
Sbjct: 165 LFKDMISDVQEQVPFTSVIQV-LGGGTPKTGNQEYWNGEIPFFTPKD------------V 211

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
           GN       +++          ++     +                       +  S Y 
Sbjct: 212 GNPYVLTTEKSITPLGLDNCNSRLYPVNTVFLTARGTVGKVSLAGVPM----AMNQSCYA 267

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVL-VPPIKEQFDITN 380
                G+    +   +    +  + +     +  ++   D     V  + P  EQ    N
Sbjct: 268 LAGKDGLHQIIVYHYVL-ETVKALKHKASGAVFDAIITRDFDTENVPALSP--EQIK--N 322

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            I      I   +         L   R + +   + G+ID+
Sbjct: 323 YI-AFAEPIYNEILNRSVENQRLATLRDTLLPKLMNGEIDV 362


>gi|257464673|ref|ZP_05629044.1| Type I restriction-modification system, S subunit/Type I
           restriction modification DNA specificity [Actinobacillus
           minor 202]
 gi|257450333|gb|EEV24376.1| Type I restriction-modification system, S subunit/Type I
           restriction modification DNA specificity [Actinobacillus
           minor 202]
          Length = 360

 Score = 61.7 bits (148), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 30/197 (15%), Positives = 64/197 (32%), Gaps = 4/197 (2%)

Query: 13  SGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           SG + +G IP  W V+  K F   +  +     +D+    + +   G      K   S  
Sbjct: 163 SGYKNLGEIPIGWNVLTFKDFISESKEKVGSL-EDVPEYSVGN--EGIYPRSEKYNKSLS 219

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQG-WLLSI 131
                  +   G +++G     L   I+ D  G  S  + V +    +  +    ++ + 
Sbjct: 220 KTPEKNKVVRIGDLVFGMGSKTLNWGIMNDEIGSVSPAYFVYRIFTNINYIYLNKYIKAK 279

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
           +   +             D +      + +P      +   K+      + +  TE +  
Sbjct: 280 EYDFQNLIKPTSRQGQSVDKEMFLKKEIYVPNEYLLDIYLNKLKEIDSLVYSYTTEVLIL 339

Query: 192 IELLKEKKQALVSYIVT 208
            ++  E    L+S  V 
Sbjct: 340 EQIRDELLPKLLSGEVF 356



 Score = 53.3 bits (126), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 48/364 (13%), Positives = 107/364 (29%), Gaps = 60/364 (16%)

Query: 106 ICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLA 165
             +     L  K+ + +    +    +  + ++    GA            I +  P + 
Sbjct: 2   AFNQSCYGLNGKENIIDNGFLYYFLKNNIKELKQKTHGAVFDTITRDTFEYIEIYYPDIK 61

Query: 166 EQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV---------------------- 203
            Q  I E +     +I           ++ +   ++                        
Sbjct: 62  RQKEIAEILEDYDQKIQLNTQINQTLEQIAQTIFKSWFIDFDPVHAKANALANGQTLEQA 121

Query: 204 -------------------------SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFF 238
                                     Y     +        SG + +G +P  W V  F 
Sbjct: 122 TQAAMAVISGKNTQELHRLQTANPEQYQQLWEIAEAFPSGFSGYKNLGEIPIGWNVLTFK 181

Query: 239 ALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDL 298
             ++E   K   L +    S+    I  + E  N  L  ++ E  ++V  G++VF     
Sbjct: 182 DFISESKEKVGSLEDVPEYSVGNEGIYPRSEKYNKSL-SKTPEKNKVVRIGDLVFGMGSK 240

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL---AWLMRSYDLCKVFYAMGSGLRQ 355
             +   +      E G ++ AY   +     +          + YD   +        + 
Sbjct: 241 TLNWGIM----NDEIGSVSPAYFVYRIFTNINYIYLNKYIKAKEYDFQNLIKPTSRQGQ- 295

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           S+  E   +  + VP       + ++   +   ID LV      +++L++ R   +   +
Sbjct: 296 SVDKEMFLKKEIYVPN----EYLLDIYLNKLKEIDSLVYSYTTEVLILEQIRDELLPKLL 351

Query: 416 TGQI 419
           +G++
Sbjct: 352 SGEV 355


>gi|160894147|ref|ZP_02074925.1| hypothetical protein CLOL250_01701 [Clostridium sp. L2-50]
 gi|156864180|gb|EDO57611.1| hypothetical protein CLOL250_01701 [Clostridium sp. L2-50]
          Length = 230

 Score = 61.7 bits (148), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 23/209 (11%), Positives = 62/209 (29%), Gaps = 20/209 (9%)

Query: 226 GLVPDHWEVKPFFA------LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
           G  PD W                  + K ++    N   ++  ++   +   +       
Sbjct: 28  GTKPDDWSDGTIDDLGTEIICGKTPSTKKSEYYGGNTPFITIPDMHGCVYIVSTERYLSD 87

Query: 280 ----YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
                +  + + P  +    I        +       + I +     +   GI   Y+  
Sbjct: 88  AGVASQPKKTLPPNTVCVSCIGTAGLVTLVSEESQSNQQINS----IIPKEGISVYYIYL 143

Query: 336 LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP-IKEQFDITNVINVETARIDVLVE 394
           LM++                +L      ++ V++P  +  Q       +     +   + 
Sbjct: 144 LMQTLADTINKLGQSGSTIVNLNKTQFGKIQVMIPSELVLQD-----FDSLCRPLFDTIL 198

Query: 395 KIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
             ++  + L E R + +   ++G++D+  
Sbjct: 199 SNQKENINLSELRDALLPKLMSGELDVSD 227


>gi|145633240|ref|ZP_01788971.1| putative type I restriction enzyme HindVIIP specificity protein
           [Haemophilus influenzae 3655]
 gi|229845101|ref|ZP_04465236.1| type I restriction/modification specificity protein [Haemophilus
           influenzae 6P18H1]
 gi|144986086|gb|EDJ92676.1| putative type I restriction enzyme HindVIIP specificity protein
           [Haemophilus influenzae 3655]
 gi|229811937|gb|EEP47631.1| type I restriction/modification specificity protein [Haemophilus
           influenzae 6P18H1]
          Length = 431

 Score = 61.7 bits (148), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 23/186 (12%), Positives = 62/186 (33%), Gaps = 10/186 (5%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG 289
           +      F  LVT+    + K  E  +  ++  NI+               +   I    
Sbjct: 5   EFIPASEFCDLVTDGTHDSPKKTEFGVKLVTSKNIVGGKLDLTSAYFISESDAQNINKRS 64

Query: 290 EIVFRFI--DLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY 347
           ++    +   +      +   +     +I +  +        + +L + ++S     +  
Sbjct: 65  QVHINDVLLSMIGTVGEVALIEKEPDFVIKNVGLLKNSDPKKAKWLYYYLKSPIAQNLIK 124

Query: 348 -AMGSGLRQSLKFEDVKRLPVLVPPIKE--QFDITNVINVETARIDVLVEKIEQSIVLLK 404
             +    +Q +   +++ LP+L P  +E  Q  I      + + +D  ++   Q    L+
Sbjct: 125 DRLRGTTQQYIPLGELRNLPILKPNSEEHLQNTI-----EQLSSLDKKIQLNTQINQTLE 179

Query: 405 ERRSSF 410
           +   + 
Sbjct: 180 QIAQAL 185



 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 58/439 (13%), Positives = 132/439 (30%), Gaps = 57/439 (12%)

Query: 26  KVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQS--DTSTVS 79
           + +P   F  L T  T +S K     +  +  +++  G          S     + +  S
Sbjct: 5   EFIPASEFCDLVTDGTHDSPKKTEFGVKLVTSKNIVGGKLDLTSAYFISESDAQNINKRS 64

Query: 80  IFAKGQILYGKLGPYLRKAIIADFD-GICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
                 +L   +G     A+I      +     L+        + L  +L S      I+
Sbjct: 65  QVHINDVLLSMIGTVGEVALIEKEPDFVIKNVGLLKNSDPKKAKWLYYYLKSPIAQNLIK 124

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
               G T  +     + N+P+  P   E +      I +   +D  I    +  + L++ 
Sbjct: 125 DRLRGTTQQYIPLGELRNLPILKPNSEEHLQNT---IEQLSSLDKKIQLNTQINQTLEQI 181

Query: 199 KQALVS-------------YIVTKGLNPDVKMKDSGIEWVGLVPD------HWEVKPFFA 239
            QAL                 ++ GL+ +     +     G  P+        +   +  
Sbjct: 182 AQALFKSWFVDFDPVRAKVQALSDGLSLEQAELAAIQAISGKTPEELTALSQTQPDRYTE 241

Query: 240 LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL-KPESYETYQIVDPGEIVF----- 293
           L         +++E +   ++ G  +++++     +   + Y +      G +       
Sbjct: 242 LAETAKAFPCEMVEVDGGEVTKGWEVKRIDEVIQKIPVGKKYSSKTAFSEGLVPILDQGR 301

Query: 294 -RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID------------STYLAWLMRSY 340
              I   NDK  ++++      +  +    ++    D            +    + +   
Sbjct: 302 SGVIGYHNDKPGVKASIEDPIIVFANHTCYMRLISYDFSAIQNVFAFKGTECNLYWLYLA 361

Query: 341 DLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
            L K  +    G        D     ++VPP +             ++I       ++  
Sbjct: 362 TLGKQEFVEYKGHFP-----DFLIKEIIVPPEELTELFGKYAKENFSKIF----INDREN 412

Query: 401 VLLKERRSSFIAAAVTGQI 419
             L + R   +   + G I
Sbjct: 413 SSLAKIRDLLLPKLLNGDI 431


>gi|291569502|dbj|BAI91774.1| hypothetical protein [Arthrospira platensis NIES-39]
          Length = 255

 Score = 61.3 bits (147), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 31/260 (11%), Positives = 80/260 (30%), Gaps = 35/260 (13%)

Query: 171 REKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEW--VGLV 228
              +   T     L  E    + + +++       ++T         ++  +EW  +G  
Sbjct: 1   MRILDTFTALTAELTAELTAELTVRQKQYNYYRDQLLT--------FEEGEVEWKPLGE- 51

Query: 229 PDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKL----ETRNMGLKPESYETYQ 284
                       +          ++  I ++ YG I              ++ E   +  
Sbjct: 52  --------IGEFIRGKRFTKADYVDDGIPAIHYGEIYTHYGVAASHTLSQVRAEMAASLC 103

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCK 344
             +PG++V   +    +      A +    +          H I+  +++++M++     
Sbjct: 104 YAEPGDVVMTGVGETVEDVGKAVAWIGSEKVAIHDDSWAFRHSINPKFVSYVMQTTAFIN 163

Query: 345 VFYAM-GSGLRQSLKFEDVKRLPVLVP-------PIKEQFDITNVINVETARIDVLVEKI 396
                  SG    L    +K++P+ +P        ++EQ  I  +++        + E +
Sbjct: 164 EKAKHVSSGKVNRLLINGIKKVPIPIPYPNDPKKSLEEQAHIVAILDKFDTLTHSISEGL 223

Query: 397 EQSI----VLLKERRSSFIA 412
              I       +  R   + 
Sbjct: 224 PHEIAWRQKQYEYYRDLLLT 243



 Score = 44.4 bits (103), Expect = 0.035,   Method: Composition-based stats.
 Identities = 28/238 (11%), Positives = 72/238 (30%), Gaps = 26/238 (10%)

Query: 3   HYKAYPQYKD---SGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES----GKDIIYIGLED 55
             K Y  Y+D   +  +  G +    +  P+    +   G+           I  I   +
Sbjct: 25  RQKQYNYYRDQLLTFEE--GEV----EWKPLGEIGEFIRGKRFTKADYVDDGIPAIHYGE 78

Query: 56  VESGTGKYLPKDGNSRQSDT-STVSIFAKGQILYGKLGPY----LRKAIIADFDGICSTQ 110
           + +  G       +  +++  +++     G ++   +G       +       + +    
Sbjct: 79  IYTHYGVAASHTLSQVRAEMAASLCYAEPGDVVMTGVGETVEDVGKAVAWIGSEKVAIHD 138

Query: 111 FLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPP------- 163
                   + P+ +   + +               ++     GI  +P+PIP        
Sbjct: 139 DSWAFRHSINPKFVSYVMQTTAFINEKAKHVSSGKVNRLLINGIKKVPIPIPYPNDPKKS 198

Query: 164 LAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSG 221
           L EQ  I   +  +   +   I+E +      ++K+      ++      + K   S 
Sbjct: 199 LEEQAHIVAILD-KFDTLTHSISEGLPHEIAWRQKQYEYYRDLLLTFPKKEEKQCASD 255


>gi|262065806|ref|ZP_06025418.1| HsdS, type I site-specific deoxyribonuclease [Fusobacterium
           periodonticum ATCC 33693]
 gi|291380501|gb|EFE88019.1| HsdS, type I site-specific deoxyribonuclease [Fusobacterium
           periodonticum ATCC 33693]
          Length = 180

 Score = 61.3 bits (147), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 24/149 (16%), Positives = 53/149 (35%), Gaps = 7/149 (4%)

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKP----ESYETYQIVDPGEIVFRFIDLQND 301
            K    +      L   NI    E     LK     +S +   ++  GE++F   + +  
Sbjct: 30  SKKATSVVGEFPILRMNNITYSGEMNYKDLKYIELSDSEKEKFLLKKGELLFNRTNSKEL 89

Query: 302 KRSLRSAQVMERGIITSAYMAVKP-HGIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLK 358
                   +          + ++P + I S +L + M S  + K+ Y     +    ++ 
Sbjct: 90  VGKTGLFNLDIPMAFAGYLIKIRPSNLIHSKFLLFFMNSEFMKKLLYNKAKNIVGMANIN 149

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETA 387
            ++++   +++PPI+ Q      I     
Sbjct: 150 AKELEDFSIILPPIELQNKFAERIEKIEK 178



 Score = 49.8 bits (117), Expect = 0.001,   Method: Composition-based stats.
 Identities = 18/168 (10%), Positives = 58/168 (34%), Gaps = 10/168 (5%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGK---DIIYIGLEDV-ESGTGKYLPKDGNSRQSDTSTV 78
           K+W++  +    +   G + ++     +   + + ++  SG   Y               
Sbjct: 12  KNWEIKKLGEVVQTQYGTSKKATSVVGEFPILRMNNITYSGEMNYKDLKYIELSDSEKEK 71

Query: 79  SIFAKGQILYGKLGP----YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
            +  KG++L+ +               D     +   + ++P +++      + ++ +  
Sbjct: 72  FLLKKGELLFNRTNSKELVGKTGLFNLDIPMAFAGYLIKIRPSNLIHSKFLLFFMNSEFM 131

Query: 135 QR--IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
           ++           M++ + K + +  + +PP+  Q    E+I      
Sbjct: 132 KKLLYNKAKNIVGMANINAKELEDFSIILPPIELQNKFAERIEKIEKL 179


>gi|227547680|ref|ZP_03977729.1| possible type I site-specific deoxyribonuclease specificity subunit
           [Bifidobacterium longum subsp. infantis ATCC 55813]
 gi|227211835|gb|EEI79731.1| possible type I site-specific deoxyribonuclease specificity subunit
           [Bifidobacterium longum subsp. infantis ATCC 55813]
          Length = 172

 Score = 61.3 bits (147), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 29/176 (16%), Positives = 62/176 (35%), Gaps = 12/176 (6%)

Query: 232 WEVKPFFALVTELNRKNTKLIESNILSLS-YGNIIQKLETRNMGLKPESYETYQIVDPGE 290
           WE +    +   + RKN        L++S    +I +    N  +       Y ++  GE
Sbjct: 1   WEQRKLGEIAERVTRKNENNESDLPLTISAQHGLIDQRLFFNAQVASRDMSGYYLLRQGE 60

Query: 291 IVFRF-IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
             +       +   +++     E+G +++ Y+       +  YL     +    K    +
Sbjct: 61  FAYNKSTSADSPWGAIKRLTRYEKGCVSTLYICFALLNANPDYLVTYYETNRWHKAVQMI 120

Query: 350 GS-GLRQ----SLKFEDVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQS 399
            + G R     ++  +D     V +P    EQ  I        +R+D L+   ++ 
Sbjct: 121 AAEGARNHGLLNIAPDDFFDTMVSLPESQAEQQTIGAF----FSRLDSLITLHQRK 172



 Score = 50.6 bits (119), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 17/151 (11%), Positives = 41/151 (27%), Gaps = 10/151 (6%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIY-IGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           W+   +    +  T +   +  D+   I  +        +   +      D S   +  +
Sbjct: 1   WEQRKLGEIAERVTRKNENNESDLPLTISAQHGLIDQRLFF--NAQVASRDMSGYYLLRQ 58

Query: 84  GQILYGKLGPYLRKAIIAD-----FDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           G+  Y K                   G  ST ++     +  P+ L  +  +    + ++
Sbjct: 59  GEFAYNKSTSADSPWGAIKRLTRYEKGCVSTLYICFALLNANPDYLVTYYETNRWHKAVQ 118

Query: 139 AICEGATMSH--ADWKGIGNIPMPIPPLAEQ 167
            I      +H   +          +     Q
Sbjct: 119 MIAAEGARNHGLLNIAPDDFFDTMVSLPESQ 149


>gi|320326659|gb|EFW82707.1| hypothetical protein PsgB076_00487 [Pseudomonas syringae pv.
           glycinea str. B076]
          Length = 452

 Score = 61.3 bits (147), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 18/95 (18%), Positives = 39/95 (41%), Gaps = 6/95 (6%)

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVF--YAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
              +   P  +DS +L + ++S  L +             +L+   +K L V  PPI+ Q
Sbjct: 98  QVLLRPNPDKVDSRFLLYALQSPYLQRQIGWNEGTGSTVSNLRIPVLKALKVPTPPIETQ 157

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
            +I++ +      ID  +  + ++   L+    + 
Sbjct: 158 REISSTLGS----IDDRIALLRETNANLEAIAQAL 188



 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 65/424 (15%), Positives = 130/424 (30%), Gaps = 47/424 (11%)

Query: 44  SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF--AKGQILYGKLGPYLRKAIIA 101
           + +  I +  ++++ G                  +      K  I+  +  P      I 
Sbjct: 28  TTEGFIVLRNQNIKGGRLDLAAPSYTDEAHYLGRIRRAAPQKDDIVITREAPMGEVCQIP 87

Query: 102 DFDGIC---STQFLVLQPKDVLPELLQGWLLSIDVTQRI-EAICEGATMSHADWKGIGNI 157
           +    C       L   P  V    L   L S  + ++I      G+T+S+     +  +
Sbjct: 88  EDLKCCLGQRQVLLRPNPDKVDSRFLLYALQSPYLQRQIGWNEGTGSTVSNLRIPVLKAL 147

Query: 158 PMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS-----YIVTKGLN 212
            +P PP+  Q  I   + +   RI  L         + +   ++            +GL 
Sbjct: 148 KVPTPPIETQREISSTLGSIDDRIALLRETNANLEAIAQALFKSWFVDFGPVRAKAEGLV 207

Query: 213 PDVK-------MKDSGIE-WVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
           P+           DS +E   GLVP  W + PF  L+      +         +  +  I
Sbjct: 208 PEGMDEVTSGMFPDSFVESEQGLVPKGWRLVPFGELLIHTIGGDWGDETPGEKNYIHVAI 267

Query: 265 IQKLETRNM----------GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
           I+  +  ++                    + +  G++V        D+ + R+  + E  
Sbjct: 268 IRGTDIPDLQSGAANRVPLRYTSTKKLATRKLQDGDLVLEVSGGSKDQPTGRALYLTEAL 327

Query: 315 IIT--------SAYMAVKPHGIDSTYLAWLMRSYDL---CKVFYAMGSGLRQSLKFEDV- 362
           +          S    ++P   ++  L     +Y         Y   S    + +     
Sbjct: 328 LGQFDCPVAPASFCRLLRPSDRNTGLLLAQHLTYIYGIGKTWEYQNQSTGIANFQTTHFL 387

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
           K   V VPP +      +V+     R+          I  L   R + +   ++GQ+ L 
Sbjct: 388 KNELVAVPPREVLAVFADVVRSIVDRV------HLSQIQNLASLRDALLPRLISGQLRLP 441

Query: 423 GESQ 426
              +
Sbjct: 442 VAEE 445


>gi|225026006|ref|ZP_03715198.1| hypothetical protein EUBHAL_00244 [Eubacterium hallii DSM 3353]
 gi|224956656|gb|EEG37865.1| hypothetical protein EUBHAL_00244 [Eubacterium hallii DSM 3353]
          Length = 215

 Score = 61.3 bits (147), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 17/129 (13%), Positives = 36/129 (27%), Gaps = 5/129 (3%)

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC 343
             +  G+I+F        K  +                A      D+ ++     +    
Sbjct: 86  YKLTEGDILFARTGASVGKSYIYKNSDGLVYYAGFLIRARIKEEYDTEFVFQNTLTDRYN 145

Query: 344 KVFYAMGS-GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
           K          +  +  ++     + VP  +EQ  I          ID L+   ++    
Sbjct: 146 KYIAVTSQRSGQPGVNAQEYAEFEIKVPKKEEQTKIGTY----FRNIDNLITLHQRKCNQ 201

Query: 403 LKERRSSFI 411
           L+  R   +
Sbjct: 202 LQIIRKYML 210



 Score = 55.2 bits (131), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 24/191 (12%), Positives = 57/191 (29%), Gaps = 10/191 (5%)

Query: 23  KHWKVVPIKRFTK-LNTGRT---SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           + W+   +         G      E   +  YI + D++  T ++L  +  S   + +  
Sbjct: 24  EDWEQRKLGELASSFEYGLNAAAKEYDGENKYIRITDIDDNTHEFLTDNLTSPDIELTGA 83

Query: 79  --SIFAKGQILYGKLGPYLRKAIIADF----DGICSTQFLVLQPKDVLPELLQGWLLSID 132
                 +G IL+ + G  + K+ I                    ++   E +    L+  
Sbjct: 84  DNYKLTEGDILFARTGASVGKSYIYKNSDGLVYYAGFLIRARIKEEYDTEFVFQNTLTDR 143

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
             + I    + +     + +      + +P   EQ  I          I     +  +  
Sbjct: 144 YNKYIAVTSQRSGQPGVNAQEYAEFEIKVPKKEEQTKIGTYFRNIDNLITLHQRKCNQLQ 203

Query: 193 ELLKEKKQALV 203
            + K   + + 
Sbjct: 204 IIRKYMLKNMF 214


>gi|317488601|ref|ZP_07947145.1| type I restriction modification DNA specificity domain-containing
           protein [Eggerthella sp. 1_3_56FAA]
 gi|316912295|gb|EFV33860.1| type I restriction modification DNA specificity domain-containing
           protein [Eggerthella sp. 1_3_56FAA]
          Length = 182

 Score = 61.3 bits (147), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 31/182 (17%), Positives = 55/182 (30%), Gaps = 14/182 (7%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL---SYGNIIQKLETRNMGLKP-- 277
           E    +P+ WE      + T + R  +                N                
Sbjct: 1   EIPFDIPEGWEWARLEGITTYIQRGKSPKYSLEKKYPVVAQKCNQWSGFSLERAKFVDPN 60

Query: 278 --ESYETYQIVDPGEIVFRFIDLQN---DKRSLRSAQVMERGIITSAY--MAVKPHGIDS 330
              SY   +++  G++++    L           +       +  S    +   P  +  
Sbjct: 61  SVASYAEERLLVDGDLLWNSTGLGTLGRMAVYDSNQNPYGWAVADSHVTVIRTVPDWLRY 120

Query: 331 TYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
            Y         +  V     SG   ++ L  E VKR  + VPP+ EQ  I   +N+  A 
Sbjct: 121 EYAFLYFAGPSVQSVIEDQASGSTKQKELAQETVKRYLIPVPPLAEQRRIAERLNLILAN 180

Query: 389 ID 390
           I+
Sbjct: 181 IN 182



 Score = 45.9 bits (107), Expect = 0.012,   Method: Composition-based stats.
 Identities = 29/179 (16%), Positives = 62/179 (34%), Gaps = 17/179 (9%)

Query: 20  AIPKHWKVVPIKRFTK-LNTGRTSESG--KDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            IP+ W+   ++  T  +  G++ +    K    +  +     +G  L +      +  +
Sbjct: 5   DIPEGWEWARLEGITTYIQRGKSPKYSLEKKYPVVAQKC-NQWSGFSLERAKFVDPNSVA 63

Query: 77  TV---SIFAKGQILYGKLG-PYLRKAIIAD------FDGICSTQFLVLQPKDVLPELLQG 126
           +     +   G +L+   G   L +  + D         +  +   V++           
Sbjct: 64  SYAEERLLVDGDLLWNSTGLGTLGRMAVYDSNQNPYGWAVADSHVTVIRTVPDWLRYEYA 123

Query: 127 --WLLSIDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
             +     V   IE    G+T       + +    +P+PPLAEQ  I E++      I+
Sbjct: 124 FLYFAGPSVQSVIEDQASGSTKQKELAQETVKRYLIPVPPLAEQRRIAERLNLILANIN 182


>gi|293372408|ref|ZP_06618792.1| type I restriction modification DNA specificity domain protein
           [Bacteroides ovatus SD CMC 3f]
 gi|292632591|gb|EFF51185.1| type I restriction modification DNA specificity domain protein
           [Bacteroides ovatus SD CMC 3f]
          Length = 408

 Score = 61.3 bits (147), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 54/414 (13%), Positives = 117/414 (28%), Gaps = 34/414 (8%)

Query: 26  KVVPIKRFTKLNTGRTSESG---KDIIYIGLEDVESGTGKYLPKDGNSRQS-----DTST 77
           K   +     +  G +        +  YI L            K+  S+ +     D  +
Sbjct: 4   KKYKLGEILDVTRGASLSGEYYATEGEYIRLTCGNFDYQNNCFKENKSKDNLYYVGDFKS 63

Query: 78  VSIFAKGQIL-------YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
             +  +G I+        G LG          +        ++ +   +  +     + S
Sbjct: 64  EFLMEEGDIITPLTEQAIGLLGSTAIIPESGKYIQSQDVAKIICKEDLLDKDFAFYLISS 123

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
             V Q++ A  +   + H     I +  + IP L+EQ  I + + +    ID  I     
Sbjct: 124 ALVKQQLSAAAQQTKIRHTSPDKIKDCTVWIPKLSEQKRIGKLLRS----IDRKIELNRA 179

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
             + L+   + L  Y   +   P+ + K        ++ +    +           KN  
Sbjct: 180 INQNLEAMAKQLYDYWFVQFDFPNEEGKPYKSSGGKMIWNDRLKREIPVSWNNGTIKNFM 239

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
            I +    +S        + +     PE   + + +  G  V    +     R       
Sbjct: 240 KIFTGKKDVSKAIP---GKYKFFSCAPEPITSNEFIYDGYAVLVSGNGSYTGR--VGFYK 294

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA-MGSGLRQSLKFEDVKRLPVLV 369
            +  +    Y  V           +    Y    +F           +   D+       
Sbjct: 295 GKFDLYQRTYACVLDENQHDISFFYYTLKYLFQPIFSGGRHGSSIPYIVLGDLADFNFAF 354

Query: 370 PPIKEQFDITN--VINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
                  +      +N   +  D  +   +  I  L ++R   +   + GQ+ +
Sbjct: 355 ------NENVKNMFVNTVKSMFDEQL-LRQCEIEELTKQRDELLPLLMNGQVSV 401



 Score = 36.7 bits (83), Expect = 8.1,   Method: Composition-based stats.
 Identities = 24/183 (13%), Positives = 50/183 (27%), Gaps = 20/183 (10%)

Query: 10  YKDSGVQWIG------AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKY 63
           YK SG + I        IP  W    IK F K+ TG+             +DV       
Sbjct: 209 YKSSGGKMIWNDRLKREIPVSWNNGTIKNFMKIFTGK-------------KDVSKAIPGK 255

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQ-FLVLQPKDVLPE 122
                 + +  TS   I+    +L    G Y  +            + +  +  ++    
Sbjct: 256 YKFFSCAPEPITSNEFIYDGYAVLVSGNGSYTGRVGFYKGKFDLYQRTYACVLDENQHDI 315

Query: 123 LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
               + L             G+++ +     + +         + + +         ++ 
Sbjct: 316 SFFYYTLKYLFQPIFSGGRHGSSIPYIVLGDLADFNFAFNENVKNMFVNTVKSMFDEQLL 375

Query: 183 TLI 185
              
Sbjct: 376 RQC 378


>gi|257458620|ref|ZP_05623755.1| type I restriction-modification system, S subunit [Treponema
           vincentii ATCC 35580]
 gi|257444054|gb|EEV19162.1| type I restriction-modification system, S subunit [Treponema
           vincentii ATCC 35580]
          Length = 197

 Score = 61.3 bits (147), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 21/180 (11%), Positives = 57/180 (31%), Gaps = 12/180 (6%)

Query: 244 LNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKR 303
           + +      E  I  +    + Q     +  L   +   + ++  G+++F +        
Sbjct: 22  MQKYRPTSHEQGIFVMKIKELRQGFCDSSSELCSNTVNPFYLIHNGDVIFSWSGSL---- 77

Query: 304 SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG--SGLRQSLKFED 361
            L          +      V  +   + +  +    + L          +     +K E+
Sbjct: 78  -LVDFWCGGLCGLNQHLFKVTSNKY-AKWFYYCWTKFHLHHFITEAADKATTMGHIKREN 135

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           + +  V++P       +   +     +I  L+      I  L   R + +   ++G+ID+
Sbjct: 136 LAKAEVVIPT----KQVYLTVGDLLGQIYNLMIANRIEINTLSALRDTLLPKLMSGEIDV 191



 Score = 46.7 bits (109), Expect = 0.007,   Method: Composition-based stats.
 Identities = 20/186 (10%), Positives = 45/186 (24%), Gaps = 4/186 (2%)

Query: 22  PKHWKVVPIKRFTKLNTG---RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           P  W+   +        G   +          I +  ++     +         +  +  
Sbjct: 2   PDDWQKACLLDIADYTNGLAMQKYRPTSHEQGIFVMKIKELRQGFCDSSSELCSNTVNPF 61

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
            +   G +++   G  L         G  +     +            W          E
Sbjct: 62  YLIHNGDVIFSWSGSLLVDFWCGGLCG-LNQHLFKVTSNKYAKWFYYCWTKFHLHHFITE 120

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
           A  +  TM H   + +    + IP     + + + +      +     E      L    
Sbjct: 121 AADKATTMGHIKRENLAKAEVVIPTKQVYLTVGDLLGQIYNLMIANRIEINTLSALRDTL 180

Query: 199 KQALVS 204
              L+S
Sbjct: 181 LPKLMS 186


>gi|227889413|ref|ZP_04007218.1| possible type I restriction enzyme S protein [Lactobacillus
           johnsonii ATCC 33200]
 gi|227850030|gb|EEJ60116.1| possible type I restriction enzyme S protein [Lactobacillus
           johnsonii ATCC 33200]
          Length = 180

 Score = 61.3 bits (147), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 22/182 (12%), Positives = 62/182 (34%), Gaps = 9/182 (4%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETR----NMGLKPESYETYQI 285
           ++ ++     ++     K+ K   S +  +   N+ +            L   +     I
Sbjct: 2   EYIKLGAICDVINGYAFKSKKYSTSGVRIIRITNVQKGYVEDASPVYYPLNTINELKKYI 61

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC-K 344
           +  G+++            L    +        A +  K   I   YL +++ +     K
Sbjct: 62  LYSGDLLISLTGNVGRVAILDKKYLPAFLNQRVACIRPKSDKILKEYLFYMLNTNLFEVK 121

Query: 345 VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLK 404
              +     ++++  E +K   V +P I+ Q  + +++     +++  V   +  +  L 
Sbjct: 122 SINSSKGIAQKNISTEWLKNYVVPLPSIEIQQHLISIL----KKLEKAVRNKKHELRALD 177

Query: 405 ER 406
           + 
Sbjct: 178 KL 179



 Score = 54.4 bits (129), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 27/178 (15%), Positives = 58/178 (32%), Gaps = 9/178 (5%)

Query: 26  KVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKY-LPKDGNSRQSDTSTVSI 80
           + + +     +  G   +S K     +  I + +V+ G  +   P        +     I
Sbjct: 2   EYIKLGAICDVINGYAFKSKKYSTSGVRIIRITNVQKGYVEDASPVYYPLNTINELKKYI 61

Query: 81  FAKGQILYGKLGPYLRKAIIADFD--GICSTQFLVLQPK--DVLPELLQGWLLSIDVTQR 136
              G +L    G   R AI+         + +   ++PK   +L E L   L +     +
Sbjct: 62  LYSGDLLISLTGNVGRVAILDKKYLPAFLNQRVACIRPKSDKILKEYLFYMLNTNLFEVK 121

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
                +G    +   + + N  +P+P +  Q  +   +      +     E     +L
Sbjct: 122 SINSSKGIAQKNISTEWLKNYVVPLPSIEIQQHLISILKKLEKAVRNKKHELRALDKL 179


>gi|170718765|ref|YP_001783949.1| restriction modification enzyme [Haemophilus somnus 2336]
 gi|168826894|gb|ACA32265.1| restriction modification enzyme [Haemophilus somnus 2336]
          Length = 161

 Score = 61.3 bits (147), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 21/138 (15%), Positives = 51/138 (36%), Gaps = 10/138 (7%)

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS----AYMAVKPHGIDSTYLAW 335
             +Y      +I+   I    +      A  +   I         +  +   +++ +L  
Sbjct: 23  KSSYTYFQENDIIIAKITPCMENGKCALATELSNHIGMGSSEFHVIRSQSPTLNNAFLFH 82

Query: 336 LMRSYDLCK--VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
            +   ++ +    +  G+   + +     + LPV VP I++Q +I   I    A+ +  +
Sbjct: 83  FLNRNEIRQSAEQHMTGASGHRRVPIGFYESLPVPVPSIEKQTEILAQI----AQYEAQI 138

Query: 394 EKIEQSIVLLKERRSSFI 411
              EQ I  L  ++ + +
Sbjct: 139 ATCEQKIQSLPAQKQAIL 156



 Score = 36.3 bits (82), Expect = 8.7,   Method: Composition-based stats.
 Identities = 26/159 (16%), Positives = 62/159 (38%), Gaps = 13/159 (8%)

Query: 60  TGKYLPKDGNSRQSD--TSTVSIFAKGQILYGKLGPYLRKAII------ADFDGICSTQF 111
              Y+ +  N    +   S+ + F +  I+  K+ P +           ++  G+ S++F
Sbjct: 6   NDGYIQQKINRPLGELRKSSYTYFQENDIIIAKITPCMENGKCALATELSNHIGMGSSEF 65

Query: 112 LVLQPKDV--LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVL 169
            V++ +        L  +L   ++ Q  E    GA+      +        +P     + 
Sbjct: 66  HVIRSQSPTLNNAFLFHFLNRNEIRQSAEQHMTGASGH---RRVPIGFYESLPVPVPSIE 122

Query: 170 IREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVT 208
            + +I+A+  + +  I    + I+ L  +KQA++   + 
Sbjct: 123 KQTEILAQIAQYEAQIATCEQKIQSLPAQKQAILVQYLQ 161


>gi|148827355|ref|YP_001292108.1| putative type I restriction-modification system, specificity
           determinant; restriction endonuclease [Haemophilus
           influenzae PittGG]
 gi|148718597|gb|ABQ99724.1| putative type I restriction-modification system, specificity
           determinant; restriction endonuclease [Haemophilus
           influenzae PittGG]
          Length = 390

 Score = 61.3 bits (147), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 48/392 (12%), Positives = 110/392 (28%), Gaps = 42/392 (10%)

Query: 26  KVVPIKRFTK-------LNTGRTSESGKDIIYIGLE----DVESGTGKYLPKDGNSRQSD 74
           +  P+   T        +   +  +  K   Y+  E     V+ G  K L  + +   + 
Sbjct: 18  EWKPLWSITTWDKRFNAVEKEKQPKVIKYHYYLASELKPLIVDGGNVKLLTTNESDIWTT 77

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
              V        +                  + +   +       + +    +   +   
Sbjct: 78  EELVQNNISEGEIIAIPWGGNPIVQYYKGKFVTADNRIATSNNTKILDNKFLYYFLLSKL 137

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             I +   G+ + H     +  + +PIPPL+ Q  I + + A T     L +E I   + 
Sbjct: 138 DVISSFYRGSGIKHPSMYHVLEMLIPIPPLSVQTEIVKILDALTALTSELTSELILRQKQ 197

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
            +  ++ L+S                  E +G +    + K    +V     K       
Sbjct: 198 YEYYREKLLSE-----------------EELGKI--GVQWKALGEIVPISRGKR------ 232

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
             L  S      +       L+P  Y  ++                +         +E  
Sbjct: 233 --LIRSQLKDNDQYPVYQNSLQPLGYYDHKNCRAYMTFVIAAGAAGEIG----FSNVEFW 286

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKE 374
                Y     + I      +     +   +   +       L    ++++ + +   KE
Sbjct: 287 SADDCYYFDCANKILHDKFLYYFLLSNKHLLTNQVRKASVPRLSRVSIEKIKIPIVSFKE 346

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKER 406
           Q  I  +++        + E +  +I   ++R
Sbjct: 347 QERIVAILDKFETLTHSMTEGLPLAIEQSQKR 378



 Score = 58.3 bits (139), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 33/207 (15%), Positives = 68/207 (32%), Gaps = 4/207 (1%)

Query: 217 MKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK 276
           +  S +EW  L       K F A+  E   K  K        L    I+     + +   
Sbjct: 12  LDGSEVEWKPLWSITTWDKRFNAVEKEKQPKVIKYHYYLASELK-PLIVDGGNVKLLTTN 70

Query: 277 PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI--DSTYLA 334
                T + +    I    I       +        + +     +A   +    D+ +L 
Sbjct: 71  ESDIWTTEELVQNNISEGEIIAIPWGGNPIVQYYKGKFVTADNRIATSNNTKILDNKFLY 130

Query: 335 WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
           + + S       +  GSG+ +      V  + + +PP+  Q +I  +++  TA    L  
Sbjct: 131 YFLLSKLDVISSFYRGSGI-KHPSMYHVLEMLIPIPPLSVQTEIVKILDALTALTSELTS 189

Query: 395 KIEQSIVLLKERRSSFIAAAVTGQIDL 421
           ++       +  R   ++    G+I +
Sbjct: 190 ELILRQKQYEYYREKLLSEEELGKIGV 216


>gi|304373164|ref|YP_003856373.1| Type I site-specific DNA methyltransferase specificity subunit
           [Mycoplasma hyorhinis HUB-1]
 gi|304309355|gb|ADM21835.1| Type I site-specific DNA methyltransferase specificity subunit
           [Mycoplasma hyorhinis HUB-1]
          Length = 417

 Score = 61.3 bits (147), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 51/357 (14%), Positives = 116/357 (32%), Gaps = 26/357 (7%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV--SIFA 82
           W+   ++   ++  GRT    +         +E   GK+      +  +       +   
Sbjct: 22  WQQCKVRELFEIKRGRTILKKE---------IEENRGKFPVYSSQTENNGELGKINTFDF 72

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
            G+ L      Y       +     +    +L+ +         +     +++    I  
Sbjct: 73  DGEYLSWTTDGYAGVIFYRNGKFSLTIHCGLLEKRKSNINYYFAYNSISLISKNYVNIAC 132

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
              + +     +  +   I    EQ    EKI +    +D +I+   R I LL++ ++AL
Sbjct: 133 --AIPNLGSDVMSGVEFMICSYKEQ----EKISSIFFTLDKIISLYERKISLLEKIEKAL 186

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR-KNTKLIESNILSLSY 261
           +  +  K       ++  G           +    ++ +    +   T      I  L+ 
Sbjct: 187 LDNMFIKENEEKPSIRFLGFNSDWQSWTLEDKGYLYSGLNSKTKVDFTNGNSKYITYLNV 246

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA---QVMERGIITS 318
            N           +  +S E    +  G+I+F        +  + SA   +V E+  + S
Sbjct: 247 FNNFNIDLKEKSLVFIKSDEKQNSIVKGDILFTMSSETYQEVGMSSAVTEEVNEKIYLNS 306

Query: 319 AYMAVKPHGID---STYLAWLMRSYDLCK--VFYAMGSGLRQSLKFEDVKRLPVLVP 370
                + +  D     + A+L R++ +    +  + G   R +L  +    L +  P
Sbjct: 307 FCFGYRLNKADFLFPNFSAFLFRNHSVRHKIILQSNGGTSRFNLSKKSFLNLKIKSP 363



 Score = 50.6 bits (119), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 17/142 (11%), Positives = 42/142 (29%), Gaps = 5/142 (3%)

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
           +      ++    ++       F    L               G  +            S
Sbjct: 50  KFPVYSSQTENNGELGKINTFDFDGEYLSWTTDGYAGVIFYRNGKFSLTIHCGLLEKRKS 109

Query: 331 TYLAWL-MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
               +    S  L    Y   +    +L  + +  +  ++   KEQ  I+++       +
Sbjct: 110 NINYYFAYNSISLISKNYVNIACAIPNLGSDVMSGVEFMICSYKEQEKISSI----FFTL 165

Query: 390 DVLVEKIEQSIVLLKERRSSFI 411
           D ++   E+ I LL++   + +
Sbjct: 166 DKIISLYERKISLLEKIEKALL 187


>gi|282878313|ref|ZP_06287106.1| type I restriction modification DNA specificity domain protein
           [Prevotella buccalis ATCC 35310]
 gi|281299568|gb|EFA91944.1| type I restriction modification DNA specificity domain protein
           [Prevotella buccalis ATCC 35310]
          Length = 183

 Score = 61.3 bits (147), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 23/165 (13%), Positives = 55/165 (33%), Gaps = 2/165 (1%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLET-RNMGLKPESYETYQI 285
            +P+ W      ++   +  +  K     I   +  N    ++  +++  +       + 
Sbjct: 18  DIPETWSWSRGKSIFLPMESEKPKNDFVYIDVDAVNNKKYIIDNPKHITTENAPSRASRK 77

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV 345
           +   +++F  +       +L + +       T  Y+     GI   YL W+M S  +   
Sbjct: 78  LHENDVLFSMVRPYLKNIALVTNEYKNAIASTGFYVITPCIGIYPQYLYWMMLSSYIVDG 137

Query: 346 FYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
                 G    S+    ++     +PP  EQ  +   I     ++
Sbjct: 138 LNMFMKGDNSPSINNCHIEEYLYPIPPESEQQRVVAQIETLFEQL 182



 Score = 59.4 bits (142), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 33/168 (19%), Positives = 63/168 (37%), Gaps = 7/168 (4%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESG-TGKYLPKDGNSRQSDTSTV 78
            IP+ W     K         + +   D +YI ++ V +       PK   +  + +   
Sbjct: 18  DIPETWSWSRGKSIF--LPMESEKPKNDFVYIDVDAVNNKKYIIDNPKHITTENAPSRAS 75

Query: 79  SIFAKGQILYGKLGPYLRKAIIADF---DGICSTQFLVLQPKDVL-PELLQGWLLSIDVT 134
               +  +L+  + PYL+   +      + I ST F V+ P   + P+ L   +LS  + 
Sbjct: 76  RKLHENDVLFSMVRPYLKNIALVTNEYKNAIASTGFYVITPCIGIYPQYLYWMMLSSYIV 135

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
             +    +G      +   I     PIPP +EQ  +  +I     ++ 
Sbjct: 136 DGLNMFMKGDNSPSINNCHIEEYLYPIPPESEQQRVVAQIETLFEQLH 183


>gi|332076340|gb|EGI86805.1| type I restriction modification DNA specificity domain protein
           [Streptococcus pneumoniae GA17545]
          Length = 266

 Score = 61.3 bits (147), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 29/178 (16%), Positives = 49/178 (27%), Gaps = 2/178 (1%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V + +      G   +  +D    G E +         K  N          I   G 
Sbjct: 2   KKVKLGQVATFINGYAFKP-QDWSSEGKEIIRIQNLTKTSKGINYYSGTIDKKYIVEAGD 60

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           IL    G  L          + +     +    +  +      +     Q       G+T
Sbjct: 61  ILISWSG-TLGVFQWCGRSAVLNQHIFKVVFDKIDIDKSYFKYVVEKGLQDAVKHTHGST 119

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           M H   K   NI +    L EQ  I  ++   +  I     +      L+K +   + 
Sbjct: 120 MKHLTKKYFDNIMVSYTNLREQQRIASEMDLLSKLILRRQEQLEELNLLVKSRFNEMF 177



 Score = 49.8 bits (117), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 16/142 (11%), Positives = 43/142 (30%), Gaps = 10/142 (7%)

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
            ++ +     + +   IV+ G+I+  +                   ++      V    I
Sbjct: 39  TSKGINYYSGTIDKKYIVEAGDILISWSGTLG-----VFQWCGRSAVLNQHIFKVVFDKI 93

Query: 329 DSTYLAW-LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           D     +  +    L            + L  +    + V    ++EQ  I + ++    
Sbjct: 94  DIDKSYFKYVVEKGLQDAVKHTHGSTMKHLTKKYFDNIMVSYTNLREQQRIASEMD---- 149

Query: 388 RIDVLVEKIEQSIVLLKERRSS 409
            +  L+ + ++ +  L     S
Sbjct: 150 LLSKLILRRQEQLEELNLLVKS 171



 Score = 39.4 bits (90), Expect = 1.1,   Method: Composition-based stats.
 Identities = 17/89 (19%), Positives = 30/89 (33%), Gaps = 12/89 (13%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           K WKV        +  G+  +            VE   GK+ P  G+      +   I  
Sbjct: 185 KEWKVSKWNEILTIRNGKNQKQ-----------VEDADGKF-PIYGSGGIMGYAKDWIVK 232

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQF 111
           K  ++ G+ G   +  ++ +      T F
Sbjct: 233 KNSVIIGRKGNINKPILVRENFWNVDTAF 261


>gi|293402634|ref|ZP_06646737.1| putative type I restriction-modification enzyme, S subunit
           [Erysipelotrichaceae bacterium 5_2_54FAA]
 gi|291303926|gb|EFE45212.1| putative type I restriction-modification enzyme, S subunit
           [Erysipelotrichaceae bacterium 5_2_54FAA]
          Length = 206

 Score = 61.3 bits (147), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 20/186 (10%), Positives = 54/186 (29%), Gaps = 7/186 (3%)

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRF 295
               +      ++      N   +       + E    G +  S   Y            
Sbjct: 23  KLSDIAEITMGQSPSGSSYNEDGIGTIFFQGRAEF---GFRFPSIRLYTTEPKRMACKND 79

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ 355
             +             +   I     A+       +++ + M S       +     +  
Sbjct: 80  TLMSVRAPVGDFNVAHKDCCIGRGLAAIHSKTNHQSFVHYTMFSLKKQLGVFNGEGTVFG 139

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           S+    +  +P+L+P  ++     +      A +D ++      I  L++ R   +   +
Sbjct: 140 SINRNSLNEMPILIPSDEK----LDEFEGIVAPMDAVIRNNYDEICRLEQIRDLLLPKLM 195

Query: 416 TGQIDL 421
           +G++D+
Sbjct: 196 SGELDV 201



 Score = 40.9 bits (94), Expect = 0.40,   Method: Composition-based stats.
 Identities = 21/176 (11%), Positives = 45/176 (25%), Gaps = 2/176 (1%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
            +    ++  G++                 G  ++  +  + R   T    +  K   L 
Sbjct: 23  KLSDIAEITMGQSPSGSSYNEDGIGTIFFQGRAEFGFRFPSIRLYTTEPKRMACKNDTLM 82

Query: 89  GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSH 148
               P      +A  D         +  K    +    + +     Q      EG     
Sbjct: 83  SVRAPV-GDFNVAHKDCCIGRGLAAIHSKT-NHQSFVHYTMFSLKKQLGVFNGEGTVFGS 140

Query: 149 ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
            +   +  +P+ IP   +       +      I     E  R  ++       L+S
Sbjct: 141 INRNSLNEMPILIPSDEKLDEFEGIVAPMDAVIRNNYDEICRLEQIRDLLLPKLMS 196


>gi|146281041|ref|YP_001171194.1| type I restriction-modification system, S subunit, truncation
           [Pseudomonas stutzeri A1501]
 gi|145569246|gb|ABP78352.1| type I restriction-modification system, S subunit, truncation
           [Pseudomonas stutzeri A1501]
          Length = 157

 Score = 61.3 bits (147), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 18/95 (18%), Positives = 35/95 (36%), Gaps = 3/95 (3%)

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
                   + + +         + +L +   +           S    S+   D+   P 
Sbjct: 55  YIHGRFWTVDTMFYTEVSSDASAKFLYYNALTIPFQYY---STSTALPSMTQGDLLNHPC 111

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
            +P  +EQ  I   ++ ETARID L+E+ ++ I  
Sbjct: 112 AIPRREEQAQIARFLDHETARIDGLIEEQQRLIER 146


>gi|324993828|gb|EGC25747.1| hypothetical protein HMPREF9390_0214 [Streptococcus sanguinis
           SK405]
          Length = 190

 Score = 61.3 bits (147), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 20/171 (11%), Positives = 56/171 (32%), Gaps = 4/171 (2%)

Query: 225 VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET-- 282
           +GL   +            ++       ++    L   +I          LK        
Sbjct: 10  LGLRYKNLSDFSIGKGTYGISASAVGKDDNLPTYLRITDINDDGTINFASLKSVDRSDAD 69

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY-MAVKPHGIDSTYLAWLMRSYD 341
              + P +IVF        +      +  E          ++ P      ++ +  +S +
Sbjct: 70  KYRLQPNDIVFARTGGSTGRSYFYDGKDGEFVFAGFLIKFSIDPQKCIPKFIKYYCQSRE 129

Query: 342 LCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
                 +  +G  R ++  +  +++P+   P+++Q  I ++++    +I+ 
Sbjct: 130 YYNWVASFNTGSTRGNINAKTFEKMPIPDLPLEQQQLIVDILSPIDDKIEN 180



 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 23/177 (12%), Positives = 60/177 (33%), Gaps = 15/177 (8%)

Query: 29  PIKRFTKLNTGR---------TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
             K  +  + G+           +      Y+ + D+            +  +SD     
Sbjct: 13  RYKNLSDFSIGKGTYGISASAVGKDDNLPTYLRITDINDDGTINFASLKSVDRSDADKYR 72

Query: 80  IFAKGQILYGKLGPYLRKAIIADFD---GICSTQFLVL--QPKDVLPELLQGWLLSIDVT 134
           +     I++ + G    ++   D      + +   +     P+  +P+ ++ +  S +  
Sbjct: 73  L-QPNDIVFARTGGSTGRSYFYDGKDGEFVFAGFLIKFSIDPQKCIPKFIKYYCQSREYY 131

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
             + +   G+T  + + K    +P+P  PL +Q LI + +     +I+         
Sbjct: 132 NWVASFNTGSTRGNINAKTFEKMPIPDLPLEQQQLIVDILSPIDDKIENNKKINHHL 188


>gi|153951382|ref|YP_001398801.1| type I restriction modification DNA specificity domain-containing
           protein [Campylobacter jejuni subsp. doylei 269.97]
 gi|152938828|gb|ABS43569.1| putative type I restriction modification DNA specificity domain
           [Campylobacter jejuni subsp. doylei 269.97]
          Length = 194

 Score = 61.3 bits (147), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 29/190 (15%), Positives = 60/190 (31%), Gaps = 11/190 (5%)

Query: 30  IKRFTKLNTGRTSES-------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           +    ++  G T          G  I +  ++D+ +          +          +F 
Sbjct: 2   LGEIFEIKNGYTPSKANKEFWEGGTIPWFRMDDIRTNGRILSDSLQHITPKALKGGKLFP 61

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP---ELLQGWLLSIDVTQRIEA 139
           K  I+          A+I   D + + +F  L  K       ++   +     + Q  + 
Sbjct: 62  KNSIIISTTATIGEHALII-VDSLANQRFTFLSKKVNCDIAIDMKFIYYYCFILGQWCKQ 120

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
               +  +  D K      +PIPPL  Q  I   +         L +     IE  K++ 
Sbjct: 121 NTNVSGFASVDMKAFKQFQIPIPPLEVQEKIVRILDQFHALTTDLTSGIPAEIEARKKQY 180

Query: 200 QALVSYIVTK 209
           +   + ++T 
Sbjct: 181 EYYRNQLLTF 190



 Score = 60.2 bits (144), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 18/173 (10%), Positives = 47/173 (27%), Gaps = 8/173 (4%)

Query: 247 KNTKLIESNILSLSYGNIIQKL---ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKR 303
                    I      +I             + P++ +  ++     I+        +  
Sbjct: 18  NKEFWEGGTIPWFRMDDIRTNGRILSDSLQHITPKALKGGKLFPKNSIIISTTATIGEHA 77

Query: 304 SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVK 363
            +    +  +     +        ID  ++ +                    S+  +  K
Sbjct: 78  LIIVDSLANQRFTFLSKKVNCDIAIDMKFIYYYC-FILGQWCKQNTNVSGFASVDMKAFK 136

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           +  + +PP++ Q  I  +++   A    L   I   I   K+     R+  + 
Sbjct: 137 QFQIPIPPLEVQEKIVRILDQFHALTTDLTSGIPAEIEARKKQYEYYRNQLLT 189


>gi|303262770|ref|ZP_07348708.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP14-BS292]
 gi|303265059|ref|ZP_07350973.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae BS397]
 gi|303267631|ref|ZP_07353469.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae BS457]
 gi|302636092|gb|EFL66589.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP14-BS292]
 gi|302642830|gb|EFL73139.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae BS457]
 gi|302645419|gb|EFL75652.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae BS397]
          Length = 337

 Score = 61.3 bits (147), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 32/345 (9%), Positives = 93/345 (26%), Gaps = 27/345 (7%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V +     L  G+ +    +   +    ++    +       +   + +         
Sbjct: 2   KKVKLGEVLSLKKGKKATVLAEQTTLSQRYIQIDDLRNNNNLKFTESLNMTEAL---PDD 58

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW--LLSIDVTQRIEAICEG 143
           IL    G             + ST  ++ + +    +++  +  +     +Q +     G
Sbjct: 59  ILIAWDGANAGTVGYGLSGAVGSTITVLKKNERYKEKIISDYLGVFLESKSQYLRDHSTG 118

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           AT+ H +   + ++ + +  + EQ  I   +      I     +                
Sbjct: 119 ATIPHLNKNILLDLQLELLGIEEQENIICILNTIKRLITKRKFQLDELNL---------- 168

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
                  L      +  G   +    D+              + +    E   L L+  N
Sbjct: 169 -------LVKSRFNEMFGENKIFESIDNLFDIIDGDRGKNYPKSDELFSEEYCLFLNTKN 221

Query: 264 IIQKLETRN----MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
           + +   + +    +    +       ++  +IV        +          +   I S 
Sbjct: 222 VTKNGFSFDTKQFITKTKDKLLRKGKLERYDIVLTTRGTVGNVAYYDELIKYKHLRINSG 281

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKR 364
            + ++P   +     +++           +    +  L    +K+
Sbjct: 282 MVILRPKTPNLNQ-KFIIHVLRNNNYSRVISGSAQPQLPITKLKK 325


>gi|332673407|gb|AEE70224.1| type I restriction modification DNA specificity family protein
           [Helicobacter pylori 83]
          Length = 201

 Score = 61.3 bits (147), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 16/124 (12%), Positives = 46/124 (37%), Gaps = 5/124 (4%)

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID-STYLAWLMRSYDLCKVFYAMGSG 352
             I +     +       ++        +V P     + YL +++ +        +  S 
Sbjct: 65  NTITIAQYGTAGFVNWQNQKFWANDVCFSVIPKETLINRYLYYVLTNMQNYLYSISNRSA 124

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRS 408
           +  S+   ++ ++ + +PP++ Q +I  +++  +     L+  I   I   K+     R 
Sbjct: 125 IPYSISSNNIMQIKIPIPPLEIQQEIVKILDQFSILTTDLLAGIPAEIEARKKQYEYYRE 184

Query: 409 SFIA 412
             ++
Sbjct: 185 KLLS 188



 Score = 49.4 bits (116), Expect = 0.001,   Method: Composition-based stats.
 Identities = 23/156 (14%), Positives = 42/156 (26%), Gaps = 11/156 (7%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           PK  +   +    ++  G+     + +            GKY    G             
Sbjct: 13  PKGVEFRKLGEVCEIIRGKRVTKKEIL----------DKGKYPVVSGGIGFMGYLNEYNR 62

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            +  I   + G         +     +     + PK+ L      ++L+           
Sbjct: 63  EENTITIAQYGT-AGFVNWQNQKFWANDVCFSVIPKETLINRYLYYVLTNMQNYLYSISN 121

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
             A         I  I +PIPPL  Q  I + +   
Sbjct: 122 RSAIPYSISSNNIMQIKIPIPPLEIQQEIVKILDQF 157


>gi|210134632|ref|YP_002301071.1| type I R-M system S protein [Helicobacter pylori P12]
 gi|210132600|gb|ACJ07591.1| type I R-M system S protein [Helicobacter pylori P12]
          Length = 393

 Score = 61.3 bits (147), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 54/387 (13%), Positives = 119/387 (30%), Gaps = 38/387 (9%)

Query: 43  ESGKDIIYIGLEDVESGTGK-YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIA 101
           ++ K + Y+  +++ +     +L  D    +  +      +   I+Y  + P  R   I 
Sbjct: 24  DNYKKVYYLDTDNITNNRINAFLKIDLTKEKLPSRAKRKCSINSIIYSSVRPNQRHFGII 83

Query: 102 DF---DGICSTQFLVLQP---KDVLPELLQGWLLSIDVTQRIEAI--CEGATMSHADWKG 153
                + + ST F+V+     K + P  L  ++    +T  ++ I  C  ++        
Sbjct: 84  KEIPKNFLVSTAFIVIDVIDLKKLDPNYLYYYITQDKITHYLQRIAECGTSSYPSITPLD 143

Query: 154 IGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNP 213
             NI + + PL  Q  I   +     +I+          ++L+   +           N 
Sbjct: 144 FLNIKVKLYPLETQQKIARTLSILDQKIENNHKINELLHKILELLYEQYFVRFDFLDENN 203

Query: 214 DVKMKDSGI-----EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKL 268
                  G      E   L+P+ +EVK    L             S+     +       
Sbjct: 204 KPYQTSGGKMKFSKELNRLIPNDFEVKTLGELTQLKVGNKNANHSSDQGKYPFFTCSNN- 262

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
               +  +   +E   I+  G              +        +         V P+  
Sbjct: 263 ---PLKCETYQFEGKHIIISGN------------GNFYVTHYDGKFDAYQRTYVVNPNNP 307

Query: 329 DSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
           +   L +L        +       + + +   D++ + +++P +K      NV+      
Sbjct: 308 NHYVLIYLFVKSYTNYLKLQSRGSIIKFITKSDIENIKIVLPNLKTYTKWNNVL------ 361

Query: 389 IDVLVEKIEQSIVLLKERRSSFIAAAV 415
              ++E   QS   L   R   +   +
Sbjct: 362 --KIIENNNQSTQTLTAFRDFLLPLLL 386



 Score = 53.6 bits (127), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 24/178 (13%), Positives = 69/178 (38%), Gaps = 13/178 (7%)

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID 297
                E N K    ++++ ++ +  N   K++     L   +     I     I++  + 
Sbjct: 18  NNYTKEDNYKKVYYLDTDNITNNRINAFLKIDLTKEKLPSRAKRKCSI---NSIIYSSVR 74

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKP---HGIDSTYLAWLMRSYDLCKVFYAM---GS 351
                  +   ++ +  ++++A++ +       +D  YL + +    +      +   G+
Sbjct: 75  PNQRHFGIIK-EIPKNFLVSTAFIVIDVIDLKKLDPNYLYYYITQDKITHYLQRIAECGT 133

Query: 352 GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID---VLVEKIEQSIVLLKER 406
               S+   D   + V + P++ Q  I   +++   +I+    + E + + + LL E+
Sbjct: 134 SSYPSITPLDFLNIKVKLYPLETQQKIARTLSILDQKIENNHKINELLHKILELLYEQ 191


>gi|52549370|gb|AAU83219.1| putative restriction modification enzyme S subunit [uncultured
           archaeon GZfos27A8]
          Length = 117

 Score = 61.3 bits (147), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 17/73 (23%), Positives = 29/73 (39%), Gaps = 2/73 (2%)

Query: 329 DSTYLAWLMRSYDLC--KVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
           +  Y+   +RS       +    G+  ++ +  +     P   P  +EQ  I   ++   
Sbjct: 27  NPDYVLLYLRSPQFLTEGIKRMAGTAGQKRVPRDYFAGSPFPFPSFQEQHRIVTKVDQLM 86

Query: 387 ARIDVLVEKIEQS 399
           A  D L  KIEQS
Sbjct: 87  ALCDELEAKIEQS 99


>gi|207108191|ref|ZP_03242353.1| type I R-M system specificity subunit [Helicobacter pylori
           HPKX_438_CA4C1]
          Length = 151

 Score = 61.3 bits (147), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 17/126 (13%), Positives = 43/126 (34%), Gaps = 10/126 (7%)

Query: 297 DLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS 356
           +       +R A   ++       +  +     +  L   ++S+       +        
Sbjct: 32  NPFGFAPYIRKAYEHKKEFSNHHQI--ESFFSSNHILTMFLQSHIQTNRNESNT----PY 85

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           +    +K   +L+PP+ EQ  I N+++     I  L  K  Q     +  + +     ++
Sbjct: 86  IVMATLKDFEILLPPLNEQIAIANILSGLDHEIISLKNKKRQ----FENIKKALNHDLMS 141

Query: 417 GQIDLR 422
            +I + 
Sbjct: 142 AKIRVT 147


>gi|254367478|ref|ZP_04983504.1| type I restriction-modification system, subunit R [Francisella
           tularensis subsp. holarctica 257]
 gi|134253294|gb|EBA52388.1| type I restriction-modification system, subunit R [Francisella
           tularensis subsp. holarctica 257]
          Length = 225

 Score = 61.0 bits (146), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 9/61 (14%), Positives = 22/61 (36%)

Query: 346 FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
              +     + +     + + + +PP+ EQ  I   +      +D  +E  +Q+I     
Sbjct: 1   MNNLHGVGMKHITKGKFENIQIPLPPLAEQKCIVAKLYSLFENVDKAIELHQQNITNANT 60

Query: 406 R 406
            
Sbjct: 61  L 61



 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 37/240 (15%), Positives = 70/240 (29%), Gaps = 17/240 (7%)

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
                G  M H       NI +P+PPLAEQ  I  K+ +    +D  I    + I     
Sbjct: 1   MNNLHGVGMKHITKGKFENIQIPLPPLAEQKCIVAKLYSLFENVDKAIELHQQNITNANT 60

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
              + +     K      K+    +  +               +   + +    +    +
Sbjct: 61  LMASTLDKTFKKLEGEYSKIALLDVMKI-----------SNKTLVPDDNQKYNYVGLENI 109

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
             + G +I   ET+   +K    E       G +++  +    +K        +    I 
Sbjct: 110 EGNTGRLIDFCETQGKEIKSSKVE----FKKGIVLYGKLRPYLNKVWFSEFDDVATTEIL 165

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVK--RLPVLVPPIKEQ 375
             Y              + + S  L +V           L    +K     + +PP+  Q
Sbjct: 166 PFYPIDNTRLNMIFVKYYFLSSSYLQRVMRNYSGSRIPRLTTAFLKSEEAYIPLPPLPIQ 225



 Score = 47.9 bits (112), Expect = 0.003,   Method: Composition-based stats.
 Identities = 32/125 (25%), Positives = 56/125 (44%), Gaps = 4/125 (3%)

Query: 30  IKRFTKLNTGR-TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
           +    K++      +  +   Y+GLE++E  TG+ +       +   S+   F KG +LY
Sbjct: 82  LLDVMKISNKTLVPDDNQKYNYVGLENIEGNTGRLIDFCETQGKEIKSSKVEFKKGIVLY 141

Query: 89  GKLGPYLRKAIIADFDGICSTQFLVLQPKDV---LPELLQGWLLSIDVTQRIEAICEGAT 145
           GKL PYL K   ++FD + +T+ L   P D        ++ + LS    QR+     G+ 
Sbjct: 142 GKLRPYLNKVWFSEFDDVATTEILPFYPIDNTRLNMIFVKYYFLSSSYLQRVMRNYSGSR 201

Query: 146 MSHAD 150
           +    
Sbjct: 202 IPRLT 206


>gi|315638642|ref|ZP_07893816.1| type I restriction/modification enzyme [Campylobacter upsaliensis
            JV21]
 gi|315481266|gb|EFU71896.1| type I restriction/modification enzyme [Campylobacter upsaliensis
            JV21]
          Length = 1191

 Score = 61.0 bits (146), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 23/162 (14%), Positives = 52/162 (32%), Gaps = 7/162 (4%)

Query: 253  ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
            E       Y  +           +        IV   +I+         K +L   +   
Sbjct: 1024 EHIDNKSGYVKMQTPKYVPMEFYEDFKKADKGIVRKNDILLCKDGALTGKVALVRDEFEN 1083

Query: 313  R--GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLV 369
            +   I    ++    +     +L +++ S     +  +  +G  +  L   ++K + +  
Sbjct: 1084 QSVMINEHIFLLRCQNSTTQKFLFFILHSQSGQSILKSKVTGSAQGGLSLSNLKDMKIPK 1143

Query: 370  PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
            P IK Q  I +    E  +++     I  SI   +E   + +
Sbjct: 1144 PDIKIQKQIVS----ECEKVEEQYNTIRMSIEKYQELIRAIL 1181


>gi|148927793|ref|ZP_01811221.1| restriction modification system DNA specificity domain [candidate
           division TM7 genomosp. GTL1]
 gi|147886858|gb|EDK72400.1| restriction modification system DNA specificity domain [candidate
           division TM7 genomosp. GTL1]
          Length = 413

 Score = 61.0 bits (146), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 17/120 (14%), Positives = 37/120 (30%), Gaps = 5/120 (4%)

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
           +  + Y +     ++        D    ++  V  +  + +    +     ++ Y+ + +
Sbjct: 48  DEIDNYLLDGEFVLLGEDGAPFLDPYKSKAYLVQGKIWVNNHAHILL--ARNNKYVKYAL 105

Query: 338 RSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
              D            R  L    +KR+ +  P   EQ  I   I    + ID     I 
Sbjct: 106 NYVDYQSYV---TGTTRLKLNQSALKRIIIPFPDENEQKRIVAKIEELFSEIDNAESAIT 162


>gi|71900227|ref|ZP_00682365.1| similar to Restriction endonuclease S subunits [Xylella fastidiosa
           Ann-1]
 gi|71730000|gb|EAO32093.1| similar to Restriction endonuclease S subunits [Xylella fastidiosa
           Ann-1]
          Length = 320

 Score = 61.0 bits (146), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 41/329 (12%), Positives = 98/329 (29%), Gaps = 27/329 (8%)

Query: 101 ADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMP 160
                +     +     +V  +     L  +++ Q                + I  + +P
Sbjct: 5   HGKFFVTDNAVICDSKVEVDIDWAFHLLSVMNLNQYAMKS----AQPVLAVRTIEQVKVP 60

Query: 161 IPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ-ALVSYIVTKGLN--PDVKM 217
           +PPL  Q  I + +   T     L   R ++        +    +     G +     + 
Sbjct: 61  LPPLEVQRQIAKVLDTFTTLEAELEARRRQYQYYRDALLRFGGSTDASGNGEDGAERNQW 120

Query: 218 KDSGIEWVGL-----VPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
           K +GI W+        P+  E K    L+         +  +   +  +  ++   +T  
Sbjct: 121 KPTGINWIDELIAALCPEGVEFKMLGELLDYEQPGKYLVASTAYDNSYWTPVLTAGQTFI 180

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
           +G   E+   Y       ++       +   + +      +   ++  M     G   + 
Sbjct: 181 LGYTDETSGIYAASPQEPVII----FDDFTTAFKWVDFPFKAKSSAMKMLTLKAGALDSL 236

Query: 333 LAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
                    +  + Y      RQ +      +  + VPP++ Q  I  V++     ++ +
Sbjct: 237 RYVFF---AMQMIAYTPQDHARQWI--GTYSKFLIPVPPLEVQARIVAVLDQFDTLVNDI 291

Query: 393 VEKIEQSIVLLKE----RRSSFIA--AAV 415
              +   I   ++     R   +    AV
Sbjct: 292 TAGLPAEIAARRQQYAYYRDRLLTFKEAV 320


>gi|256854685|ref|ZP_05560049.1| predicted protein [Enterococcus faecalis T8]
 gi|256710245|gb|EEU25289.1| predicted protein [Enterococcus faecalis T8]
          Length = 187

 Score = 61.0 bits (146), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 30/165 (18%), Positives = 54/165 (32%), Gaps = 8/165 (4%)

Query: 231 HWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGE 290
                   A   E + KN  L  ++I   S   I  KL + N+ +      +  I+  G+
Sbjct: 30  DHFEYGLNASAIEYDGKNKYLRITDIDDSSRKFIQNKLTSPNINV---EEASNYILTVGD 86

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG 350
           I+F        K      +  +         A      DS ++ W   +         M 
Sbjct: 87  ILFVRTGASVGKTYRYDIKDGKVYFAGFLIRARIKDSFDSEFVYWTTLTDRYNTFIKIMS 146

Query: 351 S-GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
               +  +  ++     +L+P IKEQ  I   +     +ID  + 
Sbjct: 147 QRSGQPGINAKEYSSFNILIPNIKEQQKIGAFL----KKIDDTIA 187



 Score = 57.9 bits (138), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 23/169 (13%), Positives = 51/169 (30%), Gaps = 10/169 (5%)

Query: 23  KHWKVVPIKRFTKLN----TGRTSESGKDIIYIGLEDVESGTGKYLPKDGNS--RQSDTS 76
           + W++  +                E      Y+ + D++  + K++     S     + +
Sbjct: 18  EDWELCKLGDVADHFEYGLNASAIEYDGKNKYLRITDIDDSSRKFIQNKLTSPNINVEEA 77

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFD----GICSTQFLVLQPKDVLPELLQGWLLSID 132
           +  I   G IL+ + G  + K    D                       E +    L+  
Sbjct: 78  SNYILTVGDILFVRTGASVGKTYRYDIKDGKVYFAGFLIRARIKDSFDSEFVYWTTLTDR 137

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
               I+ + + +     + K   +  + IP + EQ  I   +      I
Sbjct: 138 YNTFIKIMSQRSGQPGINAKEYSSFNILIPNIKEQQKIGAFLKKIDDTI 186


>gi|224437133|ref|ZP_03658114.1| putative Type I restriction enzyme EcoR124II specificity protein
           [Helicobacter cinaedi CCUG 18818]
          Length = 270

 Score = 61.0 bits (146), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 19/179 (10%), Positives = 53/179 (29%), Gaps = 13/179 (7%)

Query: 228 VPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY------- 280
            P  W+      +   +        E          +     T N   +           
Sbjct: 78  PPQGWDTIKLGQVCEIIRGITYDKTEQTTEKTQNIVLTADNITLNNTFELSKMIYLKQDF 137

Query: 281 --ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
             +  +I+   +I   F           +    +       +M +     ++ ++ + + 
Sbjct: 138 IGDKNKILRKNDIFMCFSSGSLKHIGKVAFIDKDTEYYAGGFMGILRSRFNAKFVFYTIA 197

Query: 339 SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
           + D  +      +G   +     +  L + +PP++ Q  I +V+     +I+  +  +E
Sbjct: 198 NDDFKQKLENSATGSNINNLSGKINDLKIPLPPLEAQEKIISVVE----KIESTISLLE 252



 Score = 50.9 bits (120), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 25/171 (14%), Positives = 59/171 (34%), Gaps = 12/171 (7%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVE-SGTGKYLPKDGNSRQSD 74
           P+ W  + + +  ++  G T +  +        I +  +++  + T +        +   
Sbjct: 79  PQGWDTIKLGQVCEIIRGITYDKTEQTTEKTQNIVLTADNITLNNTFELSKMIYLKQDFI 138

Query: 75  TSTVSIFAKGQILYG----KLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
                I  K  I        L    + A I       +  F+ +       + +   + +
Sbjct: 139 GDKNKILRKNDIFMCFSSGSLKHIGKVAFIDKDTEYYAGGFMGILRSRFNAKFVFYTIAN 198

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
            D  Q++E    G+ +++     I ++ +P+PPL  Q  I   +      I
Sbjct: 199 DDFKQKLENSATGSNINNLS-GKINDLKIPLPPLEAQEKIISVVEKIESTI 248


>gi|317131477|ref|YP_004090791.1| restriction modification system, type I [Ethanoligenens harbinense
           YUAN-3]
 gi|315469456|gb|ADU26060.1| restriction modification system, type I [Ethanoligenens harbinense
           YUAN-3]
          Length = 193

 Score = 61.0 bits (146), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 28/192 (14%), Positives = 65/192 (33%), Gaps = 19/192 (9%)

Query: 242 TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYE-----TYQIVDPGEIVFRFI 296
              N K    ++S +  +S GN ++ L    +     + E     +  +V  G+I+F   
Sbjct: 4   FGSNIKVETFVDSGVPIIS-GNHLRGLYLDELEYNFITEEHARRLSNSLVRAGDIIFTHA 62

Query: 297 DLQNDKRSLRSAQVMERGIITS--AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GL 353
                   +         +I+    Y+          Y+ +   S        A  S   
Sbjct: 63  GNIGQVALIPDNCDYPYYVISQRQFYLRCDKKKALPEYINYFFHSRVGQGKLLANASQTG 122

Query: 354 RQSL--KFEDVKRLPVLVPPIKEQFDITNVIN--VETARIDVLVEKIEQSIVLLKERRSS 409
             S+      +K + V++PPI+ Q      ++       +  ++    +    L   R+ 
Sbjct: 123 VPSIARPSSHLKGISVVLPPIEVQ------LDWFETVRPMLQILNGNNKENKRLVSLRNM 176

Query: 410 FIAAAVTGQIDL 421
            +   ++G++ +
Sbjct: 177 LLPRLMSGELSV 188


>gi|227892232|ref|ZP_04010037.1| possible restriction modification system DNA specificity protein
           [Lactobacillus salivarius ATCC 11741]
 gi|227865954|gb|EEJ73375.1| possible restriction modification system DNA specificity protein
           [Lactobacillus salivarius ATCC 11741]
          Length = 380

 Score = 61.0 bits (146), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 50/385 (12%), Positives = 115/385 (29%), Gaps = 33/385 (8%)

Query: 38  TGRTSESGKDIIYIGLEDVESGTGKYLP-KDGNSRQSDTSTVSIFAKGQILYGKLGPYLR 96
             +          I   ++      +      +  + D S      +G IL  K G   +
Sbjct: 22  KKKEYLQEGSYRIINGSNIVDNKIDWSNCGYISKERYDESEEIKLKEGDILITKDGTIGK 81

Query: 97  KAIIAD---FDGICSTQFLVLQP--KDVLPELLQGWLLSIDVTQRIEAICEGATMSHADW 151
            A++        + S  F++     K      L  +L S    + I +   G+ + H   
Sbjct: 82  VAMVNKLDKPSTVASGLFILRNINLKKWDTLYLFYYLQSFKFKEFIYSRTSGSVIPHLYQ 141

Query: 152 KGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGL 211
           +    + +P   L +Q  I +KI +   +ID         +EL  E   + +++   + L
Sbjct: 142 RDFEELMIPELSLKQQKQISQKIHSIQQKIDLNNKINTNLLELGLELI-SNINFENYQSL 200

Query: 212 NPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETR 271
           N  V++KD                      +               ++   ++       
Sbjct: 201 NKIVEVKD-------------------GTHSSPASTLNGYPLVTSKAIKGTSVDFSQTKN 241

Query: 272 NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST 331
                        +V+  +I+   I        L +   ++  I     +      + S 
Sbjct: 242 ISEADFTEINKRSLVEYHDILISMIGTVGIVH-LVTENPVKYAIKNVGLIKSSDKKLLSP 300

Query: 332 YLAWLMRSYDLCKVFYAM-GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
           +L   + SY              +Q +   +++++P+ +       DI   +  +   I 
Sbjct: 301 FLYLYLLSYYGQTYIRKHLSGSTQQFISLTNLRKMPIPISS-----DIPAKLIEKLNTIV 355

Query: 391 VLVEKIEQSIVLLKERRSSFIAAAV 415
           + +E        L   ++  +    
Sbjct: 356 LQIEHNSNENNTLNSIKNVLLEKYF 380



 Score = 60.6 bits (145), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 27/170 (15%), Positives = 60/170 (35%), Gaps = 6/170 (3%)

Query: 239 ALVTELNRKNTKLIESNILSLSYGNII-QKLETRNMGLKPE---SYETYQIVDPGEIVFR 294
            +  +  +K   L E +   ++  NI+  K++  N G   +          +  G+I+  
Sbjct: 15  RIGWKGLKKKEYLQEGSYRIINGSNIVDNKIDWSNCGYISKERYDESEEIKLKEGDILIT 74

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKP-HGIDSTYLAWLMRSYDLCKVFYAMGSG- 352
                     +               +        D+ YL + ++S+   +  Y+  SG 
Sbjct: 75  KDGTIGKVAMVNKLDKPSTVASGLFILRNINLKKWDTLYLFYYLQSFKFKEFIYSRTSGS 134

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
           +   L   D + L +    +K+Q  I+  I+    +ID+  +     + L
Sbjct: 135 VIPHLYQRDFEELMIPELSLKQQKQISQKIHSIQQKIDLNNKINTNLLEL 184


>gi|167010574|ref|ZP_02275505.1| restriction modification system DNA specificity subunit
           [Francisella tularensis subsp. holarctica FSC200]
          Length = 222

 Score = 61.0 bits (146), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 9/54 (16%), Positives = 21/54 (38%)

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
             + +     + + + +PP+ EQ  I   +      +D  +E  +Q+I      
Sbjct: 5   GMKHITKGKFENIQIPLPPLAEQKCIVAKLYSLFENVDKAIELHQQNITNANTL 58



 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 37/237 (15%), Positives = 70/237 (29%), Gaps = 17/237 (7%)

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
             G  M H       NI +P+PPLAEQ  I  K+ +    +D  I    + I        
Sbjct: 1   MHGVGMKHITKGKFENIQIPLPPLAEQKCIVAKLYSLFENVDKAIELHQQNITNANTLMA 60

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
           + +     K      K+    +  +               +   + +    +    +  +
Sbjct: 61  STLDKTFKKLEGEYSKIALLDVMKI-----------SNKTLVPDDNQKYNYVGLENIEGN 109

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
            G +I   ET+   +K    E       G +++  +    +K        +    I   Y
Sbjct: 110 TGRLIDFCETQGKEIKSSKVE----FKKGIVLYGKLRPYLNKVWFSEFDDVATTEILPFY 165

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVK--RLPVLVPPIKEQ 375
                         + + S  L +V           L    +K     + +PP+  Q
Sbjct: 166 PIDNTRLNMIFVKYYFLSSSYLQRVMRNYSGSRIPRLTTAFLKSEEAYIPLPPLPIQ 222



 Score = 47.9 bits (112), Expect = 0.003,   Method: Composition-based stats.
 Identities = 32/125 (25%), Positives = 56/125 (44%), Gaps = 4/125 (3%)

Query: 30  IKRFTKLNTGR-TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
           +    K++      +  +   Y+GLE++E  TG+ +       +   S+   F KG +LY
Sbjct: 79  LLDVMKISNKTLVPDDNQKYNYVGLENIEGNTGRLIDFCETQGKEIKSSKVEFKKGIVLY 138

Query: 89  GKLGPYLRKAIIADFDGICSTQFLVLQPKDV---LPELLQGWLLSIDVTQRIEAICEGAT 145
           GKL PYL K   ++FD + +T+ L   P D        ++ + LS    QR+     G+ 
Sbjct: 139 GKLRPYLNKVWFSEFDDVATTEILPFYPIDNTRLNMIFVKYYFLSSSYLQRVMRNYSGSR 198

Query: 146 MSHAD 150
           +    
Sbjct: 199 IPRLT 203


>gi|160914092|ref|ZP_02076318.1| hypothetical protein EUBDOL_00104 [Eubacterium dolichum DSM 3991]
 gi|158434014|gb|EDP12303.1| hypothetical protein EUBDOL_00104 [Eubacterium dolichum DSM 3991]
          Length = 169

 Score = 61.0 bits (146), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 27/162 (16%), Positives = 55/162 (33%), Gaps = 6/162 (3%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDI----IYIGLEDVESGTGKYLPKDGNSRQSDT 75
            IP +W+ V I    +   G+T    KDI     Y+   +++S                 
Sbjct: 4   EIPDNWEWVHINDIAESYLGKTLNKTKDIGESVPYLCSINIQSDYIDMNTIKIAKFNEAE 63

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFL--VLQPKDVLPELLQGWLLSIDV 133
               +   G +L  + G   R A+      +     L  V   + + P   Q  L    V
Sbjct: 64  KQKYLLQDGDLLICEGGDAGRSAVWNKNKTMYYQNALHRVRFYEKLNPVFYQRVLSFYKV 123

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKII 175
           ++ ++   +G T+ H       ++    P    +++   ++ 
Sbjct: 124 SKILDNYFKGVTIKHFVQNHYFHLFSLPPLRTHRIVANFRLN 165


>gi|218281984|ref|ZP_03488302.1| hypothetical protein EUBIFOR_00871 [Eubacterium biforme DSM 3989]
 gi|218217040|gb|EEC90578.1| hypothetical protein EUBIFOR_00871 [Eubacterium biforme DSM 3989]
          Length = 386

 Score = 61.0 bits (146), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 30/196 (15%), Positives = 71/196 (36%), Gaps = 13/196 (6%)

Query: 222 IEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS-YGNIIQKLETRNMGLKPESY 280
           +  +    + ++    +   T + RKN   + +  L++S    ++ ++   N  +  +  
Sbjct: 14  VPNLRFNNNPYKKYNLYEFATRVTRKNKDNVSNLPLTISAQYGLVDQVSFFNKTVASKDM 73

Query: 281 ETYQIVDPGEIVFRF-IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI--DSTYLAWLM 337
             Y ++  GE  +           +++   +   G +++ Y+  K +    +S YL    
Sbjct: 74  SGYYLLKNGEFAYNKSYSNDYPWGAIKRLDLYNMGCLSTLYICFKSNDNIVNSNYLVHYF 133

Query: 338 RSYDLCKVFYAMGS-GLRQ----SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            S    K    +   G R     ++   D       VP I+ Q  I   +++   RI   
Sbjct: 134 ESPKWHKQVADIAGEGARNHGLLNIAVNDFFNTKHAVPTIENQIKIARFLDLIEERIQTQ 193

Query: 393 VEKIEQSIVLLKERRS 408
           ++     I  L  ++ 
Sbjct: 194 IKI----IDTLSSQKK 205



 Score = 59.0 bits (141), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 41/397 (10%), Positives = 94/397 (23%), Gaps = 51/397 (12%)

Query: 30  IKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYG 89
           +  F    T +  ++  ++  + +        +    +      D S   +   G+  Y 
Sbjct: 29  LYEFATRVTRKNKDNVSNLP-LTISAQYGLVDQVSFFNKTVASKDMSGYYLLKNGEFAYN 87

Query: 90  KLGPYLRKAIIAD-----FDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC--- 141
           K                   G  ST ++  +  D +                 +      
Sbjct: 88  KSYSNDYPWGAIKRLDLYNMGCLSTLYICFKSNDNIVNSNYLVHYFESPKWHKQVADIAG 147

Query: 142 ---EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
                  + +       N    +P +  Q+ I   +     RI T I          K+ 
Sbjct: 148 EGARNHGLLNIAVNDFFNTKHAVPTIENQIKIARFLDLIEERIQTQIKIIDTLSSQKKQI 207

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
           +  L   I                        H              +    ++ S    
Sbjct: 208 RNLLFKDI------------------------HKNANCCIQDYVIYEQPQKYIVHSTDYL 243

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
               +    L      +   + E   I + G+ +        +K      +V    +   
Sbjct: 244 SYGKDYTPVLTANQSFILGYTLEKDGIYEKGDCIIFDDFTNENKYVDFPFKVKSSAL--- 300

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
                    I  T    +++ +     F    S   +     +V    + VP +KEQ   
Sbjct: 301 --------KILQTKEGLMLKFFYEYLQFLNFESTDHKRHYLSEVAVTDISVPNLKEQT-- 350

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
              +       D  +   +  +   + ++   +    
Sbjct: 351 --FVCKIFTSFDNKLRNEKALLEKYRLQKQFLLNNLF 385


>gi|125973659|ref|YP_001037569.1| restriction modification system DNA specificity subunit
           [Clostridium thermocellum ATCC 27405]
 gi|125713884|gb|ABN52376.1| restriction modification system DNA specificity domain [Clostridium
           thermocellum ATCC 27405]
          Length = 473

 Score = 61.0 bits (146), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 52/389 (13%), Positives = 112/389 (28%), Gaps = 31/389 (7%)

Query: 44  SGKDIIYIGLEDVESGTGKYLPK-DGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD 102
             +      ++++             ++++      S    G +L  K G     A++  
Sbjct: 73  KEQGFPVYRVKNIIDTQILDDDIVYIDAKKQQQLKRSEVLPGDVLITKAGRIGSAAVVPS 132

Query: 103 FDG---ICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPM 159
             G   I S   LV   K +    L  +L               +T        IGN+ +
Sbjct: 133 KFGNGNITSHLVLVRLKKTINNYYLVAYLECKYGKVITGRESYKSTRPELTKNEIGNVII 192

Query: 160 PIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ---------ALVSYIVTKG 210
           PIP    Q  I +K+       +     +      L E  Q          + S++ +  
Sbjct: 193 PIPSPEIQKYIGDKVRKAEELREEAKRLKKEAETFLYEMIQLKPLNDFDKDMFSFVNSNY 252

Query: 211 LN------PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
           ++         K K   +E +         K                    I  +   N+
Sbjct: 253 IDSERLDSEYYKTKYITLEKLLKSKKVTSFKDIIIESKYGASVPADYTMVGIPFIRGNNL 312

Query: 265 IQK----LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
                   +   +  K +       V+ G+I+            +               
Sbjct: 313 TDNEINIDDIVYLNKKLKDEVKDHHVNTGDILITRSGTVGISAVVDEKCDGFSFGSFMIK 372

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDIT 379
           + +     +  Y+A  + S+        + +G  +Q++  +++ R+ + +   + Q  I 
Sbjct: 373 LRIDMRIWNPYYIAAFLNSFWGKWQIERLQNGAVQQNINLQEIGRIIIPIISKENQDKI- 431

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRS 408
                    I   + K  QS  L++E + 
Sbjct: 432 ------EELIKNYINKKRQSKQLIQEAKQ 454



 Score = 46.3 bits (108), Expect = 0.010,   Method: Composition-based stats.
 Identities = 33/184 (17%), Positives = 61/184 (33%), Gaps = 16/184 (8%)

Query: 26  KVVPIKRFT-KLNTGRTSESGK---DIIYIGLEDVESGTGKYLPK-DGNSRQSDTSTVSI 80
           KV   K    +   G +  +      I +I   ++             N +  D      
Sbjct: 278 KVTSFKDIIIESKYGASVPADYTMVGIPFIRGNNLTDNEINIDDIVYLNKKLKDEVKDHH 337

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLV----LQPKDVLPELLQGWLLSIDVTQR 136
              G IL  + G     A++ +     S    +    +  +   P  +  +L S     +
Sbjct: 338 VNTGDILITRSGTVGISAVVDEKCDGFSFGSFMIKLRIDMRIWNPYYIAAFLNSFWGKWQ 397

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           IE +  GA   + + + IG I +PI     Q             I   I ++ +  +L++
Sbjct: 398 IERLQNGAVQQNINLQEIGRIIIPIISKENQ-------DKIEELIKNYINKKRQSKQLIQ 450

Query: 197 EKKQ 200
           E KQ
Sbjct: 451 EAKQ 454


>gi|325912539|ref|ZP_08174927.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus iners UPII 60-B]
 gi|325478160|gb|EGC81284.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus iners UPII 60-B]
          Length = 174

 Score = 61.0 bits (146), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 22/176 (12%), Positives = 55/176 (31%), Gaps = 6/176 (3%)

Query: 217 MKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK 276
           M +  I  +G +              E     T    +      +         RN+  +
Sbjct: 1   MTNWKICTIGDLGMVIGGATPSTKAAENYDGGTIAWITPKDLAGFSGRFISYGERNITKQ 60

Query: 277 PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWL 336
                + +++    ++F              A   +       + +V P+        + 
Sbjct: 61  GLKSCSAKLMPKHTVLFSSRAPIGY-----IAIANQELCTNQGFKSVVPNDDTDYKFLYY 115

Query: 337 MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-PIKEQFDITNVINVETARIDV 391
           +  Y+  K+         + +    ++ + V VP  I+EQ  I +V+++   +I+ 
Sbjct: 116 LLKYNKNKIENLGSGTTFKEVSGSTMRDIEVSVPTSIEEQRKIASVLSLLDDKIEK 171



 Score = 54.0 bits (128), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 29/172 (16%), Positives = 63/172 (36%), Gaps = 13/172 (7%)

Query: 24  HWKVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVESGTGKYL---PKDGNSRQS 73
           +WK+  I     +  G T  +       G  I +I  +D+   +G+++    ++   +  
Sbjct: 3   NWKICTIGDLGMVIGGATPSTKAAENYDGGTIAWITPKDLAGFSGRFISYGERNITKQGL 62

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
            + +  +  K  +L+    P      IA+ +   +  F  + P D        + L    
Sbjct: 63  KSCSAKLMPKHTVLFSSRAPI-GYIAIANQELCTNQGFKSVVPNDDTD-YKFLYYLLKYN 120

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPP-LAEQVLIREKIIAETVRIDTL 184
             +IE +  G T        + +I + +P  + EQ  I   +     +I+  
Sbjct: 121 KNKIENLGSGTTFKEVSGSTMRDIEVSVPTSIEEQRKIASVLSLLDDKIEKN 172


>gi|161528118|ref|YP_001581944.1| restriction modification system DNA specificity subunit
           [Nitrosopumilus maritimus SCM1]
 gi|160339419|gb|ABX12506.1| restriction modification system DNA specificity domain
           [Nitrosopumilus maritimus SCM1]
          Length = 730

 Score = 61.0 bits (146), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 33/248 (13%), Positives = 84/248 (33%), Gaps = 14/248 (5%)

Query: 170 IREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVP 229
             + +  +   I    ++  + +E   +  Q        + LN D+++ ++  +    + 
Sbjct: 477 YAKNLGYDKQGILAKESDFSKILEDFNKFLQTNKGSKFDQNLNSDLRLDENYFQNTSDLG 536

Query: 230 DHWEVKPFFALVTELNR-KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYE---TYQI 285
           +   +     +       KN+KL +     L  G  I+  E           E      +
Sbjct: 537 NQTNMCMLKDIADITIGVKNSKLKKDTKYLLVKGQQIKDFEVDLSNASEVGVEFSIEKYL 596

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH--GIDSTYLAWLMRSYDLC 343
           +  G+I         +             I +   + ++ +   I S YLA  + S    
Sbjct: 597 LQKGDIAITRSGTVGNVGLC---NKDANVIFSDNIIRIRINSDKIISQYLASFLYSELGQ 653

Query: 344 KVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
           +      +G   + +   +++++ + +  I +Q  I N +     +I     ++   I  
Sbjct: 654 RQIRQCTTGSTIRGISLSNLEKIQIPLISISKQHKIANDL----KKILDAKSELNHLIKN 709

Query: 403 LKERRSSF 410
           L+  ++S 
Sbjct: 710 LENSKTSL 717



 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 21/154 (13%), Positives = 55/154 (35%), Gaps = 5/154 (3%)

Query: 30  IKRFTKLNTG-RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS-TVSIFAKGQIL 87
           +K    +  G + S+  KD  Y+ ++  +    +    + +    + S    +  KG I 
Sbjct: 544 LKDIADITIGVKNSKLKKDTKYLLVKGQQIKDFEVDLSNASEVGVEFSIEKYLLQKGDIA 603

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVL---QPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
             + G      +      +  +  ++        ++ + L  +L S    ++I     G+
Sbjct: 604 ITRSGTVGNVGLCNKDANVIFSDNIIRIRINSDKIISQYLASFLYSELGQRQIRQCTTGS 663

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
           T+       +  I +P+  +++Q  I   +    
Sbjct: 664 TIRGISLSNLEKIQIPLISISKQHKIANDLKKIL 697


>gi|256960371|ref|ZP_05564542.1| type I restriction endonuclease S subunit [Enterococcus faecalis
           Merz96]
 gi|256950867|gb|EEU67499.1| type I restriction endonuclease S subunit [Enterococcus faecalis
           Merz96]
          Length = 207

 Score = 61.0 bits (146), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 31/200 (15%), Positives = 71/200 (35%), Gaps = 12/200 (6%)

Query: 218 KDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKP 277
           K    ++ G               T+ ++     + S  +        ++ E   +    
Sbjct: 11  KLRFADFEGEWEQCKLGNILTERNTQQSKSKEYPLVSFTVEDGVTPKTERYEREQLVRGD 70

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI--DSTYLAW 335
           +S + Y++ +  +IV+   +L   K    +     + + +  Y+    +     S+Y+  
Sbjct: 71  KSSKKYKVTELNDIVYNPANL---KFGAIARNHYGKAVFSPIYITFIVNDKLACSSYVEV 127

Query: 336 LMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            +   D          G    RQS+  E++  +  L+P  KEQ  I +       ++D  
Sbjct: 128 FITRKDFISYSLKYQQGTVYERQSVSPENLLNMKFLLPNTKEQEFIGHF----FEKLDCN 183

Query: 393 VEKIEQSIVLLKERRSSFIA 412
               ++ I  LK  + S++ 
Sbjct: 184 SNFHKKKITQLKNLKKSYLQ 203



 Score = 47.9 bits (112), Expect = 0.003,   Method: Composition-based stats.
 Identities = 24/191 (12%), Positives = 54/191 (28%), Gaps = 11/191 (5%)

Query: 24  HWKVVPIKRFTKLNT-GRTSESGKDIIYIGLED-VESGTGKYLPKDGNSRQSDTSTVSIF 81
            W+   +          ++      ++   +ED V   T +Y  +        +    + 
Sbjct: 20  EWEQCKLGNILTERNTQQSKSKEYPLVSFTVEDGVTPKTERYEREQLVRGDKSSKKYKVT 79

Query: 82  AKGQILYGKLGPYLRKAIIADF-DGICSTQFLVLQPKDVLPELLQ--GWLLSIDVTQRIE 138
               I+Y              +   + S  ++     D L        ++   D      
Sbjct: 80  ELNDIVYNPANLKFGAIARNHYGKAVFSPIYITFIVNDKLACSSYVEVFITRKDFISYSL 139

Query: 139 AICEG--ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
              +G          + + N+   +P   EQ    E I     ++D       + I  LK
Sbjct: 140 KYQQGTVYERQSVSPENLLNMKFLLPNTKEQ----EFIGHFFEKLDCNSNFHKKKITQLK 195

Query: 197 EKKQALVSYIV 207
             K++ +  + 
Sbjct: 196 NLKKSYLQNMF 206


>gi|294676868|ref|YP_003577483.1| type I restriction-modification system RcaSBIIIP subunit S
           [Rhodobacter capsulatus SB 1003]
 gi|294475688|gb|ADE85076.1| type I restriction-modification system RcaSBIIIP, S subunit
           [Rhodobacter capsulatus SB 1003]
          Length = 560

 Score = 61.0 bits (146), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 21/135 (15%), Positives = 54/135 (40%), Gaps = 5/135 (3%)

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
           ++  G++ ++          +S+ T      G++ F     +    ++    + E   + 
Sbjct: 397 NVRMGSLNREPREFISEKTFKSWMTRGFPKLGDLFFT---TEAPLANVCLNDIQEPFALA 453

Query: 318 SAYMAVKPHGIDSTYLAWL-MRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQ 375
              + ++P+   ST+   L +    +  +     +G   + +K   +K LP+ +PP+ EQ
Sbjct: 454 QRVICLQPYAEISTHYLMLALCGDVMQSLIDGQATGMTAKGIKASKLKPLPISLPPLAEQ 513

Query: 376 FDITNVINVETARID 390
             I   ++     +D
Sbjct: 514 HRIVAKVDALMRLLD 528



 Score = 55.6 bits (132), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 27/232 (11%), Positives = 64/232 (27%), Gaps = 47/232 (20%)

Query: 229 PDHWEVKPFFALVT---ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI 285
           P  W +    +++      + +  +   +    + Y           + +   +     +
Sbjct: 85  PRGWALTRLGSVIDLLSGQHLQPNEYSSNPAAGIPYITGPSDFAEVGLSISRYALVRKAV 144

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV 345
              G+++         K ++     +    I+   M++ P      +L   + ++ L   
Sbjct: 145 ARGGQLLLTVKGSGVGKTTIC---DLPEVAISRQLMSLAPILWSIRFLE--IITHRLADT 199

Query: 346 FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE----------- 394
                  L   +  EDV      +PP+ EQ  I   +    A +D +             
Sbjct: 200 LQEQARSLIPGISREDVADFAFPLPPLAEQHRIVAKVEELMALLDRIEAARAGREEGRNR 259

Query: 395 KIEQSIVLL----------------------------KERRSSFIAAAVTGQ 418
               ++  L                            K  R + +  AV G+
Sbjct: 260 LTAATLARLTDPKADAPAAARFALDTLAPLTTRPDQIKTLRQTILNLAVRGK 311



 Score = 50.2 bits (118), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 37/195 (18%), Positives = 66/195 (33%), Gaps = 7/195 (3%)

Query: 20  AIPKHWKVVPIKRFTKLN--TGRTSES-GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            +PK W V   +         G T       +  I  ++V  G+    P++  S ++  S
Sbjct: 359 ELPKGWAVQSFENLFLFIDYRGNTPPKTDSGVPLITAKNVRMGSLNREPREFISEKTFKS 418

Query: 77  TVSI-FAK-GQILYGKLGPYLRKAIIA-DFDGICSTQFLVLQPKDVLPELLQGWLLSID- 132
            ++  F K G + +    P     +         + + + LQP   +        L  D 
Sbjct: 419 WMTRGFPKLGDLFFTTEAPLANVCLNDIQEPFALAQRVICLQPYAEISTHYLMLALCGDV 478

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           +   I+    G T        +  +P+ +PPLAEQ  I  K+ A    +D L        
Sbjct: 479 MQSLIDGQATGMTAKGIKASKLKPLPISLPPLAEQHRIVAKVDALMRLLDALEAALSASA 538

Query: 193 ELLKEKKQALVSYIV 207
                   A +   +
Sbjct: 539 TTRARLLDATLRAAL 553



 Score = 43.6 bits (101), Expect = 0.058,   Method: Composition-based stats.
 Identities = 31/189 (16%), Positives = 63/189 (33%), Gaps = 7/189 (3%)

Query: 21  IPKHWKVVPIKRFTKLNTGRT--SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           +P+ W +  +     L +G+             G+  + +G   +     +  +      
Sbjct: 84  VPRGWALTRLGSVIDLLSGQHLQPNEYSSNPAAGIPYI-TGPSDFAEVGLSISRYALVRK 142

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGI-CSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
           ++   GQ+L    G  + K  I D   +  S Q + L P       L+     +      
Sbjct: 143 AVARGGQLLLTVKGSGVGKTTICDLPEVAISRQLMSLAPILWSIRFLEIITHRLA---DT 199

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
                 + +     + + +   P+PPLAEQ  I  K+      +D +   R    E    
Sbjct: 200 LQEQARSLIPGISREDVADFAFPLPPLAEQHRIVAKVEELMALLDRIEAARAGREEGRNR 259

Query: 198 KKQALVSYI 206
              A ++ +
Sbjct: 260 LTAATLARL 268


>gi|289450762|ref|YP_003474821.1| type I restriction modification DNA specificity domain-containing
           protein [Clostridiales genomosp. BVAB3 str. UPII9-5]
 gi|289185309|gb|ADC91734.1| type I restriction modification DNA specificity domain protein
           [Clostridiales genomosp. BVAB3 str. UPII9-5]
          Length = 178

 Score = 61.0 bits (146), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 26/135 (19%), Positives = 55/135 (40%), Gaps = 11/135 (8%)

Query: 274 GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII---TSAYMAVKPHG-ID 329
             + E +        G+ +   I    +        +++ G I   ++ Y+  +     D
Sbjct: 45  SFELEKFSGGTKFRNGDTIMARITPCLENGKTAKVNILDDGEIGFGSTEYIVFRAKEGTD 104

Query: 330 STYLAWLMRSYDLCK--VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
             YL +L+ S  + +  +   +GS  RQ ++ + V+ L + VPPI+EQ  I  ++     
Sbjct: 105 KDYLYYLVCSPLVREPAIKSMVGSSGRQRVQTDVVQGLSIAVPPIEEQRQIGGILRALDD 164

Query: 388 RIDVLVEKIEQSIVL 402
           +I+     +   I  
Sbjct: 165 KIE-----LNNEINK 174



 Score = 44.8 bits (104), Expect = 0.027,   Method: Composition-based stats.
 Identities = 22/167 (13%), Positives = 58/167 (34%), Gaps = 13/167 (7%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W +  +      N   +   G     I ++ ++     +     +      S  + F  G
Sbjct: 5   WTIKTLSDIADFNPRESLSKGTLAKKIAMDKLQ----PFCRDVPSFELEKFSGGTKFRNG 60

Query: 85  QILYGKLGPYLR-------KAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
             +  ++ P L          +     G  ST+++V + K+   +    +L+   + +  
Sbjct: 61  DTIMARITPCLENGKTAKVNILDDGEIGFGSTEYIVFRAKEGTDKDYLYYLVCSPLVREP 120

Query: 138 --EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
             +++   +         +  + + +PP+ EQ  I   + A   +I+
Sbjct: 121 AIKSMVGSSGRQRVQTDVVQGLSIAVPPIEEQRQIGGILRALDDKIE 167


>gi|167949251|ref|ZP_02536325.1| anticodon nuclease [Endoriftia persephone 'Hot96_1+Hot96_2']
          Length = 296

 Score = 61.0 bits (146), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 13/84 (15%), Positives = 29/84 (34%), Gaps = 5/84 (5%)

Query: 333 LAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
            A+      +         G  +  +   D+    +L+P  +EQ  I + +    + ID 
Sbjct: 86  FAFQFSQKFIKDFVVNKSIGSDQPFISLRDLYAQDILIPKPEEQQIIADCL----SSIDA 141

Query: 392 LVEKIEQSIVLLKERRSSFIAAAV 415
           L+    + +  LK  +   +    
Sbjct: 142 LITAQSEKVNALKAHKKGLMQQLF 165


>gi|325678125|ref|ZP_08157757.1| type I restriction modification DNA specificity domain protein
           [Ruminococcus albus 8]
 gi|324110181|gb|EGC04365.1| type I restriction modification DNA specificity domain protein
           [Ruminococcus albus 8]
          Length = 248

 Score = 61.0 bits (146), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 18/144 (12%), Positives = 41/144 (28%), Gaps = 7/144 (4%)

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFI-DLQNDKRSLRSAQVMERGIITS--AYMAV 323
           K            Y    +   G+++            S        R +       +  
Sbjct: 42  KYNDERERYYTGEYPHEYLCKKGDLIVAMTEQAAGLLGSTAIVPKDNRYLHNQRIGLITC 101

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
               I   +  +L  +  + +      SG   +    E +  + V +P I  Q  I + +
Sbjct: 102 DEKHITKMFAYYLFMTKSVREQISRTSSGTKVKHTSPEKIYDVEVSLPDIPTQKKIAHFL 161

Query: 383 NVETARIDVLVE---KIEQSIVLL 403
                +I   ++    ++  + LL
Sbjct: 162 WTIDCKIRNNIQINDNLQHQLKLL 185



 Score = 47.9 bits (112), Expect = 0.003,   Method: Composition-based stats.
 Identities = 23/191 (12%), Positives = 52/191 (27%), Gaps = 13/191 (6%)

Query: 29  PIKRFTKLNTGRTSES-----GKDIIYIGLEDVES-GTGKYLPKDGNSRQSDTSTVSIFA 82
            +     +  G   +        +   +   +    G  KY  +       +     +  
Sbjct: 3   KLGECLTIKHGWAFKGEFFAESGEQSILTPGNFYEAGGFKYNDERERYYTGEYPHEYLCK 62

Query: 83  KGQILYGKL----GPYLRKAIIADFDGICSTQ---FLVLQPKDVLPELLQGWLLSIDVTQ 135
           KG ++        G     AI+   +     Q    +    K +         ++  V +
Sbjct: 63  KGDLIVAMTEQAAGLLGSTAIVPKDNRYLHNQRIGLITCDEKHITKMFAYYLFMTKSVRE 122

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
           +I     G  + H   + I ++ + +P +  Q  I   +     +I   I         L
Sbjct: 123 QISRTSSGTKVKHTSPEKIYDVEVSLPDIPTQKKIAHFLWTIDCKIRNNIQINDNLQHQL 182

Query: 196 KEKKQALVSYI 206
           K       +  
Sbjct: 183 KLLYDYWFTQF 193


>gi|227523731|ref|ZP_03953780.1| conserved hypothetical protein [Lactobacillus hilgardii ATCC 8290]
 gi|227089046|gb|EEI24358.1| conserved hypothetical protein [Lactobacillus hilgardii ATCC 8290]
          Length = 101

 Score = 61.0 bits (146), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 17/100 (17%), Positives = 33/100 (33%), Gaps = 4/100 (4%)

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI 372
            G       A        T L +L  S +            +  L  + V ++ VL P  
Sbjct: 2   NGRFWVNNHAHTFQSSQGTDLTFLAESLERIHYQRYNTGTAQPKLNAKVVGKIEVLCPTS 61

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
            EQ      +   +  I+VL+   ++ +  L+  +   + 
Sbjct: 62  NEQRK----LGKLSYLINVLIAANQRRLDQLQSLKKYLMQ 97


>gi|257886406|ref|ZP_05666059.1| type I restriction-modification system specificity subunit
           [Enterococcus faecium 1,231,501]
 gi|257822262|gb|EEV49392.1| type I restriction-modification system specificity subunit
           [Enterococcus faecium 1,231,501]
          Length = 187

 Score = 61.0 bits (146), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 18/118 (15%), Positives = 41/118 (34%), Gaps = 1/118 (0%)

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
              S      ++  +I+         K  L      E    +          + S Y+  
Sbjct: 67  ISNSKLVDLRLEENDILIARTGGTMGKSFLVKEISEESVFASYLIRIRLVEKLLSEYVDC 126

Query: 336 LMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            + S    K+   +  G  + ++   ++ +L + +PP++EQ  +T  I +    I  +
Sbjct: 127 FLDSPLYWKLLEKISYGTGQPNVNGTNLSKLLIPLPPLEEQQRMTTKIEMIRRSIRRI 184



 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 29/164 (17%), Positives = 62/164 (37%), Gaps = 7/164 (4%)

Query: 27  VVPIKRFT-KLNTGRTSESGK--DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            V +   + K+  G T  + K  ++ ++ + D++ G   +         +         +
Sbjct: 20  WVYLGSISTKIQYGYTDSAKKQGNVKFLRITDIQEGRVNWSSVPYCDISNSKLVDLRLEE 79

Query: 84  GQILYGKLGPYLRKAI----IADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
             IL  + G  + K+     I++     S    +   + +L E +  +L S    + +E 
Sbjct: 80  NDILIARTGGTMGKSFLVKEISEESVFASYLIRIRLVEKLLSEYVDCFLDSPLYWKLLEK 139

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           I  G    + +   +  + +P+PPL EQ  +  KI      I  
Sbjct: 140 ISYGTGQPNVNGTNLSKLLIPLPPLEEQQRMTTKIEMIRRSIRR 183


>gi|223043667|ref|ZP_03613711.1| Sau1hsdS1 [Staphylococcus capitis SK14]
 gi|222442945|gb|EEE49046.1| Sau1hsdS1 [Staphylococcus capitis SK14]
          Length = 400

 Score = 60.6 bits (145), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 54/402 (13%), Positives = 108/402 (26%), Gaps = 40/402 (9%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLP 65
            +P++K           + W    I  +        S++                     
Sbjct: 10  RFPEFK-----------EEWIKQNIGNYLVEYKKYGSQNETHYPVATSSRRGLYMQNEYF 58

Query: 66  KDGNSRQSDTSTVSIFAKGQILY---GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPE 122
           +            SI       Y        +       +   + S ++ V    +    
Sbjct: 59  EGDREFAKKDVLYSIVPVNYFTYRHMSDDNIFKFNINTFNIPILVSKEYPVFTINNYYSH 118

Query: 123 LLQGW--LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
               +    +    +      +G T +   +K +       P   EQ  I +       +
Sbjct: 119 NFIFYELNNNNRFEKFCRMQKKGGTRTRLYFKVLKEYKAFFPNYQEQSKIGDFFSKFDYQ 178

Query: 181 IDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFAL 240
           I+    +     +      Q + S  +               +  G     WE+     +
Sbjct: 179 IELEEKKLELLEQQKNGYMQKIFSQELRFK------------DENGNEYPEWELIKLEDI 226

Query: 241 VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL-KPESYETYQIVDPGEIVFRFIDLQ 299
           + E     +K       +LS   I  K +  N      +  + Y+I    +I +   +L 
Sbjct: 227 LIERKEYASKTENYPHATLSTSGISLKSDRYNRDFLVRDKNKKYKITLMNDICYNPANL- 285

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM-RSYDLCKVFYAMGSGL---RQ 355
             K  + +   +   I +  Y+  + +   S     L+    D          G    R 
Sbjct: 286 --KFGVITRNSIGSVIFSPIYITFEVNNGYSPLFIELLVTRKDFINRVRKYEEGTVYERM 343

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
           S+K ED       +P ++EQ  I          ID   E +E
Sbjct: 344 SVKPEDFLNYETKIPCLEEQKKIGLF----FTEIDKCSEILE 381



 Score = 42.9 bits (99), Expect = 0.095,   Method: Composition-based stats.
 Identities = 18/174 (10%), Positives = 53/174 (30%), Gaps = 12/174 (6%)

Query: 228 VPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVD 287
            P+    +     + +         +           +     R + ++ E +E  +   
Sbjct: 6   TPELRFPEFKEEWIKQNIGNYLVEYKKYGSQNETHYPVATSSRRGLYMQNEYFEGDREFA 65

Query: 288 PGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM----------AVKPHGIDSTYLAWLM 337
             ++++  + +        S   + +  I +  +              +     ++ + +
Sbjct: 66  KKDVLYSIVPVNYFTYRHMSDDNIFKFNINTFNIPILVSKEYPVFTINNYYSHNFIFYEL 125

Query: 338 RSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
            + +  + F  M    G R  L F+ +K      P  +EQ  I +  +    +I
Sbjct: 126 NNNNRFEKFCRMQKKGGTRTRLYFKVLKEYKAFFPNYQEQSKIGDFFSKFDYQI 179


>gi|3805988|gb|AAC69256.1| type I restriction enzyme EcoRI specificity protein homolog
           [Helicobacter pylori]
          Length = 119

 Score = 60.6 bits (145), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 17/121 (14%), Positives = 36/121 (29%), Gaps = 9/121 (7%)

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
              Y     G+I+                   +      + +    +        +L  +
Sbjct: 1   KTKYSFPKKGDILISASGTIGRAVI----YDGKPAYFQDSNIVWIDNDETLVKNDFLFYT 56

Query: 340 YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA---RIDVLVEKI 396
           Y   K            L  ++ +   + +PP+ EQ  I N+++        +D L+ K 
Sbjct: 57  YSHVKW--NTEHTTILRLYNDNFRNTLIPLPPLNEQIAIANILSDVDRYLYNLDALILKK 114

Query: 397 E 397
           E
Sbjct: 115 E 115



 Score = 37.1 bits (84), Expect = 5.0,   Method: Composition-based stats.
 Identities = 21/109 (19%), Positives = 31/109 (28%), Gaps = 3/109 (2%)

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
            +  S   KG IL    G   R  I            +V        E L          
Sbjct: 1   KTKYSFPKKGDILISASGTIGRAVIYDGKPAYFQDSNIVWI---DNDETLVKNDFLFYTY 57

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
             ++   E  T+         N  +P+PPL EQ+ I   +      +  
Sbjct: 58  SHVKWNTEHTTILRLYNDNFRNTLIPLPPLNEQIAIANILSDVDRYLYN 106


>gi|254670659|emb|CBA06724.1| anti-codon nuclease masking agent [Neisseria meningitidis alpha153]
          Length = 160

 Score = 60.6 bits (145), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 14/146 (9%), Positives = 44/146 (30%), Gaps = 10/146 (6%)

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
           +     +   + +  ++     I+        +   +    +  +   + +        +
Sbjct: 12  DNSLQHISKSAVKGGKLFPANSIIMATSATIGEHALITVPFLANQRFTSLSLKPEFADKL 71

Query: 329 DSTYLAWL-MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
              +L +      + CK      +    S+     KR P+ +PP+ EQ  I  +++    
Sbjct: 72  SIYFLYYYCFNLSEWCK--KNTTTSSFASVDMNGFKRFPIPIPPLPEQEKIVAILDKFDT 129

Query: 388 RIDVL-------VEKIEQSIVLLKER 406
               +       +    +     +E+
Sbjct: 130 LTHSISEGLPHEIALRRKQYEYYREQ 155



 Score = 41.3 bits (95), Expect = 0.29,   Method: Composition-based stats.
 Identities = 23/160 (14%), Positives = 53/160 (33%), Gaps = 4/160 (2%)

Query: 53  LEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFL 112
           +ED+            +  +S      +F    I+          A+I     + + +F 
Sbjct: 1   MEDIRENGRILDNSLQHISKSAVKGGKLFPANSIIMATSATIGEHALIT-VPFLANQRFT 59

Query: 113 VLQPKDVLP---ELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVL 169
            L  K        +   +    ++++  +     ++ +  D  G    P+PIPPL EQ  
Sbjct: 60  SLSLKPEFADKLSIYFLYYYCFNLSEWCKKNTTTSSFASVDMNGFKRFPIPIPPLPEQEK 119

Query: 170 IREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTK 209
           I   +        ++       I L +++ +     ++  
Sbjct: 120 IVAILDKFDTLTHSISEGLPHEIALRRKQYEYYREQLLAF 159


>gi|317473783|ref|ZP_07933064.1| type I restriction modification DNA specificity domain-containing
            protein [Bacteroides eggerthii 1_2_48FAA]
 gi|316910040|gb|EFV31713.1| type I restriction modification DNA specificity domain-containing
            protein [Bacteroides eggerthii 1_2_48FAA]
          Length = 1249

 Score = 60.6 bits (145), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 54/411 (13%), Positives = 118/411 (28%), Gaps = 60/411 (14%)

Query: 27   VVPIKRFTKLNTGRTSESGKDII----YIGLEDVESGTGKYLPKDGNSRQSDTS--TVSI 80
            + PI +     +G   +  K ++     +   + +   G     D    + +T+      
Sbjct: 877  LKPIDKLASFQSGLW-KGEKGVLQMTKVLRNTNFKLNNGFLDYGDVAEIEVETTQLATRT 935

Query: 81   FAKGQILYGKLG-----PYLRKAIIAD-------FDGICSTQFLVLQPKDVLPELLQGWL 128
               G I+  K G        R  +          +   CS +  VL   +V P  L   L
Sbjct: 936  LQYGDIILEKSGGSDTQAIGRVVLFDKTDNETYSYSNFCS-RIRVLDASEVEPLYLWSVL 994

Query: 129  LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
             +         +  G  + + D  G   I +P+PP+A Q  I E+I      +   +   
Sbjct: 995  HNFYCKGGTIPLQNGIRLLNIDMNGYSKIKIPVPPIAVQKQIVEEIAKVDTSVSDAMQRI 1054

Query: 189  IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN 248
             ++   ++    +L                            +        +     +  
Sbjct: 1055 DKYESDIENLLSSL----------------------------NNADSTLNTIAPFATKSI 1086

Query: 249  TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
                  +   ++  N++Q            +  +     P +I+   I     K  L   
Sbjct: 1087 KYGDIESETYITTDNMLQNKLGVLPFEGVANISSITEYKPEDILISNIRPYLKKIWLA-- 1144

Query: 309  QVMERGIITSAYMAVKP---HGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKR 364
               + G  +   + ++          Y+ +++R             G+       ED+ +
Sbjct: 1145 --DKEGGCSKDVLVLRSADTSKYLPKYIFYMLRRDSFFDYVMEGKKGIKMPRGNKEDIMK 1202

Query: 365  LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
              + +P I EQ  I   I          + K    I  +   + + +   +
Sbjct: 1203 YKIPMPNIDEQKRIVAQIETLELE----ITKARTLIENVASEKQAILDKYL 1249


>gi|315634371|ref|ZP_07889658.1| type I restriction/modification specificity protein
           [Aggregatibacter segnis ATCC 33393]
 gi|315476961|gb|EFU67706.1| type I restriction/modification specificity protein
           [Aggregatibacter segnis ATCC 33393]
          Length = 203

 Score = 60.6 bits (145), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 13/122 (10%), Positives = 43/122 (35%), Gaps = 3/122 (2%)

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG 350
           ++       + +       V +       ++      +++ +L   + + +         
Sbjct: 68  VLIAEDGSASLENYSIQWAVGKFWANNHVHVVNGKEKLNNRFLYHYLTNMNFIPFL---A 124

Query: 351 SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
              R  L    ++++P+ +PP+  Q +I  +++  TA    L  ++       +  R   
Sbjct: 125 GKDRAKLTKAKLQQIPIPIPPLSVQTEIVKILDALTALTSELTSELILRRKQYEYYRERL 184

Query: 411 IA 412
           ++
Sbjct: 185 LS 186



 Score = 37.9 bits (86), Expect = 3.4,   Method: Composition-based stats.
 Identities = 28/183 (15%), Positives = 53/183 (28%), Gaps = 18/183 (9%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           +  P+     +           +           +G       N+ Q      +    G+
Sbjct: 18  EWKPLDEVANIVNNARKPVKSSLRV---------SGNIPYYGANNIQDYVEGYT--HDGE 66

Query: 86  ILY----GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            +     G           A      +    V+  K+ L      +L             
Sbjct: 67  FVLIAEDGSASLENYSIQWAVGKFWANNHVHVVNGKEKLNN---RFLYHYLTNMNFIPFL 123

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            G   +      +  IP+PIPPL+ Q  I + + A T     L +E I   +  +  ++ 
Sbjct: 124 AGKDRAKLTKAKLQQIPIPIPPLSVQTEIVKILDALTALTSELTSELILRRKQYEYYRER 183

Query: 202 LVS 204
           L+S
Sbjct: 184 LLS 186


>gi|304437972|ref|ZP_07397917.1| conserved hypothetical protein [Selenomonas sp. oral taxon 149 str.
           67H29BP]
 gi|304369056|gb|EFM22736.1| conserved hypothetical protein [Selenomonas sp. oral taxon 149 str.
           67H29BP]
          Length = 168

 Score = 60.6 bits (145), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 20/164 (12%), Positives = 50/164 (30%), Gaps = 9/164 (5%)

Query: 30  IKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYL--PKDGNSRQSDTSTVSIF 81
           +     +  G T ++        +I ++ ++D  +         K       + S+  + 
Sbjct: 5   LADIMDIIGGGTPKTNVEEYWDGEIPWLSVKDFNNDNRYVYRAEKTITKLGLENSSTKLL 64

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
               I+    G     A+I       +     L+ KD + +    + L     + +    
Sbjct: 65  RYDDIIISARGTVGEVAMIPYPMA-FNQSCYGLRAKDEIVDSTYLYYLIRYNIRELRRKS 123

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
            G+           NI + +P +  Q  +   +     +I+   
Sbjct: 124 HGSVFDTITRDTFTNIEIDLPNMTIQRKVAIILKEIDDKIECNH 167



 Score = 49.4 bits (116), Expect = 0.001,   Method: Composition-based stats.
 Identities = 9/135 (6%), Positives = 41/135 (30%), Gaps = 4/135 (2%)

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
           +   +  N       + +        + +++   +I+        +   +          
Sbjct: 34  VKDFNNDNRYVYRAEKTITKLGLENSSTKLLRYDDIIISARGTVGEVAMIP----YPMAF 89

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
             S Y       I  +   + +  Y++ ++       +  ++  +    + + +P +  Q
Sbjct: 90  NQSCYGLRAKDEIVDSTYLYYLIRYNIRELRRKSHGSVFDTITRDTFTNIEIDLPNMTIQ 149

Query: 376 FDITNVINVETARID 390
             +  ++     +I+
Sbjct: 150 RKVAIILKEIDDKIE 164


>gi|304383193|ref|ZP_07365666.1| conserved hypothetical protein [Prevotella marshii DSM 16973]
 gi|304335664|gb|EFM01921.1| conserved hypothetical protein [Prevotella marshii DSM 16973]
          Length = 163

 Score = 60.6 bits (145), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 23/130 (17%), Positives = 42/130 (32%), Gaps = 7/130 (5%)

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH-G 327
            T +  L  +  +  +I+ P  I    I        +      + G          P   
Sbjct: 39  NTASEYLTTKGRDVSRIIPPNSIAICCIGSIGKVGYI-----EQEGTTNQQINTAIPSLA 93

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGLRQSL-KFEDVKRLPVLVPPIKEQFDITNVINVET 386
           I   YL  L  S           S +  S+     ++ + + +PP +EQ  I   I+   
Sbjct: 94  IFPDYLYHLCTSTYFQNSLMEKSSAVTISIVNKSKMEHIKIPLPPKEEQARIIVAIDNLF 153

Query: 387 ARIDVLVEKI 396
             +D + E +
Sbjct: 154 NALDAVKENL 163



 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 29/159 (18%), Positives = 51/159 (32%), Gaps = 11/159 (6%)

Query: 32  RFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYL-PKDGNSRQSDTSTVSIFAKG 84
              K+ TG T           +       D+++G       +   ++  D S   I    
Sbjct: 2   DVAKIVTGSTPSKSNLSYYGGNFPLYKPSDLDAGRHTNTASEYLTTKGRDVS--RIIPPN 59

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL-PELLQGWLLSIDVTQRIEAICEG 143
            I    +G    K    + +G  + Q     P   + P+ L     S      +      
Sbjct: 60  SIAICCIGSI-GKVGYIEQEGTTNQQINTAIPSLAIFPDYLYHLCTSTYFQNSLMEKSSA 118

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
            T+S  +   + +I +P+PP  EQ  I   I      +D
Sbjct: 119 VTISIVNKSKMEHIKIPLPPKEEQARIIVAIDNLFNALD 157


>gi|227550932|ref|ZP_03980981.1| possible type I restriction-modification system specificity subunit
           [Enterococcus faecium TX1330]
 gi|257894852|ref|ZP_05674505.1| type I restriction-modification system specificity subunit
           [Enterococcus faecium 1,231,408]
 gi|257896562|ref|ZP_05676215.1| type I restriction-modification system specificity subunit
           [Enterococcus faecium Com12]
 gi|257900143|ref|ZP_05679796.1| type I restriction-modification system specificity subunit
           [Enterococcus faecium Com15]
 gi|293379739|ref|ZP_06625875.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecium PC4.1]
 gi|293554046|ref|ZP_06674645.1| type I restriction-modification system specificity subunit
           [Enterococcus faecium E1039]
 gi|293568541|ref|ZP_06679861.1| type I restriction-modification system specificity subunit
           [Enterococcus faecium E1071]
 gi|314939011|ref|ZP_07846276.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecium TX0133a04]
 gi|314943437|ref|ZP_07850204.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecium TX0133C]
 gi|314952726|ref|ZP_07855704.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecium TX0133A]
 gi|314991358|ref|ZP_07856836.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecium TX0133B]
 gi|227179932|gb|EEI60904.1| possible type I restriction-modification system specificity subunit
           [Enterococcus faecium TX1330]
 gi|257831231|gb|EEV57838.1| type I restriction-modification system specificity subunit
           [Enterococcus faecium 1,231,408]
 gi|257833127|gb|EEV59548.1| type I restriction-modification system specificity subunit
           [Enterococcus faecium Com12]
 gi|257838055|gb|EEV63129.1| type I restriction-modification system specificity subunit
           [Enterococcus faecium Com15]
 gi|291588877|gb|EFF20705.1| type I restriction-modification system specificity subunit
           [Enterococcus faecium E1071]
 gi|291601791|gb|EFF32044.1| type I restriction-modification system specificity subunit
           [Enterococcus faecium E1039]
 gi|292641737|gb|EFF59911.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecium PC4.1]
 gi|313594032|gb|EFR72877.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecium TX0133B]
 gi|313595197|gb|EFR74042.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecium TX0133A]
 gi|313597809|gb|EFR76654.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecium TX0133C]
 gi|313641720|gb|EFS06300.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecium TX0133a04]
          Length = 187

 Score = 60.6 bits (145), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 18/118 (15%), Positives = 41/118 (34%), Gaps = 1/118 (0%)

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
              S      ++  +I+         K  L      E    +          + S Y+  
Sbjct: 67  ISNSKLVDLRLEENDILIARTGGTMGKSFLVKEISEESVFASYLIRIRLVEKLLSEYVDC 126

Query: 336 LMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            + S    K+   +  G  + ++   ++ +L + +PP++EQ  +T  I +    I  +
Sbjct: 127 FLDSPLYWKLLEKISYGTGQPNVNGTNLSKLLIPLPPLEEQQRMTTKIEMIRRSIRRI 184



 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 29/164 (17%), Positives = 62/164 (37%), Gaps = 7/164 (4%)

Query: 27  VVPIKRFT-KLNTGRTSESGK--DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            V +   + K+  G T  + K  ++ ++ + D++ G   +         +         +
Sbjct: 20  WVYLGSISTKIQYGYTDSAKKQGNVKFLRITDIQEGRVNWSSVPYCDISNSKLVDLRLEE 79

Query: 84  GQILYGKLGPYLRKAI----IADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
             IL  + G  + K+     I++     S    +   + +L E +  +L S    + +E 
Sbjct: 80  NDILIARTGGTMGKSFLVKEISEESVFASYLIRIRLVEKLLSEYVDCFLDSPLYWKLLEK 139

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           I  G    + +   +  + +P+PPL EQ  +  KI      I  
Sbjct: 140 ISYGTGQPNVNGTNLSKLLIPLPPLEEQQRMTTKIEMIRRSIRR 183


>gi|91217920|ref|ZP_01254873.1| hypothetical protein P700755_01262 [Psychroflexus torquis ATCC
           700755]
 gi|91183897|gb|EAS70287.1| hypothetical protein P700755_01262 [Psychroflexus torquis ATCC
           700755]
          Length = 195

 Score = 60.6 bits (145), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 15/147 (10%), Positives = 57/147 (38%), Gaps = 4/147 (2%)

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
               L      +  ++ ++   +  G+I+F      N     +S   +     ++ ++  
Sbjct: 46  NYTYLGDDCYFVDSDTIKSKYYLKTGDILFIGKGTNNFALVFKSIDNLPTIASSALFVLK 105

Query: 324 -KPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNV 381
              + ++  ++AW +   ++   F    +G    S+    ++  P+++P ++ Q  I  +
Sbjct: 106 VDKNLVNPDFIAWYINQSEVQNYFKTNEAGTYNTSINKTTLEETPIVLPSLEIQTKIAKI 165

Query: 382 --INVETARIDVLVEKIEQSIVLLKER 406
             ++ +   +   + +++  +   +  
Sbjct: 166 ANLHNQELALSNKIIELKNKLTTTQLL 192



 Score = 37.1 bits (84), Expect = 5.9,   Method: Composition-based stats.
 Identities = 21/134 (15%), Positives = 41/134 (30%), Gaps = 5/134 (3%)

Query: 45  GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAI---IA 101
              +  I L+D E                   +      G IL+   G      +   I 
Sbjct: 32  NGGVRVIQLKDFEENYTYLGDDCYFVDSDTIKSKYYLKTGDILFIGKGTNNFALVFKSID 91

Query: 102 DFDGICSTQFLV--LQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPM 159
           +   I S+   V  +    V P+ +  ++   +V    +    G   +  +   +   P+
Sbjct: 92  NLPTIASSALFVLKVDKNLVNPDFIAWYINQSEVQNYFKTNEAGTYNTSINKTTLEETPI 151

Query: 160 PIPPLAEQVLIREK 173
            +P L  Q  I + 
Sbjct: 152 VLPSLEIQTKIAKI 165


>gi|304387860|ref|ZP_07370034.1| conserved hypothetical protein [Neisseria meningitidis ATCC 13091]
 gi|304338125|gb|EFM04261.1| conserved hypothetical protein [Neisseria meningitidis ATCC 13091]
          Length = 197

 Score = 60.6 bits (145), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 21/163 (12%), Positives = 55/163 (33%), Gaps = 5/163 (3%)

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID 297
           +  +   N          +      N I      N G +P  Y      +   I      
Sbjct: 21  WKPLGGENGIAIIKTGQAVSKQKISNNIGSYPVINSGKEPLGYIDEWNTENDPIGITTRG 80

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQS 356
                 + +  +   RG +  A        +D  +L  ++   +  +  +A+ +     +
Sbjct: 81  AGVGSITWQEGRYF-RGNLNYAVTIKNRTELDVRFLYHIL--LEFEQEIHALCTFTGIPA 137

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
           L   ++K+L + +PP++ Q  I  +++     ++  +   ++ 
Sbjct: 138 LNASNLKKLLIPIPPLETQQKIVKILDK-FTELEAELALRKRQ 179


>gi|294813863|ref|ZP_06772506.1| N-6 DNA methylase [Streptomyces clavuligerus ATCC 27064]
 gi|326442281|ref|ZP_08217015.1| N-6 DNA methylase [Streptomyces clavuligerus ATCC 27064]
 gi|294326462|gb|EFG08105.1| N-6 DNA methylase [Streptomyces clavuligerus ATCC 27064]
          Length = 752

 Score = 60.6 bits (145), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 28/169 (16%), Positives = 63/169 (37%), Gaps = 11/169 (6%)

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
            G+ I   +T  +  +         +  G++V            + +A+  +  +  +  
Sbjct: 591 SGHRILHGDTGTVPWEEAEAHPRYRLRAGDLVMTRSGTVGRCALVTAAE--DGWLFGTHL 648

Query: 321 MAVKPH-GIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFD 377
           + ++PH  + S YL   +             +G    + +  + +  LPVL+PP  E+  
Sbjct: 649 VRIRPHSPVWSDYLLGFLTRPGTQDWIDRRAAGTTGVRHVSAKSLAGLPVLLPPEDERER 708

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
           I  +++    R+D         +  L E R+      ++G   +R + Q
Sbjct: 709 IGRLLH----RLDERRRVHTSVVATLDEYRAELADLLLSG--RVRPDDQ 751



 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 31/200 (15%), Positives = 62/200 (31%), Gaps = 12/200 (6%)

Query: 22  PKHWKVVPIKRFTKLNTG-------RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQS- 73
           P  W+   +    ++ TG        T E    +  +    V      +        +  
Sbjct: 549 PPGWREATLGELAEITTGPGGKWPEGTGEPSAGVPVVRARHVSGHRILHGDTGTVPWEEA 608

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIA--DFDGICSTQFLVLQPKDVLPELL-QGWLLS 130
           +         G ++  + G   R A++   +   +  T  + ++P   +      G+L  
Sbjct: 609 EAHPRYRLRAGDLVMTRSGTVGRCALVTAAEDGWLFGTHLVRIRPHSPVWSDYLLGFLTR 668

Query: 131 IDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
                 I+    G T + H   K +  +P+ +PP  E+  I   +     R     +   
Sbjct: 669 PGTQDWIDRRAAGTTGVRHVSAKSLAGLPVLLPPEDERERIGRLLHRLDERRRVHTSVVA 728

Query: 190 RFIELLKEKKQALVSYIVTK 209
              E   E    L+S  V  
Sbjct: 729 TLDEYRAELADLLLSGRVRP 748


>gi|254390385|ref|ZP_05005602.1| N-6 DNA methylase [Streptomyces clavuligerus ATCC 27064]
 gi|197704089|gb|EDY49901.1| N-6 DNA methylase [Streptomyces clavuligerus ATCC 27064]
          Length = 814

 Score = 60.6 bits (145), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 28/169 (16%), Positives = 63/169 (37%), Gaps = 11/169 (6%)

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
            G+ I   +T  +  +         +  G++V            + +A+  +  +  +  
Sbjct: 653 SGHRILHGDTGTVPWEEAEAHPRYRLRAGDLVMTRSGTVGRCALVTAAE--DGWLFGTHL 710

Query: 321 MAVKPH-GIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFD 377
           + ++PH  + S YL   +             +G    + +  + +  LPVL+PP  E+  
Sbjct: 711 VRIRPHSPVWSDYLLGFLTRPGTQDWIDRRAAGTTGVRHVSAKSLAGLPVLLPPEDERER 770

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
           I  +++    R+D         +  L E R+      ++G   +R + Q
Sbjct: 771 IGRLLH----RLDERRRVHTSVVATLDEYRAELADLLLSG--RVRPDDQ 813



 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 31/200 (15%), Positives = 62/200 (31%), Gaps = 12/200 (6%)

Query: 22  PKHWKVVPIKRFTKLNTG-------RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQS- 73
           P  W+   +    ++ TG        T E    +  +    V      +        +  
Sbjct: 611 PPGWREATLGELAEITTGPGGKWPEGTGEPSAGVPVVRARHVSGHRILHGDTGTVPWEEA 670

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIA--DFDGICSTQFLVLQPKDVLPELL-QGWLLS 130
           +         G ++  + G   R A++   +   +  T  + ++P   +      G+L  
Sbjct: 671 EAHPRYRLRAGDLVMTRSGTVGRCALVTAAEDGWLFGTHLVRIRPHSPVWSDYLLGFLTR 730

Query: 131 IDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
                 I+    G T + H   K +  +P+ +PP  E+  I   +     R     +   
Sbjct: 731 PGTQDWIDRRAAGTTGVRHVSAKSLAGLPVLLPPEDERERIGRLLHRLDERRRVHTSVVA 790

Query: 190 RFIELLKEKKQALVSYIVTK 209
              E   E    L+S  V  
Sbjct: 791 TLDEYRAELADLLLSGRVRP 810


>gi|257889046|ref|ZP_05668699.1| type I restriction-modification system specificity subunit
           [Enterococcus faecium 1,141,733]
 gi|257825112|gb|EEV52032.1| type I restriction-modification system specificity subunit
           [Enterococcus faecium 1,141,733]
          Length = 187

 Score = 60.6 bits (145), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 18/118 (15%), Positives = 41/118 (34%), Gaps = 1/118 (0%)

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
              S      ++  +I+         K  L      E    +          + S Y+  
Sbjct: 67  ISNSKLVDLRLEENDILIARTGGTMGKSFLVKEISEESVFASYLIRIRLVEKLLSEYVDC 126

Query: 336 LMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            + S    K+   +  G  + ++   ++ +L + +PP++EQ  +T  I +    I  +
Sbjct: 127 FLDSPLYWKLLEKISYGTGQPNVNGTNLSKLLIPLPPLEEQQRMTTKIEMIRRSIRRI 184



 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 29/164 (17%), Positives = 62/164 (37%), Gaps = 7/164 (4%)

Query: 27  VVPIKRFT-KLNTGRTSESGK--DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            V +   + K+  G T  + K  ++ ++ + D++ G   +         +         +
Sbjct: 20  WVYLGSISTKIQYGYTDSAKKQGNVKFLRITDIQEGRVNWFSVPYCDISNSKLVDLRLEE 79

Query: 84  GQILYGKLGPYLRKAI----IADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
             IL  + G  + K+     I++     S    +   + +L E +  +L S    + +E 
Sbjct: 80  NDILIARTGGTMGKSFLVKEISEESVFASYLIRIRLVEKLLSEYVDCFLDSPLYWKLLEK 139

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           I  G    + +   +  + +P+PPL EQ  +  KI      I  
Sbjct: 140 ISYGTGQPNVNGTNLSKLLIPLPPLEEQQRMTTKIEMIRRSIRR 183


>gi|209528296|ref|ZP_03276756.1| restriction modification system DNA specificity domain [Arthrospira
           maxima CS-328]
 gi|209491261|gb|EDZ91656.1| restriction modification system DNA specificity domain [Arthrospira
           maxima CS-328]
          Length = 192

 Score = 60.6 bits (145), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 17/134 (12%), Positives = 44/134 (32%), Gaps = 1/134 (0%)

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
           +     +  N G     Y      +   +   +                  G +     +
Sbjct: 38  DNATDYDYINAGTTRSGYTASSNCEGDTVTTPYRGQGGICYVGYQKTPFWLGPLCYKLRS 97

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
                + + YL + ++S     +      G+  ++   D+ +L + +PP+  Q +I  ++
Sbjct: 98  TDEALLINKYLFYFLQSESDLLLGLKKEGGV-PAVNKSDLAKLEIPIPPLAIQAEIVRIL 156

Query: 383 NVETARIDVLVEKI 396
           +  TA    L  ++
Sbjct: 157 DTFTALTAELTAEL 170


>gi|238924761|ref|YP_002938277.1| restriction modification system, type I [Eubacterium rectale ATCC
           33656]
 gi|238876436|gb|ACR76143.1| restriction modification system, type I [Eubacterium rectale ATCC
           33656]
          Length = 364

 Score = 60.2 bits (144), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 53/368 (14%), Positives = 106/368 (28%), Gaps = 31/368 (8%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
           V I   TK+ TG+              +V S  GKY     +      ST S +    +L
Sbjct: 3   VKIGDLTKIKTGKLD-----------ANVSSEDGKYPFFTCSKEPLKISTYS-YDCECVL 50

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMS 147
               G    K     FD      +++         +   +    D    +     G  + 
Sbjct: 51  VAGNGDLNVKYYNGKFDAY-QRTYIIEANGSGKLYMPYLYYFMEDYIDELRKQAIGGVIK 109

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
           +     + +  + +P + EQ  I E +      +D    E      L       + +  V
Sbjct: 110 YIKLANLTDALIELPSVDEQKSIVEILKKVKGILDKRNDEIRELDNL-------IKARFV 162

Query: 208 TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK 267
               +P         + +               + E      + I+++ +     N  Q 
Sbjct: 163 EMFGDPRSNPFGFEKKRLKDTCKVITGNTPSRAIEEYYGDYIEWIKTDNIVSGILNPTQA 222

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
            E+    L  +     + V+   I+   I         R               AV P  
Sbjct: 223 TES----LSEKGMNVGRTVEKDSILMACIAGSIASIG-RVCITDRTVAFNQQINAVVPEQ 277

Query: 328 IDSTYLA--WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
            +  +L   + M    L +       G+   L    ++    ++PP+  Q   ++ +   
Sbjct: 278 YNILFLYVLFQMSKDYLVEDINMALKGI---LSKSKLEEKEFIIPPMDLQEQFSDFVKQV 334

Query: 386 T-ARIDVL 392
             ++ D +
Sbjct: 335 DKSKFDTM 342



 Score = 47.5 bits (111), Expect = 0.004,   Method: Composition-based stats.
 Identities = 25/167 (14%), Positives = 50/167 (29%), Gaps = 11/167 (6%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           P  ++   +K   K+ TG T         G  I +I  +++ SG         +  +   
Sbjct: 172 PFGFEKKRLKDTCKVITGNTPSRAIEEYYGDYIEWIKTDNIVSGILNPTQATESLSEKGM 231

Query: 76  STVSIFAKGQILYGKLG---PYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
           +      K  IL   +      + +  I D     + Q   + P+     +L  ++L   
Sbjct: 232 NVGRTVEKDSILMACIAGSIASIGRVCITDRTVAFNQQINAVVPEQYN--ILFLYVLFQM 289

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
               +      A         +      IPP+  Q    + +     
Sbjct: 290 SKDYLVEDINMALKGILSKSKLEEKEFIIPPMDLQEQFSDFVKQVDK 336



 Score = 42.9 bits (99), Expect = 0.11,   Method: Composition-based stats.
 Identities = 11/103 (10%), Positives = 35/103 (33%), Gaps = 1/103 (0%)

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKR 364
           ++           +  +     G       +      + ++      G+ + +K  ++  
Sbjct: 59  VKYYNGKFDAYQRTYIIEANGSGKLYMPYLYYFMEDYIDELRKQAIGGVIKYIKLANLTD 118

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
             + +P + EQ  I  ++      +D   ++I + +  L + R
Sbjct: 119 ALIELPSVDEQKSIVEILKKVKGILDKRNDEI-RELDNLIKAR 160


>gi|47459122|ref|YP_015984.1| type I restriction-modification enzyme s subunit [Mycoplasma mobile
           163K]
 gi|47458451|gb|AAT27773.1| type I restriction-modification enzyme s subunit [Mycoplasma mobile
           163K]
          Length = 378

 Score = 60.2 bits (144), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 41/387 (10%), Positives = 95/387 (24%), Gaps = 41/387 (10%)

Query: 33  FTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSR----QSDTSTVSIFAKGQILY 88
             ++ +    E     I       +      L    +          +         I+ 
Sbjct: 19  IVEIGSLLNYEQPSKYIVESTNYNKENQIPVLTAGKSFILGYTNEKNNIYGASKNNPIII 78

Query: 89  GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSH 148
                +       DF     +  + L   +    LL+     +          +      
Sbjct: 79  --FDDFTGSFKWVDFPFKIKSSAIKLLTVNSNNALLRYLYHIMTSMNFFSKEHK-----R 131

Query: 149 ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVT 208
                   I +P+P +  Q  I + +   +     L  E    +   K++ +     +++
Sbjct: 132 LYISIYSKIKIPLPSIEIQEKIVKFLDTFSELTAELTAELTAELTARKKQYECYRDNLLS 191

Query: 209 KGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKL 268
              +          E +                  +  K+     S I  +     + K 
Sbjct: 192 FNESTPYVSIGDVFEIIN--------------GKSILTKDYISKISGIYPVYSSQTLNKG 237

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
               +     + E+      G +            S+      +  I     +       
Sbjct: 238 IIGYINKYEHNEESISWTRDGYV----------AGSVSYHFNEKFNISNRGLLKALNKNE 287

Query: 329 DSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
            +T   + +      K            L    + ++ V +PPI+ Q  I N+++     
Sbjct: 288 VNTKFVFYLLEIIAKKHVNKRE--TIPHLTSSKMAKIKVPLPPIEVQNKIVNILDRFETL 345

Query: 389 IDVLVEKIEQSIVLLKE----RRSSFI 411
           I  L   +   I   K+     R   +
Sbjct: 346 ISDLTIGLPAEIEARKKQYEYYRDKLL 372



 Score = 39.8 bits (91), Expect = 0.75,   Method: Composition-based stats.
 Identities = 23/156 (14%), Positives = 46/156 (29%), Gaps = 10/156 (6%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
           V I    ++  G++  +   I       +      Y  +  N             +  I 
Sbjct: 199 VSIGDVFEIINGKSILTKDYI-----SKISGIYPVYSSQTLNKGIIGYINKYEHNEESIS 253

Query: 88  YGKLGPYLRKAIIA--DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           + + G           +   I +   L    K+ +      +LL I   + +       T
Sbjct: 254 WTRDGYVAGSVSYHFNEKFNISNRGLLKALNKNEVNTKFVFYLLEIIAKKHVNKR---ET 310

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
           + H     +  I +P+PP+  Q  I   +      I
Sbjct: 311 IPHLTSSKMAKIKVPLPPIEVQNKIVNILDRFETLI 346


>gi|315656946|ref|ZP_07909832.1| type I restriction-modification system [Mobiluncus curtisii subsp.
           holmesii ATCC 35242]
 gi|315492467|gb|EFU82072.1| type I restriction-modification system [Mobiluncus curtisii subsp.
           holmesii ATCC 35242]
          Length = 111

 Score = 60.2 bits (144), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 24/115 (20%), Positives = 47/115 (40%), Gaps = 8/115 (6%)

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVK-PHGIDSTYLAWLMRSYDLCKVFYAMGS 351
              +        +        GI++ AY        +DS +  W +RS      F     
Sbjct: 1   MNKMKAWQGSYGVSLYD----GIVSPAYYTFDLASSVDSEFFNWAIRSKAYIPFFGRDSY 56

Query: 352 GL---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
           G+   +   K + ++ +P+ VPP++EQ  I + +      ID L+  +++ + LL
Sbjct: 57  GIRTDQWDFKVQALRNIPLFVPPVEEQRQIVDYLVQRLKGIDGLITDLDRQVELL 111


>gi|302345834|ref|YP_003814187.1| type I restriction modification DNA specificity domain protein
           [Prevotella melaninogenica ATCC 25845]
 gi|302149819|gb|ADK96081.1| type I restriction modification DNA specificity domain protein
           [Prevotella melaninogenica ATCC 25845]
          Length = 238

 Score = 60.2 bits (144), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 25/178 (14%), Positives = 64/178 (35%), Gaps = 8/178 (4%)

Query: 244 LNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKR 303
           + +      ++ I  L    + Q     +     E+ ++   VD G+++F +      K 
Sbjct: 64  MQKYRPTTNDAGIPVLKIKELGQGKVDEHSDQCSENIDSQYKVDNGDVIFSWSGTLMVKI 123

Query: 304 SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVK 363
                   E G+    +           Y  W +             +     +K  +++
Sbjct: 124 WCG----GECGLNQHLFKVTSEKYPKWFYYFWTLHHLKKFIHIAQDKAVTMGHIKRSELE 179

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           +  VL+P  K+  +I  +I+   A+I   +    + +  L   R + +   ++G++++
Sbjct: 180 KSEVLIPSNKKLIEIDKIISPLLAKI---IALQTECLN-LTALRDTLLPKLMSGEVEI 233


>gi|315634372|ref|ZP_07889659.1| type I restriction/modification specificity protein
           [Aggregatibacter segnis ATCC 33393]
 gi|315476962|gb|EFU67707.1| type I restriction/modification specificity protein
           [Aggregatibacter segnis ATCC 33393]
          Length = 183

 Score = 60.2 bits (144), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 21/144 (14%), Positives = 56/144 (38%), Gaps = 3/144 (2%)

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG--IITSAYMAV 323
            K  + N  +K    +    +   +I+    DL N K   ++  V E     +      +
Sbjct: 25  SKFISTNGAVKKYCNDQLVPLFKEDILIVMSDLPNGKALAKTFFVTEDNKYTLNQRIGRI 84

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
                     +++    +  K      +G  + +L+ + +  + + +PP++EQ  I +++
Sbjct: 85  TVKEEVELLPSFVNHFLNRNKQLTKYDNGTDQTNLRKDQILDVVIPIPPLEEQQRIVSIL 144

Query: 383 NVETARIDVLVEKIEQSIVLLKER 406
           +      + + E +  +I   ++R
Sbjct: 145 DKFETLTNSITEGLPLAIEQSQKR 168


>gi|260905938|ref|ZP_05914260.1| restriction modification system DNA specificity domain
           [Brevibacterium linens BL2]
          Length = 388

 Score = 60.2 bits (144), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 58/407 (14%), Positives = 136/407 (33%), Gaps = 50/407 (12%)

Query: 24  HWKVVPIKRFTKLNTGRTSE----SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            W+ + I     L  G T       G+  + +   D             ++ Q D   V 
Sbjct: 4   GWRKITIGELCTLTKGTTPTQKAIPGQYPLVVTAAD---------SLSSDTYQFDGEAVC 54

Query: 80  IFAKGQILYGKLG---PYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV--T 134
           I      L    G     L++   A      +     L+ ++ +   ++   L +D    
Sbjct: 55  IP-----LVSSTGHGHASLKRVHYASGKFAVANIITALEARNGMDVEMKFLWLLLDHGRD 109

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           + I  + +G          + +  + +PPL EQ  I + I +    +D +I   +R+   
Sbjct: 110 EIIVPLMKGTANVSVSQAALASAHVILPPLDEQRRIVDLIES----VDDVIDRALRYTME 165

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
                QA    +          MK +    +  V        F +    ++  +   ++ 
Sbjct: 166 CNAVSQARRKDL----------MKATDYVRMDSVATMASGAAFPSSEQGMSVGSIPFVKV 215

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDL---QNDKRSLRSAQVM 311
           + ++L       +     +  +  +    ++   G ++F  +        +R L     +
Sbjct: 216 SDMNLPGNETHIRRANNYVSREAAARLGAKLWPSGTVIFPKVGAALSTEKRRVLTEVTAI 275

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
           +  ++    +        + +L   MR+  L         G   S+  + V+ +      
Sbjct: 276 DNNVMG---LVPIEGVSLTGFLFAFMRTVKLGLYAQP---GAVPSINQKHVRSIRAPRLS 329

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           I+EQ  I +    E   +D +++  E  +  L+  R++ +   ++G+
Sbjct: 330 IEEQSAIID--EAEC--LDAVMQSSEFQLDRLRNLRANLLTTLLSGE 372


>gi|253577075|ref|ZP_04854397.1| type I restriction-modification system specificity subunit
           [Paenibacillus sp. oral taxon 786 str. D14]
 gi|251843569|gb|EES71595.1| type I restriction-modification system specificity subunit
           [Paenibacillus sp. oral taxon 786 str. D14]
          Length = 204

 Score = 60.2 bits (144), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 22/163 (13%), Positives = 59/163 (36%), Gaps = 7/163 (4%)

Query: 28  VPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           V ++   ++  G++         +I  + + +++ G       +    +           
Sbjct: 21  VKLRDVAEIFRGKSILKQDLKPGNIKVLNISNLDDGEVLLDQLETIDEEERKVKRYEILP 80

Query: 84  GQILYGKLGPYLRKAIIADFDGIC---STQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
           G ++    G   + A+  +  G+    S   ++     +     + +L S   T  I++ 
Sbjct: 81  GDLVMTCRGTVNKLAVFPEAQGMVIASSNMIVIRFKSAIKSHFAKMFLESPVGTALIQSF 140

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
             G T+ + +   +  + +P+ P  +Q  + E+ I E  R   
Sbjct: 141 QRGTTVMNLNPADVAELELPLVPEDKQHELIEQYIREKERYKE 183



 Score = 40.2 bits (92), Expect = 0.60,   Method: Composition-based stats.
 Identities = 18/132 (13%), Positives = 40/132 (30%), Gaps = 18/132 (13%)

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL-A 334
           + E       + PG++V       N        +     I +S  + ++      ++   
Sbjct: 68  EEERKVKRYEILPGDLVMTCRGTVNKLAVFP--EAQGMVIASSNMIVIRFKSAIKSHFAK 125

Query: 335 WLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
             + S     +  +        +L   DV  L + + P  +Q +              L+
Sbjct: 126 MFLESPVGTALIQSFQRGTTVMNLNPADVAELELPLVPEDKQHE--------------LI 171

Query: 394 EKIEQSIVLLKE 405
           E+  +     KE
Sbjct: 172 EQYIREKERYKE 183


>gi|309810076|ref|ZP_07703922.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus iners SPIN 2503V10-D]
 gi|308169575|gb|EFO71622.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus iners SPIN 2503V10-D]
          Length = 416

 Score = 60.2 bits (144), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 50/405 (12%), Positives = 124/405 (30%), Gaps = 27/405 (6%)

Query: 31  KRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS--IFAKGQILY 88
                 +        + I  I   ++  G+  +        ++        +     I+ 
Sbjct: 17  SDIIDCSHSTPVWRDRGIRVIRNFNLNEGSLDFSKGAFVDEKTYLERTKRAVPEAEDIVI 76

Query: 89  GKLGPYLRKAII-ADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMS 147
            +  P    AII  +       + ++L+    +          +    + +    G+T+S
Sbjct: 77  SREAPMGTVAIIPHNLKCCLGQRLVLLKVNSDICSSSYLLFALMSGFVQNQFNKIGSTVS 136

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
           +     +    +P+          + I      I   I    +  + L    + +  Y  
Sbjct: 137 NLTIPELKETKIPLVKNH------KAIGKLLESIANKIQVNKQINDNLAAMIKTIYEYWF 190

Query: 208 TKGLNPD---VKMKDSGIEWVGLV------PDHWEVKPFFALVTELNRKNTKLIESNILS 258
            +   PD      K SG + V         P  W V+           K      S    
Sbjct: 191 IQFEFPDENGKPYKSSGGKMVWNEQLKRTIPQGWSVESIINTPLCYPIKPGIKPFSEKTY 250

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDP--GEIVFRFIDLQNDKRSLRSA--QVMERG 314
           L+  ++I         +  E+ E+   + P    + F  +        L S+    +   
Sbjct: 251 LATADVIGTSIGTGNPINYETRESRANMQPEINSVWFAKMKSSIKHLFLSSSMHDFIHSS 310

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIK 373
           I+++ +  ++       Y+A  + +     +   +  G  ++++  +D+K + +L+P   
Sbjct: 311 ILSTGFQGLQCTERSFEYIASFIGNDYFETLKDQLAHGATQEAVNNDDLKGVKILIPD-- 368

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
                 ++ +  + +   L+         L+  R   +   + GQ
Sbjct: 369 --NRTLDLYHSASRQNYQLIGSALIENKHLESLRDWLLPMLMNGQ 411



 Score = 41.3 bits (95), Expect = 0.27,   Method: Composition-based stats.
 Identities = 19/173 (10%), Positives = 52/173 (30%), Gaps = 18/173 (10%)

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMG-----LKPESYETYQIVDPGE 290
              + + + +       +  I  +   N+ +     + G               + +  +
Sbjct: 14  TLCSDIIDCSHSTPVWRDRGIRVIRNFNLNEGSLDFSKGAFVDEKTYLERTKRAVPEAED 73

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITS--AYMAVKPHGIDSTYLAWLMRSYDLCKVFYA 348
           IV            +       +  +      + V      S+YL + + S  +   F  
Sbjct: 74  IVISREAPMGTVAIIPHNL---KCCLGQRLVLLKVNSDICSSSYLLFALMSGFVQNQFNK 130

Query: 349 MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
           +GS    +L   ++K   + +  +K    I  ++     +I     ++ + I 
Sbjct: 131 IGS-TVSNLTIPELKETKIPL--VKNHKAIGKLLESIANKI-----QVNKQIN 175


>gi|261492505|ref|ZP_05989059.1| type I restriction-modification system, subunit S [Mannheimia
           haemolytica serotype A2 str. BOVINE]
 gi|261311868|gb|EEY13017.1| type I restriction-modification system, subunit S [Mannheimia
           haemolytica serotype A2 str. BOVINE]
          Length = 454

 Score = 60.2 bits (144), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 48/454 (10%), Positives = 119/454 (26%), Gaps = 70/454 (15%)

Query: 29  PIKRFTKLN-----TGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            +  F  +       G    + ++   +      S  G +          +     I   
Sbjct: 3   KLSDFISIKHGFAFKGEFITTEENANCLITPVNFSIGGGFKSDKFKYYTGEIPEKYILQP 62

Query: 84  GQILYGKLG------PYLRKAIIADFDG---ICSTQF--LVLQPKDVLPELLQGWLLSID 132
             ++                A++ +  G   + + +   +     ++  E L   + + +
Sbjct: 63  NDLIVTMTDLSKQADTLGYPALVPNISGKKMLHNQRIGLVEFLDNELDKEYLYFLMRTKE 122

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
              +I +   GAT+ H     I +     P L  Q LI + ++    +I           
Sbjct: 123 YRHQILSTATGATVHHTSPSKILDFEFEKPDLQTQKLIAQYLMILEEKIQLNTQTNQTLE 182

Query: 193 ELLKEKKQALV---------SYIVTKG-------LNPDVKMKDSGIEWVGLV-------- 228
            + +   ++           +  +  G       L+         IE +           
Sbjct: 183 AIAQAIFKSWFVDFDPVRAKAQAILDGKTSDEANLSAMAVFSGKAIEDLSQTEYQELWEI 242

Query: 229 -------------PDHWEVKPFFALVTELNRKNTKLIESNIL--------SLSYGNIIQK 267
                        P  W+      L      K     ES            +S  ++  +
Sbjct: 243 ADAFPSEFGDEGLPIGWKFNQADNLFDVGIGKTPPRKESEWFSDNANDTEWISIKDMGNQ 302

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT---SAYMAVK 324
                   +    E     +   I    + L       R +   +        + +    
Sbjct: 303 GLFITESSEYLKVEAVDKFNIKRIPENTVILSFKLTVGRVSITTKETTTNEAIAHFKIPS 362

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
              + S +L   ++++D   +     S +  ++  + +K + +L P           I  
Sbjct: 363 SSNLSSEFLYCYLKNFDFNNL--GSTSSIATAVNSKMIKEMKILEPSDLVINHFNEYIEG 420

Query: 385 ETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
              +I   + +       L + R   +   + G+
Sbjct: 421 IFNKIKENIIQNNN----LTKIRDELLPKLLNGE 450



 Score = 45.2 bits (105), Expect = 0.021,   Method: Composition-based stats.
 Identities = 19/195 (9%), Positives = 51/195 (26%), Gaps = 12/195 (6%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGK---------DIIYIGLEDVESGTGKYLP--KDGN 69
           +P  WK         +  G+T    +         D  +I ++D+ +         +   
Sbjct: 255 LPIGWKFNQADNLFDVGIGKTPPRKESEWFSDNANDTEWISIKDMGNQGLFITESSEYLK 314

Query: 70  SRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
               D   +    +  ++       + +  I   +   +      +         +    
Sbjct: 315 VEAVDKFNIKRIPENTVILS-FKLTVGRVSITTKETTTNEAIAHFKIPSSSNLSSEFLYC 373

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
            +            +  +  + K I  + +  P         E I     +I   I +  
Sbjct: 374 YLKNFDFNNLGSTSSIATAVNSKMIKEMKILEPSDLVINHFNEYIEGIFNKIKENIIQNN 433

Query: 190 RFIELLKEKKQALVS 204
              ++  E    L++
Sbjct: 434 NLTKIRDELLPKLLN 448


>gi|257891989|ref|ZP_05671642.1| type I restriction-modification system specificity subunit
           [Enterococcus faecium 1,231,410]
 gi|260560601|ref|ZP_05832766.1| predicted protein [Enterococcus faecium C68]
 gi|261209357|ref|ZP_05923734.1| predicted protein [Enterococcus faecium TC 6]
 gi|294619212|ref|ZP_06698695.1| type I restriction-modification system specificity subunit
           [Enterococcus faecium E1679]
 gi|314997568|ref|ZP_07862503.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecium TX0133a01]
 gi|257828349|gb|EEV54975.1| type I restriction-modification system specificity subunit
           [Enterococcus faecium 1,231,410]
 gi|260073400|gb|EEW61737.1| predicted protein [Enterococcus faecium C68]
 gi|260076639|gb|EEW64389.1| predicted protein [Enterococcus faecium TC 6]
 gi|291594555|gb|EFF25949.1| type I restriction-modification system specificity subunit
           [Enterococcus faecium E1679]
 gi|313588385|gb|EFR67230.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecium TX0133a01]
          Length = 187

 Score = 60.2 bits (144), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 18/118 (15%), Positives = 41/118 (34%), Gaps = 1/118 (0%)

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
              S      ++  +I+         K  L      E    +          + S Y+  
Sbjct: 67  ISNSKLIDLRLEENDILIARTGGTMGKSFLVKEISEESVFASYLIRIRLVEKLLSEYVDC 126

Query: 336 LMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            + S    K+   +  G  + ++   ++ +L + +PP++EQ  +T  I +    I  +
Sbjct: 127 FLDSPLYWKLLEKISYGTGQPNVNGTNLSKLLIPLPPLEEQQRMTTKIEMIRRSIRRI 184



 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 29/164 (17%), Positives = 62/164 (37%), Gaps = 7/164 (4%)

Query: 27  VVPIKRFT-KLNTGRTSESGK--DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            V +   + K+  G T  + K  ++ ++ + D++ G   +         +         +
Sbjct: 20  WVYLGSISTKIQYGYTDSAKKQGNVKFLRITDIQEGRVNWSSVPYCDISNSKLIDLRLEE 79

Query: 84  GQILYGKLGPYLRKAI----IADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
             IL  + G  + K+     I++     S    +   + +L E +  +L S    + +E 
Sbjct: 80  NDILIARTGGTMGKSFLVKEISEESVFASYLIRIRLVEKLLSEYVDCFLDSPLYWKLLEK 139

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           I  G    + +   +  + +P+PPL EQ  +  KI      I  
Sbjct: 140 ISYGTGQPNVNGTNLSKLLIPLPPLEEQQRMTTKIEMIRRSIRR 183


>gi|148983889|ref|ZP_01817208.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae SP3-BS71]
 gi|147924036|gb|EDK75148.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae SP3-BS71]
          Length = 213

 Score = 60.2 bits (144), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 20/116 (17%), Positives = 36/116 (31%), Gaps = 8/116 (6%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNSR 71
            IP  W+ V      ++  G +    KD        I +I + D E G           +
Sbjct: 83  DIPDTWEWVRFSTLVEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINNVKEKIK 142

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW 127
           +S  +      KG  L      + R  I+     I      +   ++ L +    +
Sbjct: 143 KSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYLFY 198


>gi|295087089|emb|CBK68612.1| Type I restriction modification DNA specificity domain.
           [Bacteroides xylanisolvens XB1A]
          Length = 366

 Score = 60.2 bits (144), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 15/131 (11%), Positives = 41/131 (31%), Gaps = 12/131 (9%)

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ 355
                    +      +  I   A      +        +      +  +      G + 
Sbjct: 3   GGNIGSMILITRENYFDMAIKNVALFKQYIYNDVLIKYLYFYLQSQVVSIKNTALGGAQS 62

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ---SIVLLK-----ERR 407
            +    ++   + +PP+ EQ  I      +   +D ++++ E+    +  LK     + +
Sbjct: 63  FVSLNMLRNYLMPIPPLNEQKKIIE----KFKLLDFVIQQYEKSYCELNNLKHELFPKLK 118

Query: 408 SSFIAAAVTGQ 418
            S +  A+ G+
Sbjct: 119 KSILQEAIQGK 129



 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 24/171 (14%), Positives = 47/171 (27%), Gaps = 6/171 (3%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNTKLIES--NILSLSYGNIIQKLETRNMGLKPESY 280
           E    +P  W+      +     +   +       I             + +        
Sbjct: 192 EIPFEIPVTWQWVRTKDIFQINPKNIAEDNCISAFIPMEKICATYGSEFSYDKVQWKTIK 251

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA----YMAVKPHGIDSTYLAWL 336
             Y     G++ F  I      R       +  GI         +      I+  YL + 
Sbjct: 252 TGYTHFADGDVAFAKITPCFQNRKSAIFHNLPNGIGAGTTELKVLRQFGETINRWYLLFF 311

Query: 337 MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           + S          G+  +Q +    ++     +PP++EQ  I N I    +
Sbjct: 312 LESPYFIDEATFKGTANQQRITSGYLENKLFPLPPLQEQNRIENHIKAIAS 362



 Score = 44.4 bits (103), Expect = 0.039,   Method: Composition-based stats.
 Identities = 32/165 (19%), Positives = 57/165 (34%), Gaps = 7/165 (4%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            IP  W+ V  K   ++N    +E      +I +E + +  G     D    ++  +  +
Sbjct: 196 EIPVTWQWVRTKDIFQINPKNIAEDNCISAFIPMEKICATYGSEFSYDKVQWKTIKTGYT 255

Query: 80  IFAKGQILYGKLGPYLRK------AIIADFDGICSTQFLV-LQPKDVLPELLQGWLLSID 132
            FA G + + K+ P  +         + +  G  +T+  V  Q  + +      + L   
Sbjct: 256 HFADGDVAFAKITPCFQNRKSAIFHNLPNGIGAGTTELKVLRQFGETINRWYLLFFLESP 315

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
                      A         + N   P+PPL EQ  I   I A 
Sbjct: 316 YFIDEATFKGTANQQRITSGYLENKLFPLPPLQEQNRIENHIKAI 360


>gi|148265620|ref|YP_001232326.1| hypothetical protein Gura_3599 [Geobacter uraniireducens Rf4]
 gi|146399120|gb|ABQ27753.1| hypothetical protein Gura_3599 [Geobacter uraniireducens Rf4]
          Length = 482

 Score = 60.2 bits (144), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 52/408 (12%), Positives = 117/408 (28%), Gaps = 43/408 (10%)

Query: 35  KLNTGRTSESG---KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI---FAKGQILY 88
           K++ G           + ++   +V   +             +   +        G +L 
Sbjct: 51  KISDGTHFTPSYTENGVPFLSALNVLENSLSLEAGHRFISSEEHDNLYRRCDPQPGDVLL 110

Query: 89  GKLGPYLRKAIIAD-----FDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
            K+G   R A +       F    S   L  + + + PE+L  ++ S     ++  + +G
Sbjct: 111 RKVGVGPRWAAVVPEGLPVFSIFVSVALLRPRTELIAPEVLATFINSESGQTQLLRVQKG 170

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI-------------- 189
           A+      + I ++ +P+     Q  I E            I                  
Sbjct: 171 ASQPDLHLEDIRDVFIPLFGQEFQNRIVELHQNSVEVSSKGIASYKNAETLLLNALNLAT 230

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNT 249
                     ++     V  G       +    E   L+  + E       +   N +  
Sbjct: 231 YTPTTKNTNIKSFKESFVASGRMDAEYYQPMFDEIEELIKSNGEYFKRVEEIQTYNSRGM 290

Query: 250 KLIESNILSLSYGNII-------QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK 302
             I     ++                      +K  S E    V   +I+         +
Sbjct: 291 AAIYDETGTVDMITQKHILEAGLNYDNFDKTNIKHFSTEETSFVAENDILIYGTGANIGR 350

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFED 361
              +     ++ +     + ++    D  Y+A+++ S+        M +G  +  L  +D
Sbjct: 351 A--QPYLSEKKAVACQDIIILRV-IEDPVYVAFVINSFIGRLQTEKMRTGSAQPHLYPKD 407

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
           V ++ +       Q  I         +I   +   +QS  LL+  + +
Sbjct: 408 VAQVLIPFVAKDTQLKI-------REKIISSLALKKQSTALLETAKRA 448


>gi|259501398|ref|ZP_05744300.1| conserved hypothetical protein [Lactobacillus iners DSM 13335]
 gi|259167147|gb|EEW51642.1| conserved hypothetical protein [Lactobacillus iners DSM 13335]
          Length = 168

 Score = 60.2 bits (144), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 21/162 (12%), Positives = 52/162 (32%), Gaps = 9/162 (5%)

Query: 29  PIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKD--GNSRQSDTSTVSI 80
            +     +  G T ++        +I ++ ++D  +        +        D S+  +
Sbjct: 4   KLSEIMDIIGGGTPKTSNPEYWNGNIPWLSVKDFNNDYRYVYETEKAITQAGLDNSSTKM 63

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
             +   +    G     A+I  F    +     L+ K  L +    + L       ++  
Sbjct: 64  LKRNDSIISARGTVGEMAMIP-FPMAFNQSCYGLRAKKGLVDAEYLYYLIKHNVVVLKKN 122

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
             G+           +I + +P L EQ ++   +     +I+
Sbjct: 123 THGSVFDTITHDTFDDIEVELPSLKEQKVVASILRNLDDKIE 164



 Score = 49.0 bits (115), Expect = 0.001,   Method: Composition-based stats.
 Identities = 15/148 (10%), Positives = 45/148 (30%), Gaps = 9/148 (6%)

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPE-----SYETYQIVDPGEIVFRFIDLQNDK 302
           N +    NI  LS  +            K          + +++   + +        + 
Sbjct: 21  NPEYWNGNIPWLSVKDFNNDYRYVYETEKAITQAGLDNSSTKMLKRNDSIISARGTVGEM 80

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDV 362
             +            S Y      G+      + +  +++  +       +  ++  +  
Sbjct: 81  AMIP----FPMAFNQSCYGLRAKKGLVDAEYLYYLIKHNVVVLKKNTHGSVFDTITHDTF 136

Query: 363 KRLPVLVPPIKEQFDITNVINVETARID 390
             + V +P +KEQ  + +++     +I+
Sbjct: 137 DDIEVELPSLKEQKVVASILRNLDDKIE 164


>gi|212691986|ref|ZP_03300114.1| hypothetical protein BACDOR_01481 [Bacteroides dorei DSM 17855]
 gi|212665378|gb|EEB25950.1| hypothetical protein BACDOR_01481 [Bacteroides dorei DSM 17855]
          Length = 147

 Score = 60.2 bits (144), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 22/139 (15%), Positives = 58/139 (41%), Gaps = 10/139 (7%)

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM--ERGIITSAYMAVKP---HGIDSTYL 333
             E    +  G+++F       D+  + +  +   ++  + S    +     + + S YL
Sbjct: 8   DNEKQNTLLYGDLLFTLSSETPDEVGIGAVYLGESDKYYLNSFCFGLHMTATNKVYSPYL 67

Query: 334 AWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
           A+L+ +    K  Y +  G  R +L+  D  +    +P  + Q +I   +N  ++++   
Sbjct: 68  AYLVSNSVFRKFIYPLAQGSTRFNLQKNDFMKKKFSLPTFENQKEIARTLNALSSKL--- 124

Query: 393 VEKIEQSIVLLKERRSSFI 411
            E   + ++  +E++   +
Sbjct: 125 -ETERKLLLNYQEQKQYLL 142


>gi|295090945|emb|CBK77052.1| Restriction endonuclease S subunits [Clostridium cf.
           saccharolyticum K10]
          Length = 226

 Score = 60.2 bits (144), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 26/197 (13%), Positives = 66/197 (33%), Gaps = 8/197 (4%)

Query: 229 PDHWEVKPFFALVTELNRK-NTKLIESNILSLSYGNIIQKLETRNMGLKPE--SYETYQI 285
           PD W+      +   ++R  + K  +    ++     I+         +         + 
Sbjct: 29  PDEWKNVTLEDITALISRGISPKYADDTDQTVINQKCIRNHIIDLSFARSHRPKVINNKW 88

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV 345
           +  G+++          R+ +         + S    V+P   +  +   L  +    ++
Sbjct: 89  LQFGDLLINSTGDGTLGRAAQVWFQPHNLTVDSHVTIVRPAAENMIFYIGLWGTQHEKEI 148

Query: 346 FYA-MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLK 404
                GS  +  L  + VK + +L+P  +         N   A +   +   ++    L 
Sbjct: 149 ESLHTGSTGQTELPRDRVKAIELLLPDKET----LERFNALIAPMAAAIVSNQEENNRLA 204

Query: 405 ERRSSFIAAAVTGQIDL 421
             R + +   ++G+ID+
Sbjct: 205 SIRDALLPKLMSGKIDV 221



 Score = 46.7 bits (109), Expect = 0.007,   Method: Composition-based stats.
 Identities = 20/191 (10%), Positives = 47/191 (24%), Gaps = 9/191 (4%)

Query: 21  IPKHWKVVPIKRF-TKLNTGRTSE--SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +P  WK V ++     ++ G + +     D   I  + + +          +        
Sbjct: 28  VPDEWKNVTLEDITALISRGISPKYADDTDQTVINQKCIRNHIIDLSFARSHRP--KVIN 85

Query: 78  VSIFAKGQILYGKLGP----YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
                 G +L    G        +      +    +   +++P         G   +   
Sbjct: 86  NKWLQFGDLLINSTGDGTLGRAAQVWFQPHNLTVDSHVTIVRPAAENMIFYIGLWGTQHE 145

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            +           +      +  I + +P           I      I +   E  R   
Sbjct: 146 KEIESLHTGSTGQTELPRDRVKAIELLLPDKETLERFNALIAPMAAAIVSNQEENNRLAS 205

Query: 194 LLKEKKQALVS 204
           +       L+S
Sbjct: 206 IRDALLPKLMS 216


>gi|218263888|ref|ZP_03477844.1| hypothetical protein PRABACTJOHN_03534 [Parabacteroides johnsonii
           DSM 18315]
 gi|218222438|gb|EEC95088.1| hypothetical protein PRABACTJOHN_03534 [Parabacteroides johnsonii
           DSM 18315]
          Length = 394

 Score = 60.2 bits (144), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 47/383 (12%), Positives = 112/383 (29%), Gaps = 46/383 (12%)

Query: 39  GRTSESGKDIIYIGLEDVES-GTGKYLPKDGNSRQSDTSTVSIFAKGQILY-----GKLG 92
           G    S   I  I   +  + G            +          +G  +       K  
Sbjct: 30  GSEPTSENAIKVIRTTNFTNEGHLDLADVVTRDIEPKKVARKKLKQGDTILERSGGTKDN 89

Query: 93  PYLRKAIIADF-DGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATM----S 147
           P  R     +  D + +     L+PK+ +  +   + L         A+   A+      
Sbjct: 90  PVGRVVFFDEIGDYLLNNFTQALRPKESVNPVYLFYALYNSYNINKAAMRAMASQTTGIQ 149

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
           +       +  + +P   EQ         +  +I     +                S  +
Sbjct: 150 NLSMSDFMSKSIVLPSRDEQN--------KFEQIYRQADKSKFGDFK---------SQFI 192

Query: 208 TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK 267
               NP    + + ++ +G             +      K + +    +    Y   +  
Sbjct: 193 EMFGNPLSLNQKNELKRLGEC--CILNPRRPNIALCDTDKVSFIPMPAVSEDGYLVDMTD 250

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFID--LQNDKRSLRSAQVMERGIITSAYMAVKP 325
            E   +       + +   +  +++F  I   ++N K ++    +   G+ ++ +  ++P
Sbjct: 251 EEYGKVK------KGFTYFENNDVLFAKITPCMENGKGAIVHGLINGIGMGSTEFHVLRP 304

Query: 326 HG--IDSTYLAWLMRSYDLCKV--FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
                   +L  L R     +       G+G ++ +    +    V +P I+EQ      
Sbjct: 305 INGISSPYWLLALTRMPIFRERAAKNMSGTGGQKRVSASYLDHFMVGLPAIEEQRRF--- 361

Query: 382 INVETARIDVLVEKIEQSIVLLK 404
                 + D     I++++V L 
Sbjct: 362 -EAIYRQADKSKSVIQKTLVYLN 383



 Score = 55.6 bits (132), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 20/169 (11%), Positives = 49/169 (28%), Gaps = 11/169 (6%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
            IE  G V  + +++   +        +    E+ I  +   N   +       +     
Sbjct: 4   FIEMFGTVESYCKLEDLVSDTFPGEWGSEPTSENAIKVIRTTNFTNEGHLDLADVVTRDI 63

Query: 281 E----TYQIVDPGEIVFRFIDLQND---KRSLRSAQVMERGIITSAYMAVKPHGIDSTYL 333
           E      + +  G+ +        D    R +   ++ +  +            ++  YL
Sbjct: 64  EPKKVARKKLKQGDTILERSGGTKDNPVGRVVFFDEIGDYLLNNFTQALRPKESVNPVYL 123

Query: 334 AWLMRSYDLCKVF----YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
            + + +            A  +   Q+L   D     +++P   EQ   
Sbjct: 124 FYALYNSYNINKAAMRAMASQTTGIQNLSMSDFMSKSIVLPSRDEQNKF 172


>gi|281357557|ref|ZP_06244044.1| restriction modification system DNA specificity domain protein
           [Victivallis vadensis ATCC BAA-548]
 gi|281315814|gb|EFA99840.1| restriction modification system DNA specificity domain protein
           [Victivallis vadensis ATCC BAA-548]
          Length = 229

 Score = 60.2 bits (144), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 24/198 (12%), Positives = 63/198 (31%), Gaps = 23/198 (11%)

Query: 224 WVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY 283
            +G +P  W+V     ++     K     E   L+     +           K       
Sbjct: 50  ELGQIPAGWQVGTLKDMLEVRYGK-----EHKKLADGAIPVYGSGGLMRHVEKALYNGES 104

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC 343
            ++     +   + +             E   + + + +V      + YL  ++   DL 
Sbjct: 105 VLIPRKGTLNNVMRVTG-----------EFWTVDTMFYSVPRKTGAAKYLYHILSKLDLT 153

Query: 344 KVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
                       S+  + +  + +++PP      +    +  T+     +E  +  +  L
Sbjct: 154 ---SMNSGSAVPSMTTDILNAIKIILPP----DKVLKDFDYLTSFFWESIETKKMEMQKL 206

Query: 404 KERRSSFIAAAVTGQIDL 421
            + R + +   ++G+ID+
Sbjct: 207 AQLRDALLPELMSGEIDV 224



 Score = 47.9 bits (112), Expect = 0.003,   Method: Composition-based stats.
 Identities = 30/201 (14%), Positives = 69/201 (34%), Gaps = 25/201 (12%)

Query: 12  DSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSR 71
           DS    +G IP  W+V  +K   ++  G+  +   D                +P  G+  
Sbjct: 48  DSE---LGQIPAGWQVGTLKDMLEVRYGKEHKKLADGA--------------IPVYGSGG 90

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
                  +++    +L  + G       +        T F  +  K    + L   L  +
Sbjct: 91  LMRHVEKALYNGESVLIPRKGTLNNVMRVTGEFWTVDTMFYSVPRKTGAAKYLYHILSKL 150

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
           D+T    ++  G+ +       +  I + +PP      + +     T      I  +   
Sbjct: 151 DLT----SMNSGSAVPSMTTDILNAIKIILPP----DKVLKDFDYLTSFFWESIETKKME 202

Query: 192 IELLKEKKQALVSYIVTKGLN 212
           ++ L + + AL+  +++  ++
Sbjct: 203 MQKLAQLRDALLPELMSGEID 223


>gi|167768809|ref|ZP_02440862.1| hypothetical protein ANACOL_00126 [Anaerotruncus colihominis DSM
           17241]
 gi|167668981|gb|EDS13111.1| hypothetical protein ANACOL_00126 [Anaerotruncus colihominis DSM
           17241]
          Length = 228

 Score = 60.2 bits (144), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 22/168 (13%), Positives = 56/168 (33%), Gaps = 3/168 (1%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLET--RNMGLKPESYETYQ 284
            +P  W      +    +    ++    N + +   +         +++ +        +
Sbjct: 55  ELPVGWVWCRGHSCFESMESTKSQSEFFNYIDIDAIDNRLHRIKAAKHLLVSEAPSRASR 114

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCK 344
            V  G ++F  +    +  +L   +       TS Y+      +   ++ +LM S  +  
Sbjct: 115 AVKNGSVLFSLVRPYLENIALVEERYSHCIASTSFYVCNSNGALLPEFMYFLMISGYMVN 174

Query: 345 VFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
                  G    S+  ++++     +PP+ EQ  I   +N     I+ 
Sbjct: 175 SLNQYMKGDNSPSISKDNIESWLYPIPPLDEQKVICTKLNTTFTLIEN 222



 Score = 56.3 bits (134), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 33/169 (19%), Positives = 57/169 (33%), Gaps = 6/169 (3%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +P  W           +   T    +   YI ++ +++   +             S  S
Sbjct: 55  ELPVGWVWCR-GHSCFESMESTKSQSEFFNYIDIDAIDNRLHRIKAAKHLLVSEAPSRAS 113

Query: 80  I-FAKGQILYGKLGPYLRKAIIADF---DGICSTQFLVLQPKDV-LPELLQGWLLSIDVT 134
                G +L+  + PYL    + +      I ST F V       LPE +   ++S  + 
Sbjct: 114 RAVKNGSVLFSLVRPYLENIALVEERYSHCIASTSFYVCNSNGALLPEFMYFLMISGYMV 173

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
             +    +G          I +   PIPPL EQ +I  K+      I+ 
Sbjct: 174 NSLNQYMKGDNSPSISKDNIESWLYPIPPLDEQKVICTKLNTTFTLIEN 222


>gi|332202396|gb|EGJ16465.1| type I restriction modification DNA specificity domain protein
           [Streptococcus pneumoniae GA41317]
          Length = 190

 Score = 60.2 bits (144), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 25/175 (14%), Positives = 60/175 (34%), Gaps = 3/175 (1%)

Query: 232 WEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEI 291
             +K  +    +   + +             NII     + +  +       ++V    +
Sbjct: 1   MRIKSIYWNFGQNKPEKSFRYIDTSSIDRKKNIINYKNLQYLSPEQAPSRARKLVSQNNV 60

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
           +F  +       ++     ++  +I S    V    ++ TYL + + S +         +
Sbjct: 61  LFSTVRPYLKNIAVVR--ELKEYLIASTAFIVLDTLLNETYLKYYLLSDNFINRVNNKST 118

Query: 352 GLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
           G    ++   +   L + +PP+ EQ  I   I     ++  ++E   +   L KE
Sbjct: 119 GTSYPAINDYNFNLLLIALPPLSEQQRIVEAIEPALEKVMNMLESYNRLEQLDKE 173



 Score = 45.9 bits (107), Expect = 0.012,   Method: Composition-based stats.
 Identities = 34/174 (19%), Positives = 66/174 (37%), Gaps = 7/174 (4%)

Query: 42  SESGKDIIYIGLEDVESGTGKYLPKDG---NSRQSDTSTVSIFAKGQILYGKLGPYLRKA 98
           ++  K   YI    ++        K+    +  Q+ +    + ++  +L+  + PYL+  
Sbjct: 13  NKPEKSFRYIDTSSIDRKKNIINYKNLQYLSPEQAPSRARKLVSQNNVLFSTVRPYLKNI 72

Query: 99  IIA---DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIG 155
            +        I ST F+VL        L   +LLS +   R+     G +    +     
Sbjct: 73  AVVRELKEYLIASTAFIVLDTLLNETYLKY-YLLSDNFINRVNNKSTGTSYPAINDYNFN 131

Query: 156 NIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTK 209
            + + +PPL+EQ  I E I     ++  ++    R  +L KE    L +     
Sbjct: 132 LLLIALPPLSEQQRIVEAIEPALEKVMNMLESYNRLEQLDKEFPDKLKNLFFNM 185


>gi|207108193|ref|ZP_03242355.1| type I restriction enzyme S protein (hsdS) [Helicobacter pylori
           HPKX_438_CA4C1]
          Length = 158

 Score = 60.2 bits (144), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 21/145 (14%), Positives = 52/145 (35%), Gaps = 5/145 (3%)

Query: 272 NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST 331
           N G     Y      D   I            +  + +    G+    Y     + + + 
Sbjct: 3   NSGRDLYGYYHDFNNDGENITIASRGEYAGFINYFNEKFFAGGLCYP-YKVKDTNELLTK 61

Query: 332 YLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
           +L + +++ ++  +   +  G   +L   D++ L + +PP++ Q +I  +++  +     
Sbjct: 62  FLYFYLKTNEIQIMENLVFRGSIPALNKADIETLTIPIPPLEIQQEIVKILDQFSLLTTD 121

Query: 392 LVEKIEQSIVLLKE----RRSSFIA 412
           L+  I   I   K+     R   + 
Sbjct: 122 LLAGIPAEIKARKKQYEYYREKLLT 146


>gi|159026847|emb|CAO89098.1| unnamed protein product [Microcystis aeruginosa PCC 7806]
          Length = 677

 Score = 60.2 bits (144), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 35/309 (11%), Positives = 90/309 (29%), Gaps = 19/309 (6%)

Query: 98  AIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNI 157
           A +    GI ++  +V +            +  I    + + I +            G  
Sbjct: 369 AFVPYGTGIKTSLLVVQKLPANNDSCFMAQIKKIGYDVKGQTIYKRNQSGVIARTKSGLP 428

Query: 158 PMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKM 217
            +           R  I  E  +    I      +   +   +  +         P+ + 
Sbjct: 429 IVDDDIDDISQSFRSFINGEFAQNSDCIYTVKNTLLNSRLDAEHYL---------PNDQK 479

Query: 218 KDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKP 277
               ++++G  P                 +++++    I  + Y  + Q +  + +    
Sbjct: 480 LLEHLKYIGAKPLGEITDILRDAADFRLARDSEIRYIAISDVDYRTM-QVVSQQIIKAHE 538

Query: 278 ESYETYQIVDPGEIVFRFIDLQN----DKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL 333
                   +  G+I+               +L +             +     G++  +L
Sbjct: 539 APSRATYRLYKGDIITAISGASTGTPRQATALITEDEDGAICSNGFSVLRNIRGVEPLFL 598

Query: 334 AWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
              MR+    +      +G    ++  +D+ ++ V +PP  EQ  I   I    A I  +
Sbjct: 599 LVYMRTDLFLRQIKRYMTGHAIPTILVDDLSKVLVPIPPKSEQQRIAKSI----AEIQAI 654

Query: 393 VEKIEQSIV 401
            ++  ++  
Sbjct: 655 RKEALKASE 663


>gi|269978340|gb|ACZ55904.1| truncated putative type I restriction-modification system
           specificity subunit S [Helicobacter pylori]
          Length = 276

 Score = 60.2 bits (144), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 37/268 (13%), Positives = 86/268 (32%), Gaps = 24/268 (8%)

Query: 149 ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVT 208
            D         PIPPL  Q  I + + A T     L TE    ++  K++ Q     ++ 
Sbjct: 1   MDMTAFKKYKFPIPPLEIQQEIVKILDAFTELNTELNTELNTELKARKKQYQ-YYQNMLL 59

Query: 209 KGLNPDVKMKDSGIEWVGLV---------PDHWEVKPFFALVTELNRKNTKLIESNILSL 259
              + +   KD+ I+              P+  E +    +   +  K     E      
Sbjct: 60  DFNDINSNHKDAKIKSYPKRLKTLLQTLAPEGVEFRKLGEVCEIIRGKRVTKKEI----- 114

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
                   L+     +          ++        I +     +       ++      
Sbjct: 115 --------LDKGKYPVVSGGIGFMGYLNEYNREENTITIAQYGTAGFVNWQNQKFWANDV 166

Query: 320 YMAVKPHGID-STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
             +  P     + YL +++ +        +  S +  S+   ++ ++ + +PP++ Q +I
Sbjct: 167 CFSAIPKETLINRYLYYVLTNMQNYLYSISNRSAIPYSISSNNIMQITIPIPPLEIQQEI 226

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKER 406
             +++  +     L+  I   I   K++
Sbjct: 227 VKILDQFSILTTDLLAGIPAEIKARKKQ 254



 Score = 50.2 bits (118), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 22/156 (14%), Positives = 41/156 (26%), Gaps = 11/156 (7%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           P+  +   +    ++  G+     + +            GKY    G             
Sbjct: 89  PEGVEFRKLGEVCEIIRGKRVTKKEIL----------DKGKYPVVSGGIGFMGYLNEYNR 138

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            +  I   + G         +     +       PK+ L      ++L+           
Sbjct: 139 EENTITIAQYGT-AGFVNWQNQKFWANDVCFSAIPKETLINRYLYYVLTNMQNYLYSISN 197

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
             A         I  I +PIPPL  Q  I + +   
Sbjct: 198 RSAIPYSISSNNIMQITIPIPPLEIQQEIVKILDQF 233


>gi|284053770|ref|ZP_06383980.1| HsdS [Arthrospira platensis str. Paraca]
          Length = 238

 Score = 60.2 bits (144), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 24/192 (12%), Positives = 61/192 (31%), Gaps = 16/192 (8%)

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNIIQKL----ETRNMGLKPESYETYQIVDPGEIV 292
               +          ++  I ++ YG I              ++ E   +    +PG++V
Sbjct: 35  IGEFIRGKRFTKADYVDDGIPAIHYGEIYTHYGVAASHTLSQVRAEMAASLCYAEPGDVV 94

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM-GS 351
              +    +      A +    +          H I+  +++++M++            S
Sbjct: 95  MTGVGETVEDVGKAVAWIGSEKVAIHDDSWAFRHSINPKFVSYVMQTTAFINEKAKHVSS 154

Query: 352 GLRQSLKFEDVKRLPVLVP-------PIKEQFDITNVINVETARIDVLVEKIEQSI---- 400
           G    L    +K++P+ +P        ++EQ  I  +++        + E +   I    
Sbjct: 155 GKVNRLLINGIKKVPIPIPYPNDPKKSLEEQAHIVAILDKFDTLTHSISEGLPHEIAWRQ 214

Query: 401 VLLKERRSSFIA 412
              +  R   + 
Sbjct: 215 KQYEYYRDLLLT 226



 Score = 42.9 bits (99), Expect = 0.099,   Method: Composition-based stats.
 Identities = 28/238 (11%), Positives = 72/238 (30%), Gaps = 26/238 (10%)

Query: 3   HYKAYPQYKD---SGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES----GKDIIYIGLED 55
             K Y  Y+D   +  +  G +    +  P+    +   G+           I  I   +
Sbjct: 8   RQKQYNYYRDQLLTFEE--GEV----EWKPLGEIGEFIRGKRFTKADYVDDGIPAIHYGE 61

Query: 56  VESGTGKYLPKDGNSRQSDT-STVSIFAKGQILYGKLGPY----LRKAIIADFDGICSTQ 110
           + +  G       +  +++  +++     G ++   +G       +       + +    
Sbjct: 62  IYTHYGVAASHTLSQVRAEMAASLCYAEPGDVVMTGVGETVEDVGKAVAWIGSEKVAIHD 121

Query: 111 FLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPP------- 163
                   + P+ +   + +               ++     GI  +P+PIP        
Sbjct: 122 DSWAFRHSINPKFVSYVMQTTAFINEKAKHVSSGKVNRLLINGIKKVPIPIPYPNDPKKS 181

Query: 164 LAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSG 221
           L EQ  I   +  +   +   I+E +      ++K+      ++      + K   S 
Sbjct: 182 LEEQAHIVAILD-KFDTLTHSISEGLPHEIAWRQKQYEYYRDLLLTFPKKEEKQCASD 238


>gi|13508082|ref|NP_110031.1| hypothetical protein MPN343 [Mycoplasma pneumoniae M129]
 gi|12229978|sp|P75435|T1SD_MYCPN RecName: Full=Putative type-1 restriction enzyme specificity
           protein MPN_343; AltName: Full=S.MpnORFDP; AltName:
           Full=Type I restriction enzyme specificity protein
           MPN_343; Short=S protein
 gi|1674185|gb|AAB96141.1| hypothetical protein MPN_343 [Mycoplasma pneumoniae M129]
          Length = 330

 Score = 60.2 bits (144), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 25/180 (13%), Positives = 53/180 (29%), Gaps = 13/180 (7%)

Query: 239 ALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ-------IVDPGEI 291
             +   N         +I  +  G  I K   RN   +   Y            +   + 
Sbjct: 132 RKIYGANIPFETFQVKDICEIRRGRAITKAYIRNNPGENPVYSAATTNDGELGRIKDCDF 191

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAY-MAVKPHGIDSTYLAWLMRSYDLCKVFYAMG 350
              +I    +  +        +   +    +    +    T     +   +  K  + + 
Sbjct: 192 DGEYITWTTNGYAGVVFYRNGKFNASQDCGVLKVKNKKICTKFLSFLLKIEAPKFVHNLA 251

Query: 351 SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
           S  R  L  + +  + +  PP++ Q  I +++       + LVE I   I L   R+   
Sbjct: 252 S--RPKLSQKVMAEIELSFPPLEIQEKIADILFAFEKLCNDLVEGIPAEIEL---RKKQL 306



 Score = 42.1 bits (97), Expect = 0.16,   Method: Composition-based stats.
 Identities = 7/47 (14%), Positives = 19/47 (40%)

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
             +L     + + +  PP++ Q  I  +++  T     L  ++   +
Sbjct: 13  IPNLNLSRTEEIELDFPPLQIQQKIATILDTFTELSAELSAELSAEL 59



 Score = 39.4 bits (90), Expect = 1.2,   Method: Composition-based stats.
 Identities = 23/188 (12%), Positives = 50/188 (26%), Gaps = 16/188 (8%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI--FAK 83
           +   +K   ++  GR               + +  G+       +               
Sbjct: 142 ETFQVKDICEIRRGRAITK---------AYIRNNPGENPVYSAATTNDGELGRIKDCDFD 192

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
           G+ +      Y       +     S    V   K    ++   +L  +   +  + +   
Sbjct: 193 GEYITWTTNGYAGVVFYRNGKFNASQDCGV--LKVKNKKICTKFLSFLLKIEAPKFVHNL 250

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID---TLITERIRFIELLKEKKQ 200
           A+      K +  I +  PPL  Q  I + + A     +     I   I   +   +  Q
Sbjct: 251 ASRPKLSQKVMAEIELSFPPLEIQEKIADILFAFEKLCNDLVEGIPAEIELRKKQLDYYQ 310

Query: 201 ALVSYIVT 208
             +   V 
Sbjct: 311 NFLFNWVQ 318


>gi|312872178|ref|ZP_07732251.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus iners LEAF 2062A-h1]
 gi|311092262|gb|EFQ50633.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus iners LEAF 2062A-h1]
          Length = 178

 Score = 60.2 bits (144), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 27/134 (20%), Positives = 59/134 (44%), Gaps = 7/134 (5%)

Query: 274 GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII---TSAYMAVK-PHGID 329
             + E +        G+ +   I    +        +++ G I   ++ Y+  +   G D
Sbjct: 45  SFELEKFSGGTKFRNGDTIMARITPCLENGKTAKVNILDDGEIGFGSTEYIVFRAKKGTD 104

Query: 330 STYLAWLMRSYDLCK--VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
             YL +L+ S  + +  +   +GS  RQ ++ + V+ L + VP I+EQ  I  ++     
Sbjct: 105 KDYLYYLVCSPLVREPAIKSMVGSSGRQRVQTDVVQGLSIAVPSIEEQRQIGGILRALDD 164

Query: 388 RIDVLVEKIEQSIV 401
           +I+ L  +I +++ 
Sbjct: 165 KIE-LNNEINKNLA 177



 Score = 44.4 bits (103), Expect = 0.032,   Method: Composition-based stats.
 Identities = 21/167 (12%), Positives = 56/167 (33%), Gaps = 13/167 (7%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W +  +      N   +   G     I ++ ++     +     +      S  + F  G
Sbjct: 5   WTIKTLSDIADFNPRESLSKGTLAKKIAMDKLQ----PFCRDVPSFELEKFSGGTKFRNG 60

Query: 85  QILYGKLGPYLR-------KAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
             +  ++ P L          +     G  ST+++V + K    +    +L+   + +  
Sbjct: 61  DTIMARITPCLENGKTAKVNILDDGEIGFGSTEYIVFRAKKGTDKDYLYYLVCSPLVREP 120

Query: 138 --EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
             +++   +         +  + + +P + EQ  I   + A   +I+
Sbjct: 121 AIKSMVGSSGRQRVQTDVVQGLSIAVPSIEEQRQIGGILRALDDKIE 167


>gi|332829722|gb|EGK02368.1| hypothetical protein HMPREF9455_01638 [Dysgonomonas gadei ATCC
           BAA-286]
          Length = 164

 Score = 60.2 bits (144), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 23/159 (14%), Positives = 55/159 (34%), Gaps = 11/159 (6%)

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
              I + E  +      S   Y ++  GE+ +     +N K            ++   Y 
Sbjct: 7   HGFINQSEKYSNDNAGNSLSKYTLLKQGELAYNRGSSRNKKYGSVFFLNYPNALVPYVYH 66

Query: 322 --AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ-----SLKFEDVKRLPVLVPPIKE 374
              +     D  + A+L+ S  L K    + S   +     ++  ED   + V +P +++
Sbjct: 67  SFRMNSQICDVIFYAYLLNSKLLNKELRKIISSTARMDGLLNISREDFFSIKVPLPKLEK 126

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           Q  I+  +N    +     +  +  +    +++   +  
Sbjct: 127 QQLISTSLNKLMQK----TKLEKDVVTRYHKQKQYILQQ 161


>gi|121609954|ref|YP_997761.1| restriction modification system DNA specificity subunit
           [Verminephrobacter eiseniae EF01-2]
 gi|121554594|gb|ABM58743.1| restriction modification system DNA specificity domain
           [Verminephrobacter eiseniae EF01-2]
          Length = 549

 Score = 60.2 bits (144), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 24/133 (18%), Positives = 49/133 (36%), Gaps = 11/133 (8%)

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA-----YMAVKPHGIDSTYLAWLMRS 339
                + +   I    +   L   Q  E   I         +  KP+  D+ Y  +L  S
Sbjct: 167 RFQDRDTLMARITPCLENGKLARFQAPEGEPIGHGSTEFIVIRGKPNVTDNDYAYYLAIS 226

Query: 340 YDLCK--VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
            ++ K  +    G+  RQ +  + + ++ VL+PP+ EQ  I +++      +D  +    
Sbjct: 227 SEVRKFAISQMTGTSGRQRVPTDALGKISVLLPPLTEQKAIAHILGT----LDDKIALNR 282

Query: 398 QSIVLLKERRSSF 410
           +    L+      
Sbjct: 283 RMNATLEAIAQVL 295



 Score = 57.9 bits (138), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 58/446 (13%), Positives = 126/446 (28%), Gaps = 51/446 (11%)

Query: 16  QWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           +W G IP             LN       G    ++ +  +  GT      +  +     
Sbjct: 114 EW-GEIP-------FSEAVLLNPATPLVKGVIYPFVEMSAIAVGTRDVKCSEYRNFSGGG 165

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFD-------GICSTQFLVLQ--PKDVLPELLQG 126
           S    F     L  ++ P L    +A F        G  ST+F+V++  P     +    
Sbjct: 166 S---RFQDRDTLMARITPCLENGKLARFQAPEGEPIGHGSTEFIVIRGKPNVTDNDYAYY 222

Query: 127 WLLSIDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
             +S +V +   +   G +         +G I + +PPL EQ  I   +     +I    
Sbjct: 223 LAISSEVRKFAISQMTGTSGRQRVPTDALGKISVLLPPLTEQKAIAHILGTLDDKIALNR 282

Query: 186 TERIRFIELLKEKKQALVSYI--VTKGLNPDVKMKDSG----------------IEWVGL 227
                   + +   ++       V   +    +   S                    +G 
Sbjct: 283 RMNATLEAIAQVLFKSWFVDFDPVRAKMEGRWQRDQSLPGLPADLYDLFPERLVASELGE 342

Query: 228 VPDHWEVKPFFALVTELNRKNTK-----LIESNILSLSYGNIIQKLETRNM-GLKPESYE 281
           +P+ W +  F   V  +     K         +I   S  +     +   +   K  +  
Sbjct: 343 IPEGWAIGSFSEAVEIIGGGTPKTSVSEYWGGDIPWFSVVDTPPSSDVFVVQTEKSITRS 402

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD 341
                    I      +                    +  A++       Y  +L     
Sbjct: 403 GLNGSSARMIAKGTTIISARGTVGNLGIAGRDMTFNQSCYALRGKNGSGDYFVFLSAQCM 462

Query: 342 LCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKE-QFDITNVINVETARIDVLVEKIEQSI 400
           + ++       +  ++  +    +  ++PP    Q          T+  D +      S 
Sbjct: 463 VEQLKVMAHGSVFSTITRQTFDAVRFVLPPEPVLQQ----FERTATSVFDAIFGNGNDSR 518

Query: 401 VLLKERRSSFIAAAVTGQIDLRGESQ 426
            L +  R + +   ++G++ ++   +
Sbjct: 519 SLAR-LRGTLLPKLISGELRIQDAER 543


>gi|259506124|ref|ZP_05749026.1| restriction enzyme subunit S [Corynebacterium efficiens YS-314]
 gi|259166298|gb|EEW50852.1| restriction enzyme subunit S [Corynebacterium efficiens YS-314]
          Length = 304

 Score = 59.8 bits (143), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 30/267 (11%), Positives = 78/267 (29%), Gaps = 28/267 (10%)

Query: 161 IPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDS 220
           +P + EQ+ I   + A   +I        +     +     LV  +      P   +  +
Sbjct: 60  LPTMPEQLRIARILDAIDEQIAASRRILSKLRLEAEGVLDRLVQELSPADFVPLADLCTA 119

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
            I                     +           +L++   +   +          ++ 
Sbjct: 120 DI-----------------CYGIVQSGVFVPGGVPVLAIRDLDGDFETGVHLTSRSIDAQ 162

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL--AWLMR 338
                V PG+++            +        G I+     ++            +L+ 
Sbjct: 163 YRRSRVAPGDVLLSIKGTIGKVGIVP---DTYNGNISREIARIRFSARTDPAFARYYLLS 219

Query: 339 SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
                ++  A+    R  +    +K+     P I+ Q ++  V+     R     ++ E+
Sbjct: 220 REAQRRLDLAVVGTTRAEVSIHVLKKFAFPSPAIQYQRNVARVMTALQER-----QESER 274

Query: 399 -SIVLLKERRSSFIAAAVTGQIDLRGE 424
            ++  L+  R       ++G++ +  E
Sbjct: 275 IALTKLQAMRRGLFEDLLSGRVRVPAE 301



 Score = 46.3 bits (108), Expect = 0.008,   Method: Composition-based stats.
 Identities = 13/79 (16%), Positives = 33/79 (41%), Gaps = 7/79 (8%)

Query: 329 DSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
               LA L+ +  + +   A  +G+   + +   E +    +++P + EQ  I  +++  
Sbjct: 17  LPQILAGLLSTKVVQEYLNARTTGMAESQTNFADEALLSAELVLPTMPEQLRIARILDA- 75

Query: 386 TARIDVLVEKIEQSIVLLK 404
              ID  +    + +  L+
Sbjct: 76  ---IDEQIAASRRILSKLR 91


>gi|325690781|gb|EGD32782.1| type I restriction/modification enzyme [Streptococcus sanguinis
           SK115]
          Length = 191

 Score = 59.8 bits (143), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 17/141 (12%), Positives = 49/141 (34%), Gaps = 6/141 (4%)

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY 340
            T+  +   E     I          +   +      S+Y+       ++ Y  ++M   
Sbjct: 52  STFHNIANTEYPVLTISASGANAGYVNLWHVPVWASDSSYI--DSKMTNNVYFWYVMLKR 109

Query: 341 DLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
              +++ +     +  +  + ++    ++P I+      N+       +   V    + I
Sbjct: 110 RQQEIYDSQTGSAQPHIYPKHIE----IMPTIELSKKEINLFTKRVTPLFKTVGNNLEEI 165

Query: 401 VLLKERRSSFIAAAVTGQIDL 421
             L+  R S ++  ++G+I +
Sbjct: 166 NNLQNLRESLLSKLLSGEISV 186


>gi|315124538|ref|YP_004066542.1| type II restriction-modification enzyme [Campylobacter jejuni
           subsp. jejuni ICDCCJ07001]
 gi|315018260|gb|ADT66353.1| type II restriction-modification enzyme [Campylobacter jejuni
           subsp. jejuni ICDCCJ07001]
          Length = 960

 Score = 59.8 bits (143), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 55/449 (12%), Positives = 130/449 (28%), Gaps = 82/449 (18%)

Query: 26  KVVPIKRF------TKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT---- 75
           ++V +K F       K  +G   +     + +G E +++ +G     +      +     
Sbjct: 491 ELVRLKDFVLDIQTAKRPSGGVGKYENGALSLGGEHIDNKSGYIKLDNPKYVPIEFYESF 550

Query: 76  --STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP------KDVLPELLQGW 127
                 I  +  IL  K G    K  +   + I  +  +               + L   
Sbjct: 551 ALQDKGIVKQFDILICKDGALTGKIAMVRNEFIRKSAMINEHIFLLRCDNIAKQKYLFYI 610

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
           L S    Q +++   G+     +   + +I +P      Q  I  +      + +T+   
Sbjct: 611 LHSYSGQQALKSKITGSAQGGINKTNLESILIPNADFEIQKQIVAECEKVEEQYNTIRMS 670

Query: 188 RIRFIELLKEKKQ---------------------------------ALVSYIVTKG--LN 212
              +  L+K   Q                                 +L+   ++    L 
Sbjct: 671 VEEYQNLIKAILQKCGIIDDGGGYELNSILENLQKLESKLDFNLLLSLIEEQISHSEVLV 730

Query: 213 PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
            + + K+   ++         ++     ++   +   K I          N  +K  ++ 
Sbjct: 731 EETQSKERKEDFNAFKNFSKTIQELLQTLSTPPKDGWKRISLKNEQYMELNPSKKEISKL 790

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI---- 328
                 S+     V     +   ID   ++        +E  I+ +       +G     
Sbjct: 791 DENILVSFIEMASVSDKGYIQSKIDRSLNEVRKGYTYFIENDILIAKITPCMENGKCAIA 850

Query: 329 -----------------------DSTYLAWLMRSYDLCKV--FYAMGSGLRQSLKFEDVK 363
                                  DS++L + +   ++ +       G+   + +     +
Sbjct: 851 KNLTNNIGFGSTEFHIFRAKTGLDSSFLFYNLNQQNIREKAALAMTGASGHKRVPISFYE 910

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVL 392
            L + +PP++ Q  I   I +   +ID L
Sbjct: 911 NLTIPLPPLEIQEKIVQNIELVEQQIDFL 939



 Score = 56.3 bits (134), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/164 (10%), Positives = 52/164 (31%), Gaps = 7/164 (4%)

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
           E       Y  +           +  + +   IV   +I+         K ++   + + 
Sbjct: 525 EHIDNKSGYIKLDNPKYVPIEFYESFALQDKGIVKQFDILICKDGALTGKIAMVRNEFIR 584

Query: 313 R--GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLV 369
           +   I    ++    +     YL +++ SY   +   +  +G  +  +   +++ + +  
Sbjct: 585 KSAMINEHIFLLRCDNIAKQKYLFYILHSYSGQQALKSKITGSAQGGINKTNLESILIPN 644

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
              + Q  I      E  +++     I  S+   +    + +  
Sbjct: 645 ADFEIQKQIV----AECEKVEEQYNTIRMSVEEYQNLIKAILQK 684



 Score = 39.0 bits (89), Expect = 1.6,   Method: Composition-based stats.
 Identities = 34/196 (17%), Positives = 64/196 (32%), Gaps = 19/196 (9%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGK--------DIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            WK + +K   +          +         + +I +  V S  G    K   S     
Sbjct: 766 GWKRISLKN--EQYMELNPSKKEISKLDENILVSFIEMASV-SDKGYIQSKIDRSLNEVR 822

Query: 76  STVSIFAKGQILYGKLGPYLRKAII------ADFDGICSTQFLVLQPKDVLPELLQGWLL 129
              + F +  IL  K+ P +            +  G  ST+F + + K  L      + L
Sbjct: 823 KGYTYFIENDILIAKITPCMENGKCAIAKNLTNNIGFGSTEFHIFRAKTGLDSSFLFYNL 882

Query: 130 SIDVTQRI--EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
           +    +     A+   +           N+ +P+PPL  Q  I + I     +ID L  +
Sbjct: 883 NQQNIREKAALAMTGASGHKRVPISFYENLTIPLPPLEIQEKIVQNIELVEQQIDFLNLK 942

Query: 188 RIRFIELLKEKKQALV 203
                +  ++  Q  +
Sbjct: 943 LELLEKEKEKILQKYL 958


>gi|317131476|ref|YP_004090790.1| restriction modification system DNA specificity domain
           [Ethanoligenens harbinense YUAN-3]
 gi|315469455|gb|ADU26059.1| restriction modification system DNA specificity domain
           [Ethanoligenens harbinense YUAN-3]
          Length = 178

 Score = 59.8 bits (143), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 19/133 (14%), Positives = 47/133 (35%), Gaps = 9/133 (6%)

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDL---QNDKRSLRSAQVMERGIITSAYMAVK--PHG 327
              +   +        G+ +   I           +      E G  ++ ++ ++  P  
Sbjct: 43  SSYEFSPFHGGSKFRNGDTLMARITPCLENGKTALVNILDQGEVGFGSTEFIVMRARPGI 102

Query: 328 IDSTYLAWLMRSYDLCK--VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
            D  ++ +L +S  L    +   +GS  RQ ++   +       PP++EQ +I  ++   
Sbjct: 103 SDKDFIYYLAQSPILRDKAIKSMVGSSGRQRVQLSVLNDTKFYAPPLEEQIEIAGILRAL 162

Query: 386 TARI--DVLVEKI 396
             +I  +  +   
Sbjct: 163 DDKIANNTAINHH 175


>gi|309808306|ref|ZP_07702212.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus iners LactinV 01V1-a]
 gi|308168453|gb|EFO70565.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus iners LactinV 01V1-a]
          Length = 166

 Score = 59.8 bits (143), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 23/172 (13%), Positives = 60/172 (34%), Gaps = 10/172 (5%)

Query: 233 EVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ--IVDPGE 290
                  +V     ++ K    N        +             ++Y T        G+
Sbjct: 1   MKYRLCEIVDITMGQSPKSEFYNTEKKGLPFLQGNRTFGFKYPTFDTYTTVMTKFAKAGD 60

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG 350
           ++        +         + RG+ +     ++    + ++L ++M+ Y +  +     
Sbjct: 61  VIMSVRAPVGELNITPVDMCLGRGVCS-----LRMKNGNQSFLFYMMK-YYVSHLIKKEN 114

Query: 351 SGLRQSLKFEDVKRLPVLVPP-IKEQFDITNVINVETARIDVLVEKIEQSIV 401
             +  S+  +D+  L V +P  I+EQ  I   + +   +I+ L  +I +++ 
Sbjct: 115 GTVFGSVNRDDINGLEVDIPDDIEEQKKIARFLEMIDDKIE-LNNEINKNLA 165


>gi|262183025|ref|ZP_06042446.1| hypothetical protein CaurA7_03452 [Corynebacterium aurimucosum ATCC
           700975]
          Length = 295

 Score = 59.8 bits (143), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 14/79 (17%), Positives = 31/79 (39%), Gaps = 5/79 (6%)

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
               ++ YL   ++S        + G    + +K  D+  L V +PP+ EQ  I  +++ 
Sbjct: 24  SEECNARYLLHFLQSARSFFQSRSRGV-TIKGIKRTDLNDLLVPLPPLDEQRRIAAILDE 82

Query: 385 ETARIDVLVEKIEQSIVLL 403
                +  +   +  +  L
Sbjct: 83  V----ESAIVAAKSQLSEL 97



 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 26/106 (24%), Positives = 45/106 (42%), Gaps = 3/106 (2%)

Query: 26  KVVPIKRFTKLNTGRTSESGK---DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           ++V +     + +     + +   D+ +I   ++ SG+  ++          TS    F 
Sbjct: 110 ELVALSELVDIRSSLVDPTSEPYMDMPHIAPNNLSSGSDDFVGVKSAVEDRVTSGKYAFQ 169

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL 128
            G ILY K+ PYL K  IA +DG+CS     L P++        W 
Sbjct: 170 AGDILYSKIRPYLNKVSIAAYDGVCSADMYALVPRNRTQTDWIVWQ 215



 Score = 57.9 bits (138), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 38/331 (11%), Positives = 92/331 (27%), Gaps = 44/331 (13%)

Query: 95  LRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGI 154
           + K+ + +     S     L                       ++   G T+       +
Sbjct: 1   MGKSALVEAPVSFSQDVTNLNDLSEECNARYLLHFLQSARSFFQSRSRGVTIKGIKRTDL 60

Query: 155 GNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL-LKEKKQALVSYIVTKGLNP 213
            ++ +P+PPL EQ  I   +      I    ++      +      +      +++ ++ 
Sbjct: 61  NDLLVPLPPLDEQRRIAAILDEVESAIVAAKSQLSELSAIPFWMGDRKFELVALSELVDI 120

Query: 214 DVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNM 273
              + D   E    +P                         +I   +  +          
Sbjct: 121 RSSLVDPTSEPYMDMP-------------------------HIAPNNLSSGSDDFVGVKS 155

Query: 274 GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL 333
            ++            G+I++  I    +K S+ +    +       Y  V  +   + ++
Sbjct: 156 AVEDRVTSGKYAFQAGDILYSKIRPYLNKVSIAAY---DGVCSADMYALVPRNRTQTDWI 212

Query: 334 AWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPPIKEQFDITN--VINVETAR-- 388
            W +RS        +         +  + +    V          I    V+        
Sbjct: 213 VWQLRSSRFLAYAASSSGRASIPKINRKALGAFKV---------QIVEPAVLEQFNREQN 263

Query: 389 IDVLVEK-IEQSIVLLKERRSSFIAAAVTGQ 418
           +   +E  + + + LL+E +SS    A  G+
Sbjct: 264 VKKTIENSVRKKLYLLQELQSSLSTRAFQGE 294


>gi|256851083|ref|ZP_05556472.1| restriction modification system DNA specificity subunit
           [Lactobacillus jensenii 27-2-CHN]
 gi|256616145|gb|EEU21333.1| restriction modification system DNA specificity subunit
           [Lactobacillus jensenii 27-2-CHN]
          Length = 175

 Score = 59.8 bits (143), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 23/150 (15%), Positives = 49/150 (32%), Gaps = 6/150 (4%)

Query: 25  WKVVPIKRFTKLNTGRTSESG----KDIIYIGLEDVESGTGKYLPKDGNSRQ--SDTSTV 78
           WK V + +   +  G               I  +++E+GT  +      S++   + +  
Sbjct: 14  WKKVKLGQIADVRDGTHESPKYVSQNGYPLITSKNLENGTINFDDISYISKKDYEEINKR 73

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           S+  K  IL+G +G     AI+           L+    ++    L   + S    +   
Sbjct: 74  SLVEKNDILFGMIGTIGNVAIVKKSGFAIKNVALIKSNSEIPSINLIQIIQSDIFKKYTN 133

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQV 168
            +  G +        I      +   +E +
Sbjct: 134 RLNSGNSQKFISLGDIRKFDFKMASKSENM 163


>gi|32266933|ref|NP_860965.1| type I restriction/modification enzyme [Helicobacter hepaticus ATCC
            51449]
 gi|32262985|gb|AAP78031.1| type I restriction/modification enzyme [Helicobacter hepaticus ATCC
            51449]
          Length = 1164

 Score = 59.8 bits (143), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 11/112 (9%), Positives = 36/112 (32%), Gaps = 5/112 (4%)

Query: 295  FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR 354
             I          +    E  I  S    +           + +  +    ++       +
Sbjct: 1035 TISASGANAGFVNYWNEE--IFASDCTTINSDSKLDIKFIYYVLQFIQKDIYRLARGAAQ 1092

Query: 355  QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL---VEKIEQSIVLL 403
              +  +D++++ + +PP+  Q  I         + + +   +E+ ++ I  +
Sbjct: 1093 PHVYPKDIEQIKIPLPPLDIQKQIVAECERVEKQYNTIRMSIEEYQKLIKAI 1144


>gi|224538863|ref|ZP_03679402.1| hypothetical protein BACCELL_03759 [Bacteroides cellulosilyticus
           DSM 14838]
 gi|224519521|gb|EEF88626.1| hypothetical protein BACCELL_03759 [Bacteroides cellulosilyticus
           DSM 14838]
          Length = 209

 Score = 59.8 bits (143), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 25/194 (12%), Positives = 64/194 (32%), Gaps = 17/194 (8%)

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFI 296
               + E+N K      ++   +   N+       N G   + Y        G+ +   I
Sbjct: 19  LIHEIAEINPKRNLSKGTSAKCIEMANLPTIGSFPN-GWIEKEYNGGMKFRNGDTLIARI 77

Query: 297 DL---QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM-RSYDLCKV--FYAMG 350
                      +      E    ++ Y+ +      S+   + + R++D          G
Sbjct: 78  TPCLENGKTAFINFLDKDEIAYGSTEYIVISAKNNYSSSFFYFLARNHDFVDYAVKNMNG 137

Query: 351 SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID-VLVEKIEQSIVLLKE--RR 407
           S  RQ +  + + +  + V P +E       +    +  +  L    + S+  ++    R
Sbjct: 138 SSGRQRVSGDTIGKYRIPVIPREE-------LESFMSHAEITLKTIKDNSLQNMRLSMIR 190

Query: 408 SSFIAAAVTGQIDL 421
            + +   ++G++ +
Sbjct: 191 DALLPKLMSGELKV 204


>gi|160887307|ref|ZP_02068310.1| hypothetical protein BACOVA_05325 [Bacteroides ovatus ATCC 8483]
 gi|156107718|gb|EDO09463.1| hypothetical protein BACOVA_05325 [Bacteroides ovatus ATCC 8483]
          Length = 354

 Score = 59.8 bits (143), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 47/387 (12%), Positives = 116/387 (29%), Gaps = 53/387 (13%)

Query: 30  IKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYG 89
           ++    +N  +++      +YI LE VE G  + + ++    ++ +    +  K  IL+ 
Sbjct: 4   LQDIAAVNP-KSNPLQNSFVYIDLEAVEKGELRKI-QEVMREEAPSRAQRVIYKNDILFQ 61

Query: 90  KLGPYLRKAIIA------DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
            + PY +   I       +   + ST +  ++  + +P  +   L +    +++   C G
Sbjct: 62  CVRPYQKNNYIHKIQSKSNQQWVASTGYAQIRTTE-IPNYIYHLLNTDGFNRKVMVRCTG 120

Query: 144 ATMSHADWKGIGNIPMPIPPL-AEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           ++    + + +  I   +     EQ+ I   +     RI T           + EK Q+L
Sbjct: 121 SSYPAINSEDLATIRFYLTTDTKEQLKISRLLDLLDERIATQ--------NKIIEKLQSL 172

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK---NTKLIESNILSL 259
           +              K      +              +      K   N ++        
Sbjct: 173 I--------------KGIAQHCIKESTSGNTYVKLGDICQITTGKLDANAQVDNGIYPFF 218

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
           +      K+++     +                   I          +    +       
Sbjct: 219 TCAEQPFKIDSFAFDTEAL----------------LISGNGANLGYINYYHGKFNAYQRT 262

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
           Y+       +  Y+ W ++     ++     S     +    +  L + +P    Q  I 
Sbjct: 263 YVLDIFSE-NIQYIKWALKVLLPKRIAIEKSSSNTPYIVLSTLSDLRLPIPNKSIQCHIA 321

Query: 380 NVINVETARIDVLVEKIEQSIVLLKER 406
            ++     ++   +     S   LK+ 
Sbjct: 322 KLMQSLERKLSSQIAL-NGSYNRLKQY 347



 Score = 46.3 bits (108), Expect = 0.010,   Method: Composition-based stats.
 Identities = 19/180 (10%), Positives = 55/180 (30%), Gaps = 7/180 (3%)

Query: 234 VKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVF 293
           +     +     + N        + L      +  + + +  +       +++   +I+F
Sbjct: 1   MASLQDIAAVNPKSNPLQNSFVYIDLEAVEKGELRKIQEVMREEAPSRAQRVIYKNDILF 60

Query: 294 RFIDLQNDKRSLRSAQVMERG-IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
           + +        +   Q       + S   A         Y+  L+ +    +      +G
Sbjct: 61  QCVRPYQKNNYIHKIQSKSNQQWVASTGYAQIRTTEIPNYIYHLLNTDGFNRKVMVRCTG 120

Query: 353 LR-QSLKFEDVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
               ++  ED+  +   +    KEQ  I+ +++     +D  +    + I  L+      
Sbjct: 121 SSYPAINSEDLATIRFYLTTDTKEQLKISRLLD----LLDERIATQNKIIEKLQSLIKGI 176


>gi|210611275|ref|ZP_03288830.1| hypothetical protein CLONEX_01020 [Clostridium nexile DSM 1787]
 gi|210152039|gb|EEA83046.1| hypothetical protein CLONEX_01020 [Clostridium nexile DSM 1787]
          Length = 184

 Score = 59.8 bits (143), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 22/161 (13%), Positives = 59/161 (36%), Gaps = 10/161 (6%)

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRN----MGLKPESYETYQIVDPGEIVFRFIDLQND 301
                  ++ I  +   N++    T +    +  +  S  +   V  G+++         
Sbjct: 24  GGKETYCDNGISLVRSQNVLDFEFTDSGLAHINDEQASKLSNVEVIDGDVLINITGDSVA 83

Query: 302 KRSLRSAQVMERGIITS-AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFE 360
           +     A  +   +    A +  +   + S+Y+ + ++      +  A     R +L   
Sbjct: 84  RVCKMDAAFLPARVNQHVAIVRGEKDKVLSSYILYYLQMMKGHLLQLASAGATRNALTKG 143

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
            +++L + +P I+ Q  IT+V++    +I      + + I 
Sbjct: 144 MLEQLELELPDIETQMRITSVLDSFQEKI-----ALNRKIN 179



 Score = 49.4 bits (116), Expect = 0.001,   Method: Composition-based stats.
 Identities = 26/168 (15%), Positives = 58/168 (34%), Gaps = 16/168 (9%)

Query: 28  VPIKRFT-KLNTGRTSESGKD------IIYIGLEDVESGTGKYLPKD---GNSRQSDTST 77
           V +K    K+ +G T   GK+      I  +  ++V     ++        N  Q+   +
Sbjct: 7   VKLKDICSKIGSGATPRGGKETYCDNGISLVRSQNVL--DFEFTDSGLAHINDEQASKLS 64

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGI---CSTQF-LVLQPKDVLPELLQGWLLSIDV 133
                 G +L    G  + +    D   +    +    +V   KD +      + L +  
Sbjct: 65  NVEVIDGDVLINITGDSVARVCKMDAAFLPARVNQHVAIVRGEKDKVLSSYILYYLQMMK 124

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
              ++    GAT +      +  + + +P +  Q+ I   + +   +I
Sbjct: 125 GHLLQLASAGATRNALTKGMLEQLELELPDIETQMRITSVLDSFQEKI 172


>gi|116255298|ref|YP_771131.1| putative type I restriction-modification system specificity subunit
           [Rhizobium leguminosarum bv. viciae 3841]
 gi|115259946|emb|CAK03043.1| putative type I restriction-modification system specificity subunit
           [Rhizobium leguminosarum bv. viciae 3841]
          Length = 445

 Score = 59.8 bits (143), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 52/445 (11%), Positives = 118/445 (26%), Gaps = 48/445 (10%)

Query: 20  AIPKHWKVVPIKRFT----KLNTGRTSESGKD---IIYIGLEDVESGTGKYLPK-DGNSR 71
            IP     V +         +  G       D   +  + + +          +      
Sbjct: 3   EIP----FVALADLCPPKRSITYGIVQPGKPDDIGVPIVRVNNFRGHRLDLTERLCVAPN 58

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL-- 129
                + S      +L   +G   + AI        +    V                  
Sbjct: 59  VEAQYSRSRPQPYDVLISLVGSIGQVAIAGPEISGWNLARAVGLIPTKDRHHALWIFYAL 118

Query: 130 -SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
            S +  Q I         +  + K +   P+P P    +  I   + +   +I+      
Sbjct: 119 QSPEAQQYIRQHANTTVQATFNLKDLTKFPIPYPARQGREQIIGMLGSLDDKIELNRKMN 178

Query: 189 IRFIELLKEKKQALVSYIVTKGL------NPDVKM------------------KDSGIEW 224
                + +   +                 +P   M                     G + 
Sbjct: 179 ETLEAIAQAIFRDWFVEFGPTRRKQDGATDPITIMGGLVQDTERAQALADLFPATLGDDS 238

Query: 225 VGLVPDHWEVKPFFALVTELNRKNTKLIE-SNILSLSYGNIIQKLETRNMGLKPESYETY 283
           +    +   +      +     KN    +  + L +     ++   T        +    
Sbjct: 239 LPEGWESKSLLEQANWINGAAFKNMHFSDAPDALPVVKIAELKNGVTSGTKFTNTALGER 298

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR---SY 340
             +  GE++F +    +         +     +     AV+ +G+ S    +++      
Sbjct: 299 YRISDGELLFSWSGNPDTSID-AFVWIGGNAWLNQHIFAVRENGVRSKAALYVLLKALMP 357

Query: 341 DLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
              ++     +     +  ED+KRL + V P   +     VI       D+LV ++ ++ 
Sbjct: 358 QFAELARNKQTTGLGHVTKEDMKRLEIAVAPGPVETAFEAVITPLV---DLLVSRLFENR 414

Query: 401 VLLKERRSSFIAAAVTGQIDLRGES 425
             L   R   +   ++G+I L G  
Sbjct: 415 T-LAATRDLLLPKLMSGEIRLSGAE 438


>gi|9507712|ref|NP_053051.1| hypothetical protein pNZ4000_01 [Lactococcus lactis subsp.
           cremoris]
 gi|5230679|gb|AAD40958.1| hypothetical protein [Lactococcus lactis subsp. cremoris]
          Length = 100

 Score = 59.8 bits (143), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 16/78 (20%), Positives = 33/78 (42%), Gaps = 4/78 (5%)

Query: 336 LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
            +      KV   +  G +  + +  V  L +  P I+EQ  I +       ++D  +  
Sbjct: 24  YLMVPFREKVKRIVQGGTQIYVNYPAVSNLNLEQPEIEEQQKIGSF----FKQLDDTIAL 79

Query: 396 IEQSIVLLKERRSSFIAA 413
            ++ + LLKE++  F+  
Sbjct: 80  HQRKLDLLKEQKKGFLQK 97


>gi|269115297|ref|YP_003303060.1| Type I restriction enzyme specificity protein [Mycoplasma hominis]
 gi|268322922|emb|CAX37657.1| Type I restriction enzyme specificity protein [Mycoplasma hominis
           ATCC 23114]
          Length = 378

 Score = 59.8 bits (143), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 39/383 (10%), Positives = 104/383 (27%), Gaps = 18/383 (4%)

Query: 34  TKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGP 93
            ++  G+         +I L   +     Y  +  N           F    + +   G 
Sbjct: 2   CEIKRGKVYSKE----FIKLN--KGEYPVYSSQSLNDGILGKIDKYDFDGEYVTWTTDGA 55

Query: 94  YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKG 153
           Y             +    +L   +   +L   +L +    Q  + + + +         
Sbjct: 56  YAGTVFYRIGRFSITNVCGILSVLNK-SKLNVKYLSTCLSMQTKKFVNKASGNPKLMSNI 114

Query: 154 IGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNP 213
           + NI +PIP ++ Q  I E +    +    + +     I+  K++ +     ++      
Sbjct: 115 MENIEIPIPHISIQNKIVEILDKLEIYTKDIQSGLPLEIDQRKKQYEYYRDKLLDFKDLA 174

Query: 214 DVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNM 273
              +  + +  +  + D          ++++ R+      +       G           
Sbjct: 175 GGVLSKNYLLLLNELWDKIVNIVECLSISKIFREIKTGKLNANAETPNGKYAFWTCDERP 234

Query: 274 GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL 333
            L  E           E+        +    +            +  +    H +   Y 
Sbjct: 235 KLIDEYAF-------DEMAILISGNGSKVGHVNIYNGKFNAYQRTYILLKINHFVLWKYA 287

Query: 334 AWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
            + ++S     +           +    ++   + +P I  Q  I  +++   A    + 
Sbjct: 288 YFYLKSNLKNYINVYKLDSGIPYITLPMLQNFVIPIPHISIQNKIVEILDKLQAYTKDIQ 347

Query: 394 EKIEQSIVLLKE----RRSSFIA 412
             +   I   K+     R   + 
Sbjct: 348 TGLPLEIDQRKKQYEHYRDKLLN 370


>gi|288801961|ref|ZP_06407402.1| type I restriction enzyme StySJI specificity protein [Prevotella
           melaninogenica D18]
 gi|288335396|gb|EFC73830.1| type I restriction enzyme StySJI specificity protein [Prevotella
           melaninogenica D18]
          Length = 177

 Score = 59.8 bits (143), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 21/169 (12%), Positives = 52/169 (30%), Gaps = 6/169 (3%)

Query: 228 VPDHWEVKPFFALVTELNRKN--TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI 285
           +P  W       + T   +      +    +  +   +              +    +  
Sbjct: 1   MPKTWSNPKIKEVFTINPKNKVLDNINAGFVPMVYIDDGYSGAFKYEKRKWNDIKAGFTH 60

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGII--TSAYMAVKPHGIDSTYLAWLMRSYDLC 343
              G+I    I    + R     + +  GI   T+     +   I+  Y  +  +S    
Sbjct: 61  FADGDIAVAKISPCLENRKSMILEKLPNGIGAGTTELYIFRSLNINPKYALYCFKSDSFI 120

Query: 344 KVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
           +      +G+  +Q +    ++ +   +PP+ EQ  I   I    + ++
Sbjct: 121 QQCIGTFNGVVGQQRVARRIIEEIRFPLPPLSEQLRIVTKIEELFSILN 169



 Score = 45.9 bits (107), Expect = 0.011,   Method: Composition-based stats.
 Identities = 31/168 (18%), Positives = 58/168 (34%), Gaps = 7/168 (4%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           PK W    IK    +N         +  ++ +  ++ G       +        +  + F
Sbjct: 2   PKTWSNPKIKEVFTINPKNKVLDNINAGFVPMVYIDDGYSGAFKYEKRKWNDIKAGFTHF 61

Query: 82  AKGQILYGKLGPYLRKA------IIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
           A G I   K+ P L          + +  G  +T+  + +  ++ P+       S    Q
Sbjct: 62  ADGDIAVAKISPCLENRKSMILEKLPNGIGAGTTELYIFRSLNINPKYALYCFKSDSFIQ 121

Query: 136 RIEAICEG-ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
           +      G         + I  I  P+PPL+EQ+ I  KI      ++
Sbjct: 122 QCIGTFNGVVGQQRVARRIIEEIRFPLPPLSEQLRIVTKIEELFSILN 169


>gi|253576199|ref|ZP_04853530.1| conserved hypothetical protein [Paenibacillus sp. oral taxon 786
           str. D14]
 gi|251844326|gb|EES72343.1| conserved hypothetical protein [Paenibacillus sp. oral taxon 786
           str. D14]
          Length = 232

 Score = 59.8 bits (143), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 22/163 (13%), Positives = 58/163 (35%), Gaps = 7/163 (4%)

Query: 28  VPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           V ++   ++  G++         +I  + + +++ G       +    +           
Sbjct: 49  VKLRDVAEIFRGKSILKQDLKPGNIKVLNISNLDDGEVLLDQLETIDEEERKVKRYEILP 108

Query: 84  GQILYGKLGPYLRKAIIADFDGIC---STQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
           G ++    G   + A+  +  G+    S   ++     +     + +L S   T  I++ 
Sbjct: 109 GDLVMTCRGTVNKLAVFPEAQGMVIASSNMIVIRFKSAIKSHFAKMFLESPVGTALIQSF 168

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
             G T+ + +   +  + +P+ P   Q  I ++ I E  R   
Sbjct: 169 QRGTTVMNLNPADVAELELPLVPEDRQQEIIQQYIREKERYKE 211



 Score = 42.1 bits (97), Expect = 0.16,   Method: Composition-based stats.
 Identities = 18/132 (13%), Positives = 42/132 (31%), Gaps = 14/132 (10%)

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL-A 334
           + E       + PG++V       N        +     I +S  + ++      ++   
Sbjct: 96  EEERKVKRYEILPGDLVMTCRGTVNKLAVFP--EAQGMVIASSNMIVIRFKSAIKSHFAK 153

Query: 335 WLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
             + S     +  +        +L   DV  L + + P   Q +I          I   +
Sbjct: 154 MFLESPVGTALIQSFQRGTTVMNLNPADVAELELPLVPEDRQQEI----------IQQYI 203

Query: 394 EKIEQSIVLLKE 405
            + E+   +++E
Sbjct: 204 REKERYKEVVRE 215


>gi|297250306|ref|ZP_06864062.2| type I restriction-modification system specificity determinant
           [Neisseria polysaccharea ATCC 43768]
 gi|296839222|gb|EFH23160.1| type I restriction-modification system specificity determinant
           [Neisseria polysaccharea ATCC 43768]
          Length = 200

 Score = 59.8 bits (143), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 20/185 (10%), Positives = 49/185 (26%), Gaps = 10/185 (5%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG 289
                K    +      +      +    +   N++Q  E + +     S          
Sbjct: 13  KDVVWKTLGEVAEYSKNRICSDKLNEHNYVGVDNLLQNREGKKLSGYVPSEGKMTEYIVN 72

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
           +I+   I     K           G +    + V    ++  YL  ++            
Sbjct: 73  DILIGNIRPYLKKIWQADCTGGTNGDV--LVIRVTDEKVNPKYLYQVLADDKFFAFNMKH 130

Query: 350 GSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL-------VEKIEQSIV 401
             G          + +  + +PP+ EQ  IT +++        +       +    +   
Sbjct: 131 AKGAKMPRGSKTAIMQYKIPIPPLPEQEKITAILDKFDTLTHSVSEGLPHEIALRRKQYE 190

Query: 402 LLKER 406
             +E+
Sbjct: 191 YYREQ 195



 Score = 49.4 bits (116), Expect = 0.001,   Method: Composition-based stats.
 Identities = 40/187 (21%), Positives = 70/187 (37%), Gaps = 8/187 (4%)

Query: 27  VVPIKRFTKLNTGRT-SESGKDIIYIGLEDV-ESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
              +    + +  R  S+   +  Y+G++++ ++  GK L   G        T  I    
Sbjct: 17  WKTLGEVAEYSKNRICSDKLNEHNYVGVDNLLQNREGKKLS--GYVPSEGKMTEYIV--N 72

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQP--KDVLPELLQGWLLSIDVTQRIEAICE 142
            IL G + PYL+K   AD  G  +   LV++   + V P+ L   L             +
Sbjct: 73  DILIGNIRPYLKKIWQADCTGGTNGDVLVIRVTDEKVNPKYLYQVLADDKFFAFNMKHAK 132

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           GA M       I    +PIPPL EQ  I   +        ++       I L +++ +  
Sbjct: 133 GAKMPRGSKTAIMQYKIPIPPLPEQEKITAILDKFDTLTHSVSEGLPHEIALRRKQYEYY 192

Query: 203 VSYIVTK 209
              ++  
Sbjct: 193 REQLLAF 199


>gi|324994850|gb|EGC26763.1| hypothetical protein HMPREF9392_1666 [Streptococcus sanguinis
           SK678]
          Length = 191

 Score = 59.8 bits (143), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 19/156 (12%), Positives = 51/156 (32%), Gaps = 9/156 (5%)

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
             E R +      +     +   E++   +        +    +       +       +
Sbjct: 43  NGERRYVTESSYEFLKKSRLYGHEVIISNVADVGSVHRVPKMNMPMVAG-NNVVFLQSEN 101

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
            + + YL     S        ++ SG  +Q     D + L + +           +I  +
Sbjct: 102 SLLTDYLYVYFNSRLGQHDIMSITSGSAQQKFNKTDFRNLEIPILSDD-------IIKKK 154

Query: 386 TARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            + I   ++ I + I  L + R++ +   ++G+I +
Sbjct: 155 ISSILHYIDNIHEEIACLMKIRATLLPKLLSGEISV 190


>gi|201068008|ref|ZP_03217849.1| hypothetical protein CJBH_1917c [Campylobacter jejuni subsp.
          jejuni BH-01-0142]
 gi|200004412|gb|EDZ04935.1| hypothetical protein CJBH_1917c [Campylobacter jejuni subsp.
          jejuni BH-01-0142]
          Length = 90

 Score = 59.8 bits (143), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 23/83 (27%), Positives = 38/83 (45%), Gaps = 9/83 (10%)

Query: 10 YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES---------GKDIIYIGLEDVESGT 60
          +KDSG++W+G IP+HW+VV IK      TG + +             I YI  +D++  T
Sbjct: 4  FKDSGIEWLGEIPQHWEVVKIKFLAIFYTGDSIKDSEKHKYCFLNNSIPYISTKDIDINT 63

Query: 61 GKYLPKDGNSRQSDTSTVSIFAK 83
                +G   + + +      K
Sbjct: 64 NVIDYNNGMFIEKNDANFKRRKK 86


>gi|331087340|ref|ZP_08336408.1| hypothetical protein HMPREF0987_02711 [Lachnospiraceae bacterium
           9_1_43BFAA]
 gi|330408366|gb|EGG87841.1| hypothetical protein HMPREF0987_02711 [Lachnospiraceae bacterium
           9_1_43BFAA]
          Length = 176

 Score = 59.8 bits (143), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 14/124 (11%), Positives = 45/124 (36%), Gaps = 5/124 (4%)

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
              +          S    +  +        K   I + +L +++++ +        G+G
Sbjct: 48  IVVVARSGASAGFVSYWNQKIFVTDGFGYEEKSELITTKFLYYVLKNMESELNAMKRGAG 107

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRS 408
           +   +  E +  + + +P ++EQ  IT++++      + L   +   I   ++     + 
Sbjct: 108 V-PHISGEMLNSIELPIPLLQEQNRITDILDRFDTLCNDLSTGLPAEIEARQKQYEYYKD 166

Query: 409 SFIA 412
             ++
Sbjct: 167 KLLS 170


>gi|313896529|ref|ZP_07830080.1| type I restriction modification DNA specificity domain protein
           [Selenomonas sp. oral taxon 137 str. F0430]
 gi|312974953|gb|EFR40417.1| type I restriction modification DNA specificity domain protein
           [Selenomonas sp. oral taxon 137 str. F0430]
          Length = 452

 Score = 59.8 bits (143), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 31/193 (16%), Positives = 70/193 (36%), Gaps = 14/193 (7%)

Query: 23  KHWKV-------VPIKRFTKLNTGRTSESGKD---IIYIGLEDVESGTGKYLPKDGNSRQ 72
           + W+        + +K   ++  G+      +   +  + + +V      Y   D  S  
Sbjct: 258 EDWQRFMEKDSRIKLKEVAQVFRGKNISRKDENGNVGVVTISNVGEYVIDYDGLDHISEV 317

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIA--DFDGICSTQFLVLQPKDV--LPELLQGWL 128
               T  +   G +L    G   R A+    D+  I S   +V++P+        L+ + 
Sbjct: 318 ERKLTSYLLEDGDVLLTARGTATRSAVFHRQDYPCIASANMVVIRPRQDLLDSTYLKMFF 377

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
            S    + + +  +G  + +  ++ +  + +P+P + EQ  + E+   E     + +   
Sbjct: 378 DSPLGGKILSSAQQGTVVVNLSFRDVQEVEIPLPAIHEQKKLTEEYERELEVYLSTLKAA 437

Query: 189 IRFIELLKEKKQA 201
                   EK QA
Sbjct: 438 EERWNNTLEKLQA 450



 Score = 56.7 bits (135), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 27/166 (16%), Positives = 58/166 (34%), Gaps = 5/166 (3%)

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
           RK+       +   + G  +   +  +   + E   T  +++ G+++             
Sbjct: 286 RKDENGNVGVVTISNVGEYVIDYDGLDHISEVERKLTSYLLEDGDVLLTARGTATRSAVF 345

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ-SLKFEDVKR 364
                          +  +   +DSTYL     S    K+  +   G    +L F DV+ 
Sbjct: 346 HRQDYPCIASANMVVIRPRQDLLDSTYLKMFFDSPLGGKILSSAQQGTVVVNLSFRDVQE 405

Query: 365 LPVLVPPIKEQFDITN----VINVETARIDVLVEKIEQSIVLLKER 406
           + + +P I EQ  +T      + V  + +    E+   ++  L+ R
Sbjct: 406 VEIPLPAIHEQKKLTEEYERELEVYLSTLKAAEERWNNTLEKLQAR 451


>gi|169834416|ref|YP_001694341.1| type I restriction enzyme EcoBI specificity protein (S
           protein)(S.EcoBI) [Streptococcus pneumoniae
           Hungary19A-6]
 gi|168996918|gb|ACA37530.1| type I restriction enzyme EcoBI specificity protein (S
           protein)(S.EcoBI) [Streptococcus pneumoniae
           Hungary19A-6]
          Length = 305

 Score = 59.8 bits (143), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 42/317 (13%), Positives = 93/317 (29%), Gaps = 34/317 (10%)

Query: 26  KVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           K V +    ++ +G   +S +       +  I + DVE G            +       
Sbjct: 2   KKVKLGEVCEILSGYAFKSSQFNDNKIGLPLIRIRDVERGFSD------TYFEGTYPEEY 55

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           +   G +L    G ++ K        + + +   ++  D   +      L     + IE 
Sbjct: 56  LIKNGDLLITMDGSFILK-KWEGDLALLNQRVCKIKITDKSVDEGYISWLIPKFLKEIED 114

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
                T+ H     I +I   +P   EQ LI +K+      I  +   R    E   E  
Sbjct: 115 KTPFVTVKHLSVAKIKDISFVLPNKLEQKLIAKKLN----TISQIYDFRKIQSEKFNELV 170

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
           ++  + +              G   +    D+              + +    E   L L
Sbjct: 171 KSRFNEMF-------------GENKIFESIDNLFDIIDGDRGKNYPKSDELFSEEYCLFL 217

Query: 260 SYGNIIQKLETRN----MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
           +  N+ +   + +    +    +       ++  +IV        +          +   
Sbjct: 218 NTKNVTKNGFSFDTKQFITKTKDKLLRKGKLERYDIVLTIRGTVGNVAYYDELIKYKHLR 277

Query: 316 ITSAYMAVKPHGIDSTY 332
           I S  + ++P   +  +
Sbjct: 278 INSGMVILRPKTPNHNW 294



 Score = 43.6 bits (101), Expect = 0.054,   Method: Composition-based stats.
 Identities = 16/137 (11%), Positives = 38/137 (27%), Gaps = 6/137 (4%)

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
            +      +Y    ++  G+++            +      +  ++      +K      
Sbjct: 42  FSDTYFEGTYPEEYLIKNGDLLITMDGS-----FILKKWEGDLALLNQRVCKIKITDKSV 96

Query: 331 TYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
                        K           + L    +K +  ++P   EQ  I   +N  +   
Sbjct: 97  DEGYISWLIPKFLKEIEDKTPFVTVKHLSVAKIKDISFVLPNKLEQKLIAKKLNTISQIY 156

Query: 390 DVLVEKIEQSIVLLKER 406
           D    + E+   L+K R
Sbjct: 157 DFRKIQSEKFNELVKSR 173


>gi|167975262|ref|ZP_02557539.1| restriction-modification enzyme MpuUVI S subunit [Ureaplasma
           urealyticum serovar 12 str. ATCC 33696]
 gi|195659926|gb|EDX53306.1| restriction-modification enzyme MpuUVI S subunit [Ureaplasma
           urealyticum serovar 12 str. ATCC 33696]
          Length = 360

 Score = 59.8 bits (143), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 44/385 (11%), Positives = 117/385 (30%), Gaps = 45/385 (11%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
            +    ++ T    ++  +I   GL  +            N+         ++    I  
Sbjct: 6   KLSSVFEIITTGKQKNTFNINLEGLYPL------ISASTANNGIMGYVDNYLYDGQNITI 59

Query: 89  GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ-GWLLSIDVTQRIEAICEGATMS 147
            ++G             +    F++ +    + ++    +LL ++  ++I +I  G T  
Sbjct: 60  SRVGNAGTTFYHEGKISLTDNCFILSRINKKIAKVKYVFYLLKLNEDKKIRSISHGTTRK 119

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
             +   + N+ + +P +  Q  I   I      I+ +   + +   L+ +    L S + 
Sbjct: 120 IINKTDLDNLIIYLPSIEIQNAIISIIEPIEKVINNIKNIKFKIESLVNKYFDFLYSNLE 179

Query: 208 TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK 267
                  +         +G +                    T      I S    + I  
Sbjct: 180 DSNFKKYI---------LGDLF-------------------TINRGQIINSKYIESNIGS 211

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
               +   K      Y      +  F  I            Q     I    ++ +K + 
Sbjct: 212 YPVISSNTKNNGVFGYINSYMYDGEFITISADGAYAGTVFLQNGRFSITNVCFILIKNND 271

Query: 328 ID----STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV-- 381
           ID    + ++ ++++         +     R +++   +K + + +P I+ Q   + +  
Sbjct: 272 IDFKFSNKFVYYILKKEQEVNKLKSQVGSSRPAVREYSLKEIKINLPNIEIQEKFSKIVE 331

Query: 382 ----INVETARIDVLVEKIEQSIVL 402
               ++ +  +I+ ++      I  
Sbjct: 332 PLLNLSTKANKIEKILNDSLLKITK 356



 Score = 49.8 bits (117), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 15/73 (20%), Positives = 33/73 (45%), Gaps = 1/73 (1%)

Query: 331 TYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
            Y+ +L++  +  K+        R+ +   D+  L + +P I+ Q  I ++I      I+
Sbjct: 95  KYVFYLLKLNEDKKIRSISHGTTRKIINKTDLDNLIIYLPSIEIQNAIISIIEPIEKVIN 154

Query: 391 VLVEKIEQSIVLL 403
             ++ I+  I  L
Sbjct: 155 N-IKNIKFKIESL 166


>gi|229587245|ref|YP_002845746.1| Type I restriction/modification enzyme endonuclease S subunit
           [Rickettsia africae ESF-5]
 gi|228022295|gb|ACP54003.1| Type I restriction/modification enzyme endonuclease S subunit
           [Rickettsia africae ESF-5]
          Length = 200

 Score = 59.8 bits (143), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 26/198 (13%), Positives = 63/198 (31%), Gaps = 5/198 (2%)

Query: 196 KEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK--NTKLIE 253
               Q ++       ++      +   +W  +      +    + +  L  K   T ++ 
Sbjct: 1   MNSYQKIIEGAKQI-IDNWHPYFEINKQWEIVKFGDIVINKLKSNILSLEHKEYTTLIVG 59

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
                ++    I+         +   Y   Q    G I+                  M  
Sbjct: 60  KKGKMININTAIKGDIPVIASGRVSPYSHNQYNFNGNIITISSSGAYAGYIWYHNSPMWT 119

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
                 Y       + + YL ++++S          GSG +  +  +D++ L + +PP++
Sbjct: 120 SDCNVIYSIN-EKLLLTKYLYYILKSQQNIIYQKQAGSG-QPHVYLKDLEDLQIPIPPLE 177

Query: 374 EQFDITNVINVETARIDV 391
           EQ  +   ++   ++ID 
Sbjct: 178 EQQKMVTELDNNQSKIDN 195



 Score = 45.9 bits (107), Expect = 0.012,   Method: Composition-based stats.
 Identities = 28/174 (16%), Positives = 48/174 (27%), Gaps = 9/174 (5%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESG---------TGKYLPKDGNS 70
            I K W++V               S +   Y  L   + G          G         
Sbjct: 23  EINKQWEIVKFGDIVINKLKSNILSLEHKEYTTLIVGKKGKMININTAIKGDIPVIASGR 82

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
               +     F    I     G Y       +     S   ++    + L      + + 
Sbjct: 83  VSPYSHNQYNFNGNIITISSSGAYAGYIWYHNSPMWTSDCNVIYSINEKLLLTKYLYYIL 142

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
                 I     G+   H   K + ++ +PIPPL EQ  +  ++     +ID  
Sbjct: 143 KSQQNIIYQKQAGSGQPHVYLKDLEDLQIPIPPLEEQQKMVTELDNNQSKIDNP 196


>gi|268681726|ref|ZP_06148588.1| LOW QUALITY PROTEIN: type I restriction enzyme EcoR124II
           specificity protein [Neisseria gonorrhoeae PID332]
 gi|268683953|ref|ZP_06150815.1| LOW QUALITY PROTEIN: type I restriction enzyme EcoR124II
           specificity protein [Neisseria gonorrhoeae SK-92-679]
 gi|268686198|ref|ZP_06153060.1| LOW QUALITY PROTEIN: type I restriction enzyme EcoR124II
           specificity protein [Neisseria gonorrhoeae SK-93-1035]
 gi|268622010|gb|EEZ54410.1| LOW QUALITY PROTEIN: type I restriction enzyme EcoR124II
           specificity protein [Neisseria gonorrhoeae PID332]
 gi|268624237|gb|EEZ56637.1| LOW QUALITY PROTEIN: type I restriction enzyme EcoR124II
           specificity protein [Neisseria gonorrhoeae SK-92-679]
 gi|268626482|gb|EEZ58882.1| LOW QUALITY PROTEIN: type I restriction enzyme EcoR124II
           specificity protein [Neisseria gonorrhoeae SK-93-1035]
          Length = 206

 Score = 59.8 bits (143), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 19/185 (10%), Positives = 48/185 (25%), Gaps = 10/185 (5%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG 289
            +   K    +      +      +    +   N++Q  E + +     S          
Sbjct: 16  KNVVWKTLGEVAEYSKNRICSDKLNEHNYVGVDNLLQNREGKKLSGYVPSEGKMTEYIVN 75

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
           +I+   I     K           G +    + V    ++  YL  ++            
Sbjct: 76  DILIGNIRPYLKKIWQADCTGGTNGDV--LVIRVTDEKVNPKYLYQVLADDKFFAFNMKH 133

Query: 350 GSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL-------VEKIEQSIV 401
             G          + +  + +PP+ EQ  I  ++         +       +    +   
Sbjct: 134 AKGAKMPRGSKAAIMQYKIPIPPLPEQEKIVAILGKFDTLTHSVSEGLPHEIALRRKQYE 193

Query: 402 LLKER 406
             +E+
Sbjct: 194 YYREQ 198



 Score = 48.3 bits (113), Expect = 0.003,   Method: Composition-based stats.
 Identities = 40/187 (21%), Positives = 70/187 (37%), Gaps = 8/187 (4%)

Query: 27  VVPIKRFTKLNTGRT-SESGKDIIYIGLEDV-ESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
              +    + +  R  S+   +  Y+G++++ ++  GK L   G        T  I    
Sbjct: 20  WKTLGEVAEYSKNRICSDKLNEHNYVGVDNLLQNREGKKLS--GYVPSEGKMTEYIV--N 75

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQP--KDVLPELLQGWLLSIDVTQRIEAICE 142
            IL G + PYL+K   AD  G  +   LV++   + V P+ L   L             +
Sbjct: 76  DILIGNIRPYLKKIWQADCTGGTNGDVLVIRVTDEKVNPKYLYQVLADDKFFAFNMKHAK 135

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           GA M       I    +PIPPL EQ  I   +        ++       I L +++ +  
Sbjct: 136 GAKMPRGSKAAIMQYKIPIPPLPEQEKIVAILGKFDTLTHSVSEGLPHEIALRRKQYEYY 195

Query: 203 VSYIVTK 209
              ++  
Sbjct: 196 REQLLAF 202


>gi|284931720|gb|ADC31658.1| type I restriction-modification system specificity (S) subunit
           domain protein [Mycoplasma gallisepticum str. F]
          Length = 212

 Score = 59.8 bits (143), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 19/177 (10%), Positives = 55/177 (31%), Gaps = 3/177 (1%)

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFI 296
                   +  +    E  IL          +  + +    E  +       G+++    
Sbjct: 36  LRGNGLNWDAISQNGKEDCILYGHLYTDYGMIIDKVLYRTNEKLKNPFFSKFGDVLIPGS 95

Query: 297 DLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS 356
               +  +  ++   +  +I      ++P    +     L  +    K+   +   + + 
Sbjct: 96  GHTPNGLARATSIEKDDVLIGGDVNIIRPRKSINGSYLSLCLNSCRNKLIQIIKGSIVRH 155

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           +   D+K + V V  I E+     ++      ID L+   ++    L+  + + +  
Sbjct: 156 IHNSDIKEIKVHV-SIHEKEQ--ALLVSIFKNIDNLLALHQRKCEKLQNIKEAILEK 209



 Score = 40.5 bits (93), Expect = 0.44,   Method: Composition-based stats.
 Identities = 29/193 (15%), Positives = 58/193 (30%), Gaps = 13/193 (6%)

Query: 25  WKVVPIKRFTKLNTGR-----TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           WK V +K       G                I    + +  G  + K             
Sbjct: 24  WKQVKLKTLADFLRGNGLNWDAISQNGKEDCILYGHLYTDYGMIIDKVLYRTNEKLKNPF 83

Query: 80  IFAKGQILYGKLGPY----LRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
               G +L    G       R   I   D +      +++P+  +       L       
Sbjct: 84  FSKFGDVLIPGSGHTPNGLARATSIEKDDVLIGGDVNIIRPRKSIN-GSYLSLCLNSCRN 142

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
           ++  I +G+ + H     I  I + +    ++      +++    ID L+    R  E L
Sbjct: 143 KLIQIIKGSIVRHIHNSDIKEIKVHVSIHEKEQ---ALLVSIFKNIDNLLALHQRKCEKL 199

Query: 196 KEKKQALVSYIVT 208
           +  K+A++  +  
Sbjct: 200 QNIKEAILEKMFC 212


>gi|261496909|ref|ZP_05993277.1| type I restriction-modification system, subunit S [Mannheimia
           haemolytica serotype A2 str. OVINE]
 gi|261307433|gb|EEY08768.1| type I restriction-modification system, subunit S [Mannheimia
           haemolytica serotype A2 str. OVINE]
          Length = 454

 Score = 59.8 bits (143), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 48/454 (10%), Positives = 119/454 (26%), Gaps = 70/454 (15%)

Query: 29  PIKRFTKLN-----TGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            +  F  +       G    + ++   +      S  G +          +     I   
Sbjct: 3   KLSDFISIKHGFAFKGEFITTEENANCLITPVNFSIGGGFKSDKFKYYTGEIPEKYILQP 62

Query: 84  GQILYGKLG------PYLRKAIIADFDG---ICSTQF--LVLQPKDVLPELLQGWLLSID 132
             ++                A++ +  G   + + +   +     ++  E L   + + +
Sbjct: 63  NDLIVTMTDLSKQADTLGYPALVPNISGKKMLHNQRIGLVEFLDNELDKEYLYFLMRTKE 122

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
              +I +   GAT+ H     I +     P L  Q LI + ++    +I           
Sbjct: 123 YRHQILSTATGATVHHTSPSKILDFEFEKPDLQTQKLIAQYLMILEEKIQLNTQTNQTLE 182

Query: 193 ELLKEKKQALV---------SYIVTKG-------LNPDVKMKDSGIEWVGLV-------- 228
            + +   ++           +  +  G       L+         IE +           
Sbjct: 183 AIAQAIFKSWFVDFDPVRAKAQAILDGKTSDEANLSAMAVFSGKAIEDLSQTEYQELWEI 242

Query: 229 -------------PDHWEVKPFFALVTELNRKNTKLIESNIL--------SLSYGNIIQK 267
                        P  W+      L      K     ES            +S  ++  +
Sbjct: 243 ADAFPSEFGDEGLPIGWKFNQADNLFDVGIGKTPPRKESEWFSDNANDTEWISIKDMGNQ 302

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT---SAYMAVK 324
                   +    E     +   I    + L       R +   +        + +    
Sbjct: 303 GLFITESSEYLKVEAVDKFNIKRIPENTVILSFKLTVGRVSITTKETTTNEAIAHFKIPS 362

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
              + S +L   ++++D   +     S +  ++  + +K + +L P           I  
Sbjct: 363 SSNLSSEFLYCYLKNFDFNNL--GSTSSIATAVNSKMIKEMEILEPSDLVINHFNEYIEG 420

Query: 385 ETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
              +I   + +       L + R   +   + G+
Sbjct: 421 IFNKIKENIIQNNN----LTKIRDELLPKLLNGE 450



 Score = 45.2 bits (105), Expect = 0.020,   Method: Composition-based stats.
 Identities = 19/195 (9%), Positives = 51/195 (26%), Gaps = 12/195 (6%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGK---------DIIYIGLEDVESGTGKYLP--KDGN 69
           +P  WK         +  G+T    +         D  +I ++D+ +         +   
Sbjct: 255 LPIGWKFNQADNLFDVGIGKTPPRKESEWFSDNANDTEWISIKDMGNQGLFITESSEYLK 314

Query: 70  SRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
               D   +    +  ++       + +  I   +   +      +         +    
Sbjct: 315 VEAVDKFNIKRIPENTVILS-FKLTVGRVSITTKETTTNEAIAHFKIPSSSNLSSEFLYC 373

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
            +            +  +  + K I  + +  P         E I     +I   I +  
Sbjct: 374 YLKNFDFNNLGSTSSIATAVNSKMIKEMEILEPSDLVINHFNEYIEGIFNKIKENIIQNN 433

Query: 190 RFIELLKEKKQALVS 204
              ++  E    L++
Sbjct: 434 NLTKIRDELLPKLLN 448


>gi|254831875|ref|ZP_05236530.1| type I restriction enzyme S protein [Listeria monocytogenes 10403S]
          Length = 370

 Score = 59.8 bits (143), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 18/148 (12%), Positives = 48/148 (32%), Gaps = 4/148 (2%)

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET---YQIVDPGEIVFRFIDLQNDK 302
            K+  +     + +      +++    +    E + T      V   +IVF         
Sbjct: 25  HKSDYVDSGVAVIMPQNIGSRQVNYEKISYISEEFATTLRRYKVLKNDIVFARRGDVEKH 84

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFED 361
             +  ++  E        +      +   +++ ++ +  + K            +L  E 
Sbjct: 85  AFITESEEGELCGTGCFLVRFTSEHVLPEFISLILSTPFVKKWLVLNAVGSNMPNLNTEI 144

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARI 389
           +K +P+  P +  Q  I + I+    +I
Sbjct: 145 LKNVPIKFPDLSTQQKILSTISSVEYKI 172



 Score = 54.8 bits (130), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 53/399 (13%), Positives = 119/399 (29%), Gaps = 55/399 (13%)

Query: 25  WKVVPIKRFTKLNTG-------RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS- 76
           W    +    K+ TG       ++      +  I  +++ S    Y      S +  T+ 
Sbjct: 4   WISTSLGEVAKIITGPFGTQLHKSDYVDSGVAVIMPQNIGSRQVNYEKISYISEEFATTL 63

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIAD--FDGICSTQFL--VLQPKDVLPELLQGWLLSID 132
                 K  I++ + G   + A I +     +C T         + VLPE +   L +  
Sbjct: 64  RRYKVLKNDIVFARRGDVEKHAFITESEEGELCGTGCFLVRFTSEHVLPEFISLILSTPF 123

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           V + +     G+ M + + + + N+P+  P L+ Q    +KI++    ++  I    +  
Sbjct: 124 VKKWLVLNAVGSNMPNLNTEILKNVPIKFPDLSTQ----QKILSTISSVEYKIRINTKIN 179

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
             L +  +A+  +            K S I                   + +     +  
Sbjct: 180 TNLLDMAKAIYMHSF---FGKHENAKISDI-------------LLENSKSNIQVGEAREA 223

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
             +    + G  I + +               +V    I        + K  +       
Sbjct: 224 RGDYPFFTSGETIYEWDNY-------------LVKDRNIYLNTGGNADVKFYIG------ 264

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI 372
           +   ++    +      + YL   + +               + L+   VK   + +P  
Sbjct: 265 KAAYSTDTWCISAKNDFTDYLYLFLDAIRPELNQKFFQGTGLKHLQKALVKDKEIYLPS- 323

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
               +I    N     +   V    ++   L + R   +
Sbjct: 324 ---KEILTEFNSIVKPMMEQVSFNTRNNQYLSDLRDWLL 359


>gi|86150434|ref|ZP_01068659.1| restriction modification enzyme [Campylobacter jejuni subsp. jejuni
           CF93-6]
 gi|85839029|gb|EAQ56293.1| restriction modification enzyme [Campylobacter jejuni subsp. jejuni
           CF93-6]
          Length = 699

 Score = 59.4 bits (142), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 60/452 (13%), Positives = 132/452 (29%), Gaps = 88/452 (19%)

Query: 26  KVVPIKRF------TKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT---- 75
           ++V +K F       K  +G   +     + +G E +++ +G     +      +     
Sbjct: 230 ELVRLKDFVLDIQTAKRPSGGVGKYENGALSLGGEHIDNKSGYIKLDNPKYVPIEFYESF 289

Query: 76  --STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP------KDVLPELLQGW 127
                 I  +  IL  K G    K  +   + I  +  +               + L   
Sbjct: 290 ALQDKGIVKQFDILICKDGALTGKIAMVRNEFIRKSAMINEHIFLLRCDNIAKQKYLFYI 349

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
           L S    Q +++   G+     +   + +I +P      Q  I  +      + +T+   
Sbjct: 350 LHSYSGQQALKSKITGSAQGGINKTNLESILIPNADFEIQKQIVAECEKVEEQYNTIRMS 409

Query: 188 RIRFIELLKEKKQ--------------ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWE 233
              +  L+K   Q              +++  +       D  +  S IE      +   
Sbjct: 410 VEEYQNLIKAILQKCGIIDDGGGYELNSILENLQKLEFKLDFNLLLSLIEEQISHSEVLV 469

Query: 234 VKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVF 293
            +       E         ++    L   +   K   + + LK E    Y  ++P +   
Sbjct: 470 EETQSKERKEDFNAFKNFSKTIQELLQTLSTPPKDGWKRISLKNE---QYMELNPSKKEI 526

Query: 294 RFIDLQNDKRSLRSAQVMERGIITS----------------------------------- 318
             +D       +  A V ++G I S                                   
Sbjct: 527 SKLDENMLVSFIEMASVSDKGYIQSKIDRSLNEVRKGYTYFIENDILIAKITPCMENGKC 586

Query: 319 ----------------AYMAVKPHGIDSTYLAWLMRSYDLCKV--FYAMGSGLRQSLKFE 360
                            ++     G+DS++L + +   ++ +       G+   + +   
Sbjct: 587 AIAKNLTNNIGFGSTEFHIFRAKTGLDSSFLFYNLNQQNIREKAALAMTGASGHKRVPIS 646

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
             + L + +PP++ Q  I   I +   +ID L
Sbjct: 647 FYENLTIPLPPLEIQEKIVQNIELVEQQIDFL 678



 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/164 (10%), Positives = 52/164 (31%), Gaps = 7/164 (4%)

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
           E       Y  +           +  + +   IV   +I+         K ++   + + 
Sbjct: 264 EHIDNKSGYIKLDNPKYVPIEFYESFALQDKGIVKQFDILICKDGALTGKIAMVRNEFIR 323

Query: 313 R--GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLV 369
           +   I    ++    +     YL +++ SY   +   +  +G  +  +   +++ + +  
Sbjct: 324 KSAMINEHIFLLRCDNIAKQKYLFYILHSYSGQQALKSKITGSAQGGINKTNLESILIPN 383

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
              + Q  I      E  +++     I  S+   +    + +  
Sbjct: 384 ADFEIQKQIV----AECEKVEEQYNTIRMSVEEYQNLIKAILQK 423



 Score = 38.6 bits (88), Expect = 1.8,   Method: Composition-based stats.
 Identities = 34/196 (17%), Positives = 64/196 (32%), Gaps = 19/196 (9%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGK--------DIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
            WK + +K   +          +         + +I +  V S  G    K   S     
Sbjct: 505 GWKRISLKN--EQYMELNPSKKEISKLDENMLVSFIEMASV-SDKGYIQSKIDRSLNEVR 561

Query: 76  STVSIFAKGQILYGKLGPYLRKAII------ADFDGICSTQFLVLQPKDVLPELLQGWLL 129
              + F +  IL  K+ P +            +  G  ST+F + + K  L      + L
Sbjct: 562 KGYTYFIENDILIAKITPCMENGKCAIAKNLTNNIGFGSTEFHIFRAKTGLDSSFLFYNL 621

Query: 130 SIDVTQRI--EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
           +    +     A+   +           N+ +P+PPL  Q  I + I     +ID L  +
Sbjct: 622 NQQNIREKAALAMTGASGHKRVPISFYENLTIPLPPLEIQEKIVQNIELVEQQIDFLNLK 681

Query: 188 RIRFIELLKEKKQALV 203
                +  ++  Q  +
Sbjct: 682 LELLEKEKEKILQKYL 697


>gi|227508550|ref|ZP_03938599.1| possible type I site-specific deoxyribonuclease specificity subunit
           [Lactobacillus brevis subsp. gravesensis ATCC 27305]
 gi|227191882|gb|EEI71949.1| possible type I site-specific deoxyribonuclease specificity subunit
           [Lactobacillus brevis subsp. gravesensis ATCC 27305]
          Length = 212

 Score = 59.4 bits (142), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 26/182 (14%), Positives = 59/182 (32%), Gaps = 13/182 (7%)

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN----MGLKPESYETYQIVDPGEI 291
              +  T L  K     ++ +L L   NI       N    +  K +       ++  ++
Sbjct: 27  KIGSGKTPLGGKKEYEQKNGVLFLRSQNINNNRIDLNNVAYISSKTDEEMISSSINYNDV 86

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC-KVFYAMG 350
           +         + ++    V    +     +     G DS +L   + SY    ++F    
Sbjct: 87  LLNITGASIGRSAVYR-LVRHANVNQHVCIIRLVDGYDSDFLQLFLSSYYGQIQIFRNQA 145

Query: 351 SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
            G R+ L F  +  +    P + EQ   +         I   +   +     L+  +++ 
Sbjct: 146 GGGREGLNFFQIGEMTFKFPTLNEQKRFSEF----FIDIQNTIAANQGK--RLQ-IKNAL 198

Query: 411 IA 412
           ++
Sbjct: 199 LS 200



 Score = 55.6 bits (132), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 24/169 (14%), Positives = 54/169 (31%), Gaps = 12/169 (7%)

Query: 25  WKVVPIKRF-TKLNTGRTS-------ESGKDIIYIGLEDVESGTGKYLPK-DGNSRQSDT 75
           W+   +K   +K+ +G+T        E    ++++  +++ +           +S+  + 
Sbjct: 16  WEQRKLKNITSKIGSGKTPLGGKKEYEQKNGVLFLRSQNINNNRIDLNNVAYISSKTDEE 75

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIAD--FDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
              S      +L    G  + ++ +         +    +++  D          LS   
Sbjct: 76  MISSSINYNDVLLNITGASIGRSAVYRLVRHANVNQHVCIIRLVDGYDSDFLQLFLSSYY 135

Query: 134 -TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
              +I     G      ++  IG +    P L EQ    E  I     I
Sbjct: 136 GQIQIFRNQAGGGREGLNFFQIGEMTFKFPTLNEQKRFSEFFIDIQNTI 184


>gi|256960368|ref|ZP_05564539.1| type I restriction endonuclease S subunit [Enterococcus faecalis
           Merz96]
 gi|256950864|gb|EEU67496.1| type I restriction endonuclease S subunit [Enterococcus faecalis
           Merz96]
          Length = 201

 Score = 59.4 bits (142), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 29/186 (15%), Positives = 81/186 (43%), Gaps = 15/186 (8%)

Query: 231 HWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGE 290
            W+ +     + + ++K+T   E  ILS +   +    E R   +   S   Y+I+D G+
Sbjct: 23  DWKQRKLGDFLEDFSKKSTIENEYIILSSTNNGM----EIREGRVSGNSNLGYKIIDDGD 78

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM- 349
           +V    +L     ++     + +G+++ +Y   K   ++  +L   +R+  +   +    
Sbjct: 79  LVLSPQNLWLGNINI---NNIGQGLVSPSYKTFKIIDLNKEFLNPQLRTNKMLDQYKNAS 135

Query: 350 ---GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
               S +R++L+ +   ++ + +P  +EQ  I     +   +++  +   +  +  +K  
Sbjct: 136 TQGASIVRRNLELDLFYQIRIFIPKNEEQKQIG----LLFRKLNESISLHQSKLDSIKYL 191

Query: 407 RSSFIA 412
           + +++ 
Sbjct: 192 KKAYLQ 197



 Score = 42.9 bits (99), Expect = 0.10,   Method: Composition-based stats.
 Identities = 24/185 (12%), Positives = 63/185 (34%), Gaps = 8/185 (4%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            WK   +  F +  + +++   + II      + S       ++G    +      I   
Sbjct: 23  DWKQRKLGDFLEDFSKKSTIENEYII------LSSTNNGMEIREGRVSGNSNLGYKIIDD 76

Query: 84  GQILYGKLGPYLRKAIIADF-DGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           G ++      +L    I +   G+ S  +   +  D+  E L   L +  +  + +    
Sbjct: 77  GDLVLSPQNLWLGNININNIGQGLVSPSYKTFKIIDLNKEFLNPQLRTNKMLDQYKNAST 136

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
               S        ++   I     +   +++I     +++  I+     ++ +K  K+A 
Sbjct: 137 QGA-SIVRRNLELDLFYQIRIFIPKNEEQKQIGLLFRKLNESISLHQSKLDSIKYLKKAY 195

Query: 203 VSYIV 207
           +  + 
Sbjct: 196 LQNMF 200


>gi|254493320|ref|ZP_05106491.1| type I restriction enzyme EcoR124II specificity protein [Neisseria
           gonorrhoeae 1291]
 gi|268594458|ref|ZP_06128625.1| type I restriction-modification system specificity determinant
           [Neisseria gonorrhoeae 35/02]
 gi|268598586|ref|ZP_06132753.1| type I restriction enzyme EcoR124II specificity protein [Neisseria
           gonorrhoeae MS11]
 gi|268600939|ref|ZP_06135106.1| type I restriction enzyme EcoR124II specificity protein [Neisseria
           gonorrhoeae PID18]
 gi|226512360|gb|EEH61705.1| type I restriction enzyme EcoR124II specificity protein [Neisseria
           gonorrhoeae 1291]
 gi|268547847|gb|EEZ43265.1| type I restriction-modification system specificity determinant
           [Neisseria gonorrhoeae 35/02]
 gi|268582717|gb|EEZ47393.1| type I restriction enzyme EcoR124II specificity protein [Neisseria
           gonorrhoeae MS11]
 gi|268585070|gb|EEZ49746.1| type I restriction enzyme EcoR124II specificity protein [Neisseria
           gonorrhoeae PID18]
          Length = 208

 Score = 59.4 bits (142), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 19/185 (10%), Positives = 48/185 (25%), Gaps = 10/185 (5%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG 289
            +   K    +      +      +    +   N++Q  E + +     S          
Sbjct: 18  KNVVWKTLGEVAEYSKNRICSDKLNEHNYVGVDNLLQNREGKKLSGYVPSEGKMTEYIVN 77

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
           +I+   I     K           G +    + V    ++  YL  ++            
Sbjct: 78  DILIGNIRPYLKKIWQADCTGGTNGDV--LVIRVTDEKVNPKYLYQVLADDKFFAFNMKH 135

Query: 350 GSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL-------VEKIEQSIV 401
             G          + +  + +PP+ EQ  I  ++         +       +    +   
Sbjct: 136 AKGAKMPRGSKAAIMQYKIPIPPLPEQEKIVAILGKFDTLTHSVSEGLPHEIALRRKQYE 195

Query: 402 LLKER 406
             +E+
Sbjct: 196 YYREQ 200



 Score = 47.9 bits (112), Expect = 0.003,   Method: Composition-based stats.
 Identities = 40/187 (21%), Positives = 70/187 (37%), Gaps = 8/187 (4%)

Query: 27  VVPIKRFTKLNTGRT-SESGKDIIYIGLEDV-ESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
              +    + +  R  S+   +  Y+G++++ ++  GK L   G        T  I    
Sbjct: 22  WKTLGEVAEYSKNRICSDKLNEHNYVGVDNLLQNREGKKLS--GYVPSEGKMTEYIV--N 77

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQP--KDVLPELLQGWLLSIDVTQRIEAICE 142
            IL G + PYL+K   AD  G  +   LV++   + V P+ L   L             +
Sbjct: 78  DILIGNIRPYLKKIWQADCTGGTNGDVLVIRVTDEKVNPKYLYQVLADDKFFAFNMKHAK 137

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           GA M       I    +PIPPL EQ  I   +        ++       I L +++ +  
Sbjct: 138 GAKMPRGSKAAIMQYKIPIPPLPEQEKIVAILGKFDTLTHSVSEGLPHEIALRRKQYEYY 197

Query: 203 VSYIVTK 209
              ++  
Sbjct: 198 REQLLAF 204


>gi|260439464|ref|ZP_05793280.1| type I restriction-modification system, S subunit [Butyrivibrio
           crossotus DSM 2876]
 gi|292808099|gb|EFF67304.1| type I restriction-modification system, S subunit [Butyrivibrio
           crossotus DSM 2876]
          Length = 245

 Score = 59.4 bits (142), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 21/176 (11%), Positives = 45/176 (25%), Gaps = 2/176 (1%)

Query: 219 DSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE 278
               E    +PD W       +       + K  +    +        K+      L   
Sbjct: 70  CIDDEISFDIPDTWSWTRISTITDITMGSSPKSQDICNDNQYIEFHQGKIYFSKKTLM-- 127

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
               Y          + + L                 I     ++K  G  +    +   
Sbjct: 128 KSNQYTRKTTKLAPKQSVLLCVRAPVGELNITDRDICIGRGLASIKSLGNINEEFIFYWL 187

Query: 339 SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
                 +          ++  + V+ + + +PP+ EQ +I N I      ++ L  
Sbjct: 188 HPYKTYLVNQSTGSTFSAITSDTVRNILIPLPPLMEQKEILNKIQKVFTLLENLET 243



 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 31/164 (18%), Positives = 52/164 (31%), Gaps = 1/164 (0%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            IP  W    I   T +  G + +S          +   G   +  K        T   +
Sbjct: 78  DIPDTWSWTRISTITDITMGSSPKSQDICNDNQYIEFHQGKIYFSKKTLMKSNQYTRKTT 137

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
             A  Q +   +   + +  I D D         ++    + E    + L       +  
Sbjct: 138 KLAPKQSVLLCVRAPVGELNITDRDICIGRGLASIKSLGNINEEFIFYWLHP-YKTYLVN 196

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
              G+T S      + NI +P+PPL EQ  I  KI      ++ 
Sbjct: 197 QSTGSTFSAITSDTVRNILIPLPPLMEQKEILNKIQKVFTLLEN 240


>gi|298528586|ref|ZP_07015990.1| restriction modification system DNA specificity domain protein
           [Desulfonatronospira thiodismutans ASO3-1]
 gi|298512238|gb|EFI36140.1| restriction modification system DNA specificity domain protein
           [Desulfonatronospira thiodismutans ASO3-1]
          Length = 382

 Score = 59.4 bits (142), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 52/401 (12%), Positives = 109/401 (27%), Gaps = 36/401 (8%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            H++  P++      TG+ + +          D +        +   +         +  
Sbjct: 3   SHFQQSPLEEIVNFKTGKLNSNAAK------PDGKYPFFTCSQETYRTDTWSFDGEYVLL 56

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
            G                     +    + +    +        +       + +++I  
Sbjct: 57  AG----NNAAGVYPLKYFKGKFDVYQRTYAIRSINETKCLTRYVYYALRLQLELMKSIST 112

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           G          +    +P+PPL  Q  I   + A    I+  +           E  Q L
Sbjct: 113 GVATKFLTMSLLNRAQIPLPPLPIQRKIASILSAYDDLIENNLRRIKILE----EMAQNL 168

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
                 K   P  +        +G +P+ WE      LV     +N         S+   
Sbjct: 169 YREWFVKFRFPGHEKVRLVDSELGKIPEGWEAVKLGNLVKVRKGQNITKKTIVPGSIP-- 226

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
                      G+KP  Y          +            SL         +  S    
Sbjct: 227 -------VVAGGIKPAYYHNTANTQHPVVTISASGANAGFVSL-----YHEYVWASDCSV 274

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV--PPIKEQFDITN 380
           +     +  Y  +L       +V        +  +  +D+  + V V  PP      I N
Sbjct: 275 IDRSTTEHVYFFYLQLKERQHEVTRLQRGAAQPHVYPKDLMEI-VAVEAPP-----HILN 328

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
             + E   +  +V  +     +L++ R   +   ++G++D+
Sbjct: 329 SFSAEVYPLLHMVRNLSLKNRILRQTRDLLLPRLISGELDV 369



 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 23/193 (11%), Positives = 50/193 (25%), Gaps = 16/193 (8%)

Query: 12  DSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSR 71
           DS    +G IP+ W+ V +    K+  G+       +            G      G  +
Sbjct: 188 DSE---LGKIPEGWEAVKLGNLVKVRKGQNITKKTIVP-----------GSIPVVAGGIK 233

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
            +     +      +     G       +       S   ++ +       +   +L   
Sbjct: 234 PAYYHNTANTQHPVVTISASGANAGFVSLYHEYVWASDCSVIDRSTTE--HVYFFYLQLK 291

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
           +    +  +  GA   H   K +  I     P         ++      +  L  +    
Sbjct: 292 ERQHEVTRLQRGAAQPHVYPKDLMEIVAVEAPPHILNSFSAEVYPLLHMVRNLSLKNRIL 351

Query: 192 IELLKEKKQALVS 204
            +        L+S
Sbjct: 352 RQTRDLLLPRLIS 364


>gi|224542466|ref|ZP_03683005.1| hypothetical protein CATMIT_01648 [Catenibacterium mitsuokai DSM
           15897]
 gi|224524613|gb|EEF93718.1| hypothetical protein CATMIT_01648 [Catenibacterium mitsuokai DSM
           15897]
          Length = 300

 Score = 59.4 bits (142), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 23/157 (14%), Positives = 50/157 (31%), Gaps = 6/157 (3%)

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQN--DKRSLRSAQVMERGIITSAYMA-- 322
            L     G   E       V  G+++    +       R+    +V ++       +   
Sbjct: 130 DLSEWKYGAWSEEEAKPFAVTEGDLLVVRGNGSLALVGRAGLVGKVPDQVAYPDTLIRLR 189

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
                + S +++    S             S     +   D+  + V VPP+ EQ  I  
Sbjct: 190 TIETVVRSAWMSLNWNSELSRNHLEKRARTSAGIYKISQPDIVSVRVPVPPLAEQDRILA 249

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
             +    +I  +   ++ ++     +R + + AA  G
Sbjct: 250 EFDTHMKQIGSVEAALDAALKQATAQRKNLLKAAFAG 286


>gi|307287455|ref|ZP_07567507.1| conserved domain protein [Enterococcus faecalis TX0109]
 gi|306501501|gb|EFM70800.1| conserved domain protein [Enterococcus faecalis TX0109]
          Length = 73

 Score = 59.4 bits (142), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 12/66 (18%), Positives = 33/66 (50%), Gaps = 5/66 (7%)

Query: 349 MGSGLRQSLKFEDVKRLPVLVPPI-KEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
           + SG + ++  +++     ++P + +EQ  I +       ++D  +   ++ + LLKE++
Sbjct: 8   LVSGAQPNVLSKEIDSFNFMIPILVQEQQKIGSF----FKQLDDTIALHQRKLDLLKEQK 63

Query: 408 SSFIAA 413
             F+  
Sbjct: 64  KGFLQK 69


>gi|194098149|ref|YP_002001197.1| Type I restriction-modification system specificity determinant
           [Neisseria gonorrhoeae NCCP11945]
 gi|193933439|gb|ACF29263.1| Type I restriction-modification system specificity determinant
           [Neisseria gonorrhoeae NCCP11945]
 gi|317163874|gb|ADV07415.1| Type I restriction-modification system specificity determinant
           [Neisseria gonorrhoeae TCDC-NG08107]
          Length = 207

 Score = 59.4 bits (142), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 19/185 (10%), Positives = 48/185 (25%), Gaps = 10/185 (5%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG 289
            +   K    +      +      +    +   N++Q  E + +     S          
Sbjct: 17  KNVVWKTLGEVAEYSKNRICSDKLNEHNYVGVDNLLQNREGKKLSGYVPSEGKMTEYIVN 76

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
           +I+   I     K           G +    + V    ++  YL  ++            
Sbjct: 77  DILIGNIRPYLKKIWQADCTGGTNGDV--LVIRVTDEKVNPKYLYQVLADDKFFAFNMKH 134

Query: 350 GSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL-------VEKIEQSIV 401
             G          + +  + +PP+ EQ  I  ++         +       +    +   
Sbjct: 135 AKGAKMPRGSKAAIMQYKIPIPPLPEQEKIVAILGKFDTLTHSVSEGLPHEIALRRKQYE 194

Query: 402 LLKER 406
             +E+
Sbjct: 195 YYREQ 199



 Score = 47.9 bits (112), Expect = 0.003,   Method: Composition-based stats.
 Identities = 40/187 (21%), Positives = 70/187 (37%), Gaps = 8/187 (4%)

Query: 27  VVPIKRFTKLNTGRT-SESGKDIIYIGLEDV-ESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
              +    + +  R  S+   +  Y+G++++ ++  GK L   G        T  I    
Sbjct: 21  WKTLGEVAEYSKNRICSDKLNEHNYVGVDNLLQNREGKKLS--GYVPSEGKMTEYIV--N 76

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQP--KDVLPELLQGWLLSIDVTQRIEAICE 142
            IL G + PYL+K   AD  G  +   LV++   + V P+ L   L             +
Sbjct: 77  DILIGNIRPYLKKIWQADCTGGTNGDVLVIRVTDEKVNPKYLYQVLADDKFFAFNMKHAK 136

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           GA M       I    +PIPPL EQ  I   +        ++       I L +++ +  
Sbjct: 137 GAKMPRGSKAAIMQYKIPIPPLPEQEKIVAILGKFDTLTHSVSEGLPHEIALRRKQYEYY 196

Query: 203 VSYIVTK 209
              ++  
Sbjct: 197 REQLLAF 203


>gi|300911563|ref|ZP_07129007.1| EcoA family type I restriction-modification enzyme [Staphylococcus
           aureus subsp. aureus TCH70]
 gi|300886984|gb|EFK82185.1| EcoA family type I restriction-modification enzyme [Staphylococcus
           aureus subsp. aureus TCH70]
          Length = 243

 Score = 59.4 bits (142), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 33/243 (13%), Positives = 79/243 (32%), Gaps = 24/243 (9%)

Query: 172 EKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDH 231
           +KI     ++D  I    + +ELL+++K+  +  I T+ L    +  +   EW       
Sbjct: 21  QKIGKFFSKLDRQIELEEQKLELLQQQKKGYMQKIFTQELRFKDENGEEYPEWENKFIKD 80

Query: 232 WEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEI 291
             +          +    K +     +    + ++     N                  +
Sbjct: 81  IFIFENNRRKPITSSLREKGLYPYYGATGIIDYVKDYLFNNEE---------------RL 125

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
           +      +  +    S     +  + +    VK +  +  ++ + +      K   A  +
Sbjct: 126 LIGEDGAKWGQFETSSFIANGQYWVNNHAHVVKSNDHNLFFMNYYLN----FKELRAFVT 181

Query: 352 GLRQ-SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
           G     L   ++  + + +P + EQ    + ++     ID  +      I LLKER+   
Sbjct: 182 GNAPAKLTHANLCNINLKIPCLTEQ----DKVSALLKSIDNKMNNQMNRIELLKERKKEL 237

Query: 411 IAA 413
           +  
Sbjct: 238 LQK 240


>gi|171920515|ref|ZP_02931799.1| reStriction-modification enzyme mpuuiii s subunit [Ureaplasma
           parvum serovar 1 str. ATCC 27813]
 gi|171902420|gb|EDT48709.1| reStriction-modification enzyme mpuuiii s subunit [Ureaplasma
           parvum serovar 1 str. ATCC 27813]
          Length = 361

 Score = 59.4 bits (142), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 42/391 (10%), Positives = 112/391 (28%), Gaps = 48/391 (12%)

Query: 27  VVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD---TSTVSIFAK 83
           +  +     +  G           I  + +E   G Y      + ++          + K
Sbjct: 3   IYKLYELVNIYKGSN--------LITKKYIEQNEGIYPVISSKTTENGVYGFINTYDYEK 54

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA--IC 141
            +I     G         + +   +   LV     ++    +   L++   +      I 
Sbjct: 55  DKITMSSDGENAGTTFWQEKNFSLTNHALVFIMNKLIKYNYKYLFLTLKKHESKIKELII 114

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            G+T        + +I + +P + EQ  I + I      I+ +   +I+   L+ +    
Sbjct: 115 SGSTRPSVSLSLLKSINIKLPSIEEQNAIIDIIEPIEKVINNIKNVKIKIESLINKYFDF 174

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
           L S +        +      I                                 I S   
Sbjct: 175 LYSDLKDSNFKKYILGDLFTI----------------------------NRGQIINSKYI 206

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
            N I      +   K      Y      +  F  I            +  +  I    ++
Sbjct: 207 DNNIGSYPVISSNTKNNEIFGYINSYMYDGEFITISADGAYAGTVFLENGKFSITNVCFI 266

Query: 322 AVKPHG----IDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF- 376
            +K        ++ ++ ++++         +     R +++   +K + + +P ++ Q  
Sbjct: 267 LIKNKDIDFKFNNKFVYYILKKEQEINRLKSQVGSSRPAVREYSLKEIKINLPNMEIQEE 326

Query: 377 --DITNVINVETARIDVLVEKIEQSIVLLKE 405
              I   +   + + + + + +  S++ + +
Sbjct: 327 FSKIVEPLLNLSTKANKIEKILNDSLLKITK 357


>gi|297571611|ref|YP_003697385.1| restriction modification system DNA specificity domain protein
           [Arcanobacterium haemolyticum DSM 20595]
 gi|296931958|gb|ADH92766.1| restriction modification system DNA specificity domain protein
           [Arcanobacterium haemolyticum DSM 20595]
          Length = 242

 Score = 59.4 bits (142), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 29/190 (15%), Positives = 65/190 (34%), Gaps = 11/190 (5%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRK-------NTKLIESNILSLSYGNIIQKLETRN 272
           +  E    +PD WE   F  L  E+              ++     ++  NI+       
Sbjct: 54  TDDEEYFDIPDTWEWTRFSELAIEVCTGPFGSALHRRDYVDDGTPVINPSNIVGDTFVPT 113

Query: 273 MGLKPESYE--TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
           + +  E+    +   +  G++V            +  A+          Y     + +  
Sbjct: 114 VFVNEETSARLSSFALAHGDLVIGRRGEMGRSAVVSEAEAGWLCGTGCFYAKSGENHVF- 172

Query: 331 TYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
            Y+A  +++  +     +       Q+L    ++RLP+ VP  +EQ  I   +    A +
Sbjct: 173 DYVALTLKAPSVRAQLSSSSLGTTMQNLNQTTLRRLPLAVPSRREQLRIDAKLGQLKAPM 232

Query: 390 DVLVEKIEQS 399
             L + ++ +
Sbjct: 233 RSLQQLLQNA 242



 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 25/171 (14%), Positives = 60/171 (35%), Gaps = 12/171 (7%)

Query: 20  AIPKHWKVVPIKRFT-KLNTGRTSES-------GKDIIYIGLEDVESGTGKYLPKDGNSR 71
            IP  W+         ++ TG    +             I   ++   T           
Sbjct: 61  DIPDTWEWTRFSELAIEVCTGPFGSALHRRDYVDDGTPVINPSNIVGDTFVPTVFVNEET 120

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIAD---FDGICSTQFLVLQPKDVLPELLQGWL 128
            +  S+ ++   G ++ G+ G   R A++++        +  F     ++ + + +   L
Sbjct: 121 SARLSSFALAH-GDLVIGRRGEMGRSAVVSEAEAGWLCGTGCFYAKSGENHVFDYVALTL 179

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
            +  V  ++ +   G TM + +   +  +P+ +P   EQ+ I  K+     
Sbjct: 180 KAPSVRAQLSSSSLGTTMQNLNQTTLRRLPLAVPSRREQLRIDAKLGQLKA 230


>gi|327474706|gb|EGF20111.1| hypothetical protein HMPREF9391_0220 [Streptococcus sanguinis
           SK408]
          Length = 274

 Score = 59.4 bits (142), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 19/156 (12%), Positives = 51/156 (32%), Gaps = 9/156 (5%)

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
             E R +      +     +   E++   +        +    +       +       +
Sbjct: 126 NGERRYVTESSYEFLKKSRLYGHEVIISNVADVGSVHRVPKMNMPMVAG-NNVVFLQSEN 184

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
            + + YL     S        ++ SG  +Q     D + L + +           +I  +
Sbjct: 185 SLLTDYLYVYFNSRLGQHDIMSITSGSAQQKFNKTDFRNLEIPILSDD-------IIKKK 237

Query: 386 TARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            + I   ++ I + I  L + R++ +   ++G+I +
Sbjct: 238 ISSILHYIDNIHEEIACLMKIRATLLPKLLSGEISV 273


>gi|94266884|ref|ZP_01290541.1| type I restriction enzyme StySPI specificity protein [delta
           proteobacterium MLMS-1]
 gi|93452437|gb|EAT03045.1| type I restriction enzyme StySPI specificity protein [delta
           proteobacterium MLMS-1]
          Length = 117

 Score = 59.4 bits (142), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 12/66 (18%), Positives = 30/66 (45%)

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
            + ++    +K L + VPP +EQ +I   ++   ++++ +    +  +      R S + 
Sbjct: 16  GQANVNGSKLKALAIPVPPAEEQHEILTRMDEHFSKMNTVEGWCQAELTRSASLRQSVLK 75

Query: 413 AAVTGQ 418
            A  G+
Sbjct: 76  DAFAGR 81


>gi|218133862|ref|ZP_03462666.1| hypothetical protein BACPEC_01751 [Bacteroides pectinophilus ATCC
           43243]
 gi|217991237|gb|EEC57243.1| hypothetical protein BACPEC_01751 [Bacteroides pectinophilus ATCC
           43243]
          Length = 219

 Score = 59.4 bits (142), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 17/172 (9%), Positives = 49/172 (28%), Gaps = 15/172 (8%)

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPE---SYETYQIVDPGEIVFRFIDLQNDKR 303
            N       I  +  G +   +  +          S  + +++    ++     +   + 
Sbjct: 56  NNEYWENGTISWVKSGEVHNNITLQTEEYITPLGLSESSTKLLPKDTVLMAMYGVTAGEV 115

Query: 304 SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVK 363
              + +         A   +  +        +         +      G + +L    + 
Sbjct: 116 GYLAIE----ATTNQAICGMICNSKADAAYLYFSLIQSQAAISRLSNGGAQDNLSKNFID 171

Query: 364 RLPVLVPPIKEQFDITNVINVE-TARIDVLVEKIEQSIVLLKERRSSFIAAA 414
            + ++VP        +  I     A I   +    + I LL+E +++ +A  
Sbjct: 172 NIKIVVPS-------SEFIEELNLAAIVEQMTLNTKEIALLEELQATALAQL 216



 Score = 55.6 bits (132), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/150 (11%), Positives = 42/150 (28%), Gaps = 9/150 (6%)

Query: 21  IPKHWKVVPIKRFT-KLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPKDGNSRQ 72
           +P  +++  +  F  +  +G T     +       I ++   +V +       +      
Sbjct: 30  LPDDFEIQTVSEFCRETKSGSTPSRTNNEYWENGTISWVKSGEVHNNITLQTEEYITPLG 89

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
              S+  +  K  +L    G    +      +   +     +            +   I 
Sbjct: 90  LSESSTKLLPKDTVLMAMYGVTAGEVGYLAIEATTNQAICGMICNSKADA-AYLYFSLIQ 148

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIP 162
               I  +  G    +     I NI + +P
Sbjct: 149 SQAAISRLSNGGAQDNLSKNFIDNIKIVVP 178


>gi|305431924|ref|ZP_07401091.1| restriction modification enzyme [Campylobacter coli JV20]
 gi|304445008|gb|EFM37654.1| restriction modification enzyme [Campylobacter coli JV20]
          Length = 258

 Score = 59.4 bits (142), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 32/241 (13%), Positives = 85/241 (35%), Gaps = 18/241 (7%)

Query: 157 IPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVK 216
             + +  + EQ+   E ++ ET        +     +   +  Q L+  + T   +   +
Sbjct: 10  FNLLLSLIEEQISHSEVLVEETQ--SKERKQDFNAFKNFSKTIQELLQTLSTPPKDGWKR 67

Query: 217 MKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK 276
           +     +++ L P   E+      +               + ++  +    ++++     
Sbjct: 68  ISLKNEQYIELNPSKKEISKLDENMLVS-----------FIEMASVSDKGYIQSKIDRSL 116

Query: 277 PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI---ITSAYMAVKPHGIDSTYL 333
            E  + Y      +I+   I    +      A+ +   I    T  ++     G+DS++L
Sbjct: 117 NEVRKGYTYFIENDILIAKITPCMENGKCAIAKNLTNNIGFGSTEFHIFRAKTGLDSSFL 176

Query: 334 AWLMRSYDLCKV--FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
            + +   ++ +       G+   + +     + L + +PP++ Q  I   I +   +ID 
Sbjct: 177 FYNLNQQNIREKAALAMTGASGHKRVPISFYENLTIPLPPLEIQEKIVQNIELVEQQIDF 236

Query: 392 L 392
           L
Sbjct: 237 L 237



 Score = 37.9 bits (86), Expect = 2.9,   Method: Composition-based stats.
 Identities = 36/194 (18%), Positives = 68/194 (35%), Gaps = 15/194 (7%)

Query: 24  HWKVVPIKR--FTKLNTGRT----SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
            WK + +K   + +LN  +      +    + +I +  V S  G    K   S       
Sbjct: 64  GWKRISLKNEQYIELNPSKKEISKLDENMLVSFIEMASV-SDKGYIQSKIDRSLNEVRKG 122

Query: 78  VSIFAKGQILYGKLGPYLRKAII------ADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
            + F +  IL  K+ P +            +  G  ST+F + + K  L      + L+ 
Sbjct: 123 YTYFIENDILIAKITPCMENGKCAIAKNLTNNIGFGSTEFHIFRAKTGLDSSFLFYNLNQ 182

Query: 132 DVTQRI--EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
              +     A+   +           N+ +P+PPL  Q  I + I     +ID L  +  
Sbjct: 183 QNIREKAALAMTGASGHKRVPISFYENLTIPLPPLEIQEKIVQNIELVEQQIDFLNLKLE 242

Query: 190 RFIELLKEKKQALV 203
              +  ++  Q  +
Sbjct: 243 LLEKEKEKILQKYL 256


>gi|296454641|ref|YP_003661784.1| restriction endonuclease S subunit [Bifidobacterium longum subsp.
           longum JDM301]
 gi|296184072|gb|ADH00954.1| Restriction endonuclease S subunit [Bifidobacterium longum subsp.
           longum JDM301]
          Length = 342

 Score = 59.0 bits (141), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 26/220 (11%), Positives = 68/220 (30%), Gaps = 17/220 (7%)

Query: 200 QALVSYIVTKGLNPDVKMKDS------GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
            ++ S  V       ++ K +           G   +  +                + + 
Sbjct: 122 CSIRSEYVIAFYTFKLQYKCNNSTPAWEQRKFGDCFEFLKSNTLSRAGLNDENGTARNVH 181

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQ---IVDPGEIVFRFIDLQNDKRSLRS--A 308
              + + +G+ +    +    +  ++        I+  G+++F                 
Sbjct: 182 YGDILIKFGDCLDGERSDLPFITDDTVLPKFAGSILREGDVIFADTAEDEAAGKCVELRK 241

Query: 309 QVMERGIITSAYMAVKPHGIDST-YLAWLMRSYDLCKVFYAMGSGLRQ-SLKFEDVKRLP 366
              E  I     +  +P     T YL   + S    +    +  G++  S+    ++   
Sbjct: 242 LPKEPTISGLHTIPARPRFFFGTGYLGHYLNSDAYHRQLLPLMQGIKVISVSKAALQDTQ 301

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
           V  P + EQ  I   +    + ID L+   ++  + +++R
Sbjct: 302 VRFPGLSEQAAIGAAL----SEIDNLITLHQRKRLSIRQR 337



 Score = 37.9 bits (86), Expect = 3.4,   Method: Composition-based stats.
 Identities = 24/194 (12%), Positives = 51/194 (26%), Gaps = 20/194 (10%)

Query: 25  WKVVPIKRFTKLNTGRTSES-------------GKDIIYIGLEDVESGTGKYLPKDGNSR 71
           W+        +     T                    I I   D   G    LP   +  
Sbjct: 148 WEQRKFGDCFEFLKSNTLSRAGLNDENGTARNVHYGDILIKFGDCLDGERSDLPFITDDT 207

Query: 72  QSDTSTVSIFAKGQILYGKL------GPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ 125
                  SI  +G +++         G  +    +     I     +  +P+        
Sbjct: 208 VLPKFAGSILREGDVIFADTAEDEAAGKCVELRKLPKEPTISGLHTIPARPRFFFGTGYL 267

Query: 126 -GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
             +L S    +++  + +G  +       + +  +  P L+EQ  I   +      I   
Sbjct: 268 GHYLNSDAYHRQLLPLMQGIKVISVSKAALQDTQVRFPGLSEQAAIGAALSEIDNLITLH 327

Query: 185 ITERIRFIELLKEK 198
             +R+   +     
Sbjct: 328 QRKRLSIRQRSPVW 341


>gi|317178851|dbj|BAJ56639.1| Type I restriction-modification system specificity subunit
           [Helicobacter pylori F30]
          Length = 164

 Score = 59.0 bits (141), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/149 (10%), Positives = 49/149 (32%), Gaps = 9/149 (6%)

Query: 270 TRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID 329
                + P++ +  ++     I+        +   L    +  +      +++ K +   
Sbjct: 13  DSIQHITPKALKGKKLFPKNSIIISTTATIGEHALLIVDSLANQRFT---FLSKKANCNI 69

Query: 330 STYLAWLMRSYDLCKVFYAMGS--GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           +  + +      L   +    +      S+     K+    +PP++ Q +I  +++  + 
Sbjct: 70  ALDMKFFFYQCFLLGEWCKKNTNVSGFASVDMTAFKKYKFPIPPLEIQQEIVKILDQFST 129

Query: 388 RIDVLVEKIEQSIVLLKE----RRSSFIA 412
               L+  I   I   K+     R   ++
Sbjct: 130 LTTDLLAGIPAEIEARKKQYEYYREKLLS 158



 Score = 40.5 bits (93), Expect = 0.48,   Method: Composition-based stats.
 Identities = 17/131 (12%), Positives = 39/131 (29%), Gaps = 4/131 (3%)

Query: 53  LEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFL 112
           ++D+            +          +F K  I+          A++   D + + +F 
Sbjct: 1   MDDIRENGRILKDSIQHITPKALKGKKLFPKNSIIISTTATIGEHALLI-VDSLANQRFT 59

Query: 113 VLQPKDVLP---ELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVL 169
            L  K       ++   +     + +  +     +  +  D         PIPPL  Q  
Sbjct: 60  FLSKKANCNIALDMKFFFYQCFLLGEWCKKNTNVSGFASVDMTAFKKYKFPIPPLEIQQE 119

Query: 170 IREKIIAETVR 180
           I + +   +  
Sbjct: 120 IVKILDQFSTL 130


>gi|237650541|ref|ZP_04524793.1| type I restriction enzyme EcoBI specificity protein (S
           protein)(S.EcoBI) [Streptococcus pneumoniae CCRI 1974]
 gi|237822642|ref|ZP_04598487.1| type I restriction enzyme EcoBI specificity protein (S
           protein)(S.EcoBI) [Streptococcus pneumoniae CCRI 1974M2]
          Length = 307

 Score = 59.0 bits (141), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 42/319 (13%), Positives = 93/319 (29%), Gaps = 34/319 (10%)

Query: 26  KVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           K V +    ++ +G   +S +       +  I + DVE G            +       
Sbjct: 2   KKVKLGEVCEILSGYAFKSSQFNDNKIGLPLIRIRDVERGFSD------TYFEGTYPEEY 55

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           +   G +L    G ++ K        + + +   ++  D   +      L     + IE 
Sbjct: 56  LIKNGDLLITMDGSFILK-KWEGDLALLNQRVCKIKITDKSVDEGYISWLIPKFLKEIED 114

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
                T+ H     I +I   +P   EQ LI +K+      I  +   R    E   E  
Sbjct: 115 KTPFVTVKHLSVAKIKDISFVLPNKLEQKLIAKKLN----TISQIYDFRKIQSEKFNELV 170

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
           ++  + +              G   +    D+              + +    E   L L
Sbjct: 171 KSRFNEMF-------------GENKIFESIDNLFDIIDGDRGKNYPKSDELFSEEYCLFL 217

Query: 260 SYGNIIQKLETRN----MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
           +  N+ +   + +    +    +       ++  +IV        +          +   
Sbjct: 218 NTKNVTKNGFSFDTKQFITKTKDKLLRKGKLERYDIVLTTRGTVGNVAYYDELIKYKHLR 277

Query: 316 ITSAYMAVKPHGIDSTYLA 334
           I S  + ++P   +  +  
Sbjct: 278 INSGMVILRPKTPNLNHNW 296



 Score = 44.0 bits (102), Expect = 0.045,   Method: Composition-based stats.
 Identities = 16/137 (11%), Positives = 38/137 (27%), Gaps = 6/137 (4%)

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
            +      +Y    ++  G+++            +      +  ++      +K      
Sbjct: 42  FSDTYFEGTYPEEYLIKNGDLLITMDGS-----FILKKWEGDLALLNQRVCKIKITDKSV 96

Query: 331 TYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
                        K           + L    +K +  ++P   EQ  I   +N  +   
Sbjct: 97  DEGYISWLIPKFLKEIEDKTPFVTVKHLSVAKIKDISFVLPNKLEQKLIAKKLNTISQIY 156

Query: 390 DVLVEKIEQSIVLLKER 406
           D    + E+   L+K R
Sbjct: 157 DFRKIQSEKFNELVKSR 173


>gi|320527411|ref|ZP_08028593.1| type I restriction modification DNA specificity domain protein
           [Solobacterium moorei F0204]
 gi|320132268|gb|EFW24816.1| type I restriction modification DNA specificity domain protein
           [Solobacterium moorei F0204]
          Length = 394

 Score = 59.0 bits (141), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 40/349 (11%), Positives = 110/349 (31%), Gaps = 48/349 (13%)

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLV---------LQPKDVLPELLQG 126
           +  ++   G ++        +           S Q +V          +   ++      
Sbjct: 84  TKYALIQNGDLILADASEDRKDVGRPVEMLDISNQKIVSGLHTIHARNKTDLIVNGFKGF 143

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           +  S  + Q+I  I  G+ +          + M IP   EQ    +KII   ++I+  I 
Sbjct: 144 YFQSSAMKQQIFKIANGSKIYGISSSAFNELKMFIPEKQEQ----KKIIDLMIKIEERIQ 199

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
            + + I      K  + +++                         +++K    +V  +  
Sbjct: 200 TQSKIISDYNSLKSGVYNWMFK------------------ENNVTFKLKQLAHIVKGVQI 241

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
            N +L+ +    +  G  +      +  +   +    +               +      
Sbjct: 242 NNDQLLSNGAYYMMNGGTLPSGYLDSYNVSENTISISE------------GGNSCGYVQF 289

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLP 366
           + +    G        V P  +++ YL   ++  +   +   +G+GL  +++ +D++   
Sbjct: 290 NKERFWSGGHCYTIQNVNPLIVENKYLYHYLKHKEKEIMNLRIGTGL-PNIQKKDLENFT 348

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           + VP +  Q             +D  +  + + +  L++++   +    
Sbjct: 349 IFVPNLLIQRKNL----ALFEMLDEKICILNEELERLEKQKKYLLRNLF 393


>gi|317014845|gb|ADU82281.1| putative type I restriction enzyme [Helicobacter pylori
           Gambia94/24]
          Length = 182

 Score = 59.0 bits (141), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 17/150 (11%), Positives = 46/150 (30%), Gaps = 4/150 (2%)

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
             +  +   +G  P       ++     +     +   ++      +   G         
Sbjct: 25  HGRDYKNFKLGNIPVYGSGGYMLSINNFLHNGESVCIGRKGTIDKPIYLNGKFWVVDTLF 84

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
             +    +   ++  ++ + K      +    SL    +  + + +PP+ EQ  I NV++
Sbjct: 85  YSYSFKKSIPKFIFYAFSIIKWSNYNEATGVPSLTKMTISNIEIPLPPLDEQAAIANVLS 144

Query: 384 VETA---RIDVLVEKIEQSIVLLKERRSSF 410
                   +D L+      + + K  R   
Sbjct: 145 DVDRYLCSLDALI-LTRMLVSVSKSHRKGL 173



 Score = 47.9 bits (112), Expect = 0.003,   Method: Composition-based stats.
 Identities = 27/161 (16%), Positives = 48/161 (29%), Gaps = 18/161 (11%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           +PK W+ V +     L  GR  +           + + G        G     +     +
Sbjct: 8   LPKTWQKVRLGDILTLKHGRDYK-----------NFKLGNIPVYGSGGYMLSINN---FL 53

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
                +  G+ G   +   +     +  T F     K  +P+ +      I         
Sbjct: 54  HNGESVCIGRKGTIDKPIYLNGKFWVVDTLFYSYSFKKSIPKFIFYAFSIIK----WSNY 109

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
            E   +       I NI +P+PPL EQ  I   +      +
Sbjct: 110 NEATGVPSLTKMTISNIEIPLPPLDEQAAIANVLSDVDRYL 150


>gi|238810194|dbj|BAH69984.1| hypothetical protein [Mycoplasma fermentans PG18]
          Length = 172

 Score = 59.0 bits (141), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 16/134 (11%), Positives = 43/134 (32%), Gaps = 10/134 (7%)

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
            +Y     VD   I+   +               ++  +T   +  KP   +     +  
Sbjct: 38  ITYVNKWNVDEDAIIIGRVGAN----CGCVNITNKKSFVTDNALIFKPKEKNMARFYFYF 93

Query: 338 RSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
             +     F+      +  L    +  + + +P + +   I+ +++     ID  +E+  
Sbjct: 94  LLHLNLNKFHI--GSSQPLLTQGILGNIKINIPSLNKCQKISKILD----NIDNQIERNN 147

Query: 398 QSIVLLKERRSSFI 411
             +  L+    + I
Sbjct: 148 SMVQKLQSFEQALI 161


>gi|289168438|ref|YP_003446707.1| type I restriction-modification system specificity determinant
           [Streptococcus mitis B6]
 gi|288908005|emb|CBJ22845.1| type I restriction-modification system specificity determinant
           [Streptococcus mitis B6]
          Length = 185

 Score = 59.0 bits (141), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 18/122 (14%), Positives = 45/122 (36%), Gaps = 2/122 (1%)

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV 345
            + G+I+   I     K    +      G + +   ++ P   +  YL +++        
Sbjct: 52  YNQGDILIGNIRPYLKKIWFSNQVGGTSGDVLTIQNSITPCMEN-KYLYYILSDDRFFYY 110

Query: 346 FYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLK 404
                 G        + + +   ++P I EQ  I ++++      + L E + + I L +
Sbjct: 111 NVQYSKGSKMPRGDKKAIMQYKFILPSITEQKRIVSILDNFNTLTNSLSEGLPKEIELRQ 170

Query: 405 ER 406
           ++
Sbjct: 171 KQ 172



 Score = 40.5 bits (93), Expect = 0.48,   Method: Composition-based stats.
 Identities = 33/185 (17%), Positives = 65/185 (35%), Gaps = 7/185 (3%)

Query: 29  PIKRFTKLNTGRTSESG-KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
            +    + +  R S +      Y+G++++               Q   +T     +G IL
Sbjct: 2   KLGAVAEYSQKRISVTDLTPETYVGVDNLLQDRKGKAVATFLPDQGSVTTY---NQGDIL 58

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPK---DVLPELLQGWLLSIDVTQRIEAICEGA 144
            G + PYL+K   ++  G  S   L +Q      +  + L   L             +G+
Sbjct: 59  IGNIRPYLKKIWFSNQVGGTSGDVLTIQNSITPCMENKYLYYILSDDRFFYYNVQYSKGS 118

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
            M   D K I      +P + EQ  I   +       ++L     + IEL +++ +    
Sbjct: 119 KMPRGDKKAIMQYKFILPSITEQKRIVSILDNFNTLTNSLSEGLPKEIELRQKQYEYWRE 178

Query: 205 YIVTK 209
            ++  
Sbjct: 179 QLLNF 183


>gi|309386128|gb|ADO66998.1| putative type I restriction-modification system specificity subunit
           [Enterococcus faecium]
          Length = 187

 Score = 59.0 bits (141), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 18/118 (15%), Positives = 41/118 (34%), Gaps = 1/118 (0%)

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
              S      ++  +I+         K  L      E    +          + S Y+  
Sbjct: 67  ISNSKLVDLRLEENDILIARTGGTMGKSFLVKEISEESVFASYLIRIRLVEKLLSEYVDC 126

Query: 336 LMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            + S    K+   +  G  + ++   ++ +L + +PP++EQ  +T  I +    I  +
Sbjct: 127 FLDSPLYWKLLEKISYGTGQPNVNGTNLSKLLIPLPPLEEQQRMTTKIKMIRRSIRRI 184



 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 29/164 (17%), Positives = 62/164 (37%), Gaps = 7/164 (4%)

Query: 27  VVPIKRFT-KLNTGRTSESGK--DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            V +   + K+  G T  + K  ++ ++ + D++ G   +         +         +
Sbjct: 20  WVYLGSISTKIQYGYTDSAKKQGNVKFLRITDIQEGRVNWSSVPYCDISNSKLVDLRLEE 79

Query: 84  GQILYGKLGPYLRKAI----IADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
             IL  + G  + K+     I++     S    +   + +L E +  +L S    + +E 
Sbjct: 80  NDILIARTGGTMGKSFLVKEISEESVFASYLIRIRLVEKLLSEYVDCFLDSPLYWKLLEK 139

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           I  G    + +   +  + +P+PPL EQ  +  KI      I  
Sbjct: 140 ISYGTGQPNVNGTNLSKLLIPLPPLEEQQRMTTKIKMIRRSIRR 183


>gi|291551221|emb|CBL27483.1| Restriction endonuclease S subunits [Ruminococcus torques L2-14]
          Length = 374

 Score = 59.0 bits (141), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 27/143 (18%), Positives = 57/143 (39%), Gaps = 7/143 (4%)

Query: 274 GLKPESYETYQIVDPGEIVFRFIDLQNDKRS-LRSAQVMERGIITSAYMAVKPHGID--- 329
            +       Y+++  G+     + +  D+R  +      +  I++ AY   +        
Sbjct: 42  NVIGTDLSKYKLITKGKFACNPMHVGRDERLPVALYDEEKPAIVSPAYFMFEVIDNSILK 101

Query: 330 STYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
             YL    R  +  ++ +      +R  + ++D+ RL + +PPI+ Q +I N     T R
Sbjct: 102 EDYLMMWFRRPEFDRICWLHTDGSVRGGITWDDICRLELPIPPIENQLEIVNSYKAITER 161

Query: 389 IDVLVEKIEQSIVLL-KERRSSF 410
           I  L +KI  ++    +    S 
Sbjct: 162 I-ALKQKINDNLEATAQAYFDSL 183


>gi|167761885|ref|ZP_02434012.1| hypothetical protein BACSTE_00228 [Bacteroides stercoris ATCC
           43183]
 gi|167700255|gb|EDS16834.1| hypothetical protein BACSTE_00228 [Bacteroides stercoris ATCC
           43183]
          Length = 197

 Score = 59.0 bits (141), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 26/118 (22%), Positives = 45/118 (38%), Gaps = 6/118 (5%)

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLR--SAQVMERGIITSAYMAVKPHGI--DSTYLA 334
           +  +   +  G++         D   +    A   +  I+      V P+    D  YL 
Sbjct: 60  NEISKFKLKKGQVALTKDSETRDDIGIPTYIADDFDDAILGYHCALVTPNKDILDGRYLN 119

Query: 335 WLMRSYDLCKVF--YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
            L+ +    K F   A GSG R +L  E +   PV + P+ EQ  I  + +    +I+
Sbjct: 120 ALLHTDYAKKYFACNASGSGQRYALSVEALNSFPVPIIPLHEQKQIGEIFSALDKKIE 177


>gi|237752768|ref|ZP_04583248.1| type I restriction-modification system [Helicobacter winghamensis
           ATCC BAA-430]
 gi|229376257|gb|EEO26348.1| type I restriction-modification system [Helicobacter winghamensis
           ATCC BAA-430]
          Length = 187

 Score = 59.0 bits (141), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 21/171 (12%), Positives = 52/171 (30%), Gaps = 6/171 (3%)

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
                     I+  S GN  Q     +     +    + +    +I+   +        +
Sbjct: 21  YGIPFYRSKEIIEFSKGNNPQNELFIDENKYNDIANKFGVPQANDILLTSVGTLGIPYLV 80

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKR 364
              +          +     +   S +L +  +S    +   ++     +Q+L    +K 
Sbjct: 81  PKDKKFYFKDGNLTWFKNFKNIT-SLFLFYWFKSPQGKEKLDSIAIGSTQQALTIAALKA 139

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           + + +P       I  ++N +   I   +E   + I  L+  R   + A  
Sbjct: 140 VNIHLPHTD----IIRILNEQLNGIQNKIENNTKQIQNLQAMRDMLLKAIF 186


>gi|225550658|ref|ZP_03771607.1| restriction-modification enzyme MpuUVI S subunit [Ureaplasma
           urealyticum serovar 2 str. ATCC 27814]
 gi|225379812|gb|EEH02174.1| restriction-modification enzyme MpuUVI S subunit [Ureaplasma
           urealyticum serovar 2 str. ATCC 27814]
          Length = 355

 Score = 59.0 bits (141), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 37/348 (10%), Positives = 101/348 (29%), Gaps = 20/348 (5%)

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICST-QFLVLQPKDVLPELLQGWLLSI 131
                     +  IL+           + +        +  + +  +VL      +    
Sbjct: 6   ISIENNKFIDEPAILFSSTATIGNVCYVEEKCWFNDQIKAFISKDSNVLNTKYLYYWFLN 65

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
           +         +G+  S    K + N+ + +P + EQ  I   I                 
Sbjct: 66  NKHIIKSQANKGSVFSSIGIKELVNMKINLPSIEEQNAIISIIEPHEKLFVKYSNLVDIS 125

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
                +K    +  I+         +K+  I++      +      ++ + + N K   L
Sbjct: 126 SVENAKKDVDNLISIIEPIEKVINNIKN--IKFKIESLVNKYFDFLYSNLEDSNFKKYIL 183

Query: 252 IESNILSLSYGNIIQKLETRNMGL-------KPESYETYQIVDPGEIVFRFIDLQNDKRS 304
            +   ++       + +E+            K      Y      +  F  I        
Sbjct: 184 GDLFTINRGQIINSKYIESNIGSYPVISSNTKNNGVFGYINSYMYDGEFITISADGAYAG 243

Query: 305 LRSAQVMERGIITSAYMAVKPHGID----STYLAWLMRSYDLCKVFYAMGSGLRQSLKFE 360
               Q     I    ++ +K + ID    + ++ ++ +         +     R +++  
Sbjct: 244 TVFLQNGRFSITNVCFILIKNNDIDFKFSNKFVYYIFKKEQEVNKLKSQVGSSRPAVREY 303

Query: 361 DVKRLPVLVPPIKEQFDITNV------INVETARIDVLVEKIEQSIVL 402
            +K + + +P I+ Q   + +      ++ +  +I+ ++      I  
Sbjct: 304 SLKEIKINLPNIEIQEKFSKIVEPLLNLSTKANKIEKILNDSLLKITK 351



 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 17/108 (15%), Positives = 43/108 (39%), Gaps = 2/108 (1%)

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
           +  S E  + +D   I+F       +   +         I   A+++   + +++ YL +
Sbjct: 4   RYISIENNKFIDEPAILFSSTATIGNVCYVEEKCWFNDQI--KAFISKDSNVLNTKYLYY 61

Query: 336 LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
              +        A    +  S+  +++  + + +P I+EQ  I ++I 
Sbjct: 62  WFLNNKHIIKSQANKGSVFSSIGIKELVNMKINLPSIEEQNAIISIIE 109


>gi|189463336|ref|ZP_03012121.1| hypothetical protein BACCOP_04053 [Bacteroides coprocola DSM 17136]
 gi|189429955|gb|EDU98939.1| hypothetical protein BACCOP_04053 [Bacteroides coprocola DSM 17136]
          Length = 185

 Score = 59.0 bits (141), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 25/171 (14%), Positives = 62/171 (36%), Gaps = 5/171 (2%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIV 286
            +PD W       +   L+     +  S   S      I +L                I+
Sbjct: 19  QLPDGWTACRLEQVADILDNLRKPINSSERDSRIRNRQIDELYPYYGATGQVGLIDDYII 78

Query: 287 DPGEIVFRFIDL-QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV 345
           +   ++         DK ++++  +  +  + +    + P         +L  S +    
Sbjct: 79  NGNYLLLGEDGAPFLDKNAIKAYSISGKSWVNNHAHILSPKID----FEFLQYSLNQIDY 134

Query: 346 FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
              +    R  L   D++ + +++PP+ EQ  I + I +  +++D+++E +
Sbjct: 135 SEYVNGSTRLKLTQTDMRSIKIMLPPLAEQKRIKSKIQILFSQLDLMMESL 185



 Score = 45.6 bits (106), Expect = 0.015,   Method: Composition-based stats.
 Identities = 29/182 (15%), Positives = 61/182 (33%), Gaps = 5/182 (2%)

Query: 7   YPQYKDSGVQWIG---AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKY 63
           Y +Y ++  + IG    +P  W    +++   +                + + +    + 
Sbjct: 3   YNEYSNNIAERIGHYTQLPDGWTACRLEQVADILDNLRKPINSSERDSRIRNRQID--EL 60

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPEL 123
            P  G + Q       I     +L G+ G             I    ++      + P++
Sbjct: 61  YPYYGATGQVGLIDDYIINGNYLLLGEDGAPFLDKNAIKAYSISGKSWVNNHAHILSPKI 120

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
              +L              G+T        + +I + +PPLAEQ  I+ KI     ++D 
Sbjct: 121 DFEFLQYSLNQIDYSEYVNGSTRLKLTQTDMRSIKIMLPPLAEQKRIKSKIQILFSQLDL 180

Query: 184 LI 185
           ++
Sbjct: 181 MM 182


>gi|321310232|ref|YP_004192561.1| type I restriction-modification system, S subunit [Mycoplasma
           haemofelis str. Langford 1]
 gi|319802076|emb|CBY92722.1| type I restriction-modification system, S subunit [Mycoplasma
           haemofelis str. Langford 1]
          Length = 195

 Score = 59.0 bits (141), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 22/165 (13%), Positives = 61/165 (36%), Gaps = 4/165 (2%)

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFI 296
              +   L+ K+T  +ES    L  GN +   +     L     ++++++D   + +  +
Sbjct: 13  ICKIHRGLSFKSTYYLESGTPVLKIGN-VDGGKVIKENLFYCDEKSHKVLDMHRVRYEDV 71

Query: 297 DLQNDKRSLRSAQVMER--GIITSAYMAVKPHGIDSTYLA-WLMRSYDLCKVFYAMGSGL 353
            + N   + + A  +     I++S    + P+         +        ++   + +  
Sbjct: 72  VITNLAPAGKVAINLTNLEFILSSHVFKLDPNPEILDRRYLYYFLMNSPRQIEQMLTAAN 131

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
              +    +++  +LVP ++ Q  I   ++      + L  +  Q
Sbjct: 132 VVRIHMSSLEKFKILVPDLETQRSIVAKLDKFRELREELKMRKRQ 176



 Score = 54.4 bits (129), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 27/190 (14%), Positives = 64/190 (33%), Gaps = 7/190 (3%)

Query: 26  KVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGT-GKYLPKDGNSRQSDTSTVSI 80
           K   +    K++ G + +S          + + +V+ G   K      + +      +  
Sbjct: 6   KECRLGEICKIHRGLSFKSTYYLESGTPVLKIGNVDGGKVIKENLFYCDEKSHKVLDMHR 65

Query: 81  FAKGQILYGKLGPYLRKAI-IADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
                ++   L P  + AI + + + I S+    L P   + +    +   ++  ++IE 
Sbjct: 66  VRYEDVVITNLAPAGKVAINLTNLEFILSSHVFKLDPNPEILDRRYLYYFLMNSPRQIEQ 125

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
           +   A +       +    + +P L  Q  I  K+  +   +   +  R R     + K 
Sbjct: 126 MLTAANVVRIHMSSLEKFKILVPDLETQRSIVAKLD-KFRELREELKMRKRQGVYYRNKI 184

Query: 200 QALVSYIVTK 209
              +   V  
Sbjct: 185 MGGLQECVFP 194


>gi|333011300|gb|EGK30714.1| type I restriction enzyme EcoAI specificity domain protein
           [Shigella flexneri K-272]
          Length = 377

 Score = 59.0 bits (141), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 33/192 (17%), Positives = 66/192 (34%), Gaps = 15/192 (7%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
           S  E    +P+ WE      +   ++  + K+  S IL      +I++ +    G     
Sbjct: 93  SEEEKPFELPEGWEWVHLPDIYCSISESSRKIKSSEILPEGKYPVIEQSQEFISGYCNNE 152

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
                ++     V  F D   +          +  +       + P  I   +  WL+RS
Sbjct: 153 ---CLLIKLNNPVIVFGDHTRN----IKFIDFDFVVGADGVKILSPILICERFFFWLLRS 205

Query: 340 YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
           + L    YA          F+ +      +PPI EQ  I   ++   +  D L ++   S
Sbjct: 206 FKLDVRGYAR--------HFKVLNSCLFALPPIAEQERIVEKVSSLMSLCDQLEQQSLTS 257

Query: 400 IVLLKERRSSFI 411
           +   ++   + +
Sbjct: 258 LDAHQQLVETLL 269



 Score = 36.7 bits (83), Expect = 6.6,   Method: Composition-based stats.
 Identities = 31/204 (15%), Positives = 70/204 (34%), Gaps = 18/204 (8%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRF-TKLNTGRTSESGKDIIYIGLEDVESG 59
           +K  K  P+   S  +    +P+ W+ V +      ++         +I+  G   V   
Sbjct: 83  IKKQKPLPEI--SEEEKPFELPEGWEWVHLPDIYCSISESSRKIKSSEILPEGKYPVIEQ 140

Query: 60  TGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV 119
           + +++    N+       +       I++   G + R     DFD +      V     +
Sbjct: 141 SQEFISGYCNNECL----LIKLNNPVIVF---GDHTRNIKFIDFDFVVGAD-GVKILSPI 192

Query: 120 LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
           L      + L       +        +       + +    +PP+AEQ  I EK+ +   
Sbjct: 193 LICERFFFWLLRSFKLDVRGYARHFKV-------LNSCLFALPPIAEQERIVEKVSSLMS 245

Query: 180 RIDTLITERIRFIELLKEKKQALV 203
             D L  + +  ++  ++  + L+
Sbjct: 246 LCDQLEQQSLTSLDAHQQLVETLL 269


>gi|269978324|gb|ACZ55896.1| putative type I restriction-modification system specificity subunit
           S [Helicobacter pylori]
          Length = 330

 Score = 59.0 bits (141), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 40/372 (10%), Positives = 95/372 (25%), Gaps = 46/372 (12%)

Query: 50  YIGLEDVESGT-GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICS 108
           +I   D+         P+  +     +   +      IL G +G      +  D     +
Sbjct: 2   FITPNDLHGTYRIIKTPRTLSDSGLKSIQNNTINNTSILVGCIGDVGMVRMCFDKCA-TN 60

Query: 109 TQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQV 168
            Q   +            +    +  +  + I     +          I + +P +  Q 
Sbjct: 61  QQINSITDIKDFCNPYYLYYYLSNKKELFKNIAFSTVVPIIPKTIFQEIEVLLPNIETQQ 120

Query: 169 LIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLV 228
            I   +     +I+                                              
Sbjct: 121 KIARTLSILDQKIENNHKINELL------------------------------------- 143

Query: 229 PDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDP 288
             H      +    +   KN KL +  I +     +++  +         +     +  P
Sbjct: 144 --HTLAYKIYEYYFKYKPKNAKLEQIIIENPKSNIMVKNAQKTQDKYPFFTSGDNILSYP 201

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA 348
             I+       N   +      + +   ++    +  +   S YL  L+ S         
Sbjct: 202 KAIIDGRNCFLNTGGNAGIKFYVGKASYSTDTWCICANEF-SDYLYLLLSSIKNHINQSF 260

Query: 349 MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
                 + L+   +K+ P+ +P   E        N     +  L+    ++   L++ R 
Sbjct: 261 FQGTSLKHLQKNLLKKYPIYMPSAHEIKKF----NQIMMPLLTLISINTRTSKKLEQIRD 316

Query: 409 SFIAAAVTGQID 420
             +   +T Q+ 
Sbjct: 317 FLLPLLLTQQVK 328


>gi|198273534|ref|ZP_03206070.1| restriction-modification enzyme MpuUVI S subunit [Ureaplasma
           urealyticum serovar 4 str. ATCC 27816]
 gi|198250054|gb|EDY74834.1| restriction-modification enzyme MpuUVI S subunit [Ureaplasma
           urealyticum serovar 4 str. ATCC 27816]
          Length = 356

 Score = 59.0 bits (141), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 47/383 (12%), Positives = 110/383 (28%), Gaps = 38/383 (9%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
            +    ++ T    ++  +I   GL  +            N+         ++    I  
Sbjct: 6   KLSSVFEIITTGKQKNTFNINLEGLYPL------ISASTANNGIMGYVDNYLYDGQNITI 59

Query: 89  GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ-GWLLSIDVTQRIEAICEGATMS 147
            ++G             +    F++ +    + ++    +LL ++  ++I +I  G T  
Sbjct: 60  SRVGNAGTTFYHEGKISLTDNCFILSRINKKIAKVKYVFYLLKLNEDKKIRSISHGTTRK 119

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
             +   + N+ + +P +  Q  I   I      I   I      I L  EK    ++  +
Sbjct: 120 IINKTDLDNLIIYLPSIEIQNAIISIIEPIEKSI-KTINLLQTKIGLFIEKTFNFINDNL 178

Query: 208 TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK 267
                 +  +KD      GL                            I +    N    
Sbjct: 179 VNSDLIEFSLKDLLNIKRGLP---------------------------ITAKDLLNNPGS 211

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
               +   K      Y      +     I +  +   +               ++     
Sbjct: 212 YPLISASSKNNGIFGYFNDYMYDGQNITISMNGNAGCIFYQIGKFSANSDVLVLSNSNKN 271

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           + +    + +      ++        R  L    +++  VL+P I+ Q   + ++     
Sbjct: 272 LTNIDYIYYLLKTKEKEIQNLAIGTTRFRLGNSVIEKFKVLLPNIEIQEKFSKIVEPLL- 330

Query: 388 RIDVLVEKIEQSIV--LLKERRS 408
            +     KIE+++   LLK  + 
Sbjct: 331 NLSTKANKIEKNLNECLLKIVKK 353


>gi|261491602|ref|ZP_05988185.1| type I restriction-modification system specificity determinant
           [Mannheimia haemolytica serotype A2 str. BOVINE]
 gi|261312728|gb|EEY13848.1| type I restriction-modification system specificity determinant
           [Mannheimia haemolytica serotype A2 str. BOVINE]
          Length = 187

 Score = 59.0 bits (141), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 13/118 (11%), Positives = 35/118 (29%), Gaps = 5/118 (4%)

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR 354
            I                  +  +  +      + + Y+   + S     +F        
Sbjct: 66  TIAGSGAYAGFLMYWNEPIFLGDAFSVKPDLDILITKYVYHFLLSKQ-QWIFNLKKGSGV 124

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
             +  +D+  L + +PP++ Q  I   ++  T     L  ++       +  R + + 
Sbjct: 125 PHVYPKDLAILEIPIPPLEIQQKIVKTLDKFTE----LEAELALRKKQYQYYRETLLT 178



 Score = 54.8 bits (130), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 27/155 (17%), Positives = 51/155 (32%), Gaps = 12/155 (7%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           +  P+    +L  G+T         I  +D   G    +   G  + +  +         
Sbjct: 16  EWKPLGEVAELKRGKT---------ITAKDKTEGNIPVIS--GGQKPAYYTGEYNREGET 64

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           I     G Y    +  +        F V +P   +      +   +   Q I  + +G+ 
Sbjct: 65  ITIAGSGAYAGFLMYWNEPIFLGDAFSV-KPDLDILITKYVYHFLLSKQQWIFNLKKGSG 123

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
           + H   K +  + +PIPPL  Q  I + +   T  
Sbjct: 124 VPHVYPKDLAILEIPIPPLEIQQKIVKTLDKFTEL 158


>gi|307312926|ref|ZP_07592554.1| putative restriction modification system DNA specificity domain
           protein [Escherichia coli W]
 gi|306907094|gb|EFN37601.1| putative restriction modification system DNA specificity domain
           protein [Escherichia coli W]
 gi|315063605|gb|ADT77932.1| hypothetical protein ECW_m4660 [Escherichia coli W]
 gi|320200587|gb|EFW75173.1| hypothetical protein ECoL_02153 [Escherichia coli EC4100B]
 gi|323380314|gb|ADX52582.1| putative restriction modification system DNA specificity domain
           protein [Escherichia coli KO11]
          Length = 508

 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 41/356 (11%), Positives = 96/356 (26%), Gaps = 20/356 (5%)

Query: 46  KDIIYIGLEDVESGTGKYLP--KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIA-- 101
             I YI  + ++S         +       +  T S      +L  + G      ++   
Sbjct: 64  DSIPYISGKVIKSFNIDLDECQRISLDSHKNELTKSALKPTDVLVIRKGDMGNACVVPSE 123

Query: 102 -DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMP 160
            +     S    +       P  L  +L      +  + +  G  +       +  +P+P
Sbjct: 124 VNEANCSSEVIYLKMKASSDPYYLVSYLNCDQGQKAFKRLGRGTIIPGVSLLDVPRLPIP 183

Query: 161 IPPLAEQVLIREK------IIAETVRIDTLITERIRFIELLKEKKQALVS----YIVTKG 210
                 Q  I +K      + A    + T +   +  + L   +  AL++      +   
Sbjct: 184 KVSEFVQKYIGDKVRQAEQLRAWAKLLRTSVDAHLNSLNLPINEPPALLNRVSAQTMEDR 243

Query: 211 LNPDVKMKDSG--IEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI-IQK 267
           L+P          +  +  +P                  N  L  S I  +   NI    
Sbjct: 244 LDPRPYRTHYLCLVREIEKLPHDSISTLVELASGCPVSSNDFLENSGIPLVRIRNIGFDD 303

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
               + G+  + Y+        + +   + +    RS          ++      + P  
Sbjct: 304 FIGLDTGVSQDVYQDATKYQAKDKMIV-VGMDGIFRSQFFISDELPMLVNQRVAMLSPQN 362

Query: 328 IDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
           I    L   +   +              +     D+ R+ +       +  + + +
Sbjct: 363 IRGELLTHWLNRPEGQMQLNQWAVKTTVEHTSLSDIGRVLIPRLDKSLENKLADYL 418


>gi|256026505|ref|ZP_05440339.1| type I restriction-modification enzyme, S subunit [Fusobacterium
           sp. D11]
 gi|289764517|ref|ZP_06523895.1| predicted protein [Fusobacterium sp. D11]
 gi|289716072|gb|EFD80084.1| predicted protein [Fusobacterium sp. D11]
          Length = 231

 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 26/191 (13%), Positives = 63/191 (32%), Gaps = 9/191 (4%)

Query: 225 VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ 284
           +G V +    K           K       +I  +++           +          +
Sbjct: 14  LGDVFNLQMGKTPLRENKLYWNKGKYNW-ISISDMNFSEKYLFSTKEKISDIAIKESGIK 72

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCK 344
           ++    ++  F       + +         I+  A++  +   ID  +L + ++S    +
Sbjct: 73  LIPKNTVIMSFKLSIGKVKIVNEDIYSNEAIM--AFIPKENFFIDKNFLYYCLKSLKWNE 130

Query: 345 VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLK 404
                  GL  +L    + +  + +P +  Q +I+N ++     I+ L+E  +  +  LK
Sbjct: 131 GINKAVKGL--TLNKNLIAQKEIFLPDLTIQKEISNNLDS----INNLLELRKNQLNYLK 184

Query: 405 ERRSSFIAAAV 415
           E   S      
Sbjct: 185 ELNKSLFTRVF 195



 Score = 53.3 bits (126), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 27/199 (13%), Positives = 57/199 (28%), Gaps = 10/199 (5%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVE--SGTGKYLPKDGNSRQS 73
             WK V +     L  G+T               +I + D+           +  +    
Sbjct: 7   NEWKKVKLGDVFNLQMGKTPLRENKLYWNKGKYNWISISDMNFSEKYLFSTKEKISDIAI 66

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
             S + +  K  ++       + K  I + D   +   +   PK+            +  
Sbjct: 67  KESGIKLIPKNTVIMS-FKLSIGKVKIVNEDIYSNEAIMAFIPKENFFIDKNFLYYCLKS 125

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
            +  E I +       +   I    + +P L  Q  I   + +    ++    +     E
Sbjct: 126 LKWNEGINKAVKGLTLNKNLIAQKEIFLPDLTIQKEISNNLDSINNLLELRKNQLNYLKE 185

Query: 194 LLKEKKQALVSYIVTKGLN 212
           L K     +   I++   N
Sbjct: 186 LNKSLFTRVFGDILSNSFN 204


>gi|304436272|ref|ZP_07396256.1| conserved hypothetical protein [Selenomonas sp. oral taxon 149 str.
           67H29BP]
 gi|304370734|gb|EFM24375.1| conserved hypothetical protein [Selenomonas sp. oral taxon 149 str.
           67H29BP]
          Length = 203

 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 19/142 (13%), Positives = 48/142 (33%), Gaps = 7/142 (4%)

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD 341
           +  ++   +I+F           +  + +        A + V    I   Y+  L     
Sbjct: 62  SRSVIKEKDILFTIAGTLGRFSFIDESLLPANTNQAVAIIRVNQAKIPPEYIYSLFIGNW 121

Query: 342 LCKVFYAM-GSGLRQSLKFEDVKRLPVL-VPPIKEQFDITNVINVETARIDVLVEKIEQS 399
               +       ++ +L    +K LP+  +P    +  I        + I  L++     
Sbjct: 122 HNNYYVKHIQQAVQANLSLATIKSLPIPMLPDSDMKVYI-----KMVSPIISLMQSYACE 176

Query: 400 IVLLKERRSSFIAAAVTGQIDL 421
              L+  R + +   ++G++D+
Sbjct: 177 NSRLQTLRDTLLPRLMSGELDV 198


>gi|139438171|ref|ZP_01771724.1| Hypothetical protein COLAER_00712 [Collinsella aerofaciens ATCC
           25986]
 gi|133776368|gb|EBA40188.1| Hypothetical protein COLAER_00712 [Collinsella aerofaciens ATCC
           25986]
          Length = 188

 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 23/193 (11%), Positives = 51/193 (26%), Gaps = 23/193 (11%)

Query: 207 VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ 266
                +P  + K      +G +      K  F   T                        
Sbjct: 12  FAGFTDPWEQRK------LGELGSVAMCKRIFKEQTTEQGDVPFYKIGTF-------GGT 58

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
                +  L  E    YQ    G+I+             +      +   ++        
Sbjct: 59  PDAFISRELFDEYQRLYQFPKVGDILISAAGTIGRTIVYQGDPAYYQD--SNIVWLQHDE 116

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
            +D+ +L   +          ++     + L  +D+    + +P   EQ  I +      
Sbjct: 117 RLDNGFLLQFLNGKSW----SSLEGSTLKRLYNKDLLNAEIAIPSPDEQHQIGS----TF 168

Query: 387 ARIDVLVEKIEQS 399
           AR+D ++   ++ 
Sbjct: 169 ARLDDIITLHQRE 181



 Score = 40.2 bits (92), Expect = 0.63,   Method: Composition-based stats.
 Identities = 27/164 (16%), Positives = 50/164 (30%), Gaps = 14/164 (8%)

Query: 25  WKVVPIKRFTK------LNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           W+   +           +   +T+E G D+ +  +         ++ ++      +   +
Sbjct: 19  WEQRKLGELGSVAMCKRIFKEQTTEQG-DVPFYKIGTFGGTPDAFISRELF---DEYQRL 74

Query: 79  SIFAK-GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
             F K G IL    G   R  +            +V        E L    L   +  + 
Sbjct: 75  YQFPKVGDILISAAGTIGRTIVYQGDPAYYQDSNIVW---LQHDERLDNGFLLQFLNGKS 131

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
            +  EG+T+     K + N  + IP   EQ  I          I
Sbjct: 132 WSSLEGSTLKRLYNKDLLNAEIAIPSPDEQHQIGSTFARLDDII 175


>gi|323158214|gb|EFZ44306.1| Type I restriction modification DNA specificity domain protein
           [Escherichia coli E128010]
          Length = 245

 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 31/222 (13%), Positives = 64/222 (28%), Gaps = 18/222 (8%)

Query: 26  KVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           + +P+ +   L  G T    K       DI +  ++D+                      
Sbjct: 17  EWLPLSKVFNLRNGYTPSKTKKEFWANGDIPWFRMDDIRENGRILGNSLQKISSCAVKGG 76

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELL---QGWLLSIDVTQ 135
            +F +  IL          A+I     + + +F  L  K+   +       +     + +
Sbjct: 77  KLFPENSILISTSATIGEHALITVPH-LANQRFTCLALKESYADCFDIKFLFYYCFSLAE 135

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPP-------LAEQVLIREKIIAETVRIDTLITER 188
                   ++ +  D  G     +P P        LA Q  I   +   T     L  E 
Sbjct: 136 WCRKNTTMSSFASVDMDGFKKFLIPRPCPDNPEKSLAIQSEIVRILDKFTALTAELTAEL 195

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPD 230
               +     +  L+S+  +      +      +++ G  P 
Sbjct: 196 NMRKKQYNYYRDQLLSFDESSVEWKTLLEACDYVDYRGKTPK 237



 Score = 52.9 bits (125), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 23/206 (11%), Positives = 54/206 (26%), Gaps = 15/206 (7%)

Query: 217 MKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKL---ETRNM 273
           M    +EW+ L     +V       T    K       +I      +I +          
Sbjct: 11  MDGVEVEWLPLS----KVFNLRNGYTPSKTKKEFWANGDIPWFRMDDIRENGRILGNSLQ 66

Query: 274 GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL 333
            +   + +  ++     I+        +   +    +  +     A         D  +L
Sbjct: 67  KISSCAVKGGKLFPENSILISTSATIGEHALITVPHLANQRFTCLALKESYADCFDIKFL 126

Query: 334 AWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-------PIKEQFDITNVINVET 386
            +   S                S+  +  K+  +  P        +  Q +I  +++  T
Sbjct: 127 FYYCFSLA-EWCRKNTTMSSFASVDMDGFKKFLIPRPCPDNPEKSLAIQSEIVRILDKFT 185

Query: 387 ARIDVLVEKIEQSIVLLKERRSSFIA 412
           A    L  ++          R   ++
Sbjct: 186 ALTAELTAELNMRKKQYNYYRDQLLS 211


>gi|283954606|ref|ZP_06372124.1| hypothetical protein C414_000240009 [Campylobacter jejuni subsp.
           jejuni 414]
 gi|283793798|gb|EFC32549.1| hypothetical protein C414_000240009 [Campylobacter jejuni subsp.
           jejuni 414]
          Length = 476

 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 57/422 (13%), Positives = 118/422 (27%), Gaps = 55/422 (13%)

Query: 30  IKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV-SIFAKGQILY 88
           +    K N+  +     +        ++    +Y+  +    ++  S    I  K  +L 
Sbjct: 57  LGDNMKFNSRYSQPKYDE-----TSKMKVINSQYIRNEYIDYENAKSGYGKIVPKESVLI 111

Query: 89  GKLG-PYLRKAIIA--DFDGICSTQF--LVLQPKDVLPELLQGWLLSIDV--TQRIEAIC 141
              G   L +  I   DFD    +    +V++ K  L        L       Q I    
Sbjct: 112 NATGVGTLGRVFINILDFDFSIDSHINVIVVKNKTYLNPYFLTIFLQSYYGQIQIIRYYS 171

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK-- 199
             +       +      +PI P+  Q+ I+  +      ++       +  E+L  +   
Sbjct: 172 GTSGQIEIYPRDFNYFKIPILPIEFQLEIQNLVKDSHKALEESKELYKKAEEILYLELGL 231

Query: 200 ------QALVSYIVTK--------------------GLNPDVKMKDSGI-EWVGLVPDHW 232
                 Q+L+   +                       L+ +   K   I E + +   + 
Sbjct: 232 DPKNPLQSLLDSKIDHSTKSLNISIRTLKESFLKTGRLDSEYYQKKYEINEKIIMNKKYT 291

Query: 233 EVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES-----YETYQIVD 287
            +    ++   +   +       I  +   N+ Q   +       E      Y       
Sbjct: 292 VLDNLVSITKSIEPGSNLYKNKGIPFIRVANLTQYGLSEADVFLDEKDFFPQYLQILYPK 351

Query: 288 PGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY 347
              I+F           ++  + +                I   YL   + S  +     
Sbjct: 352 KDTILFSKDGSIGVAYCVKEDKEVITSGAILHLNIKDKENILPEYLTLFLNSIFVKLQAQ 411

Query: 348 AMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET-------ARIDVLVEKIEQS 399
               G +    + ED+K++ V +  IK Q  I   I             +D    K+E+ 
Sbjct: 412 RDCGGSIISHWRIEDIKKVLVAILDIKTQEKIAKYIQESFNLRKKSKQLLDNAKIKVEEQ 471

Query: 400 IV 401
           I 
Sbjct: 472 IQ 473



 Score = 48.6 bits (114), Expect = 0.002,   Method: Composition-based stats.
 Identities = 23/171 (13%), Positives = 61/171 (35%), Gaps = 6/171 (3%)

Query: 239 ALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ--IVDPGEIVFRFI 296
             + +  + N++  +      S   +I     RN  +  E+ ++    IV    ++    
Sbjct: 55  EYLGDNMKFNSRYSQPKYDETSKMKVINSQYIRNEYIDYENAKSGYGKIVPKESVLINAT 114

Query: 297 DLQNDKRSLRSAQVMERGIIT--SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL- 353
            +    R   +    +  I +  +  +      ++  +L   ++SY          SG  
Sbjct: 115 GVGTLGRVFINILDFDFSIDSHINVIVVKNKTYLNPYFLTIFLQSYYGQIQIIRYYSGTS 174

Query: 354 -RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
            +  +   D     + + PI+ Q +I N++      ++   E  +++  +L
Sbjct: 175 GQIEIYPRDFNYFKIPILPIEFQLEIQNLVKDSHKALEESKELYKKAEEIL 225


>gi|261494962|ref|ZP_05991431.1| JHP726-like protein [Mannheimia haemolytica serotype A2 str. OVINE]
 gi|261309371|gb|EEY10605.1| JHP726-like protein [Mannheimia haemolytica serotype A2 str. OVINE]
          Length = 224

 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 13/118 (11%), Positives = 35/118 (29%), Gaps = 5/118 (4%)

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR 354
            I                  +  +  +      + + Y+   + S     +F        
Sbjct: 66  TIAGSGAYAGFLMYWNEPIFLGDAFSVKPDLDILITKYVYHFLLSKQ-QWIFNLKKGSGV 124

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
             +  +D+  L + +PP++ Q  I   ++  T     L  ++       +  R + + 
Sbjct: 125 PHVYPKDLAILEIPIPPLEIQQKIVKTLDKFTE----LEAELALRKKQYQYYRETLLT 178



 Score = 54.8 bits (130), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 27/155 (17%), Positives = 51/155 (32%), Gaps = 12/155 (7%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           +  P+    +L  G+T         I  +D   G    +   G  + +  +         
Sbjct: 16  EWKPLGEVAELKRGKT---------ITAKDKTEGNIPVIS--GGQKPAYYTGEYNREGET 64

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           I     G Y    +  +        F V +P   +      +   +   Q I  + +G+ 
Sbjct: 65  ITIAGSGAYAGFLMYWNEPIFLGDAFSV-KPDLDILITKYVYHFLLSKQQWIFNLKKGSG 123

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
           + H   K +  + +PIPPL  Q  I + +   T  
Sbjct: 124 VPHVYPKDLAILEIPIPPLEIQQKIVKTLDKFTEL 158


>gi|207108192|ref|ZP_03242354.1| anti-codon nuclease masking agent (prrB) [Helicobacter pylori
           HPKX_438_CA4C1]
          Length = 191

 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 16/116 (13%), Positives = 44/116 (37%), Gaps = 4/116 (3%)

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID-STYLAWLMRSYDLCKVFYAMGSG 352
             I +     +       ++        +V P     + YL +++ +        +  S 
Sbjct: 12  NTITIAQYGTAGFVNWQNQKFWANDVCFSVIPKETLINRYLYYVLTNMQNYLYSISNRSA 71

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
           +  S+   ++ ++ + +PP++ Q +I  +++  T     L  ++      LK R+ 
Sbjct: 72  IPYSISSNNIMQITIPIPPLEIQQEIVKILDAFTELNTELNTELNTE---LKARKK 124


>gi|150006174|ref|YP_001300918.1| type I restriction endonuclease S subunit [Bacteroides vulgatus
           ATCC 8482]
 gi|149934598|gb|ABR41296.1| type I restriction endonuclease S subunit [Bacteroides vulgatus
           ATCC 8482]
          Length = 358

 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 47/389 (12%), Positives = 116/389 (29%), Gaps = 62/389 (15%)

Query: 24  HWKVVPIKRFT-KLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            W+   ++     + +G+   +       G   +   TG        S   +        
Sbjct: 24  EWENTELQYIAPNICSGKDKPTSN-----GTVALYGSTGIIGMTRLASYNEEI------- 71

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
              +L  ++G    +  I       +   L++  K+    +                +  
Sbjct: 72  ---VLVARVGANAGQLQITTIPCGVTDNTLIINAKEWNRYIYYYLQHYNL-----NRLVF 123

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           G+         +  + +     +E+  I   +     RI T         +L     + L
Sbjct: 124 GSGQPLITGSMLKKLKIIYGEESERNKIVNLLCLLDERIATQNKIIEDLKKLKSAISERL 183

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
                         +K S +           +     +V         L +S    +  G
Sbjct: 184 F-----------KSVKGSTV----------LLSDLCDIVKGKQINGENLSDSGNYYVMNG 222

Query: 263 NIIQKLETRNMGLKPESYETYQIVDP-GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
                    N  ++  +    +  +  G + F      +         + ++        
Sbjct: 223 GTEPSGYYDNYNVEASTISISEGGNSCGYVQFNTSPFWSGGHCYSIQNIADK-------- 274

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
                 +D+ YL   ++S +   +   +GSGL  +++ +D+    ++VP I+ Q  I+  
Sbjct: 275 ------VDNMYLYHYLKSNEDAIMKLRIGSGL-PNIQKKDLAMFKIIVPKIEWQIKISTF 327

Query: 382 INVET--ARIDVLVEK--IEQSIVLLKER 406
           ++     A I+  ++    +Q + LL++ 
Sbjct: 328 LSSLERKAEIEERIQNVMQKQKLYLLQQM 356



 Score = 46.3 bits (108), Expect = 0.010,   Method: Composition-based stats.
 Identities = 14/97 (14%), Positives = 41/97 (42%), Gaps = 9/97 (9%)

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
           G+  +  +        + Y+ + ++ Y+L ++ +      +  +    +K+L ++     
Sbjct: 92  GVTDNTLIINAKEW--NRYIYYYLQHYNLNRLVF---GSGQPLITGSMLKKLKIIYGEES 146

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
           E+  I N++      +D  +    + I  LK+ +S+ 
Sbjct: 147 ERNKIVNLLC----LLDERIATQNKIIEDLKKLKSAI 179


>gi|308063300|gb|ADO05187.1| Type I restriction/modification specificity protein [Helicobacter
           pylori Sat464]
          Length = 423

 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 29/193 (15%), Positives = 67/193 (34%), Gaps = 16/193 (8%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK-------PESYET 282
           DH ++     ++     K TK  E  +   ++ ++           K        ++   
Sbjct: 3   DHVKLSEVCEILNSNVDKKTKENEQKVKLCNFIDVYNNWAITKYTSKKFMTATATQNEIN 62

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA----VKPHGIDSTYLAWLMR 338
              +  G +         +   + +        +   Y           ++  +L   + 
Sbjct: 63  KFSLKKGYVAITKDSETKNDIGISTYIADNFDNVLLGYHCTLLKPNQKVLNGKFLNAYLS 122

Query: 339 SYDLCKVFY--AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID---VLV 393
           S+   K F   A GSG R +L  + +K L + +  I+ Q  I   +++   +I+    + 
Sbjct: 123 SFYGRKYFSNCASGSGQRYTLTIDIIKDLTIPLINIETQQKIVRTLSILDQKIENNHKIN 182

Query: 394 EKIEQSIVLLKER 406
           E + + + LL E+
Sbjct: 183 ELLHKILELLYEQ 195



 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 56/416 (13%), Positives = 115/416 (27%), Gaps = 46/416 (11%)

Query: 28  VPIKRFTKLNTGRTSESGKDI-------IYIGLEDVESGTGKYLPKDGNSRQS--DTSTV 78
           V +    ++      +  K+         +I + +      KY  K   +  +  +    
Sbjct: 5   VKLSEVCEILNSNVDKKTKENEQKVKLCNFIDVYN-NWAITKYTSKKFMTATATQNEINK 63

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDG------ICSTQFLVLQPKDVLPELLQGWLLSID 132
               KG +   K         I+ +        +      +L+P   +            
Sbjct: 64  FSLKKGYVAITKDSETKNDIGISTYIADNFDNVLLGYHCTLLKPNQKVLNGKFLNAYLSS 123

Query: 133 V---TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
                                   I ++ +P+  +  Q  I   +     +I+       
Sbjct: 124 FYGRKYFSNCASGSGQRYTLTIDIIKDLTIPLINIETQQKIVRTLSILDQKIENNHKINE 183

Query: 190 RFIELLKEKKQALVSYI-VTKGLNPDVK-----MKDSGIEWVGLVPDHWEVKPFFALVTE 243
              ++L+   +          G N   +     MK S  E   L+P+ +EVK    LV  
Sbjct: 184 LLHKILELLYEQYFVRFDFLDGNNKPYQTSGGKMKFS-KELNRLIPNDFEVKTLGELVDI 242

Query: 244 LNRKNTKLIESNILSLSYGNIIQK---------LETRNMGLKPESYETYQIVDPGEIVFR 294
            +  + +    +     Y  I  K           T N+   P+    Y +++P  I+  
Sbjct: 243 FSGYSFQSNTYSNNKNDYILITNKNVQHSLVDLSITTNLLFLPKKLPKYCLLEPTNILIT 302

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW-LMRSYDLCKVFYAMG-SG 352
                     + S    +  I+      V P   +     + L+R+     +        
Sbjct: 303 LTGHIGRCALVFS----KNCILNQRVGVVLPKEKELNPFYYSLIRNPLFSAILQRNAIGS 358

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
            +Q+L   D  ++ +          I    +     I  L+    QS   L   R 
Sbjct: 359 SQQNLSPIDTLKIQIPF-----NHKIIKQYSKTCENIIKLLVSNMQSTQTLTALRD 409



 Score = 52.9 bits (125), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 21/158 (13%), Positives = 51/158 (32%), Gaps = 8/158 (5%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTS------ESGKDIIYIGLEDVESGTGKY-LPKDGNSRQS 73
           IP  ++V  +     + +G +        +  D I I  ++V+       +  +      
Sbjct: 227 IPNDFEVKTLGELVDIFSGYSFQSNTYSNNKNDYILITNKNVQHSLVDLSITTNLLFLPK 286

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV-LPELLQGWLLSID 132
                 +     IL    G   R A++   + I + +  V+ PK+  L       + +  
Sbjct: 287 KLPKYCLLEPTNILITLTGHIGRCALVFSKNCILNQRVGVVLPKEKELNPFYYSLIRNPL 346

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLI 170
            +  ++    G++  +        I +P      +   
Sbjct: 347 FSAILQRNAIGSSQQNLSPIDTLKIQIPFNHKIIKQYS 384


>gi|291561051|emb|CBL39851.1| Restriction endonuclease S subunits [butyrate-producing bacterium
           SSC/2]
          Length = 393

 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 48/345 (13%), Positives = 104/345 (30%), Gaps = 25/345 (7%)

Query: 51  IGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLR-----KAIIADFDG 105
           I +   +   GKY     N  Q D     IF    +L  + G          A       
Sbjct: 21  IPITASDRKEGKYPYYGANGIQ-DYVNDYIFDDELVLLAEDGGNFGSKEKPIAYRVSGKC 79

Query: 106 ICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLA 165
             +    VL+PK+ +      + L      +++ +  GAT        +  + +P+  + 
Sbjct: 80  WVNNHAHVLKPKEEIDVDYLCYSLMFY---KVDGMINGATRKKLTQTAMKKMKIPLRNIV 136

Query: 166 EQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWV 225
           EQ  I +++     +I  +  +  + + LL    QA    +    +  D K +   ++ +
Sbjct: 137 EQKKIVQQLN----KIIEIREKAKKELNLLDNLIQARFVELFGDAVYNDKKWETDTVKNL 192

Query: 226 GLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ---KLETRNMGLKPESYET 282
                                      + +I  +S  ++     K     +        T
Sbjct: 193 CKEIYGGGTPSKAHP--------EYYKDGDIPWVSAKDMKTDVLKDSQIKINQLGVDNST 244

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
            ++V    ++         K +L  A       +        P     T    +      
Sbjct: 245 ARLVPVNSVIMVIRSGIL-KHTLPVAVNKVPITVNQDLKVFIPGERILTRFLAVQFKMQE 303

Query: 343 CKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
             +   + +    +++F  +K+  ++VPPI  Q      +     
Sbjct: 304 KDILSGVRAVTADNIEFNSLKQRRMIVPPIDLQQKYLMFLERIDK 348



 Score = 57.1 bits (136), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 26/161 (16%), Positives = 52/161 (32%), Gaps = 6/161 (3%)

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
             L    I   +      K          +    Y   D   ++         K    + 
Sbjct: 14  EILDSMRIPITASDRKEGKYPYYGANGIQDYVNDYIFDDELVLLAEDGGNFGSKEKPIAY 73

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVL 368
           +V  +  + +    +KP       + +L  S    KV   +    R+ L    +K++ + 
Sbjct: 74  RVSGKCWVNNHAHVLKPKEEI--DVDYLCYSLMFYKVDGMINGATRKKLTQTAMKKMKIP 131

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
           +  I EQ  I   +N    +I  + EK ++ + LL     +
Sbjct: 132 LRNIVEQKKIVQQLN----KIIEIREKAKKELNLLDNLIQA 168



 Score = 48.3 bits (113), Expect = 0.003,   Method: Composition-based stats.
 Identities = 22/187 (11%), Positives = 51/187 (27%), Gaps = 12/187 (6%)

Query: 25  WKVVPIKRFT-KLNTGRTSES-------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           W+   +K    ++  G T            DI ++  +D+++   K      N    D S
Sbjct: 184 WETDTVKNLCKEIYGGGTPSKAHPEYYKDGDIPWVSAKDMKTDVLKDSQIKINQLGVDNS 243

Query: 77  TVSIFAKGQILYGKLGPYLR---KAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
           T  +     ++       L+      +       +    V  P + +          +  
Sbjct: 244 TARLVPVNSVIMVIRSGILKHTLPVAVNKVPITVNQDLKVFIPGERILTRFLAVQFKMQE 303

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
              I +     T  + ++  +    M +PP+  Q      +         +         
Sbjct: 304 KD-ILSGVRAVTADNIEFNSLKQRRMIVPPIDLQQKYLMFLERIDKSKFVIHKFLYCTTH 362

Query: 194 LLKEKKQ 200
             K   +
Sbjct: 363 NTKSIIK 369


>gi|307945077|ref|ZP_07660413.1| type I restriction-modification system specificity subunit
           [Roseibium sp. TrichSKD4]
 gi|307770950|gb|EFO30175.1| type I restriction-modification system specificity subunit
           [Roseibium sp. TrichSKD4]
          Length = 357

 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 19/127 (14%), Positives = 43/127 (33%), Gaps = 11/127 (8%)

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
           S+     V    I+                   +     +   +   +G +  ++ + ++
Sbjct: 47  SWHNEAKVQGPGIIIGRKGTLGS----VHYSDGDYWPHDTTLWSKSLNGNNPRFVYFALK 102

Query: 339 SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
              L +       G   +L    +  LP+ +P    Q  I ++++      D L+E   +
Sbjct: 103 CLGLERF---NVGGANPTLNRNHIHGLPIHLPERDAQDRIVSILST----YDDLIENNRR 155

Query: 399 SIVLLKE 405
            I LL+E
Sbjct: 156 RIALLEE 162



 Score = 53.6 bits (127), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 44/399 (11%), Positives = 90/399 (22%), Gaps = 49/399 (12%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           KHW    ++    L  G                 +   G+      +   S  +   +  
Sbjct: 8   KHWAPAVLQDLVFLQRGFDITKA-----------QQKKGEVPVFSSSGLSSWHNEAKVQG 56

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
            G I+ G+ G                T           P  +   L  + +    E    
Sbjct: 57  PG-IIIGRKGTLGSVHYSDGDYWPHDTTLWSKSLNGNNPRFVYFALKCLGL----ERFNV 111

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           G      +   I  +P+ +P    Q  I   +      I+          E  +   +  
Sbjct: 112 GGANPTLNRNHIHGLPIHLPERDAQDRIVSILSTYDDLIENNRRRIALLEEAARLLYREW 171

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
             ++   G            + +    +         L      K    +E         
Sbjct: 172 FVHLRFPG-----HEHIPITDGLPEGWERRTFGKVAELKYGKALKKENRVEGPFPVYGSS 226

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
            I+                         +V     +   K ++ S             + 
Sbjct: 227 GIVG-------------------THQKALVEGPTIIIGRKGNVGSVFWSPADFWPIDTVY 267

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
             P      +L   + S                 L  +      ++ P  KE+       
Sbjct: 268 FIPKDQADFWLYLALPSAGFQN-----TDAGVPGLNRDFAYSRKLVQP--KERLR--RHF 318

Query: 383 NVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           N     +     ++E     L + R   +   + G+I +
Sbjct: 319 NEAVEPMFAQRARLEAYNEKLSQARDLLLPRLMNGEITV 357



 Score = 45.2 bits (105), Expect = 0.023,   Method: Composition-based stats.
 Identities = 19/115 (16%), Positives = 35/115 (30%), Gaps = 14/115 (12%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           +P+ W+     +  +L  G+  +    +            G + P  G+S    T   ++
Sbjct: 189 LPEGWERRTFGKVAELKYGKALKKENRV-----------EGPF-PVYGSSGIVGTHQKAL 236

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
                I+ G+ G                T + +  PKD     L   L S     
Sbjct: 237 VEGPTIIIGRKGNVGSVFWSPADFWPIDTVYFI--PKDQADFWLYLALPSAGFQN 289


>gi|300214619|gb|ADJ79035.1| Type I restriction-modification system specificity subunit
           [Lactobacillus salivarius CECT 5713]
          Length = 143

 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 15/104 (14%), Positives = 34/104 (32%), Gaps = 7/104 (6%)

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
               + + +        D  ++  L +  +  +      S    SL    +  +   VP 
Sbjct: 31  PFWTVDTLFYCTSKENSDVKFIYLLFQIINWKRYDE---STGVPSLSKNTISNIKTYVPK 87

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           IKEQ    + I+     +D  ++  E+    L   + + +    
Sbjct: 88  IKEQ----DYISKLFFSLDNTLQLHERKYEELTLIKKALLQKLF 127


>gi|321310234|ref|YP_004192563.1| type I restriction-modification system, S subunit [Mycoplasma
           haemofelis str. Langford 1]
 gi|319802078|emb|CBY92724.1| type I restriction-modification system, S subunit [Mycoplasma
           haemofelis str. Langford 1]
          Length = 185

 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 25/182 (13%), Positives = 59/182 (32%), Gaps = 8/182 (4%)

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNM--GLKPESYETYQIVDPGEIVFR 294
              +   +N K++   +  I  L    +   L +  +      E      +V  G+IV  
Sbjct: 9   ICKVYVGVNFKDSDYKKFGIPVLKASGVNDGLTSEEVAFYCSSEKAFNESLVSFGDIVVT 68

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR 354
                       +   +     +  +       I S    +        ++   + SG  
Sbjct: 69  GGASSGKVGI--NLTDINYLPTSKIFKLEPDPSIVSKKYLYYFLLNSSREINSHITSGNA 126

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAA 414
            +L    + ++ VLVP ++ Q  I   ++      + L  +  Q +      R+  +++ 
Sbjct: 127 TNLYKSSLLKIRVLVPDLETQDRIVRYLDKFRELREELRMRKSQGVY----YRNKIMSSL 182

Query: 415 VT 416
           +T
Sbjct: 183 LT 184


>gi|158337895|ref|YP_001519071.1| hypothetical protein AM1_4782 [Acaryochloris marina MBIC11017]
 gi|158308136|gb|ABW29753.1| conserved hypothetical protein [Acaryochloris marina MBIC11017]
          Length = 133

 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 22/136 (16%), Positives = 45/136 (33%), Gaps = 8/136 (5%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESG-KDIIYIGLEDVESG 59
           M  +  +  Y+DS V W+  +P HW+V   + + +    +   +  K ++ +    +   
Sbjct: 1   MLTFPKHETYQDSQVSWLNEVPNHWRVELGRNYLRPKNVKNIGNHVKTVLSLSYGKIV-- 58

Query: 60  TGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGP----YLRKAIIADFDGICSTQFLVLQ 115
             K   K          T  I   G I+             +  +    GI ++ +L L 
Sbjct: 59  -IKPKEKLHGLVPESFETYQIVEPGDIIVRATDLQNDRTSLRIGLVQDHGIITSAYLCLS 117

Query: 116 PKDVLPELLQGWLLSI 131
           P   +        +  
Sbjct: 118 PSKQIDPRFTYMHMIC 133



 Score = 54.8 bits (130), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 51/124 (41%), Positives = 71/124 (57%)

Query: 213 PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
                +DS + W+  VP+HW V+     +   N KN       +LSLSYG I+ K + + 
Sbjct: 6   KHETYQDSQVSWLNEVPNHWRVELGRNYLRPKNVKNIGNHVKTVLSLSYGKIVIKPKEKL 65

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
            GL PES+ETYQIV+PG+I+ R  DLQND+ SLR   V + GIITSAY+ + P       
Sbjct: 66  HGLVPESFETYQIVEPGDIIVRATDLQNDRTSLRIGLVQDHGIITSAYLCLSPSKQIDPR 125

Query: 333 LAWL 336
             ++
Sbjct: 126 FTYM 129


>gi|187476872|ref|YP_784896.1| type I restriction-modification system specificity determinant
           (partial) [Bordetella avium 197N]
 gi|115421458|emb|CAJ47964.1| putative type I restriction-modification system specificity
           determinant (partial) [Bordetella avium 197N]
          Length = 48

 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 21/43 (48%), Positives = 30/43 (69%)

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
           + ++ E A++D L    E++I LL  RRS+ IAAAVTG ID+R
Sbjct: 3   SFLDREIAKLDKLKPDSERAIALLAARRSALIAAAVTGHIDVR 45


>gi|188527246|ref|YP_001909933.1| hypothetical protein HPSH_02265 [Helicobacter pylori Shi470]
 gi|188143486|gb|ACD47903.1| hypothetical protein HPSH_02265 [Helicobacter pylori Shi470]
          Length = 371

 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 53/349 (15%), Positives = 111/349 (31%), Gaps = 24/349 (6%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDV-ESGTGKYLPKDGNSRQSDTSTVSIFAKGQI 86
             ++ +  L    T +S +   YI   ++ ++  G    K+ N  Q    +   F K  +
Sbjct: 3   KTLQDYATLIND-TIQSNEINHYITTANMCQNLGGIDTFKNINIPQGKVRS---FQKDDV 58

Query: 87  LYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATM 146
           L   + P+ R+  +A   G CS+  LV + K +    L   L S      +     G+  
Sbjct: 59  LLSNIDPWHRQVYMAKQKGGCSSDVLVFRAKHIDSATLFAILSSQSFINYLCLGSVGSKR 118

Query: 147 SHADWKGIGNIPMPIPPLAEQVLIREKIIAE--TVRIDTLITERIRFIELLKEKKQALVS 204
              D   + +  +P        +            +I+ ++ + +  +      +   + 
Sbjct: 119 KRGDKTHMMDFKIPTINFTIAKIFNSIQNKIENNHKINEILHKILELLYEQYFVRFDFLD 178

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
                      KMK S  E   L+P+ +EVK    L                   S    
Sbjct: 179 ENNKPYQTSGGKMKFS-KELNRLIPNDFEVKTLGELTQLKVGNKNANHS------SNQGK 231

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
                  N  L+ E+Y+     +   I+                   +R  + S      
Sbjct: 232 YPFFTCSNNPLRCETYQ----FEGKHIIISGNGNFYVTHYDGKFDAYQRTYVVS------ 281

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
           P+  +   L +L        +       + + +   D++ + +++P +K
Sbjct: 282 PNNPNHYVLIYLFVKSYTNYLKLQSRGSIIKFITKSDIEDIKIVLPNLK 330


>gi|315586429|gb|ADU40810.1| type I restriction-modification enzyme, S subunit [Helicobacter
           pylori 35A]
          Length = 368

 Score = 58.7 bits (140), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 48/382 (12%), Positives = 113/382 (29%), Gaps = 53/382 (13%)

Query: 43  ESGKDIIYIGLEDVESGTGK-YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIA 101
           ++ K + Y+  +++ +     +L  D    +  +      +   I+Y  + P  R   I 
Sbjct: 24  DNYKKVCYLDTDNITNNRINAFLKIDLTKEKLPSRAKRKCSLNSIIYSSVRPNQRHFGII 83

Query: 102 DF---DGICSTQFLVLQP---KDVLPELLQGWLLSIDVTQRIEAI--CEGATMSHADWKG 153
                + + ST F+V+     + + P  L  ++    +T  ++ I  C  ++        
Sbjct: 84  KEIPKNFLVSTAFIVIDIIDLEKLDPNYLYYYITQDKITHYLQRIAECGTSSYPSITPLD 143

Query: 154 IGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNP 213
             NI + + PL  Q  I   +     +I+                               
Sbjct: 144 FLNIKIKLYPLETQQKIARTLSILDKKIENNHKINELL---------------------- 181

Query: 214 DVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNM 273
                            H      +    +   KN KL +  I +     +++  +    
Sbjct: 182 -----------------HTLAYKIYEYYFKYKPKNAKLEQIIIENPKSSIMVKNAQKTQD 224

Query: 274 GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL 333
                +     +  P  I+       N   +      + +   ++    +  +   S YL
Sbjct: 225 KYPFFTSGDNILSYPQAIIDGRNCFLNTGGNAGIKFYVGKASYSTDTWCICANEF-SDYL 283

Query: 334 AWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
             L+ S               + L+   +K+ P+ +P   E      +I         L+
Sbjct: 284 YLLLSSIKTHINQSFFQGTSLKHLQKNLLKKYPIYMPSAHEIKKFNQIIMPLL----TLI 339

Query: 394 EKIEQSIVLLKERRSSFIAAAV 415
               ++   L++ R   +   +
Sbjct: 340 SINTRTSKKLEQIRDFLLPLLL 361



 Score = 52.1 bits (123), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 18/160 (11%), Positives = 60/160 (37%), Gaps = 10/160 (6%)

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID 297
                E N K    ++++ ++ +  N   K++     L   +     +     I++  + 
Sbjct: 18  NNYTKEDNYKKVCYLDTDNITNNRINAFLKIDLTKEKLPSRAKRKCSL---NSIIYSSVR 74

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKP---HGIDSTYLAWLMRSYDLCKVFYAM---GS 351
                  +   ++ +  ++++A++ +       +D  YL + +    +      +   G+
Sbjct: 75  PNQRHFGIIK-EIPKNFLVSTAFIVIDIIDLEKLDPNYLYYYITQDKITHYLQRIAECGT 133

Query: 352 GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
               S+   D   + + + P++ Q  I   +++   +I+ 
Sbjct: 134 SSYPSITPLDFLNIKIKLYPLETQQKIARTLSILDKKIEN 173


>gi|300214621|gb|ADJ79037.1| Type I restriction-modification system specificity subunit
           [Lactobacillus salivarius CECT 5713]
          Length = 352

 Score = 58.3 bits (139), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 19/170 (11%), Positives = 44/170 (25%), Gaps = 11/170 (6%)

Query: 247 KNTKLIESNILSLSYGNIIQKLE-TRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
           K+       I     G    K +         E  + Y     G ++             
Sbjct: 7   KDETSTIGEIPFYKIGTFGGKADAFITRKKYEEYKKKYPYPQKGNLLISASGSIGRII-- 64

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRL 365
                 E      + +       D+T L   ++       +  +     + L  +++   
Sbjct: 65  --EYNGEEAYYQDSNIVWL--DHDNTILDVFLKPTYEIIKWDGIEGTTIKRLYNKNILNT 120

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            +  P I EQ  I          ++  ++  E+    L   + + +    
Sbjct: 121 VIYKPTIDEQRKIG----KLFIILNNTIQLHERKYEELTLIKKALLQKLF 166



 Score = 55.6 bits (132), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 44/356 (12%), Positives = 97/356 (27%), Gaps = 32/356 (8%)

Query: 43  ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD 102
            +  +I +  +         ++ +                KG +L    G   R      
Sbjct: 11  STIGEIPFYKIGTFGGKADAFITRKKYEEYKKKYPYP--QKGNLLISASGSIGRIIEYNG 68

Query: 103 FDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIP 162
            +       +V          +    L            EG T+     K I N  +  P
Sbjct: 69  EEAYYQDSNIVW---LDHDNTILDVFLKPTYEIIKWDGIEGTTIKRLYNKNILNTVIYKP 125

Query: 163 PLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGI 222
            + EQ  I +  I     I     +              L+   + + L P        +
Sbjct: 126 TIDEQRKIGKLFIILNNTIQLHERKYEELT---------LIKKALLQKLFPKKDXFKPEV 176

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET 282
            +     D WE +    ++   ++            +  GN          G   +  + 
Sbjct: 177 RYKNFX-DAWEQRKLGEVIISEHKGK------VKSIMKGGNTNYLETNYLNGGTAQKVDA 229

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
              V   +++  +           +      G + S   A  P    S    + +   + 
Sbjct: 230 IADVSKDDVLILWDGS-----KAGTIYHGFEGALGSTLKAYVPKY--SGDFLYQILKKNQ 282

Query: 343 CKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
            K++ +  +     +     ++  V +P I EQ +I +       ++D L+   ++
Sbjct: 283 DKIYQSYRTPNIPHVIKNFTEKFNVSIPTIIEQQEIGDF----FKQLDSLIALHQR 334



 Score = 37.1 bits (84), Expect = 5.8,   Method: Composition-based stats.
 Identities = 24/182 (13%), Positives = 49/182 (26%), Gaps = 18/182 (9%)

Query: 25  WKVVPIKR-FTKLNTGRTSE--SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           W+   +       + G+      G +  Y+    +  GT + +    +            
Sbjct: 185 WEQRKLGEVIISEHKGKVKSIMKGGNTNYLETNYLNGGTAQKVDAIAD-----------V 233

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
           +K  +L    G          F+G   +      PK         + +      +I    
Sbjct: 234 SKDDVLILWDGSKAGTI-YHGFEGALGSTLKAYVPKY---SGDFLYQILKKNQDKIYQSY 289

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
               + H          + IP + EQ  I +        I     +  +  +L K   Q 
Sbjct: 290 RTPNIPHVIKNFTEKFNVSIPTIIEQQEIGDFFKQLDSLIALHQRKLEKLKQLKKFLLQN 349

Query: 202 LV 203
           + 
Sbjct: 350 MF 351


>gi|258646664|ref|ZP_05734133.1| putative type I restriction enzyme [Dialister invisus DSM 15470]
 gi|260404085|gb|EEW97632.1| putative type I restriction enzyme [Dialister invisus DSM 15470]
          Length = 420

 Score = 58.3 bits (139), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 53/388 (13%), Positives = 109/388 (28%), Gaps = 26/388 (6%)

Query: 51  IGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQ 110
           I   + E    +      +    +    S      IL  K+       I+ D     +  
Sbjct: 44  IRTLNFERQDFRDELLYVDEDAYNFLEKSKVLPNDILMNKIANPGSVYIMPDLGCPVTCG 103

Query: 111 FLVLQPKDVLP-ELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVL 169
             +   +          +    +V   I++   G T        +  I +       Q  
Sbjct: 104 MNLFLIRFNNQVNQRYMYYNMKNVEPYIKSFSHGTTTKTITKDDVRGIEVYFHSKPMQDS 163

Query: 170 IREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPD---VKMKDSGIEWVG 226
           I   +      ID  I      I  L    + L  Y   +   PD      K  G E++ 
Sbjct: 164 IANFL----TLIDDKIQNNKNIIYTLSRTIKLLYDYWFIQFDFPDKDGKPYKSHGGEFIY 219

Query: 227 ------LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
                  +P+ W        +T       ++   N L     N    +   ++    E Y
Sbjct: 220 SSLLKRNIPEGWTELSLGKRLTFERG--VEIGSDNYLVEKQENSAPFIRVSDLNGSSEIY 277

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW-LMRS 339
               ++D   +  + I +  D    +    +  G  T            +  L + ++ S
Sbjct: 278 AKMDLLDGKLLAPQDICVSLDGTVGKVDYALYGGYSTGIRKVYDEKAEINNSLIFAILTS 337

Query: 340 YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
             +  V     +G       E V  + +     +       +I     +    + K++  
Sbjct: 338 DYIQYVIEKYATGSNILHASEAVNHMDIPY-SKEVYGQFQKLITPMFEK----MIKVKLE 392

Query: 400 IVLLKERRSSFIAAAVTGQI----DLRG 423
              L+  ++  +   + GQ+    D+R 
Sbjct: 393 NEKLQNYKNLILPMLMNGQVIFGEDIRD 420


>gi|265763430|ref|ZP_06091998.1| HsdS [Bacteroides sp. 2_1_16]
 gi|263256038|gb|EEZ27384.1| HsdS [Bacteroides sp. 2_1_16]
          Length = 424

 Score = 58.3 bits (139), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 46/388 (11%), Positives = 104/388 (26%), Gaps = 57/388 (14%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGK-DIIYIGLEDVESGTG--------KYLPKDGNSRQS 73
           + W++  +       +  +    + +     + ++  G               +  + + 
Sbjct: 52  EEWEICKVSELLDFYSTNSLSWEQLEYGTKAIMNLHYGLIHVGLPTMVDLTRDNLPNIKE 111

Query: 74  DT--STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVL---------QPKDVLPE 122
           D       +  +G + +        +          + + +V               +  
Sbjct: 112 DNMPKNFELCKEGDVAFADASEDTNEVAKPIEFFDLAGKNIVCGLHTIHGRDNKNKTVIG 171

Query: 123 LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
                  S     +I  I +G  +     K      + IP   EQ  I   +     RI 
Sbjct: 172 FKGYAFSSSAFHNQIRRIAQGTKIYSISTKNFSECFIGIPSKVEQTKIATLLRLIDERIA 231

Query: 183 TLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVT 242
           T           + EK Q+L+     KGL      +  G        ++  +     +  
Sbjct: 232 TQ--------NKIIEKLQSLI-----KGLRVCCMQRVYG--------NNVYLSEIAQIYQ 270

Query: 243 ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK 302
                +T+L E   L      II K +  N   +                   I  + + 
Sbjct: 271 PQTISSTELTEDGFLVYGANGIIGKYKDYNHETEQI----------------CITCRGNT 314

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDV 362
             + +       I  +A +       D     +L            +    +  +    +
Sbjct: 315 CGMVNYTKPMSWITGNAMVINTDKYQDKVCKRYLYHYLSAYNFNSIISGSGQPQIVRTPL 374

Query: 363 KRLPVLVPPIKEQFDITNVINVETARID 390
           ++L + +P I EQ     + +    +ID
Sbjct: 375 EKLKITLPTISEQKQKAIIFDKIQDKID 402


>gi|332673347|gb|AEE70164.1| type I restrictionenzyme [Helicobacter pylori 83]
          Length = 169

 Score = 58.3 bits (139), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 12/95 (12%), Positives = 37/95 (38%), Gaps = 1/95 (1%)

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID-STYLAWLMRSYDLCKVFYAMGSG 352
             I +     +       ++        +V P     + YL +++ +        +  S 
Sbjct: 65  NTITIAQYGTAGFVNWQNQKFWANDVCFSVIPKETLINRYLYYVLTNMQNYLYSISNRSA 124

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           +  S+   ++ ++ + +PP++ Q +I  +++  T 
Sbjct: 125 ILYSISSNNIMQIKIPIPPLEIQQEIVKILDAFTE 159



 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 25/162 (15%), Positives = 45/162 (27%), Gaps = 11/162 (6%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           PK  +   +    ++  G+     + +            GKY    G             
Sbjct: 13  PKGVEFRKLGEVCEIIRGKRVTKKEIL----------DKGKYPVVSGGIGFMGYLNEYNR 62

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            +  I   + G         +     +     + PK+ L      ++L+           
Sbjct: 63  EENTITIAQYGT-AGFVNWQNQKFWANDVCFSVIPKETLINRYLYYVLTNMQNYLYSISN 121

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
             A +       I  I +PIPPL  Q  I + + A T     
Sbjct: 122 RSAILYSISSNNIMQIKIPIPPLEIQQEIVKILDAFTELNTE 163


>gi|257458426|ref|ZP_05623567.1| type I restriction-modification system, S subunit [Treponema
           vincentii ATCC 35580]
 gi|257444174|gb|EEV19276.1| type I restriction-modification system, S subunit [Treponema
           vincentii ATCC 35580]
          Length = 185

 Score = 58.3 bits (139), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 21/171 (12%), Positives = 48/171 (28%), Gaps = 9/171 (5%)

Query: 231 HWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVD--- 287
                          +   +  E  ++S    N     +  N+    +     + +    
Sbjct: 18  GRICDKLIDGDHNPPKGIEEKTEYIMVSSRNINYNTVADLENVRYLTKEMFEAENLRTNA 77

Query: 288 -PGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF 346
             G+I+F  +                  I     +++    I + YL +   S       
Sbjct: 78  TAGDILFTSVGSLGR----SCIYDGSLNICFQRSVSILKTAIYNKYLKFFFDSKFYQNYV 133

Query: 347 YAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
               +G  +     +++    + +PPI EQ  I   I      +D +   +
Sbjct: 134 VEHATGTAQTGFYLQEMAESFIAIPPILEQKRIAAKIEELFNALDKIQNNL 184



 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 30/170 (17%), Positives = 56/170 (32%), Gaps = 9/170 (5%)

Query: 23  KHWKVVPIKRFT-KLNTG-----RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           K W+   + R   KL  G     +  E   + I +   ++   T   L       +    
Sbjct: 10  KSWQWTKLGRICDKLIDGDHNPPKGIEEKTEYIMVSSRNINYNTVADLENVRYLTKEMFE 69

Query: 77  TVSI---FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
             ++      G IL+  +G   R  I      IC  + + +    +  + L+ +  S   
Sbjct: 70  AENLRTNATAGDILFTSVGSLGRSCIYDGSLNICFQRSVSILKTAIYNKYLKFFFDSKFY 129

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
              +     G   +    + +    + IPP+ EQ  I  KI      +D 
Sbjct: 130 QNYVVEHATGTAQTGFYLQEMAESFIAIPPILEQKRIAAKIEELFNALDK 179


>gi|303260413|ref|ZP_07346382.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP-BS293]
 gi|302638448|gb|EFL68914.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP-BS293]
          Length = 357

 Score = 58.3 bits (139), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 35/368 (9%), Positives = 103/368 (27%), Gaps = 27/368 (7%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V +     L  G+ +    +   +    ++    +       +   + +         
Sbjct: 2   KKVKLGEVLSLKKGKKATVLAEQTTLSQRYIQIDDLRNNNNLKFTESLNMTEAL---PDD 58

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW--LLSIDVTQRIEAICEG 143
           IL    G             + ST  ++ + +    +++  +  +     +Q +     G
Sbjct: 59  ILIAWDGANAGTVGYGLSGAVGSTITVLKKNERYKEKIISDYLGVFLESKSQYLRDHSTG 118

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           AT+ H +   + ++ + +  + EQ  I   +      I     +                
Sbjct: 119 ATIPHLNKNILLDLQLELLGIEEQENIICILNTIKRLITKRKFQLDELNL---------- 168

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
                  L      +  G   +    D+              + +    E   L L+  N
Sbjct: 169 -------LVKSRFNEMFGENKIFESIDNLFDIIDGDRGKNYPKSDELFSEEYCLFLNTKN 221

Query: 264 IIQKLETRN----MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
           + +   + +    +    +       ++  +IV        +          +   I S 
Sbjct: 222 VTKNGFSFDTKQFITKTKDKLLRKGKLERYDIVLTTRGTVGNVAYYDELIKYKHLRINSG 281

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
            + ++P   +     +++           +    +  L    +K++ + +PP+  Q +  
Sbjct: 282 MVILRPKTPNLNQ-KFIIHVLRNNNYSRVISGSAQPQLPITKLKKILLPLPPLALQNEFA 340

Query: 380 NVINVETA 387
           + +     
Sbjct: 341 DFVAQVDK 348


>gi|220911868|ref|YP_002487177.1| hypothetical protein Achl_1095 [Arthrobacter chlorophenolicus A6]
 gi|219858746|gb|ACL39088.1| conserved hypothetical protein [Arthrobacter chlorophenolicus A6]
          Length = 401

 Score = 58.3 bits (139), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 41/422 (9%), Positives = 116/422 (27%), Gaps = 55/422 (13%)

Query: 27  VVPIKRFTKLNTGRTSES---GKDIIY---IGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
             P+  + ++  G          D  +   +   +   G G +      +   +      
Sbjct: 6   TRPLSSYIRIKHGFAFPGTGFSDDPSFPTLVTPGNFAIGGG-FKGTKTKTYSGEYPPEYK 64

Query: 81  FAKGQILYGKLG------PYLRKAIIADFDGICSTQF-LVLQPKDVLPELLQGWL-LSID 132
            + G ++                AI+ + + + + +  LV      +      +   +  
Sbjct: 65  LSPGDLMVSMTDLSKEGDTLGLPAIVPEGNFLHNQRIGLVEIIDPNVDSRFLSYFLRTDS 124

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
               I A   G+T+ H     IG     +P L  Q  I E + A   +I           
Sbjct: 125 YRAHILATASGSTVRHTSPSRIGAFETCLPSLNAQRSIAEVLGALDDKIAANTRISAISS 184

Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
           +L         + + ++ ++  ++    G        + W     +A   ++   +  ++
Sbjct: 185 DLAGLLYDREAARVESQPMSKVLRPILGGTPARSKGEEFWGGARLWASAKDITGADFGVV 244

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
                               +  +       + +  G ++            L       
Sbjct: 245 T--------------DTAEKITDRAVDTTKAKALPSGSVILTARGTVGTVGRLAV----- 285

Query: 313 RGIITSAYMAVKPHGIDSTYLAW-LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
                 +     P  + +  L + ++R+ +  K        +  ++  +    L V    
Sbjct: 286 PASFNQSCYGFVPGLVPAAVLYFGVLRATERAKEI--AHGSVFDTITMKTFDHLSVP--- 340

Query: 372 IKEQFDITNVINVETARIDVL-------VEKIEQSIVLLKERRSSFIAAAVTGQIDLRGE 424
                   +  + E A  + +       +         L   R + +   ++G++ ++  
Sbjct: 341 --------DFNSTELATTEAILGPLMDSITAAVVQNSTLAATRDALLPQLMSGKLRVKDA 392

Query: 425 SQ 426
            +
Sbjct: 393 EK 394


>gi|149025497|ref|ZP_01836433.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae SP23-BS72]
 gi|147929447|gb|EDK80443.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae SP23-BS72]
          Length = 166

 Score = 58.3 bits (139), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 16/69 (23%), Positives = 30/69 (43%), Gaps = 4/69 (5%)

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSS 409
            ++L  + V  + + +PP+ EQ  I   I     ++D   E   +   L KE     + S
Sbjct: 1   MKNLNSDKVASILIPLPPLSEQQRIIEAIESALEKVDEYAESYNRLEQLDKEFPDKLKKS 60

Query: 410 FIAAAVTGQ 418
            +  A+ G+
Sbjct: 61  ILQYAMQGK 69


>gi|139438173|ref|ZP_01771726.1| Hypothetical protein COLAER_00714 [Collinsella aerofaciens ATCC
           25986]
 gi|133776370|gb|EBA40190.1| Hypothetical protein COLAER_00714 [Collinsella aerofaciens ATCC
           25986]
          Length = 226

 Score = 58.3 bits (139), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/182 (9%), Positives = 54/182 (29%), Gaps = 11/182 (6%)

Query: 225 VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ 284
           +G   +  +                + +    + + + + +    +    +  ++     
Sbjct: 34  LGDCFEFLKNNTLSRAGLNGENGTARNVHYGDILIKFDDCLDGERSDLPFITDDTVLPKF 93

Query: 285 ---IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST---YLAWLMR 338
              I+  G+++F               + + +    S    +           YL   + 
Sbjct: 94  AGSILREGDVIFADTAEDEAAGKCVELRKLPKEPTISGLHTIPARPRFPFGTGYLGHYLN 153

Query: 339 SYDLCKVFYAMGSGLRQ-SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
           S    +    +  G++  S+    ++   V  P + EQ  I   +    + ID L+   +
Sbjct: 154 SDAYHRQLLPLMQGIKVISVSKAALQDTQVRFPGLSEQTAIGAAL----SEIDTLITLHQ 209

Query: 398 QS 399
           + 
Sbjct: 210 RE 211



 Score = 38.6 bits (88), Expect = 1.8,   Method: Composition-based stats.
 Identities = 24/200 (12%), Positives = 52/200 (26%), Gaps = 22/200 (11%)

Query: 23  KHWKVVPIKRFTKLNTGRTSES-------------GKDIIYIGLEDVESGTGKYLPKDGN 69
             W+   +    +     T                    I I  +D   G    LP   +
Sbjct: 27  SSWEQRKLGDCFEFLKNNTLSRAGLNGENGTARNVHYGDILIKFDDCLDGERSDLPFITD 86

Query: 70  SRQSDTSTVSIFAKGQILYGKL------GPYLRKAIIADFDGICSTQFLVLQPKDVLPEL 123
                    SI  +G +++         G  +    +     I     +  +P+      
Sbjct: 87  DTVLPKFAGSILREGDVIFADTAEDEAAGKCVELRKLPKEPTISGLHTIPARPRFPFGTG 146

Query: 124 LQ-GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI- 181
               +L S    +++  + +G  +       + +  +  P L+EQ  I   +      I 
Sbjct: 147 YLGHYLNSDAYHRQLLPLMQGIKVISVSKAALQDTQVRFPGLSEQTAIGAALSEIDTLIT 206

Query: 182 -DTLITERIRFIELLKEKKQ 200
                           ++ Q
Sbjct: 207 LHQREPPHTMKEGKNVDQHQ 226


>gi|77414974|ref|ZP_00791063.1| type I restriction enzyme S protein (hsdS) [Streptococcus
           agalactiae 515]
 gi|77158974|gb|EAO70196.1| type I restriction enzyme S protein (hsdS) [Streptococcus
           agalactiae 515]
          Length = 127

 Score = 58.3 bits (139), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/101 (17%), Positives = 36/101 (35%), Gaps = 10/101 (9%)

Query: 14  GVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDV----ESGTGKY 63
            V+    IP+ W  V ++    + +G T +S +      +I +I   D+     +     
Sbjct: 21  EVEVPYEIPESWNWVKLRNIGSITSGGTPKSSEPSYYGGNITWITPADMGKQQNNKFFAK 80

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFD 104
             K         S+  + +K  I+Y    P     I+ +  
Sbjct: 81  SSKKITELGLQKSSAQLISKNSIVYSSRAPIGHINIVTEDY 121


>gi|225873159|ref|YP_002754618.1| type I restriction-modification system, S subunit [Acidobacterium
           capsulatum ATCC 51196]
 gi|225791214|gb|ACO31304.1| type I restriction-modification system, S subunit [Acidobacterium
           capsulatum ATCC 51196]
          Length = 429

 Score = 58.3 bits (139), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 60/417 (14%), Positives = 126/417 (30%), Gaps = 44/417 (10%)

Query: 38  TGRTSESG-KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS--IFAKGQILYGKLGPY 94
            G+T       +  I  + V+ G     PK+  +       +   +  +  +L     P 
Sbjct: 21  RGKTPPKTASGVRLITAKVVKGGQILEEPKEFIAEDFYDEWMRRGLPQELDVLLTTEAPL 80

Query: 95  LRKAIIADFDGIC-STQFLVLQPKDV--LPELLQGWLLSIDVTQRIEAICEGATMSHADW 151
              AI+ D   I  + + ++L+ K     P  L   L S      ++A   G T+     
Sbjct: 81  GETAILRDKTRIALAQRIILLRAKREVVDPLFLFYALQSDFAQSELKARASGTTVLGIKQ 140

Query: 152 KGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGL 211
             +  + +P+  L+ Q+ I   +      I+              +  + L         
Sbjct: 141 SELRRVRIPLFSLSAQLKIGSILATYDELIENNQRRIRILE----QMARRLYREWFVHFR 196

Query: 212 NPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK---- 267
            P  +        +G +P  WEV+    L+            ++        +I+     
Sbjct: 197 FPGHENHPRVPSPLGEIPQGWEVRNLECLMVHQIGGGWGKDVADDTYTEPAWVIRGTDIP 256

Query: 268 ------LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV---------ME 312
                 +++        S    + +  G+IVF        +   R+  +          +
Sbjct: 257 GARSAQVDSVPYRYHTLSNLRSRRLQAGDIVFEVSGGSKGQPVGRTLLITPELLSAFGGD 316

Query: 313 RGIITSAYMAVKPHG--IDSTYLAWLMRSYDLCKVF--YAMGSGLRQSLKFED-VKRLPV 367
             +  S    ++P         L               Y + S    + K+ + +     
Sbjct: 317 DVMCASFCKRIQPDQTAYGPEMLYLSFLEGYESGEIEQYQVQSTGISNFKWTEYIANTLR 376

Query: 368 LVPPIKEQ---FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           +VPP   +    +I   +  E A + +           L+  R   +   ++GQI L
Sbjct: 377 VVPPDSLRKDFQEIVRPLLREVATLGL-------KSANLRRTRDLLLPRLLSGQIKL 426


>gi|170717888|ref|YP_001784942.1| type I restriction enzyme, S subunit [Haemophilus somnus 2336]
 gi|168826017|gb|ACA31388.1| putative type I restriction enzyme, S subunit [Haemophilus somnus
           2336]
          Length = 171

 Score = 58.3 bits (139), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 18/149 (12%), Positives = 49/149 (32%), Gaps = 8/149 (5%)

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKR---SLRSAQVM 311
            I        I  +      L   + E  +++  G++V               + +    
Sbjct: 27  YIHYGDIHRGIANILNDISVLPNITGEYSELLSFGDLVVADASEDYYGVAAPCVINCIYE 86

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVP 370
           +  +     +A++P+     +L +L+ S    +    +G+G    ++  +++       P
Sbjct: 87  QNIVAGLHTIAIRPYKSHHLFLYYLLHSSGFKEYCKKVGTGTKVFAITSKNLLGFESFFP 146

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQS 399
             +EQ  I          +D  +   ++ 
Sbjct: 147 HYEEQQKIGAF----FTALDRYITIHQRK 171



 Score = 37.1 bits (84), Expect = 5.5,   Method: Composition-based stats.
 Identities = 20/149 (13%), Positives = 36/149 (24%), Gaps = 7/149 (4%)

Query: 43  ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKA---- 98
           E      YI   D+  G    L               + + G ++               
Sbjct: 20  EEKTKTKYIHYGDIHRGIANILNDISVLPNITGEYSELLSFGDLVVADASEDYYGVAAPC 79

Query: 99  ---IIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIG 155
               I + + +     + ++P       L   L S    +  + +  G  +     K + 
Sbjct: 80  VINCIYEQNIVAGLHTIAIRPYKSHHLFLYYLLHSSGFKEYCKKVGTGTKVFAITSKNLL 139

Query: 156 NIPMPIPPLAEQVLIREKIIAETVRIDTL 184
                 P   EQ  I     A    I   
Sbjct: 140 GFESFFPHYEEQQKIGAFFTALDRYITIH 168


>gi|332308207|ref|YP_004436058.1| restriction modification system DNA specificity domain protein
           [Glaciecola agarilytica 4H-3-7+YE-5]
 gi|332175536|gb|AEE24790.1| restriction modification system DNA specificity domain protein
           [Glaciecola agarilytica 4H-3-7+YE-5]
          Length = 459

 Score = 58.3 bits (139), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 25/176 (14%), Positives = 62/176 (35%), Gaps = 13/176 (7%)

Query: 243 ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDP------GEIVFRFI 296
           + + K  K +E  I  +    +       +   +  S E +           G+++    
Sbjct: 19  DCDHKTPKAVEMGIPYIGIPQMDNGRINFDAKPRLISEEDFVKWTRKANPTYGDVILSRR 78

Query: 297 DLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA--MGSGLR 354
               +   +   +    G      +  K   +   YL ++++S +             + 
Sbjct: 79  CNSGETVYVPKNRRFALG-QNLVLLRPKGDRLFPEYLRYVVKSKEWWDEVAKYLNPGAIF 137

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
           +SLK  D+ +  V  PP++ Q  I  +++     I+  +E  +Q+   L++   + 
Sbjct: 138 ESLKCADIPKFMVPEPPVEAQKKIVEILSA----IEDRIELNQQTNQTLEQMAQAL 189



 Score = 56.3 bits (134), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 62/478 (12%), Positives = 137/478 (28%), Gaps = 83/478 (17%)

Query: 2   KHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK-DIIYIGLEDVESGT 60
             YK     KD GV+ I                     +T ++ +  I YIG+  +++G 
Sbjct: 3   SKYKK-ASLKDLGVELID-----------------CDHKTPKAVEMGIPYIGIPQMDNGR 44

Query: 61  GKYLPKDGNSRQSDTSTVSIFAK---GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPK 117
             +  K     + D    +  A    G ++  +         +         Q LVL   
Sbjct: 45  INFDAKPRLISEEDFVKWTRKANPTYGDVILSRRCNSGETVYVPKNRRFALGQNLVLLRP 104

Query: 118 DVLPELLQGWLLSIDVTQRI----EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
                  +     +   +      + +  GA         I    +P PP+  Q  I E 
Sbjct: 105 KGDRLFPEYLRYVVKSKEWWDEVAKYLNPGAIFESLKCADIPKFMVPEPPVEAQKKIVEI 164

Query: 174 IIAETVRIDTLITERIRFIELLKEKKQA-------LVSYIVTKGLN-------------- 212
           + A   RI+          ++ +   ++       ++   +  G                
Sbjct: 165 LSAIEDRIELNQQTNQTLEQMAQALFKSWFVHFDPVIDNALAAGNEIPDALQHRVEIRKK 224

Query: 213 ----------------PDVKMKDSGIE--------WVGLVPDHWEVKPFFALVTELNRKN 248
                              ++  S +E          G VP  W+ K     +    R +
Sbjct: 225 AHALQKQKPNIQPLPEATQRLFPSELEHTDEASIGINGWVPKGWQTKSVDECININPRVS 284

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
             L +  +   +    +       M +  ++Y        G+++   I            
Sbjct: 285 --LPKGTLAKFADMKALPTSGYGIMDVIEKNYTGGAKFQQGDVLLARITPCLQNGKTGIV 342

Query: 309 QVMER----GIITSAYMAVKPHGIDSTYLAWLMRSYDLCK---VFYAMGSGLRQSLKFED 361
             M+     G  ++ ++ ++  G   T     +   +  +   +   +GS  RQ ++   
Sbjct: 343 DFMDEDNEIGFGSTEFIVMRRKGGLGTPFISCLARDENFRNHCMQSMVGSSGRQRVQNAC 402

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
                + +P  +   ++ N      A +   +    +    L   R   +   ++G+I
Sbjct: 403 FSAYFLALPTTE---NVLNTFQTIVAPMFTRMTINNEETKSLANLRDLLLPKLISGEI 457


>gi|228472561|ref|ZP_04057321.1| type I restriction enzyme EcoAI specificity protein [Capnocytophaga
           gingivalis ATCC 33624]
 gi|228275974|gb|EEK14730.1| type I restriction enzyme EcoAI specificity protein [Capnocytophaga
           gingivalis ATCC 33624]
          Length = 222

 Score = 58.3 bits (139), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 25/144 (17%), Positives = 52/144 (36%), Gaps = 6/144 (4%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLP-KDGNSRQSDTSTV 78
            +P+ W+                  G+   YI +  +++   + +  K  +  ++ +   
Sbjct: 65  ELPEGWEWCRGYEILN-PMETQKPIGEMFGYIDIASIDNKNNRIIDAKFISVSEAPSRAS 123

Query: 79  SIFAKGQILYGKLGPYLRKAIIADF---DGICSTQFLVLQP-KDVLPELLQGWLLSIDVT 134
                G  L+  + PYL+     +    + I ST F +  P K + P+ L   +LS  V 
Sbjct: 124 RKVKFGDTLFSMVRPYLKNIAFVEEEYSNCIASTGFYICSPNKTLYPKFLFYLMLSEYVV 183

Query: 135 QRIEAICEGATMSHADWKGIGNIP 158
             +    +G      + + I N  
Sbjct: 184 NGLNKYMKGDNSPSINNENITNFF 207


>gi|170079642|ref|YP_001736275.1| Type I restriction modification system, N-6 DNA methylase
            [Synechococcus sp. PCC 7002]
 gi|169887311|gb|ACB01020.1| Type I restriction modification system, N-6 DNA Methylase
            [Synechococcus sp. PCC 7002]
          Length = 1179

 Score = 58.3 bits (139), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 52/418 (12%), Positives = 117/418 (27%), Gaps = 45/418 (10%)

Query: 31   KRFTKLNTGRTSE---SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
            K  T +  G + E    G+      + ++ +              S         +  IL
Sbjct: 739  KHLTLVQYGISIEMNEEGEGTKIYRMNEIHNMLCDIDVLKSAKISSIEIEKYKLKERDIL 798

Query: 88   YGKL-------GPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ--GWLLSIDVTQRIE 138
            + +           L K          S    V   +  +           ++ +     
Sbjct: 799  FNRTNSFDLVGRTGLFKISSDREFVFASYLIRVRTDESKILPEYLVAFLNSNLGIWDIKR 858

Query: 139  AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL---- 194
                    S+ + + +  + +P+     Q+ ++E      ++    I       +L    
Sbjct: 859  RARISINQSNVNSQELAAVKIPLLNREFQLKLKEIFDRAHLKRLESIKTYQEAEDLLLSE 918

Query: 195  -------LKEKKQAL--VSYIVTKG---LNPDVKMKDSGIEWVGLVPDHWEVKPFFALVT 242
                     E+  A+   S     G   L+ +          + +    + V+P   L+ 
Sbjct: 919  LGLKDWEPTEETVAVKRFSESFLLGDARLDAEYYQPKYDQAELAIQNCGFSVEPLGMLIE 978

Query: 243  ELNRKNTK--LIESNILSLSYGNIIQKLETRNMGLKP----ESYETYQIVDPGEIVFRFI 296
             +          E     +  G+I       +  +K     +       +  G+I+F   
Sbjct: 979  PIQNGFDYREYTEEGTPYIRVGDIKNGQINYDSAVKIPITMDDVAKSVGLHTGDILFTRK 1038

Query: 297  DLQNDKRSLRSAQVMERGIITSAYMAVKPHGID-----STYLAWLMRSYDLCKVFYAMGS 351
                +   +   +V    II+S  M V+ +          Y++  + S            
Sbjct: 1039 GSFGNSAVVTENEV--DAIISSEIMLVRINEEYKSKLCPEYVSLFLNSKFGYLQVERRVH 1096

Query: 352  GLRQ-SLKFEDVKRLPVLVPPIKEQFDITNVINVET---ARIDVLVEKIEQSIVLLKE 405
            G+   S+   D+  + + + P   Q  I   I       A+   L+E  +  +    E
Sbjct: 1097 GVAYYSISQPDLAAIKIPLLPTASQNKIVQFIKSSFHSKAQSKQLLEIAKHGVEKAIE 1154



 Score = 36.3 bits (82), Expect = 9.1,   Method: Composition-based stats.
 Identities = 17/158 (10%), Positives = 47/158 (29%), Gaps = 7/158 (4%)

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKR--SLRSAQVMER 313
                  N++  ++                +   +I+F   +  +      L        
Sbjct: 762 YRMNEIHNMLCDIDVLKSAKISSIEIEKYKLKERDILFNRTNSFDLVGRTGLFKISSDRE 821

Query: 314 GIITSAYMAVKPH--GIDSTYLAWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLV 369
            +  S  + V+     I   YL   + S             S  + ++  +++  + + +
Sbjct: 822 FVFASYLIRVRTDESKILPEYLVAFLNSNLGIWDIKRRARISINQSNVNSQELAAVKIPL 881

Query: 370 PPIKEQFDITNVINVE-TARIDVLVEKIEQSIVLLKER 406
              + Q  +  + +     R++ +    E   +LL E 
Sbjct: 882 LNREFQLKLKEIFDRAHLKRLESIKTYQEAEDLLLSEL 919


>gi|331006811|ref|ZP_08330072.1| hypothetical protein IMCC1989_746 [gamma proteobacterium IMCC1989]
 gi|330419379|gb|EGG93784.1| hypothetical protein IMCC1989_746 [gamma proteobacterium IMCC1989]
          Length = 193

 Score = 58.3 bits (139), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 27/132 (20%), Positives = 51/132 (38%), Gaps = 7/132 (5%)

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS---AYMAVKPHGIDSTYLA 334
           E  +    V+  +I FR   L N    +     ++  +I +        K + ID  YL 
Sbjct: 54  EELKEKHRVEVNDIAFRSRGLTNTAALI--NAELDNAVIAAPLLRIRIEKKNKIDPAYLC 111

Query: 335 WLMRSYDLCKVFYAMGSGLRQS-LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
           WL+          +  +G  Q  +    ++ L +L+PPI  Q  I   +     +   ++
Sbjct: 112 WLINQPASQAALLSQSTGTVQRTIGKPALESLELLIPPIDAQIKIVE-LERLALKEQRIM 170

Query: 394 EKIEQSIVLLKE 405
           +++ Q    L E
Sbjct: 171 QELAQKKRQLME 182


>gi|330723204|gb|AEC45574.1| Restriction endonuclease S subunits [Mycoplasma hyorhinis MCLD]
          Length = 459

 Score = 58.3 bits (139), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 46/332 (13%), Positives = 111/332 (33%), Gaps = 16/332 (4%)

Query: 50  YIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQI--LYGKLGPYLRKAIIADFDGIC 107
           ++   ++++  GKY      +  + T       K  +  L      Y       +     
Sbjct: 9   FVSKYEIQNNPGKYPVYSSQTTNNGTMGYISSYKYDLECLTWTTRGYAGVVFYRNEKFSV 68

Query: 108 STQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQ 167
           S   L++  ++++               ++  I +  T  +     +  +   +   +  
Sbjct: 69  SNSGLLIFKRNIIYNYRYFL-----FVFQMADIQKSMTAGNIPQFTVEMMKEAVLTYSNN 123

Query: 168 VLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGL 227
           +  + KI      +D +I+   R I LL++ ++AL+  +  K       ++  G      
Sbjct: 124 LNEQRKISQLFYTLDKIISLYERKISLLEKIEKALLDNMFIKENEEKPSIRFLGFNSDWQ 183

Query: 228 VPDHWEVKPFFALVTELNR-KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIV 286
                +    ++ +    +   T      I  L+  N           +  +S E    +
Sbjct: 184 SWTLEDKGYLYSGLNSKTKVDFTNGNSKYITYLNVFNNFNIDLKEKSLVFIKSDEKQNSI 243

Query: 287 DPGEIVFRFIDLQNDKRSLRSA---QVMERGIITSAYMAVKPHGID---STYLAWLMRSY 340
             G+I+F        +  + SA   +V E+  + S     + +  D     + A+L R++
Sbjct: 244 VKGDILFTMSSETYQEVGMSSAVTEEVNEKIYLNSFCFGYRLNKADFLFPNFSAFLFRNH 303

Query: 341 DLCK--VFYAMGSGLRQSLKFEDVKRLPVLVP 370
            +    +  + G   R +L  +    L +  P
Sbjct: 304 SVRHKIILQSNGGTSRFNLSKKSFLNLKIKSP 335



 Score = 49.8 bits (117), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 18/158 (11%), Positives = 46/158 (29%), Gaps = 8/158 (5%)

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
            +      N   K    +          Y      ++       +     +         
Sbjct: 9   FVSKYEIQNNPGKYPVYSSQTTNNGTMGYISSYKYDLECLTWTTRGYAGVVFYRNEKFSV 68

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP-IK 373
             +   +  +    +  Y  ++ +  D+ K   +M +G       E +K   +     + 
Sbjct: 69  SNSGLLIFKRNIIYNYRYFLFVFQMADIQK---SMTAGNIPQFTVEMMKEAVLTYSNNLN 125

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
           EQ  I    +     +D ++   E+ I LL++   + +
Sbjct: 126 EQRKI----SQLFYTLDKIISLYERKISLLEKIEKALL 159


>gi|293401666|ref|ZP_06645808.1| putative restriction modification system DNA specificity subunit
           [Erysipelotrichaceae bacterium 5_2_54FAA]
 gi|291304924|gb|EFE46171.1| putative restriction modification system DNA specificity subunit
           [Erysipelotrichaceae bacterium 5_2_54FAA]
          Length = 239

 Score = 58.3 bits (139), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 36/263 (13%), Positives = 81/263 (30%), Gaps = 29/263 (11%)

Query: 159 MPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMK 218
           M +PPL  Q  I E +     +I+          +  +   +A        G +      
Sbjct: 1   MKLPPLNCQRKIVEILSFIDNKIEENRKINNNLEQQAQAIFKAWFIDFEPFGCS------ 54

Query: 219 DSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE 278
                    +P  W V     +       +     S+I + ++   I      + GL  E
Sbjct: 55  ---------IPSDWTVLTLGDVSQMGAGGDKPKNVSSIQTENHPYPI-----YSNGLSDE 100

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
               Y  +         +  +     +    +    I+    +    + + + YL   + 
Sbjct: 101 GLYGYTDIPKIYEESVTVSARGTIGFVCLRHIPYFPIVRLVTLIPNTNILSAKYLYLYLN 160

Query: 339 SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
              +           +Q L   D ++  +LVP        TN++N    +    +   ++
Sbjct: 161 QQHIIG-----TGTTQQQLTVPDFRKTEILVPIKDVVDAFTNIVNPLFDK----IWANQE 211

Query: 399 SIVLLKERRSSFIAAAVTGQIDL 421
               L   R + +   ++G++D+
Sbjct: 212 ENKYLSTLRDTLLPKLISGKLDV 234



 Score = 40.5 bits (93), Expect = 0.50,   Method: Composition-based stats.
 Identities = 19/187 (10%), Positives = 42/187 (22%), Gaps = 15/187 (8%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS- 79
           IP  W V+ +   +++  G             +  +++    Y               + 
Sbjct: 55  IPSDWTVLTLGDVSQMGAGGDKPKN-------VSSIQTENHPYPIYSNGLSDEGLYGYTD 107

Query: 80  --IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
                +  +     G      +          + + L P   +      +L       + 
Sbjct: 108 IPKIYEESVTVSARGTIGFVCLRHIPYFPI-VRLVTLIPNTNILSAKYLYL----YLNQQ 162

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
             I  G T             + +P           +     +I     E      L   
Sbjct: 163 HIIGTGTTQQQLTVPDFRKTEILVPIKDVVDAFTNIVNPLFDKIWANQEENKYLSTLRDT 222

Query: 198 KKQALVS 204
               L+S
Sbjct: 223 LLPKLIS 229


>gi|288929354|ref|ZP_06423199.1| HsdS protein [Prevotella sp. oral taxon 317 str. F0108]
 gi|288329456|gb|EFC68042.1| HsdS protein [Prevotella sp. oral taxon 317 str. F0108]
          Length = 347

 Score = 58.3 bits (139), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 61/386 (15%), Positives = 122/386 (31%), Gaps = 46/386 (11%)

Query: 31  KRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGK 90
                 +TG  +   K    I    V S T + +              +I   G      
Sbjct: 2   GDVCNTSTGNKNTQDKTDDGIYPFYVRSQTVERIN------SWTFDGEAILTAGD----- 50

Query: 91  LGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHAD 150
            G  + K     +  I   Q + +               S     R++ +    ++    
Sbjct: 51  -GVGVGKVFHHTYGKIGVHQRVYILSDFKCDANYLFHFFSSKFYNRVKRMSAKNSVDSVR 109

Query: 151 WKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKG 210
            + I ++P+ +P   EQ+ I   +     RI T         +L     + L S I    
Sbjct: 110 KEMITDMPLSLPCCQEQIKIGYMLSILDERIATQNKIIEDLKKLKCAIIEKLYSEIQ--- 166

Query: 211 LNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLET 270
                     G E++               V     K  +       S   G + +    
Sbjct: 167 ----------GKEYL---------YGQLFEVVNKRNKQMEYSNILSASQEKGMVNRDDLN 207

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
            ++  +  +  TY+IV  G+ V      Q        A   + G+ + AY  ++P+ +  
Sbjct: 208 LDIQFERSNINTYKIVRAGDYVIHLRSFQG-----GFAFSDKLGVCSPAYTILRPNCLLE 262

Query: 331 T-YLAWLMRSYDLCKVFYAMGSGLR--QSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
             YL++   S+   K    +  G+R  +S+  E+   + V++P  + Q     ++     
Sbjct: 263 YGYLSYYFTSHRFIKSLIIVTYGIRDGRSINIEEWLNMKVIIPSKEYQLHTLKIL----R 318

Query: 388 RIDVLVEKIEQSIVLLKERRSSFIAA 413
            I+  +E  E   + L  ++   +  
Sbjct: 319 SIEGKIENEETYTICLSNQKQYLLNQ 344



 Score = 52.9 bits (125), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 22/155 (14%), Positives = 45/155 (29%), Gaps = 6/155 (3%)

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
           +  +                         GE +    D       +      + G+    
Sbjct: 13  NTQDKTDDGIYPFYVRSQTVERINSWTFDGEAILTAGDGVG-VGKVFHHTYGKIGVHQRV 71

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
           Y+       D+ YL     S    +V          S++ E +  +P+ +P  +EQ  I 
Sbjct: 72  YILSDFKC-DANYLFHFFSSKFYNRVKRMSAKNSVDSVRKEMITDMPLSLPCCQEQIKIG 130

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAA 414
                  + +D  +    + I  LK+ + + I   
Sbjct: 131 ----YMLSILDERIATQNKIIEDLKKLKCAIIEKL 161


>gi|18765820|gb|AAL78773.1|AF326622_1 JHP785-like protein [Helicobacter pylori]
          Length = 200

 Score = 58.3 bits (139), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 15/114 (13%), Positives = 44/114 (38%), Gaps = 1/114 (0%)

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID-STYLAWLMRSYDLCKVFYAMGSG 352
             I +     +       ++        +V P     + YL +++ +        +  S 
Sbjct: 65  NTITIAQYGTAGFVNWQNQKFWANDVCFSVIPKETLINRYLYYVLTNMQNYLYSISNRSA 124

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
           +  S+   ++ ++ + +PP++ Q +I  +++  +     L+  I   I   K++
Sbjct: 125 IPYSISSNNIMQITIPIPPLEIQQEIVKILDQFSILTTDLLAGIPAEIKARKKQ 178



 Score = 46.7 bits (109), Expect = 0.006,   Method: Composition-based stats.
 Identities = 23/156 (14%), Positives = 41/156 (26%), Gaps = 11/156 (7%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           PK      +    ++  G+     + +            GKY    G             
Sbjct: 13  PKGVGFRKLGEVCEIIRGKRVTKKEIL----------DKGKYPVVSGGIGFMGYLNEYNR 62

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            +  I   + G         +     +     + PK+ L      ++L+           
Sbjct: 63  EENTITIAQYG-TAGFVNWQNQKFWANDVCFSVIPKETLINRYLYYVLTNMQNYLYSISN 121

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
             A         I  I +PIPPL  Q  I + +   
Sbjct: 122 RSAIPYSISSNNIMQITIPIPPLEIQQEIVKILDQF 157


>gi|291534511|emb|CBL07623.1| Restriction endonuclease S subunits [Roseburia intestinalis M50/1]
          Length = 536

 Score = 58.3 bits (139), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 21/164 (12%), Positives = 52/164 (31%), Gaps = 2/164 (1%)

Query: 245 NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
           N+K+       +   + G+     E  +   + E      ++  G+++            
Sbjct: 370 NKKDPAGNIGVVNISNIGDYDIDYECLDHLQEEERKVANYLLQEGDVLLPARGTAIRTAV 429

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVK 363
                           +      ++  YL   + S    K+      G    ++ ++D+ 
Sbjct: 430 FHEQTYPCIASSNVIVIRPDQKNLNGYYLKIFLDSPIGNKMISGAQQGMTVMNISYKDLN 489

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS-IVLLKER 406
            L V +P +++Q  +      E  +    V   E+    +LK+ 
Sbjct: 490 VLEVPLPNMEKQKAVVKEYQEELKKYSDTVAAAEKRWNEVLKKL 533


>gi|160945576|ref|ZP_02092802.1| hypothetical protein FAEPRAM212_03105 [Faecalibacterium prausnitzii
           M21/2]
 gi|158443307|gb|EDP20312.1| hypothetical protein FAEPRAM212_03105 [Faecalibacterium prausnitzii
           M21/2]
          Length = 199

 Score = 58.3 bits (139), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 24/176 (13%), Positives = 55/176 (31%), Gaps = 5/176 (2%)

Query: 247 KNTKLIESNILSLSYGN-IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
           K      + I  ++  +  I K +  + G    +    +      +    +   +     
Sbjct: 23  KPEYYTNNGIAWITPKDLSINKSKFISHGENDITELGLKNSSATVMPKGTVLFSSRAPIG 82

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRL 365
             A           + +V P+    T   +    + L  +  A      + +    +K +
Sbjct: 83  YIAIASNEVTTNQGFKSVIPYSEIGTAFVYFFLKHSLPVIESAASGSTFKEISGSAMKNI 142

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           P ++P         +  N   A I    + +E+    L   R S +   ++G ID+
Sbjct: 143 PAIIPDRNT----LDQFNSFCAPIFAQQKILEEQNHSLAMLRDSLLPKLMSGAIDI 194



 Score = 58.3 bits (139), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 31/194 (15%), Positives = 56/194 (28%), Gaps = 12/194 (6%)

Query: 25  WKVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVESGTGKYL---PKDGNSRQSD 74
           W++  I     +  G T             I +I  +D+     K++     D       
Sbjct: 2   WQISTISDLGTVVGGSTPSKTKPEYYTNNGIAWITPKDLSINKSKFISHGENDITELGLK 61

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
            S+ ++  KG +L+    P      IA  +   +  F  + P   +      +       
Sbjct: 62  NSSATVMPKGTVLFSSRAPI-GYIAIASNEVTTNQGFKSVIPYSEI-GTAFVYFFLKHSL 119

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             IE+   G+T        + NIP  IP                 +   L  +      L
Sbjct: 120 PVIESAASGSTFKEISGSAMKNIPAIIPDRNTLDQFNSFCAPIFAQQKILEEQNHSLAML 179

Query: 195 LKEKKQALVSYIVT 208
                  L+S  + 
Sbjct: 180 RDSLLPKLMSGAID 193


>gi|227888665|ref|ZP_04006470.1| possible type I restriction modification DNA specificity protein
           [Lactobacillus johnsonii ATCC 33200]
 gi|227850778|gb|EEJ60864.1| possible type I restriction modification DNA specificity protein
           [Lactobacillus johnsonii ATCC 33200]
          Length = 129

 Score = 58.3 bits (139), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 15/130 (11%), Positives = 52/130 (40%), Gaps = 4/130 (3%)

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
           + +++Y   +   + +++ +  +  E Y  V   +I+F   + +          + E  I
Sbjct: 1   MNNITYDGKLDLRDLKSIDIPEKDLEKYS-VKKDDILFNRTNSRELVGKTCVYTIPETMI 59

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM---GSGLRQSLKFEDVKRLPVLVPPI 372
           +    + V+ + + +        + D  K  +      +  + ++   +++++ + +PP+
Sbjct: 60  LAGFIIRVRLNELANPLFVSTFLNTDYSKQLFKTICKNASGQSNINATELQKIKIYIPPL 119

Query: 373 KEQFDITNVI 382
             Q    N +
Sbjct: 120 SLQNKFANFV 129


>gi|253567537|ref|ZP_04844966.1| conserved hypothetical protein [Bacteroides sp. 3_2_5]
 gi|251943639|gb|EES84240.1| conserved hypothetical protein [Bacteroides sp. 3_2_5]
          Length = 225

 Score = 58.3 bits (139), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 21/193 (10%), Positives = 58/193 (30%), Gaps = 11/193 (5%)

Query: 229 PDHWEVKPFFALVTELNRKNTKLIESNILS--LSYGNIIQKLETRNMGLKPESYETYQIV 286
           P  W       +      ++      N +   + +         R   ++  +    +  
Sbjct: 41  PIGWNNGTLIDIANITMGQSPDGTSYNEIGEGVLFYQGSTDFGMRFPSVRQYTTAPSRFA 100

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF 346
             G+I+                       I     A+      +T+L +++    +    
Sbjct: 101 KKGDILMSVRAPVG-----AVNIANNDCCIGRGLSALNSKIGSTTHLYYILNDLRIAFDQ 155

Query: 347 YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
                    S+  ED+  LP+++P      ++ +  +   + +      + + I  L ++
Sbjct: 156 RNAAGTTFGSITKEDLYNLPIVIPA----KEVISAFDKICSPMFDRQMLLGEEIDTLIKQ 211

Query: 407 RSSFIAAAVTGQI 419
           R   +   + GQ+
Sbjct: 212 RDELLPLLLNGQV 224



 Score = 50.2 bits (118), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 31/175 (17%), Positives = 52/175 (29%), Gaps = 8/175 (4%)

Query: 10  YKDSG--VQWIGA----IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKY 63
           YK SG  + W       IP  W    +     +  G++ +               G+  +
Sbjct: 23  YKSSGGNMVWNEKLKRNIPIGWNNGTLIDIANITMGQSPDGTSYNEIGEGVLFYQGSTDF 82

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPEL 123
             +  + RQ  T+      KG IL     P      IA+ D         L  K      
Sbjct: 83  GMRFPSVRQYTTAPSRFAKKGDILMSVRAPV-GAVNIANNDCCIGRGLSALNSKIGSTTH 141

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
           L  ++L+       +    G T      + + N+P+ IP         +      
Sbjct: 142 LY-YILNDLRIAFDQRNAAGTTFGSITKEDLYNLPIVIPAKEVISAFDKICSPMF 195


>gi|53803795|ref|YP_114321.1| hypothetical protein MCA1886 [Methylococcus capsulatus str. Bath]
 gi|53757556|gb|AAU91847.1| conserved hypothetical protein [Methylococcus capsulatus str. Bath]
          Length = 192

 Score = 57.9 bits (138), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 19/134 (14%), Positives = 44/134 (32%), Gaps = 9/134 (6%)

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
             +   +V  G+++FR     N    +               +  +   ++  YL W + 
Sbjct: 55  DLKDRHLVQAGDLLFRSRGATNSAALVGDGLGRAVLAAPMLLIRPQTEVVEPAYLQWFIN 114

Query: 339 SYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
                       +G   + +    +  L V++PP+++Q  I  V  +             
Sbjct: 115 HPSTQATLAGQAAGTAVKMIGKGVLHHLKVVLPPLEKQRRIVEVAQLALRE--------A 166

Query: 398 QSIVLLKERRSSFI 411
             +  L+ RR + +
Sbjct: 167 ALLEELRGRRKALL 180



 Score = 42.1 bits (97), Expect = 0.18,   Method: Composition-based stats.
 Identities = 24/155 (15%), Positives = 52/155 (33%), Gaps = 10/155 (6%)

Query: 29  PIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            +    ++  G +  S        D+  I ++D++     +       +  D     +  
Sbjct: 4   TLATIAEVRMGYSFRSRLEADAQGDVAVIQMKDIDDANLLHPEGLVRVQMPDLKDRHLVQ 63

Query: 83  KGQILYGKLGPYLRKAIIADFDG----ICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
            G +L+   G     A++ D  G          +  Q + V P  LQ ++        + 
Sbjct: 64  AGDLLFRSRGATNSAALVGDGLGRAVLAAPMLLIRPQTEVVEPAYLQWFINHPSTQATLA 123

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
               G  +       + ++ + +PPL +Q  I E 
Sbjct: 124 GQAAGTAVKMIGKGVLHHLKVVLPPLEKQRRIVEV 158


>gi|332877054|ref|ZP_08444805.1| type I restriction modification DNA specificity domain protein
           [Capnocytophaga sp. oral taxon 329 str. F0087]
 gi|332684944|gb|EGJ57790.1| type I restriction modification DNA specificity domain protein
           [Capnocytophaga sp. oral taxon 329 str. F0087]
          Length = 201

 Score = 57.9 bits (138), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 18/154 (11%), Positives = 38/154 (24%)

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRF 295
             F        K        I              +++       +   +V   +I+   
Sbjct: 36  KGFDYGMNAAAKPFDGQHKYIRITDIDESSAAYIDKDVVSPDGELQDSYLVKANDILLAR 95

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ 355
                 K  L   +               P        + L  S     +        + 
Sbjct: 96  TGASTGKSYLYDNKDGILYFAGFLIRVNIPSDNAYFVFSQLHLSRYRKWIGIMSARSGQP 155

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
            +  ++    P+ +P I+EQ  I  ++ +   RI
Sbjct: 156 GVNSQEYSNYPIYLPKIEEQTKIAKLLKLVDERI 189



 Score = 54.8 bits (130), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 26/165 (15%), Positives = 53/165 (32%), Gaps = 7/165 (4%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDI----IYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            WK   +    K      + + K       YI + D++  +  Y+ KD  S   +     
Sbjct: 25  EWKKCTLGEIGKGFDYGMNAAAKPFDGQHKYIRITDIDESSAAYIDKDVVSPDGELQDSY 84

Query: 80  IFAKGQILYGKLGPYLRKAIIADF---DGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
           +     IL  + G    K+ + D        +   + +         +   L      + 
Sbjct: 85  LVKANDILLARTGASTGKSYLYDNKDGILYFAGFLIRVNIPSDNAYFVFSQLHLSRYRKW 144

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
           I  +   +     + +   N P+ +P + EQ  I + +     RI
Sbjct: 145 IGIMSARSGQPGVNSQEYSNYPIYLPKIEEQTKIAKLLKLVDERI 189


>gi|315651214|ref|ZP_07904244.1| conserved hypothetical protein [Eubacterium saburreum DSM 3986]
 gi|315486510|gb|EFU76862.1| conserved hypothetical protein [Eubacterium saburreum DSM 3986]
          Length = 182

 Score = 57.9 bits (138), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/146 (11%), Positives = 46/146 (31%), Gaps = 4/146 (2%)

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYET--YQIVDPGEIVFRFIDLQNDKRSLRS 307
              +     L   +I          LK    E     ++ P +IVF        +     
Sbjct: 27  PFSKDLYTYLRITDIKDDSTLNLQDLKSVEDEKAREYLLKPNDIVFARTGASTGRNYFYD 86

Query: 308 AQVMERGIITSAY-MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRL 365
               E          ++    ++  Y+ +  +S        +  +G  R ++  + + ++
Sbjct: 87  GTDGEFVYAGFLIKFSIDEKKVNPKYIKYFCQSKQYQDWINSFNTGSTRGNINAQTLGKM 146

Query: 366 PVLVPPIKEQFDITNVINVETARIDV 391
            + +   K Q  + ++++    +I  
Sbjct: 147 EIPLIERKMQDALVSILSSIDKKIKK 172



 Score = 52.9 bits (125), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 21/156 (13%), Positives = 52/156 (33%), Gaps = 6/156 (3%)

Query: 41  TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAII 100
              S     Y+ + D++        +D  S + + +   +     I++ + G    +   
Sbjct: 26  VPFSKDLYTYLRITDIK-DDSTLNLQDLKSVEDEKAREYLLKPNDIVFARTGASTGRNYF 84

Query: 101 ADFD--GICSTQFLVLQP---KDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIG 155
            D          FL+      K V P+ ++ +  S      I +   G+T  + + + +G
Sbjct: 85  YDGTDGEFVYAGFLIKFSIDEKKVNPKYIKYFCQSKQYQDWINSFNTGSTRGNINAQTLG 144

Query: 156 NIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            + +P+     Q  +   + +   +I          
Sbjct: 145 KMEIPLIERKMQDALVSILSSIDKKIKKNNEVNNNL 180


>gi|302190883|ref|ZP_07267137.1| putative type I restriction-modification specificity protein
           [Lactobacillus iners AB-1]
          Length = 179

 Score = 57.9 bits (138), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 18/158 (11%), Positives = 51/158 (32%), Gaps = 6/158 (3%)

Query: 245 NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDP---GEIVFRFIDLQND 301
           +             ++  N++          K   Y  Y+          +   I+    
Sbjct: 21  HGTPKYTENGEYAFVNGNNLVDGEILIKKETKRVDYSQYEKYKKPLTNRTILVSINGTLG 80

Query: 302 KRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFE 360
              +  ++ +  G   SA        +D  ++ +++ S    +   +  +G   +++  +
Sbjct: 81  NVGVYGSEKIILGK--SACYFNVKESVDKDFIYYIVSSPTFKQYLESNATGTTIKNISLK 138

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
            ++     +P I EQ  I++V+     +I       + 
Sbjct: 139 QMREYTFELPEIGEQKRISSVLRKIDEKIKNNRAINKN 176


>gi|259501396|ref|ZP_05744298.1| conserved hypothetical protein [Lactobacillus iners DSM 13335]
 gi|259167200|gb|EEW51695.1| conserved hypothetical protein [Lactobacillus iners DSM 13335]
          Length = 172

 Score = 57.9 bits (138), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 18/151 (11%), Positives = 50/151 (33%), Gaps = 6/151 (3%)

Query: 245 NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDP---GEIVFRFIDLQND 301
           +             ++  N++          K   Y  Y+          +   I+    
Sbjct: 21  HGTPKYTENGEYAFVNGNNLVDGEILIKKETKRVDYSQYEKYKKPLTNRTILVSINGTLG 80

Query: 302 KRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFE 360
              +  ++ +  G   SA        +D  ++ +++ S    +   +  +G   +++  +
Sbjct: 81  NVGVYGSEKIILGK--SACYFNVKESVDKDFIYYIVSSPTFKQYLESNATGTTIKNISLK 138

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDV 391
            ++     +P I EQ  I++V+     +I  
Sbjct: 139 QMREYTFELPEIGEQKRISSVLRKIDEKIKN 169


>gi|332829723|gb|EGK02369.1| hypothetical protein HMPREF9455_01639 [Dysgonomonas gadei ATCC
           BAA-286]
          Length = 372

 Score = 57.9 bits (138), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 18/136 (13%), Positives = 41/136 (30%), Gaps = 10/136 (7%)

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER-----GIITSAYMAVKPHGIDSTYLAW 335
             Y I   G+I F       +  +     +          + + +   K H     +  +
Sbjct: 46  NKYTICKEGDIAFADASEDTNDVAKVVEFLNCNNKSIVCGLHTIHGRDKKHLTIKGFKGY 105

Query: 336 LMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
              S         +  G    S+  ++   L + +P  +EQ  I +++      +D  + 
Sbjct: 106 AFSSIPFRNQVRRLAQGTKIYSINSKNFDELYIGIPSKEEQAKIAHLL----ILLDERIA 161

Query: 395 KIEQSIVLLKERRSSF 410
              + I  L+      
Sbjct: 162 TQNKIIEKLESLIKGL 177



 Score = 48.6 bits (114), Expect = 0.002,   Method: Composition-based stats.
 Identities = 45/355 (12%), Positives = 103/355 (29%), Gaps = 48/355 (13%)

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS----- 130
           +  +I  +G I +                  C+ + +V     +     +   +      
Sbjct: 46  NKYTICKEGDIAFADASEDTNDVAKVVEFLNCNNKSIVCGLHTIHGRDKKHLTIKGFKGY 105

Query: 131 ----IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
               I    ++  + +G  +   + K    + + IP   EQ  I   +I    RI T   
Sbjct: 106 AFSSIPFRNQVRRLAQGTKIYSINSKNFDELYIGIPSKEEQAKIAHLLILLDERIATQNK 165

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
              +   L+K    A                            DHW ++    ++ +   
Sbjct: 166 IIEKLESLIKGLYSAT-------------------------KRDHWRMQYLRDILEQRKE 200

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
            NT+      +++  G +I ++E        +    Y +V  G+IV+      N    + 
Sbjct: 201 FNTQNYFVFSVAVKEG-LINQIEHMGRSFAAKDTRHYNVVKYGDIVYTKSPTGNFPYGIV 259

Query: 307 SAQVMERGIITSAYMAVK--PHGIDSTYLAWLMRSY-----DLCKVFYAMGSGLRQSLKF 359
                   +  S    V    +   S  L     S       L  +          ++  
Sbjct: 260 KQSFTNIPVAVSPLYGVYKSKNLHLSNILHHYFLSPIKANNYLHSLIQKGAKNTI-NITS 318

Query: 360 EDVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           +      +L+P    E   I    ++    I+  +   ++ +  ++ ++   +  
Sbjct: 319 QHFLEKAILLPVDKSEIQTI----SLLLTTINKKIGFEKEVLKKMQIQKVFLLQQ 369


>gi|319896987|ref|YP_004135182.1| type i restriction enzyme [Haemophilus influenzae F3031]
 gi|317432491|emb|CBY80848.1| putative type I restriction enzyme [Haemophilus influenzae F3031]
          Length = 437

 Score = 57.9 bits (138), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 41/430 (9%), Positives = 121/430 (28%), Gaps = 52/430 (12%)

Query: 36  LNTGRTSES---GKDIIYIGLEDVES-GTGKYLPKDGNSRQSDTSTVSIFAKGQILYGK- 90
           L  G T      G     + + ++ S    +    D           ++     +L+ + 
Sbjct: 14  LRNGVTKPKRVRGSGYKMVNMGEIFSLSFIQNQTMDRVPLTDKEKATTLLQNNDLLFARQ 73

Query: 91  ----LGPYLRKAIIADFDGICS-TQFLVLQPKDVLPELLQGWLLSID---VTQRIEAICE 142
                G       + D + +C  +  + ++    L   +  +             + I +
Sbjct: 74  SLVRDGAGKCSIFLNDNEPVCFESHIIRVRLNQELCYPMFYYYFFSSRLGKNTMDKIIEQ 133

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           GA  +      +  + +P    ++Q  I + + +   +I           ++ +   ++ 
Sbjct: 134 GAGAAGIRGSDLAKLEVPYIGYSKQKEIADSLYSFDQKIQLNTQINQTLEQIAQALFKSW 193

Query: 203 V---------SYIVTKGLNPDVKMKDSGIEWVGLVPDH------WEVKPFFALVTELNRK 247
                     +  ++ G++ +     +     G  P+        +   +  L       
Sbjct: 194 FVDFDPVRAKAQALSDGMSLEQAELAAIQAISGKTPEELTALSQTQPDRYAELAETAKAF 253

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQND------ 301
             +++E +   +  G   Q L+     +  ++  T +++  G  VF    +         
Sbjct: 254 PCEMVEVDGGEVPKGWEYQYLKDICNIVYGKNLPTTKLIKEGYPVFGGNGVIGYYDKFLY 313

Query: 302 ------------KRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
                               +    +  ++ +        S    ++     L  +    
Sbjct: 314 ETPQTLVSCRGAASGKVLYSLPYSFVTNNSLVIEHEKSGLS--YFYIYEVLKLQNLTELT 371

Query: 350 GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
               +  +   ++  + +LVP       I  V       +   + +       L + R  
Sbjct: 372 SGSAQPQMTIANMAAVQILVPS----EKINEVCKKYLGTLYNQIYQNNIENETLAQTRDL 427

Query: 410 FIAAAVTGQI 419
            +   + G+I
Sbjct: 428 LLPRLLNGEI 437



 Score = 55.2 bits (131), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 23/187 (12%), Positives = 57/187 (30%), Gaps = 16/187 (8%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           G +PK W+   +K    +  G+   + K I         +G   Y  K            
Sbjct: 263 GEVPKGWEYQYLKDICNIVYGKNLPTTKLIKEGYPVFGGNGVIGYYDK------------ 310

Query: 79  SIFAKGQILYGKLGPYLRKAIIA-DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
            ++   Q L    G    K + +  +  + +   ++   K  L      ++  +   Q +
Sbjct: 311 FLYETPQTLVSCRGAASGKVLYSLPYSFVTNNSLVIEHEKSGLS---YFYIYEVLKLQNL 367

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
             +  G+         +  + + +P      + ++ +     +I     E     +    
Sbjct: 368 TELTSGSAQPQMTIANMAAVQILVPSEKINEVCKKYLGTLYNQIYQNNIENETLAQTRDL 427

Query: 198 KKQALVS 204
               L++
Sbjct: 428 LLPRLLN 434


>gi|308190349|ref|YP_003923280.1| hypothetical protein MFE_08350 [Mycoplasma fermentans JER]
 gi|307625091|gb|ADN69396.1| hypothetical protein MFE_08350 [Mycoplasma fermentans JER]
          Length = 167

 Score = 57.9 bits (138), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 16/134 (11%), Positives = 43/134 (32%), Gaps = 10/134 (7%)

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
            +Y     VD   I+   +               ++  +T   +  KP   +     +  
Sbjct: 33  ITYVNKWNVDEDAIIIGRVGAN----CGCVNITNKKSFVTDNALIFKPKEKNMARFYFYF 88

Query: 338 RSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
             +     F+      +  L    +  + + +P + +   I+ +++     ID  +E+  
Sbjct: 89  LLHLNLNKFHI--GSSQPLLTQGILGNIKINIPSLNKCQKISKILD----NIDNQIERNN 142

Query: 398 QSIVLLKERRSSFI 411
             +  L+    + I
Sbjct: 143 SMVQKLQCFEQALI 156


>gi|160914346|ref|ZP_02076565.1| hypothetical protein EUBDOL_00354 [Eubacterium dolichum DSM 3991]
 gi|160915332|ref|ZP_02077544.1| hypothetical protein EUBDOL_01340 [Eubacterium dolichum DSM 3991]
 gi|158432723|gb|EDP11012.1| hypothetical protein EUBDOL_01340 [Eubacterium dolichum DSM 3991]
 gi|158433819|gb|EDP12108.1| hypothetical protein EUBDOL_00354 [Eubacterium dolichum DSM 3991]
          Length = 122

 Score = 57.9 bits (138), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 12/116 (10%), Positives = 37/116 (31%), Gaps = 2/116 (1%)

Query: 275 LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
                     ++   +++    +         +   +E+    +           + Y+ 
Sbjct: 8   YVSCEVPQKAMIYKNDLLICARNGSRSLVGKCAIVDIEKASFGAFMTKFSSKF--NPYIK 65

Query: 335 WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
             + S         + +     +  ++++   + +PP +EQ  I N IN   + +D
Sbjct: 66  IFLDSPTFRNQLDNVKTETINQITQKNLQNQLLPLPPFEEQIKIVNTINKIYSILD 121


>gi|289624199|ref|ZP_06457153.1| Type I restriction enzyme specificity protein HsdS [Pseudomonas
           syringae pv. aesculi str. NCPPB3681]
          Length = 286

 Score = 57.9 bits (138), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 22/143 (15%), Positives = 50/143 (34%), Gaps = 18/143 (12%)

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY 340
           + Y    P  ++ R   + N          ++       Y  +    +   YL + M++ 
Sbjct: 54  DKYSYNKPTVLIPRKGSITNIFYVDVPFWNVDTIY----YTDIDYSRVIPKYLYYFMKTI 109

Query: 341 DLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-------PIKEQFDITNVINVETARIDVLV 393
           D+  +        R SL    +K + + +P        +K Q +I  ++N  +     L 
Sbjct: 110 DMMAL---DTGSGRPSLTQAILKEILIPIPCPDDSKKSLKIQAEIVRILNTFSELTAELT 166

Query: 394 EKIEQSIVLLKE----RRSSFIA 412
            K++  +   K+     R   ++
Sbjct: 167 AKLKAELKARKKQYNYYRDQLLS 189


>gi|298241943|ref|ZP_06965750.1| restriction modification system DNA specificity domain protein
           [Ktedonobacter racemifer DSM 44963]
 gi|297554997|gb|EFH88861.1| restriction modification system DNA specificity domain protein
           [Ktedonobacter racemifer DSM 44963]
          Length = 790

 Score = 57.9 bits (138), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 20/149 (13%), Positives = 55/149 (36%), Gaps = 9/149 (6%)

Query: 272 NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST 331
           ++ +K         V+ G+I+         +  +   + + R + + +   ++P   D  
Sbjct: 640 SISVKDFDNAKNAHVEFGDILVTTTGAYLGRACVFDKKDL-RAVASGSVTILRPQFRDDI 698

Query: 332 YLAWL---MRSYDLCKVFYAM--GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
              +L   + S       + +   S  +  ++  D+  + + +PP+ +Q ++   I V  
Sbjct: 699 DPFFLTSIINSKLGKDQIFQLQAASASQPYIRRADLGAITIPLPPLSKQKELAQRIKVLL 758

Query: 387 ARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
                LV + +  I    E +   +   +
Sbjct: 759 TEAQDLVRRAQ-EIE--TEAKKLIVDELL 784


>gi|332749086|gb|EGJ79509.1| type I restriction enzyme EcoAI specificity domain protein
           [Shigella flexneri K-671]
 gi|332749353|gb|EGJ79774.1| type I restriction enzyme EcoAI specificity domain protein
           [Shigella flexneri 4343-70]
 gi|332749675|gb|EGJ80091.1| type I restriction enzyme EcoAI specificity domain protein
           [Shigella flexneri 2747-71]
 gi|332768710|gb|EGJ98889.1| stySKI methylase [Shigella flexneri 2930-71]
 gi|333009192|gb|EGK28648.1| type I restriction enzyme EcoAI specificity domain protein
           [Shigella flexneri K-218]
 gi|333010421|gb|EGK29854.1| type I restriction enzyme EcoAI specificity domain protein
           [Shigella flexneri VA-6]
 gi|333022275|gb|EGK41513.1| type I restriction enzyme EcoAI specificity domain protein
           [Shigella flexneri K-304]
          Length = 377

 Score = 57.9 bits (138), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 32/192 (16%), Positives = 65/192 (33%), Gaps = 15/192 (7%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPES 279
           S  E    +P+ WE      +   ++  + K+  S IL      +I++ +    G     
Sbjct: 93  SEEEKPFELPEGWEWVHLPDIYCSISESSRKIKSSEILPEGKYPVIEQSQEFISGYCNNE 152

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
                ++     V  F D   +          +  +       + P  I   +  W +RS
Sbjct: 153 ---CLLIKLNNPVIVFGDHTRN----IKFIDFDFVVGADGVKILSPILICERFFFWQLRS 205

Query: 340 YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
           + L    YA          F+ +      +PPI EQ  I   ++   +  D L ++   S
Sbjct: 206 FKLDVRGYAR--------HFKVLNSCLFALPPIAEQERIVEKVSSLMSLCDQLEQQSLTS 257

Query: 400 IVLLKERRSSFI 411
           +   ++   + +
Sbjct: 258 LDAHQQLVETLL 269



 Score = 37.5 bits (85), Expect = 4.5,   Method: Composition-based stats.
 Identities = 30/204 (14%), Positives = 69/204 (33%), Gaps = 18/204 (8%)

Query: 1   MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRF-TKLNTGRTSESGKDIIYIGLEDVESG 59
           +K  K  P+   S  +    +P+ W+ V +      ++         +I+  G   V   
Sbjct: 83  IKKQKPLPEI--SEEEKPFELPEGWEWVHLPDIYCSISESSRKIKSSEILPEGKYPVIEQ 140

Query: 60  TGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV 119
           + +++    N+       +       I++   G + R     DFD +      V     +
Sbjct: 141 SQEFISGYCNNECL----LIKLNNPVIVF---GDHTRNIKFIDFDFVVGAD-GVKILSPI 192

Query: 120 LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV 179
           L      +         +        +       + +    +PP+AEQ  I EK+ +   
Sbjct: 193 LICERFFFWQLRSFKLDVRGYARHFKV-------LNSCLFALPPIAEQERIVEKVSSLMS 245

Query: 180 RIDTLITERIRFIELLKEKKQALV 203
             D L  + +  ++  ++  + L+
Sbjct: 246 LCDQLEQQSLTSLDAHQQLVETLL 269


>gi|323139525|ref|ZP_08074571.1| N-6 DNA methylase [Methylocystis sp. ATCC 49242]
 gi|322395204|gb|EFX97759.1| N-6 DNA methylase [Methylocystis sp. ATCC 49242]
          Length = 717

 Score = 57.9 bits (138), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 20/116 (17%), Positives = 41/116 (35%), Gaps = 4/116 (3%)

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
             T       +S E Y+++    + +  + +      +      ++GI +  Y+      
Sbjct: 555 GITNPKTAIGKSPERYKVLRTHYLAYNPMRINIGSIGVVR-DDTQQGITSPDYVVFYCGP 613

Query: 328 ID-STYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVP-PIKEQFDITN 380
                Y+   +RS            G +R  L FE + ++ + VP  I+ Q    N
Sbjct: 614 DLLPEYVYHYLRSEAGRHEINLKTKGSVRFRLYFEQLSKIKIPVPKDIETQQRFVN 669


>gi|309808293|ref|ZP_07702199.1| conserved hypothetical protein [Lactobacillus iners LactinV 01V1-a]
 gi|308168440|gb|EFO70552.1| conserved hypothetical protein [Lactobacillus iners LactinV 01V1-a]
          Length = 235

 Score = 57.9 bits (138), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 25/181 (13%), Positives = 68/181 (37%), Gaps = 11/181 (6%)

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
           N   +         G            +   S  +  ++  G+++    D++++   L +
Sbjct: 54  NCYQVFKQGHINRGGGFNSSGTKSWYPISKSSALSKYVLHKGDVLMAMTDMKDNVAILGN 113

Query: 308 AQ---VMERGIITSAYMAVKPHGIDSTYLAWLM---RSYDLCKVFYAMG-SGLRQSLKFE 360
                V ++ I+      ++ +G  ST  A++     S +  K   +   SG++ +L   
Sbjct: 114 TALMAVDDQYIVNQRVGLLRSNGYKSTSYAYIYLLTNSLNFLKDLRSRANSGVQVNLSSS 173

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQID 420
           ++K   V +   +   +     N  T  +  ++   +     L + R + +   ++G++D
Sbjct: 174 EIKDSSVWIANDEVNEEF----NALTEPLLSMIMTNDIENQKLIDLRDTLLPKLMSGELD 229

Query: 421 L 421
           +
Sbjct: 230 V 230



 Score = 50.6 bits (119), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 28/215 (13%), Positives = 65/215 (30%), Gaps = 25/215 (11%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNS 70
           G +P  WK   ++     + G   +S +                 +  G G       + 
Sbjct: 19  GTVPDDWKQGTLQDIANFSNGYAFKSKELLNTSEPNCYQVFKQGHINRGGGFNSSGTKSW 78

Query: 71  RQSDTS---TVSIFAKGQILYGKLGPYLRKAIIADFD-GICSTQFLVLQ---------PK 117
                S   +  +  KG +L          AI+ +        Q++V Q          K
Sbjct: 79  YPISKSSALSKYVLHKGDVLMAMTDMKDNVAILGNTALMAVDDQYIVNQRVGLLRSNGYK 138

Query: 118 DVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
                 +     S++  + + +        +     I +  + I        + E+  A 
Sbjct: 139 STSYAYIYLLTNSLNFLKDLRSRANSGVQVNLSSSEIKDSSVWIAN----DEVNEEFNAL 194

Query: 178 TVRIDTLITERIRFIELLKEKKQALVSYIVTKGLN 212
           T  + ++I       + L + +  L+  +++  L+
Sbjct: 195 TEPLLSMIMTNDIENQKLIDLRDTLLPKLMSGELD 229


>gi|239994327|ref|ZP_04714851.1| restriction endonuclease S subunits-like protein [Alteromonas
          macleodii ATCC 27126]
          Length = 70

 Score = 57.9 bits (138), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 17/53 (32%), Positives = 26/53 (49%)

Query: 6  AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVES 58
          AYP+YK S   W+G +P  W++  IK  + +  G +     D  Y   E+ E 
Sbjct: 6  AYPEYKQSDEDWLGDVPSTWEIKMIKHLSPVKRGASPRPIDDPKYFDDENGEY 58


>gi|5712708|gb|AAD47618.1| HsdS variable domain [Lactococcus lactis]
          Length = 172

 Score = 57.9 bits (138), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 20/167 (11%), Positives = 47/167 (28%), Gaps = 8/167 (4%)

Query: 237 FFALVTELNRKNTKLIESNILSLSYG--NIIQKLETRNMGLKPESYETY--QIVDPGEIV 292
                 +         E+    L  G      KL  ++      S + Y    V   + +
Sbjct: 10  ITDFHKQGFYTKESYNENKKYYLLRGTDMTSNKLILKDTPKINASEKDYEDFKVLKDDFL 69

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
                       ++S      G     +   +   ++  +  +   S    ++   +   
Sbjct: 70  IVRSGTVGTYAIVKSDITAIFGSYLINFRFNQSIVLNEFFGLFYQSSLFKSQLNKIIQKS 129

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
              ++  E++K   +  P I+EQ  I          ID  +   ++ 
Sbjct: 130 SNVNINAENIKSTNIKFPTIEEQQKIGAF----FQSIDDTIALHQRK 172



 Score = 49.0 bits (115), Expect = 0.001,   Method: Composition-based stats.
 Identities = 22/166 (13%), Positives = 45/166 (27%), Gaps = 8/166 (4%)

Query: 24  HWKVVPIKRFTKLNTGRTSES-----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
            W+   +   T  +             K    +   D+ S           +        
Sbjct: 1   DWEERKLSEITDFHKQGFYTKESYNENKKYYLLRGTDMTSNKLILKDTPKINASEKDYED 60

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLV---LQPKDVLPELLQGWLLSIDVTQ 135
               K   L  + G     AI+          +L+        VL E    +  S     
Sbjct: 61  FKVLKDDFLIVRSGTVGTYAIVKSDITAIFGSYLINFRFNQSIVLNEFFGLFYQSSLFKS 120

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
           ++  I + ++  + + + I +  +  P + EQ  I     +    I
Sbjct: 121 QLNKIIQKSSNVNINAENIKSTNIKFPTIEEQQKIGAFFQSIDDTI 166


>gi|269978364|gb|ACZ55916.1| putative type I restriction-modification system specificity subunit
           S [Helicobacter pylori]
          Length = 200

 Score = 57.9 bits (138), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 15/114 (13%), Positives = 44/114 (38%), Gaps = 1/114 (0%)

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID-STYLAWLMRSYDLCKVFYAMGSG 352
             I +     +       ++        +V P     + YL +++ +        +  S 
Sbjct: 65  NTITIAQYGTAGFVNWQNQKFWANDVCFSVIPKETLINRYLYYVLTNMQNYLYSISNRSA 124

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
           +  S+   ++ ++ + +PP++ Q +I  +++  +     L+  I   I   K++
Sbjct: 125 IPYSISSNNIMQITIPIPPLEIQQEIVKILDQFSLLTTDLLAGIPAEIKARKKQ 178



 Score = 50.2 bits (118), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 23/156 (14%), Positives = 42/156 (26%), Gaps = 11/156 (7%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           PK  +   +    ++  G+     + +            GKY    G             
Sbjct: 13  PKGVEFKKLGEVCEIIRGKRVTKKEIL----------DKGKYPVVSGGIGFMGYLNEYNR 62

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            +  I   + G         +     +     + PK+ L      ++L+           
Sbjct: 63  EENTITIAQYGT-AGFVNWQNQKFWANDVCFSVIPKETLINRYLYYVLTNMQNYLYSISN 121

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
             A         I  I +PIPPL  Q  I + +   
Sbjct: 122 RSAIPYSISSNNIMQITIPIPPLEIQQEIVKILDQF 157


>gi|293402585|ref|ZP_06646712.1| putative type I restriction-modification system, S subunit
           [Erysipelotrichaceae bacterium 5_2_54FAA]
 gi|291303977|gb|EFE45239.1| putative type I restriction-modification system, S subunit
           [Erysipelotrichaceae bacterium 5_2_54FAA]
          Length = 186

 Score = 57.9 bits (138), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 13/148 (8%), Positives = 48/148 (32%), Gaps = 2/148 (1%)

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
           R++ K     +    +     +     +     +      V   +++            +
Sbjct: 29  RRDMKNEGIPVYEQQHAIYNNRQFRYYIDEIKFNEMKRFQVQTDDLIISCSGTVGRVSII 88

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCK-VFYAMGSGLRQSL-KFEDVK 363
           +              + +    +   YL +   S +    +       ++ ++ K + ++
Sbjct: 89  KEDDPKGIISQALLLLRINTEKVLPLYLKYFFSSREGYNAIISRSSGSVQVNIAKRDVIE 148

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDV 391
           ++P+ +PP+  Q  I  +++    +I+ 
Sbjct: 149 QIPLKLPPLNCQRKIVEILSFIDNKIEE 176



 Score = 38.2 bits (87), Expect = 2.4,   Method: Composition-based stats.
 Identities = 28/183 (15%), Positives = 56/183 (30%), Gaps = 16/183 (8%)

Query: 24  HWKVVPIKRFTKL---NTGRTSE-------SGKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
            W  + +    +      G             + I     +       ++     +  + 
Sbjct: 3   EWTNLKLSDVLQEKGYIRGPFGSALKRRDMKNEGIPVYEQQHAIYNNRQF-RYYIDEIKF 61

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAII--ADFDGICSTQ--FLVLQPKDVLPELLQGWLL 129
           +           ++    G   R +II   D  GI S     L +  + VLP  L+ +  
Sbjct: 62  NEMKRFQVQTDDLIISCSGTVGRVSIIKEDDPKGIISQALLLLRINTEKVLPLYLKYFFS 121

Query: 130 SIDVTQRIEAICEGATMSHADWKGIG-NIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
           S +    I +   G+   +   + +   IP+ +PPL  Q  I E +     +I+      
Sbjct: 122 SREGYNAIISRSSGSVQVNIAKRDVIEQIPLKLPPLNCQRKIVEILSFIDNKIEENRKIN 181

Query: 189 IRF 191
              
Sbjct: 182 NNL 184


>gi|327183904|gb|AEA32351.1| type I restriction-modification system S subunit [Lactobacillus
           amylovorus GRL 1118]
          Length = 344

 Score = 57.9 bits (138), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 14/129 (10%), Positives = 38/129 (29%), Gaps = 4/129 (3%)

Query: 288 PGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY 347
                     L   + +L     +  G   +   A+           WL     L K+  
Sbjct: 220 DNYTHDGNYSLIGRQGALCGNVQLTAGKFRNTEHAILVKPNVQVNYYWLFMLLKLEKLNR 279

Query: 348 AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
                 +  L  + + ++ + +  +  Q +  +       ++D     I++S+   +   
Sbjct: 280 FSSGAAQPGLAVKTLNKIFIPIADLNLQNEFASF----AQQVDKSKVAIQKSLDETQTLF 335

Query: 408 SSFIAAAVT 416
            S +    +
Sbjct: 336 DSLMQKYFS 344


>gi|221195892|ref|ZP_03568944.1| hypothetical protein ATORI0001_0858 [Atopobium rimae ATCC 49626]
 gi|221184239|gb|EEE16634.1| hypothetical protein ATORI0001_0858 [Atopobium rimae ATCC 49626]
          Length = 204

 Score = 57.9 bits (138), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 20/187 (10%), Positives = 54/187 (28%), Gaps = 19/187 (10%)

Query: 232 WEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE--SYETYQIVDPG 289
           WE +    +      ++               +    + +N  + P   + E  +    G
Sbjct: 29  WEQRKLGDIAEVTMGQSPSGTCYTDNPNDAILVQGNADLKNGWVYPRVWTTEITKTASRG 88

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
           +++                 V+ RG+            I      +   S      ++  
Sbjct: 89  DLIMSVRAPVGAMGKTAFDVVLGRGVAG----------IKGDEFLFQALSKIESDGYWTT 138

Query: 350 --GSGLRQSLKFEDVKRLPVLVPP-IKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
                   S+  ++++   +  P   +E+  I         + D L+   ++ +  LK+ 
Sbjct: 139 VSAGSTFDSISGDELRNTAINYPSDTEERKRIGYY----FQKFDHLITLHQRKLEKLKQL 194

Query: 407 RSSFIAA 413
           + S +  
Sbjct: 195 KQSMLEK 201



 Score = 40.5 bits (93), Expect = 0.51,   Method: Composition-based stats.
 Identities = 24/183 (13%), Positives = 49/183 (26%), Gaps = 8/183 (4%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+   +    ++  G++              +  G           R   T      ++G
Sbjct: 29  WEQRKLGDIAEVTMGQSPSGTCYTDNPNDAILVQGNADLKNGWVYPRVWTTEITKTASRG 88

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            ++     P                            E L   L  I+       +  G+
Sbjct: 89  DLIMSVRAPVGAM-----GKTAFDVVLGRGVAGIKGDEFLFQALSKIESDGYWTTVSAGS 143

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
           T        + N  +  P   E+         +   +   IT   R +E LK+ KQ+++ 
Sbjct: 144 TFDSISGDELRNTAINYPSDTEERKRIGYYFQKFDHL---ITLHQRKLEKLKQLKQSMLE 200

Query: 205 YIV 207
            + 
Sbjct: 201 KMF 203


>gi|330869551|gb|EGH04260.1| Type I restriction enzyme specificity protein HsdS [Pseudomonas
           syringae pv. aesculi str. 0893_23]
          Length = 287

 Score = 57.9 bits (138), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 22/143 (15%), Positives = 50/143 (34%), Gaps = 18/143 (12%)

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY 340
           + Y    P  ++ R   + N          ++       Y  +    +   YL + M++ 
Sbjct: 54  DKYSYNKPTVLIPRKGSITNIFYVDVPFWNVDTIY----YTDIDYSRVIPKYLYYFMKTI 109

Query: 341 DLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-------PIKEQFDITNVINVETARIDVLV 393
           D+  +        R SL    +K + + +P        +K Q +I  ++N  +     L 
Sbjct: 110 DMMAL---DTGSGRPSLTQAILKEILIPIPCPDDSKKSLKIQAEIVRILNTFSELTAELT 166

Query: 394 EKIEQSIVLLKE----RRSSFIA 412
            K++  +   K+     R   ++
Sbjct: 167 AKLKAELKARKKQYNYYRDQLLS 189


>gi|327470622|gb|EGF16078.1| type I restriction modification DNA specificity family protein
           [Streptococcus sanguinis SK330]
          Length = 182

 Score = 57.9 bits (138), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 18/151 (11%), Positives = 63/151 (41%), Gaps = 6/151 (3%)

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
            +    +          N++ + +  ++          + +   +I++  +    +   +
Sbjct: 23  SEKWDFVNYLDTGSLTKNVVSEYQEIDLQNDKLPSRARRKISVNDILYSTVRPNQEHYGI 82

Query: 306 RSAQVMERGIITSAYMAVKPHGI--DSTYLAWLMRSYDLCKVFYAMG---SGLRQSLKFE 360
              +V+   ++++ +  +  +    DS ++ + +   ++ +   A+G   +    S+K  
Sbjct: 83  VK-EVVPNMLVSTGFTVISVNQELADSDFIYYCLTQREVIEHLQAIGEQSTSAYPSIKPT 141

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDV 391
           D++ L + +P + EQ +IT+V+     +I+ 
Sbjct: 142 DIENLELFLPSLNEQREITSVLRALDDKIEN 172



 Score = 43.2 bits (100), Expect = 0.088,   Method: Composition-based stats.
 Identities = 30/178 (16%), Positives = 51/178 (28%), Gaps = 10/178 (5%)

Query: 24  HWKVVPIKRFT--KLNTGRTSESGKDIIYIGLEDVESG-TGKYLPKDGNSRQSDTSTVSI 80
            WK V +       L T   SE    + Y+    +      +Y   D  + +  +     
Sbjct: 3   EWKKVKLGDICQTNLETYSLSEKWDFVNYLDTGSLTKNVVSEYQEIDLQNDKLPSRARRK 62

Query: 81  FAKGQILYGKLGPYLRKAIIADF---DGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
            +   ILY  + P      I      + + ST F V+     L +    +          
Sbjct: 63  ISVNDILYSTVRPNQEHYGIVKEVVPNMLVSTGFTVISVNQELADSDFIYYCLTQREVIE 122

Query: 138 EAICEGA----TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
                G              I N+ + +P L EQ  I   + A   +I+         
Sbjct: 123 HLQAIGEQSTSAYPSIKPTDIENLELFLPSLNEQREITSVLRALDDKIENNRKINHHL 180


>gi|294660607|ref|NP_853466.2| type I restriction-modification system specificity subunit
           domain-containing protein [Mycoplasma gallisepticum str.
           R(low)]
 gi|284812270|gb|AAP57034.2| type I restriction-modification system specificity (S) subunit
           domain protein [Mycoplasma gallisepticum str. R(low)]
 gi|284930964|gb|ADC30903.1| type I restriction-modification system specificity (S) subunit
           domain protein [Mycoplasma gallisepticum str. R(high)]
          Length = 194

 Score = 57.9 bits (138), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 22/149 (14%), Positives = 53/149 (35%), Gaps = 9/149 (6%)

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK-- 324
           K  T   G              GE V    D  N+  +     V  +  + +    ++  
Sbjct: 50  KGSTPYYGANGIQDYVKGYTHDGEFVLIAEDGANNLLNYPVQYVSGKIWVNNHAHVLQGK 109

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
            + +++ + ++ + S D+ +       G R  L    +  + + +P I+EQ     ++  
Sbjct: 110 ENILNNKFFSYSINSIDMEQYI---VGGSRSKLNATTLMDIELKIPSIQEQK----LLGN 162

Query: 385 ETARIDVLVEKIEQSIVLLKERRSSFIAA 413
               ID L+   ++    L+  + + +  
Sbjct: 163 LFYTIDNLLALHQRKCQKLQNIKEAILEK 191


>gi|329919719|ref|ZP_08276675.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus iners SPIN 1401G]
 gi|328937238|gb|EGG33664.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus iners SPIN 1401G]
          Length = 175

 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 17/168 (10%), Positives = 47/168 (27%), Gaps = 9/168 (5%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET-----YQ 284
           + W+               +   + N ++      I   +  ++       E       +
Sbjct: 2   ETWKKIRLGDACKTNMYSYSPKEKWNFVNYLDTGNITDNKIDSIQYIDVVNEKLPSRARR 61

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC- 343
            V    I++  +        +  +Q     + T   +      +      + + +     
Sbjct: 62  KVKKDSIIYSTVRPNQHHFGIIKSQPENFLVSTGFAVIDTDSQVLDADFLYYLLTQSTIV 121

Query: 344 ---KVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
                     +    S+K  D++ L + +P I  Q  I +V+     +
Sbjct: 122 ESLNAIAEQSTSAYPSIKPSDIENLEIEIPDIATQKKIADVLFSLDKK 169



 Score = 42.9 bits (99), Expect = 0.10,   Method: Composition-based stats.
 Identities = 26/173 (15%), Positives = 55/173 (31%), Gaps = 10/173 (5%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKD--IIYIGLEDVESGTGKYL-PKDGNSRQSDTSTVS 79
           + WK + +    K N    S   K   + Y+   ++       +   D  + +  +    
Sbjct: 2   ETWKKIRLGDACKTNMYSYSPKEKWNFVNYLDTGNITDNKIDSIQYIDVVNEKLPSRARR 61

Query: 80  IFAKGQILYGKLGPYLRKAIIAD---FDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
              K  I+Y  + P      I      + + ST F V+     + +    + L    T  
Sbjct: 62  KVKKDSIIYSTVRPNQHHFGIIKSQPENFLVSTGFAVIDTDSQVLDADFLYYLLTQSTIV 121

Query: 137 IEAI----CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
                      +         I N+ + IP +A Q  I + + +   ++   +
Sbjct: 122 ESLNAIAEQSTSAYPSIKPSDIENLEIEIPDIATQKKIADVLFSLDKKMAQNM 174


>gi|240146115|ref|ZP_04744716.1| restriction modification system DNA specificity domain protein
           [Roseburia intestinalis L1-82]
 gi|257201768|gb|EEV00053.1| restriction modification system DNA specificity domain protein
           [Roseburia intestinalis L1-82]
          Length = 197

 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 21/177 (11%), Positives = 55/177 (31%), Gaps = 7/177 (3%)

Query: 218 KDSGIEWVGLVPDHWEVKPFFALVTELNRK--NTKLIESNILSLSYGNIIQKLETRNMGL 275
                E    +P+ W           ++ +  +     S+   + Y       E  ++ L
Sbjct: 21  HCINEEIPFDLPEGWNFIRLKCAWELVSGRDLSPSDYNSDNTGIPYITGASNFENGHVSL 80

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
              +     +   G+++        +   +      E  I          + ++  +L+ 
Sbjct: 81  VRFTAVPQVLTYKGDLLLTCKGTIGE---IALNNFGEAHIARQIMAIRNIYNLNVEFLSL 137

Query: 336 LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            +              GL   +  ED+  L + +PP K Q +I   ++    +++ +
Sbjct: 138 CIEHA--MSEIKQAAKGLIPGISREDILNLIIPIPPEKHQKEIVRNVHDYLEKLNTI 192



 Score = 43.2 bits (100), Expect = 0.072,   Method: Composition-based stats.
 Identities = 23/163 (14%), Positives = 53/163 (32%), Gaps = 2/163 (1%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +P+ W  + +K   +L +GR                 +G   +     +  +       
Sbjct: 30  DLPEGWNFIRLKCAWELVSGRDLSPSDYNSDNTGIPYITGASNFENGHVSLVRFTAVPQV 89

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           +  KG +L    G     A+  +  G       ++  +++    ++   L I+       
Sbjct: 90  LTYKGDLLLTCKGTIGEIAL--NNFGEAHIARQIMAIRNIYNLNVEFLSLCIEHAMSEIK 147

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
                 +     + I N+ +PIPP   Q  I   +     +++
Sbjct: 148 QAAKGLIPGISREDILNLIIPIPPEKHQKEIVRNVHDYLEKLN 190


>gi|296277376|ref|ZP_06859883.1| type I restriction-modification system S subunit [Staphylococcus
           aureus subsp. aureus MR1]
          Length = 192

 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 29/166 (17%), Positives = 61/166 (36%), Gaps = 8/166 (4%)

Query: 232 WEVKPFFALVTELNRKNTKLIESNILSLSYG-NIIQKLETRNMGLKPESYETYQIVDPGE 290
           WE K    L   + RKN  L     L++S    +I + E  +  +  ++ E Y ++  GE
Sbjct: 13  WEEKQLGDLTDRVIRKNKNLESKKPLTISGQLGLIDQTEYFSKSVSSKNLENYTLIKNGE 72

Query: 291 IVFRFIDLQNDK-RSLRSAQVMERGIITSAYMAVKPHGIDSTYLA--WLMRSYDLCKVFY 347
             +           +++     + G+++S Y+        S      +   ++   +V  
Sbjct: 73  FAYNKSYSNGYPLGAIKRLTRYDSGVLSSLYICFSIKSEMSKDFMEAYFDSTHWYREVSG 132

Query: 348 AMGSGLRQ----SLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
               G R     ++   D   + +  P ++EQ  I    +    +I
Sbjct: 133 IAVEGARNHGLLNVSVNDFFTILIKYPSLEEQQKIGKFFSKLDRQI 178



 Score = 39.4 bits (90), Expect = 1.2,   Method: Composition-based stats.
 Identities = 21/169 (12%), Positives = 45/169 (26%), Gaps = 13/169 (7%)

Query: 24  HWKVVPIKRFTKLNTGRTSE-SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            W+   +   T     +      K  + I  +       +Y  K  +S+  +    ++  
Sbjct: 12  EWEEKQLGDLTDRVIRKNKNLESKKPLTISGQLGLIDQTEYFSKSVSSKNLE--NYTLIK 69

Query: 83  KGQILYGKLGPYLRKAIIAD-----FDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
            G+  Y K                   G+ S+ ++    K  + +             R 
Sbjct: 70  NGEFAYNKSYSNGYPLGAIKRLTRYDSGVLSSLYICFSIKSEMSKDFMEAYFDSTHWYRE 129

Query: 138 EAIC-----EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
            +           + +        I +  P L EQ  I +       +I
Sbjct: 130 VSGIAVEGARNHGLLNVSVNDFFTILIKYPSLEEQQKIGKFFSKLDRQI 178


>gi|213961980|ref|ZP_03390245.1| putative restriction modification system DNA specificity domain
           protein [Capnocytophaga sputigena Capno]
 gi|213955333|gb|EEB66650.1| putative restriction modification system DNA specificity domain
           protein [Capnocytophaga sputigena Capno]
          Length = 190

 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 19/148 (12%), Positives = 50/148 (33%), Gaps = 9/148 (6%)

Query: 270 TRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID 329
             +  +K +   T  ++   +I+      +      ++             + V    + 
Sbjct: 41  NVDAFVKEDEKYTKNLLLANDILLPSKGNRIFATLFQAQWGKAVASSIFYVLRVDTSIVL 100

Query: 330 STYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNV--INVET 386
            TYL  ++      +  + MG G    SL+ ++++ L + +P  + Q  I     +  + 
Sbjct: 101 PTYLVAILNLPQYQQQLWQMGGGSNIFSLRKKELEDLQIPLPSFEVQQQIATFNLLFQQK 160

Query: 387 ARIDVLVEKIEQSIVLLKERRSSFIAAA 414
             +   + K E+ +        + I   
Sbjct: 161 NILRQQIIKKERQLH------QAIIQQL 182


>gi|291556525|emb|CBL33642.1| Type I restriction-modification system methyltransferase subunit
           [Eubacterium siraeum V10Sc8a]
          Length = 535

 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 31/182 (17%), Positives = 68/182 (37%), Gaps = 6/182 (3%)

Query: 26  KVVPIKRFTKLNTGR---TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           K + +K    +  G+         ++  I + ++      Y   D    +    +  I  
Sbjct: 351 KKLRLKDAATVFRGKAVNAKAESGNVAVINISNITDTGIDYEHLDQIEEEERKVSRYILE 410

Query: 83  KGQILYGKLGPYLRKAIIADFDGIC--STQFLVLQPKDVLPELLQG-WLLSIDVTQRIEA 139
            G +L    G  ++ A+      IC  S    V++PKD+L       +L S    + +++
Sbjct: 411 DGDVLVTARGTTVKIAVFEKQPMICIPSANINVIRPKDMLRGAYLKLFLESPVGIKMLQS 470

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
           +  G  + + ++K I  + +P+ PL  Q  + E+           I         +++  
Sbjct: 471 LQRGTVVVNINYKDIIELEVPVLPLEAQDALIEEYNTGLRFYKETIAAAEEGWRGVQQGI 530

Query: 200 QA 201
           Q+
Sbjct: 531 QS 532



 Score = 44.8 bits (104), Expect = 0.027,   Method: Composition-based stats.
 Identities = 22/155 (14%), Positives = 51/155 (32%), Gaps = 6/155 (3%)

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
           K      + I   +  +     E  +   + E   +  I++ G+++            + 
Sbjct: 370 KAESGNVAVINISNITDTGIDYEHLDQIEEEERKVSRYILEDGDVLVTARGTT---VKIA 426

Query: 307 SAQVMERGIITSAYM--AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ-SLKFEDVK 363
             +      I SA +        +   YL   + S    K+  ++  G    ++ ++D+ 
Sbjct: 427 VFEKQPMICIPSANINVIRPKDMLRGAYLKLFLESPVGIKMLQSLQRGTVVVNINYKDII 486

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
            L V V P++ Q  +    N         +   E+
Sbjct: 487 ELEVPVLPLEAQDALIEEYNTGLRFYKETIAAAEE 521


>gi|210630775|ref|ZP_03296599.1| hypothetical protein COLSTE_00484 [Collinsella stercoris DSM 13279]
 gi|210160371|gb|EEA91342.1| hypothetical protein COLSTE_00484 [Collinsella stercoris DSM 13279]
          Length = 226

 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 19/182 (10%), Positives = 55/182 (30%), Gaps = 11/182 (6%)

Query: 225 VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ 284
           +G   +  +                + +    + + +G+ +    +    +  ++     
Sbjct: 34  LGDCFEFLKNNTLSRADLNDENGIARNVHYGDILIKFGDCLDGERSDLPFITDDTVLPKF 93

Query: 285 ---IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST---YLAWLMR 338
              I+  G+++F               + + +    S    +           YL   + 
Sbjct: 94  AGSILREGDVIFADTAEDEAAGKCVELRKLPKEPTISGLHTIPARPRFPFGTGYLGHYLN 153

Query: 339 SYDLCKVFYAMGSGLRQ-SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
           S    +    +  G++  S+    ++   V  P + EQ  I   ++     ID L+   +
Sbjct: 154 SDAYHRQLLPLMQGIKVISVSKAVLQDTQVRFPSLSEQSTIGATLSG----IDDLITLHQ 209

Query: 398 QS 399
           + 
Sbjct: 210 RE 211



 Score = 40.2 bits (92), Expect = 0.59,   Method: Composition-based stats.
 Identities = 26/198 (13%), Positives = 53/198 (26%), Gaps = 20/198 (10%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGK-------------DIIYIGLEDVESGTGKYLPKDGN 69
             W+   +    +     T                    I I   D   G    LP   +
Sbjct: 27  SSWEQRKLGDCFEFLKNNTLSRADLNDENGIARNVHYGDILIKFGDCLDGERSDLPFITD 86

Query: 70  SRQSDTSTVSIFAKGQILYGKL------GPYLRKAIIADFDGICSTQFLVLQPKDVLPEL 123
                    SI  +G +++         G  +    +     I     +  +P+      
Sbjct: 87  DTVLPKFAGSILREGDVIFADTAEDEAAGKCVELRKLPKEPTISGLHTIPARPRFPFGTG 146

Query: 124 LQ-GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
               +L S    +++  + +G  +       + +  +  P L+EQ  I   +      I 
Sbjct: 147 YLGHYLNSDAYHRQLLPLMQGIKVISVSKAVLQDTQVRFPSLSEQSTIGATLSGIDDLIT 206

Query: 183 TLITERIRFIELLKEKKQ 200
               E    ++  K   Q
Sbjct: 207 LHQREPPHMMKEGKNANQ 224


>gi|32476970|ref|NP_869964.1| Type I restriction enzyme EcoBI specificity protein [Rhodopirellula
           baltica SH 1]
 gi|32447518|emb|CAD79107.1| probable Type I restriction enzyme EcoBI specificity protein
           [Rhodopirellula baltica SH 1]
          Length = 385

 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 40/273 (14%), Positives = 93/273 (34%), Gaps = 22/273 (8%)

Query: 154 IGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNP 213
           +  I +P+PPL EQ  I   +             R   ++L ++  Q++   +     NP
Sbjct: 1   MEKIEIPLPPLDEQRRIAAVLDKADALRRQ----RQESLQLTEKLLQSVFEEMFG---NP 53

Query: 214 DVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNM 273
               K+  I  +G +    +       V +  +     +    L          L  + +
Sbjct: 54  RENPKNWDIVPLGELVADDDA--INYGVVQPGKDFPSGVPMIRLGDLANPDPTMLNVKRI 111

Query: 274 GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL 333
               ++      +  GE++   +        +  A+     I  +        GI + ++
Sbjct: 112 DPTIDASCARSRLAGGEVLVGCVGHTIGVACIAPAEWAGANIARAVARIRVKPGIPAEFI 171

Query: 334 AWLMRSYDLCKVFYA-MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
              +R+  +   F        + +L  + +K  P+L+PP        + +  +  +   L
Sbjct: 172 LQQIRTPAIQHFFRGERRIVGQPTLNIKQIKETPILLPP--------HKLCDQFVKFYRL 223

Query: 393 V----EKIEQSIVLLKERRSSFIAAAVTGQIDL 421
                   ++S  L++   ++    A  G++DL
Sbjct: 224 TVDGHSDKQKSTTLVEALFAAIQQRAFRGELDL 256



 Score = 45.6 bits (106), Expect = 0.015,   Method: Composition-based stats.
 Identities = 33/203 (16%), Positives = 65/203 (32%), Gaps = 16/203 (7%)

Query: 22  PKHWKVVPIKRFT----KLNTGRTSESGK---DIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           PK+W +VP+         +N G           +  I L D+ +     L         D
Sbjct: 57  PKNWDIVPLGELVADDDAINYGVVQPGKDFPSGVPMIRLGDLANPDPTMLNVKRIDPTID 116

Query: 75  TS-TVSIFAKGQILYGKLGPYLRKAIIADFDGI---CSTQFLVLQPKDVLP-ELLQGWLL 129
            S   S  A G++L G +G  +  A IA  +      +     ++ K  +P E +   + 
Sbjct: 117 ASCARSRLAGGEVLVGCVGHTIGVACIAPAEWAGANIARAVARIRVKPGIPAEFILQQIR 176

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
           +  +                + K I   P+ +PP        +             +++ 
Sbjct: 177 TPAIQHFFRGERRIVGQPTLNIKQIKETPILLPPHKLCDQFVKF----YRLTVDGHSDKQ 232

Query: 190 RFIELLKEKKQALVSYIVTKGLN 212
           +   L++    A+        L+
Sbjct: 233 KSTTLVEALFAAIQQRAFRGELD 255


>gi|78777139|ref|YP_393454.1| restriction modification system DNA specificity subunit
           [Sulfurimonas denitrificans DSM 1251]
 gi|78497679|gb|ABB44219.1| Restriction modification system DNA specificity domain
           [Sulfurimonas denitrificans DSM 1251]
          Length = 195

 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 23/177 (12%), Positives = 61/177 (34%), Gaps = 6/177 (3%)

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFI 296
                 ++++          L     + +      +  +  E  +   +V  G+I+ R  
Sbjct: 17  LNRKKADMSKDQKLYYSVVSLKSFNEDAVYDNTFADEFISNEQIKEDYLVKQGDILLR-- 74

Query: 297 DLQNDKRSLRSAQVMERGIITSAYMA--VKPHGIDSTYLAWLMRSYDLCKVFYA-MGSGL 353
            L+    ++   +  E  I  S  +   ++   +D  ++A  + S  + +     +    
Sbjct: 75  -LREPNFAVYIDKEYENLIYPSLMVRVKIQDTRLDPHFIAHYLNSTIVRRALSTELSGTT 133

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
              +K  DV ++ + +  + +Q  I   + +     ++L   I Q     KE   + 
Sbjct: 134 IPMIKVADVNKIKIPLINLDKQKKIVEYLKLAHQENELLQNLINQKQKYSKEIFETL 190



 Score = 39.0 bits (89), Expect = 1.6,   Method: Composition-based stats.
 Identities = 23/160 (14%), Positives = 46/160 (28%), Gaps = 13/160 (8%)

Query: 28  VPIKRFTKLNTGRTSESGK---------DIIYIGLEDVESGTG-KYLPKDGNSRQSDTST 77
           + +    ++ TG      K             + L+             D          
Sbjct: 3   IKLNDIAEIKTGLVLNRKKADMSKDQKLYYSVVSLKSFNEDAVYDNTFADEFISNEQIKE 62

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV---LPELLQGWLLSIDVT 134
             +  +G IL     P     I  +++ +     +V          P  +  +L S  V 
Sbjct: 63  DYLVKQGDILLRLREPNFAVYIDKEYENLIYPSLMVRVKIQDTRLDPHFIAHYLNSTIVR 122

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKI 174
           + +     G T+       +  I +P+  L +Q  I E +
Sbjct: 123 RALSTELSGTTIPMIKVADVNKIKIPLINLDKQKKIVEYL 162


>gi|257453342|ref|ZP_05618641.1| type I restriction-modification system specificity subunit
           [Fusobacterium sp. 3_1_5R]
 gi|317059873|ref|ZP_07924358.1| conserved hypothetical protein [Fusobacterium sp. 3_1_5R]
 gi|313685549|gb|EFS22384.1| conserved hypothetical protein [Fusobacterium sp. 3_1_5R]
          Length = 236

 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 40/240 (16%), Positives = 82/240 (34%), Gaps = 19/240 (7%)

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
            + L+++ QAL         NP+ K   +G     +                   K   +
Sbjct: 1   NDNLEQQAQALFKEWFID--NPEKKNWSNGTFSDLIQSTLSGDWGKEVATRNNTEKVYCI 58

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
             ++I  +  GN  +      +     S +    ++ G+IV         + + R   + 
Sbjct: 59  RGADIPEVKAGNKGKMPIRYILPKNYASKK----LNAGDIVVEISGGSPTQSTGRCTAIS 114

Query: 312 ER--------GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA--MGSGLRQSLKFED 361
           E          I T+   A+KP    S ++ +  +      VF++   G+   ++L    
Sbjct: 115 ESLLNRYDSGMICTNFCRAIKPISGYSIFIYYYWQHLYDKGVFFSYENGTTGIKNLDISG 174

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
                 +V P+KE   I    N     I   +    +    L + R + +   ++G+ID+
Sbjct: 175 FLETEPIVIPLKE--KILEF-NDYCQTIFNQIFSHGKESEYLVQLRDTLLNKLMSGEIDV 231


>gi|83721596|ref|YP_443256.1| type I restriction-modification system specificity determinant
           [Burkholderia thailandensis E264]
 gi|83655421|gb|ABC39484.1| type I restriction-modification system specificity determinant
           XF2741 [Burkholderia thailandensis E264]
          Length = 398

 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 24/142 (16%), Positives = 51/142 (35%), Gaps = 11/142 (7%)

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA-----YMAVKPHGIDS 330
             E   +      G+ +   I    +         +  G++         ++ K +  DS
Sbjct: 16  TREFTGSGTRFQNGDTLIARITPCLENGKTAYISELPEGVVAHGSTEYIVLSGKVNQSDS 75

Query: 331 TYLAWLMRSYDLCKVF--YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
            +  +L+RS D  +    +  G+  RQ +    V+R    +PP+ EQ  I  ++      
Sbjct: 76  LFGYYLVRSPDFRRHAIGHMEGTSGRQRVPSSAVERYSTRLPPLAEQRAIAKILGS---- 131

Query: 389 IDVLVEKIEQSIVLLKERRSSF 410
           +D  +E   +    L+    + 
Sbjct: 132 LDDKIELNRERSETLEAMGRAL 153



 Score = 46.3 bits (108), Expect = 0.010,   Method: Composition-based stats.
 Identities = 22/132 (16%), Positives = 44/132 (33%), Gaps = 12/132 (9%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +P+ WK++      + N   +   G+   Y+ +  + +      P       S      
Sbjct: 191 ELPEGWKLLKASELIEFNPTESLRKGEVAPYLDMASLPTQGSWPDPYVMRPFGSGMR--- 247

Query: 80  IFAKGQILYGKLGPYLRK-------AIIADFDGICSTQFLVLQPKDVLP-ELLQGWLLSI 131
            F  G  L  ++ P L          +  D  G  ST+++V++PK  +P         + 
Sbjct: 248 -FRNGDTLLARITPCLENGKTAFIQCLPDDVVGWGSTEYIVMRPKGPVPAAFAYLLARND 306

Query: 132 DVTQRIEAICEG 143
              +       G
Sbjct: 307 AFREHAIRSMTG 318



 Score = 43.6 bits (101), Expect = 0.055,   Method: Composition-based stats.
 Identities = 54/378 (14%), Positives = 124/378 (32%), Gaps = 39/378 (10%)

Query: 79  SIFAKGQILYGKLGPY---LRKAIIADFDGIC----STQFLV--LQPKDVLPELLQGWLL 129
           + F  G  L  ++ P     + A I++         ST+++V   +            + 
Sbjct: 24  TRFQNGDTLIARITPCLENGKTAYISELPEGVVAHGSTEYIVLSGKVNQSDSLFGYYLVR 83

Query: 130 SIDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
           S D  +      EG +         +      +PPLAEQ  I + + +   +I+      
Sbjct: 84  SPDFRRHAIGHMEGTSGRQRVPSSAVERYSTRLPPLAEQRAIAKILGSLDDKIELNRERS 143

Query: 189 IRFIELLKEKKQALVS-----YIVTKGLNPD--VKMKDSGIEWV--GLVPDHWEVKPFFA 239
                + +   +             +G +P    ++ D   E +    +P+ W++     
Sbjct: 144 ETLEAMGRALFKDWFVDFGPVRAKQEGRSPYLPREIWDLFPERLDTNELPEGWKLLKASE 203

Query: 240 LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQ 299
           L+     ++ +  E            Q        ++P  + +      G+ +   I   
Sbjct: 204 LIEFNPTESLRKGEVAPYLDMASLPTQGSWPDPYVMRP--FGSGMRFRNGDTLLARITPC 261

Query: 300 NDKRSLRSAQVMERGII---TSAYMAVKPHGIDSTYLAWLM-RSYDLCKVFYAMGSGL-- 353
            +       Q +   ++   ++ Y+ ++P G      A+L+ R+    +      +G   
Sbjct: 262 LENGKTAFIQCLPDDVVGWGSTEYIVMRPKGPVPAAFAYLLARNDAFREHAIRSMTGTSG 321

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI-----DVLVEKIEQSIVLLKERRS 408
           RQ  + + V    +  P         + +    A I     D +    E S+ L K  R 
Sbjct: 322 RQRAQGDAVAAYQLAAPLWD------DKLWAVLASIVSLLFDGIRSNSETSVNLAK-MRD 374

Query: 409 SFIAAAVTGQIDLRGESQ 426
           + +   + G + ++   +
Sbjct: 375 NLLPMLIAGALRVKNAER 392


>gi|313605681|gb|EFR83056.1| type I restriction-modification system specificity subunit
           [Listeria monocytogenes FSL F2-208]
          Length = 192

 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 29/184 (15%), Positives = 70/184 (38%), Gaps = 12/184 (6%)

Query: 234 VKPFFALVTELNRKNTKLIESNILSLSYGNI-IQKLETRNMGLKPESYETYQIVDPGEIV 292
            +   ++  ++ RKN +L  +  L++S  +  I + E  N  +   +   Y +V  GE  
Sbjct: 6   QRKLNSITEKITRKNKELESTLPLTISAQDGLIDQNEYFNKIIASRNIRGYFLVKNGEFA 65

Query: 293 FRFIDLQNDKRSLRSAQVMER-GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
           +     +     +         G++++ Y+  KP  I+S +L     S    +      +
Sbjct: 66  YNKSYSKGYPWGVVKRLDNYNMGVLSTLYIIFKPVKINSDFLTKYFDSTYWYRAVSQFAT 125

Query: 352 -GLRQ----SLKFEDVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
            G R     ++   D   + + +P   +EQ  I         +++ ++   +  +  L  
Sbjct: 126 EGARNHGLLNIAASDFFEIELNIPLNNEEQKKIGLF----FQQLENIIILHQNKLEKLSI 181

Query: 406 RRSS 409
            + +
Sbjct: 182 LKKT 185


>gi|320528570|ref|ZP_08029727.1| type I restriction modification DNA specificity domain protein
           [Solobacterium moorei F0204]
 gi|320131156|gb|EFW23729.1| type I restriction modification DNA specificity domain protein
           [Solobacterium moorei F0204]
          Length = 202

 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 20/150 (13%), Positives = 54/150 (36%), Gaps = 3/150 (2%)

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
           K     + +I  +S  ++ +         +  + E  +         + I + +     +
Sbjct: 49  KVISYWQGDIPWISSSDLFENNIRDINVSRYITKEAIKCSAAKLCPKKTICIVSRVGVGK 108

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLP 366
            A   E    +  +M +     +  +LA L+++               + +  +++K + 
Sbjct: 109 VAVTTEFLCTSQDFMNITHFEGNKYFLAQLIQNKIKSSQLQ---GTSIKGITSKEIKDMR 165

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKI 396
           + +P   EQ  I   +N+   RI+  ++ I
Sbjct: 166 LFIPSRAEQDKIVKFLNIIDQRIETQIKII 195



 Score = 49.0 bits (115), Expect = 0.001,   Method: Composition-based stats.
 Identities = 30/178 (16%), Positives = 57/178 (32%), Gaps = 13/178 (7%)

Query: 25  WKVVPIKRFTKLNTGRTSESG------KDIIYIGLEDVESGTGKYLP--KDGNSRQSDTS 76
           WK   +    +   G T  +        DI +I   D+     + +   +         S
Sbjct: 29  WKTYKVDNIIESCGGGTPSTKVISYWQGDIPWISSSDLFENNIRDINVSRYITKEAIKCS 88

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
              +  K  I        + K  +       S  F+         E  + +L  +   + 
Sbjct: 89  AAKLCPKKTICIVS-RVGVGKVAVTTEFLCTSQDFM----NITHFEGNKYFLAQLIQNKI 143

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             +  +G ++     K I ++ + IP  AEQ  I + +     RI+T I     +  L
Sbjct: 144 KSSQLQGTSIKGITSKEIKDMRLFIPSRAEQDKIVKFLNIIDQRIETQIKIISDYNSL 201


>gi|254304353|ref|ZP_04971711.1| site-specific DNA-methyltransferase (adenine-specific)
           [Fusobacterium nucleatum subsp. polymorphum ATCC 10953]
 gi|148324545|gb|EDK89795.1| site-specific DNA-methyltransferase (adenine-specific)
           [Fusobacterium nucleatum subsp. polymorphum ATCC 10953]
          Length = 718

 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 43/350 (12%), Positives = 93/350 (26%), Gaps = 15/350 (4%)

Query: 68  GNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW 127
            N  +     +S+     ILY      +RK  + +         + L    ++       
Sbjct: 364 INQLKEKGKGISLVKTN-ILYEPKNKNIRKYFVENGYIE---SIIYLPKNMLIDYPFPLA 419

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
           L+      +     +       +   I  I           +  + I          I +
Sbjct: 420 LIVFSKENKKIKFIDAYKFCKMEKFKIEFIDNYFKNPKISEIKEQNINIIIDTNVEKIID 479

Query: 188 RIRFIELLKEKKQALVSYIVTKGLN-----PDVKMKDSGIEWVGLVPDHWEVKPFFALVT 242
            I   + +KE     +  IV K  N         + D   ++   +     +K       
Sbjct: 480 LINNQKNIKESFSKKIEDIVEKDYNLVVTENFEILVDILKKFKNEIKFKDIIKNIVRGSQ 539

Query: 243 ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY----ETYQIVDPGEIVFRFIDL 298
           +   K     E+  + LS  +I   L                +    +    I+      
Sbjct: 540 KTISKFKSEEETQYIYLSLSDINDGLIEFKNIENYLKEVPKNQEKFFIKNNSILLSKYGS 599

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS-- 356
                  +     +     +  +        + +      S               ++  
Sbjct: 600 SPKLAISQIPDDKKVIPSGNFIIIEVDEEKLNPWYLMSYFSSGFGSEKLKETYTEAKNDT 659

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
           +    ++ + + VPPIKEQ  I         +I+ + +K++  I   KE 
Sbjct: 660 ISIRKLENIEIPVPPIKEQEKIAKEYRESLKKIEEMKKKLKNEIQNSKEI 709


>gi|289168439|ref|YP_003446708.1| restriction endonuclease S subunit [Streptococcus mitis B6]
 gi|288908006|emb|CBJ22846.1| restriction endonuclease S subunit [Streptococcus mitis B6]
          Length = 217

 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 27/190 (14%), Positives = 59/190 (31%), Gaps = 6/190 (3%)

Query: 26  KVVPIKRFTKLNTGRTSESGK---DIIYIGLEDVESGTGKYLPKDGNSRQ--SDTSTVSI 80
           +   +     +  G      K       I  ++V++G+  +      S     + +  S 
Sbjct: 16  EWKTLGEVCDVRDGTHDSPNKKAFGKYLITSKNVKNGSINFDSAYFISESDFDNINKRSK 75

Query: 81  FAKGQILYGKLGPYLRKAIIADFD-GICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
                +L+  +G     A I +          L+     +L   L  +L S      I +
Sbjct: 76  VDIDDLLFTMIGTVGEIAHITEEPDFAIKNVGLIKTQSRILARYLLHYLQSTYAKDYISS 135

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
                +        + N P+P      Q  I + +       + L     + IEL +++ 
Sbjct: 136 NSSKGSQVFLGLGKLRNFPIPYVEPKIQSRIVQVLDNFDTVCNDLNIGLPKEIELRQKQY 195

Query: 200 QALVSYIVTK 209
           +     ++T 
Sbjct: 196 EYFREKLLTF 205



 Score = 57.1 bits (136), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 22/174 (12%), Positives = 55/174 (31%), Gaps = 9/174 (5%)

Query: 239 ALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL-----KPESYETYQIVDPGEIVF 293
             V +    +          ++  N+       +          ++      VD  +++F
Sbjct: 24  CDVRDGTHDSPNKKAFGKYLITSKNVKNGSINFDSAYFISESDFDNINKRSKVDIDDLLF 83

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-G 352
             I    +   +   +  +  I     +  +   I + YL   ++S        +  S G
Sbjct: 84  TMIGTVGEIAHI--TEEPDFAIKNVGLIKTQS-RILARYLLHYLQSTYAKDYISSNSSKG 140

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
            +  L    ++  P+     K Q  I  V++      + L   + + I L +++
Sbjct: 141 SQVFLGLGKLRNFPIPYVEPKIQSRIVQVLDNFDTVCNDLNIGLPKEIELRQKQ 194


>gi|283769289|ref|ZP_06342190.1| type I restriction modification DNA specificity domain protein
           [Bulleidia extructa W1219]
 gi|283104099|gb|EFC05481.1| type I restriction modification DNA specificity domain protein
           [Bulleidia extructa W1219]
          Length = 174

 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 30/172 (17%), Positives = 59/172 (34%), Gaps = 13/172 (7%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYL---PKDGNSRQS 73
            W    I     +  G T  + K        I +I  +D+ + +G+Y+    ++      
Sbjct: 3   EWIECKISDIGTVVGGATPSTKKPENYENGTIAWITPKDLSTFSGRYIQHGERNITKTGL 62

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
            + +  +  K  +L+    P      IA  D   +  F  + P +     L  + L    
Sbjct: 63  KSCSTQLLPKNTVLFSSRAPI-GYVAIAANDVCTNQGFKSVIPNE-NTNPLFLYYLLKYN 120

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRIDTL 184
             +IE +  G T        + NI + +P     Q  I   + +   +I+  
Sbjct: 121 KDKIEGMGSGTTFKEVSGNTMKNIVVSVPTDKKVQERISSMLGSIDDKIEEN 172



 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 16/133 (12%), Positives = 43/133 (32%), Gaps = 6/133 (4%)

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
           ++     +   RN+        + Q++    ++F                          
Sbjct: 44  TFSGRYIQHGERNITKTGLKSCSTQLLPKNTVLFSSRAPIGYVAIAA-----NDVCTNQG 98

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-PIKEQFDI 378
           + +V P+   +    + +  Y+  K+         + +    +K + V VP   K Q  I
Sbjct: 99  FKSVIPNENTNPLFLYYLLKYNKDKIEGMGSGTTFKEVSGNTMKNIVVSVPTDKKVQERI 158

Query: 379 TNVINVETARIDV 391
           ++++     +I+ 
Sbjct: 159 SSMLGSIDDKIEE 171


>gi|327330732|gb|EGE72478.1| type I restriction enzyme EcoR124II specificity protein
           [Propionibacterium acnes HL097PA1]
          Length = 91

 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 11/85 (12%), Positives = 30/85 (35%), Gaps = 10/85 (11%)

Query: 335 WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL-- 392
           W+     + K+        +  L  E +K +P+ +P ++ Q  I +V++     ++ +  
Sbjct: 5   WIFHMLKVMKLSQFATKSAQPGLSVERLKSVPIPIPSLENQKRIASVLDKFDVLVNDINV 64

Query: 393 -----VEKIEQSIVLLKERRSSFIA 412
                +    +        R   + 
Sbjct: 65  GIPAEIAARRKQYEY---YRDKLLT 86


>gi|327398990|ref|YP_004339859.1| hypothetical protein Hipma_0830 [Hippea maritima DSM 10411]
 gi|327181619|gb|AEA33800.1| hypothetical protein Hipma_0830 [Hippea maritima DSM 10411]
          Length = 501

 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 40/374 (10%), Positives = 99/374 (26%), Gaps = 33/374 (8%)

Query: 35  KLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPY 94
           K    +       +  + +    +G+ +YL           ++  I  +G IL+   G  
Sbjct: 68  KFIRTKAFTPYSFLPDLSI----NGSFEYLRPKDFENAKGKNSQRIIKEGDILFVTGGNV 123

Query: 95  LRKAIIADF--DGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWK 152
               I  +   + I S+  L L   + +   +  +L   +  +          +   D  
Sbjct: 124 GEVVIADEILDNSIPSSHILKLFFDNKIKYYILAFLK-NEFCKIQSNFGPIGAIGGLDTF 182

Query: 153 GIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLN 212
               +     P   Q    E I    +    +I +        K   + +   ++     
Sbjct: 183 DKDTLLSISIPFPNQKNSDEVIEYVELLTKAIINKEKEIRRKHKLILEKIEKELLENQKP 242

Query: 213 PDVKMKDSGIEWVGLVPD-----HWEVKPFFALVTELNRKNTKLIES------------- 254
              + K   I  +  V       +     ++  + +  +     +E              
Sbjct: 243 NKFEYKLPDILEIEKVGRLDTKLYKRNFKYYEFLIQNYKGGFFYLEESDLRGGSTPKQNE 302

Query: 255 ------NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID-LQNDKRSLRS 307
                     ++   I +     N+       +   I     I+    +     +     
Sbjct: 303 RIFGKGEFTWVTPTFISKYGYLDNIEKIAIKSKKNNIKRNCLILINRGNKEDLIRGFYYD 362

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLP 366
            + +  G        ++    +  +L  L+ S         +  G     +K   +  +P
Sbjct: 363 YKDLGEGHHNQGCYRIENGNYNLIFLTALLNSQFYRNFVSNLSVGSKMPEIKISQIINIP 422

Query: 367 VLVPPIKEQFDITN 380
               P  +Q +I  
Sbjct: 423 FPNFPESKQKEIAE 436



 Score = 36.7 bits (83), Expect = 6.6,   Method: Composition-based stats.
 Identities = 18/164 (10%), Positives = 53/164 (32%), Gaps = 5/164 (3%)

Query: 245 NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
             +       + L     N   +          +   + +I+  G+I+F       +   
Sbjct: 69  FIRTKAFTPYSFLPDLSINGSFEYLRPKDFENAKGKNSQRIIKEGDILFVTGGNVGEV-- 126

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLK---FED 361
           + + ++++  I +S  + +        Y+   +++            G    L     + 
Sbjct: 127 VIADEILDNSIPSSHILKLFFDNKIKYYILAFLKNEFCKIQSNFGPIGAIGGLDTFDKDT 186

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
           +  + +  P  K   ++   + + T  I    ++I +   L+ E
Sbjct: 187 LLSISIPFPNQKNSDEVIEYVELLTKAIINKEKEIRRKHKLILE 230


>gi|325973134|ref|YP_004250198.1| type I restriction-modification system specificity subunit
           [Mycoplasma suis str. Illinois]
 gi|323651736|gb|ADX97818.1| type I restriction-modification system specificity subunit
           [Mycoplasma suis str. Illinois]
          Length = 289

 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 23/147 (15%), Positives = 51/147 (34%), Gaps = 9/147 (6%)

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
               N     +     ++  P  + F       D   L+    +   I   ++       
Sbjct: 51  DSKSNRYFNQQGVNQNKLFPPHTVCFVRCGSVGDCSILKENACLTESIYAFSFFEGIS-- 108

Query: 328 IDSTYLAWLMRSYDL-CKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
            D  ++ +      +  K+ +   +  R  L F+ ++ +    PP +EQ  I ++++   
Sbjct: 109 -DPKFIKYCFDFPKIKQKILHLSNTTTRNILSFQKLQLIKFPCPPPQEQKLIGDILSA-- 165

Query: 387 ARIDVLVEKIEQSIVLLKERRSSFIAA 413
              D L E  ++ I +L   R+  I  
Sbjct: 166 --YDELFENNKRQIEILNRVRT-LIYK 189


>gi|324990381|gb|EGC22319.1| type I restriction-modification system specificity subunit
           [Streptococcus sanguinis SK353]
          Length = 191

 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 18/108 (16%), Positives = 41/108 (37%), Gaps = 6/108 (5%)

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
             + YET   +  G++V       +   ++       + +  +         +D  Y  +
Sbjct: 50  TDKLYETSLSLVAGDVVIS---SPSRLATIVGEDNEGKFLTLNFIKVNIKGRLDKFYFLY 106

Query: 336 LMR-SYDLCKVFYA--MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
           L   S D+ +       G+G    +  + ++R+ + +P I+EQ  I  
Sbjct: 107 LFNQSRDVQRQKERELQGTGTSMRIPVKSLERIRIPLPSIEEQEKIGQ 154


>gi|298736618|ref|YP_003729144.1| type I restriction enzyme S protein [Helicobacter pylori B8]
 gi|298355808|emb|CBI66680.1| type I restriction enzyme S protein [Helicobacter pylori B8]
          Length = 368

 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 47/381 (12%), Positives = 112/381 (29%), Gaps = 53/381 (13%)

Query: 44  SGKDIIYIGLEDVESGTGK-YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD 102
           + K + Y+  +++ +     +L  D    +  +      +   I+Y  + P  R   I  
Sbjct: 25  NYKKVCYLDTDNITNNKINAFLKIDLTKEKLPSRAKRKCSINSIIYSSVRPNQRHFGIIK 84

Query: 103 F---DGICSTQFLVLQP---KDVLPELLQGWLLSIDVTQRIEAI--CEGATMSHADWKGI 154
               + + ST F+V+     + + P  L  ++   ++   ++ I  C  ++         
Sbjct: 85  EIPKNFLVSTAFIVIDVIDLEKLDPNYLYYYITQDEIIHYLQRIAECGTSSYPSITPLDF 144

Query: 155 GNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPD 214
            NI + + PL  Q  I   +     +I+                                
Sbjct: 145 LNIKIKLYPLETQQKIARTLSVLDQKIENNHKINELL----------------------- 181

Query: 215 VKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMG 274
                           H      +    +   KN KL +  I +     +++  +     
Sbjct: 182 ----------------HTLAYKIYEYYFKYKPKNAKLEQIIIENPKSNIMVKNAQKTQDK 225

Query: 275 LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
               +     +  P  I+       N   +      + +   ++    +  +   S YL 
Sbjct: 226 YPFFTSGDNILSYPKAIIDGRNCFLNTGGNAGIKFYVGKASYSTDTWCICANEF-SDYLY 284

Query: 335 WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
            L+ S               + L+   +K+ P+ +P   E        N     +  L+ 
Sbjct: 285 LLLSSIKNHINQSFFQGTSLKHLQKNLLKKYPIYMPSAHE----IKKFNQIMMPLLTLIS 340

Query: 395 KIEQSIVLLKERRSSFIAAAV 415
              ++   L++ R   +   +
Sbjct: 341 INTRTSKKLEQIRDFLLPLLL 361



 Score = 53.3 bits (126), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 20/160 (12%), Positives = 61/160 (38%), Gaps = 10/160 (6%)

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID 297
                E N K    ++++ ++ +  N   K++     L   +     I     I++  + 
Sbjct: 18  NNYTKEYNYKKVCYLDTDNITNNKINAFLKIDLTKEKLPSRAKRKCSI---NSIIYSSVR 74

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKP---HGIDSTYLAWLMRSYDLCKVFYAM---GS 351
                  +   ++ +  ++++A++ +       +D  YL + +   ++      +   G+
Sbjct: 75  PNQRHFGIIK-EIPKNFLVSTAFIVIDVIDLEKLDPNYLYYYITQDEIIHYLQRIAECGT 133

Query: 352 GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
               S+   D   + + + P++ Q  I   ++V   +I+ 
Sbjct: 134 SSYPSITPLDFLNIKIKLYPLETQQKIARTLSVLDQKIEN 173


>gi|317010711|gb|ADU84458.1| type I restriction enzyme S protein [Helicobacter pylori
           SouthAfrica7]
          Length = 375

 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 44/382 (11%), Positives = 112/382 (29%), Gaps = 53/382 (13%)

Query: 43  ESGKDIIYIGLEDVESGTGK-YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIA 101
           ++ K + Y+  +++ +     +L  D    +  +      +   I+Y  + P  R   I 
Sbjct: 24  DNYKKVCYLDTDNITNNRINTFLKIDLTKEKLPSRAKRKCSINSIIYSSVRPNQRHFGII 83

Query: 102 DF---DGICSTQFLVLQP---KDVLPELLQGWLLSIDVTQRIEAI--CEGATMSHADWKG 153
                + + ST F+V+     + + P  L  ++   ++   +  I  C  ++        
Sbjct: 84  KEIPKNFLVSTAFIVIDVIDLEKLDPNYLYYYITQDEIIHYLHRIAECGTSSYPSITPLD 143

Query: 154 IGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNP 213
             NI + + PL  Q  I   +     +I+           L                   
Sbjct: 144 FLNIKVKLYPLETQQKIARTLSILDQKIENNHKINELIQTLA------------------ 185

Query: 214 DVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNM 273
                                   +    +   KN KL +  + +     +++  +    
Sbjct: 186 ---------------------YKIYEYYFKHKPKNAKLEQIILENPKSSIMVKDAQKTQD 224

Query: 274 GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL 333
                +     +  P  ++       N   +      + +   ++    +  +   S YL
Sbjct: 225 KYPFFTSGDNILSYPKALIDGRNCFLNTGGNAGIKFYVGKASYSTDTWCICANEF-SDYL 283

Query: 334 AWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
             L+ S               + L+   +K+ P+ +P   E      ++         L+
Sbjct: 284 YLLLSSIKNHINQSFFQGTSLKHLQKNLLKKYPIYMPSKHEIKQFNEIVMPLL----TLI 339

Query: 394 EKIEQSIVLLKERRSSFIAAAV 415
               ++   L++ R   +   +
Sbjct: 340 SINTRTSKKLEQIRDFLLPLLL 361



 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 24/172 (13%), Positives = 67/172 (38%), Gaps = 11/172 (6%)

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID 297
                E N K    ++++ ++ +  N   K++     L   +     I     I++  + 
Sbjct: 18  NNYTKEDNYKKVCYLDTDNITNNRINTFLKIDLTKEKLPSRAKRKCSI---NSIIYSSVR 74

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKP---HGIDSTYLAWLMRSYDLCKVFYAM---GS 351
                  +   ++ +  ++++A++ +       +D  YL + +   ++    + +   G+
Sbjct: 75  PNQRHFGIIK-EIPKNFLVSTAFIVIDVIDLEKLDPNYLYYYITQDEIIHYLHRIAECGT 133

Query: 352 GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
               S+   D   + V + P++ Q  I   +++   +I+    KI + I  L
Sbjct: 134 SSYPSITPLDFLNIKVKLYPLETQQKIARTLSILDQKIENN-HKINELIQTL 184


>gi|327474705|gb|EGF20110.1| hypothetical protein HMPREF9391_0219 [Streptococcus sanguinis
           SK408]
          Length = 204

 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 21/131 (16%), Positives = 52/131 (39%), Gaps = 7/131 (5%)

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER---GIITSAYMAVK 324
                   +   Y        G+ +   I    +        +++    G  ++ ++ V+
Sbjct: 38  FTRDIPEFEYLEYRGGTKFRNGDTLMARITPSLENGKTSKVNLLDEDEVGFGSTEFIVVR 97

Query: 325 --PHGIDSTYLAWLMRSYDLCK--VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
              +  D  ++ +LM +  + +  +   +G+  RQ ++ + VK   +L PP+KEQ  I  
Sbjct: 98  AKENISDENFVYYLMIAPSIREVAIKSMVGTSGRQRVQLDVVKNHEILCPPLKEQIRIGK 157

Query: 381 VINVETARIDV 391
           ++     +I+ 
Sbjct: 158 ILKALDDKIEN 168



 Score = 44.4 bits (103), Expect = 0.039,   Method: Composition-based stats.
 Identities = 35/179 (19%), Positives = 65/179 (36%), Gaps = 14/179 (7%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            +WK V +    + N   T   G     I +E +E  T      +      +    + F 
Sbjct: 2   NNWKKVKLSDIIEFNPRETLSKGAIAKKIAMEKLEPFTRDIPEFEY----LEYRGGTKFR 57

Query: 83  KGQILYGKLGPYLRKAII-------ADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
            G  L  ++ P L             D  G  ST+F+V++ K+ + +    + L I  + 
Sbjct: 58  NGDTLMARITPSLENGKTSKVNLLDEDEVGFGSTEFIVVRAKENISDENFVYYLMIAPSI 117

Query: 136 R---IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
           R   I+++   +         + N  +  PPL EQ+ I + + A   +I+         
Sbjct: 118 REVAIKSMVGTSGRQRVQLDVVKNHEILCPPLKEQIRIGKILKALDDKIENNKKINHHL 176


>gi|227511533|ref|ZP_03941582.1| conserved hypothetical protein [Lactobacillus buchneri ATCC 11577]
 gi|227085178|gb|EEI20490.1| conserved hypothetical protein [Lactobacillus buchneri ATCC 11577]
          Length = 207

 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 28/203 (13%), Positives = 68/203 (33%), Gaps = 15/203 (7%)

Query: 217 MKDSGIEWVGLVPDHWEVKPFFALVTELNR----KNTKLIESNILSLSYGNIIQKLETRN 272
           M    I  +  +   WE +               K + + +     + YG +  K  ++ 
Sbjct: 1   MFYILINAINFLEVAWEQRKLGDWGYFYYGHSAPKWSVVGDGGTPCVRYGELYTKSNSKI 60

Query: 273 MGLKPESYETYQIVD--PGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
             +   +  + + +    G  V      ++       A +    +     ++V     + 
Sbjct: 61  DHIYSHTNISVKNLKLSKGTEVLIPRVGEDPLDFAHCAWLSIPNVAIGEMISVFNTKQNP 120

Query: 331 TYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
            + A+   S    +    +  G   +L +  +  +PV  P +KEQ +I       T  I+
Sbjct: 121 LFTAYSFNSMLKYEFAKRVEGGGVANLYYAYLTNIPVSFPSMKEQTEI-------TQLIE 173

Query: 391 VLVEKI-EQSIVLLKERRSSFIA 412
            L+  I       L+  +++ ++
Sbjct: 174 NLISLIAANQGKHLQ-IKNALLS 195



 Score = 43.6 bits (101), Expect = 0.062,   Method: Composition-based stats.
 Identities = 21/186 (11%), Positives = 57/186 (30%), Gaps = 8/186 (4%)

Query: 25  WKVVPIKRFTKLNTGRTSES-----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           W+   +  +     G ++             +   ++ + +   +    +        + 
Sbjct: 16  WEQRKLGDWGYFYYGHSAPKWSVVGDGGTPCVRYGELYTKSNSKIDHIYSHTNISVKNLK 75

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQF--LVLQPKDVLPELLQGWLLSIDVTQRI 137
           +    ++L  ++G          +  I +     ++         L   +  +  +    
Sbjct: 76  LSKGTEVLIPRVGEDPLDFAHCAWLSIPNVAIGEMISVFNTKQNPLFTAYSFNSMLKYEF 135

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
               EG  +++  +  + NIP+  P + EQ  I + I      I     + ++    L  
Sbjct: 136 AKRVEGGGVANLYYAYLTNIPVSFPSMKEQTEITQLIENLISLIAANQGKHLQIKNALLS 195

Query: 198 KKQALV 203
             QAL 
Sbjct: 196 -CQALF 200


>gi|77413788|ref|ZP_00789968.1| type I restriction-modification system, S subunit [Streptococcus
           agalactiae 515]
 gi|77160150|gb|EAO71281.1| type I restriction-modification system, S subunit [Streptococcus
           agalactiae 515]
          Length = 183

 Score = 57.5 bits (137), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 34/115 (29%), Positives = 56/115 (48%), Gaps = 7/115 (6%)

Query: 5   KAYPQYKD---SGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIY---IGLEDVES 58
           K Y +  D     V+    IP  W+ V ++  + L+        K   Y   + +ED+E 
Sbjct: 65  KPYEKLSDGTIKEVEVPYDIPASWEWVRLRNISSLSFFPNISGDKIPNYSWVLDMEDIEK 124

Query: 59  GTGKYLPKDGNSRQSDT-STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFL 112
            TG+ + K+  + +S   S    F+K  +LY KL P L+K II+D DG  +T+ +
Sbjct: 125 ETGRLVRKNYKTEKSSYKSNKVYFSKDTVLYAKLRPNLKKVIISDEDGFATTELI 179


>gi|265752105|ref|ZP_06087898.1| type I restriction enzyme EcoAI specificity protein [Bacteroides
           sp. 3_1_33FAA]
 gi|263236897|gb|EEZ22367.1| type I restriction enzyme EcoAI specificity protein [Bacteroides
           sp. 3_1_33FAA]
          Length = 152

 Score = 57.1 bits (136), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 25/151 (16%), Positives = 50/151 (33%), Gaps = 5/151 (3%)

Query: 244 LNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKR 303
           +           I S++ G   + +ET N                  +      +   K 
Sbjct: 1   MPEGWAICKMKQITSITNGKSQKNVETLNGIYPIYGSGGVIGRANQYLCIAGSTIIGRKG 60

Query: 304 SLRSAQVMERGIIT--SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFED 361
           ++ +   +E       +A+       I   YL +   S+D  K+     S    SL    
Sbjct: 61  TINNPIFVEEHFWNVDTAFGLKANDAILDKYLYYFCLSFDFSKL---DKSTAMPSLTKTS 117

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVL 392
           +  + + +PP KEQ  I   I++    ++ +
Sbjct: 118 IGNVLIPIPPYKEQERIVAKIDMVLDTMNEI 148



 Score = 57.1 bits (136), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 34/162 (20%), Positives = 61/162 (37%), Gaps = 16/162 (9%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           P+ W +  +K+ T +  G++ +           +VE+  G Y P  G+      +   + 
Sbjct: 2   PEGWAICKMKQITSITNGKSQK-----------NVETLNGIY-PIYGSGGVIGRANQYLC 49

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
             G  + G+ G       + +      T F +     +L + L  + LS D       + 
Sbjct: 50  IAGSTIIGRKGTINNPIFVEEHFWNVDTAFGLKANDAILDKYLYYFCLSFDF----SKLD 105

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           +   M       IGN+ +PIPP  EQ  I  KI      ++ 
Sbjct: 106 KSTAMPSLTKTSIGNVLIPIPPYKEQERIVAKIDMVLDTMNE 147


>gi|126173061|ref|YP_001049210.1| restriction modification system DNA specificity subunit [Shewanella
           baltica OS155]
 gi|125996266|gb|ABN60341.1| restriction modification system DNA specificity domain [Shewanella
           baltica OS155]
          Length = 267

 Score = 57.1 bits (136), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 22/157 (14%), Positives = 56/157 (35%), Gaps = 13/157 (8%)

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT-----SAY 320
            K  + +  +   S+     +   +I+    DL N K   ++  V E    T        
Sbjct: 106 SKFISTDGLVAKYSHSQICPLFKDDILLVMSDLPNGKALSKTFIVDEDERYTLNQRIGGI 165

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDIT 379
                  +   +L + +             +G+ + +L+   +  + V + P+++Q  I 
Sbjct: 166 TVKDKSEMLPKFLHYYLNRTP---QLLKHDNGVDQTNLRKGQILEVKVPILPLQKQEHIV 222

Query: 380 NVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           ++++        L E + + I L ++     R   ++
Sbjct: 223 SILDKFDKLTKSLSEGLPREIELRQKQYEYYRDLLLS 259



 Score = 43.2 bits (100), Expect = 0.074,   Method: Composition-based stats.
 Identities = 31/194 (15%), Positives = 59/194 (30%), Gaps = 31/194 (15%)

Query: 5   KAYPQYKD-------SGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESG--KDIIYIGLED 55
           K Y  Y+D         V+W            ++       G+  E    +D  +I +  
Sbjct: 57  KQYNYYRDQLLSFEECDVEW----------KTLEEVAHFANGKGHEKDISEDGKFIVV-- 104

Query: 56  VESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRK------AIIADFDGICST 109
                 K++  DG   +   S +    K  IL         K       +  D     + 
Sbjct: 105 ----NSKFISTDGLVAKYSHSQICPLFKDDILLVMSDLPNGKALSKTFIVDEDERYTLNQ 160

Query: 110 QFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVL 169
           +   +  KD    L +     ++ T ++     G   ++     I  + +PI PL +Q  
Sbjct: 161 RIGGITVKDKSEMLPKFLHYYLNRTPQLLKHDNGVDQTNLRKGQILEVKVPILPLQKQEH 220

Query: 170 IREKIIAETVRIDT 183
           I   +        +
Sbjct: 221 IVSILDKFDKLTKS 234


>gi|313149744|ref|ZP_07811937.1| conserved hypothetical protein [Bacteroides fragilis 3_1_12]
 gi|313138511|gb|EFR55871.1| conserved hypothetical protein [Bacteroides fragilis 3_1_12]
          Length = 385

 Score = 57.1 bits (136), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 45/389 (11%), Positives = 109/389 (28%), Gaps = 37/389 (9%)

Query: 29  PIKRFTKL-NTGRTSE--SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
            ++    + + G T +      ++ I    +     +      ++ +       I   G 
Sbjct: 10  TLESVCPIMSKGITPKYVESSSVLVINQACIHWDGQRLGNIKYHNEEIPVRK-RILESGD 68

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           +L    G           +G      + + P D    +  G ++++   + +       T
Sbjct: 69  VLLNATG-----------NGTLGRCCVFICPSDNNTYINDGHVIALSTDRAVILPEVLNT 117

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETV----RIDTLITERIRFIELLKEKKQA 201
               +          +     QV I    I +       +D  I       +  K K   
Sbjct: 118 YLSLNDTQAEIYRQYVTGSTNQVDIVFSDIKKMKVPVPSMDEQILFVEVLKQADKSKFGD 177

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
             S  +    NP    + + ++ +G             +      K + +    +    Y
Sbjct: 178 FKSQFIEMFGNPLSLNQKNELKRLGEC--CILNPRRPNIALCDTDKVSFIPMPAVSEDGY 235

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS--- 318
              +   E   +       + +   +  +++F  I    +         +  GI      
Sbjct: 236 LVDMTDEEYGKVK------KGFTYFENNDVLFAKITPCMENGKGAIVHGLTNGIGMGSTE 289

Query: 319 -AYMAVKPHGIDSTYLAWLMRSYDLCKV--FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
              + +        +L  L R     +       G+G ++ +    +    V +P I+EQ
Sbjct: 290 FHVLRLINGISSPYWLLALTRMPIFRERAAKNMSGTGGQKRVSASYLDHFMVGLPAIEEQ 349

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLK 404
                       + D     I++++V L 
Sbjct: 350 RRF----EAIYKQADKSKSVIQKALVYLN 374


>gi|239620849|ref|ZP_04663880.1| restriction modification system DNA specificity domain-containing
           protein [Bifidobacterium longum subsp. infantis CCUG
           52486]
 gi|239516246|gb|EEQ56113.1| restriction modification system DNA specificity domain-containing
           protein [Bifidobacterium longum subsp. infantis CCUG
           52486]
          Length = 182

 Score = 57.1 bits (136), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 23/167 (13%), Positives = 56/167 (33%), Gaps = 10/167 (5%)

Query: 25  WKVVPIKRFTK-LNTGRT---SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT--STV 78
           W+   +       + G     +E      Y+ + D++  T ++   D  +  +D   S  
Sbjct: 10  WEQRKLGDVASSFDYGLNAAATEYDGQNKYLRITDIDDETHEFSKSDLTTPLADLAMSAD 69

Query: 79  SIFAKGQILYGKLGP-YLRKAIIADFDGICSTQ---FLVLQPKDVLPELLQGWLLSIDVT 134
            +  +G +L+ + G    +  +   FDG+             +   PE      L+    
Sbjct: 70  YLLKEGDLLFARTGASVGKTYLYRQFDGMVYFAGFLIRARIGEGADPEFAYQATLTDAYK 129

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
           + +    + +     + +   +  + +P   EQ  I   + +    I
Sbjct: 130 KYVAINSQRSGQPGVNAQEYADYQLMLPSKTEQQQIGMTLRSLDDLI 176



 Score = 55.2 bits (131), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/120 (11%), Positives = 33/120 (27%), Gaps = 5/120 (4%)

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY 340
               ++  G+++F        K  L                A    G D  +      + 
Sbjct: 67  SADYLLKEGDLLFARTGASVGKTYLYRQFDGMVYFAGFLIRARIGEGADPEFAYQATLTD 126

Query: 341 DLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
              K          +  +  ++     +++P   EQ  I   +      +D L+   ++ 
Sbjct: 127 AYKKYVAINSQRSGQPGVNAQEYADYQLMLPSKTEQQQIGMTL----RSLDDLITLHQRK 182


>gi|116629556|ref|YP_814728.1| restriction endonuclease S subunit [Lactobacillus gasseri ATCC
           33323]
 gi|116095138|gb|ABJ60290.1| Restriction endonuclease S subunit [Lactobacillus gasseri ATCC
           33323]
          Length = 363

 Score = 57.1 bits (136), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 30/293 (10%), Positives = 81/293 (27%), Gaps = 15/293 (5%)

Query: 106 ICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLA 165
              T F +      + +          +   ++      T  +  +K +  I +  P   
Sbjct: 69  YVDTPFFLGADGVKVLKCTDKNANYRYLYYALKNAHIPNTGYNRHFKWLKEITINYPDKN 128

Query: 166 EQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWV 225
            Q  I   +     +++ +I  + + ++   E  +A    +     +   K K S IE  
Sbjct: 129 RQNDIVNILD----KLEYIIKMKSQELDKFDELIKARFVEMFGDPQDSKSKWKKSTIEK- 183

Query: 226 GLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI 285
                          +          I    +            T +     +      I
Sbjct: 184 ------CCTLKSGKTLPRNIENEGGNIPYVKVKDMNSLENTTYITTSTRFVSDKTANKSI 237

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV 345
              G ++F               ++ +  I     +             +L   +++  +
Sbjct: 238 FPVGTVIFPKRGG---AIGTNKKRLTKVPICADLNIMGVIPDNTRISSYYLFEYFNMVDL 294

Query: 346 FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET-ARIDVLVEKIE 397
                      +  +D+  L + +PP+  Q +  N ++    ++ + +V   +
Sbjct: 295 NTLNNGSSVPQINNKDINPLNINIPPLSLQNEFANFVHQVDKSKFENIVYLNK 347



 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 29/169 (17%), Positives = 58/169 (34%), Gaps = 6/169 (3%)

Query: 25  WKVVPIKRFTKLNTGRTSES-----GKDIIYIGLEDVES-GTGKYLPKDGNSRQSDTSTV 78
           WK   I++   L +G+T        G +I Y+ ++D+ S     Y+          T+  
Sbjct: 176 WKKSTIEKCCTLKSGKTLPRNIENEGGNIPYVKVKDMNSLENTTYITTSTRFVSDKTANK 235

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           SIF  G +++ K G  +                 ++        +   +L        + 
Sbjct: 236 SIFPVGTVIFPKRGGAIGTNKKRLTKVPICADLNIMGVIPDNTRISSYYLFEYFNMVDLN 295

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
            +  G+++   + K I  + + IPPL+ Q      +          I  
Sbjct: 296 TLNNGSSVPQINNKDINPLNINIPPLSLQNEFANFVHQVDKSKFENIVY 344


>gi|319778993|ref|YP_004129906.1| Type I restriction-modification system, specificity subunit S
           [Taylorella equigenitalis MCE9]
 gi|317109017|gb|ADU91763.1| Type I restriction-modification system, specificity subunit S
           [Taylorella equigenitalis MCE9]
          Length = 185

 Score = 57.1 bits (136), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 16/159 (10%), Positives = 52/159 (32%), Gaps = 17/159 (10%)

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
                         Y  +  V+P  +V        +          +  +  ++ +    
Sbjct: 36  NGFPVFGGNGIIGKYTDFLYVEPQLLVSCRGAASGNII----ESYPKSFVTNNSLVLEWK 91

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
                 +    + +  L   F       +  +  ++++ +P+ +P       I + I+  
Sbjct: 92  DYRYYEFYKQFLFANPL---FSYSTGSAQPQITIDNIRDVPIPLP-------IFDDISNL 141

Query: 386 TARIDVLVEK-IEQSIV--LLKERRSSFIAAAVTGQIDL 421
           TA +  +     ++++    L   R + +   ++G++D+
Sbjct: 142 TANLKSISALRYQKTVENSKLALLRDTLLPKLMSGELDV 180


>gi|255021986|ref|ZP_05293994.1| restriction modification system DNA specificity domain
           [Acidithiobacillus caldus ATCC 51756]
 gi|254968622|gb|EET26176.1| restriction modification system DNA specificity domain
           [Acidithiobacillus caldus ATCC 51756]
          Length = 408

 Score = 57.1 bits (136), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 31/120 (25%), Positives = 52/120 (43%), Gaps = 8/120 (6%)

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP--HGIDSTYLAWLMRSYDLCK 344
            PG++VF  ID +N    L  + +  + ++TS Y    P    +   YL  L+R+     
Sbjct: 38  YPGDLVFSKIDARNGAVGLIPSSIP-KAVVTSEYPVFTPRADKLRPAYLHHLLRADHFKG 96

Query: 345 VFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQF-DITNVINVET--ARIDVLVEKIEQS 399
                 SG   R+ +  E    L + VP + EQ   IT   +  T   +++   E IE++
Sbjct: 97  ELQRKASGTSGRKRVTPEGFLSLEIPVPSLAEQDVLITAYADALTRAEQLEREAEAIERA 156



 Score = 54.0 bits (128), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 48/393 (12%), Positives = 113/393 (28%), Gaps = 43/393 (10%)

Query: 53  LEDVESGTGKYLPKDGNSRQSDTSTVSIF--AKGQILYGKLGPYLRKAIIAD---FDGIC 107
           L D +S T K+  +     +++    S+F    G +++ K+        +        + 
Sbjct: 7   LGDWQSITIKFSGEVLPRERAEAFKGSMFAAYPGDLVFSKIDARNGAVGLIPSSIPKAVV 66

Query: 108 STQFLVLQPKDVL--PELLQGWLLSIDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPL 164
           ++++ V  P+     P  L   L +      ++    G +       +G  ++ +P+P L
Sbjct: 67  TSEYPVFTPRADKLRPAYLHHLLRADHFKGELQRKASGTSGRKRVTPEGFLSLEIPVPSL 126

Query: 165 AEQVL-IREKIIAETVRIDTLITERIRFIELLKEKKQAL--------------VSYIVTK 209
           AEQ + I     A T                    + AL              V+     
Sbjct: 127 AEQDVLITAYADALTRAEQLEREAEAIERAGWLAFETALGVAPPPPLPDRPVFVARFKDV 186

Query: 210 GLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR----KNTKLIESNILSLSYGNII 265
            L     M  + +   G+      +     +             +        L   N+ 
Sbjct: 187 ELWSHEGMLRATVGDQGVRVATCPIVELGTVAAVSYGLQKSPTNRPGTHARPYLRVANVQ 246

Query: 266 QKLETRNMGLK---PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME--RGIITSAY 320
           +     +       P++      ++ G+I+F   +    +    +    E    +  +  
Sbjct: 247 RGRLILDKIKTINVPDADMASLRLEVGDILFVEGNGSRAELGRVALWNGEITDCVHQNHI 306

Query: 321 MAVKPHGID--STYLAWLMRSYDLCKVFYAMGSGLRQ--SLKFEDVKRLPVLVPPIKEQF 376
           +  +P        +      S      F+  G       ++    ++  P+ +P I  Q 
Sbjct: 307 IKARPQQSLLLPEFAMAWFNSEAGRDHFFKSGKTTSGLGTINSSVIRTAPIPLPSIAVQK 366

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
            + + ++             +         R S
Sbjct: 367 ALISELSAAD-------TSAQAKRSEAATLRQS 392


>gi|319777320|ref|YP_004136971.1| type i restriction-modification system, s subunit [Mycoplasma
           fermentans M64]
 gi|318038395|gb|ADV34594.1| Type I restriction-modification system, S subunit [Mycoplasma
           fermentans M64]
          Length = 325

 Score = 57.1 bits (136), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 30/181 (16%), Positives = 57/181 (31%), Gaps = 7/181 (3%)

Query: 216 KMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES-------NILSLSYGNIIQKL 268
            +KD   E    +P++W       +         K  E         IL +S  +     
Sbjct: 78  NIKDITEELPFEIPENWMWVRLKNISIINGGFAFKSSEFVSKENGIRILRISDFDERGLK 137

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
               +  K ES      ++   IV         K  L      +  +          + +
Sbjct: 138 NNNIVYYKYESKMFDYFLNNKNIVICMTGGTVGKSLLIKELKEKILVNQRVGNIKILNEM 197

Query: 329 DSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
              Y+  +M+S  + K+     +    ++  E +K   + VP I+EQ  I    N    +
Sbjct: 198 LPDYVDIVMKSELISKIIRKNKNSTNDNISIELIKLFFIPVPSIEEQLKIIVKYNKLLTQ 257

Query: 389 I 389
           +
Sbjct: 258 L 258



 Score = 49.8 bits (117), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 28/202 (13%), Positives = 73/202 (36%), Gaps = 10/202 (4%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQS 73
            IP++W  V +K  + +N G   +S +       I  + + D +    K         +S
Sbjct: 89  EIPENWMWVRLKNISIINGGFAFKSSEFVSKENGIRILRISDFDERGLKNNNIVYYKYES 148

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIA---DFDGICSTQFLVLQPKDVLPELLQGWLLS 130
                 +  K  I+    G  + K+++        + + +   ++  + +       ++ 
Sbjct: 149 KMFDYFLNNKN-IVICMTGGTVGKSLLIKELKEKILVNQRVGNIKILNEMLPDYVDIVMK 207

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
            ++  +I    + +T  +   + I    +P+P + EQ+ I  K      ++       + 
Sbjct: 208 SELISKIIRKNKNSTNDNISIELIKLFFIPVPSIEEQLKIIVKYNKLLTQLTLYKNIFLY 267

Query: 191 FIELLKEKKQALVSYIVTKGLN 212
              L        + ++V K ++
Sbjct: 268 IFPLYIPVNIWYLRFLVNKTIH 289


>gi|238809497|dbj|BAH69287.1| hypothetical protein [Mycoplasma fermentans PG18]
          Length = 325

 Score = 57.1 bits (136), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 30/181 (16%), Positives = 57/181 (31%), Gaps = 7/181 (3%)

Query: 216 KMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES-------NILSLSYGNIIQKL 268
            +KD   E    +P++W       +         K  E         IL +S  +     
Sbjct: 78  NIKDITEELPFEIPENWMWVRLKNISIINGGFAFKSSEFVSKENGIRILRISDFDERGLK 137

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
               +  K ES      ++   IV         K  L      +  +          + +
Sbjct: 138 NNNIVYYKYESKMFDYFLNNKNIVICMTGGTVGKSLLIKELKEKILVNQRVGNIKILNEM 197

Query: 329 DSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
              Y+  +M+S  + K+     +    ++  E +K   + VP I+EQ  I    N    +
Sbjct: 198 LPDYVDIVMKSELISKIIRKNKNSTNDNISIELIKLFFIPVPSIEEQLKIIVKYNKLLTQ 257

Query: 389 I 389
           +
Sbjct: 258 L 258



 Score = 49.0 bits (115), Expect = 0.001,   Method: Composition-based stats.
 Identities = 28/202 (13%), Positives = 72/202 (35%), Gaps = 10/202 (4%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQS 73
            IP++W  V +K  + +N G   +S +       I  + + D +    K         +S
Sbjct: 89  EIPENWMWVRLKNISIINGGFAFKSSEFVSKENGIRILRISDFDERGLKNNNIVYYKYES 148

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIA---DFDGICSTQFLVLQPKDVLPELLQGWLLS 130
                 +  K  I+    G  + K+++        + + +   ++  + +       ++ 
Sbjct: 149 KMFDYFLNNKN-IVICMTGGTVGKSLLIKELKEKILVNQRVGNIKILNEMLPDYVDIVMK 207

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
            ++  +I    + +T  +   + I    +P+P + EQ+ I  K      ++         
Sbjct: 208 SELISKIIRKNKNSTNDNISIELIKLFFIPVPSIEEQLKIIVKYNKLLTQLTLYKNIFPY 267

Query: 191 FIELLKEKKQALVSYIVTKGLN 212
              L        + ++V K ++
Sbjct: 268 IFLLYIPVNIWYLRFLVNKTIH 289


>gi|324990382|gb|EGC22320.1| hypothetical protein HMPREF9388_1537 [Streptococcus sanguinis
           SK353]
          Length = 188

 Score = 57.1 bits (136), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 22/145 (15%), Positives = 52/145 (35%), Gaps = 12/145 (8%)

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
           + +G   +        L  E  + Y+     +IV+   +L   K    +         + 
Sbjct: 50  VEHGVTPKTERYNREFLVREETKKYKYTKYNDIVYNPANL---KFGAIARNKYGEAFFSP 106

Query: 319 AYMAVKPHGID--STYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIK 373
            Y+  + +  +    ++  ++ S D  +       G    R ++K +D  +L + +P   
Sbjct: 107 IYVTFEANYSNVLPEFIEKILTSNDFIQKALKFQEGTVYERMAVKADDFLKLVIKLPTPP 166

Query: 374 EQFDITNVINVETARIDVLVEKIEQ 398
           EQ  I +        +D L+   ++
Sbjct: 167 EQRAIGSF----FQELDQLITLQQR 187



 Score = 39.4 bits (90), Expect = 1.0,   Method: Composition-based stats.
 Identities = 20/163 (12%), Positives = 44/163 (26%), Gaps = 7/163 (4%)

Query: 25  WKVVPIKRFTKLNTGR-TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           W+   +         +    +   ++   +E   +   +   ++   R  +T        
Sbjct: 21  WEQRKLGEVLSERNIQEVPTAQIPLVSFTVEHGVTPKTERYNREFLVR-EETKKYKYTKY 79

Query: 84  GQILYGKLGPYLRKAIIADF-DGICSTQFLVLQPKDVL--PELLQGWLLSIDVTQRIEAI 140
             I+Y              + +   S  ++  +       PE ++  L S D  Q+    
Sbjct: 80  NDIVYNPANLKFGAIARNKYGEAFFSPIYVTFEANYSNVLPEFIEKILTSNDFIQKALKF 139

Query: 141 CEG--ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
            EG               + + +P   EQ  I          I
Sbjct: 140 QEGTVYERMAVKADDFLKLVIKLPTPPEQRAIGSFFQELDQLI 182


>gi|325690780|gb|EGD32781.1| hypothetical protein HMPREF9382_0226 [Streptococcus sanguinis
           SK115]
          Length = 178

 Score = 57.1 bits (136), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 20/131 (15%), Positives = 53/131 (40%), Gaps = 7/131 (5%)

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER---GIITSAYMAVK 324
                   +   +        G+ +   I    +        +++    G  ++ ++ V+
Sbjct: 38  FTRDIPEFEYLEFRGGTKFRNGDTLMARITPSLENGKTSKVNLLDEDEVGFGSTEFIVVR 97

Query: 325 --PHGIDSTYLAWLMRSYDLCK--VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
              +  D  ++ +LM + ++ +  +   +G+  RQ ++ + VK   +L PP+KEQ  I  
Sbjct: 98  AKENISDENFVYYLMIAPNIREVAIKSMVGTSGRQRVQLDVVKNHEILCPPLKEQIRIGK 157

Query: 381 VINVETARIDV 391
           ++     +I+ 
Sbjct: 158 ILKALDDKIEN 168



 Score = 44.0 bits (102), Expect = 0.046,   Method: Composition-based stats.
 Identities = 35/179 (19%), Positives = 64/179 (35%), Gaps = 14/179 (7%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            +WK V +    + N   T   G     I +E +E  T      +      +    + F 
Sbjct: 2   NNWKKVKLSDIIEFNPRETLSKGAIAKKIAMEKLEPFTRDIPEFEY----LEFRGGTKFR 57

Query: 83  KGQILYGKLGPYLRKAII-------ADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
            G  L  ++ P L             D  G  ST+F+V++ K+ + +    + L I    
Sbjct: 58  NGDTLMARITPSLENGKTSKVNLLDEDEVGFGSTEFIVVRAKENISDENFVYYLMIAPNI 117

Query: 136 R---IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
           R   I+++   +         + N  +  PPL EQ+ I + + A   +I+         
Sbjct: 118 REVAIKSMVGTSGRQRVQLDVVKNHEILCPPLKEQIRIGKILKALDDKIENNKKINHHL 176


>gi|324016949|gb|EGB86168.1| type I restriction modification DNA specificity domain protein
           [Escherichia coli MS 117-3]
          Length = 484

 Score = 57.1 bits (136), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 31/171 (18%), Positives = 55/171 (32%), Gaps = 10/171 (5%)

Query: 242 TELNRKNTKLIESNILSLSYGNIIQK----LETRNMGLKPESYETYQIVDPGEIVFRFID 297
                K+ K  E  +  +   N         +   +    +     Q +  G+IV     
Sbjct: 55  PIQQGKSPKYAEKGLKCIKPKNTNDMLVSIDDIDWIDSSTKDQIQKQKLAYGDIVITRSG 114

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA--MGSGLRQ 355
                R+       E          V+P   DS Y+   + S+   ++  A   GS  + 
Sbjct: 115 SGTIGRA-SIYCYSEEAYTNDHLFVVRPDKADSHYICSFLNSFHGQRLLEAGVSGSTGQL 173

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVI---NVETARIDVLVEKIEQSIVLL 403
           +L  E +K +P+  P  K Q  I + +       A    L    ++ I  L
Sbjct: 174 NLSNEHIKSIPLFRPEHKAQKYIGDKVRQAEQLRAWAKRLEGMADRKIKDL 224



 Score = 54.4 bits (129), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 41/383 (10%), Positives = 101/383 (26%), Gaps = 25/383 (6%)

Query: 36  LNTGRTSE-SGKDIIYIGLED-----VESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYG 89
           +  G++ + + K +  I  ++     V      ++         D       A G I+  
Sbjct: 56  IQQGKSPKYAEKGLKCIKPKNTNDMLVSIDDIDWIDSSTK----DQIQKQKLAYGDIVIT 111

Query: 90  K--LGPYLRKAIIA-DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT- 145
           +   G   R +I     +   +    V++P       +  +L S    + +EA   G+T 
Sbjct: 112 RSGSGTIGRASIYCYSEEAYTNDHLFVVRPDKADSHYICSFLNSFHGQRLLEAGVSGSTG 171

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
             +   + I +IP+  P    Q  I +K+                    +K+     +  
Sbjct: 172 QLNLSNEHIKSIPLFRPEHKAQKYIGDKVRQAEQLRAWAKRLEGMADRKIKDLFHFNLVD 231

Query: 206 IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII 265
            +T       +   S +                         N          +     +
Sbjct: 232 SLTLKPRRMKQQVLSAVSLAPEF--ARAADSQMTFRNSSKLSNFISKCKCGDPIKSEERV 289

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
                      P    T    +   ++              +    +       ++    
Sbjct: 290 PGPYFYYGASGPIDTHTEFNFNGKYLIIAQDGS----IGCANVADGKFWANNHVWVLKVK 345

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
              D   +   +  +  C         +   +  E++  + + +  I +  +I + + + 
Sbjct: 346 DEYDIESICRFLDKHFPCWK-GVTTGSVVPKVTSENLLNILIPI-DIAKNREIGSKLRLA 403

Query: 386 T---ARIDVLVEKIEQSIVLLKE 405
               A    L    +  +  L E
Sbjct: 404 VTTAAYAKKLTASAKTLVESLIE 426


>gi|328947980|ref|YP_004365317.1| restriction modification system DNA specificity domain protein
           [Treponema succinifaciens DSM 2489]
 gi|328448304|gb|AEB14020.1| restriction modification system DNA specificity domain protein
           [Treponema succinifaciens DSM 2489]
          Length = 162

 Score = 57.1 bits (136), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 34/173 (19%), Positives = 62/173 (35%), Gaps = 18/173 (10%)

Query: 13  SGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           S + W  ++P +W +        +  G+               VE+  GKY P  G+   
Sbjct: 4   SELDW--SLPNNWCLCHFGDIATVINGKNQSK-----------VENPDGKY-PIYGSGGI 49

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
              +   I      + G+ G       + +      T F +   + VLP+ L  +    D
Sbjct: 50  MGRADDFICPANCTIIGRKGSINNPIFVEEKFWNVDTAFGLCPSEAVLPKFLYYFCEYFD 109

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
            T     +    T+       I  I + +PP+ EQ  I +KI+     +D ++
Sbjct: 110 FT----TLDSSTTLPSLTKTNIQQIVLALPPIDEQKRILDKIVELFGILDEIV 158



 Score = 56.7 bits (135), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 22/155 (14%), Positives = 52/155 (33%), Gaps = 7/155 (4%)

Query: 243 ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK 302
           + +  N   +       +  N   + +  N   K   Y +  I+   +      +     
Sbjct: 7   DWSLPNNWCLCHFGDIATVINGKNQSKVENPDGKYPIYGSGGIMGRADDFICPANCTIIG 66

Query: 303 RSLRSAQVM----ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLK 358
           R       +    +   + +A+       +   +L +    +D   +     S    SL 
Sbjct: 67  RKGSINNPIFVEEKFWNVDTAFGLCPSEAVLPKFLYYFCEYFDFTTL---DSSTTLPSLT 123

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
             +++++ + +PPI EQ  I + I      +D +V
Sbjct: 124 KTNIQQIVLALPPIDEQKRILDKIVELFGILDEIV 158


>gi|325680230|ref|ZP_08159792.1| hypothetical protein CUS_5093 [Ruminococcus albus 8]
 gi|324108047|gb|EGC02301.1| hypothetical protein CUS_5093 [Ruminococcus albus 8]
          Length = 184

 Score = 57.1 bits (136), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 35/180 (19%), Positives = 69/180 (38%), Gaps = 15/180 (8%)

Query: 232 WEVKPFFALVTELNRKNTKLIESNILSLS-YGNIIQKLETRNMGLKPESYETYQIVDPGE 290
           WE +    +V  + RKN  L     L++S    +I + E  +  +       Y ++  GE
Sbjct: 9   WEQRKLSDMVERVTRKNENLESELPLTISAQYGLIDQNEFFDKRIASRDVSGYYLLKKGE 68

Query: 291 IVFRF-IDLQNDKRSLRSAQVMERGIITSAYMAVKPH---GIDSTYLAWLMRSYDLCKVF 346
             +           +++     E G++++ Y+         IDS +L     +    K  
Sbjct: 69  FAYNKSTSSDAPWGAVKRLDRYEMGVLSTLYIVFALKEDGNIDSDFLVSYYDTDCWHKGV 128

Query: 347 YAMGS-GLRQ----SLKFEDVKRLPVLVPP-IKEQFDITNVINVETARIDVLVEKIEQSI 400
            A+ + G R     ++   D     + VP  +KEQ  I        A++D L+   ++ +
Sbjct: 129 QAIAAEGARNHGLLNITPADYFETVLTVPSDVKEQHQIGTF----FAKLDTLITLHQREL 184



 Score = 44.8 bits (104), Expect = 0.024,   Method: Composition-based stats.
 Identities = 25/172 (14%), Positives = 51/172 (29%), Gaps = 16/172 (9%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIY-IGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            W+   +    +  T +      ++   I  +       ++  K   SR  D S   +  
Sbjct: 8   SWEQRKLSDMVERVTRKNENLESELPLTISAQYGLIDQNEFFDKRIASR--DVSGYYLLK 65

Query: 83  KGQILYGKLGPYLRKAIIAD-----FDGICSTQFLVLQPK---DVLPELLQGWLLSIDVT 134
           KG+  Y K                   G+ ST ++V   K   ++  + L  +  +    
Sbjct: 66  KGEFAYNKSTSSDAPWGAVKRLDRYEMGVLSTLYIVFALKEDGNIDSDFLVSYYDTDCWH 125

Query: 135 QRIEAICEGATMSH--ADWKGIGNIPMPIP---PLAEQVLIREKIIAETVRI 181
           + ++AI      +H   +          +     + EQ  I          I
Sbjct: 126 KGVQAIAAEGARNHGLLNITPADYFETVLTVPSDVKEQHQIGTFFAKLDTLI 177


>gi|269115296|ref|YP_003303059.1| Type I restriction enzyme specificity protein [Mycoplasma hominis]
 gi|268322921|emb|CAX37656.1| Type I restriction enzyme specificity protein [Mycoplasma hominis
           ATCC 23114]
          Length = 393

 Score = 57.1 bits (136), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 38/336 (11%), Positives = 95/336 (28%), Gaps = 20/336 (5%)

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            +  I   + G               +    V+  K  +  +   +         ++   
Sbjct: 62  NEHSIAISRAGS-AGSVKWVSQKYWATDVCFVVSEKYEVANIKFLYHFLKLRENELKKHI 120

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            G  +   D + + N+ +P+PPL  Q  I   +   T     L TE     +     +  
Sbjct: 121 YGGNLPKLDKQYLWNLKIPLPPLEIQNQIVNILDKFTELTTELTTELTYRDKQYNYYRNK 180

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
           L+ +   K L          ++ +     +      +  + E+  KN+       L  S 
Sbjct: 181 LLDFDNNKEL----------LKKIMNNQQYSNNIVEYKKLEEVTLKNSFKQVDAELLSSL 230

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
                +++        + + + + VD   + +  +      R           + ++   
Sbjct: 231 NECKGEVKLLPSSKNYDWFCSIKNVDNFYLNYGEVITFGRARYSNVKYWNGYFLSSNNIT 290

Query: 322 AVKPHGI--DSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
                     + +L + + S           S   +  + +      + +P I  Q  I 
Sbjct: 291 IASKDSSILLNKFLYYFLISNSQKFYVE---SSTYRKFENKIFDNFLIPIPHISIQNKIV 347

Query: 380 NVINVETARIDVLVEKIEQSIVLLKE----RRSSFI 411
            +++        +   +   I   K+     R   +
Sbjct: 348 EILDKLETYTRDIQSGLPLEIDQRKKQYEYYRDKLL 383



 Score = 45.9 bits (107), Expect = 0.014,   Method: Composition-based stats.
 Identities = 16/126 (12%), Positives = 41/126 (32%), Gaps = 5/126 (3%)

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
           S  N  +K      G  P  Y      +    + R     + K   +     +       
Sbjct: 36  SMMNESEKYPVYGGGTIPTGYYNDFNNEHSIAISRAGSAGSVKWVSQKYWATDVC----- 90

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
           ++  + + + +    +        ++   +  G    L  + +  L + +PP++ Q  I 
Sbjct: 91  FVVSEKYEVANIKFLYHFLKLRENELKKHIYGGNLPKLDKQYLWNLKIPLPPLEIQNQIV 150

Query: 380 NVINVE 385
           N+++  
Sbjct: 151 NILDKF 156


>gi|237712396|ref|ZP_04542877.1| type I restriction-modification system specificity determinant
           [Bacteroides sp. 9_1_42FAA]
 gi|229453717|gb|EEO59438.1| type I restriction-modification system specificity determinant
           [Bacteroides sp. 9_1_42FAA]
          Length = 192

 Score = 57.1 bits (136), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 23/181 (12%), Positives = 60/181 (33%), Gaps = 14/181 (7%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILS--LSYGNIIQKLETRNMGLKPESYETYQ 284
            +PD W V     L   +N       E  +    +   N  +  +     ++    E   
Sbjct: 9   QLPDGWCVVTLKDLCENINGLWKGKKEPFVNVGVIRNANFTKDFKLDYSNIEYIDVEQRT 68

Query: 285 I----VDPGEIVFRFIDLQ-NDKRSLRSAQVMERGIITSAYMAVKPHGID-----STYLA 334
                ++ G+++        N+          + G+ + +   +     +     S +L 
Sbjct: 69  FAKRHLENGDLIVEKSGGSDNNPVGRTILYEGKSGVFSFSNFTMVLRTRNNDIVLSKFLY 128

Query: 335 WLMRSYDLC--KVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
           + + +             +   ++L  +    +P+ +PP+ EQ  I + I      +D++
Sbjct: 129 YYILAKYQKGDMRLMQTQTTGLRNLILDKFLSMPIHLPPLSEQKRIIDRIETIFTSLDMI 188

Query: 393 V 393
           +
Sbjct: 189 M 189



 Score = 49.8 bits (117), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 27/183 (14%), Positives = 60/183 (32%), Gaps = 19/183 (10%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTG------KYLPKDGNSRQS 73
            +P  W VV +K   +   G     GK   ++ +  + +          Y   +    + 
Sbjct: 9   QLPDGWCVVTLKDLCENINGL--WKGKKEPFVNVGVIRNANFTKDFKLDYSNIEYIDVEQ 66

Query: 74  DTSTVSIFAKGQILYGKLG-----PYLRKAIIADFDGICSTQFLVLQPKDVLP----ELL 124
            T        G ++  K G     P  R  +     G+ S     +  +           
Sbjct: 67  RTFAKRHLENGDLIVEKSGGSDNNPVGRTILYEGKSGVFSFSNFTMVLRTRNNDIVLSKF 126

Query: 125 QGWLLSIDVTQRIEAICEGAT--MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
             + +     +    + +  T  + +       ++P+ +PPL+EQ  I ++I      +D
Sbjct: 127 LYYYILAKYQKGDMRLMQTQTTGLRNLILDKFLSMPIHLPPLSEQKRIIDRIETIFTSLD 186

Query: 183 TLI 185
            ++
Sbjct: 187 MIM 189


>gi|327460989|gb|EGF07322.1| hypothetical protein HMPREF9394_0855 [Streptococcus sanguinis
           SK1057]
          Length = 178

 Score = 57.1 bits (136), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 20/131 (15%), Positives = 54/131 (41%), Gaps = 7/131 (5%)

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER---GIITSAYMAVK 324
                   +   +        G+ +   I    +        ++++   G  ++ ++ V+
Sbjct: 38  FTRDIPEFEYFEFRGGTKFRNGDTLMARITPSLENGKTSKVNLLDKDEVGFGSTEFIVVR 97

Query: 325 --PHGIDSTYLAWLMRSYDLCK--VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
              +  D  ++ +LM + ++ +  +   +G+  RQ ++ + VK   +L PP+KEQ  I  
Sbjct: 98  AKENISDENFVYYLMIAPNIREVAIKSMVGTSGRQRVQLDVVKNHEILCPPLKEQIRIGK 157

Query: 381 VINVETARIDV 391
           ++     +I+ 
Sbjct: 158 ILKALDDKIEN 168



 Score = 44.0 bits (102), Expect = 0.042,   Method: Composition-based stats.
 Identities = 35/179 (19%), Positives = 64/179 (35%), Gaps = 14/179 (7%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            +WK V +    + N   T   G     I +E +E  T      +      +    + F 
Sbjct: 2   NNWKKVKLSDIIEFNPRETLSKGAIAKKIAMEKLEPFTRDIPEFEY----FEFRGGTKFR 57

Query: 83  KGQILYGKLGPYLRKAII-------ADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
            G  L  ++ P L             D  G  ST+F+V++ K+ + +    + L I    
Sbjct: 58  NGDTLMARITPSLENGKTSKVNLLDKDEVGFGSTEFIVVRAKENISDENFVYYLMIAPNI 117

Query: 136 R---IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
           R   I+++   +         + N  +  PPL EQ+ I + + A   +I+         
Sbjct: 118 REVAIKSMVGTSGRQRVQLDVVKNHEILCPPLKEQIRIGKILKALDDKIENNKKINHHL 176


>gi|114330558|ref|YP_746780.1| restriction modification system DNA specificity subunit
           [Nitrosomonas eutropha C91]
 gi|114307572|gb|ABI58815.1| restriction modification system DNA specificity domain
           [Nitrosomonas eutropha C91]
          Length = 422

 Score = 57.1 bits (136), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 19/135 (14%), Positives = 50/135 (37%), Gaps = 7/135 (5%)

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS-AYMAVKPHGIDSTYLAWLM 337
                 +V+  +++         +       V+   +    A +  +P  +D+ +L + +
Sbjct: 62  DELRNVVVEADDVLLNITGDSVARCCQVDPAVLPARVNQHVAIVRPRPETLDARFLRYSL 121

Query: 338 RSYDLCKVFYAMGSG--LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
            S  +     A+ S    R +L    +++L +  P + EQ  I +++      +D  +E 
Sbjct: 122 VSPSMQAHLLALASAGATRNALTKGMLEKLVIAAPSVPEQRAIAHILGT----LDDKIEL 177

Query: 396 IEQSIVLLKERRSSF 410
             +    L+    + 
Sbjct: 178 NRRRNQTLEAMARAL 192



 Score = 47.5 bits (111), Expect = 0.004,   Method: Composition-based stats.
 Identities = 31/208 (14%), Positives = 64/208 (30%), Gaps = 25/208 (12%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +G IP+ W++  +  F  L  G++  +                   +P  G+   +    
Sbjct: 237 LGEIPEGWEIRRVSDFLSLAYGKSLPAKARSP------------GNVPVYGSGGITGVHN 284

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
           +++     ++ G+ G                T F V QP   LP                
Sbjct: 285 IALIDSEAVIVGRKGTVGSLYWEQSPSYPIDTVFYV-QPLVSLPFCYHLLESLPLRDMNT 343

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           +A   G    +     + + P  +          EK      ++   I      + LL +
Sbjct: 344 DAAVPGLNRKNVYRLEVVSPPEVL---------LEKFSVLARKLREKIFTAQNELHLLTQ 394

Query: 198 KKQALVSYIVTKGL---NPDVKMKDSGI 222
               L+  ++   L   + +  M+ +GI
Sbjct: 395 LHDTLLPKLIAGELRIVDAEKFMERTGI 422


>gi|315609161|ref|ZP_07884128.1| conserved hypothetical protein [Prevotella buccae ATCC 33574]
 gi|315249152|gb|EFU29174.1| conserved hypothetical protein [Prevotella buccae ATCC 33574]
          Length = 233

 Score = 57.1 bits (136), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 30/200 (15%), Positives = 65/200 (32%), Gaps = 13/200 (6%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET 282
           E    +P  WE+  F +++   + +   L  +    L+              +    +  
Sbjct: 2   EIPFEIPWGWELARFGSVMYNRDSERIPLSVAKRSKLTKIYDYYGASGVIDKVDKYLFNK 61

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
             ++   +      +L N  + +      +  +   A++      I   Y+   + S  L
Sbjct: 62  DLLLIGED----GNNLINRSKPIAYIATGKYWVNNHAHVLDCIDSIFMQYIGLYINSISL 117

Query: 343 CKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
                      +  +  E +  + + +PP  EQ  I   I V+   + V  EK +  +  
Sbjct: 118 VDYV---TGTAQPKMNQEKMNSILLPLPPHNEQKRILQKI-VKIQPLFVRYEKNQLRLEA 173

Query: 403 LK-----ERRSSFIAAAVTG 417
           L        R S +  A+ G
Sbjct: 174 LTKTLYINLRKSILQEAIQG 193



 Score = 44.8 bits (104), Expect = 0.024,   Method: Composition-based stats.
 Identities = 35/206 (16%), Positives = 66/206 (32%), Gaps = 20/206 (9%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            IP  W++                   + I + +    S   K     G S   D     
Sbjct: 6   EIPWGWELARFGSV-------MYNRDSERIPLSVAK-RSKLTKIYDYYGASGVIDKVDKY 57

Query: 80  IFAKGQILYGKLGPYLRK-----AIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
           +F K  +L G+ G  L       A IA      +    VL   D +  +   ++     +
Sbjct: 58  LFNKDLLLIGEDGNNLINRSKPIAYIATGKYWVNNHAHVL---DCIDSIFMQYIGLYINS 114

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF--- 191
             +     G      + + + +I +P+PP  EQ  I +KI+            ++R    
Sbjct: 115 ISLVDYVTGTAQPKMNQEKMNSILLPLPPHNEQKRILQKIVKIQPLFVRYEKNQLRLEAL 174

Query: 192 -IELLKEKKQALVSYIVTKGLNPDVK 216
              L    +++++   +   L P   
Sbjct: 175 TKTLYINLRKSILQEAIQGHLVPQNP 200


>gi|260887978|ref|ZP_05899241.1| putative type I restriction-modification system [Selenomonas
           sputigena ATCC 35185]
 gi|260862229|gb|EEX76729.1| putative type I restriction-modification system [Selenomonas
           sputigena ATCC 35185]
          Length = 238

 Score = 57.1 bits (136), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 17/132 (12%), Positives = 37/132 (28%), Gaps = 4/132 (3%)

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCK 344
            +  GE+V        D          +     +           S    +         
Sbjct: 83  YLKEGEVVSIPWGKSRDVTDCIKYYKGKFVTADNRIATSNDITKLSNRYLYYWMMSQGKV 142

Query: 345 VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLK 404
           +         +      V  + + +PP+  Q +I  +++  T     L E++   + L K
Sbjct: 143 IDTFYRGSGIKHPDMAKVLNMQIPIPPLAIQNEIVKLLDDFTELTAELTEQLMTELTLRK 202

Query: 405 E----RRSSFIA 412
           +     R S + 
Sbjct: 203 KQYNFYRDSLLN 214


>gi|304440528|ref|ZP_07400415.1| type I restriction-modification system specificity determinant
           [Peptoniphilus duerdenii ATCC BAA-1640]
 gi|304371006|gb|EFM24625.1| type I restriction-modification system specificity determinant
           [Peptoniphilus duerdenii ATCC BAA-1640]
          Length = 203

 Score = 57.1 bits (136), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 22/173 (12%), Positives = 59/173 (34%), Gaps = 2/173 (1%)

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRF 295
               + T  N K      +    +   N+++    +       +  ++ +   G+I+   
Sbjct: 18  SLKDITTYSNNKINITELNETNYVGVDNLLKNKLGKVDSKNVPTSGSFNLFREGDILIGN 77

Query: 296 IDLQNDKRSLRSAQVME-RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL- 353
           I     K  +   +      ++         + + S YL  ++ S            G  
Sbjct: 78  IRPYLRKIWISDIEGGASPDVLVIRKKDSFNNNLLSKYLYQVLSSEQFFDYDIKHSKGAK 137

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
                   +    +LVPP+  Q  + ++++   + I+ + E + + I L +++
Sbjct: 138 MPRGNKAKIMDYEILVPPLYVQEYVVSILDKFDSLINDINEGLPKEIELRQKQ 190



 Score = 54.4 bits (129), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 38/190 (20%), Positives = 75/190 (39%), Gaps = 9/190 (4%)

Query: 26  KVVPIKRFTKLNTGR-TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           K + +K  T  +  +       +  Y+G++++       +            + ++F +G
Sbjct: 15  KKLSLKDITTYSNNKINITELNETNYVGVDNLLKNKLGKVDSKNVPTSG---SFNLFREG 71

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP-----ELLQGWLLSIDVTQRIEA 139
            IL G + PYLRK  I+D +G  S   LV++ KD        + L   L S         
Sbjct: 72  DILIGNIRPYLRKIWISDIEGGASPDVLVIRKKDSFNNNLLSKYLYQVLSSEQFFDYDIK 131

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
             +GA M   +   I +  + +PPL  Q  +   +      I+ +     + IEL +++ 
Sbjct: 132 HSKGAKMPRGNKAKIMDYEILVPPLYVQEYVVSILDKFDSLINDINEGLPKEIELRQKQY 191

Query: 200 QALVSYIVTK 209
           +     ++  
Sbjct: 192 EYYREKLLDF 201


>gi|186701639|ref|ZP_02553264.2| type I restriction enzyme S protein [Ureaplasma parvum serovar 6
           str. ATCC 27818]
 gi|186700875|gb|EDU19157.1| type I restriction enzyme S protein [Ureaplasma parvum serovar 6
           str. ATCC 27818]
          Length = 442

 Score = 57.1 bits (136), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 67/423 (15%), Positives = 133/423 (31%), Gaps = 37/423 (8%)

Query: 22  PKHWKVVPIKRFTKL-NTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS---- 76
           P   +   +          +     K    +  + V +   K   K         S    
Sbjct: 13  PNGVEFKKLWEIVNFDKKFKGVPKEKQNEILSFKHVSANELKRYEKCNFGNVKLLSTGLY 72

Query: 77  -TVSIFAKGQ------ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
                + +         +              +   I S   +  Q       L   +  
Sbjct: 73  DGYIKYNENDNNINYGEIIALPSGGSPIIKYYNGYFIDSLNIIFSQKTKKECNLKFIYYF 132

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
            I     IE    GA++ H +   I  + +PIPP++ Q  I E +     +   L TE  
Sbjct: 133 LIANKMLIEENYRGASVKHPNMIEIIELLIPIPPISIQNKIVEILD----KYTELETELE 188

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR--- 246
             +EL  ++     + ++    N  +  K  G + +  +    E K    +    +    
Sbjct: 189 TELELRNKQYIYYRNELLDFNKNQVLLKKIIGSDDIESIDSKIEFKKIGDIGNFYSGLSG 248

Query: 247 --KNTKLIESNILSLSYGNIIQKLE---TRNMGLKPESYETYQIVDPGEIVFRFIDLQND 301
             KN     +N   ++Y N+   LE    +   ++   YE    V+ G+I+        D
Sbjct: 249 KNKNDFFKNANARYITYLNVFNNLEINVDKLENVRISKYEKQNKVEYGDILITISSETPD 308

Query: 302 KRS--------LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG- 352
           +          +   + +        +        +  Y  +L +  +  K      +G 
Sbjct: 309 ECGYVSIANHFIFKEEDIYLNSFCFGFRLHNLKIYNIKYFKYLFKDKNTRKKIIKCVNGV 368

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE---TARIDV-LVEKIEQSIVLLKERRS 408
            R +L  E+ K + + +PPI  Q  I  +++     T  I+  L  +IEQ     +  R+
Sbjct: 369 TRFNLSKEEFKNISIPIPPISIQNKIVEILDKLEVYTKDINTGLPLEIEQRKKQYEYYRN 428

Query: 409 SFI 411
             +
Sbjct: 429 KLL 431


>gi|34762952|ref|ZP_00143931.1| Adenine-specific methyltransferase [Fusobacterium nucleatum subsp.
           vincentii ATCC 49256]
 gi|27887375|gb|EAA24466.1| Adenine-specific methyltransferase [Fusobacterium nucleatum subsp.
           vincentii ATCC 49256]
          Length = 556

 Score = 57.1 bits (136), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 42/350 (12%), Positives = 93/350 (26%), Gaps = 15/350 (4%)

Query: 68  GNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW 127
            N  +     +S+     ILY      +RK  + +         + L    ++       
Sbjct: 202 INQLKEKGKGISLVKTN-ILYKPENKNIRKYFVENGYIE---SIIYLPKNMLIDYPFPLA 257

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
           L+      +     +       +   I  I           +  + I          I +
Sbjct: 258 LIVFSKKNKKIKFIDAYKFCKIEKFKIEFIDNYFKNPKISEIKEQNINIIIDTNVEKIID 317

Query: 188 RIRFIELLKEKKQALVSYIVTKGLN-----PDVKMKDSGIEWVGLVPDHWEVKPFFALVT 242
            I   + +KE     +  IV K  N         + D   ++   +     +K       
Sbjct: 318 LINNQKNIKESFSKKIEDIVEKDYNLVVTENFEILVDILKKFKNEIKFKDIIKNIVRGSQ 377

Query: 243 ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY----ETYQIVDPGEIVFRFIDL 298
           +   K     E+  + LS  +I   L                +    +    I+      
Sbjct: 378 KTISKFKSEEETQYIYLSLSDINDGLIEFKNIENYLKEVPKNQEKFFIKNNSILLSKYGS 437

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS-- 356
                  +     +     +  +        + +      S               ++  
Sbjct: 438 SPKLAISQIPDDKKVIPSGNFIIIEVDEEKLNPWYLMSYFSSGFGSEKLKETYTEAKNDT 497

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
           +    ++ + + VPPIKEQ  I         +I+ + +K++  I   +E 
Sbjct: 498 ISIRKLENIEIPVPPIKEQEKIAKEYRESLKKIEEMKKKLKNEIQNSREI 547


>gi|327490262|gb|EGF22050.1| restriction endonuclease S [Streptococcus sanguinis SK1058]
          Length = 169

 Score = 57.1 bits (136), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 20/164 (12%), Positives = 52/164 (31%), Gaps = 8/164 (4%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDP- 288
           ++W+      L      ++ K    N        +       +     +++ T+   +  
Sbjct: 2   NNWKKVRLSELADITMGQSPKSDFYNSKGDGLPFLQGNRTFGDKYPTFDTWTTFVTKEAE 61

Query: 289 -GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY 347
            G+++        D           +  +      ++       +L +L+R+     +  
Sbjct: 62  VGDVIMSVRAPVGD-----INITPLKMCLGRGVCGLRHKQGAQEFLYYLLRANK-ENLIN 115

Query: 348 AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
                +  S+   D+  L V VP ++EQ  I   +     +I+ 
Sbjct: 116 RENGTVFGSINKTDISNLEVQVPSLREQIQIGLTLKAIDDKIEN 159



 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 24/169 (14%), Positives = 45/169 (26%), Gaps = 3/169 (1%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            +WK V +     +  G++ +S              G   +  K        T       
Sbjct: 2   NNWKKVRLSELADITMGQSPKSDFYNSKGDGLPFLQGNRTFGDKYPTFDTWTTFVTKEAE 61

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
            G ++     P      I             L+ K         + L     + +     
Sbjct: 62  VGDVIMSVRAPV-GDINITPLKMCLGRGVCGLRHKQG--AQEFLYYLLRANKENLINREN 118

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
           G      +   I N+ + +P L EQ+ I   + A   +I+         
Sbjct: 119 GTVFGSINKTDISNLEVQVPSLREQIQIGLTLKAIDDKIENNKKINHHL 167


>gi|294647357|ref|ZP_06724950.1| conserved domain protein [Bacteroides ovatus SD CC 2a]
 gi|294809022|ref|ZP_06767744.1| conserved domain protein [Bacteroides xylanisolvens SD CC 1b]
 gi|292637316|gb|EFF55741.1| conserved domain protein [Bacteroides ovatus SD CC 2a]
 gi|294443747|gb|EFG12492.1| conserved domain protein [Bacteroides xylanisolvens SD CC 1b]
          Length = 232

 Score = 57.1 bits (136), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 26/213 (12%), Positives = 57/213 (26%), Gaps = 13/213 (6%)

Query: 210 GLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLE 269
           G       K      VG    +      F       +   K  E  +  +    +   + 
Sbjct: 27  GGEMVWNEKLKRNIPVGWHCGNLFEIAVFTNGLACQKFRPKDDEVPLPVIKIREMHDGIS 86

Query: 270 TRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID 329
                +          V  G+++F +                  G +      V      
Sbjct: 87  VDTEEVTSN-IPESVKVYNGDVLFSWSASLE-----VMLWAYGLGGLNQHIFKVTSANDF 140

Query: 330 STYLAWLMRSYDLCKVFYAMG---SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
                +  +  D   VF  M          +  + +++  + +P      DI +      
Sbjct: 141 PKSFYY-FQLLDYVDVFKKMAEARKTTMGHITQDHLQQSTIAIPDN---KDIADKFEELI 196

Query: 387 ARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
           + I   + K+++ I    ++R   +   + GQI
Sbjct: 197 SPIFKQIVKLQEEISNFIKQRDELLPLLMNGQI 229



 Score = 42.5 bits (98), Expect = 0.14,   Method: Composition-based stats.
 Identities = 26/206 (12%), Positives = 57/206 (27%), Gaps = 19/206 (9%)

Query: 10  YKDSGVQ--WIGA----IPKHWKVVPIKRFTKLNTG----RTSESGKDII--YIGLEDVE 57
           YK SG +  W       IP  W    +        G    +      ++    I + ++ 
Sbjct: 23  YKSSGGEMVWNEKLKRNIPVGWHCGNLFEIAVFTNGLACQKFRPKDDEVPLPVIKIREMH 82

Query: 58  SGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPK 117
            G      +  ++             G +L+      L   + A   G  +     +   
Sbjct: 83  DGISVDTEEVTSNIPESVK----VYNGDVLFSWS-ASLEVMLWAYGLGGLNQHIFKVTSA 137

Query: 118 DVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
           +  P+    + L   V   +      A  +        ++      + +   I +K    
Sbjct: 138 NDFPKSFYYFQLLDYV--DVFKKMAEARKTTMGHITQDHLQQSTIAIPDNKDIADKFEEL 195

Query: 178 TVRIDTLITERIRFIELLKEKKQALV 203
              I   I +    I    +++  L+
Sbjct: 196 ISPIFKQIVKLQEEISNFIKQRDELL 221


>gi|298531140|ref|ZP_07018541.1| conserved hypothetical protein [Desulfonatronospira thiodismutans
           ASO3-1]
 gi|298509163|gb|EFI33068.1| conserved hypothetical protein [Desulfonatronospira thiodismutans
           ASO3-1]
          Length = 203

 Score = 57.1 bits (136), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 26/122 (21%), Positives = 41/122 (33%), Gaps = 3/122 (2%)

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
              +   E   +  K    E+Y  + PG+I+F     Q+    L S          S  +
Sbjct: 48  WRRVNHDELIRIRFKGRKIESYF-LKPGDILFFGRSGQSHSVVLESPVPENTAAAPSFMV 106

Query: 322 AVKPHGI-DSTYLAWLMRSYDLCKVFYAMGSGLRQS-LKFEDVKRLPVLVPPIKEQFDIT 379
                      YL W + S    K F A   G  Q  +    ++ L V +P   +Q  I 
Sbjct: 107 LRIKDDKTLPHYLNWYLNSDRAQKYFMAEAGGSFQRVVTKSVLENLEVPLPEQNDQERIV 166

Query: 380 NV 381
            +
Sbjct: 167 RI 168


>gi|291559578|emb|CBL38378.1| Restriction endonuclease S subunits [butyrate-producing bacterium
           SSC/2]
          Length = 199

 Score = 56.7 bits (135), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 20/123 (16%), Positives = 43/123 (34%), Gaps = 9/123 (7%)

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA--VKPHGIDSTYLAWLMRSY 340
                  +++F           +       + +I++  +   +    ID  Y  +   S 
Sbjct: 71  KCYAYRNDLIFTAAGTIGQVGVIPENSRYTKYVISNKQIRARIDTKKIDLLYAYYWFSSP 130

Query: 341 DLC-KVFYAMGSGLRQSLKFEDVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQ 398
            +   +           L   ++K LP++ P  I EQ  I +VI+  + +I+     I +
Sbjct: 131 WIRAFLIRNNKGSTVPLLTLSEIKDLPIIYPESIDEQKTIISVIDNISKKIE-----INK 185

Query: 399 SIV 401
            I 
Sbjct: 186 KIN 188


>gi|321310219|ref|YP_004192548.1| type I restriction-modification system, S subunit [Mycoplasma
           haemofelis str. Langford 1]
 gi|319802063|emb|CBY92709.1| type I restriction-modification system, S subunit [Mycoplasma
           haemofelis str. Langford 1]
          Length = 190

 Score = 56.7 bits (135), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 26/184 (14%), Positives = 66/184 (35%), Gaps = 16/184 (8%)

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK--PESYETYQIVDPGEIVFR 294
              + + ++ K++   +S I  L    +     + ++     PE      +V  G++V  
Sbjct: 9   ICKVYSGVDLKDSDYRKSGIPVLKSSEVSGGFISEDVVFYCNPEKALNGNLVRFGDVVIT 68

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR 354
            +     +  +    V    I T   +   P  +   YL + + +  L ++   + +G  
Sbjct: 69  RMGG-KCRVGINLTNVDYLPISTIFKLDPNPEIVSREYLYYCLLN-SLQEINSHIANGNV 126

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSF 410
             L    + ++ + +P ++ Q  I   +N          +++ + + L K      RS  
Sbjct: 127 SKLYKSSLLKVALSIPDLETQARIVEYLNQL--------QELRKELELRKRQGVYYRSKI 178

Query: 411 IAAA 414
           +   
Sbjct: 179 MNNL 182



 Score = 45.6 bits (106), Expect = 0.015,   Method: Composition-based stats.
 Identities = 22/182 (12%), Positives = 52/182 (28%), Gaps = 6/182 (3%)

Query: 30  IKRFTKLNTGRTSE----SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           +    K+ +G   +        I  +   +V  G                   ++   G 
Sbjct: 6   LGDICKVYSGVDLKDSDYRKSGIPVLKSSEVSGGFIS-EDVVFYCNPEKALNGNLVRFGD 64

Query: 86  ILYGKLGPYLRK-AIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
           ++  ++G   R    + + D +  +    L P   +      +   ++  Q I +     
Sbjct: 65  VVITRMGGKCRVGINLTNVDYLPISTIFKLDPNPEIVSREYLYYCLLNSLQEINSHIANG 124

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
            +S      +  + + IP L  Q  I E +         L   + + +    +    L  
Sbjct: 125 NVSKLYKSSLLKVALSIPDLETQARIVEYLNQLQELRKELELRKRQGVYYRSKIMNNLKE 184

Query: 205 YI 206
             
Sbjct: 185 CA 186


>gi|218247752|ref|YP_002373123.1| restriction modification system DNA specificity domain-containing
           protein [Cyanothece sp. PCC 8801]
 gi|218168230|gb|ACK66967.1| restriction modification system DNA specificity domain protein
           [Cyanothece sp. PCC 8801]
          Length = 194

 Score = 56.7 bits (135), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 27/189 (14%), Positives = 64/189 (33%), Gaps = 9/189 (4%)

Query: 224 WVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY 283
            +G +    ++                  E++ L +S  ++ Q++         ++    
Sbjct: 7   EIGTLGQLCKIAIGGTPARNNPEYWDIQKETDNLWVSIRDMNQRVINDTAEYISDAGVKN 66

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC 343
                 +     + L       R A   ++     A  A+    ID  +L + ++ +DL 
Sbjct: 67  SNAKLQDE--NTVLLSFKLTIGRVAFAGKKLYTNEAIAALATEQIDPNFLYYGLQQWDLL 124

Query: 344 KVFYAMGSGLRQSLKFEDVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
           +       G   +L    + ++    P   KEQ  I  +++     ID  +E+ E  I  
Sbjct: 125 QDVDQAIKGA--TLNKVKLNKIEFNYPKDKKEQTQIATILST----IDRAIEQTETLIAK 178

Query: 403 LKERRSSFI 411
            +  ++  +
Sbjct: 179 QQRIKTGLM 187



 Score = 53.3 bits (126), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 27/191 (14%), Positives = 57/191 (29%), Gaps = 17/191 (8%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGK----------DIIYIGLEDVESGTGKYLPKDGNSRQ 72
           + W++  + +  K+  G T               D +++ + D+         +  +   
Sbjct: 4   EGWEIGTLGQLCKIAIGGTPARNNPEYWDIQKETDNLWVSIRDMNQRVINDTAEYISDAG 63

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
              S   +  +  +L       + +   A      +     L  + + P  L   L   D
Sbjct: 64  VKNSNAKLQDENTVLLS-FKLTIGRVAFAGKKLYTNEAIAALATEQIDPNFLYYGLQQWD 122

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           + Q ++   +GAT++      I            Q      I      ID  I +    I
Sbjct: 123 LLQDVDQAIKGATLNKVKLNKIEFNYPKDKKEQTQ------IATILSTIDRAIEQTETLI 176

Query: 193 ELLKEKKQALV 203
              +  K  L+
Sbjct: 177 AKQQRIKTGLM 187


>gi|160894143|ref|ZP_02074921.1| hypothetical protein CLOL250_01697 [Clostridium sp. L2-50]
 gi|160894146|ref|ZP_02074924.1| hypothetical protein CLOL250_01700 [Clostridium sp. L2-50]
 gi|156864176|gb|EDO57607.1| hypothetical protein CLOL250_01697 [Clostridium sp. L2-50]
 gi|156864179|gb|EDO57610.1| hypothetical protein CLOL250_01700 [Clostridium sp. L2-50]
          Length = 186

 Score = 56.7 bits (135), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 21/146 (14%), Positives = 52/146 (35%), Gaps = 4/146 (2%)

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYE--TYQIVDPGEIVFRFIDLQNDKRS 304
           K   + ++ I      + I         +  + +       V+  +++            
Sbjct: 28  KRGDMKDNGIPVYEQQHAIYNSRHFRYYIDEQKFNEMKRFQVNTDDLIISCSGTVGKVSI 87

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSL-KFEDV 362
           +RS             + V  + I   YL +   S D      +  SG ++ ++ K   +
Sbjct: 88  IRSDDPKGIISQALLLLRVDQNKILPLYLKYFFTSRDGYNAIVSRSSGSVQVNIAKRNVI 147

Query: 363 KRLPVLVPPIKEQFDITNVINVETAR 388
           +++P+++P I+ Q  I  ++N    +
Sbjct: 148 EQIPLMLPKIETQRKIVEILNSIDKK 173


>gi|315609158|ref|ZP_07884126.1| type I restriction-modification system S subunit [Prevotella buccae
           ATCC 33574]
 gi|315249154|gb|EFU29175.1| type I restriction-modification system S subunit [Prevotella buccae
           ATCC 33574]
          Length = 183

 Score = 56.7 bits (135), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 26/173 (15%), Positives = 61/173 (35%), Gaps = 6/173 (3%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET 282
           E +  +P  W+   F  +V     K     E +  + +    +   +  N     ++ E 
Sbjct: 11  EILFDLPCSWQWVRFGQIVRMSIGKTPARGEVSYWTKATIPWVSISDMTNCEHINKTKEK 70

Query: 283 YQI----VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA-WLM 337
             +    V  G      + +       R++ +        A +++ P   D   L  +L 
Sbjct: 71  ISVAASSVMGGISPVGSLLMSFKLTVGRTSILNIDAYHNEAIISIFPFIDDKYALRDYLF 130

Query: 338 RSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
            +             ++ ++L  + +K L + +PP++EQ  I + +    A +
Sbjct: 131 YTLPFLSNMGNSKDAIKGKTLNSKSLKSLLIPLPPLREQRYIIDRLEELYAHL 183



 Score = 47.9 bits (112), Expect = 0.004,   Method: Composition-based stats.
 Identities = 25/170 (14%), Positives = 64/170 (37%), Gaps = 9/170 (5%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYLPKDGNSRQ 72
            +P  W+ V   +  +++ G+T   G+        I ++ + D+ +       K+  S  
Sbjct: 15  DLPCSWQWVRFGQIVRMSIGKTPARGEVSYWTKATIPWVSISDMTNCEHINKTKEKISVA 74

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW-LLSI 131
           + +    I   G +L       + +  I + D   +   + + P       L+ +   ++
Sbjct: 75  ASSVMGGISPVGSLLMS-FKLTVGRTSILNIDAYHNEAIISIFPFIDDKYALRDYLFYTL 133

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
                +    +       + K + ++ +P+PPL EQ  I +++      +
Sbjct: 134 PFLSNMGNSKDAIKGKTLNSKSLKSLLIPLPPLREQRYIIDRLEELYAHL 183


>gi|300819088|ref|ZP_07099291.1| type I restriction modification DNA specificity domain protein
           [Escherichia coli MS 107-1]
 gi|300528388|gb|EFK49450.1| type I restriction modification DNA specificity domain protein
           [Escherichia coli MS 107-1]
          Length = 389

 Score = 56.7 bits (135), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 46/393 (11%), Positives = 101/393 (25%), Gaps = 51/393 (12%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYL-----PKDGNSRQSDTSTVSI 80
           +   + +  K   G    +G+      ++ +                      D     I
Sbjct: 17  EWQTLGKVLKRTKGTKITAGQ------MKALHKDNAPLKIFAGGKTVAFVDFKDIPEKDI 70

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
             +  I+    G    +    D       +       +    +   +          + I
Sbjct: 71  NREPSIIVKSRGII--EFEYYDKPFSHKNEMWSYHSNNDAISIKYIYYFLKINEGYFQKI 128

Query: 141 CEGATMSHADWKGIGNIPMPIPP-------LAEQVLIREKIIAETVRIDTLITERIRFIE 193
                M            +PIP        LA Q  I   +   T     L  E     +
Sbjct: 129 GGKMQMPQIATPDTDKFEVPIPCPDNPEKSLAIQSEIVRILDKFTELTAELTAELSMRKK 188

Query: 194 LLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
                +  L+S             K+  +E          +     +    +     +IE
Sbjct: 189 QYNYYRDQLLS------------FKEDEVE-----GKRKTLGEIMKMRAGQHISAHNIIE 231

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
               S  Y           +  K    E   I   G +      ++    +         
Sbjct: 232 RKEESYIYPCFGGNGIRGYVKEKSHDGEHLLIGRQGALCGNVQRMKGQFYATE------- 284

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
                A +     GI+  +   ++ + +L +         +  L    ++ L + VP I+
Sbjct: 285 ----HAVVVSVMPGINIDWAFHMLTAMNLNQY---ASKSAQPGLAVGKLQELKLFVPSIE 337

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
            Q  I  +++      + + E + + I L +++
Sbjct: 338 RQIYIAAILDKFDTLTNSITEGLPREIELRQKQ 370



 Score = 43.2 bits (100), Expect = 0.087,   Method: Composition-based stats.
 Identities = 15/136 (11%), Positives = 42/136 (30%), Gaps = 12/136 (8%)

Query: 297 DLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCK-VFYAMGSGLR- 354
            +    R +   +  ++       M       D+  + ++     + +  F  +G  ++ 
Sbjct: 75  SIIVKSRGIIEFEYYDKPFSHKNEMWSYHSNNDAISIKYIYYFLKINEGYFQKIGGKMQM 134

Query: 355 QSLKFEDVKRLPVLVP-------PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
             +   D  +  V +P        +  Q +I  +++  T     L  ++          R
Sbjct: 135 PQIATPDTDKFEVPIPCPDNPEKSLAIQSEIVRILDKFTELTAELTAELSMRKKQYNYYR 194

Query: 408 SSFIA---AAVTGQID 420
              ++     V G+  
Sbjct: 195 DQLLSFKEDEVEGKRK 210


>gi|271498972|ref|YP_003331997.1| restriction modification system DNA specificity domain-containing
           protein [Dickeya dadantii Ech586]
 gi|270342527|gb|ACZ75292.1| restriction modification system DNA specificity domain protein
           [Dickeya dadantii Ech586]
          Length = 190

 Score = 56.7 bits (135), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 23/130 (17%), Positives = 57/130 (43%), Gaps = 3/130 (2%)

Query: 275 LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
           +  E   T  +++PGEIV      +N    +   +           + +K   +   YL 
Sbjct: 54  VVWEQNATPPLLEPGEIVVAARGNRN-VAVVYHGKAPVVATNQFLIINIKTKTVLPEYLC 112

Query: 335 WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
           WL+    + ++F+  G+ ++  +    + ++ + +PPI+ Q +I   +     + D L+ 
Sbjct: 113 WLINHPTIQQMFHRSGTNIQL-VTKAALLKVQLPLPPIEVQQNIIG-LQQVWEQEDQLIS 170

Query: 395 KIEQSIVLLK 404
           +++ +   L+
Sbjct: 171 QLQANRQKLQ 180


>gi|13357656|ref|NP_077930.1| type I restriction enzyme S protein (fragment) [Ureaplasma parvum
           serovar 3 str. ATCC 700970]
 gi|170762424|ref|YP_001752182.1| type I restriction modification DNA specificity family protein
           [Ureaplasma parvum serovar 3 str. ATCC 27815]
 gi|11357071|pir||F82933 type I restriction enzyme S protein, truncated homolog UU099
           [imported] - Ureaplasma urealyticum
 gi|6899054|gb|AAF30505.1|AE002110_3 type I restriction enzyme S protein (fragment) [Ureaplasma parvum
           serovar 3 str. ATCC 700970]
 gi|168828001|gb|ACA33263.1| type I restriction modification DNA specificity family protein
           [Ureaplasma parvum serovar 3 str. ATCC 27815]
          Length = 301

 Score = 56.7 bits (135), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 16/148 (10%), Positives = 40/148 (27%)

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFI 296
                              +   S   + + L+         +           +V    
Sbjct: 8   INEFCPNGVEFKKLKNIITVAPKSPFGVTKLLKMEKGNYLTITSGKKSFYVDNFLVDGEY 67

Query: 297 DLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS 356
              ND           + + +    A K +  ++ YL + + +               ++
Sbjct: 68  IFVNDGGQADIKYNFGKTMYSDHIFAFKVNEYNTKYLYFYLLNISNFINKKLFIGSTLKN 127

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINV 384
           L  ++   L + +PPI  Q  I  +++ 
Sbjct: 128 LNKKEFLNLAIPIPPISIQNKIVEILDK 155


>gi|329963239|ref|ZP_08300976.1| conserved domain protein [Bacteroides fluxus YIT 12057]
 gi|328528935|gb|EGF55875.1| conserved domain protein [Bacteroides fluxus YIT 12057]
          Length = 467

 Score = 56.7 bits (135), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 46/395 (11%), Positives = 111/395 (28%), Gaps = 32/395 (8%)

Query: 30  IKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYG 89
                        ++ K              GKY       +    +  S+F    ++  
Sbjct: 6   FGEIFSFVPAPKIKAEKG----------RNRGKYPLYTTGQQFPQRTDQSMFNGPALIIS 55

Query: 90  KLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHA 149
           K  P        +     +  F++ +        +    +   +     ++ E       
Sbjct: 56  KTVPV--SIYYCNGSFSATNDFMIAKANRNCFTQVDPQYVYFYLL-GNLSLLEHEEKKSF 112

Query: 150 DWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTK 209
             + I  I +P+  L  Q  I   +      I    T  +   +L K          V  
Sbjct: 113 SRQSIQKIEIPLNSLETQERIIGTLHKIETLIQKRGTNLLLVSKLKKVMFLNFFGDPV-- 170

Query: 210 GLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLE 269
            L+    +  +    + +            +  E   +  +L ++ I    +  +  K  
Sbjct: 171 -LDKGKFLFSTPFHNL-VTIHGGGNYQTQNVPRESKEQLAQLTQTAITRREFDPVQNKRF 228

Query: 270 TRNMGLKPESYETYQIVDPGEIVFR-FIDLQNDKRSLRSAQVMERGIITSAY--MAVKPH 326
                +K   Y     +  G+++F     L+    +      +    I      +   P 
Sbjct: 229 LHKQFVKDSHY-----IQKGDVLFSRKNSLKLIGSAAYVYDDIANLTIPDTIFRICCNPK 283

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGLRQ---SLKFEDVKRLPVLVPPIKEQFDITNVIN 383
            I   YL +L+   +  K   +   G      S+  + +K+  +  P +  Q        
Sbjct: 284 KISGVYLTYLLNDENFNKQLRSYFGGTLPTMSSITTKKLKQFIIPCPDLALQHKF----E 339

Query: 384 VETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
                +  + +++ + +  L++  S       +G+
Sbjct: 340 KNILFLRQMEDRMTKQLSRLRQFISIASNDLFSGK 374


>gi|167767085|ref|ZP_02439138.1| hypothetical protein CLOSS21_01603 [Clostridium sp. SS2/1]
 gi|167711060|gb|EDS21639.1| hypothetical protein CLOSS21_01603 [Clostridium sp. SS2/1]
          Length = 199

 Score = 56.7 bits (135), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 20/123 (16%), Positives = 43/123 (34%), Gaps = 9/123 (7%)

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA--VKPHGIDSTYLAWLMRSY 340
                  +++F           +       + +I++  +   +    ID  Y  +   S 
Sbjct: 71  KCYAYRNDLIFTAAGTIGQVGVIPENSRYTKYVISNKQIRARIDTKKIDLLYAYYWFSSP 130

Query: 341 DLC-KVFYAMGSGLRQSLKFEDVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQ 398
            +   +           L   ++K LP++ P  I EQ  I +VI+  + +I+     I +
Sbjct: 131 WIRAFLIRNNKGSTVPLLTLSEIKDLPIIYPESIDEQKTIISVIDNISKKIE-----INK 185

Query: 399 SIV 401
            I 
Sbjct: 186 KIN 188


>gi|294783683|ref|ZP_06749007.1| hypothetical protein HMPREF0400_01677 [Fusobacterium sp. 1_1_41FAA]
 gi|294480561|gb|EFG28338.1| hypothetical protein HMPREF0400_01677 [Fusobacterium sp. 1_1_41FAA]
          Length = 627

 Score = 56.7 bits (135), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 30/175 (17%), Positives = 61/175 (34%), Gaps = 4/175 (2%)

Query: 234 VKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVF 293
                 L    + + T  I   + +++ G I  +     +   PE  E + I      + 
Sbjct: 449 QISLDELKDLRSHEETPYIYLTLSNINDGFIEYENIEDYLKKIPEKQEKFCI-KNNVFLI 507

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI--DSTYLAWLMRSYDLCKVFYAMGS 351
             I     K  +       + I +  +  ++ +    +  YLA    +    KV      
Sbjct: 508 SKIGNPPYKFVVAQIPENRKIIASGNFAIIEVNEKKLNPWYLAAFFTTDIGVKVLKKAYI 567

Query: 352 GL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
           G+   SL  + ++ + + VP I+EQ  I          I  + + ++  I  +KE
Sbjct: 568 GVNFSSLSIKKLEEIAIPVPSIEEQNRIAQRYIDAITEIKNMKKDLKDKIQAVKE 622


>gi|269978352|gb|ACZ55910.1| truncated putative type I restriction-modification system
           specificity subunit S [Helicobacter pylori]
          Length = 264

 Score = 56.7 bits (135), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 19/139 (13%), Positives = 46/139 (33%), Gaps = 8/139 (5%)

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
               +  +      I++   ++ +       +   +           S+    K + +  
Sbjct: 56  TKADINYKDISKKDIINCESVIIKSRGNIGFEYYNQPFSHKNEIWSYSS----KTNQMLV 111

Query: 331 TYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
            +L + + +        A  S ++   L   D     V VPP++ Q +I  +++  T   
Sbjct: 112 KFLYYYLSNNQDYFQKLAQSSSVKLPQLSVSDTDEYEVPVPPLEIQQEIVKILDAFTELN 171

Query: 390 DVLVEKIEQSIVLLKERRS 408
             L  ++      LK R+ 
Sbjct: 172 TELNTELNTE---LKARKK 187



 Score = 38.6 bits (88), Expect = 1.8,   Method: Composition-based stats.
 Identities = 30/189 (15%), Positives = 60/189 (31%), Gaps = 3/189 (1%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGK-DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           PK  +   I    K N G    + +   ++  +  +    G     D N +  D S   I
Sbjct: 13  PKGVEFKKIGELFKRNKGINITAAQMKELHSDIGKIRIFAGGATKADINYK--DISKKDI 70

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
                ++    G    +     F           +   +L + L  +L +     +  A 
Sbjct: 71  INCESVIIKSRGNIGFEYYNQPFSHKNEIWSYSSKTNQMLVKFLYYYLSNNQDYFQKLAQ 130

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
                +            +P+PPL  Q  I + + A T     L TE    ++  K++ +
Sbjct: 131 SSSVKLPQLSVSDTDEYEVPVPPLEIQQEIVKILDAFTELNTELNTELNTELKARKKQYE 190

Query: 201 ALVSYIVTK 209
              + ++  
Sbjct: 191 YYQNMLLDF 199


>gi|261839395|gb|ACX99160.1| hypothetical protein HPKB_0560 [Helicobacter pylori 52]
          Length = 214

 Score = 56.7 bits (135), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 18/140 (12%), Positives = 53/140 (37%), Gaps = 10/140 (7%)

Query: 279 SYETYQIVDPGEIVFRFIDLQNDK--RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWL 336
            Y    I D   ++        +K    + +    +  +   A++    + +   +L + 
Sbjct: 73  DYIDSYIFDGDFVLVGEDGSVINKDNTPVVNWASGKIWVNNHAHVLQTKNELKLKFLYFY 132

Query: 337 MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
           +++ D+        +G    +  E++K++ + + P++ Q +I  +++  +     L+  I
Sbjct: 133 LQTIDV----SYCVAGTPPKINQENLKKITIPILPLEIQQEIVKILDQFSVLTTDLLAGI 188

Query: 397 EQSIVLLKE----RRSSFIA 412
              I   K+     R   + 
Sbjct: 189 PAEIEARKKQYEYYREKLLT 208



 Score = 41.7 bits (96), Expect = 0.23,   Method: Composition-based stats.
 Identities = 23/158 (14%), Positives = 43/158 (27%), Gaps = 13/158 (8%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSE--SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           PK  +   +    ++   R       K    I      +G   Y+               
Sbjct: 31  PKGVEFRKLGEVCEILDNRRIPIAKNKRNPGIYPYYGANGIQDYIDSYIFDGDFV----- 85

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           +  +   +  K          A      +    VLQ K+ L      +     +     +
Sbjct: 86  LVGEDGSVINKDNT--PVVNWASGKIWVNNHAHVLQTKNELKLKFLYF----YLQTIDVS 139

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
            C   T    + + +  I +PI PL  Q  I + +   
Sbjct: 140 YCVAGTPPKINQENLKKITIPILPLEIQQEIVKILDQF 177


>gi|255011910|ref|ZP_05284036.1| restriction endonuclease S subunit [Bacteroides fragilis 3_1_12]
          Length = 368

 Score = 56.7 bits (135), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 45/379 (11%), Positives = 105/379 (27%), Gaps = 36/379 (9%)

Query: 38  TGRTSE--SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYL 95
            G T +      ++ I    +     +      ++ +       I   G +L    G   
Sbjct: 3   KGITPKYVESSSVLVINQACIHWDGQRLGNIKYHNEEIPVRK-RILESGDVLLNATG--- 58

Query: 96  RKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIG 155
                   +G      + + P D    +  G ++++   + +       T    +     
Sbjct: 59  --------NGTLGRCCVFICPSDNNTYINDGHVIALSTDRAVILPEVLNTYLSLNDTQAE 110

Query: 156 NIPMPIPPLAEQVLIREKIIAETV----RIDTLITERIRFIELLKEKKQALVSYIVTKGL 211
                +     QV I    I +       +D  I       +  K K     S  +    
Sbjct: 111 IYRQYVTGSTNQVDIVFSDIKKMKVPVPSMDEQILFVEVLKQADKSKFGDFKSQFIEMFG 170

Query: 212 NPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETR 271
           NP    + + ++ +G             +      K + +    +    Y   +   E  
Sbjct: 171 NPLSLNQKNELKRLGEC--CILNPRRPNIALCDTDKVSFIPMPAVSEDGYLVDMTDEEYG 228

Query: 272 NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS----AYMAVKPHG 327
            +       + +   +  +++F  I    +         +  GI         + +    
Sbjct: 229 KVK------KGFTYFENNDVLFAKITPCMENGKGAIVHGLTNGIGMGSTEFHVLRLINGI 282

Query: 328 IDSTYLAWLMRSYDLCKV--FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
               +L  L R     +       G+G ++ +    +    V +P I+EQ          
Sbjct: 283 SSPYWLLALTRMPIFRERAAKNMSGTGGQKRVSASYLDHFMVGLPAIEEQRRF----EAI 338

Query: 386 TARIDVLVEKIEQSIVLLK 404
             + D     I++++V L 
Sbjct: 339 YKQADKSKSVIQKALVYLN 357


>gi|167989005|ref|ZP_02570676.1| restriction-modification enzyme subunit s3a [Ureaplasma urealyticum
           serovar 7 str. ATCC 27819]
 gi|225551422|ref|ZP_03772368.1| restriction-modification enzyme subunit s3a [Ureaplasma urealyticum
           serovar 8 str. ATCC 27618]
 gi|188018714|gb|EDU56754.1| restriction-modification enzyme subunit s3a [Ureaplasma urealyticum
           serovar 7 str. ATCC 27819]
 gi|225379237|gb|EEH01602.1| restriction-modification enzyme subunit s3a [Ureaplasma urealyticum
           serovar 8 str. ATCC 27618]
          Length = 379

 Score = 56.7 bits (135), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 42/382 (10%), Positives = 110/382 (28%), Gaps = 18/382 (4%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
            +    ++ T    ++  +I   GL  +            N+         ++    I  
Sbjct: 6   KLSSVFEIITTGKQKNTFNINLEGLYPL------ISASTANNGIMGYVDNYLYDGQNITI 59

Query: 89  GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ-GWLLSIDVTQRIEAICEGATMS 147
            ++G             +    F++ +    + ++    +LL ++  ++I +I  G T  
Sbjct: 60  SRVGNAGTTFYHEGKISLTDNCFILSKINKKIAKVKYVFYLLKLNEDKKIRSISHGTTRK 119

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK----QALV 203
             +   + N+ + +P +  Q  I   I                      +K      +++
Sbjct: 120 IINKTDLDNLIIYLPSIEIQNAIISIIEPHEKLFVKYSNLVDISSVENAKKDVDNLISII 179

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWE-VKPFFALVTELNRKNTKLIESNILSLSYG 262
             +       +          + +   +       F        K          S    
Sbjct: 180 EPLDILENKINKLKTVLKKLLINIYDKNCNSHVNLFENNKIYTNKYLNQNLYCDTSCIGE 239

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
             I   +  N+ L+ +       +    I+F  +  +N           E  + ++ +  
Sbjct: 240 LEINFSKMINISLEDKPSRADLSIKNNSIIFSKLLGENKVYC---FLNNENIVFSTGFFN 296

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNV 381
           +K +  ++  L   + S D       + +G     +   D+ ++    P +    +I   
Sbjct: 297 IKSNDENNDDLLSFLLSSDFKNQKSMLANGTTMIGINNSDLTKVRCKAPFLN--SNIYFT 354

Query: 382 INVETARIDVLVEKIEQSIVLL 403
              +   I+  +      IV L
Sbjct: 355 FFNKLNEIENKITLARNKIVNL 376


>gi|166368339|ref|YP_001660612.1| Type I restriction enzyme EcoEI M protein [Microcystis aeruginosa
           NIES-843]
 gi|166090712|dbj|BAG05420.1| Type I restriction enzyme EcoEI M protein homolog [Microcystis
           aeruginosa NIES-843]
          Length = 677

 Score = 56.7 bits (135), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 34/309 (11%), Positives = 88/309 (28%), Gaps = 19/309 (6%)

Query: 98  AIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNI 157
           A +    GI ++  +V +            +  I    + + I +            G  
Sbjct: 369 AFVPYGTGIKTSLLVVQKLPANHDSCFMAQIKKIGYDVKGQTIYKRNESGVIARTKSGLP 428

Query: 158 PMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKM 217
            +           R  I  E  +    I      +   +   +  +         P+ + 
Sbjct: 429 IVDDDIDDISQSFRSFINGEFAQNSDCIYTVKNTLLNSRLDAEHYL---------PNDQK 479

Query: 218 KDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKP 277
               ++ +G  P                 +++++    I  + Y  + Q +  + +    
Sbjct: 480 LLEHLKSIGAKPLGEIADILREAADFRLARDSEIRYIAISDVDYRTM-QVVSQQIIKAHE 538

Query: 278 ESYETYQIVDPGEIVFRFIDLQN----DKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL 333
                   +  G+I+               +L +             +     G++  +L
Sbjct: 539 APSRATYRLYKGDIITAISGASTGTPRQATALITEDEDGAICSNGFSVLRNIQGVEPLFL 598

Query: 334 AWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
              MR+    +      +G    ++  +D+ ++ V +PP  EQ  I        A I  +
Sbjct: 599 LVYMRTDFFLRQIKRYMTGHAIPTILVDDLSKVLVPIPPQSEQQRIA----KSMAEIQAI 654

Query: 393 VEKIEQSIV 401
            ++  ++  
Sbjct: 655 RKEALKASE 663


>gi|283769286|ref|ZP_06342189.1| hypothetical protein HMPREF9013_1471 [Bulleidia extructa W1219]
 gi|283104103|gb|EFC05483.1| hypothetical protein HMPREF9013_1471 [Bulleidia extructa W1219]
          Length = 236

 Score = 56.7 bits (135), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 32/218 (14%), Positives = 78/218 (35%), Gaps = 24/218 (11%)

Query: 226 GLVPDHWEVKPFFALVTELNRKNTKLIE------SNILSLSYGNIIQKLETRNMGLKPES 279
           G  PD WE      +    +    K  E       +   +     I +    N G+    
Sbjct: 20  GTAPDDWEQGTLQDIADFSSGYAFKSKELLNTPAPDCYHVFKQGHINRGGGFNSGVTKSW 79

Query: 280 YE-------TYQIVDPGEIVFRFIDLQNDKRSLRSAQ---VMERGIITSAYMAVKPH--- 326
           Y        +  ++  G+++    D++++   L +     + ++ I+      ++ +   
Sbjct: 80  YPISKCASLSKYVLHKGDVLMAMTDMKDNVAILGNTALMTIDDQYIVNQRVGLLRSNGYK 139

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
                Y+  L  S+D  K   +   SG++ +L   ++K  PV +   +   +     N  
Sbjct: 140 CTSYAYIYLLTNSFDFLKNLRSRANSGVQVNLSSAEIKASPVWIASDEVNKEF----NSL 195

Query: 386 TARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
           T  +  ++   +     L   R + +   ++G++D+  
Sbjct: 196 TEPLLSMIMANDIENQKLLGLRDTLLPRLMSGELDVSD 233



 Score = 48.6 bits (114), Expect = 0.002,   Method: Composition-based stats.
 Identities = 25/204 (12%), Positives = 51/204 (25%), Gaps = 21/204 (10%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDII--------YIGLEDVESGTGKYLPKDGNSRQS 73
           P  W+   ++     ++G   +S + +               +  G G       +    
Sbjct: 23  PDDWEQGTLQDIADFSSGYAFKSKELLNTPAPDCYHVFKQGHINRGGGFNSGVTKSWYPI 82

Query: 74  DTS---TVSIFAKGQILYGKLGPYLRKAIIADFD-GICSTQFLVLQ---------PKDVL 120
                 +  +  KG +L          AI+ +        Q++V Q          K   
Sbjct: 83  SKCASLSKYVLHKGDVLMAMTDMKDNVAILGNTALMTIDDQYIVNQRVGLLRSNGYKCTS 142

Query: 121 PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
              +     S D  + + +        +     I   P+ I                   
Sbjct: 143 YAYIYLLTNSFDFLKNLRSRANSGVQVNLSSAEIKASPVWIASDEVNKEFNSLTEPLLSM 202

Query: 181 IDTLITERIRFIELLKEKKQALVS 204
           I     E  + + L       L+S
Sbjct: 203 IMANDIENQKLLGLRDTLLPRLMS 226


>gi|309800162|ref|ZP_07694348.1| HsdS [Streptococcus infantis SK1302]
 gi|308116209|gb|EFO53699.1| HsdS [Streptococcus infantis SK1302]
          Length = 233

 Score = 56.7 bits (135), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 37/234 (15%), Positives = 80/234 (34%), Gaps = 13/234 (5%)

Query: 26  KVVPIKRFTKLNTGRTSESG-------KDIIYIGLEDVESGTGKYLPKDGNSRQSDT--S 76
           K V +    K+ TG T            DI +I  +D ++       K   +  S+   +
Sbjct: 2   KKVKLGDLGKIITGNTPSKKLLEFYNSNDIPFIKPDDFKTIDEISSSKGNKNYISEKARN 61

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
              I  K  +L   +G  + K +I+D +   + Q   + P +++      +L  +    +
Sbjct: 62  NARIVPKNSVLVTCIG-IIGKVMISDSELSFNQQINAIVPNELILSKYLAYL-LLYNKPK 119

Query: 137 IEAICEGATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
           ++ I     +   +        +     +  Q  I + +      I     +    + L+
Sbjct: 120 LDFISNAPVVPIINKTQFSEFEVTFHEDIDVQEKIIQNLENLDNHILKRRHQSKLLLNLV 179

Query: 196 KEKKQALVSYIVTKGL-NPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN 248
           K +   +    V   +      +K+ GI   G  P   E      +   L+++N
Sbjct: 180 KSRFNEMFGDPVLNEMGWEKHALKEFGIWKSGGTPKRNEEDFLEDIFLGLHQEN 233


>gi|301162154|emb|CBW21699.1| putative type I restriction endonuclease [Bacteroides fragilis
           638R]
          Length = 417

 Score = 56.3 bits (134), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 18/191 (9%), Positives = 55/191 (28%), Gaps = 11/191 (5%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY-ETYQIVDP 288
           D +          E +      +   ++ +    ++   + +   +K  +  + +++   
Sbjct: 34  DFYSTNSLSWEQLEYDTNAMMNLHYGLIHVGLPTMVDLAKDKLPNIKENNMPKNFELCKE 93

Query: 289 GEIVFRFI--DLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA---WLMRSYDLC 343
           G++ F     D     +++    +  + ++   +          T +    +   S    
Sbjct: 94  GDVAFADASEDTNEVAKTVEFFNLAGKNVVCGLHTIHGRDNKHKTVVGFKGYAFSSAAFH 153

Query: 344 KVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
                +  G    S+  ++     + +P   EQ  I          ID  +    + I  
Sbjct: 154 NQIRRIAQGTKIYSISTKNFFECYIGLPSKPEQSKIA----TLLRLIDERIATQNKIIEK 209

Query: 403 LKERRSSFIAA 413
            +      I  
Sbjct: 210 YESLIKGIIYQ 220


>gi|225352859|ref|ZP_03743882.1| hypothetical protein BIFPSEUDO_04493 [Bifidobacterium
           pseudocatenulatum DSM 20438]
 gi|225156308|gb|EEG69877.1| hypothetical protein BIFPSEUDO_04493 [Bifidobacterium
           pseudocatenulatum DSM 20438]
          Length = 175

 Score = 56.3 bits (134), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 31/145 (21%), Positives = 58/145 (40%), Gaps = 13/145 (8%)

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
             I    E+        S   Y+IV  G++V+  + +               GI++ AY+
Sbjct: 7   NGIYPASESDRETNPGASLANYKIVHFGDVVYNSMRMWQGAVDASRYD----GIVSPAYV 62

Query: 322 AVKPH-GIDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVP-PIKEQF 376
             +P+  + + + A L+R   L K +  +  G     Q LKF+D   + + +P    EQ 
Sbjct: 63  VARPNSEVYARFFARLLRQPMLLKQYQQVSQGNSKDTQVLKFDDFASIGISMPASENEQR 122

Query: 377 DITNVINVETARIDVLVEKIEQSIV 401
            I    +    R+D L+   ++   
Sbjct: 123 QIGGFFD----RLDSLITLHQRKYD 143



 Score = 45.2 bits (105), Expect = 0.022,   Method: Composition-based stats.
 Identities = 18/141 (12%), Positives = 40/141 (28%), Gaps = 7/141 (4%)

Query: 56  VESGTGKYLPKDGNSRQS---DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFL 112
           V    G Y   + +   +     +   I   G ++Y  +  +      + +DGI S  ++
Sbjct: 3   VSVANGIYPASESDRETNPGASLANYKIVHFGDVVYNSMRMWQGAVDASRYDGIVSPAYV 62

Query: 113 VLQPKDVLPELLQG---WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIP-PLAEQV 168
           V +P   +             +    +  +           +    +I + +P    EQ 
Sbjct: 63  VARPNSEVYARFFARLLRQPMLLKQYQQVSQGNSKDTQVLKFDDFASIGISMPASENEQR 122

Query: 169 LIREKIIAETVRIDTLITERI 189
            I          I     +  
Sbjct: 123 QIGGFFDRLDSLITLHQRKYD 143


>gi|319744170|gb|EFV96541.1| type I site-specific deoxyribonuclease chain S [Streptococcus
           agalactiae ATCC 13813]
          Length = 199

 Score = 56.3 bits (134), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 25/191 (13%), Positives = 53/191 (27%), Gaps = 12/191 (6%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG 289
            +  +     +    + K     +  I             + +           +I  PG
Sbjct: 15  KYQNLSDIARITMGQSPKGETYNDDKIGLPLLNGATDFRNSISPSKWTSD--PRKIARPG 72

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
           E VF           +     + RG  ++  +       +           DL   +  +
Sbjct: 73  EYVFGVRATIGLTTKIFKEYAIGRGTGSAKPI------SNIFDEYLFFALEDLFDYYANL 126

Query: 350 GSGLRQ-SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
           GSG    ++   D     V++P       + +  +     +  L+      I  L E R 
Sbjct: 127 GSGTVYINISKSDFDSFKVILPIKD--QFLVDF-HKTVQPLFNLIFNNNAEIQKLSELRD 183

Query: 409 SFIAAAVTGQI 419
             +   + G+I
Sbjct: 184 CLLPKLLPGEI 194


>gi|240047664|ref|YP_002961052.1| hypothetical protein MCJ_005500 [Mycoplasma conjunctivae HRC/581]
 gi|239985236|emb|CAT05249.1| PUTATIVE Uncharacterized protein MJ1218 [Mycoplasma conjunctivae]
          Length = 262

 Score = 56.3 bits (134), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 19/168 (11%), Positives = 48/168 (28%), Gaps = 11/168 (6%)

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
             N L     +I+    ++      E    Y + D  +++ +          +   +  +
Sbjct: 16  NCNWLVHKLVDIVSYHTSKLTFSDVERKGRYPLYDANKVIGKTNKFFMKDDYIAIVKDGD 75

Query: 313 RGI-----ITSAYMAVKPHGIDSTYLAWLMRSYDLCK--VFYAMGSGLRQSLKFEDVKRL 365
            G        SA++A         +  + + S       +           + F+D   +
Sbjct: 76  VGRPRFLPKNSAFIATMCALTSKNFDIYFIYSLLKLNFPIENMKVGTTIYHIYFKDYGNI 135

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
               P ++ Q  I          ID  +   +  +  +   +   +A 
Sbjct: 136 QYYFPSLEVQQKIA----KVFKNIDNFINLYKIKLEKISVIKQFLLAK 179


>gi|149915112|ref|ZP_01903640.1| type I restriction-modification system specificity determinant
           XF2741 [Roseobacter sp. AzwK-3b]
 gi|149810833|gb|EDM70672.1| type I restriction-modification system specificity determinant
           XF2741 [Roseobacter sp. AzwK-3b]
          Length = 345

 Score = 56.3 bits (134), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 41/307 (13%), Positives = 97/307 (31%), Gaps = 29/307 (9%)

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
               G+T  +     + N+ +P     EQ  I   + A   +I+          E+ +  
Sbjct: 42  NAATGSTFPNVSKDQLHNLEVPDHSPFEQEEIASILGALDNKIELNRQTAATLEEMARAL 101

Query: 199 KQALVS-----YIVTKGLNPDVKMKDSGIEWV-----GLVPDHWEVKPFFALVTELNRKN 248
            ++            +GL P    + +   +      G +P+ W       L+    R+ 
Sbjct: 102 YRSWFVDFDPVKAKAEGLAPAFMDEATAALFPDRFGEGGLPEGWTAGTLGDLIEFNPRER 161

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
                              +       +  ++ +      G+ +   I    +       
Sbjct: 162 ITKGADVPYLDMKALPTSGMIADPAYQR--TFTSGTKFREGDTLLARITPCLENGKTAMV 219

Query: 309 QVM---ERGIITSAYMAVKPHGIDSTYLAWLM-RSYDLCKVFYA--MGSGLRQSLKFEDV 362
             +   E G  ++ ++ ++      + L + + R  D      A   GS  RQ    + +
Sbjct: 220 DDLLGAEVGWGSTEFIVMRSKPGVPSALPYCVARDPDFRDEAIATMNGSSGRQRADAKSI 279

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE---QSIVLLKERRSSFIAAAVTGQI 419
            +L   VPP         V+     +   ++ +I    +    L   R + +   ++G++
Sbjct: 280 SQLKCAVPP-------VMVLTSFGQQTAPMIARIHAFGRENQTLAALRDTLLPKLMSGEL 332

Query: 420 DLRGESQ 426
            + GE++
Sbjct: 333 RV-GEAR 338



 Score = 47.9 bits (112), Expect = 0.003,   Method: Composition-based stats.
 Identities = 24/131 (18%), Positives = 49/131 (37%), Gaps = 12/131 (9%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           +P+ W    +    + N       G D+ Y+ ++ + +      P    + Q   ++ + 
Sbjct: 141 LPEGWTAGTLGDLIEFNPRERITKGADVPYLDMKALPTSGMIADP----AYQRTFTSGTK 196

Query: 81  FAKGQILYGKLGPY---LRKAIIAD----FDGICSTQFLVLQPKDVLPEL-LQGWLLSID 132
           F +G  L  ++ P     + A++ D      G  ST+F+V++ K  +P           D
Sbjct: 197 FREGDTLLARITPCLENGKTAMVDDLLGAEVGWGSTEFIVMRSKPGVPSALPYCVARDPD 256

Query: 133 VTQRIEAICEG 143
                 A   G
Sbjct: 257 FRDEAIATMNG 267



 Score = 45.2 bits (105), Expect = 0.019,   Method: Composition-based stats.
 Identities = 11/66 (16%), Positives = 25/66 (37%), Gaps = 4/66 (6%)

Query: 345 VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLK 404
           +  A       ++  + +  L V      EQ +I +++      +D  +E   Q+   L+
Sbjct: 40  LLNAATGSTFPNVSKDQLHNLEVPDHSPFEQEEIASILGA----LDNKIELNRQTAATLE 95

Query: 405 ERRSSF 410
           E   + 
Sbjct: 96  EMARAL 101


>gi|183508621|ref|ZP_02689854.2| type I restriction enzyme S protein [Ureaplasma parvum serovar 14
           str. ATCC 33697]
 gi|182676080|gb|EDT87985.1| type I restriction enzyme S protein [Ureaplasma parvum serovar 14
           str. ATCC 33697]
          Length = 297

 Score = 56.3 bits (134), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 16/148 (10%), Positives = 39/148 (26%)

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFI 296
                              +   S   + + L+         +           +V    
Sbjct: 8   INEFCPNGVEFKKLKNIITVAPKSPFGVTKLLKMEKGNYLTITSGKKSFYVDNFLVDGEY 67

Query: 297 DLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS 356
              ND           + + +    A K +  +  YL + + +               ++
Sbjct: 68  IFVNDGGQADIKYNFGKTMYSDHIFAFKVNEYNIKYLYFYLLNISNFINKKLFIGSTLKN 127

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINV 384
           L  ++   L + +PPI  Q  I  +++ 
Sbjct: 128 LNKKEFLNLAIPIPPISIQNKIVEILDK 155


>gi|237726586|ref|ZP_04557067.1| type I restriction-modification system specificity determinant
           [Bacteroides sp. D4]
 gi|229435112|gb|EEO45189.1| type I restriction-modification system specificity determinant
           [Bacteroides dorei 5_1_36/D4]
          Length = 184

 Score = 56.3 bits (134), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 23/181 (12%), Positives = 59/181 (32%), Gaps = 14/181 (7%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILS--LSYGNIIQKLETRNMGLKPESYETYQ 284
            +PD W V     L   +N       E  +    +   N  +  +     ++    E   
Sbjct: 1   QLPDGWCVVTLKDLCENINGLWKGKKEPFVNVGVIRNANFTKDFKLDYSNIEYIDVEQRT 60

Query: 285 I----VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS------AYMAVKPHGIDSTYLA 334
                ++ G+++       ++    R+     +  + S      A        + S +L 
Sbjct: 61  FAKRHLENGDLIVEKSGGSDNNPVGRTILYEGKSGVFSFSNFTMALRTRNNDIVLSKFLY 120

Query: 335 WLMRSYDLC--KVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
           + + +             +   ++L  +    + + +PP+ EQ  I + I      +D++
Sbjct: 121 YYILAKYQKGDMRLMQTQTTGLRNLILDKFLSMLIHLPPLSEQKRIIDRIETIFTSLDMI 180

Query: 393 V 393
           +
Sbjct: 181 M 181



 Score = 49.8 bits (117), Expect = 0.001,   Method: Composition-based stats.
 Identities = 26/183 (14%), Positives = 59/183 (32%), Gaps = 19/183 (10%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTG------KYLPKDGNSRQS 73
            +P  W VV +K   +   G     GK   ++ +  + +          Y   +    + 
Sbjct: 1   QLPDGWCVVTLKDLCENINGL--WKGKKEPFVNVGVIRNANFTKDFKLDYSNIEYIDVEQ 58

Query: 74  DTSTVSIFAKGQILYGKLG-----PYLRKAIIADFDGICSTQFLVLQPKDVLP----ELL 124
            T        G ++  K G     P  R  +     G+ S     +  +           
Sbjct: 59  RTFAKRHLENGDLIVEKSGGSDNNPVGRTILYEGKSGVFSFSNFTMALRTRNNDIVLSKF 118

Query: 125 QGWLLSIDVTQRIEAICEGAT--MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
             + +     +    + +  T  + +       ++ + +PPL+EQ  I ++I      +D
Sbjct: 119 LYYYILAKYQKGDMRLMQTQTTGLRNLILDKFLSMLIHLPPLSEQKRIIDRIETIFTSLD 178

Query: 183 TLI 185
            ++
Sbjct: 179 MIM 181


>gi|313472058|ref|ZP_07812550.1| type I restriction-modification system, S subunit, EcoA family
           [Lactobacillus jensenii 1153]
 gi|313449060|gb|EEQ69088.2| type I restriction-modification system, S subunit, EcoA family
           [Lactobacillus jensenii 1153]
          Length = 345

 Score = 56.3 bits (134), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 33/214 (15%), Positives = 82/214 (38%), Gaps = 19/214 (8%)

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS-YG 262
           ++   + L P V+ +     W        +       V  + RKN  L  +  L++S   
Sbjct: 18  THADEQRLYPKVRFRGFDEPW--------KKVKLGRNVKRIRRKNKNLETNIPLTISAQF 69

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS-LRSAQVMERGIITSAYM 321
            ++ + +     +  E+   Y ++  GE  +     +      ++  +    G +++ Y+
Sbjct: 70  GLVDQRDFFGRVVASENLANYILLKRGEFAYNKSYSKEAPYGSIKRLEKYNEGALSTLYI 129

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQ----SLKFEDVKRLPVLVPPIKEQF 376
           A  P  I+S +L     +         + + G R     ++  +D   + + +P   EQ 
Sbjct: 130 AFTPENINSDFLKAFFDTTKWYSHIVQVSTEGARNHGLLNISPQDFFEMSITIPKSDEQN 189

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
           +I+ + N+     + L+   ++ + L K+   + 
Sbjct: 190 NISRIYNLM----NSLLSLQQRKLELEKQIFYAL 219



 Score = 45.2 bits (105), Expect = 0.020,   Method: Composition-based stats.
 Identities = 35/334 (10%), Positives = 85/334 (25%), Gaps = 43/334 (12%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIY-IGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           WK V + R  K    +      +I   I  +        +  +       + +   +  +
Sbjct: 38  WKKVKLGRNVKRIRRKNKNLETNIPLTISAQFGLVDQRDFFGR--VVASENLANYILLKR 95

Query: 84  GQILYGKLGPYLRKAIIAD-----FDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           G+  Y K                  +G  ST ++   P+++  + L+ +  +      I 
Sbjct: 96  GEFAYNKSYSKEAPYGSIKRLEKYNEGALSTLYIAFTPENINSDFLKAFFDTTKWYSHIV 155

Query: 139 AICEGATMSH----ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
            +      +H       +    + + IP   EQ  I          +     +     ++
Sbjct: 156 QVSTEGARNHGLLNISPQDFFEMSITIPKSDEQNNISRIYNLMNSLLSLQQRKLELEKQI 215

Query: 195 LKEKKQALVSY-IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIE 253
               K  + +  +   G    +K K   +      P+            ++   N     
Sbjct: 216 FYALKTHIFAKDLFFNGQKDMIKYKLKDVS-NMYQPETITATQMSTNGYKVFGAN----- 269

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
                  Y         ++  +                            +     V   
Sbjct: 270 ------GYIGHYYNFNHKDDAIT----------------ICARGASTGAVNFVPGPVWIT 307

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY 347
           G   S  + +    I+  Y  + + + +L  +  
Sbjct: 308 G--NSMVVDIDSKLINQLYFYYYLTTLNLKNILQ 339


>gi|224284021|ref|ZP_03647343.1| type I restriction-modification system DNA specificity subunit
           [Bifidobacterium bifidum NCIMB 41171]
 gi|313141179|ref|ZP_07803372.1| restriction modification system DNA specificity domain-containing
           protein [Bifidobacterium bifidum NCIMB 41171]
 gi|313133689|gb|EFR51306.1| restriction modification system DNA specificity domain-containing
           protein [Bifidobacterium bifidum NCIMB 41171]
          Length = 201

 Score = 56.3 bits (134), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 26/175 (14%), Positives = 62/175 (35%), Gaps = 8/175 (4%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIV 286
              +  +   F       N+ N +L   ++ +        +       ++      Y IV
Sbjct: 33  DPWEQRKFVDFVEASGIRNKDNLQLESYSVSNDRGFVPQDEQFENGGTMRDADKTAYWIV 92

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY-MAVKPHGIDSTYLAWLMRSYDLCKV 345
           +PG   +     + +  S+      +  I++S Y +       D  +L    +S    K 
Sbjct: 93  EPGSFAYNP--ARINVGSIGYQSTRKNVIVSSLYEVLKTDRSCDDRFLWHWFKSSLFTKQ 150

Query: 346 FYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
              +   G+R    F+ +++  + +P + EQ  I      +  ++D L+   ++ 
Sbjct: 151 IEMLQEGGVRLYFFFDKLQKSEIWMPNVDEQRIIG----QQFDQLDSLITLHQRK 201


>gi|197302010|ref|ZP_03167073.1| hypothetical protein RUMLAC_00740 [Ruminococcus lactaris ATCC
           29176]
 gi|197298958|gb|EDY33495.1| hypothetical protein RUMLAC_00740 [Ruminococcus lactaris ATCC
           29176]
          Length = 1196

 Score = 56.3 bits (134), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 26/181 (14%), Positives = 66/181 (36%), Gaps = 15/181 (8%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLS-YGNIIQKLETRNMGLKPESYETYQIVDP 288
           + WE +    LV  + RKN  L+    L++S    +I + E  +  +  +    Y +++ 
Sbjct: 4   NDWEQRKLVDLVDRVTRKNQDLVSELPLTISAQYGLIDQNEFFDKRVASKDVSGYYLIEN 63

Query: 289 GEIVFRF-IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS----TYLAWLMRSYDLC 343
           GE  +           +++     + G++++ Y+       +       +++   +    
Sbjct: 64  GEFAYNKSTSTDAPWGAIKRLDRYKNGVLSTLYIVFGIKENNPVDSDFLVSYYSTNLWHK 123

Query: 344 KVFYAMGSGLRQ----SLKFEDVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQ 398
            +      G R     ++   D     +++P  I+EQ  I          ++ L+    +
Sbjct: 124 GIHEIAAEGARNHGLLNIAPADFFETKLMIPQDIEEQKKIGKY----FEELERLITLHHR 179

Query: 399 S 399
            
Sbjct: 180 K 180



 Score = 44.4 bits (103), Expect = 0.033,   Method: Composition-based stats.
 Identities = 25/181 (13%), Positives = 53/181 (29%), Gaps = 12/181 (6%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIY-IGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
             W+   +       T +  +   ++   I  +       ++  K       D S   + 
Sbjct: 4   NDWEQRKLVDLVDRVTRKNQDLVSELPLTISAQYGLIDQNEFFDKR--VASKDVSGYYLI 61

Query: 82  AKGQILYGKLGPYLRKAIIAD-----FDGICSTQFLVLQPKDVLPEL----LQGWLLSID 132
             G+  Y K                  +G+ ST ++V   K+  P      +  +  ++ 
Sbjct: 62  ENGEFAYNKSTSTDAPWGAIKRLDRYKNGVLSTLYIVFGIKENNPVDSDFLVSYYSTNLW 121

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
                E   EGA           +       + + +  ++KI      ++ LIT   R  
Sbjct: 122 HKGIHEIAAEGARNHGLLNIAPADFFETKLMIPQDIEEQKKIGKYFEELERLITLHHRKQ 181

Query: 193 E 193
            
Sbjct: 182 N 182


>gi|269978330|gb|ACZ55899.1| putative type I restriction-modification system specificity subunit
           S [Helicobacter pylori]
          Length = 330

 Score = 56.3 bits (134), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 38/367 (10%), Positives = 92/367 (25%), Gaps = 46/367 (12%)

Query: 50  YIGLEDVESGT-GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICS 108
           +I   D+         P+  +     +   +      IL G +G      +  D     +
Sbjct: 2   FITPNDLHGTYRIIKTPRTLSDSGLKSIQNNTIDNTSILVGCIGDVGMVRMCFDKCA-TN 60

Query: 109 TQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQV 168
            Q   +            +    +  +  + I     +          I + +P +  Q 
Sbjct: 61  QQINSITDIKDFCNPYYLYYYLSNKKELFKNIALSTVVPIIPKTIFQEIEILLPNIKTQQ 120

Query: 169 LIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLV 228
            I   +     +I+                                              
Sbjct: 121 KIARTLSILDQKIENNHKINELL------------------------------------- 143

Query: 229 PDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDP 288
             H      +    +   KN KL +  I +     +++  +         +     +  P
Sbjct: 144 --HNLAHKVYEYYFKYKPKNAKLEQIIIENPKSNIMVKNAQKTQDKYPFFTSGDNILSYP 201

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA 348
             I+       N   +      + +   ++    +  +   S YL  L+ S         
Sbjct: 202 KAIIDGRNCFLNTGGNAGIKFYVGKASYSTDTWCICANEF-SDYLYLLLSSIKNHINQSF 260

Query: 349 MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
                 + L+   +K+ P+ +P   E      +I         L+    ++   L++ R 
Sbjct: 261 FQGTSLKHLQKNLLKKYPIYMPSAHEIKKFNQIIMPLL----TLISINTRTSKKLEQIRD 316

Query: 409 SFIAAAV 415
             +   +
Sbjct: 317 FLLPLLL 323


>gi|310287617|ref|YP_003938875.1| truncated HsdS specificity protein of Type I
           restriction-modification system [Bifidobacterium bifidum
           S17]
 gi|309251553|gb|ADO53301.1| truncated HsdS specificity protein of Type I
           restriction-modification system [Bifidobacterium bifidum
           S17]
          Length = 168

 Score = 56.3 bits (134), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 16/111 (14%), Positives = 39/111 (35%), Gaps = 6/111 (5%)

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKP--HGIDSTYLAWLMRSYDLCKVFYAMGSGL 353
                 + +L  A++ +   +      + P         L + +       + +      
Sbjct: 3   TRSGILRHTLPVAELRKPSTVNQDIRVILPQGECCGEWLLQFFISHNKELLLEFGKTGTT 62

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLK 404
            +S+ F  +K + + +P   EQ  I +      A++D L+   ++    LK
Sbjct: 63  VESVDFGKIKDMLLYMPSTVEQQQIGDF----FAKLDSLITLHQRKRQWLK 109


>gi|93007190|ref|YP_581627.1| N-6 DNA methylase [Psychrobacter cryohalolentis K5]
 gi|92394868|gb|ABE76143.1| N-6 DNA methylase [Psychrobacter cryohalolentis K5]
          Length = 600

 Score = 56.3 bits (134), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 21/150 (14%), Positives = 51/150 (34%), Gaps = 16/150 (10%)

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII---- 316
            G+I    +  N+     +      + P +I+F           +               
Sbjct: 446 IGDISVPTKEANISESERAKNQTGFLQPNDIIFILKGSAGKLGIVPEDVPTTGDRCWMVN 505

Query: 317 -TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKE 374
            ++  +      ++   L   ++S         +  G    ++  +++K++PV+VP ++E
Sbjct: 506 RSAIVIRTISDKVNPKVLYAYLKSDIGQTQISGLIKGATIPNISLKELKQIPVIVPSLEE 565

Query: 375 Q-FDITNVINVETARIDVLVEKIEQSIVLL 403
           +   I          ID   E  +++I  L
Sbjct: 566 REQAIAC--------IDKSRE-TQKAIQKL 586


>gi|227890486|ref|ZP_04008291.1| possible type I RM system S subunit [Lactobacillus johnsonii ATCC
           33200]
 gi|227848957|gb|EEJ59043.1| possible type I RM system S subunit [Lactobacillus johnsonii ATCC
           33200]
          Length = 171

 Score = 56.3 bits (134), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 19/164 (11%), Positives = 47/164 (28%), Gaps = 8/164 (4%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL-----KPESYE 281
             P+         + +        L             ++        +           
Sbjct: 8   KYPEKALENYINFITSGSRGWAKYLTPKGKAWFLTIKNVKNSHIVINNIQSVEPPDSKEA 67

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA--YMAVKPHGIDSTYLAWLMRS 339
               V  G+++            + S        I      + +    I+  Y ++ + +
Sbjct: 68  QRTKVKEGDLLISITADLGRTGVVSSDIASHGTYINQHLTCIRLNTEFINPVYASYFLET 127

Query: 340 YDLCKVFY-AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
               + F     +G++  L F+ +K L +++PPIK Q    + +
Sbjct: 128 VAGKRQFNSKNQNGVKAGLNFDAIKSLKIIIPPIKRQNSFVSFV 171


>gi|323939694|gb|EGB35898.1| type I restriction modification DNA specificity domain-containing
           protein [Escherichia coli E482]
          Length = 249

 Score = 56.3 bits (134), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 30/216 (13%), Positives = 63/216 (29%), Gaps = 26/216 (12%)

Query: 26  KVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           + +P+ +   L  G T    K       DI +  ++D+                      
Sbjct: 17  EWLPLSKVFNLRNGYTPSKTKKEFWANGDIPWFRMDDIRENGRILGNSLQKISSCAVKGG 76

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELL---QGWLLSIDVTQ 135
            +F +  IL          A+I     + + +F  L  K+   +       +     + +
Sbjct: 77  KLFPENSILISTSATIGEHALITVPH-LANQRFTCLALKESYADCFDIKFLFYYCFSLAE 135

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPP-------LAEQVLIREKIIAETVRIDTLITER 188
                   ++ +  D  G     +P P        LA Q  I   +   +     L  E 
Sbjct: 136 WCRKNTTMSSFASVDMDGFKKFLIPRPCPDNPEKSLAIQSEIVRILDKFSELTAELTAEL 195

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEW 224
              + + K++       ++           +S +EW
Sbjct: 196 TAELNMRKKQYNYYRDQLL--------SFDESSVEW 223



 Score = 50.9 bits (120), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 22/210 (10%), Positives = 57/210 (27%), Gaps = 19/210 (9%)

Query: 217 MKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKL---ETRNM 273
           M    +EW+ L     +V       T    K       +I      +I +          
Sbjct: 11  MDGVEVEWLPLS----KVFNLRNGYTPSKTKKEFWANGDIPWFRMDDIRENGRILGNSLQ 66

Query: 274 GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL 333
            +   + +  ++     I+        +   +    +  +     A         D  +L
Sbjct: 67  KISSCAVKGGKLFPENSILISTSATIGEHALITVPHLANQRFTCLALKESYADCFDIKFL 126

Query: 334 AWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-------PIKEQFDITNVINVET 386
            +   S                S+  +  K+  +  P        +  Q +I  +++  +
Sbjct: 127 FYYCFSLA-EWCRKNTTMSSFASVDMDGFKKFLIPRPCPDNPEKSLAIQSEIVRILDKFS 185

Query: 387 ARIDVLVEKIEQSIVLLKE----RRSSFIA 412
                L  ++   + + K+     R   ++
Sbjct: 186 ELTAELTAELTAELNMRKKQYNYYRDQLLS 215


>gi|291529889|emb|CBK95474.1| Type I restriction modification DNA specificity domain [Eubacterium
           siraeum 70/3]
          Length = 174

 Score = 56.3 bits (134), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 24/133 (18%), Positives = 52/133 (39%), Gaps = 10/133 (7%)

Query: 274 GLKPESYETYQIVDPGEIVFRFIDLQNDKRS-LRSAQVMERGIITSAYMAV---KPHGID 329
            +       Y+++   +     + +  D+R  +      E  I++ AY          ++
Sbjct: 42  NVIGTDLSKYKLITKDKFACNPMHVGRDERLPVALYTEDEPAIVSPAYFMFEIIDNSILN 101

Query: 330 STYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
             YL    R  +  ++ +      +R  + ++D+ R+ V VPP+ EQ +I       T R
Sbjct: 102 EDYLMMWFRRPEFDRLCWLRTDGSVRGGITWDDICRMKVPVPPLDEQIEIVQSYQAITDR 161

Query: 389 IDVLVEKIEQSIV 401
           I      +++ I 
Sbjct: 162 I-----ALKKQIN 169


>gi|225352854|ref|ZP_03743877.1| hypothetical protein BIFPSEUDO_04488 [Bifidobacterium
           pseudocatenulatum DSM 20438]
 gi|225352864|ref|ZP_03743887.1| hypothetical protein BIFPSEUDO_04498 [Bifidobacterium
           pseudocatenulatum DSM 20438]
 gi|225156304|gb|EEG69873.1| hypothetical protein BIFPSEUDO_04498 [Bifidobacterium
           pseudocatenulatum DSM 20438]
 gi|225156314|gb|EEG69883.1| hypothetical protein BIFPSEUDO_04488 [Bifidobacterium
           pseudocatenulatum DSM 20438]
          Length = 173

 Score = 56.3 bits (134), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 31/143 (21%), Positives = 58/143 (40%), Gaps = 13/143 (9%)

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
             I    E+        S   Y+IV  G++V+  + +               GI++ AY+
Sbjct: 7   NGIYPASESDRETNPGASLANYKIVHFGDVVYNSMRMWQGAVDASRYD----GIVSPAYV 62

Query: 322 AVKPH-GIDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVP-PIKEQF 376
             +P+  + + + A L+R   L K +  +  G     Q LKF+D   + + +P    EQ 
Sbjct: 63  VARPNSEVYARFFARLLRQPMLLKQYQQVSQGNSKDTQVLKFDDFASIGISMPASENEQR 122

Query: 377 DITNVINVETARIDVLVEKIEQS 399
            I    +    R+D L+   ++ 
Sbjct: 123 QIGGFFD----RLDSLITLHQRK 141



 Score = 45.6 bits (106), Expect = 0.014,   Method: Composition-based stats.
 Identities = 18/141 (12%), Positives = 40/141 (28%), Gaps = 7/141 (4%)

Query: 56  VESGTGKYLPKDGNSRQS---DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFL 112
           V    G Y   + +   +     +   I   G ++Y  +  +      + +DGI S  ++
Sbjct: 3   VSVANGIYPASESDRETNPGASLANYKIVHFGDVVYNSMRMWQGAVDASRYDGIVSPAYV 62

Query: 113 VLQPKDVLPELLQG---WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIP-PLAEQV 168
           V +P   +             +    +  +           +    +I + +P    EQ 
Sbjct: 63  VARPNSEVYARFFARLLRQPMLLKQYQQVSQGNSKDTQVLKFDDFASIGISMPASENEQR 122

Query: 169 LIREKIIAETVRIDTLITERI 189
            I          I     +  
Sbjct: 123 QIGGFFDRLDSLITLHQRKYC 143


>gi|186701786|ref|ZP_02971464.1| restriction modification enzyme subunit s2a [Ureaplasma parvum
           serovar 6 str. ATCC 27818]
 gi|186701064|gb|EDU19346.1| restriction modification enzyme subunit s2a [Ureaplasma parvum
           serovar 6 str. ATCC 27818]
          Length = 380

 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 46/388 (11%), Positives = 108/388 (27%), Gaps = 24/388 (6%)

Query: 27  VVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD---TSTVSIFAK 83
           +  +     +  G           I  + +E   G Y      + ++          + K
Sbjct: 3   IYKLYELVNIYKGSN--------LITKKYIEQNKGIYPVISSKTTENGVYGFINTYDYEK 54

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA--IC 141
            +I     G         + +   +   LV     ++    +   L++   +      I 
Sbjct: 55  DKITMSSDGENAGTTFWQEKNFSLTNHALVFIMNKLIKYNYKYLFLTLKKHESKIKDLII 114

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL-----ITERIRFIELLK 196
            G+T        + +I + +P + EQ  I   I               I+        + 
Sbjct: 115 SGSTRPGVSLNLLKSINIKLPSIEEQDAIISIIEPIEKLFVKYSNLVDISSVENVKRDID 174

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
                +    V +     +K+    +       ++      F        K  K      
Sbjct: 175 NLISIIKPLDVLENKINKLKITLKKLLTNLYDKNYNSHVNLFENNKIYTNKYLKQNLYCD 234

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
            S      I   +  N+ L+ +       +    I+F  +  +N           E  + 
Sbjct: 235 TSCIGELEINFSKMINISLEDKPSRADLSIKNNSIIFSKLLGENKVYC---FLNNENIVF 291

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQ 375
           ++ +  +K +  ++  L   + S D       + +G     +   D+ ++    P +   
Sbjct: 292 STGFFNIKSNNENNDDLLSFLLSSDFKNQKSMLANGTTMIGINNSDLTKIRCKAPFLN-- 349

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLL 403
            +I      +   I+  +      IV L
Sbjct: 350 SNIYFTFFNKLNEIENKITLTRNKIVYL 377


>gi|295110204|emb|CBL24157.1| Restriction endonuclease S subunits [Ruminococcus obeum A2-162]
          Length = 303

 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 41/287 (14%), Positives = 83/287 (28%), Gaps = 24/287 (8%)

Query: 29  PIKRFTKLNTGRTSESG-------KDIIYIGLEDVESGTGKYLPKDGNSRQS---DTSTV 78
            +K    L  G+T           K+  +I + D+ + TGKY+ +          D S +
Sbjct: 4   KLKDIFDLQMGKTPSRNHTEYWNTKEHKWISIADL-TKTGKYISETKECLSDCAIDDSGI 62

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
            +     ++        + AI  +     +   +    K V   L +            E
Sbjct: 63  KVIPANTVVMSFKLSIGKTAITVEDMYS-NEAIMAFHDKHVAEILPEYIYYMFKYKNWDE 121

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
              +       +   +  + + I  L EQ  I + +      + +  TE     +L    
Sbjct: 122 GSNKAVMGKTLNKATLSEVEIDICSLEEQREIVKVLDKMMTVLGSRETELSLLDDL---- 177

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
              + +  V    +     KD  I     +      K   A      R+   L  +N+  
Sbjct: 178 ---IKARFVEMFGDVIHNSKDWPIYTFSEITSSRLGKMLDAKKQTGKRRYPYLANTNVKW 234

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
             +     +LE  N     E+      +  G+++             
Sbjct: 235 FRF-----ELENLNQMDFDEAERVEFELKDGDLLVCEGGEIGRCAVW 276



 Score = 49.8 bits (117), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 18/184 (9%), Positives = 50/184 (27%), Gaps = 25/184 (13%)

Query: 233 EVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY--------- 283
                  +      K      +   +      I   +    G      +           
Sbjct: 1   MKYKLKDIFDLQMGKTPSRNHTEYWNTKEHKWISIADLTKTGKYISETKECLSDCAIDDS 60

Query: 284 --QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD 341
             +++    +V  F                   I+  A+       I   Y+ ++ +  +
Sbjct: 61  GIKVIPANTVVMSFKLSIGKTAITVEDMYSNEAIM--AFHDKHVAEILPEYIYYMFKYKN 118

Query: 342 LCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINV----------ETARIDV 391
             +       G  ++L    +  + + +  ++EQ +I  V++           E + +D 
Sbjct: 119 WDEGSNKAVMG--KTLNKATLSEVEIDICSLEEQREIVKVLDKMMTVLGSRETELSLLDD 176

Query: 392 LVEK 395
           L++ 
Sbjct: 177 LIKA 180


>gi|240047663|ref|YP_002961051.1| hypothetical protein MCJ_005490 [Mycoplasma conjunctivae HRC/581]
 gi|239985235|emb|CAT05248.1| PUTATIVE Uncharacterized protein MJ1218 [Mycoplasma conjunctivae]
          Length = 138

 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 17/106 (16%), Positives = 36/106 (33%), Gaps = 6/106 (5%)

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
                    ++       +  D  ++  L+ SY   +    +     + + F++  +   
Sbjct: 34  FLPTNTAFCSTMSALTSKNNFDIYFIYSLLSSYFPIESI--ISGTTIKHIYFKNYGQFEY 91

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            VP IKEQ  I          ID L+   E  +  ++  + S +  
Sbjct: 92  FVPSIKEQQKIA----KVFENIDNLLNLYELKLQKIEMIKKSLLDK 133


>gi|68250155|ref|YP_249267.1| putative type I restriction enzyme HindVIIP specificity protein
           [Haemophilus influenzae 86-028NP]
 gi|68058354|gb|AAX88607.1| putative type I restriction enzyme HindVIIP specificity protein
           [Haemophilus influenzae 86-028NP]
          Length = 421

 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 25/196 (12%), Positives = 53/196 (27%), Gaps = 11/196 (5%)

Query: 20  AIPKHWKVVPIKRFTKLNTG---RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            +PK W+V  +        G   +      D  ++ +  +      Y   D  ++ +   
Sbjct: 233 EVPKGWEVKALDEIANYQNGLALQKFRPEDDEPFLPVVKIAQLRQGYADGDEKAKAN-IK 291

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
              I   G +++   G  L   I        +     +  K+        +        +
Sbjct: 292 PECIIDNGDVIFSWSGSLL-VDIWCGGKAALNQHLFKVSSKEYPKWFYYFYTKHHLTEFQ 350

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
             A  +  TM H   + +      +P                  I   I         L+
Sbjct: 351 RIAYDKAVTMGHIKREHLSAAKCIVPNDEL------LANKTLENILEKIIFNRLENFNLQ 404

Query: 197 EKKQALVSYIVTKGLN 212
             +  L+  ++   LN
Sbjct: 405 NTRDLLLPRLLNGELN 420



 Score = 45.9 bits (107), Expect = 0.012,   Method: Composition-based stats.
 Identities = 11/104 (10%), Positives = 35/104 (33%), Gaps = 7/104 (6%)

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
               +   + +        G    ++ +L++S D              +L    +  + +
Sbjct: 63  YIEKDFFPLNTTLYVKDFKGHYPRFIYYLLKSIDFTSF---NVGTGVPTLNRNHLSSILI 119

Query: 368 LVPPIKEQFDITNVINVETARI--DVLVEKIEQSIVLLKERRSS 409
               I+++ +I N++     +I  +  + +  + I   +    S
Sbjct: 120 SDLGIEKEKEIANILGSLDQKIQLNTQINQTLEQIA--QALFKS 161



 Score = 40.2 bits (92), Expect = 0.67,   Method: Composition-based stats.
 Identities = 54/445 (12%), Positives = 120/445 (26%), Gaps = 84/445 (18%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
           +P+  F  L  G    S K I               +P   ++  +            ++
Sbjct: 4   IPLNEFITLQRGFDLPSNKRI------------SGSVPVVASTGIAGYHNEIKVKAPGVV 51

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMS 147
            G+ G       I       +T   V   K   P  +   L SID T    +   G  + 
Sbjct: 52  IGRSGSIGGGQYIEKDFFPLNTTLYVKDFKGHYPRFIYYLLKSIDFT----SFNVGTGVP 107

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS--- 204
             +   + +I +    + ++  I   + +   +I           ++ +   ++      
Sbjct: 108 TLNRNHLSSILISDLGIEKEKEIANILGSLDQKIQLNTQINQTLEQIAQALFKSWFVDFD 167

Query: 205 ------YIVTKGL------------------------------------NPDVKMKDSGI 222
                   ++ GL                                              +
Sbjct: 168 PVRAKVQALSDGLSLEQAELAAIQAISGKTPEELTALSQTQPERYAELAETAKAFPCEMV 227

Query: 223 EWVG-LVPDHWEVKPFFALVTELNR----KNTKLIESNILSLSYGNIIQKLETRNMGLKP 277
           E  G  VP  WEVK    +    N     K     +   L +     +++          
Sbjct: 228 EVDGVEVPKGWEVKALDEIANYQNGLALQKFRPEDDEPFLPVVKIAQLRQGYADGDEKAK 287

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
            + +   I+D G+++F +         L       +  +      V        +  +  
Sbjct: 288 ANIKPECIIDNGDVIFSWSGSL-----LVDIWCGGKAALNQHLFKVSSKEY-PKWFYYFY 341

Query: 338 RSY---DLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV-INVETARIDVLV 393
             +   +  ++ Y         +K E +     +VP  +    + N  +     +I  + 
Sbjct: 342 TKHHLTEFQRIAYDKAV-TMGHIKREHLSAAKCIVPNDEL---LANKTLENILEKI--IF 395

Query: 394 EKIEQSIVLLKERRSSFIAAAVTGQ 418
            ++E     L+  R   +   + G+
Sbjct: 396 NRLENF--NLQNTRDLLLPRLLNGE 418


>gi|313112143|ref|ZP_07797924.1| hypothetical protein PA39016_004130022 [Pseudomonas aeruginosa
           39016]
 gi|310884426|gb|EFQ43020.1| hypothetical protein PA39016_004130022 [Pseudomonas aeruginosa
           39016]
          Length = 180

 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 21/132 (15%), Positives = 47/132 (35%), Gaps = 6/132 (4%)

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC 343
            ++  G+I        N+K +L + Q           ++ K   +   YL WL+      
Sbjct: 53  PLLQSGDIAVIARG-DNNKAALFTGQQPVVATSQFFIVSTKKQDVLPEYLCWLINLPQSQ 111

Query: 344 KVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFD-ITNVINVETARIDVLVEKIEQSIVL 402
           +     GS ++  +    +  + + +PP+  Q   I   +       D L+ +++ +   
Sbjct: 112 RSLERSGSAIQA-ISKASLLDMRIPLPPLATQQKLIA--LQALWDEEDELIARLQTNREQ 168

Query: 403 -LKERRSSFIAA 413
            L+      I  
Sbjct: 169 MLQGIYQHLIKD 180


>gi|315641377|ref|ZP_07896452.1| type I restriction enzyme specificity protein [Enterococcus
           italicus DSM 15952]
 gi|315482870|gb|EFU73391.1| type I restriction enzyme specificity protein [Enterococcus
           italicus DSM 15952]
          Length = 152

 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 22/132 (16%), Positives = 49/132 (37%), Gaps = 13/132 (9%)

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS---AYMAVKPHG 327
                    + + + +  G+++F       +   +      + G I S        K   
Sbjct: 29  YGDEKLYRKWMSGRELKKGQVLFTTEAPMGNVAQVP----DDNGYILSQRTVAFETKEDM 84

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVP-PIKEQFDITNVINVE 385
           + + +LA L++S  +     A+ SG   + +  + +K L + VP  I EQ  I +     
Sbjct: 85  MTNDFLAVLLKSPLVFNNLSALSSGGTAKGVSQKSLKGLSITVPLDIDEQQKIGSF---- 140

Query: 386 TARIDVLVEKIE 397
             ++D  +   +
Sbjct: 141 FKQLDETIALHQ 152


>gi|328946728|gb|EGG40866.1| hypothetical protein HMPREF9397_0251 [Streptococcus sanguinis
           SK1087]
          Length = 178

 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 20/131 (15%), Positives = 52/131 (39%), Gaps = 7/131 (5%)

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER---GIITSAYMAVK 324
                   +   +        G+ +   I    +        +++    G  ++ ++ V+
Sbjct: 38  FTRDIPEFEYLEFRGGTKFRNGDTLMARITPSLENGKTSKVNLLDEDEVGFGSTEFIVVR 97

Query: 325 P--HGIDSTYLAWLMRSYDLCK--VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
              +  D  ++ +LM + ++ +  +   +G+  RQ ++ + VK   +L PP+KEQ  I  
Sbjct: 98  SKENISDENFVYYLMIAPNIREVAIKSMVGTSGRQRVQLDVVKNHEILCPPLKEQIRIGK 157

Query: 381 VINVETARIDV 391
            +     +I+ 
Sbjct: 158 TLKALDDKIEN 168



 Score = 45.2 bits (105), Expect = 0.018,   Method: Composition-based stats.
 Identities = 35/179 (19%), Positives = 65/179 (36%), Gaps = 14/179 (7%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            +WK V +    + N   T   G     I +E++E  T      +      +    + F 
Sbjct: 2   NNWKKVKLSDIIEFNPRETLSKGAIAKKIAMENLEPFTRDIPEFEY----LEFRGGTKFR 57

Query: 83  KGQILYGKLGPYLRKAII-------ADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
            G  L  ++ P L             D  G  ST+F+V++ K+ + +    + L I    
Sbjct: 58  NGDTLMARITPSLENGKTSKVNLLDEDEVGFGSTEFIVVRSKENISDENFVYYLMIAPNI 117

Query: 136 R---IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
           R   I+++   +         + N  +  PPL EQ+ I + + A   +I+         
Sbjct: 118 REVAIKSMVGTSGRQRVQLDVVKNHEILCPPLKEQIRIGKTLKALDDKIENNKKINHHL 176


>gi|257465466|ref|ZP_05629837.1| restriction modification system DNA specificity subunit
           [Actinobacillus minor 202]
 gi|257451126|gb|EEV25169.1| restriction modification system DNA specificity subunit
           [Actinobacillus minor 202]
          Length = 191

 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 20/140 (14%), Positives = 49/140 (35%), Gaps = 3/140 (2%)

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG--IDSTYL 333
           K +  +    +  G+I+            +  ++     + +  +  ++P    I   YL
Sbjct: 51  KLDRVKENDWLRKGDILLATRGNNYQPIFVEFSRQNLPAVASPHFFVIRPKNAEILPEYL 110

Query: 334 AWLMRSYDLCKV-FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            W +      K     +   + +SL+   +  L + +P + +Q  I  ++         L
Sbjct: 111 QWWLNLKQSQKYLIQNLEGSITKSLRLPALAELSIKIPSLAKQNVIVQMVKTLAQERKTL 170

Query: 393 VEKIEQSIVLLKERRSSFIA 412
            + IE +  L+       I+
Sbjct: 171 QKLIENNEKLMNALAQELIS 190



 Score = 41.7 bits (96), Expect = 0.21,   Method: Composition-based stats.
 Identities = 35/187 (18%), Positives = 69/187 (36%), Gaps = 12/187 (6%)

Query: 30  IKRFTKLNTG-----RTS-ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           ++    + TG     +   +   +++ + ++D     G        ++           K
Sbjct: 4   LEDVANIQTGFLFRAKVPEDPNGNVVVVQMKDCSFFDGIAWDNCVRTKLDRVKENDWLRK 63

Query: 84  GQILYGKLGPYLRKAII----ADFDGICSTQFLVLQPKD--VLPELLQGWLLSIDVTQRI 137
           G IL    G   +   +     +   + S  F V++PK+  +LPE LQ WL      + +
Sbjct: 64  GDILLATRGNNYQPIFVEFSRQNLPAVASPHFFVIRPKNAEILPEYLQWWLNLKQSQKYL 123

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
               EG+         +  + + IP LA+Q +I + +        TL        +L+  
Sbjct: 124 IQNLEGSITKSLRLPALAELSIKIPSLAKQNVIVQMVKTLAQERKTLQKLIENNEKLMNA 183

Query: 198 KKQALVS 204
             Q L+S
Sbjct: 184 LAQELIS 190


>gi|73748046|ref|YP_307285.1| putative type I restriction enzyme, specificity protein
           [Dehalococcoides sp. CBDB1]
 gi|73659762|emb|CAI82369.1| putative type I restriction enzyme, specificity protein
           [Dehalococcoides sp. CBDB1]
          Length = 222

 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 27/160 (16%), Positives = 54/160 (33%), Gaps = 7/160 (4%)

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
           K    N   +  S    Q      +      L +                   + A+ P 
Sbjct: 67  KGIYINKTERNISQMGLQSCSATLLPQNSCLLTSRATIGECRINTIPMATNQGFAALVPK 126

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-PIKEQFDITNVINVE 385
              ++Y  + +                   +   +++R+   VP   +EQ  I NVI   
Sbjct: 127 AGTNSYFLFYLTYLLKPTFVRLAAGTTYTEISKRELRRVKCRVPETEEEQAKIANVIKAV 186

Query: 386 TARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGES 425
               D L    ++S++L+   R+S +   +TG++ L+ E+
Sbjct: 187 D---DALACTPDESLMLM---RTSLVQNLMTGKVYLKPEA 220



 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 31/195 (15%), Positives = 62/195 (31%), Gaps = 15/195 (7%)

Query: 25  WKVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYLPKDGNSRQ---SD 74
           W V  +    K+  G T ++G        +I +    D+ S  G Y+ K   +       
Sbjct: 25  WPVKTVGDIAKVIGGGTPDTGVPQYWNPAEIPWATPTDITSCKGIYINKTERNISQMGLQ 84

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
           + + ++  +   L       + +  I       +  F  L PK         +L  + + 
Sbjct: 85  SCSATLLPQNSCLLTS-RATIGECRINTIPMATNQGFAALVPKAGTNSYFLFYLTYL-LK 142

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPP-LAEQVLIREKIIAETVRIDTLITERIRFIE 193
                +  G T +    + +  +   +P    EQ  I   I A    +    T     + 
Sbjct: 143 PTFVRLAAGTTYTEISKRELRRVKCRVPETEEEQAKIANVIKAVDDALA--CTPDESLML 200

Query: 194 LLKEKKQALVSYIVT 208
           +     Q L++  V 
Sbjct: 201 MRTSLVQNLMTGKVY 215


>gi|282881753|ref|ZP_06290414.1| HsdS [Peptoniphilus lacrimalis 315-B]
 gi|281298403|gb|EFA90838.1| HsdS [Peptoniphilus lacrimalis 315-B]
          Length = 159

 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 21/161 (13%), Positives = 53/161 (32%), Gaps = 9/161 (5%)

Query: 233 EVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ--IVDPGE 290
                  +V     ++ K    N     Y  +             ++Y T        G+
Sbjct: 1   MRYRLDEIVDVTMGQSPKSEYYNTEKNGYPFLQGNRTFGFKYPTFDTYTTVMTKSAKAGD 60

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG 350
           ++                  + RG+ +     ++    + ++L ++M+ Y +  +     
Sbjct: 61  VIMSVRAPVGALNITPVDMCLGRGVCS-----LRMKNGNQSFLFYMMK-YYISHLLKKES 114

Query: 351 SGLRQSLKFEDVKRLPVLVP-PIKEQFDITNVINVETARID 390
             +  S+   D+  L V +P  ++EQ  I   + +   +I+
Sbjct: 115 GTVFGSVNRNDIIGLEVDIPEDVEEQNKIARYLEMIDDKIE 155


>gi|303267753|ref|ZP_07353557.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae BS457]
 gi|302642714|gb|EFL73057.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae BS457]
          Length = 172

 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/128 (10%), Positives = 43/128 (33%), Gaps = 7/128 (5%)

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKR--SLRSAQVMERGIITS 318
             +     E +N+ +     +    V+ G+++   ++            A   +   +  
Sbjct: 43  SYDYFNSSEVKNLPIDYIPLDE-HKVEIGDVIISRMNTSELVGAAGYVWAINSDNIYLPD 101

Query: 319 AYMAVKPHGIDSTYLAWLM----RSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKE 374
               V  +   +    W +    ++    K   +  SG  +++    + ++ V  PP+  
Sbjct: 102 RLWKVILNDRVNPVFLWKLITNEKTKLKIKRISSGTSGSMKNISKSQLLQIRVPFPPLAL 161

Query: 375 QFDITNVI 382
           Q +  + +
Sbjct: 162 QNEFADFV 169


>gi|321222503|gb|EFX47575.1| Type I restriction-modification system, specificity subunit S
           [Salmonella enterica subsp. enterica serovar Typhimurium
           str. TN061786]
          Length = 95

 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 11/51 (21%), Positives = 26/51 (50%)

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           ++PP++EQ +I   +    A  D + +++  ++  +     S +A A  G+
Sbjct: 2   ILPPLQEQHEIVRRVEQLFAYADTIEKQVNNALTRVNSLTQSILAKAFRGE 52


>gi|269978322|gb|ACZ55895.1| putative type I restriction-modification system specificity subunit
           S [Helicobacter pylori]
          Length = 355

 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 42/360 (11%), Positives = 97/360 (26%), Gaps = 21/360 (5%)

Query: 50  YIGLEDVESGT-GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICS 108
           +I   D+         P+  +     +   +      IL G +G      +  D     +
Sbjct: 2   FITPNDLHGTYRIIKTPRTLSDSGLKSIQNNTINNTSILVGCIGDVGMVRMCFDKCA-TN 60

Query: 109 TQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQV 168
            Q   +            +    +  +  + I     +          I + +P +  Q 
Sbjct: 61  QQINSITDIKDFCNPYYLYYYLSNKKELFKNIAFSTVVPIIPKTIFQEIEVLLPNIETQQ 120

Query: 169 LIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLV 228
            I   +      +D  I    +  ELL +  + L      +    D   K        + 
Sbjct: 121 KIARTL----SILDQKIENNHKINELLHKILELLYEQYFVRFDFLDENNKPYQTSGGKMK 176

Query: 229 PDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDP 288
                 +                ++    + ++ +   K         P   ETYQ    
Sbjct: 177 FSKELNRLIPNDFEVKTLGELTQLKVGNKNANHSSNQGKYPFFTCSNNPLKCETYQFEGK 236

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA 348
             I+    +      + +        ++        P+  +   L +L        +   
Sbjct: 237 HIIISGNGNFYVTHYNGKFDAYQRTYVVN-------PNNPNHYVLIYLFVKSYTNYLKLQ 289

Query: 349 MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
               + + +   D++ + +++P +K      NV+         ++E   QS   L   R 
Sbjct: 290 SRGSIIKFITKSDIENIKIVLPNLKTYTKWNNVL--------KMIENNNQSTQTLTALRD 341


>gi|239998600|ref|ZP_04718524.1| Type I restriction-modification system specificity determinant
           [Neisseria gonorrhoeae 35/02]
 gi|240013723|ref|ZP_04720636.1| Type I restriction-modification system specificity determinant
           [Neisseria gonorrhoeae DGI18]
 gi|240080305|ref|ZP_04724848.1| Type I restriction-modification system specificity determinant
           [Neisseria gonorrhoeae FA19]
 gi|240112517|ref|ZP_04727007.1| Type I restriction-modification system specificity determinant
           [Neisseria gonorrhoeae MS11]
 gi|240115257|ref|ZP_04729319.1| Type I restriction-modification system specificity determinant
           [Neisseria gonorrhoeae PID18]
 gi|240120793|ref|ZP_04733755.1| Type I restriction-modification system specificity determinant
           [Neisseria gonorrhoeae PID24-1]
 gi|240123098|ref|ZP_04736054.1| Type I restriction-modification system specificity determinant
           [Neisseria gonorrhoeae PID332]
 gi|240125349|ref|ZP_04738235.1| Type I restriction-modification system specificity determinant
           [Neisseria gonorrhoeae SK-92-679]
 gi|240127802|ref|ZP_04740463.1| Type I restriction-modification system specificity determinant
           [Neisseria gonorrhoeae SK-93-1035]
          Length = 138

 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/126 (11%), Positives = 34/126 (26%), Gaps = 10/126 (7%)

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA 348
            +I+   I     K           G +    + V    ++  YL  ++           
Sbjct: 7   NDILIGNIRPYLKKIWQADCTGGTNGDV--LVIRVTDEKVNPKYLYQVLADDKFFAFNMK 64

Query: 349 MGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL-------VEKIEQSI 400
              G          + +  + +PP+ EQ  I  ++         +       +    +  
Sbjct: 65  HAKGAKMPRGSKAAIMQYKIPIPPLPEQEKIVAILGKFDTLTHSVSEGLPHEIALRRKQY 124

Query: 401 VLLKER 406
              +E+
Sbjct: 125 EYYREQ 130



 Score = 38.2 bits (87), Expect = 2.6,   Method: Composition-based stats.
 Identities = 30/128 (23%), Positives = 48/128 (37%), Gaps = 2/128 (1%)

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQP--KDVLPELLQGWLLSIDVTQRIEAIC 141
             IL G + PYL+K   AD  G  +   LV++   + V P+ L   L             
Sbjct: 7   NDILIGNIRPYLKKIWQADCTGGTNGDVLVIRVTDEKVNPKYLYQVLADDKFFAFNMKHA 66

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
           +GA M       I    +PIPPL EQ  I   +        ++       I L +++ + 
Sbjct: 67  KGAKMPRGSKAAIMQYKIPIPPLPEQEKIVAILGKFDTLTHSVSEGLPHEIALRRKQYEY 126

Query: 202 LVSYIVTK 209
               ++  
Sbjct: 127 YREQLLAF 134


>gi|256852235|ref|ZP_05557621.1| restriction endonuclease S subunit [Lactobacillus jensenii
           27-2-CHN]
 gi|260661733|ref|ZP_05862644.1| methylase [Lactobacillus jensenii 115-3-CHN]
 gi|282932024|ref|ZP_06337485.1| type-1 restriction enzyme MjaXIP specificity protein [Lactobacillus
           jensenii 208-1]
 gi|297205599|ref|ZP_06922995.1| HsdS protein [Lactobacillus jensenii JV-V16]
 gi|256615281|gb|EEU20472.1| restriction endonuclease S subunit [Lactobacillus jensenii
           27-2-CHN]
 gi|260547480|gb|EEX23459.1| methylase [Lactobacillus jensenii 115-3-CHN]
 gi|281303851|gb|EFA95992.1| type-1 restriction enzyme MjaXIP specificity protein [Lactobacillus
           jensenii 208-1]
 gi|297150177|gb|EFH30474.1| HsdS protein [Lactobacillus jensenii JV-V16]
          Length = 179

 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 32/166 (19%), Positives = 62/166 (37%), Gaps = 13/166 (7%)

Query: 29  PIKRFTKLNTGRTS---------ESGKDIIYIGLEDVESGTGKYLP---KDGNSRQSDTS 76
            +    K+  G T           SGK I ++  +D+ S +  Y+    +D  S   + S
Sbjct: 4   KVGEIGKVIGGGTPSTKHEEYYTSSGKGIAWLTPKDLSSYSKMYIDHGSRDLTSEGYNNS 63

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
           +  +  K  +L     P      IA  +   +  F  + P          + L ++    
Sbjct: 64  SAKLLPKDSVLISSRAPI-GYVAIAKNEIATNQGFKSIIPDKSKVYPEYLYYLMLENKLN 122

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
           +E +  G+T      K +    + IP L++Q  I  ++I    +I+
Sbjct: 123 LEKVASGSTFKEVSGKVMKEFEVEIPSLSKQEKILNQLIPIQRKIE 168



 Score = 49.0 bits (115), Expect = 0.001,   Method: Composition-based stats.
 Identities = 21/169 (12%), Positives = 55/169 (32%), Gaps = 5/169 (2%)

Query: 222 IEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYE 281
           +  +G V                + K    +    LS SY  +     +R++  +  +  
Sbjct: 5   VGEIGKVIGGGTPSTKHEEYYTSSGKGIAWLTPKDLS-SYSKMYIDHGSRDLTSEGYNNS 63

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD 341
           + +++    ++             ++     +G  +   +      +   YL +LM    
Sbjct: 64  SAKLLPKDSVLISSRAPIGYVAIAKNEIATNQGFKS---IIPDKSKVYPEYLYYLMLENK 120

Query: 342 LCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
           L  +         + +  + +K   V +P + +Q  I N +     +I+
Sbjct: 121 L-NLEKVASGSTFKEVSGKVMKEFEVEIPSLSKQEKILNQLIPIQRKIE 168


>gi|291556520|emb|CBL33637.1| Restriction endonuclease S subunits [Eubacterium siraeum V10Sc8a]
          Length = 192

 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 20/171 (11%), Positives = 51/171 (29%), Gaps = 9/171 (5%)

Query: 226 GLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ---KLETRNMGLKPESYET 282
           G  P  W +           R+   +      S      +    +++        E  + 
Sbjct: 6   GTDPYEWGLTTLGECCKLNPRRPKDMTPDIDYSFVAMPSVSEDGRIDASIERPYSEVCKG 65

Query: 283 YQIVDPGEIVFRFID--LQNDKRSLRSAQVMERGIITSAYMAVKPHG--IDSTYLAWLMR 338
           +      +++F  I   ++N K  +        G  ++ +  ++P     D  +L  +  
Sbjct: 66  FTYFAENDVLFAKITPCMENGKGGVAKGLKNGAGFGSTEFQVLRPIKGASDPYWLYIITM 125

Query: 339 SYDLCKVFYA--MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
                        G+G ++ +    +    + +PPI+ Q      +     
Sbjct: 126 FPKFRSDAEKVMTGTGGQRRVPITYLSEYRIALPPIELQEQFAAFVRQSDK 176



 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 28/163 (17%), Positives = 51/163 (31%), Gaps = 12/163 (7%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSE--SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           P  W +  +    KLN  R  +     D  ++ +  V    G+                +
Sbjct: 9   PYEWGLTTLGECCKLNPRRPKDMTPDIDYSFVAMPSVSED-GRIDASIERPYSEVCKGFT 67

Query: 80  IFAKGQILYGKLGPYLRKA------IIADFDGICSTQFLVLQPKD--VLPELLQGWLLSI 131
            FA+  +L+ K+ P +          + +  G  ST+F VL+P      P  L    +  
Sbjct: 68  YFAENDVLFAKITPCMENGKGGVAKGLKNGAGFGSTEFQVLRPIKGASDPYWLYIITMFP 127

Query: 132 DVTQRIEAICEGA-TMSHADWKGIGNIPMPIPPLAEQVLIREK 173
                 E +  G           +    + +PP+  Q      
Sbjct: 128 KFRSDAEKVMTGTGGQRRVPITYLSEYRIALPPIELQEQFAAF 170


>gi|13507828|ref|NP_109777.1| hypothetical protein MPN089 [Mycoplasma pneumoniae M129]
 gi|12229983|sp|P75604|T1SA_MYCPN RecName: Full=Putative type-1 restriction enzyme specificity
           protein MPN_089; AltName: Full=S.MpnORFAP; AltName:
           Full=Type I restriction enzyme specificity protein
           MPN_089; Short=S protein
 gi|1673717|gb|AAB95713.1| hypothetical protein MPN_089 [Mycoplasma pneumoniae M129]
          Length = 335

 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 46/330 (13%), Positives = 95/330 (28%), Gaps = 20/330 (6%)

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
               F    + +     Y       +     S+   +   K +  E+   +L      + 
Sbjct: 5   KTYDFDGEYVTWTTRWSYAGSIYYRNGKFSASSNCGI--LKVLNKEINPKFLAYALKKEA 62

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
            + +   + +     + +  IP+  PPL  Q  I   +   T     L  E    +    
Sbjct: 63  KKFVNTTSAIPILRTQKVVEIPIDFPPLQIQEKIATILDTFTELSAELSAELSAELSAEL 122

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
             +            +  + +K+   E              +  + E+ +K     E   
Sbjct: 123 SAELRERKKQYAFYRDYLLNLKNWKEEN------------KYYKLGEIAQKVLVGGEKPA 170

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
                 N + K    +   K E +  Y      E     +  +    ++          +
Sbjct: 171 DFSKEKNEVYKYPILSNNSKAEEFLVYSKTFRVEEKSITVSARGTIGAVFYRDFAYLPAV 230

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
           +           D  +L   +R+    K   A G      L     K   + VP +K+Q 
Sbjct: 231 SLICFVP-KEEFDIRFLFHALRAIKFKKQGSATGQ-----LTVAQFKEYGIHVPSLKKQK 284

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKER 406
           +I  +++   +    L E I   I L K++
Sbjct: 285 EIAAILDPLYSFFTDLNEGIPAEIELRKKQ 314


>gi|241895013|ref|ZP_04782309.1| possible type I site-specific deoxyribonuclease specificity subunit
           [Weissella paramesenteroides ATCC 33313]
 gi|241871731|gb|EER75482.1| possible type I site-specific deoxyribonuclease specificity subunit
           [Weissella paramesenteroides ATCC 33313]
          Length = 188

 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 30/170 (17%), Positives = 59/170 (34%), Gaps = 8/170 (4%)

Query: 239 ALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDL 298
            ++                S   G   QK       +       Y IV  G   +R +  
Sbjct: 16  NIIQYNEHTIENNQYPVFTSSRKGLFFQKDYYDGHQIASVDNTGYNIVPKGYFTYRHMS- 74

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKP-HGIDSTYLAWLMR--SYDLCKVFYAMGSGLRQ 355
            +         + + GI+++ Y        +D+ YL + +   +            G R 
Sbjct: 75  DDLIFKFNINDLADYGIVSTLYPVFTTTENLDAMYLMYQLNEGTEFKRFSLLQKQGGSRT 134

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
            + F  +K L + +P IKEQ  I    +    ++D L+   +  I++L++
Sbjct: 135 YMYFSKLKELKLTIPNIKEQKSI----SELFKQLDSLITVNQDRILILQK 180



 Score = 42.5 bits (98), Expect = 0.15,   Method: Composition-based stats.
 Identities = 25/162 (15%), Positives = 51/162 (31%), Gaps = 6/162 (3%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+   +          T E+ +  ++            Y          D +  +I  KG
Sbjct: 8   WEKRKLGDNIIQYNEHTIENNQYPVFTSSRKGLFFQKDYYD-GHQIASVDNTGYNIVPKG 66

Query: 85  QILYGKLGPYLRKAIIAD---FDGICSTQFLVLQPKDVLPELLQGWLLSI--DVTQRIEA 139
              Y  +   L      +     GI ST + V    + L  +   + L+   +  +    
Sbjct: 67  YFTYRHMSDDLIFKFNINDLADYGIVSTLYPVFTTTENLDAMYLMYQLNEGTEFKRFSLL 126

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
             +G + ++  +  +  + + IP + EQ  I E        I
Sbjct: 127 QKQGGSRTYMYFSKLKELKLTIPNIKEQKSISELFKQLDSLI 168


>gi|303243811|ref|ZP_07330151.1| hypothetical protein MetokDRAFT_0355 [Methanothermococcus
           okinawensis IH1]
 gi|302485747|gb|EFL48671.1| hypothetical protein MetokDRAFT_0355 [Methanothermococcus
           okinawensis IH1]
          Length = 91

 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 14/78 (17%), Positives = 32/78 (41%), Gaps = 6/78 (7%)

Query: 347 YAMGSGLRQSLKFEDVKRLPVLVP------PIKEQFDITNVINVETARIDVLVEKIEQSI 400
             + + +      ++ K L + +P       +++Q +I   +     +I  L    E+ +
Sbjct: 12  NILKNSVHSHFGIKEAKNLLIPIPYKDGKPDLQKQKEIAKYLENLHNKIKRLENLQEKQL 71

Query: 401 VLLKERRSSFIAAAVTGQ 418
            L KE + S +  A  G+
Sbjct: 72  NLFKELKESILNKAFKGE 89


>gi|294793173|ref|ZP_06758319.1| HsdS, type I site-specific deoxyribonuclease [Veillonella sp.
           6_1_27]
 gi|294456118|gb|EFG24482.1| HsdS, type I site-specific deoxyribonuclease [Veillonella sp.
           6_1_27]
          Length = 223

 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 22/178 (12%), Positives = 57/178 (32%), Gaps = 5/178 (2%)

Query: 247 KNTKLIESNILSLSYGN-IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
           K     E  I  ++  +  + K +  + G    S   +      ++    +   +     
Sbjct: 47  KPEYYSEKGIAWITPKDLSLNKSKFISHGEIDISELGFSKSSATKMPTGTVLFSSRAPIG 106

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRL 365
             A           + +V P+    T   + +  + L  +         + +    +K +
Sbjct: 107 YIAIAANEVTTNQGFKSVVPNENVGTVFIYYLLKFLLPTIEGMASGSTFKEISGAGMKSV 166

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
           PV++P  +      +  N     I    E +E     L +   + +   ++G++D+  
Sbjct: 167 PVVIPDNET----IDKFNAFCTPIFQQQEVLEAENSRLVDIIDALLPKLISGELDVSD 220



 Score = 48.3 bits (113), Expect = 0.002,   Method: Composition-based stats.
 Identities = 35/198 (17%), Positives = 68/198 (34%), Gaps = 16/198 (8%)

Query: 25  WKVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVESGTGKYL---PKDGNSRQSD 74
           WK   +     +  G T           K I +I  +D+     K++     D +     
Sbjct: 26  WKDGVLSDLGTIVAGGTPSKTKPEYYSEKGIAWITPKDLSLNKSKFISHGEIDISELGFS 85

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
            S+ +    G +L+    P    AI A+     +  F  + P + +   +  + L   + 
Sbjct: 86  KSSATKMPTGTVLFSSRAPIGYIAIAANEV-TTNQGFKSVVPNENV-GTVFIYYLLKFLL 143

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             IE +  G+T       G+ ++P+ IP         +K  A    I             
Sbjct: 144 PTIEGMASGSTFKEISGAGMKSVPVVIPD----NETIDKFNAFCTPIFQQQEVLEAENSR 199

Query: 195 LKEKKQALVSYIVTKGLN 212
           L +   AL+  +++  L+
Sbjct: 200 LVDIIDALLPKLISGELD 217


>gi|57242466|ref|ZP_00370404.1| Type I restriction modification DNA specificity domain protein
           [Campylobacter upsaliensis RM3195]
 gi|57016751|gb|EAL53534.1| Type I restriction modification DNA specificity domain protein
           [Campylobacter upsaliensis RM3195]
          Length = 213

 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 30/190 (15%), Positives = 59/190 (31%), Gaps = 9/190 (4%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           P+ W ++ +    K+  G T           D +++ + ++         +  +      
Sbjct: 25  PQGWDIIKLGEVCKILIGGTPARNNSAYFQGDNLWVSIAEMNGQVITDTKEKISDEAIKK 84

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP--ELLQGWLLSIDV 133
           S V +  KG  L       + K  IA  D   +     L P D     ++   ++     
Sbjct: 85  SNVKLIPKGTTLLS-FKLSIGKTAIAGKDLYTNEAIAGLIPNDNNKLLDMFLFYIFKWQT 143

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
                        S         + +P+PPL  Q  I + I +    I  L  +   F  
Sbjct: 144 IDLDLKGNNAFGKSLNSSVLKQEVKIPLPPLEAQESIVQAIESVENEITKLKEQSKTFES 203

Query: 194 LLKEKKQALV 203
              E  ++ +
Sbjct: 204 KKAEILKSFL 213



 Score = 52.9 bits (125), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 26/190 (13%), Positives = 59/190 (31%), Gaps = 21/190 (11%)

Query: 228 VPDHWEVKPFFALVTELNRK-----NTKLIESNILSLSYGNIIQKLETRNMGLKPESYET 282
            P  W++     +   L        N+   + + L +S   +  ++ T       +    
Sbjct: 24  PPQGWDIIKLGEVCKILIGGTPARNNSAYFQGDNLWVSIAEMNGQVITDTKEKISDEAIK 83

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS--TYLAWLMRSY 340
              V    I      L       ++A   +      A   + P+  +       + +  +
Sbjct: 84  KSNVKL--IPKGTTLLSFKLSIGKTAIAGKDLYTNEAIAGLIPNDNNKLLDMFLFYIFKW 141

Query: 341 DLCKVFYAMGSGLRQSLKFEDVK-RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
               +     +   +SL    +K  + + +PP++ Q  I              +E +E  
Sbjct: 142 QTIDLDLKGNNAFGKSLNSSVLKQEVKIPLPPLEAQESIV-----------QAIESVENE 190

Query: 400 IVLLKERRSS 409
           I  LKE+  +
Sbjct: 191 ITKLKEQSKT 200


>gi|308270739|emb|CBX27349.1| unknown protein [uncultured Desulfobacterium sp.]
          Length = 72

 Score = 56.0 bits (133), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 11/63 (17%), Positives = 26/63 (41%)

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           +   + +  L + +PP+KEQ  I   +     +   +    +  I   +  +S+  + A 
Sbjct: 9   NFNKDQLSALTIPLPPMKEQKKIVEELVSLKKKSYEMETLQKSVIKDFESFQSALFSKAF 68

Query: 416 TGQ 418
            G+
Sbjct: 69  RGE 71


>gi|227892229|ref|ZP_04010034.1| type I restriction modification system protein HsdIA [Lactobacillus
           salivarius ATCC 11741]
 gi|227865951|gb|EEJ73372.1| type I restriction modification system protein HsdIA [Lactobacillus
           salivarius ATCC 11741]
          Length = 188

 Score = 55.6 bits (132), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 33/170 (19%), Positives = 57/170 (33%), Gaps = 3/170 (1%)

Query: 235 KPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFR 294
                L+   +  NT  ++ N   L     +          K E      IV  G+IV  
Sbjct: 1   MKLKELIKIESGVNTVRLKDNEYELYTLEDVNYDLGHGEDYKHEVSYRKNIVARGDIVTN 60

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA--MGSG 352
            +         +++  +   I            +D  YL +L+   +  K   A  MG  
Sbjct: 61  TVGNMTSIVHTKNSGKLLNQIFMK-LSINNKEILDPWYLCYLLNESEYIKYQEASIMGGS 119

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
           + + L   +++ L V +P I EQ  I         +  ++ EK E    L
Sbjct: 120 VIKKLTKVNLENLEVNLPTIDEQRKIGEAYKETLRKYTLITEKAELEKNL 169


>gi|328946729|gb|EGG40867.1| restriction modification system S subunit [Streptococcus sanguinis
           SK1087]
          Length = 277

 Score = 55.6 bits (132), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 30/248 (12%), Positives = 71/248 (28%), Gaps = 23/248 (9%)

Query: 182 DTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALV 241
            ++IT               L         +  +     G    G  P  W+      + 
Sbjct: 40  KSIITFNFILPFSFCTLNHHLEQMAQAIFKSWFIDFDPFG----GEKPSDWKTANLTDIA 95

Query: 242 TE-----LNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFI 296
                  + +      E ++  L    + Q +   +  L   + +   I+  G+++F + 
Sbjct: 96  EFLNGLAMQKYRPLDNEESLPVLKIKELRQGIFDSSSDLCSANIKRPYIIQDGDVIFSWS 155

Query: 297 DLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS---GL 353
                   L        G +      V     D     +   +      F A+ +     
Sbjct: 156 GSL-----LVDFWTGGIGGLNQHLFKVSSQEYDK--WFYYSWTKYYLDEFIAIAADKATT 208

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
              +  + +++  +L+P   +   I     +  A     +         L E R+S +  
Sbjct: 209 MGHITRKSLEKAEILIPNDHDYKSIG----LLLAPTYNQIISNRIENRKLMEVRNSLLPK 264

Query: 414 AVTGQIDL 421
            ++G+I +
Sbjct: 265 LLSGEISV 272



 Score = 50.2 bits (118), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 26/192 (13%), Positives = 58/192 (30%), Gaps = 10/192 (5%)

Query: 19  GAIPKHWKVVPIKRFTKLNTG------RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           G  P  WK   +    +   G      R  ++ + +  + ++++  G         +   
Sbjct: 80  GEKPSDWKTANLTDIAEFLNGLAMQKYRPLDNEESLPVLKIKELRQG---IFDSSSDLCS 136

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
           ++     I   G +++   G  L         G  +     +  ++        W     
Sbjct: 137 ANIKRPYIIQDGDVIFSWSGSLL-VDFWTGGIGGLNQHLFKVSSQEYDKWFYYSWTKYYL 195

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
                 A  +  TM H   K +    + IP   +   I   +     +I +   E  + +
Sbjct: 196 DEFIAIAADKATTMGHITRKSLEKAEILIPNDHDYKSIGLLLAPTYNQIISNRIENRKLM 255

Query: 193 ELLKEKKQALVS 204
           E+       L+S
Sbjct: 256 EVRNSLLPKLLS 267


>gi|208434383|ref|YP_002266049.1| type I restriction enzyme S protein [Helicobacter pylori G27]
 gi|208432312|gb|ACI27183.1| type I restriction enzyme S protein [Helicobacter pylori G27]
          Length = 321

 Score = 55.6 bits (132), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 20/119 (16%), Positives = 41/119 (34%), Gaps = 6/119 (5%)

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA----VKPHGIDSTYLA 334
           +      +  G +         D   + +        +   Y           ++  +L 
Sbjct: 8   NEINKFSLKKGYVAITKDSETKDDIGISTYIADNFDNVLLGYHCTLLKPNQKVLNGKFLN 67

Query: 335 WLMRSYDLCKVFY--AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
             + S+   K F   A GSG R +L  + +K L + +  I+ Q  I   ++V   +I+ 
Sbjct: 68  AYLNSFYGRKYFSNCASGSGQRYTLTIDTIKDLNIPLINIETQQKIARTLSVLDQKIEN 126



 Score = 48.3 bits (113), Expect = 0.002,   Method: Composition-based stats.
 Identities = 23/185 (12%), Positives = 56/185 (30%), Gaps = 5/185 (2%)

Query: 231 HWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGE 290
           H      +    +   KN KL +  I +     +++  +         +     +  P  
Sbjct: 135 HTLAYKIYEYYFKYKPKNAKLEQIIIENPKSSIMVKNAQKTQDKYPFFTSGDNILSYPKA 194

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG 350
           I+       N   +      + +   ++    +  +   S YL  L+ S           
Sbjct: 195 IIDGRNCFLNTGGNAGIKFYVGKASYSTDTWCIGANEF-SDYLYLLLSSIKNHINQSFFQ 253

Query: 351 SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
               + L+   +K+ P+ +P   E      +I         L+    ++   L++ R   
Sbjct: 254 GTSLKHLQKNLLKKYPIYMPSAHEIKKFNQIIMPLL----TLISINTRTSKKLEQIRDFL 309

Query: 411 IAAAV 415
           +   +
Sbjct: 310 LPLLL 314


>gi|145629352|ref|ZP_01785151.1| putative type I restriction enzyme HindVIIP specificity protein
           [Haemophilus influenzae 22.1-21]
 gi|145638853|ref|ZP_01794461.1| putative type I restriction enzyme HindVIIP specificity protein
           [Haemophilus influenzae PittII]
 gi|48243646|gb|AAT40787.1| putative type I restriction/modification specificity protein
           [Haemophilus influenzae]
 gi|144978855|gb|EDJ88578.1| putative type I restriction enzyme HindVIIP specificity protein
           [Haemophilus influenzae 22.1-21]
 gi|145271825|gb|EDK11734.1| putative type I restriction enzyme HindVIIP specificity protein
           [Haemophilus influenzae PittII]
 gi|309750834|gb|ADO80818.1| Type I restriction enzyme HindVIIP, S protein [Haemophilus
           influenzae R2866]
          Length = 437

 Score = 55.6 bits (132), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 26/196 (13%), Positives = 53/196 (27%), Gaps = 15/196 (7%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           PK W+   +    ++  G   +S       I  I +  V+        +       D S 
Sbjct: 242 PKGWEKTTLSEICEMQNGYAFKSSDWMEQGIPVIKIGSVK--PMIVEVEGNGFVSEDYSK 299

Query: 78  VS---IFAKGQILYGKLGPYLRKAIIA-DFDGICSTQFLVLQPK-----DVLPELLQGWL 128
           +    +   G IL G  G       I      + + +     PK           +    
Sbjct: 300 LKPDFLLTSGDILVGLTGYVGEVGRIPTGKIAMLNQRVATFLPKEIDKNHCFYNYIYCLA 359

Query: 129 LSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
                 +  E   +G+  ++   K +   P+        +L   ++     RI       
Sbjct: 360 RQSQFKEFAEINAKGSAQANISTKELLKFPIIKANDKLHILFENRVKELLERILWNSQNA 419

Query: 189 IRFIELLKEKKQALVS 204
               +        L++
Sbjct: 420 ETLAKTRDLLLPRLLN 435



 Score = 47.5 bits (111), Expect = 0.004,   Method: Composition-based stats.
 Identities = 44/448 (9%), Positives = 115/448 (25%), Gaps = 68/448 (15%)

Query: 26  KVVPIKRFTKLNTGRTSES--GKDIIY---------IGLED-----------VESGTGKY 63
           K+V +K      TGR   +   ++ IY         + +               +    +
Sbjct: 3   KLVKLKEIVDFKTGRLDSNCAEENGIYPFFTCSPETLRINSYAFDCEAVLLAGNNANAVF 62

Query: 64  LPKDGNSRQSDTSTVSIFAKGQ----------ILYGKLGPYLRKAIIADFDGICSTQFLV 113
             K  + + +      I                    +   L    +       + + L 
Sbjct: 63  PVKYYSGKFNAYQRTYIITPKDKSKINVKWLYFQIKHVAFELGIRAVGSATKFLTKRILD 122

Query: 114 LQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
               ++     Q ++  +      +           +                     + 
Sbjct: 123 DYEINLPDLDTQNYIARVLWKLENKIQLNTQINQTLEQIAQVLFKSWFVDFDPVRAKVQA 182

Query: 174 IIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVG----LVP 229
           +          +T          E+  AL               K    E V       P
Sbjct: 183 LSEGMSLEQAELTAMQAISGKTPEELTALSQTQPDCYAELAETTKAFPCEMVEIDGVEAP 242

Query: 230 DHWEVKPFFALVTELNR---KNTKLIESNILSLSYGNIIQKL-ETRNMGLKPESYET--- 282
             WE      +    N    K++  +E  I  +  G++   + E    G   E Y     
Sbjct: 243 KGWEKTTLSEICEMQNGYAFKSSDWMEQGIPVIKIGSVKPMIVEVEGNGFVSEDYSKLKP 302

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW-LMRSYD 341
             ++  G+I+        +   + + ++    ++        P  ID  +  +  +    
Sbjct: 303 DFLLTSGDILVGLTGYVGEVGRIPTGKI---AMLNQRVATFLPKEIDKNHCFYNYIYCLA 359

Query: 342 LCKVFYAMG-----SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
               F            + ++  +++ + P++           + +++     + + E +
Sbjct: 360 RQSQFKEFAEINAKGSAQANISTKELLKFPIIKAN--------DKLHILFE--NRVKELL 409

Query: 397 EQSI------VLLKERRSSFIAAAVTGQ 418
           E+ +        L + R   +   + G+
Sbjct: 410 ERILWNSQNAETLAKTRDLLLPRLLNGE 437


>gi|328471215|gb|EGF42117.1| hypothetical protein VP10329_03382 [Vibrio parahaemolyticus 10329]
          Length = 192

 Score = 55.6 bits (132), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 18/138 (13%), Positives = 45/138 (32%), Gaps = 4/138 (2%)

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
             + +  V   ++ FR     N    +               + V+   +   YL W + 
Sbjct: 55  DLKDHHRVKHNDLAFRSRGQTNTAALIDQELSDAVIAAPLLRIRVESDSVIPAYLCWFIN 114

Query: 339 SYDLCKVFYAMGSGLRQS-LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
                 V  +  +G     +    ++ L ++VP +  Q  I  +  +       L+  + 
Sbjct: 115 QPTSQAVLQSKATGTAVRMIGKPALEDLEIVVPSLDVQKKIIEIYQLSINE-QKLMNALA 173

Query: 398 QSIVLLKERRSSFIAAAV 415
           +   +L +  +  +  A+
Sbjct: 174 KKKEVLTD--AILMNLAM 189


>gi|307262528|ref|ZP_07544170.1| hypothetical protein appser12_20650 [Actinobacillus
           pleuropneumoniae serovar 12 str. 1096]
 gi|306867763|gb|EFM99597.1| hypothetical protein appser12_20650 [Actinobacillus
           pleuropneumoniae serovar 12 str. 1096]
          Length = 215

 Score = 55.6 bits (132), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 32/144 (22%), Positives = 54/144 (37%), Gaps = 5/144 (3%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            IP+ W++  +         +T       I +GL + +      L       Q+ +    
Sbjct: 70  EIPESWEIEKLGNIIFNLGQKTPNERFFYIDVGLINNKIHKLNSLENILEPDQAPSRARK 129

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDG----ICSTQFLVLQ-PKDVLPELLQGWLLSIDVT 134
           I  K  ILY  + PYL+   I + D     I ST F+V+    +   + L  +LLS   T
Sbjct: 130 IVQKNSILYSTVRPYLQNICILEQDFQYEPIASTAFVVMNVFTNFYHKYLFYYLLSPVFT 189

Query: 135 QRIEAICEGATMSHADWKGIGNIP 158
             +     G      +   + N+P
Sbjct: 190 DFVNQEMVGVAYPAINDDKLYNLP 213



 Score = 42.9 bits (99), Expect = 0.11,   Method: Composition-based stats.
 Identities = 23/146 (15%), Positives = 51/146 (34%), Gaps = 4/146 (2%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE--SYETYQ 284
            +P+ WE++    ++  L +K        I      N I KL +    L+P+       +
Sbjct: 70  EIPESWEIEKLGNIIFNLGQKTPNERFFYIDVGLINNKIHKLNSLENILEPDQAPSRARK 129

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK-PHGIDSTYLAWLMRSYDLC 343
           IV    I++  +        +         I ++A++ +         YL + + S    
Sbjct: 130 IVQKNSILYSTVRPYLQNICILEQDFQYEPIASTAFVVMNVFTNFYHKYLFYYLLSPVFT 189

Query: 344 KVFYAMGSGLR-QSLKFEDVKRLPVL 368
                   G+   ++  + +  LP+ 
Sbjct: 190 DFVNQEMVGVAYPAINDDKLYNLPIA 215


>gi|312870942|ref|ZP_07731047.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus iners LEAF 3008A-a]
 gi|311093632|gb|EFQ51971.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus iners LEAF 3008A-a]
          Length = 180

 Score = 55.6 bits (132), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 21/176 (11%), Positives = 49/176 (27%), Gaps = 8/176 (4%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGK------DIIYIGLE-DVESGTGKYLPKDGNSRQSDTS 76
            W+ V +    K+ TG+T ++        +I ++    D+     +   K        + 
Sbjct: 3   EWEKVKVGDIGKVITGKTPKTSNSEYYGGNIPFLTPSDDMSVKYVRKTNKYITEIGRLSI 62

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQF-LVLQPKDVLPELLQGWLLSIDVTQ 135
             +      I    +G  L K +I     + + Q   ++   D        + +      
Sbjct: 63  KNATLPANAICVSCIGSDLGKVVITTQKTVTNQQINSIVVDTDKFDIDFVYYSMLELGKI 122

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
                     +   +        +  P L  Q  I   + +   +I+         
Sbjct: 123 LNFHSKTSTAVPIVNKSSFSQYEIDCPKLNTQKKIGAILSSIDNKIEENNQINKNL 178



 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 21/159 (13%), Positives = 46/159 (28%), Gaps = 11/159 (6%)

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI----VDPGEIVFRFIDLQNDKR 303
           N++    NI  L+  + +     R             I    +    I    I     K 
Sbjct: 25  NSEYYGGNIPFLTPSDDMSVKYVRKTNKYITEIGRLSIKNATLPANAICVSCIGSDLGKV 84

Query: 304 SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVK 363
            + + + +    I S  + V     D  ++ + M        F++  S     +      
Sbjct: 85  VITTQKTVTNQQINS--IVVDTDKFDIDFVYYSMLELGKILNFHSKTSTAVPIVNKSSFS 142

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
           +  +  P +  Q  I  +++    +I+         I  
Sbjct: 143 QYEIDCPKLNTQKKIGAILSSIDNKIEE-----NNQINK 176


>gi|229120552|ref|ZP_04249797.1| Type I restriction-modification system specificity subunit
           [Bacillus cereus 95/8201]
 gi|228662837|gb|EEL18432.1| Type I restriction-modification system specificity subunit
           [Bacillus cereus 95/8201]
          Length = 188

 Score = 55.6 bits (132), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 27/138 (19%), Positives = 55/138 (39%), Gaps = 11/138 (7%)

Query: 277 PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY-MAVKPHGIDSTYLAW 335
             +++   +   G+++F F+     K  + S     + I  +   + ++   +DS+YL +
Sbjct: 53  SSNHKDGYLSSAGDVIFSFVSS---KSGIVSELNQGKIISQNFAKLIIEHDDLDSSYLCY 109

Query: 336 LMR-SYDLCKVF-YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN---VINVETARID 390
           ++  SY + K    +M       L    +K L + +P I++Q  I      +        
Sbjct: 110 ILNESYSMRKQMAISMQGSNVPKLTPAILKELEIELPSIEKQRKIGKAYFFLRKRQTLAK 169

Query: 391 VLVEKIEQSIVLLKERRS 408
             +E  EQ    LK  R 
Sbjct: 170 KQIELEEQL--YLKALRQ 185



 Score = 39.4 bits (90), Expect = 1.0,   Method: Composition-based stats.
 Identities = 18/184 (9%), Positives = 54/184 (29%), Gaps = 14/184 (7%)

Query: 29  PIKRFTKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
            ++    +  GR    G +          +  L +  +G+        +S  S+     +
Sbjct: 2   KLEDIVTVRVGRNLSRGNERNDLTLVAYSFEDLTNDLNGSFLDSQVSLHSGSSNHKDGYL 61

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQF---LVLQPKDVLPELLQGWLLSIDVTQRI 137
            + G +++  +          +   I S  F   ++         L      S  + +++
Sbjct: 62  SSAGDVIFSFVSSKSGIVSELNQGKIISQNFAKLIIEHDDLDSSYLCYILNESYSMRKQM 121

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIRE---KIIAETVRIDTLITERIRFIEL 194
               +G+ +       +  + + +P + +Q  I +    +          I    +    
Sbjct: 122 AISMQGSNVPKLTPAILKELEIELPSIEKQRKIGKAYFFLRKRQTLAKKQIELEEQLYLK 181

Query: 195 LKEK 198
              +
Sbjct: 182 ALRQ 185


>gi|145634364|ref|ZP_01790074.1| putative type I restriction enzyme HindVIIP specificity protein
           [Haemophilus influenzae PittAA]
 gi|145268344|gb|EDK08338.1| putative type I restriction enzyme HindVIIP specificity protein
           [Haemophilus influenzae PittAA]
          Length = 430

 Score = 55.6 bits (132), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 25/185 (13%), Positives = 58/185 (31%), Gaps = 9/185 (4%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG 289
           +      F  LVT+    + K  E  +  ++  NI+               +   I    
Sbjct: 5   EFIPASEFCDLVTDGTHDSPKKTEFGVKLVTSKNIVGGKLDLTSAYFISESDAQNINKRS 64

Query: 290 EIVFRFIDLQNDKRSLRSA-QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY- 347
           ++    + L         A    E   +      +K          + ++S     +   
Sbjct: 65  QVHINDVLLSMIGTVGEVALIEKEPDFVIKNVGLLKNSDPKKAKWLYYLKSPIAQNLIKD 124

Query: 348 AMGSGLRQSLKFEDVKRLPVLVPPIKE--QFDITNVINVETARIDVLVEKIEQSIVLLKE 405
            +    +Q +   +++ LP+L P  +E  Q  I      + + +D  ++   Q    L++
Sbjct: 125 RLRGTTQQYIPLGELRNLPILKPNSEEHLQNTI-----EQLSSLDKKIQLNTQINQTLEQ 179

Query: 406 RRSSF 410
              + 
Sbjct: 180 IAQAL 184



 Score = 52.9 bits (125), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 58/438 (13%), Positives = 131/438 (29%), Gaps = 56/438 (12%)

Query: 26  KVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQS--DTSTVS 79
           + +P   F  L T  T +S K     +  +  +++  G          S     + +  S
Sbjct: 5   EFIPASEFCDLVTDGTHDSPKKTEFGVKLVTSKNIVGGKLDLTSAYFISESDAQNINKRS 64

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
                 +L   +G     A+I            +L+  D        +L S      I+ 
Sbjct: 65  QVHINDVLLSMIGTVGEVALIEKEPDFVIKNVGLLKNSDPKKAKWLYYLKSPIAQNLIKD 124

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
              G T  +     + N+P+  P   E +      I +   +D  I    +  + L++  
Sbjct: 125 RLRGTTQQYIPLGELRNLPILKPNSEEHLQNT---IEQLSSLDKKIQLNTQINQTLEQIA 181

Query: 200 QALVS-------------YIVTKGLNPDVKMKDSGIEWVGLVPD------HWEVKPFFAL 240
           QAL                 ++ GL+ +     +     G  P+        +   +  L
Sbjct: 182 QALFKSWFVDFDPVRAKVQALSDGLSLEQAELAAIQAISGKTPEELTALSQTQPDRYTEL 241

Query: 241 VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL-KPESYETYQIVDPGEIVF------ 293
                    +++E +   ++ G  +++++     +   + Y +      G +        
Sbjct: 242 AETAKAFPCEMVEVDGGEVTKGWEVKRIDEVIQKIPVGKKYSSKTAFSEGLVPILDQGRS 301

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID------------STYLAWLMRSYD 341
             I   NDK  ++++      +  +    ++    D            +    + +    
Sbjct: 302 GVIGYHNDKPGVKASIEDPIIVFANHTCYMRLISYDFSAIQNVFAFKGTECNLYWLYLAT 361

Query: 342 LCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
           L K  +    G        D     ++VPP +             ++I       ++   
Sbjct: 362 LGKQEFVEYKGHFP-----DFLIKEIIVPPEELTELFGKYAKENFSKIF----INDRENS 412

Query: 402 LLKERRSSFIAAAVTGQI 419
            L + R   +   + G I
Sbjct: 413 SLAKIRDLLLPKLLNGDI 430


>gi|327470623|gb|EGF16079.1| hypothetical protein HMPREF9386_0249 [Streptococcus sanguinis
           SK330]
          Length = 191

 Score = 55.6 bits (132), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 11/93 (11%), Positives = 37/93 (39%), Gaps = 4/93 (4%)

Query: 329 DSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
           D+ Y  ++M      +++ +     +  +  + ++    ++P I    D  +    +   
Sbjct: 98  DNVYFWYVMLKKRQQEIYDSQTGSAQPHIYPKHIE----IMPTIDLSEDKVSRFTKQVTP 153

Query: 389 IDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           +   +    + I  L+  R + +   ++G+I +
Sbjct: 154 LFESIGNNIKEIGELQTLRDTLLPKLLSGEISV 186


>gi|309800163|ref|ZP_07694349.1| type I restriction-modification system specificity subunit
           [Streptococcus infantis SK1302]
 gi|308116210|gb|EFO53700.1| type I restriction-modification system specificity subunit
           [Streptococcus infantis SK1302]
          Length = 136

 Score = 55.6 bits (132), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 22/143 (15%), Positives = 62/143 (43%), Gaps = 10/143 (6%)

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
           + +  K     + +I++ G ++    D    K S+ +  +     I  A+  +     ++
Sbjct: 2   KKLQKKAIECSSAKIIEKGSLLLGMYDTAGLKSSINTKVMSCNQAI--AFAKLDDKITNT 59

Query: 331 TYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
            Y+ +++++  L  +      G+ +++     +K + + +PP+  Q +  + +    A++
Sbjct: 60  IYVYYVIQN--LRSMLLNQQRGVRQKNFNLSMIKNIAIPLPPLSLQNEFADFV----AQV 113

Query: 390 DVLVEKIEQSIVLLKE-RRSSFI 411
           D      + +I L +   +SS I
Sbjct: 114 DKSQFACQMAIKLWRNSLKSSII 136



 Score = 42.5 bits (98), Expect = 0.13,   Method: Composition-based stats.
 Identities = 23/138 (16%), Positives = 50/138 (36%), Gaps = 4/138 (2%)

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ 125
           K    +  + S+  I  KG +L G       K+ I      C+      +  D +   + 
Sbjct: 2   KKLQKKAIECSSAKIIEKGSLLLGMYDTAGLKSSINTKVMSCNQAIAFAKLDDKITNTIY 61

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
            + +  ++   +     G    + +   I NI +P+PPL+ Q    +       ++D   
Sbjct: 62  VYYVIQNLRSMLLNQQRGVRQKNFNLSMIKNIAIPLPPLSLQNEFADF----VAQVDKSQ 117

Query: 186 TERIRFIELLKEKKQALV 203
                 I+L +   ++ +
Sbjct: 118 FACQMAIKLWRNSLKSSI 135


>gi|296126598|ref|YP_003633850.1| restriction modification system DNA specificity domain protein
            [Brachyspira murdochii DSM 12563]
 gi|296018414|gb|ADG71651.1| restriction modification system DNA specificity domain protein
            [Brachyspira murdochii DSM 12563]
          Length = 1134

 Score = 55.6 bits (132), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 44/370 (11%), Positives = 106/370 (28%), Gaps = 50/370 (13%)

Query: 30   IKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYG 89
            +   + +  G++    K         V++G    +   G +     S  +   +  I   
Sbjct: 800  LGAISSIVKGKSITKNK---------VKNGNIPVI-AGGKTSPYSHSEYNQ-NENCITVS 848

Query: 90   KLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHA 149
              G         ++    S   ++    +        +     +   I  +  G+   H 
Sbjct: 849  ASGS-AGYVWYHNYKIWASDCNVIRSLDEEKYITKYIYYSLKKLQDLIYDLKTGSNQPHV 907

Query: 150  DWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTK 209
              K +  I +P   + +Q  I   +  +   I                            
Sbjct: 908  YEKDLSKIKIPNLNIEKQKEIVSLMDEQENIILEQEKI---------------------- 945

Query: 210  GLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLE 269
                        I+ +    +  +   +         K    I   +L  +     +   
Sbjct: 946  ------------IKELNDKINSLDFVNYDKCKLSDKTKFQITIGKRVLQKNIKENGKYPI 993

Query: 270  TRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID 329
                  KP  Y    + D  +  F    +  D   + +  +       + +  V     +
Sbjct: 994  YSANVYKPFGYIDELLFDNFDFTFVLWGIDGD--WMTNYILPNNPFYPTDHCGVIKCIDN 1051

Query: 330  STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
            S  + +   ++++    Y     LR S+  + +++L + +P +  Q +I+N I     +I
Sbjct: 1052 SVNMIYFNYAFNIVGKEYGFNRNLRASI--DRIEKLQIPIPDLNIQNEISNTILDCKKQI 1109

Query: 390  DVLVEKIEQS 399
            D    KI+ +
Sbjct: 1110 DQAQLKIDNA 1119



 Score = 43.2 bits (100), Expect = 0.076,   Method: Composition-based stats.
 Identities = 13/143 (9%), Positives = 47/143 (32%), Gaps = 4/143 (2%)

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
             K++  N+ +      +             I +     +        +   +   +   
Sbjct: 814 KNKVKNGNIPVIAGGKTSPYSHSEYNQNENCITVSASGSAGYVWYHNYKIWASDCNVIRS 873

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
                            L  + Y + +G  +  +  +D+ ++ +    I++Q +I ++++
Sbjct: 874 LDEEKYITKYIYYSLKKLQDLIYDLKTGSNQPHVYEKDLSKIKIPNLNIEKQKEIVSLMD 933

Query: 384 VETARI---DVLVEKIEQSIVLL 403
            +   I   + +++++   I  L
Sbjct: 934 EQENIILEQEKIIKELNDKINSL 956


>gi|119715344|ref|YP_922309.1| restriction modification system DNA specificity subunit
           [Nocardioides sp. JS614]
 gi|119536005|gb|ABL80622.1| restriction modification system DNA specificity domain
           [Nocardioides sp. JS614]
          Length = 161

 Score = 55.6 bits (132), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 15/141 (10%), Positives = 45/141 (31%), Gaps = 15/141 (10%)

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
           +  V   +     +          S       +  +  +      +   ++  L+R+   
Sbjct: 23  FHNVSNRDGETVVVARSGAYAGFVSYWRGPIFLTDAFSVHPHDGVLMPRFVFHLLRARQA 82

Query: 343 CKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL-------VEK 395
               +  G+G+   ++ +DV+   V VPP+  Q  +  +++   A ++ +       +  
Sbjct: 83  QLHAFKAGAGV-PHVRVKDVESYEVPVPPLDVQARVVEILDKFDALVNDVSVGLPAEIAA 141

Query: 396 IEQSIVLLKERRSSFIAAAVT 416
             +     +          +T
Sbjct: 142 RRKQYEYYR-------HKLLT 155


>gi|305431923|ref|ZP_07401090.1| type II restriction-modification enzyme [Campylobacter coli JV20]
 gi|304445007|gb|EFM37653.1| type II restriction-modification enzyme [Campylobacter coli JV20]
          Length = 737

 Score = 55.6 bits (132), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/164 (10%), Positives = 52/164 (31%), Gaps = 7/164 (4%)

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
           E       Y  +           +  + +   IV   +I+         K ++   + + 
Sbjct: 567 EHIDNKSGYIKLDNPKYVPIEFYESFALQDKGIVKQFDILICKDGALTGKIAMVRNEFIR 626

Query: 313 R--GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLV 369
           +   I    ++    +     YL +++ SY   +   +  +G  +  +   +++ + +  
Sbjct: 627 KSAMINEHIFLLRCDNIAKQKYLFYILHSYSGQQALKSKITGSAQGGINKTNLESILIPN 686

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
              + Q  I      E  +++     I  S+   +    + +  
Sbjct: 687 ADFEIQKQIV----AECEKVEEQYNTIRMSVEEYQNLIKTILQK 726



 Score = 39.4 bits (90), Expect = 1.2,   Method: Composition-based stats.
 Identities = 28/193 (14%), Positives = 61/193 (31%), Gaps = 18/193 (9%)

Query: 26  KVVPIKRF------TKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT---- 75
           ++V +K F       K  +G   +     + +G E +++ +G     +      +     
Sbjct: 533 ELVRLKDFVLDIQTAKRPSGGVGKYENGALSLGGEHIDNKSGYIKLDNPKYVPIEFYESF 592

Query: 76  --STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP------KDVLPELLQGW 127
                 I  +  IL  K G    K  +   + I  +  +               + L   
Sbjct: 593 ALQDKGIVKQFDILICKDGALTGKIAMVRNEFIRKSAMINEHIFLLRCDNIAKQKYLFYI 652

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
           L S    Q +++   G+     +   + +I +P      Q  I  +      + +T+   
Sbjct: 653 LHSYSGQQALKSKITGSAQGGINKTNLESILIPNADFEIQKQIVAECEKVEEQYNTIRMS 712

Query: 188 RIRFIELLKEKKQ 200
              +  L+K   Q
Sbjct: 713 VEEYQNLIKTILQ 725


>gi|295135947|ref|YP_003586623.1| hypothetical protein ZPR_4123 [Zunongwangia profunda SM-A87]
 gi|294983962|gb|ADF54427.1| hypothetical protein ZPR_4123 [Zunongwangia profunda SM-A87]
          Length = 46

 Score = 55.6 bits (132), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/33 (51%), Positives = 21/33 (63%)

Query: 5  KAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLN 37
          K YP YKDSGV W+G IPKHW++  +    K  
Sbjct: 2  KTYPAYKDSGVDWLGKIPKHWEIRRLGSRFKER 34


>gi|312874506|ref|ZP_07734532.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus iners LEAF 2053A-b]
 gi|311089968|gb|EFQ48386.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus iners LEAF 2053A-b]
          Length = 190

 Score = 55.6 bits (132), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/129 (9%), Positives = 39/129 (30%), Gaps = 13/129 (10%)

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ 355
           +  +               I  ++ +          +    + +  L           + 
Sbjct: 67  VSCRGAASGNIIETYPNSFITNNSLVLEWNDYRYYEFYKQFLFANPLHTY---ATGSAQP 123

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI---VLLKERRSSFIA 412
            +  +++K +P   P   E       I    +++  +     ++I     L   R + + 
Sbjct: 124 QITIDNIKNVPFPCPKYDE-------IRELCSQLKSISALHFENIVESNKLSMLRDTLLP 176

Query: 413 AAVTGQIDL 421
             ++G++D+
Sbjct: 177 KLISGELDV 185


>gi|219855948|ref|YP_002473070.1| hypothetical protein CKR_2605 [Clostridium kluyveri NBRC 12016]
 gi|219569672|dbj|BAH07656.1| hypothetical protein [Clostridium kluyveri NBRC 12016]
          Length = 478

 Score = 55.6 bits (132), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 52/401 (12%), Positives = 116/401 (28%), Gaps = 43/401 (10%)

Query: 46  KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFD- 104
           K+   I L ++E G G     D N      S   I     I++ +L  ++    + +   
Sbjct: 64  KEYQLIDLANIEPGIGFLNDLDKNIVSEIGSDKIILDGADIVFSRLNSHIGYVFLMEDIP 123

Query: 105 -----GICSTQFLVLQPKDVL--PELLQGWLLSIDVTQRIEAICEGATMSH--ADWKGIG 155
                 I ST+F  L+  +     +LL+ +LL  +  ++   I  G + SH     +   
Sbjct: 124 NSKISVIGSTEFFPLKVDNTTIPSKLLKYYLLHREFRKKAIFIRTGKSQSHPRIQVEDFM 183

Query: 156 NIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL------VSYIVTK 209
               PI P    + +  KI      I     E      +++            +      
Sbjct: 184 RFKFPILPQKVSIELIRKINIFEDEIKKKKLEYESLQNIIESVFLKYDIKKPSLDENFHI 243

Query: 210 GLNPD------VKMKDSGIEWV----------------GLVPDHWEVKPFFALVTELNRK 247
            + P        +    G E++                   P     +        + +K
Sbjct: 244 KIKPMLSNIANQRYMRIGAEYMSFWMLRKGCLFQSEDKNKYPIIPMKRLIRKYNATVIKK 303

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
                   ++   +   +         +  E           + +   +        +  
Sbjct: 304 GLMTDTRILVEFEHIQSLNGKIENLSNVVTEVGSDKIEFGNADFLTNKLRPYLGYTIINP 363

Query: 308 AQVMERGI--ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRL 365
             +   G        +  K +   +      + S  L +    M       +   D+  +
Sbjct: 364 KHLNIIGTTEFIPFSIINKLNTSVNYIRYVFLSSEYLKQSKLLMSGKEHPRINISDILNI 423

Query: 366 PVLVPPIKEQFDITNVI---NVETARIDVLVEKIEQSIVLL 403
            + +P +  Q +I   I    +++A+I   ++ I + I  +
Sbjct: 424 RIPLPKLTIQHNIVKEILQRELKSAKILKEIKVIREKIDNI 464


>gi|253569683|ref|ZP_04847092.1| restriction modification system DNA specificity subunit
           [Bacteroides sp. 1_1_6]
 gi|251840064|gb|EES68146.1| restriction modification system DNA specificity subunit
           [Bacteroides sp. 1_1_6]
          Length = 194

 Score = 55.6 bits (132), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 33/146 (22%), Positives = 59/146 (40%), Gaps = 8/146 (5%)

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
           K          S   G I +     ++  + ES   Y+IV  G+ V      Q       
Sbjct: 31  KKLAYKNVLSASQELGMIERSNINIDIKFEQESISGYKIVRKGDYVVHLRSFQG-----G 85

Query: 307 SAQVMERGIITSAYMAVKPHGIDST-YLAWLMRSYDLCKVFYAMGSGLR--QSLKFEDVK 363
            A     GI + AY  ++P+ +    YL+    S    K    +  G+R  +S+  ++  
Sbjct: 86  FAFSDTTGICSPAYTILRPNDLVVYGYLSHFFTSKPFIKSLKLVTYGIRDGRSINVDEWL 145

Query: 364 RLPVLVPPIKEQFDITNVINVETARI 389
            +P+L+P  +EQ  I  ++N   A++
Sbjct: 146 DMPILLPSAQEQMRILTIVNAIDAKL 171



 Score = 47.9 bits (112), Expect = 0.003,   Method: Composition-based stats.
 Identities = 21/161 (13%), Positives = 51/161 (31%), Gaps = 3/161 (1%)

Query: 33  FTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLG 92
             ++   +  +     +    +++       +  D    Q   S   I  KG  +   L 
Sbjct: 22  LFEVVNEKNKKLAYKNVLSASQELGMIERSNINIDIKFEQESISGYKIVRKGDYVV-HLR 80

Query: 93  PYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATM--SHAD 150
            +      +D  GICS  + +L+P D++         +     +   +           +
Sbjct: 81  SFQGGFAFSDTTGICSPAYTILRPNDLVVYGYLSHFFTSKPFIKSLKLVTYGIRDGRSIN 140

Query: 151 WKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
                ++P+ +P   EQ+ I   + A   ++      +   
Sbjct: 141 VDEWLDMPILLPSAQEQMRILTIVNAIDAKLHNEAKVQFCL 181


>gi|121608003|ref|YP_995810.1| restriction modification system DNA specificity subunit
           [Verminephrobacter eiseniae EF01-2]
 gi|121552643|gb|ABM56792.1| restriction modification system DNA specificity domain
           [Verminephrobacter eiseniae EF01-2]
          Length = 575

 Score = 55.6 bits (132), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/138 (12%), Positives = 43/138 (31%), Gaps = 4/138 (2%)

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
             +     + + +     E +QIV    ++    +     R+      +   +  +    
Sbjct: 408 WHLNLSSVKQVVIDQSELERFQIVRGDLLITEGGNRDKVGRTAIWRDELPVCLHQNHVFR 467

Query: 323 VK--PHGIDSTYLAWLMRSYDLCKVFYAMGSGLR--QSLKFEDVKRLPVLVPPIKEQFDI 378
           V+      +  +    + S      F A         S+    ++     VPP+ EQ  I
Sbjct: 468 VRGTSPDWNPVWAELYLNSVTARAYFAAASKQTTNLASINMTQLRLCAFPVPPLVEQARI 527

Query: 379 TNVINVETARIDVLVEKI 396
            + +    +    L +++
Sbjct: 528 VSRVEALRSLCADLRQRL 545



 Score = 52.9 bits (125), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 28/188 (14%), Positives = 59/188 (31%), Gaps = 16/188 (8%)

Query: 218 KDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKP 277
           K +  E    +P  WE     AL+     K     +           +   +  ++G   
Sbjct: 70  KIAQHEKPFALPPGWEWVRLGALLPFRIGKTPASEDPQYWDQEGYAWVSISDMAHLGEVF 129

Query: 278 ESYET----------YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
           ++             Y+ +  G ++  F         LR        I++     +   G
Sbjct: 130 DTQRKLTARGAQVFGYEPLPVGTLIMSFKLTIGKISVLRVPAYHNEAIVS----LMPLCG 185

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           + + +L +++ +     V      G   +L  + +  L + +PP  EQ  I   +     
Sbjct: 186 LVTDFLKYMLPTVSKTGVSKEALMGT--TLNTQSLSNLLIALPPAVEQSRIVARVEELMR 243

Query: 388 RIDVLVEK 395
             D L  +
Sbjct: 244 LCDTLEAR 251



 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 29/197 (14%), Positives = 57/197 (28%), Gaps = 14/197 (7%)

Query: 22  PKHWKVVPIKRFTKLNTG------RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           P  W+         + +G          +   + Y+ + +V+                  
Sbjct: 365 PPGWEWARFGDVAAITSGVILGRKAAISAPVLLPYLRVANVQRWHLNLSSVKQVVIDQSE 424

Query: 76  STVSIFAKGQILYGKLGP---YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
                  +G +L  + G      R AI  D   +C  Q  V + +   P+    W     
Sbjct: 425 LERFQIVRGDLLITEGGNRDKVGRTAIWRDELPVCLHQNHVFRVRGTSPDWNPVWAELYL 484

Query: 133 VTQRIEAIC-----EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
            +    A       +   ++  +   +     P+PPL EQ  I  ++ A       L   
Sbjct: 485 NSVTARAYFAAASKQTTNLASINMTQLRLCAFPVPPLVEQARIVSRVEALRSLCADLRQR 544

Query: 188 RIRFIELLKEKKQALVS 204
                 +     +AL+ 
Sbjct: 545 LSASQTVQTHLAEALLE 561



 Score = 43.6 bits (101), Expect = 0.061,   Method: Composition-based stats.
 Identities = 28/222 (12%), Positives = 66/222 (29%), Gaps = 15/222 (6%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESG-------KDIIYIGLEDV-ESGTGKYLPKDGNSRQ 72
           +P  W+ V +        G+T  S        +   ++ + D+   G      +   +R 
Sbjct: 80  LPPGWEWVRLGALLPFRIGKTPASEDPQYWDQEGYAWVSISDMAHLGEVFDTQRKLTARG 139

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
           +          G ++       + K  +       +   + L P   L      ++L   
Sbjct: 140 AQVFGYEPLPVGTLIMS-FKLTIGKISVLRVPAYHNEAIVSLMPLCGLVTDFLKYMLPTV 198

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
               +       T    + + + N+ + +PP  EQ  I  ++       DTL        
Sbjct: 199 SKTGVSKEALMGT--TLNTQSLSNLLIALPPAVEQSRIVARVEELMRLCDTLEARGPLEA 256

Query: 193 ELLKEKKQALVSYI----VTKGLNPDVKMKDSGIEWVGLVPD 230
                    L+  +      + L+   +   +  + +   P+
Sbjct: 257 AQHARLVDTLLGTLTGSNTPQELSAHWQRVRTHFDLLFDRPE 298


>gi|323699620|ref|ZP_08111532.1| restriction modification system DNA specificity domain
           [Desulfovibrio sp. ND132]
 gi|323459552|gb|EGB15417.1| restriction modification system DNA specificity domain
           [Desulfovibrio desulfuricans ND132]
          Length = 257

 Score = 55.6 bits (132), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 23/121 (19%), Positives = 45/121 (37%), Gaps = 4/121 (3%)

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCK 344
            ++ G+I+F    ++     +               +   P  +   YLAW +      +
Sbjct: 126 FLEEGDILFVNRGMRFFGALVDKPLEKAVAAPHFFIIKANPALVRPDYLAWFLNGKQAQR 185

Query: 345 VFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINV-ETARIDVLVEKIEQSIVL 402
            +    +G     +  + ++ LPV VP ++ Q  I  V       +I  L E+I +   L
Sbjct: 186 YYGQCAAGTALPHITRKTLEALPVPVPSLERQALIAKVYQCGLQEKI--LTERIVEQREL 243

Query: 403 L 403
           L
Sbjct: 244 L 244


>gi|321310231|ref|YP_004192560.1| type I restriction-modification system, S subunit [Mycoplasma
           haemofelis str. Langford 1]
 gi|319802075|emb|CBY92721.1| type I restriction-modification system, S subunit [Mycoplasma
           haemofelis str. Langford 1]
          Length = 202

 Score = 55.6 bits (132), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/172 (11%), Positives = 56/172 (32%), Gaps = 11/172 (6%)

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNM--GLKPESYETYQIVDPGEIVFRF 295
             + T    K +   ++    +   NI     T +      P ++    ++  G+IV   
Sbjct: 20  CEIQTGFGVKTSFYRDNGFPIIKGENIHGGQITTDNLSYCNPNNHPNAPVIKYGDIVIV- 78

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-R 354
                    +           ++    + P               +  +    +  G  +
Sbjct: 79  --SHGCPGKVGINLTDREFFFSNNVHKLIPDETVLIKKYLYHCLLNKQEEIKGLAKGSSQ 136

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
             +    +++L + +  ++ Q  I   ++    +   L ++++Q + LL++R
Sbjct: 137 PFVGKSVMRKLKIPIYCLETQTKIVETLD----KFQELKQELKQEL-LLRKR 183



 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 20/159 (12%), Positives = 48/159 (30%), Gaps = 6/159 (3%)

Query: 30  IKRFTKLNTG----RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           +    ++ TG     +         I  E++  G             ++     +   G 
Sbjct: 16  LGDVCEIQTGFGVKTSFYRDNGFPIIKGENIHGGQIT-TDNLSYCNPNNHPNAPVIKYGD 74

Query: 86  ILYGKLGPYLRK-AIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
           I+    G   +    + D +   S     L P + +      +   ++  + I+ + +G+
Sbjct: 75  IVIVSHGCPGKVGINLTDREFFFSNNVHKLIPDETVLIKKYLYHCLLNKQEEIKGLAKGS 134

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           +        +  + +PI  L  Q  I E +         
Sbjct: 135 SQPFVGKSVMRKLKIPIYCLETQTKIVETLDKFQELKQE 173


>gi|298375963|ref|ZP_06985919.1| N-6 DNA methylase [Bacteroides sp. 3_1_19]
 gi|298267000|gb|EFI08657.1| N-6 DNA methylase [Bacteroides sp. 3_1_19]
          Length = 837

 Score = 55.6 bits (132), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 24/125 (19%), Positives = 50/125 (40%), Gaps = 5/125 (4%)

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH--GIDSTYLAWLMR 338
           +    V  G+ +   ID ++    +  + + E  I+T  ++        I   YL  ++ 
Sbjct: 706 KRQTRVKGGQFIISKIDGKSAAFGIVDSSL-EGAIVTPDFLVYDIDTTQILPEYLELVLT 764

Query: 339 SYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
           +  +   F    SG   R+ L  +  +   + +P I EQ ++   I         L E++
Sbjct: 765 NDAILNQFSISSSGTTGRRRLSQKVFENTLIALPSIDEQRNLLAKILEIRETQKSLEEQM 824

Query: 397 EQSIV 401
           ++SI 
Sbjct: 825 QKSIE 829


>gi|153955554|ref|YP_001396319.1| Type I specificity subunit-related protein [Clostridium kluyveri
           DSM 555]
 gi|146348412|gb|EDK34948.1| Type I specificity subunit-related protein [Clostridium kluyveri
           DSM 555]
          Length = 476

 Score = 55.2 bits (131), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 52/401 (12%), Positives = 116/401 (28%), Gaps = 43/401 (10%)

Query: 46  KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFD- 104
           K+   I L ++E G G     D N      S   I     I++ +L  ++    + +   
Sbjct: 62  KEYQLIDLANIEPGIGFLNDLDKNIVSEIGSDKIILDGADIVFSRLNSHIGYVFLMEDIP 121

Query: 105 -----GICSTQFLVLQPKDVL--PELLQGWLLSIDVTQRIEAICEGATMSH--ADWKGIG 155
                 I ST+F  L+  +     +LL+ +LL  +  ++   I  G + SH     +   
Sbjct: 122 NSKISVIGSTEFFPLKVDNTTIPSKLLKYYLLHREFRKKAIFIRTGKSQSHPRIQVEDFM 181

Query: 156 NIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL------VSYIVTK 209
               PI P    + +  KI      I     E      +++            +      
Sbjct: 182 RFKFPILPQKVSIELIRKINIFEDEIKKKKLEYESLQNIIESVFLKYDIKKPSLDENFHI 241

Query: 210 GLNPD------VKMKDSGIEWV----------------GLVPDHWEVKPFFALVTELNRK 247
            + P        +    G E++                   P     +        + +K
Sbjct: 242 KIKPMLSNIANQRYMRIGAEYMSFWMLRKGCLFQSEDKNKYPIIPMKRLIRKYNATVIKK 301

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
                   ++   +   +         +  E           + +   +        +  
Sbjct: 302 GLMTDTRILVEFEHIQSLNGKIENLSNVVTEVGSDKIEFGNADFLTNKLRPYLGYTIINP 361

Query: 308 AQVMERGI--ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRL 365
             +   G        +  K +   +      + S  L +    M       +   D+  +
Sbjct: 362 KHLNIIGTTEFIPFSIINKLNTSVNYIRYVFLSSEYLKQSKLLMSGKEHPRINISDILNI 421

Query: 366 PVLVPPIKEQFDITNVI---NVETARIDVLVEKIEQSIVLL 403
            + +P +  Q +I   I    +++A+I   ++ I + I  +
Sbjct: 422 RIPLPKLTIQHNIVKEILQRELKSAKILKEIKVIREKIDNI 462


>gi|241895462|ref|ZP_04782758.1| conserved hypothetical protein [Weissella paramesenteroides ATCC
           33313]
 gi|241871436|gb|EER75187.1| conserved hypothetical protein [Weissella paramesenteroides ATCC
           33313]
          Length = 145

 Score = 55.2 bits (131), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 21/151 (13%), Positives = 49/151 (32%), Gaps = 7/151 (4%)

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
               + I   +  N       +    + +SY     +   +I+F           + S+ 
Sbjct: 1   MGNVNFIKVENLSNNQIYPVQKISQEEHDSYLKRSRLQANDILFSIAGTLGRIAIVGSSL 60

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM-GSGLRQSLKFEDVKRLPVL 368
           +        A   ++ +  DS +L   +  + + +        G + +L  E V  L + 
Sbjct: 61  LPAN--TNQALSIIRGYDFDSDFLITSLSGHVVAEYIRKNPTVGAQPNLSLEQVGNLIIS 118

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQS 399
            P  +EQ  I +        ++ L+   +  
Sbjct: 119 SPIEEEQEKIGSF----FKLLNHLITVNQDK 145



 Score = 42.1 bits (97), Expect = 0.17,   Method: Composition-based stats.
 Identities = 22/137 (16%), Positives = 43/137 (31%), Gaps = 2/137 (1%)

Query: 47  DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADF--D 104
           ++ +I +E++ +     + K            S      IL+   G   R AI+      
Sbjct: 3   NVNFIKVENLSNNQIYPVQKISQEEHDSYLKRSRLQANDILFSIAGTLGRIAIVGSSLLP 62

Query: 105 GICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPL 164
              +    +++  D   + L   L    V + I          +   + +GN+ +  P  
Sbjct: 63  ANTNQALSIIRGYDFDSDFLITSLSGHVVAEYIRKNPTVGAQPNLSLEQVGNLIISSPIE 122

Query: 165 AEQVLIREKIIAETVRI 181
            EQ  I          I
Sbjct: 123 EEQEKIGSFFKLLNHLI 139


>gi|240047296|ref|YP_002960684.1| hypothetical protein MCJ_001680 [Mycoplasma conjunctivae HRC/581]
 gi|239984868|emb|CAT04861.1| PUTATIVE Uncharacterized protein MJ1218 [Mycoplasma conjunctivae]
          Length = 136

 Score = 55.2 bits (131), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/106 (15%), Positives = 37/106 (34%), Gaps = 6/106 (5%)

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
                    ++       +  D  ++  L+ SY   +    +     + + F++  +   
Sbjct: 34  FLPTNTAFCSTMSALTSKNNFDIYFIYSLLSSYFPIESI--ISGTTIKHIYFKNYGQFEY 91

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            VP IKEQ  I          ID L+   E  +  ++  +++ +  
Sbjct: 92  FVPSIKEQEKIA----KVFKNIDNLLNLYELKLQKIEMIKTTLLNK 133


>gi|256826768|ref|YP_003150727.1| hypothetical protein Ccur_03180 [Cryptobacterium curtum DSM 15641]
 gi|256582911|gb|ACU94045.1| hypothetical protein Ccur_03180 [Cryptobacterium curtum DSM 15641]
          Length = 159

 Score = 55.2 bits (131), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 32/143 (22%), Positives = 58/143 (40%), Gaps = 13/143 (9%)

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
             I    E+        S   Y++V  G+IV+  + +               GI++ AY+
Sbjct: 24  NGIYPASESDRDTNPGASINNYKVVRIGDIVYNSMRMWQGAVG----SSRYNGIVSPAYV 79

Query: 322 AVKPHGI-DSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPP-IKEQF 376
            V+P    DST   +L++   +   +     G     Q+LK+E    +   +P  I+EQ 
Sbjct: 80  VVRPRMKLDSTCFGYLLKRPGMLYKYLCDSQGNSKDTQTLKYERFAEIDADIPSTIEEQR 139

Query: 377 DITNVINVETARIDVLVEKIEQS 399
            I+N       R+D L+   ++ 
Sbjct: 140 SISNY----FMRLDDLITLHQRK 158



 Score = 50.9 bits (120), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 19/155 (12%), Positives = 53/155 (34%), Gaps = 8/155 (5%)

Query: 31  KRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGK 90
               + +  R++   ++I+ + + +      +       +  +  +   +   G I+Y  
Sbjct: 2   GELFEESDLRSAT--EEILSVSVANGIYPASE--SDRDTNPGASINNYKVVRIGDIVYNS 57

Query: 91  LGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW---LLSIDVTQRIEAICEGATMS 147
           +  +      + ++GI S  ++V++P+  L     G+      +      ++        
Sbjct: 58  MRMWQGAVGSSRYNGIVSPAYVVVRPRMKLDSTCFGYLLKRPGMLYKYLCDSQGNSKDTQ 117

Query: 148 HADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRI 181
              ++    I   IP  + EQ  I    +     I
Sbjct: 118 TLKYERFAEIDADIPSTIEEQRSISNYFMRLDDLI 152


>gi|291514834|emb|CBK64044.1| Restriction endonuclease S subunits [Alistipes shahii WAL 8301]
          Length = 188

 Score = 55.2 bits (131), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/144 (12%), Positives = 49/144 (34%), Gaps = 11/144 (7%)

Query: 274 GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK---PHGIDS 330
                S     ++   +++      +N      +   +   + + +++ ++   P  I  
Sbjct: 45  TTTVSSKAARHLLTESDLLLAAKGGKNF--CAIAPTQLGPCVASPSFLIIRIDDPTRILP 102

Query: 331 TYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFD-IT-NVINVETA 387
            YL   +      ++  A   G    SL   D++   + +PP++ Q   I    ++    
Sbjct: 103 EYLCGFLNLPSTRQLLTAQAQGSAIASLSKADLEEFEIPLPPLERQRACIALTRLHRREQ 162

Query: 388 RIDVLVEKIEQSI---VLLKERRS 408
            +   + +  + I    L K  + 
Sbjct: 163 ALYKAIAERRRQITDYKLTKIYKD 186



 Score = 39.8 bits (91), Expect = 0.87,   Method: Composition-based stats.
 Identities = 33/152 (21%), Positives = 56/152 (36%), Gaps = 7/152 (4%)

Query: 28  VPIKRFTKLNTG--RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           V +K    + TG    S    D  Y+ + D +            +  S  +   +  +  
Sbjct: 2   VKLKDIATIQTGVYLKSTPSPDTCYLQVNDFDEEGNIRPTVRPTTTVSSKAARHLLTESD 61

Query: 86  ILYGKLGPYLRKAIIADFDGIC--STQFLVLQ---PKDVLPELLQGWLLSIDVTQRIEAI 140
           +L    G     AI     G C  S  FL+++   P  +LPE L G+L      Q + A 
Sbjct: 62  LLLAAKGGKNFCAIAPTQLGPCVASPSFLIIRIDDPTRILPEYLCGFLNLPSTRQLLTAQ 121

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIRE 172
            +G+ ++      +    +P+PPL  Q     
Sbjct: 122 AQGSAIASLSKADLEEFEIPLPPLERQRACIA 153


>gi|323143704|ref|ZP_08078375.1| hypothetical protein HMPREF9444_01006 [Succinatimonas hippei YIT
           12066]
 gi|322416537|gb|EFY07200.1| hypothetical protein HMPREF9444_01006 [Succinatimonas hippei YIT
           12066]
          Length = 132

 Score = 55.2 bits (131), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/103 (17%), Positives = 34/103 (33%), Gaps = 1/103 (0%)

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ 355
           I  +     +    + +  I            + S     L       K       G+  
Sbjct: 31  ITCKGTVGKIAINSIGKVHIARQLMAIKVNDNLISNQFMELFLQ-RQIKTIEQKARGIIA 89

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
            +K +D+  +   +PPI+EQ  I   IN   +  D  +E + +
Sbjct: 90  GIKRQDILNIKTPLPPIEEQHRIVAKINEIFSFCDKAMELLHK 132


>gi|295101279|emb|CBK98824.1| Restriction endonuclease S subunits [Faecalibacterium prausnitzii
           L2-6]
          Length = 187

 Score = 55.2 bits (131), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/156 (12%), Positives = 52/156 (33%), Gaps = 8/156 (5%)

Query: 242 TELNRKNTKLIESNILSLSYGN----IIQKLETRNMGLKPESYETYQIVDPGEIVFRFID 297
              N K +  ++S +  ++  N     + +   R +  K            G+IV     
Sbjct: 20  FGSNIKVSCFVDSGVPVINGSNLEGFSLSEKTFRYVTRKKADSLNKANAHRGDIVITHRG 79

Query: 298 LQNDKRSLRSAQVMERGIITSA-YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQ 355
                  +      +R +I+ + +       +   YL +   +        +  S +   
Sbjct: 80  TLGQIVFIPQDSKYDRYVISQSQFRVRCNDKVLPEYLVYYFHTPIGQHKLLSNASQVGVP 139

Query: 356 SL--KFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
           +L       +++ +++P +  Q  +  +I+    +I
Sbjct: 140 ALARPSSTFQQIEIVLPELSIQKCVVEIISTIQKKI 175



 Score = 39.0 bits (89), Expect = 1.3,   Method: Composition-based stats.
 Identities = 26/182 (14%), Positives = 56/182 (30%), Gaps = 16/182 (8%)

Query: 26  KVVPIKRFT-KLNTGRTSES-------GKDIIYIGLEDVESGT-GKYLPKDGNSRQSDTS 76
           +   I     ++  G    +          +  I   ++E  +  +   +    +++D+ 
Sbjct: 4   ETYRIADLIDEIAMGPFGSNIKVSCFVDSGVPVINGSNLEGFSLSEKTFRYVTRKKADSL 63

Query: 77  TVSIFAKGQILYGKLGPYLRKAII-----ADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
             +   +G I+    G   +   I      D   I  +QF V     VLPE L  +  + 
Sbjct: 64  NKANAHRGDIVITHRGTLGQIVFIPQDSKYDRYVISQSQFRVRCNDKVLPEYLVYYFHTP 123

Query: 132 DVTQRIEAICEGATMSHA--DWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
               ++ +      +            I + +P L+ Q  + E I     +I        
Sbjct: 124 IGQHKLLSNASQVGVPALARPSSTFQQIEIVLPELSIQKCVVEIISTIQKKIVNNQELND 183

Query: 190 RF 191
             
Sbjct: 184 NL 185


>gi|317490793|ref|ZP_07949234.1| type I site-specific deoxyribonuclease chain S [Eggerthella sp.
           1_3_56FAA]
 gi|316910105|gb|EFV31773.1| type I site-specific deoxyribonuclease chain S [Eggerthella sp.
           1_3_56FAA]
          Length = 186

 Score = 55.2 bits (131), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 28/177 (15%), Positives = 49/177 (27%), Gaps = 14/177 (7%)

Query: 219 DSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL---SYGNIIQKLETRNMGL 275
               E    +P+ WE      + T + R  +                N            
Sbjct: 10  CIDDEIPFDIPEGWEWARLEGITTYIQRGKSPKYSLEKKYPVVAQKCNQWSGFSLERAKF 69

Query: 276 KP----ESYETYQIVDPGEIVFRFIDLQN---DKRSLRSAQVMERGIITSAY--MAVKPH 326
                  SY   +++  G++++    L           +       +  S    +   P 
Sbjct: 70  VDPNSVASYAEERLLVDGDLLWNSTGLGTLGRMAVYDSNQNPYGWAVADSHVTVIRTVPD 129

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNV 381
            +   Y         +  V     SG   ++ L  E VKR  + VPP+ EQ  I   
Sbjct: 130 WLRYEYAFLYFAGPSVQSVIEDQASGSTKQKELAQETVKRYLIPVPPLAEQRRIAER 186



 Score = 41.3 bits (95), Expect = 0.28,   Method: Composition-based stats.
 Identities = 15/124 (12%), Positives = 40/124 (32%), Gaps = 14/124 (11%)

Query: 20  AIPKHWKVVPIKRFTK-LNTGRTSESG--KDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            IP+ W+   ++  T  +  G++ +    K    +  +     +G  L +      +  +
Sbjct: 18  DIPEGWEWARLEGITTYIQRGKSPKYSLEKKYPVVAQKC-NQWSGFSLERAKFVDPNSVA 76

Query: 77  TV---SIFAKGQILYGKLG-PYLRKAIIAD------FDGICSTQFLVLQPKDVLPELLQG 126
           +     +   G +L+   G   L +  + D         +  +   V++           
Sbjct: 77  SYAEERLLVDGDLLWNSTGLGTLGRMAVYDSNQNPYGWAVADSHVTVIRTVPDWLRYEYA 136

Query: 127 WLLS 130
           +L  
Sbjct: 137 FLYF 140


>gi|317483931|ref|ZP_07942868.1| hypothetical protein HMPREF0179_00217 [Bilophila wadsworthia 3_1_6]
 gi|316924805|gb|EFV45954.1| hypothetical protein HMPREF0179_00217 [Bilophila wadsworthia 3_1_6]
          Length = 524

 Score = 55.2 bits (131), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/121 (14%), Positives = 49/121 (40%), Gaps = 3/121 (2%)

Query: 285 IVDPGEIVF-RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC 343
            +  G+++      LQ+  +     Q  +  + +  +  ++   ID  +L   +RS    
Sbjct: 389 RLREGDLLLTCKGSLQSLGKVGIVTQCGDNWLPSQTFYLIRTECIDPIWLFHYLRSPRAL 448

Query: 344 KVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
               +  SG     ++  D+  LP+ +P  +E     + ++ +  ++   ++K+   +  
Sbjct: 449 NYLRSNISGTSIPQIRVADIAALPIPIPN-EEMLASVHAVHRQALKLLQKIDKLRDELDG 507

Query: 403 L 403
           L
Sbjct: 508 L 508


>gi|303260418|ref|ZP_07346387.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP-BS293]
 gi|303265064|ref|ZP_07350978.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae BS397]
 gi|302638453|gb|EFL68919.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP-BS293]
 gi|302645424|gb|EFL75657.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae BS397]
          Length = 193

 Score = 55.2 bits (131), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 14/133 (10%), Positives = 44/133 (33%), Gaps = 7/133 (5%)

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKR--SLRSAQVMERGIITS 318
             +     E +N+ +     +    V+ G+++   ++            A   +   +  
Sbjct: 41  SYDYFNSSEVKNLPIDYIPLDE-HKVEIGDVIISRMNTSELVGAAGYVWAINSDNIYLPD 99

Query: 319 AYMAVKPHGIDSTYLAWLM----RSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKE 374
               V  +   +    W +    ++    K   +  SG  +++    + ++ V  PP+  
Sbjct: 100 RLWKVILNDRVNPVFLWKLITNEKTKLKIKRISSGTSGSMKNISKSQLLQIRVPFPPLAL 159

Query: 375 QFDITNVINVETA 387
           Q +  + + +   
Sbjct: 160 QNEFADFVALVDK 172


>gi|299144871|ref|ZP_07037939.1| type I restriction-modification system specificity subunit
           [Bacteroides sp. 3_1_23]
 gi|298515362|gb|EFI39243.1| type I restriction-modification system specificity subunit
           [Bacteroides sp. 3_1_23]
          Length = 240

 Score = 55.2 bits (131), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 30/208 (14%), Positives = 64/208 (30%), Gaps = 20/208 (9%)

Query: 10  YKDSGVQ--WIG----AIPKHWKVVPIKRFTKLNTG------RTSESGKDIIYIGLEDVE 57
           YK SG +  W       IP  W+V+P+     +  G      + +E   ++  + + D+ 
Sbjct: 34  YKSSGGEMVWNEKLKREIPIDWEVLPLFDAVSVQYGFPFATEQFTEEETNVPVVRIRDIL 93

Query: 58  SGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPK 117
            GT                      +  +L G  G         D     + + + L+  
Sbjct: 94  EGT------TSAYSLEKADEKYHLNENDVLVGMDG-NFHMNFWHDNIAYLNQRCVRLRAH 146

Query: 118 DVLP-ELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIA 176
                  +Q         +  E   +G+T+ H   K +  + +  P        R+ +  
Sbjct: 147 SDSTISSIQILHSIKPYIKAKEQNAKGSTVGHLSDKDLKGLYLIKPLKTRAFNPRKTLDG 206

Query: 177 ETVRIDTLITERIRFIELLKEKKQALVS 204
               +     + +   +   E    L++
Sbjct: 207 LLALVIENKKQILSLTKQRDELLPLLIN 234


>gi|46143839|ref|ZP_00204580.1| COG0732: Restriction endonuclease S subunits [Actinobacillus
           pleuropneumoniae serovar 1 str. 4074]
 gi|126207776|ref|YP_001053001.1| putative Type I restriction enzyme EcoR124II specificity protein
           [Actinobacillus pleuropneumoniae L20]
 gi|126096568|gb|ABN73396.1| putative Type I restriction enzyme EcoR124II specificity protein
           [Actinobacillus pleuropneumoniae serovar 5b str. L20]
          Length = 364

 Score = 55.2 bits (131), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 44/411 (10%), Positives = 119/411 (28%), Gaps = 68/411 (16%)

Query: 11  KDSGVQWIGAIPKHWKVVPIKRFTKLNT-----GRTSESGKDIIYIGLEDVESGTGKYLP 65
           KD  V+W            +    K         +++    D     L   ++    Y  
Sbjct: 8   KDCEVEW----------KSLGEVAKYEQPTKYLVKSTNYNDDFNTPVLTAGKTFILGYTD 57

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ 125
           +      + ++ + IF            +       DFD    +  + +       +   
Sbjct: 58  EIDGIYPAKSNPIIIF----------DDFTTANKWVDFDFKVKSSAMKMITSSDENKFSL 107

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
            ++     T  +E   +      +++       +PIPPL  Q  I + +   T       
Sbjct: 108 KYIYYWLNTLPMEDNTDHKRQWISNFAN---KKIPIPPLEIQEKIVKTLDIFTKL----- 159

Query: 186 TERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN 245
                 + L  ++     + ++T   + +    D   E +                    
Sbjct: 160 ---EAELSLRVKQYDYYRNELLTFDDDVEFITLDKISENLN--------------SMRKP 202

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
            K+    +  I       I+  +E           E   I + G  +            +
Sbjct: 203 IKSGLREKGRIPYYGASGIVDYVEDYIF-----DDEILLISEDGANLIARNTP------I 251

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRL 365
             + + +  +   A++      ++  ++ + + + DL           +  L  +++ ++
Sbjct: 252 AFSVLGKCWVNNHAHVLKFKTDVERKFVEFYLNNLDLSPFI---SGAAQPKLNKQNLNKI 308

Query: 366 PVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           P+       Q  I ++++      + + + + + I L ++     R   + 
Sbjct: 309 PIPNITFATQQKIVDILDKFDRLPNSISDGLPKEIELRRKQYEYYRERLLN 359


>gi|229548134|ref|ZP_04436859.1| conserved hypothetical protein [Enterococcus faecalis ATCC 29200]
 gi|229306735|gb|EEN72731.1| conserved hypothetical protein [Enterococcus faecalis ATCC 29200]
          Length = 202

 Score = 55.2 bits (131), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 23/216 (10%), Positives = 61/216 (28%), Gaps = 20/216 (9%)

Query: 197 EKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNI 256
           E K+A +  +         K++ +  E    +     +        +   + +    +  
Sbjct: 3   ELKKAYLQLMFPTKEERVPKLRFADFEGEWELCKLIGILDIIKGTQKSKSELSTNQNNCT 62

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
               Y   I      N+  +                      +    +     V E+   
Sbjct: 63  PYPVYNGGINPSGYTNIYNREN---------------AITISEGGNSAGFVNFVQEKFFS 107

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
                 +  +  D+ +L + + S    ++          +++   +  L +      EQ 
Sbjct: 108 GGHNYTIVNNVTDTLFLFFYLCSIQ-EEIMRLRVGTGLPNIQKPTLMNLEIQKTTDNEQK 166

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
            I   +      ID+L+   +  +  LK  + S++ 
Sbjct: 167 FIGLFL----KNIDILITLTQNKLNQLKSLKKSYLQ 198



 Score = 38.6 bits (88), Expect = 1.7,   Method: Composition-based stats.
 Identities = 20/180 (11%), Positives = 47/180 (26%), Gaps = 9/180 (5%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W++  +     +  G      +      L   ++    Y   +G    S  + +    +
Sbjct: 31  EWELCKLIGILDIIKGTQKSKSE------LSTNQNNCTPYPVYNGGINPSGYTNIY-NRE 83

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
             I   + G                     +         L  +L    + + I  +  G
Sbjct: 84  NAITISEGGNSAGFVNFVQEKFFSGGHNYTIVNNVTDTLFLFFYLC--SIQEEIMRLRVG 141

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
             + +     + N+ +      EQ  I   +    + I     +  +   L K   Q + 
Sbjct: 142 TGLPNIQKPTLMNLEIQKTTDNEQKFIGLFLKNIDILITLTQNKLNQLKSLKKSYLQNMF 201


>gi|253569701|ref|ZP_04847110.1| conserved hypothetical protein [Bacteroides sp. 1_1_6]
 gi|251840082|gb|EES68164.1| conserved hypothetical protein [Bacteroides sp. 1_1_6]
          Length = 156

 Score = 55.2 bits (131), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 12/64 (18%), Positives = 29/64 (45%), Gaps = 2/64 (3%)

Query: 335 WLMRSYDLCKVF--YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
           +++++ +L +     +        L  +  K + + +PP KEQ  I   I      +D++
Sbjct: 93  YVLQAINLHRKVLRESKVGSAIPHLNKKLFKAIEIPIPPYKEQQRIIKAITKAFMSLDLI 152

Query: 393 VEKI 396
           +E +
Sbjct: 153 MESL 156


>gi|227546690|ref|ZP_03976739.1| possible type I restriction enzyme, S subunit [Bifidobacterium
           longum subsp. infantis ATCC 55813]
 gi|227213007|gb|EEI80886.1| possible type I restriction enzyme, S subunit [Bifidobacterium
           longum subsp. infantis ATCC 55813]
          Length = 159

 Score = 55.2 bits (131), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 22/118 (18%), Positives = 39/118 (33%), Gaps = 7/118 (5%)

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD 341
            Y      +  +  I  Q       +  V +      A         D+ +LA L+   D
Sbjct: 43  GYAKQYNHDGFYALIGRQGALCGNVNTAVGKAYFTEHAVAVKANFLHDTRFLAHLLGCMD 102

Query: 342 LCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
           L +     G   +  L    +K +   VP   EQ  I +      +R+D L+   ++ 
Sbjct: 103 LGRY---SGQSAQPGLAVGVLKEVETTVPSKAEQQAIGSF----FSRLDSLITLHQRK 153


>gi|219851732|ref|YP_002466164.1| restriction modification system DNA specificity subunit
           [Methanosphaerula palustris E1-9c]
 gi|219545991|gb|ACL16441.1| restriction modification system DNA specificity subunit
           [Methanosphaerula palustris E1-9c]
          Length = 180

 Score = 55.2 bits (131), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/120 (12%), Positives = 34/120 (28%), Gaps = 5/120 (4%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSES-----GKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           +G  P+ W++  I     +  G +             ++   +V          D     
Sbjct: 4   LGVFPETWQIKKIGDLFNVQQGISMSPARRNGPNKHPFLRTLNVFWSGIDLKTLDYMDLS 63

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
                      G +L  + G   R AI       C  Q  + + +    ++   +++   
Sbjct: 64  EKEIGKLNLLPGDLLVCEGGDIGRSAIWRGELESCGYQNHIHRLRVKNCDVYPEFVVFWM 123



 Score = 38.6 bits (88), Expect = 1.8,   Method: Composition-based stats.
 Identities = 19/154 (12%), Positives = 44/154 (28%), Gaps = 9/154 (5%)

Query: 224 WVGLVPDHWEVKPFFALVTELN-------RKNTKLIESNILSLSYGNIIQKLETRNMGLK 276
            +G+ P+ W++K    L            R+N       + +L+       L+T +    
Sbjct: 3   NLGVFPETWQIKKIGDLFNVQQGISMSPARRNGPNKHPFLRTLNVFWSGIDLKTLDYMDL 62

Query: 277 PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWL 336
            E       + PG+++             R              + VK   +   ++ + 
Sbjct: 63  SEKEIGKLNLLPGDLLVCEGGDIGRSAIWRGELESCGYQNHIHRLRVKNCDVYPEFVVFW 122

Query: 337 MRSYDLC--KVFYAMGSGLRQSLKFEDVKRLPVL 368
           M++                  +L    +K   + 
Sbjct: 123 MQAAIKILGFYQDEGNKTTIPNLSQSRLKNFDIP 156


>gi|332288723|ref|YP_004419575.1| EcoKI restriction-modification system protein HsdS [Gallibacterium
           anatis UMN179]
 gi|330431619|gb|AEC16678.1| EcoKI restriction-modification system protein HsdS [Gallibacterium
           anatis UMN179]
          Length = 440

 Score = 55.2 bits (131), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 21/150 (14%), Positives = 55/150 (36%), Gaps = 7/150 (4%)

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
           +  G+++     R    +       + V   +I+        +   +      ++ I+  
Sbjct: 45  IKNGDLVNLDNLRYGNNEMYKKWMKEEVKKEDIILTSEAPLGETYYI---DNDQKYILGQ 101

Query: 319 AYM--AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQ 375
                 V    +   YL   + S    +  +   SG   Q +K  ++ ++ V +PP++ Q
Sbjct: 102 RVFGLRVNKEKVVPKYLEIWLSSLKGQQELFKRASGSTVQGIKQTELLKITVDIPPLEIQ 161

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKE 405
             I  + +  + +I  L  +  Q++  + +
Sbjct: 162 EKIATIGDSLSKKI-KLNTQTNQTLEQIAQ 190



 Score = 48.6 bits (114), Expect = 0.002,   Method: Composition-based stats.
 Identities = 66/460 (14%), Positives = 128/460 (27%), Gaps = 82/460 (17%)

Query: 23  KHWKVVPIKRFTKLN---TGRTSES-------GKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
             W  V +     L     G+T +         K    +  + +++G    L        
Sbjct: 2   SDWAKVELSELLTLVIDHRGKTPKKMGFDDFFSKGYPVLSAKHIKNGDLVNLDNLRYGNN 61

Query: 73  SDTST--VSIFAKGQILYGKLGPYLRKAIIADFD-GICSTQFL--VLQPKDVLPELLQGW 127
                       K  I+     P      I +    I   +     +  + V+P+ L+ W
Sbjct: 62  EMYKKWMKEEVKKEDIILTSEAPLGETYYIDNDQKYILGQRVFGLRVNKEKVVPKYLEIW 121

Query: 128 LLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
           L S+   Q +     G+T+       +  I + IPPL  Q  I     + + +I      
Sbjct: 122 LSSLKGQQELFKRASGSTVQGIKQTELLKITVDIPPLEIQEKIATIGDSLSKKIKLNTQT 181

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIE------------------------ 223
                ++ +   +             +   +   IE                        
Sbjct: 182 NQTLEQIAQAIFKHWFIDFAPVHAKANALARGETIEQAELAAMACLSGKTVDKITALKAQ 241

Query: 224 ----------------------WVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
                                  +GLVP  WE      +++   R   K   +       
Sbjct: 242 DPTAYQQLQQTAAAFPSEFVETEMGLVPKGWEWLKIENIIS---RLKNKQKINKNNISDI 298

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
           GNI    + +N+ +   S     I  P + +F F D             + + +I     
Sbjct: 299 GNIPVFEQGQNILMGYHSDNPAFIATPQDPIFIFGDHTCMTHISTKPFSIYQNVI----- 353

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
                G D   L   +   D  K               E + +  + +P          +
Sbjct: 354 --PIKGKDIPTLWVYLAVKDKQKFQEYR------RHWMEFIIK-EICLPNRDLIEHFVEL 404

Query: 382 INVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           +     + D + E  +  I  L++ R   +   ++G+I+L
Sbjct: 405 VTHLFEKKDAIYE--QNKI--LRKVRDELLPKLLSGEIEL 440


>gi|167767097|ref|ZP_02439150.1| hypothetical protein CLOSS21_01615 [Clostridium sp. SS2/1]
 gi|167711072|gb|EDS21651.1| hypothetical protein CLOSS21_01615 [Clostridium sp. SS2/1]
 gi|291559568|emb|CBL38368.1| Type I restriction-modification system methyltransferase subunit
           [butyrate-producing bacterium SSC/2]
          Length = 573

 Score = 55.2 bits (131), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/147 (12%), Positives = 49/147 (33%), Gaps = 3/147 (2%)

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
           +  N I   +   +    +  E Y  V    +V            +   +  +     + 
Sbjct: 422 NIQNGIINDDLPFIKSIDKKLEKYC-VKNNSLVISKNGTPAKVAVVSVPEERKVLANGNL 480

Query: 320 YMAVKPHGI-DSTYLAWLMRSYDL-CKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFD 377
           Y+        +  ++   + S +    +   M   +  ++  + +K++ +  P   +Q  
Sbjct: 481 YVIELDETKVNPYFVKAYLESENGGIALSRIMVGAVMPNIPVDGLKKIIIPCPEKDKQNK 540

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLK 404
           I      +   I VL  K+ ++I  ++
Sbjct: 541 IAEKYLAKIDEIKVLKYKLSKAIAEME 567


>gi|55820897|ref|YP_139339.1| type I restriction-modification system specificty subunit,
           truncated [Streptococcus thermophilus LMG 18311]
 gi|55736882|gb|AAV60524.1| type I restriction-modification system specificty subunit,
           truncated [Streptococcus thermophilus LMG 18311]
          Length = 48

 Score = 55.2 bits (131), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 11/45 (24%), Positives = 22/45 (48%), Gaps = 4/45 (8%)

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           VP  +EQ  I +       ++D  +   ++ + LLKE++  F+  
Sbjct: 5   VPSYEEQQKIGSF----FKQLDDAIALHQRKLDLLKEQKKGFLQK 45


>gi|225378422|ref|ZP_03755643.1| hypothetical protein ROSEINA2194_04090 [Roseburia inulinivorans DSM
           16841]
 gi|225209737|gb|EEG92091.1| hypothetical protein ROSEINA2194_04090 [Roseburia inulinivorans DSM
           16841]
          Length = 244

 Score = 55.2 bits (131), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 30/196 (15%), Positives = 55/196 (28%), Gaps = 6/196 (3%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET 282
           +W                  +    NT     N+ ++S   +       +M   P+    
Sbjct: 50  DWQVKPLGAICSFRNGINYDKNVEGNTVYKIINVRNISSSTLFLDESNFDMICLPQQQGD 109

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
              V    I+     +    R L         I     +   P+         L      
Sbjct: 110 KYRVSNDSIIIARSGIPGTTRIL--YNPSSNIIFCGFIICCTPYDNTLQNYLTLYLRQFE 167

Query: 343 CKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
                  G  + +++  E +K L V +P    Q  + +  N   +RI  L+    +  V 
Sbjct: 168 GSSATQTGGSILKNVSQETLKNLLVPIP----QQSLLSKFNDSVSRIYNLINGNIKENVQ 223

Query: 403 LKERRSSFIAAAVTGQ 418
           L   R   +   + GQ
Sbjct: 224 LTTLRDWLLPMLMNGQ 239



 Score = 53.6 bits (127), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 25/191 (13%), Positives = 56/191 (29%), Gaps = 7/191 (3%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKD----IIYIGLEDVESGTGKYLPKDGNSR--QSD 74
           IP  W+V P+        G   +   +       I + ++ S T      + +       
Sbjct: 47  IPADWQVKPLGAICSFRNGINYDKNVEGNTVYKIINVRNISSSTLFLDESNFDMICLPQQ 106

Query: 75  TSTVSIFAKGQILYGKLG-PYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
                  +   I+  + G P   + +      I    F++              L     
Sbjct: 107 QGDKYRVSNDSIIIARSGIPGTTRILYNPSSNIIFCGFIICCTPYDNTLQNYLTLYLRQF 166

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
                    G+ + +   + + N+ +PIP  +      + +      I+  I E ++   
Sbjct: 167 EGSSATQTGGSILKNVSQETLKNLLVPIPQQSLLSKFNDSVSRIYNLINGNIKENVQLTT 226

Query: 194 LLKEKKQALVS 204
           L       L++
Sbjct: 227 LRDWLLPMLMN 237


>gi|315651215|ref|ZP_07904245.1| conserved hypothetical protein [Eubacterium saburreum DSM 3986]
 gi|315486511|gb|EFU76863.1| conserved hypothetical protein [Eubacterium saburreum DSM 3986]
          Length = 199

 Score = 55.2 bits (131), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 26/193 (13%), Positives = 60/193 (31%), Gaps = 14/193 (7%)

Query: 229 PDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDP 288
           PD W       +       +     SN  + +    I      N GL    +     +  
Sbjct: 16  PDGWTRATLGEVSLMGAGGDKPKTVSNTQTENCPYPIYSNGISNDGLY--GFTNKCKIKD 73

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA 348
             I             +    +    I+    +  K   + + YL   +R+  +      
Sbjct: 74  ESITVSARGTIGF---VCLRHIPYTPIVRLITLIPKTDVLSAKYLYLWLRNMHIHG---- 126

Query: 349 MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
                +Q L   D ++  +++P  +E    T+ I          + + +   + L   R 
Sbjct: 127 -TGTTQQQLTVPDFRKTDIILPTKEEMTLFTDTITPLFE----AIWENQAQNLKLSNTRD 181

Query: 409 SFIAAAVTGQIDL 421
           + +   ++G++D+
Sbjct: 182 ALLPMLMSGKLDI 194



 Score = 39.0 bits (89), Expect = 1.4,   Method: Composition-based stats.
 Identities = 22/190 (11%), Positives = 44/190 (23%), Gaps = 21/190 (11%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           +P  W    +   + +  G            ++  Y    +  S  G Y           
Sbjct: 15  LPDGWTRATLGEVSLMGAGGDKPKTVSNTQTENCPYPIYSNGISNDGLY----------G 64

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
            +         I     G      +          + + L PK  +      +L   ++ 
Sbjct: 65  FTNKCKIKDESITVSARGTIGFVCLRHIPYTPI-VRLITLIPKTDVLSAKYLYLWLRNMH 123

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
                   G T             + +P   E  L  + I      I     + ++    
Sbjct: 124 IH----GTGTTQQQLTVPDFRKTDIILPTKEEMTLFTDTITPLFEAIWENQAQNLKLSNT 179

Query: 195 LKEKKQALVS 204
                  L+S
Sbjct: 180 RDALLPMLMS 189


>gi|332141624|ref|YP_004427362.1| type I restriction-modification system methyltransferase subunit
           [Alteromonas macleodii str. 'Deep ecotype']
 gi|332143450|ref|YP_004429188.1| type I restriction-modification system methyltransferase subunit
           [Alteromonas macleodii str. 'Deep ecotype']
 gi|327551646|gb|AEA98364.1| type I restriction-modification system methyltransferase subunit
           [Alteromonas macleodii str. 'Deep ecotype']
 gi|327553472|gb|AEB00191.1| type I restriction-modification system methyltransferase subunit
           [Alteromonas macleodii str. 'Deep ecotype']
          Length = 713

 Score = 55.2 bits (131), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 39/293 (13%), Positives = 91/293 (31%), Gaps = 9/293 (3%)

Query: 109 TQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQV 168
              ++   ++   + +  +   + V +R          +    + +  I        E  
Sbjct: 399 QSNILFFDRNGPTKGVWFYQHEVPVERRGMKNPCYTVTNALKEEEMAEIRTWYESPCESE 458

Query: 169 LI----REKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEW 224
                  E I ++    D     + +      E  Q  +S  +++  N +   +      
Sbjct: 459 YAWFVPSEDIRSKDFSFDFRNPRKEQQELKDPEHLQQALSSYLSRIENSNANFQSESHTI 518

Query: 225 VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL-KPESYETY 283
             +    W        +           + +   ++     +    R   L K    ++ 
Sbjct: 519 RNIDKKSWNEFKIGDFLIRSKNSIELEDDVDYKQITVKLYGKGAVLRKTILGKDIKTKSQ 578

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA-YMAVKPHGIDSTYLAWLMRSYDL 342
            +   G+++   ID +N   ++    +    +        +    I   +LA+L+RS + 
Sbjct: 579 FLAQSGQLIMSRIDARNGAFAIVPYDLDGAVVTQDFPLFDINRDVILPEFLAFLLRSKEF 638

Query: 343 CK--VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
                  + G+  R+ LK E      + +P I EQ  I    N E  ++  LV
Sbjct: 639 TYACQHASKGTTNRKRLKEELFLSEVLFLPSISEQKVIVAY-NRELNKLANLV 690


>gi|260577393|ref|ZP_05845362.1| putative type I restriction enzyme, S subunit [Rhodobacter sp. SW2]
 gi|259020396|gb|EEW23723.1| putative type I restriction enzyme, S subunit [Rhodobacter sp. SW2]
          Length = 83

 Score = 55.2 bits (131), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/46 (36%), Positives = 25/46 (54%)

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
           I   I+ ET  +D  VE+    I L++E R   IA   TG++D+R 
Sbjct: 2   IVQYIHEETKDLDKAVEETTSEINLIREYRERLIADVATGRLDVRH 47


>gi|307288987|ref|ZP_07568951.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX0109]
 gi|306500056|gb|EFM69409.1| type I restriction modification DNA specificity domain protein
           [Enterococcus faecalis TX0109]
          Length = 183

 Score = 54.8 bits (130), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 21/149 (14%), Positives = 51/149 (34%), Gaps = 8/149 (5%)

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVF----RFIDLQNDKRSLRSAQ 309
             ++S+    +  K   +N+          ++V  GE+      +  +     RSL   +
Sbjct: 39  YKVISIGSYGLDSKYVDQNIRAVSNEVTDSRVVRNGELTMVLNDKTANGTIIGRSLLIEE 98

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
             +  I     +       DS +   ++       V   +  G +  + +  V  L + +
Sbjct: 99  DNKYVINQRTEIISPKENFDSNFAYTILNGPFRESVKRIVQGGTQIYVNYPAVSNLVLKL 158

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQ 398
           P ++EQ  I         ++D  +   ++
Sbjct: 159 PDVEEQKKIGLF----FKQLDDTIALQQR 183



 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 22/169 (13%), Positives = 58/169 (34%), Gaps = 10/169 (5%)

Query: 23  KHWKVVPIKRFTKLNTGRTSES--GKDIIYIGLEDVESG-TGKYLPKDGNSRQSDTSTVS 79
           + W+   +        G   E    +D  Y  +     G   KY+ ++  +  ++ +   
Sbjct: 10  EDWEERKLSEVANHRGGTAIEKYFKEDGKYKVISIGSYGLDSKYVDQNIRAVSNEVTDSR 69

Query: 80  IFAKGQI--LYGKLGPYLRKAII-----ADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
           +   G++  +                   D   + + +  ++ PK+         +L+  
Sbjct: 70  VVRNGELTMVLNDKTANGTIIGRSLLIEEDNKYVINQRTEIISPKENFDSNFAYTILNGP 129

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
             + ++ I +G T  + ++  + N+ + +P + EQ  I          I
Sbjct: 130 FRESVKRIVQGGTQIYVNYPAVSNLVLKLPDVEEQKKIGLFFKQLDDTI 178


>gi|15828554|ref|NP_325914.1| restriction-modification enzyme subunit S3A [Mycoplasma pulmonis
           UAB CTIP]
 gi|14089496|emb|CAC13256.1| RESTRICTION-MODIFICATION ENZYME SUBUNIT S3A [Mycoplasma pulmonis]
          Length = 359

 Score = 54.8 bits (130), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 38/353 (10%), Positives = 102/353 (28%), Gaps = 45/353 (12%)

Query: 27  VVPIKRFTKLNTGRTSE----------SGKDIIYIGLEDVESGT--GKYLPKDGNSRQSD 74
           +  +    K+ +G+  +              I ++ +++ ++    GK++  + +     
Sbjct: 3   IYKLGEIAKIVSGKGPKIEKGLEKYEDKNGTINWLLVKNFKNNNLDGKFIKYNLDPIIHK 62

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
                   K +I Y         AI  D+D +   Q         L      +   I   
Sbjct: 63  LVK---LNKNEIAYSMYATPGLVAINQDYDNLYINQSFCKILPSKLVLHKYLFYYLISKR 119

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           ++   +  G T ++ +   + N+ + IP L  Q  I   I         +   +I   + 
Sbjct: 120 KQFLQLASGTTQNNLNISKVKNLTISIPSLETQSAILNIIEPLEKLFFNVKNLKIILEKF 179

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
           + +  +                +K S I +                              
Sbjct: 180 VSKTYK-------HSKKRKVNMLKASKISFFNYRNQKLYCPT------------------ 214

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
                S    +     +   +   +  +   + P      F  L  + + L  ++  E  
Sbjct: 215 -----SLVGKLSLSINKVENISFHNRPSRANLSPLNNSILFSKLVGENKILPISKEEEIV 269

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
             T  +     + ++   +++L+    + +          +S+  +++K   +
Sbjct: 270 FSTGFFNIQDKNNLNDNLISFLLSEDFVEQKNKYKQGTTMESINVKNLKMFDI 322



 Score = 54.8 bits (130), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 16/142 (11%), Positives = 36/142 (25%), Gaps = 3/142 (2%)

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
           N L +                          ++  EI +           +   Q  +  
Sbjct: 35  NWLLVKNFKNNNLDGKFIKYNLDPIIHKLVKLNKNEIAYSMYATPGL---VAINQDYDNL 91

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKE 374
            I  ++  + P  +      +        +         + +L    VK L + +P ++ 
Sbjct: 92  YINQSFCKILPSKLVLHKYLFYYLISKRKQFLQLASGTTQNNLNISKVKNLTISIPSLET 151

Query: 375 QFDITNVINVETARIDVLVEKI 396
           Q  I N+I         +    
Sbjct: 152 QSAILNIIEPLEKLFFNVKNLK 173


>gi|227546694|ref|ZP_03976743.1| type I restriction enzyme HindVIIP specificity protein
           [Bifidobacterium longum subsp. infantis ATCC 55813]
 gi|227212840|gb|EEI80719.1| type I restriction enzyme HindVIIP specificity protein
           [Bifidobacterium longum subsp. infantis ATCC 55813]
          Length = 200

 Score = 54.8 bits (130), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 24/135 (17%), Positives = 43/135 (31%), Gaps = 12/135 (8%)

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
           Y     V    +V        + + + SA         +     K +G    ++ +L   
Sbjct: 58  YHNEYKVKGPGVVTGRSGTIGNLQYVESAFWP----HNTTLWVTKFYGNHPKFIYYLYEK 113

Query: 340 YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQ 398
            DL +           +L   DV    V  P   KEQ  I+ V+      +D L+   ++
Sbjct: 114 IDLKRY---KAGSGVPTLNRNDVHDTMVFFPASRKEQELISAVL----TYLDDLITLHQR 166

Query: 399 SIVLLKERRSSFIAA 413
               L   + S +  
Sbjct: 167 KYDKLVIFKKSMLEK 181



 Score = 38.6 bits (88), Expect = 1.9,   Method: Composition-based stats.
 Identities = 23/180 (12%), Positives = 51/180 (28%), Gaps = 17/180 (9%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+   +     L  G    + K I  +    + +G G Y  +                  
Sbjct: 20  WEQRKLIMVAPLQRGFDLPAEKIIPGVYPVMMSNGIGAYHNE------------YKVKGP 67

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            ++ G+ G       +       +T   V +     P+ +      ID+         G+
Sbjct: 68  GVVTGRSGTIGNLQYVESAFWPHNTTLWVTKFYGNHPKFIYYLYEKIDLK----RYKAGS 123

Query: 145 TMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
            +   +   + +  +  P    EQ LI   +      I     +  + +   K   + + 
Sbjct: 124 GVPTLNRNDVHDTMVFFPASRKEQELISAVLTYLDDLITLHQRKYDKLVIFKKSMLEKMF 183


>gi|238855604|ref|ZP_04645905.1| restriction modification system DNA specificity domain protein
           [Lactobacillus jensenii 269-3]
 gi|260665336|ref|ZP_05866184.1| restriction modification system DNA specificity subunit
           [Lactobacillus jensenii SJ-7A-US]
 gi|282933446|ref|ZP_06338823.1| type I restriction modification DNA specificity protein
           [Lactobacillus jensenii 208-1]
 gi|313473090|ref|ZP_07813574.1| ribosomal protein L10 [Lactobacillus jensenii 1153]
 gi|238831748|gb|EEQ24084.1| restriction modification system DNA specificity domain protein
           [Lactobacillus jensenii 269-3]
 gi|239528674|gb|EEQ67675.1| ribosomal protein L10 [Lactobacillus jensenii 1153]
 gi|260560840|gb|EEX26816.1| restriction modification system DNA specificity subunit
           [Lactobacillus jensenii SJ-7A-US]
 gi|281302429|gb|EFA94654.1| type I restriction modification DNA specificity protein
           [Lactobacillus jensenii 208-1]
          Length = 372

 Score = 54.8 bits (130), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 47/390 (12%), Positives = 109/390 (27%), Gaps = 37/390 (9%)

Query: 29  PIKRFTKLNTGRTSES--GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQI 86
            + +  ++N+           + Y     V         +  N  ++ +      A G  
Sbjct: 4   KVSQIAEINSNSIKPKLYSGALNYEDTSSVTDNCFIRPIRYDNITEAPSRARRKAAIGDT 63

Query: 87  LYGKLGPYLRKAIIADFD---GICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
           +   + P        D +    I ST F V+ P   + +    +LL    +   +    G
Sbjct: 64  VISTVRPNNLHYGFIDKNNCDWIYSTGFAVVHPDKKIVDPFYLFLLLSLKSTTQKLQDIG 123

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
            T          +    +      +  ++KI      +        +  + L +    + 
Sbjct: 124 ETSKSTYPAVKPDDIANLQFEIPSLEKQKKISFIFKNLYQKSKLNNQINDNLDDLMTTIF 183

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
           +  +         + +      GL                + +        ++  L    
Sbjct: 184 NNKIINSKFEVSSLTNIANYKNGLA---------------MQKFRPTENSESLPVLKIRE 228

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
           + Q     N      + +   IV+ G+I+F +         L       +  +      V
Sbjct: 229 LNQGSTDNNSDRCSANIDPEVIVNTGDIIFSWSGTL-----LVKIWSGNKSGLNQHLFKV 283

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
                 + ++    + +       A G       +K  D+K   VL+P         +  
Sbjct: 284 TSSEYPNWFIYEWTKFHLHKFQSIAAGKATTMGHIKRNDLKSSKVLIPDK------VSF- 336

Query: 383 NVETARIDVLVEKIEQSIVLLKERRSSFIA 412
             +  +I   +   E+ + L+KE   S + 
Sbjct: 337 -DKFNKIMSPI--YEKRLELIKEN-QSLMT 362



 Score = 39.0 bits (89), Expect = 1.4,   Method: Composition-based stats.
 Identities = 22/184 (11%), Positives = 54/184 (29%), Gaps = 10/184 (5%)

Query: 26  KVVPIKRFTKLNTG------RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           +V  +        G      R +E+ + +  + + ++  G+      + +   ++     
Sbjct: 193 EVSSLTNIANYKNGLAMQKFRPTENSESLPVLKIRELNQGS---TDNNSDRCSANIDPEV 249

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           I   G I++   G  L K    +  G  +     +   +     +  W        +  A
Sbjct: 250 IVNTGDIIFSWSGTLLVKIWSGNKSG-LNQHLFKVTSSEYPNWFIYEWTKFHLHKFQSIA 308

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
             +  TM H     + +  + IP         + +     +   LI E    +   +   
Sbjct: 309 AGKATTMGHIKRNDLKSSKVLIPDKVSFDKFNKIMSPIYEKRLELIKENQSLMTFKENLL 368

Query: 200 QALV 203
               
Sbjct: 369 TKYF 372


>gi|238854451|ref|ZP_04644791.1| type I restriction-modification system S protein [Lactobacillus
           jensenii 269-3]
 gi|282932596|ref|ZP_06338017.1| type-1 restriction enzyme MjaXIP specificity protein [Lactobacillus
           jensenii 208-1]
 gi|313472062|ref|ZP_07812554.1| HsdS specificity protein of type I restriction-modification system
           [Lactobacillus jensenii 1153]
 gi|238832944|gb|EEQ25241.1| type I restriction-modification system S protein [Lactobacillus
           jensenii 269-3]
 gi|239530093|gb|EEQ69094.1| HsdS specificity protein of type I restriction-modification system
           [Lactobacillus jensenii 1153]
 gi|281303292|gb|EFA95473.1| type-1 restriction enzyme MjaXIP specificity protein [Lactobacillus
           jensenii 208-1]
          Length = 184

 Score = 54.8 bits (130), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 32/190 (16%), Positives = 59/190 (31%), Gaps = 27/190 (14%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKD------IIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           WK V +       +G T ++G        I +I   ++ S   +      +      S+ 
Sbjct: 14  WKKVKLGEIATTYSGGTPKAGNKKYYNGLIPFIRSGEIHSNKTELF---ISEAGLKNSSA 70

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELL-QGWLLSIDVTQRI 137
            +  KG +LY   G               S  F  +   D          L   +  +  
Sbjct: 71  KMVTKGDLLYALYGAT-------------SQAFFNMTFDDDEKRDFIYIILEKANFDKEW 117

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
             +    T ++ + K I N  +  P         + +      IDT I  + + I    +
Sbjct: 118 IRLISTGTQNNLNAKKIRNFHIVFPT----YKALKGLNKLFCNIDTDIDIQYKVIVTTNQ 173

Query: 198 KKQALVSYIV 207
            KQ L+  + 
Sbjct: 174 LKQFLLQNLF 183



 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 16/171 (9%), Positives = 51/171 (29%), Gaps = 23/171 (13%)

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
            N K     I  +  G I        +        + ++V  G++++             
Sbjct: 34  GNKKYYNGLIPFIRSGEIHSNKTELFISEAGLKNSSAKMVTKGDLLYALYGAT------- 86

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLM--RSYDLCKVFYAMGSGLRQSLKFEDVKR 364
                     + A+  +     +     +++  ++    +    + +G + +L  + ++ 
Sbjct: 87  ----------SQAFFNMTFDDDEKRDFIYIILEKANFDKEWIRLISTGTQNNLNAKKIRN 136

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
             ++ P           +N     ID  ++   + IV   + +   +    
Sbjct: 137 FHIVFPTY----KALKGLNKLFCNIDTDIDIQYKVIVTTNQLKQFLLQNLF 183


>gi|325474569|gb|EGC77755.1| type I restriction-modification system [Treponema denticola F0402]
          Length = 138

 Score = 54.8 bits (130), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 15/106 (14%), Positives = 34/106 (32%), Gaps = 5/106 (4%)

Query: 288 PGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY 347
            G+I+F  +                  I     +++    + + Y+ +   S        
Sbjct: 37  AGDILFTSVGSLGR----SCIYDGRMNICFQRSVSILNTKVYNKYVKFFFDSNFYQNYVA 92

Query: 348 AMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
              +G  +     +++    + +PPI EQ  I   I      +D +
Sbjct: 93  EHATGTAQMGFYLQEMAESFIAIPPISEQKRIVAKIEEIFYVLDNI 138



 Score = 40.5 bits (93), Expect = 0.55,   Method: Composition-based stats.
 Identities = 28/140 (20%), Positives = 55/140 (39%), Gaps = 5/140 (3%)

Query: 44  SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADF 103
           S ++I +  +ED+E    +YL K+    ++  +  +    G IL+  +G   R  I    
Sbjct: 3   SSRNINHNTVEDLE--NVRYLTKEMFDAENLRTNAT---AGDILFTSVGSLGRSCIYDGR 57

Query: 104 DGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPP 163
             IC  + + +    V  + ++ +  S      +     G        + +    + IPP
Sbjct: 58  MNICFQRSVSILNTKVYNKYVKFFFDSNFYQNYVAEHATGTAQMGFYLQEMAESFIAIPP 117

Query: 164 LAEQVLIREKIIAETVRIDT 183
           ++EQ  I  KI      +D 
Sbjct: 118 ISEQKRIVAKIEEIFYVLDN 137


>gi|169825071|ref|YP_001692682.1| type I restriction-modification system specificity subunit
           [Finegoldia magna ATCC 29328]
 gi|167831876|dbj|BAG08792.1| type I restriction-modification system specificity subunit
           [Finegoldia magna ATCC 29328]
          Length = 180

 Score = 54.8 bits (130), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 17/119 (14%), Positives = 47/119 (39%), Gaps = 6/119 (5%)

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP--HGIDSTYLAWLMRSYDLC 343
               +I++  I   N + +    +     I ++  M ++P    +   +L  L++S  + 
Sbjct: 59  FKKNDILYSEIRPANKRFAYIDFEDTSNYIASTKLMVLRPRVDVVLPGFLFALLKSERML 118

Query: 344 KVFYAMG---SGLRQSLK-FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
           +    +    SG    +    ++  +PV +P    Q  I +++     +++  V+  + 
Sbjct: 119 EELQHLAVTRSGTFPQITFKSELSTMPVALPDFDSQKRIVSILEAIEGKMNQNVQINKN 177



 Score = 47.1 bits (110), Expect = 0.005,   Method: Composition-based stats.
 Identities = 32/177 (18%), Positives = 58/177 (32%), Gaps = 10/177 (5%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            WK V I       +     +  ++I +   DV  G      K  N +         F K
Sbjct: 3   EWKKVTIGDLCDTISDTYRGNADEVILVNTSDVLEGKVLNHEKVPN-KNLKGQFKKTFKK 61

Query: 84  GQILYGKLGPYLRKAIIADF----DGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
             ILY ++ P  ++    DF    + I ST+ +VL+P+  +      + L        E 
Sbjct: 62  NDILYSEIRPANKRFAYIDFEDTSNYIASTKLMVLRPRVDVVLPGFLFALLKSERMLEEL 121

Query: 140 IC-----EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
                   G          +  +P+ +P    Q  I   + A   +++  +      
Sbjct: 122 QHLAVTRSGTFPQITFKSELSTMPVALPDFDSQKRIVSILEAIEGKMNQNVQINKNL 178


>gi|291515458|emb|CBK64668.1| Type I restriction-modification system methyltransferase subunit
           [Alistipes shahii WAL 8301]
          Length = 837

 Score = 54.8 bits (130), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 23/125 (18%), Positives = 50/125 (40%), Gaps = 5/125 (4%)

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH--GIDSTYLAWLMR 338
           +    V  G+ +   ID ++    +  + + E  I+T  ++        I   YL  ++ 
Sbjct: 706 KRQTRVKGGQFIISKIDGKSAAFGIVDSSL-EGAIVTPDFLVYDIDTTQILPEYLELVLT 764

Query: 339 SYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
           +  +   F    SG   R+ L  +  +   + +P I EQ ++   I         L E++
Sbjct: 765 NDAILNQFSISSSGTTGRRRLSQKVFENTLIALPSIDEQRNLLAKILEIRETQKSLEEQM 824

Query: 397 EQSIV 401
           +++I 
Sbjct: 825 QKNIE 829


>gi|269978328|gb|ACZ55898.1| putative type I restriction-modification system specificity subunit
           S [Helicobacter pylori]
          Length = 355

 Score = 54.8 bits (130), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 41/365 (11%), Positives = 96/365 (26%), Gaps = 31/365 (8%)

Query: 50  YIGLEDVESGT-GKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICS 108
           +I   D+          +  +     +   +      IL G +G      +  D     +
Sbjct: 2   FITPNDLHGTYRIIKTSRTLSDSGLKSIQNNTIDNTSILVGCIGDVGMVRMCFDKCA-TN 60

Query: 109 TQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQV 168
            Q   +            +    +  +  + I     +          I + +P +  Q 
Sbjct: 61  QQINSITDIKDFCNPYYLYYYLSNKKELFKNIALSTVVPIIPKTIFQEIEVLLPNIETQQ 120

Query: 169 LIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGI-----E 223
            I   +     +I+          ++L+   +           N      + G      E
Sbjct: 121 KIARTLSILDQKIENNHKINELLHKILELLYEQYFVRFDFLDENNKPYQTNGGKMKFSKE 180

Query: 224 WVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY 283
              L+P+ +EVK    L             SN     +           +  +   +E  
Sbjct: 181 LNRLIPNDFEVKTLGELTQLKVGNKNANHSSNQGKYPFFTCSNN----PLRCETYQFEGK 236

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC 343
            I+  G              +        +         V P+  +   L +L       
Sbjct: 237 HIIISGN------------GNFYVTHYDGKFDAYQRTYVVNPNNPNHYVLIYLFVKSYTN 284

Query: 344 KVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
            +       + + +   D++ + +++P +K           +  ++  ++E   QS   L
Sbjct: 285 YLKLQSHGSIIKFITKSDIENIKIVLPNLKT--------YTKWNKVLKMIENNNQSTQTL 336

Query: 404 KERRS 408
              R 
Sbjct: 337 TALRD 341


>gi|223940845|ref|ZP_03632675.1| conserved hypothetical protein [bacterium Ellin514]
 gi|223890495|gb|EEF57026.1| conserved hypothetical protein [bacterium Ellin514]
          Length = 169

 Score = 54.8 bits (130), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 22/145 (15%), Positives = 49/145 (33%), Gaps = 16/145 (11%)

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID-STYLAWLMRSYDL 342
             +  G+++       N    +            +  +           + AW +   D 
Sbjct: 27  HCLFAGDVLVASRGNWNTASVIVPKTDDIVIAAPNLLVVRIRTATLRPDFFAWWLNQPDT 86

Query: 343 CKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
            ++  A  SG     +   ++  L V VP ++ Q  I         +I  L  + ++ + 
Sbjct: 87  QEMIRARRSGSTIPFISIPELSDLKVPVPNVETQEKIL--------KIHKLWIREQELLE 138

Query: 402 LLKERR----SSFIAAAVTG-QIDL 421
            +K +R     S +A  +T  +I +
Sbjct: 139 EIKNKRRTFVQSILAD-MTAEKIKI 162


>gi|310765246|gb|ADP10196.1| restriction modification system DNA specificity subunit [Erwinia
           sp. Ejp617]
          Length = 363

 Score = 54.8 bits (130), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 25/197 (12%), Positives = 52/197 (26%), Gaps = 8/197 (4%)

Query: 224 WVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY 283
            +G +P+ W   P   +      K           +S  N+++     +      S  T 
Sbjct: 163 ELGEIPEGWNAGPLGDIANFAKGKIEVAKLKTDTYISTENMLENKAGISHASSLPSVNTV 222

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC 343
               PG I+   I     K  L                      +   +L  L+      
Sbjct: 223 PNFSPGHILISNIRPYFKKIWLARFSGGRSA---DVLAFENKKKVTVEFLYNLLSQDVFF 279

Query: 344 KVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
                   G+         +     + P  +E   + ++ +         +E        
Sbjct: 280 DFMMLTSKGVKMPRGDKTSIMNWTCIQP--EE--KVLSIYSTSVVEFYSYIESHNLENKY 335

Query: 403 LKERRSSFIAAAVTGQI 419
           L   R + +   ++G+I
Sbjct: 336 LTNLRDTLLPKLLSGEI 352



 Score = 52.9 bits (125), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 37/189 (19%), Positives = 58/189 (30%), Gaps = 5/189 (2%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRT-SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           +G IP+ W   P+        G+      K   YI  E++                +   
Sbjct: 164 LGEIPEGWNAGPLGDIANFAKGKIEVAKLKTDTYISTENMLENKAGISHASSLPSVNTVP 223

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP-ELLQGWLLSIDVTQ 135
               F+ G IL   + PY +K  +A F G  S   L  + K  +  E L   L       
Sbjct: 224 N---FSPGHILISNIRPYFKKIWLARFSGGRSADVLAFENKKKVTVEFLYNLLSQDVFFD 280

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            +    +G  M   D   I N     P      +    ++     I++   E      L 
Sbjct: 281 FMMLTSKGVKMPRGDKTSIMNWTCIQPEEKVLSIYSTSVVEFYSYIESHNLENKYLTNLR 340

Query: 196 KEKKQALVS 204
                 L+S
Sbjct: 341 DTLLPKLLS 349



 Score = 48.3 bits (113), Expect = 0.002,   Method: Composition-based stats.
 Identities = 13/94 (13%), Positives = 30/94 (31%), Gaps = 6/94 (6%)

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQF 376
             +  K   +   YL +   S    +V             +  +++    + +P I  Q 
Sbjct: 2   GLLRAKKDKVIPEYLLYTYLSPAFQEVIREKTIHGSTTDRISIKEIPSFKIQIPDIHTQI 61

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
               V+      ID  ++  +Q    L++   + 
Sbjct: 62  RTVKVL----KNIDDKIKINQQINQTLEQMAQAL 91


>gi|126665696|ref|ZP_01736677.1| Restriction modification system DNA specificity domain
           [Marinobacter sp. ELB17]
 gi|126629630|gb|EBA00247.1| Restriction modification system DNA specificity domain
           [Marinobacter sp. ELB17]
          Length = 350

 Score = 54.8 bits (130), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 20/118 (16%), Positives = 38/118 (32%), Gaps = 16/118 (13%)

Query: 10  YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKY 63
            +DS    +G IP+ W    I     +  G   +S      G     I + D+++     
Sbjct: 140 MQDSE---LGEIPEGWSYSSIYELADVIYGAAFKSKLFNNVGDGTPLIRIRDLKN----- 191

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP 121
             K G S   +     +     +L G  G + +  I        + +    +P+    
Sbjct: 192 -EKPGVSTPEEHPKGYLVQNADLLAGMDGEF-KPYIWGGGLAWMNQRVCCFKPRKGYS 247



 Score = 45.6 bits (106), Expect = 0.016,   Method: Composition-based stats.
 Identities = 29/205 (14%), Positives = 63/205 (30%), Gaps = 21/205 (10%)

Query: 224 WVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY 283
            +G +P+ W     + L   +          + L  + G+    +  R++  +     T 
Sbjct: 144 ELGEIPEGWSYSSIYELADVIYG----AAFKSKLFNNVGDGTPLIRIRDLKNEKPGVSTP 199

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSA-QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
           +    G +V     L       +          +       KP    S  L        L
Sbjct: 200 EEHPKGYLVQNADLLAGMDGEFKPYIWGGGLAWMNQRVCCFKPRKGYSVSLIKGFIEPQL 259

Query: 343 CKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI--TNVINVETARI-DVLVEKI--- 396
             +     +     L   D+ R             I   + +    ++I   LVE+I   
Sbjct: 260 RSLELTASATTVIHLGKGDINRFEF----------INAGSALFEAYSKITQSLVEQIVIN 309

Query: 397 EQSIVLLKERRSSFIAAAVTGQIDL 421
           + S   L+ +R + +   ++G++ +
Sbjct: 310 KTSARTLEHQRDALLPKLLSGELSV 334



 Score = 42.9 bits (99), Expect = 0.091,   Method: Composition-based stats.
 Identities = 14/65 (21%), Positives = 27/65 (41%), Gaps = 2/65 (3%)

Query: 346 FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL-K 404
            Y     +  SLK  D+ +  + +P + EQ  I   +     +I  +  KI Q++  + +
Sbjct: 1   MYINVGAVFDSLKCADIPKFEIYLPELNEQKRIAETLGGLDGKI-QINHKINQTLEQMAQ 59

Query: 405 ERRSS 409
               S
Sbjct: 60  ALFKS 64


>gi|325696150|gb|EGD38041.1| 50S ribosomal protein L10 [Streptococcus sanguinis SK160]
          Length = 215

 Score = 54.8 bits (130), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 26/204 (12%), Positives = 63/204 (30%), Gaps = 19/204 (9%)

Query: 226 GLVPDHWEVKPFFALVTE-----LNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
           G  P  W+      +        + +      E ++  L    + Q +   +  L   + 
Sbjct: 18  GEKPSDWKTANLTDIAEFLNGLAMQKYRPLDNEESLPVLKIKELRQGIFDSSSDLCSANI 77

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY 340
           +   I+  G+++F +         L        G +      V     D     +   + 
Sbjct: 78  KRPYIIQDGDVIFSWSGSL-----LVDFWTGGIGGLNQHLFKVSSQEYDK--WFYYSWTK 130

Query: 341 DLCKVFYAMGS---GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
                F A+ +        +  + +++  +L+P   +   I     +  A     +    
Sbjct: 131 YYLDEFIAIAADKATTMGHITRKSLEKAEILIPNDHDYKSIG----LLLAPTYNQIISNR 186

Query: 398 QSIVLLKERRSSFIAAAVTGQIDL 421
                L E R+S +   ++G+I +
Sbjct: 187 IENRKLMEVRNSLLPKLLSGEISV 210



 Score = 49.8 bits (117), Expect = 9e-04,   Method: Composition-based stats.
 Identities = 26/192 (13%), Positives = 58/192 (30%), Gaps = 10/192 (5%)

Query: 19  GAIPKHWKVVPIKRFTKLNTG------RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           G  P  WK   +    +   G      R  ++ + +  + ++++  G         +   
Sbjct: 18  GEKPSDWKTANLTDIAEFLNGLAMQKYRPLDNEESLPVLKIKELRQG---IFDSSSDLCS 74

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
           ++     I   G +++   G  L         G  +     +  ++        W     
Sbjct: 75  ANIKRPYIIQDGDVIFSWSGSLL-VDFWTGGIGGLNQHLFKVSSQEYDKWFYYSWTKYYL 133

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
                 A  +  TM H   K +    + IP   +   I   +     +I +   E  + +
Sbjct: 134 DEFIAIAADKATTMGHITRKSLEKAEILIPNDHDYKSIGLLLAPTYNQIISNRIENRKLM 193

Query: 193 ELLKEKKQALVS 204
           E+       L+S
Sbjct: 194 EVRNSLLPKLLS 205


>gi|259419398|ref|ZP_05743314.1| conserved hypothetical protein [Silicibacter sp. TrichCH4B]
 gi|259344639|gb|EEW56526.1| conserved hypothetical protein [Silicibacter sp. TrichCH4B]
          Length = 205

 Score = 54.8 bits (130), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/106 (16%), Positives = 35/106 (33%), Gaps = 2/106 (1%)

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM-AVKPHGIDSTYLAWL 336
           +      +V  GE++F+     N    +         +I    +   +       YLAW 
Sbjct: 60  DDLPERHVVRGGEVIFKSRGEPNVAAPVTKNLEEPIAVILPLVILRPRAGLTLPDYLAWA 119

Query: 337 MRSYDLCKVFYAMGSGLRQS-LKFEDVKRLPVLVPPIKEQFDITNV 381
           +      + F     G     +    ++ L V +P ++ Q  I  +
Sbjct: 120 INQPRSQRYFDTEAQGTSMRMISKAVLEELDVPLPDLETQARIVAI 165


>gi|224540798|ref|ZP_03681337.1| hypothetical protein BACCELL_05712 [Bacteroides cellulosilyticus
           DSM 14838]
 gi|224517585|gb|EEF86690.1| hypothetical protein BACCELL_05712 [Bacteroides cellulosilyticus
           DSM 14838]
          Length = 225

 Score = 54.8 bits (130), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 30/219 (13%), Positives = 70/219 (31%), Gaps = 5/219 (2%)

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
           S+ V      D K  +S    +       E+K   +L+T+          + ++      
Sbjct: 6   SWFVDFEPFKDGKFVNSEFGMIPEGWKISELKSICSLITKGITPQYDESSNQLVIGQKCI 65

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
             +K++              + V  G+++     +    R  +     +   + S    V
Sbjct: 66  RGRKIDLSIARKHIPKQINEKWVQYGDVLINSTGIGTLGRPAQVWFQKKNVTVDSHVTIV 125

Query: 324 KPHGIDSTYL-AWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
           + +  +             +    YA GS  +  L  E +    ++ P  K   D   +I
Sbjct: 126 RTNRQNDKMFIGQYFLGKQILLESYATGSTGQADLSKELLAMTKLVYPTDKVLNDFNKII 185

Query: 383 NVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
                +I  L    +     L   R++ +   ++G++ +
Sbjct: 186 TNMVLKIVEL----QTETEYLSSLRNTLLPQLMSGELKI 220



 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 24/193 (12%), Positives = 51/193 (26%), Gaps = 9/193 (4%)

Query: 19  GAIPKHWKVVPIKRFTK-LNTGRTS--ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           G IP+ WK+  +K     +  G T   +   + + IG + +            +      
Sbjct: 25  GMIPEGWKISELKSICSLITKGITPQYDESSNQLVIGQKCIRGRKIDLSIARKHIP--KQ 82

Query: 76  STVSIFAKGQILYGK--LGPYLRK--AIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
                   G +L     +G   R         +    +   +++      ++  G     
Sbjct: 83  INEKWVQYGDVLINSTGIGTLGRPAQVWFQKKNVTVDSHVTIVRTNRQNDKMFIGQYFLG 142

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
                          +    + +    +  P         + I    ++I  L TE    
Sbjct: 143 KQILLESYATGSTGQADLSKELLAMTKLVYPTDKVLNDFNKIITNMVLKIVELQTETEYL 202

Query: 192 IELLKEKKQALVS 204
             L       L+S
Sbjct: 203 SSLRNTLLPQLMS 215


>gi|238910687|ref|ZP_04654524.1| restriction modification system DNA specificity subunit [Salmonella
           enterica subsp. enterica serovar Tennessee str.
           CDC07-0191]
          Length = 192

 Score = 54.8 bits (130), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 23/175 (13%), Positives = 58/175 (33%), Gaps = 9/175 (5%)

Query: 234 VKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLET---RNMGLKPESYETYQIVDPGE 290
           +      +     +      S    L   NI++ +        G   +S      ++  +
Sbjct: 1   MGNILHDIKYGTSQKCDYNISGYPVLRIPNIVKGIIDLADIKYGALTDSELKDLTLNKND 60

Query: 291 IVFRFIDLQNDKRS---LRSAQVMERGIITSAY-MAVKPHGIDSTYLAWLMRSYDLCKVF 346
           ++F   +   +      L    + +         + +    I++ Y+  +M+S  + +  
Sbjct: 61  LLFIRSNGSTNIVGQSTLVQHDLKDHAYAGYIIRVRLHNEYINARYINMVMKSNLIREQI 120

Query: 347 YA--MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
                 +   +++   ++  L V +PP  EQ  I   IN     +  L   I+ +
Sbjct: 121 EGPIRTTTGVKNINSNELMGLLVPLPPKNEQGIIIKKINEIDTTLSNLKVSIQSA 175



 Score = 37.1 bits (84), Expect = 6.1,   Method: Composition-based stats.
 Identities = 17/186 (9%), Positives = 49/186 (26%), Gaps = 12/186 (6%)

Query: 35  KLNTGRTSE---SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKL 91
            +  G + +   +      + + ++  G          +            K  +L+ + 
Sbjct: 7   DIKYGTSQKCDYNISGYPVLRIPNIVKGIIDLADIKYGALTDSELKDLTLNKNDLLFIRS 66

Query: 92  GPYLRKAIIA-------DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA--ICE 142
                    +                  V    + +       ++  ++ +      I  
Sbjct: 67  NGSTNIVGQSTLVQHDLKDHAYAGYIIRVRLHNEYINARYINMVMKSNLIREQIEGPIRT 126

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
              + + +   +  + +P+PP  EQ +I +KI      +  L        +       AL
Sbjct: 127 TTGVKNINSNELMGLLVPLPPKNEQGIIIKKINEIDTTLSNLKVSIQSAQQTQVHLADAL 186

Query: 203 VSYIVT 208
               + 
Sbjct: 187 TDAAIN 192


>gi|13507940|ref|NP_109889.1| hypothetical protein MPN201 [Mycoplasma pneumoniae M129]
 gi|12229987|sp|Q50287|T1SF_MYCPN RecName: Full=Putative type-1 restriction enzyme specificity
           protein MPN_201; AltName: Full=S.MpnORFFP; AltName:
           Full=Type I restriction enzyme specificity protein
           MPN_201; Short=S protein
 gi|1215687|gb|AAC43680.1| putative orf; GT9_orf238 [Mycoplasma pneumoniae]
 gi|1674334|gb|AAB96278.1| hypothetical protein MPN_201 [Mycoplasma pneumoniae M129]
          Length = 238

 Score = 54.8 bits (130), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 26/176 (14%), Positives = 55/176 (31%), Gaps = 10/176 (5%)

Query: 239 ALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ-------IVDPGEI 291
             +   N         +I  +  G  I K   RN   +   Y            +   + 
Sbjct: 48  RKIYGANIPFETFQVKDICEIRRGRAITKAYIRNNPGENPVYSAATTNDGELGHIKDCDF 107

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAY-MAVKPHGIDSTYLAWLMRSYDLCKVFYAMG 350
              +I    +  +        +   +    +    +    T    L+   +  K  + + 
Sbjct: 108 DGEYITWTTNGYAGVVFYRNGKFNASQDCGVLKVKNKKICTKFLSLLLEIEATKFVHNLA 167

Query: 351 SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
           S  R  L  + +  + +  PP++ Q  I +++       + LVE I   I L K++
Sbjct: 168 S--RPKLSQKVMAEIELSFPPLEIQEKIADILCAFEKLCNDLVEGIPAEIELRKKQ 221


>gi|227523735|ref|ZP_03953784.1| conserved hypothetical protein [Lactobacillus hilgardii ATCC 8290]
 gi|227089050|gb|EEI24362.1| conserved hypothetical protein [Lactobacillus hilgardii ATCC 8290]
          Length = 193

 Score = 54.8 bits (130), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 26/179 (14%), Positives = 60/179 (33%), Gaps = 6/179 (3%)

Query: 217 MKDSGIEWVGLVPDHWEVKPFFALVTELNR----KNTKLIESNILSLSYGNIIQKLETRN 272
           M    I  +  +   WE +               K + + +     + YG +  K  ++ 
Sbjct: 1   MFYILINAINFLEVAWEQRKLGDWGYFYYGHSAPKWSVVGDGGTPCVRYGELYTKSNSKI 60

Query: 273 MGLKPESYETYQIVD--PGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
             +   +  + + +    G  V      ++       A +    +     ++V     + 
Sbjct: 61  DHIYSHTNISVKNLKLSKGTEVLIPRVGEDPLDFAHCAWLSIPNVAIGEMISVFNTKQNP 120

Query: 331 TYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
            + A+   S    +    +  G   +L +  +  +PV  P +KEQ +IT +I    + I
Sbjct: 121 LFTAYSFNSMLKYEFAKRVEGGGVANLYYAYLTNIPVSFPSMKEQTEITQLIENLISLI 179



 Score = 42.9 bits (99), Expect = 0.099,   Method: Composition-based stats.
 Identities = 17/176 (9%), Positives = 53/176 (30%), Gaps = 7/176 (3%)

Query: 25  WKVVPIKRFTKLNTGRTSES-----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           W+   +  +     G ++             +   ++ + +   +    +        + 
Sbjct: 16  WEQRKLGDWGYFYYGHSAPKWSVVGDGGTPCVRYGELYTKSNSKIDHIYSHTNISVKNLK 75

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQF--LVLQPKDVLPELLQGWLLSIDVTQRI 137
           +    ++L  ++G          +  I +     ++         L   +  +  +    
Sbjct: 76  LSKGTEVLIPRVGEDPLDFAHCAWLSIPNVAIGEMISVFNTKQNPLFTAYSFNSMLKYEF 135

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
               EG  +++  +  + NIP+  P + EQ  I + I      I     + ++   
Sbjct: 136 AKRVEGGGVANLYYAYLTNIPVSFPSMKEQTEITQLIENLISLIAANQGKHLQIKN 191


>gi|300869810|ref|YP_003784681.1| putative type I restriction endonuclease S subunit HsdS
           [Brachyspira pilosicoli 95/1000]
 gi|300687509|gb|ADK30180.1| putative type I restriction endonuclease, S subunit, HsdS
           [Brachyspira pilosicoli 95/1000]
          Length = 411

 Score = 54.4 bits (129), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 22/196 (11%), Positives = 61/196 (31%), Gaps = 10/196 (5%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI---------IQKLETRNMGLKP 277
             PD  E  P +++     + N+   +    ++ Y            ++  + + +    
Sbjct: 11  HCPDGVEYVPLWSVTIWDKKFNSVDKDKQKTTIKYKYYLADELKELVVENGDVKILTTNI 70

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH-GIDSTYLAWL 336
            +  T + +    + +  I       +        + I +   +A             + 
Sbjct: 71  SNLFTLEKLVSNSLSYGEIVCIPWGGNPIVQYYKGKFITSDNRIATSIDVNKLDNKFLYY 130

Query: 337 MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
           +    L  +         +      V  + + +PPI+ Q +I  +++  T   D+L  ++
Sbjct: 131 VLINKLDLISSFYRGAGIKHPDMSKVLDIIIPLPPIEVQKEIVRILDTFTKYQDLLNREL 190

Query: 397 EQSIVLLKERRSSFIA 412
           E      +  R   + 
Sbjct: 191 ELRKKQYEYYRDKLLT 206



 Score = 49.0 bits (115), Expect = 0.002,   Method: Composition-based stats.
 Identities = 56/408 (13%), Positives = 113/408 (27%), Gaps = 32/408 (7%)

Query: 22  PKHWKVVPIKRFT----KLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           P   + VP+   T    K N+    +    I Y      E         D     ++ S 
Sbjct: 13  PDGVEYVPLWSVTIWDKKFNSVDKDKQKTTIKYKYYLADELKELVVENGDVKILTTNISN 72

Query: 78  VSIFAK--------GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
           +    K        G+I+    G             I S   +         +    + +
Sbjct: 73  LFTLEKLVSNSLSYGEIVCIPWGGNP-IVQYYKGKFITSDNRIATSIDVNKLDNKFLYYV 131

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
            I+    I +   GA + H D   + +I +P+PP+  Q  I   +   T        + +
Sbjct: 132 LINKLDLISSFYRGAGIKHPDMSKVLDIIIPLPPIEVQKEIVRILDTFTK------YQDL 185

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNT 249
              EL   KKQ           N D + K  G                      +     
Sbjct: 186 LNRELELRKKQYEYYRDKLLTFNDDFEWKCLGELLQPKGYIRGPFGSALKKDFFVKDGVP 245

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
              + + +        +++    +  +         V P +I+            +    
Sbjct: 246 VYEQQHAIY------NKRVFRYFVDCERADKLKRFTVKPYDIIISCSGTIGKISIIMPED 299

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
            +  GII  A + ++                    +      G   +++  ++     + 
Sbjct: 300 RI--GIINQALLILRLDLSKVNVKYIKHYLECFPNLIVTSSGGAITNIEKREIIEKIKIP 357

Query: 370 PPI-KEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
            P+ KEQ  I  +++      + +   +   I L K+     R   + 
Sbjct: 358 IPLLKEQERIVKILDQFDTLCNDITRGLPAEIELRKKQYEYYRDKLLT 405


>gi|268596454|ref|ZP_06130621.1| predicted protein [Neisseria gonorrhoeae FA19]
 gi|268550242|gb|EEZ45261.1| predicted protein [Neisseria gonorrhoeae FA19]
          Length = 198

 Score = 54.4 bits (129), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/126 (13%), Positives = 44/126 (34%), Gaps = 6/126 (4%)

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP--HGIDSTYLAWLMRSYDLC 343
           V   +I      +   +  +      +     +   +       I   Y+ + +++ +  
Sbjct: 59  VPDKDIHREPSIIVKSRGIIEFEYYDKPFSHKNEMWSYHSVNKHIYIKYVYYFLKTQE-- 116

Query: 344 KVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
             F  +GS ++   +   D     + +P ++ Q  I  +++  T     L   +E  + L
Sbjct: 117 NYFRNIGSKMQMPQIATPDTDNYKIPIPSLETQQKIVKILDKFTELEATLEATLEAELAL 176

Query: 403 LK-ERR 407
            K + R
Sbjct: 177 RKRQYR 182


>gi|312875770|ref|ZP_07735764.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus iners LEAF 2053A-b]
 gi|311088705|gb|EFQ47155.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus iners LEAF 2053A-b]
          Length = 181

 Score = 54.4 bits (129), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 20/147 (13%), Positives = 45/147 (30%), Gaps = 3/147 (2%)

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
                     I+    G  I      +     E    + +   G+I+   +        +
Sbjct: 29  SGIPFYRGKEIIEKHNGISISNKLFISSERYEEIKNKFGVPLEGDILLTSVGTLGIPWLV 88

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKR 364
              +   +    +         I   +L + + +        +      +++L  E +K+
Sbjct: 89  DKEKFYFKD--GNLTWLRNNELITPRFLYYWLITSQAQNQINSKCIGSTQKALTIEILKK 146

Query: 365 LPVLVPPIKEQFDITNVINVETARIDV 391
             +  P IK Q  IT++I     +ID 
Sbjct: 147 FYITFPDIKTQKKITSIIESIELKIDN 173



 Score = 41.7 bits (96), Expect = 0.25,   Method: Composition-based stats.
 Identities = 24/180 (13%), Positives = 55/180 (30%), Gaps = 11/180 (6%)

Query: 23  KHWKVVPIKRFTKLNTGRTS----ESGKDIIYIGLEDVESGTGKYLPKD----GNSRQSD 74
           + WK + +     +++ +           I +   +++          +     + R  +
Sbjct: 2   ETWKTMTLSDVCYISSSKRIFAKEYQSSGIPFYRGKEIIEKHNGISISNKLFISSERYEE 61

Query: 75  TSTVSIFA-KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL--PELLQGWLLSI 131
                    +G IL   +G      ++           L     + L  P  L  WL++ 
Sbjct: 62  IKNKFGVPLEGDILLTSVGTLGIPWLVDKEKFYFKDGNLTWLRNNELITPRFLYYWLITS 121

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
               +I + C G+T      + +    +  P +  Q  I   I +  ++ID         
Sbjct: 122 QAQNQINSKCIGSTQKALTIEILKKFYITFPDIKTQKKITSIIESIELKIDNNRKINKNL 181


>gi|317179169|dbj|BAJ56957.1| Type I restriction-modification system specificity subunit
           [Helicobacter pylori F30]
          Length = 397

 Score = 54.4 bits (129), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 55/390 (14%), Positives = 117/390 (30%), Gaps = 18/390 (4%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDV-ESGTGKYLPKDGNSRQSDTSTVSIFAKGQI 86
             ++ +  L    T +S +   YI  +++ ++  G    K+ N  Q    +   F K  +
Sbjct: 3   KTLQDYATLIND-TIQSNEINHYITTDNMCQNLGGIDTFKNINIPQGKVRS---FQKDDV 58

Query: 87  LYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATM 146
           L   +  Y RK   A   G CS+  LV + K +    L   L S   T    +  +G+ M
Sbjct: 59  LLSNIRLYFRKVYRAKQKGGCSSDVLVFRAKHIDSATLFAILSSQIFTDYACSGSQGSKM 118

Query: 147 SHADWKGIGNIPMPIPPLAEQVLIREKIIAE--TVRIDTLITERIRFIELLKEKKQALVS 204
              +   + +  +P        +            +I+ L+ + +  +      +   + 
Sbjct: 119 PRGNKTHMMDFKIPTINFTIAKIFNSIQNKIENNHKINELLHKILELLYEQYFVRFDFLD 178

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
                      KMK S  E   L+P+ +EVK           K         +     +I
Sbjct: 179 ENNKPYQTSGGKMKFS-KELNRLIPNDFEVKTLGDNPLCNTIKTGVTPFKQKVYYETKHI 237

Query: 265 IQKLETR---NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR---SAQVMERGIITS 318
            + L       +                 + F  +        L     + + E  + T 
Sbjct: 238 QETLSLNQGLKVSYNKRPNRANMQPTIHSVWFAKMKDTKKHLFLNQHMQSWIKESILSTG 297

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
                          + +  S    +         ++++  E +  + +L+P      ++
Sbjct: 298 FCGLQCQKHTFEYIASTIKYSPFETRKNNLATGATQKAINIEMLDYIFILIPN----KEL 353

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRS 408
            +  +  T  +   +         L   R 
Sbjct: 354 LDNYSKITRPLYEKISNNIIETQTLTALRD 383


>gi|332204894|gb|EGJ18959.1| type I restriction modification DNA specificity domain protein
           [Streptococcus pneumoniae GA47901]
          Length = 191

 Score = 54.4 bits (129), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 23/172 (13%), Positives = 51/172 (29%), Gaps = 6/172 (3%)

Query: 216 KMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL 275
             K+S ++      + +          ++++ N  L   N  +                 
Sbjct: 5   HTKNSSLKSKSRFNEMFGDVILNEKEWKVSKWNEILTIRNGKNQKQVEDADGKFPIYGSG 64

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
               Y    IV    ++       N    +R              +      I+S YL +
Sbjct: 65  GIMGYAKDWIVKKNSVIIGRKGNINKPILVRENFWNVDTAFG---LEPVLEKINSEYLFY 121

Query: 336 LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
             + Y+  K+  A+      SL   D+  + + +PP+  Q +  + +     
Sbjct: 122 FCQLYNFEKLNKAV---TIPSLTKSDLLNISIPLPPLALQNEFADFVAQVDK 170



 Score = 49.0 bits (115), Expect = 0.001,   Method: Composition-based stats.
 Identities = 27/151 (17%), Positives = 52/151 (34%), Gaps = 15/151 (9%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           K WKV        +  G+  +            VE   GK+ P  G+      +   I  
Sbjct: 29  KEWKVSKWNEILTIRNGKNQKQ-----------VEDADGKF-PIYGSGGIMGYAKDWIVK 76

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           K  ++ G+ G   +  ++ +      T F +    + +      +   +      E + +
Sbjct: 77  KNSVIIGRKGNINKPILVRENFWNVDTAFGLEPVLEKINSEYLFYFCQLY---NFEKLNK 133

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
             T+       + NI +P+PPLA Q    + 
Sbjct: 134 AVTIPSLTKSDLLNISIPLPPLALQNEFADF 164


>gi|34557508|ref|NP_907323.1| type I restriction enzyme S protein [Wolinella succinogenes DSM
           1740]
 gi|34483225|emb|CAE10223.1| PROBABLE TYPE I RESTRICTION ENZYME S PROTEIN [Wolinella
           succinogenes]
          Length = 188

 Score = 54.4 bits (129), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 21/202 (10%), Positives = 51/202 (25%), Gaps = 22/202 (10%)

Query: 213 PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
           P ++ K+   EW               ++        K  +      S       L    
Sbjct: 5   PKLRFKEFSGEWEEKKISQIFEITRGNVLAVPMMSQEKKDDFQYPVYSSQTKNNGLTGYY 64

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
                E   T+               +    ++      ++G                  
Sbjct: 65  NEYLFEDCITWTTDGANAGDANLRRGKFYCTNVCGVLKSDKGYANQCIAE---------- 114

Query: 333 LAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP-IKEQFDITNVINVETARIDV 391
               + +    K    +G+     L    +  + + +P  I EQ  I + ++    +ID 
Sbjct: 115 ----ILNTITKKYVSYVGN---PKLMNNTMGGIKITIPSSIDEQTKIASFLSAVDTKID- 166

Query: 392 LVEKIEQSIVLLKERRSSFIAA 413
               + + + + K  +   +  
Sbjct: 167 ---LVTKQLDVSKNFKKGLLQQ 185


>gi|317009084|gb|ADU79664.1| type I restriction enzyme S protein [Helicobacter pylori India7]
          Length = 419

 Score = 54.4 bits (129), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 25/178 (14%), Positives = 69/178 (38%), Gaps = 13/178 (7%)

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID 297
                E N K    ++++ ++ +  N   K++     L   +     I     I++  + 
Sbjct: 18  NNYTKEDNYKKVCYLDTDNITNNRINAFLKIDLTKEKLPSRAKRKCSI---NSIIYSSVR 74

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKP---HGIDSTYLAWLMRSYDLCKVFYAM---GS 351
                  +   ++ +  ++++A++ +       +D  YL + +    +      +   G+
Sbjct: 75  PNQRHFGIIK-EIPKNFLVSTAFIVIDVIDLKKLDPNYLYYYITQDKITHYLQRIAECGT 133

Query: 352 GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID---VLVEKIEQSIVLLKER 406
               S+   D   + V + P++ Q  I   ++V   +I+    + E + + + LL E+
Sbjct: 134 SSYPSITPLDFLNIKVKLYPLETQQKIARTLSVLDQKIENNHKINELLHKILELLYEQ 191



 Score = 49.8 bits (117), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 49/386 (12%), Positives = 113/386 (29%), Gaps = 24/386 (6%)

Query: 43  ESGKDIIYIGLEDVESGTGK-YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIA 101
           ++ K + Y+  +++ +     +L  D    +  +      +   I+Y  + P  R   I 
Sbjct: 24  DNYKKVCYLDTDNITNNRINAFLKIDLTKEKLPSRAKRKCSINSIIYSSVRPNQRHFGII 83

Query: 102 DF---DGICSTQFLVLQP---KDVLPELLQGWLLSIDVTQRIEAI--CEGATMSHADWKG 153
                + + ST F+V+     K + P  L  ++    +T  ++ I  C  ++        
Sbjct: 84  KEIPKNFLVSTAFIVIDVIDLKKLDPNYLYYYITQDKITHYLQRIAECGTSSYPSITPLD 143

Query: 154 IGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNP 213
             NI + + PL  Q  I   +     +I+          ++L+   +           N 
Sbjct: 144 FLNIKVKLYPLETQQKIARTLSVLDQKIENNHKINELLHKILELLYEQYFVRFDFLDENN 203

Query: 214 DVKMKDSGI-----EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKL 268
                  G      E   L+P+ +EVK           K         +     +I + L
Sbjct: 204 KPYQTSGGKMKFSKELNRLIPNDFEVKTLGDNPLCNTIKTGVTPFKQKVYYETKHIQETL 263

Query: 269 ETR---NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS---AQVMERGIITSAYMA 322
                  +                 + F  +        L     + + E  + T     
Sbjct: 264 SLNQGLKVSYDKRPNRANMQPAIHSVWFAKMKDTKKHLFLNQRMQSWIKESILSTGFCGL 323

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
                      + +  S    +         ++++  E +  + +L+P      ++ +  
Sbjct: 324 QCQKNTFEYIASTIKYSPFETRKNNLATGATQKAINIEMLDYIFILIPN----KELLDNY 379

Query: 383 NVETARIDVLVEKIEQSIVLLKERRS 408
           +  T  +   +         L   R 
Sbjct: 380 SKITKPLYEKISNNIIETQTLTTLRD 405


>gi|240115256|ref|ZP_04729318.1| Type I restriction enzyme EcoprrI specificity protein [Neisseria
           gonorrhoeae PID18]
          Length = 208

 Score = 54.4 bits (129), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/126 (13%), Positives = 44/126 (34%), Gaps = 6/126 (4%)

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP--HGIDSTYLAWLMRSYDLC 343
           V   +I      +   +  +      +     +   +       I   Y+ + +++ +  
Sbjct: 68  VPDKDIHREPSIIVKSRGIIEFEYYDKPFSHKNEMWSYHSVNKHIYIKYVYYFLKTQE-- 125

Query: 344 KVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
             F  +GS ++   +   D     + +P ++ Q  I  +++  T     L   +E  + L
Sbjct: 126 NYFRNIGSKMQMPQIATPDTDNYKIPIPSLETQQKIVKILDKFTELEATLEATLEAELAL 185

Query: 403 LK-ERR 407
            K + R
Sbjct: 186 RKRQYR 191


>gi|240013722|ref|ZP_04720635.1| Type I restriction enzyme EcoprrI specificity protein [Neisseria
           gonorrhoeae DGI18]
 gi|240080304|ref|ZP_04724847.1| Type I restriction enzyme EcoprrI specificity protein [Neisseria
           gonorrhoeae FA19]
 gi|240120792|ref|ZP_04733754.1| Type I restriction enzyme EcoprrI specificity protein [Neisseria
           gonorrhoeae PID24-1]
 gi|240123097|ref|ZP_04736053.1| Type I restriction enzyme EcoprrI specificity protein [Neisseria
           gonorrhoeae PID332]
 gi|240127801|ref|ZP_04740462.1| Type I restriction enzyme EcoprrI specificity protein [Neisseria
           gonorrhoeae SK-93-1035]
          Length = 207

 Score = 54.4 bits (129), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 17/126 (13%), Positives = 44/126 (34%), Gaps = 6/126 (4%)

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP--HGIDSTYLAWLMRSYDLC 343
           V   +I      +   +  +      +     +   +       I   Y+ + +++ +  
Sbjct: 68  VPDKDIHREPSIIVKSRGIIEFEYYDKPFSHKNEMWSYHSVNKHIYIKYVYYFLKTQE-- 125

Query: 344 KVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
             F  +GS ++   +   D     + +P ++ Q  I  +++  T     L   +E  + L
Sbjct: 126 NYFRNIGSKMQMPQIATPDTDNYKIPIPSLETQQKIVKILDKFTELEATLEATLEAELAL 185

Query: 403 LK-ERR 407
            K + R
Sbjct: 186 RKRQYR 191


>gi|189463337|ref|ZP_03012122.1| hypothetical protein BACCOP_04054 [Bacteroides coprocola DSM 17136]
 gi|189429956|gb|EDU98940.1| hypothetical protein BACCOP_04054 [Bacteroides coprocola DSM 17136]
          Length = 152

 Score = 54.4 bits (129), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 14/84 (16%), Positives = 31/84 (36%)

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI 372
            G   S +  ++ +   +      + +     +  +        L  +  K + V +PP 
Sbjct: 69  DGYQGSTFKQLRINENMNEEYVLQVINLHRKILRESKVGSAIPHLNKKIFKAIEVPIPPY 128

Query: 373 KEQFDITNVINVETARIDVLVEKI 396
           KEQ  I   I      +D+++E +
Sbjct: 129 KEQQKIIKAITKAFMSLDLIMESL 152


>gi|153808174|ref|ZP_01960842.1| hypothetical protein BACCAC_02460 [Bacteroides caccae ATCC 43185]
 gi|149129077|gb|EDM20293.1| hypothetical protein BACCAC_02460 [Bacteroides caccae ATCC 43185]
          Length = 147

 Score = 54.4 bits (129), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 16/69 (23%), Positives = 30/69 (43%), Gaps = 2/69 (2%)

Query: 330 STYLAWLMRSYDLCKVF--YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           +    ++++  +L +              L  +  K + V +PP KEQ  I   INV   
Sbjct: 79  NMNTEYVLQVINLHRKILRENKVGSAIPHLNKKLFKEIEVPIPPYKEQMRIVEAINVTFK 138

Query: 388 RIDVLVEKI 396
            +DV++E +
Sbjct: 139 HLDVIMESL 147


>gi|299144868|ref|ZP_07037936.1| restriction modification system DNA specificity domain protein
           [Bacteroides sp. 3_1_23]
 gi|298515359|gb|EFI39240.1| restriction modification system DNA specificity domain protein
           [Bacteroides sp. 3_1_23]
          Length = 202

 Score = 54.4 bits (129), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 22/118 (18%), Positives = 45/118 (38%), Gaps = 6/118 (5%)

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII----TSAYMAVKPHGIDSTYLA 334
           +  +   +  G++         D   + +    +   +      A +      +D  YL 
Sbjct: 60  NEISKFQLKKGQVALTKDSETRDDIGIPTYIADDFDDVILGYHCALITPNKDILDGRYLN 119

Query: 335 WLMRSYDLCKVF--YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
            L+ +    K F   A GSG R +L  E +   PV + P+++Q  I  + +    +I+
Sbjct: 120 ALLHTDYAKKYFACNASGSGQRYALSVEALNSFPVPMIPLRDQKRIGEIFSALDKKIE 177


>gi|237653812|ref|YP_002890126.1| type I restriction-modification system, endonuclease S subunit
           [Thauera sp. MZ1T]
 gi|237625059|gb|ACR01749.1| type I restriction-modification system, endonuclease S subunit
           [Thauera sp. MZ1T]
          Length = 141

 Score = 54.4 bits (129), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 30/99 (30%), Positives = 46/99 (46%), Gaps = 4/99 (4%)

Query: 24  HWKVVPIKRFTKLNTGR--TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
            WKV    +       R           Y+GLE ++S + K   +   S     +T  +F
Sbjct: 9   GWKVWRFDQIATNVNERVDNPSESGMEHYVGLEHLDSDSLKI--RRWGSPDDVEATKLVF 66

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL 120
            KG I++G+   Y RK  +A+FDGICS   +VL+ K  +
Sbjct: 67  RKGDIIFGRRRAYQRKLGVAEFDGICSAHAMVLRAKPDV 105


>gi|317481422|ref|ZP_07940489.1| LOW QUALITY PROTEIN: type I restriction modification DNA
           specificity domain-containing protein [Bacteroides sp.
           4_1_36]
 gi|316902407|gb|EFV24294.1| LOW QUALITY PROTEIN: type I restriction modification DNA
           specificity domain-containing protein [Bacteroides sp.
           4_1_36]
          Length = 188

 Score = 54.4 bits (129), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 27/186 (14%), Positives = 56/186 (30%), Gaps = 11/186 (5%)

Query: 225 VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE---SYE 281
              VP            T             I  +   ++  K    N     E      
Sbjct: 1   FPKVPFKEIYVRAGEGGTPATSNPEYYDNGTIPFIKIDDLQNKYIKTNKDCITELGLQKS 60

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD 341
           +  IV    I++             S  +            V    I+  +L + M S  
Sbjct: 61  SAWIVPANSIIYS----NGATIGAISINLFPVCTKQGILGVVPKADINVEFLYYFMTSTA 116

Query: 342 LCKVFYAMGS-GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE---KIE 397
             K    + + G  ++   +D+  +P  VP   +Q +I  +++  + +++  V    K++
Sbjct: 117 FTKAVERIVTEGTMRTAYLKDINHIPCPVPYPVKQDEIAKMLSTLSEKLENEVIFQMKLQ 176

Query: 398 QSIVLL 403
           +    L
Sbjct: 177 KQKEFL 182



 Score = 49.4 bits (116), Expect = 0.001,   Method: Composition-based stats.
 Identities = 38/186 (20%), Positives = 68/186 (36%), Gaps = 11/186 (5%)

Query: 28  VPIKRF-TKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           VP K    +   G T  +          I +I ++D+++   K             S+  
Sbjct: 4   VPFKEIYVRAGEGGTPATSNPEYYDNGTIPFIKIDDLQNKYIKTNKDCITELGLQKSSAW 63

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP-ELLQGWLLSIDVTQRIE 138
           I     I+Y   G  +    I  F        L + PK  +  E L  ++ S   T+ +E
Sbjct: 64  IVPANSIIYSN-GATIGAISINLFPVCTKQGILGVVPKADINVEFLYYFMTSTAFTKAVE 122

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI-DTLITERIRFIELLKE 197
            I    TM  A  K I +IP P+P   +Q  I + +   + ++ + +I +     +    
Sbjct: 123 RIVTEGTMRTAYLKDINHIPCPVPYPVKQDEIAKMLSTLSEKLENEVIFQMKLQKQKEFL 182

Query: 198 KKQALV 203
             Q  +
Sbjct: 183 LSQMFI 188


>gi|111224792|ref|YP_715586.1| putative Type I restriction-modification system, M subunit [Frankia
           alni ACN14a]
 gi|111152324|emb|CAJ64058.1| Hypothetical protein; putative Type I restriction-modification
           system, M subunit [Frankia alni ACN14a]
          Length = 845

 Score = 54.4 bits (129), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 19/110 (17%), Positives = 38/110 (34%), Gaps = 3/110 (2%)

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD 341
           +   +   +I+F           + +AQ     + T+        G+D  YL  ++ +  
Sbjct: 705 SRFTLRENDILFVRTGTVGPLARVDAAQQGW-LLGTNLMRLRAHDGVDPAYLLAVLSARA 763

Query: 342 LCKVF--YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
                   A  +    S+    +  L +  PP+ EQ  I  V+     +I
Sbjct: 764 AQSWIARRAQSATAIPSISTSTLGSLRLPRPPLSEQQRIGAVLTDLDNQI 813



 Score = 49.8 bits (117), Expect = 0.001,   Method: Composition-based stats.
 Identities = 36/190 (18%), Positives = 64/190 (33%), Gaps = 22/190 (11%)

Query: 12  DSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKD---- 67
           D GV  +G  P  W  VP+K    L +G + ++ +      L D E G G   P+D    
Sbjct: 632 DPGVTTVGDHPPGWSTVPLKELCDLQSGPSHQTAR-----RLRDTERGLGLVAPRDLVDR 686

Query: 68  ---------GNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIA--DFDGICSTQFLVLQP 116
                     +  Q+D  +     +  IL+ + G     A +       +  T  + L+ 
Sbjct: 687 RVRTDTTRRIHPEQTDGMSRFTLRENDILFVRTGTVGPLARVDAAQQGWLLGTNLMRLRA 746

Query: 117 KDVLPELLQ--GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKI 174
            D +               +           +       +G++ +P PPL+EQ  I   +
Sbjct: 747 HDGVDPAYLLAVLSARAAQSWIARRAQSATAIPSISTSTLGSLRLPRPPLSEQQRIGAVL 806

Query: 175 IAETVRIDTL 184
                +I   
Sbjct: 807 TDLDNQIIAH 816


>gi|227544654|ref|ZP_03974703.1| restriction modification system DNA specificity domain protein
           [Lactobacillus reuteri CF48-3A]
 gi|300909429|ref|ZP_07126890.1| conserved hypothetical protein [Lactobacillus reuteri SD2112]
 gi|227185379|gb|EEI65450.1| restriction modification system DNA specificity domain protein
           [Lactobacillus reuteri CF48-3A]
 gi|300893294|gb|EFK86653.1| conserved hypothetical protein [Lactobacillus reuteri SD2112]
          Length = 176

 Score = 54.4 bits (129), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 23/125 (18%), Positives = 45/125 (36%), Gaps = 3/125 (2%)

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
                   +        ++V   + V   +          S++         A ++ K  
Sbjct: 39  NGYRHYPSISEAPSRARRLVSKEDTVISTVRPNMKHVGFISSKSDCIYSTGFAVVSPKKD 98

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMG---SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
            ID  YL   + S  + +V  ++G   +    S+K  D+  L + +PP+ EQ  I N I 
Sbjct: 99  KIDPYYLYLFLSSNRVTEVLQSIGETSTSTYPSVKPSDIGNLVIDMPPLDEQHLIANRIR 158

Query: 384 VETAR 388
           +   +
Sbjct: 159 LIDEK 163


>gi|330723390|gb|AEC45760.1| Type I site-specific DNA methyltransferase specificity subunit
           [Mycoplasma hyorhinis MCLD]
          Length = 460

 Score = 54.0 bits (128), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 17/153 (11%), Positives = 44/153 (28%), Gaps = 8/153 (5%)

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
                + K    +   +      Y      +  F       +   +           +  
Sbjct: 15  YIKQNLGKYPVYSSQTENNGIIGYINTYDFDGEFITWTQDGNAGKIFYRNGRFNASNSGI 74

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-PIKEQFDI 378
                P   +   L +L  +     +      G         ++++  L+P    EQ  I
Sbjct: 75  LTLNFPSKYN---LKFLFLALIFLDLTKLQIGGTVPHFTASMMRKVIFLIPKNKVEQEKI 131

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
           +++       +D ++   E+ I LL++   + +
Sbjct: 132 SSI----FFTLDKIISLYERKISLLEKIEKALL 160



 Score = 47.5 bits (111), Expect = 0.004,   Method: Composition-based stats.
 Identities = 45/331 (13%), Positives = 106/331 (32%), Gaps = 16/331 (4%)

Query: 51  IGLEDVESGTGKYLPKDGNSRQSDTSTV--SIFAKGQILYGKLGPYLRKAIIADFDGICS 108
           +  + ++   GKY      +  +       +    G+ +         K    +     S
Sbjct: 11  LTKQYIKQNLGKYPVYSSQTENNGIIGYINTYDFDGEFITWTQDGNAGKIFYRNGRFNAS 70

Query: 109 TQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQV 168
              +       L    +  L  + +      + +              +   I  + +  
Sbjct: 71  NSGI-----LTLNFPSKYNLKFLFLALIFLDLTKLQIGGTVPHFTASMMRKVIFLIPKNK 125

Query: 169 LIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLV 228
           + +EKI +    +D +I+   R I LL++ ++AL+  +  K       ++  G       
Sbjct: 126 VEQEKISSIFFTLDKIISLYERKISLLEKIEKALLDNMFIKENEEKPSIRFLGFNSDWQS 185

Query: 229 PDHWEVKPFFALVTELNR-KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVD 287
               +    ++ +    +   T      I  L+  N           +  +S E    + 
Sbjct: 186 WTLEDKGYLYSGLNSKTKVDFTNGNSKYITYLNVFNNFNIDLKEKSLVFIKSDEKQNSIV 245

Query: 288 PGEIVFRFIDLQNDKRSLRSA---QVMERGIITSAYMAVKPHGID---STYLAWLMRSYD 341
            G+I+F        +  + SA   +V E+  + S     + +  D     + A+L R++ 
Sbjct: 246 KGDILFTMSSETYQEVGMSSAVTEEVNEKIYLNSFCFGYRLNKADFLFPNFSAFLFRNHS 305

Query: 342 LCK--VFYAMGSGLRQSLKFEDVKRLPVLVP 370
           +    +  + G   R +L  +    L +  P
Sbjct: 306 VRHKIILQSNGGTSRFNLSKKSFLNLKIKSP 336


>gi|185178826|ref|ZP_02964614.1| restriction-modification enzyme subunit s3a [Ureaplasma urealyticum
           serovar 5 str. ATCC 27817]
 gi|188524185|ref|ZP_03004249.1| restriction-modification enzyme subunit s3a [Ureaplasma urealyticum
           serovar 12 str. ATCC 33696]
 gi|184209461|gb|EDU06504.1| restriction-modification enzyme subunit s3a [Ureaplasma urealyticum
           serovar 5 str. ATCC 27817]
 gi|195660154|gb|EDX53534.1| restriction-modification enzyme subunit s3a [Ureaplasma urealyticum
           serovar 12 str. ATCC 33696]
          Length = 344

 Score = 54.0 bits (128), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 47/384 (12%), Positives = 103/384 (26%), Gaps = 53/384 (13%)

Query: 28  VPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           + +K       G T  S +          I      +G   Y+               ++
Sbjct: 3   IKLKDIIYAKRGSTITSNEFKINPGSYPLISASAQNNGVFGYINS------------YMY 50

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ-RIEAI 140
             G I     G         D     S   ++    + +      +         +I+++
Sbjct: 51  EGGHITISMNGNAGCVFYQKDKFSANSDVLVLSNIDNKISNNKFIFYWLKKHENTKIKSL 110

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
           C+G T        + N+ + +PP+ EQ  I   I    +  + +   +    +LL     
Sbjct: 111 CKGTTRLRLSNDDVLNLEINLPPIEEQNAIISIIEPLDILENKINKLKTVLKKLLINIYD 170

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
                                        +       F        K          S  
Sbjct: 171 K----------------------------NCNSHVNLFENNKIYTNKYLNQNLYCDTSCI 202

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
               I   +  N+ L+ +       +    I+F  +  +N           E  + ++ +
Sbjct: 203 GELEINFSKMINISLEDKPSRADLSIKNNSIIFSKLLGENKVYC---FLNNENIVFSTGF 259

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDIT 379
             +K +  ++  L   + S D       + +G     +   D+ ++    P +    +I 
Sbjct: 260 FNIKSNDENNDDLLSFLLSSDFKNQKSMLANGTTMIGINNSDLTKVRCKAPFLN--SNIY 317

Query: 380 NVINVETARIDVLVEKIEQSIVLL 403
                +   I+  +      IV L
Sbjct: 318 FTFFNKLNEIENKITLARNKIVNL 341


>gi|307246330|ref|ZP_07528408.1| Type I restriction enzyme EcoAI specificity protein [Actinobacillus
           pleuropneumoniae serovar 1 str. 4074]
 gi|306852740|gb|EFM84967.1| Type I restriction enzyme EcoAI specificity protein [Actinobacillus
           pleuropneumoniae serovar 1 str. 4074]
          Length = 148

 Score = 54.0 bits (128), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 14/99 (14%), Positives = 31/99 (31%), Gaps = 3/99 (3%)

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
           F  I  Q       +    +      A +       D+ +  + +   +L +      + 
Sbjct: 52  FPIIGRQGALCGNINFAEGKFYSTEHAVVVETFSNTDTLWANYFLIQLNLNQY---ATAT 108

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
            +  L    +  + + +PP+ EQ  I   I      I+ 
Sbjct: 109 AQPGLAVNKINDVLIPLPPLNEQKRIVAKIEELLPYIEQ 147


>gi|323158213|gb|EFZ44305.1| type I restriction enzyme specificity domain protein [Escherichia
           coli E128010]
 gi|323939695|gb|EGB35899.1| type I restriction enzyme [Escherichia coli E482]
          Length = 80

 Score = 54.0 bits (128), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 10/61 (16%), Positives = 26/61 (42%)

Query: 346 FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
             A      + +K   + +L + +P   EQ  I  +++      + + E + + I L ++
Sbjct: 1   MQAATGSTVKGIKGSRLHQLKIPIPSKVEQDRIVAILDKFDTLTNSITEGLPREIELRQK 60

Query: 406 R 406
           +
Sbjct: 61  Q 61


>gi|256028780|ref|ZP_05442614.1| restriction endonuclease S subunits [Fusobacterium sp. D11]
 gi|289766684|ref|ZP_06526062.1| restriction endonuclease S [Fusobacterium sp. D11]
 gi|289718239|gb|EFD82251.1| restriction endonuclease S [Fusobacterium sp. D11]
          Length = 193

 Score = 54.0 bits (128), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 24/186 (12%), Positives = 60/186 (32%), Gaps = 7/186 (3%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG 289
           ++   K    +      ++      N+          K E  ++ +K      Y      
Sbjct: 14  ENGIEKRLDDIADITMGQSPLSQSYNLGKKGLPFYQGKTEFGDIYIKEPII--YCNSPIK 71

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
            +    I +             ++  I     +++   ID  YL +L++     K+    
Sbjct: 72  IVEKNDILMSVRAPVGDVNIATQKSCIGRGLASIRAKKIDYLYLFYLLKEQK-IKIEKMG 130

Query: 350 GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
                +++   ++  L + +  + +Q  I   +      I+ L  +IE+SI   +   +S
Sbjct: 131 VGSTFKAINKNNISSLQIPIIEMSKQNRIKKYL----LLIEKLSFEIEKSIKEAENLYNS 186

Query: 410 FIAAAV 415
            +    
Sbjct: 187 LMNKYF 192



 Score = 45.6 bits (106), Expect = 0.017,   Method: Composition-based stats.
 Identities = 24/179 (13%), Positives = 52/179 (29%), Gaps = 4/179 (2%)

Query: 27  VVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNS-RQSDTSTVSIFAKGQ 85
              +     +  G++  S    +         G  ++             S + I  K  
Sbjct: 18  EKRLDDIADITMGQSPLSQSYNLGKKGLPFYQGKTEFGDIYIKEPIIYCNSPIKIVEKND 77

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           IL     P      IA            ++ K +    L  + L  +   +IE +  G+T
Sbjct: 78  ILMSVRAPV-GDVNIATQKSCIGRGLASIRAKKID--YLYLFYLLKEQKIKIEKMGVGST 134

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
               +   I ++ +PI  +++Q  I++ ++        +         L          
Sbjct: 135 FKAINKNNISSLQIPIIEMSKQNRIKKYLLLIEKLSFEIEKSIKEAENLYNSLMNKYFE 193


>gi|148642218|ref|YP_001272731.1| type I restriction-modification system methylase, subunit S
           [Methanobrevibacter smithii ATCC 35061]
 gi|148551235|gb|ABQ86363.1| type I restriction-modification system methylase, subunit S
           [Methanobrevibacter smithii ATCC 35061]
          Length = 199

 Score = 54.0 bits (128), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 15/128 (11%), Positives = 45/128 (35%), Gaps = 7/128 (5%)

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
           +  I          S       ++ ++   +    ++  ++ +L+++ +L K        
Sbjct: 5   YISIVKDGSGVGNISFHEKNTSVVNTSQYILPKENLNIHFIFYLLQTINLNKY---KTGS 61

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
               + F+D     V +P   EQ  I     +    +D  +E ++  + + +  +   + 
Sbjct: 62  TIPHIYFKDYSIEKVKIPKYDEQKKIG----ILLKNLDAKIEILDNKLQMCQNFKKYLMQ 117

Query: 413 AAVTGQID 420
              T ++ 
Sbjct: 118 QIFTQKLR 125


>gi|239621713|ref|ZP_04664744.1| type I restriction-modification system [Bifidobacterium longum
           subsp. infantis CCUG 52486]
 gi|239515588|gb|EEQ55455.1| type I restriction-modification system [Bifidobacterium longum
           subsp. infantis CCUG 52486]
          Length = 151

 Score = 54.0 bits (128), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 20/149 (13%), Positives = 52/149 (34%), Gaps = 10/149 (6%)

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQI-VDPGEIVFRFIDLQNDKRSLRSAQVM 311
           + ++  + Y +I+    T N  L+ +      I    G++++  +               
Sbjct: 5   DPDLPQVEYEDIVSDEGTLNKDLRDKEGGKTGIKFYAGDVLYGKLRPYLMN----WLYPQ 60

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP- 370
             G+    +  ++    DS++L  L+++    ++             +  + +    VP 
Sbjct: 61  FNGVAVGDFWVLRATECDSSFLYRLVQTDSFQRLANVSSGSKMPRADWNLISQSFFAVPA 120

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQS 399
              EQ  I   +    A +D L+   ++ 
Sbjct: 121 DYAEQRVIAKSL----AELDDLITLHQRK 145



 Score = 45.6 bits (106), Expect = 0.015,   Method: Composition-based stats.
 Identities = 30/139 (21%), Positives = 50/139 (35%), Gaps = 2/139 (1%)

Query: 43  ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD 102
            S  D+  +  ED+ S  G  L KD   ++   + +  F  G +LYGKL PYL   +   
Sbjct: 3   SSDPDLPQVEYEDIVSDEGT-LNKDLRDKEGGKTGIK-FYAGDVLYGKLRPYLMNWLYPQ 60

Query: 103 FDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIP 162
           F+G+    F VL+  +     L   + +    +                    +      
Sbjct: 61  FNGVAVGDFWVLRATECDSSFLYRLVQTDSFQRLANVSSGSKMPRADWNLISQSFFAVPA 120

Query: 163 PLAEQVLIREKIIAETVRI 181
             AEQ +I + +      I
Sbjct: 121 DYAEQRVIAKSLAELDDLI 139


>gi|319939014|ref|ZP_08013378.1| type IC HsdS subunit [Streptococcus anginosus 1_2_62CV]
 gi|319812064|gb|EFW08330.1| type IC HsdS subunit [Streptococcus anginosus 1_2_62CV]
          Length = 153

 Score = 54.0 bits (128), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 17/145 (11%), Positives = 55/145 (37%), Gaps = 12/145 (8%)

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR-SAQVMERGIITSAYM 321
             + + E  +  +  +  + Y ++  GE+ +   + +  K  +    Q     ++   Y 
Sbjct: 13  GWLDQRERFSANIAGKEQKNYTLLRQGELSYNHGNSKLAKYGVVFELQSYSEALVPKVYH 72

Query: 322 AVKPHGIDSTYL-AWLMRSYDLCKVF-YAMGSGLRQ----SLKFEDVKRLPVLVPPI-KE 374
           + +    +S     ++  +    +     + SG R     ++ +++   + +L+P +  E
Sbjct: 73  SFRMINDNSATFIEYMFATKIPDRELGKLISSGARMDGLLNINYDEFMGIRILIPTLASE 132

Query: 375 QFDITNVINVETARIDVLVEKIEQS 399
           Q  I +      + +D  +   ++ 
Sbjct: 133 QTAIGDF----FSTLDRSIALHQRE 153


>gi|198277088|ref|ZP_03209619.1| hypothetical protein BACPLE_03296 [Bacteroides plebeius DSM 17135]
 gi|198269586|gb|EDY93856.1| hypothetical protein BACPLE_03296 [Bacteroides plebeius DSM 17135]
          Length = 140

 Score = 54.0 bits (128), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 19/112 (16%), Positives = 39/112 (34%), Gaps = 2/112 (1%)

Query: 280 YETYQIVDPGEIVFRFIDLQNDKR--SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
             +  IV+ G+ V+   ++       S     V + G + S +  +              
Sbjct: 28  KSSATIVEKGKFVYARDNIILVDGENSGEVFTVPQDGYMGSTFKQLWLSSAMWKPYILAF 87

Query: 338 RSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
             +   ++  +        L  E    LP+ +PP+ EQ  I+  IN  +  +
Sbjct: 88  ILFYKEELRNSKRGAAIPHLNKELFYNLPIGIPPLAEQQRISERINELSQLL 139


>gi|262039559|ref|ZP_06012858.1| putative type I restriction enzyme specificity protein
           [Leptotrichia goodfellowii F0264]
 gi|261746437|gb|EEY33977.1| putative type I restriction enzyme specificity protein
           [Leptotrichia goodfellowii F0264]
          Length = 106

 Score = 54.0 bits (128), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 12/90 (13%), Positives = 44/90 (48%), Gaps = 2/90 (2%)

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCK--VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
           A + +  +     Y+ ++++S +     +   + +   ++L  E++++   L+P +K Q 
Sbjct: 2   ALIRINTNVALPKYIIYVLQSNEFKNSQINKWLEASSMKNLTMENIRKFKFLLPSLKVQE 61

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKER 406
            I ++++     ++ +   + + I L +++
Sbjct: 62  YIVSILDKFDTLVNDIKNGLPKEIELRQKQ 91


>gi|312963115|ref|ZP_07777600.1| hypothetical protein PFWH6_5037 [Pseudomonas fluorescens WH6]
 gi|311282626|gb|EFQ61222.1| hypothetical protein PFWH6_5037 [Pseudomonas fluorescens WH6]
          Length = 203

 Score = 54.0 bits (128), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 23/121 (19%), Positives = 44/121 (36%), Gaps = 5/121 (4%)

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC 343
            ++ PG+I        N+K  L + +           +  K   +   YL WL+      
Sbjct: 76  PLLQPGDITVIARG-DNNKAVLYTGEQSVVATSQFFIVTAKRAEVLPAYLCWLINLPQSQ 134

Query: 344 KVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFD-IT--NVINVETARIDVLVEKIEQSI 400
           +     GS ++  +    +  + + +PP+  Q   I    V + E   I+ L    EQ +
Sbjct: 135 RSLERSGSAIQA-IGKASLMDMQIPLPPLATQQKLIALQTVWDEEDELIERLQTNREQML 193

Query: 401 V 401
            
Sbjct: 194 Q 194



 Score = 43.2 bits (100), Expect = 0.075,   Method: Composition-based stats.
 Identities = 24/186 (12%), Positives = 57/186 (30%), Gaps = 11/186 (5%)

Query: 29  PIKRFTKLNTGRTS------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            +     + +G T       +   D+  + ++D+                       +  
Sbjct: 20  KLSELADVRSGYTFRGALEHDPSGDVRVLQIKDLRQNAAIEPDTLTAVTWDARIAPPLLQ 79

Query: 83  KGQILYGKLGPYLRKAIIADFDGIC-STQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            G I     G   +  +      +  ++QF ++  K           L      +     
Sbjct: 80  PGDITVIARGDNNKAVLYTGEQSVVATSQFFIVTAKRAEVLPAYLCWLINLPQSQRSLER 139

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            G+ +       + ++ +P+PPLA Q    +K+IA     D       R     ++  Q 
Sbjct: 140 SGSAIQAIGKASLMDMQIPLPPLATQ----QKLIALQTVWDEEDELIERLQTNREQMLQG 195

Query: 202 LVSYIV 207
           +  +++
Sbjct: 196 IYQHLI 201


>gi|186701729|ref|ZP_02971420.1| reStriction-modification enzyme mpuuiii s subunit [Ureaplasma
           parvum serovar 6 str. ATCC 27818]
 gi|186700996|gb|EDU19278.1| reStriction-modification enzyme mpuuiii s subunit [Ureaplasma
           parvum serovar 6 str. ATCC 27818]
          Length = 361

 Score = 54.0 bits (128), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 41/372 (11%), Positives = 103/372 (27%), Gaps = 46/372 (12%)

Query: 45  GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFD 104
            K++ +    D+ +        +  SR       +      +L+           +    
Sbjct: 25  KKELPFYSPTDLIN--------NVASRYISIKNNNFINGPAVLFSSAATIGNVYFVDKKC 76

Query: 105 GICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE-AICEGATMSHADWKGIGNIPMPIPP 163
                    +     +      +   +   + I+    +G+  S       GN+ + +P 
Sbjct: 77  WFNQQIKAFITKDPNILSNKYLYYWFLKNREIIKVGANKGSIFSSITTDEFGNMKINLPS 136

Query: 164 LAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIE 223
           + EQ  I   I      I+ +   +I+   L+ +    L S +        +      I 
Sbjct: 137 IEEQNEIISIIEPIEKVINNIKNVKIKIESLVNKYFDFLYSDLKDSNFKKYILGDLFTI- 195

Query: 224 WVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY 283
                                           I S    N I      +   K      Y
Sbjct: 196 ---------------------------NRGQIINSKYIDNNIGPYPVISSNTKNNGIFGY 228

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG----IDSTYLAWLMRS 339
                 +  F  I            Q  +  I    ++ +K        ++ ++ ++++ 
Sbjct: 229 INSYMYDGEFITISADGAYAGTVFLQNGKFSITNVCFILIKNKYIDFKFNNKFVYYILKK 288

Query: 340 YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF---DITNVINVETARIDVLVEKI 396
                   +     R +++   +K + + +P ++ Q     I   +   + + + + + +
Sbjct: 289 EQEINRLKSQVGSSRPAVREYSLKEIKINLPNMEIQEEFSKIVEPLLNLSTKANKIEKIL 348

Query: 397 EQSIVLLKERRS 408
             S  LLK  + 
Sbjct: 349 NDS--LLKITKK 358


>gi|282882639|ref|ZP_06291250.1| type I R-M system S protein [Peptoniphilus lacrimalis 315-B]
 gi|281297515|gb|EFA90000.1| type I R-M system S protein [Peptoniphilus lacrimalis 315-B]
          Length = 175

 Score = 54.0 bits (128), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 19/160 (11%), Positives = 57/160 (35%), Gaps = 6/160 (3%)

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFI 296
                T   +++ + +          N I +++  N           + V    I++  +
Sbjct: 14  LTNQSTYSPKEDWRFVNYLDTGNITMNRIDEIQYINTSTDKLPSRARRKVKLNSIIYSTV 73

Query: 297 DLQNDKRSLRSAQVMERGIITSAYMAVKPHGI--DSTYLAWLMRSYDLCKVFYAMGS--- 351
                   +   +  E  ++++ ++ +          Y+ +++   ++ +   A+     
Sbjct: 74  RPNQLHYGIIK-EQPENFLVSTGFVVIDVDFEKAVPDYIYYVLTQQEITEHLQAIAEQSM 132

Query: 352 GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
               S+K  D++ L +L+P  K Q  I  +++    +I  
Sbjct: 133 STYPSIKPSDIENLELLLPDRKTQEKIVTILSSIDEKIKQ 172


>gi|296125964|ref|YP_003633216.1| hypothetical protein Bmur_0920 [Brachyspira murdochii DSM 12563]
 gi|296017780|gb|ADG71017.1| conserved hypothetical protein [Brachyspira murdochii DSM 12563]
          Length = 460

 Score = 54.0 bits (128), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 35/379 (9%), Positives = 105/379 (27%), Gaps = 23/379 (6%)

Query: 49  IYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICS 108
            Y+  +++E+   +      +    +    S     +I   K+G       + + +   +
Sbjct: 74  YYLRTKELENNDFENDVLYVSESAYNFLEKSKLRGFEIAINKVGSPGNVYQVPNLNIPMT 133

Query: 109 TQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT----------------MSHADWK 152
               +     +         + +        + +  T                +     +
Sbjct: 134 LGMNLFSIVPINNINCHYLYIYLSSYYGQLFLHQRVTGAVPPSIDKESVRKVPVPIFSDE 193

Query: 153 GIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY---IVTK 209
              +I   +     Q      ++ E  +I        +     K+   ++V+Y   ++ K
Sbjct: 194 FQKSIEKLVLEAHNQRQKSNSLMKEANQILEKEIGFDKLEIKKKKVNYSIVNYSETLLAK 253

Query: 210 GLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLE 269
            ++ +   +   I    +            L +  N+  +         +   NI     
Sbjct: 254 RIDAEYYQEKYKIIMDKIQSYKNGCIKIIDLNSINNKLVSIDKNKKYEYIELSNIDSMGF 313

Query: 270 TRNMGLKPESY---ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
             N+ L           ++++  +++   ++   DK SL           T   +  +  
Sbjct: 314 INNLELYYGYELPSRARRLLNNNDVIISSVEGSLDKSSLIYNNKNNLLCSTGFLVFNENE 373

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
            I+   L    R   + ++   +  G    +     +  + +       Q  I   +   
Sbjct: 374 FINPETLFCFFRLTLIKELLKKITKGTILTAFDSNAICDIEIPNLDKNVQNIIAEKVQEA 433

Query: 386 TARIDVLVEKIEQSIVLLK 404
               D     +E++   ++
Sbjct: 434 YKARDKAKALLEEAKKKVE 452


>gi|118475553|ref|YP_892159.1| restriction modification system DNA specificity subunit
           [Campylobacter fetus subsp. fetus 82-40]
 gi|118414779|gb|ABK83199.1| restriction modification system DNA specificity domain
           [Campylobacter fetus subsp. fetus 82-40]
          Length = 195

 Score = 54.0 bits (128), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 24/177 (13%), Positives = 66/177 (37%), Gaps = 6/177 (3%)

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFI 296
                  ++  +    +   L     N I +    +  +  E  +   +V  G+I+ R  
Sbjct: 17  LNRKKASMSEISKFYYDVVSLKSFNENGIYEHIFADKFISNEQIKEDYLVKQGDILLR-- 74

Query: 297 DLQNDKRSLRSAQVMERGIITSAY--MAVKPHGIDSTYLAWLMRSYDLCKVFY-AMGSGL 353
            L+    ++   +  +  I +S    + +  + +D+ +L + + S  + K  +  +    
Sbjct: 75  -LREPNFAIYIDKEYKNLIYSSLVVRIKLYDNRLDANFLTYYLNSNIVKKALHCEVSGTT 133

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
              +K  D+  + + +  + +Q +I   + +     ++L   I+Q     KE   + 
Sbjct: 134 IPMIKVSDINDIRIPIINLDKQKNIAKYLKLAYQGNELLRNLIDQKQKYSKEIFETL 190


>gi|315609159|ref|ZP_07884127.1| type I restriction-modification enzyme [Prevotella buccae ATCC
           33574]
 gi|315249155|gb|EFU29176.1| type I restriction-modification enzyme [Prevotella buccae ATCC
           33574]
          Length = 160

 Score = 54.0 bits (128), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 18/96 (18%), Positives = 30/96 (31%)

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL 353
             I L + + S     V   G + S +  +                +    +  +     
Sbjct: 65  NSIILVDGENSGEVFTVPHDGYMGSTFKQLWVSCSMHLPYVLYFIQFYKDLLRNSKKGAA 124

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
              L  E    L + +PP +EQ  I N I    AR+
Sbjct: 125 IPHLNKEIFYSLIIGIPPFQEQKRIANAIEELYARL 160



 Score = 46.3 bits (108), Expect = 0.008,   Method: Composition-based stats.
 Identities = 29/160 (18%), Positives = 50/160 (31%), Gaps = 13/160 (8%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           P  W+VV +    +L  G   +     I +  + +           G S  +        
Sbjct: 14  PSTWEVVRLSHICRLIDGE--KKEGQYICLDAKYLR----------GKSTGTYLDKGKFV 61

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
           AKG  +    G    +      DG   + F  L     +  L             +    
Sbjct: 62  AKGNSIILVDGENSGEVFTVPHDGYMGSTFKQLWVSCSMH-LPYVLYFIQFYKDLLRNSK 120

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
           +GA + H + +   ++ + IPP  EQ  I   I     R+
Sbjct: 121 KGAAIPHLNKEIFYSLIIGIPPFQEQKRIANAIEELYARL 160


>gi|281424441|ref|ZP_06255354.1| type I restriction-modification enzyme [Prevotella oris F0302]
 gi|281401440|gb|EFB32271.1| type I restriction-modification enzyme [Prevotella oris F0302]
          Length = 147

 Score = 54.0 bits (128), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 13/65 (20%), Positives = 23/65 (35%), Gaps = 2/65 (3%)

Query: 334 AWLMRSYDLCKVF--YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
            +++   +L +              L  +  K + V +PP  EQ  I   I      +D 
Sbjct: 83  KYILNVINLHRKALRENKVGSAIPHLNKKLFKAISVPLPPYNEQIRIVEAIKSTFNLLDT 142

Query: 392 LVEKI 396
           L E +
Sbjct: 143 LKENL 147


>gi|51598168|ref|YP_072359.1| hypothetical protein YPTB3883 [Yersinia pseudotuberculosis IP
           32953]
 gi|186897392|ref|YP_001874504.1| hypothetical protein YPTS_4101 [Yersinia pseudotuberculosis PB1/+]
 gi|51591450|emb|CAH23121.1| hypothetical [Yersinia pseudotuberculosis IP 32953]
 gi|186700418|gb|ACC91047.1| conserved hypothetical protein [Yersinia pseudotuberculosis PB1/+]
          Length = 192

 Score = 54.0 bits (128), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 16/122 (13%), Positives = 47/122 (38%), Gaps = 8/122 (6%)

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL 353
                   +  +      +  I++   +  +   I   YL WL+    + + F+  G+ +
Sbjct: 77  NRNLAVVYRGEVPVVATSQFLIVS---LRRQEREIVPEYLCWLLNHPMIQQWFHRSGTNI 133

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           +  +    +  + + VPP++ Q  +   +     + D L+ K++++   L+      +  
Sbjct: 134 QL-ITKSALLDVAIPVPPLETQLQLIE-LQRVWQKEDELINKLQKNRHQLEL---GILQK 188

Query: 414 AV 415
            +
Sbjct: 189 LL 190


>gi|110639721|ref|YP_679931.1| type I site-specific deoxyribonuclease S subunit [Cytophaga
           hutchinsonii ATCC 33406]
 gi|110282402|gb|ABG60588.1| type I site-specific deoxyribonuclease S subunit [Cytophaga
           hutchinsonii ATCC 33406]
          Length = 303

 Score = 54.0 bits (128), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 44/318 (13%), Positives = 91/318 (28%), Gaps = 31/318 (9%)

Query: 11  KDSGVQWI--GAIPKHWKVVPIKRFTKLNTGR--TSESGKDIIYIGLEDVESGTGKYLPK 66
           K++ V  +      + W+   +    ++  G+  ++   K+  + GL     G G     
Sbjct: 10  KNTNVPNLRFPEFDEEWEEKTLGEICEMQAGKFVSASEIKEQHFDGLFPCYGGNGLRGYT 69

Query: 67  DGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQG 126
              +     S          L G+ G        A+     +   +V+ P + +  +   
Sbjct: 70  KSYNYDGKYS----------LIGRQGALCGNVNFANGKFHATEHAVVVTPLNGINTVWMF 119

Query: 127 WLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPP-LAEQVLIREKIIAETVRIDTLI 185
           +LL+      +     G        + +  +   IP  + EQ  I   +     RI T  
Sbjct: 120 YLLTNL---NLNQFATGMAQPGLSVQNLEKVESTIPKAIDEQEKIASFLTLIDGRISTQN 176

Query: 186 TERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN 245
                   L     Q + S  +    +   +  +  I+ +               + E  
Sbjct: 177 KIIEELKLLKIVVSQKIFSRQLRLKDDKGKEFSNWEIKKLEE-------------ICEKK 223

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
             +    +       Y         + +    E  +   IV  G  V R          L
Sbjct: 224 SSSISANKIENNFGEYLIYGASGILKKVDFYEEENDYVSIVKDGAGVGRLFYCNGRSSVL 283

Query: 306 RSAQVMERGIITSAYMAV 323
            +  +++    TSAY   
Sbjct: 284 GTMDIVKPKDTTSAYFYF 301



 Score = 53.3 bits (126), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 22/143 (15%), Positives = 53/143 (37%), Gaps = 8/143 (5%)

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD 341
            Y      +  +  I  Q       +    +      A +    +GI++ ++ +L+ + +
Sbjct: 67  GYTKSYNYDGKYSLIGRQGALCGNVNFANGKFHATEHAVVVTPLNGINTVWMFYLLTNLN 126

Query: 342 LCKVFYAMGSGLRQSLKFEDVKRLPVLVPP-IKEQFDITNVINVETARIDVLVEKIEQSI 400
           L +    M    +  L  ++++++   +P  I EQ  I + +      ID  +    + I
Sbjct: 127 LNQFATGMA---QPGLSVQNLEKVESTIPKAIDEQEKIASFL----TLIDGRISTQNKII 179

Query: 401 VLLKERRSSFIAAAVTGQIDLRG 423
             LK  +        + Q+ L+ 
Sbjct: 180 EELKLLKIVVSQKIFSRQLRLKD 202


>gi|260579028|ref|ZP_05846929.1| EcoA family type I restriction-modification system, S subunit
           [Corynebacterium jeikeium ATCC 43734]
 gi|258602842|gb|EEW16118.1| EcoA family type I restriction-modification system, S subunit
           [Corynebacterium jeikeium ATCC 43734]
          Length = 201

 Score = 54.0 bits (128), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 16/92 (17%), Positives = 35/92 (38%), Gaps = 7/92 (7%)

Query: 329 DSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
           D  +L +   S    +    + +G     +++    V  L +  P   EQ      I   
Sbjct: 38  DMRWLTYHFSSEPGSRELRDLATGTSGSMKNIPKNKVLNLVIPTPSPLEQQ----AIADA 93

Query: 386 TARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
            A  D L+E +++ I+  +  +   +   ++G
Sbjct: 94  IADADGLIESLKRLILKKQAIKQGMMQQLLSG 125


>gi|154492480|ref|ZP_02032106.1| hypothetical protein PARMER_02114 [Parabacteroides merdae ATCC
           43184]
 gi|254881865|ref|ZP_05254575.1| restriction modification system DNA specificity subunit
           [Bacteroides sp. 4_3_47FAA]
 gi|154087705|gb|EDN86750.1| hypothetical protein PARMER_02114 [Parabacteroides merdae ATCC
           43184]
 gi|254834658|gb|EET14967.1| restriction modification system DNA specificity subunit
           [Bacteroides sp. 4_3_47FAA]
          Length = 171

 Score = 54.0 bits (128), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 25/153 (16%), Positives = 53/153 (34%), Gaps = 4/153 (2%)

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID 297
           F+ + +        I +                   G +   + T      G I+     
Sbjct: 8   FSFMEQWKEYKLGDISNMKYGKLPPKQNNGSYPIWSGYRNVGFATTYNCRKGTIIVVARG 67

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSL 357
           +             E   +T+  +AV+        L +  + Y L  + Y      +  +
Sbjct: 68  VGGTG---DVKISSEDCFLTNLSIAVELDNKICEPLYFYYK-YKLSNLRYLDTGSAQSQI 123

Query: 358 KFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
             +D+KRL + +PP++EQ  IT +++    +I+
Sbjct: 124 TIDDLKRLSLKLPPLEEQKRITEILSSIDYKIE 156



 Score = 41.7 bits (96), Expect = 0.24,   Method: Composition-based stats.
 Identities = 25/175 (14%), Positives = 53/175 (30%), Gaps = 17/175 (9%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + WK   +   + +  G+      +  Y              P     R    +T     
Sbjct: 12  EQWKEYKLGDISNMKYGKLPPKQNNGSY--------------PIWSGYRNVGFATTYNCR 57

Query: 83  KGQILYGKLGPYL-RKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
           KG I+    G        I+  D   +   + ++  + + E L  +         +  + 
Sbjct: 58  KGTIIVVARGVGGTGDVKISSEDCFLTNLSIAVELDNKICEPLYFYYKYKL--SNLRYLD 115

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
            G+  S      +  + + +PPL EQ  I E + +   +I+         +    
Sbjct: 116 TGSAQSQITIDDLKRLSLKLPPLEEQKRITEILSSIDYKIELNRRINDNLMPTYY 170


>gi|317163873|gb|ADV07414.1| hypothetical protein NGTW08_0442 [Neisseria gonorrhoeae
           TCDC-NG08107]
          Length = 212

 Score = 54.0 bits (128), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 15/127 (11%), Positives = 42/127 (33%), Gaps = 5/127 (3%)

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP--HGIDSTYLAWLMRSYDLC 343
           V   +I      +   +  +      +     +   +       I   Y+ + +++ +  
Sbjct: 68  VPDKDIHREPSIIVKSRGIIEFEYYDKPFSHKNEMWSYHSVNKHIYIKYVYYFLKTQE-- 125

Query: 344 KVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
             F  +GS ++   +   D     + +P ++ Q  I  +++  T     L   +E ++  
Sbjct: 126 NYFRNIGSKMQMPQIATPDTDNYKIPIPSLETQQKIVKILDKFTELEATLEATLEATLEA 185

Query: 403 LKERRSS 409
               R  
Sbjct: 186 ELALRKR 192


>gi|237750239|ref|ZP_04580719.1| LOW QUALITY PROTEIN: restriction modification system DNA
           specificity subunit [Helicobacter bilis ATCC 43879]
 gi|229374133|gb|EEO24524.1| LOW QUALITY PROTEIN: restriction modification system DNA
           specificity subunit [Helicobacter bilis ATCC 43879]
          Length = 127

 Score = 54.0 bits (128), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 17/130 (13%), Positives = 41/130 (31%), Gaps = 10/130 (7%)

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV 345
           +  G +V         + SL             + + V P+   S     L   +++ ++
Sbjct: 7   LPKGSVVIAITGATLGQVSLLEIDS----CANQSVVGVIPNDDFSNEFLCLWIKFNIDEI 62

Query: 346 FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE 405
                 G +Q +   D+    ++ P  +      ++ +V        +    + I  L+ 
Sbjct: 63  ILNQTGGAQQHINKNDIANYHIIKPDKE------SLASVNLKTYFEKISHNAKQIENLQA 116

Query: 406 RRSSFIAAAV 415
            R   + A  
Sbjct: 117 MRDILLKAIF 126



 Score = 36.3 bits (82), Expect = 9.1,   Method: Composition-based stats.
 Identities = 17/129 (13%), Positives = 38/129 (29%), Gaps = 3/129 (2%)

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
            S      KG ++    G  L +  + + D   +   + + P D          +  ++ 
Sbjct: 1   KSNTKPLPKGSVVIAITGATLGQVSLLEIDSCANQSVVGVIPNDDFSNEFLCLWIKFNID 60

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           + I     G    H +   I N    I    ++ L    +     +I     +      +
Sbjct: 61  EIILN-QTGGAQQHINKNDIANY--HIIKPDKESLASVNLKTYFEKISHNAKQIENLQAM 117

Query: 195 LKEKKQALV 203
                +A+ 
Sbjct: 118 RDILLKAIF 126


>gi|108562862|ref|YP_627178.1| type I restriction enzyme S protein [Helicobacter pylori HPAG1]
 gi|107836635|gb|ABF84504.1| type I restriction enzyme S protein [Helicobacter pylori HPAG1]
          Length = 419

 Score = 54.0 bits (128), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 24/178 (13%), Positives = 69/178 (38%), Gaps = 13/178 (7%)

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID 297
                E N K    ++++ ++ +  N   K++     L   +     I     I++  + 
Sbjct: 18  NNYTKEDNYKKVYYLDTDNITNNKINAFLKIDLTKEKLPSRAKRKCSI---NSIIYSSVR 74

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKP---HGIDSTYLAWLMRSYDLCKVFYAM---GS 351
                  +   ++ +  ++++A++ +       +D  YL + +    +      +   G+
Sbjct: 75  PNQRHFGIIK-EIPKNFLVSTAFIVIDIIDLKKLDPNYLYYYITQDKITHYLQRIAECGT 133

Query: 352 GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID---VLVEKIEQSIVLLKER 406
               S+   D   + + + P++ Q  I   ++V   +I+    + E + + + LL E+
Sbjct: 134 SSYPSITPLDFLNIKIKLYPLETQQKIARTLSVLDQKIENNHKINELLHKILELLYEQ 191



 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 49/386 (12%), Positives = 113/386 (29%), Gaps = 24/386 (6%)

Query: 43  ESGKDIIYIGLEDVESGTGK-YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIA 101
           ++ K + Y+  +++ +     +L  D    +  +      +   I+Y  + P  R   I 
Sbjct: 24  DNYKKVYYLDTDNITNNKINAFLKIDLTKEKLPSRAKRKCSINSIIYSSVRPNQRHFGII 83

Query: 102 DF---DGICSTQFLVLQP---KDVLPELLQGWLLSIDVTQRIEAI--CEGATMSHADWKG 153
                + + ST F+V+     K + P  L  ++    +T  ++ I  C  ++        
Sbjct: 84  KEIPKNFLVSTAFIVIDIIDLKKLDPNYLYYYITQDKITHYLQRIAECGTSSYPSITPLD 143

Query: 154 IGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNP 213
             NI + + PL  Q  I   +     +I+          ++L+   +           N 
Sbjct: 144 FLNIKIKLYPLETQQKIARTLSVLDQKIENNHKINELLHKILELLYEQYFVRFDFLDENN 203

Query: 214 DVKMKDSGI-----EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKL 268
                  G      E   L+P+ +EVK           K         +     +I + L
Sbjct: 204 KPYQTSGGKMKFSKELNRLIPNDFEVKTLGDNPLCNTIKTGVTPFKQKVYYETKHIQETL 263

Query: 269 ETR---NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS---AQVMERGIITSAYMA 322
                  +                 + F  +        L     + + E  + T     
Sbjct: 264 SLNQGLKVSYNKRPNRANMQPTIYSVWFAKMKDTKKHLFLNQHMQSWIKESILSTGFCGL 323

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
                      + +  S    +         ++++  E +  + +L+P      ++ +  
Sbjct: 324 QCQKHTFEYIASTIKYSPFETRKNNLATGATQKAINIEMLDYIFILIPN----KELLDNY 379

Query: 383 NVETARIDVLVEKIEQSIVLLKERRS 408
           +  T  +   +         L   R 
Sbjct: 380 SKITKPLYEKISNNIIEAQTLTALRD 405


>gi|84489266|ref|YP_447498.1| hypothetical protein Msp_0455 [Methanosphaera stadtmanae DSM 3091]
 gi|84372585|gb|ABC56855.1| conserved hypothetical protein [Methanosphaera stadtmanae DSM 3091]
          Length = 180

 Score = 54.0 bits (128), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 25/158 (15%), Positives = 57/158 (36%), Gaps = 6/158 (3%)

Query: 239 ALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDL 298
             +T     ++K    N          Q +    +  +  + +  +I   GEI+      
Sbjct: 28  NKITMGQSPSSKYYTKNQNDTILVQGNQDIANNYVIPRIYTSKITKIAKKGEILLTVRAP 87

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLK 358
             D    +    + RG+ +     +KP         +L +     +    +     +S+ 
Sbjct: 88  VGDIVITQYDVCIGRGVCS-----IKPSISTGFMFFYLAKLNSKNQWNKYIQGSTFESIN 142

Query: 359 FEDVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEK 395
            +D+K + + +P   KEQ  I N +     +I+++ +K
Sbjct: 143 SKDIKSMKIKIPKSSKEQEKIANFLTCIDQKIELMEKK 180



 Score = 43.2 bits (100), Expect = 0.088,   Method: Composition-based stats.
 Identities = 25/156 (16%), Positives = 51/156 (32%), Gaps = 3/156 (1%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
             + +  K+  G++  S           +  G           R   +    I  KG+IL
Sbjct: 22  KKLSQINKITMGQSPSSKYYTKNQNDTILVQGNQDIANNYVIPRIYTSKITKIAKKGEIL 81

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMS 147
                P      I  +D         ++P  +    +  +L  ++   +     +G+T  
Sbjct: 82  LTVRAPVGDIV-ITQYDVCIGRGVCSIKPS-ISTGFMFFYLAKLNSKNQWNKYIQGSTFE 139

Query: 148 HADWKGIGNIPMPIPP-LAEQVLIREKIIAETVRID 182
             + K I ++ + IP    EQ  I   +     +I+
Sbjct: 140 SINSKDIKSMKIKIPKSSKEQEKIANFLTCIDQKIE 175


>gi|291457407|ref|ZP_06596797.1| type I restriction-modification system specificity determinant
           [Bifidobacterium breve DSM 20213]
 gi|291381242|gb|EFE88760.1| type I restriction-modification system specificity determinant
           [Bifidobacterium breve DSM 20213]
          Length = 248

 Score = 53.6 bits (127), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 18/205 (8%), Positives = 56/205 (27%), Gaps = 21/205 (10%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET 282
           E +     +        +  ++         +    +S  +++Q    R +     +   
Sbjct: 43  ETIASRYCNDRNSRLRDICYQVADHVDYDNANQETYVSTESLMQNKGGRQLASSLPTTGK 102

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW-LMRSYD 341
                 G+ +   I     K      +    G  +   +  + +   +       +R   
Sbjct: 103 ITRYKAGDTLISNIRPYFKKIWYAPFE----GTCSGDVIVFRANDPSNAPYLHACLRQDS 158

Query: 342 LCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVET-ARIDVLVEK---I 396
                     G        + +    V            +  + +    +D  +++    
Sbjct: 159 FFDYVMQGAKGTKMPRGDKKQMMEFKV-----------ASSCSTKDLILLDSAIKQRSDN 207

Query: 397 EQSIVLLKERRSSFIAAAVTGQIDL 421
           +   V L+  R + +   ++G+ID+
Sbjct: 208 DSETVKLQALRDTLLPKLMSGEIDV 232



 Score = 40.2 bits (92), Expect = 0.65,   Method: Composition-based stats.
 Identities = 19/131 (14%), Positives = 34/131 (25%), Gaps = 5/131 (3%)

Query: 29  PIKRFTKLNTGRT-SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
            ++            ++     Y+  E +    G              +       G  L
Sbjct: 56  RLRDICYQVADHVDYDNANQETYVSTESLMQNKGGRQLASSLPTTGKITRYK---AGDTL 112

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL-LSIDVTQRIEAICEGATM 146
              + PY +K   A F+G CS   +V +  D                   +    +G  M
Sbjct: 113 ISNIRPYFKKIWYAPFEGTCSGDVIVFRANDPSNAPYLHACLRQDSFFDYVMQGAKGTKM 172

Query: 147 SHADWKGIGNI 157
              D K +   
Sbjct: 173 PRGDKKQMMEF 183


>gi|260664496|ref|ZP_05865348.1| type-1 restriction enzyme MjaXIP specificity protein [Lactobacillus
           jensenii SJ-7A-US]
 gi|260561561|gb|EEX27533.1| type-1 restriction enzyme MjaXIP specificity protein [Lactobacillus
           jensenii SJ-7A-US]
          Length = 177

 Score = 53.6 bits (127), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 19/171 (11%), Positives = 55/171 (32%), Gaps = 8/171 (4%)

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
           KN      NI  L+  ++  K   +    K  S +  +      +    I L       +
Sbjct: 12  KNKTFYGGNIPFLTISDLNNKKIYK--TQKTLSKKGLENSSAKLVPAGSISLAMYASVGK 69

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLM--RSYDLCKVFYAMGSGLRQSLKFEDVKR 364
              + +    + A+  +     +     +++  ++    +    + +G + +L  + ++ 
Sbjct: 70  IGILSKEMATSQAFFNMTFDDDEKRDFIYIILEKANFDKEWIRLISTGTQNNLNAKKIRN 129

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
             ++ P           +N     ID  ++   + IV   + +   +    
Sbjct: 130 FHIVFPTY----KALKGLNKLFCNIDTDIDIQYKVIVTTNQLKQFLLQNLF 176



 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 26/176 (14%), Positives = 58/176 (32%), Gaps = 10/176 (5%)

Query: 38  TGRTSE------SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKL 91
           +G T         G +I ++ + D+ +       K  + +  + S+  +   G I     
Sbjct: 5   SGGTPSVKNKTFYGGNIPFLTISDLNNKKIYKTQKTLSKKGLENSSAKLVPAGSISLAMY 64

Query: 92  GPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADW 151
               +  I++         F +    D   + +   L   +  +    +    T ++ + 
Sbjct: 65  ASVGKIGILSKEMATSQAFFNMTFDDDEKRDFIYIILEKANFDKEWIRLISTGTQNNLNA 124

Query: 152 KGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
           K I N  +  P         + +      IDT I  + + I    + KQ L+  + 
Sbjct: 125 KKIRNFHIVFPT----YKALKGLNKLFCNIDTDIDIQYKVIVTTNQLKQFLLQNLF 176


>gi|307243972|ref|ZP_07526093.1| conserved domain protein [Peptostreptococcus stomatis DSM 17678]
 gi|306492622|gb|EFM64654.1| conserved domain protein [Peptostreptococcus stomatis DSM 17678]
          Length = 173

 Score = 53.6 bits (127), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 26/140 (18%), Positives = 52/140 (37%), Gaps = 9/140 (6%)

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV-- 323
           +K       +       Y+IV  G+  +  +  +N ++   +    E  II+S+Y+    
Sbjct: 34  KKFIPSIANIVGTDLSNYKIVRTGQFAYGPVTSRNGEKISIAYLDSEDCIISSSYIVFEV 93

Query: 324 -KPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSL-KFEDVKRLPVLVPPIKEQFDITNV 381
                +D  YL       +  +       G  + +  + ++  + + VP I EQ +I   
Sbjct: 94  TNKDELDPEYLMLWFSRPEFDRYARYKSHGSVREIFDWNELCMVKLPVPSIDEQKNIVKA 153

Query: 382 INVETARIDVLVEKIEQSIV 401
               T RI      ++Q I 
Sbjct: 154 YKTITDRI-----ALKQQIN 168



 Score = 41.7 bits (96), Expect = 0.26,   Method: Composition-based stats.
 Identities = 31/161 (19%), Positives = 61/161 (37%), Gaps = 16/161 (9%)

Query: 30  IKRFTKLNTGRTSESGKDIIYIGLEDVESGTG--KYLPKDGNSRQSDTSTVSIFAKGQIL 87
           +  + ++   R  +       + + ++   +   K++P   N   +D S   I   GQ  
Sbjct: 8   LGDYIEIVDNRNRD-------LSITNLLGVSIAKKFIPSIANIVGTDLSNYKIVRTGQFA 60

Query: 88  Y----GKLGPYLRKAIIADFDGICSTQFLVL---QPKDVLPELLQGWLLSIDVTQRIEAI 140
           Y     + G  +  A +   D I S+ ++V       ++ PE L  W    +  +     
Sbjct: 61  YGPVTSRNGEKISIAYLDSEDCIISSSYIVFEVTNKDELDPEYLMLWFSRPEFDRYARYK 120

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
             G+     DW  +  + +P+P + EQ  I +     T RI
Sbjct: 121 SHGSVREIFDWNELCMVKLPVPSIDEQKNIVKAYKTITDRI 161


>gi|239948141|ref|ZP_04699894.1| type I restriction-modification enzyme, S subunit [Rickettsia
           endosymbiont of Ixodes scapularis]
 gi|239922417|gb|EER22441.1| type I restriction-modification enzyme, S subunit [Rickettsia
           endosymbiont of Ixodes scapularis]
          Length = 159

 Score = 53.6 bits (127), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 21/141 (14%), Positives = 45/141 (31%), Gaps = 4/141 (2%)

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
                     +       ++ G+I+F   +           +        S  + +  + 
Sbjct: 11  FTDIKYVKIDKETFRQFKLNKGDILFNRTNSFELVGKTSIFEAESEYCFASYLIKIVVNQ 70

Query: 328 --IDSTYLAWLMRSYDLCK--VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
             I S +L   M +    K    YA  S  + ++  + +    + +P +  Q +I   + 
Sbjct: 71  EKILSNFLNLYMNTDLFQKNLKNYAKQSNNQANINAQILLAQKIPLPSLLIQEEIIAELE 130

Query: 384 VETARIDVLVEKIEQSIVLLK 404
            E   I+   E I+     LK
Sbjct: 131 HERNIIEANKETIKLFENKLK 151


>gi|156978012|ref|YP_001448918.1| type I restriction enzyme S subunit [Vibrio harveyi ATCC BAA-1116]
 gi|156529606|gb|ABU74691.1| hypothetical protein VIBHAR_06809 [Vibrio harveyi ATCC BAA-1116]
          Length = 90

 Score = 53.6 bits (127), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 10/50 (20%), Positives = 21/50 (42%), Gaps = 4/50 (8%)

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           + EQ  I +V           +E +E  +   K+ + + +   +TG+  L
Sbjct: 37  LNEQQKIASVRTAADKE----IELLETKLAHFKQEKKALMQQLLTGKRRL 82


>gi|329123771|ref|ZP_08252329.1| type I restriction-modification system restriction endonuclease
           [Haemophilus aegyptius ATCC 11116]
 gi|327469258|gb|EGF14729.1| type I restriction-modification system restriction endonuclease
           [Haemophilus aegyptius ATCC 11116]
          Length = 219

 Score = 53.6 bits (127), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 22/177 (12%), Positives = 55/177 (31%), Gaps = 6/177 (3%)

Query: 234 VKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVF 293
               F  V +  +         + S     I+     + +        T + +    I  
Sbjct: 28  WDKRFNAVEKEKQPKVIKYHYYLASELKPLIVDGGNVKLLTTNESDIWTTEELVQNNISE 87

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI--DSTYLAWLMRSYDLCKVFYAMGS 351
             I       +        + +     +A   +    D+ +L + + S       +  GS
Sbjct: 88  GEIIAIPWGGNPIVQYYKGKFVTADNRIATSNNTKILDNKFLYYFLLSKLDVISSFYRGS 147

Query: 352 GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI---EQSIVLLKE 405
           G+ +      V  + + +PP+  Q +I  +++  T     L  ++   ++     +E
Sbjct: 148 GI-KHPSMYHVLEMLIPIPPLSVQTEIVKILDTLTELTSELTSELILRQKQYEYYRE 203


>gi|319778990|ref|YP_004129903.1| hypothetical protein TEQUI_0822 [Taylorella equigenitalis MCE9]
 gi|317109014|gb|ADU91760.1| hypothetical protein TEQUI_0822 [Taylorella equigenitalis MCE9]
          Length = 178

 Score = 53.6 bits (127), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 23/154 (14%), Positives = 53/154 (34%), Gaps = 4/154 (2%)

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
           N + +          N I++++  N+          + V    IV+  +        +  
Sbjct: 25  NWEFVNYLDTGNITANKIEQIKHINLKSDKLPSRARRKVRFNSIVYSTVRPNQLHYGIIK 84

Query: 308 AQVMERGIITSAYMAV-KPHGIDSTYLAWLMRSYDLCKVFYAMG---SGLRQSLKFEDVK 363
            Q     + T   +     +     Y+ +L+   +       +    +    S K  D++
Sbjct: 85  EQPDNFLVSTGFVVIDVIKNRAIPDYIYYLLTQKEFINFLQTIAEHSTSTYPSFKASDIE 144

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
            LPVL+P +  Q  + NV+     +I + +   +
Sbjct: 145 NLPVLIPDMTTQEKVVNVLLTIDKKIQINIAINQ 178


>gi|13508354|ref|NP_110304.1| hypothetical protein MPN615 [Mycoplasma pneumoniae M129]
 gi|12229975|sp|P75180|T1SH_MYCPN RecName: Full=Putative type-1 restriction enzyme specificity
           protein MPN_615; AltName: Full=S.MpnORFHP; AltName:
           Full=Type I restriction enzyme specificity protein
           MPN_615; Short=S protein
 gi|1673894|gb|AAB95875.1| hypothetical protein MPN_615 [Mycoplasma pneumoniae M129]
          Length = 249

 Score = 53.6 bits (127), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 24/176 (13%), Positives = 54/176 (30%), Gaps = 10/176 (5%)

Query: 239 ALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ-------IVDPGEI 291
             +   N         +I  +  G  I K   RN   +   Y            +   + 
Sbjct: 56  RKIYGANIPFETFQVKDICEIRRGRAITKAYIRNNPGENPVYSAATTNDGELGRIKDCDF 115

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAY-MAVKPHGIDSTYLAWLMRSYDLCKVFYAMG 350
              +I    +  +        +   +    +    +    T     +   +  K  + + 
Sbjct: 116 DGEYITWTTNGYAGVVFYRNGKFNASQDCGVLKVKNKKICTKFLSFLLKIEAPKFVHNLA 175

Query: 351 SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
           S  R  L  + +  + +  PP++ Q  I +++       + LVE I   I + K++
Sbjct: 176 S--RPKLSQKVMAEIELSFPPLEIQEKIADILFAFEKLCNDLVEGIPAEIEMRKKQ 229



 Score = 37.1 bits (84), Expect = 6.3,   Method: Composition-based stats.
 Identities = 7/55 (12%), Positives = 19/55 (34%), Gaps = 4/55 (7%)

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
              +  + +  PP++ Q  I  +++  T     L  ++ +        R   +  
Sbjct: 2   QGILAEIELDFPPLQIQEKIATILDTFTE----LSAELRERKKQYAFYRDYLLNQ 52


>gi|158315561|ref|YP_001508069.1| restriction modification system DNA specificity subunit [Frankia
           sp. EAN1pec]
 gi|158110966|gb|ABW13163.1| restriction modification system DNA specificity domain [Frankia sp.
           EAN1pec]
          Length = 374

 Score = 53.6 bits (127), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 14/95 (14%), Positives = 30/95 (31%), Gaps = 3/95 (3%)

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR 354
            +          +    +   + +        G D  +L +L+R+ D  +         +
Sbjct: 54  TLGRSGSSIGTVTYVPSDYWPLNTVLFVEDFQGNDPRFLYFLLRTIDFARF---NSGSAQ 110

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
            SL    +  + +  P   EQ  I  V+     +I
Sbjct: 111 PSLNRNYIAAVELRAPEYPEQRAIAAVLGALDDKI 145



 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 55/407 (13%), Positives = 110/407 (27%), Gaps = 42/407 (10%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           P+ W+   +    +L  G    + +              G +                I 
Sbjct: 2   PE-WRRSSLADLVRLRRGFDLPAPE-----------RRAGCFPVVGSAGVSGWHDRGPIA 49

Query: 82  AKGQILYGKLGPYLRKA-IIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
             G I  G+ G  +     +       +T   V   +   P  L   L +ID        
Sbjct: 50  GPG-ITLGRSGSSIGTVTYVPSDYWPLNTVLFVEDFQGNDPRFLYFLLRTIDF----ARF 104

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
             G+     +   I  + +  P   EQ  I   + A   +I           EL + +  
Sbjct: 105 NSGSAQPSLNRNYIAAVELRAPEYPEQRAIAAVLGALDDKIALNHRLASTARELAEARYA 164

Query: 201 ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
           A      T+G           +E +                    R         +L+  
Sbjct: 165 A-----ATRGPGRRELRLGDLVETL--------------TRGITPRYTADDSALVVLNQK 205

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA- 319
                +       G  P +    + +   +++     +    R  R        + +   
Sbjct: 206 CVRAGRVDLAPARGTDPATVPAAKRLRADDVLVNSTGIGTLGRVARWVHATRATVDSHVT 265

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
            + + P  +D    A+ + +          GS  +  L    +  L + VP  +   +I 
Sbjct: 266 VVRLAPDRLDPVCGAFALLAAQPRIASLGEGSTSQTELSRAALNDLVIAVPAAERCAEIG 325

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
             +    A +D   E        L   R +     ++G+I +R   +
Sbjct: 326 AEL----AALDARGEAAHAESAALARLRDALSPKLMSGEIRVRDAER 368


>gi|238755000|ref|ZP_04616348.1| Restriction modification system DNA specificity domain [Yersinia
           ruckeri ATCC 29473]
 gi|238706704|gb|EEP99073.1| Restriction modification system DNA specificity domain [Yersinia
           ruckeri ATCC 29473]
          Length = 307

 Score = 53.6 bits (127), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 23/139 (16%), Positives = 42/139 (30%), Gaps = 13/139 (9%)

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP-HGIDSTYLAWLM 337
              T   +  G+++          R       +    I  A   V+   G+DS YL +  
Sbjct: 38  HEHTRYGLKKGDLIICEGG--EPGRCAIWEDEIPNMKIQKALHRVRTLSGLDSEYLYYWF 95

Query: 338 RSYDLCKVFY-AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
                             + L  + +K +P+ +PP+  Q             ID  +   
Sbjct: 96  LFSTRAGHIEPFFTGTTIKHLTGKALKEIPIRIPPLTYQQ----YGAKLLRGIDNKITL- 150

Query: 397 EQSIVLLKERRSSFIAAAV 415
            + I    E     +A A+
Sbjct: 151 NRQINKTLE----LMAQAL 165



 Score = 52.9 bits (125), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 28/170 (16%), Positives = 53/170 (31%), Gaps = 3/170 (1%)

Query: 40  RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAI 99
           +   +G+   Y+G  +V  G  +         ++   T     KG ++  + G   R AI
Sbjct: 4   KNKNTGEYHPYLGNSNVRWGEFELDDLAEMKFEAHEHTRYGLKKGDLIICEGGEPGRCAI 63

Query: 100 IADF--DGICSTQFLVLQPKDVLPELLQGWLLSIDVT-QRIEAICEGATMSHADWKGIGN 156
             D   +         ++    L      +          IE    G T+ H   K +  
Sbjct: 64  WEDEIPNMKIQKALHRVRTLSGLDSEYLYYWFLFSTRAGHIEPFFTGTTIKHLTGKALKE 123

Query: 157 IPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYI 206
           IP+ IPPL  Q    + +     +I            + +   ++     
Sbjct: 124 IPIRIPPLTYQQYGAKLLRGIDNKITLNRQINKTLELMAQALFKSWFVDF 173



 Score = 36.3 bits (82), Expect = 9.1,   Method: Composition-based stats.
 Identities = 12/69 (17%), Positives = 28/69 (40%), Gaps = 3/69 (4%)

Query: 19  GAIPKHWKVVPIKRF-TKLNTGRTSESGKD--IIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           G +PK WKV  +    ++L  G + +   +  +  I  + + +    Y P   + +++  
Sbjct: 239 GWVPKGWKVKILGEITSELRRGISPKYIDEGGVQVINQKCIRNHEVSYEPARRHDQEAKR 298

Query: 76  STVSIFAKG 84
           +       G
Sbjct: 299 TDGRALKLG 307


>gi|224371955|ref|YP_002606121.1| HsdS3 [Desulfobacterium autotrophicum HRM2]
 gi|223694674|gb|ACN17957.1| HsdS3 [Desulfobacterium autotrophicum HRM2]
          Length = 528

 Score = 53.6 bits (127), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 45/377 (11%), Positives = 107/377 (28%), Gaps = 37/377 (9%)

Query: 29  PIKRFTKLN--TGRTSES--------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS-T 77
           P+ R   +   +G              +++  +  ++V+            SR +  +  
Sbjct: 49  PLGRIADVTKLSGFEFTKYFTENDNFSREVPCVMSQNVQENNLDLTNTIFISRNTHFALK 108

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICS--TQFLVLQPKDVLPELLQGWLLSIDVTQ 135
            S  + G+I+    G Y R A++    G+         +      P  +  +L S     
Sbjct: 109 RSSLSHGEIVLSYTGQYRRAAVVPANKGLLHLGPNVCKITIHKDDPFFITSFLNSYYGQS 168

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK------IIAETVRIDTLITERI 189
            ++     +     +   I  +P+       Q  I  K      + A   +        +
Sbjct: 169 ILDREKTISAQPTVNMARIRTVPVITIEDFSQKYIGNKVRQAETLRAWERKCKNKAENLV 228

Query: 190 RFIELLKEKKQ--ALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFAL------- 240
                     Q  +  + I ++ L   + +K +  + + L+    +              
Sbjct: 229 TGELKWDNNIQNTSTFNRISSEELQIRLDLKFNSPQRIALLRHFRKHDVIREELSKLVSI 288

Query: 241 --VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY-----QIVDPGEIVF 293
             +       T+  +     L  G            L   +   Y       V  G+I F
Sbjct: 289 SAMIGWKGLTTEYYQKTGPWLLRGIEFNDGVIETDKLVCIAEHKYLEQPQIHVREGDIAF 348

Query: 294 RFIDLQNDKRSLRS-AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
                      + +    M  G   +    +    I+  YL +++    +     +  +G
Sbjct: 349 SKDGTIGKAVVIPALTNRMAVGSTVARLRILDNVEINPYYLQFILNHKSVQIQVKSFATG 408

Query: 353 -LRQSLKFEDVKRLPVL 368
             +  +  E + +L + 
Sbjct: 409 VAQPHITQEWIAQLIIP 425


>gi|125973663|ref|YP_001037573.1| hypothetical protein Cthe_1148 [Clostridium thermocellum ATCC
           27405]
 gi|125713888|gb|ABN52380.1| hypothetical protein Cthe_1148 [Clostridium thermocellum ATCC
           27405]
          Length = 427

 Score = 53.6 bits (127), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 48/395 (12%), Positives = 120/395 (30%), Gaps = 35/395 (8%)

Query: 27  VVPIKRFT-KLNTGRTSES-----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           ++ +     ++ +G   +            I   D+ +    Y+ +    +        I
Sbjct: 36  LITLIDICKEITSGIRVKKEYYTDKNGYKIIAPGDIRNEVI-YINELKVVQPEVVREKDI 94

Query: 81  FAKGQILYGKLGPYLRKAIIAD--FDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
              G IL    G   +   + +     + ++  + +  +D    +     L   + Q + 
Sbjct: 95  INNGDILITASGKSGQVIYVNEVLEGCVVTSDIIKITLRDRDKGIRLYKFLKSSIGQMLL 154

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLI---------REKIIAETVRIDTLITERI 189
              +   ++    + + N+ +P      Q             EK+      I   + +  
Sbjct: 155 NSIKIGILNKIFVEDVENLLIPEDFDTYQEDCSDDSTVYAEAEKLYRSAENIFYRVFDYK 214

Query: 190 RFIELLKEKKQALVSYIVTKGLNPDVK--MKDSGIEWVGLVPDHWEVKPFFALVTELNRK 247
              + LK     +  Y+ +  L+P+            +    D  + +    LV      
Sbjct: 215 GEKKNLKHFY--VTEYLDSHRLDPEYYSNFYTELYRVIHKNFDDVKWEELGELVEIKKAD 272

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYET-----YQIVDPGEIVFRFIDLQNDK 302
             ++ ++  +       I    +       + Y         IV  GEIV          
Sbjct: 273 KPEISKNQKVKYFLLADIDPNFSIIKETHEDFYGNLSNRMRYIVRRGEIVTAKGGSATGT 332

Query: 303 RSLRSAQVMERG---IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS-LK 358
           +   +A + E+    + T A   + P  I+  YL +L +   +         G     ++
Sbjct: 333 KGHATALITEKFDGLVTTDALYNLVPRRINPYYLLFLFKQPIILNQVNMFTKGTLYKLIQ 392

Query: 359 FEDVKRLPVLV--PPIKEQFDITNVINVETARIDV 391
             D +++ +      ++EQ  I + +    + +  
Sbjct: 393 RNDFEKIKIPRLESSLEEQ--IVDKMMNYLSVLQN 425


>gi|313904107|ref|ZP_07837487.1| restriction modification system DNA specificity domain [Eubacterium
           cellulosolvens 6]
 gi|313471256|gb|EFR66578.1| restriction modification system DNA specificity domain [Eubacterium
           cellulosolvens 6]
          Length = 309

 Score = 53.6 bits (127), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 27/157 (17%), Positives = 54/157 (34%), Gaps = 8/157 (5%)

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKP--ESYETYQIVDPGEIVFRFIDLQNDKR 303
                L E     + YG +  + ET    +    E+ +       GE++        +  
Sbjct: 10  YSKGDLREKGTPIILYGRLYTRYETVISDVDTYVEAKDGSVYSKGGEVIVPGSGETAEDI 69

Query: 304 SLRSAQVMERGIITSAY-MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFED 361
           S+ S       ++     +   P  ID  +LA  + + +  +    M  G     L   D
Sbjct: 70  SIASVVEKSGILLGGDLNIINPPANIDPAFLAISISNGNPHRDMAKMAQGKSVVHLHNAD 129

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
           + ++ +  P  +EQ  I++      A  D L+    +
Sbjct: 130 LAKIDLPYPCYEEQRKISSY----FASFDNLITLHHR 162


>gi|152979300|ref|YP_001344929.1| restriction modification system DNA specificity subunit
           [Actinobacillus succinogenes 130Z]
 gi|150841023|gb|ABR74994.1| restriction modification system DNA specificity domain
           [Actinobacillus succinogenes 130Z]
          Length = 188

 Score = 53.6 bits (127), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 23/140 (16%), Positives = 50/140 (35%), Gaps = 11/140 (7%)

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY--MAVKPHGIDSTYLAW 335
           E    ++ +  G+I+            +       + + +  +  + V    I   YL W
Sbjct: 52  EQVREHEWLREGDILIPSRGNNYQAVYIDGRITDRKAVASPHFFVIRVASPQILPKYLYW 111

Query: 336 LMRSYDLCKVFY-AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
            +      K     +   + +S++   ++ LP+ +PP+  Q  I ++   ETA  + L+ 
Sbjct: 112 WLNLQASQKYLNQNIEGSITKSIRRPILQALPIKLPPLSNQAMIISI--AETAEQERLIA 169

Query: 395 KIEQSIVLLKERRSSFIAAA 414
                   L E     + A 
Sbjct: 170 L------RLIENSKRLMNAL 183



 Score = 42.5 bits (98), Expect = 0.14,   Method: Composition-based stats.
 Identities = 28/157 (17%), Positives = 57/157 (36%), Gaps = 12/157 (7%)

Query: 29  PIKRFTKLNTG-----RTS-ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            +K+   + TG     +   +   +++ + ++D  +  G        +R           
Sbjct: 2   KLKQVADIQTGYLFRTKVPEDPNGNVVVVQMKDCSAINGIDWEHCVKTRLEQVREHEWLR 61

Query: 83  KGQILYGKLGPYLRKAIIA----DFDGICSTQFLVLQ--PKDVLPELLQGWLLSIDVTQR 136
           +G IL    G   +   I     D   + S  F V++     +LP+ L  WL      + 
Sbjct: 62  EGDILIPSRGNNYQAVYIDGRITDRKAVASPHFFVIRVASPQILPKYLYWWLNLQASQKY 121

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
           +    EG+         +  +P+ +PPL+ Q +I   
Sbjct: 122 LNQNIEGSITKSIRRPILQALPIKLPPLSNQAMIISI 158


>gi|312870863|ref|ZP_07730968.1| conserved hypothetical protein [Lactobacillus iners LEAF 3008A-a]
 gi|311093553|gb|EFQ51892.1| conserved hypothetical protein [Lactobacillus iners LEAF 3008A-a]
          Length = 222

 Score = 53.6 bits (127), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 15/153 (9%), Positives = 50/153 (32%), Gaps = 7/153 (4%)

Query: 270 TRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID 329
             +     E+  +    D  +I+   + +   +  L     + R    +  +A   +   
Sbjct: 71  LTDFKPNAEAQSSLITFDKDDIIIGAMRVYFHRVVLAPCDGITRTTCFT--LAPYNNEYL 128

Query: 330 STYLAWLMRSYDLCKVFYAMGSGLRQ-SLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
           S  L    +   +              ++    +  + +++P  +       ++     +
Sbjct: 129 SFALLCCDQESSIDYAQSTSKGSTMPYAIWEGGLGDMEIIIPTPEIAKKFNEIVLPMLRQ 188

Query: 389 IDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           I     +  +    L+E R + +   ++G++D+
Sbjct: 189 IQNSYFENNR----LREIRDALLPRLMSGEVDV 217



 Score = 48.3 bits (113), Expect = 0.003,   Method: Composition-based stats.
 Identities = 36/192 (18%), Positives = 72/192 (37%), Gaps = 7/192 (3%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKD--IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
             WK   +K   KL   ++ ++G++  + Y+ ++ +   T  +   D        S++  
Sbjct: 30  SDWKKGKLKDVLKLKR-QSIKTGENTTLPYLPIDVIPMRT--FALTDFKPNAEAQSSLIT 86

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
           F K  I+ G +  Y  + ++A  DGI  T    L P     E L   LL  D    I+  
Sbjct: 87  FDKDDIIIGAMRVYFHRVVLAPCDGITRTTCFTLAP--YNNEYLSFALLCCDQESSIDYA 144

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
              +  S   +         +  +     I +K     + +   I         L+E + 
Sbjct: 145 QSTSKGSTMPYAIWEGGLGDMEIIIPTPEIAKKFNEIVLPMLRQIQNSYFENNRLREIRD 204

Query: 201 ALVSYIVTKGLN 212
           AL+  +++  ++
Sbjct: 205 ALLPRLMSGEVD 216


>gi|322690730|ref|YP_004220300.1| truncated endonuclease [Bifidobacterium longum subsp. longum JCM
           1217]
 gi|320455586|dbj|BAJ66208.1| truncated endonuclease [Bifidobacterium longum subsp. longum JCM
           1217]
          Length = 116

 Score = 53.6 bits (127), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 14/92 (15%), Positives = 35/92 (38%), Gaps = 7/92 (7%)

Query: 333 LAWLMRSYDLCKVFYAMGS---GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
             + M +    + F  +          +K   ++   VL+PP     +    ++ +   I
Sbjct: 16  WFYYMWTKKHMRRFIMLAKDRATTMGHIKRSALQESKVLIPPADVMAE----LSAKMQPI 71

Query: 390 DVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
              +  ++     L E R + +   ++G+ID+
Sbjct: 72  VDEIIGLKVQSRKLGELRDALLPKLMSGEIDI 103


>gi|262067419|ref|ZP_06027031.1| putative type I restriction-modification enzyme, S subunit
           [Fusobacterium periodonticum ATCC 33693]
 gi|291378862|gb|EFE86380.1| putative type I restriction-modification enzyme, S subunit
           [Fusobacterium periodonticum ATCC 33693]
          Length = 269

 Score = 53.6 bits (127), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 22/153 (14%), Positives = 47/153 (30%), Gaps = 9/153 (5%)

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA--- 319
            II   +     +         ++  G+I+   I+ +            +  II      
Sbjct: 40  GIIDFDKLGYADIFEFEKYKDWLLKKGDILISHINSEKHLGKSAIFLDNDVSIIHGMNLL 99

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYA--MGSGLRQSLKFEDVKRLPVLVPPIKEQFD 377
            + V    +   YL    ++    +        S  + S    D K + + +P +  Q  
Sbjct: 100 CIRVIDDIVFPEYLQLFFKTNQYKRQIKKIMKKSVNQASFSVNDFKEILIRLPKLDIQEK 159

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
           I   I      ++ ++E  +  +  L E   S 
Sbjct: 160 IIKKIMT----LEKILENNKLKLKFLSELNKSL 188



 Score = 37.1 bits (84), Expect = 5.8,   Method: Composition-based stats.
 Identities = 37/254 (14%), Positives = 76/254 (29%), Gaps = 16/254 (6%)

Query: 26  KVVPIKRFTKLNT-----GRTSESGKDIIYIGLEDVESGTGKYLPK-DGNSRQSDTSTVS 79
           K+  +K  ++         +   S + I    +E +  G   +      +  + +     
Sbjct: 2   KIFKLKDISEFIRNGVTIKQNISSKEGIPITRIETISKGIIDFDKLGYADIFEFEKYKDW 61

Query: 80  IFAKGQILYGKLGP---YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
           +  KG IL   +       + AI  D D        +L  + +   +   +L     T +
Sbjct: 62  LLKKGDILISHINSEKHLGKSAIFLDNDVSIIHGMNLLCIRVIDDIVFPEYLQLFFKTNQ 121

Query: 137 IEA-----ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            +      + +    +         I + +P L  Q  I +KI+     ++    +    
Sbjct: 122 YKRQIKKIMKKSVNQASFSVNDFKEILIRLPKLDIQEKIIKKIMTLEKILENNKLKLKFL 181

Query: 192 IELLKEKKQALVSYIVTKGLNP--DVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNT 249
            EL K     +   I T   N       + S I   G  P +      F +       + 
Sbjct: 182 SELNKSLFATMFGDIKTNDKNWELFEIKEISNILTRGKTPKYTLSSNVFVINQACIYWDK 241

Query: 250 KLIESNILSLSYGN 263
              E+    +   N
Sbjct: 242 IKYENIKFHVEDEN 255


>gi|262068315|ref|ZP_06027927.1| putative type I restriction-modification system, S subunit
           [Fusobacterium periodonticum ATCC 33693]
 gi|291377971|gb|EFE85489.1| putative type I restriction-modification system, S subunit
           [Fusobacterium periodonticum ATCC 33693]
          Length = 76

 Score = 53.6 bits (127), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 17/67 (25%), Positives = 29/67 (43%), Gaps = 4/67 (5%)

Query: 349 MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
            GS  +  L  E   +  + +PPI+ Q      I     +I+ L  +IE+SI + +    
Sbjct: 12  NGSTNQIELSKEKFSKFKIPIPPIELQNKFAERIE----KIEKLKFEIEKSIEIAQNLYD 67

Query: 409 SFIAAAV 415
           S I+   
Sbjct: 68  SLISKYF 74


>gi|317131473|ref|YP_004090787.1| restriction modification system DNA specificity domain
           [Ethanoligenens harbinense YUAN-3]
 gi|315469452|gb|ADU26056.1| restriction modification system DNA specificity domain
           [Ethanoligenens harbinense YUAN-3]
          Length = 188

 Score = 53.6 bits (127), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 23/137 (16%), Positives = 51/137 (37%), Gaps = 5/137 (3%)

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
           I   E+R   L   +    + +   +I+          R  +   V    I+    + V+
Sbjct: 49  ISYTESRLHDLSKRNVPYGKYLCDNDILINSTGTGTAGRVAQLYCVPCPTIVDGHMIIVR 108

Query: 325 P-HGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDV-KRLPVLVP-PIKEQFDITNV 381
             + I   YL + M+++    +    GS  +  L  E +   + +  P  + EQ +I  +
Sbjct: 109 AINDIVPRYLGYAMKAHQAEILQLDEGSTGQTELNRERLLSEIEISYPVSLDEQLNIVGI 168

Query: 382 INVETARI--DVLVEKI 396
           ++   A+I  +  +   
Sbjct: 169 LSALDAQISENTKINHH 185



 Score = 40.9 bits (94), Expect = 0.35,   Method: Composition-based stats.
 Identities = 17/180 (9%), Positives = 43/180 (23%), Gaps = 13/180 (7%)

Query: 25  WKVVPIKRFTKLNTGRTSE------SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           WK  P++      T           S   +  +  +   + +  Y     +         
Sbjct: 7   WKTEPLRNVVSYITKGVPPVYAPYESETTVRVLNQKCNRNFSISYTESRLHDLSKRNVPY 66

Query: 79  -SIFAKGQILYGKLGP-YLRKA---IIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
                   IL    G     +           I     ++++  + +     G+ +    
Sbjct: 67  GKYLCDNDILINSTGTGTAGRVAQLYCVPCPTIVDGHMIIVRAINDIVPRYLGYAMKAHQ 126

Query: 134 TQRIEAICEGATMSHADWKG--IGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            + ++        +  + +             L EQ+ I   + A   +I          
Sbjct: 127 AEILQLDEGSTGQTELNRERLLSEIEISYPVSLDEQLNIVGILSALDAQISENTKINHHL 186


>gi|295090946|emb|CBK77053.1| Type I restriction modification DNA specificity domain.
           [Clostridium cf. saccharolyticum K10]
          Length = 165

 Score = 53.6 bits (127), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 19/105 (18%), Positives = 43/105 (40%), Gaps = 8/105 (7%)

Query: 297 DLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS 356
           +L++ K+++      +  +   A++       D+ YL +L+ S DL           +  
Sbjct: 64  NLKSKKQNIAQVVDGQFWVNNHAHIVQGNELCDTRYLCYLLNSMDLSGYV---TGSAQPK 120

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
           L   ++  + +L+P I  Q  I + + +   +I      + Q I 
Sbjct: 121 LSQANLNAVTLLLPTITVQKKIVHYLYMFDKKI-----TVNQQIN 160


>gi|325926906|ref|ZP_08188187.1| hypothetical protein XPE_2186 [Xanthomonas perforans 91-118]
 gi|325926911|ref|ZP_08188192.1| hypothetical protein XPE_2191 [Xanthomonas perforans 91-118]
 gi|325542722|gb|EGD14183.1| hypothetical protein XPE_2186 [Xanthomonas perforans 91-118]
 gi|325542727|gb|EGD14188.1| hypothetical protein XPE_2191 [Xanthomonas perforans 91-118]
          Length = 90

 Score = 53.3 bits (126), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 13/52 (25%), Positives = 21/52 (40%)

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
             VPP + Q +I   +    A  D L  K+  +   +     S +A A  G+
Sbjct: 2   FPVPPTQIQDEIVRRVEQLFAYADQLEAKVAAAKQRIDALTQSLLAKAFRGE 53


>gi|312872181|ref|ZP_07732254.1| conserved hypothetical protein [Lactobacillus iners LEAF 2062A-h1]
 gi|311092265|gb|EFQ50636.1| conserved hypothetical protein [Lactobacillus iners LEAF 2062A-h1]
          Length = 195

 Score = 53.3 bits (126), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 15/153 (9%), Positives = 50/153 (32%), Gaps = 7/153 (4%)

Query: 270 TRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID 329
             +     E+  +    D  +I+   + +   +  L     + R    +  +A   +   
Sbjct: 44  LTDFKPNAEAQSSLITFDKDDIIIGAMRVYFHRVVLAPCDGITRTTCFT--LAPYNNEYL 101

Query: 330 STYLAWLMRSYDLCKVFYAMGSGLRQ-SLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
           S  L    +   +              ++    +  + +++P  +       ++     +
Sbjct: 102 SFALLCCDQESSIDYAQSTSKGSTMPYAIWEGGLGDMEIIIPTPEIAKKFNEIVLPMLRQ 161

Query: 389 IDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           I     +  +    L+E R + +   ++G++D+
Sbjct: 162 IQNSYFENNR----LREIRDALLPRLMSGEVDV 190



 Score = 48.6 bits (114), Expect = 0.002,   Method: Composition-based stats.
 Identities = 36/192 (18%), Positives = 72/192 (37%), Gaps = 7/192 (3%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKD--IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
             WK   +K   KL   ++ ++G++  + Y+ ++ +   T  +   D        S++  
Sbjct: 3   SDWKKGKLKDILKLKR-QSIKTGENTTLPYLPIDVIPMRT--FALTDFKPNAEAQSSLIT 59

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
           F K  I+ G +  Y  + ++A  DGI  T    L P     E L   LL  D    I+  
Sbjct: 60  FDKDDIIIGAMRVYFHRVVLAPCDGITRTTCFTLAP--YNNEYLSFALLCCDQESSIDYA 117

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
              +  S   +         +  +     I +K     + +   I         L+E + 
Sbjct: 118 QSTSKGSTMPYAIWEGGLGDMEIIIPTPEIAKKFNEIVLPMLRQIQNSYFENNRLREIRD 177

Query: 201 ALVSYIVTKGLN 212
           AL+  +++  ++
Sbjct: 178 ALLPRLMSGEVD 189


>gi|167626408|ref|YP_001676908.1| hypothetical protein Fphi_0188 [Francisella philomiragia subsp.
           philomiragia ATCC 25017]
 gi|167596409|gb|ABZ86407.1| hypothetical protein Fphi_0188 [Francisella philomiragia subsp.
           philomiragia ATCC 25017]
          Length = 323

 Score = 53.3 bits (126), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 30/153 (19%), Positives = 65/153 (42%), Gaps = 9/153 (5%)

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQND-KRSLRSAQVMERGIITSAYM 321
           N+ +K       +       Y+++  G+   + + +  D K  +   +  E+ II+SAY 
Sbjct: 6   NLEKKFIPSVANIVGTDLTKYKVIKKGQFGCKLMSVGRDGKLPISLMKDYEKAIISSAYY 65

Query: 322 AVKPHGIDSTYLAWLM----RSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFD 377
             +    +     +LM    RS +   +++  G+ +R S+ + D   + + +P I++Q +
Sbjct: 66  VFEVKNENELLSDYLMMWLSRSENDRYLWFKSGADVRGSISWNDFCSIEINIPSIEKQRE 125

Query: 378 ITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
           I       T R    ++  EQ    L+E   + 
Sbjct: 126 IVAEYYAITNR----IKLNEQLNQKLEETAQAI 154



 Score = 48.6 bits (114), Expect = 0.002,   Method: Composition-based stats.
 Identities = 42/263 (15%), Positives = 76/263 (28%), Gaps = 16/263 (6%)

Query: 62  KYLPKDGNSRQSDTSTVSIFAKGQIL-----YGKLGPYLRKAIIADFDGICSTQFLVLQP 116
           K++P   N   +D +   +  KGQ        G+ G      +      I S+ + V + 
Sbjct: 10  KFIPSVANIVGTDLTKYKVIKKGQFGCKLMSVGRDGKLPISLMKDYEKAIISSAYYVFEV 69

Query: 117 KDVL---PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
           K+      + L  WL   +  + +             W    +I + IP + +Q  I   
Sbjct: 70  KNENELLSDYLMMWLSRSENDRYLWFKSGADVRGSISWNDFCSIEINIPSIEKQREIVA- 128

Query: 174 IIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWE 233
              E   I   I    +  + L+E  QA+          P      S  E          
Sbjct: 129 ---EYYAITNRIKLNEQLNQKLEETAQAIYKEWFVDFEFPHN---FSHSELDSESDIRPY 182

Query: 234 VKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVF 293
                 +V     +         + L     ++           E      ++ PG +  
Sbjct: 183 KSGGGEMVWCEEFEKEIPKGWEKIFLKDLMNVKHGFAYKGEFFSEKENENILLTPGNVEI 242

Query: 294 RFIDLQNDKRSLRSAQVMERGII 316
                +NDK      +V +  I 
Sbjct: 243 G-GGFKNDKFKYYYGKVPKDYIF 264



 Score = 44.4 bits (103), Expect = 0.037,   Method: Composition-based stats.
 Identities = 14/79 (17%), Positives = 24/79 (30%), Gaps = 7/79 (8%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSE------SGKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
            IPK W+ + +K    +  G   +         + I +   +VE G G +          
Sbjct: 198 EIPKGWEKIFLKDLMNVKHGFAYKGEFFSEKENENILLTPGNVEIGGG-FKNDKFKYYYG 256

Query: 74  DTSTVSIFAKGQILYGKLG 92
                 IF    I+     
Sbjct: 257 KVPKDYIFKPNDIMVTMTD 275


>gi|319777294|ref|YP_004136945.1| hypothetical protein MfeM64YM_0570 [Mycoplasma fermentans M64]
 gi|318038369|gb|ADV34568.1| Hypothetical Protein MfeM64YM_0570 [Mycoplasma fermentans M64]
          Length = 344

 Score = 53.3 bits (126), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 23/120 (19%), Positives = 45/120 (37%), Gaps = 5/120 (4%)

Query: 304 SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDV 362
                  +   + ++ +   K       YL   + S     +  +  SG  ++S+  E +
Sbjct: 7   CAIINNELNGSLFSTGFYGFKSIYNKIKYLKLFIESPYYQILKDSFCSGVTQKSINDEKL 66

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR----SSFIAAAVTGQ 418
             + + +PPI EQ  I N +      +   +EK  Q   L  E +     S +  A+ G+
Sbjct: 67  LNILIAIPPINEQEKIINKLISLDKFMKKYLEKENQLFKLDSEIKDKLQKSILQYAIQGK 126



 Score = 47.1 bits (110), Expect = 0.006,   Method: Composition-based stats.
 Identities = 50/330 (15%), Positives = 101/330 (30%), Gaps = 48/330 (14%)

Query: 107 CSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAE 166
            ST F   +      + L+ ++ S       ++ C G T    + + + NI + IPP+ E
Sbjct: 19  FSTGFYGFKSIYNKIKYLKLFIESPYYQILKDSFCSGVTQKSINDEKLLNILIAIPPINE 78

Query: 167 QVLIREKIIAETVRIDTLITERIRFIELLKEK----KQALVSYIVTKGLNPDVK------ 216
           Q  I  K+I+    +   + +  +  +L  E     +++++ Y +   L           
Sbjct: 79  QEKIINKLISLDKFMKKYLEKENQLFKLDSEIKDKLQKSILQYAIQGKLVKQDPNDEPAS 138

Query: 217 --MKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMG 274
             ++   IE   L+ +    K                 +     ++  N I     +N  
Sbjct: 139 KLLEAIQIEKNKLIKEGKIKKDKHESFIFQGEDKNYYEKIGSKVINITNEIPFEIPKNWV 198

Query: 275 LKPESYETYQIVDPGEIVFRFIDLQNDKRSLR----SAQVMERGIITSAYMAVKPHGIDS 330
           +   S  +++I     I+     L   K  +              + + +   +P  I  
Sbjct: 199 IVKISNISFRIDKKNIIIKTKQILSTGKYPIITQGQKFIEGYTNNVNNIFKVKEPIIIFG 258

Query: 331 TY----------------------------LAWLMRSYDLCKVFYAMGSGLRQSLKFEDV 362
            +                            L +      L K     G      L    +
Sbjct: 259 DHTKTTKFVDFNFVPGGDGTVFLKPLKINPLFFYYLVNYLSKKIRNRGYARHYIL----L 314

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVL 392
           K+  + +P I EQ  I + I      I+ L
Sbjct: 315 KKEIIPIPNINEQNQIVSKIKKVFYFINCL 344


>gi|298674149|ref|YP_003725899.1| restriction modification system DNA specificity domain-containing
           protein [Methanohalobium evestigatum Z-7303]
 gi|298287137|gb|ADI73103.1| restriction modification system DNA specificity domain protein
           [Methanohalobium evestigatum Z-7303]
          Length = 204

 Score = 53.3 bits (126), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 22/207 (10%), Positives = 60/207 (28%), Gaps = 10/207 (4%)

Query: 217 MKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK 276
           M+ S I     + +  E       + +    N+   E   + +     ++         +
Sbjct: 1   MRCSDITETIKLKNLLESNKLIRGIAKTREDNSNDTEKINVFMVNIKNLEDGIVDLKSTE 60

Query: 277 PESYET----YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT-SAYMAVKPHGIDST 331
             + +           G+++              S    +  +I+ +       + I   
Sbjct: 61  ECNVKKSDFEKPKPKKGDVIIPIRGSDFKSAVAPSGIENKGYVISLNLVALRVNNKILPR 120

Query: 332 YLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
            L+    S         +  G   +S+  +++K L + VP + +Q      +      I 
Sbjct: 121 VLSEYFNSPQGQISLERISKGTKIKSIPIKELKELDIPVPNLDDQNKFDKYLEA----IQ 176

Query: 391 VLVEKIEQSIVLLKERRSSFIAAAVTG 417
               ++ +     ++ + S       G
Sbjct: 177 DYKLRLREEKEFTEKMKKSVAFKYFRG 203


>gi|291540209|emb|CBL13320.1| Restriction endonuclease S subunits [Roseburia intestinalis XB6B4]
          Length = 282

 Score = 53.3 bits (126), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 39/283 (13%), Positives = 72/283 (25%), Gaps = 18/283 (6%)

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
                    +           +    +++   R+   I       +L          Y  
Sbjct: 1   MISDIIFSFMCFSFICENHHEVEFLYLLSPLSRVIFYIINDYLEQQLQLLYDYWFTQYNF 60

Query: 208 TKG----LNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR--------KNTKLIESN 255
                        +         L+P  W+VKP   + +  N          NT     N
Sbjct: 61  PNEDGQPYKASNGLMVWNKMINHLIPADWKVKPLGTICSFRNGINYDKNVDGNTIYKIIN 120

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
           + ++S   +       +    P+       V    I+     +    R L +       I
Sbjct: 121 VRNISSSTLFLDESNFDEICLPKQQGDKYYVSDDSIIIARSGIPGATRILCNPSS--NII 178

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
                +   P          L             G  + +++  E +K L V +PP    
Sbjct: 179 FCGFIICCTPSDNTLQNYLTLYLRQFEGSSATQTGGSILKNVSQETLKNLIVPIPP---- 234

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
             + N  N     I  L+    +  V L   R   +   + GQ
Sbjct: 235 QSLLNQFNDSILPIYNLINSNTKENVQLITLRDWLLPMLMNGQ 277



 Score = 53.3 bits (126), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 29/191 (15%), Positives = 59/191 (30%), Gaps = 7/191 (3%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKD----IIYIGLEDVESGTGKYLPKDGNSR--QSD 74
           IP  WKV P+        G   +   D       I + ++ S T      + +       
Sbjct: 85  IPADWKVKPLGTICSFRNGINYDKNVDGNTIYKIINVRNISSSTLFLDESNFDEICLPKQ 144

Query: 75  TSTVSIFAKGQILYGKLG-PYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
                  +   I+  + G P   + +      I    F++              L     
Sbjct: 145 QGDKYYVSDDSIIIARSGIPGATRILCNPSSNIIFCGFIICCTPSDNTLQNYLTLYLRQF 204

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
                    G+ + +   + + N+ +PIPP +      + I+     I++   E ++ I 
Sbjct: 205 EGSSATQTGGSILKNVSQETLKNLIVPIPPQSLLNQFNDSILPIYNLINSNTKENVQLIT 264

Query: 194 LLKEKKQALVS 204
           L       L++
Sbjct: 265 LRDWLLPMLMN 275


>gi|29349930|ref|NP_813433.1| putative type I restriction-modification enzyme [Bacteroides
           thetaiotaomicron VPI-5482]
 gi|29341841|gb|AAO79627.1| putative type I restriction enzyme S.BthVORF4518BP [Bacteroides
           thetaiotaomicron VPI-5482]
          Length = 175

 Score = 53.3 bits (126), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 12/64 (18%), Positives = 29/64 (45%), Gaps = 2/64 (3%)

Query: 335 WLMRSYDLCKVF--YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
           +++++ +L +     +        L  +  K + + +PP KEQ  I   I      +D++
Sbjct: 112 YVLQAINLHRKVLRESKVGSAIPHLNKKLFKAIEIPIPPYKEQQRIIKAITKAFMSLDLI 171

Query: 393 VEKI 396
           +E +
Sbjct: 172 MESL 175


>gi|148993704|ref|ZP_01823151.1| type I restriction-modification system, S subunit, truncation
           [Streptococcus pneumoniae SP9-BS68]
 gi|147927784|gb|EDK78807.1| type I restriction-modification system, S subunit, truncation
           [Streptococcus pneumoniae SP9-BS68]
          Length = 148

 Score = 53.3 bits (126), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 18/108 (16%), Positives = 36/108 (33%), Gaps = 6/108 (5%)

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
           Y    IV    ++       N    +R              +      I+S YL +  + 
Sbjct: 26  YAKDWIVKKNSVIIGRKGNINKPILVRENFWNVDTAFG---LEPVLEKINSEYLFYFCQL 82

Query: 340 YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           Y+  K+  A+      SL   D+  + + +PP+  Q +  + +     
Sbjct: 83  YNFEKLNKAV---TIPSLTKSDLLNISIPLPPLALQNEFADFVVQVDK 127



 Score = 39.8 bits (91), Expect = 0.84,   Method: Composition-based stats.
 Identities = 18/110 (16%), Positives = 39/110 (35%), Gaps = 3/110 (2%)

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPEL 123
            P  G+      +   I  K  ++ G+ G   +  ++ +      T F +    + +   
Sbjct: 15  FPIYGSGGIMGYAKDWIVKKNSVIIGRKGNINKPILVRENFWNVDTAFGLEPVLEKINSE 74

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
              +   +      E + +  T+       + NI +P+PPLA Q    + 
Sbjct: 75  YLFYFCQLY---NFEKLNKAVTIPSLTKSDLLNISIPLPPLALQNEFADF 121


>gi|321310215|ref|YP_004192544.1| type I restriction-modification system, S subunit [Mycoplasma
           haemofelis str. Langford 1]
 gi|319802059|emb|CBY92705.1| type I restriction-modification system, S subunit [Mycoplasma
           haemofelis str. Langford 1]
          Length = 196

 Score = 53.3 bits (126), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 9/58 (15%), Positives = 24/58 (41%), Gaps = 1/58 (1%)

Query: 349 MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
           +G G+   L    +K++ V +P +  Q +I + +      I+  +   ++     +  
Sbjct: 131 IGGGVIPHLDIGKLKKVKVPIPSLSVQREIASKLGK-FREIEREISLRDKQYEYYRNY 187



 Score = 39.4 bits (90), Expect = 1.1,   Method: Composition-based stats.
 Identities = 27/176 (15%), Positives = 59/176 (33%), Gaps = 10/176 (5%)

Query: 30  IKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS--TVSIFAK 83
           +    K+  GR+  S     +    + + +++            S +      +  +   
Sbjct: 15  LGEVCKIQRGRSFSSKEYRDEGDPILRVRNIQDNQLCTDGLVYFSPEECKKDLSKVVIKH 74

Query: 84  GQILYGKLGPYLRKAI-IADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           G I     G      +   D     +     + P   L  + + +L    +   +E +  
Sbjct: 75  GDIGVTTTGERCMAFLSQVDGSFYMNADICRIDPSPEL--IDKEYLFYFLLDLDLEPLIG 132

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
           G  + H D   +  + +PIP L+ Q  I  K+  +   I+  I+ R +  E  +  
Sbjct: 133 GGVIPHLDIGKLKKVKVPIPSLSVQREIASKL-GKFREIEREISLRDKQYEYYRNY 187


>gi|294793236|ref|ZP_06758382.1| type I restriction enzyme EcoDI specificity protein [Veillonella
           sp. 6_1_27]
 gi|294456181|gb|EFG24545.1| type I restriction enzyme EcoDI specificity protein [Veillonella
           sp. 6_1_27]
          Length = 363

 Score = 53.3 bits (126), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 17/146 (11%), Positives = 41/146 (28%), Gaps = 4/146 (2%)

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
           +           P + +        E V    +  +   + +  +        +  +   
Sbjct: 25  VTDGAYPFFTCDPNTLKIDDWAYDTEAVLLAGNNASGNYTAKYYKGKFNAYQRTYIIESA 84

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
              + +        +  L  +         + L  + +  L +  P I  Q  I ++I  
Sbjct: 85  NTSLLTVRFLAFAITEQLRLLKSMSSGSTTKFLTIKILNGLDIPCPEITIQRKIASIIGS 144

Query: 385 ETARIDVLVEKIEQSIVLLKERRSSF 410
                D L+   ++ I LL+E     
Sbjct: 145 ----YDDLIGNNQKQIKLLEEAAQRL 166



 Score = 45.9 bits (107), Expect = 0.012,   Method: Composition-based stats.
 Identities = 47/401 (11%), Positives = 118/401 (29%), Gaps = 46/401 (11%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           ++  +K    + TG+   +           V  G   +   D N+ + D           
Sbjct: 4   QIEKLKNIALIKTGKLDSN---------AAVTDGAYPFFTCDPNTLKIDDWAY---DTEA 51

Query: 86  ILYGKLGPYLRKA--IIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
           +L                         +++      L  +        +  + ++++  G
Sbjct: 52  VLLAGNNASGNYTAKYYKGKFNAYQRTYIIESANTSLLTVRFLAFAITEQLRLLKSMSSG 111

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           +T      K +  + +P P +  Q  I   I +    I        + I+LL+E  Q L 
Sbjct: 112 STTKFLTIKILNGLDIPCPEITIQRKIASIIGSYDDLIGN----NQKQIKLLEEAAQRLY 167

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
                        ++  G E +  V    E     ++       +        + +   +
Sbjct: 168 KEWFV-------DLRFPGYENIKNVDGVPEGWKLESV------GSVIKTVPRTVQIKTKD 214

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEI---VFRFIDLQNDKRSLRSAQVMERGIITSAY 320
            +++     +    E    Y  ++   +       +   + +          +G   +  
Sbjct: 215 YLREGTIPIIDQSREFIAGYTNLEDAIVSSEAPVIVFGDHTRILKYIQFPFAKGADGTQL 274

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
           +      + +  L   + S DL    YA          F+ +K   +++P      +I +
Sbjct: 275 IISNTELMPAPLLYLSLLSVDLSNYHYAR--------HFKYLKEEMIIIPS----QEIAD 322

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
             N     +   V+ +       ++ R   +   + G+I++
Sbjct: 323 TFNNIVEPLFKRVQVLRDINRNCEQARDRLLPKLMNGEIEV 363


>gi|332800247|ref|YP_004461746.1| hypothetical protein TepRe1_2325 [Tepidanaerobacter sp. Re1]
 gi|332697982|gb|AEE92439.1| hypothetical protein TepRe1_2325 [Tepidanaerobacter sp. Re1]
          Length = 424

 Score = 53.3 bits (126), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 46/391 (11%), Positives = 105/391 (26%), Gaps = 33/391 (8%)

Query: 30  IKRFTKLNTGRT------SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           ++   +  T                  I   D+ +    Y+ +    +        I   
Sbjct: 36  LRDICEEITSGIRVRKEYYTDKDGYKIIAPGDIRNEVI-YINELKIVQPEVVREKDIINN 94

Query: 84  GQILY---GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
           G IL    GK G  +    I +   I S    +          L  +L S      + +I
Sbjct: 95  GDILVTASGKSGQIIYVNGILEGCVITSDIIKITLKDKREGIRLYKFLKSSIGQMLLNSI 154

Query: 141 CEG-------ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
             G         +         +                + + ++  +           E
Sbjct: 155 KIGILNKIFVEDIEKLSIPEDFDTYGDDNWYDISPYSSAEKLYKSAELIFS-RLLDYKGE 213

Query: 194 LLKEKKQALVSYIVTKGLNPDVK--MKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKL 251
               K   ++ ++ +  L+P+            +     + + +    +          +
Sbjct: 214 EEYLKCFYVMKHLDSHRLDPEYYSNFYTELYRLIHKNTGNVKWQRIAEVAEIKRANKPDI 273

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYET-----YQIVDPGEIVFRFIDLQNDKRSLR 306
            E+  +       I    +       + Y         IV  GE+V          +   
Sbjct: 274 SENQKVKYFLLADIDPNLSIIKETHEDFYGNLSNRMRYIVRDGELVTAKGGSATGTKGHV 333

Query: 307 SAQVMERG---IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS-LKFEDV 362
           SA + E     + T A   + P  I   YL +L +   +         G     ++ +D 
Sbjct: 334 SALITEEFDGMVTTDALYNLVPKNISPYYLLFLFKQPVILNQINMFTKGTLYKLIQRKDF 393

Query: 363 KRLPVLV--PPIKEQFDITNVINVETARIDV 391
           +++ +      ++EQ  I + +     ++  
Sbjct: 394 EQIKIPRLESSLEEQ--IADKMLNYLTKLRN 422


>gi|301300026|ref|ZP_07206251.1| conserved hypothetical protein [Lactobacillus salivarius
           ACS-116-V-Col5a]
 gi|300852417|gb|EFK80076.1| conserved hypothetical protein [Lactobacillus salivarius
           ACS-116-V-Col5a]
          Length = 185

 Score = 53.3 bits (126), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 27/170 (15%), Positives = 57/170 (33%), Gaps = 3/170 (1%)

Query: 235 KPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFR 294
                LV   +  N+  I+    +L     +          + +      I   G++V  
Sbjct: 1   MKLNELVKIESGINSVRIKDQNYTLYTIEDVNYDLGHGEDYQHDKTNGKSITARGDVVIN 60

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG--SG 352
            +         ++A  M   I       +  + +DS YL +L+   +  +   A      
Sbjct: 61  TVSNLASVVHSKNAGKMLNQIF-LRLNILDENVLDSWYLCYLLNKSEYIRYQEAAIMDGS 119

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
           + + L   +++ L + +P I +Q  I         +  + +EK E    L
Sbjct: 120 VIRKLTKANLEDLEINLPEIADQKKIGEAYKQIMKKYTLAMEKAELERDL 169


>gi|227888664|ref|ZP_04006469.1| possible type I site-specific deoxyribonuclease, specificity
           subunit [Lactobacillus johnsonii ATCC 33200]
 gi|227850779|gb|EEJ60865.1| possible type I site-specific deoxyribonuclease, specificity
           subunit [Lactobacillus johnsonii ATCC 33200]
          Length = 177

 Score = 53.3 bits (126), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 23/160 (14%), Positives = 53/160 (33%), Gaps = 9/160 (5%)

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
                   I     G+ I  + T N  +   +    +IVD   I+   I        +  
Sbjct: 25  WNSKDICFIKPDVIGSGIDSITTSNEYISNSASSKARIVDRNTILITCIGNIGRIGIISD 84

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
            +V     I +      P+   +      +  +   ++     S +   +    +    V
Sbjct: 85  KKVAFNQQINAII----PNYKINIRYLAYVLLFSQPRLNALANSAVVPIVNKTQLGNFKV 140

Query: 368 LV-PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
            + P ++ Q  I ++++    +I  +++K  + I  L E 
Sbjct: 141 KINPNLESQGKIVSILD----KIAKIIKKQTKEIEHLDEL 176



 Score = 49.4 bits (116), Expect = 0.001,   Method: Composition-based stats.
 Identities = 39/176 (22%), Positives = 62/176 (35%), Gaps = 9/176 (5%)

Query: 27  VVPIKRFTKLNTGRTSESG-------KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            V +K  +K+ TG T           KDI +I  + + SG       +     S +S   
Sbjct: 2   EVSLKEISKIVTGNTPSKKNKNYWNSKDICFIKPDVIGSGIDSITTSNEYISNSASSKAR 61

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           I  +  IL   +G   R  II+D     + Q   + P   +      ++L      R+ A
Sbjct: 62  IVDRNTILITCIGNIGRIGIISDKKVAFNQQINAIIPNYKINIRYLAYVLLFS-QPRLNA 120

Query: 140 ICEGATMSHADWKGIGNIPMPI-PPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           +   A +   +   +GN  + I P L  Q  I   +      I     E     EL
Sbjct: 121 LANSAVVPIVNKTQLGNFKVKINPNLESQGKIVSILDKIAKIIKKQTKEIEHLDEL 176


>gi|30022541|ref|NP_834172.1| Type I restriction-modification system specificity subunit
           [Bacillus cereus ATCC 14579]
 gi|229129744|ref|ZP_04258711.1| Type I restriction-modification system specificity subunit
           [Bacillus cereus BDRD-Cer4]
 gi|29898099|gb|AAP11373.1| Type I restriction-modification system specificity subunit
           [Bacillus cereus ATCC 14579]
 gi|228653660|gb|EEL09531.1| Type I restriction-modification system specificity subunit
           [Bacillus cereus BDRD-Cer4]
          Length = 188

 Score = 53.3 bits (126), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 31/138 (22%), Positives = 55/138 (39%), Gaps = 11/138 (7%)

Query: 277 PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY-MAVKPHGIDSTYLAW 335
             +Y+   +   G++VF F+     K  + S     + I  +   + +K   +DS+YL +
Sbjct: 53  NSNYKDSYLSSAGDVVFSFVSS---KAGIVSDLNQGKIISQNFAKLIIKHEYLDSSYLCY 109

Query: 336 LMR-SYDLCKVF-YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN---VINVETARID 390
            +  SY + K    +M       L    +K L + +P I++Q  I      +    A   
Sbjct: 110 ALNESYSMKKQMAISMQGSTVPKLTPAILKALEIKLPSIEKQRTIGKAYFFLRKRQALAK 169

Query: 391 VLVEKIEQSIVLLKERRS 408
             VE  EQ    LK  + 
Sbjct: 170 KQVELEEQL--YLKALKQ 185



 Score = 39.4 bits (90), Expect = 1.1,   Method: Composition-based stats.
 Identities = 20/155 (12%), Positives = 50/155 (32%), Gaps = 11/155 (7%)

Query: 29  PIKRFTKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
            ++    +  GR    G +          Y  L +   G+   L     S  S+     +
Sbjct: 2   KLEDIVTVRIGRNLSRGNEKNDLNLVAYSYEDLMNDLDGSFLELQASSYSGNSNYKDSYL 61

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQF---LVLQPKDVLPELLQGWLLSIDVTQRI 137
            + G +++  +          +   I S  F   ++         L      S  + +++
Sbjct: 62  SSAGDVVFSFVSSKAGIVSDLNQGKIISQNFAKLIIKHEYLDSSYLCYALNESYSMKKQM 121

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIRE 172
               +G+T+       +  + + +P + +Q  I +
Sbjct: 122 AISMQGSTVPKLTPAILKALEIKLPSIEKQRTIGK 156


>gi|126661169|ref|ZP_01732246.1| type I site-specific deoxyribonuclease [Cyanothece sp. CCY0110]
 gi|126617542|gb|EAZ88334.1| type I site-specific deoxyribonuclease [Cyanothece sp. CCY0110]
          Length = 201

 Score = 53.3 bits (126), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 24/181 (13%), Positives = 57/181 (31%), Gaps = 11/181 (6%)

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRF 295
            F                  I +    N   +    +  L  E  +  ++  P  I+   
Sbjct: 31  RFSHRPRNAPHLYENGTYPFIQTGDVANGKGRNIQYSQYLNEEGLKVSKLFQPATILITI 90

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLR 354
                    L         I++          ++  YL + +R+    +    +     +
Sbjct: 91  AANIGSTAILTYPACFPDSIVS----IKPSKTMNIDYLEYYLRTQ--QQYLNDIAPQKAQ 144

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAA 414
           +++  + ++ L V  P   EQ  I N    E  +I+  +   EQ I  + +++ + +   
Sbjct: 145 KNINLKILEPLLVACPEKTEQDKIIN----EVLKIEQQINNFEQEIFAIPQQKEAILKKY 200

Query: 415 V 415
           +
Sbjct: 201 L 201



 Score = 44.0 bits (102), Expect = 0.041,   Method: Composition-based stats.
 Identities = 24/185 (12%), Positives = 58/185 (31%), Gaps = 11/185 (5%)

Query: 28  VPIKRFTKLNTGRTSESGKD---------IIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           + + +   L  GR S   ++           +I   DV +G G+ +       +      
Sbjct: 19  IKLSQLASLKRGRFSHRPRNAPHLYENGTYPFIQTGDVANGKGRNIQYSQYLNEEGLKVS 78

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
            +F    IL   +   +    I  +        + ++P   +      + L     Q + 
Sbjct: 79  KLFQPATILIT-IAANIGSTAILTYPACFPDSIVSIKPSKTMNIDYLEYYLRTQ-QQYLN 136

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
            I       + + K +  + +  P   EQ  I  +++    +I+    E     +  +  
Sbjct: 137 DIAPQKAQKNINLKILEPLLVACPEKTEQDKIINEVLKIEQQINNFEQEIFAIPQQKEAI 196

Query: 199 KQALV 203
            +  +
Sbjct: 197 LKKYL 201


>gi|298484559|ref|ZP_07002687.1| type I restriction-modification enzyme [Bacteroides sp. D22]
 gi|298269287|gb|EFI10920.1| type I restriction-modification enzyme [Bacteroides sp. D22]
          Length = 156

 Score = 53.3 bits (126), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 15/87 (17%), Positives = 29/87 (33%)

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLP 366
             +    G   S +  +  +   +T     + +     +           L  +  K + 
Sbjct: 67  VFRTPIDGYQGSTFKLLSINYDMNTEYVLQVINLHRTILRENKVGSAIPHLNKKLFKAIE 126

Query: 367 VLVPPIKEQFDITNVINVETARIDVLV 393
           V +PP KEQ  I    N     +DV++
Sbjct: 127 VPIPPYKEQQRIVEAANKVFMSLDVIM 153


>gi|300780276|ref|ZP_07090132.1| restriction modification system DNA specificity subunit
           [Corynebacterium genitalium ATCC 33030]
 gi|300534386|gb|EFK55445.1| restriction modification system DNA specificity subunit
           [Corynebacterium genitalium ATCC 33030]
          Length = 328

 Score = 53.3 bits (126), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 48/328 (14%), Positives = 109/328 (33%), Gaps = 52/328 (15%)

Query: 108 STQFLV--LQPKDVLPELLQGWLLSIDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPL 164
           ST+F+V   +P   + +    +  + D+     ++  G +     D   +    + IP L
Sbjct: 28  STEFIVLRGKPGVTITDFAYYFATTPDIHDLSVSLMTGTSGRQRVDIDALCATQVTIPDL 87

Query: 165 AEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEW 224
             Q  I   + +   +I          I L +         +V +G+        S    
Sbjct: 88  RTQHSIVSILGSLDDKIAANTRVINSSITLAES--------LVDRGI-------RSTRVR 132

Query: 225 VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ 284
           +G V          A +T       + ++  +  L +   ++  +      +  +    +
Sbjct: 133 LGDV----------ARITMGTSPKGEYLKEEVGGLPFYQGVRDFDDLTPQKRVFTENPVR 182

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCK 344
             + G+I+F       +         + RG+             +   L +L+RS+    
Sbjct: 183 EAEAGDILFAVRAPVGEVNIASEPTAIGRGLAA------IRGLNNHVALFYLLRSHPKIW 236

Query: 345 VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL-- 402
             +     +  S+   D+    +              I ++ ++ D+L +   QS+VL  
Sbjct: 237 NTHQDNGTVFASINKTDLSNALIP------------EIEMDQSQYDLLAKLHNQSLVLTS 284

Query: 403 ----LKERRSSFIAAAVTGQIDLRGESQ 426
               L + R   +   ++G+I +R   Q
Sbjct: 285 QNFILAKTRDELLPLLMSGKITVREAKQ 312



 Score = 45.9 bits (107), Expect = 0.013,   Method: Composition-based stats.
 Identities = 19/148 (12%), Positives = 41/148 (27%), Gaps = 4/148 (2%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
           V +    ++  G + +       +G      G   +       R    + V     G IL
Sbjct: 131 VRLGDVARITMGTSPKGEYLKEEVGGLPFYQGVRDFDDLTPQKRVFTENPVREAEAGDIL 190

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMS 147
           +    P     I ++   I      +   + +   +   +LL             G   +
Sbjct: 191 FAVRAPVGEVNIASEPTAI---GRGLAAIRGLNNHVALFYLLRSHPKIWNTHQDNGTVFA 247

Query: 148 HADWKGIGN-IPMPIPPLAEQVLIREKI 174
             +   + N +   I     Q  +  K+
Sbjct: 248 SINKTDLSNALIPEIEMDQSQYDLLAKL 275


>gi|237726585|ref|ZP_04557066.1| type I site-specific deoxyribonuclease [Bacteroides sp. D4]
 gi|229435111|gb|EEO45188.1| type I site-specific deoxyribonuclease [Bacteroides dorei
           5_1_36/D4]
          Length = 143

 Score = 53.3 bits (126), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 20/130 (15%), Positives = 45/130 (34%), Gaps = 6/130 (4%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +P  W  V IK    +N    ++   ++ ++ + ++  G       +        +  +
Sbjct: 9   QLPDGWCYVTIKEVFIINPKNKADDDVEVGFVPMANITDGYNNTFKYETKQWGKIKTGFT 68

Query: 80  IFAKGQILYGKLGPYLRK------AIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
            FA G I   K+ P L          + +  G+ +T+  V +P  +  +    +  S   
Sbjct: 69  HFANGDIAVAKISPCLENRKSVVLKGLPNGIGVGTTELHVFRPLFLDVQYGLYFFKSDYF 128

Query: 134 TQRIEAICEG 143
             +      G
Sbjct: 129 ISQCVGSFNG 138


>gi|313140399|ref|ZP_07802592.1| type I restriction-modification system [Bifidobacterium bifidum
           NCIMB 41171]
 gi|313132909|gb|EFR50526.1| type I restriction-modification system [Bifidobacterium bifidum
           NCIMB 41171]
          Length = 167

 Score = 53.3 bits (126), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 19/121 (15%), Positives = 38/121 (31%), Gaps = 12/121 (9%)

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
           + +  +V    +V            +            ++      +G +  ++ WL  S
Sbjct: 58  WHSKYMVKGPGVVTGRSGTIGSLHYI----EQNFWPHNTSLWVTSFNGNEPRFIYWLYAS 113

Query: 340 YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQ 398
             L +           +L   DV  L V  P  + EQ  I        +R+D L+   ++
Sbjct: 114 IGLERF---GSGSGVPTLNRNDVHDLRVGFPCDVAEQRRIGTF----FSRLDSLITLHQR 166

Query: 399 S 399
            
Sbjct: 167 K 167



 Score = 45.6 bits (106), Expect = 0.017,   Method: Composition-based stats.
 Identities = 21/158 (13%), Positives = 43/158 (27%), Gaps = 17/158 (10%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+   +     L  G      +         + +G G +             +  +    
Sbjct: 20  WEQRKLGEVAPLQRGFDLPVNQMTPGPYPVVMSNGIGGW------------HSKYMVKGP 67

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            ++ G+ G       I       +T   V       P  +     SI +    E    G+
Sbjct: 68  GVVTGRSGTIGSLHYIEQNFWPHNTSLWVTSFNGNEPRFIYWLYASIGL----ERFGSGS 123

Query: 145 TMSHADWKGIGNIPMPIPP-LAEQVLIREKIIAETVRI 181
            +   +   + ++ +  P  +AEQ  I          I
Sbjct: 124 GVPTLNRNDVHDLRVGFPCDVAEQRRIGTFFSRLDSLI 161


>gi|154685170|ref|YP_001420331.1| hypothetical protein RBAM_007150 [Bacillus amyloliquefaciens FZB42]
 gi|154351021|gb|ABS73100.1| conserved hypothetical protein [Bacillus amyloliquefaciens FZB42]
          Length = 408

 Score = 53.3 bits (126), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 28/137 (20%), Positives = 54/137 (39%), Gaps = 9/137 (6%)

Query: 274 GLKPESYETYQIVDPGEIVFRFIDLQNDKRS-LRSAQVMERGIITSAYMAV---KPHGID 329
                 ++ Y+I+   +     + ++ DK+  +   Q  +  II++AY          I 
Sbjct: 42  NTIGTDFKNYKIIRKKQFACSTMQVRRDKKMPVALLQDYDEAIISAAYPVFEVVDTEMIL 101

Query: 330 STYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
             YL       +  +        G+R S+++ED   + + VP I EQ +I N   +   R
Sbjct: 102 PEYLMMWFSRSEFDREACFYAIGGVRGSIEWEDFCNMQLPVPSIDEQKEIINKHKILLDR 161

Query: 389 IDVLVEKIEQSIVLLKE 405
               ++     I  L+E
Sbjct: 162 ----IKVNNLFIQKLEE 174



 Score = 52.9 bits (125), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 62/418 (14%), Positives = 115/418 (27%), Gaps = 47/418 (11%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
             I    +L   R        +        S T +++P   N+  +D     I  K Q  
Sbjct: 6   KRIGDCIRLVDERNVNLNVTTLL-----GLSITKEFIPSVANTIGTDFKNYKIIRKKQFA 60

Query: 88  YGKL---GPYLRKAIIADFD--GICSTQFLVL---QPKDVLPELLQGWLLSIDVTQRIEA 139
              +           +       I S  + V      + +LPE L  W    +  +    
Sbjct: 61  CSTMQVRRDKKMPVALLQDYDEAIISAAYPVFEVVDTEMILPEYLMMWFSRSEFDREACF 120

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
              G      +W+   N+ +P+P + EQ    ++II +   +   I     FI+ L+E  
Sbjct: 121 YAIGGVRGSIEWEDFCNMQLPVPSIDEQ----KEIINKHKILLDRIKVNNLFIQKLEETV 176

Query: 200 QALVSYIVTKGLNPDV---KMKDSGIEW------VGLVPDHWEVKPFFALVTELNRKNTK 250
           Q +          P+      K SG +          +P  WEVK F  +V         
Sbjct: 177 QTIYKQWFIDFEFPNQLGNPYKSSGGKMKFNPILNTEIPKGWEVKSFTDVVKVGGGGTPD 236

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYE--------TYQIVDPGEIVFRFIDLQNDK 302
                  +           + +                 +   + P   VF         
Sbjct: 237 TTIDTYWNGGIPFFTPGDVSESYYCLETEKSVSKLGLRNSSTKLYPKNTVFVTARGTVGA 296

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDV 362
            +L   ++                  D+ Y    +    +  +       +  +L  +D 
Sbjct: 297 IALAGTEMTMNQSC-------YALMGDNQYYIHQLTIATIRSLKKQASGAVFNALIVKDF 349

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT--GQ 418
               V+ PP      I N        +   +    +   LL       ++   T  G+
Sbjct: 350 AEQNVVHPPKD----IENSFQNIVRGLYNAIYLKVELNKLLSSTVKLLLSKLATTRGK 403



 Score = 49.8 bits (117), Expect = 0.001,   Method: Composition-based stats.
 Identities = 27/170 (15%), Positives = 49/170 (28%), Gaps = 12/170 (7%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDV-ESGTGKYLPKDGNSRQ 72
            IPK W+V       K+  G T ++         I +    DV ES       K  +   
Sbjct: 213 EIPKGWEVKSFTDVVKVGGGGTPDTTIDTYWNGGIPFFTPGDVSESYYCLETEKSVSKLG 272

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
              S+  ++ K  +     G       +A  +   +     L              L+I 
Sbjct: 273 LRNSSTKLYPKNTVFVTARGTV-GAIALAGTEMTMNQSCYALMG----DNQYYIHQLTIA 327

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
             + ++    GA  +    K      +  PP   +   +  +      I 
Sbjct: 328 TIRSLKKQASGAVFNALIVKDFAEQNVVHPPKDIENSFQNIVRGLYNAIY 377


>gi|321310236|ref|YP_004192565.1| type I restriction-modification system, S subunit [Mycoplasma
           haemofelis str. Langford 1]
 gi|319802080|emb|CBY92726.1| type I restriction-modification system, S subunit [Mycoplasma
           haemofelis str. Langford 1]
          Length = 195

 Score = 53.3 bits (126), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 24/160 (15%), Positives = 52/160 (32%), Gaps = 13/160 (8%)

Query: 241 VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQN 300
            +     N+      + ++    +             E   +  I+ P ++         
Sbjct: 28  FSSNKYMNSGSPIIRVRNVQKNQLTTNGLVYFSDTDYEDDLSKYILKPRDLAVTLTG--- 84

Query: 301 DKRSLRSAQVMERGIITSAYMAVKPHGI--DSTYLAWLMRSYDLCKVFYAMGSGLRQSLK 358
            K  +    V +   + S    + P     D  YL   + + +L  +      G+   L 
Sbjct: 85  -KAMVFLNTVDDSFYMGSDICRLDPDLEVLDREYLFHFLSNLNLDSIVK---YGMIPHLD 140

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
               K+L + VPP+  Q +I + +     +I  L  + +Q
Sbjct: 141 VGKFKKLEIRVPPLSLQKEIASKLG----KIQELRLRKKQ 176



 Score = 41.7 bits (96), Expect = 0.24,   Method: Composition-based stats.
 Identities = 24/173 (13%), Positives = 52/173 (30%), Gaps = 10/173 (5%)

Query: 30  IKRFTKLNTGRTSESGK----DIIYIGLEDVESG---TGKYLPKDGNSRQSDTSTVSIFA 82
           ++   KL  G+   S K        I + +V+     T   +       + D S   I  
Sbjct: 16  LEEVCKLQRGKAFSSNKYMNSGSPIIRVRNVQKNQLTTNGLVYFSDTDYEDDLSKY-ILK 74

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
              +     G  +      D      +    L P   + +    +    ++   +++I +
Sbjct: 75  PRDLAVTLTGKAMVFLNTVDDSFYMGSDICRLDPDLEVLDREYLFHFLSNL--NLDSIVK 132

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
              + H D      + + +PPL+ Q  I  K+                  ++ 
Sbjct: 133 YGMIPHLDVGKFKKLEIRVPPLSLQKEIASKLGKIQELRLRKKQHGYYRKQIW 185


>gi|75765536|pdb|1YDX|A Chain A, Crystal Structure Of Type-I Restriction-Modification
           System S Subunit From M. Genitalium
          Length = 406

 Score = 53.3 bits (126), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 27/141 (19%), Positives = 48/141 (34%), Gaps = 4/141 (2%)

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
           K E  N G+K              I           R         +   T   +   P 
Sbjct: 63  KYEYFNGGVKNSGRTDKFNTFKNTISVIVGGSCGYVRLADKNFFCGQSNCTLNLL--DPL 120

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP-IKEQFDITNVINVE 385
            +D  +  + ++S        A G+ ++ +++  D+K L +       EQ  I N ++V 
Sbjct: 121 ELDLKFAYYALKSQQERIEALAFGTTIQ-NIRISDLKELEIPFTSNKNEQHAIANTLSVF 179

Query: 386 TARIDVLVEKIEQSIVLLKER 406
             R++ L   IE +  L  E 
Sbjct: 180 DERLENLASLIEINRKLRDEY 200



 Score = 49.0 bits (115), Expect = 0.002,   Method: Composition-based stats.
 Identities = 46/396 (11%), Positives = 95/396 (23%), Gaps = 41/396 (10%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           +W    I     L  G   E            + +  GKY   +G  + S  +      K
Sbjct: 35  NWTKRTIDSLFDLKKGEXLEKE----------LITPEGKYEYFNGGVKNSGRTDKFNTFK 84

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
             I     G      +         +   +     +  +L   +       +RIEA+  G
Sbjct: 85  NTISVIVGGSCGYVRLADKNFFCGQSNCTLNLLDPLELDLKFAYYALKSQQERIEALAFG 144

Query: 144 ATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
            T+ +     +  + +P      EQ  I   +     R++ L +      +L  E    L
Sbjct: 145 TTIQNIRISDLKELEIPFTSNKNEQHAIANTLSVFDERLENLASLIEINRKLRDEYAHKL 204

Query: 203 --VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
             +          +          +G + +    K   +       K             
Sbjct: 205 FSLDEAFLSHWKLEALQSQXHEITLGEIFNFKSGKYLKSEERLEEGKFPYY--------- 255

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
                      N G   E       +         I              +     T + 
Sbjct: 256 ------GAGIDNTGFVAEPNTEKDTI--------SIISNGYSLGNIRYHEIPWFNGTGSI 301

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVL-VPPIKEQFDIT 379
                +        +    Y    +     S     L  +    + V  V   + Q    
Sbjct: 302 ALEPXNNEIYVPFFYCALKYLQKDIKERXKSDDSPFLSLKLAGEIKVPYVKSFQLQRKAG 361

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            ++ +   ++D      ++ +  L   R + +    
Sbjct: 362 KIVFLLDQKLDQ----YKKELSSLTVIRDTLLKKLF 393


>gi|325913620|ref|ZP_08175983.1| hypothetical protein HMPREF0523_0356 [Lactobacillus iners UPII
           60-B]
 gi|325477078|gb|EGC80227.1| hypothetical protein HMPREF0523_0356 [Lactobacillus iners UPII
           60-B]
          Length = 207

 Score = 53.3 bits (126), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 23/201 (11%), Positives = 55/201 (27%), Gaps = 15/201 (7%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNIL--------SLSYGNIIQKLETRNMGLKPESYE 281
           DH               K     E             +S  ++       +   +  + E
Sbjct: 8   DHRRTCRAEEYFDIAIGKTPPRKEHQWFTTNPSDVTWVSISDMGSCGTYISRSSEQLTQE 67

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY-MAVKPHGIDSTYLAWLMRSY 340
                +   +    + L       R A          A           + YL   +R  
Sbjct: 68  AVDKFNIKVVPSNTVLLSFKLTIGRIAITHGEMTTNEAIAHFKTDKPFINEYLYCYLR-- 125

Query: 341 DLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
           D         S +  ++  + +K +P ++P   E     +  +     +   +   +   
Sbjct: 126 DFNYQTMGSTSSIAIAVNSKIIKAMPFVIPADDE----ISRFHSVVGPMFEQILNNQLEN 181

Query: 401 VLLKERRSSFIAAAVTGQIDL 421
             L + R + +   ++G++D+
Sbjct: 182 DSLADLRDTLLPRLMSGELDV 202



 Score = 39.4 bits (90), Expect = 0.99,   Method: Composition-based stats.
 Identities = 26/189 (13%), Positives = 49/189 (25%), Gaps = 14/189 (7%)

Query: 27  VVPIKRFTKLNTGRTSESGK---------DIIYIGLEDVESGTGKYLPKDGNSRQS--DT 75
               + +  +  G+T    +         D+ ++ + D+ S             Q   D 
Sbjct: 12  TCRAEEYFDIAIGKTPPRKEHQWFTTNPSDVTWVSISDMGSCGTYISRSSEQLTQEAVDK 71

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
             + +     +L        R AI                 K  + E L  +L   +   
Sbjct: 72  FNIKVVPSNTVLLSFKLTIGRIAITHGEMTTNEAIAHFKTDKPFINEYLYCYLRDFNYQT 131

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
                   +     + K I  +P  IP   E       +     +I     E     +L 
Sbjct: 132 MGS---TSSIAIAVNSKIIKAMPFVIPADDEISRFHSVVGPMFEQILNNQLENDSLADLR 188

Query: 196 KEKKQALVS 204
                 L+S
Sbjct: 189 DTLLPRLMS 197


>gi|302024402|ref|ZP_07249613.1| type I restriction enzyme, specificity subunit [Streptococcus suis
           05HAS68]
          Length = 198

 Score = 53.3 bits (126), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 28/172 (16%), Positives = 61/172 (35%), Gaps = 16/172 (9%)

Query: 232 WEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEI 291
           W+ +    +   ++ K    +     S   G I +     ++    E+   Y+ V PG+ 
Sbjct: 20  WKQRKAMEIFKFVSDKGYADLPILSASQELGMIRRDEIGIDIKYDKEAVANYKRVLPGQF 79

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA-WLMRSYDLCKVFYAMG 350
           V      Q        A     G+ + AY  +     +S+     ++ S +  K    + 
Sbjct: 80  VIHLRSFQG-----GFAWSEIEGLTSPAYTILDFKEENSSKFWRNVLTSPNFIKKLETVT 134

Query: 351 SGLR--QSLKFEDVK--RLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
            G+R  +S+ + D       +    + EQ  I +      + +D L+   ++
Sbjct: 135 YGIRDGRSISYSDFSTLNFVIPT--LPEQEAIGSF----FSDLDQLITLHQR 180



 Score = 41.7 bits (96), Expect = 0.22,   Method: Composition-based stats.
 Identities = 19/160 (11%), Positives = 41/160 (25%), Gaps = 7/160 (4%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLE-DVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           WK        K  + +      D+  +    ++       +  D    +   +       
Sbjct: 20  WKQRKAMEIFKFVSDK---GYADLPILSASQELGMIRRDEIGIDIKYDKEAVANYKRVLP 76

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQG--WLLSIDVTQRIEAIC 141
           GQ +   L  +      ++ +G+ S  + +L  K+                + +      
Sbjct: 77  GQFVI-HLRSFQGGFAWSEIEGLTSPAYTILDFKEENSSKFWRNVLTSPNFIKKLETVTY 135

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
                    +     +   IP L EQ  I          I
Sbjct: 136 GIRDGRSISYSDFSTLNFVIPTLPEQEAIGSFFSDLDQLI 175


>gi|258513151|ref|YP_003189407.1| hypothetical protein APA01_42410 [Acetobacter pasteurianus IFO
           3283-01]
 gi|256635054|dbj|BAI01028.1| hypothetical protein [Acetobacter pasteurianus IFO 3283-01]
 gi|256638109|dbj|BAI04076.1| hypothetical protein [Acetobacter pasteurianus IFO 3283-03]
 gi|256641163|dbj|BAI07123.1| hypothetical protein [Acetobacter pasteurianus IFO 3283-07]
 gi|256644218|dbj|BAI10171.1| hypothetical protein [Acetobacter pasteurianus IFO 3283-22]
 gi|256647273|dbj|BAI13219.1| hypothetical protein [Acetobacter pasteurianus IFO 3283-26]
 gi|256650326|dbj|BAI16265.1| hypothetical protein [Acetobacter pasteurianus IFO 3283-32]
 gi|256653317|dbj|BAI19249.1| hypothetical protein [Acetobacter pasteurianus IFO 3283-01-42C]
 gi|256656370|dbj|BAI22295.1| hypothetical protein [Acetobacter pasteurianus IFO 3283-12]
          Length = 198

 Score = 53.3 bits (126), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 23/137 (16%), Positives = 50/137 (36%), Gaps = 16/137 (11%)

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID--STYLAWLMRSYDL 342
            + PG+I+F      +    +  +    + +    +  ++    +    YLAW +     
Sbjct: 66  WLRPGDILFPARGNVSLAVLVNESIGSLQAVAAPHFFLLRVMHPNVLPAYLAWWLNQEPA 125

Query: 343 CKVF--YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
            +     A  S L +++    ++  PV++PP+  Q  I             L   +++  
Sbjct: 126 QRHLEQNAQSSTLVRNIARPVLEATPVILPPLPRQEQIV-----------GLANAMQREE 174

Query: 401 VLLKERRSSFIAAAVTG 417
            LL   R +     +TG
Sbjct: 175 DLLHRLRQT-NQQIMTG 190


>gi|15828555|ref|NP_325915.1| restriction-modification enzyme subunit S3B [Mycoplasma pulmonis
           UAB CTIP]
 gi|14089497|emb|CAC13257.1| RESTRICTION-MODIFICATION ENZYME SUBUNIT S3B [Mycoplasma pulmonis]
          Length = 348

 Score = 53.3 bits (126), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 24/160 (15%), Positives = 59/160 (36%), Gaps = 8/160 (5%)

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
           N + +     +       +            V  G+ +F       D+ +  +  +  + 
Sbjct: 32  NYMDVFKNYYLNDKNELRLYNATNKEIEKFGVSYGDAIFTASSETKDEIAFSTIYLSNKV 91

Query: 315 IITSAYMAVKPHGID---STYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVP 370
            I + +  +  +  +     Y A+L RS +  K      +G  R ++    + ++ + +P
Sbjct: 92  NIVNGFCKIYKYDKNLLMPKYAAYLFRSKEFRKQAIKFTTGYTRFNISIASLNKIEINIP 151

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
            +K Q  I N+       ++VL+E +      L + ++S 
Sbjct: 152 SLKTQSAILNI----FEPLEVLLENVRNVKNKLNKFQNSL 187


>gi|237740354|ref|ZP_04570835.1| type I restriction-modification enzyme [Fusobacterium sp. 2_1_31]
 gi|229422371|gb|EEO37418.1| type I restriction-modification enzyme [Fusobacterium sp. 2_1_31]
          Length = 188

 Score = 52.9 bits (125), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 25/164 (15%), Positives = 47/164 (28%), Gaps = 10/164 (6%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVE--SGTGKYLPKDGNSRQS 73
             WK V +     L  G+T            +  +I + D+           +       
Sbjct: 7   NEWKKVKLGDVFDLQMGKTPLRENKLYWDKGEYHWISISDMNFSEKYISSTKEKITELAV 66

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
             S + I  K  ++       + K  I + D   +   +   PK            S+  
Sbjct: 67  KKSGIKIIPKNTVIMS-FKLSIGKVKIVNEDIYSNEAIMAFIPKTNNFIDENFLYYSLKG 125

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
            +  E I +       +   I    + +P LA Q  I   + + 
Sbjct: 126 VRWNEGINKAVKGLTLNKALISQKEIFLPNLAIQKEIASNLDSI 169



 Score = 49.8 bits (117), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 25/187 (13%), Positives = 61/187 (32%), Gaps = 11/187 (5%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE---S 279
           EW  +                 N+      E + +S+S  N  +K  +       E    
Sbjct: 8   EWKKVKLGDVFDLQMGKTPLRENKLYWDKGEYHWISISDMNFSEKYISSTKEKITELAVK 67

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
               +I+    ++  F       + +         I+  A++    + ID  +L + ++ 
Sbjct: 68  KSGIKIIPKNTVIMSFKLSIGKVKIVNEDIYSNEAIM--AFIPKTNNFIDENFLYYSLKG 125

Query: 340 YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
               +       GL  +L    + +  + +P +  Q +I + ++     I   +    + 
Sbjct: 126 VRWNEGINKAVKGL--TLNKALISQKEIFLPNLAIQKEIASNLDS----IADFLNLRRKQ 179

Query: 400 IVLLKER 406
           +  L+E 
Sbjct: 180 LNYLEEL 186


>gi|12045297|ref|NP_073108.1| type I restriction modification DNA specificity domain-containing
           protein [Mycoplasma genitalium G37]
 gi|255660060|ref|ZP_05405469.1| type I restriction modification DNA specificity domain-containing
           protein [Mycoplasma genitalium G37]
 gi|2496433|sp|Q49434|T1SX_MYCGE RecName: Full=Putative type-1 restriction enzyme specificity
           protein MG438; AltName: Full=S.MgeORF438P; AltName:
           Full=Type I restriction enzyme specificity protein
           MG438; Short=S protein
 gi|3845029|gb|AAC72457.1| type I restriction modification DNA specificity domain protein
           [Mycoplasma genitalium G37]
 gi|166078723|gb|ABY79341.1| type I restriction modification DNA specificity domain protein
           [synthetic Mycoplasma genitalium JCVI-1.0]
          Length = 383

 Score = 52.9 bits (125), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 27/141 (19%), Positives = 48/141 (34%), Gaps = 4/141 (2%)

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
           K E  N G+K              I           R         +   T   +   P 
Sbjct: 40  KYEYFNGGVKNSGRTDKFNTFKNTISVIVGGSCGYVRLADKNFFCGQSNCTLNLL--DPL 97

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP-IKEQFDITNVINVE 385
            +D  +  + ++S        A G+ ++ +++  D+K L +       EQ  I N ++V 
Sbjct: 98  ELDLKFAYYALKSQQERIEALAFGTTIQ-NIRISDLKELEIPFTSNKNEQHAIANTLSVF 156

Query: 386 TARIDVLVEKIEQSIVLLKER 406
             R++ L   IE +  L  E 
Sbjct: 157 DERLENLASLIEINRKLRDEY 177



 Score = 49.0 bits (115), Expect = 0.001,   Method: Composition-based stats.
 Identities = 47/396 (11%), Positives = 96/396 (24%), Gaps = 41/396 (10%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           +W    I     L  G   E            + +  GKY   +G  + S  +      K
Sbjct: 12  NWTKRTIDSLFDLKKGEMLEKE----------LITPEGKYEYFNGGVKNSGRTDKFNTFK 61

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
             I     G      +         +   +     +  +L   +       +RIEA+  G
Sbjct: 62  NTISVIVGGSCGYVRLADKNFFCGQSNCTLNLLDPLELDLKFAYYALKSQQERIEALAFG 121

Query: 144 ATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
            T+ +     +  + +P      EQ  I   +     R++ L +      +L  E    L
Sbjct: 122 TTIQNIRISDLKELEIPFTSNKNEQHAIANTLSVFDERLENLASLIEINRKLRDEYAHKL 181

Query: 203 --VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
             +          +          +G + +    K   +       K             
Sbjct: 182 FSLDEAFLSHWKLEALQSQMHEITLGEIFNFKSGKYLKSEERLEEGKFPYY--------- 232

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
                      N G   E       +         I              +     T + 
Sbjct: 233 ------GAGIDNTGFVAEPNTEKDTI--------SIISNGYSLGNIRYHEIPWFNGTGSI 278

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVL-VPPIKEQFDIT 379
                +        +    Y    +   M S     L  +    + V  V   + Q    
Sbjct: 279 ALEPMNNEIYVPFFYCALKYLQKDIKERMKSDDSPFLSLKLAGEIKVPYVKSFQLQRKAG 338

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            ++ +   ++D      ++ +  L   R + +    
Sbjct: 339 KIVFLLDQKLDQ----YKKELSSLTVIRDTLLKKLF 370


>gi|120401063|ref|YP_950892.1| hypothetical protein Mvan_0035 [Mycobacterium vanbaalenii PYR-1]
 gi|119953881|gb|ABM10886.1| hypothetical protein Mvan_0035 [Mycobacterium vanbaalenii PYR-1]
          Length = 400

 Score = 52.9 bits (125), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 48/421 (11%), Positives = 101/421 (23%), Gaps = 51/421 (12%)

Query: 26  KVVPIKRFTKLNTGRTSES-----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           + V +     +  G                +      +  G +      +   D      
Sbjct: 3   ESVRLGDLISVKHGYAFPGEGFTEDPTYPILVTPGNFAIEGGFKESKPKTFNGDYPPGFE 62

Query: 81  FAKGQILYGKLG------PYLRKAIIADFDGICSTQ---FLVLQPKDVLPELLQGWL-LS 130
            A G ++                A+I         Q    +    +  +  L   +   +
Sbjct: 63  LAPGDLVVSMTDLSRDGATLGMPALIPAGPTYLHNQRIGLIEAIDRSKIDRLFLNYYLRT 122

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
                 I     G+T+ H     I +    +P L EQ  I   + +   +I         
Sbjct: 123 AAYRSHILGTASGSTVRHTSPSRIEDFVALLPGLLEQQAIGAILGSLDDKIGVNRRLANV 182

Query: 191 FIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTK 250
              L  E                      S    +G +             + L   +  
Sbjct: 183 GRLLQSELW--------------HRAATGSRQVSLGSLVRPHLGGTPSRSDSNLWAGDVP 228

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
                 +S + G ++            +S      +    +            +L  A  
Sbjct: 229 WASVRDMSAADGGVLLATAETISSAVSQSVGRLAALPERSVALTARGTVGKVVTLGVASA 288

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP 370
                I  +     P       L   + S        A GS +  ++    ++ + V  P
Sbjct: 289 -----INQSAYGFIPPAGRGVALRCALESISDELKARAHGS-VFSTITMSTLESVRV--P 340

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR------SSFIAAAVTGQIDLRGE 424
            I E               + L    ++ +  L+E R         +   ++G+I ++  
Sbjct: 341 AINE--------TDWDGVCESLELIEDRRLSALRETRVLARTRDELLPLLMSGRIRVKDA 392

Query: 425 S 425
            
Sbjct: 393 E 393


>gi|321310220|ref|YP_004192549.1| type I restriction-modification system, S subunit [Mycoplasma
           haemofelis str. Langford 1]
 gi|319802064|emb|CBY92710.1| type I restriction-modification system, S subunit [Mycoplasma
           haemofelis str. Langford 1]
          Length = 204

 Score = 52.9 bits (125), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 23/150 (15%), Positives = 51/150 (34%), Gaps = 12/150 (8%)

Query: 242 TELNRKNTKLIESNILSLSYGNIIQKLETRNM--GLKPESYETYQIVDPGEIVFRFIDLQ 299
                      +S    L   +I       +      P+++    I+  G++V   +   
Sbjct: 28  CGTVFGRRFYKDSGFPVLKTSDIWNGQIVTDDLSYCDPKNHPNANIIKRGDVVITNVG-- 85

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA-WLMRSYDLCKVFYAMGSGLRQSLK 358
             K ++         I T   +  +   + + YL  +L+ + +        G      L+
Sbjct: 86  --KVAINLTDQEFFFISTIFKLVPRKDVLIAKYLYHFLLENPEEVDRLIREG-----RLR 138

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETAR 388
             D+K L + VP  + Q  I N ++   ++
Sbjct: 139 KSDLKELAIPVPSSEIQARIVNSLDSNFSK 168



 Score = 41.3 bits (95), Expect = 0.27,   Method: Composition-based stats.
 Identities = 17/187 (9%), Positives = 53/187 (28%), Gaps = 15/187 (8%)

Query: 29  PIKRFTKLNT-----GRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            +    ++       GR          +   D+ +G              +    +I  +
Sbjct: 18  KLGEVCRIVLCGTVFGRRFYKDSGFPVLKTSDIWNGQI-VTDDLSYCDPKNHPNANIIKR 76

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
           G ++   +G       + D +    +    L P+  +      +   ++  + ++ +   
Sbjct: 77  GDVVITNVGKV--AINLTDQEFFFISTIFKLVPRKDVLIAKYLYHFLLENPEEVDRLIRE 134

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR----IDTLITERIRFIELLKEKK 199
                     +  + +P+P    Q  I   + +   +        IT      E +  + 
Sbjct: 135 G---RLRKSDLKELAIPVPSSEIQARIVNSLDSNFSKTTRVHSEEITNDTSLQETVVLEH 191

Query: 200 QALVSYI 206
           ++    +
Sbjct: 192 KSFWQRL 198


>gi|325973249|ref|YP_004250313.1| type I restriction-modification system specificity subunit
           [Mycoplasma suis str. Illinois]
 gi|323651851|gb|ADX97933.1| type I restriction-modification system specificity subunit
           [Mycoplasma suis str. Illinois]
          Length = 190

 Score = 52.9 bits (125), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 23/197 (11%), Positives = 57/197 (28%), Gaps = 16/197 (8%)

Query: 226 GLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI 285
           G +P+ W+      +   L         + +             T              +
Sbjct: 8   GELPEGWKRVKIGEISKILKGTKPANHANLLGGGGKYPFFTSSFTTKRSYTFSYDSFSLL 67

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV 345
           V  G   F                  +       Y+       ++  +   + +  L K+
Sbjct: 68  VSEGGSTFH-----------AKIYKGKFEASNHTYVIDLEEKENTYLVLEFLNNIHLPKL 116

Query: 346 FYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLK 404
            +   +    ++L  + +K + +L+P       I    N     I   +EK+E  +   +
Sbjct: 117 NWFTCATTFLKNLSPQKLKEIEILIPD----QKILEKFNNFWKNIHSKIEKLELKMQKYE 172

Query: 405 ERRSSFIAAAVTGQIDL 421
           E +   + +  + +I +
Sbjct: 173 EIKKKLLNSLFSQEIQV 189



 Score = 45.6 bits (106), Expect = 0.018,   Method: Composition-based stats.
 Identities = 31/193 (16%), Positives = 71/193 (36%), Gaps = 13/193 (6%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           G +P+ WK V I   +K+  G    +  +++         G G   P   +S  +  S  
Sbjct: 8   GELPEGWKRVKIGEISKILKGTKPANHANLL---------GGGGKYPFFTSSFTTKRSYT 58

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
             +    +L  + G      I        +  +++   +     L+  +L +I + +   
Sbjct: 59  FSYDSFSLLVSEGGSTFHAKIYKGKFEASNHTYVIDLEEKENTYLVLEFLNNIHLPKLNW 118

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
             C    + +   + +  I + IP       I EK       I + I +    ++  +E 
Sbjct: 119 FTCATTFLKNLSPQKLKEIEILIPD----QKILEKFNNFWKNIHSKIEKLELKMQKYEEI 174

Query: 199 KQALVSYIVTKGL 211
           K+ L++ + ++ +
Sbjct: 175 KKKLLNSLFSQEI 187


>gi|207092148|ref|ZP_03239935.1| type I restriction-modification system specificity subunit
           [Helicobacter pylori HPKX_438_AG0C1]
          Length = 116

 Score = 52.9 bits (125), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 9/105 (8%), Positives = 29/105 (27%), Gaps = 9/105 (8%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSES---------GKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           P +W+ V +    ++  G +              ++ ++ + D+   +           +
Sbjct: 11  PLNWQRVRLGDIAEIKRGASPRPIENPKWFCANSNVGWVRISDISKNSRFLYKTAQKLSK 70

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPK 117
                  +  +  ++        +  I      I     +   PK
Sbjct: 71  KGIEKSRLVKQNSLIMSMCTTIGKPIITKIDTCIHDGFVVFENPK 115


>gi|332075505|gb|EGI85973.1| type I restriction modification DNA specificity domain protein
           [Streptococcus pneumoniae GA17545]
          Length = 244

 Score = 52.9 bits (125), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 36/253 (14%), Positives = 72/253 (28%), Gaps = 35/253 (13%)

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           Q +     GAT+ H +   + ++ + +  + EQ  I   +      I     +      L
Sbjct: 6   QYLRDHSTGATIPHLNKNILLDLQLELLGIEEQENIICILNTIKRLITKRKFQLDELNLL 65

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
           +                      K    E  G V  + +          L  +N K  + 
Sbjct: 66  V----------------------KSRFNEMFGDVILNEKEWKVSKWNEILTIRNGKNQKQ 103

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
              +     I               Y    IV    ++       N    +R        
Sbjct: 104 VEDADGKFPIYGSGGI-------MGYAKDWIVKKNSVIIGRKGNINKPILVRENFWNVDT 156

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKE 374
                 +      I+S YL +  + Y+  K+  A+      SL   D+  + + +PP+  
Sbjct: 157 AFG---LEPVLEKINSEYLFYFCQLYNFEKLNKAV---TIPSLTKSDLLNISIPLPPLAL 210

Query: 375 QFDITNVINVETA 387
           Q +  + + +   
Sbjct: 211 QNEFADFVALVDK 223



 Score = 49.0 bits (115), Expect = 0.001,   Method: Composition-based stats.
 Identities = 27/151 (17%), Positives = 52/151 (34%), Gaps = 15/151 (9%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           K WKV        +  G+  +            VE   GK+ P  G+      +   I  
Sbjct: 82  KEWKVSKWNEILTIRNGKNQKQ-----------VEDADGKF-PIYGSGGIMGYAKDWIVK 129

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           K  ++ G+ G   +  ++ +      T F +    + +      +   +      E + +
Sbjct: 130 KNSVIIGRKGNINKPILVRENFWNVDTAFGLEPVLEKINSEYLFYFCQLY---NFEKLNK 186

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
             T+       + NI +P+PPLA Q    + 
Sbjct: 187 AVTIPSLTKSDLLNISIPLPPLALQNEFADF 217


>gi|19881313|gb|AAM00903.1|AF486570_4 5' truncated HsdS [Campylobacter jejuni subsp. jejuni ATCC 33560]
          Length = 186

 Score = 52.9 bits (125), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 21/181 (11%), Positives = 46/181 (25%), Gaps = 4/181 (2%)

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRF 295
               +       N    E   +++  G+I      +            Q +     +   
Sbjct: 1   MLGEICERQKGINITAGEMEKIAIQNGDIRIFAGGKTFIDTKMELLQEQNILKKTSIIVK 60

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ 355
                D          +  + + +               +L    +  +      +    
Sbjct: 61  SRGYVDFEYYAKPFTHKNELWSYSLNPDTKDINLKFIFYYLKNKVEYFQKIARANAVKIP 120

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFI 411
            L   D  R  + +PP+  Q  I N+++   A    L   I   I   K+     R+  +
Sbjct: 121 QLAVADTDRFQIPIPPLATQEKIVNILDQFHALTTDLQSGIPAEIEARKKQYEYYRNQLL 180

Query: 412 A 412
            
Sbjct: 181 T 181


>gi|329575568|gb|EGG57105.1| hypothetical protein HMPREF9520_01722 [Enterococcus faecalis
           TX1467]
          Length = 177

 Score = 52.9 bits (125), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 18/160 (11%), Positives = 48/160 (30%), Gaps = 13/160 (8%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDII------YIGLEDVESGTGKYLPKDGNSRQSDTS 76
           + W++   +R  +     +     +        YI   D+ +     + ++ N       
Sbjct: 18  EDWELCKFERIFEKVKSYSLSREVETNEFTGMKYIHYGDIHTKKADKVSENSNIPNIIKK 77

Query: 77  TVSIFAKGQILYGKLGPYLRKAI-------IADFDGICSTQFLVLQPKDVLPELLQGWLL 129
             ++   G ++        +             FD +     + L+PK++ P  L   + 
Sbjct: 78  NFALLEIGDLILTDASEDYKGIATPAVIRENTSFDIVAGLHTIALRPKNIDPMFLYYLIK 137

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVL 169
           +    +    +  G  +       + +    IP   +Q  
Sbjct: 138 APTFRKYGYKVGTGMKVFGISSSKVLDFTTYIPKKMKQNW 177



 Score = 42.9 bits (99), Expect = 0.097,   Method: Composition-based stats.
 Identities = 20/168 (11%), Positives = 54/168 (32%), Gaps = 4/168 (2%)

Query: 213 PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
           P ++ +    +W     +    K     ++     N       I             + N
Sbjct: 9   PRLRFRGFQEDWELCKFERIFEKVKSYSLSREVETNEFTGMKYIHYGDIHTKKADKVSEN 68

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQNDKRS---LRSAQVMERGIITSAYMAVKPHGID 329
             +     + + +++ G+++           +   +         +     +A++P  ID
Sbjct: 69  SNIPNIIKKNFALLEIGDLILTDASEDYKGIATPAVIRENTSFDIVAGLHTIALRPKNID 128

Query: 330 STYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQF 376
             +L +L+++    K  Y +G+G+    +    V      +P   +Q 
Sbjct: 129 PMFLYYLIKAPTFRKYGYKVGTGMKVFGISSSKVLDFTTYIPKKMKQN 176


>gi|300727863|ref|ZP_07061242.1| restriction modification system DNA specificity domain protein
           [Prevotella bryantii B14]
 gi|299774847|gb|EFI71460.1| restriction modification system DNA specificity domain protein
           [Prevotella bryantii B14]
          Length = 351

 Score = 52.9 bits (125), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 38/343 (11%), Positives = 85/343 (24%), Gaps = 50/343 (14%)

Query: 59  GTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKA----IIADFDGICSTQFLVL 114
             G+  P  G +   D     I  +  +   +     +       I +     +    ++
Sbjct: 34  KEGELYPYYGATGVVDYINDYITDEELLCIAEDCGNYKAGEDSSYIINGKAWVNNHAHLV 93

Query: 115 QPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKI 174
           + K+        +L        +     G T      K +  IP+ +P +  Q       
Sbjct: 94  KAKEC---CEIKYLHQYLKITDLMPYVSGTTRLKLTQKKMKEIPVLLPSIELQNKFVSIA 150

Query: 175 IAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVP----D 230
                                      L+S                 IE  G  P     
Sbjct: 151 EQADK-----------------SGFDGLISQF---------------IEMFGQSPLINDM 178

Query: 231 HWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGE 290
           +               +    I    +      I+ + +    G+  + Y+ Y  +   +
Sbjct: 179 NECFSVIRNGANIKQGQIEGGIPITRIETISEEIVDRAKMGYAGIIDDKYKPYY-LQNND 237

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGII----TSAYMAVKPHGIDSTYLAWLMRSYDLCKVF 346
           I+   I+                  I        +  K   ++  +   ++RS  +    
Sbjct: 238 ILISHINSLKHIGKCALYSQTGNETIIHGMNLLCLRPKCEIMNPVFAIHMLRSNIIKNEI 297

Query: 347 YAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
             +      + S   +D  R+  ++P + EQ     +      
Sbjct: 298 ANITKPAVNQASFSVKDFGRIKAILPNMDEQKKFVRIAEQTDK 340



 Score = 48.3 bits (113), Expect = 0.002,   Method: Composition-based stats.
 Identities = 18/118 (15%), Positives = 38/118 (32%), Gaps = 3/118 (2%)

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
            Y    I D   +               S  +  +  + +    VK        + +L +
Sbjct: 49  DYINDYITDEELLCIAEDCGNYKAGEDSSYIINGKAWVNNHAHLVKAKEC--CEIKYLHQ 106

Query: 339 SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR-IDVLVEK 395
              +  +   +    R  L  + +K +PVL+P I+ Q    ++         D L+ +
Sbjct: 107 YLKITDLMPYVSGTTRLKLTQKKMKEIPVLLPSIELQNKFVSIAEQADKSGFDGLISQ 164


>gi|270668225|ref|ZP_06222510.1| type I restriction/modification enzyme [Haemophilus influenzae
           HK1212]
 gi|270316717|gb|EFA28495.1| type I restriction/modification enzyme [Haemophilus influenzae
           HK1212]
          Length = 263

 Score = 52.9 bits (125), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 22/159 (13%), Positives = 51/159 (32%), Gaps = 5/159 (3%)

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
           N    E   +        Q++   + G K  S       +   +    I          +
Sbjct: 93  NDPNTEKRKILQILEQQYQQVRCTSEGEKLGSESFCHQEEYRLLNEITISASGANAGFVN 152

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
               E+   +        + + + ++   ++S     +F       +  +  +D+KRLP+
Sbjct: 153 FW-TEKIFASDCTTVRADNYVGTKFIFTYLQSIQ-ENIFDLARGAAQPHVYPDDIKRLPI 210

Query: 368 LVPPIKEQFDITN---VINVETARIDVLVEKIEQSIVLL 403
              P+  Q  +      I+ E  R  + +E+    I  +
Sbjct: 211 PKVPLDIQQKVVEECQKIDDEFNRTRMQIEEYRAKIAKI 249


>gi|126668196|ref|ZP_01739157.1| specificity determinant for hsdM and hsdR [Marinobacter sp. ELB17]
 gi|126627345|gb|EAZ97981.1| specificity determinant for hsdM and hsdR [Marinobacter sp. ELB17]
          Length = 132

 Score = 52.9 bits (125), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 10/65 (15%), Positives = 26/65 (40%)

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           +  L    ++   +  P    Q +I   ++   A  D + +++  ++  +     S +A 
Sbjct: 22  QPYLNTSLLEEFHIHAPSKGAQTEIIRRVDQLFAYADTIEKQVNNALARVNSLTQSILAK 81

Query: 414 AVTGQ 418
           A  G+
Sbjct: 82  AFRGE 86


>gi|313157425|gb|EFR56847.1| hypothetical protein HMPREF9720_1028 [Alistipes sp. HGB5]
          Length = 188

 Score = 52.9 bits (125), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 23/172 (13%), Positives = 60/172 (34%), Gaps = 12/172 (6%)

Query: 247 KNTKLIESNILSLSYGNIIQKLE-TRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
           KN    ++  L ++  + +  +  T        S     ++   +++      +N     
Sbjct: 17  KNAPSPDTCYLQVNDFDEVGNIRPTVRPTTTVSSKAARHLLTESDLLLAAKGGKNF--CA 74

Query: 306 RSAQVMERGIITSAYMAVK---PHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFED 361
            +   +   + + +++ ++   P  I   YL   +      ++  A   G    SL   D
Sbjct: 75  IAPTQLGPCVASPSFLIIRIDDPARILPEYLCGFLNLPSTRQLLTAQAQGSAITSLSKAD 134

Query: 362 VKRLPVLVPPIKEQFD-IT-NVINVETARIDVLVEKIEQSI---VLLKERRS 408
           ++   V +PP++ Q   I    ++     +   + +  + I    L K  + 
Sbjct: 135 LEEFDVPLPPLERQRACIALTRLHRREQALYKAIAERRRQITDCKLTKIYKD 186



 Score = 38.2 bits (87), Expect = 2.5,   Method: Composition-based stats.
 Identities = 37/177 (20%), Positives = 64/177 (36%), Gaps = 9/177 (5%)

Query: 28  VPIKRFTKLNTGRTSES--GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           V +K    + TG   ++    D  Y+ + D +            +  S  +   +  +  
Sbjct: 2   VKLKDIATIQTGVYLKNAPSPDTCYLQVNDFDEVGNIRPTVRPTTTVSSKAARHLLTESD 61

Query: 86  ILYGKLGPYLRKAIIADFDGIC--STQFLVLQ---PKDVLPELLQGWLLSIDVTQRIEAI 140
           +L    G     AI     G C  S  FL+++   P  +LPE L G+L      Q + A 
Sbjct: 62  LLLAAKGGKNFCAIAPTQLGPCVASPSFLIIRIDDPARILPEYLCGFLNLPSTRQLLTAQ 121

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREK--IIAETVRIDTLITERIRFIELL 195
            +G+ ++      +    +P+PPL  Q        +      +   I ER R I   
Sbjct: 122 AQGSAITSLSKADLEEFDVPLPPLERQRACIALTRLHRREQALYKAIAERRRQITDC 178


>gi|227511530|ref|ZP_03941579.1| possible type I site-specific deoxyribonuclease specificity subunit
           [Lactobacillus buchneri ATCC 11577]
 gi|227085175|gb|EEI20487.1| possible type I site-specific deoxyribonuclease specificity subunit
           [Lactobacillus buchneri ATCC 11577]
          Length = 177

 Score = 52.9 bits (125), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 25/143 (17%), Positives = 54/143 (37%), Gaps = 12/143 (8%)

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
              I+             +   Y++V   +I +  + +      + +    E GI++ AY
Sbjct: 25  NSGIVDANVLNRKDNSNSNKSNYKVVHANDIAYNSMRMWQGASGVSN----ELGIVSPAY 80

Query: 321 MAVKPHGI-DSTYLAWLMRSYDLCKVFYAMGSGLR---QSLKFEDVKRLPVLVPPIKEQF 376
             +KP    D  +  +L +   + + F     GL     +LK++ +K + V +P   EQ 
Sbjct: 81  TVLKPRVGLDVRFWGYLFKLTKMLQEFQKNSQGLTSDTWNLKYKQIKSIEVTMPSKNEQN 140

Query: 377 DITNVINVETARIDVLVEKIEQS 399
            I    +    ++D  +    + 
Sbjct: 141 AI----SQLLQKLDFSIAANLRQ 159



 Score = 49.4 bits (116), Expect = 0.001,   Method: Composition-based stats.
 Identities = 27/155 (17%), Positives = 60/155 (38%), Gaps = 7/155 (4%)

Query: 31  KRFTKLNTGRTSESGKDIIYIGLEDVESGTGK-YLPKDGNSRQSDTSTVSIFAKGQILYG 89
               +      +  G+ +  + +  + SG     +    ++  S+ S   +     I Y 
Sbjct: 2   GEIFEERKE--NPKGQTLKMLSVT-INSGIVDANVLNRKDNSNSNKSNYKVVHANDIAYN 58

Query: 90  KLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI-DVTQRIEAICEGAT--M 146
            +  +   + +++  GI S  + VL+P+  L     G+L  +  + Q  +   +G T   
Sbjct: 59  SMRMWQGASGVSNELGIVSPAYTVLKPRVGLDVRFWGYLFKLTKMLQEFQKNSQGLTSDT 118

Query: 147 SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
            +  +K I +I + +P   EQ  I + +      I
Sbjct: 119 WNLKYKQIKSIEVTMPSKNEQNAISQLLQKLDFSI 153


>gi|169825070|ref|YP_001692681.1| type I restriction-modification system specificity subunit
           [Finegoldia magna ATCC 29328]
 gi|167831875|dbj|BAG08791.1| type I restriction-modification system specificity subunit
           [Finegoldia magna ATCC 29328]
          Length = 254

 Score = 52.9 bits (125), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 29/189 (15%), Positives = 68/189 (35%), Gaps = 20/189 (10%)

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
             ++       +    +  K +     + P++Y    I+ PG++V         + + R 
Sbjct: 70  TEQVYCMRGADIPEIKVGNKGKMPTRYILPKNYAKK-ILTPGDVVVEISGGSPTQSTGRV 128

Query: 308 AQV--------MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF--YAMGSGLRQSL 357
           A V         +  + T+   A+KP    S +L +  +      VF  Y  G+   ++L
Sbjct: 129 AAVSQSLLDRYDQEMVCTNFCRAMKPKNGYSMFLYFYWQYLYDLNVFFLYENGTTGIKNL 188

Query: 358 KFEDVKRL-PVLVPPIKEQFDITNVINVETARI--DVLVEKIEQSIVLLKERRSSFIAAA 414
             +       + +P   +  +  ++ +    +I  + L          L   R S +   
Sbjct: 189 DLKGFLSTEKIRIPSFDDACEFEDICHKYFDKIFYNGLEN------EKLSSLRDSLLPQL 242

Query: 415 VTGQIDLRG 423
           ++G++D+  
Sbjct: 243 MSGELDVSD 251


>gi|320527412|ref|ZP_08028594.1| conserved domain protein [Solobacterium moorei F0204]
 gi|320132269|gb|EFW24817.1| conserved domain protein [Solobacterium moorei F0204]
          Length = 213

 Score = 52.9 bits (125), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 33/208 (15%), Positives = 80/208 (38%), Gaps = 8/208 (3%)

Query: 211 LNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLET 270
           ++  V  K      +       E      ++ + N K T   E  +LS +   +  + + 
Sbjct: 10  IDDLVLQKKYITNSLLESIQDNEKIMLKDVLFDYNVKTTVNNEYPVLSSTASGMYLQSDY 69

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH--GI 328
            N     ++   Y+IV  G   +R +       +    +++E+GI++ AY     +   I
Sbjct: 70  FNKETSSDNTIGYKIVPRGYCTYRSMSDTG-LFTFNMQKLVEKGIVSPAYPVFSSNDDYI 128

Query: 329 DSTYLAWLMRSYDLCKVF-YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           +   + +L  S  + K    +   G R +L F  +  L +  P ++++  + ++      
Sbjct: 129 NEFIILYLNNSSYIKKQILESKSGGTRFALPFSALCTLKI--PKLEKEKQLASI--KTVT 184

Query: 388 RIDVLVEKIEQSIVLLKERRSSFIAAAV 415
             +  +E  E  +  L ++++  +    
Sbjct: 185 AFERKIENEEIILDKLHQQKNYLLNNVF 212


>gi|315225323|ref|ZP_07867137.1| type I restriction-modification system [Capnocytophaga ochracea
           F0287]
 gi|314944596|gb|EFS96631.1| type I restriction-modification system [Capnocytophaga ochracea
           F0287]
          Length = 172

 Score = 52.9 bits (125), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 25/169 (14%), Positives = 48/169 (28%), Gaps = 7/169 (4%)

Query: 225 VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ 284
           +G              +     ++   I     ++     + +        K  S     
Sbjct: 4   LGEYKKGPFGSSLTKSMFVPFSQSAIKIYEQKNAIKKDYSLGEYYISKEKFKDMS---AF 60

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM-AVKPHGIDSTYLAWLMRSYDLC 343
            V P +I+        +   L     +  GII  A M         S +         + 
Sbjct: 61  QVLPSDIIVSCAGTIGETYILPKEAPI--GIINQALMKVALFEYKISEFWRTFFEYILVK 118

Query: 344 KVFYAMGSGLRQSLK-FEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
                      +++  FE +K++   +PP+KEQ  I   I      I+ 
Sbjct: 119 DSTMKGAGSAIKNIPPFEYLKKILTPLPPLKEQQRIVEKIEELIPHIEH 167


>gi|186683508|ref|YP_001866704.1| hypothetical protein Npun_R3328 [Nostoc punctiforme PCC 73102]
 gi|186465960|gb|ACC81761.1| hypothetical protein Npun_R3328 [Nostoc punctiforme PCC 73102]
          Length = 260

 Score = 52.9 bits (125), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 14/117 (11%), Positives = 41/117 (35%), Gaps = 1/117 (0%)

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
            ++V+  +++           ++       +   T   +      ++  YL + +R    
Sbjct: 91  RKVVNAYDLIISTCRPTRGAIAVIPEIYHNQICSTGFSVIRPKKEVNPFYLHFAIRLAST 150

Query: 343 CKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
            + F    +G    ++   DV +  + +P  + Q  I + +     +    +EK  +
Sbjct: 151 LEQFRKFSTGSSYPAILDSDVNKTLIPLPDKETQDLIASHVLKGLNQRQEAIEKANK 207


>gi|288926001|ref|ZP_06419930.1| hypothetical protein HMPREF0649_01441 [Prevotella buccae D17]
 gi|288337221|gb|EFC75578.1| hypothetical protein HMPREF0649_01441 [Prevotella buccae D17]
          Length = 459

 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 24/142 (16%), Positives = 50/142 (35%), Gaps = 4/142 (2%)

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
           + +  K  +   Y  V  G I+        +     S    +        +    + I +
Sbjct: 73  KYLSHKQSNELNYLKVKKGWILVTCSGTLGNVTYTNSDYEDKIVTHDLIRIVPNDNKIKA 132

Query: 331 TYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
             L   + S             G+ + +    +K + + V P   Q    +V+  E+AR+
Sbjct: 133 GVLYAFLSSKYGYYQINQSQFGGVVKHINDTQMKDIMIPVFPSDLQDK-VDVLIKESARL 191

Query: 390 -DVLVEKIEQSIVLLKERRSSF 410
            +   E + +S  LLK+ ++S 
Sbjct: 192 REEATELLNESRKLLKQ-KASL 212



 Score = 50.9 bits (120), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 58/395 (14%), Positives = 114/395 (28%), Gaps = 47/395 (11%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           + V +           S+    + Y+   D      +   K  + +QS+        KG 
Sbjct: 36  EKVFLGNIFS--RVFVSKPEYGLTYLAASDTVLEDLQ-TGKYLSHKQSNELNYLKVKKGW 92

Query: 86  ILYGKLGPYLRKAI----IADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
           IL    G             D         +V     +   +L  +L S     +I    
Sbjct: 93  ILVTCSGTLGNVTYTNSDYEDKIVTHDLIRIVPNDNKIKAGVLYAFLSSKYGYYQINQSQ 152

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            G  + H +   + +I +P+ P   Q    + +I E+ R+    TE +     L ++K +
Sbjct: 153 FGGVVKHINDTQMKDIMIPVFPSDLQ-DKVDVLIKESARLREEATELLNESRKLLKQKAS 211

Query: 202 LVSYIVTKGLNPDVKMKDSGIE-----------------WVGLVPDHWEVKPFFALVTEL 244
           L    V              I                         +  +       T  
Sbjct: 212 LPDLTVEDYNYFGPNYHQREISCFTRSIKDLGTLSFHAFNYSERVRNNILGRLSNCKTIS 271

Query: 245 NRK---------------NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG 289
                             N       I+ ++  +I  K+       K   Y    ++  G
Sbjct: 272 FYDALDENKLQSPSGVTVNEVKEGHGIMLINQSDIFDKIVKGKYVAKKPKYTK-DLLKEG 330

Query: 290 EIVFRFIDLQN----DKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW-LMRSYDLCK 344
           EI+   I          R +   + ++  +I+SA+   +P     T   +  M S    +
Sbjct: 331 EILIAKIGTLGESESFCRCVYVGEELKNQLISSAFYRFRPSEDIPTGYLYAWMSSDYGFR 390

Query: 345 VFYAMGSGLRQ-SLKFEDVKRLPVLVPPIKEQFDI 378
           +  +   G +Q       + + PV +   ++   I
Sbjct: 391 LIRSSQYGTKQCYPNPAFLYKYPVPILDKEDMEKI 425


>gi|291529886|emb|CBK95471.1| Restriction endonuclease S subunits [Eubacterium siraeum 70/3]
          Length = 381

 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 20/146 (13%), Positives = 53/146 (36%), Gaps = 9/146 (6%)

Query: 266 QKLETRNMGLKPESYETYQIVDPGEI-VFRFIDLQNDKRSLRSAQVMERGIITSAYMAV- 323
           ++            +  Y++V  G+         + DK  +   +  + G++++ Y    
Sbjct: 49  KQFIPSIANTVGTDFTKYKVVRKGQFTYIPDTSRRGDKIGIALLEDYDEGLVSNVYTVFE 108

Query: 324 --KPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITN 380
               + +   YL       +  +       G +R+ + ++++ ++ + VP I++Q  I  
Sbjct: 109 VIDENQLMPEYLMLWFSRPEFDRYARFKSHGSVREVMDWDEMCKVELPVPSIEKQRSIVK 168

Query: 381 VINVETARIDVLVEKIEQSIVLLKER 406
                T R    +   ++    L E 
Sbjct: 169 SYKAITDR----IALKKRINDNLAEY 190



 Score = 48.3 bits (113), Expect = 0.002,   Method: Composition-based stats.
 Identities = 54/390 (13%), Positives = 115/390 (29%), Gaps = 53/390 (13%)

Query: 30  IKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY- 88
           +  F +    R +E  ++ +        S   +++P   N+  +D +   +  KGQ  Y 
Sbjct: 23  LGEFIRQVDVRNTEGKEENLL-----GVSVQKQFIPSIANTVGTDFTKYKVVRKGQFTYI 77

Query: 89  ---GKLGPYLRKAIIADFD-GICSTQFLVLQPKDVL---PELLQGWLLSIDVTQRIEAIC 141
               + G  +  A++ D+D G+ S  + V +  D     PE L  W    +  +      
Sbjct: 78  PDTSRRGDKIGIALLEDYDEGLVSNVYTVFEVIDENQLMPEYLMLWFSRPEFDRYARFKS 137

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            G+     DW  +  + +P+P + +Q  I +        I   I  + R  + L E    
Sbjct: 138 HGSVREVMDWDEMCKVELPVPSIEKQRSIVK----SYKAITDRIALKKRINDNLAEYLNC 193

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
           +   +                          E     A+   +  K         + +S 
Sbjct: 194 IFIELAKSI---------------------QETTSLSAICGYVTDKLAFSDIETAVYIST 232

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
            NI+   +  +      + E        +++   I     K         E G       
Sbjct: 233 ENILPDKQGVSSFGSTSASERVVHFREEDVLVSNIRPYFKK---MWFATTEGGCNADVLC 289

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITN 380
                   S  L  ++          +   G          + +  +             
Sbjct: 290 FRASDKKYSYLLKSILFQDGFFDYVMSGAKGTKMPRGDKNHIMQYQIPC----------- 338

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSF 410
             + +  + + L   +EQ+  L ++  +S 
Sbjct: 339 FSDQQLQKFNALASSVEQNQALNRQEMASL 368


>gi|282881821|ref|ZP_06290475.1| type I restriction-modification system specificity subunit
           [Peptoniphilus lacrimalis 315-B]
 gi|281298334|gb|EFA90776.1| type I restriction-modification system specificity subunit
           [Peptoniphilus lacrimalis 315-B]
          Length = 228

 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 25/158 (15%), Positives = 60/158 (37%), Gaps = 15/158 (9%)

Query: 275 LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME--------RGIITSAYMAVKPH 326
                    + ++ G+IV         + + R A + +          + T+   A+KP 
Sbjct: 70  YILSKNLANKKLEAGDIVVEISGGSPTQSTGRCAAITQSLLDRYDSNMLCTNFCKAIKPR 129

Query: 327 GIDSTYLAWLMRSYDLCKVFYA--MGSGLRQSLKFE-DVKRLPVLVPPIKEQFDITNVIN 383
              S ++ +  +      VF++   G+   ++L F   ++  P+ +PPI +      V +
Sbjct: 130 TGYSLFIYYYWQYLYEKGVFFSYENGTTGIKNLDFSGFIETEPIFIPPIDK----VRVFD 185

Query: 384 VETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
                I   V    +    +   R + +   ++G++D+
Sbjct: 186 DYCKSIFNQVFANGKQSEQIALLRETLLPKLMSGELDV 223


>gi|239998599|ref|ZP_04718523.1| Type I restriction enzyme EcoprrI specificity protein [Neisseria
           gonorrhoeae 35/02]
          Length = 149

 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/126 (13%), Positives = 44/126 (34%), Gaps = 6/126 (4%)

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP--HGIDSTYLAWLMRSYDLC 343
           V   +I      +   +  +      +     +   +       I   Y+ + +++ +  
Sbjct: 9   VPDKDIHREPSIIVKSRGIIEFEYYDKPFSHKNEMWSYHSVNKHIYIKYVYYFLKTQE-- 66

Query: 344 KVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
             F  +GS ++   +   D     + +P ++ Q  I  +++  T     L   +E  + L
Sbjct: 67  NYFRNIGSKMQMPQIATPDTDNYKIPIPSLETQQKIVKILDKFTELEATLEATLEAELAL 126

Query: 403 LK-ERR 407
            K + R
Sbjct: 127 RKRQYR 132


>gi|160884786|ref|ZP_02065789.1| hypothetical protein BACOVA_02776 [Bacteroides ovatus ATCC 8483]
 gi|156109821|gb|EDO11566.1| hypothetical protein BACOVA_02776 [Bacteroides ovatus ATCC 8483]
          Length = 241

 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/143 (10%), Positives = 42/143 (29%), Gaps = 9/143 (6%)

Query: 274 GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL 333
            +          +  G+++F      N       A+       +   +      +   +L
Sbjct: 102 TVINTGINDKHWLKKGDLLFAAKGGSNYCILYEGAERSTIASSSFIIIRPITSDVLPEFL 161

Query: 334 AWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
              + +  +  +  +   G   Q +    +  + + +P I+ Q  +          +D L
Sbjct: 162 CCFLNTPSILGMLKSAAVGTGIQVIPQSVIGEIQLDIPSIEVQKLVVE--------MDQL 213

Query: 393 VEKIEQSIVLLKERRSSFIAAAV 415
             + E     + E + S     +
Sbjct: 214 RRESECIRSEINELKQSLQDQLL 236



 Score = 45.6 bits (106), Expect = 0.015,   Method: Composition-based stats.
 Identities = 36/169 (21%), Positives = 73/169 (43%), Gaps = 8/169 (4%)

Query: 26  KVVPIKRFTKLNTGR--TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           K V +K  T + +G    ++S  ++ Y+ ++DV+  +     +      +  +      K
Sbjct: 57  KKVTLKDITMMQSGIYMKTDSQGEVRYLQVKDVDPESRLDYTQVATVINTGINDKHWLKK 116

Query: 84  GQILYGKLGPYLRKAIIA--DFDGICSTQFLVLQP--KDVLPELLQGWLLSIDVTQRIEA 139
           G +L+   G      +    +   I S+ F++++P   DVLPE L  +L +  +   +++
Sbjct: 117 GDLLFAAKGGSNYCILYEGAERSTIASSSFIIIRPITSDVLPEFLCCFLNTPSILGMLKS 176

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK--IIAETVRIDTLIT 186
              G  +       IG I + IP +  Q L+ E   +  E+  I + I 
Sbjct: 177 AAVGTGIQVIPQSVIGEIQLDIPSIEVQKLVVEMDQLRRESECIRSEIN 225


>gi|294782727|ref|ZP_06748053.1| type I site-specific deoxyribonuclease chain S [Fusobacterium sp.
           1_1_41FAA]
 gi|294481368|gb|EFG29143.1| type I site-specific deoxyribonuclease chain S [Fusobacterium sp.
           1_1_41FAA]
          Length = 192

 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 21/143 (14%), Positives = 55/143 (38%), Gaps = 7/143 (4%)

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFR----FIDLQNDKRSLRSAQVMERGIITS-AYMA 322
              + +      +    I++  +++       I L  +   +   + +   +      + 
Sbjct: 45  FNEKKLTYYNGEFPNEYILNEDDLIIPLTEQVIGLFGNTAFIPKVKGISFLLNQRVGKII 104

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNV 381
              +  ++ YL +L+ +  + K      SG  ++++   DV  + V +  +KEQ  I  +
Sbjct: 105 PIKNRANNYYLHYLLATDLVRKQLEHRASGTKQRNISPNDVYDVTVFICDVKEQKKIGEL 164

Query: 382 INVETARIDVLVEKIEQSIVLLK 404
           +     +I+ L  KI  ++  L 
Sbjct: 165 LYNMERKIN-LNNKINDNLDYLN 186



 Score = 44.8 bits (104), Expect = 0.025,   Method: Composition-based stats.
 Identities = 24/191 (12%), Positives = 58/191 (30%), Gaps = 15/191 (7%)

Query: 26  KVVPIKRFTKLNTG-----RTSESGKDIIYIGLEDVES-GTGKYLPKDGNSRQSDTSTVS 79
             + +    K+  G     +   +  +   + L ++ S    ++  K       +     
Sbjct: 2   NKIKLGEILKVKHGFAFKSQNYVNKSEFALVTLANISSTNNFQFNEKKLTYYNGEFPNEY 61

Query: 80  IFAKGQILYGK----LGPYLRKAIIADFDGI---CSTQF--LVLQPKDVLPELLQGWLLS 130
           I  +  ++       +G +   A I    GI    + +   ++          L   L +
Sbjct: 62  ILNEDDLIIPLTEQVIGLFGNTAFIPKVKGISFLLNQRVGKIIPIKNRANNYYLHYLLAT 121

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIR 190
             V +++E    G    +     + ++ + I  + EQ  I E +     +I+        
Sbjct: 122 DLVRKQLEHRASGTKQRNISPNDVYDVTVFICDVKEQKKIGELLYNMERKINLNNKINDN 181

Query: 191 FIELLKEKKQA 201
              L      A
Sbjct: 182 LDYLNYSDIVA 192


>gi|188532535|ref|YP_001906332.1| hypothetical protein ETA_03780 [Erwinia tasmaniensis Et1/99]
 gi|188027577|emb|CAO95424.1| Hypothetical protein ETA_03780 [Erwinia tasmaniensis Et1/99]
          Length = 196

 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/109 (17%), Positives = 37/109 (33%), Gaps = 2/109 (1%)

Query: 275 LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS-AYMAVKPHGIDSTYL 333
           + P        +  G+I+ R             ++ +        A +  K + +   YL
Sbjct: 54  VSPPVDPEKHYLQDGDILLRVRGPNFAAGVFTGSKTLPSVTSNQNAIIKCKENKVLPGYL 113

Query: 334 AWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNV 381
            W + S      F+ M  G     L  + +  + V +P +  Q DI  +
Sbjct: 114 HWYINSSLGQNYFHRMSEGTNITKLSLKILSDMEVKLPSLDIQSDIVKI 162


>gi|154137|gb|AAA27146.1| hsdS specificity protein [Salmonella enterica subsp. enterica
           serovar Typhimurium]
          Length = 45

 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/45 (35%), Positives = 24/45 (53%)

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
           V VPP+ EQ  I   ++   A++D    ++EQ   +LK  R S I
Sbjct: 1   VPVPPLAEQKVIAEKLDTLLAQVDSTKARLEQIPQILKRFRQSVI 45


>gi|262191970|ref|ZP_06050136.1| type I restriction-modification system S subunit putative [Vibrio
           cholerae CT 5369-93]
 gi|262032145|gb|EEY50717.1| type I restriction-modification system S subunit putative [Vibrio
           cholerae CT 5369-93]
          Length = 469

 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 43/371 (11%), Positives = 103/371 (27%), Gaps = 38/371 (10%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
            +KR         ++      ++   ++     + +    +S  +    + +  K  IL 
Sbjct: 60  RLKRI------WVNDPNHGYPFLTTTNIHISNLEKISYIASSIVAGKRNL-LVKKDWILI 112

Query: 89  GKLGPYLRKAII---ADFDGICSTQFLVLQPKDVLPELL-QGWLLSIDVTQRIEAICEGA 144
            + G   R A      D          V+  +  +       +L S    Q+I A   GA
Sbjct: 113 TRSGTIGRLAFCRPDMDDFACTEDVMRVVADESKIDAGYLYAFLSSTFGVQQIIAGTYGA 172

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
            + H + + + +IP+P      +  I  KI +   +     +  +   + + E       
Sbjct: 173 IIQHIEPEHVKDIPVPRFAKDLEANIGSKIKSSAQKRADANSLMVSAGKQINEHFSFPNK 232

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
             ++  +        S ++       H ++      + E       L E  I +L    +
Sbjct: 233 LALSHRIFTHSAASSSLVQNRMDATYHDQIAQLSDELIEKAGAENNLAELGIQALEGNRM 292

Query: 265 IQKLETRNMGL---------------------KPESYETYQIVDPGEIVFRFIDLQNDKR 303
            Q     + G+                     K    +        +++           
Sbjct: 293 KQIFTGEDYGVPFFTSGEIFRADVTPERFLLRKSLKGDEVWQTREEDLLIARSGQVGGII 352

Query: 304 SLRSAQV--MERGIITSAYM--AVKPHGIDSTYLAWLMRSYD--LCKVFYAMGSGLRQSL 357
                     +   ++   +   V    +D+ YL   +   D    ++           L
Sbjct: 353 GTGVWADSRFDGACVSPHVLKLRVTNQSVDAGYLYAFLCCTDVGYRQLIRGAAGSSVPFL 412

Query: 358 KFEDVKRLPVL 368
              D+  + + 
Sbjct: 413 SVSDILAIKLP 423


>gi|283956928|ref|ZP_06374401.1| hypothetical protein C1336_000320098 [Campylobacter jejuni subsp.
           jejuni 1336]
 gi|283791654|gb|EFC30450.1| hypothetical protein C1336_000320098 [Campylobacter jejuni subsp.
           jejuni 1336]
          Length = 48

 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 12/47 (25%), Positives = 23/47 (48%)

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           +KEQ  I + ++  +  I  L +  +  I  L+E + S +  A  G+
Sbjct: 1   MKEQKQIVSHLDELSLNIKDLKQNYQAQIKNLQELKKSLLDRAFKGR 47


>gi|154487258|ref|ZP_02028665.1| hypothetical protein BIFADO_01102 [Bifidobacterium adolescentis
           L2-32]
 gi|154084092|gb|EDN83137.1| hypothetical protein BIFADO_01102 [Bifidobacterium adolescentis
           L2-32]
          Length = 125

 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 13/94 (13%), Positives = 30/94 (31%), Gaps = 11/94 (11%)

Query: 334 AWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            +            +  SG     +  E + +L +      EQ  I  V++      D  
Sbjct: 19  YFFFALKQWESYLKSQTSGSGIPHVDKEVLGKLEITEFAESEQSKIAEVLSTV----DRA 74

Query: 393 VEKIEQSIVLLKERRSSFIAAAVT------GQID 420
           + + ++ I   +  +   +   +T      GQ+ 
Sbjct: 75  IAQTKELIAKQQRIKIGLMRDLLTLGIDEAGQLR 108


>gi|257466157|ref|ZP_05630468.1| Type I restriction/modification specificity protein [Fusobacterium
           gonidiaformans ATCC 25563]
 gi|315917314|ref|ZP_07913554.1| type I restriction enzyme S protein [Fusobacterium gonidiaformans
           ATCC 25563]
 gi|313691189|gb|EFS28024.1| type I restriction enzyme S protein [Fusobacterium gonidiaformans
           ATCC 25563]
          Length = 173

 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/148 (11%), Positives = 57/148 (38%), Gaps = 4/148 (2%)

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
            N + I          N I +++  N+ ++       + V    I++  +        + 
Sbjct: 22  DNWEYINYLDTGNITMNHINEIQHINLRVEKLPSRAKRKVRYNNIIYSTVRPSQKHFGII 81

Query: 307 SAQVMERGIITSAYMA-VKPHGIDSTYLAWLMRSYDLCKVFYAMG---SGLRQSLKFEDV 362
              +    + T   +  + P   D+ ++ + +    +    +++    +    S+K+ DV
Sbjct: 82  KNILPNFLVSTGFVVLEIDPLKADADFIYYFLTQDKITSYLHSIAEQSTSAYPSIKYTDV 141

Query: 363 KRLPVLVPPIKEQFDITNVINVETARID 390
           + + + +P ++ Q  ++  + +   +I+
Sbjct: 142 EDIEICLPNLQLQKKVSKFLRLLDKKIE 169


>gi|255690848|ref|ZP_05414523.1| type I restriction-modification system, S subunit [Bacteroides
           finegoldii DSM 17565]
 gi|260623572|gb|EEX46443.1| type I restriction-modification system, S subunit [Bacteroides
           finegoldii DSM 17565]
          Length = 204

 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/112 (16%), Positives = 37/112 (33%), Gaps = 2/112 (1%)

Query: 280 YETYQIVDPGEIVFRFIDLQNDKR--SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
             +  IV+ G+ V+   ++       S     V + G + S +  +              
Sbjct: 92  KSSATIVEKGKFVYAGDNIILVDGENSGEVFTVPQDGYMGSTFKQLWLSSAMWKPYILAF 151

Query: 338 RSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
             +    +  +        L  E    LP+ +PP +EQ  I   IN  +  +
Sbjct: 152 ILFYKEDLRNSKRGAAIPHLNKELFYNLPIGIPPYQEQQRIAKRINELSQLL 203



 Score = 44.0 bits (102), Expect = 0.043,   Method: Composition-based stats.
 Identities = 26/163 (15%), Positives = 54/163 (33%), Gaps = 13/163 (7%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
             P +W V+ +K   +L  G   +     I +  + +   +   + + G           
Sbjct: 55  EYPNNWSVLRLKDICQLIDGE--KRNGKGICLDAKYLRGKSSATIVEKG----------K 102

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
               G  +    G    +      DG   + F  L     + +        +   + +  
Sbjct: 103 FVYAGDNIILVDGENSGEVFTVPQDGYMGSTFKQLWLSSAMWK-PYILAFILFYKEDLRN 161

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
              GA + H + +   N+P+ IPP  EQ  I ++I   +  + 
Sbjct: 162 SKRGAAIPHLNKELFYNLPIGIPPYQEQQRIAKRINELSQLLK 204


>gi|259910157|ref|YP_002650513.1| Type I restriction enzyme specificity protein, fragment [Erwinia
          pyrifoliae Ep1/96]
 gi|224965779|emb|CAX57311.1| Type I restriction enzyme specificity protein, fragment [Erwinia
          pyrifoliae Ep1/96]
          Length = 117

 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 15/46 (32%), Positives = 18/46 (39%)

Query: 1  MKHYKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK 46
          M     Y   K S V WIG IP  W+    K    + TG  +   K
Sbjct: 4  MAELPKYEFCKKSCVDWIGKIPTDWQAKRFKFLASITTGDKNTEDK 49


>gi|295692969|ref|YP_003601579.1| type i site-specific deoxyribonuclease [Lactobacillus crispatus
           ST1]
 gi|295031075|emb|CBL50554.1| Type I site-specific deoxyribonuclease [Lactobacillus crispatus
           ST1]
          Length = 238

 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 25/157 (15%), Positives = 52/157 (33%), Gaps = 17/157 (10%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSES--------GKDIIYI-GLEDVESGTGKYLPKDGNS 70
            IP  W+ V +     L +GR               + YI G  ++      ++ +  +S
Sbjct: 73  DIPDSWEWVRLGDVINLISGRDIPKKFHLASKSKDSVPYITGASNITENGEIHISEWIDS 132

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
                    + +KG I+    G   + A +       + Q + +     L +  + + L 
Sbjct: 133 PSV------VVSKGTIILSVKGTIGKIAELNVEKAHIARQIMGIDNAFGLSKEYEKFFLE 186

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQ 167
             + +          +       +     P+PPL+EQ
Sbjct: 187 SYIQELKNKAKSM--IPGISRDDLLMAEFPLPPLSEQ 221



 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 23/163 (14%), Positives = 51/163 (31%), Gaps = 8/163 (4%)

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNR----KNTKLIESNILSLSYGNIIQKLETRNMGL 275
           +  E    +PD WE      ++  ++     K   L   +  S+ Y      +       
Sbjct: 66  TDDEKPFDIPDSWEWVRLGDVINLISGRDIPKKFHLASKSKDSVPYITGASNITENGEIH 125

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
             E  ++  +V     +   + ++     +    V +  I           G+   Y  +
Sbjct: 126 ISEWIDSPSVVVSKGTII--LSVKGTIGKIAELNVEKAHIARQIMGIDNAFGLSKEYEKF 183

Query: 336 LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
            + SY   +        +   +  +D+      +PP+ EQ  I
Sbjct: 184 FLESY--IQELKNKAKSMIPGISRDDLLMAEFPLPPLSEQSRI 224


>gi|315255453|gb|EFU35421.1| type I restriction modification DNA specificity domain protein
           [Escherichia coli MS 85-1]
          Length = 262

 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 32/188 (17%), Positives = 53/188 (28%), Gaps = 2/188 (1%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            IP  W V  + +   +  G++                 G+  +       RQ  TS   
Sbjct: 74  EIPAGWAVNTLSQIANITMGQSPAGESYNEDGIGTLFFQGSTDFGWLFPTPRQYTTSPTR 133

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           +  KG IL     P      IA+ D         L  K      L  +++          
Sbjct: 134 MAKKGDILLSVRAPV-GDMNIANADCCIGRGLAALNSKSRSDGFLF-YVMKYFKQVFERR 191

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
             EG T        + ++ +  P         + +      I T   E    I+L     
Sbjct: 192 NAEGTTFGSMTKDDLHSLQVVCPEPGLLKRYDDIVSEYNKMIFTRSLENQDLIKLRDWLL 251

Query: 200 QALVSYIV 207
             L++  V
Sbjct: 252 PILMNGQV 259



 Score = 49.4 bits (116), Expect = 0.001,   Method: Composition-based stats.
 Identities = 26/224 (11%), Positives = 62/224 (27%), Gaps = 14/224 (6%)

Query: 204 SYIVTKGLNPDVKMKDSGIEW---VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
           +  V    +P   +  +G +       +P  W V     +      ++      N   + 
Sbjct: 48  NDAVNDAQHPPHDLGPAGKQETQLKREIPAGWAVNTLSQIANITMGQSPAGESYNEDGIG 107

Query: 261 YGNIIQKLETRNMGLKPESYETYQ--IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
                   +   +   P  Y T    +   G+I+        D              I  
Sbjct: 108 TLFFQGSTDFGWLFPTPRQYTTSPTRMAKKGDILLSVRAPVGDM-----NIANADCCIGR 162

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
              A+        +L ++M+ +               S+  +D+  L V+ P        
Sbjct: 163 GLAALNSKSRSDGFLFYVMKYFKQVFERRNAEGTTFGSMTKDDLHSLQVVCPEPGLLKR- 221

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
               +   +  + ++         L + R   +   + GQ+ ++
Sbjct: 222 ---YDDIVSEYNKMIFTRSLENQDLIKLRDWLLPILMNGQVKIK 262


>gi|321310216|ref|YP_004192545.1| type I restriction-modification system, S subunit [Mycoplasma
           haemofelis str. Langford 1]
 gi|319802060|emb|CBY92706.1| type I restriction-modification system, S subunit [Mycoplasma
           haemofelis str. Langford 1]
          Length = 195

 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 21/178 (11%), Positives = 60/178 (33%), Gaps = 17/178 (9%)

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFI 296
             +    + +KN +  +  +  + YG+  +        ++ E      +   G++     
Sbjct: 27  LESGTPIIKKKNIRGGKVVVEDVFYGDETKHKVLDIHRVRYEDVVITNVSPGGKVAINLT 86

Query: 297 DLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS 356
           D++               I+   Y+             +LM S    +    + + +R  
Sbjct: 87  DMEFILGGEVFKLEPNPEILNRRYL-----------YYFLMNSPQQIEQALTLANVVRLH 135

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAA 414
           +    +++  + VP +K Q +I   ++      + L  + +Q +      R   +++ 
Sbjct: 136 VSS--IEKFKIHVPDLKTQLEIVRYLDTFRELREELRMRKQQGVY----YRDKIMSSL 187



 Score = 50.2 bits (118), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 24/187 (12%), Positives = 59/187 (31%), Gaps = 5/187 (2%)

Query: 26  KVVPIKRFTKLNTGRTSES---GKDIIYIGLEDVESGTGKYLP-KDGNSRQSDTSTVSIF 81
           K   +    K++ G +            I  +++  G         G+  +     +   
Sbjct: 6   KEYRLGEICKVHRGLSFTDYGLESGTPIIKKKNIRGGKVVVEDVFYGDETKHKVLDIHRV 65

Query: 82  AKGQILYGKLGPYLRKAI-IADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
               ++   + P  + AI + D + I   +   L+P   +      +   ++  Q+IE  
Sbjct: 66  RYEDVVITNVSPGGKVAINLTDMEFILGGEVFKLEPNPEILNRRYLYYFLMNSPQQIEQA 125

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
              A +       I    + +P L  Q+ I   +       + L   + + +    +   
Sbjct: 126 LTLANVVRLHVSSIEKFKIHVPDLKTQLEIVRYLDTFRELREELRMRKQQGVYYRDKIMS 185

Query: 201 ALVSYIV 207
           +L    +
Sbjct: 186 SLRECAL 192


>gi|301302527|ref|ZP_07208657.1| type I restriction modification DNA specificity domain protein
           [Escherichia coli MS 124-1]
 gi|300842052|gb|EFK69812.1| type I restriction modification DNA specificity domain protein
           [Escherichia coli MS 124-1]
          Length = 252

 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 32/188 (17%), Positives = 53/188 (28%), Gaps = 2/188 (1%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            IP  W V  + +   +  G++                 G+  +       RQ  TS   
Sbjct: 64  EIPAGWAVNTLSQIANITMGQSPAGESYNEDGIGTLFFQGSTDFGWLFPTPRQYTTSPTR 123

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           +  KG IL     P      IA+ D         L  K      L  +++          
Sbjct: 124 MAKKGDILLSVRAPV-GDMNIANADCCIGRGLAALNSKSRSDGFLF-YVMKYFKQVFERR 181

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
             EG T        + ++ +  P         + +      I T   E    I+L     
Sbjct: 182 NAEGTTFGSMTKDDLHSLQVVCPEPGLLKRYDDIVSEYNKMIFTRSLENQDLIKLRDWLL 241

Query: 200 QALVSYIV 207
             L++  V
Sbjct: 242 PILMNGQV 249



 Score = 49.4 bits (116), Expect = 0.001,   Method: Composition-based stats.
 Identities = 26/224 (11%), Positives = 62/224 (27%), Gaps = 14/224 (6%)

Query: 204 SYIVTKGLNPDVKMKDSGIEW---VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
           +  V    +P   +  +G +       +P  W V     +      ++      N   + 
Sbjct: 38  NDAVNDAQHPPHDLGPAGKQETQLKREIPAGWAVNTLSQIANITMGQSPAGESYNEDGIG 97

Query: 261 YGNIIQKLETRNMGLKPESYETYQ--IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
                   +   +   P  Y T    +   G+I+        D              I  
Sbjct: 98  TLFFQGSTDFGWLFPTPRQYTTSPTRMAKKGDILLSVRAPVGDM-----NIANADCCIGR 152

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
              A+        +L ++M+ +               S+  +D+  L V+ P        
Sbjct: 153 GLAALNSKSRSDGFLFYVMKYFKQVFERRNAEGTTFGSMTKDDLHSLQVVCPEPGLLKR- 211

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
               +   +  + ++         L + R   +   + GQ+ ++
Sbjct: 212 ---YDDIVSEYNKMIFTRSLENQDLIKLRDWLLPILMNGQVKIK 252


>gi|21226532|ref|NP_632454.1| type I restriction-modification system specificity subunit
           [Methanosarcina mazei Go1]
 gi|20904802|gb|AAM30126.1| type I restriction-modification system specificity subunit
           [Methanosarcina mazei Go1]
          Length = 439

 Score = 52.5 bits (124), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 16/108 (14%), Positives = 36/108 (33%), Gaps = 13/108 (12%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESG------KDIIYIGLEDVESGTGKYLPKDGNSR 71
           +G IP  W+V  +  F +   G   +S       + +  I + +++ G            
Sbjct: 233 LGEIPDGWEVKSLYDFAQYINGAAFKSEDFSSNHEGLPIIKIRELKYGITPQTE----FT 288

Query: 72  QSDTSTVSIFAKGQILYGKLG---PYLRKAIIADFDGICSTQFLVLQP 116
           + +         G+IL+   G     +   +    +G  +     + P
Sbjct: 289 KKEFDQKYRINNGEILFSWSGSPDTSIDIFLWTGGNGWLNQHTFRVIP 336



 Score = 46.7 bits (109), Expect = 0.007,   Method: Composition-based stats.
 Identities = 26/237 (10%), Positives = 73/237 (30%), Gaps = 10/237 (4%)

Query: 189 IRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKN 248
               +L  E+ +  +    T  L P   M++S +  +    +   +  F   +     K+
Sbjct: 201 EELDQLQAEQPEHYIQLKNTAELFPS-TMQESELGEIPDGWEVKSLYDFAQYINGAAFKS 259

Query: 249 TKLIESNI-LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
                ++  L +     ++   T       + ++    ++ GEI+F +    +    +  
Sbjct: 260 EDFSSNHEGLPIIKIRELKYGITPQTEFTKKEFDQKYRINNGEILFSWSGSPDTSIDIF- 318

Query: 308 AQVMERGIITSAYMAVKP---HGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKR 364
                 G +      V P      +  +           ++     +     +  +D+K 
Sbjct: 319 LWTGGNGWLNQHTFRVIPQEAEEKEFIFFLLKFFKKSFIEIARNKQTTGLGHVTSKDLKN 378

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           +    P      ++  + N     I   +         L + R   +   ++G++ +
Sbjct: 379 MFASFPT----KNVIKLFNDVGEPIVSKIFFNSTENNNLSKIRDFLLPKLLSGELSV 431


>gi|225629305|ref|ZP_03787338.1| Hypothetical protein, conserved [Brucella ceti str. Cudo]
 gi|256157494|ref|ZP_05455412.1| hypothetical protein BcetM4_01373 [Brucella ceti M490/95/1]
 gi|256253529|ref|ZP_05459065.1| hypothetical protein BcetB_04372 [Brucella ceti B1/94]
 gi|260167611|ref|ZP_05754422.1| type I restriction-modification enzyme, S subunit [Brucella sp.
           F5/99]
 gi|261220659|ref|ZP_05934940.1| predicted protein [Brucella ceti B1/94]
 gi|261757034|ref|ZP_06000743.1| type I restriction-modification enzyme [Brucella sp. F5/99]
 gi|265995991|ref|ZP_06108548.1| predicted protein [Brucella ceti M490/95/1]
 gi|225615801|gb|EEH12850.1| Hypothetical protein, conserved [Brucella ceti str. Cudo]
 gi|260919243|gb|EEX85896.1| predicted protein [Brucella ceti B1/94]
 gi|261737018|gb|EEY25014.1| type I restriction-modification enzyme [Brucella sp. F5/99]
 gi|262550288|gb|EEZ06449.1| predicted protein [Brucella ceti M490/95/1]
          Length = 210

 Score = 52.1 bits (123), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 20/141 (14%), Positives = 40/141 (28%), Gaps = 3/141 (2%)

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
           R   +L    +  L  G +  +     +G    S      V  G+++            +
Sbjct: 37  RPGERLPVIGVRDLQNGVVAPREALDTVGFSSPSKAMTYAVQAGDVLVTGRGTLLKFGLV 96

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY--AMGSGLRQSLKFEDVK 363
                          +   P       L  ++ S            G+    SL  +D+ 
Sbjct: 97  GDETAGAVASANIIVVRPAPDAT-GGALFAILSSDVFRPKIEVLRRGATTLLSLSPKDLA 155

Query: 364 RLPVLVPPIKEQFDITNVINV 384
            L + +P + EQ  I  ++  
Sbjct: 156 NLEINLPSLNEQERIAALVKE 176


>gi|313113035|ref|ZP_07798673.1| type I restriction enzyme R protein [Faecalibacterium cf.
           prausnitzii KLE1255]
 gi|310624649|gb|EFQ07966.1| type I restriction enzyme R protein [Faecalibacterium cf.
           prausnitzii KLE1255]
          Length = 452

 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 21/97 (21%), Positives = 37/97 (38%), Gaps = 8/97 (8%)

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL----RQSLKFEDVKRLPVLVPPI 372
           +  Y   +PH ID+TYL    +S          G       R S+K      +P+  P I
Sbjct: 2   SPLYTVFRPHDIDTTYLEHFFKSEYWHSFMNFNGDSGARSDRFSIKDSVFFEMPIPTPDI 61

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
           +EQ  I   + +        +   ++ +  L + R +
Sbjct: 62  EEQKKIGEFLTLLDTL----ITLHQRKLKKLVQIRKA 94


>gi|293369056|ref|ZP_06615654.1| conserved hypothetical protein [Bacteroides ovatus SD CMC 3f]
 gi|292635862|gb|EFF54356.1| conserved hypothetical protein [Bacteroides ovatus SD CMC 3f]
          Length = 202

 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 25/184 (13%), Positives = 59/184 (32%), Gaps = 14/184 (7%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILS--LSYGNIIQKLETRNMGLKPESYETYQ 284
            +P+ W       L   +N       E  +    +   N  +  +     ++    E   
Sbjct: 19  QLPNGWCTTTLKDLCENINGLWKGKKEPFVHVGVIRNANFTKDFKLDYSNIEYIDVEQRT 78

Query: 285 IVDP----GEIVFRFIDLQNDKRSLRSAQVMERGIITSA------YMAVKPHGIDSTYLA 334
                   G+++       ++    R+      G + S             + I S +L 
Sbjct: 79  FTKRHLMNGDLIVEKSGGSDNNPVGRTILYEGEGGVFSFSNFTMVLRIKYSNTILSKFLY 138

Query: 335 WLMRSYDLC--KVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
           + + +             +    +L  +    +P+ +PP  EQ  I + I +  A +D++
Sbjct: 139 YYILAIYQTGAMRLMQTQTTGLHNLILDKFLLMPIYLPPSSEQKRIIDKIEMIFATLDMI 198

Query: 393 VEKI 396
           +E +
Sbjct: 199 MESL 202



 Score = 43.2 bits (100), Expect = 0.074,   Method: Composition-based stats.
 Identities = 31/183 (16%), Positives = 63/183 (34%), Gaps = 19/183 (10%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTG------KYLPKDGNSRQS 73
            +P  W    +K   +   G     GK   ++ +  + +          Y   +    + 
Sbjct: 19  QLPNGWCTTTLKDLCENINGL--WKGKKEPFVHVGVIRNANFTKDFKLDYSNIEYIDVEQ 76

Query: 74  DTSTVSIFAKGQILYGKLG-----PYLRKAIIADFDGICSTQFLVL-----QPKDVLPEL 123
            T T      G ++  K G     P  R  +     G+ S     +         +L + 
Sbjct: 77  RTFTKRHLMNGDLIVEKSGGSDNNPVGRTILYEGEGGVFSFSNFTMVLRIKYSNTILSKF 136

Query: 124 LQGWLLSIDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
           L  ++L+I  T  +  +    T + +        +P+ +PP +EQ  I +KI      +D
Sbjct: 137 LYYYILAIYQTGAMRLMQTQTTGLHNLILDKFLLMPIYLPPSSEQKRIIDKIEMIFATLD 196

Query: 183 TLI 185
            ++
Sbjct: 197 MIM 199


>gi|57242467|ref|ZP_00370405.1| restriction and modification enzyme CjeI [Campylobacter upsaliensis
           RM3195]
 gi|57016752|gb|EAL53535.1| restriction and modification enzyme CjeI [Campylobacter upsaliensis
           RM3195]
          Length = 298

 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 21/159 (13%), Positives = 54/159 (33%), Gaps = 8/159 (5%)

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDP---GEIVFRFIDLQNDKRSLRSAQVMER 313
            + S G   +     +       Y++   +      +     I + +   +       + 
Sbjct: 128 PTNSQGKGKRPASFEDTNGTYNFYKSSLEIFKCTAYDFDTEAIIIGDGGTANIHYYKGKF 187

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKR-LPVLVPPI 372
                AY+  + +   S +  + +   +L  +         Q++  + +K  + + +PP+
Sbjct: 188 SATDHAYIFERLNDEISLHYIYFVIRNNLNLLQAGFKGIGLQNIAKKFIKEQIKIPLPPL 247

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
           + Q  I +    E  RI+     I  SI   +E   + +
Sbjct: 248 EIQKQIVS----ECERIEEQYSTIRMSIEKYQELIRAIL 282


>gi|282850453|ref|ZP_06259832.1| conserved domain protein [Veillonella parvula ATCC 17745]
 gi|282579946|gb|EFB85350.1| conserved domain protein [Veillonella parvula ATCC 17745]
          Length = 113

 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 10/72 (13%), Positives = 27/72 (37%), Gaps = 5/72 (6%)

Query: 329 DSTYLAWLMRSYDLCKVFYA-MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           ++ ++  L+ S             G ++ +    ++    L P ++EQ  I  +++    
Sbjct: 31  NNRFIYHLLSSKVFDNYIARENAGGTQKFIALNQIRNFIFLAPTLEEQNKIIELLD---- 86

Query: 388 RIDVLVEKIEQS 399
            I   +   +Q 
Sbjct: 87  YISQTITLHQQE 98


>gi|217031668|ref|ZP_03437173.1| hypothetical protein HPB128_21g226 [Helicobacter pylori B128]
 gi|216946868|gb|EEC25464.1| hypothetical protein HPB128_21g226 [Helicobacter pylori B128]
          Length = 328

 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 20/160 (12%), Positives = 59/160 (36%), Gaps = 10/160 (6%)

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID 297
                E N K    ++++ ++ +  N   K++     L   +     I      +     
Sbjct: 18  NNYTKEYNYKKVCYLDTDNITNNKINAFLKIDLTKEKLPSRAKRKCSI----NSIIYSSV 73

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKP---HGIDSTYLAWLMRSYDLCKVFYAM---GS 351
             N +      ++ +  ++++A++ +       +D  YL + +   ++      +   G+
Sbjct: 74  RPNQRHFGIIKEIPKNFLVSTAFIVIDVIDLEKLDPNYLYYYITQDEIIHYLQRIAECGT 133

Query: 352 GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
               S+   D   + + + P++ Q  I   ++V   +I+ 
Sbjct: 134 SSYPSITPLDFLNIKIKLYPLETQQKIARTLSVLDQKIEN 173



 Score = 50.6 bits (119), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 44/344 (12%), Positives = 101/344 (29%), Gaps = 49/344 (14%)

Query: 44  SGKDIIYIGLEDVESGTGK-YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD 102
           + K + Y+  +++ +     +L  D    +  +      +   I+Y  + P  R   I  
Sbjct: 25  NYKKVCYLDTDNITNNKINAFLKIDLTKEKLPSRAKRKCSINSIIYSSVRPNQRHFGIIK 84

Query: 103 F---DGICSTQFLVLQP---KDVLPELLQGWLLSIDVTQRIEAI--CEGATMSHADWKGI 154
               + + ST F+V+     + + P  L  ++   ++   ++ I  C  ++         
Sbjct: 85  EIPKNFLVSTAFIVIDVIDLEKLDPNYLYYYITQDEIIHYLQRIAECGTSSYPSITPLDF 144

Query: 155 GNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPD 214
            NI + + PL  Q  I   +     +I+                                
Sbjct: 145 LNIKIKLYPLETQQKIARTLSVLDQKIENNHKINELL----------------------- 181

Query: 215 VKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMG 274
                           H      +    +   KN KL +  I +     +++  +     
Sbjct: 182 ----------------HTLAYKIYEYYFKYKPKNAKLEQIIIENPKSNIMVKNAQKTQDK 225

Query: 275 LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
               +     +  P  I+       N   +      + +   ++    +  +   S YL 
Sbjct: 226 YPFFTSGDNILSYPKAIIDGRNCFLNTGGNAGIKFYVGKASYSTDTWCICANEF-SDYLY 284

Query: 335 WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
            L+ S               + L+   +K+ P+ +P   E   I
Sbjct: 285 LLLSSIKNHINQSFFQGTSLKHLQKNLLKKYPIYMPSAHEIKKI 328


>gi|291551223|emb|CBL27485.1| Type I restriction modification DNA specificity domain
           [Ruminococcus torques L2-14]
          Length = 173

 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 27/140 (19%), Positives = 54/140 (38%), Gaps = 5/140 (3%)

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV-- 323
           +K       +       Y+IV  G+  +  +  +N ++   +    E  II+S+Y     
Sbjct: 34  KKFIPSIANIVGTDLSNYKIVRTGQFAYGPVTSRNGEKISIAYLDEEDCIISSSYTVFEV 93

Query: 324 -KPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSL-KFEDVKRLPVLVPPIKEQFDITNV 381
                +D  YL       +  +       G  + +  + ++  + + VP I++Q  I   
Sbjct: 94  ENKEELDPEYLMLWFSRPEFDRYARYKSHGSVREIFDWNELCMVELPVPDIEKQRKIVKA 153

Query: 382 INVETARIDVLVEKIEQSIV 401
               T RID L +KI  ++ 
Sbjct: 154 YKTITDRID-LKQKINDNLA 172



 Score = 39.0 bits (89), Expect = 1.4,   Method: Composition-based stats.
 Identities = 30/128 (23%), Positives = 52/128 (40%), Gaps = 7/128 (5%)

Query: 62  KYLPKDGNSRQSDTSTVSIFAKGQILY----GKLGPYLRKAIIADFDGICSTQFLVLQPK 117
           K++P   N   +D S   I   GQ  Y     + G  +  A + + D I S+ + V + +
Sbjct: 35  KFIPSIANIVGTDLSNYKIVRTGQFAYGPVTSRNGEKISIAYLDEEDCIISSSYTVFEVE 94

Query: 118 DV---LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKI 174
           +     PE L  W    +  +       G+     DW  +  + +P+P + +Q  I +  
Sbjct: 95  NKEELDPEYLMLWFSRPEFDRYARYKSHGSVREIFDWNELCMVELPVPDIEKQRKIVKAY 154

Query: 175 IAETVRID 182
              T RID
Sbjct: 155 KTITDRID 162


>gi|218506125|ref|ZP_03504003.1| N-6 DNA methylase [Rhizobium etli Brasil 5]
          Length = 136

 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 20/128 (15%), Positives = 43/128 (33%), Gaps = 8/128 (6%)

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI---ITSAYMAVKPHGIDSTYLA 334
           E   +Y      +++   +    +      A+ +  GI    +  Y+          +L 
Sbjct: 9   EVVGSYTYFREDDVLVAKVTPCFENGKAGIARGLTNGIGFGSSEFYVVRSGEETLPAWLY 68

Query: 335 WLMRSYDLCKVF--YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID-- 390
           + + + D          G+G  Q +    ++   + VP    Q  I   I  E A ++  
Sbjct: 69  YWLTTPDFKARATAKMTGTGGLQRVPRAVLEEETITVPERAIQEAIVAEIEAEQALVNGN 128

Query: 391 -VLVEKIE 397
             L+ + E
Sbjct: 129 RDLIARFE 136


>gi|218263890|ref|ZP_03477846.1| hypothetical protein PRABACTJOHN_03536 [Parabacteroides johnsonii
           DSM 18315]
 gi|218222440|gb|EEC95090.1| hypothetical protein PRABACTJOHN_03536 [Parabacteroides johnsonii
           DSM 18315]
          Length = 161

 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 20/162 (12%), Positives = 50/162 (30%), Gaps = 5/162 (3%)

Query: 252 IESNILSLSYGNIIQ-KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
            +   + L  GNI   K+   ++       +    V   +I+    +         +   
Sbjct: 3   CDDGTIVLRSGNIQDGKISFSDIVRVNAPIKESLFVKEDDILMCSRNGSASLVGKVAMIP 62

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP 370
                +T           ++ YL    +S D  +      S     +  + + ++ V  P
Sbjct: 63  DINEPMTFGAFMTIIRSAEAKYLYLYFQSQDFRERVSEGKSSTMNQITQKMLDKVEVPFP 122

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
               +      ++   ++ D    +++Q I  + +   S I 
Sbjct: 123 DKDVR----ETLSAIASQADKSKFELKQCIEHIDKVIKSLIN 160


>gi|269978326|gb|ACZ55897.1| putative type I restriction-modification system specificity subunit
           S [Helicobacter pylori]
          Length = 343

 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 45/312 (14%), Positives = 83/312 (26%), Gaps = 16/312 (5%)

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           +  K  IL+    P      IA+     +  F  + P   +      + L       I  
Sbjct: 2   LLPKHAILFSSRAPI-GYVAIAEKRLCTNQGFKSIIPNKKI-YFEFLYYLLKYHKDNISN 59

Query: 140 ICEGATMSHADWKGIGNIPMPIPP-LAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
           I  G T        +G   + IPP   EQ  I   +     +I+          ++L+  
Sbjct: 60  IGGGTTFKEISGATLGLFEVKIPPTYYEQQKIARTLSILDQKIENNHKINELLHKILELL 119

Query: 199 KQALVSYIVTKGLNPDVKM----KDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
            +           N         K    + +  +  +         +      +      
Sbjct: 120 YEQYFVRFDFLDENNKPYQTNGGKMKFSKELNRLIPNDFEVKTLGELITWISGSQPPKSC 179

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS--LRSAQVME 312
           +I       I      +N       Y TY  +     +    D+  DK          ++
Sbjct: 180 HIYEHKESYI---RFIQNRDYSSNDYITYIPISKNNKICYQYDIMIDKYGEAGAVRFGLQ 236

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPP 371
                +       +     Y+   + S  + K       +  R SL    +  L + +PP
Sbjct: 237 GAYNVALSKISVLNQSMQEYIRSYLNSKPIKKYLSNACMASTRSSLNENHIYSLMLPIPP 296

Query: 372 IK-EQF--DITN 380
           I   Q    I  
Sbjct: 297 INLLQKYEKIAK 308



 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 17/115 (14%), Positives = 40/115 (34%), Gaps = 4/115 (3%)

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ 355
           I   +       A   +R      + ++ P+        + +  Y    +    G    +
Sbjct: 8   ILFSSRAPIGYVAIAEKRLCTNQGFKSIIPNKKIYFEFLYYLLKYHKDNISNIGGGTTFK 67

Query: 356 SLKFEDVKRLPVLVPP-IKEQFDITNVINVETARID---VLVEKIEQSIVLLKER 406
            +    +    V +PP   EQ  I   +++   +I+    + E + + + LL E+
Sbjct: 68  EISGATLGLFEVKIPPTYYEQQKIARTLSILDQKIENNHKINELLHKILELLYEQ 122



 Score = 37.9 bits (86), Expect = 3.6,   Method: Composition-based stats.
 Identities = 28/191 (14%), Positives = 56/191 (29%), Gaps = 4/191 (2%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVE-SGTGKYLPKDGNSRQSDTSTVS 79
           IP  ++V  +       +G        I       +       Y   D  +    +    
Sbjct: 154 IPNDFEVKTLGELITWISGSQPPKSCHIYEHKESYIRFIQNRDYSSNDYITYIPISKNNK 213

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQF-LVLQPKDVLPELLQGWLLSIDVTQRIE 138
           I  +  I+  K G     A+     G  +     +      + E ++ +L S  + + + 
Sbjct: 214 ICYQYDIMIDKYGEAG--AVRFGLQGAYNVALSKISVLNQSMQEYIRSYLNSKPIKKYLS 271

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
             C  +T S  +   I ++ +PIPP+       +        I            L    
Sbjct: 272 NACMASTRSSLNENHIYSLMLPIPPINLLQKYEKIAKNIITAIINNNQSTQTLTALRDFL 331

Query: 199 KQALVSYIVTK 209
              L++  V  
Sbjct: 332 LPLLLTQQVKP 342


>gi|218133861|ref|ZP_03462665.1| hypothetical protein BACPEC_01750 [Bacteroides pectinophilus ATCC
           43243]
 gi|217991236|gb|EEC57242.1| hypothetical protein BACPEC_01750 [Bacteroides pectinophilus ATCC
           43243]
          Length = 179

 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 27/139 (19%), Positives = 54/139 (38%), Gaps = 5/139 (3%)

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV-- 323
           +K       +       Y+IV  G+  +  +  +N ++   +    E  II+S+Y     
Sbjct: 40  KKFIPSIANIVGTDLSNYKIVRTGQFAYGPVTSRNGEKISIAYLDEEDCIISSSYTVFEV 99

Query: 324 -KPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSL-KFEDVKRLPVLVPPIKEQFDITNV 381
                +D  YL       +  +       G  + +  + ++  + + VP I++Q  I   
Sbjct: 100 ENKEELDPEYLMLWFSRPEFDRYARYKSHGSVREIFDWNELCMVELPVPDIEKQRKIVKA 159

Query: 382 INVETARIDVLVEKIEQSI 400
               T RID L +KI  ++
Sbjct: 160 YKTITDRID-LKQKINDNL 177



 Score = 39.4 bits (90), Expect = 1.2,   Method: Composition-based stats.
 Identities = 30/128 (23%), Positives = 52/128 (40%), Gaps = 7/128 (5%)

Query: 62  KYLPKDGNSRQSDTSTVSIFAKGQILY----GKLGPYLRKAIIADFDGICSTQFLVLQPK 117
           K++P   N   +D S   I   GQ  Y     + G  +  A + + D I S+ + V + +
Sbjct: 41  KFIPSIANIVGTDLSNYKIVRTGQFAYGPVTSRNGEKISIAYLDEEDCIISSSYTVFEVE 100

Query: 118 DV---LPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKI 174
           +     PE L  W    +  +       G+     DW  +  + +P+P + +Q  I +  
Sbjct: 101 NKEELDPEYLMLWFSRPEFDRYARYKSHGSVREIFDWNELCMVELPVPDIEKQRKIVKAY 160

Query: 175 IAETVRID 182
              T RID
Sbjct: 161 KTITDRID 168


>gi|254695863|ref|ZP_05157691.1| hypothetical protein Babob3T_14800 [Brucella abortus bv. 3 str.
           Tulya]
 gi|261216283|ref|ZP_05930564.1| predicted protein [Brucella abortus bv. 3 str. Tulya]
 gi|260917890|gb|EEX84751.1| predicted protein [Brucella abortus bv. 3 str. Tulya]
          Length = 210

 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 20/141 (14%), Positives = 40/141 (28%), Gaps = 3/141 (2%)

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
           R   +L    +  L  G +  +     +G    S      V  G+++            +
Sbjct: 37  RPGERLPVIGVRDLQDGVVAPREALDTVGFSSPSKAMTYAVQAGDVLVTGRGTLLKFGLV 96

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY--AMGSGLRQSLKFEDVK 363
                          +   P       L  ++ S            G+    SL  +D+ 
Sbjct: 97  GDETAGAVASANIIVVRPAPDAT-GGALFAILSSDVFRPKIEVLRRGATTLLSLSPKDLA 155

Query: 364 RLPVLVPPIKEQFDITNVINV 384
            L + +P + EQ  I  ++  
Sbjct: 156 NLEINLPSLNEQERIAALVKE 176


>gi|148558646|ref|YP_001257778.1| hypothetical protein BOV_A0787 [Brucella ovis ATCC 25840]
 gi|161620896|ref|YP_001594782.1| hypothetical protein BCAN_B0855 [Brucella canis ATCC 23365]
 gi|163844959|ref|YP_001622614.1| hypothetical protein BSUIS_B0832 [Brucella suis ATCC 23445]
 gi|254700050|ref|ZP_05161878.1| hypothetical protein Bsuib55_04207 [Brucella suis bv. 5 str. 513]
 gi|254703170|ref|ZP_05164998.1| hypothetical protein Bsuib36_04392 [Brucella suis bv. 3 str. 686]
 gi|254705684|ref|ZP_05167512.1| hypothetical protein BpinM_01413 [Brucella pinnipedialis
           M163/99/10]
 gi|254710915|ref|ZP_05172726.1| hypothetical protein BpinB_11775 [Brucella pinnipedialis B2/94]
 gi|254712612|ref|ZP_05174423.1| hypothetical protein BcetM6_04392 [Brucella ceti M644/93/1]
 gi|254715683|ref|ZP_05177494.1| hypothetical protein BcetM_04407 [Brucella ceti M13/05/1]
 gi|256015603|ref|YP_003105612.1| type I restriction-modification enzyme, S subunit [Brucella microti
           CCM 4915]
 gi|256029299|ref|ZP_05442913.1| hypothetical protein BpinM2_01343 [Brucella pinnipedialis
           M292/94/1]
 gi|256058987|ref|ZP_05449198.1| hypothetical protein Bneo5_01328 [Brucella neotomae 5K33]
 gi|260567902|ref|ZP_05838371.1| type I restriction-modification enzyme [Brucella suis bv. 4 str.
           40]
 gi|261217432|ref|ZP_05931713.1| predicted protein [Brucella ceti M13/05/1]
 gi|261313104|ref|ZP_05952301.1| predicted protein [Brucella pinnipedialis M163/99/10]
 gi|261318498|ref|ZP_05957695.1| predicted protein [Brucella pinnipedialis B2/94]
 gi|261320306|ref|ZP_05959503.1| predicted protein [Brucella ceti M644/93/1]
 gi|261322931|ref|ZP_05962128.1| predicted protein [Brucella neotomae 5K33]
 gi|261750533|ref|ZP_05994242.1| predicted protein [Brucella suis bv. 5 str. 513]
 gi|261753792|ref|ZP_05997501.1| predicted protein [Brucella suis bv. 3 str. 686]
 gi|265986296|ref|ZP_06098853.1| predicted protein [Brucella pinnipedialis M292/94/1]
 gi|294853395|ref|ZP_06794067.1| hypothetical protein BAZG_02353 [Brucella sp. NVSL 07-0026]
 gi|148369931|gb|ABQ62803.1| conserved hypothetical protein [Brucella ovis ATCC 25840]
 gi|161337707|gb|ABX64011.1| Hypothetical protein, conserved [Brucella canis ATCC 23365]
 gi|163675682|gb|ABY39792.1| Hypothetical protein, conserved [Brucella suis ATCC 23445]
 gi|255998263|gb|ACU49950.1| type I restriction-modification enzyme, S subunit [Brucella microti
           CCM 4915]
 gi|260154567|gb|EEW89648.1| type I restriction-modification enzyme [Brucella suis bv. 4 str.
           40]
 gi|260922521|gb|EEX89089.1| predicted protein [Brucella ceti M13/05/1]
 gi|261292996|gb|EEX96492.1| predicted protein [Brucella ceti M644/93/1]
 gi|261297721|gb|EEY01218.1| predicted protein [Brucella pinnipedialis B2/94]
 gi|261298911|gb|EEY02408.1| predicted protein [Brucella neotomae 5K33]
 gi|261302130|gb|EEY05627.1| predicted protein [Brucella pinnipedialis M163/99/10]
 gi|261740286|gb|EEY28212.1| predicted protein [Brucella suis bv. 5 str. 513]
 gi|261743545|gb|EEY31471.1| predicted protein [Brucella suis bv. 3 str. 686]
 gi|264658493|gb|EEZ28754.1| predicted protein [Brucella pinnipedialis M292/94/1]
 gi|294819050|gb|EFG36050.1| hypothetical protein BAZG_02353 [Brucella sp. NVSL 07-0026]
          Length = 210

 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 20/141 (14%), Positives = 40/141 (28%), Gaps = 3/141 (2%)

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
           R   +L    +  L  G +  +     +G    S      V  G+++            +
Sbjct: 37  RPGERLPVIGVRDLQDGVVAPREALDTVGFSSPSKAMTYAVQAGDVLVTGRGTLLKFGLV 96

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY--AMGSGLRQSLKFEDVK 363
                          +   P       L  ++ S            G+    SL  +D+ 
Sbjct: 97  GDETAGAVASANIIVVRPAPDAT-GGALFAILSSDVFRPKIEVLRRGATTLLSLSPKDLA 155

Query: 364 RLPVLVPPIKEQFDITNVINV 384
            L + +P + EQ  I  ++  
Sbjct: 156 NLEINLPSLNEQERIAALVKE 176


>gi|23500569|ref|NP_700009.1| hypothetical protein BRA0839 [Brucella suis 1330]
 gi|23464206|gb|AAN34014.1| conserved hypothetical protein [Brucella suis 1330]
          Length = 210

 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 20/141 (14%), Positives = 40/141 (28%), Gaps = 3/141 (2%)

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
           R   +L    +  L  G +  +     +G    S      V  G+++            +
Sbjct: 37  RPGERLPVIGVRDLQDGVVAPREALDTVGFSSPSKAMTYAVQAGDVLVTGRGTLLKFGLV 96

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY--AMGSGLRQSLKFEDVK 363
                          +   P       L  ++ S            G+    SL  +D+ 
Sbjct: 97  GDETAGAVASANIIVVRPAPDAT-GGALFAILSSDVFRPKIEVLRRGATTLLSLSPKDLA 155

Query: 364 RLPVLVPPIKEQFDITNVINV 384
            L + +P + EQ  I  ++  
Sbjct: 156 NLEINLPSLNEQERIAALVKE 176


>gi|42794862|gb|AAS45789.1| SLV.6 [Streptomyces lavendulae]
          Length = 814

 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 24/150 (16%), Positives = 50/150 (33%), Gaps = 5/150 (3%)

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
              I   E   +  +      + ++  G+I+            +R+ Q           +
Sbjct: 651 NGNITDTEPERVSQELADRHRHYLLQQGDILCVRSGKTVPPALVRADQSGWLMSTNVIRL 710

Query: 322 AVKP--HGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
            V        +    WL R   L  +     +    S+  + +  + V +PP+ +Q  I 
Sbjct: 711 RVHEGREVDSNYLFRWLGRPESLAWIVDRSAATAAPSISTKTLGTMTVRLPPLPQQRQIA 770

Query: 380 NVINVETARID---VLVEKIEQSIVLLKER 406
            +++    +      L E I +S  LL E+
Sbjct: 771 ELLDALEEQARAHHNLAEAISRSRSLLAEQ 800



 Score = 40.9 bits (94), Expect = 0.34,   Method: Composition-based stats.
 Identities = 27/171 (15%), Positives = 56/171 (32%), Gaps = 14/171 (8%)

Query: 30  IKRFTKLNTGRTSES--------GKDIIYIGLEDVESGTGKYL-PKDGNSRQSDTSTVSI 80
           +     L  G +              +  +    +++G      P+  +   +D     +
Sbjct: 615 LAELCDLKAGPSFTRVGKKDRTPNGPVPLVMPRHLKNGNITDTEPERVSQELADRHRHYL 674

Query: 81  FAKGQILYGKLGPYLRKAIIA--DFDGICSTQFL---VLQPKDVLPELLQGWLLSIDVTQ 135
             +G IL  + G  +  A++       + ST  +   V + ++V    L  WL   +   
Sbjct: 675 LQQGDILCVRSGKTVPPALVRADQSGWLMSTNVIRLRVHEGREVDSNYLFRWLGRPESLA 734

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
            I              K +G + + +PPL +Q  I E + A   +      
Sbjct: 735 WIVDRSAATAAPSISTKTLGTMTVRLPPLPQQRQIAELLDALEEQARAHHN 785


>gi|289423490|ref|ZP_06425292.1| type I restriction-modification system DNA specificity subunit
           [Peptostreptococcus anaerobius 653-L]
 gi|289156124|gb|EFD04787.1| type I restriction-modification system DNA specificity subunit
           [Peptostreptococcus anaerobius 653-L]
          Length = 131

 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 22/122 (18%), Positives = 48/122 (39%), Gaps = 8/122 (6%)

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH-GIDSTYLAWLM 337
               Y IV P    +     + +  S+    + +  I++S Y   K    +D  +L    
Sbjct: 5   DKTMYYIVSPNSFAYNP--ARINVGSIGYQNLDKSVIVSSLYEVFKTTADVDDRFLWHWF 62

Query: 338 RSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
           +S    K+       G+R    ++ +    + +P I+EQ  I   +++    +D L+   
Sbjct: 63  KSAAFQKMIEKYQEGGVRLYFYYDKLCMCSIALPSIEEQHKIGKHLDM----LDNLITLH 118

Query: 397 EQ 398
           ++
Sbjct: 119 QR 120


>gi|298254244|ref|ZP_06977830.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae str. Canada MDR_19A]
          Length = 172

 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/108 (16%), Positives = 37/108 (34%), Gaps = 6/108 (5%)

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
           Y    IV    ++       N    +R              +      I+S YL +  + 
Sbjct: 50  YAKDWIVKKNSVIIGRKGNINKPILVRENFWNVDTAFG---LEPVLEKINSEYLFYFCQL 106

Query: 340 YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           Y+  K+  A+      SL   D+  + + +PP+  Q +  + + +   
Sbjct: 107 YNFEKLNKAV---TIPSLTKSDLLNISIPLPPLALQNEFADFVALVDK 151



 Score = 49.4 bits (116), Expect = 0.001,   Method: Composition-based stats.
 Identities = 27/151 (17%), Positives = 52/151 (34%), Gaps = 15/151 (9%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           K WKV        +  G+  +            VE   GK+ P  G+      +   I  
Sbjct: 10  KEWKVSKWNEILTIRNGKNQKQ-----------VEDADGKF-PIYGSGGIMGYAKDWIVK 57

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           K  ++ G+ G   +  ++ +      T F +    + +      +   +      E + +
Sbjct: 58  KNSVIIGRKGNINKPILVRENFWNVDTAFGLEPVLEKINSEYLFYFCQLY---NFEKLNK 114

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
             T+       + NI +P+PPLA Q    + 
Sbjct: 115 AVTIPSLTKSDLLNISIPLPPLALQNEFADF 145


>gi|298229453|ref|ZP_06963134.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae str. Canada MDR_19F]
          Length = 146

 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/103 (17%), Positives = 36/103 (34%), Gaps = 6/103 (5%)

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
           Y    IV    ++       N    +R              +      I+S YL +  + 
Sbjct: 50  YAKDWIVKKNSVIIGRKGNINKPILVRENFWNVDTAFG---LEPVLEKINSEYLFYFCQL 106

Query: 340 YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
           Y+  K+  A+      SL   D+  + + +PP+  Q +  + +
Sbjct: 107 YNFEKLNKAV---TIPSLTKSDLLNISIPLPPLALQNEFADFV 146



 Score = 49.4 bits (116), Expect = 0.001,   Method: Composition-based stats.
 Identities = 27/151 (17%), Positives = 52/151 (34%), Gaps = 15/151 (9%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           K WKV        +  G+  +            VE   GK+ P  G+      +   I  
Sbjct: 10  KEWKVSKWNEILTIRNGKNQKQ-----------VEDADGKF-PIYGSGGIMGYAKDWIVK 57

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           K  ++ G+ G   +  ++ +      T F +    + +      +   +      E + +
Sbjct: 58  KNSVIIGRKGNINKPILVRENFWNVDTAFGLEPVLEKINSEYLFYFCQLY---NFEKLNK 114

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
             T+       + NI +P+PPLA Q    + 
Sbjct: 115 AVTIPSLTKSDLLNISIPLPPLALQNEFADF 145


>gi|262065805|ref|ZP_06025417.1| type I restriction-modification system, S subunit [Fusobacterium
           periodonticum ATCC 33693]
 gi|291380502|gb|EFE88020.1| type I restriction-modification system, S subunit [Fusobacterium
           periodonticum ATCC 33693]
          Length = 176

 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 23/170 (13%), Positives = 52/170 (30%), Gaps = 5/170 (2%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
            I+      + +E+K    ++T        L  +  +         K++  N+    E  
Sbjct: 6   DIKTNDKNWELFEIKEISNILTRGKTPKYTLSSNVFVINQACIYWDKIKYENIKFHVEDE 65

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW---LM 337
               + +   ++         + ++    + E+  I S  M ++        L +    M
Sbjct: 66  NLLFLKNKDILINSTGTGTLGRMNIIQNIINEKFTIDSHVMLIRLKEEKILSLYFINIFM 125

Query: 338 RSYDLCKVFYA--MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
                  +      GS  +  L  E   +  + +PPI+ Q      I   
Sbjct: 126 NEKYQKDLILKCVNGSTNQIELSKEKFSKFKIPIPPIELQNKFAERIEKI 175


>gi|312970036|ref|ZP_07784218.1| hsdS protein [Escherichia coli 1827-70]
 gi|310337534|gb|EFQ02645.1| hsdS protein [Escherichia coli 1827-70]
          Length = 384

 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 45/356 (12%), Positives = 98/356 (27%), Gaps = 45/356 (12%)

Query: 20  AIPKHWKVVPIKRFTK---LNTGRTSES---GKDIIYIGLEDVESGTGKYLPK-DGNSRQ 72
            +P  W    +   TK   ++ G           I  I + ++++G          +   
Sbjct: 7   KLPLGWNCKKLVDCTKEGNISYGIVQPGQHQEDGIGIIRVNNIQNGNIYIDDVLKVSHEI 66

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIAD--FDGICSTQFLVLQPKDVLPELLQGWLLS 130
                 +    G++L   +G     AI          +    V++P D +        L 
Sbjct: 67  ESKFAKTRLEGGEVLLTLVGSTGISAITTKALQGWNVARAVAVIKPCDEISAEWIHICLQ 126

Query: 131 IDVTQRI-EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
              T+   ++          + K +  IP+PIPP  E+V + +       RI+  I    
Sbjct: 127 SPFTKYFLDSRANTTVQKTLNLKDVKEIPLPIPPHEERVSLEKIYFNFENRINLNIKINK 186

Query: 190 RFIELLKEKKQALVSYI---VTKGLNPDVK------------------------------ 216
              E+ +   ++        V   L+                                  
Sbjct: 187 ILEEMSQNLFKSWFVDFDPVVDNALDAGNPIPEALQSRAELRQKVRNSADFKPLPAEIRS 246

Query: 217 MKDSGIE--WVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMG 274
           +  S  E   +G +P  W++K    +    N    +      +   Y  +++  + R   
Sbjct: 247 LFPSEFEETELGWMPKGWQIKSLDHIANFQNGLALQKFRPKNMEDDYLPVLKIADLRAGQ 306

Query: 275 LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
           +  +      I D  ++    +        +          +      V      +
Sbjct: 307 ITNDERARTDISDSCKVYDGDMIFSWSGTLMIDIWTGGNAALNQHLYKVTSKNTHN 362



 Score = 50.6 bits (119), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 24/191 (12%), Positives = 62/191 (32%), Gaps = 10/191 (5%)

Query: 225 VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK----PESY 280
           +G              ++    +  +  E  I  +   NI       +  LK     ES 
Sbjct: 10  LGWNCKKLVDCTKEGNISYGIVQPGQHQEDGIGIIRVNNIQNGNIYIDDVLKVSHEIESK 69

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY 340
                ++ GE++   +           A      +  +  +      I + ++   ++S 
Sbjct: 70  FAKTRLEGGEVLLTLVGSTGISAITTKALQGWN-VARAVAVIKPCDEISAEWIHICLQSP 128

Query: 341 DLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
                  +  +   +++L  +DVK +P+ +PP +E+      +       +  +    + 
Sbjct: 129 FTKYFLDSRANTTVQKTLNLKDVKEIPLPIPPHEERV----SLEKIYFNFENRINLNIKI 184

Query: 400 IVLLKERRSSF 410
             +L+E   + 
Sbjct: 185 NKILEEMSQNL 195



 Score = 47.1 bits (110), Expect = 0.005,   Method: Composition-based stats.
 Identities = 12/116 (10%), Positives = 35/116 (30%), Gaps = 12/116 (10%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVESGTGKYLPKDGNS 70
           +G +PK W++  +        G   +           +  + + D+ +G       +   
Sbjct: 257 LGWMPKGWQIKSLDHIANFQNGLALQKFRPKNMEDDYLPVLKIADLRAGQI----TNDER 312

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQG 126
            ++D S       G +++   G  +        +   +     +  K+     +  
Sbjct: 313 ARTDISDSCKVYDGDMIFSWSGTLMIDI-WTGGNAALNQHLYKVTSKNTHNLFILC 367


>gi|17988797|ref|NP_541430.1| type I restriction-modification enzyme, S subunit [Brucella
           melitensis bv. 1 str. 16M]
 gi|189022584|ref|YP_001932325.1| type I restriction-modification enzyme, S subunit [Brucella abortus
           S19]
 gi|256043712|ref|ZP_05446635.1| hypothetical protein Bmelb1R_04427 [Brucella melitensis bv. 1 str.
           Rev.1]
 gi|265990134|ref|ZP_06102691.1| predicted protein [Brucella melitensis bv. 1 str. Rev.1]
 gi|17984615|gb|AAL53694.1| type i restriction-modification enzyme, s subunit [Brucella
           melitensis bv. 1 str. 16M]
 gi|189021158|gb|ACD73879.1| type I restriction-modification enzyme, S subunit [Brucella abortus
           S19]
 gi|263000803|gb|EEZ13493.1| predicted protein [Brucella melitensis bv. 1 str. Rev.1]
 gi|326410991|gb|ADZ68055.1| conserved hypothetical protein [Brucella melitensis M28]
          Length = 209

 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 20/141 (14%), Positives = 40/141 (28%), Gaps = 3/141 (2%)

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
           R   +L    +  L  G +  +     +G    S      V  G+++            +
Sbjct: 36  RPGERLPVIGVRDLQDGVVAPREALDTVGFSSLSKAMTYAVQAGDVLVTGRGTLLKFGLV 95

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY--AMGSGLRQSLKFEDVK 363
                          +   P       L  ++ S            G+    SL  +D+ 
Sbjct: 96  GDETAGAVASANIIVVRPAPDAT-GGALFAILSSDVFRPKIEVLRRGATTLLSLSPKDLA 154

Query: 364 RLPVLVPPIKEQFDITNVINV 384
            L + +P + EQ  I  ++  
Sbjct: 155 NLEINLPSLNEQERIAALVKE 175


>gi|62317329|ref|YP_223182.1| hypothetical protein BruAb2_0392 [Brucella abortus bv. 1 str.
           9-941]
 gi|83269310|ref|YP_418601.1| type I restriction-modification enzyme, S subunit [Brucella
           melitensis biovar Abortus 2308]
 gi|225686601|ref|YP_002734573.1| hypothetical protein BMEA_B0818 [Brucella melitensis ATCC 23457]
 gi|254690829|ref|ZP_05154083.1| hypothetical protein Babob68_11863 [Brucella abortus bv. 6 str.
           870]
 gi|254698610|ref|ZP_05160438.1| hypothetical protein Babob28_13164 [Brucella abortus bv. 2 str.
           86/8/59]
 gi|254732057|ref|ZP_05190635.1| hypothetical protein Babob42_12964 [Brucella abortus bv. 4 str.
           292]
 gi|256111245|ref|ZP_05452276.1| hypothetical protein Bmelb3E_01403 [Brucella melitensis bv. 3 str.
           Ether]
 gi|256256011|ref|ZP_05461547.1| hypothetical protein Babob9C_01308 [Brucella abortus bv. 9 str.
           C68]
 gi|256262260|ref|ZP_05464792.1| type I restriction-modification enzyme [Brucella melitensis bv. 2
           str. 63/9]
 gi|260544566|ref|ZP_05820387.1| type I restriction-modification enzyme [Brucella abortus NCTC 8038]
 gi|260564899|ref|ZP_05835384.1| type I restriction-modification enzyme [Brucella melitensis bv. 1
           str. 16M]
 gi|260756407|ref|ZP_05868755.1| predicted protein [Brucella abortus bv. 6 str. 870]
 gi|260759839|ref|ZP_05872187.1| predicted protein [Brucella abortus bv. 4 str. 292]
 gi|260763078|ref|ZP_05875410.1| predicted protein [Brucella abortus bv. 2 str. 86/8/59]
 gi|260882231|ref|ZP_05893845.1| predicted protein [Brucella abortus bv. 9 str. C68]
 gi|265992758|ref|ZP_06105315.1| predicted protein [Brucella melitensis bv. 3 str. Ether]
 gi|297249370|ref|ZP_06933071.1| type I restriction-modification enzyme, S subunit [Brucella abortus
           bv. 5 str. B3196]
 gi|62197522|gb|AAX75821.1| conserved hypothetical protein [Brucella abortus bv. 1 str. 9-941]
 gi|82939584|emb|CAJ12564.1| type I restriction-modification enzyme, S subunit [Brucella
           melitensis biovar Abortus 2308]
 gi|225642706|gb|ACO02619.1| Hypothetical protein, conserved [Brucella melitensis ATCC 23457]
 gi|260097837|gb|EEW81711.1| type I restriction-modification enzyme [Brucella abortus NCTC 8038]
 gi|260152542|gb|EEW87635.1| type I restriction-modification enzyme [Brucella melitensis bv. 1
           str. 16M]
 gi|260670157|gb|EEX57097.1| predicted protein [Brucella abortus bv. 4 str. 292]
 gi|260673499|gb|EEX60320.1| predicted protein [Brucella abortus bv. 2 str. 86/8/59]
 gi|260676515|gb|EEX63336.1| predicted protein [Brucella abortus bv. 6 str. 870]
 gi|260871759|gb|EEX78828.1| predicted protein [Brucella abortus bv. 9 str. C68]
 gi|262763628|gb|EEZ09660.1| predicted protein [Brucella melitensis bv. 3 str. Ether]
 gi|263091976|gb|EEZ16282.1| type I restriction-modification enzyme [Brucella melitensis bv. 2
           str. 63/9]
 gi|297173239|gb|EFH32603.1| type I restriction-modification enzyme, S subunit [Brucella abortus
           bv. 5 str. B3196]
 gi|326554282|gb|ADZ88921.1| conserved hypothetical protein [Brucella melitensis M5-90]
          Length = 210

 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 20/141 (14%), Positives = 40/141 (28%), Gaps = 3/141 (2%)

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
           R   +L    +  L  G +  +     +G    S      V  G+++            +
Sbjct: 37  RPGERLPVIGVRDLQDGVVAPREALDTVGFSSLSKAMTYAVQAGDVLVTGRGTLLKFGLV 96

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY--AMGSGLRQSLKFEDVK 363
                          +   P       L  ++ S            G+    SL  +D+ 
Sbjct: 97  GDETAGAVASANIIVVRPAPDAT-GGALFAILSSDVFRPKIEVLRRGATTLLSLSPKDLA 155

Query: 364 RLPVLVPPIKEQFDITNVINV 384
            L + +P + EQ  I  ++  
Sbjct: 156 NLEINLPSLNEQERIAALVKE 176


>gi|298254240|ref|ZP_06977826.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae str. Canada MDR_19A]
          Length = 197

 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 22/201 (10%), Positives = 63/201 (31%), Gaps = 9/201 (4%)

Query: 219 DSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN----MG 274
             G   +    D+              + +    E   L L+  N+ +   + +    + 
Sbjct: 1   MFGENKIFESIDNLFDIIDGDRGKNYPKSDELFSEEYCLFLNTKNVTKNGFSFDTKQFIT 60

Query: 275 LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
              +       ++  +IV        +          +   I S  + ++P   +     
Sbjct: 61  KTKDKLLRKGKLERYDIVLTTRGTVGNVAYYDELIKYKHLRINSGMVILRPKTPNLNQ-K 119

Query: 335 WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
           +++           +    +  L    +K++ + +PP+  Q +  + +     +ID    
Sbjct: 120 FIIHVLRNNNYSRVISGSAQPQLPITKLKKILLPLPPLALQNEFADFVV----QIDKSQL 175

Query: 395 KIEQSIVLLKERRSSFIAAAV 415
            I++S+  L+  + S +    
Sbjct: 176 AIQKSLEELETLKKSLMQEYF 196


>gi|159897809|ref|YP_001544056.1| type I restriction-modification system, S subunit [Herpetosiphon
           aurantiacus ATCC 23779]
 gi|159890848|gb|ABX03928.1| type I restriction-modification system, S subunit [Herpetosiphon
           aurantiacus ATCC 23779]
          Length = 58

 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 27/58 (46%), Gaps = 2/58 (3%)

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL-LKERRSSFIAAAV 415
            + +K+  + +PP+ EQ  I   +       D L +++ QS  L  +   ++ I  A+
Sbjct: 1   MKHIKKFILTLPPLAEQQRIVAKVEQLLGLCDQLEQQLAQSQDLGSRSL-AALIQHAL 57


>gi|327404936|ref|YP_004345774.1| restriction modification system DNA specificity domain-containing
           protein [Fluviicola taffensis DSM 16823]
 gi|327320444|gb|AEA44936.1| restriction modification system DNA specificity domain protein
           [Fluviicola taffensis DSM 16823]
          Length = 457

 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 59/414 (14%), Positives = 131/414 (31%), Gaps = 44/414 (10%)

Query: 29  PIKRFTK-LNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           P+   TK + TG   +          I YI  + + +     + K  + + +        
Sbjct: 43  PLGEVTKKVFTGGIFKRIFISNPEYGIPYISAQHMMNLNPLDVSKIISKKYTPRQEDMTL 102

Query: 82  AKGQILYGKLGPYLRKAIIADF--DGICSTQFL--VLQPKDVLPELLQGWLLSIDVTQRI 137
              QIL    G      +I +     I S   +  +     +L   L  +L +      I
Sbjct: 103 RHNQILLSCAGTVGNVRLIGNELDGIIGSQDIIRIIADNSKMLYGYLFAYLSTPTAYNYI 162

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           ++   G+ +   +   I  +P+PI    +QV I E I   +           + I  +  
Sbjct: 163 QSYIYGSVVPRIEPNTISKLPVPIISREKQVKIHELIKEASHLRTEANNTFSKLINEINT 222

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNIL 257
             +  +     K     ++      + +    +    +  + ++++ +    K I     
Sbjct: 223 LLEIEIERKNIKYSFRKIRDIKMFEKRLDASYNCGPGRRIYDVISKQDHITLKDISEIFH 282

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQI-------------------VDPGEIVFRFIDL 298
            + +G    K       L   S                         V  G  +      
Sbjct: 283 PMLFGKKQLKGSENGNFLFKSSSMMKMKPETDFVLSLRKVDLYSKLQVKEGWSLISRTGT 342

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSL 357
             +   +R  + +    I    + VKP+   S  +   ++S+   K+      G +++ +
Sbjct: 343 VGNV--VRINKTLADIYIDDHMIRVKPNENYSGLIFIYLKSFYGQKLIEFQKYGSVQEVI 400

Query: 358 KFEDVKRLPVLVPPIKEQFDITNV---INVETARIDVLV-------EKIEQSIV 401
             + ++R+P+    ++E   I      +   +++ID          E IE+ I 
Sbjct: 401 NSDYIERIPIPKFLLEE-KLIMRFNKEVKEASSKIDKAALNEFNSNELIEKEIE 453



 Score = 45.9 bits (107), Expect = 0.011,   Method: Composition-based stats.
 Identities = 20/175 (11%), Positives = 54/175 (30%), Gaps = 8/175 (4%)

Query: 241 VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQN 300
              +   N +     I +    N+     ++ +  K    +    +   +I+        
Sbjct: 57  FKRIFISNPEYGIPYISAQHMMNLNPLDVSKIISKKYTPRQEDMTLRHNQILLSCAGTVG 116

Query: 301 DKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKF 359
           + R + +      G      +      +   YL   + +        +   G +   ++ 
Sbjct: 117 NVRLIGNELDGIIGSQDIIRIIADNSKMLYGYLFAYLSTPTAYNYIQSYIYGSVVPRIEP 176

Query: 360 EDVKRLPVLVPPIKEQFDI------TNVINVETAR-IDVLVEKIEQSIVLLKERR 407
             + +LPV +   ++Q  I       + +  E       L+ +I   + +  ER+
Sbjct: 177 NTISKLPVPIISREKQVKIHELIKEASHLRTEANNTFSKLINEINTLLEIEIERK 231


>gi|326386413|ref|ZP_08208036.1| hypothetical protein Y88_2307 [Novosphingobium nitrogenifigens DSM
           19370]
 gi|326209074|gb|EGD59868.1| hypothetical protein Y88_2307 [Novosphingobium nitrogenifigens DSM
           19370]
          Length = 196

 Score = 52.1 bits (123), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 26/139 (18%), Positives = 46/139 (33%), Gaps = 15/139 (10%)

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP-HGIDSTYLAWLMRSYD 341
              + PG++VFR     N    +          +    +       +   YLAW +   D
Sbjct: 57  RYALQPGDVVFRSRGQPNFGYVVSGEMAEPIVALLPLIILRPSLDLVTPDYLAWAINQPD 116

Query: 342 LCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
             +   A   G   + +    ++ + + VP +  Q  I          I  L  K    +
Sbjct: 117 AQRQIDAEAQGQSLRMIPKGSLEGITIPVPDLSTQRAIVE--------IARLANKEAALL 168

Query: 401 VLLKERRSSFIAAAVTGQI 419
             L ERR+       TG++
Sbjct: 169 HQLAERRTQ-----FTGRV 182


>gi|227511527|ref|ZP_03941576.1| possible type Ic restriction-modification system, HsdS subunit
           [Lactobacillus buchneri ATCC 11577]
 gi|227085261|gb|EEI20573.1| possible type Ic restriction-modification system, HsdS subunit
           [Lactobacillus buchneri ATCC 11577]
          Length = 129

 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/112 (16%), Positives = 34/112 (30%), Gaps = 8/112 (7%)

Query: 25  WKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVES-GTGKYLPKDGNSRQSDTST 77
           W+   I    K+  G T +S        DI +    +V + G      K  +      S+
Sbjct: 18  WEQRKISELAKIQGGGTPDSTNSKFWNGDINWFTPTEVSNQGYLFESNKKISKSGLKHSS 77

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
             +   G +L       +    I       +  F  + P + +P      + 
Sbjct: 78  AKLMPVGTVLMTS-RAGVGNMGILSLPAATNQGFQSMIPNEDIPSYFLFSMH 128


>gi|212691984|ref|ZP_03300112.1| hypothetical protein BACDOR_01479 [Bacteroides dorei DSM 17855]
 gi|212665376|gb|EEB25948.1| hypothetical protein BACDOR_01479 [Bacteroides dorei DSM 17855]
          Length = 143

 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 21/135 (15%), Positives = 52/135 (38%), Gaps = 11/135 (8%)

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
              +  ++    I++            +     ++GI+      +    ID  YL + MR
Sbjct: 13  KKSSAWLIPANSIIYSNGATIGAISINKYPICTKQGILG----IIPNSNIDVEYLYYFMR 68

Query: 339 SYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
           S    K    + + G  ++   +D+  +   +P + +Q DI++ ++        L E IE
Sbjct: 69  SSYFQKEVERVVTEGTMKTAYLKDINHIKCPIPDLDKQKDISHALSSL-----SLKEDIE 123

Query: 398 QS-IVLLKERRSSFI 411
           +  +   + ++   +
Sbjct: 124 KQLLQKYQIQKQYLL 138


>gi|223984083|ref|ZP_03634236.1| hypothetical protein HOLDEFILI_01528 [Holdemania filiformis DSM
           12042]
 gi|223963939|gb|EEF68298.1| hypothetical protein HOLDEFILI_01528 [Holdemania filiformis DSM
           12042]
          Length = 148

 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 22/143 (15%), Positives = 48/143 (33%), Gaps = 11/143 (7%)

Query: 281 ETYQIVDPGEIVFRFIDLQNDK-RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
             Y ++  GE  +           S++       G +++ Y+       DS ++     S
Sbjct: 2   SGYYLLKNGEFAYNKSYSVGYDFGSIKRLDCYPMGALSTLYICFALKKHDSDFIKAYFDS 61

Query: 340 YDLCKVFYAMGS-GLRQ----SLKFEDVKRLPVLVP-PIKEQFDITNVINVETARIDVLV 393
               +  Y + + G R     ++  E+       +P    EQ  I + I      ++  +
Sbjct: 62  LKWYRDIYMISAEGARNHGLLNVPTEEFFDTKHYLPENTDEQRKIADFIIT----LEHRI 117

Query: 394 EKIEQSIVLLKERRSSFIAAAVT 416
           E  +  +  LK+ +   I     
Sbjct: 118 EAQQSLVDNLKKYKRGVIQHIFR 140


>gi|325680238|ref|ZP_08159800.1| type I restriction modification DNA specificity domain protein
           [Ruminococcus albus 8]
 gi|324108055|gb|EGC02309.1| type I restriction modification DNA specificity domain protein
           [Ruminococcus albus 8]
          Length = 528

 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 26/192 (13%), Positives = 52/192 (27%), Gaps = 8/192 (4%)

Query: 209 KGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKL 268
             L P   M    I W        ++                     I  +   +II+  
Sbjct: 27  FFLAPCFFMLVCAISW--EQRKVKDIADNTYGGGTPQTSIDSYWNGEIPWIQSQDIIENQ 84

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
                  K  S E         +    I +       + A +      +  ++++    I
Sbjct: 85  LFNVEPRKHISEEAISKSATKLVPKNSIAIVTRVGVGKLAFMPFSYCTSQDFLSLSGIQI 144

Query: 329 DSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-PIKEQFDITNVINVETA 387
           D  Y  + +    L K    +     + +  E++    + VP    EQ  I         
Sbjct: 145 DEKYATYSIYQM-LQKEKQNVQGTSIKGITIEEMLSKKIPVPCNSDEQGAIGAF----FH 199

Query: 388 RIDVLVEKIEQS 399
            +D L+   ++ 
Sbjct: 200 NLDTLITLHQRE 211



 Score = 42.5 bits (98), Expect = 0.13,   Method: Composition-based stats.
 Identities = 23/168 (13%), Positives = 48/168 (28%), Gaps = 13/168 (7%)

Query: 24  HWKVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVESGTGKYLP--KDGNSRQSD 74
            W+   +K       G  +           +I +I  +D+       +   K  +     
Sbjct: 41  SWEQRKVKDIADNTYGGGTPQTSIDSYWNGEIPWIQSQDIIENQLFNVEPRKHISEEAIS 100

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
            S   +  K  I        + K     F    S  FL       + E    + +   + 
Sbjct: 101 KSATKLVPKNSIAIVT-RVGVGKLAFMPFSYCTSQDFL-SLSGIQIDEKYATYSIYQMLQ 158

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPL-AEQVLIREKIIAETVRI 181
           +  +   +G ++     + + +  +P+P    EQ  I          I
Sbjct: 159 K-EKQNVQGTSIKGITIEEMLSKKIPVPCNSDEQGAIGAFFHNLDTLI 205


>gi|240146116|ref|ZP_04744717.1| type I restriction-modification system, S subunit [Roseburia
           intestinalis L1-82]
 gi|257201769|gb|EEV00054.1| type I restriction-modification system, S subunit [Roseburia
           intestinalis L1-82]
          Length = 178

 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 23/171 (13%), Positives = 57/171 (33%), Gaps = 12/171 (7%)

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL-------KPESYETYQIVDPGE 290
                    K+ K IE + + +       K    ++ L         + Y   + +  G+
Sbjct: 6   CCAKEIRRGKSPKYIEKSNVLVFAQKCNTKNNGIDISLAQYLDEDTLKRYPADEYMQNGD 65

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIIT-----SAYMAVKPHGIDSTYLAWLMRSYDLCKV 345
           +V          R        +   ++        +      I   +L   M+++     
Sbjct: 66  VVINSTGTGTLGRVGLYMAYDDNKKLSIVPDSHVTVIRGGSCIHPFFLYAFMKAHQSNLE 125

Query: 346 FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
               GS  ++ LK   ++ + + +P + EQ  I+  I+    ++ V+  ++
Sbjct: 126 KMGEGSTNQKELKPLTLRAMLIALPSLSEQKRISIAISTAFEQLSVIESQL 176


>gi|313158335|gb|EFR57737.1| conserved hypothetical protein [Alistipes sp. HGB5]
          Length = 140

 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 19/112 (16%), Positives = 37/112 (33%), Gaps = 2/112 (1%)

Query: 280 YETYQIVDPGEIVFRFIDLQNDKR--SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
             +  IV+ G+ V+   ++       S     V + G + S +  +              
Sbjct: 28  KSSAIIVEKGKFVYTGDNIILVDGENSGEVFTVPQDGYMGSTFKQLWLSSAMWKPYILAF 87

Query: 338 RSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
             +    +  +        L  E    LP+ +PP +EQ  I   IN  +  +
Sbjct: 88  ILFYKEDLRNSKRGAAIPHLNKELFYNLPIGIPPYQEQQRIAKRINKLSQLL 139


>gi|327390914|gb|EGE89254.1| type I restriction modification DNA specificity domain protein
           [Streptococcus pneumoniae GA04375]
          Length = 156

 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 20/158 (12%), Positives = 51/158 (32%), Gaps = 3/158 (1%)

Query: 232 WEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEI 291
             +K  +    +   + +             NII     + +  +       ++V    +
Sbjct: 1   MRIKSIYWNFGQNKPEKSFRYIDTSSIDRKKNIINYKNLQYLSPEQAPSRARKLVSQNSV 60

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
           +F  +       ++     ++  +I S    V    ++ TYL + + S +         +
Sbjct: 61  LFSTVRPYLKNIAVVR--ELKEYLIASTAFIVLDTLLNETYLKYYLLSDNFINRVNNKST 118

Query: 352 GLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
           G    ++   +   L + +P + EQ  I   I     +
Sbjct: 119 GTSYPAINDYNFNLLLIALPHLSEQQRIIEAIESALEK 156



 Score = 38.6 bits (88), Expect = 1.8,   Method: Composition-based stats.
 Identities = 28/145 (19%), Positives = 56/145 (38%), Gaps = 7/145 (4%)

Query: 42  SESGKDIIYIGLEDVESGTGKYLPKDG---NSRQSDTSTVSIFAKGQILYGKLGPYLRKA 98
           ++  K   YI    ++        K+    +  Q+ +    + ++  +L+  + PYL+  
Sbjct: 13  NKPEKSFRYIDTSSIDRKKNIINYKNLQYLSPEQAPSRARKLVSQNSVLFSTVRPYLKNI 72

Query: 99  IIA---DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIG 155
            +        I ST F+VL        L   +LLS +   R+     G +    +     
Sbjct: 73  AVVRELKEYLIASTAFIVLDTLLNETYLKY-YLLSDNFINRVNNKSTGTSYPAINDYNFN 131

Query: 156 NIPMPIPPLAEQVLIREKIIAETVR 180
            + + +P L+EQ  I E I +   +
Sbjct: 132 LLLIALPHLSEQQRIIEAIESALEK 156


>gi|299148891|ref|ZP_07041953.1| type I restriction-modification enzyme [Bacteroides sp. 3_1_23]
 gi|298513652|gb|EFI37539.1| type I restriction-modification enzyme [Bacteroides sp. 3_1_23]
          Length = 185

 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 15/87 (17%), Positives = 29/87 (33%)

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLP 366
             +    G   S +  +  +   +T     + +     +           L  +  K + 
Sbjct: 96  VFRTPIDGYQGSTFKLLSINYDMNTEYVLQVINLHRTILRENKVGSAIPHLNKKLFKAIE 155

Query: 367 VLVPPIKEQFDITNVINVETARIDVLV 393
           V +PP KEQ  I    N     +DV++
Sbjct: 156 VPIPPYKEQQRIVEAANKVFMSLDVIM 182


>gi|292630956|gb|AAF77188.2|AF264911_4 restriction and modification enzyme CjeI [Campylobacter jejuni]
          Length = 1273

 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 52/400 (13%), Positives = 126/400 (31%), Gaps = 30/400 (7%)

Query: 26   KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSR--QSDTSTVSIFAK 83
            ++V +     LN  R   S  +   I   ++ SG  K LP   N      + +      +
Sbjct: 892  ELVRLGEVCDLNKIRNQASATE---IEKMNLNSGNVKLLPSSKNYEWWTDEKTAGQFINE 948

Query: 84   GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
            G+++   +  Y             +   L ++ K  +       LL I   +  +   +G
Sbjct: 949  GEVITLGVARYANIKKHKGKFVSANNHILSVKDKSKIIFDFLYILLEICGQKLYK---QG 1005

Query: 144  ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA-- 201
                  D     +  +P+PPL  Q  I  +      + +TL      +  L+K   Q   
Sbjct: 1006 QQYPQFDTNIFYSFKIPLPPLEIQKQIVAECEKVEEQYNTLSLSIKEYQNLIKAMLQKCG 1065

Query: 202  LVSYIVTKGLNP------DVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESN 255
            ++       LN       ++   +   E++       +       + +L+     L    
Sbjct: 1066 IIEDNQEYELNSILDKINNLCKINLDSEFLSSFNKTIKEYALSNPIFKLSIGKRVLNNEL 1125

Query: 256  ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
            + +         +      +  E  + Y      + V   ID       +   +      
Sbjct: 1126 LENGQIPVYSANVLEVFGFVNKEILQDY----DNDSVLWGIDGDWMVGFIPKNKKFYPTD 1181

Query: 316  ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
                         ++ Y+++++      + F       +     + +K L V +  ++ Q
Sbjct: 1182 HCGVLRVDDTKI-NAKYISFILNEAGKKQGFSR-----KLRASIDRIKALRVKLISLEFQ 1235

Query: 376  FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
              I ++    T +I+  + + +  +  L++ +   +   +
Sbjct: 1236 DQIADI----TDKIEKKINEYKIELDRLEKEKEKILQKYL 1271



 Score = 50.2 bits (118), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 23/195 (11%), Positives = 58/195 (29%), Gaps = 11/195 (5%)

Query: 220  SGIEWVGLVPDHWEVKPFFALVTELNRKNTKL-IESNILSLSYGNIIQKLETRNMGLKPE 278
            S  E        +E+     +      +N     E   ++L+ GN+     ++N     +
Sbjct: 879  SRDELNPFKNSKYELVRLGEVCDLNKIRNQASATEIEKMNLNSGNVKLLPSSKNYEWWTD 938

Query: 279  SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
                 Q ++ GE++     L   + +       +     +  ++VK          +++ 
Sbjct: 939  EKTAGQFINEGEVI----TLGVARYANIKKHKGKFVSANNHILSVKDKSKIIFDFLYILL 994

Query: 339  SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
                 K++                    + +PP++ Q  I         + + L      
Sbjct: 995  EICGQKLYKQGQQ--YPQFDTNIFYSFKIPLPPLEIQKQIVAECEKVEEQYNTL----SL 1048

Query: 399  SIVLLKERRSSFIAA 413
            SI   +    + +  
Sbjct: 1049 SIKEYQNLIKAMLQK 1063


>gi|186685348|ref|YP_001868544.1| DNA methylase-type I restriction-modification system [Nostoc
           punctiforme PCC 73102]
 gi|186467800|gb|ACC83601.1| DNA methylase-type I restriction-modification system [Nostoc
           punctiforme PCC 73102]
          Length = 255

 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 26/162 (16%), Positives = 51/162 (31%), Gaps = 14/162 (8%)

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKP----ESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
             E     +  G++          +K      + +    +  G+I+F       +   + 
Sbjct: 68  YTEEGTPYIRVGDVKNGQINFESAVKIPITMANVDKSVGLQIGDIIFTRKGSFGNSAVVT 127

Query: 307 SAQVMERGIITSAYMAVK-----PHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ-SLKFE 360
             +V   GII+S  M V+        +   Y++  + S            G+   S+   
Sbjct: 128 ELEV--NGIISSEIMLVRLTSVSRQEVLPEYVSLFLNSKFGYLQVEHRVHGVAYYSISQP 185

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
           D+  L + + P  +Q  I   I    +    L  K    I  
Sbjct: 186 DLANLLIPILPKYQQQKIAEKIKSSFSL--KLKSKQLLEIAK 225



 Score = 45.6 bits (106), Expect = 0.015,   Method: Composition-based stats.
 Identities = 31/162 (19%), Positives = 66/162 (40%), Gaps = 11/162 (6%)

Query: 30  IKRFTK-LNTGRTSE--SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI-FAKGQ 85
           +    + +  G      + +   YI + DV++G   +               S+    G 
Sbjct: 52  LGSLIEPIQNGFDYREYTEEGTPYIRVGDVKNGQINFESAVKIPITMANVDKSVGLQIGD 111

Query: 86  ILYGKLGPYLRKAIIA--DFDGICSTQFLVLQP-----KDVLPELLQGWLLSIDVTQRIE 138
           I++ + G +   A++   + +GI S++ ++++      ++VLPE +  +L S     ++E
Sbjct: 112 IIFTRKGSFGNSAVVTELEVNGIISSEIMLVRLTSVSRQEVLPEYVSLFLNSKFGYLQVE 171

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
               G          + N+ +PI P  +Q  I EKI +    
Sbjct: 172 HRVHGVAYYSISQPDLANLLIPILPKYQQQKIAEKIKSSFSL 213


>gi|240125348|ref|ZP_04738234.1| Type I restriction enzyme EcoprrI specificity protein [Neisseria
           gonorrhoeae SK-92-679]
          Length = 203

 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 14/129 (10%), Positives = 42/129 (32%), Gaps = 5/129 (3%)

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP--HGIDSTYLAWLMRSYDLC 343
           V   +I      +   +  +      +     +   +       I   Y+ + +++ +  
Sbjct: 68  VPDKDIHREPSIIVKSRGIIEFEYYDKPFSHKNEMWSYHSVNKHIYIKYVYYFLKTQE-- 125

Query: 344 KVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
             F  +GS ++   +   D     + +P ++ Q  I  +++  T     L  ++      
Sbjct: 126 NYFRNIGSKMQMPQIATPDTDNYKIPIPSLETQQKIVKILDKFTELEATLEAELALRKRQ 185

Query: 403 LKERRSSFI 411
            +  R   +
Sbjct: 186 YRYYRDLLL 194


>gi|298674139|ref|YP_003725889.1| DNA methylase-type I restriction-modification system
           [Methanohalobium evestigatum Z-7303]
 gi|298287127|gb|ADI73093.1| DNA methylase-type I restriction-modification system
           [Methanohalobium evestigatum Z-7303]
          Length = 482

 Score = 51.7 bits (122), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 52/375 (13%), Positives = 113/375 (30%), Gaps = 48/375 (12%)

Query: 51  IGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICS-- 108
           I   D+E    +      N    +    +    G+I+  K+G   +  +I   +   S  
Sbjct: 79  IRTVDIEKDDFENDIIYINKHAYEFLEKTKVYGGEIIINKIGNAGKAYLIPPIEKKQSLG 138

Query: 109 -TQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQ 167
             QF++   + +    L  +L       ++     GA     D +   ++ +PI     Q
Sbjct: 139 MNQFMIRTNEKINNYYLYSYLAGKYGQNQLMQRVTGAVPLSIDKESTRSVLVPIFSHNFQ 198

Query: 168 VLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKM---------- 217
             +          I+  I       ++ KE K+ L+  +      P  K+          
Sbjct: 199 KNVA-------KAINLYIEYSKYSKKVFKECKKNLLEELGLDKWKPKHKLTFVKNFSDTI 251

Query: 218 KDSGIEWVGLVPDHWEVKPFFALVTELNR--------------KNTKLIESNILSLSYGN 263
           K   I+     P + E+                             + ++  I  +   +
Sbjct: 252 KSERIDAEYYQPKYEEIVNAIKNYKGGWDILGNVVTLEKGLEVGRNEYLDEGIPFVRVSD 311

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA- 322
           I          +    Y   +   P +    F        +    +  ++ I++   +  
Sbjct: 312 ISPFEIKEEKYISESLYSDIKHCQPQKDEILFTKDATPGIAHYLTEQPKKMIVSEGVLRL 371

Query: 323 --------VKPHGIDSTYLAWLMRSYDLCKVFYA-MGSGLRQSLKFEDVKRLPVLVPP-- 371
                    K   I++ YL  ++ S  L +     +G  +    + + VK + + + P  
Sbjct: 372 KNITIGSKNKHKEINNEYLTLVLNSIILKEQINRDVGGSVIIHWRPKQVKNVLIPILPEE 431

Query: 372 --IKEQFDITNVINV 384
             +K Q  I   +N 
Sbjct: 432 KRLKIQQKIIKSLNS 446



 Score = 39.8 bits (91), Expect = 0.79,   Method: Composition-based stats.
 Identities = 23/163 (14%), Positives = 51/163 (31%), Gaps = 5/163 (3%)

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
           K+       I ++       + +   +      +     V  GEI+   I        + 
Sbjct: 70  KSEPDYAHMIRTVDIEKDDFENDIIYINKHAYEFLEKTKVYGGEIIINKIGNAGKAYLIP 129

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ-SLKFEDVKRL 365
             +  +   +    +      I++ YL   +             +G    S+  E  + +
Sbjct: 130 PIEKKQSLGMNQFMIRTNEK-INNYYLYSYLAGKYGQNQLMQRVTGAVPLSIDKESTRSV 188

Query: 366 PVLVPPIKEQFDITNVIN--VETARIDVLVEKIEQSIVLLKER 406
            V +     Q ++   IN  +E ++    V K  +   LL+E 
Sbjct: 189 LVPIFSHNFQKNVAKAINLYIEYSKYSKKVFKECKK-NLLEEL 230


>gi|229606286|ref|YP_002876934.1| hypothetical protein VCD_001189 [Vibrio cholerae MJ-1236]
 gi|229607598|ref|YP_002878246.1| hypothetical protein VCD_002510 [Vibrio cholerae MJ-1236]
 gi|229607705|ref|YP_002878353.1| hypothetical protein VCD_002617 [Vibrio cholerae MJ-1236]
 gi|229608127|ref|YP_002878775.1| hypothetical protein VCD_003045 [Vibrio cholerae MJ-1236]
 gi|229368941|gb|ACQ59364.1| hypothetical protein VCD_001189 [Vibrio cholerae MJ-1236]
 gi|229370253|gb|ACQ60676.1| hypothetical protein VCD_002510 [Vibrio cholerae MJ-1236]
 gi|229370360|gb|ACQ60783.1| hypothetical protein VCD_002617 [Vibrio cholerae MJ-1236]
 gi|229370782|gb|ACQ61205.1| hypothetical protein VCD_003045 [Vibrio cholerae MJ-1236]
          Length = 424

 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 23/150 (15%), Positives = 58/150 (38%), Gaps = 8/150 (5%)

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV- 323
            ++               Y++V+  +  +  +  +N ++   +    E+ I++++Y    
Sbjct: 33  TKQFIPSIANTVGTDMSNYKVVEHHQFAYGPVTSRNGEKISVALLGEEKCIVSTSYTVFE 92

Query: 324 --KPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSL-KFEDVKRLPVLVPPIKEQFDITN 380
                 +D  YL    R  +  +    M  G  + L  ++++  + + VP I++Q +I  
Sbjct: 93  IVDTELLDPEYLMMWFRRSEFDRYARYMSHGTVRELFGWQEMCDVELPVPSIEKQREIVR 152

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSF 410
               E   ++  +   EQ    L+E   + 
Sbjct: 153 ----EYNVVNDRIALNEQLTKKLEETAQAI 178


>gi|322649128|gb|EFY45569.1| type I restriction enzyme EcoEI specificity protein [Salmonella
           enterica subsp. enterica serovar Montevideo str.
           OH_2009072675]
          Length = 165

 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 20/128 (15%), Positives = 43/128 (33%), Gaps = 13/128 (10%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           +PK W ++ +    KL  G + +      K +  I ++++ +G+G Y    G  +     
Sbjct: 2   VPKGWMLLQVSDICKLQNGNSFKPHEWDTKGLPIIRIQNL-NGSGNYNYFSGVPQD---- 56

Query: 77  TVSIFAKGQILYGKLGPYL---RKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
              +   GQ+L+   G         I     G+ +     +   + + E      L    
Sbjct: 57  -KWLVEPGQLLFSWAGTKGVSFGPFIWNGPKGVLNQHIYKVFANENVHEHWLYLALLHIT 115

Query: 134 TQRIEAIC 141
            +      
Sbjct: 116 QKIEAQAH 123


>gi|308190010|ref|YP_003922941.1| type I restriction modification DNA specificity domain protein
           [Mycoplasma fermentans JER]
 gi|307624752|gb|ADN69057.1| type I restriction modification DNA specificity domain protein
           [Mycoplasma fermentans JER]
          Length = 201

 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 18/134 (13%), Positives = 50/134 (37%), Gaps = 6/134 (4%)

Query: 272 NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST 331
           +     +  ++      G+I+ R  ++   + +L   +     I T+  +     G+   
Sbjct: 49  DNFYSNDHIDSQFFTKEGDIIVR--NMYPYEVALIKKEDQGILISTNFIVIRNLEGLLPK 106

Query: 332 YLAWLMRSYDLCKVF-YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVIN---VETA 387
           YLA+L+    +  +  +     + + +  + +  L V V  + EQ  I + ++       
Sbjct: 107 YLAYLLSIDVIKDLLVFKSAGSVSKHINNKILGSLNVKVISLNEQQRIIDYVDNSYKVNN 166

Query: 388 RIDVLVEKIEQSIV 401
                ++  ++ I 
Sbjct: 167 LYQEAIDLEKKRIE 180


>gi|313892864|ref|ZP_07826442.1| type I restriction modification DNA specificity domain protein
           [Veillonella sp. oral taxon 158 str. F0412]
 gi|313442591|gb|EFR61005.1| type I restriction modification DNA specificity domain protein
           [Veillonella sp. oral taxon 158 str. F0412]
          Length = 324

 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 39/323 (12%), Positives = 86/323 (26%), Gaps = 23/323 (7%)

Query: 62  KYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLP 121
                  +         ++   G I++ K+G  L+    A     C     V+  K    
Sbjct: 16  DNANNYIDEFDLSILKGNLIPAGTIVFAKIGEALKLNKRAITSCECLIDNNVIGIKPDDN 75

Query: 122 ELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
            +   +     +   +    E  T+       I  I + IPP+  Q      +       
Sbjct: 76  IINLLYFYYYLLKIDMLHYSESTTLPSVRKSTIEKIKVKIPPIDVQNKRVTILN------ 129

Query: 182 DTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALV 241
                               ++ Y V    N D+ +K   +E  G    +          
Sbjct: 130 ----------------ICHKIIKYQVELIHNLDLLVKSRFVEIFGAFNINCNNYNTIKFK 173

Query: 242 TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQND 301
             + + N    +   L           E                +        +  L+  
Sbjct: 174 DLIEQNNINEEDMVWLLNLDMIKPNTGEIIEKVYINRQNIPTSSISFNNGTVLYSKLRPY 233

Query: 302 KRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFE 360
              +  A     G      +    +G+ + YLA+ +R     +      +G     +  +
Sbjct: 234 LNKVVIADENGYGTSELIPLNSYKNGLTAEYLAYYLRQDSFVEYIKDKVTGAKMPRVAMD 293

Query: 361 DVKRLPVLVPPIKEQFDITNVIN 383
            ++ + ++ P    Q   ++ +N
Sbjct: 294 ILRNIDIIKPNYISQEQFSSFVN 316


>gi|189440819|ref|YP_001955900.1| restriction endonuclease S subunit [Bifidobacterium longum DJO10A]
 gi|189429254|gb|ACD99402.1| Restriction endonuclease S subunit [Bifidobacterium longum DJO10A]
          Length = 85

 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 17/87 (19%), Positives = 41/87 (47%), Gaps = 7/87 (8%)

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
            MA++P G+D+ +L   +    L ++     +     +  + ++  PV +P + EQ  I 
Sbjct: 1   MMALEPRGVDADFLWLFINQTGLYRIAD---TSTIPQINNKHIEPYPVDIPNMAEQQAIG 57

Query: 380 NVINVETARIDVLVEKIEQSIVLLKER 406
                  +R+D L+   ++  + +++R
Sbjct: 58  TF----FSRLDDLITLHQRKRLSIRQR 80


>gi|260910282|ref|ZP_05916958.1| type I restriction-modification system [Prevotella sp. oral taxon
           472 str. F0295]
 gi|260635606|gb|EEX53620.1| type I restriction-modification system [Prevotella sp. oral taxon
           472 str. F0295]
          Length = 224

 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 13/119 (10%), Positives = 32/119 (26%), Gaps = 7/119 (5%)

Query: 20  AIPKHWKVVPIKRFTKLNT-------GRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
            IP+ W+   ++   +           +  +   +   +    ++               
Sbjct: 85  EIPQGWEWCRLRDIIEGTNAGKSPNCEKRPKKEYEWGVLTTTAIQENVFLPTENKVLPPN 144

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
              ++      G IL  + GP  R  ++   D  C    L  +   +         + I
Sbjct: 145 YIVNSEHSVQYGDILITRAGPVNRTGVVCLVDKECGNLILSDKTVRIDYLRNYCNPIFI 203


>gi|284054869|ref|ZP_06385079.1| restriction endonuclease S subunits-like protein [Arthrospira
           platensis str. Paraca]
          Length = 197

 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 36/186 (19%), Positives = 67/186 (36%), Gaps = 24/186 (12%)

Query: 8   PQYKDSGVQWIGAIPKHWKVVPIKRFTKL---------NTGRTSESGKDIIYIGLEDVES 58
           P YK + V   G IP+ W+   I+   K          N G       D + +G+  + +
Sbjct: 15  PGYKQTEV---GVIPEDWEFCFIRDLIKQEIIEKPLDGNHGNIHPKSNDFVSVGIPFIMA 71

Query: 59  GTGKYLPKDGN------SRQSDTSTVSIFAKGQILYGKLGPYLRKAIIAD---FDGICST 109
                   D N        Q+D        +G IL    G     A++++      + + 
Sbjct: 72  NNVFNGVVDTNNCHFIKKEQADNLKKGFSFEGDILLTHKGTVGNVAVVSNILTEYIMLTP 131

Query: 110 Q---FLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAE 166
           Q   + V     +    ++ +  S     +I+++  G T ++       ++P  +PPL E
Sbjct: 132 QVTYYRVKDFNKLNNIFIKFYFQSSQFQDKIQSLSGGGTRAYIGINNQQSLPFLLPPLPE 191

Query: 167 QVLIRE 172
           Q  I  
Sbjct: 192 QKAIAS 197



 Score = 38.6 bits (88), Expect = 2.1,   Method: Composition-based stats.
 Identities = 20/152 (13%), Positives = 50/152 (32%), Gaps = 7/152 (4%)

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN----MGLKPESYETYQIVDPGEI 291
           P       ++ K+   +   I  +   N+   +   N    +  +            G+I
Sbjct: 46  PLDGNHGNIHPKSNDFVSVGIPFIMANNVFNGVVDTNNCHFIKKEQADNLKKGFSFEGDI 105

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITS--AYMAVKPHGIDSTYLAWLMRSYDLCKVFYA- 348
           +        +   + +       +      Y     + +++ ++ +  +S        + 
Sbjct: 106 LLTHKGTVGNVAVVSNILTEYIMLTPQVTYYRVKDFNKLNNIFIKFYFQSSQFQDKIQSL 165

Query: 349 MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
            G G R  +   + + LP L+PP+ EQ  I +
Sbjct: 166 SGGGTRAYIGINNQQSLPFLLPPLPEQKAIAS 197


>gi|307067136|ref|YP_003876102.1| restriction endonuclease S subunit [Streptococcus pneumoniae AP200]
 gi|306408673|gb|ADM84100.1| Restriction endonuclease S subunit [Streptococcus pneumoniae AP200]
          Length = 168

 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 13/119 (10%), Positives = 36/119 (30%), Gaps = 7/119 (5%)

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA----VKPHGIDSTYLAWL 336
                +   +++                     G++   ++      +   I S +L + 
Sbjct: 48  SEQVYLKHNQLITPVSTSLEHIGKFARIDKDYDGVVAGGFIFQLTPFESSEIISKFLLFN 107

Query: 337 MRSYDLCKVFY---AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
           + S    K       +      ++    +  L + + P +EQ  IT  +     +++ L
Sbjct: 108 LSSPLFYKQLKAITKLSGQALYNIPKTTLSELLIPLAPFEEQELITQKVEKLFEKVNQL 166


>gi|87124162|ref|ZP_01080012.1| type I site-specific deoxyribonuclease (specificity subunit)
          [Synechococcus sp. RS9917]
 gi|86168731|gb|EAQ69988.1| type I site-specific deoxyribonuclease (specificity subunit)
          [Synechococcus sp. RS9917]
          Length = 82

 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 16/83 (19%), Positives = 37/83 (44%), Gaps = 5/83 (6%)

Query: 15 VQWIGAIPKHWKVVPIKRFTKLNTGRTSESG----KDIIYIGLEDVESGTGKYLPKDGNS 70
          ++W+G +P+HW+ + ++  T+LN  +         K + ++ +E +       L ++   
Sbjct: 1  MEWLGEVPEHWEALRLRFATQLNPSKQEAKELGDQKMVSFLPMEAIGEHGSIRLEQE-KE 59

Query: 71 RQSDTSTVSIFAKGQILYGKLGP 93
               S  + F  G +   K+ P
Sbjct: 60 VGECLSGYTYFRDGDVCVAKITP 82


>gi|329963225|ref|ZP_08300962.1| hypothetical protein HMPREF9446_02555 [Bacteroides fluxus YIT
           12057]
 gi|328528921|gb|EGF55861.1| hypothetical protein HMPREF9446_02555 [Bacteroides fluxus YIT
           12057]
          Length = 136

 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 17/109 (15%), Positives = 39/109 (35%), Gaps = 7/109 (6%)

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLK 358
                   S    +  +I +          D  YL + +  ++       M       + 
Sbjct: 26  DGSGVGTVSYAQGKFSVIGTLNYLTVIGNNDLRYLYFALSVFNFQPYKTGMA---IPHIY 82

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARI----DVLVEKIEQSIVLL 403
           F+D  +  +  P + EQ  + NV++   +++    ++L    +Q + LL
Sbjct: 83  FKDYGKAKIYCPSLAEQKRVANVLDKLESKLFVEQELLASFNQQKLYLL 131


>gi|237721639|ref|ZP_04552120.1| type I restriction-modification system [Bacteroides sp. 2_2_4]
 gi|229449435|gb|EEO55226.1| type I restriction-modification system [Bacteroides sp. 2_2_4]
          Length = 202

 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 24/184 (13%), Positives = 58/184 (31%), Gaps = 14/184 (7%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILS--LSYGNIIQKLETRNMGLKPESYETYQ 284
            +P+ W       L   +N       E  +    +   N  +  +     ++    E   
Sbjct: 19  QLPNGWCTTTLKDLCENINGLWKGKKEPFVHVGVIRNANFTKDFKLDYSNIEYIDVEQRT 78

Query: 285 IVDP----GEIVFRFIDLQNDKRSLRSAQVMERGIITSA------YMAVKPHGIDSTYLA 334
                   G+++       ++    R+      G + S             + I S +L 
Sbjct: 79  FTKRHLMNGDLIVEKSGGSDNNPVGRTILYEGEGGVFSFSNFTMVLRIKYSNTILSKFLY 138

Query: 335 WLMRSYDLC--KVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
           + + +             +    +L  +    +P+ +PP  EQ  I + I +    +D++
Sbjct: 139 YYILAIYQTGAMRLMQTQTTGLHNLILDKFLLMPIYLPPSSEQKRIIDKIEMIFTTLDMI 198

Query: 393 VEKI 396
           +E +
Sbjct: 199 MESL 202



 Score = 42.1 bits (97), Expect = 0.16,   Method: Composition-based stats.
 Identities = 31/183 (16%), Positives = 63/183 (34%), Gaps = 19/183 (10%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTG------KYLPKDGNSRQS 73
            +P  W    +K   +   G     GK   ++ +  + +          Y   +    + 
Sbjct: 19  QLPNGWCTTTLKDLCENINGL--WKGKKEPFVHVGVIRNANFTKDFKLDYSNIEYIDVEQ 76

Query: 74  DTSTVSIFAKGQILYGKLG-----PYLRKAIIADFDGICSTQFLVL-----QPKDVLPEL 123
            T T      G ++  K G     P  R  +     G+ S     +         +L + 
Sbjct: 77  RTFTKRHLMNGDLIVEKSGGSDNNPVGRTILYEGEGGVFSFSNFTMVLRIKYSNTILSKF 136

Query: 124 LQGWLLSIDVTQRIEAICEGAT-MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
           L  ++L+I  T  +  +    T + +        +P+ +PP +EQ  I +KI      +D
Sbjct: 137 LYYYILAIYQTGAMRLMQTQTTGLHNLILDKFLLMPIYLPPSSEQKRIIDKIEMIFTTLD 196

Query: 183 TLI 185
            ++
Sbjct: 197 MIM 199


>gi|149026372|ref|ZP_01836527.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP23-BS72]
 gi|147929334|gb|EDK80333.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP23-BS72]
          Length = 297

 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 31/314 (9%), Positives = 85/314 (27%), Gaps = 26/314 (8%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V +     L  G+ +    +   +    ++    +       +   + +         
Sbjct: 2   KKVKLGEVLSLKKGKKATVLAEQTTLSQRYIQIDDLRNNNNLKFTESLNMTEAL---PDD 58

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW--LLSIDVTQRIEAICEG 143
           IL    G             + ST  ++ + +    +++  +  +     +Q +     G
Sbjct: 59  ILIAWDGANAGTVGYGLSGAVGSTITVLKKNERYKEKIISDYLGVFLESKSQYLRDHSTG 118

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           AT+ H +   + ++ + +  + EQ  I   +      I     +                
Sbjct: 119 ATIPHLNKNILLDLQLELLGIEEQENIICILNTIKRLITKRKFQLDELNL---------- 168

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
                  L      +  G   +    D+              + +    E   L L+  N
Sbjct: 169 -------LVKSRFNEMFGENKIFESIDNLFDIIDGDRGKNYPKSDELFSEEYCLFLNTKN 221

Query: 264 IIQKLETRN----MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
           + +   + +    +    +       ++  +IV        +          +   I S 
Sbjct: 222 VTKNGFSFDTKQFITKTKDKLLRKGKLERYDIVLTTRGTVGNVAYYDELIKYKHLRINSG 281

Query: 320 YMAVKPHGIDSTYL 333
            + ++P   +   L
Sbjct: 282 MVILRPKTPNHNLL 295


>gi|328675903|gb|AEB28578.1| conserved hypothetical protein [Francisella cf. novicida 3523]
          Length = 189

 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 27/136 (19%), Positives = 55/136 (40%), Gaps = 7/136 (5%)

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS--AYMAVKPHGIDS 330
                    ++     G+I+F    L+    ++   +     ++ S  A +      I  
Sbjct: 54  DTFIASKDLSFSCTQEGDIIF---GLRKPNGAVYIDKNHTNLLVQSYMAIIRCNTDIILP 110

Query: 331 TYLAWLMRSYDLCKVFYA--MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
            YLA+ + + D+         G    Q LK + +K + + +P I++Q  + +V+    + 
Sbjct: 111 EYLAFRLNTSDIQNQLQKDIQGGTAIQLLKIQSLKEVVIDIPNIEKQKQLISVLKTGYSE 170

Query: 389 IDVLVEKIEQSIVLLK 404
           I VL + I+    LLK
Sbjct: 171 IQVLEQIIQHKQQLLK 186


>gi|321310223|ref|YP_004192552.1| type I restriction-modification system, S subunit [Mycoplasma
           haemofelis str. Langford 1]
 gi|319802067|emb|CBY92713.1| type I restriction-modification system, S subunit [Mycoplasma
           haemofelis str. Langford 1]
          Length = 194

 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 15/126 (11%), Positives = 40/126 (31%), Gaps = 2/126 (1%)

Query: 274 GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL 333
             +    E    V  G++V    +     R   +    E  +  +A+       I     
Sbjct: 54  DERNHKVEDSHRVRYGDVVI--TNSYIAGRVGINLTDTEFILEGNAFKLEPNLEILDKKY 111

Query: 334 AWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
            +        ++   +  G    +    +++  + VP ++ Q +I   ++      + L 
Sbjct: 112 LYYFLMNSPQQIEQLISYGNVSIISKSSMEKFKIRVPDLETQKNIVRQLDAFWELREELR 171

Query: 394 EKIEQS 399
            + +Q 
Sbjct: 172 MRKQQK 177


>gi|261496174|ref|ZP_05992580.1| putative type I specificity subunit HsdS [Mannheimia haemolytica
           serotype A2 str. OVINE]
 gi|261308126|gb|EEY09423.1| putative type I specificity subunit HsdS [Mannheimia haemolytica
           serotype A2 str. OVINE]
          Length = 244

 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 23/170 (13%), Positives = 52/170 (30%), Gaps = 16/170 (9%)

Query: 247 KNTKLIESNILSLSYGNIIQ-KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
            +       I  +   ++ +  +   +  L P+ +          I+            +
Sbjct: 79  GSEAYQTEGIPFVRVSDLSKFGISQTDKYLHPKDFGNVVRPKKDSILLTKDGT----VGI 134

Query: 306 RSAQVMERGIITSAYMAVKPHGID---STYLAWLMRSYDLCKVFYAMGSG-LRQSLKFED 361
                 +  +ITS  +       D     YLA  + S  +         G + Q  K  +
Sbjct: 135 AYRVPQDLNVITSGAIVHLELKTDEVLPDYLALALNSPAVQLQAERDAGGSIIQHWKPSE 194

Query: 362 VKRLPVLVPPIKEQFDITNVINVETA-------RIDVLVEKIEQSIVLLK 404
           +  + + V P   Q  I++ +    A        ++     +EQ I  ++
Sbjct: 195 ILDVVIPVLPKNIQQTISDKVQQSFALRVESEVLLEKAKILVEQEIENMR 244


>gi|261366730|ref|ZP_05979613.1| conserved hypothetical protein [Subdoligranulum variabile DSM
           15176]
 gi|282571557|gb|EFB77092.1| conserved hypothetical protein [Subdoligranulum variabile DSM
           15176]
          Length = 174

 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 20/128 (15%), Positives = 50/128 (39%), Gaps = 10/128 (7%)

Query: 279 SYETYQIVDPGEI-VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID---STYLA 334
            +  Y++V  G+         + DK  +      + G++++ Y   +    +     YL 
Sbjct: 47  DFTKYKVVKRGQFTYIPDTSRRGDKIGIALLTDYDEGLVSNIYTVFEVKDENELLPEYLM 106

Query: 335 WLMRSYDLCKVFYAMGSGLRQSL-KFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
                 +  +       G  + +  ++++ ++ + VP I++Q  I    N  T RI+   
Sbjct: 107 LWFSRPEFDRYARFKSHGSVREIMDWDEMCKVELPVPSIEKQRSIVKAYNTITDRIE--- 163

Query: 394 EKIEQSIV 401
             +++ I 
Sbjct: 164 --LKRKIN 169


>gi|183597753|ref|ZP_02959246.1| hypothetical protein PROSTU_01054 [Providencia stuartii ATCC 25827]
 gi|188023033|gb|EDU61073.1| hypothetical protein PROSTU_01054 [Providencia stuartii ATCC 25827]
          Length = 204

 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 18/126 (14%), Positives = 44/126 (34%), Gaps = 7/126 (5%)

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI---DSTYLAWLMRSYD 341
            +  G+I+F     ++    +           +   + +K       ++ +L W +    
Sbjct: 69  WLKKGDILFSAKGAKHIASYVDGDLENTTCAPSLFLLHLKSKWQGLVNTQFLTWQLNQPP 128

Query: 342 LCKVFYAMGSGLRQ-SLKFEDVKRLPVLVPPIKEQFDITNVIN---VETARIDVLVEKIE 397
             + F     G    S++   +   P+ +P I+ Q  I  +      E A +  L+   +
Sbjct: 129 AQQYFKRSAEGSFHISIRKPVLAATPIALPSIETQNTIAKLYAASIKENALLHKLINNRQ 188

Query: 398 QSIVLL 403
           Q +  +
Sbjct: 189 QQLNAI 194


>gi|238923525|ref|YP_002937041.1| type I restriction-modification system specificity subunit
           [Eubacterium rectale ATCC 33656]
 gi|238875200|gb|ACR74907.1| type I restriction-modification system specificity subunit
           [Eubacterium rectale ATCC 33656]
          Length = 164

 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 13/126 (10%), Positives = 42/126 (33%), Gaps = 1/126 (0%)

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
            I + + + +  +  +     I+   +++     L      +   +           +  
Sbjct: 22  HIVEDDMKYISKEFCASLRKSILHENDLIIVRTGLPGT-CCVVPKEYDGCNCADVVLVKP 80

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
               ++  YLA  +  +   +V       +++    +  + + + +P I+ Q  I  V+ 
Sbjct: 81  NVDIVNPHYLAAYINMWGKKQVENNKVGAIQKHFNVKSAEEMLIDLPDIEYQNKIAKVLR 140

Query: 384 VETARI 389
               +I
Sbjct: 141 DINDKI 146



 Score = 39.8 bits (91), Expect = 0.96,   Method: Composition-based stats.
 Identities = 19/154 (12%), Positives = 51/154 (33%), Gaps = 3/154 (1%)

Query: 44  SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS-TVSIFAKGQILYGKLGPYLRKAIIAD 102
           + K + ++   +++            S++   S   SI  +  ++  + G      ++  
Sbjct: 6   TDKGVKFLRSLNIKPFHIVEDDMKYISKEFCASLRKSILHENDLIIVRTGLPGTCCVVPK 65

Query: 103 FDGICSTQ--FLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMP 160
               C+     LV    D++        +++   +++E    GA   H + K    + + 
Sbjct: 66  EYDGCNCADVVLVKPNVDIVNPHYLAAYINMWGKKQVENNKVGAIQKHFNVKSAEEMLID 125

Query: 161 IPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           +P +  Q  I + +     +I             
Sbjct: 126 LPDIEYQNKIAKVLRDINDKILNNEKINDYLAYQ 159


>gi|300727391|ref|ZP_07060804.1| type I restriction modification system, subunit S [Prevotella
           bryantii B14]
 gi|299775331|gb|EFI71928.1| type I restriction modification system, subunit S [Prevotella
           bryantii B14]
          Length = 185

 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 21/128 (16%), Positives = 41/128 (32%), Gaps = 5/128 (3%)

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
            Y    I D   +               S  +  +  + +    VK        + +L +
Sbjct: 57  DYINDYITDEELLCIAEDCGNYKAGEDSSYIINGKAWVNNHAHLVKAKEC--CEIKYLHQ 114

Query: 339 SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA---RIDVLVEK 395
              +  +   +    R  L  + +K +PVL+P I+ Q    ++          I   +E 
Sbjct: 115 YLKITDLMPYVSGTTRLKLTQKKMKEIPVLLPSIELQNKFVSIAEQADKSGFEIRKSIEA 174

Query: 396 IEQSIVLL 403
           I+  I  L
Sbjct: 175 IDNVIKSL 182


>gi|191639030|ref|YP_001988196.1| HsdS [Lactobacillus casei BL23]
 gi|190713332|emb|CAQ67338.1| HsdS [Lactobacillus casei BL23]
          Length = 190

 Score = 51.3 bits (121), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 40/179 (22%), Positives = 59/179 (32%), Gaps = 4/179 (2%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+    K    +     +     I  +  ED+ S  G+          S       F   
Sbjct: 15  WEKRKFKDL--VVRVNKTSDDSTIPSVEFEDIISKQGRLNKDVRLKINSKQGIY--FEPQ 70

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            +L+GKL PYL+  +   F G     F VL+    +       L+     Q +  I  G 
Sbjct: 71  DVLFGKLRPYLQNWLFPSFYGRAVGDFWVLRANSSVLSEYLFVLIQSPRFQIVANISSGT 130

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
            M  +DW  + N   PIP  +EQ  I +        I    +       L K   Q L 
Sbjct: 131 KMPRSDWNTVSNTSFPIPVQSEQRKIWQLFNVLDNLIAATQSRLSSLELLKKSLLQDLF 189



 Score = 48.3 bits (113), Expect = 0.002,   Method: Composition-based stats.
 Identities = 25/151 (16%), Positives = 48/151 (31%), Gaps = 8/151 (5%)

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI-VDPGEIVFRFIDLQNDKRSLR 306
           N    +S I S+ + +II K    N  ++ +      I  +P +++F  +          
Sbjct: 28  NKTSDDSTIPSVEFEDIISKQGRLNKDVRLKINSKQGIYFEPQDVLFGKLRPYLQNWLFP 87

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLP 366
           S        +   ++      + S YL  L++S     V             +  V    
Sbjct: 88  SFYGR---AVGDFWVLRANSSVLSEYLFVLIQSPRFQIVANISSGTKMPRSDWNTVSNTS 144

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIE 397
             +P   EQ  I          +D L+   +
Sbjct: 145 FPIPVQSEQRKI----WQLFNVLDNLIAATQ 171


>gi|188577906|ref|YP_001914835.1| HsdS polypeptide, part of CfrA family [Xanthomonas oryzae pv.
           oryzae PXO99A]
 gi|188522358|gb|ACD60303.1| HsdS polypeptide, part of CfrA family [Xanthomonas oryzae pv.
           oryzae PXO99A]
          Length = 151

 Score = 50.9 bits (120), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 19/113 (16%), Positives = 35/113 (30%), Gaps = 9/113 (7%)

Query: 20  AIPKHWKVVPIKRFTKLNTG--RTS---ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
            +P  W    I  F  +  G  +T       +   Y+ + +V+ G       +      D
Sbjct: 16  ELPAGWSSYKIGEFCTVQGGIQKTPLRRPVSQHFPYLRVANVQRGRIDLRQLERYELSLD 75

Query: 75  TSTVSIFAKGQILY----GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPEL 123
                  + G +L     G      R AI       C  Q  +++ +  + E 
Sbjct: 76  ELEKWRLSAGDLLIVEGNGSESEIGRCAIWQGEVEDCVYQNHLMRVRPQISEQ 128


>gi|124008032|ref|ZP_01692731.1| conserved hypothetical protein [Microscilla marina ATCC 23134]
 gi|123986446|gb|EAY26252.1| conserved hypothetical protein [Microscilla marina ATCC 23134]
          Length = 206

 Score = 50.9 bits (120), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 10/105 (9%), Positives = 35/105 (33%), Gaps = 5/105 (4%)

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA-----VKPHGIDSTYLAW 335
              +++   +++F     +N    L +    E  + ++ +            +   Y+ W
Sbjct: 63  NEDRLLHRSDLLFVAKGDRNTTIPLSNLSTDEYAVPSNHFFILRYKRDWKSRLHLEYVVW 122

Query: 336 LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
            +                 +++  + ++ + V +P ++ Q  I  
Sbjct: 123 YLNEAAQGYFAQQGTGATVKNISMKVLENIEVPLPALQVQQKIAQ 167


>gi|301633171|gb|ADK86725.1| type I restriction modification DNA specificity domain protein
           [Mycoplasma pneumoniae FH]
          Length = 315

 Score = 50.9 bits (120), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 39/352 (11%), Positives = 90/352 (25%), Gaps = 43/352 (12%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS--IFAK 83
           K   IK   +++ G+             E + +  G+Y    G++               
Sbjct: 4   KTYKIKDICEISRGKAITK---------EYIRANPGEYPVYSGSTLNDGEIGRIDECEFD 54

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
           G+ +   +  Y       +     S    VL+ K    E+   +L      +  + +   
Sbjct: 55  GEYVTWTIDGYAGIVFYRNERFNASQHCGVLKVKS--NEICPKFLAYALGMEAPKHVNNA 112

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
             + +   K +  I +  P    Q  I   +   T     L   + ++            
Sbjct: 113 CVIPNLTLKKMREIELDFPSKKIQEKIATILDTFTELSAELRERKKQYAFYRDYL----- 167

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFA-LVTELNRKNTKLIESNILSLSYG 262
                  LN +   K  G           ++                   E+ + S +  
Sbjct: 168 -------LNQENIRKIYGANIPFETFQVKDICEIRRGRAITKAYIRNNPGENPVYSAATT 220

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
           N  +    ++     E                     N    +   +  +        + 
Sbjct: 221 NDGELGRIKDCDFDGEYI---------------TWTTNGYAGVVFYRNGKFNASQDCGVL 265

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKE 374
              +    T     +   +  K  + + S  R  L  + +  + +  PP++ 
Sbjct: 266 KFKNKKICTKFLSFLLKIEAPKFVHNLAS--RPKLSQKVMAEIELSFPPLEI 315



 Score = 46.7 bits (109), Expect = 0.008,   Method: Composition-based stats.
 Identities = 15/121 (12%), Positives = 37/121 (30%), Gaps = 7/121 (5%)

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
           +    +      +               + VK + I   +LA+ +       V  A    
Sbjct: 57  YVTWTIDGYAGIVFYRNERFNASQHCGVLKVKSNEICPKFLAYALGMEAPKHVNNAC--- 113

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           +  +L  + ++ + +  P  K Q  I  +++  T     L  ++ +        R   + 
Sbjct: 114 VIPNLTLKKMREIELDFPSKKIQEKIATILDTFTE----LSAELRERKKQYAFYRDYLLN 169

Query: 413 A 413
            
Sbjct: 170 Q 170


>gi|312862776|ref|ZP_07723016.1| conserved hypothetical protein [Streptococcus vestibularis F0396]
 gi|322516814|ref|ZP_08069716.1| type I restriction-modification system specificty subunit
           [Streptococcus vestibularis ATCC 49124]
 gi|311101636|gb|EFQ59839.1| conserved hypothetical protein [Streptococcus vestibularis F0396]
 gi|322124651|gb|EFX96115.1| type I restriction-modification system specificty subunit
           [Streptococcus vestibularis ATCC 49124]
          Length = 206

 Score = 50.9 bits (120), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 29/186 (15%), Positives = 63/186 (33%), Gaps = 8/186 (4%)

Query: 26  KVVPIKRFTKLNTGRTSESG---KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           K+V +        G+   +     +   I L D+      Y      S +       +  
Sbjct: 19  KLVRLGDVVDQFKGKAVPAKAEPGEFAVINLSDMTPNGIAYDDLKTFSEERRKLLRFLLE 78

Query: 83  KGQILYGKLGPYLRKAIIAD---FDGICSTQFLVLQPKDVLPELLQGWLLSIDV-TQRIE 138
            G +L    G   + A+  D    + + S+   VL+PK+ L      + L  ++    ++
Sbjct: 79  DGDVLIASKGTVQKVAVFEDQGKREVVASSNITVLRPKEKLRGFYIKFFLETEIGRAYLD 138

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQ-VLIREKIIAETVRIDTLITERIRFIELLKE 197
              +G  + +     + +I +P  P+ +Q   I   +         +I     +  +   
Sbjct: 139 YADKGKAVLNLSTADLLDIKIPEIPIVKQDYQIAAYLRGRADYHRKMIRAEQEWENIQHN 198

Query: 198 KKQALV 203
             +AL 
Sbjct: 199 VTEALF 204



 Score = 37.9 bits (86), Expect = 3.7,   Method: Composition-based stats.
 Identities = 10/102 (9%), Positives = 30/102 (29%), Gaps = 2/102 (1%)

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
             +++ G+++                   E    ++  +      +   Y+ + + +   
Sbjct: 74  RFLLEDGDVLIASKGTVQKVAVFEDQGKREVVASSNITVLRPKEKLRGFYIKFFLETEIG 133

Query: 343 CKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQF-DITNVI 382
                    G    +L   D+  + +   PI +Q   I   +
Sbjct: 134 RAYLDYADKGKAVLNLSTADLLDIKIPEIPIVKQDYQIAAYL 175


>gi|300727389|ref|ZP_07060802.1| putative type I restriction enzyme EcoKI specificity protein
           [Prevotella bryantii B14]
 gi|299775329|gb|EFI71926.1| putative type I restriction enzyme EcoKI specificity protein
           [Prevotella bryantii B14]
          Length = 248

 Score = 50.9 bits (120), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 26/156 (16%), Positives = 54/156 (34%), Gaps = 8/156 (5%)

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYE--TYQIVDPGEIVFRFIDLQNDKRSL 305
             +  +S  + L   NII      +  +  ++    T Q++  G+IV    +        
Sbjct: 30  KEETSDSISVILRSNNIINGQINFDDVVYVDNKRVTTEQVLSKGDIVMCGSNGSKKLVGK 89

Query: 306 RSAQVMERGIITS----AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFE 360
            +         TS             I   YL+   ++    +V   +GSG    ++K E
Sbjct: 90  AAMINTIPSYRTSFGAFCLGIRCKESILPEYLSVYFQTPKYREVIEFLGSGSNILNIKPE 149

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETAR-IDVLVEK 395
            +  L + +P +++Q     +         D L+ +
Sbjct: 150 HIYNLEIPIPSLEDQKHFVTIAEQADKSGFDGLISQ 185


>gi|321309734|ref|YP_004192063.1| type I restriction-modification system, S subunit [Mycoplasma
           haemofelis str. Langford 1]
 gi|319801578|emb|CBY92224.1| type I restriction-modification system, S subunit [Mycoplasma
           haemofelis str. Langford 1]
          Length = 206

 Score = 50.9 bits (120), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 31/209 (14%), Positives = 74/209 (35%), Gaps = 24/209 (11%)

Query: 214 DVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNM 273
           +   K      +G     +            N     LI+ ++  +            N 
Sbjct: 14  NHCPKGIPWRAIGDFSIVFYEGRLLERHIVPNGDTPCLIQRDLSVMKGNRFSSCNHMVNE 73

Query: 274 GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL 333
           GL        +  + G I+F  I    D+         +  ++    +++  H  +  +L
Sbjct: 74  GLVA----NKRYFEKGSILFSRIGDSLDQVGKAFIYEGDEFVLAGNDISILKHNQNPEFL 129

Query: 334 AWLMRSYDLCKVFYAMGSGLRQS--LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
             ++ S+++           +++  ++ ED+K + V +PP++ Q       ++  A +  
Sbjct: 130 IRILNSHEVRHQVIQNTY-KQKTFLIEHEDLKMIMVPLPPVEIQ-------DLVMAEL-- 179

Query: 392 LVEKIEQSIVLLKERRSSFIAAAVTGQID 420
             E  E+ I   + +R+S +     G+I 
Sbjct: 180 --EVKEREIEE-QRQRNSLM-----GKIK 200



 Score = 38.2 bits (87), Expect = 2.2,   Method: Composition-based stats.
 Identities = 28/180 (15%), Positives = 61/180 (33%), Gaps = 10/180 (5%)

Query: 22  PKHWKVVPIKRFTKLNTG-----RTSESGKDIIYIGLEDVESGTG-KYLPKDGNSRQSDT 75
           PK      I  F+ +        R      D   +   D+    G ++   +    +   
Sbjct: 17  PKGIPWRAIGDFSIVFYEGRLLERHIVPNGDTPCLIQRDLSVMKGNRFSSCNHMVNEGLV 76

Query: 76  STVSIFAKGQILYGKLGP----YLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
           +    F KG IL+ ++G       +  I    + + +   + +   +  PE L   L S 
Sbjct: 77  ANKRYFEKGSILFSRIGDSLDQVGKAFIYEGDEFVLAGNDISILKHNQNPEFLIRILNSH 136

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
           +V  ++            + + +  I +P+PP+  Q L+  ++  +   I+         
Sbjct: 137 EVRHQVIQNTYKQKTFLIEHEDLKMIMVPLPPVEIQDLVMAELEVKEREIEEQRQRNSLM 196


>gi|257466154|ref|ZP_05630465.1| hypothetical protein FgonA2_01770 [Fusobacterium gonidiaformans
           ATCC 25563]
 gi|315917311|ref|ZP_07913551.1| conserved hypothetical protein [Fusobacterium gonidiaformans ATCC
           25563]
 gi|313691186|gb|EFS28021.1| conserved hypothetical protein [Fusobacterium gonidiaformans ATCC
           25563]
          Length = 159

 Score = 50.9 bits (120), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 29/156 (18%), Positives = 49/156 (31%), Gaps = 5/156 (3%)

Query: 29  PIKRFTKLNTGRTSESG-KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
            +        G+   S   +  YI  E++    G                  I+ K  +L
Sbjct: 4   RLSDICHYVKGKVDVSELDNSTYISTENMLPDKGGVTEAASLPTTL---QTQIYEKDDVL 60

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL-PELLQGWLLSIDVTQRIEAICEGATM 146
              + PY +K   AD +G CS   LV +  + + P  L   L          A  +G  M
Sbjct: 61  VSNIRPYFKKIWFADQNGGCSNDVLVFRANEGVEPGFLYYVLADDKFFDFSMATSKGTKM 120

Query: 147 SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
              D K +    +    +  Q  +   +     +I 
Sbjct: 121 PRGDKKALMEYEVLDFNIDTQKKVASLLGDIDEKIR 156



 Score = 45.2 bits (105), Expect = 0.022,   Method: Composition-based stats.
 Identities = 18/158 (11%), Positives = 42/158 (26%), Gaps = 4/158 (2%)

Query: 233 EVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIV 292
                  +   +  K       N   +S  N++             +    QI +  +++
Sbjct: 1   MKYRLSDICHYVKGKVDVSELDNSTYISTENMLPDKGGVTEAASLPTTLQTQIYEKDDVL 60

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
              I     K           G      +     G++  +L +++          A   G
Sbjct: 61  VSNIRPYFKKIWFA---DQNGGCSNDVLVFRANEGVEPGFLYYVLADDKFFDFSMATSKG 117

Query: 353 L-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
                   + +    VL   I  Q  + +++     +I
Sbjct: 118 TKMPRGDKKALMEYEVLDFNIDTQKKVASLLGDIDEKI 155


>gi|126665392|ref|ZP_01736374.1| putative type I restriction-modification system specificity protein
           [Marinobacter sp. ELB17]
 gi|126630020|gb|EBA00636.1| putative type I restriction-modification system specificity protein
           [Marinobacter sp. ELB17]
          Length = 389

 Score = 50.9 bits (120), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 40/342 (11%), Positives = 85/342 (24%), Gaps = 49/342 (14%)

Query: 86  ILYGKLGPY---LRKAIIADFDGICSTQFLVLQPKDVLP-ELLQGWLLSIDVTQRIEAIC 141
           +L  + G                  +    V++ K  L    L  +L  ++      +  
Sbjct: 69  VLIAEDGSASLENYSIQYVSGKFWANNHVHVIRGKSGLNTRFLYHYLCIVNFI----SFL 124

Query: 142 EGATMSHADWKGIGNIPMPIPP-------LAEQVLIREKIIAETVRIDTLITERIRFIEL 194
            G   +      +  IP+ IP        L  Q  I   +   T     L  E     + 
Sbjct: 125 TGGGRAKLTKGKMVEIPISIPCPENPKRSLEIQAEIVRILDTFTELTAELTAELTARKKQ 184

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIES 254
               +  L+S              +  +EW                V ++         +
Sbjct: 185 YNYYRDQLLS------------FGEGEVEW-----------KELDDVFDIFAGGDAPKGA 221

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
                +    +  L           +     ++   +               S +     
Sbjct: 222 LSNIETEEFNVPILSNGIGDRSLYGWTNKAKIEKPSLTISARGTIGWT----SFRDKPFF 277

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKE 374
            I    +      ++  Y  + M++    +  Y +       L    VK     VP    
Sbjct: 278 PIVRLLVLSPKIDLNLKYAYYFMKT---IEDAYNVPQNGIPQLTKPMVKDKKFPVPSPGV 334

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           Q  I   ++        + E + + I L ++     R   ++
Sbjct: 335 QARIVATLDKFDTLTSSITEGLPREIALRQQQYEYYRDFLLS 376


>gi|284795029|gb|ADB93815.1| restriction modification system DNA specificity domain [Yersinia
           enterocolitica]
          Length = 143

 Score = 50.9 bits (120), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 20/145 (13%), Positives = 45/145 (31%), Gaps = 10/145 (6%)

Query: 24  HWKVVPIKRFTKLNTGRTSE-------SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            W+   + +  ++ TG T         S   I ++   D+         K  +       
Sbjct: 2   GWEEKNVDQLGEIITGSTPSTQNSNNYSNDGIPWVTPTDISRNVTFNTAKKLSQTGCKV- 60

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
              I  K  IL   +    +  I+    G  + Q   + P +   +    +  SI  +++
Sbjct: 61  -ARIVPKDTILVTCIASIGKNTIL-GTQGSFNQQINGVVPNEKENDPYFLFSASILWSEK 118

Query: 137 IEAICEGATMSHADWKGIGNIPMPI 161
           ++      TM   +      +   +
Sbjct: 119 LKRSAASGTMQIVNKTEFSELKTRV 143


>gi|166363246|ref|YP_001655519.1| putative restriction modification system protein [Microcystis
           aeruginosa NIES-843]
 gi|166085619|dbj|BAG00327.1| putative restriction modification system protein [Microcystis
           aeruginosa NIES-843]
          Length = 135

 Score = 50.9 bits (120), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 19/140 (13%), Positives = 43/140 (30%), Gaps = 6/140 (4%)

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD 341
                + G+I+F  I       ++      E  I   A          S    +      
Sbjct: 2   QRSRPETGDIIFSNIGTLG--STVLVDNEFEFSIKNVALFKPFDKNYSSFIFLYFSDPAT 59

Query: 342 LCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
           L K+        ++    + ++ L +L P         +V+     +       + +   
Sbjct: 60  LRKMEIQSSGTSQKFFSLKFLRGLHILTPNKTLLRLFNDVVEPALKQ----RSLLHKYNQ 115

Query: 402 LLKERRSSFIAAAVTGQIDL 421
            LK+ R   +   + G+I++
Sbjct: 116 KLKQARDILLPKLMNGEIEV 135


>gi|325680256|ref|ZP_08159818.1| type I restriction modification DNA specificity domain protein
           [Ruminococcus albus 8]
 gi|324108073|gb|EGC02327.1| type I restriction modification DNA specificity domain protein
           [Ruminococcus albus 8]
          Length = 175

 Score = 50.9 bits (120), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 14/80 (17%), Positives = 31/80 (38%), Gaps = 5/80 (6%)

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDIT 379
           + V    I+  +LA  + + +  K       G     +   D++ + +L P  +EQ  I 
Sbjct: 74  IIVPDDYINPVFLALTISNGNQQKELSKRAQGKSVVHIHNSDLENVVLLYPKYEEQEKIG 133

Query: 380 NVINVETARIDVLVEKIEQS 399
                  +++D L+   +  
Sbjct: 134 EY----FSKLDSLITLHQHK 149


>gi|189501457|ref|YP_001960927.1| hypothetical protein Cphamn1_2552 [Chlorobium phaeobacteroides BS1]
 gi|189496898|gb|ACE05446.1| conserved hypothetical protein [Chlorobium phaeobacteroides BS1]
          Length = 196

 Score = 50.9 bits (120), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 26/127 (20%), Positives = 55/127 (43%), Gaps = 9/127 (7%)

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID---STYLAWLM 337
           + +  V  G++VFR   L      L   + + R ++ +  + ++ +  D   S YL+W +
Sbjct: 57  KEHHFVRKGDLVFRSRGLVTTSALL--LEDVGRAVVAAPLLRIRVNDPDKVLSEYLSWYL 114

Query: 338 RSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNV--INVETAR-IDVLV 393
              +      +   G  ++ +  E +  L V +P ++ Q  I  +  ++    + +  L 
Sbjct: 115 NQREAQVFLDSRAKGTFQKMIGKEAIDDLEVYLPSLERQKHIVELAGLSAREKQMLHELA 174

Query: 394 EKIEQSI 400
           EK EQ I
Sbjct: 175 EKREQYI 181



 Score = 42.9 bits (99), Expect = 0.091,   Method: Composition-based stats.
 Identities = 26/154 (16%), Positives = 50/154 (32%), Gaps = 11/154 (7%)

Query: 30  IKRFTKLNTGRTS------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           +K    +  G +         G D+  I ++D+                S         K
Sbjct: 5   LKELATVQVGYSFRSRLEVSEGGDVAVIQMKDLRDDNVVDCSDLAKIDMSGMKEHHFVRK 64

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQ-----FLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           G +++   G     A++ +  G            V  P  VL E L  +L   +    ++
Sbjct: 65  GDLVFRSRGLVTTSALLLEDVGRAVVAAPLLRIRVNDPDKVLSEYLSWYLNQREAQVFLD 124

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIRE 172
           +  +G        + I ++ + +P L  Q  I E
Sbjct: 125 SRAKGTFQKMIGKEAIDDLEVYLPSLERQKHIVE 158


>gi|321310229|ref|YP_004192558.1| type I restriction-modification system, S subunit (fragment)
           [Mycoplasma haemofelis str. Langford 1]
 gi|319802073|emb|CBY92719.1| type I restriction-modification system, S subunit (fragment)
           [Mycoplasma haemofelis str. Langford 1]
          Length = 153

 Score = 50.9 bits (120), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 18/150 (12%), Positives = 46/150 (30%), Gaps = 7/150 (4%)

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
           K                  V  G++V         + ++    +    I++S    + P+
Sbjct: 3   KENLFYCDDANHKISDAHRVQYGDVVITNSAPSPRRVAINLTNL--EFILSSHVFKLDPN 60

Query: 327 G-IDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
             I      +        +V   +      ++    V+   +LVP ++ Q  I   ++  
Sbjct: 61  PEILDRKYLYYFLENSPQQVERMITFKNVSAINVSSVESFKILVPDLETQRSIAAKLDKL 120

Query: 386 TARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
               + L  +  Q +      R+  ++  +
Sbjct: 121 RELREELKMRKRQGVY----YRNKIMSNLL 146



 Score = 42.1 bits (97), Expect = 0.17,   Method: Composition-based stats.
 Identities = 19/136 (13%), Positives = 46/136 (33%), Gaps = 2/136 (1%)

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIA--DFDGICSTQFLVLQPKDVLPELLQGWLL 129
               S       G ++     P  R+  I   + + I S+    L P   + +    +  
Sbjct: 13  NHKISDAHRVQYGDVVITNSAPSPRRVAINLTNLEFILSSHVFKLDPNPEILDRKYLYYF 72

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
             +  Q++E +     +S  +   + +  + +P L  Q  I  K+       + L   + 
Sbjct: 73  LENSPQQVERMITFKNVSAINVSSVESFKILVPDLETQRSIAAKLDKLRELREELKMRKR 132

Query: 190 RFIELLKEKKQALVSY 205
           + +    +    L+ +
Sbjct: 133 QGVYYRNKIMSNLLEH 148


>gi|257452047|ref|ZP_05617346.1| hypothetical protein F3_03205 [Fusobacterium sp. 3_1_5R]
 gi|317058595|ref|ZP_07923080.1| conserved hypothetical protein [Fusobacterium sp. 3_1_5R]
 gi|313684271|gb|EFS21106.1| conserved hypothetical protein [Fusobacterium sp. 3_1_5R]
          Length = 160

 Score = 50.9 bits (120), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 29/156 (18%), Positives = 49/156 (31%), Gaps = 5/156 (3%)

Query: 29  PIKRFTKLNTGRTSESG-KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
            +        G+   S   +  YI  E++    G                  I+ K  +L
Sbjct: 4   RLSDICHYVKGKVDVSELDNSTYISTENMLPDKGGVTEAASLPTTL---QTQIYEKDDVL 60

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL-PELLQGWLLSIDVTQRIEAICEGATM 146
              + PY +K   AD +G CS   LV +  + + P  L   L          A  +G  M
Sbjct: 61  VSNIRPYFKKIWFADQNGGCSNDVLVFRANEGVEPGFLYYVLADDKFFDFSMATSKGTKM 120

Query: 147 SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
              D K +    +    +  Q  +   +     +I 
Sbjct: 121 PRGDKKALMEYEVLDFNIDTQKKVASLLGDIDEKIR 156



 Score = 45.2 bits (105), Expect = 0.022,   Method: Composition-based stats.
 Identities = 18/158 (11%), Positives = 42/158 (26%), Gaps = 4/158 (2%)

Query: 233 EVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIV 292
                  +   +  K       N   +S  N++             +    QI +  +++
Sbjct: 1   MKYRLSDICHYVKGKVDVSELDNSTYISTENMLPDKGGVTEAASLPTTLQTQIYEKDDVL 60

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
              I     K           G      +     G++  +L +++          A   G
Sbjct: 61  VSNIRPYFKKIWFA---DQNGGCSNDVLVFRANEGVEPGFLYYVLADDKFFDFSMATSKG 117

Query: 353 L-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
                   + +    VL   I  Q  + +++     +I
Sbjct: 118 TKMPRGDKKALMEYEVLDFNIDTQKKVASLLGDIDEKI 155


>gi|189467608|ref|ZP_03016393.1| hypothetical protein BACINT_03998 [Bacteroides intestinalis DSM
           17393]
 gi|189435872|gb|EDV04857.1| hypothetical protein BACINT_03998 [Bacteroides intestinalis DSM
           17393]
          Length = 127

 Score = 50.9 bits (120), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 15/127 (11%), Positives = 42/127 (33%), Gaps = 17/127 (13%)

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM-RSYDLCKV--FYAMGSGLRQSLKF 359
             +      E    ++ Y+ +      S+   + + R++D          GS  RQ +  
Sbjct: 5   AFINFLDKNEIAYGSTEYIVISAKSNYSSSFFYFLARNHDFVDYAVKNMNGSSGRQRVSG 64

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR-----SSFIAAA 414
           + + +  + V P +        +   T   +  +         L+  R      + +   
Sbjct: 65  DTISKYRIPVIPRE-------KLESFTNHAE--IALKTIKNNSLQNMRLSMTRDALLPKL 115

Query: 415 VTGQIDL 421
           ++G++ +
Sbjct: 116 MSGELKV 122


>gi|225550830|ref|ZP_03771779.1| restriction-modification enzyme subunit s3a [Ureaplasma urealyticum
           serovar 2 str. ATCC 27814]
 gi|225379984|gb|EEH02346.1| restriction-modification enzyme subunit s3a [Ureaplasma urealyticum
           serovar 2 str. ATCC 27814]
          Length = 346

 Score = 50.9 bits (120), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 43/377 (11%), Positives = 108/377 (28%), Gaps = 41/377 (10%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
            +    ++ T    ++  +I   GL  +            N+         ++    I  
Sbjct: 6   KLSSVFEIITTGKQKNTFNINLEGLYPL------ISASTANNGIMGYVDNYLYDGQNITI 59

Query: 89  GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ-GWLLSIDVTQRIEAICEGATMS 147
            ++G             +    F++ +    + ++    +LL ++  ++I +I  G T  
Sbjct: 60  SRVGNAGTTFYHEGKISLTDNCFILSRINKKIAKVKYVFYLLKLNEDKKIRSISHGTTRK 119

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
             +   + N+ + +P +  Q  I   I    +  + +   +    +LL            
Sbjct: 120 IINKTDLDNLIIYLPSIEIQNAIISIIEPLDILENKINKLKTVLKKLLINIYDK------ 173

Query: 208 TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK 267
                                 +       F        K          S      I  
Sbjct: 174 ----------------------NCNSHVNLFENNKIYTNKYLNQNLYCDTSCIGELEINF 211

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
            +  N+ L+ +       +    I+F  +  +N           E  + ++ +  +K + 
Sbjct: 212 SKMINISLEDKPSRADLSIKNNSIIFSKLLGENKVYC---FLNNENIVFSTGFFNIKSND 268

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
            ++  L   + S D       + +G     +   D+ ++    P +    +I      + 
Sbjct: 269 ENNDDLLSFLLSSDFKNQKSMLANGTTMIGINNSDLTKVRCKAPFLN--SNIYFTFFNKL 326

Query: 387 ARIDVLVEKIEQSIVLL 403
             I+  +      IV L
Sbjct: 327 NEIENKITLARNKIVNL 343


>gi|225376199|ref|ZP_03753420.1| hypothetical protein ROSEINA2194_01837 [Roseburia inulinivorans DSM
           16841]
 gi|225211845|gb|EEG94199.1| hypothetical protein ROSEINA2194_01837 [Roseburia inulinivorans DSM
           16841]
          Length = 172

 Score = 50.9 bits (120), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 12/127 (9%), Positives = 45/127 (35%), Gaps = 5/127 (3%)

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
           I + + + +  +        I+   +++     +     +         G   +  + V+
Sbjct: 44  IVEDDLKYISREFNESLRKSILHENDLIIVRTGIPG---TCCVVSKDYEGCNCADVVLVR 100

Query: 325 PHGI--DSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
           P+    +  YLA  +  +   +V       +++    +  + + + +P ++ Q  +  ++
Sbjct: 101 PNLQVVNPHYLAAYINVWGKKQVENNKVGAIQKHFNVKSAEEMLIDLPDLESQNKVAKIL 160

Query: 383 NVETARI 389
                +I
Sbjct: 161 CDLNDKI 167



 Score = 47.1 bits (110), Expect = 0.005,   Method: Composition-based stats.
 Identities = 22/165 (13%), Positives = 58/165 (35%), Gaps = 8/165 (4%)

Query: 28  VPIKRFTKLNTGRTSE-----SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS-TVSIF 81
           V +    +L  G           + + ++   +++  +         SR+ + S   SI 
Sbjct: 6   VRLSDIAELTVGFVGNMAKQYKDEGVKFLRSLNIKPFSIVEDDLKYISREFNESLRKSIL 65

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQ--FLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
            +  ++  + G      +++     C+     LV     V+        +++   +++E 
Sbjct: 66  HENDLIIVRTGIPGTCCVVSKDYEGCNCADVVLVRPNLQVVNPHYLAAYINVWGKKQVEN 125

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
              GA   H + K    + + +P L  Q  + + +     +I + 
Sbjct: 126 NKVGAIQKHFNVKSAEEMLIDLPDLESQNKVAKILCDLNDKIISN 170


>gi|300905940|ref|ZP_07123668.1| type I restriction modification DNA specificity domain protein
           [Escherichia coli MS 84-1]
 gi|300402221|gb|EFJ85759.1| type I restriction modification DNA specificity domain protein
           [Escherichia coli MS 84-1]
          Length = 198

 Score = 50.9 bits (120), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 32/188 (17%), Positives = 53/188 (28%), Gaps = 2/188 (1%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            IP  W V  + +   +  G++                 G+  +       RQ  TS   
Sbjct: 10  EIPAGWAVNTLSQIANITMGQSPAGESYNEDGIGTLFFQGSTDFGWLFPTPRQYTTSPTR 69

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           +  KG IL     P      IA+ D         L  K      L  +++          
Sbjct: 70  MAKKGDILLSVRAPV-GDMNIANADCCIGRGLAALNSKSRSDGFLF-YVMKYFKQVFERR 127

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
             EG T        + ++ +  P         + +      I T   E    I+L     
Sbjct: 128 NAEGTTFGSMTKDDLHSLQVVCPEPGLLKRYDDIVSEYNKMIFTRSLENQDLIKLRDWLL 187

Query: 200 QALVSYIV 207
             L++  V
Sbjct: 188 PILMNGQV 195



 Score = 47.9 bits (112), Expect = 0.003,   Method: Composition-based stats.
 Identities = 23/198 (11%), Positives = 54/198 (27%), Gaps = 11/198 (5%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ-- 284
            +P  W V     +      ++      N   +         +   +   P  Y T    
Sbjct: 10  EIPAGWAVNTLSQIANITMGQSPAGESYNEDGIGTLFFQGSTDFGWLFPTPRQYTTSPTR 69

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCK 344
           +   G+I+        D              I     A+        +L ++M+ +    
Sbjct: 70  MAKKGDILLSVRAPVGDM-----NIANADCCIGRGLAALNSKSRSDGFLFYVMKYFKQVF 124

Query: 345 VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLK 404
                      S+  +D+  L V+ P            +   +  + ++         L 
Sbjct: 125 ERRNAEGTTFGSMTKDDLHSLQVVCPEPGLLKR----YDDIVSEYNKMIFTRSLENQDLI 180

Query: 405 ERRSSFIAAAVTGQIDLR 422
           + R   +   + GQ+ ++
Sbjct: 181 KLRDWLLPILMNGQVKIK 198


>gi|332202747|gb|EGJ16816.1| type I restriction modification DNA specificity domain protein
           [Streptococcus pneumoniae GA41317]
          Length = 297

 Score = 50.9 bits (120), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 31/314 (9%), Positives = 86/314 (27%), Gaps = 26/314 (8%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V +     L  G+ +    +   +    ++    +       +   + +         
Sbjct: 2   KKVKLGEILSLKKGKKATVLAEQTTLSQRYIQIDDLRNNNNLKFTESLNMTEAL---PDD 58

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW--LLSIDVTQRIEAICEG 143
           IL    G             + ST  ++ + +    +++  +  +     +Q +     G
Sbjct: 59  ILIAWDGANAGTVGYGLSGAVGSTITVLKKNERYKEKIISDYLGVFLESKSQYLRDHSTG 118

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           AT+ H +   + ++ + +  + EQ  I   +      I     +                
Sbjct: 119 ATIPHLNKNILLDLQLELLGIEEQENIICILNTIKRLITKRKLQLDELNL---------- 168

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
                  L      +  G   +  + D+              + +    E   L L+  N
Sbjct: 169 -------LVKSRFNEMFGENKIFEIIDNLFDIIDGDRGKNYPKSDELFSEEYCLFLNTKN 221

Query: 264 IIQKLETRN----MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
           + +   + +    +    +       ++  +IV        +          +   I S 
Sbjct: 222 VTKNGFSFDTKQFITKTKDKLLRKGKLERYDIVLTTRGTVGNVAYYDELIKYKHLRINSG 281

Query: 320 YMAVKPHGIDSTYL 333
            + ++P   +   L
Sbjct: 282 MVILRPKTPNHNLL 295


>gi|229165874|ref|ZP_04293640.1| Type I restriction enzyme, specificity subunit [Bacillus cereus
           AH621]
 gi|228617579|gb|EEK74638.1| Type I restriction enzyme, specificity subunit [Bacillus cereus
           AH621]
          Length = 192

 Score = 50.9 bits (120), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 26/176 (14%), Positives = 58/176 (32%), Gaps = 12/176 (6%)

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYE---TYQIVDPGEIVFRFIDLQNDKRSL 305
            +     I      +        ++ ++ E+         ++ G++V    +       +
Sbjct: 23  KQFGTQVINYYDQPSFEDDYNHEDVFVEDEAKSLSQNNPSLNEGDVVIS--NSLQLATMV 80

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD---LCKVFYAMGSGLRQSLKFEDV 362
               V +   +    +      +D  Y  +L  +Y      K     G+G    +    +
Sbjct: 81  GKNNVGKVLSLNFTKIEFDSEQLDKRYFLFLFNAYKDVRRQKERELQGNGPVLRIPLRAL 140

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
             L V V P++EQ  I  +          L  K+ +   L+++  SS I   + G+
Sbjct: 141 GELIVPVAPLEEQKKIGAIYAETL----KLQSKLNKYADLMEKFTSSIIEENLKGK 192


>gi|283956926|ref|ZP_06374399.1| hypothetical protein C1336_000320096 [Campylobacter jejuni subsp.
           jejuni 1336]
 gi|283791652|gb|EFC30448.1| hypothetical protein C1336_000320096 [Campylobacter jejuni subsp.
           jejuni 1336]
          Length = 108

 Score = 50.9 bits (120), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 10/81 (12%), Positives = 29/81 (35%), Gaps = 1/81 (1%)

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLP 366
               ++ I+      V  + I+     +     D+ +       G + + +   D   + 
Sbjct: 5   IWNNDKAILNQHISKVVFYKIEINKKYFYFCILDVLEEMSEKTHGSVMRHITKGDFDNIE 64

Query: 367 VLVPPIKEQFDITNVINVETA 387
           + +P +K+Q  I  +++    
Sbjct: 65  IPLPSLKKQERIVGILDELIQ 85


>gi|254993314|ref|ZP_05275504.1| specificity determinant HsdS [Listeria monocytogenes FSL J2-064]
          Length = 116

 Score = 50.9 bits (120), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 22/116 (18%), Positives = 41/116 (35%), Gaps = 1/116 (0%)

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
           Q+    N  +  E+   Y ++  G   FR     ND        +++RGII+  Y     
Sbjct: 2   QEDYFANRQVTTENNIGYFVLPRGYFTFRSRS-DNDVFVFNRNDIIDRGIISYFYPVFTL 60

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
              DS +    + +    ++        +  L  +  K +  + P   EQ  I + 
Sbjct: 61  KSADSDFFLRRINNGIQRQLSIQAEGTGQHVLSLKKFKNIVAMFPSEGEQKKIGSF 116


>gi|160887308|ref|ZP_02068311.1| hypothetical protein BACOVA_05326 [Bacteroides ovatus ATCC 8483]
 gi|156107719|gb|EDO09464.1| hypothetical protein BACOVA_05326 [Bacteroides ovatus ATCC 8483]
          Length = 174

 Score = 50.9 bits (120), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 29/175 (16%), Positives = 72/175 (41%), Gaps = 12/175 (6%)

Query: 242 TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQND 301
            E + ++    +  +LS +   I  + E  +  +  E+   Y+I+   ++V    +L   
Sbjct: 1   MERSERSQTNNQHEVLSSTVKGIFSQREYFSKDIASENNVGYKIIRLHDVVLSPQNLWM- 59

Query: 302 KRSLRSAQVMERGIITSAYMAV-KPHGIDSTYLAWLMRS----YDLCKVFYAMGSGLRQS 356
             ++      E GI++ +Y       G D+ ++A ++++    Y    V     S +R++
Sbjct: 60  -GNINYNDRFEIGIVSPSYKVFSIADGYDNQFVAAMLKTHRALYSYMMVSEQGASIVRRN 118

Query: 357 LKFEDVKRLPVLVPPIKEQFDIT---NVINVETARIDVLVEKIEQSIVLLKERRS 408
           L  E   +L   +P + +Q +I    +++  +    + +++        L   R 
Sbjct: 119 LNMEAFSQLVFKIPSLDKQREIGYAISLLKSQLKTANKIIKAYTSQKQYL--LRQ 171


>gi|310831505|ref|YP_003970148.1| putative type I restriction modification enzyme, M and S domains
           [Cafeteria roenbergensis virus BV-PW1]
 gi|309386689|gb|ADO67549.1| putative type I restriction modification enzyme, M and S domains
           [Cafeteria roenbergensis virus BV-PW1]
          Length = 977

 Score = 50.9 bits (120), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 42/387 (10%), Positives = 105/387 (27%), Gaps = 51/387 (13%)

Query: 21  IP-KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           IP   +K+V +    +       +S +   +      E G   +       ++ D +   
Sbjct: 600 IPGDGYKMVKLGDIVEFL----PKSKRKASFGK----EIGKYNFYTSSDKVKKCDEADY- 650

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
              +  ++ G  G              CS   ++L+    +      + +   +   + +
Sbjct: 651 --NEECLIIGTGGNS--CIHYNKNKFSCSGDTILLKYNKNI---EYNYFVFNCIWDYLLS 703

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
              G+T+ H     + N  +PIP              +       I +    I+  +++ 
Sbjct: 704 QMNGSTIKHVTKNLLENFTIPIPTS----------DKKIKYWVDRINKPYNKIQECRDRL 753

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
           + L   +         +     +E   L   + +    F        KN           
Sbjct: 754 KELEDKVQEDIQTMLEENDTEEVELGVLCDINNKQIKRFNTSYGTKLKN----------- 802

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
                  K            Y     +    I+    +              +       
Sbjct: 803 -------KYRFYTGSANDIYYCNDFNIKDYVIILNKTNGSGK---CNIFLDKKISCAKQT 852

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
           Y+    +    T   +     +  K+         ++L    + +  + +P       + 
Sbjct: 853 YICQSKNKEIETIYLYYFLRKNKLKLEEGYIGACHKNLDINFLNKFKITLPKD---RKLI 909

Query: 380 NVINVETARIDVLVEKIEQSIVLLKER 406
           + +N   + ID L E++ +   L ++ 
Sbjct: 910 DSLNPLFSEIDNLNEELPKQETLYQQY 936



 Score = 37.9 bits (86), Expect = 3.1,   Method: Composition-based stats.
 Identities = 13/179 (7%), Positives = 49/179 (27%), Gaps = 5/179 (2%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG 289
           ++      +     +     K+++   +        +K        K   Y +   V   
Sbjct: 586 EYTFNHKKYNKKKLIPGDGYKMVKLGDIVEFLPKSKRKASFGKEIGKYNFYTSSDKVKKC 645

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
           +      +         S     +   + +   +      +    + + +     +   M
Sbjct: 646 DEADYNEECLIIGTGGNSCIHYNKNKFSCSGDTILLKYNKNIEYNYFVFNCIWDYLLSQM 705

Query: 350 GSGLRQSLKFEDVKRLPVLVPPIKEQFDI---TNVINVETARIDVLVEKIEQSIVLLKE 405
                + +    ++   + +P       I    + IN    +I    +++++    ++E
Sbjct: 706 NGSTIKHVTKNLLENFTIPIPTSD--KKIKYWVDRINKPYNKIQECRDRLKELEDKVQE 762


>gi|150006167|ref|YP_001300911.1| type I restriction endonuclease S subunit [Bacteroides vulgatus
           ATCC 8482]
 gi|149934591|gb|ABR41289.1| type I restriction endonuclease S subunit [Bacteroides vulgatus
           ATCC 8482]
          Length = 226

 Score = 50.9 bits (120), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 19/129 (14%), Positives = 47/129 (36%), Gaps = 7/129 (5%)

Query: 285 IVDPGEIVFRFIDLQNDKRSL-RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC 343
           ++D  +I+F+ +        + R      +  + S   A         Y+  L+ + +  
Sbjct: 12  VIDNNDILFQCVRPYQKNNYIHRILNTSNQQWVASTGYAQIRTTELPNYIYHLLNTDEFN 71

Query: 344 KVFYAMGSGLR-QSLKFEDVKRLPVLV-PPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
           +      +G    ++  ED+  + +   P  KEQ  I+ +++     +D  +    + I 
Sbjct: 72  RKVMVRCTGSSYPAINSEDLATIHLYYTPDKKEQLKISRLLD----LLDKRIATQNKIIE 127

Query: 402 LLKERRSSF 410
            L+      
Sbjct: 128 KLQSLIKGI 136



 Score = 36.7 bits (83), Expect = 7.1,   Method: Composition-based stats.
 Identities = 23/142 (16%), Positives = 53/142 (37%), Gaps = 8/142 (5%)

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIA------DFDGICSTQFLVLQPKDVLPELL 124
            ++ +    +     IL+  + PY +   I       +   + ST +  ++  + LP  +
Sbjct: 3   EEAPSRAQRVIDNNDILFQCVRPYQKNNYIHRILNTSNQQWVASTGYAQIRTTE-LPNYI 61

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPI-PPLAEQVLIREKIIAETVRIDT 183
              L + +  +++   C G++    + + +  I +   P   EQ+ I   +     RI T
Sbjct: 62  YHLLNTDEFNRKVMVRCTGSSYPAINSEDLATIHLYYTPDKKEQLKISRLLDLLDKRIAT 121

Query: 184 LITERIRFIELLKEKKQALVSY 205
                 +   L+K   Q  +  
Sbjct: 122 QNKIIEKLQSLIKGIAQHCIKE 143


>gi|113460701|ref|YP_718767.1| type I restriction enzyme, specificity subunit [Haemophilus somnus
           129PT]
 gi|112822744|gb|ABI24833.1| possible type I restriction enzyme, specificity subunit
           [Haemophilus somnus 129PT]
          Length = 183

 Score = 50.9 bits (120), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 33/180 (18%), Positives = 60/180 (33%), Gaps = 14/180 (7%)

Query: 225 VGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ 284
                  WE +    +   ++ K    +     S  +G I +     ++    +S +TY+
Sbjct: 13  FPEFTHAWEQRKAKEIFISVSEKGFPHLPVLSASQEFGMIRRDDIGIDIKYDQKSTQTYK 72

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH---GIDSTYLAWLMRSYD 341
            V PG+ V      Q        A     GI + AY  +         S +   +  S  
Sbjct: 73  RVSPGQFVIHLRSFQG-----GFAWSDIEGITSPAYTIIDFKKKENHSSNFWKLIFTSSS 127

Query: 342 LCKVFYAMGSGLR--QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
             K    +  G+R  +S+ F D   L +    I+EQ  I          +D  +   ++ 
Sbjct: 128 FIKKLETVTYGIRDGRSISFSDFSDLRLFYSQIQEQQKIGTF----FTALDRYITIHQRK 183



 Score = 41.7 bits (96), Expect = 0.22,   Method: Composition-based stats.
 Identities = 24/168 (14%), Positives = 48/168 (28%), Gaps = 5/168 (2%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLE-DVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           W+    K      + +       +  +    +        +  D    Q  T T    + 
Sbjct: 20  WEQRKAKEIFISVSEKGFP---HLPVLSASQEFGMIRRDDIGIDIKYDQKSTQTYKRVSP 76

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
           GQ +   L  +      +D +GI S  + ++  K         W L    +  I+ +   
Sbjct: 77  GQFVI-HLRSFQGGFAWSDIEGITSPAYTIIDFKKKENHSSNFWKLIFTSSSFIKKLETV 135

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
                       +    +     Q+  ++KI      +D  IT   R 
Sbjct: 136 TYGIRDGRSISFSDFSDLRLFYSQIQEQQKIGTFFTALDRYITIHQRK 183


>gi|295092358|emb|CBK78465.1| Type I restriction modification DNA specificity domain.
           [Clostridium cf. saccharolyticum K10]
          Length = 71

 Score = 50.9 bits (120), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 9/46 (19%), Positives = 15/46 (32%)

Query: 344 KVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
               + G G+   +    V      +PP+ EQ  I         +I
Sbjct: 23  DQIKSKGQGVIPGIDRNSVMNFLFPLPPLPEQRRIVKKQQELFDKI 68


>gi|229088749|ref|ZP_04220306.1| Type I restriction-modification system specificity subunit
           [Bacillus cereus Rock3-44]
 gi|228694574|gb|EEL47993.1| Type I restriction-modification system specificity subunit
           [Bacillus cereus Rock3-44]
          Length = 188

 Score = 50.6 bits (119), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 25/135 (18%), Positives = 56/135 (41%), Gaps = 9/135 (6%)

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY-MAVKPHGIDSTYLAWLM 337
           +++   +   G++VF F+     K  + S     + I  +   + ++   +DS+YL + +
Sbjct: 55  NHKESYLSSAGDVVFSFVSS---KAGIVSDLNQGKIINQNFAKLIIEHDYLDSSYLCYAL 111

Query: 338 R-SYDLCKVF-YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN--VINVETARIDVLV 393
             SY + K    +M       L    +K L + +P I++Q  I        +   +    
Sbjct: 112 NESYSMKKQMAISMQGSTVPKLTPAILKELEIKLPNIEKQRTIGKAYFFLRKRQALAKKQ 171

Query: 394 EKIEQSIVLLKERRS 408
            ++E+ +  LK  + 
Sbjct: 172 AELEEQL-YLKILKQ 185



 Score = 40.2 bits (92), Expect = 0.65,   Method: Composition-based stats.
 Identities = 18/155 (11%), Positives = 53/155 (34%), Gaps = 11/155 (7%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYI-----GLEDVESG-TGKYLPKDGNSRQSDTSTV--SI 80
            ++    +  GR    G +   +       ED+ +   G +L    +S   + +     +
Sbjct: 2   KLEDIVTVRVGRNLSRGNEKNDLTLVAYSYEDLRNDLDGSFLDSQASSYSGNLNHKESYL 61

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQF---LVLQPKDVLPELLQGWLLSIDVTQRI 137
            + G +++  +          +   I +  F   ++         L      S  + +++
Sbjct: 62  SSAGDVVFSFVSSKAGIVSDLNQGKIINQNFAKLIIEHDYLDSSYLCYALNESYSMKKQM 121

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIRE 172
               +G+T+       +  + + +P + +Q  I +
Sbjct: 122 AISMQGSTVPKLTPAILKELEIKLPNIEKQRTIGK 156


>gi|253729834|ref|ZP_04863999.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus
           USA300_TCH959]
 gi|253726428|gb|EES95157.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus
           USA300_TCH959]
          Length = 42

 Score = 50.6 bits (119), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 9/41 (21%), Positives = 24/41 (58%), Gaps = 4/41 (9%)

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
            ++EQ  I + +    +++D  ++  EQ + LL++R+ + +
Sbjct: 1   NLEEQQKIGSFL----SKLDRQIDLEEQKLELLQQRKKALL 37


>gi|148642217|ref|YP_001272730.1| type I restriction-modification enzyme, subunit S
           [Methanobrevibacter smithii ATCC 35061]
 gi|148551234|gb|ABQ86362.1| predicted type I restriction-modification enzyme, subunit S
           [Methanobrevibacter smithii ATCC 35061]
          Length = 102

 Score = 50.6 bits (119), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 12/64 (18%), Positives = 25/64 (39%), Gaps = 4/64 (6%)

Query: 350 GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
           G      L  +  + +    P   EQ  I+N++    + ID  +  IE+ I   ++ +  
Sbjct: 6   GITATPILNKKSFENMKFEFPSFDEQKQISNML----SNIDNKIFAIEELINKTQKFKKG 61

Query: 410 FIAA 413
            +  
Sbjct: 62  LLQQ 65


>gi|327383092|gb|AEA54568.1| Restriction modification system DNA specificity domain protein
           [Lactobacillus casei LC2W]
 gi|327386276|gb|AEA57750.1| Restriction modification system DNA specificity domain protein
           [Lactobacillus casei BD-II]
          Length = 195

 Score = 50.6 bits (119), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 40/179 (22%), Positives = 59/179 (32%), Gaps = 4/179 (2%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+    K    +     +     I  +  ED+ S  G+          S       F   
Sbjct: 20  WEKRKFKDL--VVRVNKTSDDSTIPSVEFEDIISKQGRLNKDVRLKINSKQGIY--FEPQ 75

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            +L+GKL PYL+  +   F G     F VL+    +       L+     Q +  I  G 
Sbjct: 76  DVLFGKLRPYLQNWLFPSFYGRAVGDFWVLRANSSVLSEYLFVLIQSPRFQIVANISSGT 135

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
            M  +DW  + N   PIP  +EQ  I +        I    +       L K   Q L 
Sbjct: 136 KMPRSDWNTVSNTSFPIPVQSEQRKIWQLFNVLDNLIAATQSRLSSLELLKKSLLQDLF 194



 Score = 47.9 bits (112), Expect = 0.003,   Method: Composition-based stats.
 Identities = 25/151 (16%), Positives = 48/151 (31%), Gaps = 8/151 (5%)

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI-VDPGEIVFRFIDLQNDKRSLR 306
           N    +S I S+ + +II K    N  ++ +      I  +P +++F  +          
Sbjct: 33  NKTSDDSTIPSVEFEDIISKQGRLNKDVRLKINSKQGIYFEPQDVLFGKLRPYLQNWLFP 92

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLP 366
           S        +   ++      + S YL  L++S     V             +  V    
Sbjct: 93  SFYGR---AVGDFWVLRANSSVLSEYLFVLIQSPRFQIVANISSGTKMPRSDWNTVSNTS 149

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIE 397
             +P   EQ  I          +D L+   +
Sbjct: 150 FPIPVQSEQRKI----WQLFNVLDNLIAATQ 176


>gi|261867039|ref|YP_003254961.1| restriction modification system DNA specificity subunit
           [Aggregatibacter actinomycetemcomitans D11S-1]
 gi|261412371|gb|ACX81742.1| restriction modification system DNA specificity subunit
           [Aggregatibacter actinomycetemcomitans D11S-1]
          Length = 317

 Score = 50.6 bits (119), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 41/333 (12%), Positives = 83/333 (24%), Gaps = 29/333 (8%)

Query: 30  IKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYG 89
           +    +   G        +            G+Y  +  N      +   + A G I  G
Sbjct: 9   LGDLVEFQRGYDLPKDAFV-----------KGEYPVQSSNGILGYHNEYKVKAPG-ITIG 56

Query: 90  KLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHA 149
           + G      +I       +T   V   K     +   + L  ++         G    + 
Sbjct: 57  RSGTVGIPHLITKNFFPHNTALYVKDFKG--NNVQYIYYLLKNLKLNEYKTGSGVPTMNR 114

Query: 150 DWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTK 209
           +      I        +Q +           +D  I    +    L+E  + L  Y   +
Sbjct: 115 NHLHPLKIRAFTNLKTQQSIAAV-----LSALDKKIALNKQINARLEEMAKTLYDYWFVQ 169

Query: 210 GLNPD---VKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ 266
              PD      K SG E V       E+   + +  +      ++ +  +++    N   
Sbjct: 170 FDFPDANGKPYKSSGGEMVFDETLKREIPKGWEV--KSLGDWAEIKKGTLITEKTANTNG 227

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
            ++  + GL    Y          I    I          +       +     +     
Sbjct: 228 DIKVISAGLDFSYYHDVANRPKNTI---TISASGANAGFVNFWREPIFVCDCTTITNSVI 284

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKF 359
           G     L +L    D            +  +  
Sbjct: 285 GSTLYILNFLRIVQDFIYQQAR--GSAQPHVSK 315



 Score = 49.0 bits (115), Expect = 0.001,   Method: Composition-based stats.
 Identities = 17/132 (12%), Positives = 38/132 (28%), Gaps = 12/132 (9%)

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
           Y     V    I             +            +A       G +  Y+ +L+++
Sbjct: 42  YHNEYKVKAPGITIGRSGT----VGIPHLITKNFFPHNTALYVKDFKGNNVQYIYYLLKN 97

Query: 340 YDLCKVFYAMGSGLRQSLKFEDVKRLPV-LVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
             L +           ++    +  L +     +K Q  I  V++     +D  +   +Q
Sbjct: 98  LKLNEY---KTGSGVPTMNRNHLHPLKIRAFTNLKTQQSIAAVLSA----LDKKIALNKQ 150

Query: 399 SIVLLKERRSSF 410
               L+E   + 
Sbjct: 151 INARLEEMAKTL 162



 Score = 44.8 bits (104), Expect = 0.024,   Method: Composition-based stats.
 Identities = 23/153 (15%), Positives = 38/153 (24%), Gaps = 28/153 (18%)

Query: 10  YKDSGVQWI------GAIPKHWKVVPIKRFTKLNTG-----RTSESGKDIIYIGLEDVES 58
           YK SG + +        IPK W+V  +  + ++  G     +T+ +  DI  I       
Sbjct: 180 YKSSGGEMVFDETLKREIPKGWEVKSLGDWAEIKKGTLITEKTANTNGDIKVISAG---- 235

Query: 59  GTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKD 118
               +      + +          K  I     G                          
Sbjct: 236 --LDFSYYHDVANR---------PKNTITISASGANAGFVNFWREPIFVCD--CTTITNS 282

Query: 119 VLPELLQGWLLSIDVTQRIEAICEGATMSHADW 151
           V+   L        V   I     G+   H   
Sbjct: 283 VIGSTLYILNFLRIVQDFIYQQARGSAQPHVSK 315


>gi|257425923|ref|ZP_05602347.1| type I restriction modification DNA specificity protein
           [Staphylococcus aureus subsp. aureus 55/2053]
 gi|257428590|ref|ZP_05604988.1| Sau1hsdS1 [Staphylococcus aureus subsp. aureus 65-1322]
 gi|257431225|ref|ZP_05607602.1| methyltransferase type [Staphylococcus aureus subsp. aureus 68-397]
 gi|257433906|ref|ZP_05610264.1| TypeIrestrictionenzyme,specificitysubunit [Staphylococcus aureus
           subsp. aureus E1410]
 gi|257436822|ref|ZP_05612866.1| type I restriction-modification enzyme, S subunit [Staphylococcus
           aureus subsp. aureus M876]
 gi|282914605|ref|ZP_06322391.1| type I restriction-modification system, S subunit, EcoA family
           [Staphylococcus aureus subsp. aureus M899]
 gi|282924951|ref|ZP_06332617.1| type I restriction enzyme, S subunit [Staphylococcus aureus subsp.
           aureus C101]
 gi|293503682|ref|ZP_06667529.1| type I restriction enzyme, S subunit [Staphylococcus aureus subsp.
           aureus 58-424]
 gi|293510699|ref|ZP_06669404.1| type I restriction enzyme, S subunit [Staphylococcus aureus subsp.
           aureus M809]
 gi|293537240|ref|ZP_06671920.1| type I restriction-modification system, S subunit, EcoA family
           [Staphylococcus aureus subsp. aureus M1015]
 gi|257271617|gb|EEV03763.1| type I restriction modification DNA specificity protein
           [Staphylococcus aureus subsp. aureus 55/2053]
 gi|257275431|gb|EEV06918.1| Sau1hsdS1 [Staphylococcus aureus subsp. aureus 65-1322]
 gi|257278173|gb|EEV08821.1| methyltransferase type [Staphylococcus aureus subsp. aureus 68-397]
 gi|257281999|gb|EEV12136.1| TypeIrestrictionenzyme,specificitysubunit [Staphylococcus aureus
           subsp. aureus E1410]
 gi|257284173|gb|EEV14296.1| type I restriction-modification enzyme, S subunit [Staphylococcus
           aureus subsp. aureus M876]
 gi|282313317|gb|EFB43713.1| type I restriction enzyme, S subunit [Staphylococcus aureus subsp.
           aureus C101]
 gi|282321786|gb|EFB52111.1| type I restriction-modification system, S subunit, EcoA family
           [Staphylococcus aureus subsp. aureus M899]
 gi|290920085|gb|EFD97153.1| type I restriction-modification system, S subunit, EcoA family
           [Staphylococcus aureus subsp. aureus M1015]
 gi|291095348|gb|EFE25613.1| type I restriction enzyme, S subunit [Staphylococcus aureus subsp.
           aureus 58-424]
 gi|291466590|gb|EFF09111.1| type I restriction enzyme, S subunit [Staphylococcus aureus subsp.
           aureus M809]
          Length = 282

 Score = 50.6 bits (119), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 36/293 (12%), Positives = 78/293 (26%), Gaps = 30/293 (10%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W+   +    K+N+G+  +            +E G        G           +   
Sbjct: 20  EWEEKKLGDLIKVNSGKDYK-----------HLEKGDIPVYGTGGYMTSVSEP---LSEI 65

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
             +  G+ G   +  ++        T F     K+     +             +   E 
Sbjct: 66  DAVGIGRKGTINKPYLLEAPFWTVDTLFYCTPKKETDILFILSLFR----KINWKVYDES 121

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
             +     + I  I   +P   EQ  I E  I    +I+    +     +  K   Q + 
Sbjct: 122 TGVPSLSKQTINKINRFVPSNKEQQKIGEFFIKLDRQIELEEQKLELLQQQKKGYMQKIF 181

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
           S  +               +  G    +WE K    + +++    T   +          
Sbjct: 182 SQELRFK------------DENGNDYPNWEEKKIEDIASQVYGGGTPNTKIKEFWNGDIP 229

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
            IQ  + +   L       +   +  E+    +   N    +    V +  ++
Sbjct: 230 WIQSSDVKVNDLILRQCNKFISKNSIELSSAKLIPANSIAIVTRVGVGKLCLV 282



 Score = 43.2 bits (100), Expect = 0.079,   Method: Composition-based stats.
 Identities = 21/130 (16%), Positives = 41/130 (31%), Gaps = 15/130 (11%)

Query: 275 LKPESYETYQIVDPGEIVFRFIDLQNDKRS-----LRSAQVMERGIITSAYMAVKPHGID 329
           +K  S + Y+ ++ G+I            S     + +  +  +G I   Y+   P    
Sbjct: 30  IKVNSGKDYKHLEKGDIPVYGTGGYMTSVSEPLSEIDAVGIGRKGTINKPYLLEAPFWTV 89

Query: 330 STYLA----------WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
            T             +++  +          S    SL  + + ++   VP  KEQ  I 
Sbjct: 90  DTLFYCTPKKETDILFILSLFRKINWKVYDESTGVPSLSKQTINKINRFVPSNKEQQKIG 149

Query: 380 NVINVETARI 389
                   +I
Sbjct: 150 EFFIKLDRQI 159


>gi|309812887|ref|ZP_07706619.1| conserved hypothetical protein [Dermacoccus sp. Ellin185]
 gi|308433165|gb|EFP57065.1| conserved hypothetical protein [Dermacoccus sp. Ellin185]
          Length = 81

 Score = 50.6 bits (119), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 16/67 (23%), Positives = 29/67 (43%)

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           +L    ++ L V    ++ Q ++   +               +SI LL E + S I AAV
Sbjct: 4   NLPSGVIRGLRVPQLSLRGQGEVVERLAARQQADRNFEAVTLRSIELLTEYKQSLITAAV 63

Query: 416 TGQIDLR 422
           +G+ D+ 
Sbjct: 64  SGEFDVT 70


>gi|238754322|ref|ZP_04615679.1| HsdS-like DNA methylase [Yersinia ruckeri ATCC 29473]
 gi|238707569|gb|EEP99929.1| HsdS-like DNA methylase [Yersinia ruckeri ATCC 29473]
          Length = 108

 Score = 50.6 bits (119), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 14/101 (13%), Positives = 29/101 (28%), Gaps = 4/101 (3%)

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
           +  +         LM S +        GS  +  L  + +    V++PP      I    
Sbjct: 1   MSDNACPIFTFGQLMLSLEALIERLGEGSTGQTELSRKILSEQFVVLPPFD----IAEKA 56

Query: 383 NVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
                          Q    L + R + +   ++G + +  
Sbjct: 57  ERSFKSFSEKQVSNRQQNSELIKLRDTLLPKLISGDLRISD 97


>gi|302338879|ref|YP_003804085.1| hypothetical protein Spirs_2376 [Spirochaeta smaragdinae DSM 11293]
 gi|301636064|gb|ADK81491.1| hypothetical protein Spirs_2376 [Spirochaeta smaragdinae DSM 11293]
          Length = 429

 Score = 50.6 bits (119), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 27/209 (12%), Positives = 62/209 (29%), Gaps = 5/209 (2%)

Query: 176 AETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDV-KMKDSGIEWVGLVPDHWEV 234
            +   I          + + ++     +        +    + K    E +  V      
Sbjct: 178 FKDHTILFRRLGHNAELLMERKVPIEEMQNASVWIPDRFFIRQKQYLNEKIHTVQLGSLC 237

Query: 235 KPFFALVTELNRKNTKLIESNILSLSYGNI--IQKLETRNMGLKPESYETYQIVDPGEIV 292
           +  F              E   LSL +     +   +   M ++  S     ++  G+++
Sbjct: 238 RDIFRGAPGRFFSKEGKEEVRYLSLKHVGAGLLDVNDLSTMRIESVSRIKRYLLRQGDVI 297

Query: 293 FRFIDLQNDKRSL-RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
                       L   + +   G      +    + +D  +L   +RS       + M +
Sbjct: 298 VSCRGEFFRPLLLTGKSTIPVTGGDNYVIIRPDLNLVDPGFLFRYLRSRAGQAFLFGMST 357

Query: 352 GLRQS-LKFEDVKRLPVLVPPIKEQFDIT 379
           G R   L    +  +PV +PP++ Q  + 
Sbjct: 358 GKRIRVLNVRAMAEIPVPLPPMEMQQRVA 386


>gi|13508104|ref|NP_110053.1| hypothetical protein MPN365 [Mycoplasma pneumoniae M129]
 gi|12229977|sp|P75416|T1SC_MYCPN RecName: Full=Putative type-1 restriction enzyme specificity
           protein MPN_365; AltName: Full=S.MpnORFCP; AltName:
           Full=Type I restriction enzyme specificity protein
           MPN_365; Short=S protein
 gi|1674161|gb|AAB96119.1| hypothetical protein MPN_365 [Mycoplasma pneumoniae M129]
          Length = 268

 Score = 50.6 bits (119), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 23/176 (13%), Positives = 54/176 (30%), Gaps = 10/176 (5%)

Query: 239 ALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ-------IVDPGEI 291
             +   N         +I  +  G  I K   RN   +   Y            +   + 
Sbjct: 72  RKIYGANIPFETFQVKDICEIRRGRAITKAYIRNNPGENPVYSAATTNDGELGRIKDCDF 131

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAY-MAVKPHGIDSTYLAWLMRSYDLCKVFYAMG 350
              +I    +  +        +   +    +    +    T     +   +  K  + + 
Sbjct: 132 DGEYITWTTNGYAGVVFYRNGKFNASQDCGVLKVKNKKICTKFLSFLLKIEAPKFVHNLA 191

Query: 351 SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
           S  R  L  + +  + +  PP++ Q  I +++       + LVE I   + + K++
Sbjct: 192 S--RPKLSQKVMAEIELSFPPLEIQEKIADILFAFEKLCNDLVEGIPAEVEMRKKQ 245



 Score = 41.7 bits (96), Expect = 0.24,   Method: Composition-based stats.
 Identities = 8/61 (13%), Positives = 22/61 (36%), Gaps = 4/61 (6%)

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           +  +L  + ++ + +  P  K Q  I  +++  T     L  ++ +        R   + 
Sbjct: 12  VIPNLTLKKMREIELDFPSKKIQEKIATILDTFTE----LSAELRERKKQYAFYRDYLLN 67

Query: 413 A 413
            
Sbjct: 68  Q 68


>gi|301162155|emb|CBW21700.1| putative type I restriction-modification system specificity system,
           partial [Bacteroides fragilis 638R]
          Length = 175

 Score = 50.6 bits (119), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 28/170 (16%), Positives = 72/170 (42%), Gaps = 11/170 (6%)

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
           ++    +  +LS +   I  + E  +  +  E+   Y+I+   ++V    +L     ++ 
Sbjct: 7   RSRTNNQHEVLSSTVKGIFSQREYFSKDIASENNVGYKIIRLHDVVLSPQNLWM--GNIN 64

Query: 307 SAQVMERGIITSAYMAV-KPHGIDSTYLAWLMRS----YDLCKVFYAMGSGLRQSLKFED 361
                E GI++ +Y       G D+ ++A ++++    Y    V     S +R++L  E 
Sbjct: 65  YNDRFEIGIVSPSYKVFSIADGYDNQFVAAMLKTHRALYSYMMVSEQGASIVRRNLNMEA 124

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
             +L   +P + +Q +I   I++  +++    +   + I     ++   +
Sbjct: 125 FSQLVFKIPSLDKQREIGCAISLLKSQL----KTANKIIRAYTSQKQYLL 170


>gi|319896580|ref|YP_004134773.1| haeiv restriction/modification system [Haemophilus influenzae F3031]
 gi|317432082|emb|CBY80432.1| HaeIV restriction/modification system [Haemophilus influenzae F3031]
          Length = 1062

 Score = 50.6 bits (119), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 18/113 (15%), Positives = 35/113 (30%), Gaps = 3/113 (2%)

Query: 294  RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL 353
              I +     +          I  S    V+      T   +         +F       
Sbjct: 940  NTITISASGANAGFVNFWTEKIFASDCTTVRADNYVGTKFIFTYLQSIQENIFDLARGAA 999

Query: 354  RQSLKFEDVKRLPVLVPPIKEQFDITN---VINVETARIDVLVEKIEQSIVLL 403
            +  +  +D+KRLP+   P+  Q  +      I+ E  R  + +E+    I  +
Sbjct: 1000 QPHVYPDDIKRLPIPKVPLDIQQKVVEECQKIDDEFNRTRMQIEEYRAKIAKI 1052


>gi|291534513|emb|CBL07625.1| Type I restriction modification DNA specificity domain [Roseburia
           intestinalis M50/1]
          Length = 199

 Score = 50.6 bits (119), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 42/176 (23%), Positives = 72/176 (40%), Gaps = 5/176 (2%)

Query: 30  IKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYG 89
           +   +         S +    +GLE +          D  +  + T    +F KG +L+G
Sbjct: 6   LGEVSHERKETCKGSKEGYPIVGLEHLIPEEITLTTWDEGAENTFT---KMFRKGDVLFG 62

Query: 90  KLGPYLRKAIIADFDGICSTQFLVL--QPKDVLPELLQGWLLSIDVTQRIEAICEGATMS 147
           +   YL+KA +A FDGICS    V+   P  +LPELL   + + D+         G+   
Sbjct: 63  RRRAYLKKAAVAPFDGICSGDITVIEADPDKILPELLPFIIQNDDLFDFAVGKSAGSLSP 122

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
              W+ + N  + +P + +Q  + E + A      +         EL+K K  A +
Sbjct: 123 RVKWEHLKNYELELPDMNKQKELAELLWAIDDTKKSYQKLIAATDELVKSKFAARM 178



 Score = 50.2 bits (118), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 24/155 (15%), Positives = 57/155 (36%), Gaps = 7/155 (4%)

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
              +   ++I +  T     +       ++   G+++F        K ++     +  G 
Sbjct: 24  YPIVGLEHLIPEEITLTTWDEGAENTFTKMFRKGDVLFGRRRAYLKKAAVAPFDGICSGD 83

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKV-FYAMGSGLRQSLKFEDVKRLPVLVPPIKE 374
           IT   +   P  I    L +++++ DL           L   +K+E +K   + +P + +
Sbjct: 84  IT--VIEADPDKILPELLPFIIQNDDLFDFAVGKSAGSLSPRVKWEHLKNYELELPDMNK 141

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
           Q ++  ++      ID   +  ++ I    E   S
Sbjct: 142 QKELAELLWA----IDDTKKSYQKLIAATDELVKS 172


>gi|149005621|ref|ZP_01829360.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP18-BS74]
 gi|147762561|gb|EDK69521.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP18-BS74]
          Length = 179

 Score = 50.6 bits (119), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 13/119 (10%), Positives = 36/119 (30%), Gaps = 7/119 (5%)

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA----VKPHGIDSTYLAWL 336
                +   +++                     G++   ++      +   I S +L + 
Sbjct: 61  SEQVYLKHNQLITPVSTSLEHIGKFARIDKDYDGVVAGGFIFQLTPFESSEIISKFLLFN 120

Query: 337 MRSYDLCKVFY---AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
           + S    K       +      ++    +  L + + P +EQ  IT  +     +++ L
Sbjct: 121 LSSPLFYKQLKAITKLSGQALYNIPKTTLSELLIPLAPFEEQELITQKVEKLFEKVNQL 179



 Score = 40.2 bits (92), Expect = 0.74,   Method: Composition-based stats.
 Identities = 32/177 (18%), Positives = 70/177 (39%), Gaps = 17/177 (9%)

Query: 24  HWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +W V+ IK    +NTG + +        K +  I   +++      L  D        S+
Sbjct: 2   NWVVIKIKDIFSMNTGLSYKKGDLSINNKGVRIIRGGNIKPLEFSLLDNDYYIDTQFISS 61

Query: 78  VSIFAKGQILYGKLGPYLRKAIIA-----DFDGICSTQFLV----LQPKDVLPELLQGWL 128
             ++ K   L   +   L           D+DG+ +  F+      +  +++ + L   L
Sbjct: 62  EQVYLKHNQLITPVSTSLEHIGKFARIDKDYDGVVAGGFIFQLTPFESSEIISKFLLFNL 121

Query: 129 LSIDVTQRIEAICE--GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
            S    ++++AI +  G  + +     +  + +P+ P  EQ LI +K+     +++ 
Sbjct: 122 SSPLFYKQLKAITKLSGQALYNIPKTTLSELLIPLAPFEEQELITQKVEKLFEKVNQ 178


>gi|260061351|ref|YP_003194431.1| type I restriction-modification system, M subunit [Robiginitalea
           biformata HTCC2501]
 gi|88785483|gb|EAR16652.1| type I restriction-modification system, M subunit [Robiginitalea
           biformata HTCC2501]
          Length = 894

 Score = 50.6 bits (119), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 30/321 (9%), Positives = 80/321 (24%), Gaps = 5/321 (1%)

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           I+  K        +    +              +          S+ +     +  +   
Sbjct: 327 IVISKTKERPGSVLFFPGENYAQPLNNGHYQLMLEDITKDFLRRSVSIQTSDHSRTDEPP 386

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
            +  +               E+    E    E   I     E+     L+        + 
Sbjct: 387 FNQLEIDKDSIKSQDYSLDHERYRFEEIEGIELQEIVE--VEKGYQSGLIYVSSIFNRND 444

Query: 206 IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII 265
              +     +     G  +        +            ++  + ++         +  
Sbjct: 445 SFLEKFFRKMGFSQLGEPFDKEGVAKNDYGKIVNQNRSKIQEVLRQVKFISTKDLKNDPY 504

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
                 +     E     +I+    ++   I        + +++           +   P
Sbjct: 505 NYSLEIDSVQFRERSHNARIIVDEVVLVTLIGSSLKPTFVSNSEPPFYLHHQLIALKPNP 564

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQF-DITNVIN 383
           + +D  +    + S  + +    +  G     L+ +D+  L   +P +KEQ  ++     
Sbjct: 565 NLVDLDWFINHLHSDSIKRQLALLKKGSGISYLRRQDLLSLKFALPSLKEQKSEMVQA-T 623

Query: 384 VETARIDVLVEKIEQSIVLLK 404
               +ID L   I Q    L+
Sbjct: 624 KLYRQIDSLESDIIQQNAYLR 644


>gi|167974338|ref|ZP_02556615.1| restriction-modification enzyme subunit s3a [Ureaplasma urealyticum
           serovar 11 str. ATCC 33695]
 gi|188998054|gb|EDU67151.1| restriction-modification enzyme subunit s3a [Ureaplasma urealyticum
           serovar 11 str. ATCC 33695]
          Length = 346

 Score = 50.6 bits (119), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 43/377 (11%), Positives = 108/377 (28%), Gaps = 41/377 (10%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
            +    ++ T    ++  +I   GL  +            N+         ++    I  
Sbjct: 6   KLSSVFEIITTGKQKNTFNINLEGLYPL------ISASTANNGIMGYVDNYLYDGQNITI 59

Query: 89  GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ-GWLLSIDVTQRIEAICEGATMS 147
            ++G             +    F++ +    + ++    +LL ++  ++I +I  G T  
Sbjct: 60  SRVGNAGTTFYHEGKISLTDNCFILSKINKKIAKVKYVFYLLKLNEDKKIRSISHGTTRK 119

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIV 207
             +   + N+ + +P +  Q  I   I    +  + +   +    +LL            
Sbjct: 120 IINKTDLDNLIIYLPSIEIQNAIISIIEPLDILENKINKLKTVLKKLLINIYDK------ 173

Query: 208 TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQK 267
                                 +       F        K          S      I  
Sbjct: 174 ----------------------NCNSHVNLFENNKIYTNKYLNQNLYCDTSCIGELEINF 211

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
            +  N+ L+ +       +    I+F  +  +N           E  + ++ +  +K + 
Sbjct: 212 SKMINISLEDKPSRADLSIKNNSIIFSKLLGENKVYC---FLNNENIVFSTGFFNIKSND 268

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
            ++  L   + S D       + +G     +   D+ ++    P +    +I      + 
Sbjct: 269 ENNDDLLSFLLSSDFKNQKSMLANGTTMIGINNSDLTKVRCKAPFLN--SNIYFTFFNKL 326

Query: 387 ARIDVLVEKIEQSIVLL 403
             I+  +      IV L
Sbjct: 327 NEIENKITLARNKIVNL 343


>gi|154499005|ref|ZP_02037383.1| hypothetical protein BACCAP_02997 [Bacteroides capillosus ATCC
           29799]
 gi|150271845|gb|EDM99071.1| hypothetical protein BACCAP_02997 [Bacteroides capillosus ATCC
           29799]
          Length = 174

 Score = 50.6 bits (119), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 18/122 (14%), Positives = 44/122 (36%), Gaps = 5/122 (4%)

Query: 274 GLKPESYETYQIVDPGEI-VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID--- 329
                 +  Y++V  G+         + DK  +      + G++++ Y   +    +   
Sbjct: 42  NTIGTDFTKYKVVKRGQFTYIPDTSRRGDKIGIALLMDYDEGLVSNIYTVFEVKDENELL 101

Query: 330 STYLAWLMRSYDLCKVFYAMGSGLRQSL-KFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
             YL       +  +       G  + +  ++++ ++ + VP I +Q  I       T R
Sbjct: 102 PEYLMLWFSRPEFDRYARFKSHGSVREIMDWDEMCKVELPVPSIDKQRSIVKAYQTITER 161

Query: 389 ID 390
           I+
Sbjct: 162 IE 163


>gi|148988250|ref|ZP_01819713.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP6-BS73]
 gi|147926714|gb|EDK77787.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP6-BS73]
          Length = 179

 Score = 50.6 bits (119), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 13/119 (10%), Positives = 36/119 (30%), Gaps = 7/119 (5%)

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA----VKPHGIDSTYLAWL 336
                +   +++                     G++   ++      +   I S +L + 
Sbjct: 61  SEQVYLKHNQLITPVATSLEHIGKFARIDKDYDGVVAGGFIFQLTPFESSEIISKFLLFN 120

Query: 337 MRSYDLCKVFY---AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
           + S    K       +      ++    +  L + + P +EQ  IT  +     +++ L
Sbjct: 121 LSSPLFYKQLKAITKLSGQALYNIPKTTLSELLIPLAPFEEQELITQKVEKLFEKVNQL 179



 Score = 40.2 bits (92), Expect = 0.69,   Method: Composition-based stats.
 Identities = 32/177 (18%), Positives = 70/177 (39%), Gaps = 17/177 (9%)

Query: 24  HWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +W V+ IK    +NTG + +        K +  I   +++      L  D        S+
Sbjct: 2   NWVVIKIKDIFSMNTGLSYKKGDLSINNKGVRIIRGGNIKPLEFSLLDNDYYIDTQFISS 61

Query: 78  VSIFAKGQILYGKLGPYLRKAIIA-----DFDGICSTQFLV----LQPKDVLPELLQGWL 128
             ++ K   L   +   L           D+DG+ +  F+      +  +++ + L   L
Sbjct: 62  EQVYLKHNQLITPVATSLEHIGKFARIDKDYDGVVAGGFIFQLTPFESSEIISKFLLFNL 121

Query: 129 LSIDVTQRIEAICE--GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
            S    ++++AI +  G  + +     +  + +P+ P  EQ LI +K+     +++ 
Sbjct: 122 SSPLFYKQLKAITKLSGQALYNIPKTTLSELLIPLAPFEEQELITQKVEKLFEKVNQ 178


>gi|227892125|ref|ZP_04009930.1| type I restriction modification system protein HsdIA [Lactobacillus
           salivarius ATCC 11741]
 gi|227866057|gb|EEJ73478.1| type I restriction modification system protein HsdIA [Lactobacillus
           salivarius ATCC 11741]
          Length = 185

 Score = 50.6 bits (119), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 26/170 (15%), Positives = 57/170 (33%), Gaps = 3/170 (1%)

Query: 235 KPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFR 294
                LV   +  N+  +++   +L     +          + +      I   G+IV  
Sbjct: 1   MKLNELVKIESGINSVRVKNQNYTLYAIEDVNYDLGHGEDYQHDKASGKSITARGDIVIN 60

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG--SG 352
            +         R+A  M   I       +  + +D  YL +L+   +  +   A      
Sbjct: 61  TVSNLASVVHSRNAGKMLNQIF-LRLNILDENTLDPWYLCYLLNKSEYIRYQEAAIMDGS 119

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
           + + L   +++ L + +P I +Q  +         +  + +EK E    L
Sbjct: 120 VIRKLTKANLEDLEINLPEIADQKKMGEAYKEIMKKYTLAMEKAELERDL 169


>gi|162448117|ref|YP_001621249.1| site-specific DNA-methyltransferase [Acholeplasma laidlawii PG-8A]
 gi|161986224|gb|ABX81873.1| site-specific DNA-methyltransferase [Acholeplasma laidlawii PG-8A]
          Length = 559

 Score = 50.6 bits (119), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 20/144 (13%), Positives = 58/144 (40%), Gaps = 5/144 (3%)

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA-- 322
           I +   +N+  K    + + +     I+         K ++   +  ++ I+T   +   
Sbjct: 407 IDESNLQNIDNKDGKLDKFALEYEDVIITSKSS--KVKIAVIDFEPKDKIIVTGGMIIAR 464

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNV 381
           V    ++ T+L   + S     +  ++  G+   ++   ++  + + +P +  Q++I+  
Sbjct: 465 VDKSKLNPTFLKVFLESDQGQLLLKSIQKGISIITINATELSNIIIPLPQLDVQYNISKK 524

Query: 382 INVETARIDVLVEKIEQSIVLLKE 405
            N + + +  L  +I +    LK 
Sbjct: 525 YNRKLSSLMALKAEILKIEDELKN 548



 Score = 37.1 bits (84), Expect = 5.1,   Method: Composition-based stats.
 Identities = 26/195 (13%), Positives = 60/195 (30%), Gaps = 15/195 (7%)

Query: 28  VPIKRFTKLNTGRTS----------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           V +     + TG             +       +   D++ G            +     
Sbjct: 364 VKLSEVAHVFTGSQYTVRNFQEALTDENTGYKLLTSSDIQDGLIDESNLQNIDNKDGKLD 423

Query: 78  VSIFAKGQILYGKLGPYLRKAIIA----DFDGICSTQFLVLQPKDVLPELLQG-WLLSID 132
                   ++       ++ A+I     D   +     +    K  L       +L S  
Sbjct: 424 KFALEYEDVIITSKSSKVKIAVIDFEPKDKIIVTGGMIIARVDKSKLNPTFLKVFLESDQ 483

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
               +++I +G ++   +   + NI +P+P L  Q  I +K   +   +  L  E ++  
Sbjct: 484 GQLLLKSIQKGISIITINATELSNIIIPLPQLDVQYNISKKYNRKLSSLMALKAEILKIE 543

Query: 193 ELLKEKKQALVSYIV 207
           + LK      +  ++
Sbjct: 544 DELKNFYYEEIEEVL 558


>gi|227365084|ref|ZP_03849110.1| possible restriction modification system DNA specificity subunit
           [Lactobacillus reuteri MM2-3]
 gi|227069878|gb|EEI08275.1| possible restriction modification system DNA specificity subunit
           [Lactobacillus reuteri MM2-3]
          Length = 195

 Score = 50.2 bits (118), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 22/191 (11%), Positives = 57/191 (29%), Gaps = 10/191 (5%)

Query: 226 GLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI 285
           G    +      +     + +      E ++  L    + Q     +      + +   I
Sbjct: 14  GFEKSNLTQIANYKNGLAMQKYRPNSNEESLPVLKIKELNQGNTDDSSDRCSANLDNSVI 73

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV 345
           V+ G+I+F +         L      ++  +      V  +   + ++    + + L   
Sbjct: 74  VNTGDIIFSWSGTL-----LVKNWTGDKAGLNQHLFKVTSNKYPAWFIYEWTKYHLLRFQ 128

Query: 346 FYAMGS-GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLK 404
             A G       +K  D+K   V +P           ++ + A I      + +    L 
Sbjct: 129 AIAAGKATTMGHIKRSDLKSSLVYIPS----QLFLAKMDSQLAPIYSQRLNLIKENQQLS 184

Query: 405 ERRSSFIAAAV 415
           + + + +    
Sbjct: 185 KLKQTLLKKYF 195



 Score = 40.2 bits (92), Expect = 0.61,   Method: Composition-based stats.
 Identities = 23/189 (12%), Positives = 58/189 (30%), Gaps = 10/189 (5%)

Query: 21  IPKHWKVVPIKRFTKLNTG------RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           I   ++   + +      G      R + + + +  + ++++  G         +   ++
Sbjct: 11  INDGFEKSNLTQIANYKNGLAMQKYRPNSNEESLPVLKIKELNQGN---TDDSSDRCSAN 67

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
                I   G I++   G  L K    D  G  +     +         +  W     + 
Sbjct: 68  LDNSVIVNTGDIIFSWSGTLLVKNWTGDKAG-LNQHLFKVTSNKYPAWFIYEWTKYHLLR 126

Query: 135 QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
            +  A  +  TM H     + +  + IP       +  ++     +   LI E  +  +L
Sbjct: 127 FQAIAAGKATTMGHIKRSDLKSSLVYIPSQLFLAKMDSQLAPIYSQRLNLIKENQQLSKL 186

Query: 195 LKEKKQALV 203
            +   +   
Sbjct: 187 KQTLLKKYF 195


>gi|163798239|ref|ZP_02192171.1| hypothetical protein BAL199_08178 [alpha proteobacterium BAL199]
 gi|159176487|gb|EDP61070.1| hypothetical protein BAL199_08178 [alpha proteobacterium BAL199]
          Length = 155

 Score = 50.2 bits (118), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 26/138 (18%), Positives = 47/138 (34%), Gaps = 12/138 (8%)

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER-GIITSAYMAVKPHGIDSTYLAWL 336
           E       V  G++VFR    +N   +L          ++    +  K   +   YLAW+
Sbjct: 6   EDLADRYFVRAGDVVFRSRGERNTASALDERLREAALAVLPLMVLRPKRDVVTPEYLAWI 65

Query: 337 MRSYDLCKVFYAMGSGLRQS-LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
           +      + F     G     +    +  L + VP I+ Q  I  V           + +
Sbjct: 66  INQPPAQRHFDVAARGTNIRMIPRSSLDDLELDVPDIETQEKIVAV---------NALAE 116

Query: 396 IEQSIVLL-KERRSSFIA 412
            E+ +  L  E R   ++
Sbjct: 117 RERELSQLAAETRKKMMS 134


>gi|15900421|ref|NP_345025.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae TIGR4]
 gi|14971980|gb|AAK74665.1| putative type I restriction-modification system, S subunit
           [Streptococcus pneumoniae TIGR4]
          Length = 179

 Score = 50.2 bits (118), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 13/119 (10%), Positives = 36/119 (30%), Gaps = 7/119 (5%)

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA----VKPHGIDSTYLAWL 336
                +   +++                     G++   ++      +   I S +L + 
Sbjct: 61  SEQVYLKHNQLITPVSTSLEHIGKFARIDKDYDGVVAGGFIFQLTPFESSEIISKFLLFN 120

Query: 337 MRSYDLCKVFY---AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
           + S    K       +      ++    +  L + + P +EQ  IT  +     +++ L
Sbjct: 121 LSSPLFYKQLKAITKLSGQALYNIPKTTLSELLIPLAPFEEQELITQKVEKLFEKVNQL 179



 Score = 42.1 bits (97), Expect = 0.18,   Method: Composition-based stats.
 Identities = 32/177 (18%), Positives = 70/177 (39%), Gaps = 17/177 (9%)

Query: 24  HWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +W V+ IK    +NTG + +        K +  I   +++      L  D        S+
Sbjct: 2   NWVVIKIKDIFSINTGLSYKKGDLSINNKGVRIIRGGNIKPLEFSLLDNDYYIDTQFISS 61

Query: 78  VSIFAKGQILYGKLGPYLRKAIIA-----DFDGICSTQFLV----LQPKDVLPELLQGWL 128
             ++ K   L   +   L           D+DG+ +  F+      +  +++ + L   L
Sbjct: 62  EQVYLKHNQLITPVSTSLEHIGKFARIDKDYDGVVAGGFIFQLTPFESSEIISKFLLFNL 121

Query: 129 LSIDVTQRIEAICE--GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
            S    ++++AI +  G  + +     +  + +P+ P  EQ LI +K+     +++ 
Sbjct: 122 SSPLFYKQLKAITKLSGQALYNIPKTTLSELLIPLAPFEEQELITQKVEKLFEKVNQ 178


>gi|306815516|ref|ZP_07449665.1| putative type I restriction-modification enzyme S subunit
           [Escherichia coli NC101]
 gi|305851178|gb|EFM51633.1| putative type I restriction-modification enzyme S subunit
           [Escherichia coli NC101]
          Length = 72

 Score = 50.2 bits (118), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 11/53 (20%), Positives = 25/53 (47%)

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
                 ED+ + P+ VPP+  Q  I  +++      + + E + + I L +++
Sbjct: 1   MPRGSKEDIMKYPIPVPPLTWQARIVEILDKFDTLTNSITEGLPREIELRQKQ 53


>gi|20092382|ref|NP_618457.1| type I restriction modification DNA protein [Methanosarcina
           acetivorans C2A]
 gi|19917634|gb|AAM06937.1| type I restriction modification DNA protein [Methanosarcina
           acetivorans C2A]
          Length = 135

 Score = 50.2 bits (118), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 16/101 (15%), Positives = 39/101 (38%), Gaps = 10/101 (9%)

Query: 316 ITSAYMAVKPHGIDSTYLAW-LMRSYDLCK-----VFYAMGSGLRQSLKFEDVKRLPVLV 369
           +      ++ +   +T L +  +  Y   K     +      G R+++   ++++L + +
Sbjct: 5   VNQHVSIIRTNIRTNTKLYYKFLYCYLCLKRTKEALLSFDADGTRKAITKGNLEKLVLPL 64

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
           P   EQ  I + I +   +ID       Q    L++   + 
Sbjct: 65  PSYTEQTQIGDFIGLVNDKID----LNNQMNSTLEQIAQTL 101


>gi|209387|gb|AAA72570.1| hsdS specificity protein [synthetic construct]
          Length = 45

 Score = 50.2 bits (118), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 13/45 (28%), Positives = 23/45 (51%)

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
           + +P + EQ  I   ++   A++D    ++EQ   +LK  R S I
Sbjct: 1   IPIPSLAEQKIIAEKLDTLLAQVDSTKARLEQIPQILKRFRQSVI 45


>gi|253569552|ref|ZP_04846962.1| LOW QUALITY PROTEIN: conserved hypothetical protein [Bacteroides
           sp. 1_1_6]
 gi|251841571|gb|EES69652.1| LOW QUALITY PROTEIN: conserved hypothetical protein [Bacteroides
           sp. 1_1_6]
          Length = 181

 Score = 50.2 bits (118), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 26/176 (14%), Positives = 59/176 (33%), Gaps = 11/176 (6%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNRK-NTKLIESNILSLSYGNIIQKLETRNMGLKPESYE 281
           +++ +  +    +   ++   +N+    K +ES+ + +     I     R   +K  + E
Sbjct: 3   QFIEMYYNTHNKQTLESVCPIMNKGITPKYVESSSVLVINQACIHWDGQRLGNIKYHNEE 62

Query: 282 ---TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG-IITSAYMAVKPHGI---DSTYLA 334
                +I++ G+++          R        +    I   ++              L 
Sbjct: 63  IPVRKRILESGDVLLNATGNGTLGRCCVFICPSDNNTYINDGHVIALSTDRAVILPEVLN 122

Query: 335 WLMRSYDLCKVFYA---MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
             +   D     Y     GS  +  + F D+K++ V VP + EQ     V+     
Sbjct: 123 TYLSLNDTQAEIYRQYVTGSTNQVDIVFSDIKKMKVPVPSMDEQILFVEVLTQADK 178


>gi|229526953|ref|ZP_04416350.1| hypothetical protein VCG_000021 [Vibrio cholerae 12129(1)]
 gi|229335565|gb|EEO01045.1| hypothetical protein VCG_000021 [Vibrio cholerae 12129(1)]
          Length = 195

 Score = 50.2 bits (118), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 24/122 (19%), Positives = 45/122 (36%), Gaps = 8/122 (6%)

Query: 285 IVDPGEIVFRFIDLQNDKRSL--RSAQVMERGIITSAYMAVKPHGID--STYLAWLMRSY 340
            +  G+I+       N    +    A   ++ +    +  V     D    ++ WL+   
Sbjct: 59  YLTTGDILVAARGSHNYAVQVDQLLASTGKQAVAAPHFFVVSLKKKDILPEFMVWLLNQA 118

Query: 341 DLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDI---TNVINVETARIDVLVEKI 396
              + F     G   +S++   ++  PV+VPP  +Q  I    N +  E   I  LV   
Sbjct: 119 PAQRYFEQNAEGTLTKSIRRSVLEDAPVVVPPFAKQRAIIAMANTLGEEQRLIQRLVNNG 178

Query: 397 EQ 398
           E+
Sbjct: 179 ER 180


>gi|322628321|gb|EFY25109.1| type I restriction enzyme EcoEI specificity protein [Salmonella
           enterica subsp. enterica serovar Montevideo str.
           495297-4]
          Length = 118

 Score = 50.2 bits (118), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 20/123 (16%), Positives = 43/123 (34%), Gaps = 13/123 (10%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           +PK W ++ +    KL  G + +      K +  I ++++ +G+G Y    G  +     
Sbjct: 2   VPKGWMLLQVSDICKLQNGNSFKPHEWDTKGLPIIRIQNL-NGSGNYNYFSGVPQD---- 56

Query: 77  TVSIFAKGQILYGKLGPYL---RKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
              +   GQ+L+   G         I     G+ +     +   + + E      L    
Sbjct: 57  -KWLVEPGQLLFSWAGTKGVSFGPFIWNGPKGVLNQHIYKVFANENVHEHWLYLALLHIT 115

Query: 134 TQR 136
            + 
Sbjct: 116 QKN 118


>gi|15902490|ref|NP_358040.1| type I restriction-modification system S subunit [Streptococcus
           pneumoniae R6]
 gi|116516954|ref|YP_815959.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae D39]
 gi|15458014|gb|AAK99250.1| Type I restriction enzyme EcoKI specificity protein (S protein)
           [Streptococcus pneumoniae R6]
 gi|116077530|gb|ABJ55250.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae D39]
          Length = 199

 Score = 50.2 bits (118), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 13/119 (10%), Positives = 36/119 (30%), Gaps = 7/119 (5%)

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA----VKPHGIDSTYLAWL 336
                +   +++                     G++   ++      +   I S +L + 
Sbjct: 81  SEQVYLKHNQLITPVATSLEHIGKFARIDKDYDGVVAGGFIFQLTPFESSEIISKFLLFN 140

Query: 337 MRSYDLCKVFY---AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
           + S    K       +      ++    +  L + + P +EQ  IT  +     +++ L
Sbjct: 141 LSSPLFYKQLKAITKLSGQALYNIPKTTLSELLIPLAPFEEQELITQKVEKLFEKVNQL 199



 Score = 45.6 bits (106), Expect = 0.017,   Method: Composition-based stats.
 Identities = 35/182 (19%), Positives = 73/182 (40%), Gaps = 17/182 (9%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           G IP +W V+ IK    +NTG + +        K +  I   +++      L  D     
Sbjct: 17  GNIPMNWVVIKIKDIFSMNTGLSYKKGDLSINNKGVRIIRGGNIKPLEFSLLDNDYYIDT 76

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIA-----DFDGICSTQFLV----LQPKDVLPEL 123
              S+  ++ K   L   +   L           D+DG+ +  F+      +  +++ + 
Sbjct: 77  QFISSEQVYLKHNQLITPVATSLEHIGKFARIDKDYDGVVAGGFIFQLTPFESSEIISKF 136

Query: 124 LQGWLLSIDVTQRIEAICE--GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
           L   L S    ++++AI +  G  + +     +  + +P+ P  EQ LI +K+     ++
Sbjct: 137 LLFNLSSPLFYKQLKAITKLSGQALYNIPKTTLSELLIPLAPFEEQELITQKVEKLFEKV 196

Query: 182 DT 183
           + 
Sbjct: 197 NQ 198


>gi|55821024|ref|YP_139466.1| type I restriction-modification system specificty subunit
           [Streptococcus thermophilus LMG 18311]
 gi|55822944|ref|YP_141385.1| type I restriction-modification system specificty subunit
           [Streptococcus thermophilus CNRZ1066]
 gi|116627786|ref|YP_820405.1| type I restriction-modification system specificty subunit
           [Streptococcus thermophilus LMD-9]
 gi|55737009|gb|AAV60651.1| type I restriction-modification system specificty subunit
           [Streptococcus thermophilus LMG 18311]
 gi|55738929|gb|AAV62570.1| type I restriction-modification system specificty subunit
           [Streptococcus thermophilus CNRZ1066]
 gi|116101063|gb|ABJ66209.1| Restriction endonuclease S subunit [Streptococcus thermophilus
           LMD-9]
 gi|312278345|gb|ADQ63002.1| Restriction endonuclease S subunit [Streptococcus thermophilus
           ND03]
          Length = 206

 Score = 50.2 bits (118), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 29/186 (15%), Positives = 65/186 (34%), Gaps = 8/186 (4%)

Query: 26  KVVPIKRFTKLNTGRTSESG---KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           K+V +        G+   +     +   I L D+ S    Y      S +       +  
Sbjct: 19  KLVRLGDVVDQFKGKAVPAKAEPGEFAVINLSDMTSNGIAYDNLKTFSEERRKLLRFLLE 78

Query: 83  KGQILYGKLGPYLRKAIIAD---FDGICSTQFLVLQPKDVLPELLQGWLLSIDV-TQRIE 138
            G +L    G   + A+  D    + + S+   VL+PK+ L      + L  ++    ++
Sbjct: 79  DGDVLIASKGTVQKVAVFEDQGKREVVASSNITVLRPKEKLRGFYIKFFLETEIGRAYLD 138

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQ-VLIREKIIAETVRIDTLITERIRFIELLKE 197
              +G  + +     + +I +P  P+ +Q   I   +         ++     +  + + 
Sbjct: 139 YADKGKAVLNLSTADLLDIKIPEIPIVKQDYQIAAYLRGRADYHRKMVRAEQEWENIQQN 198

Query: 198 KKQALV 203
             +AL 
Sbjct: 199 VTEALF 204



 Score = 38.2 bits (87), Expect = 2.4,   Method: Composition-based stats.
 Identities = 12/121 (9%), Positives = 34/121 (28%), Gaps = 4/121 (3%)

Query: 266 QKLETRNMGLKPESYET--YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
             +   N+    E        +++ G+++                   E    ++  +  
Sbjct: 55  NGIAYDNLKTFSEERRKLLRFLLEDGDVLIASKGTVQKVAVFEDQGKREVVASSNITVLR 114

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQF-DITNV 381
               +   Y+ + + +            G    +L   D+  + +   PI +Q   I   
Sbjct: 115 PKEKLRGFYIKFFLETEIGRAYLDYADKGKAVLNLSTADLLDIKIPEIPIVKQDYQIAAY 174

Query: 382 I 382
           +
Sbjct: 175 L 175


>gi|295837451|ref|ZP_06824384.1| phosphoribosylformylglycinamidine synthase [Streptomyces sp. SPB74]
 gi|197699691|gb|EDY46624.1| phosphoribosylformylglycinamidine synthase [Streptomyces sp. SPB74]
          Length = 385

 Score = 50.2 bits (118), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 18/158 (11%), Positives = 48/158 (30%), Gaps = 11/158 (6%)

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA----YMA 322
           +        +  +     +V  G+++F   + ++   ++   +     +        ++ 
Sbjct: 220 RGSESKPVPEDYTVPPAHLVREGDLLFSRANTEDLIGAVALVEEFTGALALPDKLWRFVW 279

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDIT 379
                    Y+  L R  +  +      SG     +++    V  +   +PP   + +  
Sbjct: 280 HDGQDGHPLYVRHLFRQKEFRRRIRERASGTSGSMKNISQPKVLGIRCGIPPEGLRAEFC 339

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
             +      ID         +  L E  +S    A +G
Sbjct: 340 ARV----RSIDASRRAHRGHLAALDELFTSLRHRAFSG 373



 Score = 46.7 bits (109), Expect = 0.008,   Method: Composition-based stats.
 Identities = 23/89 (25%), Positives = 35/89 (39%), Gaps = 12/89 (13%)

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
           +     G D  YL   + S D+    YA          F+ +K  PV+ PP+ EQ  I  
Sbjct: 86  ILAAREGFDPRYLYQFLASLDIPDAGYAR--------HFKFLKNFPVVKPPLAEQQRIAA 137

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSS 409
           +++      D L  K  ++  LL     S
Sbjct: 138 LLDHV----DALRAKRREATTLLDSLAQS 162


>gi|310831373|ref|YP_003970016.1| putative type I restriction modification enzyme, M and S domains
           [Cafeteria roenbergensis virus BV-PW1]
 gi|309386557|gb|ADO67417.1| putative type I restriction modification enzyme, M and S domains
           [Cafeteria roenbergensis virus BV-PW1]
          Length = 817

 Score = 50.2 bits (118), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 56/381 (14%), Positives = 114/381 (29%), Gaps = 59/381 (15%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           + + +    K  +    ++             +  GKY     + +           + +
Sbjct: 491 EWMKLGDICKFLSKSKKQASYG----------NNEGKYNFYTSSYKIKKCDEYDY--EDE 538

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
            L   +G      I  D    CS+  ++L+ +         + L       +E   EGA 
Sbjct: 539 CLI--IGTGGNVNIKLDSKFCCSSDNIILKSQY----NKYIYYLLSYNLNLLEKGFEGAG 592

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
           + H     I N+ +PIP    Q  I ++I      I     +                  
Sbjct: 593 IKHISKDYIRNLKIPIPSSETQEEIIQQIEILNKEIKNNEDKIKNN------------QN 640

Query: 206 IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII 265
           I    +   +K     IEW                         + +  +    SYGN  
Sbjct: 641 ISKMYMEMMMKKHQDNIEWN------------------KLGDLCEFLSKSKKQASYGNNE 682

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
            K        K +  + Y   D   ++       N K   +     +  I+ S Y     
Sbjct: 683 GKYNFYTSSYKIKKCDEYDYEDE-CLIIGTGGNVNIKLDSKFCCSADNIILKSQYNKYIY 741

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
           + +           Y+L  +         + +  + ++ L + +P +K Q +I + ++ E
Sbjct: 742 YLLS----------YNLNLLEKGFEGAGIKHISKDYIRNLKIPIPLLKIQNNIVDFLDKE 791

Query: 386 TARIDVLVEKIEQSIVLLKER 406
              I+ L  + +    ++KE 
Sbjct: 792 NELINKLKLQNDTYKNMIKEI 812


>gi|210630409|ref|ZP_03296444.1| hypothetical protein COLSTE_00328 [Collinsella stercoris DSM 13279]
 gi|210160491|gb|EEA91462.1| hypothetical protein COLSTE_00328 [Collinsella stercoris DSM 13279]
          Length = 105

 Score = 50.2 bits (118), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 12/74 (16%), Positives = 32/74 (43%), Gaps = 3/74 (4%)

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
           + ++  A +  G +S +L +L+++           +     +    V  +PV +P ++ Q
Sbjct: 23  LNTSLYATEFKGSNSRFLYYLLKTLPWESY---ATASAVPGINRNHVNAIPVCLPDLECQ 79

Query: 376 FDITNVINVETARI 389
             I +++     +I
Sbjct: 80  IGIASMLGALDDKI 93


>gi|255284472|ref|ZP_05349027.1| putative type I restriction-modification system specificity
           determinant [Bryantella formatexigens DSM 14469]
 gi|255264982|gb|EET58187.1| putative type I restriction-modification system specificity
           determinant [Bryantella formatexigens DSM 14469]
          Length = 361

 Score = 50.2 bits (118), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 46/352 (13%), Positives = 96/352 (27%), Gaps = 26/352 (7%)

Query: 39  GRTSESGKDIIYIGLEDVES-GTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLR- 96
           G   E+G  I  +   +  + G   Y      +            KG I+  K G   + 
Sbjct: 17  GTDDETGDGIPVLRTTNFTNEGVINYSDIVTRTITKKNIDEKFLRKGDIIIEKSGGSDKF 76

Query: 97  -KAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIG 155
               +  FDG  +T         +  +  + W               G T S  +     
Sbjct: 77  PVGRVIYFDGEDNTYLFNNFTGLLRVKNQEVWYPRYVFYSLFANYQRGGTKSFEN--KTT 134

Query: 156 NIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDV 215
            +               +I  +   +     +++  I  L+E +   +  ++        
Sbjct: 135 GLHNLKTDDYVSKYEVAEIDKKEQILICERLDKLYGIIKLREHELQFLDNLI-------- 186

Query: 216 KMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL 275
             K   IE  G            +      + +     SN  +++     +       G 
Sbjct: 187 --KARFIEMFGDS-------RINSKGFRTKKGSELFKISNGKAVANDKRFEDGIPAYGGN 237

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
               Y    + +   IV   +  Q+    L    V     IT   M +     DS  L +
Sbjct: 238 GISWYTDEVLYEQDTIVIGRVGFQSGNVHLVKGPV----WITDNAMYISDFYDDSLCLVF 293

Query: 336 LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
           L              +G  + +  +   ++  ++P  + Q +  + +     
Sbjct: 294 LCEMMKQIDFTRLQDAGDLKKVTQKPFMKMDYILPSKQLQDEYVDFVKQVDK 345


>gi|291559579|emb|CBL38379.1| Type I restriction modification DNA specificity domain
           [butyrate-producing bacterium SSC/2]
          Length = 224

 Score = 50.2 bits (118), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 28/204 (13%), Positives = 59/204 (28%), Gaps = 7/204 (3%)

Query: 216 KMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL 275
             K SG E       +  +   +   +  N       +   LS      ++         
Sbjct: 22  PYKSSGGEMTFCKELNQNIPQNWGYTSVGNITVCFDSDRIPLSNHQRQEMKGTIPYYGAT 81

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ-VMERGIITSAYMAVKPHGIDSTYLA 334
               Y    I     ++        D       Q +     I +    ++P    S  L 
Sbjct: 82  GIMDYVNCAIFSGDFVLLAEDGSVMDDNGNPILQRISGDVWINNHTHVLQPVNGYSCRLL 141

Query: 335 WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
           +L+       +       ++  +   ++    +L  P   +    N I      ID  + 
Sbjct: 142 YLLLKDIPVSMIK--TGSIQMKINQANLNSYNILNIPDGIRSRFINQIE----PIDTKII 195

Query: 395 KIEQSIVLLKERRSSFIAAAVTGQ 418
           +I++    LK+ R+  +   + GQ
Sbjct: 196 QIQKENDNLKQIRNWLLPMLMNGQ 219


>gi|118480579|ref|YP_879301.1| hypothetical protein pL2_p3 [Lactococcus lactis subsp. lactis]
 gi|118136319|gb|ABK62798.1| hypothetical protein [Lactococcus lactis subsp. lactis]
          Length = 159

 Score = 50.2 bits (118), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 28/124 (22%), Positives = 53/124 (42%), Gaps = 12/124 (9%)

Query: 20  AIPK--------HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSR 71
            +P+         W+   +     +     S +   +  +  ED+ +G G+       SR
Sbjct: 15  KVPELRFPGFTDDWEQRKLSDI--VVRLTKSSNNNQLPKVEFEDIIAGEGRL--NKDISR 70

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
           + D    ++F    ILYGKL PYL+  + +DF GI    F V + K+  P+ +   + + 
Sbjct: 71  KFDDRKGTLFEPDNILYGKLRPYLKNWLFSDFKGIALGDFWVFKSKNSEPKFVYSLIQAD 130

Query: 132 DVTQ 135
           +  +
Sbjct: 131 NYQR 134


>gi|326408002|gb|ADZ65069.1| conserved hypothetical protein [Lactococcus lactis subsp. lactis
           CV56]
          Length = 159

 Score = 50.2 bits (118), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 28/124 (22%), Positives = 53/124 (42%), Gaps = 12/124 (9%)

Query: 20  AIPK--------HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSR 71
            +P+         W+   +     +     S +   +  +  ED+ +G G+       SR
Sbjct: 15  KVPELRFPGFTDDWEQRKLSDI--VVRLTKSSNNNQLPKVEFEDIIAGEGRL--NKDISR 70

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
           + D    ++F    ILYGKL PYL+  + +DF GI    F V + K+  P+ +   + + 
Sbjct: 71  KFDDRKGTLFEPDNILYGKLRPYLKNWLFSDFKGIALGDFWVFKSKNSEPKFVYSLIQAD 130

Query: 132 DVTQ 135
           +  +
Sbjct: 131 NYQR 134


>gi|167767084|ref|ZP_02439137.1| hypothetical protein CLOSS21_01602 [Clostridium sp. SS2/1]
 gi|167711059|gb|EDS21638.1| hypothetical protein CLOSS21_01602 [Clostridium sp. SS2/1]
          Length = 249

 Score = 50.2 bits (118), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 26/191 (13%), Positives = 55/191 (28%), Gaps = 7/191 (3%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKD----IIYIGLEDVESGTGKYLPKDGNSR--QSD 74
           IP  W+V P+        G       +       I + ++ S T      + +       
Sbjct: 52  IPAGWQVKPMGTICSFRNGINYNKNVEGNTTYKIINVRNISSSTLFLDESNFDEICLPRQ 111

Query: 75  TSTVSIFAKGQILYGKLG-PYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
                  +   I+  + G P   + +      I    F++              L     
Sbjct: 112 QGDKYCVSDESIIIARSGIPGATRILCNPSSNIIFCGFIICCTPYNNTLQNYLTLYLKQF 171

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIE 193
                    G+ + +   + + N+ +PIPP +      + +      I   I E ++   
Sbjct: 172 EGSSATQTGGSILKNVSQETLKNLLVPIPPQSLLNQFNDSVSHIYNLIIGNIKENVQLTT 231

Query: 194 LLKEKKQALVS 204
           L       L++
Sbjct: 232 LRDWLLPMLMN 242



 Score = 50.2 bits (118), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 28/186 (15%), Positives = 50/186 (26%), Gaps = 6/186 (3%)

Query: 233 EVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIV 292
                     +    NT     N+ ++S   +       +    P        V    I+
Sbjct: 65  CSFRNGINYNKNVEGNTTYKIINVRNISSSTLFLDESNFDEICLPRQQGDKYCVSDESII 124

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
                +    R L         I     +   P+         L             G  
Sbjct: 125 IARSGIPGATRILC--NPSSNIIFCGFIICCTPYNNTLQNYLTLYLKQFEGSSATQTGGS 182

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           + +++  E +K L V +PP      + N  N   + I  L+    +  V L   R   + 
Sbjct: 183 ILKNVSQETLKNLLVPIPP----QSLLNQFNDSVSHIYNLIIGNIKENVQLTTLRDWLLP 238

Query: 413 AAVTGQ 418
             + GQ
Sbjct: 239 MLMNGQ 244


>gi|295112013|emb|CBL28763.1| Type I restriction modification DNA specificity domain.
           [Synergistetes bacterium SGP1]
          Length = 66

 Score = 50.2 bits (118), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 6/60 (10%), Positives = 27/60 (45%), Gaps = 4/60 (6%)

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
            + ++  ++++ + + +PPI+ Q +          ++D     +++++   +    S + 
Sbjct: 7   GQANINAQELQSIGIYIPPIELQKEFVAF----KEQLDKSKIAVQKALDEAQLLFDSLMQ 62


>gi|58038321|ref|YP_190290.1| hypothetical protein GOX2570 [Gluconobacter oxydans 621H]
 gi|58000735|gb|AAW59634.1| hypothetical protein GOX2570 [Gluconobacter oxydans 621H]
          Length = 198

 Score = 50.2 bits (118), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 25/137 (18%), Positives = 50/137 (36%), Gaps = 16/137 (11%)

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID--STYLAWLMRSYDL 342
            + PG+I+F      +    +  +    + +    +  ++    D    YLAW +     
Sbjct: 66  WLRPGDILFPARGNVSLAVLINESVGSLQAVAAPHFFLLRVSRSDVLPAYLAWWLNQEPA 125

Query: 343 CKVF--YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
            +     A  S L +++    ++  PVL+PP+  Q  I             L   +++  
Sbjct: 126 QRHLEQNAQSSTLVRNIARPVLEATPVLLPPLPRQEQIV-----------GLASAMQREE 174

Query: 401 VLLKERRSSFIAAAVTG 417
            LL   R +     +TG
Sbjct: 175 DLLHRLRQT-NHQIMTG 190


>gi|303260806|ref|ZP_07346759.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae SP-BS293]
 gi|303265413|ref|ZP_07351317.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae BS397]
 gi|302638055|gb|EFL68537.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae SP-BS293]
 gi|302645054|gb|EFL75297.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae BS397]
          Length = 180

 Score = 50.2 bits (118), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 13/119 (10%), Positives = 36/119 (30%), Gaps = 7/119 (5%)

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA----VKPHGIDSTYLAWL 336
                +   +++                     G++   ++      +   I S +L + 
Sbjct: 60  SEQVYLKHNQLITPVSTSIEHIGKFARIDKDYDGVVAGGFIFQLTPFESSEIISKFLLFN 119

Query: 337 MRSYDLCKVFY---AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
           + S    K       +      ++    +  L + + P +EQ  IT  +     +++ L
Sbjct: 120 LSSPLFYKQLKAITKLSGQALYNIPKTTLSELLIPLAPFEEQELITQKVEKLFEKVNQL 178



 Score = 41.7 bits (96), Expect = 0.22,   Method: Composition-based stats.
 Identities = 32/178 (17%), Positives = 71/178 (39%), Gaps = 16/178 (8%)

Query: 24  HWKVVPIKRFTKLNTGRTSES-----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           +W V+ IK    +NTG + +       K +  I   +++      L  D        S+ 
Sbjct: 2   NWVVIKIKDIFSINTGLSYKKGDLSINKGVRIIRGGNIKPLEFSLLDNDYYIDTQFISSE 61

Query: 79  SIFAKGQILYGKLGPYLRKAIIA-----DFDGICSTQFLV----LQPKDVLPELLQGWLL 129
            ++ K   L   +   +           D+DG+ +  F+      +  +++ + L   L 
Sbjct: 62  QVYLKHNQLITPVSTSIEHIGKFARIDKDYDGVVAGGFIFQLTPFESSEIISKFLLFNLS 121

Query: 130 SIDVTQRIEAICE--GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
           S    ++++AI +  G  + +     +  + +P+ P  EQ LI +K+     +++ L 
Sbjct: 122 SPLFYKQLKAITKLSGQALYNIPKTTLSELLIPLAPFEEQELITQKVEKLFEKVNQLW 179


>gi|148993499|ref|ZP_01822990.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP9-BS68]
 gi|148996903|ref|ZP_01824621.1| phosphoglycerate kinase [Streptococcus pneumoniae SP11-BS70]
 gi|149003723|ref|ZP_01828568.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP14-BS69]
 gi|149025496|ref|ZP_01836432.1| phosphoglycerate kinase [Streptococcus pneumoniae SP23-BS72]
 gi|168485037|ref|ZP_02709975.1| type I restriction enzyme EcoKI specificity protein [Streptococcus
           pneumoniae CDC1873-00]
 gi|168490390|ref|ZP_02714589.1| type I restriction enzyme EcoKI specificity protein [Streptococcus
           pneumoniae SP195]
 gi|147757478|gb|EDK64517.1| phosphoglycerate kinase [Streptococcus pneumoniae SP11-BS70]
 gi|147758285|gb|EDK65286.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP14-BS69]
 gi|147927868|gb|EDK78889.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP9-BS68]
 gi|147929446|gb|EDK80442.1| phosphoglycerate kinase [Streptococcus pneumoniae SP23-BS72]
 gi|172041856|gb|EDT49902.1| type I restriction enzyme EcoKI specificity protein [Streptococcus
           pneumoniae CDC1873-00]
 gi|183571292|gb|EDT91820.1| type I restriction enzyme EcoKI specificity protein [Streptococcus
           pneumoniae SP195]
 gi|332074784|gb|EGI85257.1| type I restriction modification DNA specificity domain protein
           [Streptococcus pneumoniae GA17570]
 gi|332077787|gb|EGI88248.1| type I restriction modification DNA specificity domain protein
           [Streptococcus pneumoniae GA41301]
          Length = 181

 Score = 49.8 bits (117), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 13/119 (10%), Positives = 36/119 (30%), Gaps = 7/119 (5%)

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA----VKPHGIDSTYLAWL 336
                +   +++                     G++   ++      +   I S +L + 
Sbjct: 61  SEQVYLKHNQLITPVSTSLEHIGKFARIDKDYDGVVAGGFIFQLTPFESSEIISKFLLFN 120

Query: 337 MRSYDLCKVFY---AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
           + S    K       +      ++    +  L + + P +EQ  IT  +     +++ L
Sbjct: 121 LSSPLFYKQLKAITKLSGQALYNIPKTTLSELLIPLAPFEEQELITQKVEKLFEKVNQL 179



 Score = 39.8 bits (91), Expect = 0.95,   Method: Composition-based stats.
 Identities = 33/179 (18%), Positives = 71/179 (39%), Gaps = 17/179 (9%)

Query: 24  HWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +W V+ IK    +NTG + +        K +  I   +++      L  D        S+
Sbjct: 2   NWVVIKIKDIFSMNTGLSYKKGDLSINNKGVRIIRGGNIKPLEFSLLDNDYYIDTQFISS 61

Query: 78  VSIFAKGQILYGKLGPYLRKAIIA-----DFDGICSTQFLV----LQPKDVLPELLQGWL 128
             ++ K   L   +   L           D+DG+ +  F+      +  +++ + L   L
Sbjct: 62  EQVYLKHNQLITPVSTSLEHIGKFARIDKDYDGVVAGGFIFQLTPFESSEIISKFLLFNL 121

Query: 129 LSIDVTQRIEAICE--GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
            S    ++++AI +  G  + +     +  + +P+ P  EQ LI +K+     +++ L 
Sbjct: 122 SSPLFYKQLKAITKLSGQALYNIPKTTLSELLIPLAPFEEQELITQKVEKLFEKVNQLW 180


>gi|303253837|ref|ZP_07339965.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae BS455]
 gi|303263135|ref|ZP_07349061.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae SP14-BS292]
 gi|303267728|ref|ZP_07353543.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae BS457]
 gi|303270103|ref|ZP_07355809.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae BS458]
 gi|302599201|gb|EFL66219.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae BS455]
 gi|302635722|gb|EFL66231.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae SP14-BS292]
 gi|302640365|gb|EFL70806.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae BS458]
 gi|302642738|gb|EFL73070.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae BS457]
          Length = 182

 Score = 49.8 bits (117), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 13/119 (10%), Positives = 36/119 (30%), Gaps = 7/119 (5%)

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA----VKPHGIDSTYLAWL 336
                +   +++                     G++   ++      +   I S +L + 
Sbjct: 62  SEQVYLKHNQLITPVSTSIEHIGKFARIDKDYDGVVAGGFIFQLTPFESSEIISKFLLFN 121

Query: 337 MRSYDLCKVFY---AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
           + S    K       +      ++    +  L + + P +EQ  IT  +     +++ L
Sbjct: 122 LSSPLFYKQLKAITKLSGQALYNIPKTTLSELLIPLAPFEEQELITQKVEKLFEKVNQL 180



 Score = 45.6 bits (106), Expect = 0.015,   Method: Composition-based stats.
 Identities = 34/181 (18%), Positives = 73/181 (40%), Gaps = 16/181 (8%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSES-----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           IP +W V+ IK    +NTG + +       K +  I   +++      L  D        
Sbjct: 1   IPMNWVVIKIKDIFSINTGLSYKKGDLSINKGVRIIRGGNIKPLEFSLLDNDYYIDTQFI 60

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIA-----DFDGICSTQFLV----LQPKDVLPELLQG 126
           S+  ++ K   L   +   +           D+DG+ +  F+      +  +++ + L  
Sbjct: 61  SSEQVYLKHNQLITPVSTSIEHIGKFARIDKDYDGVVAGGFIFQLTPFESSEIISKFLLF 120

Query: 127 WLLSIDVTQRIEAICE--GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
            L S    ++++AI +  G  + +     +  + +P+ P  EQ LI +K+     +++ L
Sbjct: 121 NLSSPLFYKQLKAITKLSGQALYNIPKTTLSELLIPLAPFEEQELITQKVEKLFEKVNQL 180

Query: 185 I 185
            
Sbjct: 181 W 181


>gi|291087311|ref|ZP_06346079.2| putative Type I restriction modification DNA specificity protein
           [Clostridium sp. M62/1]
 gi|291075336|gb|EFE12700.1| putative Type I restriction modification DNA specificity protein
           [Clostridium sp. M62/1]
          Length = 245

 Score = 49.8 bits (117), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 23/135 (17%), Positives = 50/135 (37%), Gaps = 10/135 (7%)

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII-TSAYMAVKPHGIDSTYLAWLMRSY 340
           T  I   G+IV              +      G+   +  + VK + I   +LA+ + ++
Sbjct: 119 TNTIEHDGDIVMVAR--VGANAGKVNFFSGRCGVTDNTLVIRVKENTIHPKFLAYFLENF 176

Query: 341 DLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
           DL K+ +      +  +    +K++   V   K Q  IT  +      +D ++   +  +
Sbjct: 177 DLHKLIF---GSGQPLVTGGQLKKIQSPVIAYKAQLLITRSLES----LDRIIGTQDTYM 229

Query: 401 VLLKERRSSFIAAAV 415
             L + +S  +    
Sbjct: 230 EKLIQLKSGLMQRLF 244


>gi|321310217|ref|YP_004192546.1| type I restriction-modification system, S subunit (fragment)
           [Mycoplasma haemofelis str. Langford 1]
 gi|319802061|emb|CBY92707.1| type I restriction-modification system, S subunit (fragment)
           [Mycoplasma haemofelis str. Langford 1]
          Length = 132

 Score = 49.8 bits (117), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 13/93 (13%), Positives = 30/93 (32%), Gaps = 3/93 (3%)

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID--STYLAWLMRSYDLCKVFYAMGSG 352
              +      +      +    ++  +   P+       YL   + S          GS 
Sbjct: 1   MTAVGACCGKVGINLTDQEFFFSNNVLKFSPNEKLLTKRYLYHFLLSQQEEIEGMRKGSS 60

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
            +  +    +KRL + VP ++ Q  I+  ++  
Sbjct: 61  -QPFVGQSALKRLKIPVPSLETQMKISETLDKF 92


>gi|42779915|ref|NP_977162.1| type I restriction-modification system, M subunit, putative
           [Bacillus cereus ATCC 10987]
 gi|42735833|gb|AAS39770.1| type I restriction-modification system, M subunit, putative
           [Bacillus cereus ATCC 10987]
          Length = 613

 Score = 49.8 bits (117), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 26/154 (16%), Positives = 53/154 (34%), Gaps = 7/154 (4%)

Query: 26  KVVPIKRFTKLNTGRTSESGKD---IIYIGLEDVESGTGKYLPKDGNSRQS-DTSTVSIF 81
           K V +    +L  G   +S      I  I   D++ G       +  S         +  
Sbjct: 422 KTVELGEIAELTNGINIKSSDGQHSIQIIKASDIQGGKISVDELESVSVADLSVIQKAKV 481

Query: 82  AKGQILYGKLGPYLRKAIIADFDG--ICSTQFLVLQPKDVLPELLQGWLLSIDV-TQRIE 138
             G I+    G  ++ A++    G    S   ++++PK+ +        L       ++E
Sbjct: 482 QAGDIVLLSRGTSIKFAVVPKGIGNAYASMNLMIIRPKEGVDPYFIQTFLESPFGIWQME 541

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIRE 172
            I  G T+       + +I +P      Q+ + +
Sbjct: 542 QIQTGTTIQLIKLGDMKSIRVPSLTQEVQIQVGK 575


>gi|298256070|ref|ZP_06979656.1| type I site-specific deoxyribonuclease chain S [Streptococcus
           pneumoniae str. Canada MDR_19A]
 gi|298502304|ref|YP_003724244.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae TCH8431/19A]
 gi|298237899|gb|ADI69030.1| possible type I restriction-modification system, S subunit
           [Streptococcus pneumoniae TCH8431/19A]
          Length = 181

 Score = 49.8 bits (117), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 13/119 (10%), Positives = 36/119 (30%), Gaps = 7/119 (5%)

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA----VKPHGIDSTYLAWL 336
                +   +++                     G++   ++      +   I S +L + 
Sbjct: 61  SEQVYLKHNQLITPVATSLEHIGKFARIDKDYDGVVAGGFIFQLTPFESSEIISKFLLFN 120

Query: 337 MRSYDLCKVFY---AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
           + S    K       +      ++    +  L + + P +EQ  IT  +     +++ L
Sbjct: 121 LSSPLFYKQLKAITKLSGQALYNIPKTTLSELLIPLAPFEEQELITQKVEKLFEKVNQL 179



 Score = 39.8 bits (91), Expect = 0.97,   Method: Composition-based stats.
 Identities = 33/179 (18%), Positives = 71/179 (39%), Gaps = 17/179 (9%)

Query: 24  HWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +W V+ IK    +NTG + +        K +  I   +++      L  D        S+
Sbjct: 2   NWVVIKIKDIFSMNTGLSYKKGDLSINNKGVRIIRGGNIKPLEFSLLDNDYYIDTQFISS 61

Query: 78  VSIFAKGQILYGKLGPYLRKAIIA-----DFDGICSTQFLV----LQPKDVLPELLQGWL 128
             ++ K   L   +   L           D+DG+ +  F+      +  +++ + L   L
Sbjct: 62  EQVYLKHNQLITPVATSLEHIGKFARIDKDYDGVVAGGFIFQLTPFESSEIISKFLLFNL 121

Query: 129 LSIDVTQRIEAICE--GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
            S    ++++AI +  G  + +     +  + +P+ P  EQ LI +K+     +++ L 
Sbjct: 122 SSPLFYKQLKAITKLSGQALYNIPKTTLSELLIPLAPFEEQELITQKVEKLFEKVNQLW 180


>gi|237649418|ref|ZP_04523670.1| type I restriction enzyme [Streptococcus pneumoniae CCRI 1974]
 gi|237821511|ref|ZP_04597356.1| type I restriction enzyme [Streptococcus pneumoniae CCRI 1974M2]
          Length = 183

 Score = 49.8 bits (117), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 13/119 (10%), Positives = 36/119 (30%), Gaps = 7/119 (5%)

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA----VKPHGIDSTYLAWL 336
                +   +++                     G++   ++      +   I S +L + 
Sbjct: 63  SEQVYLKHNQLITPVSTSLEHIGKFARIDKDYDGVVAGGFIFQLTPFESSEIISKFLLFN 122

Query: 337 MRSYDLCKVFY---AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
           + S    K       +      ++    +  L + + P +EQ  IT  +     +++ L
Sbjct: 123 LSSPLFYKQLKAITKLSGQALYNIPKTTLSELLIPLAPFEEQELITQKVEKLFEKVNQL 181



 Score = 43.6 bits (101), Expect = 0.068,   Method: Composition-based stats.
 Identities = 35/182 (19%), Positives = 73/182 (40%), Gaps = 17/182 (9%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           IP +W V+ IK    +NTG + +        K +  I   +++      L  D       
Sbjct: 1   IPMNWVVIKIKDIFSMNTGLSYKKGDLSINNKGVRIIRGGNIKPLEFSLLDNDYYIDTQF 60

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIA-----DFDGICSTQFLV----LQPKDVLPELLQ 125
            S+  ++ K   L   +   L           D+DG+ +  F+      +  +++ + L 
Sbjct: 61  ISSEQVYLKHNQLITPVSTSLEHIGKFARIDKDYDGVVAGGFIFQLTPFESSEIISKFLL 120

Query: 126 GWLLSIDVTQRIEAICE--GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
             L S    ++++AI +  G  + +     +  + +P+ P  EQ LI +K+     +++ 
Sbjct: 121 FNLSSPLFYKQLKAITKLSGQALYNIPKTTLSELLIPLAPFEEQELITQKVEKLFEKVNQ 180

Query: 184 LI 185
           L 
Sbjct: 181 LW 182


>gi|183603915|ref|ZP_02723115.2| type I restriction enzyme EcoKI specificity protein [Streptococcus
           pneumoniae MLV-016]
 gi|225856226|ref|YP_002737737.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae P1031]
 gi|183577150|gb|EDT97678.1| type I restriction enzyme EcoKI specificity protein [Streptococcus
           pneumoniae MLV-016]
 gi|225725045|gb|ACO20897.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae P1031]
          Length = 201

 Score = 49.8 bits (117), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 13/119 (10%), Positives = 36/119 (30%), Gaps = 7/119 (5%)

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA----VKPHGIDSTYLAWL 336
                +   +++                     G++   ++      +   I S +L + 
Sbjct: 81  SEQVYLKHNQLITPVSTSLEHIGKFARIDKDYDGVVAGGFIFQLTPFESSEIISKFLLFN 140

Query: 337 MRSYDLCKVFY---AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
           + S    K       +      ++    +  L + + P +EQ  IT  +     +++ L
Sbjct: 141 LSSPLFYKQLKAITKLSGQALYNIPKTTLSELLIPLAPFEEQELITQKVEKLFEKVNQL 199



 Score = 45.2 bits (105), Expect = 0.021,   Method: Composition-based stats.
 Identities = 36/184 (19%), Positives = 74/184 (40%), Gaps = 17/184 (9%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           G IP +W V+ IK    +NTG + +        K +  I   +++      L  D     
Sbjct: 17  GNIPMNWVVIKIKDIFSMNTGLSYKKGDLSINNKGVRIIRGGNIKPLEFSLLDNDYYIDT 76

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIA-----DFDGICSTQFLV----LQPKDVLPEL 123
              S+  ++ K   L   +   L           D+DG+ +  F+      +  +++ + 
Sbjct: 77  QFISSEQVYLKHNQLITPVSTSLEHIGKFARIDKDYDGVVAGGFIFQLTPFESSEIISKF 136

Query: 124 LQGWLLSIDVTQRIEAICE--GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
           L   L S    ++++AI +  G  + +     +  + +P+ P  EQ LI +K+     ++
Sbjct: 137 LLFNLSSPLFYKQLKAITKLSGQALYNIPKTTLSELLIPLAPFEEQELITQKVEKLFEKV 196

Query: 182 DTLI 185
           + L 
Sbjct: 197 NQLW 200


>gi|331266254|ref|YP_004325884.1| type I restriction-modification system, S subunit, putative
           [Streptococcus oralis Uo5]
 gi|326682926|emb|CBZ00543.1| type I restriction-modification system, S subunit, putative
           [Streptococcus oralis Uo5]
          Length = 180

 Score = 49.8 bits (117), Expect = 9e-04,   Method: Composition-based stats.
 Identities = 25/158 (15%), Positives = 53/158 (33%), Gaps = 13/158 (8%)

Query: 26  KVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           K V +     + +G   +S +       +  I + DVE G      +     +       
Sbjct: 2   KKVKLGEVCDILSGYAFKSSQFNDKKIGLPLIRIRDVERGFSDTYFEGAYPEE------Y 55

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           +   G +L    G ++ K        + + +   ++  +   +      L     + IE 
Sbjct: 56  LIKNGDLLITMDGSFILK-KWEGDLALLNQRVCKIKIMNKSVDEGYISWLIPKFLKEIED 114

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
                T+ H     I +I   +P + EQ +I +K+   
Sbjct: 115 KTPFVTVKHLSVAKIKDISFFLPDIQEQKIISKKLDTI 152



 Score = 45.2 bits (105), Expect = 0.018,   Method: Composition-based stats.
 Identities = 14/140 (10%), Positives = 37/140 (26%), Gaps = 10/140 (7%)

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
            +      +Y    ++  G+++            +      +  ++      +K      
Sbjct: 42  FSDTYFEGAYPEEYLIKNGDLLITMDGS-----FILKKWEGDLALLNQRVCKIKIMNKSV 96

Query: 331 TYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
                        K           + L    +K +   +P I+EQ  I+  ++     I
Sbjct: 97  DEGYISWLIPKFLKEIEDKTPFVTVKHLSVAKIKDISFFLPDIQEQKIISKKLDT----I 152

Query: 390 DVLVEKIEQSIVLLKERRSS 409
             +    ++      E   S
Sbjct: 153 RQIYNFRKKQSEKYNELVKS 172


>gi|301162156|emb|CBW21701.1| putative type IC restriction-modification system specificity
           subunit, partial [Bacteroides fragilis 638R]
          Length = 201

 Score = 49.8 bits (117), Expect = 9e-04,   Method: Composition-based stats.
 Identities = 12/127 (9%), Positives = 41/127 (32%), Gaps = 2/127 (1%)

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII--TSAYMA 322
             +    ++       +       G+++F      +    +  + +    ++     +  
Sbjct: 52  TYREIISHVESYTNKSDGMTFSKKGDLLFPSSTTVDAVSLITPSAINIDNVVLGGDMFGI 111

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
                 ++ YL++        +            L ++D+++  +L+P + EQ    N +
Sbjct: 112 HINSDYNAQYLSYYFNHIAKKQFAKYAKGSTIIHLHYKDIEKNKLLLPCLIEQNKTANNL 171

Query: 383 NVETARI 389
                +I
Sbjct: 172 ISLDEKI 178


>gi|183981974|ref|YP_001850265.1| type I restriction/modification system specificity determinant HsdS
           (S protein) [Mycobacterium marinum M]
 gi|183175300|gb|ACC40410.1| type I restriction/modification system specificity determinant HsdS
           (S protein) [Mycobacterium marinum M]
          Length = 361

 Score = 49.8 bits (117), Expect = 9e-04,   Method: Composition-based stats.
 Identities = 46/345 (13%), Positives = 99/345 (28%), Gaps = 48/345 (13%)

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           I+ G++G Y       D D   +    V +  D        + L         A   G+ 
Sbjct: 46  IVVGRVGSYCGSVRYCDSDVWVTDNAYVCRANDPAETRYWYYALQTCRLNEHRA---GSG 102

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
               + + +  + + +    E+  I E + A   +I            L+     ++ + 
Sbjct: 103 QPLLNQRTLREVSVHVAQAPERRRIAEVLGALDDKIANNERVIEAAEALMVAMVGSVDAR 162

Query: 206 IVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII 265
           +   GL      K         V  H+ +  F A                          
Sbjct: 163 VALSGL-ARRSTKLVNPADFDDVVAHFSLPAFDAGAHARPVAG----------------- 204

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
                               +    ++F  ++ +  +         +  + +  ++ + P
Sbjct: 205 -----------ASVKSGKFHLSEPCVLFAKLNPRVPRIWNVVRLPPQMALASCEFVVLSP 253

Query: 326 HGIDSTYLAWLMRSYDL---CKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
            G+D++ L   +R  ++        A  SG  Q +  +D+  L V              +
Sbjct: 254 LGVDTSVLWSALRQPEVSTSLAQLVAGTSGSHQRIGPKDLLDLQVPD---------VRRL 304

Query: 383 -NVETARIDVLVEKIEQ---SIVLLKERRSSFIAAAVTGQIDLRG 423
              ++A I  L             L   R + +   VTG++ + G
Sbjct: 305 GAAQSATITDLGALCHARRGQCAQLAALRDALLPGLVTGEVAVSG 349


>gi|169834523|ref|YP_001694007.1| type I restriction modification DNA specificity domain-containing
           protein [Streptococcus pneumoniae Hungary19A-6]
 gi|168997025|gb|ACA37637.1| Type I restriction modification DNA specificity domain protein
           [Streptococcus pneumoniae Hungary19A-6]
          Length = 201

 Score = 49.8 bits (117), Expect = 0.001,   Method: Composition-based stats.
 Identities = 13/119 (10%), Positives = 36/119 (30%), Gaps = 7/119 (5%)

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA----VKPHGIDSTYLAWL 336
                +   +++                     G++   ++      +   I S +L + 
Sbjct: 81  SEQVYLKHNQLITPVSTSLEHIGKFARIDKDYDGVVAGGFIFQLTPFESSEIISKFLLFN 140

Query: 337 MRSYDLCKVFY---AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
           + S    K       +      ++    +  L + + P +EQ  IT  +     +++ L
Sbjct: 141 LSSPLFYKQLKAITKLSGQALYNIPKTTLSELLIPLAPFEEQELITQKVEKLFEKVNQL 199



 Score = 46.3 bits (108), Expect = 0.010,   Method: Composition-based stats.
 Identities = 36/184 (19%), Positives = 74/184 (40%), Gaps = 17/184 (9%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           G IP +W V+ IK    +NTG + +        K +  I   +++      L  D     
Sbjct: 17  GNIPMNWGVIKIKDIFSINTGLSYKKGDLSINNKGVRIIRGGNIKPLEFSLLDNDYYIDT 76

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIA-----DFDGICSTQFLV----LQPKDVLPEL 123
              S+  ++ K   L   +   L           D+DG+ +  F+      +  +++ + 
Sbjct: 77  QFISSEQVYLKHNQLITPVSTSLEHIGKFARIDKDYDGVVAGGFIFQLTPFESSEIISKF 136

Query: 124 LQGWLLSIDVTQRIEAICE--GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
           L   L S    ++++AI +  G  + +     +  + +P+ P  EQ LI +K+     ++
Sbjct: 137 LLFNLSSPLFYKQLKAITKLSGQALYNIPKTTLSELLIPLAPFEEQELITQKVEKLFEKV 196

Query: 182 DTLI 185
           + L 
Sbjct: 197 NQLW 200


>gi|223933197|ref|ZP_03625188.1| conserved hypothetical protein [Streptococcus suis 89/1591]
 gi|223898127|gb|EEF64497.1| conserved hypothetical protein [Streptococcus suis 89/1591]
          Length = 141

 Score = 49.8 bits (117), Expect = 0.001,   Method: Composition-based stats.
 Identities = 20/107 (18%), Positives = 47/107 (43%), Gaps = 7/107 (6%)

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV-P 370
           E   I S Y    P+ +      +   S       Y + +GL  +++ + +  + + +  
Sbjct: 41  EEAEIPSHYAVFLPNDMVLPKYLYHAISCQAGHFIYTVQTGL--NIQMDTLNEMKLKIHT 98

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
            +++Q +I   ++V    I+ +  K E +I LLK+ + + ++    G
Sbjct: 99  DLEKQAEIVKYLDV----IEKMEAKEEATIDLLKQAKQTNLSKMFVG 141


>gi|323143062|ref|ZP_08077766.1| type I restriction modification DNA specificity domain protein
           [Succinatimonas hippei YIT 12066]
 gi|322417163|gb|EFY07793.1| type I restriction modification DNA specificity domain protein
           [Succinatimonas hippei YIT 12066]
          Length = 575

 Score = 49.8 bits (117), Expect = 0.001,   Method: Composition-based stats.
 Identities = 27/123 (21%), Positives = 50/123 (40%), Gaps = 9/123 (7%)

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID--STYLAW 335
           ES     +V  G+I+            +           +   + +K    D    +L W
Sbjct: 444 ESSTLKNLVHKGDIILAIKGSVGKVGIITEEHPNWLAGQSFVILRIKEECADWTPDFLFW 503

Query: 336 LMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKE-QFDITNVINVETARIDVLV 393
            ++S  + +    + +G   Q LK +DVK L + +PP KE Q  I N    +  +++ ++
Sbjct: 504 QLKSKKINQFLKNVATGALIQLLKMDDVKNLKL-LPPAKELQEKIVN---AQKKKLE-II 558

Query: 394 EKI 396
            KI
Sbjct: 559 AKI 561



 Score = 47.5 bits (111), Expect = 0.005,   Method: Composition-based stats.
 Identities = 30/166 (18%), Positives = 60/166 (36%), Gaps = 10/166 (6%)

Query: 28  VPIKRFTKLNTGRTSESGKD---IIYIGLEDVE-SGTGKYLPKDGNSRQSDTSTVSIFAK 83
           V +     +   + S+  +       IG  D+  SG  +   K+    +  ++  ++  K
Sbjct: 395 VKLADIANIYRAQASKKEETGSSYFEIGAADINASGIVEQPTKEILIGKESSTLKNLVHK 454

Query: 84  GQILYGKLGPYLRKAIIADFD--GICSTQFLVLQPK----DVLPELLQGWLLSIDVTQRI 137
           G I+    G   +  II +     +    F++L+ K    D  P+ L   L S  + Q +
Sbjct: 455 GDIILAIKGSVGKVGIITEEHPNWLAGQSFVILRIKEECADWTPDFLFWQLKSKKINQFL 514

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           + +  GA +       + N+ +  P    Q  I      +   I  
Sbjct: 515 KNVATGALIQLLKMDDVKNLKLLPPAKELQEKIVNAQKKKLEIIAK 560


>gi|298254226|ref|ZP_06977812.1| type I restriction-modification system subunit S [Streptococcus
           pneumoniae str. Canada MDR_19A]
          Length = 180

 Score = 49.8 bits (117), Expect = 0.001,   Method: Composition-based stats.
 Identities = 31/188 (16%), Positives = 61/188 (32%), Gaps = 17/188 (9%)

Query: 26  KVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           K V +    ++ +G   +S +       +  I + DVE G            +       
Sbjct: 2   KKVKLGEVCEILSGYAFKSSQFNDNKIGLPLIRIRDVERGFSD------TYFEGTYPEEY 55

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           +   G +L    G ++ K        + + +   ++  D   +      L     + IE 
Sbjct: 56  LIKNGDLLITMDGSFILK-KWEGDLALLNQRVCKIKITDKSVDEGYISWLIPKFLKEIED 114

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
                T+ H     I +I   +P   EQ LI +K+      I  +   R    E   E  
Sbjct: 115 KTPFVTVKHLSVAKIKDISFVLPNKLEQKLIAKKLN----TISQIYDFRKIQSEKFNELV 170

Query: 200 QALVSYIV 207
           ++  + + 
Sbjct: 171 KSRFNEMF 178



 Score = 44.4 bits (103), Expect = 0.035,   Method: Composition-based stats.
 Identities = 16/137 (11%), Positives = 38/137 (27%), Gaps = 6/137 (4%)

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
            +      +Y    ++  G+++            +      +  ++      +K      
Sbjct: 42  FSDTYFEGTYPEEYLIKNGDLLITMDGS-----FILKKWEGDLALLNQRVCKIKITDKSV 96

Query: 331 TYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
                        K           + L    +K +  ++P   EQ  I   +N  +   
Sbjct: 97  DEGYISWLIPKFLKEIEDKTPFVTVKHLSVAKIKDISFVLPNKLEQKLIAKKLNTISQIY 156

Query: 390 DVLVEKIEQSIVLLKER 406
           D    + E+   L+K R
Sbjct: 157 DFRKIQSEKFNELVKSR 173


>gi|149012616|ref|ZP_01833613.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP19-BS75]
 gi|147763421|gb|EDK70358.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP19-BS75]
          Length = 239

 Score = 49.4 bits (116), Expect = 0.001,   Method: Composition-based stats.
 Identities = 23/199 (11%), Positives = 62/199 (31%), Gaps = 18/199 (9%)

Query: 211 LNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLET 270
           L+  +  +     + G +P +W V     + +     + K  + +I +     II+    
Sbjct: 40  LDISIVSQGDDNSYYGNIPMNWVVIKIKDIFSINTGLSYKKGDLSINN-KGVRIIRGGNI 98

Query: 271 RNMGLKPESYETYQ----------IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
           + +       + Y            +   +++                     G++   +
Sbjct: 99  KPLEFSLLDNDYYIDTQFISSEQVYLKHNQLITPVSTSLEHIGKFARIDKDYDGVVAGGF 158

Query: 321 MA----VKPHGIDSTYLAWLMRSYDLCKVFY---AMGSGLRQSLKFEDVKRLPVLVPPIK 373
           +      +   I S +L + + S    K       +      ++    +  L + + P +
Sbjct: 159 IFQLTPFESSEIISKFLLFNLSSPLFYKQLKAITKLSGQALYNIPKTTLSELLIPLAPFE 218

Query: 374 EQFDITNVINVETARIDVL 392
           EQ  IT  +     +++ L
Sbjct: 219 EQELITQKVEKLFEKVNQL 237



 Score = 47.1 bits (110), Expect = 0.005,   Method: Composition-based stats.
 Identities = 36/184 (19%), Positives = 74/184 (40%), Gaps = 17/184 (9%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           G IP +W V+ IK    +NTG + +        K +  I   +++      L  D     
Sbjct: 55  GNIPMNWVVIKIKDIFSINTGLSYKKGDLSINNKGVRIIRGGNIKPLEFSLLDNDYYIDT 114

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIA-----DFDGICSTQFLV----LQPKDVLPEL 123
              S+  ++ K   L   +   L           D+DG+ +  F+      +  +++ + 
Sbjct: 115 QFISSEQVYLKHNQLITPVSTSLEHIGKFARIDKDYDGVVAGGFIFQLTPFESSEIISKF 174

Query: 124 LQGWLLSIDVTQRIEAICE--GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
           L   L S    ++++AI +  G  + +     +  + +P+ P  EQ LI +K+     ++
Sbjct: 175 LLFNLSSPLFYKQLKAITKLSGQALYNIPKTTLSELLIPLAPFEEQELITQKVEKLFEKV 234

Query: 182 DTLI 185
           + L 
Sbjct: 235 NQLW 238


>gi|255693567|ref|ZP_05417242.1| putative type I restriction modification DNA specificity domain
           protein [Bacteroides finegoldii DSM 17565]
 gi|260620633|gb|EEX43504.1| putative type I restriction modification DNA specificity domain
           protein [Bacteroides finegoldii DSM 17565]
          Length = 193

 Score = 49.4 bits (116), Expect = 0.001,   Method: Composition-based stats.
 Identities = 20/181 (11%), Positives = 51/181 (28%), Gaps = 10/181 (5%)

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNIIQK-LETRNMGLKPESYETYQIVDPGEIVFRF 295
              + + +  K+    +   L +   N   K   +R   +          +   +++F  
Sbjct: 16  IAMMQSGIYMKSDPAGDIKYLQVKDINPRSKPDYSRITTVVDRGIGDQYRLRKNDLLFAA 75

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-R 354
               N                +   + +    I   +L   + +  +         G   
Sbjct: 76  KGASNYCFLYDGVVEKMVASSSFIIIRIISKDILPEFLCCFLNTPSVLNKLKKSSVGTGI 135

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAA 414
           Q +    +  L + +P ++ Q  I         ++D L  + E     + E + S     
Sbjct: 136 QVIPQSVLSDLQIGIPSMQTQQLIV--------QMDQLRREGESIYSEINELKRSLQEQL 187

Query: 415 V 415
           +
Sbjct: 188 L 188



 Score = 41.7 bits (96), Expect = 0.26,   Method: Composition-based stats.
 Identities = 28/169 (16%), Positives = 58/169 (34%), Gaps = 8/169 (4%)

Query: 26  KVVPIKRFTKLNTGR--TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            +  I     + +G    S+   DI Y+ ++D+   +     +                K
Sbjct: 9   DIKRISDIAMMQSGIYMKSDPAGDIKYLQVKDINPRSKPDYSRITTVVDRGIGDQYRLRK 68

Query: 84  GQILYGKLGPYLRKAIIA----DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
             +L+   G      +            S   + +  KD+LPE L  +L +  V  +++ 
Sbjct: 69  NDLLFAAKGASNYCFLYDGVVEKMVASSSFIIIRIISKDILPEFLCCFLNTPSVLNKLKK 128

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK--IIAETVRIDTLIT 186
              G  +       + ++ + IP +  Q LI +   +  E   I + I 
Sbjct: 129 SSVGTGIQVIPQSVLSDLQIGIPSMQTQQLIVQMDQLRREGESIYSEIN 177


>gi|298229901|ref|ZP_06963582.1| type I site-specific deoxyribonuclease chain S [Streptococcus
           pneumoniae str. Canada MDR_19F]
          Length = 191

 Score = 49.4 bits (116), Expect = 0.001,   Method: Composition-based stats.
 Identities = 13/119 (10%), Positives = 36/119 (30%), Gaps = 7/119 (5%)

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA----VKPHGIDSTYLAWL 336
                +   +++                     G++   ++      +   I S +L + 
Sbjct: 71  SEQVYLKHNQLITPVATSLEHIGKFARIDKDYDGVVAGGFIFQLTPFESSEIISKFLLFN 130

Query: 337 MRSYDLCKVFY---AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
           + S    K       +      ++    +  L + + P +EQ  IT  +     +++ L
Sbjct: 131 LSSPLFYKQLKAITKLSGQALYNIPKTTLSELLIPLAPFEEQELITQKVEKLFEKVNQL 189



 Score = 44.8 bits (104), Expect = 0.024,   Method: Composition-based stats.
 Identities = 36/184 (19%), Positives = 74/184 (40%), Gaps = 17/184 (9%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           G IP +W V+ IK    +NTG + +        K +  I   +++      L  D     
Sbjct: 7   GNIPMNWVVIKIKDIFSMNTGLSYKKGDLSINNKGVRIIRGGNIKPLEFSLLDNDYYIDT 66

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIA-----DFDGICSTQFLV----LQPKDVLPEL 123
              S+  ++ K   L   +   L           D+DG+ +  F+      +  +++ + 
Sbjct: 67  QFISSEQVYLKHNQLITPVATSLEHIGKFARIDKDYDGVVAGGFIFQLTPFESSEIISKF 126

Query: 124 LQGWLLSIDVTQRIEAICE--GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
           L   L S    ++++AI +  G  + +     +  + +P+ P  EQ LI +K+     ++
Sbjct: 127 LLFNLSSPLFYKQLKAITKLSGQALYNIPKTTLSELLIPLAPFEEQELITQKVEKLFEKV 186

Query: 182 DTLI 185
           + L 
Sbjct: 187 NQLW 190


>gi|260171382|ref|ZP_05757794.1| hypothetical protein BacD2_05910 [Bacteroides sp. D2]
 gi|315919695|ref|ZP_07915935.1| conserved hypothetical protein [Bacteroides sp. D2]
 gi|313693570|gb|EFS30405.1| conserved hypothetical protein [Bacteroides sp. D2]
          Length = 139

 Score = 49.4 bits (116), Expect = 0.001,   Method: Composition-based stats.
 Identities = 14/91 (15%), Positives = 31/91 (34%), Gaps = 3/91 (3%)

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLK 358
                   S    +  +I +          +  YL + +  ++       M       + 
Sbjct: 29  DGSGVGTVSYAQGKFSVIGTLNYLTVIGNNNLRYLYFALSVFNFQPYKTGMA---IPHIY 85

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARI 389
           F+D  +  +  PPI EQ  + NV++    ++
Sbjct: 86  FKDYGKAKIYFPPITEQKRVANVLDKLENKL 116


>gi|15646014|ref|NP_208195.1| type I restriction enzyme S protein (hsdS) [Helicobacter pylori
           26695]
 gi|2314577|gb|AAD08447.1| type I restriction enzyme S protein (hsdS) [Helicobacter pylori
           26695]
          Length = 96

 Score = 49.4 bits (116), Expect = 0.001,   Method: Composition-based stats.
 Identities = 17/86 (19%), Positives = 29/86 (33%), Gaps = 7/86 (8%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDV----ESGTGKYLPKD---GNSRQSD 74
           P +W+ V +    ++  G T  +     + G  +     E G  KY+ K           
Sbjct: 11  PLNWQKVRLGDIAEIIGGGTPSTQITSFWSGSINWFTPTEIGITKYVYKSQRTITPLGLK 70

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAII 100
            S+  +   G IL          AI+
Sbjct: 71  KSSTKLLPIGTILLTSRASIGDCAIL 96


>gi|293401668|ref|ZP_06645810.1| type I restriction-modification system specificity determinant
           [Erysipelotrichaceae bacterium 5_2_54FAA]
 gi|291304926|gb|EFE46173.1| type I restriction-modification system specificity determinant
           [Erysipelotrichaceae bacterium 5_2_54FAA]
          Length = 167

 Score = 49.4 bits (116), Expect = 0.001,   Method: Composition-based stats.
 Identities = 25/172 (14%), Positives = 51/172 (29%), Gaps = 8/172 (4%)

Query: 233 EVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIV 292
                  + +    K      +    +S  N++   E         S    Q  +   ++
Sbjct: 1   MKCKLSDICSFHKEKIDVAKLTVNSYVSTENMLPNKEGITKASSLPSVSLTQSFEKDNVL 60

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
              I     K           G      +      ID  +L +++   +      A   G
Sbjct: 61  LSNIRPYFKKIWKAKFSG---GCSNDVLVFKAKEDIDKDFLYYVLSDDNFFAYAMATSKG 117

Query: 353 L-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
                     + +  V +  I +Q  I++V++V    ID ++E  +Q    L
Sbjct: 118 TKMPRGDKASIMQYDVPIYDIDKQKKISSVLSV----IDDMIELNKQINNNL 165



 Score = 44.4 bits (103), Expect = 0.035,   Method: Composition-based stats.
 Identities = 31/159 (19%), Positives = 58/159 (36%), Gaps = 9/159 (5%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI---FAKG 84
             +      +  +      D+  + +    S       K+G ++ S   +VS+   F K 
Sbjct: 3   CKLSDICSFHKEKI-----DVAKLTVNSYVSTENMLPNKEGITKASSLPSVSLTQSFEKD 57

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL-LSIDVTQRIEAICEG 143
            +L   + PY +K   A F G CS   LV + K+ + +    ++    +      A  +G
Sbjct: 58  NVLLSNIRPYFKKIWKAKFSGGCSNDVLVFKAKEDIDKDFLYYVLSDDNFFAYAMATSKG 117

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
             M   D   I    +PI  + +Q  I   +      I+
Sbjct: 118 TKMPRGDKASIMQYDVPIYDIDKQKKISSVLSVIDDMIE 156


>gi|148656809|ref|YP_001277014.1| hypothetical protein RoseRS_2690 [Roseiflexus sp. RS-1]
 gi|148568919|gb|ABQ91064.1| hypothetical protein RoseRS_2690 [Roseiflexus sp. RS-1]
          Length = 649

 Score = 49.4 bits (116), Expect = 0.001,   Method: Composition-based stats.
 Identities = 27/168 (16%), Positives = 58/168 (34%), Gaps = 10/168 (5%)

Query: 224 WVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK--PESYE 281
            +G +P  W V     +      +  +L    I  +    I +     +      P    
Sbjct: 40  ELGPLPKEWRVVRLGEVAIVGPPRIPRLSRDAIPFIPMALIPEGGHEVSQYELRAPSDVR 99

Query: 282 TYQIVDPGEIVFRFIDLQ--NDKRSLRSAQVMERGIITSAYMAVKPHGIDS-TYLAWLMR 338
           +  +V  G+++   I     N K+ +        G  T+    ++ +      +L + + 
Sbjct: 100 SGVVVLEGDLLLAKITPCLENGKQGIVKRIPNGWGYATTEVFPIRTNEQLKIEFLNYYLL 159

Query: 339 SYDLCKVFYAM--GSGLRQSLKFEDVKRLPVLVPPIK---EQFDITNV 381
              + +   +   G+  RQ L    V  LP+ +PP++    +  I N 
Sbjct: 160 QRSVREALASKMEGTTGRQRLPKAVVIALPIPLPPLERGGIRRQIVNR 207



 Score = 49.4 bits (116), Expect = 0.001,   Method: Composition-based stats.
 Identities = 22/118 (18%), Positives = 45/118 (38%), Gaps = 8/118 (6%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGKD-IIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           +G +PK W+VV +     +   R     +D I +I +  +  G  +    +  +     S
Sbjct: 41  LGPLPKEWRVVRLGEVAIVGPPRIPRLSRDAIPFIPMALIPEGGHEVSQYELRAPSDVRS 100

Query: 77  TVSIFAKGQILYGKLGPYLRKAI------IADFDGICSTQFLVLQPKDVLPELLQGWL 128
            V +  +G +L  K+ P L          I +  G  +T+   ++  + L      + 
Sbjct: 101 GV-VVLEGDLLLAKITPCLENGKQGIVKRIPNGWGYATTEVFPIRTNEQLKIEFLNYY 157


>gi|328545368|ref|YP_004305477.1| hypothetical protein SL003B_3752 [polymorphum gilvum SL003B-26A1]
 gi|326415110|gb|ADZ72173.1| hypothetical protein SL003B_3752 [Polymorphum gilvum SL003B-26A1]
          Length = 196

 Score = 49.4 bits (116), Expect = 0.001,   Method: Composition-based stats.
 Identities = 25/138 (18%), Positives = 43/138 (31%), Gaps = 13/138 (9%)

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL-RSAQVMERGIITSAYMAVKPHGID 329
                  +       V  GE+VFR     N   ++  S       I+    +      + 
Sbjct: 45  DFQRYDLDKLSDRYFVRGGEVVFRSRGEPNAAVAIPASLPEPVVVIVPLVIVRPDRDRVL 104

Query: 330 STYLAWLMRSYDLCKVFYAMGSGLRQS-LKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
             Y+AW +   D  +   A   G     +    ++ L + VP +  Q  I          
Sbjct: 105 PEYVAWAINQPDAQRRLGAEAQGTSLRMIPMAVLENLEIAVPDLPTQKRIVE-------- 156

Query: 389 IDVLVEKIEQSIVLLKER 406
           +D L     Q   LL++ 
Sbjct: 157 LDAL---ARQEGQLLRQL 171


>gi|149002424|ref|ZP_01827358.1| restriction modification system DNA specificity domain
           [Streptococcus pneumoniae SP14-BS69]
 gi|147759361|gb|EDK66353.1| restriction modification system DNA specificity domain
           [Streptococcus pneumoniae SP14-BS69]
          Length = 181

 Score = 49.4 bits (116), Expect = 0.001,   Method: Composition-based stats.
 Identities = 31/188 (16%), Positives = 61/188 (32%), Gaps = 17/188 (9%)

Query: 26  KVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           K V +    ++ +G   +S +       +  I + DVE G            +       
Sbjct: 2   KKVKLGEVCEILSGYAFKSSQFNDNKIGLPLIRIRDVERGFSD------TYFEGTYPEEY 55

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           +   G +L    G ++ K        + + +   ++  D   +      L     + IE 
Sbjct: 56  LIKNGDLLITMDGSFILK-KWEGDLALLNQRVCKIKITDKSVDEGYISWLIPKFLKEIED 114

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
                T+ H     I +I   +P   EQ LI +K+      I  +   R    E   E  
Sbjct: 115 KTPFVTVKHLSVAKIKDISFVLPNKLEQKLIAKKLN----TISQIYDFRKIQSEKFNELV 170

Query: 200 QALVSYIV 207
           ++  + + 
Sbjct: 171 KSRFNEMF 178



 Score = 44.4 bits (103), Expect = 0.039,   Method: Composition-based stats.
 Identities = 16/137 (11%), Positives = 38/137 (27%), Gaps = 6/137 (4%)

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
            +      +Y    ++  G+++            +      +  ++      +K      
Sbjct: 42  FSDTYFEGTYPEEYLIKNGDLLITMDGS-----FILKKWEGDLALLNQRVCKIKITDKSV 96

Query: 331 TYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
                        K           + L    +K +  ++P   EQ  I   +N  +   
Sbjct: 97  DEGYISWLIPKFLKEIEDKTPFVTVKHLSVAKIKDISFVLPNKLEQKLIAKKLNTISQIY 156

Query: 390 DVLVEKIEQSIVLLKER 406
           D    + E+   L+K R
Sbjct: 157 DFRKIQSEKFNELVKSR 173


>gi|306833560|ref|ZP_07466687.1| type I restriction-modification system specificty subunit
           [Streptococcus bovis ATCC 700338]
 gi|304424330|gb|EFM27469.1| type I restriction-modification system specificty subunit
           [Streptococcus bovis ATCC 700338]
          Length = 198

 Score = 49.4 bits (116), Expect = 0.001,   Method: Composition-based stats.
 Identities = 28/151 (18%), Positives = 58/151 (38%), Gaps = 6/151 (3%)

Query: 28  VPIKRFTKLNTGRTSES---GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           +P+K  T+   G+       G +I  I L D++     Y+          + +  +  +G
Sbjct: 16  IPLKEITEHFKGKAVSKLGDGGNISVINLSDMDDTGIDYVHLKKIDCDEKSVSRYLLQEG 75

Query: 85  QILYGKLGPYLRKAII--ADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV-TQRIEAIC 141
            +L    G   + A+    D   I S    VL+P   +        L+ D+    ++   
Sbjct: 76  DVLIASKGTVKKIAVFAEQDEPVIASANITVLRPTSDISGGYIRLFLASDLGQALLDETN 135

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIRE 172
            G  + + + + I +I +P  P+  Q  + +
Sbjct: 136 TGKNVMNLNTQKIISIEIPKIPVIRQAYLIQ 166


>gi|254779182|ref|YP_003057287.1| Type I R-M system specificity subunit [Helicobacter pylori B38]
 gi|254001093|emb|CAX29046.1| Type I R-M system specificity subunit [Helicobacter pylori B38]
          Length = 205

 Score = 49.4 bits (116), Expect = 0.001,   Method: Composition-based stats.
 Identities = 24/189 (12%), Positives = 61/189 (32%), Gaps = 11/189 (5%)

Query: 229 PDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDP 288
           P   E +    ++         +            ++   +T  +G   E    YQ    
Sbjct: 13  PKGVEFRKLGEVLEYDQPNKYCVTSKEFDKSYPTPVLTAGKTFILGYTNEKDNIYQASKN 72

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG-IDSTYLAWLMRSYDLCKVFY 347
             ++       +   + +      +   ++  +    +  I+  ++ + M++      F 
Sbjct: 73  APVII----FDDFITATQWVDFPFKVKSSAMKILFSKNPTINIRFIFFYMQTIHANYSFN 128

Query: 348 AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE-- 405
             G   RQ +      +L V +PP++ Q +I  +++  +     L+  I   I   K+  
Sbjct: 129 IGGEHARQWISR--YSQLEVPIPPLEIQQEIVKILDQFSLLTTDLLAGIPAEIKARKKQY 186

Query: 406 --RRSSFIA 412
              R   + 
Sbjct: 187 EYYREKLLT 195


>gi|258513093|ref|YP_003189349.1| type I DNA specificity S subunit [Acetobacter pasteurianus IFO
           3283-01]
 gi|256634996|dbj|BAI00970.1| type I DNA specificity S subunit [Acetobacter pasteurianus IFO
           3283-01]
 gi|256638051|dbj|BAI04018.1| type I DNA specificity S subunit [Acetobacter pasteurianus IFO
           3283-03]
 gi|256641105|dbj|BAI07065.1| type I DNA specificity S subunit [Acetobacter pasteurianus IFO
           3283-07]
 gi|256644160|dbj|BAI10113.1| type I DNA specificity S subunit [Acetobacter pasteurianus IFO
           3283-22]
 gi|256647215|dbj|BAI13161.1| type I DNA specificity S subunit [Acetobacter pasteurianus IFO
           3283-26]
 gi|256650268|dbj|BAI16207.1| type I DNA specificity S subunit [Acetobacter pasteurianus IFO
           3283-32]
 gi|256653259|dbj|BAI19191.1| type I DNA specificity S subunit [Acetobacter pasteurianus IFO
           3283-01-42C]
 gi|256656312|dbj|BAI22237.1| type I DNA specificity S subunit [Acetobacter pasteurianus IFO
           3283-12]
          Length = 114

 Score = 49.4 bits (116), Expect = 0.001,   Method: Composition-based stats.
 Identities = 14/97 (14%), Positives = 34/97 (35%), Gaps = 6/97 (6%)

Query: 330 STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
           S     ++ S     +        +Q+L    ++    L+P       I      +T+ +
Sbjct: 18  SYIFLHMLHSK--VNLANKATGSAQQNLSKNLIETFETLIPN----DKILYEFENKTSLL 71

Query: 390 DVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
              + K      +L + R   +   ++G+I +R   +
Sbjct: 72  FDKIIKNFDEPHILAQLRDLLLPKLMSGEISIRDAEK 108


>gi|319775884|ref|YP_004138372.1| HaeIV restriction/modification system [Haemophilus influenzae F3047]
 gi|317450475|emb|CBY86692.1| HaeIV restriction/modification system [Haemophilus influenzae F3047]
          Length = 1062

 Score = 49.4 bits (116), Expect = 0.001,   Method: Composition-based stats.
 Identities = 20/130 (15%), Positives = 39/130 (30%), Gaps = 8/130 (6%)

Query: 294  RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL 353
              I +     +          I  S    V+      T   +         +F       
Sbjct: 940  NTITISASGANAGFVNFWTEKIFASDCTTVRADNYVGTKFIFTYLQSIQENIFDLARGAA 999

Query: 354  RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            +  +  +D+KRLP+   P+  Q  +      E  +ID    +    I   + + +     
Sbjct: 1000 QPHVYPDDIKRLPIPKVPLDIQQKVVE----ECQKIDDEFNRTRMQIEEYRAKFAKIFNE 1055

Query: 414  AVTGQIDLRG 423
                +I +RG
Sbjct: 1056 L---EI-VRG 1061


>gi|241895012|ref|ZP_04782308.1| restriction modification system DNA specificity domain protein
           [Weissella paramesenteroides ATCC 33313]
 gi|241871730|gb|EER75481.1| restriction modification system DNA specificity domain protein
           [Weissella paramesenteroides ATCC 33313]
          Length = 158

 Score = 49.4 bits (116), Expect = 0.001,   Method: Composition-based stats.
 Identities = 18/151 (11%), Positives = 42/151 (27%), Gaps = 9/151 (5%)

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
              +  +   N +  ++     +   +      V  G++V             +    ++
Sbjct: 1   MPFVQVVDVTNKLTLVDDTKQKISKLAQSKSVFVPKGKVVITLQGSIGRVAITQYDSYVD 60

Query: 313 RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPI 372
           R +     +        + Y                   G  +++  E +    V +P  
Sbjct: 61  RTL----LIFENYVKPTNEYFWAYTLQQKFEIEKRRAPGGTIKTITKEALSIFEVHLPEY 116

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLL 403
           KEQ  I          +D L+   ++ I  L
Sbjct: 117 KEQVKIG----TLFQYLDTLITVNQR-ISKL 142



 Score = 37.1 bits (84), Expect = 6.2,   Method: Composition-based stats.
 Identities = 18/133 (13%), Positives = 36/133 (27%), Gaps = 1/133 (0%)

Query: 49  IYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICS 108
            ++ + DV +             +   S      KG+++    G   R   I  +D    
Sbjct: 2   PFVQVVDVTNKLTLVDDTKQKISKLAQSKSVFVPKGKVVITLQGSIGR-VAITQYDSYVD 60

Query: 109 TQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQV 168
              L+ +                   +  +    G T+     + +    + +P   EQV
Sbjct: 61  RTLLIFENYVKPTNEYFWAYTLQQKFEIEKRRAPGGTIKTITKEALSIFEVHLPEYKEQV 120

Query: 169 LIREKIIAETVRI 181
            I          I
Sbjct: 121 KIGTLFQYLDTLI 133


>gi|282850455|ref|ZP_06259834.1| type I restriction modification DNA specificity domain protein
           [Veillonella parvula ATCC 17745]
 gi|282579948|gb|EFB85352.1| type I restriction modification DNA specificity domain protein
           [Veillonella parvula ATCC 17745]
          Length = 179

 Score = 49.4 bits (116), Expect = 0.001,   Method: Composition-based stats.
 Identities = 18/150 (12%), Positives = 47/150 (31%), Gaps = 11/150 (7%)

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA--QVME 312
           N   + +   I     +      +       V  G++ F       D+    +   + ME
Sbjct: 34  NFTDVFHNRQIYSSTLKGKVCVNKKELENYKVKEGDLFFTRTSETIDEIGFPAVVMEPME 93

Query: 313 RGIITSAYMAVKPHGIDS---TYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVL 368
           R + +   +  +    D     + +++  + +         S   R       +K +   
Sbjct: 94  RVVFSGFVLRGRAEKYDPLANIFKSYIFFTDNFRSEMKKKSSMTTRALTSGTALKEMCFS 153

Query: 369 VP-PIKEQFDITNVINVETARIDVLVEKIE 397
            P  ++EQ  I  ++      +D ++   +
Sbjct: 154 YPKDLEEQTKIGEILLS----LDKIITLHQ 179



 Score = 37.9 bits (86), Expect = 3.5,   Method: Composition-based stats.
 Identities = 20/173 (11%), Positives = 42/173 (24%), Gaps = 15/173 (8%)

Query: 24  HWKVVPIKRFTKLNTGRTSES---GKDIIYIGLEDVESGTGKYLP--KDGNSRQSDTSTV 78
            W+   +  F     G   E    G     +   DV      Y    K            
Sbjct: 3   SWEQRKLGDFYTFKNGLNKEKVYFGYGDSIVNFTDVFHNRQIYSSTLKGKVCVNKKELEN 62

Query: 79  SIFAKGQILYGKLGPYLRKAII------ADFDGICSTQFLVLQPKDVL---PELLQGWLL 129
               +G + + +    + +              + S   L  + +               
Sbjct: 63  YKVKEGDLFFTRTSETIDEIGFPAVVMEPMERVVFSGFVLRGRAEKYDPLANIFKSYIFF 122

Query: 130 SIDVTQRIEAICEGATMSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRI 181
           + +    ++      T +      +  +    P  L EQ  I E +++    I
Sbjct: 123 TDNFRSEMKKKSSMTTRALTSGTALKEMCFSYPKDLEEQTKIGEILLSLDKII 175


>gi|311033108|ref|ZP_07711198.1| type I restriction enzyme, specificity subunit [Bacillus sp. m3-13]
          Length = 192

 Score = 49.4 bits (116), Expect = 0.001,   Method: Composition-based stats.
 Identities = 28/170 (16%), Positives = 54/170 (31%), Gaps = 16/170 (9%)

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI---VDPGEIVFRFIDLQNDKRSL 305
            +     I      +         + ++ ES   YQ    ++ G++V            +
Sbjct: 23  KQFGTQVINYYDQPSFEADYNHEGVEVEGESNSIYQHNLSLNEGDVVIS--SSLQLATMV 80

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD---LCKVFYAMGSGLRQSLKFEDV 362
               V +   +    +      +D  Y  +L  +Y      K     GSG    +    +
Sbjct: 81  GKNNVGKVLSLNFTKIEFDCEQLDKRYFLYLFNAYKDVKRQKERELQGSGPVLRIPLRAL 140

Query: 363 KRLPVLVPPIKEQFDITNV------INVETARIDVLVEKIEQSI--VLLK 404
             +   V PI+EQ  I ++      +  +  +   L+E    SI    LK
Sbjct: 141 GEIIFPVAPIEEQKKIGDIYVETLKLQNKLNKYADLIEVFTSSIIEENLK 190


>gi|261837979|gb|ACX97745.1| specificity subunit S of type I restriction-modification system
           [Helicobacter pylori 51]
          Length = 204

 Score = 49.0 bits (115), Expect = 0.001,   Method: Composition-based stats.
 Identities = 19/188 (10%), Positives = 57/188 (30%), Gaps = 13/188 (6%)

Query: 229 PDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDP 288
           P   E +    ++         +            ++   +T  +G   E    YQ    
Sbjct: 13  PKGVEFRKLGEVLEYDQPNKYCVTSKEFDKSYPTPVLTAGKTFILGYTNEKDNIYQASKS 72

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA 348
             ++       +   + +      +   ++  + +  +   +    +         +   
Sbjct: 73  SPVII----FDDFTTATQWVDFPFKVKSSAMKILLPKNPTINIRFIFFYMQTIPYNI--- 125

Query: 349 MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE--- 405
            G   RQ +      ++ + +PP++ Q +I  +++  +     L+  I   I   K+   
Sbjct: 126 SGEHTRQWISR--YSKITIPIPPLEIQQEIVKILDQFSILTTDLLAGIPAEIEARKKQYE 183

Query: 406 -RRSSFIA 412
             R   ++
Sbjct: 184 YYREKLLS 191


>gi|259500491|ref|ZP_05743393.1| type I restriction-modification system specificity protein
           [Lactobacillus iners DSM 13335]
 gi|259168106|gb|EEW52601.1| type I restriction-modification system specificity protein
           [Lactobacillus iners DSM 13335]
          Length = 215

 Score = 49.0 bits (115), Expect = 0.001,   Method: Composition-based stats.
 Identities = 36/192 (18%), Positives = 72/192 (37%), Gaps = 7/192 (3%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKD--IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
             WK   +K   KL   ++ ++G++  + Y+ ++ +   T  +   D        S++  
Sbjct: 23  SDWKKGKLKDILKLKR-QSIKTGENTTLPYLPIDVIPMRT--FALTDFKPNAEAQSSLIT 79

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
           F K  I+ G +  Y  + ++A  DGI  T    L P     E L   LL  D    I+  
Sbjct: 80  FDKDDIIIGAMRVYFHRVVLAPCDGITRTTCFTLAP--YNNEYLSFALLCCDQESSIDYA 137

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
              +  S   +         +  +     I +K     + +   I         L+E + 
Sbjct: 138 QSTSKGSTMPYAIWEGGLGDMEIIIPTPEIAKKFNEIVLPMLRQIQNSYFENNRLREIRN 197

Query: 201 ALVSYIVTKGLN 212
           AL+  +++  ++
Sbjct: 198 ALLPRLMSDEVD 209



 Score = 46.3 bits (108), Expect = 0.009,   Method: Composition-based stats.
 Identities = 14/153 (9%), Positives = 50/153 (32%), Gaps = 7/153 (4%)

Query: 270 TRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID 329
             +     E+  +    D  +I+   + +   +  L     + R    +  +A   +   
Sbjct: 64  LTDFKPNAEAQSSLITFDKDDIIIGAMRVYFHRVVLAPCDGITRTTCFT--LAPYNNEYL 121

Query: 330 STYLAWLMRSYDLCKVFYAMGSGLRQ-SLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
           S  L    +   +              ++    +  + +++P  +       ++     +
Sbjct: 122 SFALLCCDQESSIDYAQSTSKGSTMPYAIWEGGLGDMEIIIPTPEIAKKFNEIVLPMLRQ 181

Query: 389 IDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           I     +  +    L+E R++ +   ++ ++D+
Sbjct: 182 IQNSYFENNR----LREIRNALLPRLMSDEVDV 210


>gi|168575545|ref|ZP_02721481.1| type I restriction enzyme EcoBI specificity protein (S
           protein)(S.EcoBI) [Streptococcus pneumoniae MLV-016]
 gi|298229448|ref|ZP_06963129.1| type I restriction-modification system subunit S [Streptococcus
           pneumoniae str. Canada MDR_19F]
 gi|307067539|ref|YP_003876505.1| restriction endonuclease S subunit [Streptococcus pneumoniae AP200]
 gi|183578543|gb|EDT99071.1| type I restriction enzyme EcoBI specificity protein (S
           protein)(S.EcoBI) [Streptococcus pneumoniae MLV-016]
 gi|306409076|gb|ADM84503.1| Restriction endonuclease S subunit [Streptococcus pneumoniae AP200]
          Length = 180

 Score = 49.0 bits (115), Expect = 0.001,   Method: Composition-based stats.
 Identities = 27/158 (17%), Positives = 52/158 (32%), Gaps = 13/158 (8%)

Query: 26  KVVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           K V +    ++ +G   +S +       +  I + DVE G            +       
Sbjct: 2   KKVKLGEVCEILSGYAFKSSQFNDNKIGLPLIRIRDVERGFSD------TYFEGTYPEEY 55

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           +   G +L    G ++ K        + + +   ++  D   +      L     + IE 
Sbjct: 56  LIKNGDLLITMDGSFILK-KWEGDLALLNQRVCKIKITDKSVDEGYISWLIPKFLKEIED 114

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
                T+ H     I +I   +P   EQ LI +K+   
Sbjct: 115 KTPFVTVKHLSVAKIKDISFVLPNKLEQKLIAKKLNTI 152



 Score = 44.8 bits (104), Expect = 0.030,   Method: Composition-based stats.
 Identities = 16/137 (11%), Positives = 38/137 (27%), Gaps = 6/137 (4%)

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
            +      +Y    ++  G+++            +      +  ++      +K      
Sbjct: 42  FSDTYFEGTYPEEYLIKNGDLLITMDGS-----FILKKWEGDLALLNQRVCKIKITDKSV 96

Query: 331 TYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
                        K           + L    +K +  ++P   EQ  I   +N  +   
Sbjct: 97  DEGYISWLIPKFLKEIEDKTPFVTVKHLSVAKIKDISFVLPNKLEQKLIAKKLNTISQIY 156

Query: 390 DVLVEKIEQSIVLLKER 406
           D    + E+   L+K R
Sbjct: 157 DFRKIQSEKFNELVKSR 173


>gi|328947972|ref|YP_004365309.1| restriction modification system DNA specificity domain protein
           [Treponema succinifaciens DSM 2489]
 gi|328448296|gb|AEB14012.1| restriction modification system DNA specificity domain protein
           [Treponema succinifaciens DSM 2489]
          Length = 337

 Score = 49.0 bits (115), Expect = 0.001,   Method: Composition-based stats.
 Identities = 46/385 (11%), Positives = 97/385 (25%), Gaps = 59/385 (15%)

Query: 42  SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ----------ILYGKL 91
               + +  +    ++     YL              S+               I++   
Sbjct: 2   KSYNEILSDVTKTAIKIPQSDYLDAGKYRIFDQGKEYSVGFSNDEQGVVTDYPYIIF--- 58

Query: 92  GPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADW 151
           G + R     D          V   K +  +    ++    + + IE+            
Sbjct: 59  GDHTRVVKYVDEPCYIGAD-GVKLLKVINKDFDPRYVYYNILAKPIESQGYARHFKFLK- 116

Query: 152 KGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGL 211
                I       +EQ  I  ++      ID    +     E       A+ S  V    
Sbjct: 117 ----EIQFTEKSFSEQQKIAAELDKIQSAIDNKKQQLSLLDE-------AVKSEFVEMFG 165

Query: 212 NPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETR 271
           NP    K+   + V  V              +   K      + IL              
Sbjct: 166 NPIYNSKNFPTKKVIDVVTMQRGYDLPVQDRDSKGKIPVFGSNGIL-------------- 211

Query: 272 NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST 331
                      + +    + +         +  +          + +   +   HG +  
Sbjct: 212 ---------GNHNLAKMDKGIITGRSGTIGEVYMCETPFWP---LNTTLFSNDTHGNNIC 259

Query: 332 YLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
           YL +L+  +DL +           +L   +     ++  P+  Q      +     +ID 
Sbjct: 260 YLKFLLEFFDLKRF---KSGVGVPTLNRNEFHDEQIIDVPLDLQNQFAAFV----QKIDK 312

Query: 392 LVEKIEQSIVLLKERRSSFIAAAVT 416
               ++Q I  L+E   S +    +
Sbjct: 313 SKFVVKQQITDLQELLDSKMQEYFS 337


>gi|293363454|ref|ZP_06610211.1| conserved hypothetical protein [Mycoplasma alligatoris A21JP2]
 gi|292552974|gb|EFF41727.1| conserved hypothetical protein [Mycoplasma alligatoris A21JP2]
          Length = 102

 Score = 49.0 bits (115), Expect = 0.001,   Method: Composition-based stats.
 Identities = 16/90 (17%), Positives = 43/90 (47%), Gaps = 5/90 (5%)

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
            I+  YL + ++++   K+F      + + L+ E++K   + +P ++ Q  I  +++   
Sbjct: 9   FINKKYLYYYLKNFQ-DKLFSLANDAIPKHLELEELKNFTINLPSLQIQNKIVEILDDFE 67

Query: 387 ARIDVLVEKIEQSIVLLKE----RRSSFIA 412
             I+ + E +   I L ++     R+  ++
Sbjct: 68  KYINDISEGLPLEIELRQKQYEYYRNKLLS 97


>gi|298384312|ref|ZP_06993872.1| type I restriction-modification system specificity determinant
           [Bacteroides sp. 1_1_14]
 gi|298262591|gb|EFI05455.1| type I restriction-modification system specificity determinant
           [Bacteroides sp. 1_1_14]
          Length = 183

 Score = 49.0 bits (115), Expect = 0.001,   Method: Composition-based stats.
 Identities = 22/183 (12%), Positives = 57/183 (31%), Gaps = 14/183 (7%)

Query: 228 VPDHWEVKPFFALVTELNRKNTKLIESNILS--LSYGNIIQKLETRNMGLKPESYETYQI 285
           +PD W       L   +N       E  +    +   N  +  +     ++    E    
Sbjct: 1   MPDGWCAVALKDLCENINGLWKGKKEPFVNVGVIRNANFTKDFKLDYSNIEYIDVEQRTF 60

Query: 286 ----VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA------YMAVKPHGIDSTYLAW 335
               ++ G+++       ++    R+     +  + S               + S YL +
Sbjct: 61  AKRHLENGDLIVEKSGGSDNNPVGRTILYEGKSGVFSFSNFTMVLRIRYNDTVLSKYLYY 120

Query: 336 LMRSYDLC--KVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
            + +             +    +L       + + +PP+ EQ  I + I      +++++
Sbjct: 121 CILAKYQTGAMRLMQTQTTGLHNLILNKFLLMSICLPPLYEQRRIIDQIETFFTTLNLIM 180

Query: 394 EKI 396
           E +
Sbjct: 181 ESL 183



 Score = 45.9 bits (107), Expect = 0.011,   Method: Composition-based stats.
 Identities = 24/178 (13%), Positives = 52/178 (29%), Gaps = 19/178 (10%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTG------KYLPKDGNSRQSDT 75
           P  W  V +K   +   G     GK   ++ +  + +          Y   +    +  T
Sbjct: 2   PDGWCAVALKDLCENINGL--WKGKKEPFVNVGVIRNANFTKDFKLDYSNIEYIDVEQRT 59

Query: 76  STVSIFAKGQILYGKLG-----PYLRKAIIADFDGICSTQFLVLQPKDVLP----ELLQG 126
                   G ++  K G     P  R  +     G+ S     +  +             
Sbjct: 60  FAKRHLENGDLIVEKSGGSDNNPVGRTILYEGKSGVFSFSNFTMVLRIRYNDTVLSKYLY 119

Query: 127 WLLSIDVTQRIEAICEGAT--MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
           + +          + +  T  + +        + + +PPL EQ  I ++I      ++
Sbjct: 120 YCILAKYQTGAMRLMQTQTTGLHNLILNKFLLMSICLPPLYEQRRIIDQIETFFTTLN 177


>gi|303242502|ref|ZP_07328982.1| conserved hypothetical protein [Acetivibrio cellulolyticus CD2]
 gi|302589970|gb|EFL59738.1| conserved hypothetical protein [Acetivibrio cellulolyticus CD2]
          Length = 216

 Score = 49.0 bits (115), Expect = 0.001,   Method: Composition-based stats.
 Identities = 25/154 (16%), Positives = 53/154 (34%), Gaps = 10/154 (6%)

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS--AYMAVK 324
            +   +     E  +   +   G+++ R   L     S+   +  E  +I S  A + + 
Sbjct: 64  NINELDCFESNEELDEKYLTQQGDVIVR---LSYPNTSIAINENNEGLLIPSLFAIIRLS 120

Query: 325 PHGIDSTYLAWLMRSYDLCKVF-YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
              +   YL+  + S  + + F  ++     Q +    +K + V  P I++Q  I     
Sbjct: 121 DVILLPDYLSIYLNSDLMKEFFGRSVIGSAIQIINNSLLKEIVVKFPKIEKQKKIIEFNK 180

Query: 384 VETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
                     E +   I    +   + I   +TG
Sbjct: 181 FMLRE----KELMTSLIDEKTKYNKAIIGKLITG 210



 Score = 39.4 bits (90), Expect = 1.2,   Method: Composition-based stats.
 Identities = 32/200 (16%), Positives = 67/200 (33%), Gaps = 17/200 (8%)

Query: 26  KVVPIKRFTKLNTGRTSESG---------KDIIYIGLEDVE-SGTGKYLPKDGNSRQSDT 75
           +   +    K+NTG   +           KD   + L+  E  G       D      + 
Sbjct: 18  ETKKLGDIAKINTGLVVKRKQAALRENVFKDYKMLTLKSFEQDGWLNINELDCFESNEEL 77

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICST---QFLVLQPKDVLPELLQGWLLSID 132
               +  +G ++     P    AI  + +G+        + L    +LP+ L  +L S  
Sbjct: 78  DEKYLTQQGDVIVRLSYPNTSIAINENNEGLLIPSLFAIIRLSDVILLPDYLSIYLNSDL 137

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           + +       G+ +   +   +  I +  P + +Q  I E        +          I
Sbjct: 138 MKEFFGRSVIGSAIQIINNSLLKEIVVKFPKIEKQKKIIEF----NKFMLREKELMTSLI 193

Query: 193 ELLKEKKQALVSYIVTKGLN 212
           +   +  +A++  ++T G N
Sbjct: 194 DEKTKYNKAIIGKLITGGSN 213


>gi|229195089|ref|ZP_04321864.1| Type I restriction-modification system, M subunit [Bacillus cereus
           m1293]
 gi|228588318|gb|EEK46361.1| Type I restriction-modification system, M subunit [Bacillus cereus
           m1293]
          Length = 616

 Score = 49.0 bits (115), Expect = 0.001,   Method: Composition-based stats.
 Identities = 26/154 (16%), Positives = 53/154 (34%), Gaps = 7/154 (4%)

Query: 26  KVVPIKRFTKLNTGRTSESGKD---IIYIGLEDVESGTGKYLPKDGNSRQS-DTSTVSIF 81
           K V +    +L  G   +S      I  I   D++ G       +  S         +  
Sbjct: 425 KTVELGEIAELTNGINIKSSDGQHAIQIIKASDIQGGKISVAELESVSVADLSVIQKAKV 484

Query: 82  AKGQILYGKLGPYLRKAIIADFDG--ICSTQFLVLQPKDVLPELLQGWLLSIDV-TQRIE 138
             G I+    G  ++ A++    G    S   ++++PK+ +        L       ++E
Sbjct: 485 QAGDIVLLSRGTSIKFAVVPKGIGNAYASMNLMIIRPKEGVDPYFIQTFLESPFGIWQME 544

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIRE 172
            I  G T+       + +I +P      Q+ + +
Sbjct: 545 QIQTGTTIQLIKLGDMKSIRVPSLTQEVQIQVGK 578


>gi|22537161|ref|NP_688012.1| hypothetical protein SAG1001 [Streptococcus agalactiae 2603V/R]
 gi|25011090|ref|NP_735485.1| hypothetical protein gbs1036 [Streptococcus agalactiae NEM316]
 gi|76787066|ref|YP_329717.1| hypothetical protein SAK_1096 [Streptococcus agalactiae A909]
 gi|77407222|ref|ZP_00784189.1| conserved hypothetical protein [Streptococcus agalactiae H36B]
 gi|77411992|ref|ZP_00788321.1| conserved hypothetical protein [Streptococcus agalactiae CJB111]
 gi|77414758|ref|ZP_00790884.1| conserved hypothetical protein [Streptococcus agalactiae 515]
 gi|22534024|gb|AAM99884.1|AE014237_18 conserved hypothetical protein [Streptococcus agalactiae 2603V/R]
 gi|23095489|emb|CAD46695.1| Unknown [Streptococcus agalactiae NEM316]
 gi|76562123|gb|ABA44707.1| conserved hypothetical protein [Streptococcus agalactiae A909]
 gi|77159188|gb|EAO70373.1| conserved hypothetical protein [Streptococcus agalactiae 515]
 gi|77161948|gb|EAO72930.1| conserved hypothetical protein [Streptococcus agalactiae CJB111]
 gi|77174170|gb|EAO77072.1| conserved hypothetical protein [Streptococcus agalactiae H36B]
          Length = 196

 Score = 49.0 bits (115), Expect = 0.001,   Method: Composition-based stats.
 Identities = 33/182 (18%), Positives = 61/182 (33%), Gaps = 10/182 (5%)

Query: 30  IKRFTKLNTGRTSESG---KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQI 86
           +        G+   S     DI  I L D+      Y        +  +    +  +G +
Sbjct: 16  LSELVDCFKGKAVPSKAEAGDIRIINLSDMSPLGIDYHNLRTFQDEQRSLLKYLLQEGDV 75

Query: 87  LYGKLGPYLRKAII--ADFDGICSTQFLVLQPKDVLPELLQG-WLLSIDVTQRIEAICEG 143
           L    G   + AI    D+  + S    +L+P   +       +  S +  Q +E   +G
Sbjct: 76  LIASKGTVKKVAIFEEQDYPVVASANITILRPTQHIRGYYLKLFFDSEEGQQALENANKG 135

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
             + +   K + NI +P  PL  Q    + +I    +       +I   E   E+ Q  +
Sbjct: 136 KAVMNISTKELLNIAIPSIPLFRQ----DYLIQRYKQGLNDYKRKIARAEQEWERIQNDI 191

Query: 204 SY 205
             
Sbjct: 192 RQ 193


>gi|329919956|ref|ZP_08276848.1| hypothetical protein HMPREF9210_0147 [Lactobacillus iners SPIN
           1401G]
 gi|328936805|gb|EGG33243.1| hypothetical protein HMPREF9210_0147 [Lactobacillus iners SPIN
           1401G]
          Length = 219

 Score = 49.0 bits (115), Expect = 0.001,   Method: Composition-based stats.
 Identities = 27/192 (14%), Positives = 55/192 (28%), Gaps = 9/192 (4%)

Query: 20  AIPKHWKVVPIKRFTKLN-TGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
            IP +W V  +     +     +     D              KY   +    +   S  
Sbjct: 20  KIPANWVVSKLGDIASIKTNSFSPVKNPDAQLEHYSIPAYDEQKYPVFESA--EGVKSNK 77

Query: 79  SIFAKGQILYGKLGPYLRKAI---IADFDGICSTQFLVLQ-PKDVLPELLQGWLLSIDVT 134
            I +K  ++  KL P  ++A          + ST+F++ +       + +   + S   +
Sbjct: 78  YILSKNSVMISKLNPDTKRAWRPMCLSDLAVSSTEFIIFEAFNPAYKDFVFSIIDSAAFS 137

Query: 135 QRIEAICEGAT--MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
             +     G+T               + +P           +      I   I E  +  
Sbjct: 138 DWMCTHTTGSTNSRQRTTPSATLEFQIALPDEKTITDFCAIVTPMYDTISANICENQKLA 197

Query: 193 ELLKEKKQALVS 204
           +L       L+S
Sbjct: 198 QLRDSILPKLMS 209



 Score = 46.3 bits (108), Expect = 0.009,   Method: Composition-based stats.
 Identities = 25/199 (12%), Positives = 66/199 (33%), Gaps = 8/199 (4%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIV 286
            +P +W V     + +      + +   +     Y       +   +    E  ++ + +
Sbjct: 20  KIPANWVVSKLGDIASIKTNSFSPVKNPDAQLEHYSIPAYDEQKYPVFESAEGVKSNKYI 79

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK-PHGIDSTYLAWLMRSYDLCKV 345
                V       + KR+ R   + +  + ++ ++  +  +     ++  ++ S      
Sbjct: 80  LSKNSVMISKLNPDTKRAWRPMCLSDLAVSSTEFIIFEAFNPAYKDFVFSIIDSAAFSDW 139

Query: 346 FYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
                +G    RQ           + +P   E   IT+   + T   D +   I      
Sbjct: 140 MCTHTTGSTNSRQRTTPSATLEFQIALP--DE-KTITDFCAIVTPMYDTISANIC-ENQK 195

Query: 403 LKERRSSFIAAAVTGQIDL 421
           L + R S +   ++G++D+
Sbjct: 196 LAQLRDSILPKLMSGELDV 214


>gi|253681482|ref|ZP_04862279.1| conserved hypothetical protein [Clostridium botulinum D str. 1873]
 gi|253561194|gb|EES90646.1| conserved hypothetical protein [Clostridium botulinum D str. 1873]
          Length = 193

 Score = 49.0 bits (115), Expect = 0.001,   Method: Composition-based stats.
 Identities = 22/136 (16%), Positives = 50/136 (36%), Gaps = 11/136 (8%)

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD---L 342
           ++ G++V    +       +    + +   I    + +    +D+ Y  ++   Y     
Sbjct: 63  LNEGDVVIN--NSLQLATMVGKNNIGKVLSINFTKVEINNKQLDNRYFLFMFNVYKDVKR 120

Query: 343 CKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN-VINVETARIDVLVEKIEQSIV 401
            K     G+G    +    +  + + V P++EQ  I    I         L  K+ +   
Sbjct: 121 QKERELQGTGPVLRIPLRSLGEITIPVVPLEEQKKIGKIYIETM-----KLQSKLNKYSD 175

Query: 402 LLKERRSSFIAAAVTG 417
           L+++  +S I  A+ G
Sbjct: 176 LIEQFTNSIIEEALKG 191


>gi|52079175|ref|YP_077966.1| Type I restriction modification system protein HsdIA [Bacillus
           licheniformis ATCC 14580]
 gi|52784542|ref|YP_090371.1| hypothetical protein BLi00743 [Bacillus licheniformis ATCC 14580]
 gi|52002386|gb|AAU22328.1| Type I Restriction Modification system protein HsdIA [Bacillus
           licheniformis ATCC 14580]
 gi|52347044|gb|AAU39678.1| putative protein [Bacillus licheniformis ATCC 14580]
          Length = 189

 Score = 49.0 bits (115), Expect = 0.001,   Method: Composition-based stats.
 Identities = 24/136 (17%), Positives = 52/136 (38%), Gaps = 11/136 (8%)

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI-DSTYLAWLM 337
           +++   + + G++VF F+     K  + S     + I  +    +  H   D +YL + +
Sbjct: 55  NHKESYLSNAGDVVFSFVSS---KAGIVSNLNRGKIINQNFAKLMIEHDELDRSYLCYAL 111

Query: 338 R-SYDLCKVF-YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
             SY + +    +M       L    +K L + +P I++Q  I         R    + K
Sbjct: 112 NESYAMKRQMAISMQGSAVPKLTPAILKELEIKLPSIEKQRIIGKAYFCLRKR--QALAK 169

Query: 396 IEQSIVL---LKERRS 408
            +  +     L+  + 
Sbjct: 170 KQAELEEKLFLEVLKQ 185


>gi|240112516|ref|ZP_04727006.1| Type I restriction enzyme EcoprrI specificity protein [Neisseria
           gonorrhoeae MS11]
          Length = 200

 Score = 49.0 bits (115), Expect = 0.001,   Method: Composition-based stats.
 Identities = 11/124 (8%), Positives = 42/124 (33%), Gaps = 6/124 (4%)

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP--HGIDSTYLAWLMRSYDLC 343
           V   +I      +   +  +      +     +   +       I   Y+ + +++ +  
Sbjct: 68  VPDKDIHREPSIIVKSRGIIEFEYYDKPFSHKNEMWSYHSVNKHIYIKYVYYFLKTQE-- 125

Query: 344 KVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
             F  +GS ++   +   D     + +P ++ Q  I  +++     ++  +   ++    
Sbjct: 126 NYFRNIGSKMQMPQIATPDTDNYKIPIPSLETQQKIVKILDK-FTELEAELALRKRQYRY 184

Query: 403 LKER 406
            ++ 
Sbjct: 185 YRDL 188


>gi|239502429|ref|ZP_04661739.1| putative restriction-modification protein [Acinetobacter baumannii
           AB900]
          Length = 778

 Score = 49.0 bits (115), Expect = 0.001,   Method: Composition-based stats.
 Identities = 39/239 (16%), Positives = 88/239 (36%), Gaps = 15/239 (6%)

Query: 174 IIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWE 233
           + +   +ID    + + F +L K       + +    +NP++   +  I       +   
Sbjct: 507 LDSFRRKIDENDLKNLDFADLNKSDFDKYYNELGFLKVNPELIRSNDYIYNYAHYSNSHI 566

Query: 234 VKPFF----ALVTELNRKNTKLIESNILSLSY---GNIIQKLETRNMGLKPESYETYQIV 286
              F       +  L+ K     ++NI  +S      +I + E     +       Y+ V
Sbjct: 567 KSKFPTIKLKELLSLSGKVKVGEDTNIPIMSITMEHGLIDQHEKFKKRVASSDISGYKKV 626

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY-MAVKPHGIDSTYLAWLMRSYDLCKV 345
              E+V        D+  L   +  +   ++ AY +      ++  YL  ++RS  L K+
Sbjct: 627 FKNELVM---GFPIDEGVLGFQKYYDAAAVSPAYKIFRLKREVNVEYLDLILRSNSLRKI 683

Query: 346 FYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
           + +   G    R+S+  E    + +  PP + +  I    +     I+  +++ ++ I 
Sbjct: 684 YKSKMQGSVERRRSIPDEMFLNIEIPNPPEEVKDQIVKQ-HKLIKEIENSLKENQKKIA 741


>gi|109947458|ref|YP_664686.1| hypothetical protein Hac_0910 [Helicobacter acinonychis str.
           Sheeba]
 gi|109714679|emb|CAJ99687.1| conserved hypothetical protein fragment 3 [Helicobacter acinonychis
           str. Sheeba]
          Length = 162

 Score = 49.0 bits (115), Expect = 0.001,   Method: Composition-based stats.
 Identities = 16/134 (11%), Positives = 42/134 (31%), Gaps = 6/134 (4%)

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
           E +   +  +      I+    ++ +       +   +           S+    K +  
Sbjct: 4   EQQKADINYKDISKKDIIHCESVIIKSRGNIGFEYYDQPFSHKNEIWSYSS----KTNQT 59

Query: 329 DSTYLAWLM--RSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
              +L + +    +   K+  +        L   D     + +PP++ Q +I  +++  +
Sbjct: 60  LVKFLYYYLSNNQHYFQKLVQSSSVKNPPQLSVSDTDEHEMPIPPLEIQQEIVKILDQFS 119

Query: 387 ARIDVLVEKIEQSI 400
           A    L   I   I
Sbjct: 120 ALTTDLQSGILAEI 133


>gi|302348051|ref|YP_003815689.1| Site specific DNA-methyltransferase [Acidilobus saccharovorans
           345-15]
 gi|302328463|gb|ADL18658.1| Site specific DNA-methyltransferase [Acidilobus saccharovorans
           345-15]
          Length = 471

 Score = 49.0 bits (115), Expect = 0.002,   Method: Composition-based stats.
 Identities = 19/148 (12%), Positives = 53/148 (35%), Gaps = 11/148 (7%)

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS--AYMAVK 324
           + + + +    +  +    V+  +IVF  + + +  R        + G+       + V 
Sbjct: 321 RRDEKFIEPGSDMDKRRGHVEVDDIVFVRVGVGSAGRCAVIVDESDLGVADDWIYIIKVD 380

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQF------- 376
              I   YLA  +++    +   ++  G+   ++   +++++ V VP +  Q        
Sbjct: 381 KRRILPHYLAMFLQTELGQRQLESLKRGVGTVTIPISELRKVKVPVPSMDFQEWVRSEYL 440

Query: 377 DITNVINVETA-RIDVLVEKIEQSIVLL 403
            +   +        + +   I+  I  L
Sbjct: 441 RMVKFLREGNKREAEKVFNVIKGKIEEL 468


>gi|302345832|ref|YP_003814185.1| type I restriction modification DNA specificity domain protein
           [Prevotella melaninogenica ATCC 25845]
 gi|302148949|gb|ADK95211.1| type I restriction modification DNA specificity domain protein
           [Prevotella melaninogenica ATCC 25845]
          Length = 187

 Score = 49.0 bits (115), Expect = 0.002,   Method: Composition-based stats.
 Identities = 23/176 (13%), Positives = 50/176 (28%), Gaps = 9/176 (5%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET 282
           EW                       N K     +      +I    +             
Sbjct: 3   EWKEYKISDVCKIRHGFAFKGAYFTNEKQPYICVTP-GNFDIKGGFKLSKPKYYHGPIPN 61

Query: 283 YQIVDPGEIVFRFIDLQNDK-----RSLRSAQVMERGIITSAYMAVKPHGID--STYLAW 335
             I++  +++    DL  D       ++         +       V+    +    +L W
Sbjct: 62  DYILNKDDLIVTMTDLSKDGDTLGYSAIIPQIRDITFLHNQRIGLVESIASNISKHFLYW 121

Query: 336 LMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
           +MR+ +  K      SG   +    + +       P  + Q +I +++N   A+I+
Sbjct: 122 VMRTPEYQKYIVNCCSGSTVKHTSPKLIGTYVFKAPDPETQEEIASLLNNLDAKIE 177



 Score = 47.1 bits (110), Expect = 0.006,   Method: Composition-based stats.
 Identities = 27/176 (15%), Positives = 52/176 (29%), Gaps = 16/176 (9%)

Query: 23  KHWKVVPIKRFTKLNTGRTSE----SGKDIIYIGLEDVESG-TGKYLPKDGNSRQSDTST 77
           + WK   I    K+  G   +    + +   YI +        G +              
Sbjct: 2   EEWKEYKISDVCKIRHGFAFKGAYFTNEKQPYICVTPGNFDIKGGFKLSKPKYYHGPIPN 61

Query: 78  VSIFAKGQILY-----GKLGPYLRKAI----IADFDGICSTQFLVLQPKDVLPELLQGWL 128
             I  K  ++       K G  L  +     I D   + + +  +++           + 
Sbjct: 62  DYILNKDDLIVTMTDLSKDGDTLGYSAIIPQIRDITFLHNQRIGLVESIASNISKHFLYW 121

Query: 129 LS--IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
           +    +  + I   C G+T+ H   K IG      P    Q  I   +     +I+
Sbjct: 122 VMRTPEYQKYIVNCCSGSTVKHTSPKLIGTYVFKAPDPETQEEIASLLNNLDAKIE 177


>gi|332655468|ref|ZP_08421205.1| type I restriction-modification system specificity subunit
           [Ruminococcaceae bacterium D16]
 gi|332515603|gb|EGJ45216.1| type I restriction-modification system specificity subunit
           [Ruminococcaceae bacterium D16]
          Length = 234

 Score = 49.0 bits (115), Expect = 0.002,   Method: Composition-based stats.
 Identities = 14/140 (10%), Positives = 36/140 (25%), Gaps = 13/140 (9%)

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
             E      ++  G++V            +    + +    +              Y   
Sbjct: 96  ISEGNHEKYVLSEGDVVVARTGATVGYAKMVGRNIPDSVFASFLVRIRPIDDEYRYYFGL 155

Query: 336 LMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVP---PIKEQF-DITNVINVETARID 390
            + S +          G  +       +    + +P    + E    I++ +        
Sbjct: 156 AITSSEFLDFVQTNAGGSAQPQANPPLLGEFELSIPNKQSLPEFNTKISSFLG------- 208

Query: 391 VLVEKIEQSIVLLKERRSSF 410
            ++E  E  I  L E + + 
Sbjct: 209 -VIESNETEISKLHEVKDTM 227



 Score = 45.2 bits (105), Expect = 0.022,   Method: Composition-based stats.
 Identities = 23/184 (12%), Positives = 58/184 (31%), Gaps = 7/184 (3%)

Query: 29  PIKRFTKLNTGRTSESGKDI---IYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
            +K ++ +  G T  +  +     ++ + D+      +                + ++G 
Sbjct: 51  KLKDYSVMQYGYTETATTEPVGPKFLRITDIAQNYIDWNGVPYCPISEGNHEKYVLSEGD 110

Query: 86  ILYGKLGPYLRKAIIADFDG----ICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
           ++  + G  +  A +   +       S    +    D         + S +    ++   
Sbjct: 111 VVVARTGATVGYAKMVGRNIPDSVFASFLVRIRPIDDEYRYYFGLAITSSEFLDFVQTNA 170

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            G+    A+   +G   + IP          KI +    I++  TE  +  E+     + 
Sbjct: 171 GGSAQPQANPPLLGEFELSIPNKQSLPEFNTKISSFLGVIESNETEISKLHEVKDTMVKM 230

Query: 202 LVSY 205
           L S 
Sbjct: 231 LSSR 234


>gi|281424442|ref|ZP_06255355.1| putative type I restriction-modification system, S subunit
           [Prevotella oris F0302]
 gi|281401441|gb|EFB32272.1| putative type I restriction-modification system, S subunit
           [Prevotella oris F0302]
          Length = 186

 Score = 49.0 bits (115), Expect = 0.002,   Method: Composition-based stats.
 Identities = 20/135 (14%), Positives = 40/135 (29%), Gaps = 6/135 (4%)

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
               +     +SY T  +      +    D +N   S     + +     S  +      
Sbjct: 52  DYIVSSTNYDDSYLTPVLTAGKSFIIGNTDEKNGIYSKLPCIIFDDFTTASKLVNFPFKV 111

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGLR------QSLKFEDVKRLPVLVPPIKEQFDITNV 381
             S      +      K   A  S  +      +     +  +L + +PP +EQ  I   
Sbjct: 112 KSSAMKILQVNQNISIKYVAAFMSITQLIGDTHKRYWISEYSKLSISIPPKEEQERIVVA 171

Query: 382 INVETARIDVLVEKI 396
           I+     +D + E +
Sbjct: 172 IDNLFNTLDAVKENL 186


>gi|332202397|gb|EGJ16466.1| type I restriction modification DNA specificity domain protein
           [Streptococcus pneumoniae GA41317]
          Length = 181

 Score = 49.0 bits (115), Expect = 0.002,   Method: Composition-based stats.
 Identities = 14/119 (11%), Positives = 36/119 (30%), Gaps = 7/119 (5%)

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA----VKPHGIDSTYLAWL 336
                +   +++                     G++   ++      +   I S +L + 
Sbjct: 61  SEQVYLKHNQLITPVSTSLEHIGKFARIDKDYDGVVAGGFIFQLTPFESSEIISKFLLFN 120

Query: 337 MRSYDLCKVFY---AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
           + S    K       +      S+    +  L + + P +EQ  IT  +     +++ L
Sbjct: 121 LSSPLFYKQLKAITKLSGQALYSIPKTTLSELLIPLAPFEEQELITQKVEKLFEKVNQL 179



 Score = 41.7 bits (96), Expect = 0.25,   Method: Composition-based stats.
 Identities = 33/179 (18%), Positives = 70/179 (39%), Gaps = 17/179 (9%)

Query: 24  HWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +W V+ IK    +NTG + +        K +  I   +++      L  D        S+
Sbjct: 2   NWVVIKIKDIFSINTGLSYKKGDLSINNKGVRIIRGGNIKPLEFSLLDNDYYIDTQFISS 61

Query: 78  VSIFAKGQILYGKLGPYLRKAIIA-----DFDGICSTQFLV----LQPKDVLPELLQGWL 128
             ++ K   L   +   L           D+DG+ +  F+      +  +++ + L   L
Sbjct: 62  EQVYLKHNQLITPVSTSLEHIGKFARIDKDYDGVVAGGFIFQLTPFESSEIISKFLLFNL 121

Query: 129 LSIDVTQRIEAICE--GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLI 185
            S    ++++AI +  G  +       +  + +P+ P  EQ LI +K+     +++ L 
Sbjct: 122 SSPLFYKQLKAITKLSGQALYSIPKTTLSELLIPLAPFEEQELITQKVEKLFEKVNQLW 180


>gi|257880782|ref|ZP_05660435.1| type IC HsdS subunit [Enterococcus faecium 1,230,933]
 gi|257815010|gb|EEV43768.1| type IC HsdS subunit [Enterococcus faecium 1,230,933]
          Length = 182

 Score = 49.0 bits (115), Expect = 0.002,   Method: Composition-based stats.
 Identities = 21/123 (17%), Positives = 49/123 (39%), Gaps = 7/123 (5%)

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS-AQVMERGIITSAY 320
              + + E  +  +  +  + Y ++  GE+ +   + +  K  +       E  ++   Y
Sbjct: 53  NGWLDQRERFSGNIAGKEQKNYTLLRKGELSYNKGNSKLAKYGVVFMLDNFEEALVPRVY 112

Query: 321 MAVKP-HGIDSTYLAWLMRSYDLCKVFYA-MGSGLRQ----SLKFEDVKRLPVLVPPIKE 374
            + K  +   S Y+ +L  +    K     + SG R     ++ ++D   + + +P IKE
Sbjct: 113 HSFKTTNEASSKYIEYLFETKKPNKELRKLITSGARMDGLLNINYDDFMGIKITIPKIKE 172

Query: 375 QFD 377
           Q  
Sbjct: 173 QKK 175


>gi|304436274|ref|ZP_07396257.1| type I restriction modification DNA specificity family protein
           [Selenomonas sp. oral taxon 149 str. 67H29BP]
 gi|304370731|gb|EFM24373.1| type I restriction modification DNA specificity family protein
           [Selenomonas sp. oral taxon 149 str. 67H29BP]
          Length = 175

 Score = 49.0 bits (115), Expect = 0.002,   Method: Composition-based stats.
 Identities = 20/169 (11%), Positives = 52/169 (30%), Gaps = 9/169 (5%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET-----YQ 284
           + W       +        ++    + +       I K     +       E       +
Sbjct: 2   NSWNCIRLGDVCCVNTEAYSEKERWDYVHYLDTGNITKNCIDEIQYIDLMKEKLPSRTRR 61

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA-YMAVKPHGIDSTYLAWLMRSYDLC 343
            V    I++  +        +   Q     + T    + V    +D+ +L   +    + 
Sbjct: 62  KVKYNSILYSTVRPNQCHYGIVKEQSSNFLVSTGFSVIDVIDERVDADFLYCYLTMNTVT 121

Query: 344 KVFYAMG---SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
           +  +A+    +    ++K  D++ L + +P I  Q  I + +     +I
Sbjct: 122 EKMHAIAEQSTSAYPAIKSSDIEDLELKLPDILTQKRIASFLMSLEHKI 170



 Score = 43.2 bits (100), Expect = 0.084,   Method: Composition-based stats.
 Identities = 29/172 (16%), Positives = 58/172 (33%), Gaps = 10/172 (5%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESG--KDIIYIGLEDVESGTGKYL-PKDGNSRQSDTSTVS 79
             W  + +     +NT   SE      + Y+   ++       +   D    +  + T  
Sbjct: 2   NSWNCIRLGDVCCVNTEAYSEKERWDYVHYLDTGNITKNCIDEIQYIDLMKEKLPSRTRR 61

Query: 80  IFAKGQILYGKLGPYLRKAIIADFD---GICSTQFLVLQP--KDVLPELLQGWLLSIDVT 134
                 ILY  + P      I        + ST F V+    + V  + L  +L    VT
Sbjct: 62  KVKYNSILYSTVRPNQCHYGIVKEQSSNFLVSTGFSVIDVIDERVDADFLYCYLTMNTVT 121

Query: 135 QRIEAI--CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
           +++ AI     +         I ++ + +P +  Q  I   +++   +I   
Sbjct: 122 EKMHAIAEQSTSAYPAIKSSDIEDLELKLPDILTQKRIASFLMSLEHKITNN 173


>gi|295426572|ref|ZP_06819221.1| type I restriction enzyme specificity protein [Lactobacillus
           amylolyticus DSM 11664]
 gi|295063751|gb|EFG54710.1| type I restriction enzyme specificity protein [Lactobacillus
           amylolyticus DSM 11664]
          Length = 56

 Score = 49.0 bits (115), Expect = 0.002,   Method: Composition-based stats.
 Identities = 10/53 (18%), Positives = 24/53 (45%), Gaps = 4/53 (7%)

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           + + +L   +    EQ  I +       ++D  +   ++ + LLKE++  F+ 
Sbjct: 4   KVISKLNFFITDYSEQEKIASF----FKQLDDTIALHQRKLDLLKEQKKGFLQ 52


>gi|332800244|ref|YP_004461743.1| restriction modification system DNA specificity domain-containing
           protein [Tepidanaerobacter sp. Re1]
 gi|332697979|gb|AEE92436.1| restriction modification system DNA specificity domain protein
           [Tepidanaerobacter sp. Re1]
          Length = 471

 Score = 48.6 bits (114), Expect = 0.002,   Method: Composition-based stats.
 Identities = 51/392 (13%), Positives = 110/392 (28%), Gaps = 31/392 (7%)

Query: 44  SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS-TVSIFAKGQILYGKLGPYLRKAIIAD 102
               +I +  ++V      +        +   S   S      IL    G Y R      
Sbjct: 74  KSGTVIALTSQNVMENQINFDNIIKIPFEIHNSLERSKIYPNDILLSYTGQYRRACTAPQ 133

Query: 103 FDGIC--STQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMP 160
              +        +   K +    +  +L        ++     +     +   I +I +P
Sbjct: 134 NIELHLGPNICRLRSTKLIDVHYVSTFLNCRYGQSSLDREKTMSAQPTVNMGRIRDILLP 193

Query: 161 IPPLAEQVLIREKIIAETVRIDT-LITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKD 219
           IPP   Q  I +K+       +     ++     L  E   +  +  V         M  
Sbjct: 194 IPPPEIQRYIGDKVRKAEELREEAKRLKKEAEEILNTELNLSYFNERVKYAPKMYNWMCG 253

Query: 220 SGIEWVGLVPDHWEVKPFFALVTELNR----------------KNTKLIESNILSLSYGN 263
             IE       +     F                           T L + +I  +   +
Sbjct: 254 ELIEARIDSQYYINETNFINAEMNKKGLKLKKISEVASVGKGFSYTSLDKKSIPYIRISD 313

Query: 264 IIQKLETRN----MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
           +   L   +    +  K  S +    ++  +++F        K SL       +  ++S 
Sbjct: 314 LDDLLINFDSVEMVDKKTYSEKKSSQLEQYDLIFAITGATIGKVSLFYNNKCSKATLSSD 373

Query: 320 -YMAVKPHGIDSTYLAWLMRSYDLC-KVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFD 377
                     D+ Y+   ++S      +   +     + L  E +  + + V   K + +
Sbjct: 374 TAFVRLKDKNDAAYVLLYLKSIIGQISILKGITGATNRHLSLEHIGDIFIPVIDNKLKRE 433

Query: 378 I----TNVINVETARIDVLVEKIEQSIVLLKE 405
           I       I+        L+++ +Q +  L E
Sbjct: 434 INIIVIKAIDNMFLS-KQLIKEAKQDVEDLIE 464



 Score = 45.9 bits (107), Expect = 0.011,   Method: Composition-based stats.
 Identities = 17/147 (11%), Positives = 51/147 (34%), Gaps = 7/147 (4%)

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
             N I       +  +  +      + P +I+  +      +R+  + Q +E  +  +  
Sbjct: 87  MENQINFDNIIKIPFEIHNSLERSKIYPNDILLSYTG--QYRRACTAPQNIELHLGPNIC 144

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
                  ID  Y++  +             +   + ++    ++ + + +PP + Q  I 
Sbjct: 145 RLRSTKLIDVHYVSTFLNCRYGQSSLDREKTMSAQPTVNMGRIRDILLPIPPPEIQRYIG 204

Query: 380 NVINVETARIDVLVEKIEQSIVLLKER 406
           + +     + + L E+ ++     +E 
Sbjct: 205 DKV----RKAEELREEAKRLKKEAEEI 227


>gi|301048306|ref|ZP_07195338.1| conserved domain protein [Escherichia coli MS 185-1]
 gi|300299840|gb|EFJ56225.1| conserved domain protein [Escherichia coli MS 185-1]
          Length = 178

 Score = 48.6 bits (114), Expect = 0.002,   Method: Composition-based stats.
 Identities = 17/159 (10%), Positives = 46/159 (28%), Gaps = 8/159 (5%)

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFR----FIDLQNDKRSLRSAQVMERGIIT 317
             +    +  ++     S     I+   +IV       I+       +  + +    +  
Sbjct: 20  HGVTNWKDVVHIPNDMISDFENYILSENDIVISLDRPIINTGLKYAIISKSDLPCLLLQR 79

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFD 377
            A      + + +++L   ++SY          S     +  + ++     + P  EQ  
Sbjct: 80  VAKFKNYANTVSNSFLTIWLQSYFFINSIDPGRSNGVPHISTKQLEMTLFPLLPQSEQDR 139

Query: 378 ITNVINVETARIDVL----VEKIEQSIVLLKERRSSFIA 412
           I +  +      + L        +  + L      + I 
Sbjct: 140 IISKTDELIQTCNKLKYIIKTAKQTQLHLADALTDAAIN 178


>gi|20090949|ref|NP_617024.1| StySKI methylase [Methanosarcina acetivorans C2A]
 gi|19916032|gb|AAM05504.1| StySKI methylase [Methanosarcina acetivorans C2A]
          Length = 104

 Score = 48.6 bits (114), Expect = 0.002,   Method: Composition-based stats.
 Identities = 15/104 (14%), Positives = 31/104 (29%), Gaps = 13/104 (12%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQS 73
            +P+ W+   +        G   ES      GK +  I + +++ G  +           
Sbjct: 4   KLPEGWEWNKLSELANFFYGGAFESSYFNEDGKGVKIIRIRNLKQGFTE------TYYAG 57

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPK 117
           +     +     IL G  G +           + + +   L  K
Sbjct: 58  EYDESYLVQNSDILIGMDGEF-NIVKWTGEPALLNQRVCKLIVK 100


>gi|288917625|ref|ZP_06411989.1| N-6 DNA methylase [Frankia sp. EUN1f]
 gi|288351018|gb|EFC85231.1| N-6 DNA methylase [Frankia sp. EUN1f]
          Length = 761

 Score = 48.6 bits (114), Expect = 0.002,   Method: Composition-based stats.
 Identities = 27/155 (17%), Positives = 53/155 (34%), Gaps = 6/155 (3%)

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
           N I      ++        T   + PG+IV         + +L + +     I TS    
Sbjct: 609 NRISPEMIDHVEPDLAEKLTRYRLRPGDIVCVRTGQLGRQ-ALVTEEQRGWLIGTSCLRL 667

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSL-KFEDVKRLPVLVPPIKEQFDITNV 381
                +D +YL + +      +   A  +G    L     ++RLP+L+P   +Q  I   
Sbjct: 668 RPNESVDPSYLLYYLALPQTHEWLLAHSTGSAVRLVTAATIRRLPLLLPDRGQQERIGVT 727

Query: 382 INVETARIDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           ++     +D L    ++        R + +     
Sbjct: 728 VSA----LDDLAALHDRIRRAGTGLRDALLPLVFR 758



 Score = 43.2 bits (100), Expect = 0.070,   Method: Composition-based stats.
 Identities = 26/173 (15%), Positives = 54/173 (31%), Gaps = 13/173 (7%)

Query: 24  HWKVVPIKRFTKLNTGRT------SESGKDIIYIGLEDVESGTGKYLPKDGNSRQ-SDTS 76
            WK +P+     +  G +               +   ++          D      ++  
Sbjct: 568 SWKRLPLGDVCDVLAGFSGAIRTDHNGPSGTAVVKPRNLVENRISPEMIDHVEPDLAEKL 627

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFD--GICSTQFLVLQPKD-VLPELLQGWLLSIDV 133
           T      G I+  + G   R+A++ +     +  T  L L+P + V P  L  +L     
Sbjct: 628 TRYRLRPGDIVCVRTGQLGRQALVTEEQRGWLIGTSCLRLRPNESVDPSYLLYYLALPQT 687

Query: 134 TQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVL---IREKIIAETVRIDT 183
            + + A   G+ +       I  +P+ +P   +Q         +       D 
Sbjct: 688 HEWLLAHSTGSAVRLVTAATIRRLPLLLPDRGQQERIGVTVSALDDLAALHDR 740


>gi|319745000|gb|EFV97328.1| type I restriction-modification system specificty subunit
           [Streptococcus agalactiae ATCC 13813]
          Length = 210

 Score = 48.6 bits (114), Expect = 0.002,   Method: Composition-based stats.
 Identities = 33/182 (18%), Positives = 61/182 (33%), Gaps = 10/182 (5%)

Query: 30  IKRFTKLNTGRTSESG---KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQI 86
           +        G+   S     DI  I L D+      Y        +  +    +  +G +
Sbjct: 30  LSELVDCFKGKAVPSKAEAGDIRIINLSDMSPLGIDYHNLKTFQDEQRSLLKYLLQEGDV 89

Query: 87  LYGKLGPYLRKAII--ADFDGICSTQFLVLQPKDVLPELLQG-WLLSIDVTQRIEAICEG 143
           L    G   + AI    D+  + S    +L+P   +       +  S +  Q +E   +G
Sbjct: 90  LIASKGTVKKVAIFEEQDYPVVASANITILRPTQHIRGYYLKLFFDSEEGQQALENANKG 149

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
             + +   K + NI +P  PL  Q    + +I    +       +I   E   E+ Q  +
Sbjct: 150 KAVMNISTKELLNIAIPSIPLFRQ----DYLIQRYKQGLNDYERKIARAEQEWERIQNDI 205

Query: 204 SY 205
             
Sbjct: 206 RQ 207


>gi|148377835|ref|YP_001256711.1| restriction modification system specificitysubunit HsdS [Mycoplasma
           agalactiae PG2]
 gi|148291881|emb|CAL59272.1| restriction modification system specificitysubunit HsdS [Mycoplasma
           agalactiae PG2]
          Length = 183

 Score = 48.6 bits (114), Expect = 0.002,   Method: Composition-based stats.
 Identities = 21/164 (12%), Positives = 53/164 (32%), Gaps = 5/164 (3%)

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
             +   +   S   +I  ++   M    +  +     +   I   +I +  D  + R   
Sbjct: 22  WKLHELVSYRSSTMVINDVKKYGMFDVYDPNKAVGKTNKRPIEVSYISIVKDGDAGRIRL 81

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
           + +  II S   A+           + + +     +       +   + F D       +
Sbjct: 82  LPKNIIILSTMGALIAREPYKIDFIYHLLT-SYNDLSKERNGSIIPHIYFRDYGHNIYNI 140

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           P   EQ  I    +   + +D L+   ++ +  LK  +++ +  
Sbjct: 141 PEGNEQSKI----SSLFSILDSLITLHQRKLNSLKNIKNTLLEK 180


>gi|171779514|ref|ZP_02920478.1| hypothetical protein STRINF_01359 [Streptococcus infantarius subsp.
           infantarius ATCC BAA-102]
 gi|171282131|gb|EDT47562.1| hypothetical protein STRINF_01359 [Streptococcus infantarius subsp.
           infantarius ATCC BAA-102]
          Length = 198

 Score = 48.6 bits (114), Expect = 0.002,   Method: Composition-based stats.
 Identities = 29/170 (17%), Positives = 60/170 (35%), Gaps = 6/170 (3%)

Query: 28  VPIKRFTKLNTGRTSES---GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           V +   T+   G+         ++  + L D+      Y        + D+ +  +   G
Sbjct: 16  VSLSDVTEHFKGKAVSKLGDTGNVSVVNLSDMTETDIDYDHLKKIDAEQDSVSRYLLEDG 75

Query: 85  QILYGKLGPYLRKAIIADFD--GICSTQFLVLQPKDVLP-ELLQGWLLSIDVTQRIEAIC 141
            +L    G   + A+  D D   I S    VL+P   +    ++ +L S    + +E   
Sbjct: 76  DVLIASKGTVKKVAVFHDQDRAIIASANITVLRPTADISGTYIKLFLESELGQELLETTN 135

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            G  + + + K I +I +P     +Q  + ++           IT   + 
Sbjct: 136 TGKNVMNLNTKKIVSIKIPKLQPLKQAFLIQRYEQGLKDYKRKITRANQE 185


>gi|307608919|emb|CBW98319.1| hypothetical protein LPW_01751 [Legionella pneumophila 130b]
          Length = 225

 Score = 48.6 bits (114), Expect = 0.002,   Method: Composition-based stats.
 Identities = 23/178 (12%), Positives = 59/178 (33%), Gaps = 10/178 (5%)

Query: 242 TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI---VDPGEIVFRFIDL 298
                K  +L  S +  +   +I +        +      + Q    +  G+I+F     
Sbjct: 38  YSFRGKIPELKNSGVYCVQMKDINETYNVNWSTVIETILPSRQSQVSLQFGDILFAARGQ 97

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHGID--STYLAWLMRSYDLCKVFYAMG-SGLRQ 355
           +N    + +       I    +  ++ +  D    Y+AW +      + F +        
Sbjct: 98  RNYAALINAELKERLAIAAPQFFVIRLNVPDVLPEYIAWFLNQTIAQRYFLSNAEGSTTP 157

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           S++ + ++  P+++P +K+Q  I          I    +   + I   +    + +  
Sbjct: 158 SIRKQVLEATPIILPTLKQQKTI----MELATTISKEKQLAHKIIANGELLMQTLLNE 211


>gi|237649413|ref|ZP_04523665.1| type I restriction enzyme [Streptococcus pneumoniae CCRI 1974]
 gi|237821512|ref|ZP_04597357.1| type I restriction enzyme [Streptococcus pneumoniae CCRI 1974M2]
          Length = 226

 Score = 48.6 bits (114), Expect = 0.002,   Method: Composition-based stats.
 Identities = 27/142 (19%), Positives = 48/142 (33%), Gaps = 5/142 (3%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLP-KDGNSRQSDTSTV 78
            IP  W+ V IK           E     I     D +     Y   +  +  Q+ +   
Sbjct: 83  DIPDTWEWVRIKSIYWNFGQNKPEKSFRYIDTSSIDRKKNIINYKNLQYLSPEQAPSRAR 142

Query: 79  SIFAKGQILYGKLGPYLRKAIIA---DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
            + ++  +L+  + PYL+   +        I ST F+VL        L   +LLS +   
Sbjct: 143 KLVSQNSVLFSTVRPYLKNIAVVRELKEYLIASTAFIVLDTLLNETYLKY-YLLSDNFIN 201

Query: 136 RIEAICEGATMSHADWKGIGNI 157
           R+     G +    +      +
Sbjct: 202 RVNNKSTGTSYPAINDYNFNLL 223



 Score = 36.3 bits (82), Expect = 9.4,   Method: Composition-based stats.
 Identities = 19/152 (12%), Positives = 49/152 (32%), Gaps = 6/152 (3%)

Query: 221 GIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
            I+    +PD WE     ++     +   +     I + S       +  +N+       
Sbjct: 77  EIDVPYDIPDTWEWVRIKSIYWNFGQNKPEKSFRYIDTSSIDRKKNIINYKNLQYLSPEQ 136

Query: 281 ---ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
                 ++V    ++F  +       ++     ++  +I S    V    ++ TYL + +
Sbjct: 137 APSRARKLVSQNSVLFSTVRPYLKNIAVVR--ELKEYLIASTAFIVLDTLLNETYLKYYL 194

Query: 338 RSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVL 368
            S +         +G    ++   +   L + 
Sbjct: 195 LSDNFINRVNNKSTGTSYPAINDYNFNLLLIA 226


>gi|294793174|ref|ZP_06758320.1| type I restriction-modification system specificity determinant
           [Veillonella sp. 6_1_27]
 gi|294456119|gb|EFG24483.1| type I restriction-modification system specificity determinant
           [Veillonella sp. 6_1_27]
          Length = 167

 Score = 48.6 bits (114), Expect = 0.002,   Method: Composition-based stats.
 Identities = 27/157 (17%), Positives = 52/157 (33%), Gaps = 5/157 (3%)

Query: 28  VPIKRFTKLNTGRTSESGKDII-YIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQI 86
             +    +   G+ + S   +  YI  E++       +  +     +         +   
Sbjct: 3   CKLSDICEYRKGKVNTSNLTLKTYISTENMLPDKAGVVEANSLPSTTLVQEYK---EHDT 59

Query: 87  LYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL-LSIDVTQRIEAICEGAT 145
           L   + PY +K   A  DG CS   LV Q    + +    ++  + D      A  +G  
Sbjct: 60  LVSNIRPYFKKVWQAKHDGGCSNDVLVFQGNLNVDKDFLYYILANDDFFAYSMATSKGTK 119

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
           M   D K I    + +  +  Q  I   +     +I+
Sbjct: 120 MPRGDKKSIMQYELQLFDIKIQKKIVSILKLLDKKIE 156



 Score = 46.7 bits (109), Expect = 0.007,   Method: Composition-based stats.
 Identities = 16/159 (10%), Positives = 47/159 (29%), Gaps = 4/159 (2%)

Query: 233 EVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIV 292
                  +      K      +    +S  N++     +   ++  S  +  +V   +  
Sbjct: 1   MKCKLSDICEYRKGKVNTSNLTLKTYISTENMLPD---KAGVVEANSLPSTTLVQEYKEH 57

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
              +               + G      +      +D  +L +++ + D      A   G
Sbjct: 58  DTLVSNIRPYFKKVWQAKHDGGCSNDVLVFQGNLNVDKDFLYYILANDDFFAYSMATSKG 117

Query: 353 L-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
                   + + +  + +  IK Q  I +++ +   +I+
Sbjct: 118 TKMPRGDKKSIMQYELQLFDIKIQKKIVSILKLLDKKIE 156


>gi|332074781|gb|EGI85254.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae GA17570]
          Length = 69

 Score = 48.6 bits (114), Expect = 0.002,   Method: Composition-based stats.
 Identities = 12/60 (20%), Positives = 24/60 (40%), Gaps = 7/60 (11%)

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV-------LVEKIEQSIVLLKER 406
            ++L  + V  + + +PP+ EQ  I   I     ++D        L +  ++    LK  
Sbjct: 1   MKNLNSDKVASILIPLPPLAEQQRIIEAIESALEKVDEYAESYNRLEQLDKKFPDKLKNL 60


>gi|329123733|ref|ZP_08252293.1| type I restriction/modification enzyme [Haemophilus aegyptius ATCC
           11116]
 gi|327469932|gb|EGF15397.1| type I restriction/modification enzyme [Haemophilus aegyptius ATCC
           11116]
          Length = 169

 Score = 48.6 bits (114), Expect = 0.002,   Method: Composition-based stats.
 Identities = 20/130 (15%), Positives = 39/130 (30%), Gaps = 8/130 (6%)

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL 353
             I +     +          I  S    V+      T   +         +F       
Sbjct: 47  NTITISASGANAGFVNFWTEKIFASDCTTVRADNYVGTKFIFTYLQSIQENIFDLARGAA 106

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           +  +  +D+KRLP+   P+  Q  +      E  +ID    +    I   + + +     
Sbjct: 107 QPHVYPDDIKRLPIPKVPLDIQQKVVE----ECQKIDDEFNRTRMQIEEYRAKFAKIFNE 162

Query: 414 AVTGQIDLRG 423
               +I +RG
Sbjct: 163 L---EI-VRG 168


>gi|217033076|ref|ZP_03438542.1| hypothetical protein HPB128_179g2 [Helicobacter pylori B128]
 gi|216945197|gb|EEC23884.1| hypothetical protein HPB128_179g2 [Helicobacter pylori B128]
          Length = 169

 Score = 48.6 bits (114), Expect = 0.002,   Method: Composition-based stats.
 Identities = 24/155 (15%), Positives = 55/155 (35%), Gaps = 13/155 (8%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESGKDII-----YIGLEDVESGTGKYLPKDGNSRQSDTS 76
           P +W+ V +       +G   ++ +D I     YI   +V +          N +     
Sbjct: 7   PSNWQRVRLGDIGITISGLAGKTKQDFINGNAKYITFLNVLNNVIIDTSILENVKIYPNE 66

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIA-------DFDGICSTQFLVLQPKDVLPELLQGWLL 129
             + F K  + +       ++  +        D   + S  F        +  L   +L+
Sbjct: 67  KQNSFKKYDLFFNTSSETPKEVGMCAVLLDDIDQVFLNSFCFGFRIFDKAVDSLFLSYLI 126

Query: 130 SIDV-TQRIEAICEGATMSHADWKGIGNIPMPIPP 163
           + ++  +  E + +G+T  +    G  N+ + +PP
Sbjct: 127 NSEIGRKAFENLAQGSTRYNLSKSGFNNVCLILPP 161



 Score = 44.8 bits (104), Expect = 0.027,   Method: Composition-based stats.
 Identities = 19/122 (15%), Positives = 44/122 (36%), Gaps = 5/122 (4%)

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA--QVME 312
            I  L+  N +    +    +K    E        ++ F        +  + +     ++
Sbjct: 40  YITFLNVLNNVIIDTSILENVKIYPNEKQNSFKKYDLFFNTSSETPKEVGMCAVLLDDID 99

Query: 313 RGIITSAYM--AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLV 369
           +  + S      +    +DS +L++L+ S    K F  +  G  R +L       + +++
Sbjct: 100 QVFLNSFCFGFRIFDKAVDSLFLSYLINSEIGRKAFENLAQGSTRYNLSKSGFNNVCLIL 159

Query: 370 PP 371
           PP
Sbjct: 160 PP 161


>gi|222153122|ref|YP_002562299.1| hypothetical protein SUB0973 [Streptococcus uberis 0140J]
 gi|222113935|emb|CAR42171.1| conserved hypothetical protein [Streptococcus uberis 0140J]
          Length = 198

 Score = 48.6 bits (114), Expect = 0.002,   Method: Composition-based stats.
 Identities = 28/189 (14%), Positives = 63/189 (33%), Gaps = 10/189 (5%)

Query: 26  KVVPIKRFTKLNTGRTSES---GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + + +        G+   S     +   I L D+      Y                   
Sbjct: 14  EKIRLGDVVDCFKGKAISSKVEDGEFGLINLSDMTKEGINYEGIRTFHLDRRQLLRYFLE 73

Query: 83  KGQILYGKLGPYLRKAIIADFD--GICSTQFLVLQPKDVLPELLQGWLLSIDV-TQRIEA 139
            G +L    G   +  I        + S+   VL+P + L      + L  ++    ++A
Sbjct: 74  DGDVLIASKGTVKKVCIFHKQKREFVASSNITVLRPIEKLRGYYIKFFLDSEIGQSFLDA 133

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
              G  + +   K + +IP+ + PL +Q    + +I + +R  +    +++  E      
Sbjct: 134 ADHGKDVINLSTKELLDIPVSLIPLVKQ----DYLINQYLRGLSDYHRKLKRAEQEWLFI 189

Query: 200 QALVSYIVT 208
           Q+ +   + 
Sbjct: 190 QSEIEKSLH 198


>gi|13508377|ref|NP_110327.1| K family restriction enzyme specificity determining subunit
           [Mycoplasma pneumoniae M129]
 gi|2496434|sp|P75159|T1SX_MYCPN RecName: Full=Putative type I restriction enzyme specificity
           protein MPN_638; Short=S protein
 gi|1673868|gb|AAB95852.1| specificity determining subunit for restriction enzyme belonging to
           the K family of S proteins [Mycoplasma pneumoniae M129]
          Length = 375

 Score = 48.3 bits (113), Expect = 0.002,   Method: Composition-based stats.
 Identities = 29/141 (20%), Positives = 54/141 (38%), Gaps = 4/141 (2%)

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
           K E  N G+K              I           R   + +    G  +     + P 
Sbjct: 40  KYEYFNGGIKASGRTNEFNTFKNTISIIIGGSCGYVR--LADKDYFCGQSSCTLTVLDPL 97

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-PIKEQFDITNVINVE 385
            ID  +  + ++S +  K+         ++++  D+K LP+ +   I++Q  I + ++V 
Sbjct: 98  EIDLKFAYYALKSQE-EKITSLASGTTIKNIRLSDLKDLPIPLVKSIQDQRTIAHALSVF 156

Query: 386 TARIDVLVEKIEQSIVLLKER 406
             RI+ L E IE +  L  E 
Sbjct: 157 DLRIEHLNELIEVNRKLRDEY 177



 Score = 45.6 bits (106), Expect = 0.014,   Method: Composition-based stats.
 Identities = 47/397 (11%), Positives = 111/397 (27%), Gaps = 40/397 (10%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            +W    +    +L  G   E            + +  GKY   +G  + S  +      
Sbjct: 11  SNWTKKTLGSLFELKKGEMLEKE----------LLAPDGKYEYFNGGIKASGRTNEFNTF 60

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           K  I     G      +         +   +     +  +L   +       ++I ++  
Sbjct: 61  KNTISIIIGGSCGYVRLADKDYFCGQSSCTLTVLDPLEIDLKFAYYALKSQEEKITSLAS 120

Query: 143 GATMSHADWKGIGNIPMPI-PPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
           G T+ +     + ++P+P+   + +Q  I   +    +RI+ L        +L  E    
Sbjct: 121 GTTIKNIRLSDLKDLPIPLVKSIQDQRTIAHALSVFDLRIEHLNELIEVNRKLRDEYAHK 180

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
           L +      L+PD          +  + +         +    + K    ++++      
Sbjct: 181 LFT------LDPDFLTHW----NLHELHEQMGEISLGEVFHLKSGK---YLKADERFEDG 227

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
                     +     E          G+ +    +  +             G    A  
Sbjct: 228 KFPYYGAGIESTSFVNEPNT------KGDTLSMIANGYSIGNIRYHTIPWFNGTGGIAME 281

Query: 322 AVKPHGIDSTYLAWLMR--SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-PIKEQFDI 378
           A+KP+     +    ++    DL + F    S     +  +    + V        Q   
Sbjct: 282 ALKPNKTYVPFFYCALKYMQKDLKERFKRDES---PFISLKLAGEIKVPFVKSFALQRKA 338

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
             +I +    ++   E+ +  I      R + +    
Sbjct: 339 GKIIYLLDKTLEECKEEAKSLI----SIRDNLLGKLF 371


>gi|325973640|ref|YP_004250704.1| type I restriction-modification system specificity subunit
           [Mycoplasma suis str. Illinois]
 gi|323652242|gb|ADX98324.1| type I restriction-modification system specificity subunit
           [Mycoplasma suis str. Illinois]
          Length = 86

 Score = 48.3 bits (113), Expect = 0.002,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 26/59 (44%), Gaps = 4/59 (6%)

Query: 352 GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
             +  L       + +L+P ++ Q  I N ++      D L+E  E+ I  L+  R++ 
Sbjct: 2   TAQLGLYLNKFLSIKLLIPTLQMQEKIGNTLSA----YDELIENNEKQIKALQRIRTTI 56


>gi|24373035|ref|NP_717077.1| type I restriction-modification system, S subunit, putative
           [Shewanella oneidensis MR-1]
 gi|24347206|gb|AAN54522.1|AE015591_1 type I restriction-modification system, S subunit, putative
           [Shewanella oneidensis MR-1]
          Length = 446

 Score = 48.3 bits (113), Expect = 0.002,   Method: Composition-based stats.
 Identities = 48/359 (13%), Positives = 98/359 (27%), Gaps = 32/359 (8%)

Query: 41  TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAII 100
             E    + ++G  D+       LP   +  Q     +    K  +L  + G   R  + 
Sbjct: 43  VKEERYGVPFMGSVDIIQANLDRLPL-ISKEQVSRKPLFKVFKDWVLITRSGTIGRMTLA 101

Query: 101 ADFD--GICSTQFL--VLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGN 156
                   CS   +  V  P+ V P  L  +L S      + +   GA + H +   + N
Sbjct: 102 RQEMDGHACSEHVMRVVPNPEKVSPGYLYCYLRSKFGVPLVVSSTYGAIIQHIEPHHVIN 161

Query: 157 IPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVK 216
           +P+PI     +    E I               +  +L+ E         ++  +     
Sbjct: 162 LPVPIVDKQLEEKAHELINKCGDNRTESNALLKKAGQLINEHFSFPNKLALSHRIFTHSA 221

Query: 217 MKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK 276
              S ++       H  V      + E       L E  + +   G +       + G+ 
Sbjct: 222 ASSSLVQKRMDATYHDRVAQMSDDLVEQAGAEKTLAELGVNTGESGRMKLVFTESDHGVP 281

Query: 277 PESYET---------------------YQIVDPGEIVFRFIDLQNDKRSLRSAQV--MER 313
             +                           V   +I+                     E 
Sbjct: 282 FTTSGEIFRARYEPQRFLAKSKLGDVADWGVRQEDILLARSGQVGGIIGTGVWADSRFEN 341

Query: 314 GIITSAYMAV--KPHGIDSTYLAWLMRSYD--LCKVFYAMGSGLRQSLKFEDVKRLPVL 368
             ++   + +  +   +   YL   +   D    ++  +        L  +DV +L + 
Sbjct: 342 AAVSVDVIRIKAQESEVLPGYLYAYLMCTDVGYRQLIRSAAGSSIPHLSSDDVLKLKLP 400


>gi|241895461|ref|ZP_04782757.1| conserved hypothetical protein [Weissella paramesenteroides ATCC
           33313]
 gi|241871435|gb|EER75186.1| conserved hypothetical protein [Weissella paramesenteroides ATCC
           33313]
          Length = 171

 Score = 48.3 bits (113), Expect = 0.002,   Method: Composition-based stats.
 Identities = 33/165 (20%), Positives = 60/165 (36%), Gaps = 2/165 (1%)

Query: 41  TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAII 100
           T+   + +  I  E++ SG G+   K+      D+     F K  +LYGKL PYL     
Sbjct: 3   TTSRKETLPRIEYENIISGEGRL--KNDVFEIGDSRKGIYFQKNDVLYGKLRPYLNNWFF 60

Query: 101 ADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMP 160
           A F GI    F VL+    +       L+     + +  +  G  M  +DW  +      
Sbjct: 61  ATFQGIAIGDFWVLRAAPCISPKFIFSLIQSPRYKVVANMTTGTKMPRSDWNNVSATEFR 120

Query: 161 IPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
           I    ++ +   ++      + T+           +    +L  +
Sbjct: 121 IARNEDEQMKIGQLFLSLDNLITVNQRTTILFAPDQNSTLSLRFH 165


>gi|171779407|ref|ZP_02920371.1| hypothetical protein STRINF_01252 [Streptococcus infantarius subsp.
           infantarius ATCC BAA-102]
 gi|171282024|gb|EDT47455.1| hypothetical protein STRINF_01252 [Streptococcus infantarius subsp.
           infantarius ATCC BAA-102]
          Length = 133

 Score = 48.3 bits (113), Expect = 0.002,   Method: Composition-based stats.
 Identities = 10/70 (14%), Positives = 23/70 (32%), Gaps = 4/70 (5%)

Query: 330 STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
           +  L + +  +          S    SL    +  +   +P  KEQ  I +       ++
Sbjct: 47  NIDLQFTLAIFKKINWKKYDESTGVPSLSKSVINNVFAFLPSFKEQKKIGSF----FQQL 102

Query: 390 DVLVEKIEQS 399
           D  +   ++ 
Sbjct: 103 DDTITLHQRK 112


>gi|301633654|gb|ADK87208.1| type I restriction modification DNA specificity domain protein
           [Mycoplasma pneumoniae FH]
          Length = 375

 Score = 48.3 bits (113), Expect = 0.002,   Method: Composition-based stats.
 Identities = 29/141 (20%), Positives = 54/141 (38%), Gaps = 4/141 (2%)

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
           K E  N G+K              I           R   + +    G  +     + P 
Sbjct: 40  KYEYFNGGIKASGRTNEFNTFKNTISIIIGGSCGYVR--LADKDYFCGQSSCTLTVLDPL 97

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-PIKEQFDITNVINVE 385
            ID  +  + ++S +  K+         ++++  D+K LP+ +   I++Q  I + ++V 
Sbjct: 98  EIDLKFAYYALKSQE-EKITSLASGTTIKNIRLSDLKDLPIPLVKSIQDQRTIAHALSVF 156

Query: 386 TARIDVLVEKIEQSIVLLKER 406
             RI+ L E IE +  L  E 
Sbjct: 157 DLRIEHLNELIEVNRKLRDEY 177



 Score = 45.9 bits (107), Expect = 0.012,   Method: Composition-based stats.
 Identities = 48/397 (12%), Positives = 112/397 (28%), Gaps = 40/397 (10%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            +W    +    +L  G   E            + +  GKY   +G  + S  +      
Sbjct: 11  SNWTKKTLGSLFELKKGEMLEKE----------LLAPDGKYEYFNGGIKASGRTNEFNTF 60

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           K  I     G      +         +   +     +  +L   +       ++I ++  
Sbjct: 61  KNTISIIIGGSCGYVRLADKDYFCGQSSCTLTVLDPLEIDLKFAYYALKSQEEKITSLAS 120

Query: 143 GATMSHADWKGIGNIPMPI-PPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
           G T+ +     + ++P+P+   + +Q  I   +    +RI+ L        +L  E    
Sbjct: 121 GTTIKNIRLSDLKDLPIPLVKSIQDQRTIAHALSVFDLRIEHLNELIEVNRKLRDEYAHK 180

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
           L +      L+PD          +  + +         +    + K    ++++      
Sbjct: 181 LFT------LDPDFLTHW----NLHELHEQMGEISLGEVFHLKSGK---YLKADERFEDG 227

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
                     +     E          G+ +    +  +             G    A  
Sbjct: 228 KFPYYGAGIESTSFVNEPNT------KGDTLSMIANGYSIGNIRYHTIPWFNGTGGIAME 281

Query: 322 AVKPHGIDSTYLAWLMR--SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-PIKEQFDI 378
           A+KP+     +    ++    DL + F    S     +  +    + V        Q   
Sbjct: 282 ALKPNETYVPFFYCALKYMQKDLKERFKRDES---PFISLKLAGEIKVPFVKSFALQRKA 338

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
             +I      +D  +E+ ++    L   R + +    
Sbjct: 339 GKIIY----LLDKTLEEYKEEAKSLISIRDNLLGKLF 371


>gi|225378421|ref|ZP_03755642.1| hypothetical protein ROSEINA2194_04089 [Roseburia inulinivorans DSM
           16841]
 gi|225209736|gb|EEG92090.1| hypothetical protein ROSEINA2194_04089 [Roseburia inulinivorans DSM
           16841]
          Length = 105

 Score = 48.3 bits (113), Expect = 0.002,   Method: Composition-based stats.
 Identities = 10/85 (11%), Positives = 35/85 (41%), Gaps = 3/85 (3%)

Query: 308 AQVMERGIITSAYMAVKPH--GIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKR 364
            +   + +       ++P+   +   +L + + +     V   +     ++++  E ++ 
Sbjct: 3   IEEDRKFVFQRHIAILRPNLEKVIPEFLYYTLLNPQFYTVADYLAIGAAQRTISLESLRN 62

Query: 365 LPVLVPPIKEQFDITNVINVETARI 389
           + + +P + +Q  I +VI     +I
Sbjct: 63  IEIELPSLSQQKRIVDVIAPIDKKI 87


>gi|284055016|ref|ZP_06385226.1| type I restriction modification system, subunit S [Arthrospira
           platensis str. Paraca]
          Length = 193

 Score = 48.3 bits (113), Expect = 0.002,   Method: Composition-based stats.
 Identities = 17/103 (16%), Positives = 33/103 (32%), Gaps = 1/103 (0%)

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
            Y    I+D   I+        D+ + R      +G                 +  +L  
Sbjct: 91  DYVNEYIIDDDIILLAEDGGYFDEHTTRPIAYRMKGKCWVNNHVHILKAKPGYHQDFLFY 150

Query: 339 SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-PIKEQFDITN 380
                 V   + SG R  L   ++ ++ + +P   +EQ  I +
Sbjct: 151 CLVHKNVLPFLASGTRAKLNKSEMNKIEINLPKNSEEQKAIAS 193



 Score = 41.7 bits (96), Expect = 0.23,   Method: Composition-based stats.
 Identities = 10/49 (20%), Positives = 24/49 (48%), Gaps = 4/49 (8%)

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRG 423
           Q  I +V++      D L+  +++ I   +  +++ +   +TG+  L G
Sbjct: 1   QKAIASVLSDV----DELISSLDKLIAKKRHIKTATMQQLLTGKTRLPG 45


>gi|169796762|ref|YP_001714555.1| putative restriction-modification protein [Acinetobacter baumannii
           AYE]
 gi|169149689|emb|CAM87580.1| conserved hypothetical protein; putative restriction-modification
           protein [Acinetobacter baumannii AYE]
          Length = 760

 Score = 48.3 bits (113), Expect = 0.002,   Method: Composition-based stats.
 Identities = 39/240 (16%), Positives = 89/240 (37%), Gaps = 15/240 (6%)

Query: 174 IIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWE 233
           + +   +ID    + + F +L K       + +    +NP++   +  I       +   
Sbjct: 512 LDSFRRKIDENDLKNLDFADLNKSDFDKYYNELGFLKVNPELIRSNDYIYNYAHYSNSHI 571

Query: 234 VKPFF----ALVTELNRKNTKLIESNILSLSY---GNIIQKLETRNMGLKPESYETYQIV 286
              F       +  L+ K     ++NI  +S      +I + E     +       Y+ V
Sbjct: 572 KSKFPTIKLKELLSLSGKVKVGEDTNIPIMSITMEHGLIDQHEKFKKRVASSDISGYKKV 631

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY-MAVKPHGIDSTYLAWLMRSYDLCKV 345
              E+V        D+  L   +  +   ++ AY +      ++  YL  ++RS  L K+
Sbjct: 632 FKNELVM---GFPIDEGVLGFQKYYDAAAVSPAYKIFRLKREVNVEYLDLILRSNSLRKI 688

Query: 346 FYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
           + +   G    R+S+  E    + +  PP + +  I    +     I+  +++ ++ + L
Sbjct: 689 YKSKMQGSVERRRSIPDEMFLNIEIPNPPEEVKDQIVKQ-HKLIKEIENSLKENQKKLRL 747


>gi|254672388|emb|CBA05665.1| type I restriction-modification system specificity determinant
           [Neisseria meningitidis alpha275]
          Length = 60

 Score = 48.3 bits (113), Expect = 0.002,   Method: Composition-based stats.
 Identities = 9/44 (20%), Positives = 22/44 (50%)

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
            +++K+L + +P + EQ  I  +++        + E + + I L
Sbjct: 1   MKELKKLKIPIPSLPEQEKIVAILDKFDTLTHSVSEGLPREIAL 44


>gi|307244003|ref|ZP_07526124.1| conserved domain protein [Peptostreptococcus stomatis DSM 17678]
 gi|306492653|gb|EFM64685.1| conserved domain protein [Peptostreptococcus stomatis DSM 17678]
          Length = 194

 Score = 48.3 bits (113), Expect = 0.003,   Method: Composition-based stats.
 Identities = 15/122 (12%), Positives = 38/122 (31%), Gaps = 7/122 (5%)

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR--SYDLCKVFYAMGS 351
             +   +   S                 A      +S+     +     D+      +  
Sbjct: 72  SNVSGPSITVSGSGVNAGYVSFHLHDIWAADCSYNNSSCYIHCLYVMMKDIQAQITELQK 131

Query: 352 GL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
           G  +  +  +++  L +  P       I N +    ++I  ++E  +  I  LK+ ++  
Sbjct: 132 GTAQPHVYPKELNPLEITYPNSD----ILNKLEQSLSKIFAVIEDNDNEIAKLKKMQTVL 187

Query: 411 IA 412
           +A
Sbjct: 188 LA 189


>gi|299142939|ref|ZP_07036065.1| type I restriction-modification system, S subunit [Prevotella oris
           C735]
 gi|298575555|gb|EFI47435.1| type I restriction-modification system, S subunit [Prevotella oris
           C735]
          Length = 191

 Score = 48.3 bits (113), Expect = 0.003,   Method: Composition-based stats.
 Identities = 23/147 (15%), Positives = 57/147 (38%), Gaps = 7/147 (4%)

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
             K    N G  P  Y     V    I        N    ++  +           +   
Sbjct: 47  HGKYYVMNGGTDPSGYYDNYNVGAHTISISEGG--NSCGYVQFNKCPFWCGGHCYSIQNI 104

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
              I++ YL   +++ +   +   +GSGL  +++ +D+    + +P  K+Q  I++++  
Sbjct: 105 ADNINNLYLYHYLKTEEKAIMKLRIGSGL-PNIQKKDLATFKIKLPTSKQQKAISDIL-- 161

Query: 385 ETARIDVLVEKIEQSIVLLKERRSSFI 411
             + ++   E  EQ ++ +++ +   +
Sbjct: 162 --SLLEQKAEIEEQILIAMQDEKQYLL 186



 Score = 38.6 bits (88), Expect = 1.9,   Method: Composition-based stats.
 Identities = 21/182 (11%), Positives = 52/182 (28%), Gaps = 14/182 (7%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
            ++ +     +  G                + S  GKY   +G +  S            
Sbjct: 23  DIITLSEICDIVKGEQINGE----------LLSEHGKYYVMNGGTDPSGYYDNYNVGAHT 72

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           I   + G              C      +Q        L  +       + I  +  G+ 
Sbjct: 73  ISISEGGNSCGYVQFNKCPFWCGGHCYSIQNIADNINNLYLYHYLKTEEKAIMKLRIGSG 132

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
           + +   K +    + +P   +Q  I + +      ++       + +  ++++KQ L+  
Sbjct: 133 LPNIQKKDLATFKIKLPTSKQQKAISDIL----SLLEQKAEIEEQILIAMQDEKQYLLRQ 188

Query: 206 IV 207
           + 
Sbjct: 189 MF 190


>gi|228477499|ref|ZP_04062135.1| restriction endonuclease S subunit [Streptococcus salivarius SK126]
 gi|228250934|gb|EEK10122.1| restriction endonuclease S subunit [Streptococcus salivarius SK126]
          Length = 206

 Score = 48.3 bits (113), Expect = 0.003,   Method: Composition-based stats.
 Identities = 29/186 (15%), Positives = 64/186 (34%), Gaps = 8/186 (4%)

Query: 26  KVVPIKRFTKLNTGRTSESG---KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           K+V +        G+   +     +   I L D+      Y      S +       +  
Sbjct: 19  KLVRLGDVVDQFKGKAVPAKAEPGEFAVINLSDMTPNGIAYDDLKTFSEERRKLLRFLLE 78

Query: 83  KGQILYGKLGPYLRKAIIAD---FDGICSTQFLVLQPKDVLPELLQGWLLSIDV-TQRIE 138
            G +L    G   + A+  D    + + S+   VL+PK+ L      + L  ++    ++
Sbjct: 79  DGDVLIASKGTVQKVAVFEDQGKREVVASSNITVLRPKEKLRGFYIKFFLETEIGRAYLD 138

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQ-VLIREKIIAETVRIDTLITERIRFIELLKE 197
              +G  + +     + +I +P  P+ +Q   I   +         ++     +  + K 
Sbjct: 139 YADKGKAVLNLSTADLLDIKIPEIPIVKQDYQIAAYLRGRADFHRKMVRAEQEWENIQKN 198

Query: 198 KKQALV 203
             +AL 
Sbjct: 199 VTEALF 204



 Score = 37.9 bits (86), Expect = 3.1,   Method: Composition-based stats.
 Identities = 10/102 (9%), Positives = 30/102 (29%), Gaps = 2/102 (1%)

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
             +++ G+++                   E    ++  +      +   Y+ + + +   
Sbjct: 74  RFLLEDGDVLIASKGTVQKVAVFEDQGKREVVASSNITVLRPKEKLRGFYIKFFLETEIG 133

Query: 343 CKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQF-DITNVI 382
                    G    +L   D+  + +   PI +Q   I   +
Sbjct: 134 RAYLDYADKGKAVLNLSTADLLDIKIPEIPIVKQDYQIAAYL 175


>gi|327460990|gb|EGF07323.1| hypothetical protein HMPREF9394_0856 [Streptococcus sanguinis
           SK1057]
          Length = 204

 Score = 48.3 bits (113), Expect = 0.003,   Method: Composition-based stats.
 Identities = 26/210 (12%), Positives = 59/210 (28%), Gaps = 13/210 (6%)

Query: 214 DVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNM 273
                 S    +G + +      F +       K    I+           +  ++ ++ 
Sbjct: 1   MKIFYSSNSIQLGDIFELKSGYAFKSKDWVDEGKPVIKIKDIDGLTIDITNLNYVKNKSQ 60

Query: 274 GLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYL 333
             K  ++E    V   EIV         K  +       +G +             S  +
Sbjct: 61  LSKASNFE----VFGKEIVMALTGATTGKIGVIPKNF--KGYVNQRVGLFYAKTELSYAV 114

Query: 334 AWLM--RSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
            W +  +   +  +        + +L    V    + V        I   ++   + +  
Sbjct: 115 LWSILQQQNIITDLIKLSSGSAQANLSPFSVNSYDLNVTFKDL---I--KLDKVLSPLYE 169

Query: 392 LVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           L       I  L E R + +   ++G+I +
Sbjct: 170 LFCFNLSEIQRLSELRDTLLPKLLSGEISV 199



 Score = 44.8 bits (104), Expect = 0.029,   Method: Composition-based stats.
 Identities = 19/146 (13%), Positives = 50/146 (34%), Gaps = 9/146 (6%)

Query: 28  VPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA- 82
           + +    +L +G   +S     +    I ++D++  T      +    +S  S  S F  
Sbjct: 10  IQLGDIFELKSGYAFKSKDWVDEGKPVIKIKDIDGLTIDITNLNYVKNKSQLSKASNFEV 69

Query: 83  -KGQILYGKLGPYLRKAIIA--DFDGICSTQFLVLQPKDVLPELLQG-WLLSIDVTQRIE 138
              +I+    G    K  +   +F G  + +  +   K  L   +    L   ++   + 
Sbjct: 70  FGKEIVMALTGATTGKIGVIPKNFKGYVNQRVGLFYAKTELSYAVLWSILQQQNIITDLI 129

Query: 139 AICEGATMSHADWKGIGNIPMPIPPL 164
            +  G+  ++     + +  + +   
Sbjct: 130 KLSSGSAQANLSPFSVNSYDLNVTFK 155


>gi|261366728|ref|ZP_05979611.1| type I restriction-modification system specificity subunit
           [Subdoligranulum variabile DSM 15176]
 gi|282571554|gb|EFB77089.1| type I restriction-modification system specificity subunit
           [Subdoligranulum variabile DSM 15176]
          Length = 201

 Score = 48.3 bits (113), Expect = 0.003,   Method: Composition-based stats.
 Identities = 14/140 (10%), Positives = 36/140 (25%), Gaps = 13/140 (9%)

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
             E      ++  G++V            +    + +    +              Y   
Sbjct: 63  ISEENHEKYVLSEGDVVVARTGATVGYAKMVGRNIPDSVFASFLVRIRPIDDEYRYYFGL 122

Query: 336 LMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVP---PIKEQF-DITNVINVETARID 390
            + S +          G  +       +    + +P    + E    I++ +        
Sbjct: 123 AITSAEFLNFVQTNAGGSAQPQANPPLLGEFELSIPNKQSLPEFNTKISSFLG------- 175

Query: 391 VLVEKIEQSIVLLKERRSSF 410
            ++E  E  I  L E + + 
Sbjct: 176 -VIESNETEISKLHEVKDTM 194



 Score = 44.8 bits (104), Expect = 0.030,   Method: Composition-based stats.
 Identities = 23/184 (12%), Positives = 59/184 (32%), Gaps = 7/184 (3%)

Query: 29  PIKRFTKLNTGRTSESGKDI---IYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
            +K ++ +  G T  +  +     ++ + D+      +          +     + ++G 
Sbjct: 18  KLKDYSVMQYGYTETATTEPVGPKFLRITDIAQNYIDWNGVPYCPISEENHEKYVLSEGD 77

Query: 86  ILYGKLGPYLRKAIIADFDG----ICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
           ++  + G  +  A +   +       S    +    D         + S +    ++   
Sbjct: 78  VVVARTGATVGYAKMVGRNIPDSVFASFLVRIRPIDDEYRYYFGLAITSAEFLNFVQTNA 137

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
            G+    A+   +G   + IP          KI +    I++  TE  +  E+     + 
Sbjct: 138 GGSAQPQANPPLLGEFELSIPNKQSLPEFNTKISSFLGVIESNETEISKLHEVKDTMVKM 197

Query: 202 LVSY 205
           L S 
Sbjct: 198 LSSR 201


>gi|13508029|ref|NP_109978.1| hypothetical protein MPN290 [Mycoplasma pneumoniae M129]
 gi|12229980|sp|P75487|T1SY_MYCPN RecName: Full=Putative type-1 restriction enzyme specificity
           protein MPN_290; AltName: Full=S.MpnORFEAP; AltName:
           Full=Type I restriction enzyme specificity protein
           MPN_290; Short=S protein
 gi|1674242|gb|AAB96193.1| hypothetical protein MPN_290 [Mycoplasma pneumoniae M129]
          Length = 145

 Score = 48.3 bits (113), Expect = 0.003,   Method: Composition-based stats.
 Identities = 23/127 (18%), Positives = 40/127 (31%), Gaps = 9/127 (7%)

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
           Y     V+   I             +   +        S    V     D  +L   +R+
Sbjct: 3   YSKTFRVEEKSITVSARGT----IGVVFYRDFAYLPAVSLICFVPKEEFDIRFLFHALRA 58

Query: 340 YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
               K   A G      L     K   + VP +K+Q +I  +++   +    L E +   
Sbjct: 59  IKFKKQGSATGQ-----LTVAQFKEYGIHVPSLKKQKEIAAILDPLYSFFTDLNEGLPAE 113

Query: 400 IVLLKER 406
           I L K++
Sbjct: 114 IELRKKQ 120


>gi|283796719|ref|ZP_06345872.1| oxidoreductase, FAD/FMN-binding [Clostridium sp. M62/1]
 gi|291075603|gb|EFE12967.1| oxidoreductase, FAD/FMN-binding [Clostridium sp. M62/1]
          Length = 173

 Score = 48.3 bits (113), Expect = 0.003,   Method: Composition-based stats.
 Identities = 15/139 (10%), Positives = 39/139 (28%), Gaps = 5/139 (3%)

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
                 +  +G        + +            +D   ++   I       ++   +  
Sbjct: 27  YMFITPTELHGGYKISSSEKTLTEAGLESIKTNSIDGISVLVGCIGWDMGNVAMCFEKCA 86

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVP 370
               I S  +          +L + + +    +  +++ S  R   L     + + +   
Sbjct: 87  TNQQINS--ITQISEDYSPYFLYYWLSTK--KEYLFSISSVTRTPILSKGVFEEIEIPSI 142

Query: 371 PIKEQFDITNVINVETARI 389
              EQ  I  V+ V   +I
Sbjct: 143 SRSEQDKIAKVLLVLDKKI 161



 Score = 47.1 bits (110), Expect = 0.006,   Method: Composition-based stats.
 Identities = 22/161 (13%), Positives = 49/161 (30%), Gaps = 7/161 (4%)

Query: 29  PIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            IK    + TG+T ++      G D ++I   ++  G      +   +     S  +   
Sbjct: 2   KIKDIGNVVTGKTPQTAHAEFYGGDYMFITPTELHGGYKISSSEKTLTEAGLESIKTNSI 61

Query: 83  KG-QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            G  +L G +G  +    +       + Q   +            +       + + +I 
Sbjct: 62  DGISVLVGCIGWDMGNVAMCFEKCATNQQINSITQISEDYSPYFLYYWLSTKKEYLFSIS 121

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
                          I +P    +EQ  I + ++    +I 
Sbjct: 122 SVTRTPILSKGVFEEIEIPSISRSEQDKIAKVLLVLDKKIK 162


>gi|207859655|ref|YP_002246306.1| type I restriction-modification system methyltransferase
           [Salmonella enterica subsp. enterica serovar Enteritidis
           str. P125109]
 gi|206711458|emb|CAR35843.1| putative Type I restriction-modification system methyltransferase
           [Salmonella enterica subsp. enterica serovar Enteritidis
           str. P125109]
          Length = 192

 Score = 48.3 bits (113), Expect = 0.003,   Method: Composition-based stats.
 Identities = 16/121 (13%), Positives = 42/121 (34%), Gaps = 5/121 (4%)

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS-AYMAVKPHGIDSTYLAWLMR 338
            +    +   +I+      +     + + Q          A + V    I+  YL +   
Sbjct: 56  EKLKINLQTNDILLPLRGERIPAMMIVNQQSTLVTTTNQIAVIRVNSLLINPEYLYYFFN 115

Query: 339 SYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDIT---NVINVETARIDVLVE 394
           S +  +   A+  G    +L  + +  L + +P    Q ++     + + +   ++ L+E
Sbjct: 116 SPEGDEKISALQGGGLVVNLSLKKLLTLEIPIPLRPVQDEVIGLRKIWSEQKKTLEDLIE 175

Query: 395 K 395
            
Sbjct: 176 N 176


>gi|253563523|ref|ZP_04840980.1| restriction modification system DNA specificity subunit
           [Bacteroides sp. 3_2_5]
 gi|251947299|gb|EES87581.1| restriction modification system DNA specificity subunit
           [Bacteroides sp. 3_2_5]
          Length = 151

 Score = 48.3 bits (113), Expect = 0.003,   Method: Composition-based stats.
 Identities = 19/89 (21%), Positives = 32/89 (35%), Gaps = 2/89 (2%)

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDV 362
                          +A       G D  YL + +++  L K+F   GS +  SL  + V
Sbjct: 60  VGKVHYYEQATWAHNTALFVKDFKGNDPKYLYYFLKNLHLDKMFDK-GSSVVPSLDRKVV 118

Query: 363 KRLPVLV-PPIKEQFDITNVINVETARID 390
             L V     I  Q  I  +++    +I+
Sbjct: 119 HSLNVPCHKDIDCQKRIAAILSKIDRKIE 147


>gi|314934937|ref|ZP_07842296.1| probable specificity determinant HsdS [Staphylococcus caprae C87]
 gi|313652867|gb|EFS16630.1| probable specificity determinant HsdS [Staphylococcus caprae C87]
          Length = 242

 Score = 47.9 bits (112), Expect = 0.003,   Method: Composition-based stats.
 Identities = 15/168 (8%), Positives = 45/168 (26%), Gaps = 3/168 (1%)

Query: 225 VGLVPDHWEVKPFFALVTELNRKNTK---LIESNILSLSYGNIIQKLETRNMGLKPESYE 281
                + W+ +    +V   N  + +           ++  ++  + +  N G   +   
Sbjct: 12  FPEFDEEWKKRKLGEVVNYKNGGSFESLVKNHGVYKLITLKSVNTEGKLCNSGKYIDDKC 71

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD 341
              + +   ++                      ++     A+ P     +     + + +
Sbjct: 72  VETLCNDTLVMILSEQAPGLVGMTAIIPNNNEYVLNQRVAALVPKQFIDSQFLSKLINRN 131

Query: 342 LCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
                        +++    V+    L P   EQ  I N  +    +I
Sbjct: 132 QKYFSVRSAGTKVKNISKGHVENFNFLSPNYTEQQKIGNFFSKLDRQI 179



 Score = 40.2 bits (92), Expect = 0.59,   Method: Composition-based stats.
 Identities = 25/210 (11%), Positives = 56/210 (26%), Gaps = 6/210 (2%)

Query: 23  KHWKVVPIKRFTKLNTGRTSES-GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
           + WK   +        G + ES  K+     L  ++S   +    +      D    ++ 
Sbjct: 17  EEWKKRKLGEVVNYKNGGSFESLVKNHGVYKLITLKSVNTEGKLCNSGKYIDDKCVETLC 76

Query: 82  AKGQILYGKLGPYL----RKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
               ++               I  + + + + +   L PK  +        L     +  
Sbjct: 77  NDTLVMILSEQAPGLVGMTAIIPNNNEYVLNQRVAALVPKQFIDS-QFLSKLINRNQKYF 135

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
                G  + +     + N     P   EQ  I         +I+    +     +  + 
Sbjct: 136 SVRSAGTKVKNISKGHVENFNFLSPNYTEQQKIGNFFSKLDRQIELEEEKLELLEQQKRG 195

Query: 198 KKQALVSYIVTKGLNPDVKMKDSGIEWVGL 227
             Q + S  +           D  I+ +  
Sbjct: 196 YIQKIFSQDLRFKDENGNSYPDWSIKKIED 225


>gi|254466444|ref|ZP_05079855.1| restriction endonuclease S subunit [Rhodobacterales bacterium Y4I]
 gi|206687352|gb|EDZ47834.1| restriction endonuclease S subunit [Rhodobacterales bacterium Y4I]
          Length = 201

 Score = 47.9 bits (112), Expect = 0.003,   Method: Composition-based stats.
 Identities = 25/198 (12%), Positives = 61/198 (30%), Gaps = 9/198 (4%)

Query: 229 PDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDP 288
           P+ WE            +                     +      ++     T      
Sbjct: 8   PEGWERLSASEAFEVNPKTPRNDEGIIRYVPMAALSETGMVIGRGPIEEREKSTSVRFRN 67

Query: 289 GEIVFRFIDL---QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCK- 344
           G+ +   I           ++  +  E    ++ ++ ++   + S Y+    R +D  + 
Sbjct: 68  GDTLLARITPCLENGKTGYVQMLEDGEIACGSTEFIVLRQRRVSSYYVYLTARQHDFREN 127

Query: 345 -VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
            +   +GS  RQ ++     R  V VPP      +  + +     +   +  ++Q    L
Sbjct: 128 AIRSMIGSSGRQRVQPSCFDRYSVAVPP----AMLAKLFDEAVGDMFDQIGNLDQQNQKL 183

Query: 404 KERRSSFIAAAVTGQIDL 421
            + R   +   + G+I +
Sbjct: 184 SQARDLLLPRLMNGEIAV 201



 Score = 43.6 bits (101), Expect = 0.062,   Method: Composition-based stats.
 Identities = 30/192 (15%), Positives = 66/192 (34%), Gaps = 10/192 (5%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
           +P+ W+ +      ++N  +T  + + II        S TG  + +     +  +++V  
Sbjct: 7   VPEGWERLSASEAFEVNP-KTPRNDEGIIRYVPMAALSETGMVIGRGPIEEREKSTSVR- 64

Query: 81  FAKGQILYGKLGPYLRK-------AIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV 133
           F  G  L  ++ P L          +        ST+F+VL+ + V    +       D 
Sbjct: 65  FRNGDTLLARITPCLENGKTGYVQMLEDGEIACGSTEFIVLRQRRVSSYYVYLTARQHDF 124

Query: 134 TQR-IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
            +  I ++   +              + +PP     L  E +     +I  L  +  +  
Sbjct: 125 RENAIRSMIGSSGRQRVQPSCFDRYSVAVPPAMLAKLFDEAVGDMFDQIGNLDQQNQKLS 184

Query: 193 ELLKEKKQALVS 204
           +        L++
Sbjct: 185 QARDLLLPRLMN 196


>gi|240047223|ref|YP_002960611.1| hypothetical protein MCJ_000950 [Mycoplasma conjunctivae HRC/581]
 gi|239984795|emb|CAT04772.1| HYPOTHETICAL PROTEIN MCJ_000950 [Mycoplasma conjunctivae]
          Length = 75

 Score = 47.9 bits (112), Expect = 0.003,   Method: Composition-based stats.
 Identities = 14/62 (22%), Positives = 25/62 (40%), Gaps = 4/62 (6%)

Query: 352 GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFI 411
            +  ++ F+D K     VP I EQ +I          ID L+   E  +  ++  + S +
Sbjct: 15  AVVPNIYFKDYKHFEYFVPSINEQEEI----EKVFKNIDNLLNLYELKLQKIEMIKKSLL 70

Query: 412 AA 413
             
Sbjct: 71  DK 72


>gi|238923526|ref|YP_002937042.1| type I restriction-modification system, S subunit [Eubacterium
           rectale ATCC 33656]
 gi|238875201|gb|ACR74908.1| type I restriction-modification system, S subunit [Eubacterium
           rectale ATCC 33656]
          Length = 171

 Score = 47.9 bits (112), Expect = 0.003,   Method: Composition-based stats.
 Identities = 23/170 (13%), Positives = 57/170 (33%), Gaps = 11/170 (6%)

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
           +++L+  +I +      +          + +   E++    DL  +   + S  ++ +  
Sbjct: 1   MINLACIDINRNYRDGQLKYYANDVSADKQLTGNELLIACTDLTRNADIVGSPILVPKIA 60

Query: 316 ITSAYMAVKPH------GIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVL 368
               +              D  YL   +R+           SG     L  + +    + 
Sbjct: 61  QQMTFSMDMAKLEVDNCIFDKYYLYMTLRTKYYHNFIKKYASGTNVLHLNLDGLNWYTMW 120

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
           VPP+  Q    ++I+     ++ ++ +  Q    L + R   +   + GQ
Sbjct: 121 VPPLPLQSQFGHIIHKLQVHMNDILHENRQ----LYDLRDWLLPMLMNGQ 166


>gi|167949252|ref|ZP_02536326.1| Restriction modification system DNA specificity domain [Endoriftia
           persephone 'Hot96_1+Hot96_2']
          Length = 77

 Score = 47.9 bits (112), Expect = 0.003,   Method: Composition-based stats.
 Identities = 8/45 (17%), Positives = 16/45 (35%), Gaps = 4/45 (8%)

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
             K+Q  I + ++      D L+    Q +  LK  +   +    
Sbjct: 5   SQKKQRKIADCLSSM----DALITAHSQKLDALKAHKKGLMQQLF 45


>gi|313904108|ref|ZP_07837488.1| restriction modification system DNA specificity domain [Eubacterium
           cellulosolvens 6]
 gi|313471257|gb|EFR66579.1| restriction modification system DNA specificity domain [Eubacterium
           cellulosolvens 6]
          Length = 169

 Score = 47.9 bits (112), Expect = 0.003,   Method: Composition-based stats.
 Identities = 14/118 (11%), Positives = 35/118 (29%), Gaps = 7/118 (5%)

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD 341
            Y      +  F  I  Q       +    +      A         ++ +L +++   +
Sbjct: 55  GYCNTYNHDGDFALIGRQGALCGNMNFSCGKAYFTEHAVAVKANSSSNTRFLYYMLDKMN 114

Query: 342 LCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
           L +         +  L    + +L  + P  +EQ  +          +D L+   ++ 
Sbjct: 115 LGQYSD---QSAQPGLAVGKLIKLENMFPSKEEQDKVGGF----FEELDNLITLHQRQ 165



 Score = 42.5 bits (98), Expect = 0.13,   Method: Composition-based stats.
 Identities = 20/160 (12%), Positives = 45/160 (28%), Gaps = 17/160 (10%)

Query: 24  HWKVVPIKRFT-KLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            W+   +   T +  +G+         +I   D+E   G+Y    GN  +   +T +   
Sbjct: 15  DWEQRKLSDVTDEFQSGK---------FIAAADIEEA-GEYPVYGGNGLRGYCNTYN--H 62

Query: 83  KGQI-LYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
            G   L G+ G        +      +   + ++           ++L       +    
Sbjct: 63  DGDFALIGRQGALCGNMNFSCGKAYFTEHAVAVKANSSSNTRFLYYMLD---KMNLGQYS 119

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
           + +         +  +    P   EQ  +          I
Sbjct: 120 DQSAQPGLAVGKLIKLENMFPSKEEQDKVGGFFEELDNLI 159


>gi|326626207|gb|EGE32552.1| putative Type I restriction-modification system methyltransferase
           [Salmonella enterica subsp. enterica serovar Dublin str.
           3246]
          Length = 191

 Score = 47.9 bits (112), Expect = 0.003,   Method: Composition-based stats.
 Identities = 17/121 (14%), Positives = 42/121 (34%), Gaps = 5/121 (4%)

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS-AYMAVKPHGIDSTYLAWLMR 338
            +    +   +I+      +     + + Q          A + V    I+  YL +   
Sbjct: 55  EKLKINLQTNDILLPLRGERIPAMMIVNQQSTLVTTTNQIAVIRVNSLLINPEYLYYFFN 114

Query: 339 SYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDIT---NVINVETARIDVLVE 394
           S +  +   A+  G    +L  + +  L + +P    Q ++     + N +   ++ L+E
Sbjct: 115 SPEGDEKISALQGGGLVVNLSLKKLLTLEIPIPLRPVQDEVIGLRKIWNEQKKTLEDLIE 174

Query: 395 K 395
            
Sbjct: 175 N 175


>gi|195873657|ref|ZP_02698466.2| putative type I restriction-modification system specificity subunit
           [Salmonella enterica subsp. enterica serovar Newport
           str. SL317]
 gi|195632642|gb|EDX51096.1| putative type I restriction-modification system specificity subunit
           [Salmonella enterica subsp. enterica serovar Newport
           str. SL317]
          Length = 114

 Score = 47.9 bits (112), Expect = 0.003,   Method: Composition-based stats.
 Identities = 15/81 (18%), Positives = 33/81 (40%), Gaps = 4/81 (4%)

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFD 377
           A + V    I+  YL +   S +  +   A+  G    +L  + +  L + +P    Q +
Sbjct: 18  AVIRVNSLLINPEYLYYFFNSPEGDEKISALQGGGLVVNLSLKKLLTLEIPIPSRPVQDE 77

Query: 378 IT---NVINVETARIDVLVEK 395
           +     + N +   ++ L+E 
Sbjct: 78  VIGLRKIWNEQKKTLEDLIEN 98


>gi|307126720|ref|YP_003878751.1| type I restriction enzyme [Streptococcus pneumoniae 670-6B]
 gi|306483782|gb|ADM90651.1| type I restriction enzyme [Streptococcus pneumoniae 670-6B]
          Length = 202

 Score = 47.9 bits (112), Expect = 0.003,   Method: Composition-based stats.
 Identities = 22/130 (16%), Positives = 46/130 (35%), Gaps = 17/130 (13%)

Query: 7   YPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDV-ESG 59
           YP YK         IP+ W+ +          G+T    +      +I ++ + D+  SG
Sbjct: 25  YPIYK---------IPEAWRYIKFASLVNFRIGKTPPRSEATFWGTEIPWVSISDMPISG 75

Query: 60  TGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDV 119
                 +  +     +  + I  KG +L       + K  I D     +   + + P   
Sbjct: 76  YVTNTRESISKLALKSKKIDISPKGTLLMS-FKLSIGKVAILDIPATHNEAIISIFPYAN 134

Query: 120 LPELLQGWLL 129
              +++ +L+
Sbjct: 135 KENIIRDYLM 144



 Score = 38.2 bits (87), Expect = 2.2,   Method: Composition-based stats.
 Identities = 24/177 (13%), Positives = 50/177 (28%), Gaps = 12/177 (6%)

Query: 225 VGLVPDHWEVKPFFALVTELNRKNTK-----LIESNILSLSYGNIIQKLETRN----MGL 275
           +  +P+ W    F +LV     K           + I  +S  ++       N    +  
Sbjct: 27  IYKIPEAWRYIKFASLVNFRIGKTPPRSEATFWGTEIPWVSISDMPISGYVTNTRESISK 86

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
                +   I   G ++  F         L         II+  +       I   YL  
Sbjct: 87  LALKSKKIDISPKGTLLMSFKLSIGKVAILDIPATHNEAIIS-IFPYANKENIIRDYLMI 145

Query: 336 LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            +              G  ++L    +  L + +   +E   I   +++   ++  L
Sbjct: 146 FLPLISTLGDSKDAIKG--KTLNSTSISELLIPISNHEEMKRIIFKVDLLFQKVSQL 200


>gi|227872202|ref|ZP_03990567.1| conserved hypothetical protein [Oribacterium sinus F0268]
 gi|227841953|gb|EEJ52218.1| conserved hypothetical protein [Oribacterium sinus F0268]
          Length = 135

 Score = 47.9 bits (112), Expect = 0.003,   Method: Composition-based stats.
 Identities = 13/84 (15%), Positives = 21/84 (25%), Gaps = 5/84 (5%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSES---GKDIIYIGLEDVESGTGKYLPKDGNSRQS--DTS 76
           P  W    I     +  G         K    +  ++V +G                  +
Sbjct: 27  PNGWDKYKIGELCDVRDGTHDSPQYYSKGYPLVTSKNVSAGKIDLSDCSLICEDDYQKIN 86

Query: 77  TVSIFAKGQILYGKLGPYLRKAII 100
             S    G IL   +G      I+
Sbjct: 87  QRSKVDYGDILMPMIGTVGNPVIV 110


>gi|148927926|ref|ZP_01811333.1| hypothetical protein TM7_0589 [candidate division TM7 genomosp.
           GTL1]
 gi|147886729|gb|EDK72292.1| hypothetical protein TM7_0589 [candidate division TM7 genomosp.
           GTL1]
          Length = 100

 Score = 47.9 bits (112), Expect = 0.003,   Method: Composition-based stats.
 Identities = 15/64 (23%), Positives = 28/64 (43%)

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAA 414
            SL    +K L +   P+ +Q +I   I  + + I    +++  +    K  R S +A A
Sbjct: 35  ASLNMTSLKNLQLPSIPLAQQKEIVESIVTKLSEIKSARKELIVAHHRSKALRQSILAKA 94

Query: 415 VTGQ 418
             G+
Sbjct: 95  FKGE 98


>gi|227892234|ref|ZP_04010039.1| possible type I restriction-modification system specificity
           determinant protein [Lactobacillus salivarius ATCC
           11741]
 gi|227865956|gb|EEJ73377.1| possible type I restriction-modification system specificity
           determinant protein [Lactobacillus salivarius ATCC
           11741]
          Length = 152

 Score = 47.9 bits (112), Expect = 0.004,   Method: Composition-based stats.
 Identities = 20/110 (18%), Positives = 44/110 (40%), Gaps = 7/110 (6%)

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSY 340
           + Y       ++ R   L N    +     ++    T  +  +  + +   YL + ++  
Sbjct: 39  DNYLYDGESVLIPRKGSLNNIYYVVGKFWTVD----TIFWTIINKNIVLPKYLFYFLKRI 94

Query: 341 DLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
           D  K+          SL  + +  + + VP I++Q DI + I+V   +I+
Sbjct: 95  DFEKL---NVGSAVPSLTQKILNEIQIDVPSIEKQKDIIDKISVFERKIN 141


>gi|330814746|ref|YP_004362921.1| hypothetical protein bgla_4p3410 [Burkholderia gladioli BSR3]
 gi|327374738|gb|AEA66089.1| hypothetical protein bgla_4p3410 [Burkholderia gladioli BSR3]
          Length = 196

 Score = 47.9 bits (112), Expect = 0.004,   Method: Composition-based stats.
 Identities = 21/118 (17%), Positives = 41/118 (34%), Gaps = 5/118 (4%)

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV 345
           + PG+IV      +         +  E       Y+      +   YLAW +        
Sbjct: 63  LSPGDIVLPSRGDRYRAWRFDGTRTGEAVFPMGLYVIRSHAEVHPGYLAWYINQRSAQAQ 122

Query: 346 F-YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL---VEKIEQS 399
               +     ++L    + +L + VP +  Q +I + +     RI  +   + +IEQ 
Sbjct: 123 IALLLTGSNIKALTKAALLKLEIEVPSLDRQHEIAD-LEDTMQRIIAIRNRISEIEQQ 179


>gi|290967798|ref|ZP_06559351.1| hypothetical protein HMPREF0889_1471 [Megasphaera genomosp. type_1
           str. 28L]
 gi|290782157|gb|EFD94732.1| hypothetical protein HMPREF0889_1471 [Megasphaera genomosp. type_1
           str. 28L]
          Length = 284

 Score = 47.5 bits (111), Expect = 0.004,   Method: Composition-based stats.
 Identities = 38/293 (12%), Positives = 86/293 (29%), Gaps = 33/293 (11%)

Query: 114 LQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
                +  E L  +    +  + +     G++    +W+ I +I + +PPLA Q      
Sbjct: 4   NCKNILNREWLYIFFNRPEFDRFVITNSWGSSTEFYNWENICDISIDLPPLAIQQKYVNV 63

Query: 174 IIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWE 233
             A                                +GL       D+ IE +        
Sbjct: 64  YNAMVAN-----------------------QRAYERGLEDLKLTCDAYIEDLRRRIPCEA 100

Query: 234 VKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVF 293
           + P+       N  N       +         ++       +       Y++V P +I F
Sbjct: 101 IGPYIERHDVRNGPNGTKNVMGVS------TTKEFREPTSKVNRNDLANYKVVKPRQISF 154

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSA--YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG- 350
                             E  ++TS     +   + +   YL       +  +       
Sbjct: 155 VQTTHNEKVFCNALNTTDEDIVVTSVNEVFSTNENKLLPEYLVMFFNRTEFDRYARYHSW 214

Query: 351 SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
              R++  ++D+ ++ + +  ++ Q  I + I     +   + EK++  I  +
Sbjct: 215 GSARETFTWDDLVKVQIPIADMEVQRSIVD-IYTVYKKRKAINEKLKAQIKAI 266



 Score = 38.6 bits (88), Expect = 1.7,   Method: Composition-based stats.
 Identities = 14/92 (15%), Positives = 31/92 (33%), Gaps = 8/92 (8%)

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSL-KFEDVKRLPVLVPPIKEQFDITNV 381
              + ++  +L       +  +       G       +E++  + + +PP+  Q    NV
Sbjct: 4   NCKNILNREWLYIFFNRPEFDRFVITNSWGSSTEFYNWENICDISIDLPPLAIQQKYVNV 63

Query: 382 INVETAR-------IDVLVEKIEQSIVLLKER 406
            N   A        ++ L    +  I  L+ R
Sbjct: 64  YNAMVANQRAYERGLEDLKLTCDAYIEDLRRR 95


>gi|237649417|ref|ZP_04523669.1| type I restriction enzyme specificity protein [Streptococcus
           pneumoniae CCRI 1974]
 gi|237821510|ref|ZP_04597355.1| type I restriction enzyme specificity protein [Streptococcus
           pneumoniae CCRI 1974M2]
 gi|303253836|ref|ZP_07339964.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae BS455]
 gi|303270102|ref|ZP_07355808.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae BS458]
 gi|302599200|gb|EFL66218.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae BS455]
 gi|302640364|gb|EFL70805.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae BS458]
          Length = 184

 Score = 47.5 bits (111), Expect = 0.004,   Method: Composition-based stats.
 Identities = 19/119 (15%), Positives = 43/119 (36%), Gaps = 8/119 (6%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDV-ESGTGKYLPKDGNS 70
           I  IP+ W+ +          G+T    +      +I ++ + D+  SG      +  + 
Sbjct: 9   IYEIPEAWRYIKFASLVNFRIGKTPPRSEATFWGTEIPWVSISDMPISGYVTNTRESISK 68

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
               +  + I  KG +L       + K  I D     +   + + P      +++ +L+
Sbjct: 69  LALKSKKIDISPKGTLLMS-FKLSIGKVAILDIPATHNEAIISIFPYANKENIIRDYLM 126



 Score = 42.1 bits (97), Expect = 0.17,   Method: Composition-based stats.
 Identities = 24/177 (13%), Positives = 51/177 (28%), Gaps = 12/177 (6%)

Query: 225 VGLVPDHWEVKPFFALVTELNRKNTK-----LIESNILSLSYGNIIQKLETRN----MGL 275
           +  +P+ W    F +LV     K           + I  +S  ++       N    +  
Sbjct: 9   IYEIPEAWRYIKFASLVNFRIGKTPPRSEATFWGTEIPWVSISDMPISGYVTNTRESISK 68

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
                +   I   G ++  F         L         II+  +       I   YL  
Sbjct: 69  LALKSKKIDISPKGTLLMSFKLSIGKVAILDIPATHNEAIIS-IFPYANKENIIRDYLMI 127

Query: 336 LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            +              G  ++L    +  L + +   +E   I + +++   ++  L
Sbjct: 128 FLPLISTLGDSKDAIKG--KTLNSTSISELLIPISNHEEMKRIISKVDLLFQKVSQL 182


>gi|239906097|ref|YP_002952836.1| hypothetical protein DMR_14590 [Desulfovibrio magneticus RS-1]
 gi|239795961|dbj|BAH74950.1| hypothetical protein [Desulfovibrio magneticus RS-1]
          Length = 188

 Score = 47.5 bits (111), Expect = 0.004,   Method: Composition-based stats.
 Identities = 25/141 (17%), Positives = 54/141 (38%), Gaps = 7/141 (4%)

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKR--SLRSAQVMERGIITS 318
            G +        + L P   +   ++   +++F F           L   Q  ER +   
Sbjct: 42  SGIVSGGSGDIWVELDPSGKQKKYLIRNNDVLFSFRGTGETLGQAGLYIGQNEERVVCGQ 101

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFD 377
           +   ++P  ID  +L + MR     +   A   G R  ++   D++ + V +   +E   
Sbjct: 102 SLCIIRPKAIDGLWLYYFMRRRAARESLLAKSCGNRLMTINLNDLRDVLVEMSSDEE--- 158

Query: 378 ITNVINVETARIDVLVEKIEQ 398
             + I+ +  RI  +  +I++
Sbjct: 159 -VDKIHAKHKRISSIYTEIQE 178



 Score = 38.6 bits (88), Expect = 2.0,   Method: Composition-based stats.
 Identities = 16/145 (11%), Positives = 38/145 (26%), Gaps = 19/145 (13%)

Query: 27  VVPIKRFTKLNTG---RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD--------- 74
              +     +      RT   GKD  +I   +V     + +    +    D         
Sbjct: 2   ETKLGEVADVIRCQLPRTRTGGKD-GWILCREVTQADFEPISGIVSGGSGDIWVELDPSG 60

Query: 75  TSTVSIFAKGQILYGKLGPY------LRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL 128
                +     +L+   G               +   +C     +++PK +    L  ++
Sbjct: 61  KQKKYLIRNNDVLFSFRGTGETLGQAGLYIGQNEERVVCGQSLCIIRPKAIDGLWLYYFM 120

Query: 129 LSIDVTQRIEAICEGATMSHADWKG 153
                 + + A   G  +   +   
Sbjct: 121 RRRAARESLLAKSCGNRLMTINLND 145


>gi|260664497|ref|ZP_05865349.1| restriction endonuclease S subunit [Lactobacillus jensenii
           SJ-7A-US]
 gi|260561562|gb|EEX27534.1| restriction endonuclease S subunit [Lactobacillus jensenii
           SJ-7A-US]
          Length = 256

 Score = 47.5 bits (111), Expect = 0.004,   Method: Composition-based stats.
 Identities = 26/185 (14%), Positives = 65/185 (35%), Gaps = 11/185 (5%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI-IQKLETRNMGLKPESYETYQIVDP 288
           + W+      +  ++ +KN        +  +     I   +         + + Y +V  
Sbjct: 36  EPWKKVKLGEISEKITQKNNNSCSQFPVLTNSAEYGIVYQKDFFDKNIAINTDNYYVVHT 95

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITS-AYMAVKPHGIDSTYLAWLMRSYDLCKVFY 347
            + V+     +           ++ G+++   Y+       +  +  +L       K  Y
Sbjct: 96  EDFVYNPRISKQAPYGPIRVNHLKTGVMSPLYYIFKIKDDFNIGFFEFLFIGNKWHKFMY 155

Query: 348 AMGSGL----RQSLKFEDVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
             G       R ++K +   +LP+ +P  I+EQ  I         +I+ L+   ++ + L
Sbjct: 156 QNGDSGARSDRYAIKDKVFNKLPIYIPQKIEEQKLI----FEINHKINSLLYLQQRKLEL 211

Query: 403 LKERR 407
            K+ +
Sbjct: 212 EKQLK 216



 Score = 45.2 bits (105), Expect = 0.021,   Method: Composition-based stats.
 Identities = 26/189 (13%), Positives = 59/189 (31%), Gaps = 6/189 (3%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           WK V +   ++  T + + S      +     E G          +   +T    +    
Sbjct: 38  WKKVKLGEISEKITQKNNNSCSQFPVLTNSA-EYGIVYQKDFFDKNIAINTDNYYVVHTE 96

Query: 85  QILYGKL----GPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS-IDVTQRIEA 139
             +Y        PY    +     G+ S  + + + KD        +L       + +  
Sbjct: 97  DFVYNPRISKQAPYGPIRVNHLKTGVMSPLYYIFKIKDDFNIGFFEFLFIGNKWHKFMYQ 156

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
             +    S                + +++  ++ I     +I++L+  + R +EL K+ K
Sbjct: 157 NGDSGARSDRYAIKDKVFNKLPIYIPQKIEEQKLIFEINHKINSLLYLQQRKLELEKQLK 216

Query: 200 QALVSYIVT 208
             L    + 
Sbjct: 217 FFLFQNAIP 225


>gi|168492609|ref|ZP_02716752.1| type I restriction enzyme [Streptococcus pneumoniae CDC0288-04]
 gi|221231342|ref|YP_002510494.1| type I restriction-modification system S protein [Streptococcus
           pneumoniae ATCC 700669]
 gi|298229902|ref|ZP_06963583.1| putative type I restriction-modification system S protein
           [Streptococcus pneumoniae str. Canada MDR_19F]
 gi|183573242|gb|EDT93770.1| type I restriction enzyme [Streptococcus pneumoniae CDC0288-04]
 gi|220673802|emb|CAR68304.1| putative type I restriction-modification system S protein
           [Streptococcus pneumoniae ATCC 700669]
          Length = 202

 Score = 47.5 bits (111), Expect = 0.004,   Method: Composition-based stats.
 Identities = 19/119 (15%), Positives = 43/119 (36%), Gaps = 8/119 (6%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDV-ESGTGKYLPKDGNS 70
           I  IP+ W+ +          G+T    +      +I ++ + D+  SG      +  + 
Sbjct: 27  IYEIPEAWRYIKFASLVNFRIGKTPPRSEATFWGTEIPWVSISDMPISGYVTNTRESISK 86

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
               +  + I  KG +L       + K  I D     +   + + P      +++ +L+
Sbjct: 87  LALKSKKIDISPKGTLLMS-FKLSIGKVAILDIPATHNEAIISIFPYANKENIIRDYLM 144



 Score = 42.1 bits (97), Expect = 0.16,   Method: Composition-based stats.
 Identities = 24/177 (13%), Positives = 51/177 (28%), Gaps = 12/177 (6%)

Query: 225 VGLVPDHWEVKPFFALVTELNRKNTK-----LIESNILSLSYGNIIQKLETRN----MGL 275
           +  +P+ W    F +LV     K           + I  +S  ++       N    +  
Sbjct: 27  IYEIPEAWRYIKFASLVNFRIGKTPPRSEATFWGTEIPWVSISDMPISGYVTNTRESISK 86

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
                +   I   G ++  F         L         II+  +       I   YL  
Sbjct: 87  LALKSKKIDISPKGTLLMSFKLSIGKVAILDIPATHNEAIIS-IFPYANKENIIRDYLMI 145

Query: 336 LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            +              G  ++L    +  L + +   +E   I + +++   ++  L
Sbjct: 146 FLPLISTLGDSKDAIKG--KTLNSTSISELLIPISNHEEMKRIISKVDLLFQKVSQL 200


>gi|205355249|ref|YP_002229050.1| type I restriction-modification system methyltransferase
           [Salmonella enterica subsp. enterica serovar Gallinarum
           str. 287/91]
 gi|205275030|emb|CAR40118.1| putative Type I restriction-modification system methyltransferase
           [Salmonella enterica subsp. enterica serovar Gallinarum
           str. 287/91]
          Length = 192

 Score = 47.5 bits (111), Expect = 0.004,   Method: Composition-based stats.
 Identities = 17/121 (14%), Positives = 42/121 (34%), Gaps = 5/121 (4%)

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS-AYMAVKPHGIDSTYLAWLMR 338
            +    +   +I+      +     + + Q          A + V    I+  YL +   
Sbjct: 56  EKLKINLQTNDILLPLRGERIPAMMIVNQQSTLVTTTNQIAVIRVNSLLINPEYLYYFFN 115

Query: 339 SYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDIT---NVINVETARIDVLVE 394
           S +  +   A+  G    +L  + +  L + +P    Q ++     + N +   ++ L+E
Sbjct: 116 SPEGDEKISALQGGGLVVNLSLKKLLTLEIPIPLRPVQDEVIGLRKIWNEQKKTLEDLIE 175

Query: 395 K 395
            
Sbjct: 176 N 176


>gi|183603404|ref|ZP_02964380.1| type I restriction enzyme [Streptococcus pneumoniae SP195]
 gi|183571288|gb|EDT91816.1| type I restriction enzyme [Streptococcus pneumoniae SP195]
 gi|332204530|gb|EGJ18595.1| type I restriction modification DNA specificity domain protein
           [Streptococcus pneumoniae GA47901]
          Length = 240

 Score = 47.5 bits (111), Expect = 0.004,   Method: Composition-based stats.
 Identities = 19/119 (15%), Positives = 43/119 (36%), Gaps = 8/119 (6%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDV-ESGTGKYLPKDGNS 70
           I  IP+ W+ +          G+T    +      +I ++ + D+  SG      +  + 
Sbjct: 65  IYEIPEAWRYIKFASLVNFRIGKTPPRSEATFWGTEIPWVSISDMPISGYVTNTRESISK 124

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
               +  + I  KG +L       + K  I D     +   + + P      +++ +L+
Sbjct: 125 LALKSKKIDISPKGTLLMS-FKLSIGKVAILDIPATHNEAIISIFPYANKENIIRDYLM 182



 Score = 42.1 bits (97), Expect = 0.17,   Method: Composition-based stats.
 Identities = 24/177 (13%), Positives = 51/177 (28%), Gaps = 12/177 (6%)

Query: 225 VGLVPDHWEVKPFFALVTELNRKNTK-----LIESNILSLSYGNIIQKLETRN----MGL 275
           +  +P+ W    F +LV     K           + I  +S  ++       N    +  
Sbjct: 65  IYEIPEAWRYIKFASLVNFRIGKTPPRSEATFWGTEIPWVSISDMPISGYVTNTRESISK 124

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
                +   I   G ++  F         L         II+  +       I   YL  
Sbjct: 125 LALKSKKIDISPKGTLLMSFKLSIGKVAILDIPATHNEAIIS-IFPYANKENIIRDYLMI 183

Query: 336 LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            +              G  ++L    +  L + +   +E   I + +++   ++  L
Sbjct: 184 FLPLISTLGDSKDAIKG--KTLNSTSISELLIPISNHEEMKRIISKVDLLFQKVSQL 238


>gi|67922393|ref|ZP_00515904.1| hypothetical protein CwatDRAFT_3981 [Crocosphaera watsonii WH 8501]
 gi|67855737|gb|EAM50985.1| hypothetical protein CwatDRAFT_3981 [Crocosphaera watsonii WH 8501]
          Length = 219

 Score = 47.5 bits (111), Expect = 0.004,   Method: Composition-based stats.
 Identities = 25/180 (13%), Positives = 57/180 (31%), Gaps = 13/180 (7%)

Query: 222 IEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYE 281
           IE     P H++       +++             +S+S    I+        L   S E
Sbjct: 17  IESGVWNPYHYKENKSNDTLSDFANIKKIKNNKQDISISEFAPIEYKNIPKGELLTFSLE 76

Query: 282 -------TYQIVDPGEIVFRFIDLQNDKRSLRSAQVME------RGIITSAYMAVKPHGI 328
                   Y +V    ++F  +        +                I S ++ + P   
Sbjct: 77  DNSLEEGRYSLVGEQVLLFGTMRAYLGNVLVTPKANWIGKRSPLFYPINSEFVQIIPKDK 136

Query: 329 DSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
              +    ++S            G R  +  ++++++P+ VP ++E+  I N +     +
Sbjct: 137 LLYFWWGYLKSSLFLNQIPTGSGGTRPRVSVDNLEKIPISVPILREREKINNSLIEIAEQ 196


>gi|253991441|ref|YP_003042797.1| type I restriction enzyme, modification subunit [Photorhabdus
           asymbiotica subsp. asymbiotica ATCC 43949]
 gi|253782891|emb|CAQ86056.1| type I restriction enzyme, modification subunit [Photorhabdus
           asymbiotica]
          Length = 721

 Score = 47.5 bits (111), Expect = 0.004,   Method: Composition-based stats.
 Identities = 12/87 (13%), Positives = 30/87 (34%), Gaps = 8/87 (9%)

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
               E       + A+ P  I+  +L   + +    K+   +       L    +++L  
Sbjct: 598 YSEDEFWAADDVHFAITPEYINDRFLFHFLLTQK-NKISGQVRRASIPRLSKSVLEKLEF 656

Query: 368 LVP-------PIKEQFDITNVINVETA 387
            +P        +  Q +I  +++  T+
Sbjct: 657 PIPCPDNPEKSLAIQSEIVRILDKFTS 683


>gi|327390915|gb|EGE89255.1| type I restriction modification DNA specificity domain protein
           [Streptococcus pneumoniae GA04375]
          Length = 201

 Score = 47.5 bits (111), Expect = 0.004,   Method: Composition-based stats.
 Identities = 19/119 (15%), Positives = 43/119 (36%), Gaps = 8/119 (6%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDV-ESGTGKYLPKDGNS 70
           I  IP+ W+ +          G+T    +      +I ++ + D+  SG      +  + 
Sbjct: 26  IYEIPEAWRYIKFASLVNFRIGKTPPRSEATFWGTEIPWVSISDMPISGYVTNTRESISK 85

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
               +  + I  KG +L       + K  I D     +   + + P      +++ +L+
Sbjct: 86  LALKSKKIDISPKGTLLMS-FKLSIGKVAILDIPATHNEAIISIFPYANKENIIRDYLM 143



 Score = 42.1 bits (97), Expect = 0.17,   Method: Composition-based stats.
 Identities = 24/177 (13%), Positives = 51/177 (28%), Gaps = 12/177 (6%)

Query: 225 VGLVPDHWEVKPFFALVTELNRKNTK-----LIESNILSLSYGNIIQKLETRN----MGL 275
           +  +P+ W    F +LV     K           + I  +S  ++       N    +  
Sbjct: 26  IYEIPEAWRYIKFASLVNFRIGKTPPRSEATFWGTEIPWVSISDMPISGYVTNTRESISK 85

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
                +   I   G ++  F         L         II+  +       I   YL  
Sbjct: 86  LALKSKKIDISPKGTLLMSFKLSIGKVAILDIPATHNEAIIS-IFPYANKENIIRDYLMI 144

Query: 336 LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            +              G  ++L    +  L + +   +E   I + +++   ++  L
Sbjct: 145 FLPLISTLGDSKDAIKG--KTLNSTSISELLIPISNHEEMKRIISKVDLLFQKVSQL 199


>gi|329919683|ref|ZP_08276661.1| hypothetical protein HMPREF9210_0205 [Lactobacillus iners SPIN
           1401G]
 gi|328937335|gb|EGG33759.1| hypothetical protein HMPREF9210_0205 [Lactobacillus iners SPIN
           1401G]
          Length = 160

 Score = 47.5 bits (111), Expect = 0.004,   Method: Composition-based stats.
 Identities = 30/156 (19%), Positives = 52/156 (33%), Gaps = 5/156 (3%)

Query: 29  PIKRFTKLNTGR-TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
            +    +    +    +  +  YI  +++    G          Q        F K  +L
Sbjct: 4   KLSDICEYAKEKIKISALDENTYISTKNMLPNKGGIKQATSLPVQE---NTQAFMKNDVL 60

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID-VTQRIEAICEGATM 146
              + PY +K   A F+G CS   LV + K  +      ++L+ D       A  +G  M
Sbjct: 61  VSNIRPYFKKIWFATFNGGCSNDVLVFRAKKGINSRFLHYVLANDSFFNYSMATSKGTKM 120

Query: 147 SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
              D K I    +P      Q  I   +     +I+
Sbjct: 121 PRGDKKAIMAYEVPKLSYRYQGKIAGILEIIDDKIE 156



 Score = 44.4 bits (103), Expect = 0.033,   Method: Composition-based stats.
 Identities = 18/159 (11%), Positives = 41/159 (25%), Gaps = 4/159 (2%)

Query: 233 EVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIV 292
                  +      K           +S  N++               E  Q     +++
Sbjct: 1   MKYKLSDICEYAKEKIKISALDENTYISTKNMLPNKGGIKQATSLPVQENTQAFMKNDVL 60

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
              I     K    +      G      +     GI+S +L +++ +        A   G
Sbjct: 61  VSNIRPYFKKIWFATFNG---GCSNDVLVFRAKKGINSRFLHYVLANDSFFNYSMATSKG 117

Query: 353 L-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
                   + +    V     + Q  I  ++ +   +I+
Sbjct: 118 TKMPRGDKKAIMAYEVPKLSYRYQGKIAGILEIIDDKIE 156


>gi|291529888|emb|CBK95473.1| Type I restriction modification DNA specificity domain [Eubacterium
           siraeum 70/3]
          Length = 240

 Score = 47.5 bits (111), Expect = 0.004,   Method: Composition-based stats.
 Identities = 30/224 (13%), Positives = 65/224 (29%), Gaps = 21/224 (9%)

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS- 258
           QA  +              + G        ++  +            K+  L++  I   
Sbjct: 11  QAWFTSWFVDYEPFPHSYDEDGKPLPPDDWENGILDSCIDFYNGYAFKSDDLLDEPIPES 70

Query: 259 ---LSYGNIIQKLETRNMGLKPESYETYQ------IVDPGEIVFRFIDLQNDKRSLRSA- 308
                 GNI +       G K      +       I+  G+I+    D++ +   L    
Sbjct: 71  FDVFKMGNIKKGGGLNYEGTKSWIEREFCKGLERFILIRGDILMAMTDMKENVALLGHTA 130

Query: 309 --QVMERGIITSAYMAVKPHGI---DSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDV 362
              + ++ I+      ++P+G        +  L  +    +        G++ +L  ED+
Sbjct: 131 LMDIDDKYIVNQRVGLLRPNGFMGISPYQVYLLTNNATFLRELRRHAHIGVQVNLSKEDI 190

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
               V+  P      I      +   +   +      I+ L E 
Sbjct: 191 VNSRVVYAP----KKINQAFATKVKPLFDCISNNNAEILKLTEI 230



 Score = 37.1 bits (84), Expect = 6.1,   Method: Composition-based stats.
 Identities = 21/184 (11%), Positives = 48/184 (26%), Gaps = 21/184 (11%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSESG--------KDIIYIGLEDVESGTGKYLPKDGNSRQS 73
           P  W+   +        G   +S         +      + +++ G G       +  + 
Sbjct: 37  PDDWENGILDSCIDFYNGYAFKSDDLLDEPIPESFDVFKMGNIKKGGGLNYEGTKSWIER 96

Query: 74  DTST---VSIFAKGQILYGKLGPYLRKAII-------ADFDGICSTQFLVLQPKDVL--- 120
           +        I  +G IL          A++        D   I + +  +L+P   +   
Sbjct: 97  EFCKGLERFILIRGDILMAMTDMKENVALLGHTALMDIDDKYIVNQRVGLLRPNGFMGIS 156

Query: 121 PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
           P  +     +    + +          +   + I N  +   P         K+      
Sbjct: 157 PYQVYLLTNNATFLRELRRHAHIGVQVNLSKEDIVNSRVVYAPKKINQAFATKVKPLFDC 216

Query: 181 IDTL 184
           I   
Sbjct: 217 ISNN 220


>gi|212716215|ref|ZP_03324343.1| hypothetical protein BIFCAT_01131 [Bifidobacterium catenulatum DSM
           16992]
 gi|212660860|gb|EEB21435.1| hypothetical protein BIFCAT_01131 [Bifidobacterium catenulatum DSM
           16992]
          Length = 168

 Score = 47.5 bits (111), Expect = 0.004,   Method: Composition-based stats.
 Identities = 19/150 (12%), Positives = 49/150 (32%), Gaps = 6/150 (4%)

Query: 45  GKDIIYIGLEDVESGTGKYLPKDGNS--RQSDTSTVSIFAKGQILYGKLGPYLRKAIIA- 101
             +  Y+ + D++  T ++   D +S    +      +  +G IL+ + G  + K  +  
Sbjct: 19  DGEKKYLRITDIDDRTREFRTDDLSSPDINNPIDDKYLLKEGDILFARTGASVGKTYLYR 78

Query: 102 ---DFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIP 158
                              +     +    L+    Q +    + +     + +   ++ 
Sbjct: 79  ASDGKTYYAGFLIRAHVSDEADAGFIFQSTLTERYKQFVLLTSQRSGQPGINAQEYADLL 138

Query: 159 MPIPPLAEQVLIREKIIAETVRIDTLITER 188
           +P+P L+EQ  I +        I     + 
Sbjct: 139 LPLPSLSEQRRIGKFFSRLDSLITLHQRKY 168



 Score = 46.3 bits (108), Expect = 0.008,   Method: Composition-based stats.
 Identities = 16/125 (12%), Positives = 39/125 (31%), Gaps = 5/125 (4%)

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
                +   ++  G+I+F        K  L  A   +         A      D+ ++  
Sbjct: 47  INNPIDDKYLLKEGDILFARTGASVGKTYLYRASDGKTYYAGFLIRAHVSDEADAGFIFQ 106

Query: 336 LMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
              +    +          +  +  ++   L + +P + EQ  I        +R+D L+ 
Sbjct: 107 STLTERYKQFVLLTSQRSGQPGINAQEYADLLLPLPSLSEQRRIGKF----FSRLDSLIT 162

Query: 395 KIEQS 399
             ++ 
Sbjct: 163 LHQRK 167


>gi|84489294|ref|YP_447526.1| hypothetical protein Msp_0483 [Methanosphaera stadtmanae DSM 3091]
 gi|84372613|gb|ABC56883.1| hypothetical protein Msp_0483 [Methanosphaera stadtmanae DSM 3091]
          Length = 162

 Score = 47.5 bits (111), Expect = 0.004,   Method: Composition-based stats.
 Identities = 16/114 (14%), Positives = 41/114 (35%), Gaps = 6/114 (5%)

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKF 359
            +  S+       +  +++    +K     + Y  + + S    + +      ++  L  
Sbjct: 52  GEDGSIIPTLASGKCWVSNHAHVLKNKKNINLYFLYNILSKIHFEKYN--TGTIQPKLNK 109

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           +  K + + +   KEQ  I +        I   ++KI++ I  LK  +   +  
Sbjct: 110 KTAKNIKIKITSKKEQEKIVDF----MLSIGTKIKKIQKQIKFLKTFKKGLLQK 159


>gi|332655469|ref|ZP_08421206.1| conserved hypothetical protein [Ruminococcaceae bacterium D16]
 gi|332515604|gb|EGJ45217.1| conserved hypothetical protein [Ruminococcaceae bacterium D16]
          Length = 174

 Score = 47.5 bits (111), Expect = 0.004,   Method: Composition-based stats.
 Identities = 21/121 (17%), Positives = 45/121 (37%), Gaps = 5/121 (4%)

Query: 274 GLKPESYETYQIVDPGEIVFRFIDLQNDKRS-LRSAQVMERGIITSAYMAV---KPHGID 329
            +       Y+++  G      + +  D+R  +   +     I++ AY          ++
Sbjct: 42  NVIGTDLSRYKLISKGLFACNPMHVGRDERLPIALYEKDNAAIVSPAYFMFEIIDRDVLN 101

Query: 330 STYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
             YL    R  +  +  + M    +R  + ++D+ R+ + VP    Q +I       T R
Sbjct: 102 EEYLMMWFRRPEFDRECWFMTDGSVRGGITWDDLCRIKLPVPSYARQCEIVESYRAITNR 161

Query: 389 I 389
           I
Sbjct: 162 I 162


>gi|298256071|ref|ZP_06979657.1| type I restriction enzyme specificity protein [Streptococcus
           pneumoniae str. Canada MDR_19A]
          Length = 191

 Score = 47.5 bits (111), Expect = 0.004,   Method: Composition-based stats.
 Identities = 19/119 (15%), Positives = 43/119 (36%), Gaps = 8/119 (6%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDV-ESGTGKYLPKDGNS 70
           I  IP+ W+ +          G+T    +      +I ++ + D+  SG      +  + 
Sbjct: 16  IYEIPEAWRYIKFASLVNFRIGKTPPRSEATFWGTEIPWVSISDMPISGYVTNTRESISK 75

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
               +  + I  KG +L       + K  I D     +   + + P      +++ +L+
Sbjct: 76  LALKSKKIDISPKGTLLMS-FKLSIGKVAILDIPATHNEAIISIFPYANKENIIRDYLM 133



 Score = 42.1 bits (97), Expect = 0.18,   Method: Composition-based stats.
 Identities = 24/177 (13%), Positives = 51/177 (28%), Gaps = 12/177 (6%)

Query: 225 VGLVPDHWEVKPFFALVTELNRKNTK-----LIESNILSLSYGNIIQKLETRN----MGL 275
           +  +P+ W    F +LV     K           + I  +S  ++       N    +  
Sbjct: 16  IYEIPEAWRYIKFASLVNFRIGKTPPRSEATFWGTEIPWVSISDMPISGYVTNTRESISK 75

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
                +   I   G ++  F         L         II+  +       I   YL  
Sbjct: 76  LALKSKKIDISPKGTLLMSFKLSIGKVAILDIPATHNEAIIS-IFPYANKENIIRDYLMI 134

Query: 336 LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            +              G  ++L    +  L + +   +E   I + +++   ++  L
Sbjct: 135 FLPLISTLGDSKDAIKG--KTLNSTSISELLIPISNHEEMKRIISKVDLLFQKVSQL 189


>gi|282601268|ref|ZP_05981251.2| conserved hypothetical protein [Subdoligranulum variabile DSM
           15176]
 gi|282569611|gb|EFB75146.1| conserved hypothetical protein [Subdoligranulum variabile DSM
           15176]
          Length = 196

 Score = 47.5 bits (111), Expect = 0.004,   Method: Composition-based stats.
 Identities = 21/139 (15%), Positives = 42/139 (30%), Gaps = 21/139 (15%)

Query: 277 PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWL 336
            +  +T  +  PG+I+ R          + S             +  + + +   YL WL
Sbjct: 53  SDPLKTEYLTQPGDIIVRLTTPYT-AALIDSTTTGLVVSSNFMIIRTESNTLLPDYLFWL 111

Query: 337 MRSYDLCKVFYAMGSGLRQS-LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
           + +  + +  Y   +    S +K     +    VP I +Q  I                 
Sbjct: 112 LNTPAVKRRIYTSTTSNVLSAVKASFFTQFQFHVPSIAQQERIG---------------- 155

Query: 396 IEQSIVLLKERRSSFIAAA 414
               I  L  R ++ +   
Sbjct: 156 ---QIHKLARRETALLHQL 171


>gi|90962729|ref|YP_536644.1| hypothetical protein LSL_1758b [Lactobacillus salivarius UCC118]
 gi|90821923|gb|ABE00561.1| Hypothetical protein LSL_1758b [Lactobacillus salivarius UCC118]
          Length = 185

 Score = 47.5 bits (111), Expect = 0.004,   Method: Composition-based stats.
 Identities = 25/170 (14%), Positives = 56/170 (32%), Gaps = 3/170 (1%)

Query: 235 KPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFR 294
                LV   +  N+  ++    +L     +          + +      I   G+IV  
Sbjct: 1   MKLNELVKIESGINSVRVKDQNHTLYTIEDVNYDLGHGEDYQHDKASGKSITARGDIVIN 60

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG--SG 352
            +         R+A  M   I       +  + +D  YL +L+   +  +   A      
Sbjct: 61  TVSNLASVVHSRNAGKMLNQIF-LRLNILDENTLDPWYLCYLLNKSEYIRYQEAAIMDGS 119

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
           + + L   +++ L + +P + +Q  +         +  + +EK E    L
Sbjct: 120 VIRKLTKANLEDLEINLPEVVDQKKMGKAYKEIMKKYTLAMEKAELERDL 169


>gi|255322119|ref|ZP_05363266.1| conserved hypothetical protein [Campylobacter showae RM3277]
 gi|255300817|gb|EET80087.1| conserved hypothetical protein [Campylobacter showae RM3277]
          Length = 195

 Score = 47.5 bits (111), Expect = 0.005,   Method: Composition-based stats.
 Identities = 17/169 (10%), Positives = 45/169 (26%), Gaps = 4/169 (2%)

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFI 296
                 E +  +    +   L     +        +  +  E       V  G+I+   +
Sbjct: 16  LSRKKAEAHSPSEHSYKIVSLKSFAEDTYYDDAFADEFISSEQINEDYKVSRGDILL-RL 74

Query: 297 DLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY-AMGSGLRQ 355
              N    +               + V     D  ++A  + S  + K     +      
Sbjct: 75  REPNFAVYIDKDYSDLVYTSLMVRIRVSSDKFDPHFVAHYLNSSAVKKALAPDVSGTTIA 134

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVIN--VETARIDVLVEKIEQSIVL 402
            +    +  + +    ++ Q  I   +N   + + I  ++   +Q    
Sbjct: 135 MISVASINNIKIPTLNLQTQNKIVKYLNLVRQESEILQILMAAKQKYNK 183


>gi|168333674|ref|ZP_02691929.1| type I restriction-modification system, M subunit, putative
           [Epulopiscium sp. 'N.t. morphotype B']
          Length = 604

 Score = 47.5 bits (111), Expect = 0.005,   Method: Composition-based stats.
 Identities = 20/144 (13%), Positives = 46/144 (31%), Gaps = 3/144 (2%)

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
             I         +   +      V  G ++         K  +         I  +    
Sbjct: 449 GEINMATLTTYEVDNRARLDMYRVQEGNLIISNRGTL--KICIVPKHKGNLLISQNFIGL 506

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFY-AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
               G +  Y+   ++S     +          Q +   D+K +P + P  + Q +I + 
Sbjct: 507 RLHKGYNPEYIKQFLQSPLGEYLINTKRAGSASQIINIRDLKEIPFIEPLTQNQTEIIDS 566

Query: 382 INVETARIDVLVEKIEQSIVLLKE 405
            N +  +I   +EK+E  ++ ++ 
Sbjct: 567 YNTKQQQIVTKIEKLELELLTMRN 590


>gi|167644295|ref|YP_001681958.1| hypothetical protein Caul_0323 [Caulobacter sp. K31]
 gi|167346725|gb|ABZ69460.1| hypothetical protein Caul_0323 [Caulobacter sp. K31]
          Length = 493

 Score = 47.5 bits (111), Expect = 0.005,   Method: Composition-based stats.
 Identities = 56/424 (13%), Positives = 127/424 (29%), Gaps = 48/424 (11%)

Query: 29  PIKRFTKL-----NTGRTSESGKDIIYIGLE---DVESGTGKYLPKDGNSRQSDTSTVSI 80
            +    ++       G T        ++      D+     K+L  D      +TS++  
Sbjct: 64  RLGDVARVWQPSRLKGITVSRDFGTPFLAATQAFDLRPIPRKFLSLDRT----ETSSIRF 119

Query: 81  FAKGQILYGKLGPYLRKAIIADFDG--ICSTQFLVLQPKDVLPE-LLQGWLLSIDVTQRI 137
              G IL    G   R  +        + S   L ++PK    +  + G+L S    Q +
Sbjct: 120 AEPGTILVTCSGTVGRATLATTALAKTLISHDLLRVEPKADQSQGWVYGYLRSEKARQMM 179

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
            +   G  + H +   + ++PMP P  A Q              +  +    +   +  E
Sbjct: 180 SSAQYGHIIKHLEPGHLQSLPMPRPRKALQEKFDAHFREILTARNRAVELFQQAEAMFGE 239

Query: 198 KK--------------------QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPF 237
           +                      +    +     NP ++   +  +  G          F
Sbjct: 240 QVGVPAELDVGEQGFSVPASSLMSGRRRLEGIYHNPTIRKLQTHFKERGFATASLLSSGF 299

Query: 238 FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID 297
            A +    ++        ++  S    I     + +            V  G ++     
Sbjct: 300 DAWLPGRFKRIRAEEGLQLVGSSDLFEINPDLPKRIADIDFGDRNSGRVLRGWLLLARSG 359

Query: 298 -LQNDKRSLRSAQVMERG-IITSAYMAVKPHGIDSTYLAWLMRSYDL----CKVFYAMGS 351
                  +L  A     G I++   + + P+   +    ++  +         +  ++  
Sbjct: 360 QTYGVNGTLAIANAFHEGKIVSDHVIRIAPNDDCNARPGYIYTALSHPQLGRPMVKSLAY 419

Query: 352 G-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINV---ETARIDVLVEKIEQSIVLLKERR 407
           G     +   D+  LP++    KE+  I  +        AR D++   + + +    ER 
Sbjct: 420 GSSIPEIDVSDIHNLPIVRLGKKEEDAIAELAEEGADLFARADIIETTMAREVD---ERI 476

Query: 408 SSFI 411
           ++ +
Sbjct: 477 AALL 480


>gi|254994440|ref|ZP_05276630.1| specificity determinant HsdS [Listeria monocytogenes FSL J2-064]
          Length = 165

 Score = 47.5 bits (111), Expect = 0.005,   Method: Composition-based stats.
 Identities = 17/151 (11%), Positives = 47/151 (31%), Gaps = 9/151 (5%)

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
                N  L         ++  G+I F      + K     A  +  GI++  +   +  
Sbjct: 15  YFVEPNKVLSNNIDTRTYVMRKGDIAFEGHSNTDFKFGRFVANDIGPGIVSELFPVYRHK 74

Query: 327 -GIDSTYLAWLMRSYDLCKVFYAMGSGLRQS----LKFEDVKRLPVLVPPIKEQFDITNV 381
              D+ Y    ++   +    Y+       +    L  +      + +   +EQ  I ++
Sbjct: 75  TNYDNNYWKNAIQLEHIMAPIYSKSITSSGNSSNKLDSKHFLNQKIYIADFEEQEKIGSI 134

Query: 382 INVETARIDVLVEKIEQSIVLLKERRSSFIA 412
                 ++D  +   +  +      + +++ 
Sbjct: 135 ----FKQLDNTIILYQNKLNKFDILKKAYLQ 161


>gi|329939285|ref|ZP_08288621.1| type I restriction modification system protein [Streptomyces
           griseoaurantiacus M045]
 gi|329301514|gb|EGG45408.1| type I restriction modification system protein [Streptomyces
           griseoaurantiacus M045]
          Length = 793

 Score = 47.5 bits (111), Expect = 0.005,   Method: Composition-based stats.
 Identities = 31/201 (15%), Positives = 63/201 (31%), Gaps = 17/201 (8%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSES--------GKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           +P  W+ VP+     +  G +             D+  +  + +  G       +     
Sbjct: 587 LPHDWRRVPLGELVDIMAGPSYTRLPAEVRSVAGDLRVVMPKHLREGRIDDRDMEKVGVD 646

Query: 73  SDTS-TVSIFAKGQILYGKLGPYLRKAIIAD--FDGICSTQFLVLQPKDVL------PEL 123
              +        G IL  + G  +  A++       + ST  L L+  +        P  
Sbjct: 647 VARALARFRLRPGDILCVRSGAQMPPALVEKAQDGWLFSTNLLRLRALETDGVPLVLPGY 706

Query: 124 LQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           L  +L   +    ++    G  +       +  +P+P+PPLA Q  I   + A   +I  
Sbjct: 707 LLAYLSLPETVHWLKEYARGTAVPSLSAATLALLPVPLPPLAHQRRISAVLDAVNAQITA 766

Query: 184 LITERIRFIELLKEKKQALVS 204
                    +        L++
Sbjct: 767 HRELIQAATQHRSTLAAHLLT 787


>gi|238898673|ref|YP_002924354.1| putative restriction endonuclease, N6_Mtase domain protein
           [Candidatus Hamiltonella defensa 5AT (Acyrthosiphon
           pisum)]
 gi|229466432|gb|ACQ68206.1| putative restriction endonuclease, N6_Mtase domain protein
           [Candidatus Hamiltonella defensa 5AT (Acyrthosiphon
           pisum)]
          Length = 872

 Score = 47.5 bits (111), Expect = 0.005,   Method: Composition-based stats.
 Identities = 20/124 (16%), Positives = 43/124 (34%), Gaps = 1/124 (0%)

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
           Y     V  G++V   I       ++    +    + +   +     G +   L  ++RS
Sbjct: 726 YNRLYRVSEGDVVISNIAASYGSIAVVPEDLGGCVVSSEYTILRAKPGFEPKMLWAILRS 785

Query: 340 YDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
             +      + +G  R  +K++ +K L +  P    + +    +    A     V   +Q
Sbjct: 786 PVVLSEILLVATGANRTRVKWDAMKSLSIPYPKETTEKEFVESLLKLEALEKETVSSKKQ 845

Query: 399 SIVL 402
            I L
Sbjct: 846 IIDL 849


>gi|149012615|ref|ZP_01833612.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP19-BS75]
 gi|147763420|gb|EDK70357.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP19-BS75]
          Length = 202

 Score = 47.5 bits (111), Expect = 0.005,   Method: Composition-based stats.
 Identities = 19/119 (15%), Positives = 43/119 (36%), Gaps = 8/119 (6%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDV-ESGTGKYLPKDGNS 70
           I  IP+ W+ +          G+T    +      +I ++ + D+  SG      +  + 
Sbjct: 27  IYEIPEAWRYIKFASLVNFRIGKTPPRSEAIFWGTEIPWVSISDMPISGYVTNTRESISK 86

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
               +  + I  KG +L       + K  I D     +   + + P      +++ +L+
Sbjct: 87  LALKSKKIDISPKGTLLMS-FKLSIGKVAILDIPATHNEAIISIFPYANKENIIRDYLM 144



 Score = 41.7 bits (96), Expect = 0.20,   Method: Composition-based stats.
 Identities = 24/177 (13%), Positives = 51/177 (28%), Gaps = 12/177 (6%)

Query: 225 VGLVPDHWEVKPFFALVTELNRKNTK-----LIESNILSLSYGNIIQKLETRN----MGL 275
           +  +P+ W    F +LV     K           + I  +S  ++       N    +  
Sbjct: 27  IYEIPEAWRYIKFASLVNFRIGKTPPRSEAIFWGTEIPWVSISDMPISGYVTNTRESISK 86

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
                +   I   G ++  F         L         II+  +       I   YL  
Sbjct: 87  LALKSKKIDISPKGTLLMSFKLSIGKVAILDIPATHNEAIIS-IFPYANKENIIRDYLMI 145

Query: 336 LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            +              G  ++L    +  L + +   +E   I + +++   ++  L
Sbjct: 146 FLPLISTLGDSKDAIKG--KTLNSTSISELLIPISNHEEMKRIISKVDLLFQKVSQL 200


>gi|320546834|ref|ZP_08041139.1| type I restriction-modification system specificty subunit
           [Streptococcus equinus ATCC 9812]
 gi|320448498|gb|EFW89236.1| type I restriction-modification system specificty subunit
           [Streptococcus equinus ATCC 9812]
          Length = 198

 Score = 47.1 bits (110), Expect = 0.005,   Method: Composition-based stats.
 Identities = 29/149 (19%), Positives = 57/149 (38%), Gaps = 6/149 (4%)

Query: 30  IKRFTKLNTGRTSES---GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQI 86
           +K  T+   G+         +I  + L D+      Y          D+    +  +G I
Sbjct: 18  LKEVTEHFKGKAVSKLSSEGNISVVNLSDMLEIGINYDGLKKIEADEDSVQRYLLQEGDI 77

Query: 87  LYGKLGPYLRKAIIA--DFDGICSTQFLVLQPKDVLP-ELLQGWLLSIDVTQRIEAICEG 143
           L    G   + AI    D+  I S    VL+P   +    ++ +L S    + +E    G
Sbjct: 78  LIASKGTVKKTAIFHEQDYPVIASANITVLRPIADIAGGYIKLFLDSKLGQELLEETNTG 137

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIRE 172
             + + + + I +I +P  P+ +Q  + +
Sbjct: 138 KNVMNLNTQKIVSIEIPKLPVLKQAYLLQ 166


>gi|283956924|ref|ZP_06374397.1| hypothetical protein C1336_000320094 [Campylobacter jejuni subsp.
           jejuni 1336]
 gi|283791650|gb|EFC30446.1| hypothetical protein C1336_000320094 [Campylobacter jejuni subsp.
           jejuni 1336]
          Length = 117

 Score = 47.1 bits (110), Expect = 0.005,   Method: Composition-based stats.
 Identities = 16/111 (14%), Positives = 38/111 (34%), Gaps = 7/111 (6%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           W+V  +    ++++G T    K        I ++ ++D++        +         S 
Sbjct: 4   WEVKKLGDIAEISSGETPSRNKKEYWENGIIPWVKIKDIKENFISTTKEFITENGLKNSL 63

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL 128
             +F KG + Y  L   +    +        +Q  +   K+++ E      
Sbjct: 64  AKLFKKGTLFYSILAICVLIIFVTFIMSKYYSQQAIESYKEIMMENDICQN 114


>gi|237721954|ref|ZP_04552435.1| LOW QUALITY PROTEIN: conserved hypothetical protein [Bacteroides
           sp. 2_2_4]
 gi|229448823|gb|EEO54614.1| LOW QUALITY PROTEIN: conserved hypothetical protein [Bacteroides
           sp. 2_2_4]
          Length = 191

 Score = 47.1 bits (110), Expect = 0.005,   Method: Composition-based stats.
 Identities = 32/169 (18%), Positives = 67/169 (39%), Gaps = 8/169 (4%)

Query: 26  KVVPIKRFTKLNTGR--TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           K V +K    + +G    ++S  ++ Y+ ++DV S       +      +  +       
Sbjct: 7   KKVTLKDIAIMQSGIYMKTDSQGEVRYLQVKDVNSENKLDYTQIATVINTGINDKHWLKN 66

Query: 84  GQILYGKLGPYLRKAII--ADFDGICSTQFLVLQP--KDVLPELLQGWLLSIDVTQRIEA 139
           G +L+   G           +   I S+ F++++P   ++LPE L  +L +  +   ++ 
Sbjct: 67  GDLLFAAKGGSNYCIQYEGTERSTIASSSFIIIRPVISNILPEFLCCFLNTSSILGMLKN 126

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK--IIAETVRIDTLIT 186
              G  +       +G I + IP +  Q L+ E   +  E   I + I 
Sbjct: 127 AAVGTGIQVIPQSVMGEIQLDIPSIEVQRLVVEMDRLRKEGECIRSEID 175



 Score = 45.9 bits (107), Expect = 0.014,   Method: Composition-based stats.
 Identities = 21/176 (11%), Positives = 56/176 (31%), Gaps = 9/176 (5%)

Query: 240 LVTELNRKNTKLIESNILSLSYGNIIQKLETR-NMGLKPESYETYQIVDPGEIVFRFIDL 298
           + + +  K     E   L +   N   KL+      +          +  G+++F     
Sbjct: 17  MQSGIYMKTDSQGEVRYLQVKDVNSENKLDYTQIATVINTGINDKHWLKNGDLLFAAKGG 76

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSL 357
            N        +       +   +      I   +L   + +  +  +      G   Q +
Sbjct: 77  SNYCIQYEGTERSTIASSSFIIIRPVISNILPEFLCCFLNTSSILGMLKNAAVGTGIQVI 136

Query: 358 KFEDVKRLPVLVPPIKEQFDIT--NVINVE----TARIDVLVEKIEQSIVLLKERR 407
               +  + + +P I+ Q  +   + +  E     + ID+L + ++  + L+   +
Sbjct: 137 PQSVMGEIQLDIPSIEVQRLVVEMDRLRKEGECIRSEIDILKQSLQDQL-LMDSLK 191


>gi|309807507|ref|ZP_07701465.1| conserved hypothetical protein [Lactobacillus iners LactinV 01V1-a]
 gi|308169248|gb|EFO71308.1| conserved hypothetical protein [Lactobacillus iners LactinV 01V1-a]
          Length = 198

 Score = 47.1 bits (110), Expect = 0.005,   Method: Composition-based stats.
 Identities = 14/92 (15%), Positives = 30/92 (32%), Gaps = 4/92 (4%)

Query: 330 STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
           S Y  +  +               +  +   D+K++ VLVP          +       +
Sbjct: 106 SPYYEFTNQILHRIDYSSINRGSTQPLITQGDMKKVVVLVPDEDT----LAIFEKFAGSL 161

Query: 390 DVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
               E      V L   R + +   ++G++D+
Sbjct: 162 MAKWEANNNENVKLASLRDTLLPKLMSGELDV 193


>gi|154252794|ref|YP_001413618.1| hypothetical protein Plav_2349 [Parvibaculum lavamentivorans DS-1]
 gi|154156744|gb|ABS63961.1| conserved hypothetical protein [Parvibaculum lavamentivorans DS-1]
          Length = 201

 Score = 47.1 bits (110), Expect = 0.005,   Method: Composition-based stats.
 Identities = 22/130 (16%), Positives = 46/130 (35%), Gaps = 6/130 (4%)

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM-AVKPHGIDSTYLAWLM 337
                 +V  G++VFR    +N   +L    +     +    +   K   +   YLAW +
Sbjct: 53  DVAERYMVSAGDVVFRSRGDRNTAAALDGCFIEPALALQPLLILRPKRDAVLPEYLAWAI 112

Query: 338 RSYDLCKVFYAMGSGLRQS-LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL---V 393
                 + F     G     +    +  L + VP ++ Q  I   ++    R + L   +
Sbjct: 113 NQPSAQRHFDEGARGTNIRMVPKSCLDDLDIDVPDLEAQRRIVA-VDALAERENQLALVL 171

Query: 394 EKIEQSIVLL 403
            + ++ +  L
Sbjct: 172 AEKKRQLSRL 181



 Score = 38.6 bits (88), Expect = 2.1,   Method: Composition-based stats.
 Identities = 23/156 (14%), Positives = 48/156 (30%), Gaps = 11/156 (7%)

Query: 29  PIKRFTKLNTGRT------SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            +     +  G T          + +  I L DV +    +  +       D +   + +
Sbjct: 2   RLTEVCSIFPGYTARARLEPAGDRGMAAIQLRDVSADGLAHPDELIRVDLGDVAERYMVS 61

Query: 83  KGQILYGKLGPYLRKA---IIADFDGICSTQFLVLQPKDV--LPELLQGWLLSIDVTQRI 137
            G +++   G     A          +     L+L+PK    LPE L   +      +  
Sbjct: 62  AGDVVFRSRGDRNTAAALDGCFIEPALALQPLLILRPKRDAVLPEYLAWAINQPSAQRHF 121

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
           +    G  +       + ++ + +P L  Q  I   
Sbjct: 122 DEGARGTNIRMVPKSCLDDLDIDVPDLEAQRRIVAV 157


>gi|13358009|ref|NP_078283.1| type I restriction enzyme S protein (fragment) [Ureaplasma parvum
           serovar 3 str. ATCC 700970]
 gi|11357072|pir||D82889 type I restriction enzyme S protein, truncated homolog UU446
           [imported] - Ureaplasma urealyticum
 gi|6899438|gb|AAF30858.1|AE002141_4 type I restriction enzyme S protein (fragment) [Ureaplasma parvum
           serovar 3 str. ATCC 700970]
          Length = 149

 Score = 47.1 bits (110), Expect = 0.005,   Method: Composition-based stats.
 Identities = 18/112 (16%), Positives = 34/112 (30%), Gaps = 5/112 (4%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           IP +W  V +   + + +G + +S K     I  I + D +S                 +
Sbjct: 32  IPNNWIWVKLNNISNVISGYSFKSSKYTSSGIRIIRISDFDSKEVDNNEPIFYEYNEKFN 91

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL 128
           +  I     I+    G  + K II            V + +         + 
Sbjct: 92  SYKI-ENNDIILVMTGGTVGKNIIIKKANDYYLNQRVARIRTFNVNYNYIYY 142


>gi|322387159|ref|ZP_08060769.1| type I restriction enzyme EcoKI specificity protein [Streptococcus
           infantis ATCC 700779]
 gi|321141688|gb|EFX37183.1| type I restriction enzyme EcoKI specificity protein [Streptococcus
           infantis ATCC 700779]
          Length = 210

 Score = 47.1 bits (110), Expect = 0.005,   Method: Composition-based stats.
 Identities = 32/183 (17%), Positives = 62/183 (33%), Gaps = 17/183 (9%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           G IP +W V+ IK    +NTG + +        K +  I   +++      L  D     
Sbjct: 26  GNIPMNWVVIKIKDIFSINTGLSYKKGDLSINNKGVRIIRGGNIKPLEFSLLDNDYYIDT 85

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIA-----DFDGICSTQFLVLQPKDVLPELLQGW 127
              S+  ++ K   L   +   L           D+DG+ +  F+         E+   +
Sbjct: 86  QFISSEQVYLKHNQLITPVSTSLEHIGKFARIDKDYDGVVAGGFIFQLTPFESSEITSKF 145

Query: 128 LLSI------DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
           LL            +      G  + +     +  + +P+ P   Q LI +K+     ++
Sbjct: 146 LLFNLSSPLFYKQLKSITKLSGQALYNIPKTTLSELLIPLAPFEVQELITQKVEKLFEKV 205

Query: 182 DTL 184
              
Sbjct: 206 SQF 208



 Score = 44.8 bits (104), Expect = 0.025,   Method: Composition-based stats.
 Identities = 23/204 (11%), Positives = 60/204 (29%), Gaps = 18/204 (8%)

Query: 202 LVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
           L+   +T G    +        + G +P +W V     + +     + K  + +I +   
Sbjct: 2   LIGKKITGGQIDYLLFFCDYGSYYGNIPMNWVVIKIKDIFSINTGLSYKKGDLSINN-KG 60

Query: 262 GNIIQKLETRNMGLKPESYETYQ----------IVDPGEIVFRFIDLQNDKRSLRSAQVM 311
             II+    + +       + Y            +   +++                   
Sbjct: 61  VRIIRGGNIKPLEFSLLDNDYYIDTQFISSEQVYLKHNQLITPVSTSLEHIGKFARIDKD 120

Query: 312 ERGIITSAYMA----VKPHGIDSTYLAWLMRSYDLCKVFY---AMGSGLRQSLKFEDVKR 364
             G++   ++      +   I S +L + + S    K       +      ++    +  
Sbjct: 121 YDGVVAGGFIFQLTPFESSEITSKFLLFNLSSPLFYKQLKSITKLSGQALYNIPKTTLSE 180

Query: 365 LPVLVPPIKEQFDITNVINVETAR 388
           L + + P + Q  IT  +     +
Sbjct: 181 LLIPLAPFEVQELITQKVEKLFEK 204


>gi|319744116|gb|EFV96489.1| type I restriction-modification system [Streptococcus agalactiae
           ATCC 13813]
          Length = 145

 Score = 47.1 bits (110), Expect = 0.005,   Method: Composition-based stats.
 Identities = 15/95 (15%), Positives = 28/95 (29%)

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR 354
              L   K SL +     +   T   +       +     +L     +  +         
Sbjct: 47  KSVLIPRKGSLGNLFFANKPFWTVDTLFYTEIDENILMPEFLFYKLKMFNLASMNVGSAV 106

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
            SL    +  L + +P  + Q  I N++     RI
Sbjct: 107 PSLTTAILNALELDIPSFEVQSQIVNILKAFDERI 141



 Score = 40.5 bits (93), Expect = 0.49,   Method: Composition-based stats.
 Identities = 20/153 (13%), Positives = 45/153 (29%), Gaps = 17/153 (11%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
            +    K+  G+  +   D                +P  G+         +++ K  +L 
Sbjct: 6   KLGEVAKIRYGKDHKKLDD--------------GNIPVYGSGGIMRYVDTALYDKKSVLI 51

Query: 89  GKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSH 148
            + G                T F     +++L      + L +     + ++  G+ +  
Sbjct: 52  PRKGSLGNLFFANKPFWTVDTLFYTEIDENILMPEFLFYKLKMF---NLASMNVGSAVPS 108

Query: 149 ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
                +  + + IP    Q  I   + A   RI
Sbjct: 109 LTTAILNALELDIPSFEVQSQIVNILKAFDERI 141


>gi|332877052|ref|ZP_08444803.1| hypothetical protein HMPREF9074_00529 [Capnocytophaga sp. oral
           taxon 329 str. F0087]
 gi|332684942|gb|EGJ57788.1| hypothetical protein HMPREF9074_00529 [Capnocytophaga sp. oral
           taxon 329 str. F0087]
          Length = 93

 Score = 47.1 bits (110), Expect = 0.005,   Method: Composition-based stats.
 Identities = 16/87 (18%), Positives = 39/87 (44%), Gaps = 7/87 (8%)

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
            ID  +L + M+S    K    + + G  ++    D+  +   +P +  Q +I+N+++V 
Sbjct: 7   NIDVEFLYYFMQSSYFQKEVERIVTEGTMKTAYLRDINHIKCPIPDLDRQKEISNLLSVL 66

Query: 386 TARIDVLVEKIEQS-IVLLKERRSSFI 411
                 L E +E+  +   + ++   +
Sbjct: 67  -----SLKEDVEKQLLQKYQIQKQYLL 88


>gi|269797183|ref|YP_003311083.1| N-6 DNA methylase [Veillonella parvula DSM 2008]
 gi|269093812|gb|ACZ23803.1| N-6 DNA methylase [Veillonella parvula DSM 2008]
          Length = 577

 Score = 47.1 bits (110), Expect = 0.005,   Method: Composition-based stats.
 Identities = 18/132 (13%), Positives = 43/132 (32%), Gaps = 8/132 (6%)

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW---L 336
              + ++D    +                            + + P   +   L +    
Sbjct: 440 KRKFTLLDNDTWLLGRTSPFRSNMLYVEGNDKLIANGNQFSITILPKYKNQYLLPYLALY 499

Query: 337 MRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
             S    +       G L +SL  +D+K L +    I+ Q D+ N I      I+  ++ 
Sbjct: 500 FNSKAGREQIERFAVGQLIKSLSLKDLKTLQIPRVSIERQRDVVNRI----RMIETEIKT 555

Query: 396 IEQSIVLLKERR 407
           +++ +  L +++
Sbjct: 556 VKEQLKTLNQQK 567



 Score = 39.4 bits (90), Expect = 1.2,   Method: Composition-based stats.
 Identities = 24/172 (13%), Positives = 49/172 (28%), Gaps = 17/172 (9%)

Query: 28  VPIKRFTKLNTGRTSESGK----------DIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           VP+     +N G    S +           + Y+  +D +     Y        +     
Sbjct: 383 VPLGEICNINRGLVISSKELDDFVTDEDTGVRYLYTKDADGDAVDYTQSPFIDVEKLKRK 442

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFD-------GICSTQFLVLQPKDVLPELLQGWLLS 130
            ++      L G+  P+    +  + +          S   L       L   L  +  S
Sbjct: 443 FTLLDNDTWLLGRTSPFRSNMLYVEGNDKLIANGNQFSITILPKYKNQYLLPYLALYFNS 502

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
               ++IE    G  +     K +  + +P   +  Q  +  +I      I 
Sbjct: 503 KAGREQIERFAVGQLIKSLSLKDLKTLQIPRVSIERQRDVVNRIRMIETEIK 554


>gi|88860310|ref|ZP_01134948.1| type I restriction-modification system, M subunit, putative
           [Pseudoalteromonas tunicata D2]
 gi|88817508|gb|EAR27325.1| type I restriction-modification system, M subunit, putative
           [Pseudoalteromonas tunicata D2]
          Length = 204

 Score = 47.1 bits (110), Expect = 0.006,   Method: Composition-based stats.
 Identities = 12/122 (9%), Positives = 37/122 (30%), Gaps = 5/122 (4%)

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
             I     + + +K        ++  G++V            +         + T+ ++ 
Sbjct: 48  GYISTESLQRIEVKEGKKIDKFLLKSGDVVLLARGQSMKCCIVTEEVAKHNLVATANFIV 107

Query: 323 VKPHGIDSTYL-AWLMRSYDLCKVFY----AMGSGLRQSLKFEDVKRLPVLVPPIKEQFD 377
           ++               S    K       +  + + +S+    +K++ +  P ++ Q  
Sbjct: 108 IRIKSGLKAEFIVSYFNSPLGKKALNHSSVSSSTNVIKSISLSGLKKINIKFPTVEVQNQ 167

Query: 378 IT 379
           I 
Sbjct: 168 IA 169


>gi|227529437|ref|ZP_03959486.1| possible restriction modification system DNA specificity subunit
           [Lactobacillus vaginalis ATCC 49540]
 gi|227350647|gb|EEJ40938.1| possible restriction modification system DNA specificity subunit
           [Lactobacillus vaginalis ATCC 49540]
          Length = 171

 Score = 47.1 bits (110), Expect = 0.006,   Method: Composition-based stats.
 Identities = 18/151 (11%), Positives = 48/151 (31%), Gaps = 10/151 (6%)

Query: 246 RKNTKLIESNILSLS------YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQ 299
           RK        I  ++      Y  +      R++  +     + +++    ++       
Sbjct: 21  RKKQYYANKGIAWITPKDLSGYSKMYISHGARDISQEGLDNSSAKLLPKDTVLVSSRAPI 80

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKF 359
                  +     +G  +   +      +   YL +LM +    ++         + +  
Sbjct: 81  GYVALAANKITTNQGFKS---IVPNTDIVLPKYLYYLMLTKK-DELENVSSGSTFKEVSG 136

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETARID 390
             +K   V +P + +Q +I   I   T +I+
Sbjct: 137 RVMKGFEVDIPSLDKQANIIQKIEPITRKIE 167


>gi|168308225|ref|ZP_02690900.1| reStriction-modification enzyme mpuuiii s subunit [Ureaplasma
           parvum serovar 1 str. ATCC 27813]
 gi|171902622|gb|EDT48911.1| reStriction-modification enzyme mpuuiii s subunit [Ureaplasma
           parvum serovar 1 str. ATCC 27813]
          Length = 202

 Score = 47.1 bits (110), Expect = 0.006,   Method: Composition-based stats.
 Identities = 16/159 (10%), Positives = 52/159 (32%), Gaps = 7/159 (4%)

Query: 254 SNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
             I S    N I      +   K      Y      +  F  I            +  + 
Sbjct: 40  QIINSKYIDNNIGSYPVISSNTKNNEIFGYINSYMYDGEFITISADGAYAGTVFLENGKF 99

Query: 314 GIITSAYMAVKPHG----IDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
            I    ++ +K        ++ ++ ++++         +     R +++   +K + + +
Sbjct: 100 SITNVCFILIKNKDIDFKFNNKFVYYILKKEQEINRLKSQVGSSRPAVREYSLKEIKINL 159

Query: 370 PPIKEQF---DITNVINVETARIDVLVEKIEQSIVLLKE 405
           P ++ Q     I   +   + + + + + +  S++ + +
Sbjct: 160 PNMEIQEEFSKIVEPLLNLSTKANKIEKILNDSLLKITK 198


>gi|322380438|ref|ZP_08054640.1| type I restriction modification protein [Helicobacter suis HS5]
 gi|321147149|gb|EFX41847.1| type I restriction modification protein [Helicobacter suis HS5]
          Length = 317

 Score = 47.1 bits (110), Expect = 0.006,   Method: Composition-based stats.
 Identities = 20/198 (10%), Positives = 54/198 (27%), Gaps = 9/198 (4%)

Query: 214 DVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ-KLETRN 272
             + K +  E +     H  +K    +   +   +       +  +   N+    L    
Sbjct: 112 YYQEKYTHNENLIKSHPHARLKDLVRIKKSIEPGSDAYKSVGVPFVRVSNLSPFDLSAST 171

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
           + L P+           E++F           +     +              + I   Y
Sbjct: 172 IFLDPKRDLESLYPKQNEVLFSKDGSIGIAYCVPQDLKVVLSSAILRLEIKDCNIISPHY 231

Query: 333 LAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDI-------TNVINV 384
           L+ ++ S  +           +   LK   +  L + +   + Q +I        ++   
Sbjct: 232 LSLVLNSQVVKLQVERESIGSVIAHLKLSKISNLLIPLLDQQIQQNIEIKLKKSADLRTQ 291

Query: 385 ETARIDVLVEKIEQSIVL 402
               +     ++E+ +  
Sbjct: 292 SFKLLKRAKTEVERQLTH 309


>gi|293115501|ref|ZP_05791808.2| putative type I restriction-modification system, modification
           subunit [Butyrivibrio crossotus DSM 2876]
 gi|292809619|gb|EFF68824.1| putative type I restriction-modification system, modification
           subunit [Butyrivibrio crossotus DSM 2876]
          Length = 587

 Score = 47.1 bits (110), Expect = 0.006,   Method: Composition-based stats.
 Identities = 16/153 (10%), Positives = 47/153 (30%), Gaps = 4/153 (2%)

Query: 256 ILSLSYGNIIQKLETRNMGLKPE--SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER 313
              L   NI   + + ++    E    +    +    +V                +  + 
Sbjct: 429 YQYLMLANIQDGIISEDLPYLKELDKKQEKYCIKNNSLVISKNGAPVKVAVAYVEKGKQI 488

Query: 314 GIITSAYMAVKPHGI-DSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPP 371
               + Y+        D  Y+   + S +       +       ++  + +K++ +  P 
Sbjct: 489 LANGNLYIIELDETKADPYYVKAYLESENGAIALSRVTVGATLPNIPVDGLKKVLIPNPD 548

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLK 404
           +  Q  +      +   I VL  +++++   L+
Sbjct: 549 MDTQKKVAEKYLTKVDEIKVLKYRLQKATSDLR 581


>gi|255527618|ref|ZP_05394480.1| restriction modification system DNA specificity domain protein
           [Clostridium carboxidivorans P7]
 gi|296187661|ref|ZP_06856055.1| type I restriction modification DNA specificity domain protein
           [Clostridium carboxidivorans P7]
 gi|255508690|gb|EET85068.1| restriction modification system DNA specificity domain protein
           [Clostridium carboxidivorans P7]
 gi|296047618|gb|EFG87058.1| type I restriction modification DNA specificity domain protein
           [Clostridium carboxidivorans P7]
          Length = 191

 Score = 47.1 bits (110), Expect = 0.006,   Method: Composition-based stats.
 Identities = 27/162 (16%), Positives = 62/162 (38%), Gaps = 16/162 (9%)

Query: 249 TKLIESNILSLSYGNIIQKLETRN----MGLKPESYETYQ---IVDPGEIVF--RFIDLQ 299
              IE     +  GNI+      N         +          ++ G+I+   R     
Sbjct: 33  MDYIEEGTPVIRIGNILSDGILENNMENYVFVYDDVNKDFPLTTIELGDILMAVRGDGSA 92

Query: 300 NDKRSLRSAQVMERGIITSAY--MAVKPHGIDSTYLAWLMRSYDLCKVFYAM-GSGLRQS 356
             +  L + + +    I+     +  K + +++ YL W + S    +   A      +++
Sbjct: 93  AKRIGLVTTEKLIGANISPNLLRIKAKENVVNNVYLFWYLISDVGQRRLDAYVNKTAKKN 152

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
           +  +D+K++   VP I+ Q    + +N    ++D L  K+++
Sbjct: 153 IAAKDIKKVVTPVPLIELQNQFADFVN----QVDKLKFKMQR 190



 Score = 37.9 bits (86), Expect = 3.2,   Method: Composition-based stats.
 Identities = 26/179 (14%), Positives = 51/179 (28%), Gaps = 17/179 (9%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDI-----IYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           K W+ V +     +     +  G D        I + ++ S        +      D   
Sbjct: 10  KGWEEVELSNVCSVIHRYPTFYGMDYIEEGTPVIRIGNILSDGILENNMENYVFVYDDVN 69

Query: 78  V----SIFAKGQILYGKLGP-----YLRKAIIADFDGI-CSTQFLVLQPKDV--LPELLQ 125
                +    G IL    G       +         G   S   L ++ K+       L 
Sbjct: 70  KDFPLTTIELGDILMAVRGDGSAAKRIGLVTTEKLIGANISPNLLRIKAKENVVNNVYLF 129

Query: 126 GWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
            +L+S    +R++A        +   K I  +  P+P +  Q    + +         +
Sbjct: 130 WYLISDVGQRRLDAYVNKTAKKNIAAKDIKKVVTPVPLIELQNQFADFVNQVDKLKFKM 188


>gi|291528112|emb|CBK93698.1| Type I restriction modification DNA specificity domain [Eubacterium
           rectale M104/1]
          Length = 191

 Score = 47.1 bits (110), Expect = 0.006,   Method: Composition-based stats.
 Identities = 22/137 (16%), Positives = 47/137 (34%), Gaps = 6/137 (4%)

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME--RGIITS 318
           + N     E  ++    E  +    +  G+++        D+ ++    V +  +   + 
Sbjct: 39  FNNYFLPDELFDLMDTNEKEQEIYSIKAGDVLITRTSETIDELAMSCVAVKDYPKATYSG 98

Query: 319 AYMAVKPHGI---DSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKE 374
               ++P         Y+A+  RS    K         LR S   +    L V +P  +E
Sbjct: 99  FTKRLRPKKEGIAYPKYMAFYFRSELFRKAVTNNAFMTLRASFNEDIFTFLDVYLPIYEE 158

Query: 375 QFDITNVINVETARIDV 391
           Q  I +++     +I  
Sbjct: 159 QVRIGDMLYAVECKIQK 175


>gi|126661684|ref|ZP_01732688.1| hypothetical Type I restriction enzyme EcoEIspecificity protein (S
           protein) [Cyanothece sp. CCY0110]
 gi|126617032|gb|EAZ87897.1| hypothetical Type I restriction enzyme EcoEIspecificity protein (S
           protein) [Cyanothece sp. CCY0110]
          Length = 273

 Score = 46.7 bits (109), Expect = 0.007,   Method: Composition-based stats.
 Identities = 28/149 (18%), Positives = 54/149 (36%), Gaps = 10/149 (6%)

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKR--SLRSAQVMERGIITSAYMAVK 324
           K+         ++      +  G+      +  +     S+   ++ E  +    Y+ VK
Sbjct: 118 KILPTKFTEDTKNNIENYFIQEGDFFVSRGNTIDLVALASVVEEEISEDILFPDLYIKVK 177

Query: 325 PHG--IDSTYLAWLMRSYDLCKVFYAMGSG---LRQSLKFEDVKRLPVLVPPIKEQFDIT 379
                ID  YLA L  S+     F  +  G       +   ++    + +P IK+Q  I 
Sbjct: 178 LDETVIDKKYLALLFNSFFGRLYFKYVSKGKNQTMVKISSRELYNFYLPIPDIKKQKKIV 237

Query: 380 NVINVET---ARIDVLVEKIEQSIVLLKE 405
             I  +    ++I+  +EK    I L+ E
Sbjct: 238 EGITDKIDEQSKINKKIEKNIAKINLIIE 266


>gi|160945577|ref|ZP_02092803.1| hypothetical protein FAEPRAM212_03106 [Faecalibacterium prausnitzii
           M21/2]
 gi|158443308|gb|EDP20313.1| hypothetical protein FAEPRAM212_03106 [Faecalibacterium prausnitzii
           M21/2]
          Length = 156

 Score = 46.7 bits (109), Expect = 0.007,   Method: Composition-based stats.
 Identities = 10/74 (13%), Positives = 26/74 (35%), Gaps = 3/74 (4%)

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
           + +       H  D  ++ + +++ +  K      +     +    V    V  P  + Q
Sbjct: 74  LNTTLYVENFHENDEKFVYYFLKTLEWKKF---ASASAVPGINRNTVHIEIVRFPDFETQ 130

Query: 376 FDITNVINVETARI 389
             I +V++    +I
Sbjct: 131 QKIASVLSTIDKKI 144



 Score = 39.0 bits (89), Expect = 1.5,   Method: Composition-based stats.
 Identities = 18/157 (11%), Positives = 44/157 (28%), Gaps = 16/157 (10%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           WK+  +  F  L  G      K          ++G        G +    T   ++    
Sbjct: 4   WKIDELGEFVTLKRGYDLPQQKR---------KNGEIPIFSSSGVT---GTHNEAMVEAP 51

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            ++ G+ G               +T   V    +   + +  +L +++     +     +
Sbjct: 52  GVITGRYGTIGEVFFAETSFWPLNTTLYVENFHENDEKFVYYFLKTLE----WKKFASAS 107

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
            +   +   +    +  P    Q  I   +     +I
Sbjct: 108 AVPGINRNTVHIEIVRFPDFETQQKIASVLSTIDKKI 144


>gi|300215353|gb|ADJ79766.1| Putative uncharacterized protein [Lactobacillus salivarius CECT
           5713]
          Length = 185

 Score = 46.7 bits (109), Expect = 0.007,   Method: Composition-based stats.
 Identities = 25/170 (14%), Positives = 56/170 (32%), Gaps = 3/170 (1%)

Query: 235 KPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFR 294
                LV   +  N+  ++    +L     +          + +      I   G+IV  
Sbjct: 1   MKLNELVKIESGINSVRVKDQNYTLYTIEDVNYDLGHGEDYQHDKASGKSITARGDIVIN 60

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG--SG 352
            +         R+A  M   I       +  + +D  YL +L+   +  +   A      
Sbjct: 61  TVSNLASVVHSRNAGKMLNQIF-LRLNILDENTLDPWYLCYLLNKSEYIRYQEAAIMDGS 119

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
           + + L   +++ L + +P + +Q  +         +  + +EK E    L
Sbjct: 120 VIRKLTKANLEDLEINLPGVVDQKKMGEAYKEIMKKYTLAMEKAELEKDL 169



 Score = 37.1 bits (84), Expect = 5.2,   Method: Composition-based stats.
 Identities = 29/176 (16%), Positives = 59/176 (33%), Gaps = 10/176 (5%)

Query: 29  PIKRFTKLNTGRTSESGKDIIY--IGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQI 86
            +    K+ +G  S   KD  Y    +EDV    G       + +    S  SI A+G I
Sbjct: 2   KLNELVKIESGINSVRVKDQNYTLYTIEDVNYDLG----HGEDYQHDKASGKSITARGDI 57

Query: 87  LYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL----PELLQGWLLSIDVTQRIEAICE 142
           +   +          +   + +  FL L   D        L      S  +  +  AI +
Sbjct: 58  VINTVSNLASVVHSRNAGKMLNQIFLRLNILDENTLDPWYLCYLLNKSEYIRYQEAAIMD 117

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
           G+ +       + ++ + +P + +Q  + E       +    + +     +L  + 
Sbjct: 118 GSVIRKLTKANLEDLEINLPGVVDQKKMGEAYKEIMKKYTLAMEKAELEKDLYLQM 173


>gi|3299821|gb|AAC25970.1| restriction-modification enzyme specificity subunit S2A [Mycoplasma
           pulmonis]
          Length = 274

 Score = 46.7 bits (109), Expect = 0.007,   Method: Composition-based stats.
 Identities = 13/79 (16%), Positives = 24/79 (30%), Gaps = 3/79 (3%)

Query: 331 TYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI- 389
               +         +        R SL   D     V +P ++ Q  I  +I     +I 
Sbjct: 3   EKYLFYFLKNKQEHIQSITYGSTRDSLTKTDFSDFVVSIPSLETQSAIIKIIEPLEKQIN 62

Query: 390 --DVLVEKIEQSIVLLKER 406
             D L+   ++S+      
Sbjct: 63  AFDELILSEQKSLQHYLNY 81



 Score = 40.5 bits (93), Expect = 0.57,   Method: Composition-based stats.
 Identities = 32/259 (12%), Positives = 74/259 (28%), Gaps = 24/259 (9%)

Query: 125 QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
             +    +  + I++I  G+T          +  + IP L  Q  I + I     +I+  
Sbjct: 5   YLFYFLKNKQEHIQSITYGSTRDSLTKTDFSDFVVSIPSLETQSAIIKIIEPLEKQINAF 64

Query: 185 ITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTEL 244
               +          Q  + + +   LN    +  S       +  ++++     L    
Sbjct: 65  DELILSE--------QKSLQHYLNYFLNKLASINPS-------IFKNYKLGQILNLEKGK 109

Query: 245 NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
           ++ N K +  NI   +  +   + +     +    +    I+         I        
Sbjct: 110 SKYNAKYVSQNIGIYNLYSSKTRDQGIFGKINSYDFNGEYIL---------ITTHGAYAG 160

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKR 364
                  +    ++ ++      I  T     +                   LK  ++  
Sbjct: 161 TVKYVNEKFSTTSNCFILKVNENIVKTKFLSYLLLLQEKTFNDMAIGSAYGYLKNYNIND 220

Query: 365 LPVLVPPIKEQFDITNVIN 383
             V +P +K Q  I  +I 
Sbjct: 221 FEVNLPNLKIQSAILGIIE 239



 Score = 39.8 bits (91), Expect = 0.76,   Method: Composition-based stats.
 Identities = 24/178 (13%), Positives = 58/178 (32%), Gaps = 7/178 (3%)

Query: 29  PIKRFTKLNTGRTSESGKDII-YIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
            + +   L  G++  + K +   IG+ ++ S   +     G     D +         IL
Sbjct: 98  KLGQILNLEKGKSKYNAKYVSQNIGIYNLYSSKTRDQGIFGKINSYDFNGEY------IL 151

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMS 147
               G Y       +     ++   +L+  + + +      L +   +    +  G+   
Sbjct: 152 ITTHGAYAGTVKYVNEKFSTTSNCFILKVNENIVKTKFLSYLLLLQEKTFNDMAIGSAYG 211

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
           +     I +  + +P L  Q  I   I     +I+ L  ++    +     +  L+  
Sbjct: 212 YLKNYNINDFEVNLPNLKIQSAILGIIEPLHKKINLLKQKKKLLEKRSIYCQNHLIKE 269


>gi|302336934|ref|YP_003802140.1| transcriptional regulator [Spirochaeta smaragdinae DSM 11293]
 gi|301634119|gb|ADK79546.1| putative transcriptional regulator [Spirochaeta smaragdinae DSM
           11293]
          Length = 543

 Score = 46.7 bits (109), Expect = 0.007,   Method: Composition-based stats.
 Identities = 19/134 (14%), Positives = 46/134 (34%), Gaps = 2/134 (1%)

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
                   +K        + D  +      ++   K+    +++  +       + V  +
Sbjct: 219 YKNVEFKVVKDIIKSITPVKDSEDFSNSENEIYITKQGNLPSKINHKNFSNLLKIDVNHN 278

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
            I+  YL    RS        ++        ++  D+ ++ + VPP+ EQ DI   +N +
Sbjct: 279 LINPKYLEIYFRSSLGQISLKSIQLGSSIPYIRRTDLLKIKIPVPPLIEQSDIVE-VNEK 337

Query: 386 TARIDVLVEKIEQS 399
              +   +  +E  
Sbjct: 338 LNELKERIASLENE 351


>gi|145631984|ref|ZP_01787736.1| putative Type I restriction enzyme EcoR124II specificity protein
           [Haemophilus influenzae R3021]
 gi|144982368|gb|EDJ89948.1| putative Type I restriction enzyme EcoR124II specificity protein
           [Haemophilus influenzae R3021]
          Length = 259

 Score = 46.7 bits (109), Expect = 0.008,   Method: Composition-based stats.
 Identities = 22/190 (11%), Positives = 58/190 (30%), Gaps = 12/190 (6%)

Query: 234 VKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVF 293
            KP   +          +  +         ++   +T  +G   E    Y       I+F
Sbjct: 19  WKPLGEVTAYEQPTKYLVSSTVYSDEFSTPVLTAGKTFILGYTDEEEGIYFASKSPVIIF 78

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL 353
                 N            +        +   +     Y+ + + +    ++        
Sbjct: 79  DDFTTANK---WVDFDFKAKSSAMKMITSKDENITLLKYIYYWLNTLPNNQLDSDHK--- 132

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSS 409
           RQ +   +     + +PP+  Q +I  +++  TA    L  ++   ++L ++     R  
Sbjct: 133 RQWIS--NYANKLIPIPPLSVQTEIVKILDALTALTSELTSELTSELILRQKQYEYYREK 190

Query: 410 FIAAAVTGQI 419
            ++    G++
Sbjct: 191 LLSEEELGKV 200


>gi|183508611|ref|ZP_02689741.2| restriction-modification enzyme subunit s3b [Ureaplasma parvum
           serovar 14 str. ATCC 33697]
 gi|182676069|gb|EDT87974.1| restriction-modification enzyme subunit s3b [Ureaplasma parvum
           serovar 14 str. ATCC 33697]
          Length = 209

 Score = 46.7 bits (109), Expect = 0.008,   Method: Composition-based stats.
 Identities = 20/158 (12%), Positives = 55/158 (34%), Gaps = 10/158 (6%)

Query: 255 NILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERG 314
           N + +    +I       +    E +    IV  G+++        ++ +  S  +  + 
Sbjct: 48  NYMDIYKNFVINDDIKLRLYNASEKHIKSYIVSYGDLLLTASSETKEEIAFSSVYLSNKQ 107

Query: 315 IITSAY---MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVP 370
            I + +          +   Y A+  RS    K    + +G  R +L  +D + + + + 
Sbjct: 108 AIFNGFSKIYKYDQKILLPIYAAFYFRSEFFRKEVIKLATGYTRFNLSIKDAENIEISIN 167

Query: 371 PIKEQFDITNV------INVETARIDVLVEKIEQSIVL 402
             + Q   + +      ++ +  +I+ ++      I  
Sbjct: 168 NFEFQKKFSKIVEPLLNLSTKANKIEKILNDSLLKITK 205



 Score = 42.5 bits (98), Expect = 0.14,   Method: Composition-based stats.
 Identities = 22/188 (11%), Positives = 49/188 (26%), Gaps = 13/188 (6%)

Query: 29  PIKRFTKLNTGRT----SESGKDIIYIGLEDVESG--TGKYLPKDGNSRQSDTSTVSIFA 82
            ++   K   G +    +     I +I   D+         +     +         I +
Sbjct: 21  KLRDIGKFKGGISTLDKNNYDSGINFINYMDIYKNFVINDDIKLRLYNASEKHIKSYIVS 80

Query: 83  KGQILYGKLGPYLR-----KAIIADFDGICSTQ--FLVLQPKDVLPELLQGWLLSIDVTQ 135
            G +L                 +++   I +          K +LP     +  S    +
Sbjct: 81  YGDLLLTASSETKEEIAFSSVYLSNKQAIFNGFSKIYKYDQKILLPIYAAFYFRSEFFRK 140

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELL 195
            +  +  G T  +   K   NI + I     Q    + +                  + L
Sbjct: 141 EVIKLATGYTRFNLSIKDAENIEISINNFEFQKKFSKIVEPLLNLSTKANKIEKILNDSL 200

Query: 196 KEKKQALV 203
            +  + L+
Sbjct: 201 LKITKKLI 208


>gi|325996128|gb|ADZ51533.1| Type I restriction-modification system specificity subunit S
           [Helicobacter pylori 2018]
 gi|325997724|gb|ADZ49932.1| Type I restriction-modification system,specificity subunit S
           [Helicobacter pylori 2017]
          Length = 146

 Score = 46.3 bits (108), Expect = 0.008,   Method: Composition-based stats.
 Identities = 18/130 (13%), Positives = 44/130 (33%), Gaps = 1/130 (0%)

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
           +T      I  +S           N G     Y      D   I            +  +
Sbjct: 7   STNKKTLKISEVSEVKNKGMYPVINSGRDLYGYYHDFNNDGENITIASRGEYAGFINYFN 66

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
            +    G+    Y     + + + +L + +++ ++  +   +  G   +L   D++ L +
Sbjct: 67  EKFFAGGLCYP-YKVKDTNELLTKFLYFYLKTNEIQIMENLVFRGSIPALNKADIETLTI 125

Query: 368 LVPPIKEQFD 377
            +PP++ Q +
Sbjct: 126 PIPPLEIQQE 135


>gi|301799574|emb|CBW32126.1| putative type I restriction-modification system S protein
           [Streptococcus pneumoniae OXC141]
          Length = 202

 Score = 46.3 bits (108), Expect = 0.008,   Method: Composition-based stats.
 Identities = 20/119 (16%), Positives = 43/119 (36%), Gaps = 8/119 (6%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDV-ESGTGKYLPKDGNS 70
           I  IPK W+ +          G+T    +      +I ++ + D+  SG      +  + 
Sbjct: 27  IYEIPKAWRYIKFASLVNFRIGKTPPRSEATFWGTEIPWVSISDMPISGYVTNTRESISK 86

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
               +  + I  KG +L       + K  I D     +   + + P      +++ +L+
Sbjct: 87  LALKSKKIDISPKGTLLMS-FKLSIGKVAILDIPATHNEAIISIFPYANKENIIRDYLM 144



 Score = 41.3 bits (95), Expect = 0.26,   Method: Composition-based stats.
 Identities = 24/177 (13%), Positives = 50/177 (28%), Gaps = 12/177 (6%)

Query: 225 VGLVPDHWEVKPFFALVTELNRKNTK-----LIESNILSLSYGNIIQKLETRN----MGL 275
           +  +P  W    F +LV     K           + I  +S  ++       N    +  
Sbjct: 27  IYEIPKAWRYIKFASLVNFRIGKTPPRSEATFWGTEIPWVSISDMPISGYVTNTRESISK 86

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
                +   I   G ++  F         L         II+  +       I   YL  
Sbjct: 87  LALKSKKIDISPKGTLLMSFKLSIGKVAILDIPATHNEAIIS-IFPYANKENIIRDYLMI 145

Query: 336 LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            +              G  ++L    +  L + +   +E   I + +++   ++  L
Sbjct: 146 FLPLISTLGDSKDAIKG--KTLNSTSISELLIPISNHEEMKRIISKVDLLFQKVSQL 200


>gi|168308222|ref|ZP_02690897.1| restriction-modification enzyme MpuUVI S subunit [Ureaplasma parvum
           serovar 1 str. ATCC 27813]
 gi|171902585|gb|EDT48874.1| restriction-modification enzyme MpuUVI S subunit [Ureaplasma parvum
           serovar 1 str. ATCC 27813]
          Length = 246

 Score = 46.3 bits (108), Expect = 0.008,   Method: Composition-based stats.
 Identities = 12/141 (8%), Positives = 38/141 (26%), Gaps = 3/141 (2%)

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
             N        +   K      Y      +     I +  +   +               
Sbjct: 95  ISNNPGYYPLISASSKNNGIFGYFNDYMYDGKNITISMNGNAGCIFYQIGKFSANSDVLV 154

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF---D 377
           ++     + +    + +      ++        R  L    +++  VL+P I+ Q     
Sbjct: 155 LSNPNKNLTNIDYIYYLLKTKEKEIQNLAIGTTRFRLGNSVIEKFKVLLPNIEIQEKFSK 214

Query: 378 ITNVINVETARIDVLVEKIEQ 398
           I   +   + + + + + + +
Sbjct: 215 IVEPLINLSTKANKIEKNLNE 235


>gi|242243196|ref|ZP_04797641.1| conserved hypothetical protein [Staphylococcus epidermidis W23144]
 gi|242233350|gb|EES35662.1| conserved hypothetical protein [Staphylococcus epidermidis W23144]
          Length = 193

 Score = 46.3 bits (108), Expect = 0.009,   Method: Composition-based stats.
 Identities = 20/145 (13%), Positives = 53/145 (36%), Gaps = 17/145 (11%)

Query: 275 LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
           +   +    ++V  G+IV   +   ++   +              ++ +    ID+ Y  
Sbjct: 55  VTLSTTHQAKMVHTGDIVINMM--TSECVIVSQQHHESILPYNYTHIEIDTTHIDANYFV 112

Query: 335 WLMR-SYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
           + M  S            G    + L    +K+L + +PP+++Q  I         ++D 
Sbjct: 113 YWMNASAQAKSQLNQFKQGGSLVKKLTLNQLKQLKMTLPPLEQQQRIG--------KLD- 163

Query: 392 LVEKIEQSIVLLKERRSSFIAAAVT 416
              +  + +  L+ +R+  +   ++
Sbjct: 164 ---ERRRHLKYLQAKRTYLMDQFLS 185


>gi|324993829|gb|EGC25748.1| hypothetical protein HMPREF9390_0215 [Streptococcus sanguinis
           SK405]
          Length = 211

 Score = 46.3 bits (108), Expect = 0.009,   Method: Composition-based stats.
 Identities = 19/146 (13%), Positives = 51/146 (34%), Gaps = 9/146 (6%)

Query: 28  VPIKRFTKLNTGRTSES----GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA- 82
           + +    +L +G   +S     +    I ++D++  T      +    +S  S  S F  
Sbjct: 17  IKLGDIFELKSGYAFKSKDWVDEGKPVIKIKDIDGITIDITNLNYVKNKSQLSKASNFEV 76

Query: 83  -KGQILYGKLGPYLRKAIIA--DFDGICSTQFLVLQPKDVLPELLQG-WLLSIDVTQRIE 138
              +I+    G    K  +   +F+G  + +  +   K  L   +    L   ++   + 
Sbjct: 77  FGKEIVMALTGATTGKIGVIPKNFNGYVNQRVGLFYAKTELSYAVLWSILQQQNIITDLI 136

Query: 139 AICEGATMSHADWKGIGNIPMPIPPL 164
            +  G+  ++     + +  + +   
Sbjct: 137 KLSSGSAQANLSPFSVNSYDLNVTFK 162



 Score = 44.0 bits (102), Expect = 0.049,   Method: Composition-based stats.
 Identities = 25/209 (11%), Positives = 59/209 (28%), Gaps = 17/209 (8%)

Query: 217 MKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK 276
              S    +G + +      F +       K    I+           +  ++ ++   K
Sbjct: 11  FYSSNSIKLGDIFELKSGYAFKSKDWVDEGKPVIKIKDIDGITIDITNLNYVKNKSQLSK 70

Query: 277 PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWL 336
             ++E    V   EIV         K  +        G +             S  + W 
Sbjct: 71  ASNFE----VFGKEIVMALTGATTGKIGVIPKNF--NGYVNQRVGLFYAKTELSYAVLWS 124

Query: 337 M--RSYDLCKVFYAMGSGLRQSLKFEDVKR--LPVLVPPIKEQFDITNVINVETARIDVL 392
           +  +   +  +        + +L    V    L V    + E       ++   + +  L
Sbjct: 125 ILQQQNIITDLIKLSSGSAQANLSPFSVNSYDLNVTFKDLIE-------LDKVLSPLYEL 177

Query: 393 VEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
                  I  L + R + +   ++G++ +
Sbjct: 178 FCFNLSEIQRLSKLRDTLLPKLLSGELSV 206


>gi|113460699|ref|YP_718765.1| hypothetical protein HS_0554 [Haemophilus somnus 129PT]
 gi|112822742|gb|ABI24831.1| conserved hypothetical protein [Haemophilus somnus 129PT]
          Length = 133

 Score = 46.3 bits (108), Expect = 0.009,   Method: Composition-based stats.
 Identities = 27/139 (19%), Positives = 48/139 (34%), Gaps = 14/139 (10%)

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
           +     ++    +S +TY+ V PG+ V      Q        A     GI + AY  +  
Sbjct: 4   RDDIGIDIKYDQKSTQTYKRVSPGQFVIHLRSFQG-----GFAWSDIEGITSPAYTIIDF 58

Query: 326 H---GIDSTYLAWLMRSYDLCKVFYAMGSGLR--QSLKFEDVKRLPVLVPPIKEQFDITN 380
                  S +   +  S    K    +  G+R  +S+ F D   L +    I+EQ  I  
Sbjct: 59  KKKENHSSNFWKLIFTSSSFIKKLETVTYGIRDGRSISFSDFSDLRLFYSQIQEQQKIGT 118

Query: 381 VINVETARIDVLVEKIEQS 399
                   +D  +   ++ 
Sbjct: 119 F----FTALDRYITIHQRK 133


>gi|283769411|ref|ZP_06342309.1| type I restriction modification DNA specificity domain protein
           [Bulleidia extructa W1219]
 gi|283103936|gb|EFC05321.1| type I restriction modification DNA specificity domain protein
           [Bulleidia extructa W1219]
          Length = 151

 Score = 46.3 bits (108), Expect = 0.009,   Method: Composition-based stats.
 Identities = 23/147 (15%), Positives = 52/147 (35%)

Query: 244 LNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKR 303
           ++ K  +   S ++ + YG   +K+ + +  +               +  +   L   K 
Sbjct: 1   MDMKYKRYALSELVMIKYGKNQKKVHSEDGNIPIYGTGGLMGYATTALYDKPSVLIGRKG 60

Query: 304 SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVK 363
           ++   + +E    T   +       D     +L     L  +          SL+ E + 
Sbjct: 61  TIGKVKYVEHPFWTVDTLFYTIINTDIVRPKYLYYIMSLIDLNNYNEGTTIPSLRIETLN 120

Query: 364 RLPVLVPPIKEQFDITNVINVETARID 390
           RL   +P I+EQ  + + +N    +I+
Sbjct: 121 RLEFDIPSIEEQEIVLSCLNPIDEKIE 147


>gi|167010575|ref|ZP_02275506.1| type I restriction enzyme EcoEI specificity protein [Francisella
           tularensis subsp. holarctica FSC200]
 gi|254369155|ref|ZP_04985167.1| predicted protein [Francisella tularensis subsp. holarctica FSC022]
 gi|290953274|ref|ZP_06557895.1| putative type I RM modification enzyme [Francisella tularensis
           subsp. holarctica URFT1]
 gi|295313480|ref|ZP_06804076.1| putative type I RM modification enzyme [Francisella tularensis
           subsp. holarctica URFT1]
 gi|157122105|gb|EDO66245.1| predicted protein [Francisella tularensis subsp. holarctica FSC022]
          Length = 133

 Score = 46.3 bits (108), Expect = 0.009,   Method: Composition-based stats.
 Identities = 17/118 (14%), Positives = 29/118 (24%), Gaps = 3/118 (2%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +  +P  W+   +    +   G   +  KD   IGL  +          D N    +   
Sbjct: 18  LYKLPAWWEWKKLGELAEYVNGMAFKP-KDWSNIGLPIIRIQNLN-GSDDFNYFSGEAKE 75

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
                 G IL       L        + I +           + +      L     Q
Sbjct: 76  KYYVKSGDILISWS-ASLDVYKWQGGNAILNQHIFNTIINYDVVDYDFFITLLNIHYQ 132


>gi|57865913|ref|YP_190016.1| hypothetical protein SERP2473 [Staphylococcus epidermidis RP62A]
 gi|57636571|gb|AAW53359.1| hypothetical protein SERP2473 [Staphylococcus epidermidis RP62A]
          Length = 228

 Score = 46.3 bits (108), Expect = 0.010,   Method: Composition-based stats.
 Identities = 25/207 (12%), Positives = 66/207 (31%), Gaps = 19/207 (9%)

Query: 213 PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
              K K S I  +    +   +     +            +  +       + Q    + 
Sbjct: 30  KIHKKKVSQISQLFTFHNGSLINRLETVEASQGITLPIYDQRMMEF--DDGVFQPSTHQP 87

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
             +   +    ++V  G+IV   +   ++   +              ++ +    ID+ Y
Sbjct: 88  KNVTLSTTHQAKMVHTGDIVINMM--TSECVIVSQQHHESILPYNYTHIEIDTTHIDANY 145

Query: 333 LAWLMR-SYDLCKVFY--AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
             + M  S            G  L + L    +K+L + +P +++Q  I         ++
Sbjct: 146 FVYWMNASAQAKSQLNQFKQGGSLVKKLTLNQLKQLKMTLPSLEQQQRIG--------KL 197

Query: 390 DVLVEKIEQSIVLLKERRSSFIAAAVT 416
           D    +  + +  L+ +R+  +   ++
Sbjct: 198 D----ERRRHLKYLQAKRTYLMDQFLS 220


>gi|228472562|ref|ZP_04057322.1| putative type I restriction-modification system, S subunit
           [Capnocytophaga gingivalis ATCC 33624]
 gi|228275975|gb|EEK14731.1| putative type I restriction-modification system, S subunit
           [Capnocytophaga gingivalis ATCC 33624]
          Length = 132

 Score = 46.3 bits (108), Expect = 0.010,   Method: Composition-based stats.
 Identities = 14/102 (13%), Positives = 35/102 (34%), Gaps = 6/102 (5%)

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR 354
           FI +  D   +      +  +       + P+   S YL +L+ +              +
Sbjct: 37  FIIVFGDHTRVVKYIDFDFIVGADGVKVILPNNNLSKYLYYLILNASYKIENRGYSRHFQ 96

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
                  +++    +PP+ EQ+ I   I    + ++ +   +
Sbjct: 97  ------FLQKEFFPLPPLAEQYRIVQKIETYFSFLNTIESNL 132


>gi|257433905|ref|ZP_05610263.1| TypeIrestriction-modificationsystemspecificitysubunit
           [Staphylococcus aureus subsp. aureus E1410]
 gi|257281998|gb|EEV12135.1| TypeIrestriction-modificationsystemspecificitysubunit
           [Staphylococcus aureus subsp. aureus E1410]
          Length = 72

 Score = 46.3 bits (108), Expect = 0.010,   Method: Composition-based stats.
 Identities = 10/75 (13%), Positives = 29/75 (38%), Gaps = 5/75 (6%)

Query: 342 LCKVFYAMGSGLRQSLKFEDVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSI 400
           + K+   +     + +  +++    + +P  ++EQ  I +       +ID  +   +  I
Sbjct: 1   MKKISANLQGTSIKGITKKELLDSIIKIPHNLEEQQKIGD----LFYKIDKYISFNKCKI 56

Query: 401 VLLKERRSSFIAAAV 415
            +LK  +   +    
Sbjct: 57  EILKSLKQGLLQKIF 71


>gi|207108370|ref|ZP_03242532.1| type I restriction enzyme S protein (hsdS) [Helicobacter pylori
           HPKX_438_CA4C1]
          Length = 161

 Score = 46.3 bits (108), Expect = 0.010,   Method: Composition-based stats.
 Identities = 25/165 (15%), Positives = 48/165 (29%), Gaps = 12/165 (7%)

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
           IL L       K      G    SY    I      +    +        +++   +   
Sbjct: 7   ILWLKRPKTQDKYPFFTSGDNILSYPKAIIDGRNCFLNTGGNAGIKFYVGKASYSTDTWC 66

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
           I +           S YL  L+ S               + L+   +K+ P+ +P   E 
Sbjct: 67  ICA--------NEFSDYLYLLLSSIKTHINQSFFQGTSLKHLQKNLLKKYPIYMPSAHEI 118

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQID 420
                +I         L+    ++   L++ R   +   +T Q+ 
Sbjct: 119 KKFNQIIMPLL----TLISINTRTSKKLEQIRDFLLPLLLTQQVK 159


>gi|32266297|ref|NP_860329.1| hypothetical protein HH0798 [Helicobacter hepaticus ATCC 51449]
 gi|32262347|gb|AAP77395.1| conserved hypothetical protein [Helicobacter hepaticus ATCC 51449]
          Length = 1056

 Score = 46.3 bits (108), Expect = 0.010,   Method: Composition-based stats.
 Identities = 40/359 (11%), Positives = 87/359 (24%), Gaps = 20/359 (5%)

Query: 55   DVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY-GKLGPYLRKAIIADFDGICSTQFLV 113
            D+  G   Y+        +  S      K   +Y       +    I     +   Q   
Sbjct: 690  DIIIGNPPYIDYRSIDENTKIS----LQKNSFVYTNSKRGSIFVYFIEKAAKLIHKQGYC 745

Query: 114  LQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
            +    +            +       +     +S        +    I     +    ++
Sbjct: 746  IFINPINYICQDSGAGIREFIDNNLCLISMIDVSSFKVFNSASTYTCINCFTHKSQELKE 805

Query: 174  IIAETVRIDTLITERI-RFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHW 232
            I       +  +           K +  +++   +T  +      + S    +       
Sbjct: 806  INFGRANCEEELNNIALEKFPQSKIENLSILLDSITTKIFKANYPQLSSFCDI-----FC 860

Query: 233  EVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIV 292
             +          N+K    +     S       ++ +  +  +   S E  +I +  EI+
Sbjct: 861  ALSIAGFRNDVKNKKTKDNVPFLESSDIQKYDYKQGKFLHNAVSYYSTEKIKIFEDSEII 920

Query: 293  FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
            F        +  +         +       +    I     + L+  +   K F +   G
Sbjct: 921  FMARMTNFIRCCIAPKAYFGGKVNILHNFKLDRKFILGVLNSKLINYFYAKKYFASHMQG 980

Query: 353  LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE--------KIEQSIVLL 403
                     V  LP+       Q  I N I     +I             K+E  I  L
Sbjct: 981  GAFGFDTLSVGSLPIPKITKANQ-RIVNEIVALVDKILESKAKDSTASTKKLESQIDFL 1038


>gi|325973479|ref|YP_004250543.1| type I restriction-modification system specificity subunit
           [Mycoplasma suis str. Illinois]
 gi|323652081|gb|ADX98163.1| putative type I restriction-modification system specificity subunit
           [Mycoplasma suis str. Illinois]
          Length = 154

 Score = 46.3 bits (108), Expect = 0.010,   Method: Composition-based stats.
 Identities = 15/154 (9%), Positives = 43/154 (27%), Gaps = 4/154 (2%)

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
              +                  +     +     K   +      +    +  + +    
Sbjct: 4   GNGKYPFFTCSFETKKSYTYSYDFPALLVSSGGSKFHAKVFFGKFQASTDTFIVKLGTTD 63

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
                L +L   Y     +    +   + L  + +K + +L+P       I    N    
Sbjct: 64  FIYLMLEFLNIIYLPQINWVTCATTFLKHLSPQKLKEIEILIPD----QKILEKFNNFWK 119

Query: 388 RIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            I   ++K+E  +   +E +   + +  + +I +
Sbjct: 120 NIHSKIKKLELKMQKYEEIKKKLLDSLFSQEIQV 153


>gi|14520377|ref|NP_125852.1| site specific DNA-methyltransferase [Pyrococcus abyssi GE5]
 gi|5457592|emb|CAB49083.1| Site specific DNA-methyltransferase [Pyrococcus abyssi GE5]
          Length = 464

 Score = 46.3 bits (108), Expect = 0.010,   Method: Composition-based stats.
 Identities = 32/192 (16%), Positives = 73/192 (38%), Gaps = 5/192 (2%)

Query: 185 ITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTEL 244
           I         +  K   LV  I+         +K      +G + +    +  +    + 
Sbjct: 224 IHHLTISKVKVMGKSVKLVDSILYPEFYLQDHLKLENSVQLGELVETRSGQTEYGEKRKF 283

Query: 245 NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
           ++     I + +++    +  +  + + +    E  +       GEIVF  + +    R+
Sbjct: 284 SKSGIPFISAKVVTPLGIDFTK--DKKFIQPNSEMDKKSAHAHVGEIVFVRVGVGTIGRT 341

Query: 305 LRSAQVMERGIIT--SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFED 361
                  E GI+   S  + VK   ++  YLA+ +++  + K       G+   ++   +
Sbjct: 342 AVITSKEEEGIVDDWSYILTVKSDKVNPYYLAFYLQAPTIKKQILRYARGVGTITIPQRE 401

Query: 362 VKRLPVLVPPIK 373
           +K++PVL+PP  
Sbjct: 402 LKKIPVLIPPKD 413


>gi|332877053|ref|ZP_08444804.1| hypothetical protein HMPREF9074_00530 [Capnocytophaga sp. oral
           taxon 329 str. F0087]
 gi|332684943|gb|EGJ57789.1| hypothetical protein HMPREF9074_00530 [Capnocytophaga sp. oral
           taxon 329 str. F0087]
          Length = 124

 Score = 46.3 bits (108), Expect = 0.010,   Method: Composition-based stats.
 Identities = 18/111 (16%), Positives = 38/111 (34%), Gaps = 4/111 (3%)

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ 355
           I          S       +I +          D  YL + + +++       M      
Sbjct: 11  IIKDGSGVGTVSYAQGRFSVIGTLNYLTSKGNHDLRYLYFALSAFNFQLYKTGMA---IP 67

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
            + F+D  +  +  P + EQ  + NV+    +++    +K+  S  L K+ 
Sbjct: 68  HIYFKDYGKAKIYCPVLAEQKRVANVLGKLESKLF-AEKKLRASFNLQKQY 117


>gi|257139492|ref|ZP_05587754.1| type I restriction-modification system specificity determinant
           [Burkholderia thailandensis E264]
          Length = 304

 Score = 46.3 bits (108), Expect = 0.010,   Method: Composition-based stats.
 Identities = 22/132 (16%), Positives = 44/132 (33%), Gaps = 12/132 (9%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +P+ WK++      + N   +   G+   Y+ +  + +      P       S      
Sbjct: 97  ELPEGWKLLKASELIEFNPTESLRKGEVAPYLDMASLPTQGSWPDPYVMRPFGSGMR--- 153

Query: 80  IFAKGQILYGKLGPYLRK-------AIIADFDGICSTQFLVLQPKDVLP-ELLQGWLLSI 131
            F  G  L  ++ P L          +  D  G  ST+++V++PK  +P         + 
Sbjct: 154 -FRNGDTLLARITPCLENGKTAFIQCLPDDVVGWGSTEYIVMRPKGPVPAAFAYLLARND 212

Query: 132 DVTQRIEAICEG 143
              +       G
Sbjct: 213 AFREHAIRSMTG 224



 Score = 44.0 bits (102), Expect = 0.050,   Method: Composition-based stats.
 Identities = 13/61 (21%), Positives = 25/61 (40%), Gaps = 4/61 (6%)

Query: 350 GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
           G+  RQ +    V+R    +PP+ EQ  I  ++      +D  +E   +    L+    +
Sbjct: 3   GTSGRQRVPSSAVERYSTRLPPLAEQRAIAKILGS----LDDKIELNRERSETLEAMGRA 58

Query: 410 F 410
            
Sbjct: 59  L 59


>gi|307637133|gb|ADN79583.1| typeI restriction-modification system subunit S [Helicobacter
           pylori 908]
 gi|325995724|gb|ADZ51129.1| Type I restriction-modification system specificity subunit S
           [Helicobacter pylori 2018]
 gi|325997320|gb|ADZ49528.1| Type I restriction enzyme specificity subunit [Helicobacter pylori
           2017]
          Length = 298

 Score = 45.9 bits (107), Expect = 0.011,   Method: Composition-based stats.
 Identities = 14/86 (16%), Positives = 31/86 (36%), Gaps = 4/86 (4%)

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP-IKEQFDITNVIN 383
           P+        + +  Y    +         + +    +    V +PP   EQ  I   ++
Sbjct: 5   PNKKIYFEFLYYLLKYHKDNISNMGVGTTFKGISKPALGLFQVKIPPTYYEQQKIARTLS 64

Query: 384 VETARID---VLVEKIEQSIVLLKER 406
           V   +I+    + E + + + LL E+
Sbjct: 65  VLDQKIENNHKINELLHKILELLYEQ 90



 Score = 45.6 bits (106), Expect = 0.017,   Method: Composition-based stats.
 Identities = 43/293 (14%), Positives = 81/293 (27%), Gaps = 24/293 (8%)

Query: 122 ELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPP-LAEQVLIREKIIAETVR 180
                + L       I  +  G T        +G   + IPP   EQ  I   +     +
Sbjct: 10  YFEFLYYLLKYHKDNISNMGVGTTFKGISKPALGLFQVKIPPTYYEQQKIARTLSVLDQK 69

Query: 181 IDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGI-----EWVGLVPDHWEVK 235
           I+          ++L+   +           N        G      E   L+P+ W V+
Sbjct: 70  IENNHKINELLHKILELLYEQYFVRFDFSDENNKPYQTSGGKMKFSKELNRLIPNGWSVR 129

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRF 295
                +    +  T        S SY                     + I   G+    +
Sbjct: 130 FLNHKIVSTYQPKTISKTLLNDSYSYSVYGGGGIIGRFTEYNHEQSEFIISCRGQCGISY 189

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ 355
           + L     +             +  +         TYL   ++ Y L          ++ 
Sbjct: 190 LTLPKSWITG-----------NAMVIRPTKSYTSKTYLYHTIKKYKLTNYI---TGSVQP 235

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
            +  +++  +P+L+P       I N  N  ++ +  L+    QS   L   R 
Sbjct: 236 QITRQNLSTMPILIPK----RKILNKWNNISSLLWNLIHSNMQSTQTLTVLRD 284


>gi|217032197|ref|ZP_03437696.1| hypothetical protein HPB128_186g63 [Helicobacter pylori B128]
 gi|216946187|gb|EEC24796.1| hypothetical protein HPB128_186g63 [Helicobacter pylori B128]
          Length = 169

 Score = 45.9 bits (107), Expect = 0.011,   Method: Composition-based stats.
 Identities = 18/149 (12%), Positives = 48/149 (32%), Gaps = 13/149 (8%)

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
            +T  +G   E    YQ      ++       +   + +      +   ++  + +  + 
Sbjct: 17  GKTFILGYTNEKDNIYQASKSSPVII----FDDFTTATQWVDFPFKVKSSAMKILLPKNP 72

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
             +    +         +    G   RQ +      ++ + +PP++ Q +I  +++   A
Sbjct: 73  TINIRFIFFYMQTIPYNI---SGEHTRQWISR--YSQITIPIPPLEIQQEIVKILDQFLA 127

Query: 388 RIDVLVEKIEQSIVLLKE----RRSSFIA 412
               L+  I   I   K+     R   + 
Sbjct: 128 LTTDLLAGIPAEIEARKKQYEYYREKLLT 156


>gi|32266934|ref|NP_860966.1| hypothetical protein HH1435 [Helicobacter hepaticus ATCC 51449]
 gi|32262986|gb|AAP78032.1| conserved hypothetical protein [Helicobacter hepaticus ATCC 51449]
          Length = 216

 Score = 45.9 bits (107), Expect = 0.011,   Method: Composition-based stats.
 Identities = 16/80 (20%), Positives = 33/80 (41%), Gaps = 4/80 (5%)

Query: 337 MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
           + +Y L       G         E +  L ++ PP+K Q  I NV+      I+  +  +
Sbjct: 139 LIAYILRDEGERAGFSRTLRASIERIAALKIIFPPLKSQQQIVNVVE----NIESHIAHL 194

Query: 397 EQSIVLLKERRSSFIAAAVT 416
           +  +  L+ ++   +  A+T
Sbjct: 195 DSFLPTLQSQKQKILKEALT 214


>gi|285959355|gb|ADC39977.1| type I restriction-modification system small specificity subunit
           [Staphylococcus aureus]
          Length = 157

 Score = 45.9 bits (107), Expect = 0.011,   Method: Composition-based stats.
 Identities = 21/145 (14%), Positives = 54/145 (37%), Gaps = 17/145 (11%)

Query: 275 LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
           +   +    ++V  G+IV   +   ++   +              ++ +    ID+ Y  
Sbjct: 19  VTLSTTHQAKMVHTGDIVINMM--TSECVIVSQQHHESILPYNYTHIEIDTAHIDANYFV 76

Query: 335 WLMR-SYDLCKVFY--AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
           + M  S            G  L + L    +K+L + +PP+++Q  I         ++D 
Sbjct: 77  YWMNASSQAKSQLNQFKQGGSLVKKLTLNQLKQLKMTLPPLEQQQRIG--------KLD- 127

Query: 392 LVEKIEQSIVLLKERRSSFIAAAVT 416
              +  + +  L+ +R+  +   ++
Sbjct: 128 ---ERRRHLKYLQAKRTYLMDQFLS 149


>gi|171920270|ref|ZP_02931629.1| restriction modification enzyme subunit s2a [Ureaplasma parvum
           serovar 1 str. ATCC 27813]
 gi|171902674|gb|EDT48963.1| restriction modification enzyme subunit s2a [Ureaplasma parvum
           serovar 1 str. ATCC 27813]
          Length = 166

 Score = 45.9 bits (107), Expect = 0.011,   Method: Composition-based stats.
 Identities = 11/87 (12%), Positives = 31/87 (35%), Gaps = 3/87 (3%)

Query: 304 SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA---MGSGLRQSLKFE 360
           +  +    +   +T+  +    + +      +L  +    +       +    R S+   
Sbjct: 74  AGTTFWQEKNFSLTNHALVFIMNKLIKYNYKYLFLTLKKHESKIKELIISGSTRPSVSLS 133

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETA 387
            +K + + +P I+EQ  I ++I     
Sbjct: 134 LLKSINIKLPSIEEQNAIIDIIEQVIT 160


>gi|229817837|ref|ZP_04448119.1| hypothetical protein BIFANG_03121 [Bifidobacterium angulatum DSM
           20098]
 gi|229784737|gb|EEP20851.1| hypothetical protein BIFANG_03121 [Bifidobacterium angulatum DSM
           20098]
          Length = 145

 Score = 45.9 bits (107), Expect = 0.011,   Method: Composition-based stats.
 Identities = 18/113 (15%), Positives = 41/113 (36%), Gaps = 2/113 (1%)

Query: 296 IDLQNDKRSLRSAQVMERGI-ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR 354
           +    +      A   E+ + I+    A     I   +LA+L  + D       +  G +
Sbjct: 1   MSENIEDVCTPLAWEGEQPVAISGHSCAYATKSIIPRHLAYLATAQDFQISKRKVAKGTK 60

Query: 355 Q-SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
              +   D+ R+ + VP    Q  + ++++        L + I   I   +++
Sbjct: 61  VIEVAPVDLSRVEIPVPCPATQRKVVDILDRFDTLTKSLTDGIPTEIEARRQQ 113


>gi|189462164|ref|ZP_03010949.1| hypothetical protein BACCOP_02846 [Bacteroides coprocola DSM 17136]
 gi|189431137|gb|EDV00122.1| hypothetical protein BACCOP_02846 [Bacteroides coprocola DSM 17136]
          Length = 262

 Score = 45.9 bits (107), Expect = 0.011,   Method: Composition-based stats.
 Identities = 19/167 (11%), Positives = 52/167 (31%), Gaps = 12/167 (7%)

Query: 247 KNTKLIESNILSLSYGNIIQ-KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
            +    E+ +  +   ++ +  L    + +  E +          I+            +
Sbjct: 97  GSDAYQETGVPFIRVSDLSKFGLTDTAIHIDKEEFNNVIRPQKNTILLSKDGS----VGI 152

Query: 306 RSAQVMERGIITSAYMAV---KPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFED 361
                    +ITS  +         +   YL  ++ S  +         G + Q  K  +
Sbjct: 153 AYKVEEPLDVITSGAILHLSLISTDVLPDYLTLVLNSPIVRLQAERDAGGSIIQHWKPSE 212

Query: 362 VKRLPVLVPPIKEQFDITNVINVET---ARIDVLVEKIEQSIVLLKE 405
           ++ + + + P+  Q  I+  I          + L+   ++ + +  E
Sbjct: 213 IENVIIPILPMPIQQKISGKIQESFRLRKESEELLNNAKRKVEMTIE 259


>gi|212691985|ref|ZP_03300113.1| hypothetical protein BACDOR_01480 [Bacteroides dorei DSM 17855]
 gi|212665377|gb|EEB25949.1| hypothetical protein BACDOR_01480 [Bacteroides dorei DSM 17855]
          Length = 173

 Score = 45.9 bits (107), Expect = 0.011,   Method: Composition-based stats.
 Identities = 15/94 (15%), Positives = 32/94 (34%), Gaps = 3/94 (3%)

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ 355
           I          S    E  +I +          D  YL + + +++       M      
Sbjct: 60  IIKDGSSVGTTSYVQGEFSVIGTLNYLTSKGNHDLRYLYFALSAFNFQPYKTGMA---IP 116

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
            + F+D  +  +  P + EQ  + NV+    +++
Sbjct: 117 HIYFKDYGKAKIYCPLLAEQKRVANVLGKLESKL 150


>gi|291534514|emb|CBL07626.1| Type I restriction modification DNA specificity domain [Roseburia
           intestinalis M50/1]
          Length = 194

 Score = 45.9 bits (107), Expect = 0.011,   Method: Composition-based stats.
 Identities = 23/193 (11%), Positives = 60/193 (31%), Gaps = 10/193 (5%)

Query: 225 VGLVPDHWEVKPFFALVTELNRKNTKLIESNILS--LSYGNIIQKLETRNMGLKPESYET 282
           +G     +    F               +   +S  +  GN+  +     +         
Sbjct: 3   LGETCKFFSGTGFPNKYQGNVHGTYPFYKVGDISRNVQEGNVRLRAADNYIEPDIVKAIK 62

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
             I+ P  +VF  I      R  R A   +  +I +  M ++P       L + ++    
Sbjct: 63  GTIIPPNTVVFAKIG--EALRLNRRAVTTQNCLIDNNAMGIQP-ITSVICLEYFLQFMIG 119

Query: 343 CKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
             +     +    S++   ++ + ++VP +  Q   ++       + D     ++     
Sbjct: 120 LDMNEYSTATALPSVRKSSLEMVKIIVPDVANQQQFSD----LAIQSDKSKLLLQNKYEK 175

Query: 403 LKERRSSFIAAAV 415
           + + R   +   +
Sbjct: 176 INQDR-RLLTCLM 187


>gi|288804030|ref|ZP_06409442.1| putative type I restriction-modification system, S subunit
           [Prevotella melaninogenica D18]
 gi|288333495|gb|EFC71958.1| putative type I restriction-modification system, S subunit
           [Prevotella melaninogenica D18]
          Length = 149

 Score = 45.9 bits (107), Expect = 0.012,   Method: Composition-based stats.
 Identities = 16/131 (12%), Positives = 36/131 (27%), Gaps = 6/131 (4%)

Query: 272 NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST 331
                 + Y T  +      +    D      +     + +     S  +        S 
Sbjct: 19  KSTAYSDDYSTPVLTAGKSFIIGHTDETEGIYNKLPCIIFDDFTKDSRLVDFPFKVKSSA 78

Query: 332 YLAWLMRSYDLCKVFYAMGSGLR------QSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
                +      +      S  R      +     +  +L + +PP KEQ  I  +I+  
Sbjct: 79  MKILQVNKGIDIEYVSQFMSITRLVGDTHKRYWISEYSKLEIPIPPQKEQKRIIRMIHQL 138

Query: 386 TARIDVLVEKI 396
              ++ + E +
Sbjct: 139 FKNLETIEENL 149


>gi|257438272|ref|ZP_05614027.1| putative toxin-antitoxin system, toxin component [Faecalibacterium
           prausnitzii A2-165]
 gi|257199349|gb|EEU97633.1| putative toxin-antitoxin system, toxin component [Faecalibacterium
           prausnitzii A2-165]
          Length = 154

 Score = 45.9 bits (107), Expect = 0.012,   Method: Composition-based stats.
 Identities = 19/107 (17%), Positives = 37/107 (34%), Gaps = 7/107 (6%)

Query: 297 DLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS 356
             +   R +  +      I T+ Y       ID  +  +   +YD+             S
Sbjct: 53  GRKGAYRGVHYSDCPFSVIDTAFYAEPLTDRIDLKWAYYKFLTYDING---MDSGSAIPS 109

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
                +  + V VPP+++Q  I  V++     ID  +   ++    L
Sbjct: 110 TDRYQIYSIEVEVPPLEKQRKIVAVLDC----IDRKININQKVNDNL 152


>gi|60681331|ref|YP_211475.1| putative type I restriction endonuclease specificity subunit,
           partial [Bacteroides fragilis NCTC 9343]
 gi|60492765|emb|CAH07539.1| putative type I restriction endonuclease specificity subunit,
           partial [Bacteroides fragilis NCTC 9343]
          Length = 213

 Score = 45.9 bits (107), Expect = 0.012,   Method: Composition-based stats.
 Identities = 15/139 (10%), Positives = 42/139 (30%), Gaps = 10/139 (7%)

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQV--MERGIITSAYMAVKPHGIDSTYLAW--- 335
           + Y +   G++ F       D+       +   +  +I   +          T L +   
Sbjct: 76  KQYTLCQAGDVAFADASEDTDEIGKAVEFIRTHKASVICGLHTIHGRDIKCKTLLGFKRV 135

Query: 336 LMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
              S+        +  G    S+   ++    + +P I  Q  I     V     +  + 
Sbjct: 136 AFNSHYFHDQIKRLAQGTKVFSITSSNLSSCYIYIPDIVMQKSIV----VLFEAYEEQLI 191

Query: 395 KIEQSIVLLKERRSSFIAA 413
             ++ +   ++++   +  
Sbjct: 192 TNKRLLEQYEKQKRYLLQQ 210


>gi|148544100|ref|YP_001271470.1| restriction modification system DNA specificity subunit
           [Lactobacillus reuteri DSM 20016]
 gi|325682360|ref|ZP_08161877.1| restriction modification system DNA specificity subunit
           [Lactobacillus reuteri MM4-1A]
 gi|148531134|gb|ABQ83133.1| restriction modification system DNA specificity domain
           [Lactobacillus reuteri DSM 20016]
 gi|324978199|gb|EGC15149.1| restriction modification system DNA specificity subunit
           [Lactobacillus reuteri MM4-1A]
          Length = 195

 Score = 45.9 bits (107), Expect = 0.013,   Method: Composition-based stats.
 Identities = 14/109 (12%), Positives = 36/109 (33%), Gaps = 5/109 (4%)

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ 355
           I         R     +   +     A+K     S    + +      ++       +  
Sbjct: 64  ILFSVRAPVGRVNWANQDLAVGRGLAALKIKSGYSKEYLYYLFKKIGGQLDSLATGTVFT 123

Query: 356 SLKFEDVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLL 403
           S+  ++++ + + +P  + +Q  I + +     +ID  +E   Q    L
Sbjct: 124 SINKKELEAIELKIPVNLSDQEKIADYL----QKIDQEIELNNQINDNL 168



 Score = 40.9 bits (94), Expect = 0.44,   Method: Composition-based stats.
 Identities = 26/158 (16%), Positives = 54/158 (34%), Gaps = 3/158 (1%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K + +K    +  G++ +S              G   +           TS       G+
Sbjct: 4   KKIQLKDVADIVMGQSPKSVFYNTNGNGTPFLQGVRTFGENYPQIDTWTTSYNRKAKSGE 63

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           IL+    P  R    A+ D         L+ K    +    + L   +  +++++  G  
Sbjct: 64  ILFSVRAPVGR-VNWANQDLAVGRGLAALKIKSGYSK-EYLYYLFKKIGGQLDSLATGTV 121

Query: 146 MSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRID 182
            +  + K +  I + IP  L++Q  I + +      I+
Sbjct: 122 FTSINKKELEAIELKIPVNLSDQEKIADYLQKIDQEIE 159


>gi|329575567|gb|EGG57104.1| conserved domain protein [Enterococcus faecalis TX1467]
          Length = 169

 Score = 45.9 bits (107), Expect = 0.013,   Method: Composition-based stats.
 Identities = 10/80 (12%), Positives = 28/80 (35%), Gaps = 5/80 (6%)

Query: 24  HWKVVPIKRFTKLNTGRTSE---SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
            W++  +    ++  G       +   + ++ +E++ +   K      +       +   
Sbjct: 53  DWQLCKLGDVVEIFDGTHQTPRYTDSGVKFVSVENIATLETK--KYITHEAYEKEYSKKR 110

Query: 81  FAKGQILYGKLGPYLRKAII 100
             KG IL  ++G      +I
Sbjct: 111 AKKGDILMTRIGDIGTMKVI 130


>gi|91201731|emb|CAJ74791.1| hypothetical protein kuste4028 [Candidatus Kuenenia
           stuttgartiensis]
          Length = 274

 Score = 45.9 bits (107), Expect = 0.013,   Method: Composition-based stats.
 Identities = 33/207 (15%), Positives = 73/207 (35%), Gaps = 11/207 (5%)

Query: 24  HWKVVPIKRFT-KLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            W +V I     +++  +  +       +G++    G G +L ++    +   + +    
Sbjct: 3   EWNMVRIGDVLKEVSREKRLDPNTKYRLLGVKW--YGKGVFLREEKYGNEIKATKLYEVK 60

Query: 83  KGQILYGKLGPYL--RKAIIADFDGI-CSTQF--LVLQPKDVLPELLQGWLLSIDVTQRI 137
           +   +Y +L  +      I  +FDG   S +F         +LPE L   +L  +    I
Sbjct: 61  QRDFIYNRLFAWKSSFAVIPDEFDGCLVSNEFPLFTCVESKLLPEFLLSGMLLPENITAI 120

Query: 138 EAICEGA---TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
             +  G    +      K   N  +P   +  Q  I +K+   +        E    I L
Sbjct: 121 NNLSGGMSSVSRKRFKEKDFLNFKIPQYGILTQSRICQKLKTISELSADQDLESAHQISL 180

Query: 195 LKEKKQALVSYIVTKGLNPDVKMKDSG 221
           +K+ ++ ++   +   L    + +   
Sbjct: 181 IKQLRRRILQEAIEGKLTAKWRKQHPD 207



 Score = 44.4 bits (103), Expect = 0.035,   Method: Composition-based stats.
 Identities = 21/194 (10%), Positives = 58/194 (29%), Gaps = 8/194 (4%)

Query: 232 WEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL-KPESYETYQIVDPGE 290
           W +     ++ E++R+      +    L      + +  R               V   +
Sbjct: 4   WNMVRIGDVLKEVSREKRLDPNTKYRLLGVKWYGKGVFLREEKYGNEIKATKLYEVKQRD 63

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAY--MAVKPHGIDSTYLAWLMRSYDLCKVFYA 348
            ++  +       ++      +  ++++ +         +   +L   M   +       
Sbjct: 64  FIYNRLFAWKSSFAVIP-DEFDGCLVSNEFPLFTCVESKLLPEFLLSGMLLPENITAINN 122

Query: 349 MGSGL----RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLK 404
           +  G+    R+  K +D     +    I  Q  I   +   +        +    I L+K
Sbjct: 123 LSGGMSSVSRKRFKEKDFLNFKIPQYGILTQSRICQKLKTISELSADQDLESAHQISLIK 182

Query: 405 ERRSSFIAAAVTGQ 418
           + R   +  A+ G+
Sbjct: 183 QLRRRILQEAIEGK 196


>gi|284051868|ref|ZP_06382078.1| restriction modification system DNA specificity domain protein
           [Arthrospira platensis str. Paraca]
          Length = 46

 Score = 45.9 bits (107), Expect = 0.013,   Method: Composition-based stats.
 Identities = 7/47 (14%), Positives = 18/47 (38%), Gaps = 4/47 (8%)

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           Q  I +V++         +  +E+     +  +   +   +TG+  L
Sbjct: 1   QKAIASVLSDMDKE----IAALEKRRAKTQAIKQGMMQELLTGRTRL 43


>gi|322372974|ref|ZP_08047510.1| type I restriction-modification system specificty subunit
           [Streptococcus sp. C150]
 gi|321278016|gb|EFX55085.1| type I restriction-modification system specificty subunit
           [Streptococcus sp. C150]
          Length = 206

 Score = 45.9 bits (107), Expect = 0.013,   Method: Composition-based stats.
 Identities = 27/186 (14%), Positives = 63/186 (33%), Gaps = 8/186 (4%)

Query: 26  KVVPIKRFTKLNTGRTSESG---KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           K++ +        G+   +     +   I L D+      Y      S +       +  
Sbjct: 19  KLIRLGDVVDQFKGKAVPAKAEPGEFAVINLSDMTPSGISYKDLKTFSEERRKLLRFLLE 78

Query: 83  KGQILYGKLGPYLRKAIIAD---FDGICSTQFLVLQPKDVLPELLQGWLLSIDV-TQRIE 138
            G +L    G   + A+  D    + + S+   VL+PK+ L      + L  ++    ++
Sbjct: 79  DGDVLIASKGTVQKVAVFEDQGKREVVASSNITVLRPKEKLRGFYIKFFLETEIGCTYLD 138

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQ-VLIREKIIAETVRIDTLITERIRFIELLKE 197
              +G  + +     + +I +P  P+ +Q   I   +         ++     +  +   
Sbjct: 139 YADKGKAVLNLSTADLLDIKIPEIPIVKQDYQIAAYLRGRADFHRKMVRAEQEWENIQHN 198

Query: 198 KKQALV 203
             +AL 
Sbjct: 199 VTEALF 204



 Score = 36.7 bits (83), Expect = 7.2,   Method: Composition-based stats.
 Identities = 12/124 (9%), Positives = 36/124 (29%), Gaps = 4/124 (3%)

Query: 263 NIIQKLETRNMGLKPESYET--YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
                +  +++    E        +++ G+++                   E    ++  
Sbjct: 52  MTPSGISYKDLKTFSEERRKLLRFLLEDGDVLIASKGTVQKVAVFEDQGKREVVASSNIT 111

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQF-DI 378
           +      +   Y+ + + +   C        G    +L   D+  + +   PI +Q   I
Sbjct: 112 VLRPKEKLRGFYIKFFLETEIGCTYLDYADKGKAVLNLSTADLLDIKIPEIPIVKQDYQI 171

Query: 379 TNVI 382
              +
Sbjct: 172 AAYL 175


>gi|111656905|ref|ZP_01407731.1| hypothetical protein SpneT_02001845 [Streptococcus pneumoniae
           TIGR4]
          Length = 216

 Score = 45.9 bits (107), Expect = 0.013,   Method: Composition-based stats.
 Identities = 19/119 (15%), Positives = 43/119 (36%), Gaps = 8/119 (6%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGK------DIIYIGLEDV-ESGTGKYLPKDGNS 70
           I  IP+ W+ +          G+T    +      +I ++ + D+  SG      +  + 
Sbjct: 41  IYEIPEAWRYIKFASLVNFRIGKTPPRSEATFWGTEIPWVSISDMPISGYVTNARESISK 100

Query: 71  RQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLL 129
               +  + I  KG +L       + K  I D     +   + + P      +++ +L+
Sbjct: 101 LALKSKKIDISPKGTLLMS-FKLSIGKVAILDIPATHNEAIISIFPYANKENIIRDYLM 158



 Score = 38.6 bits (88), Expect = 1.7,   Method: Composition-based stats.
 Identities = 24/177 (13%), Positives = 50/177 (28%), Gaps = 12/177 (6%)

Query: 225 VGLVPDHWEVKPFFALVTELNRKNTK-----LIESNILSLSYGNIIQKLETRN----MGL 275
           +  +P+ W    F +LV     K           + I  +S  ++       N    +  
Sbjct: 41  IYEIPEAWRYIKFASLVNFRIGKTPPRSEATFWGTEIPWVSISDMPISGYVTNARESISK 100

Query: 276 KPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAW 335
                +   I   G ++  F         L         II+  +       I   YL  
Sbjct: 101 LALKSKKIDISPKGTLLMSFKLSIGKVAILDIPATHNEAIIS-IFPYANKENIIRDYLMI 159

Query: 336 LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
            +              G  ++L    +  L + +   +E   I   +++   ++  L
Sbjct: 160 FLPLISTLGDSKDAIKG--KTLNSTSISELLIPISNHEEMKRIIFKVDLLFQKVSQL 214


>gi|301633515|gb|ADK87069.1| type I restriction modification DNA specificity domain protein
           [Mycoplasma pneumoniae FH]
          Length = 145

 Score = 45.6 bits (106), Expect = 0.014,   Method: Composition-based stats.
 Identities = 24/127 (18%), Positives = 41/127 (32%), Gaps = 9/127 (7%)

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
           Y     V+   I             +   +        S    V     D  +L   +R+
Sbjct: 3   YSKTFRVEEKSITVSARGT----IGVVFYRDFAYLPAVSLICFVPKEEFDIRFLFHALRA 58

Query: 340 YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
               K   A G      L     K   + VP +K+Q +IT +++   +    L E +   
Sbjct: 59  IKFKKQGSATGQ-----LTVAQFKEYGIHVPSLKKQKEITAILDPLYSFFTDLNEGLPAE 113

Query: 400 IVLLKER 406
           I L K++
Sbjct: 114 IELRKKQ 120


>gi|262068314|ref|ZP_06027926.1| putative type I restriction-modification system S subunit
           [Fusobacterium periodonticum ATCC 33693]
 gi|291377970|gb|EFE85488.1| putative type I restriction-modification system S subunit
           [Fusobacterium periodonticum ATCC 33693]
          Length = 235

 Score = 45.6 bits (106), Expect = 0.015,   Method: Composition-based stats.
 Identities = 17/149 (11%), Positives = 46/149 (30%), Gaps = 5/149 (3%)

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
           G+ I K        +   +  Y       ++       N   S     V     +     
Sbjct: 23  GSKIGKYNFYTSSKEQNKFLDYYEYSNEALIIGTGGNANLHHSYGKFSVSTDCFV---LE 79

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
           +   + +      +L+++  + +          + +  E ++ + + + P+++Q  I  V
Sbjct: 80  SKDKNFLIEFIYRYLLKNIYILE--NGFRGAGLKHISKEYLENIKIPIIPLEKQKIIIKV 137

Query: 382 INVETARIDVLVEKIEQSIVLLKERRSSF 410
           +      ID   +       L K   ++ 
Sbjct: 138 LKNIDIFIDENKQIKNNLNFLSKSLFTTM 166


>gi|295087104|emb|CBK68627.1| Site-specific recombinase XerD [Bacteroides xylanisolvens XB1A]
          Length = 470

 Score = 45.6 bits (106), Expect = 0.015,   Method: Composition-based stats.
 Identities = 17/124 (13%), Positives = 46/124 (37%), Gaps = 6/124 (4%)

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV-FYAMGSGLR 354
           +      +   + + +   I   A +          +L   + S+D     F A+   ++
Sbjct: 1   MIGTIGNKYFVTEKNVNFAIKNMALLKTSKSMYIMYFLWLYLSSWDYKHYEFNAISGSIQ 60

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAA 414
           + L  + ++ +PV          I    N + + I   +  +++  + L ++R+  +   
Sbjct: 61  KFLSLDAMRNIPVPF-NYD----IAVAFNKQVSNICRCITNLKEENIQLIKQRNELLPLL 115

Query: 415 VTGQ 418
           + GQ
Sbjct: 116 MNGQ 119


>gi|319777299|ref|YP_004136950.1| hypothetical protein MfeM64YM_0575 [Mycoplasma fermentans M64]
 gi|318038374|gb|ADV34573.1| Conserved Hypothetical Protein [Mycoplasma fermentans M64]
          Length = 250

 Score = 45.6 bits (106), Expect = 0.015,   Method: Composition-based stats.
 Identities = 21/159 (13%), Positives = 51/159 (32%), Gaps = 4/159 (2%)

Query: 231 HWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGE 290
           +            + +KN   +  N  S +      + +     +KP+      +++ G+
Sbjct: 94  NEIPFEIPKKWAWVRQKNILKLTKNEASKNGNYPYLEAKVLRKIIKPKIINNGVLINKGD 153

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG 350
           IV       + +  +    + + G + S +  +K +         ++  +          
Sbjct: 154 IVILVDGENSGETFV----LDQTGYMGSTFKLLKINNKIDQEYVLMLLKFYKELFKKNKK 209

Query: 351 SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
                 L  +    L + +P IKEQ +I   +      I
Sbjct: 210 GAAIPHLNIDIFNNLLLAIPNIKEQKEIILKLKKIDNFI 248



 Score = 43.6 bits (101), Expect = 0.066,   Method: Composition-based stats.
 Identities = 32/162 (19%), Positives = 59/162 (36%), Gaps = 12/162 (7%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            IPK W  V  K   KL     S++G +  Y+  + +       +  +G           
Sbjct: 99  EIPKKWAWVRQKNILKLTKNEASKNG-NYPYLEAKVLRKIIKPKIINNGV---------- 147

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           +  KG I+    G    +  + D  G   + F +L+  + +       +L     +  + 
Sbjct: 148 LINKGDIVILVDGENSGETFVLDQTGYMGSTFKLLKINNKID-QEYVLMLLKFYKELFKK 206

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
             +GA + H +     N+ + IP + EQ  I  K+      I
Sbjct: 207 NKKGAAIPHLNIDIFNNLLLAIPNIKEQKEIILKLKKIDNFI 248


>gi|311900118|dbj|BAJ32526.1| hypothetical protein KSE_67680 [Kitasatospora setae KM-6054]
          Length = 465

 Score = 45.6 bits (106), Expect = 0.015,   Method: Composition-based stats.
 Identities = 28/138 (20%), Positives = 48/138 (34%), Gaps = 5/138 (3%)

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVME--RGIITSAYMAVKP-HGIDSTYLAWLMR 338
           T   + PG+IV              +    E     +  + + V+P  G+   YL  ++ 
Sbjct: 68  TRHRLAPGDIVMTGKSGSPHLVGRSALWSGEVEGCCLNGSLIRVRPGRGVHPGYLHRVLY 127

Query: 339 SYDLCKVF--YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
              LC  F     G+   + L    V+   V VPP+  Q  I+  +    A I+      
Sbjct: 128 YDALCGAFAGQLKGNSRLKHLDTGTVRAWRVPVPPLPVQQRISAAVEGMLADINAGEALQ 187

Query: 397 EQSIVLLKERRSSFIAAA 414
             +   L+    S + A 
Sbjct: 188 AATRSDLRMLWDSVLDAV 205



 Score = 44.4 bits (103), Expect = 0.038,   Method: Composition-based stats.
 Identities = 57/402 (14%), Positives = 126/402 (31%), Gaps = 40/402 (9%)

Query: 20  AIPKHWKVVPIKRFTKLN--TGRTSESGKDIIY---IGLEDVESGTGKYLPKDGNSRQSD 74
            +P  W  + I +  ++   +G     G  I     +   +V                  
Sbjct: 6   DLPPGWSHLRIDQIAQVQAGSGSVRPPGPGIALHAQLTSANVSWAGLDLRMLAETWLTRH 65

Query: 75  TSTVSIFAKGQILY-GKLGP---YLRKAII---ADFDGICSTQFLVLQPKDVLPELLQGW 127
            +T    A G I+  GK G      R A+     +   +  +   V   + V P  L   
Sbjct: 66  QATRHRLAPGDIVMTGKSGSPHLVGRSALWSGEVEGCCLNGSLIRVRPGRGVHPGYLHRV 125

Query: 128 LLSIDVTQRIEAICEGATM-SHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT 186
           L    +        +G +   H D   +    +P+PPL  Q  I   +      I+    
Sbjct: 126 LYYDALCGAFAGQLKGNSRLKHLDTGTVRAWRVPVPPLPVQQRISAAVEGMLADINAGEA 185

Query: 187 ERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
            +      L+    +++  +    L+                  H  +    ++V  +  
Sbjct: 186 LQAATRSDLRMLWDSVLDAVADGTLDNRPP----------ESASHHRIHEVASVVGGVQA 235

Query: 247 KNTKLIESNILSLSYGN------IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQN 300
             T         L   N       + +++   +  +   +  + ++   ++V    +   
Sbjct: 236 PRTVEDGVRHTYLRVANIAPETVDLDQVKHLTIPRERVCFLQHHLLQKDDLVVVRQNGSP 295

Query: 301 DKRSLRSAQVM--ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS-- 356
           D+    +         +I +    ++P+GIDS YL  +  +    +    + +    S  
Sbjct: 296 DRLGQAALWHGQLPDILIQNHLARIRPYGIDSRYLELVWNAPSTLRPLRPLATSTTGSRT 355

Query: 357 LKFEDVKRLPVLVPPIKEQFDITN-------VINVETARIDV 391
           L+ +D++ + V VP    Q ++          ++   A +D 
Sbjct: 356 LRLDDIRAVRVRVPSAAAQAELVRAADRWKGHVDAVGALLDN 397


>gi|301598232|ref|ZP_07243240.1| putative restriction-modification protein [Acinetobacter baumannii
           AB059]
          Length = 162

 Score = 45.6 bits (106), Expect = 0.016,   Method: Composition-based stats.
 Identities = 25/145 (17%), Positives = 57/145 (39%), Gaps = 8/145 (5%)

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY- 320
             +I + E     +       Y+ V   E+V        D+  L   +  +   ++ AY 
Sbjct: 9   HGLIDQHEKFKKRVASSDISGYKKVFKNELVM---GFPIDEGVLGFQKYYDAAAVSPAYK 65

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFD 377
           +      ++  YL  ++RS  L K++ +   G    R+S+  E    + +  PP + +  
Sbjct: 66  IFRLKREVNVEYLDLILRSNSLRKIYKSKMQGSVERRRSIPDEMFLNIEIPNPPEEVKDQ 125

Query: 378 ITNVINVETARIDVLVEKIEQSIVL 402
           I    +     I+  +++ ++ + L
Sbjct: 126 IVKQ-HKLIKEIENSLKENQKKLRL 149


>gi|195978029|ref|YP_002123273.1| type I restriction- system specificity subunit [Streptococcus equi
           subsp. zooepidemicus MGCS10565]
 gi|195974734|gb|ACG62260.1| type I restriction- system specificity subunit [Streptococcus equi
           subsp. zooepidemicus MGCS10565]
          Length = 198

 Score = 45.6 bits (106), Expect = 0.016,   Method: Composition-based stats.
 Identities = 31/192 (16%), Positives = 67/192 (34%), Gaps = 14/192 (7%)

Query: 26  KVVPIKRFTKLNTGRTSESG---KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + +P+ +      G+         +   I L D+      Y                I  
Sbjct: 14  EKIPLGQVVDCFKGKAVSRKAEAGEFGLINLSDMGQLGIDYRQVRAFHMDRRQLLRYILE 73

Query: 83  KGQILYGKLGPYLRKAIIA--DFDGICSTQFLVLQPKDVLPELLQGWLLSIDV-TQRIEA 139
            G +L    G   +  +    + + + S+   VL+P+ VL      + L   +    ++A
Sbjct: 74  DGDVLIASKGTVQKVCVFHKQEKEMVASSNITVLRPQRVLRGYYIKFFLESAIGQALLKA 133

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
              G  + +   K + +IP+P+ PL +Q            +    + +  R +   +++ 
Sbjct: 134 ADHGKDVINLSTKALLDIPVPVIPLVKQ-------DYLINQYLRGLHDYQRKVNRAEQEW 186

Query: 200 QALVSYIVTKGL 211
           Q  +   + KGL
Sbjct: 187 Q-FIQNEIQKGL 197


>gi|303243809|ref|ZP_07330149.1| restriction modification system DNA specificity domain protein
           [Methanothermococcus okinawensis IH1]
 gi|302485745|gb|EFL48669.1| restriction modification system DNA specificity domain protein
           [Methanothermococcus okinawensis IH1]
          Length = 160

 Score = 45.6 bits (106), Expect = 0.016,   Method: Composition-based stats.
 Identities = 26/149 (17%), Positives = 48/149 (32%), Gaps = 14/149 (9%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +P+ WK+V +     +         +        ++        P  G +   D     
Sbjct: 2   ELPEGWKLVKLGDIADILDKFRKPLNRYERETRKGNI--------PYCGANGIIDYINDY 53

Query: 80  IFAKGQILYGKLGPYLRKA----IIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
           IF    +L  + G + +K      +       +    VLQ K         + +     +
Sbjct: 54  IFDGEYLLVAEDGGFFKKFERSSYLFKGKFWANNHVHVLQIKKEFSLNKYVYYV--LYFE 111

Query: 136 RIEAICEGATMSHADWKGIGNIPMPIPPL 164
            +E  C GAT    + K +  I +PIP  
Sbjct: 112 NLEKYCSGATRLKLNQKKLKEILIPIPYK 140



 Score = 44.8 bits (104), Expect = 0.028,   Method: Composition-based stats.
 Identities = 17/117 (14%), Positives = 37/117 (31%), Gaps = 11/117 (9%)

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA--VKPHGIDSTYLAW 335
             Y    I D   ++         K    S     +    +      +K     + Y+ +
Sbjct: 47  IDYINDYIFDGEYLLVAEDGGFFKKFERSSYLFKGKFWANNHVHVLQIKKEFSLNKYVYY 106

Query: 336 LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV------PPIKEQFDITNVINVET 386
           ++   +L K         R  L  + +K + + +      P +++Q +I N I    
Sbjct: 107 VLYFENLEKYC---SGATRLKLNQKKLKEILIPIPYKDGKPDLQKQKEIVNKIETLF 160


>gi|229553888|ref|ZP_04442613.1| conserved hypothetical protein [Lactobacillus rhamnosus LMS2-1]
 gi|229312747|gb|EEN78720.1| conserved hypothetical protein [Lactobacillus rhamnosus LMS2-1]
          Length = 132

 Score = 45.6 bits (106), Expect = 0.016,   Method: Composition-based stats.
 Identities = 9/64 (14%), Positives = 18/64 (28%), Gaps = 1/64 (1%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+   +    +   GR  +  + +       +  G   Y          +        KG
Sbjct: 68  WEKRKLGELAEFINGRAYKQDELLTSGKYPVLRVGNF-YTNDKWYYSDLELPEKYYAKKG 126

Query: 85  QILY 88
            +LY
Sbjct: 127 DLLY 130



 Score = 37.5 bits (85), Expect = 4.4,   Method: Composition-based stats.
 Identities = 9/32 (28%), Positives = 15/32 (46%), Gaps = 4/32 (12%)

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
           VLVP + EQ  I         ++D L+   ++
Sbjct: 5   VLVPNLDEQQKIGTF----FKQLDHLITLHQR 32


>gi|148978191|ref|ZP_01814721.1| putative specificity protein s [Vibrionales bacterium SWAT-3]
 gi|145962613|gb|EDK27889.1| putative specificity protein s [Vibrionales bacterium SWAT-3]
          Length = 257

 Score = 45.6 bits (106), Expect = 0.017,   Method: Composition-based stats.
 Identities = 21/180 (11%), Positives = 55/180 (30%), Gaps = 7/180 (3%)

Query: 245 NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
             K     E + + L+           +   +       ++++PG+ +   +    ++  
Sbjct: 78  WTKKKHPDEVHYVDLANTKNGVIESVTSYEFEDAPSRARRVLNPGDTIVGTVRP-GNRSF 136

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD--LCKVFYAMGSGLRQSLKFEDV 362
               Q  +    ++ +  + P     + L +L  + D  + +       G   ++K   V
Sbjct: 137 AYIGQTEQPLTGSTGFAVLTPKEEFWSSLVYLATTNDDSIDEYARLADGGAYPAIKPAVV 196

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
                 +P       I       T  +     +       L   R + +   ++G I+L 
Sbjct: 197 AETECAIPTGD----IAKKFWEITGPMLKKANQNRLENEELAALRDTLLPKLLSGDIELP 252



 Score = 44.8 bits (104), Expect = 0.027,   Method: Composition-based stats.
 Identities = 22/108 (20%), Positives = 39/108 (36%), Gaps = 8/108 (7%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTSESGK---DIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           IP+ W    I    KL  G++    K   ++ Y+ L + ++G  +          + +  
Sbjct: 58  IPEGWTKGVISDIAKL-NGKSWTKKKHPDEVHYVDLANTKNGVIE-SVTSYEFEDAPSRA 115

Query: 78  VSIFAKGQILYGKLGPYLRKAIIA---DFDGICSTQFLVLQPKDVLPE 122
             +   G  + G + P  R        +     ST F VL PK+    
Sbjct: 116 RRVLNPGDTIVGTVRPGNRSFAYIGQTEQPLTGSTGFAVLTPKEEFWS 163


>gi|289647367|ref|ZP_06478710.1| predicted type I restriction-modification enzyme S subunit
           [Pseudomonas syringae pv. aesculi str. 2250]
          Length = 70

 Score = 45.6 bits (106), Expect = 0.017,   Method: Composition-based stats.
 Identities = 8/50 (16%), Positives = 17/50 (34%), Gaps = 7/50 (14%)

Query: 364 RLPVLVPPIKEQFDITNVINVETARIDVL-------VEKIEQSIVLLKER 406
             P+ VP + EQ  I   ++      + +        E  ++     +E 
Sbjct: 9   NFPIPVPSLTEQARIVATLDKFDTLTNSISEGLPRETELRQKQYEYYREL 58


>gi|302528796|ref|ZP_07281138.1| predicted protein [Streptomyces sp. AA4]
 gi|302437691|gb|EFL09507.1| predicted protein [Streptomyces sp. AA4]
          Length = 133

 Score = 45.2 bits (105), Expect = 0.018,   Method: Composition-based stats.
 Identities = 25/114 (21%), Positives = 40/114 (35%), Gaps = 14/114 (12%)

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFY--AMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
            +  +    IDS+YLA   RS DL          S +   +   D++ L V VP   EQ 
Sbjct: 22  YFRVLDKEMIDSSYLASWFRSSDLQAQASQLMFKSDMAPYINLRDIRTLVVPVPGKIEQC 81

Query: 377 DITNV----INVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
               V    ++V  A               L   R   +   ++G+  +R   +
Sbjct: 82  KQVEVQRGLLDVVHA--------AHSENKRLGRTRDELLPLLMSGKARVREAEK 127


>gi|321310222|ref|YP_004192551.1| type I restriction-modification system, S subunit (fragment)
           [Mycoplasma haemofelis str. Langford 1]
 gi|319802066|emb|CBY92712.1| type I restriction-modification system, S subunit (fragment)
           [Mycoplasma haemofelis str. Langford 1]
          Length = 120

 Score = 45.2 bits (105), Expect = 0.018,   Method: Composition-based stats.
 Identities = 14/83 (16%), Positives = 35/83 (42%), Gaps = 3/83 (3%)

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRL 365
            +    +   I++ Y  V    + ++   +        K+   +  G    ++  D++ L
Sbjct: 3   INLIDRDFFFISTIYKFVPHTWVLTSRYLYHFLLSHPQKIKGLIKDG---RIRKLDLEEL 59

Query: 366 PVLVPPIKEQFDITNVINVETAR 388
            + VPP++ Q  I NV++   ++
Sbjct: 60  IIPVPPLEIQERIANVLDKNRSQ 82


>gi|227364524|ref|ZP_03848587.1| restriction modification system DNA specificity subunit
           [Lactobacillus reuteri MM2-3]
 gi|227070451|gb|EEI08811.1| restriction modification system DNA specificity subunit
           [Lactobacillus reuteri MM2-3]
          Length = 162

 Score = 45.2 bits (105), Expect = 0.018,   Method: Composition-based stats.
 Identities = 10/96 (10%), Positives = 31/96 (32%), Gaps = 1/96 (1%)

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ 355
           I         R     +   +     A+K     S    + +      ++       +  
Sbjct: 64  ILFSVRAPVGRVNWANQDLAVGRGLAALKIKSGYSKEYLYYLFKKIGGQLDSLATGTVFT 123

Query: 356 SLKFEDVKRLPVLVP-PIKEQFDITNVINVETARID 390
           S+  ++++ + + +P  + +Q  I + +      I+
Sbjct: 124 SINKKELEAIELKIPVNLSDQEKIADYLQKIDQEIE 159



 Score = 40.9 bits (94), Expect = 0.36,   Method: Composition-based stats.
 Identities = 26/158 (16%), Positives = 54/158 (34%), Gaps = 3/158 (1%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K + +K    +  G++ +S              G   +           TS       G+
Sbjct: 4   KKIQLKDVADIVMGQSPKSVFYNTNGNGTPFLQGVRTFGENYPQIDTWTTSYNRKAKSGE 63

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           IL+    P  R    A+ D         L+ K    +    + L   +  +++++  G  
Sbjct: 64  ILFSVRAPVGR-VNWANQDLAVGRGLAALKIKSGYSK-EYLYYLFKKIGGQLDSLATGTV 121

Query: 146 MSHADWKGIGNIPMPIP-PLAEQVLIREKIIAETVRID 182
            +  + K +  I + IP  L++Q  I + +      I+
Sbjct: 122 FTSINKKELEAIELKIPVNLSDQEKIADYLQKIDQEIE 159


>gi|225870406|ref|YP_002746353.1| hypothetical protein SEQ_1032 [Streptococcus equi subsp. equi 4047]
 gi|225699810|emb|CAW93635.1| conserved hypothetical protein [Streptococcus equi subsp. equi
           4047]
          Length = 198

 Score = 45.2 bits (105), Expect = 0.018,   Method: Composition-based stats.
 Identities = 31/192 (16%), Positives = 67/192 (34%), Gaps = 14/192 (7%)

Query: 26  KVVPIKRFTKLNTGRTSESG---KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + +P+ +      G+         +   I L D+      Y                I  
Sbjct: 14  EKIPLGQVVDCFKGKAVSRKAEAGEFGLINLSDMGQLGIDYHQVRAFHMDRRQLLRYILE 73

Query: 83  KGQILYGKLGPYLRKAIIA--DFDGICSTQFLVLQPKDVLPELLQGWLLSIDV-TQRIEA 139
            G +L    G   +  +    + + + S+   VL+P+ VL      + L   +    ++A
Sbjct: 74  DGDVLIASKGTVQKVCVFHKQEREMVASSNITVLRPQRVLRGYYIKFFLESAIGQALLKA 133

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
              G  + +   K + +IP+P+ PL +Q            +    + +  R +   +++ 
Sbjct: 134 ADHGKDVINLSTKALLDIPVPVIPLVKQ-------DYLINQYLRGLHDYQRKVNRAEQEW 186

Query: 200 QALVSYIVTKGL 211
           Q  +   + KGL
Sbjct: 187 Q-FIQNEIQKGL 197


>gi|319758539|gb|ADV70481.1| type I restriction-modification system, S subunit [Streptococcus
           suis JS14]
          Length = 237

 Score = 45.2 bits (105), Expect = 0.018,   Method: Composition-based stats.
 Identities = 24/172 (13%), Positives = 53/172 (30%), Gaps = 10/172 (5%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDV-ESGTGKYLPKDGNSRQ 72
            +P  W  V        N G+T         G DI ++ + D+  +G      +  +   
Sbjct: 65  KLPSSWCYVKFGGLVLFNIGKTPPRSEPNYWGDDIPWVSISDMSNNGHIFKTKEYLSDFA 124

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPK-DVLPELLQGWLLSI 131
            +   V I + G +L        + A+  +     +   + + P  D    +    +  +
Sbjct: 125 INQKKVKIASAGTLLMSFKLTIGKVAL--EVPASHNEAIISIFPYGDKENIIRDYLMRFL 182

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
            +        +       +   I  + +PI    E   I  K+     ++  
Sbjct: 183 PLISTTGNSKDAIKGKTLNSTSISGLLIPISNYREMKDIVTKVDLLFEKVAQ 234


>gi|319400013|gb|EFV88255.1| hypothetical protein GSEF_1922 [Staphylococcus epidermidis FRI909]
          Length = 193

 Score = 45.2 bits (105), Expect = 0.019,   Method: Composition-based stats.
 Identities = 21/147 (14%), Positives = 53/147 (36%), Gaps = 17/147 (11%)

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
             +   S    ++V  G+IV   +   ++   +              ++ +    ID+ Y
Sbjct: 53  KHVTLSSTHQAKMVHTGDIVINMM--TSECVIVSQQHHESILPYNYTHIEIDTTHIDANY 110

Query: 333 LAWLMR-SYDLCKVFY--AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
             + M  S            G  L + L    +K+L + +P +++Q  I         ++
Sbjct: 111 FVYWMNASAQAKSQLNQFKQGGSLVKKLTLNQLKQLKMTLPSLEQQQRIG--------KL 162

Query: 390 DVLVEKIEQSIVLLKERRSSFIAAAVT 416
           D    +  + +  L+ +R+  +   ++
Sbjct: 163 D----ERRRHLKYLQAKRTYLMDQFLS 185


>gi|322379133|ref|ZP_08053530.1| methylase [Helicobacter suis HS1]
 gi|321148429|gb|EFX42932.1| methylase [Helicobacter suis HS1]
          Length = 332

 Score = 45.2 bits (105), Expect = 0.019,   Method: Composition-based stats.
 Identities = 20/198 (10%), Positives = 54/198 (27%), Gaps = 9/198 (4%)

Query: 214 DVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ-KLETRN 272
             + K +  E +     H  +K    +   +   +       +  +   N+    L    
Sbjct: 127 YYQEKYTHNENLIKSHPHARLKDLVRIKKSIEPGSDAYKSVGVPFVRVSNLSPFDLSAST 186

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
           + L P+           E++F           +     +              + I   Y
Sbjct: 187 IFLDPKRDLESLYPKQNEVLFSKDGSIGIAYCVPQDLKVVLSSAILRLEIKDCNIISPHY 246

Query: 333 LAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDI-------TNVINV 384
           L+ ++ S  +           +   LK   +  L + +   + Q +I        ++   
Sbjct: 247 LSLVLTSQVVKLQVERESIGSVIAHLKLSKISNLLIPLLDQQIQQNIEIKLKKSADLRTQ 306

Query: 385 ETARIDVLVEKIEQSIVL 402
               +     ++E+ +  
Sbjct: 307 SFKLLKRAKTEVERQLTH 324


>gi|146291273|ref|YP_001181697.1| hypothetical protein Sputcn32_0162 [Shewanella putrefaciens CN-32]
 gi|145562963|gb|ABP73898.1| conserved hypothetical protein [Shewanella putrefaciens CN-32]
          Length = 204

 Score = 45.2 bits (105), Expect = 0.020,   Method: Composition-based stats.
 Identities = 21/135 (15%), Positives = 52/135 (38%), Gaps = 11/135 (8%)

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA-----VKPHGIDSTY 332
           ++ +    ++ G+++F          S+   QV+ER + +  +            I   +
Sbjct: 63  KTKKQPDWLENGDVLFVAKGA--KHYSVLVEQVLERTVCSPHFFMLRLKPEFKDVIVPDF 120

Query: 333 LAWLMRSYDLCKVFYAMGSGLRQ-SLKFEDVKRLPVLVPPIKEQFDITNVINVETAR--- 388
           L W +      + F A   G    S++ + ++ +P+ V   ++Q  +  +          
Sbjct: 121 LCWQLNQQPAQRYFKATAEGSMYLSIRRQVLENVPIKVLNFEKQKQLAAMHRCAVREQKV 180

Query: 389 IDVLVEKIEQSIVLL 403
           +  L+E  +Q I  +
Sbjct: 181 LQKLIENRQQQIEAI 195


>gi|330994839|ref|ZP_08318761.1| Type-1 restriction enzyme MjaXIP specificity protein
           [Gluconacetobacter sp. SXCC-1]
 gi|329758100|gb|EGG74622.1| Type-1 restriction enzyme MjaXIP specificity protein
           [Gluconacetobacter sp. SXCC-1]
          Length = 340

 Score = 45.2 bits (105), Expect = 0.020,   Method: Composition-based stats.
 Identities = 20/115 (17%), Positives = 38/115 (33%), Gaps = 3/115 (2%)

Query: 301 DKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFE 360
             R +              ++     G+D  ++A  + +              R  L   
Sbjct: 27  PARDVAFFHEGPLWAGNHVHVLRPRAGVDGRFVAHALNTVAYDAYVE---GATRPKLTRA 83

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
            +  LPV  PP   Q  I   ++   ARI   + ++     L +E+  + +  AV
Sbjct: 84  RMNSLPVPCPPPACQRRIARELDGALARIARQLHELSVQAALAREQADAALWHAV 138



 Score = 37.9 bits (86), Expect = 2.9,   Method: Composition-based stats.
 Identities = 28/187 (14%), Positives = 59/187 (31%), Gaps = 10/187 (5%)

Query: 30  IKRFTKLNTGRTSES------GKDIIYIGLEDVESG---TGKYLPKDGNSRQSDTSTVSI 80
           +     +  G T  +      G D+ ++   D+ +G     ++  +  +         ++
Sbjct: 149 LGSVFDIVGGGTPPTARADCWGGDVPWLTPADLPAGAPVRLRHGARGLSIAGLAACRATL 208

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
              G ++     P  R   + +     S     L P+     L     L       +   
Sbjct: 209 VPPGALVVSTRAPVGR-VGMTEVAVSVSQGCKALVPRGGDVALDYAAFLLRAHAPVLRQR 267

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
             G+  +  D   + ++ +P+PPL  Q  +     A   R+          +  L E + 
Sbjct: 268 AGGSVFAEVDTATLASLELPLPPLPVQRAVARTAWATMARLAAQDAAHAAMVAALHEYRP 327

Query: 201 ALVSYIV 207
           AL    V
Sbjct: 328 ALRHARV 334


>gi|218437967|ref|YP_002376296.1| restriction modification system DNA specificity domain protein
           [Cyanothece sp. PCC 7424]
 gi|218170695|gb|ACK69428.1| restriction modification system DNA specificity domain protein
           [Cyanothece sp. PCC 7424]
          Length = 228

 Score = 45.2 bits (105), Expect = 0.020,   Method: Composition-based stats.
 Identities = 23/170 (13%), Positives = 62/170 (36%), Gaps = 5/170 (2%)

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRF 295
                   +N + ++     + ++  G +  K        K  + + +QI + G+I+   
Sbjct: 53  SIDKEDYNINGQPSEYAHITVRNIVQGELNLKDLIYLNEDKGITLKNFQI-EKGDILIAI 111

Query: 296 IDLQNDKRSLRSAQVMERGIITSAY--MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG- 352
                    + +     +  ++     + V    I+   L + + S  +   F ++ +G 
Sbjct: 112 SSNVGVSCLVETVPSNLQLTLSHYIVKIKVDTSRINPKLLVYYLNSSKIKNYFRSVETGK 171

Query: 353 LRQSLKFEDVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIV 401
             ++L    +  LP+ +P   ++Q +I   I      I  +   I++ + 
Sbjct: 172 TLKNLSKNYIYNLPISLPKNTQKQLEIVKRIQPIETDILKIKASIKEPLE 221


>gi|311278009|ref|YP_003940240.1| hypothetical protein Entcl_0681 [Enterobacter cloacae SCF1]
 gi|308747204|gb|ADO46956.1| hypothetical protein Entcl_0681 [Enterobacter cloacae SCF1]
          Length = 190

 Score = 45.2 bits (105), Expect = 0.021,   Method: Composition-based stats.
 Identities = 24/161 (14%), Positives = 53/161 (32%), Gaps = 15/161 (9%)

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
           +    L +       ++++   I   G++V   I        + +             + 
Sbjct: 41  DWQSGLVSAEKEQWVKTHQDVVITQKGDVVISLI--HGKAVRVSAENAGRILGNNYVKVD 98

Query: 323 VKPHGIDSTYLAWLMRSY---DLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
           V    ID+ +  W           ++    GS + Q +   ++K   V +PP+ +Q  + 
Sbjct: 99  VDTSRIDAAWFLWHFNESPEGRRQRIQTTQGSTVVQRIAVNELKNFTVSLPPLAQQKAMG 158

Query: 380 N-VINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
              +     R        +Q I  L E     ++  ++G I
Sbjct: 159 GLYLAAREKRF------YQQQIAALSE--QQILS-LLSGMI 190


>gi|325973637|ref|YP_004250701.1| type I restriction-modification system specificity subunit
           [Mycoplasma suis str. Illinois]
 gi|323652239|gb|ADX98321.1| type I restriction-modification system specificity subunit
           [Mycoplasma suis str. Illinois]
          Length = 192

 Score = 45.2 bits (105), Expect = 0.022,   Method: Composition-based stats.
 Identities = 24/175 (13%), Positives = 51/175 (29%), Gaps = 14/175 (8%)

Query: 229 PDHWEVKPFFALVTELNRKNTKLIESN--------ILSLSYGNIIQKLETRNMGLKPESY 280
           P  WE      L T    K T   +++        I  +   +            K   Y
Sbjct: 4   PKKWEWVTLDKLGTFHRGKQTHYPKNDRTLFEGGTIPFIETQDCKSSRLFIKDVRKF--Y 61

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH--GIDSTYLAWLMR 338
               +          + + N+     SA +  +  ++             D  ++ +   
Sbjct: 62  NQKGLQQGRLFPKNTVCISNNGNVADSAILDSQSCLSCDVHGFNSFSGISDPFFIKYCFD 121

Query: 339 SYDLCK--VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
              +    +  A  +  R SL  E +K +    P  + Q  I ++++     I+ 
Sbjct: 122 FSKVKNTCISLAKSATTRLSLTTERLKIVEFPYPIYEIQQKIGSILSSRDLLIEN 176



 Score = 42.5 bits (98), Expect = 0.13,   Method: Composition-based stats.
 Identities = 26/179 (14%), Positives = 50/179 (27%), Gaps = 11/179 (6%)

Query: 22  PKHWKVVPIKRFTKLNTGR---------TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           PK W+ V + +    + G+         T   G  I +I  +D +S             Q
Sbjct: 4   PKKWEWVTLDKLGTFHRGKQTHYPKNDRTLFEGGTIPFIETQDCKSSRLFIKDVRKFYNQ 63

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIA-DFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
                  +F K  +     G     AI+       C             P  ++      
Sbjct: 64  KGLQQGRLFPKNTVCISNNGNVADSAILDSQSCLSCDVHGFNSFSGISDPFFIKYCFDFS 123

Query: 132 DVTQRIEAICEG-ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI 189
            V     ++ +   T      + +  +  P P    Q  I   + +  + I+    +  
Sbjct: 124 KVKNTCISLAKSATTRLSLTTERLKIVEFPYPIYEIQQKIGSILSSRDLLIENNEMQNR 182


>gi|284048511|ref|YP_003398850.1| restriction modification system DNA specificity domain protein
           [Acidaminococcus fermentans DSM 20731]
 gi|283952732|gb|ADB47535.1| restriction modification system DNA specificity domain protein
           [Acidaminococcus fermentans DSM 20731]
          Length = 168

 Score = 45.2 bits (105), Expect = 0.022,   Method: Composition-based stats.
 Identities = 16/106 (15%), Positives = 37/106 (34%), Gaps = 7/106 (6%)

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
           +  I  Q       +  + +      A         D+ +L +++ + +L +     G  
Sbjct: 64  YALIGRQGALCGNMTFSMGKAYFTEHAVAVKANEINDTKFLYYILCNMNLGQY---SGQS 120

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
            +  L    +  L   VP  +EQ  I++ +       D L+   ++
Sbjct: 121 AQPGLAVNKLIALKAFVPGKQEQLKISSYLGA----FDNLITLHQR 162


>gi|237740353|ref|ZP_04570834.1| restriction endonuclease S [Fusobacterium sp. 2_1_31]
 gi|229422370|gb|EEO37417.1| restriction endonuclease S [Fusobacterium sp. 2_1_31]
          Length = 182

 Score = 45.2 bits (105), Expect = 0.023,   Method: Composition-based stats.
 Identities = 21/151 (13%), Positives = 51/151 (33%), Gaps = 1/151 (0%)

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
                 G    + +T    +  +    Y       +    I +             ++  
Sbjct: 28  YNKDKKGLPFYQGKTEFSDIYIKEPTVYCNSPIKVVEENDILMSVRAPVGDVNIATQKSC 87

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
           I     ++KP  ID  YL +L++          +GS   +++   ++  L + +    +Q
Sbjct: 88  IGRGLASIKPKKIDYLYLFYLLKEQKSKIEKIGVGS-TFKAINKNNISTLKISIVEKDKQ 146

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKER 406
             I N ++        ++  I ++   +K+R
Sbjct: 147 NKIRNYLSSIEKLKFTIMTIILKAYKTMKKR 177



 Score = 41.3 bits (95), Expect = 0.29,   Method: Composition-based stats.
 Identities = 26/173 (15%), Positives = 56/173 (32%), Gaps = 4/173 (2%)

Query: 27  VVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNS-RQSDTSTVSIFAKGQ 85
              +     +  G++  S              G  ++             S + +  +  
Sbjct: 8   EKQLNDVADIIMGQSPLSQSYNKDKKGLPFYQGKTEFSDIYIKEPTVYCNSPIKVVEEND 67

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           IL     P      IA            ++PK +    L  + L  +   +IE I  G+T
Sbjct: 68  ILMSVRAPV-GDVNIATQKSCIGRGLASIKPKKID--YLYLFYLLKEQKSKIEKIGVGST 124

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
               +   I  + + I    +Q  IR  + +      T++T  ++  + +K++
Sbjct: 125 FKAINKNNISTLKISIVEKDKQNKIRNYLSSIEKLKFTIMTIILKAYKTMKKR 177


>gi|332289024|ref|YP_004419876.1| hypothetical protein UMN179_00951 [Gallibacterium anatis UMN179]
 gi|330431920|gb|AEC16979.1| hypothetical protein UMN179_00951 [Gallibacterium anatis UMN179]
          Length = 194

 Score = 45.2 bits (105), Expect = 0.023,   Method: Composition-based stats.
 Identities = 15/127 (11%), Positives = 44/127 (34%), Gaps = 10/127 (7%)

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP-HGIDSTYLAWLMR- 338
           +   ++   +++F  I       +++  Q       +  Y  + P   +D ++L +L+  
Sbjct: 55  DNPTLLQEDDVIFSLISGS----AVQVCQARAGYAFSHNYARLYPSKELDKSFLVYLLNN 110

Query: 339 -SYDLCKVFYAMGSGLRQSLKFEDVKRLPV-LVPPIKEQFDI--TNVINVETARIDVLVE 394
            +    ++  ++            +K L +  +P +  Q  I   + +      +   V 
Sbjct: 111 DTDIKRQLVASLQGSSVMKYSINQLKNLQLSPLPTLSVQQAIGQVDRLQRRITMLKKRVA 170

Query: 395 KIEQSIV 401
             E  + 
Sbjct: 171 DNEAQLT 177


>gi|120553351|ref|YP_957702.1| restriction modification system DNA specificity subunit
           [Marinobacter aquaeolei VT8]
 gi|120323200|gb|ABM17515.1| restriction modification system DNA specificity domain
           [Marinobacter aquaeolei VT8]
          Length = 588

 Score = 44.8 bits (104), Expect = 0.024,   Method: Composition-based stats.
 Identities = 22/132 (16%), Positives = 52/132 (39%), Gaps = 12/132 (9%)

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID--STYLAWLMRS 339
             Q + PG+I+         + +       +  I   A++ ++P   +  + YL   + S
Sbjct: 450 QNQRIYPGDILLAIKGSVG-RVAFVDDTCGDNWIAGQAFIIIRPTSANISTPYLYRYLAS 508

Query: 340 YDLCKVFYAMGSGLRQSL-KFEDVKRLPVLVPPIKEQFDITNVINVETARI---DVLVEK 395
             + +    + +G   +L K  DV  +P+ +P  +    I   +     +I     +++K
Sbjct: 509 ELIQQYVQEVATGGVMALLKAADVSGIPLPLPEPE----ILKSVEETHQQILAEYEVIKK 564

Query: 396 IEQSIVLLKERR 407
              ++  L E +
Sbjct: 565 HRDTVRRL-ELK 575


>gi|294660606|ref|NP_853465.2| type I restriction-modification system specificity subunit
           domain-containing protein [Mycoplasma gallisepticum str.
           R(low)]
 gi|284812269|gb|AAP57033.2| type I restriction-modification system specificity (S) subunit
           domain protein [Mycoplasma gallisepticum str. R(low)]
 gi|284930963|gb|ADC30902.1| type I restriction-modification system specificity (S) subunit
           domain protein [Mycoplasma gallisepticum str. R(high)]
 gi|284931719|gb|ADC31657.1| type I restriction-modification system specificity (S) subunit
           domain protein [Mycoplasma gallisepticum str. F]
          Length = 205

 Score = 44.8 bits (104), Expect = 0.024,   Method: Composition-based stats.
 Identities = 14/153 (9%), Positives = 46/153 (30%), Gaps = 14/153 (9%)

Query: 272 NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST 331
           N   + ++ +    V   + +   +     +               +  +  +      T
Sbjct: 51  NKTTEEKTNKNRYPVYSSQTLNNGLLGYYHEYLYEDTITWTTDGANAGTVNFRSGKFYCT 110

Query: 332 YLAWLMRSYDLC------KVFYAMGSG-----LRQSLKFEDVKRLPVLVPPIKEQFDITN 380
            +  ++ S  +       +    +            L    +  + +++P  +E+ +   
Sbjct: 111 NVCGVLLSKKVKADKMIAEALNNVAKSYVSYVGNPKLMNNVMAGVEIMIPTNEEERE--- 167

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            I+   A +D L+   +  +  LK  + S +  
Sbjct: 168 KISNIFATLDHLITLNQLKLEKLKNIKQSLLEK 200


>gi|225868641|ref|YP_002744589.1| hypothetical protein SZO_10620 [Streptococcus equi subsp.
           zooepidemicus]
 gi|225701917|emb|CAW99428.1| conserved hypothetical protein [Streptococcus equi subsp.
           zooepidemicus]
          Length = 198

 Score = 44.8 bits (104), Expect = 0.024,   Method: Composition-based stats.
 Identities = 31/192 (16%), Positives = 67/192 (34%), Gaps = 14/192 (7%)

Query: 26  KVVPIKRFTKLNTGRTSESG---KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + +P+ +      G+         +   I L D+      Y                I  
Sbjct: 14  EKIPLGQVVDCFKGKAVSRKAEAGEFGLINLSDMGQLGIDYRQVRVFHMDRRQLLRYILE 73

Query: 83  KGQILYGKLGPYLRKAIIA--DFDGICSTQFLVLQPKDVLPELLQGWLLSIDV-TQRIEA 139
            G +L    G   +  +    + + + S+   VL+P+ VL      + L   +    ++A
Sbjct: 74  DGDVLIASKGTVQKVCVFHKQEREMVASSNITVLRPQRVLRGYYIKFFLESAIGQALLKA 133

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
              G  + +   K + +IP+P+ PL +Q            +    + +  R +   +++ 
Sbjct: 134 ADHGKDVINLSTKALLDIPVPVIPLVKQ-------DYLINQYLRGLHDYQRKVSRAEQEW 186

Query: 200 QALVSYIVTKGL 211
           Q  +   + KGL
Sbjct: 187 Q-FIQNEIQKGL 197


>gi|301348563|ref|ZP_07229304.1| putative restriction-modification protein [Acinetobacter baumannii
           AB056]
          Length = 206

 Score = 44.8 bits (104), Expect = 0.024,   Method: Composition-based stats.
 Identities = 25/145 (17%), Positives = 57/145 (39%), Gaps = 8/145 (5%)

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY- 320
             +I + E     +       Y+ V   E+V        D+  L   +  +   ++ AY 
Sbjct: 53  HGLIDQHEKFKKRVASSDISGYKKVFKNELVM---GFPIDEGVLGFQKYYDAAAVSPAYK 109

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFD 377
           +      ++  YL  ++RS  L K++ +   G    R+S+  E    + +  PP + +  
Sbjct: 110 IFRLKREVNVEYLDLILRSNSLRKIYKSKMQGSVERRRSIPDEMFLNIEIPNPPEEVKDQ 169

Query: 378 ITNVINVETARIDVLVEKIEQSIVL 402
           I    +     I+  +++ ++ + L
Sbjct: 170 IVKQ-HKLIKEIENSLKENQKKLRL 193


>gi|288905367|ref|YP_003430589.1| hypothetical protein GALLO_1166 [Streptococcus gallolyticus UCN34]
 gi|306831447|ref|ZP_07464605.1| type I restriction-modification system specificty subunit
           [Streptococcus gallolyticus subsp. gallolyticus TX20005]
 gi|325978356|ref|YP_004288072.1| hypothetical protein SGGBAA2069_c11560 [Streptococcus gallolyticus
           subsp. gallolyticus ATCC BAA-2069]
 gi|288732093|emb|CBI13658.1| conserved hypothetical protein [Streptococcus gallolyticus UCN34]
 gi|304426232|gb|EFM29346.1| type I restriction-modification system specificty subunit
           [Streptococcus gallolyticus subsp. gallolyticus TX20005]
 gi|325178284|emb|CBZ48328.1| hypothetical protein SGGBAA2069_c11560 [Streptococcus gallolyticus
           subsp. gallolyticus ATCC BAA-2069]
          Length = 198

 Score = 44.8 bits (104), Expect = 0.024,   Method: Composition-based stats.
 Identities = 27/151 (17%), Positives = 55/151 (36%), Gaps = 6/151 (3%)

Query: 28  VPIKRFTKLNTGRTSES---GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           +P+K  T+   G+         +I  I L D++     Y           + +  +  +G
Sbjct: 16  IPLKEITEHFKGKAVSKLGDSGNISVINLSDMDDTGIDYAHLKKIDCDEKSVSHYLLQEG 75

Query: 85  QILYGKLGPYLRKAII--ADFDGICSTQFLVLQPKDVLPELLQGWLLSIDV-TQRIEAIC 141
            +L    G   + A+    D   I S    VL+P   +        L+ D+    ++   
Sbjct: 76  DVLIASKGTVKKIAVFAEQDEPVIASANITVLRPTSDILGGYIRLFLASDLGQALLDETN 135

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIRE 172
            G  + + + + I +I +P  P   Q  + +
Sbjct: 136 TGKNVMNLNTQKIISIEIPKIPSIRQAYLIQ 166


>gi|257440122|ref|ZP_05615877.1| putative type I restriction-modification system subunit S
           [Faecalibacterium prausnitzii A2-165]
 gi|257197474|gb|EEU95758.1| putative type I restriction-modification system subunit S
           [Faecalibacterium prausnitzii A2-165]
          Length = 187

 Score = 44.8 bits (104), Expect = 0.024,   Method: Composition-based stats.
 Identities = 28/187 (14%), Positives = 60/187 (32%), Gaps = 7/187 (3%)

Query: 217 MKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK 276
           M+ +  E    VP    +        +         +    +    N +  +  +   L 
Sbjct: 1   MRFNLWEDCNRVPLTELLSFIVDNRGKTVPTAPSGHKLIATNCVTNNTLFPVYDKIRYLS 60

Query: 277 PESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY-MAVKPHGIDSTYLAW 335
            E+Y+T+    P      F++     R       ++  I      +      I   YL  
Sbjct: 61  EETYQTWFRAHPIPGDILFVNKGTPGRVCLVPDPVDFCIAQDMIALRADESKIYPKYLFT 120

Query: 336 LMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
           ++RS ++ +  Y    G +    K + + +L + +P    Q  I ++  V       L  
Sbjct: 121 VLRSREIQQQIYNTNVGDVIPHFKKQFLDQLLIPIPERSIQESIGDLYYVL-----SLKA 175

Query: 395 KIEQSIV 401
           +  + I 
Sbjct: 176 ERNKKIN 182


>gi|227892235|ref|ZP_04010040.1| possible restriction modification system DNA specificity protein
           [Lactobacillus salivarius ATCC 11741]
 gi|227865957|gb|EEJ73378.1| possible restriction modification system DNA specificity protein
           [Lactobacillus salivarius ATCC 11741]
          Length = 223

 Score = 44.8 bits (104), Expect = 0.025,   Method: Composition-based stats.
 Identities = 21/160 (13%), Positives = 49/160 (30%), Gaps = 10/160 (6%)

Query: 257 LSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGII 316
             +    + Q     N  L  +  +    ++ G+I+F +         L          +
Sbjct: 72  PVVKIRELNQGHTDSNSDLCRKDIDESVQINTGDIIFSWSGTL-----LLDLWAGNEAGL 126

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPPIKEQ 375
                 V  +   S ++    + Y       A         +K  ++K    ++P   E 
Sbjct: 127 NQHLFKVTSNDYPSWFIYEWTKYYLQEFQLIAKSKATTMGHIKRSNLKESFAIIPDDDE- 185

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
                 +N     I     KI +  ++L++ +   +A  +
Sbjct: 186 ---LTKLNNLLGPIFDNKIKIRKQNLILRQIKKQLLAKLL 222


>gi|301513225|ref|ZP_07238462.1| putative restriction-modification protein [Acinetobacter baumannii
           AB058]
          Length = 209

 Score = 44.8 bits (104), Expect = 0.025,   Method: Composition-based stats.
 Identities = 25/145 (17%), Positives = 57/145 (39%), Gaps = 8/145 (5%)

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY- 320
             +I + E     +       Y+ V   E+V        D+  L   +  +   ++ AY 
Sbjct: 56  HGLIDQHEKFKKRVASSDISGYKKVFKNELVM---GFPIDEGVLGFQKYYDAAAVSPAYK 112

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFD 377
           +      ++  YL  ++RS  L K++ +   G    R+S+  E    + +  PP + +  
Sbjct: 113 IFRLKREVNVEYLDLILRSNSLRKIYKSKMQGSVERRRSIPDEMFLNIEIPNPPEEVKDQ 172

Query: 378 ITNVINVETARIDVLVEKIEQSIVL 402
           I    +     I+  +++ ++ + L
Sbjct: 173 IVKQ-HKLIKEIENSLKENQKKLRL 196


>gi|210610696|ref|ZP_03288577.1| hypothetical protein CLONEX_00767 [Clostridium nexile DSM 1787]
 gi|210152329|gb|EEA83335.1| hypothetical protein CLONEX_00767 [Clostridium nexile DSM 1787]
          Length = 191

 Score = 44.8 bits (104), Expect = 0.026,   Method: Composition-based stats.
 Identities = 22/137 (16%), Positives = 46/137 (33%), Gaps = 6/137 (4%)

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME--RGIITS 318
           + N     E  ++    E  +    +  G+++        D+ ++    V +  +   + 
Sbjct: 39  FNNYFLPEELPDLMDTNEKEQQTYSIKAGDVLITRTSETIDELAMSCVAVKDYPKATYSG 98

Query: 319 AYMAVKPHGI---DSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKE 374
               ++P         Y+A+  RS    K         LR S   +    L V +P   E
Sbjct: 99  FTKRLRPKREGIAYPKYMAFYFRSALFRKAVTYNAFMTLRASFNEDIFTFLDVYLPDYDE 158

Query: 375 QFDITNVINVETARIDV 391
           Q  I +++     +I  
Sbjct: 159 QVRIGDMLYNIECKIRK 175



 Score = 36.7 bits (83), Expect = 7.2,   Method: Composition-based stats.
 Identities = 20/178 (11%), Positives = 49/178 (27%), Gaps = 13/178 (7%)

Query: 30  IKRFTKLNTGRTSES---GKDIIYIGLEDVESGTGKYLPK-DGNSRQSDTSTVSIFAKGQ 85
           +     +++G +S+    G    ++    V +         D                G 
Sbjct: 9   LSDLYDMSSGLSSKKEQAGHGAPFVSFGTVFNNYFLPEELPDLMDTNEKEQQTYSIKAGD 68

Query: 86  ILYGKLGPYLR-----KAIIADFDGICSTQFL-VLQPKDV---LPELLQGWLLSIDVTQR 136
           +L  +    +         + D+     + F   L+PK      P+ +  +  S    + 
Sbjct: 69  VLITRTSETIDELAMSCVAVKDYPKATYSGFTKRLRPKREGIAYPKYMAFYFRSALFRKA 128

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           +         +  +      + + +P   EQV I + +     +I             
Sbjct: 129 VTYNAFMTLRASFNEDIFTFLDVYLPDYDEQVRIGDMLYNIECKIRKNKEINDYLSYQ 186


>gi|50914300|ref|YP_060272.1| Type I restriction-modification system specificity subunit
           [Streptococcus pyogenes MGAS10394]
 gi|50903374|gb|AAT87089.1| Type I restriction-modification system specificity subunit
           [Streptococcus pyogenes MGAS10394]
          Length = 198

 Score = 44.8 bits (104), Expect = 0.027,   Method: Composition-based stats.
 Identities = 33/186 (17%), Positives = 69/186 (37%), Gaps = 10/186 (5%)

Query: 26  KVVPIKRFTKLNTGRTSESG---KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + V +        G+   +     D+  I L D+ +   +Y                +  
Sbjct: 14  EKVTLGTVVDCFKGKAVSNKVVPGDVGLINLSDMGTLGIQYHQVRTFQMDRRQLLRYLLE 73

Query: 83  KGQILYGKLGPYLRKAIIA--DFDGICSTQFLVLQPKDVLP-ELLQGWLLSIDVTQRIEA 139
            G +L    G   +  +    + D + S+   VL+P+ +L    ++ +L S      ++A
Sbjct: 74  DGDVLIASKGTLKKVCVFHKQNRDVVASSNITVLRPQKLLRGYYIKFFLDSPIGQALLDA 133

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
              G  + +   K + +IP+P+ PL +Q    + +I   +R  T    ++   E   E  
Sbjct: 134 ADHGKDVINLSTKELLDIPIPVIPLVKQ----DYLINHYLRGLTDYHRKLNRAEQEWEYI 189

Query: 200 QALVSY 205
           Q  +  
Sbjct: 190 QNEIQK 195



 Score = 38.2 bits (87), Expect = 2.4,   Method: Composition-based stats.
 Identities = 15/128 (11%), Positives = 47/128 (36%), Gaps = 9/128 (7%)

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
             +++ G+++         K  +   Q  +    ++  +      +   Y+ + + S   
Sbjct: 69  RYLLEDGDVLIASKG-TLKKVCVFHKQNRDVVASSNITVLRPQKLLRGYYIKFFLDSPIG 127

Query: 343 CKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNV----INVETARIDVLVEK-- 395
             +  A   G    +L  +++  +P+ V P+ +Q  + N     +     +++   ++  
Sbjct: 128 QALLDAADHGKDVINLSTKELLDIPIPVIPLVKQDYLINHYLRGLTDYHRKLNRAEQEWE 187

Query: 396 -IEQSIVL 402
            I+  I  
Sbjct: 188 YIQNEIQK 195


>gi|260428543|ref|ZP_05782522.1| N-6 DNA Methylase family protein [Citreicella sp. SE45]
 gi|260423035|gb|EEX16286.1| N-6 DNA Methylase family protein [Citreicella sp. SE45]
          Length = 575

 Score = 44.8 bits (104), Expect = 0.027,   Method: Composition-based stats.
 Identities = 18/126 (14%), Positives = 42/126 (33%), Gaps = 18/126 (14%)

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERG----IITSAYMAVKPHGIDSTY---LAWL 336
           Q + PG+++            +      E          + M ++P          L   
Sbjct: 435 QRLIPGDVLIAVKGTVGSVALVPEGIPEENAETIWTAGQSMMILRPTRRGGIAALALYEY 494

Query: 337 MRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKE--------Q--FDITNVINVE 385
           +    + +   ++  G   QS+  +D+K LP+ +P ++         Q   +I   I   
Sbjct: 495 LSDSTVQEHIQSLAGGAVIQSIGMKDLKALPIPLPDLETLTEMHEGFQRRQEILFRIEEL 554

Query: 386 TARIDV 391
             +++ 
Sbjct: 555 RKQLED 560


>gi|21910426|ref|NP_664694.1| hypothetical protein SpyM3_0890 [Streptococcus pyogenes MGAS315]
 gi|28896002|ref|NP_802352.1| hypothetical protein SPs1090 [Streptococcus pyogenes SSI-1]
 gi|56808388|ref|ZP_00366141.1| COG0732: Restriction endonuclease S subunits [Streptococcus
           pyogenes M49 591]
 gi|94990588|ref|YP_598688.1| Type I restriction-modification system specificity subunit
           [Streptococcus pyogenes MGAS10270]
 gi|209559519|ref|YP_002285991.1| hypothetical protein Spy49_0996c [Streptococcus pyogenes NZ131]
 gi|21904624|gb|AAM79497.1| conserved hypothetical protein [Streptococcus pyogenes MGAS315]
 gi|28811252|dbj|BAC64185.1| hypothetical protein [Streptococcus pyogenes SSI-1]
 gi|94544096|gb|ABF34144.1| Type I restriction-modification system specificity subunit
           [Streptococcus pyogenes MGAS10270]
 gi|209540720|gb|ACI61296.1| hypothetical protein Spy49_0996c [Streptococcus pyogenes NZ131]
          Length = 198

 Score = 44.8 bits (104), Expect = 0.028,   Method: Composition-based stats.
 Identities = 34/186 (18%), Positives = 69/186 (37%), Gaps = 10/186 (5%)

Query: 26  KVVPIKRFTKLNTGRTSESG---KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + V +        G+   S     D+  I L D+ +   +Y                +  
Sbjct: 14  EKVTLGTVVDCFKGKAVSSKVVPGDVGLINLSDMGTLGIQYHQLRTFQMDRRQLLRYLLE 73

Query: 83  KGQILYGKLGPYLRKAIIA--DFDGICSTQFLVLQPKDVLP-ELLQGWLLSIDVTQRIEA 139
            G +L    G   +  +    + D + S+   VL+P+ +L    ++ +L S      ++A
Sbjct: 74  DGDVLIASKGTLKKVCVFHKQNRDVVASSNITVLRPQKLLRGYYIKFFLDSPIGQALLDA 133

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
              G  + +   K + +IP+P+ PL +Q    + +I   +R  T    ++   E   E  
Sbjct: 134 ADHGKDVINLSTKELLDIPIPVIPLVKQ----DYLINHYLRGLTDYHRKLNRAEQEWEYI 189

Query: 200 QALVSY 205
           Q  +  
Sbjct: 190 QNEIQK 195



 Score = 38.6 bits (88), Expect = 2.1,   Method: Composition-based stats.
 Identities = 15/128 (11%), Positives = 47/128 (36%), Gaps = 9/128 (7%)

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
             +++ G+++         K  +   Q  +    ++  +      +   Y+ + + S   
Sbjct: 69  RYLLEDGDVLIASKG-TLKKVCVFHKQNRDVVASSNITVLRPQKLLRGYYIKFFLDSPIG 127

Query: 343 CKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNV----INVETARIDVLVEK-- 395
             +  A   G    +L  +++  +P+ V P+ +Q  + N     +     +++   ++  
Sbjct: 128 QALLDAADHGKDVINLSTKELLDIPIPVIPLVKQDYLINHYLRGLTDYHRKLNRAEQEWE 187

Query: 396 -IEQSIVL 402
            I+  I  
Sbjct: 188 YIQNEIQK 195


>gi|154244736|ref|YP_001415694.1| N-6 DNA methylase [Xanthobacter autotrophicus Py2]
 gi|154158821|gb|ABS66037.1| N-6 DNA methylase [Xanthobacter autotrophicus Py2]
          Length = 710

 Score = 44.8 bits (104), Expect = 0.028,   Method: Composition-based stats.
 Identities = 21/154 (13%), Positives = 49/154 (31%), Gaps = 9/154 (5%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPE-SYETYQIVDP 288
            +        +   + R      E     +   +  + +  R      E +++    +  
Sbjct: 523 SNSPRAKLGDIAPLVRRHVQIDPEKTYTEIGVRSFYKGIFHRRTIPGAEFTWQKLFRIAT 582

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP---HGIDSTYLAWLMRSYDLCKV 345
           G++VF   +L   ++++  A   + G + +  M             +L +  R+ +    
Sbjct: 583 GDLVFS--NLMAWEQAIALASTADDGCVGNHRMLTCEADRTRCLPMFLWYYFRTPEGFAQ 640

Query: 346 FYAMGSGLRQS---LKFEDVKRLPVLVPPIKEQF 376
             A   G       L  E +  + V VP +  Q 
Sbjct: 641 VVAASPGSIARNKTLSAELLPNITVPVPSLDAQE 674


>gi|148993700|ref|ZP_01823147.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP9-BS68]
 gi|147927780|gb|EDK78803.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP9-BS68]
          Length = 119

 Score = 44.8 bits (104), Expect = 0.029,   Method: Composition-based stats.
 Identities = 14/123 (11%), Positives = 42/123 (34%), Gaps = 5/123 (4%)

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
                   +          +   I S  + ++P   +     +++           +   
Sbjct: 1   MTTRGTVGNVAYYDELIKYKHLRINSGMVILRPKTPNLNQ-KFIIHVLRNNNYSRVISGS 59

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
            +  L    +K++ + +PP+  Q +  + +    A++D     I++S+  L+  + S + 
Sbjct: 60  AQPQLPITKLKKILLPLPPLALQNEFADFV----AQVDKSQLAIQKSLEELETLKKSLMQ 115

Query: 413 AAV 415
              
Sbjct: 116 EYF 118


>gi|198245448|ref|YP_002218400.1| putative type I restriction-modification system specificity subunit
           [Salmonella enterica subsp. enterica serovar Dublin str.
           CT_02021853]
 gi|197939964|gb|ACH77297.1| putative type I restriction-modification system specificity subunit
           [Salmonella enterica subsp. enterica serovar Dublin str.
           CT_02021853]
          Length = 113

 Score = 44.8 bits (104), Expect = 0.029,   Method: Composition-based stats.
 Identities = 15/81 (18%), Positives = 33/81 (40%), Gaps = 4/81 (4%)

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFD 377
           A + V    I+  YL +   S +  +   A+  G    +L  + +  L + +P    Q +
Sbjct: 17  AVIRVNSLLINPEYLYYFFNSPEGDEKISALQGGGLVVNLSLKKLLTLEIPIPLRPVQDE 76

Query: 378 IT---NVINVETARIDVLVEK 395
           +     + N +   ++ L+E 
Sbjct: 77  VIGLRKIWNEQKKTLEDLIEN 97


>gi|325913415|ref|ZP_08175782.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus iners UPII 60-B]
 gi|325477341|gb|EGC80486.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus iners UPII 60-B]
          Length = 149

 Score = 44.8 bits (104), Expect = 0.030,   Method: Composition-based stats.
 Identities = 25/157 (15%), Positives = 56/157 (35%), Gaps = 15/157 (9%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K+  +    K+  G+  +            V+S  G  +P  G       +T +++ K  
Sbjct: 4   KLCTLGELVKIKYGKNQKK-----------VQSEDGT-IPIYGTGGLMGYATDALYDKPS 51

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           +L G+ G   +   +        T F     + ++      +L+S+     +++  EG T
Sbjct: 52  VLIGRKGTINKVHYVDHPFWTVDTLFYTEVNEKLVIPKYLYYLMSLL---DLDSYNEGTT 108

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
           +     + +  +   IP L  Q  +   +     +I 
Sbjct: 109 IPSLRTETLNRLKFDIPGLDYQGKVLSVLEPIDKKIK 145



 Score = 38.2 bits (87), Expect = 2.4,   Method: Composition-based stats.
 Identities = 22/110 (20%), Positives = 37/110 (33%), Gaps = 6/110 (5%)

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
           Y T  + D   ++       N    +         + T  Y  V    +   YL +LM  
Sbjct: 41  YATDALYDKPSVLIGRKGTINKVHYV---DHPFWTVDTLFYTEVNEKLVIPKYLYYLMSL 97

Query: 340 YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
            DL             SL+ E + RL   +P +  Q  + +V+     +I
Sbjct: 98  LDLDSYNE---GTTIPSLRTETLNRLKFDIPGLDYQGKVLSVLEPIDKKI 144


>gi|94994511|ref|YP_602609.1| Type I restriction-modification system specificity subunit
           [Streptococcus pyogenes MGAS10750]
 gi|306827270|ref|ZP_07460557.1| type I restriction-modification system specificty subunit
           [Streptococcus pyogenes ATCC 10782]
 gi|94548019|gb|ABF38065.1| Type I restriction-modification system specificity subunit
           [Streptococcus pyogenes MGAS10750]
 gi|304430417|gb|EFM33439.1| type I restriction-modification system specificty subunit
           [Streptococcus pyogenes ATCC 10782]
          Length = 198

 Score = 44.8 bits (104), Expect = 0.030,   Method: Composition-based stats.
 Identities = 33/186 (17%), Positives = 68/186 (36%), Gaps = 10/186 (5%)

Query: 26  KVVPIKRFTKLNTGRTSESG---KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + V +        G+   S     D+  I L D+ +   +Y                +  
Sbjct: 14  EKVTLGTVVDCFKGKAVSSKVVPGDVGLINLSDMGTLGIQYHQLRTFQMDRRQLLRYLLE 73

Query: 83  KGQILYGKLGPYLRKAIIA--DFDGICSTQFLVLQPKDVLPELLQGWLLSIDV-TQRIEA 139
            G +L    G   +  +    + D + S+   VL+P+ +L      + L + +    ++A
Sbjct: 74  DGDVLIASKGTLKKVCVFHKQNRDVVASSNITVLRPQKLLRGYYIKFFLDLPIGQALLDA 133

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
              G  + +   K + +IP+P+ PL +Q    + +I   +R  T    ++   E   E  
Sbjct: 134 ADHGKDVINLSTKELLDIPIPVIPLVKQ----DYLINHYLRGLTDYHRKLNRAEQEWEYI 189

Query: 200 QALVSY 205
           Q  +  
Sbjct: 190 QNEIQK 195


>gi|126649565|ref|ZP_01721806.1| hypothetical protein BB14905_06493 [Bacillus sp. B14905]
 gi|126593890|gb|EAZ87813.1| hypothetical protein BB14905_06493 [Bacillus sp. B14905]
          Length = 228

 Score = 44.8 bits (104), Expect = 0.030,   Method: Composition-based stats.
 Identities = 25/220 (11%), Positives = 61/220 (27%), Gaps = 11/220 (5%)

Query: 30  IKRFTKLNTGRTSESGK-----DIIYIGLEDVESGTGKYLPK---DGNSRQSDTSTVSIF 81
           ++   K+  G+   S K      I YI  E +   + +         +S   +  + S+ 
Sbjct: 11  LEEVAKIKMGKMFTSEKCFTREGIPYITEEALNKLSLEDDTSCLPKVDSTLKEQYSFSLV 70

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
               IL  K             D   S + + + P + +      +          +   
Sbjct: 71  PTQSILLNKTNLKDTSIYQCKTDVCISHEIIAIIPNESILSSDYLFHFIKWHQHNNKKCD 130

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
           +   M       I +  + +    +Q+L  +        +  L           K    +
Sbjct: 131 DYRLMIELPSIVIQHQVVQVLNAVQQLLANK--EYLVTAVKNLPKHFDDTSRQAKHHSNS 188

Query: 202 LVSYIVT-KGLNPDVKMKDSGIEWVGLVPDHWEVKPFFAL 240
           L         L   +       +++   P++   +  ++ 
Sbjct: 189 LYQGFEQLHYLYIAMLNHIFNGDYLHDFPEYHACRKLYSH 228


>gi|288800631|ref|ZP_06406089.1| DNA modification methylase [Prevotella sp. oral taxon 299 str. F0039]
 gi|288332844|gb|EFC71324.1| DNA modification methylase [Prevotella sp. oral taxon 299 str. F0039]
          Length = 1170

 Score = 44.4 bits (103), Expect = 0.031,   Method: Composition-based stats.
 Identities = 21/182 (11%), Positives = 51/182 (28%), Gaps = 13/182 (7%)

Query: 223  EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET 282
            E +G    +     +        +    L     +          + + N          
Sbjct: 908  EQIGRYNVNQNHLQWTIYTDSNYKAPNSLDNMPHIKQHLDKFQNIITSDNKPYGLHRSRK 967

Query: 283  YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
                   +I+     +   K +  + +      ++  +  +    ++  +L  L+ S  +
Sbjct: 968  EFYFKNEKIIATRKSIDRPKFAYCNFE----CFVSQTFNMIHTTRVNMKFLTGLLNSKLI 1023

Query: 343  CKVFYAMG--SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET-------ARIDVLV 393
                   G   G    L  E +  +P+ VP  + Q  I  +++           RID  +
Sbjct: 1024 EFWLKNKGKMQGANFQLDKEPLMHIPIAVPTQEIQQLIAKLVDCIIFIKSTHNERIDKFI 1083

Query: 394  EK 395
              
Sbjct: 1084 SN 1085


>gi|227891952|ref|ZP_04009757.1| restriction-modification protein [Lactobacillus salivarius ATCC
           11741]
 gi|227866286|gb|EEJ73707.1| restriction-modification protein [Lactobacillus salivarius ATCC
           11741]
          Length = 767

 Score = 44.4 bits (103), Expect = 0.031,   Method: Composition-based stats.
 Identities = 19/140 (13%), Positives = 42/140 (30%), Gaps = 9/140 (6%)

Query: 270 TRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM---ERGIITSAYMAVKPH 326
              + +  E+   Y +V    I F           +  +           T         
Sbjct: 630 ENFISVTSENNINYNVVREKYISFNPSRANVGSFGINMSNTPVAVSNAYPTFRLKQGMES 689

Query: 327 GIDSTYLAWLM--RSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
                Y+   +   S  +  +       +RQ+L   +  +L +      EQ  I N +  
Sbjct: 690 RYLMEYIYLQLTHNSRVIEDIAERSYGTIRQALNATEFLKLQIKDISFDEQQKIVNTVEK 749

Query: 385 ETARIDVLVEKIEQSIVLLK 404
           + ++    V +I++ +  L 
Sbjct: 750 KHSQ----VLQIQKELNNLN 765


>gi|94988698|ref|YP_596799.1| type I restriction-modification system specificity subunit
           [Streptococcus pyogenes MGAS9429]
 gi|94992521|ref|YP_600620.1| Type I restriction-modification system specificity subunit
           [Streptococcus pyogenes MGAS2096]
 gi|94542206|gb|ABF32255.1| type I restriction-modification system specificity subunit
           [Streptococcus pyogenes MGAS9429]
 gi|94546029|gb|ABF36076.1| Type I restriction-modification system specificity subunit
           [Streptococcus pyogenes MGAS2096]
          Length = 198

 Score = 44.4 bits (103), Expect = 0.031,   Method: Composition-based stats.
 Identities = 34/186 (18%), Positives = 70/186 (37%), Gaps = 10/186 (5%)

Query: 26  KVVPIKRFTKLNTGRTSESG---KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + V +        G+   S     D+  I L D+ +   +Y                +  
Sbjct: 14  EKVTLGTVVDCFKGKAVSSKVVPGDVGLINLSDMGTLGIQYHQLRTFQMDRRQLLRYLLE 73

Query: 83  KGQILYGKLGPYLRKAIIA--DFDGICSTQFLVLQPKDVLP-ELLQGWLLSIDVTQRIEA 139
            G +L    G   +  +    + D + S+   VL+P+ +L    ++ +L S      ++A
Sbjct: 74  DGDVLIASKGTLKKVCVFHKQNRDVVASSNITVLRPQKLLRGYYIKFFLDSPIGQALLDA 133

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
           +  G  + +   K + +IP+P+ PL +Q    + +I   +R  T    ++   E   E  
Sbjct: 134 VDHGKDVINLSTKELLDIPIPVIPLVKQ----DYLINHYLRGLTDYHRKLNRAEQEWEYI 189

Query: 200 QALVSY 205
           Q  +  
Sbjct: 190 QNEIQK 195



 Score = 38.2 bits (87), Expect = 2.3,   Method: Composition-based stats.
 Identities = 15/128 (11%), Positives = 48/128 (37%), Gaps = 9/128 (7%)

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
             +++ G+++         K  +   Q  +    ++  +      +   Y+ + + S   
Sbjct: 69  RYLLEDGDVLIASKG-TLKKVCVFHKQNRDVVASSNITVLRPQKLLRGYYIKFFLDSPIG 127

Query: 343 CKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNV----INVETARIDVLVEK-- 395
             +  A+  G    +L  +++  +P+ V P+ +Q  + N     +     +++   ++  
Sbjct: 128 QALLDAVDHGKDVINLSTKELLDIPIPVIPLVKQDYLINHYLRGLTDYHRKLNRAEQEWE 187

Query: 396 -IEQSIVL 402
            I+  I  
Sbjct: 188 YIQNEIQK 195


>gi|283796720|ref|ZP_06345873.1| conserved hypothetical protein [Clostridium sp. M62/1]
 gi|291075604|gb|EFE12968.1| conserved hypothetical protein [Clostridium sp. M62/1]
          Length = 179

 Score = 44.4 bits (103), Expect = 0.033,   Method: Composition-based stats.
 Identities = 13/124 (10%), Positives = 33/124 (26%), Gaps = 6/124 (4%)

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR 354
            I          +   +      S+++          Y    +       ++       +
Sbjct: 57  TISSSGANAGFVNLWGVPVWSSDSSFI--DFKMTPYVYFWHALLKRHQNNIYKIQTGSAQ 114

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAA 414
             +    +  LPV    +     + +     T  +  L+ K  +    L+  R   +   
Sbjct: 115 PHIYPSHIASLPVC--DLDF-GKVADYTERVT-PLFTLISKNYKESNQLRALRDWLLPML 170

Query: 415 VTGQ 418
           + GQ
Sbjct: 171 MNGQ 174


>gi|317131474|ref|YP_004090788.1| restriction modification system DNA specificity domain
           [Ethanoligenens harbinense YUAN-3]
 gi|315469453|gb|ADU26057.1| restriction modification system DNA specificity domain
           [Ethanoligenens harbinense YUAN-3]
          Length = 214

 Score = 44.4 bits (103), Expect = 0.033,   Method: Composition-based stats.
 Identities = 13/129 (10%), Positives = 39/129 (30%), Gaps = 4/129 (3%)

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
              + L       + A       +  +  A+        +  + +  + +  + +     
Sbjct: 85  VNTVFLTARGTVGKLALAGRPMAMNQSCYALVGTEGLGQHYVYHLAQHVVESLKHKATGA 144

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           +  ++   D +   V      E          + A I  ++       + L E R S + 
Sbjct: 145 VFDAIVTRDFESEIVPDITTAE----ARSFEEKVAPIYEIILNNSNENIRLAELRDSLLP 200

Query: 413 AAVTGQIDL 421
             ++G++ +
Sbjct: 201 RLMSGELSV 209


>gi|86145619|ref|ZP_01063949.1| Type I restriction-modification system M subunit [Vibrio sp.
           MED222]
 gi|85836590|gb|EAQ54716.1| Type I restriction-modification system M subunit [Vibrio sp.
           MED222]
          Length = 812

 Score = 44.4 bits (103), Expect = 0.033,   Method: Composition-based stats.
 Identities = 9/79 (11%), Positives = 26/79 (32%), Gaps = 2/79 (2%)

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
            P    + Y      S     +   +  G    +L    ++ +   +PP++ Q +I    
Sbjct: 540 NPDEALAEYFELFFSSELGRLILKKLPIGTYLPALSVATLREVQFPLPPLELQKEIVET- 598

Query: 383 NVETARIDVLVEKIEQSIV 401
             +  ++   + +    + 
Sbjct: 599 QNKLNQLKKFISEYVSELT 617


>gi|329766471|ref|ZP_08258015.1| hypothetical protein Nlim_1825 [Candidatus Nitrosoarchaeum limnia
           SFB1]
 gi|329137070|gb|EGG41362.1| hypothetical protein Nlim_1825 [Candidatus Nitrosoarchaeum limnia
           SFB1]
          Length = 733

 Score = 44.4 bits (103), Expect = 0.034,   Method: Composition-based stats.
 Identities = 20/137 (14%), Positives = 50/137 (36%), Gaps = 2/137 (1%)

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG 327
           +ET  +  K        IV   +I+F           +  +Q           +      
Sbjct: 591 IETARVPKKDFDKGKIPIVKENDILFSIRGKIGKVGLVTKSQEGATINQNLVILRPHIPS 650

Query: 328 IDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
            D+++L + ++S  +      +  G +  +++ +D++ L +  P   +   I N +  E 
Sbjct: 651 KDASFLLYYLKSEIVRYQLEHIQYGSVIFAVRIKDLENLLLPKPDGVKIQKI-NELKKEI 709

Query: 387 ARIDVLVEKIEQSIVLL 403
            +   L+ + E  +  +
Sbjct: 710 EKYRKLLLEAENKLNEI 726



 Score = 37.9 bits (86), Expect = 3.6,   Method: Composition-based stats.
 Identities = 24/143 (16%), Positives = 51/143 (35%), Gaps = 13/143 (9%)

Query: 28  VPIKRFTK-LNTGRTSESG----KDIIYIGLEDVESGTGKYLPKDGN----SRQSDTSTV 78
           + +K   + + +G+         K+I  I + D+ES                +  D   +
Sbjct: 547 IKLKETVQAIISGKDYPPMNLEFKEIPIIKIGDIESNGLIKTEIIETARVPKKDFDKGKI 606

Query: 79  SIFAKGQILYGKLGPYLRKAIIAD--FDGICSTQFLVLQPKDV--LPELLQGWLLSIDVT 134
            I  +  IL+   G   +  ++         +   ++L+P         L  +L S  V 
Sbjct: 607 PIVKENDILFSIRGKIGKVGLVTKSQEGATINQNLVILRPHIPSKDASFLLYYLKSEIVR 666

Query: 135 QRIEAICEGATMSHADWKGIGNI 157
            ++E I  G+ +     K + N+
Sbjct: 667 YQLEHIQYGSVIFAVRIKDLENL 689


>gi|325682979|ref|ZP_08162495.1| restriction modification system DNA specificity subunit
           [Lactobacillus reuteri MM4-1A]
 gi|324977329|gb|EGC14280.1| restriction modification system DNA specificity subunit
           [Lactobacillus reuteri MM4-1A]
          Length = 347

 Score = 44.4 bits (103), Expect = 0.034,   Method: Composition-based stats.
 Identities = 51/380 (13%), Positives = 105/380 (27%), Gaps = 46/380 (12%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           +           T   ++  KD      +++    GK        RQ             
Sbjct: 2   EYKKFTALFTDVTKTGTKIPKDEYLTTGKNIIIDQGKDSIAGYTDRQKGIFEEVPV---- 57

Query: 86  ILYGKLGPYLRKAIIADFDGICS-TQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
           I++   G + R     D           VL+ K+        +                 
Sbjct: 58  IVF---GDHTRIVKYIDKPFFLGADGVKVLKSKEKESNYKYLYYALKAAHIPNTGYNRHF 114

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
                    +  I M  P L EQ  I + + + T  I           + L    + + +
Sbjct: 115 K-------WLKQINMNYPDLNEQKNIVDILDSLTRII-------KVRQKELAFFDKLIKA 160

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
             V    +P +  K+   + +G +             T   + +      N      GN 
Sbjct: 161 RFVEMFGDPIINNKNIKKKKLGDI-----CLLKAGDFTPSKKISPVKTSINKYPCFGGNG 215

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
           I+            S    Q    G + F     +N + ++  +  +E            
Sbjct: 216 IRGYVDNYTHQGNYSLIGRQGALCGNVKFATGKFRNTEHAILVSPNIE------------ 263

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
              I+S +L  L+    L K+        +  L  + +  + V V  +  Q +  N +  
Sbjct: 264 ---INSRWLFELLN---LEKLNRFRSGAAQPGLAVKTLNEIIVPVADLNSQNEYANFVQQ 317

Query: 385 ET-ARIDVLVEKIEQSIVLL 403
              ++ + +V   +  +  +
Sbjct: 318 VDKSKFENIVYLNKTLLNKI 337


>gi|86141515|ref|ZP_01060061.1| putative DNA restriction-modification system, DNA methylase
           [Leeuwenhoekiella blandensis MED217]
 gi|85832074|gb|EAQ50529.1| putative DNA restriction-modification system, DNA methylase
           [Leeuwenhoekiella blandensis MED217]
          Length = 816

 Score = 44.4 bits (103), Expect = 0.034,   Method: Composition-based stats.
 Identities = 25/167 (14%), Positives = 57/167 (34%), Gaps = 5/167 (2%)

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
            K   LI   I + +  +     +     +K     ++ I    + +      ++ K +L
Sbjct: 407 GKEKTLIGKFIRTSNLKDNDVSYQLDLNEIKERELPSHSIKIENDCILISTRWKSLKPTL 466

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWL---MRSYDLCKVFYAMGS-GLRQSLKFED 361
              +     I                   +L   +RS ++ K   A  + G   SL   D
Sbjct: 467 FEYKGEPIYIGIDLLAIRVYSENFEVNPHYLISELRSPNVLKQVSAFQNPGAITSLNRAD 526

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
              + + +P I+EQ      I   + +   ++++   ++   K+ +S
Sbjct: 527 FFAIKIALPSIEEQKAKVQGILELSEKF-KILQQERNALAHGKQVKS 572


>gi|298292627|ref|YP_003694566.1| hypothetical protein Snov_2653 [Starkeya novella DSM 506]
 gi|296929138|gb|ADH89947.1| conserved hypothetical protein [Starkeya novella DSM 506]
          Length = 201

 Score = 44.4 bits (103), Expect = 0.034,   Method: Composition-based stats.
 Identities = 27/136 (19%), Positives = 46/136 (33%), Gaps = 10/136 (7%)

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRSL-RSAQVMERGIITSAYMAVKPHGIDSTYLAWL 336
           E       V PG+++FR    +N   +L    +     ++    +      I   YLAW 
Sbjct: 52  EGLADRYFVRPGDVLFRSRGERNTASALDGRLREPALAVLPLMVLRPNREVITPEYLAWA 111

Query: 337 MRSYDLCKVFYAMGSGLRQS-LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
           +    + + F     G     +    +  L + VP IK Q  I          +D L E+
Sbjct: 112 INQPPVQRHFDLAARGTNIRMIPRSSLDDLELDVPDIKTQEAIVA--------LDALAER 163

Query: 396 IEQSIVLLKERRSSFI 411
             +      E R   +
Sbjct: 164 ERELSQFAAETRRQMM 179



 Score = 38.6 bits (88), Expect = 1.7,   Method: Composition-based stats.
 Identities = 18/155 (11%), Positives = 45/155 (29%), Gaps = 11/155 (7%)

Query: 29  PIKRFTKLNTGRT------SESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
            +     + TG T        + + ++ I L D+         +    +    +      
Sbjct: 2   RLADVCAIQTGYTARGRLEPAAAEGVLAIQLRDISPNGLVDPERLARVQLEGLADRYFVR 61

Query: 83  KGQILYGKLGPYLRKAIIADF-----DGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
            G +L+   G     + +          +     L    + + PE L   +    V +  
Sbjct: 62  PGDVLFRSRGERNTASALDGRLREPALAVLPLMVLRPNREVITPEYLAWAINQPPVQRHF 121

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIRE 172
           +    G  +       + ++ + +P +  Q  I  
Sbjct: 122 DLAARGTNIRMIPRSSLDDLELDVPDIKTQEAIVA 156


>gi|229541310|ref|ZP_04430370.1| restriction modification system DNA specificity subunit [Bacillus
           coagulans 36D1]
 gi|229325730|gb|EEN91405.1| restriction modification system DNA specificity subunit [Bacillus
           coagulans 36D1]
          Length = 197

 Score = 44.4 bits (103), Expect = 0.036,   Method: Composition-based stats.
 Identities = 22/154 (14%), Positives = 59/154 (38%), Gaps = 10/154 (6%)

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY--MAVKP 325
            ++    +  +  E +     G+++ R   L     ++   +     +I S +  + V  
Sbjct: 46  NDSFEEFVSNDELEDHYFTKEGDVLMR---LSQPYTAVCIDKEYSGLLIPSYFAIIKVDQ 102

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
             +   Y+AW + ++++ K      +G R  S     +K +P++   + +Q  +   +  
Sbjct: 103 SKVMPRYIAWYLNTWNVKKELERSQAGSRIPSTNQHVLKTIPIIAASLSKQKALIE-LYQ 161

Query: 385 ETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
              +   L +K+ +   LL           ++G+
Sbjct: 162 LHQKEKRLYKKLIEEKELL---FQGIAQQILSGK 192



 Score = 39.8 bits (91), Expect = 0.82,   Method: Composition-based stats.
 Identities = 26/188 (13%), Positives = 60/188 (31%), Gaps = 13/188 (6%)

Query: 30  IKRFTKLNTGRTSESGK---------DIIYIGLEDV-ESGTGKYLPKDGNSRQSDTSTVS 79
           +     + TG      K             + L+++ E G  +    +      +     
Sbjct: 3   LGEIADIKTGLVLSRKKAEIEYTAKATYKLLSLKNISEDGFLENDSFEEFVSNDELEDHY 62

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGIC---STQFLVLQPKDVLPELLQGWLLSIDVTQR 136
              +G +L     PY    I  ++ G+        + +    V+P  +  +L + +V + 
Sbjct: 63  FTKEGDVLMRLSQPYTAVCIDKEYSGLLIPSYFAIIKVDQSKVMPRYIAWYLNTWNVKKE 122

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
           +E    G+ +   +   +  IP+    L++Q  + E                     L +
Sbjct: 123 LERSQAGSRIPSTNQHVLKTIPIIAASLSKQKALIELYQLHQKEKRLYKKLIEEKELLFQ 182

Query: 197 EKKQALVS 204
              Q ++S
Sbjct: 183 GIAQQILS 190


>gi|237752773|ref|ZP_04583253.1| type I restriction-modification system [Helicobacter winghamensis
           ATCC BAA-430]
 gi|229376262|gb|EEO26353.1| type I restriction-modification system [Helicobacter winghamensis
           ATCC BAA-430]
          Length = 198

 Score = 44.4 bits (103), Expect = 0.036,   Method: Composition-based stats.
 Identities = 20/192 (10%), Positives = 50/192 (26%), Gaps = 11/192 (5%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGK---------DIIYIGLEDVESGT-GKYLPKDGNSRQ 72
             W+  P+    ++  GRT    +         DI +I ++D+E         +      
Sbjct: 8   NEWEEKPLSEIAEIGIGRTPPRKERHWFSTDSRDIKWISIKDMEEKIFIVNTSEFLTMEA 67

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
                + +     IL       L +  I   + + +                +     + 
Sbjct: 68  IRKFRIPLIPPNTILLS-FKMTLGRVSITTENMLSNEAIAHFNLYSEYRLFTEYLYCFLK 126

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
             +        + ++  +   I +I + IP     V           +I     +     
Sbjct: 127 TFKYETLGSTSSIVTAINSTLIKSINIRIPDRKIIVEFSMIAKGFFDKIYNNTKQIQNLQ 186

Query: 193 ELLKEKKQALVS 204
            +       + +
Sbjct: 187 AMRDMMLGKIFN 198



 Score = 38.2 bits (87), Expect = 2.2,   Method: Composition-based stats.
 Identities = 22/201 (10%), Positives = 58/201 (28%), Gaps = 17/201 (8%)

Query: 223 EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNM----GLKPE 278
           EW                     R        +I  +S  ++ +K+   N      ++  
Sbjct: 9   EWEEKPLSEIAEIGIGRTPPRKERHWFSTDSRDIKWISIKDMEEKIFIVNTSEFLTMEAI 68

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
                 ++ P  I+  F              +    I  + +     + + + YL   ++
Sbjct: 69  RKFRIPLIPPNTILLSFKMTLGRVSITTENMLSNEAI--AHFNLYSEYRLFTEYLYCFLK 126

Query: 339 SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
           ++    +     S +  ++    +K + + +P       I    ++        +    +
Sbjct: 127 TFKYETL--GSTSSIVTAINSTLIKSINIRIPD----RKIIVEFSMIAKGFFDKIYNNTK 180

Query: 399 SIVLLKERRSSFIAAAVTGQI 419
            I  L+  R   +     G+I
Sbjct: 181 QIQNLQAMRDMML-----GKI 196


>gi|78064666|ref|YP_367435.1| hypothetical protein Bcep18194_A3189 [Burkholderia sp. 383]
 gi|77965411|gb|ABB06791.1| hypothetical protein Bcep18194_A3189 [Burkholderia sp. 383]
          Length = 307

 Score = 44.4 bits (103), Expect = 0.038,   Method: Composition-based stats.
 Identities = 19/185 (10%), Positives = 51/185 (27%), Gaps = 18/185 (9%)

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESY---ETYQIVDPGEIVFRFIDLQNDKRS 304
           +  L E  I  +   N+          ++  S         +   +++      +     
Sbjct: 65  SCYLEEGGIPLVRSSNLSNNGIDYESAVRVPSEWISSERARIKDNDVLISIKGARAFFDM 124

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYL--AWLMRSYDLCKVFYAMGSGLRQSLKFEDV 362
             ++      I+  +    +            WL+ S     VF    +     +  + +
Sbjct: 125 CVASDKTSDAIVNGSIFRFQCKERYDPNFVVLWLLSSPIQSMVFRERTNLGISYISQDIL 184

Query: 363 KRLPVLVPPIKEQFDI-------TNVINVETARIDV---LVEKIEQSIVLLKERRSSF-I 411
           K +P       +Q  I         + +   + ++         +++I  +   R    +
Sbjct: 185 KSIPFPEIEKNKQQLILRGYNAAIEMRDEMISSLNEVVRAKSLAKKTIDKI--YRDRLGM 242

Query: 412 AAAVT 416
              VT
Sbjct: 243 EEPVT 247



 Score = 37.9 bits (86), Expect = 2.9,   Method: Composition-based stats.
 Identities = 26/161 (16%), Positives = 49/161 (30%), Gaps = 5/161 (3%)

Query: 47  DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPY----LRKAIIAD 102
            I  +   ++ +    Y        +  +S  +      +L    G      +  A    
Sbjct: 72  GIPLVRSSNLSNNGIDYESAVRVPSEWISSERARIKDNDVLISIKGARAFFDMCVASDKT 131

Query: 103 FDGICSTQFLVLQPK-DVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPI 161
            D I +      Q K    P  +  WLLS  +   +        +S+     + +IP P 
Sbjct: 132 SDAIVNGSIFRFQCKERYDPNFVVLWLLSSPIQSMVFRERTNLGISYISQDILKSIPFPE 191

Query: 162 PPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
               +Q LI     A     D +I+     +      K+ +
Sbjct: 192 IEKNKQQLILRGYNAAIEMRDEMISSLNEVVRAKSLAKKTI 232


>gi|291461174|ref|ZP_06027362.2| hypothetical protein FUSPEROL_02035 [Fusobacterium periodonticum
           ATCC 33693]
 gi|291378476|gb|EFE85994.1| hypothetical protein FUSPEROL_02035 [Fusobacterium periodonticum
           ATCC 33693]
          Length = 190

 Score = 44.4 bits (103), Expect = 0.038,   Method: Composition-based stats.
 Identities = 21/162 (12%), Positives = 53/162 (32%), Gaps = 8/162 (4%)

Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
           E  I  +               +  E+Y     ++ G+I+    D   +          +
Sbjct: 17  EPAIFYVDISRKYDCFVEEITKINSEAYNRADKINKGQILVNLEDFDYEDIGRCIFYEND 76

Query: 313 -RGIITSAYMA-----VKPHGIDSTYLAWLMRSYDLCKVF--YAMGSGLRQSLKFEDVKR 364
               I                ++  Y+ + +   D+ + +    +     + L   D + 
Sbjct: 77  IPAAINGNVAILTLKEKFEDAVNLKYITFYLNYKDIVRQYVYDKVVGEKVKRLSRLDFEH 136

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
           +P+ +P I+ Q  I +       + +   E +E++I L+ + 
Sbjct: 137 IPITIPLIERQDKIIDNFIKVRKKFENDFELLEKTIDLVNKY 178


>gi|154496689|ref|ZP_02035385.1| hypothetical protein BACCAP_00981 [Bacteroides capillosus ATCC
           29799]
 gi|150273941|gb|EDN01041.1| hypothetical protein BACCAP_00981 [Bacteroides capillosus ATCC
           29799]
          Length = 197

 Score = 44.4 bits (103), Expect = 0.038,   Method: Composition-based stats.
 Identities = 22/137 (16%), Positives = 50/137 (36%), Gaps = 3/137 (2%)

Query: 272 NMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDST 331
                 ES +       G++V R +          + + +      +         I   
Sbjct: 52  EDFYACESLDNALFTSKGDVVVRLLSPMYPVYVENNYENILVPSQFAVLRVKDREVIMPE 111

Query: 332 YLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
           YL   +    + +    + SG  ++++K + +  L + +PP++ Q     +I+  + R +
Sbjct: 112 YLRLWLAQKSIQERVLDLESGTAQKAVKIKTILNLDIFIPPLEVQKK-AVMIDTLSRRRE 170

Query: 391 VL-VEKIEQSIVLLKER 406
            L  E IE+   L +  
Sbjct: 171 CLYRELIEEERTLTENL 187


>gi|146321308|ref|YP_001201019.1| type I restriction enzyme [Streptococcus suis 98HAH33]
 gi|145692114|gb|ABP92619.1| type I restriction enzyme [Streptococcus suis 98HAH33]
          Length = 230

 Score = 44.4 bits (103), Expect = 0.038,   Method: Composition-based stats.
 Identities = 18/119 (15%), Positives = 41/119 (34%), Gaps = 9/119 (7%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDV-ESGTGKYLPKDGNSRQ 72
            +P  W  V        N G+T         G DI ++ + D+  +G      +  +   
Sbjct: 70  KLPSSWCYVKFGGLVLFNIGKTPPRSEPNYWGDDIPWVSISDMSNNGHIFKTKEYLSDFA 129

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
            +   V I + G +L        + A+  +     +   + + P      +++ +L+  
Sbjct: 130 INQKKVKIASAGTLLMSFKLTIGKVAL--EVPASHNEAIISIFPYGDKENIIRDYLMRF 186


>gi|294789185|ref|ZP_06754424.1| conserved hypothetical protein [Simonsiella muelleri ATCC 29453]
 gi|294482926|gb|EFG30614.1| conserved hypothetical protein [Simonsiella muelleri ATCC 29453]
          Length = 195

 Score = 44.4 bits (103), Expect = 0.038,   Method: Composition-based stats.
 Identities = 20/114 (17%), Positives = 41/114 (35%), Gaps = 7/114 (6%)

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKP--HGIDSTYLAWLMRSYDLCKVFYAMG--SGLRQ 355
             K  L S  + ++ + ++ ++ +      I   YL W        K +Y+         
Sbjct: 77  EPKAYLFSGSLKDKVVASNPFIIIHSLSEIILPKYLVWYFNHAITAKSYYSAVLRGTSFP 136

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINV---ETARIDVLVEKIEQSIVLLKER 406
                  K  P+ +PPI  Q  I +       E  +++ L+   ++    L E+
Sbjct: 137 IFTLAMAKEFPIKIPPITIQKQIIDRHTQALTEQKKLEQLIALRQEYNAALAEQ 190


>gi|139473677|ref|YP_001128393.1| hypothetical protein SpyM50834 [Streptococcus pyogenes str.
           Manfredo]
 gi|134271924|emb|CAM30162.1| conserved hypothetical protein [Streptococcus pyogenes str.
           Manfredo]
          Length = 198

 Score = 44.4 bits (103), Expect = 0.039,   Method: Composition-based stats.
 Identities = 33/186 (17%), Positives = 69/186 (37%), Gaps = 10/186 (5%)

Query: 26  KVVPIKRFTKLNTGRTSESG---KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + V +        G+   S     D+  + L D+ +   +Y                +  
Sbjct: 14  EKVTLGTVVDCFKGKAVSSKVVPGDVGLVNLSDMGTLGIQYHQLRTFQMDRRQLLRYLLE 73

Query: 83  KGQILYGKLGPYLRKAIIA--DFDGICSTQFLVLQPKDVLP-ELLQGWLLSIDVTQRIEA 139
            G +L    G   +  +    + D + S+   VL+P+ +L    ++ +L S      ++A
Sbjct: 74  DGDVLIASKGTLKKVCVFHKQNRDVVASSNITVLRPQKLLRGYYIKFFLDSPIGQALLDA 133

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
              G  + +   K + +IP+P+ PL +Q    + +I   +R  T    ++   E   E  
Sbjct: 134 ADHGKDVINLSTKELLDIPIPVIPLVKQ----DYLINHYLRGLTDYHRKLSRAEQEWEYI 189

Query: 200 QALVSY 205
           Q  +  
Sbjct: 190 QNEIQK 195



 Score = 37.1 bits (84), Expect = 5.5,   Method: Composition-based stats.
 Identities = 15/128 (11%), Positives = 46/128 (35%), Gaps = 9/128 (7%)

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
             +++ G+++         K  +   Q  +    ++  +      +   Y+ + + S   
Sbjct: 69  RYLLEDGDVLIASKG-TLKKVCVFHKQNRDVVASSNITVLRPQKLLRGYYIKFFLDSPIG 127

Query: 343 CKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNV----INVETARIDVLVEK-- 395
             +  A   G    +L  +++  +P+ V P+ +Q  + N     +     ++    ++  
Sbjct: 128 QALLDAADHGKDVINLSTKELLDIPIPVIPLVKQDYLINHYLRGLTDYHRKLSRAEQEWE 187

Query: 396 -IEQSIVL 402
            I+  I  
Sbjct: 188 YIQNEIQK 195


>gi|71903602|ref|YP_280405.1| type I restriction-modification system specificity subunit
           [Streptococcus pyogenes MGAS6180]
 gi|71802697|gb|AAX72050.1| type I restriction-modification system specificity subunit
           [Streptococcus pyogenes MGAS6180]
          Length = 198

 Score = 44.4 bits (103), Expect = 0.039,   Method: Composition-based stats.
 Identities = 33/186 (17%), Positives = 69/186 (37%), Gaps = 10/186 (5%)

Query: 26  KVVPIKRFTKLNTGRTSESG---KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + V +        G+   S     D+  + L D+ +   +Y                +  
Sbjct: 14  EKVTLGTVVDCFKGKAVSSKVVPGDVGLVNLSDMGTLGIQYHQLRTFQMDRRQLLRYLLE 73

Query: 83  KGQILYGKLGPYLRKAIIA--DFDGICSTQFLVLQPKDVLP-ELLQGWLLSIDVTQRIEA 139
            G +L    G   +  +    + D + S+   VL+P+ +L    ++ +L S      ++A
Sbjct: 74  DGDVLIASKGTLKKVCVFHKQNRDVVASSNITVLRPQKLLRGYYIKFFLDSPIGQALLDA 133

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
              G  + +   K + +IP+P+ PL +Q    + +I   +R  T    ++   E   E  
Sbjct: 134 ADHGKDVINLSTKELLDIPIPVIPLVKQ----DYLINHYLRGLTDYHRKLNRAEQEWEYI 189

Query: 200 QALVSY 205
           Q  +  
Sbjct: 190 QNEIQK 195



 Score = 38.6 bits (88), Expect = 1.8,   Method: Composition-based stats.
 Identities = 15/128 (11%), Positives = 47/128 (36%), Gaps = 9/128 (7%)

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
             +++ G+++         K  +   Q  +    ++  +      +   Y+ + + S   
Sbjct: 69  RYLLEDGDVLIASKG-TLKKVCVFHKQNRDVVASSNITVLRPQKLLRGYYIKFFLDSPIG 127

Query: 343 CKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNV----INVETARIDVLVEK-- 395
             +  A   G    +L  +++  +P+ V P+ +Q  + N     +     +++   ++  
Sbjct: 128 QALLDAADHGKDVINLSTKELLDIPIPVIPLVKQDYLINHYLRGLTDYHRKLNRAEQEWE 187

Query: 396 -IEQSIVL 402
            I+  I  
Sbjct: 188 YIQNEIQK 195


>gi|312898355|ref|ZP_07757745.1| conserved domain protein [Megasphaera micronuciformis F0359]
 gi|310620274|gb|EFQ03844.1| conserved domain protein [Megasphaera micronuciformis F0359]
          Length = 142

 Score = 44.0 bits (102), Expect = 0.040,   Method: Composition-based stats.
 Identities = 25/126 (19%), Positives = 50/126 (39%), Gaps = 4/126 (3%)

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP-- 325
                 G   ES + Y+++  G+I F   + ++ K        +  GI++  +  ++P  
Sbjct: 3   YSESGNGASTESLDNYKVLRVGDIAFEGHENKDFKFGRFVMNDVGNGIMSPRFTVLRPLI 62

Query: 326 HGIDSTYLAWLMRSYDLCKVF-YAMGSGLRQS-LKFEDVKRLPVLVPPIKEQFDITNVIN 383
               + +  ++     + K   Y+   G   + L  ED     V VP ++EQ  I  ++ 
Sbjct: 63  DMELNFWKEYINYEPIMQKKLVYSTKKGTMMNELVVEDFLNQYVAVPSVQEQQKIGYLLK 122

Query: 384 VETARI 389
             T  I
Sbjct: 123 CMTDDI 128


>gi|290509518|ref|ZP_06548889.1| N-6 DNA methylase [Klebsiella sp. 1_1_55]
 gi|289778912|gb|EFD86909.1| N-6 DNA methylase [Klebsiella sp. 1_1_55]
          Length = 1304

 Score = 44.0 bits (102), Expect = 0.040,   Method: Composition-based stats.
 Identities = 30/177 (16%), Positives = 61/177 (34%), Gaps = 16/177 (9%)

Query: 26  KVVPIKRFTKLNTGRTSESGKD----------IIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           K+  +   +++  GR  +S +           + YI ++++    GK          S  
Sbjct: 464 KIASLVSISEVFPGRVHKSTELFDSPLNKTDAVGYIRIKNL--FQGKITRPSSWISASSL 521

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDG--ICSTQFLVLQPK--DVLPELLQGWLLSI 131
           S      +G IL+ + G   + A++       + S  F VL+     + P  L  +L S 
Sbjct: 522 SADERLREGDILFSRSGTIGKAAMVDGASAGSVASHGFYVLRVNSGKIEPGYLLAYLHSP 581

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITER 188
                + +   G  + H   + +  +P+P+ P   Q     +           I   
Sbjct: 582 VCQTWLLSRSRGTAIQHIHREALKMLPIPVLPHELQNHAAAQFHDFGTSAQAFILHM 638



 Score = 44.0 bits (102), Expect = 0.048,   Method: Composition-based stats.
 Identities = 18/93 (19%), Positives = 30/93 (32%), Gaps = 1/93 (1%)

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCK 344
            +  G+I+F           +  A            + V    I+  YL   + S     
Sbjct: 526 RLREGDILFSRSGTIGKAAMVDGASAGSVASHGFYVLRVNSGKIEPGYLLAYLHSPVCQT 585

Query: 345 VFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQF 376
              +   G   Q +  E +K LP+ V P + Q 
Sbjct: 586 WLLSRSRGTAIQHIHREALKMLPIPVLPHELQN 618


>gi|210630410|ref|ZP_03296445.1| hypothetical protein COLSTE_00329 [Collinsella stercoris DSM 13279]
 gi|210160492|gb|EEA91463.1| hypothetical protein COLSTE_00329 [Collinsella stercoris DSM 13279]
          Length = 71

 Score = 44.0 bits (102), Expect = 0.040,   Method: Composition-based stats.
 Identities = 13/64 (20%), Positives = 29/64 (45%), Gaps = 12/64 (18%)

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL----LKERRSSFIAAAVTG 417
           +K  P+ +P   EQ      +  E +     + + ++S+ L    L   R + +   ++G
Sbjct: 1   MKSTPLSLP--NEQ------LRAEFSAFSHPILEQQKSLELENRRLCLLRDALLPKLMSG 52

Query: 418 QIDL 421
           +ID+
Sbjct: 53  EIDV 56


>gi|258424859|ref|ZP_05687732.1| predicted protein [Staphylococcus aureus A9635]
 gi|257844951|gb|EEV68992.1| predicted protein [Staphylococcus aureus A9635]
          Length = 378

 Score = 44.0 bits (102), Expect = 0.044,   Method: Composition-based stats.
 Identities = 17/143 (11%), Positives = 42/143 (29%), Gaps = 12/143 (8%)

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
            I       +  +  +      +   +I+     +   K  +   +  E  I  +  +  
Sbjct: 11  FINYDNVAYVNERIHNKYKKTQLQKFDILMSVRGVSIGKIGIFMGEYSEANISANLIIIR 70

Query: 324 KPHGIDSTYLAWLMRSYDLCKVF-YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
             +   + Y+A  + S         ++G G + ++    +  + +  PP           
Sbjct: 71  LKNPSYAPYVAMSLISSVGQSQISRSIGGGSKPTITSGFIDEIEIPTPP----------- 119

Query: 383 NVETARIDVLVEKIEQSIVLLKE 405
                 I+ L  +      L KE
Sbjct: 120 EEVLKNINQLFFEAFNQRGLAKE 142



 Score = 41.3 bits (95), Expect = 0.32,   Method: Composition-based stats.
 Identities = 23/177 (12%), Positives = 51/177 (28%), Gaps = 7/177 (3%)

Query: 30  IKRFTKLNTGRTSESGKD-IIYIGLEDVESGTGKYLPKDGNSRQS-DTSTVSIFAKGQIL 87
           +K      T    +  +D + YI + +V + TG+      +       +   I     IL
Sbjct: 200 LKNLVTEVTESVDKLHEDKVGYIEISNVNNRTGRINGIKFDYINKLPKNGKIILKDEDIL 259

Query: 88  YGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMS 147
             K+ PY     I        +  L    K     +     +             G    
Sbjct: 260 ISKVRPYRGSIAIYKEY----SAELCTASKSAFVVIRAEEFMYPYYLTAFLRYRLGLDQI 315

Query: 148 HADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
             +  G     +    +    +I  +   +   I+ +  + I      ++  Q+++ 
Sbjct: 316 VMNQSGTTYPTVKPEEIMNVKVILLE-DMKMKEINEIYRKNIDSKYHEEKNIQSIIE 371


>gi|161507541|ref|YP_001577495.1| Type I restriction-modification system specificity subunit
           [Lactobacillus helveticus DPC 4571]
 gi|160348530|gb|ABX27204.1| Type I restriction-modification system specificity subunit
           [Lactobacillus helveticus DPC 4571]
          Length = 262

 Score = 44.0 bits (102), Expect = 0.044,   Method: Composition-based stats.
 Identities = 11/63 (17%), Positives = 26/63 (41%), Gaps = 4/63 (6%)

Query: 336 LMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
           +M +     +   +  G R  L  + + +L +L+P   EQ  I +      + +D  +  
Sbjct: 1   MMNAIKNFNIEPFLVGGGRAKLNADVMMKLNILLPTFVEQEKIGS----LFSLLDKTIAL 56

Query: 396 IEQ 398
            ++
Sbjct: 57  HQR 59


>gi|319939012|ref|ZP_08013376.1| hypothetical protein HMPREF9459_00364 [Streptococcus anginosus
           1_2_62CV]
 gi|319812062|gb|EFW08328.1| hypothetical protein HMPREF9459_00364 [Streptococcus anginosus
           1_2_62CV]
          Length = 168

 Score = 44.0 bits (102), Expect = 0.045,   Method: Composition-based stats.
 Identities = 20/147 (13%), Positives = 49/147 (33%), Gaps = 15/147 (10%)

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
             +  +   +G + E       V   +I  +         ++  A+V    ++    +  
Sbjct: 26  FFKVSDMNIIGNEFEMQSANNYVSKEQIERKNWKPITSVPAIMFAKVGAAIMLNRKRLIR 85

Query: 324 KPHGIDSTYLAWLMRS---YDLCKVF-------YAMGSGLRQSLKFEDVKRLPVLVP-PI 372
            P  ID+  +A++       +  K+             G   S    D++ + V +P  +
Sbjct: 86  HPFLIDNNTMAYIFDKTWDINFGKIIFDTIYLPKYSQVGALPSYNGSDIENINVFMPNSL 145

Query: 373 KEQFDITNVINVETARIDVLVEKIEQS 399
            EQ  I +      + +D  +   ++ 
Sbjct: 146 PEQKAIGDF----FSTLDRSIALHQRE 168


>gi|284097666|ref|ZP_06385692.1| conserved hypothetical protein [Candidatus Poribacteria sp. WGA-A3]
 gi|283830823|gb|EFC34907.1| conserved hypothetical protein [Candidatus Poribacteria sp. WGA-A3]
          Length = 55

 Score = 44.0 bits (102), Expect = 0.045,   Method: Composition-based stats.
 Identities = 9/45 (20%), Positives = 19/45 (42%), Gaps = 4/45 (8%)

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            I  V++     ID  +  +EQ     +  +   +   +TG++ L
Sbjct: 1   AIAAVLSD----IDAEITTLEQRRDKTRAIKQGMMQQLLTGRVRL 41


>gi|297590648|ref|ZP_06949286.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus
           MN8]
 gi|297575534|gb|EFH94250.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus
           MN8]
          Length = 160

 Score = 44.0 bits (102), Expect = 0.045,   Method: Composition-based stats.
 Identities = 20/131 (15%), Positives = 42/131 (32%), Gaps = 15/131 (11%)

Query: 275 LKPESYETYQIVDPGEIVFRFIDLQNDKRS-----LRSAQVMERGIITSAYMAVKPHGID 329
           +K  S + Y+ ++ G+I            S     + +  +  +G I   Y+   P    
Sbjct: 30  IKVNSGKDYKHLEKGDIPVYGTGGYMTSVSEPLSEIDAVGIGRKGTINKPYLLEAPFWTV 89

Query: 330 STYLA----------WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
            T             +++  +          S    SL  + + ++   VP  KEQ  I 
Sbjct: 90  DTLFYCTPKKETDILFILSLFRKINWKVYDESTGVPSLSKQTINKINRFVPSNKEQQKIG 149

Query: 380 NVINVETARID 390
                   +++
Sbjct: 150 EFFIKLDRQLN 160



 Score = 42.1 bits (97), Expect = 0.19,   Method: Composition-based stats.
 Identities = 21/159 (13%), Positives = 43/159 (27%), Gaps = 18/159 (11%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W+   +    K+N+G+  +            +E G        G           +   
Sbjct: 20  EWEEKKLGDLIKVNSGKDYK-----------HLEKGDIPVYGTGGYMTSVSEP---LSEI 65

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
             +  G+ G   +  ++        T F     K+     +             +   E 
Sbjct: 66  DAVGIGRKGTINKPYLLEAPFWTVDTLFYCTPKKETDILFILSLFR----KINWKVYDES 121

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
             +     + I  I   +P   EQ  I E  I    +++
Sbjct: 122 TGVPSLSKQTINKINRFVPSNKEQQKIGEFFIKLDRQLN 160


>gi|164687372|ref|ZP_02211400.1| hypothetical protein CLOBAR_01013 [Clostridium bartlettii DSM
           16795]
 gi|164603796|gb|EDQ97261.1| hypothetical protein CLOBAR_01013 [Clostridium bartlettii DSM
           16795]
          Length = 165

 Score = 44.0 bits (102), Expect = 0.046,   Method: Composition-based stats.
 Identities = 26/159 (16%), Positives = 51/159 (32%), Gaps = 13/159 (8%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           K W    +    +L  G+  +S +      + +V S  G Y    GN  +      S   
Sbjct: 10  KGWSTELLGEICELKAGKNIKSNE------IHNVNSK-GLYPCYGGNGLRGYVENYS--H 60

Query: 83  KGQI-LYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
           +G I + G+ G        A      +   +V +PK  + +    + L       +  + 
Sbjct: 61  EGNINIIGRQGALCGNVKYARGKFYATEHAVVTKPKININDYWLHFALKEL---DLNRLA 117

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
            GA         +  + +P  P+  Q    + +      
Sbjct: 118 TGAAQPGLTVGKLNEVEIPKVPIELQNQFADFVNKVEKL 156



 Score = 39.8 bits (91), Expect = 0.79,   Method: Composition-based stats.
 Identities = 12/95 (12%), Positives = 28/95 (29%), Gaps = 3/95 (3%)

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
              I  Q            +      A +      I+  +L + ++  DL ++       
Sbjct: 64  INIIGRQGALCGNVKYARGKFYATEHAVVTKPKININDYWLHFALKELDLNRL---ATGA 120

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
            +  L    +  + +   PI+ Q    + +N    
Sbjct: 121 AQPGLTVGKLNEVEIPKVPIELQNQFADFVNKVEK 155


>gi|209554402|ref|YP_002284451.1| reStriction-modification enzyme mpuuiii s subunit [Ureaplasma
           urealyticum serovar 10 str. ATCC 33699]
 gi|209541903|gb|ACI60132.1| reStriction-modification enzyme mpuuiii s subunit [Ureaplasma
           urealyticum serovar 10 str. ATCC 33699]
          Length = 129

 Score = 44.0 bits (102), Expect = 0.048,   Method: Composition-based stats.
 Identities = 13/128 (10%), Positives = 44/128 (34%), Gaps = 9/128 (7%)

Query: 288 PGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG----IDSTYLAWLMRSYDLC 343
             +  F  I            Q  +  I    ++ +K        ++ ++ ++++     
Sbjct: 1   MYDGEFITISADGAYAGTVFLQNGKFSITNVCFILMKNKDIDFKFNNKFVYYILKKEQEI 60

Query: 344 KVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF---DITNVINVETARIDVLVEKIEQSI 400
               +     R +++   +K + + +P ++ Q     I   +   + + + + + +    
Sbjct: 61  NRLKSQVGSSRPAVREYSLKEIKINLPNMEIQEEFSKIVEPLLNLSTKANRIEKILND-- 118

Query: 401 VLLKERRS 408
            LLK  + 
Sbjct: 119 CLLKNVKK 126


>gi|15675214|ref|NP_269388.1| hypothetical protein SPy_1254 [Streptococcus pyogenes M1 GAS]
 gi|71910777|ref|YP_282327.1| type I restriction-modification system specificity subunit
           [Streptococcus pyogenes MGAS5005]
 gi|13622382|gb|AAK34109.1| hypothetical protein SPy_1254 [Streptococcus pyogenes M1 GAS]
 gi|71853559|gb|AAZ51582.1| type I restriction-modification system specificity subunit
           [Streptococcus pyogenes MGAS5005]
          Length = 198

 Score = 44.0 bits (102), Expect = 0.049,   Method: Composition-based stats.
 Identities = 33/186 (17%), Positives = 68/186 (36%), Gaps = 10/186 (5%)

Query: 26  KVVPIKRFTKLNTGRTSESG---KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + V +        G+   S     D+  I L D+ +   +Y                +  
Sbjct: 14  EKVTLGTVVDCFKGKAVSSKVVPGDVGLINLSDMGTLGIQYHQLRTFQMDRRQLLRYLLE 73

Query: 83  KGQILYGKLGPYLRKAIIA--DFDGICSTQFLVLQPKDVLP-ELLQGWLLSIDVTQRIEA 139
            G +L    G   +  +    + D + S+   VL+P+ +L    ++ +L S      ++ 
Sbjct: 74  DGDVLIASKGTLKKVCVFHKQNRDVVASSNITVLRPQKLLRGYYIKFFLDSPIGQALLDV 133

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
              G  + +   K + +IP+P+ PL +Q    + +I   +R  T    ++   E   E  
Sbjct: 134 ADHGKDVINLSTKELLDIPIPVIPLVKQ----DYLINHYLRGLTDYHRKLNRAEQEWEYI 189

Query: 200 QALVSY 205
           Q  +  
Sbjct: 190 QNEIQK 195



 Score = 37.1 bits (84), Expect = 5.1,   Method: Composition-based stats.
 Identities = 14/128 (10%), Positives = 46/128 (35%), Gaps = 9/128 (7%)

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
             +++ G+++         K  +   Q  +    ++  +      +   Y+ + + S   
Sbjct: 69  RYLLEDGDVLIASKG-TLKKVCVFHKQNRDVVASSNITVLRPQKLLRGYYIKFFLDSPIG 127

Query: 343 CKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNV----INVETARIDVLVEK-- 395
             +      G    +L  +++  +P+ V P+ +Q  + N     +     +++   ++  
Sbjct: 128 QALLDVADHGKDVINLSTKELLDIPIPVIPLVKQDYLINHYLRGLTDYHRKLNRAEQEWE 187

Query: 396 -IEQSIVL 402
            I+  I  
Sbjct: 188 YIQNEIQK 195


>gi|269863276|ref|XP_002651162.1| hypothetical protein EBI_27262 [Enterocytozoon bieneusi H348]
 gi|220065024|gb|EED42893.1| hypothetical protein EBI_27262 [Enterocytozoon bieneusi H348]
          Length = 190

 Score = 44.0 bits (102), Expect = 0.050,   Method: Composition-based stats.
 Identities = 16/128 (12%), Positives = 40/128 (31%), Gaps = 4/128 (3%)

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
           +       + PG++V         K             +    +      ++  +LAW +
Sbjct: 50  DEKYLSHCLRPGDVVLPSRG-DYYKAWFFEGAEEPVFPMGQLNVITPEANLNGRFLAWYL 108

Query: 338 RSYDLC-KVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
                  K+   +     ++L    +  L + VP +  Q  I   ++  T ++   +   
Sbjct: 109 NQPATQVKISVMLTGTGIKALTKSALLSLEIEVPAMDRQKQIAE-MDETTEKM-AAIRHR 166

Query: 397 EQSIVLLK 404
              +  L+
Sbjct: 167 LSELDRLE 174


>gi|167949253|ref|ZP_02536327.1| Type I restriction-modification system specificity subunit
           [Endoriftia persephone 'Hot96_1+Hot96_2']
          Length = 109

 Score = 44.0 bits (102), Expect = 0.051,   Method: Composition-based stats.
 Identities = 17/102 (16%), Positives = 35/102 (34%), Gaps = 11/102 (10%)

Query: 6   AYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLP 65
            +P+++++G          W+V P +   K  T +  E+ K+++ I  +       +Y  
Sbjct: 19  RFPEFREAG---------EWEVKPFEEGFKRLTNKNIENNKNVLTISAQLGLVSQLEYFN 69

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGIC 107
           K       D S   +  +G   Y K               + 
Sbjct: 70  KK--VAAKDLSGYYLLHRGDFAYNKSYSNGYPMGAIKPAKVV 109


>gi|148544101|ref|YP_001271471.1| restriction modification system DNA specificity subunit
           [Lactobacillus reuteri DSM 20016]
 gi|325682359|ref|ZP_08161876.1| restriction modification system DNA specificity subunit
           [Lactobacillus reuteri MM4-1A]
 gi|148531135|gb|ABQ83134.1| restriction modification system DNA specificity domain
           [Lactobacillus reuteri DSM 20016]
 gi|324978198|gb|EGC15148.1| restriction modification system DNA specificity subunit
           [Lactobacillus reuteri MM4-1A]
          Length = 211

 Score = 44.0 bits (102), Expect = 0.052,   Method: Composition-based stats.
 Identities = 13/125 (10%), Positives = 39/125 (31%), Gaps = 4/125 (3%)

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG 350
           +    I   +       +           + +V P+   S    + +  ++   +     
Sbjct: 91  LPTNTILFSSRAPIGYISIAKNNLATNQGFKSVIPNKEYSFQFIYELLKHETAAIKNEAN 150

Query: 351 SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
               + +  + +K+  + +P  ++    T+  N  T  I   + K+E+    L   +   
Sbjct: 151 GSTFKEISGKKLKQHIINIPNSED----TSKFNEITKPIFKQLRKLEEENEKLLAIKKEL 206

Query: 411 IAAAV 415
           +    
Sbjct: 207 LEKYF 211


>gi|158313868|ref|YP_001506376.1| N-6 DNA methylase [Frankia sp. EAN1pec]
 gi|158109273|gb|ABW11470.1| N-6 DNA methylase [Frankia sp. EAN1pec]
          Length = 775

 Score = 44.0 bits (102), Expect = 0.052,   Method: Composition-based stats.
 Identities = 29/207 (14%), Positives = 66/207 (31%), Gaps = 14/207 (6%)

Query: 24  HWKVVPIKRFTKLNTGRTSE------SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
            W+ +P+     +  G +            I  +   ++     +  P+  +    D + 
Sbjct: 570 GWRRLPLGDVCDVLAGFSGAVRTERGLPSGIPVVKPRNLVDN--RISPEGVDYVAPDVAA 627

Query: 78  ---VSIFAKGQILYGKLGPYLRKAIIADFD--GICSTQFLVLQP-KDVLPELLQGWLLSI 131
                    G I+  + G   R+A++ +     +  T  L L+P + V P  L  +L   
Sbjct: 628 RMERYRLRAGDIVCVRTGQLGRQALVTEEQSGWLIGTSCLRLRPDESVDPRYLVHFLALP 687

Query: 132 DVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
            +++ +     G+ +       +  +P+ +P   +Q  I     +    +      R   
Sbjct: 688 QISEWLLGHSTGSAIRVLTAATMRGLPLVLPDRHQQGRIGSAAGSLDDLVAVHDQIRQVS 747

Query: 192 IELLKEKKQALVSYIVTKGLNPDVKMK 218
             L        +      G  P+   K
Sbjct: 748 SALRDALLPLFLQDPTPPGPVPEEGSK 774



 Score = 42.1 bits (97), Expect = 0.17,   Method: Composition-based stats.
 Identities = 22/132 (16%), Positives = 46/132 (34%), Gaps = 6/132 (4%)

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD 341
               +  G+IV         + +L + +     I TS         +D  YL   +    
Sbjct: 630 ERYRLRAGDIVCVRTGQLGRQ-ALVTEEQSGWLIGTSCLRLRPDESVDPRYLVHFLALPQ 688

Query: 342 LCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
           + +      +G   + L    ++ LP+++P   +Q  I +        +D LV   +Q  
Sbjct: 689 ISEWLLGHSTGSAIRVLTAATMRGLPLVLPDRHQQGRIGS----AAGSLDDLVAVHDQIR 744

Query: 401 VLLKERRSSFIA 412
            +    R + + 
Sbjct: 745 QVSSALRDALLP 756


>gi|265763429|ref|ZP_06091997.1| type I restriction endonuclease S subunit [Bacteroides sp. 2_1_16]
 gi|263256037|gb|EEZ27383.1| type I restriction endonuclease S subunit [Bacteroides sp. 2_1_16]
          Length = 219

 Score = 43.6 bits (101), Expect = 0.052,   Method: Composition-based stats.
 Identities = 37/186 (19%), Positives = 65/186 (34%), Gaps = 11/186 (5%)

Query: 30  IKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           +     L  G   +SGK        I+ I     E            +  +D     +  
Sbjct: 36  LSNIATLKNGYAFQSGKYNALGKWKILTITNVSGERYINDEDYNCIINLPNDIQDHQVLK 95

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQF-LVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
           +G IL    G   R ++  D D + + +  L+   K+V  E L   L S      + A  
Sbjct: 96  EGDILISLTGNVGRVSLCKDGDYLLNQRVGLLQLAKNVNQEFLYQILSSQRFENSMIACG 155

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
           +GA   +     + +  +P       +L+  KI+      D  I    R + LL  +KQ 
Sbjct: 156 QGAAQMNIGKGDVESYVLPYSSNVNNILLVAKILHSY---DEYIINEQRKLTLLTMQKQY 212

Query: 202 LVSYIV 207
            ++ + 
Sbjct: 213 FLAQMF 218



 Score = 42.5 bits (98), Expect = 0.13,   Method: Composition-based stats.
 Identities = 22/181 (12%), Positives = 59/181 (32%), Gaps = 18/181 (9%)

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK---PESYETYQIVDPGEIV 292
                    + K   L +  IL+++  +  + +   +       P   + +Q++  G+I+
Sbjct: 41  TLKNGYAFQSGKYNALGKWKILTITNVSGERYINDEDYNCIINLPNDIQDHQVLKEGDIL 100

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
                        +    +    +    +      ++  +L  ++ S        A G G
Sbjct: 101 ISLTGNVGRVSLCKDGDYLLNQRVG---LLQLAKNVNQEFLYQILSSQRFENSMIACGQG 157

Query: 353 L-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI----DVLVEKIEQSIVLLKERR 407
             + ++   DV+   +            N I +  A+I    D  +   ++ + LL  ++
Sbjct: 158 AAQMNIGKGDVESYVLPYSSN------VNNI-LLVAKILHSYDEYIINEQRKLTLLTMQK 210

Query: 408 S 408
            
Sbjct: 211 Q 211


>gi|197119367|ref|YP_002139794.1| type I restriction/modification system DNA methyltransferase
           [Geobacter bemidjiensis Bem]
 gi|197088727|gb|ACH39998.1| type I restriction/modification system DNA methyltransferase,
           putative [Geobacter bemidjiensis Bem]
          Length = 707

 Score = 43.6 bits (101), Expect = 0.054,   Method: Composition-based stats.
 Identities = 21/99 (21%), Positives = 39/99 (39%), Gaps = 10/99 (10%)

Query: 285 IVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA-------VKPHGIDSTYLAWLM 337
             +P +IVF  +     K +L      E G ++                 +    LA ++
Sbjct: 565 RYEPADIVFARMRPNLRKVALMVF--PEGGYVSPECAVLSVRKGKDDQPLVKPEVLAAIL 622

Query: 338 RSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQ 375
           RS  +      + SG+ R  L  +D++++ + VPP   Q
Sbjct: 623 RSDLVFGQIMHLISGIGRPRLNSKDLRKVLIPVPPSAIQ 661


>gi|332983075|ref|YP_004464516.1| restriction modification system DNA specificity domain-containing
           protein [Mahella australiensis 50-1 BON]
 gi|332700753|gb|AEE97694.1| restriction modification system DNA specificity domain protein
           [Mahella australiensis 50-1 BON]
          Length = 203

 Score = 43.6 bits (101), Expect = 0.055,   Method: Composition-based stats.
 Identities = 18/158 (11%), Positives = 50/158 (31%), Gaps = 7/158 (4%)

Query: 228 VPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVD 287
            PD  +   F  ++         +  ++  +     ++   ++  +G   E+   Y+   
Sbjct: 12  CPDGVKYVSFAEVIDYEQPTKYIVSSTDYDNNYKIPVLTAGQSFILGYTDETDGLYRASK 71

Query: 288 PGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY 347
              ++       +           E  + +SA   + P   +     +L  +    +   
Sbjct: 72  EKPVIIFDDFTTS-----LHWVDFEFKVKSSAIKILTPKNTNIAVFRYLYYAMSNTRYQP 126

Query: 348 AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
                 RQ +      +  + VPP+  Q +I  +++  
Sbjct: 127 DFSKHERQWISR--YSKFTIPVPPLPVQQEIVRILDNF 162


>gi|238923781|ref|YP_002937297.1| anti-codon nuclease masking agent (PrrB) [Eubacterium rectale ATCC
           33656]
 gi|238875456|gb|ACR75163.1| anti-codon nuclease masking agent (PrrB) [Eubacterium rectale ATCC
           33656]
          Length = 177

 Score = 43.6 bits (101), Expect = 0.055,   Method: Composition-based stats.
 Identities = 13/135 (9%), Positives = 39/135 (28%), Gaps = 10/135 (7%)

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD 341
                D   I+   +                  +  +  +A      +  Y+ +++++  
Sbjct: 43  NRASYDKTNILIARVGAN---AGYVHLASGSYDVSDNTLIADIKPENNLKYIFYILQNIA 99

Query: 342 LCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI- 400
           L +       G +  +    +K++ + +P    Q  +  +++        L   I   I 
Sbjct: 100 LNRFAK---GGGQPLITAGKIKQIEIKIPDQITQDKVVKILDEFEMICTDLNAGIPAEIN 156

Query: 401 ---VLLKERRSSFIA 412
                 +  R   + 
Sbjct: 157 VRNKQYEFYRDKLMT 171


>gi|315648619|ref|ZP_07901716.1| Type I restriction-modification system specificity subunit
           [Paenibacillus vortex V453]
 gi|315275998|gb|EFU39346.1| Type I restriction-modification system specificity subunit
           [Paenibacillus vortex V453]
          Length = 185

 Score = 43.6 bits (101), Expect = 0.058,   Method: Composition-based stats.
 Identities = 25/158 (15%), Positives = 53/158 (33%), Gaps = 10/158 (6%)

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
                  N ++             +    +   G++VF F+     K  + S     + I
Sbjct: 29  YSYEDLVNDLEGSFLDFQANLYHEHTDGYLSSTGDVVFSFVSS---KAGIVSDLNQGKII 85

Query: 316 ITSAY-MAVKPHGIDSTYLAWLMR-SYDLCKVF-YAMGSGLRQSLKFEDVKRLPVLVPPI 372
             +   +      +D  YL + +  SY + K    +M   +   L    +K   + +P I
Sbjct: 86  NQNFAKLIFDHRTLDPCYLCYALNESYSVKKQMAISMQGSIVPKLIPAILKEFEIKLPTI 145

Query: 373 KEQFDITN---VINVETARIDVLVEKIEQS-IVLLKER 406
           ++Q  I      +    A +    E  E+  + +L + 
Sbjct: 146 EKQRTIGKAYFTLKKHHALVKKQAELEERLYLEILNQL 183



 Score = 36.7 bits (83), Expect = 6.4,   Method: Composition-based stats.
 Identities = 18/153 (11%), Positives = 48/153 (31%), Gaps = 10/153 (6%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYI-----GLEDVESG-TGKYLPKDGNSRQSDTSTVSIFA 82
            ++    +  G+    G +   +       ED+ +   G +L    N     T    + +
Sbjct: 2   KLEDVVTVRIGKNLSRGNEKNDLTLVAYSYEDLVNDLEGSFLDFQANLYHEHTDGY-LSS 60

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQF---LVLQPKDVLPELLQGWLLSIDVTQRIEA 139
            G +++  +          +   I +  F   +          L      S  V +++  
Sbjct: 61  TGDVVFSFVSSKAGIVSDLNQGKIINQNFAKLIFDHRTLDPCYLCYALNESYSVKKQMAI 120

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIRE 172
             +G+ +       +    + +P + +Q  I +
Sbjct: 121 SMQGSIVPKLIPAILKEFEIKLPTIEKQRTIGK 153


>gi|149010475|ref|ZP_01831846.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP19-BS75]
 gi|147764956|gb|EDK71885.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP19-BS75]
 gi|327389174|gb|EGE87519.1| type I restriction modification DNA specificity domain protein
           [Streptococcus pneumoniae GA04375]
          Length = 174

 Score = 43.6 bits (101), Expect = 0.058,   Method: Composition-based stats.
 Identities = 14/147 (9%), Positives = 39/147 (26%), Gaps = 2/147 (1%)

Query: 243 ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK 302
             N+K            S G  + K +    G                ++     +    
Sbjct: 7   NNNKKFAVKTGQQCFKFSSGKFLDKHDRVFEGYPAYGGNGIAWKSRKYLIDNPTIIIGRV 66

Query: 303 RSLRSAQVMERG--IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFE 360
            +         G   I+   + +K        L +L+    +           +  +  +
Sbjct: 67  GAYCGNVRTTHGKVWISDNAIYIKEFKNSDFNLVFLLELMKVIDFSKFADFSGQPKITQK 126

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETA 387
            ++    ++PP+  Q +  + + +   
Sbjct: 127 PLENQKYILPPLALQNEFADFVALVDK 153


>gi|308179941|ref|YP_003924069.1| type I restriction-modification system specificity subunit
           [Lactobacillus plantarum subsp. plantarum ST-III]
 gi|308045432|gb|ADN97975.1| type I restriction-modification system specificity subunit
           [Lactobacillus plantarum subsp. plantarum ST-III]
          Length = 164

 Score = 43.6 bits (101), Expect = 0.059,   Method: Composition-based stats.
 Identities = 27/170 (15%), Positives = 59/170 (34%), Gaps = 17/170 (10%)

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
             T   E +IL     ++        +     + +     + G+++        D     
Sbjct: 9   NYTNNPEDHILVQGNADMKNGYVLPRVWTTQITKKA----EAGDLILSVRAPVGDIGKTD 64

Query: 307 SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLP 366
              V+ RG+ +     +K +      L ++    D+ K          +S+   D+K   
Sbjct: 65  YDVVLGRGVAS-----IKGNEFIYQTLKYM---NDIGKWTRFSTGSTFESINSADIKDAR 116

Query: 367 VLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL-LKERRSSFIAAAV 415
           +  P + EQ  I N++       D ++   EQ   L +K  ++S +   +
Sbjct: 117 IGYPKLNEQNLIGNILEKM----DSIIAANEQVPKLVIKIVKNSLVNLLL 162


>gi|237738545|ref|ZP_04569026.1| type I restriction-modification system specificity determinant
           [Fusobacterium sp. 2_1_31]
 gi|229424212|gb|EEO39259.1| type I restriction-modification system specificity determinant
           [Fusobacterium sp. 2_1_31]
          Length = 195

 Score = 43.6 bits (101), Expect = 0.060,   Method: Composition-based stats.
 Identities = 20/172 (11%), Positives = 53/172 (30%), Gaps = 12/172 (6%)

Query: 245 NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQ----- 299
           N +N   I      L+ G I  + +        +     + +  G+I+            
Sbjct: 28  NSQNIASIIRTTNFLNNGKIDIENKELIKREIDKKKIEQKQLKRGDIIIEKSGGSPNQPV 87

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKF 359
                                +      I+S Y+ +  R+    K      +     +  
Sbjct: 88  GRVVFFDLNSNEIFLCNNFTSILRVKEDINSKYVFYFFRNSYKNKKVLKFQNKTTGIINL 147

Query: 360 ED---VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
           +    +    + +P +K Q    ++++     ++ ++EK +  ++ L+E   
Sbjct: 148 KLQNYLNESHIFLPELKIQNKRVDILD----NLENIIEKNQNYLIHLRELTK 195



 Score = 38.2 bits (87), Expect = 2.5,   Method: Composition-based stats.
 Identities = 25/186 (13%), Positives = 53/186 (28%), Gaps = 19/186 (10%)

Query: 28  VPIKRFTKLNTGRTSESGKDII-----YIGLED-VESGTGKYLPKDGNSRQSDTST--VS 79
             +    ++ TG       +        I   + + +G      K+   R+ D       
Sbjct: 8   RKLTDICEIITGEWGTEISENSQNIASIIRTTNFLNNGKIDIENKELIKREIDKKKIEQK 67

Query: 80  IFAKGQILYGKLG-----PYLRKAIIA---DFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
              +G I+  K G     P  R        +   +C+    +L+ K+ +      +    
Sbjct: 68  QLKRGDIIIEKSGGSPNQPVGRVVFFDLNSNEIFLCNNFTSILRVKEDINSKYVFYFFRN 127

Query: 132 DVTQRIEAICEGATMSHADWKGIGNI---PMPIPPLAEQVLIREKIIAETVRIDTLITER 188
               +     +  T    + K    +    + +P L  Q    + +      I+      
Sbjct: 128 SYKNKKVLKFQNKTTGIINLKLQNYLNESHIFLPELKIQNKRVDILDNLENIIEKNQNYL 187

Query: 189 IRFIEL 194
           I   EL
Sbjct: 188 IHLREL 193


>gi|312875033|ref|ZP_07735051.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus iners LEAF 2053A-b]
 gi|311089428|gb|EFQ47854.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus iners LEAF 2053A-b]
          Length = 146

 Score = 43.6 bits (101), Expect = 0.062,   Method: Composition-based stats.
 Identities = 11/145 (7%), Positives = 37/145 (25%), Gaps = 7/145 (4%)

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
            + + N  ++   +               +   +    +  +          V E   ++
Sbjct: 7   YVEFKNGKKRPTLKGTIPVYGGNGILDYTNTANMQSGVVIGRVGVYCGSVFLVREECWVS 66

Query: 318 SAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFD 377
              +             +         +        +  L    +  + V +P +  Q  
Sbjct: 67  DNAIKAMCKENIDLGYLY--YLLSSLHLNERRIGTSQPLLTQNILNNIEVEIPELAIQKK 124

Query: 378 ITNVINVETARIDVLVEKIEQSIVL 402
           I++++ +   +I     K+   I  
Sbjct: 125 ISSILELLDEKI-----KLNNEINK 144


>gi|257457413|ref|ZP_05622584.1| DNA methylase-type I restriction-modification system [Treponema
           vincentii ATCC 35580]
 gi|257445335|gb|EEV20407.1| DNA methylase-type I restriction-modification system [Treponema
           vincentii ATCC 35580]
          Length = 271

 Score = 43.6 bits (101), Expect = 0.063,   Method: Composition-based stats.
 Identities = 27/245 (11%), Positives = 69/245 (28%), Gaps = 12/245 (4%)

Query: 164 LAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIE 223
           +         I     R+   I             K    ++ V+  L+ +   +    +
Sbjct: 25  VYYNEQASYYINLAIFRLYEEIGLFDNLKSANYTVKNLKDTFAVSGRLDSEYYQEK--YD 82

Query: 224 WVGLVPDHWEVKPFFALVTELNR---KNTKLIESNILSLSYGNIIQKLETRNMGLKPESY 280
            +              LVT        +          +   ++ +   T       E+ 
Sbjct: 83  RLFEKLSDNNCDKLSNLVTIKKSIEPGSESYQTKGTPFIRVQDLTKFGLTDTNIYLSENE 142

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV---KPHGIDSTYLAWLM 337
               I    + +    D       +         IITS+ +     K   +   YLA ++
Sbjct: 143 FKDCIRPKKDTILLSKDGT---VGIAYKMNKSEDIITSSAILHLDVKDKRVLPDYLALVL 199

Query: 338 RSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
            S  +         G +    K  +++ + + +   ++Q  I+ ++       +     +
Sbjct: 200 NSVAVKMQAEKDAGGSIINHWKKSEIENVIIPIIAKEKQEQISKLLIESETLRNESKSIL 259

Query: 397 EQSIV 401
           E+++ 
Sbjct: 260 EKAVK 264


>gi|253569684|ref|ZP_04847093.1| type IC HsdS subunit [Bacteroides sp. 1_1_6]
 gi|251840065|gb|EES68147.1| type IC HsdS subunit [Bacteroides sp. 1_1_6]
          Length = 217

 Score = 43.6 bits (101), Expect = 0.063,   Method: Composition-based stats.
 Identities = 21/165 (12%), Positives = 49/165 (29%), Gaps = 13/165 (7%)

Query: 30  IKRFTKLNTGRTSESGKDI----IYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
              F K  +G + +S +D      YI   +V           G  + +     S+   G 
Sbjct: 30  FSDFGKSYSGLSGKSAEDFGEGCPYITYMNVYQNQIINATNVGLVKINGAEQQSVVHYGD 89

Query: 86  ILYGKLGPYLRKAIIAD---------FDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
           IL+        +  I           +         ++    + P  L  ++ +    + 
Sbjct: 90  ILFTLSSETAEEVGIGAVYLGDTYPLYLNSFCFGIHIIDDNKIFPPFLAFYVSTKSFRKV 149

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
           +  + +G+T  +             P +  Q  I   +   + ++
Sbjct: 150 VFPLAQGSTRFNLQKNDFMKKGFSFPTVERQRKIYSALKTYSDKL 194


>gi|260171383|ref|ZP_05757795.1| putative type I restriction enzyme specificity protein [Bacteroides
           sp. D2]
 gi|315919696|ref|ZP_07915936.1| restriction modification system DNA specificity subunit
           [Bacteroides sp. D2]
 gi|313693571|gb|EFS30406.1| restriction modification system DNA specificity subunit
           [Bacteroides sp. D2]
          Length = 185

 Score = 43.6 bits (101), Expect = 0.064,   Method: Composition-based stats.
 Identities = 17/153 (11%), Positives = 47/153 (30%), Gaps = 13/153 (8%)

Query: 270 TRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID 329
                 K  +Y  Y      + +  ++D    +    S         T  Y   K +  +
Sbjct: 34  IEISQQKNPTYPVYSSQTSNDGIMGYLDDYMFEGEYISWTTDGANAGTVFYRNGKFNCTN 93

Query: 330 STYLAWLMRSYDLCKVFYAMGSGLRQSLKFE---------DVKRLPVLVPPIKEQFDITN 380
              L  L + +D   V   +    ++ +             +  + + +P + EQ  I  
Sbjct: 94  VCGLLKLRKEFDTHFVSLVLAEATKKYVSINLANPKLMNNTMGNIQIRLPKLDEQKRI-- 151

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
             ++   ++  L+      +    +++   ++ 
Sbjct: 152 --SIIFRKLQKLLTTHNSLLAEYTKQKQYLLSQ 182



 Score = 37.1 bits (84), Expect = 6.3,   Method: Composition-based stats.
 Identities = 30/186 (16%), Positives = 61/186 (32%), Gaps = 14/186 (7%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT-GKYLPKDGNSRQSDTSTVSIF 81
           + W+   IK   ++  GR       I +I +   ++ T   Y  +  N          +F
Sbjct: 12  ETWEQFKIKDIAQIGRGRV------ISFIEISQQKNPTYPVYSSQTSNDGIMGYLDDYMF 65

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
               I +   G         +    C+    +L+ +          +L+    + +    
Sbjct: 66  EGEYISWTTDGANAGTVFYRNGKFNCTNVCGLLKLRKEFDTHFVSLVLAEATKKYVSIN- 124

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
                       +GNI + +P L EQ      I     ++  L+T     +    ++KQ 
Sbjct: 125 --LANPKLMNNTMGNIQIRLPKLDEQKR----ISIIFRKLQKLLTTHNSLLAEYTKQKQY 178

Query: 202 LVSYIV 207
           L+S + 
Sbjct: 179 LLSQMF 184


>gi|291530638|emb|CBK96223.1| Restriction endonuclease S subunits [Eubacterium siraeum 70/3]
          Length = 177

 Score = 43.6 bits (101), Expect = 0.067,   Method: Composition-based stats.
 Identities = 9/119 (7%), Positives = 31/119 (26%), Gaps = 4/119 (3%)

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR 354
            I    +     S  + +       Y          +   +    Y    +         
Sbjct: 60  SISEGGNSCGFVSYNLQKFWSGGHCYTLKIMAEQCRSKYLFFYLKYKEKDIMQLRVGSGL 119

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            +++ + ++   V +P  K+Q      +      +    E     +   + ++   ++ 
Sbjct: 120 PNIQKKSLENFNVKLPNYKKQ----CFVERVFEVVTAKKEIENALLERFQSQKKFLLSK 174


>gi|221231668|ref|YP_002510820.1| type I RM modification enzyme [Streptococcus pneumoniae ATCC
           700669]
 gi|220674128|emb|CAR68647.1| putative type I RM modification enzyme [Streptococcus pneumoniae
           ATCC 700669]
 gi|332201356|gb|EGJ15426.1| type I restriction modification DNA specificity domain protein
           [Streptococcus pneumoniae GA47368]
          Length = 193

 Score = 43.6 bits (101), Expect = 0.067,   Method: Composition-based stats.
 Identities = 14/147 (9%), Positives = 39/147 (26%), Gaps = 2/147 (1%)

Query: 243 ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK 302
             N+K            S G  + K +    G                ++     +    
Sbjct: 26  NNNKKFAVKTGQQCFKFSSGKFLDKHDRVFEGYPAYGGNGIAWKSRKYLIDNPTIIIGRV 85

Query: 303 RSLRSAQVMERG--IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFE 360
            +         G   I+   + +K        L +L+    +           +  +  +
Sbjct: 86  GAYCGNVRTTHGKVWISDNAIYIKEFKNSDFNLVFLLELMKVIDFSKFADFSGQPKITQK 145

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETA 387
            ++    ++PP+  Q +  + + +   
Sbjct: 146 PLENQKYILPPLALQNEFADFVALVDK 172


>gi|227365149|ref|ZP_03849163.1| restriction modification system DNA specificity subunit
           [Lactobacillus reuteri MM2-3]
 gi|227069813|gb|EEI08222.1| restriction modification system DNA specificity subunit
           [Lactobacillus reuteri MM2-3]
          Length = 200

 Score = 43.6 bits (101), Expect = 0.067,   Method: Composition-based stats.
 Identities = 13/125 (10%), Positives = 39/125 (31%), Gaps = 4/125 (3%)

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG 350
           +    I   +       +           + +V P+   S    + +  ++   +     
Sbjct: 80  LPTNTILFSSRAPIGYISIAKNNLATNQGFKSVIPNKEYSFQFIYELLKHETAAIKNEAN 139

Query: 351 SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
               + +  + +K+  + +P  ++    T+  N  T  I   + K+E+    L   +   
Sbjct: 140 GSTFKEISGKKLKQHIINIPNSED----TSKFNEITKPIFKQLRKLEEENEKLLAIKKEL 195

Query: 411 IAAAV 415
           +    
Sbjct: 196 LEKYF 200


>gi|207092852|ref|ZP_03240639.1| type I R-M system specificity subunit [Helicobacter pylori
           HPKX_438_AG0C1]
          Length = 44

 Score = 43.2 bits (100), Expect = 0.068,   Method: Composition-based stats.
 Identities = 10/37 (27%), Positives = 20/37 (54%)

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQ 398
           ++++ + +PP+ EQ  I N+++     I  L  K  Q
Sbjct: 5   MQQIQIPIPPLDEQIAIANILSALDHEIISLKNKKRQ 41


>gi|316984504|gb|EFV63472.1| type I restriction enzyme specificity protein HsdS [Neisseria
           meningitidis H44/76]
          Length = 61

 Score = 43.2 bits (100), Expect = 0.070,   Method: Composition-based stats.
 Identities = 9/42 (21%), Positives = 19/42 (45%)

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
            +K + + +PP+ EQ  I  +++        + E +   I L
Sbjct: 1   MIKDISIPIPPLPEQEKIVAILDKFDTLTHSISEGLPYEIAL 42


>gi|293372406|ref|ZP_06618790.1| conserved domain protein [Bacteroides ovatus SD CMC 3f]
 gi|292632589|gb|EFF51183.1| conserved domain protein [Bacteroides ovatus SD CMC 3f]
          Length = 232

 Score = 43.2 bits (100), Expect = 0.070,   Method: Composition-based stats.
 Identities = 27/224 (12%), Positives = 66/224 (29%), Gaps = 18/224 (8%)

Query: 207 VTKGLNPDVKMKDSGIEWVG------LVPDHWEVKPFFALVTELNRKNTKLIESNILSLS 260
                      K SG E V       ++P  W     + L +        L   N L   
Sbjct: 13  FDFPNEKGKPYKSSGGEMVWNEKLKRMIPKEWTNANIYQLASISKETVNPLARPNELFKH 72

Query: 261 YG-NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
           Y      K  T       +       V    I+   ++    +    + +     I ++ 
Sbjct: 73  YSLPEYDKTGTYAEEYGIDIQSAKFTVTNNCILVSKLNPWTSRVICGNRES--NQICSTE 130

Query: 320 YMAVKPHGIDSTYLAWLM-RSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQ 375
           ++   P  + +    +++ +S    +      +G     + +  E + +        +  
Sbjct: 131 FVVWNPASMKTKGFLFMLAKSAKFIEYCTQGATGTSHSHRRINPELMMKFDFSY-NSEIA 189

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQI 419
              + +I     ++   +      + +L ++R   +   + GQI
Sbjct: 190 IKFSRLIENIIGKLHDNIA----QLKVLTKQRDELLPLLMNGQI 229


>gi|325125905|gb|ADY85235.1| Type I restriction-modification system specificity subunit
           [Lactobacillus delbrueckii subsp. bulgaricus 2038]
          Length = 187

 Score = 43.2 bits (100), Expect = 0.071,   Method: Composition-based stats.
 Identities = 15/100 (15%), Positives = 40/100 (40%), Gaps = 6/100 (6%)

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR-SYDLCK 344
            + G++  R I+       +  A       +  A +      +D  YL + +  + D+ K
Sbjct: 57  FNEGDLALRLINP--QAAVVSPATAGSILSLNFAKIVPNRTKVDEWYLCYYLNEAEDIQK 114

Query: 345 VFYAMGSG---LRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
                  G     + L  + ++ L +++P +++Q ++  +
Sbjct: 115 QIELSAQGQVSTIKRLGAKFLRELKIVLPDLEKQKELGQI 154


>gi|229105724|ref|ZP_04236353.1| Type I restriction enzyme, methylase subunit [Bacillus cereus
           Rock3-28]
 gi|228677613|gb|EEL31861.1| Type I restriction enzyme, methylase subunit [Bacillus cereus
           Rock3-28]
          Length = 202

 Score = 43.2 bits (100), Expect = 0.071,   Method: Composition-based stats.
 Identities = 15/88 (17%), Positives = 34/88 (38%), Gaps = 2/88 (2%)

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR-SYDLCKVFYAMG-SGL 353
           +   + K +    +     +  +    V  + +D  ++ W +     + K         +
Sbjct: 76  MHTLSQKVAFLPEKYGGLLLTNNFVKIVFTNSVDLYFMEWYLNEHPTIRKQIELFSEGSV 135

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNV 381
             SLK  ++K + VL+PP + Q  I  +
Sbjct: 136 ISSLKLSNLKDIEVLLPPYERQKQIGKI 163


>gi|291516260|emb|CBK69876.1| hypothetical protein BIL_01930 [Bifidobacterium longum subsp.
           longum F8]
          Length = 148

 Score = 43.2 bits (100), Expect = 0.072,   Method: Composition-based stats.
 Identities = 11/54 (20%), Positives = 22/54 (40%), Gaps = 4/54 (7%)

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
             P  +E  +     +     I   V+  EQ    L+  R + +   ++G+ID+
Sbjct: 2   PNPSNEEIKNFCTFAD----PIYRHVQINEQQTAKLELLRDTLLPKLMSGEIDV 51


>gi|325911615|ref|ZP_08174023.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus iners UPII 143-D]
 gi|325476601|gb|EGC79759.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus iners UPII 143-D]
          Length = 180

 Score = 43.2 bits (100), Expect = 0.081,   Method: Composition-based stats.
 Identities = 19/173 (10%), Positives = 52/173 (30%), Gaps = 18/173 (10%)

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMG-----LKPESYETYQIVDPGE 290
              + + + +       +  I  +   N+ +     + G               + +  +
Sbjct: 14  TLCSDIIDCSHSTPVWRDRGIRVIRNFNLNEGSLDFSKGAFVDEKTYLERTKRAVPEAED 73

Query: 291 IVFRFIDLQNDKRSLRSAQVMERGIITS--AYMAVKPHGIDSTYLAWLMRSYDLCKVFYA 348
           IV            +       +  +      + V      S+YL + + S  +   F  
Sbjct: 74  IVISREAPMGTVAIIPHNL---KCCLGQRLVLLKVNSDICSSSYLLFALMSGFVQNQFNK 130

Query: 349 MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
           +GS    +L   ++K   + +  +K    I  ++     +I     ++ + I 
Sbjct: 131 IGS-TVSNLTIPELKETKIPL--VKNHKAIGKLLESIANKI-----QVNKQIN 175


>gi|284052298|ref|ZP_06382508.1| restriction modification system DNA specificity subunit
           [Arthrospira platensis str. Paraca]
          Length = 166

 Score = 43.2 bits (100), Expect = 0.083,   Method: Composition-based stats.
 Identities = 11/90 (12%), Positives = 27/90 (30%), Gaps = 2/90 (2%)

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERG-IITSAYMAVKPHGIDSTYLAWLMRSYDLCK 344
            +PG+I+   I     K    +      G ++    +      + + +L +L+ S +   
Sbjct: 67  YEPGDILLGNIRPYLKKVWKATNSGGCSGDVLAVRILGQCKKNVSADFLYYLLSSDEFFL 126

Query: 345 VFYAMGSGL-RQSLKFEDVKRLPVLVPPIK 373
                  G          +    + +P   
Sbjct: 127 YNMQHAKGAKMPRGNKAAILNYQIPIPCPD 156



 Score = 42.1 bits (97), Expect = 0.16,   Method: Composition-based stats.
 Identities = 31/144 (21%), Positives = 53/144 (36%), Gaps = 9/144 (6%)

Query: 26  KVVPIKRFTKLNTGRTSESGKD-IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           +   +    + +  R   S  D   ++G++++ +  G  +           ++      G
Sbjct: 14  EWKLLGDVAQYSPTRVDSSKLDATSFVGVDNLVADKGGRVDASYFPNTDRLTSY---EPG 70

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQ-----FLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
            IL G + PYL+K   A   G CS        L    K+V  + L   L S +       
Sbjct: 71  DILLGNIRPYLKKVWKATNSGGCSGDVLAVRILGQCKKNVSADFLYYLLSSDEFFLYNMQ 130

Query: 140 ICEGATMSHADWKGIGNIPMPIPP 163
             +GA M   +   I N  +PIP 
Sbjct: 131 HAKGAKMPRGNKAAILNYQIPIPC 154


>gi|19746183|ref|NP_607319.1| hypothetical protein spyM18_1203 [Streptococcus pyogenes MGAS8232]
 gi|19748364|gb|AAL97818.1| hypothetical protein spyM18_1203 [Streptococcus pyogenes MGAS8232]
          Length = 198

 Score = 43.2 bits (100), Expect = 0.083,   Method: Composition-based stats.
 Identities = 33/186 (17%), Positives = 68/186 (36%), Gaps = 10/186 (5%)

Query: 26  KVVPIKRFTKLNTGRTSESG---KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + V +        G+   S     D   + L D+ +   +Y                +  
Sbjct: 14  EKVTLGTVVDYFKGKAVSSKVVPGDAGLVNLSDMGTLGIQYHQLRTFQMDRRQLLRYLLE 73

Query: 83  KGQILYGKLGPYLRKAIIA--DFDGICSTQFLVLQPKDVLP-ELLQGWLLSIDVTQRIEA 139
            G +L    G   +  +    + D + S+   VL+P+ +L    ++ +L S      ++A
Sbjct: 74  DGDVLIASKGTLKKVCVFHKQNRDVVASSNITVLRPQKLLRGYYIKFFLDSPIGQALLDA 133

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
              G  + +   K + +IP+P+ PL +Q    + +I   +R  T    ++   E   E  
Sbjct: 134 ADHGKDVINLSTKELLDIPIPVIPLVKQ----DYLINHYLRGLTDYHRKLSRAEQEWEYI 189

Query: 200 QALVSY 205
           Q  +  
Sbjct: 190 QNEIQK 195



 Score = 37.1 bits (84), Expect = 5.9,   Method: Composition-based stats.
 Identities = 15/128 (11%), Positives = 46/128 (35%), Gaps = 9/128 (7%)

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
             +++ G+++         K  +   Q  +    ++  +      +   Y+ + + S   
Sbjct: 69  RYLLEDGDVLIASKG-TLKKVCVFHKQNRDVVASSNITVLRPQKLLRGYYIKFFLDSPIG 127

Query: 343 CKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNV----INVETARIDVLVEK-- 395
             +  A   G    +L  +++  +P+ V P+ +Q  + N     +     ++    ++  
Sbjct: 128 QALLDAADHGKDVINLSTKELLDIPIPVIPLVKQDYLINHYLRGLTDYHRKLSRAEQEWE 187

Query: 396 -IEQSIVL 402
            I+  I  
Sbjct: 188 YIQNEIQK 195


>gi|332076336|gb|EGI86801.1| type I restriction modification DNA specificity domain protein
           [Streptococcus pneumoniae GA17545]
          Length = 131

 Score = 43.2 bits (100), Expect = 0.086,   Method: Composition-based stats.
 Identities = 23/141 (16%), Positives = 47/141 (33%), Gaps = 15/141 (10%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           K WKV        +  G+  +            VE   GK+ P  G+      +   I  
Sbjct: 6   KEWKVSKWNEILTIRNGKNQKQ-----------VEDADGKF-PIYGSGGIMGYAKDWIVK 53

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           K  ++ G+ G   +  ++ +      T F +    + +      +   +      E + +
Sbjct: 54  KNSVIIGRKGNINKPILVRENFWNVDTAFGLEPVLEKINSEYLFYFCQLY---NFEKLNK 110

Query: 143 GATMSHADWKGIGNIPMPIPP 163
             T+       + NI +P+P 
Sbjct: 111 AVTIPSLTKSDLLNISIPLPH 131



 Score = 37.9 bits (86), Expect = 3.3,   Method: Composition-based stats.
 Identities = 16/91 (17%), Positives = 30/91 (32%), Gaps = 6/91 (6%)

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
           Y    IV    ++       N    +R              +      I+S YL +  + 
Sbjct: 46  YAKDWIVKKNSVIIGRKGNINKPILVRENFWNVDTAFG---LEPVLEKINSEYLFYFCQL 102

Query: 340 YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP 370
           Y+  K+  A+      SL   D+  + + +P
Sbjct: 103 YNFEKLNKAV---TIPSLTKSDLLNISIPLP 130


>gi|207110599|ref|ZP_03244761.1| restriction modification system DNA specificity subunit
          [Helicobacter pylori HPKX_438_CA4C1]
          Length = 94

 Score = 43.2 bits (100), Expect = 0.087,   Method: Composition-based stats.
 Identities = 5/70 (7%), Positives = 20/70 (28%), Gaps = 9/70 (12%)

Query: 22 PKHWKVVPIKRFTKLNTGRTSES---------GKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
          P +W+ V +    ++  G +              ++ ++ + D+   +           +
Sbjct: 24 PLNWQRVRLGDIAEIKRGASPRPIENPKWFCANSNVGWVRISDISKNSRFLYKTAQKLSK 83

Query: 73 SDTSTVSIFA 82
                 +  
Sbjct: 84 KGIEKSRLVK 93


>gi|257883800|ref|ZP_05663453.1| predicted protein [Enterococcus faecium 1,231,501]
 gi|257819638|gb|EEV46786.1| predicted protein [Enterococcus faecium 1,231,501]
          Length = 192

 Score = 42.9 bits (99), Expect = 0.095,   Method: Composition-based stats.
 Identities = 23/162 (14%), Positives = 50/162 (30%), Gaps = 12/162 (7%)

Query: 252 IESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVM 311
           I     S    +     E          +++   +D  ++V    +       +    + 
Sbjct: 30  INYYDQSSFDEDDKHHGEMSRDEKINYLFDSEVSLDKRDVVIS--NSLQRATMVSEKNIG 87

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYD---LCKVFYAMGSGLRQSLKFEDVKRLPVL 368
           +   +    +      +D  Y  +L   Y      K     G+G  Q L  + +++L + 
Sbjct: 88  KVLSLNFTKVEFHSEKLDKRYFLYLFNQYKDIQRQKERELQGTGPVQRLTKQSLEQLVIP 147

Query: 369 VPPIKEQFDITNVINVETARIDVL-VEKIEQSIVLLKERRSS 409
           V    EQ  I  +       I+ L ++        L E+ + 
Sbjct: 148 VVSSSEQQRIGEI------YIETLKIQSKLSQYARLTEQFAG 183


>gi|289168440|ref|YP_003446709.1| restriction endonuclease S subunit [Streptococcus mitis B6]
 gi|288908007|emb|CBJ22847.1| restriction endonuclease S subunit [Streptococcus mitis B6]
          Length = 191

 Score = 42.9 bits (99), Expect = 0.095,   Method: Composition-based stats.
 Identities = 12/86 (13%), Positives = 32/86 (37%), Gaps = 12/86 (13%)

Query: 331 TYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
            Y+ +   +      FY      ++      +    + +PP++ Q  I  +++  T  + 
Sbjct: 103 KYIYYCFCN------FYKKEGSYKRHWSNAKI--TLIPIPPLEIQEKIVQILDKFTDYVT 154

Query: 391 VLVEKIEQSIVLLKER----RSSFIA 412
            L  ++   + L K++    R   + 
Sbjct: 155 ELTSELTSELTLRKKQYSYFRDYLLN 180


>gi|328465098|gb|EGF36369.1| type I restriction-modification system, S subunit [Lactobacillus
           helveticus MTCC 5463]
          Length = 108

 Score = 42.9 bits (99), Expect = 0.097,   Method: Composition-based stats.
 Identities = 14/52 (26%), Positives = 22/52 (42%), Gaps = 2/52 (3%)

Query: 368 LVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE-RRSSFIAAAVTGQ 418
            +PP+ EQ  I   I    A +   VE   Q    L+   +S  +  A+ G+
Sbjct: 1   PLPPLSEQSRIAAKIAQLFALL-RKVETSTQQYAKLQTLLKSKVLDLAIRGK 51


>gi|268572389|ref|XP_002648950.1| Hypothetical protein CBG21263 [Caenorhabditis briggsae]
          Length = 514

 Score = 42.9 bits (99), Expect = 0.097,   Method: Composition-based stats.
 Identities = 27/228 (11%), Positives = 67/228 (29%), Gaps = 15/228 (6%)

Query: 189 IRFIELLKEKKQALVSYIVTK--GLNPDVKMKDSGIEWVGLVPDHWEVKP-FFALVTELN 245
            R + L  +  Q   +       G   +     + IE  G                  L 
Sbjct: 281 CRLLVLWTKNDQKDDAESFKWILGNTKECPKCQAPIEKNGGCNHMTCNNKSCRHEFCWLC 340

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
             N    +   + ++ G+  ++    N+  + E ++T  +     +        + +  +
Sbjct: 341 MGNWIGHQQCNVFVATGDSNREKTLANL-QRFEFFKTRYLGHQQSLKLENDLRTDIRHKM 399

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRL 365
           R  +              K     +     LM SY          +     L   D++  
Sbjct: 400 RQLKEFFDLTTFQVIYLEKALNALTECRRTLMYSYIFAYYLEPNLNSKIFQLNQRDLESA 459

Query: 366 PVLVPPIKEQFDITNVINVETAR--IDVLVEKIEQSIVLLKERRSSFI 411
                   EQ   + ++  +     ++ L +++ +    +++RR S +
Sbjct: 460 T-------EQL--SEILERKLEEDDLESLKQRVTEKYQYVEQRRQSLL 498


>gi|298483405|ref|ZP_07001582.1| type I restriction-modification system, S subunit [Bacteroides sp.
           D22]
 gi|298270353|gb|EFI11937.1| type I restriction-modification system, S subunit [Bacteroides sp.
           D22]
          Length = 114

 Score = 42.9 bits (99), Expect = 0.10,   Method: Composition-based stats.
 Identities = 11/86 (12%), Positives = 23/86 (26%), Gaps = 1/86 (1%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            +PK W  + +        GR  +  +D ++ GL  +            N       +  
Sbjct: 29  QLPKGWTTIKVGDVAIYTNGRAFKP-EDWMHEGLPIIRIQNLNDNSASYNRTPKTYESKY 87

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDG 105
           +   G +L+                 
Sbjct: 88  LIHNGDLLFAWAASLGTYIWNGGKAW 113


>gi|150006172|ref|YP_001300916.1| type I restriction endonuclease S subunit [Bacteroides vulgatus
           ATCC 8482]
 gi|149934596|gb|ABR41294.1| type I restriction endonuclease S subunit [Bacteroides vulgatus
           ATCC 8482]
          Length = 108

 Score = 42.9 bits (99), Expect = 0.10,   Method: Composition-based stats.
 Identities = 11/77 (14%), Positives = 25/77 (32%)

Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
            I  +A +       D     +L            +    +  +    +++L + +P I 
Sbjct: 10  WITGNAMVINTDKYQDKVCKRYLYHYLSAYNFNSIISGSGQPQIVRTPLEKLKITLPTIS 69

Query: 374 EQFDITNVINVETARID 390
           EQ     + +    +ID
Sbjct: 70  EQKQKAIIFDKIQDKID 86


>gi|229548227|ref|ZP_04436952.1| possible type I restriction enzyme, S subunit [Enterococcus
           faecalis ATCC 29200]
 gi|229306644|gb|EEN72640.1| possible type I restriction enzyme, S subunit [Enterococcus
           faecalis ATCC 29200]
          Length = 164

 Score = 42.9 bits (99), Expect = 0.11,   Method: Composition-based stats.
 Identities = 22/148 (14%), Positives = 39/148 (26%), Gaps = 2/148 (1%)

Query: 240 LVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQ 299
              E +    +   S+ +  +Y     +       L  E  +    V+  +I+       
Sbjct: 16  HKHEWSSSGVRFFRSSDIMSAYNGTTNQKAFIPNELYEELIKKSGKVNLDDILVTGGGSV 75

Query: 300 NDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLK 358
                L S +                  ID  +L     S    K   ++   G      
Sbjct: 76  G-VPYLVSDEKPLYFKDADLLWIKNSGVIDGQFLYTFFISTFFRKYIKSISHIGTISHYT 134

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVET 386
               K  P+ +P  KEQ  I +      
Sbjct: 135 IVQAKETPIKLPSFKEQGSIGSFFKYLD 162


>gi|301299371|ref|ZP_07205652.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus salivarius ACS-116-V-Col5a]
 gi|300853025|gb|EFK80628.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus salivarius ACS-116-V-Col5a]
          Length = 163

 Score = 42.5 bits (98), Expect = 0.12,   Method: Composition-based stats.
 Identities = 18/140 (12%), Positives = 45/140 (32%), Gaps = 11/140 (7%)

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
           +  GN          G   +  +    V   +++  +           +      G + S
Sbjct: 17  MKGGNTNYLETNYLNGGTAQKVDALADVSKDDVLILWDGS-----KAGTIYHGFEGALGS 71

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
              A  P    S    + +   +  K++ +  +     +     ++  V +P I EQ +I
Sbjct: 72  TLKAYVPKY--SGDFLYQILKKNQDKIYQSYRTPNIPHVIKNFTEKFNVSIPTIIEQQEI 129

Query: 379 TNVINVETARIDVLVEKIEQ 398
            +       ++D L+   ++
Sbjct: 130 GDF----FKQLDSLITLHQR 145


>gi|291563844|emb|CBL42660.1| Type I restriction modification DNA specificity domain
           [butyrate-producing bacterium SS3/4]
          Length = 360

 Score = 42.5 bits (98), Expect = 0.12,   Method: Composition-based stats.
 Identities = 29/352 (8%), Positives = 78/352 (22%), Gaps = 46/352 (13%)

Query: 24  HWKVVPIKRFTKLNTGRTSE----SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           +W+ VP++       G+          D+  +   +V +G   ++     +         
Sbjct: 6   NWESVPLRDLFSFERGKEKNMALLKEGDLPLVSARNVNNGVKGFVGNPTKTLSGGNV--- 62

Query: 80  IFAKGQILYGKLGPYL-RKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
                 I     G      A    +D    T    L P++ +      ++ +    Q   
Sbjct: 63  ------ITLNNDGDGGAGLAYYQAYDFALDTHVTALIPQNDISPEALLYMTASISKQHDI 116

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
                             +   +P   +     E +     ++   +  R +   +    
Sbjct: 117 FGHG----RSISLPRAKRLQNMLPVNDDGAPDYELMTDYVKKLRKSMLMRYKAHAI---- 168

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
             A +  +      P ++             +        A + ++      +   +   
Sbjct: 169 --ANIKKLGEYLPVPSIQ-------------EMRWEPFLIADIFDILPGKRLVAADSTP- 212

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
              GN        N                  ++    +                 I + 
Sbjct: 213 ---GNRPFIGALDNNNGVARFVNDSNASLDKNVLGVNYNGNGMVIGFYH---PYECIFSD 266

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP 370
                     +      L     + +     G         E +    +++P
Sbjct: 267 DVKRFHLKHHEDNAFVLLFMKVVILQQKSKFGY--LYKFNAERMANTRIMLP 316


>gi|322411876|gb|EFY02784.1| hypothetical protein SDD27957_05695 [Streptococcus dysgalactiae
           subsp. dysgalactiae ATCC 27957]
          Length = 198

 Score = 42.5 bits (98), Expect = 0.13,   Method: Composition-based stats.
 Identities = 34/186 (18%), Positives = 70/186 (37%), Gaps = 10/186 (5%)

Query: 26  KVVPIKRFTKLNTGRTSESG---KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + V +        G+   S     D+  I L D+ +   +Y                +  
Sbjct: 14  EKVALGDAVDCFKGKAVSSKAEPGDVGLINLSDMGTLGIQYHQLRTFQMDRRQLLRYLLE 73

Query: 83  KGQILYGKLGPYLRKAIIA--DFDGICSTQFLVLQPKDVLP-ELLQGWLLSIDVTQRIEA 139
            G +L    G   +  +    + D + S+   VL+P+ +L    ++ +L S      ++A
Sbjct: 74  DGDVLIASKGTLKKVCVFHQQNRDVVASSNITVLRPQKLLRGYYIKFFLDSPIGQALLDA 133

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
              G  + +   K + +IP+P+ PL +Q    + +I   +R  T    +++  E   E  
Sbjct: 134 ADHGKDVINLSTKELLDIPIPVIPLVKQ----DYLINHYLRGLTDYHRKLKRAEQEWEYI 189

Query: 200 QALVSY 205
           Q  +  
Sbjct: 190 QNEIQK 195



 Score = 36.7 bits (83), Expect = 6.6,   Method: Composition-based stats.
 Identities = 15/128 (11%), Positives = 46/128 (35%), Gaps = 9/128 (7%)

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
             +++ G+++         K  +   Q  +    ++  +      +   Y+ + + S   
Sbjct: 69  RYLLEDGDVLIASKG-TLKKVCVFHQQNRDVVASSNITVLRPQKLLRGYYIKFFLDSPIG 127

Query: 343 CKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNV----INVETARIDVLVEK-- 395
             +  A   G    +L  +++  +P+ V P+ +Q  + N     +     ++    ++  
Sbjct: 128 QALLDAADHGKDVINLSTKELLDIPIPVIPLVKQDYLINHYLRGLTDYHRKLKRAEQEWE 187

Query: 396 -IEQSIVL 402
            I+  I  
Sbjct: 188 YIQNEIQK 195


>gi|309810067|ref|ZP_07703913.1| type I restriction-modification enzyme, S subunit, EcoA family
           [Lactobacillus iners SPIN 2503V10-D]
 gi|308169566|gb|EFO71613.1| type I restriction-modification enzyme, S subunit, EcoA family
           [Lactobacillus iners SPIN 2503V10-D]
          Length = 148

 Score = 42.5 bits (98), Expect = 0.13,   Method: Composition-based stats.
 Identities = 19/135 (14%), Positives = 52/135 (38%), Gaps = 3/135 (2%)

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS-AYM 321
               K     +  K  +      ++  +++         +  +  ++ +   +    + +
Sbjct: 9   MQFSKDGLVYISDKQAAKLKNASIESDDVLLNITGDSVARACIMDSKYLPARVNQHVSII 68

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
              P+ I S YL + ++      +  A     R++L  E++  L V +P I++Q +IT +
Sbjct: 69  RCDPNKIKSQYLLYYLQYLKKHLLKMASVGSTRKALTKEEISGLLVELPSIEKQKEITLL 128

Query: 382 INVETAR--IDVLVE 394
           +     +  I+  + 
Sbjct: 129 LESVRHKMQINRQIN 143


>gi|218281997|ref|ZP_03488309.1| hypothetical protein EUBIFOR_00878 [Eubacterium biforme DSM 3989]
 gi|218216984|gb|EEC90522.1| hypothetical protein EUBIFOR_00878 [Eubacterium biforme DSM 3989]
          Length = 367

 Score = 42.5 bits (98), Expect = 0.13,   Method: Composition-based stats.
 Identities = 15/135 (11%), Positives = 43/135 (31%), Gaps = 10/135 (7%)

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS-TYLAWL 336
              +    ++P  ++   +       ++      E G++ S    +     +S  Y+   
Sbjct: 61  IGNKRIFWIEPNCLILNIVFAWEQ--AVAKTSEKEVGMVASHRFPMYKVLNNSLDYIVDF 118

Query: 337 MRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLV 393
            ++    ++      G     ++L  +      + +P + EQ       +     I+  +
Sbjct: 119 FKTEKGKQLLQMASPGGAGRNKTLNQDFFLNSKIYLPSLNEQLK----TSELIELIEDRI 174

Query: 394 EKIEQSIVLLKERRS 408
           E   + I   K  + 
Sbjct: 175 ETQIKIIEDYKVLKK 189


>gi|294793951|ref|ZP_06759088.1| conserved hypothetical protein [Veillonella sp. 3_1_44]
 gi|294455521|gb|EFG23893.1| conserved hypothetical protein [Veillonella sp. 3_1_44]
          Length = 150

 Score = 42.5 bits (98), Expect = 0.13,   Method: Composition-based stats.
 Identities = 19/138 (13%), Positives = 43/138 (31%), Gaps = 9/138 (6%)

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP- 325
             +  +            ++  G+I F        K        +  GII+  +   +P 
Sbjct: 2   YFQDPDKVQSNNLDTRTYVMKKGDIAFEGHPNNEFKFGRFVLNDIGTGIISELFPIYRPI 61

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS----LKFEDVKRLPVLVPPIKEQFDITNV 381
              D  +  + ++   +     A       +    L         +LVP I+EQ  I  +
Sbjct: 62  TEYDLDFWKYAIQLERVMAPILAKSITSSGNSSNKLDHNHFLNKELLVPNIEEQKKIGTL 121

Query: 382 INVETARIDVLVEKIEQS 399
           +++ +      +   +Q 
Sbjct: 122 LSLLSKN----ITLHQQE 135


>gi|86130652|ref|ZP_01049252.1| DNA adenine methylase [Dokdonia donghaensis MED134]
 gi|85819327|gb|EAQ40486.1| DNA adenine methylase [Dokdonia donghaensis MED134]
          Length = 833

 Score = 42.5 bits (98), Expect = 0.13,   Method: Composition-based stats.
 Identities = 31/221 (14%), Positives = 68/221 (30%), Gaps = 16/221 (7%)

Query: 203 VSYIVTKGLNPDVKM-KDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSY 261
           +S I    L+P++   KD   E +G +      K  +     +  K  +      +  S 
Sbjct: 371 ISDIKGTQLHPNLYFTKDFKGELLGTILKSLNPKRIYKK-ENITGKYFQFGSDQKVESSL 429

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
              I K+E+  +           ++         + L            +    I +   
Sbjct: 430 IVDISKIESVKIPKSAVEISQTCLIIINRGSDLKVALFEYAGVPIYVSQLSNFFIPN--- 486

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGS-GLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
                 I   Y+++ + S  + +      S      +   D++++ + +P  KEQ +  N
Sbjct: 487 PEYNEDISLEYISYTLLSDTVQEQLKLYNSMSSVFIMNKNDIQKIRIEIPSFKEQLEKLN 546

Query: 381 VINVET-------ARIDVLVEKIEQSIVLLKERRSSFIAAA 414
            +              D L+ K +     L+    S   + 
Sbjct: 547 FLRDTHYNFQLNKREFDKLIAKTKD--EALRNY-QSLNHSL 584


>gi|227364527|ref|ZP_03848589.1| possible restriction modification system DNA specificity subunit
           [Lactobacillus reuteri MM2-3]
 gi|227070436|gb|EEI08797.1| possible restriction modification system DNA specificity subunit
           [Lactobacillus reuteri MM2-3]
          Length = 173

 Score = 42.5 bits (98), Expect = 0.13,   Method: Composition-based stats.
 Identities = 20/163 (12%), Positives = 51/163 (31%), Gaps = 11/163 (6%)

Query: 30  IKRFTKLNTGRTSESGKDI-------IYIGLEDVESGTGKYLPKDGN-SRQSDTSTVSIF 81
           +    ++  G+    G  +        Y+ + D +  +              +  +    
Sbjct: 6   LGDIAEIKGGKRMPKGTRLQQEKNQHPYLRITDYDGKSFDRNSIRYVPDEVFEKISNYTV 65

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICS---TQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
            +G I    +G       I       +       ++  + V  + +  +L S+   +++ 
Sbjct: 66  TEGDIFLSIVGTIGIATTIDKEYDNANLTENAVKIIPDESVNSKYILYFLQSMLGQRQMN 125

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
            +  G+T      K I  I + +P L  Q  +   +     +I
Sbjct: 126 ELSVGSTQKKLPIKNIKKIKILLPNLEIQNKVVSNLQILDKKI 168



 Score = 37.1 bits (84), Expect = 5.1,   Method: Composition-based stats.
 Identities = 16/142 (11%), Positives = 54/142 (38%), Gaps = 4/142 (2%)

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYET--YQIVDPGEIVFRFIDLQNDKRSLRSA 308
             +   L ++  +           +  E +E      V  G+I    +       ++   
Sbjct: 28  KNQHPYLRITDYDGKSFDRNSIRYVPDEVFEKISNYTVTEGDIFLSIVGTIGIATTI-DK 86

Query: 309 QVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKRLPV 367
           +     +  +A   +    ++S Y+ + ++S    +    +     ++ L  +++K++ +
Sbjct: 87  EYDNANLTENAVKIIPDESVNSKYILYFLQSMLGQRQMNELSVGSTQKKLPIKNIKKIKI 146

Query: 368 LVPPIKEQFDITNVINVETARI 389
           L+P ++ Q  + + + +   +I
Sbjct: 147 LLPNLEIQNKVVSNLQILDKKI 168


>gi|313620400|gb|EFR91802.1| type I restriction-modification system, S subunit [Listeria innocua
           FSL S4-378]
          Length = 168

 Score = 42.5 bits (98), Expect = 0.14,   Method: Composition-based stats.
 Identities = 21/139 (15%), Positives = 36/139 (25%), Gaps = 2/139 (1%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
           W+   +        GR     + +     + +  G              +        +G
Sbjct: 20  WEQRKLGEDVNFLNGRAYSQKELLDKGKYKVLRVGNFN-TNDRWYYSDLELEENKYANRG 78

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            +LY          I      I       L+  ++       +   I   +RI+    G 
Sbjct: 79  DLLY-LWATNFGPEIWNQEKVIYHYHIWKLKIMNINVSKQYLYTWLITDKERIKQSTNGT 137

Query: 145 TMSHADWKGIGNIPMPIPP 163
           TM H     I      IPP
Sbjct: 138 TMVHVTKSHIEQREFQIPP 156



 Score = 37.9 bits (86), Expect = 2.9,   Method: Composition-based stats.
 Identities = 14/138 (10%), Positives = 39/138 (28%), Gaps = 8/138 (5%)

Query: 245 NRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS 304
             +   L +     L  GN           L+ E  +     + G++++ +      +  
Sbjct: 37  YSQKELLDKGKYKVLRVGNFNTNDRWYYSDLELEENK---YANRGDLLYLWATNFGPEIW 93

Query: 305 LRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKR 364
                  +       +     +   S    +     D  ++  +        +    +++
Sbjct: 94  ----NQEKVIYHYHIWKLKIMNINVSKQYLYTWLITDKERIKQSTNGTTMVHVTKSHIEQ 149

Query: 365 LPVLVPP-IKEQFDITNV 381
               +PP + EQ  I + 
Sbjct: 150 REFQIPPNLTEQQKIGDF 167


>gi|283956447|ref|ZP_06373927.1| hypothetical protein C1336_000250221 [Campylobacter jejuni subsp.
           jejuni 1336]
 gi|283792167|gb|EFC30956.1| hypothetical protein C1336_000250221 [Campylobacter jejuni subsp.
           jejuni 1336]
          Length = 184

 Score = 42.5 bits (98), Expect = 0.14,   Method: Composition-based stats.
 Identities = 14/129 (10%), Positives = 44/129 (34%), Gaps = 10/129 (7%)

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF 346
              + V   ID       +   +                   ++ Y+++++      + F
Sbjct: 64  YDNDSVLWGIDGDWMVGFIPKNKKFYPTDHCGVLRVDDTKI-NAKYISFVLNEAGKKQGF 122

Query: 347 YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
                  +     + +K L V +P ++ Q  I ++    T +I+  + + +  +  L++ 
Sbjct: 123 SR-----KLRASIDRIKALRVKLPSLEFQDQIADI----TDKIEKKINEYKIELDRLEKE 173

Query: 407 RSSFIAAAV 415
           +   +   +
Sbjct: 174 KEKILQKYL 182


>gi|317481421|ref|ZP_07940488.1| type I restriction modification DNA specificity domain-containing
           protein [Bacteroides sp. 4_1_36]
 gi|316902406|gb|EFV24293.1| type I restriction modification DNA specificity domain-containing
           protein [Bacteroides sp. 4_1_36]
          Length = 218

 Score = 42.5 bits (98), Expect = 0.14,   Method: Composition-based stats.
 Identities = 37/187 (19%), Positives = 69/187 (36%), Gaps = 13/187 (6%)

Query: 30  IKRFTKLNTGRTSESGKDI-----IYIGLEDVESGTGKYLPKD---GNSRQSDTSTVSIF 81
           +     L  G   +S K         + + +V SG      +D     +  +D     + 
Sbjct: 35  LSNIATLKNGYAFQSSKYNALGKWKILTITNV-SGERYINDEDCNCIINLPNDIQDHQVL 93

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQF-LVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
            +G IL    G   R ++  + D + + +  L+   K+V  E L   L S      + A 
Sbjct: 94  KEGDILISLTGNVGRVSLCKNGDYLLNQRVGLLQLAKNVNQEFLYQILSSQKFENSMIAC 153

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
            +GA   +     + +  +P       +L   KI+      D  I   +R + LL  +KQ
Sbjct: 154 GQGAAQMNIGKGDVESYVLPYSSNGNNILWVAKILHSY---DECIINEMRRLTLLTMQKQ 210

Query: 201 ALVSYIV 207
            L++ + 
Sbjct: 211 YLLTQMF 217


>gi|301633693|gb|ADK87247.1| type I restriction modification DNA specificity domain protein
           [Mycoplasma pneumoniae FH]
          Length = 187

 Score = 42.5 bits (98), Expect = 0.14,   Method: Composition-based stats.
 Identities = 23/122 (18%), Positives = 39/122 (31%), Gaps = 5/122 (4%)

Query: 288 PGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY 347
            GE V    D      S+               + V    I   +LA+ +R      V Y
Sbjct: 54  KGEYVTWTTDGA-QAGSVFYRNGQFNATNVCGILKVNNDEIYPKFLAYALRLKAPKFVNY 112

Query: 348 AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI-VLLKER 406
           A        L    +  + +  P  K Q  I  +++  T     L  ++   +   L+ER
Sbjct: 113 ACP---IPKLMQGTLAEIELDFPSKKIQEKIATILDTFTELSAELSAELSAELSAELRER 169

Query: 407 RS 408
           + 
Sbjct: 170 KK 171


>gi|292558143|gb|ADE31144.1| hypothetical protein SSGZ1_0687 [Streptococcus suis GZ1]
          Length = 131

 Score = 42.5 bits (98), Expect = 0.14,   Method: Composition-based stats.
 Identities = 13/122 (10%), Positives = 37/122 (30%), Gaps = 9/122 (7%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKD---------IIYIGLEDVESGTGKYLPKDGNSRQSDT 75
           W++  +    + + G++    ++            I   D+++             +   
Sbjct: 6   WQIKSLSELGRFSRGKSKHRPRNDKKLFTNGTYPLIQTGDIKNSNLYVTKNSDYYNEFGL 65

Query: 76  STVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQ 135
           S   ++ +G +           AI++      ++  LVL         L  + +     +
Sbjct: 66  SQSKLWKQGTLCITIAANIAETAILSHPMCFPASVLLVLIAHKNESSELFVYYVFEFNKK 125

Query: 136 RI 137
           R 
Sbjct: 126 RN 127


>gi|34557965|ref|NP_907780.1| DNA methylase-type I restriction-modification system [Wolinella
           succinogenes DSM 1740]
 gi|34483683|emb|CAE10680.1| DNA METHYLASE-TYPE I RESTRICTION-MODIFICATION SYSTEM [Wolinella
           succinogenes]
          Length = 1073

 Score = 42.5 bits (98), Expect = 0.14,   Method: Composition-based stats.
 Identities = 20/134 (14%), Positives = 42/134 (31%), Gaps = 3/134 (2%)

Query: 239 ALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET-YQIVDPGEIVFRFID 297
             + +    N +  +      S   ++     R+  L  ES +T Y  + P E V     
Sbjct: 661 NHLFDYYSFNARYGQPIYDENSTLKVLNSQYVRDYFLDYESAKTGYGEIVPKEAVLINAT 720

Query: 298 LQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA--MGSGLRQ 355
                  +    + +   + +    +    I+  YL   ++SY           GS  + 
Sbjct: 721 GIGTLGRVNINYLNDSFSVDNHVNVIIAKNINPYYLTIFLKSYYGQSQINRYYSGSSGQI 780

Query: 356 SLKFEDVKRLPVLV 369
            +  +D     V +
Sbjct: 781 EIYAKDFNNFLVPI 794


>gi|283954614|ref|ZP_06372132.1| LOW QUALITY PROTEIN: hypothetical protein C414_000240125
            [Campylobacter jejuni subsp. jejuni 414]
 gi|283793806|gb|EFC32557.1| LOW QUALITY PROTEIN: hypothetical protein C414_000240125
            [Campylobacter jejuni subsp. jejuni 414]
          Length = 1035

 Score = 42.5 bits (98), Expect = 0.15,   Method: Composition-based stats.
 Identities = 20/162 (12%), Positives = 50/162 (30%), Gaps = 7/162 (4%)

Query: 220  SGIEWVGLVPDHWEVKPFFALVTELNRKNTKL-IESNILSLSYGNIIQKLETRNMGLKPE 278
            S  E        +E+     +      +N     E   ++L+ GN+     ++N     +
Sbjct: 879  SKDELNPFKNSKFELVRLGEVCDLNKIRNQASATEIEKMNLNSGNVKLLPSSKNYEWWTD 938

Query: 279  SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
                 Q ++ GE++     L   + +       +     +  ++VK          +++ 
Sbjct: 939  EKTAGQFINEGEVI----TLGVARYANIKKHKGKFVSANNHILSVKDKSKIIFDFLYILL 994

Query: 339  SYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
                 K++                    + +PP++ Q  I  
Sbjct: 995  EICGQKLYKQGQQ--YPQFDTNIFYSFKIPLPPLEIQKQIVA 1034


>gi|303327177|ref|ZP_07357619.1| putative dna methylase-type I restriction-modification system
           [Desulfovibrio sp. 3_1_syn3]
 gi|302863165|gb|EFL86097.1| putative dna methylase-type I restriction-modification system
           [Desulfovibrio sp. 3_1_syn3]
          Length = 241

 Score = 42.5 bits (98), Expect = 0.15,   Method: Composition-based stats.
 Identities = 30/195 (15%), Positives = 68/195 (34%), Gaps = 11/195 (5%)

Query: 218 KDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKP 277
           + SG   +G    +  VK       ++   ++  +  N LS+    I  +          
Sbjct: 45  RSSGCFEIGDFLPNTFVKGIQHEYLDVITDDSVPV-VNTLSIQNMKINMEDCRYIQSDDF 103

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
           E+    + +   +++       +  +++   +      + S    ++P GI    L +L+
Sbjct: 104 ENLSDERKIKINDVLLTVDGGTSIGKAVL-FEETISSTVDSHVCILRPQGIKPLTLVYLL 162

Query: 338 RSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
            S      F    SG   + ++  ED++R       ++        I+     I+     
Sbjct: 163 TSKVGQMQFKIYESGASGQTTVTEEDIRRFIFPSAALE-------SIDEVVRDIEAKRAG 215

Query: 396 IEQSIVLLKERRSSF 410
           I + I  LK + +S 
Sbjct: 216 ISKEIEQLKRKENSL 230


>gi|229824145|ref|ZP_04450214.1| hypothetical protein GCWU000282_01449 [Catonella morbi ATCC 51271]
 gi|229786499|gb|EEP22613.1| hypothetical protein GCWU000282_01449 [Catonella morbi ATCC 51271]
          Length = 140

 Score = 42.1 bits (97), Expect = 0.15,   Method: Composition-based stats.
 Identities = 19/102 (18%), Positives = 46/102 (45%), Gaps = 6/102 (5%)

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
           E G + + Y  V+P      Y  W +   ++ +      +G+  +L+FE++K L + +  
Sbjct: 42  EDGEVDARYAVVQPTIDCVPYYLWNVIQMEMPEFCAQWQTGI--NLQFENLKFLSIPLHS 99

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            +EQ  I + +     + D  ++  ++ + L K  + + +  
Sbjct: 100 FEEQKKIADKL----TKYDAWIQAEQKQLDLWKGVKKNMLDK 137


>gi|150006173|ref|YP_001300917.1| type I restriction endonuclease S subunit [Bacteroides vulgatus
           ATCC 8482]
 gi|149934597|gb|ABR41295.1| type I restriction endonuclease S subunit [Bacteroides vulgatus
           ATCC 8482]
          Length = 212

 Score = 42.1 bits (97), Expect = 0.15,   Method: Composition-based stats.
 Identities = 22/181 (12%), Positives = 59/181 (32%), Gaps = 18/181 (9%)

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLK---PESYETYQIVDPGEIV 292
                    + K   L +  IL+++  +  + +   +       P   + +Q++  G+I+
Sbjct: 34  TLKNDYAFQSGKYNALGKWKILTITNVSGERYINDEDYNCIINLPNDIQDHQVLKEGDIL 93

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG 352
                        +    +    +    +      ++  +L  ++ S        A G G
Sbjct: 94  ISLTGNVGRVSLCKDGDYLLNQRVG---LLQLAKNVNQEFLYQILSSQRFENSMIACGQG 150

Query: 353 L-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI----DVLVEKIEQSIVLLKERR 407
             + ++   DV+   +            N I +  A+I    D  +   ++ + LL  ++
Sbjct: 151 AAQMNIGKGDVESYVLPYSSN------VNNI-LLVAKILHSYDEYIINEQRKLTLLTMQK 203

Query: 408 S 408
            
Sbjct: 204 Q 204



 Score = 40.9 bits (94), Expect = 0.39,   Method: Composition-based stats.
 Identities = 36/186 (19%), Positives = 64/186 (34%), Gaps = 11/186 (5%)

Query: 30  IKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           +     L      +SGK        I+ I     E            +  +D     +  
Sbjct: 29  LSNIATLKNDYAFQSGKYNALGKWKILTITNVSGERYINDEDYNCIINLPNDIQDHQVLK 88

Query: 83  KGQILYGKLGPYLRKAIIADFDGICSTQF-LVLQPKDVLPELLQGWLLSIDVTQRIEAIC 141
           +G IL    G   R ++  D D + + +  L+   K+V  E L   L S      + A  
Sbjct: 89  EGDILISLTGNVGRVSLCKDGDYLLNQRVGLLQLAKNVNQEFLYQILSSQRFENSMIACG 148

Query: 142 EGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
           +GA   +     + +  +P       +L+  KI+      D  I    R + LL  +KQ 
Sbjct: 149 QGAAQMNIGKGDVESYVLPYSSNVNNILLVAKILHSY---DEYIINEQRKLTLLTMQKQY 205

Query: 202 LVSYIV 207
            ++ + 
Sbjct: 206 FLAQMF 211


>gi|288560184|ref|YP_003423670.1| type I restriction-modification enzyme S subunit HsdS
           [Methanobrevibacter ruminantium M1]
 gi|288542894|gb|ADC46778.1| type I restriction-modification enzyme S subunit HsdS
           [Methanobrevibacter ruminantium M1]
          Length = 190

 Score = 42.1 bits (97), Expect = 0.16,   Method: Composition-based stats.
 Identities = 31/178 (17%), Positives = 66/178 (37%), Gaps = 19/178 (10%)

Query: 241 VTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQN 300
           V    +     +E  IL  +Y     KL+     +  E +E +   +   ++        
Sbjct: 19  VKRYQKGKGTTVERPILKKTYSENSSKLDLEYEEVSEEIHERFYSQENDIVIL------- 71

Query: 301 DKRSLRSAQVMERGIITSAY--MAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSL 357
                + +++ E GII   Y  +     G D  ++  L++S    +  + +      + +
Sbjct: 72  -LAGSKVSKIEEAGIIIPMYYAVVRVKEGYDVDFIYHLLKSDIFPRELHKIEEGTTLKII 130

Query: 358 KFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI--EQSIVLLKERRSSFIAA 413
           K   +K + + VP ++ Q +   + N+   RI + +E    E+ I        S I  
Sbjct: 131 KTTHLKSIYLPVPDLETQINYGKLFNLMDKRIKLNMELAELEKQIE------KSIINE 182


>gi|291545713|emb|CBL18821.1| Type I restriction modification DNA specificity domain
           [Ruminococcus sp. SR1/5]
          Length = 166

 Score = 42.1 bits (97), Expect = 0.16,   Method: Composition-based stats.
 Identities = 23/153 (15%), Positives = 43/153 (28%), Gaps = 11/153 (7%)

Query: 30  IKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
           +K   K+ TG T         G  I +I  +++ SG         +  +   +      K
Sbjct: 2   LKDTCKVITGNTPSRAIAEYYGDYIEWIKTDNIVSGILNPTQATESLSEKGMNVGRTVEK 61

Query: 84  GQILYGKLG---PYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
             IL   +      + +  I D     + Q   + P+      L   L         +  
Sbjct: 62  DSILMACIAGSIASIGRVCITDRIVAFNQQINAVVPEQYNILFLYVLLQMSKDYLVEDIN 121

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
                +       +      IPP+  Q    + 
Sbjct: 122 MALKGI--LSKSKLEEKEFIIPPMDLQEQFSDF 152



 Score = 40.5 bits (93), Expect = 0.54,   Method: Composition-based stats.
 Identities = 16/147 (10%), Positives = 46/147 (31%), Gaps = 7/147 (4%)

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQI---VDPGEIVFRFIDLQNDKRSLRS 307
                I  +   NI+  +       +  S +   +   V+   I+   I       S+  
Sbjct: 21  YYGDYIEWIKTDNIVSGILNPTQATESLSEKGMNVGRTVEKDSILMACIAGSI--ASIGR 78

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
             + +R +  +  +        +    +++       +   +   L+  L    ++    
Sbjct: 79  VCITDRIVAFNQQINAVVPEQYNILFLYVLLQMSKDYLVEDINMALKGILSKSKLEEKEF 138

Query: 368 LVPPIKEQFDITNVINVETAR--IDVL 392
           ++PP+  Q   ++ +        I+ L
Sbjct: 139 IIPPMDLQEQFSDFVKQVNKSKFINQL 165


>gi|163801595|ref|ZP_02195493.1| type I restriction-modification system methyltransferase subunit
           [Vibrio sp. AND4]
 gi|159174512|gb|EDP59314.1| type I restriction-modification system methyltransferase subunit
           [Vibrio sp. AND4]
          Length = 639

 Score = 42.1 bits (97), Expect = 0.17,   Method: Composition-based stats.
 Identities = 14/165 (8%), Positives = 46/165 (27%), Gaps = 15/165 (9%)

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
           +       I  ++  ++ +    +N+       +    V  G  +  +    N       
Sbjct: 458 SRNFELEYIHHVALKDVCKLRSGKNLNKDDVESKGEFPVYGGNGIIGYYLDANRPGDSVI 517

Query: 308 AQVMERGIITSAYMAVKPHGIDST-----------YLAWLMRSYDLCKVFYAMGSGLRQS 356
              +        + +       +            YL +L        +        ++ 
Sbjct: 518 IGKVGAHCGNIHFSSKPYWLTTNAISLELLDTTRVYLPYLAHVLKSLDLNNLATGTAQKF 577

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIV 401
           +    +  + V +P +++Q +    ++     I+    KI+  + 
Sbjct: 578 VSINQLYEVEVSLPSLEKQKE----LSDWFTSIEESKSKIQSLLE 618


>gi|237822173|ref|ZP_04598018.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae CCRI 1974M2]
          Length = 137

 Score = 42.1 bits (97), Expect = 0.17,   Method: Composition-based stats.
 Identities = 22/133 (16%), Positives = 47/133 (35%), Gaps = 9/133 (6%)

Query: 34  TKLNTGRTSESGKD--------IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
            ++  G +    KD        I +I + D E G           ++S  +      KG 
Sbjct: 2   VEIVRGGSPRPIKDYLTSEVDGINWIKIGDTEKGEKYINNVKEKIKKSGLNKTRFVKKGT 61

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID-VTQRIEAICEGA 144
            L      + R  I+     I      +   ++ L +    ++LS + V  +  ++  GA
Sbjct: 62  FLLTNSMSFGRPYILNVDGAIHDGWLAISNYENSLNKDYLFYILSSNVVYSQFLSLISGA 121

Query: 145 TMSHADWKGIGNI 157
            + + +   + +I
Sbjct: 122 VVKNLNSDKVASI 134



 Score = 37.9 bits (86), Expect = 3.3,   Method: Composition-based stats.
 Identities = 13/104 (12%), Positives = 36/104 (34%), Gaps = 4/104 (3%)

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
           + +      +K       + V  G  +            L     +  G +    ++   
Sbjct: 37  KYINNVKEKIKKSGLNKTRFVKKGTFLLTNSMSFGRPYILNVDGAIHDGWLA---ISNYE 93

Query: 326 HGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVL 368
           + ++  YL +++ S  +   F ++ SG   ++L  + V  + + 
Sbjct: 94  NSLNKDYLFYILSSNVVYSQFLSLISGAVVKNLNSDKVASILIP 137


>gi|312902304|ref|ZP_07761511.1| hypothetical protein HMPREF9512_00080 [Enterococcus faecalis
           TX0635]
 gi|310634275|gb|EFQ17558.1| hypothetical protein HMPREF9512_00080 [Enterococcus faecalis
           TX0635]
          Length = 146

 Score = 42.1 bits (97), Expect = 0.17,   Method: Composition-based stats.
 Identities = 16/149 (10%), Positives = 48/149 (32%), Gaps = 7/149 (4%)

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI-ITSAYMAVKPH 326
                  +K E    +     G I            +      +E    + +  + + P 
Sbjct: 3   DFDNFECVKLEDVAEFGRAKAGYIYPAGTSTIQISATTGQIDFLEYPREVPTKEVVIIPQ 62

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
                    L+   ++ K      +G+  +++ +++   P+ +   + Q     +++  T
Sbjct: 63  NGIEPKYFNLILQRNVEKFIAKYATGI--NIQEKEIGNFPIELFNRETQKAFVRMMDHIT 120

Query: 387 ARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
                 +   E  + + KE + +F+   +
Sbjct: 121 DE----IATAENELTIYKEMKKAFLGDLM 145


>gi|309808159|ref|ZP_07702070.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus iners LactinV 01V1-a]
 gi|308168595|gb|EFO70702.1| type I restriction modification DNA specificity domain protein
           [Lactobacillus iners LactinV 01V1-a]
          Length = 178

 Score = 42.1 bits (97), Expect = 0.18,   Method: Composition-based stats.
 Identities = 21/173 (12%), Positives = 46/173 (26%), Gaps = 13/173 (7%)

Query: 25  WKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS-T 77
           W    +   T                 K I  +  +   +    Y     +  +      
Sbjct: 4   WLEKTLGEVTSFMKKGIPPKYTVEESEKTIRVLNQKCNRNFEISYSESRLHDCEKKIVPA 63

Query: 78  VSIFAKGQILYGK--LGPYLRKAIIADFDG--ICSTQFLVLQPKDVLPELLQGWLLSIDV 133
             +   G +L     +G   R A + +  G        ++L+P + L  +  G+ +    
Sbjct: 64  DKMLRAGDVLINSTGIGTAGRVAQVVEVKGPTTIDGHMILLRPSEELNPIYYGYAVKAFQ 123

Query: 134 TQRIEAICEGATMSHADWKGIGN--IPMPIPPLAEQVLIREKIIAETVRIDTL 184
           +Q           +  +   + +  I         Q  I   +     +I T 
Sbjct: 124 SQIEGLAEGSTGQTEINRMRLQDEVIIKYPKDKLVQENIGRFLSNIDDKIKTN 176


>gi|237752124|ref|ZP_04582604.1| type II restriction-modification enzyme [Helicobacter winghamensis
           ATCC BAA-430]
 gi|229376366|gb|EEO26457.1| type II restriction-modification enzyme [Helicobacter winghamensis
           ATCC BAA-430]
          Length = 894

 Score = 42.1 bits (97), Expect = 0.18,   Method: Composition-based stats.
 Identities = 27/180 (15%), Positives = 58/180 (32%), Gaps = 11/180 (6%)

Query: 213 PDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN 272
             + +  S IE + L      +   +        K   +  +N    S    ++      
Sbjct: 713 KIISLWKSDIEQIALAECGEFIGGLWTGKKPPFIKAKVIRNTN---FSLKGTLKLDSEYP 769

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQND----KRSLRSAQVMERGIITSAY--MAVKPH 326
                +S    + ++ G+I+       +     +  + + Q  E    ++    + V   
Sbjct: 770 ELEVEKSQFEKRKLEYGDIIIEKSGGSSTQAVGRVVIFTFQTNEPYSFSNFTTRLRVTRD 829

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSG--LRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
            I+  +L  ++       + +AM  G    ++L     KRL +  P IK Q  I      
Sbjct: 830 DINPFFLHLVLHYIYQQGITFAMQGGMSGIRNLDMNLYKRLKIPKPDIKIQTQIVEECEK 889


>gi|15902835|ref|NP_358385.1| Type I restriction-modification enzyme 1, S subunit [Streptococcus
           pneumoniae R6]
 gi|116515342|ref|YP_816268.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae D39]
 gi|15458388|gb|AAK99595.1| Type I restriction-modification enzyme 1, S subunit [Streptococcus
           pneumoniae R6]
 gi|116075918|gb|ABJ53638.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae D39]
          Length = 203

 Score = 42.1 bits (97), Expect = 0.18,   Method: Composition-based stats.
 Identities = 22/211 (10%), Positives = 59/211 (27%), Gaps = 12/211 (5%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V +     L  G+ +    +   +    ++    +       +   + +         
Sbjct: 2   KKVKLGEVLSLKKGKKATVLAEQTTLSQRYIQIDDLRNNNNLKFTESLNMTEAL---PDD 58

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW--LLSIDVTQRIEAICEG 143
           IL    G             + ST  ++ + +    +++  +  +     +Q +     G
Sbjct: 59  ILIAWDGANAGTVGYGLSGAVGSTITVLKKNERYKEKIISDYLGVFLESKSQYLREHSTG 118

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           AT+ H +   + ++ + +  + EQ  I   +      I     +      L       + 
Sbjct: 119 ATIPHLNKNILLDLQLELLGIEEQENIICILNTIKRLITKRKLQLDELNLL-------VK 171

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEV 234
           S       +P    K   ++           
Sbjct: 172 SRFNEMFGDPLNNNKKFAVKTGQQCFKFSIC 202



 Score = 36.7 bits (83), Expect = 7.4,   Method: Composition-based stats.
 Identities = 23/143 (16%), Positives = 40/143 (27%), Gaps = 5/143 (3%)

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
                N  LK           P +I+  +            +  +   I           
Sbjct: 35  DDLRNNNNLKFTESLNMTEALPDDILIAWDGANAGTVGYGLSGAVGSTITVLKKNERYKE 94

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
            I S YL   + S     +           L    +  L + +  I+EQ +I  ++N   
Sbjct: 95  KIISDYLGVFLESKS-QYLREHSTGATIPHLNKNILLDLQLELLGIEEQENIICILNT-- 151

Query: 387 ARIDVLVEKIEQSIVLLKERRSS 409
             I  L+ K +  +  L     S
Sbjct: 152 --IKRLITKRKLQLDELNLLVKS 172


>gi|307255982|ref|ZP_07537778.1| Type I restriction enzyme EcoAI specificity protein [Actinobacillus
           pleuropneumoniae serovar 9 str. CVJ13261]
 gi|306861072|gb|EFM93070.1| Type I restriction enzyme EcoAI specificity protein [Actinobacillus
           pleuropneumoniae serovar 9 str. CVJ13261]
          Length = 198

 Score = 42.1 bits (97), Expect = 0.19,   Method: Composition-based stats.
 Identities = 15/110 (13%), Positives = 33/110 (30%), Gaps = 10/110 (9%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
            IP+ W  V ++    L  GR         +I   ++     + L              +
Sbjct: 70  EIPESWVWVRLEDIFHLQAGR---------FISASEIYGEYKESLYPCYGGNGLRGFVKT 120

Query: 80  IFAKGQI-LYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL 128
              +G+  + G+ G        A+     +   +V++       L   + 
Sbjct: 121 YNREGKFPIIGRQGALCGNINFAEGKFYSTEHAVVVETFSNTDTLWANYF 170


>gi|46487318|gb|AAS99047.1| Tgh098 [Campylobacter jejuni]
          Length = 131

 Score = 42.1 bits (97), Expect = 0.19,   Method: Composition-based stats.
 Identities = 14/119 (11%), Positives = 33/119 (27%), Gaps = 8/119 (6%)

Query: 27  VVPIKRFTKLNTGRTSESGK------DIIYIGLEDVESGT-GKYLPKDGNSRQSDTSTVS 79
           +V +K       G T           DI ++ + D  +        +         S   
Sbjct: 14  LVKLKICGDFFMGGTPSRKNINYWNGDIKWLTISDYSNRQVIMDTKEKITREGFKNSNAK 73

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           +  KG ++   +   + +  I   D   +   + + P +        + +     Q   
Sbjct: 74  MIQKGAVVVS-IYATIGRVGILGEDMTTNQAIVAIIPNEEFINKYLMYAIDYFKFQLYN 131


>gi|210630772|ref|ZP_03296596.1| hypothetical protein COLSTE_00481 [Collinsella stercoris DSM 13279]
 gi|210160368|gb|EEA91339.1| hypothetical protein COLSTE_00481 [Collinsella stercoris DSM 13279]
          Length = 69

 Score = 42.1 bits (97), Expect = 0.20,   Method: Composition-based stats.
 Identities = 11/73 (15%), Positives = 22/73 (30%), Gaps = 6/73 (8%)

Query: 327 GIDSTYLAWLMRSYDLCKVF--YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
             D T + ++    D  K F            +  + +       P   EQ  I +    
Sbjct: 1   MNDDTDVYFVYSMTDRIKKFAEQKASGSTFLEISGKGLAAGEFAFPSKDEQTAIGS---- 56

Query: 385 ETARIDVLVEKIE 397
              ++D L+   +
Sbjct: 57  MFKQLDHLITLHQ 69


>gi|327490263|gb|EGF22051.1| type I restriction enzyme EcoDI specificity protein [Streptococcus
           sanguinis SK1058]
          Length = 184

 Score = 42.1 bits (97), Expect = 0.20,   Method: Composition-based stats.
 Identities = 13/183 (7%), Positives = 43/183 (23%), Gaps = 7/183 (3%)

Query: 239 ALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDL 298
           ++  E   K     +                 +       S                  L
Sbjct: 4   SIFKEEFSKKEVTNKLGDFFPVITGKKDANIAKGGEYPFFSCSQNISYTDNYSFDARAIL 63

Query: 299 QNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLK 358
                         +         + P+  +     +    Y L  +       + + + 
Sbjct: 64  LAGNGDFNVKIFNGKFEAYQRTYVLIPNNDEHFGYLYYAIKYFLNDITSGHRGSVIKFIT 123

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
              ++   + +   KE       + +  + ++  +    + I  L   R + +   ++ +
Sbjct: 124 KGQIEHFNIFMTSNKE------KLFLFNSFVEN-IANNNKEIDKLSNIRDTLLPKLLSDE 176

Query: 419 IDL 421
           I +
Sbjct: 177 ISV 179


>gi|251782484|ref|YP_002996786.1| hypothetical protein SDEG_1073 [Streptococcus dysgalactiae subsp.
           equisimilis GGS_124]
 gi|242391113|dbj|BAH81572.1| hypothetical protein SDEG_1073 [Streptococcus dysgalactiae subsp.
           equisimilis GGS_124]
 gi|323127370|gb|ADX24667.1| hypothetical protein SDE12394_05975 [Streptococcus dysgalactiae
           subsp. equisimilis ATCC 12394]
          Length = 198

 Score = 41.7 bits (96), Expect = 0.20,   Method: Composition-based stats.
 Identities = 34/186 (18%), Positives = 70/186 (37%), Gaps = 10/186 (5%)

Query: 26  KVVPIKRFTKLNTGRTSESG---KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + V +        G+   S     D+  I L D+ +   +Y                +  
Sbjct: 14  EKVALGEAVDCFKGKAVSSKAEPGDVGLINLSDMGTLGIQYHQLRTFQMDRRQLLRYLLE 73

Query: 83  KGQILYGKLGPYLRKAIIA--DFDGICSTQFLVLQPKDVLP-ELLQGWLLSIDVTQRIEA 139
            G +L    G   +  +    + D + S+   VL+P+ +L    ++ +L S      ++A
Sbjct: 74  DGDVLIASKGTLKKVCVFHKQNRDVVASSNITVLRPQKLLRGYYIKFFLDSPIGQALLDA 133

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
              G  + +   K + +IP+P+ PL +Q    + +I   +R  T    +++  E   E  
Sbjct: 134 ADHGKDVINLSTKELLDIPIPVIPLVKQ----DYLINHYLRGLTDYHRKLKRAEQEWEYI 189

Query: 200 QALVSY 205
           Q  +  
Sbjct: 190 QNEIQK 195



 Score = 36.7 bits (83), Expect = 7.1,   Method: Composition-based stats.
 Identities = 15/128 (11%), Positives = 46/128 (35%), Gaps = 9/128 (7%)

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
             +++ G+++         K  +   Q  +    ++  +      +   Y+ + + S   
Sbjct: 69  RYLLEDGDVLIASKG-TLKKVCVFHKQNRDVVASSNITVLRPQKLLRGYYIKFFLDSPIG 127

Query: 343 CKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNV----INVETARIDVLVEK-- 395
             +  A   G    +L  +++  +P+ V P+ +Q  + N     +     ++    ++  
Sbjct: 128 QALLDAADHGKDVINLSTKELLDIPIPVIPLVKQDYLINHYLRGLTDYHRKLKRAEQEWE 187

Query: 396 -IEQSIVL 402
            I+  I  
Sbjct: 188 YIQNEIQK 195


>gi|225568966|ref|ZP_03777991.1| hypothetical protein CLOHYLEM_05045 [Clostridium hylemonae DSM
           15053]
 gi|225162465|gb|EEG75084.1| hypothetical protein CLOHYLEM_05045 [Clostridium hylemonae DSM
           15053]
          Length = 621

 Score = 41.7 bits (96), Expect = 0.21,   Method: Composition-based stats.
 Identities = 17/139 (12%), Positives = 37/139 (26%), Gaps = 9/139 (6%)

Query: 280 YETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS 339
           Y+    V   +I+            + +             + V     D   L   + S
Sbjct: 479 YKDKFRVSEDDILLTSKGSVIKAAVVGANPPPAFISGNITLLRVDERKYDPYILLEYLYS 538

Query: 340 YDLCKVFYAMGSGLRQSL-KFEDVKRLPVLVPPIKEQFDITNVI----NVETARIDVLVE 394
                    + SG    +     +K++ V     +    I   +        +    L E
Sbjct: 539 GQGQLALERIQSGTTIRILSNASIKKMKVPEYDKELMKVIGKQLKQNRERYFSEQKRLTE 598

Query: 395 KIEQS----IVLLKERRSS 409
             ++     + +LKE +  
Sbjct: 599 SYQKERQKLLEILKEEKDG 617


>gi|14324679|dbj|BAB59606.1| type I restriction enzyme S protein [Thermoplasma volcanium GSS1]
          Length = 84

 Score = 41.7 bits (96), Expect = 0.21,   Method: Composition-based stats.
 Identities = 18/77 (23%), Positives = 30/77 (38%), Gaps = 7/77 (9%)

Query: 10 YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVESGTGK 62
           KDSG++WIG+I   W +V I  F+KL T  T +           I ++   ++      
Sbjct: 3  MKDSGIEWIGSINSKWPIVKIIYFSKLKTCGTPDKRVLEYWEDGKINWMSSGEINKDLIY 62

Query: 63 YLPKDGNSRQSDTSTVS 79
           +           S  +
Sbjct: 63 EVEGKITELGYKNSNAT 79


>gi|238854085|ref|ZP_04644434.1| restriction endonuclease S subunit [Lactobacillus gasseri 202-4]
 gi|238833292|gb|EEQ25580.1| restriction endonuclease S subunit [Lactobacillus gasseri 202-4]
          Length = 307

 Score = 41.7 bits (96), Expect = 0.21,   Method: Composition-based stats.
 Identities = 21/132 (15%), Positives = 46/132 (34%), Gaps = 6/132 (4%)

Query: 25  WKVVPIKRFTKLNTGRTSES-----GKDIIYIGLEDVES-GTGKYLPKDGNSRQSDTSTV 78
           WK   I++   L +G+T        G +I Y+ ++D+ S     Y+          T+  
Sbjct: 176 WKKSTIEKCCTLKSGKTLPRNIENEGGNIPYVKVKDMNSLENTTYITTSTRFVSDKTANK 235

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
           SIF  G +++ K G  +                 ++        +   +L        + 
Sbjct: 236 SIFPVGTVIFPKRGGAIGTNKKRLTKVPICADLNIMGVIPDNTRISSYYLFEYFNMVDLN 295

Query: 139 AICEGATMSHAD 150
            +  G+++   +
Sbjct: 296 TLNNGSSVPQIN 307


>gi|225164187|ref|ZP_03726463.1| conserved hypothetical protein [Opitutaceae bacterium TAV2]
 gi|224801196|gb|EEG19516.1| conserved hypothetical protein [Opitutaceae bacterium TAV2]
          Length = 490

 Score = 41.7 bits (96), Expect = 0.22,   Method: Composition-based stats.
 Identities = 51/420 (12%), Positives = 117/420 (27%), Gaps = 45/420 (10%)

Query: 27  VVPIKRFTKLNT-GRTS----ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIF 81
               ++  ++   GRT      S K   ++    V         K     + + +     
Sbjct: 63  WKKFEQLARVTMPGRTKGILVSSEKGTPFLAATQV-FDIRPVPRKWLAVDRINNARSLFI 121

Query: 82  AKGQILYGKLGPYLRKAIIAD--FDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           ++G IL  + G   R  +  D   + +CS   L ++ ++  PE        +   Q    
Sbjct: 122 SEGTILVTRSGNVGRSTLTTDTIKEILCSDDLLRVEARE--PEQWGWLYAYLRSPQARAM 179

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
           +               ++     P+  + +  +        +D+        +E  +  +
Sbjct: 180 MTGAQYGHIIKHLECEHLNALPVPVVRKGIAADFQKRTQAILDSRNRAHRLTLEAEERFE 239

Query: 200 QAL----VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK-----NTK 250
           Q L    V      G +    +       +   P +  V      + +  +         
Sbjct: 240 QTLGPLKVKDWGEAGFDIRASLLFGDRRRLEATPHNPGVATIRRHLAKNGKGLFTVARAG 299

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQI--------------VDPGEIVFRFI 296
                            +E  +     E+   +                V  G ++    
Sbjct: 300 FDVWLPSRFKRIPAEDGIELVDSSAVFETNPDHNKRIADGDFGDAFNGRVKAGWLLMARS 359

Query: 297 DLQNDKRSLRSAQVM--ERGIITSAYMAVKPHGIDSTYLAWLMRSYDL----CKVFYAMG 350
                     +   +  E   ++   + + P+        +L  +         +  ++ 
Sbjct: 360 GQTYGINGNVAFATVAHENRAVSDDLLRIAPNKESKMRAGYLFVALSHPLLGRPLVKSLA 419

Query: 351 SGL-RQSLKFEDVKRLPVL-VPPIKEQFDITNVINV---ETARIDVLVEKIEQSIVLLKE 405
            G     +   D+  L ++ +P  +E   I ++      E AR DVL  K+     LL E
Sbjct: 420 YGSSIPHIDAADLLLLEIVRLPSREE-NAIADLAEESAAERARADVLERKLADDASLLIE 478


>gi|321310221|ref|YP_004192550.1| type I restriction-modification system, S subunit (fragment)
           [Mycoplasma haemofelis str. Langford 1]
 gi|319802065|emb|CBY92711.1| type I restriction-modification system, S subunit (fragment)
           [Mycoplasma haemofelis str. Langford 1]
          Length = 130

 Score = 41.7 bits (96), Expect = 0.22,   Method: Composition-based stats.
 Identities = 10/117 (8%), Positives = 30/117 (25%), Gaps = 7/117 (5%)

Query: 29  PIKRFTKLNTGRTS----ESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKG 84
                 K+ +G       ++      + ++++  G      +  +         +I  +G
Sbjct: 14  KFGDVCKIRSGTRFYPQFQTNSGFPIVRVKNIRDGQI--TTEGLSYCDPKNHNSAIIRQG 71

Query: 85  QILYGKLGPYLRK-AIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
            I+  + G        +   +   +     L P          +L           +
Sbjct: 72  DIVMARAGRTGVVGINLTGREFFFNENVFKLVPNRRFVTSRYLYLFLSRHQDIKTKL 128


>gi|228475389|ref|ZP_04060108.1| conserved hypothetical protein [Staphylococcus hominis SK119]
 gi|228270572|gb|EEK12004.1| conserved hypothetical protein [Staphylococcus hominis SK119]
          Length = 191

 Score = 41.7 bits (96), Expect = 0.22,   Method: Composition-based stats.
 Identities = 20/147 (13%), Positives = 51/147 (34%), Gaps = 17/147 (11%)

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
               +   +K +      +V   +IV   +    +   + +             + V   
Sbjct: 45  DDTYQPRVIKLKDTSRATVVHKDDIVISMM--TGECTLVSTRHDGSILPYNYTKIEVTSD 102

Query: 327 GIDSTYLAWLMR-SYDLCKVF--YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
            ++  +L +  + + ++   +  Y  G    + L  + +K L + +P I+ Q  I     
Sbjct: 103 LLEPAFLVYWFQLAPEVHSQYKQYMQGGSTIKKLTHQQLKSLYITLPSIERQRLIGQ--- 159

Query: 384 VETARIDVLVEKIEQSIVLLKERRSSF 410
                    +   E+ + +LK+R+S  
Sbjct: 160 ---------IGIKEKQLNVLKQRQSRL 177


>gi|172039826|ref|YP_001799540.1| type I restriction-modification system, specificity subunit
           [Corynebacterium urealyticum DSM 7109]
 gi|171851130|emb|CAQ04106.1| type I restriction-modification system, specificity subunit
           [Corynebacterium urealyticum DSM 7109]
          Length = 320

 Score = 41.7 bits (96), Expect = 0.22,   Method: Composition-based stats.
 Identities = 9/64 (14%), Positives = 23/64 (35%), Gaps = 3/64 (4%)

Query: 329 DSTYLAWLMR--SYDLCKVFYAMGSGLRQSLKFEDVKRLPVL-VPPIKEQFDITNVINVE 385
           D  ++ + ++          +   S    + +FE       L +P +  Q  I +++   
Sbjct: 117 DPKFVYYWLQLMHKSGRAWKHQNQSTGIANFQFEQFLDNEFLWLPSLTTQQAIASILGSL 176

Query: 386 TARI 389
             +I
Sbjct: 177 DDKI 180



 Score = 40.2 bits (92), Expect = 0.72,   Method: Composition-based stats.
 Identities = 16/106 (15%), Positives = 37/106 (34%), Gaps = 10/106 (9%)

Query: 29  PIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQS---DTSTVS 79
           P  R   +  G T  +      G +I +    D+ +  G +L +          ++ + +
Sbjct: 208 PFGRVCDVFGGSTPSTKVGEYWGGNINWATPTDLTALRGPWLSETERKITEAGLESMSST 267

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ 125
           +   G IL       +    +A      +  F+V++  + L   + 
Sbjct: 268 LHPPGSILMTS-RATIGHVAVAATPVTTNQGFIVIRASEKLTPWIF 312


>gi|308184635|ref|YP_003928768.1| anti-codon nuclease masking agent (prrB) [Helicobacter pylori
           SJM180]
 gi|308060555|gb|ADO02451.1| anti-codon nuclease masking agent (prrB) [Helicobacter pylori
           SJM180]
          Length = 203

 Score = 41.7 bits (96), Expect = 0.23,   Method: Composition-based stats.
 Identities = 19/140 (13%), Positives = 54/140 (38%), Gaps = 10/140 (7%)

Query: 279 SYETYQIVDPGEIVFRFIDLQNDK--RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWL 336
            Y    I D   ++        +K    + +    +  +   A++    + +   +L + 
Sbjct: 55  DYIDSYIFDGDFVLVGEDGSVINKDNTPVVNWASGKIWVNNHAHVLQTKNELKLKFLYFY 114

Query: 337 MRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKI 396
           +++ D+        +G    +  E++K++ + +PP++ Q +I  +++  +     L+  I
Sbjct: 115 LQTIDV----SYCVAGTPPKINQENLKKIIIPIPPLEIQQEIVKILDQFSILTTDLLAGI 170

Query: 397 EQSIVLLKE----RRSSFIA 412
              I   K+     R   + 
Sbjct: 171 PAEIKARKKQYEYYREKLLT 190



 Score = 36.3 bits (82), Expect = 9.7,   Method: Composition-based stats.
 Identities = 24/158 (15%), Positives = 43/158 (27%), Gaps = 13/158 (8%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSE--SGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS 79
           PK      +    ++   R       K    I      +G   Y+               
Sbjct: 13  PKGVGFRKLGEVCEILDNRRIPIAKNKRKPGIYPYYGANGIQDYIDSYIFDGDFV----- 67

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
           +  +   +  K          A      +    VLQ K+ L      +     +     +
Sbjct: 68  LVGEDGSVINKDNT--PVVNWASGKIWVNNHAHVLQTKNELKLKFLYF----YLQTIDVS 121

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
            C   T    + + +  I +PIPPL  Q  I + +   
Sbjct: 122 YCVAGTPPKINQENLKKIIIPIPPLEIQQEIVKILDQF 159


>gi|297205947|ref|ZP_06923342.1| type I site-specific deoxyribonuclease specificity subunit HsdS
           [Lactobacillus jensenii JV-V16]
 gi|297149073|gb|EFH29371.1| type I site-specific deoxyribonuclease specificity subunit HsdS
           [Lactobacillus jensenii JV-V16]
          Length = 373

 Score = 41.7 bits (96), Expect = 0.23,   Method: Composition-based stats.
 Identities = 13/155 (8%), Positives = 50/155 (32%), Gaps = 14/155 (9%)

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
             + + +  +  +  +  + Y ++  GE+ +   + +  K     +       +      
Sbjct: 27  GWMTQEDRFSGDISGKQKKNYTLLHKGELSYNHGNSKVAKYGAVFSLQNYSEALIPHVYH 86

Query: 323 VKP--HGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ-----SLKFEDVKRLPVLVPPIKEQ 375
                      ++    +  D+ K      S   +     ++ + D  ++ + +      
Sbjct: 87  SFKIIKETTPVFIENFFKKKDVNKQLRKYISSSARMDGLLNISYSDFMKVHLFIS----- 141

Query: 376 FDITN--VINVETARIDVLVEKIEQSIVLLKERRS 408
             I+    I+     ++ L+   ++ + L K+ + 
Sbjct: 142 QKISETKQIDKIFEILNSLLSLQQRKLELEKQLKK 176



 Score = 40.2 bits (92), Expect = 0.74,   Method: Composition-based stats.
 Identities = 37/393 (9%), Positives = 119/393 (30%), Gaps = 32/393 (8%)

Query: 32  RFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYG-- 89
             ++   G  +++  ++  + +        +     G+         ++  KG++ Y   
Sbjct: 3   EISERVNG--NDNRFNLPVLTISAKTGWMTQEDRFSGDISGKQKKNYTLLHKGELSYNHG 60

Query: 90  --KLGPYLRKAIIADFDGICSTQFLVLQ--PKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
             K+  Y     + ++               K+  P  ++ +    DV +++      + 
Sbjct: 61  NSKVAKYGAVFSLQNYSEALIPHVYHSFKIIKETTPVFIENFFKKKDVNKQLRKYISSSA 120

Query: 146 MSH-ADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
                      +       +++++   ++I      +++L++ + R +EL K+ K+  + 
Sbjct: 121 RMDGLLNISYSDFMKVHLFISQKISETKQIDKIFEILNSLLSLQQRKLELEKQLKKFCLQ 180

Query: 205 YIV-TKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
            I+      P+++  D    W  +            ++++     TK         S   
Sbjct: 181 NILSDNKKCPNLRFHDFSTNWKKVKVGDIFTVTRGKVLSKDKISKTKDHIMKYPVYSSQT 240

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
           +   L         E   T+          R    +    ++    + + G +  A    
Sbjct: 241 LNNGLLGYYHDYLFEDAITWTTDGANAGTVRLRAGKFYGTNVNGVLLSKNGYVNDA---- 296

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV-PPIKEQFDITNVI 382
               ++     ++                    L    ++ +   + P ++EQ     +I
Sbjct: 297 NAEALNQIAWKYV-------------SKVGNPKLMNNVMQNIMFSIAPSVEEQV----II 339

Query: 383 NVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           +         ++  + +I +  + +   +    
Sbjct: 340 SKLFILHSKSLKIYQANINVYTQLKQFLLQNLF 372


>gi|296328508|ref|ZP_06871027.1| type I restriction enzyme StySJI specificity protein [Fusobacterium
           nucleatum subsp. nucleatum ATCC 23726]
 gi|296154317|gb|EFG95116.1| type I restriction enzyme StySJI specificity protein [Fusobacterium
           nucleatum subsp. nucleatum ATCC 23726]
          Length = 222

 Score = 41.7 bits (96), Expect = 0.23,   Method: Composition-based stats.
 Identities = 29/186 (15%), Positives = 69/186 (37%), Gaps = 11/186 (5%)

Query: 36  LNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYL 95
           +  GR ++      +I +++V   + + + K+    +      + F +  IL+ K+ P +
Sbjct: 14  IIYGRAAKEFTKGDFISMKNVSENSFEIIEKNFEKFKDLQKGYTQFIENDILFAKIIPCM 73

Query: 96  RK------AIIADFDGICSTQFLV-LQPKDVLPELLQGWLLSIDVTQRIEAICE---GAT 145
           +         + +  G  ST+F +    K +  +LL  +L      +          G  
Sbjct: 74  KNRKTTIITNLKEKIGYSSTEFHILRSTKIINNKLLYNFLKQKRFREDARCNMTGSVGFR 133

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY 205
               ++      P+P PPL EQ  I   +       +  + + +   E +   +++++  
Sbjct: 134 RVPTEFMKNYPFPLPPPPLEEQQEIVRILDEVLEN-ENKVKKLLELEEKMDILEKSILHK 192

Query: 206 IVTKGL 211
                L
Sbjct: 193 AFKGEL 198


>gi|227872204|ref|ZP_03990568.1| hypothetical protein HMPREF6123_0507 [Oribacterium sinus F0268]
 gi|227841947|gb|EEJ52213.1| hypothetical protein HMPREF6123_0507 [Oribacterium sinus F0268]
          Length = 69

 Score = 41.7 bits (96), Expect = 0.23,   Method: Composition-based stats.
 Identities = 11/50 (22%), Positives = 26/50 (52%), Gaps = 1/50 (2%)

Query: 328 IDSTYLAWLMRSYDLCK-VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
           + +T++  L+ S      V   +  G ++ +   D+++L + +PPI+ Q 
Sbjct: 1   MLNTFVKALLESDYFENAVISKIRGGTQKFISLGDIRKLEICLPPIEVQE 50


>gi|260654990|ref|ZP_05860478.1| DNA methylase-type I restriction-modification system [Jonquetella
           anthropi E3_33 E1]
 gi|260630305|gb|EEX48499.1| DNA methylase-type I restriction-modification system [Jonquetella
           anthropi E3_33 E1]
          Length = 383

 Score = 41.7 bits (96), Expect = 0.24,   Method: Composition-based stats.
 Identities = 16/145 (11%), Positives = 44/145 (30%), Gaps = 2/145 (1%)

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN-MGLKPESYETYQIVDPGEIVFR 294
               +   +   +   +E  I  +   ++  +  +   + L  +S           I+F 
Sbjct: 191 HLVRIQKSIEPGSAAYMEKGIPFVRVQDLSSQGISEPCIYLDQKSCAEAPRPQKDTILFS 250

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-L 353
                     ++             ++ +K   +   YL  ++ S  +         G +
Sbjct: 251 KDGTVGIAYKVQENDPEFVTSSAILHLNMKTDEMLPDYLTLMLNSPIVQLQAERDAGGSV 310

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDI 378
               K  ++  + V V   ++Q +I
Sbjct: 311 INHWKLSEIADVLVPVLSYEQQKEI 335



 Score = 41.3 bits (95), Expect = 0.27,   Method: Composition-based stats.
 Identities = 13/71 (18%), Positives = 28/71 (39%), Gaps = 4/71 (5%)

Query: 336 LMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINVET---ARIDV 391
           L +S  +  +     SG    SL   D+  +P+ +   + Q  I++ +        +   
Sbjct: 5   LFQSLFMQDLLKRGCSGTILTSLNRNDLFNIPIPILDGEIQNKISSYVQESMRYRQQAKE 64

Query: 392 LVEKIEQSIVL 402
           L+    +S+ L
Sbjct: 65  LLHLATESVEL 75


>gi|89076109|ref|ZP_01162468.1| Restriction endonuclease S subunits [Photobacterium sp. SKA34]
 gi|89048185|gb|EAR53768.1| Restriction endonuclease S subunits [Photobacterium sp. SKA34]
          Length = 223

 Score = 41.7 bits (96), Expect = 0.24,   Method: Composition-based stats.
 Identities = 11/81 (13%), Positives = 22/81 (27%), Gaps = 9/81 (11%)

Query: 21  IPKHWKVVPIKRFTKLNTGRTS--------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           +PK W+   +  F  +  G T          S   +  +   +V+     +       R 
Sbjct: 106 LPKGWEYSRLGEFVSIIRGITFPASAKHHEPSEGLVACLRTTNVQ-HQIDWDDLLYVDRS 164

Query: 73  SDTSTVSIFAKGQILYGKLGP 93
                    + G I+      
Sbjct: 165 YLKREEQKLSIGDIVMSMANS 185


>gi|329116817|ref|ZP_08245534.1| hypothetical protein SPB_0634 [Streptococcus parauberis NCFD 2020]
 gi|326907222|gb|EGE54136.1| hypothetical protein SPB_0634 [Streptococcus parauberis NCFD 2020]
          Length = 198

 Score = 41.7 bits (96), Expect = 0.25,   Method: Composition-based stats.
 Identities = 30/184 (16%), Positives = 64/184 (34%), Gaps = 7/184 (3%)

Query: 26  KVVPIKRFTKLNTGRTSESG---KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           + + +        G+   S     +   I L D++     Y        +       I  
Sbjct: 14  EKMTLAETADCFKGKAISSKIEEGEFGLINLSDMQKDGINYEHLRTFQMERRQLLRYILE 73

Query: 83  KGQILYGKLGPYLRKAIIA--DFDGICSTQFLVLQPKDVLP-ELLQGWLLSIDVTQRIEA 139
           +G +L    G   +  +    + D + S+   VL+PK       ++ +L S      ++ 
Sbjct: 74  EGDVLIASKGTVKKVCVFHKQENDIVASSNITVLRPKKAFRGYYIKFFLDSPIGQALLDE 133

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIR-EKIIAETVRIDTLITERIRFIELLKEK 198
              G  + +   K + +I +P+ PL +Q  +    +         L   +  +  L  E 
Sbjct: 134 ADHGKDVINLSTKDLLDISIPVIPLVKQDYLINNYLRGLNDYHRKLNRAQQEWQHLQNEI 193

Query: 199 KQAL 202
           ++AL
Sbjct: 194 EKAL 197


>gi|296395126|ref|YP_003660010.1| restriction endonuclease S subunit-like protein [Segniliparus
           rotundus DSM 44985]
 gi|296182273|gb|ADG99179.1| Restriction endonuclease S subunits-like protein [Segniliparus
           rotundus DSM 44985]
          Length = 449

 Score = 41.7 bits (96), Expect = 0.25,   Method: Composition-based stats.
 Identities = 46/399 (11%), Positives = 103/399 (25%), Gaps = 36/399 (9%)

Query: 33  FTKLNTGRTSESGKDIIY--IGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGK 90
           F    T    +  +      + L  V         ++                G ++Y +
Sbjct: 31  FADFATEVHPDPHRPAPSEHVKLAGVRWYGRGLFVREERLGSEIKGRCYPLQPGMLVYNR 90

Query: 91  LGPYLRKAIIADFDGICSTQFLVLQPKDVLPE------LLQGWLLSIDVTQRIEAICEGA 144
           L  +     +   +  C        P+  L E       +Q    S            G 
Sbjct: 91  LFAWKSAFAVVTPE-FCGVHVSNEFPQFQLDELTVDAGFIQVLCASEPFAAMAAGKSTGT 149

Query: 145 T---MSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQA 201
           T    +      + ++ +P+PPL EQ ++      +  R D L     R         + 
Sbjct: 150 TAVSRNRLRQIDLMSLTIPLPPLNEQRVMLRAYQIKIDRADALSRRATRIRSAAWMAFEE 209

Query: 202 LV---------SYIVTKGLNPDVKMKD-------SGIEWVGLVPDHWEVKPFFALVTELN 245
           ++         S  V+      +   D         + W  +    +        V    
Sbjct: 210 VLGATSSPVAVSRAVSISRFASMSRWDDARVDSGPALRWPVVSLGDYADIRLGCQVPRRG 269

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
                +    + + +       L         E   T   +   +++F   + Q +    
Sbjct: 270 THGPGVSRPYLRAANVQRGRFDLSDVKNMRVTERIATALTIRHDDLLFVEGNSQEEVGRA 329

Query: 306 RSAQVMERGIITSAYMAVKPH--GIDSTYLAWLMRSYDLCKVFYAMGSGLR---QSLKFE 360
                    I  ++ +  + +   +D  +           + F    +        +   
Sbjct: 330 AVWNRQGEYIFQNSLIRARTNRSMLDPWFTCAWFNCEAGRRYFQTSATTTTGTLWHIGAG 389

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
                PV +PPI  Q  +        + +D   +  +Q+
Sbjct: 390 KTANAPVPLPPISIQRKLAK---DLWSALDDAADNEQQA 425



 Score = 39.4 bits (90), Expect = 1.1,   Method: Composition-based stats.
 Identities = 25/164 (15%), Positives = 50/164 (30%), Gaps = 14/164 (8%)

Query: 25  WKVVPIKRFTKLNTG------RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
           W VV +  +  +  G       T   G    Y+   +V+ G                +T 
Sbjct: 248 WPVVSLGDYADIRLGCQVPRRGTHGPGVSRPYLRAANVQRGRFDLSDVKNMRVTERIATA 307

Query: 79  SIFAKGQILY--GKLGPYLRKAIIADFDG--ICSTQFLVLQPK--DVLPELLQGWLLSID 132
                  +L+  G     + +A + +  G  I     +  +     + P     W     
Sbjct: 308 LTIRHDDLLFVEGNSQEEVGRAAVWNRQGEYIFQNSLIRARTNRSMLDPWFTCAWFNCEA 367

Query: 133 VTQRIEAICEGATM--SHADWKGIGNIPMPIPPLAEQVLIREKI 174
             +  +      T    H       N P+P+PP++ Q  + + +
Sbjct: 368 GRRYFQTSATTTTGTLWHIGAGKTANAPVPLPPISIQRKLAKDL 411


>gi|260589500|ref|ZP_05855413.1| N-6 DNA Methylase family protein [Blautia hansenii DSM 20583]
 gi|331082930|ref|ZP_08332050.1| hypothetical protein HMPREF0992_00974 [Lachnospiraceae bacterium
           6_1_63FAA]
 gi|260540068|gb|EEX20637.1| N-6 DNA Methylase family protein [Blautia hansenii DSM 20583]
 gi|330399925|gb|EGG79583.1| hypothetical protein HMPREF0992_00974 [Lachnospiraceae bacterium
           6_1_63FAA]
          Length = 588

 Score = 41.7 bits (96), Expect = 0.25,   Method: Composition-based stats.
 Identities = 16/148 (10%), Positives = 37/148 (25%), Gaps = 6/148 (4%)

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
           IQ      +       +    +   +I+            +               + V 
Sbjct: 438 IQYEGADKVRSTNSVCKGKYRIQKDDILITSKGTALKLAIVEDYSPEAYISGNLTLIRVN 497

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSL-KFEDVKRLPVLVPPIKEQFDITNVIN 383
           P       L   + S         + SG    +     +++L +    +++  +I   + 
Sbjct: 498 PEKYHPYVLFEYLNSRQGQISLERIQSGTTIRILSNASLQKLKIPEYHLEKMREIGKELK 557

Query: 384 VETARIDVLVEKIEQSIV-----LLKER 406
                       +E+        LLKE 
Sbjct: 558 ENQTVFYREKYMLEKQYENKRKHLLKEL 585


>gi|13541296|ref|NP_110984.1| restriction endonuclease S subunit fragment [Thermoplasma
          volcanium GSS1]
          Length = 82

 Score = 41.7 bits (96), Expect = 0.26,   Method: Composition-based stats.
 Identities = 18/77 (23%), Positives = 30/77 (38%), Gaps = 7/77 (9%)

Query: 10 YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVESGTGK 62
           KDSG++WIG+I   W +V I  F+KL T  T +           I ++   ++      
Sbjct: 1  MKDSGIEWIGSINSKWPIVKIIYFSKLKTCGTPDKRVLEYWEDGKINWMSSGEINKDLIY 60

Query: 63 YLPKDGNSRQSDTSTVS 79
           +           S  +
Sbjct: 61 EVEGKITELGYKNSNAT 77


>gi|256854680|ref|ZP_05560044.1| LOW QUALITY PROTEIN: restriction endonuclease [Enterococcus
           faecalis T8]
 gi|256710240|gb|EEU25284.1| LOW QUALITY PROTEIN: restriction endonuclease [Enterococcus
           faecalis T8]
          Length = 163

 Score = 41.3 bits (95), Expect = 0.26,   Method: Composition-based stats.
 Identities = 26/161 (16%), Positives = 52/161 (32%), Gaps = 4/161 (2%)

Query: 229 PDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKP--ESYETYQIV 286
            +  ++    +           LIE     + YG +  K ET    +    +  +   + 
Sbjct: 1   WEQCKLGRMASFSKGNGYSKADLIEEGHPLILYGRLYTKYETIIESVDTFAKLQDKSILS 60

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY-MAVKPHGIDSTYLAWLMRSYDLCKV 345
             GE++        +  S  S   +   ++     +      ++ T+LA  + +    K 
Sbjct: 61  KGGEVIVPSSGESAEDISRASVVDVAGVVLGGDLNIIKTNSELNPTFLALTISNGSQQKE 120

Query: 346 FYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
                 G     L   D+K + +L P I+EQ  I       
Sbjct: 121 MSKRAQGKSIVHLHNSDLKEINLLYPKIEEQIYIGLFFKKL 161


>gi|238809964|dbj|BAH69754.1| hypothetical protein [Mycoplasma fermentans PG18]
          Length = 271

 Score = 41.3 bits (95), Expect = 0.26,   Method: Composition-based stats.
 Identities = 25/172 (14%), Positives = 51/172 (29%), Gaps = 10/172 (5%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKD-------IIYIGLEDVESGTGKYLPKDGNSRQ 72
            IP +W     K    L  G++ E+          I +  + D++        K   S Q
Sbjct: 100 EIPINWAWTRFKNIANLVLGKSPETNNINYWKNGVINWFTIADMKDKQIIEDSKKKISLQ 159

Query: 73  SDTS--TVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLS 130
           +        +  KG +L       + K  I + D + +   + +             L+ 
Sbjct: 160 AKKEIFNNQMSKKGTLLLS-FKLTIGKTSIINQDSVHNEAIVSINFYKDNNITKMFLLIF 218

Query: 131 IDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
           + +                + + +  + +PIPP+  Q  I            
Sbjct: 219 LGLLINNCEKINAIKGKTLNKEKLQKMLIPIPPIKNQNNILLITNKIIDLFK 270



 Score = 38.6 bits (88), Expect = 2.1,   Method: Composition-based stats.
 Identities = 33/224 (14%), Positives = 74/224 (33%), Gaps = 9/224 (4%)

Query: 164 LAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGI- 222
           L +Q    E        I     + I+  ++ K+K ++ +     K     +  K   I 
Sbjct: 35  LVKQDPNDEPASKLLEAIQIEKNKLIKEGKIKKDKHESFIFQGEDKNYYEKIGSKVINIT 94

Query: 223 -EWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYE 281
            E    +P +W    F  +   +  K+ +    N       N     + ++  +  +S +
Sbjct: 95  NEIPFEIPINWAWTRFKNIANLVLGKSPETNNINYWKNGVINWFTIADMKDKQIIEDSKK 154

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA-------YMAVKPHGIDSTYLA 334
              +    EI    +  +          + +  II                   + T + 
Sbjct: 155 KISLQAKKEIFNNQMSKKGTLLLSFKLTIGKTSIINQDSVHNEAIVSINFYKDNNITKMF 214

Query: 335 WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDI 378
            L+    L      + +   ++L  E ++++ + +PPIK Q +I
Sbjct: 215 LLIFLGLLINNCEKINAIKGKTLNKEKLQKMLIPIPPIKNQNNI 258


>gi|229548241|ref|ZP_04436966.1| possible type I restriction-modification system specificity subunit
           [Enterococcus faecalis ATCC 29200]
 gi|229306630|gb|EEN72626.1| possible type I restriction-modification system specificity subunit
           [Enterococcus faecalis ATCC 29200]
          Length = 153

 Score = 41.3 bits (95), Expect = 0.26,   Method: Composition-based stats.
 Identities = 14/147 (9%), Positives = 38/147 (25%), Gaps = 11/147 (7%)

Query: 247 KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYET-YQIVDPGEIVFRFIDLQNDKRSL 305
           K       +I     G      +        E+Y+  Y     G+++             
Sbjct: 17  KEQTSESGDIPFYKIGTFGATADAFISRELFETYKKKYPYPKIGDLLISASGSIGRVV-- 74

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRL 365
                        + +       D       ++ +     ++ +     + L  +++   
Sbjct: 75  --EYKGNDEYFQDSNIVWLK--HDDRINNLFLKQFYSIVKWHGLEGSTIKRLYNKNILET 130

Query: 366 PVLVPPIKEQFDITNVINVETARIDVL 392
            + +P   EQ  I         ++D +
Sbjct: 131 TIHLPVFDEQEKIG----TLFKQLDDI 153


>gi|221231663|ref|YP_002510815.1| type I RM modification enzyme [Streptococcus pneumoniae ATCC
           700669]
 gi|220674123|emb|CAR68642.1| putative type I RM modification enzyme [Streptococcus pneumoniae
           ATCC 700669]
          Length = 180

 Score = 41.3 bits (95), Expect = 0.27,   Method: Composition-based stats.
 Identities = 20/176 (11%), Positives = 55/176 (31%), Gaps = 5/176 (2%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V +     L  G+ +    +   +    ++    +       +   + +         
Sbjct: 2   KKVKLGEILSLKKGKKATVLAEQTTLSQRYIQIDDLRNNNNLKFTESLNMTEAL---PDD 58

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW--LLSIDVTQRIEAICEG 143
           IL    G             + ST  ++ + +    +++  +  +     +Q +     G
Sbjct: 59  ILIAWDGANAGTVGYGLSGAVGSTITVLKKNERYKEKIISDYLGVFLESKSQYLREHSTG 118

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
           AT+ H +   + ++ + +  + EQ  I   +      I     +      L+K + 
Sbjct: 119 ATIPHLNKNILLDLQLELLGIEEQENIICILNTIKRLITKRKLQLDELNLLVKSRY 174



 Score = 36.7 bits (83), Expect = 7.0,   Method: Composition-based stats.
 Identities = 23/143 (16%), Positives = 40/143 (27%), Gaps = 5/143 (3%)

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
                N  LK           P +I+  +            +  +   I           
Sbjct: 35  DDLRNNNNLKFTESLNMTEALPDDILIAWDGANAGTVGYGLSGAVGSTITVLKKNERYKE 94

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
            I S YL   + S     +           L    +  L + +  I+EQ +I  ++N   
Sbjct: 95  KIISDYLGVFLESKS-QYLREHSTGATIPHLNKNILLDLQLELLGIEEQENIICILNT-- 151

Query: 387 ARIDVLVEKIEQSIVLLKERRSS 409
             I  L+ K +  +  L     S
Sbjct: 152 --IKRLITKRKLQLDELNLLVKS 172


>gi|301019050|ref|ZP_07183262.1| N-6 DNA Methylase [Escherichia coli MS 196-1]
 gi|299882408|gb|EFI90619.1| N-6 DNA Methylase [Escherichia coli MS 196-1]
          Length = 402

 Score = 41.3 bits (95), Expect = 0.28,   Method: Composition-based stats.
 Identities = 27/228 (11%), Positives = 63/228 (27%), Gaps = 5/228 (2%)

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
               G      +   I  +      + ++   +  I+    +I      ++  I    E 
Sbjct: 171 RKFIGLRRYLLNEHSITKVIELPRNIFKRTEAKTHILIFNKKIMPHHKIQLHCITKDGEL 230

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
             +++          D     +  E  G       +    ++                 +
Sbjct: 231 SPSVLIRKEDAVERMDYSYHYNKNE--GKGFSTIGMLKNISIFRGRFNSKEITEHVFHTT 288

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
              G+        N   + +  +   I  PG+I+   +     K+ L          I+ 
Sbjct: 289 KFSGDEKYIKFHCNSVEELKPSKLDVIAKPGDILIARVGRNFHKKIL--FVESGYSYISD 346

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRL 365
               ++  G D   L   + S D  +      SG   Q +  + +K++
Sbjct: 347 CIFLIRASGGDKKKLFDFLCSQDGQEELSRASSGVAAQHITMDALKKI 394


>gi|194676307|ref|XP_608246.4| PREDICTED: hypothetical protein [Bos taurus]
          Length = 1291

 Score = 41.3 bits (95), Expect = 0.29,   Method: Composition-based stats.
 Identities = 9/40 (22%), Positives = 16/40 (40%), Gaps = 3/40 (7%)

Query: 376 FDITNVINVETARIDVLVEKIEQSIVL---LKERRSSFIA 412
             I   ++ E  +++ L+   E  I     L ER+   I 
Sbjct: 842 QKILAELDKEVKKVNDLINNSENEISRRTILIERKQGLIN 881


>gi|168490978|ref|ZP_02715121.1| type I restriction-modification enzyme 1, S subunit [Streptococcus
           pneumoniae CDC0288-04]
 gi|183574774|gb|EDT95302.1| type I restriction-modification enzyme 1, S subunit [Streptococcus
           pneumoniae CDC0288-04]
          Length = 180

 Score = 41.3 bits (95), Expect = 0.29,   Method: Composition-based stats.
 Identities = 20/176 (11%), Positives = 55/176 (31%), Gaps = 5/176 (2%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V +     L  G+ +    +   +    ++    +       +   + +         
Sbjct: 2   KKVKLGEVLSLKKGKKATVLAEQTTLSQRYIQIDDLRNNNNLKFTESLNMTEAL---PDD 58

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW--LLSIDVTQRIEAICEG 143
           IL    G             + ST  ++ + +    +++  +  +     +Q +     G
Sbjct: 59  ILIAWDGANAGTVGYGLSGAVGSTITVLKKNERYKEKIISDYLGVFLESKSQYLREHSTG 118

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
           AT+ H +   + ++ + +  + EQ  I   +      I     +      L+K + 
Sbjct: 119 ATIPHLNKNILLDLQLELLGIEEQENIICILNTIKGLITKRKLQLDELNLLVKSRY 174


>gi|182683806|ref|YP_001835553.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae CGSP14]
 gi|182629140|gb|ACB90088.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae CGSP14]
          Length = 180

 Score = 41.3 bits (95), Expect = 0.30,   Method: Composition-based stats.
 Identities = 20/176 (11%), Positives = 55/176 (31%), Gaps = 5/176 (2%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V +     L  G+ +    +   +    ++    +       +   + +         
Sbjct: 2   KKVKLGEVLSLKKGKKATVLAEQTTLSQRYIQIDDLRNNNNLKFTESLNMTEAL---PDD 58

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW--LLSIDVTQRIEAICEG 143
           IL    G             + ST  ++ + +    +++  +  +     +Q +     G
Sbjct: 59  ILIAWDGANAGTVGYGLSGAVGSTITVLKKNERYKEKIISDYLGVFLESKSQYLRDHSTG 118

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
           AT+ H +   + ++ + +  + EQ  I   +      I     +      L+K + 
Sbjct: 119 ATIPHLNKNILLDLQLELLGIEEQENIICILNTIKRLITKRKFQLDELNLLVKSRY 174


>gi|291543315|emb|CBL16424.1| Type I restriction modification DNA specificity domain
           [Ruminococcus sp. 18P13]
          Length = 208

 Score = 41.3 bits (95), Expect = 0.30,   Method: Composition-based stats.
 Identities = 22/197 (11%), Positives = 60/197 (30%), Gaps = 8/197 (4%)

Query: 207 VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ 266
           + + L      K         +   WE     A++  +    +      + SL+  N + 
Sbjct: 7   LPQHLRTYAVPKYKHFHLANPLTHTWEQCELGAIIQAVQELTSDFENYPLYSLTIENGVT 66

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
               R       + ET       E  F    +     ++      ++  ++  Y      
Sbjct: 67  PKTERYERSFLITKETDLFKIVPEQCFVSNPMNLRFGAIGFNDSGKKVSVSGYYDVFSID 126

Query: 327 GIDSTYLAW-LMRSYDLCKVFYAMGSGL---RQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
             + +      +++ +  K F  +  G    ++ + F  +  +    P + E+      +
Sbjct: 127 RGECSNFWCVYLKTANSLKRFDDVAIGSLIEKRRVHFSQLTEMSFPAPNMNEKKK----L 182

Query: 383 NVETARIDVLVEKIEQS 399
                R++ L+   ++ 
Sbjct: 183 GEFFERLERLITLHQRK 199


>gi|329963203|ref|ZP_08300940.1| hypothetical protein HMPREF9446_02533 [Bacteroides fluxus YIT 12057]
 gi|328528899|gb|EGF55839.1| hypothetical protein HMPREF9446_02533 [Bacteroides fluxus YIT 12057]
          Length = 1176

 Score = 41.3 bits (95), Expect = 0.31,   Method: Composition-based stats.
 Identities = 24/141 (17%), Positives = 54/141 (38%), Gaps = 5/141 (3%)

Query: 247  KNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLR 306
            KN   ++S     ++ +  + + T +           +    GE +     L+       
Sbjct: 942  KNPHSMDSYPHLKTHLDQFKDVITSDNKPYGLHRARVESFFVGEKIVA---LRKCAGKPI 998

Query: 307  SAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG--SGLRQSLKFEDVKR 364
             A       +++ +  +K + ++  YL  L+ S  +       G   G    L  E +++
Sbjct: 999  FAYANGENYMSATFYIIKTNRVNMKYLTGLLNSKLIEFWLKNRGKMQGANYQLDKEPLQQ 1058

Query: 365  LPVLVPPIKEQFDITNVINVE 385
            +P+ VP I+ Q  I N+++  
Sbjct: 1059 IPIAVPSIEVQTIIANLVDTI 1079


>gi|300949931|ref|ZP_07163890.1| N-6 DNA Methylase [Escherichia coli MS 116-1]
 gi|300450699|gb|EFK14319.1| N-6 DNA Methylase [Escherichia coli MS 116-1]
          Length = 372

 Score = 41.3 bits (95), Expect = 0.31,   Method: Composition-based stats.
 Identities = 27/228 (11%), Positives = 63/228 (27%), Gaps = 5/228 (2%)

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
               G      +   I  +      + ++   +  I+    +I      ++  I    E 
Sbjct: 141 RKFIGLRRYLLNEHSITKVIELPRNIFKRTEAKTHILIFNKKIMPHHKIQLHCITKDGEL 200

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
             +++          D     +  E  G       +    ++                 +
Sbjct: 201 SPSVLIRKEDAVERMDYSYHYNKNE--GKGFSTIGMLKNISIFRGRFNSKEITEHVFHTT 258

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
              G+        N   + +  +   I  PG+I+   +     K+ L          I+ 
Sbjct: 259 KFSGDEKYIKFHCNSVEELKPSKLDVIAKPGDILIARVGRNFHKKIL--FVESGYSYISD 316

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRL 365
               ++  G D   L   + S D  +      SG   Q +  + +K++
Sbjct: 317 CIFLIRASGGDKKKLFDFLCSQDGQEELSRASSGVAAQHITMDALKKI 364


>gi|46580120|ref|YP_010928.1| hypothetical protein DVU1710 [Desulfovibrio vulgaris str.
           Hildenborough]
 gi|46449536|gb|AAS96187.1| conserved hypothetical protein [Desulfovibrio vulgaris str.
           Hildenborough]
 gi|311233886|gb|ADP86740.1| hypothetical protein Deval_1585 [Desulfovibrio vulgaris RCH1]
          Length = 192

 Score = 41.3 bits (95), Expect = 0.31,   Method: Composition-based stats.
 Identities = 21/124 (16%), Positives = 49/124 (39%), Gaps = 9/124 (7%)

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM---AVKPHGIDSTYLAWLMRSY 340
             + P +I+F     +N   ++    V    +I+  ++        G+   ++AW M   
Sbjct: 58  NWLQPQDILFLVRGSRN--IAVLLDSVPFPAVISPHFLLLRVAPGAGVLPAFVAWQMNQL 115

Query: 341 DLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID---VLVEKI 396
              + F A     +++S++   +  LP+++PP   Q  +  +        +    L+   
Sbjct: 116 PAQRYFEASAEGSVQRSIRKAVLADLPLVIPPKSTQHAVVRLAAAARQEAETYRKLIANR 175

Query: 397 EQSI 400
           EQ +
Sbjct: 176 EQEL 179


>gi|146321307|ref|YP_001201018.1| type I restriction-modification system, S subunit [Streptococcus
           suis 98HAH33]
 gi|145692113|gb|ABP92618.1| type I restriction-modification system, S subunit, putative
           [Streptococcus suis 98HAH33]
          Length = 103

 Score = 41.3 bits (95), Expect = 0.32,   Method: Composition-based stats.
 Identities = 12/102 (11%), Positives = 26/102 (25%), Gaps = 7/102 (6%)

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA----VKPHGIDSTYLAWLMRSYDL 342
              ++V                       +   ++            S YL   + S   
Sbjct: 2   KRNQLVTPVSSSLEHIGKFARIDKNYSDTVAGGFVFQLTPFISSDTLSNYLLLCLSSPLF 61

Query: 343 CKVFY---AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
            K       +      ++    +  L + + P +EQ  I+N 
Sbjct: 62  YKQLQSVTKLSGQALYNIPKTKLNDLRIALAPEQEQERISNK 103


>gi|90410155|ref|ZP_01218172.1| hypothetical protein P3TCK_05291 [Photobacterium profundum 3TCK]
 gi|90329508|gb|EAS45765.1| hypothetical protein P3TCK_05291 [Photobacterium profundum 3TCK]
          Length = 66

 Score = 41.3 bits (95), Expect = 0.32,   Method: Composition-based stats.
 Identities = 11/55 (20%), Positives = 22/55 (40%), Gaps = 6/55 (10%)

Query: 363 KRLPVLVPPIKEQFDITNVINVETARIDVL--VEKIEQSIVLLKE----RRSSFI 411
            +L + +PP+ EQ  I   ++     +D     E+ E+    L E      +  +
Sbjct: 1   MKLNINIPPLAEQKRIAEELDDLQRMVDNAPSTEEKEKFSEALNEKCALYFNGLL 55


>gi|312437727|gb|ADQ76798.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus
           TCH60]
          Length = 157

 Score = 41.3 bits (95), Expect = 0.32,   Method: Composition-based stats.
 Identities = 20/128 (15%), Positives = 39/128 (30%), Gaps = 15/128 (11%)

Query: 275 LKPESYETYQIVDPGEIVFRFIDLQNDKRS-----LRSAQVMERGIITSAYMAVKPHGID 329
           +K  S + Y+ ++ G+I            S     + +  +  +G I   Y+   P    
Sbjct: 30  IKVNSGKDYKHLEKGDIPVYGTGGYMTSVSEPLSEIDAVGIGRKGTINKPYLLEAPFWTV 89

Query: 330 STYLA----------WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
            T             +++  +          S    SL  + + ++   VP  KEQ  I 
Sbjct: 90  DTLFYCTPKKETDILFILSLFRKINWKVYDESTGVPSLSKQTINKINRFVPSNKEQQKIG 149

Query: 380 NVINVETA 387
                   
Sbjct: 150 EFFIKLDR 157



 Score = 40.9 bits (94), Expect = 0.40,   Method: Composition-based stats.
 Identities = 21/155 (13%), Positives = 40/155 (25%), Gaps = 18/155 (11%)

Query: 24  HWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAK 83
            W+   +    K+N+G+  +            +E G        G           +   
Sbjct: 20  EWEEKKLGDLIKVNSGKDYK-----------HLEKGDIPVYGTGGYMTSVSEP---LSEI 65

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
             +  G+ G   +  ++        T F     K+     +             +   E 
Sbjct: 66  DAVGIGRKGTINKPYLLEAPFWTVDTLFYCTPKKETDILFILSLFR----KINWKVYDES 121

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAET 178
             +     + I  I   +P   EQ  I E  I   
Sbjct: 122 TGVPSLSKQTINKINRFVPSNKEQQKIGEFFIKLD 156


>gi|254372671|ref|ZP_04988160.1| hypothetical protein FTCG_00236 [Francisella tularensis subsp.
           novicida GA99-3549]
 gi|151570398|gb|EDN36052.1| hypothetical protein FTCG_00236 [Francisella novicida GA99-3549]
          Length = 190

 Score = 41.3 bits (95), Expect = 0.32,   Method: Composition-based stats.
 Identities = 25/134 (18%), Positives = 49/134 (36%), Gaps = 3/134 (2%)

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
                    ++     G+++F      N    + S           A +      I   Y
Sbjct: 55  DTFIANKDLSFSCTQQGDVIFGLRKP-NQAVYIDSNNTNLLVQSYMAIIRCNSDIILPEY 113

Query: 333 LAWLMRSYDLCKVFYAM--GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
           LA+ + + D+    +    G    Q LK + +K + + +P +K+Q      + +    I 
Sbjct: 114 LAFKLNTQDIYNQLHKNIQGGSAIQLLKIQSLKDIVIQIPSLKQQAKRIETLKIGYQEIA 173

Query: 391 VLVEKIEQSIVLLK 404
           +L + IE+   LLK
Sbjct: 174 ILRKLIEEKQKLLK 187


>gi|294782726|ref|ZP_06748052.1| type I restriction enzyme EcoDI specificity protein [Fusobacterium
           sp. 1_1_41FAA]
 gi|294481367|gb|EFG29142.1| type I restriction enzyme EcoDI specificity protein [Fusobacterium
           sp. 1_1_41FAA]
          Length = 196

 Score = 41.3 bits (95), Expect = 0.32,   Method: Composition-based stats.
 Identities = 18/92 (19%), Positives = 34/92 (36%), Gaps = 7/92 (7%)

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
             D   L +L   Y +          + + +  ED++ +P+ +P   E   I N++N   
Sbjct: 107 QKDYYALLYLASLYRIESFKSKSTGSIVKFITKEDIENIPLFIP---ENKSIINILNKMI 163

Query: 387 ARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
                L E       +L + R   +   + GQ
Sbjct: 164 I----LKENNFSENEILIKLRDFLLPLLMNGQ 191


>gi|291534098|emb|CBL07211.1| Type I restriction modification DNA specificity domain [Megamonas
           hypermegale ART12/1]
          Length = 128

 Score = 41.3 bits (95), Expect = 0.33,   Method: Composition-based stats.
 Identities = 15/118 (12%), Positives = 36/118 (30%), Gaps = 8/118 (6%)

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYM---AVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
             F +              +   I   +M         I+S Y+  L+   D+      +
Sbjct: 1   MCFSNGSIKHLGKLCYIDKDTNYIAGGFMGILRSNSSNINSKYIYLLLSLKDMQNNIRIL 60

Query: 350 GSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL---VEKIEQSIVLL 403
            +G   ++L    +  + + VP +  Q  I           + +     + ++ I  +
Sbjct: 61  ANGGNIKNLSL-MIGSIKIPVPSVSIQESIVRECENVENEYNNIRMKESEYQEKIEKI 117


>gi|325973138|ref|YP_004250202.1| type I restriction-modification system specificity subunit
           [Mycoplasma suis str. Illinois]
 gi|323651740|gb|ADX97822.1| putative type I restriction-modification system specificity subunit
           [Mycoplasma suis str. Illinois]
          Length = 82

 Score = 40.9 bits (94), Expect = 0.34,   Method: Composition-based stats.
 Identities = 12/69 (17%), Positives = 29/69 (42%), Gaps = 4/69 (5%)

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
             ++L  + +K + +L+P       I    N     I   +EK+E  +   +E +   + 
Sbjct: 17  AIKNLSPQKLKEIEILIPD----QKILEKFNNFWKNIHSKIEKLELKMQKYEEIKKKLLD 72

Query: 413 AAVTGQIDL 421
           +  + +I +
Sbjct: 73  SLFSQEIQV 81


>gi|168484774|ref|ZP_02709719.1| type I restriction-modification enzyme 1, S subunit [Streptococcus
           pneumoniae CDC1873-00]
 gi|172042068|gb|EDT50114.1| type I restriction-modification enzyme 1, S subunit [Streptococcus
           pneumoniae CDC1873-00]
 gi|332201351|gb|EGJ15421.1| type I restriction modification DNA specificity domain protein
           [Streptococcus pneumoniae GA47368]
          Length = 180

 Score = 40.9 bits (94), Expect = 0.34,   Method: Composition-based stats.
 Identities = 20/176 (11%), Positives = 55/176 (31%), Gaps = 5/176 (2%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V +     L  G+ +    +   +    ++    +       +   + +         
Sbjct: 2   KKVKLGEVLSLKKGKKATVLAEQTTLSQRYIQIDDLRNNNNLKFTESLNMTEAL---PDD 58

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW--LLSIDVTQRIEAICEG 143
           IL    G             + ST  ++ + +    +++  +  +     +Q +     G
Sbjct: 59  ILIAWDGANAGTVGYGLSGAVGSTITVLKKNERYKEKIISDYLGVFLESKSQYLREHSTG 118

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
           AT+ H +   + ++ + +  + EQ  I   +      I     +      L+K + 
Sbjct: 119 ATIPHLNKNILLDLQLELLDIEEQENIICILNTIKRLITKRKLQLDELNLLVKSRY 174



 Score = 37.9 bits (86), Expect = 3.1,   Method: Composition-based stats.
 Identities = 23/143 (16%), Positives = 40/143 (27%), Gaps = 5/143 (3%)

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
                N  LK           P +I+  +            +  +   I           
Sbjct: 35  DDLRNNNNLKFTESLNMTEALPDDILIAWDGANAGTVGYGLSGAVGSTITVLKKNERYKE 94

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
            I S YL   + S     +           L    +  L + +  I+EQ +I  ++N   
Sbjct: 95  KIISDYLGVFLESKS-QYLREHSTGATIPHLNKNILLDLQLELLDIEEQENIICILNT-- 151

Query: 387 ARIDVLVEKIEQSIVLLKERRSS 409
             I  L+ K +  +  L     S
Sbjct: 152 --IKRLITKRKLQLDELNLLVKS 172


>gi|256962775|ref|ZP_05566946.1| predicted protein [Enterococcus faecalis HIP11704]
 gi|256953271|gb|EEU69903.1| predicted protein [Enterococcus faecalis HIP11704]
 gi|295113789|emb|CBL32426.1| Type I restriction modification DNA specificity domain.
           [Enterococcus sp. 7L76]
          Length = 146

 Score = 40.9 bits (94), Expect = 0.34,   Method: Composition-based stats.
 Identities = 16/149 (10%), Positives = 48/149 (32%), Gaps = 7/149 (4%)

Query: 268 LETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI-ITSAYMAVKPH 326
                  +K E    +     G I            +      +E    + +  + + P 
Sbjct: 3   DFDNFECVKLEDVAEFGRAKAGYIYPAGTSTIQISATKGQIDFLEYPREVPTKEVVIIPQ 62

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
                    L+   ++ K      +G+  +++ +++   P+ +   + Q     +++  T
Sbjct: 63  NGIEPKYFNLILQRNVDKFIAKYATGI--NIQEKEIGNFPIELFNRETQKAFVRMMDHIT 120

Query: 387 ARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
                 +   E  + + KE + +F+   +
Sbjct: 121 DE----IATAENELTIYKEMKKAFLGDLM 145


>gi|118497299|ref|YP_898349.1| type I restriction-modification system, subunit S [Francisella
           tularensis subsp. novicida U112]
 gi|194323603|ref|ZP_03057380.1| hypothetical protein FTE_1764 [Francisella tularensis subsp.
           novicida FTE]
 gi|118423205|gb|ABK89595.1| type I restriction-modification system, subunit S [Francisella
           novicida U112]
 gi|194322458|gb|EDX19939.1| hypothetical protein FTE_1764 [Francisella tularensis subsp.
           novicida FTE]
          Length = 190

 Score = 40.9 bits (94), Expect = 0.36,   Method: Composition-based stats.
 Identities = 24/134 (17%), Positives = 47/134 (35%), Gaps = 3/134 (2%)

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
                    ++      +IVF      N    + S           A +      I   Y
Sbjct: 55  DTFIANKDLSFSCTQEDDIVFGLRKP-NQAVYIDSNNTDLLVQSYMAIIRCNSDIILPEY 113

Query: 333 LAWLMRSYDLCKVFYAM--GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
           LA+ + + D+    +    G    Q LK + +K + + +P +++Q      +      I 
Sbjct: 114 LAFKLNTQDIYNQLHKNIQGGSAIQLLKIQSLKDIVIQIPSLEQQAKRIETLKTGYQEIA 173

Query: 391 VLVEKIEQSIVLLK 404
           +L + IE+   +LK
Sbjct: 174 ILRKLIEEKQKMLK 187


>gi|21232332|ref|NP_638249.1| hypothetical protein XCC2901 [Xanthomonas campestris pv. campestris
           str. ATCC 33913]
 gi|66767535|ref|YP_242297.1| hypothetical protein XC_1208 [Xanthomonas campestris pv. campestris
           str. 8004]
 gi|188990648|ref|YP_001902658.1| hypothetical protein xccb100_1252 [Xanthomonas campestris pv.
           campestris str. B100]
 gi|21114103|gb|AAM42173.1| hypothetical protein XCC2901 [Xanthomonas campestris pv. campestris
           str. ATCC 33913]
 gi|66572867|gb|AAY48277.1| conserved hypothetical protein [Xanthomonas campestris pv.
           campestris str. 8004]
 gi|167732408|emb|CAP50602.1| conserved hypothetical protein [Xanthomonas campestris pv.
           campestris]
          Length = 198

 Score = 40.9 bits (94), Expect = 0.37,   Method: Composition-based stats.
 Identities = 22/136 (16%), Positives = 47/136 (34%), Gaps = 9/136 (6%)

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK---PHGIDSTYLA 334
           E  +    +   +IVF           +++     R + +     ++   P  +   +LA
Sbjct: 62  EGRKHPDWLLDQDIVFIARGANTFAALVQAP--PPRTLCSPHIYVIRVKAPQQLLPAFLA 119

Query: 335 WLMRSYDLCKVFYAMGSGLRQ-SLKFEDVKRLPVLVPPIKEQFDITN---VINVETARID 390
           W +      +       G  Q S++   +   P+ +PP+  Q  +         E A + 
Sbjct: 120 WQLNQAPAQRYLRQSAEGSNQLSIRRTVLDMTPIRLPPLSLQQAVIALEQAAQAERAALH 179

Query: 391 VLVEKIEQSIVLLKER 406
            L+      + +L ER
Sbjct: 180 ALINNRTAELAILAER 195


>gi|325924113|ref|ZP_08185678.1| hypothetical protein XGA_4738 [Xanthomonas gardneri ATCC 19865]
 gi|325545415|gb|EGD16704.1| hypothetical protein XGA_4738 [Xanthomonas gardneri ATCC 19865]
          Length = 195

 Score = 40.9 bits (94), Expect = 0.37,   Method: Composition-based stats.
 Identities = 22/136 (16%), Positives = 47/136 (34%), Gaps = 9/136 (6%)

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK---PHGIDSTYLA 334
           E  +    +   +IVF           +++     R + +     ++   P  +   +LA
Sbjct: 59  EGRKHPDWLLDQDIVFIARGANTFAALVQAP--PPRTLCSPHIYVIRVKAPQQLLPAFLA 116

Query: 335 WLMRSYDLCKVFYAMGSGLRQ-SLKFEDVKRLPVLVPPIKEQFDITN---VINVETARID 390
           W +      +       G  Q S++   +   P+ +PP+  Q  +         E A + 
Sbjct: 117 WQLNQAPAQRYLRQSAEGSNQLSIRRTVLDMTPIRLPPLSLQQAVIALEQAAQAERAALH 176

Query: 391 VLVEKIEQSIVLLKER 406
            L+      + +L ER
Sbjct: 177 ALINNRTAELAILAER 192


>gi|325973244|ref|YP_004250308.1| type I restriction-modification system specificity subunit
           [Mycoplasma suis str. Illinois]
 gi|323651846|gb|ADX97928.1| type I restriction-modification system specificity subunit
           [Mycoplasma suis str. Illinois]
          Length = 160

 Score = 40.9 bits (94), Expect = 0.37,   Method: Composition-based stats.
 Identities = 14/114 (12%), Positives = 33/114 (28%), Gaps = 10/114 (8%)

Query: 25  WKVVPIKRFTKLNTG----------RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSD 74
           W+ V + +  K  TG                K I ++    +             S++  
Sbjct: 4   WEWVTLDKLGKFETGSPWKEKYSILNFPNEHKGIPFVDGGTISQSKFHISGDKFYSQKYL 63

Query: 75  TSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWL 128
              + IF +  + +  +G Y  ++ I+  +   S           + +      
Sbjct: 64  PPNIKIFPEDTVCFVCVGSYPGESRISKTNVCVSNNIYAFNSFKNISDPKFFKY 117


>gi|227365082|ref|ZP_03849109.1| possible restriction modification system DNA specificity subunit
           [Lactobacillus reuteri MM2-3]
 gi|227069880|gb|EEI08276.1| possible restriction modification system DNA specificity subunit
           [Lactobacillus reuteri MM2-3]
          Length = 317

 Score = 40.9 bits (94), Expect = 0.37,   Method: Composition-based stats.
 Identities = 50/358 (13%), Positives = 97/358 (27%), Gaps = 45/358 (12%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           +           T   ++  KD      +++    GK        RQ             
Sbjct: 3   EYKKFTALFTDVTKTGTKIPKDEYLTTGKNIIIDQGKDSIAGYTDRQKGIFEEVPV---- 58

Query: 86  ILYGKLGPYLRKAIIADFDGICS-TQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
           I++   G + R     D           VL+ K+        +                 
Sbjct: 59  IVF---GDHTRIVKYIDKPFFLGADGVKVLKSKEKESNYKYLYYALKAAHIPNTGYNRHF 115

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
                    +  I M  P L EQ  I + + + T  I           + L    + + +
Sbjct: 116 K-------WLKQINMNYPDLNEQKNIVDILDSLTRII-------KVRQKELAFFDKLIKA 161

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
             V    +P +  K+   + +G +             T   + +      N      GN 
Sbjct: 162 RFVEMFGDPIINNKNIKKKKLGDI-----CLLKAGDFTPSKKISPVKTSINKYPCFGGNG 216

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
           I+            S    Q    G + F     +N + ++  +  +E            
Sbjct: 217 IRGYVDNYTHQGNYSLIGRQGALCGNVKFATGKFRNTEHAILVSPNIE------------ 264

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
              I+S +L  L+    L K+        +  L  + +  + V V  +  Q +  N +
Sbjct: 265 ---INSRWLFELLN---LEKLNRFRSGAAQPGLAVKTLNEIIVPVADLNSQNEYANFV 316


>gi|111656837|ref|ZP_01407684.1| hypothetical protein SpneT_02001901 [Streptococcus pneumoniae
           TIGR4]
 gi|303269991|ref|ZP_07355723.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae BS458]
 gi|302640482|gb|EFL70897.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae BS458]
          Length = 170

 Score = 40.9 bits (94), Expect = 0.38,   Method: Composition-based stats.
 Identities = 19/171 (11%), Positives = 52/171 (30%), Gaps = 5/171 (2%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V +     L  G+ +    +   +    ++    +       +   + +         
Sbjct: 2   KKVKLGEVLSLKKGKKATVLAEQTTLSQRYIQIDDLRNNNNLKFTESLNMTEAL---PDD 58

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW--LLSIDVTQRIEAICEG 143
           IL    G             + ST  ++ + +    +++  +  +     +Q +     G
Sbjct: 59  ILIAWDGANAGTVGYGLSGAVGSTITVLKKNERYKEKIISDYLGVFLESKSQYLRDHSTG 118

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIEL 194
           AT+ H +   + ++ + +  + EQ  I   +      I     +      L
Sbjct: 119 ATIPHLNKNILLDLQLELLGIEEQENIICILNTIKRLITKRKFQLDELNLL 169


>gi|153951918|ref|YP_001398802.1| anti-codon nuclease masking agent [Campylobacter jejuni subsp.
           doylei 269.97]
 gi|152939364|gb|ABS44105.1| anti-codon nuclease masking agent [Campylobacter jejuni subsp.
           doylei 269.97]
          Length = 165

 Score = 40.9 bits (94), Expect = 0.40,   Method: Composition-based stats.
 Identities = 18/151 (11%), Positives = 37/151 (24%), Gaps = 10/151 (6%)

Query: 22  PKHWKVVPIKRFTKLNTGRTSES---------GKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
           P   +   +        G   +               ++ + DV               +
Sbjct: 13  PNGVEFKSLGEVANFRRGSFPQPYTKTEWYGGEDSAPFVQVADVGDNMKLTETTKQTISK 72

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSID 132
              S      K  ++    G   R AI      +  T  +    K  +      ++L + 
Sbjct: 73  IAQSKSVFVPKNTVIVTLQGSIGRVAITQYDSYVDRTLAIFQSYKIPINIKFFAYVLFMK 132

Query: 133 VTQRIEAICEGATMSHADWKGIGNIPMPIPP 163
                +    G  +     +      +PIPP
Sbjct: 133 F-DEEKKKARGGIIKTITVEEFKQFQIPIPP 162



 Score = 40.5 bits (93), Expect = 0.55,   Method: Composition-based stats.
 Identities = 10/110 (9%), Positives = 33/110 (30%), Gaps = 4/110 (3%)

Query: 262 GNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYM 321
           G+ ++  ET    +   +      V    ++             +    ++R +     +
Sbjct: 57  GDNMKLTETTKQTISKIAQSKSVFVPKNTVIVTLQGSIGRVAITQYDSYVDRTLA----I 112

Query: 322 AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
                   +      +      +       G+ +++  E+ K+  + +PP
Sbjct: 113 FQSYKIPINIKFFAYVLFMKFDEEKKKARGGIIKTITVEEFKQFQIPIPP 162


>gi|148993699|ref|ZP_01823146.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP9-BS68]
 gi|147927779|gb|EDK78802.1| type I restriction-modification system, S subunit, putative
           [Streptococcus pneumoniae SP9-BS68]
          Length = 214

 Score = 40.9 bits (94), Expect = 0.40,   Method: Composition-based stats.
 Identities = 25/236 (10%), Positives = 64/236 (27%), Gaps = 27/236 (11%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V +     L  G+ +    +   +    ++    +       +   + +         
Sbjct: 2   KKVKLGEVLSLKKGKKATVLAEQTTLSQRYIQIDDLRNNNNLKFTESLNMTEAL---PDD 58

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW--LLSIDVTQRIEAICEG 143
           IL    G             + ST  ++ + +    +++  +  +     +Q +     G
Sbjct: 59  ILIAWDGANAGTVGYGLSGAVGSTITVLKKNERYKEKIISDYLGVFLESKSQYLREHSTG 118

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
           AT+ H +   + ++ + +  + EQ  I   +      I     +      L+        
Sbjct: 119 ATIPHLNKNILLDLQLELLGIEEQENIICILNTIKRLITKRKLQLDELNLLV-------- 170

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
                         K    E  G           F ++     KN    +   + +
Sbjct: 171 --------------KSRFNEMFGENIIFERNYNLFDIIDGDRGKNDPKSDEVYIMV 212


>gi|312866001|ref|ZP_07726222.1| conserved hypothetical protein [Streptococcus downei F0415]
 gi|311098405|gb|EFQ56628.1| conserved hypothetical protein [Streptococcus downei F0415]
          Length = 197

 Score = 40.9 bits (94), Expect = 0.41,   Method: Composition-based stats.
 Identities = 14/140 (10%), Positives = 43/140 (30%), Gaps = 2/140 (1%)

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
             +      +        +++ G+++         K ++  +Q       ++  +     
Sbjct: 52  DYDHLKTFAEDLDKVQKYLLETGDVLVASKGTVK-KVAVFESQDFPVVASSNITVLRPTE 110

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
            +   YL   + S     +      G    ++    +  +PV   P+ +Q  +       
Sbjct: 111 ELSGFYLKLFLESDLGQALLDRTDKGKAVLNISTAQLLEIPVPHIPLVKQNYLVQYAYKG 170

Query: 386 TARIDVLVEKIEQSIVLLKE 405
            A     + + +Q    +K+
Sbjct: 171 QADYQRKLARAQQEWEHIKQ 190


>gi|317488605|ref|ZP_07947148.1| type I site-specific deoxyribonuclease chain S [Eggerthella sp.
           1_3_56FAA]
 gi|316912257|gb|EFV33823.1| type I site-specific deoxyribonuclease chain S [Eggerthella sp.
           1_3_56FAA]
          Length = 246

 Score = 40.9 bits (94), Expect = 0.43,   Method: Composition-based stats.
 Identities = 15/124 (12%), Positives = 40/124 (32%), Gaps = 14/124 (11%)

Query: 20  AIPKHWKVVPIKRFTK-LNTGRTSESG--KDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
            IP+ W+   ++  T  +  G++ +    K    +  +     +G  L +      +  +
Sbjct: 106 DIPEGWEWARLEGITTYIQRGKSPKYSLEKKYPVVAQKC-NQWSGFSLERAKFVDPNSVA 164

Query: 77  TV---SIFAKGQILYGKLG-PYLRKAIIAD------FDGICSTQFLVLQPKDVLPELLQG 126
           +     +   G +L+   G   L +  + D         +  +   V++           
Sbjct: 165 SYAEERLLVDGDLLWNSTGLGTLGRMAVYDSNQNPYGWAVADSHVTVIRTVPDWLRYEYA 224

Query: 127 WLLS 130
           +L  
Sbjct: 225 FLYF 228


>gi|307637538|gb|ADN79988.1| typeI restriction-modification system subunit S [Helicobacter
           pylori 908]
          Length = 254

 Score = 40.9 bits (94), Expect = 0.43,   Method: Composition-based stats.
 Identities = 17/127 (13%), Positives = 42/127 (33%), Gaps = 1/127 (0%)

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
           +T      I  +S           N G     Y      D   I            +  +
Sbjct: 7   STNKKTLKISEVSEVKNKGMYPVINSGRDLYGYYHDFNNDGENITIASRGEYAGFINYFN 66

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
            +    G+    Y     + + + +L + +++ ++  +   +  G   +L   D++ L +
Sbjct: 67  EKFFAGGLCYP-YKVKDTNELLTKFLYFYLKTNEIQIMENLVFRGSIPALNKADIETLTI 125

Query: 368 LVPPIKE 374
            +PP++ 
Sbjct: 126 PIPPLEI 132


>gi|76665049|emb|CAJ17967.1| restriction modification enzyme S subunit [Candidatus Phytoplasma
           solani]
          Length = 86

 Score = 40.9 bits (94), Expect = 0.44,   Method: Composition-based stats.
 Identities = 4/66 (6%), Positives = 25/66 (37%), Gaps = 5/66 (7%)

Query: 344 KVFYAMGSGLRQSLKFEDVKRLPVLV-PPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
           ++           ++   +    + + P ++ Q  I + +    + ++  ++   + + L
Sbjct: 17  QLQQLKTGTSVPGIQKPTLLNFKITLTPHLEHQNQIADFL----SLLEQQIKLENELLTL 72

Query: 403 LKERRS 408
            + ++ 
Sbjct: 73  YQTQKK 78


>gi|109947646|ref|YP_664874.1| type I restriction-modification enzyme, S subunit [Helicobacter
           acinonychis str. Sheeba]
 gi|109714867|emb|CAJ99875.1| type I restriction-modification enzyme, S subunit [Helicobacter
           acinonychis str. Sheeba]
          Length = 257

 Score = 40.5 bits (93), Expect = 0.44,   Method: Composition-based stats.
 Identities = 10/77 (12%), Positives = 29/77 (37%), Gaps = 9/77 (11%)

Query: 333 LAWLMRSYDLCKVFYAM---GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA-- 387
           + + +    +      +   G+    S+   D   + + + P++ Q  I   ++V     
Sbjct: 1   MYYYITQDKIVHYLQRIAECGTSSYPSITPLDFLNVKIKLYPLETQQKIARTLSVLDQKV 60

Query: 388 ----RIDVLVEKIEQSI 400
               +I+ L++ +   I
Sbjct: 61  ENNHKINELIQTLAYKI 77



 Score = 37.1 bits (84), Expect = 5.9,   Method: Composition-based stats.
 Identities = 19/181 (10%), Positives = 55/181 (30%), Gaps = 5/181 (2%)

Query: 235 KPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFR 294
              +    +   KN KL +  + +     +++  +         +     +  P  ++  
Sbjct: 75  YKIYEYYFKHKSKNAKLEQIILENPKSSIMVKNAQKTQDKYPFFTSGDNILSYPKALIDG 134

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR 354
                N   +        +   ++    +  +   S YL  L+ S               
Sbjct: 135 RNCFLNTGGNAGIKFYGGKASYSTDTWCICANEF-SDYLYLLLSSIKNHINQSFFQGTSL 193

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAA 414
           + L+ + +K+ P+ +P   E      ++         L+    ++   L++ R   +   
Sbjct: 194 KHLQKKLLKKYPIYMPSKHEIKKFNEIVMPLL----TLISINTRTSKKLEQIRDFLLPLL 249

Query: 415 V 415
           +
Sbjct: 250 L 250


>gi|313892186|ref|ZP_07825779.1| N-6 DNA Methylase [Dialister microaerophilus UPII 345-E]
 gi|313119324|gb|EFR42523.1| N-6 DNA Methylase [Dialister microaerophilus UPII 345-E]
          Length = 594

 Score = 40.5 bits (93), Expect = 0.45,   Method: Composition-based stats.
 Identities = 30/352 (8%), Positives = 92/352 (26%), Gaps = 10/352 (2%)

Query: 57  ESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQP 116
                KY+            +  +F    ++   L    +   I     I +        
Sbjct: 236 NIDFLKYIDSKVPGILKRNMSDWLFNI--LMIHMLKDTGKAVGIMTNGSIWNQMSDCKNA 293

Query: 117 KDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIA 176
           +           +        ++      +            +    +  + + ++    
Sbjct: 294 RKYFLSNGLIEAIIALPANLFKSTSIPTVLIVFSHGNKKIKMIDATSICVENMRQKIFS- 352

Query: 177 ETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDH--WEV 234
            T  I+T+    +   E         +       ++P   +    +   G        ++
Sbjct: 353 -TENIETIYKAYLEETENSIFVNVEDILKDEELNIHPKRYLTHITLPENGKELKTVLTDL 411

Query: 235 KPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGL--KPESYETYQIVDPGEIV 292
                +  +   K      +    +   NI   +    +    K +      I+    ++
Sbjct: 412 YRGSNISAKELDKLKTDKPTLYRYVMLQNINNGMIDEELPYLSKIDEKHEKFIISNRSLI 471

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI-DSTYLAWLMRSYDLCKVFYAMGS 351
                       +     ++     + ++        +  Y+  L  S     +  ++ S
Sbjct: 472 ISKTGPVFKSAVVDVPSNLKILASGNMFILKIDETKANPYYIQALFESSYGKALVSSISS 531

Query: 352 GLRQ-SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
           G    +   + ++ L + +P +++Q +I N        I +   K+E +   
Sbjct: 532 GSVISTFSKKALENLVIPLPALEKQNEIANKYQALQDSIKIYKMKLEDAYDK 583


>gi|268609819|ref|ZP_06143546.1| hypothetical protein RflaF_10017 [Ruminococcus flavefaciens FD-1]
          Length = 184

 Score = 40.5 bits (93), Expect = 0.45,   Method: Composition-based stats.
 Identities = 26/193 (13%), Positives = 61/193 (31%), Gaps = 20/193 (10%)

Query: 27  VVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQI 86
           +  +         R ++       I      +   +++P   ++   D     +    + 
Sbjct: 4   IKRVGELISYVDERNTDGA-----IRDFYGININKEFMPTVASTEGIDARKYKVVRDNRF 58

Query: 87  LYGKLGP----YLRKAIIADFDGICSTQFLVLQPKDV---LPELLQGWLLSIDVTQRIEA 139
           ++  +       +R  +      I S  +   + K+    LPE      LS ++ +    
Sbjct: 59  VFSGMQTGRDKCIRIGLYKGSPIIISPAYTTFEIKNTEIVLPEYFFMQFLSNEMDRYGWF 118

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
           I + +  S+ D      I   +P ++ Q    +        I   I    +    +K+  
Sbjct: 119 ISDSSIRSNLDIDRFEEISFELPDISVQRKYVD--------IYKAIRRVQKLNVKIKDLC 170

Query: 200 QALVSYIVTKGLN 212
             LV   V +G +
Sbjct: 171 PILVRSAVREGRD 183



 Score = 39.4 bits (90), Expect = 1.2,   Method: Composition-based stats.
 Identities = 21/137 (15%), Positives = 44/137 (32%), Gaps = 4/137 (2%)

Query: 249 TKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSA 308
            +  +  I      NI ++        +      Y++V     VF  +    DK      
Sbjct: 16  ERNTDGAIRDFYGININKEFMPTVASTEGIDARKYKVVRDNRFVFSGMQTGRDKCIRIGL 75

Query: 309 QVMERGIITSAYM---AVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQSLKFEDVKR 364
                 II+ AY          +   Y      S ++ +  + +  S +R +L  +  + 
Sbjct: 76  YKGSPIIISPAYTTFEIKNTEIVLPEYFFMQFLSNEMDRYGWFISDSSIRSNLDIDRFEE 135

Query: 365 LPVLVPPIKEQFDITNV 381
           +   +P I  Q    ++
Sbjct: 136 ISFELPDISVQRKYVDI 152


>gi|293115503|ref|ZP_05791811.2| phosphoribosylformylglycinamidine synthase [Butyrivibrio
          crossotus DSM 2876]
 gi|292809622|gb|EFF68827.1| phosphoribosylformylglycinamidine synthase [Butyrivibrio
          crossotus DSM 2876]
          Length = 59

 Score = 40.5 bits (93), Expect = 0.46,   Method: Composition-based stats.
 Identities = 10/58 (17%), Positives = 17/58 (29%), Gaps = 3/58 (5%)

Query: 22 PKHWKVVPIKRFTKLNTGRTSES---GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
          P+ W    +     +  G         K I  I  +++  G   Y      S +   S
Sbjct: 2  PEGWAWCRLNSIVDVRDGTHDTPTYVDKGIPLITSKNLVEGGIDYSNVKYISEKDAIS 59


>gi|325989941|ref|YP_004249640.1| hypothetical protein Msui05930 [Mycoplasma suis KI3806]
 gi|323575026|emb|CBZ40686.1| hypothetical protein, putative HdsS fragment [Mycoplasma suis]
          Length = 82

 Score = 40.5 bits (93), Expect = 0.47,   Method: Composition-based stats.
 Identities = 12/69 (17%), Positives = 30/69 (43%), Gaps = 4/69 (5%)

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
             ++L  + +K + +L+P       I    N     I   +EK+E  +   +E + + + 
Sbjct: 17  AIKNLSPQKLKEIEILIPD----QKILEKFNSFWKNIHSKIEKLELKMQKYEEIKKNLLD 72

Query: 413 AAVTGQIDL 421
           +  + +I +
Sbjct: 73  SLFSQEIQV 81


>gi|260889171|ref|ZP_05900434.1| putative type I restriction modification DNA specificity domain
           protein [Leptotrichia hofstadii F0254]
 gi|260861231|gb|EEX75731.1| putative type I restriction modification DNA specificity domain
           protein [Leptotrichia hofstadii F0254]
          Length = 195

 Score = 40.5 bits (93), Expect = 0.47,   Method: Composition-based stats.
 Identities = 24/185 (12%), Positives = 62/185 (33%), Gaps = 12/185 (6%)

Query: 29  PIKRFTKLN---TGRTSESGKDIIYIGLEDVESGTGKYL-----PKDGNSRQSDTSTVSI 80
            +     +      +T++S    + +    V +G  +       P+   + ++  +    
Sbjct: 2   KLGDNVDIIAPLNVKTADSETGYLLLNPTLVNNGKIESFENAEVPERYKNGKNKINEKYF 61

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGIC--STQFLVLQPKDVLPELLQGWLLSIDVTQRI- 137
             K  +L+   G  +    +         +T + +L+  D +      WLL  ++     
Sbjct: 62  VRKNDVLFQAKGSKIEVVYVDKGYENVLPATLYFILRANDRINPKYLQWLLKTELLLLYF 121

Query: 138 -EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLK 196
            +     + +   +   I  + + +P   EQ  + E I +     +  I       + ++
Sbjct: 122 EKKYKTMSAVRAVNKTDIVELDIDLPDREEQDRMVEIITSFENEEENTIEYLKIKKKYIE 181

Query: 197 EKKQA 201
           EK  A
Sbjct: 182 EKILA 186



 Score = 39.8 bits (91), Expect = 0.97,   Method: Composition-based stats.
 Identities = 17/119 (14%), Positives = 41/119 (34%), Gaps = 3/119 (2%)

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
                   V   +++F+    + +   +           T  ++      I+  YL WL+
Sbjct: 54  NKINEKYFVRKNDVLFQAKGSKIEVVYVDKGYE-NVLPATLYFILRANDRINPKYLQWLL 112

Query: 338 RSYDLCKVFYAM--GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
           ++  L   F          +++   D+  L + +P  +EQ  +  +I       +  +E
Sbjct: 113 KTELLLLYFEKKYKTMSAVRAVNKTDIVELDIDLPDREEQDRMVEIITSFENEEENTIE 171


>gi|329963224|ref|ZP_08300961.1| hypothetical protein HMPREF9446_02554 [Bacteroides fluxus YIT
           12057]
 gi|328528920|gb|EGF55860.1| hypothetical protein HMPREF9446_02554 [Bacteroides fluxus YIT
           12057]
          Length = 129

 Score = 40.5 bits (93), Expect = 0.48,   Method: Composition-based stats.
 Identities = 25/124 (20%), Positives = 44/124 (35%), Gaps = 7/124 (5%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLP--KDGNSRQSDTSTVSIFAKGQ 85
           +P+    K  + R   SG D+  + + + + G        +D      DTS   +  KG 
Sbjct: 2   IPLSELLKQCSDRN-RSGSDLQVLSVSN-KYGFIAQSNQFEDREVASDDTSNYKVVKKGM 59

Query: 86  ILYGKLGPYLRKAII--ADFDGICSTQFLVLQPKDV-LPELLQGWLLSIDVTQRIEAICE 142
             Y      +    +   D +GI S  ++    K   LP  L+ +  S      +    E
Sbjct: 60  FAYNPARINVGSIALYEMDGNGIVSPMYVCFTTKSELLPSYLKYYFASQTFKHEMYKRLE 119

Query: 143 GATM 146
           G+  
Sbjct: 120 GSVR 123


>gi|297487354|ref|XP_002696242.1| PREDICTED: coiled-coil domain containing 40 [Bos taurus]
 gi|296476042|gb|DAA18157.1| coiled-coil domain containing 40 [Bos taurus]
          Length = 1125

 Score = 40.5 bits (93), Expect = 0.49,   Method: Composition-based stats.
 Identities = 9/40 (22%), Positives = 16/40 (40%), Gaps = 3/40 (7%)

Query: 376 FDITNVINVETARIDVLVEKIEQSIVL---LKERRSSFIA 412
             I   ++ E  +++ L+   E  I     L ER+   I 
Sbjct: 676 QKILAELDKEVKKVNDLINNSENEISRRTILIERKQGLIN 715


>gi|329948020|ref|ZP_08294921.1| hypothetical protein HMPREF9056_02839 [Actinomyces sp. oral taxon
           170 str. F0386]
 gi|328523159|gb|EGF50260.1| hypothetical protein HMPREF9056_02839 [Actinomyces sp. oral taxon
           170 str. F0386]
          Length = 60

 Score = 40.5 bits (93), Expect = 0.49,   Method: Composition-based stats.
 Identities = 9/55 (16%), Positives = 22/55 (40%), Gaps = 4/55 (7%)

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE----RRSSFIA 412
           +    V  PPI +Q +I ++++     ++ L   +   I   ++     R   + 
Sbjct: 1   MSDTLVPAPPIDQQREIVHLLDKFDLLVNDLTSGLPAEIEARRKQYEYYRDRLLT 55


>gi|119488029|ref|ZP_01621473.1| hypothetical protein L8106_11547 [Lyngbya sp. PCC 8106]
 gi|119455318|gb|EAW36457.1| hypothetical protein L8106_11547 [Lyngbya sp. PCC 8106]
          Length = 511

 Score = 40.5 bits (93), Expect = 0.51,   Method: Composition-based stats.
 Identities = 28/262 (10%), Positives = 76/262 (29%), Gaps = 18/262 (6%)

Query: 152 KGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLIT--ERIRFIELLKEKKQALV-SYIVT 208
               ++   +     Q  I      +T  I       +   F     E  Q+    +   
Sbjct: 135 FKYRDLLPFVLNDDGQHFIVLDQDQKTQLILQKNGSLKLNSFPFFSVEILQSFQADHPTN 194

Query: 209 KGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKL 268
             L   V  K      +      +  +           ++T+L   +           ++
Sbjct: 195 MSLKNWVYFKTKQHPDIKNFLSDYGFQKISDWALLNRTRSTQLELLSTRDRLLVEAFHQV 254

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
             R+   + +         P ++      LQ  +  + S  ++ + +   A    +    
Sbjct: 255 YRRDRRQQSKGARKCPDPSPEQLQEMLSKLQEHQVIISSEALVFKDLKQVAKQLRQYEVW 314

Query: 329 DSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
            +     +                 R  ++ E   ++ +      EQ +I + ++ + ++
Sbjct: 315 SNRECLEVYNQDKNQYEI-------RPDIQQEYEPQIEI------EQQEIVDFLHQKLSK 361

Query: 389 I--DVLVEKIEQSIVLLKERRS 408
           I    + ++++  I  LK+ R 
Sbjct: 362 ILSQAIQKEVQHKIHKLKKSRK 383


>gi|257078401|ref|ZP_05572762.1| HsdS protein [Enterococcus faecalis JH1]
 gi|256986431|gb|EEU73733.1| HsdS protein [Enterococcus faecalis JH1]
          Length = 249

 Score = 40.5 bits (93), Expect = 0.52,   Method: Composition-based stats.
 Identities = 26/184 (14%), Positives = 59/184 (32%), Gaps = 15/184 (8%)

Query: 23  KHWKVVPIKRFTKL-NTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI- 80
           ++W++  ++   +    G+            +E++ +G+ +YL  +  +      T ++ 
Sbjct: 77  ENWELCKLENIIEKQIKGKAK----------VENLCNGSVEYLDANRLNGGKPIYTKALP 126

Query: 81  -FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEA 139
             ++  I+    G    K     F G+  +     Q K+        +   +D    I  
Sbjct: 127 DVSERDIIILWDGSKAGKVYY-GFKGVLGSTLKAYQLKECANS-QFIYQQLLDNQNNIYN 184

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
                 + H         P+ +    EQ  + + +     RI          I L K   
Sbjct: 185 NYRTPNIPHVVKNFSSIFPIWMTSFEEQSQMADILSNLDNRIILQQNLTDTMISLKKSYL 244

Query: 200 QALV 203
           Q + 
Sbjct: 245 QNMF 248



 Score = 40.2 bits (92), Expect = 0.72,   Method: Composition-based stats.
 Identities = 32/269 (11%), Positives = 88/269 (32%), Gaps = 24/269 (8%)

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
             +       + +    IP   E  L+   +     +ID  +    R ++ LKE K+A +
Sbjct: 1   MKVFGISSSKVLDFTTYIPKNDETKLVSSFL----EKIDYALDLHQRKLDQLKELKKAYL 56

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGN 263
             +  K      +++ +  E    +           ++ +  +   K+      S+ Y +
Sbjct: 57  QLMFPKKDETVPQVRFANFEENWEL------CKLENIIEKQIKGKAKVENLCNGSVEYLD 110

Query: 264 IIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV 323
                  R  G KP   +    V   +I+  +   +  K          +G++ S   A 
Sbjct: 111 A-----NRLNGGKPIYTKALPDVSERDIIILWDGSKAGKVY-----YGFKGVLGSTLKAY 160

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVIN 383
           +     ++   +     +   ++    +     +        P+ +   +EQ  + +++ 
Sbjct: 161 QLKECANSQFIYQQLLDNQNNIYNNYRTPNIPHVVKNFSSIFPIWMTSFEEQSQMADIL- 219

Query: 384 VETARIDVLVEKIEQSIVLLKERRSSFIA 412
              + +D  +   +     +   + S++ 
Sbjct: 220 ---SNLDNRIILQQNLTDTMISLKKSYLQ 245


>gi|195331494|ref|XP_002032436.1| GM23517 [Drosophila sechellia]
 gi|194121379|gb|EDW43422.1| GM23517 [Drosophila sechellia]
          Length = 422

 Score = 40.5 bits (93), Expect = 0.53,   Method: Composition-based stats.
 Identities = 9/35 (25%), Positives = 14/35 (40%)

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
           EQ  I   +      +D L    +Q +  LKE + 
Sbjct: 145 EQQRIAPNVEALDKELDELKRSEQQLLSELKELKK 179


>gi|315196000|gb|EFU26361.1| hypothetical protein CGSSa01_10249 [Staphylococcus aureus subsp.
           aureus CGS01]
          Length = 55

 Score = 40.5 bits (93), Expect = 0.55,   Method: Composition-based stats.
 Identities = 12/39 (30%), Positives = 19/39 (48%), Gaps = 2/39 (5%)

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           Q  I   I+    +ID L+ K  + I LLK+R+   +  
Sbjct: 16  QSKI--KIDNFFNKIDTLILKQGKKIELLKQRKQGLLQK 52


>gi|207108581|ref|ZP_03242743.1| hypothetical protein HpylH_03404 [Helicobacter pylori
           HPKX_438_CA4C1]
          Length = 29

 Score = 40.5 bits (93), Expect = 0.55,   Method: Composition-based stats.
 Identities = 6/25 (24%), Positives = 16/25 (64%)

Query: 362 VKRLPVLVPPIKEQFDITNVINVET 386
           ++++ + +PP+ EQ  I N+++   
Sbjct: 5   MQQIQIPIPPLDEQIAIANILSALD 29


>gi|126661170|ref|ZP_01732247.1| type I restriction-modification enzyme, S subunit, putative
           [Cyanothece sp. CCY0110]
 gi|126617543|gb|EAZ88335.1| type I restriction-modification enzyme, S subunit, putative
           [Cyanothece sp. CCY0110]
          Length = 191

 Score = 40.5 bits (93), Expect = 0.55,   Method: Composition-based stats.
 Identities = 11/144 (7%), Positives = 42/144 (29%), Gaps = 4/144 (2%)

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRF 295
               +++  + ++    ++      Y   I+         K  + +  +     +I+   
Sbjct: 52  KITEIISGQSPQSKFYNKNQQGLPFYQGKIEFGNMYLKEPKTWTTQITKESIKDDILMSV 111

Query: 296 IDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ 355
                      +    ++  I     A++    +              ++       +  
Sbjct: 112 RAPVGSL----NINRFDKICIGRGLAAIRSKAENVFIKYIYYFLLFNPELIVGTEGLIFS 167

Query: 356 SLKFEDVKRLPVLVPPIKEQFDIT 379
           S+  + + ++ + +PP + Q  I 
Sbjct: 168 SISRDQISKISIPLPPKEVQEQII 191


>gi|325911596|ref|ZP_08174004.1| hypothetical protein HMPREF0522_0060 [Lactobacillus iners UPII
           143-D]
 gi|325476582|gb|EGC79740.1| hypothetical protein HMPREF0522_0060 [Lactobacillus iners UPII
           143-D]
          Length = 267

 Score = 40.5 bits (93), Expect = 0.55,   Method: Composition-based stats.
 Identities = 31/198 (15%), Positives = 58/198 (29%), Gaps = 17/198 (8%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNI-LSLSYGNIIQKLETRNMGLKPESYETYQI 285
            +PD W  +    +V+  +       E        Y   IQ  +  N   K     T  +
Sbjct: 76  EIPDSWRTEKLLNIVSWESNSQPPKSEFIYSPKDGYVRFIQNRDYENDSYKTYIPLTNNL 135

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV 345
                     ID   D   +R        +       + P+     Y+   + S  +   
Sbjct: 136 STVNRFDI-LIDKYGDAGVVRYGIEGAFNVALGKINVLYPNCQ--EYVRSFLESDGIYSY 192

Query: 346 FYAMG-SGLRQSLKFEDVKRLPVLVPP----IKEQFDITNVINVETARIDVLVEKIEQSI 400
            +    +  R SL   ++  L +++P     ++ Q DI         +I   +       
Sbjct: 193 LHNSCMASTRASLNESNLDMLNIVIPDENSLLRYQEDI--------HQIRETILLNNSEN 244

Query: 401 VLLKERRSSFIAAAVTGQ 418
             L   R   +   + GQ
Sbjct: 245 QNLISLRDWLLPMLMNGQ 262



 Score = 39.0 bits (89), Expect = 1.5,   Method: Composition-based stats.
 Identities = 32/203 (15%), Positives = 61/203 (30%), Gaps = 10/203 (4%)

Query: 10  YKDSG--VQWIG----AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVE-SGTGK 62
           YK SG  + W       IP  W+   +       +       + I       V       
Sbjct: 60  YKSSGGKMVWNEQLKREIPDSWRTEKLLNIVSWESNSQPPKSEFIYSPKDGYVRFIQNRD 119

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQF-LVLQPKDVLP 121
           Y      +    T+ +S   +  IL  K G      +    +G  +     +        
Sbjct: 120 YENDSYKTYIPLTNNLSTVNRFDILIDKYGDAG--VVRYGIEGAFNVALGKINVLYPNCQ 177

Query: 122 ELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
           E ++ +L S  +   +   C  +T +  +   +  + + IP     +  +E I      I
Sbjct: 178 EYVRSFLESDGIYSYLHNSCMASTRASLNESNLDMLNIVIPDENSLLRYQEDIHQIRETI 237

Query: 182 DTLITERIRFIELLKEKKQALVS 204
               +E    I L       L++
Sbjct: 238 LLNNSENQNLISLRDWLLPMLMN 260


>gi|282849446|ref|ZP_06258831.1| hypothetical protein HMPREF1035_0399 [Veillonella parvula ATCC
           17745]
 gi|282581150|gb|EFB86548.1| hypothetical protein HMPREF1035_0399 [Veillonella parvula ATCC
           17745]
          Length = 583

 Score = 40.5 bits (93), Expect = 0.55,   Method: Composition-based stats.
 Identities = 15/98 (15%), Positives = 40/98 (40%), Gaps = 4/98 (4%)

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVL 368
           ++   + +        +     Y+A    S    +    + SG + +S+  +D+K L + 
Sbjct: 479 IINGNLFSITIAPKYRNLYLLDYIAAFFNSTLGREQIERLASGSVIKSISIKDLKSLAIP 538

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
              I++Q    + +N     I+  +E +++   + +E 
Sbjct: 539 NAAIEQQR---SFLNQTDKIIETRMELLKKLDEVNQEL 573


>gi|170717886|ref|YP_001784940.1| restriction modification system DNA specificity subunit
           [Haemophilus somnus 2336]
 gi|168826015|gb|ACA31386.1| restriction modification system DNA specificity domain [Haemophilus
           somnus 2336]
          Length = 98

 Score = 40.5 bits (93), Expect = 0.55,   Method: Composition-based stats.
 Identities = 14/101 (13%), Positives = 37/101 (36%), Gaps = 8/101 (7%)

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMG-SGLRQ---SLK 358
             ++  ++   G+++  Y   +   ++  +L     +    K     G +G R    ++K
Sbjct: 2   GPIKRNKLGRTGVMSPLYYIFRVTNVEQNFLEIFFETSIWHKFMKENGDNGARADRVAIK 61

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
                 +P+ +P  +EQ  I          +D  +   ++ 
Sbjct: 62  DSLFVEMPISIPQPQEQQKIGTF----FTALDRYITIHQRK 98


>gi|145631983|ref|ZP_01787735.1| putative type I restriction-modification system specificity protein
           [Haemophilus influenzae R3021]
 gi|144982367|gb|EDJ89947.1| putative type I restriction-modification system specificity protein
           [Haemophilus influenzae R3021]
          Length = 61

 Score = 40.5 bits (93), Expect = 0.55,   Method: Composition-based stats.
 Identities = 7/53 (13%), Positives = 21/53 (39%), Gaps = 7/53 (13%)

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVL-------VEKIEQSIVLLKER 406
            ++ L + VP   EQ  I ++++        +       +++ ++     +E 
Sbjct: 1   MIEDLRIPVPSFSEQQSIASILDKFETLTHSITEGLPLAIQQSQKRYEYYREL 53


>gi|183508854|ref|ZP_02958299.1| type I restriction enzyme S protein [Ureaplasma parvum serovar 14
           str. ATCC 33697]
 gi|182675590|gb|EDT87495.1| type I restriction enzyme S protein [Ureaplasma parvum serovar 14
           str. ATCC 33697]
          Length = 431

 Score = 40.5 bits (93), Expect = 0.56,   Method: Composition-based stats.
 Identities = 39/380 (10%), Positives = 99/380 (26%), Gaps = 24/380 (6%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           +   I+   ++  G+            +   +     Y  +  N           F    
Sbjct: 31  EFKKIEYVCEIKRGQVYSKEF------INSNKGNYPVYSSQSLNDGVLGNINKYDFDGEY 84

Query: 86  ILYGKLGPYLRKAIIADFDGICST--QFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEG 143
           + +   G Y             +     L +     L      ++L     + +      
Sbjct: 85  VTWTTDGAYAGTVFYRKGKFSITNVCGILKVFDNSNLNTKYLSFILRKITKKHVNQASGN 144

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALV 203
             +     + I     PI    + V I +K+   T  I+T +   I   +   E  +  +
Sbjct: 145 PKLMSNVMQEIIIPIPPISIQNKIVEILDKLETYTKDINTGLPLEIEQRKKQYEYYRNKL 204

Query: 204 SYIVTKGLNPDVKMKDSGIEWVGLVPD-----HWEVKPFFALVTELNRKNTKLIESNILS 258
                     + ++    I  +  + +     + + K  + +V    +      E     
Sbjct: 205 LDFDNIARERERELSRDYIWTLKNIYEKLVQNNVKYKKLWEIVNFDKKFKGVPKEKQNEI 264

Query: 259 LSYGNIIQKLETRNMGLKPES--------YETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
           LS+ +I      R       +        Y+ Y   +  +    + ++            
Sbjct: 265 LSFKHISANELKRYEKCNFGNVKLLSTGLYDGYIKYNENDNNINYGEIIALPSGGSPIIK 324

Query: 311 MERGII---TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPV 367
              G      +   + K     +    +     +   +         +     ++  L +
Sbjct: 325 YYNGYFIDSLNIIFSQKNKKECNLKFIYYFLIANKMLIEENYRGASVKHPNMIEIIELLI 384

Query: 368 LVPPIKEQFDITNVINVETA 387
            +P I  Q  I  +++   A
Sbjct: 385 PIPHISIQNKIVEILDKLEA 404


>gi|328947968|ref|YP_004365305.1| restriction modification system DNA specificity domain protein
           [Treponema succinifaciens DSM 2489]
 gi|328448292|gb|AEB14008.1| restriction modification system DNA specificity domain protein
           [Treponema succinifaciens DSM 2489]
          Length = 192

 Score = 40.2 bits (92), Expect = 0.58,   Method: Composition-based stats.
 Identities = 15/179 (8%), Positives = 48/179 (26%), Gaps = 11/179 (6%)

Query: 235 KPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFR 294
              F         N      N  +    +++      ++ ++    +    V     +  
Sbjct: 1   MNIFKSEFVEMFGNPIYNSKNFPTKKVIDVVTMQRGYDLPVQDRDSKGKIPVFGSNGILG 60

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKP-------HGIDSTYLAWLMRSYDLCKVFY 347
             +L    + + + +    G +        P       +      + +L    +   +  
Sbjct: 61  NHNLAKMDKGIITGRSGTIGEVYMCETPFWPLNTTLFSNDTHGNNICYLKFLLEFFDLKR 120

Query: 348 AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
                   +L   +     ++  P+  Q      +     +ID     ++Q +  +K+ 
Sbjct: 121 FKSGVGVPTLNRNEFHDEQIIDVPLDLQNQFAAFV----QKIDKSKFVLQQQLQFIKKY 175


>gi|332077302|gb|EGI87764.1| type I restriction modification DNA specificity domain protein
           [Streptococcus pneumoniae GA17545]
          Length = 174

 Score = 40.2 bits (92), Expect = 0.59,   Method: Composition-based stats.
 Identities = 18/169 (10%), Positives = 51/169 (30%), Gaps = 5/169 (2%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V +     L  G+ +    +   +    ++    +       +   + +         
Sbjct: 2   KKVKLGEVLSLKKGKKATVLAEQTTLSQRYIQIDDLRNNNNLKFTESLNMTEAL---PDD 58

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW--LLSIDVTQRIEAICEG 143
           IL    G             + ST  ++ + +    +++  +  +     +Q +     G
Sbjct: 59  ILIAWDGANAGTVGYGLSGAVGSTITVLKKNERYKEKIISDYLGVFLESKSQYLRDHSTG 118

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFI 192
           AT+ H +   + ++ + +  + EQ  I   +      I     +     
Sbjct: 119 ATIPHLNKNILLDLQLELLGIEEQENIICILNTIKRLITKRKFQLDELN 167



 Score = 36.7 bits (83), Expect = 7.3,   Method: Composition-based stats.
 Identities = 23/142 (16%), Positives = 40/142 (28%), Gaps = 5/142 (3%)

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH 326
                N  LK           P +I+  +            +  +   I           
Sbjct: 35  DDLRNNNNLKFTESLNMTEALPDDILIAWDGANAGTVGYGLSGAVGSTITVLKKNERYKE 94

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVET 386
            I S YL   + S     +           L    +  L + +  I+EQ +I  ++N   
Sbjct: 95  KIISDYLGVFLESKS-QYLRDHSTGATIPHLNKNILLDLQLELLGIEEQENIICILNT-- 151

Query: 387 ARIDVLVEKIEQSIVLLKERRS 408
             I  L+ K +  +  L   R 
Sbjct: 152 --IKRLITKRKFQLDELNLTRQ 171


>gi|224373583|ref|YP_002607955.1| putative outer membrane autotransporter barrel domain protein
           [Nautilia profundicola AmH]
 gi|223588577|gb|ACM92313.1| putative outer membrane autotransporter barrel domain protein
           [Nautilia profundicola AmH]
          Length = 1070

 Score = 40.2 bits (92), Expect = 0.59,   Method: Composition-based stats.
 Identities = 27/338 (7%), Positives = 80/338 (23%), Gaps = 19/338 (5%)

Query: 48  IIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYL---RKAIIADFD 104
           I++    D+ +     +         + S+  I  KG I+       +       I +  
Sbjct: 171 ILWNNYGDIRNEGSMEIDNTAIGLNINYSSGKIINKGSIVVSNDTTGIILKENYGIIENT 230

Query: 105 GICSTQFLVLQPKDVLPELLQGWLLSIDVTQ---RIEAICEGATMSHADWKGIGNIPMPI 161
           G   T    +  K+     +   +    +         I       +    G        
Sbjct: 231 GNIYTLGYTIYIKENNNGTILNAVNIPSLNISNTNRNTIFVNNNEGNITNHGTIVSLNEY 290

Query: 162 PPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSG 221
               ++  +   +   T  ID+ ++                            V +  + 
Sbjct: 291 GIKVDEDNMGNVLNDTTGTIDSNLSSIFIGSNNDNNITNNGTLISRNDSGIKVVGVNSNL 350

Query: 222 IEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYE 281
           I+  G +     +         +   +  +I      ++           N G+    + 
Sbjct: 351 IQNSGDINASVGINVGTNDNNGVITNSGNIISDANAGININITNNSGIVTNNGILTSDHN 410

Query: 282 TYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM---- 337
               ++                     Q     I  +  + +K +  D+  + ++     
Sbjct: 411 NSIQIEENSGTVTNNGNITAYIYGIHIQNNNGNITNNGNITIKNYTADNNAIIYVYDNNG 470

Query: 338 ---------RSYDLCKVFYAMGSGLRQSLKFEDVKRLP 366
                     +Y+   +       +  ++    +  + 
Sbjct: 471 TITNNGSMQSTYNSIHIQNNNEGTILNNINSTIIANIK 508


>gi|332522823|ref|ZP_08399075.1| hypothetical protein STRPO_0341 [Streptococcus porcinus str.
           Jelinkova 176]
 gi|332314087|gb|EGJ27072.1| hypothetical protein STRPO_0341 [Streptococcus porcinus str.
           Jelinkova 176]
          Length = 200

 Score = 40.2 bits (92), Expect = 0.60,   Method: Composition-based stats.
 Identities = 29/172 (16%), Positives = 54/172 (31%), Gaps = 6/172 (3%)

Query: 26  KVVPIKRFTKLNTGRTSES---GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFA 82
           K + I    +   G+   S     +   I L D+      Y        +          
Sbjct: 15  KKITIGDVVECFKGKAVSSKVEDGEFALINLSDMSLAGINYQNLRTFHLERRQLLRYFLE 74

Query: 83  KGQILYGKLGPYLRKAIIADFD--GICSTQFLVLQPKDVLPELLQGWLLSIDV-TQRIEA 139
            G +L    G   +  +        + S+   VL+P D L      + L  D+  Q ++ 
Sbjct: 75  DGDVLIASKGTVKKVCVFQKQKREIVASSNITVLRPLDKLRGYYIKFFLDSDIGQQLLDR 134

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
              G  + +   K +  IP+P  PL +Q  +  + +         I    + 
Sbjct: 135 ADHGKDVINLSTKELLEIPVPAMPLVKQDYLISQYLRGLSEYQRKIQRAEQE 186


>gi|212711666|ref|ZP_03319794.1| hypothetical protein PROVALCAL_02741 [Providencia alcalifaciens DSM
           30120]
 gi|212685768|gb|EEB45296.1| hypothetical protein PROVALCAL_02741 [Providencia alcalifaciens DSM
           30120]
          Length = 500

 Score = 40.2 bits (92), Expect = 0.60,   Method: Composition-based stats.
 Identities = 11/34 (32%), Positives = 18/34 (52%)

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            +++     I+  VE IEQ I  L+++R S I  
Sbjct: 462 EILSEHFDNIEQKVEDIEQQIAELEKQRQSLINQ 495


>gi|169825864|ref|YP_001696022.1| hypothetical protein Bsph_0263 [Lysinibacillus sphaericus C3-41]
 gi|168990352|gb|ACA37892.1| hypothetical protein Bsph_0263 [Lysinibacillus sphaericus C3-41]
          Length = 228

 Score = 40.2 bits (92), Expect = 0.64,   Method: Composition-based stats.
 Identities = 25/147 (17%), Positives = 44/147 (29%), Gaps = 10/147 (6%)

Query: 30  IKRFTKLNTGRTSESGK-----DIIYIGLEDVE----SGTGKYLPKDGNSRQSDTSTVSI 80
           ++   K+  G+   S K      I YI  E +           LPK  ++ +   S  S+
Sbjct: 11  LEEIAKIKIGKVVTSKKRFAMDGIPYITEEVLRKLSLEDNTSLLPKVDSTLKEPFS-FSL 69

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
                IL  K+            D   S   + + PK+ +      +          E  
Sbjct: 70  VPAQSILLNKMNLKEAYIYQCKTDVCISHDIMAIIPKESILIGDYLFHFMKWYQNNKERC 129

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQ 167
              + M       I +  + +    EQ
Sbjct: 130 NVYSLMIDLPSIAIQHNVVQLINAVEQ 156


>gi|317494151|ref|ZP_07952567.1| hypothetical protein HMPREF0864_03336 [Enterobacteriaceae bacterium
           9_2_54FAA]
 gi|316917924|gb|EFV39267.1| hypothetical protein HMPREF0864_03336 [Enterobacteriaceae bacterium
           9_2_54FAA]
          Length = 195

 Score = 40.2 bits (92), Expect = 0.65,   Method: Composition-based stats.
 Identities = 23/151 (15%), Positives = 46/151 (30%), Gaps = 12/151 (7%)

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
            +S           +        +    V  G++V     L + K ++ S +   R +  
Sbjct: 40  FMSDCWQPGNTMNGDKEQVVRPTQAVLSVRTGDVVIS---LIHRKAAIVSPEHAGRLLSN 96

Query: 318 SAYMAV-KPHGIDSTYLAWLMRSYDLCKVFYAM---GSGLRQSLKFEDVKRLPVLVPPIK 373
           +          +   +  W        +   A+   GS     L   +V++    +PP+ 
Sbjct: 97  NYVRVEVDSRKVVPAWFVWHFNESRESRRQQALATQGSTFVLRLSLTEVRQFTATLPPLN 156

Query: 374 EQFDIT----NVINVETARIDVLVEKIEQSI 400
           +Q  I       I     + + L    EQ I
Sbjct: 157 KQKAIGGLYLATIEKRHYQ-ERLAALNEQQI 186


>gi|317481748|ref|ZP_07940779.1| type I restriction enzyme [Bifidobacterium sp. 12_1_47BFAA]
 gi|316916805|gb|EFV38196.1| type I restriction enzyme [Bifidobacterium sp. 12_1_47BFAA]
          Length = 153

 Score = 40.2 bits (92), Expect = 0.65,   Method: Composition-based stats.
 Identities = 17/136 (12%), Positives = 42/136 (30%), Gaps = 13/136 (9%)

Query: 25  WKVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           W+   ++       G T             I+++  +DV+    +      + + +  +T
Sbjct: 20  WEQRKLENLASFGGGHTPSMADASNYVDGKILWVTSQDVKQHYIENTTTMISEKGA--AT 77

Query: 78  VSIFAKGQILYGKLGPYLR---KAIIADFDGICSTQFLVLQP-KDVLPELLQGWLLSIDV 133
           ++++    I+       LR              +    V+Q         L  + ++ + 
Sbjct: 78  LTLYPSDSIVIVARSGILRHTIPVAKLRKPATVNQDIKVIQTVDSCDSSWLLQYFIASNK 137

Query: 134 TQRIEAICEGATMSHA 149
           T   E    G T+   
Sbjct: 138 TLLREYGKTGTTVESI 153


>gi|325663164|ref|ZP_08151614.1| hypothetical protein HMPREF0490_02355 [Lachnospiraceae bacterium
           4_1_37FAA]
 gi|325470618|gb|EGC73848.1| hypothetical protein HMPREF0490_02355 [Lachnospiraceae bacterium
           4_1_37FAA]
          Length = 646

 Score = 40.2 bits (92), Expect = 0.66,   Method: Composition-based stats.
 Identities = 13/42 (30%), Positives = 19/42 (45%), Gaps = 4/42 (9%)

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAA 414
           KEQ +I          ++ L +K+EQ    L ER+   I  A
Sbjct: 535 KEQQEIAAY----KREVEALKQKLEQKQERLDERKERIINEA 572


>gi|261344547|ref|ZP_05972191.1| proline permease [Providencia rustigianii DSM 4541]
 gi|282567461|gb|EFB72996.1| proline permease [Providencia rustigianii DSM 4541]
          Length = 500

 Score = 40.2 bits (92), Expect = 0.66,   Method: Composition-based stats.
 Identities = 11/34 (32%), Positives = 18/34 (52%)

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            +++     I+  VE IEQ I  L+++R S I  
Sbjct: 462 EILSEHFDNIEQKVEDIEQQISELEKQRQSLINQ 495


>gi|157804105|ref|YP_001492654.1| NAD-dependent DNA ligase LigA [Rickettsia canadensis str. McKiel]
 gi|157785368|gb|ABV73869.1| NAD-dependent DNA ligase LigA [Rickettsia canadensis str. McKiel]
          Length = 869

 Score = 40.2 bits (92), Expect = 0.66,   Method: Composition-based stats.
 Identities = 38/340 (11%), Positives = 98/340 (28%), Gaps = 16/340 (4%)

Query: 46  KDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFD- 104
           K+   +G ++  +    ++ +  +  +     +       +L  K     R+ I+  F  
Sbjct: 489 KNYTVVGKKNSINSNILFIERYYDLLELGG-KLITVIDDSLLNAKNQASFREWILDRFHI 547

Query: 105 -GICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPP 163
             + S  F          +    +L   +     +     A  ++      GN       
Sbjct: 548 KAVISLPFNAFVNASTTIKTSIIYLEKKEYKSISKNKIFMAICNNVGHDDSGNDTPERNN 607

Query: 164 LAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSY----------IVTKGLNP 213
           L            +    D +I  + +   L    +   + Y                  
Sbjct: 608 LNIVYSKWLDFNKDFSLPDIIIENQNKSELLTCSLQIFSIDYSKMSSKRFDAFFYSPELQ 667

Query: 214 DVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKL-ETRN 272
           ++  K + ++    +    +       V     +N      N + +   N    +  +++
Sbjct: 668 NIYKKINSLDKNKFIIKTSKEFTLQKSVNAKYVQNNFNTIFNYIEVGSCNKKGDIVSSQS 727

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
             L          V   +I+   +        + +  +    + T  ++       +S  
Sbjct: 728 NNLGNLPTRARITVKAFDIITPKLIGCLYSTCIINNDINNSLVSTGFFVFTNLSERNSYL 787

Query: 333 LAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRL-PVLVP 370
           L   +RS  + K FY + S   +  L  E +++   + +P
Sbjct: 788 LWSSLRSELVQKQFYYLSSTAVQPELSKEFLEKYVKIPIP 827


>gi|171920737|ref|ZP_02931947.1| conserved domain protein [Ureaplasma urealyticum serovar 13 str.
           ATCC 33698]
 gi|171903483|gb|EDT49772.1| conserved domain protein [Ureaplasma urealyticum serovar 13 str.
           ATCC 33698]
          Length = 85

 Score = 40.2 bits (92), Expect = 0.67,   Method: Composition-based stats.
 Identities = 8/66 (12%), Positives = 25/66 (37%), Gaps = 7/66 (10%)

Query: 347 YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL-------VEKIEQS 399
           Y   +     L    ++ + + +PP+  Q  I  V++   A  + +       +++ ++ 
Sbjct: 12  YVNQASGNPKLMSNVMQEIVIPIPPLAIQNKIVEVLDKLEAYTENINVGLPLEIKQRKKQ 71

Query: 400 IVLLKE 405
               + 
Sbjct: 72  YEYYRN 77


>gi|237738644|ref|ZP_04569125.1| predicted protein [Fusobacterium sp. 2_1_31]
 gi|229424127|gb|EEO39174.1| predicted protein [Fusobacterium sp. 2_1_31]
          Length = 225

 Score = 40.2 bits (92), Expect = 0.68,   Method: Composition-based stats.
 Identities = 23/184 (12%), Positives = 61/184 (33%), Gaps = 12/184 (6%)

Query: 235 KPFFALVTELNRKNTKLIESNILSLSYGNIIQKLE----TRNMGLKPESYETYQIVDPGE 290
                +  +       ++E+   ++ YG+I +K +         +  E+Y     ++ G+
Sbjct: 30  FNIKYMSKKDIFTKRDIVENGEPAIFYGDISRKYDCFVDEEITKINSEAYNRADKINKGQ 89

Query: 291 IVFRFIDLQNDKRS-LRSAQVMERGIITSAYMA-----VKPHGIDSTYLAWLMRSYDLCK 344
           I+    D   +        +      I                ++  Y+ + +   D+ +
Sbjct: 90  ILVNLEDFDYEDIGRCIFYENDIPAAINGNVAILTLKEKFEDAVNLKYITFYLNYKDIVR 149

Query: 345 VF--YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
            +          + L     + +P+ +P I+ Q  I +       +     E +E++I L
Sbjct: 150 QYVYDKAVGEKVKRLSRLYFEHIPITIPLIERQDKIIDNFIKVRKKFKNDFELLEKAIDL 209

Query: 403 LKER 406
             + 
Sbjct: 210 ANKY 213


>gi|331086755|ref|ZP_08335832.1| hypothetical protein HMPREF0987_02135 [Lachnospiraceae bacterium
           9_1_43BFAA]
 gi|330409921|gb|EGG89356.1| hypothetical protein HMPREF0987_02135 [Lachnospiraceae bacterium
           9_1_43BFAA]
          Length = 790

 Score = 40.2 bits (92), Expect = 0.69,   Method: Composition-based stats.
 Identities = 13/42 (30%), Positives = 19/42 (45%), Gaps = 4/42 (9%)

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAA 414
           KEQ +I          ++ L +K+EQ    L ER+   I  A
Sbjct: 533 KEQQEIAAY----KREVEALKQKLEQKQERLDERKERIINEA 570


>gi|159026445|emb|CAO88957.1| unnamed protein product [Microcystis aeruginosa PCC 7806]
          Length = 85

 Score = 40.2 bits (92), Expect = 0.70,   Method: Composition-based stats.
 Identities = 12/55 (21%), Positives = 29/55 (52%), Gaps = 2/55 (3%)

Query: 333 LAWLMRSYDLCKVFYAMGSG--LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
           +A +   Y   +VF+ + +    +  +  E + +L + +PP+++Q +I+  IN  
Sbjct: 1   MAHIFNLYQHQQVFFKICTNWNNQSGVNVEVLGQLKIPLPPLEKQIEISEHINAI 55


>gi|321262603|ref|XP_003196020.1| ATPase; Ino80p [Cryptococcus gattii WM276]
 gi|317462495|gb|ADV24233.1| ATPase, putative; Ino80p [Cryptococcus gattii WM276]
          Length = 1813

 Score = 40.2 bits (92), Expect = 0.72,   Method: Composition-based stats.
 Identities = 18/84 (21%), Positives = 35/84 (41%), Gaps = 13/84 (15%)

Query: 340  YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP-------IKEQFDITNVINVETARIDVL 392
                K   +   G+  +LK E +KRL +++ P          Q ++ + I      ID+L
Sbjct: 1113 EWFSKDIESSSGGVTGNLKPEQLKRLHMILKPFMLRRVKKHVQKELGDKIE-----IDLL 1167

Query: 393  VEKIEQSIVLLKERRSSF-IAAAV 415
            V+  ++   + K  R    I+  +
Sbjct: 1168 VDLSQRQREIYKALRQRVSISDLL 1191


>gi|213647547|ref|ZP_03377600.1| EcoKI restriction-modification system protein HsdS [Salmonella
          enterica subsp. enterica serovar Typhi str. J185]
          Length = 94

 Score = 40.2 bits (92), Expect = 0.72,   Method: Composition-based stats.
 Identities = 10/47 (21%), Positives = 20/47 (42%), Gaps = 4/47 (8%)

Query: 16 QWIGAIPKHWKVVPIKRFTKL-NTGRTSESGK--DIIYIGLEDVESG 59
          +W G +P+ W    +         G T++S    D+ ++   D+  G
Sbjct: 47 EW-GKLPEGWVTTHLSEICSKPQYGYTTKSSSMGDVKFLRTTDITKG 92


>gi|167751706|ref|ZP_02423833.1| hypothetical protein EUBSIR_02712 [Eubacterium siraeum DSM 15702]
 gi|167655514|gb|EDR99643.1| hypothetical protein EUBSIR_02712 [Eubacterium siraeum DSM 15702]
          Length = 149

 Score = 40.2 bits (92), Expect = 0.74,   Method: Composition-based stats.
 Identities = 15/110 (13%), Positives = 43/110 (39%), Gaps = 5/110 (4%)

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVL 368
           V+E  ++++ +  ++ + +   Y+A  +           +  G  ++++   D+  + +L
Sbjct: 39  VIENSVLSTGFCGLQCNLLSFEYIATFIEHSYFETTKDTLAHGATQEAVNNNDLCNIMLL 98

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQ 418
            P       + N+ + +T  I   +         L + R   +   + GQ
Sbjct: 99  NPS----ERVLNLYHEKTKEIYAQISNNICENQKLSQLRDWLLPMMMNGQ 144


>gi|87161681|ref|YP_492771.1| hypothetical protein SAUSA300_0052 [Staphylococcus aureus subsp.
           aureus USA300_FPR3757]
 gi|161508320|ref|YP_001573979.1| hypothetical protein USA300HOU_0056 [Staphylococcus aureus subsp.
           aureus USA300_TCH1516]
 gi|294850610|ref|ZP_06791335.1| hypothetical protein SKAG_02704 [Staphylococcus aureus A9754]
 gi|87127655|gb|ABD22169.1| hypothetical protein SAUSA300_0052 [Staphylococcus aureus subsp.
           aureus USA300_FPR3757]
 gi|160367129|gb|ABX28100.1| hypothetical protein USA300HOU_0056 [Staphylococcus aureus subsp.
           aureus USA300_TCH1516]
 gi|294822525|gb|EFG38969.1| hypothetical protein SKAG_02704 [Staphylococcus aureus A9754]
          Length = 60

 Score = 40.2 bits (92), Expect = 0.75,   Method: Composition-based stats.
 Identities = 12/39 (30%), Positives = 19/39 (48%), Gaps = 2/39 (5%)

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
           Q  I   I+    +ID L+ K  + I LLK+R+   +  
Sbjct: 21  QSKI--KIDNFFNKIDTLILKQGKKIELLKQRKQGLLQK 57


>gi|289423499|ref|ZP_06425301.1| putative type I restriction system specificity protein
           [Peptostreptococcus anaerobius 653-L]
 gi|289156133|gb|EFD04796.1| putative type I restriction system specificity protein
           [Peptostreptococcus anaerobius 653-L]
          Length = 155

 Score = 39.8 bits (91), Expect = 0.77,   Method: Composition-based stats.
 Identities = 14/102 (13%), Positives = 26/102 (25%), Gaps = 12/102 (11%)

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD---LCKVFYAMGSGLRQ----SLK 358
               + +    +S Y+        S      + + +    C        G          
Sbjct: 53  SPVIIFDDFTTSSHYVDFPFKVKSSAMKLLTLNNPNDNIHCAYNVLQNIGFVPVSHGRHW 112

Query: 359 FEDVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQS 399
                +   L+P    EQ  I        A ID L+   ++ 
Sbjct: 113 ISTFAKFKALLPKSADEQEKIGQY----FANIDNLITLHQRK 150


>gi|284119729|ref|ZP_06386787.1| hypothetical protein POR_1391 [Candidatus Poribacteria sp. WGA-A3]
 gi|283829433|gb|EFC33811.1| hypothetical protein POR_1391 [Candidatus Poribacteria sp. WGA-A3]
          Length = 55

 Score = 39.8 bits (91), Expect = 0.77,   Method: Composition-based stats.
 Identities = 13/23 (56%), Positives = 16/23 (69%)

Query: 400 IVLLKERRSSFIAAAVTGQIDLR 422
           I LL E R+  IAA VTG++D R
Sbjct: 19  IELLHEYRTRLIAAVVTGKLDTR 41


>gi|332749085|gb|EGJ79508.1| hypothetical protein SFK671_5129 [Shigella flexneri K-671]
          Length = 63

 Score = 39.8 bits (91), Expect = 0.79,   Method: Composition-based stats.
 Identities = 11/41 (26%), Positives = 17/41 (41%)

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
              L  +    + V +PP  EQ  I + IN   A  + L+ 
Sbjct: 1   MPKLNSDSFYNIIVAIPPYNEQQAIFDKINSIEAVCNGLIS 41


>gi|312277796|gb|ADQ62453.1| hypothetical protein STND_0386 [Streptococcus thermophilus ND03]
          Length = 42

 Score = 39.8 bits (91), Expect = 0.79,   Method: Composition-based stats.
 Identities = 7/31 (22%), Positives = 16/31 (51%)

Query: 385 ETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
              ++D  +   ++ + LLKE++  F+   V
Sbjct: 2   FFEQLDNTITLHQRKLDLLKEQKKGFLQKMV 32


>gi|309800155|ref|ZP_07694341.1| type I restriction-modification enzyme 1, S subunit [Streptococcus
           infantis SK1302]
 gi|308116202|gb|EFO53692.1| type I restriction-modification enzyme 1, S subunit [Streptococcus
           infantis SK1302]
          Length = 164

 Score = 39.8 bits (91), Expect = 0.79,   Method: Composition-based stats.
 Identities = 26/160 (16%), Positives = 52/160 (32%), Gaps = 5/160 (3%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQ 85
           K V +     L  G+ ++            ++      L  D N + +D+  ++      
Sbjct: 2   KKVKLGEVISLKKGKKADIHTLQTSQSKRYIQ---IDDLRNDDNLKFTDSLNITEVLPED 58

Query: 86  ILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW--LLSIDVTQRIEAICEG 143
           IL    G             I ST  ++ Q +    ++L  +  L     +Q +     G
Sbjct: 59  ILIAWDGANAGTIGYGLSGAIGSTITVLKQNEYYKDKILSDYLALFLESKSQYLRDRATG 118

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDT 183
           AT+ H +   + N+ + +     Q  I   +      I  
Sbjct: 119 ATIPHLNKNILLNLQLELLHPEFQDNIVNTLNIIKRVIAK 158


>gi|149199878|ref|ZP_01876907.1| hypothetical protein LNTAR_25430 [Lentisphaera araneosa HTCC2155]
 gi|149137049|gb|EDM25473.1| hypothetical protein LNTAR_25430 [Lentisphaera araneosa HTCC2155]
          Length = 194

 Score = 39.8 bits (91), Expect = 0.81,   Method: Composition-based stats.
 Identities = 11/92 (11%), Positives = 33/92 (35%), Gaps = 5/92 (5%)

Query: 293 FRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHG---IDSTYLAWLMRSYD--LCKVFY 347
             FI   +   ++ + ++    +++  ++ ++ +    I   YL W +         +  
Sbjct: 67  IAFISRGHHNYAVCAKEIKLPTVLSQHFIHIRVNDTSKILPEYLTWFLNVSYSAKKHLLK 126

Query: 348 AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT 379
           A       ++    ++ + +  P I  Q  I 
Sbjct: 127 ASQGSALPTITRAMMEAMLIETPSIAMQEKIV 158


>gi|327390255|gb|EGE88596.1| type I restriction-modification system, S subunit [Streptococcus
           pneumoniae GA04375]
          Length = 163

 Score = 39.8 bits (91), Expect = 0.83,   Method: Composition-based stats.
 Identities = 15/79 (18%), Positives = 28/79 (35%), Gaps = 1/79 (1%)

Query: 20  AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLP-KDGNSRQSDTSTV 78
            IP  W+ V IK           E     I     D +     Y   +  +  Q+ +   
Sbjct: 83  DIPDTWEWVRIKSIYWNFGQNKPEKSFRYIDTSSIDRKKNIINYKNLQYLSPEQAPSRAR 142

Query: 79  SIFAKGQILYGKLGPYLRK 97
            + ++  +L+  + PYL+ 
Sbjct: 143 KLVSQNSVLFSTVRPYLKI 161


>gi|126656152|ref|ZP_01727536.1| hypothetical protein CY0110_03679 [Cyanothece sp. CCY0110]
 gi|126622432|gb|EAZ93138.1| hypothetical protein CY0110_03679 [Cyanothece sp. CCY0110]
          Length = 301

 Score = 39.8 bits (91), Expect = 0.84,   Method: Composition-based stats.
 Identities = 11/78 (14%), Positives = 23/78 (29%), Gaps = 17/78 (21%)

Query: 343 CKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK----------------EQFDITNVINVET 386
            +         + +L  + ++     +PP                  EQ +I        
Sbjct: 85  REKQRLEAQKTQLNLSLQKLQSYQ-PLPPTAPNLPPTIKALPLNSYLEQEEIVEKEKTAI 143

Query: 387 ARIDVLVEKIEQSIVLLK 404
             I+  +E  E+ I  L+
Sbjct: 144 TSIESQIEVKEKEIKYLQ 161


>gi|307255314|ref|ZP_07537126.1| Type I restriction-modification system S subunit [Actinobacillus
           pleuropneumoniae serovar 9 str. CVJ13261]
 gi|306861701|gb|EFM93683.1| Type I restriction-modification system S subunit [Actinobacillus
           pleuropneumoniae serovar 9 str. CVJ13261]
          Length = 144

 Score = 39.8 bits (91), Expect = 0.88,   Method: Composition-based stats.
 Identities = 20/141 (14%), Positives = 42/141 (29%), Gaps = 10/141 (7%)

Query: 27  VVPIKRFTKLNTG------RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDT---ST 77
            V ++   +  +       +  +    I YI  +D     G          + D    S 
Sbjct: 2   WVRLEDVCQEISDIDHKMPQEYKGKNGIPYISPKDFYDKNGIDFANAKKVSEEDYFLLSK 61

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDG-ICSTQFLVLQPKDVLPELLQGWLLSIDVTQR 136
                K  I++ + G      II +    + S     ++ + +  + +  +L S      
Sbjct: 62  KFAPQKNDIIFPRYGTIGVVRIIEENIKLLVSYSCACIRVEYINMQYVVAYLNSELAKLE 121

Query: 137 IEAICEGATMSHADWKGIGNI 157
           I+      T  +   K I   
Sbjct: 122 IKKYTNKTTQPNVGLKSIKKF 142


>gi|241760457|ref|ZP_04758550.1| periplasmic protein [Neisseria flavescens SK114]
 gi|241318961|gb|EER55463.1| periplasmic protein [Neisseria flavescens SK114]
          Length = 251

 Score = 39.8 bits (91), Expect = 0.89,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
             +  E +    +  P + EQ  I + + ++ AR++  VE++ Q +  L+++R
Sbjct: 37  PDIPREPLHEKNIPYPRLDEQTQI-DHLGIQIARLERTVEELNQRLHTLEQQR 88


>gi|295107663|emb|CBL05206.1| Restriction endonuclease S subunits [Gordonibacter pamelaeae
           7-10-1-b]
          Length = 77

 Score = 39.8 bits (91), Expect = 0.92,   Method: Composition-based stats.
 Identities = 7/32 (21%), Positives = 14/32 (43%)

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
                 + +    + VPPI+ Q +I  V++  
Sbjct: 1   MPRGDKKAIMDFYIPVPPIEVQEEIVRVLDSF 32


>gi|185178705|ref|ZP_02964523.1| conserved domain protein [Ureaplasma urealyticum serovar 5 str.
           ATCC 27817]
 gi|188024399|ref|ZP_02997061.1| conserved domain protein [Ureaplasma urealyticum serovar 7 str.
           ATCC 27819]
 gi|189009914|ref|ZP_02557182.2| conserved domain protein [Ureaplasma urealyticum serovar 11 str.
           ATCC 33695]
 gi|195867464|ref|ZP_03079468.1| conserved domain protein [Ureaplasma urealyticum serovar 9 str.
           ATCC 33175]
 gi|195869030|ref|ZP_03080021.1| conserved domain protein [Ureaplasma urealyticum serovar 12 str.
           ATCC 33696]
 gi|198273548|ref|ZP_03206084.1| conserved domain protein [Ureaplasma urealyticum serovar 4 str.
           ATCC 27816]
 gi|209554226|ref|YP_002284520.1| type I restriction modification DNA specificity family protein
           [Ureaplasma urealyticum serovar 10 str. ATCC 33699]
 gi|225551480|ref|ZP_03772426.1| conserved domain protein [Ureaplasma urealyticum serovar 8 str.
           ATCC 27618]
 gi|184209298|gb|EDU06341.1| conserved domain protein [Ureaplasma urealyticum serovar 5 str.
           ATCC 27817]
 gi|188018670|gb|EDU56710.1| conserved domain protein [Ureaplasma urealyticum serovar 7 str.
           ATCC 27819]
 gi|188997680|gb|EDU66777.1| conserved domain protein [Ureaplasma urealyticum serovar 11 str.
           ATCC 33695]
 gi|195659816|gb|EDX53196.1| conserved domain protein [Ureaplasma urealyticum serovar 12 str.
           ATCC 33696]
 gi|195660940|gb|EDX54193.1| conserved domain protein [Ureaplasma urealyticum serovar 9 str.
           ATCC 33175]
 gi|198250068|gb|EDY74848.1| conserved domain protein [Ureaplasma urealyticum serovar 4 str.
           ATCC 27816]
 gi|209541727|gb|ACI59956.1| type I restriction modification DNA specificity family protein
           [Ureaplasma urealyticum serovar 10 str. ATCC 33699]
 gi|225379295|gb|EEH01660.1| conserved domain protein [Ureaplasma urealyticum serovar 8 str.
           ATCC 27618]
          Length = 85

 Score = 39.8 bits (91), Expect = 0.92,   Method: Composition-based stats.
 Identities = 9/66 (13%), Positives = 25/66 (37%), Gaps = 7/66 (10%)

Query: 347 YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL-------VEKIEQS 399
           Y   +     L    ++ + V +PP+  Q  I  V++   A  + +       +++ ++ 
Sbjct: 12  YVNQASGNPKLMSNVMQEIVVPIPPLAIQNKIVEVLDKLEAYTENINVGLPLEIKQRKKQ 71

Query: 400 IVLLKE 405
               + 
Sbjct: 72  YEYYRN 77


>gi|162661179|gb|EDQ48693.1| predicted protein [Physcomitrella patens subsp. patens]
          Length = 866

 Score = 39.8 bits (91), Expect = 0.95,   Method: Composition-based stats.
 Identities = 10/44 (22%), Positives = 19/44 (43%), Gaps = 7/44 (15%)

Query: 383 NVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
                 ++ L  + +Q +  L+E+R   I  A       RGE++
Sbjct: 731 EKLRQEMEQLRSRHQQELEKLEEQRDRLIEKA-------RGEAK 767


>gi|270651511|ref|ZP_06222246.1| putative type I restriction-modification system, S subunit
          [Haemophilus influenzae HK1212]
 gi|270317139|gb|EFA28758.1| putative type I restriction-modification system, S subunit
          [Haemophilus influenzae HK1212]
          Length = 58

 Score = 39.8 bits (91), Expect = 0.98,   Method: Composition-based stats.
 Identities = 12/56 (21%), Positives = 23/56 (41%), Gaps = 7/56 (12%)

Query: 23 KHWKVVPIKRFTKLNTGRTSESGK-------DIIYIGLEDVESGTGKYLPKDGNSR 71
           +WKV+ +     +  G T  S K       +I +I  +D+     +Y+ K   + 
Sbjct: 2  SNWKVMKLSEVATIVGGGTPSSSKSEYFENGNIPWITPKDLSGYNKRYISKGERNI 57


>gi|315650992|ref|ZP_07904029.1| conserved hypothetical protein [Eubacterium saburreum DSM 3986]
 gi|315486748|gb|EFU77093.1| conserved hypothetical protein [Eubacterium saburreum DSM 3986]
          Length = 170

 Score = 39.4 bits (90), Expect = 0.99,   Method: Composition-based stats.
 Identities = 27/137 (19%), Positives = 49/137 (35%), Gaps = 6/137 (4%)

Query: 50  YIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDG---I 106
           Y+ + DV    GK  PK  + +    +   +  KG +L  K+ P      I + D    +
Sbjct: 2   YVEIGDVNVSDGKISPKLIDEKDLPANAKILPQKGDLLVSKVRPNRGAISIIEEDYSNLV 61

Query: 107 CSTQFLVLQPKDVLPELL---QGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPP 163
            S  F VL+ K      +   +  L +   +  +     G +      + I ++P+PI  
Sbjct: 62  VSGAFAVLREKKESDYRVETLKTLLRTPIYSDWLLKFNVGTSYPVITDEDILSLPIPIIK 121

Query: 164 LAEQVLIREKIIAETVR 180
              +  I   I      
Sbjct: 122 SNVEDEIASYIKQSMEY 138


>gi|228994626|ref|ZP_04154450.1| Type I restriction-modification system specificity subunit
           [Bacillus pseudomycoides DSM 12442]
 gi|228765111|gb|EEM13841.1| Type I restriction-modification system specificity subunit
           [Bacillus pseudomycoides DSM 12442]
          Length = 170

 Score = 39.4 bits (90), Expect = 0.99,   Method: Composition-based stats.
 Identities = 23/151 (15%), Positives = 52/151 (34%), Gaps = 24/151 (15%)

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
           I + + R++ +  E  +   + D   +V   +     K      Q     +  +      
Sbjct: 19  ISQEKDRSIYVNKEKIKQEVLTDTESLVLHTL---TQKVVWFPPQFEGLLLTNNFMKISF 75

Query: 325 PHGIDSTYLAWLMR-SYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
              +D  ++ WL      + K         +  SLK  +VK + +++P +++Q  I    
Sbjct: 76  FEKVDVHFMEWLFNEHPSIQKQIALFTEGSIISSLKLSNVKEIELVLPNVEKQTVIG--- 132

Query: 383 NVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
                            I  LK+R+++ +  
Sbjct: 133 ----------------KIAQLKKRKTALLKE 147


>gi|296110703|ref|YP_003621084.1| Type I restriction-modification system specificity subunit
           [Leuconostoc kimchii IMSNU 11154]
 gi|295832234|gb|ADG40115.1| Type I restriction-modification system specificity subunit
           [Leuconostoc kimchii IMSNU 11154]
          Length = 199

 Score = 39.4 bits (90), Expect = 1.0,   Method: Composition-based stats.
 Identities = 18/133 (13%), Positives = 52/133 (39%), Gaps = 2/133 (1%)

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKP 325
            ++E   +    ++ +T ++ +  +++   I   + K S++    +            + 
Sbjct: 48  SEIEDSAVEKTIKTEDTVEVAEENDMIISLISATSAKVSVQHQGYLISQNYVKLVPIDEN 107

Query: 326 HGIDSTYLAWLMRSYDLCKVF-YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
              ++  +  L  S+ + K     +       +    +K L + + PI++Q  I      
Sbjct: 108 IIDENYVIYLLNESHLVKKQLARQLQGSNFVKVTIAILKNLEIPMIPIEKQRQIGKWYMK 167

Query: 385 ETARIDVLVEKIE 397
            T R++ L +++E
Sbjct: 168 -TNRLNTLRQRVE 179


>gi|157159784|ref|YP_001457102.1| DNA methylase family protein [Escherichia coli HS]
 gi|157065464|gb|ABV04719.1| putative DNA Methylase family [Escherichia coli HS]
          Length = 402

 Score = 39.4 bits (90), Expect = 1.0,   Method: Composition-based stats.
 Identities = 27/228 (11%), Positives = 62/228 (27%), Gaps = 5/228 (2%)

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
               G      +   I  +      + ++   +  I+    +I      ++  I    E 
Sbjct: 171 RKFIGLRRYLLNEHSITKVIELPRNIFKRTEAKTHILIFNKKIMPHHKIQLHCITKDGEL 230

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
              ++          D     +  E  G       +    ++                 +
Sbjct: 231 SPPVLIRKEDAVERMDYSYHYNKNE--GKGFSTIGMLKNISIFRGRFNSKEITEHVFHTT 288

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
              G+        N   + +  +   I  PG+I+   +     K+ L          I+ 
Sbjct: 289 KFSGDEKYIKFHCNSVEELKPSKLDVIAKPGDILIARVGRNFHKKIL--FVESGYSYISD 346

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRL 365
               ++  G D   L   + S D  +      SG   Q +  + +K++
Sbjct: 347 CIFLIRASGGDKKKLFDFLCSQDGQEELSRASSGVAAQHITMDALKKI 394


>gi|309355870|emb|CAP38120.2| hypothetical protein CBG_21263 [Caenorhabditis briggsae AF16]
          Length = 541

 Score = 39.4 bits (90), Expect = 1.1,   Method: Composition-based stats.
 Identities = 26/230 (11%), Positives = 64/230 (27%), Gaps = 16/230 (6%)

Query: 189 IRFIELLKEKKQALVSYIVTK--GLNPDVKMKDSGIEWVGLVPDHWEVKP-FFALVTELN 245
            R + L  +  Q   +       G   +     + IE  G                  L 
Sbjct: 305 CRLLVLWTKNDQKDDAESFKWILGNTKECPKCQAPIEKNGGCNHMTCNNKSCRHEFCWLC 364

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDL--QNDKR 303
             N    +   + ++ G+  ++    N+         Y        +   ++    + + 
Sbjct: 365 MGNWIGHQQCNVFVATGDSNREKTLANLQRFEFFKTRYLGHQQSLKLENDVNTLRTDIRH 424

Query: 304 SLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVK 363
            +R  +              K     +     LM SY          +     L   D++
Sbjct: 425 KMRQLKEFFDLTTFQVIYLEKALNALTECRRTLMYSYIFAYYLEPNLNSKIFQLNQRDLE 484

Query: 364 RLPVLVPPIKEQFDITNVINVETAR--IDVLVEKIEQSIVLLKERRSSFI 411
                     EQ   + ++  +     ++ L +++ +    +++RR S +
Sbjct: 485 SAT-------EQL--SEILERKLEEDDLESLKQRVTEKYQYVEQRRQSLL 525


>gi|303243810|ref|ZP_07330150.1| restriction modification system DNA specificity domain protein
           [Methanothermococcus okinawensis IH1]
 gi|302485746|gb|EFL48670.1| restriction modification system DNA specificity domain protein
           [Methanothermococcus okinawensis IH1]
          Length = 106

 Score = 39.4 bits (90), Expect = 1.1,   Method: Composition-based stats.
 Identities = 14/103 (13%), Positives = 27/103 (26%), Gaps = 10/103 (9%)

Query: 28  VPIKRFTK-LNTGRTSESGKDIIY-------IGLEDV--ESGTGKYLPKDGNSRQSDTST 77
           V +    + +  G T        +       + + D+   +       +         S+
Sbjct: 2   VRLGDIAEKIKAGGTPLRKNKEYWENGTINLVKISDITKSNKYLLDTEEKITENGLKNSS 61

Query: 78  VSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVL 120
             +  +G IL    G      I      I      +L  KD  
Sbjct: 62  AWLVNEGSILLSMYGTVGEVVINKIPVAITQNIAGILLKKDNN 104


>gi|257438271|ref|ZP_05614026.1| putative toxin-antitoxin system, toxin component [Faecalibacterium
           prausnitzii A2-165]
 gi|257199348|gb|EEU97632.1| putative toxin-antitoxin system, toxin component [Faecalibacterium
           prausnitzii A2-165]
          Length = 108

 Score = 39.4 bits (90), Expect = 1.1,   Method: Composition-based stats.
 Identities = 11/91 (12%), Positives = 29/91 (31%), Gaps = 8/91 (8%)

Query: 333 LAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
           L +      + ++ +     +  ++   D     ++     +      V       I   
Sbjct: 19  LVYFYTLKAVDRLKHKASGAVFDAITTRDFDSEQIMKLSDDDAKAFLCVAEPMFQEI--- 75

Query: 393 VEKIEQSIVLLK--ERRSSFIAAAVTGQIDL 421
              +  SI  L+    R   +   ++G+ID+
Sbjct: 76  ---LNNSIENLRLSTLRDFLLPKLMSGEIDV 103


>gi|257421716|ref|ZP_05598706.1| predicted protein [Enterococcus faecalis X98]
 gi|257163540|gb|EEU93500.1| predicted protein [Enterococcus faecalis X98]
          Length = 146

 Score = 39.4 bits (90), Expect = 1.1,   Method: Composition-based stats.
 Identities = 11/95 (11%), Positives = 37/95 (38%), Gaps = 6/95 (6%)

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITN 380
           + + P          L+   ++ K      +G+  +++ +++   P+ +   + Q     
Sbjct: 57  VVIIPQNGIEPKYFNLILQRNVDKFIAKYATGI--NIQEKEIGNFPIELFNRETQKAFVR 114

Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           +++  T      +   E  + + KE + +F+   +
Sbjct: 115 MMDHITDE----IATAENELTIYKEMKRAFLGDLM 145


>gi|37680386|ref|NP_934995.1| type I restriction-modification system methyltransferase subunit
           [Vibrio vulnificus YJ016]
 gi|37199133|dbj|BAC94966.1| type I restriction-modification system methyltransferase subunit
           [Vibrio vulnificus YJ016]
          Length = 638

 Score = 39.4 bits (90), Expect = 1.1,   Method: Composition-based stats.
 Identities = 9/70 (12%), Positives = 27/70 (38%), Gaps = 4/70 (5%)

Query: 332 YLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDV 391
           YL +L       ++        ++ +    +  + V +P +++Q +    ++     I+ 
Sbjct: 552 YLPYLAHVLKSLELNNLATGTAQKFISINKLYEVEVSLPSLEKQRE----MSEWFTSIEE 607

Query: 392 LVEKIEQSIV 401
              KI+  + 
Sbjct: 608 SKSKIQSLLA 617



 Score = 36.3 bits (82), Expect = 8.8,   Method: Composition-based stats.
 Identities = 19/148 (12%), Positives = 44/148 (29%), Gaps = 14/148 (9%)

Query: 27  VVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQI 86
            V +K   KL +G      +         ++SG       +G    +            I
Sbjct: 467 QVKLKDICKLRSGDKLNKSE--------VMDSGEFPVYGGNGVIGFNVEPNR---HGDSI 515

Query: 87  LYGKLGPYLRKAII-ADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGAT 145
           + GK+G +            + S    +        ++   +L  +  +  +  +  G  
Sbjct: 516 VIGKVGAHCGNIHFSTQPYWLTSNAMSLELLDTT--KVYLPYLAHVLKSLELNNLATGTA 573

Query: 146 MSHADWKGIGNIPMPIPPLAEQVLIREK 173
                   +  + + +P L +Q  + E 
Sbjct: 574 QKFISINKLYEVEVSLPSLEKQREMSEW 601


>gi|319777295|ref|YP_004136946.1| type i restriction-modification system, s subunit [Mycoplasma
           fermentans M64]
 gi|318038370|gb|ADV34569.1| Type I restriction-modification system, S subunit [Mycoplasma
           fermentans M64]
          Length = 170

 Score = 39.4 bits (90), Expect = 1.1,   Method: Composition-based stats.
 Identities = 20/157 (12%), Positives = 50/157 (31%), Gaps = 4/157 (2%)

Query: 237 FFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFI 296
                 ++  K  K     I S +  N    L   ++ L        +++   +IV    
Sbjct: 11  ISYDKNDILTKMDKNYIRIIRSGNIQNSRLILFDDDIFLPVFYKNNIKMLHYNDIVIMAS 70

Query: 297 DLQNDKRSLRSA--QVMERGIITSAYMAVKPHGIDST-YLAWLMRSYDLCKVFYAMGSGL 353
               +     +   + ++   I +    ++P+  +   YL  +  S           +G 
Sbjct: 71  TGSKNLIGKPAFVEEQLDNVYIGAFLRIIRPNINNIFDYLKLIFMSEYYRSEIRKNVNGT 130

Query: 354 -RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARI 389
              ++    +  + + +P IK +  I+  I      +
Sbjct: 131 NINNVNSNILLNMLIPIPSIKNERKISKKIYQVLNIL 167


>gi|237721652|ref|ZP_04552133.1| type I restriction enzyme EcoEI specificity protein [Bacteroides
           sp. 2_2_4]
 gi|229449448|gb|EEO55239.1| type I restriction enzyme EcoEI specificity protein [Bacteroides
           sp. 2_2_4]
          Length = 159

 Score = 39.4 bits (90), Expect = 1.2,   Method: Composition-based stats.
 Identities = 11/137 (8%), Positives = 35/137 (25%), Gaps = 2/137 (1%)

Query: 242 TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQND 301
            +  +K         L    G    ++ ++                          +   
Sbjct: 11  MKEWKKYKIGDVFAYLKSGKGIHANEISSKGEYPVYGGNGVRGYTTRNNFEGNCAIIGRQ 70

Query: 302 KRSLRSAQVME-RGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFE 360
                + +  + +  +T   +    +  +ST     +    +  +    G   +  L   
Sbjct: 71  GAFCGNVRYFKRKAYMTEHAIIAVANENNSTRFLSYLL-GIIMNLGRFSGQSAQPGLSVT 129

Query: 361 DVKRLPVLVPPIKEQFD 377
           ++ +  + VP +  Q  
Sbjct: 130 ELAKQSITVPSLSVQKR 146


>gi|319638157|ref|ZP_07992920.1| periplasmic protein [Neisseria mucosa C102]
 gi|317400430|gb|EFV81088.1| periplasmic protein [Neisseria mucosa C102]
          Length = 251

 Score = 39.4 bits (90), Expect = 1.2,   Method: Composition-based stats.
 Identities = 12/54 (22%), Positives = 29/54 (53%), Gaps = 1/54 (1%)

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
             +  E +    +  P + EQ  I + + ++ AR++  VE++ Q +  L+++R+
Sbjct: 37  PDIPREPLPEKNIPYPRLDEQTQI-DHLGIQIARLERTVEELNQRLHTLEQQRT 89


>gi|53729156|ref|ZP_00348330.1| COG0732: Restriction endonuclease S subunits [Actinobacillus
           pleuropneumoniae serovar 1 str. 4074]
          Length = 114

 Score = 39.4 bits (90), Expect = 1.2,   Method: Composition-based stats.
 Identities = 7/107 (6%), Positives = 33/107 (30%), Gaps = 6/107 (5%)

Query: 311 MERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP 370
               +  ++ +        S    ++  +  +  +        +  +   ++  + +++P
Sbjct: 6   PYSFVTNNSLVIEHSKSFLS--YFYIYEALRIQTLVELTTGSAQPQMTIANMNPVQIILP 63

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
                  I N+   +   +   + +       L++ R   +   + G
Sbjct: 64  T----DKIHNLYTSQVKYLYEKIYRNNLENEQLEKIRDELLPKLLNG 106


>gi|301633184|gb|ADK86738.1| conserved hypothetical protein [Mycoplasma pneumoniae FH]
          Length = 65

 Score = 39.4 bits (90), Expect = 1.2,   Method: Composition-based stats.
 Identities = 10/45 (22%), Positives = 22/45 (48%)

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
           +  + +  PP++ Q  I +++       + LVE I   I + K++
Sbjct: 1   MAEIELSFPPLEIQEKIADILFAFEKLCNDLVEGIPAEIEMRKKQ 45


>gi|332076343|gb|EGI86806.1| type I restriction enzyme EcoKI specificity [Streptococcus
           pneumoniae GA41301]
          Length = 163

 Score = 39.4 bits (90), Expect = 1.2,   Method: Composition-based stats.
 Identities = 10/103 (9%), Positives = 29/103 (28%), Gaps = 7/103 (6%)

Query: 281 ETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA----VKPHGIDSTYLAWL 336
                +   +++                     G++   ++      +   I S +L + 
Sbjct: 61  SEQVYLKHNQLITPVSTSLEHIGKFARIDKDYDGVVAGGFIFQLTPFESSEIISKFLLFN 120

Query: 337 MRSYDLCKVFY---AMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
           + S    K       +      ++    +  L + + P +EQ 
Sbjct: 121 LSSPLFYKQLKAITKLSGQALYNIPKTTLSELLIPLAPFEEQE 163



 Score = 37.5 bits (85), Expect = 4.3,   Method: Composition-based stats.
 Identities = 19/102 (18%), Positives = 36/102 (35%), Gaps = 11/102 (10%)

Query: 24  HWKVVPIKRFTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +W V+ IK    +NTG + +        K +  I   +++      L  D        S+
Sbjct: 2   NWVVIKIKDIFSMNTGLSYKKGDLSINNKGVRIIRGGNIKPLEFSLLDNDYYIDTQFISS 61

Query: 78  VSIFAKGQILYGKLGPYLRKAIIA-----DFDGICSTQFLVL 114
             ++ K   L   +   L           D+DG+ +  F+  
Sbjct: 62  EQVYLKHNQLITPVSTSLEHIGKFARIDKDYDGVVAGGFIFQ 103


>gi|58266666|ref|XP_570489.1| hypothetical protein [Cryptococcus neoformans var. neoformans JEC21]
 gi|134110324|ref|XP_775989.1| hypothetical protein CNBD0390 [Cryptococcus neoformans var.
            neoformans B-3501A]
 gi|74685408|sp|Q5KHM0|INO80_CRYNE RecName: Full=Putative DNA helicase INO80
 gi|50258657|gb|EAL21342.1| hypothetical protein CNBD0390 [Cryptococcus neoformans var.
            neoformans B-3501A]
 gi|57226722|gb|AAW43182.1| conserved hypothetical protein [Cryptococcus neoformans var.
            neoformans JEC21]
          Length = 1765

 Score = 39.4 bits (90), Expect = 1.2,   Method: Composition-based stats.
 Identities = 18/84 (21%), Positives = 34/84 (40%), Gaps = 13/84 (15%)

Query: 340  YDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP-------IKEQFDITNVINVETARIDVL 392
                K   +   G+  +LK E +KRL +++ P          Q ++ + I      ID+L
Sbjct: 1065 EWFSKDIESSSGGVTGNLKPEQLKRLHMILKPFMLRRVKKHVQKELGDKIE-----IDLL 1119

Query: 393  VEKIEQSIVLLKERRSSF-IAAAV 415
            V+  ++   + K  R    I   +
Sbjct: 1120 VDLSQRQREIYKALRQRVSITDLL 1143


>gi|332362405|gb|EGJ40205.1| hypothetical protein HMPREF9393_0203 [Streptococcus sanguinis
          SK1056]
          Length = 56

 Score = 39.4 bits (90), Expect = 1.3,   Method: Composition-based stats.
 Identities = 10/31 (32%), Positives = 18/31 (58%)

Query: 10 YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGR 40
           K+SG+ WIG IP+ W+V  +    + +  +
Sbjct: 4  MKESGIDWIGQIPEEWEVAKVNHIFEEHKQK 34


>gi|288802386|ref|ZP_06407826.1| hypothetical protein HMPREF0660_00831 [Prevotella melaninogenica
           D18]
 gi|288335353|gb|EFC73788.1| hypothetical protein HMPREF0660_00831 [Prevotella melaninogenica
           D18]
          Length = 459

 Score = 39.4 bits (90), Expect = 1.3,   Method: Composition-based stats.
 Identities = 22/201 (10%), Positives = 64/201 (31%), Gaps = 28/201 (13%)

Query: 232 WEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEI 291
           W             R     + + I  +    +++        +     + Y  V  G++
Sbjct: 45  WGENGLVEEAYHGPRAKRNYLPTGIPFIGSSEMLEVKPNPTKFVDKSFLDNYG-VRRGQV 103

Query: 292 VFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGS 351
           +            +   + +E   ++   + +  +     Y+   + +     +  +   
Sbjct: 104 LLSCSGTIGRTSFV--NRTLEGYCVSQHALKITANYA--GYVYAYLSTEVGKSIVKSFTY 159

Query: 352 GLR-QSLKFEDVKRLPVLVPPIKEQFD------ITNVINVETARIDVLVEKIEQSIVLLK 404
           G     ++ E +K LP+   P +E         I +       + + L+++ +Q      
Sbjct: 160 GAVIDEIEPEHLKNLPIPNAP-EEIKRSIHNAVIASY--DLRDQSNDLIDEAQQ------ 210

Query: 405 ERRSSFIAAAVT--GQIDLRG 423
                 +  A++  G++DL+ 
Sbjct: 211 -----LLYEALSLPGKMDLKP 226


>gi|313893238|ref|ZP_07826814.1| type I restriction modification DNA specificity domain protein
           [Veillonella sp. oral taxon 158 str. F0412]
 gi|313442217|gb|EFR60633.1| type I restriction modification DNA specificity domain protein
           [Veillonella sp. oral taxon 158 str. F0412]
          Length = 185

 Score = 39.4 bits (90), Expect = 1.3,   Method: Composition-based stats.
 Identities = 12/117 (10%), Positives = 42/117 (35%), Gaps = 3/117 (2%)

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
             + L   +  + +I   G +++       +   L+      + I+       K   +  
Sbjct: 1   EFITLDGLNNSSAKIFPKGTLLYTIFATIGEVAILKMDAATNQAIVGIQLKENKKVYLKY 60

Query: 331 TYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETA 387
            Y     ++ ++ ++   +    + ++    VK + + +  +++Q +I   +N    
Sbjct: 61  IYYYLKSQTNNIKQLGRGVA---QNNINLSVVKNMIIPIVSLEKQSNIIATLNKLEK 114



 Score = 37.1 bits (84), Expect = 5.2,   Method: Composition-based stats.
 Identities = 26/143 (18%), Positives = 52/143 (36%), Gaps = 2/143 (1%)

Query: 66  KDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQ 125
           +       + S+  IF KG +LY  +   + +  I   D   +   + +Q K+     L+
Sbjct: 1   EFITLDGLNNSSAKIFPKGTLLYT-IFATIGEVAILKMDAATNQAIVGIQLKENKKVYLK 59

Query: 126 GWLLSIDVT-QRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTL 184
                +      I+ +  G   ++ +   + N+ +PI  L +Q  I   +          
Sbjct: 60  YIYYYLKSQTNNIKQLGRGVAQNNINLSVVKNMIIPIVSLEKQSNIIATLNKLEKIKGNR 119

Query: 185 ITERIRFIELLKEKKQALVSYIV 207
           IT      +L+K +   L    V
Sbjct: 120 ITILNCLDDLIKSRFVELFGDPV 142


>gi|289164609|ref|YP_003454747.1| coiled-coil protein [Legionella longbeachae NSW150]
 gi|288857782|emb|CBJ11626.1| putative coiled-coil protein [Legionella longbeachae NSW150]
          Length = 2937

 Score = 39.0 bits (89), Expect = 1.3,   Method: Composition-based stats.
 Identities = 16/82 (19%), Positives = 29/82 (35%), Gaps = 24/82 (29%)

Query: 360  EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS----------IVLLKERRS- 408
             ++    + +  I EQ  I+  I    ++I  + E I +           I   +ERR  
Sbjct: 2709 TNLDEFFIAL--INEQSRISKNIEDIRSKIHNIEELIHKQENEIFETGSRIKAAQERRQQ 2766

Query: 409  ---------SFIAAAV--TGQI 419
                     S ++  V   G+I
Sbjct: 2767 PDCGYIESASLMSQVVYHQGKI 2788


>gi|332768709|gb|EGJ98888.1| hypothetical protein SF293071_0004 [Shigella flexneri 2930-71]
 gi|333009035|gb|EGK28491.1| hypothetical protein SFK218_0154 [Shigella flexneri K-218]
 gi|333022346|gb|EGK41584.1| hypothetical protein SFK304_0028 [Shigella flexneri K-304]
          Length = 74

 Score = 39.0 bits (89), Expect = 1.3,   Method: Composition-based stats.
 Identities = 11/41 (26%), Positives = 17/41 (41%)

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
              L  +    + V +PP  EQ  I + IN   A  + L+ 
Sbjct: 12  MPKLNSDSFYNIIVAIPPYNEQQAIFDKINSIEAVCNGLIS 52


>gi|50086401|ref|YP_047911.1| putative restriction-modification system [Acinetobacter sp. ADP1]
 gi|49532377|emb|CAG70089.1| conserved hypothetical protein; putative restriction-modification
           system [Acinetobacter sp. ADP1]
          Length = 197

 Score = 39.0 bits (89), Expect = 1.3,   Method: Composition-based stats.
 Identities = 18/146 (12%), Positives = 51/146 (34%), Gaps = 12/146 (8%)

Query: 269 ETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
           + + + L+       Q +    ++         +  +   Q +++  +++ ++ V  +  
Sbjct: 46  DDQLVDLEWSYDSKPQYLKHNSLIVVARG--EPRAYVFKGQQVDQVAVSNQFIVVNLNID 103

Query: 329 D--STYLAWLMR-SYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITNVINV 384
           +    +LAW    S  +   F     G     L    +K   +++P + +Q +I  +   
Sbjct: 104 NIKPEFLAWYFNHSQAMRSYFEMNSRGSLLMMLSISTLKEAEIVIPSMFQQEEILRLAEE 163

Query: 385 ETARIDVLVEKIEQSIVLLK-ERRSS 409
                      I + +  L+ E   +
Sbjct: 164 AHNE-----ALIFKQLTALRAEYNQA 184


>gi|123468897|ref|XP_001317664.1| hypothetical protein [Trichomonas vaginalis G3]
 gi|121900403|gb|EAY05441.1| hypothetical protein TVAG_197420 [Trichomonas vaginalis G3]
          Length = 1033

 Score = 39.0 bits (89), Expect = 1.3,   Method: Composition-based stats.
 Identities = 9/59 (15%), Positives = 23/59 (38%), Gaps = 4/59 (6%)

Query: 360 EDVKRLPVLVPPIKE----QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAA 414
           E +      +  +KE    Q      +  E    D  ++++++ +  LK ++ + I   
Sbjct: 860 EIIDNYEKAIESLKENSENQRQTIEKLTNEIKTFDAKIKELQKQLSKLKRKKKTLIEEV 918


>gi|297625331|ref|YP_003687094.1| methylase_S, type I restriction enzyme [Propionibacterium
           freudenreichii subsp. shermanii CIRM-BIA1]
 gi|296921096|emb|CBL55643.1| Methylase_S, type I restriction enzyme [Propionibacterium
           freudenreichii subsp. shermanii CIRM-BIA1]
          Length = 92

 Score = 39.0 bits (89), Expect = 1.3,   Method: Composition-based stats.
 Identities = 5/27 (18%), Positives = 14/27 (51%)

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETA 387
            + +  + +PP+  Q +I  +++  T 
Sbjct: 1   MILKFQIPLPPLVVQHEIVKILDTFTN 27


>gi|313890119|ref|ZP_07823754.1| conserved hypothetical protein [Streptococcus pseudoporcinus SPIN
           20026]
 gi|313121480|gb|EFR44584.1| conserved hypothetical protein [Streptococcus pseudoporcinus SPIN
           20026]
          Length = 198

 Score = 39.0 bits (89), Expect = 1.4,   Method: Composition-based stats.
 Identities = 25/168 (14%), Positives = 51/168 (30%), Gaps = 6/168 (3%)

Query: 30  IKRFTKLNTGR---TSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQI 86
           +    +   G+   +     +   I L D+      Y        +           G +
Sbjct: 18  LGEVVECFKGKAVSSKVGDGEFALINLSDMTLAGINYQNLRTFHLERRQLLRYFLEDGDV 77

Query: 87  LYGKLGPYLRKAIIADFD--GICSTQFLVLQPKDVLPELLQGWLLSIDV-TQRIEAICEG 143
           L    G   +  +        + S+   VL+P D L      + L  D+    ++    G
Sbjct: 78  LIASKGTVKKVCVFQKQKREVVASSNITVLRPLDKLRGYYIKFFLDSDIGQGLLDRADHG 137

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRF 191
             + +   K +  IP+P  PL +Q  +  + +         I    + 
Sbjct: 138 KDVINLSTKELLEIPVPAMPLVKQDYLINQYLRGLSEYQRKIKRAEQE 185


>gi|330937287|gb|EGH41298.1| Type I restriction enzyme (modification subunit) [Pseudomonas
           syringae pv. pisi str. 1704B]
          Length = 223

 Score = 39.0 bits (89), Expect = 1.5,   Method: Composition-based stats.
 Identities = 21/173 (12%), Positives = 53/173 (30%), Gaps = 8/173 (4%)

Query: 233 EVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIV 292
             +        +  K   + E     +    +I+     ++            +   ++V
Sbjct: 42  HFEIIRPRQHHMGLKGVPVEEVQAQDIPSFGLIRHATMLSVHDLDGPNSFDYFLKAKDVV 101

Query: 293 FRFIDLQNDKRSLRSAQVMERGII----TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA 348
                       +  A +   G      + A +  +     +  L   +RS         
Sbjct: 102 ICIKGAIGRVGCISKAPLPGPGGWVSGQSVAVLRSRGTDYAAHALMMYLRSPKGQAALRR 161

Query: 349 MGSGL-RQSLKFEDVKRLPVLVPPIKEQFDIT-NVINVETARIDVLVEKIEQS 399
           +  G    +++ + +K   + +     Q D+   V+  ET  ID  +E+++Q 
Sbjct: 162 LVVGTSTPTIQAKALKGFQIPILT-AVQSDMALEVLEAETD-IDYQIEQLQQK 212


>gi|330997645|ref|ZP_08321490.1| hypothetical protein HMPREF9442_02590 [Paraprevotella xylaniphila YIT
            11841]
 gi|329570173|gb|EGG51913.1| hypothetical protein HMPREF9442_02590 [Paraprevotella xylaniphila YIT
            11841]
          Length = 1053

 Score = 39.0 bits (89), Expect = 1.5,   Method: Composition-based stats.
 Identities = 13/77 (16%), Positives = 28/77 (36%), Gaps = 4/77 (5%)

Query: 333  LAWLM--RSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINV--ETAR 388
            L +L+   +  +         G    +  E ++ LP+ VP  + Q  I  +         
Sbjct: 973  LYYLLGILNSSMADQLLTDQRGGDYHIYPEHIRNLPIPVPQREIQNAIGEIAKQILLIRE 1032

Query: 389  IDVLVEKIEQSIVLLKE 405
             +    ++E+ +  L E
Sbjct: 1033 TNTDYSELEEQLNNLVE 1049


>gi|309810128|ref|ZP_07703974.1| conserved hypothetical protein [Lactobacillus iners SPIN 2503V10-D]
 gi|308169627|gb|EFO71674.1| conserved hypothetical protein [Lactobacillus iners SPIN 2503V10-D]
          Length = 230

 Score = 39.0 bits (89), Expect = 1.5,   Method: Composition-based stats.
 Identities = 31/198 (15%), Positives = 58/198 (29%), Gaps = 17/198 (8%)

Query: 227 LVPDHWEVKPFFALVTELNRKNTKLIESNI-LSLSYGNIIQKLETRNMGLKPESYETYQI 285
            +PD W  +    +V+  +       E        Y   IQ  +  N   K     T  +
Sbjct: 39  EIPDSWRTEKLLNIVSWESNSQPPKSEFIYSPKDGYVRFIQNRDYENDSYKTYIPLTNNL 98

Query: 286 VDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKV 345
                     ID   D   +R        +       + P+     Y+   + S  +   
Sbjct: 99  STVNRFDI-LIDKYGDAGVVRYGIEGAFNVALGKINVLYPNCQ--EYVRSFLESDGIYSY 155

Query: 346 FYAMG-SGLRQSLKFEDVKRLPVLVPP----IKEQFDITNVINVETARIDVLVEKIEQSI 400
            +    +  R SL   ++  L +++P     ++ Q DI         +I   +       
Sbjct: 156 LHNSCMASTRASLNESNLDMLNIVIPDENSLLRYQEDI--------HQIRETILLNNSEN 207

Query: 401 VLLKERRSSFIAAAVTGQ 418
             L   R   +   + GQ
Sbjct: 208 QNLISLRDWLLPMLMNGQ 225



 Score = 37.5 bits (85), Expect = 3.8,   Method: Composition-based stats.
 Identities = 32/203 (15%), Positives = 61/203 (30%), Gaps = 10/203 (4%)

Query: 10  YKDSG--VQWIG----AIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVE-SGTGK 62
           YK SG  + W       IP  W+   +       +       + I       V       
Sbjct: 23  YKSSGGKMVWNEQLKREIPDSWRTEKLLNIVSWESNSQPPKSEFIYSPKDGYVRFIQNRD 82

Query: 63  YLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQF-LVLQPKDVLP 121
           Y      +    T+ +S   +  IL  K G      +    +G  +     +        
Sbjct: 83  YENDSYKTYIPLTNNLSTVNRFDILIDKYGDAG--VVRYGIEGAFNVALGKINVLYPNCQ 140

Query: 122 ELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRI 181
           E ++ +L S  +   +   C  +T +  +   +  + + IP     +  +E I      I
Sbjct: 141 EYVRSFLESDGIYSYLHNSCMASTRASLNESNLDMLNIVIPDENSLLRYQEDIHQIRETI 200

Query: 182 DTLITERIRFIELLKEKKQALVS 204
               +E    I L       L++
Sbjct: 201 LLNNSENQNLISLRDWLLPMLMN 223


>gi|148978192|ref|ZP_01814722.1| putative specificity protein s [Vibrionales bacterium SWAT-3]
 gi|145962614|gb|EDK27890.1| putative specificity protein s [Vibrionales bacterium SWAT-3]
          Length = 139

 Score = 39.0 bits (89), Expect = 1.5,   Method: Composition-based stats.
 Identities = 18/138 (13%), Positives = 44/138 (31%), Gaps = 7/138 (5%)

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYD--LCK 344
           +PG+ +   +    ++      Q  +    ++ +  + P     + L +L  + D  + +
Sbjct: 2   NPGDTIVGTVRP-GNRSFAYIGQTEQPLTGSTGFAVLTPKEEFWSSLVYLATTNDDSIDE 60

Query: 345 VFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLK 404
                  G   ++K   V      +P       I       T  +     +       L 
Sbjct: 61  YARLADGGAYPAIKPAVVAETECAIPTGD----IAKKFWEITGPMLKKANQNRLENEELA 116

Query: 405 ERRSSFIAAAVTGQIDLR 422
             R + +   ++G I+L 
Sbjct: 117 ALRDTLLPKLLSGDIELP 134


>gi|300704795|ref|YP_003746398.1| hypothetical protein RCFBP_20620 [Ralstonia solanacearum CFBP2957]
 gi|299072459|emb|CBJ43807.1| conserved protein of unknown function [Ralstonia solanacearum
           CFBP2957]
          Length = 34

 Score = 39.0 bits (89), Expect = 1.5,   Method: Composition-based stats.
 Identities = 6/32 (18%), Positives = 15/32 (46%)

Query: 390 DVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           D  + ++E  +   ++     +   +TG+I L
Sbjct: 2   DTEIAELEAKLAKARDVEQGMMQQLLTGKIRL 33


>gi|320536512|ref|ZP_08036542.1| conserved domain protein [Treponema phagedenis F0421]
 gi|320146638|gb|EFW38224.1| conserved domain protein [Treponema phagedenis F0421]
          Length = 549

 Score = 39.0 bits (89), Expect = 1.5,   Method: Composition-based stats.
 Identities = 40/359 (11%), Positives = 90/359 (25%), Gaps = 49/359 (13%)

Query: 24  HWKVVPIKRFT-KLNTGRTSESGK----DIIYIGLEDVESGTGKYLPKDGNSRQSDTSTV 78
            WK         K+  G+          +I YI    + +G   ++   GN R+      
Sbjct: 204 EWKAFKFNEIFRKIKRGKRLTKANQITGNIPYISSTALNNGIDNFIKNSGNVRKG----- 258

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
               K  +     G          ++ I S     LQ  +                    
Sbjct: 259 ----KNALTVANSGSV-GSCFYHCYEYIASDHVTSLQASNAD------------------ 295

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
                             +   I  L E+     +I  E ++ + +I    +      E 
Sbjct: 296 ------------KYIYLFMSTIIKRLEEKYSFNREINDERIKAEKIILPIDKNGNPHWEY 343

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
               +  +  + ++  +      I  V    +        +   E   ++   I+S    
Sbjct: 344 MSKFMQKLEVEKISNFLPYIYIYIYKVACSIEKTVYNITSSKWQEFWIEDICTIKSGQRL 403

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
           +     +  +              +       +    + +  +   + +     + I + 
Sbjct: 404 VKAQQQMGTIPFIGASDSDNGITAFISNINSSVDKNVLGVNYNGSVVHNFYHPYKCIFSD 463

Query: 319 AYMAVKPHGID-STYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQF 376
               +            +L     L +       G       E +KR  +++P I EQ 
Sbjct: 464 DVKRLHFKCTPAKNEATYLFLKQALLQQKGKYTYG--YKFTGERMKRQKIILP-ITEQQ 519


>gi|296110698|ref|YP_003621079.1| type I restriction enzyme specificity protein [Leuconostoc kimchii
           IMSNU 11154]
 gi|295832229|gb|ADG40110.1| type I restriction enzyme specificity protein [Leuconostoc kimchii
           IMSNU 11154]
          Length = 198

 Score = 39.0 bits (89), Expect = 1.5,   Method: Composition-based stats.
 Identities = 18/123 (14%), Positives = 44/123 (35%), Gaps = 7/123 (5%)

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK--PHGI 328
                  + + T + +  G+++F       +   +      ++ I++   +A    P  I
Sbjct: 59  YGDSKLYDKWMTGKELYQGQVLFTTEAPMGNVAQVP---DDKKYILSQRVIAFNTLPDKI 115

Query: 329 DSTYLAWLMRSYD-LCKVFYAMGSGLRQSLKFEDVKRLPVLVPP-IKEQFDITNVINVET 386
              +LA L+ +     K+      G  + +  + + +L V +   + EQ  I        
Sbjct: 116 TDDFLAILLSTPLTFTKLHSLASGGTAKGVSQKSLSQLRVSISTYLNEQTKIGAFFKTLD 175

Query: 387 ARI 389
            +I
Sbjct: 176 QQI 178


>gi|294783677|ref|ZP_06749001.1| conserved hypothetical protein [Fusobacterium sp. 1_1_41FAA]
 gi|294480555|gb|EFG28332.1| conserved hypothetical protein [Fusobacterium sp. 1_1_41FAA]
          Length = 746

 Score = 39.0 bits (89), Expect = 1.6,   Method: Composition-based stats.
 Identities = 29/192 (15%), Positives = 58/192 (30%), Gaps = 27/192 (14%)

Query: 243 ELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK 302
           E  R   K     +      + +   +     LK       + +   E +      ++ K
Sbjct: 552 EEYRATEKTSNIYLSISDINDGLIDFKNIETYLKNIPENQEKFLVKNEYILLSKYGKSPK 611

Query: 303 RSLRSAQVMERGIITSAYMAV--KPHGIDSTYLAWLMRSYDLCKVFYAMGSGL------- 353
            ++      E+ I++   + +      ID  YLA L  S    K+     S         
Sbjct: 612 LAIVKNLGEEKVIVSGNLIIIEVDKKEIDPYYLAALFSSKKGIKILKEAYSNKDKAKAKE 671

Query: 354 --------------RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID----VLVEK 395
                           +L  + +K L + +P  +   +I          I+     L E 
Sbjct: 672 KDKEKDKEKDKDKENATLSIKKLKDLRIPIPSREICIEIALKYERILNEINKNKLKLKEL 731

Query: 396 IEQSIVLLKERR 407
           I+    +LK+ +
Sbjct: 732 IDSKEEILKKLK 743


>gi|257125801|ref|YP_003163915.1| restriction modification system DNA specificity domain protein
           [Leptotrichia buccalis C-1013-b]
 gi|257049740|gb|ACV38924.1| restriction modification system DNA specificity domain protein
           [Leptotrichia buccalis C-1013-b]
          Length = 195

 Score = 39.0 bits (89), Expect = 1.6,   Method: Composition-based stats.
 Identities = 25/193 (12%), Positives = 61/193 (31%), Gaps = 16/193 (8%)

Query: 29  PIKRFTKLN---TGRTSESGKDIIYIGLEDVESGTGKYLPK-----DGNSRQSDTSTVSI 80
            +     +      +T++S      +    V +G  +            + ++  +    
Sbjct: 2   KLGDNVDIIAPLNVKTADSETGYFLLNPTMVNNGKIETFDYAEVPDRYKNGKNKIADKYF 61

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGIC--STQFLVLQPKDVLPELLQGWLLSIDVT--QR 136
             K  +L+   G  +    +         ST + +L+P + +      WLL  ++     
Sbjct: 62  IKKDDVLFQAKGSKIDVVYVDKDYERVLPSTLYFILRPNEKINPKYLQWLLKTELVLLYF 121

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKI----IAETVRIDTLITERIRFI 192
            +      T+   +   I  + + +P    Q  + + I      E   +  L  +R    
Sbjct: 122 EKKYKTMGTVRAVNKGDIVELRVKMPEREVQDEMAKIITSFEDEEYSTMKYLKIKRKYIE 181

Query: 193 ELLKEKKQALVSY 205
           E + E  Q ++  
Sbjct: 182 ERVIENNQVIIDE 194



 Score = 37.5 bits (85), Expect = 3.9,   Method: Composition-based stats.
 Identities = 21/132 (15%), Positives = 55/132 (41%), Gaps = 5/132 (3%)

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPH-GIDSTYLAWL 336
                   +   +++F+    + D   +   +  ER + ++ Y  ++P+  I+  YL WL
Sbjct: 54  NKIADKYFIKKDDVLFQAKGSKIDVVYV--DKDYERVLPSTLYFILRPNEKINPKYLQWL 111

Query: 337 MRSYDLCKVFYAM--GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
           +++  +   F       G  +++   D+  L V +P  + Q ++  +I          ++
Sbjct: 112 LKTELVLLYFEKKYKTMGTVRAVNKGDIVELRVKMPEREVQDEMAKIITSFEDEEYSTMK 171

Query: 395 KIEQSIVLLKER 406
            ++     ++ER
Sbjct: 172 YLKIKRKYIEER 183


>gi|333012194|gb|EGK31576.1| hypothetical protein SFK227_5288 [Shigella flexneri K-227]
          Length = 74

 Score = 39.0 bits (89), Expect = 1.6,   Method: Composition-based stats.
 Identities = 11/41 (26%), Positives = 17/41 (41%)

Query: 354 RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVE 394
              L  +    + V +PP  EQ  I + IN   A  + L+ 
Sbjct: 12  MPKLNSDSFYNIIVAIPPYNEQQAIFDKINSIEAVCNGLIS 52


>gi|227508547|ref|ZP_03938596.1| possible type I site-specific deoxyribonuclease specificity subunit
           [Lactobacillus brevis subsp. gravesensis ATCC 27305]
 gi|227191879|gb|EEI71946.1| possible type I site-specific deoxyribonuclease specificity subunit
           [Lactobacillus brevis subsp. gravesensis ATCC 27305]
          Length = 196

 Score = 39.0 bits (89), Expect = 1.6,   Method: Composition-based stats.
 Identities = 20/172 (11%), Positives = 49/172 (28%), Gaps = 15/172 (8%)

Query: 239 ALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQI----VDPGEIVFR 294
                   ++  L   N+L L  GN+ +              +  Q+    ++ G+ V  
Sbjct: 11  DRGHNYPHESNFLESGNVLFLDTGNVKKNGFNFETQKYISDQKDKQLKNGKLNVGDFVLT 70

Query: 295 FIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF------YA 348
                 +      +   +   I      +      S +L+ L     L            
Sbjct: 71  SRGTLGNVAYYDKSISQKFPEIRINSAMLILRKESSQHLSNLFLESSLRGKIIDNFMRND 130

Query: 349 MGSGLRQSLKFEDVKRLPVLVPPI-KEQFDITNVINVETARIDVLVEKIEQS 399
                +  +  +D  ++ + +P +  EQ  +  +       I +L+    + 
Sbjct: 131 HVGSAQPHITKKDFSKVKLNIPQLWMEQDKVGKI----FQNIFILIAANLRQ 178


>gi|24215294|ref|NP_712775.1| flagellar protein FlbB [Leptospira interrogans serovar Lai str.
           56601]
 gi|45657266|ref|YP_001352.1| flagellar protein B [Leptospira interrogans serovar Copenhageni
           str. Fiocruz L1-130]
 gi|24196391|gb|AAN49793.1| flagellar protein FlbB [Leptospira interrogans serovar Lai str.
           56601]
 gi|45600504|gb|AAS69989.1| flagellar protein B [Leptospira interrogans serovar Copenhageni
           str. Fiocruz L1-130]
          Length = 215

 Score = 39.0 bits (89), Expect = 1.6,   Method: Composition-based stats.
 Identities = 10/42 (23%), Positives = 16/42 (38%), Gaps = 3/42 (7%)

Query: 375 QFDITNVINVETARIDVLVE---KIEQSIVLLKERRSSFIAA 413
           Q      ++    R   L+    K+E  +  L+E R   IA 
Sbjct: 69  QERFAEELDELEKRKSELIAEKGKLEAEMEKLEEMRKGLIAK 110


>gi|317481751|ref|ZP_07940782.1| type I restriction enzyme [Bifidobacterium sp. 12_1_47BFAA]
 gi|316916808|gb|EFV38199.1| type I restriction enzyme [Bifidobacterium sp. 12_1_47BFAA]
          Length = 165

 Score = 39.0 bits (89), Expect = 1.7,   Method: Composition-based stats.
 Identities = 13/120 (10%), Positives = 33/120 (27%), Gaps = 12/120 (10%)

Query: 25  WKVVPIKRFTKLNTGRTSES-------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           W+   ++       G T             I+++  +DV+    +      + + +  +T
Sbjct: 47  WEQRKLENLASFGGGHTPSMADASNYVDGKILWVTSQDVKQHYIENTTTMISEKGA--AT 104

Query: 78  VSIFAKGQILYGKLGPYLR---KAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVT 134
           ++++    I+       LR              +    V+Q  D                
Sbjct: 105 LTLYPSDSIVIVARSGILRHTIPVAKLRKPATVNQDIKVIQTVDSCDSSWLLQYFIASNK 164


>gi|298480706|ref|ZP_06998902.1| type IIS restriction endonuclease [Bacteroides sp. D22]
 gi|298273140|gb|EFI14705.1| type IIS restriction endonuclease [Bacteroides sp. D22]
          Length = 1053

 Score = 39.0 bits (89), Expect = 1.7,   Method: Composition-based stats.
 Identities = 12/65 (18%), Positives = 25/65 (38%), Gaps = 6/65 (9%)

Query: 332  YLAWLM--RSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDIT----NVINVE 385
             L +L+   +  +     A   G    +  E ++ LP+ VP  + Q  I      +++  
Sbjct: 972  NLYYLLGILNSSMANQLLADQRGGDYHIYPEHIRNLPIPVPQREVQNAIGVIAKEILHRR 1031

Query: 386  TARID 390
               +D
Sbjct: 1032 EENLD 1036


>gi|153868189|ref|ZP_01998243.1| hypothetical protein BGS_0658 [Beggiatoa sp. SS]
 gi|152144491|gb|EDN71757.1| hypothetical protein BGS_0658 [Beggiatoa sp. SS]
          Length = 75

 Score = 39.0 bits (89), Expect = 1.7,   Method: Composition-based stats.
 Identities = 9/51 (17%), Positives = 20/51 (39%)

Query: 347 YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
            A    ++ +L    ++ L ++ PP K Q      ++      D   + +E
Sbjct: 12  QANTGAVQTNLTIPVIESLQIICPPPKIQNKFVQKVHQSYTLKDESKDLLE 62


>gi|270601342|ref|ZP_06221556.1| restriction modification enzyme Cj1051c [Haemophilus influenzae
           HK1212]
 gi|270318268|gb|EFA29451.1| restriction modification enzyme Cj1051c [Haemophilus influenzae
           HK1212]
          Length = 53

 Score = 39.0 bits (89), Expect = 1.7,   Method: Composition-based stats.
 Identities = 10/55 (18%), Positives = 25/55 (45%), Gaps = 4/55 (7%)

Query: 359 FEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
               + L + +P + EQ  I N IN     I+  + ++E+ +   ++ + + +  
Sbjct: 1   ISFYEDLEISLPDLNEQQSIVNQIN----EIETQISELEKVLENSRQEKKAVLDK 51


>gi|325990090|ref|YP_004249789.1| hypothetical protein Msui07450 [Mycoplasma suis KI3806]
 gi|323575175|emb|CBZ40838.1| hypothetical protein Msui07450 [Mycoplasma suis]
          Length = 112

 Score = 38.6 bits (88), Expect = 1.7,   Method: Composition-based stats.
 Identities = 17/96 (17%), Positives = 38/96 (39%), Gaps = 6/96 (6%)

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKV--FYAMGSGLRQSLKFEDVKRLPVLVPPIKE 374
           ++    V    I    L +L++      +  FY   SG  + LK + +  L +++P    
Sbjct: 9   SNNCFVVFDKRIKKFSLLYLLQEAIKINLENFYKEDSGGIKHLKSKKLSELKIIIPD--- 65

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
                   N     I + +E ++++I  L+  ++  
Sbjct: 66  -NKTLEKFNEICENIQLKIENLQKNIERLEIMKNDL 100


>gi|295090546|emb|CBK76653.1| Type I restriction modification DNA specificity domain.
           [Clostridium cf. saccharolyticum K10]
          Length = 196

 Score = 38.6 bits (88), Expect = 1.7,   Method: Composition-based stats.
 Identities = 22/155 (14%), Positives = 51/155 (32%), Gaps = 11/155 (7%)

Query: 29  PIKRFTKLNTGRTSESG-------KDIIYIGLEDVE-SGTGKYLPKDGNSRQSDTSTVSI 80
            ++ +  + +G                  I L  ++  GT      D    +       I
Sbjct: 2   KLQDYASVRSGLVLSRKQSQNSSVYKYPLINLRCIQQDGTIDLNEVDIYEAKEPLKKEYI 61

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGIC---STQFLVLQPKDVLPELLQGWLLSIDVTQRI 137
             KG I+     PY    I +   G+    +   + ++   +LPE L   L +  + +++
Sbjct: 62  SQKGDIIVRLTAPYTAVLIDSTTSGMVISSNFVVIRVENDCLLPEYLFWLLNTQKIKRQM 121

Query: 138 EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIRE 172
                   +     K + +  + +  + +Q  I +
Sbjct: 122 YENATSNMLGAVKAKFLTDFELQVLSVEDQFKIGQ 156


>gi|291530637|emb|CBK96222.1| Type I restriction modification DNA specificity domain [Eubacterium
           siraeum 70/3]
          Length = 224

 Score = 38.6 bits (88), Expect = 1.7,   Method: Composition-based stats.
 Identities = 24/152 (15%), Positives = 57/152 (37%), Gaps = 7/152 (4%)

Query: 30  IKRFTKLNTGRTSESGKDIIYIGLEDVESGTG---KYLPKDGNSR---QSDTSTVSIFAK 83
           I++   +  G    S   +     + V  G     KY+  + N+     ++     + +K
Sbjct: 42  IEQVADIYGGYAFNSKAYVNKGKYKIVTIGNVTGDKYISGNYNTIDRLPNNIQKPQVLSK 101

Query: 84  GQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPE-LLQGWLLSIDVTQRIEAICE 142
           G IL    G   R +I+   + + + +   L  +D L +  +  +L +    + +    +
Sbjct: 102 GDILVSLTGNVGRISIVDGDEYLLNQRVAKLGIEDDLTKEYIYQYLSNSSFEKDMINAGQ 161

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKI 174
           GA   +   + I +  +  P     +   +K+
Sbjct: 162 GAAQKNIKNQDILSYCIRFPTDQTALENIDKL 193


>gi|256852234|ref|ZP_05557620.1| restriction modification system [Lactobacillus jensenii 27-2-CHN]
 gi|260661734|ref|ZP_05862645.1| type I restriction modification system [Lactobacillus jensenii
           115-3-CHN]
 gi|282932023|ref|ZP_06337484.1| hypothetical protein HMPREF0886_3167 [Lactobacillus jensenii 208-1]
 gi|297205600|ref|ZP_06922996.1| hypothetical protein HMPREF0526_10628 [Lactobacillus jensenii
           JV-V16]
 gi|256615280|gb|EEU20471.1| restriction modification system [Lactobacillus jensenii 27-2-CHN]
 gi|260547481|gb|EEX23460.1| type I restriction modification system [Lactobacillus jensenii
           115-3-CHN]
 gi|281303850|gb|EFA95991.1| hypothetical protein HMPREF0886_3167 [Lactobacillus jensenii 208-1]
 gi|297150178|gb|EFH30475.1| hypothetical protein HMPREF0526_10628 [Lactobacillus jensenii
           JV-V16]
          Length = 201

 Score = 38.6 bits (88), Expect = 1.7,   Method: Composition-based stats.
 Identities = 25/205 (12%), Positives = 59/205 (28%), Gaps = 21/205 (10%)

Query: 228 VPDHWEVKPFFALV---TELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQ 284
           +P  W               + K  +L  S++   +  N  +       G K  + +   
Sbjct: 1   MPSDWNYVSLKDYAEVTPGYSYKGKELSPSHLAMATIKNFDRNGGFNARGFKEINPQKEI 60

Query: 285 IVDPG----EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK--------PHGIDSTY 332
            V       +++    DL  +   + +A+ +         +            + I    
Sbjct: 61  KVQKYANLYDVLVAHTDLTQNAEIIGNAEPILTCGNYDKIIFSMDLVKVTAKENKISKFL 120

Query: 333 LAWLMRSYDLCKV-FYAMGSGLRQSLKFEDVKRLPVLVP-PIKEQFDITNVINVETARID 390
           LA +M+   + +     +       L  + +K      P   +   +I N       +I+
Sbjct: 121 LALIMQGDIMKRHCLTYVNGTTVLHLNKKALKDFEFPFPENPQVISNIANFAEENYKKIN 180

Query: 391 VLVEKIEQSIVLLKERRSSFIAAAV 415
                  +   LL + +S  +    
Sbjct: 181 S----NLRENDLLIKIKSELLNKYF 201


>gi|240047295|ref|YP_002960683.1| putative Type I restriction-modification enzyme s subun [Mycoplasma
           conjunctivae HRC/581]
 gi|239984867|emb|CAT04860.1| PUTATIVE Type I restriction-modification enzyme s subun [Mycoplasma
           conjunctivae]
          Length = 220

 Score = 38.6 bits (88), Expect = 1.7,   Method: Composition-based stats.
 Identities = 14/99 (14%), Positives = 36/99 (36%), Gaps = 10/99 (10%)

Query: 315 IITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKE 374
           + ++A   +        +  +L+ + +  K                 V+   V VP ++E
Sbjct: 90  VNSTALKILTSKKRYDPFFCYLLLNKEPKKQQ------GHMRHYISLVQHNKVCVPMLEE 143

Query: 375 QFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
               +N+I      I+ ++  I+  I  L+  ++  +  
Sbjct: 144 ----SNLIKNLFFYINKIIFSIQAKITKLESIKNILLNK 178


>gi|227530270|ref|ZP_03960319.1| possible restriction endonuclease S subunit [Lactobacillus
           vaginalis ATCC 49540]
 gi|227349824|gb|EEJ40115.1| possible restriction endonuclease S subunit [Lactobacillus
           vaginalis ATCC 49540]
          Length = 155

 Score = 38.6 bits (88), Expect = 1.8,   Method: Composition-based stats.
 Identities = 14/135 (10%), Positives = 38/135 (28%), Gaps = 5/135 (3%)

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
           ++  +       PE+          + +    +  N    L+           +  ++V 
Sbjct: 25  VEDGKYPFFTTSPETLRINNFAFDQDAILLGGNNANGVFQLKRYTGKFNAYQRTYVISVV 84

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-PIKEQFDITNVIN 383
              I +    +      L ++         + +    ++ L + VP    E       + 
Sbjct: 85  KENIINNDYLYYALMPKLVELQNKSLGTATKFITKRILENLLIKVPNNYNEMERRATYLR 144

Query: 384 VETARIDVLVEKIEQ 398
                ID  ++  +Q
Sbjct: 145 T----IDNKIQLNKQ 155


>gi|331017717|gb|EGH97773.1| Type I restriction enzyme (modification subunit) [Pseudomonas
           syringae pv. lachrymans str. M302278PT]
          Length = 571

 Score = 38.6 bits (88), Expect = 1.8,   Method: Composition-based stats.
 Identities = 22/173 (12%), Positives = 53/173 (30%), Gaps = 8/173 (4%)

Query: 233 EVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIV 292
             +        +  K   + E     +    +I+     ++            +   ++V
Sbjct: 390 HFEIIRPRQHHMGLKGVPVEEVQAQDIPSFGLIRHATMLSVHDLDGPNSFDYFLKAKDVV 449

Query: 293 FRFIDLQNDKRSLRSAQVMERGII----TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA 348
                       +  A +   G      + A +  +     +  L   MRS         
Sbjct: 450 ICIKGAIGRVGCISKAPLPGPGGWVSGQSVAVLRSRGTDYAAHALMMYMRSPKGQAALRR 509

Query: 349 MGSGL-RQSLKFEDVKRLPVLVPPIKEQFDIT-NVINVETARIDVLVEKIEQS 399
           +  G    +++ + +K   + +     Q D+   V+  ET  ID  +E+++Q 
Sbjct: 510 LVVGTSAPTIQAKALKGFQIPILT-AVQSDMALEVLEAETD-IDYQIEQLQQK 560


>gi|198275220|ref|ZP_03207751.1| hypothetical protein BACPLE_01379 [Bacteroides plebeius DSM 17135]
 gi|198271803|gb|EDY96073.1| hypothetical protein BACPLE_01379 [Bacteroides plebeius DSM 17135]
          Length = 1180

 Score = 38.6 bits (88), Expect = 1.8,   Method: Composition-based stats.
 Identities = 28/281 (9%), Positives = 72/281 (25%), Gaps = 9/281 (3%)

Query: 112  LVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIR 171
            ++        +                 I      +  +     +  + +        I 
Sbjct: 805  ILNNSSRDNNQAEYYTPTIRRNYFYNTIISFSNNTNILNLIENHDKYIRLKDNEIIQGIV 864

Query: 172  EKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDH 231
                    R    I E       +K      V          + + +   +  +    + 
Sbjct: 865  PNPDVVNSRNIKYIPEYEIISNNIKIGDGVFVVNHNYFSSLKECEKQYIKV--LYEPTNC 922

Query: 232  WEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETR----NMGLKPESYETYQIVD 287
             +      +  ++        + +   +       +        N   + + Y  +   +
Sbjct: 923  HKYFLDNDITKDIIYITKTNYKGDAPYILQHLWKYRFIMEQRRENKNGRLDYYHLHWPRE 982

Query: 288  PGEIVFRFIDLQNDKRSLRSAQVMER-GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF 346
                      L   K +        +   +  A   ++   I+  YL  L+ S  +    
Sbjct: 983  ESFFKQSEKILVPRKCAFPIFAYTNKETYVMMAINIIQTKRINLKYLTGLLNSKLIEFWL 1042

Query: 347  YAMG--SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVE 385
               G   G    L  E ++++P+ VP I+ Q  I N+++  
Sbjct: 1043 KNKGKMQGANYQLDKEPLQQIPIAVPSIEIQTIIANLVDTI 1083


>gi|86142928|ref|ZP_01061350.1| type IV site-specific deoxyribonuclease Eco57I related protein
           [Leeuwenhoekiella blandensis MED217]
 gi|85830373|gb|EAQ48832.1| type IV site-specific deoxyribonuclease Eco57I related protein
           [Leeuwenhoekiella blandensis MED217]
          Length = 1026

 Score = 38.6 bits (88), Expect = 1.9,   Method: Composition-based stats.
 Identities = 26/191 (13%), Positives = 59/191 (30%), Gaps = 14/191 (7%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPG 289
             +   P   L       + K  E  +   +    + K       +           +  
Sbjct: 799 QQYYGNPKNRLWIIYTDSSFKDEEKILPFPNIKGHLDKFLDVFTSVNKPYGLHRSRDEKY 858

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
               +   L+      R         +   +M +K   I+  YL  ++ S  +       
Sbjct: 859 FKGEKIFSLRKCSVRPRFTYTDFDAYVNRTFMVIKTDRINQKYLTGILNSNLIAFWLKYK 918

Query: 350 G--SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVIN------VETARIDVLVEKIE---- 397
           G   G    +    ++ LP++ P  + Q  I ++++       +++    L++K +    
Sbjct: 919 GKMQGNNYQIDKTPLENLPLINPNKEVQEKIADLVSSIISNTQKSSEYQELLDKAKTDNN 978

Query: 398 --QSIVLLKER 406
             + I L KE 
Sbjct: 979 FDREIQLTKEL 989


>gi|270156972|ref|ZP_06185629.1| translocase-like protein [Legionella longbeachae D-4968]
 gi|269988997|gb|EEZ95251.1| translocase-like protein [Legionella longbeachae D-4968]
          Length = 1622

 Score = 38.6 bits (88), Expect = 1.9,   Method: Composition-based stats.
 Identities = 16/82 (19%), Positives = 29/82 (35%), Gaps = 24/82 (29%)

Query: 360  EDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS----------IVLLKERRS- 408
             ++    + +  I EQ  I+  I    ++I  + E I +           I   +ERR  
Sbjct: 1394 TNLDEFFIAL--INEQSRISKNIEDIRSKIHNIEELIHKQENEIFETGSRIKAAQERRQQ 1451

Query: 409  ---------SFIAAAV--TGQI 419
                     S ++  V   G+I
Sbjct: 1452 PDCGYIESASLMSQVVYHQGKI 1473


>gi|313664978|ref|YP_004046849.1| type I restriction modification DNA specificity domain protein
           [Mycoplasma leachii PG50]
 gi|312949980|gb|ADR24576.1| type I restriction modification DNA specificity domain protein
           [Mycoplasma leachii PG50]
          Length = 171

 Score = 38.6 bits (88), Expect = 1.9,   Method: Composition-based stats.
 Identities = 19/146 (13%), Positives = 38/146 (26%), Gaps = 9/146 (6%)

Query: 250 KLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQ 309
             I    L  +      K +    G++      Y    PG  +                 
Sbjct: 28  CSINCGSLDANAMEHNGKYDFFTSGVEIYKINKYAFEGPGISIAGNGANMGYLH-----L 82

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
              +         ++   ++  +L   + +  L K       G    L  E +    +  
Sbjct: 83  TDGKYNAYQRTYILQNIEVNRMFLYCTLLNNFLSKCEKLTKFGGVPYLVLEQIYNHMIFR 142

Query: 370 PPIKEQFDITNVINVETARIDVLVEK 395
           P   EQ  I    +   + +D L+  
Sbjct: 143 PTYNEQTKI----SSLFSNLDSLITL 164


>gi|229548136|ref|ZP_04436861.1| type I site-specific deoxyribonuclease specificity subunit
           [Enterococcus faecalis ATCC 29200]
 gi|229306737|gb|EEN72733.1| type I site-specific deoxyribonuclease specificity subunit
           [Enterococcus faecalis ATCC 29200]
          Length = 205

 Score = 38.6 bits (88), Expect = 1.9,   Method: Composition-based stats.
 Identities = 26/183 (14%), Positives = 58/183 (31%), Gaps = 15/183 (8%)

Query: 24  HWKVVPIKRFTKL-NTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI-- 80
           +W++  ++        G+          + +E++ +G+ +YL  +  +      T ++  
Sbjct: 34  NWELCKLENVIDKQIKGK----------VKVENLCNGSVEYLDANRLNGGKPIYTKALPD 83

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
            ++  I+    G    K     F G+  +     Q K+        +   +D    I   
Sbjct: 84  VSERDIIILWDGSKAGKVYY-GFKGVLGSTLKAYQLKECANS-QFIYQQLLDNQNNIYNN 141

Query: 141 CEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQ 200
                + H         P+ +    EQ  + + +     RI          I L K   Q
Sbjct: 142 YRTPNIPHVVKNFSSIFPIWMTSFEEQSQMADILSNLDNRIILQQNLTDTMISLKKSYLQ 201

Query: 201 ALV 203
            + 
Sbjct: 202 NMF 204



 Score = 37.1 bits (84), Expect = 6.1,   Method: Composition-based stats.
 Identities = 11/123 (8%), Positives = 41/123 (33%), Gaps = 4/123 (3%)

Query: 290 EIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAM 349
           ++  R I +  D           +G++ S   A +     ++   +     +   ++   
Sbjct: 83  DVSERDIIILWDGSKAGKVYYGFKGVLGSTLKAYQLKECANSQFIYQQLLDNQNNIYNNY 142

Query: 350 GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSS 409
            +     +        P+ +   +EQ  + +++    + +D  +   +     +   + S
Sbjct: 143 RTPNIPHVVKNFSSIFPIWMTSFEEQSQMADIL----SNLDNRIILQQNLTDTMISLKKS 198

Query: 410 FIA 412
           ++ 
Sbjct: 199 YLQ 201


>gi|326314827|ref|YP_004232499.1| hypothetical protein Acav_0004 [Acidovorax avenae subsp. avenae
           ATCC 19860]
 gi|323371663|gb|ADX43932.1| hypothetical protein Acav_0004 [Acidovorax avenae subsp. avenae
           ATCC 19860]
          Length = 195

 Score = 38.6 bits (88), Expect = 1.9,   Method: Composition-based stats.
 Identities = 16/99 (16%), Positives = 33/99 (33%), Gaps = 2/99 (2%)

Query: 284 QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLC 343
             + PG++V         K  L +        +    +      +D+ YL W +      
Sbjct: 61  HCLQPGDVVIPSRG-DYYKAWLFNGASEPVLPVGQLNVIRPAVDLDAGYLVWHLNLPVTQ 119

Query: 344 -KVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
            K+   +     ++L    +  L V  P + +Q  I  +
Sbjct: 120 AKLSLLLTGTTIKALTKTALLSLEVDTPELPQQQRIAEI 158


>gi|83317742|ref|XP_731294.1| phosphatidylinositol 3-kinase vps34 [Plasmodium yoelii yoelii str.
           17XNL]
 gi|23491282|gb|EAA22859.1| phosphatidylinositol 3-kinase vps34-like [Plasmodium yoelii yoelii]
          Length = 1686

 Score = 38.6 bits (88), Expect = 2.0,   Method: Composition-based stats.
 Identities = 19/297 (6%), Positives = 67/297 (22%), Gaps = 8/297 (2%)

Query: 27  VVPIKRFTKLNTGRTSESGKDIIY----IGLEDV-ESGTGKYLPKDGNSRQSDTSTVSIF 81
            +  K   K   G +       +Y      + +V    + K L    N  +         
Sbjct: 446 WIKNKNLLKWKNGYSYIKKYSYLYDLHNGRISNVGNRNSFKLLKGVINIYKKFKIFKEKK 505

Query: 82  AKGQILYGKLGPYLRKAIIADFD---GICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
            KG +++  +     K    +                    +           +      
Sbjct: 506 IKGYLIFNCVSFNKPKICYNEKKKKLITFHENIFNDIENKEIGSPNFYHNTGSNYDWXFN 565

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
           +       S+ +          +    ++       +   +  +          +     
Sbjct: 566 SFDYVGDTSNINNLSFNKFVKSVAKGQKKNKHGNLFLHNFIFDNKKDNIINEKNKNYSHN 625

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
           +  ++      G   ++  K + ++ +  V  +             +        S  ++
Sbjct: 626 RFKIIESKKYCGKIKNILYKRNSVDVLRNVNTNHRHTEKKINDIFDHISKYTNRISKNIN 685

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
           +S  N            +    +   +  P     + ++        +     ++ +
Sbjct: 686 ISNINRYDDYPFNFFSKEKCEKKKISVTTPPIDEIKTLNYVLSIPLTKINDDGKKCL 742


>gi|110004973|emb|CAK99304.1| hypothetical transmembrane protein [Spiroplasma citri]
          Length = 213

 Score = 38.6 bits (88), Expect = 2.1,   Method: Composition-based stats.
 Identities = 18/158 (11%), Positives = 46/158 (29%), Gaps = 4/158 (2%)

Query: 218 KDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKP 277
           K   ++ +       E            R                N     +   + L+ 
Sbjct: 50  KYITLQEISKKISDGEHSHIKRNNKSGVRYLYGRNIKQGTIKGNINFDSISDYSYISLED 109

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI---ITSAYMAVKPHGIDSTYLA 334
            +      +   +++   + +  +    +   +   GI   I    +      I   YL 
Sbjct: 110 YTNFKRTHLIDNDVLISILGIIGNSAIYKKEYLGIIGIPRHIGRITLLNTFAPISPEYLV 169

Query: 335 WLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPP 371
              R+       Y++ +G ++Q L  +++K   + +P 
Sbjct: 170 AYFRTKLAKHQLYSLTTGNIQQLLSLKNLKNYEIPIPN 207


>gi|91203366|emb|CAJ71019.1| unknown protein [Candidatus Kuenenia stuttgartiensis]
          Length = 139

 Score = 38.6 bits (88), Expect = 2.2,   Method: Composition-based stats.
 Identities = 15/104 (14%), Positives = 38/104 (36%), Gaps = 9/104 (8%)

Query: 23  KHWKVVPIKRFTKLNTG--RTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSI 80
            +W  + I            +        +I  ED+++G              D  +  +
Sbjct: 7   SNWNEIAIGFIADEINEEVLSPAKSGCERFIRPEDLDAGQLFIKNFRS---PEDIGSGKL 63

Query: 81  FAKGQILYGKLG----PYLRKAIIADFDGICSTQFLVLQPKDVL 120
             +G I++ +       + R++ +  FD +CS +  V++  + +
Sbjct: 64  CYEGDIIFARRNVSIFQFKRRSSVLTFDAVCSDELTVIRENEKI 107


>gi|332358994|gb|EGJ36815.1| hypothetical protein HMPREF9380_1662 [Streptococcus sanguinis SK49]
          Length = 393

 Score = 38.2 bits (87), Expect = 2.2,   Method: Composition-based stats.
 Identities = 44/386 (11%), Positives = 98/386 (25%), Gaps = 34/386 (8%)

Query: 26  KVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKY-LPKDGNSRQSDTSTVSIFAKG 84
           K V +        G +              V   TG + +                +   
Sbjct: 7   KRVTLSELFTNKRGNS--------RYTKAYVNRNTGDFEVYTGSTKTSFGFIDTYEYETP 58

Query: 85  QILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGA 144
            + Y   G Y     +            +L  K     L     +               
Sbjct: 59  HLTYTTDGEYAGTLDVLQGKYNVGGHRAILISKVDNLSLSYCKYV---FQSIFYNSVRRG 115

Query: 145 TMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVS 204
            +    W  I +I + IP   +     +K      +   +I  R   +    +  +++  
Sbjct: 116 DVPSLAWSQIKDIRVSIPVNEDGEFDLKKQEEIVRK-FEIIEARKAELSEKIQTIKSVEV 174

Query: 205 YIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNI 264
            I++   +    +K + +  + +  +  +       V E +        S+    SYG +
Sbjct: 175 DIISGDNDKTTSIKVAELFDLTISTNSSKFTK--TFVKENSGDIPVYGASSDNLPSYGYV 232

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
                  +   K E    Y       + +    L            +   +         
Sbjct: 233 KDNAVIVDKDGKREFPVRYF---ENCLTYNIDGLAGYIFYHEGRFSLSEKVRPLVIKEEY 289

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS----LKFEDVKRLPVLVP-------PIK 373
              ++  YL  ++                 ++    L    +K L V++P        ++
Sbjct: 290 ASKVNPLYLKQVLE-PIFRSHVKGRKGENGKNEYTKLNTSMIKNLEVVLPLTSSGEIDLE 348

Query: 374 EQFDITNVINVETARIDVLVEKIEQS 399
           +Q  I       +  I  +   IE+ 
Sbjct: 349 KQNQIV----KNSQTILEMKNNIEKQ 370



 Score = 37.1 bits (84), Expect = 5.4,   Method: Composition-based stats.
 Identities = 22/151 (14%), Positives = 47/151 (31%), Gaps = 15/151 (9%)

Query: 261 YGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY 320
           Y N          G    S+      +       +        +L   Q         A 
Sbjct: 28  YVNRNTGDFEVYTGSTKTSFGFIDTYEYETPHLTYTTDGEYAGTLDVLQGKYNVGGHRAI 87

Query: 321 MAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP-------PIK 373
           +  K   +  +Y  ++ +S        ++  G   SL +  +K + V +P        +K
Sbjct: 88  LISKVDNLSLSYCKYVFQSIFY----NSVRRGDVPSLAWSQIKDIRVSIPVNEDGEFDLK 143

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLK 404
           +Q +I      +   I+    ++ + I  +K
Sbjct: 144 KQEEIVR----KFEIIEARKAELSEKIQTIK 170


>gi|212691982|ref|ZP_03300110.1| hypothetical protein BACDOR_01477 [Bacteroides dorei DSM 17855]
 gi|212665374|gb|EEB25946.1| hypothetical protein BACDOR_01477 [Bacteroides dorei DSM 17855]
          Length = 163

 Score = 38.2 bits (87), Expect = 2.2,   Method: Composition-based stats.
 Identities = 14/119 (11%), Positives = 33/119 (27%), Gaps = 6/119 (5%)

Query: 297 DLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS 356
            L         A+   +  I     A++      T   +    Y   K           S
Sbjct: 50  ILTVRAPVGIVAENKMKVCIGRGVCALRNKSAMPTMYIYYALDYFSYKWKQIEQGSTFTS 109

Query: 357 LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           +  +DVK   + +                 +++DVL++          +++   ++   
Sbjct: 110 INGDDVKNFTIPLVDD------VEYSCALLSKVDVLIKCSIDLHSNYIKQKQYLLSQLF 162


>gi|154487139|ref|ZP_02028546.1| hypothetical protein BIFADO_00979 [Bifidobacterium adolescentis
           L2-32]
 gi|154085002|gb|EDN84047.1| hypothetical protein BIFADO_00979 [Bifidobacterium adolescentis
           L2-32]
          Length = 72

 Score = 38.2 bits (87), Expect = 2.2,   Method: Composition-based stats.
 Identities = 9/44 (20%), Positives = 19/44 (43%), Gaps = 4/44 (9%)

Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQS 399
           S+  E +K + +    + EQ  I    +    R+D L+   ++ 
Sbjct: 13  SIDIEGMKTIFIPWTNLAEQRRIGAFFD----RLDSLITLHQRK 52


>gi|227505161|ref|ZP_03935210.1| conserved hypothetical protein [Corynebacterium striatum ATCC 6940]
 gi|227198243|gb|EEI78291.1| conserved hypothetical protein [Corynebacterium striatum ATCC 6940]
          Length = 92

 Score = 38.2 bits (87), Expect = 2.2,   Method: Composition-based stats.
 Identities = 10/83 (12%), Positives = 26/83 (31%)

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
           E      A  A+           + +      ++      G + +L    V+   +  P 
Sbjct: 6   EPAATNQACAAICIEDAVDADFLFYVLRNSYEQLRSLGRGGNQDNLNLSLVRDFRIPWPA 65

Query: 372 IKEQFDITNVINVETARIDVLVE 394
           ++ +      +N  T  + +L +
Sbjct: 66  VEIRQRFVAQMNEATRILTLLEK 88


>gi|210630729|ref|ZP_03296553.1| hypothetical protein COLSTE_00438 [Collinsella stercoris DSM 13279]
 gi|210160325|gb|EEA91296.1| hypothetical protein COLSTE_00438 [Collinsella stercoris DSM 13279]
          Length = 66

 Score = 38.2 bits (87), Expect = 2.5,   Method: Composition-based stats.
 Identities = 11/55 (20%), Positives = 22/55 (40%), Gaps = 4/55 (7%)

Query: 361 DVKRLPVLVPPIKEQFDITNVINVET----ARIDVLVEKIEQSIVLLKERRSSFI 411
           D+ R+ +  P I  Q  + +V++       +  D L  +IE      +  R   +
Sbjct: 2   DLARVEIPAPSIATQRKVVDVLDRFDTPTASLTDCLPAEIEARNQQYEYYRDRLL 56


>gi|257125564|ref|YP_003163678.1| restriction modification system DNA specificity domain protein
           [Leptotrichia buccalis C-1013-b]
 gi|257049503|gb|ACV38687.1| restriction modification system DNA specificity domain protein
           [Leptotrichia buccalis C-1013-b]
          Length = 195

 Score = 38.2 bits (87), Expect = 2.5,   Method: Composition-based stats.
 Identities = 18/171 (10%), Positives = 53/171 (30%), Gaps = 12/171 (7%)

Query: 29  PIKRFTKLN---TGRTSESGKDIIYIGLEDVESGTGKYL-----PKDGNSRQSDTSTVSI 80
            +     +      +T++     + +    V +G  +       P+   + ++  +    
Sbjct: 2   KLGDNVDIIAPLNVKTADIKTGYLLLNPTMVNNGKIENFDNAEVPERYKNGKNKIADKYF 61

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGIC--STQFLVLQPKDVLPELLQGWLLSIDVTQRI- 137
             K  +L+   G  +    +         +T + +L+  + +      WLL  ++     
Sbjct: 62  VKKNDVLFQAKGSKIEVVYVDQDYENVLPATLYFILRANEKINPKYLQWLLKTELLLLYF 121

Query: 138 -EAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
            +     + +   +   I  + + +P    Q  + E I +        I  
Sbjct: 122 EKKYKTMSAVRAVNKSDIVELDIDLPEREVQDKMVEIITSFENEEKNTIDY 172


>gi|118343675|ref|NP_001071658.1| transcription factor protein [Ciona intestinalis]
 gi|70568924|dbj|BAE06318.1| transcription factor protein [Ciona intestinalis]
          Length = 273

 Score = 38.2 bits (87), Expect = 2.5,   Method: Composition-based stats.
 Identities = 10/46 (21%), Positives = 21/46 (45%), Gaps = 7/46 (15%)

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTG 417
           + EQ      +  E+  ++ L  K+++ I  L+E R   +   + G
Sbjct: 168 LSEQ------LQEESEHLENLNAKLKREIEKLQEERQKLMH-LLNG 206


>gi|166030474|ref|ZP_02233303.1| hypothetical protein DORFOR_00135 [Dorea formicigenerans ATCC
           27755]
 gi|166029726|gb|EDR48483.1| hypothetical protein DORFOR_00135 [Dorea formicigenerans ATCC
           27755]
          Length = 792

 Score = 38.2 bits (87), Expect = 2.5,   Method: Composition-based stats.
 Identities = 10/42 (23%), Positives = 18/42 (42%), Gaps = 4/42 (9%)

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAA 414
           KEQ +I          ++ L ++  Q    L+E+R   +  A
Sbjct: 534 KEQEEIAAY----RRELEALKQETAQKKEKLEEQRDRILREA 571


>gi|229015567|ref|ZP_04172562.1| Type I restriction enzyme, specificity subunit [Bacillus cereus
           AH1273]
 gi|229027299|ref|ZP_04183562.1| Type I restriction enzyme, specificity subunit [Bacillus cereus
           AH1272]
 gi|228733990|gb|EEL84721.1| Type I restriction enzyme, specificity subunit [Bacillus cereus
           AH1272]
 gi|228745714|gb|EEL95721.1| Type I restriction enzyme, specificity subunit [Bacillus cereus
           AH1273]
          Length = 204

 Score = 38.2 bits (87), Expect = 2.6,   Method: Composition-based stats.
 Identities = 24/151 (15%), Positives = 52/151 (34%), Gaps = 24/151 (15%)

Query: 265 IQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVK 324
           I + + R++ +  E  +   + D   +V   +     K      Q     +  +      
Sbjct: 48  ISQEKDRSIYVNKEKIKQEVLTDTESLVLHTL---TQKVVWFPPQYQGLLLTNNFMKISF 104

Query: 325 PHGIDSTYLAWLMR-SYDLCKVFYAMG-SGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
              +D  ++ WL      + K         +  SLK  +VK +  ++P +++Q       
Sbjct: 105 FEKVDVHFMEWLFNEHPSIQKQIALFTEGSIISSLKLSNVKEIEFVLPNVEKQ------- 157

Query: 383 NVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
                       KI   I  LK+R+++ +  
Sbjct: 158 ------------KILGKIAQLKKRKTALLKE 176


>gi|317481755|ref|ZP_07940785.1| type I restriction system specificity protein [Bifidobacterium sp.
           12_1_47BFAA]
 gi|316916803|gb|EFV38195.1| type I restriction system specificity protein [Bifidobacterium sp.
           12_1_47BFAA]
          Length = 68

 Score = 38.2 bits (87), Expect = 2.8,   Method: Composition-based stats.
 Identities = 10/52 (19%), Positives = 23/52 (44%), Gaps = 5/52 (9%)

Query: 356 SLKFEDVKRLPVLVP-PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
           ++  +D     V +P    EQ  I        +R+D L+   ++  + +++R
Sbjct: 16  NIAPDDFFDTMVSLPESQAEQQTIGAF----FSRLDSLITLHQRKRLSIRQR 63


>gi|167750494|ref|ZP_02422621.1| hypothetical protein EUBSIR_01470 [Eubacterium siraeum DSM 15702]
 gi|167656420|gb|EDS00550.1| hypothetical protein EUBSIR_01470 [Eubacterium siraeum DSM 15702]
          Length = 667

 Score = 38.2 bits (87), Expect = 2.8,   Method: Composition-based stats.
 Identities = 29/315 (9%), Positives = 66/315 (20%), Gaps = 9/315 (2%)

Query: 29  PIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQILY 88
            +K      +G T  +  ++  +G+   +S T         +     S   +   G I  
Sbjct: 200 TLKELYTYKSGSTPSTD-NVKLLGISSKKSNTVSDTNAFVVTDVYKPSNYKLTKAG-IRI 257

Query: 89  GK-LGPYLRKAIIADFDGICSTQFLVLQPKDVLPEL-----LQGWLLSIDVTQRIEAICE 142
            +  G Y              T +  +     +          G          IE    
Sbjct: 258 RREDGTYDNGWSEFHNTASTWTGYDYMYISYDMNSEVKITLRHGTKYYYKFYAVIEGKEY 317

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
            +        G  +        +           +     T                   
Sbjct: 318 WSPEQSFTTTGSHSYGSWYTKTSATCTSGGTEERKCSCGATESRSTSALGHNYGSTYFEA 377

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
                   L      K+     + +                    ++   + +       
Sbjct: 378 DHPHKYAHLCQRCGYKEFTGGNLAIYEKCDICYNENLPSKPCLNISSNGFKESDNVSFTW 437

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
           +   K    N+ ++  S + Y+ V     V         K   R+        +   Y +
Sbjct: 438 DPTDKTTHYNLTVEVLSGDEYKTVCRQTYVNSGFQATFGKGQYRAVLDSYNSNMFHQYTS 497

Query: 323 VKPHG-IDSTYLAWL 336
                  +S+   + 
Sbjct: 498 DWRDWVHNSSDYVYF 512


>gi|218283653|ref|ZP_03489615.1| hypothetical protein EUBIFOR_02209 [Eubacterium biforme DSM 3989]
 gi|218215713|gb|EEC89251.1| hypothetical protein EUBIFOR_02209 [Eubacterium biforme DSM 3989]
          Length = 1127

 Score = 38.2 bits (87), Expect = 2.8,   Method: Composition-based stats.
 Identities = 5/44 (11%), Positives = 18/44 (40%), Gaps = 4/44 (9%)

Query: 371 PIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAA 414
            ++ Q  I + +  + A +    E+ ++ +    E++ +     
Sbjct: 121 SLEAQKAIVSELEKQVANL----EENQKKLGQANEQKKALQTQL 160


>gi|283954613|ref|ZP_06372131.1| hypothetical protein C414_000240018 [Campylobacter jejuni subsp.
           jejuni 414]
 gi|283793805|gb|EFC32556.1| hypothetical protein C414_000240018 [Campylobacter jejuni subsp.
           jejuni 414]
          Length = 226

 Score = 38.2 bits (87), Expect = 2.8,   Method: Composition-based stats.
 Identities = 13/129 (10%), Positives = 44/129 (34%), Gaps = 10/129 (7%)

Query: 287 DPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVF 346
              + V   ID       +   +                   ++ Y+++++      + F
Sbjct: 106 YDSDSVLWGIDGDWIVGFMPKNRKFYPTDHCGVLRVNDAKL-NAKYISFILNEAGKKQRF 164

Query: 347 YAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKER 406
                  +     + ++ L V +P +  Q  I ++I+    +I+  + + +  +  L++ 
Sbjct: 165 SR-----KLRASIDRIRALRVKLPSLDFQDQIVDIID----KIERKINEDKIELSRLEKE 215

Query: 407 RSSFIAAAV 415
           +   +   +
Sbjct: 216 KEKILHKYL 224


>gi|29350033|ref|NP_813536.1| DNA modification methylase BstVI [Bacteroides thetaiotaomicron
           VPI-5482]
 gi|29341945|gb|AAO79730.1| DNA modification methylase BstVI [Bacteroides thetaiotaomicron
           VPI-5482]
          Length = 418

 Score = 37.9 bits (86), Expect = 2.9,   Method: Composition-based stats.
 Identities = 13/94 (13%), Positives = 30/94 (31%), Gaps = 4/94 (4%)

Query: 316 ITSAYMAVKPHGIDSTYLAWLM--RSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIK 373
            +           +   L +L+   +  +         G    +  E ++ LP+ VP  +
Sbjct: 321 FSKHNREAMESLSEKVDLYYLLGILNSSMADQLLTDQRGGDYHIYPEHIRNLPIPVPQRE 380

Query: 374 EQFDITNVINV--ETARIDVLVEKIEQSIVLLKE 405
            Q  I  +          +    ++E+ +  L E
Sbjct: 381 IQNAIGEIAKQILLIRETNTDYSELEEQLNNLVE 414


>gi|291461253|ref|ZP_06027914.2| type I restriction modification enzyme protein S [Fusobacterium
           periodonticum ATCC 33693]
 gi|291377990|gb|EFE85508.1| type I restriction modification enzyme protein S [Fusobacterium
           periodonticum ATCC 33693]
          Length = 77

 Score = 37.9 bits (86), Expect = 2.9,   Method: Composition-based stats.
 Identities = 13/71 (18%), Positives = 29/71 (40%), Gaps = 5/71 (7%)

Query: 337 MRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR---IDV 391
           M S  + K+ Y     +    ++  ++++   +++PPI+ Q      I         I  
Sbjct: 1   MNSEFMKKLLYNKAKNIVGMANINAKELEDFSIILPPIELQNKFAERIEKIEKLKFIISA 60

Query: 392 LVEKIEQSIVL 402
           ++ K  +SI  
Sbjct: 61  IILKPYKSIKK 71


>gi|261867040|ref|YP_003254962.1| restriction endonuclease S [Aggregatibacter actinomycetemcomitans
           D11S-1]
 gi|261412372|gb|ACX81743.1| restriction endonuclease S [Aggregatibacter actinomycetemcomitans
           D11S-1]
          Length = 64

 Score = 37.9 bits (86), Expect = 2.9,   Method: Composition-based stats.
 Identities = 11/71 (15%), Positives = 28/71 (39%), Gaps = 12/71 (16%)

Query: 358 KFEDVKRLPVLVPPIKEQFDITNVINVETARI----DVLVEKIEQSIVLLKERRSSFIAA 413
             +D++ L ++VPP        + +    +      ++ +   E+    L + R   +  
Sbjct: 2   YPKDIEGLKIIVPP--------DFLLKRFSEFVENWNLKIVNSEKQNHQLTQLRDFLLPM 53

Query: 414 AVTGQIDLRGE 424
            + GQ+ +  E
Sbjct: 54  LMNGQVAVAEE 64


>gi|55741948|ref|NP_001006729.1| BCL2-associated athanogene 2 [Xenopus (Silurana) tropicalis]
 gi|49523043|gb|AAH75476.1| BCL2-associated athanogene 2 [Xenopus (Silurana) tropicalis]
          Length = 213

 Score = 37.9 bits (86), Expect = 3.0,   Method: Composition-based stats.
 Identities = 13/45 (28%), Positives = 20/45 (44%), Gaps = 8/45 (17%)

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRS----SFIA 412
           I++Q  I   +      ID      E+SI LL+++R     S I 
Sbjct: 169 IEDQKRIKRRLETLIRNIDN----SEKSITLLEQQRQKSAFSLIH 209


>gi|260889858|ref|ZP_05901121.1| putative type I restriction modification DNA specificity domain
           protein [Leptotrichia hofstadii F0254]
 gi|260860464|gb|EEX74964.1| putative type I restriction modification DNA specificity domain
           protein [Leptotrichia hofstadii F0254]
          Length = 195

 Score = 37.9 bits (86), Expect = 3.1,   Method: Composition-based stats.
 Identities = 19/131 (14%), Positives = 47/131 (35%), Gaps = 3/131 (2%)

Query: 278 ESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLM 337
                   +   +++F+    + D   +      +    T  ++      I+  YL WL+
Sbjct: 54  NKIADKYFIKKDDVLFQAKGSKIDVVYV-DKDYEKVLPSTLYFILRPNEKINPKYLQWLL 112

Query: 338 RSYDLCKVFYAM--GSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEK 395
           ++  +   F       G  +++   D+  L V +P  K Q ++  +I          ++ 
Sbjct: 113 KTELVLLYFEKKYKTMGTVRAVNKGDIVDLNVKIPERKIQDEMAKIITSFEEEEYSTMKY 172

Query: 396 IEQSIVLLKER 406
           +      ++ER
Sbjct: 173 LNIKRKYIEER 183



 Score = 37.9 bits (86), Expect = 3.5,   Method: Composition-based stats.
 Identities = 26/193 (13%), Positives = 62/193 (32%), Gaps = 16/193 (8%)

Query: 29  PIKRFTKLN---TGRTSESGKDIIYIGLEDVESGTGKYLPK-----DGNSRQSDTSTVSI 80
            +     +      +T++S      +    V +G  +            + ++  +    
Sbjct: 2   KLGDNVDIIAPLNVKTADSETGYFLLNPTMVNNGKIETFDYAEVPDRYKNGKNKIADKYF 61

Query: 81  FAKGQILYGKLGPYLRKAIIADFDGIC--STQFLVLQPKDVLPELLQGWLLSIDVT--QR 136
             K  +L+   G  +    +         ST + +L+P + +      WLL  ++     
Sbjct: 62  IKKDDVLFQAKGSKIDVVYVDKDYEKVLPSTLYFILRPNEKINPKYLQWLLKTELVLLYF 121

Query: 137 IEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKI----IAETVRIDTLITERIRFI 192
            +      T+   +   I ++ + IP    Q  + + I      E   +  L  +R    
Sbjct: 122 EKKYKTMGTVRAVNKGDIVDLNVKIPERKIQDEMAKIITSFEEEEYSTMKYLNIKRKYIE 181

Query: 193 ELLKEKKQALVSY 205
           E + E  Q ++  
Sbjct: 182 ERVIENNQVIIDE 194


>gi|296110697|ref|YP_003621078.1| hypothetical protein LKI_02830 [Leuconostoc kimchii IMSNU 11154]
 gi|295832228|gb|ADG40109.1| hypothetical protein LKI_02830 [Leuconostoc kimchii IMSNU 11154]
          Length = 63

 Score = 37.9 bits (86), Expect = 3.2,   Method: Composition-based stats.
 Identities = 9/40 (22%), Positives = 15/40 (37%), Gaps = 4/40 (10%)

Query: 361 DVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI 400
            +  + V VP   EQ  I          +D L+   E+ +
Sbjct: 5   QISSIKVKVPDKDEQTKIGAF----FKILDQLITVNEREL 40


>gi|52082598|ref|YP_081389.1| hypothetical protein BL02383 [Bacillus licheniformis ATCC 14580]
 gi|52787995|ref|YP_093824.1| hypothetical protein BLi04319 [Bacillus licheniformis ATCC 14580]
 gi|52005809|gb|AAU25751.1| hypothetical protein BL02383 [Bacillus licheniformis ATCC 14580]
 gi|52350497|gb|AAU43131.1| hypothetical protein BLi04319 [Bacillus licheniformis ATCC 14580]
          Length = 198

 Score = 37.9 bits (86), Expect = 3.2,   Method: Composition-based stats.
 Identities = 25/160 (15%), Positives = 58/160 (36%), Gaps = 16/160 (10%)

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAY--MAVK 324
             E   +    +        + G+++ R   L     S+   +     ++ S +  + V 
Sbjct: 45  NDEPFEVFHSNDLLNNQHFTEAGDVLIR---LNYPHTSVYIDETKSGLLVPSYFAIIKVD 101

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVLVPPIKEQFDITN--V 381
                S Y+AW + +  + K      +G R  S     +  +P+   PI +Q  +     
Sbjct: 102 QSKFISEYVAWYLNTDSVKKELERSQAGTRIPSTNKSALNSIPIEDIPIFKQQAVIKLWR 161

Query: 382 INVETARI-DVLVEKIEQSIVLLKERRSSFIAAAVTGQID 420
           ++ +   + + L+E+ E+         ++     V G+I 
Sbjct: 162 LHQQEKTLYNRLIEEKEK-------WFNAITKQIVQGEIR 194


>gi|154503470|ref|ZP_02040530.1| hypothetical protein RUMGNA_01294 [Ruminococcus gnavus ATCC 29149]
 gi|153795570|gb|EDN77990.1| hypothetical protein RUMGNA_01294 [Ruminococcus gnavus ATCC 29149]
          Length = 791

 Score = 37.9 bits (86), Expect = 3.3,   Method: Composition-based stats.
 Identities = 11/42 (26%), Positives = 19/42 (45%), Gaps = 4/42 (9%)

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAA 414
           KEQ +I          I+ L  + +Q    ++E+R   +A A
Sbjct: 533 KEQEEIAAY----KKEIEALKSQAQQKQERIEEQRERILAEA 570


>gi|163802344|ref|ZP_02196238.1| cryptic beta-D-galactosidase, alpha subunit [Vibrio sp. AND4]
 gi|159173873|gb|EDP58687.1| cryptic beta-D-galactosidase, alpha subunit [Vibrio sp. AND4]
          Length = 1032

 Score = 37.9 bits (86), Expect = 3.4,   Method: Composition-based stats.
 Identities = 32/306 (10%), Positives = 73/306 (23%), Gaps = 15/306 (4%)

Query: 84  GQILYGKLG-PYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           G  +  +        A + D   I +         D     +        +         
Sbjct: 392 GLFVMAETDVETHGFANVGDLSRITNDAAWESVFVDRAERHVHAQKNHPSIIMWSLGNES 451

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           G   +                +  +     +++     + +       F E   EK + +
Sbjct: 452 GYGCNIRAMYDATKAIDNTRLVHYEEDRDAEVVDVISTMYSRAQLMNHFGEHPHEKPRII 511

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
             Y    G  P    +   + +         V  +         ++    E       YG
Sbjct: 512 CEYAHAMGNGPGGLTEYQNVFYAHDHIQGHYVWEWCDHGVLA--RDENGQEFYKYGGDYG 569

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
           +          GL          +   + V   + +Q  +    +  V  +   T+  + 
Sbjct: 570 DYPNNYNFCMDGLIYPDQTPGPGLKEYKQVIAPVKIQAVEGKTNTFTVENKLWFTN--LN 627

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
                 D       +RS        A  S           + + + +P + E+    N  
Sbjct: 628 DFTITADVRAEGETLRSVQFKVEELAANSA----------REIIINLPELDEREAFINFT 677

Query: 383 NVETAR 388
             + +R
Sbjct: 678 VRKDSR 683


>gi|269960474|ref|ZP_06174846.1| conserved hypothetical protein [Vibrio harveyi 1DA3]
 gi|269834551|gb|EEZ88638.1| conserved hypothetical protein [Vibrio harveyi 1DA3]
          Length = 1018

 Score = 37.9 bits (86), Expect = 3.5,   Method: Composition-based stats.
 Identities = 32/306 (10%), Positives = 73/306 (23%), Gaps = 15/306 (4%)

Query: 84  GQILYGKLG-PYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           G  +  +        A + D   I +         D     +        +         
Sbjct: 378 GLFVMAETDVETHGFANVGDLSRITNDAAWESVFVDRAERHVHAQKNHPSIIMWSLGNES 437

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           G   +                +  +     +++     + +       F E   EK + +
Sbjct: 438 GYGCNIRAMYDATKAIDDTRLVHYEEDRDAEVVDVISTMYSRAQLMNHFGEHPHEKPRII 497

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
             Y    G  P    +   + +         V  +         ++    E       YG
Sbjct: 498 CEYAHAMGNGPGGLTEYQNVFYAHDHIQGHYVWEWCDHGVLA--RDENGQEFYKYGGDYG 555

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
           +          GL          +   + V   + +Q  +    +  V  +   T+  + 
Sbjct: 556 DYPNNYNFCMDGLIYPDQTPGPGLKEYKQVIAPVKIQAVEGKTNTFTVENKLWFTN--LD 613

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
                 D       +RS        A  S           + + + +P + E+    N  
Sbjct: 614 DYTITADIRAEGETLRSVQFKVEELAANSA----------REITINLPELDEREAFINFT 663

Query: 383 NVETAR 388
             + +R
Sbjct: 664 VRKDSR 669


>gi|167769853|ref|ZP_02441906.1| hypothetical protein ANACOL_01187 [Anaerotruncus colihominis DSM
           17241]
 gi|167668214|gb|EDS12344.1| hypothetical protein ANACOL_01187 [Anaerotruncus colihominis DSM
           17241]
          Length = 238

 Score = 37.9 bits (86), Expect = 3.5,   Method: Composition-based stats.
 Identities = 13/137 (9%), Positives = 39/137 (28%), Gaps = 13/137 (9%)

Query: 271 RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
                  +S    + +   +++       +  + +         + +   +   P   + 
Sbjct: 93  YISEDDYDSIIEARKLQKNDVLLTMDGGTSIGKPVLFNLDGSYTVDSHIPILRNPKISEK 152

Query: 331 TYLAWLMRSYDLCKVFYAMGSGL--RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
            ++ +L+ S      F    SG   + S+  ED++R             +   I+     
Sbjct: 153 AWV-YLLASPIGQLQFNRAESGASGQTSVTEEDLRRFRFP-------TKLLAQIDALAKE 204

Query: 389 ID---VLVEKIEQSIVL 402
           +D     +      +  
Sbjct: 205 LDLERKKINLERCELDK 221


>gi|261380922|ref|ZP_05985495.1| type I restriction/modification specificity protein [Neisseria
           subflava NJ9703]
 gi|284796175|gb|EFC51522.1| type I restriction/modification specificity protein [Neisseria
           subflava NJ9703]
          Length = 130

 Score = 37.9 bits (86), Expect = 3.6,   Method: Composition-based stats.
 Identities = 12/95 (12%), Positives = 23/95 (24%), Gaps = 3/95 (3%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLP---KDGNSRQSDTSTVS 79
           + WK   +    ++   R     +      +   + GT    P         +       
Sbjct: 16  EEWKNKTLGDLGRVEMCRRIFKEQTQPSGEIPFFKIGTFGQEPDAFISSELFEEYRQKYP 75

Query: 80  IFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVL 114
              +G IL    G   R       +       +V 
Sbjct: 76  YPKQGDILISAAGTIGRTVKFTGENAYFQDSNIVW 110


>gi|300956330|ref|ZP_07168628.1| hypothetical protein HMPREF9547_02158 [Escherichia coli MS 175-1]
 gi|300316842|gb|EFJ66626.1| hypothetical protein HMPREF9547_02158 [Escherichia coli MS 175-1]
          Length = 112

 Score = 37.9 bits (86), Expect = 3.7,   Method: Composition-based stats.
 Identities = 9/88 (10%), Positives = 26/88 (29%), Gaps = 3/88 (3%)

Query: 18  IGAIPKHWKVVPIKRFTKLNTGRTSESGK-DIIYIGLEDVESGTGKYLPKDGNSRQSDTS 76
           +G +P  W+ + +++   +   +       +   + ++   S  G    +    +     
Sbjct: 18  LGMLPTGWQKLSLEKCLNIEARKAYIQDNQEYDLVTVK--RSRGGVIRREHLKGKDISVK 75

Query: 77  TVSIFAKGQILYGKLGPYLRKAIIADFD 104
           +     +G  L  K          A   
Sbjct: 76  SQFYIKEGDFLISKRQIVHGANQWAGPC 103


>gi|308272857|emb|CBX29461.1| hypothetical protein N47_J04420 [uncultured Desulfobacterium sp.]
          Length = 283

 Score = 37.5 bits (85), Expect = 3.8,   Method: Composition-based stats.
 Identities = 13/50 (26%), Positives = 24/50 (48%), Gaps = 8/50 (16%)

Query: 371 PIKEQFDITNVI---NVETARIDVLVEKIEQSI-----VLLKERRSSFIA 412
           PI EQ +I       + +   ID+++E I++ I       LK+ ++  I 
Sbjct: 219 PISEQKEIIQKFRPDSPKDKLIDIIIETIKKVIPDMTDERLKKIKTRLIN 268


>gi|57505847|ref|ZP_00371772.1| type IIS restriction enzyme [Campylobacter upsaliensis RM3195]
 gi|57015877|gb|EAL52666.1| type IIS restriction enzyme [Campylobacter upsaliensis RM3195]
          Length = 1096

 Score = 37.5 bits (85), Expect = 3.9,   Method: Composition-based stats.
 Identities = 23/224 (10%), Positives = 60/224 (26%), Gaps = 17/224 (7%)

Query: 186 TERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELN 245
            ++     L  E    L +    +G      +     E                +     
Sbjct: 659 FKKCVSEYLAWEVSNVLKNQNSMQGGLEGNALSPRLRELEKDFKQSGGEWRDIEIHKLFT 718

Query: 246 RKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSL 305
            +N       +     G+ +      N G+  ++    +I     +        +   ++
Sbjct: 719 PQNGDFDIQKLHLNDKGHQVVSAGLENNGVIGKTDIKARIFPKNTL------TCDMFGNV 772

Query: 306 RSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRS-YDLCKVFYAMGSGLRQSLKFEDVKR 364
                  + +  +  M + P    +      + S  +  K+ +           +  +  
Sbjct: 773 FYRDFEYKMVTHARVMCLHPLFELNKKTGLYIASTMNYFKLLFCFADMA----TWSKISN 828

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI--VLLKER 406
           L + +P + EQ       +   + I  L  +  Q +    L+E 
Sbjct: 829 LKLSLPVLNEQIAF----DYMESYIKALEAERLQELEAERLQEL 868


>gi|308274055|emb|CBX30654.1| hypothetical protein N47_E41660 [uncultured Desulfobacterium sp.]
          Length = 80

 Score = 37.5 bits (85), Expect = 4.0,   Method: Composition-based stats.
 Identities = 8/53 (15%), Positives = 25/53 (47%), Gaps = 5/53 (9%)

Query: 371 PIK-EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
           P++ E     N ++V   +    +   +  I  L++ R + +   ++G++ ++
Sbjct: 30  PLEMEIRQFNNSVSVYFEK----MFLNKSQIRTLEKIRDTLLPKLMSGEVRVK 78


>gi|302062589|ref|ZP_07254130.1| type I restriction-modification system, S subunit [Pseudomonas
           syringae pv. tomato K40]
          Length = 108

 Score = 37.5 bits (85), Expect = 4.1,   Method: Composition-based stats.
 Identities = 5/42 (11%), Positives = 12/42 (28%), Gaps = 4/42 (9%)

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
           EQ  +   ++      D  +    + +  LK  +        
Sbjct: 3   EQQKVAEFLSSV----DDFIAAQARKVTALKIYKKGLTQRLF 40


>gi|241957263|ref|XP_002421351.1| palmitoyltransferase, putative; protein fatty acyltransferase,
           putative [Candida dubliniensis CD36]
 gi|223644695|emb|CAX40685.1| palmitoyltransferase, putative [Candida dubliniensis CD36]
          Length = 443

 Score = 37.5 bits (85), Expect = 4.2,   Method: Composition-based stats.
 Identities = 31/335 (9%), Positives = 88/335 (26%), Gaps = 19/335 (5%)

Query: 82  AKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGW--LLSIDVTQRIEA 139
            + + L  +      +     +   C+           + +                +  
Sbjct: 93  REDETLITEEPISGDRCEWIRYCKKCNNYKPPRSHHCKICKQCVLQMDHHCPWTMNCVGN 152

Query: 140 ICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKK 199
                 M    W   G   + I  +   +   E         +      I  I  +    
Sbjct: 153 NNLPHFMRFLGWVIWGTGYLMIQLIKLIINYYENSNMPHYLFNKTELVAIIVITPINLFV 212

Query: 200 QALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSL 259
            A +  +  + L    K       W     +          +   N +     +      
Sbjct: 213 FATILVLFIRCLINICKGMTQIEIWEWERLELQWSSKRLWRLIRFNYRKLHNDKPFPKLS 272

Query: 260 SYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSA 319
           ++ N I   +  +     +  +    +             N++  +         +I   
Sbjct: 273 TWTNTINNGDYGDDVDVDDVDDVDVEL--------TNLSSNNEEPIVPQNFTIDDLIFPY 324

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKR--LPVLVPPIKE-QF 376
            + +  + I++    ++              +G +  +  + ++   L +  PP    Q 
Sbjct: 325 DLGIWKNLINAMNYPYMWLIPFAK----PKSNGYQPEISQDYLQDDQLNLPWPPDGIRQQ 380

Query: 377 DI-TNVINVETARIDVLVEKIEQSIVLLKERRSSF 410
           +I  NV++ + ++ +   ++  +SI   +E R   
Sbjct: 381 EIEINVLHQQHSQGNE-EDEELRSIRNYQELRRRL 414


>gi|237797998|ref|ZP_04586459.1| HNH endonuclease:S-type Pyocin [Pseudomonas syringae pv. oryzae
           str. 1_6]
 gi|331020849|gb|EGI00906.1| HNH endonuclease:S-type Pyocin [Pseudomonas syringae pv. oryzae
           str. 1_6]
          Length = 508

 Score = 37.5 bits (85), Expect = 4.2,   Method: Composition-based stats.
 Identities = 13/59 (22%), Positives = 25/59 (42%), Gaps = 11/59 (18%)

Query: 371 PIKEQFDITNVIN-----VETARIDVLVEKIEQSIVLLKERRSSFI-----AAA-VTGQ 418
           P   Q +I + ++         +I  L+ + +  I  L E ++S +      A  +TGQ
Sbjct: 13  PNSIQEEIASKLDHNVDYSNEQQIRDLILQEKARINYLIESKNSLLEERCAQALGLTGQ 71


>gi|167620607|ref|ZP_02389238.1| hypothetical protein BthaB_30154 [Burkholderia thailandensis Bt4]
          Length = 199

 Score = 37.5 bits (85), Expect = 4.4,   Method: Composition-based stats.
 Identities = 17/104 (16%), Positives = 34/104 (32%), Gaps = 1/104 (0%)

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
             +   +V  G+++FR   + N    +               +      ++  YL W + 
Sbjct: 62  ELKDRHLVQEGDLLFRSRGVTNSAALVGGGLGRAVLAAPMLLIRSNTEIVEPAYLQWFIN 121

Query: 339 SYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNV 381
                       +G   + L    +  L V +PP++ Q  I  V
Sbjct: 122 HPATQAALAGQAAGTAVKMLGKGVLDGLEVTLPPLERQHLIVEV 165



 Score = 36.3 bits (82), Expect = 8.4,   Method: Composition-based stats.
 Identities = 24/151 (15%), Positives = 50/151 (33%), Gaps = 10/151 (6%)

Query: 33  FTKLNTGRTSES------GKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQI 86
             ++  G +  S        D++ I ++DV+     +       R  +     +  +G +
Sbjct: 15  IAEVRMGYSFRSRLETDADGDVVVIQMKDVDDANLLHPEGLARIRMPELKDRHLVQEGDL 74

Query: 87  LYGKLGPYLRKAIIADFDG----ICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           L+   G     A++    G          +    + V P  LQ ++        +     
Sbjct: 75  LFRSRGVTNSAALVGGGLGRAVLAAPMLLIRSNTEIVEPAYLQWFINHPATQAALAGQAA 134

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
           G  +       +  + + +PPL  Q LI E 
Sbjct: 135 GTAVKMLGKGVLDGLEVTLPPLERQHLIVEV 165


>gi|257457736|ref|ZP_05622898.1| type I restriction enzyme EcoEI specificity protein [Treponema
           vincentii ATCC 35580]
 gi|257444870|gb|EEV19951.1| type I restriction enzyme EcoEI specificity protein [Treponema
           vincentii ATCC 35580]
          Length = 182

 Score = 37.5 bits (85), Expect = 4.6,   Method: Composition-based stats.
 Identities = 13/85 (15%), Positives = 26/85 (30%), Gaps = 8/85 (9%)

Query: 20  AIPKHWKVVPIKRFT-KLNTGRTS------ESGKDIIYIGLEDVESGTGKYLPKDGNSRQ 72
            +P  WK V +   +  + +G++         G ++  +       G  K          
Sbjct: 86  ELPIGWKWVRLGEISHNIESGKSILCKEAVPCGDEVGIVKTGVCSFGYFKEDESKTCLSD 145

Query: 73  SDTSTVSIFAKGQILYGKLGPYLRK 97
            D     +   G   + +   YLR 
Sbjct: 146 KDWHDEYVIHVGDF-FNRTRKYLRI 169


>gi|293401667|ref|ZP_06645809.1| type I restriction-modification system, S subunit
           [Erysipelotrichaceae bacterium 5_2_54FAA]
 gi|291304925|gb|EFE46172.1| type I restriction-modification system, S subunit
           [Erysipelotrichaceae bacterium 5_2_54FAA]
          Length = 58

 Score = 37.5 bits (85), Expect = 4.7,   Method: Composition-based stats.
 Identities = 10/57 (17%), Positives = 27/57 (47%), Gaps = 4/57 (7%)

Query: 365 LPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
           +P+L+P  ++     +      A +D ++      I  L++ R   +   ++G++D+
Sbjct: 1   MPILIPSDEK----LDEFEGIVAPMDAVIRNNYDEICRLEQIRDLLLPKLMSGELDV 53


>gi|328474285|gb|EGF45090.1| cryptic beta-D-galactosidase subunit alpha [Vibrio parahaemolyticus
           10329]
          Length = 1032

 Score = 37.5 bits (85), Expect = 4.7,   Method: Composition-based stats.
 Identities = 34/336 (10%), Positives = 83/336 (24%), Gaps = 20/336 (5%)

Query: 84  GQILYGKLG-PYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICE 142
           G  +  +        A + D   I +         D     +        +         
Sbjct: 392 GLFVMAETDVETHGFANVGDLSRITNDPTWEAVFVDRAVRHVHAQKNHPSIIMWSLGNES 451

Query: 143 GATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQAL 202
           G   +                +  +     +++     + +       F E   EK + +
Sbjct: 452 GYGCNIRAMYTATKAIDDTRLVHYEEDRDAEVVDVISTMYSRAQLMNYFGEHPHEKPRII 511

Query: 203 VSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYG 262
             Y    G  P    +   + +         V  +         ++    E       YG
Sbjct: 512 CEYAHAMGNGPGGLTEYQNVFYAHDHIQGHYVWEWCDHGILA--RDEHGQEFYKYGGDYG 569

Query: 263 NIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA 322
           +          GL          +   + V   + ++  +       V  +   T+  + 
Sbjct: 570 DYPNNYNFCMDGLIYPDQTPGPGLKEYKQVIAPVKIRAVEGCHGHFIVENKLWFTN--LD 627

Query: 323 VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVI 382
                 D       +RS           S           + + + +P + E+    N  
Sbjct: 628 DYTITADVRAEGETLRSVQFKVEALVANSA----------REVSIDLPELDEREAFVNFT 677

Query: 383 NVETARIDVLVEKIEQSIVLLK-ERR--SSFIAAAV 415
             + +R   L  +    I + + + +  ++ + A V
Sbjct: 678 VRKDSR--TLYSEANHEIAVYQFQLKENTATLPALV 711


>gi|195573333|ref|XP_002104648.1| GD18327 [Drosophila simulans]
 gi|194200575|gb|EDX14151.1| GD18327 [Drosophila simulans]
          Length = 422

 Score = 37.5 bits (85), Expect = 4.7,   Method: Composition-based stats.
 Identities = 8/35 (22%), Positives = 14/35 (40%)

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
           EQ  +   +      +D L    +Q +  LKE + 
Sbjct: 145 EQQRVAPNVEALDKELDELKRSEQQLLSELKELKK 179


>gi|13508028|ref|NP_109977.1| this protein specifications means only that it IS a type I
           restriction with enzyme ecokI specificity protein
           [Mycoplasma pneumoniae M129]
 gi|12229981|sp|P75488|T1SZ_MYCPN RecName: Full=Putative type-1 restriction enzyme specificity
           protein MPN_289; AltName: Full=S.MpnORFEBP; AltName:
           Full=Type I restriction enzyme specificity protein
           MPN_289; Short=S protein
 gi|1674243|gb|AAB96194.1| HsdS1B [Mycoplasma pneumoniae M129]
          Length = 187

 Score = 37.5 bits (85), Expect = 4.7,   Method: Composition-based stats.
 Identities = 22/122 (18%), Positives = 38/122 (31%), Gaps = 5/122 (4%)

Query: 288 PGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY 347
            GE V    D      S+               + V    I   +LA+ +R      V Y
Sbjct: 54  KGEYVTWTTDGA-QAGSVFYRNGQFNATNVCGILKVNNDEIYPKFLAYALRLKAPKFVNY 112

Query: 348 AMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSI-VLLKER 406
           A        L    +  + +     K Q  I  +++  T     L  ++   +   L+ER
Sbjct: 113 ACP---IPKLMQGTLAEIELDFTSKKIQEKIATILDTFTELSAELSAELSAELSAELRER 169

Query: 407 RS 408
           + 
Sbjct: 170 KK 171


>gi|183596982|ref|ZP_02958475.1| hypothetical protein PROSTU_00211 [Providencia stuartii ATCC 25827]
 gi|188023635|gb|EDU61675.1| hypothetical protein PROSTU_00211 [Providencia stuartii ATCC 25827]
          Length = 500

 Score = 37.5 bits (85), Expect = 4.8,   Method: Composition-based stats.
 Identities = 11/34 (32%), Positives = 18/34 (52%)

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            +++     I+  VE IEQ I  L+++R S I  
Sbjct: 462 EILSEHYDNIEQKVEDIEQQIAELEKKRQSLINQ 495


>gi|21355155|ref|NP_651209.1| Autophagy-specific gene 6 [Drosophila melanogaster]
 gi|13123993|sp|Q9VCE1|BECN1_DROME RecName: Full=Beclin-1-like protein; AltName: Full=Autophagy
           protein 6-like; Short=APG6-like
 gi|7301093|gb|AAF56227.1| Autophagy-specific gene 6 [Drosophila melanogaster]
 gi|16769506|gb|AAL28972.1| LD35669p [Drosophila melanogaster]
          Length = 422

 Score = 37.5 bits (85), Expect = 4.8,   Method: Composition-based stats.
 Identities = 8/35 (22%), Positives = 14/35 (40%)

Query: 374 EQFDITNVINVETARIDVLVEKIEQSIVLLKERRS 408
           EQ  +   +      +D L    +Q +  LKE + 
Sbjct: 145 EQQRVAPNVEALDKELDELKRSEQQLLSELKELKK 179


>gi|13358010|ref|NP_078284.1| type I restriction enzyme S protein (fragment) [Ureaplasma parvum
           serovar 3 str. ATCC 700970]
 gi|168281624|ref|ZP_02689291.1| type I restriction enzyme S protein [Ureaplasma parvum serovar 14
           str. ATCC 33697]
 gi|170762359|ref|YP_001752532.1| type I restriction enzyme S protein [Ureaplasma parvum serovar 3
           str. ATCC 27815]
 gi|11357073|pir||E82889 type I restriction enzyme S protein, truncated homolog UU447
           [imported] - Ureaplasma urealyticum
 gi|6899439|gb|AAF30859.1|AE002141_5 type I restriction enzyme S protein (fragment) [Ureaplasma parvum
           serovar 3 str. ATCC 700970]
 gi|168827936|gb|ACA33198.1| type I restriction enzyme S protein [Ureaplasma parvum serovar 3
           str. ATCC 27815]
 gi|182676136|gb|EDT88041.1| type I restriction enzyme S protein [Ureaplasma parvum serovar 14
           str. ATCC 33697]
          Length = 124

 Score = 37.1 bits (84), Expect = 4.9,   Method: Composition-based stats.
 Identities = 15/55 (27%), Positives = 27/55 (49%), Gaps = 6/55 (10%)

Query: 369 VPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKE-----RRSSFIAAAVTGQ 418
           +PP+ EQ  I + IN+    I    ++IEQ +  L+       + S +  A+ G+
Sbjct: 1   MPPLDEQQRIVDKINLLEFFIKQY-DEIEQKLSKLENEFPEKLKKSVLQYAMQGK 54


>gi|134045654|ref|YP_001097140.1| hypothetical protein MmarC5_0613 [Methanococcus maripaludis C5]
 gi|132663279|gb|ABO34925.1| hypothetical protein MmarC5_0613 [Methanococcus maripaludis C5]
          Length = 191

 Score = 37.1 bits (84), Expect = 4.9,   Method: Composition-based stats.
 Identities = 26/145 (17%), Positives = 50/145 (34%), Gaps = 14/145 (9%)

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMA---- 322
             E  +     E      +    +I+ R   L+    +    +  E  +I S +      
Sbjct: 44  NKEFLDEFYTLEEISNEYLTSENDIIVR---LREPVFACSIEKENEGLLIPSYFAKLSIN 100

Query: 323 -VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQS-LKFEDVKRLPVLVPPIKEQFDITN 380
                   S Y+A  + S +  K F     G   S +K + ++ L +    I++Q  I  
Sbjct: 101 EEYSKEFLSKYVAHYINSKNAQKEFKKDTEGSVISMIKLKAIENLEIPEVLIEKQEKIIK 160

Query: 381 VINVETARIDVLVEKIEQSIVLLKE 405
           +     A       K+ + + +LKE
Sbjct: 161 I-----AEFKQKELKLLKELTILKE 180


>gi|325478472|gb|EGC81586.1| hypothetical protein HMPREF9290_0870 [Anaerococcus prevotii
           ACS-065-V-Col13]
          Length = 701

 Score = 37.1 bits (84), Expect = 5.0,   Method: Composition-based stats.
 Identities = 19/155 (12%), Positives = 49/155 (31%), Gaps = 10/155 (6%)

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQV 310
                   LS  NI +   +           +      G+++       N          
Sbjct: 548 YDCDGFSYLSNSNIAKGFVSGPYSSFAGDVSSLFYASEGDLIISKTFPYN----TAIVDD 603

Query: 311 MERGIITSAYM--AVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVL 368
             + ++        +  +  D  Y+   ++S    ++  +       +L  + +K L V 
Sbjct: 604 GNKYLVNDNLFVLRIDKNKADPYYILAFLKSKKTKELIKSKLKNS-NNLSMKVLKNLEVA 662

Query: 369 VPPIKEQFDITNVINVETARIDVL---VEKIEQSI 400
           +  ++++ DI N I    A+       + + E+ +
Sbjct: 663 LYSMEKREDIKNNIMDNLAKTKKAYKNISEFEKEL 697


>gi|284005606|ref|YP_003391426.1| hypothetical protein Slin_6670 [Spirosoma linguale DSM 74]
 gi|283820790|gb|ADB42627.1| hypothetical protein Slin_6670 [Spirosoma linguale DSM 74]
          Length = 109

 Score = 37.1 bits (84), Expect = 5.2,   Method: Composition-based stats.
 Identities = 8/59 (13%), Positives = 19/59 (32%), Gaps = 8/59 (13%)

Query: 20 AIPKHWKVVPIKRFTK-LNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTST 77
           +P  W+ V +    + +  G T  +     +       +G   ++        +D S 
Sbjct: 30 DLPTEWQWVKLDDVCEKILGGGTPSTKNTDYW-------NGNIDWITSADIYGINDMSK 81


>gi|257900282|ref|ZP_05679935.1| type I restriction-modification system specificity subunit
          [Enterococcus faecium Com15]
 gi|257838194|gb|EEV63268.1| type I restriction-modification system specificity subunit
          [Enterococcus faecium Com15]
          Length = 75

 Score = 37.1 bits (84), Expect = 5.2,   Method: Composition-based stats.
 Identities = 8/51 (15%), Positives = 15/51 (29%), Gaps = 4/51 (7%)

Query: 25 WKVVPIKRFTKLNTGRTSESGKDIIYIG----LEDVESGTGKYLPKDGNSR 71
          W+   +     +  G T  +     + G       VE G   Y+ +     
Sbjct: 24 WEQRKLGEVADIIGGGTPSTNVSEYWNGDIDWYSPVEIGNQIYIDESQKKI 74


>gi|225436735|ref|XP_002266031.1| PREDICTED: hypothetical protein [Vitis vinifera]
 gi|296086608|emb|CBI32243.3| unnamed protein product [Vitis vinifera]
          Length = 741

 Score = 37.1 bits (84), Expect = 5.3,   Method: Composition-based stats.
 Identities = 13/58 (22%), Positives = 28/58 (48%), Gaps = 7/58 (12%)

Query: 360 EDVKRLPVLVPPIKEQFDITNVINVETAR-IDVLVEKIEQSIVLLKERRSSFIAAAVT 416
           + ++R+ + +PP++E+  I   I+ +    ID  + +I +S  +L           VT
Sbjct: 646 DRMRRIKIPLPPVEERKKIVEDIDKDRRYAIDASIVRIMKSRKILSH------QQLVT 697


>gi|255525764|ref|ZP_05392695.1| type I restriction enzyme, methylase subunit [Clostridium
           carboxidivorans P7]
 gi|296188049|ref|ZP_06856441.1| hypothetical protein CLCAR_3564 [Clostridium carboxidivorans P7]
 gi|255510587|gb|EET86896.1| type I restriction enzyme, methylase subunit [Clostridium
           carboxidivorans P7]
 gi|296047175|gb|EFG86617.1| hypothetical protein CLCAR_3564 [Clostridium carboxidivorans P7]
          Length = 191

 Score = 37.1 bits (84), Expect = 5.3,   Method: Composition-based stats.
 Identities = 23/136 (16%), Positives = 49/136 (36%), Gaps = 14/136 (10%)

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
           + +    +  G++VF  I       ++   +        +    +  + IDS +L +++ 
Sbjct: 57  TNDKVNTLCHGDVVFSLITGI---ATIVRKEHEGYLYTQNYVKLLPSNNIDSKFLVYIIN 113

Query: 339 SYDLCKVFYAMG-SGLRQ-SLKFEDVKRLPVL-VPPIKEQFDITN------VINVETARI 389
                K  + +G  G +      + +K L +  +P I +Q  I         +     R 
Sbjct: 114 ENKTIKKQFVLGLQGSQVLKYTLKQLKELEIPKIPSIDKQKIIGQVYFNQLRLQALRNRA 173

Query: 390 DVLVEKIEQSIVLLKE 405
             L  KI   +  L+E
Sbjct: 174 AELETKIR--LSKLEE 187


>gi|320013188|gb|ADW08036.1| hypothetical protein Sfla_6746 [Streptomyces flavogriseus ATCC
           33331]
          Length = 396

 Score = 37.1 bits (84), Expect = 5.4,   Method: Composition-based stats.
 Identities = 17/101 (16%), Positives = 38/101 (37%), Gaps = 1/101 (0%)

Query: 303 RSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFED 361
            +  + +  +     S  +        + ++   + +        A  SG  + +L    
Sbjct: 82  AASVTGEHEDWNTARSVAVVRCAAPALAEWVRVWLTAPAARAWCVAHASGSAQATLGLAK 141

Query: 362 VKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVL 402
           ++RLPV +PP+  Q  +   +    ARI+      E ++ L
Sbjct: 142 LRRLPVPMPPLGVQDRVLRTVKTIEARIEANERIAETAVAL 182


>gi|67476356|ref|XP_653781.1| tyrosine kinase [Entamoeba histolytica HM-1:IMSS]
 gi|56470765|gb|EAL48394.1| tyrosine kinase, putative [Entamoeba histolytica HM-1:IMSS]
          Length = 1348

 Score = 37.1 bits (84), Expect = 5.4,   Method: Composition-based stats.
 Identities = 23/275 (8%), Positives = 57/275 (20%), Gaps = 11/275 (4%)

Query: 72  QSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSI 131
              +          I+  +L     K    D+   C   + +    + +   L  W   I
Sbjct: 542 NKCSKGYYKKINNDIILCELTINNCKIYQEDYCIECENGYYLDNINECILAPLHCWKYDI 601

Query: 132 DVTQRIEAICEGATMSHAD----WKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITE 187
           D  +          ++          I N         +     +     + + +  I  
Sbjct: 602 DNNKCTVCDLNTNNINGMCLEYEQCEINNTLGITNEYFKINNYCKYFDRSSNKCNDCIEN 661

Query: 188 RIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRK 247
                       Q  +  +        +    SG                        + 
Sbjct: 662 YHVGANGDC--IQNNIEELKMDLYEHCLSYTSSGCSRCIDSYYFNYQTKQCEACHNSCKH 719

Query: 248 NTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRS 307
            +    +   +    +        N     E  +    +  G +    I L   +  ++ 
Sbjct: 720 CSGPSSTECTTCDSSHFFLNGTCEN----NEELKNKCNIIIG-VENSKICLSCKEGFVKQ 774

Query: 308 AQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDL 342
                      +    + H  +     +L  S   
Sbjct: 775 GFECNECPKNCSSCYDQEHCFECKESFYLKNSLCY 809


>gi|325973135|ref|YP_004250199.1| hypothetical protein MSU_0275 [Mycoplasma suis str. Illinois]
 gi|323651737|gb|ADX97819.1| hypothetical protein MSU_0275 [Mycoplasma suis str. Illinois]
          Length = 87

 Score = 37.1 bits (84), Expect = 5.6,   Method: Composition-based stats.
 Identities = 11/89 (12%), Positives = 29/89 (32%), Gaps = 4/89 (4%)

Query: 333 LAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
           + +      L      +     + LK   ++   VL+P  K      ++      +I+ L
Sbjct: 1   MLFFSLQKKLIFWNSEITGTTLKHLKKGILQEHLVLLPDQKTLEKFNSICEDIQLKIEKL 60

Query: 393 VEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
                + I   +  R   +    + ++ +
Sbjct: 61  T----KKIENSERIRDKLLDKLFSQKVKI 85


>gi|302503817|ref|XP_003013868.1| hypothetical protein ARB_07980 [Arthroderma benhamiae CBS 112371]
 gi|291177434|gb|EFE33228.1| hypothetical protein ARB_07980 [Arthroderma benhamiae CBS 112371]
          Length = 765

 Score = 37.1 bits (84), Expect = 5.8,   Method: Composition-based stats.
 Identities = 8/36 (22%), Positives = 16/36 (44%), Gaps = 3/36 (8%)

Query: 382 INVETARI---DVLVEKIEQSIVLLKERRSSFIAAA 414
           I  +   I   + L++K ++ I  LKE + +     
Sbjct: 653 IEKKDKEIQRQEKLIQKKDKEIQRLKESKDALSQEL 688


>gi|227528989|ref|ZP_03959038.1| possible type I restriction system specificity protein
           [Lactobacillus vaginalis ATCC 49540]
 gi|227351094|gb|EEJ41385.1| possible type I restriction system specificity protein
           [Lactobacillus vaginalis ATCC 49540]
          Length = 159

 Score = 37.1 bits (84), Expect = 5.9,   Method: Composition-based stats.
 Identities = 22/161 (13%), Positives = 51/161 (31%), Gaps = 9/161 (5%)

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRF----IDLQNDKRSLRSAQVM 311
           + S+ YG  + K +    G K    + +      + +       I  +       S    
Sbjct: 1   MYSIKYGKTLPKSQLLRTGTKVFGAKGFMGYTERKPLVNKATVTITSRGSGAGFVSYIDE 60

Query: 312 ERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPP 371
           E   +T+  + +           + +        F  +    +  L   ++K+L + +P 
Sbjct: 61  EEAFLTNNLLYLIDKTGLGLSFTYELIKSSKPSQF--VTGSAQPQLTINNLKQLKLKIPT 118

Query: 372 IKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
                 I       T RI+  +   +     L++ R +F+ 
Sbjct: 119 D---RFIIEQFKNNTKRIEDCMSNNKIENNSLQKLRLAFLN 156


>gi|254503197|ref|ZP_05115348.1| Transglycosylase SLT domain protein [Labrenzia alexandrii DFL-11]
 gi|222439268|gb|EEE45947.1| Transglycosylase SLT domain protein [Labrenzia alexandrii DFL-11]
          Length = 464

 Score = 37.1 bits (84), Expect = 6.0,   Method: Composition-based stats.
 Identities = 8/45 (17%), Positives = 16/45 (35%), Gaps = 2/45 (4%)

Query: 379 TNVINVETARIDVLVEKIEQSIV--LLKERRSSFIAAAVTGQIDL 421
              +      I+  ++     I   L+  RR   +   V G+ D+
Sbjct: 63  VEFLRAFDTHINKGIKNETDKIAVVLIPTRRDRLLPDLVEGKGDV 107


>gi|329575633|gb|EGG57166.1| hypothetical protein HMPREF9520_01720 [Enterococcus faecalis
           TX1467]
          Length = 68

 Score = 37.1 bits (84), Expect = 6.1,   Method: Composition-based stats.
 Identities = 7/58 (12%), Positives = 24/58 (41%), Gaps = 4/58 (6%)

Query: 355 QSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           + +   ++ ++ + +   +EQ  I +        +D  +   +  +  LK  + S++ 
Sbjct: 11  KKINLGEINQVEMKITIFEEQDKIGD----LFTNLDDAIILNQNKLNQLKSLKKSYLQ 64


>gi|268592333|ref|ZP_06126554.1| proline permease [Providencia rettgeri DSM 1131]
 gi|291312118|gb|EFE52571.1| proline permease [Providencia rettgeri DSM 1131]
          Length = 500

 Score = 37.1 bits (84), Expect = 6.1,   Method: Composition-based stats.
 Identities = 10/34 (29%), Positives = 18/34 (52%)

Query: 380 NVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            +++     I+  VE I+Q I  L+++R S I  
Sbjct: 462 EILSEHFDNIEQKVEDIDQQIAELEKKRQSLINQ 495


>gi|325473094|gb|EGC76292.1| DNA methylase BstVI [Treponema denticola F0402]
          Length = 418

 Score = 36.7 bits (83), Expect = 6.4,   Method: Composition-based stats.
 Identities = 38/368 (10%), Positives = 103/368 (27%), Gaps = 41/368 (11%)

Query: 56  VESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQ 115
           +E GT K L +  +             K   +Y ++ PY           + +  +    
Sbjct: 32  LEFGTYKTLYQKWDLYIPFIEKSLQLLKNDGIYSQIVPYP----------VTNQNYAKRL 81

Query: 116 PKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLI-REKI 174
            + ++ +     +  +   +  E+      +         N        ++Q  I     
Sbjct: 82  RQIIINKYDLFEITDLKGIKVFESATVTNCILFIKKVLPRNHVRISNFNSKQNNIKVVFT 141

Query: 175 IAETVRID----------TLITERIRFIELLKEKKQALVSY-IVTKGLNPDVKMKDSGIE 223
            + T  +             I    R   +        +S  +V       V+ K    +
Sbjct: 142 KSYTELVQDEKTVVWNLTQDIRNTNRHANMYTLGDFCYISKGMVLNSDEKIVQDKFVKAD 201

Query: 224 WVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETY 283
            +  + D      F            ++      ++     + +   + +    +     
Sbjct: 202 LISELKDDIHNMKFIESKDIERYHVKRIRFLEYNTMRVPKRLSRPTFKELYFTKKLLFNR 261

Query: 284 ----QIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGID-------STY 332
               Q+V      +   D        +    +E   IT++      H  +         +
Sbjct: 262 LGDLQVVFDKNGEYTTSDAMFVAILWKDLHGVENKSITTSIKKFSHHTRNEMEKLSEKIH 321

Query: 333 LAWLM--RSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
           L +++   +     +      G    +  E ++ +P+ + P ++Q  I ++++       
Sbjct: 322 LLYILAIMNSHYANILLTNIRGGDYHIYPEHIRNIPIPLAPKEQQKPIIDLVDQI----- 376

Query: 391 VLVEKIEQ 398
            L+ K + 
Sbjct: 377 -LIAKQKN 383


>gi|309972508|gb|ADO95709.1| Hypothetical protein R2846_0247 [Haemophilus influenzae R2846]
          Length = 482

 Score = 36.7 bits (83), Expect = 6.6,   Method: Composition-based stats.
 Identities = 32/376 (8%), Positives = 84/376 (22%), Gaps = 44/376 (11%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS----- 79
           W +V         + +      +  YI   D+   T  ++ K+                 
Sbjct: 113 WNIVQNDFLKSFISEKFDFIIGNPPYITYSDLNKTTRSFIKKNFTVCSEGKPDYYYAFIE 172

Query: 80  -------------IFAKGQILYGKLGPYLRKAIIADFDGIC-------------STQFLV 113
                              I   +    LR  ++     I              S+  ++
Sbjct: 173 RSIKALADDGKLAYLIPNNIFKNRFADRLRVFMLPHLSVIVDYTTEKLFENKLTSSAIII 232

Query: 114 LQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
                   ++     +     +  +       +         N           +     
Sbjct: 233 CNGTQHNNDIRYVDKVKKREIKMHKNNLTHKWIFRKKEVAKENKKRKFGDDFNAMCPIAT 292

Query: 174 IIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWE 233
           ++ E   +          +    + ++ ++   V+        ++    E++     + +
Sbjct: 293 LLNEVFILKKYEECDEYILVNGYKIEKTILREAVSP-----RSLQYGRKEFLIFPYSYRD 347

Query: 234 VKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVF 293
                       ++           +   N   K E         S    ++     ++ 
Sbjct: 348 NNILRYEELGFIQEFPGAYSYLKFFIEKLNKRDKDENAKWFEFGRSQALSRLNQEKLLLS 407

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY---AMG 350
             I  +     +   QV   GI        +   +       +++S D     Y      
Sbjct: 408 TLITEEVKIHHISRNQVPYSGIC-----IYQKGDLSLEIAEKILKSDDFLNYVYDIGINA 462

Query: 351 SGLRQSLKFEDVKRLP 366
           SG    +   DV    
Sbjct: 463 SGTTMRITARDVMNFE 478


>gi|219855646|ref|YP_002472768.1| hypothetical protein CKR_2303 [Clostridium kluyveri NBRC 12016]
 gi|219569370|dbj|BAH07354.1| hypothetical protein [Clostridium kluyveri NBRC 12016]
          Length = 191

 Score = 36.7 bits (83), Expect = 6.6,   Method: Composition-based stats.
 Identities = 25/134 (18%), Positives = 51/134 (38%), Gaps = 10/134 (7%)

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
           + +    +  G++VF  I       ++   +        +    +  H IDS +L +L+ 
Sbjct: 57  TNDKVNTLCHGDVVFSLITGT---AAMVRKEHEGYLYTQNYVKLLPGHNIDSKFLVYLIN 113

Query: 339 SYDLCKVFYAMG-SGLRQ-SLKFEDVKRLPVL-VPPIKEQFDITN-VINVE-TARIDVLV 393
                K  + +G  G +      + +K L +  +P I +Q  I     N      +    
Sbjct: 114 ENKTIKKQFVLGLQGSQVLKYTLKQLKELEIPRIPSIDKQKIIGQVYFNQLRLKTLRNRA 173

Query: 394 EKIEQSIVL--LKE 405
            ++E  I+L  L+E
Sbjct: 174 AELEAKIILSRLEE 187


>gi|167761887|ref|ZP_02434014.1| hypothetical protein BACSTE_00230 [Bacteroides stercoris ATCC
           43183]
 gi|167700257|gb|EDS16836.1| hypothetical protein BACSTE_00230 [Bacteroides stercoris ATCC
           43183]
          Length = 257

 Score = 36.7 bits (83), Expect = 6.6,   Method: Composition-based stats.
 Identities = 22/148 (14%), Positives = 41/148 (27%), Gaps = 21/148 (14%)

Query: 10  YKDSGVQ--WIGA----IPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKY 63
           YK SG +  W       IPK W    IK    + TG+             +DV       
Sbjct: 23  YKSSGGEMVWNEKLRRDIPKGWSCSDIKSALNIFTGK-------------KDVSKAIPGP 69

Query: 64  LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPEL 123
                 + +  +S   ++    +L    G Y  +    +       +      K      
Sbjct: 70  YKFFSCAPEPISSNEYMYDGEVVLVSGNGSYTGRVGYFNGKFDLYQRTYACVLKSESDTW 129

Query: 124 L--QGWLLSIDVTQRIEAICEGATMSHA 149
           +    + L             G+++ + 
Sbjct: 130 MPFYYYTLRYMFQPVFSGGKHGSSIPYI 157



 Score = 36.3 bits (82), Expect = 8.6,   Method: Composition-based stats.
 Identities = 21/194 (10%), Positives = 48/194 (24%), Gaps = 8/194 (4%)

Query: 230 DHWEVKPFFALVTELNRKNTKLIESNILSLSYGNII-QKLETRNMGLKPESYETYQIVDP 288
           +    +     + +    +      NI +             +     PE   + + +  
Sbjct: 29  EMVWNEKLRRDIPKGWSCSDIKSALNIFTGKKDVSKAIPGPYKFFSCAPEPISSNEYMYD 88

Query: 289 GEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYA 348
           GE+V    +     R +            +    +K          +    Y    VF  
Sbjct: 89  GEVVLVSGNGSYTGR-VGYFNGKFDLYQRTYACVLKSESDTWMPFYYYTLRYMFQPVFSG 147

Query: 349 MGSGL-RQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
              G     +   D+         +       +++          + K EQ I    E  
Sbjct: 148 GKHGSSIPYIVLGDLADFKFAK-ELTIINRFVSIVAPMFNEQFKRLVKTEQLIKQRNE-- 204

Query: 408 SSFIAAAVTGQIDL 421
              +   + GQ+ +
Sbjct: 205 --LLPLLMNGQVSV 216


>gi|146183761|ref|XP_001026999.2| hypothetical protein TTHERM_00689960 [Tetrahymena thermophila]
 gi|146143487|gb|EAS06757.2| hypothetical protein TTHERM_00689960 [Tetrahymena thermophila SB210]
          Length = 1913

 Score = 36.7 bits (83), Expect = 6.8,   Method: Composition-based stats.
 Identities = 26/261 (9%), Positives = 60/261 (22%), Gaps = 6/261 (2%)

Query: 58   SGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPK 117
            S  G Y+  + + + +  S  +   +   +Y  +   L    +   +     Q       
Sbjct: 1284 SKNGNYIQVEISFQNNLESIYTRLLEQDDIYFCVSDILGSQCVNSENLDIYQQNFRSNLL 1343

Query: 118  DVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAE 177
             +   L              + + +             +          +          
Sbjct: 1344 FIQKNLPADISHQYVTVIISDQLMQNEKNKLIYQIRWQSWEQKPSDQQLRCPFD------ 1397

Query: 178  TVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPF 237
              +    I       +    +        V     P +   +SGI+W+ + P    +   
Sbjct: 1398 CSQRGQCINGICNCSQDYVGRACEFNLRQVNVKQKPWIAQMESGIQWISVDPQDDIILLD 1457

Query: 238  FALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFID 297
            F          T     +I S    +  QK+      +     +  Q  +    +     
Sbjct: 1458 FKQGLLQVIAFTDFTSFSISSQYLLSEPQKIILDKKYIMKFDLDGEQSSNSNNFLSGSNS 1517

Query: 298  LQNDKRSLRSAQVMERGIITS 318
                K  L       +G    
Sbjct: 1518 TLTQKPLLLCFYSYRQGTNFQ 1538


>gi|53729077|ref|ZP_00348312.1| COG0732: Restriction endonuclease S subunits [Actinobacillus
           pleuropneumoniae serovar 1 str. 4074]
          Length = 216

 Score = 36.7 bits (83), Expect = 6.8,   Method: Composition-based stats.
 Identities = 26/209 (12%), Positives = 59/209 (28%), Gaps = 16/209 (7%)

Query: 215 VKMKDSGIEWVGLVPDHWEVKPFFALVTELNR--KNTKLIESNILSLSYGNIIQKLETRN 272
              K SG E V       +V   +      N   K     +     +     I  ++   
Sbjct: 21  NPYKSSGGEMVYNPELKRDVPKGWECDFVENYLDKVPNTDKIPSKEIQVKGQIPVIDQSQ 80

Query: 273 MGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTY 332
             +   +     +++P +    F D     R ++              + +  +     +
Sbjct: 81  DYICGFTDNENALLEPIDAHIIFGD---HTRVVKLVNFPYARGADGTQIIISNNKKLPNF 137

Query: 333 LAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL 392
           L + M              G  +   ++ +K   VL+P       I    +        L
Sbjct: 138 LFYQM-----IAKIDLSNYGYARH--YKFLKESKVLIPT----EYIAQKYHQTVKPYFDL 186

Query: 393 VEKIEQSIVLLKERRSSFIAAAVTGQIDL 421
            +   +    L + R   +   + GQ+++
Sbjct: 187 WKTNLKETQKLTQLRDFLLPMLMNGQVEV 215


>gi|229846420|ref|ZP_04466528.1| putative site-specific DNA-methyltransferase
           restriction-modification protein [Haemophilus influenzae
           7P49H1]
 gi|229810513|gb|EEP46231.1| putative site-specific DNA-methyltransferase
           restriction-modification protein [Haemophilus influenzae
           7P49H1]
          Length = 475

 Score = 36.7 bits (83), Expect = 6.8,   Method: Composition-based stats.
 Identities = 32/376 (8%), Positives = 84/376 (22%), Gaps = 44/376 (11%)

Query: 25  WKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVS----- 79
           W +V         + +      +  YI   D+   T  ++ K+                 
Sbjct: 106 WNIVQNDFLKSFISEKFDFIIGNPPYITYSDLNKTTRSFIKKNFTVCSEGKPDYYYAFIE 165

Query: 80  -------------IFAKGQILYGKLGPYLRKAIIADFDGIC-------------STQFLV 113
                              I   +    LR  ++     I              S+  ++
Sbjct: 166 RSIKALADDGKLAYLIPNNIFKNRFADRLRVFMLPHLSVIVDYTTEKLFENKLTSSAIII 225

Query: 114 LQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREK 173
                   ++     +     +  +       +         N           +     
Sbjct: 226 CNGTQHNNDIRYVDKVKKREIKMHKNNLTHKWIFRKKEVAKENKKRKFGDDFNAMCPIAT 285

Query: 174 IIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWE 233
           ++ E   +          +    + ++ ++   V+        ++    E++     + +
Sbjct: 286 LLNEVFILKKYEECDEYILVNGYKIEKTILREAVSP-----RSLQYGRKEFLIFPYSYRD 340

Query: 234 VKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVF 293
                       ++           +   N   K E         S    ++     ++ 
Sbjct: 341 NNILRYEELGFIQEFPGAYSYLKFFIEKLNKRDKDENAKWFEFGRSQALSRLNQEKLLLS 400

Query: 294 RFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFY---AMG 350
             I  +     +   QV   GI        +   +       +++S D     Y      
Sbjct: 401 TLITEEVKIHHISRNQVPYSGIC-----IYQKGDLSLEIAEKILKSDDFLNYVYDIGINA 455

Query: 351 SGLRQSLKFEDVKRLP 366
           SG    +   DV    
Sbjct: 456 SGTTMRITARDVMNFE 471


>gi|309799890|ref|ZP_07694095.1| putative HsdS [Streptococcus infantis SK1302]
 gi|308116480|gb|EFO53951.1| putative HsdS [Streptococcus infantis SK1302]
          Length = 74

 Score = 36.7 bits (83), Expect = 7.1,   Method: Composition-based stats.
 Identities = 14/69 (20%), Positives = 33/69 (47%), Gaps = 4/69 (5%)

Query: 353 LRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIA 412
           ++  +  E++ ++ V   P+K  F+I   + V   +   L+E+ +Q    L + R   + 
Sbjct: 8   IQIKINQENMNKIVVPEIPLKLLFEINQKLEVIDKQQLNLIEENKQ----LTQLRDWLLP 63

Query: 413 AAVTGQIDL 421
             + GQ+ +
Sbjct: 64  MLMHGQVKV 72


>gi|238854853|ref|ZP_04645183.1| hypothetical protein LACJE0001_0820 [Lactobacillus jensenii 269-3]
 gi|260664140|ref|ZP_05864993.1| predicted protein [Lactobacillus jensenii SJ-7A-US]
 gi|282933931|ref|ZP_06339279.1| hypothetical protein HMPREF0886_3264 [Lactobacillus jensenii 208-1]
 gi|238832643|gb|EEQ24950.1| hypothetical protein LACJE0001_0820 [Lactobacillus jensenii 269-3]
 gi|260562026|gb|EEX27995.1| predicted protein [Lactobacillus jensenii SJ-7A-US]
 gi|281302020|gb|EFA94274.1| hypothetical protein HMPREF0886_3264 [Lactobacillus jensenii 208-1]
          Length = 429

 Score = 36.7 bits (83), Expect = 7.1,   Method: Composition-based stats.
 Identities = 17/90 (18%), Positives = 36/90 (40%), Gaps = 4/90 (4%)

Query: 320 YMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLP-VLVPPIKEQFDI 378
           Y+ +    +    L  ++RS  + K           ++ F+    L  +++P + EQ  I
Sbjct: 4   YIKLIILCMFLQCLWHIVRSLIIFKKIKHYS---INNINFKKFDGLLYIVIPCLLEQRII 60

Query: 379 TNVINVETARIDVLVEKIEQSIVLLKERRS 408
           +N I+     I+    K +  IV   + + 
Sbjct: 61  SNTIDNFVKAIEESKIKAQLLIVTTNKEKK 90


>gi|153955215|ref|YP_001395980.1| Type I restriction enzyme, methylase subunit [Clostridium kluyveri
           DSM 555]
 gi|146348073|gb|EDK34609.1| Type I restriction enzyme, methylase subunit [Clostridium kluyveri
           DSM 555]
          Length = 191

 Score = 36.7 bits (83), Expect = 7.1,   Method: Composition-based stats.
 Identities = 25/134 (18%), Positives = 51/134 (38%), Gaps = 10/134 (7%)

Query: 279 SYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLAWLMR 338
           + +    +  G++VF  I       ++   +        +    +  H IDS +L +L+ 
Sbjct: 57  TNDKVNTLCHGDVVFSLITGT---AAMVRKEYEGYLYTQNYVKLLPGHNIDSKFLVYLIN 113

Query: 339 SYDLCKVFYAMG-SGLRQ-SLKFEDVKRLPVL-VPPIKEQFDITN-VINVE-TARIDVLV 393
                K  + +G  G +      + +K L +  +P I +Q  I     N      +    
Sbjct: 114 ENKTIKKQFVLGLQGSQVLKYTLKQLKELEIPRIPSIDKQKIIGQVYFNQLRLKTLRNRA 173

Query: 394 EKIEQSIVL--LKE 405
            ++E  I+L  L+E
Sbjct: 174 AELEAKIILSRLEE 187


>gi|63054529|ref|NP_593287.2| AAA family ATPase Cdc48 [Schizosaccharomyces pombe 972h-]
 gi|27151477|sp|Q9P3A7|CDC48_SCHPO RecName: Full=Cell division cycle protein 48
 gi|159883922|emb|CAB99275.2| AAA family ATPase Cdc48 [Schizosaccharomyces pombe]
          Length = 815

 Score = 36.7 bits (83), Expect = 7.1,   Method: Composition-based stats.
 Identities = 17/100 (17%), Positives = 30/100 (30%), Gaps = 7/100 (7%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLED-VESGTGKYLPKDGNSRQSDTSTVSIFAKGQI 86
           V +     +N     +  + I  + L D VE  TG         +           KG +
Sbjct: 114 VRLGDIVTINPCPDIKYAERISVLPLADTVEGLTGSLFDVYL--KPYFVEAYRPIRKGDL 171

Query: 87  LY--GKLGPYLRKAII--ADFDGICSTQFLVLQPKDVLPE 122
               G +     K +    D  GI S   ++    + +  
Sbjct: 172 FVVRGSMRQVEFKVVDVAPDEFGIVSQDTIIHWEGEPINR 211


>gi|290978459|ref|XP_002671953.1| serine/threonine protein kinase [Naegleria gruberi]
 gi|284085526|gb|EFC39209.1| serine/threonine protein kinase [Naegleria gruberi]
          Length = 2148

 Score = 36.7 bits (83), Expect = 7.1,   Method: Composition-based stats.
 Identities = 47/386 (12%), Positives = 108/386 (27%), Gaps = 36/386 (9%)

Query: 32   RFTKLNTGRTSESGKDIIYIGLED-VESGTGKYLPKDGNSRQSDTSTVSIFAKGQILYGK 90
               K+ T     + +++ ++  E  VES T   L K    ++      +   K  IL   
Sbjct: 1203 DVFKILTDHVFTTYEELNFLTQEHTVESLTTWILNKMKYMKEHVLVNFT--QKSDIL--- 1257

Query: 91   LGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHAD 150
                     +  +  IC           +   L + + + + +      +  G T     
Sbjct: 1258 --NLPDIDDLEKWHLICLLTQSCPAVFHMNNSLSKHYFMIMILISSDIVLNNGIT--PLS 1313

Query: 151  WKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKG 210
               I               +   +      ++   T      EL       L+SY  +  
Sbjct: 1314 PLLISVFAWSWCNFEFYPQMNMFLE---AGLEMEKTRFRNEHELASCTLMKLMSYYFSPT 1370

Query: 211  LNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLET 270
            +NP      S   ++  V    +    F+++                S+       ++  
Sbjct: 1371 INPLEVWNISEEAFLLSVKSKNKHYGGFSILWYPFHHLFYSHGDVKTSIGLSLNSIEIFK 1430

Query: 271  RNMGLKPESYETYQIVDPGEIVFRFID--LQNDKRSLRSAQVMERGIITSAYMAVKPHGI 328
            RN  +         I++   ++   +D  L      ++      +   +   +++     
Sbjct: 1431 RNGNVMLMDASK-MILELKYVLSGDVDHYLPTYVSQVKEYPFFRQMHYSFKGISLYFQND 1489

Query: 329  DSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
                   + +SYD  +    M S     +    +  +                +     +
Sbjct: 1490 IEKSFKCMEKSYDFREDSVGMCSSWIDLIFLGLISAI---------------FLRSAQEK 1534

Query: 389  IDVLVEKIEQSIVLLKERRSSFIAAA 414
            I+   E ++ SI  L+      I+ A
Sbjct: 1535 IEKAQEILKYSIERLE-----MISQA 1555


>gi|222523315|ref|YP_002567785.1| MerR family transcriptional regulator [Chloroflexus sp. Y-400-fl]
 gi|222447194|gb|ACM51460.1| transcriptional regulator, MerR family [Chloroflexus sp. Y-400-fl]
          Length = 133

 Score = 36.7 bits (83), Expect = 7.2,   Method: Composition-based stats.
 Identities = 10/46 (21%), Positives = 19/46 (41%), Gaps = 10/46 (21%)

Query: 376 FDITNVIN----------VETARIDVLVEKIEQSIVLLKERRSSFI 411
            +I  ++              A +D  +  I+Q I  L+E R++ I
Sbjct: 62  REIAAILALSDRGEPPCGEMLASLDRQIAAIDQRIADLQELRTALI 107


>gi|315650994|ref|ZP_07904031.1| DNA methylase-type I restriction-modification system [Eubacterium
           saburreum DSM 3986]
 gi|315486750|gb|EFU77095.1| DNA methylase-type I restriction-modification system [Eubacterium
           saburreum DSM 3986]
          Length = 153

 Score = 36.7 bits (83), Expect = 7.5,   Method: Composition-based stats.
 Identities = 21/144 (14%), Positives = 49/144 (34%), Gaps = 10/144 (6%)

Query: 270 TRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAV---KPH 326
           T       E+     I    + +F   D       +      +  IITS+ +     K  
Sbjct: 2   TDTSIYLSENEFKDCIRPKKDTIFLSKDGT---VGIAYKMNKDENIITSSAILHLDVKDE 58

Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSG-LRQSLKFEDVKRLPVLVPPIKEQFDITNVI--- 382
            +   YL  ++ S  +         G +    K  +++ + + +   ++Q  I+ ++   
Sbjct: 59  RVLPDYLTLVLNSVAVKMQAEKDAGGSIINHWKKSEIENVIIPIIVKEKQEQISKLLIEN 118

Query: 383 NVETARIDVLVEKIEQSIVLLKER 406
                    ++EK  +S+ +  E 
Sbjct: 119 ENLRNESKSILEKAVKSVEMAIEY 142


>gi|304372999|ref|YP_003856208.1| Type I site-specific DNA methyltransferase specificity subunit
           [Mycoplasma hyorhinis HUB-1]
 gi|304309190|gb|ADM21670.1| Type I site-specific DNA methyltransferase specificity subunit
           [Mycoplasma hyorhinis HUB-1]
          Length = 232

 Score = 36.7 bits (83), Expect = 7.6,   Method: Composition-based stats.
 Identities = 24/156 (15%), Positives = 53/156 (33%), Gaps = 15/156 (9%)

Query: 230 DHWEVKPFFALVTELNR-KNTKLIESNILSLSYGNIIQKLETRNMGLKPESY------ET 282
             W+           +   +   ++    +  Y   +      N+ LK +S       E 
Sbjct: 23  SDWQSWTLEDKGYLYSGLNSKTKVDFTNGNSKYITYLNVFNNFNIDLKEKSLVFIKSDEK 82

Query: 283 YQIVDPGEIVFRFIDLQNDKRSLRSA---QVMERGIITSAYMAVKPHGID---STYLAWL 336
              +  G+I+F        +  + SA   +V E+  + S     + +  D     + A+L
Sbjct: 83  QNSIVKGDILFTMSSETYQEVGMSSAVTEEVNEKIYLNSFCFGYRLNKADFLFPNFSAFL 142

Query: 337 MRSYDLCK--VFYAMGSGLRQSLKFEDVKRLPVLVP 370
            R++ +    +  + G   R +L  +    L +  P
Sbjct: 143 FRNHSVRHKIILQSNGGTSRFNLSKKSFLNLKIKSP 178


>gi|218441912|ref|YP_002380241.1| hypothetical protein PCC7424_5020 [Cyanothece sp. PCC 7424]
 gi|218174640|gb|ACK73373.1| hypothetical protein PCC7424_5020 [Cyanothece sp. PCC 7424]
          Length = 327

 Score = 36.7 bits (83), Expect = 7.6,   Method: Composition-based stats.
 Identities = 16/78 (20%), Positives = 33/78 (42%), Gaps = 13/78 (16%)

Query: 342 LCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV---INVETARIDVLVEKIEQ 398
           + +    M +  +QS+   DV      VPP + Q  I N    +  +  +ID   ++++ 
Sbjct: 33  IREQQAQMTTYSQQSVDQPDV------VPP-QIQDKIANYQQKLQEKQEKIDRYEQQLKG 85

Query: 399 SIVLLKERRSS---FIAA 413
               L+E ++     + A
Sbjct: 86  LKAELEEYKTQNALLMQA 103


>gi|303248937|ref|ZP_07335184.1| phage shock protein A, PspA [Desulfovibrio fructosovorans JJ]
 gi|302489660|gb|EFL49596.1| phage shock protein A, PspA [Desulfovibrio fructosovorans JJ]
          Length = 226

 Score = 36.7 bits (83), Expect = 7.7,   Method: Composition-based stats.
 Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 6/53 (11%)

Query: 373 KEQFDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV--TGQIDLRG 423
           +EQ  I  +++     I  L    E+ +   KER+ + +   +  TG+  +R 
Sbjct: 106 EEQAAIAGMVDAYREDIGRL----EEKLASAKERQRTLLHRHLRATGKKRVRE 154


>gi|320166954|gb|EFW43853.1| predicted protein [Capsaspora owczarzaki ATCC 30864]
          Length = 327

 Score = 36.7 bits (83), Expect = 7.8,   Method: Composition-based stats.
 Identities = 21/115 (18%), Positives = 45/115 (39%), Gaps = 22/115 (19%)

Query: 324 KPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ-------- 375
            P  +D   +   ++   +      + S   +    E  + +PV V  +KEQ        
Sbjct: 123 FPKELDHKTILRQLKVARMRAELEGISSRGIE----ETFQSMPVPV--LKEQVIESVARS 176

Query: 376 ----FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLRGESQ 426
                +  + +  E+A +D+ + + +++I   +E   +     +  QID  GE Q
Sbjct: 177 VIQLRESIDFMQSESASLDLQIARCQEAIAQHQEMNQALQNKVL--QID--GEDQ 227


>gi|317501643|ref|ZP_07959834.1| hypothetical protein HMPREF1026_01778 [Lachnospiraceae bacterium
            8_1_57FAA]
 gi|316896894|gb|EFV18974.1| hypothetical protein HMPREF1026_01778 [Lachnospiraceae bacterium
            8_1_57FAA]
          Length = 1255

 Score = 36.7 bits (83), Expect = 7.8,   Method: Composition-based stats.
 Identities = 38/373 (10%), Positives = 93/373 (24%), Gaps = 32/373 (8%)

Query: 33   FTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSR--QSDTSTVSIFAKGQILYGK 90
               L+  +T +       +  E V  G       +      + D   +  +++  +++G 
Sbjct: 903  VYSLSNEKTFDITIGDRVLSEEIVSGGRVPVYSANVYEEFGRIDKENMKDYSRPSVIWGI 962

Query: 91   LGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHAD 150
             G ++   I A      +    VL+ K           +  +                 +
Sbjct: 963  DGDWMVNIIPAGVPFYPTDHCGVLRIKTE--------KILPEYMMYALQAEGEYERFSRN 1014

Query: 151  WKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKG 210
             +        +   A +  I++ II E   +D  I  +   IE  +   +     I    
Sbjct: 1015 NRASAQRIRSLVVQAPETKIQKNIIDELKALDDKINGQNAEIEKYENSIRTKFDQIFHL- 1073

Query: 211  LNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLET 270
                        E++               +    R      +         N       
Sbjct: 1074 -----------EEFISDGVFSKYEGYSVEDLCIDGRGRVINQQY------IENHKGPYPV 1116

Query: 271  RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
             +     +           +  +        K      +  +             +   +
Sbjct: 1117 YSSQTTNDGIFGSIDTFDFDGEYITWTTDGAKAGTVFYRNGKFNCTNVCGTLKAKNDKVN 1176

Query: 331  TYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
                  + +    K    +G+     L  + +K++ V VP  + Q +  + +        
Sbjct: 1177 MRYLAYLLNRIAYKFVSRVGN---NKLMNDAMKKIVVPVPKRQLQDEFADFVQSVEKSKF 1233

Query: 391  VLVEKIEQ-SIVL 402
              + K E+  I  
Sbjct: 1234 ECIGKKEKFEIEK 1246


>gi|225550405|ref|ZP_03771354.1| type I restriction modification DNA specificity family protein
           [Ureaplasma urealyticum serovar 2 str. ATCC 27814]
 gi|225379559|gb|EEH01921.1| type I restriction modification DNA specificity family protein
           [Ureaplasma urealyticum serovar 2 str. ATCC 27814]
          Length = 87

 Score = 36.7 bits (83), Expect = 7.9,   Method: Composition-based stats.
 Identities = 11/67 (16%), Positives = 24/67 (35%), Gaps = 7/67 (10%)

Query: 346 FYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVL-------VEKIEQ 398
           F  + S   + L      +L + +PPI  Q  I  V++        +       +E+ ++
Sbjct: 3   FINLKSAEHKRLWITKYSQLSIPIPPISIQNKIVEVLDKLETYTKDINTGLPLEIEQHKK 62

Query: 399 SIVLLKE 405
                + 
Sbjct: 63  QYEYYRN 69


>gi|160887309|ref|ZP_02068312.1| hypothetical protein BACOVA_05327 [Bacteroides ovatus ATCC 8483]
 gi|156107720|gb|EDO09465.1| hypothetical protein BACOVA_05327 [Bacteroides ovatus ATCC 8483]
          Length = 204

 Score = 36.7 bits (83), Expect = 7.9,   Method: Composition-based stats.
 Identities = 10/158 (6%), Positives = 50/158 (31%), Gaps = 8/158 (5%)

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGI 315
           I  ++      +    ++        +  +V    ++            L +   +    
Sbjct: 52  INDITKQGKYVRYTENHLSQSGLENSSAWVVPKYSLIMSMYAS----VGLVTINEIPTTT 107

Query: 316 ITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQ 375
             + +           YL + +  +    +   + +G + ++  + ++ + + +      
Sbjct: 108 SQAMFAMQLKDKGLLDYLYYYLSYFKYRYIHKYLETGTQSNINADIIRGIMIPIYGHSRN 167

Query: 376 FDITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAA 413
            +I + +     +ID  +      + L  ++++  ++ 
Sbjct: 168 MEIASTLQGIDVKIDNELSV----LKLFNKQKNYLLSQ 201


>gi|332076175|gb|EGI86641.1| type I restriction-modification system S subunit [Streptococcus
           pneumoniae GA41301]
          Length = 156

 Score = 36.7 bits (83), Expect = 7.9,   Method: Composition-based stats.
 Identities = 14/156 (8%), Positives = 41/156 (26%), Gaps = 5/156 (3%)

Query: 219 DSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRN----MG 274
             G   +    D+              + +    E   L L+  N+ +   + +    + 
Sbjct: 1   MFGENKIFESIDNLFDIIDGDRGKNYPKSDELFSEEYCLFLNTKNVTKNGFSFDTKQFIT 60

Query: 275 LKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDSTYLA 334
              +       ++  +IV        +          +   I S  + ++P   +     
Sbjct: 61  KTKDKLLRKGKLERYDIVLTTRGTVGNVAYYDELIKYKHLRINSGMVILRPKTPNLNQ-K 119

Query: 335 WLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP 370
           +++           +    +  L    +K+     P
Sbjct: 120 FIIHVLRNNNYSRVISGSAQPQLPITKLKKYFSPSP 155


>gi|331088477|ref|ZP_08337391.1| hypothetical protein HMPREF1025_00974 [Lachnospiraceae bacterium
            3_1_46FAA]
 gi|330407817|gb|EGG87308.1| hypothetical protein HMPREF1025_00974 [Lachnospiraceae bacterium
            3_1_46FAA]
          Length = 1239

 Score = 36.7 bits (83), Expect = 8.1,   Method: Composition-based stats.
 Identities = 38/373 (10%), Positives = 93/373 (24%), Gaps = 32/373 (8%)

Query: 33   FTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSR--QSDTSTVSIFAKGQILYGK 90
               L+  +T +       +  E V  G       +      + D   +  +++  +++G 
Sbjct: 887  VYSLSDEKTFDITIGDRVLSEEIVSGGRVPVYSANVYEEFGRIDKENMKDYSRPSVIWGI 946

Query: 91   LGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHAD 150
             G ++   I A      +    VL+ K           +  +                 +
Sbjct: 947  DGDWMVNIIPAGVPFYPTDHCGVLRIKTE--------KILPEYMMYALQAEGEYERFSRN 998

Query: 151  WKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKG 210
             +        +   A +  I++ II E   +D  I  +   IE  +   +     I    
Sbjct: 999  NRASAQRIRSLVVQAPETKIQKNIIDELKALDDKINGQNAEIEKYENSIRTKFDQIFHL- 1057

Query: 211  LNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLET 270
                        E++               +    R      +         N       
Sbjct: 1058 -----------EEFISDGVFSKYEGYSVEDLCIDGRGRVINQQY------IENHKGPYPV 1100

Query: 271  RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
             +     +           +  +        K      +  +             +   +
Sbjct: 1101 YSSQTTNDGIFGSIDTFDFDGEYITWTTDGAKAGTVFYRNGKFNCTNVCGTLKAKNDKVN 1160

Query: 331  TYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
                  + +    K    +G+     L  + +K++ V VP  + Q +  + +        
Sbjct: 1161 MRYLAYLLNRIAYKFVSRVGN---NKLMNDAMKKIVVPVPTRQLQDEFADFVQSVEKSKF 1217

Query: 391  VLVEKIEQ-SIVL 402
              + K E+  I  
Sbjct: 1218 ECIGKKEKFEIEK 1230


>gi|327403687|ref|YP_004344525.1| N-6 DNA methylase [Fluviicola taffensis DSM 16823]
 gi|327319195|gb|AEA43687.1| N-6 DNA methylase [Fluviicola taffensis DSM 16823]
          Length = 866

 Score = 36.7 bits (83), Expect = 8.1,   Method: Composition-based stats.
 Identities = 22/121 (18%), Positives = 43/121 (35%), Gaps = 2/121 (1%)

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
           LS  +I  +L    +G+  + +E         IV  F+  Q  K +L     +       
Sbjct: 473 LSQNDIYLQLNENILGIDADEFEKPIEAYRDSIVVSFVGSQL-KPTLVPENELIVFNHNL 531

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLC-KVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFD 377
           A + +    +   +LA  ++   +  ++           L  +    L V +P +  Q D
Sbjct: 532 AILQLNTALVLPEFLALELKEDYIETQLLEKRTGTTIPFLTIKGFCSLFVQIPSLAIQKD 591

Query: 378 I 378
           I
Sbjct: 592 I 592


>gi|229057164|ref|ZP_04196554.1| Peptidase, family M23/M37 [Bacillus cereus AH603]
 gi|228720170|gb|EEL71751.1| Peptidase, family M23/M37 [Bacillus cereus AH603]
          Length = 424

 Score = 36.7 bits (83), Expect = 8.2,   Method: Composition-based stats.
 Identities = 13/46 (28%), Positives = 20/46 (43%), Gaps = 4/46 (8%)

Query: 375 QFDITN---VINVETARIDVLVEKIEQSIVLLKER-RSSFIAAAVT 416
           Q  I      I      ID   E I+Q +  ++E+ R+S I   +T
Sbjct: 94  QQAIAEKKKHIEQLQTNIDTRQEVIKQRLQSMQEKPRTSIITEVLT 139


>gi|153815281|ref|ZP_01967949.1| hypothetical protein RUMTOR_01515 [Ruminococcus torques ATCC 27756]
 gi|145847343|gb|EDK24261.1| hypothetical protein RUMTOR_01515 [Ruminococcus torques ATCC 27756]
          Length = 1255

 Score = 36.3 bits (82), Expect = 8.7,   Method: Composition-based stats.
 Identities = 38/373 (10%), Positives = 93/373 (24%), Gaps = 32/373 (8%)

Query: 33   FTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSR--QSDTSTVSIFAKGQILYGK 90
               L+  +T +       +  E V  G       +      + D   +  +++  +++G 
Sbjct: 903  VYSLSDEKTFDITIGDRVLSEEIVSGGRVPVYSANVYEEFGRIDKENMKDYSRPSVIWGI 962

Query: 91   LGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIEAICEGATMSHAD 150
             G ++   I A      +    VL+ K           +  +                 +
Sbjct: 963  DGDWMVNIIPAGVPFYPTDHCGVLRIKTE--------KILPEYMMYALQAEGEYERFSRN 1014

Query: 151  WKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEKKQALVSYIVTKG 210
             +        +   A +  I++ II E   +D  I  +   IE  +   +     I    
Sbjct: 1015 NRASAQRIRSLVVQAPETKIQKNIIDELKALDDKINGQNAEIEKYENSIRTKFDQIFHL- 1073

Query: 211  LNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQKLET 270
                        E++               +    R      +         N       
Sbjct: 1074 -----------EEFISDGVFSKYEGYSVEDLCIDGRGRVINQQY------IENHKGPYPV 1116

Query: 271  RNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITSAYMAVKPHGIDS 330
             +     +           +  +        K      +  +             +   +
Sbjct: 1117 YSSQTTNDGIFGSIDTFDFDGEYITWTTDGAKAGTVFYRNGKFNCTNVCGTLKAKNDKVN 1176

Query: 331  TYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
                  + +    K    +G+     L  + +K++ V VP  + Q +  + +        
Sbjct: 1177 MRYLAYLLNRIAYKFVSRVGN---NKLMNDAMKKIVVPVPTRQLQDEFADFVQSVEKSKF 1233

Query: 391  VLVEKIEQ-SIVL 402
              + K E+  I  
Sbjct: 1234 ECIGKKEKFEIEK 1246


>gi|126334897|ref|XP_001375777.1| PREDICTED: similar to poly(A)-specific ribonuclease [Monodelphis
           domestica]
          Length = 638

 Score = 36.3 bits (82), Expect = 8.8,   Method: Composition-based stats.
 Identities = 20/150 (13%), Positives = 44/150 (29%), Gaps = 11/150 (7%)

Query: 251 LIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRS-LRSAQ 309
               + L   +G    K ++ +     +S+  Y    P    F              S  
Sbjct: 59  KHSMDFLLFQFGLCTFKYDSTDSKYIMKSFNFYVFPKP----FSRTSPDVKFVCQSSSID 114

Query: 310 VMERGIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLV 369
            +         +        +      +R     K   + G+G    +      + PV++
Sbjct: 115 FLANQGFDFNKVFRNGIPYLNQEEERQLREQYDEKRSQSNGAGALSYISPNA-SKCPVII 173

Query: 370 PPIKEQFDITNVINVETARIDVLVEKIEQS 399
           P  ++Q      I+    +I+ L++  E  
Sbjct: 174 P--EDQKK---FIDKVVEKIEDLIQNEENK 198


>gi|240948005|ref|ZP_04752423.1| N-6 DNA methylase [Actinobacillus minor NM305]
 gi|240297675|gb|EER48149.1| N-6 DNA methylase [Actinobacillus minor NM305]
          Length = 581

 Score = 36.3 bits (82), Expect = 9.2,   Method: Composition-based stats.
 Identities = 17/129 (13%), Positives = 37/129 (28%), Gaps = 9/129 (6%)

Query: 256 ILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMER-- 313
           I    Y +   K    +  L      +  ++   +I+            +    + +   
Sbjct: 424 IPEFGYIDTASKENYIDNELMN--ILSPHLLQENDIIITVRGSSGKVGIVSKELLNKYQG 481

Query: 314 ----GIITSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLR-QSLKFEDVKRLPVL 368
               G          P  +++  L   +RS         + SG     L  +D+K   V 
Sbjct: 482 KVIIGQANLILRVKDPQNVNAIALLMQLRSELSQSRLQVLSSGAVLSGLSVKDLKEFLVA 541

Query: 369 VPPIKEQFD 377
              +++Q  
Sbjct: 542 NFSLEKQKK 550


>gi|209554184|ref|YP_002284452.1| restriction modification enzyme subunit s2a [Ureaplasma urealyticum
           serovar 10 str. ATCC 33699]
 gi|209541685|gb|ACI59914.1| restriction modification enzyme subunit s2a [Ureaplasma urealyticum
           serovar 10 str. ATCC 33699]
          Length = 213

 Score = 36.3 bits (82), Expect = 9.4,   Method: Composition-based stats.
 Identities = 13/122 (10%), Positives = 36/122 (29%), Gaps = 4/122 (3%)

Query: 266 QKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDK-RSLRSAQVMERGIITSAYMAVK 324
            +     +  K      Y  ++  +     I +      +       +   +T+      
Sbjct: 28  NQGIYPVISSKTTENGIYGFINRYDYEKNKITMSLIGENAGTFFWQEKNFSLTNNACVFI 87

Query: 325 PHGIDSTYLAWLMRSYDLCKVFYA---MGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNV 381
            +   +    +L  +    +       +    R  +    +K + V +P I+ Q  I ++
Sbjct: 88  SNKNINYNYKYLFITLKKHEYKIKEFIVIGSARPMISSNHLKLVDVNLPSIEIQDAIISI 147

Query: 382 IN 383
           I 
Sbjct: 148 IE 149


>gi|189463963|ref|ZP_03012748.1| hypothetical protein BACINT_00298 [Bacteroides intestinalis DSM
           17393]
 gi|189438536|gb|EDV07521.1| hypothetical protein BACINT_00298 [Bacteroides intestinalis DSM
           17393]
          Length = 566

 Score = 36.3 bits (82), Expect = 9.4,   Method: Composition-based stats.
 Identities = 36/339 (10%), Positives = 94/339 (27%), Gaps = 17/339 (5%)

Query: 79  SIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPELLQGWLLSIDVTQRIE 138
                  +L   LG     A   D               D+   +    + +       +
Sbjct: 137 KELKTKNLLLSSLGNIYFDAGYYDKSMEIYETMYECCTTDLEKSIALNNISTYYCLIDEK 196

Query: 139 AICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKEK 198
                      ++         +     +  +  K          L  E++   EL +++
Sbjct: 197 DSTLMFQREALNYAIASG--DSLQIAMSKHNLSLKFDNFNELDSALYYEKMALKELPQKE 254

Query: 199 KQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILS 258
                 + +   L    K KDS + ++    +   ++   + +  L     +  +    +
Sbjct: 255 NHGNCYFNLGDLLLKTGKNKDSALYYLTKALEDVPIESKASCLKSLYNLEKENGDYKTAN 314

Query: 259 LSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIITS 318
                        ++    +S E  Q++       R  + Q   +      +     I  
Sbjct: 315 TYLEEHS--AIIDSLFYMEQSTEIQQLIYEYNTKMRVREEQLKGKRTIHRTIAGFVSICF 372

Query: 319 AYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKF--EDVKRLPVLVPPIKEQF 376
             +    + I+        R   +   +       +  L      ++   +++  + +Q 
Sbjct: 373 LIILAYQNYIN--------RKKRIQLQYKQSLEQTQNKLSSLETTIENNQLMI-TLLKQE 423

Query: 377 DITNVINVETARIDVLVEKIEQSIVLLKERRSSFIAAAV 415
              N++  E    +  +E+ EQ+I  LKE +   +    
Sbjct: 424 Q--NILKQEHENKEQQIEEREQAIARLKEEKQQLLHWLF 460


>gi|296004694|ref|XP_966179.2| cell division cycle protein 48 homologue, putative [Plasmodium
           falciparum 3D7]
 gi|225631753|emb|CAG25009.2| cell division cycle protein 48 homologue, putative [Plasmodium
           falciparum 3D7]
          Length = 828

 Score = 36.3 bits (82), Expect = 9.5,   Method: Composition-based stats.
 Identities = 18/137 (13%), Positives = 38/137 (27%), Gaps = 7/137 (5%)

Query: 28  VPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKYLPKDGNSRQSDTSTVSIFAKGQIL 87
           V +     + +      GK I  + ++D   G  K    +   +     +     KG + 
Sbjct: 97  VCLGDVVYVKSCPEIPYGKKIQVLPIDDTIEGLAKDTLFEIFLKPYFNESYRPVKKGDLF 156

Query: 88  YGKLGPYLRKAII----ADFDGICSTQ---FLVLQPKDVLPELLQGWLLSIDVTQRIEAI 140
             + G    +  +     D   I S     +    P     E     +   D+    + +
Sbjct: 157 LVRGGFMSVEFKVVEVDPDDFCIVSPDTVIYYEGDPIKRDDEEKLDEIGYDDIGGCKKQL 216

Query: 141 CEGATMSHADWKGIGNI 157
            +   M     +  G  
Sbjct: 217 AQIREMIELPLRHPGLF 233


>gi|290993432|ref|XP_002679337.1| serine/threonine protein kinase [Naegleria gruberi]
 gi|284092953|gb|EFC46593.1| serine/threonine protein kinase [Naegleria gruberi]
          Length = 1839

 Score = 36.3 bits (82), Expect = 9.5,   Method: Composition-based stats.
 Identities = 31/221 (14%), Positives = 72/221 (32%), Gaps = 22/221 (9%)

Query: 207 VTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLIESNILSLSYGNIIQ 266
            +  L  D  ++ +  E V  + +H E             K  +   +  L   +    Q
Sbjct: 78  FSSILFADTPVRGTESEAVAKLTNHVENMKLELDTWRSLYKELQTKHTARLENIFREQKQ 137

Query: 267 KLETRNMGLKPESYETYQIVDPGEIVFR----------FIDLQNDKRSLRSAQVMERGII 316
           + E      + +   + + V     V                  +   + + ++ E+ I 
Sbjct: 138 REEEIRQKYEEDKSLSQKGVSKASFVIMTDMKNLLYLFKHQNIENVYEMVNTEINEKDIA 197

Query: 317 TSAYMAVKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLK--FEDVKRLPVLV----- 369
           +  ++ +       T L  + +S    K        L QSL+   E +++    +     
Sbjct: 198 SDQFICIYKEF--KTALFNIFKSISTEKHINKEHHTLVQSLRVEKEKLEKELFTLKQSVD 255

Query: 370 --PPIK-EQFDITNVINVETARIDVLVEKIEQSIVLLKERR 407
             P  + EQ  I  +     ++I+ + +K  +    +KE +
Sbjct: 256 IGPSHEHEQEKIHELHEEYASKIEEMEQKNYKLESQVKELK 296


>gi|58616448|ref|YP_195577.1| Type I restriction enzyme (modification subunit) [Azoarcus sp.
           EbN1]
 gi|56315910|emb|CAI10553.1| Type I restriction enzyme (modification subunit) [Aromatoleum
           aromaticum EbN1]
          Length = 594

 Score = 36.3 bits (82), Expect = 9.5,   Method: Composition-based stats.
 Identities = 15/118 (12%), Positives = 41/118 (34%), Gaps = 6/118 (5%)

Query: 258 SLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVMERGIIT 317
            +   ++ +    RN   +         + P +I+         K  +    + E  +  
Sbjct: 430 EVGVPDLPEYGYIRNPQKRVRLEALKNALRPLDILISVKGSVG-KVGIVPPDLDETWVAG 488

Query: 318 SAYMAVKP----HGIDSTYLAWLMRSYDLCKVFYAMGSGL-RQSLKFEDVKRLPVLVP 370
            + + ++     H     +L   +RS         + SG     ++  ++++L V++P
Sbjct: 489 QSCLILRRRDGAHLHRPHFLLLYLRSAIGKASLERIASGTAVPLIQLRELRKLLVIIP 546


>gi|315618355|gb|EFU98943.1| hypothetical protein EC3431_1530 [Escherichia coli 3431]
          Length = 56

 Score = 36.3 bits (82), Expect = 9.7,   Method: Composition-based stats.
 Identities = 12/34 (35%), Positives = 15/34 (44%), Gaps = 3/34 (8%)

Query: 10 YKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSE 43
          YK + V   G IP+ W  VP     K NT +   
Sbjct: 22 YKLTEV---GVIPEDWDCVPFGNLFKTNTKKKKS 52


>gi|237750238|ref|ZP_04580718.1| predicted protein [Helicobacter bilis ATCC 43879]
 gi|229374132|gb|EEO24523.1| predicted protein [Helicobacter bilis ATCC 43879]
          Length = 146

 Score = 36.3 bits (82), Expect = 9.7,   Method: Composition-based stats.
 Identities = 9/89 (10%), Positives = 27/89 (30%), Gaps = 9/89 (10%)

Query: 23  KHWKVVPIKRFTKLNTGRTSESGK----DIIYIGLEDVE-----SGTGKYLPKDGNSRQS 73
           + W+ V +    ++ + +     +     I +   +++      +     L  D N    
Sbjct: 29  EQWQEVRLGEVAEITSSKRIFYSEYVEYGIPFYRSKEIIEFSKGNNPQNELFIDENKYND 88

Query: 74  DTSTVSIFAKGQILYGKLGPYLRKAIIAD 102
             +   +     IL   +G      ++  
Sbjct: 89  IANKFGVPQANDILLTSVGTLGIPYLVPK 117


  Database: nr
    Posted date:  May 22, 2011 12:22 AM
  Number of letters in database: 999,999,966
  Number of sequences in database:  2,987,313
  
  Database: /data/usr2/db/fasta/nr.01
    Posted date:  May 22, 2011 12:30 AM
  Number of letters in database: 999,999,796
  Number of sequences in database:  2,903,041
  
  Database: /data/usr2/db/fasta/nr.02
    Posted date:  May 22, 2011 12:36 AM
  Number of letters in database: 999,999,281
  Number of sequences in database:  2,904,016
  
  Database: /data/usr2/db/fasta/nr.03
    Posted date:  May 22, 2011 12:41 AM
  Number of letters in database: 999,999,960
  Number of sequences in database:  2,935,328
  
  Database: /data/usr2/db/fasta/nr.04
    Posted date:  May 22, 2011 12:46 AM
  Number of letters in database: 842,794,627
  Number of sequences in database:  2,394,679
  
Lambda     K      H
   0.314    0.124    0.337 

Lambda     K      H
   0.267   0.0377    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,742,565,311
Number of Sequences: 14124377
Number of extensions: 147019822
Number of successful extensions: 671933
Number of sequences better than 10.0: 6513
Number of HSP's better than 10.0 without gapping: 3725
Number of HSP's successfully gapped in prelim test: 2788
Number of HSP's that attempted gapping in prelim test: 650279
Number of HSP's gapped (non-prelim): 13934
length of query: 426
length of database: 4,842,793,630
effective HSP length: 142
effective length of query: 284
effective length of database: 2,837,132,096
effective search space: 805745515264
effective search space used: 805745515264
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 82 (36.3 bits)